Table 3.
Quantification of different sources contributing to redundancy between unigenes; unigenes where mapped against 14 cDNA reference sequences of P. sativum: orthologs of the ten most frequent AGIs (Table 2), five known single copy genes from P. sativum, and four genes encoding Mendelian traits; the original alignments can be viewed by loading additional files 4 and 5 into an alignment viewer such as tablet [45].
| gene name | corresponding pea cDNA | length in bases | # reads mapped | identical positions | percentage | putative SNP positions | percentage | putative sequencing error positions | percentage |
|---|---|---|---|---|---|---|---|---|---|
| LHCb1 | gi|56809378 | 801 | 56517 | 9 | 1.1 | 131 | 16.4 | 779 | 97.3 |
| LHCb2 | gi|56809380 | 798 | 15370 | 28 | 3.5 | 9 | 1.1 | 768 | 96.2 |
| CCBP | gi|141448063 | 922 | 10616 | 609 | 66.1 | 18 | 2.0 | 296 | 32.1 |
| Ran1 | gi|123192430 | 666 | 6488 | 363 | 54.5 | 8 | 1.2 | 300 | 45.0 |
| RuBP | gi|169152 | 674 | 651 | 182 | 27.0 | 68 | 10.1 | 475 | 70.5 |
| ApxI | gi|169042 | 3625 | 32 | 1367 | 37.7 | 8 | 0.2 | 99 | 2.7 |
| ek-oxidase | gi|37954113 | 1797 | 1474 | 1749 | 97.3 | 20 | 1.1 | 25 | 1.4 |
| Fed-1 | gi|169086 | 1995 | 35 | 1360 | 68.2 | 1 | 0.1 | 87 | 4.4 |
| HMG1 | gi|436423 | 807 | 6 | 670 | 83.0 | 5 | 0.6 | 124 | 15.4 |
| plastocyanin | gi|20845 | 1505 | 107 | 1050 | 69.8 | 2 | 0.1 | 453 | 30.1 |
| G3bh | gi|2316017 | 4248 | 3 | 3577 | 84.2 | 0 | -- | 1 | 0.0 |
| bHLH | gi|308084332 | 11892 | 0 | 0 | -- | nd | nd | nd | nd |
| SBEII | gi|510546 | 2919 | 14 | 2186 | 74.9 | 20 | 0.7 | 18 | 0.6 |
| SGR | gi|156713218 | 792 | 1 | 787 | 99.4 | 4 | 0.5 | 1 | 0.1 |