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OPENSEQ.org
MORNDT2
Genes: A B A+B
Length: 74 89 145
Sequences: 225 4130 96
Seq/Len: 3.04 46.4 0.66
MirrorTree (Pazo et al. 2001) 0.66
Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.

[Show HHblits results] - Maybe useful in deciding what regions to trim.
Δgene Ratio of paralogs Joined
A B Seq/Len
1 0.04 0.02 0.53
2 0.04 0.03 0.54
5 0.04 0.04 0.56
10 0.05 0.05 0.57
20 0.05 0.07 0.59
100 0.06 0.10 0.60
∞ 0.08 0.16 0.77
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
43_W 23_I 1.67 0.76 0.02
55_L 65_L 1.47 0.62 0.01
39_G 13_M 1.38 0.55 0.01
52_I 17_N 1.27 0.46 0.01
29_S 39_S 1.19 0.39 0.01
28_L 26_K 1.17 0.38 0.01
65_Y 71_W 1.16 0.37 0.00
14_E 8_R 1.16 0.37 0.00
48_I 55_Q 1.15 0.37 0.00
19_Q 46_Y 1.12 0.34 0.00
56_D 76_D 1.11 0.33 0.00
65_Y 67_V 1.10 0.33 0.00
68_K 27_S 1.07 0.31 0.00
34_S 65_L 1.07 0.31 0.00
26_M 16_R 1.05 0.29 0.00
18_T 64_T 1.04 0.28 0.00
58_P 4_K 1.03 0.28 0.00
13_V 63_K 1.02 0.27 0.00
25_A 23_I 1.01 0.27 0.00
53_Q 41_S 1.01 0.26 0.00
67_F 10_K 1.00 0.26 0.00
32_S 56_D 1.00 0.26 0.00
16_Y 17_N 0.99 0.25 0.00
26_M 62_S 0.99 0.25 0.00
43_W 10_K 0.98 0.24 0.00
32_S 46_Y 0.97 0.24 0.00
9_S 51_Q 0.97 0.24 0.00
62_I 75_Y 0.97 0.24 0.00
68_K 65_L 0.97 0.24 0.00
48_I 76_D 0.97 0.24 0.00
34_S 25_N 0.96 0.24 0.00
23_A 70_A 0.96 0.23 0.00
7_R 8_R 0.95 0.23 0.00
36_K 24_I 0.95 0.23 0.00
9_S 38_L 0.95 0.23 0.00
1_M 22_D 0.95 0.23 0.00
70_K 40_K 0.94 0.22 0.00
13_V 15_I 0.94 0.22 0.00
65_Y 69_E 0.93 0.22 0.00
52_I 12_I 0.93 0.22 0.00
4_D 10_K 0.93 0.21 0.00
45_D 58_I 0.92 0.21 0.00
72_H 45_Q 0.91 0.21 0.00
62_I 56_D 0.91 0.21 0.00
62_I 46_Y 0.91 0.20 0.00
32_S 27_S 0.90 0.20 0.00
3_Y 13_M 0.89 0.20 0.00
66_F 37_S 0.89 0.20 0.00
51_A 5_V 0.88 0.19 0.00
4_D 78_D 0.88 0.19 0.00
22_F 76_D 0.87 0.18 0.00
27_K 49_D 0.86 0.18 0.00
56_D 17_N 0.85 0.18 0.00
53_Q 23_I 0.85 0.18 0.00
23_A 71_W 0.85 0.18 0.00
28_L 23_I 0.85 0.18 0.00
39_G 23_I 0.84 0.17 0.00
26_M 39_S 0.84 0.17 0.00
24_I 10_K 0.84 0.17 0.00
32_S 68_G 0.84 0.17 0.00
8_L 8_R 0.83 0.17 0.00
45_D 79_S 0.83 0.17 0.00
34_S 38_L 0.83 0.16 0.00
68_K 25_N 0.82 0.16 0.00
29_S 5_V 0.82 0.16 0.00
51_A 47_I 0.82 0.16 0.00
18_T 52_S 0.82 0.16 0.00
26_M 73_M 0.82 0.16 0.00
13_V 18_L 0.82 0.16 0.00
65_Y 3_E 0.81 0.15 0.00
16_Y 24_I 0.80 0.15 0.00
1_M 19_K 0.80 0.15 0.00
39_G 56_D 0.80 0.15 0.00
51_A 13_M 0.80 0.15 0.00
71_V 56_D 0.80 0.15 0.00
11_K 72_L 0.80 0.15 0.00
37_L 61_L 0.80 0.15 0.00
72_H 55_Q 0.79 0.15 0.00
47_E 74_G 0.79 0.15 0.00
24_I 82_V 0.78 0.14 0.00
14_E 58_I 0.78 0.14 0.00
12_I 67_V 0.78 0.14 0.00
64_L 15_I 0.77 0.14 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
9344 0.58 MORNDT2 Δgene:(1, 20) A:(1E-10, 8) B:(1E-10, 8) msa: HHblits (2015_06) 0.01 Done - Shared
9341 0.66 MORNDT2 Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) 0.02 Done - Shared
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