data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/BrowserOutput.java:220: similiar ==> similar
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:86: effeciency ==> efficiency
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:92: effeciency ==> efficiency
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:189: indicies ==> indices
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:224: indicies ==> indices
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:342: inital ==> initial
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:580: indicies ==> indices
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:624: indicies ==> indices
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:1775: inital ==> initial
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:1784: initalize ==> initialize
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:1790: initalize ==> initialize
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:1793: initalize ==> initialize
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:1813: indicies ==> indices
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:2100: initally ==> initially
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:2289: inital ==> initial
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:2360: inital ==> initial
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:2369: initalize ==> initialize
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:2375: initalize ==> initialize
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:2378: initalize ==> initialize
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:2534: initally ==> initially
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:2723: inital ==> initial
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:2813: initalize ==> initialize
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:2819: initalize ==> initialize
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:2822: initalize ==> initialize
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:2829: indicies ==> indices
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:2853: indicies ==> indices
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:2935: elminated ==> eliminated
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:2940: indicies ==> indices
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:2971: inital ==> initial
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:3018: indicies ==> indices
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:3045: indicies ==> indices
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:3899: indicies ==> indices
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:4852: indicies ==> indices
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:7664: indicies ==> indices
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:8198: enought ==> enough
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:8293: indicies ==> indices
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:8406: inital ==> initial
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:9099: enought ==> enough
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:9190: indicies ==> indices
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:9303: inital ==> initial
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:9882: enought ==> enough
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:9969: indicies ==> indices
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:10744: enought ==> enough
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:10840: indicies ==> indices
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:11117: indicies ==> indices
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/ChromHMM.java:11929: inital ==> initial
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/NestedEliminateInitialize.java:263: nd ==> and, 2nd
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/NestedEliminateInitialize.java:263: nd ==> and, 2nd
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/NestedEliminateInitialize.java:263: nd ==> and, 2nd
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/NestedEliminateInitialize.java:266: nd ==> and, 2nd
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/NestedEliminateInitialize.java:320: inital ==> initial
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/NestedEliminateInitialize.java:385: outputing ==> outputting
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/Preprocessing.java:81: acutal ==> actual
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/Preprocessing.java:95: initalizes ==> initializes
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/Preprocessing.java:344: indicies ==> indices
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/Preprocessing.java:955: similiar ==> similar
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/Preprocessing.java:2242: indicies ==> indices
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/Preprocessing.java:2243: indicies ==> indices
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/Preprocessing.java:2374: indicies ==> indices
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/Preprocessing.java:2544: indicies ==> indices
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/Preprocessing.java:3139: indicies ==> indices
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/Preprocessing.java:3216: determing ==> determining, determine
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/Preprocessing.java:3599: startin ==> starting
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/StateAnalysis.java:37: assigment ==> assignment
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/StateAnalysis.java:352: occured ==> occurred
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/StateAnalysis.java:2122: indicies ==> indices
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/StateAnalysis.java:2193: substract ==> subtract
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/StateAnalysis.java:2252: substract ==> subtract
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/StateAnalysis.java:2410: substract ==> subtract
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/StateAnalysis.java:2594: substract ==> subtract
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/StateAnalysis.java:2650: substract ==> subtract
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/StateAnalysis.java:2907: substract ==> subtract
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/StateAnalysis.java:2936: initalize ==> initialize
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/StateAnalysis.java:3140: substract ==> subtract
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/StateAnalysis.java:3168: initalize ==> initialize
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/StateAnalysis.java:3361: outputing ==> outputting
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/StateAnalysis.java:3421: elminating ==> eliminating
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/StateAnalysis.java:3480: outputing ==> outputting
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/StateAnalysis.java:3564: elminating ==> eliminating
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/StateAnalysis.java:3671: substracts ==> subtracts
data/chromhmm-1.21+dfsg/edu/mit/compbio/ChromHMM/StateAnalysis.java:3673: indext ==> index, indent