Table 2

Annotation of distinct Solexa tags against reference sequences ofB. rapa andB. oleracea, respectively
Ste Fer
Reference sequences B.oleracea B.rapa B.oleracea B.rapa
    Clean distinct tag 242163 242163 253507 253507
Perfect match(Sense)
    1 tag->1 gene 67633 27.93% 60153 24.84% 72088 28.44% 64735 25.54%
    1 tag->n gene 9238 3.81% 7449 3.08% 9908 3.91% 7975 3.15%
1 bp Mismatch(Sense)
    1 tag->1 gene 58766 24.27% 55215 22.80% 58677 23.15% 55444 21.87%
    1 tag->n gene 18495 7.64% 16709 6.90% 17955 7.08% 16434 6.48%
Perfect match(Antisense)
    1 tag->1 gene 4560 1.88% 4714 1.95% 4400 1.74% 4581 1.81%
    1 tag->n gene 935 0.39% 809 0.33% 839 0.33% 728 0.29%
1 bp Mismatch(Antisense)
1 tag->1 gene 1770 0.73% 2395 0.99% 1809 0.71% 2530 1.00%
1 tag->n gene 342 0.14% 323 0.13% 368 0.15% 290 0.11%
Mapping to genome
Perfect match
    1 tag->1 position 9375 3.87% 10515 4.34% 9904 3.91% 11025 4.35%
    1 tag->n position 933 0.39% 512 0.21% 1045 0.41% 582 0.23%
1 bp Mismatch
    1 tag->1 position 10448 4.31% 13951 5.76% 11326 4.47% 14545 5.74%
    1 tag->n position 2140 0.88% 1560 0.64% 2327 0.92% 1817 0.72%
    Reference genes 45758 41174 45758 41174
    Unambiguously matched genes 23909 52.25% 23206 56.36% 25495 55.72% 24819 60.28%
    Unknown distinct tag 57528 23.76% 67858 28.02% 62861 24.80% 72821 28.73%

Yan et al.

Yan et al. BMC Genomics 2013 14:26   doi:10.1186/1471-2164-14-26

Open Data