This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TGGCGG -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 69.66 s (26 us/read; 2.33 M reads/minute). === Summary === Total reads processed: 2,708,680 Reads with adapters: 88,111 (3.3%) Reads that were too short: 8,662 (0.3%) Reads written (passing filters): 79,449 (2.9%) Total basepairs processed: 815,312,680 bp Total written (filtered): 21,844,665 bp (2.7%) === Adapter 1 === Sequence: TGGCGG; Type: regular 5'; Length: 6; Trimmed: 88111 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 2988 661.3 0 2988 7 2163 661.3 0 2163 8 2656 661.3 0 2656 9 57144 661.3 0 57144 10 122 661.3 0 122 11 52 661.3 0 52 12 53 661.3 0 53 13 56 661.3 0 56 14 54 661.3 0 54 15 62 661.3 0 62 16 46 661.3 0 46 17 47 661.3 0 47 18 85 661.3 0 85 19 74 661.3 0 74 20 37 661.3 0 37 21 50 661.3 0 50 22 49 661.3 0 49 23 47 661.3 0 47 24 41 661.3 0 41 25 51 661.3 0 51 26 40 661.3 0 40 27 78 661.3 0 78 28 61 661.3 0 61 29 58 661.3 0 58 30 46 661.3 0 46 31 46 661.3 0 46 32 51 661.3 0 51 33 53 661.3 0 53 34 86 661.3 0 86 35 63 661.3 0 63 36 56 661.3 0 56 37 71 661.3 0 71 38 58 661.3 0 58 39 66 661.3 0 66 40 71 661.3 0 71 41 67 661.3 0 67 42 70 661.3 0 70 43 69 661.3 0 69 44 73 661.3 0 73 45 88 661.3 0 88 46 64 661.3 0 64 47 199 661.3 0 199 48 139 661.3 0 139 49 240 661.3 0 240 50 60 661.3 0 60 51 74 661.3 0 74 52 54 661.3 0 54 53 125 661.3 0 125 54 325 661.3 0 325 55 74 661.3 0 74 56 68 661.3 0 68 57 67 661.3 0 67 58 70 661.3 0 70 59 90 661.3 0 90 60 212 661.3 0 212 61 275 661.3 0 275 62 107 661.3 0 107 63 71 661.3 0 71 64 57 661.3 0 57 65 53 661.3 0 53 66 55 661.3 0 55 67 64 661.3 0 64 68 67 661.3 0 67 69 68 661.3 0 68 70 81 661.3 0 81 71 70 661.3 0 70 72 90 661.3 0 90 73 58 661.3 0 58 74 48 661.3 0 48 75 46 661.3 0 46 76 72 661.3 0 72 77 44 661.3 0 44 78 49 661.3 0 49 79 53 661.3 0 53 80 51 661.3 0 51 81 54 661.3 0 54 82 46 661.3 0 46 83 51 661.3 0 51 84 135 661.3 0 135 85 147 661.3 0 147 86 170 661.3 0 170 87 33 661.3 0 33 88 35 661.3 0 35 89 59 661.3 0 59 90 34 661.3 0 34 91 44 661.3 0 44 92 57 661.3 0 57 93 57 661.3 0 57 94 48 661.3 0 48 95 39 661.3 0 39 96 33 661.3 0 33 97 34 661.3 0 34 98 33 661.3 0 33 99 48 661.3 0 48 100 38 661.3 0 38 101 31 661.3 0 31 102 58 661.3 0 58 103 38 661.3 0 38 104 53 661.3 0 53 105 44 661.3 0 44 106 56 661.3 0 56 107 43 661.3 0 43 108 47 661.3 0 47 109 39 661.3 0 39 110 42 661.3 0 42 111 41 661.3 0 41 112 150 661.3 0 150 113 207 661.3 0 207 114 476 661.3 0 476 115 43 661.3 0 43 116 39 661.3 0 39 117 47 661.3 0 47 118 61 661.3 0 61 119 40 661.3 0 40 120 39 661.3 0 39 121 40 661.3 0 40 122 40 661.3 0 40 123 68 661.3 0 68 124 45 661.3 0 45 125 41 661.3 0 41 126 45 661.3 0 45 127 67 661.3 0 67 128 65 661.3 0 65 129 110 661.3 0 110 130 65 661.3 0 65 131 83 661.3 0 83 132 95 661.3 0 95 133 112 661.3 0 112 134 168 661.3 0 168 135 87 661.3 0 87 136 67 661.3 0 67 137 55 661.3 0 55 138 46 661.3 0 46 139 51 661.3 0 51 140 94 661.3 0 94 141 215 661.3 0 215 142 162 661.3 0 162 143 918 661.3 0 918 144 44 661.3 0 44 145 67 661.3 0 67 146 57 661.3 0 57 147 78 661.3 0 78 148 73 661.3 0 73 149 65 661.3 0 65 150 46 661.3 0 46 151 51 661.3 0 51 152 88 661.3 0 88 153 208 661.3 0 208 154 269 661.3 0 269 155 113 661.3 0 113 156 37 661.3 0 37 157 45 661.3 0 45 158 49 661.3 0 49 159 54 661.3 0 54 160 50 661.3 0 50 161 56 661.3 0 56 162 50 661.3 0 50 163 56 661.3 0 56 164 35 661.3 0 35 165 46 661.3 0 46 166 50 661.3 0 50 167 46 661.3 0 46 168 26 661.3 0 26 169 57 661.3 0 57 170 52 661.3 0 52 171 48 661.3 0 48 172 56 661.3 0 56 173 71 661.3 0 71 174 41 661.3 0 41 175 46 661.3 0 46 176 52 661.3 0 52 177 42 661.3 0 42 178 37 661.3 0 37 179 48 661.3 0 48 180 37 661.3 0 37 181 56 661.3 0 56 182 45 661.3 0 45 183 48 661.3 0 48 184 56 661.3 0 56 185 168 661.3 0 168 186 49 661.3 0 49 187 57 661.3 0 57 188 39 661.3 0 39 189 38 661.3 0 38 190 39 661.3 0 39 191 36 661.3 0 36 192 52 661.3 0 52 193 47 661.3 0 47 194 31 661.3 0 31 195 38 661.3 0 38 196 53 661.3 0 53 197 47 661.3 0 47 198 40 661.3 0 40 199 58 661.3 0 58 200 50 661.3 0 50 201 40 661.3 0 40 202 46 661.3 0 46 203 69 661.3 0 69 204 37 661.3 0 37 205 46 661.3 0 46 206 34 661.3 0 34 207 51 661.3 0 51 208 46 661.3 0 46 209 55 661.3 0 55 210 29 661.3 0 29 211 42 661.3 0 42 212 65 661.3 0 65 213 53 661.3 0 53 214 54 661.3 0 54 215 46 661.3 0 46 216 41 661.3 0 41 217 46 661.3 0 46 218 48 661.3 0 48 219 45 661.3 0 45 220 50 661.3 0 50 221 40 661.3 0 40 222 35 661.3 0 35 223 29 661.3 0 29 224 41 661.3 0 41 225 39 661.3 0 39 226 35 661.3 0 35 227 45 661.3 0 45 228 49 661.3 0 49 229 69 661.3 0 69 230 59 661.3 0 59 231 40 661.3 0 40 232 42 661.3 0 42 233 46 661.3 0 46 234 29 661.3 0 29 235 42 661.3 0 42 236 54 661.3 0 54 237 73 661.3 0 73 238 47 661.3 0 47 239 60 661.3 0 60 240 50 661.3 0 50 241 36 661.3 0 36 242 35 661.3 0 35 243 45 661.3 0 45 244 35 661.3 0 35 245 51 661.3 0 51 246 47 661.3 0 47 247 39 661.3 0 39 248 42 661.3 0 42 249 30 661.3 0 30 250 38 661.3 0 38 251 41 661.3 0 41 252 29 661.3 0 29 253 44 661.3 0 44 254 43 661.3 0 43 255 63 661.3 0 63 256 133 661.3 0 133 257 208 661.3 0 208 258 78 661.3 0 78 259 48 661.3 0 48 260 119 661.3 0 119 261 49 661.3 0 49 262 202 661.3 0 202 263 42 661.3 0 42 264 49 661.3 0 49 265 41 661.3 0 41 266 46 661.3 0 46 267 44 661.3 0 44 268 46 661.3 0 46 269 33 661.3 0 33 270 40 661.3 0 40 271 29 661.3 0 29 272 72 661.3 0 72 273 183 661.3 0 183 274 242 661.3 0 242 275 592 661.3 0 592 276 46 661.3 0 46 277 46 661.3 0 46 278 41 661.3 0 41 279 44 661.3 0 44 280 38 661.3 0 38 281 33 661.3 0 33 282 45 661.3 0 45 283 36 661.3 0 36 284 67 661.3 0 67 285 124 661.3 0 124 286 40 661.3 0 40 287 45 661.3 0 45 288 37 661.3 0 37 289 44 661.3 0 44 290 54 661.3 0 54 291 198 661.3 0 198 292 99 661.3 0 99 293 238 661.3 0 238 294 80 661.3 0 80 295 31 661.3 0 31 296 35 661.3 0 35 297 28 661.3 0 28 298 133 661.3 0 133 299 716 661.3 0 716 300 1559 661.3 0 1559 301 64 661.3 0 64 Finished in 3.61 s (45 us/read; 1.32 M reads/minute). === Summary === Total reads processed: 79,449 Reads with adapters: 8,272 (10.4%) Reads that were too short: 27 (0.0%) Reads written (passing filters): 8,245 (10.4%) Total basepairs processed: 21,844,665 bp Total written (filtered): 2,266,638 bp (10.4%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 8272 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 14 8 0.0 2 0 0 0 8 15 5 0.0 3 0 0 4 1 16 42 0.0 3 0 39 2 1 17 5731 0.0 3 5618 108 3 2 18 56 0.0 3 3 28 18 7 19 2364 0.0 3 2317 30 6 11 20 8 0.0 3 1 4 1 2 22 3 0.0 3 0 0 0 3 23 1 0.0 3 0 0 0 1 28 1 0.0 3 0 0 0 1 31 1 0.0 3 0 0 0 1 39 1 0.0 3 0 0 0 1 41 1 0.0 3 1 42 1 0.0 3 0 0 0 1 49 3 0.0 3 0 0 0 3 50 1 0.0 3 0 0 0 1 53 1 0.0 3 0 0 0 1 63 1 0.0 3 0 0 1 65 5 0.0 3 0 0 0 5 71 1 0.0 3 0 0 0 1 82 1 0.0 3 0 0 0 1 87 1 0.0 3 0 0 0 1 101 4 0.0 3 0 0 1 3 112 1 0.0 3 0 0 0 1 126 1 0.0 3 0 0 0 1 135 3 0.0 3 0 0 1 2 141 1 0.0 3 0 0 0 1 152 2 0.0 3 0 0 0 2 157 1 0.0 3 0 0 0 1 160 1 0.0 3 0 0 0 1 168 1 0.0 3 0 0 0 1 172 1 0.0 3 0 0 0 1 190 4 0.0 3 0 0 0 4 202 3 0.0 3 0 0 0 3 203 1 0.0 3 0 0 0 1 208 1 0.0 3 0 0 0 1 234 1 0.0 3 0 0 0 1 244 1 0.0 3 0 0 0 1 252 1 0.0 3 0 0 0 1 263 1 0.0 3 0 0 1 269 1 0.0 3 0 0 0 1 280 2 0.0 3 0 0 0 2 281 1 0.0 3 0 0 0 1 283 1 0.0 3 0 0 0 1 286 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 0.30 s (36 us/read; 1.65 M reads/minute). === Summary === Total reads processed: 8,245 Reads with adapters: 846 (10.3%) Reads written (passing filters): 8,245 (100.0%) Total basepairs processed: 2,266,638 bp Total written (filtered): 2,264,094 bp (99.9%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 846 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 64.9% C: 15.0% G: 18.2% T: 1.9% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 840 128.8 0 840 4 6 32.2 0 6