Emiliania huxleyi vs Albugo laibachii Translated Blat results

Emiliania huxleyi (Emiliania huxleyi CCMP1516, Emiliana_huxleyi_CCMP1516_main_genome_assembly_v1.0) and Albugo laibachii (Albugo laibachii, ENA1) 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 huxleyiAlbugo laibachii
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 8,045 alignment blocks

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

Uncovered: 166,661,083 out of 167,675,649
Covered: 1,014,566 out of 167,675,649

Uncovered: 38,816,543 out of 39,740,234
Matches: 597,826 out of 39,740,234
Mismatches: 325,748 out of 39,740,234
Insertions: 117 out of 39,740,234
Identity over aligned base-pairs: 64.7%

Albugo laibachii

Uncovered: 32,222,183 out of 32,766,811
Covered: 544,628 out of 32,766,811

Uncovered: 15,382,105 out of 15,902,867
Matches: 334,207 out of 15,902,867
Mismatches: 186,479 out of 15,902,867
Insertions: 76 out of 15,902,867
Identity over aligned base-pairs: 64.2%