Oryza sativa Indica Group vs Oryza rufipogon Synteny results

The syntenic regions between Oryza sativa Indica Group (Oryza sativa Indica Group, ASM465v1) and Oryza rufipogon (Oryza rufipogon, OR_W1943) were extracted from their pairwise alignment in Ensembl Plants release 94. 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 49 synteny blocks

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

Uncovered: 54,446,700 out of 427,004,890
Covered: 372,558,190 out of 427,004,890

Uncovered: 3,057,540 out of 45,465,969
Covered: 42,408,429 out of 45,465,969

Oryza rufipogon

Uncovered: 3,336,531 out of 338,040,714
Covered: 334,704,183 out of 338,040,714

Uncovered: 335,900 out of 42,763,723
Covered: 42,427,823 out of 42,763,723