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OPENSEQ.org
DI2200005
Genes: A B A+B
Length: 34 107 134
Sequences: 88 122 113
Seq/Len: 2.59 1.14 0.84
MirrorTree (Pazo et al. 2001) 0.68
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 0.01
2 0.00 0.00 0.80
5 0.00 0.00 0.79
10 0.00 0.00 0.79
20 0.00 0.00 0.79
100 0.00 0.00 0.79
∞ 0.00 0.00 0.80
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
6_I 98_M 1.64 0.81 0.04
29_Q 25_V 1.51 0.73 0.03
4_G 35_V 1.45 0.68 0.03
16_D 91_V 1.44 0.67 0.03
16_D 37_E 1.42 0.66 0.02
6_I 86_L 1.37 0.62 0.02
13_I 72_K 1.36 0.61 0.02
30_D 69_K 1.35 0.60 0.02
15_V 105_R 1.33 0.58 0.02
27_G 79_D 1.29 0.55 0.02
14_S 27_E 1.24 0.51 0.01
25_A 8_A 1.19 0.46 0.01
18_K 24_I 1.19 0.46 0.01
16_D 4_R 1.17 0.45 0.01
18_K 89_I 1.17 0.44 0.01
30_D 10_K 1.16 0.43 0.01
28_M 104_P 1.15 0.42 0.01
4_G 15_D 1.15 0.42 0.01
30_D 31_T 1.13 0.41 0.01
12_R 87_T 1.13 0.41 0.01
26_K 69_K 1.11 0.40 0.01
14_S 44_S 1.09 0.38 0.01
11_T 53_V 1.07 0.36 0.01
31_L 69_K 1.05 0.34 0.01
11_T 5_M 1.04 0.33 0.01
4_G 22_R 1.02 0.32 0.01
11_T 38_R 1.02 0.32 0.01
25_A 11_R 1.02 0.32 0.01
9_T 3_A 1.02 0.32 0.01
28_M 52_S 1.01 0.31 0.01
18_K 76_R 1.00 0.31 0.01
25_A 46_A 1.00 0.30 0.01
28_M 5_M 0.99 0.30 0.01
11_T 82_L 0.98 0.29 0.01
26_K 31_T 0.98 0.29 0.01
28_M 48_F 0.97 0.28 0.01
15_V 7_P 0.96 0.27 0.01
13_I 98_M 0.95 0.27 0.01
26_K 15_D 0.94 0.26 0.01
27_G 101_R 0.94 0.26 0.01
4_G 10_K 0.93 0.26 0.01
28_M 43_V 0.92 0.25 0.01
28_M 78_E 0.92 0.24 0.01
14_S 51_I 0.91 0.24 0.01
26_K 13_L 0.89 0.23 0.01
18_K 82_L 0.89 0.23 0.01
13_I 39_I 0.89 0.23 0.01
25_A 91_V 0.89 0.23 0.01
28_M 54_S 0.89 0.23 0.01
25_A 61_V 0.88 0.22 0.01
14_S 59_I 0.88 0.22 0.01
28_M 3_A 0.85 0.20 0.00
11_T 19_S 0.84 0.20 0.00
19_T 36_N 0.83 0.19 0.00
22_A 61_V 0.83 0.19 0.00
29_Q 87_T 0.81 0.18 0.00
5_I 56_V 0.81 0.18 0.00
28_M 57_L 0.81 0.18 0.00
18_K 77_S 0.79 0.17 0.00
29_Q 52_S 0.79 0.17 0.00
21_L 88_L 0.79 0.17 0.00
20_E 77_S 0.79 0.17 0.00
11_T 26_L 0.78 0.17 0.00
14_S 72_K 0.76 0.16 0.00
25_A 7_P 0.76 0.16 0.00
9_T 80_I 0.76 0.16 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
7795 0.85 DI2200005_1SUY Δgene:(1, ∞) A:(1E-04, 8) B:(1E-06, 4) msa: Jackhmmer (r132) 0.03 Done - Shared
7782 0.84 DI2200005 Δgene:(1, ∞) A:(1E-06, 4) B:(1E-06, 4) msa: Jackhmmer (r132) 0.04 Done - Shared
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