Improving transcriptome construction in non-model organisms: integrating manual and automated gene definition in Emiliania huxleyi

Table 1 Read counts

Sample	Total reads (cleaned*)	Reads aligned to Emihu1plus**	Reads mapped to transcripts
2BE	79,031,642	51,787,959 (66%)	65,282,968 (83%)
4BE	70,232,202	44,631,230 (64%)	57,466,155 (82%)
6BE	71,097,330	44,755,528 (63%)	57,685,982 (81%)
8BE	84,292,692	50,341,359 (60%)	64,839,232 (77%)
10BE	30,393,401	3,559,270 (12%)	6,042,025 (20%)
12BE	74,680,032	44,832,848 (60%)	58,182,177 (78%)

*After removing adaptors and trimming to 90 bp (removed 15million reads in 10BE and up to 5 million in the other samples) **Each sequence was counted once even if several reads have the same sequence, each sequence aligned to the genome ~2-2.5 times in average (for 10BE, 4 times). Percentage of cleaned reads in parentheses.

ISSN: 1471-2164