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OPENSEQ.org
2btf_2
Genes: A B A+B
Length: 375 140 481
Sequences: 3293 623 61
Seq/Len: 8.78 4.45 0.13
MirrorTree (Pazo et al. 2001) 0.41
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 0.04 0.06 0.01
2 0.05 0.07 0.02
5 0.05 0.07 0.09
10 0.05 0.07 0.10
20 0.06 0.07 0.12
100 0.08 0.07 0.19
∞ 0.16 0.07 0.33
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
363_D 112_L 2.22 0.60 0.07
370_V 104_T 2.14 0.56 0.06
158_G 115_G 1.81 0.38 0.03
64_I 68_G 1.56 0.27 0.01
242_L 104_T 1.54 0.26 0.01
290_R 113_L 1.52 0.25 0.01
186_T 67_G 1.50 0.24 0.01
108_A 70_K 1.49 0.24 0.01
261_L 102_T 1.46 0.23 0.01
219_V 8_I 1.37 0.19 0.01
209_V 120_H 1.37 0.19 0.01
341_I 50_I 1.34 0.18 0.01
35_V 59_F 1.32 0.18 0.01
261_L 115_G 1.31 0.17 0.01
213_K 36_P 1.30 0.17 0.01
360_Q 110_L 1.29 0.17 0.01
228_A 101_I 1.25 0.15 0.01
66_T 89_R 1.25 0.15 0.01
242_L 136_R 1.24 0.15 0.01
370_V 115_G 1.24 0.15 0.01
132_M 138_S 1.22 0.15 0.01
184_D 24_G 1.20 0.14 0.00
138_A 24_G 1.20 0.14 0.00
324_T 84_F 1.18 0.14 0.00
184_D 85_T 1.17 0.13 0.00
199_S 112_L 1.17 0.13 0.00
263_Q 111_V 1.16 0.13 0.00
272_C 139_Q 1.16 0.13 0.00
337_Y 125_N 1.15 0.13 0.00
138_A 19_D 1.15 0.13 0.00
168_G 20_A 1.15 0.13 0.00
132_M 101_I 1.14 0.13 0.00
239_S 9_D 1.13 0.13 0.00
173_H 81_D 1.13 0.12 0.00
214_E 111_V 1.12 0.12 0.00
154_D 89_R 1.12 0.12 0.00
171_L 115_G 1.12 0.12 0.00
217_C 103_V 1.11 0.12 0.00
293_L 89_R 1.11 0.12 0.00
307_P 106_T 1.10 0.12 0.00
351_T 87_D 1.10 0.12 0.00
244_D 125_N 1.09 0.12 0.00
308_G 74_I 1.09 0.12 0.00
149_T 89_R 1.08 0.11 0.00
327_I 59_F 1.08 0.11 0.00
318_T 80_Q 1.08 0.11 0.00
173_H 136_R 1.08 0.11 0.00
176_L 48_V 1.07 0.11 0.00
341_I 52_V 1.07 0.11 0.00
113_K 121_G 1.07 0.11 0.00
295_A 107_A 1.06 0.11 0.00
227_M 37_G 1.06 0.11 0.00
123_M 137_R 1.06 0.11 0.00
76_V 136_R 1.05 0.11 0.00
303_T 112_L 1.05 0.11 0.00
221_L 34_A 1.05 0.11 0.00
293_L 121_G 1.04 0.11 0.00
101_H 116_K 1.04 0.11 0.00
316_E 74_I 1.04 0.11 0.00
158_G 139_Q 1.04 0.10 0.00
123_M 74_I 1.01 0.10 0.00
144_A 102_T 1.01 0.10 0.00
221_L 101_I 1.01 0.10 0.00
335_R 31_V 1.01 0.10 0.00
64_I 66_L 1.01 0.10 0.00
347_A 20_A 1.00 0.10 0.00
285_C 101_I 1.00 0.10 0.00
237_E 90_T 1.00 0.10 0.00
287_V 125_N 1.00 0.10 0.00
158_G 104_T 0.99 0.10 0.00
309_I 69_Q 0.98 0.09 0.00
370_V 65_T 0.98 0.09 0.00
357_I 50_I 0.97 0.09 0.00
198_Y 85_T 0.97 0.09 0.00
66_T 70_K 0.97 0.09 0.00
52_S 89_R 0.97 0.09 0.00
345_I 31_V 0.97 0.09 0.00
242_L 129_Y 0.96 0.09 0.00
309_I 66_L 0.96 0.09 0.00
216_L 84_F 0.96 0.09 0.00
297_T 81_D 0.96 0.09 0.00
67_L 125_N 0.95 0.09 0.00
30_V 50_I 0.95 0.09 0.00
96_V 120_H 0.95 0.09 0.00
132_M 111_V 0.95 0.09 0.00
98_P 90_T 0.95 0.09 0.00
320_L 113_L 0.94 0.09 0.00
212_I 70_K 0.94 0.09 0.00
85_I 121_G 0.94 0.09 0.00
261_L 82_G 0.94 0.09 0.00
6_A 20_A 0.94 0.09 0.00
239_S 113_L 0.94 0.09 0.00
199_S 20_A 0.94 0.09 0.00
30_V 101_I 0.94 0.09 0.00
132_M 132_A 0.94 0.09 0.00
274_I 69_Q 0.94 0.09 0.00
91_Y 104_T 0.94 0.09 0.00
261_L 10_N 0.94 0.09 0.00
77_T 70_K 0.93 0.09 0.00
36_G 130_E 0.93 0.09 0.00
358_S 18_Q 0.93 0.09 0.00
108_A 89_R 0.93 0.09 0.00
48_G 27_D 0.93 0.09 0.00
304_T 112_L 0.93 0.09 0.00
146_G 82_G 0.93 0.09 0.00
318_T 5_N 0.93 0.09 0.00
274_I 10_N 0.93 0.09 0.00
162_T 68_G 0.93 0.09 0.00
109_P 89_R 0.93 0.08 0.00
49_Q 110_L 0.93 0.08 0.00
212_I 61_V 0.92 0.08 0.00
128_N 48_V 0.92 0.08 0.00
54_V 115_G 0.92 0.08 0.00
304_T 59_F 0.92 0.08 0.00
51_D 62_N 0.92 0.08 0.00
37_R 90_T 0.92 0.08 0.00
89_T 120_H 0.92 0.08 0.00
89_T 83_E 0.92 0.08 0.00
200_F 46_A 0.92 0.08 0.00
282_I 135_L 0.92 0.08 0.00
295_A 129_Y 0.91 0.08 0.00
217_C 36_P 0.91 0.08 0.00
331_A 66_L 0.91 0.08 0.00
149_T 16_T 0.91 0.08 0.00
36_G 101_I 0.91 0.08 0.00
316_E 89_R 0.91 0.08 0.00
18_K 70_K 0.91 0.08 0.00
143_Y 59_F 0.90 0.08 0.00
358_S 67_G 0.90 0.08 0.00
290_R 103_V 0.90 0.08 0.00
356_W 52_V 0.90 0.08 0.00
311_D 36_P 0.90 0.08 0.00
370_V 14_D 0.90 0.08 0.00
152_V 32_W 0.90 0.08 0.00
336_K 102_T 0.90 0.08 0.00
225_Q 112_L 0.90 0.08 0.00
242_L 83_E 0.89 0.08 0.00
329_I 44_T 0.89 0.08 0.00
118_K 51_L 0.89 0.08 0.00
293_L 81_D 0.89 0.08 0.00
305_M 104_T 0.89 0.08 0.00
54_V 74_I 0.89 0.08 0.00
308_G 69_Q 0.89 0.08 0.00
275_H 101_I 0.89 0.08 0.00
168_G 126_K 0.88 0.08 0.00
370_V 102_T 0.88 0.08 0.00
85_I 115_G 0.88 0.08 0.00
29_A 31_V 0.88 0.08 0.00
275_H 127_K 0.88 0.08 0.00
184_D 117_E 0.87 0.08 0.00
304_T 93_T 0.87 0.08 0.00
91_Y 64_L 0.87 0.07 0.00
206_R 14_D 0.86 0.07 0.00
149_T 27_D 0.86 0.07 0.00
248_I 86_M 0.86 0.07 0.00
324_T 61_V 0.86 0.07 0.00
331_A 43_I 0.86 0.07 0.00
60_S 20_A 0.86 0.07 0.00
74_G 64_L 0.86 0.07 0.00
168_G 31_V 0.86 0.07 0.00
34_I 70_K 0.86 0.07 0.00
263_Q 115_G 0.86 0.07 0.00
355_M 121_G 0.86 0.07 0.00
129_T 123_M 0.85 0.07 0.00
109_P 116_K 0.85 0.07 0.00
286_D 127_K 0.85 0.07 0.00
75_I 139_Q 0.85 0.07 0.00
242_L 20_A 0.85 0.07 0.00
290_R 102_T 0.85 0.07 0.00
109_P 67_G 0.84 0.07 0.00
37_R 85_T 0.84 0.07 0.00
279_F 113_L 0.84 0.07 0.00
315_K 64_L 0.84 0.07 0.00
272_C 6_A 0.84 0.07 0.00
311_D 20_A 0.84 0.07 0.00
13_G 7_Y 0.84 0.07 0.00
182_G 104_T 0.84 0.07 0.00
48_G 89_R 0.84 0.07 0.00
290_R 52_V 0.83 0.07 0.00
297_T 128_C 0.83 0.07 0.00
132_M 129_Y 0.83 0.07 0.00
36_G 44_T 0.83 0.07 0.00
14_S 45_P 0.83 0.07 0.00
103_V 123_M 0.83 0.07 0.00
37_R 125_N 0.83 0.07 0.00
349_L 64_L 0.83 0.07 0.00
51_D 111_V 0.83 0.07 0.00
341_I 125_N 0.83 0.07 0.00
162_T 18_Q 0.83 0.07 0.00
365_S 68_G 0.82 0.07 0.00
152_V 135_L 0.82 0.07 0.00
76_V 16_T 0.82 0.07 0.00
96_V 113_L 0.82 0.07 0.00
58_A 113_L 0.82 0.07 0.00
308_G 43_I 0.82 0.07 0.00
98_P 8_I 0.82 0.07 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
9006 0.41 2btf_5 Δgene:(1, ∞) A:(1E-06, 8) B:(1E-06, 8) msa: HHblits (2015_06) 0.32 Done - Shared
9005 0.42 2btf_4 Δgene:(1, ∞) A:(1E-10, 8) B:(1E-10, 8) msa: HHblits (2015_06) 0.20 Done - Shared
9004 0.35 2btf_3 Δgene:(1, ∞) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) 0.00 Done - Shared
9002 0.13 2btf_2 Δgene:(0, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) 0.07 Done - Shared
9000 0.13 2btf Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) 0.05 Done - Shared
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