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cIm_K_4_cytb_4_human
Genes: A B A+B
Length: 98 378 473
Sequences: 6983 4516 3415
Seq/Len: 71.26 11.95 7.22
MirrorTree (Pazo et al. 2001) 0.66
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 0.00 0.00 0.35
2 0.00 0.00 2.78
5 0.00 0.00 5.09
10 0.00 0.00 5.37
20 0.00 0.00 5.49
100 0.01 0.00 5.74
∞ 0.04 0.00 7.17
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
66_F 322_Q 1.01 0.88 0.04
71_A 180_T 0.93 0.81 0.03
29_S 322_Q 0.85 0.72 0.02
96_L 222_P 0.82 0.68 0.02
66_F 160_L 0.80 0.66 0.02
67_A 212_T 0.77 0.61 0.02
9_M 365_L 0.76 0.60 0.02
33_L 232_L 0.75 0.58 0.02
36_M 364_I 0.74 0.57 0.02
35_G 236_I 0.74 0.57 0.02
77_L 190_A 0.73 0.56 0.01
96_L 25_S 0.73 0.56 0.01
67_A 307_L 0.73 0.55 0.01
89_Y 197_L 0.72 0.55 0.01
98_C 56_S 0.71 0.53 0.01
85_Y 176_T 0.71 0.52 0.01
11_A 70_T 0.70 0.51 0.01
17_L 233_L 0.70 0.51 0.01
29_S 10_L 0.70 0.51 0.01
57_N 102_L 0.69 0.50 0.01
77_L 219_T 0.68 0.48 0.01
31_L 274_F 0.68 0.48 0.01
62_A 115_I 0.67 0.47 0.01
77_L 338_I 0.67 0.46 0.01
38_L 257_T 0.66 0.45 0.01
15_S 99_G 0.66 0.45 0.01
90_V 164_I 0.65 0.43 0.01
58_I 156_I 0.65 0.43 0.01
28_S 58_D 0.65 0.43 0.01
76_A 164_I 0.65 0.43 0.01
29_S 180_T 0.64 0.42 0.01
50_N 160_L 0.64 0.41 0.01
11_A 361_T 0.64 0.41 0.01
10_L 45_I 0.64 0.41 0.01
71_A 119_L 0.64 0.41 0.01
23_R 5_R 0.63 0.40 0.01
45_T 361_T 0.63 0.40 0.01
16_L 320_L 0.63 0.40 0.01
90_V 110_S 0.63 0.40 0.01
91_H 254_D 0.63 0.40 0.01
82_S 55_Y 0.63 0.40 0.01
24_S 92_I 0.63 0.40 0.01
97_Q 129_M 0.63 0.40 0.01
43_M 296_L 0.62 0.39 0.01
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
5753 7.43 cIm_K_2_cytb_2_human Δgene:(1, ∞) A:(1E-02, 8) B:(1E-02, 8) msa: Jackhmmer (2016_06b) 0.20 Done - Shared
5751 7.22 cIm_K_4_cytb_4_human Δgene:(1, ∞) A:(1E-04, 8) B:(1E-04, 8) msa: Jackhmmer (2016_06b) 0.04 Done - Shared
5750 0.26 cIm_K_40_cytb_40_human Δgene:(1, ∞) A:(1E-40, 8) B:(1E-40, 8) msa: Jackhmmer (2016_06b) 0.01 Done - Shared
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