Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000028377-chr2-+-65521228-65522500 l43 e 0 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 716110 reads mapping to 261951 Unique genomic coordinates Making up 6492 groups Consisting of 1816 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000151201-chr5---101215503-101216601 l45 e 1 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 606375 reads mapping to 266612 Unique genomic coordinates Making up 6644 groups Consisting of 1856 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000147155-chr6-+-128354449-128355602 l45 e 2 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 612493 reads mapping to 296950 Unique genomic coordinates Making up 7383 groups Consisting of 2126 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000168550-chr7---148375833-148379903 l45 e 3 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 549205 reads mapping to 271822 Unique genomic coordinates Making up 6809 groups Consisting of 1966 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000097799-chr4-+-143696377-143700004 l45 e 4 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 659720 reads mapping to 287224 Unique genomic coordinates Making up 7068 groups Consisting of 2049 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000136147-chr3-+-130817831-130820305 l45 e 5 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 714882 reads mapping to 288526 Unique genomic coordinates Making up 7073 groups Consisting of 1998 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000046288-chr17-+-31657060-31657706 l44 e 6 nr 1000000 chr ENSMUST00000125995-chr9---42246680-42247806 l43 e 6 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1032316 reads mapping to 274707 Unique genomic coordinates Making up 6766 groups Consisting of 1970 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000102733-chr2---62321123-62321707 l43 e 7 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 809267 reads mapping to 281681 Unique genomic coordinates Making up 6989 groups Consisting of 2000 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000066880-chr7-+-29670247-29676508 l43 e 8 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 622108 reads mapping to 270867 Unique genomic coordinates Making up 6704 groups Consisting of 1862 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000174641-chr9-+-31960125-31961209 l43 e 9 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 548283 reads mapping to 265597 Unique genomic coordinates Making up 6590 groups Consisting of 1916 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000135728-chr3---33739491-33740610 l43 e 10 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 740145 reads mapping to 271686 Unique genomic coordinates Making up 6688 groups Consisting of 1924 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000079323-chr7---79355981-79357111 l43 e 11 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 595478 reads mapping to 267341 Unique genomic coordinates Making up 6698 groups Consisting of 1874 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000111080-chr5---137518434-137519612 l45 e 12 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 638987 reads mapping to 284825 Unique genomic coordinates Making up 6981 groups Consisting of 1970 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000159574-chr13-+-104918809-104919913 l46 e 13 nr 1000000 chr ENSMUST00000028076-chr2-+-18083444-18085013 l43 e 13 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1261057 reads mapping to 285300 Unique genomic coordinates Making up 7116 groups Consisting of 2009 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000032093-chr6---92320886-92327314 l43 e 14 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 602266 reads mapping to 286387 Unique genomic coordinates Making up 7029 groups Consisting of 2008 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000145111-chr6---54378815-54380215 l43 e 15 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 594024 reads mapping to 282969 Unique genomic coordinates Making up 7103 groups Consisting of 1981 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000121851-chr5-+-77269644-77271616 l43 e 16 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 617530 reads mapping to 272958 Unique genomic coordinates Making up 6730 groups Consisting of 1977 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000049166-chr6---4029461-4030517 l41 e 17 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 625854 reads mapping to 289920 Unique genomic coordinates Making up 7231 groups Consisting of 2114 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000024575-chr17-+-7485618-7487718 l42 e 18 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 912899 reads mapping to 279313 Unique genomic coordinates Making up 6943 groups Consisting of 1970 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000098070-chr4-+-55019905-55028219 l43 e 19 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 710114 reads mapping to 296364 Unique genomic coordinates Making up 7293 groups Consisting of 2024 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 495426 reads mapping to 266656 Unique genomic coordinates Making up 6625 groups Consisting of 1953 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000034997-chr9---88415894-88417721 l43 e 21 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 516494 reads mapping to 263574 Unique genomic coordinates Making up 6575 groups Consisting of 1874 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000135225-chr5---109025274-109029022 l45 e 22 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 615202 reads mapping to 277711 Unique genomic coordinates Making up 6896 groups Consisting of 1926 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000030432-chr4-+-135515392-135517323 l45 e 23 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 678995 reads mapping to 280168 Unique genomic coordinates Making up 7002 groups Consisting of 1949 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000100935-chr6-+-125929613-125930724 l45 e 24 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 579505 reads mapping to 287326 Unique genomic coordinates Making up 7220 groups Consisting of 2081 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000154896-chr11-+-100898973-100901725 l46 e 25 nr 1000000 chr ENSMUST00000115266-chrX-+-33508185-33509325 l43 e 25 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1021829 reads mapping to 276756 Unique genomic coordinates Making up 6887 groups Consisting of 1888 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000028233-chr2---34886847-34888326 l43 e 26 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 845714 reads mapping to 291600 Unique genomic coordinates Making up 7318 groups Consisting of 2091 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000028248-chr2---35795694-35796827 l43 e 27 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 876459 reads mapping to 269276 Unique genomic coordinates Making up 6673 groups Consisting of 1929 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000121227-chr9---79485754-79486828 l43 e 28 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 650528 reads mapping to 273025 Unique genomic coordinates Making up 6759 groups Consisting of 1906 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000174528-chr5-+-102273570-102275429 l45 e 29 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 619411 reads mapping to 267980 Unique genomic coordinates Making up 6805 groups Consisting of 1883 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000125174-chr17-+-48457976-48460930 l44 e 30 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 748337 reads mapping to 286879 Unique genomic coordinates Making up 7174 groups Consisting of 2013 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000155952-chr7---150218526-150220331 l45 e 31 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 570106 reads mapping to 285515 Unique genomic coordinates Making up 7075 groups Consisting of 2024 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000150694-chr11-+-17995989-17999232 l44 e 32 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 991987 reads mapping to 280795 Unique genomic coordinates Making up 6839 groups Consisting of 1972 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000120641-chr7---3749949-3751233 l41 e 33 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 584129 reads mapping to 279389 Unique genomic coordinates Making up 6914 groups Consisting of 1946 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000110674-chr2---120963028-120966434 l45 e 34 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 840420 reads mapping to 271555 Unique genomic coordinates Making up 6797 groups Consisting of 1926 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000004137-chr3---107732692-107734735 l45 e 35 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 683833 reads mapping to 289719 Unique genomic coordinates Making up 7220 groups Consisting of 2048 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000028377-chr2-+-65567663-65568836 l43 e 36 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 762796 reads mapping to 276041 Unique genomic coordinates Making up 6821 groups Consisting of 1897 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000049931-chr7---134277216-134281337 l45 e 37 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 551919 reads mapping to 265997 Unique genomic coordinates Making up 6587 groups Consisting of 1860 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000125763-chr18---84727219-84732938 l44 e 38 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 792084 reads mapping to 264643 Unique genomic coordinates Making up 6608 groups Consisting of 1885 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000139268-chr7---52778286-52779139 l43 e 39 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 627993 reads mapping to 284118 Unique genomic coordinates Making up 6999 groups Consisting of 2018 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000076251-chr7-+-4980093-4984740 l41 e 40 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 619281 reads mapping to 278783 Unique genomic coordinates Making up 6937 groups Consisting of 1972 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000028248-chr2---35672743-35673841 l43 e 41 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 735728 reads mapping to 294143 Unique genomic coordinates Making up 7236 groups Consisting of 1967 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000161956-chr3-+-65157689-65162742 l43 e 42 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 735157 reads mapping to 271356 Unique genomic coordinates Making up 6695 groups Consisting of 1900 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000004201-chr9---20574494-20582043 l43 e 43 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 530094 reads mapping to 280813 Unique genomic coordinates Making up 7051 groups Consisting of 1997 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000106919-chr4---101507574-101511244 l45 e 44 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 721258 reads mapping to 273990 Unique genomic coordinates Making up 6856 groups Consisting of 1973 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000042957-chr15---101397875-101399345 l46 e 45 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 888609 reads mapping to 286230 Unique genomic coordinates Making up 7153 groups Consisting of 1953 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000127592-chr8---3952893-3954746 l41 e 46 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 557622 reads mapping to 289233 Unique genomic coordinates Making up 7237 groups Consisting of 2054 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 493351 reads mapping to 266554 Unique genomic coordinates Making up 6794 groups Consisting of 1838 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000035499-chr9-+-64960566-64962748 l43 e 48 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 582480 reads mapping to 273829 Unique genomic coordinates Making up 6796 groups Consisting of 1990 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000072961-chr13-+-18932527-18934649 l44 e 49 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 890178 reads mapping to 282743 Unique genomic coordinates Making up 6889 groups Consisting of 1944 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000133155-chr5-+-106305960-106306750 l45 e 50 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 725768 reads mapping to 281739 Unique genomic coordinates Making up 6898 groups Consisting of 2031 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000051865-chr8-+-112903958-112905651 l45 e 51 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 538319 reads mapping to 260596 Unique genomic coordinates Making up 6470 groups Consisting of 1809 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000173193-chr6---58902944-58907352 l43 e 52 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 655919 reads mapping to 286644 Unique genomic coordinates Making up 7077 groups Consisting of 1924 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000088386-chr14---121883570-121884653 l46 e 53 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 914658 reads mapping to 283425 Unique genomic coordinates Making up 7175 groups Consisting of 2048 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000106058-chr3-+-157209139-157211354 l45 e 54 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 786900 reads mapping to 283380 Unique genomic coordinates Making up 7087 groups Consisting of 2012 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000166865-chr7-+-35009774-35015255 l43 e 55 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 568254 reads mapping to 271871 Unique genomic coordinates Making up 6814 groups Consisting of 1893 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000169107-chr9---15769907-15772056 l43 e 56 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 541557 reads mapping to 278756 Unique genomic coordinates Making up 6997 groups Consisting of 2016 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000026922-chr7---88745367-88757757 l43 e 57 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 562701 reads mapping to 285823 Unique genomic coordinates Making up 7198 groups Consisting of 2033 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000160477-chr12---110121975-110123058 l46 e 58 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 976509 reads mapping to 268696 Unique genomic coordinates Making up 6702 groups Consisting of 1842 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 491552 reads mapping to 266360 Unique genomic coordinates Making up 6791 groups Consisting of 1881 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000112950-chr2-+-36639796-36640360 l43 e 60 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 790055 reads mapping to 272530 Unique genomic coordinates Making up 6794 groups Consisting of 1952 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000032717-chr7---56886869-56889561 l43 e 61 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 601394 reads mapping to 274293 Unique genomic coordinates Making up 6836 groups Consisting of 1942 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000029879-chr4-+-15915649-15916762 l43 e 62 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 697188 reads mapping to 287413 Unique genomic coordinates Making up 7080 groups Consisting of 2050 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000152278-chr9-+-41420143-41423263 l43 e 63 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 524003 reads mapping to 272559 Unique genomic coordinates Making up 6812 groups Consisting of 1965 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000061677-chr7-+-87408764-87410264 l43 e 64 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 604669 reads mapping to 286287 Unique genomic coordinates Making up 7181 groups Consisting of 1993 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000107542-chr3---88175961-88176665 l43 e 65 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 750433 reads mapping to 270375 Unique genomic coordinates Making up 6792 groups Consisting of 1905 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 450065 reads mapping to 245928 Unique genomic coordinates Making up 5976 groups Consisting of 1696 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000159827-chr6---6770189-6775067 l41 e 67 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 630606 reads mapping to 274366 Unique genomic coordinates Making up 6805 groups Consisting of 1969 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000114641-chr6-+-47247914-47251368 l43 e 68 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 636484 reads mapping to 291343 Unique genomic coordinates Making up 7251 groups Consisting of 2074 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000147169-chr6---34898436-34899469 l43 e 69 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 686187 reads mapping to 271337 Unique genomic coordinates Making up 6721 groups Consisting of 1920 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000071168-chr4-+-94464802-94466470 l43 e 70 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 745011 reads mapping to 267434 Unique genomic coordinates Making up 6638 groups Consisting of 1848 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000121949-chr8-+-90690395-90691571 l43 e 71 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 546968 reads mapping to 270867 Unique genomic coordinates Making up 6801 groups Consisting of 1930 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000063471-chr4-+-137277241-137278372 l45 e 72 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 650040 reads mapping to 286362 Unique genomic coordinates Making up 7167 groups Consisting of 1958 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000002084-chrX-+-70981629-70983873 l43 e 73 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 595021 reads mapping to 267233 Unique genomic coordinates Making up 6653 groups Consisting of 1838 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000059644-chr5-+-28687986-28689274 l43 e 74 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 650169 reads mapping to 283704 Unique genomic coordinates Making up 7038 groups Consisting of 1922 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000123619-chr3-+-113792550-113793675 l45 e 75 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 677477 reads mapping to 281203 Unique genomic coordinates Making up 7021 groups Consisting of 2147 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000117350-chr4---128854412-128856076 l45 e 76 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 639546 reads mapping to 266473 Unique genomic coordinates Making up 6547 groups Consisting of 1866 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000109093-chr8---119520936-119522577 l45 e 77 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 565680 reads mapping to 276098 Unique genomic coordinates Making up 6853 groups Consisting of 1948 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000136669-chr4---94252451-94254778 l43 e 78 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 693572 reads mapping to 293169 Unique genomic coordinates Making up 7276 groups Consisting of 2031 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000042452-chr2---151541548-151545879 l45 e 79 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 684212 reads mapping to 273996 Unique genomic coordinates Making up 6715 groups Consisting of 1918 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000109296-chr8-+-108740644-108741680 l45 e 80 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 535989 reads mapping to 278584 Unique genomic coordinates Making up 7099 groups Consisting of 1991 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000105693-chr4---148858512-148859281 l45 e 81 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 649477 reads mapping to 265620 Unique genomic coordinates Making up 6638 groups Consisting of 1858 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000130368-chr9---54574896-54576582 l43 e 82 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 538390 reads mapping to 280398 Unique genomic coordinates Making up 6907 groups Consisting of 1932 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000166190-chr7-+-83577739-83578883 l43 e 83 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 592041 reads mapping to 291096 Unique genomic coordinates Making up 7261 groups Consisting of 2073 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000154982-chr17---24247315-24248584 l44 e 84 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 875270 reads mapping to 266265 Unique genomic coordinates Making up 6609 groups Consisting of 1876 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000112433-chr5---111183916-111186285 l45 e 85 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 811441 reads mapping to 283154 Unique genomic coordinates Making up 7147 groups Consisting of 1976 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000078036-chr18---60990667-60993786 l44 e 86 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 784133 reads mapping to 277356 Unique genomic coordinates Making up 6855 groups Consisting of 1995 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000060642-chr15-+-91529814-91531587 l44 e 87 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 889370 reads mapping to 285227 Unique genomic coordinates Making up 6943 groups Consisting of 2036 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000144827-chr2-+-153612870-153613988 l45 e 88 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 728382 reads mapping to 275247 Unique genomic coordinates Making up 6799 groups Consisting of 1912 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000046386-chr8---124151966-124153089 l45 e 89 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 539780 reads mapping to 263997 Unique genomic coordinates Making up 6577 groups Consisting of 1810 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000161148-chr5---100152474-100155090 l45 e 90 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 653011 reads mapping to 269229 Unique genomic coordinates Making up 6729 groups Consisting of 1885 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000150889-chr17---13816501-13817691 l44 e 91 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 864453 reads mapping to 292738 Unique genomic coordinates Making up 7246 groups Consisting of 2019 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 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1309639 reads mapping to 280214 Unique genomic coordinates Making up 6864 groups Consisting of 2011 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000108083-chr7-+-34880450-34881093 l43 e 93 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 580787 reads mapping to 282037 Unique genomic coordinates Making up 7029 groups Consisting of 2018 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000136412-chr2---91529448-91530494 l43 e 94 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 747735 reads mapping to 296983 Unique genomic coordinates Making up 7331 groups Consisting of 2097 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000095468-chr6-+-124462423-124464395 l45 e 95 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 588323 reads mapping to 270941 Unique genomic coordinates Making up 6759 groups Consisting of 1908 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000055018-chr4---58498849-58500596 l43 e 96 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 704696 reads mapping to 294823 Unique genomic coordinates Making up 7355 groups Consisting of 2055 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000051777-chr7-+-107607786-107608897 l45 e 97 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 563230 reads mapping to 276582 Unique genomic coordinates Making up 6885 groups Consisting of 1948 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000128160-chr3-+-94819547-94820998 l43 e 98 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 702993 reads mapping to 280477 Unique genomic coordinates Making up 6839 groups Consisting of 1967 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000074590-chr6-+-124520874-124522099 l45 e 99 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 668903 reads mapping to 278967 Unique genomic coordinates Making up 7011 groups Consisting of 1938 clusters