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OPENSEQ.org
m1a_gnai1
Genes: A B A+B
Length: 460 354 773
Sequences: 608 1680 40
Seq/Len: 1.32 4.75 0.05
MirrorTree (Pazo et al. 2001) 0.27
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 0.08 0.00
2 0.04 0.09 0.00
5 0.04 0.09 0.00
10 0.04 0.09 0.00
20 0.04 0.10 0.01
100 0.05 0.12 0.02
∞ 0.07 0.15 0.05
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
7084 0.11 m1a_gnai1 Δgene:(1, ∞) A:(1E-10, 8) B:(1E-10, 8) msa: Jackhmmer (r132) 0.00 Done - Shared
7054 0.05 m1a_gnai1 Δgene:(1, ∞) A:(1E-10, 8) B:(1E-10, 8) msa: HHblits (2015_06) Killed - Shared
6450 ACM2_GNAI1_HUMAN_20 Δgene:(1, ∞) A:(1E-20, 8) B:(1E-20, 8) msa: Jackhmmer (2016_06b) Running - Shared
6395 0 ACM1_GNAI_1_HUMAN(2) Δgene:(1, 20) A:(1E-10, 8) B:(1E-10, 8) msa: Jackhmmer (2016_06b) Killed - Shared
6219 0.05 ACM2_GNAI1_humaan Δgene:(1, ∞) A:(1E-04, 8) B:(1E-04, 8) msa: Jackhmmer (2016_06b) Killed - Shared
6121 ACM1_GNAI_1_HUMAN Δgene:(1, ∞) A:(1E-02, 8) B:(1E-02, 8) msa: Jackhmmer (2016_06b) Running - Shared
6045 0.01 ACM1_GNAI_1_HUMAN Δgene:(1, 20) A:(1E-02, 8) B:(1E-02, 8) msa: HHblits (2015_06) Killed - Shared
5915 0.01 ACM2_HUMAN AND GNAI1_HUMAN Δgene:(1, 20) A:(1E-10, 8) B:(1E-10, 8) msa: HHblits (2015_06) Killed - Shared
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