SUMMARISING RUN PARAMETERS ========================== Input filename: ERR12308522_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: 44462). 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 ERR12308522_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 1650.379 s (19.625 µs/read; 3.06 M reads/minute). === Summary === Total reads processed: 84,093,597 Reads with adapters: 35,937,478 (42.7%) Reads written (passing filters): 84,093,597 (100.0%) Total basepairs processed: 12,698,133,147 bp Quality-trimmed: 39,164,381 bp (0.3%) Total written (filtered): 12,468,231,645 bp (98.2%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 35937478 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 37.2% C: 1.6% G: 15.6% T: 45.5% none/other: 0.1% Overview of removed sequences length count expect max.err error counts 1 24127702 21023399.2 0 24127702 2 4129308 5255849.8 0 4129308 3 1756192 1313962.5 0 1756192 4 727035 328490.6 0 727035 5 189602 82122.7 0 189602 6 159857 20530.7 0 159857 7 155838 5132.7 0 155838 8 172471 1283.2 0 172471 9 133879 320.8 0 132581 1298 10 154149 80.2 1 138303 15846 11 155966 20.0 1 137484 18482 12 159555 5.0 1 142139 17416 13 139995 1.3 1 126308 13687 14 136601 1.3 1 120665 15936 15 143080 1.3 1 128825 14255 16 126670 1.3 1 111755 14915 17 143401 1.3 1 125123 18278 18 160548 1.3 1 146596 13952 19 72835 1.3 1 66502 6333 20 117634 1.3 1 106714 10920 21 117680 1.3 1 106977 10703 22 102338 1.3 1 92841 9497 23 118332 1.3 1 107498 10834 24 95626 1.3 1 84150 11476 25 107513 1.3 1 98992 8521 26 78687 1.3 1 72732 5955 27 97400 1.3 1 88752 8648 28 90038 1.3 1 82932 7106 29 89004 1.3 1 80164 8840 30 103769 1.3 1 96206 7563 31 51977 1.3 1 48211 3766 32 79777 1.3 1 73692 6085 33 70493 1.3 1 64821 5672 34 76221 1.3 1 69212 7009 35 82369 1.3 1 75691 6678 36 49523 1.3 1 46361 3162 37 66272 1.3 1 61280 4992 38 67486 1.3 1 61560 5926 39 56326 1.3 1 52760 3566 40 64009 1.3 1 59215 4794 41 48305 1.3 1 43431 4874 42 50296 1.3 1 47170 3126 43 67515 1.3 1 61579 5936 44 35184 1.3 1 32196 2988 45 67553 1.3 1 63909 3644 46 20560 1.3 1 18826 1734 47 41679 1.3 1 39004 2675 48 51005 1.3 1 47652 3353 49 30311 1.3 1 28519 1792 50 38131 1.3 1 35208 2923 51 38371 1.3 1 35422 2949 52 33863 1.3 1 31727 2136 53 32496 1.3 1 30609 1887 54 33613 1.3 1 31043 2570 55 42426 1.3 1 39885 2541 56 17560 1.3 1 16391 1169 57 33838 1.3 1 31788 2050 58 35758 1.3 1 34037 1721 59 13087 1.3 1 12046 1041 60 27101 1.3 1 26009 1092 61 16394 1.3 1 15414 980 62 23695 1.3 1 22161 1534 63 26581 1.3 1 25347 1234 64 20570 1.3 1 19652 918 65 10931 1.3 1 10147 784 66 20503 1.3 1 19337 1166 67 21231 1.3 1 20136 1095 68 22107 1.3 1 20996 1111 69 17669 1.3 1 16590 1079 70 29551 1.3 1 28081 1470 71 2573 1.3 1 2309 264 72 3132 1.3 1 2880 252 73 7972 1.3 1 7524 448 74 10460 1.3 1 9923 537 75 10852 1.3 1 10305 547 76 10570 1.3 1 9999 571 77 10270 1.3 1 9707 563 78 10010 1.3 1 9444 566 79 9300 1.3 1 8744 556 80 9091 1.3 1 8617 474 81 8559 1.3 1 8104 455 82 7985 1.3 1 7557 428 83 7624 1.3 1 7175 449 84 7118 1.3 1 6761 357 85 6667 1.3 1 6320 347 86 6301 1.3 1 5964 337 87 6188 1.3 1 5825 363 88 5670 1.3 1 5365 305 89 5278 1.3 1 5007 271 90 5128 1.3 1 4838 290 91 4785 1.3 1 4529 256 92 4534 1.3 1 4305 229 93 4373 1.3 1 4148 225 94 4044 1.3 1 3842 202 95 3821 1.3 1 3597 224 96 3532 1.3 1 3325 207 97 3366 1.3 1 3195 171 98 3351 1.3 1 3181 170 99 2904 1.3 1 2710 194 100 2887 1.3 1 2698 189 101 2604 1.3 1 2459 145 102 2482 1.3 1 2336 146 103 2250 1.3 1 2096 154 104 2192 1.3 1 2033 159 105 2015 1.3 1 1885 130 106 1848 1.3 1 1730 118 107 1708 1.3 1 1599 109 108 1578 1.3 1 1457 121 109 1409 1.3 1 1320 89 110 1289 1.3 1 1209 80 111 1164 1.3 1 1097 67 112 1077 1.3 1 1012 65 113 929 1.3 1 854 75 114 819 1.3 1 764 55 115 765 1.3 1 710 55 116 671 1.3 1 610 61 117 609 1.3 1 560 49 118 498 1.3 1 448 50 119 449 1.3 1 407 42 120 445 1.3 1 409 36 121 395 1.3 1 349 46 122 328 1.3 1 290 38 123 244 1.3 1 185 59 124 244 1.3 1 204 40 125 228 1.3 1 186 42 126 175 1.3 1 144 31 127 148 1.3 1 116 32 128 128 1.3 1 83 45 129 120 1.3 1 93 27 130 122 1.3 1 97 25 131 130 1.3 1 99 31 132 108 1.3 1 76 32 133 122 1.3 1 89 33 134 99 1.3 1 65 34 135 87 1.3 1 67 20 136 90 1.3 1 63 27 137 71 1.3 1 48 23 138 62 1.3 1 37 25 139 84 1.3 1 55 29 140 72 1.3 1 47 25 141 71 1.3 1 37 34 142 55 1.3 1 33 22 143 57 1.3 1 31 26 144 57 1.3 1 24 33 145 62 1.3 1 36 26 146 78 1.3 1 30 48 147 77 1.3 1 41 36 148 73 1.3 1 32 41 149 79 1.3 1 55 24 150 119 1.3 1 26 93 151 23505 1.3 1 65 23440 RUN STATISTICS FOR INPUT FILE: ERR12308522_2.fastq.gz ============================================= 84093597 sequences processed in total