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OPENSEQ.org
MukB
Genes: A B A+B
Length: 78 85 161
Sequences: 25702 69 28
Seq/Len: 329.51 0.81 0.17
MirrorTree (Pazo et al. 2001) -0.02
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 0.16 0.07 0.01
2 0.18 0.07 0.01
5 0.21 0.07 0.01
10 0.22 0.07 0.01
20 0.23 0.07 0.04
100 0.26 0.07 0.17
∞ 0.31 0.07 0.61
Paired alignment generation
0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20
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 (0.17 < 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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