Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000043170 l18 e 0 nr 1000000 chr ENSMUST00000101610 l18 e 0 nr 1500000 chr ENSMUST00000068150 l18 e 0 nr 2000000 chr ENSMUST00000110510 l18 e 0 nr 2500000 chr ENSMUST00000040990 l18 e 0 nr 3000000 chr ENSMUST00000079600 l18 e 0 nr 3500000 chr ENSMUST00000114350 l18 e 0 nr 4000000 chr ENSMUST00000048630 l18 e 0 nr 4500000 chr ENSMUST00000036450 l18 e 0 nr 5000000 chr ENSMUST00000098580 l18 e 0 nr 5500000 chr ENSMUST00000094520 l18 e 0 nr 6000000 chr ENSMUST00000038980 l18 e 0 nr 6500000 chr ENSMUST00000156690 l18 e 0 nr 7000000 chr ENSMUST00000041780 l18 e 0 nr 7500000 chr ENSMUST00000112930 l18 e 0 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 847746 reads mapping to 481437 Unique genomic coordinates Making up 13649 groups Consisting of 4242 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000136521 l18 e 1 nr 1000000 chr ENSMUST00000093381 l18 e 1 nr 1500000 chr ENSMUST00000077451 l18 e 1 nr 2000000 chr ENSMUST00000056161 l18 e 1 nr 2500000 chr ENSMUST00000022391 l18 e 1 nr 3000000 chr ENSMUST00000023161 l18 e 1 nr 3500000 chr ENSMUST00000063481 l18 e 1 nr 4000000 chr ENSMUST00000028311 l18 e 1 nr 4500000 chr ENSMUST00000079691 l18 e 1 nr 5000000 chr ENSMUST00000029881 l18 e 1 nr 5500000 chr ENSMUST00000122171 l18 e 1 nr 6000000 chr ENSMUST00000136501 l18 e 1 nr 6500000 chr ENSMUST00000032921 l18 e 1 nr 7000000 chr ENSMUST00000136731 l18 e 1 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 769033 reads mapping to 470882 Unique genomic coordinates Making up 13399 groups Consisting of 4127 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000163252 l18 e 2 nr 1000000 chr ENSMUST00000068322 l18 e 2 nr 1500000 chr ENSMUST00000121782 l18 e 2 nr 2000000 chr ENSMUST00000165942 l18 e 2 nr 2500000 chr ENSMUST00000006452 l18 e 2 nr 3000000 chr ENSMUST00000023452 l18 e 2 nr 3500000 chr ENSMUST00000113572 l18 e 2 nr 4000000 chr ENSMUST00000114942 l18 e 2 nr 4500000 chr ENSMUST00000110182 l18 e 2 nr 5000000 chr ENSMUST00000117782 l18 e 2 nr 5500000 chr ENSMUST00000030902 l18 e 2 nr 6000000 chr ENSMUST00000057692 l18 e 2 nr 6500000 chr ENSMUST00000026922 l18 e 2 nr 7000000 chr ENSMUST00000040912 l18 e 2 nr 7500000 chr ENSMUST00000069722 l18 e 2 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 880516 reads mapping to 464149 Unique genomic coordinates Making up 13214 groups Consisting of 4243 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000140643 l18 e 3 nr 1000000 chr ENSMUST00000109813 l18 e 3 nr 1500000 chr ENSMUST00000048073 l18 e 3 nr 2000000 chr ENSMUST00000124293 l18 e 3 nr 2500000 chr ENSMUST00000137543 l18 e 3 nr 3000000 chr ENSMUST00000023123 l18 e 3 nr 3500000 chr ENSMUST00000024733 l18 e 3 nr 4000000 chr ENSMUST00000100463 l18 e 3 nr 4500000 chr ENSMUST00000103123 l18 e 3 nr 5000000 chr ENSMUST00000130443 l18 e 3 nr 5500000 chr ENSMUST00000113493 l18 e 3 nr 6000000 chr ENSMUST00000046373 l18 e 3 nr 6500000 chr ENSMUST00000033173 l18 e 3 nr 7000000 chr ENSMUST00000141903 l18 e 3 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 738715 reads mapping to 451311 Unique genomic coordinates Making up 12956 groups Consisting of 3942 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000053364 l18 e 4 nr 1000000 chr ENSMUST00000053484 l18 e 4 nr 1500000 chr ENSMUST00000092864 l18 e 4 nr 2000000 chr ENSMUST00000163134 l18 e 4 nr 2500000 chr ENSMUST00000111484 l18 e 4 nr 3000000 chr ENSMUST00000169294 l18 e 4 nr 3500000 chr ENSMUST00000119284 l18 e 4 nr 4000000 chr ENSMUST00000055304 l18 e 4 nr 4500000 chr ENSMUST00000169464 l18 e 4 nr 5000000 chr ENSMUST00000107824 l18 e 4 nr 5500000 chr ENSMUST00000081914 l18 e 4 nr 6000000 chr ENSMUST00000163244 l18 e 4 nr 6500000 chr ENSMUST00000062144 l18 e 4 nr 7000000 chr ENSMUST00000163624 l18 e 4 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1006897 reads mapping to 487778 Unique genomic coordinates Making up 13814 groups Consisting of 4349 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000052455 l18 e 5 nr 1000000 chr ENSMUST00000109895 l18 e 5 nr 1500000 chr ENSMUST00000154915 l18 e 5 nr 2000000 chr ENSMUST00000057205 l18 e 5 nr 2500000 chr ENSMUST00000035695 l18 e 5 nr 3000000 chr ENSMUST00000023285 l18 e 5 nr 3500000 chr ENSMUST00000024575 l18 e 5 nr 4000000 chr ENSMUST00000155405 l18 e 5 nr 4500000 chr ENSMUST00000120995 l18 e 5 nr 5000000 chr ENSMUST00000132325 l18 e 5 nr 5500000 chr ENSMUST00000165335 l18 e 5 nr 6000000 chr ENSMUST00000115355 l18 e 5 nr 6500000 chr ENSMUST00000163845 l18 e 5 nr 7000000 chr ENSMUST00000171955 l18 e 5 nr 7500000 chr ENSMUST00000087085 l18 e 5 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 771521 reads mapping to 462760 Unique genomic coordinates Making up 13273 groups Consisting of 4229 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000162226 l18 e 6 nr 1000000 chr ENSMUST00000020346 l18 e 6 nr 1500000 chr ENSMUST00000108056 l18 e 6 nr 2000000 chr ENSMUST00000029746 l18 e 6 nr 2500000 chr ENSMUST00000161166 l18 e 6 nr 3000000 chr ENSMUST00000163476 l18 e 6 nr 3500000 chr ENSMUST00000112676 l18 e 6 nr 4000000 chr ENSMUST00000073536 l18 e 6 nr 4500000 chr ENSMUST00000133726 l18 e 6 nr 5000000 chr ENSMUST00000098876 l18 e 6 nr 5500000 chr ENSMUST00000049906 l18 e 6 nr 6000000 chr ENSMUST00000118316 l18 e 6 nr 6500000 chr ENSMUST00000026506 l18 e 6 nr 7000000 chr ENSMUST00000085976 l18 e 6 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 726335 reads mapping to 469462 Unique genomic coordinates Making up 13471 groups Consisting of 4233 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000027997 l18 e 7 nr 1000000 chr ENSMUST00000054287 l18 e 7 nr 1500000 chr ENSMUST00000107867 l18 e 7 nr 2000000 chr ENSMUST00000103447 l18 e 7 nr 2500000 chr ENSMUST00000162617 l18 e 7 nr 3000000 chr ENSMUST00000160597 l18 e 7 nr 3500000 chr ENSMUST00000039487 l18 e 7 nr 4000000 chr ENSMUST00000114697 l18 e 7 nr 4500000 chr ENSMUST00000028617 l18 e 7 nr 5000000 chr ENSMUST00000002297 l18 e 7 nr 5500000 chr ENSMUST00000055647 l18 e 7 nr 6000000 chr ENSMUST00000156317 l18 e 7 nr 6500000 chr ENSMUST00000107507 l18 e 7 nr 7000000 chr ENSMUST00000159527 l18 e 7 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 777606 reads mapping to 471192 Unique genomic coordinates Making up 13470 groups Consisting of 4188 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000045108 l18 e 8 nr 1000000 chr ENSMUST00000163048 l18 e 8 nr 1500000 chr ENSMUST00000042808 l18 e 8 nr 2000000 chr ENSMUST00000039928 l18 e 8 nr 2500000 chr ENSMUST00000070328 l18 e 8 nr 3000000 chr ENSMUST00000040518 l18 e 8 nr 3500000 chr ENSMUST00000077008 l18 e 8 nr 4000000 chr ENSMUST00000111948 l18 e 8 nr 4500000 chr ENSMUST00000124338 l18 e 8 nr 5000000 chr ENSMUST00000029848 l18 e 8 nr 5500000 chr ENSMUST00000101208 l18 e 8 nr 6000000 chr ENSMUST00000103308 l18 e 8 nr 6500000 chr ENSMUST00000147428 l18 e 8 nr 7000000 chr ENSMUST00000037798 l18 e 8 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 759747 reads mapping to 468046 Unique genomic coordinates Making up 13541 groups Consisting of 4258 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000063199 l18 e 9 nr 1000000 chr ENSMUST00000020249 l18 e 9 nr 1500000 chr ENSMUST00000017549 l18 e 9 nr 2000000 chr ENSMUST00000042299 l18 e 9 nr 2500000 chr ENSMUST00000052949 l18 e 9 nr 3000000 chr ENSMUST00000058679 l18 e 9 nr 3500000 chr ENSMUST00000058749 l18 e 9 nr 4000000 chr ENSMUST00000174299 l18 e 9 nr 4500000 chr ENSMUST00000167239 l18 e 9 nr 5000000 chr ENSMUST00000099349 l18 e 9 nr 5500000 chr ENSMUST00000169449 l18 e 9 nr 6000000 chr ENSMUST00000170869 l18 e 9 nr 6500000 chr ENSMUST00000113509 l18 e 9 nr 7000000 chr ENSMUST00000170459 l18 e 9 nr 7500000 chr ENSMUST00000085169 l18 e 9 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 700231 reads mapping to 455161 Unique genomic coordinates Making up 13130 groups Consisting of 4017 clusters