Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000049308-chr17-+-27227756-27229400 l44 e 0 nr 1000000 chr ENSMUST00000152031-chr7-+-111465310-111467900 l45 e 0 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1136329 reads mapping to 548688 Unique genomic coordinates Making up 15802 groups Consisting of 5375 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000136591-chr15---10390375-10392601 l44 e 1 nr 1000000 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 1350191 reads mapping to 555461 Unique genomic coordinates Making up 15930 groups Consisting of 5124 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000075132-chr15-+-21507685-21508802 l44 e 2 nr 1000000 chr ENSMUST00000097478-chr5-+-94743494-94746002 l43 e 2 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1418242 reads mapping to 612194 Unique genomic coordinates Making up 17376 groups Consisting of 5826 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000128483-chr11---53496204-53498303 l44 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 ENSMUST00000128483-chr11---53496204-53498303 l44 e 3 nr 3500000 chr ENSMUST00000128483-chr11---53496204-53498303 l44 e 3 nr 4000000 chr ENSMUST00000025129-chr18---7443472-7444603 l42 e 3 nr 4500000 chr ENSMUST00000031366-chr5-+-124205183-124206303 l45 e 3 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 4825438 reads mapping to 569294 Unique genomic coordinates Making up 16546 groups Consisting of 5466 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000039074-chr15-+-89351034-89352304 l44 e 4 nr 1000000 chr ENSMUST00000031617-chr5-+-121654490-121657704 l45 e 4 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1255298 reads mapping to 594972 Unique genomic coordinates Making up 17056 groups Consisting of 5804 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000021750-chr13---11677175-11678305 l44 e 5 nr 1000000 chr ENSMUST00000135592-chr2-+-90614407-90615505 l43 e 5 nr 1500000 chr ENSMUST00000043141-chr8-+-113105360-113107205 l45 e 5 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1597578 reads mapping to 599137 Unique genomic coordinates Making up 17114 groups Consisting of 5653 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000096012-chr16-+-56605732-56606806 l44 e 6 nr 1000000 chr ENSMUST00000107209-chr3---94985688-94993706 l43 e 6 nr 1500000 chr ENSMUST00000034279-chr8-+-123094117-123097306 l45 e 6 nr 2000000 chr ENSMUST00000034279-chr8-+-123094117-123097306 l45 e 6 nr 2500000 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 2883803 reads mapping to 568842 Unique genomic coordinates Making up 16449 groups Consisting of 5466 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000053308-chr15-+-8949627-8952607 l42 e 7 nr 1000000 chr ENSMUST00000142780-chr18-+-36791221-36793007 l44 e 7 nr 1500000 chr ENSMUST00000035918-chr5---146688714-146689807 l45 e 7 nr 2000000 chr ENSMUST00000018739-chrX---133296758-133297907 l45 e 7 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2015791 reads mapping to 590767 Unique genomic coordinates Making up 17009 groups Consisting of 5658 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000026432-chr15-+-16752414-16753708 l44 e 8 nr 1000000 chr ENSMUST00000029759-chr3---123071215-123073108 l45 e 8 nr 1500000 chr ENSMUST00000034377-chr8-+-108683563-108685708 l45 e 8 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1700175 reads mapping to 564960 Unique genomic coordinates Making up 15932 groups Consisting of 5358 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000170790-chr14-+-3139968-3141609 l42 e 9 nr 1000000 chr ENSMUST00000114335-chr5-+-34955437-34957509 l43 e 9 nr 1500000 chr ENSMUST00000019882-chr7-+-31016967-31018409 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 2254743 reads mapping to 560742 Unique genomic coordinates Making up 16255 groups Consisting of 5516 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000042450-chr13-+-58507863-58512510 l44 e 10 nr 1000000 chr ENSMUST00000047923-chr3-+-122995996-122997710 l45 e 10 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1485411 reads mapping to 561298 Unique genomic coordinates Making up 16003 groups Consisting of 5364 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000097381-chr17-+-22738115-22741111 l44 e 11 nr 1000000 chr ENSMUST00000144105-chr6---91965567-91966111 l43 e 11 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1251455 reads mapping to 564334 Unique genomic coordinates Making up 16186 groups Consisting of 5446 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000022338-chr14---37857262-37859512 l44 e 12 nr 1000000 chr ENSMUST00000107161-chr3-+-95273599-95274812 l43 e 12 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1431712 reads mapping to 588003 Unique genomic coordinates Making up 16770 groups Consisting of 5478 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000171785-chr14-+-44957535-44958213 l44 e 13 nr 1000000 chr ENSMUST00000097731-chr4---155420493-155423313 l45 e 13 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1405649 reads mapping to 596107 Unique genomic coordinates Making up 17056 groups Consisting of 5762 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000021547-chr12---80385746-80387814 l44 e 14 nr 1000000 chr ENSMUST00000165873-chr3---129707412-129708514 l45 e 14 nr 1500000 chr ENSMUST00000172996-chr9-+-21472879-21475514 l43 e 14 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1775139 reads mapping to 596882 Unique genomic coordinates Making up 17013 groups Consisting of 5669 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000172939-chr12-+-58837455-58838915 l44 e 15 nr 1000000 chr ENSMUST00000047300-chr3---92232092-92233315 l43 e 15 nr 1500000 chr ENSMUST00000115351-chr9---21711935-21715615 l43 e 15 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1576633 reads mapping to 597252 Unique genomic coordinates Making up 17223 groups Consisting of 5763 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000164993-chr13-+-16108515-16110016 l44 e 16 nr 1000000 chr ENSMUST00000126610-chr2-+-32817079-32820016 l43 e 16 nr 1500000 chr ENSMUST00000005233-chr2-+-118256032-118258516 l45 e 16 nr 2000000 chr ENSMUST00000126865-chr9-+-45930800-45931916 l43 e 16 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2065245 reads mapping to 578538 Unique genomic coordinates Making up 16455 groups Consisting of 5444 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000065091-chr16---10291855-10293017 l44 e 17 nr 1000000 chr ENSMUST00000155685-chr4---150844285-150846917 l45 e 17 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1341106 reads mapping to 598954 Unique genomic coordinates Making up 17173 groups Consisting of 5683 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000111588-chr13---118508142-118508818 l46 e 18 nr 1000000 chr ENSMUST00000105749-chr4---144043674-144048418 l45 e 18 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1307113 reads mapping to 577385 Unique genomic coordinates Making up 16591 groups Consisting of 5614 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000147229-chr13---101257655-101260619 l46 e 19 nr 1000000 chr ENSMUST00000028855-chr2---127352209-127359119 l45 e 19 nr 1500000 chr ENSMUST00000000312-chr8-+-109176907-109178319 l45 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 nr 3500000 chr ENSMUST00000117224-chrX---134173421-134175019 l45 e 19 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 3512440 reads mapping to 610512 Unique genomic coordinates Making up 17544 groups Consisting of 5790 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000100289-chr14-+-124226474-124227620 l46 e 20 nr 1000000 chr ENSMUST00000079206-chr17-+-18449605-18450820 l44 e 20 nr 1500000 chr ENSMUST00000042661-chr5---141110213-141112520 l45 e 20 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1778615 reads mapping to 546689 Unique genomic coordinates Making up 15823 groups Consisting of 5296 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000023601-chr16-+-23357202-23360421 l44 e 21 nr 1000000 chr ENSMUST00000093342-chr8-+-90105986-90107021 l43 e 21 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1090944 reads mapping to 544511 Unique genomic coordinates Making up 15721 groups Consisting of 5125 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000068112-chr14-+-34182036-34183122 l44 e 22 nr 1000000 chr ENSMUST00000145720-chr3---108709479-108711822 l45 e 22 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1401579 reads mapping to 581419 Unique genomic coordinates Making up 16589 groups Consisting of 5524 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000070382-chr15---40357266-40358823 l44 e 23 nr 1000000 chr ENSMUST00000144270-chr5-+-76002551-76003823 l43 e 23 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1471900 reads mapping to 590543 Unique genomic coordinates Making up 16887 groups Consisting of 5617 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000066060-chr12---109148613-109156124 l46 e 24 nr 1000000 chr ENSMUST00000142799-chr3-+-87500767-87503324 l43 e 24 nr 1500000 chr ENSMUST00000001036-chr9---20911427-20916324 l43 e 24 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1587535 reads mapping to 601310 Unique genomic coordinates Making up 17310 groups Consisting of 5720 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000042046-chr14---66538232-66540525 l44 e 25 nr 1000000 chr ENSMUST00000120159-chr17-+-75564547-75565125 l44 e 25 nr 1500000 chr ENSMUST00000120159-chr17-+-75564547-75565125 l44 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 ENSMUST00000029545-chr3-+-90061887-90065525 l43 e 25 nr 3500000 chr ENSMUST00000172171-chr9---18183856-18185925 l43 e 25 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 3581753 reads mapping to 574200 Unique genomic coordinates Making up 16373 groups Consisting of 5539 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000077672-chr13-+-97385912-97387526 l44 e 26 nr 1000000 chr ENSMUST00000145831-chr4-+-107632247-107633326 l45 e 26 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1311346 reads mapping to 608040 Unique genomic coordinates Making up 17306 groups Consisting of 5773 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000099736-chr13---18122576-18123427 l44 e 27 nr 1000000 chr ENSMUST00000143987-chr17---66428135-66429427 l44 e 27 nr 1500000 chr ENSMUST00000047846-chr7---29981494-29983927 l43 e 27 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1674457 reads mapping to 562728 Unique genomic coordinates Making up 16092 groups Consisting of 5419 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000161553-chr14-+-57202496-57203628 l44 e 28 nr 1000000 chr ENSMUST00000105870-chr4-+-133980888-133983328 l45 e 28 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1363420 reads mapping to 584055 Unique genomic coordinates Making up 16754 groups Consisting of 5584 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000164107-chr10-+-74593266-74594929 l44 e 29 nr 1000000 chr ENSMUST00000038580-chr17-+-37407165-37411429 l44 e 29 nr 1500000 chr ENSMUST00000150729-chr4---133538215-133539329 l45 e 29 nr 2000000 chr ENSMUST00000119477-chrX-+-102311153-102312429 l45 e 29 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2018651 reads mapping to 572601 Unique genomic coordinates Making up 16321 groups Consisting of 5380 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000110414-chr15-+-30934204-30935330 l44 e 30 nr 1000000 chr ENSMUST00000164110-chr6-+-5063101-5064330 l41 e 30 nr 1500000 chr ENSMUST00000057180-chrX-+-155994875-155996830 l45 e 30 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1504497 reads mapping to 605257 Unique genomic coordinates Making up 17606 groups Consisting of 5931 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000023050-chr15-+-79990004-79992131 l44 e 31 nr 1000000 chr ENSMUST00000016664-chr5---147838283-147841531 l45 e 31 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1281052 reads mapping to 597081 Unique genomic coordinates Making up 16961 groups Consisting of 5655 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000022433-chr14-+-27597946-27599732 l44 e 32 nr 1000000 chr ENSMUST00000030384-chr4-+-119833811-119835132 l45 e 32 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1337757 reads mapping to 569926 Unique genomic coordinates Making up 16399 groups Consisting of 5392 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000066489-chr11---100271928-100276133 l46 e 33 nr 1000000 chr ENSMUST00000171188-chr2---11396881-11397933 l43 e 33 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1494116 reads mapping to 588080 Unique genomic coordinates Making up 16854 groups Consisting of 5635 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000075317-chr15---12335722-12337634 l44 e 34 nr 1000000 chr ENSMUST00000031447-chr5-+-97266812-97267934 l43 e 34 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1344879 reads mapping to 564365 Unique genomic coordinates Making up 16077 groups Consisting of 5420 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000048646-chr15-+-35763439-35764635 l44 e 35 nr 1000000 chr ENSMUST00000031004-chr5-+-37637031-37637835 l43 e 35 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1337776 reads mapping to 591153 Unique genomic coordinates Making up 16951 groups Consisting of 5745 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000035342-chr15---94179032-94180136 l44 e 36 nr 1000000 chr ENSMUST00000026866-chr3---41545417-41546436 l43 e 36 nr 1500000 chr ENSMUST00000124723-chr9---99005450-99006636 l43 e 36 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1560550 reads mapping to 586912 Unique genomic coordinates Making up 16970 groups Consisting of 5751 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000154196-chr16-+-94683329-94684737 l44 e 37 nr 1000000 chr ENSMUST00000087195-chr5---73717020-73718137 l43 e 37 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1303750 reads mapping to 555664 Unique genomic coordinates Making up 16004 groups Consisting of 5346 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000072876-chr12---105098124-105099338 l46 e 38 nr 1000000 chr ENSMUST00000097352-chr17-+-31741198-31744638 l44 e 38 nr 1500000 chr ENSMUST00000004497-chr8---75347092-75348238 l43 e 38 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1625982 reads mapping to 565984 Unique genomic coordinates Making up 16160 groups Consisting of 5450 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000042365-chr13---17807796-17812139 l44 e 39 nr 1000000 chr ENSMUST00000077972-chr2-+-76392571-76394539 l43 e 39 nr 1500000 chr ENSMUST00000038618-chr7---28090155-28093439 l43 e 39 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1743827 reads mapping to 595555 Unique genomic coordinates Making up 17125 groups Consisting of 5628 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000110168-chr15---57878558-57880840 l44 e 40 nr 1000000 chr ENSMUST00000053253-chr5---109602062-109604740 l45 e 40 nr 1500000 chr ENSMUST00000066740-chr8-+-25294766-25296040 l43 e 40 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1648379 reads mapping to 580379 Unique genomic coordinates Making up 16607 groups Consisting of 5605 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000166821-chr12---86611015-86611541 l44 e 41 nr 1000000 chr ENSMUST00000127619-chr4-+-32710559-32711641 l43 e 41 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1378008 reads mapping to 609211 Unique genomic coordinates Making up 17636 groups Consisting of 5751 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000146569-chr16---3982479-3983742 l42 e 42 nr 1000000 chr ENSMUST00000153365-chr5---109076066-109086042 l45 e 42 nr 1500000 chr ENSMUST00000034051-chr8-+-47060882-47061442 l43 e 42 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1670692 reads mapping to 563604 Unique genomic coordinates Making up 16141 groups Consisting of 5498 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000163667-chr15-+-84162221-84163643 l44 e 43 nr 1000000 chr ENSMUST00000145701-chr2---26251769-26258243 l43 e 43 nr 1500000 chr ENSMUST00000169376-chr9-+-45556996-45561343 l43 e 43 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1564453 reads mapping to 589596 Unique genomic coordinates Making up 16856 groups Consisting of 5722 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000021596-chr12---101388921-101390044 l46 e 44 nr 1000000 chr ENSMUST00000088976-chr2-+-153494984-153497144 l45 e 44 nr 1500000 chr ENSMUST00000121687-chrX-+-71946546-71947644 l43 e 44 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1546604 reads mapping to 586573 Unique genomic coordinates Making up 16802 groups Consisting of 5745 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000037270-chr15-+-58254376-58256945 l44 e 45 nr 1000000 chr ENSMUST00000032487-chr6-+-125165569-125166245 l45 e 45 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1345854 reads mapping to 593817 Unique genomic coordinates Making up 16965 groups Consisting of 5689 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000091493-chr13-+-74116091-74117246 l44 e 46 nr 1000000 chr ENSMUST00000098013-chr4---70061779-70062846 l43 e 46 nr 1500000 chr ENSMUST00000054052-chr8-+-124857121-124861146 l45 e 46 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1732275 reads mapping to 607542 Unique genomic coordinates Making up 17257 groups Consisting of 5742 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000095576-chr14-+-103961182-103962247 l46 e 47 nr 1000000 chr ENSMUST00000042135-chr5-+-136559786-136560547 l45 e 47 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1439907 reads mapping to 552204 Unique genomic coordinates Making up 15805 groups Consisting of 5312 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000173433-chr12---56011797-56012948 l44 e 48 nr 1000000 chr ENSMUST00000102517-chr2-+-119151520-119155048 l45 e 48 nr 1500000 chr ENSMUST00000004201-chr9---20588613-20593548 l43 e 48 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1604418 reads mapping to 573484 Unique genomic coordinates Making up 16275 groups Consisting of 5477 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000171325-chr16-+-32905118-32909049 l44 e 49 nr 1000000 chr ENSMUST00000062753-chr19-+-18787683-18788649 l44 e 49 nr 1500000 chr ENSMUST00000042025-chr6---87083848-87087849 l43 e 49 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1732257 reads mapping to 590453 Unique genomic coordinates Making up 16968 groups Consisting of 5743 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000060673-chr16---21953899-21956750 l44 e 50 nr 1000000 chr ENSMUST00000106243-chr4-+-122960068-122961550 l45 e 50 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1373820 reads mapping to 577962 Unique genomic coordinates Making up 16733 groups Consisting of 5413 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000156456-chr16---31297506-31298251 l44 e 51 nr 1000000 chr ENSMUST00000044642-chr5---140184340-140189851 l45 e 51 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1297176 reads mapping to 553236 Unique genomic coordinates Making up 15896 groups Consisting of 5268 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000102752-chr13-+-94118660-94119752 l44 e 52 nr 1000000 chr ENSMUST00000043589-chr2---142443210-142446152 l45 e 52 nr 1500000 chr ENSMUST00000085754-chr9-+-55282498-55286152 l43 e 52 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1563913 reads mapping to 606595 Unique genomic coordinates Making up 17087 groups Consisting of 5889 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000076195-chr13---62555683-62557053 l44 e 53 nr 1000000 chr ENSMUST00000040603-chr3---116442917-116448353 l45 e 53 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1459952 reads mapping to 593739 Unique genomic coordinates Making up 17025 groups Consisting of 5760 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000110306-chr15---39655212-39656354 l44 e 54 nr 1000000 chr ENSMUST00000057977-chr6-+-92766472-92767154 l43 e 54 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1286417 reads mapping to 595593 Unique genomic coordinates Making up 17117 groups Consisting of 5759 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000162940-chr17-+-13427235-13430055 l44 e 55 nr 1000000 chr ENSMUST00000032425-chr6---113466591-113468455 l45 e 55 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1167296 reads mapping to 563198 Unique genomic coordinates Making up 16377 groups Consisting of 5486 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000022696-chr14---71054053-71067456 l44 e 56 nr 1000000 chr ENSMUST00000112505-chr5---110688149-110689956 l45 e 56 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1305632 reads mapping to 591518 Unique genomic coordinates Making up 16897 groups Consisting of 5655 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000166527-chr14-+-43234746-43237357 l44 e 57 nr 1000000 chr ENSMUST00000030443-chr4-+-116780004-116784757 l45 e 57 nr 1500000 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 1699564 reads mapping to 590448 Unique genomic coordinates Making up 16897 groups Consisting of 5678 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000110617-chr15-+-8219119-8221158 l42 e 58 nr 1000000 chr ENSMUST00000169985-chr3---96089232-96091658 l43 e 58 nr 1500000 chr ENSMUST00000112930-chrX-+-138043866-138044958 l45 e 58 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1524942 reads mapping to 555330 Unique genomic coordinates Making up 15934 groups Consisting of 5297 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000125971-chr16-+-20637234-20639859 l44 e 59 nr 1000000 chr ENSMUST00000099659-chr2---104554083-104555459 l45 e 59 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1479357 reads mapping to 564787 Unique genomic coordinates Making up 16198 groups Consisting of 5376 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000121927-chr16---76287645-76295760 l44 e 60 nr 1000000 chr ENSMUST00000118247-chr6-+-136333861-136334860 l45 e 60 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1192197 reads mapping to 562360 Unique genomic coordinates Making up 16125 groups Consisting of 5436 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000090480-chr16---4652566-4653261 l42 e 61 nr 1000000 chr ENSMUST00000076576-chr7---14838253-14839461 l43 e 61 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1199130 reads mapping to 569528 Unique genomic coordinates Making up 16365 groups Consisting of 5455 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000082024-chr12-+-79932852-79933962 l44 e 62 nr 1000000 chr ENSMUST00000167739-chr14-+-56160743-56164762 l44 e 62 nr 1500000 chr ENSMUST00000029964-chr4-+-28874178-28879062 l43 e 62 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1852512 reads mapping to 596355 Unique genomic coordinates Making up 17128 groups Consisting of 5701 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000023068-chr15---84926576-84928963 l44 e 63 nr 1000000 chr ENSMUST00000032813-chr7---29808522-29809863 l43 e 63 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1158409 reads mapping to 567965 Unique genomic coordinates Making up 16268 groups Consisting of 5471 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000038422-chr12---88221653-88225764 l44 e 64 nr 1000000 chr ENSMUST00000106598-chr4---109876327-109879764 l45 e 64 nr 1500000 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 1596458 reads mapping to 596559 Unique genomic coordinates Making up 17193 groups Consisting of 5757 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000052089-chr16---98177423-98178565 l44 e 65 nr 1000000 chr ENSMUST00000147141-chr2---170486633-170487965 l45 e 65 nr 1500000 chr ENSMUST00000033342-chr7-+-116083204-116086465 l45 e 65 nr 2000000 chr ENSMUST00000113955-chrX---89781120-89782165 l43 e 65 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2049929 reads mapping to 558207 Unique genomic coordinates Making up 16245 groups Consisting of 5259 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000022766-chr14-+-52909936-52916066 l44 e 66 nr 1000000 chr ENSMUST00000140013-chr5-+-144636029-144637066 l45 e 66 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1210925 reads mapping to 515238 Unique genomic coordinates Making up 14880 groups Consisting of 4942 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000022507-chr14---57380171-57381367 l44 e 67 nr 1000000 chr ENSMUST00000128151-chr5---5451509-5452567 l41 e 67 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1288067 reads mapping to 575987 Unique genomic coordinates Making up 16447 groups Consisting of 5492 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000049005-chr14---35223920-35229568 l44 e 68 nr 1000000 chr ENSMUST00000109468-chr2-+-160471624-160472868 l45 e 68 nr 1500000 chr ENSMUST00000034992-chr9-+-88222447-88223368 l43 e 68 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1546476 reads mapping to 601638 Unique genomic coordinates Making up 17195 groups Consisting of 5812 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000064254-chr15---102364008-102365369 l46 e 69 nr 1000000 chr ENSMUST00000028863-chr2-+-139996382-139997169 l45 e 69 nr 1500000 chr ENSMUST00000037528-chr7-+-106601003-106604069 l45 e 69 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1830469 reads mapping to 560522 Unique genomic coordinates Making up 15927 groups Consisting of 5373 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000027743-chr1-+-157034408-157035470 l45 e 70 nr 1000000 chr ENSMUST00000071135-chr17---57219489-57221670 l44 e 70 nr 1500000 chr ENSMUST00000026843-chr5---30454840-30456970 l43 e 70 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1786261 reads mapping to 559843 Unique genomic coordinates Making up 16030 groups Consisting of 5271 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000075869-chr16---36963546-36966871 l44 e 71 nr 1000000 chr ENSMUST00000030765-chr4-+-140472988-140474171 l45 e 71 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1474939 reads mapping to 573955 Unique genomic coordinates Making up 16457 groups Consisting of 5463 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000110336-chr15---37931472-37932972 l44 e 72 nr 1000000 chr ENSMUST00000056191-chr6---83390711-83391672 l43 e 72 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1225660 reads mapping to 581125 Unique genomic coordinates Making up 16878 groups Consisting of 5498 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000168702-chr14---59866240-59867373 l44 e 73 nr 1000000 chr ENSMUST00000168032-chr4-+-43246276-43248773 l43 e 73 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1492586 reads mapping to 575162 Unique genomic coordinates Making up 16718 groups Consisting of 5581 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000110671-chr12-+-59312759-59314874 l44 e 74 nr 1000000 chr ENSMUST00000107510-chr3-+-88449599-88451974 l43 e 74 nr 1500000 chr ENSMUST00000034621-chr9---44075887-44076574 l43 e 74 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1566511 reads mapping to 589917 Unique genomic coordinates Making up 17005 groups Consisting of 5509 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000100631-chr14---52887817-52889175 l44 e 75 nr 1000000 chr ENSMUST00000041366-chr5-+-136592501-136593175 l45 e 75 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1323525 reads mapping to 586425 Unique genomic coordinates Making up 16897 groups Consisting of 5694 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000102183-chr17---21421067-21421176 l44 e 76 nr 1000000 chr ENSMUST00000039412-chr8-+-18787739-18788976 l43 e 76 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1195977 reads mapping to 550885 Unique genomic coordinates Making up 15831 groups Consisting of 5209 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000022701-chr14---73686910-73687977 l44 e 77 nr 1000000 chr ENSMUST00000044620-chr5-+-151333144-151335477 l45 e 77 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1340089 reads mapping to 576529 Unique genomic coordinates Making up 16434 groups Consisting of 5560 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000112095-chr14-+-31931415-31934778 l44 e 78 nr 1000000 chr ENSMUST00000074618-chr2---168348238-168349378 l45 e 78 nr 1500000 chr ENSMUST00000032386-chr6---145806763-145814078 l45 e 78 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1706501 reads mapping to 621844 Unique genomic coordinates Making up 17809 groups Consisting of 5944 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000062883-chr10-+-70019488-70021479 l44 e 79 nr 1000000 chr ENSMUST00000115120-chr16-+-32682271-32683579 l44 e 79 nr 1500000 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 1999783 reads mapping to 571276 Unique genomic coordinates Making up 16527 groups Consisting of 5433 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000089338-chr14---64697533-64698780 l44 e 80 nr 1000000 chr ENSMUST00000024112-chr16-+-97757690-97758280 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 ENSMUST00000029603-chr3-+-123189375-123190580 l45 e 80 nr 3000000 chr ENSMUST00000144137-chr9---87138613-87139680 l43 e 80 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 3082777 reads mapping to 599120 Unique genomic coordinates Making up 16996 groups Consisting of 5821 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000079806-chr15---76458679-76465781 l44 e 81 nr 1000000 chr ENSMUST00000098538-chr3-+-144795096-144796281 l45 e 81 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1357097 reads mapping to 558332 Unique genomic coordinates Making up 15787 groups Consisting of 5407 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000111864-chr14---45098063-45099582 l44 e 82 nr 1000000 chr ENSMUST00000036092-chr5---23826563-23829582 l43 e 82 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1323533 reads mapping to 593280 Unique genomic coordinates Making up 17076 groups Consisting of 5766 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000023502-chr16-+-33276528-33277583 l44 e 83 nr 1000000 chr ENSMUST00000154999-chr4---86294290-86294983 l43 e 83 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1435662 reads mapping to 606812 Unique genomic coordinates Making up 17350 groups Consisting of 5851 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000136272-chr17-+-48411555-48412684 l44 e 84 nr 1000000 chr ENSMUST00000128851-chr7-+-135120232-135122284 l45 e 84 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1139878 reads mapping to 545107 Unique genomic coordinates Making up 15798 groups Consisting of 5278 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000022051-chr13---73955982-73959485 l44 e 85 nr 1000000 chr ENSMUST00000028661-chr2-+-122013146-122014285 l45 e 85 nr 1500000 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 1689976 reads mapping to 589136 Unique genomic coordinates Making up 16767 groups Consisting of 5485 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000075329-chr1-+-176321177-176322186 l45 e 86 nr 1000000 chr ENSMUST00000075329-chr1-+-176321177-176322186 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 ENSMUST00000075329-chr1-+-176321177-176322186 l45 e 86 nr 3500000 chr ENSMUST00000024627-chr17-+-15896792-15899986 l44 e 86 nr 4000000 chr ENSMUST00000008297-chr6---124399008-124401986 l45 e 86 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 4262920 reads mapping to 586278 Unique genomic coordinates Making up 16904 groups Consisting of 5607 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000035540-chr13---48926873-48927987 l44 e 87 nr 1000000 chr ENSMUST00000134890-chr3-+-84487631-84489587 l43 e 87 nr 1500000 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 1929427 reads mapping to 603414 Unique genomic coordinates Making up 17200 groups Consisting of 5684 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000150384-chr12-+-112649435-112650288 l46 e 88 nr 1000000 chr ENSMUST00000111613-chr2---84874838-84875988 l43 e 88 nr 1500000 chr ENSMUST00000167851-chr7-+-25163160-25164788 l43 e 88 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1676781 reads mapping to 570807 Unique genomic coordinates Making up 16248 groups Consisting of 5447 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000021750-chr13---11797402-11799489 l44 e 89 nr 1000000 chr ENSMUST00000028814-chr2---131815151-131822689 l45 e 89 nr 1500000 chr ENSMUST00000153620-chrX-+-7466238-7467389 l41 e 89 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1526861 reads mapping to 547429 Unique genomic coordinates Making up 15701 groups Consisting of 5249 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000114076-chr16---91068777-91069390 l44 e 90 nr 1000000 chr ENSMUST00000115467-chr6-+-17045628-17048090 l43 e 90 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1393911 reads mapping to 574313 Unique genomic coordinates Making up 16364 groups Consisting of 5526 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000021653-chr12-+-85393101-85395391 l44 e 91 nr 1000000 chr ENSMUST00000166157-chr3---126731637-126732991 l45 e 91 nr 1500000 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 1935972 reads mapping to 606473 Unique genomic coordinates Making up 17431 groups Consisting of 5815 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000147309-chr14---52819441-52822792 l44 e 92 nr 1000000 chr ENSMUST00000098163-chr4---34750362-34759792 l43 e 92 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1425209 reads mapping to 575472 Unique genomic coordinates Making up 16616 groups Consisting of 5630 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000141243-chr11---118087664-118088293 l46 e 93 nr 1000000 chr ENSMUST00000150618-chr4-+-3875703-3878193 l41 e 93 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1418605 reads mapping to 594210 Unique genomic coordinates Making up 16937 groups Consisting of 5659 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000022629-chr14---67480810-67481994 l44 e 94 nr 1000000 chr ENSMUST00000022629-chr14---67480810-67481994 l44 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 ENSMUST00000022629-chr14---67480810-67481994 l44 e 94 nr 3000000 chr ENSMUST00000106788-chr4---106287140-106289094 l45 e 94 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 3446284 reads mapping to 610191 Unique genomic coordinates Making up 17520 groups Consisting of 5929 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000171539-chr14---118432960-118434095 l46 e 95 nr 1000000 chr ENSMUST00000002291-chr5---28070155-28071595 l43 e 95 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1381222 reads mapping to 556950 Unique genomic coordinates Making up 15932 groups Consisting of 5309 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000108617-chr11-+-69715380-69726096 l44 e 96 nr 1000000 chr ENSMUST00000021850-chr13-+-34974600-34976796 l44 e 96 nr 1500000 chr ENSMUST00000021850-chr13-+-34974600-34976796 l44 e 96 nr 2000000 chr ENSMUST00000142914-chr15-+-77291640-77292396 l44 e 96 nr 2500000 chr ENSMUST00000031239-chr5---105391949-105393196 l45 e 96 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2803596 reads mapping to 607177 Unique genomic coordinates Making up 17292 groups Consisting of 5812 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000171336-chr1-+-141036529-141037597 l45 e 97 nr 1000000 chr ENSMUST00000171336-chr1-+-141036529-141037597 l45 e 97 nr 1500000 chr ENSMUST00000009791-chr10---58917194-58918397 l44 e 97 nr 2000000 chr ENSMUST00000171691-chr17---29964901-29970797 l44 e 97 nr 2500000 chr ENSMUST00000098242-chr4-+-19992387-19993897 l43 e 97 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2927694 reads mapping to 572052 Unique genomic coordinates Making up 16323 groups Consisting of 5466 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000109763-chr13-+-64533850-64534898 l44 e 98 nr 1000000 chr ENSMUST00000137320-chr2-+-158201451-158204798 l45 e 98 nr 1500000 chr ENSMUST00000033532-chrX-+-67109365-67110898 l43 e 98 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1523735 reads mapping to 579407 Unique genomic coordinates Making up 16549 groups Consisting of 5579 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000140734-chr15-+-91585721-91587999 l44 e 99 nr 1000000 chr ENSMUST00000129007-chr5-+-110953563-110954999 l45 e 99 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1316001 reads mapping to 574885 Unique genomic coordinates Making up 16419 groups Consisting of 5411 clusters