Dissecting organ-specific transcriptomes through RNA-sequencing

Table 1 Results of Solexa/Illumina paired-end reads (75nt in length) assembled by Trinity

Sample	Number of raw reads	Number of contig entries	N50	Reads assembled	% Reads usage	Annotated (full+partial)*
Sample	Number of raw reads	Number of contig entries	N50	Reads assembled	% Reads usage	(1e-5)
A	19874108	50284	1454	17483903	88%	15707+22815
B	20599558	55164	1288	17812061	87%	14954+27058
C	19710038	52538	1221	17177667	87%	12816+26672
D	20406514	46799	1214	17847745	88%	11134+24364
E	23228336	48568	1336	20655630	89%	14143+22263
F	38954816	63811	1426	32331937	83%	18431+27754
Total		90451	1209			23474+39539

Each sample was handled with the default parameters in Trinity from cleaned raw data. The sample "Total" was obtained by combining all contigs of the six samples above and assembling them further via TGICL. The number for reads integrated into assemblies was calculated from the number of reads that are alignable to contigs at levels of more than 93% (>=70/75).
*Annotated in full are the contigs showing both ATG and STOP codons, while partial refers to the rest of the contigs. All comparisons were performed against the reference sequences at the e-value indicated.

ISSN: 1746-4811