Skip to main content

Table 2 The 11 SNP core haplotype shown by Sweep (v1.1) to be in LD in region 2 (Table 1 ) on chromosome 1

From: Signatures of selection in sheep bred for resistance or susceptibility to gastrointestinal nematodes

SNP ID

Chr

Position

Platform

SNP

Haplotype

    

(Derived/ancestral)

1

2

3

4

5

6

7

8

OAR1_93117979

1

87702641

Sequenom®

T/C

C

C

C

C

C

C

C

T

OAR1_93118073

1

87702735

Sequenom®

C/T

T

T

T

T

T

T

T

C

OAR1_93124341.1

1

87709264

SNP50 BeadChip

T/C

C

C

C

C

C

T

T

T

OAR1_93154178

1

87740396

Sequenom®

A/G

A

G

G

G

G

A

G

A

s50853

1

87751371

Sequenom®

G/C

G

C

C

G

G

C

C

C

OAR1_93166689.1

1

87753155

SNP50 BeadChip

G/T

T

T

T

T

T

T

T

G

OAR1_93219257.1

1

87791568

SNP50 BeadChip

C/T

C

C

C

C

C

C

C

T

OAR1_93226648

1

87801889

Sequenom®

A/G

G

G

G

G

G

G

G

A

OAR1_93231706

1

87807624

Sequenom®

G/T

T

T

T

G

T

T

T

T

OAR1_93231813

1

87807731

Sequenom®

T/C

T

T

T

C

T

C

T

T

s57213.1

1

87826285

SNP50 BeadChip

C/T

C

C

T

C

T

C

C

T

OAR1_93251748

1

87828912

Sequenom®

A/G

-

-

-

-

-

-

-

-

    

Selection line

Haplotype frequency

    

Romney resistant

-

-

-

0.3211

-

-

-

0.6789

    

Romney susceptible

-

-

-

0.8841

-

-

-

0.0976

    

Perendale resistant

0.0203

-

0.0203

0.6554

0.0338

0.0203

0.0405

-

    

Perendale susceptible

-

0.0278

-

0.3264

0.0764

-

-

0.5417

  1. Haplotypes 1–8 were present in either the Romney or Perendale animals, or both. Haplotype frequencies are given for each selection line.
Back to article page

BMC Genomics

ISSN: 1471-2164

Contact us