SUMMARISING RUN PARAMETERS ========================== Input filename: ERR10684010_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: 103381). 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 ERR10684010_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 1821.647 s (17.187 µs/read; 3.49 M reads/minute). === Summary === Total reads processed: 105,987,586 Reads with adapters: 60,473,589 (57.1%) Reads written (passing filters): 105,987,586 (100.0%) Total basepairs processed: 16,004,125,486 bp Quality-trimmed: 63,603,200 bp (0.4%) Total written (filtered): 15,373,522,576 bp (96.1%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 60473589 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 50.7% C: 17.5% G: 0.8% T: 31.0% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 45853274 26496896.5 0 45853274 2 416921 6624224.1 0 416921 3 346146 1656056.0 0 346146 4 273161 414014.0 0 273161 5 284640 103503.5 0 284640 6 254851 25875.9 0 254851 7 251091 6469.0 0 251091 8 305374 1617.2 0 305374 9 193781 404.3 0 193141 640 10 270791 101.1 1 247918 22873 11 231150 25.3 1 208241 22909 12 260173 6.3 1 221470 38703 13 258267 1.6 1 219204 39063 14 302003 1.6 1 256612 45391 15 199848 1.6 1 170089 29759 16 238392 1.6 1 203433 34959 17 320573 1.6 1 276090 44483 18 146695 1.6 1 124636 22059 19 328163 1.6 1 282079 46084 20 231137 1.6 1 198788 32349 21 138947 1.6 1 118185 20762 22 225637 1.6 1 193662 31975 23 228805 1.6 1 196592 32213 24 292128 1.6 1 251595 40533 25 261171 1.6 1 226712 34459 26 187205 1.6 1 161687 25518 27 155176 1.6 1 133142 22034 28 248491 1.6 1 217648 30843 29 163544 1.6 1 141394 22150 30 205264 1.6 1 179915 25349 31 202662 1.6 1 176273 26389 32 216812 1.6 1 190266 26546 33 202833 1.6 1 177183 25650 34 190877 1.6 1 165790 25087 35 203953 1.6 1 179344 24609 36 202779 1.6 1 177311 25468 37 160673 1.6 1 142821 17852 38 163974 1.6 1 143842 20132 39 206607 1.6 1 183310 23297 40 154295 1.6 1 135354 18941 41 162467 1.6 1 143900 18567 42 195089 1.6 1 173855 21234 43 137851 1.6 1 121870 15981 44 162107 1.6 1 144085 18022 45 173977 1.6 1 154520 19457 46 162952 1.6 1 144888 18064 47 155388 1.6 1 139376 16012 48 138928 1.6 1 123554 15374 49 153579 1.6 1 136599 16980 50 138196 1.6 1 124429 13767 51 131974 1.6 1 118900 13074 52 137337 1.6 1 123448 13889 53 135109 1.6 1 121380 13729 54 166445 1.6 1 150659 15786 55 92785 1.6 1 83030 9755 56 129525 1.6 1 116111 13414 57 183792 1.6 1 166442 17350 58 83143 1.6 1 74115 9028 59 94455 1.6 1 85232 9223 60 130517 1.6 1 117963 12554 61 119209 1.6 1 108010 11199 62 86287 1.6 1 77841 8446 63 202728 1.6 1 185916 16812 64 86817 1.6 1 78471 8346 65 69153 1.6 1 62558 6595 66 67895 1.6 1 61563 6332 67 110536 1.6 1 101811 8725 68 94590 1.6 1 85977 8613 69 85412 1.6 1 77982 7430 70 95846 1.6 1 87985 7861 71 90438 1.6 1 82957 7481 72 88444 1.6 1 81020 7424 73 116297 1.6 1 107044 9253 74 71078 1.6 1 65276 5802 75 68063 1.6 1 62990 5073 76 47375 1.6 1 43453 3922 77 48669 1.6 1 44737 3932 78 52004 1.6 1 48123 3881 79 51464 1.6 1 47570 3894 80 51512 1.6 1 47566 3946 81 50649 1.6 1 46768 3881 82 49231 1.6 1 45462 3769 83 50107 1.6 1 46357 3750 84 47470 1.6 1 44014 3456 85 46067 1.6 1 42649 3418 86 43527 1.6 1 40286 3241 87 41082 1.6 1 38084 2998 88 39098 1.6 1 36265 2833 89 37829 1.6 1 35143 2686 90 37376 1.6 1 34974 2402 91 34592 1.6 1 32277 2315 92 33470 1.6 1 31259 2211 93 32014 1.6 1 29941 2073 94 29108 1.6 1 27230 1878 95 28072 1.6 1 26269 1803 96 26898 1.6 1 25269 1629 97 24865 1.6 1 23275 1590 98 24332 1.6 1 22901 1431 99 23833 1.6 1 22365 1468 100 23044 1.6 1 21647 1397 101 20136 1.6 1 18982 1154 102 18073 1.6 1 17025 1048 103 16941 1.6 1 15925 1016 104 15441 1.6 1 14562 879 105 14518 1.6 1 13743 775 106 13203 1.6 1 12466 737 107 12441 1.6 1 11774 667 108 11363 1.6 1 10770 593 109 9614 1.6 1 9081 533 110 8797 1.6 1 8368 429 111 7747 1.6 1 7380 367 112 6821 1.6 1 6493 328 113 5981 1.6 1 5684 297 114 5412 1.6 1 5121 291 115 4519 1.6 1 4349 170 116 3801 1.6 1 3632 169 117 3275 1.6 1 3144 131 118 2766 1.6 1 2637 129 119 2351 1.6 1 2236 115 120 11658 1.6 1 11114 544 121 2212 1.6 1 2122 90 122 1196 1.6 1 1148 48 123 949 1.6 1 914 35 124 628 1.6 1 587 41 125 445 1.6 1 433 12 126 414 1.6 1 401 13 127 308 1.6 1 292 16 128 200 1.6 1 180 20 129 161 1.6 1 149 12 130 153 1.6 1 142 11 131 156 1.6 1 147 9 132 110 1.6 1 102 8 133 122 1.6 1 113 9 134 92 1.6 1 84 8 135 125 1.6 1 120 5 136 80 1.6 1 69 11 137 101 1.6 1 93 8 138 66 1.6 1 59 7 139 93 1.6 1 82 11 140 60 1.6 1 46 14 141 75 1.6 1 68 7 142 44 1.6 1 35 9 143 66 1.6 1 51 15 144 44 1.6 1 35 9 145 49 1.6 1 34 15 146 57 1.6 1 39 18 147 40 1.6 1 28 12 148 46 1.6 1 28 18 149 38 1.6 1 26 12 150 35 1.6 1 26 9 151 205 1.6 1 140 65 RUN STATISTICS FOR INPUT FILE: ERR10684010_2.fastq.gz ============================================= 105987586 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 105987586 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 92059 (0.09%)