Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000027900 l18 e 0 nr 1000000 chr ENSMUST00000044250 l18 e 0 nr 1500000 chr ENSMUST00000079400 l18 e 0 nr 2000000 chr ENSMUST00000081580 l18 e 0 nr 2500000 chr ENSMUST00000023370 l18 e 0 nr 3000000 chr ENSMUST00000145910 l18 e 0 nr 3500000 chr ENSMUST00000148210 l18 e 0 nr 4000000 chr ENSMUST00000142890 l18 e 0 nr 4500000 chr ENSMUST00000121160 l18 e 0 nr 5000000 chr ENSMUST00000064910 l18 e 0 nr 5500000 chr ENSMUST00000009390 l18 e 0 nr 6000000 chr ENSMUST00000113070 l18 e 0 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 6042474 reads mapping to 3062371 Unique genomic coordinates Making up 90940 groups Consisting of 28420 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000170771 l18 e 1 nr 1000000 chr ENSMUST00000148671 l18 e 1 nr 1500000 chr ENSMUST00000143031 l18 e 1 nr 2000000 chr ENSMUST00000022601 l18 e 1 nr 2500000 chr ENSMUST00000163421 l18 e 1 nr 3000000 chr ENSMUST00000025581 l18 e 1 nr 3500000 chr ENSMUST00000094421 l18 e 1 nr 4000000 chr ENSMUST00000156771 l18 e 1 nr 4500000 chr ENSMUST00000019721 l18 e 1 nr 5000000 chr ENSMUST00000047321 l18 e 1 nr 5500000 chr ENSMUST00000043441 l18 e 1 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 5668129 reads mapping to 3050824 Unique genomic coordinates Making up 90375 groups Consisting of 28189 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000048052 l18 e 2 nr 1000000 chr ENSMUST00000171032 l18 e 2 nr 1500000 chr ENSMUST00000128402 l18 e 2 nr 2000000 chr ENSMUST00000164532 l18 e 2 nr 2500000 chr ENSMUST00000054072 l18 e 2 nr 3000000 chr ENSMUST00000051772 l18 e 2 nr 3500000 chr ENSMUST00000099092 l18 e 2 nr 4000000 chr ENSMUST00000097992 l18 e 2 nr 4500000 chr ENSMUST00000060442 l18 e 2 nr 5000000 chr ENSMUST00000155572 l18 e 2 nr 5500000 chr ENSMUST00000093772 l18 e 2 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 5727026 reads mapping to 3039559 Unique genomic coordinates Making up 89343 groups Consisting of 28037 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000027783 l18 e 3 nr 1000000 chr ENSMUST00000128483 l18 e 3 nr 1500000 chr ENSMUST00000167103 l18 e 3 nr 2000000 chr ENSMUST00000054963 l18 e 3 nr 2500000 chr ENSMUST00000023693 l18 e 3 nr 3000000 chr ENSMUST00000025803 l18 e 3 nr 3500000 chr ENSMUST00000161903 l18 e 3 nr 4000000 chr ENSMUST00000106193 l18 e 3 nr 4500000 chr ENSMUST00000168003 l18 e 3 nr 5000000 chr ENSMUST00000124113 l18 e 3 nr 5500000 chr ENSMUST00000170643 l18 e 3 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 5634051 reads mapping to 2986223 Unique genomic coordinates Making up 88031 groups Consisting of 27435 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000043104 l18 e 4 nr 1000000 chr ENSMUST00000102574 l18 e 4 nr 1500000 chr ENSMUST00000021734 l18 e 4 nr 2000000 chr ENSMUST00000159054 l18 e 4 nr 2500000 chr ENSMUST00000044804 l18 e 4 nr 3000000 chr ENSMUST00000113454 l18 e 4 nr 3500000 chr ENSMUST00000121484 l18 e 4 nr 4000000 chr ENSMUST00000169614 l18 e 4 nr 4500000 chr ENSMUST00000041544 l18 e 4 nr 5000000 chr ENSMUST00000147964 l18 e 4 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 5412614 reads mapping to 3087177 Unique genomic coordinates Making up 91325 groups Consisting of 28473 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000077225 l18 e 5 nr 1000000 chr ENSMUST00000101085 l18 e 5 nr 1500000 chr ENSMUST00000110935 l18 e 5 nr 2000000 chr ENSMUST00000078075 l18 e 5 nr 2500000 chr ENSMUST00000113855 l18 e 5 nr 3000000 chr ENSMUST00000040455 l18 e 5 nr 3500000 chr ENSMUST00000088095 l18 e 5 nr 4000000 chr ENSMUST00000056635 l18 e 5 nr 4500000 chr ENSMUST00000078155 l18 e 5 nr 5000000 chr ENSMUST00000053445 l18 e 5 nr 5500000 chr ENSMUST00000113735 l18 e 5 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 5581868 reads mapping to 3071039 Unique genomic coordinates Making up 90529 groups Consisting of 28522 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000046646 l18 e 6 nr 1000000 chr ENSMUST00000109286 l18 e 6 nr 1500000 chr ENSMUST00000169216 l18 e 6 nr 2000000 chr ENSMUST00000039876 l18 e 6 nr 2500000 chr ENSMUST00000170646 l18 e 6 nr 3000000 chr ENSMUST00000062216 l18 e 6 nr 3500000 chr ENSMUST00000169246 l18 e 6 nr 4000000 chr ENSMUST00000105846 l18 e 6 nr 4500000 chr ENSMUST00000110486 l18 e 6 nr 5000000 chr ENSMUST00000124026 l18 e 6 nr 5500000 chr ENSMUST00000035086 l18 e 6 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 5699691 reads mapping to 3099219 Unique genomic coordinates Making up 91773 groups Consisting of 28852 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000111117 l18 e 7 nr 1000000 chr ENSMUST00000069837 l18 e 7 nr 1500000 chr ENSMUST00000041407 l18 e 7 nr 2000000 chr ENSMUST00000074447 l18 e 7 nr 2500000 chr ENSMUST00000115207 l18 e 7 nr 3000000 chr ENSMUST00000024897 l18 e 7 nr 3500000 chr ENSMUST00000111677 l18 e 7 nr 4000000 chr ENSMUST00000139137 l18 e 7 nr 4500000 chr ENSMUST00000169847 l18 e 7 nr 5000000 chr ENSMUST00000094827 l18 e 7 nr 5500000 chr ENSMUST00000168847 l18 e 7 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 5909305 reads mapping to 3088991 Unique genomic coordinates Making up 91153 groups Consisting of 28485 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000053748 l18 e 8 nr 1000000 chr ENSMUST00000021278 l18 e 8 nr 1500000 chr ENSMUST00000170188 l18 e 8 nr 2000000 chr ENSMUST00000174418 l18 e 8 nr 2500000 chr ENSMUST00000119848 l18 e 8 nr 3000000 chr ENSMUST00000112508 l18 e 8 nr 3500000 chr ENSMUST00000064718 l18 e 8 nr 4000000 chr ENSMUST00000141108 l18 e 8 nr 4500000 chr ENSMUST00000171618 l18 e 8 nr 5000000 chr ENSMUST00000034328 l18 e 8 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 5472501 reads mapping to 2994116 Unique genomic coordinates Making up 88595 groups Consisting of 27690 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000161609 l18 e 9 nr 1000000 chr ENSMUST00000055539 l18 e 9 nr 1500000 chr ENSMUST00000106279 l18 e 9 nr 2000000 chr ENSMUST00000090499 l18 e 9 nr 2500000 chr ENSMUST00000114949 l18 e 9 nr 3000000 chr ENSMUST00000168419 l18 e 9 nr 3500000 chr ENSMUST00000135079 l18 e 9 nr 4000000 chr ENSMUST00000173699 l18 e 9 nr 4500000 chr ENSMUST00000080469 l18 e 9 nr 5000000 chr ENSMUST00000170459 l18 e 9 nr 5500000 chr ENSMUST00000055009 l18 e 9 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 5732797 reads mapping to 3077915 Unique genomic coordinates Making up 90991 groups Consisting of 28384 clusters