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Human vs Tarsier BlastZ alignments

Human (Homo sapiens, GRCh37) and Tarsier (Tarsius syrichta, tarSyr1) 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.

Configuration parameters

ParameterValue
Gap open penalty (O)
Gap extend penalty (E)
HSP threshold (K)
Threshold for gapped extension (L)
Threshold for alignments between gapped alignment blocks (H)
Masking count (M)
Seed and Transition value (T)
Scoring matrix (Q)
Default:
     A    C    G    T
    91 -114  -31 -123
  -114  100 -125  -31
   -31 -125  100 -114
  -123  -31 -114   91

Results

Number of alignment blocks: 2,132,806

Genome coverage (bp) Coding exon coverage (bp)
Homo sapiens

Uncovered: 1,735,063,949 out of 3,098,825,702
Covered: 1,363,761,753 out of 3,098,825,702

Uncovered: 7,650,248 out of 35,313,516
Matches: 23,831,154 out of 35,313,516
Mismatches: 3,578,867 out of 35,313,516
Insertions: 253,247 out of 35,313,516

Tarsius syrichta

Uncovered: 1,921,114,692 out of 3,187,366,136
Covered: 1,266,251,444 out of 3,187,366,136

Uncovered: 3,366,566 out of 22,196,119
Matches: 17,044,426 out of 22,196,119
Mismatches: 1,756,456 out of 22,196,119
Insertions: 28,671 out of 22,196,119