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OPENSEQ.org
FtsA - FtsL
Genes: A B A+B
Length: 440 117 483
Sequences: 2132 450 199
Seq/Len: 4.85 3.85 0.41
MirrorTree (Pazo et al. 2001) 0.67
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 0.01 0.01 0.00
2 0.01 0.01 0.00
5 0.01 0.01 0.03
10 0.01 0.01 0.25
20 0.01 0.01 0.36
100 0.01 0.01 0.37
∞ 0.03 0.02 0.43
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
211_G 89_D 2.04 0.83 0.15
216_I 84_E 1.68 0.63 0.06
166_L 31_T 1.50 0.51 0.04
18_K 105_L 1.43 0.45 0.03
314_G 87_V 1.42 0.45 0.03
185_L 63_N 1.40 0.43 0.03
90_N 112_V 1.38 0.41 0.03
19_V 91_S 1.35 0.40 0.02
14_T 53_V 1.33 0.38 0.02
297_A 105_L 1.27 0.34 0.02
7_Y 115_I 1.27 0.34 0.02
174_E 34_E 1.27 0.34 0.02
336_S 6_Y 1.25 0.33 0.02
209_I 40_L 1.24 0.32 0.02
292_A 73_I 1.22 0.31 0.01
319_P 42_A 1.22 0.31 0.01
29_L 105_L 1.21 0.30 0.01
18_K 56_A 1.20 0.30 0.01
78_G 34_E 1.15 0.27 0.01
6_L 77_N 1.14 0.26 0.01
154_V 59_A 1.14 0.26 0.01
69_G 35_K 1.13 0.26 0.01
172_C 96_I 1.12 0.25 0.01
371_A 107_L 1.12 0.25 0.01
239_K 105_L 1.12 0.25 0.01
84_I 31_T 1.11 0.24 0.01
174_E 35_K 1.11 0.24 0.01
373_R 86_S 1.10 0.24 0.01
156_G 107_L 1.09 0.23 0.01
175_R 44_A 1.09 0.23 0.01
359_P 100_A 1.08 0.23 0.01
20_I 101_K 1.07 0.23 0.01
84_I 63_N 1.07 0.23 0.01
224_L 80_I 1.07 0.22 0.01
323_V 42_A 1.07 0.22 0.01
297_A 56_A 1.06 0.22 0.01
139_D 18_P 1.06 0.22 0.01
51_D 68_K 1.05 0.21 0.01
303_L 6_Y 1.05 0.21 0.01
292_A 41_F 1.03 0.21 0.01
99_N 105_L 1.03 0.20 0.01
292_A 49_S 1.02 0.20 0.01
250_E 89_D 1.01 0.19 0.01
156_G 34_E 1.01 0.19 0.01
200_K 109_D 1.01 0.19 0.01
204_V 55_K 1.01 0.19 0.01
341_V 31_T 1.00 0.19 0.01
255_V 81_G 1.00 0.19 0.01
84_I 93_P 1.00 0.19 0.01
21_V 33_G 1.00 0.19 0.01
9_S 93_P 0.99 0.19 0.01
264_Y 52_I 0.99 0.18 0.01
293_N 76_E 0.99 0.18 0.01
232_L 14_H 0.98 0.18 0.01
219_F 63_N 0.98 0.18 0.01
61_F 81_G 0.98 0.18 0.01
215_T 44_A 0.98 0.18 0.01
223_H 101_K 0.97 0.18 0.01
217_A 82_D 0.97 0.18 0.01
104_V 47_S 0.97 0.18 0.01
169_L 58_A 0.96 0.17 0.01
119_V 96_I 0.96 0.17 0.01
17_T 55_K 0.95 0.17 0.01
56_S 64_I 0.94 0.17 0.01
284_Q 36_V 0.94 0.16 0.01
255_V 87_V 0.94 0.16 0.01
238_T 31_T 0.94 0.16 0.01
93_V 33_G 0.94 0.16 0.01
288_Q 113_K 0.94 0.16 0.01
247_T 34_E 0.93 0.16 0.01
145_K 105_L 0.93 0.16 0.01
269_E 14_H 0.92 0.16 0.01
3_N 75_S 0.92 0.16 0.01
175_R 73_I 0.92 0.15 0.01
145_K 34_E 0.92 0.15 0.01
302_I 105_L 0.92 0.15 0.01
224_L 112_V 0.92 0.15 0.01
156_G 112_V 0.92 0.15 0.01
202_L 85_K 0.91 0.15 0.01
335_M 48_V 0.91 0.15 0.01
292_A 65_E 0.90 0.15 0.01
336_S 80_I 0.90 0.15 0.01
322_F 109_D 0.90 0.15 0.01
132_Q 114_N 0.90 0.15 0.01
132_Q 52_I 0.90 0.15 0.01
340_D 99_I 0.89 0.15 0.01
337_L 91_S 0.89 0.15 0.00
207_I 40_L 0.89 0.15 0.00
84_I 29_S 0.89 0.15 0.00
171_R 99_I 0.89 0.14 0.00
172_C 91_S 0.89 0.14 0.00
347_R 86_S 0.89 0.14 0.00
103_Q 40_L 0.89 0.14 0.00
318_L 105_L 0.88 0.14 0.00
364_G 24_V 0.88 0.14 0.00
296_E 54_S 0.88 0.14 0.00
125_I 72_Q 0.88 0.14 0.00
74_K 76_E 0.88 0.14 0.00
255_V 75_S 0.88 0.14 0.00
61_F 99_I 0.88 0.14 0.00
336_S 79_Q 0.88 0.14 0.00
31_I 86_S 0.88 0.14 0.00
9_S 96_I 0.87 0.14 0.00
180_I 27_R 0.87 0.14 0.00
200_K 66_V 0.87 0.14 0.00
22_G 38_L 0.87 0.14 0.00
273_F 53_V 0.87 0.14 0.00
134_I 59_A 0.87 0.14 0.00
345_N 6_Y 0.87 0.14 0.00
222_G 114_N 0.87 0.14 0.00
211_G 55_K 0.87 0.14 0.00
368_I 95_R 0.87 0.14 0.00
158_L 15_A 0.87 0.14 0.00
58_R 32_L 0.87 0.14 0.00
79_V 75_S 0.86 0.14 0.00
301_E 114_N 0.86 0.14 0.00
51_D 37_L 0.86 0.14 0.00
196_S 53_V 0.86 0.14 0.00
301_E 113_K 0.86 0.14 0.00
207_I 36_V 0.86 0.14 0.00
83_Y 2_S 0.86 0.14 0.00
352_N 35_K 0.86 0.14 0.00
24_M 108_K 0.86 0.14 0.00
17_T 68_K 0.86 0.14 0.00
367_L 108_K 0.86 0.14 0.00
5_E 99_I 0.86 0.13 0.00
331_M 96_I 0.86 0.13 0.00
241_I 85_K 0.85 0.13 0.00
287_T 38_L 0.85 0.13 0.00
183_I 45_V 0.85 0.13 0.00
364_G 88_A 0.85 0.13 0.00
255_V 12_Q 0.85 0.13 0.00
82_N 53_V 0.85 0.13 0.00
346_V 35_K 0.85 0.13 0.00
339_Q 49_S 0.85 0.13 0.00
364_G 109_D 0.84 0.13 0.00
76_I 27_R 0.84 0.13 0.00
47_I 68_K 0.84 0.13 0.00
225_T 79_Q 0.84 0.13 0.00
215_T 34_E 0.84 0.13 0.00
81_G 93_P 0.84 0.13 0.00
342_L 82_D 0.83 0.13 0.00
320_G 67_Q 0.83 0.13 0.00
113_A 108_K 0.83 0.13 0.00
329_A 32_L 0.83 0.13 0.00
364_G 45_V 0.83 0.13 0.00
280_T 38_L 0.83 0.13 0.00
107_V 22_V 0.83 0.13 0.00
352_N 30_I 0.83 0.13 0.00
227_T 59_A 0.83 0.13 0.00
339_Q 92_K 0.83 0.12 0.00
235_E 77_N 0.83 0.12 0.00
194_A 98_D 0.83 0.12 0.00
348_V 67_Q 0.83 0.12 0.00
154_V 108_K 0.82 0.12 0.00
29_L 95_R 0.82 0.12 0.00
157_T 67_Q 0.82 0.12 0.00
43_K 30_I 0.82 0.12 0.00
175_R 102_K 0.82 0.12 0.00
291_A 41_F 0.82 0.12 0.00
47_I 50_L 0.82 0.12 0.00
170_L 51_L 0.82 0.12 0.00
292_A 10_K 0.82 0.12 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
8115 0.41 FtsA - FtsL Δgene:(1, 20) A:(1E-02, 8) B:(1E-02, 8) msa: HHblits (2015_06) 0.15 Done - Shared
8110 0.41 FtsA - FtsL Δgene:(1, 20) A:(1E-04, 8) B:(1E-04, 8) msa: HHblits (2015_06) 0.16 Done - Shared
8101 0.41 FtsA - FtsL Δgene:(1, 20) A:(1E-06, 8) B:(1E-06, 8) msa: HHblits (2015_06) 0.07 Done - Shared
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