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Saccharomyces cerevisiae vs Ashbya gossypii LastZ Results

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Saccharomyces cerevisiae (Saccharomyces cerevisiae S288c, R64-1-1) and Ashbya gossypii (Ashbya gossypii ATCC 10895, ASM9102v1) were aligned using the LastZ alignment algorithm (LastZ) in Ensembl Fungi release 77. Saccharomyces cerevisiae was used as the reference species. After running LastZ, the raw LastZ alignment blocks are chained according to their location in both genomes. During the final netting process, the best sub-chain is chosen in each region on the reference species.

Results

Number of alignment blocks: 6,357

Genome coverage (bp) Coding exon coverage (bp)
Saccharomyces cerevisiae S288c

Uncovered: 7,581,686 out of 12,157,105
Covered: 4,575,419 out of 12,157,105

Uncovered: 4,384,551 out of 8,832,031
Matches: 2,731,279 out of 8,832,031
Mismatches: 1,569,239 out of 8,832,031
Insertions: 146,962 out of 8,832,031

Ashbya gossypii ATCC 10895

Uncovered: 4,573,811 out of 9,119,312
Covered: 4,545,501 out of 9,119,312

Uncovered: 2,594,633 out of 7,019,450
Matches: 2,752,064 out of 7,019,450
Mismatches: 1,581,747 out of 7,019,450
Insertions: 91,006 out of 7,019,450

Configuration parameters

ParameterValue
Gap open penalty (O)
Gap extend penalty (E)
HSP threshold (K)
Threshold for gapped extension (L)
Threshold for alignments between gapped alignment blocks (H)
Masking count (M)
Seed and Transition value (T)
Scoring matrix (Q)
Default:
     A    C    G    T
    91 -114  -31 -123
  -114  100 -125  -31
   -31 -125  100 -114
  -123  -31 -114   91
Other parameters (other)