SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913489_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: 14589). 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 ERR13913489_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 2204.344 s (20.242 µs/read; 2.96 M reads/minute). === Summary === Total reads processed: 108,898,335 Reads with adapters: 55,876,582 (51.3%) Reads written (passing filters): 108,898,335 (100.0%) Total basepairs processed: 16,334,750,250 bp Quality-trimmed: 64,288,864 bp (0.4%) Total written (filtered): 16,157,722,066 bp (98.9%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 55876582 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 52.6% C: 16.9% G: 0.3% T: 30.1% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 53513951 27224583.8 0 53513951 2 117733 6806145.9 0 117733 3 106465 1701536.5 0 106465 4 80625 425384.1 0 80625 5 71921 106346.0 0 71921 6 55986 26586.5 0 55986 7 59853 6646.6 0 59853 8 65741 1661.7 0 65741 9 49891 415.4 0 49867 24 10 59061 103.9 1 54771 4290 11 58208 26.0 1 53064 5144 12 56479 6.5 1 40745 15734 13 53202 1.6 1 37996 15206 14 57702 1.6 1 41605 16097 15 48084 1.6 1 34775 13309 16 50868 1.6 1 36675 14193 17 60742 1.6 1 43870 16872 18 37399 1.6 1 27082 10317 19 56285 1.6 1 41121 15164 20 44870 1.6 1 32044 12826 21 40332 1.6 1 29392 10940 22 43355 1.6 1 31733 11622 23 41664 1.6 1 30603 11061 24 45501 1.6 1 33352 12149 25 45740 1.6 1 33621 12119 26 36182 1.6 1 26744 9438 27 37592 1.6 1 27525 10067 28 38973 1.6 1 29327 9646 29 34353 1.6 1 25346 9007 30 38331 1.6 1 28735 9596 31 30599 1.6 1 22823 7776 32 36498 1.6 1 27543 8955 33 30392 1.6 1 22549 7843 34 34839 1.6 1 26122 8717 35 25604 1.6 1 19276 6328 36 31574 1.6 1 24048 7526 37 28334 1.6 1 21655 6679 38 22872 1.6 1 17303 5569 39 32567 1.6 1 25342 7225 40 22904 1.6 1 17169 5735 41 20208 1.6 1 15367 4841 42 21534 1.6 1 16264 5270 43 21094 1.6 1 16166 4928 44 21321 1.6 1 16502 4819 45 19336 1.6 1 14912 4424 46 19028 1.6 1 14694 4334 47 19225 1.6 1 14752 4473 48 18638 1.6 1 14368 4270 49 16376 1.6 1 12776 3600 50 15749 1.6 1 12201 3548 51 16226 1.6 1 12554 3672 52 14121 1.6 1 11073 3048 53 14363 1.6 1 11192 3171 54 13893 1.6 1 10791 3102 55 12494 1.6 1 9836 2658 56 13174 1.6 1 10557 2617 57 10726 1.6 1 8370 2356 58 11409 1.6 1 8924 2485 59 13561 1.6 1 10861 2700 60 8338 1.6 1 6403 1935 61 9224 1.6 1 7324 1900 62 10031 1.6 1 8049 1982 63 8022 1.6 1 6346 1676 64 7777 1.6 1 6208 1569 65 13766 1.6 1 11182 2584 66 5545 1.6 1 4256 1289 67 5179 1.6 1 4025 1154 68 5406 1.6 1 4316 1090 69 6987 1.6 1 5552 1435 70 6664 1.6 1 5242 1422 71 5098 1.6 1 4079 1019 72 5670 1.6 1 4518 1152 73 5326 1.6 1 4212 1114 74 4904 1.6 1 3868 1036 75 7205 1.6 1 5721 1484 76 4388 1.6 1 3450 938 77 3049 1.6 1 2375 674 78 1299 1.6 1 1025 274 79 2015 1.6 1 1619 396 80 2346 1.6 1 1904 442 81 2300 1.6 1 1869 431 82 2328 1.6 1 1875 453 83 2070 1.6 1 1652 418 84 1953 1.6 1 1520 433 85 1902 1.6 1 1464 438 86 1785 1.6 1 1396 389 87 1599 1.6 1 1224 375 88 1412 1.6 1 1060 352 89 1275 1.6 1 930 345 90 1288 1.6 1 979 309 91 1155 1.6 1 863 292 92 1018 1.6 1 756 262 93 924 1.6 1 650 274 94 904 1.6 1 631 273 95 762 1.6 1 526 236 96 663 1.6 1 442 221 97 630 1.6 1 420 210 98 575 1.6 1 371 204 99 541 1.6 1 358 183 100 481 1.6 1 311 170 101 487 1.6 1 283 204 102 412 1.6 1 241 171 103 370 1.6 1 233 137 104 322 1.6 1 183 139 105 350 1.6 1 201 149 106 330 1.6 1 192 138 107 328 1.6 1 176 152 108 300 1.6 1 173 127 109 268 1.6 1 156 112 110 244 1.6 1 137 107 111 227 1.6 1 122 105 112 232 1.6 1 131 101 113 218 1.6 1 115 103 114 230 1.6 1 129 101 115 211 1.6 1 115 96 116 204 1.6 1 102 102 117 179 1.6 1 111 68 118 179 1.6 1 94 85 119 161 1.6 1 80 81 120 171 1.6 1 88 83 121 142 1.6 1 89 53 122 150 1.6 1 95 55 123 154 1.6 1 86 68 124 154 1.6 1 92 62 125 120 1.6 1 68 52 126 126 1.6 1 73 53 127 110 1.6 1 68 42 128 105 1.6 1 58 47 129 86 1.6 1 51 35 130 78 1.6 1 53 25 131 62 1.6 1 38 24 132 53 1.6 1 35 18 133 34 1.6 1 25 9 134 33 1.6 1 24 9 135 31 1.6 1 23 8 136 29 1.6 1 19 10 137 12 1.6 1 6 6 138 17 1.6 1 12 5 139 13 1.6 1 7 6 140 9 1.6 1 6 3 141 17 1.6 1 13 4 142 12 1.6 1 1 11 143 6 1.6 1 2 4 144 4 1.6 1 2 2 145 8 1.6 1 1 7 146 6 1.6 1 3 3 147 13 1.6 1 8 5 148 5 1.6 1 2 3 149 4 1.6 1 1 3 150 14 1.6 1 3 11 RUN STATISTICS FOR INPUT FILE: ERR13913489_2.fastq.gz ============================================= 108898335 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 108898335 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 18391 (0.02%)