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Table 2 Overview of sequencing, assembly and annotation

From: Dietary aquaculture by-product hydrolysates: impact on the transcriptomic response of the intestinal mucosa of European seabass (Dicentrarchus labrax) fed low fish meal diets

Metrix

Unfiltered

Filtered

Transcripts

625,845

56,246

 Genes

467,824

39,180

 GC%

44.28

44.13

 Median length (bp)

389

910

 Average length (bp)

922.7

1430.28

 Min (bp)

201

201

 Max (bp)

58,543

24,803

 Total number of bases

577,467,800

80,447,300

Annotation

 Blastx hits with uniprot

278,406

45,853

 Blastx hits with uniref90

377,852

46,552

 Blastp hits with uniprot

227,499

41,578

 Blastp hits with uniref90

280,111

42,257

 Proteins with signal peptides

20,540

2226

 Proteins with transmembrane helices

28,482

5034

 Proteins with PFAM domains

216,290

32,907

 Proteins with GO terms

71,304

45,454

 Proteins with KEGG

181,895

41,993

  1. Transcript filter: < 1 FPKM, isoform < 1%