SUMMARISING RUN PARAMETERS ========================== Input filename: ERR12308511_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: 127487). Second best hit was smallRNA (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 ERR12308511_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 1364.961 s (17.031 µs/read; 3.52 M reads/minute). === Summary === Total reads processed: 80,147,947 Reads with adapters: 45,208,374 (56.4%) Reads written (passing filters): 80,147,947 (100.0%) Total basepairs processed: 12,102,339,997 bp Quality-trimmed: 70,960,213 bp (0.6%) Total written (filtered): 11,565,394,950 bp (95.6%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 45208374 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 49.2% C: 20.2% G: 2.0% T: 28.6% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 30623881 20036986.8 0 30623881 2 725672 5009246.7 0 725672 3 475076 1252311.7 0 475076 4 343969 313077.9 0 343969 5 361569 78269.5 0 361569 6 319472 19567.4 0 319472 7 310086 4891.8 0 310086 8 379298 1223.0 0 379298 9 188405 305.7 0 187928 477 10 323311 76.4 1 281525 41786 11 278603 19.1 1 247079 31524 12 298565 4.8 1 245075 53490 13 292607 1.2 1 236756 55851 14 339440 1.2 1 269623 69817 15 248164 1.2 1 203348 44816 16 277496 1.2 1 226260 51236 17 368233 1.2 1 303544 64689 18 171593 1.2 1 139600 31993 19 357921 1.2 1 290740 67181 20 260870 1.2 1 214352 46518 21 147731 1.2 1 121321 26410 22 244328 1.2 1 199492 44836 23 241300 1.2 1 196961 44339 24 291002 1.2 1 234465 56537 25 255157 1.2 1 209594 45563 26 197416 1.2 1 161626 35790 27 201491 1.2 1 165962 35529 28 229057 1.2 1 190445 38612 29 208211 1.2 1 173588 34623 30 218647 1.2 1 180102 38545 31 193782 1.2 1 160004 33778 32 211265 1.2 1 173655 37610 33 219685 1.2 1 181903 37782 34 183907 1.2 1 154726 29181 35 152184 1.2 1 127613 24571 36 183632 1.2 1 154871 28761 37 210293 1.2 1 176890 33403 38 152864 1.2 1 128457 24407 39 194472 1.2 1 165558 28914 40 127962 1.2 1 108207 19755 41 162840 1.2 1 137781 25059 42 170487 1.2 1 144197 26290 43 133058 1.2 1 112569 20489 44 148507 1.2 1 124859 23648 45 156641 1.2 1 131565 25076 46 139264 1.2 1 117993 21271 47 138806 1.2 1 118364 20442 48 129724 1.2 1 110791 18933 49 131874 1.2 1 112413 19461 50 124069 1.2 1 106767 17302 51 117891 1.2 1 101448 16443 52 119648 1.2 1 102748 16900 53 112556 1.2 1 97019 15537 54 128454 1.2 1 111261 17193 55 87051 1.2 1 75598 11453 56 107683 1.2 1 92772 14911 57 132769 1.2 1 114732 18037 58 74936 1.2 1 64586 10350 59 88357 1.2 1 77614 10743 60 99391 1.2 1 86944 12447 61 95433 1.2 1 83447 11986 62 76578 1.2 1 67245 9333 63 146536 1.2 1 128858 17678 64 69195 1.2 1 60420 8775 65 53334 1.2 1 46908 6426 66 50322 1.2 1 44323 5999 67 82108 1.2 1 73130 8978 68 72102 1.2 1 63921 8181 69 61254 1.2 1 54508 6746 70 66125 1.2 1 59273 6852 71 60890 1.2 1 54549 6341 72 60372 1.2 1 53897 6475 73 77047 1.2 1 69314 7733 74 55304 1.2 1 49760 5544 75 56448 1.2 1 51209 5239 76 33196 1.2 1 30089 3107 77 30496 1.2 1 27343 3153 78 32717 1.2 1 29434 3283 79 31809 1.2 1 28758 3051 80 31666 1.2 1 28664 3002 81 30224 1.2 1 27289 2935 82 29103 1.2 1 26312 2791 83 28454 1.2 1 25820 2634 84 26879 1.2 1 24427 2452 85 26210 1.2 1 23832 2378 86 23490 1.2 1 21402 2088 87 21620 1.2 1 19748 1872 88 20224 1.2 1 18468 1756 89 19340 1.2 1 17728 1612 90 18703 1.2 1 17200 1503 91 16870 1.2 1 15508 1362 92 16080 1.2 1 14791 1289 93 15415 1.2 1 14251 1164 94 13634 1.2 1 12630 1004 95 13058 1.2 1 12078 980 96 11794 1.2 1 10830 964 97 11085 1.2 1 10230 855 98 10836 1.2 1 10029 807 99 10573 1.2 1 9778 795 100 9545 1.2 1 8851 694 101 8300 1.2 1 7656 644 102 7553 1.2 1 6960 593 103 6724 1.2 1 6191 533 104 5975 1.2 1 5529 446 105 5616 1.2 1 5208 408 106 5059 1.2 1 4709 350 107 4813 1.2 1 4500 313 108 4359 1.2 1 4043 316 109 3832 1.2 1 3559 273 110 3433 1.2 1 3185 248 111 2904 1.2 1 2723 181 112 2674 1.2 1 2495 179 113 2416 1.2 1 2265 151 114 2135 1.2 1 1990 145 115 1919 1.2 1 1795 124 116 1590 1.2 1 1480 110 117 1361 1.2 1 1247 114 118 1218 1.2 1 1124 94 119 990 1.2 1 911 79 120 1135 1.2 1 1057 78 121 951 1.2 1 868 83 122 655 1.2 1 588 67 123 527 1.2 1 464 63 124 381 1.2 1 340 41 125 380 1.2 1 327 53 126 346 1.2 1 301 45 127 255 1.2 1 216 39 128 214 1.2 1 187 27 129 168 1.2 1 149 19 130 176 1.2 1 146 30 131 133 1.2 1 115 18 132 105 1.2 1 80 25 133 125 1.2 1 110 15 134 89 1.2 1 78 11 135 120 1.2 1 104 16 136 73 1.2 1 66 7 137 90 1.2 1 79 11 138 64 1.2 1 55 9 139 61 1.2 1 53 8 140 60 1.2 1 50 10 141 85 1.2 1 66 19 142 30 1.2 1 27 3 143 35 1.2 1 18 17 144 37 1.2 1 22 15 145 47 1.2 1 37 10 146 40 1.2 1 22 18 147 53 1.2 1 40 13 148 56 1.2 1 35 21 149 58 1.2 1 45 13 150 33 1.2 1 20 13 151 229 1.2 1 64 165 RUN STATISTICS FOR INPUT FILE: ERR12308511_2.fastq.gz ============================================= 80147947 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 80147947 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 49045 (0.06%)