10---chloroplast---NRPE1-ChIP-dms3-mutant-GSM958797	10-organelles-nucleus-merged-k3m2/NRPE1-ChIP-dms3-mutant-GSM958797.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
10---chloroplast---NRPE1-ChIP-drd1-mutant-GSM958796	10-organelles-nucleus-merged-k3m2/NRPE1-ChIP-drd1-mutant-GSM958796.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
10---chloroplast---NRPE1-ChIP-GSM958793	10-organelles-nucleus-merged-k3m2/NRPE1-ChIP-GSM958793.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
10---chloroplast---NRPE1-ChIP-rdm1-mutant-GSM958798	10-organelles-nucleus-merged-k3m2/NRPE1-ChIP-rdm1-mutant-GSM958798.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
10---chloroplast---NRPE1-ChIP-replicate-2-GSM958795	10-organelles-nucleus-merged-k3m2/NRPE1-ChIP-replicate-2-GSM958795.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
11---chloroplast---PIF4-ChIP-Seq-GSM865709	11-organelles-nucleus-merged-k3m2/Col-0-ChIP-Seq-GSM865710.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
11---chloroplast---PIF4-ChIP-Seq-GSM865709	11-organelles-nucleus-merged-k3m2/PIF4-ChIP-Seq-GSM865709.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
12---chloroplast---APETALA3-GFP-AP1-GR-ap1-cal-ChIPseq-GSM940586	12-organelles-nucleus-merged-k3m2/APETALA3-GFP-AP1-GR-ap1-cal-ChIPseq-GSM940586.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
12---chloroplast---APETALA3-GFP-AP1-GR-ap1-cal-ChIPseq-GSM940586	12-organelles-nucleus-merged-k3m2/negative-control-AP1-GR-ap1-cal-GSM940587.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
12---chloroplast---PISTILLATA-GFP-AP1-GR-ap1-cal-ChIPseq-GSM940585	12-organelles-nucleus-merged-k3m2/PISTILLATA-GFP-AP1-GR-ap1-cal-ChIPseq-GSM940585.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
13---chloroplast---REVOLUTA-GSM657970	13-organelles-nucleus-merged-k3m2/REVOLUTA-ctr-GSM657971.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
13---chloroplast---REVOLUTA-GSM657970	13-organelles-nucleus-merged-k3m2/REVOLUTA-GSM657970.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
14---chloroplast---H3.1-dividing-rep1-GSM897702	14-organelles-nucleus-merged-k3m2/H3.1-dividing-rep1-GSM897702.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
14---chloroplast---H3.1-dividing-rep2-GSM897703	14-organelles-nucleus-merged-k3m2/H3.1-dividing-rep2-GSM897703.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
14---chloroplast---H3.1-non-dividing-rep1-GSM897710	14-organelles-nucleus-merged-k3m2/H3.1-non-dividing-rep1-GSM897710.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
14---chloroplast---H3.1-non-dividing-rep2-GSM897713	14-organelles-nucleus-merged-k3m2/H3.1-non-dividing-rep2-GSM897713.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
14---chloroplast---H3.3-dividing-rep1-GSM897700	14-organelles-nucleus-merged-k3m2/H3.3-dividing-rep1-GSM897700.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
14---chloroplast---H3.3-dividing-rep2-GSM897701	14-organelles-nucleus-merged-k3m2/H3.3-dividing-rep2-GSM897701.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
14---chloroplast---H3.3-non-dividing-rep1-GSM897708	14-organelles-nucleus-merged-k3m2/H3.3-non-dividing-rep1-GSM897708.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
14---chloroplast---H3.3-non-dividing-rep2-GSM897709	14-organelles-nucleus-merged-k3m2/H3.3-non-dividing-rep2-GSM897709.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
14---chloroplast---H3-dividing-rep1-GSM897704	14-organelles-nucleus-merged-k3m2/H3-dividing-rep1-GSM897704.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
14---chloroplast---H3-dividing-rep2-GSM897705	14-organelles-nucleus-merged-k3m2/H3-dividing-rep2-GSM897705.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
14---chloroplast---H3-non-dividing-rep1-GSM897714	14-organelles-nucleus-merged-k3m2/H3-non-dividing-rep1-GSM897714.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
14---chloroplast---H3-non-dividing-rep2-GSM897717	14-organelles-nucleus-merged-k3m2/H3-non-dividing-rep2-GSM897717.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
14---chloroplast---IgG-dividing-rep1-GSM897706	14-organelles-nucleus-merged-k3m2/IgG-dividing-rep1-GSM897706.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
14---chloroplast---IgG-dividing-rep2-GSM897707	14-organelles-nucleus-merged-k3m2/IgG-dividing-rep2-GSM897707.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
14---chloroplast---IgG-non-dividing-rep1-GSM897720	14-organelles-nucleus-merged-k3m2/IgG-non-dividing-rep1-GSM897720.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
14---chloroplast---IgG-non-dividing-rep2-GSM897722	14-organelles-nucleus-merged-k3m2/IgG-non-dividing-rep2-GSM897722.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
15---chloroplast---PIF5ox-shade-ChIPSeq-GSM861508	15-organelles-nucleus-merged-k3m2/PIF5ox-input-GSM861509.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
15---chloroplast---PIF5ox-shade-ChIPSeq-GSM861508	15-organelles-nucleus-merged-k3m2/PIF5ox-shade-ChIPSeq-GSM861508.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
16---chloroplast---TOC1_ChIPSeq-GSM878068	16-organelles-nucleus-merged-k3m2/input-DNA-GSM878069.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
16---chloroplast---TOC1_ChIPSeq-GSM878068	16-organelles-nucleus-merged-k3m2/TOC1_ChIPSeq-GSM878068.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
17---chloroplast---HTR13-Myc-ChIP-seq-GSM856055	17-organelles-nucleus-merged-k3m2/HTR13-Myc-ChIP-seq-GSM856055.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
17---chloroplast---HTR5-Myc-ChIP-seq-GSM856054	17-organelles-nucleus-merged-k3m2/HTR5-Myc-ChIP-seq-GSM856054.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
17---chloroplast---HTR13-Myc-ChIP-seq-GSM856055	17-organelles-nucleus-merged-k3m2/input-genomic-DNA-for-HTR13-GSM856057.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
17---chloroplast---HTR5-Myc-ChIP-seq-GSM856054	17-organelles-nucleus-merged-k3m2/input-genomic-DNA-for-HTR5-GSM856056.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
18---chloroplast---FHY3-Dark-GSM761689	18-organelles-nucleus-merged-k3m2/FHY3-Dark-GSM761689.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
18---chloroplast---FHY3-Far-Red-GSM761690	18-organelles-nucleus-merged-k3m2/FHY3-Far-Red-GSM761690.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
19---chloroplast---LEAFY-samp-rep1-GSM605656	19-organelles-nucleus-merged-k3m2/LEAFY-ctrl-rep1-GSM605654.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
19---chloroplast---LEAFY-samp-rep2-GSM605657	19-organelles-nucleus-merged-k3m2/LEAFY-ctrl-rep2-GSM605655.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
19---chloroplast---LEAFY-samp-rep1-GSM605656	19-organelles-nucleus-merged-k3m2/LEAFY-samp-rep1-GSM605656.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
19---chloroplast---LEAFY-samp-rep2-GSM605657	19-organelles-nucleus-merged-k3m2/LEAFY-samp-rep2-GSM605657.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
1---chloroplast---DP103-1-FLMbeta-GFP-GSM1167541	1-organelles-nucleus-merged-k3m2/DP103-1-FLMbeta-GFP-GSM1167541.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
1---chloroplast---DP103-3-FLMbeta-GFP-GSM1167547	1-organelles-nucleus-merged-k3m2/DP103-3-FLMbeta-GFP-GSM1167547.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
1---chloroplast---DP104-1-FLMdelta-GFP-GSM1167543	1-organelles-nucleus-merged-k3m2/DP104-1-FLMdelta-GFP-GSM1167543.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
1---chloroplast---DP104-4-FLMdelta-GFP-GSM1167544	1-organelles-nucleus-merged-k3m2/DP104-4-FLMdelta-GFP-GSM1167544.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
1---chloroplast---DP103-1-FLMbeta-GFP-GSM1167541	1-organelles-nucleus-merged-k3m2/DP96-1-FLMbeta-control-GSM1167540.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
1---chloroplast---DP103-3-FLMbeta-GFP-GSM1167547	1-organelles-nucleus-merged-k3m2/DP96-4-FLMbeta-control-GSM1167546.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
1---chloroplast---DP104-1-FLMdelta-GFP-GSM1167543	1-organelles-nucleus-merged-k3m2/DP97-1-FLMdelta-control-GSM1167542.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
1---chloroplast---DP104-4-FLMdelta-GFP-GSM1167544	1-organelles-nucleus-merged-k3m2/DP97-4-FLMdelta-control-GSM1167545.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
1---chloroplast---gFLM-GFP-replicate-1-DP28-GSM1167551	1-organelles-nucleus-merged-k3m2/FLM-control-3-DP34-GSM1167553.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
1---chloroplast---gFLM-GFP-replicate-2-DP28-GSM1167549	1-organelles-nucleus-merged-k3m2/gFLM-control-1-DP34-GSM1167550.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
1---chloroplast---gFLM-GFP-replicate-3-DP28-GSM1167552	1-organelles-nucleus-merged-k3m2/gFLM-control-2-DP34-GSM1167548.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
1---chloroplast---gFLM-GFP-replicate-1-DP28-GSM1167551	1-organelles-nucleus-merged-k3m2/gFLM-GFP-replicate-1-DP28-GSM1167551.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
1---chloroplast---gFLM-GFP-replicate-2-DP28-GSM1167549	1-organelles-nucleus-merged-k3m2/gFLM-GFP-replicate-2-DP28-GSM1167549.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
1---chloroplast---gFLM-GFP-replicate-3-DP28-GSM1167552	1-organelles-nucleus-merged-k3m2/gFLM-GFP-replicate-3-DP28-GSM1167552.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
20---chloroplast---H3_ChIPseq-GSM554341	20-organelles-nucleus-merged-k3m2/H3_ChIPseq-GSM554341.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
20---chloroplast---H3K4me3_ChIPSeq-GSM554340	20-organelles-nucleus-merged-k3m2/H3K4me3_ChIPSeq-GSM554340.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
20---chloroplast---H3K9ac_ChIPseq-GSM554339	20-organelles-nucleus-merged-k3m2/H3K9ac_ChIPseq-GSM554339.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
21---chloroplast---AMS_ChIPSeq-GSM424618	21-organelles-nucleus-merged-k3m2/AMS_ChIPSeq-GSM424618.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
22---chloroplast---APETALA2-chip_rep1-GSM532325	22-organelles-nucleus-merged-k3m2/APETALA2-chip_rep1-GSM532325.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
22---chloroplast---APETALA2-chip_rep2-GSM532326	22-organelles-nucleus-merged-k3m2/APETALA2-chip_rep2-GSM532326.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
22---chloroplast---APETALA2-chip_rep1-GSM532325	22-organelles-nucleus-merged-k3m2/APETALA2-ctrl_rep1-GSM532327.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
22---chloroplast---APETALA2-chip_rep2-GSM532326	22-organelles-nucleus-merged-k3m2/APETALA2-ctrl_rep2-GSM532328.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
23---chloroplast---APETALA1-GR_2h_induced_sample_1-GSM506208	23-organelles-nucleus-merged-k3m2/APETALA1-GR_2h_induced_sample_1-GSM506208.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
23---chloroplast---APETALA1-GR_2h_induced_sample_2-GSM506209	23-organelles-nucleus-merged-k3m2/APETALA1-GR_2h_induced_sample_2-GSM506209.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
23---chloroplast---APETALA1-GR_2h_induced_sample_1-GSM506208	23-organelles-nucleus-merged-k3m2/APETALA1-GR_uninduced_control_1-GSM506210.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
23---chloroplast---APETALA1-GR_2h_induced_sample_2-GSM506209	23-organelles-nucleus-merged-k3m2/APETALA1-GR_uninduced_control_2-GSM506211.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
24---chloroplast---SEPALLATA3-ChIPSeq_ag_3-GSM364943	24-organelles-nucleus-merged-k3m2/SEPALLATA3-ChIPSeq_ag_3-GSM364943.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
24---chloroplast---SEPALLATA3-ChIPSeq_sep3_3-GSM364941	24-organelles-nucleus-merged-k3m2/SEPALLATA3-ChIPSeq_sep3_3-GSM364941.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
24---chloroplast---SEPALLATA3-ChIPSeq_wt_2-GSM364940	24-organelles-nucleus-merged-k3m2/SEPALLATA3-ChIPSeq_wt_2-GSM364940.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
24---chloroplast---SEPALLATA3-ChIPSeq_wt_3-GSM364942	24-organelles-nucleus-merged-k3m2/SEPALLATA3-ChIPSeq_wt_3-GSM364942.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
2---chloroplast---AGAMOUS-GFP-AP1-GR-ap1-cal-Rep1-GSM1120014	2-organelles-nucleus-merged-k3m2/AGAMOUS-GFP-AP1-GR-ap1-cal-Rep1-GSM1120014.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
2---chloroplast---AGAMOUS-GFP-AP1-GR-ap1-cal-Rep2-GSM1120015	2-organelles-nucleus-merged-k3m2/AGAMOUS-GFP-AP1-GR-ap1-cal-Rep2-GSM1120015.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
2---chloroplast---AGAMOUS-GFP-AP1-GR-ap1-cal-Rep1-GSM1120014	2-organelles-nucleus-merged-k3m2/negative-control-AP1-GR-ap1-cal-Rep1-GSM1120016.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
2---chloroplast---AGAMOUS-GFP-AP1-GR-ap1-cal-Rep2-GSM1120015	2-organelles-nucleus-merged-k3m2/negative-control-AP1-GR-ap1-cal-Rep2-GSM1120017.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
3---chloroplast---NRPD1-Columbia-ChIP-GSM1103230	3-organelles-nucleus-merged-k3m2/NRPD1-Columbia-ChIP-GSM1103230.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
3---chloroplast---NRPD1-Columbia-ChIP-replicate-2-GSM1103232	3-organelles-nucleus-merged-k3m2/NRPD1-Columbia-ChIP-replicate-2-GSM1103232.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
3---chloroplast---NRPD1-shh1-PolIV-ChIP-replicate-2-GSM1103234	3-organelles-nucleus-merged-k3m2/NRPD1-shh1-PolIV-ChIP-replicate-2-GSM1103234.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
3---chloroplast---PolIV-ChIP-GSM1103231	3-organelles-nucleus-merged-k3m2/PolIV-ChIP-GSM1103231.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
3---chloroplast---PolIV-ChIP-replicate-2-GSM1103233	3-organelles-nucleus-merged-k3m2/PolIV-ChIP-replicate-2-GSM1103233.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
4---chloroplast---SHORT_VEGETATIVE_PHASE-Inflorescence_svp_SVP-GFP_rep1-GSM820411	4-organelles-nucleus-merged-k3m2/SHORT_VEGETATIVE_PHASE-Inflorescence_svp_SVP-GFP_rep1-GSM820411.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
4---chloroplast---SHORT_VEGETATIVE_PHASE-Inflorescence_svp_SVP-GFP_rep2-GSM820412	4-organelles-nucleus-merged-k3m2/SHORT_VEGETATIVE_PHASE-Inflorescence_svp_SVP-GFP_rep2-GSM820412.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
4---chloroplast---SHORT_VEGETATIVE_PHASE-Inflorescence_wt-col_rep1-GSM820415	4-organelles-nucleus-merged-k3m2/SHORT_VEGETATIVE_PHASE-Inflorescence_wt-col_rep1-GSM820415.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
4---chloroplast---SHORT_VEGETATIVE_PHASE-Inflorescence_wt-col_rep2-GSM820416	4-organelles-nucleus-merged-k3m2/SHORT_VEGETATIVE_PHASE-Inflorescence_wt-col_rep2-GSM820416.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
4---chloroplast---SHORT_VEGETATIVE_PHASE-seedling_svp_SVP-GFP_rep1-GSM820413	4-organelles-nucleus-merged-k3m2/SHORT_VEGETATIVE_PHASE-seedling_svp_SVP-GFP_rep1-GSM820413.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
4---chloroplast---SHORT_VEGETATIVE_PHASE-seedling_svp_SVP-GFP_rep2-GSM820414	4-organelles-nucleus-merged-k3m2/SHORT_VEGETATIVE_PHASE-seedling_svp_SVP-GFP_rep2-GSM820414.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
5---chloroplast---gSOC1-GFP-replicate-1-GSM1116506	5-organelles-nucleus-merged-k3m2/gSOC1-GFP-replicate-1-GSM1116506.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
5---chloroplast---gSOC1-GFP-replicate-2-GSM1116508	5-organelles-nucleus-merged-k3m2/gSOC1-GFP-replicate-2-GSM1116508.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
5---chloroplast---gSOC1-GFP-replicate-3-GSM1116510	5-organelles-nucleus-merged-k3m2/gSOC1-GFP-replicate-3-GSM1116510.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
5---chloroplast---gSOC1-GFP-replicate-1-GSM1116506	5-organelles-nucleus-merged-k3m2/gSOC1-negative-1-GSM1116505.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
5---chloroplast---gSOC1-GFP-replicate-2-GSM1116508	5-organelles-nucleus-merged-k3m2/gSOC1-negative-2-GSM1116507.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
5---chloroplast---gSOC1-GFP-replicate-3-GSM1116510	5-organelles-nucleus-merged-k3m2/gSOC1-negative-3-GSM1116509.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
6---chloroplast---PIF3-P3M-ChIP-1-GSM958269	6-organelles-nucleus-merged-k3m2/PIF3-P3M-ChIP-1-GSM958269.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
6---chloroplast---PIF3-P3M-ChIP-2-GSM958270	6-organelles-nucleus-merged-k3m2/PIF3-P3M-ChIP-2-GSM958270.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
6---chloroplast---PIF3-P3M-ChIP-3-GSM958271	6-organelles-nucleus-merged-k3m2/PIF3-P3M-ChIP-3-GSM958271.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
6---chloroplast---PIF3-P3M-ChIP-4-GSM958272	6-organelles-nucleus-merged-k3m2/PIF3-P3M-ChIP-4-GSM958272.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
6---chloroplast---PIF3-P3M-ChIP-1-GSM958269	6-organelles-nucleus-merged-k3m2/PIF3-WT-negative-ChIP-1-GSM958273.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
6---chloroplast---PIF3-P3M-ChIP-2-GSM958270	6-organelles-nucleus-merged-k3m2/PIF3-WT-negative-ChIP-2-GSM958274.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
6---chloroplast---PIF3-P3M-ChIP-3-GSM958271	6-organelles-nucleus-merged-k3m2/PIF3-WT-negative-ChIP-3-GSM958275.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
6---chloroplast---PIF3-P3M-ChIP-4-GSM958272	6-organelles-nucleus-merged-k3m2/PIF3-WT-negative-ChIP-4-GSM958276.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
7---chloroplast---nrpe1-H3-rep1-GSM1009230	7-organelles-nucleus-merged-k3m2/Col-0-H3-rep1-GSM1009228.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
7---chloroplast---nrpe1-H3-rep2-GSM1009231	7-organelles-nucleus-merged-k3m2/Col-0-H3-rep2-GSM1009229.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
7---chloroplast---nrpe1-Mnase-GSM941538	7-organelles-nucleus-merged-k3m2/Col-0-Mnase-GSM941537.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
7---chloroplast---nrpe1-H3-rep1-GSM1009230	7-organelles-nucleus-merged-k3m2/nrpe1-H3-rep1-GSM1009230.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
7---chloroplast---nrpe1-H3-rep2-GSM1009231	7-organelles-nucleus-merged-k3m2/nrpe1-H3-rep2-GSM1009231.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
7---chloroplast---nrpe1-Mnase-GSM941538	7-organelles-nucleus-merged-k3m2/nrpe1-Mnase-GSM941538.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
8---chloroplast---CHROMOMETHYLASE3_ChIPseq-GSM956128	8-organelles-nucleus-merged-k3m2/CHROMOMETHYLASE3_ChIPseq-GSM956128.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
8---chloroplast---CHROMOMETHYLASE3_ChIPseq-GSM956128	8-organelles-nucleus-merged-k3m2/Col_ChIPseq-GSM956129.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
9---chloroplast---AGO4-ChIP-GSM867184	9-organelles-nucleus-merged-k3m2/AGO4-ChIP-GSM867184.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
9---chloroplast---AGO4-ChIP-GSM867184	9-organelles-nucleus-merged-k3m2/AGO4-input-GSM867185.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
9---chloroplast---nrpe1_AGO4_ChIP-GSM867186	9-organelles-nucleus-merged-k3m2/nrpe1_AGO4_ChIP-GSM867186.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
9---chloroplast---nrpe1_AGO4_ChIP-GSM867186	9-organelles-nucleus-merged-k3m2/nrpe1_AGO4_ChIP-input-GSM867187.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
9---chloroplast---WT_AGO4-ChIP-GSM867182	9-organelles-nucleus-merged-k3m2/WT_AGO4-ChIP-GSM867182.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
9---chloroplast---WT_AGO4-ChIP-GSM867182	9-organelles-nucleus-merged-k3m2/WT_AGO4-input-GSM867183.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
10---chloroplast---NRPE1-ChIP-dms3-mutant-GSM958797	10-organelles-nucleus-merged-k3m2/NRPE1-ChIP-dms3-mutant-GSM958797.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
10---chloroplast---NRPE1-ChIP-drd1-mutant-GSM958796	10-organelles-nucleus-merged-k3m2/NRPE1-ChIP-drd1-mutant-GSM958796.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
10---chloroplast---NRPE1-ChIP-GSM958793	10-organelles-nucleus-merged-k3m2/NRPE1-ChIP-GSM958793.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
10---chloroplast---NRPE1-ChIP-rdm1-mutant-GSM958798	10-organelles-nucleus-merged-k3m2/NRPE1-ChIP-rdm1-mutant-GSM958798.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
10---chloroplast---NRPE1-ChIP-replicate-2-GSM958795	10-organelles-nucleus-merged-k3m2/NRPE1-ChIP-replicate-2-GSM958795.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
11---chloroplast---PIF4-ChIP-Seq-GSM865709	11-organelles-nucleus-merged-k3m2/Col-0-ChIP-Seq-GSM865710.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
11---chloroplast---PIF4-ChIP-Seq-GSM865709	11-organelles-nucleus-merged-k3m2/PIF4-ChIP-Seq-GSM865709.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
12---chloroplast---APETALA3-GFP-AP1-GR-ap1-cal-ChIPseq-GSM940586	12-organelles-nucleus-merged-k3m2/APETALA3-GFP-AP1-GR-ap1-cal-ChIPseq-GSM940586.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
12---chloroplast---APETALA3-GFP-AP1-GR-ap1-cal-ChIPseq-GSM940586	12-organelles-nucleus-merged-k3m2/negative-control-AP1-GR-ap1-cal-GSM940587.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
12---chloroplast---PISTILLATA-GFP-AP1-GR-ap1-cal-ChIPseq-GSM940585	12-organelles-nucleus-merged-k3m2/PISTILLATA-GFP-AP1-GR-ap1-cal-ChIPseq-GSM940585.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
13---chloroplast---REVOLUTA-GSM657970	13-organelles-nucleus-merged-k3m2/REVOLUTA-ctr-GSM657971.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
13---chloroplast---REVOLUTA-GSM657970	13-organelles-nucleus-merged-k3m2/REVOLUTA-GSM657970.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
14---chloroplast---H3.1-dividing-rep1-GSM897702	14-organelles-nucleus-merged-k3m2/H3.1-dividing-rep1-GSM897702.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
14---chloroplast---H3.1-dividing-rep2-GSM897703	14-organelles-nucleus-merged-k3m2/H3.1-dividing-rep2-GSM897703.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
14---chloroplast---H3.1-non-dividing-rep1-GSM897710	14-organelles-nucleus-merged-k3m2/H3.1-non-dividing-rep1-GSM897710.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
14---chloroplast---H3.1-non-dividing-rep2-GSM897713	14-organelles-nucleus-merged-k3m2/H3.1-non-dividing-rep2-GSM897713.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
14---chloroplast---H3.3-dividing-rep1-GSM897700	14-organelles-nucleus-merged-k3m2/H3.3-dividing-rep1-GSM897700.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
14---chloroplast---H3.3-dividing-rep2-GSM897701	14-organelles-nucleus-merged-k3m2/H3.3-dividing-rep2-GSM897701.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
14---chloroplast---H3.3-non-dividing-rep1-GSM897708	14-organelles-nucleus-merged-k3m2/H3.3-non-dividing-rep1-GSM897708.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
14---chloroplast---H3.3-non-dividing-rep2-GSM897709	14-organelles-nucleus-merged-k3m2/H3.3-non-dividing-rep2-GSM897709.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
14---chloroplast---H3-dividing-rep1-GSM897704	14-organelles-nucleus-merged-k3m2/H3-dividing-rep1-GSM897704.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
14---chloroplast---H3-dividing-rep2-GSM897705	14-organelles-nucleus-merged-k3m2/H3-dividing-rep2-GSM897705.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
14---chloroplast---H3-non-dividing-rep1-GSM897714	14-organelles-nucleus-merged-k3m2/H3-non-dividing-rep1-GSM897714.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
14---chloroplast---H3-non-dividing-rep2-GSM897717	14-organelles-nucleus-merged-k3m2/H3-non-dividing-rep2-GSM897717.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
14---chloroplast---IgG-dividing-rep1-GSM897706	14-organelles-nucleus-merged-k3m2/IgG-dividing-rep1-GSM897706.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
14---chloroplast---IgG-dividing-rep2-GSM897707	14-organelles-nucleus-merged-k3m2/IgG-dividing-rep2-GSM897707.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
14---chloroplast---IgG-non-dividing-rep1-GSM897720	14-organelles-nucleus-merged-k3m2/IgG-non-dividing-rep1-GSM897720.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
14---chloroplast---IgG-non-dividing-rep2-GSM897722	14-organelles-nucleus-merged-k3m2/IgG-non-dividing-rep2-GSM897722.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
15---chloroplast---PIF5ox-shade-ChIPSeq-GSM861508	15-organelles-nucleus-merged-k3m2/PIF5ox-input-GSM861509.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
15---chloroplast---PIF5ox-shade-ChIPSeq-GSM861508	15-organelles-nucleus-merged-k3m2/PIF5ox-shade-ChIPSeq-GSM861508.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
16---chloroplast---TOC1_ChIPSeq-GSM878068	16-organelles-nucleus-merged-k3m2/input-DNA-GSM878069.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
16---chloroplast---TOC1_ChIPSeq-GSM878068	16-organelles-nucleus-merged-k3m2/TOC1_ChIPSeq-GSM878068.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
17---chloroplast---HTR13-Myc-ChIP-seq-GSM856055	17-organelles-nucleus-merged-k3m2/HTR13-Myc-ChIP-seq-GSM856055.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
17---chloroplast---HTR5-Myc-ChIP-seq-GSM856054	17-organelles-nucleus-merged-k3m2/HTR5-Myc-ChIP-seq-GSM856054.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
17---chloroplast---HTR13-Myc-ChIP-seq-GSM856055	17-organelles-nucleus-merged-k3m2/input-genomic-DNA-for-HTR13-GSM856057.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
17---chloroplast---HTR5-Myc-ChIP-seq-GSM856054	17-organelles-nucleus-merged-k3m2/input-genomic-DNA-for-HTR5-GSM856056.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
18---chloroplast---FHY3-Dark-GSM761689	18-organelles-nucleus-merged-k3m2/FHY3-Dark-GSM761689.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
18---chloroplast---FHY3-Far-Red-GSM761690	18-organelles-nucleus-merged-k3m2/FHY3-Far-Red-GSM761690.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
19---chloroplast---LEAFY-samp-rep1-GSM605656	19-organelles-nucleus-merged-k3m2/LEAFY-ctrl-rep1-GSM605654.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
19---chloroplast---LEAFY-samp-rep2-GSM605657	19-organelles-nucleus-merged-k3m2/LEAFY-ctrl-rep2-GSM605655.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
19---chloroplast---LEAFY-samp-rep1-GSM605656	19-organelles-nucleus-merged-k3m2/LEAFY-samp-rep1-GSM605656.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
19---chloroplast---LEAFY-samp-rep2-GSM605657	19-organelles-nucleus-merged-k3m2/LEAFY-samp-rep2-GSM605657.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
1---chloroplast---DP103-1-FLMbeta-GFP-GSM1167541	1-organelles-nucleus-merged-k3m2/DP103-1-FLMbeta-GFP-GSM1167541.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
1---chloroplast---DP103-3-FLMbeta-GFP-GSM1167547	1-organelles-nucleus-merged-k3m2/DP103-3-FLMbeta-GFP-GSM1167547.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
1---chloroplast---DP104-1-FLMdelta-GFP-GSM1167543	1-organelles-nucleus-merged-k3m2/DP104-1-FLMdelta-GFP-GSM1167543.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
1---chloroplast---DP104-4-FLMdelta-GFP-GSM1167544	1-organelles-nucleus-merged-k3m2/DP104-4-FLMdelta-GFP-GSM1167544.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
1---chloroplast---DP103-1-FLMbeta-GFP-GSM1167541	1-organelles-nucleus-merged-k3m2/DP96-1-FLMbeta-control-GSM1167540.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
1---chloroplast---DP103-3-FLMbeta-GFP-GSM1167547	1-organelles-nucleus-merged-k3m2/DP96-4-FLMbeta-control-GSM1167546.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
1---chloroplast---DP104-1-FLMdelta-GFP-GSM1167543	1-organelles-nucleus-merged-k3m2/DP97-1-FLMdelta-control-GSM1167542.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
1---chloroplast---DP104-4-FLMdelta-GFP-GSM1167544	1-organelles-nucleus-merged-k3m2/DP97-4-FLMdelta-control-GSM1167545.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
1---chloroplast---gFLM-GFP-replicate-1-DP28-GSM1167551	1-organelles-nucleus-merged-k3m2/FLM-control-3-DP34-GSM1167553.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
1---chloroplast---gFLM-GFP-replicate-2-DP28-GSM1167549	1-organelles-nucleus-merged-k3m2/gFLM-control-1-DP34-GSM1167550.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
1---chloroplast---gFLM-GFP-replicate-3-DP28-GSM1167552	1-organelles-nucleus-merged-k3m2/gFLM-control-2-DP34-GSM1167548.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
1---chloroplast---gFLM-GFP-replicate-1-DP28-GSM1167551	1-organelles-nucleus-merged-k3m2/gFLM-GFP-replicate-1-DP28-GSM1167551.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
1---chloroplast---gFLM-GFP-replicate-2-DP28-GSM1167549	1-organelles-nucleus-merged-k3m2/gFLM-GFP-replicate-2-DP28-GSM1167549.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
1---chloroplast---gFLM-GFP-replicate-3-DP28-GSM1167552	1-organelles-nucleus-merged-k3m2/gFLM-GFP-replicate-3-DP28-GSM1167552.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
20---chloroplast---H3_ChIPseq-GSM554341	20-organelles-nucleus-merged-k3m2/H3_ChIPseq-GSM554341.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
20---chloroplast---H3K4me3_ChIPSeq-GSM554340	20-organelles-nucleus-merged-k3m2/H3K4me3_ChIPSeq-GSM554340.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
20---chloroplast---H3K9ac_ChIPseq-GSM554339	20-organelles-nucleus-merged-k3m2/H3K9ac_ChIPseq-GSM554339.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
21---chloroplast---AMS_ChIPSeq-GSM424618	21-organelles-nucleus-merged-k3m2/AMS_ChIPSeq-GSM424618.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
22---chloroplast---APETALA2-chip_rep1-GSM532325	22-organelles-nucleus-merged-k3m2/APETALA2-chip_rep1-GSM532325.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
22---chloroplast---APETALA2-chip_rep2-GSM532326	22-organelles-nucleus-merged-k3m2/APETALA2-chip_rep2-GSM532326.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
22---chloroplast---APETALA2-chip_rep1-GSM532325	22-organelles-nucleus-merged-k3m2/APETALA2-ctrl_rep1-GSM532327.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
22---chloroplast---APETALA2-chip_rep2-GSM532326	22-organelles-nucleus-merged-k3m2/APETALA2-ctrl_rep2-GSM532328.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
23---chloroplast---APETALA1-GR_2h_induced_sample_1-GSM506208	23-organelles-nucleus-merged-k3m2/APETALA1-GR_2h_induced_sample_1-GSM506208.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
23---chloroplast---APETALA1-GR_2h_induced_sample_2-GSM506209	23-organelles-nucleus-merged-k3m2/APETALA1-GR_2h_induced_sample_2-GSM506209.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
23---chloroplast---APETALA1-GR_2h_induced_sample_1-GSM506208	23-organelles-nucleus-merged-k3m2/APETALA1-GR_uninduced_control_1-GSM506210.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
23---chloroplast---APETALA1-GR_2h_induced_sample_2-GSM506209	23-organelles-nucleus-merged-k3m2/APETALA1-GR_uninduced_control_2-GSM506211.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
24---chloroplast---SEPALLATA3-ChIPSeq_ag_3-GSM364943	24-organelles-nucleus-merged-k3m2/SEPALLATA3-ChIPSeq_ag_3-GSM364943.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
24---chloroplast---SEPALLATA3-ChIPSeq_sep3_3-GSM364941	24-organelles-nucleus-merged-k3m2/SEPALLATA3-ChIPSeq_sep3_3-GSM364941.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
24---chloroplast---SEPALLATA3-ChIPSeq_wt_2-GSM364940	24-organelles-nucleus-merged-k3m2/SEPALLATA3-ChIPSeq_wt_2-GSM364940.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
24---chloroplast---SEPALLATA3-ChIPSeq_wt_3-GSM364942	24-organelles-nucleus-merged-k3m2/SEPALLATA3-ChIPSeq_wt_3-GSM364942.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
2---chloroplast---AGAMOUS-GFP-AP1-GR-ap1-cal-Rep1-GSM1120014	2-organelles-nucleus-merged-k3m2/AGAMOUS-GFP-AP1-GR-ap1-cal-Rep1-GSM1120014.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
2---chloroplast---AGAMOUS-GFP-AP1-GR-ap1-cal-Rep2-GSM1120015	2-organelles-nucleus-merged-k3m2/AGAMOUS-GFP-AP1-GR-ap1-cal-Rep2-GSM1120015.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
2---chloroplast---AGAMOUS-GFP-AP1-GR-ap1-cal-Rep1-GSM1120014	2-organelles-nucleus-merged-k3m2/negative-control-AP1-GR-ap1-cal-Rep1-GSM1120016.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
2---chloroplast---AGAMOUS-GFP-AP1-GR-ap1-cal-Rep2-GSM1120015	2-organelles-nucleus-merged-k3m2/negative-control-AP1-GR-ap1-cal-Rep2-GSM1120017.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
3---chloroplast---NRPD1-Columbia-ChIP-GSM1103230	3-organelles-nucleus-merged-k3m2/NRPD1-Columbia-ChIP-GSM1103230.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
3---chloroplast---NRPD1-Columbia-ChIP-replicate-2-GSM1103232	3-organelles-nucleus-merged-k3m2/NRPD1-Columbia-ChIP-replicate-2-GSM1103232.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
3---chloroplast---NRPD1-shh1-PolIV-ChIP-replicate-2-GSM1103234	3-organelles-nucleus-merged-k3m2/NRPD1-shh1-PolIV-ChIP-replicate-2-GSM1103234.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
3---chloroplast---PolIV-ChIP-GSM1103231	3-organelles-nucleus-merged-k3m2/PolIV-ChIP-GSM1103231.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
3---chloroplast---PolIV-ChIP-replicate-2-GSM1103233	3-organelles-nucleus-merged-k3m2/PolIV-ChIP-replicate-2-GSM1103233.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
4---chloroplast---SHORT_VEGETATIVE_PHASE-Inflorescence_svp_SVP-GFP_rep1-GSM820411	4-organelles-nucleus-merged-k3m2/SHORT_VEGETATIVE_PHASE-Inflorescence_svp_SVP-GFP_rep1-GSM820411.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
4---chloroplast---SHORT_VEGETATIVE_PHASE-Inflorescence_svp_SVP-GFP_rep2-GSM820412	4-organelles-nucleus-merged-k3m2/SHORT_VEGETATIVE_PHASE-Inflorescence_svp_SVP-GFP_rep2-GSM820412.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
4---chloroplast---SHORT_VEGETATIVE_PHASE-Inflorescence_wt-col_rep1-GSM820415	4-organelles-nucleus-merged-k3m2/SHORT_VEGETATIVE_PHASE-Inflorescence_wt-col_rep1-GSM820415.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
4---chloroplast---SHORT_VEGETATIVE_PHASE-Inflorescence_wt-col_rep2-GSM820416	4-organelles-nucleus-merged-k3m2/SHORT_VEGETATIVE_PHASE-Inflorescence_wt-col_rep2-GSM820416.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
4---chloroplast---SHORT_VEGETATIVE_PHASE-seedling_svp_SVP-GFP_rep1-GSM820413	4-organelles-nucleus-merged-k3m2/SHORT_VEGETATIVE_PHASE-seedling_svp_SVP-GFP_rep1-GSM820413.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
4---chloroplast---SHORT_VEGETATIVE_PHASE-seedling_svp_SVP-GFP_rep2-GSM820414	4-organelles-nucleus-merged-k3m2/SHORT_VEGETATIVE_PHASE-seedling_svp_SVP-GFP_rep2-GSM820414.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
5---chloroplast---gSOC1-GFP-replicate-1-GSM1116506	5-organelles-nucleus-merged-k3m2/gSOC1-GFP-replicate-1-GSM1116506.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
5---chloroplast---gSOC1-GFP-replicate-2-GSM1116508	5-organelles-nucleus-merged-k3m2/gSOC1-GFP-replicate-2-GSM1116508.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
5---chloroplast---gSOC1-GFP-replicate-3-GSM1116510	5-organelles-nucleus-merged-k3m2/gSOC1-GFP-replicate-3-GSM1116510.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
5---chloroplast---gSOC1-GFP-replicate-1-GSM1116506	5-organelles-nucleus-merged-k3m2/gSOC1-negative-1-GSM1116505.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
5---chloroplast---gSOC1-GFP-replicate-2-GSM1116508	5-organelles-nucleus-merged-k3m2/gSOC1-negative-2-GSM1116507.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
5---chloroplast---gSOC1-GFP-replicate-3-GSM1116510	5-organelles-nucleus-merged-k3m2/gSOC1-negative-3-GSM1116509.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
6---chloroplast---PIF3-P3M-ChIP-1-GSM958269	6-organelles-nucleus-merged-k3m2/PIF3-P3M-ChIP-1-GSM958269.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
6---chloroplast---PIF3-P3M-ChIP-2-GSM958270	6-organelles-nucleus-merged-k3m2/PIF3-P3M-ChIP-2-GSM958270.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
6---chloroplast---PIF3-P3M-ChIP-3-GSM958271	6-organelles-nucleus-merged-k3m2/PIF3-P3M-ChIP-3-GSM958271.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
6---chloroplast---PIF3-P3M-ChIP-4-GSM958272	6-organelles-nucleus-merged-k3m2/PIF3-P3M-ChIP-4-GSM958272.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
6---chloroplast---PIF3-P3M-ChIP-1-GSM958269	6-organelles-nucleus-merged-k3m2/PIF3-WT-negative-ChIP-1-GSM958273.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
6---chloroplast---PIF3-P3M-ChIP-2-GSM958270	6-organelles-nucleus-merged-k3m2/PIF3-WT-negative-ChIP-2-GSM958274.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
6---chloroplast---PIF3-P3M-ChIP-3-GSM958271	6-organelles-nucleus-merged-k3m2/PIF3-WT-negative-ChIP-3-GSM958275.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
6---chloroplast---PIF3-P3M-ChIP-4-GSM958272	6-organelles-nucleus-merged-k3m2/PIF3-WT-negative-ChIP-4-GSM958276.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
7---chloroplast---nrpe1-H3-rep1-GSM1009230	7-organelles-nucleus-merged-k3m2/Col-0-H3-rep1-GSM1009228.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
7---chloroplast---nrpe1-H3-rep2-GSM1009231	7-organelles-nucleus-merged-k3m2/Col-0-H3-rep2-GSM1009229.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
7---chloroplast---nrpe1-Mnase-GSM941538	7-organelles-nucleus-merged-k3m2/Col-0-Mnase-GSM941537.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
7---chloroplast---nrpe1-H3-rep1-GSM1009230	7-organelles-nucleus-merged-k3m2/nrpe1-H3-rep1-GSM1009230.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
7---chloroplast---nrpe1-H3-rep2-GSM1009231	7-organelles-nucleus-merged-k3m2/nrpe1-H3-rep2-GSM1009231.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
7---chloroplast---nrpe1-Mnase-GSM941538	7-organelles-nucleus-merged-k3m2/nrpe1-Mnase-GSM941538.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
8---chloroplast---CHROMOMETHYLASE3_ChIPseq-GSM956128	8-organelles-nucleus-merged-k3m2/CHROMOMETHYLASE3_ChIPseq-GSM956128.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
8---chloroplast---CHROMOMETHYLASE3_ChIPseq-GSM956128	8-organelles-nucleus-merged-k3m2/Col_ChIPseq-GSM956129.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
9---chloroplast---AGO4-ChIP-GSM867184	9-organelles-nucleus-merged-k3m2/AGO4-ChIP-GSM867184.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
9---chloroplast---AGO4-ChIP-GSM867184	9-organelles-nucleus-merged-k3m2/AGO4-input-GSM867185.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
9---chloroplast---nrpe1_AGO4_ChIP-GSM867186	9-organelles-nucleus-merged-k3m2/nrpe1_AGO4_ChIP-GSM867186.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
9---chloroplast---nrpe1_AGO4_ChIP-GSM867186	9-organelles-nucleus-merged-k3m2/nrpe1_AGO4_ChIP-input-GSM867187.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
9---chloroplast---WT_AGO4-ChIP-GSM867182	9-organelles-nucleus-merged-k3m2/WT_AGO4-ChIP-GSM867182.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
9---chloroplast---WT_AGO4-ChIP-GSM867182	9-organelles-nucleus-merged-k3m2/WT_AGO4-input-GSM867183.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
25---chloroplast---KAN1-FLAG-replicate-1	25-organelles-nucleus-merged-k3m2/KAN1-FLAG-replicate-1.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
25---chloroplast---KAN1-FLAG-replicate-1	25-organelles-nucleus-merged-k3m2/KAN1-negative-1-GSM1167536.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
25---chloroplast---KAN1-FLAG-replicate-1	25-organelles-nucleus-merged-k3m2/KAN1-FLAG-replicate-1.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
25---chloroplast---KAN1-FLAG-replicate-1	25-organelles-nucleus-merged-k3m2/KAN1-negative-1-GSM1167536.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+
25---chloroplast---KAN1-FLAG-replicate-2	25-organelles-nucleus-merged-k3m2/KAN1-FLAG-replicate-2-GSM1167539.36mers.chloroplast.minus.RPM.wig	black	yellow	0.62r	0.67r	-
25---chloroplast---KAN1-FLAG-replicate-2	25-organelles-nucleus-merged-k3m2/KAN1-negative-2-GSM1167538.36mers.chloroplast.minus.RPM.wig	black	yellow	0.52r	0.57r	-
25---chloroplast---KAN1-FLAG-replicate-2	25-organelles-nucleus-merged-k3m2/KAN1-FLAG-replicate-2-GSM1167539.36mers.chloroplast.plus.RPM.wig	black	yellow	0.67r	0.72r	+
25---chloroplast---KAN1-FLAG-replicate-2	25-organelles-nucleus-merged-k3m2/KAN1-negative-2-GSM1167538.36mers.chloroplast.plus.RPM.wig	black	yellow	0.57r	0.62r	+