SUMMARISING RUN PARAMETERS ========================== Input filename: ERR12308526_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: 134025). 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 ERR12308526_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 2168.165 s (18.856 µs/read; 3.18 M reads/minute). === Summary === Total reads processed: 114,987,092 Reads with adapters: 66,796,997 (58.1%) Reads written (passing filters): 114,987,092 (100.0%) Total basepairs processed: 17,363,050,892 bp Quality-trimmed: 59,523,566 bp (0.3%) Total written (filtered): 16,619,506,157 bp (95.7%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 66796997 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 51.1% C: 17.8% G: 0.6% T: 30.5% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 46448449 28746773.0 0 46448449 2 562322 7186693.2 0 562322 3 484274 1796673.3 0 484274 4 417837 449168.3 0 417837 5 447089 112292.1 0 447089 6 392681 28073.0 0 392681 7 372943 7018.3 0 372943 8 483182 1754.6 0 483182 9 272267 438.6 0 270890 1377 10 414763 109.7 1 374388 40375 11 375288 27.4 1 339152 36136 12 401046 6.9 1 336705 64341 13 391453 1.7 1 325564 65889 14 450149 1.7 1 370005 80144 15 331055 1.7 1 277304 53751 16 380866 1.7 1 316955 63911 17 480039 1.7 1 406287 73752 18 256260 1.7 1 213138 43122 19 471859 1.7 1 392500 79359 20 403262 1.7 1 339143 64119 21 230611 1.7 1 192896 37715 22 360392 1.7 1 302331 58061 23 356912 1.7 1 297428 59484 24 446777 1.7 1 371264 75513 25 416026 1.7 1 350347 65679 26 292147 1.7 1 244748 47399 27 243038 1.7 1 203055 39983 28 373705 1.7 1 319121 54584 29 277782 1.7 1 235407 42375 30 398352 1.7 1 339110 59242 31 245264 1.7 1 206807 38457 32 391474 1.7 1 332196 59278 33 321136 1.7 1 273439 47697 34 298012 1.7 1 258072 39940 35 205289 1.7 1 174501 30788 36 393938 1.7 1 341009 52929 37 180471 1.7 1 152876 27595 38 361258 1.7 1 311610 49648 39 271430 1.7 1 233814 37616 40 184127 1.7 1 156989 27138 41 268966 1.7 1 231880 37086 42 275427 1.7 1 238843 36584 43 220263 1.7 1 189191 31072 44 241130 1.7 1 207812 33318 45 258147 1.7 1 221940 36207 46 231918 1.7 1 201067 30851 47 220905 1.7 1 192909 27996 48 199132 1.7 1 172742 26390 49 213710 1.7 1 185805 27905 50 194729 1.7 1 170669 24060 51 193008 1.7 1 168575 24433 52 191181 1.7 1 167138 24043 53 181389 1.7 1 159659 21730 54 200674 1.7 1 177022 23652 55 145202 1.7 1 127980 17222 56 170219 1.7 1 149563 20656 57 190778 1.7 1 168566 22212 58 134477 1.7 1 118099 16378 59 132148 1.7 1 117645 14503 60 156316 1.7 1 139307 17009 61 142812 1.7 1 126850 15962 62 109068 1.7 1 96752 12316 63 211259 1.7 1 189640 21619 64 103095 1.7 1 91569 11526 65 80928 1.7 1 72205 8723 66 78903 1.7 1 70415 8488 67 117199 1.7 1 105704 11495 68 101566 1.7 1 91212 10354 69 87945 1.7 1 79258 8687 70 94734 1.7 1 85793 8941 71 85923 1.7 1 77730 8193 72 84452 1.7 1 76506 7946 73 108559 1.7 1 98974 9585 74 77053 1.7 1 70084 6969 75 75954 1.7 1 69743 6211 76 45766 1.7 1 41781 3985 77 41696 1.7 1 37875 3821 78 43570 1.7 1 39875 3695 79 41951 1.7 1 38322 3629 80 41013 1.7 1 37414 3599 81 39091 1.7 1 35880 3211 82 37519 1.7 1 34445 3074 83 36380 1.7 1 33486 2894 84 33802 1.7 1 31144 2658 85 32664 1.7 1 30060 2604 86 29739 1.7 1 27462 2277 87 26686 1.7 1 24679 2007 88 25314 1.7 1 23403 1911 89 23607 1.7 1 21925 1682 90 22285 1.7 1 20695 1590 91 20224 1.7 1 18826 1398 92 18914 1.7 1 17548 1366 93 17569 1.7 1 16429 1140 94 15494 1.7 1 14481 1013 95 14682 1.7 1 13741 941 96 13754 1.7 1 12880 874 97 12187 1.7 1 11383 804 98 11734 1.7 1 10981 753 99 11130 1.7 1 10428 702 100 10329 1.7 1 9735 594 101 8697 1.7 1 8185 512 102 7609 1.7 1 7163 446 103 6657 1.7 1 6291 366 104 5921 1.7 1 5586 335 105 5184 1.7 1 4899 285 106 4541 1.7 1 4308 233 107 4182 1.7 1 3964 218 108 3480 1.7 1 3286 194 109 3142 1.7 1 2977 165 110 2683 1.7 1 2552 131 111 2357 1.7 1 2229 128 112 2105 1.7 1 1997 108 113 1790 1.7 1 1703 87 114 1333 1.7 1 1255 78 115 1082 1.7 1 998 84 116 909 1.7 1 846 63 117 711 1.7 1 665 46 118 585 1.7 1 541 44 119 387 1.7 1 355 32 120 374 1.7 1 352 22 121 310 1.7 1 268 42 122 203 1.7 1 163 40 123 169 1.7 1 149 20 124 126 1.7 1 104 22 125 97 1.7 1 69 28 126 86 1.7 1 71 15 127 70 1.7 1 58 12 128 56 1.7 1 44 12 129 70 1.7 1 61 9 130 44 1.7 1 38 6 131 48 1.7 1 36 12 132 36 1.7 1 21 15 133 34 1.7 1 26 8 134 20 1.7 1 16 4 135 26 1.7 1 14 12 136 23 1.7 1 16 7 137 36 1.7 1 26 10 138 19 1.7 1 8 11 139 24 1.7 1 14 10 140 19 1.7 1 9 10 141 19 1.7 1 6 13 142 13 1.7 1 5 8 143 26 1.7 1 10 16 144 21 1.7 1 5 16 145 24 1.7 1 8 16 146 26 1.7 1 2 24 147 24 1.7 1 3 21 148 27 1.7 1 3 24 149 17 1.7 1 6 11 150 14 1.7 1 4 10 151 47 1.7 1 10 37 RUN STATISTICS FOR INPUT FILE: ERR12308526_2.fastq.gz ============================================= 114987092 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 114987092 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 18182 (0.02%)