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OPENSEQ.org
coagulation
Genes: A B A+B
Length: 233 240 473
Sequences: 13904 13767 2
Seq/Len: 59.67 57.36 0
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 0.18 0.18 0.00
2 0.20 0.20 0.00
5 0.22 0.21 0.00
10 0.22 0.22 0.00
20 0.23 0.23 0.00
100 0.25 0.25 0.00
∞ 0.29 0.29 0.00
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 < 0.6).
ID Seq/Len Name Options I_Prob Status
6812 coagulation6 Δgene:(1, ∞) A:(1E-02, 8) B:(1E-02, 8) msa: Jackhmmer (2016_06b) Running - Shared
6811 0.01 coagulation6 Δgene:(1, ∞) A:(1E-02, 8) B:(1E-02, 8) msa: HHblits (2015_06) Killed - Shared
6810 0 coagulation5 Δgene:(1, ∞) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) Killed - Shared
6809 0 coagulation4 Δgene:(1, ∞) A:(1E-04, 8) B:(1E-04, 8) msa: HHblits (2015_06) Killed - Shared
6808 coagulation3 Δgene:(0, 0) A:(1E-02, 2) B:(1E-02, 2) msa: Jackhmmer (2016_06b) Running - Shared
6807 0 coagulation2 Δgene:(1, 20) A:(1E-04, 8) B:(1E-04, 8) msa: HHblits (2015_06) Killed - Shared
6806 0 coagulation Δgene:(1, 20) A:(1E-06, 8) B:(1E-02, 8) msa: HHblits (2015_06) Killed - Shared
6802 0 coagulation Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) Killed - Shared
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