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YOHJ_YOHK

Genes: A B A+B
Length: 132 231 345
Sequences: 1129 1214 1058
Seq/Len: 8.55 5.26 3.07
MirrorTree (Pazo et al. 2001) 0.78
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 2.91
2 0.00 0.00 2.91
5 0.00 0.00 2.91
10 0.00 0.00 2.91
20 0.00 0.00 2.91
100 0.01 0.01 2.91
0.06 0.06 2.91
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
64_C 75_Y 4.48 1.00 1.00
61_N 79_E 3.69 1.00 1.00
79_G 38_M 2.94 1.00 1.00
115_S 94_I 2.91 1.00 1.00
106_V 101_V 2.44 1.00 1.00
83_M 42_I 2.33 1.00 0.99
110_V 101_V 2.21 1.00 0.99
65_Y 79_E 2.18 1.00 0.99
99_S 115_A 2.00 1.00 0.98
74_L 65_L 1.94 0.99 0.98
106_V 105_T 1.87 0.99 0.97
104_T 184_A 1.83 0.99 0.97
119_H 173_T 1.81 0.99 0.97
57_A 75_Y 1.73 0.99 0.96
115_S 179_L 1.62 0.98 0.94
118_V 93_T 1.60 0.97 0.93
92_Q 116_S 1.56 0.97 0.92
114_S 97_I 1.49 0.96 0.90
111_V 179_L 1.47 0.95 0.89
18_I 72_A 1.46 0.95 0.88
123_K 173_T 1.43 0.94 0.87
22_L 67_Q 1.39 0.93 0.85
103_S 106_G 1.39 0.93 0.85
101_A 157_L 1.37 0.92 0.84
115_S 176_A 1.37 0.92 0.84
82_V 42_I 1.36 0.92 0.83
92_Q 119_I 1.33 0.91 0.82
111_V 183_T 1.31 0.90 0.81
113_W 169_M 1.27 0.88 0.78
83_M 45_L 1.22 0.85 0.73
70_Y 16_F 1.21 0.84 0.73
110_V 97_I 1.20 0.83 0.71
120_G 173_T 1.19 0.83 0.71
43_M 202_A 1.19 0.83 0.70
100_C 150_C 1.18 0.82 0.70
16_V 14_I 1.17 0.81 0.69
42_G 71_V 1.16 0.81 0.68
51_A 81_L 1.15 0.80 0.67
43_M 145_A 1.14 0.79 0.66
109_L 169_M 1.12 0.78 0.65
99_S 109_V 1.11 0.77 0.63
112_S 205_S 1.08 0.74 0.60
13_R 17_F 1.07 0.73 0.59
76_V 12_T 1.07 0.73 0.58
114_S 93_T 1.07 0.72 0.58
76_V 60_E 1.06 0.71 0.57
89_L 63_N 1.04 0.70 0.56
82_V 149_V 1.02 0.68 0.53
39_S 70_V 1.01 0.66 0.51
26_I 67_Q 1.01 0.66 0.51
23_Y 10_P 1.00 0.66 0.51
103_S 105_T 1.00 0.65 0.50
25_G 71_V 0.99 0.64 0.49
47_F 77_L 0.99 0.64 0.48
108_F 166_L 0.98 0.63 0.48
12_L 49_G 0.97 0.62 0.47
71_M 90_S 0.97 0.61 0.46
102_V 109_V 0.96 0.61 0.46
74_L 134_M 0.96 0.61 0.45
46_L 109_V 0.95 0.59 0.44
75_F 130_T 0.94 0.58 0.43
57_A 79_E 0.94 0.58 0.42
16_V 17_F 0.93 0.57 0.42
74_L 131_P 0.93 0.57 0.41
79_G 152_I 0.92 0.56 0.41
102_V 113_M 0.92 0.56 0.41
112_S 77_L 0.90 0.53 0.38
13_R 21_K 0.89 0.52 0.37
40_I 62_L 0.89 0.52 0.37
112_S 176_A 0.89 0.52 0.36
122_R 89_K 0.88 0.51 0.36
107_V 102_A 0.88 0.51 0.35
112_S 169_M 0.87 0.49 0.34
55_L 225_I 0.87 0.49 0.34
85_Y 106_G 0.86 0.48 0.33
83_M 46_M 0.86 0.48 0.33
52_L 168_A 0.86 0.48 0.33
73_L 62_L 0.86 0.48 0.33
63_G 72_A 0.85 0.48 0.33
79_G 154_V 0.85 0.48 0.32
72_A 187_A 0.85 0.47 0.32
93_F 115_A 0.84 0.46 0.31
103_S 126_K 0.84 0.46 0.31
21_C 71_V 0.84 0.46 0.31
43_M 124_L 0.84 0.45 0.30
15_F 203_F 0.83 0.45 0.30
68_I 146_I 0.83 0.45 0.30
96_V 115_A 0.83 0.45 0.30
80_V 221_F 0.83 0.45 0.30
116_Q 176_A 0.83 0.44 0.29
32_L 138_G 0.82 0.44 0.29
105_L 165_L 0.82 0.44 0.29
30_S 100_V 0.82 0.44 0.29
107_V 127_S 0.82 0.43 0.28
108_F 184_A 0.82 0.43 0.28
22_L 70_V 0.81 0.43 0.28
70_Y 122_S 0.81 0.42 0.28
29_A 139_S 0.81 0.42 0.27
53_Q 82_H 0.81 0.42 0.27
98_V 47_L 0.81 0.41 0.27
18_I 131_P 0.80 0.41 0.27
21_C 23_A 0.80 0.41 0.27
71_M 75_Y 0.80 0.41 0.26
45_I 28_F 0.80 0.41 0.26
85_Y 133_A 0.80 0.41 0.26
68_I 194_A 0.80 0.41 0.26
76_V 62_L 0.80 0.41 0.26
47_F 74_A 0.80 0.40 0.26
120_G 118_E 0.80 0.40 0.26
115_S 203_F 0.80 0.40 0.26
39_S 63_N 0.79 0.40 0.26
31_L 214_I 0.79 0.40 0.25
36_I 134_M 0.79 0.40 0.25
78_I 137_G 0.78 0.39 0.25
78_I 63_N 0.78 0.39 0.25
101_A 170_R 0.78 0.39 0.24
79_G 150_C 0.78 0.39 0.24
107_V 105_T 0.78 0.38 0.24
80_V 41_I 0.78 0.38 0.24
17_L 78_Y 0.77 0.37 0.23
105_L 161_F 0.77 0.37 0.23
109_L 93_T 0.77 0.37 0.23
103_S 204_S 0.76 0.37 0.23
30_S 14_I 0.76 0.37 0.23
80_V 168_A 0.76 0.36 0.23
38_G 6_W 0.76 0.36 0.22
125_V 25_R 0.76 0.36 0.22
39_S 195_E 0.75 0.35 0.22
107_V 200_E 0.75 0.35 0.22
104_T 19_A 0.75 0.35 0.22
76_V 217_L 0.75 0.35 0.21
90_R 40_V 0.75 0.35 0.21
12_L 17_F 0.75 0.35 0.21
100_C 123_I 0.74 0.34 0.21
17_L 114_G 0.74 0.34 0.21
21_C 203_F 0.74 0.34 0.21
116_Q 172_R 0.74 0.34 0.21
73_L 9_L 0.74 0.34 0.20
64_C 104_V 0.74 0.34 0.20
91_A 13_L 0.74 0.34 0.20
64_C 199_Q 0.74 0.34 0.20
98_V 138_G 0.74 0.33 0.20
68_I 154_V 0.74 0.33 0.20
100_C 130_T 0.73 0.33 0.20
74_L 135_A 0.73 0.33 0.20
81_G 45_L 0.73 0.33 0.20
111_V 94_I 0.73 0.33 0.20
60_V 136_V 0.73 0.33 0.19
61_N 27_K 0.73 0.32 0.19
18_I 146_I 0.73 0.32 0.19
38_G 163_H 0.73 0.32 0.19
74_L 63_N 0.72 0.32 0.19
71_M 34_L 0.72 0.32 0.19
122_R 22_L 0.72 0.32 0.19
42_G 76_P 0.72 0.32 0.19
12_L 39_V 0.72 0.32 0.18
37_P 129_T 0.72 0.32 0.18
107_V 183_T 0.72 0.31 0.18
22_L 6_W 0.71 0.31 0.18
19_Y 51_S 0.71 0.31 0.18
71_M 113_M 0.71 0.31 0.18
61_N 69_A 0.71 0.31 0.18
17_L 14_I 0.71 0.30 0.17
96_V 36_V 0.71 0.30 0.17
39_S 134_M 0.71 0.30 0.17
39_S 67_Q 0.71 0.30 0.17
60_V 72_A 0.70 0.30 0.17
43_M 7_W 0.70 0.30 0.17
99_S 216_S 0.70 0.30 0.17
18_I 52_Y 0.70 0.30 0.17
117_L 152_I 0.70 0.30 0.17
56_P 167_N 0.70 0.30 0.17
93_F 171_I 0.70 0.30 0.17
70_Y 20_R 0.70 0.29 0.17
97_V 115_A 0.70 0.29 0.17
88_L 161_F 0.70 0.29 0.17
48_V 27_K 0.70 0.29 0.17
29_A 151_V 0.70 0.29 0.17
22_L 154_V 0.70 0.29 0.17
25_G 73_L 0.69 0.29 0.17
54_I 2_M 0.69 0.29 0.17
112_S 131_P 0.69 0.29 0.16
24_A 82_H 0.69 0.29 0.16
69_R 212_G 0.69 0.29 0.16
79_G 130_T 0.69 0.29 0.16
55_L 26_Y 0.69 0.29 0.16
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
1482 3.76 YOHJ_YOHK Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: Jackhmmer (2015_03) 1.00 Done
1303 3.07 YOHJ_YOHK Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: Jackhmmer (2014_03) 1.00 Done

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