Table 2.

Summary of miRNA and ncRNA abundance from SOLiD sequencing using CLC Genomics analysis.

Sample	Total raw reads	Raw reads after trimming	Annotated small RNAs		miRNAs				Other ncRNAs
			reads	%	Mature	%	Star	%	reads	%
DMSO 36hpf-1	8,846,676	4,227,737	821,505	19.4	738,954	90.0	62,177	7.6	20,374	2.5
DMSO 36hpf-2	10,392,462	5,789,720	1,774,526	30.6	1,624,074	91.5	120,123	6.8	30,329	1.7
DMSO 36hpf-3	60,245,391	18,498,582	4,543,617	24.6	4,067,982	89.5	392,972	8.6	82,663	1.8
TCDD 36hpf-1	10,467,422	5,663,848	1,547,597	27.3	1,394,241	90.1	125,150	8.1	28,206	1.8
TCDD 36hpf-2	11,098,349	4,707,922	945,175	20.1	856,991	90.7	66,672	7.1	21,512	2.3
TCDD 36hpf-3	6,115,523	2,877,262	583,910	20.3	523,013	89.6	47,019	8.1	13,878	2.4
DMSO 60hpf-1	16,678,613	9,805,841	4,870,267	49.7	4,493,580	92.3	320,732	6.6	55,955	1.1
DMSO 60hpf-2	12,582,035	6,644,382	3,078,161	46.3	2,829,596	91.9	211,001	6.9	37,564	1.2
DMSO 60hpf-3	14,142,261	8,489,655	4,323,169	50.9	3,991,202	92.3	280,772	6.5	51,195	1.2
TCDD 60hpf-1	19,450,897	8,833,248	4,308,553	48.8	3,852,539	89.4	405,765	9.4	50,249	1.2
TCDD 60hpf-2	11,637,590	6,094,678	2,684,617	44.0	2,401,231	89.4	252,139	9.4	31,247	1.2
TCDD 60hpf-3	28,775,825	15,768,488	5,545,552	35.2	4,911,952	88.6	553,578	10.0	80,022	1.4