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cI_1_60_cI_2_60_tt
Genes: A B A+B
Length: 438 181 597
Sequences: 2227 13 12
Seq/Len: 5.08 0.07 0.02
MirrorTree (Pazo et al. 2001) 0.93
Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.

[Show Jackhmmer results] - Maybe useful in deciding what regions to trim.
Δgene Ratio of paralogs Joined
A B Seq/Len
1 0.01 0.00 0.02
2 0.01 0.00 0.02
5 0.01 0.00 0.02
10 0.02 0.00 0.02
20 0.02 0.00 0.02
100 0.04 0.00 0.02
∞ 0.12 0.00 0.02
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 (0.02 < 0.6).
ID Seq/Len Name Options I_Prob Status
4733 2.91 cI_1_20_cI_2_4_tt Δgene:(1, ∞) A:(1E-20, 8) B:(1E-04, 8) msa: Jackhmmer (2015_06) 0.56 Done - Shared
4732 2.93 cI_1_4_cI_2_4_tt Δgene:(1, ∞) A:(1E-04, 8) B:(1E-04, 8) msa: Jackhmmer (2015_06) 0.60 Done - Shared
4731 2.27 cI_1_80_cI_2_40_tt Δgene:(1, ∞) A:(1E-80, 8) B:(1E-40, 8) msa: Jackhmmer (2015_06) 0.58 Done - Shared
4730 2.93 cI_1_60_cI_2_40_tt Δgene:(1, ∞) A:(1E-60, 8) B:(1E-20, 8) msa: Jackhmmer (2015_06) 0.59 Done - Shared
4729 2.27 cI_1_60_cI_2_40_tt Δgene:(1, ∞) A:(1E-60, 8) B:(1E-40, 8) msa: Jackhmmer (2015_06) 0.60 Done - Shared
4728 0.02 cI_1_60_cI_2_60_tt Δgene:(1, ∞) A:(1E-60, 8) B:(1E-60, 8) msa: Jackhmmer (2015_06) Killed - Shared
4727 2.28 cI_1_40_cI_2_40_tt Δgene:(1, ∞) A:(1E-40, 8) B:(1E-40, 8) msa: Jackhmmer (2015_06) 0.57 Done - Shared
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