SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913468_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: 28745). 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 ERR13913468_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 2159.800 s (20.398 µs/read; 2.94 M reads/minute). === Summary === Total reads processed: 105,884,797 Reads with adapters: 55,613,239 (52.5%) Reads written (passing filters): 105,884,797 (100.0%) Total basepairs processed: 15,882,719,550 bp Quality-trimmed: 56,928,214 bp (0.4%) Total written (filtered): 15,660,912,969 bp (98.6%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 55613239 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 52.6% C: 17.2% G: 0.3% T: 29.9% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 51254670 26471199.2 0 51254670 2 159839 6617799.8 0 159839 3 156661 1654450.0 0 156661 4 133175 413612.5 0 133175 5 128334 103403.1 0 128334 6 106589 25850.8 0 106589 7 113527 6462.7 0 113527 8 120206 1615.7 0 120206 9 95023 403.9 0 94986 37 10 108859 101.0 1 102011 6848 11 105274 25.2 1 97153 8121 12 101202 6.3 1 74413 26789 13 97842 1.6 1 71183 26659 14 100052 1.6 1 73464 26588 15 93211 1.6 1 68476 24735 16 97772 1.6 1 71488 26284 17 98178 1.6 1 72218 25960 18 88262 1.6 1 65300 22962 19 111449 1.6 1 83563 27886 20 79747 1.6 1 58695 21052 21 70538 1.6 1 52186 18352 22 78831 1.6 1 59043 19788 23 76155 1.6 1 57012 19143 24 94862 1.6 1 71840 23022 25 84783 1.6 1 63232 21551 26 59945 1.6 1 45155 14790 27 62989 1.6 1 47172 15817 28 74698 1.6 1 57226 17472 29 68076 1.6 1 51476 16600 30 70074 1.6 1 53690 16384 31 63127 1.6 1 47783 15344 32 62651 1.6 1 47940 14711 33 61708 1.6 1 47146 14562 34 56235 1.6 1 43202 13033 35 57717 1.6 1 44321 13396 36 54785 1.6 1 42425 12360 37 54301 1.6 1 42006 12295 38 54758 1.6 1 42462 12296 39 52795 1.6 1 41354 11441 40 51046 1.6 1 39712 11334 41 43026 1.6 1 33641 9385 42 44939 1.6 1 35276 9663 43 41402 1.6 1 32167 9235 44 41788 1.6 1 33078 8710 45 38149 1.6 1 29826 8323 46 37962 1.6 1 30011 7951 47 38203 1.6 1 30014 8189 48 39533 1.6 1 31271 8262 49 33454 1.6 1 26797 6657 50 33796 1.6 1 26657 7139 51 33963 1.6 1 26906 7057 52 29573 1.6 1 23623 5950 53 29106 1.6 1 23187 5919 54 28230 1.6 1 22657 5573 55 25830 1.6 1 20891 4939 56 27294 1.6 1 22228 5066 57 23030 1.6 1 18553 4477 58 24336 1.6 1 19596 4740 59 29321 1.6 1 23944 5377 60 17939 1.6 1 14372 3567 61 20243 1.6 1 16441 3802 62 20947 1.6 1 17220 3727 63 17806 1.6 1 14450 3356 64 16533 1.6 1 13505 3028 65 28406 1.6 1 23618 4788 66 11648 1.6 1 9342 2306 67 10968 1.6 1 8922 2046 68 11264 1.6 1 9283 1981 69 14510 1.6 1 12058 2452 70 14078 1.6 1 11556 2522 71 11039 1.6 1 9118 1921 72 11587 1.6 1 9567 2020 73 10524 1.6 1 8664 1860 74 9898 1.6 1 8229 1669 75 14359 1.6 1 11866 2493 76 8145 1.6 1 6709 1436 77 5636 1.6 1 4601 1035 78 2507 1.6 1 2067 440 79 4089 1.6 1 3387 702 80 4671 1.6 1 3911 760 81 4560 1.6 1 3826 734 82 4109 1.6 1 3466 643 83 3833 1.6 1 3158 675 84 3323 1.6 1 2761 562 85 3025 1.6 1 2521 504 86 2725 1.6 1 2255 470 87 2500 1.6 1 2073 427 88 2105 1.6 1 1719 386 89 1847 1.6 1 1480 367 90 1632 1.6 1 1306 326 91 1438 1.6 1 1130 308 92 1261 1.6 1 989 272 93 1093 1.6 1 840 253 94 931 1.6 1 724 207 95 846 1.6 1 641 205 96 665 1.6 1 504 161 97 622 1.6 1 452 170 98 522 1.6 1 383 139 99 504 1.6 1 355 149 100 423 1.6 1 304 119 101 394 1.6 1 282 112 102 337 1.6 1 204 133 103 349 1.6 1 219 130 104 283 1.6 1 180 103 105 249 1.6 1 147 102 106 217 1.6 1 117 100 107 230 1.6 1 131 99 108 233 1.6 1 138 95 109 196 1.6 1 104 92 110 182 1.6 1 98 84 111 171 1.6 1 84 87 112 159 1.6 1 81 78 113 162 1.6 1 80 82 114 159 1.6 1 88 71 115 148 1.6 1 86 62 116 166 1.6 1 96 70 117 127 1.6 1 74 53 118 160 1.6 1 95 65 119 132 1.6 1 80 52 120 140 1.6 1 80 60 121 98 1.6 1 59 39 122 139 1.6 1 92 47 123 108 1.6 1 58 50 124 122 1.6 1 81 41 125 98 1.6 1 59 39 126 93 1.6 1 61 32 127 97 1.6 1 56 41 128 88 1.6 1 56 32 129 72 1.6 1 45 27 130 64 1.6 1 40 24 131 57 1.6 1 37 20 132 53 1.6 1 36 17 133 40 1.6 1 27 13 134 27 1.6 1 21 6 135 29 1.6 1 23 6 136 24 1.6 1 18 6 137 28 1.6 1 21 7 138 29 1.6 1 20 9 139 14 1.6 1 10 4 140 21 1.6 1 18 3 141 10 1.6 1 8 2 142 10 1.6 1 6 4 143 10 1.6 1 4 6 144 7 1.6 1 3 4 145 9 1.6 1 5 4 146 9 1.6 1 7 2 147 7 1.6 1 4 3 148 5 1.6 1 2 3 149 8 1.6 1 3 5 150 27 1.6 1 9 18 RUN STATISTICS FOR INPUT FILE: ERR13913468_2.fastq.gz ============================================= 105884797 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 105884797 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 16501 (0.02%)