Schizosaccharomyces octosporus vs Schizosaccharomyces cryophilus LastZ Results

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Schizosaccharomyces octosporus (Schizosaccharomyces octosporus yFS286, GCA_000150505.2) and Schizosaccharomyces cryophilus (Schizosaccharomyces cryophilus OY26, GCA_000004155.2) were aligned using the LastZ alignment algorithm (LastZ) in Ensembl Fungi release 74. Schizosaccharomyces octosporus 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.

Results

Number of alignment blocks: 2,898

Genome coverage (bp) Coding exon coverage (bp)
Schizosaccharomyces octosporus yFS286

Uncovered: 1,135,216 out of 11,634,473
Covered: 10,499,257 out of 11,634,473

Uncovered: 22,868 out of 6,921,651
Matches: 5,574,152 out of 6,921,651
Mismatches: 1,292,984 out of 6,921,651
Insertions: 31,647 out of 6,921,651

Schizosaccharomyces cryophilus OY26

Uncovered: 1,305,161 out of 11,554,764
Covered: 10,249,603 out of 11,554,764

Uncovered: 193,984 out of 7,004,290
Matches: 5,508,898 out of 7,004,290
Mismatches: 1,272,241 out of 7,004,290
Insertions: 29,167 out of 7,004,290

Configuration parameters

ParameterValue
Gap open penalty (O)400
Gap extend penalty (E)30
HSP threshold (K)
Threshold for gapped extension (L)3000
Threshold for alignments between gapped alignment blocks (H)2200
Masking count (M)
Seed and Transition value (T)1
Scoring matrix (Q)
Default:
     A    C    G    T
    91 -114  -31 -123
  -114  100 -125  -31
   -31 -125  100 -114
  -123  -31 -114   91
Other parameters (other)--ambiguous=iupac

Chunking parameters

Schizosaccharomyces octosporus Schizosaccharomyces cryophilus
Chunk size 10,000,000 10,000,000
Overlap 0 0
Group set size 0 0
Masking options {default_soft_masking => 1} {default_soft_masking => 1}