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Oryza sativa Japonica Group vs Oryza sativa (Xian/Indica-1B2 var. PR106) Synteny results

The syntenic regions between Oryza sativa Japonica Group (Oryza sativa Japonica Group, IRGSP-1.0) and Oryza sativa (Xian/Indica-1B2 var. PR106) (Oryza sativa Indica Group, Os127742RS1) 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 24 synteny blocks

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

Uncovered: 3,632,369 out of 375,049,285
Covered: 371,416,916 out of 375,049,285

Uncovered: 116,895 out of 34,818,902
Covered: 34,702,007 out of 34,818,902
Oryza sativa (Xian/Indica-1B2 var. PR106)

Uncovered: 7,025,293 out of 394,601,903
Covered: 387,576,610 out of 394,601,903

Uncovered: 107,646 out of 42,333,327
Covered: 42,225,681 out of 42,333,327