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OPENSEQ.org
cI_1_20_cI_9_20_tt
Genes: A B A+B
Length: 438 182 584
Sequences: 2608 979 707
Seq/Len: 5.95 5.38 1.21
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 0.01 0.01 0.01
2 0.01 0.01 0.04
5 0.01 0.01 0.92
10 0.02 0.02 0.95
20 0.03 0.02 0.96
100 0.05 0.03 1.01
∞ 0.14 0.07 1.14
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
231_M 100_F 1.07 0.45 0.00
373_K 136_M 1.02 0.41 0.00
77_S 131_Y 1.02 0.40 0.00
253_Q 91_Y 0.99 0.38 0.00
77_S 18_F 0.97 0.35 0.00
399_F 110_T 0.95 0.34 0.00
154_A 76_D 0.93 0.32 0.00
349_A 37_F 0.93 0.32 0.00
50_P 25_P 0.91 0.31 0.00
415_R 19_S 0.91 0.30 0.00
250_K 105_E 0.87 0.27 0.00
134_V 73_A 0.87 0.27 0.00
343_N 46_H 0.86 0.27 0.00
253_Q 67_A 0.84 0.25 0.00
412_G 43_L 0.84 0.25 0.00
238_F 47_P 0.84 0.25 0.00
325_T 117_Y 0.84 0.25 0.00
399_F 70_V 0.82 0.24 0.00
157_Y 54_I 0.82 0.24 0.00
268_M 2_T 0.81 0.23 0.00
393_L 12_I 0.81 0.23 0.00
132_I 131_Y 0.81 0.23 0.00
279_W 20_K 0.81 0.23 0.00
160_K 14_L 0.81 0.23 0.00
96_S 149_E 0.80 0.22 0.00
355_K 70_V 0.79 0.22 0.00
249_M 112_A 0.79 0.21 0.00
421_Y 113_I 0.79 0.21 0.00
218_I 15_K 0.79 0.21 0.00
192_L 2_T 0.78 0.21 0.00
382_K 124_Y 0.77 0.20 0.00
45_L 6_L 0.77 0.20 0.00
106_I 94_N 0.76 0.20 0.00
197_A 91_Y 0.76 0.20 0.00
166_D 128_D 0.76 0.20 0.00
376_T 11_G 0.75 0.19 0.00
71_P 47_P 0.75 0.19 0.00
209_S 70_V 0.75 0.19 0.00
240_Q 33_L 0.74 0.18 0.00
270_T 2_T 0.74 0.18 0.00
135_R 135_D 0.74 0.18 0.00
113_L 115_L 0.73 0.18 0.00
367_M 91_Y 0.73 0.18 0.00
39_E 134_E 0.72 0.17 0.00
237_W 36_R 0.71 0.17 0.00
55_E 25_P 0.71 0.17 0.00
250_K 34_K 0.71 0.17 0.00
280_A 62_A 0.71 0.17 0.00
316_L 83_A 0.71 0.17 0.00
225_A 115_L 0.71 0.17 0.00
274_E 124_Y 0.71 0.17 0.00
225_A 124_Y 0.70 0.16 0.00
370_L 74_E 0.70 0.16 0.00
91_C 10_L 0.69 0.16 0.00
73_G 39_G 0.69 0.16 0.00
235_A 132_G 0.69 0.16 0.00
378_Q 19_S 0.69 0.16 0.00
252_Y 30_P 0.69 0.16 0.00
121_A 10_L 0.69 0.16 0.00
290_I 70_V 0.69 0.16 0.00
195_L 113_I 0.69 0.16 0.00
121_A 100_F 0.69 0.15 0.00
367_M 72_P 0.68 0.15 0.00
374_I 132_G 0.68 0.15 0.00
89_L 107_A 0.68 0.15 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
4925 0.86 cI_1_4_cI_9_4_tt Δgene:(1, ∞) A:(1E-04, 8) B:(1E-04, 8) msa: Jackhmmer (2015_06) 0.00 Done - Shared
4924 1.21 cI_1_20_cI_9_20_tt Δgene:(1, ∞) A:(1E-20, 8) B:(1E-20, 8) msa: Jackhmmer (2015_06) 0.00 Done - Shared
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