Emiliania huxleyi vs Hyaloperonospora arabidopsidis Translated Blat Results

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Emiliania huxleyi (Emiliania huxleyi CCMP1516, Emiliana_huxleyi_CCMP1516_main_genome_assembly_v1.0) 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. Emiliania huxleyi 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: 11,935

Genome coverage (bp) Coding exon coverage (bp)
Emiliania huxleyi CCMP1516

Uncovered: 166,338,861 out of 167,675,649
Covered: 1,336,788 out of 167,675,649

Uncovered: 38,529,601 out of 39,740,234
Matches: 830,296 out of 39,740,234
Mismatches: 380,109 out of 39,740,234
Insertions: 228 out of 39,740,234

Hyaloperonospora arabidopsidis

Uncovered: 78,195,084 out of 78,897,814
Covered: 702,730 out of 78,897,814

Uncovered: 12,524,564 out of 13,171,834
Matches: 439,004 out of 13,171,834
Mismatches: 208,156 out of 13,171,834
Insertions: 110 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

Emiliania huxleyi 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}