SUMMARISING RUN PARAMETERS ========================== Input filename: SRR18245597_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: 248121). 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 1 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC SRR18245597_2.fastq.gz Processing single-end reads on 1 core ... Finished in 6617.962 s (70.351 µs/read; 0.85 M reads/minute). === Summary === Total reads processed: 94,070,392 Reads with adapters: 59,702,125 (63.5%) Reads written (passing filters): 94,070,392 (100.0%) Total basepairs processed: 14,110,558,800 bp Quality-trimmed: 63,531,322 bp (0.5%) Total written (filtered): 12,145,507,974 bp (86.1%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 59702125 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 43.9% C: 18.0% G: 1.2% T: 33.5% none/other: 3.5% Overview of removed sequences length count expect max.err error counts 1 32876896 23517598.0 0 32876896 2 389152 5879399.5 0 389152 3 377410 1469849.9 0 377410 4 341427 367462.5 0 341427 5 337614 91865.6 0 337614 6 284343 22966.4 0 284343 7 294524 5741.6 0 294524 8 320141 1435.4 0 320141 9 247999 358.9 0 246948 1051 10 298813 89.7 1 274616 24197 11 296362 22.4 1 265727 30635 12 299103 5.6 1 270731 28372 13 276398 1.4 1 252375 24023 14 289994 1.4 1 262312 27682 15 263038 1.4 1 240303 22735 16 274415 1.4 1 248524 25891 17 293491 1.4 1 268804 24687 18 225888 1.4 1 207018 18870 19 276307 1.4 1 252693 23614 20 271802 1.4 1 249680 22122 21 226950 1.4 1 204672 22278 22 241276 1.4 1 222044 19232 23 234319 1.4 1 216977 17342 24 270108 1.4 1 247928 22180 25 272019 1.4 1 252439 19580 26 184754 1.4 1 168427 16327 27 206797 1.4 1 187861 18936 28 225187 1.4 1 210181 15006 29 214859 1.4 1 196003 18856 30 219356 1.4 1 202858 16498 31 200697 1.4 1 185959 14738 32 204139 1.4 1 190299 13840 33 229714 1.4 1 212794 16920 34 192805 1.4 1 173931 18874 35 193942 1.4 1 178985 14957 36 202181 1.4 1 189569 12612 37 183019 1.4 1 169864 13155 38 183787 1.4 1 170755 13032 39 195792 1.4 1 182023 13769 40 167761 1.4 1 156046 11715 41 177171 1.4 1 166078 11093 42 241911 1.4 1 228290 13621 43 126127 1.4 1 114777 11350 44 313549 1.4 1 298441 15108 45 217066 1.4 1 202633 14433 46 143430 1.4 1 127470 15960 47 340665 1.4 1 329835 10830 48 56619 1.4 1 48756 7863 49 163915 1.4 1 152485 11430 50 60760 1.4 1 56042 4718 51 104224 1.4 1 95947 8277 52 70307 1.4 1 64295 6012 53 142998 1.4 1 135549 7449 54 234023 1.4 1 224956 9067 55 65321 1.4 1 58710 6611 56 159119 1.4 1 145733 13386 57 634950 1.4 1 618900 16050 58 97924 1.4 1 89525 8399 59 50801 1.4 1 44059 6742 60 357038 1.4 1 345831 11207 61 56659 1.4 1 52306 4353 62 47184 1.4 1 41008 6176 63 311440 1.4 1 298399 13041 64 431416 1.4 1 421720 9696 65 42491 1.4 1 38047 4444 66 87469 1.4 1 82526 4943 67 52066 1.4 1 49386 2680 68 37512 1.4 1 33815 3697 69 58563 1.4 1 54940 3623 70 92078 1.4 1 87865 4213 71 39763 1.4 1 36789 2974 72 38082 1.4 1 35044 3038 73 51065 1.4 1 47263 3802 74 64071 1.4 1 58805 5266 75 115598 1.4 1 106650 8948 76 163137 1.4 1 153316 9821 77 109484 1.4 1 102223 7261 78 111224 1.4 1 105466 5758 79 111789 1.4 1 106247 5542 80 114277 1.4 1 108847 5430 81 116575 1.4 1 111083 5492 82 122679 1.4 1 116074 6605 83 145837 1.4 1 138766 7071 84 137081 1.4 1 129722 7359 85 152139 1.4 1 144979 7160 86 133185 1.4 1 126657 6528 87 121273 1.4 1 114788 6485 88 117543 1.4 1 111121 6422 89 114306 1.4 1 109332 4974 90 114502 1.4 1 110097 4405 91 112289 1.4 1 108207 4082 92 113443 1.4 1 109308 4135 93 114078 1.4 1 109892 4186 94 112969 1.4 1 108687 4282 95 114156 1.4 1 109938 4218 96 114245 1.4 1 110114 4131 97 116442 1.4 1 112238 4204 98 121864 1.4 1 117725 4139 99 127325 1.4 1 123148 4177 100 129665 1.4 1 125605 4060 101 121788 1.4 1 117866 3922 102 118110 1.4 1 114204 3906 103 116145 1.4 1 112413 3732 104 115849 1.4 1 112071 3778 105 119477 1.4 1 115749 3728 106 121935 1.4 1 118096 3839 107 122815 1.4 1 119057 3758 108 124242 1.4 1 120557 3685 109 122708 1.4 1 118918 3790 110 123189 1.4 1 119349 3840 111 126847 1.4 1 122946 3901 112 129349 1.4 1 125487 3862 113 130344 1.4 1 126516 3828 114 128006 1.4 1 124046 3960 115 128090 1.4 1 124010 4080 116 131551 1.4 1 127491 4060 117 134228 1.4 1 129876 4352 118 141404 1.4 1 136924 4480 119 143314 1.4 1 138504 4810 120 144566 1.4 1 139403 5163 121 145233 1.4 1 139940 5293 122 143303 1.4 1 137728 5575 123 156087 1.4 1 149285 6802 124 148148 1.4 1 141422 6726 125 150869 1.4 1 142826 8043 126 143652 1.4 1 134531 9121 127 138802 1.4 1 127360 11442 128 141560 1.4 1 125968 15592 129 150838 1.4 1 125732 25106 130 151530 1.4 1 113520 38010 131 172445 1.4 1 111428 61017 132 192369 1.4 1 105734 86635 133 206936 1.4 1 101252 105684 134 199052 1.4 1 89622 109430 135 195544 1.4 1 81735 113809 136 177104 1.4 1 70246 106858 137 148262 1.4 1 68217 80045 138 128910 1.4 1 72204 56706 139 110208 1.4 1 68056 42152 140 101919 1.4 1 69383 32536 141 107313 1.4 1 85586 21727 142 81772 1.4 1 68681 13091 143 90514 1.4 1 77160 13354 144 111785 1.4 1 94486 17299 145 136594 1.4 1 114343 22251 146 75805 1.4 1 60430 15375 147 18184 1.4 1 12816 5368 148 225325 1.4 1 195862 29463 149 91264 1.4 1 76058 15206 150 1987380 1.4 1 1771818 215562 RUN STATISTICS FOR INPUT FILE: SRR18245597_2.fastq.gz ============================================= 94070392 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 94070392 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 5077973 (5.40%)