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OPENSEQ.org
isp_2_B_4_human
Genes: A B A+B
Length: 274 227 431
Sequences: 609 7221 325
Seq/Len: 2.22 31.81 0.75
MirrorTree (Pazo et al. 2001) 0.88
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 0.35
10 0.00 0.00 0.59
20 0.00 0.00 0.61
100 0.00 0.01 0.63
∞ 0.00 0.02 0.65
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
113_F 175_I 1.40 0.60 0.00
272_I 85_Y 1.16 0.41 0.00
216_V 83_I 1.15 0.40 0.00
81_T 147_E 1.14 0.39 0.00
267_S 224_V 1.10 0.35 0.00
64_L 58_A 1.09 0.35 0.00
114_S 48_T 1.07 0.33 0.00
120_V 192_Y 1.06 0.32 0.00
71_N 84_L 1.05 0.32 0.00
124_G 167_T 1.03 0.30 0.00
247_G 170_L 1.02 0.30 0.00
79_S 96_T 0.99 0.28 0.00
108_E 41_A 0.99 0.27 0.00
135_Q 58_A 0.99 0.27 0.00
225_I 202_A 0.98 0.27 0.00
112_G 166_P 0.97 0.26 0.00
267_S 92_D 0.96 0.26 0.00
86_P 211_L 0.95 0.25 0.00
70_L 12_A 0.94 0.24 0.00
135_Q 188_R 0.94 0.24 0.00
204_R 92_D 0.94 0.24 0.00
104_R 101_G 0.94 0.24 0.00
204_R 112_D 0.93 0.24 0.00
257_N 126_L 0.93 0.23 0.00
125_V 98_K 0.93 0.23 0.00
171_G 138_V 0.93 0.23 0.00
103_S 75_L 0.92 0.23 0.00
65_V 42_L 0.92 0.23 0.00
154_I 175_I 0.92 0.23 0.00
247_G 156_S 0.92 0.23 0.00
173_P 55_I 0.92 0.23 0.00
102_S 152_M 0.91 0.22 0.00
262_T 84_L 0.91 0.22 0.00
64_L 199_I 0.91 0.22 0.00
153_E 219_F 0.91 0.22 0.00
208_P 76_I 0.91 0.22 0.00
64_L 153_M 0.90 0.22 0.00
124_G 217_K 0.90 0.22 0.00
126_A 109_E 0.89 0.21 0.00
262_T 87_T 0.89 0.21 0.00
101_K 61_M 0.89 0.21 0.00
88_F 223_P 0.89 0.21 0.00
135_Q 206_F 0.89 0.21 0.00
105_E 47_T 0.89 0.21 0.00
182_K 90_V 0.89 0.21 0.00
118_T 61_M 0.88 0.20 0.00
120_V 68_L 0.87 0.20 0.00
126_A 179_L 0.87 0.20 0.00
220_L 78_L 0.87 0.20 0.00
136_F 188_R 0.87 0.20 0.00
216_V 215_P 0.87 0.20 0.00
154_I 187_T 0.87 0.20 0.00
79_S 85_Y 0.86 0.20 0.00
163_K 44_L 0.86 0.20 0.00
143_S 39_L 0.86 0.20 0.00
114_S 38_V 0.86 0.20 0.00
106_S 61_M 0.86 0.19 0.00
81_T 26_H 0.86 0.19 0.00
171_G 101_G 0.85 0.19 0.00
115_Y 47_T 0.85 0.19 0.00
268_D 71_I 0.85 0.19 0.00
87_D 215_P 0.84 0.19 0.00
166_A 217_K 0.83 0.18 0.00
138_S 61_M 0.83 0.18 0.00
187_E 44_L 0.82 0.18 0.00
213_L 95_L 0.82 0.18 0.00
113_F 114_G 0.82 0.17 0.00
202_L 17_M 0.82 0.17 0.00
230_D 144_L 0.82 0.17 0.00
242_H 105_Y 0.82 0.17 0.00
201_D 98_K 0.81 0.17 0.00
272_I 68_L 0.81 0.17 0.00
104_R 32_F 0.81 0.17 0.00
196_R 180_N 0.81 0.17 0.00
183_E 219_F 0.81 0.17 0.00
83_I 214_I 0.81 0.17 0.00
110_R 203_N 0.81 0.17 0.00
177_R 101_G 0.81 0.17 0.00
264_E 96_T 0.80 0.17 0.00
263_Y 102_H 0.80 0.16 0.00
207_K 84_L 0.80 0.16 0.00
124_G 42_L 0.79 0.16 0.00
223_V 169_G 0.79 0.16 0.00
216_V 99_S 0.79 0.16 0.00
124_G 166_P 0.79 0.16 0.00
170_R 36_F 0.78 0.16 0.00
186_Q 141_R 0.78 0.16 0.00
201_D 96_T 0.78 0.16 0.00
235_Y 24_H 0.78 0.16 0.00
91_Y 172_T 0.78 0.15 0.00
215_G 57_D 0.78 0.15 0.00
117_V 58_A 0.77 0.15 0.00
102_S 172_T 0.77 0.15 0.00
108_E 166_P 0.77 0.15 0.00
114_S 64_V 0.77 0.15 0.00
89_S 167_T 0.77 0.15 0.00
185_E 135_L 0.77 0.15 0.00
133_V 183_T 0.77 0.15 0.00
108_E 20_L 0.77 0.15 0.00
123_V 29_M 0.77 0.15 0.00
129_A 23_F 0.77 0.15 0.00
235_Y 57_D 0.77 0.15 0.00
117_V 32_F 0.77 0.15 0.00
249_I 208_P 0.77 0.15 0.00
225_I 192_Y 0.77 0.15 0.00
184_I 203_N 0.77 0.15 0.00
125_V 182_T 0.77 0.15 0.00
147_L 81_L 0.77 0.15 0.00
90_E 151_R 0.76 0.15 0.00
226_A 57_D 0.76 0.15 0.00
116_L 74_V 0.76 0.15 0.00
185_E 19_E 0.76 0.14 0.00
76_V 40_Y 0.76 0.14 0.00
262_T 48_T 0.76 0.14 0.00
134_T 84_L 0.76 0.14 0.00
188_A 144_L 0.76 0.14 0.00
224_P 107_T 0.76 0.14 0.00
225_I 87_T 0.76 0.14 0.00
202_L 87_T 0.75 0.14 0.00
117_V 61_M 0.75 0.14 0.00
80_H 182_T 0.75 0.14 0.00
101_K 224_V 0.75 0.14 0.00
163_K 42_L 0.75 0.14 0.00
226_A 24_H 0.75 0.14 0.00
161_E 223_P 0.75 0.14 0.00
114_S 47_T 0.75 0.14 0.00
215_G 24_H 0.75 0.14 0.00
118_T 218_I 0.75 0.14 0.00
88_F 176_P 0.74 0.14 0.00
181_Q 165_V 0.74 0.14 0.00
272_I 73_L 0.74 0.14 0.00
162_G 169_G 0.74 0.14 0.00
192_L 203_N 0.74 0.14 0.00
107_S 149_P 0.74 0.14 0.00
106_S 154_I 0.74 0.14 0.00
249_I 105_Y 0.74 0.14 0.00
250_R 59_Q 0.74 0.14 0.00
267_S 221_M 0.74 0.14 0.00
89_S 165_V 0.74 0.14 0.00
127_Y 28_L 0.74 0.14 0.00
255_P 111_T 0.74 0.14 0.00
224_P 102_H 0.74 0.14 0.00
87_D 152_M 0.74 0.14 0.00
156_L 5_A 0.73 0.14 0.00
188_A 49_K 0.73 0.14 0.00
148_A 219_F 0.73 0.14 0.00
130_K 74_V 0.73 0.14 0.00
69_G 211_L 0.73 0.14 0.00
216_V 205_S 0.73 0.14 0.00
120_V 191_V 0.73 0.13 0.00
251_L 24_H 0.73 0.13 0.00
124_G 75_L 0.73 0.13 0.00
102_S 182_T 0.73 0.13 0.00
135_Q 103_Q 0.73 0.13 0.00
207_K 38_V 0.73 0.13 0.00
247_G 206_F 0.73 0.13 0.00
206_K 187_T 0.73 0.13 0.00
256_L 146_I 0.72 0.13 0.00
130_K 42_L 0.72 0.13 0.00
220_L 28_L 0.72 0.13 0.00
141_S 192_Y 0.72 0.13 0.00
245_A 51_T 0.72 0.13 0.00
101_K 103_Q 0.72 0.13 0.00
196_R 211_L 0.72 0.13 0.00
151_K 27_A 0.72 0.13 0.00
69_G 75_L 0.72 0.13 0.00
188_A 71_I 0.72 0.13 0.00
96_V 95_L 0.72 0.13 0.00
87_D 167_T 0.72 0.13 0.00
247_G 131_G 0.71 0.13 0.00
102_S 183_T 0.71 0.13 0.00
127_Y 39_L 0.71 0.13 0.00
103_S 152_M 0.71 0.13 0.00
234_Y 63_T 0.71 0.13 0.00
194_Q 130_P 0.71 0.13 0.00
157_S 215_P 0.71 0.13 0.00
213_L 108_Y 0.71 0.13 0.00
131_N 27_A 0.71 0.13 0.00
265_F 6_Q 0.71 0.12 0.00
230_D 93_P 0.71 0.12 0.00
165_M 49_K 0.71 0.12 0.00
246_S 90_V 0.71 0.12 0.00
152_I 221_M 0.70 0.12 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
5364 0.75 isp_2_B_4_human Δgene:(1, ∞) A:(1E-02, 8) B:(1E-04, 8) msa: Jackhmmer (2016_06b) 0.00 Done - Shared
5360 0 isp_2_B_4_human Δgene:(1, ∞) A:(1E-02, 8) B:(1E-04, 8) msa: HHblits (2015_06) Killed - Shared
5354 0 isp_4_B_4_human Δgene:(1, ∞) A:(1E-04, 8) B:(1E-04, 8) msa: HHblits (2015_06) Killed - Shared
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