May 4, 2021 - We are working on upgrading the webserver, some pages may not work.
OPENSEQ.org
HI
Genes: A B A+B
Length: 170 121 276
Sequences: 472 694 449
Seq/Len: 2.78 5.74 1.63
MirrorTree (Pazo et al. 2001) 0.76
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 0.01 0.00 1.42
2 0.01 0.00 1.52
5 0.01 0.00 1.51
10 0.01 0.00 1.55
20 0.01 0.00 1.54
100 0.01 0.00 1.54
∞ 0.03 0.04 1.55
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
17_L 18_V 1.53 0.89 0.29
13_L 7_M 1.50 0.88 0.27
54_R 40_M 1.40 0.82 0.21
148_V 51_D 1.32 0.77 0.17
132_D 71_T 1.30 0.76 0.16
13_L 96_A 1.29 0.75 0.16
51_V 25_A 1.29 0.75 0.16
37_A 95_R 1.29 0.74 0.16
15_L 111_V 1.28 0.73 0.15
12_M 38_G 1.22 0.68 0.13
74_L 7_M 1.21 0.68 0.12
43_R 97_L 1.21 0.68 0.12
139_G 58_R 1.16 0.63 0.11
110_V 14_V 1.16 0.63 0.11
62_F 20_A 1.16 0.63 0.10
144_F 48_W 1.15 0.62 0.10
11_M 40_M 1.14 0.61 0.10
73_F 22_A 1.13 0.60 0.10
158_A 51_D 1.13 0.60 0.10
17_L 53_Q 1.12 0.59 0.09
56_L 19_F 1.11 0.58 0.09
69_D 85_Q 1.09 0.56 0.08
15_L 13_M 1.08 0.55 0.08
22_A 19_F 1.07 0.54 0.08
139_G 117_Y 1.06 0.53 0.07
22_A 94_L 1.05 0.52 0.07
56_L 23_G 1.05 0.52 0.07
107_S 70_E 1.05 0.51 0.07
9_L 12_V 1.05 0.51 0.07
15_L 98_D 1.04 0.51 0.07
137_P 33_Q 1.03 0.50 0.07
53_Q 26_V 1.03 0.49 0.07
19_G 86_G 1.02 0.49 0.07
139_G 80_W 1.01 0.48 0.06
156_F 48_W 1.01 0.47 0.06
139_G 82_I 1.01 0.47 0.06
49_R 77_G 1.00 0.47 0.06
135_I 37_L 1.00 0.46 0.06
4_R 53_Q 1.00 0.46 0.06
4_R 37_L 0.99 0.45 0.06
26_M 36_Q 0.99 0.45 0.06
110_V 116_T 0.99 0.45 0.06
72_Q 26_V 0.99 0.45 0.06
49_R 65_A 0.98 0.45 0.06
19_G 100_E 0.98 0.45 0.06
41_L 10_I 0.98 0.44 0.06
15_L 2_K 0.97 0.44 0.06
38_A 93_Q 0.97 0.43 0.05
105_A 69_S 0.96 0.43 0.05
132_D 10_I 0.96 0.42 0.05
15_L 42_E 0.95 0.41 0.05
100_R 72_T 0.95 0.41 0.05
36_S 90_D 0.95 0.41 0.05
71_W 33_Q 0.95 0.41 0.05
3_Q 88_E 0.95 0.41 0.05
3_Q 4_Q 0.95 0.41 0.05
76_L 14_V 0.94 0.40 0.05
2_R 72_T 0.94 0.40 0.05
4_R 54_L 0.92 0.38 0.04
139_G 71_T 0.92 0.38 0.04
19_G 54_L 0.92 0.38 0.04
43_R 64_P 0.92 0.38 0.04
76_L 98_D 0.92 0.38 0.04
18_I 63_W 0.92 0.38 0.04
43_R 40_M 0.92 0.38 0.04
165_E 13_M 0.91 0.37 0.04
1_M 5_A 0.91 0.37 0.04
55_G 25_A 0.91 0.37 0.04
97_L 99_V 0.90 0.36 0.04
13_L 115_R 0.90 0.36 0.04
63_G 19_F 0.90 0.36 0.04
18_I 106_S 0.90 0.36 0.04
46_A 76_A 0.90 0.36 0.04
17_L 103_R 0.90 0.36 0.04
37_A 17_A 0.90 0.36 0.04
15_L 47_G 0.90 0.36 0.04
75_V 89_T 0.89 0.35 0.04
134_L 41_E 0.89 0.35 0.04
96_W 52_N 0.89 0.35 0.04
110_V 99_V 0.89 0.35 0.04
25_V 97_L 0.89 0.35 0.04
30_P 24_L 0.88 0.35 0.04
131_P 12_V 0.88 0.34 0.04
50_F 28_Q 0.88 0.34 0.04
22_A 50_A 0.87 0.34 0.04
80_E 27_M 0.87 0.33 0.04
138_G 102_R 0.86 0.33 0.04
110_V 19_F 0.86 0.33 0.04
30_P 116_T 0.86 0.32 0.04
137_P 34_T 0.86 0.32 0.04
136_F 94_L 0.86 0.32 0.03
159_R 30_T 0.86 0.32 0.03
54_R 67_S 0.85 0.32 0.03
24_M 14_V 0.85 0.32 0.03
28_A 65_A 0.85 0.32 0.03
4_R 3_K 0.85 0.32 0.03
19_G 64_P 0.85 0.32 0.03
64_A 25_A 0.85 0.31 0.03
39_Q 88_E 0.85 0.31 0.03
72_Q 110_P 0.85 0.31 0.03
111_A 75_A 0.84 0.31 0.03
32_S 99_V 0.84 0.30 0.03
98_P 95_R 0.84 0.30 0.03
25_V 25_A 0.84 0.30 0.03
25_V 87_V 0.84 0.30 0.03
25_V 96_A 0.83 0.30 0.03
19_G 83_R 0.83 0.30 0.03
152_P 18_V 0.83 0.30 0.03
12_M 8_T 0.83 0.30 0.03
133_V 119_T 0.83 0.30 0.03
15_L 36_Q 0.83 0.30 0.03
18_I 99_V 0.83 0.29 0.03
74_L 44_T 0.83 0.29 0.03
38_A 84_W 0.82 0.29 0.03
146_L 1_M 0.82 0.29 0.03
73_F 13_M 0.82 0.29 0.03
66_V 111_V 0.82 0.29 0.03
126_T 14_V 0.82 0.29 0.03
132_D 12_V 0.82 0.29 0.03
135_I 98_D 0.82 0.29 0.03
64_A 31_L 0.82 0.29 0.03
48_L 77_G 0.82 0.29 0.03
117_L 27_M 0.82 0.28 0.03
77_Q 102_R 0.82 0.28 0.03
27_L 40_M 0.82 0.28 0.03
116_H 79_S 0.81 0.28 0.03
12_M 16_L 0.81 0.28 0.03
13_L 10_I 0.81 0.28 0.03
15_L 79_S 0.81 0.28 0.03
4_R 9_L 0.81 0.28 0.03
68_P 70_E 0.81 0.28 0.03
59_G 94_L 0.81 0.28 0.03
20_V 14_V 0.81 0.28 0.03
7_T 19_F 0.81 0.28 0.03
5_G 46_A 0.81 0.28 0.03
68_P 118_V 0.81 0.28 0.03
8_L 46_A 0.80 0.27 0.03
72_Q 83_R 0.80 0.27 0.03
24_M 92_P 0.80 0.27 0.03
38_A 57_L 0.80 0.27 0.03
62_F 111_V 0.80 0.27 0.03
140_E 76_A 0.80 0.27 0.03
19_G 19_F 0.80 0.27 0.03
158_A 48_W 0.79 0.27 0.03
134_L 45_L 0.79 0.27 0.03
133_V 80_W 0.79 0.27 0.03
46_A 30_T 0.79 0.26 0.03
49_R 17_A 0.79 0.26 0.03
72_Q 102_R 0.79 0.26 0.03
16_L 59_L 0.79 0.26 0.03
138_G 26_V 0.79 0.26 0.03
62_F 112_S 0.79 0.26 0.03
53_Q 24_L 0.79 0.26 0.03
127_P 10_I 0.78 0.26 0.03
139_G 33_Q 0.78 0.26 0.03
98_P 55_V 0.78 0.25 0.03
13_L 86_G 0.78 0.25 0.03
115_L 97_L 0.78 0.25 0.02
11_M 47_G 0.78 0.25 0.02
18_I 7_M 0.77 0.25 0.02
31_A 26_V 0.77 0.25 0.02
10_E 46_A 0.77 0.25 0.02
43_R 99_V 0.77 0.25 0.02
65_S 118_V 0.77 0.25 0.02
40_A 106_S 0.77 0.25 0.02
63_G 43_K 0.77 0.25 0.02
111_A 99_V 0.77 0.25 0.02
133_V 20_A 0.77 0.24 0.02
108_G 27_M 0.77 0.24 0.02
37_A 13_M 0.77 0.24 0.02
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)
Page generated in 0.0649 seconds.