SUMMARISING RUN PARAMETERS ========================== Input filename: ERR10684000_2.fastq.gz Trimming mode: paired-end Trim Galore version: 0.6.10 Cutadapt version: 4.2 Python version: could not detect Number of cores used for trimming: 2 Quality Phred score cutoff: 20 Quality encoding type selected: ASCII+33 Using Illumina adapter for trimming (count: 232627). Second best hit was Nextera (count: 0) Adapter sequence: 'AGATCGGAAGAGC' (Illumina TruSeq, Sanger iPCR; auto-detected) Maximum trimming error rate: 0.1 (default) Minimum required adapter overlap (stringency): 1 bp Minimum required sequence length for both reads before a sequence pair gets removed: 20 bp Output file will be GZIP compressed This is cutadapt 4.2 with Python 3.10.8 Command line parameters: -j 2 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC ERR10684000_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 1465.462 s (19.412 µs/read; 3.09 M reads/minute). === Summary === Total reads processed: 75,491,417 Reads with adapters: 44,824,009 (59.4%) Reads written (passing filters): 75,491,417 (100.0%) Total basepairs processed: 11,399,203,967 bp Quality-trimmed: 29,221,663 bp (0.3%) Total written (filtered): 10,577,209,368 bp (92.8%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 44824009 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 36.1% C: 1.8% G: 17.7% T: 44.3% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 15664686 18872854.2 0 15664686 2 3070344 4718213.6 0 3070344 3 1583440 1179553.4 0 1583440 4 973513 294888.3 0 973513 5 637214 73722.1 0 637214 6 569594 18430.5 0 569594 7 590494 4607.6 0 590494 8 631417 1151.9 0 631417 9 590196 288.0 0 586202 3994 10 581607 72.0 1 547011 34596 11 578756 18.0 1 534585 44171 12 571910 4.5 1 533654 38256 13 501537 1.1 1 469267 32270 14 510515 1.1 1 472302 38213 15 515624 1.1 1 482284 33340 16 505906 1.1 1 466227 39679 17 568204 1.1 1 521713 46491 18 591283 1.1 1 555865 35418 19 440542 1.1 1 413400 27142 20 492735 1.1 1 462367 30368 21 463404 1.1 1 431426 31978 22 419789 1.1 1 390344 29445 23 430535 1.1 1 401387 29148 24 403912 1.1 1 368227 35685 25 401911 1.1 1 375358 26553 26 368465 1.1 1 348007 20458 27 424209 1.1 1 396455 27754 28 427773 1.1 1 401608 26165 29 445999 1.1 1 412339 33660 30 467394 1.1 1 442735 24659 31 334734 1.1 1 316656 18078 32 363760 1.1 1 343796 19964 33 316391 1.1 1 297718 18673 34 311352 1.1 1 294468 16884 35 303578 1.1 1 283691 19887 36 305117 1.1 1 288796 16321 37 288879 1.1 1 273905 14974 38 320384 1.1 1 299650 20734 39 340508 1.1 1 324335 16173 40 302549 1.1 1 277744 24805 41 294238 1.1 1 278700 15538 42 268702 1.1 1 253241 15461 43 299073 1.1 1 273285 25788 44 206475 1.1 1 192282 14193 45 364462 1.1 1 348184 16278 46 83967 1.1 1 76831 7136 47 222235 1.1 1 207704 14531 48 494659 1.1 1 469458 25201 49 204616 1.1 1 193813 10803 50 199355 1.1 1 186401 12954 51 354048 1.1 1 337612 16436 52 180391 1.1 1 172039 8352 53 131869 1.1 1 124701 7168 54 320758 1.1 1 307442 13316 55 277191 1.1 1 268756 8435 56 76953 1.1 1 71836 5117 57 212282 1.1 1 206755 5527 58 70907 1.1 1 67064 3843 59 158629 1.1 1 153244 5385 60 76777 1.1 1 74202 2575 61 40969 1.1 1 37217 3752 62 187247 1.1 1 179962 7285 63 144899 1.1 1 141230 3669 64 32298 1.1 1 30263 2035 65 68242 1.1 1 64546 3696 66 141348 1.1 1 136613 4735 67 67571 1.1 1 64340 3231 68 114099 1.1 1 109184 4915 69 123225 1.1 1 116669 6556 70 219981 1.1 1 212268 7713 71 23775 1.1 1 21926 1849 72 22560 1.1 1 20907 1653 73 58624 1.1 1 55967 2657 74 76177 1.1 1 72795 3382 75 77738 1.1 1 74286 3452 76 74961 1.1 1 71598 3363 77 73000 1.1 1 69578 3422 78 70643 1.1 1 67429 3214 79 69689 1.1 1 66510 3179 80 69982 1.1 1 66786 3196 81 69671 1.1 1 66507 3164 82 64845 1.1 1 61936 2909 83 58311 1.1 1 55583 2728 84 53798 1.1 1 51299 2499 85 49361 1.1 1 47097 2264 86 47032 1.1 1 44935 2097 87 43439 1.1 1 41505 1934 88 41664 1.1 1 39945 1719 89 40023 1.1 1 38339 1684 90 39468 1.1 1 37695 1773 91 37959 1.1 1 36412 1547 92 35907 1.1 1 34404 1503 93 32672 1.1 1 31229 1443 94 29959 1.1 1 28728 1231 95 26985 1.1 1 25827 1158 96 24505 1.1 1 23496 1009 97 22855 1.1 1 21856 999 98 21234 1.1 1 20382 852 99 20005 1.1 1 19170 835 100 18777 1.1 1 17944 833 101 17933 1.1 1 17194 739 102 16632 1.1 1 15925 707 103 14942 1.1 1 14317 625 104 13620 1.1 1 13058 562 105 11993 1.1 1 11508 485 106 10562 1.1 1 10117 445 107 9673 1.1 1 9279 394 108 8415 1.1 1 8083 332 109 7887 1.1 1 7520 367 110 6973 1.1 1 6720 253 111 6248 1.1 1 5948 300 112 5425 1.1 1 5209 216 113 4836 1.1 1 4639 197 114 4053 1.1 1 3901 152 115 3404 1.1 1 3239 165 116 2730 1.1 1 2600 130 117 2353 1.1 1 2246 107 118 1938 1.1 1 1847 91 119 1554 1.1 1 1485 69 120 1735 1.1 1 1661 74 121 1060 1.1 1 997 63 122 881 1.1 1 815 66 123 627 1.1 1 576 51 124 455 1.1 1 420 35 125 330 1.1 1 304 26 126 263 1.1 1 234 29 127 173 1.1 1 155 18 128 137 1.1 1 117 20 129 137 1.1 1 119 18 130 114 1.1 1 87 27 131 135 1.1 1 98 37 132 69 1.1 1 49 20 133 96 1.1 1 84 12 134 52 1.1 1 36 16 135 68 1.1 1 53 15 136 51 1.1 1 32 19 137 45 1.1 1 28 17 138 39 1.1 1 21 18 139 44 1.1 1 28 16 140 47 1.1 1 22 25 141 58 1.1 1 39 19 142 31 1.1 1 14 17 143 41 1.1 1 19 22 144 48 1.1 1 7 41 145 45 1.1 1 17 28 146 33 1.1 1 2 31 147 44 1.1 1 20 24 148 37 1.1 1 9 28 149 61 1.1 1 29 32 150 61 1.1 1 6 55 151 22576 1.1 1 77 22499 RUN STATISTICS FOR INPUT FILE: ERR10684000_2.fastq.gz ============================================= 75491417 sequences processed in total