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Ashbya gossypii vs Fusarium verticillioides LastZ results

Ashbya gossypii (Ashbya gossypii ATCC 10895, ASM9102v1) and Fusarium verticillioides (Fusarium verticillioides 7600, ASM14955v1) 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 verticillioides
Chunk size10,000,00010,100,000
Overlap0100,000
Group set size10,100,00010,100,000
Masking options

Statistics over 2,262 alignment blocks

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

Uncovered: 8,268,566 out of 9,119,312
Covered: 850,746 out of 9,119,312

Uncovered: 6,175,798 out of 7,019,450
Matches: 513,709 out of 7,019,450
Mismatches: 304,889 out of 7,019,450
Insertions: 25,054 out of 7,019,450
Identity over aligned base-pairs: 60.9%

Fusarium verticillioides

Uncovered: 40,764,131 out of 41,885,085
Covered: 1,120,954 out of 41,885,085

Uncovered: 16,789,396 out of 17,841,847
Matches: 629,628 out of 17,841,847
Mismatches: 379,213 out of 17,841,847
Insertions: 43,610 out of 17,841,847
Identity over aligned base-pairs: 59.8%

Block size distribution

Size range All 2,262 alignment blocks Blocks grouped in nets
# blocks Total size (incl. gaps) # nets Total size (incl. gaps)
10 bp - 100 bp
268
19.4 kb
77
6.1 kb
100 bp - 1 kb
1,675
694.7 kb
777
418.9 kb
1 kb - 10 kb
319
489.0 kb
450
778.2 kb