Emiliania huxleyi vs Pythium ultimum Translated Blat Results

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Emiliania huxleyi (Emiliania huxleyi CCMP1516, Emiliana_huxleyi_CCMP1516_main_genome_assembly_v1.0) and Pythium ultimum (Pythium ultimum DAOM BR144, pug) 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: 18,345

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

Uncovered: 165,895,361 out of 167,675,649
Covered: 1,780,288 out of 167,675,649

Uncovered: 38,171,651 out of 39,740,234
Matches: 1,114,099 out of 39,740,234
Mismatches: 454,183 out of 39,740,234
Insertions: 301 out of 39,740,234

Pythium ultimum DAOM BR144

Uncovered: 43,929,885 out of 44,913,582
Covered: 983,697 out of 44,913,582

Uncovered: 18,938,927 out of 19,826,256
Matches: 624,234 out of 19,826,256
Mismatches: 262,873 out of 19,826,256
Insertions: 222 out of 19,826,256

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 Pythium ultimum
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}