Guillardia theta CCMP2712 vs Phytophthora infestans Translated Blat Results

Back to all analyses

Guillardia theta CCMP2712 (Guillardia theta CCMP2712, Guith1) and Phytophthora infestans (Phytophthora infestans T30-4, ASM14294v1) were aligned using the Translated Blat alignment algorithm (Kent W, Genome Res., 2002;12(4):656-64) in Ensembl Protists release 74. Guillardia theta CCMP2712 was used as the reference species. After running Translated Blat, the raw Translated Blat alignment blocks are chained according to their location in both genomes. During the final netting process, the best sub-chain is chosen in each region on the reference species.

Results

Number of alignment blocks: 9,185

Genome coverage (bp) Coding exon coverage (bp)
Guillardia theta CCMP2712

Uncovered: 86,176,941 out of 87,266,873
Covered: 1,089,932 out of 87,266,873

Uncovered: 29,606,635 out of 30,644,092
Matches: 697,658 out of 30,644,092
Mismatches: 339,018 out of 30,644,092
Insertions: 781 out of 30,644,092

Phytophthora infestans T30-4

Uncovered: 227,699,954 out of 228,543,505
Covered: 843,551 out of 228,543,505

Uncovered: 21,612,739 out of 22,421,425
Matches: 543,041 out of 22,421,425
Mismatches: 265,442 out of 22,421,425
Insertions: 203 out of 22,421,425

Configuration parameters

ParameterValue
Minimum score (minScore)30
Database type (t)dnax
Query type (q)dnax
Mask out repeats (mask)lower
Mask out repeats on query (qMask)lower

Chunking parameters

Guillardia theta CCMP2712 Phytophthora infestans
Chunk size 1,000,000 1,000,000
Overlap 10,000 10,000
Group set size 100,000,000 100,000,000
Masking options {default_soft_masking => 1} {default_soft_masking => 1}