Supplemental Table S3. Mapping of Illumina reads to S. salar EST data.

Numbers of reads aligning to salmon reference for each sample.

Alignment per read	SB 141	SB 163	SB 200	SB 433	AC 141	AC 163	AC 200	AC 433
0	33088778	30492314	27175901	25569628	32159386	30051365	31267710	28563169
1	6979368	11791558	11449549	11058555	11599602	11320997	11027195	10650748
2	2742358	4021683	3814418	3734404	4328402	4523686	3959198	3655786
3	2099068	2964994	2748108	2651522	3111277	3332577	2878729	2515303
4	1228292	1777846	1720902	1968251	1977738	2182392	1929818	1980420
5	914704	1317556	1284262	1434314	1471739	1679277	1447604	1426744
6	645264	946579	938290	1087959	1001350	1083025	1045157	1081063
7	425856	595785	578175	726290	657220	750523	690286	735351
8	293065	428003	424426	590100	530040	591332	527821	579860
9	206205	319401	334861	455838	296169	334264	387901	485653
10+	749074	1419362	1761275	3041930	1092980	1189781	1967857	3294222
Total reads	49372032	56075081	52230167	52318791	58225903	57039219	57129276	54968319