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Table 2 Homeologous chromosome regions in the Atlantic salmon genome identified by mapping of MSV-5s, sequence alignments within salmon SNP-sequences (Salmon BLAST) and alignments against the stickleback genome sequence (Stickleback BLAST)

From: A dense SNP-based linkage map for Atlantic salmon (Salmo salar) reveals extended chromosome homeologies and striking differences in sex-specific recombination patterns

 

Mapping approach

 

Homeologs

MSV-5s

Salmon BLAST

Stickleback BLAST

Danzmann et al (2008)

1p-9qa

 

4

37

 

1qa-18qa

 

3

29

 

1qb-11qb/13qb

 

6

52

 

2p-5q

39

48

67

9

2q-12qa

1

5

33

5 (12qb)

3p-14qa

  

41

 

3q-6p

7

14

67

9

4p-8q

14

16

21

4

4q-11qb/13qb

 

11

58

 

5p-9qb

 

7

61

 

6q-15qa

 

3

41

 

7p-18qb

  

18

 

7q-17qb

33

34

35

5 (17qa)

9qc-20qa

 

4

36

 

10-16qa/23

 

3

112

 

11qa-26

2

10

54

1

12qb-22

 

7

56

 

13qa-15qb

1

7

40

 

14qb-27

 

11

57

 

16qb-17qa

 

7

19

5 (16qa-17qb)

18qa-28

  

14

 

19qa-28

 

4

24

 

19qb-29

1

3

38

 

20qb-24

 

5

52

 

21-25

 

5

51

 
  1. MSV-5s are nested in the Salmon BLAST and Stickleback BLAST numbers are the total counts of SNP-bearing sequences aligning with the Stickleback genome and supporting the homeolog pairing.