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Magnaporthe poae vs Schizosaccharomyces octosporus LastZ results

Magnaporthe poae (Magnaporthe poae ATCC 64411, Mag_poae_ATCC_64411_V1) and Schizosaccharomyces octosporus (Schizosaccharomyces octosporus yFS286, GCA_000150505.2) were aligned using the LastZ alignment algorithm (LastZ) in Ensembl Fungi release 110. Magnaporthe poae 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
Threshold for gapped extension (L)3000
Threshold for alignments between gapped alignment blocks (H)2200
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 poaeSchizosaccharomyces octosporus
Chunk size10,000,00010,100,000
Overlap0100,000
Group set size10,100,00010,100,000
Masking options

Statistics over 4,042 alignment blocks

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

Uncovered: 37,955,370 out of 39,503,331
Covered: 1,547,961 out of 39,503,331

Uncovered: 13,168,006 out of 14,559,232
Matches: 817,821 out of 14,559,232
Mismatches: 529,969 out of 14,559,232
Insertions: 43,436 out of 14,559,232
Identity over aligned base-pairs: 58.8%

Schizosaccharomyces octosporus

Uncovered: 10,036,478 out of 11,634,473
Covered: 1,597,995 out of 11,634,473

Uncovered: 5,371,641 out of 6,921,651
Matches: 915,971 out of 6,921,651
Mismatches: 606,762 out of 6,921,651
Insertions: 27,277 out of 6,921,651
Identity over aligned base-pairs: 59.1%

Block size distribution

Size range All 4,042 alignment blocks Blocks grouped in nets
# blocks Total size (incl. gaps) # nets Total size (incl. gaps)
1 bp - 10 bp
6
37.0 bp
10 bp - 100 bp
568
40.3 kb
86
6.7 kb
100 bp - 1 kb
3,069
1.1 Mb
1,192
592.9 kb
1 kb - 10 kb
399
629.6 kb
677
1.2 Mb