chr	start	stop	CF	MA.D_sorted.bam.counts	HA.D_sorted.bam.counts	MA.D_sorted.bam.rpkm	HA.D_sorted.bam.rpkm	MA.D_sorted.bam.rms	HA.D_sorted.bam.rms	MSets1.counts.mean	MSets1.rpkm.mean	MSets1.rms.mean	MSets2.counts.mean	MSets2.rpkm.mean	MSets2.rms.mean	edgeR.logFC	edgeR.logCPM	edgeR.p.value	edgeR.adj.p.value
chr12	1	1000000	44470	6000	8198	0.23	0.18	1	1	6000	0.23	1	8198	0.18	1	0.288457764935897	13.3278342265085	2.24347318107785e-19	1.39095337226827e-17
chr12	1000001	2000000	51354	5237	6895	0.2	0.15	1	1	5237	0.2	1	6895	0.15	1	0.341955390200621	13.1077986528916	2.32235352346274e-24	1.4398591845469e-22
chr12	2000001	3000000	28757	6955	10642	0.26	0.23	1	1	6955	0.26	1	10642	0.23	1	0.125123590346164	13.6167451911865	3.68982421077037e-05	0.00228769101067763
chr12	3000001	4000000	37530	6216	8692	0.24	0.19	1	1	6216	0.24	1	8692	0.19	1	0.255066364192823	13.3939849320923	7.33166445094274e-16	4.5456319595845e-14
chr12	4000001	5000000	33811	6245	10240	0.24	0.22	1	1	6245	0.24	1	10240	0.22	1	0.0253296179285208	13.5100476346361	0.416417330512033	1
chr12	5000001	6000000	34053	6428	10265	0.24	0.22	1	1	6428	0.24	1	10265	0.22	1	0.0634795005505343	13.53291682086	0.0398422444626212	1
chr12	6000001	7000000	26132	6790	10811	0.26	0.24	1	1	6790	0.26	1	10811	0.24	1	0.0677547859473966	13.6098513268801	0.0259179154953741	1
chr12	7000001	8000000	23468	6723	10842	0.26	0.24	1	1	6723	0.26	1	10842	0.24	1	0.0493176832112343	13.6045832756097	0.105694717169726	1
chr12	8000001	9000000	20279	7702	13332	0.29	0.29	1	1	7702	0.29	1	13332	0.29	1	-0.0528153239292737	13.8517862188473	0.0700461430235621	1
chr12	9000001	10000000	14280	10270	18447	0.39	0.4	1	1	10270	0.39	1	18447	0.4	1	-0.106176857669506	14.2942668424222	8.89514398263595e-05	0.00551498926923429
chr12	10000001	11000000	12006	11512	19785	0.44	0.43	1	1	11512	0.44	1	19785	0.43	1	-0.0424959877338462	14.426277951231	0.109999738612498	1
chr12	11000001	12000000	17949	9799	17164	0.37	0.37	1	1	9799	0.37	1	17164	0.37	1	-0.0699064811629072	14.2078551048844	0.0108958885704837	0.675545091369989
chr12	12000001	13000000	18526	9243	16310	0.35	0.36	1	1	9243	0.35	1	16310	0.36	1	-0.0805506602137514	14.1290577560921	0.00376137493562265	0.233205246008604
chr12	13000001	14000000	18865	8837	14773	0.34	0.32	1	1	8837	0.34	1	14773	0.32	1	-0.00256197251086674	14.0246976827602	0.931369306695088	1
chr12	14000001	15000000	17827	9447	15543	0.36	0.34	1	1	9447	0.36	1	15543	0.34	1	0.0204352094340019	14.1095152692551	0.464960199588396	1
chr12	15000001	16000000	16138	10202	17028	0.39	0.37	1	1	10202	0.39	1	17028	0.37	1	-0.000284747143868002	14.2307488516675	0.995041301084821	1
chr12	16000001	17000000	13034	10414	18153	0.4	0.4	1	1	10414	0.4	1	18153	0.4	1	-0.0629108852998631	14.2920803324554	0.0202929479076227	1
chr12	17000001	18000000	17467	9645	14856	0.37	0.32	1	1	9645	0.37	1	14856	0.32	1	0.115578493885489	14.09297117466	3.3966794956725e-05	0.00210594128731695
chr12	18000001	19000000	23902	8475	12860	0.32	0.28	1	1	8475	0.32	1	12860	0.28	1	0.137165279780809	13.8961072621183	1.92644381910718e-06	0.000119439516784645
chr12	19000001	20000000	23941	8310	13382	0.32	0.29	1	1	8310	0.32	1	13382	0.29	1	0.0513982825428629	13.909244560333	0.0744891815046816	1
chr12	20000001	21000000	23632	8403	12730	0.32	0.28	1	1	8403	0.32	1	12730	0.28	1	0.139514576637939	13.8826815834479	1.35576381461617e-06	8.40573565062024e-05
chr12	21000001	22000000	19747	8245	13951	0.31	0.3	1	1	8245	0.31	1	13951	0.3	1	-0.0200046732281425	13.9334362504201	0.488098817031313	1
chr12	22000001	23000000	21219	9099	14224	0.35	0.31	1	1	9099	0.35	1	14224	0.31	1	0.0942239117025437	14.0192030599827	0.000846940216965074	0.0525102934518346
chr12	23000001	24000000	23487	7664	12424	0.29	0.27	1	1	7664	0.29	1	12424	0.27	1	0.0418114524386431	13.7972325818893	0.155257458834492	1
chr12	24000001	25000000	20074	8845	14369	0.34	0.31	1	1	8845	0.34	1	14369	0.31	1	0.0387462097497412	14.0054721572214	0.172045289238	1
chr12	25000001	26000000	21946	7911	12799	0.3	0.28	1	1	7911	0.3	1	12799	0.28	1	0.0446725841333248	13.8415768915138	0.125759072440107	1
chr12	26000001	27000000	24096	6951	11030	0.26	0.24	1	1	6951	0.26	1	11030	0.24	1	0.0726308948499836	13.6412734994907	0.016275729150682	1
chr12	27000001	28000000	12178	10885	18719	0.41	0.41	1	1	10885	0.41	1	18719	0.41	1	-0.0433893508166893	14.3459453793445	0.106783914168024	1
chr12	28000001	29000000	5155	13377	24154	0.51	0.53	1	1	13377	0.51	1	24154	0.53	1	-0.113734513986188	14.6794568449305	9.45752673952175e-06	0.000586366657850348
chr12	29000001	30000000	3143	12978	25536	0.49	0.56	1	1	12978	0.49	1	25536	0.56	1	-0.237690664116664	14.7015327771361	1.85454905842642e-20	1.14982041622438e-18
chr12	30000001	31000000	4435	13682	24287	0.52	0.53	1	1	13682	0.52	1	24287	0.53	1	-0.0891323285889745	14.6992421148826	0.000500950868108337	0.0310589538227169
chr12	31000001	32000000	8652	11590	20141	0.44	0.44	1	1	11590	0.44	1	20141	0.44	1	-0.0584820456832129	14.444153296007	0.0273824384385936	1
chr12	32000001	33000000	8246	10900	19173	0.41	0.42	1	1	10900	0.41	1	19173	0.42	1	-0.0759750825356388	14.3645652781428	0.00460210409508146	0.285330453895051
chr12	33000001	34000000	21760	7482	11755	0.28	0.26	1	1	7482	0.28	1	11755	0.26	1	0.0869924489601372	13.7404709401993	0.0033545477540989	0.207981960754132
chr12	34000001	35000000	20126	7955	13113	0.3	0.29	1	1	7955	0.3	1	13113	0.29	1	0.0177080815259539	13.8629183387846	0.544398716363912	1
chr12	35000001	36000000	12561	10184	18196	0.39	0.4	1	1	10184	0.39	1	18196	0.4	1	-0.0985438995811945	14.2781841908092	0.000285155035238618	0.0176796121847943
chr12	36000001	37000000	14081	10626	18098	0.4	0.39	1	1	10626	0.4	1	18098	0.39	1	-0.0294591600612844	14.3041529033608	0.27700409956751	1
chr12	37000001	38000000	13631	10320	19032	0.39	0.42	1	1	10320	0.39	1	19032	0.42	1	-0.144210720758126	14.3211182116512	9.15235611769146e-08	5.67446079296871e-06
chr12	38000001	39000000	18147	8512	15117	0.32	0.33	1	1	8512	0.32	1	15117	0.33	1	-0.0898286081256651	14.0149929184417	0.00151721475811483	0.0940673150031194
chr12	39000001	40000000	15768	9392	16049	0.36	0.35	1	1	9392	0.36	1	16049	0.35	1	-0.0342065166527307	14.1284862938874	0.219251622884602	1
chr12	40000001	41000000	19977	7190	12521	0.27	0.27	1	1	7190	0.27	1	12521	0.27	1	-0.0615130889060752	13.7570019685756	0.0380214673022082	1
chr12	41000001	42000000	16150	6751	11353	0.26	0.25	1	1	6751	0.26	1	11353	0.25	1	-0.011128058725476	13.6406127620491	0.716794026858027	1
chr12	42000001	43000000	19158	8650	14496	0.33	0.32	1	1	8650	0.33	1	14496	0.32	1	-0.00611051697330241	13.9956238966916	0.833038805288413	1
chr12	43000001	44000000	17289	9884	16176	0.37	0.35	1	1	9884	0.37	1	16176	0.35	1	0.0280839842758612	14.1709507646349	0.309688460772125	1
chr12	44000001	45000000	19163	8242	13491	0.31	0.29	1	1	8242	0.31	1	13491	0.29	1	0.0278409990095935	13.9090134067497	0.33519094070364	1
chr12	45000001	46000000	16446	9499	14865	0.36	0.32	1	1	9499	0.36	1	14865	0.32	1	0.0926993801216359	14.0819991029016	0.000909724523285972	0.0564029204437303
chr12	46000001	47000000	16851	9320	15715	0.35	0.34	1	1	9320	0.35	1	15715	0.34	1	-0.0149680228499626	14.1076818339687	0.593792503858003	1
chr12	47000001	48000000	25369	7759	12457	0.29	0.27	1	1	7759	0.29	1	12457	0.27	1	0.0557575163259127	13.8081447830017	0.0573110983531767	1
chr12	48000001	49000000	19457	8824	14558	0.33	0.32	1	1	8824	0.33	1	14558	0.32	1	0.0164645903483362	14.0130809704328	0.562988504403339	1
chr12	49000001	50000000	16655	7631	15131	0.29	0.33	1	1	7631	0.29	1	15131	0.33	1	-0.248788261103934	13.9415567802698	4.66294395218097e-18	2.8910252503522e-16
chr12	50000001	51000000	21088	7857	13166	0.3	0.29	1	1	7857	0.3	1	13166	0.29	1	-0.00599432639991231	13.8568694059157	0.84041634305355	1
chr12	51000001	52000000	18470	8349	14550	0.32	0.32	1	1	8349	0.32	1	14550	0.32	1	-0.0625709119583723	13.9731108187409	0.0283200949049036	1
chr12	52000001	53000000	28448	7573	11988	0.29	0.26	1	1	7573	0.29	1	11988	0.26	1	0.0761171176486518	13.7631946541577	0.00998592299420188	0.619127225640517
chr12	53000001	54000000	28693	6905	10752	0.26	0.23	1	1	6905	0.26	1	10752	0.23	1	0.0998791129775279	13.6184738103759	0.00099221391789707	0.0615172629096183
chr12	54000001	55000000	28040	6992	11459	0.27	0.25	1	1	6992	0.27	1	11459	0.25	1	0.0260678281723657	13.6726488718573	0.387773666934425	1
chr12	55000001	56000000	19301	8953	15380	0.34	0.34	1	1	8953	0.34	1	15380	0.34	1	-0.041839740794787	14.063304550352	0.13687052140775	1
chr12	56000001	57000000	22366	7776	14468	0.29	0.32	1	1	7776	0.29	1	14468	0.32	1	-0.15699134743507	13.9195746875741	5.00180690075509e-08	3.10112027846815e-06
chr12	57000001	58000000	26503	7096	12762	0.27	0.28	1	1	7096	0.27	1	12762	0.28	1	-0.108002911034006	13.7619555650901	0.000264806692892707	0.0164180149593479
chr12	58000001	59000000	24546	7457	12622	0.28	0.28	1	1	7457	0.28	1	12622	0.28	1	-0.0205007865254828	13.7887900166386	0.488755468870258	1
chr12	59000001	60000000	37154	7337	10812	0.28	0.24	1	1	7337	0.28	1	10812	0.24	1	0.179398573900989	13.6681521284911	2.24040185369425e-09	1.38904914929044e-07
chr12	60000001	61000000	49238	5355	7177	0.2	0.16	1	1	5355	0.2	1	7177	0.16	1	0.316271707947704	13.1513293778863	1.95216265825877e-21	1.21034084812044e-19
chr12	61000001	62000000	26659	4707	8742	0.18	0.19	1	1	4707	0.18	1	8742	0.19	1	-0.15438037173949	13.1941746593109	3.27130758845453e-06	0.000202821070484181
