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OPENSEQ.org
MORNTD
Genes: A B A+B
Length: 74 80 140
Sequences: 222 8707 122
Seq/Len: 3 108.84 0.87
MirrorTree (Pazo et al. 2001) 0.64
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 1.90 0.92 0.47
67_Y 71_W 1.81 0.89 0.40
45_W 23_I 1.64 0.82 0.28
50_I 58_I 1.55 0.76 0.22
47_D 58_I 1.38 0.63 0.14
41_D 13_M 1.36 0.62 0.13
15_T 63_K 1.32 0.59 0.12
64_I 75_F 1.24 0.51 0.09
21_Q 46_Y 1.23 0.50 0.08
50_I 55_Q 1.20 0.48 0.07
45_W 10_K 1.14 0.42 0.06
53_A 5_T 1.07 0.37 0.05
72_K 40_K 1.06 0.36 0.04
30_L 23_I 1.04 0.34 0.04
23_N 16_R 1.03 0.33 0.04
65_P 56_N 1.02 0.33 0.04
67_Y 75_F 1.02 0.33 0.04
64_I 46_Y 1.00 0.31 0.04
31_S 18_L 0.99 0.30 0.04
55_H 22_D 0.98 0.30 0.03
28_M 66_G 0.98 0.30 0.03
18_C 9_L 0.96 0.28 0.03
13_K 50_V 0.96 0.28 0.03
49_E 62_A 0.94 0.27 0.03
58_E 17_N 0.94 0.27 0.03
58_E 62_A 0.93 0.26 0.03
4_S 78_P 0.91 0.25 0.03
60_N 76_D 0.91 0.25 0.03
20_T 64_T 0.90 0.24 0.02
18_C 68_S 0.89 0.23 0.02
20_T 46_Y 0.89 0.23 0.02
23_N 58_I 0.89 0.23 0.02
56_V 63_K 0.88 0.23 0.02
27_A 61_L 0.88 0.23 0.02
34_T 18_L 0.88 0.22 0.02
32_E 18_L 0.87 0.22 0.02
39_L 71_W 0.87 0.22 0.02
14_I 20_Q 0.86 0.22 0.02
18_C 13_M 0.86 0.21 0.02
64_I 71_W 0.85 0.21 0.02
47_D 5_T 0.85 0.21 0.02
60_N 4_D 0.85 0.21 0.02
45_W 47_V 0.84 0.20 0.02
15_T 14_A 0.84 0.20 0.02
74_H 55_Q 0.84 0.20 0.02
25_A 71_W 0.84 0.20 0.02
57_L 42_T 0.83 0.20 0.02
16_E 19_K 0.83 0.20 0.02
15_T 15_E 0.83 0.20 0.02
69_F 18_L 0.83 0.19 0.02
10_L 8_R 0.82 0.19 0.02
16_E 8_R 0.81 0.19 0.02
70_N 68_S 0.81 0.19 0.02
64_I 67_V 0.81 0.19 0.02
25_A 70_A 0.80 0.18 0.01
74_H 45_Q 0.80 0.18 0.01
36_S 38_L 0.79 0.18 0.01
12_G 46_Y 0.79 0.18 0.01
59_L 75_F 0.79 0.17 0.01
54_V 64_T 0.79 0.17 0.01
64_I 20_Q 0.78 0.17 0.01
73_V 19_K 0.78 0.17 0.01
45_W 43_L 0.78 0.17 0.01
36_S 65_L 0.78 0.17 0.01
36_S 42_T 0.77 0.17 0.01
23_N 10_K 0.77 0.16 0.01
28_M 52_S 0.76 0.16 0.01
16_E 45_Q 0.76 0.16 0.01
13_K 71_W 0.75 0.16 0.01
28_M 16_R 0.75 0.15 0.01
9_S 8_R 0.74 0.15 0.01
50_I 19_K 0.74 0.15 0.01
4_S 42_T 0.74 0.15 0.01
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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