Emiliania huxleyi vs Phytophthora infestans Translated Blat results

Emiliania huxleyi (Emiliania huxleyi CCMP1516, Emiliana_huxleyi_CCMP1516_main_genome_assembly_v1.0) 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. Emiliania huxleyi 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

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

ParameterEmiliania huxleyiPhytophthora infestans
Chunk size1,000,0001,000,000
Overlap10,00010,000
Group set size100,000,000100,000,000
Masking options{default_soft_masking => 1}{default_soft_masking => 1}

Statistics over 14,628 alignment blocks

Genome coverage (bp) Coding exon coverage (bp)
Emiliania huxleyi

Uncovered: 166,089,703 out of 167,675,649
Covered: 1,585,946 out of 167,675,649

Uncovered: 38,320,512 out of 39,740,234
Matches: 986,800 out of 39,740,234
Mismatches: 432,700 out of 39,740,234
Insertions: 222 out of 39,740,234
Identity over aligned base-pairs: 69.5%

Phytophthora infestans

Uncovered: 227,656,755 out of 228,543,505
Covered: 886,750 out of 228,543,505

Uncovered: 21,575,048 out of 22,421,425
Matches: 582,098 out of 22,421,425
Mismatches: 264,150 out of 22,421,425
Insertions: 129 out of 22,421,425
Identity over aligned base-pairs: 68.8%