Paramecium tetraurelia vs Phytophthora infestans Translated Blat results

Paramecium tetraurelia (Paramecium tetraurelia, ASM16542v1) 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 72. Paramecium tetraurelia was used as the reference species. After running Translated Blat, the raw Translated Blat alignment blocks were chained according to their location in both genomes. During the final netting process, the best sub-chain was chosen in each region on the reference species.

Configuration parameters

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

ParameterParamecium tetraureliaPhytophthora infestans
Chunk size1,000,0001,000,000
Group set size100,000,000100,000,000
Masking options{default_soft_masking => 1}{default_soft_masking => 1}

Statistics over 8,527 alignment blocks

Genome coverage (bp) Coding exon coverage (bp)
Paramecium tetraurelia

Uncovered: 70,837,872 out of 72,094,543
Covered: 1,256,671 out of 72,094,543

Uncovered: 52,817,351 out of 54,045,570
Matches: 765,909 out of 54,045,570
Mismatches: 461,670 out of 54,045,570
Insertions: 640 out of 54,045,570
Identity over aligned base-pairs: 62.4%

Phytophthora infestans

Uncovered: 228,053,968 out of 228,543,505
Covered: 489,537 out of 228,543,505

Uncovered: 21,949,015 out of 22,421,425
Matches: 290,690 out of 22,421,425
Mismatches: 181,669 out of 22,421,425
Insertions: 51 out of 22,421,425
Identity over aligned base-pairs: 61.5%