Table 4.
Flanking sequences analysis of the small INDELs in six randomly selected re-sequenced lines.
| Line | Chromosome | Loci | INDEL size (bp) | Sequence |
|---|---|---|---|---|
| C7 | 1 | 16803045 | +1 | AAAAATAATTAAAAAACGAAA |
| C7 | 1 | 17871566 | +1 | GATGAGTCTCTTTGACAATGA |
| C7 | 2 | 2330971 | +1 | CTAATCTCTGTTTTTTTTTTT |
| C7 | 3 | 14218519 | +1 | AAAAACCGATCAGAAGAATTC |
| C7 | 3 | 10963641 | +1 | AACATGTGGCAAAAATAAATT |
| C7 | 5 | 15938548 | +1 | TAAAGTTAGATTTTTTATTTT |
| C116 | 4 | 16566783 | +1 | TTTTTTTTTCTTTTTTTTTTT |
| C352 | 4 | 12840961 | +1 | TTTAAAAAAACTATTCACAAT |
| C357 | 3 | 16396219 | +1 | CAAACTTTCTAAAAACTCAGC |
| C7 | 1 | 2500882 | −1 | AAACCTAATAGGAAAAGGGAC |
| C7 | 1 | 7060076 | −1 | TGCGGCCTTGCGGGAGCAATC |
| C7 | 1 | 23165210 | −1 | ATCAATGGCTAAAAAACCATC |
| C7 | 1 | 30364445 | −1 | AATGCAAGAGAAAGCATTTCA |
| C7 | 2 | 3736597 | −1 | GTGTATGACCTTTATATTTTT |
| C7 | 2 | 16776720 | −1 | ATCCATAACATTTTTTTTTTG |
| C7 | 3 | 12880551 | −1 | AGAATGCTCATTTATCTCATT |
| C7 | 3 | 15247466 | −1 | AAATCATACGACGAACACTAC |
| C7 | 4 | 13256395 | −1 | TGCTCTTGCCAAGGTTAGTTC |
| C7 | 5 | 10287067 | −1 | CCAAGATCCGAACCTAGAAAT |
| C7 | 5 | 15120725 | −1 | AATAGATTTCTTTTATCGAAA |
| C7 | 5 | 15424664 | −1 | TGTTTTTTTGTGTGTTTTCTT |
| C116 | 1 | 6787418 | −1 | CAAGAGCGTCCACGACGAGTT |
| C116 | 1 | 899668 | −1 | TGGAGCTGCTTCATAAGTTC |
| C116 | 2 | 14954774 | −1 | AAGCGAAACTTTTATTGCTA |
| C116 | 3 | 3201387 | −1 | AGCGGTTATATACATCATAA |
| C116 | 5 | 14227661 | −1 | TTTTTTTTTCTTTTTTTTTAA |
| C116 | 5 | 11032451 | −1 | CAATTACAGGAATGTCGATTT |
| C197 | 2 | 9064276 | −1 | GAGAACCAATCAAGCCCTAAG |
| C197 | 2 | 17412340 | −1 | GGAAAGTAATAAGAGCGTTTT |
| C197 | 3 | 15116009 | −1 | TAGATAAGTAGGTTTTTGCGC |
| C197 | 4 | 11372899 | −1 | AAGAAAATTGAATAGAAAAAA |
| C352 | 2 | 13175805 | −1 | GTTGCTGCAACCAATAGAGCA |
| C352 | 3 | 20903968 | −1 | GCGCTTGGAATTTTTTTAATT |
| C352 | 3 | 22734373 | −1 | AGTGGTTAAAGGGTTCCAGCC |
| C352 | 4 | 5256307 | −1 | CTAAATTCAGAAAAAAAAACA |
| C357 | 1 | 24487663 | −1 | ATGTTACAGTAAAAAAAAAAA |
| C357 | 2 | 6789742 | −1 | ACTAAAGTTGTTGCTGCTGAT |
| C357 | 3 | 8430932 | −1 | ATTCTACTTGTCCTCTGAAAT |
| C357 | 5 | 3418139 | −1 | CACCTCTAACAAAAGTCTTAG |
| C357 | 5 | 7522732 | −1 | TGAGAATCTCTTTTTCTCATT |
| C357 | 5 | 14755177 | −1 | AAACAATTTCAAAGTCCAACC |
| C541 | 1 | 2611420 | −1 | CCACGTATATGGTAATCACAA |
| C541 | 3 | 5203766 | −1 | GAAAACTGGTGGGAGGTGATC |
| C541 | 5 | 17816447 | −1 | GACTTGAGAGTTTTAACAGAA |
| C7 | 3 | 4723240 | −2 | GTAGTCATTTTATATATATAGA |
| C7 | 4 | 1435510 | −2 | AAAACCCCAAATATAATACTAC |
| C116 | 3 | 4315154 | −2 | TTTATAACTCTGTGCAGTGCTA |
| C7 | 2 | 3072553 | −4 | AAACGCTCGGCGATGGTGATGATT |
| C7 | 3 | 5701019 | −5 | TATTAAAAAGCCAACTTGGTAAAAA |
| C7 | 2 | 8793345 | −5 | AGCCCATGGAATGCTAATGATTTTG |
| C116 | 3 | 16824813 | −5 | GGGTGTGAAAACTGGTCAGTTAATAG |
| C541 | 1 | 18202184 | −5 | TCCTCTCAGTTCTCATCTGTGGCAT |
| C7 | 4 | 10587368 | −6 | AGAATTAATCCACTCTTTTTCTTTTT |
| C7 | 1 | 22655118 | −6 | ACTCCGAAGCTGTAGATGTCTGATTT |
| C116 | 1 | 27885672 | −6 | CATTTTTATATCGTTTTGATGGTGAT |
| C197 | 1 | 10625807 | −6 | TCGGTTGATGAAGACAATGGTAACAT |
| C197 | 4 | 15198376 | −7 | TTTATCTCCAAGTTTTCCATCTTTCTC |
| C357 | 3 | 442084 | −7 | CTGAACCTGTGAACCAGGAACCCAGTC |
| C357 | 5 | 20249679 | −8 | ACTTTAAGTTACTTTCTCACCAAAAAAA |
| C197 | 2 | 11198490 | −9 | TTTACTTATGAATCCTGCTAATTGAATGAT |
| C357 | 1 | 10405785 | −9 | TACAGTACATAATAAGTAGATAAGTGTAA |
| C116 | 3 | 11700393 | −15 | CTGCCTTCCCCCATTTGCAGGACTTTCATTGTTATA |
| C116 | 1 | 29852923 | −18 | GGCCTAGGTAGATTAAGAGGCTTAAGCTGCTGTTGAAT |
Homopolymeric and polynucleotide stretches are underlined; the inserted or deleted base is in bold.