Team:HokkaidoU Japan/Shuffling Kit/Primer Designer

(function(){var i,e,c,a,f,d,h,g,b;a=function(j){switch(j){case"AA":case"TT":return -9.1;case"AT":return -8.6;case"TA":return -6;case"CA":case"TG":return -5.8;case"GT":case"AC":return -6.5;case"CT":case"AG":return -7.8;case"GA":case"TC":return -5.6;case"CG":return -11.9;case"GC":return -11.1;case"GG":case"CC":return -11}};g=function(j){var k,l,n,m;l=0;for(k=n=0,m=j.length-2;0<=m?n<=m:n>=m;k=0<=m?++n:--n){l+=a(j.slice(k,+(k+1)+1||9000000000))}return l};f=function(j){switch(j){case"AA":case"TT":return -24;case"AT":return -23.9;case"TA":return -16.9;case"CA":case"TG":return -12.9;case"GT":case"AC":return -17.3;case"CT":case"AG":return -20.8;case"GA":case"TC":return -13.5;case"CG":return -27.8;case"GC":return -26.7;case"GG":case"CC":return -26.6}};b=function(j){var k,l,n,m;l=0;for(k=n=0,m=j.length-2;0<=m?n<=m:n>=m;k=0<=m?++n:--n){l+=f(j.slice(k,+(k+1)+1||9000000000))}return l};i=function(j){var l,k;l=g(j);k=b(j);return(1000*l/(-10.8+k+1.987*-15.89495209964411))-273.15+16.6*-1.3010299956639813};c=function(k){var m,j,l;if(i(k.slice(0,35))<60){alert("Sequence is too short.")}for(m=l=17;l<=35;m=++l){j=i(k.slice(0,+(m-1)+1||9000000000));if(j>60){if(k[m-1]==="G"||k[m-1]==="C"){break}}}return[k.slice(0,+(m-1)+1||9000000000),j]};e=function(j){switch(j){case"A":return"T";case"T":return"A";case"G":return"C";case"C":return"G"}};h=function(k){var j;return((function(){var o,m,n,l;n=k.split("");l=[];for(o=0,m=n.length;o<m;o++){j=n[o];l.push(e(j))}return l})()).reverse().join("")};d=function(n,j,r){var o,k,m,p,q,l;o=c(r);k=c(h(r));m="TTTGGTCTCT"+n+"T"+o[0];q=o[1];p="TTTGGTCTCA"+n+"A"+k[0];l=k[1];return[m,q,p,l]};$(function(){return $("#primer-designer").submit(function(m){var l,k,p,n,j,o;m.preventDefault();k=$(this);l=k.find("button");l.attr("disabled",true);p=k.find('[name="overhang-f"]').val().toUpperCase();n=k.find('[name="overhang-r"]').val().toUpperCase();o=k.find('[name="sequence"]').val().toUpperCase();j=d(p,h(n),o);$("#primer-f").text(j[0]);$("#tm-f").text(j[1]);$("#primer-r").text(j[2]);$("#tm-r").text(j[3]);return l.attr("disabled",false)})})}).call(this);