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OPENSEQ.org
EttA-vs-S7
Genes: A B A+B
Length: 555 179 681
Sequences: 8126 1677 1320
Seq/Len: 14.64 9.37 1.94
MirrorTree (Pazo et al. 2001) 0.19
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 0.01 0.11 0.00
2 0.01 0.11 0.01
5 0.01 0.11 0.01
10 0.01 0.11 0.03
20 0.02 0.11 0.06
100 0.06 0.11 0.35
∞ 0.17 0.11 1.80
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
465_M 138_R 0.96 0.47 0.00
12_G 146_E 0.91 0.41 0.00
25_I 18_F 0.88 0.38 0.00
205_L 30_L 0.88 0.38 0.00
77_E 138_R 0.88 0.38 0.00
225_V 98_A 0.88 0.38 0.00
355_I 58_E 0.87 0.37 0.00
520_V 76_K 0.85 0.35 0.00
339_I 48_E 0.84 0.34 0.00
12_G 12_I 0.83 0.33 0.00
251_K 134_A 0.80 0.30 0.00
29_F 125_S 0.80 0.30 0.00
213_V 140_D 0.79 0.30 0.00
29_F 152_A 0.77 0.28 0.00
49_L 22_L 0.76 0.27 0.00
466_L 104_I 0.76 0.27 0.00
70_K 108_A 0.76 0.27 0.00
111_Y 100_A 0.76 0.27 0.00
467_L 141_V 0.76 0.27 0.00
50_R 124_L 0.75 0.26 0.00
85_T 107_A 0.75 0.26 0.00
24_N 30_L 0.75 0.26 0.00
133_Q 33_D 0.74 0.25 0.00
345_S 7_I 0.74 0.25 0.00
26_S 38_T 0.74 0.25 0.00
52_M 8_G 0.73 0.25 0.00
413_D 143_R 0.73 0.24 0.00
354_I 42_I 0.73 0.24 0.00
69_I 133_T 0.73 0.24 0.00
21_I 27_V 0.73 0.24 0.00
43_A 130_N 0.72 0.24 0.00
435_G 149_K 0.72 0.24 0.00
325_E 143_R 0.72 0.24 0.00
65_P 69_V 0.71 0.23 0.00
154_P 89_V 0.71 0.23 0.00
350_A 140_D 0.71 0.23 0.00
371_G 38_T 0.71 0.23 0.00
346_I 140_D 0.71 0.23 0.00
324_L 70_R 0.71 0.22 0.00
50_R 143_R 0.70 0.22 0.00
252_D 17_K 0.70 0.22 0.00
34_K 154_Y 0.69 0.21 0.00
155_D 66_L 0.69 0.21 0.00
22_L 52_Q 0.69 0.21 0.00
36_G 96_R 0.69 0.21 0.00
59_I 149_K 0.69 0.21 0.00
244_Y 121_A 0.69 0.21 0.00
11_V 32_V 0.68 0.21 0.00
228_W 76_K 0.68 0.20 0.00
350_A 115_S 0.67 0.20 0.00
340_D 108_A 0.67 0.20 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
5455 1.94 EttA-vs-S7 Δgene:(1, ∞) A:(1E-80, 8) B:(1E-06, 8) msa: HHblits (2015_06) 0.00 Done - Shared
5454 2.33 EttA-vs-S7 Δgene:(1, ∞) A:(1E-40, 8) B:(1E-20, 8) msa: HHblits (2015_06) 0.00 Done - Shared
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