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Table 2 Statistics for the gene libraries shown in Table 1

From: EuroPineDB: a high-coverage web database for maritime pine transcriptome

Gene library Raw Curated Mean
lengtha
Singletons Contigs UniGenes
(% annotated)
Discarded nt (%) by
        QV Vector Artefacts b
Pp-454 913 786 844 737 227 471 54 960 55 431 (59.5%) 52.5% NA 3.03%
LG0BCA 8766 8766 608 3834 1363 5197 (68.2%) NA NA 0.24%
GEMINI 13 057 7916 458 3066 1124 4190 (49.9%) 9.4% 10.4% 2.9%
SSH Xylem 992 790 474 385 142 527 (49.5%) 5.35% 31.8% 2.5%
UPM 2806 1115 465 258 157 415 (31.8%) 3.2% 15.9% 21.04%
ARG 218 148 394 127 7 134 (47.8%) 22.5% 5.1% 5.3%
SSH Lac-Pine 351 231 350 210 8 218 (34.4%) 18.5% 4.7% 2.64%
SSH Mic 294 194 314 149 13 162 (38.3%) 15.3% 13.4% 5.75%
CK16 358 282 575 221 24 245 (65.3%) NA 0.05% 6.6%
SSH Embryos 96 57 437 34 6 40 (57.5%) 1.7% 20.6% 8.8%
Pin 863 617 532 335 86 421 (68.9%) 10.2% 9% 2.9%
EMBL v. 102 13 206 12 673 502 3704 1963 5667 (NA) NA 0.1% 0.58%
TOTAL 954 793 880 295        
   P. pinaster 951 641 877 523 597 684 54 648 55 332 (59.5%)    
   P. sylvestris 2770 2466 730 476 203 679 (65.9%)    
   P. pinea 382 306 574 239 27 266 (63.2%)    
  1. QV, quality value. NA, not applicable.
  2. a Mean lengths are calculated with gene library reads. Nevertheless, they are calculated for contigs in the last three rows corresponding to the three species.
  3. b Artefacts include poly-A, poly-T, adaptors, contaminant sequences, and chimerical inserts.