May 4, 2021 - We are working on upgrading the webserver, some pages may not work.
OPENSEQ.org
MORNTD
Genes: A B A+B
Length: 74 80 137
Sequences: 34720 28717 144
Seq/Len: 469.19 358.96 1.05
MirrorTree (Pazo et al. 2001) 0.11
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 0.07 0.05 0.22
2 0.08 0.06 0.27
5 0.11 0.09 0.31
10 0.13 0.11 0.34
20 0.16 0.14 0.38
100 0.24 0.21 0.58
∞ 0.28 0.26 0.94
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
20_T 7_N 1.26 0.59 0.00
10_L 8_R 1.22 0.56 0.00
41_D 70_A 1.13 0.47 0.00
50_I 58_I 1.11 0.45 0.00
17_K 71_W 1.02 0.37 0.00
25_A 61_L 1.02 0.37 0.00
36_S 53_P 0.99 0.34 0.00
62_Q 15_E 0.98 0.34 0.00
9_S 24_L 0.95 0.31 0.00
31_S 25_N 0.93 0.30 0.00
35_V 55_Q 0.93 0.29 0.00
58_E 25_N 0.92 0.28 0.00
24_F 24_L 0.90 0.27 0.00
26_I 25_N 0.90 0.27 0.00
18_C 7_N 0.89 0.27 0.00
35_V 20_Q 0.88 0.25 0.00
30_L 70_A 0.87 0.25 0.00
57_L 21_V 0.87 0.25 0.00
45_W 74_G 0.86 0.25 0.00
38_K 61_L 0.86 0.24 0.00
13_K 71_W 0.85 0.24 0.00
61_P 62_A 0.85 0.23 0.00
53_A 19_K 0.83 0.22 0.00
34_T 58_I 0.82 0.22 0.00
19_G 78_P 0.81 0.21 0.00
23_N 77_V 0.79 0.19 0.00
53_A 4_D 0.78 0.19 0.00
52_K 45_Q 0.78 0.19 0.00
35_V 72_L 0.78 0.19 0.00
16_E 43_L 0.77 0.19 0.00
25_A 22_D 0.77 0.18 0.00
64_I 66_G 0.77 0.18 0.00
19_G 47_V 0.76 0.18 0.00
64_I 51_Q 0.76 0.18 0.00
8_S 15_E 0.76 0.18 0.00
53_A 67_V 0.75 0.18 0.00
68_F 73_M 0.75 0.17 0.00
20_T 14_A 0.75 0.17 0.00
10_L 61_L 0.75 0.17 0.00
13_K 65_L 0.74 0.17 0.00
25_A 57_R 0.74 0.17 0.00
58_E 50_V 0.74 0.17 0.00
58_E 18_L 0.74 0.17 0.00
31_S 23_I 0.73 0.17 0.00
69_F 73_M 0.73 0.16 0.00
41_D 43_L 0.73 0.16 0.00
28_M 49_S 0.72 0.16 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
10711 0.44 MORNTD Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: Jackhmmer (r132) 0.00 Done - Shared
9376 0.87 MORNTD Δgene:(1, 10) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) 0.47 Done - Shared
9348 0.43 MORNTD Δgene:(1, 1) A:(1E-20, 8) B:(1E-20, 8) msa: Jackhmmer (r132) 0.00 Done - Shared
9347 0.83 MORNTD Δgene:(1, 1) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) 0.11 Done - Shared
9346 0.24 MORNTD Δgene:(1, 1) A:(1E-10, 8) B:(1E-10, 8) msa: HHblits (2015_06) Killed - Shared
9345 1.05 MORNTD Δgene:(1, ∞) A:(1E-10, 8) B:(1E-10, 8) msa: HHblits (2015_06) 0.00 Done - Shared
9343 0.42 MORNTD Δgene:(1, 20) A:(1E-10, 8) B:(1E-10, 8) msa: HHblits (2015_06) 0.59 Done - Shared
9338 0.91 MORNTD Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) 0.07 Done - Shared
Page generated in 0.5394 seconds.