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Keram: a novel stand-alone application for correlated mutations identiication and analysis
Percentage of correlated pairs:
100%|A |R |N |D |C |Q |E |G |H |I |L |K |M |F |P |S |T |W |Y |V |
A |0 |0,15|0,20|0,30|0 |5,12|0,15|0,87|0 |0 |0,71|0,15|0,10|0,56|0,30|0,15|0,56|0 |5,12|0,25|
R |0 |5,12|0,20|0,20|0 |0,10|0,10|0,81|0 |0 |0,71|0,10|0,10|0,56|0,20|0,10|0,51|0 |5,12|0,51|
N |0 |0,15|0,15|0,20|0 |5,12|0,15|0,87|0 |0 |0,56|0,15|5,12|0,66|0,30|0,10|0,56|0 |5,12|0,35|
D |0 |0,15|0,30|0,20|0 |0,10|0,15|0,87|0 |0 |0,71|0,15|0,15|0,66|0,30|0,15|0,71|0 |0,10|0,40|
C |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |
Q |0 |0,10|0,10|0,20|0 |0 |0,10|0,40|0 |0 |0,10|0,10|5,12|0,30|0,20|0,10|0,30|0 |0 |0,15|
E |0 |0,10|0,15|0,15|0 |5,12|5,12|0,56|0 |0 |0,40|0,10|5,12|0,46|0,20|5,12|0,35|0 |5,12|0,25|
G |0 |0,46|0,71|0,71|0 |0,20|0,40|2,10|0 |0 |2,25|0,46|0,25|1,84|0,81|0,40|1,69|0 |0,20|1,38|
H |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |
I |0 |5,12|0,10|0,10|0 |0 |5,12|0,25|0 |0 |0,25|5,12|5,12|0,25|0,10|5,12|0,25|0 |5,12|0,15|
L |0 |0,51|0,61|0,56|0 |5,12|0,51|2,61|0 |0 |1,79|0,51|0,35|1,89|0,97|0,30|1,69|0 |0,15|1,12|
K |0 |0,10|0,20|0,20|0 |0,10|0,10|0,71|0 |0 |0,71|5,12|0,10|0,56|0,20|0,10|0,51|0 |0,10|0,51|
M |0 |5,12|5,12|0,10|0 |5,12|5,12|0,25|0 |0 |0,30|5,12|0 |0,20|0,10|5,12|0,25|0 |5,12|0,10|
F |0 |0,30|0,51|0,46|0 |0,15|0,30|1,63|0 |0 |1,53|0,30|0,20|1,02|0,56|0,25|1,07|0 |0,15|0,92|
P |0 |0,10|0,20|0,20|0 |0,10|0,10|0,71|0 |0 |0,71|0,10|0,10|0,56|0,10|0,10|0,51|0 |0,10|0,46|
S |0 |0,10|0,15|0,10|0 |5,12|0,10|0,56|0 |0 |0,30|0,10|5,12|0,35|0,20|0 |0,35|0 |5,12|0,25|
T |0 |0,35|0,61|0,71|0 |0,10|0,35|2,04|0 |0 |1,89|0,35|0,30|1,48|0,71|0,35|1,38|0 |0,30|1,22|
W |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |
Y |0 |0,15|0,20|0,30|0 |0,10|0,15|0,76|0 |0 |0,81|0,15|0,15|0,61|0,30|0,15|0,76|0 |0,10|0,40|
V |0 |0,30|0,30|0,30|0 |5,12|0,20|1,33|0 |0 |0,97|0,30|0,10|0,92|0,46|0,20|0,92|0 |5,12|0,51|
Fig. 6.
Percentage distribution of correlated mutations within all 400 possible amino acid pairs calculated by Keram
Average variability difference:
1,29|A |R |N |D |C |Q |E |G |H |I |L |K |M |F |P |S |T |W |Y |V |
A |0 |1,33|1,5 |1 |0 |1 |1,33|0,88|0 |0 |0,57|1,33|0,5 |0,54|0,83|0,66|0,54|0 |1 |0,4 |
R |0 |0 |2 |1 |0 |3 |0 |1 |0 |0 |2 |0 |1 |1,81|0,5 |2 |1,2 |0 |1 |2,6 |
N |0 |1,33|2,66|2 |0 |3 |1,33|1,58|0 |0 |2,18|1,33|1 |1,84|1,5 |2 |1,81|0 |1 |2,28|
D |0 |0,66|2 |1,5 |0 |2 |0,66|1 |0 |0 |1,35|0,66|1 |1,46|0,83|1,33|1,07|0 |1 |1,37|
C |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |
Q |0 |2 |2 |1,5 |0 |0 |2 |1,75|0 |0 |0,5 |2 |2 |1 |1,5 |1 |0,66|0 |0 |1 |
E |0 |0,5 |1,66|1 |0 |3 |1 |0,90|0 |0 |1,87|0,5 |1 |1,22|0,5 |2 |1 |0 |1 |2 |
G |0 |1,22|2,07|1,35|0 |2,75|1,25|1,48|0 |0 |1,52|1,22|0,6 |1,36|1,12|1,25|1 |0 |0,75|1,96|
H |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |
I |0 |1 |2 |1 |0 |0 |1 |0,6 |0 |0 |0,8 |1 |0 |0,8 |0,5 |1 |0,2 |0 |0 |1 |
L |0 |2,2 |2,16|1,09|0 |1 |2,2 |1,68|0 |0 |1 |2,2 |1 |1,18|1,73|0,83|1 |0 |1 |1,31|
K |0 |0 |2 |1 |0 |3 |0 |0,92|0 |0 |2 |0 |1 |1,81|0,5 |2 |1,2 |0 |1 |2,6 |
M |0 |1 |1 |1 |0 |2 |1 |0,6 |0 |0 |1 |1 |0 |0,5 |0,5 |1 |0,2 |0 |0 |1 |
F |0 |1,83|2,1 |1,44|0 |2 |1,83|1,34|0 |0 |0,96|1,83|0,5 |1,3 |1,36|1 |0,66|0 |0 |1,5 |
P |0 |0,5 |2 |1 |0 |2,5 |0,5 |0,92|0 |0 |1,5 |0,5 |0,5 |1,36|1 |1,5 |0,7 |0 |0,5 |1,88|
S |0 |1,5 |1,66|1 |0 |1 |1,5 |1,09|0 |0 |0,83|1,5 |1 |0,71|1 |0 |0,71|0 |1 |0,8 |
T |0 |1,42|2 |1,14|0 |1,5 |1,42|1,07|0 |0 |0,81|1,42|0,16|0,75|0,92|0,85|0,44|0 |0,16|1,16|
W |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |
Y |0 |0,33|1,25|1 |0 |3 |0,33|0,66|0 |0 |1,81|0,33|0,66|1,25|0,5 |1,66|0,86|0 |1 |2 |
V |0 |2,66|2,5 |1,33|0 |2 |2,5 |1,96|0 |0 |1,15|2,66|1 |1,5 |1,88|1 |1,22|0 |0 |2 |
Fig. 7.
Average variability variety values for correlated pairs calculated by Keram
Average Threshold:
85,4|A |R |N |D |C |Q |E |G |H |I |L |K |M |F |P |S |T |W |Y |V |
A |0 |87,3|84 |83,6|0 |82 |86,6|84,8|0 |0 |82,5|87,3|83 |84,3|86,3|84 |83,4|0 |82 |84 |
R |0 |94 |88 |90 |0 |82 |94 |88,2|0 |0 |87 |95 |88 |88,5|93,5|91 |88,6|0 |84 |84,4|
N |0 |86,6|82 |86 |0 |80 |85,3|84,2|0 |0 |83,8|86,6|86 |83,6|85 |85 |84,5|0 |84 |83,7|
D |0 |90 |85,3|87 |0 |80 |88 |87,0|0 |0 |84,1|90 |83,3|85,3|88,6|87,3|85,5|0 |83 |84 |
C |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |
Q |0 |83 |82 |82 |0 |0 |83 |83,2|0 |0 |82 |83 |80 |81 |83 |82 |81,3|0 |0 |80,6|
E |0 |88 |85,3|86 |0 |84 |82 |86,1|0 |0 |86 |88 |90 |85,3|87,5|92 |86,2|0 |84 |84,4|
G |0 |88 |85 |86,7|0 |83 |88,5|86 |0 |0 |84,8|88 |87,2|85,9|88,1|86,2|86,2|0 |84,5|83,7|
H |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |
I |0 |90 |86 |88 |0 |0 |88 |87,6|0 |0 |83,2|90 |82 |84,4|88 |86 |85,2|0 |82 |83,3|
L |0 |85,2|83,6|84,7|0 |80 |85 |84,3|0 |0 |83,4|85,2|82,5|84,3|84,8|85,3|84,1|0 |80 |83 |
K |0 |94 |88 |89,5|0 |81 |93 |88,8|0 |0 |86,5|92 |87 |88,1|92,5|90 |89 |0 |84 |84,4|
M |0 |88 |86 |85 |0 |80 |90 |87,2|0 |0 |83 |88 |0 |85,5|89 |88 |84 |0 |82 |83 |
F |0 |88,3|84,6|86,2|0 |80,6|87,6|86,5|0 |0 |85,2|88,3|85,5|85,4|88 |86,8|86,9|0 |82 |84 |
P |0 |94 |87 |90 |0 |83 |94 |89 |0 |0 |86,2|94 |89 |88 |92 |92 |88,4|0 |84 |84,4|
S |0 |86 |83,3|89 |0 |82 |86 |84,7|0 |0 |85,3|86 |88 |85,1|86 |0 |84,8|0 |82 |82,8|
T |0 |88,5|85 |86 |0 |81 |87,4|86,2|0 |0 |84,4|88,5|84 |86,0|87,7|86,2|85,1|0 |81,3|83 |
W |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |0 |
Y |0 |88,6|87 |86,3|0 |80 |88,6|87,7|0 |0 |84,3|88,6|85,3|86,3|88,3|86 |85,3|0 |84 |83,7|
V |0 |84,3|84 |84,3|0 |80 |85 |83,8|0 |0 |83,4|84,3|83 |84 |84,4|83,5|83,4|0 |82 |82 |
Fig. 8.
Average threshold values calculated for each possible pair of amino acids
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