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OPENSEQ.org
DI2200002
Genes: A B A+B
Length: 30 111 136
Sequences: 514 6497 408
Seq/Len: 17.13 58.53 3
MirrorTree (Pazo et al. 2001) 0.28
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 2.77
2 0.00 0.00 2.77
5 0.00 0.00 2.78
10 0.00 0.00 2.78
20 0.00 0.01 2.78
100 0.00 0.05 2.82
∞ 0.01 0.06 2.89
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
10_I 43_T 2.45 1.00 1.00
21_W 79_K 2.16 1.00 0.99
15_L 43_T 2.01 1.00 0.98
16_H 61_E 1.68 0.98 0.94
7_V 38_M 1.56 0.97 0.91
19_I 77_Q 1.42 0.94 0.86
21_W 48_C 1.40 0.93 0.85
14_N 58_Y 1.34 0.91 0.82
21_W 81_I 1.30 0.89 0.79
1_F 101_L 1.12 0.77 0.63
1_F 104_A 1.10 0.75 0.61
16_H 76_D 1.09 0.74 0.59
10_I 58_Y 1.04 0.69 0.53
15_L 75_A 1.03 0.68 0.52
12_P 85_A 1.03 0.68 0.52
4_A 38_M 1.02 0.67 0.51
6_L 26_A 1.01 0.65 0.49
10_I 59_P 0.97 0.61 0.45
16_H 57_G 0.97 0.61 0.45
17_E 100_Q 0.92 0.56 0.39
2_T 16_D 0.91 0.54 0.38
2_T 46_C 0.91 0.54 0.38
11_T 58_Y 0.89 0.51 0.35
7_V 43_T 0.88 0.50 0.34
10_I 42_K 0.88 0.50 0.34
9_D 63_V 0.88 0.50 0.34
8_N 37_F 0.86 0.48 0.32
13_E 64_L 0.84 0.45 0.29
25_K 18_D 0.83 0.44 0.29
4_A 34_L 0.83 0.44 0.29
18_N 31_A 0.83 0.44 0.29
14_N 76_D 0.83 0.44 0.28
18_N 81_I 0.81 0.42 0.27
13_E 67_Q 0.80 0.40 0.25
27_K 87_G 0.79 0.39 0.24
16_H 58_Y 0.79 0.39 0.24
12_P 91_K 0.78 0.38 0.23
20_D 106_I 0.77 0.37 0.23
7_V 26_A 0.77 0.37 0.23
25_K 90_K 0.77 0.37 0.23
1_F 12_L 0.76 0.36 0.22
19_I 65_S 0.76 0.36 0.21
27_K 44_G 0.75 0.35 0.21
1_F 105_K 0.75 0.34 0.20
25_K 102_I 0.75 0.34 0.20
29_V 20_T 0.75 0.34 0.20
11_T 56_K 0.73 0.32 0.18
5_E 53_T 0.71 0.30 0.17
11_T 59_P 0.71 0.30 0.17
15_L 5_Y 0.70 0.29 0.17
8_N 30_P 0.70 0.29 0.16
12_P 15_V 0.70 0.29 0.16
21_W 91_K 0.70 0.29 0.16
21_W 77_Q 0.69 0.28 0.16
18_N 5_Y 0.69 0.28 0.15
10_I 21_K 0.69 0.28 0.15
17_E 73_A 0.69 0.28 0.15
18_N 59_P 0.68 0.27 0.15
7_V 83_W 0.68 0.27 0.14
14_N 61_E 0.68 0.27 0.14
13_E 97_E 0.67 0.26 0.14
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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