May 4, 2021 - We are working on upgrading the webserver, some pages may not work.
OPENSEQ.org

beta flap (A, 50-660) (A, 100-200)

Genes: A B A+B
Length: 101 50 145
Sequences: 7718 851 49
Seq/Len: 76.42 17.02 0.34
MirrorTree (Pazo et al. 2001) 0.68
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 0.09 0.01
2 0.04 0.09 0.01
5 0.05 0.09 0.07
10 0.06 0.09 0.19
20 0.06 0.09 0.32
100 0.13 0.09 1.95
0.24 0.09 9.26
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 (0.34 < 0.6).

ID Seq/Len Name Options I_Prob Status
9986 2.03 beta flap (A, 50-660) (A, 100-200) Δgene:(1, 100) A:(1E-06, 8) B:(1E-06, 8) msa: HHblits (2015_06) 0.13 Done - Shared
9985 0.34 beta flap (A, 50-660) (A, 100-200) Δgene:(1, 20) A:(1E-06, 8) B:(1E-06, 8) msa: HHblits (2015_06) Killed - Shared
9984 0.01 beta flap (A, 50-660) (A, 100-200) Δgene:(1, 20) A:(1E-60, 8) B:(1E-60, 8) msa: HHblits (2015_06) Killed - Shared
9983 0.15 beta flap (A, 50-660) (A, 100-200) Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) Killed - Shared

Page generated in 0.0166 seconds.