This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AAGTGT -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 166.29 s (48 us/read; 1.25 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 89,674 (2.6%) Reads that were too short: 12,510 (0.4%) Reads written (passing filters): 77,164 (2.2%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 19,465,124 bp (1.9%) === Adapter 1 === Sequence: AAGTGT; Type: regular 5'; Length: 6; Trimmed: 89674 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 550 847.3 0 550 7 24610 847.3 0 24610 8 27278 847.3 0 27278 9 64 847.3 0 64 10 37 847.3 0 37 11 29 847.3 0 29 12 40 847.3 0 40 13 37 847.3 0 37 14 30 847.3 0 30 15 40 847.3 0 40 16 49 847.3 0 49 17 33 847.3 0 33 18 60 847.3 0 60 19 39 847.3 0 39 20 37 847.3 0 37 21 46 847.3 0 46 22 43 847.3 0 43 23 26 847.3 0 26 24 21 847.3 0 21 25 31 847.3 0 31 26 24 847.3 0 24 27 47 847.3 0 47 28 29 847.3 0 29 29 40 847.3 0 40 30 33 847.3 0 33 31 36 847.3 0 36 32 31 847.3 0 31 33 43 847.3 0 43 34 30 847.3 0 30 35 27 847.3 0 27 36 32 847.3 0 32 37 67 847.3 0 67 38 40 847.3 0 40 39 50 847.3 0 50 40 52 847.3 0 52 41 40 847.3 0 40 42 49 847.3 0 49 43 24 847.3 0 24 44 64 847.3 0 64 45 45 847.3 0 45 46 70 847.3 0 70 47 51 847.3 0 51 48 35 847.3 0 35 49 42 847.3 0 42 50 33 847.3 0 33 51 37 847.3 0 37 52 88 847.3 0 88 53 43 847.3 0 43 54 167 847.3 0 167 55 319 847.3 0 319 56 190 847.3 0 190 57 37 847.3 0 37 58 33 847.3 0 33 59 51 847.3 0 51 60 40 847.3 0 40 61 115 847.3 0 115 62 227 847.3 0 227 63 271 847.3 0 271 64 34 847.3 0 34 65 48 847.3 0 48 66 42 847.3 0 42 67 94 847.3 0 94 68 95 847.3 0 95 69 196 847.3 0 196 70 35 847.3 0 35 71 49 847.3 0 49 72 48 847.3 0 48 73 32 847.3 0 32 74 41 847.3 0 41 75 39 847.3 0 39 76 60 847.3 0 60 77 79 847.3 0 79 78 92 847.3 0 92 79 60 847.3 0 60 80 82 847.3 0 82 81 44 847.3 0 44 82 29 847.3 0 29 83 75 847.3 0 75 84 37 847.3 0 37 85 49 847.3 0 49 86 68 847.3 0 68 87 78 847.3 0 78 88 80 847.3 0 80 89 70 847.3 0 70 90 79 847.3 0 79 91 74 847.3 0 74 92 51 847.3 0 51 93 53 847.3 0 53 94 51 847.3 0 51 95 56 847.3 0 56 96 96 847.3 0 96 97 96 847.3 0 96 98 85 847.3 0 85 99 65 847.3 0 65 100 69 847.3 0 69 101 55 847.3 0 55 102 46 847.3 0 46 103 49 847.3 0 49 104 48 847.3 0 48 105 82 847.3 0 82 106 49 847.3 0 49 107 48 847.3 0 48 108 49 847.3 0 49 109 47 847.3 0 47 110 40 847.3 0 40 111 56 847.3 0 56 112 79 847.3 0 79 113 73 847.3 0 73 114 54 847.3 0 54 115 90 847.3 0 90 116 79 847.3 0 79 117 47 847.3 0 47 118 59 847.3 0 59 119 56 847.3 0 56 120 69 847.3 0 69 121 70 847.3 0 70 122 89 847.3 0 89 123 227 847.3 0 227 124 281 847.3 0 281 125 452 847.3 0 452 126 1123 847.3 0 1123 127 1118 847.3 0 1118 128 1976 847.3 0 1976 129 571 847.3 0 571 130 288 847.3 0 288 131 153 847.3 0 153 132 104 847.3 0 104 133 72 847.3 0 72 134 93 847.3 0 93 135 104 847.3 0 104 136 71 847.3 0 71 137 34 847.3 0 34 138 68 847.3 0 68 139 55 847.3 0 55 140 61 847.3 0 61 141 50 847.3 0 50 142 84 847.3 0 84 143 57 847.3 0 57 144 238 847.3 0 238 145 238 847.3 0 238 146 73 847.3 0 73 147 58 847.3 0 58 148 66 847.3 0 66 149 70 847.3 0 70 150 51 847.3 0 51 151 49 847.3 0 49 152 58 847.3 0 58 153 36 847.3 0 36 154 52 847.3 0 52 155 69 847.3 0 69 156 46 847.3 0 46 157 101 847.3 0 101 158 102 847.3 0 102 159 69 847.3 0 69 160 50 847.3 0 50 161 44 847.3 0 44 162 60 847.3 0 60 163 55 847.3 0 55 164 42 847.3 0 42 165 108 847.3 0 108 166 169 847.3 0 169 167 105 847.3 0 105 168 178 847.3 0 178 169 55 847.3 0 55 170 38 847.3 0 38 171 62 847.3 0 62 172 47 847.3 0 47 173 59 847.3 0 59 174 81 847.3 0 81 175 54 847.3 0 54 176 113 847.3 0 113 177 67 847.3 0 67 178 47 847.3 0 47 179 51 847.3 0 51 180 78 847.3 0 78 181 61 847.3 0 61 182 91 847.3 0 91 183 106 847.3 0 106 184 100 847.3 0 100 185 112 847.3 0 112 186 101 847.3 0 101 187 107 847.3 0 107 188 60 847.3 0 60 189 63 847.3 0 63 190 84 847.3 0 84 191 77 847.3 0 77 192 97 847.3 0 97 193 123 847.3 0 123 194 171 847.3 0 171 195 1441 847.3 0 1441 196 1228 847.3 0 1228 197 1694 847.3 0 1694 198 663 847.3 0 663 199 1057 847.3 0 1057 200 156 847.3 0 156 201 74 847.3 0 74 202 63 847.3 0 63 203 60 847.3 0 60 204 76 847.3 0 76 205 81 847.3 0 81 206 66 847.3 0 66 207 79 847.3 0 79 208 67 847.3 0 67 209 51 847.3 0 51 210 80 847.3 0 80 211 94 847.3 0 94 212 113 847.3 0 113 213 80 847.3 0 80 214 106 847.3 0 106 215 74 847.3 0 74 216 66 847.3 0 66 217 53 847.3 0 53 218 209 847.3 0 209 219 208 847.3 0 208 220 311 847.3 0 311 221 214 847.3 0 214 222 140 847.3 0 140 223 105 847.3 0 105 224 77 847.3 0 77 225 93 847.3 0 93 226 88 847.3 0 88 227 87 847.3 0 87 228 76 847.3 0 76 229 69 847.3 0 69 230 76 847.3 0 76 231 75 847.3 0 75 232 79 847.3 0 79 233 87 847.3 0 87 234 66 847.3 0 66 235 91 847.3 0 91 236 78 847.3 0 78 237 84 847.3 0 84 238 244 847.3 0 244 239 278 847.3 0 278 240 285 847.3 0 285 241 143 847.3 0 143 242 113 847.3 0 113 243 76 847.3 0 76 244 72 847.3 0 72 245 345 847.3 0 345 246 163 847.3 0 163 247 201 847.3 0 201 248 90 847.3 0 90 249 126 847.3 0 126 250 113 847.3 0 113 251 75 847.3 0 75 252 81 847.3 0 81 253 76 847.3 0 76 254 476 847.3 0 476 255 384 847.3 0 384 256 461 847.3 0 461 257 81 847.3 0 81 258 86 847.3 0 86 259 63 847.3 0 63 260 57 847.3 0 57 261 97 847.3 0 97 262 398 847.3 0 398 263 348 847.3 0 348 264 237 847.3 0 237 265 72 847.3 0 72 266 108 847.3 0 108 267 422 847.3 0 422 268 411 847.3 0 411 269 273 847.3 0 273 270 119 847.3 0 119 271 45 847.3 0 45 272 93 847.3 0 93 273 192 847.3 0 192 274 195 847.3 0 195 275 108 847.3 0 108 276 72 847.3 0 72 277 79 847.3 0 79 278 78 847.3 0 78 279 54 847.3 0 54 280 63 847.3 0 63 281 89 847.3 0 89 282 76 847.3 0 76 283 78 847.3 0 78 284 61 847.3 0 61 285 41 847.3 0 41 286 54 847.3 0 54 287 74 847.3 0 74 288 89 847.3 0 89 289 75 847.3 0 75 290 56 847.3 0 56 291 59 847.3 0 59 292 57 847.3 0 57 293 53 847.3 0 53 294 74 847.3 0 74 295 85 847.3 0 85 296 79 847.3 0 79 297 60 847.3 0 60 298 61 847.3 0 61 299 59 847.3 0 59 300 72 847.3 0 72 301 83 847.3 0 83 Finished in 5.52 s (72 us/read; 0.84 M reads/minute). === Summary === Total reads processed: 77,164 Reads with adapters: 24,451 (31.7%) Reads that were too short: 98 (0.1%) Reads written (passing filters): 24,353 (31.6%) Total basepairs processed: 19,465,124 bp Total written (filtered): 6,732,901 bp (34.6%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 24451 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 15 6 0.0 3 0 0 6 16 207 0.0 3 0 203 3 1 17 23801 0.0 3 23331 454 15 1 18 58 0.0 3 5 52 1 19 13 0.0 3 0 2 8 3 20 184 0.0 3 173 2 0 9 22 1 0.0 3 0 0 0 1 23 1 0.0 3 0 0 0 1 26 1 0.0 3 0 0 0 1 30 1 0.0 3 0 0 0 1 33 2 0.0 3 0 0 0 2 38 3 0.0 3 0 0 0 3 42 13 0.0 3 0 0 0 13 45 1 0.0 3 0 0 0 1 48 3 0.0 3 0 0 0 3 49 1 0.0 3 0 0 0 1 50 1 0.0 3 0 0 0 1 51 3 0.0 3 0 0 0 3 53 2 0.0 3 0 0 0 2 55 1 0.0 3 0 0 1 61 5 0.0 3 0 0 0 5 63 10 0.0 3 0 0 0 10 65 3 0.0 3 0 0 0 3 66 21 0.0 3 0 0 0 21 69 3 0.0 3 0 0 0 3 71 3 0.0 3 0 0 0 3 75 4 0.0 3 0 0 0 4 88 1 0.0 3 0 0 0 1 90 1 0.0 3 0 0 0 1 91 1 0.0 3 0 0 0 1 104 1 0.0 3 0 0 0 1 115 1 0.0 3 0 0 0 1 116 1 0.0 3 0 0 0 1 117 2 0.0 3 0 0 0 2 137 2 0.0 3 0 0 0 2 141 2 0.0 3 0 0 0 2 142 2 0.0 3 0 0 0 2 159 1 0.0 3 0 0 0 1 163 1 0.0 3 0 0 0 1 164 3 0.0 3 0 0 0 3 178 1 0.0 3 0 0 0 1 198 1 0.0 3 0 0 0 1 217 77 0.0 3 0 0 0 77 288 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 1.40 s (57 us/read; 1.04 M reads/minute). === Summary === Total reads processed: 24,353 Reads with adapters: 47 (0.2%) Reads written (passing filters): 24,353 (100.0%) Total basepairs processed: 6,732,901 bp Total written (filtered): 6,732,746 bp (100.0%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 47 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 36.2% C: 23.4% G: 29.8% T: 10.6% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 40 380.5 0 40 4 3 95.1 0 3 5 1 23.8 0 1 6 3 5.9 0 3