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OPENSEQ.org
ftszminc
Genes: A B A+B
Length: 50 226 257
Sequences: 814 737 443
Seq/Len: 16.28 3.26 1.72
MirrorTree (Pazo et al. 2001) 0.59
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 0.00 0.00 0.00
2 0.00 0.00 0.00
5 0.00 0.00 0.00
10 0.00 0.00 0.00
20 0.00 0.00 0.02
100 0.00 0.00 0.14
∞ 0.01 0.00 1.61
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
39_E 136_V 1.50 0.89 0.28
24_N 164_I 1.45 0.86 0.25
39_E 189_K 1.44 0.86 0.25
31_I 179_V 1.34 0.80 0.19
12_A 112_V 1.31 0.78 0.17
35_V 59_G 1.27 0.75 0.16
28_N 128_G 1.22 0.70 0.13
12_A 156_F 1.19 0.67 0.12
3_E 204_M 1.17 0.66 0.12
29_R 196_A 1.14 0.62 0.10
28_N 16_N 1.13 0.61 0.10
17_I 30_E 1.12 0.61 0.10
34_E 110_K 1.10 0.58 0.09
35_V 50_Q 1.10 0.58 0.09
12_A 177_N 1.07 0.55 0.08
39_E 85_S 1.06 0.55 0.08
17_I 206_I 1.06 0.54 0.08
24_N 125_L 1.05 0.53 0.08
24_N 171_P 1.03 0.51 0.07
48_Q 86_I 1.03 0.51 0.07
42_A 104_E 1.02 0.50 0.07
41_I 162_A 1.00 0.48 0.07
22_G 39_L 1.00 0.48 0.07
29_R 129_D 0.99 0.47 0.06
42_A 83_V 0.99 0.47 0.06
13_S 12_K 0.99 0.47 0.06
41_I 106_I 0.99 0.47 0.06
4_F 35_L 0.99 0.47 0.06
17_I 74_L 0.96 0.44 0.06
15_K 35_L 0.96 0.44 0.06
19_V 199_D 0.96 0.44 0.06
11_L 123_D 0.95 0.43 0.05
36_Q 162_A 0.95 0.43 0.05
42_A 57_K 0.94 0.42 0.05
17_I 103_A 0.93 0.41 0.05
27_V 96_A 0.93 0.40 0.05
4_F 118_L 0.92 0.40 0.05
39_E 64_Y 0.92 0.39 0.05
39_E 35_L 0.91 0.39 0.05
41_I 109_S 0.91 0.38 0.04
35_V 161_Q 0.90 0.37 0.04
41_I 187_I 0.90 0.37 0.04
12_A 153_H 0.89 0.37 0.04
38_V 134_G 0.89 0.37 0.04
35_V 45_T 0.89 0.36 0.04
43_V 123_D 0.89 0.36 0.04
3_E 206_I 0.89 0.36 0.04
31_I 194_E 0.89 0.36 0.04
22_G 50_Q 0.88 0.35 0.04
14_I 140_G 0.88 0.35 0.04
41_I 116_Q 0.88 0.35 0.04
12_A 132_P 0.88 0.35 0.04
47_A 54_V 0.88 0.35 0.04
22_G 71_L 0.87 0.35 0.04
43_V 184_P 0.87 0.34 0.04
41_I 124_L 0.87 0.34 0.04
13_S 124_L 0.86 0.34 0.04
28_N 127_I 0.86 0.34 0.04
43_V 195_C 0.86 0.34 0.04
29_R 180_L 0.86 0.33 0.04
4_F 122_G 0.85 0.33 0.04
24_N 98_Q 0.85 0.33 0.04
15_K 67_Q 0.85 0.32 0.04
27_V 65_K 0.84 0.32 0.03
22_G 18_L 0.84 0.32 0.03
12_A 110_K 0.84 0.31 0.03
33_N 182_R 0.84 0.31 0.03
43_V 129_D 0.83 0.31 0.03
2_L 7_Q 0.83 0.31 0.03
34_E 117_V 0.81 0.29 0.03
36_Q 13_G 0.81 0.29 0.03
47_A 148_L 0.81 0.29 0.03
24_N 205_V 0.81 0.28 0.03
12_A 50_Q 0.80 0.28 0.03
27_V 121_K 0.80 0.28 0.03
39_E 94_K 0.80 0.28 0.03
17_I 192_E 0.80 0.28 0.03
37_G 152_A 0.79 0.27 0.03
47_A 152_A 0.78 0.27 0.03
17_I 37_N 0.78 0.26 0.03
33_N 34_G 0.78 0.26 0.03
28_N 156_F 0.78 0.26 0.03
47_A 107_S 0.78 0.26 0.03
29_R 151_I 0.78 0.26 0.03
39_E 95_E 0.78 0.26 0.03
17_I 19_T 0.78 0.26 0.03
12_A 79_K 0.77 0.26 0.03
7_N 6_Q 0.77 0.26 0.03
32_E 60_N 0.77 0.26 0.03
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
0534 0.02 ft2 Δgene:(0, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2013_03) Killed - Shared
0532 1.72 ftszminc Δgene:(1, ∞) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2013_03) 0.28 Done
0530 0.02 ftszminc Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2013_03) Killed - Shared
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