Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000132009-chr6-+-120349100-120349600 l45 e 0 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 584157 reads mapping to 247542 Unique genomic coordinates Making up 6302 groups Consisting of 2209 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 416580 reads mapping to 242415 Unique genomic coordinates Making up 6459 groups Consisting of 2232 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000160041-chr9-+-36651602-36652102 l43 e 2 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 524390 reads mapping to 264103 Unique genomic coordinates Making up 6735 groups Consisting of 2325 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 469438 reads mapping to 246170 Unique genomic coordinates Making up 6350 groups Consisting of 2190 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000124386-chrX---82960504-82961004 l43 e 4 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 505529 reads mapping to 256825 Unique genomic coordinates Making up 6734 groups Consisting of 2299 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 466351 reads mapping to 257319 Unique genomic coordinates Making up 6655 groups Consisting of 2237 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000119647-chr7-+-107589606-107590106 l45 e 6 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 553616 reads mapping to 252407 Unique genomic coordinates Making up 6488 groups Consisting of 2215 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 453298 reads mapping to 251881 Unique genomic coordinates Making up 6539 groups Consisting of 2230 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000076889-chr9-+-75182108-75182608 l43 e 8 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 518725 reads mapping to 260643 Unique genomic coordinates Making up 6730 groups Consisting of 2369 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000170885-chrX---9043709-9044209 l41 e 9 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 512837 reads mapping to 254336 Unique genomic coordinates Making up 6642 groups Consisting of 2188 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000029836-chr3---146250010-146250510 l45 e 10 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 695498 reads mapping to 264364 Unique genomic coordinates Making up 6831 groups Consisting of 2448 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 463642 reads mapping to 253532 Unique genomic coordinates Making up 6539 groups Consisting of 2269 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000075190-chr8---105203012-105203512 l45 e 12 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 545141 reads mapping to 268257 Unique genomic coordinates Making up 6995 groups Consisting of 2397 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 451981 reads mapping to 254777 Unique genomic coordinates Making up 6626 groups Consisting of 2283 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000112830-chr6---118467414-118467914 l45 e 14 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 608600 reads mapping to 258109 Unique genomic coordinates Making up 6639 groups Consisting of 2283 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000053407-chr9-+-3368015-3368515 l41 e 15 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 544452 reads mapping to 248761 Unique genomic coordinates Making up 6294 groups Consisting of 2177 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000159159-chr3-+-137949916-137950416 l45 e 16 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 824857 reads mapping to 257397 Unique genomic coordinates Making up 6560 groups Consisting of 2291 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 477632 reads mapping to 251250 Unique genomic coordinates Making up 6557 groups Consisting of 2392 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000105855-chr4---135114518-135115018 l45 e 18 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 663043 reads mapping to 252402 Unique genomic coordinates Making up 6515 groups Consisting of 2239 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 476323 reads mapping to 259894 Unique genomic coordinates Making up 6798 groups Consisting of 2296 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 476729 reads mapping to 248403 Unique genomic coordinates Making up 6467 groups Consisting of 2203 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 483499 reads mapping to 247242 Unique genomic coordinates Making up 6404 groups Consisting of 2206 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 464374 reads mapping to 255994 Unique genomic coordinates Making up 6639 groups Consisting of 2317 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000163426-chr8---112669623-112670123 l45 e 23 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 822238 reads mapping to 261610 Unique genomic coordinates Making up 6723 groups Consisting of 2345 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000034240-chr8---97630544-97631324 l43 e 24 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 533476 reads mapping to 261056 Unique genomic coordinates Making up 6672 groups Consisting of 2316 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000034653-chr9---18313012-18313325 l43 e 25 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 541972 reads mapping to 263573 Unique genomic coordinates Making up 6819 groups Consisting of 2372 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000133298-chr8-+-14258026-14258526 l43 e 26 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 537773 reads mapping to 254466 Unique genomic coordinates Making up 6543 groups Consisting of 2222 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 496831 reads mapping to 261193 Unique genomic coordinates Making up 6677 groups Consisting of 2403 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000061799-chr9---58144928-58145428 l43 e 28 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 524224 reads mapping to 261145 Unique genomic coordinates Making up 6621 groups Consisting of 2249 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 470576 reads mapping to 254649 Unique genomic coordinates Making up 6502 groups Consisting of 2268 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000113179-chr5-+-90950430-90950930 l43 e 30 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 608349 reads mapping to 261509 Unique genomic coordinates Making up 6764 groups Consisting of 2349 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000028233-chr2---34894231-34894731 l43 e 31 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 958323 reads mapping to 259444 Unique genomic coordinates Making up 6701 groups Consisting of 2363 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000135657-chr7-+-105325998-105326932 l45 e 32 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 555044 reads mapping to 258895 Unique genomic coordinates Making up 6781 groups Consisting of 2381 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000036606-chrX-+-96238133-96238633 l43 e 33 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 504908 reads mapping to 248213 Unique genomic coordinates Making up 6436 groups Consisting of 2211 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 491668 reads mapping to 256620 Unique genomic coordinates Making up 6677 groups Consisting of 2328 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000040971-chr7---105281535-105282035 l45 e 35 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 551046 reads mapping to 252316 Unique genomic coordinates Making up 6484 groups Consisting of 2253 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 484958 reads mapping to 250868 Unique genomic coordinates Making up 6565 groups Consisting of 2262 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000065599-chr5---136729437-136729937 l45 e 37 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 610492 reads mapping to 257965 Unique genomic coordinates Making up 6623 groups Consisting of 2350 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 467492 reads mapping to 253179 Unique genomic coordinates Making up 6544 groups Consisting of 2267 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000034041-chr8-+-47878939-47879439 l43 e 39 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 554252 reads mapping to 260964 Unique genomic coordinates Making up 6757 groups Consisting of 2348 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 452107 reads mapping to 253414 Unique genomic coordinates Making up 6639 groups Consisting of 2279 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 461138 reads mapping to 260712 Unique genomic coordinates Making up 6745 groups Consisting of 2378 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000155850-chr8---82499042-82499542 l43 e 42 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 532839 reads mapping to 253316 Unique genomic coordinates Making up 6521 groups Consisting of 2237 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 471605 reads mapping to 261651 Unique genomic coordinates Making up 6683 groups Consisting of 2311 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000055296-chr6-+-71886544-71887044 l43 e 44 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 572836 reads mapping to 256305 Unique genomic coordinates Making up 6625 groups Consisting of 2338 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 475357 reads mapping to 255855 Unique genomic coordinates Making up 6759 groups Consisting of 2352 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000081872-chr7-+-57237546-57238046 l43 e 46 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 557742 reads mapping to 257235 Unique genomic coordinates Making up 6718 groups Consisting of 2388 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000022437-chr14---32443313-32444147 l44 e 47 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 780190 reads mapping to 256259 Unique genomic coordinates Making up 6661 groups Consisting of 2234 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 454163 reads mapping to 256579 Unique genomic coordinates Making up 6638 groups Consisting of 2349 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000161553-chr14-+-57252549-57253049 l44 e 49 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 790550 reads mapping to 257394 Unique genomic coordinates Making up 6636 groups Consisting of 2297 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000042942-chr7-+-135922739-135923150 l45 e 50 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 542248 reads mapping to 254593 Unique genomic coordinates Making up 6587 groups Consisting of 2291 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 458730 reads mapping to 247212 Unique genomic coordinates Making up 6414 groups Consisting of 2256 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 477631 reads mapping to 265805 Unique genomic coordinates Making up 6992 groups Consisting of 2414 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 484495 reads mapping to 255120 Unique genomic coordinates Making up 6579 groups Consisting of 2267 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 471490 reads mapping to 262592 Unique genomic coordinates Making up 6841 groups Consisting of 2398 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 490266 reads mapping to 261697 Unique genomic coordinates Making up 6824 groups Consisting of 2360 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000035037-chr9---98962293-98963256 l43 e 56 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 526545 reads mapping to 267661 Unique genomic coordinates Making up 6850 groups Consisting of 2380 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000086564-chr5---115186857-115187357 l45 e 57 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 591616 reads mapping to 250569 Unique genomic coordinates Making up 6401 groups Consisting of 2302 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 475999 reads mapping to 256004 Unique genomic coordinates Making up 6559 groups Consisting of 2296 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000121900-chrX---25630559-25631059 l43 e 59 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 514260 reads mapping to 255795 Unique genomic coordinates Making up 6460 groups Consisting of 2237 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000079961-chr8-+-96827665-96828060 l43 e 60 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 535397 reads mapping to 252758 Unique genomic coordinates Making up 6550 groups Consisting of 2283 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000066773-chr9---101100461-101100961 l45 e 61 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 516879 reads mapping to 264005 Unique genomic coordinates Making up 6583 groups Consisting of 2379 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 486721 reads mapping to 257777 Unique genomic coordinates Making up 6731 groups Consisting of 2244 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000042194-chr7---52570463-52570963 l43 e 63 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 614676 reads mapping to 257342 Unique genomic coordinates Making up 6682 groups Consisting of 2221 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000119181-chrX-+-34921764-34922264 l43 e 64 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 506211 reads mapping to 258776 Unique genomic coordinates Making up 6634 groups Consisting of 2292 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 447471 reads mapping to 251339 Unique genomic coordinates Making up 6548 groups Consisting of 2272 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 440160 reads mapping to 245405 Unique genomic coordinates Making up 6352 groups Consisting of 2109 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000160493-chr6---119878167-119878667 l45 e 67 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 568957 reads mapping to 252457 Unique genomic coordinates Making up 6489 groups Consisting of 2261 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 477417 reads mapping to 262251 Unique genomic coordinates Making up 6830 groups Consisting of 2293 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 486706 reads mapping to 247577 Unique genomic coordinates Making up 6480 groups Consisting of 2235 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 475285 reads mapping to 248398 Unique genomic coordinates Making up 6263 groups Consisting of 2120 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 498816 reads mapping to 249818 Unique genomic coordinates Making up 6526 groups Consisting of 2163 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000143257-chr7-+-127375872-127376372 l45 e 72 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 561064 reads mapping to 245047 Unique genomic coordinates Making up 6380 groups Consisting of 2229 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 454600 reads mapping to 254161 Unique genomic coordinates Making up 6572 groups Consisting of 2278 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000100301-chr7-+-3315283-3316274 l41 e 74 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 592279 reads mapping to 262577 Unique genomic coordinates Making up 6715 groups Consisting of 2321 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000034204-chr8---96546175-96546675 l43 e 75 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 530705 reads mapping to 251792 Unique genomic coordinates Making up 6530 groups Consisting of 2269 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 464326 reads mapping to 248948 Unique genomic coordinates Making up 6419 groups Consisting of 2239 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 487712 reads mapping to 257249 Unique genomic coordinates Making up 6701 groups Consisting of 2360 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000041375-chr9---50704840-50705478 l43 e 78 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 529950 reads mapping to 268658 Unique genomic coordinates Making up 6992 groups Consisting of 2348 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000087204-chr5-+-151236279-151236779 l45 e 79 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 590301 reads mapping to 255069 Unique genomic coordinates Making up 6736 groups Consisting of 2281 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 457099 reads mapping to 250175 Unique genomic coordinates Making up 6522 groups Consisting of 2290 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 488885 reads mapping to 252247 Unique genomic coordinates Making up 6367 groups Consisting of 2188 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000108550-chr7---10570182-10570682 l43 e 82 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 569804 reads mapping to 253540 Unique genomic coordinates Making up 6594 groups Consisting of 2266 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000149137-chr2-+-13241783-13242283 l43 e 83 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 734351 reads mapping to 259528 Unique genomic coordinates Making up 6592 groups Consisting of 2265 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000076375-chr9-+-108281684-108282184 l45 e 84 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 513762 reads mapping to 253442 Unique genomic coordinates Making up 6619 groups Consisting of 2223 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 447713 reads mapping to 249334 Unique genomic coordinates Making up 6413 groups Consisting of 2228 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000125490-chr6---92798786-92799286 l43 e 86 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 641004 reads mapping to 264797 Unique genomic coordinates Making up 6846 groups Consisting of 2356 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000039887-chrX---109756087-109756587 l45 e 87 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 503424 reads mapping to 263376 Unique genomic coordinates Making up 6884 groups Consisting of 2355 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 453217 reads mapping to 262064 Unique genomic coordinates Making up 6748 groups Consisting of 2371 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 439639 reads mapping to 252221 Unique genomic coordinates Making up 6533 groups Consisting of 2261 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 476297 reads mapping to 252605 Unique genomic coordinates Making up 6586 groups Consisting of 2284 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000094359-chr7-+-63081691-63082191 l43 e 91 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 554600 reads mapping to 264290 Unique genomic coordinates Making up 6882 groups Consisting of 2389 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000168651-chr5---124831610-124831692 l45 e 92 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 584597 reads mapping to 252488 Unique genomic coordinates Making up 6515 groups Consisting of 2240 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000173069-chr8---25948293-25948793 l43 e 93 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 557117 reads mapping to 258699 Unique genomic coordinates Making up 6624 groups Consisting of 2338 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000124496-chr8-+-34673594-34674094 l43 e 94 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 541476 reads mapping to 271464 Unique genomic coordinates Making up 7027 groups Consisting of 2491 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 462921 reads mapping to 259225 Unique genomic coordinates Making up 6637 groups Consisting of 2293 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 490129 reads mapping to 254534 Unique genomic coordinates Making up 6612 groups Consisting of 2303 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000061456-chr9---109096697-109097197 l45 e 97 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 518807 reads mapping to 260130 Unique genomic coordinates Making up 6643 groups Consisting of 2380 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000046174-chr3-+-31061498-31061998 l43 e 98 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 682052 reads mapping to 260850 Unique genomic coordinates Making up 6832 groups Consisting of 2356 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 477285 reads mapping to 252339 Unique genomic coordinates Making up 6543 groups Consisting of 2286 clusters