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OPENSEQ.org

CAPRI T105

Genes: A B A+B
Length: 131 87 214
Sequences: 90 121 71
Seq/Len: 0.69 1.39 0.33
MirrorTree (Pazo et al. 2001) 0.43
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 0.00 0.30 0.33
2 0.01 0.35 0.33
5 0.01 0.37 0.33
10 0.01 0.37 0.33
20 0.01 0.37 0.33
100 0.01 0.37 0.33
0.02 0.38 0.33
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 (0.33 < 0.6).

ID Seq/Len Name Options I_Prob Status
1836 0.49 CAPRI T105 Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: Jackhmmer (2015_03) 0.06 Done - Shared
1821 0.33 CAPRI T105 Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2013_03) Killed - Shared

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