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OPENSEQ.org
12
Genes: A B A+B
Length: 840 646 1389
Sequences: 868 2963 693
Seq/Len: 1.03 4.59 0.5
MirrorTree (Pazo et al. 2001) 0.99
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 0.06 0.47
2 0.03 0.06 0.47
5 0.04 0.06 0.47
10 0.04 0.06 0.47
20 0.04 0.07 0.47
100 0.04 0.07 0.47
∞ 0.05 0.10 0.47
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
  • Analysis in progress...
 WARNING: The input alignment may be corrupted!
  • Sequence A is very similar to Sequence B (HHΔ = 0.131). The alignment maybe simply a duplication. HHΔ is a measure of how different two alignments are (the larger the value the more different they are).
ID Seq/Len Name Options I_Prob Status
8556 0 12 Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) Killed - Shared
8547 0.5 12 Δgene:(0, ∞) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) Running - Shared
8446 0.49 APG2HSC70 Δgene:(0, 0) A:(1E-06, 8) B:(1E-06, 8) msa: HHblits (2015_06) Running
8443 0 APG2HSC70 Δgene:(1, ∞) A:(1E-06, 8) B:(1E-06, 8) msa: HHblits (2015_06) Killed
8442 0 APG2HSC70 Δgene:(1, ∞) A:(1E-10, 8) B:(1E-10, 8) msa: HHblits (2015_06) Killed
8440 0 APG2HSC70 Δgene:(1, 20) A:(1E-10, 8) B:(1E-10, 8) msa: HHblits (2015_06) Killed
8439 0 APG2HSC70 Δgene:(1, ∞) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) Killed
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