This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GTGATC -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 140.57 s (48 us/read; 1.26 M reads/minute). === Summary === Total reads processed: 2,949,860 Reads with adapters: 43,056 (1.5%) Reads that were too short: 2,843 (0.1%) Reads written (passing filters): 40,213 (1.4%) Total basepairs processed: 887,907,860 bp Total written (filtered): 11,122,889 bp (1.3%) === Adapter 1 === Sequence: GTGATC; Type: regular 5'; Length: 6; Trimmed: 43056 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 222 720.2 0 222 7 316 720.2 0 316 8 13152 720.2 0 13152 9 20344 720.2 0 20344 10 56 720.2 0 56 11 5 720.2 0 5 12 1 720.2 0 1 13 2 720.2 0 2 14 1 720.2 0 1 15 1 720.2 0 1 16 1 720.2 0 1 17 1 720.2 0 1 18 2 720.2 0 2 19 1 720.2 0 1 20 1 720.2 0 1 22 2 720.2 0 2 23 2 720.2 0 2 24 1 720.2 0 1 25 1 720.2 0 1 26 5 720.2 0 5 29 4 720.2 0 4 30 5 720.2 0 5 31 7 720.2 0 7 32 1 720.2 0 1 33 7 720.2 0 7 34 4 720.2 0 4 35 9 720.2 0 9 36 6 720.2 0 6 37 8 720.2 0 8 38 19 720.2 0 19 39 6 720.2 0 6 40 19 720.2 0 19 41 1 720.2 0 1 42 3 720.2 0 3 43 1 720.2 0 1 44 4 720.2 0 4 45 5 720.2 0 5 46 3 720.2 0 3 47 2 720.2 0 2 48 1 720.2 0 1 50 4 720.2 0 4 51 6 720.2 0 6 52 2 720.2 0 2 53 5 720.2 0 5 54 4 720.2 0 4 55 7 720.2 0 7 56 4 720.2 0 4 57 8 720.2 0 8 58 48 720.2 0 48 59 38 720.2 0 38 60 21 720.2 0 21 61 2 720.2 0 2 62 7 720.2 0 7 63 8 720.2 0 8 64 3 720.2 0 3 65 5 720.2 0 5 66 10 720.2 0 10 67 4 720.2 0 4 68 10 720.2 0 10 69 4 720.2 0 4 70 59 720.2 0 59 71 127 720.2 0 127 72 10 720.2 0 10 73 10 720.2 0 10 74 13 720.2 0 13 75 4 720.2 0 4 76 80 720.2 0 80 77 465 720.2 0 465 78 196 720.2 0 196 79 6 720.2 0 6 80 142 720.2 0 142 81 46 720.2 0 46 82 102 720.2 0 102 83 13 720.2 0 13 84 4 720.2 0 4 85 3 720.2 0 3 86 5 720.2 0 5 87 5 720.2 0 5 88 5 720.2 0 5 89 19 720.2 0 19 90 5 720.2 0 5 91 7 720.2 0 7 92 1 720.2 0 1 93 8 720.2 0 8 94 12 720.2 0 12 95 7 720.2 0 7 96 12 720.2 0 12 97 10 720.2 0 10 98 5 720.2 0 5 99 25 720.2 0 25 100 228 720.2 0 228 101 314 720.2 0 314 102 701 720.2 0 701 103 8 720.2 0 8 104 14 720.2 0 14 105 17 720.2 0 17 106 10 720.2 0 10 107 9 720.2 0 9 108 11 720.2 0 11 109 56 720.2 0 56 110 659 720.2 0 659 111 272 720.2 0 272 112 288 720.2 0 288 113 13 720.2 0 13 114 5 720.2 0 5 115 8 720.2 0 8 116 61 720.2 0 61 117 15 720.2 0 15 118 4 720.2 0 4 119 3 720.2 0 3 120 3 720.2 0 3 121 3 720.2 0 3 122 6 720.2 0 6 123 14 720.2 0 14 124 13 720.2 0 13 125 5 720.2 0 5 126 5 720.2 0 5 127 74 720.2 0 74 128 6 720.2 0 6 129 5 720.2 0 5 130 15 720.2 0 15 131 10 720.2 0 10 132 10 720.2 0 10 133 7 720.2 0 7 134 7 720.2 0 7 135 8 720.2 0 8 136 4 720.2 0 4 137 40 720.2 0 40 138 3 720.2 0 3 139 7 720.2 0 7 140 13 720.2 0 13 141 7 720.2 0 7 142 13 720.2 0 13 143 6 720.2 0 6 144 8 720.2 0 8 145 9 720.2 0 9 146 2 720.2 0 2 147 12 720.2 0 12 148 16 720.2 0 16 149 17 720.2 0 17 150 23 720.2 0 23 151 50 720.2 0 50 152 475 720.2 0 475 153 20 720.2 0 20 154 5 720.2 0 5 155 5 720.2 0 5 156 5 720.2 0 5 157 4 720.2 0 4 158 19 720.2 0 19 159 4 720.2 0 4 160 14 720.2 0 14 161 8 720.2 0 8 162 9 720.2 0 9 163 6 720.2 0 6 164 3 720.2 0 3 165 1 720.2 0 1 166 4 720.2 0 4 167 5 720.2 0 5 168 97 720.2 0 97 169 12 720.2 0 12 170 29 720.2 0 29 171 4 720.2 0 4 172 1 720.2 0 1 173 4 720.2 0 4 175 2 720.2 0 2 176 7 720.2 0 7 177 5 720.2 0 5 178 11 720.2 0 11 179 5 720.2 0 5 180 4 720.2 0 4 181 2 720.2 0 2 182 11 720.2 0 11 183 15 720.2 0 15 184 8 720.2 0 8 185 11 720.2 0 11 186 13 720.2 0 13 187 5 720.2 0 5 188 9 720.2 0 9 189 6 720.2 0 6 190 10 720.2 0 10 191 5 720.2 0 5 192 6 720.2 0 6 193 6 720.2 0 6 194 11 720.2 0 11 195 10 720.2 0 10 196 12 720.2 0 12 197 18 720.2 0 18 198 36 720.2 0 36 199 136 720.2 0 136 200 115 720.2 0 115 201 45 720.2 0 45 202 29 720.2 0 29 203 41 720.2 0 41 204 64 720.2 0 64 205 27 720.2 0 27 206 20 720.2 0 20 207 10 720.2 0 10 208 11 720.2 0 11 209 8 720.2 0 8 210 9 720.2 0 9 211 5 720.2 0 5 212 9 720.2 0 9 213 10 720.2 0 10 214 4 720.2 0 4 215 9 720.2 0 9 216 12 720.2 0 12 217 39 720.2 0 39 218 62 720.2 0 62 219 91 720.2 0 91 220 17 720.2 0 17 221 11 720.2 0 11 222 119 720.2 0 119 223 240 720.2 0 240 224 185 720.2 0 185 225 34 720.2 0 34 226 19 720.2 0 19 227 12 720.2 0 12 228 16 720.2 0 16 229 16 720.2 0 16 230 8 720.2 0 8 231 8 720.2 0 8 232 7 720.2 0 7 233 20 720.2 0 20 234 7 720.2 0 7 235 22 720.2 0 22 236 10 720.2 0 10 237 12 720.2 0 12 238 14 720.2 0 14 239 24 720.2 0 24 240 24 720.2 0 24 241 28 720.2 0 28 242 75 720.2 0 75 243 16 720.2 0 16 244 5 720.2 0 5 245 13 720.2 0 13 246 8 720.2 0 8 247 5 720.2 0 5 248 8 720.2 0 8 249 6 720.2 0 6 250 6 720.2 0 6 251 11 720.2 0 11 252 8 720.2 0 8 253 8 720.2 0 8 254 9 720.2 0 9 255 23 720.2 0 23 256 40 720.2 0 40 257 74 720.2 0 74 258 47 720.2 0 47 259 29 720.2 0 29 260 9 720.2 0 9 261 8 720.2 0 8 262 11 720.2 0 11 263 23 720.2 0 23 264 35 720.2 0 35 265 20 720.2 0 20 266 15 720.2 0 15 267 13 720.2 0 13 268 12 720.2 0 12 269 4 720.2 0 4 270 10 720.2 0 10 271 10 720.2 0 10 272 16 720.2 0 16 273 10 720.2 0 10 274 13 720.2 0 13 275 11 720.2 0 11 276 15 720.2 0 15 277 26 720.2 0 26 278 25 720.2 0 25 279 22 720.2 0 22 280 24 720.2 0 24 281 19 720.2 0 19 282 23 720.2 0 23 283 17 720.2 0 17 284 24 720.2 0 24 285 26 720.2 0 26 286 15 720.2 0 15 287 16 720.2 0 16 288 23 720.2 0 23 289 21 720.2 0 21 290 28 720.2 0 28 291 26 720.2 0 26 292 208 720.2 0 208 293 90 720.2 0 90 294 77 720.2 0 77 295 36 720.2 0 36 296 20 720.2 0 20 297 29 720.2 0 29 298 24 720.2 0 24 299 27 720.2 0 27 300 36 720.2 0 36 301 22 720.2 0 22 Finished in 2.96 s (74 us/read; 0.82 M reads/minute). === Summary === Total reads processed: 40,213 Reads with adapters: 13,043 (32.4%) Reads that were too short: 10 (0.0%) Reads written (passing filters): 13,033 (32.4%) Total basepairs processed: 11,122,889 bp Total written (filtered): 3,595,643 bp (32.3%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 13043 times. No. of allowed errors: 0-4 bp: 0; 5-9 bp: 1; 10-14 bp: 2; 15-17 bp: 3 Overview of removed sequences length count expect max.err error counts 16 55 0.0 3 0 53 1 1 17 12915 0.0 3 12676 236 3 18 27 0.0 3 1 25 1 19 15 0.0 3 8 2 5 20 9 0.0 3 0 0 0 9 22 1 0.0 3 0 0 0 1 34 1 0.0 3 0 0 0 1 35 1 0.0 3 0 0 0 1 38 1 0.0 3 0 0 0 1 62 1 0.0 3 0 0 0 1 71 1 0.0 3 0 0 0 1 73 1 0.0 3 0 0 0 1 75 1 0.0 3 0 0 0 1 82 4 0.0 3 0 0 0 4 99 1 0.0 3 0 0 0 1 142 1 0.0 3 0 0 0 1 148 2 0.0 3 0 0 0 2 186 1 0.0 3 0 0 0 1 198 1 0.0 3 0 0 0 1 206 1 0.0 3 0 0 0 1 221 1 0.0 3 0 0 0 1 266 1 0.0 3 0 0 0 1 280 1 0.0 3 0 0 0 1 This is cutadapt 1.11 with Python 2.7.12 Command line parameters: -a taatctatgggnncatcagg - Trimming 1 adapter with at most 10.0% errors in single-end mode ... Finished in 0.75 s (58 us/read; 1.04 M reads/minute). === Summary === Total reads processed: 13,033 Reads with adapters: 123 (0.9%) Reads written (passing filters): 13,033 (100.0%) Total basepairs processed: 3,595,643 bp Total written (filtered): 3,595,269 bp (100.0%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 123 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 88.6% C: 4.1% G: 4.1% T: 3.3% none/other: 0.0% WARNING: The adapter is preceded by "A" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "A" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 118 203.6 0 118 4 5 50.9 0 5 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.