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Oryza sativa Japonica Group vs Oryza sativa (Xian/Indica-1A var. Zhenshan 97) Synteny results

The syntenic regions between Oryza sativa Japonica Group (Oryza sativa Japonica Group, IRGSP-1.0) and Oryza sativa (Xian/Indica-1A var. Zhenshan 97) (Oryza sativa Indica Group, ZS97RS3) 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 22 synteny blocks

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

Uncovered: 4,096,592 out of 375,049,285
Covered: 370,952,693 out of 375,049,285

Uncovered: 136,531 out of 34,818,902
Covered: 34,682,371 out of 34,818,902
Oryza sativa (Xian/Indica-1A var. Zhenshan 97)

Uncovered: 4,938,501 out of 391,561,630
Covered: 386,623,129 out of 391,561,630

Uncovered: 87,713 out of 42,146,420
Covered: 42,058,707 out of 42,146,420