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OPENSEQ.org
3G5O_A_B
Genes: A B A+B
Length: 108 102 178
Sequences: 122 1107 69
Seq/Len: 1.13 10.85 0.39
MirrorTree (Pazo et al. 2001) 0.71
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 0.02 0.00 0.32
2 0.02 0.01 0.32
5 0.02 0.01 0.32
10 0.02 0.01 0.33
20 0.02 0.02 0.33
100 0.02 0.04 0.34
∞ 0.11 0.10 0.40
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
61_W 78_L 2.24 0.89 0.50
38_K 29_D 1.43 0.44 0.07
19_K 88_V 1.42 0.43 0.07
50_D 43_E 1.41 0.42 0.07
87_D 93_V 1.38 0.40 0.06
66_G 22_F 1.37 0.40 0.06
87_D 87_T 1.34 0.38 0.05
39_N 54_L 1.32 0.36 0.05
33_Q 79_Y 1.31 0.35 0.05
33_Q 57_G 1.30 0.35 0.05
74_A 89_V 1.25 0.32 0.04
36_I 36_R 1.23 0.31 0.04
73_E 23_T 1.21 0.29 0.03
31_Q 38_L 1.20 0.28 0.03
86_E 46_F 1.18 0.28 0.03
75_D 67_T 1.18 0.27 0.03
16_I 61_R 1.15 0.26 0.03
43_A 30_L 1.15 0.26 0.03
31_Q 33_L 1.12 0.24 0.02
51_E 77_L 1.12 0.24 0.02
18_G 102_R 1.10 0.23 0.02
70_S 48_D 1.09 0.23 0.02
47_V 84_E 1.09 0.23 0.02
75_D 80_R 1.08 0.22 0.02
39_N 48_D 1.07 0.22 0.02
76_A 20_V 1.07 0.22 0.02
47_V 93_V 1.06 0.21 0.02
74_A 20_V 1.04 0.20 0.02
51_E 38_L 1.04 0.20 0.02
68_R 82_D 1.04 0.20 0.02
89_I 87_T 1.03 0.20 0.02
51_E 33_L 1.03 0.20 0.02
63_A 21_R 1.02 0.19 0.02
49_A 25_T 1.02 0.19 0.02
79_A 63_E 1.02 0.19 0.02
65_P 92_R 1.01 0.19 0.01
87_D 30_L 1.00 0.18 0.01
91_A 82_D 1.00 0.18 0.01
55_L 83_D 1.00 0.18 0.01
33_Q 35_P 0.99 0.18 0.01
71_I 62_R 0.99 0.18 0.01
32_D 75_Y 0.99 0.18 0.01
59_L 45_A 0.99 0.18 0.01
59_L 66_G 0.99 0.18 0.01
91_A 93_V 0.98 0.18 0.01
50_D 36_R 0.98 0.18 0.01
12_P 91_L 0.98 0.17 0.01
94_G 41_V 0.98 0.17 0.01
77_D 25_T 0.97 0.17 0.01
75_D 61_R 0.96 0.17 0.01
12_P 41_V 0.96 0.17 0.01
87_D 51_R 0.95 0.17 0.01
85_G 77_L 0.95 0.16 0.01
8_M 44_F 0.95 0.16 0.01
47_V 33_L 0.95 0.16 0.01
17_K 97_A 0.95 0.16 0.01
59_L 99_I 0.95 0.16 0.01
87_D 47_G 0.95 0.16 0.01
73_E 101_R 0.94 0.16 0.01
77_D 99_I 0.94 0.16 0.01
74_A 80_R 0.93 0.16 0.01
77_D 23_T 0.93 0.15 0.01
79_A 23_T 0.92 0.15 0.01
97_R 59_P 0.92 0.15 0.01
92_E 27_R 0.92 0.15 0.01
54_S 92_R 0.92 0.15 0.01
71_I 31_H 0.92 0.15 0.01
39_N 75_Y 0.91 0.15 0.01
39_N 57_G 0.91 0.15 0.01
57_E 58_K 0.91 0.15 0.01
85_G 31_H 0.91 0.15 0.01
42_P 64_L 0.89 0.14 0.01
31_Q 40_A 0.89 0.14 0.01
37_T 73_G 0.89 0.14 0.01
45_V 47_G 0.89 0.14 0.01
71_I 91_L 0.89 0.14 0.01
32_D 77_L 0.89 0.14 0.01
64_Q 78_L 0.89 0.14 0.01
63_A 50_S 0.89 0.14 0.01
8_M 81_I 0.88 0.14 0.01
41_A 22_F 0.88 0.14 0.01
84_Y 88_V 0.88 0.14 0.01
57_E 69_S 0.87 0.14 0.01
89_I 86_T 0.87 0.14 0.01
14_S 18_Y 0.86 0.13 0.01
22_E 98_D 0.86 0.13 0.01
88_E 99_I 0.86 0.13 0.01
36_I 97_A 0.86 0.13 0.01
78_I 41_V 0.86 0.13 0.01
42_P 47_G 0.85 0.13 0.01
27_V 98_D 0.85 0.13 0.01
90_R 20_V 0.85 0.13 0.01
34_I 84_E 0.84 0.12 0.01
85_G 41_V 0.84 0.12 0.01
72_A 61_R 0.84 0.12 0.01
60_Y 23_T 0.84 0.12 0.01
50_D 52_E 0.84 0.12 0.01
84_Y 89_V 0.83 0.12 0.01
65_P 23_T 0.83 0.12 0.01
89_I 99_I 0.83 0.12 0.01
78_I 93_V 0.83 0.12 0.01
10_I 21_R 0.83 0.12 0.01
18_G 81_I 0.83 0.12 0.01
85_G 27_R 0.83 0.12 0.01
97_R 54_L 0.82 0.12 0.01
10_I 23_T 0.82 0.12 0.01
19_K 87_T 0.82 0.12 0.01
69_E 19_T 0.82 0.12 0.01
26_A 20_V 0.82 0.12 0.01
29_S 51_R 0.82 0.12 0.01
10_I 51_R 0.81 0.12 0.01
43_A 34_P 0.81 0.12 0.01
19_K 75_Y 0.81 0.12 0.01
49_A 24_T 0.81 0.12 0.01
66_G 97_A 0.81 0.12 0.01
31_Q 70_A 0.81 0.12 0.01
52_W 32_K 0.81 0.12 0.01
37_T 75_Y 0.81 0.11 0.01
46_L 24_T 0.81 0.11 0.01
64_Q 67_T 0.81 0.11 0.01
38_K 36_R 0.80 0.11 0.01
27_V 57_G 0.80 0.11 0.01
24_V 40_A 0.80 0.11 0.01
32_D 97_A 0.80 0.11 0.01
49_A 31_H 0.79 0.11 0.01
63_A 15_M 0.79 0.11 0.01
10_I 20_V 0.79 0.11 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
7270 0.75 3G5O_A_B Δgene:(1, 20) A:(1E-10, 8) B:(1E-20, 8) msa: HHblits (2015_06) 0.01 Done - Shared
7262 0.39 3G5O_A_B Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) 0.50 Done - Shared
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