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OPENSEQ.org
FtsA_MreB
Genes: A B A+B
Length: 420 347 742
Sequences: 2365 9308 1344
Seq/Len: 5.63 26.82 1.81
MirrorTree (Pazo et al. 2001) 0.03
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 0.00 0.06 0.00
2 0.00 0.06 0.00
5 0.00 0.07 0.01
10 0.00 0.07 0.05
20 0.00 0.08 0.12
100 0.01 0.11 0.50
∞ 0.09 0.19 1.75
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
61_V 252_N 1.24 0.73 0.02
208_V 234_I 1.00 0.49 0.01
211_I 264_L 0.98 0.47 0.01
127_V 262_E 0.96 0.45 0.01
195_S 326_A 0.96 0.45 0.01
380_V 251_L 0.94 0.43 0.01
13_L 182_V 0.88 0.37 0.01
135_Y 251_L 0.87 0.36 0.01
334_L 188_R 0.86 0.35 0.01
10_V 55_V 0.86 0.34 0.01
104_V 256_I 0.85 0.34 0.01
40_S 279_P 0.85 0.33 0.01
376_Y 39_V 0.80 0.29 0.01
234_Y 157_E 0.80 0.29 0.01
31_G 189_I 0.80 0.29 0.01
18_A 108_P 0.79 0.28 0.01
61_V 264_L 0.79 0.28 0.01
15_I 34_N 0.78 0.27 0.01
220_V 337_D 0.77 0.26 0.01
214_G 252_N 0.76 0.26 0.01
137_I 10_S 0.76 0.26 0.01
308_V 334_E 0.76 0.26 0.01
55_E 252_N 0.76 0.26 0.01
23_L 108_P 0.76 0.25 0.01
231_V 173_V 0.75 0.25 0.00
124_E 203_R 0.74 0.24 0.00
105_T 309_E 0.74 0.24 0.00
356_V 312_G 0.74 0.24 0.00
219_A 112_V 0.74 0.24 0.00
35_I 12_D 0.73 0.23 0.00
233_P 112_V 0.73 0.23 0.00
12_G 260_L 0.73 0.23 0.00
61_V 251_L 0.73 0.23 0.00
273_E 251_L 0.72 0.23 0.00
332_I 111_L 0.72 0.23 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
14327 FtsA_MreB Δgene:(1, ∞) A:(1E-06, 8) B:(1E-06, 8) msa: HHblits (2015_06) Running - Shared
14306 1.81 FtsA_MreB Δgene:(1, ∞) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06) 0.02 Done - Shared
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