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OPENSEQ.org
DI2200004
Genes: A B A+B
Length: 44 51 88
Sequences: 348 243 193
Seq/Len: 7.91 4.76 2.19
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 0.06
2 0.00 0.00 1.01
5 0.00 0.00 1.73
10 0.00 0.00 1.93
20 0.00 0.00 1.98
100 0.00 0.00 2.01
∞ 0.00 0.00 2.03
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 2.45 1.00 0.99
26_V 35_A 1.54 0.94 0.86
20_L 36_R 1.48 0.92 0.84
44_E 42_L 1.47 0.91 0.83
12_L 46_V 1.45 0.91 0.82
41_K 36_R 1.37 0.87 0.77
29_E 44_E 1.36 0.86 0.76
44_E 13_Q 1.34 0.85 0.74
19_L 16_A 1.26 0.80 0.68
25_D 20_S 1.22 0.77 0.63
13_T 50_G 1.06 0.62 0.46
4_A 7_S 1.02 0.57 0.41
26_V 38_Q 1.00 0.55 0.39
44_E 33_K 0.99 0.54 0.38
4_A 44_E 0.97 0.52 0.35
26_V 26_S 0.94 0.49 0.32
33_D 22_A 0.94 0.48 0.32
18_D 6_R 0.93 0.47 0.31
37_A 27_K 0.92 0.46 0.30
33_D 19_D 0.91 0.45 0.29
32_E 18_I 0.91 0.45 0.29
25_D 41_A 0.88 0.42 0.26
18_D 13_Q 0.88 0.41 0.26
31_A 10_D 0.88 0.41 0.25
22_E 12_H 0.87 0.41 0.25
5_G 30_E 0.86 0.39 0.24
39_V 22_A 0.85 0.39 0.23
9_R 23_A 0.85 0.38 0.23
26_V 31_T 0.85 0.38 0.23
19_L 51_Q 0.85 0.38 0.23
7_E 23_A 0.84 0.37 0.21
10_E 45_E 0.83 0.36 0.21
19_L 19_D 0.83 0.36 0.21
26_V 39_L 0.82 0.35 0.20
37_A 18_I 0.82 0.35 0.20
44_E 30_E 0.81 0.34 0.20
32_E 46_V 0.81 0.34 0.19
3_A 29_M 0.81 0.34 0.19
18_D 41_A 0.80 0.33 0.18
14_E 8_A 0.80 0.33 0.18
9_R 37_Q 0.80 0.33 0.18
36_R 50_G 0.80 0.33 0.18
6_Q 30_E 0.79 0.32 0.17
20_L 28_L 0.78 0.31 0.17
33_D 45_E 0.78 0.31 0.17
36_R 23_A 0.78 0.31 0.17
37_A 39_L 0.77 0.30 0.16
13_T 23_A 0.76 0.29 0.15
14_E 9_R 0.76 0.29 0.15
22_E 46_V 0.76 0.29 0.15
32_E 34_E 0.75 0.28 0.14
15_E 51_Q 0.74 0.27 0.14
33_D 49_L 0.74 0.27 0.14
6_Q 8_A 0.74 0.27 0.14
36_R 39_L 0.74 0.27 0.14
12_L 6_R 0.73 0.27 0.13
19_L 50_G 0.73 0.26 0.13
44_E 14_L 0.72 0.25 0.13
29_E 30_E 0.72 0.25 0.12
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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