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OPENSEQ.org
test_10vs14b_04
Genes: A B A+B
Length: 86 110 192
Sequences: 241 111 12
Seq/Len: 2.8 1.01 0.06
MirrorTree (Pazo et al. 2001) 0.75
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 0.01 0.01
2 0.02 0.01 0.01
5 0.02 0.01 0.01
10 0.02 0.01 0.01
20 0.02 0.01 0.01
100 0.02 0.01 0.02
∞ 0.02 0.01 0.06
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 (0.06 < 0.6).
ID Seq/Len Name Options I_Prob Status
3984 0.06 test_10vs14b_04 Δgene:(1, ∞) A:(1E-10, 8) B:(1E-10, 8) msa: HHblits (2015_06) Killed - Shared
3982 0.06 test_10vs14b_04 Δgene:(1, ∞) A:(1E-04, 8) B:(1E-04, 8) msa: HHblits (2015_06) Killed - Shared
3903 0.06 10vs14b_-10 Δgene:(1, ∞) A:(1E-10, 8) B:(1E-10, 8) msa: Jackhmmer (2015_06) Killed
3901 0.06 10vs14b_-06 Δgene:(1, ∞) A:(1E-06, 8) B:(1E-06, 8) msa: Jackhmmer (2015_06) Killed
3900 0.06 10vs14b_-04 Δgene:(1, ∞) A:(1E-04, 8) B:(1E-04, 8) msa: Jackhmmer (2015_06) Killed - Shared
3899 0.06 10vs14b_-02 Δgene:(1, ∞) A:(1E-02, 8) B:(1E-02, 8) msa: Jackhmmer (2015_06) Killed
3890 0.01 10vs14b Δgene:(1, ∞) A:(1E-60, 8) B:(1E-60, 8) msa: HHblits (2015_06) Killed
3881 0.06 10vs14b Δgene:(1, ∞) A:(1E-20, 8) B:(1E-20, 8) msa: Jackhmmer (2015_06) Killed
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