Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000031445-chr5-+-125983053-125984500 l45 e 0 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 629224 reads mapping to 437527 Unique genomic coordinates Making up 12821 groups Consisting of 4290 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000030917-chr4---154595161-154596701 l45 e 1 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 713484 reads mapping to 448509 Unique genomic coordinates Making up 13042 groups Consisting of 4255 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000170248-chr4---82543825-82547002 l43 e 2 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 750363 reads mapping to 491364 Unique genomic coordinates Making up 14212 groups Consisting of 4783 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000164662-chr4-+-151755944-151764303 l45 e 3 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 732366 reads mapping to 457516 Unique genomic coordinates Making up 13245 groups Consisting of 4379 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000030056-chr4---63660447-63662504 l43 e 4 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 741781 reads mapping to 477317 Unique genomic coordinates Making up 13776 groups Consisting of 4679 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000090685-chr3-+-103806870-103808905 l45 e 5 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 808708 reads mapping to 483291 Unique genomic coordinates Making up 13952 groups Consisting of 4568 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000152806-chr2---126938796-126940406 l45 e 6 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 762087 reads mapping to 459553 Unique genomic coordinates Making up 13218 groups Consisting of 4458 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000143705-chr4---124760101-124760807 l45 e 7 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 813827 reads mapping to 473374 Unique genomic coordinates Making up 13624 groups Consisting of 4566 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000105691-chr4-+-149016804-149023008 l45 e 8 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 679169 reads mapping to 456701 Unique genomic coordinates Making up 13041 groups Consisting of 4408 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000121276-chr2-+-79972087-79972909 l43 e 9 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 793650 reads mapping to 453630 Unique genomic coordinates Making up 13126 groups Consisting of 4491 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000099461-chr2-+-122161072-122164910 l45 e 10 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 786751 reads mapping to 454638 Unique genomic coordinates Making up 13023 groups Consisting of 4315 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000102621-chr3---108624206-108626011 l45 e 11 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 729638 reads mapping to 452191 Unique genomic coordinates Making up 13018 groups Consisting of 4405 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000052712-chr4-+-3511678-3513912 l41 e 12 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 731817 reads mapping to 474855 Unique genomic coordinates Making up 13696 groups Consisting of 4501 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000098524-chr3-+-145854692-145855813 l45 e 13 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 736741 reads mapping to 477582 Unique genomic coordinates Making up 13793 groups Consisting of 4662 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000150998-chr3-+-108558874-108565014 l45 e 14 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 754885 reads mapping to 477710 Unique genomic coordinates Making up 13868 groups Consisting of 4686 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000029316-chr3---54534497-54539315 l43 e 15 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 736359 reads mapping to 475652 Unique genomic coordinates Making up 13691 groups Consisting of 4509 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000138492-chr4---147958830-147960116 l45 e 16 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 683915 reads mapping to 457209 Unique genomic coordinates Making up 13385 groups Consisting of 4486 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000141162-chr4---63917733-63918917 l43 e 17 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 742694 reads mapping to 475986 Unique genomic coordinates Making up 13760 groups Consisting of 4644 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000075836-chr4---98642064-98643218 l43 e 18 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 692485 reads mapping to 460058 Unique genomic coordinates Making up 13296 groups Consisting of 4399 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000069747-chr2-+-112306638-112312319 l45 e 19 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 903136 reads mapping to 494981 Unique genomic coordinates Making up 14245 groups Consisting of 4663 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000135697-chr5---77320128-77321320 l43 e 20 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 680355 reads mapping to 446389 Unique genomic coordinates Making up 12846 groups Consisting of 4273 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000134099-chr4---55985296-55987821 l43 e 21 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 695212 reads mapping to 441372 Unique genomic coordinates Making up 12855 groups Consisting of 4300 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000142892-chr2-+-164297138-164298322 l45 e 22 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 901346 reads mapping to 463106 Unique genomic coordinates Making up 13446 groups Consisting of 4520 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000068756-chr15---73098739-73099823 l44 e 23 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 922635 reads mapping to 473352 Unique genomic coordinates Making up 13671 groups Consisting of 4515 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000133091-chr2-+-159806107-159807024 l45 e 24 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 768372 reads mapping to 486906 Unique genomic coordinates Making up 14052 groups Consisting of 4685 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000055131-chr4-+-137192349-137195725 l45 e 25 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 787698 reads mapping to 454643 Unique genomic coordinates Making up 13028 groups Consisting of 4428 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000145832-chr4-+-107506732-107509826 l45 e 26 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 693453 reads mapping to 484745 Unique genomic coordinates Making up 14010 groups Consisting of 4687 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000156324-chr4-+-143655135-143659227 l45 e 27 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 696196 reads mapping to 450393 Unique genomic coordinates Making up 12994 groups Consisting of 4328 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000098098-chr4---44139082-44143028 l43 e 28 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 712977 reads mapping to 457737 Unique genomic coordinates Making up 13431 groups Consisting of 4456 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000102926-chr4-+-46483770-46485529 l43 e 29 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 688151 reads mapping to 457231 Unique genomic coordinates Making up 13379 groups Consisting of 4556 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000035757-chr4---143860536-143864430 l45 e 30 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 677754 reads mapping to 480505 Unique genomic coordinates Making up 13867 groups Consisting of 4625 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000103221-chr4-+-147859658-147861531 l45 e 31 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 729704 reads mapping to 478605 Unique genomic coordinates Making up 13816 groups Consisting of 4650 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000102786-chr4---99435685-99436732 l43 e 32 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 704934 reads mapping to 460756 Unique genomic coordinates Making up 13445 groups Consisting of 4446 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000029548-chr3-+-89984793-89987033 l43 e 33 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 713966 reads mapping to 468879 Unique genomic coordinates Making up 13582 groups Consisting of 4595 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000080744-chr4-+-111238723-111239834 l45 e 34 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 738511 reads mapping to 457721 Unique genomic coordinates Making up 13202 groups Consisting of 4428 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000124230-chr19---33694926-33696035 l44 e 35 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 881543 reads mapping to 476509 Unique genomic coordinates Making up 13820 groups Consisting of 4688 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000145733-chr4-+-124744751-124745936 l45 e 36 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 702395 reads mapping to 464219 Unique genomic coordinates Making up 13599 groups Consisting of 4479 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000031899-chr6---41636329-41640137 l43 e 37 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 632676 reads mapping to 440946 Unique genomic coordinates Making up 12846 groups Consisting of 4311 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000171143-chr3---108805718-108806838 l45 e 38 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 696596 reads mapping to 445482 Unique genomic coordinates Making up 13021 groups Consisting of 4327 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000163874-chr3---58987808-58988939 l43 e 39 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 757795 reads mapping to 476575 Unique genomic coordinates Making up 13682 groups Consisting of 4556 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000026381-chr4---140305764-140307140 l45 e 40 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 678591 reads mapping to 461410 Unique genomic coordinates Making up 13380 groups Consisting of 4423 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000117280-chr4-+-52472530-52474541 l43 e 41 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 719546 reads mapping to 487211 Unique genomic coordinates Making up 14126 groups Consisting of 4725 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000126846-chr5-+-8722659-8723742 l41 e 42 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 675389 reads mapping to 450424 Unique genomic coordinates Making up 12969 groups Consisting of 4330 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000174180-chr4---75736826-75737943 l43 e 43 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 823180 reads mapping to 473603 Unique genomic coordinates Making up 13702 groups Consisting of 4606 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000030723-chr4-+-124520891-124527044 l45 e 44 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 718739 reads mapping to 463610 Unique genomic coordinates Making up 13485 groups Consisting of 4428 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000105741-chr4-+-145124219-145125345 l45 e 45 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 679091 reads mapping to 475116 Unique genomic coordinates Making up 13762 groups Consisting of 4565 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000042185-chr4---108316441-108317546 l45 e 46 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 923399 reads mapping to 480489 Unique genomic coordinates Making up 13831 groups Consisting of 4606 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000030560-chr4---129842718-129847147 l45 e 47 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 676848 reads mapping to 450648 Unique genomic coordinates Making up 13088 groups Consisting of 4330 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000147894-chr3---103608172-103613248 l45 e 48 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 740534 reads mapping to 456856 Unique genomic coordinates Making up 13146 groups Consisting of 4506 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000003369-chr4---3835553-3836649 l41 e 49 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 769165 reads mapping to 475600 Unique genomic coordinates Making up 13639 groups Consisting of 4591 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000151346-chr4---123073837-123075650 l45 e 50 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 719040 reads mapping to 469938 Unique genomic coordinates Making up 13619 groups Consisting of 4562 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000123682-chr5---77304985-77308051 l43 e 51 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 678951 reads mapping to 442415 Unique genomic coordinates Making up 12936 groups Consisting of 4389 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000067847-chr4-+-114672723-114673452 l45 e 52 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 703981 reads mapping to 482737 Unique genomic coordinates Making up 14058 groups Consisting of 4674 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000107281-chr3---94314464-94315553 l43 e 53 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 786994 reads mapping to 476481 Unique genomic coordinates Making up 13628 groups Consisting of 4575 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000012186-chr3---137846048-137847254 l45 e 54 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 725429 reads mapping to 478570 Unique genomic coordinates Making up 13971 groups Consisting of 4737 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000152274-chr3---157680274-157681355 l45 e 55 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 691082 reads mapping to 453025 Unique genomic coordinates Making up 13148 groups Consisting of 4348 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000092750-chr4-+-146161867-146166156 l45 e 56 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 728355 reads mapping to 470875 Unique genomic coordinates Making up 13652 groups Consisting of 4612 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000029860-chr4---9468872-9469957 l41 e 57 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 810455 reads mapping to 478235 Unique genomic coordinates Making up 13844 groups Consisting of 4768 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000106914-chr4-+-101660194-101662658 l45 e 58 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 733587 reads mapping to 447594 Unique genomic coordinates Making up 12949 groups Consisting of 4285 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000153666-chr3---105756587-105759459 l45 e 59 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 720885 reads mapping to 453709 Unique genomic coordinates Making up 13054 groups Consisting of 4366 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000098106-chr4-+-43433977-43439960 l43 e 60 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 744047 reads mapping to 454213 Unique genomic coordinates Making up 13164 groups Consisting of 4440 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000101471-chr5-+-27989470-27990561 l43 e 61 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 738597 reads mapping to 458813 Unique genomic coordinates Making up 13283 groups Consisting of 4390 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000029860-chr4---9521310-9523062 l41 e 62 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 704273 reads mapping to 472882 Unique genomic coordinates Making up 13790 groups Consisting of 4541 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000135682-chr2-+-75618268-75620363 l43 e 63 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 837021 reads mapping to 456787 Unique genomic coordinates Making up 13157 groups Consisting of 4471 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000106598-chr4---109876327-109879764 l45 e 64 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 691320 reads mapping to 475395 Unique genomic coordinates Making up 13860 groups Consisting of 4563 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000149068-chr3---88306675-88308665 l43 e 65 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 761161 reads mapping to 454407 Unique genomic coordinates Making up 13161 groups Consisting of 4400 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000022945-chr8---4741348-4742466 l41 e 66 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 568188 reads mapping to 410709 Unique genomic coordinates Making up 12056 groups Consisting of 4020 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000170105-chr4---113667687-113668767 l45 e 67 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 926412 reads mapping to 457935 Unique genomic coordinates Making up 13190 groups Consisting of 4471 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000029987-chr4---49550500-49553168 l43 e 68 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 715238 reads mapping to 478996 Unique genomic coordinates Making up 13974 groups Consisting of 4548 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000153274-chr5-+-23929655-23930469 l43 e 69 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 666811 reads mapping to 452962 Unique genomic coordinates Making up 13012 groups Consisting of 4275 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000048246-chr3---82846169-82851270 l43 e 70 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 853795 reads mapping to 446567 Unique genomic coordinates Making up 12921 groups Consisting of 4264 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000102729-chr4-+-109054890-109056071 l45 e 71 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 698555 reads mapping to 455166 Unique genomic coordinates Making up 13182 groups Consisting of 4462 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000163620-chr3-+-130327886-130329972 l45 e 72 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 826500 reads mapping to 477855 Unique genomic coordinates Making up 13794 groups Consisting of 4605 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000130187-chr4---134087559-134091173 l45 e 73 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 683587 reads mapping to 457286 Unique genomic coordinates Making up 13240 groups Consisting of 4354 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000029805-chr3---137769566-137770774 l45 e 74 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 763703 reads mapping to 473640 Unique genomic coordinates Making up 13516 groups Consisting of 4429 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000105682-chr4-+-149984463-149996075 l45 e 75 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 697927 reads mapping to 472713 Unique genomic coordinates Making up 13643 groups Consisting of 4544 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000133475-chr3---134287912-134288976 l45 e 76 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 723542 reads mapping to 440441 Unique genomic coordinates Making up 12767 groups Consisting of 4212 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000142642-chr2---151775820-151776377 l45 e 77 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 805661 reads mapping to 464298 Unique genomic coordinates Making up 13399 groups Consisting of 4508 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000030041-chr4---62809236-62811978 l43 e 78 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 745891 reads mapping to 496554 Unique genomic coordinates Making up 14445 groups Consisting of 4804 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000126270-chr4---94091663-94092279 l43 e 79 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 712212 reads mapping to 459102 Unique genomic coordinates Making up 13235 groups Consisting of 4549 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000115715-chr17-+-8718237-8719180 l42 e 80 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 886458 reads mapping to 473344 Unique genomic coordinates Making up 13700 groups Consisting of 4659 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000153623-chr3---107498203-107498881 l45 e 81 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 840730 reads mapping to 446794 Unique genomic coordinates Making up 12730 groups Consisting of 4366 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000030076-chr4---59506872-59507982 l43 e 82 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 745104 reads mapping to 473719 Unique genomic coordinates Making up 13614 groups Consisting of 4647 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000029730-chr3---97393329-97395783 l43 e 83 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 753962 reads mapping to 487007 Unique genomic coordinates Making up 13941 groups Consisting of 4698 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000150279-chr6---91445582-91448684 l43 e 84 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 624544 reads mapping to 436439 Unique genomic coordinates Making up 12695 groups Consisting of 4181 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000145664-chr4---133239850-133244085 l45 e 85 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 717881 reads mapping to 470683 Unique genomic coordinates Making up 13659 groups Consisting of 4539 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000138966-chr4---112609524-112610586 l45 e 86 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 807102 reads mapping to 470735 Unique genomic coordinates Making up 13581 groups Consisting of 4552 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000109670-chr2---155274519-155275587 l45 e 87 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 751474 reads mapping to 477286 Unique genomic coordinates Making up 13808 groups Consisting of 4607 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000128909-chr3---120904926-120910888 l45 e 88 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 873822 reads mapping to 460952 Unique genomic coordinates Making up 13281 groups Consisting of 4387 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000058716-chr5-+-139708925-139713189 l45 e 89 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 635319 reads mapping to 442283 Unique genomic coordinates Making up 12669 groups Consisting of 4319 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000031238-chr5---105534183-105535390 l45 e 90 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 729558 reads mapping to 456326 Unique genomic coordinates Making up 13163 groups Consisting of 4367 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000029444-chr3-+-103156990-103162691 l45 e 91 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 770604 reads mapping to 488139 Unique genomic coordinates Making up 14152 groups Consisting of 4647 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000057613-chr4-+-9785982-9789492 l41 e 92 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 724352 reads mapping to 460414 Unique genomic coordinates Making up 13197 groups Consisting of 4430 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000163620-chr3-+-130335826-130336893 l45 e 93 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 739391 reads mapping to 471713 Unique genomic coordinates Making up 13678 groups Consisting of 4612 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000029179-chr2---157832255-157835594 l45 e 94 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 871717 reads mapping to 492307 Unique genomic coordinates Making up 14186 groups Consisting of 4853 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000116553-chr5---86950923-86953695 l43 e 95 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 749606 reads mapping to 451405 Unique genomic coordinates Making up 13034 groups Consisting of 4444 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000110602-chr2-+-121367537-121370596 l45 e 96 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 936698 reads mapping to 482189 Unique genomic coordinates Making up 14024 groups Consisting of 4656 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000035982-chr4---19565252-19566497 l43 e 97 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 720469 reads mapping to 462779 Unique genomic coordinates Making up 13417 groups Consisting of 4534 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000029461-chr3-+-99922938-99923998 l43 e 98 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 766791 reads mapping to 469179 Unique genomic coordinates Making up 13634 groups Consisting of 4516 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000017864-chr2---164295801-164297499 l45 e 99 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 965363 reads mapping to 465323 Unique genomic coordinates Making up 13431 groups Consisting of 4589 clusters