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OPENSEQ.org
MORNTD
Genes: A B A+B
Length: 74 80 140
Sequences: 222 8707 127
Seq/Len: 3 108.84 0.91
MirrorTree (Pazo et al. 2001) 0.59
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 0.04 0.75
2 0.04 0.05 0.77
5 0.04 0.07 0.79
10 0.05 0.09 0.79
20 0.05 0.11 0.82
100 0.06 0.16 0.88
∞ 0.08 0.21 1.03
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
57_L 65_L 1.65 0.83 0.07
67_Y 71_W 1.55 0.78 0.06
15_T 63_K 1.41 0.67 0.04
50_I 55_Q 1.40 0.67 0.04
45_W 23_I 1.32 0.60 0.03
41_D 13_M 1.31 0.59 0.03
50_I 58_I 1.30 0.58 0.03
47_D 58_I 1.26 0.54 0.03
45_W 10_K 1.25 0.53 0.02
64_I 75_F 1.16 0.45 0.02
21_Q 46_Y 1.11 0.42 0.02
16_E 19_K 1.10 0.40 0.01
65_P 56_N 1.08 0.38 0.01
53_A 5_T 1.07 0.37 0.01
72_K 40_K 0.99 0.32 0.01
67_Y 75_F 0.98 0.30 0.01
13_K 50_V 0.98 0.30 0.01
30_L 23_I 0.97 0.30 0.01
64_I 46_Y 0.96 0.29 0.01
4_S 78_P 0.95 0.28 0.01
57_L 42_T 0.94 0.27 0.01
16_E 8_R 0.94 0.27 0.01
55_H 22_D 0.93 0.27 0.01
15_T 15_E 0.93 0.27 0.01
28_M 16_R 0.93 0.26 0.01
25_A 71_W 0.91 0.25 0.01
23_N 16_R 0.91 0.25 0.01
41_D 58_I 0.90 0.24 0.01
60_N 4_D 0.89 0.24 0.01
36_S 65_L 0.89 0.24 0.01
25_A 70_A 0.89 0.24 0.01
28_M 66_G 0.88 0.23 0.01
10_L 8_R 0.88 0.23 0.01
54_V 17_N 0.87 0.23 0.01
18_C 13_M 0.87 0.23 0.01
58_E 62_A 0.86 0.22 0.01
32_E 18_L 0.86 0.22 0.01
27_A 61_L 0.86 0.22 0.01
58_E 17_N 0.85 0.22 0.01
36_S 38_L 0.85 0.22 0.01
23_N 58_I 0.85 0.21 0.01
25_A 24_L 0.83 0.20 0.01
34_T 18_L 0.82 0.20 0.01
64_I 67_V 0.82 0.20 0.01
74_H 45_Q 0.82 0.20 0.01
18_C 68_S 0.81 0.19 0.01
64_I 56_N 0.81 0.19 0.01
20_T 46_Y 0.81 0.19 0.01
56_V 63_K 0.80 0.19 0.01
69_F 18_L 0.80 0.19 0.01
14_I 20_Q 0.80 0.18 0.01
49_E 62_A 0.80 0.18 0.01
39_L 51_Q 0.80 0.18 0.01
11_L 25_N 0.79 0.18 0.01
31_S 39_S 0.79 0.18 0.01
68_F 37_K 0.79 0.18 0.01
31_S 45_Q 0.78 0.18 0.01
50_I 19_K 0.78 0.18 0.01
39_L 71_W 0.78 0.17 0.01
45_W 47_V 0.76 0.17 0.00
20_T 64_T 0.76 0.16 0.00
58_E 48_N 0.76 0.16 0.00
24_F 21_V 0.75 0.16 0.00
12_G 46_Y 0.75 0.16 0.00
55_H 41_S 0.75 0.16 0.00
43_V 75_F 0.75 0.16 0.00
31_S 18_L 0.75 0.16 0.00
60_N 76_D 0.74 0.16 0.00
56_V 7_N 0.74 0.15 0.00
74_H 55_Q 0.74 0.15 0.00
39_L 56_N 0.74 0.15 0.00
39_L 44_S 0.73 0.15 0.00
47_D 5_T 0.73 0.15 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
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