SUMMARISING RUN PARAMETERS ========================== Input filename: ERR3932951_2.fastq Trimming mode: paired-end Trim Galore version: 0.6.4_dev Cutadapt version: 3.5 Number of cores used for trimming: 1 Quality Phred score cutoff: 20 Quality encoding type selected: ASCII+33 Using Nextera adapter for trimming (count: 63). Second best hit was smallRNA (count: 0) Adapter sequence: 'CTGTCTCTTATA' (Nextera Transposase sequence; 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: 100 bp This is cutadapt 3.5 with Python 3.10.12 Command line parameters: -j 1 -e 0.1 -q 20 -O 1 -a CTGTCTCTTATA ERR3932951_2.fastq Processing reads on 1 core in single-end mode ... Finished in 2.56 s (13 µs/read; 4.75 M reads/minute). === Summary === Total reads processed: 202,812 Reads with adapters: 41,807 (20.6%) Reads written (passing filters): 202,812 (100.0%) Total basepairs processed: 46,822,875 bp Quality-trimmed: 1,048,201 bp (2.2%) Total written (filtered): 45,680,517 bp (97.6%) === Adapter 1 === Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 41807 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-12 bp: 1 Bases preceding removed adapters: A: 34.7% C: 19.2% G: 16.0% T: 30.1% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 33522 50703.0 0 33522 2 5598 12675.8 0 5598 3 1408 3168.9 0 1408 4 321 792.2 0 321 5 91 198.1 0 91 6 26 49.5 0 26 7 8 12.4 0 8 8 11 3.1 0 11 9 19 0.8 0 16 3 10 17 0.2 1 7 10 11 34 0.0 1 12 22 12 23 0.0 1 6 17 13 20 0.0 1 9 11 14 13 0.0 1 3 10 15 16 0.0 1 5 11 16 12 0.0 1 2 10 17 26 0.0 1 9 17 18 14 0.0 1 4 10 19 13 0.0 1 1 12 20 16 0.0 1 7 9 21 18 0.0 1 3 15 22 24 0.0 1 5 19 23 24 0.0 1 12 12 24 18 0.0 1 4 14 25 19 0.0 1 3 16 26 16 0.0 1 3 13 27 9 0.0 1 4 5 28 12 0.0 1 3 9 29 27 0.0 1 7 20 30 19 0.0 1 5 14 31 21 0.0 1 1 20 32 16 0.0 1 1 15 33 8 0.0 1 2 6 34 12 0.0 1 1 11 35 5 0.0 1 1 4 36 10 0.0 1 2 8 37 6 0.0 1 2 4 38 14 0.0 1 4 10 39 12 0.0 1 5 7 40 11 0.0 1 6 5 41 7 0.0 1 4 3 42 9 0.0 1 4 5 43 6 0.0 1 3 3 44 7 0.0 1 4 3 45 7 0.0 1 1 6 46 5 0.0 1 2 3 47 3 0.0 1 0 3 48 5 0.0 1 0 5 49 6 0.0 1 1 5 50 6 0.0 1 2 4 51 6 0.0 1 0 6 52 4 0.0 1 0 4 53 6 0.0 1 2 4 54 2 0.0 1 0 2 55 2 0.0 1 0 2 56 6 0.0 1 2 4 57 3 0.0 1 1 2 58 1 0.0 1 0 1 59 2 0.0 1 0 2 60 3 0.0 1 2 1 61 3 0.0 1 0 3 65 2 0.0 1 0 2 66 1 0.0 1 1 67 4 0.0 1 0 4 68 1 0.0 1 0 1 69 1 0.0 1 1 70 2 0.0 1 0 2 72 1 0.0 1 1 73 3 0.0 1 1 2 74 2 0.0 1 1 1 75 4 0.0 1 1 3 76 3 0.0 1 1 2 77 2 0.0 1 0 2 78 2 0.0 1 0 2 79 3 0.0 1 0 3 80 3 0.0 1 0 3 81 4 0.0 1 2 2 82 4 0.0 1 1 3 83 3 0.0 1 2 1 84 1 0.0 1 0 1 85 3 0.0 1 0 3 86 1 0.0 1 0 1 87 2 0.0 1 0 2 88 3 0.0 1 1 2 89 2 0.0 1 0 2 90 3 0.0 1 2 1 91 1 0.0 1 1 92 2 0.0 1 0 2 93 2 0.0 1 0 2 94 1 0.0 1 0 1 95 4 0.0 1 1 3 96 3 0.0 1 1 2 97 2 0.0 1 0 2 100 1 0.0 1 0 1 101 1 0.0 1 0 1 102 2 0.0 1 0 2 103 1 0.0 1 1 104 1 0.0 1 0 1 105 1 0.0 1 0 1 106 1 0.0 1 0 1 109 1 0.0 1 0 1 110 1 0.0 1 0 1 113 1 0.0 1 0 1 115 3 0.0 1 0 3 116 2 0.0 1 1 1 117 1 0.0 1 0 1 119 1 0.0 1 0 1 120 4 0.0 1 0 4 121 2 0.0 1 0 2 122 1 0.0 1 1 124 2 0.0 1 0 2 126 1 0.0 1 0 1 127 2 0.0 1 0 2 128 2 0.0 1 0 2 131 2 0.0 1 0 2 132 1 0.0 1 0 1 133 2 0.0 1 0 2 137 1 0.0 1 0 1 139 3 0.0 1 0 3 140 2 0.0 1 0 2 141 1 0.0 1 0 1 142 1 0.0 1 0 1 144 1 0.0 1 0 1 147 1 0.0 1 0 1 152 1 0.0 1 0 1 153 3 0.0 1 0 3 154 1 0.0 1 0 1 155 1 0.0 1 0 1 156 3 0.0 1 1 2 158 3 0.0 1 0 3 159 1 0.0 1 0 1 160 1 0.0 1 0 1 161 1 0.0 1 0 1 162 1 0.0 1 1 164 4 0.0 1 1 3 169 1 0.0 1 0 1 171 4 0.0 1 0 4 172 1 0.0 1 0 1 173 2 0.0 1 0 2 174 2 0.0 1 0 2 176 1 0.0 1 0 1 177 2 0.0 1 1 1 178 1 0.0 1 0 1 180 2 0.0 1 0 2 181 1 0.0 1 0 1 182 1 0.0 1 0 1 183 1 0.0 1 0 1 184 3 0.0 1 0 3 188 2 0.0 1 0 2 194 1 0.0 1 0 1 196 1 0.0 1 0 1 197 2 0.0 1 0 2 198 2 0.0 1 0 2 199 2 0.0 1 0 2 200 1 0.0 1 0 1 205 1 0.0 1 0 1 207 1 0.0 1 0 1 208 2 0.0 1 0 2 209 2 0.0 1 0 2 212 1 0.0 1 0 1 213 2 0.0 1 0 2 217 3 0.0 1 1 2 223 1 0.0 1 0 1 227 2 0.0 1 0 2 232 1 0.0 1 0 1 233 1 0.0 1 0 1 235 1 0.0 1 0 1 236 1 0.0 1 0 1 241 1 0.0 1 0 1 243 2 0.0 1 0 2 247 1 0.0 1 0 1 249 1 0.0 1 0 1 RUN STATISTICS FOR INPUT FILE: ERR3932951_2.fastq ============================================= 202812 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 202812 Number of sequence pairs removed because at least one read was shorter than the length cutoff (100 bp): 10767 (5.31%)