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Oryza sativa Japonica Group vs Oryza sativa (Xian/Indica-adm var. Minghui 63) Synteny results

The syntenic regions between Oryza sativa Japonica Group (Oryza sativa Japonica Group, IRGSP-1.0) and Oryza sativa (Xian/Indica-adm var. Minghui 63) (Oryza sativa Indica Group, MH63RS2) were extracted from their pairwise alignment in Ensembl Plants release 111. We look for stretches where the alignment blocks are in synteny. The search is run in two phases. In the first one, syntenic alignments that are closer than 200 kbp are grouped. In the second phase, the groups that are in synteny are linked provided that no more than 2 non-syntenic groups are found between them and they are less than 3Mbp apart.

Configuration parameters

No configuration parameters are available.

Statistics over 20 synteny blocks

Genome coverage (bp) Coding exon coverage (bp)
Oryza sativa Japonica Group

Uncovered: 4,009,721 out of 375,049,285
Covered: 371,039,564 out of 375,049,285

Uncovered: 226,833 out of 34,818,902
Covered: 34,592,069 out of 34,818,902
Oryza sativa (Xian/Indica-adm var. Minghui 63)

Uncovered: 5,033,887 out of 395,765,488
Covered: 390,731,601 out of 395,765,488

Uncovered: 179,972 out of 42,271,986
Covered: 42,092,014 out of 42,271,986