EnsemblEnsembl Home

Human vs Megabat BlastZ alignments

Human (Homo sapiens, GRCh37) and Megabat (Pteropus vampyrus, pteVam1) 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: 1,692,302

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

Uncovered: 1,729,303,120 out of 3,098,825,702
Covered: 1,369,522,582 out of 3,098,825,702

Uncovered: 2,551,685 out of 35,313,516
Matches: 28,237,537 out of 35,313,516
Mismatches: 4,215,930 out of 35,313,516
Insertions: 308,364 out of 35,313,516

Pteropus vampyrus

Uncovered: 729,609,689 out of 1,999,614,463
Covered: 1,270,004,774 out of 1,999,614,463

Uncovered: 1,924,293 out of 28,943,432
Matches: 23,919,361 out of 28,943,432
Mismatches: 3,039,948 out of 28,943,432
Insertions: 59,830 out of 28,943,432