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 1166874 reads mapping to 399740 Unique genomic coordinates Making up 10891 groups Consisting of 1069 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 1123 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 1297 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 1163 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 1099005 reads mapping to 437290 Unique genomic coordinates Making up 11563 groups Consisting of 1199 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 1181410 reads mapping to 440337 Unique genomic coordinates Making up 11892 groups Consisting of 1182 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 1713082 reads mapping to 419835 Unique genomic coordinates Making up 11370 groups Consisting of 1169 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 1348597 reads mapping to 429240 Unique genomic coordinates Making up 11650 groups Consisting of 1188 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 1121 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 1180 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 1131 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 1163 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 1233 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 2108120 reads mapping to 434727 Unique genomic coordinates Making up 11724 groups Consisting of 1185 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 1001679 reads mapping to 436744 Unique genomic coordinates Making up 11697 groups Consisting of 1213 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 998211 reads mapping to 431881 Unique genomic coordinates Making up 11654 groups Consisting of 1169 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 1021382 reads mapping to 416679 Unique genomic coordinates Making up 11130 groups Consisting of 1174 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 1049099 reads mapping to 442191 Unique genomic coordinates Making up 11845 groups Consisting of 1247 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 1480701 reads mapping to 426205 Unique genomic coordinates Making up 11397 groups Consisting of 1157 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 1171794 reads mapping to 450985 Unique genomic coordinates Making up 11989 groups Consisting of 1224 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 1158 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 861045 reads mapping to 402868 Unique genomic coordinates Making up 10794 groups Consisting of 1161 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 1029605 reads mapping to 423595 Unique genomic coordinates Making up 11419 groups Consisting of 1139 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 1141667 reads mapping to 428313 Unique genomic coordinates Making up 11582 groups Consisting of 1134 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 972082 reads mapping to 440017 Unique genomic coordinates Making up 11919 groups Consisting of 1273 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 421748 Unique genomic coordinates Making up 11315 groups Consisting of 1152 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 1400490 reads mapping to 444643 Unique genomic coordinates Making up 12044 groups Consisting of 1302 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 1411759 reads mapping to 409939 Unique genomic coordinates Making up 11004 groups Consisting of 1157 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 1048165 reads mapping to 417415 Unique genomic coordinates Making up 11346 groups Consisting of 1136 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 1032408 reads mapping to 410472 Unique genomic coordinates Making up 11164 groups Consisting of 1113 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 1241086 reads mapping to 438773 Unique genomic coordinates Making up 11918 groups Consisting of 1221 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 943927 reads mapping to 436396 Unique genomic coordinates Making up 11770 groups Consisting of 1219 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 1635551 reads mapping to 427605 Unique genomic coordinates Making up 11412 groups Consisting of 1185 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 977503 reads mapping to 426709 Unique genomic coordinates Making up 11535 groups Consisting of 1184 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 1386874 reads mapping to 415048 Unique genomic coordinates Making up 11096 groups Consisting of 1158 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 1260 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 1289268 reads mapping to 421531 Unique genomic coordinates Making up 11421 groups Consisting of 1152 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 1137 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 1308278 reads mapping to 403051 Unique genomic coordinates Making up 10828 groups Consisting of 1107 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 1211 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 1037572 reads mapping to 425212 Unique genomic coordinates Making up 11583 groups Consisting of 1189 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 1176 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 1222549 reads mapping to 414946 Unique genomic coordinates Making up 11121 groups Consisting of 1147 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 877328 reads mapping to 429066 Unique genomic coordinates Making up 11587 groups Consisting of 1193 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 1162 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 1502235 reads mapping to 435912 Unique genomic coordinates Making up 11670 groups Consisting of 1241 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 935228 reads mapping to 442161 Unique genomic coordinates Making up 11911 groups Consisting of 1221 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 816555 reads mapping to 406801 Unique genomic coordinates Making up 11139 groups Consisting of 1087 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 983624 reads mapping to 417357 Unique genomic coordinates Making up 11148 groups Consisting of 1233 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 1473151 reads mapping to 431785 Unique genomic coordinates Making up 11521 groups Consisting of 1239 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 1203609 reads mapping to 429732 Unique genomic coordinates Making up 11474 groups Consisting of 1158 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 1132 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 1085568 reads mapping to 437225 Unique genomic coordinates Making up 11808 groups Consisting of 1195 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 1180 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 1310306 reads mapping to 433022 Unique genomic coordinates Making up 11899 groups Consisting of 1218 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 939509 reads mapping to 413862 Unique genomic coordinates Making up 11235 groups Consisting of 1159 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 898853 reads mapping to 426891 Unique genomic coordinates Making up 11562 groups Consisting of 1166 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 942347 reads mapping to 436306 Unique genomic coordinates Making up 11850 groups Consisting of 1243 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 1655756 reads mapping to 410440 Unique genomic coordinates Making up 11093 groups Consisting of 1122 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 812486 reads mapping to 407275 Unique genomic coordinates Making up 11058 groups Consisting of 1100 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 1309851 reads mapping to 414836 Unique genomic coordinates Making up 11150 groups Consisting of 1146 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 1004880 reads mapping to 418824 Unique genomic coordinates Making up 11264 groups Consisting of 1155 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 1162219 reads mapping to 437166 Unique genomic coordinates Making up 11637 groups Consisting of 1164 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 866160 reads mapping to 416503 Unique genomic coordinates Making up 11257 groups Consisting of 1192 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 1204 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 1289722 reads mapping to 412957 Unique genomic coordinates Making up 11241 groups Consisting of 1123 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 751267 reads mapping to 375175 Unique genomic coordinates Making up 10027 groups Consisting of 1008 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 1161 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 1052225 reads mapping to 443710 Unique genomic coordinates Making up 11934 groups Consisting of 1221 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 1157609 reads mapping to 414337 Unique genomic coordinates Making up 11239 groups Consisting of 1152 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 1118 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 906390 reads mapping to 413199 Unique genomic coordinates Making up 11186 groups Consisting of 1169 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 1075246 reads mapping to 436523 Unique genomic coordinates Making up 11722 groups Consisting of 1151 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 1003796 reads mapping to 409946 Unique genomic coordinates Making up 11141 groups Consisting of 1074 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 1085108 reads mapping to 432340 Unique genomic coordinates Making up 11541 groups Consisting of 1131 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 1130120 reads mapping to 429305 Unique genomic coordinates Making up 11559 groups Consisting of 1199 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 1055309 reads mapping to 406029 Unique genomic coordinates Making up 10852 groups Consisting of 1159 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 943863 reads mapping to 421086 Unique genomic coordinates Making up 11239 groups Consisting of 1174 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 1155621 reads mapping to 447642 Unique genomic coordinates Making up 12032 groups Consisting of 1200 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 1119051 reads mapping to 418865 Unique genomic coordinates Making up 11198 groups Consisting of 1222 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 1212 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 1081888 reads mapping to 406397 Unique genomic coordinates Making up 10947 groups Consisting of 1088 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 1135 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 987510 reads mapping to 443279 Unique genomic coordinates Making up 11894 groups Consisting of 1254 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 1441373 reads mapping to 406841 Unique genomic coordinates Making up 10872 groups Consisting of 1188 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 1370600 reads mapping to 432070 Unique genomic coordinates Making up 11586 groups Consisting of 1162 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 1322572 reads mapping to 422717 Unique genomic coordinates Making up 11340 groups Consisting of 1132 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 1502073 reads mapping to 434908 Unique genomic coordinates Making up 11588 groups Consisting of 1192 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 1228640 reads mapping to 419679 Unique genomic coordinates Making up 11216 groups Consisting of 1158 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 900556 reads mapping to 403121 Unique genomic coordinates Making up 10912 groups Consisting of 1114 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 1135 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 1451485 reads mapping to 446804 Unique genomic coordinates Making up 12050 groups Consisting of 1232 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 2239717 reads mapping to 426800 Unique genomic coordinates Making up 11311 groups Consisting of 1217 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 964749 reads mapping to 431064 Unique genomic coordinates Making up 11752 groups Consisting of 1197 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 1297 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 972310 reads mapping to 413535 Unique genomic coordinates Making up 11205 groups Consisting of 1174 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 1259 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 931009 reads mapping to 422209 Unique genomic coordinates Making up 11450 groups Consisting of 1154 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 1180036 reads mapping to 428320 Unique genomic coordinates Making up 11438 groups Consisting of 1187 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 1137145 reads mapping to 425567 Unique genomic coordinates Making up 11548 groups Consisting of 1123 clusters