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OPENSEQ.org
FtsZ_YcbW
Genes: A B A+B
Length: 180 383 475
Sequences: 188 2098 53
Seq/Len: 1.04 5.48 0.11
MirrorTree (Pazo et al. 2001) 0.61
Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.

[Show HHblits results] - Maybe useful in deciding what regions to trim.
Δgene Ratio of paralogs Joined
A B Seq/Len
1 0.02 0.02 0.00
2 0.02 0.02 0.00
5 0.02 0.02 0.00
10 0.02 0.02 0.00
20 0.02 0.02 0.00
100 0.02 0.03 0.01
∞ 0.02 0.05 0.09
Paired alignment generation
None of the genomes have hits within 20 Δgene.
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
138_C 214_R 1.56 0.24 0.00
94_K 218_S 1.46 0.20 0.00
81_A 16_I 1.46 0.20 0.00
53_D 244_I 1.44 0.20 0.00
140_L 233_E 1.40 0.18 0.00
133_E 98_V 1.33 0.16 0.00
137_L 156_H 1.31 0.16 0.00
139_L 98_V 1.30 0.15 0.00
82_L 176_I 1.23 0.14 0.00
155_G 294_I 1.23 0.14 0.00
75_A 80_A 1.22 0.14 0.00
5_P 237_E 1.22 0.14 0.00
53_D 92_L 1.20 0.13 0.00
119_D 95_A 1.19 0.13 0.00
34_F 116_V 1.18 0.12 0.00
136_A 245_S 1.17 0.12 0.00
58_F 166_D 1.17 0.12 0.00
141_A 227_S 1.17 0.12 0.00
53_D 214_R 1.15 0.12 0.00
142_Q 294_I 1.12 0.11 0.00
82_L 298_L 1.11 0.11 0.00
155_G 297_S 1.11 0.11 0.00
53_D 123_L 1.11 0.11 0.00
84_A 252_I 1.09 0.11 0.00
53_D 285_F 1.09 0.11 0.00
92_M 180_D 1.08 0.10 0.00
138_C 244_I 1.08 0.10 0.00
88_L 273_D 1.07 0.10 0.00
70_S 115_V 1.05 0.10 0.00
69_L 227_S 1.05 0.10 0.00
35_A 60_I 1.04 0.10 0.00
29_L 98_V 1.04 0.10 0.00
95_S 299_D 1.03 0.10 0.00
62_E 227_S 1.03 0.10 0.00
86_R 296_T 1.03 0.10 0.00
157_A 98_V 1.02 0.09 0.00
155_G 32_E 1.00 0.09 0.00
142_Q 89_R 0.99 0.09 0.00
82_L 116_V 0.98 0.09 0.00
70_S 145_F 0.98 0.09 0.00
165_L 184_A 0.98 0.09 0.00
155_G 58_I 0.97 0.09 0.00
71_K 306_L 0.97 0.09 0.00
62_E 273_D 0.97 0.09 0.00
34_F 41_A 0.97 0.09 0.00
107_P 64_I 0.96 0.08 0.00
113_A 145_F 0.96 0.08 0.00
94_K 227_S 0.96 0.08 0.00
34_F 191_G 0.96 0.08 0.00
155_G 272_L 0.96 0.08 0.00
130_E 177_S 0.95 0.08 0.00
25_A 88_L 0.95 0.08 0.00
93_P 258_R 0.94 0.08 0.00
141_A 273_D 0.94 0.08 0.00
141_A 190_K 0.94 0.08 0.00
77_L 272_L 0.93 0.08 0.00
61_E 82_D 0.93 0.08 0.00
137_L 140_K 0.93 0.08 0.00
160_I 282_I 0.92 0.08 0.00
137_L 173_G 0.92 0.08 0.00
88_L 82_D 0.92 0.08 0.00
87_Y 258_R 0.92 0.08 0.00
91_Q 143_M 0.91 0.08 0.00
137_L 300_P 0.91 0.08 0.00
41_P 303_N 0.91 0.08 0.00
26_N 320_R 0.91 0.07 0.00
126_L 101_A 0.90 0.07 0.00
135_A 293_V 0.90 0.07 0.00
126_L 40_F 0.90 0.07 0.00
87_Y 285_F 0.90 0.07 0.00
156_D 218_S 0.90 0.07 0.00
52_D 88_L 0.90 0.07 0.00
77_L 176_I 0.89 0.07 0.00
150_R 282_I 0.89 0.07 0.00
119_D 151_T 0.89 0.07 0.00
81_A 306_L 0.89 0.07 0.00
24_L 119_V 0.89 0.07 0.00
87_Y 228_G 0.89 0.07 0.00
82_L 297_S 0.89 0.07 0.00
38_M 283_R 0.89 0.07 0.00
73_Q 119_V 0.89 0.07 0.00
87_Y 296_T 0.89 0.07 0.00
152_M 51_K 0.89 0.07 0.00
49_F 262_V 0.89 0.07 0.00
35_A 269_D 0.89 0.07 0.00
82_L 294_I 0.89 0.07 0.00
110_G 9_N 0.88 0.07 0.00
171_V 233_E 0.87 0.07 0.00
154_L 297_S 0.87 0.07 0.00
58_F 89_R 0.87 0.07 0.00
163_D 156_H 0.87 0.07 0.00
87_Y 219_E 0.87 0.07 0.00
92_M 184_A 0.87 0.07 0.00
103_E 80_A 0.87 0.07 0.00
20_M 283_R 0.87 0.07 0.00
111_D 32_E 0.86 0.07 0.00
2_R 184_A 0.86 0.07 0.00
14_D 176_I 0.86 0.07 0.00
83_V 206_M 0.86 0.07 0.00
154_L 298_L 0.86 0.07 0.00
32_S 116_V 0.86 0.07 0.00
144_C 82_D 0.86 0.07 0.00
76_E 294_I 0.86 0.07 0.00
55_A 214_R 0.86 0.07 0.00
68_N 9_N 0.85 0.07 0.00
75_A 190_K 0.85 0.07 0.00
134_N 121_K 0.85 0.07 0.00
27_G 206_M 0.85 0.07 0.00
40_T 206_M 0.85 0.07 0.00
30_F 203_P 0.85 0.07 0.00
43_A 51_K 0.85 0.07 0.00
94_K 320_R 0.85 0.07 0.00
83_V 56_Q 0.85 0.07 0.00
156_D 86_D 0.85 0.07 0.00
35_A 121_K 0.85 0.07 0.00
73_Q 82_D 0.84 0.07 0.00
52_D 60_I 0.84 0.07 0.00
62_E 75_E 0.84 0.07 0.00
158_I 16_I 0.84 0.07 0.00
69_L 272_L 0.83 0.07 0.00
76_E 227_S 0.83 0.07 0.00
134_N 123_L 0.83 0.07 0.00
165_L 57_T 0.83 0.07 0.00
100_S 245_S 0.83 0.07 0.00
6_D 10_D 0.83 0.07 0.00
52_D 41_A 0.83 0.07 0.00
158_I 10_D 0.82 0.06 0.00
95_S 178_L 0.82 0.06 0.00
95_S 182_F 0.82 0.06 0.00
77_L 297_S 0.82 0.06 0.00
85_I 95_A 0.81 0.06 0.00
51_V 175_G 0.81 0.06 0.00
163_D 79_N 0.81 0.06 0.00
101_H 60_I 0.81 0.06 0.00
47_A 10_D 0.80 0.06 0.00
2_R 177_S 0.80 0.06 0.00
60_F 58_I 0.80 0.06 0.00
141_A 317_M 0.80 0.06 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
14324 FtsZ_YcbW Δgene:(1, ∞) A:(1E-06, 8) B:(1E-06, 8) msa: HHblits (2015_06) Running - Shared
14299 0.11 FtsZ_YcbW Δgene:(1, ∞) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) 0.00 Done - Shared
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