This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TCGACG -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ggactacnngggtatctaat -e 0.2 -O 20 - Trimming 1 adapter with at most 20.0% errors in single-end mode ... Finished in 78.92 s (26 us/read; 2.29 M reads/minute). === Summary === Total reads processed: 3,009,659 Reads with adapters: 34,326 (1.1%) Reads that were too short: 2,905 (0.1%) Reads written (passing filters): 31,421 (1.0%) Total basepairs processed: 905,907,359 bp Total written (filtered): 6,262,692 bp (0.7%) === Adapter 1 === Sequence: TCGACG; Type: regular 5'; Length: 6; Trimmed: 34326 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 45 734.8 0 45 7 78 734.8 0 78 8 133 734.8 0 133 9 4197 734.8 0 4197 10 22 734.8 0 22 11 12 734.8 0 12 12 17 734.8 0 17 13 13 734.8 0 13 14 17 734.8 0 17 15 16 734.8 0 16 16 23 734.8 0 23 17 8 734.8 0 8 18 12 734.8 0 12 19 24 734.8 0 24 20 14 734.8 0 14 21 11 734.8 0 11 22 21 734.8 0 21 23 13 734.8 0 13 24 7 734.8 0 7 25 19 734.8 0 19 26 18 734.8 0 18 27 12 734.8 0 12 28 16 734.8 0 16 29 19 734.8 0 19 30 23 734.8 0 23 31 16 734.8 0 16 32 13 734.8 0 13 33 27 734.8 0 27 34 15 734.8 0 15 35 14 734.8 0 14 36 15 734.8 0 15 37 9 734.8 0 9 38 14 734.8 0 14 39 13 734.8 0 13 40 15 734.8 0 15 41 17 734.8 0 17 42 18 734.8 0 18 43 15 734.8 0 15 44 9 734.8 0 9 45 21 734.8 0 21 46 23 734.8 0 23 47 15 734.8 0 15 48 24 734.8 0 24 49 14 734.8 0 14 50 21 734.8 0 21 51 16 734.8 0 16 52 20 734.8 0 20 53 16 734.8 0 16 54 18 734.8 0 18 55 20 734.8 0 20 56 14 734.8 0 14 57 13 734.8 0 13 58 20 734.8 0 20 59 16 734.8 0 16 60 18 734.8 0 18 61 25 734.8 0 25 62 14 734.8 0 14 63 17 734.8 0 17 64 10 734.8 0 10 65 19 734.8 0 19 66 167 734.8 0 167 67 34 734.8 0 34 68 30 734.8 0 30 69 19 734.8 0 19 70 16 734.8 0 16 71 7 734.8 0 7 72 10 734.8 0 10 73 8 734.8 0 8 74 16 734.8 0 16 75 21 734.8 0 21 76 13 734.8 0 13 77 18 734.8 0 18 78 8 734.8 0 8 79 18 734.8 0 18 80 11 734.8 0 11 81 5 734.8 0 5 82 26 734.8 0 26 83 14 734.8 0 14 84 13 734.8 0 13 85 21 734.8 0 21 86 20 734.8 0 20 87 13 734.8 0 13 88 12 734.8 0 12 89 17 734.8 0 17 90 9 734.8 0 9 91 34 734.8 0 34 92 33 734.8 0 33 93 22 734.8 0 22 94 24 734.8 0 24 95 23 734.8 0 23 96 6 734.8 0 6 97 35 734.8 0 35 98 39 734.8 0 39 99 22 734.8 0 22 100 20 734.8 0 20 101 29 734.8 0 29 102 26 734.8 0 26 103 41 734.8 0 41 104 104 734.8 0 104 105 35 734.8 0 35 106 57 734.8 0 57 107 69 734.8 0 69 108 52 734.8 0 52 109 45 734.8 0 45 110 76 734.8 0 76 111 247 734.8 0 247 112 328 734.8 0 328 113 138 734.8 0 138 114 155 734.8 0 155 115 247 734.8 0 247 116 505 734.8 0 505 117 12871 734.8 0 12871 118 6881 734.8 0 6881 119 881 734.8 0 881 120 17 734.8 0 17 121 18 734.8 0 18 122 13 734.8 0 13 123 17 734.8 0 17 124 18 734.8 0 18 125 15 734.8 0 15 126 28 734.8 0 28 127 22 734.8 0 22 128 26 734.8 0 26 129 16 734.8 0 16 130 8 734.8 0 8 131 17 734.8 0 17 132 18 734.8 0 18 133 25 734.8 0 25 134 11 734.8 0 11 135 14 734.8 0 14 136 20 734.8 0 20 137 23 734.8 0 23 138 23 734.8 0 23 139 26 734.8 0 26 140 19 734.8 0 19 141 14 734.8 0 14 142 17 734.8 0 17 143 17 734.8 0 17 144 29 734.8 0 29 145 19 734.8 0 19 146 27 734.8 0 27 147 25 734.8 0 25 148 24 734.8 0 24 149 21 734.8 0 21 150 22 734.8 0 22 151 416 734.8 0 416 152 216 734.8 0 216 153 67 734.8 0 67 154 31 734.8 0 31 155 48 734.8 0 48 156 18 734.8 0 18 157 22 734.8 0 22 158 10 734.8 0 10 159 16 734.8 0 16 160 16 734.8 0 16 161 21 734.8 0 21 162 53 734.8 0 53 163 29 734.8 0 29 164 19 734.8 0 19 165 15 734.8 0 15 166 17 734.8 0 17 167 9 734.8 0 9 168 17 734.8 0 17 169 24 734.8 0 24 170 22 734.8 0 22 171 18 734.8 0 18 172 15 734.8 0 15 173 18 734.8 0 18 174 10 734.8 0 10 175 12 734.8 0 12 176 13 734.8 0 13 177 21 734.8 0 21 178 19 734.8 0 19 179 25 734.8 0 25 180 164 734.8 0 164 181 57 734.8 0 57 182 35 734.8 0 35 183 17 734.8 0 17 184 43 734.8 0 43 185 32 734.8 0 32 186 5 734.8 0 5 187 11 734.8 0 11 188 7 734.8 0 7 189 9 734.8 0 9 190 25 734.8 0 25 191 23 734.8 0 23 192 22 734.8 0 22 193 12 734.8 0 12 194 11 734.8 0 11 195 20 734.8 0 20 196 19 734.8 0 19 197 17 734.8 0 17 198 10 734.8 0 10 199 19 734.8 0 19 200 27 734.8 0 27 201 25 734.8 0 25 202 11 734.8 0 11 203 8 734.8 0 8 204 16 734.8 0 16 205 12 734.8 0 12 206 11 734.8 0 11 207 15 734.8 0 15 208 24 734.8 0 24 209 15 734.8 0 15 210 20 734.8 0 20 211 24 734.8 0 24 212 23 734.8 0 23 213 23 734.8 0 23 214 26 734.8 0 26 215 21 734.8 0 21 216 24 734.8 0 24 217 40 734.8 0 40 218 126 734.8 0 126 219 171 734.8 0 171 220 62 734.8 0 62 221 25 734.8 0 25 222 12 734.8 0 12 223 19 734.8 0 19 224 27 734.8 0 27 225 26 734.8 0 26 226 32 734.8 0 32 227 24 734.8 0 24 228 21 734.8 0 21 229 52 734.8 0 52 230 31 734.8 0 31 231 62 734.8 0 62 232 67 734.8 0 67 233 87 734.8 0 87 234 69 734.8 0 69 235 49 734.8 0 49 236 48 734.8 0 48 237 59 734.8 0 59 238 29 734.8 0 29 239 36 734.8 0 36 240 10 734.8 0 10 241 11 734.8 0 11 242 16 734.8 0 16 243 13 734.8 0 13 244 19 734.8 0 19 245 36 734.8 0 36 246 29 734.8 0 29 247 24 734.8 0 24 248 47 734.8 0 47 249 55 734.8 0 55 250 45 734.8 0 45 251 24 734.8 0 24 252 16 734.8 0 16 253 26 734.8 0 26 254 70 734.8 0 70 255 55 734.8 0 55 256 29 734.8 0 29 257 19 734.8 0 19 258 11 734.8 0 11 259 25 734.8 0 25 260 12 734.8 0 12 261 14 734.8 0 14 262 13 734.8 0 13 263 21 734.8 0 21 264 21 734.8 0 21 265 27 734.8 0 27 266 19 734.8 0 19 267 15 734.8 0 15 268 14 734.8 0 14 269 15 734.8 0 15 270 20 734.8 0 20 271 14 734.8 0 14 272 34 734.8 0 34 273 28 734.8 0 28 274 15 734.8 0 15 275 25 734.8 0 25 276 19 734.8 0 19 277 22 734.8 0 22 278 19 734.8 0 19 279 23 734.8 0 23 280 19 734.8 0 19 281 35 734.8 0 35 282 28 734.8 0 28 283 30 734.8 0 30 284 24 734.8 0 24 285 26 734.8 0 26 286 34 734.8 0 34 287 19 734.8 0 19 288 27 734.8 0 27 289 37 734.8 0 37 290 23 734.8 0 23 291 31 734.8 0 31 292 10 734.8 0 10 293 31 734.8 0 31 294 15 734.8 0 15 295 14 734.8 0 14 296 17 734.8 0 17 297 24 734.8 0 24 298 9 734.8 0 9 299 11 734.8 0 11 300 16 734.8 0 16 301 8 734.8 0 8 Finished in 1.35 s (43 us/read; 1.40 M reads/minute). === Summary === Total reads processed: 31,421 Reads with adapters: 4,343 (13.8%) Reads that were too short: 3 (0.0%) Reads written (passing filters): 4,340 (13.8%) Total basepairs processed: 6,262,692 bp Total written (filtered): 1,180,388 bp (18.8%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 4343 times. No. of allowed errors: 0-4 bp: 0; 5-9 bp: 1; 10-14 bp: 2; 15-19 bp: 3; 20 bp: 4 Overview of removed sequences length count expect max.err error counts 17 1 0.0 3 0 0 0 0 1 18 3 0.0 3 0 0 3 19 54 0.0 3 0 54 20 4258 0.0 4 4213 45 21 15 0.0 4 3 10 0 0 2 22 1 0.0 4 1 23 1 0.0 4 0 0 0 1 47 2 0.0 4 1 0 0 0 1 48 3 0.0 4 3 49 1 0.0 4 1 51 1 0.0 4 0 1 64 1 0.0 4 0 0 0 0 1 87 1 0.0 4 0 0 0 0 1 174 1 0.0 4 0 0 0 0 1 This is cutadapt 1.11 with Python 2.7.12 Command line parameters: -a CTGSTGCVYCCCRTAGG - Trimming 1 adapter with at most 10.0% errors in single-end mode ... Finished in 0.15 s (35 us/read; 1.74 M reads/minute). === Summary === Total reads processed: 4,340 Reads with adapters: 248 (5.7%) Reads written (passing filters): 4,340 (100.0%) Total basepairs processed: 1,180,388 bp Total written (filtered): 1,145,035 bp (97.0%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 248 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 54.8% C: 2.4% G: 41.5% T: 1.2% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 4 1 17.0 0 1 9 11 0.0 0 0 11 10 82 0.0 1 1 81 11 16 0.0 1 0 16 211 1 0.0 1 1 223 1 0.0 1 0 1 228 36 0.0 1 35 1 229 3 0.0 1 3 230 1 0.0 1 1 256 1 0.0 1 1 257 86 0.0 1 76 10 258 4 0.0 1 4 259 3 0.0 1 3 260 1 0.0 1 1 268 1 0.0 1 1