SUMMARISING RUN PARAMETERS ========================== Input filename: ERR12308520_1.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: 164007). 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 ERR12308520_1.fastq.gz Processing single-end reads on 2 cores ... Finished in 1615.011 s (19.513 µs/read; 3.07 M reads/minute). === Summary === Total reads processed: 82,766,869 Reads with adapters: 48,853,679 (59.0%) Reads written (passing filters): 82,766,869 (100.0%) Total basepairs processed: 12,497,797,219 bp Quality-trimmed: 71,596,563 bp (0.6%) Total written (filtered): 11,830,801,262 bp (94.7%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 48853679 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 50.1% C: 19.8% G: 1.8% T: 28.2% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 29724912 20691717.2 0 29724912 2 805895 5172929.3 0 805895 3 545069 1293232.3 0 545069 4 432248 323308.1 0 432248 5 457143 80827.0 0 457143 6 411182 20206.8 0 411182 7 411806 5051.7 0 411806 8 510508 1262.9 0 510508 9 233869 315.7 0 233038 831 10 430872 78.9 1 377824 53048 11 364294 19.7 1 325902 38392 12 393895 4.9 1 328880 65015 13 382996 1.2 1 315030 67966 14 461949 1.2 1 371538 90411 15 310042 1.2 1 257792 52250 16 360707 1.2 1 297803 62904 17 483233 1.2 1 403176 80057 18 234139 1.2 1 193298 40841 19 466167 1.2 1 381854 84313 20 366416 1.2 1 305866 60550 21 223712 1.2 1 187354 36358 22 339333 1.2 1 280700 58633 23 333737 1.2 1 276896 56841 24 382630 1.2 1 312554 70076 25 406232 1.2 1 338324 67908 26 254458 1.2 1 211809 42649 27 255671 1.2 1 213785 41886 28 337674 1.2 1 283990 53684 29 266848 1.2 1 226675 40173 30 331695 1.2 1 277312 54383 31 253016 1.2 1 212665 40351 32 285036 1.2 1 238677 46359 33 267797 1.2 1 225530 42267 34 273479 1.2 1 230897 42582 35 292610 1.2 1 248585 44025 36 228945 1.2 1 197694 31251 37 354436 1.2 1 298123 56313 38 225774 1.2 1 192744 33030 39 223994 1.2 1 192041 31953 40 213339 1.2 1 184037 29302 41 188179 1.2 1 161610 26569 42 229380 1.2 1 197887 31493 43 199561 1.2 1 170855 28706 44 204449 1.2 1 174923 29526 45 220147 1.2 1 187835 32312 46 195393 1.2 1 168811 26582 47 189888 1.2 1 164245 25643 48 169029 1.2 1 146073 22956 49 182117 1.2 1 157553 24564 50 165836 1.2 1 144603 21233 51 161201 1.2 1 140207 20994 52 160412 1.2 1 139287 21125 53 152136 1.2 1 132812 19324 54 174235 1.2 1 152573 21662 55 113821 1.2 1 100479 13342 56 142295 1.2 1 124306 17989 57 183903 1.2 1 161136 22767 58 94787 1.2 1 83137 11650 59 108131 1.2 1 96432 11699 60 135755 1.2 1 119960 15795 61 118932 1.2 1 105371 13561 62 90971 1.2 1 80741 10230 63 185665 1.2 1 165045 20620 64 82228 1.2 1 72712 9516 65 64633 1.2 1 57571 7062 66 63388 1.2 1 56562 6826 67 99402 1.2 1 89426 9976 68 85431 1.2 1 76740 8691 69 72025 1.2 1 64864 7161 70 79649 1.2 1 72179 7470 71 72288 1.2 1 65536 6752 72 69275 1.2 1 62902 6373 73 88708 1.2 1 80995 7713 74 64083 1.2 1 58602 5481 75 61266 1.2 1 56515 4751 76 33280 1.2 1 30352 2928 77 34634 1.2 1 31463 3171 78 37213 1.2 1 33791 3422 79 36180 1.2 1 33062 3118 80 34998 1.2 1 32050 2948 81 33822 1.2 1 30878 2944 82 31952 1.2 1 29278 2674 83 30985 1.2 1 28514 2471 84 28991 1.2 1 26800 2191 85 27948 1.2 1 25753 2195 86 25110 1.2 1 23131 1979 87 23035 1.2 1 21283 1752 88 21568 1.2 1 20020 1548 89 20526 1.2 1 18973 1553 90 19723 1.2 1 18278 1445 91 17747 1.2 1 16433 1314 92 16728 1.2 1 15563 1165 93 15682 1.2 1 14578 1104 94 13797 1.2 1 12887 910 95 13037 1.2 1 12151 886 96 11992 1.2 1 11193 799 97 10821 1.2 1 10111 710 98 10532 1.2 1 9847 685 99 10135 1.2 1 9497 638 100 9501 1.2 1 8931 570 101 8204 1.2 1 7613 591 102 7231 1.2 1 6789 442 103 6393 1.2 1 5982 411 104 5844 1.2 1 5474 370 105 5286 1.2 1 4963 323 106 4832 1.2 1 4571 261 107 4378 1.2 1 4105 273 108 4151 1.2 1 3930 221 109 3580 1.2 1 3365 215 110 3241 1.2 1 3039 202 111 2910 1.2 1 2733 177 112 2675 1.2 1 2515 160 113 2233 1.2 1 2093 140 114 1872 1.2 1 1782 90 115 1586 1.2 1 1483 103 116 1360 1.2 1 1269 91 117 1218 1.2 1 1124 94 118 1064 1.2 1 973 91 119 993 1.2 1 905 88 120 2107 1.2 1 1997 110 121 1255 1.2 1 1196 59 122 610 1.2 1 541 69 123 521 1.2 1 469 52 124 404 1.2 1 363 41 125 329 1.2 1 291 38 126 307 1.2 1 263 44 127 271 1.2 1 224 47 128 228 1.2 1 203 25 129 186 1.2 1 168 18 130 165 1.2 1 141 24 131 152 1.2 1 130 22 132 140 1.2 1 120 20 133 163 1.2 1 131 32 134 84 1.2 1 64 20 135 103 1.2 1 83 20 136 104 1.2 1 87 17 137 105 1.2 1 90 15 138 64 1.2 1 45 19 139 87 1.2 1 68 19 140 68 1.2 1 51 17 141 92 1.2 1 78 14 142 55 1.2 1 39 16 143 47 1.2 1 31 16 144 42 1.2 1 25 17 145 45 1.2 1 28 17 146 53 1.2 1 32 21 147 56 1.2 1 31 25 148 44 1.2 1 30 14 149 69 1.2 1 57 12 150 41 1.2 1 30 11 151 337 1.2 1 67 270 RUN STATISTICS FOR INPUT FILE: ERR12308520_1.fastq.gz ============================================= 82766869 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 82766869 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 69618 (0.08%)