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OPENSEQ.org
D1_GNAI2
Genes: A B A+B
Length: 446 355 743
Sequences: 629 2153 90
Seq/Len: 1.41 6.06 0.12
MirrorTree (Pazo et al. 2001) 0.09
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 0.06 0.01 0.00
2 0.07 0.01 0.00
5 0.08 0.01 0.00
10 0.08 0.02 0.01
20 0.09 0.02 0.02
100 0.11 0.02 0.05
∞ 0.14 0.02 0.11
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
125_I 54_K 1.23 0.14 0.00
32_L 21_K 1.18 0.13 0.00
125_I 36_L 1.12 0.12 0.00
290_I 21_K 1.05 0.10 0.00
157_I 17_K 1.03 0.10 0.00
384_E 284_L 1.00 0.09 0.00
278_M 279_I 0.98 0.09 0.00
331_Y 157_L 0.97 0.09 0.00
381_I 160_L 0.97 0.09 0.00
33_L 61_Y 0.96 0.09 0.00
319_F 151_D 0.96 0.09 0.00
179_L 107_L 0.95 0.09 0.00
264_F 163_I 0.94 0.08 0.00
62_F 147_Y 0.94 0.08 0.00
325_S 163_I 0.94 0.08 0.00
331_Y 55_I 0.94 0.08 0.00
98_I 128_I 0.92 0.08 0.00
331_Y 279_I 0.92 0.08 0.00
200_V 56_I 0.91 0.08 0.00
213_T 247_S 0.91 0.08 0.00
118_S 86_K 0.91 0.08 0.00
294_I 158_N 0.90 0.08 0.00
296_P 334_Q 0.90 0.08 0.00
33_L 284_L 0.90 0.08 0.00
152_V 156_Y 0.89 0.07 0.00
53_H 290_E 0.88 0.07 0.00
338_R 157_L 0.88 0.07 0.00
121_R 21_K 0.87 0.07 0.00
60_N 157_L 0.86 0.07 0.00
21_S 355_F 0.86 0.07 0.00
38_L 61_Y 0.86 0.07 0.00
364_N 298_D 0.85 0.07 0.00
67_A 141_F 0.85 0.07 0.00
345_L 335_F 0.85 0.07 0.00
276_V 77_T 0.84 0.07 0.00
42_T 290_E 0.84 0.07 0.00
101_A 248_M 0.83 0.07 0.00
160_Q 137_V 0.83 0.07 0.00
75_V 24_R 0.83 0.07 0.00
169_T 284_L 0.83 0.07 0.00
66_L 332_N 0.82 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
6137 0.12 D1_GNAI2 Δgene:(1, ∞) A:(1E-02, 8) B:(1E-02, 8) msa: Jackhmmer (2016_06b) 0.00 Done - Shared
6050 0 D1_GI2 Δgene:(1, ∞) A:(1E-02, 8) B:(1E-02, 8) msa: HHblits (2015_06) Killed
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