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%) | |||