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1Y64_l_u_Apdb 1Y64_r_u_Apdb

Genes: A B A+B
Length: 360 411 753
Sequences: 3072 1565 32
Seq/Len: 8.53 3.81 0.04
MirrorTree (Pazo et al. 2001) 0.19
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 0.04 0.05 0.00
2 0.05 0.05 0.01
5 0.05 0.05 0.01
10 0.05 0.06 0.02
20 0.06 0.06 0.04
100 0.08 0.07 0.13
0.16 0.11 0.44
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 (0.04 < 0.6).

ID Seq/Len Name Options I_Prob Status
6955 0.06 1Y64_l_u_Apdb 1Y64_r_u_Apdb Δgene:(1, 20) A:(1E-02, 8) B:(1E-02, 8) msa: HHblits (2015_06) Killed - Shared
6952 0.06 1Y64_l_u_Apdb 1Y64_r_u_Apdb Δgene:(1, 20) A:(1E-04, 8) B:(1E-04, 8) msa: HHblits (2015_06) Killed - Shared
6944 0.04 1Y64_l_u_Apdb 1Y64_r_u_Apdb Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) Killed - Shared

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