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OPENSEQ.org
DI2200004
Genes: A B A+B
Length: 44 51 89
Sequences: 349 180 137
Seq/Len: 7.93 3.53 1.54
MirrorTree (Pazo et al. 2001) 0.61
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 0.04
2 0.00 0.00 0.48
5 0.00 0.00 1.16
10 0.00 0.00 1.39
20 0.00 0.00 1.41
100 0.00 0.00 1.39
∞ 0.00 0.00 1.44
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
38_Y 27_K 2.23 0.99 0.97
12_L 46_V 1.75 0.95 0.87
12_L 34_E 1.52 0.88 0.74
33_D 22_A 1.45 0.84 0.69
36_R 23_A 1.32 0.76 0.57
37_A 39_L 1.28 0.72 0.53
7_E 44_E 1.26 0.71 0.50
16_T 19_D 1.23 0.68 0.47
18_D 26_S 1.22 0.67 0.46
44_E 46_V 1.14 0.59 0.37
37_A 29_M 1.11 0.56 0.35
32_E 42_L 1.11 0.56 0.34
6_Q 19_D 1.06 0.51 0.29
31_A 10_D 1.01 0.46 0.25
44_E 9_R 1.00 0.45 0.24
5_G 21_L 1.00 0.45 0.24
39_V 23_A 1.00 0.45 0.24
18_D 50_G 1.00 0.45 0.24
5_G 24_R 0.99 0.43 0.23
36_R 41_A 0.96 0.40 0.20
4_A 44_E 0.95 0.40 0.20
25_D 6_R 0.95 0.40 0.20
11_K 34_E 0.95 0.39 0.20
37_A 43_R 0.94 0.39 0.19
38_Y 47_D 0.92 0.37 0.18
38_Y 23_A 0.92 0.37 0.17
4_A 11_I 0.91 0.36 0.17
8_R 44_E 0.91 0.35 0.17
9_R 43_R 0.90 0.35 0.16
22_E 8_A 0.89 0.33 0.15
13_T 50_G 0.88 0.33 0.15
38_Y 39_L 0.87 0.32 0.14
7_E 22_A 0.86 0.32 0.14
19_L 33_K 0.85 0.30 0.13
14_E 10_D 0.84 0.30 0.12
22_E 12_H 0.83 0.28 0.12
11_K 30_E 0.82 0.28 0.12
8_R 22_A 0.82 0.28 0.11
36_R 37_Q 0.81 0.27 0.11
15_E 24_R 0.80 0.26 0.10
29_E 13_Q 0.80 0.26 0.10
12_L 15_E 0.79 0.25 0.10
25_D 13_Q 0.78 0.24 0.09
9_R 27_K 0.77 0.24 0.09
15_E 22_A 0.77 0.23 0.09
10_E 12_H 0.75 0.22 0.08
5_G 12_H 0.75 0.22 0.08
44_E 30_E 0.74 0.22 0.08
14_E 43_R 0.74 0.22 0.08
25_D 34_E 0.74 0.22 0.08
22_E 11_I 0.73 0.21 0.07
29_E 44_E 0.73 0.21 0.07
36_R 42_L 0.73 0.21 0.07
13_T 21_L 0.71 0.19 0.06
18_D 41_A 0.70 0.19 0.06
11_K 11_I 0.69 0.18 0.06
5_G 19_D 0.69 0.18 0.06
32_E 46_V 0.69 0.18 0.06
38_Y 50_G 0.69 0.18 0.06
18_D 18_I 0.68 0.18 0.06
33_D 18_I 0.68 0.18 0.06
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
7790 2.19 DI2200004 Δgene:(1, ∞) A:(1E-04, 8) B:(1E-04, 8) msa: Jackhmmer (r132) 0.99 Done - Shared
7781 1.54 DI2200004 Δgene:(1, ∞) A:(1E-06, 4) B:(1E-06, 4) msa: Jackhmmer (r132) 0.97 Done - Shared
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