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Magnaporthe poae vs Puccinia triticina - GCA_000151525.2 LastZ results

Magnaporthe poae (Magnaporthe poae ATCC 64411, Mag_poae_ATCC_64411_V1) and Puccinia triticina - GCA_000151525.2 (Puccinia triticina, GCA000151525v2) were aligned using the LastZ alignment algorithm (LastZ) in Ensembl Fungi release 114. 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 poaePuccinia triticina - GCA_000151525.2
Chunk size10,000,00010,100,000
Overlap0100,000
Group set size10,100,00010,100,000
Masking options

Statistics over 7,294 alignment blocks

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

Uncovered: 37,907,627 out of 39,503,331
Covered: 1,595,704 out of 39,503,331

Uncovered: 13,181,115 out of 14,559,232
Matches: 865,432 out of 14,559,232
Mismatches: 473,675 out of 14,559,232
Insertions: 39,010 out of 14,559,232
Identity over aligned base-pairs: 62.8%

Puccinia triticina - GCA_000151525.2

Uncovered: 133,424,573 out of 135,343,689
Covered: 1,919,116 out of 135,343,689

Uncovered: 15,879,458 out of 17,522,293
Matches: 1,002,884 out of 17,522,293
Mismatches: 569,563 out of 17,522,293
Insertions: 70,388 out of 17,522,293
Identity over aligned base-pairs: 61.0%

Block size distribution

Size range All 7,294 alignment blocks Blocks grouped in nets
# blocks Total size (incl. gaps) # nets Total size (incl. gaps)
1 bp - 10 bp
16
73.0 bp
10 bp - 100 bp
1,570
111.9 kb
217
16.3 kb
100 bp - 1 kb
5,459
1.6 Mb
1,759
795.7 kb
1 kb - 10 kb
249
364.9 kb
724
1.3 Mb
10 kb - 100 kb
1
12.1 kb