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OPENSEQ.org
cIV_C_60_cI_K_20_human
Genes: A B A+B
Length: 261 98 359
Sequences: 2363 1088 640
Seq/Len: 9.05 11.1 1.78
MirrorTree (Pazo et al. 2001) 0.70
Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.

[Show Jackhmmer 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 1.73
5 0.00 0.00 1.78
10 0.00 0.00 1.78
20 0.00 0.00 1.78
100 0.00 0.00 1.78
∞ 0.00 0.00 1.78
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
189_S 90_V 2.14 0.99 0.97
103_H 78_L 2.12 0.99 0.97
114_G 78_L 1.84 0.97 0.92
150_S 33_L 1.61 0.93 0.84
199_V 85_Y 1.58 0.92 0.82
8_Y 17_L 1.49 0.89 0.77
37_F 51_T 1.46 0.88 0.74
125_N 57_N 1.45 0.87 0.73
23_S 90_V 1.36 0.82 0.66
189_S 47_M 1.34 0.81 0.64
213_T 78_L 1.34 0.81 0.64
143_S 73_V 1.33 0.80 0.63
135_S 83_N 1.31 0.78 0.61
104_S 78_L 1.31 0.78 0.61
191_G 46_F 1.29 0.77 0.59
150_S 27_M 1.29 0.77 0.59
182_F 67_A 1.27 0.76 0.57
144_I 41_F 1.26 0.74 0.56
139_A 35_G 1.26 0.74 0.56
222_Q 35_G 1.24 0.73 0.54
199_V 67_A 1.24 0.73 0.54
61_V 92_N 1.24 0.73 0.54
10_M 60_P 1.23 0.72 0.53
199_V 65_V 1.23 0.72 0.52
26_L 43_M 1.22 0.71 0.52
5_S 22_Y 1.22 0.71 0.52
229_S 33_L 1.21 0.71 0.51
79_L 18_G 1.21 0.70 0.51
189_S 27_M 1.21 0.70 0.50
182_F 41_F 1.21 0.70 0.50
102_Y 35_G 1.19 0.69 0.49
143_S 15_S 1.19 0.68 0.48
112_L 39_S 1.18 0.68 0.47
122_T 41_F 1.16 0.66 0.45
29_S 92_N 1.16 0.65 0.44
151_L 29_S 1.14 0.63 0.42
191_G 86_G 1.13 0.63 0.42
20_G 84_T 1.13 0.62 0.41
77_K 17_L 1.13 0.62 0.41
112_L 79_V 1.13 0.62 0.41
35_F 83_N 1.12 0.61 0.41
47_L 94_N 1.12 0.61 0.40
217_I 92_N 1.11 0.61 0.40
195_S 94_N 1.11 0.61 0.40
162_A 86_G 1.10 0.60 0.39
49_T 82_S 1.08 0.58 0.37
7_A 62_A 1.08 0.57 0.36
18_L 76_A 1.07 0.57 0.36
96_G 60_P 1.07 0.56 0.35
104_S 79_V 1.07 0.56 0.35
96_G 36_M 1.07 0.56 0.35
39_S 8_I 1.07 0.56 0.35
217_I 79_V 1.07 0.56 0.35
23_S 81_I 1.06 0.56 0.34
25_L 84_T 1.06 0.55 0.34
162_A 88_D 1.05 0.55 0.34
167_I 72_A 1.05 0.55 0.33
23_S 20_L 1.04 0.54 0.33
49_T 27_M 1.04 0.53 0.32
212_S 56_A 1.03 0.52 0.31
228_T 38_L 1.03 0.52 0.31
96_G 38_L 1.02 0.51 0.30
48_L 21_V 1.02 0.51 0.30
143_S 84_T 1.01 0.50 0.29
155_N 33_L 1.01 0.50 0.29
35_F 67_A 1.01 0.50 0.29
28_T 59_V 1.01 0.50 0.29
144_I 39_S 1.00 0.49 0.29
212_S 36_M 1.00 0.49 0.28
114_G 76_A 1.00 0.49 0.28
5_S 19_M 1.00 0.49 0.28
168_L 45_T 0.99 0.48 0.27
156_R 45_T 0.99 0.48 0.27
229_S 86_G 0.98 0.47 0.27
100_A 64_L 0.98 0.47 0.27
46_G 23_R 0.98 0.47 0.26
114_G 65_V 0.98 0.46 0.26
8_Y 61_I 0.97 0.46 0.26
84_I 61_I 0.97 0.46 0.25
103_H 84_T 0.97 0.45 0.25
40_M 61_I 0.97 0.45 0.25
175_L 67_A 0.97 0.45 0.25
199_V 83_N 0.96 0.45 0.25
96_G 35_G 0.96 0.45 0.25
2_T 40_L 0.96 0.45 0.24
43_L 21_V 0.96 0.45 0.24
188_I 36_M 0.96 0.44 0.24
216_T 78_L 0.95 0.44 0.24
65_S 93_L 0.95 0.44 0.24
228_T 60_P 0.95 0.44 0.24
121_I 11_A 0.95 0.43 0.23
183_E 37_M 0.95 0.43 0.23
165_I 80_S 0.95 0.43 0.23
61_V 73_V 0.95 0.43 0.23
228_T 35_G 0.94 0.43 0.23
61_V 6_M 0.94 0.43 0.23
251_F 66_F 0.94 0.43 0.23
212_S 86_G 0.94 0.42 0.23
191_G 45_T 0.94 0.42 0.23
153_E 20_L 0.94 0.42 0.22
119_T 33_L 0.94 0.42 0.22
65_S 72_A 0.93 0.42 0.22
139_A 23_R 0.93 0.41 0.21
144_I 73_V 0.93 0.41 0.21
136_V 55_L 0.92 0.41 0.21
62_T 41_F 0.92 0.41 0.21
192_I 72_A 0.92 0.40 0.21
7_A 72_A 0.92 0.40 0.21
88_T 66_F 0.92 0.40 0.21
8_Y 57_N 0.92 0.40 0.21
125_N 58_I 0.92 0.40 0.21
164_L 14_I 0.91 0.40 0.20
184_S 17_L 0.91 0.40 0.20
110_P 60_P 0.91 0.39 0.20
216_T 92_N 0.91 0.39 0.20
61_V 8_I 0.91 0.39 0.20
188_I 92_N 0.91 0.39 0.20
78_G 23_R 0.90 0.39 0.20
119_T 47_M 0.90 0.39 0.20
152_M 36_M 0.90 0.38 0.19
189_S 63_M 0.89 0.38 0.19
228_T 37_M 0.89 0.38 0.19
253_Y 16_L 0.89 0.38 0.19
223_L 6_M 0.89 0.38 0.19
212_S 12_F 0.89 0.38 0.19
224_M 42_I 0.89 0.38 0.19
79_L 28_S 0.89 0.37 0.19
139_A 22_Y 0.89 0.37 0.18
151_L 65_V 0.89 0.37 0.18
217_I 13_T 0.89 0.37 0.18
158_Q 88_D 0.88 0.36 0.18
250_L 83_N 0.88 0.36 0.18
25_L 79_V 0.88 0.36 0.18
192_I 86_G 0.88 0.36 0.18
143_S 79_V 0.88 0.36 0.18
8_Y 10_L 0.88 0.36 0.18
154_N 55_L 0.88 0.36 0.17
135_S 85_Y 0.88 0.36 0.17
220_I 97_Q 0.88 0.36 0.17
154_N 33_L 0.87 0.36 0.17
199_V 90_V 0.87 0.36 0.17
164_L 17_L 0.87 0.36 0.17
217_I 78_L 0.87 0.36 0.17
162_A 27_M 0.87 0.35 0.17
229_S 27_M 0.87 0.35 0.17
127_L 6_M 0.87 0.35 0.17
67_Y 63_M 0.87 0.35 0.17
184_S 6_M 0.86 0.35 0.17
102_Y 22_Y 0.86 0.34 0.17
76_Q 60_P 0.86 0.34 0.16
161_Q 82_S 0.86 0.34 0.16
56_Q 19_M 0.86 0.34 0.16
112_L 78_L 0.86 0.34 0.16
55_Y 98_C 0.86 0.34 0.16
12_K 19_M 0.86 0.34 0.16
103_H 79_V 0.86 0.34 0.16
209_I 58_I 0.85 0.34 0.16
191_G 50_N 0.85 0.34 0.16
127_L 65_V 0.85 0.33 0.16
142_V 83_N 0.85 0.33 0.16
102_Y 60_P 0.85 0.33 0.16
250_L 87_L 0.85 0.33 0.15
165_I 83_N 0.85 0.33 0.15
103_H 27_M 0.84 0.33 0.15
127_L 85_Y 0.84 0.33 0.15
62_T 48_T 0.84 0.33 0.15
153_E 51_T 0.84 0.32 0.15
33_M 15_S 0.83 0.32 0.15
51_T 2_P 0.83 0.32 0.15
73_P 67_A 0.83 0.32 0.14
73_P 42_I 0.83 0.32 0.14
185_P 39_S 0.83 0.32 0.14
127_L 83_N 0.83 0.31 0.14
62_T 77_L 0.82 0.31 0.14
157_N 62_A 0.82 0.31 0.14
171_L 51_T 0.82 0.31 0.14
250_L 67_A 0.82 0.30 0.14
44_M 33_L 0.82 0.30 0.14
147_A 44_G 0.82 0.30 0.14
33_M 39_S 0.82 0.30 0.14
3_H 60_P 0.81 0.30 0.13
114_G 27_M 0.81 0.30 0.13
228_T 36_M 0.81 0.30 0.13
24_A 28_S 0.81 0.29 0.13
76_Q 38_L 0.81 0.29 0.13
189_S 43_M 0.81 0.29 0.13
4_Q 19_M 0.80 0.28 0.12
154_N 80_S 0.80 0.28 0.12
109_T 10_L 0.80 0.28 0.12
13_P 60_P 0.79 0.28 0.12
248_V 70_E 0.79 0.28 0.12
135_S 67_A 0.79 0.28 0.12
179_S 42_I 0.79 0.28 0.12
156_R 28_S 0.79 0.28 0.12
77_K 97_Q 0.79 0.27 0.12
229_S 70_E 0.79 0.27 0.12
175_L 44_G 0.78 0.27 0.12
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
4504 5.5 cIV_C_40_cI_K_10_human Δgene:(1, ∞) A:(1E-40, 8) B:(1E-10, 8) msa: Jackhmmer (2015_06) 0.34 Done - Shared
4503 1.78 cIV_C_60_cI_K_20_human Δgene:(1, ∞) A:(1E-60, 8) B:(1E-20, 8) msa: Jackhmmer (2015_06) 0.97 Done - Shared
4502 1.79 cIV_C_40_cI_K_20_4_human Δgene:(1, ∞) A:(1E-40, 8) B:(1E-20, 8) msa: Jackhmmer (2015_06) 0.97 Done - Shared
4501 0.25 cIV_C_40_cI_K_40_4_human Δgene:(1, ∞) A:(1E-40, 8) B:(1E-40, 8) msa: Jackhmmer (2015_06) 0.00 Done - Shared
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