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OPENSEQ.org
PopN - PscB
Genes: A B A+B
Length: 288 140 427
Sequences: 92 10 9
Seq/Len: 0.32 0.07 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 0.01 0.06 0.00
2 0.01 0.06 0.00
5 0.01 0.06 0.00
10 0.01 0.06 0.00
20 0.01 0.06 0.02
100 0.01 0.06 0.02
∞ 0.01 0.06 0.02
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 (0.02 < 0.6).
ID Seq/Len Name Options I_Prob Status
9187 0.3 PopN - PscB Δgene:(1, ∞) A:(1E-02, 8) B:(1E-04, 8) msa: HHblits (2015_06) 0.00 Done - Shared
9184 0.31 PopN - PscB Δgene:(1, ∞) A:(1E-04, 8) B:(1E-04, 8) msa: HHblits (2015_06) 0.00 Done - Shared
9179 0.23 PopN - PscB Δgene:(1, ∞) A:(1E-10, 8) B:(1E-06, 8) msa: HHblits (2015_06) 0.00 Done - Shared
9158 0.04 PopN - PscB Δgene:(1, ∞) A:(1E-20, 8) B:(1E-20, 8) msa: Jackhmmer (r132) Killed - Shared
9154 0.02 PopN - PscB Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) Killed - Shared
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