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OPENSEQ.org
cIV_B_60_cI_K_20_human
Genes: A B A+B
Length: 227 98 324
Sequences: 2677 1088 688
Seq/Len: 11.79 11.1 2.12
MirrorTree (Pazo et al. 2001) 0.71
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 0.05
2 0.00 0.00 0.05
5 0.00 0.00 2.10
10 0.00 0.00 2.12
20 0.00 0.00 2.12
100 0.00 0.00 2.12
∞ 0.00 0.00 2.12
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
73_L 77_L 2.06 0.99 0.97
68_L 78_L 1.76 0.97 0.92
68_L 76_A 1.65 0.96 0.89
73_L 31_L 1.55 0.94 0.84
11_D 33_L 1.51 0.92 0.82
156_S 22_Y 1.48 0.91 0.80
170_L 39_S 1.45 0.90 0.79
30_I 78_L 1.43 0.89 0.77
41_A 35_G 1.39 0.87 0.73
183_T 78_L 1.36 0.86 0.71
150_I 66_F 1.32 0.83 0.68
110_Y 77_L 1.30 0.82 0.66
31_I 35_G 1.24 0.78 0.60
37_L 72_A 1.23 0.77 0.59
140_N 88_D 1.23 0.77 0.59
27_A 17_L 1.23 0.77 0.59
110_Y 90_V 1.20 0.75 0.56
110_Y 31_L 1.19 0.73 0.54
141_R 86_G 1.18 0.73 0.54
13_T 81_I 1.18 0.73 0.54
157_Q 20_L 1.16 0.71 0.52
202_A 33_L 1.16 0.70 0.51
167_T 42_I 1.15 0.69 0.50
57_D 76_A 1.14 0.69 0.49
155_T 11_A 1.12 0.67 0.47
23_F 27_M 1.12 0.67 0.47
144_L 29_S 1.11 0.66 0.46
30_I 87_L 1.11 0.66 0.46
52_N 27_M 1.10 0.65 0.45
216_L 79_V 1.10 0.65 0.45
39_L 60_P 1.10 0.65 0.45
47_S 6_M 1.10 0.65 0.45
140_N 43_M 1.10 0.65 0.45
92_D 51_T 1.10 0.65 0.45
183_T 90_V 1.09 0.64 0.44
90_V 41_F 1.09 0.64 0.44
224_V 56_A 1.09 0.64 0.43
143_V 63_M 1.09 0.64 0.43
144_L 19_M 1.07 0.62 0.42
73_L 90_V 1.07 0.62 0.41
28_L 97_Q 1.06 0.61 0.41
226_T 79_V 1.06 0.61 0.41
184_F 63_M 1.06 0.60 0.40
57_D 37_M 1.05 0.60 0.40
10_Q 83_N 1.05 0.59 0.39
202_A 27_M 1.04 0.59 0.39
192_Y 46_F 1.04 0.59 0.38
141_R 49_L 1.04 0.58 0.38
3_H 91_H 1.04 0.58 0.38
37_L 55_L 1.03 0.58 0.37
123_L 50_N 1.01 0.55 0.34
202_A 47_M 1.00 0.55 0.34
29_M 37_M 1.00 0.54 0.34
115_G 5_Y 1.00 0.54 0.34
154_I 46_F 0.99 0.54 0.33
99_S 84_T 0.99 0.54 0.33
148_T 7_N 0.99 0.53 0.33
220_E 78_L 0.99 0.53 0.33
71_I 17_L 0.99 0.53 0.33
137_D 95_L 0.99 0.53 0.33
52_N 47_M 0.99 0.53 0.33
35_C 60_P 0.99 0.53 0.32
46_L 7_N 0.99 0.53 0.32
95_L 41_F 0.98 0.52 0.32
67_I 72_A 0.98 0.52 0.32
107_T 23_R 0.98 0.52 0.32
116_L 10_L 0.97 0.50 0.30
75_L 76_A 0.97 0.50 0.30
32_F 6_M 0.97 0.50 0.30
61_M 72_A 0.96 0.50 0.30
142_V 36_M 0.96 0.50 0.30
78_L 15_S 0.96 0.50 0.30
186_A 33_L 0.96 0.49 0.30
73_L 89_Y 0.96 0.49 0.30
115_G 39_S 0.96 0.49 0.30
82_R 60_P 0.96 0.49 0.30
185_T 72_A 0.96 0.49 0.29
192_Y 20_L 0.95 0.49 0.29
214_I 91_H 0.95 0.49 0.29
149_P 63_M 0.95 0.49 0.29
170_L 91_H 0.95 0.49 0.29
27_A 54_L 0.95 0.48 0.28
37_L 51_T 0.94 0.48 0.28
23_F 47_M 0.94 0.48 0.28
99_S 40_L 0.94 0.47 0.27
23_F 49_L 0.93 0.46 0.27
114_G 65_V 0.93 0.46 0.27
36_F 94_N 0.93 0.46 0.27
30_I 76_A 0.92 0.45 0.26
138_V 5_Y 0.92 0.45 0.26
47_S 57_N 0.92 0.45 0.26
86_M 65_V 0.92 0.45 0.26
157_Q 38_L 0.92 0.45 0.26
156_S 90_V 0.92 0.45 0.25
170_L 87_L 0.92 0.45 0.25
167_T 76_A 0.92 0.45 0.25
58_A 23_R 0.92 0.44 0.25
26_H 60_P 0.91 0.44 0.25
89_E 83_N 0.90 0.43 0.24
50_L 35_G 0.90 0.43 0.24
182_T 87_L 0.90 0.43 0.24
40_Y 33_L 0.89 0.42 0.23
23_F 24_S 0.89 0.42 0.23
167_T 89_Y 0.89 0.41 0.23
191_V 3_L 0.89 0.41 0.23
7_V 21_V 0.88 0.40 0.22
37_L 73_V 0.88 0.40 0.22
170_L 47_M 0.88 0.40 0.22
210_V 97_Q 0.88 0.40 0.22
141_R 27_M 0.87 0.40 0.21
115_G 66_F 0.87 0.40 0.21
224_V 97_Q 0.87 0.40 0.21
188_R 12_F 0.87 0.40 0.21
52_N 46_F 0.87 0.40 0.21
215_P 86_G 0.87 0.40 0.21
68_L 79_V 0.87 0.39 0.21
186_A 15_S 0.87 0.39 0.21
58_A 82_S 0.87 0.39 0.21
23_F 66_F 0.86 0.39 0.21
123_L 55_L 0.86 0.39 0.21
76_I 23_R 0.86 0.39 0.20
175_I 78_L 0.86 0.38 0.20
83_I 35_G 0.86 0.38 0.20
23_F 97_Q 0.86 0.38 0.20
67_I 82_S 0.86 0.38 0.20
26_H 38_L 0.85 0.38 0.20
61_M 73_V 0.84 0.37 0.19
13_T 46_F 0.84 0.36 0.19
156_S 81_I 0.84 0.36 0.19
226_T 35_G 0.84 0.36 0.19
191_V 50_N 0.84 0.36 0.18
215_P 29_S 0.83 0.35 0.18
56_S 45_T 0.83 0.35 0.18
216_L 84_T 0.83 0.35 0.18
154_I 38_L 0.83 0.35 0.18
147_E 53_S 0.82 0.34 0.17
187_T 54_L 0.82 0.34 0.17
48_T 61_I 0.82 0.34 0.17
61_M 45_T 0.82 0.34 0.17
21_I 48_T 0.81 0.34 0.17
183_T 63_M 0.81 0.34 0.17
167_T 4_I 0.81 0.33 0.17
44_L 82_S 0.81 0.33 0.17
91_N 41_F 0.81 0.33 0.16
223_P 46_F 0.81 0.33 0.16
9_L 16_L 0.81 0.33 0.16
59_Q 35_G 0.81 0.33 0.16
225_F 97_Q 0.81 0.33 0.16
185_T 22_Y 0.81 0.33 0.16
53_T 65_V 0.80 0.32 0.16
211_L 90_V 0.80 0.32 0.16
63_T 67_A 0.80 0.32 0.16
47_S 8_I 0.80 0.32 0.16
44_L 49_L 0.80 0.32 0.15
99_S 17_L 0.80 0.32 0.15
27_A 29_S 0.79 0.32 0.15
49_K 36_M 0.79 0.31 0.15
9_L 10_L 0.78 0.31 0.15
223_P 16_L 0.78 0.30 0.14
37_L 5_Y 0.78 0.30 0.14
226_T 54_L 0.78 0.30 0.14
170_L 7_N 0.78 0.30 0.14
146_I 44_G 0.78 0.30 0.14
49_K 98_C 0.78 0.30 0.14
43_F 6_M 0.78 0.30 0.14
81_L 82_S 0.78 0.30 0.14
175_I 53_S 0.78 0.30 0.14
51_T 63_M 0.77 0.29 0.14
5_A 51_T 0.77 0.29 0.14
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
4514 5.9 cIV_B_60_cI_K_10_human Δgene:(1, ∞) A:(1E-60, 8) B:(1E-10, 8) msa: Jackhmmer (2015_06) 0.76 Done - Shared
4513 2.12 cIV_B_60_cI_K_20_human Δgene:(1, ∞) A:(1E-60, 8) B:(1E-20, 8) msa: Jackhmmer (2015_06) 0.97 Done - Shared
4510 2.09 cIV_B_40_cI_K_20_human Δgene:(1, ∞) A:(1E-40, 8) B:(1E-20, 8) msa: Jackhmmer (2015_06) 0.96 Done - Shared
4509 0.18 cIV_B_40_cI_K_40_human Δgene:(1, ∞) A:(1E-40, 8) B:(1E-40, 8) msa: Jackhmmer (2015_06) 0.00 Done - Shared
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