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OPENSEQ.org
MukB
Genes: A B A+B
Length: 78 85 161
Sequences: 3191 69 12
Seq/Len: 40.91 0.81 0.07
MirrorTree (Pazo et al. 2001) -0.12
Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.

[Show HHblits results] - Maybe useful in deciding what regions to trim.
Δgene Ratio of paralogs Joined
A B Seq/Len
1 0.05 0.07 0.01
2 0.05 0.07 0.01
5 0.06 0.07 0.01
10 0.06 0.07 0.01
20 0.06 0.07 0.01
100 0.06 0.07 0.07
∞ 0.13 0.07 0.31
Paired alignment generation
None of the genomes have hits within 20 Δgene.
Sequence A E-value:
Iterations:
Sequence B E-value:
Iterations:
Δgene MSA
Figure 1: The effect of Δgene on ratio of paralogs in the genome for each gene, and the number of sequences in the resulting joined alignment. Figure 2: Distribution of Δgene across all genomes. Figure 3: Current parameters. You can use the form to adjust the parameters and resubmit the job!
GREMLIN results
  • ERROR: Not enough sequences to run GREMLIN analysis on (0.07 < 0.6).
ID Seq/Len Name Options I_Prob Status
11391 0.17 MukB Δgene:(1, 100) A:(1E-04, 8) B:(1E-02, 8) msa: HHblits (2015_06) Killed
11390 0.17 MukB Δgene:(1, 100) A:(1E-06, 8) B:(1E-02, 8) msa: HHblits (2015_06) Killed
11389 0.07 MukB Δgene:(1, 100) A:(1E-20, 8) B:(1E-04, 8) msa: HHblits (2015_06) Killed
11388 0.03 MukB Δgene:(1, 100) A:(1E-20, 8) B:(1E-40, 8) msa: HHblits (2015_06) Killed
11387 0.01 MukB Δgene:(1, 20) A:(1E-20, 8) B:(1E-10, 8) msa: HHblits (2015_06) Killed - Shared
11386 0.07 MukB Δgene:(1, 100) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) Killed - Shared
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