In this section

Nasonia vitripennis (Jewel wasp, AsymCx) vs Solenopsis invicta (Red fire ant, M01_SB) LastZ results

Nasonia vitripennis (Jewel wasp, AsymCx) (Nasonia vitripennis, Nvit_psr_1.1) and Solenopsis invicta (Red fire ant, M01_SB) (Solenopsis invicta, UNIL_Sinv_3.0) were aligned using the LastZ alignment algorithm (LastZ) in Ensembl Metazoa release 106. Nasonia vitripennis (Jewel wasp, AsymCx) 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

ParameterNasonia vitripennis (Jewel wasp, AsymCx)Solenopsis invicta (Red fire ant, M01_SB)
Chunk size10,000,00010,100,000
Overlap0100,000
Group set size10,100,00010,100,000
Masking options

Statistics over 99,955 alignment blocks

Genome coverage (bp) Coding exon coverage (bp)
Nasonia vitripennis (Jewel wasp, AsymCx)

Uncovered: 269,168,966 out of 297,309,692
Covered: 28,140,726 out of 297,309,692

Uncovered: 7,880,360 out of 22,806,936
Matches: 10,047,266 out of 22,806,936
Mismatches: 4,488,458 out of 22,806,936
Insertions: 390,852 out of 22,806,936
Identity over aligned base-pairs: 67.3%

Solenopsis invicta (Red fire ant, M01_SB)

Uncovered: 343,990,097 out of 378,101,515
Covered: 34,111,418 out of 378,101,515

Uncovered: 8,880,660 out of 24,708,769
Matches: 10,590,208 out of 24,708,769
Mismatches: 4,863,327 out of 24,708,769
Insertions: 374,574 out of 24,708,769
Identity over aligned base-pairs: 66.9%

Block size distribution

Size range All 99,955 alignment blocks Blocks grouped in nets
# blocks Total size (incl. gaps) # nets Total size (incl. gaps)
1 bp - 10 bp
584
3.3 kb
10 bp - 100 bp
14,298
915.5 kb
4,681
311.2 kb
100 bp - 1 kb
75,517
25.8 Mb
22,574
8.0 Mb
1 kb - 10 kb
9,556
16.8 Mb
12,288
30.4 Mb
10 kb - 100 kb
291
4.9 Mb