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Ashbya gossypii vs Fusarium solani LastZ results

Ashbya gossypii (Ashbya gossypii ATCC 10895, ASM9102v1) and Fusarium solani (Fusarium solani mpVI 77-13-4, v2.0) were aligned using the LastZ alignment algorithm (LastZ) in Ensembl Fungi release 110. Ashbya gossypii 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

ParameterAshbya gossypiiFusarium solani
Chunk size10,000,00010,100,000
Overlap0100,000
Group set size10,100,00010,100,000
Masking options

Statistics over 2,597 alignment blocks

Genome coverage (bp) Coding exon coverage (bp)
Ashbya gossypii

Uncovered: 8,220,360 out of 9,119,312
Covered: 898,952 out of 9,119,312

Uncovered: 6,127,084 out of 7,019,450
Matches: 545,384 out of 7,019,450
Mismatches: 319,455 out of 7,019,450
Insertions: 27,527 out of 7,019,450
Identity over aligned base-pairs: 61.1%

Fusarium solani

Uncovered: 49,991,612 out of 51,291,997
Covered: 1,300,385 out of 51,291,997

Uncovered: 21,404,449 out of 22,633,081
Matches: 735,889 out of 22,633,081
Mismatches: 441,973 out of 22,633,081
Insertions: 50,770 out of 22,633,081
Identity over aligned base-pairs: 59.9%

Block size distribution

Size range All 2,597 alignment blocks Blocks grouped in nets
# blocks Total size (incl. gaps) # nets Total size (incl. gaps)
1 bp - 10 bp
4
21.0 bp
10 bp - 100 bp
325
22.6 kb
94
6.9 kb
100 bp - 1 kb
1,890
782.9 kb
873
477.1 kb
1 kb - 10 kb
378
578.8 kb
511
900.3 kb