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OPENSEQ.org
FEOA_FEOC
Genes: A B A+B
Length: 75 773 838
Sequences: 129 1540 125
Seq/Len: 1.72 1.99 0.15
MirrorTree (Pazo et al. 2001) 0.90
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 0.00 0.15
2 0.00 0.00 0.15
5 0.00 0.00 0.15
10 0.00 0.00 0.15
20 0.00 0.00 0.15
100 0.00 0.01 0.15
∞ 0.00 0.03 0.15
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
23_R 584_V 1.93 0.48 0.00
28_S 728_I 1.59 0.31 0.00
37_F 451_G 1.52 0.28 0.00
45_L 112_G 1.48 0.26 0.00
11_I 316_A 1.48 0.26 0.00
58_L 361_Y 1.44 0.24 0.00
70_V 595_E 1.42 0.23 0.00
57_S 551_S 1.40 0.23 0.00
25_K 498_K 1.39 0.22 0.00
14_F 671_V 1.37 0.21 0.00
11_I 618_D 1.27 0.18 0.00
35_S 720_H 1.26 0.17 0.00
23_R 211_G 1.22 0.16 0.00
25_K 650_A 1.18 0.15 0.00
71_E 424_I 1.16 0.14 0.00
29_L 361_Y 1.15 0.14 0.00
59_V 239_D 1.15 0.14 0.00
14_F 238_D 1.14 0.14 0.00
23_R 60_T 1.14 0.14 0.00
9_W 589_N 1.14 0.14 0.00
23_R 71_S 1.14 0.14 0.00
23_R 210_E 1.14 0.14 0.00
7_T 671_V 1.13 0.14 0.00
71_E 208_M 1.12 0.13 0.00
14_F 45_F 1.12 0.13 0.00
3_Y 116_I 1.11 0.13 0.00
51_I 244_I 1.11 0.13 0.00
71_E 660_S 1.11 0.13 0.00
72_A 671_V 1.10 0.13 0.00
37_F 82_L 1.10 0.13 0.00
19_S 70_T 1.09 0.13 0.00
14_F 565_E 1.09 0.12 0.00
35_S 397_L 1.09 0.12 0.00
27_L 585_V 1.08 0.12 0.00
53_T 357_I 1.08 0.12 0.00
12_T 425_M 1.07 0.12 0.00
31_M 477_I 1.07 0.12 0.00
51_I 110_E 1.07 0.12 0.00
53_T 705_Y 1.07 0.12 0.00
23_R 405_V 1.07 0.12 0.00
31_M 271_T 1.07 0.12 0.00
62_K 454_A 1.06 0.12 0.00
23_R 234_R 1.06 0.12 0.00
59_V 316_A 1.06 0.12 0.00
28_S 540_D 1.06 0.12 0.00
9_W 644_G 1.06 0.12 0.00
37_F 6_I 1.05 0.12 0.00
3_Y 118_A 1.05 0.12 0.00
37_F 517_K 1.05 0.12 0.00
11_I 475_Y 1.04 0.12 0.00
65_L 326_G 1.04 0.11 0.00
51_I 163_I 1.04 0.11 0.00
15_S 7_G 1.03 0.11 0.00
49_I 443_A 1.03 0.11 0.00
24_Q 473_L 1.02 0.11 0.00
11_I 410_G 1.02 0.11 0.00
11_I 566_D 1.01 0.11 0.00
6_D 478_M 1.01 0.11 0.00
14_F 81_I 1.01 0.11 0.00
49_I 258_V 1.01 0.11 0.00
42_V 427_A 1.01 0.11 0.00
28_S 345_G 1.01 0.11 0.00
49_I 313_G 1.00 0.11 0.00
14_F 210_E 1.00 0.11 0.00
57_S 291_V 1.00 0.11 0.00
65_L 34_A 1.00 0.11 0.00
27_L 433_G 1.00 0.10 0.00
16_R 639_A 1.00 0.10 0.00
24_Q 213_I 1.00 0.10 0.00
19_S 579_M 1.00 0.10 0.00
65_L 308_P 0.99 0.10 0.00
23_R 333_D 0.99 0.10 0.00
37_F 718_S 0.99 0.10 0.00
42_V 89_L 0.98 0.10 0.00
67_L 472_M 0.98 0.10 0.00
18_I 478_M 0.98 0.10 0.00
12_T 731_V 0.97 0.10 0.00
56_V 361_Y 0.97 0.10 0.00
12_T 730_A 0.97 0.10 0.00
32_L 441_V 0.97 0.10 0.00
12_T 732_I 0.97 0.10 0.00
14_F 219_A 0.97 0.10 0.00
35_S 255_I 0.96 0.10 0.00
16_R 425_M 0.96 0.10 0.00
14_F 88_L 0.96 0.10 0.00
58_L 555_T 0.96 0.10 0.00
65_L 620_T 0.96 0.10 0.00
9_W 195_D 0.96 0.10 0.00
32_L 22_Q 0.96 0.10 0.00
17_E 478_M 0.96 0.10 0.00
57_S 7_G 0.95 0.10 0.00
45_L 240_P 0.95 0.10 0.00
11_I 612_E 0.95 0.10 0.00
35_S 277_I 0.94 0.09 0.00
10_K 184_E 0.94 0.09 0.00
28_S 110_E 0.94 0.09 0.00
24_Q 546_A 0.94 0.09 0.00
12_T 126_E 0.94 0.09 0.00
24_Q 64_T 0.94 0.09 0.00
22_Y 408_V 0.94 0.09 0.00
50_H 663_A 0.93 0.09 0.00
21_A 119_L 0.93 0.09 0.00
16_R 622_Q 0.93 0.09 0.00
45_L 75_Q 0.93 0.09 0.00
70_V 675_V 0.93 0.09 0.00
64_D 353_L 0.93 0.09 0.00
57_S 417_P 0.93 0.09 0.00
59_V 498_K 0.93 0.09 0.00
42_V 350_V 0.93 0.09 0.00
45_L 82_L 0.93 0.09 0.00
14_F 181_L 0.92 0.09 0.00
14_F 42_E 0.92 0.09 0.00
35_S 548_A 0.92 0.09 0.00
37_F 555_T 0.92 0.09 0.00
59_V 540_D 0.92 0.09 0.00
45_L 532_F 0.92 0.09 0.00
62_K 84_G 0.91 0.09 0.00
25_K 86_A 0.91 0.09 0.00
16_R 112_G 0.91 0.09 0.00
49_I 386_A 0.91 0.09 0.00
14_F 501_I 0.91 0.09 0.00
49_I 653_V 0.91 0.09 0.00
34_G 289_L 0.91 0.09 0.00
23_R 30_V 0.91 0.09 0.00
42_V 704_A 0.90 0.09 0.00
28_S 743_R 0.90 0.09 0.00
49_I 525_F 0.90 0.09 0.00
66_A 696_S 0.90 0.09 0.00
49_I 667_Y 0.90 0.09 0.00
24_Q 65_T 0.90 0.09 0.00
37_F 541_N 0.90 0.09 0.00
53_T 742_L 0.90 0.09 0.00
45_L 270_F 0.90 0.09 0.00
50_H 522_V 0.89 0.09 0.00
57_S 108_L 0.89 0.09 0.00
53_T 612_E 0.89 0.09 0.00
70_V 239_D 0.89 0.08 0.00
60_L 61_Y 0.89 0.08 0.00
60_L 100_R 0.89 0.08 0.00
19_S 345_G 0.89 0.08 0.00
50_H 387_L 0.89 0.08 0.00
15_S 472_M 0.89 0.08 0.00
16_R 27_R 0.89 0.08 0.00
51_I 96_S 0.89 0.08 0.00
13_G 664_A 0.89 0.08 0.00
23_R 27_R 0.89 0.08 0.00
42_V 386_A 0.88 0.08 0.00
64_D 569_Q 0.88 0.08 0.00
66_A 736_I 0.88 0.08 0.00
15_S 566_D 0.88 0.08 0.00
50_H 92_V 0.88 0.08 0.00
37_F 426_M 0.88 0.08 0.00
20_P 579_M 0.88 0.08 0.00
25_K 153_G 0.88 0.08 0.00
42_V 622_Q 0.88 0.08 0.00
66_A 682_G 0.87 0.08 0.00
8_A 421_L 0.87 0.08 0.00
26_L 289_L 0.87 0.08 0.00
9_W 686_R 0.87 0.08 0.00
22_Y 426_M 0.87 0.08 0.00
32_L 360_M 0.87 0.08 0.00
64_D 352_P 0.87 0.08 0.00
65_L 115_C 0.87 0.08 0.00
14_F 354_V 0.87 0.08 0.00
70_V 398_I 0.87 0.08 0.00
65_L 385_Q 0.87 0.08 0.00
22_Y 302_I 0.86 0.08 0.00
15_S 603_N 0.86 0.08 0.00
29_L 727_C 0.86 0.08 0.00
64_D 92_V 0.86 0.08 0.00
21_A 255_I 0.86 0.08 0.00
57_S 675_V 0.86 0.08 0.00
18_I 367_L 0.86 0.08 0.00
18_I 492_Y 0.86 0.08 0.00
29_L 182_L 0.86 0.08 0.00
51_I 716_S 0.86 0.08 0.00
21_A 484_P 0.85 0.08 0.00
39_V 134_I 0.85 0.08 0.00
14_F 611_E 0.85 0.08 0.00
25_K 196_I 0.85 0.08 0.00
7_T 467_V 0.85 0.08 0.00
24_Q 124_I 0.85 0.08 0.00
22_Y 103_Y 0.85 0.08 0.00
55_R 439_F 0.85 0.08 0.00
28_S 703_I 0.85 0.08 0.00
39_V 408_V 0.85 0.08 0.00
57_S 640_S 0.84 0.08 0.00
62_K 645_E 0.84 0.08 0.00
49_I 81_I 0.84 0.08 0.00
31_M 237_M 0.84 0.08 0.00
32_L 558_F 0.84 0.08 0.00
52_E 242_L 0.84 0.08 0.00
63_K 72_L 0.84 0.08 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
4463 2.11 FEOA_FEOC Δgene:(0, 5) A:(1E-04, 8) B:(1E-20, 8) msa: Jackhmmer (2015_06) 0.66 Done - Shared
4462 1.52 FEOA_FEOC Δgene:(1, 5) A:(1E-04, 8) B:(1E-20, 8) msa: Jackhmmer (2015_06) 0.03 Done - Shared
4461 0.15 FEOA_FEOC Δgene:(1, 5) A:(1E-20, 8) B:(1E-20, 8) msa: Jackhmmer (2015_06) 0.00 Done - Shared
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