May 4, 2021 - We are working on upgrading the webserver, some pages may not work.
OPENSEQ.org
ETF-Mcd (A, 160-548) infinit
Genes: A B A+B
Length: 389 253 628
Sequences: 17875 2636 1867
Seq/Len: 45.95 10.42 2.97
MirrorTree (Pazo et al. 2001) 0.08
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 0.10 0.01 0.48
2 0.11 0.01 0.76
5 0.15 0.01 1.01
10 0.18 0.01 1.19
20 0.20 0.02 1.38
100 0.25 0.03 1.87
∞ 0.31 0.08 2.91
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 (Scaled_score > 1):
Figure 4: The darker and larger the blue dots, the higher strength in coevolution. 		Inter Residue pairs sorted by strength in coevolution signal:
i j Scaled Score Prob I_Prob
142_V 140_G 0.71 0.30 0.00
313_A 150_L 0.62 0.22 0.00
Figure 5: The i (protein A) and j (protein B) are positions as given in the query sequences.

Scaled Score = raw_score/average(raw_scores)
Prob = P(contact | scaled_score, seq/len)
I_Prob = P(contact | scaled_score, seq/len, top_inter_score)
ID Seq/Len Name Options I_Prob Status
6020 2.97 ETF-Mcd (A, 160-548) infinit Δgene:(1, ∞) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) 0.00 Done - Shared
6019 1.9 ETF-Mcd (A, 160-548) Δgene:(1, 100) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) 0.00 Done - Shared
Page generated in 0.1301 seconds.