Model of gene expression in extreme cold - reference transcriptome for the high-Antarctic cryopelagic notothenioid fish Pagothenia borchgrevinki

Table 2 Annotation results of P. borchgrevinki reference transcriptome

Database	Contigs with hits/Total number of sequences	Percentage with hits
Tiered screening ¹
SwissProt (BLASTx)	14,889 / 39,758	37.4%
UniProtKB/TrEMBL (BLASTx)	3,062 / 24,869	12.3%
NCBI’s NR (BLASTx)	294 / 21,513	1.3%
NCBI’s NT (BLASTn)	5,615 / 21,219	26.4%
Screening all sequences ²
SwissProt (BLASTx)	14,889 / 39,758	37.4%
UniProtKB/TrEMBL (BLASTx)	17,951 / 39,758	45.1%
NCBI’s NR (BLASTx)	17,877 / 39,758	44.9%
NCBI’s NT (BLASTn)	21,898 / 39,758	55%

Breakdown of the number of contigs with BLAST hits at an e-value of 10^–9 or lower in each of the screened databases. ¹The first screening report shows the number of contigs with hits in each database out of those not previously identified. Tiered screening of databases was run in the order of most detailed annotations to least. ²The second screening report shows the number of contigs with hits in each database out of the total number of contigs in the reference transcriptome after clustering.

ISSN: 1471-2164