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1DE4_l_u_Apdb 1DE4_r_u_Apdb

Genes: A B A+B
Length: 639 272 911
Sequences: 1000 1912 1
Seq/Len: 1.56 7.03 0
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 0.29 0.00
2 0.04 0.30 0.00
5 0.04 0.34 0.00
10 0.04 0.35 0.00
20 0.05 0.35 0.00
100 0.06 0.36 0.00
0.08 0.36 0.00
Paired alignment generation
None of the genomes have hits within 20 Δgene.
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 < 0.6).

ID Seq/Len Name Options I_Prob Status
6954 0 1DE4_l_u_Apdb 1DE4_r_u_Apdb Δgene:(1, 20) A:(1E-02, 8) B:(1E-02, 8) msa: HHblits (2015_06) Killed - Shared
6948 0 1DE4_l_u_Apdb 1DE4_r_u_Apdb Δgene:(1, 20) A:(1E-04, 8) B:(1E-04, 8) msa: HHblits (2015_06) Killed - Shared
6940 0 1DE4_l_u_Apdb 1DE4_r_u_Apdb Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) Killed - Shared

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