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OPENSEQ.org
10vs49_-02
Genes: A B A+B
Length: 86 424 470
Sequences: 198 1033 64
Seq/Len: 2.3 2.44 0.14
MirrorTree (Pazo et al. 2001) 0.37
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 0.06 0.04
∞ 0.01 0.08 0.13
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 292_H 1.38 0.21 0.00
6_T 26_E 1.38 0.20 0.00
84_E 332_Q 1.36 0.20 0.00
49_L 27_P 1.21 0.15 0.00
7_I 26_E 1.18 0.14 0.00
76_C 211_F 1.14 0.13 0.00
16_S 74_M 1.14 0.13 0.00
2_T 71_I 1.12 0.13 0.00
50_L 33_F 1.11 0.12 0.00
41_C 258_P 1.10 0.12 0.00
51_N 60_E 1.06 0.12 0.00
8_H 71_I 1.05 0.11 0.00
55_I 209_Q 1.05 0.11 0.00
39_S 143_G 1.05 0.11 0.00
55_I 208_H 1.04 0.11 0.00
47_F 142_K 1.03 0.11 0.00
61_K 25_S 1.02 0.11 0.00
28_K 164_G 1.02 0.11 0.00
81_D 244_P 1.02 0.10 0.00
19_I 111_I 1.01 0.10 0.00
84_E 261_M 1.01 0.10 0.00
11_L 105_G 0.99 0.10 0.00
11_L 47_D 0.99 0.10 0.00
71_K 66_D 0.98 0.10 0.00
51_N 87_N 0.98 0.10 0.00
84_E 149_F 0.97 0.10 0.00
11_L 58_F 0.95 0.09 0.00
44_M 312_A 0.95 0.09 0.00
54_A 58_F 0.94 0.09 0.00
51_N 242_S 0.94 0.09 0.00
51_N 217_P 0.93 0.09 0.00
50_L 155_S 0.93 0.09 0.00
72_M 120_F 0.93 0.09 0.00
63_R 71_I 0.92 0.09 0.00
21_T 124_G 0.91 0.09 0.00
41_C 27_P 0.91 0.09 0.00
33_V 108_D 0.91 0.09 0.00
37_R 158_A 0.91 0.09 0.00
62_A 74_M 0.91 0.08 0.00
55_I 338_P 0.90 0.08 0.00
48_D 299_G 0.88 0.08 0.00
22_G 147_I 0.88 0.08 0.00
11_L 174_V 0.88 0.08 0.00
84_E 199_N 0.87 0.08 0.00
47_F 165_Q 0.87 0.08 0.00
29_W 144_Y 0.87 0.08 0.00
78_P 20_L 0.87 0.08 0.00
84_E 172_I 0.87 0.08 0.00
27_T 102_I 0.86 0.08 0.00
43_Y 70_A 0.86 0.08 0.00
41_C 294_H 0.86 0.08 0.00
82_K 262_P 0.86 0.08 0.00
54_A 246_P 0.86 0.08 0.00
44_M 249_P 0.85 0.07 0.00
64_V 157_A 0.84 0.07 0.00
40_Y 141_S 0.84 0.07 0.00
45_G 124_G 0.84 0.07 0.00
68_L 87_N 0.83 0.07 0.00
15_Q 52_Q 0.83 0.07 0.00
49_L 300_G 0.83 0.07 0.00
55_I 343_H 0.83 0.07 0.00
8_H 19_G 0.83 0.07 0.00
3_D 48_R 0.83 0.07 0.00
43_Y 143_G 0.83 0.07 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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