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Fusarium solani vs Schizosaccharomyces cryophilus LastZ results

Fusarium solani (Fusarium solani mpVI 77-13-4, v2.0) and Schizosaccharomyces cryophilus (Schizosaccharomyces cryophilus OY26, GCA_000004155.2) 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 cryophilus
Chunk size10,000,00010,100,000
Overlap0100,000
Group set size10,100,00010,100,000
Masking options

Statistics over 5,374 alignment blocks

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

Uncovered: 48,832,809 out of 51,291,997
Covered: 2,459,188 out of 51,291,997

Uncovered: 20,344,286 out of 22,633,081
Matches: 1,347,112 out of 22,633,081
Mismatches: 856,220 out of 22,633,081
Insertions: 85,463 out of 22,633,081
Identity over aligned base-pairs: 58.9%

Schizosaccharomyces cryophilus

Uncovered: 9,470,095 out of 11,554,764
Covered: 2,084,669 out of 11,554,764

Uncovered: 4,981,449 out of 7,004,290
Matches: 1,218,604 out of 7,004,290
Mismatches: 759,311 out of 7,004,290
Insertions: 44,926 out of 7,004,290
Identity over aligned base-pairs: 60.2%

Block size distribution

Size range All 5,374 alignment blocks Blocks grouped in nets
# blocks Total size (incl. gaps) # nets Total size (incl. gaps)
1 bp - 10 bp
8
54.0 bp
10 bp - 100 bp
644
44.0 kb
122
8.8 kb
100 bp - 1 kb
3,978
1.6 Mb
1,631
894.2 kb
1 kb - 10 kb
744
1.1 Mb
1,090
1.9 Mb