Table 4

Alignment statistics of 454 unigene transcriptome catalogs and VvGI 6.0 TCs with an oligo

NN

N

TC

Sequences with oligonucleotide probe designed

17,843

29,393

32,771

Gene loci matches

- Within exons

10,798

14,176

15,552

- Within introns

808

939

775

- 500 bp downstream

373

359

82

VvGI 6.0 matched by sequences mapping to unannotated genome regions

2,159

2,663

2,989

Putative new genes (sequences mapping to unannotated genome only)

1,468

3,709

-

Total number of grape transcripts identified

15,606

21,846

19,398

454 unigene transcriptome catalogs with a designed oligo and VvGI 6.0 TCs with an oligo were aligned to known gene loci, unannotated genomic regions and ESTs. Number of gene loci, ESTs and putative novel genes, identified by all sequences mapping to grape genome in the three different libraries considered (non-normalized (NN), normalized (N), and TCs comprised in VvGI) are given.

Bellin et al. BMC Genomics 2009 10:555   doi:10.1186/1471-2164-10-555