Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000133330 l18 e 0 nr 1000000 chr ENSMUST00000152160 l18 e 0 nr 1500000 chr ENSMUST00000159500 l18 e 0 nr 2000000 chr ENSMUST00000055220 l18 e 0 nr 2500000 chr ENSMUST00000174170 l18 e 0 nr 3000000 chr ENSMUST00000143870 l18 e 0 nr 3500000 chr ENSMUST00000159400 l18 e 0 nr 4000000 chr ENSMUST00000135000 l18 e 0 nr 4500000 chr ENSMUST00000083370 l18 e 0 nr 5000000 chr ENSMUST00000147610 l18 e 0 nr 5500000 chr ENSMUST00000142600 l18 e 0 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1398227 reads mapping to 723115 Unique genomic coordinates Making up 14287 groups Consisting of 7591 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000156501 l18 e 1 nr 1000000 chr ENSMUST00000131221 l18 e 1 nr 1500000 chr ENSMUST00000136441 l18 e 1 nr 2000000 chr ENSMUST00000155351 l18 e 1 nr 2500000 chr ENSMUST00000130871 l18 e 1 nr 3000000 chr ENSMUST00000155521 l18 e 1 nr 3500000 chr ENSMUST00000152881 l18 e 1 nr 4000000 chr ENSMUST00000152701 l18 e 1 nr 4500000 chr ENSMUST00000040751 l18 e 1 nr 5000000 chr ENSMUST00000129311 l18 e 1 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1462262 reads mapping to 717945 Unique genomic coordinates Making up 13893 groups Consisting of 7568 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000160332 l18 e 2 nr 1000000 chr ENSMUST00000156562 l18 e 2 nr 1500000 chr ENSMUST00000151052 l18 e 2 nr 2000000 chr ENSMUST00000127362 l18 e 2 nr 2500000 chr ENSMUST00000173562 l18 e 2 nr 3000000 chr ENSMUST00000143252 l18 e 2 nr 3500000 chr ENSMUST00000156182 l18 e 2 nr 4000000 chr ENSMUST00000157342 l18 e 2 nr 4500000 chr ENSMUST00000142272 l18 e 2 nr 5000000 chr ENSMUST00000139192 l18 e 2 nr 5500000 chr ENSMUST00000154062 l18 e 2 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1643585 reads mapping to 768960 Unique genomic coordinates Making up 14408 groups Consisting of 8159 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000121823 l18 e 3 nr 1000000 chr ENSMUST00000164053 l18 e 3 nr 1500000 chr ENSMUST00000150683 l18 e 3 nr 2000000 chr ENSMUST00000167203 l18 e 3 nr 2500000 chr ENSMUST00000152443 l18 e 3 nr 3000000 chr ENSMUST00000150283 l18 e 3 nr 3500000 chr ENSMUST00000153333 l18 e 3 nr 4000000 chr ENSMUST00000133083 l18 e 3 nr 4500000 chr ENSMUST00000126693 l18 e 3 nr 5000000 chr ENSMUST00000155413 l18 e 3 nr 5500000 chr ENSMUST00000116643 l18 e 3 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1758387 reads mapping to 730181 Unique genomic coordinates Making up 14143 groups Consisting of 7640 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000163054 l18 e 4 nr 1000000 chr ENSMUST00000144494 l18 e 4 nr 1500000 chr ENSMUST00000173414 l18 e 4 nr 2000000 chr ENSMUST00000135214 l18 e 4 nr 2500000 chr ENSMUST00000153044 l18 e 4 nr 3000000 chr ENSMUST00000123104 l18 e 4 nr 3500000 chr ENSMUST00000143704 l18 e 4 nr 4000000 chr ENSMUST00000148994 l18 e 4 nr 4500000 chr ENSMUST00000124824 l18 e 4 nr 5000000 chr ENSMUST00000136604 l18 e 4 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1285565 reads mapping to 691012 Unique genomic coordinates Making up 13619 groups Consisting of 7370 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000161285 l18 e 5 nr 1000000 chr ENSMUST00000151765 l18 e 5 nr 1500000 chr ENSMUST00000075165 l18 e 5 nr 2000000 chr ENSMUST00000138715 l18 e 5 nr 2500000 chr ENSMUST00000170195 l18 e 5 nr 3000000 chr ENSMUST00000140165 l18 e 5 nr 3500000 chr ENSMUST00000146465 l18 e 5 nr 4000000 chr ENSMUST00000160895 l18 e 5 nr 4500000 chr ENSMUST00000156235 l18 e 5 nr 5000000 chr ENSMUST00000175115 l18 e 5 nr 5500000 chr ENSMUST00000164685 l18 e 5 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1528210 reads mapping to 733450 Unique genomic coordinates Making up 14391 groups Consisting of 7814 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000159486 l18 e 6 nr 1000000 chr ENSMUST00000120676 l18 e 6 nr 1500000 chr ENSMUST00000153676 l18 e 6 nr 2000000 chr ENSMUST00000124576 l18 e 6 nr 2500000 chr ENSMUST00000128706 l18 e 6 nr 3000000 chr ENSMUST00000136156 l18 e 6 nr 3500000 chr ENSMUST00000161336 l18 e 6 nr 4000000 chr ENSMUST00000141416 l18 e 6 nr 4500000 chr ENSMUST00000136896 l18 e 6 nr 5000000 chr ENSMUST00000172906 l18 e 6 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1551328 reads mapping to 723433 Unique genomic coordinates Making up 14158 groups Consisting of 7682 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000160677 l18 e 7 nr 1000000 chr ENSMUST00000147967 l18 e 7 nr 1500000 chr ENSMUST00000154667 l18 e 7 nr 2000000 chr ENSMUST00000123397 l18 e 7 nr 2500000 chr ENSMUST00000155827 l18 e 7 nr 3000000 chr ENSMUST00000125407 l18 e 7 nr 3500000 chr ENSMUST00000152357 l18 e 7 nr 4000000 chr ENSMUST00000120157 l18 e 7 nr 4500000 chr ENSMUST00000160807 l18 e 7 nr 5000000 chr ENSMUST00000123627 l18 e 7 nr 5500000 chr ENSMUST00000165457 l18 e 7 nr 6000000 chr ENSMUST00000123937 l18 e 7 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1866830 reads mapping to 715664 Unique genomic coordinates Making up 14068 groups Consisting of 7632 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000155368 l18 e 8 nr 1000000 chr ENSMUST00000143228 l18 e 8 nr 1500000 chr ENSMUST00000136318 l18 e 8 nr 2000000 chr ENSMUST00000145018 l18 e 8 nr 2500000 chr ENSMUST00000128758 l18 e 8 nr 3000000 chr ENSMUST00000139238 l18 e 8 nr 3500000 chr ENSMUST00000154658 l18 e 8 nr 4000000 chr ENSMUST00000147008 l18 e 8 nr 4500000 chr ENSMUST00000153758 l18 e 8 nr 5000000 chr ENSMUST00000142298 l18 e 8 nr 5500000 chr ENSMUST00000155078 l18 e 8 nr 6000000 chr ENSMUST00000134138 l18 e 8 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1941260 reads mapping to 730987 Unique genomic coordinates Making up 14154 groups Consisting of 7628 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000123999 l18 e 9 nr 1000000 chr ENSMUST00000133149 l18 e 9 nr 1500000 chr ENSMUST00000153819 l18 e 9 nr 2000000 chr ENSMUST00000121889 l18 e 9 nr 2500000 chr ENSMUST00000126529 l18 e 9 nr 3000000 chr ENSMUST00000125619 l18 e 9 nr 3500000 chr ENSMUST00000146169 l18 e 9 nr 4000000 chr ENSMUST00000166839 l18 e 9 nr 4500000 chr ENSMUST00000145689 l18 e 9 nr 5000000 chr ENSMUST00000174549 l18 e 9 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1513594 reads mapping to 732732 Unique genomic coordinates Making up 14394 groups Consisting of 7613 clusters