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pred_1DFJ_l_u_XpdbXfas_1DFJ_r_u_BpdbBfastable_PRtxt

Genes: A B A+B
Length: 456 124 580
Sequences: 4243 528 3
Seq/Len: 9.3 4.26 0.01
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 0.06 0.50 0.00
2 0.06 0.56 0.00
5 0.08 0.64 0.00
10 0.09 0.66 0.00
20 0.09 0.70 0.01
100 0.12 0.70 0.01
0.17 0.70 0.01
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 (0.01 < 0.6).
WARNING: The input alignment may be corrupted!
  • For sequence B, there is a high ratio (0.70 > 0.4) of paralogs.

ID Seq/Len Name Options I_Prob Status
8141 0.01 pred_1DFJ_l_u_XpdbXfas_1DFJ_r_u_BpdbBfastable_PRtxt Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) Killed - Shared
4725 0 1dfj Δgene:(1, 10) A:(1E-20, 8) B:(1E-20, 8) msa: Jackhmmer (2015_06) Killed

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