Magnaporthe poae vs Magnaporthe oryzae LastZ results

Magnaporthe poae (Magnaporthe poae ATCC 64411, Mag_poae_ATCC_64411_V1) and Magnaporthe oryzae (Magnaporthe oryzae 70-15, MG8) were aligned using the LastZ alignment algorithm (LastZ) in Ensembl Fungi release 66. Magnaporthe poae 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

ParameterMagnaporthe poaeMagnaporthe oryzae
Chunk size10,000,00010,000,000
Overlap00
Group set size00
Masking options{default_soft_masking => 1}{default_soft_masking => 1}

Statistics over 19,154 alignment blocks

Genome coverage (bp) Coding exon coverage (bp)
Magnaporthe poae

Uncovered: 26,693,178 out of 39,503,331
Covered: 12,810,153 out of 39,503,331

Uncovered: 4,625,614 out of 14,559,232
Matches: 6,855,039 out of 14,559,232
Mismatches: 2,738,591 out of 14,559,232
Insertions: 339,988 out of 14,559,232
Identity over aligned base-pairs: 69.0%

Magnaporthe oryzae

Uncovered: 28,947,384 out of 41,027,733
Covered: 12,080,349 out of 41,027,733

Uncovered: 6,472,011 out of 16,744,523
Matches: 7,171,861 out of 16,744,523
Mismatches: 2,830,415 out of 16,744,523
Insertions: 270,236 out of 16,744,523
Identity over aligned base-pairs: 69.8%

Block size distribution

Size range All 19,154 alignment blocks Blocks grouped in nets
# blocks Total size (incl. gaps) # nets Total size (incl. gaps)
1 bp - 10 bp
37
234.0 bp
10 bp - 100 bp
2,094
137.6 kb
383
25.4 kb
100 bp - 1 kb
12,851
5.3 Mb
1,961
871.5 kb
1 kb - 10 kb
4,169
7.9 Mb
2,005
6.0 Mb
10 kb - 100 kb
3
34.6 kb
283
6.2 Mb
100 kb - 1 Mb
2
282.0 kb