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Fusarium solani vs Schizosaccharomyces octosporus LastZ results

Fusarium solani (Fusarium solani mpVI 77-13-4, v2.0) and Schizosaccharomyces octosporus (Schizosaccharomyces octosporus yFS286, GCA_000150505.2) were aligned using the LastZ alignment algorithm (LastZ) in Ensembl Fungi release 110. Fusarium solani 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

ParameterFusarium solaniSchizosaccharomyces octosporus
Chunk size10,000,00010,100,000
Overlap0100,000
Group set size10,100,00010,100,000
Masking options

Statistics over 5,289 alignment blocks

Genome coverage (bp) Coding exon coverage (bp)
Fusarium solani

Uncovered: 48,864,647 out of 51,291,997
Covered: 2,427,350 out of 51,291,997

Uncovered: 20,348,262 out of 22,633,081
Matches: 1,344,134 out of 22,633,081
Mismatches: 852,215 out of 22,633,081
Insertions: 88,470 out of 22,633,081
Identity over aligned base-pairs: 58.8%

Schizosaccharomyces octosporus

Uncovered: 9,587,690 out of 11,634,473
Covered: 2,046,783 out of 11,634,473

Uncovered: 4,918,281 out of 6,921,651
Matches: 1,208,120 out of 6,921,651
Mismatches: 750,763 out of 6,921,651
Insertions: 44,487 out of 6,921,651
Identity over aligned base-pairs: 60.3%

Block size distribution

Size range All 5,289 alignment blocks Blocks grouped in nets
# blocks Total size (incl. gaps) # nets Total size (incl. gaps)
1 bp - 10 bp
11
64.0 bp
10 bp - 100 bp
677
47.5 kb
119
9.1 kb
100 bp - 1 kb
3,844
1.5 Mb
1,613
859.6 kb
1 kb - 10 kb
757
1.2 Mb
1,074
1.9 Mb