Polymorphism Discovery
| % of total number of candidate SNPs | ||
| Number of overlaps looked at | 460 | |
| Size of overlaps (bp) | 15,241,466 | |
| Number of candidates detected: | 12,267 | |
| Number of single bp substitutions | 10,051 | 81.94% |
| Number of single bp insertions/deletions | 1,334 | 10.87% |
| Number of insertions/deletions >1 bp | 846 | 6.90% |
| Number of single bp sub/indel[ii] | 19 | 0.15% |
| Number of sub/indel >1 bp[iii] | 17 | 0.14% |
[i] Categories of potential variations found in the overlap sequences. Some variations involving adjacent nucleotides are complex and it is difficult to say which nucleotide has been inserted, deleted, or substituted. Therefore, we grouped some variants together as shown.
[ii] These are situations where the variation involves 2 bp in one sequence and 1 bp in another—one nucleotide appears to be substituted and the other inserted/deleted, for example, CAT–CTCT.
[iii] These are situations where the variation involves >2 bp in one sequence and a different number of base pairs in the other—the different nucleotides appear to be either substituted or inserted/deleted, for example, CATGTGT–CCCT.