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OPENSEQ.org
ParAChpT
Genes: A B A+B
Length: 267 225 463
Sequences: 17235 95940 12819
Seq/Len: 64.55 426.4 27.69
MirrorTree (Pazo et al. 2001) 0.55
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 0.03 0.04 0.21
2 0.03 0.08 0.55
5 0.04 0.11 1.79
10 0.06 0.15 3.98
20 0.07 0.19 7.87
100 0.12 0.29 20.75
∞ 0.18 0.33 26.05
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 (Scaled_score > 1):
Figure 4: The darker and larger the blue dots, the higher strength in coevolution.
No inter signal detected.
ID Seq/Len Name Options I_Prob Status
12166 0.4 ParAChpT Δgene:(1, ∞) A:(1E-20, 4) B:(1E-10, 4) msa: HHblits (2015_06) 0.00 Done - Shared
12163 25.33 ParAChpT Δgene:(1, ∞) A:(1E-10, 4) B:(1E-06, 4) msa: HHblits (2015_06) 0.00 Done - Shared
12148 25.89 ParAChpT Δgene:(1, ∞) A:(1E-10, 8) B:(1E-04, 8) msa: HHblits (2015_06) 0.00 Done - Shared
12147 27.69 ParAChpT Δgene:(1, ∞) A:(1E-04, 8) B:(1E-04, 8) msa: HHblits (2015_06) 0.00 Done - Shared
12137 0.4 ParAChpT Δgene:(1, ∞) A:(1E-20, 8) B:(1E-10, 8) msa: HHblits (2015_06) 0.00 Done - Shared
12132 0.03 ParAChpT Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) Killed - Shared
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