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OPENSEQ.org
TatCB20
Genes: A B A+B
Length: 258 171 416
Sequences: 2502 770 619
Seq/Len: 9.7 4.5 1.49
MirrorTree (Pazo et al. 2001) 0.76
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 0.01 0.00 1.44
2 0.01 0.00 1.44
5 0.01 0.00 1.44
10 0.01 0.00 1.44
20 0.01 0.00 1.44
100 0.01 0.00 1.44
∞ 0.02 0.00 1.44
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
24_I 18_V 1.91 0.97 0.87
198_V 3_D 1.40 0.80 0.51
127_F 69_A 1.36 0.78 0.48
202_V 12_V 1.32 0.74 0.43
202_V 131_A 1.24 0.68 0.36
21_L 18_V 1.19 0.63 0.31
76_F 30_K 1.19 0.63 0.31
167_V 12_V 1.19 0.63 0.31
106_L 46_V 1.17 0.61 0.29
120_I 15_I 1.12 0.57 0.26
110_L 24_R 1.12 0.56 0.25
71_P 29_V 1.10 0.54 0.24
49_L 66_V 1.10 0.54 0.23
41_I 53_E 1.09 0.53 0.23
38_A 11_L 1.08 0.53 0.22
83_S 7_S 1.08 0.52 0.22
98_A 12_V 1.08 0.52 0.22
20_L 18_V 1.08 0.52 0.22
194_P 20_L 1.05 0.49 0.20
177_L 43_A 1.05 0.49 0.20
246_E 137_S 1.04 0.48 0.19
70_T 40_R 1.04 0.48 0.19
74_L 49_E 1.04 0.48 0.19
52_Q 18_V 1.03 0.47 0.18
222_M 20_L 1.02 0.46 0.18
171_V 46_V 1.02 0.46 0.18
28_I 99_N 1.02 0.46 0.18
29_V 112_H 1.00 0.44 0.16
171_V 58_E 0.98 0.42 0.15
212_V 121_A 0.97 0.41 0.15
102_H 28_A 0.97 0.41 0.15
110_L 38_A 0.97 0.41 0.14
246_E 129_A 0.96 0.40 0.14
41_I 11_L 0.96 0.40 0.14
104_R 67_E 0.95 0.39 0.14
127_F 63_L 0.94 0.38 0.13
216_T 11_L 0.94 0.38 0.13
18_K 80_A 0.94 0.38 0.13
133_A 12_V 0.94 0.38 0.13
160_A 56_L 0.94 0.38 0.13
76_F 37_R 0.94 0.38 0.13
231_F 130_A 0.93 0.37 0.13
29_V 117_K 0.93 0.37 0.12
22_N 15_I 0.92 0.36 0.12
124_F 17_L 0.92 0.36 0.12
44_L 48_N 0.91 0.35 0.11
218_L 3_D 0.91 0.35 0.11
88_L 24_R 0.91 0.35 0.11
84_A 40_R 0.91 0.35 0.11
112_V 2_F 0.91 0.35 0.11
66_S 23_Q 0.90 0.34 0.11
80_L 13_F 0.90 0.34 0.11
101_K 32_V 0.90 0.34 0.11
107_V 43_A 0.90 0.34 0.11
203_V 4_I 0.89 0.34 0.11
74_L 77_E 0.89 0.33 0.11
141_A 11_L 0.89 0.33 0.11
152_A 35_W 0.89 0.33 0.10
23_C 153_A 0.89 0.33 0.10
104_R 15_I 0.89 0.33 0.10
196_V 30_K 0.89 0.33 0.10
102_H 52_Q 0.89 0.33 0.10
112_V 9_L 0.88 0.33 0.10
233_S 18_V 0.88 0.32 0.10
125_A 28_A 0.88 0.32 0.10
9_L 36_I 0.87 0.31 0.10
125_A 63_L 0.87 0.31 0.10
206_L 78_L 0.86 0.31 0.09
215_Q 12_V 0.86 0.31 0.09
41_I 31_T 0.86 0.31 0.09
222_M 58_E 0.85 0.30 0.09
26_A 92_M 0.85 0.30 0.09
29_V 115_V 0.85 0.30 0.09
111_L 40_R 0.85 0.30 0.09
30_I 105_S 0.85 0.30 0.09
24_I 66_V 0.85 0.30 0.09
176_V 59_F 0.85 0.30 0.09
183_I 119_N 0.85 0.30 0.09
171_V 67_E 0.85 0.29 0.09
219_A 29_V 0.85 0.29 0.09
37_F 140_Q 0.84 0.29 0.09
9_L 42_L 0.84 0.29 0.09
229_G 6_F 0.84 0.29 0.09
26_A 13_F 0.84 0.29 0.08
23_C 11_L 0.83 0.28 0.08
205_M 16_G 0.83 0.28 0.08
168_S 35_W 0.83 0.28 0.08
183_I 87_Q 0.83 0.28 0.08
25_I 127_T 0.82 0.27 0.08
98_A 15_I 0.82 0.27 0.08
213_F 57_Q 0.82 0.27 0.07
203_V 124_E 0.81 0.27 0.07
189_L 25_L 0.81 0.27 0.07
120_I 124_E 0.81 0.27 0.07
226_F 27_V 0.81 0.26 0.07
175_I 54_L 0.81 0.26 0.07
29_V 131_A 0.81 0.26 0.07
168_S 41_S 0.81 0.26 0.07
212_V 18_V 0.80 0.26 0.07
41_I 133_T 0.80 0.26 0.07
84_A 43_A 0.80 0.25 0.07
36_Y 64_K 0.80 0.25 0.07
226_F 86_R 0.80 0.25 0.07
160_A 57_Q 0.80 0.25 0.07
204_G 6_F 0.80 0.25 0.07
240_G 131_A 0.79 0.25 0.07
112_V 115_V 0.79 0.25 0.07
105_R 28_A 0.79 0.25 0.07
105_R 95_S 0.79 0.25 0.07
112_V 134_Q 0.79 0.24 0.07
37_F 15_I 0.79 0.24 0.07
104_R 14_I 0.78 0.24 0.06
178_L 58_E 0.78 0.24 0.06
191_K 101_P 0.78 0.24 0.06
83_S 136_S 0.78 0.24 0.06
71_P 24_R 0.78 0.24 0.06
11_T 46_V 0.78 0.24 0.06
187_E 101_P 0.78 0.24 0.06
115_S 46_V 0.78 0.24 0.06
216_T 105_S 0.78 0.24 0.06
112_V 154_A 0.78 0.24 0.06
24_I 121_A 0.77 0.23 0.06
247_N 100_D 0.77 0.23 0.06
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
2481 1.49 TatCB20 Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: Jackhmmer (2015_03) 0.87 Done - Shared
2480 1.49 TatCB2 Δgene:(1, 2) A:(1E-20, 8) B:(1E-20, 8) msa: Jackhmmer (2015_03) 0.87 Done - Shared
2479 1.49 TatCB5 Δgene:(1, 5) A:(1E-20, 8) B:(1E-20, 8) msa: Jackhmmer (2015_03) 0.87 Done - Shared
2478 1.49 TatCB10 Δgene:(1, 10) A:(1E-20, 8) B:(1E-20, 8) msa: Jackhmmer (2015_03) 0.87 Done - Shared
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