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OPENSEQ.org
cI_5_4_cI_6_4_tt
Genes: A B A+B
Length: 207 181 349
Sequences: 1052 1709 648
Seq/Len: 5.08 9.44 1.86
MirrorTree (Pazo et al. 2001) 0.84
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 0.01 1.54
2 0.00 0.01 1.59
5 0.01 0.02 1.58
10 0.01 0.02 1.59
20 0.01 0.03 1.60
100 0.01 0.04 1.61
∞ 0.03 0.10 1.67
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
52_I 151_V 1.34 0.82 0.08
32_E 20_L 1.27 0.76 0.06
109_G 56_A 1.26 0.76 0.06
111_A 62_R 1.18 0.69 0.05
89_F 103_K 1.17 0.68 0.05
63_P 135_V 1.11 0.62 0.04
75_V 110_A 1.07 0.58 0.04
53_V 103_K 1.05 0.56 0.03
85_G 58_N 1.05 0.56 0.03
179_P 31_G 1.05 0.56 0.03
150_Y 118_F 1.05 0.56 0.03
134_K 126_N 1.04 0.54 0.03
146_L 85_S 1.03 0.54 0.03
63_P 65_S 1.02 0.52 0.03
124_I 135_V 1.00 0.51 0.03
122_F 104_W 1.00 0.50 0.03
105_T 101_D 0.99 0.49 0.03
36_E 151_V 0.99 0.49 0.03
106_D 135_V 0.98 0.48 0.03
163_R 94_R 0.97 0.47 0.03
151_P 93_R 0.97 0.47 0.03
180_G 85_S 0.97 0.47 0.03
110_S 53_S 0.97 0.47 0.03
138_P 125_Q 0.96 0.46 0.03
11_R 19_I 0.96 0.46 0.03
119_Y 81_A 0.96 0.46 0.03
187_G 31_G 0.94 0.44 0.02
108_W 152_M 0.94 0.44 0.02
121_L 161_Q 0.94 0.44 0.02
109_G 61_A 0.93 0.43 0.02
138_P 127_V 0.93 0.43 0.02
35_K 20_L 0.92 0.41 0.02
19_D 156_K 0.92 0.41 0.02
163_R 103_K 0.92 0.41 0.02
143_G 101_D 0.90 0.40 0.02
156_P 113_S 0.90 0.39 0.02
150_Y 91_V 0.90 0.39 0.02
138_P 117_M 0.90 0.39 0.02
138_P 144_P 0.90 0.39 0.02
121_L 23_T 0.90 0.39 0.02
72_Y 106_I 0.90 0.39 0.02
141_L 125_Q 0.90 0.39 0.02
128_G 97_E 0.89 0.38 0.02
161_E 152_M 0.89 0.38 0.02
165_I 75_A 0.88 0.38 0.02
32_E 23_T 0.88 0.37 0.02
59_T 58_N 0.88 0.37 0.02
49_L 56_A 0.87 0.37 0.02
186_G 53_S 0.87 0.37 0.02
23_G 21_F 0.87 0.37 0.02
99_P 25_E 0.87 0.37 0.02
76_S 18_G 0.87 0.36 0.02
74_L 37_W 0.87 0.36 0.02
92_V 122_A 0.87 0.36 0.02
157_T 85_S 0.87 0.36 0.02
173_A 14_L 0.86 0.35 0.02
14_G 56_A 0.86 0.35 0.02
108_W 101_D 0.86 0.35 0.02
178_D 85_S 0.85 0.34 0.02
54_G 137_V 0.85 0.34 0.02
142_E 36_L 0.85 0.34 0.02
77_L 65_S 0.85 0.34 0.02
137_T 137_V 0.85 0.34 0.02
185_K 104_W 0.84 0.33 0.02
132_L 152_M 0.83 0.33 0.02
168_A 18_G 0.83 0.32 0.01
141_L 117_M 0.82 0.32 0.01
38_M 36_L 0.82 0.32 0.01
138_P 119_N 0.82 0.32 0.01
92_V 16_R 0.82 0.32 0.01
140_D 118_F 0.82 0.31 0.01
57_Y 104_W 0.82 0.31 0.01
138_P 114_S 0.82 0.31 0.01
166_I 48_I 0.81 0.31 0.01
65_P 20_L 0.81 0.31 0.01
51_D 107_S 0.81 0.31 0.01
137_T 117_M 0.81 0.31 0.01
162_G 100_P 0.81 0.31 0.01
126_F 38_P 0.81 0.30 0.01
52_I 106_I 0.81 0.30 0.01
99_P 93_R 0.81 0.30 0.01
88_F 60_L 0.81 0.30 0.01
141_L 91_V 0.81 0.30 0.01
143_G 113_S 0.80 0.30 0.01
153_G 93_R 0.80 0.30 0.01
108_W 100_P 0.80 0.29 0.01
88_F 27_L 0.80 0.29 0.01
11_R 156_K 0.80 0.29 0.01
119_Y 21_F 0.80 0.29 0.01
156_P 146_A 0.79 0.29 0.01
126_F 76_D 0.79 0.29 0.01
42_K 18_G 0.79 0.29 0.01
137_T 125_Q 0.79 0.28 0.01
165_I 150_A 0.79 0.28 0.01
186_G 85_S 0.79 0.28 0.01
110_S 149_Y 0.79 0.28 0.01
105_T 27_L 0.78 0.28 0.01
163_R 100_P 0.78 0.28 0.01
5_R 152_M 0.78 0.28 0.01
147_R 161_Q 0.78 0.28 0.01
25_L 58_N 0.78 0.28 0.01
118_V 130_V 0.77 0.27 0.01
158_L 144_P 0.77 0.27 0.01
142_E 80_V 0.77 0.27 0.01
150_Y 120_N 0.77 0.27 0.01
153_G 44_A 0.77 0.27 0.01
77_L 38_P 0.76 0.26 0.01
139_E 144_P 0.76 0.26 0.01
167_P 68_F 0.75 0.26 0.01
138_P 143_R 0.75 0.25 0.01
7_L 52_A 0.75 0.25 0.01
118_V 147_L 0.75 0.25 0.01
27_V 24_L 0.75 0.25 0.01
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
4920 1.81 cI_5_20_cI_6_60_tt Δgene:(1, ∞) A:(1E-20, 8) B:(1E-60, 8) msa: Jackhmmer (2015_06) 0.25 Done - Shared
4919 1.84 cI_5_10_cI_6_40_tt Δgene:(1, ∞) A:(1E-10, 8) B:(1E-40, 8) msa: Jackhmmer (2015_06) 0.20 Done - Shared
4918 1.94 cI_5_20_cI_6_40_tt Δgene:(1, ∞) A:(1E-20, 8) B:(1E-40, 8) msa: Jackhmmer (2015_06) 0.33 Done - Shared
4917 0.03 cI_5_40_cI_6_40_tt Δgene:(1, ∞) A:(1E-40, 8) B:(1E-40, 8) msa: Jackhmmer (2015_06) Killed - Shared
4916 1.9 cI_5_20_cI_6_20_tt Δgene:(1, ∞) A:(1E-20, 8) B:(1E-20, 8) msa: Jackhmmer (2015_06) 0.28 Done - Shared
4914 1.82 cI_5_10_cI_6_10_tt Δgene:(1, ∞) A:(1E-10, 8) B:(1E-10, 8) msa: Jackhmmer (2015_06) 0.25 Done - Shared
4913 1.97 cI_5_6_cI_6_6_tt Δgene:(1, ∞) A:(1E-06, 8) B:(1E-06, 8) msa: Jackhmmer (2015_06) 0.02 Done - Shared
4912 1.86 cI_5_4_cI_6_4_tt Δgene:(1, ∞) A:(1E-04, 8) B:(1E-04, 8) msa: Jackhmmer (2015_06) 0.08 Done - Shared
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