1) Prediction of ion-channels

A) Based on amino acid composition by SVM method

RBF kernel g=60; C=100; J=1

Thresold Sensitivity Specificity accuracy ppv mcc

0.3 85.33 80.44 82.89 .81 .66

B) Based on dipeptide composition by SVM method

RBF kernel g=40; C=10; J=1

Thresold Sensitivity Specificity accuracy ppv mcc

0.4 83.56 87.56 85.56 .88 .71

II) Classification of ion Channels

A) Based on amino acid composition by SVM method

RBF kernel g=500; C=10; J=1

Class Sensitivity mcc

Sodium 80.00 .86

Potassium 98.75 .84

Calcium 80.00 .84

Chloride 73.33 .84

B) Based on amino acid composition by SVM method

RBF kernel g=50; C=10; J=1

Class Sensitivity mcc

Sodium 88.00 .91

Potassium 100.00 .95

Calcium 92.00 .93

Chloride 86.67 .91

III) Accuracy at different RI values

Average prediction accuracy obtained at different RI values

RI values	% of sequences	Prediction Accuracy (%)
³1	100	96.89
³2	93.78	99.08
³3	77.78	100.00
³4	46.67	100.00
³5	10.67	100.00