# R script for Peak Model
#  -- generated by MACS
p <- c(0.0356499017602,0.0416687163431,0.0469930523203,0.0524910079489,0.0593779207889,0.0586255689661,0.0591464279204,0.0594936672232,0.0585676957489,0.0574102314061,0.0572944849718,0.0580468367946,0.0583940760975,0.0580468367946,0.0576995974918,0.0584519493146,0.0583940760975,0.0585098225318,0.0584519493146,0.0593779207889,0.0589149350518,0.0589149350518,0.0600723993946,0.0610562440861,0.0609983708689,0.0615771030404,0.0620979619947,0.0629660602518,0.0625609477318,0.0619243423432,0.0634869192061,0.0628503138175,0.0617507226918,0.0619243423432,0.0607090047832,0.0605932583489,0.0594357940061,0.0589149350518,0.0594936672232,0.0600145261775,0.0591464279204,0.0586834421832,0.0582204564461,0.0574102314061,0.0587413154004,0.0577574707089,0.0579889635775,0.0572366117546,0.0569472456689,0.0568314992346,0.0563106402803,0.0564842599318,0.0571787385375,0.0575838510575,0.0559634009775,0.0562527670632,0.0563106402803,0.0560212741946,0.0565421331489,0.0564263867146,0.0566000063661,0.0560212741946,0.0556161616746,0.0558476545432,0.0564263867146,0.0572366117546,0.0571208653203,0.0582204564461,0.0583362028804,0.0593200475718,0.0591464279204,0.0594936672232,0.0603038922632,0.0606511315661,0.0611141173032,0.0603617654804,0.0603617654804,0.0600723993946,0.0601302726118,0.0592621743546,0.0602460190461,0.0601881458289,0.0599566529604,0.0600145261775,0.0609404976518,0.0618085959089,0.0616928494747,0.0616928494747,0.0619243423432,0.0618085959089,0.0619243423432,0.0625030745147,0.0626188209489,0.0622137084289,0.0603038922632,0.0596672868746,0.0600145261775,0.0593779207889,0.0585098225318,0.0588570618346,0.0592043011375,0.0587413154004,0.0586255689661,0.0579889635775,0.0576995974918,0.0570051188861,0.0574681046232,0.0578732171432,0.0581047100118,0.0581047100118,0.0573523581889,0.0583362028804,0.0576417242746,0.0575259778403,0.0579889635775,0.0592043011375,0.0588570618346,0.0590306814861,0.0596094136575,0.0594936672232,0.0597830333089,0.0583940760975,0.0583362028804,0.0575259778403,0.0586834421832,0.0572366117546,0.0561948938461,0.0557319081089,0.0552689223718,0.055384668806,0.054979556286,0.0552689223718,0.0558476545432,0.0572944849718,0.0562527670632,0.0567736260175,0.0567157528003,0.0576417242746,0.0578732171432,0.0582204564461,0.0588570618346,0.0589149350518,0.0593200475718,0.0590885547032,0.0588570618346,0.0597251600918,0.0605932583489,0.0607090047832,0.0600723993946,0.0592621743546,0.0584519493146,0.0586255689661,0.0584519493146,0.0589728082689,0.0604196386975,0.0600723993946,0.0596094136575,0.0593779207889,0.0592043011375,0.0596672868746,0.0596672868746,0.0592621743546,0.0590885547032,0.0592043011375,0.0591464279204,0.0592043011375,0.0591464279204,0.0591464279204,0.0605932583489,0.0613456101718,0.0618664691261,0.0621558352118,0.0622715816461,0.0622137084289,0.0618664691261,0.0614613566061,0.0615192298232,0.0615771030404,0.0608247512175,0.0605353851318,0.0612298637375,0.0625609477318,0.0620400887775,0.0620979619947,0.0624452012975,0.0631975531204,0.0639499049432,0.0644128906804,0.0644707638975,0.0647601299832,0.0644128906804,0.063834158509,0.0647601299832,0.065049496069,0.0645865103318,0.0641235245947,0.0637762852918,0.0625030745147,0.0612298637375,0.0600145261775,0.0598409065261,0.0600723993946,0.0607090047832,0.0598409065261,0.0597830333089,0.0600723993946,0.0605932583489,0.0614034833889,0.0630818066861,0.0641235245947,0.0644128906804,0.0641813978118,0.0629660602518,0.0635447924232,0.063834158509,0.064239271029,0.0637762852918,0.0635447924232,0.0634869192061,0.0622715816461,0.0620400887775,0.0620979619947,0.0627345673832,0.0630818066861,0.0629081870347,0.0622715816461,0.0625030745147,0.0620979619947,0.0622715816461,0.0633132995547,0.0630818066861,0.0626188209489,0.0630239334689,0.0630239334689,0.0641235245947,0.0642971442461,0.0645865103318,0.0651652425032,0.0653388621547,0.0660912139775,0.0655703550233,0.0659175943261,0.0647022567661,0.0651652425032,0.0641235245947,0.0653388621547,0.0648180032004,0.065049496069,0.0645865103318,0.0642971442461,0.0652809889375,0.0661490871947,0.0663805800633,0.0661490871947,0.0666120729318,0.0660333407604,0.0660912139775,0.0664384532804,0.0662069604118,0.0659754675433,0.0660333407604,0.0653388621547,0.0651073692861,0.0641235245947,0.0641813978118,0.0634869192061,0.0633132995547,0.0628503138175,0.063834158509,0.0637762852918,0.0637762852918,0.0633711727718,0.0638920317261,0.0648180032004,0.065049496069,0.0655703550233,0.0666120729318,0.0671329318861,0.0664384532804,0.066264833629,0.0652231157204,0.0644707638975,0.0637762852918,0.0632554263375,0.0630239334689,0.0622715816461,0.0616928494747,0.0624452012975,0.0627345673832,0.0627345673832,0.0627924406004,0.0631975531204,0.0637184120747,0.0647022567661,0.0649337496347,0.0652809889375,0.0660912139775,0.0657439746747,0.0659175943261,0.0669014390175,0.0673644247547,0.0693321141376,0.070315958829,0.069505733789,0.0704895784804,0.0713576767376,0.0714734231719,0.0709525642176,0.0717049160404,0.0700844659604,0.0707789445661,0.0703738320461,0.0698529730918,0.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m <- 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ycorr <- 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altd  <- c(108)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('96-LFY-GSE64245/p35S-LFYTERE-rep1-GSM1566966/all.1x36mers.TAIR10.unique.MACS2_model.pdf',height=6,width=6)
plot(x,p,type='l',col=c('red'),main='Peak Model',xlab='Distance to the middle',ylab='Percentage')
lines(x,m,col=c('blue'))
legend('topleft',c('forward tags','reverse tags'),lty=c(1,1,1),col=c('red','blue'))
plot(xcorr,ycorr,type='l',col=c('black'),main='Cross-Correlation',xlab='Lag between + and - tags',ylab='Correlation')
abline(v=altd,lty=2,col=c('red'))
legend('topleft','alternative lag(s)',lty=2,col='red')
legend('right','alt lag(s) : 108',bty='n')
dev.off()