Paramecium tetraurelia vs Hyaloperonospora arabidopsidis Translated Blat Results

Back to all analyses

Paramecium tetraurelia (Paramecium tetraurelia, ASM16542v1) and Hyaloperonospora arabidopsidis (Hyaloperonospora arabidopsidis, HyaAraEmoy2_2.0) were aligned using the Translated Blat alignment algorithm (Kent W, Genome Res., 2002;12(4):656-64) in Ensembl Protists release 74. Paramecium tetraurelia 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: 6,475

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

Uncovered: 71,114,647 out of 72,094,543
Covered: 979,896 out of 72,094,543

Uncovered: 53,087,210 out of 54,045,570
Matches: 599,952 out of 54,045,570
Mismatches: 357,737 out of 54,045,570
Insertions: 671 out of 54,045,570

Hyaloperonospora arabidopsidis

Uncovered: 78,539,431 out of 78,897,814
Covered: 358,383 out of 78,897,814

Uncovered: 12,840,817 out of 13,171,834
Matches: 205,116 out of 13,171,834
Mismatches: 125,877 out of 13,171,834
Insertions: 24 out of 13,171,834

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

Paramecium tetraurelia Hyaloperonospora arabidopsidis
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}