Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000041447-chr1---14901941-14903100 l43 e 0 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 831420 reads mapping to 413457 Unique genomic coordinates Making up 11797 groups Consisting of 3784 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000162853-chr10-+-122218739-122219901 l46 e 1 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 845753 reads mapping to 419941 Unique genomic coordinates Making up 12011 groups Consisting of 3754 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000056571-chr10-+-5086649-5087802 l42 e 2 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 880577 reads mapping to 467099 Unique genomic coordinates Making up 13153 groups Consisting of 4233 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 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1886853 reads mapping to 429184 Unique genomic coordinates Making up 12245 groups Consisting of 3914 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000163058-chr1---59234876-59238004 l43 e 4 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 861532 reads mapping to 451425 Unique genomic coordinates Making up 12819 groups Consisting of 4160 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000081094-chr4-+-133902755-133905805 l45 e 5 nr 1000000 chr ENSMUST00000164246-chr9---62357771-62358305 l43 e 5 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1015643 reads mapping to 455192 Unique genomic coordinates Making up 12779 groups Consisting of 4074 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000034279-chr8-+-123094117-123097306 l45 e 6 nr 1000000 chr ENSMUST00000107209-chr3---94985688-94993706 l43 e 6 nr 1500000 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 1633461 reads mapping to 430856 Unique genomic coordinates Making up 12268 groups Consisting of 3860 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000147338-chr2-+-32219276-32220507 l43 e 7 nr 1000000 chr ENSMUST00000094120-chr5-+-145547001-145549107 l45 e 7 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1173093 reads mapping to 445676 Unique genomic coordinates Making up 12708 groups Consisting of 4030 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000111435-chr1---167522312-167524308 l45 e 8 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 971134 reads mapping to 428052 Unique genomic coordinates Making up 12025 groups Consisting of 3775 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000152582-chr1-+-182037148-182039909 l45 e 9 nr 1000000 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 1139086 reads mapping to 420315 Unique genomic coordinates Making up 12088 groups Consisting of 3886 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000031276-chr5---99662434-99664210 l43 e 10 nr 1000000 chr ENSMUST00000075190-chr8---105156895-105159210 l45 e 10 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1035943 reads mapping to 426638 Unique genomic coordinates Making up 12079 groups Consisting of 3886 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000036246-chr11---5043330-5044911 l42 e 11 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 807548 reads mapping to 425894 Unique genomic coordinates Making up 12189 groups Consisting of 3826 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000150490-chr11-+-96122426-96126012 l44 e 12 nr 1000000 chr ENSMUST00000132553-chr4---33396487-33397112 l43 e 12 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1111572 reads mapping to 447914 Unique genomic coordinates Making up 12791 groups Consisting of 3988 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000002360-chr17---33910695-33913013 l44 e 13 nr 1000000 chr ENSMUST00000089765-chr15-+-72920822-72921513 l44 e 13 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1233835 reads mapping to 452229 Unique genomic coordinates Making up 12841 groups Consisting of 4156 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000062387-chr1---174255337-174257214 l45 e 14 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 989761 reads mapping to 453441 Unique genomic coordinates Making up 12861 groups Consisting of 4166 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000019999-chr10---18453364-18454415 l44 e 15 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 929246 reads mapping to 451775 Unique genomic coordinates Making up 12967 groups Consisting of 4067 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000060208-chr2-+-70075374-70077516 l43 e 16 nr 1000000 chr ENSMUST00000126610-chr2-+-32817079-32820016 l43 e 16 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1195320 reads mapping to 436880 Unique genomic coordinates Making up 12375 groups Consisting of 3997 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000140408-chr10---75373764-75379317 l44 e 17 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 850787 reads mapping to 453812 Unique genomic coordinates Making up 12871 groups Consisting of 4056 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000081162-chr14---55471573-55477618 l44 e 18 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 987625 reads mapping to 439324 Unique genomic coordinates Making up 12552 groups Consisting of 4087 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000061828-chr8---122147754-122150819 l45 e 19 nr 1000000 chr ENSMUST00000000312-chr8-+-109176907-109178319 l45 e 19 nr 1500000 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 1570406 reads mapping to 464617 Unique genomic coordinates Making up 13062 groups Consisting of 4094 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000019006-chr11-+-115205049-115206920 l46 e 20 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 924149 reads mapping to 417170 Unique genomic coordinates Making up 11926 groups Consisting of 3822 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000103013-chr11-+-121320215-121323621 l46 e 21 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 726597 reads mapping to 411858 Unique genomic coordinates Making up 11743 groups Consisting of 3692 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000066193-chr18-+-52853333-52855322 l44 e 22 nr 1000000 chr ENSMUST00000111254-chr2-+-93508012-93509322 l43 e 22 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1140113 reads mapping to 440426 Unique genomic coordinates Making up 12586 groups Consisting of 4002 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000169761-chr1-+-64604577-64606123 l43 e 23 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 917821 reads mapping to 443336 Unique genomic coordinates Making up 12669 groups Consisting of 3969 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000107272-chr3---94572582-94575124 l43 e 24 nr 1000000 chr ENSMUST00000140466-chr9---7014974-7016024 l41 e 24 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1026663 reads mapping to 456519 Unique genomic coordinates Making up 13088 groups Consisting of 4195 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000003574-chr8---74532443-74533525 l43 e 25 nr 1000000 chr ENSMUST00000120159-chr17-+-75564547-75565125 l44 e 25 nr 1500000 chr ENSMUST00000120159-chr17-+-75564547-75565125 l44 e 25 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1781257 reads mapping to 435508 Unique genomic coordinates Making up 12336 groups Consisting of 4021 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000140842-chr11-+-72121609-72122926 l44 e 26 nr 1000000 chr ENSMUST00000160527-chr8---3707064-3709326 l41 e 26 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1034507 reads mapping to 462917 Unique genomic coordinates Making up 13084 groups Consisting of 4261 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000165386-chr15---3239625-3240727 l42 e 27 nr 1000000 chr ENSMUST00000061008-chr5---5639629-5640727 l41 e 27 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1093206 reads mapping to 427170 Unique genomic coordinates Making up 12201 groups Consisting of 3875 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000105473-chr10-+-52827454-52831428 l44 e 28 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 867585 reads mapping to 439183 Unique genomic coordinates Making up 12521 groups Consisting of 3854 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000094337-chr1---172837404-172839529 l45 e 29 nr 1000000 chr ENSMUST00000127891-chr7-+-104779419-104780629 l45 e 29 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1074401 reads mapping to 429070 Unique genomic coordinates Making up 12323 groups Consisting of 3882 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000128702-chr5-+-116357479-116359330 l45 e 30 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 968232 reads mapping to 454718 Unique genomic coordinates Making up 13094 groups Consisting of 4236 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000155410-chr10-+-42530149-42531231 l44 e 31 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 839046 reads mapping to 452651 Unique genomic coordinates Making up 12991 groups Consisting of 4173 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000068836-chr7---133918479-133920332 l45 e 32 nr 1000000 chr ENSMUST00000117189-chr7-+-13491083-13494432 l43 e 32 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1051281 reads mapping to 434376 Unique genomic coordinates Making up 12324 groups Consisting of 3821 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000056071-chr1-+-175568497-175569633 l45 e 33 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 885566 reads mapping to 443986 Unique genomic coordinates Making up 12685 groups Consisting of 4011 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000077004-chr15---74708766-74712134 l44 e 34 nr 1000000 chr ENSMUST00000149771-chr9-+-100829760-100830934 l45 e 34 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1029350 reads mapping to 428207 Unique genomic coordinates Making up 12257 groups Consisting of 3905 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000112863-chrX-+-140225278-140232335 l45 e 35 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 895534 reads mapping to 452363 Unique genomic coordinates Making up 12801 groups Consisting of 4202 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000044492-chr5-+-4027874-4029036 l41 e 36 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 997951 reads mapping to 442432 Unique genomic coordinates Making up 12700 groups Consisting of 4053 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000110321-chr12-+-83517391-83518537 l44 e 37 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 793150 reads mapping to 420692 Unique genomic coordinates Making up 12012 groups Consisting of 3771 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000097352-chr17-+-31741198-31744638 l44 e 38 nr 1000000 chr ENSMUST00000068058-chr5---74432558-74433638 l43 e 38 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1080035 reads mapping to 425508 Unique genomic coordinates Making up 12051 groups Consisting of 3891 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000161833-chr1-+-58276331-58277439 l43 e 39 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 991067 reads mapping to 450459 Unique genomic coordinates Making up 12856 groups Consisting of 4063 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000141683-chr10---79868745-79869540 l44 e 40 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 939055 reads mapping to 439758 Unique genomic coordinates Making up 12611 groups Consisting of 4127 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000085939-chr9-+-45202566-45204241 l43 e 41 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 915309 reads mapping to 461810 Unique genomic coordinates Making up 13204 groups Consisting of 4103 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000165754-chr9---123621048-123622242 l45 e 42 nr 1000000 chr ENSMUST00000117365-chrX---106584083-106586342 l45 e 42 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1003421 reads mapping to 427198 Unique genomic coordinates Making up 12170 groups Consisting of 3945 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000067443-chr11-+-82773007-82776443 l44 e 43 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 879227 reads mapping to 444843 Unique genomic coordinates Making up 12762 groups Consisting of 4123 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000118169-chr7-+-135409190-135415944 l45 e 44 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 971709 reads mapping to 440631 Unique genomic coordinates Making up 12468 groups Consisting of 4081 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000165431-chr14-+-4359399-4361045 l42 e 45 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 993241 reads mapping to 450108 Unique genomic coordinates Making up 12829 groups Consisting of 4098 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000133342-chr10---128067899-128074346 l46 e 46 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 948775 reads mapping to 457930 Unique genomic coordinates Making up 12981 groups Consisting of 4051 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000071816-chr14---21582868-21585947 l44 e 47 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 813285 reads mapping to 418454 Unique genomic coordinates Making up 11946 groups Consisting of 3810 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000138801-chr10-+-79698356-79706648 l44 e 48 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 929757 reads mapping to 433688 Unique genomic coordinates Making up 12307 groups Consisting of 3955 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000077531-chr14---105548970-105553349 l46 e 49 nr 1000000 chr ENSMUST00000128569-chr5-+-24607276-24609549 l43 e 49 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1114597 reads mapping to 448462 Unique genomic coordinates Making up 12720 groups Consisting of 4146 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000004729-chr7-+-50709388-50710450 l43 e 50 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 919315 reads mapping to 438856 Unique genomic coordinates Making up 12539 groups Consisting of 3979 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000046223-chr11---109956677-109957251 l46 e 51 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 805269 reads mapping to 417224 Unique genomic coordinates Making up 11822 groups Consisting of 3797 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000147658-chr9-+-69676350-69678652 l43 e 52 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 962769 reads mapping to 457496 Unique genomic coordinates Making up 12991 groups Consisting of 4243 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000120239-chr10---62803024-62805153 l44 e 53 nr 1000000 chr ENSMUST00000153268-chr6---142216212-142217353 l45 e 53 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1063730 reads mapping to 448682 Unique genomic coordinates Making up 12743 groups Consisting of 4089 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000132028-chr2-+-32218530-32220354 l43 e 54 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 949133 reads mapping to 448522 Unique genomic coordinates Making up 12922 groups Consisting of 4125 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000146499-chr12---103639595-103643055 l46 e 55 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 753787 reads mapping to 426348 Unique genomic coordinates Making up 12236 groups Consisting of 3877 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000126499-chr11---110026711-110027856 l46 e 56 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 794716 reads mapping to 443769 Unique genomic coordinates Making up 12635 groups Consisting of 4141 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000060782-chr10-+-127691187-127692957 l46 e 57 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 937357 reads mapping to 449655 Unique genomic coordinates Making up 12882 groups Consisting of 4127 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000164230-chr8---46102570-46106558 l43 e 58 nr 1000000 chr ENSMUST00000114384-chr5-+-34326086-34327658 l43 e 58 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1123542 reads mapping to 421581 Unique genomic coordinates Making up 11977 groups Consisting of 3831 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000035988-chr13---38619557-38620359 l44 e 59 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 834446 reads mapping to 424474 Unique genomic coordinates Making up 12074 groups Consisting of 3882 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000028341-chr2-+-25127998-25130860 l43 e 60 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 918589 reads mapping to 429301 Unique genomic coordinates Making up 12237 groups Consisting of 3959 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000077013-chr10-+-77174202-77174561 l44 e 61 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 792390 reads mapping to 430589 Unique genomic coordinates Making up 12310 groups Consisting of 3867 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000084250-chr4---131901061-131901662 l45 e 62 nr 1000000 chr ENSMUST00000105809-chr4---138274753-138278062 l45 e 62 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1091433 reads mapping to 452153 Unique genomic coordinates Making up 12909 groups Consisting of 4068 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000020843-chr11-+-84044653-84045763 l44 e 63 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 750358 reads mapping to 429143 Unique genomic coordinates Making up 12378 groups Consisting of 3958 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000092597-chr10-+-33588456-33590564 l44 e 64 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 926567 reads mapping to 451204 Unique genomic coordinates Making up 13023 groups Consisting of 4145 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000125054-chr5-+-115996322-115999765 l45 e 65 nr 1000000 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 1144096 reads mapping to 424405 Unique genomic coordinates Making up 12050 groups Consisting of 3758 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000129237-chr14-+-21365301-21366066 l44 e 66 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 715464 reads mapping to 388452 Unique genomic coordinates Making up 11096 groups Consisting of 3500 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000117245-chr1-+-184375905-184377367 l45 e 67 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 843974 reads mapping to 434561 Unique genomic coordinates Making up 12411 groups Consisting of 3926 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000111416-chr1-+-168224222-168225368 l45 e 68 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 918212 reads mapping to 454008 Unique genomic coordinates Making up 12852 groups Consisting of 4106 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000027521-chr1-+-91530235-91531369 l43 e 69 nr 1000000 chr ENSMUST00000098915-chr9-+-31147415-31149569 l43 e 69 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1033346 reads mapping to 425941 Unique genomic coordinates Making up 12037 groups Consisting of 3905 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000082094-chr6---71832938-71836070 l43 e 70 nr 1000000 chr ENSMUST00000108411-chr7---26021897-26022870 l43 e 70 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1052911 reads mapping to 425564 Unique genomic coordinates Making up 12164 groups Consisting of 3806 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000105225-chr10---129174817-129175971 l46 e 71 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 880692 reads mapping to 431953 Unique genomic coordinates Making up 12223 groups Consisting of 3827 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000064091-chr1---121578561-121579872 l45 e 72 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 828015 reads mapping to 442755 Unique genomic coordinates Making up 12754 groups Consisting of 3997 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000038829-chr1-+-132762246-132762973 l45 e 73 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 926378 reads mapping to 429891 Unique genomic coordinates Making up 12392 groups Consisting of 3906 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000137906-chr1-+-36374429-36380874 l43 e 74 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 951978 reads mapping to 446417 Unique genomic coordinates Making up 12628 groups Consisting of 3813 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000124688-chr9-+-65820786-65823475 l43 e 75 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 895979 reads mapping to 444871 Unique genomic coordinates Making up 12783 groups Consisting of 4282 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000027164-chr1-+-60970957-60972676 l43 e 76 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 840628 reads mapping to 418713 Unique genomic coordinates Making up 11910 groups Consisting of 3748 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000021085-chr11-+-115427415-115428577 l46 e 77 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 819136 reads mapping to 436369 Unique genomic coordinates Making up 12409 groups Consisting of 3994 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000170860-chr8-+-95441434-95443178 l43 e 78 nr 1000000 chr ENSMUST00000041551-chr9-+-63450462-63451078 l43 e 78 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1023763 reads mapping to 468714 Unique genomic coordinates Making up 13330 groups Consisting of 4314 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000010597-chr1---36424114-36425379 l43 e 79 nr 1000000 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 1092713 reads mapping to 432831 Unique genomic coordinates Making up 12356 groups Consisting of 3901 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000085555-chr1---194930597-194934480 l45 e 80 nr 1000000 chr ENSMUST00000024112-chr16-+-97757690-97758280 l44 e 80 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1418210 reads mapping to 448564 Unique genomic coordinates Making up 12929 groups Consisting of 4207 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000033503-chrX---7591844-7592981 l41 e 81 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 893949 reads mapping to 422188 Unique genomic coordinates Making up 11991 groups Consisting of 3880 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000125365-chr11-+-41697968-41699682 l44 e 82 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 812081 reads mapping to 446569 Unique genomic coordinates Making up 12740 groups Consisting of 4046 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000160041-chr9-+-36667897-36668983 l43 e 83 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 937120 reads mapping to 459759 Unique genomic coordinates Making up 12984 groups Consisting of 4228 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000024650-chr17-+-9200371-9201184 l42 e 84 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 911566 reads mapping to 415990 Unique genomic coordinates Making up 11836 groups Consisting of 3728 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000138752-chr2---126425970-126428185 l45 e 85 nr 1000000 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 1065593 reads mapping to 447642 Unique genomic coordinates Making up 12777 groups Consisting of 3992 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000094190-chr3---72761535-72762686 l43 e 86 nr 1000000 chr ENSMUST00000075329-chr1-+-176321177-176322186 l45 e 86 nr 1500000 chr ENSMUST00000016638-chr1-+-196784111-196787486 l45 e 86 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1857864 reads mapping to 444767 Unique genomic coordinates Making up 12606 groups Consisting of 4111 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000050555-chr11---69691767-69694487 l44 e 87 nr 1000000 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 1211792 reads mapping to 456774 Unique genomic coordinates Making up 12927 groups Consisting of 4128 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000120292-chr5-+-82194663-82195788 l43 e 88 nr 1000000 chr ENSMUST00000109093-chr8---119573307-119576188 l45 e 88 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1025938 reads mapping to 432297 Unique genomic coordinates Making up 12281 groups Consisting of 3932 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000026466-chr10-+-127162448-127163689 l46 e 89 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 845626 reads mapping to 415670 Unique genomic coordinates Making up 11919 groups Consisting of 3828 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000114928-chrX---46225524-46230890 l43 e 90 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 912665 reads mapping to 433283 Unique genomic coordinates Making up 12443 groups Consisting of 3941 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000164512-chr14-+-4299825-4303791 l42 e 91 nr 1000000 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 1192387 reads mapping to 461383 Unique genomic coordinates Making up 13162 groups Consisting of 4204 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000094665-chr2---120100470-120101692 l45 e 92 nr 1000000 chr ENSMUST00000067927-chr14---64932024-64933092 l44 e 92 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1272931 reads mapping to 437865 Unique genomic coordinates Making up 12557 groups Consisting of 4047 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000086861-chr1-+-93264442-93270793 l43 e 93 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 880002 reads mapping to 449045 Unique genomic coordinates Making up 12792 groups Consisting of 4152 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000114459-chr6---51410433-51417794 l43 e 94 nr 1000000 chr ENSMUST00000022629-chr14---67480810-67481994 l44 e 94 nr 1500000 chr ENSMUST00000046993-chr7---127232870-127234694 l45 e 94 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1549288 reads mapping to 464059 Unique genomic coordinates Making up 13135 groups Consisting of 4221 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000109135-chr11---50624588-50629995 l44 e 95 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 854362 reads mapping to 425018 Unique genomic coordinates Making up 12159 groups Consisting of 3770 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000084488-chr7-+-141915513-141916596 l45 e 96 nr 1000000 chr ENSMUST00000021850-chr13-+-34974600-34976796 l44 e 96 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1363132 reads mapping to 463755 Unique genomic coordinates Making up 13148 groups Consisting of 4214 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000171336-chr1-+-141036529-141037597 l45 e 97 nr 1000000 chr ENSMUST00000054014-chr15---79368489-79372097 l44 e 97 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1320822 reads mapping to 433518 Unique genomic coordinates Making up 12343 groups Consisting of 3935 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000027226-chr1-+-32675516-32676598 l43 e 98 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 955759 reads mapping to 441269 Unique genomic coordinates Making up 12458 groups Consisting of 3951 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000166172-chr1-+-158570070-158579699 l45 e 99 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 864905 reads mapping to 433057 Unique genomic coordinates Making up 12382 groups Consisting of 3835 clusters