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2J0T

Genes: A B A+B
Length: 157 126 281
Sequences: 1141 1002 13
Seq/Len: 7.27 7.95 0.05
MirrorTree (Pazo et al. 2001) 0.18
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 0.12 0.04 0.00
2 0.13 0.06 0.00
5 0.13 0.06 0.00
10 0.13 0.07 0.00
20 0.13 0.07 0.01
100 0.14 0.09 0.05
0.17 0.10 0.08
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 (0.05 < 0.6).

ID Seq/Len Name Options I_Prob Status
7890 0.08 2J0T Δgene:(0, ∞) A:(1E-20, 8) B:(1E-04, 8) msa: HHblits (2015_06) Killed - Shared
7889 0.05 2J0T Δgene:(0, 100) A:(1E-20, 8) B:(1E-04, 8) msa: HHblits (2015_06) Killed - Shared
7888 0.01 2J0T Δgene:(1, 20) A:(1E-20, 8) B:(1E-04, 8) msa: HHblits (2015_06) Killed - Shared
7887 0 2J0T Δgene:(1, 20) A:(1E-20, 8) B:(1E-10, 8) msa: HHblits (2015_06) Killed - Shared
7886 0 2J0T Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) Killed - Shared

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