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OPENSEQ.org
DI2200001
Genes: A B A+B
Length: 36 101 137
Sequences: 61 762 59
Seq/Len: 1.69 7.54 0.43
MirrorTree (Pazo et al. 2001) 0.79
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 0.43
2 0.00 0.01 0.43
5 0.00 0.02 0.43
10 0.00 0.02 0.43
20 0.00 0.02 0.43
100 0.00 0.02 0.43
∞ 0.01 0.02 0.43
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
3_L 69_A 1.91 0.79 0.05
35_D 70_S 1.46 0.49 0.01
6_E 21_Q 1.45 0.48 0.01
21_R 64_M 1.44 0.47 0.01
26_N 67_D 1.34 0.40 0.01
13_Q 70_S 1.29 0.36 0.01
14_E 64_M 1.28 0.36 0.01
20_A 95_N 1.27 0.35 0.01
9_K 68_M 1.21 0.32 0.01
15_G 76_I 1.21 0.31 0.01
22_F 3_F 1.18 0.29 0.01
23_I 68_M 1.17 0.29 0.01
1_R 73_V 1.15 0.28 0.01
10_A 3_F 1.13 0.27 0.01
3_L 74_S 1.11 0.25 0.01
20_A 96_L 1.08 0.23 0.01
7_R 10_R 1.07 0.23 0.00
5_A 42_L 1.05 0.22 0.00
19_V 66_T 1.04 0.22 0.00
1_R 94_I 1.04 0.21 0.00
16_M 95_N 1.03 0.21 0.00
24_E 39_A 1.02 0.21 0.00
15_G 48_R 1.02 0.21 0.00
1_R 44_D 1.01 0.20 0.00
14_E 57_G 1.01 0.20 0.00
28_S 3_F 1.01 0.20 0.00
10_A 72_P 0.98 0.19 0.00
3_L 79_E 0.98 0.19 0.00
29_F 78_E 0.98 0.18 0.00
11_E 49_E 0.97 0.18 0.00
23_I 90_I 0.96 0.18 0.00
29_F 3_F 0.96 0.18 0.00
32_E 54_V 0.95 0.17 0.00
4_R 92_N 0.95 0.17 0.00
7_R 80_V 0.95 0.17 0.00
33_N 95_N 0.94 0.17 0.00
3_L 92_N 0.94 0.17 0.00
20_A 8_Y 0.94 0.17 0.00
3_L 86_R 0.93 0.17 0.00
9_K 92_N 0.93 0.16 0.00
10_A 94_I 0.91 0.16 0.00
28_S 27_T 0.91 0.16 0.00
32_E 30_R 0.91 0.15 0.00
9_K 21_Q 0.88 0.15 0.00
6_E 80_V 0.88 0.14 0.00
1_R 15_R 0.88 0.14 0.00
26_N 4_K 0.87 0.14 0.00
18_E 3_F 0.87 0.14 0.00
21_R 42_L 0.87 0.14 0.00
16_M 71_V 0.87 0.14 0.00
10_A 10_R 0.87 0.14 0.00
6_E 50_L 0.87 0.14 0.00
19_V 38_S 0.87 0.14 0.00
32_E 31_R 0.86 0.14 0.00
16_M 99_W 0.86 0.14 0.00
29_F 43_S 0.86 0.14 0.00
10_A 88_N 0.85 0.14 0.00
6_E 62_R 0.85 0.14 0.00
19_V 96_L 0.85 0.14 0.00
17_A 88_N 0.83 0.13 0.00
15_G 29_G 0.83 0.13 0.00
16_M 96_L 0.83 0.13 0.00
2_R 26_D 0.83 0.13 0.00
16_M 28_P 0.82 0.13 0.00
15_G 75_V 0.82 0.13 0.00
15_G 27_T 0.81 0.12 0.00
32_E 24_I 0.81 0.12 0.00
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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