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OPENSEQ.org
cI_2_20_cI_9_20_tt
Genes: A B A+B
Length: 181 182 333
Sequences: 2565 979 830
Seq/Len: 14.17 5.38 2.49
MirrorTree (Pazo et al. 2001) 0.69
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 0.01 0.01
2 0.00 0.01 0.02
5 0.01 0.01 1.77
10 0.01 0.02 1.93
20 0.02 0.02 1.97
100 0.04 0.03 2.04
∞ 0.10 0.07 2.29
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
150_L 17_L 1.30 0.86 0.17
9_D 19_S 0.96 0.54 0.06
96_L 2_T 0.94 0.52 0.06
81_Q 112_A 0.89 0.46 0.05
59_E 115_L 0.89 0.46 0.05
79_H 70_V 0.88 0.44 0.04
24_R 153_T 0.86 0.43 0.04
59_E 60_A 0.86 0.43 0.04
104_L 9_S 0.84 0.40 0.04
130_T 100_F 0.83 0.39 0.04
122_V 112_A 0.83 0.39 0.04
11_L 10_L 0.83 0.39 0.04
93_A 73_A 0.82 0.38 0.04
135_Q 112_A 0.79 0.34 0.03
121_K 94_N 0.78 0.34 0.03
26_A 58_L 0.78 0.33 0.03
42_R 125_E 0.78 0.33 0.03
102_E 18_F 0.77 0.33 0.03
156_G 8_Q 0.77 0.32 0.03
135_Q 107_A 0.76 0.32 0.03
156_G 152_R 0.76 0.31 0.03
101_T 30_P 0.76 0.31 0.03
108_P 25_P 0.75 0.30 0.03
153_L 35_P 0.74 0.30 0.03
41_I 32_A 0.74 0.29 0.03
7_K 10_L 0.74 0.29 0.03
41_I 152_R 0.73 0.29 0.03
79_H 100_F 0.73 0.29 0.02
25_A 67_A 0.73 0.28 0.02
119_V 13_T 0.71 0.27 0.02
64_A 93_I 0.71 0.27 0.02
77_K 12_I 0.71 0.27 0.02
137_N 129_L 0.71 0.27 0.02
21_E 134_E 0.71 0.27 0.02
85_T 95_M 0.70 0.26 0.02
130_T 115_L 0.70 0.26 0.02
105_G 62_A 0.70 0.26 0.02
72_F 48_N 0.70 0.26 0.02
104_L 13_T 0.70 0.26 0.02
63_V 11_G 0.70 0.26 0.02
85_T 12_I 0.70 0.25 0.02
82_V 11_G 0.70 0.25 0.02
26_A 84_G 0.69 0.25 0.02
94_E 113_I 0.69 0.25 0.02
154_L 29_A 0.69 0.25 0.02
62_G 75_N 0.69 0.25 0.02
134_I 24_V 0.69 0.25 0.02
154_L 131_Y 0.69 0.25 0.02
57_P 12_I 0.69 0.24 0.02
82_V 7_A 0.68 0.24 0.02
68_S 125_E 0.68 0.24 0.02
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
4944 2.24 cI_2_40_cI_9_40_tt Δgene:(1, ∞) A:(1E-40, 8) B:(1E-40, 8) msa: Jackhmmer (2015_06) 0.07 Done - Shared
4943 2.36 cI_2_10_cI_9_10_tt Δgene:(1, ∞) A:(1E-10, 8) B:(1E-10, 8) msa: Jackhmmer (2015_06) 0.10 Done - Shared
4938 2.49 cI_2_20_cI_9_20_tt Δgene:(1, ∞) A:(1E-20, 8) B:(1E-20, 8) msa: Jackhmmer (2015_06) 0.17 Done - Shared
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