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OPENSEQ.org
1tyg_AB
Genes: A B A+B
Length: 242 65 304
Sequences: 1328 1827 1155
Seq/Len: 5.49 28.11 3.8
MirrorTree (Pazo et al. 2001) 0.54
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 3.04
2 0.00 0.00 3.46
5 0.00 0.00 3.72
10 0.00 0.00 3.73
20 0.00 0.00 3.76
100 0.00 0.00 3.79
∞ 0.00 0.00 4.18
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
81_R 35_E 1.93 1.00 0.98
90_G 62_F 1.64 0.99 0.94
88_A 33_I 1.45 0.96 0.88
85_L 40_I 1.32 0.93 0.81
77_E 38_K 1.09 0.80 0.60
42_V 60_V 1.02 0.74 0.53
92_C 62_F 0.97 0.69 0.47
84_R 39_E 0.93 0.64 0.42
138_A 60_V 0.93 0.63 0.41
90_G 35_E 0.92 0.62 0.41
92_C 64_G 0.91 0.61 0.39
85_L 60_V 0.89 0.59 0.37
88_A 42_G 0.88 0.57 0.36
43_R 6_G 0.86 0.54 0.33
67_L 42_G 0.85 0.54 0.33
84_R 35_E 0.85 0.53 0.32
89_S 46_Y 0.84 0.52 0.31
59_L 60_V 0.83 0.50 0.30
80_V 10_K 0.79 0.45 0.25
43_R 58_E 0.78 0.44 0.25
143_E 49_V 0.78 0.43 0.24
73_A 60_V 0.77 0.43 0.24
218_A 6_G 0.77 0.43 0.24
90_G 64_G 0.76 0.42 0.23
81_R 62_F 0.75 0.41 0.22
73_A 64_G 0.74 0.40 0.21
41_A 63_V 0.73 0.38 0.20
89_S 33_I 0.73 0.38 0.20
81_R 58_E 0.73 0.38 0.20
209_S 18_I 0.73 0.37 0.20
92_C 31_I 0.73 0.37 0.20
88_A 41_I 0.72 0.36 0.19
92_C 35_E 0.72 0.36 0.19
36_D 18_I 0.71 0.36 0.19
85_L 61_H 0.70 0.34 0.18
191_A 21_L 0.70 0.34 0.18
122_E 19_Q 0.70 0.34 0.18
170_F 22_L 0.70 0.34 0.17
88_A 44_E 0.69 0.33 0.17
89_S 31_I 0.68 0.32 0.16
173_E 64_G 0.68 0.32 0.16
8_S 39_E 0.68 0.31 0.16
55_F 60_V 0.67 0.31 0.15
48_F 7_K 0.67 0.31 0.15
173_E 38_K 0.67 0.30 0.15
19_K 64_G 0.66 0.29 0.14
158_S 63_V 0.65 0.29 0.14
181_V 59_I 0.64 0.28 0.13
131_T 63_V 0.64 0.27 0.13
146_V 60_V 0.64 0.27 0.13
114_L 13_K 0.64 0.27 0.13
218_A 43_K 0.63 0.27 0.12
177_V 23_A 0.63 0.27 0.12
38_L 2_L 0.63 0.27 0.12
143_E 3_Q 0.63 0.26 0.12
168_L 4_L 0.63 0.26 0.12
75_T 28_E 0.63 0.26 0.12
218_A 7_K 0.62 0.26 0.12
220_A 51_L 0.62 0.25 0.12
47_I 43_K 0.61 0.25 0.11
132_S 33_I 0.61 0.24 0.11
76_A 22_L 0.61 0.24 0.11
83_A 61_H 0.61 0.24 0.11
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
10431 0 1TYGAB Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) Killed - Shared
2068 3.8 1tyg_AB Δgene:(1, 20) A:(1E-20, 8) B:(1E-10, 8) msa: Jackhmmer (2015_03) 0.98 Done - Shared
2065 0.11 1tyg_AB Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: Jackhmmer (2015_03) Killed - Shared
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