# R script for Peak Model
#  -- generated by MACS
p <- c(0.0469196014075,0.0546721745453,0.0624247476831,0.0702140628737,0.0780033780643,0.0779666360115,0.0780768621699,0.0781870883283,0.0783707985922,0.0784810247505,0.0786647350145,0.0788851873312,0.0790321555423,0.0792158658063,0.0793628340174,0.0793995760702,0.0793260919646,0.0792893499118,0.0792526078591,0.0792526078591,0.0792526078591,0.0792158658063,0.0792158658063,0.0791791237535,0.0791791237535,0.0792158658063,0.0793628340174,0.0795098022286,0.0796200283869,0.0797302545453,0.0798037386508,0.079950706862,0.0801711591787,0.0801711591787,0.0803181273898,0.0805385797066,0.0806488058649,0.0807222899705,0.0807590320233,0.0808692581816,0.0809427422872,0.0809427422872,0.0809427422872,0.0811631946039,0.0812366787095,0.0812366787095,0.0812366787095,0.0813101628151,0.0814203889734,0.081493873079,0.081493873079,0.0815673571846,0.0816040992373,0.0815673571846,0.081493873079,0.0814571310262,0.0814203889734,0.0813469048678,0.0812734207623,0.0811999366567,0.0811999366567,0.0811631946039,0.0810897104983,0.0810162263928,0.0810162263928,0.0810529684456,0.0811264525511,0.0810897104983,0.0810897104983,0.0810529684456,0.0810162263928,0.0810162263928,0.0810529684456,0.0810897104983,0.0810529684456,0.0810529684456,0.0809060002344,0.0807957740761,0.0805753217593,0.0804283535482,0.0803548694426,0.0802813853371,0.0802446432843,0.0802813853371,0.0803181273898,0.0802446432843,0.0803548694426,0.0803916114954,0.0806120638121,0.0807222899705,0.0807957740761,0.0806855479177,0.0806855479177,0.0806855479177,0.0806120638121,0.0807222899705,0.0807222899705,0.0809427422872,0.0809427422872,0.0810162263928,0.0810162263928,0.0811631946039,0.0811999366567,0.0810897104983,0.0812366787095,0.0812734207623,0.0812734207623,0.0811631946039,0.0811264525511,0.0811264525511,0.0812366787095,0.0813469048678,0.0813101628151,0.0813101628151,0.0812366787095,0.0810162263928,0.08097948434,0.08097948434,0.08097948434,0.0808692581816,0.0807222899705,0.0805385797066,0.0803916114954,0.0802813853371,0.0801344171259,0.0800609330203,0.0798772227564,0.0796935124925,0.0796200283869,0.079436318123,0.0793995760702,0.0792893499118,0.0792893499118,0.0793628340174,0.0793628340174,0.0793628340174,0.079436318123,0.0794730601758,0.0793995760702,0.0794730601758,0.079436318123,0.0795465442813,0.0795832863341,0.0795465442813,0.0795465442813,0.0795832863341,0.0795098022286,0.0795465442813,0.0795832863341,0.0794730601758,0.0793995760702,0.0792526078591,0.0791423817007,0.0791056396479,0.0790688975951,0.0790321555423,0.0790688975951,0.0789954134896,0.078921929384,0.0788851873312,0.0787749611728,0.0787749611728,0.0788484452784,0.0788484452784,0.0788484452784,0.0788851873312,0.078921929384,0.078921929384,0.0790321555423,0.0793628340174,0.0795832863341,0.0798037386508,0.0799874489148,0.0801344171259,0.0802813853371,0.0803181273898,0.0803181273898,0.0802813853371,0.0802079012315,0.0799874489148,0.0798772227564,0.0795832863341,0.0793260919646,0.0791423817007,0.078921929384,0.0787749611728,0.0786279929617,0.0785912509089,0.0784810247505,0.0783340565394,0.0781870883283,0.0781870883283,0.0780768621699,0.0779298939588,0.0779298939588,0.0778564098532,0.077893151906,0.077893151906,0.0778196678004,0.0779298939588,0.0780033780643,0.0780768621699,0.0781503462755,0.0782973144866,0.078407540645,0.0786647350145,0.0787749611728,0.078921929384,0.0792158658063,0.0793628340174,0.0796200283869,0.0798772227564,0.0800976750731,0.0803181273898,0.0804283535482,0.0803916114954,0.0803916114954,0.0804283535482,0.0804283535482,0.080465095601,0.0804283535482,0.0803916114954,0.0804283535482,0.0804283535482,0.0805385797066,0.0806488058649,0.0807957740761,0.0807957740761,0.0808692581816,0.0809427422872,0.0809427422872,0.0809427422872,0.08097948434,0.0810162263928,0.0809427422872,0.0809427422872,0.0808692581816,0.08097948434,0.0809060002344,0.0808325161288,0.0808692581816,0.0807957740761,0.0807590320233,0.0807222899705,0.0806855479177,0.0807590320233,0.0808325161288,0.0807957740761,0.0808692581816,0.0809060002344,0.0808325161288,0.0808692581816,0.0807957740761,0.0807590320233,0.0807590320233,0.0806488058649,0.0805753217593,0.0804283535482,0.0802446432843,0.0799874489148,0.0798037386508,0.0796200283869,0.079436318123,0.0792158658063,0.0790321555423,0.0788484452784,0.0786279929617,0.078407540645,0.0782973144866,0.0783707985922,0.0784810247505,0.0784810247505,0.0784810247505,0.0784442826978,0.078407540645,0.0785177668033,0.07873821912,0.0789954134896,0.0791423817007,0.0792526078591,0.0793628340174,0.0795465442813,0.0797302545453,0.0800976750731,0.0805385797066,0.0807590320233,0.0809427422872,0.0812734207623,0.0816040992373,0.0819715197652,0.0823021982403,0.0826328767153,0.0829635551904,0.0832207495599,0.0833309757183,0.083551428035,0.0837718803517,0.0838453644573,0.0839923326684,0.084065816774,0.0841025588268,0.0842127849851,0.0843597531963,0.0843964952491,0.0844699793546,0.084580205513,0.0846169475658,0.0846904316714,0.0847639157769,0.0848373998825,0.0849108839881,0.0849108839881,0.0848741419353,0.0848741419353,0.084910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m <- 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ycorr <- 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altd  <- c(34, 83, 143, 226, 381, 430, 489, 509, 557, 572)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('40-bZIP1-SRX425878/Root-protoplasts-bZIP1-GR/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) : 34,83,143,226,381,430,489,509,557,572',bty='n')
dev.off()