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OPENSEQ.org
DI2200002
Genes: A B A+B
Length: 30 111 136
Sequences: 301 6497 246
Seq/Len: 10.03 58.53 1.81
MirrorTree (Pazo et al. 2001) 0.27
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 1.67
2 0.00 0.00 1.67
5 0.00 0.00 1.68
10 0.00 0.00 1.68
20 0.00 0.01 1.68
100 0.00 0.05 1.70
∞ 0.00 0.06 1.74
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
21_W 79_K 2.26 1.00 0.98
10_I 43_T 1.90 0.98 0.94
15_L 43_T 1.80 0.97 0.92
21_W 81_I 1.75 0.96 0.91
19_I 77_Q 1.49 0.89 0.78
16_H 61_E 1.43 0.86 0.74
7_V 43_T 1.30 0.79 0.63
1_F 101_L 1.25 0.74 0.57
25_K 45_M 1.18 0.68 0.50
1_F 104_A 1.15 0.65 0.47
16_H 57_G 1.13 0.63 0.44
7_V 38_M 1.09 0.59 0.40
21_W 48_C 1.08 0.58 0.38
10_I 59_P 1.07 0.57 0.38
5_E 103_K 1.04 0.54 0.34
6_L 26_A 1.03 0.52 0.33
13_E 67_Q 1.01 0.50 0.31
1_F 12_L 1.00 0.49 0.30
18_N 31_A 0.99 0.48 0.29
15_L 5_Y 0.96 0.45 0.26
12_P 15_V 0.95 0.44 0.26
15_L 42_K 0.95 0.44 0.25
21_W 77_Q 0.90 0.39 0.21
11_T 59_P 0.90 0.39 0.21
2_T 45_M 0.90 0.39 0.21
4_A 34_L 0.90 0.38 0.20
18_N 5_Y 0.89 0.37 0.20
17_E 41_N 0.88 0.37 0.19
5_E 85_A 0.86 0.35 0.18
4_A 38_M 0.86 0.35 0.18
30_W 95_A 0.83 0.32 0.16
2_T 16_D 0.83 0.32 0.15
24_P 54_Q 0.82 0.31 0.15
1_F 96_P 0.82 0.31 0.15
27_K 44_G 0.81 0.30 0.14
25_K 49_V 0.81 0.30 0.14
14_N 58_Y 0.81 0.30 0.14
10_I 98_E 0.81 0.30 0.14
13_E 26_A 0.80 0.29 0.13
4_A 106_I 0.80 0.29 0.13
2_T 75_A 0.80 0.29 0.13
12_P 55_S 0.79 0.28 0.13
13_E 100_Q 0.79 0.28 0.13
10_I 8_D 0.79 0.28 0.13
18_N 106_I 0.78 0.28 0.12
13_E 64_L 0.77 0.27 0.12
8_N 80_S 0.77 0.26 0.12
13_E 84_R 0.76 0.26 0.11
13_E 97_E 0.76 0.25 0.11
4_A 17_F 0.75 0.25 0.11
5_E 97_E 0.75 0.25 0.11
20_D 89_T 0.74 0.24 0.10
21_W 91_K 0.74 0.24 0.10
25_K 90_K 0.73 0.23 0.10
20_D 32_V 0.73 0.23 0.10
25_K 102_I 0.73 0.23 0.09
7_V 26_A 0.72 0.23 0.09
1_F 105_K 0.70 0.21 0.08
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
7789 3 DI2200002 Δgene:(1, ∞) A:(1E-04, 8) B:(1E-06, 4) msa: Jackhmmer (r132) 1.00 Done - Shared
7780 1.81 DI2200002 Δgene:(1, ∞) A:(1E-06, 4) B:(1E-06, 4) msa: Jackhmmer (r132) 0.98 Done - Shared
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