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OPENSEQ.org
SpcS - ExoT (B, 110-457) (B, 150-290)
Genes: A B A+B
Length: 88 141 223
Sequences: 1540 881 91
Seq/Len: 17.5 6.25 0.41
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 0.07 0.00
2 0.01 0.08 0.00
5 0.01 0.09 0.00
10 0.01 0.09 0.00
20 0.01 0.09 0.01
100 0.01 0.10 0.06
∞ 0.07 0.13 0.40
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
34_L 124_D 1.54 0.53 0.00
46_E 129_L 1.37 0.41 0.00
35_V 74_A 1.17 0.28 0.00
68_W 64_R 1.15 0.27 0.00
20_L 131_D 1.14 0.26 0.00
47_Q 78_G 1.12 0.25 0.00
56_V 83_D 1.12 0.25 0.00
49_L 88_S 1.11 0.25 0.00
25_V 72_F 1.04 0.21 0.00
40_A 127_E 1.04 0.21 0.00
47_Q 64_R 1.00 0.19 0.00
58_V 132_K 1.00 0.19 0.00
76_F 44_R 0.98 0.18 0.00
6_I 74_A 0.98 0.18 0.00
30_L 25_L 0.97 0.18 0.00
49_L 26_N 0.96 0.17 0.00
49_L 89_T 0.95 0.17 0.00
80_T 113_G 0.93 0.16 0.00
26_L 53_S 0.93 0.16 0.00
62_L 14_L 0.90 0.15 0.00
64_A 27_R 0.89 0.14 0.00
34_L 32_G 0.88 0.14 0.00
48_T 88_S 0.88 0.14 0.00
16_L 124_D 0.88 0.14 0.00
68_W 88_S 0.87 0.14 0.00
51_F 63_F 0.87 0.14 0.00
82_L 114_I 0.86 0.13 0.00
36_S 62_T 0.85 0.13 0.00
34_L 135_D 0.85 0.13 0.00
35_V 7_S 0.85 0.13 0.00
73_L 97_R 0.85 0.13 0.00
16_L 108_L 0.85 0.13 0.00
84_V 30_R 0.84 0.13 0.00
69_L 59_V 0.83 0.13 0.00
14_L 43_D 0.83 0.12 0.00
55_L 125_E 0.81 0.12 0.00
22_L 49_A 0.81 0.12 0.00
63_F 99_F 0.81 0.12 0.00
82_L 25_L 0.81 0.12 0.00
49_L 17_Y 0.80 0.12 0.00
36_S 22_Y 0.80 0.12 0.00
17_V 53_S 0.80 0.12 0.00
42_T 129_L 0.80 0.11 0.00
73_L 111_R 0.79 0.11 0.00
7_L 46_M 0.79 0.11 0.00
19_V 116_V 0.79 0.11 0.00
51_F 88_S 0.79 0.11 0.00
33_T 116_V 0.79 0.11 0.00
60_V 40_A 0.78 0.11 0.00
11_N 138_V 0.78 0.11 0.00
60_V 58_Q 0.78 0.11 0.00
25_V 59_V 0.77 0.11 0.00
45_Q 115_D 0.77 0.11 0.00
35_V 68_G 0.77 0.11 0.00
76_F 78_G 0.77 0.11 0.00
60_V 135_D 0.77 0.11 0.00
44_I 89_T 0.77 0.11 0.00
62_L 117_S 0.77 0.10 0.00
59_V 68_G 0.77 0.10 0.00
62_L 115_D 0.76 0.10 0.00
21_S 136_M 0.76 0.10 0.00
56_V 78_G 0.76 0.10 0.00
64_A 75_V 0.76 0.10 0.00
2_S 27_R 0.76 0.10 0.00
56_V 98_S 0.76 0.10 0.00
84_V 70_D 0.75 0.10 0.00
20_L 65_G 0.75 0.10 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)
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