BMC Ecology and Evolution

Table 1 Assembly metrics and transcriptome annotation of the RNA-seq data generated

From: Origin and diversification of the plasminogen activation system among chordates

Raw assembly metrics
Feature	Protopterus sp	Rhinella marina	Trachemys scripta
Trinity genes	1,241,097	289,963	972,365
Trinity transcripts	1,423,377	256,160	850,085
N50	362 bp	513 bp	559 bp
Mapped reads	^a65% proper	^a70% proper	^a65% proper
Mapped reads	^b12% single	^b10% single	^b15% single
^cCompleteness	83%	54%	81%
^dAfter filtering
Feature	Protopterus sp	Rhinella marina	Trachemys scripta
Trinity genes	395,129	110,639	464,338
Trinity transcripts	458,605	125,853	540,638
N50	794 bp	859 bp	745 bp
^cCompleteness	82%	54%	80%
Predicted peptides	143,312	50,831	133,635
SwissProt	69,155	36,468	77,940
Uniref90	82,471	38,551	84,921
Pfam	55,446	27,460	55,196
SignalP	6449	2887	6686
TMHMM	16,366	6441	14,712
EggNOG	35,778	16,017	38,348
GO	97,438	34,074	70,948

^aBoth read pairs mapped to the same transcript
^bOne of the reads from the pair mapped to a different transcript
^cCompleteness by BUSCO analysis [98] against a set of core vertebrate conserved genes
^dFiltering performed by transcript length and expression level (see Methods)

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ISSN: 2730-7182

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