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Table 1 Descriptive statistics of quality filtered reads and the subsequent assembly/annotation of 7 heart transcriptomes

From: Comparative transcriptomics of elasmobranchs and teleosts highlight important processes in adaptive immunity and regional endothermy

Species Filtered sequence reads Trinity transcripts n50 ORFs Annotated ORFs Swiss-Prot Proteins MCL Clusters Complete coverage of CEGs Total Coverage of CEGs
White shark 23,288,212 174,288 2,294 46,825 34,986 11,705 7,021 95.2% 98.0%
Great hammerhead 22,977,042 179,367 2,649 49,992 37,700 10,991 6,535 96.4% 98.4%
Mako 10,802,234 101,534 779 30,354 22,491 11,135 6,980 80.2% 90.7%
Ray 12,921,908 104,957 2,004 31,672 23,265 10,651 6,437 98.0% 99.2%
Swordfish 16,524,630 144,990 2,778 63,771 50,494 11,717 6,788 98.0% 100%
Surgeonfish 8,983,274 81,222 2,864 42,302 34,302 9,530 5,999 91.1% 94.4%
Hogfish 7,665,032 64,264 2,168 28,403 24,077 10,412 6,184 87.9% 94.0%
  1. Trinity transcripts refer to the initial number of transcripts in the Trinity assembly, which were then filtered for those containing the longest open reading frames. The translation of these transcripts was then annotated with BLASTP against the Swiss-Prot database and the number of hits to unique Swiss-Prot entries was recorded; if more than one transcript matched the same Swiss-Prot entry then the longest and most significant match was retained. A CEGMA analysis was conducted to evaluate the coverage of Core Eukaryotic Genes with complete coverage representing the proportion of CEGs with “complete” matches and the total coverage representing the percentage of CEGs that had complete or partial matches in the transcriptome