Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000080665-chr11---65694630-65695800 l44 e 0 nr 1000000 chr ENSMUST00000101020-chr5-+-95417718-95418300 l43 e 0 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1104169 reads mapping to 543926 Unique genomic coordinates Making up 16206 groups Consisting of 5781 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000028362-chr2---60167533-60169701 l43 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 1124231 reads mapping to 551923 Unique genomic coordinates Making up 16441 groups Consisting of 5679 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000023357-chr16---14299337-14300802 l44 e 2 nr 1000000 chr ENSMUST00000167277-chr4---143027067-143031202 l45 e 2 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1180934 reads mapping to 613038 Unique genomic coordinates Making up 18043 groups Consisting of 6559 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000031317-chr5---91034941-91036403 l43 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 ENSMUST00000069221-chr9---88373909-88376103 l43 e 3 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2522500 reads mapping to 564986 Unique genomic coordinates Making up 17030 groups Consisting of 6063 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000053959-chr14---63295167-63297504 l44 e 4 nr 1000000 chr ENSMUST00000161722-chr3---102007110-102007804 l45 e 4 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1158368 reads mapping to 593281 Unique genomic coordinates Making up 17633 groups Consisting of 6373 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000109654-chr11---11843385-11847305 l44 e 5 nr 1000000 chr ENSMUST00000060230-chr15-+-80716889-80718805 l44 e 5 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1362432 reads mapping to 596878 Unique genomic coordinates Making up 17549 groups Consisting of 6278 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000087158-chr17---37018543-37021506 l44 e 6 nr 1000000 chr ENSMUST00000048308-chr1---186695805-186698806 l45 e 6 nr 1500000 chr ENSMUST00000076316-chr8---80041029-80041806 l43 e 6 nr 2000000 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 2136759 reads mapping to 566157 Unique genomic coordinates Making up 16919 groups Consisting of 6001 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000081042-chr7-+-135150620-135154907 l45 e 7 nr 1000000 chr ENSMUST00000025004-chr17-+-55933406-55934507 l44 e 7 nr 1500000 chr ENSMUST00000077816-chr8---96057908-96059607 l43 e 7 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1573907 reads mapping to 584743 Unique genomic coordinates Making up 17475 groups Consisting of 6156 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000019012-chr15---83947538-83949608 l44 e 8 nr 1000000 chr ENSMUST00000029005-chr2-+-172293596-172295408 l45 e 8 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1296083 reads mapping to 561814 Unique genomic coordinates Making up 16544 groups Consisting of 5895 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000133696-chr19-+-6341135-6347309 l42 e 9 nr 1000000 chr ENSMUST00000114335-chr5-+-34955437-34957509 l43 e 9 nr 1500000 chr ENSMUST00000124329-chrX-+-106166960-106168009 l45 e 9 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1506442 reads mapping to 554074 Unique genomic coordinates Making up 16571 groups Consisting of 6027 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000135271-chr1---82567444-82568610 l43 e 10 nr 1000000 chr ENSMUST00000037585-chr14-+-27418602-27420510 l44 e 10 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1372907 reads mapping to 559380 Unique genomic coordinates Making up 16631 groups Consisting of 5981 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000149758-chr2---27126795-27127911 l43 e 11 nr 1000000 chr ENSMUST00000032501-chr6-+-127892735-127894311 l45 e 11 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1087733 reads mapping to 559233 Unique genomic coordinates Making up 16689 groups Consisting of 5915 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000021283-chr11-+-68286797-68287912 l44 e 12 nr 1000000 chr ENSMUST00000021201-chr11---76591926-76596412 l44 e 12 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1458207 reads mapping to 588217 Unique genomic coordinates Making up 17555 groups Consisting of 6219 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000159574-chr13-+-104918809-104919913 l46 e 13 nr 1000000 chr ENSMUST00000166489-chr4-+-155328843-155333713 l45 e 13 nr 1500000 chr ENSMUST00000169350-chr6-+-48406473-48419713 l43 e 13 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1615009 reads mapping to 593447 Unique genomic coordinates Making up 17585 groups Consisting of 6439 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000171687-chr16-+-38562925-38564914 l44 e 14 nr 1000000 chr ENSMUST00000133648-chr2---115382522-115387314 l45 e 14 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1324645 reads mapping to 594917 Unique genomic coordinates Making up 17572 groups Consisting of 6455 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000114694-chr16-+-43617936-43642715 l44 e 15 nr 1000000 chr ENSMUST00000109926-chr2-+-150015629-150017015 l45 e 15 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1241702 reads mapping to 593449 Unique genomic coordinates Making up 17672 groups Consisting of 6304 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000046378-chr16-+-75597915-75599616 l44 e 16 nr 1000000 chr ENSMUST00000078541-chr13-+-58960030-58963416 l44 e 16 nr 1500000 chr ENSMUST00000016770-chr7-+-114339056-114341616 l45 e 16 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1564535 reads mapping to 572503 Unique genomic coordinates Making up 16817 groups Consisting of 6124 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000024873-chr17-+-74897149-74899617 l44 e 17 nr 1000000 chr ENSMUST00000063789-chr4---139876571-139879217 l45 e 17 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1138721 reads mapping to 596255 Unique genomic coordinates Making up 17680 groups Consisting of 6308 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000153277-chr7---134848502-134850818 l45 e 18 nr 1000000 chr ENSMUST00000099434-chr13---64413075-64414018 l44 e 18 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1326355 reads mapping to 576750 Unique genomic coordinates Making up 17096 groups Consisting of 6128 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000156979-chr10---108127440-108128619 l46 e 19 nr 1000000 chr ENSMUST00000047275-chr16-+-97657749-97660619 l44 e 19 nr 1500000 chr ENSMUST00000000312-chr8-+-109176907-109178319 l45 e 19 nr 2000000 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 2137233 reads mapping to 609603 Unique genomic coordinates Making up 17990 groups Consisting of 6376 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000070173-chr8---73173010-73176920 l43 e 20 nr 1000000 chr ENSMUST00000028607-chr2---103603098-103607520 l45 e 20 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1234706 reads mapping to 546857 Unique genomic coordinates Making up 16348 groups Consisting of 5891 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000043148-chr6-+-66846391-66847021 l43 e 21 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 976071 reads mapping to 541356 Unique genomic coordinates Making up 16176 groups Consisting of 5733 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000146865-chr12---32722987-32724022 l44 e 22 nr 1000000 chr ENSMUST00000168293-chr10-+-114847085-114850022 l46 e 22 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1489897 reads mapping to 578691 Unique genomic coordinates Making up 17276 groups Consisting of 6121 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000162112-chr12---16697065-16698223 l44 e 23 nr 1000000 chr ENSMUST00000010280-chr3---105816846-105817523 l45 e 23 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1227044 reads mapping to 583242 Unique genomic coordinates Making up 17473 groups Consisting of 6119 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000025774-chr19---5283143-5285224 l42 e 24 nr 1000000 chr ENSMUST00000061350-chr16---30343020-30345224 l44 e 24 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1358534 reads mapping to 599117 Unique genomic coordinates Making up 17823 groups Consisting of 6445 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000164998-chr18-+-24404051-24405225 l44 e 25 nr 1000000 chr ENSMUST00000093350-chr11-+-6224381-6225425 l42 e 25 nr 1500000 chr ENSMUST00000120159-chr17-+-75564547-75565125 l44 e 25 nr 2000000 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 2389614 reads mapping to 572283 Unique genomic coordinates Making up 16820 groups Consisting of 6036 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000061468-chr7---134848492-134849826 l45 e 26 nr 1000000 chr ENSMUST00000121303-chr11-+-87612866-87614026 l44 e 26 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1367664 reads mapping to 608168 Unique genomic coordinates Making up 17831 groups Consisting of 6504 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000121564-chr9---35030699-35031827 l43 e 27 nr 1000000 chr ENSMUST00000026322-chr14---25273292-25277027 l44 e 27 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1454623 reads mapping to 560677 Unique genomic coordinates Making up 16663 groups Consisting of 5964 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000040320-chr15-+-78959739-78967328 l44 e 28 nr 1000000 chr ENSMUST00000093951-chr3---146151111-146152228 l45 e 28 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1172156 reads mapping to 577408 Unique genomic coordinates Making up 17247 groups Consisting of 6013 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000059031-chr14-+-28276732-28278129 l44 e 29 nr 1000000 chr ENSMUST00000114220-chr16---78544257-78546029 l44 e 29 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1440343 reads mapping to 564782 Unique genomic coordinates Making up 16882 groups Consisting of 6022 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000172292-chr1---164470388-164471530 l45 e 30 nr 1000000 chr ENSMUST00000099714-chr2---91483826-91487130 l43 e 30 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1296837 reads mapping to 599037 Unique genomic coordinates Making up 18048 groups Consisting of 6572 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000028728-chr2---120725737-120727931 l45 e 31 nr 1000000 chr ENSMUST00000031412-chr5---122071035-122073331 l45 e 31 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1124127 reads mapping to 594036 Unique genomic coordinates Making up 17637 groups Consisting of 6346 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000127716-chr18---64329530-64330632 l44 e 32 nr 1000000 chr ENSMUST00000044217-chr12-+-77159919-77161732 l44 e 32 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1379056 reads mapping to 570775 Unique genomic coordinates Making up 16958 groups Consisting of 5926 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000164878-chr17---32552251-32556433 l44 e 33 nr 1000000 chr ENSMUST00000113103-chr2---34580063-34581533 l43 e 33 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1191070 reads mapping to 583860 Unique genomic coordinates Making up 17464 groups Consisting of 6130 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000115588-chr9-+-15523577-15525734 l43 e 34 nr 1000000 chr ENSMUST00000051756-chr13---113348856-113349934 l46 e 34 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1370542 reads mapping to 562413 Unique genomic coordinates Making up 16775 groups Consisting of 6063 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000021259-chr11---69031619-69039135 l44 e 35 nr 1000000 chr ENSMUST00000168363-chr3-+-40608430-40612335 l43 e 35 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1201358 reads mapping to 593061 Unique genomic coordinates Making up 17521 groups Consisting of 6335 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000117911-chr9---119392528-119396436 l45 e 36 nr 1000000 chr ENSMUST00000053017-chr18---15610433-15612336 l44 e 36 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1330438 reads mapping to 580806 Unique genomic coordinates Making up 17257 groups Consisting of 6185 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000031121-chr5---72024285-72025437 l43 e 37 nr 1000000 chr ENSMUST00000046993-chr7---127175639-127176837 l45 e 37 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1060324 reads mapping to 553219 Unique genomic coordinates Making up 16528 groups Consisting of 5824 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000168190-chr8-+-85794293-85796838 l43 e 38 nr 1000000 chr ENSMUST00000099384-chr13-+-74077185-74078738 l44 e 38 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1428684 reads mapping to 559460 Unique genomic coordinates Making up 16655 groups Consisting of 5955 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000132902-chr16---62825431-62827739 l44 e 39 nr 1000000 chr ENSMUST00000077972-chr2-+-76392571-76394539 l43 e 39 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1325676 reads mapping to 591953 Unique genomic coordinates Making up 17659 groups Consisting of 6303 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000129913-chr16---22063155-22065740 l44 e 40 nr 1000000 chr ENSMUST00000125950-chr5-+-65539328-65540540 l43 e 40 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1259466 reads mapping to 577202 Unique genomic coordinates Making up 17138 groups Consisting of 6214 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000045876-chr1---165915636-165918341 l45 e 41 nr 1000000 chr ENSMUST00000131812-chr18---32996134-32996941 l44 e 41 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1229540 reads mapping to 607258 Unique genomic coordinates Making up 18269 groups Consisting of 6442 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000162336-chr1---188560967-188564242 l45 e 42 nr 1000000 chr ENSMUST00000048274-chr4---82889308-82891542 l43 e 42 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1335758 reads mapping to 560901 Unique genomic coordinates Making up 16667 groups Consisting of 6063 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000030538-chr4-+-137864765-137868543 l45 e 43 nr 1000000 chr ENSMUST00000039493-chr3-+-36936947-36941343 l43 e 43 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1173804 reads mapping to 584852 Unique genomic coordinates Making up 17509 groups Consisting of 6333 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000170690-chr10---94874124-94876244 l44 e 44 nr 1000000 chr ENSMUST00000099715-chr16---48732023-48735644 l44 e 44 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1296124 reads mapping to 578531 Unique genomic coordinates Making up 17200 groups Consisting of 6349 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000087514-chr5-+-38623981-38625545 l43 e 45 nr 1000000 chr ENSMUST00000036732-chr16---45639918-45641045 l44 e 45 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1317717 reads mapping to 590008 Unique genomic coordinates Making up 17513 groups Consisting of 6314 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000029804-chr3---138151722-138152346 l45 e 46 nr 1000000 chr ENSMUST00000043829-chr4-+-154983448-154987346 l45 e 46 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1268361 reads mapping to 601550 Unique genomic coordinates Making up 17822 groups Consisting of 6319 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000098817-chr8-+-41625533-41626947 l43 e 47 nr 1000000 chr ENSMUST00000174212-chr9-+-91265842-91266447 l43 e 47 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1094126 reads mapping to 550725 Unique genomic coordinates Making up 16527 groups Consisting of 5819 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000026063-chr19---56605207-56606348 l44 e 48 nr 1000000 chr ENSMUST00000076212-chr2-+-103522935-103524148 l45 e 48 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1242761 reads mapping to 569342 Unique genomic coordinates Making up 16789 groups Consisting of 6144 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000100650-chr5---134835608-134840349 l45 e 49 nr 1000000 chr ENSMUST00000049614-chr17-+-48462762-48466349 l44 e 49 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1493660 reads mapping to 588420 Unique genomic coordinates Making up 17456 groups Consisting of 6385 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000047203-chr10---79223036-79225950 l44 e 50 nr 1000000 chr ENSMUST00000118002-chr2-+-145775155-145779550 l45 e 50 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1233863 reads mapping to 577197 Unique genomic coordinates Making up 17184 groups Consisting of 6088 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000140283-chr3-+-97432806-97434151 l43 e 51 nr 1000000 chr ENSMUST00000168119-chr6---141855803-141858151 l45 e 51 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1082615 reads mapping to 548097 Unique genomic coordinates Making up 16276 groups Consisting of 5869 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000138383-chr12-+-87532997-87536052 l44 e 52 nr 1000000 chr ENSMUST00000026063-chr19---56603649-56604652 l44 e 52 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1283853 reads mapping to 600664 Unique genomic coordinates Making up 17711 groups Consisting of 6472 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000060655-chr6---54879670-54880753 l43 e 53 nr 1000000 chr ENSMUST00000157414-chr12-+-79266533-79266653 l44 e 53 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1415937 reads mapping to 589131 Unique genomic coordinates Making up 17472 groups Consisting of 6292 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000121227-chr9---79546556-79548854 l43 e 54 nr 1000000 chr ENSMUST00000024727-chr17---45528841-45530654 l44 e 54 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1272300 reads mapping to 590536 Unique genomic coordinates Making up 17691 groups Consisting of 6340 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000129775-chr3-+-142393666-142394755 l45 e 55 nr 1000000 chr ENSMUST00000000175-chr9---50404443-50405855 l43 e 55 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1018141 reads mapping to 561083 Unique genomic coordinates Making up 16942 groups Consisting of 6016 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000121566-chr4---133722704-133723856 l45 e 56 nr 1000000 chr ENSMUST00000048967-chr8---67075757-67076856 l43 e 56 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1066898 reads mapping to 583149 Unique genomic coordinates Making up 17303 groups Consisting of 6243 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000037580-chr2-+-25737216-25738257 l43 e 57 nr 1000000 chr ENSMUST00000135776-chr5-+-106157242-106163257 l45 e 57 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1251740 reads mapping to 590480 Unique genomic coordinates Making up 17635 groups Consisting of 6409 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000124183-chr2---24537996-24539058 l43 e 58 nr 1000000 chr ENSMUST00000131035-chr11-+-119277261-119278458 l46 e 58 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1474567 reads mapping to 553616 Unique genomic coordinates Making up 16538 groups Consisting of 5918 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000125782-chr7-+-3583770-3588659 l41 e 59 nr 1000000 chr ENSMUST00000160066-chr5-+-64040342-64042059 l43 e 59 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1120194 reads mapping to 557559 Unique genomic coordinates Making up 16610 groups Consisting of 6040 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000010189-chr9-+-107436276-107438160 l45 e 60 nr 1000000 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 1217503 reads mapping to 562391 Unique genomic coordinates Making up 16664 groups Consisting of 6050 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000055280-chr2-+-57960448-57962961 l43 e 61 nr 1000000 chr ENSMUST00000150136-chr7---140081172-140082261 l45 e 61 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1058617 reads mapping to 566071 Unique genomic coordinates Making up 16958 groups Consisting of 6023 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000058902-chr11---29694721-29695862 l44 e 62 nr 1000000 chr ENSMUST00000161568-chr13-+-90243480-90251862 l44 e 62 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1442772 reads mapping to 593352 Unique genomic coordinates Making up 17703 groups Consisting of 6293 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000125909-chr4---19909835-19911263 l43 e 63 nr 1000000 chr ENSMUST00000044165-chr9-+-118536757-118537863 l45 e 63 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1012033 reads mapping to 564517 Unique genomic coordinates Making up 16761 groups Consisting of 6029 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000023330-chr16-+-48618115-48619264 l44 e 64 nr 1000000 chr ENSMUST00000123597-chr4---126609921-126611064 l45 e 64 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1236272 reads mapping to 593092 Unique genomic coordinates Making up 17766 groups Consisting of 6330 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000074861-chrX---50423172-50424565 l43 e 65 nr 1000000 chr ENSMUST00000112495-chr2-+-61431134-61431765 l43 e 65 nr 1500000 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 1519318 reads mapping to 556950 Unique genomic coordinates Making up 16702 groups Consisting of 5864 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000174501-chr1-+-89317566-89318666 l43 e 66 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 959110 reads mapping to 510603 Unique genomic coordinates Making up 15182 groups Consisting of 5449 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000023087-chr15---94414312-94417467 l44 e 67 nr 1000000 chr ENSMUST00000048347-chr4---118069718-118072267 l45 e 67 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1126980 reads mapping to 571220 Unique genomic coordinates Making up 16951 groups Consisting of 6076 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000142917-chr14-+-13057484-13059468 l44 e 68 nr 1000000 chr ENSMUST00000149383-chr2-+-34262291-34262868 l43 e 68 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1249705 reads mapping to 596273 Unique genomic coordinates Making up 17736 groups Consisting of 6276 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000167258-chr11-+-95995100-95997669 l44 e 69 nr 1000000 chr ENSMUST00000028863-chr2-+-139996382-139997169 l45 e 69 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1379274 reads mapping to 558829 Unique genomic coordinates Making up 16540 groups Consisting of 5908 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000117552-chrX---100199063-100200370 l45 e 70 nr 1000000 chr ENSMUST00000022219-chr13---93122680-93124470 l44 e 70 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1407512 reads mapping to 557762 Unique genomic coordinates Making up 16606 groups Consisting of 5857 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000151814-chr19-+-50817568-50819271 l44 e 71 nr 1000000 chr ENSMUST00000084203-chr4---141196832-141199171 l45 e 71 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1175844 reads mapping to 567186 Unique genomic coordinates Making up 16824 groups Consisting of 5962 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000162157-chr15-+-57782030-57786772 l44 e 72 nr 1000000 chr ENSMUST00000075848-chr5---74926307-74927772 l43 e 72 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1114838 reads mapping to 582536 Unique genomic coordinates Making up 17458 groups Consisting of 6237 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000169861-chr19-+-54061444-54063373 l44 e 73 nr 1000000 chr ENSMUST00000041126-chr2-+-179777214-179778073 l45 e 73 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1228185 reads mapping to 565024 Unique genomic coordinates Making up 16985 groups Consisting of 6084 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000022511-chr14-+-57561590-57563574 l44 e 74 nr 1000000 chr ENSMUST00000124443-chr2-+-34262382-34263274 l43 e 74 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1282767 reads mapping to 585442 Unique genomic coordinates Making up 17356 groups Consisting of 6007 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000124721-chr11-+-69909804-69912375 l44 e 75 nr 1000000 chr ENSMUST00000109669-chr2---155246013-155249175 l45 e 75 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1201860 reads mapping to 584157 Unique genomic coordinates Making up 17475 groups Consisting of 6453 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000024575-chr17-+-7439895-7440976 l42 e 76 nr 1000000 chr ENSMUST00000110832-chr5---140278439-140284976 l45 e 76 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1123368 reads mapping to 550614 Unique genomic coordinates Making up 16364 groups Consisting of 5823 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000107804-chr4-+-45216797-45217777 l43 e 77 nr 1000000 chr ENSMUST00000121457-chr8-+-22818501-22821077 l43 e 77 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1094449 reads mapping to 572523 Unique genomic coordinates Making up 17031 groups Consisting of 6098 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000001963-chr11-+-105848830-105851278 l46 e 78 nr 1000000 chr ENSMUST00000173672-chr19---5824708-5845478 l42 e 78 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1361511 reads mapping to 615767 Unique genomic coordinates Making up 18339 groups Consisting of 6644 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000156175-chr11---69115019-69118479 l44 e 79 nr 1000000 chr ENSMUST00000045969-chr13---67359997-67361679 l44 e 79 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1459137 reads mapping to 568355 Unique genomic coordinates Making up 17003 groups Consisting of 6002 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000154111-chr2---168034548-168037480 l45 e 80 nr 1000000 chr ENSMUST00000024112-chr16-+-97757690-97758280 l44 e 80 nr 1500000 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 1861300 reads mapping to 589287 Unique genomic coordinates Making up 17527 groups Consisting of 6406 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000071898-chr15---76426239-76434681 l44 e 81 nr 1000000 chr ENSMUST00000142090-chr2---91783679-91786581 l43 e 81 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1185413 reads mapping to 554361 Unique genomic coordinates Making up 16457 groups Consisting of 5936 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000128010-chr4---116309116-116315082 l45 e 82 nr 1000000 chr ENSMUST00000159406-chr5---144062874-144064182 l45 e 82 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1090970 reads mapping to 586087 Unique genomic coordinates Making up 17595 groups Consisting of 6288 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000156224-chr17-+-45800468-45801483 l44 e 83 nr 1000000 chr ENSMUST00000169141-chr19---41698488-41700583 l44 e 83 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1260271 reads mapping to 604319 Unique genomic coordinates Making up 18039 groups Consisting of 6485 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000132709-chr5---152451947-152453084 l45 e 84 nr 1000000 chr ENSMUST00000036509-chr2---25860346-25861484 l43 e 84 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1215548 reads mapping to 546739 Unique genomic coordinates Making up 16466 groups Consisting of 5755 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000093510-chr8---55733073-55735085 l43 e 85 nr 1000000 chr ENSMUST00000137963-chr15---74439572-74442985 l44 e 85 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1421123 reads mapping to 587616 Unique genomic coordinates Making up 17525 groups Consisting of 6095 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000159527-chr9-+-26569735-26570686 l43 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 ENSMUST00000061699-chr10---85422085-85423786 l44 e 86 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2472259 reads mapping to 584070 Unique genomic coordinates Making up 17306 groups Consisting of 6333 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000144969-chr6---114958211-114961387 l45 e 87 nr 1000000 chr ENSMUST00000170957-chr13---14144716-14147987 l44 e 87 nr 1500000 chr ENSMUST00000171665-chr7---4422143-4422887 l41 e 87 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1582248 reads mapping to 598644 Unique genomic coordinates Making up 17775 groups Consisting of 6371 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000027780-chr1-+-182674702-182675888 l45 e 88 nr 1000000 chr ENSMUST00000168185-chr15---76466046-76470388 l44 e 88 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1366061 reads mapping to 567581 Unique genomic coordinates Making up 16841 groups Consisting of 6033 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000101044-chr6---113739247-113740489 l45 e 89 nr 1000000 chr ENSMUST00000086050-chr5-+-95709481-95711989 l43 e 89 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1135572 reads mapping to 546093 Unique genomic coordinates Making up 16267 groups Consisting of 5897 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000056047-chr13-+-113078659-113079690 l46 e 90 nr 1000000 chr ENSMUST00000030032-chr4-+-48662667-48663790 l43 e 90 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1210010 reads mapping to 568404 Unique genomic coordinates Making up 17052 groups Consisting of 6035 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000110829-chr5---140564084-140565291 l45 e 91 nr 1000000 chr ENSMUST00000149307-chr12---85380419-85382891 l44 e 91 nr 1500000 chr ENSMUST00000162592-chr7---30690729-30691591 l43 e 91 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1574734 reads mapping to 605176 Unique genomic coordinates Making up 18056 groups Consisting of 6416 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000094665-chr2---120100470-120101692 l45 e 92 nr 1000000 chr ENSMUST00000111990-chr2---74491049-74494892 l43 e 92 nr 1500000 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 1663162 reads mapping to 574624 Unique genomic coordinates Making up 17112 groups Consisting of 6183 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000042868-chr18-+-33315903-33316993 l44 e 93 nr 1000000 chr ENSMUST00000163620-chr3-+-130335826-130336893 l45 e 93 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1176493 reads mapping to 590102 Unique genomic coordinates Making up 17571 groups Consisting of 6284 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000165319-chr1-+-141029748-141032894 l45 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 ENSMUST00000043359-chr8---83253494-83254594 l43 e 94 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2050870 reads mapping to 609487 Unique genomic coordinates Making up 18027 groups Consisting of 6449 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000075619-chr19---7983683-7985095 l42 e 95 nr 1000000 chr ENSMUST00000115074-chr5-+-23905231-23909795 l43 e 95 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1150265 reads mapping to 557197 Unique genomic coordinates Making up 16575 groups Consisting of 5802 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000100969-chr11---69710854-69714396 l44 e 96 nr 1000000 chr ENSMUST00000108617-chr11-+-69715380-69726096 l44 e 96 nr 1500000 chr ENSMUST00000067458-chr15-+-32618551-32626096 l44 e 96 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1828108 reads mapping to 608113 Unique genomic coordinates Making up 18099 groups Consisting of 6458 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000028377-chr2-+-65565943-65567097 l43 e 97 nr 1000000 chr ENSMUST00000171336-chr1-+-141036529-141037597 l45 e 97 nr 1500000 chr ENSMUST00000144331-chr17---51971295-51971997 l44 e 97 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1778480 reads mapping to 569424 Unique genomic coordinates Making up 16900 groups Consisting of 6017 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000052885-chr10---79439863-79442998 l44 e 98 nr 1000000 chr ENSMUST00000131407-chr19-+-10100370-10102798 l44 e 98 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1276422 reads mapping to 578453 Unique genomic coordinates Making up 17078 groups Consisting of 6102 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000110076-chr12---101916228-101917299 l46 e 99 nr 1000000 chr ENSMUST00000106257-chr4---122562557-122563299 l45 e 99 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1153829 reads mapping to 569688 Unique genomic coordinates Making up 17118 groups Consisting of 5938 clusters