This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AAGACA -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 171.57 s (47 us/read; 1.27 M reads/minute). === Summary === Total reads processed: 3,634,272 Reads with adapters: 196,069 (5.4%) Reads that were too short: 49,602 (1.4%) Reads written (passing filters): 146,467 (4.0%) Total basepairs processed: 1,093,915,872 bp Total written (filtered): 31,105,243 bp (2.8%) === Adapter 1 === Sequence: AAGACA; Type: regular 5'; Length: 6; Trimmed: 196069 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 720 887.3 0 720 7 33875 887.3 0 33875 8 495 887.3 0 495 9 30653 887.3 0 30653 10 42 887.3 0 42 11 41 887.3 0 41 12 34 887.3 0 34 13 39 887.3 0 39 14 26 887.3 0 26 15 30 887.3 0 30 16 23 887.3 0 23 17 21 887.3 0 21 18 31 887.3 0 31 19 29 887.3 0 29 20 55 887.3 0 55 21 22 887.3 0 22 22 24 887.3 0 24 23 29 887.3 0 29 24 22 887.3 0 22 25 30 887.3 0 30 26 19 887.3 0 19 27 29 887.3 0 29 28 28 887.3 0 28 29 40 887.3 0 40 30 42 887.3 0 42 31 27 887.3 0 27 32 35 887.3 0 35 33 22 887.3 0 22 34 28 887.3 0 28 35 33 887.3 0 33 36 45 887.3 0 45 37 29 887.3 0 29 38 24 887.3 0 24 39 27 887.3 0 27 40 20 887.3 0 20 41 53 887.3 0 53 42 77 887.3 0 77 43 30 887.3 0 30 44 31 887.3 0 31 45 14 887.3 0 14 46 34 887.3 0 34 47 34 887.3 0 34 48 33 887.3 0 33 49 28 887.3 0 28 50 26 887.3 0 26 51 28 887.3 0 28 52 21 887.3 0 21 53 34 887.3 0 34 54 46 887.3 0 46 55 52 887.3 0 52 56 73 887.3 0 73 57 31 887.3 0 31 58 70 887.3 0 70 59 82 887.3 0 82 60 26 887.3 0 26 61 31 887.3 0 31 62 31 887.3 0 31 63 18 887.3 0 18 64 41 887.3 0 41 65 59 887.3 0 59 66 46 887.3 0 46 67 38 887.3 0 38 68 36 887.3 0 36 69 37 887.3 0 37 70 45 887.3 0 45 71 60 887.3 0 60 72 57 887.3 0 57 73 182 887.3 0 182 74 170 887.3 0 170 75 81 887.3 0 81 76 94 887.3 0 94 77 44 887.3 0 44 78 137 887.3 0 137 79 266 887.3 0 266 80 472 887.3 0 472 81 345 887.3 0 345 82 372 887.3 0 372 83 1206 887.3 0 1206 84 354 887.3 0 354 85 425 887.3 0 425 86 197 887.3 0 197 87 196 887.3 0 196 88 270 887.3 0 270 89 239 887.3 0 239 90 104 887.3 0 104 91 129 887.3 0 129 92 159 887.3 0 159 93 121 887.3 0 121 94 89 887.3 0 89 95 132 887.3 0 132 96 105 887.3 0 105 97 94 887.3 0 94 98 99 887.3 0 99 99 119 887.3 0 119 100 129 887.3 0 129 101 125 887.3 0 125 102 168 887.3 0 168 103 231 887.3 0 231 104 197 887.3 0 197 105 211 887.3 0 211 106 229 887.3 0 229 107 1470 887.3 0 1470 108 2535 887.3 0 2535 109 2394 887.3 0 2394 110 196 887.3 0 196 111 211 887.3 0 211 112 211 887.3 0 211 113 224 887.3 0 224 114 190 887.3 0 190 115 201 887.3 0 201 116 297 887.3 0 297 117 274 887.3 0 274 118 258 887.3 0 258 119 266 887.3 0 266 120 1004 887.3 0 1004 121 720 887.3 0 720 122 584 887.3 0 584 123 278 887.3 0 278 124 262 887.3 0 262 125 275 887.3 0 275 126 218 887.3 0 218 127 181 887.3 0 181 128 183 887.3 0 183 129 201 887.3 0 201 130 233 887.3 0 233 131 219 887.3 0 219 132 180 887.3 0 180 133 185 887.3 0 185 134 139 887.3 0 139 135 155 887.3 0 155 136 148 887.3 0 148 137 262 887.3 0 262 138 220 887.3 0 220 139 241 887.3 0 241 140 194 887.3 0 194 141 223 887.3 0 223 142 208 887.3 0 208 143 217 887.3 0 217 144 176 887.3 0 176 145 219 887.3 0 219 146 230 887.3 0 230 147 282 887.3 0 282 148 221 887.3 0 221 149 236 887.3 0 236 150 164 887.3 0 164 151 206 887.3 0 206 152 195 887.3 0 195 153 167 887.3 0 167 154 182 887.3 0 182 155 186 887.3 0 186 156 178 887.3 0 178 157 196 887.3 0 196 158 158 887.3 0 158 159 152 887.3 0 152 160 193 887.3 0 193 161 179 887.3 0 179 162 195 887.3 0 195 163 198 887.3 0 198 164 314 887.3 0 314 165 267 887.3 0 267 166 2228 887.3 0 2228 167 3089 887.3 0 3089 168 2161 887.3 0 2161 169 229 887.3 0 229 170 949 887.3 0 949 171 1037 887.3 0 1037 172 781 887.3 0 781 173 250 887.3 0 250 174 257 887.3 0 257 175 237 887.3 0 237 176 280 887.3 0 280 177 299 887.3 0 299 178 497 887.3 0 497 179 366 887.3 0 366 180 858 887.3 0 858 181 8135 887.3 0 8135 182 8006 887.3 0 8006 183 12551 887.3 0 12551 184 2431 887.3 0 2431 185 2295 887.3 0 2295 186 975 887.3 0 975 187 180 887.3 0 180 188 187 887.3 0 187 189 184 887.3 0 184 190 152 887.3 0 152 191 275 887.3 0 275 192 143 887.3 0 143 193 140 887.3 0 140 194 142 887.3 0 142 195 175 887.3 0 175 196 184 887.3 0 184 197 178 887.3 0 178 198 254 887.3 0 254 199 297 887.3 0 297 200 367 887.3 0 367 201 245 887.3 0 245 202 187 887.3 0 187 203 236 887.3 0 236 204 248 887.3 0 248 205 414 887.3 0 414 206 292 887.3 0 292 207 233 887.3 0 233 208 175 887.3 0 175 209 208 887.3 0 208 210 251 887.3 0 251 211 274 887.3 0 274 212 402 887.3 0 402 213 3571 887.3 0 3571 214 4488 887.3 0 4488 215 5320 887.3 0 5320 216 641 887.3 0 641 217 186 887.3 0 186 218 223 887.3 0 223 219 247 887.3 0 247 220 297 887.3 0 297 221 149 887.3 0 149 222 130 887.3 0 130 223 149 887.3 0 149 224 169 887.3 0 169 225 291 887.3 0 291 226 297 887.3 0 297 227 384 887.3 0 384 228 1112 887.3 0 1112 229 888 887.3 0 888 230 563 887.3 0 563 231 147 887.3 0 147 232 135 887.3 0 135 233 127 887.3 0 127 234 133 887.3 0 133 235 145 887.3 0 145 236 117 887.3 0 117 237 224 887.3 0 224 238 136 887.3 0 136 239 190 887.3 0 190 240 257 887.3 0 257 241 251 887.3 0 251 242 559 887.3 0 559 243 299 887.3 0 299 244 249 887.3 0 249 245 187 887.3 0 187 246 236 887.3 0 236 247 246 887.3 0 246 248 278 887.3 0 278 249 209 887.3 0 209 250 171 887.3 0 171 251 173 887.3 0 173 252 143 887.3 0 143 253 144 887.3 0 144 254 215 887.3 0 215 255 306 887.3 0 306 256 232 887.3 0 232 257 219 887.3 0 219 258 134 887.3 0 134 259 153 887.3 0 153 260 263 887.3 0 263 261 292 887.3 0 292 262 448 887.3 0 448 263 397 887.3 0 397 264 382 887.3 0 382 265 293 887.3 0 293 266 535 887.3 0 535 267 7599 887.3 0 7599 268 3358 887.3 0 3358 269 1943 887.3 0 1943 270 219 887.3 0 219 271 126 887.3 0 126 272 121 887.3 0 121 273 172 887.3 0 172 274 130 887.3 0 130 275 180 887.3 0 180 276 220 887.3 0 220 277 216 887.3 0 216 278 162 887.3 0 162 279 186 887.3 0 186 280 531 887.3 0 531 281 539 887.3 0 539 282 289 887.3 0 289 283 199 887.3 0 199 284 116 887.3 0 116 285 133 887.3 0 133 286 156 887.3 0 156 287 164 887.3 0 164 288 135 887.3 0 135 289 122 887.3 0 122 290 113 887.3 0 113 291 131 887.3 0 131 292 129 887.3 0 129 293 149 887.3 0 149 294 145 887.3 0 145 295 136 887.3 0 136 296 114 887.3 0 114 297 148 887.3 0 148 298 135 887.3 0 135 299 228 887.3 0 228 300 237 887.3 0 237 301 271 887.3 0 271 Finished in 9.30 s (63 us/read; 0.94 M reads/minute). === Summary === Total reads processed: 146,467 Reads with adapters: 31,407 (21.4%) Reads that were too short: 47 (0.0%) Reads written (passing filters): 31,360 (21.4%) Total basepairs processed: 31,105,243 bp Total written (filtered): 8,610,901 bp (27.7%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 31407 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 1 0.0 2 0 0 0 1 15 7 0.0 3 0 0 7 16 158 0.0 3 0 156 2 17 30990 0.0 3 30389 579 22 18 55 0.0 3 3 50 1 1 19 25 0.0 3 0 0 18 7 20 34 0.0 3 0 1 0 33 21 38 0.0 3 0 0 0 38 23 1 0.0 3 0 0 0 1 24 10 0.0 3 0 0 0 10 25 2 0.0 3 0 0 0 2 27 1 0.0 3 0 0 0 1 28 2 0.0 3 0 0 0 2 32 1 0.0 3 0 0 0 1 39 1 0.0 3 0 0 0 1 42 2 0.0 3 0 0 0 2 46 5 0.0 3 0 0 0 5 49 1 0.0 3 0 0 0 1 55 1 0.0 3 0 0 0 1 57 2 0.0 3 0 0 0 2 62 1 0.0 3 0 0 0 1 64 1 0.0 3 0 0 0 1 67 1 0.0 3 0 0 0 1 68 2 0.0 3 0 0 0 2 70 1 0.0 3 0 0 0 1 71 3 0.0 3 0 0 0 3 72 1 0.0 3 0 0 0 1 73 1 0.0 3 0 0 0 1 76 1 0.0 3 0 0 0 1 79 1 0.0 3 0 0 0 1 80 1 0.0 3 0 0 0 1 81 5 0.0 3 0 0 0 5 82 1 0.0 3 0 0 0 1 90 1 0.0 3 0 0 0 1 93 1 0.0 3 0 0 0 1 101 2 0.0 3 0 0 1 1 102 1 0.0 3 0 0 0 1 103 1 0.0 3 0 0 0 1 106 2 0.0 3 0 0 0 2 113 1 0.0 3 0 0 0 1 115 1 0.0 3 0 0 0 1 119 1 0.0 3 0 0 0 1 122 1 0.0 3 0 0 0 1 124 1 0.0 3 0 0 0 1 126 1 0.0 3 0 0 1 127 1 0.0 3 0 0 0 1 129 1 0.0 3 0 0 0 1 133 2 0.0 3 0 0 0 2 136 1 0.0 3 0 0 0 1 138 1 0.0 3 0 0 0 1 142 1 0.0 3 0 0 0 1 147 1 0.0 3 0 0 0 1 148 1 0.0 3 0 0 0 1 158 1 0.0 3 0 0 0 1 161 3 0.0 3 0 0 0 3 164 1 0.0 3 0 0 0 1 165 1 0.0 3 0 0 0 1 168 1 0.0 3 0 0 0 1 170 1 0.0 3 0 0 0 1 175 1 0.0 3 0 0 0 1 183 2 0.0 3 0 0 0 2 190 2 0.0 3 0 0 0 2 194 4 0.0 3 0 0 0 4 201 1 0.0 3 0 0 0 1 205 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 1 222 1 0.0 3 0 0 0 1 270 2 0.0 3 0 0 0 2 279 1 0.0 3 0 0 0 1 280 1 0.0 3 0 0 0 1 284 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 1.81 s (58 us/read; 1.04 M reads/minute). === Summary === Total reads processed: 31,360 Reads with adapters: 632 (2.0%) Reads written (passing filters): 31,360 (100.0%) Total basepairs processed: 8,610,901 bp Total written (filtered): 8,608,983 bp (100.0%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 632 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 71.8% C: 7.0% G: 20.7% T: 0.5% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 611 490.0 0 611 4 20 122.5 0 20 5 1 30.6 0 1