Table 1.
1F | 2F | 1M | 2M | 1F_1M_2F_2M | |
---|---|---|---|---|---|
Number of raw reads | 332,607 | 312,282 | 255,962 | 270,871 | |
Number of reads after trimming | 280,092 | 252,024 | 205,781 | 224,275 | 837,163 |
Average read length after trimming | 264 | 253 | 269 | 270 | 263 |
Number of contigs | 7565 | 6923 | 5267 | 5171 | 16,832 |
Average contig length | 773 | 714 | 779 | 812 | 914 |
Range of contig length | [60.. 3489] | [52.. 3394] | [36.. 3384] | [15.. 3392] | [16.. 3848] |
Number of translated contigs | 7289 | 6600 | 5090 | 4981 | 16,152 |
Peptide sequences with BLASTx matches | 5723 | 5154 | 4083 | 3997 | 11,956 |
Peptide sequences translated by FrameDP | 2211 | 1907 | 1386 | 1398 | 6621 |
Peptide sequences translated by ESTScan | 108 | 117 | 116 | 114 | 297 |
Total of amino acid sequences | 8042 | 7178 | 5585 | 5509 | 18,874 |
Peptide sequences with BLASTP matches | 1294 | 1086 | 809 | 825 | 3372 |
Amino acid sequence assigned InterPro terms | 5940 | 5312 | 4251 | 4217 | 12,698 |
Amino acid sequence assigned to GO terms | 4536 | 4056 | 3272 | 3269 | 9459 |
Individual libraries were generated from four specific RNA pools, two for female flowers (1F and 2F) and two for male flowers (1M and 2M), covering either early (1F and 1M) or late (2F and 2M) stages of flower development. The four individually EST projects were assembled into the 1F_1M_2F_2M library. The libraries were assembled using 454 Newbler 2.6 (Roche) and annotated in a three-step process using BLASTx search, FrameDP and ESTScan using default parameters.