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OPENSEQ.org
FtsL2 - FtsA
Genes: A B A+B
Length: 35 440 399
Sequences: 102 1734 66
Seq/Len: 2.91 3.94 0.17
MirrorTree (Pazo et al. 2001) 0.63
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 0.00 0.00
2 0.01 0.00 0.00
5 0.01 0.00 0.00
10 0.01 0.00 0.07
20 0.01 0.00 0.14
100 0.01 0.00 0.14
∞ 0.01 0.02 0.14
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
6_Y 303_L 1.33 0.21 0.00
15_A 243_I 1.27 0.19 0.00
3_N 46_S 1.26 0.19 0.00
5_A 245_L 1.19 0.16 0.00
20_K 248_S 1.16 0.15 0.00
30_I 43_K 1.15 0.15 0.00
2_S 83_Y 1.08 0.13 0.00
22_V 345_N 1.08 0.13 0.00
18_P 83_Y 1.06 0.13 0.00
32_L 131_K 1.02 0.12 0.00
33_G 8_V 1.01 0.12 0.00
14_H 361_Y 1.00 0.11 0.00
5_A 5_E 0.97 0.11 0.00
14_H 232_L 0.96 0.10 0.00
30_I 345_N 0.96 0.10 0.00
26_K 235_E 0.95 0.10 0.00
27_R 348_V 0.94 0.10 0.00
27_R 119_V 0.93 0.10 0.00
6_Y 88_D 0.92 0.10 0.00
13_R 104_V 0.91 0.09 0.00
7_Q 154_V 0.91 0.09 0.00
2_S 251_E 0.90 0.09 0.00
27_R 38_P 0.90 0.09 0.00
33_G 34_V 0.89 0.09 0.00
7_Q 122_E 0.89 0.09 0.00
5_A 294_I 0.86 0.09 0.00
32_L 342_L 0.86 0.09 0.00
23_I 281_N 0.86 0.08 0.00
15_A 38_P 0.85 0.08 0.00
7_Q 37_V 0.85 0.08 0.00
3_N 368_I 0.84 0.08 0.00
6_Y 307_S 0.83 0.08 0.00
22_V 107_V 0.83 0.08 0.00
25_K 305_I 0.82 0.08 0.00
6_Y 345_N 0.82 0.08 0.00
6_Y 190_A 0.81 0.08 0.00
7_Q 126_V 0.81 0.08 0.00
22_V 16_N 0.81 0.08 0.00
7_Q 103_Q 0.80 0.07 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
8108 0.17 FtsL2 - FtsA Δgene:(1, 20) A:(1E-04, 8) B:(1E-04, 8) msa: HHblits (2015_06) 0.00 Done - Shared
8103 0.17 FtsL2 - FtsA Δgene:(1, 20) A:(1E-06, 8) B:(1E-06, 8) msa: HHblits (2015_06) 0.00 Done - Shared
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