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Table 2 Quantitative metrics for the human tissue-specific assemblies computed by TransRate

From: Exploiting orthology and de novo transcriptome assembly to refine target sequence information

 

brain

liver

kidney

# contigs

165,810

88,083

128,530

max. Contig length [bp]

30,531

27,458

23,822

mean contig length [bp]

1367.92

1383.32

1355.58

# contigs with ORF

42,581

29,226

37,009

coverage of contigs with ORF [%]

39.8

45.9

43.6

  1. The number of contigs, the number of base pairs in the longest contig, the mean contig length and the number of ambiguous bases (# N bases) provide information on the basic characteristics of the assembly. The number of contigs containing an open reading frame (# contigs with ORF) and the mean percentage of the contig being covered by the ORF (coverage of contigs with ORF [%]) help to assess the protein-coding potential of the assembled contigs