Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000168063-chr16-+-29836694-29837900 l44 e 0 nr 1000000 chr ENSMUST00000121809-chr16---95807605-95808200 l44 e 0 nr 1500000 chr ENSMUST00000151244-chr16-+-43024551-43025600 l44 e 0 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1966425 reads mapping to 874313 Unique genomic coordinates Making up 22223 groups Consisting of 11045 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000115128-chr5-+-22983832-22985301 l43 e 1 nr 1000000 chr ENSMUST00000004684-chr8-+-3449796-3456601 l41 e 1 nr 1500000 chr ENSMUST00000045131-chr19---46006341-46007401 l44 e 1 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1972997 reads mapping to 888592 Unique genomic coordinates Making up 22865 groups Consisting of 11142 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000075848-chr5---74877675-74878802 l43 e 2 nr 1000000 chr ENSMUST00000087264-chr5-+-66166324-66167402 l43 e 2 nr 1500000 chr ENSMUST00000147848-chr16-+-91044901-91045502 l44 e 2 nr 2000000 chr ENSMUST00000034552-chr9---51764678-51765802 l43 e 2 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2068870 reads mapping to 982634 Unique genomic coordinates Making up 24803 groups Consisting of 12346 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000031317-chr5---91034941-91036403 l43 e 3 nr 1000000 chr ENSMUST00000073527-chr1-+-132085933-132087303 l45 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 ENSMUST00000128483-chr11---53496204-53498303 l44 e 3 nr 3500000 chr ENSMUST00000107385-chr11---100363974-100365003 l46 e 3 nr 4000000 chr ENSMUST00000047023-chr4-+-84745662-84747303 l43 e 3 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 4332761 reads mapping to 908966 Unique genomic coordinates Making up 23225 groups Consisting of 11501 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000165057-chr3---101392429-101397004 l45 e 4 nr 1000000 chr ENSMUST00000143690-chr2-+-164311981-164313004 l45 e 4 nr 1500000 chr ENSMUST00000039074-chr15-+-89351034-89352304 l44 e 4 nr 2000000 chr ENSMUST00000118975-chrX---12954992-12955804 l43 e 4 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2025469 reads mapping to 950673 Unique genomic coordinates Making up 24182 groups Consisting of 12161 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000163443-chr19-+-55360523-55361405 l44 e 5 nr 1000000 chr ENSMUST00000156242-chr16-+-91708523-91711005 l44 e 5 nr 1500000 chr ENSMUST00000018506-chr11---106849943-106854505 l46 e 5 nr 2000000 chr ENSMUST00000068702-chr2-+-92187653-92190105 l43 e 5 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2382949 reads mapping to 956314 Unique genomic coordinates Making up 24239 groups Consisting of 12047 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000046288-chr17-+-31657060-31657706 l44 e 6 nr 1000000 chr ENSMUST00000071812-chr3-+-87915726-87922206 l43 e 6 nr 1500000 chr ENSMUST00000031851-chr6-+-38064108-38065806 l43 e 6 nr 2000000 chr ENSMUST00000138135-chr15-+-10143220-10144006 l44 e 6 nr 2500000 chr ENSMUST00000171110-chr5-+-48654380-48655406 l43 e 6 nr 3000000 chr ENSMUST00000034279-chr8-+-123094117-123097306 l45 e 6 nr 3500000 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 3706481 reads mapping to 909538 Unique genomic coordinates Making up 23547 groups Consisting of 11547 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000048782-chr17-+-48371903-48372507 l44 e 7 nr 1000000 chr ENSMUST00000102643-chr11-+-62402653-62405007 l44 e 7 nr 1500000 chr ENSMUST00000081980-chr11-+-59773561-59775707 l44 e 7 nr 2000000 chr ENSMUST00000142780-chr18-+-36791221-36793007 l44 e 7 nr 2500000 chr ENSMUST00000066465-chr7-+-126685331-126687307 l45 e 7 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2719739 reads mapping to 939091 Unique genomic coordinates Making up 24142 groups Consisting of 11915 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000105691-chr4-+-149016804-149023008 l45 e 8 nr 1000000 chr ENSMUST00000070246-chr4-+-133681622-133683508 l45 e 8 nr 1500000 chr ENSMUST00000155610-chr15---89350527-89354108 l44 e 8 nr 2000000 chr ENSMUST00000050149-chr7-+-119494339-119498708 l45 e 8 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2279561 reads mapping to 900645 Unique genomic coordinates Making up 23167 groups Consisting of 11357 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000065698-chr5-+-114185791-114190609 l45 e 9 nr 1000000 chr ENSMUST00000064062-chr6-+-71781325-71782009 l43 e 9 nr 1500000 chr ENSMUST00000168175-chr17-+-23480944-23483909 l44 e 9 nr 2000000 chr ENSMUST00000019882-chr7-+-31016967-31018409 l43 e 9 nr 2500000 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 2607955 reads mapping to 891215 Unique genomic coordinates Making up 22764 groups Consisting of 11505 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000077984-chr17---33019616-33021610 l44 e 10 nr 1000000 chr ENSMUST00000106113-chr11-+-121167582-121171210 l46 e 10 nr 1500000 chr ENSMUST00000016034-chr10---92998870-93000610 l44 e 10 nr 2000000 chr ENSMUST00000139238-chr2---32199028-32200110 l43 e 10 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2428588 reads mapping to 897784 Unique genomic coordinates Making up 22806 groups Consisting of 11266 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000115267-chr5-+-20156373-20157511 l43 e 11 nr 1000000 chr ENSMUST00000032892-chr7-+-124691598-124693111 l45 e 11 nr 1500000 chr ENSMUST00000110686-chr2-+-120809570-120810711 l45 e 11 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1927429 reads mapping to 899791 Unique genomic coordinates Making up 23101 groups Consisting of 11449 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000167054-chr2---181041164-181042612 l45 e 12 nr 1000000 chr ENSMUST00000150490-chr11-+-96122426-96126012 l44 e 12 nr 1500000 chr ENSMUST00000030486-chr4-+-115237115-115239712 l45 e 12 nr 2000000 chr ENSMUST00000140187-chr16---4766841-4771512 l42 e 12 nr 2500000 chr ENSMUST00000156183-chr7---134117467-134119612 l45 e 12 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2588546 reads mapping to 943891 Unique genomic coordinates Making up 24030 groups Consisting of 11751 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000159574-chr13-+-104918809-104919913 l46 e 13 nr 1000000 chr ENSMUST00000159574-chr13-+-104918809-104919913 l46 e 13 nr 1500000 chr ENSMUST00000117448-chrX---111166120-111167913 l45 e 13 nr 2000000 chr ENSMUST00000052798-chr10-+-127508624-127509713 l46 e 13 nr 2500000 chr ENSMUST00000102837-chr4---73389463-73391513 l43 e 13 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2849167 reads mapping to 949521 Unique genomic coordinates Making up 24099 groups Consisting of 12072 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000117097-chr4---143184965-143187514 l45 e 14 nr 1000000 chr ENSMUST00000172278-chr6-+-36472670-36478414 l43 e 14 nr 1500000 chr ENSMUST00000164350-chr13---64471044-64471614 l44 e 14 nr 2000000 chr ENSMUST00000077159-chr6---120970701-120973014 l45 e 14 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2329014 reads mapping to 953618 Unique genomic coordinates Making up 24046 groups Consisting of 12079 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000076623-chr5---63123709-63125715 l43 e 15 nr 1000000 chr ENSMUST00000118437-chr4-+-61269324-61272015 l43 e 15 nr 1500000 chr ENSMUST00000162735-chr12---102883653-102887915 l46 e 15 nr 2000000 chr ENSMUST00000155491-chr5-+-145065389-145066515 l45 e 15 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2184145 reads mapping to 950259 Unique genomic coordinates Making up 24176 groups Consisting of 12141 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000173945-chr2-+-164615911-164619316 l45 e 16 nr 1000000 chr ENSMUST00000060208-chr2-+-70075374-70077516 l43 e 16 nr 1500000 chr ENSMUST00000143209-chr11---51027047-51028216 l44 e 16 nr 2000000 chr ENSMUST00000111936-chr19-+-45586635-45589116 l44 e 16 nr 2500000 chr ENSMUST00000067150-chr5-+-34074266-34079716 l43 e 16 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2750360 reads mapping to 916649 Unique genomic coordinates Making up 22945 groups Consisting of 11467 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000030817-chr4---149561124-149562117 l45 e 17 nr 1000000 chr ENSMUST00000068110-chr5-+-58109260-58114017 l43 e 17 nr 1500000 chr ENSMUST00000063683-chr17---7159314-7162617 l42 e 17 nr 2000000 chr ENSMUST00000077569-chrX---45229062-45230217 l43 e 17 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2021110 reads mapping to 955999 Unique genomic coordinates Making up 24433 groups Consisting of 11947 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000022166-chr13---98700233-98701718 l44 e 18 nr 1000000 chr ENSMUST00000034239-chr8-+-97610688-97611818 l43 e 18 nr 1500000 chr ENSMUST00000165952-chr10-+-7420908-7423418 l42 e 18 nr 2000000 chr ENSMUST00000123104-chr2-+-118643100-118645118 l45 e 18 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2315478 reads mapping to 926311 Unique genomic coordinates Making up 23473 groups Consisting of 11617 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000100051-chr2---69350804-69352819 l43 e 19 nr 1000000 chr ENSMUST00000151609-chr17-+-9197557-9199119 l42 e 19 nr 1500000 chr ENSMUST00000082024-chr12-+-79925176-79927819 l44 e 19 nr 2000000 chr ENSMUST00000073194-chr4-+-137492073-137493819 l45 e 19 nr 2500000 chr ENSMUST00000000312-chr8-+-109176907-109178319 l45 e 19 nr 3000000 chr ENSMUST00000000312-chr8-+-109176907-109178319 l45 e 19 nr 3500000 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 3741447 reads mapping to 976746 Unique genomic coordinates Making up 24949 groups Consisting of 12345 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000169922-chr7---80643980-80647520 l43 e 20 nr 1000000 chr ENSMUST00000004827-chr1---173523054-173524820 l45 e 20 nr 1500000 chr ENSMUST00000058749-chr15-+-96220807-96222120 l44 e 20 nr 2000000 chr ENSMUST00000082373-chr7-+-62318139-62319220 l43 e 20 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2145471 reads mapping to 878816 Unique genomic coordinates Making up 22378 groups Consisting of 11174 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000160894-chr6---76881840-76883021 l43 e 21 nr 1000000 chr ENSMUST00000161075-chr1-+-180127849-180128921 l45 e 21 nr 1500000 chr ENSMUST00000043108-chr3-+-127288437-127289621 l45 e 21 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1718010 reads mapping to 870962 Unique genomic coordinates Making up 22441 groups Consisting of 10955 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000127139-chr3-+-27855567-27856322 l43 e 22 nr 1000000 chr ENSMUST00000163313-chr15-+-38764688-38766122 l44 e 22 nr 1500000 chr ENSMUST00000066193-chr18-+-52853333-52855322 l44 e 22 nr 2000000 chr ENSMUST00000111917-chr14---35080187-35083222 l44 e 22 nr 2500000 chr ENSMUST00000162666-chr6-+-128837616-128838622 l45 e 22 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2635426 reads mapping to 928881 Unique genomic coordinates Making up 23569 groups Consisting of 11680 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000137477-chr4---82230952-82233223 l43 e 23 nr 1000000 chr ENSMUST00000100329-chr2---25100341-25106023 l43 e 23 nr 1500000 chr ENSMUST00000156572-chr15---98592656-98593423 l44 e 23 nr 2000000 chr ENSMUST00000053521-chr7---30690573-30691123 l43 e 23 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2158611 reads mapping to 938128 Unique genomic coordinates Making up 24083 groups Consisting of 11831 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000023820-chr3-+-122601119-122602424 l45 e 24 nr 1000000 chr ENSMUST00000025774-chr19---5283143-5285224 l42 e 24 nr 1500000 chr ENSMUST00000036315-chr11-+-57123610-57124724 l44 e 24 nr 2000000 chr ENSMUST00000046157-chr3---27315084-27319024 l43 e 24 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2425583 reads mapping to 961179 Unique genomic coordinates Making up 24226 groups Consisting of 12280 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000154896-chr11-+-100898973-100901725 l46 e 25 nr 1000000 chr ENSMUST00000044125-chr5---102090353-102091525 l45 e 25 nr 1500000 chr ENSMUST00000136069-chr7-+-52008686-52009825 l43 e 25 nr 2000000 chr ENSMUST00000006138-chr16-+-3899372-3902625 l42 e 25 nr 2500000 chr ENSMUST00000120159-chr17-+-75564547-75565125 l44 e 25 nr 3000000 chr ENSMUST00000120159-chr17-+-75564547-75565125 l44 e 25 nr 3500000 chr ENSMUST00000165643-chr18---38117085-38120125 l44 e 25 nr 4000000 chr ENSMUST00000034519-chr9---40795364-40796525 l43 e 25 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 4053526 reads mapping to 917963 Unique genomic coordinates Making up 23053 groups Consisting of 11508 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000172523-chr17-+-35118807-35120926 l44 e 26 nr 1000000 chr ENSMUST00000027575-chr1-+-100319166-100320426 l45 e 26 nr 1500000 chr ENSMUST00000087254-chr1---71664653-71666626 l43 e 26 nr 2000000 chr ENSMUST00000074371-chr19-+-53993605-53994826 l44 e 26 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2381036 reads mapping to 975869 Unique genomic coordinates Making up 24589 groups Consisting of 12348 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000134035-chr16---18246882-18248527 l44 e 27 nr 1000000 chr ENSMUST00000153221-chrX-+-147022772-147025127 l45 e 27 nr 1500000 chr ENSMUST00000119093-chr10---120383760-120384827 l46 e 27 nr 2000000 chr ENSMUST00000165796-chr16---93792395-93794127 l44 e 27 nr 2500000 chr ENSMUST00000042070-chrX---101755524-101756627 l45 e 27 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2509065 reads mapping to 898867 Unique genomic coordinates Making up 22877 groups Consisting of 11512 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000003710-chr6-+-86914971-86916128 l43 e 28 nr 1000000 chr ENSMUST00000025706-chr4-+-151490043-151494228 l45 e 28 nr 1500000 chr ENSMUST00000003320-chr16-+-20504218-20510028 l44 e 28 nr 2000000 chr ENSMUST00000137922-chr9---53462877-53464328 l43 e 28 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2053946 reads mapping to 924422 Unique genomic coordinates Making up 23723 groups Consisting of 11533 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000029240-chr3-+-28617091-28618929 l43 e 29 nr 1000000 chr ENSMUST00000171945-chr6---126856792-126857529 l45 e 29 nr 1500000 chr ENSMUST00000001534-chr11---101827574-101828329 l46 e 29 nr 2000000 chr ENSMUST00000097949-chr4-+-102262328-102264029 l45 e 29 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2465136 reads mapping to 906972 Unique genomic coordinates Making up 22938 groups Consisting of 11436 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000120633-chr15---99147656-99154530 l44 e 30 nr 1000000 chr ENSMUST00000020625-chr11-+-51411278-51414830 l44 e 30 nr 1500000 chr ENSMUST00000021307-chr11-+-102743166-102746530 l46 e 30 nr 2000000 chr ENSMUST00000164984-chr6---124808465-124813730 l45 e 30 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2321750 reads mapping to 963857 Unique genomic coordinates Making up 24724 groups Consisting of 12388 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000139069-chr4-+-151351608-151355331 l45 e 31 nr 1000000 chr ENSMUST00000055843-chr9---106786316-106789331 l45 e 31 nr 1500000 chr ENSMUST00000127259-chr17---66787007-66788231 l44 e 31 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1965412 reads mapping to 953676 Unique genomic coordinates Making up 24241 groups Consisting of 12180 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000019913-chr10-+-34327112-34331032 l44 e 32 nr 1000000 chr ENSMUST00000151946-chr4---97246672-97247832 l43 e 32 nr 1500000 chr ENSMUST00000027493-chr1---95220279-95221432 l43 e 32 nr 2000000 chr ENSMUST00000025981-chr19---40676795-40677932 l44 e 32 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2401422 reads mapping to 916263 Unique genomic coordinates Making up 23624 groups Consisting of 11433 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000036296-chr3---101667913-101669033 l45 e 33 nr 1000000 chr ENSMUST00000032891-chr7---125336464-125337733 l45 e 33 nr 1500000 chr ENSMUST00000022580-chr14---76176303-76177433 l44 e 33 nr 2000000 chr ENSMUST00000173640-chr8-+-107793701-107797333 l45 e 33 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2065096 reads mapping to 937275 Unique genomic coordinates Making up 24074 groups Consisting of 11845 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000043907-chr17-+-25032061-25033234 l44 e 34 nr 1000000 chr ENSMUST00000110855-chr1-+-193601762-193608134 l45 e 34 nr 1500000 chr ENSMUST00000036288-chr1-+-130063970-130066134 l45 e 34 nr 2000000 chr ENSMUST00000140789-chr2---180843149-180849934 l45 e 34 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2396964 reads mapping to 900866 Unique genomic coordinates Making up 22680 groups Consisting of 11414 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000028288-chr2---26318730-26322635 l43 e 35 nr 1000000 chr ENSMUST00000059672-chr19---41406199-41407335 l44 e 35 nr 1500000 chr ENSMUST00000022734-chr14-+-119371085-119372535 l46 e 35 nr 2000000 chr ENSMUST00000080536-chr8---82222746-82223835 l43 e 35 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2098926 reads mapping to 949421 Unique genomic coordinates Making up 23998 groups Consisting of 11973 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000161286-chr16---22244622-22247836 l44 e 36 nr 1000000 chr ENSMUST00000167466-chr12---93051772-93057236 l44 e 36 nr 1500000 chr ENSMUST00000068545-chr13---17763035-17764936 l44 e 36 nr 2000000 chr ENSMUST00000026866-chr3---41545417-41546436 l43 e 36 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2326463 reads mapping to 931645 Unique genomic coordinates Making up 23609 groups Consisting of 11855 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000058524-chr6---38237396-38243637 l43 e 37 nr 1000000 chr ENSMUST00000037840-chr1---121845748-121846837 l45 e 37 nr 1500000 chr ENSMUST00000096119-chr19---32059144-32061937 l44 e 37 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1874908 reads mapping to 889752 Unique genomic coordinates Making up 22686 groups Consisting of 11255 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000114787-chr16---37115028-37116638 l44 e 38 nr 1000000 chr ENSMUST00000026175-chr11-+-121298087-121299238 l46 e 38 nr 1500000 chr ENSMUST00000021161-chr11---72055496-72057638 l44 e 38 nr 2000000 chr ENSMUST00000097352-chr17-+-31741198-31744638 l44 e 38 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2474035 reads mapping to 896734 Unique genomic coordinates Making up 22746 groups Consisting of 11290 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000035890-chr4-+-19745872-19747139 l43 e 39 nr 1000000 chr ENSMUST00000142420-chr4-+-137774817-137775939 l45 e 39 nr 1500000 chr ENSMUST00000056073-chr14---21255445-21256539 l44 e 39 nr 2000000 chr ENSMUST00000127149-chr4---119055776-119056439 l45 e 39 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2319206 reads mapping to 948881 Unique genomic coordinates Making up 24255 groups Consisting of 12112 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000094522-chr4-+-143440083-143443540 l45 e 40 nr 1000000 chr ENSMUST00000093552-chr7---20286662-20289240 l43 e 40 nr 1500000 chr ENSMUST00000113265-chr17---48004082-48007240 l44 e 40 nr 2000000 chr ENSMUST00000002850-chr7---53283858-53285040 l43 e 40 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2210965 reads mapping to 926094 Unique genomic coordinates Making up 23370 groups Consisting of 11746 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000039205-chr17-+-80582032-80584441 l44 e 41 nr 1000000 chr ENSMUST00000110297-chr15-+-41654373-41655541 l44 e 41 nr 1500000 chr ENSMUST00000106543-chr11-+-115207089-115208241 l46 e 41 nr 2000000 chr ENSMUST00000124531-chr6---115766751-115768341 l45 e 41 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2159675 reads mapping to 975939 Unique genomic coordinates Making up 24853 groups Consisting of 12223 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000161956-chr3-+-65157689-65162742 l43 e 42 nr 1000000 chr ENSMUST00000022881-chr15-+-25900808-25903442 l44 e 42 nr 1500000 chr ENSMUST00000165569-chr14---75982641-75984542 l44 e 42 nr 2000000 chr ENSMUST00000153365-chr5---109076066-109086042 l45 e 42 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2358791 reads mapping to 899751 Unique genomic coordinates Making up 22825 groups Consisting of 11445 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000032343-chr6---136855832-136857243 l45 e 43 nr 1000000 chr ENSMUST00000162364-chr1-+-55209019-55211743 l43 e 43 nr 1500000 chr ENSMUST00000100262-chr15---96401849-96407743 l44 e 43 nr 2000000 chr ENSMUST00000136399-chr9---14500674-14502843 l43 e 43 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2074078 reads mapping to 939792 Unique genomic coordinates Making up 24042 groups Consisting of 12049 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000106919-chr4---101507574-101511244 l45 e 44 nr 1000000 chr ENSMUST00000014777-chr15---90473757-90474644 l44 e 44 nr 1500000 chr ENSMUST00000000287-chr11---88804611-88806344 l44 e 44 nr 2000000 chr ENSMUST00000128067-chr4---148341133-148345244 l45 e 44 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2293079 reads mapping to 929881 Unique genomic coordinates Making up 23823 groups Consisting of 11912 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000172157-chr12-+-77389368-77391345 l44 e 45 nr 1000000 chr ENSMUST00000126865-chr9-+-46015505-46021145 l43 e 45 nr 1500000 chr ENSMUST00000105534-chr10---13409830-13410945 l44 e 45 nr 2000000 chr ENSMUST00000171332-chr4-+-137090539-137092145 l45 e 45 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2324102 reads mapping to 947122 Unique genomic coordinates Making up 24009 groups Consisting of 12049 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000112771-chr5-+-104602527-104609146 l45 e 46 nr 1000000 chr ENSMUST00000035220-chr9-+-108618694-108619746 l45 e 46 nr 1500000 chr ENSMUST00000059348-chr17---47531509-47533146 l44 e 46 nr 2000000 chr ENSMUST00000048359-chr8-+-109241370-109242546 l45 e 46 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2212463 reads mapping to 964905 Unique genomic coordinates Making up 24619 groups Consisting of 12029 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000098414-chr7---59252535-59255647 l43 e 47 nr 1000000 chr ENSMUST00000124320-chr10-+-75541362-75543247 l44 e 47 nr 1500000 chr ENSMUST00000099088-chr3---58954468-58957447 l43 e 47 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1904131 reads mapping to 885485 Unique genomic coordinates Making up 22663 groups Consisting of 11130 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000072607-chr5---140239459-140249248 l45 e 48 nr 1000000 chr ENSMUST00000015278-chr7---73543074-73544148 l43 e 48 nr 1500000 chr ENSMUST00000110087-chr13---49356923-49360648 l44 e 48 nr 2000000 chr ENSMUST00000003527-chr7---29113222-29117048 l43 e 48 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2156784 reads mapping to 911506 Unique genomic coordinates Making up 22969 groups Consisting of 11520 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000053570-chr11-+-11387174-11389149 l44 e 49 nr 1000000 chr ENSMUST00000142572-chr7-+-148445089-148448649 l45 e 49 nr 1500000 chr ENSMUST00000079751-chr10---48963631-48964749 l44 e 49 nr 2000000 chr ENSMUST00000062753-chr19-+-18787683-18788649 l44 e 49 nr 2500000 chr ENSMUST00000085691-chr7-+-31548775-31552949 l43 e 49 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2638623 reads mapping to 943190 Unique genomic coordinates Making up 24029 groups Consisting of 11994 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000145692-chr2-+-158682316-158683950 l45 e 50 nr 1000000 chr ENSMUST00000119341-chr13-+-46655373-46656450 l44 e 50 nr 1500000 chr ENSMUST00000021930-chr13-+-54187242-54189850 l44 e 50 nr 2000000 chr ENSMUST00000132734-chr5---51863337-51866150 l43 e 50 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2208860 reads mapping to 927693 Unique genomic coordinates Making up 23782 groups Consisting of 11696 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000016279-chr5---151376075-151377151 l45 e 51 nr 1000000 chr ENSMUST00000130075-chr1-+-60155091-60155651 l43 e 51 nr 1500000 chr ENSMUST00000168038-chr3---79644969-79645651 l43 e 51 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1883424 reads mapping to 880833 Unique genomic coordinates Making up 22500 groups Consisting of 11161 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000067847-chr4-+-114681376-114683252 l45 e 52 nr 1000000 chr ENSMUST00000026063-chr19---56603649-56604652 l44 e 52 nr 1500000 chr ENSMUST00000109691-chr12-+-118966630-118967752 l46 e 52 nr 2000000 chr ENSMUST00000048150-chr5-+-44073839-44075952 l43 e 52 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2260650 reads mapping to 961968 Unique genomic coordinates Making up 24182 groups Consisting of 12302 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000107508-chr11-+-98490161-98491753 l44 e 53 nr 1000000 chr ENSMUST00000061385-chr8-+-88480895-88482053 l43 e 53 nr 1500000 chr ENSMUST00000097644-chr1---93825362-93827753 l43 e 53 nr 2000000 chr ENSMUST00000115567-chr18---39583537-39584653 l44 e 53 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2466930 reads mapping to 945453 Unique genomic coordinates Making up 24078 groups Consisting of 12032 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000029833-chr3-+-154850128-154851854 l45 e 54 nr 1000000 chr ENSMUST00000018990-chr11-+-35590569-35592754 l44 e 54 nr 1500000 chr ENSMUST00000037480-chr11-+-98759545-98766354 l44 e 54 nr 2000000 chr ENSMUST00000094120-chr5-+-145537472-145539354 l45 e 54 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2231753 reads mapping to 949825 Unique genomic coordinates Making up 24198 groups Consisting of 12103 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000064355-chr4-+-138983450-138986755 l45 e 55 nr 1000000 chr ENSMUST00000167032-chr1-+-89607140-89609255 l43 e 55 nr 1500000 chr ENSMUST00000106347-chr3-+-130220102-130221155 l45 e 55 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1792308 reads mapping to 902233 Unique genomic coordinates Making up 23065 groups Consisting of 11488 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000143629-chr5-+-123721604-123724756 l45 e 56 nr 1000000 chr ENSMUST00000040599-chr1---137331157-137338856 l45 e 56 nr 1500000 chr ENSMUST00000131615-chr2---63809564-63819456 l43 e 56 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1869215 reads mapping to 936881 Unique genomic coordinates Making up 23848 groups Consisting of 11837 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000135055-chr4---129271803-129273157 l45 e 57 nr 1000000 chr ENSMUST00000075578-chr8---126476359-126479157 l45 e 57 nr 1500000 chr ENSMUST00000139666-chr17-+-14040361-14043157 l44 e 57 nr 2000000 chr ENSMUST00000140298-chr7-+-35223156-35224257 l43 e 57 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2194762 reads mapping to 946265 Unique genomic coordinates Making up 23994 groups Consisting of 12035 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000109822-chr11---5800823-5803758 l42 e 58 nr 1000000 chr ENSMUST00000132390-chr5---5226664-5227758 l41 e 58 nr 1500000 chr ENSMUST00000144593-chr1---8666054-8668558 l41 e 58 nr 2000000 chr ENSMUST00000091817-chr18-+-78114077-78115158 l44 e 58 nr 2500000 chr ENSMUST00000152632-chr9---96999722-97001158 l43 e 58 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2562876 reads mapping to 888262 Unique genomic coordinates Making up 22577 groups Consisting of 11172 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000120643-chr7-+-53179442-53180459 l43 e 59 nr 1000000 chr ENSMUST00000111669-chr1-+-161821640-161822759 l45 e 59 nr 1500000 chr ENSMUST00000028644-chr2---93301987-93302659 l43 e 59 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1964533 reads mapping to 896043 Unique genomic coordinates Making up 22618 groups Consisting of 11454 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000112950-chr2-+-36639796-36640360 l43 e 60 nr 1000000 chr ENSMUST00000000285-chr11---88913241-88914360 l44 e 60 nr 1500000 chr ENSMUST00000106542-chr11---115209021-115212960 l46 e 60 nr 2000000 chr ENSMUST00000031838-chr6---49035220-49039060 l43 e 60 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2155254 reads mapping to 902121 Unique genomic coordinates Making up 22732 groups Consisting of 11280 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000171613-chr6---3664149-3665261 l41 e 61 nr 1000000 chr ENSMUST00000167800-chr8-+-12999449-13004461 l43 e 61 nr 1500000 chr ENSMUST00000028728-chr2---120732080-120733261 l45 e 61 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1863475 reads mapping to 910305 Unique genomic coordinates Making up 23443 groups Consisting of 11617 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000102698-chr2-+-72035894-72037462 l43 e 62 nr 1000000 chr ENSMUST00000072835-chr18---46444767-46445862 l44 e 62 nr 1500000 chr ENSMUST00000107909-chr11---88152884-88158662 l44 e 62 nr 2000000 chr ENSMUST00000095633-chr17-+-20707326-20708162 l44 e 62 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2496908 reads mapping to 952071 Unique genomic coordinates Making up 24189 groups Consisting of 12005 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000101426-chr6-+-48793284-48795363 l43 e 63 nr 1000000 chr ENSMUST00000053760-chr1-+-78660401-78664163 l43 e 63 nr 1500000 chr ENSMUST00000109416-chr2-+-163323531-163324663 l45 e 63 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1773997 reads mapping to 907452 Unique genomic coordinates Making up 23025 groups Consisting of 11513 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000143370-chr4---134779379-134782564 l45 e 64 nr 1000000 chr ENSMUST00000111891-chr6---136880281-136881364 l45 e 64 nr 1500000 chr ENSMUST00000022918-chr15-+-41621069-41621664 l44 e 64 nr 2000000 chr ENSMUST00000170572-chr9-+-91264336-91266164 l43 e 64 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2156265 reads mapping to 953305 Unique genomic coordinates Making up 24137 groups Consisting of 11991 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000142085-chr19---7279637-7280265 l42 e 65 nr 1000000 chr ENSMUST00000167541-chr15---54678304-54680365 l44 e 65 nr 1500000 chr ENSMUST00000112092-chr14-+-31923101-31924265 l44 e 65 nr 2000000 chr ENSMUST00000147141-chr2---170486633-170487965 l45 e 65 nr 2500000 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 2667957 reads mapping to 895196 Unique genomic coordinates Making up 23316 groups Consisting of 11190 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000165805-chrX-+-130457675-130458866 l45 e 66 nr 1000000 chr ENSMUST00000092721-chr10-+-5293203-5294766 l42 e 66 nr 1500000 chr ENSMUST00000114080-chr5-+-39127222-39127766 l43 e 66 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1680667 reads mapping to 821086 Unique genomic coordinates Making up 20887 groups Consisting of 10228 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000141267-chr3-+-121704960-121707767 l45 e 67 nr 1000000 chr ENSMUST00000106108-chr4---126602246-126603767 l45 e 67 nr 1500000 chr ENSMUST00000163358-chr16-+-44965367-44966967 l44 e 67 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1985380 reads mapping to 915795 Unique genomic coordinates Making up 23200 groups Consisting of 11638 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000105751-chr4-+-143920152-143923368 l45 e 68 nr 1000000 chr ENSMUST00000152950-chr5---5545853-5547268 l41 e 68 nr 1500000 chr ENSMUST00000023365-chr16-+-13698466-13699668 l44 e 68 nr 2000000 chr ENSMUST00000101171-chr6-+-89618799-89620468 l43 e 68 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2169901 reads mapping to 957352 Unique genomic coordinates Making up 24485 groups Consisting of 12097 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000161196-chr4-+-119274514-119277469 l45 e 69 nr 1000000 chr ENSMUST00000095246-chr17---50872452-50876069 l44 e 69 nr 1500000 chr ENSMUST00000023099-chr15---96517825-96524569 l44 e 69 nr 2000000 chr ENSMUST00000028863-chr2-+-139996382-139997169 l45 e 69 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2433258 reads mapping to 895912 Unique genomic coordinates Making up 22903 groups Consisting of 11194 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000040465-chr3---144746550-144748570 l45 e 70 nr 1000000 chr ENSMUST00000128083-chr16---11173678-11175070 l44 e 70 nr 1500000 chr ENSMUST00000163147-chr1---121504064-121505170 l45 e 70 nr 2000000 chr ENSMUST00000099350-chr19---47904374-47905470 l44 e 70 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2449472 reads mapping to 893980 Unique genomic coordinates Making up 22747 groups Consisting of 11285 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000164875-chr5---109487769-109488471 l45 e 71 nr 1000000 chr ENSMUST00000075578-chr8---126494371-126495571 l45 e 71 nr 1500000 chr ENSMUST00000048934-chr2-+-61649140-61652171 l43 e 71 nr 2000000 chr ENSMUST00000034879-chr9-+-56334923-56338271 l43 e 71 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2051974 reads mapping to 908933 Unique genomic coordinates Making up 23275 groups Consisting of 11339 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000071642-chr4-+-32844212-32846672 l43 e 72 nr 1000000 chr ENSMUST00000115077-chr5-+-23913886-23915872 l43 e 72 nr 1500000 chr ENSMUST00000023452-chr16---17139157-17143472 l44 e 72 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1949774 reads mapping to 937934 Unique genomic coordinates Making up 23959 groups Consisting of 12109 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000032998-chr7---106626406-106629073 l45 e 73 nr 1000000 chr ENSMUST00000154462-chr4---57776203-57776773 l43 e 73 nr 1500000 chr ENSMUST00000081204-chr14---90296351-90298273 l44 e 73 nr 2000000 chr ENSMUST00000150686-chr8---12914582-12915473 l43 e 73 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2152690 reads mapping to 909630 Unique genomic coordinates Making up 23195 groups Consisting of 11641 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000043589-chr2---142536931-142539274 l45 e 74 nr 1000000 chr ENSMUST00000015950-chr5---45840746-45841474 l43 e 74 nr 1500000 chr ENSMUST00000138783-chr13-+-13876326-13876874 l44 e 74 nr 2000000 chr ENSMUST00000078112-chr6---29450702-29453374 l43 e 74 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2219246 reads mapping to 938185 Unique genomic coordinates Making up 23848 groups Consisting of 11489 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000123619-chr3-+-113792550-113793675 l45 e 75 nr 1000000 chr ENSMUST00000163193-chr16---94359915-94361075 l44 e 75 nr 1500000 chr ENSMUST00000052286-chr14---26846768-26848775 l44 e 75 nr 2000000 chr ENSMUST00000033326-chr7-+-117267470-117268675 l45 e 75 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2090689 reads mapping to 936293 Unique genomic coordinates Making up 23429 groups Consisting of 12002 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000002502-chr3-+-20015958-20018376 l43 e 76 nr 1000000 chr ENSMUST00000135831-chr2-+-155062547-155063176 l45 e 76 nr 1500000 chr ENSMUST00000112322-chr17---85072363-85074276 l44 e 76 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1959968 reads mapping to 883988 Unique genomic coordinates Making up 22724 groups Consisting of 11202 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000112378-chr5-+-112694880-112696977 l45 e 77 nr 1000000 chr ENSMUST00000160472-chr1-+-54410963-54414177 l43 e 77 nr 1500000 chr ENSMUST00000038223-chr2---83763226-83764477 l43 e 77 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1915601 reads mapping to 918316 Unique genomic coordinates Making up 23535 groups Consisting of 11729 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000136669-chr4---94252451-94254778 l43 e 78 nr 1000000 chr ENSMUST00000037011-chr18---46334702-46336278 l44 e 78 nr 1500000 chr ENSMUST00000164548-chr14-+-15623081-15624178 l44 e 78 nr 2000000 chr ENSMUST00000171638-chr3-+-33939485-33940578 l43 e 78 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2396317 reads mapping to 989639 Unique genomic coordinates Making up 25065 groups Consisting of 12506 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000144006-chr18-+-16974916-16976079 l44 e 79 nr 1000000 chr ENSMUST00000047704-chr19---16058603-16059479 l44 e 79 nr 1500000 chr ENSMUST00000062883-chr10-+-70019488-70021479 l44 e 79 nr 2000000 chr ENSMUST00000028392-chr2-+-80158817-80159979 l43 e 79 nr 2500000 chr ENSMUST00000048937-chr9-+-75295609-75298879 l43 e 79 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2544212 reads mapping to 912223 Unique genomic coordinates Making up 23031 groups Consisting of 11499 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000161226-chr5---131933209-131934280 l45 e 80 nr 1000000 chr ENSMUST00000164960-chr6-+-118016403-118016980 l45 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 ENSMUST00000024112-chr16-+-97757690-97758280 l44 e 80 nr 3000000 chr ENSMUST00000041968-chr7---96288233-96290980 l43 e 80 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 3186079 reads mapping to 944628 Unique genomic coordinates Making up 23935 groups Consisting of 12202 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000028233-chr2---34894231-34895781 l43 e 81 nr 1000000 chr ENSMUST00000028233-chr2---34894231-34895781 l43 e 81 nr 1500000 chr ENSMUST00000043914-chr14-+-65650557-65651681 l44 e 81 nr 2000000 chr ENSMUST00000113438-chr6---92726887-92727981 l43 e 81 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2122647 reads mapping to 888308 Unique genomic coordinates Making up 22402 groups Consisting of 11329 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000113312-chr6---100523075-100524282 l45 e 82 nr 1000000 chr ENSMUST00000087027-chr1---82495010-82496082 l43 e 82 nr 1500000 chr ENSMUST00000114731-chr2-+-14355333-14356482 l43 e 82 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1903273 reads mapping to 940754 Unique genomic coordinates Making up 23924 groups Consisting of 11925 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000065530-chr5-+-66651151-66652983 l43 e 83 nr 1000000 chr ENSMUST00000131381-chr4---124412974-124414383 l45 e 83 nr 1500000 chr ENSMUST00000144141-chr14---103498073-103498783 l46 e 83 nr 2000000 chr ENSMUST00000136501-chr6-+-83300760-83301883 l43 e 83 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2199410 reads mapping to 968673 Unique genomic coordinates Making up 24822 groups Consisting of 12315 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000154982-chr17---24247315-24248584 l44 e 84 nr 1000000 chr ENSMUST00000098477-chr9-+-92245264-92246484 l43 e 84 nr 1500000 chr ENSMUST00000108100-chr11---83900113-83901184 l44 e 84 nr 2000000 chr ENSMUST00000081659-chr6---131333019-131335084 l45 e 84 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2141892 reads mapping to 876663 Unique genomic coordinates Making up 22613 groups Consisting of 11120 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000075812-chr5-+-34196759-34198885 l43 e 85 nr 1000000 chr ENSMUST00000051330-chr10---60937993-60939685 l44 e 85 nr 1500000 chr ENSMUST00000108375-chr11-+-77635665-77639185 l44 e 85 nr 2000000 chr ENSMUST00000102659-chr2---77043763-77044885 l43 e 85 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2495451 reads mapping to 941299 Unique genomic coordinates Making up 24046 groups Consisting of 11729 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000036060-chr13---117091319-117092486 l46 e 86 nr 1000000 chr ENSMUST00000133727-chr11-+-101493829-101497386 l46 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 ENSMUST00000075329-chr1-+-176321177-176322186 l45 e 86 nr 3500000 chr ENSMUST00000040105-chr10-+-74720113-74721186 l44 e 86 nr 4000000 chr ENSMUST00000120977-chr3---57265941-57267986 l43 e 86 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 4331308 reads mapping to 935479 Unique genomic coordinates Making up 23747 groups Consisting of 11868 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000060642-chr15-+-91529814-91531587 l44 e 87 nr 1000000 chr ENSMUST00000093868-chr9---36444289-36446187 l43 e 87 nr 1500000 chr ENSMUST00000148200-chr1-+-173052511-173053287 l45 e 87 nr 2000000 chr ENSMUST00000069597-chr18-+-54077953-54079187 l44 e 87 nr 2500000 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 2785412 reads mapping to 958245 Unique genomic coordinates Making up 24248 groups Consisting of 12079 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000167134-chr18-+-58089309-58090388 l44 e 88 nr 1000000 chr ENSMUST00000067048-chr15-+-28380573-28381788 l44 e 88 nr 1500000 chr ENSMUST00000001253-chr12---32234278-32235388 l44 e 88 nr 2000000 chr ENSMUST00000153853-chr3---113307985-113312588 l45 e 88 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2383401 reads mapping to 910410 Unique genomic coordinates Making up 23147 groups Consisting of 11461 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000031513-chr5-+-115781626-115783089 l45 e 89 nr 1000000 chr ENSMUST00000139080-chr1-+-141398284-141398889 l45 e 89 nr 1500000 chr ENSMUST00000025064-chr17---59111868-59115189 l44 e 89 nr 2000000 chr ENSMUST00000134547-chrX---103413679-103416089 l45 e 89 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2005914 reads mapping to 876348 Unique genomic coordinates Making up 22258 groups Consisting of 11214 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000059102-chr2-+-58623332-58624490 l43 e 90 nr 1000000 chr ENSMUST00000078527-chr3---79466719-79467790 l43 e 90 nr 1500000 chr ENSMUST00000114076-chr16---91068777-91069390 l44 e 90 nr 2000000 chr ENSMUST00000085289-chr9---80189171-80190390 l43 e 90 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2123562 reads mapping to 912355 Unique genomic coordinates Making up 23445 groups Consisting of 11510 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000017900-chr13-+-73951791-73954191 l44 e 91 nr 1000000 chr ENSMUST00000034470-chr9---26812088-26818591 l43 e 91 nr 1500000 chr ENSMUST00000166193-chr1---137869423-137870591 l45 e 91 nr 2000000 chr ENSMUST00000025239-chr18-+-32571575-32575191 l44 e 91 nr 2500000 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 2778103 reads mapping to 971552 Unique genomic coordinates Making up 24577 groups Consisting of 12203 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 ENSMUST00000043767-chr8-+-13794940-13797092 l43 e 92 nr 2000000 chr ENSMUST00000105501-chr10---41967237-41968092 l44 e 92 nr 2500000 chr ENSMUST00000171384-chr3---57089533-57092192 l43 e 92 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2898939 reads mapping to 923389 Unique genomic coordinates Making up 23809 groups Consisting of 11732 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000031288-chr5-+-112759611-112767093 l45 e 93 nr 1000000 chr ENSMUST00000095350-chr6-+-140625412-140626993 l45 e 93 nr 1500000 chr ENSMUST00000054230-chr14-+-31600143-31601293 l44 e 93 nr 2000000 chr ENSMUST00000048653-chr8-+-97056890-97057593 l43 e 93 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2068652 reads mapping to 946945 Unique genomic coordinates Making up 24023 groups Consisting of 12072 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000087721-chr17---32320715-32322994 l44 e 94 nr 1000000 chr ENSMUST00000043914-chr14-+-65647223-65648394 l44 e 94 nr 1500000 chr ENSMUST00000054679-chr13---22236390-22237394 l44 e 94 nr 2000000 chr ENSMUST00000022629-chr14---67480810-67481994 l44 e 94 nr 2500000 chr ENSMUST00000022629-chr14---67480810-67481994 l44 e 94 nr 3000000 chr ENSMUST00000100538-chr15---75669186-75671494 l44 e 94 nr 3500000 chr ENSMUST00000122353-chr8-+-19212133-19212994 l43 e 94 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 3610173 reads mapping to 977493 Unique genomic coordinates Making up 25050 groups Consisting of 12371 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000030826-chr4-+-149499199-149500895 l45 e 95 nr 1000000 chr ENSMUST00000033325-chr7-+-117412914-117414095 l45 e 95 nr 1500000 chr ENSMUST00000114913-chr16-+-35283108-35284195 l44 e 95 nr 2000000 chr ENSMUST00000153742-chrX-+-137524197-137525295 l45 e 95 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2007334 reads mapping to 894451 Unique genomic coordinates Making up 22609 groups Consisting of 11311 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000011934-chr2---76542037-76571196 l43 e 96 nr 1000000 chr ENSMUST00000097520-chr18---77423745-77424996 l44 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 ENSMUST00000021850-chr13-+-34974600-34976796 l44 e 96 nr 3000000 chr ENSMUST00000042990-chr6-+-67233397-67239296 l43 e 96 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 3180810 reads mapping to 972922 Unique genomic coordinates Making up 24551 groups Consisting of 12204 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000123941-chr5-+-134682141-134683197 l45 e 97 nr 1000000 chr ENSMUST00000045193-chr9---21791443-21793897 l43 e 97 nr 1500000 chr ENSMUST00000171336-chr1-+-141036529-141037597 l45 e 97 nr 2000000 chr ENSMUST00000171336-chr1-+-141036529-141037597 l45 e 97 nr 2500000 chr ENSMUST00000171691-chr17---29964901-29970797 l44 e 97 nr 3000000 chr ENSMUST00000033905-chr8---11618562-11619797 l43 e 97 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 3090742 reads mapping to 914852 Unique genomic coordinates Making up 23356 groups Consisting of 11538 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000160014-chr19-+-4879621-4880898 l42 e 98 nr 1000000 chr ENSMUST00000122408-chr18---12453888-12454998 l44 e 98 nr 1500000 chr ENSMUST00000047363-chr13-+-49809682-49811698 l44 e 98 nr 2000000 chr ENSMUST00000123682-chr5---77308435-77309598 l43 e 98 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2208178 reads mapping to 927124 Unique genomic coordinates Making up 23359 groups Consisting of 11723 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000098066-chr4-+-57898661-57899699 l43 e 99 nr 1000000 chr ENSMUST00000029353-chr3---68893198-68894499 l43 e 99 nr 1500000 chr ENSMUST00000061274-chr16-+-37987053-37989199 l44 e 99 nr 2000000 chr ENSMUST00000077775-chrX-+-45474478-45479099 l43 e 99 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2018299 reads mapping to 916677 Unique genomic coordinates Making up 23527 groups Consisting of 11486 clusters