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OPENSEQ.org
DI2200001
Genes: A B A+B
Length: 36 101 134
Sequences: 636 762 544
Seq/Len: 17.67 7.54 4.06
MirrorTree (Pazo et al. 2001) 0.56
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 3.96
2 0.00 0.01 3.96
5 0.00 0.02 3.99
10 0.00 0.02 4.00
20 0.00 0.02 4.00
100 0.01 0.02 4.00
∞ 0.01 0.02 3.97
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
28_S 70_S 1.95 1.00 0.98
19_V 67_D 1.63 0.99 0.94
19_V 66_T 1.58 0.98 0.93
9_K 26_D 1.55 0.98 0.92
31_D 75_V 1.44 0.97 0.88
15_G 47_S 1.40 0.96 0.86
1_R 23_D 1.30 0.93 0.80
33_N 72_P 1.23 0.90 0.75
20_A 28_P 1.22 0.90 0.74
16_M 47_S 1.17 0.87 0.70
19_V 29_G 1.08 0.81 0.62
20_A 29_G 1.06 0.79 0.58
30_A 33_V 1.04 0.78 0.57
22_F 61_W 1.02 0.76 0.55
29_F 2_Q 1.02 0.75 0.54
11_E 48_R 0.98 0.71 0.49
22_F 64_M 0.96 0.69 0.47
29_F 70_S 0.96 0.69 0.47
9_K 24_I 0.94 0.67 0.45
23_I 30_R 0.93 0.66 0.44
22_F 67_D 0.93 0.65 0.43
28_S 97_M 0.92 0.65 0.42
9_K 27_T 0.87 0.58 0.36
18_E 13_R 0.84 0.55 0.33
30_A 17_F 0.84 0.54 0.33
5_A 96_L 0.83 0.53 0.32
24_E 68_M 0.81 0.51 0.30
19_V 47_S 0.81 0.50 0.29
20_A 17_F 0.79 0.47 0.27
32_E 70_S 0.79 0.47 0.27
17_A 27_T 0.78 0.46 0.26
9_K 96_L 0.78 0.46 0.26
7_R 85_H 0.77 0.44 0.25
16_M 27_T 0.77 0.44 0.25
14_E 85_H 0.76 0.43 0.24
17_A 26_D 0.76 0.43 0.24
30_A 15_R 0.76 0.43 0.24
19_V 34_I 0.75 0.42 0.23
29_F 67_D 0.75 0.41 0.23
11_E 78_E 0.72 0.39 0.21
29_F 14_Y 0.70 0.35 0.18
25_M 86_R 0.69 0.34 0.18
23_I 34_I 0.69 0.34 0.18
11_E 54_V 0.69 0.34 0.17
26_N 83_L 0.69 0.34 0.17
19_V 51_Y 0.66 0.31 0.15
13_Q 92_N 0.65 0.30 0.15
26_N 86_R 0.65 0.29 0.14
28_S 21_Q 0.64 0.29 0.14
21_R 9_K 0.64 0.29 0.14
6_E 92_N 0.64 0.29 0.14
33_N 70_S 0.64 0.29 0.14
16_M 99_W 0.64 0.28 0.14
19_V 64_M 0.64 0.28 0.14
32_E 10_R 0.64 0.28 0.13
20_A 31_R 0.63 0.28 0.13
19_V 50_L 0.63 0.27 0.13
6_E 77_G 0.62 0.27 0.12
1_R 15_R 0.62 0.27 0.12
33_N 71_V 0.62 0.26 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
7786 4.06 DI2200001 Δgene:(1, ∞) A:(1E-04, 8) B:(1E-06, 4) msa: Jackhmmer (r132) 0.98 Done - Shared
7779 0.43 DI2200001 Δgene:(1, ∞) A:(1E-06, 4) B:(1E-06, 4) msa: Jackhmmer (r132) 0.05 Done - Shared
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