Schizosaccharomyces octosporus vs Schizosaccharomyces pombe LastZ Results

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Schizosaccharomyces octosporus (Schizosaccharomyces octosporus yFS286, GCA_000150505.2) and Schizosaccharomyces pombe (Schizosaccharomyces pombe 972h-, ASM294v2) 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: 7,013

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

Uncovered: 3,918,710 out of 11,634,473
Covered: 7,715,763 out of 11,634,473

Uncovered: 612,869 out of 6,921,651
Matches: 4,200,083 out of 6,921,651
Mismatches: 1,976,551 out of 6,921,651
Insertions: 132,148 out of 6,921,651

Schizosaccharomyces pombe 972h-

Uncovered: 4,949,617 out of 12,631,379
Covered: 7,681,762 out of 12,631,379

Uncovered: 921,854 out of 7,176,910
Matches: 4,157,231 out of 7,176,910
Mismatches: 1,954,325 out of 7,176,910
Insertions: 143,500 out of 7,176,910

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 pombe
Chunk size 10,000,000 10,100,000
Overlap 0 100,000
Group set size 0 10,100,000
Masking options {default_soft_masking => 1} {default_soft_masking => 1}