Bigelowiella natans vs Emiliania huxleyi Translated Blat Results

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Bigelowiella natans (Bigelowiella natans CCMP2755, Bigna1) and Emiliania huxleyi (Emiliania huxleyi CCMP1516, Emiliana_huxleyi_CCMP1516_main_genome_assembly_v1.0) were aligned using the Translated Blat alignment algorithm (Kent W, Genome Res., 2002;12(4):656-64) in Ensembl Protists release 74. Bigelowiella natans 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: 8,457

Genome coverage (bp) Coding exon coverage (bp)
Bigelowiella natans CCMP2755

Uncovered: 93,907,447 out of 94,701,163
Covered: 793,716 out of 94,701,163

Uncovered: 28,058,625 out of 28,817,508
Matches: 516,225 out of 28,817,508
Mismatches: 242,615 out of 28,817,508
Insertions: 43 out of 28,817,508

Emiliania huxleyi CCMP1516

Uncovered: 167,003,649 out of 167,675,649
Covered: 672,000 out of 167,675,649

Uncovered: 39,127,642 out of 39,740,234
Matches: 415,451 out of 39,740,234
Mismatches: 197,081 out of 39,740,234
Insertions: 60 out of 39,740,234

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

Bigelowiella natans Emiliania huxleyi
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}