Table 2

Annotation results of P. borchgrevinki reference transcriptome
Database Contigs with hits/Total number of sequences Percentage with hits
Tiered screening1
 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 sequences2
 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.

Bilyk and Cheng

Bilyk and Cheng BMC Genomics 2013 14:634   doi:10.1186/1471-2164-14-634

Open Data