Human (Homo sapiens, GRCh37) and Orangutan (Pongo pygmaeus, PPYG2) were aligned using the BlastZ alignment algorithm (Schwartz S et al., Genome Res.;13(1):103-7, Kent WJ et al., Proc Natl Acad Sci U S A., 2003;100(20):11484-9) in Ensembl release 55. Human was used as the reference species. After running BlastZ , the raw BlastZ alignment blocks are chained according to their location in both genomes. During the final netting process, the best sub-chain is chosen in each region on the reference species.
Full list of pairwise alignmentsGap open penalty (O) | 400 |
Gap extend penalty (E) | 30 |
HSP threshold (K) | 5000 |
Threshold for gapped extension (L) | 5000 |
Threshold for alignments between gapped alignment blocks (H) | 3000 |
Masking count (M) | 10 |
Seed and Transition value (T) | 1 |
Scoring matrix (Q) | Default |
Number of alignment blocks: 1336785
Genome coverage(bp) | Coding exon coverage (bp) | |
---|---|---|
Human | ![]() |
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2,020,467,968 out of 3,098,825,702 | 34,723,491 out of 35,483,623 | |
Orangutan | ![]() |
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1,956,980,453 out of 3,446,771,396 | 29,280,472 out of 29,861,178 |