SUMMARISING RUN PARAMETERS ========================== Input filename: SRR18245593_2.fastq.gz Trimming mode: paired-end Trim Galore version: 0.6.10 Cutadapt version: 4.2 Number of cores used for trimming: 1 Quality Phred score cutoff: 20 Quality encoding type selected: ASCII+33 Using Illumina adapter for trimming (count: 265304). 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 1 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC SRR18245593_2.fastq.gz Processing single-end reads on 1 core ... Finished in 4544.406 s (45.007 µs/read; 1.33 M reads/minute). === Summary === Total reads processed: 100,971,775 Reads with adapters: 64,942,243 (64.3%) Reads written (passing filters): 100,971,775 (100.0%) Total basepairs processed: 15,145,766,250 bp Quality-trimmed: 63,130,929 bp (0.4%) Total written (filtered): 12,989,816,112 bp (85.8%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 64942243 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 44.2% C: 17.5% G: 1.1% T: 34.5% none/other: 2.8% Overview of removed sequences length count expect max.err error counts 1 35149237 25242943.8 0 35149237 2 395242 6310735.9 0 395242 3 395431 1577684.0 0 395431 4 381967 394421.0 0 381967 5 358425 98605.2 0 358425 6 318533 24651.3 0 318533 7 337364 6162.8 0 337364 8 367389 1540.7 0 367389 9 265029 385.2 0 263628 1401 10 341315 96.3 1 316951 24364 11 308485 24.1 1 282391 26094 12 332868 6.0 1 303082 29786 13 303290 1.5 1 278588 24702 14 333794 1.5 1 304527 29267 15 290445 1.5 1 267039 23406 16 296484 1.5 1 273895 22589 17 358706 1.5 1 331359 27347 18 227631 1.5 1 208242 19389 19 373051 1.5 1 344014 29037 20 256019 1.5 1 236004 20015 21 228921 1.5 1 210316 18605 22 271868 1.5 1 251925 19943 23 266766 1.5 1 247521 19245 24 343659 1.5 1 316532 27127 25 296927 1.5 1 277875 19052 26 208159 1.5 1 192960 15199 27 203191 1.5 1 187036 16155 28 266144 1.5 1 249433 16711 29 220142 1.5 1 204776 15366 30 257605 1.5 1 241500 16105 31 213918 1.5 1 199842 14076 32 234863 1.5 1 219627 15236 33 242946 1.5 1 226074 16872 34 294238 1.5 1 273050 21188 35 222577 1.5 1 208257 14320 36 186875 1.5 1 171131 15744 37 316487 1.5 1 301674 14813 38 162696 1.5 1 151550 11146 39 240285 1.5 1 225681 14604 40 270311 1.5 1 253036 17275 41 104341 1.5 1 92318 12023 42 241021 1.5 1 229248 11773 43 195532 1.5 1 173968 21564 44 783065 1.5 1 756287 26778 45 228520 1.5 1 215503 13017 46 66550 1.5 1 58564 7986 47 232705 1.5 1 224641 8064 48 69110 1.5 1 63641 5469 49 100649 1.5 1 94017 6632 50 65518 1.5 1 61558 3960 51 81138 1.5 1 75905 5233 52 50380 1.5 1 46446 3934 53 140585 1.5 1 133692 6893 54 214846 1.5 1 207437 7409 55 93880 1.5 1 88193 5687 56 153415 1.5 1 144799 8616 57 298660 1.5 1 289852 8808 58 122237 1.5 1 115721 6516 59 113472 1.5 1 107068 6404 60 244149 1.5 1 236118 8031 61 158948 1.5 1 153349 5599 62 84341 1.5 1 78222 6119 63 274326 1.5 1 263046 11280 64 458392 1.5 1 447524 10868 65 201065 1.5 1 193829 7236 66 181923 1.5 1 175145 6778 67 201126 1.5 1 196225 4901 68 67332 1.5 1 63566 3766 69 95163 1.5 1 91042 4121 70 127790 1.5 1 124042 3748 71 56691 1.5 1 54378 2313 72 34497 1.5 1 32743 1754 73 34323 1.5 1 32576 1747 74 39566 1.5 1 37609 1957 75 50095 1.5 1 47250 2845 76 75711 1.5 1 72276 3435 77 81172 1.5 1 77098 4074 78 104200 1.5 1 99998 4202 79 116822 1.5 1 112242 4580 80 123349 1.5 1 118647 4702 81 128996 1.5 1 124047 4949 82 134850 1.5 1 128716 6134 83 154968 1.5 1 148695 6273 84 152904 1.5 1 145833 7071 85 171550 1.5 1 164826 6724 86 151739 1.5 1 145977 5762 87 141800 1.5 1 136444 5356 88 138112 1.5 1 133027 5085 89 135940 1.5 1 131010 4930 90 137164 1.5 1 132354 4810 91 135487 1.5 1 130749 4738 92 137061 1.5 1 132393 4668 93 138881 1.5 1 134231 4650 94 137759 1.5 1 133137 4622 95 140240 1.5 1 135521 4719 96 140960 1.5 1 136377 4583 97 143737 1.5 1 138945 4792 98 150517 1.5 1 145833 4684 99 155722 1.5 1 150952 4770 100 158961 1.5 1 154451 4510 101 152499 1.5 1 147836 4663 102 150621 1.5 1 146009 4612 103 149896 1.5 1 145364 4532 104 149272 1.5 1 144710 4562 105 154503 1.5 1 150014 4489 106 156473 1.5 1 151768 4705 107 159748 1.5 1 154943 4805 108 162081 1.5 1 157376 4705 109 160407 1.5 1 155633 4774 110 162632 1.5 1 157610 5022 111 163465 1.5 1 158429 5036 112 165190 1.5 1 160195 4995 113 169940 1.5 1 165137 4803 114 174655 1.5 1 169724 4931 115 175585 1.5 1 170544 5041 116 183696 1.5 1 178437 5259 117 181905 1.5 1 176585 5320 118 181502 1.5 1 176022 5480 119 184037 1.5 1 178274 5763 120 184913 1.5 1 178620 6293 121 186551 1.5 1 180334 6217 122 183193 1.5 1 176610 6583 123 196600 1.5 1 189116 7484 124 187411 1.5 1 179669 7742 125 185643 1.5 1 176456 9187 126 178006 1.5 1 167595 10411 127 171228 1.5 1 158875 12353 128 172452 1.5 1 155175 17277 129 179265 1.5 1 152890 26375 130 176081 1.5 1 136441 39640 131 195138 1.5 1 131427 63711 132 209877 1.5 1 121239 88638 133 221197 1.5 1 112247 108950 134 210975 1.5 1 98902 112073 135 200759 1.5 1 86931 113828 136 180974 1.5 1 73788 107186 137 149180 1.5 1 70391 78789 138 127646 1.5 1 72552 55094 139 108743 1.5 1 68183 40560 140 99980 1.5 1 68345 31635 141 105676 1.5 1 83269 22407 142 82106 1.5 1 67749 14357 143 88135 1.5 1 73209 14926 144 116516 1.5 1 95959 20557 145 149350 1.5 1 120970 28380 146 84365 1.5 1 65162 19203 147 14688 1.5 1 9694 4994 148 229150 1.5 1 193065 36085 149 77494 1.5 1 61822 15672 150 1757608 1.5 1 1491777 265831 RUN STATISTICS FOR INPUT FILE: SRR18245593_2.fastq.gz ============================================= 100971775 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 100971775 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 4838821 (4.79%)