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OPENSEQ.org
subEF
Genes: A B A+B
Length: 241 263 475
Sequences: 4041 2261 1874
Seq/Len: 16.77 8.6 3.95
MirrorTree (Pazo et al. 2001) 0.97
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 0.09 0.12 3.63
2 0.10 0.12 3.65
5 0.11 0.12 3.66
10 0.11 0.12 3.66
20 0.12 0.13 3.66
100 0.16 0.14 3.68
∞ 0.25 0.23 3.72
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
192_K 185_N 4.48 1.00 1.00
193_E 186_E 4.37 1.00 1.00
232_E 227_D 4.33 1.00 1.00
195_I 188_V 4.19 1.00 1.00
230_T 225_D 4.18 1.00 1.00
196_K 189_K 4.11 1.00 1.00
217_L 212_I 4.09 1.00 1.00
43_S 41_K 4.07 1.00 1.00
72_A 68_N 4.06 1.00 1.00
235_E 230_S 4.05 1.00 1.00
236_E 231_P 3.99 1.00 1.00
40_I 38_L 3.96 1.00 1.00
44_E 42_T 3.88 1.00 1.00
38_I 36_V 3.87 1.00 1.00
76_C 72_I 3.86 1.00 1.00
146_V 137_Y 3.84 1.00 1.00
106_T 102_P 3.83 1.00 1.00
67_I 63_I 3.83 1.00 1.00
74_I 70_I 3.82 1.00 1.00
219_T 214_I 3.81 1.00 1.00
200_I 193_R 3.77 1.00 1.00
143_F 134_I 3.76 1.00 1.00
212_A 207_T 3.73 1.00 1.00
199_L 192_L 3.73 1.00 1.00
231_K 226_D 3.72 1.00 1.00
227_H 222_T 3.71 1.00 1.00
70_I 66_V 3.65 1.00 1.00
213_T 208_K 3.65 1.00 1.00
116_V 112_I 3.63 1.00 1.00
191_L 184_L 3.62 1.00 1.00
234_L 229_V 3.61 1.00 1.00
109_V 105_V 3.60 1.00 1.00
186_H 177_S 3.59 1.00 1.00
211_N 206_T 3.57 1.00 1.00
69_E 65_H 3.55 1.00 1.00
41_Q 39_K 3.53 1.00 1.00
154_F 145_F 3.52 1.00 1.00
166_D 157_R 3.51 1.00 1.00
223_G 218_D 3.51 1.00 1.00
102_T 98_V 3.50 1.00 1.00
163_V 154_F 3.50 1.00 1.00
168_R 159_M 3.48 1.00 1.00
233_E 228_D 3.48 1.00 1.00
187_K 178_E 3.47 1.00 1.00
218_A 213_G 3.44 1.00 1.00
184_V 175_H 3.44 1.00 1.00
104_N 100_D 3.43 1.00 1.00
237_V 232_F 3.43 1.00 1.00
148_E 139_D 3.42 1.00 1.00
229_F 224_Y 3.40 1.00 1.00
89_I 85_C 3.39 1.00 1.00
204_Q 197_E 3.39 1.00 1.00
54_I 52_A 3.39 1.00 1.00
215_I 210_V 3.39 1.00 1.00
221_Q 216_G 3.37 1.00 1.00
48_L 46_L 3.35 1.00 1.00
107_M 103_L 3.35 1.00 1.00
176_G 167_S 3.35 1.00 1.00
220_V 215_V 3.32 1.00 1.00
94_V 90_Q 3.31 1.00 1.00
198_S 191_G 3.30 1.00 1.00
68_V 64_L 3.29 1.00 1.00
47_C 45_V 3.29 1.00 1.00
149_K 140_M 3.28 1.00 1.00
188_S 179_F 3.26 1.00 1.00
144_G 135_A 3.26 1.00 1.00
90_D 86_N 3.24 1.00 1.00
152_Q 143_H 3.24 1.00 1.00
98_N 94_D 3.23 1.00 1.00
55_T 53_Q 3.23 1.00 1.00
179_S 170_T 3.23 1.00 1.00
203_K 196_R 3.22 1.00 1.00
115_A 111_L 3.22 1.00 1.00
110_E 106_S 3.21 1.00 1.00
100_W 96_R 3.21 1.00 1.00
49_A 47_V 3.20 1.00 1.00
228_M 223_I 3.17 1.00 1.00
108_T 104_P 3.17 1.00 1.00
222_P 217_K 3.16 1.00 1.00
239_K 234_E 3.16 1.00 1.00
175_E 166_Q 3.15 1.00 1.00
46_V 44_A 3.14 1.00 1.00
122_Q 118_I 3.11 1.00 1.00
169_A 160_S 3.11 1.00 1.00
185_Y 176_M 3.10 1.00 1.00
87_T 83_L 3.10 1.00 1.00
170_I 161_I 3.09 1.00 1.00
178_Q 169_R 3.09 1.00 1.00
183_E 174_R 3.07 1.00 1.00
162_F 153_Y 3.07 1.00 1.00
205_V 198_T 3.07 1.00 1.00
174_S 165_S 3.04 1.00 1.00
77_A 73_S 3.04 1.00 1.00
113_T 109_V 3.02 1.00 1.00
114_Q 110_S 3.01 1.00 1.00
37_A 35_T 2.97 1.00 1.00
180_S 171_Y 2.96 1.00 1.00
156_M 147_T 2.95 1.00 1.00
197_S 190_H 2.93 1.00 1.00
201_I 194_A 2.92 1.00 1.00
141_L 132_L 2.92 1.00 1.00
111_S 107_R 2.88 1.00 1.00
64_I 60_Q 2.87 1.00 1.00
75_G 71_G 2.85 1.00 1.00
91_K 87_F 2.85 1.00 1.00
50_V 48_A 2.85 1.00 1.00
105_E 101_R 2.84 1.00 1.00
210_L 205_L 2.84 1.00 1.00
225_N 220_E 2.83 1.00 1.00
42_T 40_S 2.82 1.00 1.00
118_N 114_S 2.82 1.00 1.00
117_S 113_G 2.82 1.00 1.00
238_I 233_L 2.81 1.00 1.00
142_L 133_L 2.80 1.00 1.00
139_V 130_V 2.79 1.00 1.00
164_Q 155_D 2.79 1.00 1.00
151_P 142_P 2.78 1.00 1.00
65_E 61_K 2.75 1.00 1.00
190_T 183_N 2.73 1.00 1.00
88_L 84_L 2.69 1.00 1.00
78_M 74_I 2.69 1.00 1.00
206_M 199_L 2.69 1.00 1.00
119_L 115_K 2.69 1.00 1.00
240_D 235_G 2.67 1.00 1.00
137_F 128_Y 2.65 1.00 1.00
99_H 95_S 2.64 1.00 1.00
79_S 75_A 2.64 1.00 1.00
73_H 69_H 2.64 1.00 1.00
177_A 168_A 2.63 1.00 1.00
194_A 187_L 2.61 1.00 1.00
161_T 152_N 2.58 1.00 1.00
83_A 79_A 2.57 1.00 1.00
101_F 97_F 2.57 1.00 1.00
150_G 141_G 2.56 1.00 1.00
56_S 54_S 2.54 1.00 1.00
226_F 221_F 2.54 1.00 1.00
172_S 163_A 2.54 1.00 1.00
95_E 91_E 2.52 1.00 1.00
85_A 81_A 2.52 1.00 1.00
155_H 146_Q 2.51 1.00 1.00
153_L 144_I 2.51 1.00 1.00
181_L 172_L 2.51 1.00 1.00
207_E 200_P 2.50 1.00 1.00
103_Y 99_F 2.47 1.00 1.00
35_S 33_S 2.45 1.00 1.00
57_P 55_E 2.44 1.00 1.00
120_A 116_T 2.44 1.00 1.00
81_L 77_L 2.42 1.00 1.00
214_N 209_N 2.42 1.00 1.00
53_R 51_R 2.35 1.00 1.00
92_A 88_M 2.35 1.00 1.00
173_A 164_R 2.34 1.00 0.99
31_I 29_V 2.34 1.00 0.99
224_Q 219_L 2.34 1.00 0.99
82_I 78_T 2.32 1.00 0.99
123_F 119_P 2.31 1.00 0.99
52_K 50_K 2.31 1.00 0.99
140_A 131_G 2.30 1.00 0.99
112_V 108_L 2.29 1.00 0.99
39_G 37_G 2.28 1.00 0.99
134_S 125_R 2.28 1.00 0.99
36_T 34_A 2.25 1.00 0.99
202_L 195_L 2.22 1.00 0.99
241_I 236_L 2.22 1.00 0.99
208_E 201_A 2.21 1.00 0.99
33_L 31_Q 2.19 1.00 0.99
147_D 138_D 2.18 1.00 0.99
189_M 180_M 2.16 1.00 0.99
93_R 89_R 2.13 1.00 0.99
167_A 158_A 2.13 1.00 0.99
216_E 211_S 2.12 1.00 0.99
14_T 12_V 2.12 1.00 0.99
182_Q 173_E 2.10 1.00 0.99
62_S 58_A 2.07 1.00 0.99
28_I 26_M 2.05 1.00 0.99
157_D 148_C 2.01 1.00 0.99
21_L 19_I 2.00 1.00 0.99
96_T 92_C 2.00 1.00 0.99
71_D 67_D 2.00 1.00 0.99
165_C 156_C 2.00 1.00 0.99
97_Q 93_L 1.99 1.00 0.99
63_S 59_H 1.99 1.00 0.99
12_V 10_V 1.98 1.00 0.98
58_L 56_L 1.96 1.00 0.98
32_K 30_K 1.96 1.00 0.98
86_K 82_R 1.94 1.00 0.98
22_F 20_H 1.93 1.00 0.98
189_M 182_C 1.91 1.00 0.98
24_V 22_I 1.90 1.00 0.98
126_E 122_R 1.89 1.00 0.98
159_S 150_S 1.87 1.00 0.98
34_G 32_G 1.82 0.99 0.97
29_E 27_E 1.80 0.99 0.97
6_S 4_N 1.76 0.99 0.97
51_E 49_L 1.75 0.99 0.97
13_N 11_T 1.73 0.99 0.96
18_E 16_Q 1.69 0.99 0.96
7_E 5_Q 1.67 0.99 0.95
5_R 3_R 1.58 0.98 0.94
30_A 28_A 1.57 0.98 0.94
25_E 23_E 1.53 0.98 0.93
145_G 136_G 1.51 0.98 0.92
158_P 149_P 1.50 0.97 0.92
45_G 43_H 1.50 0.97 0.92
15_F 13_W 1.49 0.97 0.91
133_M 124_G 1.49 0.97 0.91
20_R 18_R 1.42 0.96 0.89
10_R 8_N 1.42 0.96 0.89
11_G 9_D 1.41 0.96 0.88
61_P 57_A 1.37 0.95 0.87
190_T 181_E 1.36 0.95 0.86
59_M 57_A 1.34 0.94 0.85
121_L 117_Q 1.31 0.93 0.83
125_E 121_Q 1.25 0.91 0.80
26_Y 24_Y 1.21 0.89 0.77
138_G 129_G 1.21 0.89 0.77
17_P 15_P 1.14 0.85 0.70
209_K 202_E 1.08 0.80 0.64
60_E 58_A 1.07 0.80 0.64
124_G 120_T 1.06 0.79 0.63
8_Y 6_Y 1.02 0.75 0.57
16_S 14_S 1.02 0.74 0.57
127_D 123_Y 0.99 0.72 0.54
188_S 181_E 0.98 0.71 0.53
132_A 123_Y 0.97 0.70 0.52
9_D 7_D 0.96 0.68 0.51
66_K 62_K 0.90 0.61 0.43
61_P 59_H 0.84 0.53 0.35
209_K 204_D 0.83 0.52 0.34
160_G 151_A 0.82 0.51 0.34
136_P 127_P 0.80 0.48 0.31
84_D 80_D 0.79 0.46 0.29
27_A 25_A 0.76 0.42 0.26
23_Q 21_Q 0.52 0.17 0.07
198_S 47_V 0.51 0.16 0.07
131_G 122_R 0.49 0.15 0.06
19_G 17_G 0.47 0.14 0.06
49_A 191_G 0.47 0.14 0.06
130_P 122_R 0.45 0.12 0.05
131_G 123_Y 0.45 0.12 0.05
187_K 180_M 0.43 0.11 0.04
133_M 125_R 0.42 0.11 0.04
190_T 186_E 0.41 0.10 0.04
193_E 183_N 0.40 0.10 0.03
223_G 217_K 0.38 0.09 0.03
208_E 203_Q 0.34 0.07 0.02
227_H 228_D 0.34 0.07 0.02
73_H 67_D 0.33 0.07 0.02
239_K 230_S 0.33 0.07 0.02
135_R 126_R 0.32 0.07 0.02
75_G 221_F 0.32 0.06 0.02
71_D 69_H 0.32 0.06 0.02
233_E 222_T 0.32 0.06 0.02
235_E 234_E 0.30 0.06 0.01
48_L 37_G 0.29 0.06 0.01
63_S 61_K 0.29 0.06 0.01
39_G 46_L 0.28 0.05 0.01
63_S 54_S 0.28 0.05 0.01
42_T 187_L 0.28 0.05 0.01
226_F 71_G 0.28 0.05 0.01
164_Q 143_H 0.27 0.05 0.01
5_R 2_F 0.27 0.05 0.01
152_Q 155_D 0.27 0.05 0.01
89_I 89_R 0.27 0.05 0.01
186_H 179_F 0.27 0.05 0.01
5_R 4_N 0.27 0.05 0.01
194_A 40_S 0.27 0.05 0.01
5_R 5_Q 0.26 0.05 0.01
100_W 67_D 0.26 0.05 0.01
153_L 37_G 0.25 0.05 0.01
20_R 23_E 0.25 0.05 0.01
10_R 9_D 0.25 0.05 0.01
71_D 96_R 0.25 0.04 0.01
145_G 105_V 0.25 0.04 0.01
91_K 91_E 0.25 0.04 0.01
11_G 8_N 0.24 0.04 0.01
150_G 140_M 0.24 0.04 0.01
6_S 3_R 0.24 0.04 0.01
25_E 18_R 0.24 0.04 0.01
109_V 136_G 0.24 0.04 0.01
198_S 38_L 0.24 0.04 0.01
11_G 12_V 0.24 0.04 0.01
171_G 162_G 0.24 0.04 0.01
230_T 228_D 0.24 0.04 0.01
14_T 9_D 0.23 0.04 0.01
40_I 191_G 0.23 0.04 0.01
44_E 41_K 0.23 0.04 0.01
218_A 221_F 0.23 0.04 0.01
39_G 144_I 0.23 0.04 0.01
43_S 42_T 0.23 0.04 0.01
144_G 46_L 0.23 0.04 0.01
185_Y 178_E 0.23 0.04 0.01
48_L 135_A 0.22 0.04 0.01
44_E 43_H 0.22 0.04 0.01
152_Q 141_G 0.21 0.04 0.01
233_E 225_D 0.21 0.04 0.01
170_I 133_L 0.21 0.04 0.01
62_S 53_Q 0.21 0.04 0.01
13_N 19_I 0.21 0.04 0.01
7_E 3_R 0.21 0.04 0.01
45_G 42_T 0.21 0.04 0.01
74_I 105_V 0.20 0.04 0.01
5_R 1_M 0.20 0.04 0.01
21_L 11_T 0.20 0.04 0.01
44_E 40_S 0.20 0.04 0.01
46_V 135_A 0.20 0.04 0.01
142_L 161_I 0.20 0.04 0.01
8_Y 15_P 0.20 0.04 0.01
144_G 44_A 0.20 0.04 0.01
12_V 9_D 0.20 0.04 0.01
9_D 6_Y 0.20 0.04 0.01
7_E 2_F 0.20 0.04 0.01
134_S 126_R 0.20 0.04 0.01
11_G 10_V 0.20 0.04 0.01
6_S 5_Q 0.20 0.04 0.01
4_T 2_F 0.19 0.03 0.01
7_E 4_N 0.19 0.03 0.01
71_D 102_P 0.19 0.03 0.01
16_S 15_P 0.19 0.03 0.01
42_T 42_T 0.19 0.03 0.01
132_A 124_G 0.19 0.03 0.01
17_P 6_Y 0.19 0.03 0.01
17_P 14_S 0.19 0.03 0.01
77_A 35_T 0.19 0.03 0.01
19_G 21_Q 0.19 0.03 0.01
195_I 212_I 0.19 0.03 0.01
177_A 34_A 0.19 0.03 0.01
130_P 121_Q 0.19 0.03 0.01
149_K 141_G 0.19 0.03 0.01
36_T 168_A 0.19 0.03 0.01
8_Y 7_D 0.19 0.03 0.01
197_S 175_H 0.19 0.03 0.01
34_G 33_S 0.19 0.03 0.01
109_V 70_I 0.19 0.03 0.01
217_L 188_V 0.19 0.03 0.01
23_Q 17_G 0.18 0.03 0.01
37_A 73_S 0.18 0.03 0.01
4_T 4_N 0.18 0.03 0.01
106_T 101_R 0.18 0.03 0.01
229_F 229_V 0.18 0.03 0.01
80_G 76_G 0.18 0.03 0.01
23_Q 24_Y 0.18 0.03 0.01
22_F 14_S 0.18 0.03 0.01
184_V 190_H 0.18 0.03 0.01
73_H 102_P 0.18 0.03 0.01
112_V 103_L 0.18 0.03 0.00
16_S 20_H 0.18 0.03 0.00
241_I 237_E 0.18 0.03 0.00
239_K 238_E 0.18 0.03 0.00
139_V 172_L 0.17 0.03 0.00
142_L 159_M 0.17 0.03 0.00
26_Y 21_Q 0.17 0.03 0.00
168_R 133_L 0.17 0.03 0.00
184_V 193_R 0.17 0.03 0.00
138_G 126_R 0.17 0.03 0.00
27_A 24_Y 0.17 0.03 0.00
84_D 126_R 0.17 0.03 0.00
25_E 24_Y 0.17 0.03 0.00
26_Y 23_E 0.17 0.03 0.00
6_S 2_F 0.17 0.03 0.00
107_M 108_L 0.17 0.03 0.00
221_Q 218_D 0.17 0.03 0.00
35_S 32_G 0.17 0.03 0.00
84_D 129_G 0.17 0.03 0.00
226_F 213_G 0.17 0.03 0.00
6_S 8_N 0.17 0.03 0.00
106_T 69_H 0.17 0.03 0.00
26_Y 25_A 0.17 0.03 0.00
10_R 4_N 0.16 0.03 0.00
146_V 217_K 0.16 0.03 0.00
8_Y 11_T 0.16 0.03 0.00
180_S 175_H 0.16 0.03 0.00
42_T 43_H 0.16 0.03 0.00
199_L 210_V 0.16 0.03 0.00
25_E 21_Q 0.16 0.03 0.00
223_G 216_G 0.16 0.03 0.00
124_G 117_Q 0.16 0.03 0.00
32_K 27_E 0.16 0.03 0.00
133_M 123_Y 0.16 0.03 0.00
70_I 72_I 0.16 0.03 0.00
240_D 189_K 0.16 0.03 0.00
29_E 30_K 0.16 0.03 0.00
135_R 129_G 0.16 0.03 0.00
240_D 237_E 0.16 0.03 0.00
23_Q 23_E 0.15 0.03 0.00
156_M 116_T 0.15 0.03 0.00
129_D 121_Q 0.15 0.03 0.00
10_R 10_V 0.15 0.03 0.00
223_G 185_N 0.15 0.03 0.00
45_G 184_L 0.15 0.03 0.00
13_N 6_Y 0.15 0.03 0.00
24_V 23_E 0.15 0.03 0.00
11_G 4_N 0.15 0.03 0.00
181_L 130_V 0.15 0.03 0.00
215_I 192_L 0.15 0.03 0.00
194_A 43_H 0.15 0.03 0.00
200_I 175_H 0.15 0.03 0.00
133_M 121_Q 0.15 0.03 0.00
22_F 7_D 0.15 0.03 0.00
25_E 22_I 0.15 0.03 0.00
239_K 237_E 0.15 0.03 0.00
6_S 1_M 0.15 0.03 0.00
196_K 235_G 0.15 0.03 0.00
13_N 10_V 0.15 0.03 0.00
7_E 13_W 0.15 0.03 0.00
76_C 66_V 0.15 0.03 0.00
15_F 5_Q 0.15 0.03 0.00
45_G 40_S 0.15 0.03 0.00
121_L 120_T 0.15 0.03 0.00
191_L 43_H 0.15 0.03 0.00
150_G 143_H 0.15 0.03 0.00
9_D 8_N 0.15 0.03 0.00
138_G 80_D 0.15 0.03 0.00
17_P 20_H 0.14 0.03 0.00
56_S 56_L 0.14 0.03 0.00
12_V 11_T 0.14 0.03 0.00
12_V 8_N 0.14 0.03 0.00
79_S 161_I 0.14 0.03 0.00
234_L 224_Y 0.14 0.03 0.00
184_V 171_Y 0.14 0.03 0.00
83_A 78_T 0.14 0.03 0.00
6_S 9_D 0.14 0.03 0.00
241_I 238_E 0.14 0.03 0.00
27_A 23_E 0.14 0.03 0.00
22_F 15_P 0.14 0.03 0.00
122_Q 122_R 0.14 0.03 0.00
240_D 236_L 0.14 0.03 0.00
102_T 94_D 0.14 0.03 0.00
18_E 4_N 0.14 0.03 0.00
16_S 6_Y 0.14 0.03 0.00
9_D 14_S 0.14 0.03 0.00
9_D 20_H 0.14 0.03 0.00
127_D 118_I 0.14 0.03 0.00
16_S 7_D 0.14 0.03 0.00
115_A 91_E 0.14 0.03 0.00
188_S 41_K 0.14 0.03 0.00
106_T 67_D 0.14 0.03 0.00
180_S 194_A 0.14 0.03 0.00
237_V 231_P 0.14 0.03 0.00
45_G 187_L 0.14 0.03 0.00
36_T 164_R 0.14 0.03 0.00
173_A 34_A 0.14 0.03 0.00
237_V 188_V 0.14 0.03 0.00
25_E 25_A 0.14 0.03 0.00
7_E 9_D 0.14 0.03 0.00
154_F 143_H 0.14 0.03 0.00
30_A 25_A 0.14 0.03 0.00
27_A 28_A 0.13 0.03 0.00
10_R 7_D 0.13 0.03 0.00
120_A 147_T 0.13 0.03 0.00
201_I 171_Y 0.13 0.03 0.00
82_I 79_A 0.13 0.03 0.00
40_I 187_L 0.13 0.03 0.00
189_M 190_H 0.13 0.03 0.00
24_V 24_Y 0.13 0.03 0.00
21_L 22_I 0.13 0.03 0.00
117_S 106_S 0.13 0.03 0.00
222_P 216_G 0.13 0.03 0.00
23_Q 25_A 0.13 0.03 0.00
236_E 232_F 0.13 0.03 0.00
194_A 38_L 0.13 0.03 0.00
195_I 45_V 0.13 0.03 0.00
24_V 19_I 0.13 0.03 0.00
184_V 174_R 0.13 0.03 0.00
231_K 225_D 0.13 0.03 0.00
221_Q 217_K 0.13 0.03 0.00
235_E 207_T 0.13 0.03 0.00
8_Y 14_S 0.13 0.03 0.00
188_S 177_S 0.13 0.03 0.00
199_L 195_L 0.13 0.03 0.00
125_E 124_G 0.13 0.03 0.00
166_D 178_E 0.13 0.03 0.00
14_T 10_V 0.13 0.03 0.00
15_F 9_D 0.13 0.03 0.00
22_F 18_R 0.13 0.03 0.00
170_I 75_A 0.13 0.03 0.00
27_A 21_Q 0.13 0.03 0.00
29_E 28_A 0.13 0.03 0.00
211_N 208_K 0.13 0.03 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)
WARNING: The input alignment may be corrupted!
  • Sequence A is very similar to Sequence B (HHΔ = 0.07), these maybe paralogs! HHΔ is a measure (0 to 1) of how different two alignments are (the larger the value the more different they are).
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