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Arabidopsis thaliana vs Oryza sativa Japonica Group LastZ results

Arabidopsis thaliana (Arabidopsis thaliana, TAIR10) and Oryza sativa Japonica Group (Oryza sativa Japonica Group, IRGSP-1.0) were aligned using the LastZ alignment algorithm (LastZ) in Ensembl Plants release 73. Arabidopsis thaliana 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

No configuration parameters are available.

Statistics over 81,291 alignment blocks

Genome coverage (bp) Coding exon coverage (bp)
Arabidopsis thaliana

Uncovered: 101,090,527 out of 119,667,750
Covered: 18,577,223 out of 119,667,750

Uncovered: 20,106,955 out of 33,775,569
Matches: 8,908,577 out of 33,775,569
Mismatches: 4,479,793 out of 33,775,569
Insertions: 280,244 out of 33,775,569
Identity over aligned base-pairs: 65.2%

Oryza sativa Japonica Group

Uncovered: 346,250,912 out of 375,049,285
Covered: 28,798,373 out of 375,049,285

Uncovered: 16,672,719 out of 34,818,902
Matches: 11,735,265 out of 34,818,902
Mismatches: 5,987,304 out of 34,818,902
Insertions: 423,614 out of 34,818,902
Identity over aligned base-pairs: 64.7%

Block size distribution

Size range All 81,291 alignment blocks Blocks grouped in nets
# blocks Total size (incl. gaps) # nets Total size (incl. gaps)
1 bp - 10 bp
727
3.9 kb
10 bp - 100 bp
12,262
831.4 kb
2,296
163.8 kb
100 bp - 1 kb
63,093
21.4 Mb
15,223
6.3 Mb
1 kb - 10 kb
5,209
7.8 Mb
10,803
22.9 Mb
10 kb - 100 kb
43
745.4 kb