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OPENSEQ.org
1ACB_EI EI 2CGA_B Chymotrypsin 1EGL_ Eglin C
Genes: A B A+B
Length: 245 70 315
Sequences: 13492 442 1
Seq/Len: 55.07 6.31 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 0.33 0.00
2 0.20 0.38 0.00
5 0.21 0.40 0.00
10 0.22 0.42 0.00
20 0.23 0.42 0.00
100 0.25 0.42 0.00
∞ 0.28 0.43 0.01
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 < 0.6).
 WARNING: The input alignment may be corrupted!
  • For sequence B, there is a high ratio (0.42 > 0.4) of paralogs.
ID Seq/Len Name Options I_Prob Status
6962 0 1ACB_EI EI 2CGA_B Chymotrypsin 1EGL_ Eglin C Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) Killed - Shared
4073 0.01 info 1ACB_EI E 2CGA_B Chymotrypsin 1EGL_ Eglin C Δgene:(1, 20) A:(1E-04, 8) B:(1E-04, 8) msa: Jackhmmer (2015_06) Killed - Shared
4070 0 info 1ACB_EI E 2CGA_B Chymotrypsin 1EGL_ Eglin C Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: Jackhmmer (2015_06) Killed - Shared
1206 0 test Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2013_03) Killed
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