Table 3.

Summary of de novo assembly of the unassembled expressed short reads from reference assembly of channel catfish and blue catfish

Catfish species	No. of reads used for assembly	No. of reads assembled	% sequences assembled	No. of contigs	Average contig length (bp)	Average contig size*	Average coverage#
Channel	66.2 × 106	46.8 × 106	70.7%	420,165	298	111	19.7
Blue	90.8 × 106	64.3 × 106	70.8%	420,953	315	153	26.4

All the newly generated expressed short reads were first assembled using reference assembly (Table 2), and those that were not assembled, i.e., they did not align in silico to the existing catfish ESTs, were used for the de novo assembly. *Number of reads per contig. ^#Total number of assembled read bases/Total number of bases in consensus sequence.