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IAb_optimizer.html
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232 lines (191 loc) · 4.98 KB
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<!-- This material is considered an ZZ(R) Type II Material and subject to the Terms and Conditions associated. -->
<!-- 9mer3.0 -->
<HTML>
<SCRIPT LANGUAGE="JavaScript">
function fnLookUpValue(int9merPos, Letter) {
var intColumnpOS;
var intArrayPos;
switch (Letter.toUpperCase() ) {
case "A":
intColumnpOS = 1;
break;
case "C":
intColumnpOS = 2;
break;
case "D":
intColumnpOS = 3;
break;
case "E":
intColumnpOS = 4;
break;
case "F":
intColumnpOS = 5;
break;
case "G":
intColumnpOS = 6;
break;
case "H":
intColumnpOS = 7;
break;
case "I":
intColumnpOS = 8;
break;
case "K":
intColumnpOS = 9;
break;
case "L":
intColumnpOS = 10;
break;
case "M":
intColumnpOS = 11;
break;
case "N":
intColumnpOS = 12;
break;
case "P":
intColumnpOS = 13;
break;
case "Q":
intColumnpOS = 14;
break;
case "R":
intColumnpOS = 15;
break;
case "S":
intColumnpOS = 16;
break;
case "T":
intColumnpOS = 17;
break;
case "V":
intColumnpOS = 18;
break;
case "W":
intColumnpOS = 19;
break;
case "Y":
intColumnpOS = 20;
break;
default:
intColumnpOS = 21;
}
return (arrConvertTable [int9merPos * 21 + intColumnpOS - 1]);
}
function fnTestString (strOriginalString){
intCharPos = 0;
while (intValid==1&&intCharPos <= strOriginalString.length - 1)
{
switch ( strOriginalString.charAt(intCharPos) ) {
case "A":
break;
case "C":
break;
case "D":
break;
case "E":
break;
case "F":
break;
case "G":
break;
case "H":
break;
case "I":
break;
case "K":
break;
case "L":
break;
case "M":
break;
case "N":
break;
case "P":
break;
case "Q":
break;
case "R":
break;
case "S":
break;
case "T":
break;
case "V":
break;
case "W":
break;
case "Y":
break;
default:
intValid = 0;
}
intCharPos++;
}
}
arrConvertTable = new Array (3,1,1,0,16,0,1,3,1,4,2,1,0,1,0,0,0,7,4,30,0,2,0,6,8,5,2,7,1,4,5,0,3,1,4,9,8,4,3,1,2,0,9,1,6,4,3,8,1,2,0,3,3,6,6,2,0,9,6,4,1,1,0,13,0,2,0,0,5,0,1,0,2,0,2,30,1,0,12,3,4,0,0,0,1,1,1,5,2,4,4,3,6,6,0,1,1,12,1,8,5,11,2,1,0,16,0,1,0,2,7,0,9,1,2,0,1,21,0,0,3,6,6,0,0,0,9,0,1,7,0,5,6,2,0,10,1,14,0,2,1,7,4,2,2,1,1,0,0,2,8,2,2,2,11,3,8,0,2,4,3,4,8,3,7,0,4,2,9,1,3,6,1,3,2,2,0,6,1,6,0,3,3,6,2,14,0,2,3);
arrMaxvalueTable = new Array (30,9,9,30,12,21,14,11,14);
arrMaxvalueCharTable = new Array ('Y','R','A or S','P','Q','P','N','I','V');
var intValid = 1 ;
var intCharPos = 0 ;
function GetValue( inputstring) {
document.write('<table border = 1>');
document.write('<tr>');
document.write('<td>Sequence number</td>');
document.write('<td>9mer start Pos</td>');
document.write('<td>9mer </td>');
document.write('<td>9mer aa value </td>');
document.write('<td>Possible Max Difference</td>');
document.write('<td>Max Score</td>');
document.write('<td>9 mer position </td>');
document.write('<td>Original aa</td>');
document.write('<td>Target aa</td>');
document.write('</tr>');
var lines = inputstring.split('\n');
for(var l = 0; l < lines.length ;l++){
var strInputString = lines[l].toUpperCase() ;
var ss= / /g;
strInputString = strInputString.replace(ss, '');
if (strInputString.length < 9 ){
alert ('Sequence number ' + Number(l+1) + ' is not a 9 mer or more');
}
else {
fnTestString(strInputString) ;
if ( intValid == 0 ) {
intValid = 1;
alert ('Invalid String... \n9mer ONLY accepts AA sequence,\nyour input may contain B J O U X Z or ! @ # $ % ^ & * ( ) , numbers, line break or other special characters, \nplease check your input at position ' + intCharPos + ' --> ' + strInputString.charAt(intCharPos-1));
}
else {
var i, j, str9mer, int9merValue ;
j = strInputString.length - 8;
for (i = 1; i <= j ; i++) {
var intTempDifference, intLookUpValue, intMaxDifference, intMaxDifferencePos, intCurrentCharIndex , intCurrentPositionmaxValue ;
intMaxDifference = 0;
intMaxDifferencePos = 0;
str9mer = strInputString.substr(i-1, 9);
int9merValue = 0;
for (k = 0; k<9 ; k++){
intLookUpValue = fnLookUpValue( k, str9mer.charAt(k) );
intCurrentPositionmaxValue = arrMaxvalueTable [k];
intTempDifference = intCurrentPositionmaxValue - intLookUpValue ;
if (intTempDifference > intMaxDifference)
{
intMaxDifference = intTempDifference;
intMaxDifferencePos = k;
}
int9merValue = int9merValue + intLookUpValue ;
}
document.write('<tr><td>'+ Number(l+1) + '</td><td>' + i + '</td><td>' + str9mer + '</td><td>' + int9merValue + '</td><td>' + intMaxDifference + '</td><td>' + (int9merValue + intMaxDifference ) + '</td><td>'+ (intMaxDifferencePos + 1) + '</td><td>' + str9mer.charAt(intMaxDifferencePos) + '</td><td>' + arrMaxvalueCharTable[intMaxDifferencePos] +'</td></tr>');
}
}
}
}
document.write('</table>');
}
</SCRIPT>
<BODY>
<FORM NAME="form1">
<B>Input String (size<= 1000) (100x10): </B> <br><textarea cols="100" rows="10" NAME="inputstring" VALUE="" SIZE=1000></textarea>
<INPUT TYPE="button" Value="Get value" onClick="GetValue(inputstring.value)">
</Form>
</BODY>
</HEAD>