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OPENSEQ.org
10vs49-10
Genes: A B A+B
Length: 86 424 467
Sequences: 195 1141 74
Seq/Len: 2.27 2.69 0.16
MirrorTree (Pazo et al. 2001) 0.35
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 0.04 0.01
2 0.01 0.04 0.01
5 0.01 0.04 0.01
10 0.01 0.04 0.01
20 0.01 0.05 0.01
100 0.01 0.05 0.05
∞ 0.01 0.07 0.15
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
84_E 214_A 1.77 0.41 0.00
51_N 304_P 1.33 0.21 0.00
59_E 81_G 1.17 0.15 0.00
54_A 47_D 1.17 0.15 0.00
39_S 43_H 1.08 0.13 0.00
40_Y 37_G 1.06 0.12 0.00
55_I 317_H 1.02 0.11 0.00
44_M 289_G 1.02 0.11 0.00
39_S 108_D 0.99 0.11 0.00
41_C 89_A 0.98 0.10 0.00
75_P 17_V 0.97 0.10 0.00
28_K 164_G 0.97 0.10 0.00
79_P 113_E 0.96 0.10 0.00
82_K 163_N 0.95 0.10 0.00
64_V 265_P 0.95 0.10 0.00
84_E 306_M 0.95 0.10 0.00
8_H 71_I 0.94 0.10 0.00
41_C 303_H 0.93 0.09 0.00
40_Y 39_V 0.92 0.09 0.00
78_P 43_H 0.92 0.09 0.00
82_K 164_G 0.91 0.09 0.00
17_K 84_I 0.91 0.09 0.00
70_E 38_P 0.91 0.09 0.00
51_N 117_Y 0.90 0.09 0.00
40_Y 180_K 0.90 0.09 0.00
28_K 46_K 0.89 0.09 0.00
72_M 158_A 0.89 0.09 0.00
34_N 70_A 0.89 0.09 0.00
79_P 147_I 0.88 0.09 0.00
54_A 230_S 0.88 0.09 0.00
54_A 265_P 0.88 0.09 0.00
41_C 273_H 0.88 0.09 0.00
9_S 26_E 0.87 0.08 0.00
39_S 143_G 0.87 0.08 0.00
16_S 141_S 0.86 0.08 0.00
19_I 111_I 0.86 0.08 0.00
56_A 17_V 0.86 0.08 0.00
44_M 226_S 0.86 0.08 0.00
57_E 130_P 0.86 0.08 0.00
47_F 165_Q 0.85 0.08 0.00
84_E 323_H 0.85 0.08 0.00
40_Y 155_S 0.85 0.08 0.00
30_E 37_G 0.84 0.08 0.00
8_H 294_H 0.84 0.08 0.00
18_Y 17_V 0.84 0.08 0.00
27_T 353_P 0.83 0.08 0.00
35_Q 33_F 0.83 0.08 0.00
71_K 66_D 0.83 0.08 0.00
40_Y 151_S 0.83 0.08 0.00
17_K 165_Q 0.83 0.08 0.00
5_Y 48_R 0.82 0.08 0.00
75_P 20_L 0.82 0.08 0.00
33_V 157_A 0.82 0.08 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
3911 0.16 10vs49-10 Δgene:(1, ∞) A:(1E-10, 8) B:(1E-10, 8) msa: Jackhmmer (2015_06) 0.00 Done
3909 0.15 10vs49_-04 Δgene:(1, ∞) A:(1E-04, 8) B:(1E-04, 8) msa: Jackhmmer (2015_06) 0.00 Done
3908 0.14 10vs49_-02 Δgene:(1, ∞) A:(1E-02, 8) B:(1E-02, 8) msa: Jackhmmer (2015_06) 0.00 Done - Shared
3883 0.16 10vs49 Δgene:(1, ∞) A:(1E-20, 8) B:(1E-20, 8) msa: Jackhmmer (2015_06) 0.00 Done
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