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OPENSEQ.org
ACKR3 and Arrestin 2
Genes: A B A+B
Length: 362 409 727
Sequences: 15749 1084 188
Seq/Len: 43.51 2.65 0.26
MirrorTree (Pazo et al. 2001) 0.28
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 0.20 0.02 0.02
2 0.23 0.03 0.02
5 0.25 0.03 0.04
10 0.27 0.03 0.05
20 0.29 0.03 0.07
100 0.33 0.04 0.15
∞ 0.33 0.06 0.24
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
86_L 125_P 1.20 0.22 0.00
86_L 318_I 1.13 0.19 0.00
170_L 226_T 1.09 0.18 0.00
99_V 120_I 1.09 0.18 0.00
116_T 44_V 1.09 0.17 0.00
122_L 58_L 1.03 0.15 0.00
91_L 290_L 1.00 0.14 0.00
83_I 206_K 0.99 0.14 0.00
76_G 145_F 0.99 0.14 0.00
241_A 51_D 0.99 0.14 0.00
61_A 215_L 0.98 0.14 0.00
142_R 213_E 0.97 0.14 0.00
239_I 164_S 0.96 0.13 0.00
261_F 223_N 0.96 0.13 0.00
142_R 223_N 0.96 0.13 0.00
254_I 145_F 0.95 0.13 0.00
90_D 322_Y 0.94 0.12 0.00
174_C 123_N 0.94 0.12 0.00
310_V 19_L 0.93 0.12 0.00
244_D 341_P 0.93 0.12 0.00
62_N 223_N 0.93 0.12 0.00
63_S 120_I 0.92 0.12 0.00
270_V 215_L 0.92 0.12 0.00
62_N 212_G 0.91 0.12 0.00
239_I 232_I 0.89 0.11 0.00
86_L 322_Y 0.89 0.11 0.00
77_Y 280_S 0.88 0.11 0.00
252_K 308_K 0.87 0.11 0.00
87_A 200_L 0.86 0.10 0.00
165_C 145_F 0.86 0.10 0.00
323_R 215_L 0.86 0.10 0.00
90_D 127_S 0.85 0.10 0.00
143_Y 275_I 0.85 0.10 0.00
267_P 215_L 0.85 0.10 0.00
219_L 150_F 0.85 0.10 0.00
149_F 318_I 0.85 0.10 0.00
142_R 209_Y 0.85 0.10 0.00
266_L 58_L 0.84 0.10 0.00
249_S 125_P 0.83 0.10 0.00
67_W 42_V 0.82 0.10 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
6108 0.26 ACKR3 and Arrestin 2 Δgene:(1, ∞) A:(1E-02, 8) B:(1E-02, 8) msa: Jackhmmer (2016_06b) 0.00 Done - Shared
6078 0.02 ACKR3 and Arrestin 2 Δgene:(1, 20) A:(1E-02, 8) B:(1E-02, 8) msa: HHblits (2015_06) Killed - Shared
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