May 4, 2021 - We are working on upgrading the webserver, some pages may not work.
OPENSEQ.org
cIV_C_40_cI_J_40_human
Genes: A B A+B
Length: 261 174 435
Sequences: 2457 251 158
Seq/Len: 9.41 1.44 0.36
MirrorTree (Pazo et al. 2001) 0.46
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 0.00
2 0.00 0.00 0.00
5 0.00 0.00 0.36
10 0.00 0.00 0.36
20 0.00 0.00 0.36
100 0.00 0.00 0.36
∞ 0.00 0.00 0.36
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
62_T 14_M 1.96 0.76 0.04
143_S 142_A 1.96 0.76 0.04
175_L 20_S 1.81 0.68 0.03
136_V 143_G 1.71 0.61 0.02
179_S 54_M 1.44 0.42 0.01
155_N 37_V 1.40 0.40 0.01
95_A 54_M 1.40 0.40 0.01
199_V 31_V 1.36 0.37 0.01
155_N 167_V 1.34 0.36 0.01
61_V 168_I 1.33 0.35 0.01
182_F 156_T 1.32 0.34 0.01
192_I 64_M 1.31 0.34 0.01
185_P 35_S 1.31 0.34 0.01
52_L 10_V 1.31 0.34 0.01
219_F 87_E 1.31 0.34 0.01
158_Q 123_S 1.28 0.32 0.01
51_T 18_G 1.27 0.32 0.01
38_H 64_M 1.24 0.30 0.01
230_K 3_Y 1.24 0.29 0.01
136_V 144_A 1.24 0.29 0.01
44_M 11_G 1.22 0.28 0.01
45_L 35_S 1.22 0.28 0.01
92_L 131_G 1.21 0.28 0.01
219_F 132_S 1.21 0.28 0.01
48_L 127_Y 1.21 0.28 0.01
136_V 58_I 1.19 0.27 0.01
219_F 30_L 1.19 0.27 0.01
187_T 149_G 1.19 0.27 0.01
67_Y 31_V 1.19 0.27 0.01
7_A 92_V 1.18 0.26 0.01
127_L 162_V 1.17 0.26 0.01
8_Y 167_V 1.17 0.26 0.01
175_L 136_R 1.17 0.26 0.01
62_T 105_W 1.17 0.26 0.01
136_V 124_W 1.17 0.26 0.01
219_F 44_L 1.16 0.25 0.01
179_S 163_G 1.15 0.25 0.01
212_S 170_I 1.15 0.25 0.01
111_Q 2_M 1.14 0.24 0.01
212_S 20_S 1.14 0.24 0.01
27_M 3_Y 1.13 0.23 0.00
111_Q 168_I 1.12 0.23 0.00
254_V 12_L 1.12 0.23 0.00
65_S 155_V 1.12 0.23 0.00
119_T 111_G 1.09 0.22 0.00
143_S 136_R 1.09 0.21 0.00
32_A 19_F 1.09 0.21 0.00
48_L 8_L 1.08 0.21 0.00
67_Y 10_V 1.08 0.21 0.00
192_I 41_V 1.08 0.21 0.00
92_L 92_V 1.07 0.20 0.00
110_P 136_R 1.06 0.20 0.00
67_Y 163_G 1.06 0.20 0.00
219_F 81_A 1.05 0.20 0.00
158_Q 33_I 1.05 0.20 0.00
179_S 84_S 1.05 0.20 0.00
212_S 119_N 1.05 0.20 0.00
220_I 38_V 1.04 0.19 0.00
62_T 43_I 1.04 0.19 0.00
111_Q 101_G 1.04 0.19 0.00
74_P 12_L 1.04 0.19 0.00
164_L 155_V 1.04 0.19 0.00
159_M 75_I 1.03 0.19 0.00
48_L 64_M 1.03 0.19 0.00
84_I 101_G 1.03 0.19 0.00
110_P 10_V 1.03 0.19 0.00
185_P 45_N 1.03 0.19 0.00
65_S 38_V 1.03 0.19 0.00
136_V 153_V 1.03 0.19 0.00
8_Y 3_Y 1.03 0.19 0.00
61_V 33_I 1.03 0.19 0.00
182_F 83_G 1.02 0.19 0.00
107_A 10_V 1.02 0.18 0.00
61_V 83_G 1.02 0.18 0.00
92_L 173_G 1.02 0.18 0.00
184_S 31_V 1.01 0.18 0.00
48_L 43_I 1.01 0.18 0.00
42_L 173_G 1.01 0.18 0.00
192_I 31_V 1.01 0.18 0.00
44_M 43_I 1.01 0.18 0.00
159_M 165_Y 1.00 0.18 0.00
143_S 130_E 1.00 0.17 0.00
128_E 98_M 1.00 0.17 0.00
184_S 71_T 1.00 0.17 0.00
158_Q 5_L 1.00 0.17 0.00
143_S 166_I 0.99 0.17 0.00
219_F 6_F 0.99 0.17 0.00
61_V 55_V 0.99 0.17 0.00
27_M 2_M 0.98 0.17 0.00
185_P 42_I 0.98 0.17 0.00
164_L 98_M 0.98 0.17 0.00
95_A 166_I 0.98 0.17 0.00
179_S 71_T 0.96 0.16 0.00
143_S 159_T 0.96 0.16 0.00
47_L 1_M 0.96 0.16 0.00
230_K 145_L 0.96 0.16 0.00
157_N 135_I 0.95 0.16 0.00
185_P 75_I 0.95 0.16 0.00
224_M 164_V 0.94 0.15 0.00
37_F 144_A 0.94 0.15 0.00
168_L 81_A 0.94 0.15 0.00
184_S 45_N 0.94 0.15 0.00
65_S 15_G 0.94 0.15 0.00
62_T 120_S 0.93 0.15 0.00
171_L 123_S 0.93 0.15 0.00
48_L 49_G 0.93 0.15 0.00
67_Y 126_I 0.92 0.15 0.00
115_H 143_G 0.92 0.15 0.00
95_A 34_V 0.92 0.15 0.00
73_P 88_V 0.92 0.14 0.00
92_L 17_V 0.92 0.14 0.00
8_Y 37_V 0.92 0.14 0.00
171_L 85_G 0.92 0.14 0.00
213_T 43_I 0.92 0.14 0.00
155_N 16_F 0.92 0.14 0.00
110_P 103_V 0.91 0.14 0.00
185_P 83_G 0.91 0.14 0.00
192_I 18_G 0.91 0.14 0.00
61_V 17_V 0.91 0.14 0.00
178_A 64_M 0.91 0.14 0.00
38_H 142_A 0.90 0.14 0.00
171_L 110_D 0.90 0.14 0.00
199_V 101_G 0.90 0.14 0.00
160_I 37_V 0.90 0.14 0.00
52_L 95_G 0.90 0.14 0.00
67_Y 5_L 0.90 0.14 0.00
217_I 12_L 0.90 0.14 0.00
216_T 129_G 0.90 0.14 0.00
212_S 15_G 0.90 0.14 0.00
171_L 20_S 0.89 0.14 0.00
179_S 18_G 0.89 0.14 0.00
54_M 18_G 0.89 0.14 0.00
219_F 148_Y 0.89 0.14 0.00
61_V 140_I 0.89 0.13 0.00
217_I 143_G 0.89 0.13 0.00
42_L 92_V 0.89 0.13 0.00
216_T 113_V 0.89 0.13 0.00
136_V 95_G 0.89 0.13 0.00
171_L 136_R 0.88 0.13 0.00
95_A 168_I 0.88 0.13 0.00
65_S 119_N 0.88 0.13 0.00
192_I 104_L 0.88 0.13 0.00
25_L 12_L 0.88 0.13 0.00
136_V 128_E 0.88 0.13 0.00
192_I 123_S 0.88 0.13 0.00
168_L 127_Y 0.88 0.13 0.00
74_P 150_R 0.88 0.13 0.00
67_Y 85_G 0.88 0.13 0.00
27_M 128_E 0.88 0.13 0.00
62_T 131_G 0.87 0.13 0.00
65_S 128_E 0.87 0.13 0.00
224_M 102_L 0.87 0.13 0.00
55_Y 101_G 0.87 0.13 0.00
175_L 3_Y 0.87 0.13 0.00
213_T 42_I 0.87 0.13 0.00
41_T 154_V 0.87 0.13 0.00
225_F 118_F 0.87 0.13 0.00
168_L 94_V 0.87 0.13 0.00
25_L 37_V 0.86 0.13 0.00
230_K 21_S 0.86 0.13 0.00
7_A 101_G 0.86 0.13 0.00
27_M 46_F 0.86 0.13 0.00
65_S 3_Y 0.86 0.12 0.00
184_S 14_M 0.86 0.12 0.00
187_T 86_V 0.86 0.12 0.00
110_P 45_N 0.86 0.12 0.00
74_P 152_L 0.86 0.12 0.00
220_I 92_V 0.85 0.12 0.00
67_Y 12_L 0.85 0.12 0.00
224_M 81_A 0.85 0.12 0.00
91_V 114_V 0.85 0.12 0.00
155_N 149_G 0.85 0.12 0.00
155_N 139_P 0.85 0.12 0.00
55_Y 132_S 0.85 0.12 0.00
25_L 75_I 0.85 0.12 0.00
44_M 14_M 0.85 0.12 0.00
27_M 1_M 0.85 0.12 0.00
185_P 168_I 0.85 0.12 0.00
8_Y 149_G 0.85 0.12 0.00
157_N 2_M 0.84 0.12 0.00
199_V 64_M 0.84 0.12 0.00
178_A 31_V 0.84 0.12 0.00
199_V 153_V 0.84 0.12 0.00
136_V 155_V 0.84 0.12 0.00
25_L 128_E 0.83 0.12 0.00
184_S 43_I 0.83 0.12 0.00
143_S 128_E 0.83 0.12 0.00
44_M 96_L 0.83 0.12 0.00
217_I 37_V 0.83 0.12 0.00
217_I 155_V 0.83 0.12 0.00
84_I 4_A 0.83 0.12 0.00
178_A 86_V 0.83 0.12 0.00
158_Q 133_G 0.83 0.12 0.00
39_S 10_V 0.83 0.12 0.00
51_T 98_M 0.83 0.12 0.00
187_T 167_V 0.83 0.12 0.00
182_F 109_Y 0.83 0.12 0.00
111_Q 75_I 0.83 0.12 0.00
182_F 87_E 0.83 0.12 0.00
159_M 163_G 0.82 0.11 0.00
182_F 168_I 0.82 0.11 0.00
175_L 148_Y 0.82 0.11 0.00
67_Y 6_F 0.82 0.11 0.00
143_S 10_V 0.82 0.11 0.00
110_P 159_T 0.82 0.11 0.00
73_P 38_V 0.81 0.11 0.00
2_T 168_I 0.81 0.11 0.00
49_T 26_I 0.81 0.11 0.00
192_I 98_M 0.81 0.11 0.00
184_S 89_L 0.81 0.11 0.00
199_V 7_L 0.81 0.11 0.00
164_L 81_A 0.81 0.11 0.00
49_T 127_Y 0.81 0.11 0.00
143_S 125_M 0.81 0.11 0.00
92_L 136_R 0.81 0.11 0.00
31_L 171_A 0.81 0.11 0.00
212_S 43_I 0.81 0.11 0.00
95_A 129_G 0.80 0.11 0.00
184_S 148_Y 0.80 0.11 0.00
168_L 89_L 0.80 0.11 0.00
213_T 116_V 0.80 0.11 0.00
27_M 136_R 0.80 0.11 0.00
107_A 138_D 0.80 0.11 0.00
73_P 33_I 0.80 0.11 0.00
37_F 164_V 0.80 0.11 0.00
136_V 171_A 0.79 0.11 0.00
38_H 125_M 0.79 0.11 0.00
65_S 110_D 0.79 0.10 0.00
199_V 4_A 0.79 0.10 0.00
199_V 140_I 0.79 0.10 0.00
45_L 106_V 0.79 0.10 0.00
219_F 21_S 0.79 0.10 0.00
216_T 130_E 0.78 0.10 0.00
61_V 150_R 0.78 0.10 0.00
162_A 95_G 0.78 0.10 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
4640 4.8 cIV_C_40_cI_J_10_human Δgene:(1, ∞) A:(1E-40, 8) B:(1E-10, 8) msa: Jackhmmer (2015_06) 0.95 Done - Shared
4628 2.37 cIV_C_60_cI_J_20_human Δgene:(1, ∞) A:(1E-60, 8) B:(1E-20, 8) msa: Jackhmmer (2015_06) 0.94 Done - Shared
4627 2.36 cIV_C_40_cI_J_20_human Δgene:(1, ∞) A:(1E-40, 8) B:(1E-20, 8) msa: Jackhmmer (2015_06) 0.96 Done - Shared
4626 2.35 cIV_C_20_cI_J_20_human Δgene:(1, ∞) A:(1E-20, 8) B:(1E-20, 8) msa: Jackhmmer (2015_06) 0.90 Done - Shared
4625 0.29 cIV_C_60_cI_J_60_human Δgene:(1, ∞) A:(1E-60, 8) B:(1E-60, 8) msa: Jackhmmer (2015_06) 0.02 Done - Shared
4624 0.36 cIV_C_40_cI_J_40_human Δgene:(1, ∞) A:(1E-40, 8) B:(1E-40, 8) msa: Jackhmmer (2015_06) 0.04 Done - Shared
Page generated in 0.121 seconds.