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OPENSEQ.org
4FHR-2
Genes: A B A+B
Length: 182 160 342
Sequences: 796 995 511
Seq/Len: 4.37 6.22 1.49
MirrorTree (Pazo et al. 2001) 0.85
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 0.00 0.00 0.03
2 0.00 0.00 0.06
5 0.00 0.00 0.23
10 0.00 0.00 0.94
20 0.00 0.00 1.49
100 0.00 0.01 1.74
∞ 0.02 0.04 2.08
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
102_I 18_T 2.07 0.98 0.94
158_V 70_K 1.70 0.94 0.82
118_L 32_A 1.56 0.89 0.73
179_L 40_E 1.50 0.86 0.68
82_M 19_I 1.49 0.86 0.67
60_I 4_P 1.49 0.85 0.67
52_V 141_L 1.48 0.85 0.66
36_V 93_M 1.48 0.85 0.66
110_E 140_V 1.43 0.82 0.62
125_F 144_V 1.43 0.82 0.62
158_V 32_A 1.41 0.81 0.60
137_T 27_D 1.40 0.81 0.59
16_E 47_L 1.38 0.79 0.57
18_F 149_L 1.37 0.78 0.56
98_P 144_V 1.37 0.78 0.56
141_F 93_M 1.37 0.78 0.56
139_P 54_E 1.33 0.75 0.52
99_P 147_R 1.30 0.73 0.49
130_P 56_T 1.24 0.68 0.43
152_L 135_R 1.23 0.67 0.42
135_V 32_A 1.21 0.65 0.40
105_S 63_E 1.21 0.65 0.39
151_V 45_E 1.19 0.63 0.38
31_R 115_L 1.17 0.61 0.35
160_W 72_I 1.16 0.60 0.35
87_M 109_V 1.16 0.60 0.34
149_E 115_L 1.15 0.59 0.34
100_T 107_K 1.15 0.59 0.33
137_T 92_I 1.14 0.59 0.33
58_I 123_M 1.13 0.57 0.32
86_I 7_L 1.13 0.57 0.32
80_Y 15_H 1.12 0.56 0.31
125_F 73_S 1.12 0.56 0.31
138_N 142_R 1.11 0.55 0.30
71_I 60_V 1.10 0.54 0.29
35_D 23_L 1.10 0.54 0.29
79_F 137_I 1.09 0.54 0.28
171_W 53_L 1.08 0.52 0.27
83_L 27_D 1.07 0.51 0.26
158_V 121_R 1.06 0.51 0.26
41_D 114_E 1.06 0.50 0.25
88_G 17_Q 1.05 0.49 0.25
88_G 126_F 1.05 0.49 0.25
58_I 19_I 1.05 0.49 0.24
46_E 32_A 1.03 0.47 0.23
113_N 91_E 1.03 0.47 0.23
160_W 34_I 1.03 0.47 0.23
179_L 24_S 1.03 0.47 0.23
76_L 157_S 1.02 0.46 0.22
49_I 125_V 1.02 0.46 0.22
103_E 14_E 1.02 0.46 0.22
79_F 78_R 1.01 0.45 0.21
139_P 128_D 1.01 0.45 0.21
110_E 41_E 1.01 0.45 0.21
117_L 12_Q 1.00 0.44 0.20
138_N 104_I 0.99 0.43 0.20
146_P 45_E 0.99 0.43 0.20
106_I 4_P 0.99 0.43 0.19
40_I 158_D 0.99 0.43 0.19
77_D 70_K 0.98 0.42 0.19
155_T 23_L 0.98 0.42 0.19
152_L 60_V 0.98 0.42 0.19
9_R 6_Q 0.98 0.42 0.19
149_E 51_A 0.98 0.42 0.19
114_M 127_E 0.97 0.41 0.18
4_S 151_L 0.97 0.41 0.18
69_S 87_D 0.97 0.41 0.18
45_Y 84_G 0.97 0.41 0.18
123_S 159_E 0.97 0.41 0.18
22_L 89_A 0.96 0.40 0.18
8_L 92_I 0.96 0.40 0.17
181_E 116_A 0.96 0.40 0.17
31_R 25_Y 0.96 0.40 0.17
131_S 26_L 0.96 0.40 0.17
89_G 123_M 0.95 0.39 0.17
89_G 156_A 0.95 0.39 0.17
105_S 79_T 0.95 0.39 0.17
69_S 22_V 0.95 0.39 0.17
177_E 143_E 0.95 0.39 0.17
108_R 144_V 0.95 0.39 0.17
101_E 71_K 0.94 0.38 0.17
41_D 47_L 0.94 0.38 0.16
65_V 90_A 0.94 0.38 0.16
91_G 160_L 0.94 0.38 0.16
30_L 97_D 0.94 0.38 0.16
171_W 2_M 0.94 0.38 0.16
36_V 91_E 0.94 0.37 0.16
75_R 32_A 0.93 0.37 0.16
106_I 59_E 0.93 0.37 0.16
16_E 23_L 0.93 0.37 0.16
30_L 104_I 0.93 0.37 0.15
47_E 73_S 0.93 0.37 0.15
91_G 116_A 0.93 0.37 0.15
20_R 138_Q 0.93 0.37 0.15
173_F 29_P 0.93 0.37 0.15
75_R 82_K 0.93 0.37 0.15
167_I 98_R 0.93 0.36 0.15
12_Q 155_G 0.92 0.36 0.15
159_S 121_R 0.92 0.36 0.15
144_I 45_E 0.92 0.36 0.15
18_F 86_I 0.92 0.36 0.15
178_P 135_R 0.92 0.36 0.15
108_R 32_A 0.92 0.36 0.15
24_T 90_A 0.92 0.36 0.15
79_F 128_D 0.92 0.36 0.15
72_F 144_V 0.92 0.35 0.15
25_Y 129_I 0.91 0.35 0.14
33_F 68_L 0.91 0.35 0.14
148_N 108_L 0.90 0.34 0.14
18_F 85_G 0.90 0.34 0.14
150_I 132_L 0.90 0.34 0.14
169_V 5_V 0.90 0.34 0.14
75_R 103_K 0.89 0.33 0.13
142_V 61_V 0.89 0.33 0.13
30_L 58_P 0.89 0.33 0.13
29_R 47_L 0.89 0.33 0.13
71_I 91_E 0.89 0.33 0.13
51_S 38_L 0.89 0.33 0.13
152_L 107_K 0.89 0.33 0.13
4_S 57_S 0.88 0.33 0.13
66_F 51_A 0.88 0.33 0.13
29_R 157_S 0.88 0.33 0.13
110_E 154_K 0.88 0.32 0.12
21_A 11_L 0.87 0.32 0.12
60_I 91_E 0.87 0.31 0.12
8_L 35_L 0.87 0.31 0.12
169_V 107_K 0.86 0.31 0.12
145_V 62_K 0.86 0.31 0.12
148_N 119_I 0.86 0.31 0.12
148_N 46_V 0.86 0.31 0.12
35_D 93_M 0.86 0.31 0.12
61_F 83_V 0.86 0.30 0.11
89_G 14_E 0.85 0.30 0.11
6_E 141_L 0.85 0.30 0.11
85_I 128_D 0.85 0.30 0.11
102_I 128_D 0.85 0.30 0.11
162_E 33_Q 0.85 0.30 0.11
114_M 130_L 0.85 0.29 0.11
148_N 110_Q 0.85 0.29 0.11
56_S 100_T 0.85 0.29 0.11
171_W 125_V 0.85 0.29 0.11
163_F 4_P 0.84 0.29 0.11
84_D 64_I 0.84 0.29 0.11
52_V 125_V 0.84 0.29 0.11
12_Q 27_D 0.84 0.29 0.11
63_G 140_V 0.84 0.29 0.11
167_I 120_R 0.84 0.29 0.11
132_I 38_L 0.84 0.29 0.10
149_E 131_K 0.84 0.29 0.10
6_E 33_Q 0.84 0.28 0.10
88_G 152_A 0.83 0.28 0.10
106_I 32_A 0.83 0.28 0.10
99_P 8_V 0.83 0.28 0.10
3_F 108_L 0.83 0.28 0.10
153_L 7_L 0.83 0.28 0.10
96_N 19_I 0.83 0.28 0.10
180_L 56_T 0.83 0.28 0.10
59_V 64_I 0.83 0.28 0.10
16_E 28_P 0.83 0.28 0.10
141_F 55_R 0.83 0.28 0.10
106_I 21_V 0.82 0.28 0.10
78_L 122_R 0.82 0.27 0.10
46_E 43_Q 0.82 0.27 0.10
176_L 65_E 0.82 0.27 0.10
76_L 112_N 0.82 0.27 0.10
16_E 152_A 0.82 0.27 0.09
71_I 136_S 0.82 0.27 0.09
74_M 159_E 0.81 0.27 0.09
80_Y 39_P 0.81 0.27 0.09
57_F 32_A 0.81 0.27 0.09
134_N 23_L 0.81 0.27 0.09
108_R 91_E 0.81 0.26 0.09
166_F 158_D 0.81 0.26 0.09
142_V 86_I 0.81 0.26 0.09
141_F 135_R 0.81 0.26 0.09
36_V 76_V 0.81 0.26 0.09
156_A 45_E 0.81 0.26 0.09
166_F 32_A 0.81 0.26 0.09
72_F 32_A 0.81 0.26 0.09
175_L 125_V 0.81 0.26 0.09
9_R 65_E 0.81 0.26 0.09
85_I 18_T 0.81 0.26 0.09
73_E 140_V 0.80 0.26 0.09
34_V 67_N 0.80 0.26 0.09
130_P 90_A 0.80 0.26 0.09
62_T 139_L 0.80 0.26 0.09
41_D 83_V 0.80 0.26 0.09
145_V 125_V 0.80 0.26 0.09
53_M 136_S 0.80 0.26 0.09
80_Y 49_R 0.80 0.25 0.09
70_A 110_Q 0.80 0.25 0.09
145_V 111_E 0.80 0.25 0.09
173_F 134_D 0.80 0.25 0.09
98_P 158_D 0.79 0.25 0.08
99_P 48_K 0.79 0.25 0.08
36_V 118_E 0.79 0.25 0.08
31_R 9_N 0.79 0.25 0.08
71_I 7_L 0.79 0.25 0.08
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
13628 1.48 4FHR-2 Δgene:(1, 20) A:(1E-20, 4) B:(1E-20, 8) msa: HHblits (2015_06) 0.95 Done
13627 4FHR-2 Δgene:(1, 20) A:(1E-20, 4) B:(1E-20, 8) msa: HHblits (2015_06) Running
13313 1.49 4FHR-2 Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) 0.94 Done - Shared
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