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Oryza sativa Japonica Group vs Oryza sativa (Xian/Indica-3B2 var. Liu Xu) Synteny results

The syntenic regions between Oryza sativa Japonica Group (Oryza sativa Japonica Group, IRGSP-1.0) and Oryza sativa (Xian/Indica-3B2 var. Liu Xu) (Oryza sativa Indica Group, Os125827RS1) 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 29 synteny blocks

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

Uncovered: 22,781,412 out of 375,049,285
Covered: 352,267,873 out of 375,049,285

Uncovered: 1,296,579 out of 34,818,902
Covered: 33,522,323 out of 34,818,902
Oryza sativa (Xian/Indica-3B2 var. Liu Xu)

Uncovered: 124,582,108 out of 490,154,521
Covered: 365,572,413 out of 490,154,521

Uncovered: 9,683,546 out of 50,008,342
Covered: 40,324,796 out of 50,008,342