    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.bbl:3: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.bbl:9: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.bbl:21: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.bbl:27: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.bbl:33: BRE ==> BE, BRIE
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    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual.tex:61: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual.tex:64: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual.tex:65: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual.tex:69: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual.tex:70: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual.tex:70: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual.tex:583: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual.tex:585: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual.tex:1293: BRE ==> BE, BRIE
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    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.aux:21: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.aux:22: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.aux:23: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.aux:24: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.aux:25: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.aux:36: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.aux:37: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.aux:49: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.aux:50: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.aux:94: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.aux:159: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.aux:160: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.aux:174: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.aux:175: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.aux:176: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/biblio.sty:13: exand ==> expand
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/biblio.sty:29: MYE ==> MAY, MY
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/command.sty:336: alph ==> alpha
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/command.sty:337: alph ==> alpha
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthextractfasta.txt:11: imput ==> input
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.log:1049: OT ==> TO, OF, OR
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthsplit.txt:16: precentage ==> percentage
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/LocalDefs.sty:108: TE ==> THE, BE, WE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.tex:61: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.tex:64: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.tex:65: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.tex:69: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.tex:70: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.tex:70: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.tex:583: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.tex:585: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/gthmanual-tmp.tex:1293: BRE ==> BE, BRIE
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/figures/statesandtransitions.eps:83: ReEncode ==> re-encode
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/figures/statesandtransitions.eps:120: ReEncode ==> re-encode
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/pics/dataflow.ps:38: nd ==> and, 2nd
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/pics/dataflow.ps:44: nd ==> and, 2nd
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/pics/dataflow.ps:45: nd ==> and, 2nd
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/pics/dataflow.ps:45: nd ==> and, 2nd
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/pics/dataflow.ps:45: nd ==> and, 2nd
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/pics/dataflow.ps:45: nd ==> and, 2nd
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/pics/dataflow.ps:46: nd ==> and, 2nd
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/pics/dataflow.ps:46: nd ==> and, 2nd
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/pics/dataflow.ps:268: alignmen ==> alignment
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/pics/dataflow.ps:270: alignmen ==> alignment
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/pics/dataflow.ps:272: alignmen ==> alignment
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/pics/dataflow.ps:275: alignmen ==> alignment
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/pics/dataflow.ps:276: alignmen ==> alignment
    data/genomethreader-1.7.3+dfsg/doc/gthmanual/pics/dataflow.ps:279: alignmen ==> alignment
    data/genomethreader-1.7.3+dfsg/scripts/gthcleanrec.sh:24: ois ==> is
    data/genomethreader-1.7.3+dfsg/scripts/gthclean.sh:24: ois ==> is
    data/genomethreader-1.7.3+dfsg/src/gth/bssm_seq_processor.c:434: creat ==> create
    data/genomethreader-1.7.3+dfsg/src/gth/sa_visitor.c:23: sav ==> save
    data/genomethreader-1.7.3+dfsg/src/gth/sa_visitor.c:25: sav ==> save
    data/genomethreader-1.7.3+dfsg/src/gth/sa_visitor.c:27: sav ==> save
    data/genomethreader-1.7.3+dfsg/src/gth/sa_visitor.c:31: sav ==> save
    data/genomethreader-1.7.3+dfsg/src/gth/sa_visitor.c:33: sav ==> save
    data/genomethreader-1.7.3+dfsg/src/gth/sa_visitor.c:34: sav ==> save
    data/genomethreader-1.7.3+dfsg/src/gth/sa_visitor.c:37: sav ==> save
    data/genomethreader-1.7.3+dfsg/src/gth/sa_visitor.c:39: sav ==> save
    data/genomethreader-1.7.3+dfsg/src/gth/sa_visitor.c:41: sav ==> save
    data/genomethreader-1.7.3+dfsg/src/gth/sa_visitor.c:44: sav ==> save
    data/genomethreader-1.7.3+dfsg/src/gth/sa_visitor.c:46: sav ==> save
    data/genomethreader-1.7.3+dfsg/src/gth/sa_visitor.c:47: sav ==> save
    data/genomethreader-1.7.3+dfsg/src/gth/sa_visitor.c:50: sav ==> save
    data/genomethreader-1.7.3+dfsg/src/gth/sa_visitor.c:52: sav ==> save
    data/genomethreader-1.7.3+dfsg/src/gth/sa_visitor.c:54: sav ==> save
    data/genomethreader-1.7.3+dfsg/src/gth/sa_visitor.c:57: sav ==> save
    data/genomethreader-1.7.3+dfsg/src/gth/sa_visitor.c:59: sav ==> save
    data/genomethreader-1.7.3+dfsg/src/gth/sa_visitor.c:62: sav ==> save
    data/genomethreader-1.7.3+dfsg/src/gth/sa_visitor.c:63: sav ==> save
    data/genomethreader-1.7.3+dfsg/src/gth/align_protein.c:662: funtioning ==> functioning
    data/genomethreader-1.7.3+dfsg/src/gth/sa_cmp.c:37: refering ==> referring
    data/genomethreader-1.7.3+dfsg/src/gth/sa_cmp.c:60: refering ==> referring
    data/genomethreader-1.7.3+dfsg/src/gth/sa.h:126: foward ==> forward
    data/genomethreader-1.7.3+dfsg/src/gth/sa.h:131: foward ==> forward
    data/genomethreader-1.7.3+dfsg/src/gth/gthchain.c:31: orginal ==> original
    data/genomethreader-1.7.3+dfsg/src/gth/gthchain.c:31: postions ==> positions
    data/genomethreader-1.7.3+dfsg/src/gth/input.h:176: paramter ==> parameter
    data/genomethreader-1.7.3+dfsg/src/gth/input.h:180: paramter ==> parameter
    data/genomethreader-1.7.3+dfsg/src/gth/intermediate.c:164: checkes ==> checks
    data/genomethreader-1.7.3+dfsg/src/gth/intermediate.c:166: refering ==> referring
    data/genomethreader-1.7.3+dfsg/src/gth/intermediate.c:460: charachter ==> character
    data/genomethreader-1.7.3+dfsg/src/gth/run_header.c:77: wich ==> which
    data/genomethreader-1.7.3+dfsg/src/gth/sa.c:77: usefull ==> useful
    data/genomethreader-1.7.3+dfsg/src/gth/gthchain.h:38: refering ==> referring
    data/genomethreader-1.7.3+dfsg/src/gth/gthchain.h:39: refering ==> referring
    data/genomethreader-1.7.3+dfsg/src/gth/editoperation.h:61: wich ==> which
    data/genomethreader-1.7.3+dfsg/src/gth/dp_options_postpro.h:23: paramters ==> parameters
    data/genomethreader-1.7.3+dfsg/src/gth/backtrace_path.h:38: ususally ==> usually
    data/genomethreader-1.7.3+dfsg/src/gth/gthalignment.c:991: emtpy ==> empty
    data/genomethreader-1.7.3+dfsg/src/gth/gthalignment.c:1261: lenght ==> length
    data/genomethreader-1.7.3+dfsg/src/gth/gthalignment.c:1329: formated ==> formatted
    data/genomethreader-1.7.3+dfsg/src/gth/chaining.c:215: consequtive ==> consecutive
    data/genomethreader-1.7.3+dfsg/src/gth/dp_param.c:430: evalutate ==> evaluate
    data/genomethreader-1.7.3+dfsg/src/gth/intermediate.h:24: impelement ==> implement
    data/genomethreader-1.7.3+dfsg/src/gth/gthorf.c:35: refering ==> referring
    data/genomethreader-1.7.3+dfsg/src/gth/ags_build.c:399: probabilites ==> probabilities
    data/genomethreader-1.7.3+dfsg/src/gth/parse_options.c:40: errror ==> error
    data/genomethreader-1.7.3+dfsg/src/gth/parse_options.c:694: nin ==> inn, min, bin, nine
    data/genomethreader-1.7.3+dfsg/src/gth/parse_options.c:1072: nin ==> inn, min, bin, nine
    data/genomethreader-1.7.3+dfsg/src/gth/gthoutput.h:31: beginnig ==> beginning
    data/genomethreader-1.7.3+dfsg/src/gth/gthoutput.h:84: completly ==> completely
    data/genomethreader-1.7.3+dfsg/src/gth/compute_scores.c:59: probabilty ==> probability
    data/genomethreader-1.7.3+dfsg/src/gth/compute_scores.c:161: probabilty ==> probability
    data/genomethreader-1.7.3+dfsg/src/gth/compute_scores.c:343: arbirtarily ==> arbitrarily
    data/genomethreader-1.7.3+dfsg/src/gth/compute_scores.c:380: arbirtarily ==> arbitrarily
    data/genomethreader-1.7.3+dfsg/src/gth/bssm_param_hard_coded.h:32851: intialization ==> initialization
    data/genomethreader-1.7.3+dfsg/src/libgenomethreader/seq_con_multiseq.c:56: ois ==> is
    data/genomethreader-1.7.3+dfsg/src/libgenomethreader/gthmkvtree.c:228: constructred ==> constructed
    data/genomethreader-1.7.3+dfsg/src/libgenomethreader/gthpre.c:462: determing ==> determining, determine
    data/genomethreader-1.7.3+dfsg/testsuite/gth_include.rb:161: ois ==> is
    data/genomethreader-1.7.3+dfsg/testsuite/gth_include.rb:171: ois ==> is
    data/genomethreader-1.7.3+dfsg/testsuite/gth_include.rb:182: ois ==> is
    data/genomethreader-1.7.3+dfsg/testsuite/gth_include.rb:192: ois ==> is
    data/genomethreader-1.7.3+dfsg/testsuite/gth_include.rb:429: upto ==> up to
    data/genomethreader-1.7.3+dfsg/.pc/gt-path-fix.patch/testsuite/gth_include.rb:161: ois ==> is
    data/genomethreader-1.7.3+dfsg/.pc/gt-path-fix.patch/testsuite/gth_include.rb:171: ois ==> is
    data/genomethreader-1.7.3+dfsg/.pc/gt-path-fix.patch/testsuite/gth_include.rb:182: ois ==> is
    data/genomethreader-1.7.3+dfsg/.pc/gt-path-fix.patch/testsuite/gth_include.rb:192: ois ==> is
    data/genomethreader-1.7.3+dfsg/.pc/gt-path-fix.patch/testsuite/gth_include.rb:429: upto ==> up to
    data/genomethreader-1.7.3+dfsg/.pc/search-paths.patch/src/libgenomethreader/gthmkvtree.c:252: constructred ==> constructed
    data/genomethreader-1.7.3+dfsg/.pc/search-paths.patch/src/libgenomethreader/gthpre.c:488: determing ==> determining, determine