Upcoming Ensembl Platform Transition

This is the final release of its kind on this website.

In summer 2026, this site will bring you to the new Ensembl platform currently at beta.ensembl.org.
Please bookmark this archive to retain access to the current site, tools and functionality until they are available on the new platform -> eg63-plants.ensembl.org

Ensembl Genomes HomeEnsembl Plants HomeEnsembl Plants Home ▼
More ▼
Search »

Oryza barthii vs Oryza brachyantha LastZ results

Oryza barthii (Oryza barthii, O.barthii_v1) and Oryza brachyantha (Oryza brachyantha, Oryza_brachyantha.v1.4b) were aligned using the LastZ alignment algorithm (LastZ) in Ensembl Plants release 75. Oryza barthii 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 286,149 alignment blocks

Genome coverage (bp) Coding exon coverage (bp)
Oryza barthii

Uncovered: 170,602,059 out of 308,272,304
Covered: 137,670,245 out of 308,272,304

Uncovered: 4,405,020 out of 39,538,509
Matches: 26,143,957 out of 39,538,509
Mismatches: 8,154,651 out of 39,538,509
Insertions: 834,881 out of 39,538,509
Identity over aligned base-pairs: 74.4%

Oryza brachyantha

Uncovered: 151,892,071 out of 260,838,168
Covered: 108,946,097 out of 260,838,168

Uncovered: 4,707,442 out of 33,473,466
Matches: 22,076,660 out of 33,473,466
Mismatches: 6,230,918 out of 33,473,466
Insertions: 458,446 out of 33,473,466
Identity over aligned base-pairs: 76.7%

Block size distribution

Size range All 286,149 alignment blocks Blocks grouped in nets
# blocks Total size (incl. gaps) # nets Total size (incl. gaps)
1 bp - 10 bp
4,049
25.9 kb
10 bp - 100 bp
51,226
3.1 Mb
21,624
1.5 Mb
100 bp - 1 kb
191,936
68.5 Mb
67,578
20.3 Mb
1 kb - 10 kb
38,929
75.2 Mb
8,204
19.2 Mb
10 kb - 100 kb
9
99.5 kb
185
4.1 Mb
100 kb - 1 Mb
5
673.9 kb
1 Mb - 10 Mb
9
58.9 Mb
10 Mb - 100 Mb
3
42.3 Mb