SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913481_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: 14121). 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 ERR13913481_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 1925.663 s (19.779 µs/read; 3.03 M reads/minute). === Summary === Total reads processed: 97,358,675 Reads with adapters: 49,630,286 (51.0%) Reads written (passing filters): 97,358,675 (100.0%) Total basepairs processed: 14,603,801,250 bp Quality-trimmed: 58,514,303 bp (0.4%) Total written (filtered): 14,449,261,522 bp (98.9%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 49630286 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 52.7% 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 47671650 24339668.8 0 47671650 2 93836 6084917.2 0 93836 3 90072 1521229.3 0 90072 4 63763 380307.3 0 63763 5 57769 95076.8 0 57769 6 49719 23769.2 0 49719 7 50828 5942.3 0 50828 8 53925 1485.6 0 53925 9 43589 371.4 0 43403 186 10 49443 92.8 1 46649 2794 11 48050 23.2 1 44590 3460 12 46946 5.8 1 34448 12498 13 44638 1.5 1 32295 12343 14 48187 1.5 1 34888 13299 15 40399 1.5 1 29165 11234 16 42107 1.5 1 30474 11633 17 50843 1.5 1 37266 13577 18 31772 1.5 1 23288 8484 19 49682 1.5 1 36845 12837 20 37251 1.5 1 27047 10204 21 30896 1.5 1 22765 8131 22 36714 1.5 1 27006 9708 23 35429 1.5 1 26209 9220 24 46535 1.5 1 34695 11840 25 40561 1.5 1 29821 10740 26 23686 1.5 1 17491 6195 27 25633 1.5 1 18858 6775 28 33431 1.5 1 25159 8272 29 28541 1.5 1 21351 7190 30 31759 1.5 1 24077 7682 31 26881 1.5 1 20099 6782 32 28224 1.5 1 21235 6989 33 27001 1.5 1 20313 6688 34 26258 1.5 1 20068 6190 35 25401 1.5 1 19015 6386 36 25224 1.5 1 19031 6193 37 23392 1.5 1 18001 5391 38 22225 1.5 1 16830 5395 39 22412 1.5 1 17070 5342 40 20616 1.5 1 15799 4817 41 21126 1.5 1 16456 4670 42 19444 1.5 1 14793 4651 43 16895 1.5 1 12982 3913 44 17503 1.5 1 13565 3938 45 16562 1.5 1 12806 3756 46 15937 1.5 1 12393 3544 47 15866 1.5 1 12250 3616 48 15831 1.5 1 12199 3632 49 13826 1.5 1 10915 2911 50 13665 1.5 1 10568 3097 51 13452 1.5 1 10472 2980 52 11995 1.5 1 9494 2501 53 11840 1.5 1 9228 2612 54 11345 1.5 1 8800 2545 55 10260 1.5 1 8100 2160 56 10862 1.5 1 8576 2286 57 9009 1.5 1 7143 1866 58 9295 1.5 1 7262 2033 59 11255 1.5 1 8981 2274 60 6779 1.5 1 5290 1489 61 7483 1.5 1 5899 1584 62 8214 1.5 1 6549 1665 63 6873 1.5 1 5450 1423 64 6200 1.5 1 4910 1290 65 10986 1.5 1 8874 2112 66 4458 1.5 1 3532 926 67 4080 1.5 1 3250 830 68 4007 1.5 1 3248 759 69 5474 1.5 1 4395 1079 70 5223 1.5 1 4181 1042 71 3955 1.5 1 3228 727 72 4245 1.5 1 3423 822 73 3701 1.5 1 2953 748 74 3688 1.5 1 2957 731 75 4571 1.5 1 3674 897 76 3221 1.5 1 2562 659 77 2478 1.5 1 1943 535 78 785 1.5 1 622 163 79 1482 1.5 1 1204 278 80 1835 1.5 1 1504 331 81 1722 1.5 1 1416 306 82 1526 1.5 1 1255 271 83 1513 1.5 1 1208 305 84 1289 1.5 1 1029 260 85 1161 1.5 1 895 266 86 1093 1.5 1 852 241 87 957 1.5 1 760 197 88 913 1.5 1 697 216 89 763 1.5 1 590 173 90 691 1.5 1 520 171 91 655 1.5 1 474 181 92 581 1.5 1 433 148 93 474 1.5 1 347 127 94 470 1.5 1 343 127 95 381 1.5 1 272 109 96 374 1.5 1 264 110 97 327 1.5 1 226 101 98 300 1.5 1 208 92 99 258 1.5 1 169 89 100 251 1.5 1 150 101 101 227 1.5 1 139 88 102 189 1.5 1 120 69 103 190 1.5 1 114 76 104 196 1.5 1 118 78 105 166 1.5 1 94 72 106 147 1.5 1 80 67 107 131 1.5 1 69 62 108 136 1.5 1 74 62 109 148 1.5 1 84 64 110 119 1.5 1 64 55 111 127 1.5 1 65 62 112 103 1.5 1 52 51 113 116 1.5 1 68 48 114 100 1.5 1 59 41 115 116 1.5 1 68 48 116 91 1.5 1 52 39 117 102 1.5 1 64 38 118 117 1.5 1 74 43 119 79 1.5 1 51 28 120 101 1.5 1 61 40 121 66 1.5 1 41 25 122 66 1.5 1 43 23 123 82 1.5 1 53 29 124 75 1.5 1 44 31 125 88 1.5 1 52 36 126 76 1.5 1 50 26 127 47 1.5 1 25 22 128 67 1.5 1 39 28 129 38 1.5 1 23 15 130 39 1.5 1 30 9 131 25 1.5 1 18 7 132 35 1.5 1 27 8 133 19 1.5 1 17 2 134 23 1.5 1 19 4 135 16 1.5 1 12 4 136 21 1.5 1 16 5 137 7 1.5 1 3 4 138 15 1.5 1 8 7 139 5 1.5 1 4 1 140 10 1.5 1 7 3 141 10 1.5 1 7 3 142 6 1.5 1 4 2 143 8 1.5 1 6 2 144 10 1.5 1 2 8 145 5 1.5 1 1 4 146 4 1.5 1 4 147 3 1.5 1 1 2 148 12 1.5 1 3 9 149 6 1.5 1 1 5 150 8 1.5 1 1 7 RUN STATISTICS FOR INPUT FILE: ERR13913481_2.fastq.gz ============================================= 97358675 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 97358675 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 19667 (0.02%)