brevoortia tyrannus) stock structure a thesisweb.vims.edu/library/theses/lyncha08.pdfa molecular...

240
A Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure ____________ A Thesis Presented to The Faculty of the School of Marine Science The College of William and Mary in Virginia In Partial Fulfillment Of the Requirements for the Degree of Master of Science ____________ by Abigail J. Lynch 2008

Upload: vuongxuyen

Post on 28-Feb-2019

217 views

Category:

Documents


0 download

TRANSCRIPT

Page 1: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

A Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure

____________

A Thesis

Presented to

The Faculty of the School of Marine Science

The College of William and Mary in Virginia

In Partial Fulfillment

Of the Requirements for the Degree of

Master of Science

____________

by

Abigail J. Lynch

2008

Page 2: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

ii

APPROVAL SHEET

This thesis is submitted in partial fulfillment of

the requirements for the degree of

Master of Science

_________________________ Abigail J. Lynch

Approved by the Committee, July 21, 2008

_________________________

John E. Graves, Ph.D. Committee Chairman/Advisor

_________________________ Jan R. McDowell, Ph.D.

_________________________ Robert J. Latour, Ph.D.

_________________________ John M. Brubaker, Ph.D.

Page 3: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

iii

TABLE OF CONTENTS

Page

ACKNOWLEDGMENTS……………………………………………..……………….....v

LIST OF TABLES……………………………………………………………………......vi

LIST OF FIGURES……………………………………………………………………..viii

ABSTRACT……………..…………………………………….…………………………..2

INTRODUCTION………………… …...………………………………………...............3

“The Most Important Fish in the Sea”………………………….……...………....6

Atlantic Menhaden Stock Structure Analyses………...……….…...……………...8

Clupeiform Genetic Stock Structure Analyses………………….……...………...10

PROJECT OBJECTIVES………………………………………………………………..15

MATERIALS AND METHODS…………………………………………………....…...18

Sample Collection………………………………….………………………….....19

Molecular Markers………………………………………………………………19

Extraction and Amplification……………………….…………………...……….20

Nuclear Cloning………………………………………………………………….21

Sequence Analysis………………………………….………………….…..……..22

Microsatellite Analysis……………………….………………………..………....23

Descriptive Statistics……………………………………………………………..23

Genetic Relationships............................................................................................25

Population Structure..............................................................................................27

RESULTS………………………………………………………………………………..29

Evaluation of Mitochondrial Gene Region Variability……………………...…...30

Cytochrome c Oxidase Subunit 1………………………………………………...31

Internal Transcribed Spacer 1…………………………………………………...34

Microsatellites……………………………………………………………………34

Analysis of Molecular Variance ………………………………….…...…………35

Page 4: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

iv

DISCUSSION……………………………………………………………………………38

Molecular Markers……………………………………………………………….39

Species Identification……………………………………………...………….….40

Phylogeography………………………………………...……….……………….47

Population Structure…………………………………………………….…...…..49

Implications for Management…………………………………………....………53

LITERATURE CITED………………………………………………….…………….....97

APPENDICES……………………………………………………………………..…...111

VITA……………………………………………………………………………………231

Page 5: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

v

ACKNOWLEDGMENTS

I am sincerely grateful to my advisor, Dr. John Graves, and committee members, Drs. Jan McDowell, Robert Latour, and John Brubaker for their guidance and support. In particular, thanks to Dr. Graves: I appreciate his patience with my struggles and his drive to educate me in a scholarly manner which will motivate me throughout my career and life; to Dr. McDowell: her readiness to share her vast knowledge and aid others is both selfless and inspirational; to Dr. Latour: for the intellectual seed that came to this fruition and for an analytical exposure to quantitative fisheries which I could entirely be lacking with this type of study; and to Dr. Brubaker: for taking on yet another genetics project with an inspiring willingness to appreciate disciplines beyond his own. This project was accomplished with help from many colleagues, friends, and family. For specimen collection, I extend my gratitude to Gary Nelson, Heather Corbett, Patrick Lynch, Troy Tuckey, John Archambault, William Dailey, and Joel Anderson. Anderson and Brian Tarbox also gave me advice on directions in menhaden genetics and primers and Joe Smith helped with scale reading. Many thanks to the grounding (in)sanity of Graves Lab family: Ana Verissimo, Dan Dutton, Dave Portnoy, Emily Chandler, Kirsten Brendtro, Laurie Sorenson, and Melissa Paine. With you all, the countless hours in the lab and office were bearable, informative, and entertaining. I am thoroughly indebted to the lunch bunch, my housemates, classmates, and friends at VIMS: Andre Buchheister, Candi Spier, Chris Magel, Josh Bearman, Justine Woodward, Karen Capossela, Kathleen McNamee, Kelli Milleville, Laura Palomo, Maggie Fagan, Patrick Lynch, and Sally Upton, among many others. VIMS has been a truly irreplaceable experience because of you, your empathy, and your insightful reparté. I am also grateful to Jarrad Kosa and the U.S. Fish and Wildlife Service’s Branch of Fish and Wildlife Management Assistance for their understanding and accommodation of my degree requirements during my fellowship year. Many thanks to all my family and friends, especially my parents, Dennis and Debbie Lynch, my sisters, Nora and Annie Lynch, my grandmothers, Jean Hall and Alfina Lynch, and my aunt and uncle, Grace and Ed Simpson, for their unending encouragement and support of my educational pursuits. Funding for this project was provided by the Virginia Saltwater Recreational Fishing Development Fund (award date: 01 Jan 2007 – 31 Dec 2007).

Page 6: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

vi

LIST OF TABLES

Table Page 1. Microsatellite loci tested in the present study for amplification in Brevoortia specimens………………………………………………57 2. Sequence statistics of Brevoortia specimens based on an initial survey of mitochondrial control region, cytochorme c oxidase subunit I (COI), and internal transcribed spacer 1 (ITS-1) sequence data………….……………….…….62 3. Sequence statistics of Brevoortia specimens based on cytochorme c oxidase subunit I (COI) sequence data by region and overall samples……………………………………………………………63 4. Contingency table testing the independence of geographic representation of two cytochorme c oxidase subunit I (COI) clades of large-scaled Brevoortia specimens.……………………...…………………….64 5. Population statistics of Brevoortia specimens based on 8 microsatellite loci by region and overall samples...……………………………………65 6. Hardy-Weinberg equilibrium test of association at the locus level of Brevoortia specimens for 8 microsatellite loci using the methods of Guo and Thompson (1992)………………..…………….………...67 7. Modifed Cavalli-Sforza chord distances (DA; Nei et al., 1983) and Nei’s standard genetic distances (DST; Nei, 1972) for Brevoortia specimens using seven microsatellite loci…………………………………...69 8. Hierarchical variance partitioning and analysis of molecular variance among Brevoortia specimens based on cytochorme c oxidase subunit I (COI) sequence data………………..…………………….…………………….70 9. Hierarchical variance partitioning and analysis of molecular variance among Brevoortia specimens based on 7 microsatellite loci using number of different alleles (FST)…..…….………...………………………….72 10. Hierarchical variance partitioning and analysis of molecular variance among Brevoortia specimens based on 7 microsatellite loci using sum of squared size difference (RST)…..…….………………...…..………….74

Page 7: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

vii

11. Pairwise FST estimates between Brevoortia specimens based upon 7 microsatellite loci using number of different alleles (FST) ………………………………..…………………………………...76 12. Pairwise FST estimates between Brevoortia specimens based upon 7 microsatellite loci using sum of squared size difference (RST) …………….…………………..…………………………………...77 13. Pairwise ΦST estimates between Brevoortia specimens based upon mitochondrial cytochrome c oxidase subunit I (COI) gene region sequence data………………………………………………………...78 14. Literature values of within-sample microsatellite variation…………………...……79

15. Statistically significant literature values of FST between genetically distinct stocks………………………………………………………80

Page 8: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

viii

LIST OF FIGURES

Figure Page 1. Maps of ranges and sampling locations of North American Brevoortia in the Atlantic Ocean and the Gulf of Mexico……………..……..………….82 2. Unweighted pair group method with arithmetic mean (UPGMA) trees of a preliminary survey of Atlantic menhaden (Brevoortia tyrannus) and gulf menhaden (B. patronus) mitochondrial control region and cytochrome c oxidase subunit I (COI) sequences……………………….…………..83 3. Nucleotide substitution patterns observed in pairwise comparisons of Atlantic menhaden (Brevoortia tyrannus) and gulf menhaden (B. patronus) mitochondrial control region and cytochrome c oxidase subunit I (COI) sequences……………………...……………84 4. Median-joining network of haplotypes showing distinct cytochrome c oxidase subunit I (COI) clades of Atlantic menhaden (Brevoortia tyrannus)………………………………..……………….………85 5. Median-joining network of haplotypes showing distinct cytochrome c oxidase subunit I (COI) clades of large-scaled Brevoortia…..………………………………………………………………...….………86 6. Median-joining network of haplotypes showing distinct cytochrome c oxidase subunit I (COI) clades of North American Brevoortia..…..……………………………………………………………….….………87 7. Median-joining network of Anderson (2007) Brevoortia mitochondrial control region sequences with anomalous specimens from the present study……………………………………………...………...88 8. Maximum likelihood tree of Brevoortia cytochrome c oxidase subunit I (COI) haplotypes using maximum likelihood distances calculated by the HKY + I + Γ model (Hasegawa et al. 1985)………………………..………….…………….…....…...89 9. Bayesian tree of Brevoortia cytochrome c oxidase subunit I (COI) haplotypes using maximum likelihood distances calculated by the HKY + I + Γ model (Hasegawa et al. 1985)…………………………………………..………..……...90

Page 9: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

ix

10. Maximum parsimony tree of Brevoortia cytochrome c oxidase subunit I (COI) haplotypes…...……......……….….…………………………...91 11. Unweighted pair group method with arithmetic mean (UPGMA) tree of an initial survey of Brevoortia internal transcribed spacer 1 (ITS-1) sequences……………….…..…………………….92 12. Allele size ranges of 7 Brevoortia microsatellite loci by sampling regions……..………………………………………………………….……93 13. Unrooted neighbor-joining trees of 7 Brevoortia microsatellite loci using modified Cavalli-Sforza chord distance (DA; Nei et al., 1983) and Nei’s standard genetic distances (DST; Nei, 1972) …………………...………………………………….94 14. Unrooted neighbor-joining trees of 7 large-scaled Brevoortia microsatellite loci using modified Cavalli-Sforza chord distance (DA; Nei et al., 1983) and Nei’s standard genetic distances (DST; Nei, 1972)……………………………………………………….95 15. Spatial representation of genetic relationships between Brevoortia sampling locations based on 7 microsatellite loci...……………..…………..96

Page 10: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

A MOLECULAR ANALYSIS OF ATLANTIC MENHADEN

(BREVOORTIA TYRANNUS) STOCK STRUCTURE

Page 11: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

2

ABSTRACT

Atlantic menhaden is an ecologically and economically important species along the U.S. east coast. As a filter-feeder and key prey fish, it provides a critical link between primary production, phytoplankton, and larger piscivorous predators, such as striped bass, bluefish, and weakfish. The species is also the target of one of the largest commercial fisheries in the country. Menhaden are assessed as a single, coastwide stock, and recent assessments indicate that it is not overfished. However, there is very limited population genetics data to support the assumption of a single stock. Additionally, the recent consolidation of the fishery and localization of harvests within and around Chesapeake Bay have raised concerns over the possibility of ‘localized depletion’ of the species in this area. This study used rapidly evolving molecular markers to examine Atlantic menhaden stock structure along the U.S. Atlantic coast, specifically to determine the potential for the loss of unique genetic variation resulting from concentrated fishing pressure in and around Chesapeake Bay.

Samples were collected from up to three cohorts of Atlantic menhaden (2005, 2006, and 2007 year classes), at four geographic locations along the U.S. Atlantic coast (New England, mid-Atlantic, Chesapeake Bay, and U.S. south Atlantic) in 2006 and 2007. Two independent classes of molecular markers were surveyed: the mitochondrial cytochrome c oxidase subunit I (COI) gene region and seven nuclear microsatellite loci. All markers revealed considerable genetic variation. Hierarchical analyses of molecular variance (AMOVA) and examination of pairwise ΦST, FST, and RST estimates indicate a homogeneous distribution of genetic variation within Atlantic menhaden (all region AMOVAs: ΦST = -0.00873, FST = 0.00515 (FST method), FST = -0.00666 (RST method); p>0.05). The genetic connectivity between the regional collections suggests that concentrated fishing pressure in and around Chesapeake Bay will not result in a significant loss of unique genetic variation.

Page 12: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

INTRODUCTION

Page 13: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

4

Atlantic menhaden (Brevoortia tyrannus Latrobe 1802) is a member of the New

World genus Brevoortia Gill 1861 (Clupeiformes: Clupeidae: Alosinae). The genus

contains five planktivorous species that form large, dense schools in nearshore

environments. The four North American menhadens are divided into two groups: large-

scaled and small-scaled. The large-scaled group includes Atlantic menhaden, distributed

along the Atlantic coast from Indian River, Florida to Nova Scotia, Canada (Whitehead

1985), and gulf menhaden (B. patronus Goode 1879), distributed along the Gulf of

Mexico coast from Florida Bay to the Gulf of Campeche, Mexico (Whitehead 1985)

(Figure 1). The small-scaled group includes yellowfin menhaden (B. smithi Hildebrand

1941), distributed around the Florida peninsula from Beaufort, North Carolina to

Louisiana (Whitehead 1985), and finescale menhaden (B. gunteri Hildebrand 1948),

distributed from Chandeleur Sound, Louisiana to the Gulf of Campeche, Mexico

(Whitehead 1985) (Figure 1). Anderson (2007) used mitochondrial DNA sequence and

nuclear microsatellite data to validate that large-scaled and small-scaled menhadens

comprise two distinct evolutionary lineages.

Identification of Atlantic menhaden can be particularly difficult. They are

sympatric over part of their range with yellowfin menhaden. But, when compared with

yellowfin menhaden, Atlantic menhaden have larger scales with notably longer

pectinations, pale gray fins (as opposed to golden yellow), and a series of spots behind

the large shoulder spot (Bigelow et al. 1963). Atlantic menhaden are also

morphologically similar to gulf menhaden, although their ranges are not believed to

overlap (Bigelow et al. 1963). When compared with gulf menhaden, Atlantic menhaden

are larger, have a less convex body shape, as well as a higher number of predorsal scales,

Page 14: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

5

vertebrae, and ventral scutes (Bigelow et al. 1963). While the mean values of some of

the morphometric and meristic characters are significantly different between the two

species, the ranges of variation are coincident (Dahlberg 1970).

Of the North American Brevoortia, Atlantic menhaden undertake the longest

coastal migrations and have the most temporally and geographically protracted spawning

season (Whitehead 1985). The northward spring migration begins from the

overwintering grounds off Cape Hatteras, N.C. and appears to be triggered by seasonal

ocean temperature changes (Reintjes 1969). The migration distance is age and size

dependent with the older, larger fish migrating further north (Dryfoos et al. 1973,

Quinlan et al. 1999). By summer, Atlantic menhaden are distributed from northern

Florida to Maine (Ahrenholz 1991). Some spawning occurs in the northern part of the

range throughout the summer and continues as the fish migrate southward in September

(Rice et al. 1999). By November, most of the adults have returned to waters off Cape

Hatteras, N.C. Peak spawning is believed to occur in that region during the winter

months (Checkley et al. 1988).

Due in part to their spatially and temporally protracted spawning season, Atlantic

menhaden have the most widely distributed clupeoid larvae in the western North Atlantic,

occurring from Maine to Mexico, from fresh waters (Kendall and Reintjes 1975) to more

than 40 miles offshore (Massmann et al. 1961). The Atlantic coast estuaries within this

range serve as nursery grounds for larval and juvenile Atlantic menhaden. Larvae feed

within six days of fertilization and enter the estuaries and metamorphose after 30 to 90

days (Checkley et al. 1988). Juvenile emigration from the estuarine nursery area is

triggered by the onset of sustained low water temperatures, which is coincident with

Page 15: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

6

autumnal phytoplankton blooms (Friedland and Haas 1988). Tag recoveries suggest that

Atlantic menhaden of differing ages and sizes share the overwintering grounds off Cape

Hatteras (Dryfoos et al. 1973). Large juveniles participate in the northward spring

migration but few age-1 fish are caught north of Delaware Bay and none are caught north

of New Jersey (Nicholson 1972, Kroger and Guthrie 1973). By two years of age, most

fish are mature, migrating adults (Higham and Nicholson 1964). The longevity for

Atlantic menhaden is estimated at 10-12 years, but few fish have been reported to reach

that age (Reintjes 1969).

“The Most Important Fish in the Sea”

While cultural historian H. Bruce Franklin’s (2007) naming of Atlantic menhaden

as “the most important fish in the sea” is a gross hyperbole, Atlantic menhaden do have

major economic and ecological significance. The commercial fishery for Atlantic

menhaden generates over $45 million in annual revenue (Southwick Associates and

Loftus 2006). Atlantic menhaden-dependent recreational fisheries generate $236 million

in annual revenue (Southwick Associates and Loftus 2006). Additionally, Atlantic

menhaden have high ecological value as a forage base and consumer of primary

production (Goldsborough 2006).

The Atlantic menhaden commercial fishery is divided into two components: a

smaller bait fishery and a larger reduction fishery. Bait fishery landings have been

steady, averaging 34,000 metric tons since the mid 1980s, and currently comprise 21% of

total Atlantic menhaden landings (ASMFC 2006). Reduction fishery landings, however,

have progressively declined from peak landings in the 1950s (>600,000 metric tons) to

Page 16: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

7

146,900 metric tons in 2005 (ASMFC 2006). Of the 20 reduction plants once operating

along the U.S. Atlantic coast, only the Reedville, Virginia facility is currently active. The

Reedville fleet ranges from New Jersey to North Carolina waters but focuses its efforts

within Chesapeake Bay and nearby waters. As a result, the proportion of Atlantic

menhaden reduction landings taken from inside Chesapeake Bay has increased from 47%

(1985-1995 average) to 58% (1996-2004 average), although the actual removals from the

Bay have decreased by 28% over the same period (ASMFC 2005). The 2006 total

landings continue the downward trend at 13% less than the previous five year average

(ASMFC 2007). Nonetheless, Atlantic menhaden account for 6% of all U.S. commercial

fishery landings (by weight), making the fishery the fifth largest (by weight) in the

country (NMFS 2005).

Atlantic menhaden are a principal component of the diets of many piscivorous

fishes, including striped bass (Morone saxatilis), bluefish (Pomatomus saltatrix), and

weakfish (Cynoscion regalis), which support large recreational fisheries (Hartman and

Brandt 1995). Economically, the value of these recreational fisheries far surpasses the

value of the traditional reduction Atlantic menhaden fishery. In 2005 alone, the Atlantic

menhaden-dependent recreational fisheries produced $111,507,900 more in Virginia

income than the Atlantic menhaden commercial fishery (Southwick Associates and

Loftus 2006).

In addition to their importance as a prey type, Atlantic menhaden may regulate

water quality. As filter-feeders, Atlantic menhaden remove particulates (plankton and

detritus) from the water column, which may enhance water clarity and mitigate problems

associated with eutrophication (Kemp et al. 2005). Durbin and Durbin (1975) suggested

Page 17: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

8

that large schools of adult Atlantic menhaden can significantly impact local

phytoplankton and zooplankton concentrations. This impact, however, may not be

eutrophication mitigation. Lynch et al. (in review) evaluated the age-specific ingestion

rates of Atlantic menhaden and found that age-1+ menhaden consumed zooplankton and

exhibited no ingestion of phytoplankton. These findings suggest that older menhaden

may, in fact, enhance phytoplankton production (and by proxy eutrophication) by

relaxing grazing pressure.

Atlantic Menhaden Stock Structure Analyses

Though the extensive seasonal migrations of Atlantic menhaden might suggest

that the species comprises one homogeneous population, some widely distributed,

migratory, marine fishes exhibit stock structure (e.g. Atlantic herring, Clupea harengus,

Iles and Sinclair 1982; Atlantic cod, Gadus morhua, Campana et al. 1999). Stocks,

defined as populations with spatial and temporal integrity, respond independently to

fishing pressure (Carvalho and Hauser 1994). They are traditionally differentiated using

tagging, life history, and/or morphometric and meristic data (Carvalho and Hauser 1994).

Stock structure analyses of Atlantic menhaden have proposed as few as one and as many

as three different stocks, principally on the basis of meristics and morphometrics (June

1958, 1965; Sutherland 1963; June and Nicholson 1964; Nicholson 1972, 1978; Dryfoos

et al. 1973; Epperly 1989).

Two populations of Atlantic menhaden, one north and the other south of Long

Island, N.Y., have been suggested on the basis of vertebral counts and transferrin allele

frequencies (June 1958, 1965; Sutherland 1963; Epperly 1989). Sutherland (1963)

Page 18: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

9

hypothesized that mean vertebral number differences between juveniles were associated

with water temperature at spawning time and that they were indicative of reproductive

isolation. June (1965) related the vertebral differences to two discrete groups of Atlantic

menhaden spawners, one occurring in cool, Cape Cod and Long Island waters in the

spring and the other occurring in the warmer, Long Island and North Carolina waters in

the fall. Nicholson (1972), however, refuted claims to a distinct northern population,

citing that the vertebral differences are more likely the result of phenotypic plasticity due

to environmental factors (i.e., water temperature at spawning time) than heritable

characters. Epperly (1989) found allele frequency differences at the transferrin locus to

parallel vertebral count differences and suggested that Atlantic menhaden comprise at

least two stocks.

Based on the presence of two generalized north-south migration tracts, June and

Nicholson (1964) proposed two major population components of Atlantic menhaden, one

occurring north and the other occurring south of Cape Hatteras, N.C. They found small,

sexually mature fish in North Carolina waters in late October and early November, well

before the arrival of the larger, sexually mature fish from the north, as well as spawning

fish off northern Florida in late winter and early spring (June and Nicholson 1964).

Dryfoos et al. (1973) and Nicholson (1978) used tag and recapture methodology to

follow migrations of Atlantic menhaden. The recoveries indicated that Atlantic

menhaden stratify by age and size as they migrate northward from Cape Hatteras, N.C. in

spring and return southward in fall, with the older, larger fish migrating further distances

(Dryfoos et al. 1973, Nicholson 1978). Because of the pattern of tag recoveries, Dryfoos

et al. (1973) and Nicholson (1978) recommended that the Atlantic menhaden resource be

Page 19: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

10

considered a single stock. Citing the phenotypic plasticity of Nicholson (1972) and the

tag returns of Dryfoos et al. (1973) and Nicholson (1978), the Atlantic States Marine

Fisheries Commission regards Atlantic menhaden as one coastwide stock, although the

transferrin results of Epperly (1989) suggest that further genetic study is warranted.

Clupeiform Genetic Stock Structure Analyses

Though little work has been done on Atlantic menhaden, genetic studies have

been used to examine stock structure for other clupeids and engraulids. A genetic stock

is defined as a reproductively isolated unit that is genetically distinct from other units

(Waples 1987). Stocks can be distinguished using a number of different molecular

markers including allozymes, restriction fragment length polymorphisms (RFLPs),

microsatellites, and direct DNA sequences.

Initially, allozymes were the main marker used to describe genetic stocks in

clupeiforms. Allozymes are polymorphic proteins, the alleles of which can be separated

primarily by charge using gel electrophoresis. Allozyme analysis identified three stocks

of northern anchovy (Engraulis mordax) and differentiated Pacific herring (Clupea

pallasi) from the Bering Sea and the eastern North Pacific (Vrooman et al. 1981, Grant

and Utter 1984). Allozyme analysis described panmictic populations of Atlantic herring

(C. harengus), cape anchovy (E. capensis), and bay anchovy (Anchoa mitchilli) (Grant

1984, Jørstad et al. 1991, Grant 1985, Morgan et al. 1995, respectively). The

discriminatory power of allozymes, however, is limited because the evolutionary rate of

the amino acid sequences of most proteins is very low (many changes at the DNA level

Page 20: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

11

do not result in different amino acids) and not all amino acid substitutions result in charge

changes.

Analysis of DNA, which investigates changes at the nucleotide level, provides a

higher level of genetic resolution than analysis of allozymes. While proteins are usually

under intense selective pressure, many regions of DNA are neutral and can mutate with

little functional consequence. Originally, restriction fragment length polymorphism

(RFLP) analyses were used to study DNA variation. In RFLP analysis, restriction

enzymes are used to cut the DNA strand at specific restriction sites, generating fragments

that are separated electrophoretically. Individuals with different RFLP patterns have

different genetic sequences. RFLP studies can be conducted on the entire mitochondrial

genome or an amplified mitochondrial gene region. This process can be extended to

include a suite of restriction enzymes to effectively survey more of a gene region. Avise

et al. (1989) used RFLP analysis of the entire mitochondrial genome to investigate

genetic relationships of Atlantic and gulf menhaden, finding two clades that failed to

resolve the two species. Bowen and Avise (1990) suggested historical isolation and

secondary contact (recent gene flow) between Atlantic and gulf menhaden around the

Florida peninsula as an explanation for the paraphyletic, two-clade structure. In another

RFLP study of clupeids, Hauser et al. (2001) found evidence of genetic differentiation

between Baltic and Celtic Sea Atlantic herring (C. harengus) using the mitochondrial

ND3/4 and ND5/6 regions.

More recently, nuclear microsatellite loci have been favored for investigation of

population structure in clupeids because of their rapid evolutionary rates. Microsatellites,

also known as variable number tandem repeats, are nuclear loci consisting of short

Page 21: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

12

sequence repeats (usually 2-5 nucleotides) which are generally assumed to be selectively

neutral. Alleles with different repeat numbers are created by slip-strand mispairing.

Slip-strand mispairing is a DNA replication error in which a DNA polymerase

disassociates from a repeat and incorrectly rebinds to another repeat on the template

DNA strand. As a result, copies of the repeat are either added to or deleted from the new

strand of DNA. The fast rate of mutation seen in microsatellites can lead to homoplasy,

so they are best suited for intraspecific studies.

The development of suitable microsatellite primers is a time intensive process.

Nonetheless, primers have been characterized for a number of clupeids including: allis

shad (Alosa alosa; Faria et al. 2004), American shad (A. sapidissima; Julian and Bartron

2007), Atlantic herring (McPherson et al. 2001), Pacific herring (O’Connell et al. 1998,

Miller et al. 2001, Olsen et al. 2002), Pacific sardine (S. sagax sagax; Pereyra et al.

2004), and twaite shad (A. fallax; Faria et al. 2004). O’Connell et al. (1998) used

microsatellite analysis to confirm the separation of the Bering Sea and Gulf of Alaska

stocks of Pacific herring. Similarly, Shaw et al. (1999) found significant genetic

structuring between Icelandic summer-spawners, Norwegian spring-spawners, and

Norwegian fjord stocks of Atlantic herring. Microsatellite analysis has also shown

significant genetic differentiation between the donor and recipient populations of

American shad (Pamunkey and James River, respectively), as well as the potential for

outbreeding depression in the restoration program (Brown et al. 2000). Some

microsatellite primers show interspecific amplification. For example, Anderson (2007)

used American shad microsatellite primers to make inferences regarding the relationships

of the North American menhadens.

Page 22: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

13

Direct sequencing of mitochondrial genes provides an independent, high

resolution perspective that complements nuclear microsatellite loci for analysis of

population structure. The mitochondrial genome, with its lack of recombination,

maternal inheritance, and high evolutionary rates, has proven to be an appropriate

molecular character for analysis of intraspecific genetic structure (Avise et al. 1987).

Evolutionary rates, however, are not equivalent throughout the mitochondrial genome

(Cann et al. 1984). The non-coding mitochondrial control region is reported to have a

rate of evolution two to five times higher than that of mitochondrial protein-coding genes

(Meyer 1993).

Of the 13 mitochondrial protein-coding genes, cytochrome c oxidase subunit I

(COI) is considered to be the most conserved in fishes (Meyer 1993). COI codes for the

final electron acceptor protein in the electron transport chain of cellular respiration and is

under intense selective pressure. In fact, COI is emerging as the standard genetic region

to sequence in the Barcode of Life project as a species-specific diagnostic tool for many

taxa (Ratnasingham and Hebert 2007). Yu et al. (2005), surveying cytochrome b and

COI, did not detect genetic structure in the Japanese anchovy (Engraulis japonicus)

between the Yellow and East China seas. Tinti et al. (2002) found no evidence for

genetic stock structure between European pilchards (Sardina pilchardus) from the

Adriatic and Ionian Seas using direct sequencing of a cytochrome b gene fragment. On a

larger scale, Atarhouch et al. (2006) identified genetic differentiation in European

pilchards between the Bay of Biscay and Mediterranean Sea using mitochondrial control

region sequence data. Anderson (2007) used mitochondrial control region sequence data

to validate the large-scaled and small-scaled designations for North American menhadens

Page 23: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

14

but could not resolve the large-scaled sequences to species (Atlantic and gulf menhaden)

using this gene region. García et al. (2008), similarly, found evidence of the existence of

only one species of menhaden, Brazilian menhaden (Brevoortia aurea), and no support

for a second purported species, Argentine menhaden (B. pectinata), in the southwestern

Atlantic using cytochrome b sequences.

Direct sequencing of nuclear gene regions has been used to infer stock structure in

some fishes, but it has not been reported for any clupeiform. While most protein-coding

genes do not evolve at a rate fast enough to make them useful for intraspecific

comparisons, non-coding nuclear gene regions, such as internal transcribed spacer 1

(ITS-1), have fewer selective constraints and a faster evolutionary rate which can be used

to investigate population structure (Avise et al. 1987). ITS-1, which separates the 5.8S

and 18S ribosomal RNA genes, exhibits high variability and a fast rate of mutation

(Jansen et al. 2006). For example, Brendtro et al. (2008) used ITS-1 sequencing data to

determine that four escolar (Lepidocybium flavobrunneum), collected in the Atlantic

Ocean but assigned to the Pacific Ocean using mitochondrial control region sequencing,

were a result of recent rather than historical migration to the Atlantic Ocean.

Page 24: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

PROJECT OBJECTIVES

Page 25: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

16

The genetic basis of stock structure for Atlantic menhaden has not been well

studied. With the recent concentration of the Atlantic menhaden reduction fishery in and

around Chesapeake Bay, it is important to understand the genetic stock structure of the

species. If Atlantic menhaden exhibit significant, genetically-based stock structure, there

will be spatial partitioning of unique genetic variation, and regional fishing pressure

could lead to the loss of unique genetic variation. Depletion of unique genetic variation

may reduce a stock’s ability to respond to shifting environmental pressures because a

portion of the genetic differentiation among fish populations is considered adaptive

(Higgins and Lynch 2001, Ryman 1981).

In this study, analysis of sequence data from the mitochondrial COI gene region

and allele frequencies of seven nuclear microsatellite loci were used to investigate the

temporal and spatial genetic stock structure of Atlantic menhaden and to evaluate the

potential for loss of unique genetic variation resulting from ‘localized depletion’ within

the Chesapeake Bay region. Young-of-the-year (YOY) and yearling (age-1) fish were

sampled over a two year period (2006, 2007) from four regions along the U.S. Atlantic

coast (New England, mid-Atlantic, Chesapeake Bay, U.S. south Atlantic). Gulf

menhaden, finescale menhaden, and yellowfin menhaden were sampled as outgroups.

The following null hypotheses were addressed:

H0,1: There is no genetic difference between YOY menhaden recruiting to

Chesapeake Bay early and late in the season during the same year.

Page 26: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

17

H0,2: There is no genetic difference between YOY and yearling menhaden

collected in Chesapeake Bay in successive years (following the 2006 year class in 2006

and 2007).

H0,3: There is no genetic difference between YOY and yearling menhaden

collected in Chesapeake Bay in the same year.

H0,4: There is no genetic difference among YOY and yearling menhaden

(combined) from four geographic regions along the U.S. Atlantic coast.

H0,5: There is no genetic difference among large-scaled menhaden (B. tyrannus

and B. patronus) from five geographic regions along the U.S. Atlantic coast and Gulf of

Mexico.

Page 27: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

MATERIALS AND METHODS

Page 28: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

19

Sample Collection

YOY and yearling Atlantic menhaden were sampled from throughout the

species’s range in 2006 and 2007. YOY gulf menhaden were sampled from the Gulf of

Mexico in 2006 and 2007 as an outgroup. Collections were grouped into five broad

geographic regions: New England (Massachusetts), mid-Atlantic (New Jersey),

Chesapeake Bay (Virginia), U.S. south Atlantic (South Carolina), and Gulf of Mexico

(gulf, yellowfin, and finescale menhaden) (Figure 1). All menhaden were identified on

the basis of morphological characters and capture location by local experts (New

England: Gary Nelson, Massachusetts Division of Marine Fisheries; mid-Atlantic:

Heather Corbett, New Jersey Division of Fish and Wildlife; Chesapeake Bay: Patrick

Lynch or Troy Tuckey, Virginia Institute of Marine Science; U.S. south Atlantic: John

Archambault, South Carolina Department of Natural Resources; gulf menhaden: William

Dailey, Texas A&M University; yellowfin and finescale menhaden: Joel Anderson,

Texas Parks and Wildlife Department) (Appendix 1). Voucher specimens were retained

from all U.S. Atlantic coast regions in 2007 to corroborate field identifications. Fork

length was measured for each individual to estimate age (Higham and Nicholson 1964,

Lewis et al. 1972, Nicholson 1972) and scale samples were sent to the NOAA Beaufort

Lab / NMFS for independent age assessments. Muscle tissue samples were either frozen

or stored in DMSO buffer (Seutin et al. 1991) at room temperature.

Molecular Markers

For any genetic study, it is important to use a molecular marker with an

evolutionary rate appropriate to the question to be addressed (Lannan et al. 1989). High

Page 29: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

20

levels of genetic variation are often needed to describe stock structure relationships, but

too much polymorphism can be problematic if sample sizes are not sufficiently large. In

these cases, it can be difficult to get precise estimates of genetic relationships because of

an incomplete representation of the total genetic variation. The highly variable

mitochondrial control region is often used for intraspecific studies (McMillan and

Palumbi 1997) but J.D. Anderson (personal communication) suggested that it might be

too variable within Atlantic menhaden and that a more conserved region may prove more

useful to evaluate population structuring. For that reason, a preliminary study was

conducted to survey variation in the highly variable control region and the more

conserved cytochrome c oxidase subunit I (COI). In addition, genetic variation was

evaluated at the nuclear internal transcribed spacer 1 (ITS-1) and 36 nuclear

microsatellite loci were screened for variation within Atlantic menhaden. From the

outcome of these preliminary surveys, COI and seven microsatellites were selected to

characterize all samples.

Extraction and Amplification

Total genomic DNA was extracted from each tissue sample using a Qiagen

DNeasy® Tissue Kit (Qiagen, Valencia, C.A.) following the manufacturer’s protocol.

The mitochondrial control region, COI, ITS-1, and eight microsatellite loci (Asa2, Asa4,

Asa16, Brown et al. 2000; Aa16, Faria et al. 2004; AsaB020, AsaC334, AsaD055, Julian

and Bartron 2007; SarBH04, Pereyra et al. 2004), were amplified using the polymerase

chain reaction (PCR) (Table 1, Appendices 2, 3).

Page 30: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

21

Ten μL sequencing reactions were amplified by PCR. Five μL of each PCR

amplification product were run on a 1% agarose gel, stained with ethidium bromide, and

visualized under UV light to verify that a single fragment of the correct size was

amplified. The remaining 5μL of the mitochondrial amplification was purified for

sequencing using column filtration with a QIAquick® PCR purification kit (Qiagen)

following the manufacturer’s protocol.

Nuclear Cloning

Diploid organisms have two copies of the nuclear genome, one from each parent.

While both can be amplified simultaneously using PCR, sequencing can only read one

copy at a time. As a result, ITS-1 PCR products were cloned to separate the two alleles

before sequencing. One μL of the nuclear product was cloned into a plasmid vector using

the TOPO-TA plasmid cloning system (Invitrogen Corporation, Carlsbad, C.A.) prior to

sequencing. Fresh PCR product was ligated into the ampicillin resistant TOPO 2.1

plasmid vector with a lacZ gene and transformed into competent TOP10F’ Escherichia

coli bacterial cells using the manufacturer’s One Shot Chemical Transformation protocol.

The E. coli cells were then plated on Luria-Bertani (LB) agar plates containing ampicillin

(5μg/mL), an antibiotic, and 40μL 5-bromo-4-chloro-3-indolyl-β-D-galactopyranoside

(X-gal) (40mg/mL), an indicator of lacZ expression, and grown up overnight at 37oC.

Ampicillin ensured that only E. coli cells with the ampicillin resistant vector grew on the

plates. The X-gal differentiated the colonies containing the recombinant plasmid (a non-

functional lacZ gene = white colonies) from colonies without the insert (a functional lacZ

gene = blue colonies). DNA was extracted from only the recombinant colonies via cell

Page 31: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

22

lysis through boil preparation (Sambrook and Russell 2001) and amplified in a 10μL

reaction using M13 primers designed to flank the vector insert region. To verify that the

insert of the correct size was recovered, 5μL of the cloned PCR amplification product

was run on a 1% agarose gel, stained with ethidium bromide, and visualized under UV

light. The remaining 5μL of cloned elutant was purified using column filtration with

QIAquick® PCR purification kit (Qiagen) following the manufacturer’s protocol.

Sequence Analysis

The concentration of each purified ITS-1 cloned PCR product and direct

mitochondrial PCR product was measured using a BioMateTM 3 Series UV

Spectophotometer (Thermo Spectronic, Madison, W.I.) prior to sequencing. PCR

products were prepared for sequencing using the ABI PRISM® Big DyeTM Terminator v

3.0 Cycle Sequencing Kit (Applied Biosystems, Foster City, C.A.) at a 1:8 dilution of the

manufacturer’s protocol and subsequently sequenced on an 80cm capillary ABI PRISM®

3130xl Genetic Analyzer (Applied Biosystems). Samples were sequenced in the forward

and reverse direction and 20% of samples were re-analyzed from DNA extraction

through sequencing.

The chromatographic curves for each 80cm capillary sequence (control region,

COI, ITS-1) were analyzed using Sequencing Analysis software v 5.2 (Applied

Biosystems), edited using Sequencher 4.7.2 (Gene Codes Corp., Ann Arbor, M.I.), and

aligned using the ClustalW algorithm (Thompson et al. 1994) for multiple alignments in

MacVector 9.0.1 (MacVector Inc., Cary, N.C.).

Page 32: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

23

Microsatellite Analysis

Microsatellite loci were PCR amplified with locus-specific fluorescent labels.

Following amplification, 1μL of PCR product for each locus was combined with PCR

products from three other unique locus/fluorescent label combinations (4μL total), 6μL

formamide, and 0.3μL 500 Liz Gene Scan Size standard (Applied Biosystems). The

reaction mixture was denatured at 95oC for 10 minutes prior to sequencing on a 36cm

capillary ABI PRISM® 3130xl Genetic Analyzer (Applied Biosystems) according to the

manufacturer’s protocol.

The chromatic peaks for each microsatellite sequence were scored using

GeneMarker AFLP/Genotyping Software v 1.60 (SoftGenetics, State College, P.A.).

Once scored, MicroChecker 2.2.3 (Van Oosterhout et al. 2004) was used to check for the

presence of null alleles and evidence of scoring errors. To ensure consistency, 20% of

samples were re-analyzed from DNA extraction through allele scoring.

Descriptive Statistics

Once aligned, the mitochondrial sequences were characterized in Arlequin 3.11

(Excoffier et al. 2005) to determine the following: number of haplotypes (Nh); number of

polymorphic sites (S), variable base pair (bp) locations within a sequence set; number of

transitions (Ts), point mutations from either a purine to a purine (A↔G) or a pyrimidine

to a pyrimidine (C↔T); number of transversions (Tv), point mutations from a purine to a

pyrimidine (A or G→C or T) or a pyrimidine to a purine (C or T→A or G); and number

of indels (insertions to or deletions from a sequence). The amount of sequence variation

for each mitochondrial gene region within each collection was estimated in Arlequin 3.11

Page 33: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

24

(Excoffier et al. 2005) using the following diversity indices: haplotype diversity (h, the

probability that two randomly chosen haplotypes [gene sequences] are different),

nucleotide sequence diversity (π, the mean sequence divergence between two randomly

chosen haplotypes), and mean number of pairwise differences (k, the mean number of bp

differences between two randomly chosen haplotypes). Net nucleotide sequence

divergence (δ, number of net nucleotide substitutions per site between populations) was

calculated in MEGA 4.1 (Tamura et al. 2007) using the Kimura two-parameter model

(Kimura 1981). For the microsatellite data, Genepop 3.4 (Raymond and Rousset 1995)

was used to determine observed heterozygosity (HO) and expected heterozygosity (HE);

Arlequin 3.11 (Excoffier et al. 2005) was used to determine allelic diversity (A; number

of alleles per locus), and Microsatellite Analyzer (MSA) (Dieringer et al. 2003) was used

to determine the allele size range (a.s.r.). The amount of microsatellite variation within

each collection was estimated in FSTAT 2.9.3.2 (Goudet 1995) using the following

indices: allelic richness (Rs; number of alleles per locus, corrected for sample size) and

gene diversity (D; heterozygosity). To determine if the distribution of microsatellite

genotypes conformed to the expectations of Hardy-Weinberg equilibrium for each locus

at each collection location, three separate tests (probability, heterozygote deficiency, and

homozygote deficiency) following the methods of Guo and Thompson (1992) are

available in Genepop 3.4 (Raymond and Rousset 1995) and can be adjusted for multiple

testing using sequential Bonferroni correction (Rice 1989). All three tests share the

same null hypothesis (random distribution of alleles) and differ in their alternative

hypotheses. The probability test is a two-tailed test with the p-value corresponding to the

sum of random allelic counts with the same or lower probability. If the null hypothesis

Page 34: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

25

for the probability test was rejected, more powerful one-tailed heterozygote excess and

deficiency tests (in which the p-value considers only one end of the distribution) were

performed.

Genetic Relationships

To initially visualize genetic relationships among aligned mitochondrial and

nuclear sequences, unweighted pair group method with arithmetic mean (UPGMA) trees,

based on nucleotide base pair similarity matrices, were constructed in MacVector 9.0.1

(MacVector Inc.). To investigate the possibility of mutational saturation, graphs of

nucleotide substitution vs. genetic distance (overall and by third codon position) were

constructed for mitochondrial control region and COI sequences in DAMBE (Xia and

Xie 2001).

Phylogenetic trees are used describe the genetic relationships among species. A

maximum parsimony tree was constructed for all mitochondrial COI sequences and nodal

support was assessed with bootstrapping resampling (Felsenstein 1985) of 100

pseudoreplicates, 10 random addition sequences, with TBR branch swapping algorithm.

The most appropriate nucleotide substitution model for the region was determined from a

series of 56 likelihood ratio tests executed in ModelTest 3.7 (Posada and Crandall 1998).

The accumulation of nucleotide substitutions is only roughly linear with time shortly after

a divergence event (Sullivan and Joyce 2005). The cause of deviation from linearity,

however, is not the same in all cases. As a result, a number of different models have

been developed to explain the deviations. ModelTest 3.7 (Posada and Crandall 1998)

matches a dataset with the model that best fits its nucleotide substitution pattern

Page 35: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

26

according to two sets of criteria: hierarchical likelihood ratio tests and Akaike’s

Information Criterion. The selected model was used in PAUP* 4.0 (Swofford 2000) to

produce maximum likelihood and Bayesian analysis trees (Mr. Bayes; Huelsenbeck and

Ronquist 2001). Support of the maximum likelihood internal branches was tested using

bootstrap resampling (Felsenstein 1985) of 10 pseudoreplicates, 10 random addition

sequences, with TBR branch swapping algorithm.

For intraspecific comparisons, networks more accurately describe genetic

relationships than phylogenetic trees because internal nodes are often extant in population

level studies (Bryant and Moulton 2002). With a tree, an internal node is a theoretical

representation of a common ancestor (no longer extant) between sampled taxa. With a

network, mutations generally occur from the most common, interior haplotypes (still

extant). Rarer haplotypes, as a result, are more likely to be related to these common

haplotypes than to each other. Median-joining networks for COI and control region

haplotypes were drawn in Fluxus 4.2.0.1 (Bandelt et al. 1999) to investigate population-

level relationships.

Genetic relationships among collection locations based on microsatellite loci data

were represented spatially in Genetix 4.04 (Belkhir et al. 2000) and estimated by

constructing neighbor-joining trees using modified Cavalli-Sforza chord distances (DA;

Nei et al. 1983) and Nei’s standard genetic distances (DST; Nei 1972) calculated in

Microsatellite Analyzer (MSA) (Dieringer et al. 2003). DA is one of the most efficient

distance measures for tree topology construction; DST is considered more suitable than

other distance measures for branch length estimation (Takezaki and Nei 1996).

Page 36: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

27

Population Structure

A hierarchical analysis of molecular variance (AMOVA) was used to test for

population structure using mitochondrial COI sequencing data and nuclear microsatellite

loci data. The AMOVA partitions genetic variance into covariant components at

predefined levels (individual, sub-region, and region). The fixation indices, ΦST for

haplotypes and FST or RST for microsatellites, are measures of population subdivision

(Excoffier et al. 1992). AMOVA calculations based on microsatellite genotypic data

were analyzed using two different distance methods: FST (Weir and Cockerham 1984),

based on the distribution of number of different alleles (not considering relationships

among alleles), and RST (Slatkin 1995), based on the distribution and relationship of

alleles (sum of squared allele size differences). The RST algorithm is generally considered

only appropriate as a measure for microsatellite data when sample sizes are equal or

larger than 50 (Ruzzante 1998). The AMOVAs, conducted in Arlequin 3.11 (Excoffier et

al. 2005), partitioned variation across designated groupings: between recruitment times

within an age class at a location (eg., 2007 YOY menhaden in Chesapeake Bay), between

years within an age class at a location (eg., the 2006 year class in Chesapeake Bay in

2006 and 2007), between age classes within a region (eg., YOY and yearling menhaden

in Chesapeake Bay in 2007), among Atlantic coast regions (eg., New England, mid-

Atlantic, Chesapeake Bay, U.S. south Atlantic), among large-scaled regions (eg., New

England, mid-Atlantic, Chesapeake Bay, U.S. south Atlantic, Gulf of Mexico), and

between putative species (eg., Atlantic and gulf menhaden). Estimates of population

pairwise ΦST and FST/RST were calculated in Arlequin 3.11 (Excoffier et al. 2005) as a

Page 37: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

28

measure of genetic distance between individual groupings and adjusted for multiple tests

using sequential Bonferroni correction (Rice 1989).

Page 38: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

RESULTS

Page 39: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

30

Evaluation of Mitochondrial Gene Region Variability

To determine which mitochondrial gene region would be appropriate to evaluate

Atlantic menhaden population structure, a 535bp fragment of the mitochondrial control

region and a 459bp fragment of cytochrome c oxidase subunit I (COI) were sequenced

for 28 individuals in a preliminary study. The mitochondrial control region fragment

contained 63 polymorphic sites, 55 transitions, 16 transversions, and 1 indel (Table 2).

Of the 28 menhaden sequenced, the control region produced 27 haplotypes, an overall

haplotype diversity (h) of 0.997, and a mean nucleotide sequence diversity (π) of 0.0326.

The COI fragment contained 44 polymorpic sites, 41 transitions, 8 transversions, and no

indels (Table 2). Of the 28 menhaden sequenced, COI produced 20 haplotypes, an

overall haplotype diversity (h) of 0.960, and a mean nucleotide sequence diversity (π) of

0.0267. The haplotype diversity estimate for COI was high, but not as elevated as the

control region estimate. Both gene regions revealed similar patterns of intraspecific

relationships (Figure 2).

Mutational saturation curves lend some support to the hypothesis that the control

region may be at risk of homoplasy. The rate of transitions appears to plateau and the

rate of transversions approaches that of transitions for the control region data but the

evidence is less substantial for COI (Figure 3). Based on this qualitative preliminary

analysis, COI was chosen as the mitochondrial marker for this study and all samples were

surveyed for this gene region.

Page 40: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

31

Cytochrome c Oxidase Subunit 1

The COI fragment was sequenced for 339 individuals (Atlantic menhaden, n =

289, gulf menhaden, n = 50). The fragment contained 99 polymorphic sites overall (97 in

Atlantic menhaden: 5 first codon positions, 1 second codon position, and 91 third codon

positions), 101 transitions (99 in Atlantic menhaden), 7 transversions (6 in Atlantic

menhaden), and produced 124 haplotypes (109 in Atlantic menhaden) (Table 3).

Haplotype diversity (h) estimates for the Atlantic menhaden sampling locations ranged

from 0.932 to 0.956, with an overall (pooled) estimate of 0.941. Mean nucleotide

sequence diversity (π) estimates for Atlantic menhaden sampling locations ranged from

0.0258 to 0.0295, with an overall (pooled) estimate of 0.0274. The mean number of

pairwise differences (k) ranged from 11.8 to 13.5, with an overall (pooled) estimate of

12.6.

The median-joining network for the 109 COI Atlantic menhaden haplotypes

showed two extensive star-shaped clusters (clades) separated by 17 nucleotide changes

with one minor exterior grouping of three anomalous samples separated by 24

nucleotides (Figure 4). A contingency table of Atlantic coast sampling locations

indicated that the two primary clades were equally represented along the U.S. Atlantic

coast (x2 = 0.478; 815.723,05.0 =x ; p>0.05; Table 4).

For the combined large-scaled menhadens, haplotype diversity (h) estimates

ranged from 0.879 to 0.956, with an overall (pooled) estimate of 0.940. Mean nucleotide

sequence diversity (π) estimates for Atlantic and gulf menhaden sampling locations

ranged from 0.0071 to 0.0295, with an overall (pooled) estimate of 0.0258. The mean

Page 41: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

32

number of pairwise differences (k) ranged from 3.24 to 13.5, with an overall (pooled)

estimate of 11.8.

The median-joining network for all 124 Atlantic and gulf COI haplotypes showed

the same star-shaped phylogeny (Figure 5). Clade I, the “ubiquitous large-scaled” clade,

was composed of all gulf menhaden samples and 64% of Atlantic menhaden samples.

Clade II, the “Atlantic-only” clade, comprised 35% of Atlantic menhaden samples.

Clade III, the anomalous samples, comprised the remaining 1% of Atlantic menhaden.

Adding samples from the small-scaled menhadens, the COI fragment was

sequenced for a total of 389 individuals (Atlantic menhaden, n = 289, gulf menhaden, n =

50, yellowfin menhaden, n = 25, finescale menhaden, n = 25). The fragment contained

105 polymorphic sites, 107 transitions, 7 transversions, and produced 145 haplotypes

(Table 3). Haplotype diversity (h) estimates for the sampling locations across all four

species ranged from 0.879 to 0.956, with an overall (pooled) estimate of 0.952. The

overall (pooled) estimate of mean nucleotide sequence diversity (π) estimates across all

species was 0.033. The overall (pooled) estimate of mean number of pairwise differences

(k) was 15.2.

The median-joining network for all 145 COI haplotypes showed three extensive

star-shaped clusters (clades) separated by 15 and 22 nucleotide changes, respectively

(Figure 6). Clade I, the “ubiquitous large-scaled” clade was composed of all gulf

menhaden samples, 64% of the Atlantic menhaden samples, and 12% of the yellowfin

menhaden samples. Clade II, the “Atlantic-only” clade, was composed of 35% of the

Atlantic menhaden samples, 16% of the yellowfin menhaden samples, and 16% of the

finescale menhaden samples. Clade III, the “small-scaled” clade, was composed of 1%

Page 42: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

33

of the Atlantic menhaden samples (the anomalous samples), 72% of the yellowfin

menhaden samples, and 84% of the finescale menhaden samples. The three anomalous

Atlantic menhaden were further sequenced for the mitochondrial control region to test for

possible misidentification. The control region sequences for these individuals were

included in a network with North American Brevoortia control region sequences from

Anderson (2007). The median-joining network of 214 haplotypes showed the same three

extensive star-shaped clusters as COI in this study: the “ubiquitous large-scaled” clade,

the “Atlantic-only” clade, and the “small-scaled” clade (Figure 7). However, using

control region, the anomalous sequences clustered with the large-scaled clades.

To assess the evolutionary relationships among all COI haplotypes, hierarchical

likelihood ratio tests were performed in ModelTest 3.7 (Posada and Crandall 1998). The

analysis selected the HKY+I+Γ model (k = parameter estimates = 6; Hasegawa et al.

1985) and Akaike’s Information Criterion selected the K81+I+Γ model (k = 4; Kimura

1981) as the most appropriate of the 56 nucleotide substitution models. Because

simulation studies have shown that overparameterization is less of a problem than

underparameterization for estimating nucleotide substitution (Huelsenbeck and Rannala

2004), the HKY+I+Γ model was used in this analysis. This model assumes a time-

reversible mutational process, a non-uniform distribution of nucleotides, and different

rates for transitions and transversions. Both maximum likelihood and Bayesian trees,

using the HKY+I+Γ model, produced geographically unresolved structures (Figure 8, 9).

Likewise, a maximum parsimony representation of the COI haplotypes produced no

discernable structure among the species (Figure 10).

Page 43: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

34

Internal Transcribed Spacer 1

The two genetically divergent clades of Atlantic menhaden haplotypes evident in

the mitochondrial COI sequence analysis could be the result of the presence of two

sympatric subspecies (or species) or the result of historical isolation and subsequent

mixing. To distinguish between these phylogeographic hypotheses, a 500bp fragment of

ITS-1, a biparentally-inherited nuclear marker, was sequenced to provide a nuclear

perspective with which to compare the phylogeographic structure inferred from analysis

of COI sequences. Sixty clones from 12 individuals, representative of both mitochondrial

clades, were sequenced. Of the 60 sequences, there were 45 haplotypes resulting in a

haplotype diversity (h) of 0.979, nucleotide sequence diversity (π) of 0.0183, and a mean

pairwise difference (k) of 10.2 nucleotides (Table 2). The median-joining network of the

cloned nuclear ITS-1 sequences differed considerably from the distinct two clade

mitochondrial structure and revealed no discernable structure among the putative species

(Figure 11).

Microsatellites

Eight microsatellite loci, Aa16, Asa2, Asa4, Asa16, AsaB020, AsaD055,

AsaC334, SarBH04, were amplified for the entire dataset (Atlantic menhaden, n = 289,

gulf menhaden, n = 50, yellowfin menhaden, n = 25, finescale menhaden, n = 25). For

the eight loci, sample allelic diversity (A) ranged from 1 to 21 alleles; the allelic richness

(Rs) ranged from 1.00 to 15.1; and the gene diversity (D, heterozygosity) ranged from

0.000 to 0.938 (Table 5). Allele size ranges were similar for B. tyrannus and B. patronus

(Figure 12). The genotypic distribution of all loci, except Asa16, conformed to the

Page 44: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

35

expectations of Hardy-Weinberg equilibrium. The locus Asa16, produced a statistically

significant result in the probability test and subsequently the heterozygote deficiency test,

suggesting the presence of a null allele (a mutation in a primer binding site that results in

non-amplification of an allele) (Table 6). The Microchecker analysis which examined

the potential for scoring errors, large allele dropouts, and null alleles also indicated a

heterozygote deficiency for Asa16. This locus was not included in any of the population

structure analyses.

The genetic distance between sampling regions was estimated using two different

methods. Nei’s standard genetic distances (DST; Nei 1972) ranged from -0.0066 between

the U.S. south Atlantic and New England to 0.844 between B. smithi and B. patronus

(Table 7). Modified Cavalli-Sforza chord distances (DA; Nei et al. 1983) ranged from

0.152 between the U.S. south Atlantic and Chesapeake Bay to 0.714 between B. smithi

and B. patronus (Table 7). The neighbor-joining trees based on Nei’s standard genetic

distance (DST; Nei 1972) and modified Cavalli-Sforza chord distance (DA; Nei et al.

1983) of microsatellite data separate the four North American menhaden species but do

not show evidence of population structure within Atlantic menhaden (Figure 13, 14, 15).

Analysis of Molecular Variance

The AMOVAs of COI haplotype data and microsatellite genotype data were

performed to evaluate the temporal and spatial partitioning of genetic variation within

Atlantic menhaden. The mitochondrial (ΦST) AMOVA between early and late recruiting

2007 YOY in Chesapeake Bay attributed -0.62% (p = 0.69) of the variance to differences

in recruitment time (Table 8). The microsatellite (FST and RST) AMOVAs attributed

Page 45: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

36

-0.41% (p = 0.743) and 1.27% (p = 0.246) of the variance, respectively, to differences in

recruitment early or late in the season (Tables 9, 10).

The mitochondrial (ΦST) AMOVA between 2006 YOY and 2007 yearling

menhaden collected in Chesapeake Bay attributed -2.95% (p = 1.00) of the variance in

the 2006 year class to sampling in successive years (Table 8). The microsatellite (RST)

AMOVA attributed -0.828% (p = 0.730) of the variance to sampling in successive years

(Table 10). The microsatellite (FST) AMOVA, on the other hand, produced significant

results, attributing 1.80% (p = 0.0176) of the variance to differences within a cohort in

Chesapeake Bay in successive years (Table 9).

The mitochondrial (ΦST) AMOVA between YOY and yearling menhaden

collected in Chesapeake Bay in 2006 and also between YOY and yearling menhaden

collected in Chesapeake Bay in 2007 attributed -0.77% (p = 0.96) and -0.66% (p = 0.97)

of the variance, respectively, to differences between cohorts (Table 8). The microsatellite

(FST and RST) AMOVAs attributed 1.06% (p = 0.0929), and -0.923% (p = 0.678) of the

variance, respectively, between YOY and yearling menhaden in Chesapeake Bay in 2006.

Likewise, the (FST and RST) AMOVAs attributed 0.0052% (p = 0.160), and 0.389% (p =

0.580) of the variance, respectively, between YOY and yearling menhaden collected in

Chesapeake Bay in 2007 (Tables 9, 10).

The mitochondrial (ΦST) AMOVA among samples of YOY and yearling

(combined) menhaden from four geographic regions along the U.S. Atlantic coast (New

England, mid-Atlantic, Chesapeake Bay, and U.S. south Atlantic) attributed -0.87% (p =

1.00) of the variance to sampling location (Table 8). The RST AMOVA attributed

Page 46: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

37

-0.0665% (p = 0.634) of variation due to sampling location (Table 10). The

microsatellite FST AMOVA, however, produced significant results, attributing 0.575% (p

= 0.000) of variation to sampling location (Table 9). An examination of alternate

groupings (northern and southern sampling locations) with the FST AMOVA also

produced significant results (0.00535%, p = 0.00098). No (FST and RST) pairwise

comparisons, however, revealed statistically significant variation between any two

sampling regions of Atlantic menhaden after sequential Bonferroni correction (Tables 11,

12).

The mitochondrial (ΦST) AMOVA among samples of YOY and yearling

(combined) large-scaled menhaden from five geographic regions along the U.S. Atlantic

coast and Gulf of Mexico (New England, mid-Atlantic, Chesapeake Bay, U.S. south

Atlantic, and Gulf of Mexico) revealed significant partitioning of genetic variation,

attributing 6.01% (p = 0.000) of the variance to sampling location (Table 8). The

microsatellite (FST and RST) AMOVAs, likewise, revealed significant partitioning of

genetic variation, attributing 4.68% (p = 0.000) and 16.89% (p = 0.000) of variation,

respectively, to sampling location (Tables 9, 10). Additionally, (ΦST, FST, and RST)

pairwise comparisons revealed statistically significant variation between the gulf

menhaden sampling region and all other sampled regions (Tables 11, 12, 13).

Page 47: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

DISCUSSION

Page 48: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

39

Molecular Markers

The mitochondrial and nuclear markers employed in stock structure analyses need

to be variable enough to detect spatial and temporal partitioning of genetic variation, if it

exists (Hellberg et al. 2002). This study utilized the mitochondrial COI gene region and

seven nuclear microsatellite loci, all of which revealed high levels of variation.

Previous analyses of COI sequences have demonstrated that it is typically one of

the most conserved mitochondrial gene regions, exhibiting low levels of intraspecific

variation, and it is often used for phylogenetic analyses (Saccone et al. 1999; Meyer

1993). However, in Atlantic menhaden, COI exhibited a high level of intraspecific

variation. The COI variation noted in this study (h = 0.941) is the highest documented

intraspecific COI haplotype diversity in vertebrates, indicating its potential utility for

population level analysis in this species (high literature values include h = 0.598: giant

otter, Garcia et al. 2007; h = 0.547: green and golden bell frog, Burnes et al. 2006). The

within-species genetic diversity for Atlantic menhaden (π = 2.74%) is an order of

magnitude higher than the average within-species divergence reported for Australian

marine fishes (π = 0.39%, Ward et al. 2005), South China Sea fishes (π = 0.319%, Zhang

et al. 2007), Canadian freshwater fishes (π = 0.302%, Hubert et al. 2008) (all values

calculated using the Kimura-two-parameter model of nucleotide substitution).

Additionally, all of the nucleotide substitutions within the entire dataset were

synonymous, resulting in identical amino acid sequences that presumably maintain

identical protein function.

Nuclear microsatellite loci typically exhibit a fast rate of mutation and high levels

of polymorphism and are ideally suited for analyses of stock structure (O’Ryan et al.

Page 49: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

40

1998, Hellberg et al. 2002). All seven microsatellite loci surveyed in this study revealed

considerable within-sample variation (A = 5-21, Hexp = 0.435-0.923). Literature values of

within-sample variation in other clupeids range from A = 1-56, Hexp = 0.066-0.98 (Table

14).

Species Identification

Atlantic, gulf, yellowfin, and finescale menhadens are currently recognized as

four separate species. However, with the broad overlap of meristic and morphometric

characters between Atlantic and gulf menhaden, and the ability of yellowfin menhaden to

hybridize with both Atlantic and gulf menhaden, species identifications are problematic.

Proper species identification is a critical first step in the analysis of intraspecific stock

structure.

The two small-scaled menhadens, yellowfin and finescale, can be identified on

the basis of morphological and molecular characters (Dahlberg 1970, Anderson 2007,

this study). Yellowfin menhaden are distinguishable from finescale menhanden in having

a higher number of vertebrae and scutes and a smaller head; both small-scaled

menhadens are distinguishable from the large-scaled menhadens by the absence of a

frontal groove, rounded scale pectinations, and higher scale counts (Dahlberg 1970). The

two small-scaled menhadens can also be distinguished from each other and the large-

scaled menhadens with genetic characters. Anderson (2007) separated yellowfin,

finescale menhaden, and the large-scale menhadens using sequencing data from the

mitochondrial control region and four microsatellite loci. Though no fixed differences

have been established between the North American menhadens, significant allele

Page 50: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

41

frequency differences have been detected at some loci. Yellowfin menhaden in this study

(n = 25) were fixed for allele 130 at locus AsaB020 while this allele occurred at a

frequency of 69% in finescale menhaden, 9% in gulf menhaden, and 1% in Atlantic

menhaden. Similarly, finescale menhaden (n = 25) were fixed for allele 216 at locus

Asa2 while this allele occurred at a frequency of 6% in yellowfin menhaden, 7% in gulf

menhaden, and 10% in Atlantic menhaden.

Hybridization between yellowfin menhaden and the two putative large-scale

menhadens has been reported to occur along the Atlantic and Gulf coasts of Florida

(Turner 1969, Dahlberg 1970, Anderson and Karel 2007). Putative yellowfin/large-scale

hybrids, identified on the basis of intermediate morphological and meristical characters,

were found in southwestern and southeastern Florida (Turner 1969, Dahlberg 1970). The

predominance of males suggested a postzygotic barrier to hybridization that would inhibit

the establishment of a stable hybrid population (Dahlberg 1970).

Microsatellite loci and mitochondrial control region sequencing have been used to

study the directionality of hybridization and potential for introgression in menhaden.

Though frequency differences do not allow unambiguous identification of hybrids,

Anderson and Karel (2007) identified putative yellowfin/gulf hybrids by major frequency

differences at locus Asa2 (88% frequency of allele 195 in yellowfin menhaden; <5%

frequency in large-scaled menhaden) and Asa 9 (90% frequency of allele 242 in large-

scaled menhaden; absent in yellowfin menhaden). However, all potential hybrids

grouped with yellowfin menhaden based on mitochondrial control region sequences. As

the mitochondrial genome is maternally inherited, this result indicated that yellowfin

menhaden was the maternal lineage in every case (Anderson and Karel 2007). Based on

Page 51: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

42

an analysis of microsatellite alleles in yellowfin menhaden not identified as F1 hybrids,

Anderson and Karel (2007) concluded that there was a low rate of introgression between

yellowfin menhaden and the large-scaled menhadens. This result supports the Dahlberg

(1970) hypothesis of a postzygotic inhibition of a hybrid population. However, Anderson

and Karel’s (2007) samples sizes (n = 10 – 20) per location (New Jersey, Virginia,

Maine, and North Carolina) may be insufficient to accurately estimate rates of

introgression.

Although hybridization of yellowfin and large-scaled menhadens has been

reported, there has been no documented case of hybridization between Atlantic and gulf

menhaden. This is primarily due to the fact that there is no definitive diagnostic character

to distinguish between these two putative species. The taxonomic key established by

Dahlberg (1970) is currently still in use and provides location (i.e. Atlantic Ocean, Gulf

of Mexico) as the primary distinguishing feature between the two species. All other key

characters (i.e., gill filaments, vertebrae, predorsal scales, and ventral scutes) overlap

between Atlantic and gulf menhaden (Dahlberg 1970). Species range for gulf menhaden

has also been disputed. As early as Reintjes (1969) and as recently as Anderson and

Karel (2007), gulf menhaden have been postulated to occur in southeast Florida based on

morphological and mitochondrial data.

Even molecular characters have not resolved the large-scaled menhadens. In all

three mitochondrial studies (mitochondrial genome RFLP, Avise et al. 1989; control

region, Anderson 2007; COI, this study), Atlantic and gulf menhaden formed two well

defined clades, but not by putative species. As previously mentioned, COI is a conserved

gene region, but typically exhibits consistent (fixed) nucleotide differences between

Page 52: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

43

species. It is, consequently, unusual for species to remain unresolved using COI as a

marker.

COI is currently the standard gene region used for species identification in the

Barcode of Life Datasystem. Not only do species tend to differ by one or more fixed

nucleotide differences in this region, interspecific differences are substantially greater

than intraspecific differences (Ratnasingham and Herbert 2007). In a survey of 207

fishes, all species had different COI sequences and differences between closely related

species were 25 times higher (on average) than differences within species (Ward et al.

2005). In the present study, however, the nucleotide sequence diversity for large-scaled

menhadens combined (π = 0.0258) is only 5 times higher than the within-clade diversity

(π = 0.0081, 0.0036). In the case of the menhadens, the high variability of COI reduces

its utility for barcoding but not for analyses of intraspecific population structure.

Based on the preliminary analysis, COI was chosen for this study rather than the

mitochondrial control region. In both this study and Anderson (2007), the control region

sequences appeared to exhibit mutational saturation. Similar levels of saturation were

detected by García et al. (2008) among cytochrome b sequences in Brazilian menhaden

(B. aurea).

Mutational saturation is demonstrated by plots of the number of transitions (by

codon position if protein coding) and transversions (by codon position if protein coding)

with genetic distance. Specifically, if the rate of transitions plateaus with increasing

genetic distance and the rate of transversions approaches that of transitions, mutational

saturation is indicated. In such cases, it is likely that the rate of transitions has not

decreased with time, but that the limited number of character states (purine to purine or

Page 53: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

44

pyrimidine to pyrimidine) results in “multiple hits” or homoplasy (for example, a series

of transitions from A G A would appear as no change at all). The fact that

transitions of the control region plateaued with increasing genetic distance and the rate of

transversions approached them suggests that any Atlantic menhaden analyses based on

control region nucleotide substitutions could be confounded by homoplasy. For

population studies, genetic drift is a more important driving force, but mutation still

comes into play.

Although in the initial assessment the COI sequences may have been less suspect

of mutational saturation, both COI and control region exhibited high levels of variation.

Thus, the same concerns noted for the control region may also apply for COI. Mutation

saturation plots are a qualitative measure of homoplasy and not statistically based.

Though it was chosen, COI did not turn out to be an ideal molecular marker for

this study as it could not resolve the small-scaled and large-scaled menhaden lineages.

Three Atlantic menhaden grouped with the small-scaled menhadens in the COI

phylogeny. This result could be from misidentification of individuals in the field,

hybridization and introgression, or incomplete lineage sorting using COI as a marker.

When sequenced for the control region, the three anomalous individuals clustered with

the “ubiquitous large-scaled” clade. This result does not support misidentification or

hybridization and introgression for these samples because the control region and COI

relationships would have the same origin (e.g., the mitochondrial genome has no

recombination). Since the evolutionary rate of the control region exceeds that of COI,

this outcome suggests incomplete lineage sorting, an inability of COI to resolve the two

major menhaden lineages.

Page 54: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

45

Lineage sorting is the process of fixation of gene lineages between taxa.

Incomplete lineage sorting occurs when ancestral polymorphism is retained in multiple

taxa, resulting in an inability to distinguish between the groups with a specific gene

region. Incomplete lineage sorting is a function of the molecular marker utilized, the

taxonomic scale of analysis, and has been found in other lineages including cichlids in

Lake Tanganyika (short interspersed element insertion data, Takahashi et al. 2001),

schizorathicine fishes of Lake Rara, Nepal (proline tRNA and control region sequences,

Dimmick and Edds 2002), and crotaphytid lizards (ND2 and Cytb sequences, McGuire et

al. 2007). These conclusions indicate that the control region may have been a more

appropriate mitochondrial gene region to analyze for Atlantic menhaden population

structure than COI.

While COI sequences may not completely resolve the four species of North

American menhaden, the population structure revealed in this and previous mitochondrial

surveys of large-scaled menhadens suggests the possibility of historical isolation between

the two large-scaled clades. To obtain a nuclear perspective on the genetic differences

between Atlantic and Gulf of Mexico large-scaled menhadens, ITS-1 was sequenced for a

subset of samples, representing both mitochondrial clades, and seven microsatellite loci

were analyzed for all samples. If the nuclear relationships were similar to the

mitochondrial relationships, the result would indicate that the structure resulted from two

independent evolutionary lineages (separate species), without contemporary gene flow.

If the nuclear relationships were not consistent with the mitochondrial relationships, the

result would suggest historical isolation and subsequent unidirectional gene flow.

Page 55: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

46

Neither the ITS-1 nor microsatellite relationships were similar to the two-clade

structure revealed by analyses of mitochondrial gene regions. The ITS-1 phylogeny

produced no discernable structure, a high level of haplotype diversity (h = 0.972), and a

low level of nucleotide sequence diversity (π = 0.0122) among the large-scaled menhaden

clones. Intra-individual variation in ITS-1 phylogenetic studies is widely known to exist

(Harris and Crandall 2000). In this study with 5 clones per individual, individuals had up

to five different alleles. It is also important to note that all B. gunteri clones grouped as a

species; all but one B. smithi sequence fell outside of the large-scaled group; and with

that one B. smithi sample, all of the large-scaled individuals fell within one large

polytomy. Despite the high intra-individual variation and haplotype diversity, ITS-1 does

not provide any usable information to compare with the mitochondrial relationships.

The microsatellite results of this study, like Anderson (2007), did partition the

North American menhadens into four groups. However, both studies indicated that the

large-scaled menhadens are very closely related. Anderson (2007) surveyed variation at

four microsatellite loci, estimating an FST of 0.110 between Atlantic and gulf menhaden.

This study screened seven microsatellite loci, estimating an FST of 0.104 between Atlantic

(all sampling regions grouped together) and gulf menhaden. Considering each Atlantic

and Gulf sampling location independently, this study estimated FST values of 0.079-0.122

(p = 0.000). These FST values are more typical of differences between populations rather

than species. For comparison, FST values between genetically distinct stocks based on

microsatellites range from 0.002 to 0.226 (Table 15). Conversely, FST values between

North American menhadens include: 0.488 between Atlantic and yellowfin menhaden,

0.412 between Atlantic and finescale menhaden, 0.411 between gulf and yellowfin

Page 56: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

47

menhaden, 0.378 between gulf and finescale menhaden, and 0.355 between yellowfin and

finescale menhaden (Anderson 2007).

Avise et al. (1989) grouped Atlantic and gulf menhaden into a Brevoortia

tyrannus/patronus complex, noting “the species are very closely related and are of

questionable taxonomic status.” Bowen and Avise (1990) compared the population

structure of the large-scaled menhadens, black sea bass, and sturgeon, three coastal taxa

present in the Atlantic and Gulf of Mexico. The black sea bass exhibited reciprocal

monophyly of the Atlantic and Gulf haplotypes while both the menhaden and sturgeon

shared haplotypes between the Atlantic and Gulf of Mexico. Currently, the Atlantic and

Gulf congeners have subspecies status for black sea bass and sturgeon, but not for the

menhadens; the menhaden taxonomy conflicts with the genetic results.

While more morphological and genetic analyses of large scale menhadens should

be undertaken, especially around Florida, the genetic data suggest that synonymizing

Atlantic and gulf menhaden may be warranted. This situation parallels another within the

genus Brevoortia. Historically, the existence of two menhaden species in the southwest

Atlantic, Brazilian menhaden (B. aurea Spix & Agassiz 1829) and Argentine menhaden

(B. pectinata Jenyns 1842) have been purported (Whitehead 1985). But, recent genetic

data has confirmed that these two putative species, in fact, comprise only one species, B.

aurea (García et al. 2008).

Phylogeography

Phylogenetic analyses based on mitochondrial genome RFLP as well as control

region and COI sequence data revealed the presence of two highly divergent lineages of

Page 57: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

48

large-scaled menhadens (Bowen and Avise 1990, Anderson 2007, this study). Bowen

and Avise (1990) noted the presence of one clade (α; “ubiquitous large-scaled” in this

study) in menhaden collected along the U.S. Atlantic coast and Gulf of Mexico and the

other clade (β; “Atlantic-only” in this study) in menhaden only collected from the

Atlantic Ocean. Based on mitochondrial COI sequences of this study, the net nucleotide

sequence divergence (δ) between the two clades was 3.70%. This value is somewhat

smaller than the 5% sequence divergence noted between the two clades by Bowen and

Avise (1990) based on RFLP analysis of the entire mitochondrial genome. The slight

difference between the divergences estimated in the two studies is consistent with the fact

that the mitochondrial genome contains both coding and non-coding gene regions and

that COI is a coding region.

Avise (1992) hypothesized that the separation of two mitochondrial clades

between the Atlantic Ocean and the Gulf of Mexico was a result of historical isolation of

Atlantic and gulf menhaden by the Florida peninsula during times of cooler water

temperatures and subsequent unidirectional gene flow during geologically recent times.

During a period of glaciation, sea level was lower and waters were cooler, making the

Florida peninsula a more formidable barrier to gene flow. This barrier produced a

phylogeny with an Atlantic clade and a Gulf clade. During a period of warming, sea

level was higher, allowing for unidirectional gene flow from the Gulf of Mexico to the

Atlantic via the Gulf Stream. Cooling subsequently limited mixing around Florida, with

the Gulf signature remaining in the Atlantic population.

Anderson (2007) postulated that the distribution of these two clades in menhaden

collected along the U.S. Atlantic coast supported very recent gene flow from the Gulf of

Page 58: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

49

Mexico to the Atlantic because four of the eight “Atlantic-only” haplotypes in the study

were collected from the northernmost sampling location. However, the postulated

geographic cline in the distribution of the “Atlantic-only” clade was only qualitatively

addressed and also must be moderated by the small sample size (n = 37) of Atlantic

menhaden in that study. In the present study, a more extensive sampling regime for

Atlantic menhaden (n = 289) refutes Anderson’s (2007) hypothesis of recent gene flow

based on a clinal distribution of the two clades in Atlantic menhaden. A chi-square

analysis of Atlantic coast sampling locations indicated that the two mitochondrial clades

were not heterogeneously distributed among Atlantic coast collection locations. In other

words, there is no geographic cline in mitochondrial sequences along the Atlantic coast.

While the mitochondrial data suggest unidirectional gene flow from the Gulf of

Mexico to the Atlantic coast in the recent geological past, analysis of nuclear

microsatellites indicates a barrier to gene flow at the present time. This study surveyed 7

microsatellite loci and found an FST of 0.104 (p = 0.000) between Atlantic and gulf

menhaden, a value that agrees well with Anderson’s (2007) FST of 0.110 based on the

analysis of 4 loci.

Population Structure

Stock structure analyses of Atlantic menhaden along the U.S. Atlantic coast have

suggested as few as one and as many as three different stocks based on spawning time,

spawning location, and migration tracks (June 1958, 1965; Sutherland 1963; June and

Nicholson 1964; Nicholson 1972, 1978; Dryfoos et al. 1973; Epperly 1989). This study

analyzed the distribution of allelic variation of rapidly evolving molecular characters to

Page 59: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

50

evaluate population structure of Atlantic menhaden. The resulting AMOVAs did not

attribute any significant portion of molecular variance to variation between the following

group comparisons: YOY menhaden recruiting to Chesapeake Bay early and late in the

season during the same year; YOY and yearling menhaden collected in Chesapeake Bay

in successive years (following the 2006 year class); YOY and yearling menhaden

collected in Chesapeake Bay in the same year (comparing 2005/2006, 2006/2007 year

classes); and YOY and yearling menhaden (combined) from the four geographic regions

along the U.S. Atlantic coast (New England, mid-Atlantic, Chesapeake Bay, and U.S.

south Atlantic).

While none of the five COIΦST AMOVAs or five microsatellite RST AMOVAs

were significant, two of the five microsatellite FST AMOVAs showed a small but

statistically significant partitioning of genetic variation between YOY and yearling

menhaden collected in Chesapeake Bay in successive years (following the 2006 year

class, 1.80%, p = 0.0176) and YOY and yearling menhaden (combined) from the four

geographic regions along the U.S. Atlantic coast (0.575%, p = 0.0000). Grouping the

U.S. Atlantic coast sampling regions also produces a slight, but significant, partioning

between the northern and southern sampling locations (FST = 0.00535, p = 0.00098). This

significant result from the FST AMOVA between the four U.S. Atlantic coast geographic

regions may be a result of a latitudinal gradient in genetic variation or, conversely, a

biologically insignificant event. Given enough genetic comparisons, statistically

significant differences can be expected since some aberrations from complete panmixia

do occur (Waples 1998).

Page 60: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

51

The differences between the FST and RST AMOVA results can be accounted for by

the different distance algorithms employed in the analyses. The FST AMOVA is based on

the distribution of number of different alleles (not considering relationships among

alleles) and uses the infinite allele model of mutation. As a result, FST may be more

appropriate in situations of recent divergence when genetic drift is the predominant factor

(Ruzzante 1998). The RST AMOVA is based on the distribution and relationship of

alleles (sum of squared allele size differences) and uses the stepwise mutation model.

The RST algorithm may be more appropriate in situations where mutation is a key factor

(Ruzzante 1998). Additionally, the RST method is considered applicable for microsatellite

data only when sample sizes are either equal or larger than 50 (Ruzzante 1998). Because

mutation is an important feature in this dataset and because the sample sizes exceed 50,

RST is a more reliable microsatellite method for comparing putative species. Conversely,

for within species comparisons, FST is a more typical method.

The pairwise comparisons between sample locations corroborate the ΦST and RST

AMOVA results. No pairwise comparison revealed a statistically significant difference

between any two of the four geographic regions of Atlantic menhaden after sequential

Bonferroni correction. These findings support the hypothesis that the significant results

from the FST AMOVAs were biologically insignificant. The collective results indicate

that there was no significant partitioning of genetic variation between the sampling

regions of Atlantic menhaden, and the null hypothesis of a single U.S. Atlantic stock can

not be rejected.

Finding no statistically significant genetic differences among Atlantic menhaden

sampling regions is consistent with the life history traits of the species. Of all the North

Page 61: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

52

American Brevoortia, Atlantic menhaden undertake the longest coastal migrations

(Whitehead 1985). They also undergo an ontogenetic shift in migration where larger fish

migrate furthest north (Dryfoos et al. 1973, Quinlan et al. 1999). Atlantic menhaden are

batch spawners, spawning multiple times during a year, and have the most temporally

and geographically protracted spawning season of any North American Brevoortia

(Whitehead 1985). This means that the area(s) where a fish spawns in one year could be

a different from the area(s) that it spawns in the following year. Additionally, eggs are

spawned in coastal, pelagic waters. The larvae can take up to 90 days to cross the

continental shelf and are affected by along-shore transport, coastal storms, freshwater

discharge from estuaries, and wind-forcing (Checkley et al. 1988, Quinlan et al. 1999).

These characteristics appear to keep Atlantic menhaden – and their gene pool – well

mixed.

Genetic analyses of other clupeids have failed to find population stucture. For

Atlantic herring (Clupea harengus), Grant (1984) postulated that small scale migrations

accounted for the lack of genetic divergence between adjacent areas (40 allozyme loci, 6

locations, ≈ 50 samples/location). Volk et al. (2007) found evidence of substantial gene

flow between spawning locations of twaite shad (Alosa fallax) with no evidence of

localized genetic drift due to habitat changes (12 microsatellite loci, 5 locations, 50

samples/location; FST = -0.0004 - 0.0089, α = 0.05, non-significant after Bonferroni

correction in all but one case). Gonzalez and Zardoya (2007) discovered minimal genetic

differentiation among European sardines, hypothesizing it to be a result of weak isolation

by distance (8 microsatellite loci, 9 locations, 50 samples/location; RST = 0.001 – 0.083,

of 36 pairwise comparisons, only nine comparisons revealed significant values after

Page 62: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

53

correction for multiple tests, p < 0.0014).

In contrast, some clupeid species exhibit significant stock structure, often

attributed to the presence of geographic barriers or temporal reproductive isolation.

Allozyme analysis revealed significant genetic differentiation between eastern North

Pacific and Bering Sea Pacific herring (C. pallasi) because of adults homing to previous

spawning locations (spawning site fidelity) and larval retention mechanisms (40 allozyme

loci, 6 locations, ≈ 50 samples/location; Grant and Utter 1984). Similarly, O’Connell et

al. (1998) used microsatellite analysis to confirm genetic isolation of the Bering Sea and

Gulf of Alaska stocks of Pacific herring separated by the Alaska Peninsula (5

microsatellite loci, 7 locations, ≈ 50 samples/location; RST = 0.11 – 0.16, p < 0.001).

And, Sugaya et al. (2008) exhibited significant genetic difference between Honshu and

Hokkaido Island samples of Pacific herring due to natal homing (5 microsatellite loci, 10

locations 200/locationavg; FST = 0.046-0.173, p < 0.05, after sequential Bonferroni

correction). Shaw et al. (1999) also found significant genetic structuring between

Icelandic summer-spawners, Norwegian spring-spawners, and Norwegian fjord stocks of

Atlantic herring (C. harengus), attributing differences to temporal isolation of spawning

(4 microsatellite loci, 5 locations, ≈ 50 samples/location; FST = 0.01 – 0.04, p < 0.001; RST

= 0.08 – 0.28, p < 0.001).

Implications for Management

Atlantic menhaden have had a rocky history of management in Virginia, the only

state that still maintains a reduction fishery facility for the species. Atlantic menahden

are the only species in Virginia state marine waters to be managed by the Virginia

Page 63: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

54

Legislature, rather than the Virginia Marine Resource Commission. In 2005, the Atlantic

States Marine Fisheries Commission (ASMFC), the regional managing authority,

proposed a precautionary cap of 105,000 tons on the reduction fishery to assess the status

of Atlantic menhaden in Chesapeake Bay relative to coastal systems (ASMFC 2005). By

mandate, all ASMFC states were required to comply with the cap. However, during the

2006 legislative session, members of the Virginia General Assembly withdrew or killed

four separate bills seeking to adopt the ASMFC cap. If Virginia was still non-compliant

by July 2006, a commercial moratorium could have been established by federal law.

However, Virginia Governor Tim Kaine instituted a 109,000 ton cap by gubernatorial

proclamation July 31, 2006 which was accepted by the ASMFC (ASMFC 2006).

With concerns over the potential of localized depletion, the landings cap provided

a precautionary management measure, allowing time to evaluate the connectivity and

genetic relatedness of Atlantic menhaden in Chesapeake Bay and along the U.S. Atlantic

coast. This is especially important because there has been a reported loss of unique

genetic variation in other species such as Pacific cod, leopard darter, Japanese flounder,

and American shad due to fishing pressure, habitat degradation, and hatchery stocking

(Grant and Stahl 1988, Echelle et al. 1999, Sekino et al. 2003, and Brown et al. 2000,

respectively).

Currently, Atlantic menhaden are managed as one coastwide stock. With high

genetic variability and homogeneous distribution of the genetic variation, the results of

this study indicate that the current management practices for Atlantic menhaden are

sufficient for maintaining the genetic composition of the species. This finding is

consistent with results of previous tagging studies for Atlantic menhaden (Dryfoos et al.

Page 64: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

55

1973, Nicholson 1978). The genetic connectivity between New England, mid-Atlantic,

Chesapeake Bay, and U.S. south Atlantic samples suggests that loss of unique genetic

variation due to intensified fishing pressure in Chesapeake Bay is not likely. However, it

is important to realize that gene flow of only a few migrants per generation, even for

populations with millions of individuals such as the Atlantic menhaden, is enough to

negate the effects of genetic drift (Mills and Allendorf 1996, Hartl and Clark 2007).

While the results of this study suggest that menhaden would eventually return to

an area depleted by fishing effort without any significant loss of genetic variation, genetic

analysis cannot estimate the time course of movements into the depleted area. Menhaden

could repopulate a depleted area on a timescale of weeks, months, seasons, years, or

decades. Short-term replenishment to areas affected by localized fishing pressure is

better estimated with non-genetic techniques, such as mark-recapture or analysis of

otolith microchemistry.

As the fifth largest U.S. commercial fishery (by weight) and a principal forage

fish, Atlantic menhaden is an important species, economically and ecologically. Proper

management requires the most current understanding of Atlantic menhaden stock

structure. This study evaluated the potential for local depletion of genetic variation due

to the recent consolidation of the reduction fishery to within and around Chesapeake Bay.

While the taxonomic status of Atlantic and gulf menhaden remains questionable, the

results from seven microsatellite loci suggest that Atlantic menhaden have complete

spatial and temporal genetic connectivity. Consequently, the management of Atlantic

menhaden as a single coastwide stock is appropriate at the present time.

Page 65: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

TABLES

Page 66: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

57

Table 1. Microsatellite loci tested in the present study for amplification in Brevoortia specimens. Loci listed in black successfully amplified variation; loci listed in gray did not. Locus GenBank

Accession no. Repeat motif [reported size] Fluorescent

Label Primer sequence (5’-3’) Annealing

temp Reference Comment

Aa14 AY617109 (GT)8 [128-140]

PET F: GAG AAG AGG GCA TTC G R: ATT TAG TGT GTG CCC AGC

61oC Faria et al. 2004

no allele found

Aa16 AY617110 (CA)4AA(CA)3AA(CA)8 [145-159]

PET F: TTG ACC GAG CGC AAA CTG R: TGA CAC TGA CTC ATC ATG C

55.7 oC Faria et al. 2004

Aa20 AY617111 (GT)16 [116-146]

NED F: GGT GTA ATG CCC GTC CG R: CAG TGT GCA GAC CAG CC

48.6oC Faria et al. 2004

Fixed

Af6 AY617112 (CA)4AT(CT)5(CA)16AA(CA)8 [159-171]

PET F: AGG AGA TGT TTA TCC TGC C R: CAC AGA GGC ATA AAT GTG G

48.6oC Faria et al. 2004

Fixed

Af11 AY617113 (CA)5CT(CA)4 [126-139]

VIC F: CGA GTA CAA TCA AAA GCC R: AGC TTC CTC AGA CTG G

49.1 oC Faria et al. 2004

did not amplify well

Af13 AY617114 (CA)17 [170-178]

6-FAM F: AGG ATA CAT AGT CTC CC R: CAA GTT GGA GTG TCA CG

59 oC Faria et al. 2004

no allele found

Af15 AY617115 (CA)11 [173-208]

NED F: CCC ATT CAC TCT TTT TCT C R: GAG AGG AGT TGA GTA TGG

53 oC Faria et al. 2004

no allele found

Page 67: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

58

Table 1 cont. Microsatellite loci tested in the present study for amplification in Brevoortia specimens. Loci listed in black successfully amplified variation; loci listed in gray did not. Locus GenBank

Accession no. Repeat motif [reported size] Fluorescent

Label Primer sequence (5’-3’) Annealing

temp Reference Comment

Af20 AY617116 (CA)11 [173-208]

VIC F: AAT GGA CAT ATC TGC TGG R: ATG GAG GGC CAT ATT TCG

52.6 oC Faria et al. 2004

Fixed

Asa2 AF039657 (TTC)13 [73-133]

6-FAM F: CAT TAC TCC AAG TTG CTT TTA TTT R: GAG ATG ACA GAA GAA TTG AAG AGA

48.6oC Brown et al. 2000

Asa4 AF039658 (ACC)3(AAC)12(AGC)6 [124-172]

NED F: GAA GAC AAT ACA GTA ATA AAC C R: GCG GGA GGC CAG ACA TA

53.8 oC Brown et al. 2000

Asa6 AF039659 (AAC)12 [83-110]

PET F: ACC TTC TGT TCT GTT TCA CCT G R: TTC ACT GTA ATG CAA TGT AAT GTT

48-62oC grad

Brown et al. 2000

no allele found

Asa8 AF039660 (TTTG)8 [108-168]

F: TCC ATT CCA TTA CGT AGA GCA CT R: CCG GCA GGG CAC AGA AC

Brown et al. 2000

Fixed

Asa9 AF039661 (TTTC)7 [156-266]

PET F: GGG AAT AAG GGA TGT AGC CAA GAT R: AGG AGA AGG AAA GGG GAG TGA GAG

48.6oC Brown et al. 2000

Fixed

Asa16 AF049462 (GTT)3(CCT)(GTT)12 [116-131]

VIC F: CCG TCG CCG ATG TAG TTG CAG TGG R: ACG GGA GAA AAG AGT ATG TGT CCT TGA G

48.6 oC Brown et al. 2000

Suspect null allele

Page 68: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

59

Table 1 cont. Microsatellite loci tested in the present study for amplification in Brevoortia specimens. Loci listed in black successfully amplified variation; loci listed in gray did not. Locus GenBank

Accession no. Repeat motif [reported size] Fluorescent

Label Primer sequence (5’-3’) Annealing

temp Reference Comment

AsaB020 EF014990 (GAT)15 [114-147]

6-FAM F: GCA TTA TGA TGG TCA TGT GTA TG R: GAA ATC CTA TGT CTT GGA ATG G

53.8oC Julian & Bartron 2007

AsaC010 EF014991 (GTAT)16 [261-321]

PET F: AAT AAT GTT GTG CTG GAT TGT G R: TTT ATT GTT ATT GTG ATG GAG GG

50.4 oC Julian & Bartron 2007

Fixed

AsaC051 EF014992 (GAAT)7(GTAT)13 [248-316]

VIC F: GTA AGT CGC TTT GGA CTA CCA G R: TCT AAA TGC CCA GGT AAA GAT G

48-62oC grad

Julian & Bartron 2007

no allele found

AsaC249 EF014994 (CATA)8(TTCT)13 [243-367]

6-FAM F: TTA TTA CAA CGG TGA ATT GAG TG R: TAA GTG CAT GTT GTG TGT GAT G

62oC Julian & Bartron 2007

Fixed

AsaC334 EF014995 (GTAT)17 [102-178]

PET F: ATG GTT ATG TGG GCT CTT TAT G R: GTT CAT CCT GCC AGA TCT AAG G

48.0 oC Julian & Bartron 2007

AsaD021 EF014996 (CTAT)15 [249-301]

NED F: TTA TTA CAA CGG TGA ATT GAG TG R: TAA GTG CAT GTT GTG TGT GAT G

62oC Julian & Bartron 2007

Fixed

AsaD029 EF014997 (CTAT)20 [182-254]

VIC F: ATT ATG CAC AGG AAT CTG GAA G R: TGT GCT TAC AAA AGT GAC ATG G

48.6oC Julian & Bartron 2007

Fixed

Page 69: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

60

Table 1 cont. Microsatellite loci tested in the present study for amplification in Brevoortia specimens. Loci listed in black successfully amplified variation; loci listed in gray did not. Locus GenBank

Accession no. Repeat motif [reported size] Fluorescent

Label Primer sequence (5’-3’) Annealing

temp Reference Comment

AsaD030 EF014998 (CTAT)23 [102-182]

F: CCA CAG CAT CAT CTC TTT ACT G R: ACC TTG AAT TTC TCC TTG GG

Julian & Bartron 2007

Amplifies wrong region?

AsaD031 EF014999 (CTAT)14 [180-240]

F: TTC CTG ATA TTT CTT GTG AGG G R: ATT TCT GTG GAA ACC TTT TGG

48-62oC grad

Julian & Bartron 2007

no allele found

AsaD042 EF015000 (CTAT)12 [162-214]

6-FAM F: ACT GGT CAA TTG TAA GAC ACC C R: CAA GAT GAC CAA GGG TTA AGA C

48-62oC grad

Julian & Bartron 2007

no allele found

AsaD055 EF015001 (CTAT)10 [231-279]

NED F: CTC TTT CAC AGG GAT CAA AGT C R: CAA GCA TGT TTA AAT AGG AGG C

48.0oC Julian & Bartron 2007

AsaD278 EF015002 (CTAT)17 [190-210]

NED F: CCC TTA GTG AAT GTT GAG TGT G R: CTT AGG CCA CAT AGG TGA GTA TC

48-62oC grad

Julian & Bartron 2007

no allele found

Sar1A11 AY636120 (GATA)2GCTA [257-313]

F: GAG CTG GAA ATC TGG TGA TAT TTA G R: CCT GTT CAC AAG TTA GAG CAT TC

48-62oC grad

Pereyra et al. 2004

no allele found

Sar1D06 AY636123 (TG)18 [120-158]

PET F: CGG CTA TTC TTA GAC TAG GTG R: CCC CAT CAG CAA TGA ATA AG

48.6oC Pereyra et al. 2004

didn’t amplify well

Page 70: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

61

Table 1 cont. Microsatellite loci tested in the present study for amplification in Brevoortia specimens. Loci listed in black successfully amplified variation; loci listed in gray did not. Locus GenBank

Accession no. Repeat motif [reported size] Fluorescent

Label Primer sequence (5’-3’) Annealing

temp Reference Comment

Sar1D01 AY636121 (CA)29GG(CA)3 [182-256]

F: GCT CTG GTC GGA GGC TCT ATC R: GGT GTT CAC GTG GGC TGG TA

48-62oC grad

Pereyra et al. 2004

no allele found

Sar1H11 AY636122 (TG)11TA(TG)6 [150-200]

F: CAC GGC ACG TTA CGT TTC AG R: CCA GCG TGT CAT GAA ATG ATG

48-62oC grad

Pereyra et al. 2004

no allele found

SarBA07 AY636114 (GA)12 [68-136]

NED F: CTC CTC ACT CAG CCG CTA AGG A R: GGG TAA CAT TTC GGC AAG TGC T

48.6oC Pereyra et al. 2004

Fixed

SarBA08 AY636115 (CA)26 [201-301]

NED F: GTG ATA CTC TCT GCC TTG GA R: GCA CTT TGT CCT AGT AAA TAG C

48-62oC grad

Pereyra et al. 2004

no allele found

SarBCO5 AY636116 (TC)5TT(TC)4 [120-182]

PET F: GAA CGC AGA CAT AAA AGG GTC R: GGG TAT GTG GTG ATT ATC GTT C

48-62oC grad

Pereyra et al. 2004

no allele found

SarBD09 AY636117 (CA)9(GA)8 [269-303]

F: GGT CAT CTG CTT CAA CAA CAC R: GCA GCC TGT CTG AAA CTC TG

48-62oC grad

Pereyra et al. 2004

no allele found

SarBG09 AY636118 (GA)6GT(GA)36 [149-163]

F: GGT GGA AAG AAC ACT GGT CA R: GGT TCA CTA TGC AGG CTA TG

48-62oC grad

Pereyra et al. 2004

no allele found

SarBH04 AY636119 (GT)9 [181-271]

F: CGA GTT TGT CCC ACA CCT GGA G R: CTC CAA GCA CCG AGA GCA TC

Pereyra et al. 2004

Page 71: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

62

Table 2. Population statistics of Atlantic menhaden (Brevoortia tyrannus), gulf menhaden (B. patronus), yellowfin menhaden (B. smithi), and finescale menhaden (B. gunteri) based on an initial survey of sequence data from 28 individuals for control region and cytochorme c oxidase subunit I (COI) and from 60 clones for 12 individuals of internal transcribed spacer 1 (ITS-1) sequence data: number of individuals (n), number of haplotypes (Nh), number of polymorphic sites (S), number of transitions (Ts), number of transversions (Tv), number of insertions or deletions (indels), haplotype diversity (h), mean nucleotide sequence diversity (π), and mean number of pairwise differences (k).

Gene Region n Nh S Ts Tv indels h ± SE π ± SE k ± SE Control Region 28 27 63 55 16 1 0.997 ± 0.0104 0.0326 ± 0.0166 19.0 ± 8.67 COI 28 20 44 41 8 0 0.960 ± 0.0241 0.0267 ± 0.0141 9.44 ± 4.46 ITS-1 60 45 81 54 23 14 0.979 ± 0.0110 0.0183 ± 0.0094 10.2 ± 4.73 ITS-1 (large-scale only) 50 38 59 36 18 11 0.972 ± 0.0154 0.0122 ± 0.0065 6.80 ± 3.26

Page 72: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

63

Table 3. Sequence statistics of Atlantic menhaden (Brevoortia tyrannus), gulf menhaden (B. patronus), finescale menhaden (B. gunteri), and yellowfin menhaden (B. smithi) based on cytochorme c oxidase subunit I (COI) sequence data by region, clade, and overall samples: number of individuals (n), number of haplotypes (Nh), number of polymorphic sites (S), number of transitions (Ts), number of transversions (Tv), haplotype diversity (h), mean nucleotide sequence diversity (π), and mean number of pairwise differences (k).

n Nh S Ts Tv h ± SE π ± SE k ± SE New England 50 29 47 47 4 0.940 ± 0.0206 0.0258 ± 0.0132 11.8 ± 5.45 mid-Atlantic 52 32 66 67 5 0.956 ± 0.0163 0.0286 ± 0.0145 13.1 ± 6.01 Chesapeake Bay 118 50 62 63 3 0.932 ± 0.0144 0.0267 ± 0.0134 12.2 ± 5.57 U.S. south Atlantic 69 44 66 67 2 0.954 ± 0.0166 0.0295 ± 0.0149 13.5 ± 6.16 Atlantic menhaden only 289 109 97 99 6 0.941 ± 0.0083 0.0274 ± 0.0137 12.6 ± 5.68 gulf menhaden 50 25 34 33 5 0.879 ± 0.0419 0.0071 ± 0.0041 3.23 ± 1.70 large-scaled menhaden combined 339 124 99 101 7 0.940 ± 0.0079 0.0258 ± 0.0129 11.8 ± 5.36 “Atlantic only” clade 236 98 76 76 7 0.925 ± 0.0136 0.0081 ± 0.0045 3.71 ± 1.88 “ubiquitous large-scaled” clade 100 23 22 22 1 0.732 ± 0.0456 0.0036 ± 0.0024 1.65 ± 0.98 finescale menhaden 25 16 43 42 1 0.940 ± 0.0310 0.0220 ± 0.0116 10.0 ± 4.77 yellowfin menhaden 25 17 53 53 3 0.923 ± 0.0449 0.0335 ± 0.0173 15.4 ± 7.10 small-scaled menhaden combined 50 27 57 58 3 0.936 ± 0.0231 0.0261 ± 0.0133 12.0 ± 5.50 Overall 389 145 105 107 7 0.952 ± 0.0062 0.0331 ± 0.0164 15.2 ± 6.80

Page 73: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

64

Table 4. Contingency table testing the independence of geographic representation between the two cytochrome c oxidase subunit I (COI) sequence clades of large-scaled menhadens (Brevoortia tyrannus and B. patronus) for all Atlantic coast regions (New England, mid-Atlantic, Chesapeake Bay, and U.S. south Atlantic). The “Atlantic only” clade consists only of Atlantic menhaden;

the “ubiquitous large-scaled” clade consists of Atlantic and gulf menhaden. x2=∑∑−

i j ij

ijij

f

ffˆ

)ˆ( 2

, where ijf = observed counts

(bolded), ijf̂ = expected counts (italicized), and degrees of freedom (v) = (i rows -1)(j columns -1). For this data set, 815.723,05.0 =x .

All Atlantic coast regions: x2 = 0.478 < 7.815 → NS Clade New England mid-Atlantic Chesapeake Bay U.S. south Atlantic Total “Atlantic only”

19 17.5

17 18.2

39 41.0

25 23.5

100 0.35 (% of total)

“ubiquitous large-scaled”

31 32.0

35 33.3

78 74.9

42 42.9

186 0.64 (% of total)

Total 50 52 117 67

Page 74: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

65

Table 5. Population statistics of Atlantic menhaden (Brevoortia tyrannus), gulf menhaden (B. patronus), finescale menhaden (B. gunteri), and yellowfin menhaden (B. smithi) based on eight microsatellite loci by region and overall samples: number of individuals (n), allele size range (a.s.r.), allelic diversity (A), allelic richness (Rs), and gene diversity (D).

Locus Repeat motif

GenBank accession

New England

mid- Atlantic

Chesapeake Bay

U.S. south Atlantic

gulf menhaden

finescale menhaden

yellowfin menhaden

Aa16 (CA)4 AA (CA)3 AA (CA)8

AY617110 n a.s.r. A Rs D

47 139-155 7 4.98 0.733

51 139-155 5 4.07 0.626

117 139-155 7 4.40 0.630

53 139-157 7 4.70 0.712

49 135-161 9 4.69 0.447

24 135-155 6 4.54 0.507

24 141-157 4 2.91 0.323

Asa2 (TTC)13 AF039657 n a.s.r. A Rs D

44 210-237 6 4.15 0.600

50 213-234 8 5.00 0.660

114 210-237 9 4.91 0.651

68 216-237 7 5.01 0.657

49 210-237 10 5.15 0.641

25 216 1 1.00 0.000

24 213-216 2 1.85 0.120

Asa4 (ACC)3 (AAC)12 (AGC)6

AF039658 n a.s.r. A Rs D

44 168-204 9 5.46 0.722

47 162-222 12 7.52 0.840

102 156-198 14 6.71 0.821

53 165-201 12 6.59 0.782

44 165-198 10 6.19 0.780

25 165-216 7 6.33 0.799

24 159-177 5 3.90 0.645

Asa16 (GTT)3 CCT (GTT)12

AF049462 n a.s.r. A Rs D

45 247-292 16 13.2 0.901

50 223-286 17 14.4 0.912

111 223-304 21 15.1 0.918

69 223-289 18 12.8 0.901

45 223-298 15 12.8 0.904

25 244-277 8 7.88 0.738

24 244-268 5 5.00 0.605

Page 75: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

66

Table 5 cont. Population statistics of Atlantic menhaden (Brevoortia tyrannus), gulf menhaden (B. patronus), finescale menhaden (B. gunteri), and yellowfin menhaden (B. smithi) based on eight microsatellite loci by region and overall samples: number of individuals (n), allele size range (a.s.r.), allelic diversity (A), allelic richness (Rs), and gene diversity (D).

Locus Repeat motif

GenBank accession

New England

mid- Atlantic

Chesapeake Bay

U.S. south Atlantic

gulf menhaden

finescale menhaden

yellowfin menhaden

AsaB020 (GAT)15

EF014990 n a.s.r. A Rs D

47 142-184 13 9.44 0.897

49 130-193 19 10.9 0.902

116 130-196 20 10.0 0.887

66 130-187 19 10.0 0.888

49 130-196 19 12.4 0.938

24 127-139 4 3.17 0.473

24 130 1 1.00 0.000

AsaD055 (CTAT)10

EF015001 n a.s.r. A Rs D

44 254-314 17 10.3 0.911

36 254-326 14 10.4 0.917

113 238-334 18 10.7 0.912

63 238-326 17 11.3 0.923

45 258-330 20 11.4 0.917

25 242-290 13 10.2 0.910

24 238-294 11 8.76 0.885

AsaC334 (GTAT)17

EF014995 n a.s.r. A Rs D

49 118-146 7 4.77 0.594

51 122-138 5 3.20 0.436

114 122-146 7 4.33 0.636

63 118-138 6 3.68 0.570

49 118-154 9 7.65 0.857

11 134-158 7 7.00 0.809

17 134-158 6 5.16 0.597

SarBH04 (GT)9

AY636119 n a.s.r. A Rs D

40 179-221 12 6.27 0.721

49 179-221 12 6.43 0.760

111 179-221 13 5.89 0.735

56 179-221 12 7.22 0.793

44 179-221 12 5.57 0.451

21 169-215 10 8.37 0.851

24 189-221 7 4.26 0.306

Page 76: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

67

Table 6. Hardy-Weinberg equilibrium test of association at the locus level for Atlantic menhaden (Brevoortia tyrannus), gulf menhaden (B. patronus), finescale menhaden (B. gunteri), and yellowfin menhaden (B. smithi) using the methods of Guo and Thompson (1992) based on eight microsatellite loci by region and overall samples: number of samples (no. samp.),* number of genotypes (no. geno.), observed heterozygosity (HO), and expected heterozygosity (HE). Significance values are based on 10,000,000 Markov chain randomizations. The two-tailed probability test (pprob) was performed for all samples. The one-tailed heterozygote deficiency test (pheterodef) and one-tailed heterozygote excess test (pheteroexc) were performed if the probability test had significant results. Bolded p-values indicate significance (p<0.05) after Bonferroni correction (initial α = 0.05 / 6 = 0.0083). *samples <50 do not produce reliable test results.

Locus New

England mid-Atlantic Chesapeake

Bay U.S. south Atlantic

gulf menhaden

finescale menhaden

yellowfin menhaden

Aa16 no. samp. no. geno.

HO HE

pprob

47 13 0.723 0.734 0.122 ± 0.0012

51 10 0.588 0.625 0.571 ± 0.0010

117 14 0.590 0.630 0.606 ± 0.0020

53 14 0.887 0.913 0.242 ± 0.0017

49 11 0.449 0.447 0.693 ± 0.0041

24 7 0.500 0.507 0.313 ± 0.0020

24 4 0.375 0.325 1.00 ± 0.0000

Asa2 no. samp. no. geno.

HO HE

pprob

44 10 0.614 0.600 0.524 ± 0.0017

50 15 0.540 0.658 0.251 ± 0.0021

114 18 0.579 0.651 0.0219 ± 0.0008

68 15 0.662 0.657 0.504 ± 0.0019

49 14 0.653 0.661 0.432 ± 0.0039

25 1

24 2 0.143 0.117 1.00 ± 0.0000

Asa4 no. samp. no. geno.

HO HE

pprob pheterodef pheteroexc

44 16 0.75 0.723 0.819 ± 0.0018

47 23 0.809 0.839 0.372 ± 0.0033

102 30 0.824 0.823 0.0227 ± 0.0012

53 20 0.698 0.801 0.0126 ± 0.0007

44 18 0.681 0.791 0.0560 ± 0.0007

24 13 0.583 0.794 0.0012 ± 0.0001 0.0002 ± 0.0000 1.00 ± 0.0000

24 6 0.500 0.641 0.0046 ± 0.0001 0.199 ± 0.0012 0.803 ± 0.0011

Asa16 no. samp. no. geno.

HO HE

pprob pheterodef pheteroexc

45 32 0.660 0.809 0.0053 ± 0.0005

50 36 0.808 0.877 0.0473 ± 0.0018

111 65 0.729 0.856 0.0000 ± 0.0000 0.0000 ± 0.0000 1.00 ± 0.0000

69 40 0.797 0.900 0.0587 ± 0.0022

45 31 0.700 0.812 0.0272 ± 0.0010

25 12 0.880 0.741 0.844 ± 0.0014

24 7 0.640 0.582 0.544 ± 0.0012

Page 77: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

68

Table 6 cont. Hardy-Weinberg equilibrium test of association at the locus level for Atlantic menhaden (Brevoortia tyrannus), gulf menhaden (B. patronus), finescale menhaden (B. gunteri), and yellowfin menhaden (B. smithi) using the methods of Guo and Thompson (1992) based on eight microsatellite loci by region and overall samples: number of samples (no. samp.),* number of genotypes (no. geno.), observed heterozygosity (HO), and expected heterozygosity (HE). Significance values are based on 10,000,000 Markov chain randomizations. The two-tailed probability test (pprob) was performed for all samples. The one-tailed heterozygote deficiency test (pheterodef) and one-tailed heterozygote excess test (pheteroexc) were performed if the probability test had significant results. Bolded p-values indicate significance (p<0.05) after Bonferroni correction (initial α = 0.05 / 6 = 0.0083). *samples <50 do not produce reliable test results.

Locus New

England mid-Atlantic Chesapeake

Bay U.S. south Atlantic

gulf menhaden

finescale menhaden

yellowfin menhaden

AsaB020 no. samp. no. geno.

HO HE

pprob

47 29 0.787 0.894 0.0153 ± 0.0006

49 33 0.898 0.902 0.0663 ± 0.0027

116 60 0.905 0.887 0.444 ± 0.0061

66 41 0.833 0.888 0.416 ± 0.0060

49 38 0.439 0.458 0.0293 ± 0.0014

24 5 0.458 0.473 0.0592 ± 0.0004

23 1

AsaC334 no. samp. no. geno.

HO HE

pprob

49 12 0.531 0.593 0.417 ± 0.0028

51 6 0.431 0.435 0.734 ± 0.0012

114 14 0.588 0.636 0.428 ± 0.0012

63 10 0.556 0.570 0.588 ± 0.0018

49 25 0.878 0.857 0.494 ± 0.0017

11 8 0.909 0.814 0.775 ± 0.0012

17 7 0.529 0.595 0.142 ± 0.0013

AsaD055 no. samp. no. geno.

HO HE

pprob

44 34 0.841 0.910 0.386 ± 0.0036

36 26 0.917 0.916 0.106 ± 0.0019

113 60 0.894 0.916 0.029 ± 0.0012

63 48 0.905 0.924 0.633 ± 0.0037

45 34 0.867 0.916 0.0182 ± 0.0016

25 19 0.960 0.912 0.496 ± 0.0032

24 20 0.833 0.883 0.705 ± 0.0022

SarBH04 no. samp. no. geno.

HO HE

pprob pheterodef pheteroexc

40 17 0.675 0.720 0.492 ± 0.0048

49 20 0.694 0.759 0.368 ± 0.0042

111 28 0.631 0.739 0.382 ± 0.0050

56 23 0.661 0.791 0.0486 ± 0.0014

44 15 0.409 0.450 0.352 ± 0.0077

21 13 0.381 0.816 0.0000 ± 0.0000 0.0000 ± 0.0000 1.00 ± 0.0000

24 7 0.333 0.307 1.00 ± 0.0000

Page 78: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

69

Table 7. Modifed Cavalli-Sforza chord distances (DA; Nei et al. 1983) (above diagonal) and Nei’s standard genetic distances (DST; Nei 1972) (below diagonal) for Atlantic menhaden (Brevoortia tyrannus), gulf menhaden (B. patronus), finescale menhaden (B. gunteri), and yellowfin menhaden (B. smithi) based on seven microsatellite loci (Aa16, Asa2, Asa4, AsaB020, AsaD055, AsaC334, SarBH04).

New England

mid-Atlantic

Chesapeake Bay

U.S. south Atlantic

gulf menhaden

finescale menhaden

yellowfin menhaden

New England 0.227 0.184 0.178 0.363 0.626 0.684 mid-Atlantic 0.0263 0.181 0.169 0.378 0.618 0.670

Chesapeake Bay 0.0285 0.0136 0.152 0.352 0.600 0.661 U.S. south Atlantic

-0.00656 0.0156 0.0123 0.344 0.615 0.666

gulf menhaden 0.335 0.408 0.423 0.332 0.658 0.714 finescale

menhaden 0.668 0.614 0.614 0.632 0.774 0.427

yellowfin menhaden

0.745 0.702 0.702 0.718 0.844 0.324

Page 79: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

70

Table 8. Hierarchical variance partitioning and analysis of molecular variance (AMOVA) among Atlantic menhaden (Brevoortia tyrannus) and gulf menhaden (B. patronus) based on cytochorme c oxidase subunit I (COI) sequence data grouped by recruitment time for Chesapeake Bay samples, by age class (following the 2006 year class) for Chesapeake Bay samples, by age class for Chesapeake Bay in 2006 and 2007, by region for all Atlantic coast samples (New England, mid-Atlantic, Chesapeake Bay, and U.S. south Atlantic), by region for large scale-scale samples (New England, mid-Atlantic, Chesapeake Bay, U.S. south Atlantic, and gulf menhaden), and by putative species (Atlantic and gulf menhaden). The distance method used was pairwise differences with 10,000 permutations. Bolded p-values indicate significance (p<0.05) after Bonferroni correction (initial α = 0.05 / 2 = 0.025).

Variance % total Ф Statistics p Grouped by recruitment time between recruitment times -0.0389 -0.621 ФST = -0.00621 0.692 within a recruitment time 6.31 100.621 Grouped by age class (in successive years) between years -0.174 -2.95 ФST = -0.0295 1.00 within year 6.06 102.95 Grouped by age class (within 2006) between age classes -0.0437 -0.773 ФST = -0.00773 0.963 within an age class 5.70 100.773 Grouped by age class (within 2007) between age classes -0.0430 -0.659 ФST = -0.00659 0.969 within an age class 6.57 100.659 Grouped by region (Atlantic coast only) Among regions -0.0547 -0.87 ФST = -0.00873 1.00 within a region 6.32 100.87 Grouped by region (Atlantic and Gulf combined) Among regions 0.360 6.01 ФST = 0.0601 0.00000 within a region 5.63 93.99

Page 80: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

71

Table 8 cont. Hierarchical variance partitioning and analysis of molecular variance (AMOVA) among Atlantic menhaden (Brevoortia tyrannus) and gulf menhaden (B. patronus) based on cytochorme c oxidase subunit I (COI) sequence data grouped by recruitment time for Chesapeake Bay samples, by age class (following the 2006 year class) for Chesapeake Bay samples, by age class for Chesapeake Bay in 2006 and 2007, by region for all Atlantic coast samples (New England, mid-Atlantic, Chesapeake Bay, and U.S. south Atlantic), by region for large scale-scale samples (New England, mid-Atlantic, Chesapeake Bay, U.S. south Atlantic, and gulf menhaden), and by putative species (Atlantic and gulf menhaden). The distance method used was pairwise differences with 10,000 permutations. Bolded p-values indicate significance (p<0.05) after Bonferroni correction (initial α = 0.05 / 2 = 0.025). Variance % total Ф Statistics p Grouped by putative species (Atlantic and Gulf menhaden) between species 1.24 18.2 ФST = 0.175 0.00000 among regions within a species -0.0447 -0.655 ФSC = -0.00800 1.00 within a region 5.63 82.5

Page 81: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

72

Table 9. Hierarchical variance partitioning and analysis of molecular variance (AMOVA) among Atlantic menhaden (Brevoortia tyrannus) and gulf menhaden (B. patronus) based on seven microsatellite loci (Aa16, Asa2, Asa4, AsaB020, AsaD055, AsaC334, SarBH04) grouped by recruitment time for Chesapeake Bay samples, by age class (following the 2006 year class) for Chesapeake Bay samples, by age class for Chesapeake Bay in 2006 and 2007, by region for all Atlantic coast samples (New England, mid-Atlantic, Chesapeake Bay, and U.S. south Atlantic), by latitude for the Atlantic coast samples (north = New England and mid-Atlantic, south = Chesapeake Bay and U.S. south Atlantic), by region for large scale-scale samples (New England, mid-Atlantic, Chesapeake Bay, U.S. south Atlantic, and gulf menhaden), and by putative species (Atlantic and gulf menhaden). The distance method used was number of different alleles (FST) with 10,000 permutations. Bolded p-values indicate significance (p<0.05) after Bonferroni correction (initial α = 0.05 / 2 = 0.025).

Variance % total F Statistics p Grouped by recruitment time between recruitment times -0.0109 -0.41 FST =-0.00413 0.743 within a recruitment time 2.65 100.41 Grouped by age class (in successive years) between years 0.0483 1.80 FST =0.0180 0.0176 within year 2.64 98.20 Grouped by age class (within 2006) between age classes 0.0271 1.06 FST =0.0106 0.0929 within an age class 2.52 98.94 Grouped by age class (within 2007) between age classes 0.0140 0.52 FST =0.00520 0.160 within an age class 2.67 99.48 Grouped by region (Atlantic coast only) among regions 0.0152 0.575 FST = 0.00575 0.00000 within a region 2.62 99.42 Grouped by latitude (north, south: Atlantic coast only) between north and south -0.00294 -0.112 FST = 0.00535 0.00098 within the latitudinal grouping 0.0171 0.646 FSC = 0.00646 0.00000 within a region 2.62 99.47

Page 82: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

73

Table 9 cont. Hierarchical variance partitioning and analysis of molecular variance (AMOVA) among Atlantic menhaden (Brevoortia tyrannus) and gulf menhaden (B. patronus) based on seven microsatellite loci (Aa16, Asa2, Asa4, AsaB020, AsaD055, AsaC334, SarBH04) grouped by recruitment time for Chesapeake Bay samples, by age class (following the 2006 year class) for Chesapeake Bay samples, by age class for Chesapeake Bay in 2006 and 2007, by region for all Atlantic coast samples (New England, mid-Atlantic, Chesapeake Bay, and U.S. south Atlantic), by latitude for the Atlantic coast samples (north = New England and mid-Atlantic, south = Chesapeake Bay and U.S. south Atlantic), by region for large scale-scale samples (New England, mid-Atlantic, Chesapeake Bay, U.S. south Atlantic, and gulf menhaden), and by putative species (Atlantic and gulf menhaden). The distance method used was number of different alleles (FST) with 10,000 permutations. Bolded p-values indicate significance (p<0.05) after Bonferroni correction (initial α = 0.05 / 2 = 0.025).

Variance % total F Statistics p Grouped by region (large-scaled menhaden combined) among regions 0.128 4.68 FST = 0.0468 0.00000 within a region 2.61 95.32 Grouped by putative species (Atlantic and Gulf menhaden) between species 0.344 11.50 FST = 0.120 0.00000 among regions within a species 0.0153 0.517 FSC = -0.00584 0.00000 within a region 2.61 88.0

Page 83: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

74

Table 10. Hierarchical variance partitioning and analysis of molecular variance (AMOVA) among Atlantic menhaden (Brevoortia tyrannus) and gulf menhaden (B. patronus) based on seven microsatellite loci (Aa16, Asa2, Asa4, AsaB020, AsaD055, AsaC334, SarBH04) grouped by recruitment time for Chesapeake Bay samples, by age class (following the 2006 year class) for Chesapeake Bay samples, by age class for Chesapeake Bay in 2006 and 2007, by region for all Atlantic coast samples (New England, mid-Atlantic, Chesapeake Bay, and U.S. south Atlantic), by region for large scale-scale samples (New England, mid-Atlantic, Chesapeake Bay, U.S. south Atlantic, and gulf menhaden), and by putative species (Atlantic and gulf menhaden). The distance method used was number of different alleles (RST) with 10,000 permutations. Bolded p-values indicate significance (p<0.05) after Bonferroni correction (initial α = 0.05 / 2 = 0.025).

Variance % total F Statistics p Grouped by recruitment time between recruitment times 6.98 1.27 FST =0.0127 0.246 Within a recruitment time 541.3 98.73 Grouped by age class (in successive years) between years -5.31 -0.828 FST =-0.00828 0.730 Within year 647.3 100.83 Grouped by age class (within 2006) between age classes -5.17 -0.923 FST =-0.00923 0.678 Within an age class 565.3 100.923 Grouped by age class (within 2007) between age classes -2.25 -0.389 FST = -0.00389 0.580 Within an age class 581.9 100.389 Grouped by region (Atlantic coast only) among regions -0.382 -0.0665 FST = -0.00066 0.634 within a region 574.1 100.0665 Grouped by region (large-scaled menhaden combined) among regions 13.29 16.89 FST = 0.169 0.00000 within a region 65.37 83.11

Page 84: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

75

Table 10 cont. Hierarchical variance partitioning and analysis of molecular variance (AMOVA) among Atlantic menhaden (Brevoortia tyrannus) and gulf menhaden (B. patronus) based on seven microsatellite loci (Aa16, Asa2, Asa4, AsaB020, AsaD055, AsaC334, SarBH04) grouped by recruitment time for Chesapeake Bay samples, by age class (following the 2006 year class) for Chesapeake Bay samples, by age class for Chesapeake Bay in 2006 and 2007, by region for all Atlantic coast samples (New England, mid-Atlantic, Chesapeake Bay, and U.S. south Atlantic), by region for large scale-scale samples (New England, mid-Atlantic, Chesapeake Bay, U.S. south Atlantic, and gulf menhaden), and by putative species (Atlantic and gulf menhaden). The distance method used was number of different alleles (RST) with 10,000 permutations. Bolded p-values indicate significance (p<0.05) after Bonferroni correction (initial α = 0.05 / 2 = 0.025).

Variance % total F Statistics p Grouped by putative species (Atlantic and gulf menhaden) between species 41.28 38.75 FST = 0.386 0.00000 among regions within a species -0.120 -0.113 FSC = -0.00185 0.727 within a region 65.37 61.36

Page 85: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

76

Table 11. Estimates of pairwise FST (below diagonal) and respective p-values (above diagonal) between regions of Atlantic menhaden (Brevoortia tyrannus), gulf menhaden (B. patronus), finescale menhaden (B. gunteri), and yellowfin menhaden (B. smithi) based on seven microsatellite loci (Aa16, Asa2, Asa4, AsaB020, AsaD055, AsaC334, SarBH04) after 10,000 permutations. Bolded p-values indicate significance (p<0.05) after sequential Bonferroni correction (initial α = 0.05 / 2 = 0.025).

New England

mid-Atlantic

Chesapeake Bay

U.S. south Atlantic

all Atlantic

gulf menhaden

finescale menhaden

yellowfin menhaden

New England 0.252 0.180 0.973 0.000000 0.000000 0.000000 mid-Atlantic 0.00293 0.748 0.0811 0.000000 0.000000 0.000000 Chesapeake

Bay 0.00233 -0.00211 0.0270 0.000000 0.000000 0.000000

U.S. south Atlantic

-0.00631 0.00679 0.00505 0.000000 0.000000 0.000000

all Atlantic 0.000000 0.000000 0.000000 gulf

menhaden 0.0786 0.117 0.122 0.0818 0.104 0.000000 0.000000

finescale menhaden

0.371 0.327 0.320 0.333 0.309 0.436 0.000000

yellowfin menhaden

0.447 0.410 0.374 0.402 0.360 0.512 0.584

Page 86: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

77

Table 12. Estimates of pairwise RST (below diagonal) and respective p-values (above diagonal) between regions of Atlantic menhaden (Brevoortia tyrannus), gulf menhaden (B. patronus), finescale menhaden (B. gunteri), and yellowfin menhaden (B. smithi) based on seven microsatellite loci (Aa16, Asa2, Asa4, AsaB020, AsaD055, AsaC334, SarBH04) after 10,000 permutations. Bolded p-values indicate significance (p<0.05) after sequential Bonferroni correction (initial α = 0.05 / 2 = 0.025).

New England

mid-Atlantic

Chesapeake Bay

U.S. south Atlantic

all Atlantic

gulf menhaden

finescale menhaden

yellowfin menhaden

New England 0.288 0.981 0.972 0.00000 0.00000 0.00000 mid-Atlantic -0.00002 0.496 0.243 0.00901 0.00000 0.00000 Chesapeake

Bay -0.0112 -0.00214 0.883 0.00000 0.00000 0.00000

U.S. south Atlantic

-0.0116 0.00111 -0.00559 0.00089 0.00000 0.00000

all Atlantic 0.00000 0.00000 0.00000 gulf

menhaden 0.0908 0.101 0.110 0.0862 0.118 0.00000 0.00000

finescale menhaden

0.717 0.628 0.621 0.662 0.637 0.734 0.00000

yellowfin menhaden

0.764 0.683 0.673 0.711 0.686 0.769 0.182

Page 87: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

78

Table 13. Estimates of pairwise ΦST (below diagonal) and respective p-values (above diagonal) between regions of Atlantic menhaden (Brevoortia tyrannus), gulf menhaden (B. patronus), finescale menhaden (B. gunteri), and yellowfin menhaden (B. smithi) based on cytochorme c oxidase subunit I (COI) sequence data after 10,000 permutations. Bolded p-values indicate significance (p<0.05) after sequential Bonferroni correction (initial α = 0.05 / 2 = 0.025).

New England

mid-Atlantic

Chesapeake Bay

U.S. south Atlantic

all Atlantic

gulf menhaden

finescale menhaden

yellowfin menhaden

New England 0.854 0.787 0.705 0.00000 0.00000 0.00000 mid-Atlantic -0.0142 0.962 0.722 0.0000 0.00000 0.00000 Chesapeake

Bay -0.0100 -0.0112 0.440 0.0000 0.00000 0.00000

U.S. south Atlantic

-0.0108 -0.00991 -0.00299 0.0000 0.00000 0.00000

all Atlantic 0.0000 0.00000 0.00000 gulf

menhaden 0.244 0.213 0.192 0.236 0.178 0.00000 0.00000

finescale menhaden

0.595 0.563 0.580 0.545 0.564 0.804 0.298

yellowfin menhaden

0.482 0.450 0.485 0.438 0.478 0.705 0.00347

Page 88: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

79

Table 14. Literature values of within-sample microsatellite variation: number of loci (# loci), allelic diversity (A; alleles per locus) and expected heterozygosity (HE).

Species # loci A HE Reference allis shad (Alosa alosa) 8 3-9 0.241-0.805 Faria et al. 2004 American shad (A. sapidissima) 6 7-29 0.73-0.92 Brown et al. 2000 Atlantic herring (Clupea harengus) 9

9 12 12 4

15.2-17.7 2-21 12-56 9-56 13-41

0.818-0.843 0.269-0.932 0.66-0.98 0.73-0.95 0.88-.95

Mariani et al. 2005 Jǿrgensen et al. 2005 McPherson et al. 2001 Miller et al. 2001 Shaw et al. 1999

Atlantic menhaden (B. tyrannus) 4 3-20 0.67 Anderson 2007 finescale menhaden (B. gunteri) 4

5 1-11 3-13

0.41 0.066-0.823

Anderson 2007 Anderson and McDonald 2007

gulf menhaden (B. patronus) 4 5

4-19 8-21

0.67 0.126-0.923

Anderson 2007 Anderson and McDonald 2007

Pacific herring (C. pallasi) 5 14 5

8-44 5-49 12-26

0.815-0.945 0.20-0.96 0.737-0.942

Sugaya et al. 2008 Olsen et al. 2002 O’Connell et al. 1998

twaite shad (A. fallax) 9 8

4-12 3-7

0.151-0.811 0.234-0.692

Volk et al. 2007 Faria et al. 2004

yellowfin menhaden (B. smithi) 4 2-8 0.37 Anderson 2007

Page 89: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

80

Table 15. Statistically significant literature values of FST between genetically distinct stocks (after sequential Bonferroni correction).

Species # Loci FST Reference Arctic charr (Salvelinus alpines) 5 0.031 - 0.055, p < 0.05 Westgaard et al. 2004 Atlantic herring (Clupea harengus) 4 0.008 - 0.043, p < 0.001 Shaw et al. 1999 coastal cutthroat trout (Oncorhynchus clarki clarki) 6 0.064-0.226, p < 0.05 Wenburg et al. 1998 cod (Gadus morhua) 6 0.001-0.109, p < 0.05 O’Leary et al. 2007 common carp (Cyprinus carpio) 4 0.05, p < 0.001 Lehoczky et al. 2005 Japanese flounder (Paralichthys olivaceus) 11 0.012-0.077, p < 0.005 Sekino and Hara 2001 Pacific herring (C. pallasii) 5 0.046-0.173, p < 0.05 Sugaya et al. 2008 Patagonian toothfish (Dissostichus eleginoides) 8 0.017-0.059, p < 0.05 Smith and McVeagh 2000 redfin culter (Culter erythropterus) 5 0.062, p < 0.001 Wang et al. 2006

Page 90: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

FIGURES

Page 91: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

82

A)

B) Figure 1. A) Map of ranges of the North American menhaden species: Atlantic menhaden (Brevoortia tyrannus), gulf menhaden (B. patronus), yellowfin menhaden (B. smithi), and finescale menhaden (B. gunteri). B) Map of sampling locations in the Atlantic Ocean and the Gulf of Mexico.

Atlantic menhaden

gulf menhaden

yellowfin menhaden

finscale menhaden

Atlantic menhaden

gulf menhaden

yellowfin menhaden

finscale menhaden

Page 92: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

83

Figure 2. Unweighted pair group method with arithmetic mean (UPGMA) trees of a preliminary survey of Atlantic menhaden (Brevoortia tyrannus, n=25) and gulf menhaden (B. patronus, n=3) A) mitochondrial control region sequences and B) cytochrome c oxidase subunit I sequences. The samples are coded by region (M, P, Y=Chesapeake Bay, G=Gulf of Mexico), age (J=yearling, Y=YOY) and year collected (6=2006, 7=2007). Divergence of clades is given as an absolute number of base pair differences.

P621Y P624Y M605Y P613Y P622Y P623Y Y627J M601Y P620Y P609Y P610Y P616Y P612Y P626Y M604Y M602Y P617Y Y628J Y629J G601Y G608Y P611Y G602Y P619Y P613Y Y630J P615Y P618Y

P621Y P620Y P622Y P624Y M605Y P613Y

P609Y

P623Y

M601Y

Y627J P615Y P626Y P612Y P611Y P619Y P613Y Y628J G602Y G608Y G601Y Y629J M604Y M602Y

P616Y P610Y

P618Y P617Y Y630J

Page 93: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

84

A) B) C) Figure 3. Nucleotide substitution patterns observed in pairwise comparisons of an initial survey of Brevoortia mitochondrial A) control region sequences overall, B) cytochrome c oxidase subunit I (COI) sequences overall, and C) COI third codon positions. The x-axis is the Kimura (1980) distances between sequences; the y-axis represents transitions (blue Xs) and transversions (green triangles).

Page 94: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

85

Figure 4. Median-joining network of 109 Atlantic menhaden (Brevoortia tyrannus, n=289) cytochrome c oxidase subunit I (COI) haplotypes. The observed haplotypes are sized according to frequency by regional proportions: New England (n=50; green), mid-Atlantic (n=53; aqua), Chesapeake Bay (n=117; red), U.S. south Atlantic, (n=69; yellow). The hypothesized intermediate haplotypes are displayed in gray.

17 nucleotides

24 nucleotides

anomalous samples

“ubiquitous large-scaled”

clade

“Atlantic only” clade

• New England

• mid-Atlantic

• Chesapeake Bay

• U.S. south Atlantic

Page 95: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

86

Figure 5. Median-joining network of 124 Atlantic menhaden (Brevoortia tyrannus, n=289), gulf menhaden (B. patronus, n=50) cytochrome c oxidase subunit I (COI) haplotypes. The observed haplotypes are sized according to frequency by species proportion: Atlantic menhaden (navy), gulf menhaden (orange). The hypothesized intermediate haplotypes are displayed in gray.

17 nucleotides

24 nucleotides

anomalous samples

“ubiquitous large-scaled”

clade

“Atlantic only” clade

• Atlantic menhaden

• gulf menhaden

Page 96: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

87

Figure 6. Median-joining network of 145 Atlantic menhaden (Brevoortia tyrannus, n=289), gulf menhaden (B. patronus, n=50), yellowfin menhaden (B. smithi, n=25), and finescale menhaden (B. gunteri, n=25) cytochrome c oxidase subunit I (COI) haplotypes. The observed haplotypes are sized according to frequency by species proportion: Brevoortia tyrannus (navy); B. patronus (orange); B. gunteri (purple); B. smithi (yellow). The hypothesized intermediate haplotypes are displayed in gray.

• yellowfin menhaden

15 nucleotides

22 nucleotides

“ubiquitous large-scaled”

clade

“Atlantic only” clade

“small-scaled” clade

• gulf menhaden

• Atlantic menhaden

• finescale menhaden

Page 97: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

88

Figure 7. Median-joining network of 214 Atlantic menhaden (Brevoortia tyrannus, n=76), gulf menhaden (B. patronus, n=73), yellowfin menhaden (B. smithi, n=57), and finescale menhaden (B. gunteri, n=15) control region haplotypes from Anderson (2007) and three anomalous samples from this study (outlined in red). The observed haplotypes are sized according to frequency by species proportion: Brevoortia tyrannus (navy); B. patronus (orange); B. gunteri (purple); B. smithi (yellow).

“ubiquitous large-scaled” clade

“Atlantic only” clade

“small-scaled” clade

• Atlantic menhaden

• gulf menhaden

• yellowfin menhaden

• finescale menhaden

Page 98: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

89

Figure 8. Unrooted maximum likelihood tree of 145 Atlantic menhaden (Brevoortia tyrannus, n=289), gulf menhaden (B. patronus, n=50), yellowfin menhaden (B. smithi, n=25), and finescale menhaden (B. gunteri, n=25) cytochrome c oxidase subunit I (COI) haplotypes using maximum likelihood distances calculated by the HKY + I + Γ model (Hasegawa et al. 1985). For haplotype codes by region and sample, see Appendix 3. Nodal support was assessed with bootstrapping (10 pseudoreplicates, 10 random addition) and the numbers below each data bipartion indicate bootstrap support (if >50%).

Page 99: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

90

Figure 9. Unrooted Bayesian tree of 145 Atlantic menhaden (Brevoortia tyrannus, n=289), gulf menhaden (B. patronus, n=50), yellowfin menhaden (B. smithi, n=25), and finescale menhaden (B. gunteri, n=25) cytochrome c oxidase subunit I (COI) haplotypes using maximum likelihood distances calculated by the HKY + I + Γ model (Hasegawa et al. 1985). For haplotype codes by region and sample, see Appendix 3. The analysis used Markov Chain Monte Carlo simulations with 4,000,000 generations sampled every 1,000 generations.

Page 100: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

91

Figure 10. Unrooted maximum parsimony tree of 145 Atlantic menhaden (Brevoortia tyrannus, n=289), gulf menhaden (B. patronus, n=50), yellowfin menhaden (B. smithi, n=25), and finescale menhaden (B. gunteri, n=25) cytochrome c oxidase subunit I (COI) haplotypes. For haplotype codes by region and sample, see Appendix 3. Nodal support was assessed with bootstrapping (100 pseudoreplicates, 10 random addition) and the numbers below each data bipartion indicate bootstrap support (if >50%).

Page 101: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

92

Figure 11. Unweighted pair group method with arithmetic mean (UPGMA) tree of an initial survey of Atlantic menhaden (Brevoortia tyrannus, n=9), gulf menhaden (B. patronus, n=1), yellowfin menhaden (B. smithi, n=1), and finescale menhaden (B. gunteri, n=1) internal transcribed spacer 1 sequences. The samples are coded by location (New England = A, mid Atlantic = D, Chesapeake Bay = M, P, Y, U.S. south Atlantic = AS, gulf menhaden = G, yellowfin menhaden = smithi, finescale menhaden = gunteri), age (J = yearling, Y = YOY), year collected (6=2006, 7=2007), and clone number (the final digit). Divergence of clades is given as absolute number of base pair differences. Nodal support was assessed with bootstrapping (1,000 pseudoreplicates, systematic tie breaking) and the numbers of below each data bipartion indicate bootstrap support (if >50%).

Page 102: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

93

135 140 145 150 155 160

Aa16

210 215 220 225 230 235

Asa2

156 176 196 216

Asa4

223 243 263 283

Asa16

127 147 167 187

AsaB020

238 258 278 298 318

AsaD055

118 128 138 148 158

AsaC334

189 199 209 219

SarBH04

A) B) C) D) E) F) G) H) Figure 12. Allele ranges by region for the 8 microsatellite loci: A) Aa16, B) Asa2, C) Asa4, D) Asa16, E) AsaB020, F) AsaD055, G) AsaC334, H) SarBH04. Samples are coded by region in descending order: full allele range (white); Brevoortia tyrannus, New England (green), mid-Atlantic (aqua), Chesapeake Bay (red), U.S... south Atlantic (yellow); B. patronus (purple); B. gunteri (orange); B. smithi (navy).

Page 103: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

94

0.1

NE

CB

NJ

SC

Pat

gun

smi

Pat

gun

smi

SC

NJ CBNE

A) B) Figure 13. Unrooted neighbor-joining trees of Atlantic menhaden (Brevoortia tyrannus) sampling regions: New England (NE), mid-Atlantic (NJ), Chesapeake Bay (CB), and U.S. south Atlantic (SC); gulf menhaden (B. patronus); finescale menhaden (B. gunteri); and yellowfin menhaden (B. smithi) with 7 microsatellite loci (Aa16, Asa2, Asa4, AsaB020, AsaD055, AsaC334, SarBH04) using A) modified Cavalli-Sforza chord distance (DA; Nei et al. 1983) and B) Nei’s standard genetic distance (DST; Nei 1972).

B. gunteri

B. smithi

B. patronus

U.S. south Atlantic

New England

Chesapeake Bay

mid-Atlantic

B. gunteri

B. smithi

B. patronus

Page 104: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

95

-

-

A) B) Figure 14. Unrooted neighbor-joining trees of Atlantic menhaden (Brevoortia tyrannus) sampling regions (New England, mid-Atlantic, Chesapeake Bay, and U.S. south Atlantic) and gulf menhaden (B. patronus) as an outgroup with 7 microsatellite loci (Aa16, Asa2, Asa4, AsaB020, AsaD055, AsaC334, SarBH04) using A) modified Cavalli-Sforza chord distance (DA; Nei et al. 1983) and B) Nei’s standard genetic distance (DST; Nei 1972).

Page 105: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

96

A) B) C) Figure 15. Spatial representation of genetic relationships based on 7 microsatellite loci (Aa16, Asa2, Asa4, AsaB020, AsaD055, AsaC334, SarBH04) between A) Atlantic menhanden, Brevoortia tyrannus: New England (yellow), mid-Atlantic (blue), Chesapeake Bay (white), U.S. south Atlantic (gray), B) large-scale menhaden, B. tyrannus: New England (yellow), mid-Atlantic (blue), Chesapeake Bay (white), U.S. south Atlantic (gray); B. patronus (magenta), C) North American Brevoortia, B. tyrannus: New England (yellow), mid-Atlantic (blue), Chesapeake Bay (white), U.S. south Atlantic (gray); B. patronus (magenta); B. gunteri (aqua); B. smithi (navy).

■ New England

■ mid-Atlantic

Chesapeake Bay

■ U.S. south Atlantic

■ New England

■ mid-Atlantic

Chesapeake Bay

■ U.S. south Atlantic

■ gulf menhaden

■ New England

■ mid-Atlantic

Chesapeake Bay

■ U.S. south Atlantic

■ gulf menhaden

■ finescale menhaden

■ yellowfin menhaden

Page 106: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

LITERATURE CITED

Page 107: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

98

Ahrenholz D. W. 1991. Population biology and life history of the North American menhadens, Brevoortia spp. Marine Fisheries Review; Marine Fisheries Review 53:2-19.

Anderson J. D. 2007. Systematics of the North American menhadens: molecular evolutionary reconstructions in the genus Brevoortia (Clupeiformes: Clupeidae). Fishery Bulletin 205:368-378.

Anderson J. D., W. J. Karel. 2007. Genetic evidence for asymmetric hybridization between menhadens (Brevoortia spp.) from peninsular Florida. Journal of Fish Biology 71:235-249.

Anderson J. D., D. L. McDonald. 2007. Morphological and genetic investigations of two western Gulf of Mexico menhadens (Brevoortia spp.). Journal of Fish Biology 70:139-147.

ASMFC. 2005. Addendum II to Amendment 1 to the Interstate Fishery Management Plan for Atlantic Menhaden. 2:1-29.

ASMFC. 2006 Stock assessment report for Atlantic menhaden. Washington, D.C.: ASMFC; September 6, 2006.

ASMFC. 2007 Review of the Fishery Management Plan and State Compliance for the 2006 Atlantic menhaden (Brevoortia tryrannus) fishery. Washington, D.C.: ASMFC; 2007 May 2007.

Atarhouch T., L. Ruber, E. G. Gonzalez, E. M. Albert, M. Rami, A. Dakkak, and R. Zardoya. 2006. Signature of an early genetic bottleneck in a population of Moroccan sardines (Sardina pilchardus). Molecular Phylogenetics and Evolution 39:373-383.

Avise J. C. 1992. Molecular population structure and biogeographic history of a regional fauna: a case history with lessons for conservation biology. Oikos 63:62-76.

Avise J. C., J. Arnold, R. M. Ball, E. Bermingham, T. Lamb, J. E. Neigel, C. A. Reeb, and N. C. Saunders. 1987. Intraspecific phylogeny: the mitochondrial DNA bridge between population genetics and systematics. Annual Reviews of Ecology and Systematics 18:489-522.

Page 108: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

99

Avise J. C., B. W. Bowen, and T. Lamb. 1989. DNA fingerprints from hypervariable mitochondrial genotypes. Molecular Biology and Evolution 6:258-269.

Bandelt H., P. Forster, and A. Röhl. 1999. Median-joining networks for inferring intraspecific phylogenies. Molecular Biology and Evolution 16:37-48.

Belkir K., P. Borsa, L. Chickhi, N. Raufaste, and F. Bonhomme. 2000. Genetix (version 4.04) logiciel sous WindowsTM, pour la génétique des populations. Laboratoire Génome, Populations, Interactions, CNRS UMR 5000: Université de Montpellier II-Montpellier, France.

Bigelow H. B., M. G. Bradbury, J. R. Dymond, J. R. Greeley, S. F. Hildebrand, G. W. Mead, R. R. Miller, L. R. Rivas, W. C. Schroeder, R. D. Suttkus, and V. D. Vladykov. 1963. Genus Brevoortia Gill 1861: Menhaden. Pages 342-380 In H. B. Bigelow, editor. Fishes of the Western North Atlantic, Sears Foundation for Marine Research, Yale University, New Haven, Connecticut.

Bowen B. W., J. C. Avise. 1990. Genetic structure of Atlantic and Gulf of Mexico populations of sea bass, menhaden, and sturgeon: influence of zoogeographic factors and life-history patterns. Marine Biology 107:371-381.

Brendtro K. S., J. R. McDowell, and J. E. Graves. 2008. Population genetic structure of escolar (Lepidocybium flavobrunneum). Marine Biology 304:10 June 2008.

Brown B. L., T. P. Gunter, J. M. Waters, and J. M. Epifanio. 2000. Evaluating genetic diversity associated with propagation-assisted restoration of American shad. Conservation Biology 14:294-303.

Bryant D., V. Moulton. 2002. NeighborNet: An agglomerative method for the construction of planar phylogenetic networks. Molecular Biology and Evolution 21:255-265.

Burnes E. L., M. D. B. Eldridge, and B. Houlden. 2006. Microsatellite variation and population structure in a declining Australian Hylid Litoria aurea. Molecular Ecology Notes 7:519-921.

Campana S. E., G. A. Chourinard, J. M. Hanson, and A. Frechet. 1999. Mixing and migration of overwintering Atlantic cod (Gadus morhua) stocks near the mouth of the Gulf of St. Lawrence. Canadian Journal of Fisheries and Aquatic Sciences 56:1873-1881.

Page 109: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

100

Cann R. L., W. M. Brown, and A. C. Wilson. 1984. Polymorphic sites and the mechanism of evolution in human mitochondrial DNA. Genetics 106:479-499.

Carvalho G. R., L. Hauser. 1994. Molecular genetics and the stock concept in fisheries. Reviews in Fisheries and Fish Biology 4:326-350.

Checkley D. M., S. Raman, G. L. Mailet, and K. M. Mason. 1988. Winter storm effects on the spawning and larval drift of a pelagic fish. Nature 335:346-348.

Dahlberg M. D. 1970. Atlantic and Gulf of Mexico menhadens, Genus Brevoortia (Pisces: Clupeidae). Bulletin of the Florida State Museum 15:91-162.

Dieringer D., C. Schlötterer. 2003. Microsatellite analyzer (MSA): a platform independent analysis tool for large microsatellite data sets. Molecular Ecology Notes 3:167-169.

Dimmick W. W., D. R. Edds. 2002. Evolutionary genetics of the endemic schizorathicine (Cypriniformes: Cyprinidae) fishes of Lake Rara, Nepal. Biochemical Systematics and Ecology 30:919-929.

Dryfoos R. L., R. P. Cheek, and R. L. Kroger. 1973. Preliminary analyses of Atlantic menhaden, Brevoortia tyrannus, migrations, population structure, survival and exploitation rates, and availability as indicated from tag returns. Fishery Bulletin 71:719-734.

Durbin A. G., E. G. Durbin. 1975. Grazing rates of the Atlantic menhaden Brevoortia tyrannus as a function of particle size and concentration. Marine Biology 33:265-277.

Echelle A. F., A. A. Echelle, L. R. Williams, C. S. Toepfer, and W. L. Fischer. 1999. Allozyme perspective on genetic variation in a threatened percid fish, the leopard darter (Percina pantherina). American Midland Naturalist 142:393-400.

Epperly S. P. 1989. A meristic, morphometric and biochemical investigation of Atlantic menhaden, Brevoortia tryannus (Latrobe). Journal of Fish Biology 35:139-152.

Excoffier L., G. Laval, and S. Schneider. 2005. Arlequin (version 3.0): an integrated software package for population genetics data analysis. Evolutionary Bioinformatics Online 1:47-50.

Page 110: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

101

Excoffier L., P. E. Smouse, and J. M. Quattro. 1992. Analysis of molecular variance inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction data. Genetics 131:479-491.

Faria R., S. Wallner, S. Weiss, and P. Alexandrino. 2004. Isolation and characterization of eight dinucleotide microsatellite loci from two closely related clupeid species (Alosa alosa and A. fallax). Molecular Ecology Notes 4:586-588.

Felsenstein J. 1985. Confidence limits on phylogenies: An approach using the bootstrap. Evolution 39:783-791.

Franklin H. B. 2007. The most important fish in the sea: menhaden and America. Island Press, St. Louis, MO.

Friedland K. D., L. W. Hass. 1988. Emigration of juvenile Atlantic menhaden, Brevoortia tyrannus (Pisces: Clupeidae), from the York River estuary. Estuaries 11:45-50.

García D. M., M. Marmontel, F. W. Rosas, and F. R. Santos. 2007. Conservation genetics of the giant otter (Pteronura brasiliensis) (Zimmerman, 1780) (Carnivora, Mustelidae). Brazilian Journal of Biology 67:819-827.

Goldsborough B. 2006. "A Huge Step Forward" - How the menhaden catch was capped. SavetheBay 32:4-5.

Gonzalez E. G., R. Zardoya. 2007. Isolation and characterization of polymorphic microsatellites for the sardine Sardina pilchardus (Clupeiformes: Clupeidae). Molecular Ecology Notes 7:519-921.

Goudet J. 1995. FSTAT (version 1.2): A computer program to calculate F- statistics. Journal of Heredity 86:485-486.

Grant W. S. 1984. Biochemical population genetics of Atlantic herring, Clupea harengus. Copeia 1984:357-364.

Grant W. S. 1985. Biochemical genetic stock structure of the southern African anchovy, Engraulis capensis Gilchrist. Journal of Fish Biology 27:23-29.

Grant W. S., B. W. Bowen. 1998. Shallow population histories in deep evolutionary lineages of marine fishes: insights from sardines and anchovies and lessons for conservation. The American Genetic Association 89:415-426.

Page 111: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

102

Grant W. S., G. Stahl. 1988. Description of electrophoretic loci in Atlantic cod, Gadus morhua, and comparison with Pacific cod, Gadus macrocephalus. Hereditas 108:27-36.

Grant W. S., F. M. Utter. 1984. Biochemical population genetics of Pacific herring (Clupea pallasi). Canadian Journal of Fisheries and Aquatic Sciences 41:864.

Gray, K., unpublished. Control Region primer sequence. Virginia Institute of Marine Science: Forward.

Guo S. W., E. A. Thompson. 1992. Performing the exact test for Hardy-Weinberg proportion for multiple alleles. Biometrics 48:361-372.

Harris, D. J. and Crandall, K. A. 2000. Intragenomic variation within ITS1 and ITS2 of freshwater crayfishes (Decapoda: Cambaridae): implications for phylogenetic and microsatellite studies. Molecular Biology and Evolution 17: 284–291.

Hartl D. L., A. G. Clark. 2007. Principles of population genetics. Sinauer, Sunderland, Massachusetts.

Hartman K. J., S. B. Brandt. 1995. Trophic resource partitioning, diets, and growth of sympatric estuarine predators. Transactions of the American Fisheries Society 124:520-537.

Hasegawa M., H. Kishino, and T. Yano. 1985. Dating of the human-ape splitting by a molecular clock of mitochondrial DNA. Journal of Molecular Evolution 22:160-174.

Hauser L., C. Turan, and G. R. Carvalho. 2001. Haplotype frequency distribution and discriminatory power of two mtDNA fragments in a marine pelagic teleost (Atlantic herring, Clupea harengus). Heredity 87:621-630.

Hellberg M. E., R. S. Burton, J. E. Neigel, and S. R. Palumbi. 2002. Genetic assessment of connectivity among marine populations. Bulletin of Marine Science 70:273-290.

Higgins K., M. Lynch. 2001. Metapopulation extinction caused by mutation accumulation. Proceedings of the National Academy of Sciences 98:2928-2933.

Page 112: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

103

Higham J. R., W. R. Nicholson. 1964. Sexual maturation and spawning of Atlantic menhaden. Fishery Bulletin 63:255-271.

Hubert N., R. Hanner, E. Holm, N. E. Mandrak, E. Taylor, M. Burridge, D. Watkinson, P. Dumont, A. Curry, P. Bentzen, J. Zhang, J. April, and L. Bernatchez. 2008. Identifying Canadian freshwater fishes through DNA barcodes. PLoS ONE 3:1-45.

Huelsenbeck J. P., B. Rannala. 2004. Frequentist properties of Bayesian posterior probabilities of phylogenic trees under simple and complex substitution models. Systematic Biology 53:904-913.

Huelsenbeck J. P., F. Ronquist. 2001. MR.BAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17:754-755.

Iles T. D., M. Sinclair. 1982. Atlantic herring: stock discreteness and abundance. Science 215:627-633.

Jansen G., S. Devaere, P. H. H. Weekers, and D. Adriaens. 2006. Phylogenetic relationships and divergence time estimate of African anguilliform catfish (Siluriformes: Clariidae) inferred from ribosomal gene and spacer sequences. Molecular Phylogenetics and Evolution 38:65-78.

Johnson K., unpublished. ITS-1 primer sequences. Virginia Institute of Marine Science: Forward & Reverse.

Jørgensen H. B. H., M. M. Hansen, D. Bekkevold, D. E. Ruzzante, and V. Loeschcke. 2005. Marine landscapes and population genetic structure of herring (Clupea harengus L.) in the Baltic Sea. Molecular Ecology 14:3219-3234.

Jørstad K. E., Ø Skaala, and G. Dahle. 1991. The development of biochemical and visible genetic markers and their potential use in evaluating interaction between cultured and wild fish populations. ICES Marine Science Symposium 192:200-205.

Julian S. E., M. L. Bartron. 2007. Microsatellite DNA markers for American shad (Alosa sapidissima) and cross-species amplification within the family Clupeidae. Molecular Ecology Notes 1:1-3.

Page 113: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

104

June F. C. 1958. Variation in meristic characters of young Atlantic menhaden, Brevoortia tyrannus. Conseil Permanent International Pour L'Exploration de la mer 143:26-35.

June F. C. 1965. Comparison of vertebral counts in Atlantic menhaden. U.S. Fisheries and Wildlife Serivce Special Scientific Report: Fisheries 513:1-12.

June F. C., W. R. Nicholson. 1964. Age and size composition of the menhaden catch along the Atlantic coast of the United States, 1958. U.S. Fisheries and Wildlife Service Special Scientific Report: Fisheries 446:1-25.

Kemp, W. M., W. R. Boynton, J. E. Adolf, D. F. Boesch, W. C. Boicourt, G. Brush, J. C. Cornwell, T. R. Fisher, P. M. Glibert, J. D. Hagy, L. W. Harding, E. D. Houde, D. G. Kimmel, W. D. Miller, R. I. E. Newell, M. R. Roman, E. M. Smith, E.M., and J. C. Stevenson, J.C. 2005. Eutrophication of Chesapeake Bay: historical trends and ecological interactions. Marine Ecology Progress Series 303: 1-29.

Kendall, A. W., Jr., J. W. Reintjes. 1975. Geographic and hydrographic distribution of Atlantic menhaden eggs and larvae along the middle Atlantic coast from RV Dolphin Cruises, 1965-66. Fishery Bulletin 73:317-330.

Kimura M. 1980. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. Journal of Molecular Evolution 16: 111-120.

Kimura M. 1981. Estimation of evolutionary distances between homologous nucleotide sequences. Proceedings of the National Academy of Sciences 78:454-458.

Kroger R. L., J. F. Guthrie. 1973. Migrations of tagged juvenile Atlantic menhaden. Transactions of the American Fisheries Society 102:417-422.

Lannan J. E., G. A. E. Gall, J. E. Thorpe, C. E. Nash, and B. E. Ballachey. 1989. Genetic resource management of fish. Genome 31:798-804.

Lehoczky I., Z. Jeney, I. Magyary, C. Hancz, and K. Kohlmann. 2005. Preliminary data on genetic variability and purity of common carp (Cyprinus carpio L.) strains kept at the live gene bank at Research Institute for Fisheries, Aquaculture and Irrigation (HAKI) Szarvas, Hungary. Aquaculture 241:45-49.

Page 114: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

105

Lewis R. M., P. H. Wilkens, and H. R. Gordy. 1972. A description of young Atlantic menhaden, Brevoortia tyrannus, in the White Oak River estuary, North Carolina. Fishery Bulletin 70:115-117.

Lynch P.D., M.J. Brush, E. D. Condon, and R. J. Latour. In review. Net removal of nitrogen through ingestion of phytoplankton by Atlantic menhaden (Brevoortia tyrannus) in Chesapeake Bay. Canadian Journal of Fisheries and Aquatic Sciences.

Mariani S., W. F. Hutchinson, E. M. C. Hatfield, D. E. Ruzzante, J. E. Simmonds, T. G. Dahlgren, C. Andre, J. Brigham, E. Torestensen, and G. R. Carvalho. 2005. North Sea herring population structure as revealed by microsatellite analysis. Marine Ecology Progress Series 303:245-257.

Massmann W. H., J. J. Norcross, and E. B. Joseph. 1961. Atlantic menhaden larvae in Virginia coastal waters. Chesapeake Science; Chesapeake Science 3:42-45.

McGuire J. A., C. W. Linkem, M. S. Koo, D. W. Hutchison, A. K. Lappin, Orange, D.I. Lemos-Espinal, J., B. R. Riddle, and J. R. Jaeger. 2007. Mitochondrial introgression and incomplete lineage sorting through space and time: phylogenetics of crotaphytid lizards. Evolution 61:2879-2897.

McMillan W. O., S. R. Palumbi. 1997. Rapid rate of control-region evolution in Pacific butterflyfishes (Chaetodontidae). Journal of Molecular Evolution 45:473-484.

McPherson A. A., P. T. O'Reilly, T. L. McParland, M. W. Jones, and P. Bentzen. 2001. Isolation of nine novel tetranucleotide microsatellites in Atlantic herring (Clupea harengus). Molecular Ecology Notes 1:31-32.

Meyer A. 1993. Evolution of mitochondrial DNA in fishes. Pages 1-38 In P. W. Hochachka and T. P. Mommsen, editors. Biochemistry and Molecular Biology of Fishes, Vol. 2, Elselvier Science Publishers, Amsterdam, Netherlands.

Miller K. M., K. Laberee, A. D. Schulze, and K. H. Kaukinen. 2001. Development of microsatellite loci in Pacific herring (Clupea pallasi). Molecular Ecology Notes 1:131-132.

Mills L. S., F. W. Allendorf. 1996. The one-migrant-per-generation rule in conservation and management. Conservation Biology 10:1509-1518.

Page 115: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

106

Morgan R. P., B. M. Baker, and J. H. Howard. 1995. Genetic structure of bay anchovy (Anchoa mitchilli) populations in Chesapeake Bay. Estuaries 18:482-493.

Nei M. 1972. Genetic distance between populations. American Naturalist 106:283-292.

Nei M., F. Tajima, and Y. Tateno. 1983. Accuracy of estimated phylogenetic trees from molecular data, II: gene frequency data. Journal of Molecular Evolution 19:153-170.

Nicholson W. R. 1972. Population structure and movements of Atlantic menhaden, Brevoortia tyrannus, as inferred from back-calculated length frequencies. Chesapeake Science 13:161-174.

Nicholson W. R. 1978. Movements and population structure of Atlantic menhaden indicated by tag returns. Estuaries 1:141-150.

NMFS. Commercial landings of fish and shellfish by U.S. fishing craft: 2004, 2005. Washington, D.C.: NMFS; January 2007.

O'Connell M., M. C. Dillon, and J. M. Wright. 1998. Development of primers for polymorphic microsatellite loci in Pacific herring (Clupea harengus pallasi). Molecular Ecology 7:357-363.

O'Leary D. B., J. Coughlan, E. Dillane, T. V. McCarthy, and T. F. Cross. 2007. Microsatellite variation in cod Gadus morhua throughout its geographic range. Journal of Fish Biology 70:310-335.

Olsen J. B., C. J. Lewis, E. J. Kretschmer, S. L. Wilson, and J. E. Seeb. 2002. Characterization of 14 tetranucleotide microsatellite loci derived from Pacific herring. Molecular Ecology Notes 2:101-103.

O'Ryan C., M. W. Bruford, M. Beaumont, R. K. Wayne, M. I. Cherry, and E. H. Harley. 1998. Genetics of fragmented populations of African buffalo (Syncerus caffer) in South Africa. Animal Conservation 1:85-94.

Pereyra R. T., E. Saillant, C. L. Pruett, Rexroad III, C. E., and A. Rocha-Olivares. 2004. Characterization of polymorphic microsatellites in the Pacific sardine Sardinops sagax sagax (Clupeidae). Molecular Ecology Notes 4:739-741.

Posada D., K. A. Crandall. 1998. MODELTEST: testing the model of DNA substitution. Bioinformatics 14:817-818.

Page 116: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

107

Quinlan J. A., B. O. Blanton, T. J. Miller, and F. E. Werner. 1999. From spawning grounds to the estuary: using linked individual-based and hydrodynamic models to interpret patterns and processes in the oceanic phase of Atlantic menhaden Brevoortia tyrannus life history. Fisheries Oceanography 8:224-246.

Ratnasingham S., P. Herbert. 2007. The Barcode of Life Database. Molecular Ecology Notes 7:355-364.

Raymond M., F. Rousset. 1995. GENEPOP (version 1.2): population genetics software for exact test and ecumenicism. Journal of Heredity 86:248-249.

Reintjes J. W. 1969. A synopsis of biological data on the Atlantic menhaden, Brevoortia tyrannus. Fish & Wildlife Service Circulation. 320:1-30.

Rice J. A., J. A. Quinlan, S. W. Nixon, Hettler, W. F., Jr., S. M. Warlen, and P. M. Stegmann. 1999. Spawning and transport dynamics of Atlantic menhaden: inferences from characteristics of immigrating larvae and predictions of a hydrodynamic model. Fisheries Oceanography 8:93-110.

Ruzzante, D. E. 1998. A comparison of several measures of genetic distance and population structure with microsatellite data: bias and sampling variance. Canadian Journal of Fisheries and Aquatic Sciences 55: 1-14.

Ryman N. 1981. Conservation of genetic resources: experience from the brown trout (Salmo trutta). Pages 61-74 In N. Ryman, editor. Fish gene pools—preservation of genetic resources in relation to wild fish stock, Vol. 34, Ecological Bulletins, Stockholm, Sweden.

Saccone C., C. De Giorgi, C. Gissi, and G. Pesole. 1999. Evolutionary genomics in metazoa: the mitochondrial DNA as a model system. Gene 238:195-209.

Sambrook J., D. W. Russell. 2001. Molecular cloning: a laboratory manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York. USA.

Sekino M., M. Hara. 2001. Application of microsatellite markers to population genetics studies of Japanese flounder Paralichthys olivaceus. Marine Biotechnology 3:572-589.

Page 117: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

108

Sekino M., K. Saitoh, T. Yamada, A. Kumagai, M. Hara, and Y. Yamashita. 2003. Microsatellite-based pedigree tracing in a Japanese flounder Paralichthys olivaceus hatchery strain: implications for hatchery management related to stock enhancement program. Aquaculture 221:255-263.

Seutin G., B. N. White, and P. T. Boag. 1991. Preservation of avian blood and tissue samples for DNA analyses. Canadian Journal of Zoology 69:82-90.

Shaw P. W., C. Turan, J. M. Wright, M. O'Connell, and G. R. Carvalho. 1999. Microsatellite DNA analysis of population structure in Atlantic herring (Clupea harengus), with direct comparison to allozyme and mtDNA RFLP analyses. Heredity 83:490-499.

Slatkin M. 1995. A measure of population subdivision based on microsatellite allele frequencies. Genetics 139:457-462.

Smith P., M. McVeagh. 2000. Allozyme and microsatellite DNA markers of toothfish population structure in the Southern Ocean. Journal of Fish Biology 57:72-83.

Southwick Associates Inc., Loftus A. J. Menhaden Math: The economic impact of Atlantic menhaden on Virginia's recreational and commercial fisheries. Virginia: Southwick Associates Inc.; 2006.

Sugaya T., M. Sato, E. Yokoyama, Y. Nemoto, T. Fujita, H. Okouchi, K. Hamasaki, and S. Kitada. 2008. Population genetic structure and variability of Pacific herring Clupea pallasii in the stocking area along the Pacific coast of northern Japan. Fisheries Science 74:579-588.

Sullivan J., P. Joyce. 2005. Model selection in phylogenetics. Annual Review of Ecology, Evolution, and Systematics 36:445-466.

Sutherland D. F. 1963. Variation in vertebral numbers of juvenile Atlantic menhaden. U.S. Fisheries and Wildlife Serivce Special Scientific Report: Fisheries 435:1-8.

Swofford D. L. 2000. PAUP* (version 4): Phylogenetic Analysis Using Parsimony (*and Other Methods).

Takezaki, N. and M. Nei. 1996. Genetic distances and reconstruction of phylogenetic trees from microsatellite data. Genetics 144: 389-399.

Page 118: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

109

Takahashi K., Y. Terai, M. Nishida, and N. Okada. 2001. Phylogenetic relationships and ancient incomplete lineage sorting among cichlid fishes in Lake Tanganyika as revealed by analysis of insertion of retroposons. Molecular Biology and Evolution 18:2057-2066.

Tamura K., J. Dudley, M. Nei, and S. Kumar. 2007. MEGA (version 4.1): Molecular Evolutionary Genetics Analysis. Molecular Biology and Evolution:1596-1599.

Tarbox B., unpublished. COI primer sequences. Southern Maine Community College: Forward & Reverse.

Thompson J. D., D. G. Higgins, and T. J. Gibson. 1994. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting positions-specific gap penalties and weight matrix choice. Nucleic Acids Research 22:4673-4680.

Tinti F., C. Di Nunno, I. Guarniero, M. Talenti, S. Tommasini, E. Fabbri, and C. Piccinetti. 2002. Mitochondrial DNA sequence variation suggests the lack of heterogeneity in the Adriatic and Ionian stocks of Sardina pilchardus. Marine Biotechnology 4:163-172.

Turner W. R. 1969. Life history of menhadens in the eastern Gulf of Mexico. Transactions of the American Fisheries Society 98:216-224.

Van Oosterhout C., B. Hutchinson, D. Wills, and P. Shipley. 2004. Micro-Checker (version 2.23): Microsatellite Data Checking Software.

Volk J., D. Bekkevold, and V. Loeschcke. 2007. Weak population differentiation in northern European populations of the endangered anadromous clupeid Alosa fallax. Journal of Fish Biology 71:461-469.

Vrooman A. M., P. A. Paloma, and J. R. Zweifel. 1981. Electrophoretic, morphometric, and meristic studies of subpopulations of Northern anchovy, Engraulis mordax. California Fish and Game 67:39-51.

Wang C., X. Yu, and J. Tong. 2006. Microsatellite diversity and population genetic structure of redfin culter (Culter erythropterus) in fragmented lakes. Hydrobiologia 589:321-329.

Page 119: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

110

Waples R. S. 1998. Separating the wheat from the chaff: patterns of genetic differentiation in high gene flow species. Journal of Heredity 89:438-450.

Ward R. D., T. S. Zemlak, B. H. Innes, P. R. Last, and P. D. N. Herbert. 2005. DNA barcoding Australia's fish species. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences 360:1847-1857.

Weir B. S., C. C. Cockerham. 1984. Estimating F-Statistics for the analysis of population structure. Evolution 38:1358-1370.

Wenburg J. K., P. Bentzen, and C. J. Foote. Microsatellite analysis of genetic population structure in an endangered salmonid: the coastal cutthroat trout (Oncorhynchus clarki clarki). Molecular Ecology 733:749.

Westgaard J. I., A. Klemetsen, and R. Knudsen. 2004. Genetic differences between two sympatric morphs of Arctic charr Salvelinus alpinus confirmed by microsatellite DNA. Journal of Fish Biology 65:1185-1191.

Whitehead, P. J. P. 1985. Clupeoid fishes of the world (Suborder Clupeoidei): an annotated and illustrated catalogue of the herrings, sardines, pilchards, sprats, shads, anchovies and wolf-herrings: Part 1 - Chirocentridae, Clupeidae and Pristigasteridae. FAO Fisheries Synopsis 7:210-217.

Xia X., Z. Xie. 2001. DAMBE: Data analysis in molecular biology and evolution. Journal of Heredity 92:371-373.

Yu Z., X. Kong, T. Guo, Y. Jiang, Z. Zhuang, and X. Jin. 2005. Mitochondrial DNA sequence variation of Japanese anchovy Engraulis japonicus from the Yellow Sea and East China Sea. Fisheries Science 71:299-307.

Zhang J., C. Maitland, and R. Hanner. 2007. DNA barcoding of fishes in the South China Sea. Canadian Barcode of Life Network BOLD: June 2008-1.

Page 120: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

APPENDICES

Page 121: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

112

Appendix 1. Sample collection. Specimen Code Region Fork Length (mm) Total Length (mm) Date collected Collected by Collection area

A601Y New England 58 8/30/2006 Gary Nelson Gloucester, Annisquam River, MA A602Y New England 51 8/30/2006 Gary Nelson Gloucester, Annisquam River, MA A603Y New England 46 8/30/2006 Gary Nelson Gloucester, Annisquam River, MA A604Y New England 45 8/30/2006 Gary Nelson Gloucester, Annisquam River, MA A605Y New England 48 8/30/2006 Gary Nelson Gloucester, Annisquam River, MA A606Y New England 47 8/30/2006 Gary Nelson Gloucester, Annisquam River, MA A607Y New England 51 8/30/2006 Gary Nelson Gloucester, Annisquam River, MA A608Y New England 48 8/30/2006 Gary Nelson Gloucester, Annisquam River, MA A609Y New England 52 8/30/2006 Gary Nelson Gloucester, Annisquam River, MA A610Y New England 48 8/30/2006 Gary Nelson Gloucester, Annisquam River, MA A611Y New England 45 8/30/2006 Gary Nelson Gloucester, Annisquam River, MA A612Y New England 46 8/30/2006 Gary Nelson Gloucester, Annisquam River, MA A613Y New England 52 8/30/2006 Gary Nelson Gloucester, Annisquam River, MA A614Y New England 49 8/30/2006 Gary Nelson Gloucester, Annisquam River, MA A615Y New England 50 8/30/2006 Gary Nelson Gloucester, Annisquam River, MA A616Y New England 50 8/30/2006 Gary Nelson Gloucester, Annisquam River, MA A617Y New England 45 8/30/2006 Gary Nelson Gloucester, Annisquam River, MA A618Y New England 50 8/30/2006 Gary Nelson Gloucester, Annisquam River, MA A619Y New England 45 8/30/2006 Gary Nelson Gloucester, Annisquam River, MA A620Y New England 43 8/30/2006 Gary Nelson Gloucester, Annisquam River, MA A621Y New England 48 8/30/2006 Gary Nelson Gloucester, Annisquam River, MA A622Y New England 44 8/30/2006 Gary Nelson Gloucester, Annisquam River, MA A623Y New England 43 8/30/2006 Gary Nelson Gloucester, Annisquam River, MA A624Y New England 45 8/30/2006 Gary Nelson Gloucester, Annisquam River, MA A625Y New England 43 8/30/2006 Gary Nelson Gloucester, Annisquam River, MA

Page 122: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

113

AS601J U.S. south Atlantic 105 140 8/9/2006 John Archambault Ashley River at East Accabee Flats, SC AS602J U.S. south Atlantic 98 130 8/9/2006 John Archambault Ashley River at North Bridge, SC AS603J U.S. south Atlantic 106 8/21/2006 John Archambault Ashley River at fresh/saltwater line, SC AS604J U.S. south Atlantic 107 8/21/2006 John Archambault Ashley River at fresh/saltwater line, SC AS605J U.S. south Atlantic 106 8/21/2006 John Archambault Ashley River at fresh/saltwater line, SC AS606J U.S. south Atlantic 105 8/21/2006 John Archambault Ashley River at fresh/saltwater line, SC AS607J U.S. south Atlantic 102 8/21/2006 John Archambault Ashley River at fresh/saltwater line, SC AS608J U.S. south Atlantic 94 8/21/2006 John Archambault Ashley River at fresh/saltwater line, SC AS609J U.S. south Atlantic 104 8/21/2006 John Archambault Ashley River at fresh/saltwater line, SC AS610J U.S. south Atlantic 107 8/21/2006 John Archambault Ashley River at fresh/saltwater line, SC AS611J U.S. south Atlantic 97 8/21/2006 John Archambault Ashley River at fresh/saltwater line, SC AS612J U.S. south Atlantic 111 8/21/2006 John Archambault Ashley River at fresh/saltwater line, SC AS613J U.S. south Atlantic 96 8/21/2006 John Archambault Ashley River at fresh/saltwater line, SC AS614J U.S. south Atlantic 99 8/21/2006 John Archambault Ashley River at fresh/saltwater line, SC AS615J U.S. south Atlantic 104 8/21/2006 John Archambault Ashley River at fresh/saltwater line, SC AS616J U.S. south Atlantic 104 8/21/2006 John Archambault Ashley River at fresh/saltwater line, SC

C617J U.S. south Atlantic 76 8/7/2006 John ArchambaultCooper River, above Bushy Park Landing, SC

C618J U.S. south Atlantic 83 8/7/2006 John ArchambaultCooper River, above Bushy Park Landing, SC

C619J U.S. south Atlantic 82 8/7/2006 John ArchambaultCooper River, above Bushy Park Landing, SC

CH26J U.S. south Atlantic 170 6/25/2007 John ArchambaultCharleston Harbor, near Ft. Sumter at mouth

CH27J U.S. south Atlantic 181 6/25/2007 John ArchambaultCharleston Harbor, near Ft. Sumter at mouth

CH28J U.S. south Atlantic 176 6/25/2007 John ArchambaultCharleston Harbor, near Ft. Sumter at mouth

CH29J U.S. south Atlantic 173 6/25/2007 John ArchambaultCharleston Harbor, near Ft. Sumter at mouth

CH30J U.S. south Atlantic 157 6/25/2007 John ArchambaultCharleston Harbor, near Ft. Sumter at mouth

CH31J U.S. south Atlantic 160 6/25/2007 John Archambault Charleston Harbor, near Ft. Sumter at

Page 123: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

114

mouth

CH32J U.S. south Atlantic 157 6/25/2007 John ArchambaultCharleston Harbor, near Ft. Sumter at mouth

CH33J U.S. south Atlantic 166 6/25/2007 John ArchambaultCharleston Harbor, near Ft. Sumter at mouth

CH34J U.S. south Atlantic 172 6/25/2007 John ArchambaultCharleston Harbor, near Ft. Sumter at mouth

CH35J U.S. south Atlantic 168 6/25/2007 John ArchambaultCharleston Harbor, near Ft. Sumter at mouth

CH36J U.S. south Atlantic 152 6/25/2007 John ArchambaultCharleston Harbor, near Ft. Sumter at mouth

CH37J U.S. south Atlantic 147 6/25/2007 John ArchambaultCharleston Harbor, near Ft. Sumter at mouth

CH38J U.S. south Atlantic 161 6/25/2007 John ArchambaultCharleston Harbor, near Ft. Sumter at mouth

CH39J U.S. south Atlantic 165 6/25/2007 John ArchambaultCharleston Harbor, near Ft. Sumter at mouth

CH40J U.S. south Atlantic 168 6/25/2007 John ArchambaultCharleston Harbor, near Ft. Sumter at mouth

CH41J U.S. south Atlantic 169 6/25/2007 John ArchambaultCharleston Harbor, near Ft. Sumter at mouth

CR620J U.S. south Atlantic 102 8/24/2006 John ArchambaultCape Romain at Muddy Bay at Oyster Bay, East, SC

CR621J U.S. south Atlantic 105 8/24/2006 John ArchambaultCape Romain at Muddy Bay at Oyster Bay, East, SC

D601Y mid-Atlantic 101 118 8/23/2006 Heather Corbett Fort Mott, Delaware River, NJ D602Y mid-Atlantic 96 109 8/23/2006 Heather Corbett Fort Mott, Delaware River, NJ D603Y mid-Atlantic 102 121 8/23/2006 Heather Corbett Fort Mott, Delaware River, NJ D604Y mid-Atlantic 85 97 8/23/2006 Heather Corbett Fort Mott, Delaware River, NJ D605Y mid-Atlantic 90 105 8/23/2006 Heather Corbett Fort Mott, Delaware River, NJ D606Y mid-Atlantic 90 102 8/23/2006 Heather Corbett Fort Mott, Delaware River, NJ D607Y mid-Atlantic 91 106 8/23/2006 Heather Corbett Fort Mott, Delaware River, NJ D608Y mid-Atlantic 103 120 8/23/2006 Heather Corbett Fort Mott, Delaware River, NJ D609Y mid-Atlantic 93 106 8/23/2006 Heather Corbett Fort Mott, Delaware River, NJ

Page 124: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

115

D610Y mid-Atlantic 95 109 8/23/2006 Heather Corbett Fort Mott, Delaware River, NJ D611Y mid-Atlantic 99 113 8/23/2006 Heather Corbett Fort Mott, Delaware River, NJ D612Y mid-Atlantic 94 108 8/23/2006 Heather Corbett Fort Mott, Delaware River, NJ D613Y mid-Atlantic 98 115 8/23/2006 Heather Corbett Fort Mott, Delaware River, NJ D614Y mid-Atlantic 98 114 8/23/2006 Heather Corbett Fort Mott, Delaware River, NJ D615Y mid-Atlantic 98 114 8/23/2006 Heather Corbett Fort Mott, Delaware River, NJ D616Y mid-Atlantic 97 105 8/23/2006 Heather Corbett Fort Mott, Delaware River, NJ D617Y mid-Atlantic 110 125 8/23/2006 Heather Corbett Fort Mott, Delaware River, NJ D618Y mid-Atlantic 85 99 8/23/2006 Heather Corbett Fort Mott, Delaware River, NJ D619Y mid-Atlantic 61 70 8/23/2006 Heather Corbett Fort Mott, Delaware River, NJ D620Y mid-Atlantic 101 117 8/23/2006 Heather Corbett Fort Mott, Delaware River, NJ D621Y mid-Atlantic 65 77 8/23/2006 Heather Corbett Fort Mott, Delaware River, NJ D622Y mid-Atlantic 98 110 8/23/2006 Heather Corbett Fort Mott, Delaware River, NJ D623Y mid-Atlantic 103 117 8/23/2006 Heather Corbett Fort Mott, Delaware River, NJ D624Y mid-Atlantic 89 102 8/23/2006 Heather Corbett Fort Mott, Delaware River, NJ D625Y mid-Atlantic 70 82 8/23/2006 Heather Corbett Fort Mott, Delaware River, NJ D626Y mid-Atlantic 106 122 8/23/2006 Heather Corbett New Castle, Delaware River, NJ D627Y mid-Atlantic 98 116 8/23/2006 Heather Corbett New Castle, Delaware River, NJ D701Y mid-Atlantic 96 110 6/26/2007 Heather Corbett Delaware River, Oakwood Beach D702Y mid-Atlantic 83 95 6/26/2007 Heather Corbett Delaware River, Oakwood Beach D703Y mid-Atlantic 87 100 6/26/2007 Heather Corbett Delaware River, Oakwood Beach D704Y mid-Atlantic 85 97 6/26/2007 Heather Corbett Delaware River, Oakwood Beach D705Y mid-Atlantic 89 100 6/26/2007 Heather Corbett Delaware River, Oakwood Beach D706Y mid-Atlantic 88 100 6/26/2007 Heather Corbett Delaware River, Oakwood Beach D707Y mid-Atlantic 89 100 6/26/2007 Heather Corbett Delaware River, Oakwood Beach D708Y mid-Atlantic 84 98 6/26/2007 Heather Corbett Delaware River, Oakwood Beach D709Y mid-Atlantic 84 97 6/26/2007 Heather Corbett Delaware River, Oakwood Beach D710Y mid-Atlantic 84 93 6/26/2007 Heather Corbett Delaware River, Oakwood Beach D711Y mid-Atlantic 77 88 6/26/2007 Heather Corbett Delaware River, Oakwood Beach D712Y mid-Atlantic 79 91 6/26/2007 Heather Corbett Delaware River, Oakwood Beach D713Y mid-Atlantic 85 102 6/26/2007 Heather Corbett Delaware River, Oakwood Beach

Page 125: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

116

D714Y mid-Atlantic 100 113 6/26/2007 Heather Corbett Delaware River, Oakwood Beach D715Y mid-Atlantic 76 88 6/26/2007 Heather Corbett Delaware River, Oakwood Beach D716Y mid-Atlantic 85 96 6/26/2007 Heather Corbett Delaware River, Oakwood Beach D717Y mid-Atlantic 99 114 6/26/2007 Heather Corbett Delaware River, Oakwood Beach D718Y mid-Atlantic 85 99 6/26/2007 Heather Corbett Delaware River, Oakwood Beach D719Y mid-Atlantic 85 98 6/26/2007 Heather Corbett Delaware River, Oakwood Beach D720Y mid-Atlantic 84 96 6/26/2007 Heather Corbett Delaware River, Oakwood Beach D721Y mid-Atlantic 87 99 6/26/2007 Heather Corbett Delaware River, Oakwood Beach D722Y mid-Atlantic 90 105 6/26/2007 Heather Corbett Delaware River, Oakwood Beach D723Y mid-Atlantic 90 104 6/26/2007 Heather Corbett Delaware River, Oakwood Beach D724Y mid-Atlantic 81 94 6/26/2007 Heather Corbett Delaware River, Oakwood Beach D725Y mid-Atlantic 80 93 6/26/2007 Heather Corbett Delaware River, Oakwood Beach D726J mid-Atlantic 180 213 7/17/2007 Heather Corbett Delaware River, Gamble's Gut D727J mid-Atlantic 190 219 8/2/2007 Heather Corbett Delaware River, Gamble's Gut D728J mid-Atlantic 194 224 8/2/2007 Heather Corbett Delaware River, Gamble's Gut E622Y U.S. south Atlantic 48 59 8/3/2006 John Archambault Edisto River, near Willtown Bluff, SC E623Y U.S. south Atlantic 41 53 8/3/2006 John Archambault Edisto River, near Willtown Bluff, SC E624Y U.S. south Atlantic 67 8/18/2006 John Archambault Edisto River, west of Jehossee Island, SC E625J U.S. south Atlantic 113 8/18/2006 John Archambault Edisto River at Sampson Island Creek, SC E626J U.S. south Atlantic 102 8/18/2006 John Archambault Edisto River at Sampson Island Creek, SC E627J U.S. south Atlantic 98 8/18/2006 John Archambault Edisto River at Sampson Island Creek, SC E628J U.S. south Atlantic 97 8/18/2006 John Archambault Edisto River at Sampson Island Creek, SC E701Y U.S. south Atlantic b/t 28 & 33 4/24/2007 John Archambault Edisto River E702Y U.S. south Atlantic b/t 28 & 33 4/24/2007 John Archambault Edisto River E703Y U.S. south Atlantic b/t 28 & 33 4/24/2007 John Archambault Edisto River E704Y U.S. south Atlantic b/t 28 & 33 4/24/2007 John Archambault Edisto River E705Y U.S. south Atlantic b/t 28 & 33 4/24/2007 John Archambault Edisto River E706Y U.S. south Atlantic b/t 28 & 33 4/24/2007 John Archambault Edisto River E707Y U.S. south Atlantic b/t 28 & 33 4/24/2007 John Archambault Edisto River E708Y U.S. south Atlantic b/t 28 & 33 4/24/2007 John Archambault Edisto River E709Y U.S. south Atlantic b/t 28 & 33 4/24/2007 John Archambault Edisto River

Page 126: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

117

E710Y U.S. south Atlantic b/t 28 & 33 4/24/2007 John Archambault Edisto River E711Y U.S. south Atlantic b/t 28 & 33 4/24/2007 John Archambault Edisto River E712Y U.S. south Atlantic b/t 28 & 33 4/24/2007 John Archambault Edisto River E713Y U.S. south Atlantic b/t 28 & 33 4/24/2007 John Archambault Edisto River E714Y U.S. south Atlantic b/t 28 & 33 4/24/2007 John Archambault Edisto River E715Y U.S. south Atlantic b/t 28 & 33 4/24/2007 John Archambault Edisto River E716Y U.S. south Atlantic b/t 28 & 33 4/24/2007 John Archambault Edisto River E717Y U.S. south Atlantic b/t 28 & 33 4/24/2007 John Archambault Edisto River E718Y U.S. south Atlantic b/t 28 & 33 4/24/2007 John Archambault Edisto River E719Y U.S. south Atlantic b/t 28 & 33 4/24/2007 John Archambault Edisto River E720Y U.S. south Atlantic b/t 28 & 33 4/24/2007 John Archambault Edisto River E721Y U.S. south Atlantic b/t 28 & 33 4/24/2007 John Archambault Edisto River E722Y U.S. south Atlantic b/t 28 & 33 4/24/2007 John Archambault Edisto River E723Y U.S. south Atlantic b/t 28 & 33 4/24/2007 John Archambault Edisto River E724Y U.S. south Atlantic b/t 28 & 33 4/24/2007 John Archambault Edisto River E725Y U.S. south Atlantic b/t 28 & 33 4/24/2007 John Archambault Edisto River

G601Y Gulf of Mexico 10/6/2006 Bill Dailey Trinity River Delta, Galveston Bay System, TX

G602Y Gulf of Mexico 10/6/2006 Bill Dailey Trinity River Delta, Galveston Bay System, TX

G603Y Gulf of Mexico 10/6/2006 Bill Dailey Trinity River Delta, Galveston Bay System, TX

G604Y Gulf of Mexico 10/6/2006 Bill Dailey Trinity River Delta, Galveston Bay System, TX

G605Y Gulf of Mexico 10/6/2006 Bill Dailey Trinity River Delta, Galveston Bay System, TX

G606Y Gulf of Mexico 10/6/2006 Bill Dailey Trinity River Delta, Galveston Bay System, TX

G607Y Gulf of Mexico 10/6/2006 Bill Dailey Trinity River Delta, Galveston Bay System, TX

G608Y Gulf of Mexico 10/6/2006 Bill Dailey Trinity River Delta, Galveston Bay System, TX

G609Y Gulf of Mexico 10/6/2006 Bill Dailey Trinity River Delta, Galveston Bay System,

Page 127: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

118

TX

G610Y Gulf of Mexico 10/6/2006 Bill Dailey Trinity River Delta, Galveston Bay System, TX

G611Y Gulf of Mexico 10/6/2006 Bill Dailey Trinity River Delta, Galveston Bay System, TX

G612Y Gulf of Mexico 10/6/2006 Bill Dailey Trinity River Delta, Galveston Bay System, TX

G613Y Gulf of Mexico 10/6/2006 Bill Dailey Trinity River Delta, Galveston Bay System, TX

G614Y Gulf of Mexico 10/6/2006 Bill Dailey Trinity River Delta, Galveston Bay System, TX

G615Y Gulf of Mexico 10/6/2006 Bill Dailey Trinity River Delta, Galveston Bay System, TX

G616Y Gulf of Mexico 10/6/2006 Bill Dailey Trinity River Delta, Galveston Bay System, TX

G617Y Gulf of Mexico 10/6/2006 Bill Dailey Trinity River Delta, Galveston Bay System, TX

G618Y Gulf of Mexico 10/6/2006 Bill Dailey Trinity River Delta, Galveston Bay System, TX

G619Y Gulf of Mexico 10/6/2006 Bill Dailey Trinity River Delta, Galveston Bay System, TX

G620Y Gulf of Mexico 10/6/2006 Bill Dailey Trinity River Delta, Galveston Bay System, TX

G621Y Gulf of Mexico 10/6/2006 Bill Dailey Trinity River Delta, Galveston Bay System, TX

G622Y Gulf of Mexico 10/6/2006 Bill Dailey Trinity River Delta, Galveston Bay System, TX

G623Y Gulf of Mexico 10/6/2006 Bill Dailey Trinity River Delta, Galveston Bay System, TX

G624Y Gulf of Mexico 10/6/2006 Bill Dailey Trinity River Delta, Galveston Bay System, TX

G625Y Gulf of Mexico 10/6/2006 Bill Dailey Trinity River Delta, Galveston Bay System, TX

Gun1 Gulf of Mexico Joel Anderson Texas Gun2 Gulf of Mexico Joel Anderson Texas

Page 128: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

119

Gun3 Gulf of Mexico Joel Anderson Texas Gun4 Gulf of Mexico Joel Anderson Texas Gun5 Gulf of Mexico Joel Anderson Texas Gun6 Gulf of Mexico Joel Anderson Texas Gun7 Gulf of Mexico Joel Anderson Texas Gun8 Gulf of Mexico Joel Anderson Texas Gun9 Gulf of Mexico Joel Anderson Texas Gun10 Gulf of Mexico Joel Anderson Texas M601Y Chesapeake Bay 37 5/22/2006 Troy Tuckey Mattaponi River, VA M602Y Chesapeake Bay 34 5/22/2006 Troy Tuckey Mattaponi River, VA M603Y Chesapeake Bay 37 5/22/2006 Troy Tuckey Mattaponi River, VA M604Y Chesapeake Bay 38 5/22/2006 Troy Tuckey Mattaponi River, VA M605Y Chesapeake Bay 38 5/22/2006 Troy Tuckey Mattaponi River, VA M606Y Chesapeake Bay 34 5/22/2006 Troy Tuckey Mattaponi River, VA M607Y Chesapeake Bay 27 5/22/2006 Troy Tuckey Mattaponi River, VA M608J Chesapeake Bay 149 11/14/2006 Patrick Lynch Mattaponi River, VA M751Y CB-late YOY 36 7/22/2007 Troy Tuckey Mattaponi River, VA M752Y CB-late YOY 35 7/22/2007 Troy Tuckey Mattaponi River, VA M753Y CB-late YOY 40 7/22/2007 Troy Tuckey Mattaponi River, VA M754Y CB-late YOY 42 7/22/2007 Troy Tuckey Mattaponi River, VA M755Y CB-late YOY 41 44 7/31/2007 Troy Tuckey Mattaponi River, VA M756Y CB-late YOY 36 40 7/31/2007 Troy Tuckey Mattaponi River, VA M757Y CB-late YOY 36 40 7/31/2007 Troy Tuckey Mattaponi River, VA M758Y CB-late YOY 36 39 7/31/2007 Troy Tuckey Mattaponi River, VA M759Y CB-late YOY 39 42 7/31/2007 Troy Tuckey Mattaponi River, VA M760Y CB-late YOY 36 41 7/31/2007 Troy Tuckey Mattaponi River, VA M761Y CB-late YOY 45 50 7/31/2007 Troy Tuckey Mattaponi River, VA M762Y CB-late YOY 38 42 7/31/2007 Troy Tuckey Mattaponi River, VA M763Y CB-late YOY 49 52 9/8/2007 Troy Tuckey Mattaponi River, VA M764Y CB-late YOY 99 114 9/23/2007 Troy Tuckey Mattaponi River, VA M765Y CB-late YOY 86 99 9/23/2007 Troy Tuckey Mattaponi River, VA

Page 129: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

120

M766Y CB-late YOY 77 89 9/23/2007 Troy Tuckey Mattaponi River, VA P609Y Chesapeake Bay 54 5/30/2006 Troy Tuckey Pamunkey River, VA P610Y Chesapeake Bay 42 5/30/2006 Troy Tuckey Pamunkey River, VA P611Y Chesapeake Bay 40 5/30/2006 Troy Tuckey Pamunkey River, VA P612Y Chesapeake Bay 41 5/30/2006 Troy Tuckey Pamunkey River, VA P613Y Chesapeake Bay 39 5/30/2006 Troy Tuckey Pamunkey River, VA P614Y Chesapeake Bay 38 5/30/2006 Troy Tuckey Pamunkey River, VA P615Y Chesapeake Bay 51 5/30/2006 Troy Tuckey Pamunkey River, VA P616Y Chesapeake Bay 40 5/30/2006 Troy Tuckey Pamunkey River, VA P617Y Chesapeake Bay 40 5/30/2006 Troy Tuckey Pamunkey River, VA P618Y Chesapeake Bay 39 5/30/2006 Troy Tuckey Pamunkey River, VA P619Y Chesapeake Bay 67 5/30/2006 Troy Tuckey Pamunkey River, VA P620Y Chesapeake Bay 42 5/30/2006 Troy Tuckey Pamunkey River, VA P621Y Chesapeake Bay 40 5/30/2006 Troy Tuckey Pamunkey River, VA P622Y Chesapeake Bay 45 5/30/2006 Troy Tuckey Pamunkey River, VA P623Y Chesapeake Bay 38 5/30/2006 Troy Tuckey Pamunkey River, VA P624Y Chesapeake Bay 46 5/30/2006 Troy Tuckey Pamunkey River, VA P625Y Chesapeake Bay 39 5/30/2006 Troy Tuckey Pamunkey River, VA P626Y Chesapeake Bay 41 5/30/2006 Troy Tuckey Pamunkey River, VA Smi1 Gulf of Mexico Joel Anderson Texas Smi2 Gulf of Mexico Joel Anderson Texas Smi3 Gulf of Mexico Joel Anderson Texas Smi4 Gulf of Mexico Joel Anderson Texas Smi5 Gulf of Mexico Joel Anderson Texas Smi6 Gulf of Mexico Joel Anderson Texas Smi7 Gulf of Mexico Joel Anderson Texas Smi8 Gulf of Mexico Joel Anderson Texas Smi9 Gulf of Mexico Joel Anderson Texas

Smi10 Gulf of Mexico Joel Anderson Texas Y627J Chesapeake Bay 98 6/2/2006 Patrick Lynch York River, VA Y628J Chesapeake Bay 157 165 8/20/2006 Andrij Horodysky York River, VA

Page 130: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

121

Y629J Chesapeake Bay 120 6/2/2006 Patrick Lynch York River, VA Y630J Chesapeake Bay 154 162 8/20/2006 Andrij Horodysky York River, VA Y631J Chesapeake Bay 175 6/2/2006 Patrick Lynch York River, VA Y632J Chesapeake Bay 177 10/12/2006 Patrick Lynch York River, VA Y633J Chesapeake Bay 200 10/12/2006 Patrick Lynch York River, VA Y634J Chesapeake Bay 181 10/12/2006 Patrick Lynch York River, VA Y635J Chesapeake Bay 169 10/12/2006 Patrick Lynch York River, VA Y636J Chesapeake Bay 179 10/12/2006 Patrick Lynch York River, VA Y637J Chesapeake Bay 190 10/12/2006 Patrick Lynch York River, VA Y638J Chesapeake Bay 190 10/12/2006 Patrick Lynch York River, VA Y639J Chesapeake Bay 183 10/12/2006 Patrick Lynch York River, VA Y640J Chesapeake Bay 183 10/12/2006 Patrick Lynch York River, VA Y641J Chesapeake Bay 191 10/12/2006 Patrick Lynch York River, VA Y642J Chesapeake Bay 180 10/12/2006 Patrick Lynch York River, VA Y643J Chesapeake Bay 175 10/4/2006 Beth Condon York River, VA Y644J Chesapeake Bay 191 10/4/2006 Beth Condon York River, VA Y701Y CB-early YOY 79 86 5/8/2007 Patrick Lynch Timberneck Creek, York River, VA Y702Y CB-early YOY 37 40 5/8/2007 Patrick Lynch Timberneck Creek, York River, VA Y703Y CB-early YOY 39 42 5/8/2007 Patrick Lynch Timberneck Creek, York River, VA Y704Y CB-early YOY 39 43 5/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y705Y CB-early YOY 34 41 5/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y706Y CB-early YOY 43 47 5/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y707Y CB-early YOY 38 42 5/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y708Y CB-early YOY 34 36 5/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y709Y CB-early YOY 39 42 5/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y710Y CB-early YOY 36 39 5/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y711Y CB-early YOY 41 44 5/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y712Y CB-early YOY 41 45 5/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y713Y CB-early YOY 46 50 5/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y714Y CB-early YOY 48 50 5/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y715Y CB-early YOY 49 54 5/15/2007 Patrick Lynch Timberneck Creek, York River, VA

Page 131: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

122

Y716Y CB-early YOY 42 45 5/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y717Y CB-early YOY 84 90 5/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y718Y CB-early YOY 57 59 5/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y719Y CB-early YOY 51 59 5/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y720Y CB-early YOY 45 50 5/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y721Y CB-early YOY 65 20 5/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y722Y CB-early YOY 65 70 5/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y723Y CB-early YOY 60 69 5/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y724Y CB-early YOY 55 61 5/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y725Y CB-early YOY 59 65 5/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y726J CB-yearling 130 5/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y727J CB-yearling 120 5/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y728J CB-yearling 120 5/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y729J CB-yearling 115 5/19/2007 Patrick Lynch Timberneck Creek, York River, VA Y730J CB-yearling 140 6/11/2007 Patrick Lynch Timberneck Creek, York River, VA Y731J CB-yearling 131 6/2/2007 Patrick Lynch Timberneck Creek, York River, VA Y732J CB-yearling 114 6/2/2007 Patrick Lynch Timberneck Creek, York River, VA Y733J CB-yearling 159 6/1/2007 Patrick Lynch Timberneck Creek, York River, VA Y734J CB-yearling 123 6/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y735J CB-yearling 155 6/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y736J CB-yearling 162 6/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y737J CB-yearling 175 6/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y738J CB-yearling 144 6/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y739J CB-yearling 153 6/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y740J CB-yearling 182 6/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y741J CB-yearling 177 6/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y742J CB-yearling 171 6/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y743J CB-yearling 184 6/15/2007 Patrick Lynch Timberneck Creek, York River, VA Y744J CB-yearling 65 6/10/2007 Patrick Lynch Timberneck Creek, York River, VA Y745J CB-yearling 71 6/10/2007 Patrick Lynch Timberneck Creek, York River, VA Y746J CB-yearling 73 6/10/2007 Patrick Lynch Timberneck Creek, York River, VA

Page 132: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

123

Y747J CB-yearling 77 6/10/2007 Patrick Lynch Timberneck Creek, York River, VA Y748J CB-yearling 83 6/10/2007 Patrick Lynch Timberneck Creek, York River, VA Y749J CB-yearling 74 6/10/2007 Patrick Lynch Timberneck Creek, York River, VA Y750J CB-yearling 76 6/10/2007 Patrick Lynch Timberneck Creek, York River, VA Y767Y CB-late YOY 95 100 9/20/2007 Patrick Lynch Sarah's Creek; York River, VA Y768Y CB-late YOY 94 99 9/20/2007 Patrick Lynch Sarah's Creek; York River, VA Y769Y CB-late YOY 94 102 9/20/2007 Patrick Lynch Sarah's Creek; York River, VA Y770Y CB-late YOY 91 102 9/20/2007 Patrick Lynch Sarah's Creek; York River, VA Y771Y CB-late YOY 91 104 9/20/2007 Patrick Lynch Sarah's Creek; York River, VA Y772Y CB-late YOY 95 106 9/20/2007 Patrick Lynch Sarah's Creek; York River, VA Y773Y CB-late YOY 90 98 9/20/2007 Patrick Lynch Sarah's Creek; York River, VA Y774Y CB-late YOY 90 96 9/20/2007 Patrick Lynch Sarah's Creek; York River, VA Y775Y CB-late YOY 95 102 9/20/2007 Patrick Lynch Sarah's Creek; York River, VA Y776Y CB-late YOY 97 107 9/20/2007 Patrick Lynch Sarah's Creek; York River, VA

Page 133: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

124

Appendix 2. Primer sequences, reagents, and PCR parameter optimizations used in the present study for mitochondrial and nuclear amplification of Brevoortia specimens.

Control Region

Pro-F: 5’ CTA CCY CYA ACT CCC AAA GC 3’ (K. Gray, unpublished) Phe-R: 5’ GTA AAG TCA CGA CCA AAC C 3’ (Brendtro et al. 2008)

For each 10μL PCR reaction, 7.65μL sterile, filtered H2O 1μL 10X PCR Buffer plus magnesium (Qiagen) 0.2μL 10mM dNTPs (Qiagen) 0.05μL of each 100 μM forward and reverse primer 0.05μL Taq, DNA polymerase (Qiagen)

1 cycle 94oC initial denaturation for 4 minutes 36 cycles 94oC denaturation for 1 minute 54oC annealing for 1 minute 72oC extension for 2 minutes 1 cycle 72oC extension for 5 minutes Hold 4oC

COI

MenCOIF: 5’ CTT TCG GCT ACA TGG GAA TG 3’ (B. Tarbox, unpublished) MenCOIR: 5’ AGC CCT AGG AAG TGT TGT GG 3’ (B. Tarbox, unpublished)

For each 10μL PCR reaction, 7.25μL sterile, filtered H2O 1μL 10X PCR Buffer plus magnesium (Qiagen) 0.2μL 10mM dNTPs (Qiagen) 0.4μL BSA (bovine serum albumin; 1mg/mL) 0.05μL of each 100 μM forward and reverse primer 0.05μL Taq, DNA polymerase (Qiagen)

1 cycle 94oC initial denaturation for 4 minutes

36 cycles 94oC denaturation for 1 minute 49.1oC annealing for 1 minute 72oC extension for 2 minutes 1 cycle 72oC extension for 5 minutes Hold 4oC

Page 134: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

125

ITS-1

ITS-1: 5’ GAG GAA GTA AAA GTC GTA ACA AGG 3’ (K. Johnson, unpublished) 5.8SR1: 5’ ATT CAC ATT AGT TCT CGC AGC TA 3’ (K. Johnson, unpublished) For each 10μL PCR reaction, 7.25μL sterile, filtered H2O 1μL 10X PCR Buffer plus magnesium (Qiagen) 0.2μL 10mM dNTPs (Qiagen) 0.4μL BSA (bovine serum albumin; 1mg/mL) 0.05μL of each 100 μM forward and reverse primer 0.05μL Taq, DNA polymerase (Qiagen)

1 cycle 94oC initial denaturation for 4 minutes

36 cycles 94oC denaturation for 1 minute 64.5oC annealing for 1 minute 72oC extension for 2 minutes 1 cycle 72oC extension for 5 minutes Hold 4oC

Microsatellites For each 5μL PCR reaction, 2.78μL sterile, filtered H2O 1 μL BSA (bovine serum albumin; 1mg/mL) 0.5μL 10X PCR Buffer without MgCl2 (Invitrogen) 0.15μL 1.5mM Mg+ (Invitrogen) 0.1μL 10mM dNTPs (Qiagen) 0.01875μL 10μM T3 tailed forward primer 0.075μL 10μM reverse primer 0.05μL 10μM fluorescent label 0.025μL Platinum Taq, DNA polymerase (Invitrogen)

1 cycle 94oC initial denaturation for 3 minutes 36 cycles 94oC denaturation for 45 seconds variable oC annealing for 45 seconds* 72oC extension for 45 seconds 1 cycle 72oC extension for 7 minutes Hold 4oC * Primers and annealing temperatures specific to each locus are listed in Table 1.

Page 135: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

126

Appendix 3. A) Aligned mitochondrial control region sequence data, B) aligned mitochondrial cytochrome c oxidase subunit I (COI) sequence data, C) COI haplotypes, D) COI amino acid sequence data, E) aligned nuclear internal transcribed spacer 1 (ITS-1) sequence data, and F) allele scores for seven microsatellite loci (Aa16, Asa2, Asa4, AsaB020, AsaD055, AsaC334, SarBH04) collected from Brevoortia specimens.

A) Aligned mitochondrial control region sequence data collected from 28 Brevoortia specimens. P614Y GACATGAATATTAGACTTCTTCGGGCGTAGGGGGTAGGGGGGTTTGTCGCGCGAAAAAAC [60] G608Y GACATGAATATTAGACTTCTTCGGGCGTAGGGGGTAGGGGGGTTTGTCGCGCGAAAAAAC [60] P611Y GACATGAATATTAGACTTCTTCGGGCGTAGGGGGTAGGGGGGTTTGTCGCGCGAAAAAAC [60] P610Y GACATGAATATTAGACTTCTTCGGGCGTAGGGGGTAGGGGGGTTTGTCGCGCGAAAAAAC [60] Y627J GACATGAATATTAGACTTCTTCGGGCGTAGGGGGTAGGGGGGTTTGTCGCGCGAAAAAAC [60] G602Y GACATGAATATTAGACTTCTTCGGGCGTAGGGGGTAGGGGGGTTTGTCGCGCGAAAAAAC [60] P620Y GACATGAATATTAGACTTCTTCGGGCGTAGGGGGTAAGGGGGTTTGTCGCGCGAAAAAAC [60] P619Y GACATGAATATTAGACTTCTTCGGGCGTAGGGGGTAGGGGGGTTTGTCGCGCGAAAAAAC [60] Y628J GACATGAATATTAGACTTCTTCGGGCGTAGGGGGTAGGGGGGTTTGTCGCGCGAAAAAAC [60] Y630J GACATGAATATTAGACTTCTTCGGGCGTAGGGGGTAGGGGGGTTTGTCGCGCGAAAAAAC [60] P621Y GACATGAATATTAGACTTTTTCGGGCGTAGGGGGTAAGGGGGTTTGTCGCGCGAAAAAAC [60] P610Y GACATGAATATTAGACTTCTTCGGGCGTAGGGGGTAAGGGGGTTTGTCGCGCGAAAAAAC [60] M601Y GACATGAATATTAGACTTCTTCGGGCGTAGGGGGTAAGGGGGTTTGTCGCGCGAAAAAAC [60] P613Y GACATGAATATTAGACTTCTTCGGGCGTAGGGGGTAGGGGGGTTTGTCGCGCGAAAAAAC [60] G601Y GACATGAATATTAGACTTCTTCGGGCGTAGGGGGTAGGGGGGTTTGTCGCGCGAAAAAAC [60] Y629J GACATGAATATTAGACTTCTTCGGGCGTAGGGGGTAGGGGGGTTTGTCGCGCGAAAAAAC [60] P618Y GACATGAATATTAGACTTCTTCGGGCGTAGGGGGTAGGGGGGTTTGTCGCGCGAAAAAAC [60] P617Y GACATGAATATTAGACTTCTTCGGGCGTAGGGGGTAGGGGGGTTTGTCGCGCGAAAAAAC [60] M605Y GACATGAATATTAGACTTTTTCGGGCGTAGGGGGTAAGGGGGTTTGTCGCGCGAAAAAAC [60] P626Y GACATGAATATTAGACTTCTTCGGGCGTAGGGGGTAGGGGGGTTTGTCGCGCGAAAAAAC [60] P624Y GACATGAATATTAGACTTTTTCGGGCGTAGGGGGTAAGGGGGTTTGTCGCGCGAAAAAAC [60] P616Y GACATGAATATTAGACTTCTTCGGGCGTAGGGGGTAGGGGGGTTTGTCGCGCGAAAAAAC [60] P612Y GACATGAATATTAGACTTCTTCGGGCGTAGGGGGTAGGGGGGTTTGTCGCGCGAAAAAAC [60] M604Y GACATGAATATTAGACTTCTTCGGGCGTAGGGGGTAGGGGGGTTTGTCGCGCGAAAAAAC [60] P623Y GACATGAATATTAGACTTCTTCGGGCGTAGGGGGTAAGGGGGTTTGTCGCGCGAAAAAAC [60] P622Y GACATGAATATTAGACTTCTTCGGGCGTAGGGGGTAAGGGGGTTTGTCGCGCGAAAAAAC [60] M602Y GACATGAATATTAGACTTCTTCGGGCGTAGGGGGTAGGGGGGTTTGTCGCGCGAAAAAAC [60] P609Y GACATGAATATTAGACTTCTTCGGGCGTAGGGGGTAAGGGGGTTTGTCGCGCGAAAAAAC [60] P614Y CTCCTAGTTTTCCGAAGAGGGGGG-CAGTATAATAGGGTAACTTGGGTTGAGAGTTGATC [119] G608Y CTCCTAGTTTTCCGAAGAGGGGGG-CAGTATAATAGGGTAACTTGGGTTGAGAGTTGATC [119] P611Y CTCCTAGTTTTCCGAAGAGGGGGG-CAGTATAATAGGGTAACTTGGGTTGAGAGTTGATC [119] P610Y CTCCTAGTTTTCCGAAGAGGGGGGGCAGTATAATAGGGTAACTTGGGTTGAGAGTTGATC [120] Y627J CTCCTAGTTTTCCGAAGAGGGGGG-CAGTATAATAGGGTAATCTGGGTTGAGAATTGATC [119] G602Y CTCCTAGTTTTCCGAAGAGGGGGG-CAGTATAATAGGGTAACTTGGGTTGAGAGTTGATC [119] P620Y CTCCTAGTTTTCCGAAGAGGGGGG-CAGTATAATAGGGTAATCTGGGTTGAGAATTGATC [119] P619Y CTCCTAGTTTTCCGAAGAGGGGGG-CAGTATAATAGGGTAACTTGGGTTGAGAGTTGATC [119] Y628J CTCCTAGTTTTCCGAAGAGGGGGGGCAGTATAATAGGGTAACTTGGGTTGAGAGTTGATC [120] Y630J CTCCTAGTTTTCCGAAGAGGGGGG-CAGTATAATAGGGTAACTTGGGTTGAGAGTTGATC [119] P621Y CTCCTAGTTTTCCGAAGAGGGGGG-CAGTATAATAGGGTAATCTGGGTTGAGAATTGATC [119] P610Y CTCCTAGTTTTCCGAAGAGGGGGG-CAGTATAATAGGGTAATCTGGGTTGAGAATTGATC [119] M601Y CTCCTAGTTTTCCGAAGAGGGGGG-CAGTATAATAGGGTAATCTGGGTTGAGAATTGATC [119] P613Y CTCCTAGTTTTTCGAAGAGGGGGG-CAGTATAATAGGGTAACTTGGGTTGAGAGTTGATC [119] G601Y CTCCTAGTTTTCCGAAGAGGGGGG-CAGTATAATAGGGTAACTTGGGTTGAGAGTTGATC [119] Y629J CTCCTAGTTTTCCGAAGAGGGGGGGCAGTATAATAGGGTAACTTGGGTTGAGAGTTGATC [120] P618Y CTCCTAGTTTTCCGAAGAGGGGGG-CAGTATAATAGGGTAACTTGGGTTGAGAGTTGATC [119] P617Y CTCCTAGTTTTCCGAAGAGGGGGG-CAGTATAATAGGGTAACTTGGGTTGAGAGTTGATC [119]

Page 136: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

127

M605Y CTCGTAGTTTTCCGAAGAGGGGGG-CAGTATAATAGGGTAATCTGGGTTGAGAATTGATC [119] P626Y CTCCTAGTTTTCCGAAGAGGGGGGGCAGTATAATAGGGTAACTTGGGTTGAGAGTTGATC [120] P624Y CTCCTAGTTTTCCGAAGAGGGGGG-CAGTATAATAGGGTAATCTGGGTTGAGAATTGATC [119] P616Y CTCCTAGTTTTCCGAAGAGGGGGGGCAGTATAATAGGGTAACTTGGGTTGAGAGTTGATC [120] P612Y CTCCTAGTTTTCCGAAGAGGGGGG-CAGTATAATAGGGTAACTTGGGTTGAGAGTTGATC [119] M604Y CTCCTAGTTTTCCTAAGAGGGGGG-CAGTATAATAGGGTAACTTGGGTTGAGAGTTGATC [119] P623Y CTCCTAGTTTTCCGAAGAGGGGGG-CAGTATAATAGGGTAATCTGGGTTGAGAATTGATC [119] P622Y CTCCTAGTTTTCCGAAGAGGGGGGGCAGTATAATAGGGTAATCTGGGTTGAGAATTGATC [120] M602Y CTCCTAGTTTTCCGAAGAGGGGGG-CAGTATAATAGGGTAACTTGGGTTGAGAGTTGATC [119] P609Y CTCCTAGTTTTCCGAAGAGGGGGG-CAGTATAATAGGGTAATCTGGGTTGAGAATTGATC [119] P614Y TATTATGCACTTGATATCACTTATGTGGTTCTTTAGTGAATGCTAATGAAGTGCTGAAAA [179] G608Y TATTATGCACTTGATATCACTTATGTGGTTCTTTAGTGAATGCTAATGAAGTGCTGAAGA [179] P611Y TATTATGCACTTGATATCACTTATGTGGTTCTTTAGTGAATGCTAATGAAGTGCTGAAGA [179] P610Y TATTATGCACTTGATATCACTTATGTGGTTCTTTGATGAATGCTAATGAAGTGCTGAAGA [180] Y627J TATTATGCACTTGATAACACTTATGTGGTTCTTTAGTGAATGCTAATGAAGTGCTGAAAA [179] G602Y TATTATGCACTTGATATCACTTATGTGGTTCTTTAGTGAATGCTAATGAAGTGCTGAAGA [179] P620Y TATTATGCACTTGATAACACTTATGTGGTTCTTTGATGAATGCTAATGAAGTGCTGAAAA [179] P619Y TATTATGCACTTGATATCACTTATGTGGTTCTTTAGTGAATGCTAATGAAGTGCTGAAAA [179] Y628J TATTATGCACTTGATATCACTTATGTGGTTCTTTAGTGAATGCTAATGAAGTGCTGAAGA [180] Y630J TATTATGCACTTGATATCACTTATGTGGTTCTTTAGTGAATGCTAATGAAGTGCTGAAAG [179] P621Y TATTATGCACTTGATAACACTTATGTGGTTCTTTAGTGAATGCTAATGAAGTGCTGGAAA [179] P610Y TATTATGCACCTGATAACACTTATGTGGTTCTTTAGTGAATGCTAATGAAGTGCTGAAGA [179] M601Y TATTATGCACTTGATAACACTTATGTGGTTCTTTGGTGAATGCTAATGAAGTGCTGAAGA [179] P613Y TATTATGCACTTGATATCACTTATGTGGTTCTTTAGTTAATGCTAATGAAGTGCTGAAGA [179] G601Y TATTATGCACTTGATATCACTTATGTGGTTCTTTAGTGAATGCTAATGAAGTGCTGAAGA [179] Y629J TATTATGCACTTGATATCACTTATGTGGTTCTTTAGTGAATGCTAATGAAGTGCTGAAGA [180] P618Y TATTATGCACTTGATATCACTTATGTGGTTCTTTAGTGAATGCTAATGAAGTGCTGAAGA [179] P617Y TATTATGCACTTGATATCACTTATGTGGTTCTTTAGTGAATGCTAATGAAGTGCTGAAAG [179] M605Y TATTATGCACTTGATAACACTTATGTGGTTCTTTAGTGAATGCTAATGAAGTGCTGAAGA [179] P626Y TATTATGCACTTGATATCACTTATGTGGTTCTTTAGTGAATGCTAATGAAGTGCTGAAAA [180] P624Y TATTATGCACTTGATAACACTTATGTGGTTCTTTAGTGAATGCTAATGAAGTGCTGAAGA [179] P616Y TATTATGCACTTGATATCACTTATGTGGTTCTTTAATGAATGCTAATGAAGTGCTGAAGA [180] P612Y TATTATGCACTTGATATCACTTATGTGGTTCTTTAGTGAATGCTAATGAAGTGCTGAAAA [179] M604Y TATTATGCACTTGATATCACTTATGTGGTTCTTTAGTGAATGCTAATGAAGTGCTGAAGA [179] P623Y TATTATGCACCTGATAACACTTATGTGGTTCTTTAATGAATGCTAATGAAGTGCTGAAGA [179] P622Y TATTATGCACTTGATAACACTTATGTGGTTCTTTAGTGAATGCTAATGAAGTGCTGAAGA [180] M602Y TATTATGCACTTGATATCACTTATGTGGTTCTTTAGTGAATGCTAATGAAGTGCTGAAAA [179] P609Y TATTATGCACTTGATAACACTTATGTGGTTCTTTGATGAATGCTAATGAAGTGCTGAAAA [179] P614Y GTGGTTACTTATTCAAGGAAATGTTCTACCTTTAAACGTTAACATTAGGAAGGAGTCGCC [239] G608Y GTGGTTACTTATTCAAGGAAATGTTCTACCTTTAAACGTTAACATTAGGAAGGAGTCGCC [239] P611Y GTGGTTACTTATTCAAGGAAATGTTCTACCTTTAAACGTTAACATTAGGAAGGAGTCGCC [239] P610Y GTGATTACTTATTCAAGGAAATGTTCTACCTTTAAACGTTAACATTAGGAAGGAGTCGCC [240] Y627J GTGGTTACTTATTCAAGGAAATGTTCTACCTTTAAACGTTAACATTAGGAAGGAGTCGCC [239] G602Y GTGGTTACTTATTCAAGGAAATGTTCTACCTTTAAACGTTAACATTAGGAAGGAGTCGCC [239] P620Y GTGGTTACTTATTCAAGGAAATGTTCTACCTTTAAACGTTAACATTAGGAAGGAGTCGCC [239] P619Y GTGATTACTTATTCAAGGAAATGTTCTACCTTTAAACGTTAACATTAGGAAGGAGTCGCC [239] Y628J GTGATTACTTATTCAAGGAAATGTTCTACCTTTAAACGTTAACATTAGGAAGGAGTCGCC [240] Y630J GTGATTACTTATTCAAGGAAATGTTCTACCTTTAAACGTTAACATTAGGAAGGAGTCGCC [239] P621Y GTGGTTACTTATTCAAGGAAATGTTCTACCTTTAAACGTTAACATTAGGAAGGAGTCGCC [239] P610Y GTGGTTACTTATTCAAGGAAATGTTCTACCTTTAAACGTTAACATTAGGAAGGAGTCGCC [239] M601Y GTGGTTACTTATTCAAGGAAATGTTCTACCTTTAAACGTTAACATTAGGAAGGAGTCGCC [239] P613Y GTGGTTACTTATTCAAGGAAATGTTCTACCTTTAAACGTTAACATTAGGAAGGAGTCGCC [239] G601Y GTGATTACTTATTCAAGGAAATGTTCTACCTTTAAACGTTAACATTAGGAAGGAGTCGCC [239] Y629J GTGATTACTTATTCAAGGAAATGTTCTACCTTTAAACGTTAACATTAGGAAGGAGTCGCC [240] P618Y GTGGTTACTTATTCAAGGAAATGTTCTACCTTTAAACGTTAACATTAGGAAGGAGTCGCC [239] P617Y GTGGTTACTTATTCAAGGAAATGTTCTACCTTTAAACGTTAACATTAGGAAGGAGTCGCC [239] M605Y GTGGTTACTTATTCAAGGAAATGTTCTACCTTTAAACGTTAACATTAGGAAGGAGTCGCC [239] P626Y GTGGTTACTTATTCAAGGAAATGTTCTACCTTTAAACGTTAACATTAGGAAGGAGTCGCC [240]

Page 137: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

128

P624Y GTGGTTACTTATTCAAGGAAATGTTCTACCTTTAAACGTTAACATTAGGAAGGAGTCGCC [239] P616Y GTGATTACTTATTCAAGGAAATGTTCTACCTTTAAACGTTAACATTAGGAAGGAGTCGCC [240] P612Y GTGGTTACTTATTCAAGGAAATGTTCTACCTTTAAACGTTAACATTAGGAAGGAGTCGCC [239] M604Y GTGGTTACTTATTCAAGGAAATGTTCTACCTTTAAACGTTAACATTAGGAAGGAGTCGCC [239] P623Y GTGGTTACTTATTCAAGGAAATGTTCTACCTTTAAACGTTAACATTAGGAAGGAGTCGCC [239] P622Y GTGGTTACTTATTCAAGGAAATGTTCTACCTTTAAACGTTAACATTAGGAAGGAGTCGCC [240] M602Y GTGATTACTTATTCAAGGAAATGTTCTACCTTTAAACGTTAACATTAGGAAGGAGTCGCC [239] P609Y GTGGTTACTTATTCAAGGAAATGTTCTACCTTTAAACGTTAACATTAGGAAGGAGTCGCC [239] P614Y AAATGCAAAGTGAAAGTGAACGGAAAAAAAGAACCAGATGCATATAAGTGAACGCCCGGC [299] G608Y AAATGCAAAGTGAAAGTGAACGGAAAAAAAGAACCAGATGCATATAAGTGAACGCCCGGC [299] P611Y AAATGCAAAGTGAAAGTGAACGGAAAAAAAGAACCAGATGCATATAAGTGAACGCCCGGC [299] P610Y AAATGCAAAGTGAAAGTGAACGGAAAAAAAGAACCAGATGCATATAAGTGAACGCCCGGC [300] Y627J AAATGCAAAGTGAAAGTGAACGGAAAAAAAGAACCAGATGCATATAAGTGAACGCCCGGC [299] G602Y AAATGCAAAGTGAAAGTGAACGGAAAAAAAGAACCAGATGCATATAAGTGAACGCCCGGC [299] P620Y AAATGCAAAGTGAAAGTGAACGGAAAAAAAGAACCAGATGCATATAAGTGAACGCCCGGC [299] P619Y AAATGCAAAGTGAAAGTGAACGGAAAAAAAGAACCAGATGCATATAAGTGAACGCCCGGC [299] Y628J AAATGCAAAGTGAAAGTGAACGGAAAAAAAGAACCAGATGCATATAAGTGAACGCCCGGC [300] Y630J AAATGCAAAGTGAAAGTGAACGGAAAAAAAGAACCAGATGCATATAAGTGAACGCCCGGC [299] P621Y AAATGCAAAGTGAAAGTGAACGGAAAAAAAGAACCAGATGCATATAAGTGAACGCCCGGC [299] P610Y AAATGCAAAGTGAAAGTGAACGGAAAAAAAGAACCAGATGCATATAAGTGAACGCCCGGC [299] M601Y AAATGCAAAGTGAAAGTGAACGGAAAAAAAGAACCAGATGCATATAAGTGAACGCCCGGC [299] P613Y AAATGCAAAGTGAAAGTGAACGGAAAAAAAGAACCAGATGCATATAAGTGAACGCCCGGC [299] G601Y AAATGCAAAGTGAAAGTGAACGGAAAAAAAGAACCAGATGCATATAAGTGAACGCCCGGC [299] Y629J AAATGCAAAGTGAAAGTGAACGGAAAAAAAGAACCAGATGCATATAAGTGAACGCCCGGC [300] P618Y AAATGCAAAGTGAAAGTGAACGGAAAAAAAGAACCAGATGCATATAAGTGAACGCCCGGC [299] P617Y AAATGCAAAGTGAAAGTGAACGGAAAAAAAGAACCAGATGCATATAAGTGAACGCCCGGC [299] M605Y AAATGCAAAGTGAAAGTGAACGGAAAAAAAGAACCAGATGCATATAAGTGAACGCCCGGC [299] P626Y AAATGCAAAGTGAAAGTGAACGGAAAAAAAGAACCAGATGCATATAAGTGAACGCCCGGC [300] P624Y AAATGCAAAGTGAAAGTGAACGGAAAAAAAGAACCAGATGCATATAAGTGAACGCCCGGC [299] P616Y AAATGCAAAGTGAAAGTGAACGGAAAAAAAGAACCAGATGCATATAAGTGAACGCCCGGC [300] P612Y AAATGCAAAGTGAAAGTGAACGGAAAAAAAGAACCAGATGCATATAAGTGAACGCCCGGC [299] M604Y AAATGCAAAGTGAAAGTGAACGGAAAAAAAGAACCAGATGCATATAAGTGAACGCCCGGC [299] P623Y AAATGCAAAGTGAAAGTGAACGGAAAAAAAGAACCAGNNGCATATAAGTGAACGCCCGGC [299] P622Y AAATGCAAAGTGAAAGTGAACGGAAAAAAAGAACCAGATGCATATAAGTGAACGCCCGGC [300] M602Y AAATGCAAAGTGAAAGTGAACGGAAAAAAAGAACCAGATGCATATAAGTGAACGCCCGGC [299] P609Y AAATGCAAAGTGAAAGTGAACGGAAAAAAAGAACCAAATGCATATAAGTGAACGCCCGGC [299] P614Y ATGGTGGGTAACGAGTCGTTAGTACCCCACCATTAACTTATGCCTGGAAAATTCAAATCT [359] G608Y ATGGTGGGTAACGAGTCGTTAGTACTCCACCATTAACTTATGCCTGGAAAATTCAAATCT [359] P611Y ATGGTGGGTAACGAGTCGTTAGTACCCCACCATTAACTTATGCCTGGAAAATTCAAATCT [359] P610Y ATGGTGGGTAACGAGTCGTTAGTACCCCACCATTAACTTATGCCTGGAAAGTTCAAATCT [360] Y627J ATGGTGGGTAACGAGTCGTTAGTACCCCACCATTAACTTATGCCTGGAAAGTTCAAATCT [359] G602Y ATGGTGGGTAACGAGTCGTTAGTACCCCACCATTAACTTATGCCTGGAAAATTCAAATCT [359] P620Y ATGGTGGGTAACGAGTCGTTAGTACCCCACCATTAACTTATGCCTGGAAAATTCAAATCT [359] P619Y ATGGTGGGTAACGAGTCGTTAGTACCCCACCATTAACTTATGCCTGGAAAATTCAAATCT [359] Y628J ATGGTGGGTAACGAGTCGTTAGTACCCCACCATTAACTTATGCCTGGAAAATTCAAATCT [360] Y630J ATGGTGGGTAACGAGTCGTTAGTACCCCACCATTAACTTATGCCTGGAAAATTCAAATCT [359] P621Y ATGGTGGGTAACGAGTCGTTAGTACTCCACCATTAACTTATGCCTGGAAAATTCAAATCT [359] P610Y ATGGTGGGTAACGAGTCGTTAGTACTCCACCATTAACTTATGCCTGGAAAATTCAAATCT [359] M601Y ATGGTGGGTAACGAGTCGTTAGTATCCCACCATTAACTTATGCCTGGAAAATTCAAATCT [359] P613Y ATGGTGGGTAACGAGTCGTTAGTACTCCACCATTAACTTATGCCTGGAAAGTTCAAATTT [359] G601Y ATGGTGGGTAACGAGTCGTTAGTACCCCACCATTAACTTATGCCTGGAAAATTCAAATCT [359] Y629J ATGGTGGGTAACGAGTCGTTAGTACCCCACCATTAACTTATGCCTGGAAAATTCAAATCT [360] P618Y ATGGTGGGTAACGAGTCGTTAGTACCCCACCATTAACTTATGCCTGGAAAATTCAAATCT [359] P617Y ATGGTGGGTAACGAGTCGTTAGTACCCCACCATTAACTTATGCCTGGAAAATTCAAATTT [359] M605Y ATGGTGGGTAACGAGTCGTTAGTACTCCACCATTAACTTATGCCTGGAAAATTCAAATCT [359] P626Y ATGGTGGGTAACGAGTCGTTAGTACTCCACCATTAACTTATGCCTGGAAAATTCAAATCT [360] P624Y ATGGTGGGTAACGAGTCGTTAGTACCCCACCATTAACTTATGCCTGGAAAATTCAAATCT [359] P616Y ATGGTGGGTAACGAGTCGTTAGTACCCCACCATTAACTTATGCCTGGAAAGTTCAAATCT [360]

Page 138: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

129

P612Y ATGGTGGGTAACGAGTCGTTAGTACCTCACCATTAACTTATGCCTGGAAAATTCAAATTT [359] M604Y ATGGTGGGTAACGAGTCGTTAGTACTCCACCATTAACTTATGCCTGGAAAATTCAAATCT [359] P623Y ATGGTGGGTAACGAGTCGTTAGTACCCCACCATTAACTTATGCCTGGAAAATTCAAATCT [359] P622Y ATGGTGGGTAACGAGTCGTTAGTACCCCACCATTAACTTATGCCTGGAAAATTCAAATCT [360] M602Y ATGGTGGGTAACGAGTCGTTAGTACCCCACCATTAACTTATGCCTGGAAAATTCAAAATT [359] P609Y ATGGTGGGTAACGAGTCGTTAGTACCCCACCATTAACTTATGCCTGGAAAATTCAAATCT [359] P614Y TAGGGGGATTATAAATGTATGGCCCTGAAATAGGAACCAAATGCCAGGAATAGTTCACCG [419] G608Y TAGGGGGATTATAAATGTATGGCCCTGAAATAGGAACCAAATGCCAGGAATAGTTCACCA [419] P611Y TAGGGGGACTATAAATGTATGGCCCTGAAATAGGAACCAAATGCCAGGAATAGTTCACCA [419] P610Y TAGGGGGACTATAAATGTATGGCCCTGAAATAGGAACCAAATGCCAGGAATAGTTCACTA [420] Y627J TAGGGGGATTATAAATGTGTGGCCCTGAAATAGGAACCAAATGCCAGGAATAGTTCACCA [419] G602Y TAGGGGGATTATAAATGTATGGCCCTGAAATAGGAACCAAATGCCAGGAATAGTTCACCA [419] P620Y TAGGGGGATTATAAATGTATGGCCCTGAAATAGGAACCAAATGCCAGGAATAGTTCACCA [419] P619Y TAGGGGGATTATAAATGTATGGCCCTGAAATAGGAACCAAATGCCAGGAATAGTTCACCA [419] Y628J TAGGGGGATTATAAATGTATGGCCCTGAAATAGGAACCAAATGCCAGGAATAGTTCACCA [420] Y630J TAGGGGGATTATAAGTGTATGGCCCTGAAATAGGAACCAAATGCCAGGAATAGTTCACCG [419] P621Y TAGGGGGATTATAAATGTGTGGCCCTGAAATAGGAACCAAATGCCAGGAATAGTTCACCG [419] P610Y TAGGGGGATTATAAATGTGTGGCCCTGAAATAGGAACCAAATGCCAGGAATAGTTCACCA [419] M601Y TAGGGGGATTATAAATGTGTGGCCCTGAAATAGGAACCAAATGCCAGGAATAGTTCACCA [419] P613Y TAGGGGGATTATAAATGTATGGCCCTGAAATAGGAACCAAATGCCAGGAATAGTTCACCA [419] G601Y TAGGGGGGTTATAAATGTATGGCCCTGAAATAGGAACCAAATGCCAGGAATAGTTCACCA [419] Y629J TAGGGGGATTATAAATGTATGGCCCTGAAATAGGAACCAAATGCCAGGAATAGTTCACCA [420] P618Y TAGGGGGATTATAAATGTATGGCCCTGAAATAGGAACCAAATGCCAGGAATAGTTCACCA [419] P617Y TAGGGGGATTATAAATGTATGGCCCTGAAATAGGAACCAAATGCCAGGAATAGTTCACTA [419] M605Y TAGGGGGATTATAAATGTGTGGCCCTGAAATAGGAACCAAATGCCAGGAATAGTTCACCA [419] P626Y TAGGGGGATTATAGATGTATGGCCCTGAAATAGGAACCAAATGCCAGGAATAGTTCACCG [420] P624Y TAGGGGGACTATAGATGTGTGGCCCTGAAATAGGAACCAAATGCCAGGAATAGTTCACCA [419] P616Y TAGGGGGACTATAAATGTATGGCCCTGAAATAGGAACCAAATGCCAGGAATAGTTCACCA [420] P612Y TAGGGGGATTATAAGTGTATGGCCCTGAAATAGGAACCAAATGCCAGGAATAGTTCATAG [419] M604Y TAGGGGGATTATAGATGTATGGCCCTGAAATAGGAACCAAATGCCAGGAATAGTTCACCG [419] P623Y TAGGGGGATTATAAATGTATGGCCCTGAAATAGGAACCAAATGCCAGGAATAGTTCACCA [419] P622Y TAGGGGGATTATAGATGTGTGGCCCTGAAATAGGAACCAAATGCCAGGAATAGTTCACCA [420] M602Y TAGGGGGATTATAGATGTATGGCCCTGAAATAGGAACCAAATGCCAGGAATAGTTCACCG [419] P609Y TAGGGGGATTATAAATGTGTGGCCCTGAAATAGGAACCAAATGCCAGGAATAGTTCACCA [419] P614Y TGTGAAACCCCCACGATTTTTGTCCGTGATCTTATCATTCATGATATGCGCGACTCAATA [479] G608Y TGTGAAACCCCCACGATTTTTGTCCGTGATCTTATCATTCATGATATGCGCGACTCAATA [479] P611Y TGTGAAACCCCCACGATTTTTGTCCGTGATCTTATCATTCATGATATGCGCGACTCAATA [479] P610Y TGTGAAACCCCCACAATTTTTGTCCGTGATCTTATCATTCATGATATGCGCGACTCAATA [480] Y627J TGTGAAACCCCCACAGTTTTTGTCCGTGATCTTATCATTCATGATATGCGCGACTCAATC [479] G602Y TGTGAAACCCCCACGATTTTTGTCCGTGATCTTATCATTCATGATATGCGCGACTCAATA [479] P620Y TGTGAAACCCCCACAGTTTTTGTCCGTGATCTTATCATTCATGATATGCGCGACTCAATC [479] P619Y TGTGAAACCCCCACGATTTTTGTCCGTGATCTTATCATTCATGATATGCGCGACTCAATA [479] Y628J TGTGAAACCCCCACGATTTTTGTCCGTGATCTTATCATTCATGATATGCGCGACTCAATA [480] Y630J TGTGAAACCCCCACGATTTTTGTCCGTGATCTTATCATTCATGATATGCGCGACTCAATA [479] P621Y TGTGAAACCCCCACAATTTTTGTCCGTGATCTTATCATTCATGATATGCGCGACTCAATC [479] P610Y TGTGAAACCCCCACAGTTTTTGTCCGTGATCTTATCATTCATGATATGCGCGACTCAATC [479] M601Y TGTGAAACCCCCACAATTTTTGTCCGTGATCTTATCATTCATGATATGCGCGACTCAATC [479] P613Y TGTGAAACCCCCACGATTTTTGTCCGTGATCTTATCATTCATGATATGCGCGACTCAATA [479] G601Y TGTGAAACCCCCACGATTTTTGTCCGTGATCTTATCATTCATGATATGCGCGACTCAATA [479] Y629J TGTGAAACCCCCACGATTTTTGTCCGTGATCTTATCATTCATGATATGCGCGACTCAATA [480] P618Y TGTGAAACCCCCACGATTTTTGTCCGTGATCTTATCATTCATGATATGCGCGACTCAATA [479] P617Y TGTGAAACCCCCACGATTTTTGTCCGTGATCTTATCATTCATGATATGCGCGACTCAATA [479] M605Y TGTGAAACCCCCACAGTTTTTGTCCGTGATCTTATCATTCATGATATGCGCGACTCAATC [479] P626Y TGTGAAACCCCCACGATTTTTGTCCGTGATCTTATCATTCATGATATGCGCGACTCAATA [480] P624Y TGTGAAACCCCCACGGTTTTTGTCCGTGATCTTATCATTCATGATATGCGCGACTCAATC [479] P616Y TGTGAAACCCCCACAATTTTTGTCCGTGATCTTATCATTCATGATATGCGCGACTCAATA [480] P612Y TGTGAAACCCCCACGATTTTTGTCCGTGATCTTATCATTCATGATATGCGCTACTCAATA [479] M604Y TGTGAAACCCCCACGATTTTTGTCCGTGATCTTATCATTCATGATATGCGCGACTCAATA [479]

Page 139: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

130

P623Y TGTGAAACCCCCACAGTTTTTGTCCGTGATCTTATCATTCATGATATGCGCGACTCAATC [479] P622Y TGTGAAACCCCCACAGTTTTTGTCCGTGATCTTATCATTCATGATATGCGCGACTCAATC [480] M602Y TGTGAAACCCCCACGGTTTTTGTCCGTGATCTTATCATTCATGATATGCGCGACTCAATA [479] P609Y TGTGAAACCCCCACAATTTTTGTCCGTGATCTTATCATTCATGATATGCGCGACTCAATC [479] P614Y GTGTTGGTCGGTTCTTACTACATTAAATAATTTAGTATCGATATTTGGTGAGTAACGCAA [539] G608Y GTGTTGGTCGGTTCTTACTACATTAAGTAACTTAGTACCGATATTTGGTGAGTAACGCAA [539] P611Y GTGTTGGTCGGTTCTTACTACATTAAGTAACTTAGTACCGATACTTGATGAGTAACGCAA [539] P610Y GTGTTGGTCGGTTCTTACTACATTAAGTAATTTAATATCGATACTTGATGAGTAACGCAA [540] Y627J GTGTTGGTCGGTTCTCACTACATTAAATAATTCTGTAGCTATTCTTGGTGAGTAACGCAA [539] G602Y GTGTTGGTCGGTTCTTACTACATTAAATAACTTAGTACCGATATTTGATGAGTAACGCAA [539] P620Y GTGTTGGTCGGTTCTCACTACATTAAATAATTCTGTAGCTATTCTTGGTGAGTAACGCAA [539] P619Y GTGTTGGTCGGTTCTCACTACATTAAGTAGTTTAGTGCCGATATTTGGTGAGTAACGCAA [539] Y628J GTGTTGGTCGGTTCTTACTACATTAAGTAACTTAGTATCGATATTTGGTGAGTAACGCAA [540] Y630J GTGTTGGTCGGTTCTTACTACATTAAGTAATTTAGTATCGATATTTGATGAGTAACGCAA [539] P621Y GTGTTGGTCGGTTCTCACTACATTAAATAATTCTATAGCTATTCTTGGTGAGTAACGCAA [539] P610Y GTGTTGGTCGGTTCTCACTACATTAAATAATTCTATAGCTATTCTTGGTGAGTAACGCAA [539] M601Y GTGTTGGTCGGTTCTCACTACATTAAATAATTCTGTAGCTATTCTTGGTGAGTAACGCAA [539] P613Y GTGTTGGTCGGTTCTTACTACATTAAATAATTTAGTACCGATATTTGGTGAGTAACGCAA [539] G601Y GTGTTGGTCGGTTCTTACTACATTAAATAACTTAGTACCAATATTTGGTGAGTAACGCAA [539] Y629J GTGTTGGTCGGTTCTTACTACATTAAGTAACTTAGTATCGATATTTGGTGAGTAACGCAA [540] P618Y GTGTTGGTCGGTTCTTACTACATTAAGTAATTTGGTGCCAATATTTGGTGAGTAACGCAA [539] P617Y GTGTTGGTCGGTTCTTACTACATTAAATAATTTAGTACCAATATTTGGTGAGTAACGCAA [539] M605Y GTGTTGGTCGGTTCTCACTACATTAAATAATTCTGTAGCTATTCTTGGTGAGTAACGCAA [539] P626Y GTGTTGGTCGGTTCTTACTACATTAAATAGCTTAGTATCGATACTTGATGAGTAACGCAA [540] P624Y GTGTTGGTCGGTTCTCACTACATTAAATAATTCTATAGCTATTCTTGGTGAGTAACGCAA [539] P616Y GTGTTGGTCGGTTCTTACTACATTAAATAATTTAATATCGATACTTGATGAGTAACGCAA [540] P612Y GTGTTGGTCGGTTCTTACTACATTAAGTAGTTTGGTATCGATATTTGATGAGTAACGCAA [539] M604Y GTGTTGGTCGGTTCTTACTACATTAAATAGCTTAATATCGATACTTGATGAGTAACGCAA [539] P623Y GTGTTGGTCGGTTCTCACTACATTAAATAATTTCGTAGCTATTCTTGGTGAGTAACGCAA [539] P622Y GTGTTGGTCGGTTCTCACTACATTAAATAATTTTATAGCTATTCTTGGTGAGTAACGCAA [540] M602Y GTGTTGGTCGGTTCTTACTACATTAAGTAATTTAGTACCGATATTTGATGAGTAACGCAA [539] P609Y GTGTTGGTCGGTTCTCACTACATTAAATAATTCTGTAGCTATTCTTGGTGAGTAACGCAA [539] P614Y GGAAAATGTTTTAATGAAGTTATGGGGGTTAATCTATTTACC [581] G608Y GGAAAATGTTTCAATACGGTTATGGGGATTAATCTATTTACC [581] P611Y GGAAAATGTTTTAATGCAGTTATGGGGATTAATCTATTTACC [581] P610Y GGAAAATGTTTTAATGCAGTTATTGGGATTAATCTATTTATC [582] Y627J GGAAAATGTTTTTATGGAGTTATTGGGATTAATCTATTTATC [581] G602Y GGAAAATGTTTTAATGCAGTTATGGGGATTAATCTATTTTCC [581] P620Y GGAAAATGTTTTTATGGAGTTATTGGGATTAATCTATTTATC [581] P619Y GGAAAATGTTTTAATGCAGTTATGGGGATTAATCTATTTACC [581] Y628J GGAAAATGTTTTGATGCAGTTATGGGGACTAATCTATTTATC [582] Y630J GGAAAATGTTTTAATGCAGTTATGAGGATTAATCTATTTACC [581] P621Y GGAAAATGTTTCCATGGAGTTATTGGGATTAATCTATTTATC [581] P610Y GGAAAATGTTTTTATGGAGTTATTGGGATTAATCTATTTATC [581] M601Y GGAAAATGTTTTTATGGAGTTATTGGGATTAATCTATTTATC [581] P613Y GGAAAATGTTTCAATGCAGTTATGGGGGTTAATCTATTTACC [581] G601Y GGAAAATGTTTTAATACAGTTATGGGGATTAATCTATTTACC [581] Y629J GGAAAATGTTTTGATGCAGTTATGGGGACTAATCTATTTATC [582] P618Y GGAAAATGTTTCAATACAATTATGGGGGTTAATCTATTTACC [581] P617Y GGAAAATGTTTTAATGCGGTTATGGGGATTAATCTATTTACC [581] M605Y GGAAAATGTTTTCATGGAGTTATTGGGATTAATCTATTTATC [581] P626Y GGAAAATGTTTTAATGCAGTTATGGGGATTAATCTATTTATC [582] P624Y GGAAAATGTTTTCATGGAGTTATTGGGATTAATCTATTTATC [581] P616Y GGAAAATGTTTTAATGCAGTTATTGGGATTAATCTATTTATC [582] P612Y GGAAAATGTTTTAATGCAGTTATGGGGATTAATCTATTTACC [581] M604Y GGAAAATGTTTCAATGCAGTTATAGGGATTAATCTATTTACC [581]

Page 140: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

131

P623Y GGAAAATGTTTTTATGGAGTTATTGGGATTAATCTATTTATC [581] P622Y GGAAAATGTTTTTATGGAGTTATTGGGATTAATCTATTTATC [582] M602Y GGAAAATGTTTCAATGCAGTTATGGGGGTTAATCTATTTATC [581] P609Y GGAAAGTGTTTTTATGGAGTTATTGGGATTAATCTATTTATC [581] B) Aligned mitochondrial cytochrome c oxidase subunit I (COI) sequence data collected from 389 Brevoortia specimens. SMI23 GTATGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] GUN25 GTATGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] GUN19 GTATGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] Gun7 GTATGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] Gun3 GTATGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] GUN24 GTATGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] GUN15 GTATGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] GUN11 GTATGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] Gun10 GTATGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] SMI14 GTATGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] GUN17 GTATGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] GUN14 GTATGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] Smi2 GTATGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] Gun8 GTATGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] Gun9 GTATGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] Gun5 GTGTGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTATGAGCCCACCACATGTTC [60] SMI18 GTGTGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] SMI19 GTGTGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] SMI21 GTATGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] GUN23 GTATGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] GUN18 GTATGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] GUN20 GTGTGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] Smi10 GTGTGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] E717Y GTGTGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] SMI20 GTGTGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] GUN12 GTGTGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] SMI16 GTGTGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] Smi1 GTGTGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] GUN21 GTGTGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] SMI24 GTGTGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] SMI15 GTGTGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] GUN16 GTGTGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] GUN13 GTGTGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] SMI25 GTGTGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] smi11 GTATGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] SMI13 GTATGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] SMI12 GTATGAGCTATGATGGCTATCGGGCTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] SMI22 GTATGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] GUN22 GTATGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] SMI17 GTATGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] E715Y GTATGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] D705Y GTATGAGCTATGATGGCTATCGGACTCCTAGGGTTTATTGTGTGAGCCCACCACATGTTC [60] AS603J GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCACATGTTT [60] E705Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Gun4 GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] A615Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] AS613J GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Y729J GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] SH708Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60]

Page 141: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

132

M764Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Y639J GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] D725Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] A622Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] A621Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Y745J GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Y719Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Y707Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] SH718Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] M605Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Gun6 GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] D703Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] D702Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Y711Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] CH737J GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] D603Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] M763Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] GH701Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] E721Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] D723Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] P622Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Smi8 GTGTGAGCCATGATGGCCATCGGACTTTTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Y725Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Y720Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] P620Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] D712Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] D708Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] E707Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Y747J GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Smi9 GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Smi5 GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] SH729Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] SH723Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] P621Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Gun2 GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Gun1 GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] AS608J GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] CH731J GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Y721Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Y738J GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Y716Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] D701Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] AS612J GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Y637J GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Smi3 GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] E624Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] E722Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] D626Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] A613Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] A612Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] A607Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] A616Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Y773Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Y733J GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Y732J GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Y727J GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Y714Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Y712Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Y710Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Y709Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60]

Page 142: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

133

Y703Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Y642J GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Y628J GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] SH719Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] SH713Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] SH709Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] SH706Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] P623Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] P613Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] P609Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] M759Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] M756Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] M754Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] M753Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] M751Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] M601Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] GH703Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] E704Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] D727Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] D726Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] D722Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] AS607J GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] D614Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] D611Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] D624Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] E712Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] E703Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] CH727J GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] Y776Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] CH736J GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] CH735J GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] CH734J GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] CH728J GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] CH726J GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] CH740J GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] AS602J GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] E708Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] D724Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] A624Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] D709Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] E706Y GTGTGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCACCATATGTTT [60] M760Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D610Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] A617Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] E720Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D706Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G720Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y640J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] P625Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y748J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G723Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y734J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] M603Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D718Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D711Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] E711Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G713Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y636J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y629J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y635J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60]

Page 143: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

134

P619Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y713Y GTATGGGCCATGATGGCCATCGGACTCCTAGGGTTTATTGTGTGAGCCCATCACATGTTC [60] P615Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] P626Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G614Y GTTTGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D616Y GTATGGGCTATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGGGCCCATCACATGTTC [60] D608Y GTATGGGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] E701Y GTATGAGCCATGATGGCCATCGGACTTCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] E623Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y724Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] A620Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTT [60] D601Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] A609Y GTGTGAGCCATGATGGCCATCGGACTCCTAGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G604Y GTGTGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y774Y GTGTGAGCCATGATGGCCATCGGACTCCTAGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y627J GTGTGAGCCATGATGGCCATCGGACTCCTAGGGTTTATTGTGTGAGCCCATCACATGTTC [60] P616Y GTGTGAGCCATGATGGCCATCGGACTCCTAGGGTTTATTGTGTGAGCCCATCACATGTTC [60] M757Y GTGTGAGCCATGATGGCCATCGGACTCCTAGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G703Y GTGTGAGCCATGATGGCCATCGGACTCCTAGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y632J GTGTGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] AS604J GTGTGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D721Y GTGTGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D620Y GTTTGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] AS611J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCACCACATGTTC [60] M604Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D606Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] SH722Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] E716Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D612Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] E627J GTGTGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y737J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y643J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Smi4 GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] SH705Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y641J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] E628J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] E714Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] AS614J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G712Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y706Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G718Y GTATGAGCCATGATGGCCATCGGGCTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] M767Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G721Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G602Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] AS610J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G704Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G710Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y771Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] M766Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] A611Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G624Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] A608Y GTATGAGCCATGATGGCCATCGGACTCCTCGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Smi6 GTATGAGCCATGATGGCCATCGGACTCCTCGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y739J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D704Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G605Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] E724Y GTATGGGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G601Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCTCATCACATGTTC [60] Y728J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y749J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60]

Page 144: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

135

SH710Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] A603Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D604Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y722Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] E709Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y750J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y742J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] SH724Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y638J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] CH732J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G709Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G702Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] A604Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] P624Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] P614Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G708Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] A610Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y634J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] SH707Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D619Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] E713Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] CH738J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] CR620J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y743J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y735J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D625Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D602Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] M606Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] E719Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y704Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] SH721Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] E625J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G622Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G608Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] SH717Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] E702Y GTATGGGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] E626J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D627Y GTATGAGCCATGATGGCCATCGGGCTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y768Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] M758Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] E710Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G701Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G716Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y726J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] E622Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D717Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] C618J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] CH730J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] A602Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] A618Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y775Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y717Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y644J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] SH712Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] M765Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] M607Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] GH702Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G618Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] E718Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] E725Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60]

Page 145: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

136

D609Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D719Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D623Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G714Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] AS616J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] CH739J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] AS609J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G620Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] A619Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] P611Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] AS606J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G611Y GTGTGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G619Y GTTTGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G617Y GTTTGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G621Y GTTTGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G603Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] CH741J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] SH711Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] C619J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y746J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] M752Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] C617J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D605Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y630J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D613Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y715Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y631J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G724Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G610Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D716Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D607Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] AS615J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] SH728Y GTGTGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G707Y GTGTGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] A614Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] A605Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] A601Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] A625Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G711Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y772Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y770Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y769Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y744J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y741J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y740J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y736J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y731J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y730J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y723Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y718Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y708Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y705Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y633J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Smi7 GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] SH716Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] SH714Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] SH727Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] Y701Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] P618Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] P617Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60]

Page 146: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

137

P610Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] M761Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] M755Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] M608J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] GH704Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G625Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G623Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G616Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G615Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G613Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G612Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G609Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G607Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G606Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D714Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D720Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D710Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D621Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D617Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D615Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D707Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D622Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] E723Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G725Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G705Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] CH733J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] CH729J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] CR621J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] AS601J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] AS605J GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G717Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G722Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G715Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G719Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] G706Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] A623Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] M602Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] A606Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] P612Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] D618Y GTATGAGCCATGATGGCCATCGGACTCCTGGGGTTTATTGTGTGAGCCCATCACATGTTC [60] SMI23 ACTGTAGGAATAGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] GUN25 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] GUN19 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] Gun7 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] Gun3 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] GUN24 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] GUN15 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] GUN11 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] Gun10 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] SMI14 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] GUN17 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] GUN14 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] Smi2 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] Gun8 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] Gun9 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] Gun5 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] SMI18 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] SMI19 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] SMI21 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120]

Page 147: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

138

GUN23 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] GUN18 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] GUN20 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] Smi10 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] E717Y ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] SMI20 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] GUN12 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] SMI16 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] Smi1 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] GUN21 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] SMI24 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] SMI15 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] GUN16 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] GUN13 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] SMI25 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] smi11 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] SMI13 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] SMI12 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] SMI22 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] GUN22 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] SMI17 ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] E715Y ACTGTGGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] D705Y ACTGTAGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCC [120] AS603J ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] E705Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Gun4 ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] A615Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] AS613J ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Y729J ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCGGCAACAATGATTATTGCC [120] SH708Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] M764Y ACTGTGGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Y639J ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] D725Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] A622Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] A621Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Y745J ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Y719Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Y707Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] SH718Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] M605Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Gun6 ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] D703Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] D702Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Y711Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] CH737J ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] D603Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] M763Y ACTGTAGGGATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] GH701Y ACTGTAGGGATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] E721Y ACTGTAGGGATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] D723Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATCATTGCC [120] P622Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Smi8 ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Y725Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Y720Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] P620Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] D712Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] D708Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] E707Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Y747J ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Smi9 ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120]

Page 148: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

139

Smi5 ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] SH729Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] SH723Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] P621Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Gun2 ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Gun1 ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] AS608J ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] CH731J ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Y721Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Y738J ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Y716Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] D701Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] AS612J ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Y637J ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Smi3 ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] E624Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] E722Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] D626Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATCGCC [120] A613Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] A612Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] A607Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] A616Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Y773Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Y733J ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Y732J ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Y727J ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Y714Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Y712Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Y710Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Y709Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Y703Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Y642J ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Y629J ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] SH719Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] SH713Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] SH709Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] SH706Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] P623Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] P613Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] P609Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] M759Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] M756Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] M754Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] M753Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] M751Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] M601Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] GH703Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] E704Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] D727Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] D726Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] D722Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] AS607J ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] D614Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] D611Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] D624Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] E712Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] E703Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] CH727J ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] Y776Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] CH736J ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120]

Page 149: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

140

CH735J ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] CH734J ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] CH728J ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] CH726J ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] CH740J ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] AS602J ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] E708Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] D724Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] A624Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] D709Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] E706Y ACTGTAGGAATGGATGTTGACACACGGGCATACTTTACATCAGCAACAATGATTATTGCC [120] M760Y ACTGTAGGAATGGACGTTGACACACGAGCATACTTTACATCGGCGACAATGATTATTGCT [120] D610Y ACTGTAGGAATGGACGTTGACACACGAGCATACTTTACATCGGCGACAATGATTATTGCT [120] A617Y ACTGTAGGAATGGACGTTGACACACGAGCATACTTTACATCGGCGACAATGATTATTGCT [120] E720Y ACTGTAGGAATGGACGTTGACACACGAGCATACTTTACATCGGCGACAATGATTATTGCT [120] D706Y ACTGTAGGAATGGACGTTGACACACGAGCATACTTTACATCGGCGACAATGATTATTGCT [120] G720Y ACTGTAGGAATGGACGTTGACACACGAGCATACTTTACATCGGCGACAATGATTATTGCT [120] Y640J ACTGTAGGAATGGACGTTGACACACGAGCATACTTTACATCGGCGACAATGATTATTGCT [120] P625Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCGACAATGATTATTGCT [120] Y748J ACTGTAGGAATGGACGTTGACACACGAGCATACTTTACATCGGCGACAATGATTATTGCT [120] G723Y ACTGTAGGAATGGACGTTGACACACGAGCATACTTTACATCGGCGACAATGATTATTGCT [120] Y734J ACTGTAGGAATGGACGTTGACACACGAGCATACTTTACATCGGCGACAATGATTATTGCT [120] M603Y ACTGTAGGAATGGACGTTGACACACGAGCATACTTTACATCGGCGACAATGATTATTGCT [120] D718Y ACTGTAGGAATGGACGTTGACACACGAGCATACTTTACATCGGCGACAATGATTATTGCT [120] D711Y ACTGTAGGAATGGACGTTGACACACGAGCATACTTTACATCGGCGACAATGATTATTGCT [120] E711Y ACTGTAGGAATGGACGTTGACACACGAGCATACTTTACATCGGCGACAATGATTATTGCT [120] G713Y ACTGTAGGAATGGACGTTGACACACGAGCATACTTTACATCGGCGACAATGATTATTGCT [120] Y636J ACTGTAGGAATGGACGTTGACACACGAGCATACTTTACATCGGCGACAATGATTATTGCT [120] Y629J ACTGTAGGAATGGACGTTGACACACGAGCATACTTTACATCGGCGACAATGATTATTGCT [120] Y635J ACTGTAGGAATGGACGTTGACACACGAGCATACTTTACATCGGCGACAATGATTATTGCT [120] P619Y ACTGTAGGAATGGACGTTGACACACGAGCATACTTTACATCGGCGACAATGATTATTGCT [120] Y713Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] P615Y ACCGTGGGAATGGACGTTGACACGCGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] P626Y ACCGTGGGAATGGACGTTGACACGCGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G614Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] D616Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] D608Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] E701Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] E623Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCAGCAACAATGATTATTGCT [120] Y724Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] A620Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] D601Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] A609Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G604Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y774Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y627J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] P616Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] M757Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G703Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y632J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] AS604J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] D721Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] D620Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] AS611J ACCGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] M604Y ACCGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] D606Y ACCGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] SH722Y ACCGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] E716Y ACCGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] D612Y ACCGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] E627J ACCGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120]

Page 150: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

141

Y737J ACCGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y643J ACCGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Smi4 ACCGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] SH705Y ACCGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y641J ACCGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] E628J ACCGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] E714Y ACCGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] AS614J ACCGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G712Y ACCGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y706Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G718Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] M767Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G721Y ACTGTGGGAATGGACGTTGACACACGAGCGTACTTTACATCGGCAACAATGATTATTGCT [120] G602Y ACTGTGGGAATGGACGTTGACACACGAGCGTACTTTACATCGGCAACAATGATTATTGCT [120] AS610J ACTGTGGGAATGGACGTTGACACACGAGCGTACTTTACATCGGCAACAATGATTATTGCT [120] G704Y ACTGTGGGAATGGACGTTGACACACGAGCGTACTTTACATCGGCAACAATGATTATTGCT [120] G710Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y771Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] M766Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] A611Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G624Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] A608Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Smi6 ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y739J ACTGTGGGAATGGACGTTGACACACGAGCATATTTTACATCGGCAACAATGATTATTGCT [120] D704Y ACTGTGGGGATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G605Y ACTGTGGGAATGGATGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] E724Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G601Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y728J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y749J ACCGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] SH710Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] A603Y ACCGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] D604Y ACCGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y722Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] E709Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y750J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y742J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] SH724Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y638J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] CH732J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G709Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G702Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] A604Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] P624Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] P614Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G708Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] A610Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y634J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] SH707Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTCACATCGGCAACAATGATTATTGCT [120] D619Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] E713Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACGATGATTATTGCT [120] CH738J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] CR620J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y743J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y735J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] D625Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] D602Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] M606Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] E719Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y704Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120]

Page 151: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

142

SH721Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] E625J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G622Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G608Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] SH717Y ACTGTGGGGATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] E702Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] E626J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] D627Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y768Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] M758Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] E710Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G701Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G716Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y726J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] E622Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] D717Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] C618J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] CH730J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] A602Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] A618Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y775Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y717Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y644J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] SH712Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] M765Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] M607Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] GH702Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G618Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] E718Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] E725Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] D609Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] D719Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] D623Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G714Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] AS616J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] CH739J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] AS609J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G620Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] A619Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCAGCAACAATGATTATTGCT [120] P611Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCAGCAACAATGATTATTGCT [120] AS606J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCAGCAACAATGATTATTGCT [120] G611Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G619Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G617Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G621Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G603Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] CH741J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] SH711Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] C619J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y746J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] M752Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] C617J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] D605Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y630J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] D613Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y715Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y631J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G724Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G610Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] D716Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120]

Page 152: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

143

D607Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] AS615J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] SH728Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G707Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] A614Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] A605Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] A601Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] A625Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G711Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y772Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y770Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y769Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y744J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y741J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y740J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y736J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y731J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y730J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y723Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y718Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y708Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y705Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y633J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Smi7 ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] SH716Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] SH714Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] SH727Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] Y701Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] P618Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] P617Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] P610Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] M761Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] M755Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] M608J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] GH704Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G625Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G623Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G616Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G615Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G613Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G612Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G609Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G607Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G606Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] D714Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] D720Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] D710Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] D621Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] D617Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] D615Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] D707Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] D622Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] E723Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G725Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G705Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] CH733J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] CH729J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] CR621J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] AS601J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] AS605J ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120]

Page 153: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

144

G717Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G722Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G715Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G719Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] G706Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] A623Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] M602Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] A606Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] P612Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] D618Y ACTGTGGGAATGGACGTTGACACACGAGCATACTTTACATCGGCAACAATGATTATTGCT [120] SMI23 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] GUN25 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] GUN19 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] Gun7 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] Gun3 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] GUN24 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] GUN15 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] GUN11 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] Gun10 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] SMI14 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] GUN17 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] GUN14 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] Smi2 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] Gun8 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] Gun9 ATCCCCACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] Gun5 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] SMI18 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] SMI19 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] SMI21 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] GUN23 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] GUN18 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] GUN20 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] Smi10 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] E717Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] SMI20 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] GUN12 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] SMI16 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] Smi1 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] GUN21 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] SMI24 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] SMI15 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] GUN16 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] GUN13 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] SMI25 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] smi11 ATCCCTACCGGGGTAAAAGTCTTTAGTTGACTTGCAACTCTGCACGGGGGTTCAATTAAG [180] SMI13 ATCCCTACCGGGGTAAAAGTCTTTAGTTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] SMI12 ATCCCTACCGGGGTAAAAGTCTTTAGTTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] SMI22 ATCCCTACCGGGGTAAAAGTCTTTAGTTGACTTGCAACTCTGCACGGGGGTTCAATTAAG [180] GUN22 ATCCCTACCGGGGTAAAAGTCTTTAGTTGACTTGCAACTCTGCACGGGGGTTCAATTAAG [180] SMI17 ATCCCTACCGGGGTAAAAGTCTTTAGTTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] E715Y ATCCCTACCGGGGTAAAAGTCTTTAGTTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] D705Y ATCCCTACCGGGGTAAAAGTCTTTAGTTGACTCGCAACTCTGCACGGGGGTTCAATTAAG [180] AS603J ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] E705Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Gun4 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] A615Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] AS613J ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Y729J ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] SH708Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTTTGCACGGGGGCTCAATTAAG [180]

Page 154: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

145

M764Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Y639J ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] D725Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] A622Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] A621Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Y745J ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Y719Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Y707Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] SH718Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] M605Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Gun6 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] D703Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] D702Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Y711Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] CH737J ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] D603Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] M763Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] GH701Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] E721Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] D723Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAA [180] P622Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Smi8 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Y725Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Y720Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] P620Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] D712Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] D708Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] E707Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Y747J ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Smi9 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Smi5 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] SH729Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] SH723Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] P621Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Gun2 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Gun1 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] AS608J ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] CH731J ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Y721Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Y738J ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Y716Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] D701Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] AS612J ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Y637J ATCCCTACCGGGGTAAAAGTCTTTAGTTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Smi3 ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] E624Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] E722Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] D626Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] A613Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] A612Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] A607Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] A616Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Y773Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Y733J ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Y732J ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Y727J ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Y714Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Y712Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Y710Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Y709Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180]

Page 155: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

146

Y703Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Y642J ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Y628J ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] SH719Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] SH713Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] SH709Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] SH706Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] P623Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] P613Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] P609Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] M759Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] M756Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] M754Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] M753Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] M751Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] M601Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] GH703Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] E704Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] D727Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] D726Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] D722Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] AS607J ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] D614Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] D611Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] D624Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] E712Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] E703Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] CH727J ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] Y776Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] CH736J ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] CH735J ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] CH734J ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] CH728J ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] CH726J ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] CH740J ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] AS602J ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] E708Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] D724Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] A624Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] D709Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] E706Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] M760Y ATTCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCATGGAGGCTCAATCAAG [180] D610Y ATTCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCATGGAGGCTCAATCAAG [180] A617Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] E720Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] D706Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G720Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCATGGGGGCTCAATCAAG [180] Y640J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCATGGGGGCTCAATCAAA [180] P625Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCATGGGGGCTCAATCAAG [180] Y748J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCATGGGGGCTCAATCAAG [180] G723Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCATGGGGGCTCAATCAAG [180] Y734J ATTCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCATGGGGGCTCAATCAAG [180] M603Y ATTCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCATGGGGGCTCAATCAAG [180] D718Y ATTCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCATGGGGGCTCAATCAAG [180] D711Y ATTCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCATGGGGGCTCAATCAAG [180] E711Y ATTCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCATGGGGGCTCAATCAAG [180] G713Y ATTCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCATGGGGGCTCAATCAAG [180] Y636J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCATGGGGGCTCAATCAAG [180] Y629J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCATGGGGGCTCAATCAAG [180] Y635J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCATGGGGGCTCAATCAAG [180]

Page 156: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

147

P619Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCATGGGGGCTCAATCAAG [180] Y713Y ATCCCCACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] P615Y ATCCCAACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] P626Y ATCCCAACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G614Y ATCCCAACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAA [180] D616Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] D608Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] E701Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATTAAG [180] E623Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y724Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACCCTGCACGGGGGCTCAATCAAG [180] A620Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] D601Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] A609Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G604Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y774Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y627J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] P616Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] M757Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G703Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y632J ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] AS604J ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] D721Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] D620Y ATTCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] AS611J ATCCCAACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] M604Y ATCCCAACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] D606Y ATCCCAACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] SH722Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] E716Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] D612Y ATCCCAACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] E627J ATCCCAACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y737J ATCCCAACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y643J ATCCCAACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Smi4 ATCCCAACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] SH705Y ATCCCAACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y641J ATCCCAACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] E628J ATCCCAACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] E714Y ATCCCAACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] AS614J ATCCCAACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G712Y ATCCCAACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y706Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G718Y ATTCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] M767Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G721Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G602Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] AS610J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G704Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G710Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y771Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] M766Y ATCCCTACCGGGGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] A611Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G624Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] A608Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Smi6 ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y739J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] D704Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G605Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] E724Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G601Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y728J ATCCCTACTGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y749J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180]

Page 157: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

148

SH710Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] A603Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] D604Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y722Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] E709Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y750J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y742J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] SH724Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y638J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] CH732J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G709Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G702Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] A604Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] P624Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] P614Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G708Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] A610Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y634J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] SH707Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] D619Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] E713Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] CH738J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] CR620J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y743J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y735J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] D625Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] D602Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] M606Y ATCCCCACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] E719Y ATCCCCACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y704Y ATCCCCACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] SH721Y ATCCCCACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] E625J ATCCCCACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G622Y ATCCCCACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G608Y ATCCCCACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] SH717Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] E702Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] E626J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] D627Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y768Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] M758Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] E710Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G701Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G716Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y726J ATCCCCACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] E622Y ATCCCCACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] D717Y ATCCCCACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] C618J ATCCCCACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] CH730J ATCCCCACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] A602Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] A618Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y775Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y717Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y644J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] SH712Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] M765Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] M607Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] GH702Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G618Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] E718Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] E725Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180]

Page 158: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

149

D609Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] D719Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] D623Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G714Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] AS616J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] CH739J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] AS609J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G620Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] A619Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] P611Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] AS606J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G611Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G619Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G617Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G621Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G603Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] CH741J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] SH711Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] C619J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCGACTCTGCACGGGGGCTCAATCAAG [180] Y746J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] M752Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] C617J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] D605Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y630J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] D613Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y715Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y631J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G724Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTTTGCACGGGGGCTCAATCAAG [180] G610Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGGCTTGCAACTCTGCACGGGGGCTCAATCAAG [180] D716Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] D607Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] AS615J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] SH728Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G707Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] A614Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] A605Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] A601Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] A625Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G711Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y772Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y770Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y769Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y744J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y741J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y740J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y736J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y731J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y730J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y723Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y718Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y708Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y705Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y633J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Smi7 ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] SH716Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] SH714Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] SH727Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] Y701Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] P618Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] P617Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180]

Page 159: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

150

P610Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] M761Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] M755Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] M608J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] GH704Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G625Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G623Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G616Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G615Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G613Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G612Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G609Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G607Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G606Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] D714Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] D720Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] D710Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] D621Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] D617Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] D615Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] D707Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] D622Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] E723Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G725Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G705Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] CH733J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] CH729J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] CR621J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] AS601J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] AS605J ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G717Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G722Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G715Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G719Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] G706Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] A623Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] M602Y ATCCCTACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] A606Y ATCCCCACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] P612Y ATCCCCACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] D618Y ATCCCCACCGGAGTAAAAGTCTTTAGCTGACTTGCAACTCTGCACGGGGGCTCAATCAAG [180] SMI23 TGAGACACCCCCCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] GUN25 TGAGACACCCCCCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] GUN19 TGAGACACCCCCCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] Gun7 TGAGACACCCCCCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] Gun3 TGAGACACCCCCCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] GUN24 TGAGACACCCCCCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] GUN15 TGAGACACCCCCCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] GUN11 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTTACAGTCGGAGGACTC [240] Gun10 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] SMI14 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] GUN17 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] GUN14 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] Smi2 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] Gun8 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] Gun9 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] Gun5 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGGGGACTC [240] SMI18 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] SMI19 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] SMI21 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240]

Page 160: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

151

GUN23 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] GUN18 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] GUN20 TGAGACACCCCTCTTCTGTGGGCCCTGGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] Smi10 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTTACAGTCGGAGGACTC [240] E717Y TGAGACACCCCTCTTCTGTGGGCCCTAGGGTTCATCTTCTTATTCACAGTCGGAGGACTC [240] SMI20 TGAGACACCCCTCTTCTGTGGGCCCTAGGGTTCATCTTCTTATTCACAGTCGGAGGACTC [240] GUN12 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] SMI16 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] Smi1 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] GUN21 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] SMI24 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] SMI15 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] GUN16 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] GUN13 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] SMI25 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] smi11 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] SMI13 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] SMI12 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] SMI22 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] GUN22 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] SMI17 TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] E715Y TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] D705Y TGAGACACCCCTCTTCTGTGGGCCCTAGGATTCATCTTCTTATTCACAGTCGGAGGACTC [240] AS603J TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] E705Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Gun4 TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] A615Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTTACAGTTGGGGGACTC [240] AS613J TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTTACAGTTGGGGGACTC [240] Y729J TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] SH708Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] M764Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y639J TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D725Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] A622Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] A621Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y745J TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y719Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y707Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] SH718Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] M605Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Gun6 TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D703Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D702Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y711Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] CH737J TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D603Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] M763Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] GH701Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] E721Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D723Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] P622Y TGAGACACCCCCCTTTTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Smi8 TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTGTTCACAGTTGGAGGACTC [240] Y725Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTGTTCACAGTTGGAGGACTC [240] Y720Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTGTTCACAGTTGGAGGACTC [240] P620Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTGTTCACAGTTGGAGGACTC [240] D712Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTGTTCACAGTTGGAGGACTC [240] D708Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTGTTCACAGTTGGAGGACTC [240] E707Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTGTTCACAGTTGGAGGACTC [240] Y747J TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTGTTCACAGTTGGAGGACTC [240] Smi9 TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTGTTCACAGTTGGAGGACTC [240]

Page 161: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

152

Smi5 TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTGTTCACAGTTGGAGGACTC [240] SH729Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTGTTCACAGTTGGAGGACTC [240] SH723Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTGTTCACAGTTGGAGGACTC [240] P621Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTGTTCACAGTTGGAGGACTC [240] Gun2 TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTGTTCACAGTTGGAGGACTC [240] Gun1 TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTGTTCACAGTTGGAGGACTC [240] AS608J TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] CH731J TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTGTTCACAGTTGGAGGACTC [240] Y721Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y738J TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y716Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D701Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] AS612J TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y637J TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Smi3 TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] E624Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] E722Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D626Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] A613Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] A612Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] A607Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] A616Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y773Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y733J TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y732J TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y727J TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y714Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y712Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y710Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y709Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y703Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y642J TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y629J TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] SH719Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] SH713Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] SH709Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] SH706Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] P623Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] P613Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] P609Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] M759Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] M756Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] M754Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] M753Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] M751Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] M601Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] GH703Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] E704Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D727Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D726Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D722Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] AS607J TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D614Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D611Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D624Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] E712Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] E703Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] CH727J TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y776Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] CH736J TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240]

Page 162: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

153

CH735J TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] CH734J TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] CH728J TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] CH726J TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] CH740J TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] AS602J TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] E708Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D724Y TGAGACACCCCCCTTCTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] A624Y TGAGACACCCCCCTTTTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D709Y TGAGACACCCCCCTTTTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] E706Y TGAGACACCCCCCTTTTGTGGGCCTTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] M760Y TGAGACACCCCCCTTCTATGGGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D610Y TGAGACACCCCCCTTCTATGGGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] A617Y TGAGACACCCCCCTTCTATGGGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] E720Y TGAGACACCCCCCTTCTATGGGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D706Y TGAGACACCCCCCTTCTATGGGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G720Y TGAGACACCCCCCTTCTATGGGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y640J TGAGACACCCCCCTTCTATGGGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] P625Y TGAGACACCCCCCTTCTATGGGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y748J TGAGACACCCCCCTTCTATGGGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTT [240] G723Y TGAGACACCCCCCTTCTATGGGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTT [240] Y734J TGAGACACCCCCCTTCTATGGGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] M603Y TGAGACACCCCCCTTCTATGGGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D718Y TGAGACACCCCCCTTCTATGGGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D711Y TGAGACACCCCCCTTCTATGGGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] E711Y TGAGACACCCCCCTTCTATGGGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G713Y TGAGACACCCCCCTTCTATGGGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y636J TGAGACACCCCCCTTCTATGGGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y629J TGAGACACCCCCCTTCTATGGGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y635J TGAGACACCCCCCTTCTATGGGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] P619Y TGAGACACCCCCCTTCTATGGGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y713Y TGAGACACCCCTCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] P615Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTCGGAGGACTC [240] P626Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTCGGAGGACTC [240] G614Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTGGGAGGACTC [240] D616Y TGAGACACCCCTCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] D608Y TGAGACACCCCTCTTCTATGGGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] E701Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] E623Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y724Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] A620Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D601Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTTACAGTTGGAGGACTC [240] A609Y TGAGACACCCCCCTCCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G604Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y774Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y627J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] P616Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] M757Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G703Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y632J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] AS604J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D721Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D620Y TGAGACACCCCTCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] AS611J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] M604Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D606Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] SH722Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] E716Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D612Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] E627J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240]

Page 163: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

154

Y737J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y643J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Smi4 TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] SH705Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y641J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] E628J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] E714Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] AS614J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G712Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y706Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G718Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTTACAGTTGGAGGACTC [240] M767Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTTACAGTTGGAGGACTC [240] G721Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTTACAGTTGGAGGACTC [240] G602Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTTACAGTTGGAGGACTC [240] AS610J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTTACAGTTGGAGGACTC [240] G704Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTTACAGTTGGAGGACTC [240] G710Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTT [240] Y771Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTT [240] M766Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTT [240] A611Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGGCTC [240] G624Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTGTTCACAGTTGGAGGACTC [240] A608Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Smi6 TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y739J TGAGACACCCCCCTTCTGTGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D704Y TGAGACACCCCCCTTCTGTGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G605Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] E724Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G601Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y728J TGAGACACCCCTCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y749J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] SH710Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] A603Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D604Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y722Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] E709Y TGAGACACCCCCCTTCTATGAGCCCTAGGTTTCATCTTCCTATTTACAGTTGGAGGACTC [240] Y750J TGAGACACCCCCCTTCTATGAGCCCTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y742J TGAGACACCCCCCTTCTATGAGCCCTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] SH724Y TGAGACACCCCCCTTCTATGAGCCCTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y638J TGAGACACCCCCCTTCTATGAGCCCTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] CH732J TGAGACACCCCCCTTCTATGAGCCCTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G709Y TGAGACACCCCCCTTCTATGAGCCCTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G702Y TGAGACACCCCCCTTCTATGAGCCCTAGGTTTCATCTTCCTATTCACAGTTGGAGGACTC [240] A604Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGGGGACTC [240] P624Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGGGGACTC [240] P614Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGGGGACTC [240] G708Y TGAGACACCCCCCTTCTATGAGCCCTGGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] A610Y TGAGACACCCCCCTTCTATGAGCCCTGGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y634J TGAGACACCCCCCTTCTATGAGCCCTGGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] SH707Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D619Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] E713Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] CH738J TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] CR620J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTCGGAGGACTC [240] Y743J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y735J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D625Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D602Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] M606Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] E719Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y704Y TGAGACACCCCCCTTCTATGAGCCCTGGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240]

Page 164: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

155

SH721Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] E625J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G622Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATTTTCCTATTCACAGTTGGAGGACTC [240] G608Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATTTTCCTATTCACAGTTGGAGGACTC [240] SH717Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] E702Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] E626J TGGGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] D627Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y768Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] M758Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] E710Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] G701Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] G716Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y726J TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] E622Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] D717Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] C618J TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] CH730J TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] A602Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] A618Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y775Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y717Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y644J TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] SH712Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] M765Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] M607Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] GH702Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] G618Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] E718Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] E725Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] D609Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] D719Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] D623Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] G714Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] AS616J TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] CH739J TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] AS609J TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] G620Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] A619Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] P611Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] AS606J TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] G611Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] G619Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] G617Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] G621Y TGAGACACCCCCCTTCTATGAGCCCTAGGATTCATCTTCCTATTCACAGTTGGAGGACTC [240] G603Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] CH741J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] SH711Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTTACAGTTGGAGGACTC [240] C619J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTTACAGTTGGAGGACTC [240] Y746J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTTACAGTTGGAGGACTC [240] M752Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTTACAGTTGGAGGACTC [240] C617J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTTACAGTTGGAGGACTC [240] D605Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATTTTCCTATTCACAGTTGGAGGACTC [240] Y630J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATTTTCCTATTCACAGTTGGAGGACTC [240] D613Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATTTTCCTATTCACAGTTGGAGGACTC [240] Y715Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y631J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G724Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G610Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D716Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240]

Page 165: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

156

D607Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] AS615J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] SH728Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G707Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] A614Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] A605Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] A601Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] A625Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G711Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y772Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y770Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y769Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y744J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y741J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y740J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y736J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y731J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y730J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y723Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y718Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y708Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y705Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y633J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Smi7 TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] SH716Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] SH714Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] SH727Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] Y701Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] P618Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] P617Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] P610Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] M761Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] M755Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] M608J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] GH704Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G625Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G623Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G616Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G615Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G613Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G612Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G609Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G607Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G606Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D714Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D720Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D710Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D621Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D617Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D615Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D707Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] D622Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] E723Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G725Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G705Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] CH733J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] CH729J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] CR621J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] AS601J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] AS605J TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240]

Page 166: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

157

G717Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G722Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G715Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G719Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] G706Y TGAGACACCCCCCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] A623Y TGAGACACCCCTCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] M602Y TGAGACACCCCTCTTCTATGAGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] A606Y TGAGACACCCCCCTTCTATGGGCCCTAGGCTTCATCTTCCTATTCACAGTTGGAGGACTC [240] P612Y TGAGACACCCCCCTTCTGTGAGCCCTAGGCTTTATCTTCCTATTCACAGTTGGAGGACTC [240] D618Y TGAGACACCCCCCTTCTGTGAGCCCTAGGCTTTATCTTCCTATTCACAGTTGGAGGACTC [240] SMI23 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] GUN25 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] GUN19 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] Gun7 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] Gun3 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] GUN24 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] GUN15 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] GUN11 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTATGTA [300] Gun10 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTATGTA [300] SMI14 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTATGTA [300] GUN17 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTATGTA [300] GUN14 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTATGTA [300] Smi2 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTATGTA [300] Gun8 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTATGTA [300] Gun9 ACAGGAATTGTACTAGCTAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] Gun5 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] SMI18 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] SMI19 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] SMI21 ACAGGAATTGTACTAGCTAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] GUN23 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] GUN18 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] GUN20 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] Smi10 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] E717Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] SMI20 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] GUN12 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] SMI16 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] Smi1 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] GUN21 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] SMI24 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] SMI15 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] GUN16 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] GUN13 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] SMI25 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] smi11 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] SMI13 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] SMI12 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] SMI22 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] GUN22 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] SMI17 ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] E715Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] D705Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTACGTA [300] AS603J ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTGCACGACACATACTATGTA [300] E705Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTGCACGACACATACTATGTA [300] Gun4 ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] A615Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] AS613J ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y729J ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] SH708Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300]

Page 167: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

158

M764Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y639J ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D725Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] A622Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] A621Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y745J ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y719Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y707Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] SH718Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] M605Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Gun6 ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D703Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D702Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y711Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] CH737J ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D603Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] M763Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] GH701Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] E721Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D723Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] P622Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] Smi8 ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y725Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] Y720Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] P620Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] D712Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] D708Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] E707Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] Y747J ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Smi9 ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Smi5 ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] SH729Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] SH723Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] P621Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Gun2 ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Gun1 ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] AS608J ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] CH731J ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] Y721Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] Y738J ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] Y716Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] D701Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] AS612J ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] Y637J ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] Smi3 ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] E624Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] E722Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTG [300] D626Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] A613Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] A612Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] A607Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] A616Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] Y773Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] Y733J ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] Y732J ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] Y727J ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] Y714Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] Y712Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] Y710Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] Y709Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300]

Page 168: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

159

Y703Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] Y642J ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] Y628J ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] SH719Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] SH713Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] SH709Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] SH706Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] P623Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] P613Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] P609Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] M759Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] M756Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] M754Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] M753Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] M751Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] M601Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] GH703Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] E704Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] D727Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] D726Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] D722Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] AS607J ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] D614Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] D611Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] D624Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] E712Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] E703Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] CH727J ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] Y776Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] CH736J ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] CH735J ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] CH734J ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] CH728J ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] CH726J ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] CH740J ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] AS602J ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] E708Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] D724Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] A624Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] D709Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] E706Y ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGATACATACTATGTA [300] M760Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] D610Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] A617Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] E720Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] D706Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] G720Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATATTATGTA [300] Y640J ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] P625Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] Y748J ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] G723Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] Y734J ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] M603Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] D718Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] D711Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] E711Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] G713Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] Y636J ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] Y629J ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] Y635J ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300]

Page 169: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

160

P619Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] Y713Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] P615Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] P626Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G614Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D616Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D608Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] E701Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATATTATGTA [300] E623Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y724Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] A620Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D601Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] A609Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] G604Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] Y774Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] Y627J ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] P616Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] M757Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] G703Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] Y632J ACAGGGATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] AS604J ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] D721Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] D620Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] AS611J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] M604Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D606Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] SH722Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] E716Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D612Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] E627J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y737J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y643J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Smi4 ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] SH705Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y641J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] E628J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] E714Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] AS614J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G712Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y706Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G718Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] M767Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G721Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G602Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] AS610J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G704Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G710Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y771Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] M766Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] A611Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G624Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] A608Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Smi6 ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y739J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D704Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G605Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] E724Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G601Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y728J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y749J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300]

Page 170: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

161

SH710Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] A603Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D604Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y722Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] E709Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] Y750J ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] Y742J ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] SH724Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] Y638J ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] CH732J ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] G709Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] G702Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGATATTGTTCTACACGACACATACTATGTA [300] A604Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] P624Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] P614Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G708Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] A610Y ACAGGAATTGTATTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y634J ACAGGAATTGTATTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] SH707Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D619Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] E713Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] CH738J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] CR620J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y743J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y735J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D625Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D602Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] M606Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] E719Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y704Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] SH721Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] E625J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G622Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G608Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] SH717Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] E702Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] E626J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D627Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y768Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] M758Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] E710Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G701Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G716Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y726J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] E622Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D717Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] C618J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] CH730J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] A602Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] A618Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y775Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y717Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y644J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] SH712Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] M765Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] M607Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] GH702Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G618Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] E718Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] E725Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300]

Page 171: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

162

D609Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D719Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D623Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G714Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] AS616J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] CH739J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] AS609J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G620Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] A619Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] P611Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] AS606J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G611Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G619Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G617Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G621Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G603Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] CH741J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] SH711Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] C619J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y746J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] M752Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] C617J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D605Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y630J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D613Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y715Y ACAGGAATTGTACTGGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y631J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACGTACTATGTA [300] G724Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G610Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D716Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D607Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] AS615J ACAGGGATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] SH728Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G707Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] A614Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] A605Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] A601Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] A625Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G711Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y772Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y770Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y769Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y744J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y741J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y740J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y736J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y731J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y730J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y723Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y718Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y708Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y705Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y633J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Smi7 ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] SH716Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] SH714Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] SH727Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] Y701Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] P618Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] P617Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300]

Page 172: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

163

P610Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] M761Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] M755Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] M608J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] GH704Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G625Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G623Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G616Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G615Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G613Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G612Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G609Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G607Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G606Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D714Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D720Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D710Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D621Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D617Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D615Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D707Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D622Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] E723Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G725Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G705Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] CH733J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] CH729J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] CR621J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] AS601J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] AS605J ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G717Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G722Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G715Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G719Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] G706Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] A623Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] M602Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] A606Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] P612Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] D618Y ACAGGAATTGTACTAGCCAATTCTTCTTTAGACATTGTTCTACACGACACATACTATGTA [300] SMI23 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTTGCCATTATGGCCGCATTC [360] GUN25 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCTGTGTTTGCCATTATGGCCGCATTC [360] GUN19 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTTGCCATTATGGCCGCATTC [360] Gun7 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTTGCCATTATGGCCGCATTC [360] Gun3 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTTGCCATTATGGCCGCATTC [360] GUN24 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTTGCCATTATGGCCGCATTC [360] GUN15 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTTGCCATTATGGCCGCATTC [360] GUN11 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] Gun10 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] SMI14 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] GUN17 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTCGCCATCATGGCCGCATTC [360] GUN14 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] Smi2 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] Gun8 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] Gun9 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] Gun5 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] SMI18 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] SMI19 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] SMI21 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360]

Page 173: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

164

GUN23 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] GUN18 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] GUN20 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] Smi10 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] E717Y GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] SMI20 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] GUN12 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] SMI16 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] Smi1 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] GUN21 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] SMI24 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] SMI15 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] GUN16 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] GUN13 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] SMI25 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] smi11 GTAGCACACTTCCACTATGTCCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] SMI13 GTAGCACACTTCCACTATGTTCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] SMI12 GTAGCACACTTCCACTATGTCCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] SMI22 GTAGCACACTTCCACTATGTCCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] GUN22 GTAGCACACTTCCACTATGTCCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] SMI17 GTAGCACACTTCCACTATGTCCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] E715Y GTAGCACACTTCCACTATGTCCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] D705Y GTAGCACACTTCCACTATGTCCTATCAATGGGTGCCGTATTCGCCATTATGGCCGCATTC [360] AS603J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCTGCATTC [360] E705Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCTGCATTC [360] Gun4 GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] A615Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] AS613J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Y729J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] SH708Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] M764Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Y639J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] D725Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] A622Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] A621Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Y745J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Y719Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Y707Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] SH718Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] M605Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Gun6 GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] D703Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] D702Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Y711Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] CH737J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] D603Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] M763Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] GH701Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] E721Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] D723Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] P622Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Smi8 GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Y725Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Y720Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] P620Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] D712Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] D708Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] E707Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Y747J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Smi9 GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360]

Page 174: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

165

Smi5 GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] SH729Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] SH723Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] P621Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Gun2 GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Gun1 GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] AS608J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] CH731J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Y721Y GTAGCACACTTCCATTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Y738J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Y716Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] D701Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] AS612J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Y637J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Smi3 GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] E624Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] E722Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] D626Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] A613Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] A612Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] A607Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] A616Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Y773Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Y733J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Y732J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Y727J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Y714Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Y712Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Y710Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Y709Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Y703Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Y642J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Y629J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] SH719Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] SH713Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] SH709Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] SH706Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] P623Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] P613Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] P609Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] M759Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] M756Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] M754Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] M753Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] M751Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] M601Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] GH703Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] E704Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] D727Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] D726Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] D722Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] AS607J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] D614Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] D611Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] D624Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] E712Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] E703Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] CH727J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] Y776Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] CH736J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360]

Page 175: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

166

CH735J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] CH734J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] CH728J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] CH726J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] CH740J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] AS602J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] E708Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] D724Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] A624Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] D709Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] E706Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTTGCCATTATGGCCGCATTC [360] M760Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D610Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] A617Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] E720Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D706Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G720Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y640J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] P625Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y748J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G723Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y734J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] M603Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D718Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D711Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] E711Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G713Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y636J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y629J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y635J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] P619Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y713Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] P615Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] P626Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G614Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D616Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D608Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] E701Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] E623Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y724Y GTAGCACATTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] A620Y GTAGCACATTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D601Y GTAGCACATTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] A609Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G604Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y774Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y627J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] P616Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] M757Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G703Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y632J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] AS604J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D721Y GTAGCACACTTCCACTATGTTCTGTCGATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D620Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] AS611J GTAGCACACTTCCACTATGTCCTGTCAATGGGTGCTGTGTTCGCTATTATGGCCGCATTC [360] M604Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D606Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] SH722Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] E716Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D612Y GTAGCACACTTCCACTATGTCCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] E627J GTAGCACACTTCCACTATGTCCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360]

Page 176: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

167

Y737J GTAGCACACTTCCACTATGTCCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y643J GTAGCACACTTCCACTATGTCCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Smi4 GTAGCACACTTCCACTATGTCCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] SH705Y GTAGCACACTTCCACTATGTCCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y641J GTAGCACACTTCCACTATGTCCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] E628J GTAGCACACTTCCACTATGTCCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] E714Y GTAGCACACTTCCACTATGTCCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] AS614J GTAGCACACTTCCACTATGTCCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G712Y GTAGCACACTTCCACTATGTCCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y706Y GTAGCACATTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G718Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] M767Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G721Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G602Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] AS610J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G704Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G710Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y771Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] M766Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] A611Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G624Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCTATTATGGCCGCATTC [360] A608Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTT [360] Smi6 GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTT [360] Y739J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D704Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G605Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] E724Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G601Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y728J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y749J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] SH710Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] A603Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D604Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y722Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] E709Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y750J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y742J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] SH724Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y638J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] CH732J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G709Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G702Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] A604Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] P624Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] P614Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G708Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] A610Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y634J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] SH707Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D619Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] E713Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] CH738J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] CR620J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y743J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y735J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D625Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D602Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] M606Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] E719Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y704Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360]

Page 177: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

168

SH721Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] E625J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G622Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G608Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] SH717Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] E702Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] E626J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D627Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y768Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] M758Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] E710Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G701Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G716Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y726J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] E622Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D717Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] C618J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] CH730J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] A602Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] A618Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y775Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y717Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y644J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] SH712Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] M765Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] M607Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] GH702Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G618Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] E718Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] E725Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D609Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D719Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D623Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G714Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] AS616J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] CH739J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] AS609J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G620Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] A619Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] P611Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] AS606J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G611Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G619Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G617Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G621Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G603Y GTAGCACACTTCCACTATGTCCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] CH741J GTAGCACACTTCCACTATGTCCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] SH711Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] C619J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y746J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] M752Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] C617J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D605Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y630J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D613Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y715Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y631J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G724Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G610Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D716Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTATTCGCCATTATGGCCGCATTC [360]

Page 178: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

169

D607Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] AS615J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] SH728Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G707Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] A614Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] A605Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] A601Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] A625Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G711Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y772Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y770Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y769Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y744J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y741J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y740J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y736J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y731J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y730J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y723Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y718Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y708Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y705Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y633J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Smi7 GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] SH716Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] SH714Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] SH727Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] Y701Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] P618Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] P617Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] P610Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] M761Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] M755Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] M608J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] GH704Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G625Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G623Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G616Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G615Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G613Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G612Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G609Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G607Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G606Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D714Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D720Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D710Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D621Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D617Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D615Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D707Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D622Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] E723Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G725Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G705Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] CH733J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] CH729J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] CR621J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] AS601J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] AS605J GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360]

Page 179: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

170

G717Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G722Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G715Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G719Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] G706Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] A623Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] M602Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] A606Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] P612Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] D618Y GTAGCACACTTCCACTATGTTCTGTCAATGGGTGCTGTGTTCGCCATTATGGCCGCATTC [360] SMI23 ATGCACTGATTCCCGCTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] GUN25 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] GUN19 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] Gun7 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] Gun3 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] GUN24 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] GUN15 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] GUN11 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] Gun10 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] SMI14 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] GUN17 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] GUN14 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] Smi2 ATGCACTGATTCCCACTATTCTCAGGGTATACTCTTCACAGCACCTGAACAAAAATCCAC [420] Gun8 ATGCACTGATTCCCACTATTCTCAGGGTATACTCTTCACAGCACCTGAACAAAAATCCAC [420] Gun9 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] Gun5 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] SMI18 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] SMI19 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] SMI21 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] GUN23 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] GUN18 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] GUN20 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] Smi10 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] E717Y ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] SMI20 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] GUN12 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] SMI16 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] Smi1 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] GUN21 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] SMI24 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] SMI15 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] GUN16 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] GUN13 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] SMI25 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] smi11 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] SMI13 ATGCACTGATTCCCACTATTCTCAGGGTACACCCTTCACAGCACCTGAACAAAAATCCAC [420] SMI12 ATGCACTGATTCCCACTATTCTCAGGGTACACCCTTCACAGCACCTGAACAAAAATCCAC [420] SMI22 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] GUN22 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] SMI17 ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] E715Y ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] D705Y ATGCACTGATTCCCACTATTCTCAGGGTATACCCTTCACAGCACCTGAACAAAAATCCAC [420] AS603J ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] E705Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Gun4 ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] A615Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] AS613J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y729J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] SH708Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420]

Page 180: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

171

M764Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y639J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D725Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] A622Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] A621Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y745J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y719Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y707Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] SH718Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] M605Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Gun6 ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D703Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D702Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y711Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] CH737J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D603Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] M763Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] GH701Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] E721Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D723Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] P622Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Smi8 ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y725Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y720Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] P620Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D712Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D708Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] E707Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y747J ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Smi9 ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Smi5 ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] SH729Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] SH723Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] P621Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Gun2 ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Gun1 ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] AS608J ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] CH731J ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y721Y ATGCACTGATTCCCACTATTCTCAGGATATACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y738J ATGCACTGATTCCCACTATTCTCAGGATATACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y716Y ATGCACTGATTCCCACTATTCTCAGGATATACCCTTCACAGCACCTGAACAAAAATCCAC [420] D701Y ATGCACTGATTCCCACTATTCTCAGGATATACCCTTCACAGCACCTGAACAAAAATCCAC [420] AS612J ATGCACTGATTCCCACTATTCTCAGGATATACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y637J ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Smi3 ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] E624Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] E722Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D626Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] A613Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] A612Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] A607Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] A616Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y773Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y733J ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y732J ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y727J ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y714Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y712Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y710Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y709Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420]

Page 181: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

172

Y703Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y642J ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y628J ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] SH719Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] SH713Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] SH709Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] SH706Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] P623Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] P613Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] P609Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] M759Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] M756Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] M754Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] M753Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] M751Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] M601Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] GH703Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] E704Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D727Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D726Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D722Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] AS607J ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D614Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D611Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D624Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] E712Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] E703Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] CH727J ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y776Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] CH736J ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] CH735J ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] CH734J ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] CH728J ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] CH726J ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] CH740J ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] AS602J ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] E708Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D724Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] A624Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D709Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] E706Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] M760Y ATGCATTGATTCCCATTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D610Y ATGCATTGATTCCCATTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] A617Y ATGCATTGATTCCCATTATTCTCAGGATATACCCTTCACAGCACCTGAACAAAAATCCAC [420] E720Y ATGCATTGATTCCCATTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D706Y ATGCATTGATTCCCATTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G720Y ATGCATTGATTCCCATTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y640J ATGCATTGATTCCCATTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] P625Y ATGCATTGATTCCCATTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y748J ATGCATTGATTCCCATTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G723Y ATGCATTGATTCCCATTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y734J ATGCATTGATTCCCATTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] M603Y ATGCATTGATTCCCATTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D718Y ATGCATTGATTCCCATTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D711Y ATGCATTGATTCCCATTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] E711Y ATGCATTGATTCCCATTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G713Y ATGCATTGATTCCCATTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y636J ATGCATTGATTCCCATTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y629J ATGCATTGATTCCCATTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y635J ATGCATTGATTCCCATTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420]

Page 182: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

173

P619Y ATGCATTGATTCCCATTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y713Y ATGCACTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAT [420] P615Y ATGCATTGGTTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] P626Y ATGCATTGGTTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G614Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D616Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D608Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] E701Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] E623Y ATGCATTGATTCCCATTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y724Y ATACATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] A620Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D601Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] A609Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G604Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y774Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y627J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] P616Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] M757Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G703Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y632J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] AS604J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D721Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D620Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] AS611J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] M604Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D606Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] SH722Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] E716Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D612Y ATGCATTGATTCCCATTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] E627J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y737J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y643J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Smi4 ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] SH705Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y641J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] E628J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] E714Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] AS614J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G712Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y706Y ATGCATTGATTCCCACTATTCTCAGGGTACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G718Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] M767Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G721Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G602Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] AS610J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G704Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G710Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAT [420] Y771Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] M766Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] A611Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G624Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] A608Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Smi6 ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y739J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D704Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G605Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] E724Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G601Y ATGCATTGATTCCCACTATTCTCAGGATATACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y728J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y749J ATGCATTGATTCCCACTATTCTCAGGATATACCCTTCACAGCACCTGAACAAAAATCCAC [420]

Page 183: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

174

SH710Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] A603Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D604Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y722Y ATGCATTGATTCCCATTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] E709Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y750J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y742J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] SH724Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y638J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] CH732J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G709Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G702Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] A604Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] P624Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] P614Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G708Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] A610Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y634J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] SH707Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D619Y ATGCATTGATTCCCGCTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] E713Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] CH738J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] CR620J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y743J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y735J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D625Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D602Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] M606Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] E719Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y704Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] SH721Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] E625J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G622Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G608Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] SH717Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] E702Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] E626J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D627Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y768Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAT [420] M758Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAT [420] E710Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAT [420] G701Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAT [420] G716Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAT [420] Y726J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] E622Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D717Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] C618J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] CH730J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] A602Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] A618Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y775Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y717Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y644J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] SH712Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] M765Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] M607Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] GH702Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G618Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] E718Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] E725Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420]

Page 184: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

175

D609Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D719Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D623Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G714Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] AS616J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] CH739J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] AS609J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G620Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] A619Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] P611Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] AS606J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G611Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G619Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G617Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G621Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G603Y ATGCATTGATTCCCACTATTCTCAGGGTACACCCTTCACAGCACCTGAACAAAAATCCAC [420] CH741J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] SH711Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] C619J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y746J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] M752Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] C617J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D605Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y630J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D613Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y715Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y631J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G724Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G610Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D716Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D607Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] AS615J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] SH728Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G707Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] A614Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] A605Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] A601Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] A625Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G711Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y772Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y770Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y769Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y744J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y741J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y740J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y736J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y731J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y730J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y723Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y718Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y708Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y705Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y633J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Smi7 ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] SH716Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] SH714Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] SH727Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] Y701Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] P618Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] P617Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420]

Page 185: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

176

P610Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] M761Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] M755Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] M608J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] GH704Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G625Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G623Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G616Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G615Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G613Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G612Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G609Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G607Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G606Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D714Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D720Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D710Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D621Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D617Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D615Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D707Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D622Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] E723Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G725Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G705Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] CH733J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] CH729J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] CR621J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] AS601J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] AS605J ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G717Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G722Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G715Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G719Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] G706Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] A623Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] M602Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] A606Y ATGCATTGATTCCCATTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] P612Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] D618Y ATGCATTGATTCCCACTATTCTCAGGATACACCCTTCACAGCACCTGAACAAAAATCCAC [420] SMI23 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] GUN25 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] GUN19 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Gun7 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Gun3 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] GUN24 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] GUN15 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] GUN11 TTCGGAGTCATGTTCGTAGGGGTAAATTTAACTTTCTTC [459] Gun10 TTCGGAGTCATGTTCGTAGGGGTAAATTTAACTTTCTTC [459] SMI14 TTCGGAGTCATGTTCGTAGGGGTAAATTTAACTTTCTTC [459] GUN17 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] GUN14 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Smi2 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Gun8 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Gun9 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Gun5 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] SMI18 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] SMI19 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] SMI21 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459]

Page 186: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

177

GUN23 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] GUN18 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [480] GUN20 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Smi10 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] E717Y TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] SMI20 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] GUN12 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] SMI16 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Smi1 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] GUN21 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] SMI24 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] SMI15 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] GUN16 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] GUN13 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] SMI25 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] smi11 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] SMI13 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] SMI12 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] SMI22 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] GUN22 TTCGGAGTCATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] SMI17 TTCGGAGTCATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] E715Y TTCGGAGTCATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] D705Y TTCGGAGTCATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] AS603J TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] E705Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Gun4 TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] A615Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] AS613J TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Y729J TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] SH708Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] M764Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Y639J TTTGGGGTTATGTTCGTTGGGGTAAATCTAACTTTCTTC [459] D725Y TTTGGGGTTATGTTCGTTGGGGTAAATCTAACTTTCTTC [459] A622Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] A621Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Y745J TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Y719Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Y707Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] SH718Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] M605Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Gun6 TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] D703Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] D702Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Y711Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] CH737J TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] D603Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] M763Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] GH701Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] E721Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] D723Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] P622Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Smi8 TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Y725Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Y720Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] P620Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] D712Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] D708Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] E707Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Y747J TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Smi9 TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459]

Page 187: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

178

Smi5 TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] SH729Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] SH723Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] P621Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Gun2 TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Gun1 TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] AS608J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] CH731J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y721Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Y738J TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Y716Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] D701Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] AS612J TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Y637J TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Smi3 TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] E624Y TTTGGGGTTATGTTCGTAGGGGTAAACCTAACTTTCTTC [459] E722Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] D626Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] A613Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] A612Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] A607Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] A616Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Y773Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Y733J TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Y732J TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Y727J TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Y714Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Y712Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Y710Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Y709Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Y703Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Y642J TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Y629J TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] SH719Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] SH713Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] SH709Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] SH706Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] P623Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] P613Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] P609Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] M759Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] M756Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] M754Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] M753Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] M751Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] M601Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] GH703Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] E704Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] D727Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] D726Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] D722Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] AS607J TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] D614Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] D611Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] D624Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] E712Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] E703Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] CH727J TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Y776Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] CH736J TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459]

Page 188: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

179

CH735J TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] CH734J TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] CH728J TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] CH726J TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] CH740J TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] AS602J TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] E708Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] D724Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] A624Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] D709Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] E706Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] M760Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] D610Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] A617Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] E720Y TTTGGGGTTATGTTCGTGGGGGTGAATCTAACTTTCTTC [459] D706Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G720Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y640J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] P625Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y748J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G723Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y734J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] M603Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] D718Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] D711Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] E711Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G713Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y636J TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Y629J TTTGGGGTTATGTTCGTCGGGGTAAATCTAACTTTCTTC [459] Y635J TTTGGGGTTATGTTCGTCGGGGTAAATCTAACTTTCTTC [459] P619Y TTTGGGGTTATGTTCGTCGGGGTAAATCTAACTTTCTTC [459] Y713Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] P615Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] P626Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] G614Y TTTGGGGTAATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] D616Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACCTTCTTC [459] D608Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] E701Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] E623Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Y724Y TTTGGGGTTATGTTCGTGGGGGTGAATCTAACTTTCTTC [459] A620Y TTTGGGGTTATGTTCGTGGGGGTGAATCTAACTTTCTTC [459] D601Y TTTGGGGTTATGTTCGTGGGGGTGAATCTAACTTTCTTC [459] A609Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G604Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y774Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y627J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] P616Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] M757Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G703Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y632J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] AS604J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] D721Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] D620Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] AS611J TTTGGGGTTATGTTTGTGGGGGTAAATCTAACTTTCTTC [459] M604Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] D606Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] SH722Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] E716Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] D612Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] E627J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459]

Page 189: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

180

Y737J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y643J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Smi4 TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] SH705Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y641J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] E628J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] E714Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] AS614J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G712Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y706Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] G718Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] M767Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] G721Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] G602Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] AS610J TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] G704Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] G710Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y771Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] M766Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] A611Y TTTGGGGTTATGTTCGTGGGGGTAAACCTAACTTTCTTC [459] G624Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] A608Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Smi6 TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y739J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] D704Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G605Y TTTGGGGTCATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] E724Y TTTGGGGTTATGTTCGTGGGGGTGAATCTAACTTTCTTC [459] G601Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y728J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y749J TTTGGGGTTATGTTCGTCGGGGTAAATCTAACTTTCTTC [459] SH710Y TTTGGGGTTATGTTCGTCGGGGTAAATCTAACTTTCTTC [459] A603Y TTTGGGGTTATGTTCGTCGGGGTAAATCTAACTTTCTTC [459] D604Y TTTGGGGTTATGTTCGTCGGGGTAAATCTAACTTTCTTC [459] Y722Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] E709Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y750J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y742J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] SH724Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y638J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] CH732J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G709Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G702Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] A604Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] P624Y TTTGGGGTTATGTTCGTGGGGGTAAATTTAACTTTCTTC [459] P614Y TTTGGGGTTATGTTCGTGGGGGTAAATTTAACTTTCTTC [459] G708Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] A610Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y634J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] SH707Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] D619Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] E713Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] CH738J TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] CR620J TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Y743J TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Y735J TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] D625Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] D602Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] M606Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] E719Y TTTGGGGTTATGTTCGTAGGGGTAAATCTAACTTTCTTC [459] Y704Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459]

Page 190: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

181

SH721Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] E625J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G622Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G608Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] SH717Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] E702Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] E626J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] D627Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y768Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] M758Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] E710Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G701Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G716Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y726J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] E622Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] D717Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] C618J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] CH730J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] A602Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] A618Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y775Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y717Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y644J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] SH712Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] M765Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] M607Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] GH702Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G618Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] E718Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] E725Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] D609Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] D719Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] D623Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G714Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] AS616J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] CH739J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] AS609J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G620Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] A619Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] P611Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] AS606J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G611Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G619Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G617Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G621Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G603Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] CH741J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] SH711Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTTTTC [459] C619J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y746J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] M752Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] C617J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] D605Y TTTGGGGTAATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y630J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] D613Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y715Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y631J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G724Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G610Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] D716Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459]

Page 191: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

182

D607Y TTTGGGGTAATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] AS615J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] SH728Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G707Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] A614Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] A605Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] A601Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] A625Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G711Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y772Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y770Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y769Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y744J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y741J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y740J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y736J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y731J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y730J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y723Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y718Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y708Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y705Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y633J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Smi7 TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] SH716Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] SH714Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] SH727Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] Y701Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] P618Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] P617Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] P610Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] M761Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] M755Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] M608J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] GH704Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G625Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G623Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G616Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G615Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G613Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G612Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G609Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G607Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G606Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] D714Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] D720Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] D710Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] D621Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] D617Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] D615Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] D707Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] D622Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] E723Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G725Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G705Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] CH733J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] CH729J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] CR621J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] AS601J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] AS605J TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459]

Page 192: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

183

G717Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G722Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G715Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G719Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] G706Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] A623Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] M602Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] A606Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] P612Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459] D618Y TTTGGGGTTATGTTCGTGGGGGTAAATCTAACTTTCTTC [459]

Page 193: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

184

C) Cytochrome c oxidase subunit I (COI) haplotypes from 389 Brevoortia specimens coded by region and sample.

Haplotype Code: B. smithi B. gunteri B. patronus B. tyrannus X X X X X X X X X X X X X X X X X X

haplotypes haplotypes haplotypes haplotypes haplotypes1 30 59 88 117 2 31 60 89 118 3 32 61 90 119 4 33 62 91 120 5 34 63 92 121 6 35 64 93 122 7 36 65 94 123 8 37 66 95 124 9 38 67 96 125 10 39 68 97 126 11 40 69 98 127 12 41 70 99 128 13 42 71 100 129 14 43 72 101 130 15 44 73 102 131 16 45 74 103 132 17 46 75 104 133 18 47 76 105 134 19 48 77 106 135 20 49 78 107 136 21 50 79 108 137 22 51 80 109 138 23 52 81 110 139 24 53 82 111 140 25 54 83 112 141 26 55 84 113 142 27 56 85 114 143 28 57 86 115 144 29 58 87 116 145

Page 194: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

185

haplotype sample haplotype sample haplotype sample haplotype sample 1 SMI23 28 M764Y 46 A612Y 47 A624Y 2 GUN25 29 D725Y 46 A613Y 47 D709Y 3 GUN15 29 Y639J 46 A616Y 47 E706Y 3 GUN19 30 A621Y 46 AS602J 48 D610Y 3 GUN24 30 A622Y 46 AS607J 48 M760Y 3 Gun3 30 CH737J 46 CH726J 49 A617Y 3 Gun7 30 D603Y 46 CH727J 50 E720Y 4 GUN11 30 D702Y 46 CH728J 51 D706Y 5 Gun10 30 D703Y 46 CH734J 52 G720Y 5 SMI14 30 Gun6 46 CH735J 53 Y640J 6 GUN17 30 M605Y 46 CH736J 54 P625Y 7 GUN14 30 SH718Y 46 CH740J 55 G723Y 8 Gun8 30 Y707Y 46 D611Y 55 Y748J 8 Smi2 30 Y711Y 46 D614Y 56 D711Y 9 Gun9 30 Y719Y 46 D624Y 56 D718Y

10 Gun5 30 Y745J 46 D722Y 56 E711Y 11 GUN12 31 E721Y 46 D724Y 56 G713Y 11 GUN13 31 GH701Y 46 D726Y 56 M603Y 11 GUN16 31 M763Y 46 D727Y 56 Y734J 11 GUN21 32 D723Y 46 E703Y 57 Y636J 11 Smi1 33 P622Y 46 E704Y 58 P619Y 11 SMI15 34 Smi8 46 E708Y 58 Y629J 11 SMI16 35 D708Y 46 E712Y 58 Y635J 11 SMI18 35 D712Y 46 GH703Y 59 Y713Y 11 SMI19 35 E707Y 46 M601Y 60 P615Y 11 SMI24 35 P620Y 46 M751Y 60 P626Y 11 SMI25 35 Y720Y 46 M753Y 61 G614Y 12 SMI21 35 Y725Y 46 M754Y 62 D616Y 13 GUN18 36 Gun1 46 M756Y 63 D608Y 13 GUN23 36 Gun2 46 M759Y 64 E701Y 14 GUN20 36 P621Y 46 P609Y 65 E623Y 15 Smi10 36 SH723Y 46 P613Y 66 Y724Y 16 E717Y 36 SH729Y 46 P623Y 67 A620Y 16 SMI20 36 Smi5 46 SH706Y 68 D601Y 17 GUN22 36 Smi9 46 SH709Y 69 A609Y 17 smi11 36 Y747J 46 SH713Y 70 G604Y 17 SMI22 37 AS608J 46 SH719Y 71 G703Y 18 SMI13 38 CH731J 46 Y628J 71 M757Y 19 SMI12 39 Y721Y 46 Y642J 71 P616Y 20 D705Y 40 AS612J 46 Y703Y 71 Y627J 20 SMI17 40 D701Y 46 Y709Y 71 Y774Y 21 E715Y 40 Y716Y 46 Y710Y 72 Y632J 22 AS603J 40 Y738J 46 Y712Y 73 AS604J 23 E705Y 41 Y637J 46 Y714Y 74 D721Y 24 Gun4 42 Smi3 46 Y727J 75 D620Y 25 A615Y 43 E624Y 46 Y732J 76 AS611J 25 AS613J 44 E722Y 46 Y733J 77 D606Y 26 Y729J 45 D626Y 46 Y773Y 77 M604Y 27 SH708Y 46 A607Y 46 Y776Y 78 E716Y

Page 195: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

186

haplotype sample haplotype sample haplotype sample haplotype sample 78 SH722Y 106 A610Y 123 Y644J 142 G609Y 79 D612Y 106 Y634J 123 Y717Y 142 G612Y 80 E627J 107 SH707Y 123 Y775Y 142 G613Y 81 AS614J 108 D619Y 124 A619Y 142 G615Y 81 E628J 109 E713Y 124 AS606J 142 G616Y 81 E714Y 110 CH738J 124 P611Y 142 G623Y 81 G712Y 111 CR620J 125 G611Y 142 G625Y 81 SH705Y 112 D602Y 126 G617Y 142 G705Y 81 Smi4 112 D625Y 126 G619Y 142 G706Y 81 Y641J 112 Y735J 126 G621Y 142 G711Y 81 Y643J 112 Y743J 127 G603Y 142 G715Y 81 Y737J 113 E719Y 128 CH741J 142 G717Y 82 Y706Y 113 M606Y 129 SH711Y 142 G719Y 83 G718Y 114 Y704Y 130 C619J 142 G722Y 84 M767Y 115 E625J 131 C617J 142 G725Y 85 AS610J 115 SH721Y 131 M752Y 142 GH704Y 85 G602Y 116 G608Y 131 Y746J 142 M608J 85 G704Y 116 G622Y 132 D605Y 142 M755Y 85 G721Y 117 SH717Y 133 D613Y 142 M761Y 86 G710Y 118 E702Y 133 Y630J 142 P610Y 87 M766Y 119 E626J 134 Y715Y 142 P617Y 87 Y771Y 120 D627Y 135 Y631J 142 P618Y 88 A611Y 121 E710Y 136 G724Y 142 SH714Y 89 G624Y 121 G701Y 137 G610Y 142 SH716Y 90 A608Y 121 G716Y 138 D716Y 142 SH727Y 90 Smi6 121 M758Y 139 D607Y 142 Smi7 91 Y739J 121 Y768Y 140 AS615J 142 Y633J 92 D704Y 122 C618J 141 G707Y 142 Y701Y 93 G605Y 122 CH730J 141 SH728Y 142 Y705Y 94 E724Y 122 D717Y 142 A601Y 142 Y708Y 95 G601Y 122 E622Y 142 A605Y 142 Y718Y 96 Y728J 122 Y726J 142 A614Y 142 Y723Y 97 Y749J 123 A602Y 142 A625Y 142 Y730J 98 SH710Y 123 A618Y 142 AS601J 142 Y731J 99 A603Y 123 AS609J 142 AS605J 142 Y736J 99 D604Y 123 AS616J 142 CH729J 142 Y740J

100 Y722Y 123 CH739J 142 CH733J 142 Y741J 101 E709Y 123 D609Y 142 CR621J 142 Y744J 102 CH732J 123 D623Y 142 D615Y 142 Y769Y 102 G702Y 123 D719Y 142 D617Y 142 Y770Y 102 G709Y 123 E718Y 142 D621Y 142 Y772Y 102 SH724Y 123 E725Y 142 D622Y 143 A623Y 102 Y638J 123 G618Y 142 D707Y 143 M602Y 102 Y742J 123 G620Y 142 D710Y 144 A606Y 102 Y750J 123 G714Y 142 D714Y 145 D618Y 103 A604Y 123 GH702Y 142 D720Y 145 P612Y 104 P614Y 123 M607Y 142 E723Y 104 P624Y 123 M765Y 142 G606Y 105 G708Y 123 SH712Y 142 G607Y

Page 196: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

187

D) Aligned mitochondrial cytochrome c oxidase subunit I (COI) amino acid sequence data collected from 389 Brevoortia specimens. G724YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] AS602JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] CH740JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y775YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y774YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y773YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y772YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y771YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y770YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y769YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y768YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y750JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y749JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y748JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y747JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y746JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y745JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y744JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y743JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y742JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y741JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y740JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y739JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y738JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y737JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y736JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y735JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y734JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y733JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y732JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y731JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y730JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y729JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y728JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y727JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y726JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y725YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y724YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y723YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y722YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] A603YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] AS613JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] AS606JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] CH741JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] A606YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] A609YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] A610YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] AS609JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D612YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D611YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D610YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D609YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D608YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D607YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] CH739JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] CH738JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60]

Page 197: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

188

CH737JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] CH736JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D603YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D602YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] AS604JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] A618YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] A617YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] A614YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] A612YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] A611YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] A613YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] CH731JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] CH730JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] CH729JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] CH728JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] CH727JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] CH726JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D710YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D709YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D708YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D707YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D706YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D705YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D704YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D703YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D702YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D701YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D627YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D626YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D625YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D624YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D623YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D622YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D621YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D620YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D619YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D618YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D617YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D616YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D615YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D614YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D613YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] CR620JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D606YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D605YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D604YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D601YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] CR621JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] A625YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] C619JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] C618JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] C617JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] AS616JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] AS608JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] A622YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] AS611JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] AS610JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] AS601JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D720YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D719YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60]

Page 198: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

189

D718YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D717YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D716YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D714YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D712YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D711YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] CH735JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] CH734JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] CH733JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] CH732JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] AS603JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] A608YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] A615YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] GUN20AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] A602YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] A605YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] AS615JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] AS614JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] A620YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] A604YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] GUN19AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] A607YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G609YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G608YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G607YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G606YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G605YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G604YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G603YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E721YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E720YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E719YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E718YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E717YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E716YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E715YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E714YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E713YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E712YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E711YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E710YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E709YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G621YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G620YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G619YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G618YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G617YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G616YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G615YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G614YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G613YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G612YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G611YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G610YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] P625YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] P624YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] P623YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] P622YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] P621YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] P620YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60]

Page 199: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

190

P619YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] P618YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] P617YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] P616YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] P615YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] P614YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] P613YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] P612YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] P611YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] P610YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] P609YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] M767YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] M766YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] M765YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] M764YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] M763YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] M761YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] M760YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] M759YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] M758YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] M757YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] M756YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] M755YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] M754YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] M753YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] M752YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] M751YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] M608YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] M607YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] M606YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] M605YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] M604YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] M603YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] M602YFAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] M601YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Gun9AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Gun8AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Gun7AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Gun6AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Gun5AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Gun4AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Gun3AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Gun2AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Gun1AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Gun10AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] GH704YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] GH703YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] GH702YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] GH701YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G625YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G624YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G623YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G622YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G602YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G601YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E725YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E724YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E723YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E722YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y638JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60]

Page 200: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

191

Y637JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y636JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y635JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y634JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y633JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y632JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y631JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y630JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y629JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y628JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] A624YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] A621YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] AS605JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] A619YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SH709YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SH708YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SH707YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SH706YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SH705YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] P626YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y704YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y703YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y701YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y644JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y643JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y642JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y641JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y640JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y639JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E708YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E707YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E706YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E705YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E704YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E703YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E702YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E701YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E628JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E627JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E626JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E625JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E624YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E623YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] E622YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D727YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D726YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D725YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D724YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D723YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D722YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] D721YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y721YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y720YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y719YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y718YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y717YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y716YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y715YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y714YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y713YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60]

Page 201: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

192

Y712YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y711YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y710YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y709YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y708YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y707YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y706YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y705YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SH728YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SH727YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SH724YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SH723YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SH722YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SH721YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SH719YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SH718YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SH717YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SH716YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SH714YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SH713YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SH712YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SH711YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SH710YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y627JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Smi9AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Smi8AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Smi7AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Smi6AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Smi5AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Smi4AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Smi3AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Smi2AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Smi1AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Smi10AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SH729YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] AS607JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] GUN12AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] GUN15AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] GUN21AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G719YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G721YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] GUN24AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G711YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] GUN16AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G717YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] GUN17AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] GUN14AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G723YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G712YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G706YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G720YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G707YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G722YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G704YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G705YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G708YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G710YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G701YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SMI14AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SMI22AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60]

Page 202: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

193

GUN25AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] GUN11AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SMI23AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G718YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G702YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G709YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G716YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G715YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G714YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SMI15AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G713YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SMI21AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] GUN23AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SMI24AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SMI25AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SMI12AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G725YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G703YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] GUN13AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] GUN22AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] Y776YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SMI16AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SMI13AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] A623YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SMI20AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] A616YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] A601YAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] AS612JAA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] smi11AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SMI18AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SMI17AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] GUN18AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] SMI19AA VWAMMAIGLLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGSIK [60] G724YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] AS602JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] CH740JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y775YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y774YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y773YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y772YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y771YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y770YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y769YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y768YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y750JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y749JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y748JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y747JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y746JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y745JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y744JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y743JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y742JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y741JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y740JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y739JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y738JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y737JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y736JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120]

Page 203: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

194

Y735JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y734JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y733JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y732JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y731JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y730JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y729JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y728JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y727JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y726JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y725YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y724YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y723YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y722YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] A603YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] AS613JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] AS606JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] CH741JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] A606YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] A609YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] A610YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] AS609JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D612YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D611YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D610YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D609YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D608YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D607YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] CH739JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] CH738JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] CH737JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] CH736JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D603YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D602YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] AS604JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] A618YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] A617YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] A614YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] A612YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] A611YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] A613YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] CH731JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] CH730JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] CH729JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] CH728JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] CH727JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] CH726JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D710YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D709YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D708YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D707YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D706YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D705YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D704YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D703YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D702YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D701YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D627YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D626YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D625YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120]

Page 204: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

195

D624YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D623YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D622YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D621YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D620YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D619YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D618YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D617YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D616YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D615YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D614YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D613YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] CR620JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D606YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D605YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D604YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D601YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] CR621JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] A625YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] C619JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] C618JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] C617JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] AS616JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] AS608JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] A622YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] AS611JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] AS610JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] AS601JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D720YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D719YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D718YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D717YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D716YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D714YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D712YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D711YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] CH735JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] CH734JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] CH733JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] CH732JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] AS603JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] A608YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] A615YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] GUN20AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] A602YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] A605YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] AS615JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] AS614JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] A620YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] A604YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] GUN19AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] A607YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G609YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G608YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G607YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G606YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G605YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G604YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G603YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E721YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120]

Page 205: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

196

E720YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E719YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E718YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E717YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E716YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E715YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E714YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E713YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E712YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E711YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E710YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E709YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G621YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G620YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G619YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G618YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G617YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G616YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G615YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G614YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G613YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G612YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G611YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G610YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] P625YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] P624YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] P623YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] P622YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] P621YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] P620YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] P619YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] P618YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] P617YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] P616YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] P615YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] P614YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] P613YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] P612YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] P611YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] P610YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] P609YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] M767YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] M766YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] M765YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] M764YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] M763YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] M761YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] M760YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] M759YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] M758YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] M757YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] M756YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] M755YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] M754YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] M753YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] M752YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] M751YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] M608YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] M607YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] M606YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120]

Page 206: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

197

M605YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] M604YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] M603YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] M602YFAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] M601YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Gun9AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Gun8AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Gun7AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Gun6AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Gun5AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Gun4AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Gun3AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Gun2AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Gun1AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Gun10AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] GH704YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] GH703YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] GH702YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] GH701YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G625YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G624YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G623YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G622YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G602YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G601YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E725YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E724YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E723YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E722YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y638JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y637JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y636JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y635JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y634JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y633JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y632JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y631JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y630JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y629JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y628JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] A624YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] A621YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] AS605JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] A619YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SH709YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SH708YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SH707YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SH706YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SH705YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] P626YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y704YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y703YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y701YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y644JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y643JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y642JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y641JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y640JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y639JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E708YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120]

Page 207: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

198

E707YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E706YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E705YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E704YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E703YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E702YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E701YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E628JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E627JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E626JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E625JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E624YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E623YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] E622YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D727YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D726YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D725YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D724YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D723YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D722YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] D721YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y721YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y720YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y719YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y718YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y717YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y716YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y715YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y714YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y713YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y712YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y711YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y710YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y709YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y708YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y707YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y706YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y705YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SH728YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SH727YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SH724YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SH723YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SH722YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SH721YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SH719YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SH718YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SH717YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SH716YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SH714YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SH713YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SH712YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SH711YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SH710YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y627JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Smi9AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Smi8AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Smi7AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Smi6AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Smi5AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Smi4AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120]

Page 208: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

199

Smi3AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Smi2AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Smi1AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Smi10AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SH729YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] AS607JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] GUN12AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] GUN15AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] GUN21AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G719YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G721YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] GUN24AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G711YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] GUN16AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G717YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] GUN17AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] GUN14AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G723YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G712YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G706YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G720YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G707YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G722YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G704YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G705YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G708YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G710YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G701YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SMI14AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SMI22AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] GUN25AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] GUN11AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SMI23AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G718YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G702YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G709YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G716YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G715YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G714YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SMI15AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G713YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SMI21AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] GUN23AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SMI24AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SMI25AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SMI12AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G725YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G703YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] GUN13AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] GUN22AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] Y776YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SMI16AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SMI13AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] A623YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SMI20AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] A616YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] A601YAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] AS612JAA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] smi11AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SMI18AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120]

Page 209: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

200

SMI17AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] GUN18AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] SMI19AA WDTPLLWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMAAF [120] G724YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] AS602JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] CH740JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y775YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y774YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y773YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y772YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y771YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y770YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y769YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y768YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y750JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y749JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y748JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y747JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y746JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y745JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y744JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y743JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y742JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y741JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y740JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y739JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y738JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y737JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y736JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y735JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y734JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y733JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y732JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y731JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y730JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y729JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y728JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y727JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y726JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y725YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y724YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y723YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y722YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] A603YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] AS613JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] AS606JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] CH741JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] A606YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] A609YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] A610YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] AS609JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D612YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D611YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D610YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D609YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D608YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153]

Page 210: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

201

D607YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] CH739JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] CH738JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] CH737JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] CH736JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D603YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D602YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] AS604JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] A618YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] A617YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] A614YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] A612YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] A611YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] A613YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] CH731JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] CH730JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] CH729JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] CH728JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] CH727JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] CH726JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D710YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D709YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D708YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D707YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D706YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D705YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D704YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D703YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D702YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D701YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D627YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D626YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D625YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D624YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D623YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D622YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D621YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D620YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D619YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D618YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D617YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D616YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D615YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D614YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D613YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] CR620JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D606YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D605YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D604YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D601YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] CR621JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] A625YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] C619JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] C618JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] C617JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] AS616JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] AS608JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153]

Page 211: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

202

A622YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] AS611JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] AS610JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] AS601JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D720YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D719YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D718YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D717YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D716YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D714YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D712YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D711YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] CH735JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] CH734JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] CH733JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] CH732JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] AS603JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] A608YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] A615YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] GUN20AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] A602YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] A605YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] AS615JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] AS614JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] A620YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] A604YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] GUN19AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] A607YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G609YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G608YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G607YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G606YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G605YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G604YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G603YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E721YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E720YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E719YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E718YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E717YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E716YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E715YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E714YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E713YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E712YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E711YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E710YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E709YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G621YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G620YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G619YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G618YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G617YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G616YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G615YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G614YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G613YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153]

Page 212: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

203

G612YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G611YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G610YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] P625YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] P624YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] P623YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] P622YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] P621YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] P620YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] P619YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] P618YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] P617YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] P616YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] P615YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] P614YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] P613YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] P612YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] P611YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] P610YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] P609YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] M767YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] M766YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] M765YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] M764YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] M763YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] M761YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] M760YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] M759YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] M758YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] M757YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] M756YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] M755YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] M754YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] M753YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] M752YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] M751YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] M608YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] M607YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] M606YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] M605YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] M604YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] M603YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] M602YFAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] M601YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Gun9AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Gun8AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Gun7AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Gun6AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Gun5AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Gun4AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Gun3AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Gun2AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Gun1AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Gun10AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] GH704YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] GH703YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] GH702YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153]

Page 213: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

204

GH701YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G625YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G624YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G623YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G622YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G602YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G601YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E725YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E724YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E723YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E722YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y638JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y637JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y636JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y635JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y634JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y633JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y632JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y631JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y630JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y629JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y628JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] A624YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] A621YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] AS605JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] A619YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SH709YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SH708YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SH707YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SH706YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SH705YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] P626YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y704YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y703YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y701YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y644JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y643JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y642JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y641JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y640JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y639JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E708YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E707YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E706YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E705YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E704YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E703YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E702YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E701YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E628JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E627JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E626JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E625JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E624YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E623YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] E622YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D727YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153]

Page 214: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

205

D726YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D725YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D724YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D723YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D722YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] D721YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y721YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y720YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y719YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y718YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y717YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y716YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y715YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y714YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y713YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y712YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y711YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y710YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y709YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y708YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y707YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y706YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y705YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SH728YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SH727YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SH724YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SH723YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SH722YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SH721YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SH719YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SH718YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SH717YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SH716YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SH714YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SH713YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SH712YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SH711YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SH710YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y627JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Smi9AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Smi8AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Smi7AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Smi6AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Smi5AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Smi4AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Smi3AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Smi2AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Smi1AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Smi10AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SH729YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] AS607JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] GUN12AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] GUN15AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] GUN21AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G719YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G721YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] GUN24AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153]

Page 215: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

206

G711YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] GUN16AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G717YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] GUN17AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] GUN14AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G723YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G712YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G706YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G720YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G707YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G722YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G704YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G705YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G708YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G710YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G701YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SMI14AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SMI22AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] GUN25AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] GUN11AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SMI23AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G718YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G702YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G709YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G716YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G715YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G714YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SMI15AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G713YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SMI21AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] GUN23AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SMI24AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SMI25AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SMI12AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G725YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] G703YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] GUN13AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] GUN22AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] Y776YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SMI16AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SMI13AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] A623YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SMI20AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] A616YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] A601YAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] AS612JAA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] smi11AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SMI18AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SMI17AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] GUN18AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153] SMI19AA MHWFPLFSGYTLHSTWTKIHFGVMFVGVNLTFF [153]

Page 216: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

207

E) Aligned nuclear internal transcribed spacer 1 (ITS-1) sequence data collected from 12 × 5 clones of Brevoortia specimens with outgroup Gadus morhua. Gadus_morhua GTGC-GTTCGAAAGG-TCGATGATCAATGTGTCCTGCAATTCACATTAGTTCTCGCAGCT [58] G622YE GTGC-GTTCGAAGGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] gunteriB GTGC-GTTCGAAGTG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] gunteriD GTGC-GTTCGAAGGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] gunteriA GTGC-GTTCGAAGGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] Y634JE GTGC-GTTCGAAGGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] Y634JD GTGC-GTTCG-AAAGGTCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] smithiE GTGC-GTTCGAAGGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] smithiD GTGC-GTTCGAAGGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] smithiC GTGC-GTTCGAAATG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] smithiB GTGC-GTTCG--AGGGTCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [57] Y634JB GTGC-GTTCGAAGGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] Y634JC GTGC-GTTCGAAAGGGTCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [59] smithiA GTGC-GTTCGAAGGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] P613YE GTGC-GTTCGAAGGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] AS603JB GTGC-GTTCGAAAGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] AS603JA GTGC-GTTCGAAAGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] A608YE GTGC-GTTCGAA-GTGTCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] A608YD GTGC-GTTCGAAAGTGTCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [59] A608YC GTGC-GTTCGAAGGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] A608YB GTGC-GTTCGAA-AGGTCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] A608YA GTGC-GTTCGAAAGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] A607YE GTGC-GTTCG-AAAGGTCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] A607YD GTGC-GTTCG-AAGGGTCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] A607YC TGGC-GTTCG-AAGGGTCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] A607YB GTGC-GTTCGGAAGGGTCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [59] A607YA GTGC-GTTCGAAGGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] P613YD GTGC-GTTCGAAGTG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] P613YC GTGC-GTTCGAAGGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] P613YB GTGC-GTTCGAAGGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] P613YA GTGC-GTTCGAAGGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] gunteriE GTGC-GTTCGAAGGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] gunteriC GTGC-GTTCGAAGGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] E625YC GTGC-GTTCGAAGGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] E625YB GTGC-GTTCGAAAGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] E625YA GTGC-GTTCGAAGTG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] Y634JA GTGC-GTTCGAAGGG-TCGTTGATCAATGTGTCCTGCAAGTCACATTAATTCTCGCAGCT [58] D614YE GTGC-GTTCGAAAGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] D614YD GTGCCGTTCGAAAGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [59] D614YC GTGC-GTTCG-AAAGGTCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] D614YB GTGC-GTTCGAAAGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] D614YA GTGC-GTTCG-AAAGGTCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] D610YE GTGC-GTTCGGAAAGGTCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [59] D610YD GTGC-GTTCGGAAGGGTCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [59] D610YC GTGC-GTTCGAAGTG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] D610YB GTGC-GTTCGAAGGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] E626YC GTGC-GTTCGAAGGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] E626YB GTGC-GTTCGAAGTG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] E626YD GTGC-GTTCGAAGGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] E626YA GTGC-GTTCGAAGGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] E625YE GTGC-GTTCGAAGTG-TCGATGATCAATGTGTCCTGCAATTCACATTAGTTCTCGCAGCT [58] E625YD GTGC-GTTCGAAGTG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] AS603JD GTGC-GTTCGAAGGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] D610YA GTGC-GTTCGAAGGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] AS603JE GTGC-GTTCGAAGGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] G622YD GTGC-GTTCGAAGGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] G622YC GTGC-GTTCGAAGGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] G622YB GTGC-GTTCGAAGGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] G622YA GTGC-GTTCGAAAGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58]

Page 217: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

208

E626YE GTGC-GTTCGAAGGG-TCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGCAGCT [58] Gadus_morhua AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACATTT [116] G622YE AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] gunteriB AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] gunteriD GGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] gunteriA GGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] Y634JE AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] Y634JD AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] smithiE AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] smithiD AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] smithiC AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] smithiB AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [115] Y634JB AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] Y634JC AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [117] smithiA AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] P613YE AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] AS603JB AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] AS603JA AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] A608YE AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] A608YD AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACCCTT [117] A608YC AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] A608YB AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] A608YA AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] A607YE AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] A607YD AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] A607YC AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] A607YB AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [117] A607YA AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] P613YD AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] P613YC AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] P613YB AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] P613YA AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] gunteriE GGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] gunteriC GGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] E625YC AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] E625YB AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] E625YA AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] Y634JA AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] D614YE AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] D614YD AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [117] D614YC AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] D614YB AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGATGTACTCTT [116] D614YA AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] D610YE AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [117] D610YD AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [117] D610YC AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] D610YB AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTC [116] E626YC AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] E626YB AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] E626YD AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] E626YA AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] E625YE AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] E625YD AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] AS603JD AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] D610YA AGCTGCGCTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] AS603JE AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] G622YD AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] G622YC AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] G622YB AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] G622YA AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116] E626YE AGCTGCGTTCTTCATC-GACGCACGAGCCGAG-TGATCCACCGCTAAGAGTTGTACTCTT [116]

Page 218: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

209

Gadus_morhua TGTTTGA--TTTTTTCGGC-----AAGACGATGTTCAAGACAATTTG---TAT----CGA [162] G622YE TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [170] gunteriB TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACGAACAGGGCGCG--GGTTGCAGCCT [172] gunteriD TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACGAACAGGGCGCG--GGTTGCAGCCT [172] gunteriA TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACGAACAGGGCGCG--GGTTGCAGCCT [172] Y634JE TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [170] Y634JD TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [170] smithiE TGTTTGA-TTCGTTTGGGCCCTC-GAACCAGAGACGACCAGGGTGCG--GGTT--AGCTT [170] smithiD TGTTTGA-TTCGTTTGGGCCCTC-GAACCGGAGACGACCAGGGTGCG--GGTT--AGCTT [170] smithiC TGTTTGA-TTCGTTTGGGCCCTC-GAACCGGAGACGACCGGGGTGCG--GGTT--AGCTT [170] smithiB TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [169] Y634JB TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [170] Y634JC TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [171] smithiA TGTTTGA-TCGGTTTGGGCCCTC-GAACCGGAGACGACCAGGGTGCG--GGTT--AGCCT [170] P613YE TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [170] AS603JB TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCAT [170] AS603JA TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCAT [170] A608YE TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCCT [170] A608YD TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCCT [171] A608YC TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCCT [170] A608YB TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCCT [170] A608YA TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGCG--GGTT--AGCCT [170] A607YE TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [170] A607YD TGTTTGA-TCTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGTTT [170] A607YC TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [170] A607YB TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [171] A607YA TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [170] P613YD TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [170] P613YC TGTTCGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [170] P613YB TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [170] P613YA TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [170] gunteriE TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACGAACAGGGCGCG--GGTTGCAGCCT [172] gunteriC TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACGAACAGGGCGCG--GGTTGCAGCCT [172] E625YC TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGCG--GGTT--AGCTT [170] E625YB TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGCG--GGTT--AGCTT [170] E625YA TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [170] Y634JA TGTTTGG-TTCGTTTAGGCCCTT-GAACCGGAGACGAAAAGGGTGTGAGGGTTAGAGTCT [174] D614YE TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [170] D614YD TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [171] D614YC TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [170] D614YB TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [170] D614YA TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [170] D610YE TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [171] D610YD TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [171] D610YC TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [170] D610YB TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [170] E626YC TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [170] E626YB TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [170] E626YD TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [170] E626YA TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [170] E625YE TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGCG--GGTT--AGCTT [170] E625YD TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [170] AS603JD TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCAT [170] D610YA TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [170] AS603JE TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCAT [170] G622YD TGTTTGAGTTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [171] G622YC TGTTTGAGTTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [171] G622YB TGTTTGA-TTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [170] G622YA TGTTTGA-TCTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [170] E626YE TGTTTGATTTTGTTTGGGCCCTT-GAACCGGAGACAAACAGGGTGTG--GGTT--AGCTT [171] Gadus_morhua CGGGGCTAACCCACAGGCGCCGCGCCACACCACACCCCGTGGCCCGACGCGGTCATGAAC [222] G622YE CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230]

Page 219: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

210

gunteriB CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGACGGAGGTC [232] gunteriD CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [232] gunteriA CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [232] Y634JE CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] Y634JD CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] smithiE CTGACCGAGCGCCCCGGGTCGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] smithiD CTGACCGAGCGCCCCGGGTCGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] smithiC CTGACCGAGCGCCCCGGGTCGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] smithiB CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [229] Y634JB CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] Y634JC CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [231] smithiA CTGACCGAGCGCCCCGGGTCGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] P613YE CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] AS603JB CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] AS603JA CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] A608YE CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] A608YD CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGCC [231] A608YC CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] A608YB CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] A608YA CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] A607YE CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] A607YD CTGACCGAGCGCCCCGGGTGGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] A607YC CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] A607YB CTGACCGTGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [231] A607YA CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] P613YD CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] P613YC CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] P613YB CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] P613YA CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] gunteriE CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [232] gunteriC CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [232] E625YC CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] E625YB CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] E625YA CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] Y634JA TTGACCGAGCGCCCCGGGCTGGGGGAACTTTAAGCCGCCCGCCGGGGCTCACCAGAGGTC [234] D614YE CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] D614YD CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [231] D614YC CTGACCGAGCGCCACGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] D614YB CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] D614YA CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] D610YE CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [231] D610YD CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [231] D610YC CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] D610YB CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] E626YC CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] E626YB CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] E626YD CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] E626YA CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] E625YE CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] E625YD CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] AS603JD CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] D610YA CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] AS603JE CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] G622YD CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [231] G622YC CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [231] G622YB CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] G622YA CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [230] E626YE CTGACCGAGCGCCCCGGGTTGGGGGAACTTTAAGCCGCCCGCCGAGGCGTGCCGGAGGTC [231] Gadus_morhua CCCTCGCCCACCTG-CGTGACAGGCGGGAGAGTGT--GTTAGGGTACCTGCGAGCGCACA [279] G622YE CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCAGCCCCCTCCGGAGA [287] gunteriB CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [289] gunteriD CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGTCCCCTCCGGAGA [289]

Page 220: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

211

gunteriA CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGTCCCCTCCGGAGA [289] Y634JE CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] Y634JD CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] smithiE CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] smithiD CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] smithiC CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] smithiB CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [286] Y634JB CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] Y634JC CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [288] smithiA CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] P613YE CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] AS603JB CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] AS603JA CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] A608YE CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] A608YD CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [288] A608YC CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] A608YB CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] A608YA CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCAGCCCTCTCCCAAAA [287] A607YE CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] A607YD CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCTGTCGGCCCCCTCCGGAGA [287] A607YC CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] A607YB CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [288] A607YA CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] P613YD CCCTCTCGGGGTCC-TCCGCCCCGGCAGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] P613YC CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] P613YB CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] P613YA CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] gunteriE CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCTGTCGGTCCCCTCCGGAGA [289] gunteriC CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGTCCCCTCCGGAGA [289] E625YC CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] E625YB CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] E625YA CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] Y634JA CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACCCGGTCAGCCCCCTCCAGAGA [291] D614YE CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] D614YD CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGG [288] D614YC CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] D614YB CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] D614YA CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCAGTCGGCCCCCTCCGGAGA [287] D610YE CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [288] D610YD CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [288] D610YC CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] D610YB CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] E626YC CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] E626YB CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] E626YD CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] E626YA CCCTCTCGGGGTCC-TCCGCCACGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] E625YE CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] E625YD CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] AS603JD CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] D610YA CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] AS603JE CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] G622YD CCCTCTCGGGGTCC-TCCGCCCCAGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [288] G622YC CCCTCTCGGGGTCC-TCCGCCCCAGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [288] G622YB CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] G622YA CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [287] E626YE CCCTCTCGGGGTCC-TCCGCCCCGGCGGAGTTGGT--ACTCGGTCGGCCCCCTCCGGAGA [288] Gadus_morhua G--TGGTTCGGTCAGGTCGACACCGAGCTGCGCTTAGTTTTGTCCG--AGCAAAGCGGGG [335] G622YE G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] gunteriB G---GGGGCTTTTGGGTGAGTTCC-GGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [343] gunteriD G---GGGGCTTTTGGGTGAGTTCCTGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [344] gunteriA G---GGGGCTTTTGGGTGAGTTCCTGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [344] Y634JE G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342]

Page 221: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

212

Y634JD G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] smithiE G---GGGGCTTTTGGGTGAGTTCC-GGGTAGCTTTTCACCCGCCGA--AGCGGAGCGAAA [341] smithiD G---GGGGCTTTTGGGTGAGTTCC-GGGTAGCTTTTCACCCGCCGA--AGCGGAGCGAAA [341] smithiC G---GGGGCTTTTGGGTGAGTTCC-GGGTAGCTTTTCACCCGCCGA--AGCGGAGCGAAA [341] smithiB G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [341] Y634JB G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] Y634JC G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [343] smithiA G---GGGGCTTTGGGGTGAGTTCC-GGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [341] P613YE G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGGGCGAAA [342] AS603JB G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] AS603JA G---GGGGCCTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] A608YE G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] A608YD G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [343] A608YC G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] A608YB G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] A608YA GA-CGGGGCTTTTCAGTGAGTTCCCGGGTAGCTTTTCACCCGCCGA--AGCGGAGCGAAA [344] A607YE G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] A607YD G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCCCCCGCCGA--AGCGGAGAGAAA [342] A607YC G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] A607YB G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [343] A607YA G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] P613YD G---GGGGCTTTTGGGTGAGTCCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] P613YC G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] P613YB G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] P613YA G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] gunteriE G---GGGGCTTTTGGGTGAGTTCCTGGGTAGCTTTTCGCCCGCCGA--AGCAGAGCGAAA [344] gunteriC G---GGGGCTTTTGGGTGAGTTCCTGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [344] E625YC G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] E625YB G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] E625YA G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] Y634JA G---GGGGCTTTTCAGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [346] D614YE G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] D614YD G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [343] D614YC G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCCTTTCGCCCGCCGA--AGCGGAGCGAAA [342] D614YB G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] D614YA G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] D610YE G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [343] D610YD G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [343] D610YC G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] D610YB G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] E626YC G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] E626YB G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] E626YD G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] E626YA G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] E625YE G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCCTTTCGCCCCCCGA--AGCGGAGCGAAA [342] E625YD G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] AS603JD G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] D610YA G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] AS603JE G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] G622YD G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [343] G622YC G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [343] G622YB G---GGGGCTTTTGGTTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] G622YA G---GGGGCTTTTGGTTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [342] E626YE G---GGGGCTTTTGGGTGAGTTCCCGGGTAGCTTTTCGCCCGCCGA--AGCGGAGCGAAA [343] Gadus_morhua GGCGAG-ACCCGGTCTCCCAGCTACGGCACTCCAGTTAGGGCCTCCCCAGACGCC-TGCA [393] G622YE AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [389] gunteriB AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CTCG [390] gunteriD AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CTTG [391] gunteriA AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CTTG [391] Y634JE AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CACG [389] Y634JD AAAAA--AGAGGGG-----AGGGAGGGAACCAGAG---AGACCGAGGCGG--GCC-CGCG [389] smithiE AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CTCG [388]

Page 222: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

213

smithiD AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CTCG [388] smithiC AAAAA---GAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CTCG [387] smithiB AAAAA--AGAGGGG-----AGGGAGGGAACCAGAG---AGACCGAGGCGG--GCC-CGCG [388] Y634JB AAAAAA-AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [390] Y634JC AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CTCG [390] smithiA AAAAA--AGAGGGG-----AGGGAGGGAACCAGAG---AGACCGAGGCGG--GCC-CGCG [388] P613YE AAAAA--AGAGGGG-----AGGGAAGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [389] AS603JB AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CTCG [389] AS603JA AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CTCG [389] A608YE AAAAA---GAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [388] A608YD AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [390] A608YC AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [389] A608YB AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [389] A608YA AAAAA----AGGCG-----ACGGAGGGAAC-GGAG---AGACCGAGGCGA--GCC-TGCG [388] A607YE AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [389] A607YD AAAAA--AGAGGGG-----AGGGAGGGAACCAGAG---AGACCGAGGCGG--GCC-CGCG [389] A607YC AAAAA--AGAGGGG-----AGGGAGGGAACCAGAG---AGACCGAGGCGG--GCC-CGCG [389] A607YB AAAAA--AGAGGGG-----AGGGAGGGAACCAGAG---AGACCGAGGCGG--GCC-CGCG [390] A607YA AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [389] P613YD AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [389] P613YC AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [389] P613YB AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [389] P613YA AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [389] gunteriE AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CTTG [391] gunteriC AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CTTG [391] E625YC AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [389] E625YB AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [389] E625YA AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [389] Y634JA ATAAA--AGAGGGG-----AGGGAGGGAACCCGAG---AGACCGAGGCGG--GCC-TGCG [393] D614YE AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CACG [389] D614YD AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CACG [390] D614YC AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [389] D614YB AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CACG [389] D614YA AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [389] D610YE AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [390] D610YD AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [390] D610YC AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [389] D610YB AAAAA-----GGCG-----ACGGAGGGAAC-GGAG---AGACCGAGGCGA--GCC-TGCG [385] E626YC AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [389] E626YB AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [389] E626YD AAAA---AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [388] E626YA AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [389] E625YE AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGTGG--GCC-CGCG [389] E625YD AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [389] AS603JD AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CACG [389] D610YA AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [389] AS603JE AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CTCG [389] G622YD AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [390] G622YC AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [390] G622YB AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CACG [389] G622YA AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CACG [389] E626YE AAAAA--AGAGGGG-----AGGGAGGGAACCGGAG---AGACCGAGGCGG--GCC-CGCG [390] Gadus_morhua CCGCGTGCTCTGTCAGACCTCA--GAGAA-CGCCGC--GTCACAGTGCGGTCCGGGGTGG [448] G622YE CCCCTACCTC----GGCCCCCG--CCGGC-CGCC------CTCCGCTCACCCTCGTGTGT [436] gunteriB CCCCTACCTC----GGCCCCC----CGGC-CGCC------CTCCGCTCGCCCTCGTCCGT [435] gunteriD CCCCTACCTC----GGCCCCC----CGGC-CGCC------CTCCGCTCGCCCTCGTCCGT [436] gunteriA CCCCTACCTC----GGCCCCC----CGGC-CGCC------CTCCGCTCGCCCTCGTCCGT [436] Y634JE CCCCTACCTC----GGCCCCC----CGGC-CGCC------CTCCGCTCACCCTCGTGTGT [434] Y634JD CCCCTACCTC----GGCCCCC----CGGC-CGCC------CTCCGCTCACCCTCGTGTGT [434] smithiE CCCCTACCTC----GGTCCCC----CGGC-CGCC------CTCCGCTCGCCCTCGTCCGT [433] smithiD CCCCTACCTC----GGTCCCC----CGGC-CGCC------CTCCGCTCGCCCTCGTCCGT [433] smithiC CCCCTACCTC----GGTCCCC----CGGC-CGCC------CTCCGCTCGCCCTCGTCCGT [432]

Page 223: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

214

smithiB CCCCTACCTC----GGCCCCC----CGGC-CGCC------CTCCGCTCACCCTCGTGTGT [433] Y634JB CCCCTACCTC----GGCCCCCG--CCGGC-CGCC------CTCCGCTCACCCTCGTGTGT [437] Y634JC CCCCTACCTCA---AGCCCCCG--CCGGC-CGCC------CTCCGCTCACCCTCGTGTGT [438] smithiA CCCCTACCTC----GGCCCCC----CGGC-CGCC------CTCCGCTCACCCTCGTGTGT [433] P613YE CCCCTACCTCA---AGCCCCCG--CCGAC-CGCC------CTTCGCTCACCCTCGTGTGT [437] AS603JB CCCCTACCTCA---AGCCCCCG--CCGGC-CGCC------CTCCGCTCACCCTCGTGTGT [437] AS603JA CCCCTACCTCA---AGCCCCCG--CCGGC-CGCC------CTCCGCTCACCCTCGTGTGT [437] A608YE CCCCTACCTC----GGCCCCC----CGGC-CGCC------CTCCGCTCACCCTCGTCTGT [433] A608YD CCCCTACCTC----GGCCCCC----CGGC-CGCC------CTCCGCTCACCCTCGTCTGT [435] A608YC CCCCTACCTC----GGCCCCCG--CCGGC-CGCC------CTCCGCTCACCCTCGTGTGT [436] A608YB CCCCTACCTC----GGCCCCC----CGGC-CGCC------CTCCGCTCACCCTCGTCTGT [434] A608YA CCCCTACCTC----GGCCCCC----CGG---ACC------CTCCGCTCACCCTCGTCTGT [431] A607YE CCCCTACCTC----GGCCCCC----CGGC-CGCC------CTCCGCTCACCCTCGTGTGT [434] A607YD CCCCTACCTC----GGCCCCC----CGGC-CGCC------CTCCGCTCACCCTCGTGTGT [434] A607YC CCCCTACCTC----GGCCCCC----CGGC-CGCC------CTCCGCTCACCCTCGTGTGT [434] A607YB CCCCTACCTC----GGCCCCC----CGGC-CGCC------CTCCGCTCACCCTCGTGTGT [435] A607YA CCCCTACCTC----GGCCCCCG--CCGGC-CGCC------CTCCGCTCACCCTCGTGTGT [436] P613YD CCCCTACCTC----GGCCCCCG--CCGGC-CGCC------CTCCGCTCACCCTCGTGTGT [436] P613YC CCCCTACCTC----GGCCCCCG--CCGGC-CGCC------CTCCGCTCACCCTCGTGTGT [436] P613YB CCCCTACCTC----GGCCCCC----CGGC-CGCC------CTCCGCTCACCTTCGTGTGT [434] P613YA CCCCTACCTCA---AGCCCCCG--CCGGC-CGCC------CTCCGCTCACCCTCGTGTGT [437] gunteriE CCCCTACCTC----GGCCCCC----CGGC-CGCC------CTCCGCTCGCCCTCGTCCGT [436] gunteriC CCCCTACCTC----GGCCCCC----CGGC-CGCC------CTCCGCTCGCCCTCGTCCGT [436] E625YC CCCCTACCTCA---GGCCCCCG--CCGGC-CGCC------CTCCGCTCACCCTCGTGTGT [437] E625YB CCCCTACCTCA---GGCCCCCG--CCGGC-CGCC------CTCCGCTCACCCTCGTGTGT [437] E625YA CCCCTACCTC----GGCCCCCG--CCGGC-CGCC------CTCCGCTCACCCTCGTGTGT [436] Y634JA CCCCTACCTCA---GCCCCCC----CAGT-CGCC------CTCTGCTCACCCTCGTCTGT [439] D614YE CCCCTACCTC----GGCCCCC----CGGC-CGCC------CTCCGCTCACCCTCGTGTGT [434] D614YD CCCCTACCTC----GGCCCCCG--CCGGC-CGCC------CTCCGCTCACCCTCGTGTGT [437] D614YC CCCCTACCTC----GGCCCCCG--CCGGC-CGCC------CTCCGCTCACCCTCGTGTGT [436] D614YB CCCCTACCTC----GGCCCCC----CGGC-CGCC------CTCCGCTCACCCTCGTGTGT [434] D614YA CCCCTACCTC----GGCCCCCG--CCGGC-CGCC------CTCCGCTCACCCTCGTGTGT [436] D610YE CCCCTACCTC----GGCCCCCG--CCGGC-CGCC------CTCCGCTCACCCTCGTGTGT [437] D610YD CCCCTACCTC----GGCCCCCG--CCGGC-CGCC------CTCCGCTCACCCTCGTGTGT [437] D610YC CCCCTACCTC----GGCCCCCG--CCGGC-CGCC------CTCCGCTCACCCTCGTGTGT [436] D610YB CCCCTACCTC----GGCCCCC----CGG---ACC------CTCCGCTCACCCTCGTCTGT [428] E626YC CCCCTACCTC----GGCCCCCG--CCGGC-CGCC------CTCCGCTCACCCTCGTGTGT [436] E626YB CCCCTACCTC----GGCCCCCG--CCGGC-CGCC------CTCCGCTCACCCTCGCGTGT [436] E626YD CCCCTACCTC----GGCCCCCG--CCGGC-CGCC------CTCCGCTCACCCTCGTGTGT [435] E626YA CCCCTACCTC----GGCCCCCG--CCGGC-CGCC------CTCCGCTCACCCTCGTGTGT [436] E625YE CCCCTACCTCA---GGCCCCCG--CCGGC-CGCC------CTCCGCTCACCCTCGTGTGT [437] E625YD CCCCTACCTCA---GGCCCCCG--CCGGC-CGCC------CTCCGCTCACCCTCGTGTGT [437] AS603JD CCCCTACCTC----GGCCCCC----CGGC-CGCC------CTCCGCTCACCCTCGTGTGT [434] D610YA CCCCTACCTC----GGCCCCCG--CCGGC-CGCC------CTCCGCTCACCCTCGTGTGT [436] AS603JE CCCCTACCTCA---AGCCCC----CCGGC-CGCC------CTCCGCTCACCCTCGTGTGT [435] G622YD CCCCTACCTC----GGCCCCCG--CCGGC-CGCC------CTCCGCTCACCCTCGTGTGT [437] G622YC CCCCTACCTC----GGCCCCCG--CCGGC-CGCC------CTCCGCTCACCCTCGTGTGT [437] G622YB CCCCTACCTC----GGCCCCC----CGGC-CGCC------CTCCGCTCACCCTCGTGTGT [434] G622YA CCCCTACCTC----GGCCCCC----CGGC-CGCC------CTCCGCTCACCCTCGTGTGT [434] E626YE CCCCTACCTC----GGCCCCCG--CCGGC-CGCC------CTCCGCTCACCCTCGTGTGT [437] Gadus_morhua GCTGGTAGGGGGGCTTACGTGGCAGTGCGCAGCCGGTCGG--GATTCACACCCCTCCCAA [506] G622YE GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [494] gunteriB GGCACCAGACCCTCCGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [493] gunteriD GGCACCAGACACTCCGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [494] gunteriA GGCACCAGACACTCCGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [494] Y634JE GGCACTAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [492] Y634JD GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [492] smithiE GGTACCAGACCCTCCGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [491] smithiD GGTACCAGACCCTCCGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [491] smithiC GGTACCAGACCCCCCGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [490] smithiB GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [491] Y634JB GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [495]

Page 224: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

215

Y634JC GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [496] smithiA GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [491] P613YE GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [495] AS603JB GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [495] AS603JA GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [495] A608YE GGTACTAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [491] A608YD GGTACTAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [493] A608YC GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [494] A608YB GGTACTAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [492] A608YA GGTTC-CGACACCTCGGCAGCCCGAGACGGGCCTCCCCG---CACTCGTGCGCGTACCGT [487] A607YE GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [492] A607YD GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [492] A607YC GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [492] A607YB GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [493] A607YA GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [494] P613YD GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [494] P613YC GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [494] P613YB GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [492] P613YA GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [495] gunteriE GGCACCAGACACTCCGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [494] gunteriC GGCACCAGACACTCCGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [494] E625YC GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [495] E625YB GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [495] E625YA GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [494] Y634JA GGTCC-TGACACTTCTGCAGCCCAAGGCGGGCCTCCCCA---CACTCGTGCATGTACCGT [495] D614YE GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [492] D614YD GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [495] D614YC GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [494] D614YB GGTAC-AGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [491] D614YA GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [494] D610YE GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [495] D610YD GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [495] D610YC GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [494] D610YB GGTTC-CGACACCTCGGCAGCCCGAGACGGGCCTCCCCG---CACTCGTGCGCGTACCGT [484] E626YC GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [494] E626YB GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [494] E626YD GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [493] E626YA GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [494] E625YE GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [495] E625YD GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCTCGA--CACTCGTGCGCGTACCGT [495] AS603JD GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [492] D610YA GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [494] AS603JE GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [493] G622YD GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [495] G622YC GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [495] G622YB GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGT--CACTCGTGCGCGTACCGT [492] G622YA GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [492] E626YE GGTACCAGACCCTCTGGCAGCCCGAGGCGGGCCTCCCCGA--CACTCGTGCGCGTACCGT [495] Gadus_morhua CGATCGCTCGGGAGGTTGAGAGGTT---TCCTCGGGGAGAGCGGTGGTCTCGGGTGTCGG [563] G622YE TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [544] gunteriB TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [543] gunteriD TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [544] gunteriA TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [544] Y634JE TAATGATCCT-----TCCGCAGGTT---CACCTACGGGAACC--TTGTTACGACTTTTAC [542] Y634JD TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [542] smithiE TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [541] smithiD TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [541] smithiC TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [540] smithiB TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [541] Y634JB TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [545] Y634JC TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [546] smithiA TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [541]

Page 225: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

216

P613YE TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [545] AS603JB TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [545] AS603JA TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [545] A608YE TAATGATCCC-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [541] A608YD TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [543] A608YC TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [544] A608YB TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [542] A608YA CAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [537] A607YE TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [542] A607YD TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [542] A607YC TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [542] A607YB TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [543] A607YA TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [544] P613YD TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [544] P613YC TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [544] P613YB TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [542] P613YA TAATGGTCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [545] gunteriE TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [544] gunteriC TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [544] E625YC TAATGATCCT-----CCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [545] E625YB TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [545] E625YA TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [544] Y634JA TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [545] D614YE TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [542] D614YD TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [545] D614YC TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [544] D614YB TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [541] D614YA TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [544] D610YE TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [545] D610YD TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [545] D610YC TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [544] D610YB CAATGATCCT-----TCCGCAGGTT---CACCCACGGAAACC--TTGTTACGACTTTTAC [534] E626YC TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [544] E626YB TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [544] E626YD TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [543] E626YA TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [544] E625YE TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [545] E625YD TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [545] AS603JD TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [542] D610YA TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [544] AS603JE TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [543] G622YD TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [545] G622YC TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [545] G622YB TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [542] G622YA TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [542] E626YE TAATGATCCT-----TCCGCAGGTT---CACCTACGGAAACC--TTGTTACGACTTTTAC [545] Gadus_morhua CCCGTC [569] G622YE TTCCTC [550] gunteriB TTCCTC [549] gunteriD TTCCTC [550] gunteriA TTCCTC [550] Y634JE TTCCTC [548] Y634JD TTCCTC [548] smithiE TTCCTC [547] smithiD TTCCTC [547] smithiC TTCCTC [546] smithiB TTCCTC [547] Y634JB TTCCTC [551] Y634JC TTCCTC [552] smithiA TTCCTC [547] P613YE TTCCTC [551] AS603JB TTCCTC [551]

Page 226: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

217

AS603JA TTCCTC [551] A608YE TTCCTC [547] A608YD TTCCTC [549] A608YC TTCCTC [550] A608YB TTCCTC [548] A608YA TTCCTC [543] A607YE TTCCTC [548] A607YD TTCCTC [548] A607YC TTCCTC [548] A607YB TTCCTC [549] A607YA TTCCTC [550] P613YD TTCCTC [550] P613YC TTCCTC [550] P613YB TTCCTC [548] P613YA TTCCTC [551] gunteriE TTCCTC [550] gunteriC TTCCTC [550] E625YC TTCCTC [551] E625YB TTCCTC [551] E625YA TTCCTC [550] Y634JA TTCCTC [551] D614YE TTCCTC [548] D614YD TTCCTC [551] D614YC TTCCTC [550] D614YB TTCCTC [547] D614YA TTCCTC [550] D610YE TTCCTC [551] D610YD TTCCTC [551] D610YC TTCCTC [550] D610YB TTCCTC [540] E626YC TTCCTC [550] E626YB TTCCTC [550] E626YD TTCCTC [549] E626YA TTCCTC [550] E625YE TTCCTC [551] E625YD TTCCTC [551] AS603JD TTCCTC [548] D610YA TTCCTC [550] AS603JE TTCCTC [549] G622YD TTCCTC [551] G622YC TTCCTC [551] G622YB TTCCTC [548] G622YA TTCCTC [548] E626YE TTCCTC [551]

Page 227: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

218

F) Allele scores for seven microsatellite loci collected from 389 Brevoortia specimens.

Asa2 Asa4 Aa16 AsaB020 AsaD055 AsaC334 SarBH04 A601Y 222 222 168 171 139 147 151 163 286 290 134 142 211 211A602Y 222 225 171 171 151 155 151 154 270 270 130 130 211 211A603Y 222 225 171 171 153 155 154 154 278 290 130 130 181 213A604Y 216 222 174 180 153 155 157 181 258 286 130 130 181 211A605Y 153 153 154 169 262 274 130 130 181 209A606Y 222 225 171 186 153 155 148 157 286 302 126 138 211 211A607Y 222 225 171 174 139 151 157 157 262 278 134 134 211 211A608Y 222 222 171 171 153 155 145 160 290 298 130 138 211 215A609Y 225 225 171 183 151 155 142 151 286 302 126 130 181 181A610Y 225 228 168 171 153 153 151 166 254 254 130 130 209 211A611Y 171 174 153 155 148 157 262 262 130 130 181 211A612Y 225 225 168 174 151 153 145 160 278 286 134 134 211 211A613Y 225 228 168 174 139 139 145 151 262 302 130 130 205 211A614Y 222 222 153 155 157 157A615Y 222 225 168 168 153 153 154 154 286 286 130 134 211 211A616Y 222 225 168 174 153 153 151 160 274 274 126 130 209 211A617Y 216 222 171 171 153 155 151 169 270 270 130 134 205 209A618Y 222 222 168 168 139 153 163 166 254 282 130 138 179 181A619Y 222 222 168 168 153 153 154 157 282 302 130 138 181 207A620Y 225 228 171 174 151 153 157 184 130 130 181 209A621Y 168 174 153 153 151 151 274 314 130 134 211 211A622Y 222 222 171 192 139 151 151 166 270 286 130 130 209 209A623Y 216 228 171 174 153 153 148 163 262 262 130 130 209 211A624Y 216 222 171 174 151 153 148 148 270 290 130 142 181 211A625Y 216 225 174 174 151 153 157 172 286 298 130 130 207 211AS601J 216 222 180 201 151 155 157 187 270 278 130 134 209 211AS602J 222 237 171 171 139 153 154 157 274 294 122 130 181 181AS603J 222 222 180 195 153 153 145 151 298 302 126 138 181 205AS604J 216 225 148 163 274 282 130 130 181 211

Page 228: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

219

AS605J 222 222 139 153 148 163 286 302 126 130 211 215AS606J 222 222 168 177 139 153 145 169 238 238 130 134 209 211AS607J 225 225 171 177 143 155 166 169 254 294 130 130 209 211AS608J 222 222 155 155 142 157 270 278 130 134 181 211AS609J 174 177 139 153 157 157 290 290 130 130 203 211AS610J 222 225 151 153 151 157 290 290 130 134 211 211AS611J 222 228 168 168 153 155 154 157 282 302 130 134 209 209AS612J 216 219 168 174 153 153 145 154 274 282 134 134 211 211AS613J 216 222 171 174 153 155 145 154 262 286 130 130 205 211AS614J 222 225 168 174 153 153 160 184 286 290 130 130 181 209AS615J 222 231 174 177 151 155 151 160 254 286 130 130 209 209AS616J 216 222 168 171 139 153 145 184 274 274 130 134 199 211C617J 216 222 153 153 151 157 290 294 130 130 211 211C618J 222 222 168 171 151 153 148 151 286 294 130 134 181 209C619J 222 228 165 177 153 155 145 163 274 298 134 134 181 211CH726J 225 225 174 192 153 153 160 160 282 290 134 134 179 179CH727J 216 222 168 183 151 155 163 172 294 314 126 134 179 211CH728J 222 222 171 180 139 153 133 157 270 294 130 130 211 211CH729J 222 237 139 151 157 157 278 290 118 134CH730J 222 222 168 171 151 155 145 160 274 290 130 134 179 179CH731J 222 225 171 177 139 151 142 181 286 298 134 134 211 211CH732J 228 231 180 186 153 153 145 157 282 298 130 130 203 205CH733J 222 222 165 174 155 155 151 163 262 290 130 138 179 179CH734J 216 222 139 153 145 145 266 274 130 134CH735J 219 225 168 171 153 153 163 175 286 290 126 130CH736J 222 228 171 174 151 153 136 169 270 286 130 134 211 211CH737J 222 225 177 183 155 155 157 160 286 314 130 134CH738J 225 225 171 171 153 153 145 166 274 298 130 134 211 213CH739J 216 225 153 155 148 160 238 290 130 130CH740J 228 231 177 177 147 151 154 163 254 270 130 130CH741J 216 231 153 153 181 184 278 290 134 134CR620J 216 222 171 180 153 153 136 160 290 310 126 130 209 209

Page 229: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

220

CR621J 216 222 171 180 151 155 151 172 254 282 130 130 209 209D601Y 222 222 165 177 151 151 148 154 274 302 130 130 209 211D602Y 145 151 254 286 130 130 211 213D603Y 216 222 177 177 151 155 151 178 270 326 130 130 211 219D604Y 222 225 174 177 139 155 169 178 286 310 130 130 211 211D605Y 222 222 168 174 153 153 151 166 278 282 134 134 209 213D606Y 216 216 162 174 151 153 151 160 274 302 130 138 181 203D607Y 222 222 171 177 151 153 148 160 294 314 122 130 211 221D608Y 225 225 174 189 151 155 136 145 254 294 126 130 181 211D609Y 225 225 168 171 153 153 286 290 130 130 211 211D610Y 222 234 168 171 153 153 278 278 211 211D611Y 222 222 153 155 130 134 209 209D612Y 216 222 168 174 139 153 163 184 130 134 205 209D613Y 222 222 153 153 133 172 130 130D614Y 216 228 168 171 153 153 148 157 130 130 181 211D615Y 222 222 171 180 151 155 145 148 130 130 209 209D616Y 222 225 171 174 153 153 142 175 130 134 209 211D617Y 222 222 171 180 139 155 157 160 130 134 209 211D618Y 222 228 168 174 151 155 157 157 130 134 195 209D619Y 222 225 171 177 153 155 145 163 134 134 211 211D620Y 216 222 171 171 151 153 151 151 294 302 130 130 179 209D621Y 222 222 174 174 153 153 148 160 274 274 130 130 181 211D622Y 216 216 171 180 153 153 148 163 254 286 130 130 181 209D623Y 216 225 171 177 153 153 154 193 254 274 130 130 199 199D624Y 222 222 183 222 151 153 148 148 298 302 130 130 181 211D625Y 222 222 168 168 153 155 148 148 286 302 130 130 209 211D626Y 222 222 174 183 153 153 145 181 130 130 209 211D627Y 225 228 171 177 151 151 145 151 294 298 130 134 209 211D701Y 222 222 171 174 153 155 148 184 262 262 130 134D702Y 219 225 171 174 151 153 154 169 126 130 211 221D703Y 225 231 180 180 153 155 136 157 130 134 181 209D704Y 222 225 177 180 139 155 133 172 294 298 130 134 209 209

Page 230: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

221

D705Y 216 222 174 174 153 153 151 154 278 302 130 130 181 211D706Y 213 216 174 177 139 153 145 151 282 286 130 134 181 215D707Y 222 225 168 183 153 155 145 148 130 134 209 215D708Y 216 222 139 153 145 148 282 290 126 130 211 211D709Y 225 228 171 183 153 153 145 163 282 290 130 130 209 211D710Y 171 174 153 153 148 160 130 130 213 221D711Y 222 225 177 180 153 155 145 151 130 130 211 211D712Y 225 225 174 180 151 153 145 148 286 290 130 130 209 211D714Y 222 231 171 195 139 151 148 160 270 282 130 130 181 211D716Y 222 228 174 189 153 153 130 145 270 282 130 134 209 209D717Y 216 225 174 174 151 153 130 154 278 286 134 134 203 209D718Y 222 222 168 174 153 155 148 157 270 274 130 134 209 209D719Y 216 222 177 177 153 153 148 184 294 298 126 130 181 209D720Y 222 222 165 165 155 155 148 184 254 278 130 130 209 209D721Y 225 231 171 174 147 151 145 145 282 294 130 134 181 211D722Y 222 222 171 174 153 155 151 163 282 294 130 130 181 181D723Y 222 222 174 180 153 153 151 157 282 302 126 130 209 215D724Y 216 231 180 201 153 153 142 166 282 302 130 130 211 211D725Y 222 225 153 153 154 169 286 290 126 130 181 199D726J 222 222 168 171 139 153 148 151 290 294 130 130D727J 222 222 174 183 151 153 130 151 130 130 209 211E622Y 222 222 171 174 139 155 145 145 286 290 205 211E623Y 222 222 168 168 153 153 145 160 298 306 130 130 209 211E624Y 222 225 171 171 151 155 148 157 274 278 130 130 211 213E625J 222 225 168 183 139 153 145 169 274 278 130 134 199 211E626J 225 225 177 183 153 155 148 178 262 262 130 134 199 201E627J 225 228 171 171 153 153 145 145 262 286 130 134 209 211E628J 216 228 168 189 147 153 154 157 266 270 130 134 207 211E701Y 222 222 153 155 145 145 294 302E702Y 222 222 155 155 126 130E703Y 222 225 168 189 151 153 157 160 126 130 211 211E704Y 222 225 168 171 153 155 157 181 262 270 126 130 181 209

Page 231: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

222

E705Y 222 225 174 174 153 153 148 151 282 302 130 130 179 179E706Y 219 222 171 171 139 153 130 134 181 215E707Y 222 222 174 174 151 155 148 157 294 310 126 130 211 211E708Y 222 222 151 153 151 172 274 278 134 134 201 211E709Y 222 225 139 153 151 169 278 278E710Y 225 225 168 183 139 155 151 151 130 134E711Y 222 225 151 155 290 326E712Y 222 222 168 171 155 155 145 169 130 130 181 209E713Y 222 225 171 174 139 155 145 151 278 282 130 130 181 209E714Y 222 225 153 153 157 157 290 294 209 209E715Y 222 225 171 171 139 153 148 157 262 270 130 134 209 211E716Y 222 225 171 174 139 153 130 145 270 298 130 134 181 209E717Y 225 228 168 171 151 153 145 148E718Y 222 222 153 155 157 157 290 306 130 130 209 209E719Y 222 222 171 180 139 157 157 163 278 294 130 130 181 203E720Y 222 225 174 174 139 139 145 154 254 286 126 130 205 221E721Y 219 222 171 177 151 153 142 148 286 306 130 130 211 211E722Y 222 222 168 168 153 155 145 163 278 286 130 130 181 221E723Y 222 225 171 171 153 153 145 157 294 314 134 138 181 181E724Y 222 225 171 171 153 155 145 154 286 298 126 134 199 211E725Y 216 222 171 171 155 157 157 157 278 302 130 130 181 213G601Y 216 222 171 171 155 157 160 166 294 294 126 134 181 181G602Y 216 225 168 171 151 155 160 181 282 326 134 134 181 181G603Y 225 228 171 174 155 155 157 160 282 290 122 126 183 211G604Y 222 222 174 177 153 155 172 181 270 298 122 134 181 181G605Y 222 228 177 186 155 155 130 172 278 306 122 134 181 183G606Y 222 222 177 177 155 155 169 175 294 294 118 122 181 181G607Y 222 225 171 171 155 155 175 181 310 330 126 142 181 181G608Y 222 222 168 171 139 155 145 163 298 318 122 130 181 181G609Y 216 222 168 168 147 147 145 151 258 286 122 130 181 209G610Y 222 225 171 174 155 155 178 178 282 314 122 146 181 185G611Y 222 225 171 174 155 157 148 163 294 294 126 138 183 205

Page 232: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

223

G612Y 216 225 174 177 155 157 160 187 306 318 134 138 181 181G613Y 222 222 155 155 151 172 274 322 122 134 181 209G614Y 222 225 174 177 155 155 145 175 130 130 181 195G615Y 222 228 171 177 155 155 166 169 181 181G616Y 222 222 155 155 169 178 122 142 181 181G617Y 237 237 174 174 155 155 157 196 282 310 126 142 181 207G618Y 225 234 168 174 155 157 166 178 286 294 126 146 181 181G619Y 225 225 174 174 155 155 163 166 302 302 126 126 181 181G620Y 222 225 177 180 155 161 145 145 302 310 118 126 181 181G621Y 222 225 177 180 155 161 145 145 282 302 118 126 181 181G622Y 222 225 171 174 155 155 157 160 282 302 126 142 183 183G623Y 222 222 168 168 155 155 148 157 262 278 122 130 181 211G624Y 222 225 168 171 135 155 160 163 282 294 142 142 181 211G625Y 222 225 168 168 135 155 178 184 290 298 122 122 183 185G701Y 222 225 153 155 157 163 282 294 126 130 181 181G702Y 222 237 174 180 153 155 145 163 270 302 134 142 181 181G703Y 222 225 171 171 155 155 157 160 290 298 130 146 181 181G704Y 222 228 168 171 153 155 151 169 270 282 126 134 181 181G705Y 222 222 168 171 155 155 145 181 278 286 122 126 181 181G706Y 222 222 165 171 153 155 154 154 274 298 122 138 181 181G707Y 216 231 171 171 153 155 148 169 282 306 134 142 169 181G708Y 216 222 165 171 155 155 163 190 282 294 130 138 181 181G709Y 216 222 153 153 302 318 122 130G710Y 153 155 282 298 126 138G711Y 222 225 177 198 155 155 160 166 290 310 126 146 181 181G712Y 222 222 145 154 122 146G713Y 222 225 180 189 147 155 145 148 274 306 118 122G714Y 222 225 174 177 155 155 130 175 274 306 126 138G715Y 222 222 165 177 155 155 175 184 138 154 181 181G716Y 222 225 168 174 155 155 133 145 290 294 122 134 179 181G717Y 222 222 171 171 155 155 172 181 286 290 118 138 181 181G718Y 225 225 171 171 153 155 151 151 294 298 122 130 181 181

Page 233: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

224

G719Y 222 225 168 171 153 155 148 169 290 290 122 134 181 181G720Y 219 222 174 174 155 155 154 163 282 294 118 122 181 213G721Y 222 222 171 180 155 155 151 178 294 294 126 138 181 215G722Y 225 225 168 171 155 155 157 160 286 290 122 138 181 215G723Y 213 222 171 174 143 155 151 172 282 294 122 126 169 181G724Y 210 225 171 171 155 155 148 154 122 138 169 181G725Y 222 222 171 192 155 157 166 175 270 278 130 134 181 181GH701Y 222 222 171 174 153 153 148 157 126 130 211 211GH702Y 222 222 171 177 153 153 145 145 254 298 130 130 181 199GH703Y 222 225 171 171 139 151 145 148 254 274 130 130 209 209GH704Y 222 222 174 180 151 153 145 148 294 294 130 134 209 211M601Y 225 225 174 186 139 139 145 148 274 282 130 130 209 211M602Y 216 225 171 177 153 155 157 187 238 278 130 138 209 211M603Y 222 225 171 180 139 153 157 175 286 310 130 130 181 181M604Y 222 222 153 153 145 145 286 310 126 130 211 211M605Y 225 225 174 177 151 153 145 157 282 294 130 130 181 209M606Y 222 222 174 177 153 153 282 294 211 211M607Y 222 228 174 177 153 153 163 181 266 278 130 130 209 209M608J 222 228 171 174 151 153 163 181 266 278 134 134 211 213M751Y 222 228 171 174 153 155 148 154 294 302 134 134 179 179M752Y 216 225 168 171 153 153 148 148 274 278 130 138 179 179M753Y 216 225 168 171 139 153 157 166 262 290 134 134 179 179M754Y 222 225 153 153 154 160 286 318 130 134 209 215M755Y 222 228 171 171 151 153 145 148 282 298 130 142 209 211M756Y 222 222 174 177 153 155 139 157 274 294 130 134 211 211M757Y 222 222 171 180 153 153 145 157 266 282 130 138 179 181M758Y 222 222 171 171 151 155 145 169 274 286 134 134 209 209M759Y 222 222 174 174 151 153 157 175 278 298 130 138 179 179M760Y 222 225 168 174 153 153 145 148 286 298 130 134 179 209M761Y 222 225 174 174 151 153 148 196 274 286 130 134 209 209M763Y 222 222 168 174 139 155 148 175 274 290 130 134 209 209M764Y 222 225 171 180 139 153 148 184 286 290 130 134 209 211

Page 234: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

225

M765Y 222 222 168 189 153 153 154 157 274 310 126 134 209 209M766Y 222 225 171 180 153 153 151 154 282 286 130 134 211 211P609Y 225 231 177 180 153 153 270 274 126 130 209 211P610Y 222 231 174 177 153 153 145 148 286 294 130 130 201 211P611Y 222 225 168 180 151 153 151 181 286 298 130 130 209 213P612Y 222 225 153 153 145 157 286 290 130 130 211 211P613Y 222 231 174 177 153 153 151 181 262 262 130 134 181 211P614Y 222 222 177 177 153 155 130 136 294 302 126 130 209 211P615Y 225 225 174 177 153 153 154 175 130 130 209 211P616Y 222 222 151 155 130 130 274 298 130 134 209 221P617Y 210 225 171 183 151 151 145 151 302 318 130 134 211 213P618Y 222 228 180 180 151 153 148 157 278 294 130 130 207 211P619Y 174 177 153 153 148 151 130 134 205 209P620Y 222 222 171 174 139 151 136 136 270 302 130 146 211 221P621Y 222 222 168 192 139 153 145 151 290 302 130 134 179 213P622Y 222 225 174 183 153 153 148 169 262 282 126 134 181 209P623Y 222 222 174 177 139 155 157 163 294 294 134 134 211 211P624Y 153 153 151 154 130 130 179 211P625Y 219 222 153 153 142 169 134 134 181 211P626Y 222 222 153 153 163 175 282 294SH705Y 222 225 171 174 139 151 154 160 270 278 130 134 181 213SH706Y 168 171 153 155 145 169 290 298 126 130SH707Y 225 237 168 180 143 155 145 148 274 278 130 130 195 209SH708Y 222 225 174 183 147 155 154 154 274 286 126 130 209 211SH709Y 222 225 147 155 160 181 274 286 126 130 209 211SH710Y 216 225 171 180 153 153 160 181 286 290 126 134 211 211SH711Y 171 171 145 151 130 130SH712Y 171 174 298 298 122 130SH713Y 222 225 153 155 130 146SH714Y 222 225 145 145 274 294 130 130SH716Y 222 228 171 174 153 155 286 286 126 138 181 211SH717Y 222 222 168 171 153 155 148 154 286 306 134 134

Page 235: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

226

SH718Y 222 222 171 174 153 153 157 169 278 298 130 134 211 211SH719Y 222 225 171 204 151 155 148 172 262 302 134 134 209 211SH721Y 222 222 155 155 145 148 254 262 130 138SH722Y 216 222 168 177 151 151 142 151 290 290 130 130SH723Y 222 222 171 174 139 153 145 145 286 290 118 134 197 211SH724Y 210 222 171 177 153 153 151 169 262 274 130 134SH727Y 222 225 171 174 139 139 145 151 130 130 209 211SH728Y 222 222 171 171 155 155 148 154 266 270 130 130 197 211SH729Y 222 222 171 174 139 153 166 169 262 298 130 134 209 221Y627J 225 225 168 171 139 153 148 157 254 286 130 130 181 209Y628J 222 222 168 171 151 151 148 157 270 278 126 126 209 209Y629J 222 228 177 180 139 153 145 157 290 302 130 134 211 211Y630J 222 222 177 180 139 153 151 175 286 290 130 130 179 211Y631J 222 225 153 155 145 154 286 290 130 130 211 211Y632J 145 148 130 130 209 209Y633J 225 225 171 171 153 155 145 148 278 294 130 134 209 211Y634J 222 222 171 186 153 153 151 151 282 286 130 130 181 211Y635J 225 225 171 198 153 153 148 154 258 286 130 138 209 211Y636J 219 225 171 174 147 153 145 181 286 294 134 134 205 213Y637J 222 222 180 183 153 153 142 148 290 290 130 142 181 211Y638J 222 222 171 177 147 153 145 160 254 306 130 130 209 211Y639J 222 228 168 174 151 153 145 148 278 278 130 134 211 211Y640J 222 225 168 168 153 153 148 172 286 302 130 134 209 211Y641J 225 225 153 153 145 148 286 302 130 134Y642J 225 225 168 171 139 153 145 148 286 286 130 130 205 209Y643J 222 225 153 153 145 178 254 286 130 130 209 211Y644J 222 228 168 174 151 153 148 157 278 278 130 134Y701Y 222 222 168 171 151 155 148 172 274 290 130 130 211 211Y703Y 216 225 151 153 145 148 286 290 130 130Y704Y 219 222 168 177 151 153 148 160 286 294 130 130 203 209Y705Y 216 225 168 180 153 153 151 160 270 298 130 134 205 211Y706Y 222 225 162 165 151 153 136 169 254 286 130 134 209 211

Page 236: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

227

Y707Y 222 222 174 183 153 153 145 157 286 294 134 134 213 213Y708Y 222 222 168 168 153 153 160 166 286 298 130 134 209 211Y709Y 216 231 168 168 139 153 151 157 290 298 130 134 211 211Y710Y 222 222 171 171 153 155 145 157 302 334 134 134 181 209Y711Y 210 225 174 177 153 155 148 181 290 306 130 134 209 211Y712Y 222 225 174 183 153 155 148 166 262 270 126 130 197 211Y713Y 216 225 168 174 147 153 157 160 258 294 134 138 181 209Y714Y 222 222 168 168 153 153 157 169 290 298 130 130 211 215Y715Y 222 222 174 174 139 153 151 151 290 302 130 138 209 209Y716Y 222 228 174 177 151 153 154 157 278 286 130 134 209 211Y717Y 225 225 168 171 153 153 136 169 282 290 126 130 209 209Y718Y 228 237 171 180 139 155 157 181 254 294 122 130 209 209Y719Y 216 222 139 155 148 151 278 294 130 134 211 211Y720Y 216 222 174 177 151 155 139 148 286 290 130 134 209 211Y721Y 216 225 174 177 153 155 151 157 286 318 130 134 179 209Y722Y 222 228 174 174 151 151 145 145 278 278 126 134 209 209Y723Y 222 222 171 177 153 155 145 148 282 294 134 134 209 211Y724Y 222 222 171 174 153 153 151 163 274 294 130 134 211 211Y725Y 225 228 171 174 153 153 160 175 278 282 126 134 179 209Y726J 222 222 171 177 155 155 145 178 306 310 126 134 209 211Y727J 222 222 174 174 155 155 145 157 286 306 126 134 209 211Y728J 222 228 171 171 147 151 157 163 238 270 130 130 199 209Y729J 222 222 180 186 139 151 154 169 282 290 130 130 211 211Y730J 222 225 171 177 153 155 148 151 282 294 130 134 179 211Y731J 222 225 168 177 139 155 151 160 270 290 130 130 209 211Y732J 222 222 168 168 153 153 145 163 254 286 126 126 211 211Y733J 222 222 183 183 153 153 148 151 294 302 126 134 205 209Y734J 216 216 153 153 145 148 294 294 134 134Y735J 222 222 153 153 145 145 262 274Y736J 216 225 171 180 151 153 166 169 254 306 130 142 205 221Y737J 222 222 192 192 151 151 154 157 262 274 130 142 179 209Y738J 153 153 145 145 262 262 179 211

Page 237: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

228

Y739J 222 231 165 174 153 155 145 151 254 286 126 130 209 215Y740J 219 228 180 189 151 155 145 145 270 294 130 130 179 211Y741J 216 225 171 180 139 151 160 175 262 262 130 130 179 211Y742J 216 228 174 177 139 155 151 169 274 294 126 130 209 209Y743J 222 234 171 180 153 155 148 169 286 302 126 130 179 213Y744J 216 222 171 171 153 153 145 145 274 290 134 134 179 209Y745J 222 222 168 168 151 155 151 160 254 294 130 130 211 211Y746J 222 225 168 174 151 153 145 172 290 298 130 130 179 179Y747J 216 225 168 171 153 153 145 160 294 310 134 134 209 211Y748J 222 225 171 186 153 155 145 157 298 302 134 138 209 211Y749J 222 225 168 171 151 153 145 148 286 290 130 134 209 209Y750J 225 228 171 171 151 155 145 184 270 286 126 138 209 213Y767Y 219 222 171 171 141 153 166 181 282 286 130 138 179 213Y768Y 216 222 174 174 139 151 145 148 286 290 126 134Y769Y 222 228 171 177 153 153 145 154 278 290 126 130 211 211Y770Y 225 228 171 174 151 153 148 172 262 290 142 142 209 209Y771Y 222 222 168 174 151 155 145 175 254 254 130 130 209 209Y772Y 222 228 171 171 153 153 151 169 290 302 130 134 209 209Y773Y 216 225 174 177 139 153 145 160 278 278 130 138 203 211Y774Y 222 222 171 177 139 153 148 154 294 302 122 134 209 213Y775Y 222 222 183 189 143 155 151 166 254 270 130 130 211 211Y776Y 222 225 168 177 139 153 148 163 290 294 130 134 179 211gun10 216 216 177 177 141 153 130 139 266 274 203 207gun11 216 216 165 168 153 153 139 139 242 246 150 154gun12 216 216 171 174 153 153 278 290 213 213gun13 216 216 180 180 153 153 130 130 266 270 134 150 207 207gun14 216 216 171 177 153 153 130 130 254 290 146 150 203 203gun15 216 216 171 177 145 155 127 130 286 290 138 158 203 203gun16 216 216 168 171 145 153 130 130 250 270 146 150 213 213gun17 216 216 171 171 153 153 136 136 258 274 203 217gun18 216 216 168 168 141 153 130 139 262 262 213 213gun19 216 216 174 180 153 153 130 130 262 270 203 207

Page 238: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

229

gun1 216 216 171 177 153 153 130 139 254 262 189 189gun20 216 216 168 171 153 153 130 130 242 266 221 221gun21 216 216 168 168 151 153 130 130 254 270 142 150 215 215gun22 216 216 168 171 145 155 130 139 258 262 134 134 205 205gun23 216 216 165 171 135 153 130 130 254 278 138 150gun24 216 216 168 168 153 153 130 139 258 266 203 203gun25 216 216 171 177 145 153 130 130 254 262 203 205gun2 216 216 216 216 130 139 254 270gun3 216 216 168 168 153 153 130 130 270 286 209 219gun4 216 216 168 168 153 153 130 130 270 274 203 205gun5 216 216 171 177 145 153 130 139 266 282 142 150 203 213gun6 216 216 168 171 153 153 130 139 266 274 134 150 207 207gun7 216 216 145 155 130 139 258 278 134 142 209 217gun8 216 216 168 174 145 153 130 139 266 274gun9 216 216 165 165 153 155 130 130 262 270 203 203smi10 213 213 168 171 141 153 278 278 203 203smi11 213 213 168 171 141 153 130 130 274 274 189 203smi12 213 213 168 168 153 153 130 130 238 278 150 150 203 205smi13 213 213 168 171 153 153 130 130 266 274 150 150 203 203smi14 213 213 171 177 153 157 130 130 270 286 142 142smi15 213 213 168 171 151 153 130 130 238 282 150 158 203 203smi16 213 213 168 168 153 153 130 130 262 278 150 150 203 203smi17 213 213 171 171 153 153 130 130 274 278 203 203smi18 213 213 171 177 153 153 130 130 266 270 203 203smi19 213 213 141 153 130 130 262 262 150 150 193 203smi1 213 213 171 171 153 153 130 130 274 282 150 150 203 203smi20 213 216 159 171 153 153 130 130 282 294 150 150 197 203smi21 213 213 168 168 153 153 130 130 270 274 150 158 203 213smi22 213 213 171 177 153 153 130 130 254 282 203 205smi23 213 213 171 177 153 153 130 130 270 270 150 158 197 203smi24 213 213 168 168 153 153 130 130 262 270 134 150 203 203smi25 174 177 153 153 130 130 134 150 203 203

Page 239: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

230

smi2 213 213 171 171 141 153 130 130 270 286 134 150 203 221smi3 213 216 168 168 141 153 130 130 266 278 203 203smi4 213 216 171 177 141 153 130 130 266 278 134 158 203 203smi5 213 213 168 168 153 153 130 130 270 282 203 203smi6 213 213 168 168 130 130 250 274 134 154 203 203smi7 213 213 168 168 153 153 130 130 238 282 150 150 203 203smi8 213 213 168 168 153 153 130 130 274 278 146 150 203 203smi9 213 213 168 171 141 153 270 278 203 203

missing 15 24 9 14 39 35 37

Page 240: Brevoortia tyrannus) Stock Structure A Thesisweb.vims.edu/library/Theses/LynchA08.pdfA Molecular Analysis of Atlantic Menhaden (Brevoortia tyrannus) Stock Structure _____ A Thesis

231

VITA

ABIGAIL J. LYNCH

Born in Fairfax, Virginia on 30 June 1983. Graduated valdictorian from J.E.B. Stuart High School in 2001. Earned B.A. in English and B.S. in biology from the University of Virginia in 2005. Entered the Master of Science program at the School of Marine Science, Virginia Institute of Marine Science, College of William & Mary in 2005. Received the John A. Knauss Marine Policy Fellowship for 2008.