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Magnaporthe oryzae vs Schizosaccharomyces cryophilus LastZ results

Magnaporthe oryzae (Magnaporthe oryzae 70-15, MG8) and Schizosaccharomyces cryophilus (Schizosaccharomyces cryophilus OY26, GCA_000004155.2) were aligned using the LastZ alignment algorithm (LastZ) in Ensembl Fungi release 110. Magnaporthe oryzae was used as the reference species. After running LastZ, the raw LastZ alignment blocks were chained according to their location in both genomes. During the final netting process, the best sub-chain was chosen in each region on the reference species.

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

Chunking parameters

ParameterMagnaporthe oryzaeSchizosaccharomyces cryophilus
Chunk size10,000,00010,100,000
Overlap0100,000
Group set size10,100,00010,100,000
Masking options

Statistics over 5,092 alignment blocks

Genome coverage (bp) Coding exon coverage (bp)
Magnaporthe oryzae

Uncovered: 38,951,114 out of 41,027,733
Covered: 2,076,619 out of 41,027,733

Uncovered: 14,967,753 out of 16,744,523
Matches: 1,049,516 out of 16,744,523
Mismatches: 664,692 out of 16,744,523
Insertions: 62,562 out of 16,744,523
Identity over aligned base-pairs: 59.1%

Schizosaccharomyces cryophilus

Uncovered: 9,681,308 out of 11,554,764
Covered: 1,873,456 out of 11,554,764

Uncovered: 5,179,728 out of 7,004,290
Matches: 1,100,376 out of 7,004,290
Mismatches: 687,650 out of 7,004,290
Insertions: 36,536 out of 7,004,290
Identity over aligned base-pairs: 60.3%

Block size distribution

Size range All 5,092 alignment blocks Blocks grouped in nets
# blocks Total size (incl. gaps) # nets Total size (incl. gaps)
1 bp - 10 bp
16
100.0 bp
10 bp - 100 bp
683
44.0 kb
77
5.9 kb
100 bp - 1 kb
3,854
1.5 Mb
1,561
843.4 kb
1 kb - 10 kb
539
835.6 kb
858
1.5 Mb