Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000168851-chr11-+-98460079-98460900 l44 e 0 nr 1000000 chr ENSMUST00000065509-chr6---71556896-71558100 l43 e 0 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1166869 reads mapping to 399737 Unique genomic coordinates Making up 10890 groups Consisting of 3324 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000142467-chr18---13096012-13097101 l44 e 1 nr 1000000 chr ENSMUST00000138724-chrX---103678414-103679601 l45 e 1 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1009382 reads mapping to 406839 Unique genomic coordinates Making up 11073 groups Consisting of 3322 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000043775-chr18-+-34986493-34990402 l44 e 2 nr 1000000 chr ENSMUST00000124577-chrX---98985392-98988602 l43 e 2 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1019723 reads mapping to 453145 Unique genomic coordinates Making up 12043 groups Consisting of 3660 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000025802-chr19-+-4000580-4002103 l42 e 3 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 923755 reads mapping to 414996 Unique genomic coordinates Making up 11218 groups Consisting of 3440 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000126532-chr16-+-33731185-33732304 l44 e 4 nr 1000000 chr ENSMUST00000140466-chr9---6940043-6942204 l41 e 4 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1098994 reads mapping to 437281 Unique genomic coordinates Making up 11562 groups Consisting of 3580 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000043069-chr15-+-78436887-78438005 l44 e 5 nr 1000000 chr ENSMUST00000128119-chr7-+-26142764-26146305 l43 e 5 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1181406 reads mapping to 440336 Unique genomic coordinates Making up 11892 groups Consisting of 3560 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000022592-chr14---78699145-78700306 l44 e 6 nr 1000000 chr ENSMUST00000046288-chr17-+-31657060-31657706 l44 e 6 nr 1500000 chr ENSMUST00000130228-chr5-+-67328115-67329206 l43 e 6 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1713076 reads mapping to 419830 Unique genomic coordinates Making up 11369 groups Consisting of 3524 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000173580-chr14-+-26798887-26800507 l44 e 7 nr 1000000 chr ENSMUST00000063906-chr4---135032848-135033907 l45 e 7 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1348600 reads mapping to 429243 Unique genomic coordinates Making up 11650 groups Consisting of 3526 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000073879-chr2---30881726-30889208 l43 e 8 nr 1000000 chr ENSMUST00000034944-chr9-+-66097644-66099408 l43 e 8 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1034354 reads mapping to 413167 Unique genomic coordinates Making up 11117 groups Consisting of 3363 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000164720-chr17-+-46416070-46417009 l44 e 9 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 928982 reads mapping to 405904 Unique genomic coordinates Making up 10925 groups Consisting of 3408 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000162086-chr13-+-63999342-64001610 l44 e 10 nr 1000000 chr ENSMUST00000173073-chr5---24856370-24858610 l43 e 10 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1236663 reads mapping to 414148 Unique genomic coordinates Making up 11107 groups Consisting of 3424 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000035840-chr2---84541990-84543111 l43 e 11 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 974093 reads mapping to 408845 Unique genomic coordinates Making up 11113 groups Consisting of 3343 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000160781-chr17---13184675-13185412 l44 e 12 nr 1000000 chr ENSMUST00000115261-chr9---26700636-26702412 l43 e 12 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1056946 reads mapping to 433836 Unique genomic coordinates Making up 11744 groups Consisting of 3515 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000120733-chr13-+-49288605-49291613 l44 e 13 nr 1000000 chr ENSMUST00000159574-chr13-+-104918809-104919913 l46 e 13 nr 1500000 chr ENSMUST00000041190-chr15---99078382-99081513 l44 e 13 nr 2000000 chr ENSMUST00000032809-chr7-+-30028589-30031513 l43 e 13 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2108119 reads mapping to 434726 Unique genomic coordinates Making up 11724 groups Consisting of 3551 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000064393-chr19-+-29201989-29203114 l44 e 14 nr 1000000 chr ENSMUST00000049501-chrX---162862408-162863514 l45 e 14 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1001678 reads mapping to 436743 Unique genomic coordinates Making up 11697 groups Consisting of 3570 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000149441-chr17-+-56148624-56152415 l44 e 15 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 998208 reads mapping to 431878 Unique genomic coordinates Making up 11652 groups Consisting of 3493 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000022976-chr15---59186889-59188016 l44 e 16 nr 1000000 chr ENSMUST00000082397-chrM-+-4950-5016 l35 e 16 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1021377 reads mapping to 416674 Unique genomic coordinates Making up 11130 groups Consisting of 3436 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000161912-chr2---13165128-13166217 l43 e 17 nr 1000000 chr ENSMUST00000049567-chr9---21037332-21039017 l43 e 17 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1049093 reads mapping to 442185 Unique genomic coordinates Making up 11845 groups Consisting of 3706 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000107163-chr11-+-101903786-101905118 l46 e 18 nr 1000000 chr ENSMUST00000035346-chr2---153303107-153304218 l45 e 18 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1480700 reads mapping to 426204 Unique genomic coordinates Making up 11397 groups Consisting of 3476 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000159993-chr15---71795675-71796719 l44 e 19 nr 1000000 chr ENSMUST00000005829-chr7-+-117952810-117955919 l45 e 19 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1171793 reads mapping to 450985 Unique genomic coordinates Making up 11989 groups Consisting of 3655 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000144076-chr2-+-121000576-121002820 l45 e 20 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 823519 reads mapping to 406972 Unique genomic coordinates Making up 10982 groups Consisting of 3422 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000133442-chr2---44646713-44647621 l43 e 21 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 861047 reads mapping to 402870 Unique genomic coordinates Making up 10794 groups Consisting of 3251 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000169635-chr17-+-8605416-8606522 l42 e 22 nr 1000000 chr ENSMUST00000043096-chr9-+-72166399-72167622 l43 e 22 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1029599 reads mapping to 423593 Unique genomic coordinates Making up 11419 groups Consisting of 3454 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000163069-chr17---29724529-29725823 l44 e 23 nr 1000000 chr ENSMUST00000141378-chr7---27978601-27979723 l43 e 23 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1141663 reads mapping to 428312 Unique genomic coordinates Making up 11582 groups Consisting of 3451 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000044442-chr17---46708052-46711924 l44 e 24 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 972080 reads mapping to 440015 Unique genomic coordinates Making up 11919 groups Consisting of 3638 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000168561-chr1---138095600-138098125 l45 e 25 nr 1000000 chr ENSMUST00000022725-chr14---118412014-118412925 l46 e 25 nr 1500000 chr ENSMUST00000164616-chr6---134121371-134122025 l45 e 25 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1726313 reads mapping to 421749 Unique genomic coordinates Making up 11315 groups Consisting of 3359 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000042780-chr11---106374401-106375526 l46 e 26 nr 1000000 chr ENSMUST00000106193-chr4-+-124501031-124502926 l45 e 26 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1400489 reads mapping to 444642 Unique genomic coordinates Making up 12044 groups Consisting of 3690 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000026322-chr14---25273292-25277027 l44 e 27 nr 1000000 chr ENSMUST00000026975-chr5-+-139656871-139658027 l45 e 27 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1411754 reads mapping to 409934 Unique genomic coordinates Making up 11004 groups Consisting of 3359 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000133633-chr2-+-91403977-91405328 l43 e 28 nr 1000000 chr ENSMUST00000121227-chr9---79485754-79486828 l43 e 28 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1048166 reads mapping to 417416 Unique genomic coordinates Making up 11346 groups Consisting of 3348 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000038580-chr17-+-37407165-37411429 l44 e 29 nr 1000000 chr ENSMUST00000036555-chr9-+-75097040-75099829 l43 e 29 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1032407 reads mapping to 410471 Unique genomic coordinates Making up 11164 groups Consisting of 3332 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000125607-chr11-+-117746791-117748730 l46 e 30 nr 1000000 chr ENSMUST00000123524-chr4---41701701-41703030 l43 e 30 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1241076 reads mapping to 438765 Unique genomic coordinates Making up 11918 groups Consisting of 3621 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000026188-chr19-+-42636542-42639331 l44 e 31 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 943924 reads mapping to 436395 Unique genomic coordinates Making up 11770 groups Consisting of 3624 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000019913-chr10-+-34327112-34331032 l44 e 32 nr 1000000 chr ENSMUST00000111404-chr14---56140425-56141832 l44 e 32 nr 1500000 chr ENSMUST00000003643-chr7-+-20004288-20006932 l43 e 32 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1635549 reads mapping to 427603 Unique genomic coordinates Making up 11412 groups Consisting of 3489 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000135620-chr17---66853829-66855933 l44 e 33 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 977501 reads mapping to 426707 Unique genomic coordinates Making up 11535 groups Consisting of 3475 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000001253-chr12---32243525-32244834 l44 e 34 nr 1000000 chr ENSMUST00000113169-chr6---112676707-112678034 l45 e 34 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1386865 reads mapping to 415039 Unique genomic coordinates Making up 11095 groups Consisting of 3438 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000161091-chr17-+-10744266-10746035 l44 e 35 nr 1000000 chr ENSMUST00000084502-chr7-+-138711198-138712735 l45 e 35 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1124880 reads mapping to 440088 Unique genomic coordinates Making up 11764 groups Consisting of 3719 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000041055-chr12---106906974-106908136 l46 e 36 nr 1000000 chr ENSMUST00000019662-chr5-+-138615478-138619936 l45 e 36 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1289267 reads mapping to 421530 Unique genomic coordinates Making up 11421 groups Consisting of 3427 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000114523-chr2-+-22949309-22950537 l43 e 37 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 915673 reads mapping to 406199 Unique genomic coordinates Making up 10890 groups Consisting of 3327 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000114787-chr16---37115028-37116638 l44 e 38 nr 1000000 chr ENSMUST00000138966-chr4---112849076-112850138 l45 e 38 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1308268 reads mapping to 403048 Unique genomic coordinates Making up 10828 groups Consisting of 3255 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000170757-chr16---98096236-98099339 l44 e 39 nr 1000000 chr ENSMUST00000129185-chrX-+-99272321-99275639 l43 e 39 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1059687 reads mapping to 434732 Unique genomic coordinates Making up 11713 groups Consisting of 3590 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000025065-chr17---59145427-59146540 l44 e 40 nr 1000000 chr ENSMUST00000120321-chr9-+-81820205-81821740 l43 e 40 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1037490 reads mapping to 425203 Unique genomic coordinates Making up 11583 groups Consisting of 3459 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000039205-chr17-+-80582032-80584441 l44 e 41 nr 1000000 chr ENSMUST00000115421-chr5-+-7960472-7961041 l41 e 41 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1229154 reads mapping to 449343 Unique genomic coordinates Making up 12132 groups Consisting of 3551 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000133836-chr19---11015971-11018542 l44 e 42 nr 1000000 chr ENSMUST00000068058-chr5---74427829-74429042 l43 e 42 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1222541 reads mapping to 414939 Unique genomic coordinates Making up 11120 groups Consisting of 3446 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000102709-chr2---69133869-69135043 l43 e 43 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 877327 reads mapping to 429065 Unique genomic coordinates Making up 11587 groups Consisting of 3551 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000028294-chr2---26209377-26211544 l43 e 44 nr 1000000 chr ENSMUST00000128090-chr7-+-28024316-28025644 l43 e 44 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1188063 reads mapping to 419016 Unique genomic coordinates Making up 11403 groups Consisting of 3475 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000017348-chr11-+-98526870-98528445 l44 e 45 nr 1000000 chr ENSMUST00000146436-chr2---93677176-93683645 l43 e 45 nr 1500000 chr ENSMUST00000033665-chrX-+-156523750-156524845 l45 e 45 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1502234 reads mapping to 435911 Unique genomic coordinates Making up 11670 groups Consisting of 3566 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000117695-chr19---41019477-41020546 l44 e 46 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 935226 reads mapping to 442160 Unique genomic coordinates Making up 11911 groups Consisting of 3608 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000148101-chr2-+-106066611-106067247 l45 e 47 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 816552 reads mapping to 406798 Unique genomic coordinates Making up 11139 groups Consisting of 3291 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000029548-chr3-+-89921955-89923048 l43 e 48 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 983625 reads mapping to 417358 Unique genomic coordinates Making up 11148 groups Consisting of 3432 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000053570-chr11-+-11387174-11389149 l44 e 49 nr 1000000 chr ENSMUST00000086914-chr17-+-50378729-50380849 l44 e 49 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1473152 reads mapping to 431786 Unique genomic coordinates Making up 11521 groups Consisting of 3458 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000091871-chr18-+-65338073-65339150 l44 e 50 nr 1000000 chr ENSMUST00000173825-chr7---16405516-16406450 l43 e 50 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1203608 reads mapping to 429731 Unique genomic coordinates Making up 11474 groups Consisting of 3497 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000156809-chr2-+-76622648-76623751 l43 e 51 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 905763 reads mapping to 398665 Unique genomic coordinates Making up 10767 groups Consisting of 3229 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000069245-chr18-+-44171996-44176652 l44 e 52 nr 1000000 chr ENSMUST00000078374-chr9---95395754-95396852 l43 e 52 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1085559 reads mapping to 437217 Unique genomic coordinates Making up 11808 groups Consisting of 3533 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000107508-chr11-+-98490161-98491753 l44 e 53 nr 1000000 chr ENSMUST00000041391-chr19---46393464-46395953 l44 e 53 nr 1500000 chr ENSMUST00000149207-chr9---105900123-105900653 l45 e 53 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1541351 reads mapping to 432376 Unique genomic coordinates Making up 11606 groups Consisting of 3547 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000115097-chr18-+-65869676-65870754 l44 e 54 nr 1000000 chr ENSMUST00000172236-chr6-+-40605893-40609554 l43 e 54 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1310307 reads mapping to 433023 Unique genomic coordinates Making up 11899 groups Consisting of 3583 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000069245-chr18-+-44179978-44182155 l44 e 55 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 939498 reads mapping to 413857 Unique genomic coordinates Making up 11235 groups Consisting of 3374 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000036934-chr2---52150311-52152456 l43 e 56 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 898845 reads mapping to 426883 Unique genomic coordinates Making up 11561 groups Consisting of 3554 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000055117-chr17---27331770-27333657 l44 e 57 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 942348 reads mapping to 436307 Unique genomic coordinates Making up 11850 groups Consisting of 3622 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000109822-chr11---5800823-5803758 l42 e 58 nr 1000000 chr ENSMUST00000006235-chr14-+-63760071-63764758 l44 e 58 nr 1500000 chr ENSMUST00000101032-chr6-+-116355153-116359558 l45 e 58 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1655754 reads mapping to 410439 Unique genomic coordinates Making up 11093 groups Consisting of 3346 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000088001-chr2---168012567-168013659 l45 e 59 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 812478 reads mapping to 407267 Unique genomic coordinates Making up 11057 groups Consisting of 3353 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000023112-chr15---81790645-81791360 l44 e 60 nr 1000000 chr ENSMUST00000030439-chr4---116944068-116946460 l45 e 60 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1309850 reads mapping to 414835 Unique genomic coordinates Making up 11150 groups Consisting of 3446 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000123342-chr2---38593117-38595161 l43 e 61 nr 1000000 chr ENSMUST00000101141-chrX---149093307-149096761 l45 e 61 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1004879 reads mapping to 418823 Unique genomic coordinates Making up 11264 groups Consisting of 3433 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000118362-chr16---11085612-11089162 l44 e 62 nr 1000000 chr ENSMUST00000032130-chr6---87621354-87622162 l43 e 62 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1162200 reads mapping to 437163 Unique genomic coordinates Making up 11637 groups Consisting of 3512 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000129752-chr2---121076213-121077763 l45 e 63 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 866158 reads mapping to 416501 Unique genomic coordinates Making up 11257 groups Consisting of 3471 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000154854-chr16-+-91011494-91012064 l44 e 64 nr 1000000 chr ENSMUST00000040184-chrX---140861528-140862864 l45 e 64 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1006196 reads mapping to 437249 Unique genomic coordinates Making up 11773 groups Consisting of 3511 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000093938-chr11-+-98509863-98511465 l44 e 65 nr 1000000 chr ENSMUST00000061427-chr5---90128932-90130065 l43 e 65 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1289715 reads mapping to 412950 Unique genomic coordinates Making up 11241 groups Consisting of 3387 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000107198-chr4---83937097-83940066 l43 e 66 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 751265 reads mapping to 375173 Unique genomic coordinates Making up 10027 groups Consisting of 2996 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000046497-chr17-+-46634874-46636567 l44 e 67 nr 1000000 chr ENSMUST00000159128-chr9-+-119862774-119864367 l45 e 67 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1050733 reads mapping to 418320 Unique genomic coordinates Making up 11315 groups Consisting of 3473 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000143522-chr19---33585347-33587668 l44 e 68 nr 1000000 chr ENSMUST00000144137-chr9---87132168-87135268 l43 e 68 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1052190 reads mapping to 443697 Unique genomic coordinates Making up 11933 groups Consisting of 3673 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000025358-chr18-+-47023827-47024969 l44 e 69 nr 1000000 chr ENSMUST00000147169-chr6---34898436-34899469 l43 e 69 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1157607 reads mapping to 414335 Unique genomic coordinates Making up 11239 groups Consisting of 3401 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000076891-chr19---55387179-55388270 l44 e 70 nr 1000000 chr ENSMUST00000114099-chr5-+-38690362-38692270 l43 e 70 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1254154 reads mapping to 407762 Unique genomic coordinates Making up 10900 groups Consisting of 3274 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000126165-chr2-+-69850647-69851771 l43 e 71 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 906387 reads mapping to 413196 Unique genomic coordinates Making up 11186 groups Consisting of 3394 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000164932-chr15---101776435-101779572 l46 e 72 nr 1000000 chr ENSMUST00000053085-chr8-+-97048383-97051172 l43 e 72 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1075242 reads mapping to 436519 Unique genomic coordinates Making up 11722 groups Consisting of 3601 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000028499-chr2-+-83641427-83647073 l43 e 73 nr 1000000 chr ENSMUST00000171890-chrX-+-126380658-126381673 l45 e 73 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1003791 reads mapping to 409941 Unique genomic coordinates Making up 11141 groups Consisting of 3320 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000142832-chr17-+-23886304-23888174 l44 e 74 nr 1000000 chr ENSMUST00000053085-chr8-+-97002868-97004174 l43 e 74 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1085106 reads mapping to 432338 Unique genomic coordinates Making up 11541 groups Consisting of 3505 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000145910-chr17---79049253-79055675 l44 e 75 nr 1000000 chr ENSMUST00000048252-chr6---144967212-144968375 l45 e 75 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1130113 reads mapping to 429303 Unique genomic coordinates Making up 11559 groups Consisting of 3604 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000124871-chr18---33098065-33098876 l44 e 76 nr 1000000 chr ENSMUST00000140466-chr9---7006216-7007376 l41 e 76 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1055301 reads mapping to 406021 Unique genomic coordinates Making up 10852 groups Consisting of 3313 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000028426-chr2-+-68772072-68773177 l43 e 77 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 943864 reads mapping to 421087 Unique genomic coordinates Making up 11239 groups Consisting of 3445 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000052737-chr19-+-13779319-13780278 l44 e 78 nr 1000000 chr ENSMUST00000032386-chr6---145806763-145814078 l45 e 78 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1155611 reads mapping to 447639 Unique genomic coordinates Making up 12032 groups Consisting of 3621 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000022196-chr13-+-95271373-95272479 l44 e 79 nr 1000000 chr ENSMUST00000154003-chr7---135415621-135420579 l45 e 79 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1119048 reads mapping to 418862 Unique genomic coordinates Making up 11198 groups Consisting of 3354 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000058829-chr18-+-86573532-86574780 l44 e 80 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 892757 reads mapping to 426290 Unique genomic coordinates Making up 11758 groups Consisting of 3586 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000103667-chr14-+-54362779-54363381 l44 e 81 nr 1000000 chr ENSMUST00000048718-chr8---81790323-81793681 l43 e 81 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1081867 reads mapping to 406380 Unique genomic coordinates Making up 10946 groups Consisting of 3285 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000125518-chr2-+-26237046-26237782 l43 e 82 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 903667 reads mapping to 428958 Unique genomic coordinates Making up 11564 groups Consisting of 3515 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000141149-chr2-+-66383097-66384083 l43 e 83 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 987508 reads mapping to 443277 Unique genomic coordinates Making up 11894 groups Consisting of 3636 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000154964-chr15---98018725-98020184 l44 e 84 nr 1000000 chr ENSMUST00000141058-chr18-+-39519909-39520584 l44 e 84 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1441374 reads mapping to 406842 Unique genomic coordinates Making up 10872 groups Consisting of 3344 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000163093-chr19---33465945-33466785 l44 e 85 nr 1000000 chr ENSMUST00000112433-chr5---111183916-111186285 l45 e 85 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1370599 reads mapping to 432069 Unique genomic coordinates Making up 11586 groups Consisting of 3455 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000160726-chr11---35610883-35612386 l44 e 86 nr 1000000 chr ENSMUST00000124122-chr4-+-9709273-9710386 l41 e 86 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1322571 reads mapping to 422716 Unique genomic coordinates Making up 11339 groups Consisting of 3405 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000110312-chr15-+-39441110-39442187 l44 e 87 nr 1000000 chr ENSMUST00000028239-chr2-+-35149955-35151087 l43 e 87 nr 1500000 chr ENSMUST00000112757-chrX-+-145715963-145717887 l45 e 87 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1502066 reads mapping to 434903 Unique genomic coordinates Making up 11588 groups Consisting of 3577 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000041965-chr12---112531183-112535188 l46 e 88 nr 1000000 chr ENSMUST00000106082-chr4---128264760-128266188 l45 e 88 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1228641 reads mapping to 419680 Unique genomic coordinates Making up 11216 groups Consisting of 3391 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000115550-chr18-+-42473125-42474289 l44 e 89 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 900553 reads mapping to 403118 Unique genomic coordinates Making up 10912 groups Consisting of 3303 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000114076-chr16---91068777-91069390 l44 e 90 nr 1000000 chr ENSMUST00000063738-chr8---38014675-38015490 l43 e 90 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1112012 reads mapping to 411175 Unique genomic coordinates Making up 11229 groups Consisting of 3349 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000106623-chr11-+-113514718-113521191 l46 e 91 nr 1000000 chr ENSMUST00000025755-chr19-+-25580108-25581191 l44 e 91 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1451475 reads mapping to 446801 Unique genomic coordinates Making up 12050 groups Consisting of 3601 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000172180-chr15-+-103351237-103353092 l46 e 92 nr 1000000 chr ENSMUST00000094665-chr2---120100470-120101692 l45 e 92 nr 1500000 chr ENSMUST00000094665-chr2---120100470-120101692 l45 e 92 nr 2000000 chr ENSMUST00000031081-chr5-+-53141347-53143292 l43 e 92 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 2239716 reads mapping to 426799 Unique genomic coordinates Making up 11311 groups Consisting of 3553 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000133432-chr2-+-70548597-70550693 l43 e 93 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 964748 reads mapping to 431063 Unique genomic coordinates Making up 11752 groups Consisting of 3555 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000110687-chr12---56808440-56811194 l44 e 94 nr 1000000 chr ENSMUST00000164865-chr4---138932464-138936294 l45 e 94 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1239049 reads mapping to 451975 Unique genomic coordinates Making up 12072 groups Consisting of 3721 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000114913-chr16-+-35283108-35284195 l44 e 95 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 972306 reads mapping to 413531 Unique genomic coordinates Making up 11205 groups Consisting of 3360 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000061185-chr15---101289492-101294196 l46 e 96 nr 1000000 chr ENSMUST00000057810-chr7---19196837-19198196 l43 e 96 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1157492 reads mapping to 448952 Unique genomic coordinates Making up 12084 groups Consisting of 3681 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000028080-chr2---17265536-17270997 l43 e 97 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 931005 reads mapping to 422206 Unique genomic coordinates Making up 11450 groups Consisting of 3468 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000161671-chr13---96140212-96142098 l44 e 98 nr 1000000 chr ENSMUST00000146114-chr6-+-54214852-54215698 l43 e 98 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1180037 reads mapping to 428321 Unique genomic coordinates Making up 11438 groups Consisting of 3563 clusters Running PARalyzer v1.1 Parsing bowtie file(s)...nr 500000 chr ENSMUST00000087600-chr19---21508211-21509299 l44 e 99 nr 1000000 chr ENSMUST00000005692-chr7-+-31503498-31506399 l43 e 99 Done Creating Read Groups & Clusters...Done Sorting Groups...Done Generating Output...Done! I identified a total of 1137143 reads mapping to 425566 Unique genomic coordinates Making up 11548 groups Consisting of 3349 clusters