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Bombus terrestris (Buff-tailed bumblebee) vs Nasonia vitripennis (Jewel wasp, AsymCx) LastZ results

Bombus terrestris (Buff-tailed bumblebee) (Bombus terrestris, Bter_1.0) and Nasonia vitripennis (Jewel wasp, AsymCx) (Nasonia vitripennis, Nvit_psr_1.1) were aligned using the LastZ alignment algorithm (LastZ) in Ensembl Metazoa release 102. Bombus terrestris (Buff-tailed bumblebee) 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

ParameterBombus terrestris (Buff-tailed bumblebee)Nasonia vitripennis (Jewel wasp, AsymCx)
Chunk size10,000,00010,100,000
Overlap0100,000
Group set size10,100,00010,100,000
Masking options

Statistics over 67,255 alignment blocks

Genome coverage (bp) Coding exon coverage (bp)
Bombus terrestris (Buff-tailed bumblebee)

Uncovered: 226,730,494 out of 248,654,244
Covered: 21,923,750 out of 248,654,244

Uncovered: 4,647,684 out of 18,548,448
Matches: 9,455,497 out of 18,548,448
Mismatches: 4,162,528 out of 18,548,448
Insertions: 282,739 out of 18,548,448
Identity over aligned base-pairs: 68.0%

Nasonia vitripennis (Jewel wasp, AsymCx)

Uncovered: 273,317,299 out of 297,309,692
Covered: 23,992,393 out of 297,309,692

Uncovered: 8,024,515 out of 22,806,936
Matches: 9,923,602 out of 22,806,936
Mismatches: 4,462,418 out of 22,806,936
Insertions: 396,401 out of 22,806,936
Identity over aligned base-pairs: 67.1%

Block size distribution

Size range All 67,255 alignment blocks Blocks grouped in nets
# blocks Total size (incl. gaps) # nets Total size (incl. gaps)
1 bp - 10 bp
320
2.0 kb
10 bp - 100 bp
11,488
748.2 kb
3,758
250.7 kb
100 bp - 1 kb
49,679
15.9 Mb
13,759
4.8 Mb
1 kb - 10 kb
5,766
10.0 Mb
5,130
15.1 Mb
10 kb - 100 kb
2
20.1 kb
369
6.3 Mb
100 kb - 1 Mb
1
121.4 kb