Human (Homo sapiens, GRCh37) and Giant Panda (Ailuropoda melanoleuca, ailMel1) were aligned using the LastZ alignment algorithm (LastZ) in Ensembl release 60. Human was used as the reference species. After running LastZ , the raw LastZ 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) | 3000 |
Threshold for gapped extension (L) | 3000 |
Threshold for alignments between gapped alignment blocks (H) | 2200 |
Masking count (M) | 50 |
Seed and Transition value (T) | 1 |
Scoring matrix (Q) | Default |
Number of alignment blocks: 2018327
Genome coverage(bp) | Coding exon coverage (bp) | |
---|---|---|
Human | ![]() |
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1,584,612,089 out of 3,098,825,702 | 34,296,680 out of 35,483,623 | |
Giant Panda | ![]() |
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1,497,681,881 out of 2,299,492,210 | 30,151,759 out of 31,119,599 |