Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000173459-chr7---7633873-7635100 l41 e 0 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 615162 reads mapping to 228098 Unique genomic coordinates Making up 5776 groups Consisting of 1650 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 438092 reads mapping to 230019 Unique genomic coordinates Making up 5899 groups Consisting of 1563 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000167046-chr7---87442614-87444502 l43 e 2 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 575658 reads mapping to 255893 Unique genomic coordinates Making up 6513 groups Consisting of 1915 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000066465-chr7-+-126680220-126682403 l45 e 3 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 643492 reads mapping to 241771 Unique genomic coordinates Making up 6074 groups Consisting of 1806 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000066604-chr9---34735276-34736404 l43 e 4 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 533337 reads mapping to 251856 Unique genomic coordinates Making up 6466 groups Consisting of 1924 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000022511-chr14-+-57531289-57533505 l44 e 5 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 822770 reads mapping to 251761 Unique genomic coordinates Making up 6455 groups Consisting of 1838 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000099326-chr13---92121699-92123806 l44 e 6 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 831464 reads mapping to 236793 Unique genomic coordinates Making up 5901 groups Consisting of 1667 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000166793-chr18-+-35746785-35748607 l44 e 7 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 752893 reads mapping to 248412 Unique genomic coordinates Making up 6239 groups Consisting of 1804 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000112817-chr5---104304260-104305808 l45 e 8 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 652155 reads mapping to 238940 Unique genomic coordinates Making up 6044 groups Consisting of 1670 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000047110-chr3---124282214-124284009 l45 e 9 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 698892 reads mapping to 243541 Unique genomic coordinates Making up 6248 groups Consisting of 1819 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000049545-chr5-+-35621215-35624410 l43 e 10 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 749909 reads mapping to 232750 Unique genomic coordinates Making up 5874 groups Consisting of 1655 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000065545-chrY---68871-70011 l37 e 11 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 562554 reads mapping to 244055 Unique genomic coordinates Making up 6194 groups Consisting of 1894 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000106108-chr4---126566259-126568812 l45 e 12 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 757997 reads mapping to 252314 Unique genomic coordinates Making up 6265 groups Consisting of 1755 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000060084-chr9---104111135-104112713 l45 e 13 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 525551 reads mapping to 249627 Unique genomic coordinates Making up 6355 groups Consisting of 1834 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000056042-chr7-+-127683033-127685314 l45 e 14 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 561233 reads mapping to 250171 Unique genomic coordinates Making up 6286 groups Consisting of 1853 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000064231-chr7---106370263-106372715 l45 e 15 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 615774 reads mapping to 256068 Unique genomic coordinates Making up 6426 groups Consisting of 1903 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000110241-chr8-+-71344054-71345216 l43 e 16 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 574158 reads mapping to 246828 Unique genomic coordinates Making up 6246 groups Consisting of 1827 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000079934-chr2-+-119788928-119795317 l45 e 17 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 774110 reads mapping to 252533 Unique genomic coordinates Making up 6383 groups Consisting of 1905 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000086763-chr17-+-57547269-57548418 l44 e 18 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 808111 reads mapping to 249326 Unique genomic coordinates Making up 6366 groups Consisting of 1885 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000172996-chr9-+-21451295-21452619 l43 e 19 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 595668 reads mapping to 253890 Unique genomic coordinates Making up 6444 groups Consisting of 1783 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000076504-chr9-+-38156670-38157620 l43 e 20 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 529574 reads mapping to 234324 Unique genomic coordinates Making up 5901 groups Consisting of 1715 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000106982-chr7---109015292-109015921 l45 e 21 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 546699 reads mapping to 227809 Unique genomic coordinates Making up 5761 groups Consisting of 1667 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000086783-chr19-+-57814170-57815222 l44 e 22 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 948796 reads mapping to 250034 Unique genomic coordinates Making up 6335 groups Consisting of 1859 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 474324 reads mapping to 249000 Unique genomic coordinates Making up 6236 groups Consisting of 1810 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000098134-chr7-+-114780228-114781324 l45 e 24 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 562965 reads mapping to 252121 Unique genomic coordinates Making up 6369 groups Consisting of 1859 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000107966-chr7-+-51079869-51082825 l43 e 25 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 564464 reads mapping to 239620 Unique genomic coordinates Making up 6082 groups Consisting of 1716 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000139565-chr5-+-135628305-135629426 l45 e 26 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 589538 reads mapping to 256979 Unique genomic coordinates Making up 6509 groups Consisting of 1860 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 469018 reads mapping to 236063 Unique genomic coordinates Making up 5962 groups Consisting of 1776 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000028802-chr2-+-118911796-118913828 l45 e 28 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 764579 reads mapping to 241699 Unique genomic coordinates Making up 6117 groups Consisting of 1717 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000037181-chr12---68321457-68323529 l44 e 29 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 944845 reads mapping to 240897 Unique genomic coordinates Making up 5932 groups Consisting of 1722 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000032214-chr6-+-124881406-124883330 l45 e 30 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 597303 reads mapping to 254804 Unique genomic coordinates Making up 6444 groups Consisting of 1864 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000147712-chr9-+-22439555-22440631 l43 e 31 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 552764 reads mapping to 258597 Unique genomic coordinates Making up 6477 groups Consisting of 1823 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 492309 reads mapping to 240271 Unique genomic coordinates Making up 6087 groups Consisting of 1744 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000170695-chr3-+-45222829-45227633 l43 e 33 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 684335 reads mapping to 247070 Unique genomic coordinates Making up 6277 groups Consisting of 1784 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000084031-chr8---26146961-26149434 l43 e 34 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 536321 reads mapping to 242946 Unique genomic coordinates Making up 6139 groups Consisting of 1764 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000143692-chr7-+-129725444-129726535 l45 e 35 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 564442 reads mapping to 245088 Unique genomic coordinates Making up 6333 groups Consisting of 1794 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000150147-chr7-+-48941162-48943436 l43 e 36 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 587592 reads mapping to 247322 Unique genomic coordinates Making up 6277 groups Consisting of 1838 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 464212 reads mapping to 238334 Unique genomic coordinates Making up 6090 groups Consisting of 1757 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000102625-chr3---108233883-108235038 l45 e 38 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 674688 reads mapping to 240441 Unique genomic coordinates Making up 6073 groups Consisting of 1766 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000093772-chr9-+-121671237-121673739 l45 e 39 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 530723 reads mapping to 247049 Unique genomic coordinates Making up 6192 groups Consisting of 1788 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000160142-chr9-+-92481177-92482240 l43 e 40 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 535523 reads mapping to 242043 Unique genomic coordinates Making up 6164 groups Consisting of 1766 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000107900-chr7---51907301-51908441 l43 e 41 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 580266 reads mapping to 254922 Unique genomic coordinates Making up 6428 groups Consisting of 1831 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 482075 reads mapping to 232366 Unique genomic coordinates Making up 5998 groups Consisting of 1654 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 456337 reads mapping to 247203 Unique genomic coordinates Making up 6331 groups Consisting of 1821 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000008052-chr9-+-75977619-75978744 l43 e 44 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 522333 reads mapping to 243707 Unique genomic coordinates Making up 6268 groups Consisting of 1737 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000114058-chrX---73044234-73048445 l43 e 45 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 527511 reads mapping to 252350 Unique genomic coordinates Making up 6324 groups Consisting of 1857 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000016569-chr5-+-151524370-151526446 l45 e 46 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 593955 reads mapping to 252214 Unique genomic coordinates Making up 6364 groups Consisting of 1806 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000035499-chr9-+-64977870-64985747 l43 e 47 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 517790 reads mapping to 240092 Unique genomic coordinates Making up 6102 groups Consisting of 1778 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 454729 reads mapping to 240449 Unique genomic coordinates Making up 6135 groups Consisting of 1785 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000161371-chr10-+-122322764-122323349 l46 e 49 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 981985 reads mapping to 246189 Unique genomic coordinates Making up 6301 groups Consisting of 1825 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000060043-chr6---119897493-119904750 l45 e 50 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 650194 reads mapping to 250314 Unique genomic coordinates Making up 6414 groups Consisting of 1835 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000171037-chr5---106894817-106897551 l45 e 51 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 933957 reads mapping to 232989 Unique genomic coordinates Making up 5951 groups Consisting of 1699 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000166114-chr5---16732014-16733752 l43 e 52 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 815685 reads mapping to 256214 Unique genomic coordinates Making up 6515 groups Consisting of 1946 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000112913-chrX-+-138663246-138664653 l45 e 53 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 503966 reads mapping to 250633 Unique genomic coordinates Making up 6348 groups Consisting of 1823 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 491394 reads mapping to 253871 Unique genomic coordinates Making up 6420 groups Consisting of 1804 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000049714-chr11-+-83832362-83833955 l44 e 55 nr 1000000 chr ENSMUST00000098787-chr9---49342814-49343855 l43 e 55 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1024784 reads mapping to 237568 Unique genomic coordinates Making up 6056 groups Consisting of 1676 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000096066-chr6-+-30507172-30508256 l43 e 56 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 767460 reads mapping to 250074 Unique genomic coordinates Making up 6233 groups Consisting of 1857 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 495680 reads mapping to 253784 Unique genomic coordinates Making up 6538 groups Consisting of 1917 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000074570-chr8-+-97459760-97463058 l43 e 58 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 548013 reads mapping to 235574 Unique genomic coordinates Making up 5891 groups Consisting of 1726 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000168164-chr8---13104275-13105459 l43 e 59 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 775819 reads mapping to 240023 Unique genomic coordinates Making up 6130 groups Consisting of 1787 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000115891-chrY---1371583-1373660 l41 e 60 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 571790 reads mapping to 239744 Unique genomic coordinates Making up 6056 groups Consisting of 1781 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000035007-chr9-+-114655057-114658461 l45 e 61 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 512726 reads mapping to 241014 Unique genomic coordinates Making up 6072 groups Consisting of 1802 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000117237-chr2---104594952-104599262 l45 e 62 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 773925 reads mapping to 247539 Unique genomic coordinates Making up 6164 groups Consisting of 1730 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000122341-chr7-+-34960731-34961063 l43 e 63 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 621037 reads mapping to 237872 Unique genomic coordinates Making up 6031 groups Consisting of 1731 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000033458-chrX-+-53399753-53401664 l43 e 64 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 669646 reads mapping to 249070 Unique genomic coordinates Making up 6285 groups Consisting of 1823 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000098076-chr7-+-128032204-128033765 l45 e 65 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 591172 reads mapping to 237880 Unique genomic coordinates Making up 5877 groups Consisting of 1690 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 377980 reads mapping to 216410 Unique genomic coordinates Making up 5529 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 491626 reads mapping to 245437 Unique genomic coordinates Making up 6260 groups Consisting of 1822 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000034615-chr9-+-35371869-35374768 l43 e 68 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 562839 reads mapping to 251109 Unique genomic coordinates Making up 6324 groups Consisting of 1835 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000009392-chr7---150152727-150155169 l45 e 69 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 623793 reads mapping to 232469 Unique genomic coordinates Making up 5947 groups Consisting of 1664 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 478262 reads mapping to 227076 Unique genomic coordinates Making up 5862 groups Consisting of 1689 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000043141-chr8-+-113121187-113123571 l45 e 71 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 540170 reads mapping to 240852 Unique genomic coordinates Making up 6155 groups Consisting of 1719 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000113676-chr5-+-67736365-67737972 l43 e 72 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 683527 reads mapping to 251225 Unique genomic coordinates Making up 6222 groups Consisting of 1900 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000122131-chrX-+-35728464-35729573 l43 e 73 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 507987 reads mapping to 242904 Unique genomic coordinates Making up 6089 groups Consisting of 1772 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000129704-chr5---141144476-141145574 l45 e 74 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 738630 reads mapping to 248232 Unique genomic coordinates Making up 6286 groups Consisting of 1811 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000075806-chr16---29260503-29261575 l44 e 75 nr 1000000 chr ENSMUST00000156818-chr19---33538440-33539575 l44 e 75 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1236941 reads mapping to 244260 Unique genomic coordinates Making up 6205 groups Consisting of 1767 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000028178-chr2---58147837-58149076 l43 e 76 nr 1000000 chr ENSMUST00000028178-chr2---58147837-58149076 l43 e 76 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1288708 reads mapping to 237205 Unique genomic coordinates Making up 5909 groups Consisting of 1692 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000033809-chrX-+-137007818-137008977 l45 e 77 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 506845 reads mapping to 238675 Unique genomic coordinates Making up 6028 groups Consisting of 1736 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000097504-chr18---82779497-82780578 l44 e 78 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 997797 reads mapping to 264797 Unique genomic coordinates Making up 6631 groups Consisting of 1989 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000048937-chr9-+-75295609-75298879 l43 e 79 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 522879 reads mapping to 239768 Unique genomic coordinates Making up 6201 groups Consisting of 1756 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000080469-chr6-+-17520872-17523980 l43 e 80 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 812616 reads mapping to 252923 Unique genomic coordinates Making up 6352 groups Consisting of 1851 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000028233-chr2---34894231-34895781 l43 e 81 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 691322 reads mapping to 235126 Unique genomic coordinates Making up 5938 groups Consisting of 1688 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000031687-chr6---25697791-25698882 l43 e 82 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 592124 reads mapping to 251880 Unique genomic coordinates Making up 6378 groups Consisting of 1831 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000004622-chr7-+-104371483-104372783 l45 e 83 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 554241 reads mapping to 252779 Unique genomic coordinates Making up 6417 groups Consisting of 1833 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 466642 reads mapping to 230633 Unique genomic coordinates Making up 5866 groups Consisting of 1629 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000037181-chr12---67730392-67731685 l44 e 85 nr 1000000 chr ENSMUST00000161635-chr9---26585104-26586185 l43 e 85 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1076496 reads mapping to 251292 Unique genomic coordinates Making up 6207 groups Consisting of 1842 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000165709-chr4-+-106088073-106089186 l45 e 86 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 991687 reads mapping to 252087 Unique genomic coordinates Making up 6376 groups Consisting of 1852 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000173036-chr7---7539275-7541087 l41 e 87 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 629034 reads mapping to 256151 Unique genomic coordinates Making up 6500 groups Consisting of 1864 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000015498-chr9-+-95578264-95579388 l43 e 88 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 553223 reads mapping to 245370 Unique genomic coordinates Making up 6145 groups Consisting of 1796 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 465741 reads mapping to 231886 Unique genomic coordinates Making up 5805 groups Consisting of 1767 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000174845-chr7-+-8613167-8614290 l41 e 90 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 654046 reads mapping to 238057 Unique genomic coordinates Making up 5863 groups Consisting of 1710 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000149002-chr4-+-140873897-140875491 l45 e 91 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 853066 reads mapping to 247922 Unique genomic coordinates Making up 6378 groups Consisting of 1792 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000120437-chr2---173809983-173810192 l45 e 92 nr 1000000 chr ENSMUST00000120437-chr2---173809983-173810192 l45 e 92 nr 1500000 chr ENSMUST00000120437-chr2---173809983-173810192 l45 e 92 nr 2000000 chr ENSMUST00000120437-chr2---173809983-173810192 l45 e 92 nr 2500000 chr ENSMUST00000035057-chr9-+-110084926-110086892 l45 e 92 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2512682 reads mapping to 238868 Unique genomic coordinates Making up 6013 groups Consisting of 1728 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000107644-chr7-+-54058687-54060993 l43 e 93 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 587245 reads mapping to 253701 Unique genomic coordinates Making up 6392 groups Consisting of 1894 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000167502-chr9---61779108-61780494 l43 e 94 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 539524 reads mapping to 257486 Unique genomic coordinates Making up 6477 groups Consisting of 1849 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 485049 reads mapping to 236363 Unique genomic coordinates Making up 5994 groups Consisting of 1713 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000169350-chr6-+-48432153-48438996 l43 e 96 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 604321 reads mapping to 251998 Unique genomic coordinates Making up 6415 groups Consisting of 1901 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000002099-chr9-+-44597150-44600797 l43 e 97 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 609501 reads mapping to 239093 Unique genomic coordinates Making up 5977 groups Consisting of 1771 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000014421-chr5---90691784-90695098 l43 e 98 nr 1000000 chr ENSMUST00000035170-chr9---104093936-104095598 l45 e 98 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1037124 reads mapping to 249455 Unique genomic coordinates Making up 6085 groups Consisting of 1815 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000007754-chr8-+-74012002-74017299 l43 e 99 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 549605 reads mapping to 239404 Unique genomic coordinates Making up 6017 groups Consisting of 1687 clusters