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OPENSEQ.org
iscaiscu
Genes: A B A+B
Length: 107 128 233
Sequences: 2597 1994 267
Seq/Len: 24.27 15.58 1.15
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 0.99
2 0.00 0.00 1.09
5 0.00 0.00 1.14
10 0.00 0.00 1.16
20 0.01 0.00 1.29
100 0.02 0.00 1.74
∞ 0.10 0.03 3.34
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
24_F 118_I 1.76 0.92 0.44
44_F 8_I 1.21 0.57 0.11
13_V 42_K 1.19 0.55 0.10
77_L 73_V 1.17 0.53 0.10
38_M 13_N 1.16 0.52 0.09
62_V 122_K 1.12 0.48 0.08
12_R 122_K 1.10 0.47 0.07
43_E 78_K 1.08 0.44 0.07
14_N 88_I 1.06 0.43 0.06
89_K 46_K 1.06 0.42 0.06
3_I 9_D 1.05 0.42 0.06
43_E 94_A 1.05 0.41 0.06
7_D 82_L 1.04 0.41 0.06
19_N 123_S 1.03 0.40 0.06
46_D 44_Q 1.02 0.39 0.06
28_L 15_R 1.02 0.39 0.06
7_D 49_D 1.02 0.39 0.06
8_S 119_A 1.02 0.39 0.05
29_G 89_K 0.99 0.37 0.05
56_E 20_F 0.99 0.37 0.05
36_S 82_L 0.99 0.36 0.05
53_I 122_K 0.99 0.36 0.05
83_G 61_Y 0.99 0.36 0.05
23_G 61_Y 0.97 0.34 0.04
88_F 74_T 0.95 0.33 0.04
18_A 8_I 0.94 0.32 0.04
33_S 98_E 0.94 0.32 0.04
22_K 80_K 0.93 0.32 0.04
10_A 9_D 0.93 0.31 0.04
26_L 45_I 0.93 0.31 0.04
103_E 86_Q 0.93 0.31 0.04
19_N 122_K 0.92 0.30 0.04
62_V 95_E 0.91 0.30 0.04
100_G 35_P 0.91 0.30 0.04
55_F 84_E 0.91 0.29 0.04
100_G 96_E 0.91 0.29 0.04
26_L 28_G 0.90 0.29 0.03
62_V 20_F 0.90 0.29 0.03
62_V 118_I 0.90 0.28 0.03
39_A 88_I 0.90 0.28 0.03
41_V 51_G 0.89 0.28 0.03
42_L 73_V 0.89 0.28 0.03
27_R 14_P 0.88 0.28 0.03
4_T 121_Y 0.87 0.27 0.03
10_A 73_V 0.87 0.27 0.03
47_E 57_R 0.87 0.27 0.03
51_E 82_L 0.87 0.26 0.03
3_I 26_N 0.87 0.26 0.03
30_V 48_N 0.87 0.26 0.03
8_S 92_D 0.86 0.26 0.03
22_K 61_Y 0.86 0.26 0.03
88_F 113_A 0.85 0.25 0.03
103_E 104_I 0.85 0.25 0.03
106_H 20_F 0.85 0.25 0.03
30_V 118_I 0.84 0.24 0.03
83_G 31_M 0.84 0.24 0.03
37_G 58_F 0.84 0.24 0.03
86_E 77_V 0.84 0.24 0.03
100_G 111_E 0.84 0.24 0.03
28_L 95_E 0.84 0.24 0.03
81_K 82_L 0.83 0.24 0.03
42_L 42_K 0.83 0.23 0.02
73_D 77_V 0.82 0.23 0.02
28_L 123_S 0.81 0.22 0.02
17_L 20_F 0.81 0.22 0.02
63_V 92_D 0.81 0.22 0.02
12_R 115_K 0.80 0.22 0.02
67_K 44_Q 0.80 0.22 0.02
8_S 88_I 0.80 0.21 0.02
49_T 46_K 0.80 0.21 0.02
45_V 7_V 0.79 0.21 0.02
77_L 108_I 0.79 0.21 0.02
66_G 28_G 0.79 0.21 0.02
31_R 86_Q 0.79 0.21 0.02
13_V 78_K 0.78 0.20 0.02
25_G 82_L 0.78 0.20 0.02
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
1472 1.15 iscaiscu Δgene:(0, 5) A:(1E-06, 8) B:(1E-06, 8) msa: Jackhmmer (2014_03) 0.44 Done - Shared
1471 1 iscaiscu Δgene:(0, 1) A:(1E-06, 8) B:(1E-06, 8) msa: Jackhmmer (2014_03) 0.01 Done - Shared
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