Table 1. Distribution of SNPs on each chromosome after quality control.

Chromosome	Physical length (Mb) c	No. SNPs	Marker density (kb/SNP)
1	200.9	6,876	29.2
2	154.8	5,172	29.9
3	113.6	3,925	28.9
4	94.2	3,155	29.9
5	62.2	2,096	29.7
6	37.4	1,613	23.2
7	38.3	1,761	21.7
8	30.6	1,329	23
9	25.5	1,162	21.9
10	22.5	1,259	17.9
11	21.9	1,163	18.8
12	20.5	1,314	15.6
13	18.9	1,068	17.7
14	15.8	970	16.3
15	12.9	947	13.6
16	0.43	20	21.5
17	11.1	831	13.4
18	10.9	803	13.6
19	9.8	792	12.4
20	13.9	1,428	9.7
21	6.9	771	8.9
22	3.9	269	14.5
23	6	587	10.2
24	6.4	653	9.8
25	2	167	12
26	5.1	632	8.1
27	4.8	430	11.2
28	4.5	542	8.3
LGE22C19W28_E50C23 a	0.89	98	9.1
LGE64 a	0.049	1	49
Z	74.6	1,737	42.9
0 b	—	559	—
Total	1031.3	44,130	23.4

^a Two linkage groups.

^b These SNPs are not mapped to any chromosome.

^c The physical length of the chromosome was based on the genome build Gallus_gallus-2.1(May, 2006).