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2IDO_AB ES 1J54_A DNA polymerase III e exonuclease domain 1SE7_A(1) HOT protein (P1 phage)

Genes: A B A+B
Length: 186 83 226
Sequences: 7535 121 38
Seq/Len: 40.51 1.46 0.17
MirrorTree (Pazo et al. 2001) 0.73
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 0.01 0.00 0.06
2 0.01 0.00 0.11
5 0.02 0.00 0.12
10 0.03 0.01 0.13
20 0.04 0.01 0.14
100 0.06 0.01 0.18
0.18 0.03 0.27
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 (0.17 < 0.6).

ID Seq/Len Name Options I_Prob Status
6966 0.17 2IDO_AB ES 1J54_A DNA polymerase III e exonuclease domain 1SE7_A(1) HOT protein (P1 phage) Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) Killed - Shared
3540 0.14 2IDOAB Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: Jackhmmer (2015_06) Killed

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