Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000048010 l18 e 0 nr 1000000 chr ENSMUST00000173060 l18 e 0 nr 1500000 chr ENSMUST00000022040 l18 e 0 nr 2000000 chr ENSMUST00000109230 l18 e 0 nr 2500000 chr ENSMUST00000115850 l18 e 0 nr 3000000 chr ENSMUST00000099590 l18 e 0 nr 3500000 chr ENSMUST00000047950 l18 e 0 nr 4000000 chr ENSMUST00000111770 l18 e 0 nr 4500000 chr ENSMUST00000168030 l18 e 0 nr 5000000 chr ENSMUST00000166160 l18 e 0 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 5284142 reads mapping to 2801553 Unique genomic coordinates Making up 82509 groups Consisting of 23379 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000047061 l18 e 1 nr 1000000 chr ENSMUST00000145401 l18 e 1 nr 1500000 chr ENSMUST00000106411 l18 e 1 nr 2000000 chr ENSMUST00000171551 l18 e 1 nr 2500000 chr ENSMUST00000075381 l18 e 1 nr 3000000 chr ENSMUST00000116551 l18 e 1 nr 3500000 chr ENSMUST00000099311 l18 e 1 nr 4000000 chr ENSMUST00000102781 l18 e 1 nr 4500000 chr ENSMUST00000115251 l18 e 1 nr 5000000 chr ENSMUST00000026571 l18 e 1 nr 5500000 chr ENSMUST00000114751 l18 e 1 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 5690058 reads mapping to 2792643 Unique genomic coordinates Making up 81398 groups Consisting of 23052 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000135242 l18 e 2 nr 1000000 chr ENSMUST00000102702 l18 e 2 nr 1500000 chr ENSMUST00000038422 l18 e 2 nr 2000000 chr ENSMUST00000062002 l18 e 2 nr 2500000 chr ENSMUST00000097352 l18 e 2 nr 3000000 chr ENSMUST00000097352 l18 e 2 nr 3500000 chr ENSMUST00000097352 l18 e 2 nr 4000000 chr ENSMUST00000041772 l18 e 2 nr 4500000 chr ENSMUST00000099712 l18 e 2 nr 5000000 chr ENSMUST00000168352 l18 e 2 nr 5500000 chr ENSMUST00000058472 l18 e 2 nr 6000000 chr ENSMUST00000138392 l18 e 2 nr 6500000 chr ENSMUST00000054052 l18 e 2 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 6934181 reads mapping to 2780227 Unique genomic coordinates Making up 81185 groups Consisting of 23014 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000072863 l18 e 3 nr 1000000 chr ENSMUST00000058163 l18 e 3 nr 1500000 chr ENSMUST00000110933 l18 e 3 nr 2000000 chr ENSMUST00000100473 l18 e 3 nr 2500000 chr ENSMUST00000162333 l18 e 3 nr 3000000 chr ENSMUST00000163923 l18 e 3 nr 3500000 chr ENSMUST00000080493 l18 e 3 nr 4000000 chr ENSMUST00000064873 l18 e 3 nr 4500000 chr ENSMUST00000049393 l18 e 3 nr 5000000 chr ENSMUST00000078533 l18 e 3 nr 5500000 chr ENSMUST00000070863 l18 e 3 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 5913681 reads mapping to 2750137 Unique genomic coordinates Making up 80074 groups Consisting of 22976 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000088904 l18 e 4 nr 1000000 chr ENSMUST00000099374 l18 e 4 nr 1500000 chr ENSMUST00000109094 l18 e 4 nr 2000000 chr ENSMUST00000078124 l18 e 4 nr 2500000 chr ENSMUST00000089394 l18 e 4 nr 3000000 chr ENSMUST00000143914 l18 e 4 nr 3500000 chr ENSMUST00000162534 l18 e 4 nr 4000000 chr ENSMUST00000028704 l18 e 4 nr 4500000 chr ENSMUST00000108214 l18 e 4 nr 5000000 chr ENSMUST00000113604 l18 e 4 nr 5500000 chr ENSMUST00000054594 l18 e 4 nr 6000000 chr ENSMUST00000154644 l18 e 4 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 6335607 reads mapping to 2843094 Unique genomic coordinates Making up 82586 groups Consisting of 23288 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000039725 l18 e 5 nr 1000000 chr ENSMUST00000039925 l18 e 5 nr 1500000 chr ENSMUST00000144725 l18 e 5 nr 2000000 chr ENSMUST00000018805 l18 e 5 nr 2500000 chr ENSMUST00000095585 l18 e 5 nr 3000000 chr ENSMUST00000023165 l18 e 5 nr 3500000 chr ENSMUST00000115145 l18 e 5 nr 4000000 chr ENSMUST00000109685 l18 e 5 nr 4500000 chr ENSMUST00000006565 l18 e 5 nr 5000000 chr ENSMUST00000113835 l18 e 5 nr 5500000 chr ENSMUST00000033935 l18 e 5 nr 6000000 chr ENSMUST00000057645 l18 e 5 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 6128037 reads mapping to 2817796 Unique genomic coordinates Making up 82042 groups Consisting of 23153 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000135386 l18 e 6 nr 1000000 chr ENSMUST00000105266 l18 e 6 nr 1500000 chr ENSMUST00000169576 l18 e 6 nr 2000000 chr ENSMUST00000102766 l18 e 6 nr 2500000 chr ENSMUST00000041806 l18 e 6 nr 3000000 chr ENSMUST00000022706 l18 e 6 nr 3500000 chr ENSMUST00000145056 l18 e 6 nr 4000000 chr ENSMUST00000037776 l18 e 6 nr 4500000 chr ENSMUST00000130216 l18 e 6 nr 5000000 chr ENSMUST00000052366 l18 e 6 nr 5500000 chr ENSMUST00000111086 l18 e 6 nr 6000000 chr ENSMUST00000084526 l18 e 6 nr 6500000 chr ENSMUST00000031536 l18 e 6 nr 7000000 chr ENSMUST00000125356 l18 e 6 nr 7500000 chr ENSMUST00000064316 l18 e 6 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 7892867 reads mapping to 2844149 Unique genomic coordinates Making up 82726 groups Consisting of 23405 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000027947 l18 e 7 nr 1000000 chr ENSMUST00000105267 l18 e 7 nr 1500000 chr ENSMUST00000109097 l18 e 7 nr 2000000 chr ENSMUST00000110487 l18 e 7 nr 2500000 chr ENSMUST00000100337 l18 e 7 nr 3000000 chr ENSMUST00000113957 l18 e 7 nr 3500000 chr ENSMUST00000039327 l18 e 7 nr 4000000 chr ENSMUST00000054607 l18 e 7 nr 4500000 chr ENSMUST00000095807 l18 e 7 nr 5000000 chr ENSMUST00000166847 l18 e 7 nr 5500000 chr ENSMUST00000054397 l18 e 7 nr 6000000 chr ENSMUST00000084867 l18 e 7 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 6197042 reads mapping to 2834406 Unique genomic coordinates Making up 82188 groups Consisting of 23390 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000027918 l18 e 8 nr 1000000 chr ENSMUST00000136938 l18 e 8 nr 1500000 chr ENSMUST00000071028 l18 e 8 nr 2000000 chr ENSMUST00000159258 l18 e 8 nr 2500000 chr ENSMUST00000066998 l18 e 8 nr 3000000 chr ENSMUST00000139038 l18 e 8 nr 3500000 chr ENSMUST00000127348 l18 e 8 nr 4000000 chr ENSMUST00000071768 l18 e 8 nr 4500000 chr ENSMUST00000127748 l18 e 8 nr 5000000 chr ENSMUST00000026538 l18 e 8 nr 5500000 chr ENSMUST00000052368 l18 e 8 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 5623745 reads mapping to 2744753 Unique genomic coordinates Making up 80024 groups Consisting of 22426 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000105529 l18 e 9 nr 1000000 chr ENSMUST00000101069 l18 e 9 nr 1500000 chr ENSMUST00000048319 l18 e 9 nr 2000000 chr ENSMUST00000110329 l18 e 9 nr 2500000 chr ENSMUST00000024779 l18 e 9 nr 3000000 chr ENSMUST00000113129 l18 e 9 nr 3500000 chr ENSMUST00000102749 l18 e 9 nr 4000000 chr ENSMUST00000117319 l18 e 9 nr 4500000 chr ENSMUST00000168919 l18 e 9 nr 5000000 chr ENSMUST00000046929 l18 e 9 nr 5500000 chr ENSMUST00000115239 l18 e 9 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 5623880 reads mapping to 2831980 Unique genomic coordinates Making up 82437 groups Consisting of 23331 clusters