May 4, 2021 - We are working on upgrading the webserver, some pages may not work.
OPENSEQ.org
EttA-vs-L20
Genes: A B A+B
Length: 555 118 643
Sequences: 8126 1984 1461
Seq/Len: 14.64 16.81 2.27
MirrorTree (Pazo et al. 2001) 0.18
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 0.10 0.00
2 0.01 0.10 0.00
5 0.01 0.10 0.03
10 0.01 0.10 0.07
20 0.02 0.10 0.14
100 0.06 0.10 0.54
∞ 0.17 0.10 2.17
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
29_F 24_Y 1.07 0.64 0.01
491_P 79_F 0.95 0.50 0.00
185_L 53_R 0.90 0.45 0.00
468_L 53_R 0.88 0.43 0.00
143_Q 91_D 0.86 0.40 0.00
338_L 42_A 0.84 0.38 0.00
482_A 14_H 0.84 0.38 0.00
215_I 88_V 0.83 0.36 0.00
22_L 90_I 0.82 0.36 0.00
380_I 18_L 0.81 0.35 0.00
507_I 47_Y 0.81 0.35 0.00
251_K 39_V 0.80 0.34 0.00
324_L 56_Q 0.80 0.34 0.00
481_R 100_V 0.80 0.34 0.00
390_S 77_S 0.79 0.33 0.00
503_F 42_A 0.78 0.32 0.00
261_Q 109_L 0.77 0.31 0.00
183_M 74_I 0.77 0.30 0.00
7_T 9_I 0.77 0.30 0.00
51_I 96_A 0.76 0.29 0.00
65_P 17_I 0.75 0.28 0.00
310_E 109_L 0.73 0.27 0.00
69_I 2_A 0.73 0.27 0.00
37_V 11_R 0.73 0.27 0.00
206_H 96_A 0.73 0.27 0.00
346_I 115_A 0.73 0.27 0.00
399_D 68_A 0.73 0.27 0.00
213_V 84_K 0.72 0.26 0.00
47_T 103_K 0.72 0.26 0.00
477_I 42_A 0.72 0.26 0.00
497_I 46_A 0.72 0.26 0.00
15_V 12_A 0.72 0.26 0.00
105_D 17_I 0.72 0.26 0.00
147_A 109_L 0.71 0.25 0.00
247_W 14_H 0.71 0.25 0.00
226_A 37_Q 0.70 0.24 0.00
215_I 33_R 0.69 0.23 0.00
209_E 110_V 0.69 0.23 0.00
11_V 98_I 0.68 0.23 0.00
225_V 80_I 0.68 0.23 0.00
55_I 17_I 0.68 0.22 0.00
494_A 8_V 0.67 0.22 0.00
11_V 112_K 0.67 0.22 0.00
28_S 88_V 0.67 0.22 0.00
171_V 51_R 0.67 0.22 0.00
389_A 110_V 0.67 0.21 0.00
233_D 10_A 0.67 0.21 0.00
377_S 74_I 0.66 0.21 0.00
38_L 89_E 0.66 0.21 0.00
83_E 68_A 0.66 0.21 0.00
184_L 88_V 0.66 0.21 0.00
263_A 105_A 0.66 0.21 0.00
213_V 109_L 0.65 0.20 0.00
58_D 33_R 0.65 0.20 0.00
467_L 73_G 0.65 0.20 0.00
17_P 2_A 0.65 0.20 0.00
498_S 57_F 0.65 0.20 0.00
58_D 51_R 0.65 0.20 0.00
18_K 53_R 0.65 0.20 0.00
22_L 94_I 0.64 0.20 0.00
442_V 33_R 0.64 0.20 0.00
10_R 24_Y 0.64 0.20 0.00
274_E 32_Y 0.64 0.20 0.00
168_R 101_F 0.64 0.20 0.00
497_I 111_E 0.64 0.20 0.00
229_I 19_K 0.64 0.19 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)
Page generated in 0.5483 seconds.