Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000137057-chr6---129187257-129188000 l45 e 0 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 575274 reads mapping to 228813 Unique genomic coordinates Making up 5396 groups Consisting of 1482 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 499441 reads mapping to 232593 Unique genomic coordinates Making up 5531 groups Consisting of 1554 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000144068-chrX-+-53873003-53874202 l43 e 2 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 514422 reads mapping to 259553 Unique genomic coordinates Making up 6163 groups Consisting of 1762 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 460486 reads mapping to 237435 Unique genomic coordinates Making up 5652 groups Consisting of 1614 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000140466-chr9---6940043-6942204 l41 e 4 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 552147 reads mapping to 251351 Unique genomic coordinates Making up 5883 groups Consisting of 1679 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000032182-chr6---91448759-91451505 l43 e 5 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 604267 reads mapping to 252544 Unique genomic coordinates Making up 5908 groups Consisting of 1626 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000046288-chr17-+-31657060-31657706 l44 e 6 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 865580 reads mapping to 239682 Unique genomic coordinates Making up 5665 groups Consisting of 1662 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000098005-chr4---75699993-75701007 l43 e 7 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 686173 reads mapping to 246198 Unique genomic coordinates Making up 5838 groups Consisting of 1668 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000048762-chr9-+-65123151-65124308 l43 e 8 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 521642 reads mapping to 236410 Unique genomic coordinates Making up 5634 groups Consisting of 1552 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 461048 reads mapping to 231854 Unique genomic coordinates Making up 5510 groups Consisting of 1588 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000126664-chr5-+-72621016-72622210 l43 e 10 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 609712 reads mapping to 237497 Unique genomic coordinates Making up 5547 groups Consisting of 1591 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 495870 reads mapping to 233165 Unique genomic coordinates Making up 5564 groups Consisting of 1555 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000057717-chr8---97850037-97854212 l43 e 12 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 535948 reads mapping to 248918 Unique genomic coordinates Making up 5856 groups Consisting of 1636 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000159574-chr13-+-104918809-104919913 l46 e 13 nr 1000000 chr ENSMUST00000170518-chr8---128962203-128963313 l45 e 13 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1028991 reads mapping to 249404 Unique genomic coordinates Making up 5948 groups Consisting of 1699 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000096454-chrX-+-35190829-35193714 l43 e 14 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 507529 reads mapping to 250244 Unique genomic coordinates Making up 5805 groups Consisting of 1644 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 495578 reads mapping to 247351 Unique genomic coordinates Making up 5957 groups Consisting of 1640 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000026270-chr9-+-123499419-123501716 l45 e 16 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 512418 reads mapping to 238726 Unique genomic coordinates Making up 5664 groups Consisting of 1646 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000165165-chr9---105783253-105785517 l45 e 17 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 516733 reads mapping to 253153 Unique genomic coordinates Making up 6029 groups Consisting of 1732 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000099692-chr2-+-93401729-93404518 l43 e 18 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 762081 reads mapping to 243942 Unique genomic coordinates Making up 5821 groups Consisting of 1637 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000073488-chr7---51804986-51809319 l43 e 19 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 602054 reads mapping to 259032 Unique genomic coordinates Making up 6063 groups Consisting of 1668 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 414722 reads mapping to 232987 Unique genomic coordinates Making up 5520 groups Consisting of 1602 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 431827 reads mapping to 230218 Unique genomic coordinates Making up 5515 groups Consisting of 1562 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000098682-chr9---57876485-57882022 l43 e 22 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 516609 reads mapping to 242485 Unique genomic coordinates Making up 5735 groups Consisting of 1577 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000002275-chr7-+-52023313-52025523 l43 e 23 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 565826 reads mapping to 244697 Unique genomic coordinates Making up 5867 groups Consisting of 1624 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 479311 reads mapping to 251011 Unique genomic coordinates Making up 6049 groups Consisting of 1738 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000170865-chr14-+-87856310-87857425 l44 e 25 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 869913 reads mapping to 241664 Unique genomic coordinates Making up 5756 groups Consisting of 1539 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000154249-chr4---115676460-115678826 l45 e 26 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 714603 reads mapping to 254653 Unique genomic coordinates Making up 6125 groups Consisting of 1730 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000030986-chr5---35439680-35442427 l43 e 27 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 740614 reads mapping to 235141 Unique genomic coordinates Making up 5544 groups Consisting of 1591 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000121227-chr9---79485754-79486828 l43 e 28 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 545169 reads mapping to 238601 Unique genomic coordinates Making up 5571 groups Consisting of 1551 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000038488-chr9---45759343-45761829 l43 e 29 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 524933 reads mapping to 234032 Unique genomic coordinates Making up 5632 groups Consisting of 1528 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000030420-chr4---136501067-136502730 l45 e 30 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 602811 reads mapping to 250134 Unique genomic coordinates Making up 6001 groups Consisting of 1682 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 481924 reads mapping to 249482 Unique genomic coordinates Making up 5886 groups Consisting of 1640 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000095853-chr14-+-55456450-55459632 l44 e 32 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 824706 reads mapping to 245507 Unique genomic coordinates Making up 5707 groups Consisting of 1636 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 491799 reads mapping to 244099 Unique genomic coordinates Making up 5774 groups Consisting of 1620 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000114779-chr6-+-40425866-40427334 l43 e 34 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 704961 reads mapping to 237296 Unique genomic coordinates Making up 5658 groups Consisting of 1613 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000077787-chr7---30823072-30824935 l43 e 35 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 576846 reads mapping to 253087 Unique genomic coordinates Making up 6040 groups Consisting of 1705 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000031678-chr6---21721395-21723436 l43 e 36 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 636801 reads mapping to 241020 Unique genomic coordinates Making up 5715 groups Consisting of 1564 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 455491 reads mapping to 232125 Unique genomic coordinates Making up 5486 groups Consisting of 1524 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000098849-chr3-+-95943840-95946138 l43 e 38 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 665160 reads mapping to 231074 Unique genomic coordinates Making up 5514 groups Consisting of 1553 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000129185-chrX-+-99272321-99275639 l43 e 39 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 513729 reads mapping to 248252 Unique genomic coordinates Making up 5839 groups Consisting of 1674 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000120321-chr9-+-81820205-81821740 l43 e 40 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 518459 reads mapping to 243285 Unique genomic coordinates Making up 5813 groups Consisting of 1628 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000115421-chr5-+-7960472-7961041 l41 e 41 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 613398 reads mapping to 257183 Unique genomic coordinates Making up 6042 groups Consisting of 1664 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000145363-chr5-+-116434301-116439042 l45 e 42 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 604386 reads mapping to 237120 Unique genomic coordinates Making up 5614 groups Consisting of 1577 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 442699 reads mapping to 245249 Unique genomic coordinates Making up 5899 groups Consisting of 1659 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000121839-chr7-+-147095608-147097344 l45 e 44 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 577413 reads mapping to 238513 Unique genomic coordinates Making up 5727 groups Consisting of 1598 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000091818-chr2---112639642-112640745 l45 e 45 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 740346 reads mapping to 250347 Unique genomic coordinates Making up 5909 groups Consisting of 1613 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 469003 reads mapping to 252294 Unique genomic coordinates Making up 6008 groups Consisting of 1704 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 417995 reads mapping to 232767 Unique genomic coordinates Making up 5601 groups Consisting of 1520 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 492419 reads mapping to 239846 Unique genomic coordinates Making up 5675 groups Consisting of 1654 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000006626-chr19---4861223-4865949 l42 e 49 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 722117 reads mapping to 246798 Unique genomic coordinates Making up 5821 groups Consisting of 1621 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000173825-chr7---16405516-16406450 l43 e 50 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 593196 reads mapping to 245982 Unique genomic coordinates Making up 5754 groups Consisting of 1668 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 449767 reads mapping to 227639 Unique genomic coordinates Making up 5399 groups Consisting of 1489 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000078374-chr9---95395754-95396852 l43 e 52 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 541204 reads mapping to 250537 Unique genomic coordinates Making up 5890 groups Consisting of 1610 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000078723-chr19-+-56915300-56919953 l44 e 53 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 760928 reads mapping to 247652 Unique genomic coordinates Making up 5998 groups Consisting of 1702 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000041366-chr5-+-136595365-136596454 l45 e 54 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 662483 reads mapping to 247550 Unique genomic coordinates Making up 5891 groups Consisting of 1677 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 475558 reads mapping to 237655 Unique genomic coordinates Making up 5680 groups Consisting of 1562 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 452473 reads mapping to 243098 Unique genomic coordinates Making up 5844 groups Consisting of 1689 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 471215 reads mapping to 249531 Unique genomic coordinates Making up 5995 groups Consisting of 1702 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000095576-chr14-+-103983808-103984858 l46 e 58 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 814572 reads mapping to 234245 Unique genomic coordinates Making up 5543 groups Consisting of 1508 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 413961 reads mapping to 232082 Unique genomic coordinates Making up 5609 groups Consisting of 1565 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000069604-chr4-+-147428594-147433660 l45 e 60 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 648429 reads mapping to 238358 Unique genomic coordinates Making up 5681 groups Consisting of 1630 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 495746 reads mapping to 239194 Unique genomic coordinates Making up 5716 groups Consisting of 1584 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000162547-chr6---87629321-87631762 l43 e 62 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 582066 reads mapping to 251254 Unique genomic coordinates Making up 5967 groups Consisting of 1704 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 442064 reads mapping to 238123 Unique genomic coordinates Making up 5651 groups Consisting of 1619 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000040184-chrX---140861528-140862864 l45 e 64 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 502016 reads mapping to 249823 Unique genomic coordinates Making up 6040 groups Consisting of 1657 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000050519-chr5-+-140446432-140450665 l45 e 65 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 627431 reads mapping to 236063 Unique genomic coordinates Making up 5630 groups Consisting of 1555 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 379624 reads mapping to 214573 Unique genomic coordinates Making up 4983 groups Consisting of 1399 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000159128-chr9-+-119862774-119864367 l45 e 67 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 519749 reads mapping to 239707 Unique genomic coordinates Making up 5654 groups Consisting of 1626 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000114483-chr9---49310257-49314168 l43 e 68 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 537433 reads mapping to 255097 Unique genomic coordinates Making up 5979 groups Consisting of 1698 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000058548-chr6-+-113408478-113409869 l45 e 69 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 562972 reads mapping to 237159 Unique genomic coordinates Making up 5610 groups Consisting of 1578 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000072896-chr5-+-21158694-21159870 l43 e 70 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 630486 reads mapping to 233594 Unique genomic coordinates Making up 5531 groups Consisting of 1512 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 459737 reads mapping to 236805 Unique genomic coordinates Making up 5697 groups Consisting of 1578 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000046611-chr7---138459067-138460772 l45 e 72 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 548113 reads mapping to 250127 Unique genomic coordinates Making up 5987 groups Consisting of 1618 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 495909 reads mapping to 233457 Unique genomic coordinates Making up 5563 groups Consisting of 1545 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000098595-chr8---86456228-86460574 l43 e 74 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 549793 reads mapping to 248375 Unique genomic coordinates Making up 5887 groups Consisting of 1602 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000136806-chr6-+-52161885-52165075 l43 e 75 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 576268 reads mapping to 245952 Unique genomic coordinates Making up 5859 groups Consisting of 1769 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000110488-chr8---40700596-40701676 l43 e 76 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 535912 reads mapping to 232859 Unique genomic coordinates Making up 5447 groups Consisting of 1580 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 475651 reads mapping to 241690 Unique genomic coordinates Making up 5780 groups Consisting of 1620 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000167285-chr7---31730271-31732578 l43 e 78 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 568968 reads mapping to 255589 Unique genomic coordinates Making up 6074 groups Consisting of 1686 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000126983-chr7---26456216-26459179 l43 e 79 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 578898 reads mapping to 239638 Unique genomic coordinates Making up 5616 groups Consisting of 1603 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 450726 reads mapping to 243124 Unique genomic coordinates Making up 5917 groups Consisting of 1650 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000155770-chrX---46639522-46640581 l43 e 81 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 523039 reads mapping to 232008 Unique genomic coordinates Making up 5529 groups Consisting of 1557 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 453242 reads mapping to 244788 Unique genomic coordinates Making up 5721 groups Consisting of 1600 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000149344-chrX-+-148237804-148239583 l45 e 83 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 500664 reads mapping to 254120 Unique genomic coordinates Making up 6063 groups Consisting of 1699 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000097557-chr18---62767194-62768984 l44 e 84 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 718068 reads mapping to 232333 Unique genomic coordinates Making up 5501 groups Consisting of 1538 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000112433-chr5---111183916-111186285 l45 e 85 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 672019 reads mapping to 247355 Unique genomic coordinates Making up 5948 groups Consisting of 1606 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000124122-chr4-+-9709273-9710386 l41 e 86 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 641638 reads mapping to 242076 Unique genomic coordinates Making up 5709 groups Consisting of 1684 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000153151-chr2-+-113548828-113549887 l45 e 87 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 718465 reads mapping to 249600 Unique genomic coordinates Making up 5882 groups Consisting of 1687 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000121291-chr5-+-3609354-3610788 l41 e 88 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 605217 reads mapping to 240307 Unique genomic coordinates Making up 5693 groups Consisting of 1584 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 448163 reads mapping to 230490 Unique genomic coordinates Making up 5469 groups Consisting of 1484 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000095171-chr8-+-122244574-122245690 l45 e 90 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 542898 reads mapping to 234836 Unique genomic coordinates Making up 5639 groups Consisting of 1545 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000132332-chr2-+-73986924-73988891 l43 e 91 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 710863 reads mapping to 255867 Unique genomic coordinates Making up 6078 groups Consisting of 1665 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000094665-chr2---120100470-120101692 l45 e 92 nr 1000000 chr ENSMUST00000138170-chr6---17112079-17112592 l43 e 92 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1091086 reads mapping to 244989 Unique genomic coordinates Making up 5740 groups Consisting of 1667 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 490605 reads mapping to 246085 Unique genomic coordinates Making up 5877 groups Consisting of 1691 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000161516-chr5---99804045-99806694 l43 e 94 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 609602 reads mapping to 259755 Unique genomic coordinates Making up 6120 groups Consisting of 1722 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 497350 reads mapping to 236499 Unique genomic coordinates Making up 5681 groups Consisting of 1576 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000032262-chr6-+-129347315-129348196 l45 e 96 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 588358 reads mapping to 257756 Unique genomic coordinates Making up 6177 groups Consisting of 1725 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 474962 reads mapping to 241330 Unique genomic coordinates Making up 5759 groups Consisting of 1596 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000089334-chr6-+-92023592-92025998 l43 e 98 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 589896 reads mapping to 245417 Unique genomic coordinates Making up 5718 groups Consisting of 1640 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000107122-chr7---105223017-105228999 l45 e 99 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 560755 reads mapping to 243395 Unique genomic coordinates Making up 5801 groups Consisting of 1608 clusters