Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000016670 l18 e 0 nr 1000000 chr ENSMUST00000020500 l18 e 0 nr 1500000 chr ENSMUST00000133070 l18 e 0 nr 2000000 chr ENSMUST00000056110 l18 e 0 nr 2500000 chr ENSMUST00000163350 l18 e 0 nr 3000000 chr ENSMUST00000108910 l18 e 0 nr 3500000 chr ENSMUST00000167860 l18 e 0 nr 4000000 chr ENSMUST00000026220 l18 e 0 nr 4500000 chr ENSMUST00000028900 l18 e 0 nr 5000000 chr ENSMUST00000047950 l18 e 0 nr 5500000 chr ENSMUST00000169190 l18 e 0 nr 6000000 chr ENSMUST00000003710 l18 e 0 nr 6500000 chr ENSMUST00000001950 l18 e 0 nr 7000000 chr ENSMUST00000156520 l18 e 0 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 7249654 reads mapping to 3472044 Unique genomic coordinates Making up 97896 groups Consisting of 30909 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000095801 l18 e 1 nr 1000000 chr ENSMUST00000109131 l18 e 1 nr 1500000 chr ENSMUST00000056781 l18 e 1 nr 2000000 chr ENSMUST00000043111 l18 e 1 nr 2500000 chr ENSMUST00000172831 l18 e 1 nr 3000000 chr ENSMUST00000023741 l18 e 1 nr 3500000 chr ENSMUST00000173931 l18 e 1 nr 4000000 chr ENSMUST00000045521 l18 e 1 nr 4500000 chr ENSMUST00000111451 l18 e 1 nr 5000000 chr ENSMUST00000107581 l18 e 1 nr 5500000 chr ENSMUST00000127831 l18 e 1 nr 6000000 chr ENSMUST00000164281 l18 e 1 nr 6500000 chr ENSMUST00000169351 l18 e 1 nr 7000000 chr ENSMUST00000060601 l18 e 1 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 7460619 reads mapping to 3441703 Unique genomic coordinates Making up 97526 groups Consisting of 30773 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000138762 l18 e 2 nr 1000000 chr ENSMUST00000118112 l18 e 2 nr 1500000 chr ENSMUST00000107152 l18 e 2 nr 2000000 chr ENSMUST00000049022 l18 e 2 nr 2500000 chr ENSMUST00000169062 l18 e 2 nr 3000000 chr ENSMUST00000065302 l18 e 2 nr 3500000 chr ENSMUST00000171692 l18 e 2 nr 4000000 chr ENSMUST00000099742 l18 e 2 nr 4500000 chr ENSMUST00000047762 l18 e 2 nr 5000000 chr ENSMUST00000028102 l18 e 2 nr 5500000 chr ENSMUST00000038532 l18 e 2 nr 6000000 chr ENSMUST00000106782 l18 e 2 nr 6500000 chr ENSMUST00000112852 l18 e 2 nr 7000000 chr ENSMUST00000072222 l18 e 2 nr 7500000 chr ENSMUST00000125802 l18 e 2 nr 8000000 chr ENSMUST00000143142 l18 e 2 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 8149916 reads mapping to 3437441 Unique genomic coordinates Making up 97411 groups Consisting of 31222 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000036643 l18 e 3 nr 1000000 chr ENSMUST00000102923 l18 e 3 nr 1500000 chr ENSMUST00000080853 l18 e 3 nr 2000000 chr ENSMUST00000021803 l18 e 3 nr 2500000 chr ENSMUST00000123853 l18 e 3 nr 3000000 chr ENSMUST00000066983 l18 e 3 nr 3500000 chr ENSMUST00000025083 l18 e 3 nr 4000000 chr ENSMUST00000113123 l18 e 3 nr 4500000 chr ENSMUST00000094203 l18 e 3 nr 5000000 chr ENSMUST00000147113 l18 e 3 nr 5500000 chr ENSMUST00000144363 l18 e 3 nr 6000000 chr ENSMUST00000046373 l18 e 3 nr 6500000 chr ENSMUST00000122053 l18 e 3 nr 7000000 chr ENSMUST00000096313 l18 e 3 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 7034511 reads mapping to 3387632 Unique genomic coordinates Making up 95551 groups Consisting of 30272 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000060404 l18 e 4 nr 1000000 chr ENSMUST00000171954 l18 e 4 nr 1500000 chr ENSMUST00000017354 l18 e 4 nr 2000000 chr ENSMUST00000170784 l18 e 4 nr 2500000 chr ENSMUST00000022344 l18 e 4 nr 3000000 chr ENSMUST00000063544 l18 e 4 nr 3500000 chr ENSMUST00000043464 l18 e 4 nr 4000000 chr ENSMUST00000056914 l18 e 4 nr 4500000 chr ENSMUST00000089634 l18 e 4 nr 5000000 chr ENSMUST00000029444 l18 e 4 nr 5500000 chr ENSMUST00000164784 l18 e 4 nr 6000000 chr ENSMUST00000169724 l18 e 4 nr 6500000 chr ENSMUST00000040514 l18 e 4 nr 7000000 chr ENSMUST00000035484 l18 e 4 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 7387604 reads mapping to 3516096 Unique genomic coordinates Making up 98890 groups Consisting of 31358 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000094325 l18 e 5 nr 1000000 chr ENSMUST00000102815 l18 e 5 nr 1500000 chr ENSMUST00000126175 l18 e 5 nr 2000000 chr ENSMUST00000163095 l18 e 5 nr 2500000 chr ENSMUST00000049005 l18 e 5 nr 3000000 chr ENSMUST00000023165 l18 e 5 nr 3500000 chr ENSMUST00000035565 l18 e 5 nr 4000000 chr ENSMUST00000171415 l18 e 5 nr 4500000 chr ENSMUST00000110525 l18 e 5 nr 5000000 chr ENSMUST00000029445 l18 e 5 nr 5500000 chr ENSMUST00000054865 l18 e 5 nr 6000000 chr ENSMUST00000032135 l18 e 5 nr 6500000 chr ENSMUST00000036155 l18 e 5 nr 7000000 chr ENSMUST00000035495 l18 e 5 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 7468089 reads mapping to 3475813 Unique genomic coordinates Making up 98189 groups Consisting of 31094 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000027876 l18 e 6 nr 1000000 chr ENSMUST00000071646 l18 e 6 nr 1500000 chr ENSMUST00000107586 l18 e 6 nr 2000000 chr ENSMUST00000165476 l18 e 6 nr 2500000 chr ENSMUST00000022696 l18 e 6 nr 3000000 chr ENSMUST00000053336 l18 e 6 nr 3500000 chr ENSMUST00000115856 l18 e 6 nr 4000000 chr ENSMUST00000143616 l18 e 6 nr 4500000 chr ENSMUST00000087446 l18 e 6 nr 5000000 chr ENSMUST00000075406 l18 e 6 nr 5500000 chr ENSMUST00000085886 l18 e 6 nr 6000000 chr ENSMUST00000032796 l18 e 6 nr 6500000 chr ENSMUST00000041106 l18 e 6 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 6966186 reads mapping to 3502188 Unique genomic coordinates Making up 98962 groups Consisting of 31696 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000174397 l18 e 7 nr 1000000 chr ENSMUST00000038217 l18 e 7 nr 1500000 chr ENSMUST00000043397 l18 e 7 nr 2000000 chr ENSMUST00000099747 l18 e 7 nr 2500000 chr ENSMUST00000110617 l18 e 7 nr 3000000 chr ENSMUST00000066037 l18 e 7 nr 3500000 chr ENSMUST00000155407 l18 e 7 nr 4000000 chr ENSMUST00000113037 l18 e 7 nr 4500000 chr ENSMUST00000152357 l18 e 7 nr 5000000 chr ENSMUST00000050067 l18 e 7 nr 5500000 chr ENSMUST00000031447 l18 e 7 nr 6000000 chr ENSMUST00000113207 l18 e 7 nr 6500000 chr ENSMUST00000144897 l18 e 7 nr 7000000 chr ENSMUST00000094637 l18 e 7 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 7336129 reads mapping to 3494990 Unique genomic coordinates Making up 98582 groups Consisting of 31235 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000170718 l18 e 8 nr 1000000 chr ENSMUST00000057608 l18 e 8 nr 1500000 chr ENSMUST00000075258 l18 e 8 nr 2000000 chr ENSMUST00000085138 l18 e 8 nr 2500000 chr ENSMUST00000022458 l18 e 8 nr 3000000 chr ENSMUST00000120028 l18 e 8 nr 3500000 chr ENSMUST00000067538 l18 e 8 nr 4000000 chr ENSMUST00000091268 l18 e 8 nr 4500000 chr ENSMUST00000029358 l18 e 8 nr 5000000 chr ENSMUST00000124758 l18 e 8 nr 5500000 chr ENSMUST00000040308 l18 e 8 nr 6000000 chr ENSMUST00000072438 l18 e 8 nr 6500000 chr ENSMUST00000108988 l18 e 8 nr 7000000 chr ENSMUST00000065858 l18 e 8 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 7070458 reads mapping to 3388726 Unique genomic coordinates Making up 95859 groups Consisting of 30282 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000086099 l18 e 9 nr 1000000 chr ENSMUST00000072239 l18 e 9 nr 1500000 chr ENSMUST00000107909 l18 e 9 nr 2000000 chr ENSMUST00000092279 l18 e 9 nr 2500000 chr ENSMUST00000111089 l18 e 9 nr 3000000 chr ENSMUST00000114239 l18 e 9 nr 3500000 chr ENSMUST00000078609 l18 e 9 nr 4000000 chr ENSMUST00000161089 l18 e 9 nr 4500000 chr ENSMUST00000011029 l18 e 9 nr 5000000 chr ENSMUST00000165709 l18 e 9 nr 5500000 chr ENSMUST00000110959 l18 e 9 nr 6000000 chr ENSMUST00000118969 l18 e 9 nr 6500000 chr ENSMUST00000065079 l18 e 9 nr 7000000 chr ENSMUST00000026289 l18 e 9 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 7018564 reads mapping to 3486524 Unique genomic coordinates Making up 98320 groups Consisting of 31351 clusters