Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000169600 l18 e 0 nr 1000000 chr ENSMUST00000160580 l18 e 0 nr 1500000 chr ENSMUST00000130860 l18 e 0 nr 2000000 chr ENSMUST00000150730 l18 e 0 nr 2500000 chr ENSMUST00000044500 l18 e 0 nr 3000000 chr ENSMUST00000123070 l18 e 0 nr 3500000 chr ENSMUST00000097270 l18 e 0 nr 4000000 chr ENSMUST00000161970 l18 e 0 nr 4500000 chr ENSMUST00000142310 l18 e 0 nr 5000000 chr ENSMUST00000138210 l18 e 0 nr 5500000 chr ENSMUST00000142420 l18 e 0 nr 6000000 chr ENSMUST00000143980 l18 e 0 nr 6500000 chr ENSMUST00000142260 l18 e 0 nr 7000000 chr ENSMUST00000129490 l18 e 0 nr 7500000 chr ENSMUST00000132970 l18 e 0 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1651234 reads mapping to 971584 Unique genomic coordinates Making up 12707 groups Consisting of 10247 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000105601 l18 e 1 nr 1000000 chr ENSMUST00000123881 l18 e 1 nr 1500000 chr ENSMUST00000131501 l18 e 1 nr 2000000 chr ENSMUST00000121211 l18 e 1 nr 2500000 chr ENSMUST00000150211 l18 e 1 nr 3000000 chr ENSMUST00000150151 l18 e 1 nr 3500000 chr ENSMUST00000142511 l18 e 1 nr 4000000 chr ENSMUST00000124061 l18 e 1 nr 4500000 chr ENSMUST00000157721 l18 e 1 nr 5000000 chr ENSMUST00000129481 l18 e 1 nr 5500000 chr ENSMUST00000172961 l18 e 1 nr 6000000 chr ENSMUST00000149031 l18 e 1 nr 6500000 chr ENSMUST00000126111 l18 e 1 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1769451 reads mapping to 963037 Unique genomic coordinates Making up 12553 groups Consisting of 10195 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000135312 l18 e 2 nr 1000000 chr ENSMUST00000155332 l18 e 2 nr 1500000 chr ENSMUST00000122062 l18 e 2 nr 2000000 chr ENSMUST00000126912 l18 e 2 nr 2500000 chr ENSMUST00000143392 l18 e 2 nr 3000000 chr ENSMUST00000130782 l18 e 2 nr 3500000 chr ENSMUST00000160852 l18 e 2 nr 4000000 chr ENSMUST00000135682 l18 e 2 nr 4500000 chr ENSMUST00000128622 l18 e 2 nr 5000000 chr ENSMUST00000145572 l18 e 2 nr 5500000 chr ENSMUST00000137592 l18 e 2 nr 6000000 chr ENSMUST00000153302 l18 e 2 nr 6500000 chr ENSMUST00000173752 l18 e 2 nr 7000000 chr ENSMUST00000143972 l18 e 2 nr 7500000 chr ENSMUST00000151662 l18 e 2 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1797784 reads mapping to 1013862 Unique genomic coordinates Making up 12840 groups Consisting of 10756 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000018343 l18 e 3 nr 1000000 chr ENSMUST00000123993 l18 e 3 nr 1500000 chr ENSMUST00000136493 l18 e 3 nr 2000000 chr ENSMUST00000156293 l18 e 3 nr 2500000 chr ENSMUST00000168803 l18 e 3 nr 3000000 chr ENSMUST00000127973 l18 e 3 nr 3500000 chr ENSMUST00000156713 l18 e 3 nr 4000000 chr ENSMUST00000169943 l18 e 3 nr 4500000 chr ENSMUST00000147553 l18 e 3 nr 5000000 chr ENSMUST00000168363 l18 e 3 nr 5500000 chr ENSMUST00000147183 l18 e 3 nr 6000000 chr ENSMUST00000125923 l18 e 3 nr 6500000 chr ENSMUST00000138243 l18 e 3 nr 7000000 chr ENSMUST00000128023 l18 e 3 nr 7500000 chr ENSMUST00000130063 l18 e 3 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1832584 reads mapping to 960163 Unique genomic coordinates Making up 12759 groups Consisting of 10264 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000123384 l18 e 4 nr 1000000 chr ENSMUST00000174244 l18 e 4 nr 1500000 chr ENSMUST00000140754 l18 e 4 nr 2000000 chr ENSMUST00000151894 l18 e 4 nr 2500000 chr ENSMUST00000082994 l18 e 4 nr 3000000 chr ENSMUST00000113704 l18 e 4 nr 3500000 chr ENSMUST00000130954 l18 e 4 nr 4000000 chr ENSMUST00000132434 l18 e 4 nr 4500000 chr ENSMUST00000145454 l18 e 4 nr 5000000 chr ENSMUST00000141534 l18 e 4 nr 5500000 chr ENSMUST00000159534 l18 e 4 nr 6000000 chr ENSMUST00000054104 l18 e 4 nr 6500000 chr ENSMUST00000169194 l18 e 4 nr 7000000 chr ENSMUST00000130744 l18 e 4 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1679981 reads mapping to 931877 Unique genomic coordinates Making up 12148 groups Consisting of 9792 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000133305 l18 e 5 nr 1000000 chr ENSMUST00000129115 l18 e 5 nr 1500000 chr ENSMUST00000141705 l18 e 5 nr 2000000 chr ENSMUST00000150935 l18 e 5 nr 2500000 chr ENSMUST00000162935 l18 e 5 nr 3000000 chr ENSMUST00000160475 l18 e 5 nr 3500000 chr ENSMUST00000159875 l18 e 5 nr 4000000 chr ENSMUST00000118295 l18 e 5 nr 4500000 chr ENSMUST00000043755 l18 e 5 nr 5000000 chr ENSMUST00000132445 l18 e 5 nr 5500000 chr ENSMUST00000117305 l18 e 5 nr 6000000 chr ENSMUST00000126335 l18 e 5 nr 6500000 chr ENSMUST00000103365 l18 e 5 nr 7000000 chr ENSMUST00000150355 l18 e 5 nr 7500000 chr ENSMUST00000157925 l18 e 5 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1772837 reads mapping to 991250 Unique genomic coordinates Making up 12810 groups Consisting of 10651 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000127586 l18 e 6 nr 1000000 chr ENSMUST00000134576 l18 e 6 nr 1500000 chr ENSMUST00000129186 l18 e 6 nr 2000000 chr ENSMUST00000142286 l18 e 6 nr 2500000 chr ENSMUST00000169466 l18 e 6 nr 3000000 chr ENSMUST00000173316 l18 e 6 nr 3500000 chr ENSMUST00000152506 l18 e 6 nr 4000000 chr ENSMUST00000124336 l18 e 6 nr 4500000 chr ENSMUST00000160196 l18 e 6 nr 5000000 chr ENSMUST00000127426 l18 e 6 nr 5500000 chr ENSMUST00000143276 l18 e 6 nr 6000000 chr ENSMUST00000174506 l18 e 6 nr 6500000 chr ENSMUST00000159716 l18 e 6 nr 7000000 chr ENSMUST00000130826 l18 e 6 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1710300 reads mapping to 951789 Unique genomic coordinates Making up 12511 groups Consisting of 10161 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000148277 l18 e 7 nr 1000000 chr ENSMUST00000154707 l18 e 7 nr 1500000 chr ENSMUST00000128647 l18 e 7 nr 2000000 chr ENSMUST00000126757 l18 e 7 nr 2500000 chr ENSMUST00000133627 l18 e 7 nr 3000000 chr ENSMUST00000147117 l18 e 7 nr 3500000 chr ENSMUST00000150337 l18 e 7 nr 4000000 chr ENSMUST00000169787 l18 e 7 nr 4500000 chr ENSMUST00000141917 l18 e 7 nr 5000000 chr ENSMUST00000029217 l18 e 7 nr 5500000 chr ENSMUST00000139147 l18 e 7 nr 6000000 chr ENSMUST00000131887 l18 e 7 nr 6500000 chr ENSMUST00000112417 l18 e 7 nr 7000000 chr ENSMUST00000165457 l18 e 7 nr 7500000 chr ENSMUST00000145757 l18 e 7 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1686538 reads mapping to 959170 Unique genomic coordinates Making up 12579 groups Consisting of 10227 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000151368 l18 e 8 nr 1000000 chr ENSMUST00000137978 l18 e 8 nr 1500000 chr ENSMUST00000142118 l18 e 8 nr 2000000 chr ENSMUST00000125528 l18 e 8 nr 2500000 chr ENSMUST00000110138 l18 e 8 nr 3000000 chr ENSMUST00000149358 l18 e 8 nr 3500000 chr ENSMUST00000163578 l18 e 8 nr 4000000 chr ENSMUST00000136258 l18 e 8 nr 4500000 chr ENSMUST00000135128 l18 e 8 nr 5000000 chr ENSMUST00000138268 l18 e 8 nr 5500000 chr ENSMUST00000147108 l18 e 8 nr 6000000 chr ENSMUST00000131168 l18 e 8 nr 6500000 chr ENSMUST00000155408 l18 e 8 nr 7000000 chr ENSMUST00000142678 l18 e 8 nr 7500000 chr ENSMUST00000160078 l18 e 8 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1890932 reads mapping to 977457 Unique genomic coordinates Making up 12660 groups Consisting of 10292 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000110279 l18 e 9 nr 1000000 chr ENSMUST00000136059 l18 e 9 nr 1500000 chr ENSMUST00000141559 l18 e 9 nr 2000000 chr ENSMUST00000120029 l18 e 9 nr 2500000 chr ENSMUST00000140969 l18 e 9 nr 3000000 chr ENSMUST00000159669 l18 e 9 nr 3500000 chr ENSMUST00000126659 l18 e 9 nr 4000000 chr ENSMUST00000137489 l18 e 9 nr 4500000 chr ENSMUST00000122439 l18 e 9 nr 5000000 chr ENSMUST00000126119 l18 e 9 nr 5500000 chr ENSMUST00000167169 l18 e 9 nr 6000000 chr ENSMUST00000133979 l18 e 9 nr 6500000 chr ENSMUST00000167089 l18 e 9 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1678912 reads mapping to 966821 Unique genomic coordinates Making up 12755 groups Consisting of 10318 clusters