Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000102718-chr2---66022384-66023400 l43 e 0 nr 1000000 chr ENSMUST00000115359-chr1---16449796-16451000 l43 e 0 nr 1500000 chr ENSMUST00000042096-chr4-+-138909576-138911600 l45 e 0 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1688440 reads mapping to 778021 Unique genomic coordinates Making up 21288 groups Consisting of 9659 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000151201-chr5---101215503-101216601 l45 e 1 nr 1000000 chr ENSMUST00000020712-chr11---3794343-3795101 l42 e 1 nr 1500000 chr ENSMUST00000102790-chr4---98443190-98444301 l43 e 1 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1700395 reads mapping to 790427 Unique genomic coordinates Making up 21868 groups Consisting of 9692 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000001559-chr6---128362217-128364802 l45 e 2 nr 1000000 chr ENSMUST00000154265-chr10---13101209-13104102 l44 e 2 nr 1500000 chr ENSMUST00000121797-chr4-+-133083155-133086702 l45 e 2 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1777404 reads mapping to 874828 Unique genomic coordinates Making up 23664 groups Consisting of 10783 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000168550-chr7---148375833-148379903 l45 e 3 nr 1000000 chr ENSMUST00000128483-chr11---53496204-53498303 l44 e 3 nr 1500000 chr ENSMUST00000128483-chr11---53496204-53498303 l44 e 3 nr 2000000 chr ENSMUST00000128483-chr11---53496204-53498303 l44 e 3 nr 2500000 chr ENSMUST00000128483-chr11---53496204-53498303 l44 e 3 nr 3000000 chr ENSMUST00000165339-chr12-+-66188645-66189803 l44 e 3 nr 3500000 chr ENSMUST00000031412-chr5---122086753-122087903 l45 e 3 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 3702989 reads mapping to 809024 Unique genomic coordinates Making up 22301 groups Consisting of 10007 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000133334-chr4-+-143994771-143996204 l45 e 4 nr 1000000 chr ENSMUST00000138535-chr1---61813989-61815604 l43 e 4 nr 1500000 chr ENSMUST00000090971-chr3---87791453-87795204 l43 e 4 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1744750 reads mapping to 846467 Unique genomic coordinates Making up 23169 groups Consisting of 10547 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000029610-chr3---130936337-130937705 l45 e 5 nr 1000000 chr ENSMUST00000030800-chr5---23946857-23951105 l43 e 5 nr 1500000 chr ENSMUST00000043069-chr15-+-78432623-78433705 l44 e 5 nr 2000000 chr ENSMUST00000144251-chr9---44515468-44517105 l43 e 5 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2044772 reads mapping to 851389 Unique genomic coordinates Making up 23110 groups Consisting of 10529 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000046288-chr17-+-31657060-31657706 l44 e 6 nr 1000000 chr ENSMUST00000125995-chr9---42246680-42247806 l43 e 6 nr 1500000 chr ENSMUST00000048308-chr1---186695805-186698806 l45 e 6 nr 2000000 chr ENSMUST00000107209-chr3---94985688-94993706 l43 e 6 nr 2500000 chr ENSMUST00000034279-chr8-+-123094117-123097306 l45 e 6 nr 3000000 chr ENSMUST00000034279-chr8-+-123094117-123097306 l45 e 6 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 3166865 reads mapping to 809414 Unique genomic coordinates Making up 22546 groups Consisting of 10021 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000102733-chr2---62321123-62321707 l43 e 7 nr 1000000 chr ENSMUST00000028102-chr2-+-49474818-49475807 l43 e 7 nr 1500000 chr ENSMUST00000159419-chr17---91102516-91104207 l44 e 7 nr 2000000 chr ENSMUST00000018287-chr5-+-140274593-140278607 l45 e 7 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2346866 reads mapping to 835898 Unique genomic coordinates Making up 23005 groups Consisting of 10338 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000066880-chr7-+-29670247-29676508 l43 e 8 nr 1000000 chr ENSMUST00000111435-chr1---167522312-167524308 l45 e 8 nr 1500000 chr ENSMUST00000017961-chr2---163161978-163166208 l45 e 8 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1951952 reads mapping to 802178 Unique genomic coordinates Making up 22040 groups Consisting of 9901 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000174641-chr9-+-31960125-31961209 l43 e 9 nr 1000000 chr ENSMUST00000120259-chr10-+-19748339-19749509 l44 e 9 nr 1500000 chr ENSMUST00000126771-chr5---57992047-57993209 l43 e 9 nr 2000000 chr ENSMUST00000019882-chr7-+-31016967-31018409 l43 e 9 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2229569 reads mapping to 793180 Unique genomic coordinates Making up 21855 groups Consisting of 9995 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000108186-chr3-+-35727023-35728610 l43 e 10 nr 1000000 chr ENSMUST00000024171-chr6-+-49391730-49392810 l43 e 10 nr 1500000 chr ENSMUST00000168091-chr14-+-3353168-3354810 l42 e 10 nr 2000000 chr ENSMUST00000075190-chr8---105156895-105159210 l45 e 10 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2070106 reads mapping to 799373 Unique genomic coordinates Making up 21721 groups Consisting of 9791 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000079323-chr7---79355981-79357111 l43 e 11 nr 1000000 chr ENSMUST00000119093-chr10---120388774-120389811 l46 e 11 nr 1500000 chr ENSMUST00000070345-chr6---72278012-72280011 l43 e 11 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1654764 reads mapping to 801031 Unique genomic coordinates Making up 22157 groups Consisting of 9967 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000130460-chr5---138267582-138268612 l45 e 12 nr 1000000 chr ENSMUST00000150490-chr11-+-96122426-96126012 l44 e 12 nr 1500000 chr ENSMUST00000108597-chr11-+-69778281-69781312 l44 e 12 nr 2000000 chr ENSMUST00000030901-chr4-+-155258707-155263212 l45 e 12 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2197826 reads mapping to 840220 Unique genomic coordinates Making up 22951 groups Consisting of 10274 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000159574-chr13-+-104918809-104919913 l46 e 13 nr 1000000 chr ENSMUST00000147324-chr2---19555661-19558613 l43 e 13 nr 1500000 chr ENSMUST00000031045-chr5---69909932-69911113 l43 e 13 nr 2000000 chr ENSMUST00000151669-chr18---57665629-57666313 l44 e 13 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2416465 reads mapping to 846052 Unique genomic coordinates Making up 23026 groups Consisting of 10524 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000032093-chr6---92320886-92327314 l43 e 14 nr 1000000 chr ENSMUST00000064438-chr1---170125379-170126514 l45 e 14 nr 1500000 chr ENSMUST00000078752-chr2-+-121731166-121733014 l45 e 14 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1987754 reads mapping to 849178 Unique genomic coordinates Making up 23035 groups Consisting of 10503 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000145111-chr6---54378815-54380215 l43 e 15 nr 1000000 chr ENSMUST00000019999-chr10---18453364-18454415 l44 e 15 nr 1500000 chr ENSMUST00000028829-chr2-+-117002538-117008015 l45 e 15 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1867268 reads mapping to 846558 Unique genomic coordinates Making up 23110 groups Consisting of 10569 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000053733-chr5---84759753-84761416 l43 e 16 nr 1000000 chr ENSMUST00000028395-chr2-+-79142940-79144016 l43 e 16 nr 1500000 chr ENSMUST00000164993-chr13-+-16108515-16110016 l44 e 16 nr 2000000 chr ENSMUST00000005233-chr2-+-118256032-118258516 l45 e 16 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2346532 reads mapping to 815925 Unique genomic coordinates Making up 21919 groups Consisting of 10041 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000155037-chr6-+-11857809-11858517 l43 e 17 nr 1000000 chr ENSMUST00000020106-chr10---67558341-67561917 l44 e 17 nr 1500000 chr ENSMUST00000106738-chr4-+-107111603-107112417 l45 e 17 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1727254 reads mapping to 850965 Unique genomic coordinates Making up 23326 groups Consisting of 10414 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000024575-chr17-+-7485618-7487718 l42 e 18 nr 1000000 chr ENSMUST00000095724-chr13-+-63916610-63917618 l44 e 18 nr 1500000 chr ENSMUST00000069457-chr13-+-40799374-40803318 l44 e 18 nr 2000000 chr ENSMUST00000112453-chrX-+-156278413-156279618 l45 e 18 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2002343 reads mapping to 823947 Unique genomic coordinates Making up 22439 groups Consisting of 10133 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000147763-chr4-+-56817686-56818819 l43 e 19 nr 1000000 chr ENSMUST00000002989-chr8---73362093-73363619 l43 e 19 nr 1500000 chr ENSMUST00000047275-chr16-+-97657749-97660619 l44 e 19 nr 2000000 chr ENSMUST00000000312-chr8-+-109176907-109178319 l45 e 19 nr 2500000 chr ENSMUST00000000312-chr8-+-109176907-109178319 l45 e 19 nr 3000000 chr ENSMUST00000133010-chr9---24423048-24424119 l43 e 19 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 3263375 reads mapping to 870406 Unique genomic coordinates Making up 23864 groups Consisting of 10734 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000160834-chr1-+-60250848-60252520 l43 e 20 nr 1000000 chr ENSMUST00000021221-chr11-+-93771097-93772220 l44 e 20 nr 1500000 chr ENSMUST00000055241-chr2---120351985-120353320 l45 e 20 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1840975 reads mapping to 782170 Unique genomic coordinates Making up 21360 groups Consisting of 9746 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000034912-chr9-+-89869103-89870221 l43 e 21 nr 1000000 chr ENSMUST00000150730-chr11---119876273-119878621 l46 e 21 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1475955 reads mapping to 775525 Unique genomic coordinates Making up 21509 groups Consisting of 9576 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000135225-chr5---109025274-109029022 l45 e 22 nr 1000000 chr ENSMUST00000066193-chr18-+-52853333-52855322 l44 e 22 nr 1500000 chr ENSMUST00000053871-chr10---83989050-83992022 l44 e 22 nr 2000000 chr ENSMUST00000171981-chr3---122686700-122687422 l45 e 22 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2243406 reads mapping to 826915 Unique genomic coordinates Making up 22600 groups Consisting of 10173 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000030432-chr4-+-135515392-135517323 l45 e 23 nr 1000000 chr ENSMUST00000163007-chr1---99991562-99992223 l43 e 23 nr 1500000 chr ENSMUST00000029448-chr3---102737628-102740023 l45 e 23 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1844220 reads mapping to 835083 Unique genomic coordinates Making up 22901 groups Consisting of 10305 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000032497-chr6-+-126891830-126893024 l45 e 24 nr 1000000 chr ENSMUST00000117507-chr3---95538070-95542724 l43 e 24 nr 1500000 chr ENSMUST00000072776-chr15---82233276-82237624 l44 e 24 nr 2000000 chr ENSMUST00000066594-chr8-+-70820053-70821224 l43 e 24 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2062585 reads mapping to 855516 Unique genomic coordinates Making up 23227 groups Consisting of 10703 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000154896-chr11-+-100898973-100901725 l46 e 25 nr 1000000 chr ENSMUST00000115264-chrX-+-33606365-33608925 l43 e 25 nr 1500000 chr ENSMUST00000131815-chr11---6523203-6526025 l42 e 25 nr 2000000 chr ENSMUST00000120159-chr17-+-75564547-75565125 l44 e 25 nr 2500000 chr ENSMUST00000120159-chr17-+-75564547-75565125 l44 e 25 nr 3000000 chr ENSMUST00000068714-chr17---80819103-80820325 l44 e 25 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 3491114 reads mapping to 817624 Unique genomic coordinates Making up 22052 groups Consisting of 10039 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000028233-chr2---34886847-34888326 l43 e 26 nr 1000000 chr ENSMUST00000106458-chr11-+-115865718-115869726 l46 e 26 nr 1500000 chr ENSMUST00000100235-chr11-+-115061634-115064026 l46 e 26 nr 2000000 chr ENSMUST00000035369-chr8---116262196-116263326 l45 e 26 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2046868 reads mapping to 868374 Unique genomic coordinates Making up 23599 groups Consisting of 10791 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000028248-chr2---35795694-35796827 l43 e 27 nr 1000000 chr ENSMUST00000069507-chr17---34875288-34880827 l44 e 27 nr 1500000 chr ENSMUST00000022476-chr14-+-31821340-31825627 l44 e 27 nr 2000000 chr ENSMUST00000041892-chr5-+-65621695-65623127 l43 e 27 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2180927 reads mapping to 800896 Unique genomic coordinates Making up 21833 groups Consisting of 10038 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000121227-chr9---79485754-79486828 l43 e 28 nr 1000000 chr ENSMUST00000139993-chr1---181460935-181463828 l45 e 28 nr 1500000 chr ENSMUST00000047660-chr3-+-91826027-91827228 l43 e 28 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1779877 reads mapping to 823234 Unique genomic coordinates Making up 22610 groups Consisting of 10042 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000094553-chr5-+-103920742-103921829 l45 e 29 nr 1000000 chr ENSMUST00000040219-chr10---26063483-26065029 l44 e 29 nr 1500000 chr ENSMUST00000038580-chr17-+-37407165-37411429 l44 e 29 nr 2000000 chr ENSMUST00000146911-chr7---112972737-112980029 l45 e 29 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2134448 reads mapping to 807158 Unique genomic coordinates Making up 21951 groups Consisting of 9906 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000046549-chr17---48561766-48563330 l44 e 30 nr 1000000 chr ENSMUST00000155911-chr5---68155603-68156730 l43 e 30 nr 1500000 chr ENSMUST00000025739-chr19-+-30156724-30157830 l44 e 30 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1978449 reads mapping to 857614 Unique genomic coordinates Making up 23682 groups Consisting of 10793 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000105909-chr7---150761323-150763131 l45 e 31 nr 1000000 chr ENSMUST00000009789-chr10-+-58831489-58832931 l44 e 31 nr 1500000 chr ENSMUST00000154862-chr5-+-108705939-108706831 l45 e 31 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1691596 reads mapping to 849250 Unique genomic coordinates Making up 23245 groups Consisting of 10576 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000094375-chr11-+-21174501-21175632 l44 e 32 nr 1000000 chr ENSMUST00000043725-chr1-+-118080383-118081532 l45 e 32 nr 1500000 chr ENSMUST00000095924-chr13---27728922-27730032 l44 e 32 nr 2000000 chr ENSMUST00000141021-chr8---67207891-67208932 l43 e 32 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2055521 reads mapping to 815766 Unique genomic coordinates Making up 22595 groups Consisting of 9926 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000108619-chr7---3772626-3775433 l41 e 33 nr 1000000 chr ENSMUST00000074640-chr1-+-169017609-169021433 l45 e 33 nr 1500000 chr ENSMUST00000127742-chr2---35834192-35835433 l43 e 33 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1780211 reads mapping to 834897 Unique genomic coordinates Making up 23068 groups Consisting of 10264 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000110674-chr2---120963028-120966434 l45 e 34 nr 1000000 chr ENSMUST00000077004-chr15---74708766-74712134 l44 e 34 nr 1500000 chr ENSMUST00000022286-chr13---115141156-115142234 l46 e 34 nr 2000000 chr ENSMUST00000050139-chr9---103996911-103998134 l45 e 34 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2052994 reads mapping to 802519 Unique genomic coordinates Making up 21734 groups Consisting of 9936 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000102632-chr3-+-108112562-108113635 l45 e 35 nr 1000000 chr ENSMUST00000072079-chr1-+-9535489-9537535 l41 e 35 nr 1500000 chr ENSMUST00000108345-chr3-+-16113455-16117035 l43 e 35 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1804431 reads mapping to 846050 Unique genomic coordinates Making up 22915 groups Consisting of 10386 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000028377-chr2-+-65567663-65568836 l43 e 36 nr 1000000 chr ENSMUST00000101429-chr6---48783810-48786836 l43 e 36 nr 1500000 chr ENSMUST00000053017-chr18---15610433-15612336 l44 e 36 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1992074 reads mapping to 829411 Unique genomic coordinates Making up 22663 groups Consisting of 10292 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000047075-chr7-+-134938657-134941737 l45 e 37 nr 1000000 chr ENSMUST00000169074-chr12---71151152-71152737 l44 e 37 nr 1500000 chr ENSMUST00000055576-chr7-+-73176135-73177237 l43 e 37 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1603331 reads mapping to 791304 Unique genomic coordinates Making up 21706 groups Consisting of 9760 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000125763-chr18---84727219-84732938 l44 e 38 nr 1000000 chr ENSMUST00000061169-chr19-+-5306224-5308738 l42 e 38 nr 1500000 chr ENSMUST00000048702-chr13---93961549-93962238 l44 e 38 nr 2000000 chr ENSMUST00000150436-chr6---149016072-149017738 l45 e 38 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2121998 reads mapping to 798614 Unique genomic coordinates Making up 21823 groups Consisting of 9828 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000098455-chr7-+-52895347-52901139 l43 e 39 nr 1000000 chr ENSMUST00000113979-chr1---67066932-67068139 l43 e 39 nr 1500000 chr ENSMUST00000077972-chr2-+-76392571-76394539 l43 e 39 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1989575 reads mapping to 844848 Unique genomic coordinates Making up 23148 groups Consisting of 10471 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000076251-chr7-+-4980093-4984740 l41 e 40 nr 1000000 chr ENSMUST00000160048-chr10---75764449-75765540 l44 e 40 nr 1500000 chr ENSMUST00000166364-chr5---8401661-8404240 l41 e 40 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1896108 reads mapping to 824700 Unique genomic coordinates Making up 22406 groups Consisting of 10216 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000028248-chr2---35672743-35673841 l43 e 41 nr 1000000 chr ENSMUST00000034630-chr9-+-36677566-36678641 l43 e 41 nr 1500000 chr ENSMUST00000047762-chr18-+-11062516-11063641 l44 e 41 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1852700 reads mapping to 868573 Unique genomic coordinates Making up 23897 groups Consisting of 10683 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000161956-chr3-+-65157689-65162742 l43 e 42 nr 1000000 chr ENSMUST00000105012-chrX-+-4219983-4221942 l41 e 42 nr 1500000 chr ENSMUST00000156200-chr4-+-46090686-46091842 l43 e 42 nr 2000000 chr ENSMUST00000071848-chrX-+-66056280-66057742 l43 e 42 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2012706 reads mapping to 800977 Unique genomic coordinates Making up 21828 groups Consisting of 9959 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000004201-chr9---20574494-20582043 l43 e 43 nr 1000000 chr ENSMUST00000165300-chr11-+-79916262-79917343 l44 e 43 nr 1500000 chr ENSMUST00000133262-chr2-+-160471716-160475843 l45 e 43 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1780264 reads mapping to 836290 Unique genomic coordinates Making up 23018 groups Consisting of 10507 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000106919-chr4---101507574-101511244 l45 e 44 nr 1000000 chr ENSMUST00000118169-chr7-+-135409190-135415944 l45 e 44 nr 1500000 chr ENSMUST00000068904-chr15-+-101257020-101260744 l46 e 44 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1968269 reads mapping to 827913 Unique genomic coordinates Making up 22741 groups Consisting of 10391 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000042957-chr15---101397875-101399345 l46 e 45 nr 1000000 chr ENSMUST00000168680-chr16-+-49144656-49146045 l44 e 45 nr 1500000 chr ENSMUST00000084838-chr16-+-49855731-49856445 l44 e 45 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1984242 reads mapping to 843462 Unique genomic coordinates Making up 22935 groups Consisting of 10475 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000086778-chr8-+-4204822-4208046 l41 e 46 nr 1000000 chr ENSMUST00000119078-chr10---126719012-126725246 l46 e 46 nr 1500000 chr ENSMUST00000164507-chr4---153714330-153716746 l45 e 46 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1895750 reads mapping to 859323 Unique genomic coordinates Making up 23605 groups Consisting of 10486 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000114325-chr1---58539987-58541047 l43 e 47 nr 1000000 chr ENSMUST00000159772-chr13---107766236-107770147 l46 e 47 nr 1500000 chr ENSMUST00000174212-chr9-+-91265842-91266447 l43 e 47 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1641902 reads mapping to 788583 Unique genomic coordinates Making up 21685 groups Consisting of 9685 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000035499-chr9-+-64960566-64962748 l43 e 48 nr 1000000 chr ENSMUST00000041162-chr10-+-100065477-100066748 l46 e 48 nr 1500000 chr ENSMUST00000124419-chr2---155170884-155171948 l45 e 48 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1844121 reads mapping to 811862 Unique genomic coordinates Making up 21948 groups Consisting of 9997 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000072961-chr13-+-18932527-18934649 l44 e 49 nr 1000000 chr ENSMUST00000138938-chr13-+-110562339-110563649 l46 e 49 nr 1500000 chr ENSMUST00000133584-chr16---32096586-32097649 l44 e 49 nr 2000000 chr ENSMUST00000030165-chr4---43015215-43018649 l43 e 49 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2265817 reads mapping to 839710 Unique genomic coordinates Making up 22964 groups Consisting of 10431 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000133155-chr5-+-106305960-106306750 l45 e 50 nr 1000000 chr ENSMUST00000032257-chr6-+-128995919-128996550 l45 e 50 nr 1500000 chr ENSMUST00000002063-chr2-+-126891778-126895550 l45 e 50 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1881039 reads mapping to 825545 Unique genomic coordinates Making up 22762 groups Consisting of 10248 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000052457-chr8-+-113249594-113251951 l45 e 51 nr 1000000 chr ENSMUST00000026129-chr11---120471401-120477751 l46 e 51 nr 1500000 chr ENSMUST00000111639-chr6-+-146780532-146782051 l45 e 51 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1622366 reads mapping to 783667 Unique genomic coordinates Making up 21495 groups Consisting of 9725 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000173193-chr6---58902944-58907352 l43 e 52 nr 1000000 chr ENSMUST00000119181-chrX-+-34918352-34919652 l43 e 52 nr 1500000 chr ENSMUST00000026063-chr19---56603649-56604652 l44 e 52 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1934245 reads mapping to 856961 Unique genomic coordinates Making up 23200 groups Consisting of 10613 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000088386-chr14---121883570-121884653 l46 e 53 nr 1000000 chr ENSMUST00000120613-chr11-+-53406376-53408953 l44 e 53 nr 1500000 chr ENSMUST00000157414-chr12-+-79266533-79266653 l44 e 53 nr 2000000 chr ENSMUST00000153270-chr7-+-29863940-29866153 l43 e 53 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2110898 reads mapping to 841753 Unique genomic coordinates Making up 23054 groups Consisting of 10504 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000106058-chr3-+-157209139-157211354 l45 e 54 nr 1000000 chr ENSMUST00000132028-chr2-+-32218530-32220354 l43 e 54 nr 1500000 chr ENSMUST00000025004-chr17-+-55952919-55954154 l44 e 54 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1911095 reads mapping to 844992 Unique genomic coordinates Making up 23101 groups Consisting of 10527 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000166865-chr7-+-35009774-35015255 l43 e 55 nr 1000000 chr ENSMUST00000057151-chr12-+-31269308-31270955 l44 e 55 nr 1500000 chr ENSMUST00000034146-chr8-+-85821256-85822355 l43 e 55 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1541989 reads mapping to 803307 Unique genomic coordinates Making up 22186 groups Consisting of 10001 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000068079-chr9---20149580-20155556 l43 e 56 nr 1000000 chr ENSMUST00000126499-chr11---110026711-110027856 l46 e 56 nr 1500000 chr ENSMUST00000033088-chr7-+-134738860-134741556 l45 e 56 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1608707 reads mapping to 833704 Unique genomic coordinates Making up 22664 groups Consisting of 10342 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000026922-chr7---88745367-88757757 l43 e 57 nr 1000000 chr ENSMUST00000161223-chr10---109160253-109160857 l46 e 57 nr 1500000 chr ENSMUST00000138937-chr5-+-66543711-66544757 l43 e 57 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1877232 reads mapping to 842771 Unique genomic coordinates Making up 23046 groups Consisting of 10504 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000160477-chr12---110121975-110123058 l46 e 58 nr 1000000 chr ENSMUST00000070989-chr1-+-120498442-120499558 l45 e 58 nr 1500000 chr ENSMUST00000065716-chr12---100036501-100037658 l46 e 58 nr 2000000 chr ENSMUST00000081440-chr6-+-125292120-125294958 l45 e 58 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2187428 reads mapping to 790783 Unique genomic coordinates Making up 21594 groups Consisting of 9750 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000027367-chr1-+-74439352-74443859 l43 e 59 nr 1000000 chr ENSMUST00000132878-chr12-+-100159030-100159659 l46 e 59 nr 1500000 chr ENSMUST00000102484-chr4---141247670-141248859 l45 e 59 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1691251 reads mapping to 797656 Unique genomic coordinates Making up 21725 groups Consisting of 9989 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000112950-chr2-+-36639796-36640360 l43 e 60 nr 1000000 chr ENSMUST00000046257-chr2-+-29857251-29860560 l43 e 60 nr 1500000 chr ENSMUST00000040153-chr19---19026148-19027260 l44 e 60 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1848392 reads mapping to 803286 Unique genomic coordinates Making up 21703 groups Consisting of 9788 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000032717-chr7---56886869-56889561 l43 e 61 nr 1000000 chr ENSMUST00000020157-chr10---90523943-90525461 l44 e 61 nr 1500000 chr ENSMUST00000032977-chr7-+-107175586-107178361 l45 e 61 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1599054 reads mapping to 810310 Unique genomic coordinates Making up 22336 groups Consisting of 10099 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000029879-chr4-+-15915649-15916762 l43 e 62 nr 1000000 chr ENSMUST00000031727-chr5-+-137960108-137969162 l45 e 62 nr 1500000 chr ENSMUST00000161568-chr13-+-90243480-90251862 l44 e 62 nr 2000000 chr ENSMUST00000100816-chr5-+-119173497-119174662 l45 e 62 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2143490 reads mapping to 848266 Unique genomic coordinates Making up 23190 groups Consisting of 10427 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000034629-chr9---44103756-44105163 l43 e 63 nr 1000000 chr ENSMUST00000138853-chr11-+-73057205-73058363 l44 e 63 nr 1500000 chr ENSMUST00000034980-chr9-+-95850464-95852063 l43 e 63 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1523772 reads mapping to 807413 Unique genomic coordinates Making up 22073 groups Consisting of 10035 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000170940-chr7---87500728-87501864 l43 e 64 nr 1000000 chr ENSMUST00000092597-chr10-+-33588456-33590564 l44 e 64 nr 1500000 chr ENSMUST00000126668-chr4---108265030-108268464 l45 e 64 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1851585 reads mapping to 848675 Unique genomic coordinates Making up 23168 groups Consisting of 10450 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000153334-chr3-+-89224555-89227965 l43 e 65 nr 1000000 chr ENSMUST00000108074-chr7---35021726-35026165 l43 e 65 nr 1500000 chr ENSMUST00000112495-chr2-+-61431134-61431765 l43 e 65 nr 2000000 chr ENSMUST00000033342-chr7-+-116083204-116086465 l45 e 65 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2267697 reads mapping to 796326 Unique genomic coordinates Making up 22271 groups Consisting of 9745 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000065600-chr10-+-121176993-121177766 l46 e 66 nr 1000000 chr ENSMUST00000072276-chr13---74935604-74936666 l44 e 66 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1447173 reads mapping to 730711 Unique genomic coordinates Making up 19969 groups Consisting of 8972 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000159433-chr6-+-8323406-8324467 l41 e 67 nr 1000000 chr ENSMUST00000027859-chr1---167081633-167082767 l45 e 67 nr 1500000 chr ENSMUST00000048347-chr4---118069718-118072267 l45 e 67 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1704769 reads mapping to 816004 Unique genomic coordinates Making up 22263 groups Consisting of 10119 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000114641-chr6-+-47247914-47251368 l43 e 68 nr 1000000 chr ENSMUST00000111510-chr1---164810013-164811368 l45 e 68 nr 1500000 chr ENSMUST00000149383-chr2-+-34262291-34262868 l43 e 68 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1872438 reads mapping to 852750 Unique genomic coordinates Making up 23421 groups Consisting of 10511 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000147169-chr6---34898436-34899469 l43 e 69 nr 1000000 chr ENSMUST00000159041-chr1---99691691-99692469 l43 e 69 nr 1500000 chr ENSMUST00000028863-chr2-+-139996382-139997169 l45 e 69 nr 2000000 chr ENSMUST00000043896-chr8-+-111315602-111319369 l45 e 69 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2072152 reads mapping to 797603 Unique genomic coordinates Making up 21944 groups Consisting of 9728 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000132337-chr4---98823264-98824370 l43 e 70 nr 1000000 chr ENSMUST00000078525-chr8-+-85606835-85615170 l43 e 70 nr 1500000 chr ENSMUST00000069756-chr13---101266462-101269370 l46 e 70 nr 2000000 chr ENSMUST00000163475-chr7-+-48854631-48855270 l43 e 70 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2104580 reads mapping to 796080 Unique genomic coordinates Making up 21720 groups Consisting of 9823 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000121949-chr8-+-90690395-90691571 l43 e 71 nr 1000000 chr ENSMUST00000149757-chr11-+-21594617-21597571 l44 e 71 nr 1500000 chr ENSMUST00000084203-chr4---141196832-141199171 l45 e 71 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1758759 reads mapping to 809452 Unique genomic coordinates Making up 22157 groups Consisting of 9871 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000063471-chr4-+-137277241-137278372 l45 e 72 nr 1000000 chr ENSMUST00000064091-chr1---121578561-121579872 l45 e 72 nr 1500000 chr ENSMUST00000042234-chr5-+-34752730-34753972 l43 e 72 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1681509 reads mapping to 834427 Unique genomic coordinates Making up 22963 groups Consisting of 10492 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000002084-chrX-+-70981629-70983873 l43 e 73 nr 1000000 chr ENSMUST00000027905-chr1-+-190556812-190559173 l45 e 73 nr 1500000 chr ENSMUST00000029222-chr3---33711284-33716373 l43 e 73 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1839050 reads mapping to 809350 Unique genomic coordinates Making up 22280 groups Consisting of 10086 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000059644-chr5-+-28687986-28689274 l43 e 74 nr 1000000 chr ENSMUST00000162875-chr1---37694206-37695374 l43 e 74 nr 1500000 chr ENSMUST00000028235-chr2-+-34968344-34969474 l43 e 74 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1915487 reads mapping to 835718 Unique genomic coordinates Making up 22811 groups Consisting of 9921 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000123619-chr3-+-113792550-113793675 l45 e 75 nr 1000000 chr ENSMUST00000069619-chrX-+-39580888-39583075 l43 e 75 nr 1500000 chr ENSMUST00000035751-chr2-+-162772415-162775775 l45 e 75 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1798309 reads mapping to 833896 Unique genomic coordinates Making up 22536 groups Consisting of 10480 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000151971-chr4---128856933-128860276 l45 e 76 nr 1000000 chr ENSMUST00000167416-chr1---107450141-107451576 l45 e 76 nr 1500000 chr ENSMUST00000094320-chr5-+-124400708-124402376 l45 e 76 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1686027 reads mapping to 787185 Unique genomic coordinates Making up 21679 groups Consisting of 9731 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000162907-chr8-+-129923798-129926477 l45 e 77 nr 1000000 chr ENSMUST00000021085-chr11-+-115427415-115428577 l46 e 77 nr 1500000 chr ENSMUST00000064404-chr7-+-144659116-144660277 l45 e 77 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1643827 reads mapping to 817775 Unique genomic coordinates Making up 22407 groups Consisting of 10187 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000136669-chr4---94252451-94254778 l43 e 78 nr 1000000 chr ENSMUST00000050916-chr9---56772620-56776178 l43 e 78 nr 1500000 chr ENSMUST00000037763-chr18-+-45013757-45015578 l44 e 78 nr 2000000 chr ENSMUST00000093867-chr9-+-38016637-38017578 l43 e 78 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2057112 reads mapping to 880511 Unique genomic coordinates Making up 24032 groups Consisting of 10911 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000165343-chr2-+-152801387-152802479 l45 e 79 nr 1000000 chr ENSMUST00000071814-chrX-+-109744935-109748679 l45 e 79 nr 1500000 chr ENSMUST00000043111-chr13-+-89428524-89429679 l44 e 79 nr 2000000 chr ENSMUST00000155888-chr5-+-32382070-32382979 l43 e 79 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2177001 reads mapping to 812054 Unique genomic coordinates Making up 22098 groups Consisting of 9987 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000034197-chr8-+-113492588-113496380 l45 e 80 nr 1000000 chr ENSMUST00000020273-chr10---61894537-61896380 l44 e 80 nr 1500000 chr ENSMUST00000024112-chr16-+-97757690-97758280 l44 e 80 nr 2000000 chr ENSMUST00000024112-chr16-+-97757690-97758280 l44 e 80 nr 2500000 chr ENSMUST00000065263-chr5---124818711-124825180 l45 e 80 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2742324 reads mapping to 841151 Unique genomic coordinates Making up 22936 groups Consisting of 10639 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000030830-chr4---149353584-149358781 l45 e 81 nr 1000000 chr ENSMUST00000088448-chr1---20059959-20061081 l43 e 81 nr 1500000 chr ENSMUST00000028233-chr2---34894231-34895781 l43 e 81 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1808322 reads mapping to 791399 Unique genomic coordinates Making up 21462 groups Consisting of 9826 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000114096-chr9---58778263-58779482 l43 e 82 nr 1000000 chr ENSMUST00000125365-chr11-+-41697968-41699682 l44 e 82 nr 1500000 chr ENSMUST00000049324-chr5---148194461-148195582 l45 e 82 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1636748 reads mapping to 837531 Unique genomic coordinates Making up 22854 groups Consisting of 10426 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000141822-chr7-+-86675572-86679283 l43 e 83 nr 1000000 chr ENSMUST00000119736-chr8-+-108557123-108558183 l45 e 83 nr 1500000 chr ENSMUST00000091436-chr2---13407174-13408983 l43 e 83 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1887027 reads mapping to 862543 Unique genomic coordinates Making up 23646 groups Consisting of 10660 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000154982-chr17---24247315-24248584 l44 e 84 nr 1000000 chr ENSMUST00000091817-chr18-+-78108586-78109684 l44 e 84 nr 1500000 chr ENSMUST00000071564-chr2---11664200-11665884 l43 e 84 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1833173 reads mapping to 780246 Unique genomic coordinates Making up 21626 groups Consisting of 9637 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000112433-chr5---111183916-111186285 l45 e 85 nr 1000000 chr ENSMUST00000109570-chr2-+-156375121-156377685 l45 e 85 nr 1500000 chr ENSMUST00000022976-chr15---59182527-59184685 l44 e 85 nr 2000000 chr ENSMUST00000085255-chr7-+-63151538-63152685 l43 e 85 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2128219 reads mapping to 838241 Unique genomic coordinates Making up 23065 groups Consisting of 10207 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000091884-chr18---61314182-61315586 l44 e 86 nr 1000000 chr ENSMUST00000030285-chr4-+-108910883-108912086 l45 e 86 nr 1500000 chr ENSMUST00000075329-chr1-+-176321177-176322186 l45 e 86 nr 2000000 chr ENSMUST00000075329-chr1-+-176321177-176322186 l45 e 86 nr 2500000 chr ENSMUST00000075329-chr1-+-176321177-176322186 l45 e 86 nr 3000000 chr ENSMUST00000042740-chr11-+-9431868-9432986 l42 e 86 nr 3500000 chr ENSMUST00000142018-chr5-+-104482791-104483886 l45 e 86 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 3704605 reads mapping to 833536 Unique genomic coordinates Making up 22734 groups Consisting of 10367 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000060642-chr15-+-91529814-91531587 l44 e 87 nr 1000000 chr ENSMUST00000170957-chr13---14144716-14147987 l44 e 87 nr 1500000 chr ENSMUST00000170957-chr13---14144716-14147987 l44 e 87 nr 2000000 chr ENSMUST00000153238-chr5---109075712-109080487 l45 e 87 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2369579 reads mapping to 853713 Unique genomic coordinates Making up 23277 groups Consisting of 10590 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000109685-chr2-+-155028517-155029588 l45 e 88 nr 1000000 chr ENSMUST00000044683-chr7---15194111-15195188 l43 e 88 nr 1500000 chr ENSMUST00000156187-chr15---83709361-83710588 l44 e 88 nr 2000000 chr ENSMUST00000034880-chr9-+-57977156-57977988 l43 e 88 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2035975 reads mapping to 810627 Unique genomic coordinates Making up 22093 groups Consisting of 9923 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000046386-chr8---124151966-124153089 l45 e 89 nr 1000000 chr ENSMUST00000120642-chr10-+-121113806-121115989 l46 e 89 nr 1500000 chr ENSMUST00000163385-chr5---54089015-54093089 l43 e 89 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1719747 reads mapping to 779794 Unique genomic coordinates Making up 21320 groups Consisting of 9746 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000161148-chr5---100152474-100155090 l45 e 90 nr 1000000 chr ENSMUST00000027315-chr1---74615753-74620790 l43 e 90 nr 1500000 chr ENSMUST00000098005-chr4---75889049-75890190 l43 e 90 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1808281 reads mapping to 812617 Unique genomic coordinates Making up 22406 groups Consisting of 10059 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000150889-chr17---13816501-13817691 l44 e 91 nr 1000000 chr ENSMUST00000089236-chr14-+-67533659-67538891 l44 e 91 nr 1500000 chr ENSMUST00000168658-chr12---79945713-79946791 l44 e 91 nr 2000000 chr ENSMUST00000149002-chr4-+-140873897-140875491 l45 e 91 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2367423 reads mapping to 864809 Unique genomic coordinates Making up 23566 groups Consisting of 10637 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000094665-chr2---120100470-120101692 l45 e 92 nr 1000000 chr ENSMUST00000094665-chr2---120100470-120101692 l45 e 92 nr 1500000 chr ENSMUST00000107547-chr4---59074598-59076092 l43 e 92 nr 2000000 chr ENSMUST00000112915-chr17---57231458-57232692 l44 e 92 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2460043 reads mapping to 821614 Unique genomic coordinates Making up 22792 groups Consisting of 10179 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000108083-chr7-+-34880450-34881093 l43 e 93 nr 1000000 chr ENSMUST00000027528-chr1-+-92827571-92828693 l43 e 93 nr 1500000 chr ENSMUST00000151927-chr3-+-103763426-103764593 l45 e 93 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1773026 reads mapping to 843297 Unique genomic coordinates Making up 23057 groups Consisting of 10508 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000138107-chr2---93845931-93846494 l43 e 94 nr 1000000 chr ENSMUST00000172963-chr7---7453482-7455294 l41 e 94 nr 1500000 chr ENSMUST00000022629-chr14---67480810-67481994 l44 e 94 nr 2000000 chr ENSMUST00000022629-chr14---67480810-67481994 l44 e 94 nr 2500000 chr ENSMUST00000170865-chr14-+-87884866-87887594 l44 e 94 nr 3000000 chr ENSMUST00000118535-chr8-+-126347214-126348294 l45 e 94 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 3052994 reads mapping to 870615 Unique genomic coordinates Making up 23876 groups Consisting of 10748 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000095468-chr6-+-124462423-124464395 l45 e 95 nr 1000000 chr ENSMUST00000160826-chr11---22734744-22737695 l44 e 95 nr 1500000 chr ENSMUST00000036092-chr5---23829651-23833095 l43 e 95 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1730055 reads mapping to 796000 Unique genomic coordinates Making up 21567 groups Consisting of 9787 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000055018-chr4---58498849-58500596 l43 e 96 nr 1000000 chr ENSMUST00000168747-chr7-+-66081943-66084796 l43 e 96 nr 1500000 chr ENSMUST00000108617-chr11-+-69715380-69726096 l44 e 96 nr 2000000 chr ENSMUST00000021850-chr13-+-34974600-34976796 l44 e 96 nr 2500000 chr ENSMUST00000131102-chr4---82649688-82650796 l43 e 96 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2729709 reads mapping to 866467 Unique genomic coordinates Making up 23523 groups Consisting of 10548 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000051777-chr7-+-107607786-107608897 l45 e 97 nr 1000000 chr ENSMUST00000171336-chr1-+-141036529-141037597 l45 e 97 nr 1500000 chr ENSMUST00000171336-chr1-+-141036529-141037597 l45 e 97 nr 2000000 chr ENSMUST00000110217-chr15-+-55278420-55281997 l44 e 97 nr 2500000 chr ENSMUST00000072940-chr6---131130348-131132397 l45 e 97 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2661380 reads mapping to 813716 Unique genomic coordinates Making up 22317 groups Consisting of 10007 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000128160-chr3-+-94819547-94820998 l43 e 98 nr 1000000 chr ENSMUST00000115104-chr1-+-34253546-34254698 l43 e 98 nr 1500000 chr ENSMUST00000148137-chr19---33850011-33852698 l44 e 98 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1900939 reads mapping to 825132 Unique genomic coordinates Making up 22387 groups Consisting of 10159 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000074590-chr6-+-124520874-124522099 l45 e 99 nr 1000000 chr ENSMUST00000092717-chr10---5987073-5993899 l42 e 99 nr 1500000 chr ENSMUST00000160420-chr4-+-124617110-124621899 l45 e 99 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1726477 reads mapping to 815731 Unique genomic coordinates Making up 22487 groups Consisting of 9947 clusters