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OPENSEQ.org
3G5O
Genes: A B A+B
Length: 92 81 167
Sequences: 1590 2777 799
Seq/Len: 17.28 34.28 4.78
MirrorTree (Pazo et al. 2001) 0.74
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 4.36
2 0.00 0.01 4.39
5 0.01 0.02 4.48
10 0.01 0.02 4.52
20 0.02 0.03 4.62
100 0.10 0.07 4.88
∞ 0.14 0.11 5.57
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
68_A 8_T 2.27 1.00 0.99
67_E 10_T 2.21 1.00 0.99
71_D 8_T 2.00 1.00 0.99
80_E 7_F 1.76 1.00 0.97
69_D 52_T 1.70 0.99 0.96
73_A 65_R 1.64 0.99 0.95
71_D 9_T 1.49 0.98 0.92
77_T 6_R 1.42 0.97 0.89
77_T 8_T 1.25 0.94 0.81
71_D 10_T 1.20 0.92 0.77
72_I 8_T 1.19 0.91 0.76
69_D 65_R 1.13 0.88 0.71
79_G 4_T 1.09 0.86 0.67
10_I 38_P 1.02 0.80 0.59
55_W 63_L 0.99 0.77 0.56
57_A 47_R 0.98 0.76 0.54
66_A 48_E 0.95 0.73 0.51
80_E 5_V 0.94 0.72 0.50
64_S 13_R 0.93 0.70 0.48
73_A 52_T 0.92 0.69 0.47
72_I 52_T 0.90 0.66 0.44
72_I 72_T 0.88 0.65 0.42
84_R 32_G 0.88 0.64 0.42
14_L 56_R 0.86 0.62 0.39
56_L 49_L 0.86 0.61 0.39
17_F 25_A 0.84 0.59 0.37
9_T 5_V 0.83 0.57 0.35
62_R 48_E 0.82 0.57 0.35
76_R 9_T 0.82 0.56 0.34
75_G 8_T 0.80 0.54 0.32
49_L 47_R 0.80 0.53 0.32
52_T 54_S 0.79 0.53 0.31
53_L 47_R 0.79 0.52 0.31
66_A 49_L 0.78 0.51 0.30
12_G 35_S 0.78 0.51 0.30
27_Q 42_G 0.78 0.50 0.29
51_E 54_S 0.78 0.50 0.29
51_E 43_K 0.76 0.47 0.27
23_S 24_A 0.76 0.47 0.27
28_I 63_L 0.75 0.46 0.26
72_I 74_V 0.75 0.46 0.26
26_D 36_R 0.74 0.45 0.26
41_V 50_A 0.72 0.43 0.24
80_E 27_V 0.72 0.43 0.23
68_A 52_T 0.71 0.40 0.22
21_V 28_E 0.69 0.39 0.21
4_I 34_L 0.69 0.38 0.20
49_L 40_R 0.67 0.35 0.18
44_D 2_P 0.67 0.35 0.18
65_I 52_T 0.66 0.34 0.18
82_E 7_F 0.66 0.34 0.17
16_E 34_L 0.65 0.33 0.17
34_G 17_K 0.65 0.33 0.16
51_E 45_L 0.64 0.32 0.16
70_A 28_E 0.62 0.29 0.14
5_L 73_V 0.62 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
10440 0.58 3G50_ab Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) 0.45 Done - Shared
0320 4.78 3G5O Δgene:(1, 20) A:(1E-04, 4) B:(1E-04, 4) msa: Jackhmmer (2014_03) 0.99 Done - Shared
0318 0.22 3G5O Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: Jackhmmer (2014_03) Killed - Shared
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