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OPENSEQ.org
MORNTD
Genes: A B A+B
Length: 74 80 139
Sequences: 34720 28717 58
Seq/Len: 469.19 358.96 0.42
MirrorTree (Pazo et al. 2001) 0.51
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 0.93
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
25_A 61_L 2.26 0.91 0.59
35_V 66_G 1.63 0.61 0.17
29_G 53_P 1.34 0.39 0.07
29_G 66_G 1.33 0.39 0.07
31_S 72_L 1.31 0.38 0.06
15_T 37_K 1.24 0.33 0.05
48_D 50_V 1.24 0.32 0.05
10_L 65_L 1.21 0.31 0.04
10_L 71_W 1.21 0.30 0.04
31_S 39_S 1.19 0.29 0.04
69_F 73_M 1.18 0.29 0.04
54_V 65_L 1.15 0.27 0.03
5_Y 6_S 1.13 0.26 0.03
29_G 17_N 1.13 0.26 0.03
12_G 49_S 1.11 0.25 0.03
46_K 27_S 1.11 0.25 0.03
15_T 9_L 1.10 0.24 0.03
18_C 7_N 1.06 0.22 0.02
30_L 25_N 1.05 0.22 0.02
41_D 24_L 1.05 0.21 0.02
24_F 17_N 1.05 0.21 0.02
16_E 60_L 1.02 0.20 0.02
13_K 65_L 1.00 0.19 0.02
35_V 70_A 0.99 0.19 0.02
34_T 52_S 0.99 0.19 0.02
16_E 70_A 0.98 0.19 0.02
58_E 25_N 0.98 0.18 0.02
35_V 52_S 0.98 0.18 0.02
10_L 68_S 0.98 0.18 0.02
31_S 10_K 0.98 0.18 0.02
21_Q 44_S 0.96 0.17 0.01
63_D 68_S 0.96 0.17 0.01
20_T 56_N 0.96 0.17 0.01
15_T 43_L 0.95 0.17 0.01
31_S 76_D 0.94 0.17 0.01
27_A 42_T 0.94 0.17 0.01
18_C 76_D 0.94 0.17 0.01
42_K 74_G 0.93 0.16 0.01
33_R 8_R 0.92 0.16 0.01
24_F 62_A 0.92 0.16 0.01
52_K 67_V 0.92 0.16 0.01
68_F 73_M 0.91 0.15 0.01
22_Y 9_L 0.91 0.15 0.01
30_L 27_S 0.90 0.15 0.01
29_G 49_S 0.89 0.15 0.01
40_N 65_L 0.89 0.15 0.01
66_K 11_Q 0.88 0.14 0.01
49_E 58_I 0.87 0.14 0.01
52_K 68_S 0.87 0.14 0.01
63_D 19_K 0.87 0.14 0.01
59_L 55_Q 0.86 0.14 0.01
14_I 76_D 0.86 0.14 0.01
8_S 15_E 0.86 0.14 0.01
62_Q 9_L 0.86 0.14 0.01
14_I 73_M 0.85 0.13 0.01
46_K 24_L 0.85 0.13 0.01
36_S 53_P 0.85 0.13 0.01
10_L 8_R 0.85 0.13 0.01
48_D 38_L 0.83 0.13 0.01
13_K 46_Y 0.82 0.12 0.01
69_F 69_E 0.82 0.12 0.01
57_L 74_G 0.82 0.12 0.01
50_I 39_S 0.81 0.12 0.01
71_A 78_P 0.80 0.12 0.01
55_H 62_A 0.80 0.12 0.01
56_V 49_S 0.80 0.12 0.01
41_D 15_E 0.80 0.12 0.01
69_F 74_G 0.79 0.12 0.01
51_L 23_I 0.79 0.11 0.01
45_W 37_K 0.79 0.11 0.01
13_K 71_W 0.78 0.11 0.01
67_Y 46_Y 0.78 0.11 0.01
62_Q 5_T 0.78 0.11 0.01
64_I 69_E 0.78 0.11 0.01
67_Y 77_V 0.78 0.11 0.01
25_A 57_R 0.78 0.11 0.01
30_L 53_P 0.77 0.11 0.01
48_D 42_T 0.76 0.11 0.01
24_F 38_L 0.76 0.11 0.01
46_K 73_M 0.76 0.10 0.01
6_D 12_I 0.75 0.10 0.01
58_E 9_L 0.75 0.10 0.01
42_K 9_L 0.75 0.10 0.01
38_K 61_L 0.75 0.10 0.01
64_I 51_Q 0.75 0.10 0.01
47_D 23_I 0.75 0.10 0.01
50_I 76_D 0.74 0.10 0.01
9_S 11_Q 0.74 0.10 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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