Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000146590 l18 e 0 nr 1000000 chr ENSMUST00000173320 l18 e 0 nr 1500000 chr ENSMUST00000131280 l18 e 0 nr 2000000 chr ENSMUST00000089470 l18 e 0 nr 2500000 chr ENSMUST00000024720 l18 e 0 nr 3000000 chr ENSMUST00000014290 l18 e 0 nr 3500000 chr ENSMUST00000029510 l18 e 0 nr 4000000 chr ENSMUST00000031040 l18 e 0 nr 4500000 chr ENSMUST00000085240 l18 e 0 nr 5000000 chr ENSMUST00000141370 l18 e 0 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 5386037 reads mapping to 2631262 Unique genomic coordinates Making up 76095 groups Consisting of 21602 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000020071 l18 e 1 nr 1000000 chr ENSMUST00000169701 l18 e 1 nr 1500000 chr ENSMUST00000037181 l18 e 1 nr 2000000 chr ENSMUST00000111791 l18 e 1 nr 2500000 chr ENSMUST00000114031 l18 e 1 nr 3000000 chr ENSMUST00000056641 l18 e 1 nr 3500000 chr ENSMUST00000108361 l18 e 1 nr 4000000 chr ENSMUST00000102491 l18 e 1 nr 4500000 chr ENSMUST00000015511 l18 e 1 nr 5000000 chr ENSMUST00000057561 l18 e 1 nr 5500000 chr ENSMUST00000112971 l18 e 1 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 5540284 reads mapping to 2620728 Unique genomic coordinates Making up 75490 groups Consisting of 21194 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000020062 l18 e 2 nr 1000000 chr ENSMUST00000065692 l18 e 2 nr 1500000 chr ENSMUST00000049022 l18 e 2 nr 2000000 chr ENSMUST00000023732 l18 e 2 nr 2500000 chr ENSMUST00000097352 l18 e 2 nr 3000000 chr ENSMUST00000172362 l18 e 2 nr 3500000 chr ENSMUST00000075052 l18 e 2 nr 4000000 chr ENSMUST00000070782 l18 e 2 nr 4500000 chr ENSMUST00000055922 l18 e 2 nr 5000000 chr ENSMUST00000128102 l18 e 2 nr 5500000 chr ENSMUST00000009392 l18 e 2 nr 6000000 chr ENSMUST00000171842 l18 e 2 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 6142894 reads mapping to 2617840 Unique genomic coordinates Making up 74715 groups Consisting of 21168 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000111883 l18 e 3 nr 1000000 chr ENSMUST00000092143 l18 e 3 nr 1500000 chr ENSMUST00000090433 l18 e 3 nr 2000000 chr ENSMUST00000112283 l18 e 3 nr 2500000 chr ENSMUST00000058033 l18 e 3 nr 3000000 chr ENSMUST00000088653 l18 e 3 nr 3500000 chr ENSMUST00000143663 l18 e 3 nr 4000000 chr ENSMUST00000075693 l18 e 3 nr 4500000 chr ENSMUST00000071583 l18 e 3 nr 5000000 chr ENSMUST00000172443 l18 e 3 nr 5500000 chr ENSMUST00000115073 l18 e 3 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 5626970 reads mapping to 2572959 Unique genomic coordinates Making up 73558 groups Consisting of 20717 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000047714 l18 e 4 nr 1000000 chr ENSMUST00000105244 l18 e 4 nr 1500000 chr ENSMUST00000168714 l18 e 4 nr 2000000 chr ENSMUST00000159674 l18 e 4 nr 2500000 chr ENSMUST00000046754 l18 e 4 nr 3000000 chr ENSMUST00000068004 l18 e 4 nr 3500000 chr ENSMUST00000089634 l18 e 4 nr 4000000 chr ENSMUST00000030164 l18 e 4 nr 4500000 chr ENSMUST00000031334 l18 e 4 nr 5000000 chr ENSMUST00000171124 l18 e 4 nr 5500000 chr ENSMUST00000034934 l18 e 4 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 5955034 reads mapping to 2661347 Unique genomic coordinates Making up 76466 groups Consisting of 21622 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000105545 l18 e 5 nr 1000000 chr ENSMUST00000018645 l18 e 5 nr 1500000 chr ENSMUST00000055815 l18 e 5 nr 2000000 chr ENSMUST00000063465 l18 e 5 nr 2500000 chr ENSMUST00000115685 l18 e 5 nr 3000000 chr ENSMUST00000053705 l18 e 5 nr 3500000 chr ENSMUST00000109875 l18 e 5 nr 4000000 chr ENSMUST00000107855 l18 e 5 nr 4500000 chr ENSMUST00000148495 l18 e 5 nr 5000000 chr ENSMUST00000048265 l18 e 5 nr 5500000 chr ENSMUST00000163895 l18 e 5 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 5676190 reads mapping to 2651515 Unique genomic coordinates Making up 75781 groups Consisting of 21390 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000019896 l18 e 6 nr 1000000 chr ENSMUST00000167706 l18 e 6 nr 1500000 chr ENSMUST00000036136 l18 e 6 nr 2000000 chr ENSMUST00000149726 l18 e 6 nr 2500000 chr ENSMUST00000114076 l18 e 6 nr 3000000 chr ENSMUST00000115366 l18 e 6 nr 3500000 chr ENSMUST00000066936 l18 e 6 nr 4000000 chr ENSMUST00000001456 l18 e 6 nr 4500000 chr ENSMUST00000163436 l18 e 6 nr 5000000 chr ENSMUST00000031536 l18 e 6 nr 5500000 chr ENSMUST00000042676 l18 e 6 nr 6000000 chr ENSMUST00000169376 l18 e 6 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 6341244 reads mapping to 2666645 Unique genomic coordinates Making up 76628 groups Consisting of 21507 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000111977 l18 e 7 nr 1000000 chr ENSMUST00000020767 l18 e 7 nr 1500000 chr ENSMUST00000171737 l18 e 7 nr 2000000 chr ENSMUST00000159597 l18 e 7 nr 2500000 chr ENSMUST00000073277 l18 e 7 nr 3000000 chr ENSMUST00000113997 l18 e 7 nr 3500000 chr ENSMUST00000028897 l18 e 7 nr 4000000 chr ENSMUST00000107157 l18 e 7 nr 4500000 chr ENSMUST00000005507 l18 e 7 nr 5000000 chr ENSMUST00000046687 l18 e 7 nr 5500000 chr ENSMUST00000039447 l18 e 7 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 5564700 reads mapping to 2659937 Unique genomic coordinates Making up 75983 groups Consisting of 21342 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000066028 l18 e 8 nr 1000000 chr ENSMUST00000061728 l18 e 8 nr 1500000 chr ENSMUST00000151918 l18 e 8 nr 2000000 chr ENSMUST00000068088 l18 e 8 nr 2500000 chr ENSMUST00000080418 l18 e 8 nr 3000000 chr ENSMUST00000110538 l18 e 8 nr 3500000 chr ENSMUST00000107158 l18 e 8 nr 4000000 chr ENSMUST00000004968 l18 e 8 nr 4500000 chr ENSMUST00000033158 l18 e 8 nr 5000000 chr ENSMUST00000115678 l18 e 8 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 5143534 reads mapping to 2569906 Unique genomic coordinates Making up 73746 groups Consisting of 20686 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000105549 l18 e 9 nr 1000000 chr ENSMUST00000048099 l18 e 9 nr 1500000 chr ENSMUST00000018719 l18 e 9 nr 2000000 chr ENSMUST00000052239 l18 e 9 nr 2500000 chr ENSMUST00000120099 l18 e 9 nr 3000000 chr ENSMUST00000056129 l18 e 9 nr 3500000 chr ENSMUST00000028799 l18 e 9 nr 4000000 chr ENSMUST00000097899 l18 e 9 nr 4500000 chr ENSMUST00000113329 l18 e 9 nr 5000000 chr ENSMUST00000078409 l18 e 9 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 5488026 reads mapping to 2639637 Unique genomic coordinates Making up 75937 groups Consisting of 21306 clusters