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OPENSEQ.org
cIV_C_80_cI_N_80_1_human
Genes: A B A+B
Length: 261 347 607
Sequences: 2363 1991 1086
Seq/Len: 9.05 5.74 1.79
MirrorTree (Pazo et al. 2001) 0.75
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 1.78
10 0.00 0.00 1.79
20 0.00 0.00 1.79
100 0.00 0.00 1.79
∞ 0.00 0.00 1.79
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
104_S 170_L 1.52 0.90 0.36
143_S 48_M 1.46 0.88 0.32
38_H 304_L 1.41 0.85 0.29
229_S 196_Y 1.40 0.84 0.28
254_V 245_P 1.33 0.80 0.23
112_L 264_W 1.32 0.80 0.23
95_A 307_M 1.32 0.80 0.23
103_H 83_Q 1.30 0.78 0.21
254_V 19_I 1.29 0.77 0.21
189_S 53_T 1.27 0.76 0.20
125_N 74_I 1.27 0.75 0.20
153_E 205_L 1.25 0.74 0.18
192_I 280_T 1.24 0.73 0.18
212_S 73_A 1.24 0.73 0.18
112_L 53_T 1.23 0.72 0.18
103_H 257_L 1.23 0.72 0.18
125_N 228_L 1.23 0.72 0.17
216_T 158_S 1.21 0.71 0.17
191_G 127_G 1.19 0.69 0.16
159_M 141_I 1.19 0.69 0.15
229_S 90_T 1.19 0.68 0.15
114_G 257_L 1.18 0.68 0.15
224_M 9_I 1.17 0.66 0.14
151_L 68_M 1.16 0.66 0.14
224_M 245_P 1.15 0.65 0.14
115_H 185_T 1.15 0.65 0.14
25_L 48_M 1.15 0.64 0.14
104_S 205_L 1.13 0.63 0.13
42_L 144_Q 1.13 0.63 0.13
229_S 229_L 1.13 0.63 0.13
229_S 225_T 1.11 0.61 0.12
43_L 2_N 1.11 0.61 0.12
157_N 17_T 1.11 0.61 0.12
114_G 88_N 1.11 0.60 0.12
119_T 219_L 1.10 0.59 0.12
67_Y 85_T 1.10 0.59 0.11
168_L 179_L 1.09 0.59 0.11
103_H 88_N 1.09 0.59 0.11
192_I 45_T 1.09 0.58 0.11
184_S 246_S 1.09 0.58 0.11
92_L 194_L 1.08 0.58 0.11
151_L 309_N 1.08 0.57 0.11
143_S 267_I 1.07 0.56 0.10
73_P 53_T 1.06 0.56 0.10
2_T 130_L 1.06 0.55 0.10
151_L 131_L 1.06 0.55 0.10
12_K 339_I 1.06 0.55 0.10
65_S 56_A 1.05 0.54 0.10
225_F 226_T 1.05 0.54 0.10
84_I 13_I 1.05 0.54 0.10
162_A 22_L 1.03 0.52 0.09
143_S 45_T 1.02 0.52 0.09
111_Q 166_S 1.02 0.51 0.09
222_Q 144_Q 1.02 0.51 0.09
222_Q 159_I 1.02 0.51 0.09
162_A 244_I 1.02 0.51 0.09
50_N 111_F 1.01 0.51 0.09
43_L 158_S 1.01 0.50 0.08
62_T 156_T 1.01 0.50 0.08
5_S 187_M 1.01 0.50 0.08
254_V 204_N 1.00 0.49 0.08
7_A 83_Q 1.00 0.49 0.08
143_S 316_Q 1.00 0.49 0.08
192_I 20_T 1.00 0.49 0.08
254_V 148_S 1.00 0.49 0.08
192_I 242_P 1.00 0.49 0.08
104_S 312_K 1.00 0.49 0.08
55_Y 65_T 0.99 0.48 0.08
154_N 286_T 0.99 0.48 0.08
38_H 297_I 0.99 0.48 0.08
155_N 67_S 0.99 0.48 0.08
43_L 141_I 0.99 0.48 0.08
199_V 163_M 0.99 0.48 0.08
175_L 214_T 0.99 0.48 0.08
8_Y 333_T 0.98 0.47 0.08
114_G 100_M 0.97 0.46 0.07
151_L 94_S 0.97 0.46 0.07
12_K 74_I 0.97 0.46 0.07
50_N 307_M 0.97 0.46 0.07
189_S 122_T 0.97 0.46 0.07
67_Y 334_T 0.97 0.46 0.07
254_V 340_S 0.97 0.46 0.07
127_L 52_S 0.97 0.46 0.07
31_L 142_M 0.97 0.46 0.07
229_S 310_N 0.97 0.46 0.07
189_S 323_T 0.97 0.46 0.07
62_T 97_M 0.97 0.46 0.07
125_N 246_S 0.97 0.45 0.07
49_T 149_L 0.96 0.45 0.07
143_S 283_A 0.96 0.45 0.07
7_A 204_N 0.96 0.45 0.07
48_L 28_F 0.96 0.45 0.07
2_T 314_K 0.96 0.45 0.07
151_L 297_I 0.96 0.45 0.07
49_T 104_M 0.96 0.45 0.07
184_S 156_T 0.96 0.45 0.07
159_M 68_M 0.96 0.45 0.07
187_T 75_L 0.96 0.44 0.07
125_N 304_L 0.95 0.44 0.07
121_I 206_T 0.95 0.44 0.07
7_A 178_I 0.95 0.44 0.07
92_L 328_T 0.95 0.44 0.07
191_G 281_I 0.95 0.44 0.07
103_H 100_M 0.95 0.44 0.07
158_Q 215_A 0.95 0.44 0.07
142_V 201_T 0.95 0.43 0.07
103_H 304_L 0.94 0.43 0.07
159_M 48_M 0.94 0.43 0.07
179_S 99_M 0.94 0.43 0.07
122_T 28_F 0.94 0.43 0.07
162_A 168_G 0.94 0.42 0.07
49_T 257_L 0.94 0.42 0.07
104_S 342_F 0.93 0.42 0.06
151_L 273_N 0.93 0.42 0.06
5_S 68_M 0.93 0.41 0.06
104_S 300_T 0.93 0.41 0.06
229_S 228_L 0.92 0.41 0.06
254_V 8_V 0.92 0.41 0.06
143_S 304_L 0.92 0.41 0.06
143_S 31_V 0.92 0.41 0.06
61_V 163_M 0.92 0.40 0.06
112_L 283_A 0.92 0.40 0.06
162_A 113_F 0.92 0.40 0.06
213_T 45_T 0.92 0.40 0.06
229_S 70_L 0.92 0.40 0.06
65_S 99_M 0.92 0.40 0.06
32_A 316_Q 0.91 0.40 0.06
189_S 236_K 0.91 0.39 0.06
147_A 125_T 0.91 0.39 0.06
8_Y 107_G 0.91 0.39 0.06
125_N 111_F 0.90 0.39 0.06
92_L 119_T 0.90 0.39 0.06
175_L 247_T 0.90 0.39 0.06
114_G 291_Y 0.90 0.38 0.06
22_L 111_F 0.90 0.38 0.05
67_Y 204_N 0.90 0.38 0.05
51_T 278_I 0.89 0.38 0.05
222_Q 252_G 0.89 0.38 0.05
191_G 343_M 0.89 0.38 0.05
213_T 258_T 0.89 0.37 0.05
103_H 117_E 0.89 0.37 0.05
175_L 279_P 0.89 0.37 0.05
103_H 309_N 0.88 0.37 0.05
7_A 129_L 0.88 0.37 0.05
49_T 144_Q 0.88 0.37 0.05
102_Y 133_W 0.88 0.37 0.05
114_G 5_A 0.88 0.37 0.05
187_T 316_Q 0.88 0.37 0.05
143_S 136_L 0.88 0.36 0.05
158_Q 62_T 0.88 0.36 0.05
184_S 131_L 0.88 0.36 0.05
103_H 291_Y 0.88 0.36 0.05
78_G 108_M 0.88 0.36 0.05
164_L 119_T 0.88 0.36 0.05
219_F 33_L 0.88 0.36 0.05
229_S 155_L 0.87 0.36 0.05
8_Y 56_A 0.87 0.36 0.05
187_T 175_L 0.87 0.36 0.05
53_T 134_Q 0.87 0.35 0.05
135_S 79_M 0.87 0.35 0.05
22_L 154_L 0.87 0.35 0.05
42_L 9_I 0.87 0.35 0.05
125_N 73_A 0.87 0.35 0.05
158_Q 204_N 0.87 0.35 0.05
31_L 98_I 0.86 0.35 0.05
144_I 329_L 0.86 0.35 0.05
91_V 137_A 0.86 0.34 0.05
154_N 57_I 0.86 0.34 0.05
114_G 139_I 0.86 0.34 0.05
23_S 19_I 0.86 0.34 0.05
23_S 294_L 0.86 0.34 0.05
153_E 219_L 0.86 0.34 0.05
112_L 170_L 0.86 0.34 0.05
50_N 258_T 0.86 0.34 0.05
223_L 197_N 0.86 0.34 0.05
38_H 14_F 0.85 0.34 0.05
22_L 229_L 0.85 0.34 0.05
195_S 275_S 0.85 0.34 0.05
38_H 83_Q 0.85 0.34 0.05
191_G 236_K 0.85 0.34 0.05
110_P 136_L 0.85 0.34 0.05
225_F 106_L 0.85 0.34 0.04
8_Y 11_S 0.85 0.34 0.04
103_H 111_F 0.85 0.34 0.04
27_M 19_I 0.85 0.34 0.04
110_P 70_L 0.85 0.34 0.04
23_S 106_L 0.85 0.34 0.04
27_M 153_L 0.85 0.33 0.04
61_V 310_N 0.85 0.33 0.04
62_T 333_T 0.85 0.33 0.04
127_L 267_I 0.85 0.33 0.04
143_S 151_V 0.84 0.33 0.04
65_S 319_H 0.84 0.33 0.04
196_T 167_W 0.84 0.33 0.04
222_Q 199_N 0.84 0.33 0.04
25_L 283_A 0.84 0.33 0.04
51_T 251_L 0.84 0.32 0.04
95_A 78_N 0.84 0.32 0.04
103_H 5_A 0.84 0.32 0.04
103_H 24_S 0.84 0.32 0.04
217_I 280_T 0.84 0.32 0.04
151_L 22_L 0.84 0.32 0.04
45_L 240_L 0.83 0.32 0.04
161_Q 87_T 0.83 0.32 0.04
171_L 40_F 0.83 0.32 0.04
26_L 179_L 0.83 0.32 0.04
114_G 83_Q 0.83 0.32 0.04
195_S 111_F 0.83 0.32 0.04
103_H 311_V 0.83 0.32 0.04
199_V 69_I 0.83 0.32 0.04
162_A 162_I 0.83 0.32 0.04
26_L 205_L 0.83 0.32 0.04
47_L 193_V 0.83 0.32 0.04
112_L 151_V 0.83 0.32 0.04
42_L 205_L 0.83 0.32 0.04
65_S 197_N 0.83 0.31 0.04
22_L 56_A 0.83 0.31 0.04
182_F 265_A 0.83 0.31 0.04
111_Q 26_W 0.83 0.31 0.04
19_T 286_T 0.83 0.31 0.04
5_S 2_N 0.82 0.31 0.04
125_N 192_A 0.82 0.31 0.04
171_L 18_L 0.82 0.31 0.04
159_M 12_T 0.82 0.31 0.04
212_S 201_T 0.82 0.31 0.04
216_T 67_S 0.82 0.31 0.04
219_F 339_I 0.82 0.31 0.04
154_N 73_A 0.82 0.31 0.04
189_S 9_I 0.82 0.30 0.04
189_S 211_L 0.82 0.30 0.04
199_V 37_M 0.82 0.30 0.04
212_S 329_L 0.82 0.30 0.04
112_L 280_T 0.82 0.30 0.04
217_I 203_L 0.82 0.30 0.04
49_T 273_N 0.81 0.30 0.04
7_A 150_N 0.81 0.30 0.04
43_L 145_I 0.81 0.30 0.04
65_S 139_I 0.81 0.30 0.04
144_I 316_Q 0.81 0.30 0.04
43_L 48_M 0.81 0.30 0.04
84_I 332_L 0.81 0.30 0.04
2_T 312_K 0.81 0.30 0.04
27_M 327_P 0.81 0.30 0.04
95_A 12_T 0.81 0.30 0.04
127_L 316_Q 0.81 0.30 0.04
107_A 104_M 0.81 0.30 0.04
27_M 88_N 0.81 0.29 0.04
8_Y 308_S 0.81 0.29 0.04
171_L 195_P 0.81 0.29 0.04
125_N 181_Y 0.81 0.29 0.04
224_M 21_A 0.81 0.29 0.04
62_T 61_L 0.81 0.29 0.04
43_L 29_T 0.81 0.29 0.04
213_T 111_F 0.81 0.29 0.04
67_Y 166_S 0.81 0.29 0.04
143_S 170_L 0.81 0.29 0.04
162_A 80_L 0.81 0.29 0.04
45_L 201_T 0.81 0.29 0.04
103_H 87_T 0.80 0.29 0.04
127_L 297_I 0.80 0.29 0.04
216_T 8_V 0.80 0.29 0.04
191_G 145_I 0.80 0.29 0.04
25_L 185_T 0.80 0.29 0.04
53_T 133_W 0.80 0.29 0.04
26_L 57_I 0.80 0.29 0.04
40_M 41_I 0.80 0.29 0.04
161_Q 345_M 0.80 0.29 0.04
7_A 68_M 0.80 0.29 0.04
2_T 52_S 0.80 0.29 0.04
143_S 321_K 0.80 0.29 0.04
103_H 205_L 0.80 0.29 0.04
88_T 98_I 0.80 0.29 0.04
225_F 142_M 0.80 0.28 0.04
191_G 85_T 0.80 0.28 0.04
230_K 196_Y 0.80 0.28 0.04
144_I 79_M 0.80 0.28 0.04
171_L 62_T 0.80 0.28 0.04
62_T 164_A 0.80 0.28 0.04
143_S 123_P 0.80 0.28 0.04
158_Q 291_Y 0.80 0.28 0.04
65_S 35_M 0.79 0.28 0.04
136_V 38_L 0.79 0.28 0.04
191_G 237_L 0.79 0.28 0.04
95_A 126_S 0.79 0.28 0.04
12_K 86_M 0.79 0.28 0.04
165_I 297_I 0.79 0.28 0.04
185_P 240_L 0.79 0.28 0.04
104_S 87_T 0.79 0.28 0.04
143_S 127_G 0.79 0.28 0.04
153_E 146_S 0.79 0.28 0.03
110_P 88_N 0.79 0.28 0.03
23_S 49_N 0.79 0.28 0.03
136_V 316_Q 0.79 0.28 0.03
158_Q 57_I 0.78 0.27 0.03
23_S 68_M 0.78 0.27 0.03
254_V 45_T 0.78 0.27 0.03
92_L 40_F 0.78 0.27 0.03
61_V 4_L 0.78 0.27 0.03
38_H 195_P 0.78 0.27 0.03
182_F 44_L 0.78 0.27 0.03
164_L 265_A 0.78 0.27 0.03
23_S 289_N 0.78 0.27 0.03
144_I 9_I 0.78 0.27 0.03
50_N 104_M 0.78 0.27 0.03
191_G 43_V 0.78 0.27 0.03
8_Y 233_T 0.78 0.27 0.03
52_L 125_T 0.78 0.27 0.03
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
4561 3.97 cIV_C_40_cI_N_20_1_human Δgene:(1, ∞) A:(1E-40, 8) B:(1E-20, 1) msa: Jackhmmer (2015_06) 0.89 Done - Shared
4560 4.43 cIV_C_60_cI_N_20_8_human Δgene:(1, ∞) A:(1E-60, 8) B:(1E-20, 8) msa: Jackhmmer (2015_06) 0.03 Done - Shared
4559 3.96 cIV_C_60_cI_N_40_1_human Δgene:(1, ∞) A:(1E-60, 8) B:(1E-20, 1) msa: Jackhmmer (2015_06) 0.89 Done - Shared
4558 3.29 cIV_C_60_cI_N_40_1_human Δgene:(1, ∞) A:(1E-60, 8) B:(1E-40, 1) msa: Jackhmmer (2015_06) 0.80 Done - Shared
4557 2.14 cIV_C_60_cI_N_60_1_human Δgene:(1, ∞) A:(1E-60, 8) B:(1E-60, 1) msa: Jackhmmer (2015_06) 0.69 Done - Shared
4555 1.79 cIV_C_80_cI_N_80_1_human Δgene:(1, ∞) A:(1E-60, 8) B:(1E-80, 1) msa: Jackhmmer (2015_06) 0.36 Done - Shared
4554 1.79 cIV_C_80_cI_N_80_1_human Δgene:(1, ∞) A:(1E-80, 8) B:(1E-80, 1) msa: Jackhmmer (2015_06) 0.23 Done - Shared
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