SUMMARISING RUN PARAMETERS ========================== Input filename: N1-M-iG-H2A_S8_L003_R2_001.fastq.gz Trimming mode: single-end Trim Galore version: 0.4.4 Cutadapt version: 1.18 Quality Phred score cutoff: 0 Quality encoding type selected: ASCII+33 Adapter sequence: 'CTGTCTCTTATA' (Nextera Transposase sequence; user defined) Maximum trimming error rate: 0.1 (default) Minimum required adapter overlap (stringency): 1 bp Minimum required sequence length before a sequence gets removed: 20 bp Output file will be GZIP compressed This is cutadapt 1.18 with Python 2.7.13 Command line parameters: -f fastq -e 0.1 -q 0 -O 1 -a CTGTCTCTTATA N1-M-iG-H2A_S8_L003_R2_001.fastq.gz Processing reads on 1 core in single-end mode ... Finished in 221.12 s (24 us/read; 2.45 M reads/minute). === Summary === Total reads processed: 9,033,159 Reads with adapters: 7,939,063 (87.9%) Reads written (passing filters): 9,033,159 (100.0%) Total basepairs processed: 1,364,007,009 bp Quality-trimmed: 0 bp (0.0%) Total written (filtered): 726,125,493 bp (53.2%) === Adapter 1 === Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 7939063 times. No. of allowed errors: 0-9 bp: 0; 10-12 bp: 1 Bases preceding removed adapters: A: 7.0% C: 50.0% G: 26.1% T: 17.0% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 377664 2258289.8 0 377664 2 129262 564572.4 0 129262 3 47945 141143.1 0 47945 4 23761 35285.8 0 23761 5 15661 8821.4 0 15661 6 14955 2205.4 0 14955 7 15075 551.3 0 15075 8 15785 137.8 0 15785 9 18011 34.5 0 17934 77 10 17648 8.6 1 16140 1508 11 12195 2.2 1 11875 320 12 10434 0.5 1 10098 336 13 10467 0.5 1 10222 245 14 9908 0.5 1 9695 213 15 8838 0.5 1 8633 205 16 8222 0.5 1 8017 205 17 7972 0.5 1 7781 191 18 8426 0.5 1 8190 236 19 11013 0.5 1 10737 276 20 11724 0.5 1 11435 289 21 9673 0.5 1 9433 240 22 10492 0.5 1 10258 234 23 10644 0.5 1 10389 255 24 13902 0.5 1 13601 301 25 11160 0.5 1 10882 278 26 12285 0.5 1 11972 313 27 8624 0.5 1 8420 204 28 7400 0.5 1 7232 168 29 6813 0.5 1 6673 140 30 7288 0.5 1 7141 147 31 7925 0.5 1 7766 159 32 10502 0.5 1 10267 235 33 13280 0.5 1 12998 282 34 15428 0.5 1 15071 357 35 16714 0.5 1 16362 352 36 15426 0.5 1 15072 354 37 12993 0.5 1 12752 241 38 10337 0.5 1 10117 220 39 8272 0.5 1 8121 151 40 7825 0.5 1 7672 153 41 8446 0.5 1 8271 175 42 12131 0.5 1 11931 200 43 16758 0.5 1 16486 272 44 22064 0.5 1 21694 370 45 25132 0.5 1 24713 419 46 25090 0.5 1 24673 417 47 22019 0.5 1 21682 337 48 16873 0.5 1 16570 303 49 12855 0.5 1 12646 209 50 10650 0.5 1 10466 184 51 10934 0.5 1 10757 177 52 15287 0.5 1 14996 291 53 23610 0.5 1 23208 402 54 31306 0.5 1 30824 482 55 39592 0.5 1 39009 583 56 41385 0.5 1 40774 611 57 37838 0.5 1 37293 545 58 31474 0.5 1 31026 448 59 22718 0.5 1 22318 400 60 16747 0.5 1 16464 283 61 14543 0.5 1 14296 247 62 19497 0.5 1 19160 337 63 30407 0.5 1 29953 454 64 46279 0.5 1 45581 698 65 60979 0.5 1 60108 871 66 72361 0.5 1 71255 1106 67 69807 0.5 1 68742 1065 68 58015 0.5 1 57213 802 69 44994 0.5 1 44332 662 70 30859 0.5 1 30401 458 71 22536 0.5 1 22248 288 72 25739 0.5 1 25421 318 73 40920 0.5 1 40446 474 74 66880 0.5 1 66065 815 75 101635 0.5 1 100544 1091 76 127937 0.5 1 126489 1448 77 131224 0.5 1 129726 1498 78 119283 0.5 1 117875 1408 79 93050 0.5 1 92035 1015 80 64104 0.5 1 63371 733 81 41752 0.5 1 41260 492 82 40864 0.5 1 40425 439 83 49950 0.5 1 49418 532 84 97827 0.5 1 96788 1039 85 144189 0.5 1 142684 1505 86 203747 0.5 1 201695 2052 87 235744 0.5 1 233316 2428 88 225738 0.5 1 223415 2323 89 185425 0.5 1 183353 2072 90 134122 0.5 1 132644 1478 91 87629 0.5 1 86607 1022 92 54255 0.5 1 53570 685 93 57175 0.5 1 56526 649 94 107768 0.5 1 106647 1121 95 186821 0.5 1 185016 1805 96 285807 0.5 1 282836 2971 97 365333 0.5 1 361777 3556 98 377480 0.5 1 373752 3728 99 315351 0.5 1 312366 2985 100 235166 0.5 1 232849 2317 101 143325 0.5 1 141950 1375 102 80288 0.5 1 79450 838 103 58573 0.5 1 58027 546 104 86618 0.5 1 85771 847 105 153707 0.5 1 152307 1400 106 233333 0.5 1 231137 2196 107 272135 0.5 1 269479 2656 108 272760 0.5 1 270175 2585 109 195845 0.5 1 194027 1818 110 125217 0.5 1 124012 1205 111 67823 0.5 1 67227 596 112 31410 0.5 1 31056 354 113 11890 0.5 1 11774 116 114 11425 0.5 1 11227 198 115 12064 0.5 1 11903 161 116 15179 0.5 1 14975 204 117 13712 0.5 1 13586 126 118 17226 0.5 1 16995 231 119 8318 0.5 1 8198 120 120 5573 0.5 1 5472 101 121 2100 0.5 1 2069 31 122 2796 0.5 1 2723 73 123 556 0.5 1 529 27 124 1891 0.5 1 1835 56 125 287 0.5 1 251 36 126 1198 0.5 1 1130 68 127 825 0.5 1 787 38 128 512 0.5 1 495 17 129 101 0.5 1 83 18 130 626 0.5 1 602 24 131 103 0.5 1 64 39 132 127 0.5 1 114 13 133 29 0.5 1 14 15 134 83 0.5 1 11 72 135 21 0.5 1 4 17 136 18 0.5 1 8 10 137 22 0.5 1 4 18 138 26 0.5 1 6 20 139 45 0.5 1 6 39 140 16 0.5 1 7 9 141 59 0.5 1 7 52 142 24 0.5 1 13 11 143 95 0.5 1 16 79 144 17 0.5 1 0 17 145 21 0.5 1 6 15 146 10 0.5 1 4 6 147 6 0.5 1 1 5 148 23 0.5 1 2 21 149 30 0.5 1 2 28 150 6 0.5 1 0 6 151 2919 0.5 1 2827 92 RUN STATISTICS FOR INPUT FILE: N1-M-iG-H2A_S8_L003_R2_001.fastq.gz ============================================= 9033159 sequences processed in total Sequences removed because they became shorter than the length cutoff of 20 bp: 3597 (0.0%)