Whole Genome Sequencing of Greater Amberjack (Seriola dumerili) for SNP Identification on Aligned Scaffolds and Genome Structural Variation Analysis Using Parallel Resequencing

Table 4

Structural variations detected in the genomes of 20 greater amberjack.

Sample number	DEL	INS	INV	ITX	CTX
1(Ig4894)	6921	21	737	5042	8293
2(Ig4895)	7447	22	730	4954	8346
3(Ig4896)	6458	15	760	5147	8745
4(Ig4897)	7690	13	731	5213	8504
5(Ig4898)	6821	12	716	5262	8852
6(Ig4899)	7146	14	742	5243	8946
7(Ig4900)	7383	11	771	5118	8672
8(Ig4901)	6789	14	751	5159	8863
9(Ig7999)	5948	75	653	4107	6347
10(Ig8000)	6157	80	693	4236	6699
11(Ig8001)	6085	58	636	4133	6456
12(Ig8002)	5989	62	665	4061	6343
13(Ig8003)	6015	91	657	4027	6403
14(Ig8004)	6112	89	701	4056	6503
15(Ig8005)	5879	43	654	4025	6370
16(Ig8006)	6269	54	680	4290	6759
17(Ig8007)	6034	35	661	3990	6108
18(Ig8008)	6180	61	677	4261	6822
19(Ig8009)	5974	72	686	4230	6351
20(Ig8010)	6300	51	650	4201	6068

Structural variations were detected by BreakDancer using pair-end resequenced data for 20 greater amberjack genomes. Sample numbers 1–8 represent greater amberjacks captured near the Kochi coast, and sample numbers 9–20 represent greater amberjacks captured near Chinese Hainan Islands. The Ig numbers are the resequenced data analysis numbers. DEL: deletion; INS: insertion; INV: inversion; ITX: intrachromosomal translocation; and CTX: interchromosomal translocation.