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OPENSEQ.org
MglA and MglB
Genes: A B A+B
Length: 159 195 351
Sequences: 75 11665 68
Seq/Len: 0.47 59.82 0.19
MirrorTree (Pazo et al. 2001) 0.69
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 0.04 0.19
2 0.00 0.04 0.19
5 0.00 0.06 0.19
10 0.00 0.08 0.19
20 0.00 0.10 0.19
100 0.00 0.19 0.19
∞ 0.02 0.25 0.19
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
71_K 71_K 1.62 0.37 0.00
100_V 43_K 1.45 0.29 0.00
111_L 109_R 1.42 0.27 0.00
72_L 33_Y 1.39 0.26 0.00
40_L 152_E 1.37 0.25 0.00
115_R 159_N 1.34 0.24 0.00
12_F 183_V 1.30 0.22 0.00
111_L 145_L 1.30 0.22 0.00
96_G 191_L 1.29 0.21 0.00
102_V 131_L 1.29 0.21 0.00
81_Q 103_A 1.29 0.21 0.00
53_T 131_L 1.28 0.21 0.00
27_N 38_A 1.28 0.21 0.00
26_A 22_L 1.24 0.19 0.00
21_R 68_R 1.23 0.19 0.00
106_D 88_S 1.22 0.18 0.00
12_F 151_V 1.20 0.18 0.00
19_C 7_S 1.20 0.18 0.00
60_A 16_V 1.19 0.18 0.00
33_L 15_I 1.19 0.18 0.00
45_G 11_I 1.17 0.17 0.00
33_L 105_S 1.17 0.17 0.00
66_M 11_I 1.15 0.16 0.00
77_E 181_K 1.15 0.16 0.00
96_G 115_E 1.14 0.16 0.00
73_I 73_R 1.13 0.16 0.00
100_V 99_V 1.11 0.15 0.00
82_F 159_N 1.11 0.15 0.00
66_M 175_G 1.11 0.15 0.00
35_D 21_G 1.09 0.15 0.00
116_L 87_A 1.09 0.14 0.00
66_M 128_G 1.08 0.14 0.00
104_I 100_V 1.08 0.14 0.00
118_I 94_K 1.08 0.14 0.00
61_G 47_L 1.07 0.14 0.00
109_T 190_E 1.07 0.14 0.00
30_V 32_I 1.07 0.14 0.00
57_S 188_L 1.07 0.14 0.00
106_D 42_G 1.07 0.14 0.00
19_C 100_V 1.06 0.14 0.00
132_L 172_T 1.06 0.14 0.00
56_A 91_L 1.06 0.14 0.00
28_A 128_G 1.06 0.14 0.00
68_G 33_Y 1.05 0.13 0.00
121_A 9_R 1.04 0.13 0.00
6_V 153_E 1.03 0.13 0.00
19_C 150_T 1.02 0.13 0.00
54_S 84_F 1.02 0.12 0.00
130_E 9_R 1.02 0.12 0.00
76_N 108_E 1.02 0.12 0.00
29_K 156_K 1.02 0.12 0.00
126_T 172_T 1.01 0.12 0.00
17_A 134_I 1.01 0.12 0.00
116_L 91_L 1.01 0.12 0.00
142_G 137_V 1.01 0.12 0.00
134_K 186_L 1.01 0.12 0.00
100_V 63_S 1.00 0.12 0.00
132_L 67_I 1.00 0.12 0.00
150_D 41_K 1.00 0.12 0.00
150_D 44_L 1.00 0.12 0.00
152_D 86_D 1.00 0.12 0.00
5_L 130_D 1.00 0.12 0.00
58_L 53_R 1.00 0.12 0.00
63_V 75_H 0.99 0.12 0.00
154_D 117_L 0.98 0.11 0.00
37_N 184_A 0.97 0.11 0.00
68_G 23_C 0.97 0.11 0.00
154_D 148_A 0.97 0.11 0.00
66_M 42_G 0.97 0.11 0.00
124_E 156_K 0.97 0.11 0.00
71_K 118_E 0.97 0.11 0.00
143_S 178_D 0.96 0.11 0.00
62_N 44_L 0.96 0.11 0.00
153_I 122_I 0.96 0.11 0.00
71_K 140_Y 0.96 0.11 0.00
33_L 100_V 0.96 0.11 0.00
81_Q 137_V 0.95 0.11 0.00
149_S 36_T 0.95 0.11 0.00
62_N 91_L 0.95 0.11 0.00
46_Q 41_K 0.95 0.11 0.00
116_L 134_I 0.95 0.11 0.00
34_V 138_I 0.95 0.11 0.00
66_M 62_L 0.95 0.11 0.00
69_L 90_K 0.94 0.11 0.00
51_D 99_V 0.94 0.11 0.00
126_T 151_V 0.94 0.11 0.00
32_F 187_V 0.94 0.11 0.00
49_N 150_T 0.94 0.10 0.00
21_R 150_T 0.94 0.10 0.00
145_F 120_L 0.94 0.10 0.00
153_I 23_C 0.93 0.10 0.00
100_V 185_K 0.93 0.10 0.00
77_E 36_T 0.93 0.10 0.00
74_G 100_V 0.93 0.10 0.00
90_L 88_S 0.93 0.10 0.00
113_L 43_K 0.93 0.10 0.00
111_L 94_K 0.93 0.10 0.00
83_H 91_L 0.92 0.10 0.00
68_G 94_K 0.92 0.10 0.00
148_I 86_D 0.92 0.10 0.00
40_L 184_A 0.91 0.10 0.00
81_Q 136_Y 0.91 0.10 0.00
63_V 92_I 0.91 0.10 0.00
84_E 3_F 0.91 0.10 0.00
102_V 164_P 0.91 0.10 0.00
66_M 178_D 0.91 0.10 0.00
99_V 188_L 0.90 0.10 0.00
104_I 156_K 0.90 0.10 0.00
115_R 67_I 0.90 0.10 0.00
65_A 88_S 0.90 0.10 0.00
43_S 150_T 0.90 0.10 0.00
21_R 188_L 0.90 0.10 0.00
151_D 114_M 0.90 0.10 0.00
95_V 115_E 0.90 0.10 0.00
156_L 75_H 0.89 0.10 0.00
70_A 29_L 0.89 0.10 0.00
75_E 29_L 0.89 0.10 0.00
78_F 29_L 0.89 0.10 0.00
85_G 29_L 0.89 0.10 0.00
86_A 181_K 0.89 0.10 0.00
18_V 39_E 0.89 0.10 0.00
30_V 37_A 0.89 0.10 0.00
137_D 35_K 0.89 0.10 0.00
24_K 186_L 0.89 0.09 0.00
123_D 165_E 0.89 0.09 0.00
140_G 150_T 0.89 0.09 0.00
90_L 7_S 0.89 0.09 0.00
82_F 8_S 0.89 0.09 0.00
21_R 99_V 0.89 0.09 0.00
149_S 94_K 0.88 0.09 0.00
65_A 124_L 0.88 0.09 0.00
18_V 23_C 0.88 0.09 0.00
90_L 154_M 0.88 0.09 0.00
29_K 8_S 0.88 0.09 0.00
61_G 5_N 0.88 0.09 0.00
91_Y 153_E 0.88 0.09 0.00
138_S 183_V 0.88 0.09 0.00
77_E 133_K 0.88 0.09 0.00
106_D 70_F 0.88 0.09 0.00
55_L 164_P 0.88 0.09 0.00
42_S 41_K 0.88 0.09 0.00
8_Y 83_V 0.87 0.09 0.00
124_E 132_N 0.87 0.09 0.00
70_A 65_G 0.87 0.09 0.00
75_E 65_G 0.87 0.09 0.00
78_F 65_G 0.87 0.09 0.00
85_G 65_G 0.87 0.09 0.00
10_E 150_T 0.87 0.09 0.00
72_L 145_L 0.87 0.09 0.00
74_G 122_I 0.87 0.09 0.00
156_L 73_R 0.87 0.09 0.00
113_L 23_C 0.87 0.09 0.00
61_G 181_K 0.87 0.09 0.00
83_H 53_R 0.86 0.09 0.00
111_L 112_A 0.86 0.09 0.00
102_V 22_L 0.86 0.09 0.00
73_I 115_E 0.86 0.09 0.00
146_A 60_L 0.86 0.09 0.00
66_M 124_L 0.86 0.09 0.00
155_N 99_V 0.86 0.09 0.00
83_H 179_T 0.85 0.09 0.00
130_E 191_L 0.85 0.09 0.00
77_E 194_G 0.85 0.09 0.00
26_A 134_I 0.85 0.09 0.00
57_S 117_L 0.85 0.09 0.00
39_Q 94_K 0.85 0.09 0.00
65_A 10_E 0.85 0.09 0.00
82_F 165_E 0.85 0.09 0.00
126_T 165_E 0.85 0.09 0.00
90_L 52_D 0.85 0.09 0.00
117_R 94_K 0.85 0.09 0.00
109_T 64_L 0.85 0.09 0.00
7_M 99_V 0.85 0.09 0.00
107_N 138_I 0.84 0.09 0.00
62_N 103_A 0.84 0.09 0.00
21_R 73_R 0.84 0.09 0.00
87_K 63_S 0.84 0.09 0.00
15_I 46_S 0.84 0.09 0.00
71_K 137_V 0.84 0.09 0.00
148_I 36_T 0.84 0.09 0.00
65_A 119_N 0.84 0.09 0.00
64_A 5_N 0.84 0.09 0.00
68_G 112_A 0.84 0.09 0.00
8_Y 72_T 0.84 0.09 0.00
41_I 96_V 0.84 0.09 0.00
1_M 7_S 0.84 0.09 0.00
69_L 105_S 0.84 0.09 0.00
97_S 138_I 0.84 0.09 0.00
81_Q 79_V 0.84 0.08 0.00
61_G 41_K 0.83 0.08 0.00
154_D 115_E 0.83 0.08 0.00
41_I 37_A 0.83 0.08 0.00
147_E 152_E 0.83 0.08 0.00
74_G 124_L 0.83 0.08 0.00
103_V 178_D 0.83 0.08 0.00
65_A 105_S 0.83 0.08 0.00
142_G 189_T 0.83 0.08 0.00
14_K 174_V 0.83 0.08 0.00
128_I 146_P 0.83 0.08 0.00
18_V 131_L 0.83 0.08 0.00
128_I 167_Q 0.83 0.08 0.00
32_F 148_A 0.83 0.08 0.00
32_F 143_R 0.83 0.08 0.00
79_P 87_A 0.83 0.08 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)
ID Seq/Len Name Options I_Prob Status
9414 0.19 MglA and MglB Δgene:(1, 100) A:(1E-20, 4) B:(1E-20, 4) msa: HHblits (2015_06) 0.00 Done - Shared
9413 0.19 MglA and MglB Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) 0.00 Done - Shared
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