Combined de novo and genome guided assembly and annotation of the Pinus patula juvenile shoot transcriptome

BMC Genomics

Table 3 Conditional reciprocal best BLAST (CRBB) comparisons^a of assembled Pinus patula transcripts to available Pinus taeda gene models and transcripts

Query	P. taeda gene models	P. taeda v1.0	P. patula v1.0
Reference	P. taeda gene models (n = 48 391)
Hits at 85 % coverage	99.7 %	6.6 %	8.3 %
Hits at 95 % coverage	99.7 %	3.7 %	4.2 %
Contigs with CRBB	48 363	29 052	28 491
% Contigs with CRBB	99.9 %	34.9 %	54.7 %
References with CRBB	48 269	12 339	15 958
% Reference CRBB	99.7 %	25.5 %	33.0 %
Reciprocal Best Hit Ratio	1.00	2.35	1.79
Reference	P. patula proteins (n = 87)
Hits at 85 % coverage	5.8 %	39.1 %	43.7 %
Hits at 95 % coverage	2.3 %	34.5 %	40.2 %
Contigs with CRBB	73	80	71
% Contigs with CRBB	0.2 %	0.1 %	0.1 %
References with CRBB	40	37	43
% Reference CRBB	46.0 %	42.5 %	49.4 %
Reciprocal Best Hit Ratio	1.83	2.16	1.65

^aCRBB alignments for query sequences were generated against the available high confidence P. taeda gene models and the available P. patula protein sequences

ISSN: 1471-2164