This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGAGAC -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 93.32 s (29 us/read; 2.05 M reads/minute). === Summary === Total reads processed: 3,193,041 Reads with adapters: 276,893 (8.7%) Reads that were too short: 22,685 (0.7%) Reads written (passing filters): 254,208 (8.0%) Total basepairs processed: 961,105,341 bp Total written (filtered): 55,246,582 bp (5.7%) === Adapter 1 === Sequence: AGAGAC; Type: regular 5'; Length: 6; Trimmed: 276893 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 116 779.6 0 116 7 5700 779.6 0 5700 8 26 779.6 0 26 9 6 779.6 0 6 10 11 779.6 0 11 11 35 779.6 0 35 12 34 779.6 0 34 13 20 779.6 0 20 14 8 779.6 0 8 15 5 779.6 0 5 16 3 779.6 0 3 17 3 779.6 0 3 18 6 779.6 0 6 19 9 779.6 0 9 20 5 779.6 0 5 21 3 779.6 0 3 22 3 779.6 0 3 23 7 779.6 0 7 24 4 779.6 0 4 25 9 779.6 0 9 26 11 779.6 0 11 27 13 779.6 0 13 28 14 779.6 0 14 29 5 779.6 0 5 30 5 779.6 0 5 31 7 779.6 0 7 32 9 779.6 0 9 33 9 779.6 0 9 34 6 779.6 0 6 35 7 779.6 0 7 36 7 779.6 0 7 37 4 779.6 0 4 38 10 779.6 0 10 39 13 779.6 0 13 40 11 779.6 0 11 41 11 779.6 0 11 42 36 779.6 0 36 43 40 779.6 0 40 44 21 779.6 0 21 45 37 779.6 0 37 46 58 779.6 0 58 47 41 779.6 0 41 48 39 779.6 0 39 49 123 779.6 0 123 50 34 779.6 0 34 51 45 779.6 0 45 52 576 779.6 0 576 53 68 779.6 0 68 54 38 779.6 0 38 55 67 779.6 0 67 56 13 779.6 0 13 57 18 779.6 0 18 58 16 779.6 0 16 59 50 779.6 0 50 60 47 779.6 0 47 61 242 779.6 0 242 62 712 779.6 0 712 63 100 779.6 0 100 64 152 779.6 0 152 65 160 779.6 0 160 66 281 779.6 0 281 67 393 779.6 0 393 68 186 779.6 0 186 69 173 779.6 0 173 70 89 779.6 0 89 71 153 779.6 0 153 72 281 779.6 0 281 73 333 779.6 0 333 74 629 779.6 0 629 75 954 779.6 0 954 76 1203 779.6 0 1203 77 3425 779.6 0 3425 78 6035 779.6 0 6035 79 114775 779.6 0 114775 80 40475 779.6 0 40475 81 53755 779.6 0 53755 82 400 779.6 0 400 83 212 779.6 0 212 84 53 779.6 0 53 85 29 779.6 0 29 86 43 779.6 0 43 87 26 779.6 0 26 88 16 779.6 0 16 89 20 779.6 0 20 90 9 779.6 0 9 91 80 779.6 0 80 92 16 779.6 0 16 93 50 779.6 0 50 94 29 779.6 0 29 95 81 779.6 0 81 96 39 779.6 0 39 97 41 779.6 0 41 98 34 779.6 0 34 99 64 779.6 0 64 100 58 779.6 0 58 101 182 779.6 0 182 102 69 779.6 0 69 103 79 779.6 0 79 104 31 779.6 0 31 105 55 779.6 0 55 106 24 779.6 0 24 107 34 779.6 0 34 108 45 779.6 0 45 109 41 779.6 0 41 110 30 779.6 0 30 111 58 779.6 0 58 112 29 779.6 0 29 113 63 779.6 0 63 114 33 779.6 0 33 115 130 779.6 0 130 116 148 779.6 0 148 117 928 779.6 0 928 118 347 779.6 0 347 119 208 779.6 0 208 120 167 779.6 0 167 121 131 779.6 0 131 122 126 779.6 0 126 123 152 779.6 0 152 124 140 779.6 0 140 125 133 779.6 0 133 126 120 779.6 0 120 127 178 779.6 0 178 128 92 779.6 0 92 129 180 779.6 0 180 130 1591 779.6 0 1591 131 199 779.6 0 199 132 387 779.6 0 387 133 98 779.6 0 98 134 131 779.6 0 131 135 108 779.6 0 108 136 116 779.6 0 116 137 161 779.6 0 161 138 169 779.6 0 169 139 181 779.6 0 181 140 162 779.6 0 162 141 148 779.6 0 148 142 142 779.6 0 142 143 124 779.6 0 124 144 106 779.6 0 106 145 124 779.6 0 124 146 230 779.6 0 230 147 352 779.6 0 352 148 573 779.6 0 573 149 392 779.6 0 392 150 202 779.6 0 202 151 385 779.6 0 385 152 576 779.6 0 576 153 298 779.6 0 298 154 142 779.6 0 142 155 119 779.6 0 119 156 195 779.6 0 195 157 182 779.6 0 182 158 198 779.6 0 198 159 211 779.6 0 211 160 153 779.6 0 153 161 184 779.6 0 184 162 124 779.6 0 124 163 204 779.6 0 204 164 135 779.6 0 135 165 164 779.6 0 164 166 150 779.6 0 150 167 197 779.6 0 197 168 213 779.6 0 213 169 156 779.6 0 156 170 537 779.6 0 537 171 351 779.6 0 351 172 995 779.6 0 995 173 103 779.6 0 103 174 218 779.6 0 218 175 97 779.6 0 97 176 160 779.6 0 160 177 124 779.6 0 124 178 144 779.6 0 144 179 171 779.6 0 171 180 147 779.6 0 147 181 187 779.6 0 187 182 156 779.6 0 156 183 160 779.6 0 160 184 172 779.6 0 172 185 194 779.6 0 194 186 297 779.6 0 297 187 219 779.6 0 219 188 346 779.6 0 346 189 122 779.6 0 122 190 140 779.6 0 140 191 114 779.6 0 114 192 169 779.6 0 169 193 125 779.6 0 125 194 166 779.6 0 166 195 126 779.6 0 126 196 156 779.6 0 156 197 118 779.6 0 118 198 410 779.6 0 410 199 520 779.6 0 520 200 192 779.6 0 192 201 109 779.6 0 109 202 115 779.6 0 115 203 129 779.6 0 129 204 164 779.6 0 164 205 192 779.6 0 192 206 221 779.6 0 221 207 121 779.6 0 121 208 218 779.6 0 218 209 121 779.6 0 121 210 131 779.6 0 131 211 155 779.6 0 155 212 177 779.6 0 177 213 242 779.6 0 242 214 239 779.6 0 239 215 206 779.6 0 206 216 287 779.6 0 287 217 310 779.6 0 310 218 371 779.6 0 371 219 1038 779.6 0 1038 220 250 779.6 0 250 221 208 779.6 0 208 222 311 779.6 0 311 223 213 779.6 0 213 224 275 779.6 0 275 225 140 779.6 0 140 226 160 779.6 0 160 227 227 779.6 0 227 228 290 779.6 0 290 229 155 779.6 0 155 230 130 779.6 0 130 231 148 779.6 0 148 232 166 779.6 0 166 233 138 779.6 0 138 234 163 779.6 0 163 235 183 779.6 0 183 236 210 779.6 0 210 237 134 779.6 0 134 238 172 779.6 0 172 239 245 779.6 0 245 240 284 779.6 0 284 241 308 779.6 0 308 242 230 779.6 0 230 243 205 779.6 0 205 244 160 779.6 0 160 245 157 779.6 0 157 246 109 779.6 0 109 247 175 779.6 0 175 248 166 779.6 0 166 249 243 779.6 0 243 250 160 779.6 0 160 251 297 779.6 0 297 252 203 779.6 0 203 253 268 779.6 0 268 254 159 779.6 0 159 255 151 779.6 0 151 256 113 779.6 0 113 257 128 779.6 0 128 258 133 779.6 0 133 259 151 779.6 0 151 260 143 779.6 0 143 261 195 779.6 0 195 262 237 779.6 0 237 263 223 779.6 0 223 264 229 779.6 0 229 265 164 779.6 0 164 266 172 779.6 0 172 267 177 779.6 0 177 268 125 779.6 0 125 269 219 779.6 0 219 270 137 779.6 0 137 271 245 779.6 0 245 272 304 779.6 0 304 273 386 779.6 0 386 274 276 779.6 0 276 275 254 779.6 0 254 276 250 779.6 0 250 277 284 779.6 0 284 278 200 779.6 0 200 279 154 779.6 0 154 280 307 779.6 0 307 281 196 779.6 0 196 282 193 779.6 0 193 283 149 779.6 0 149 284 178 779.6 0 178 285 165 779.6 0 165 286 148 779.6 0 148 287 164 779.6 0 164 288 176 779.6 0 176 289 294 779.6 0 294 290 434 779.6 0 434 291 559 779.6 0 559 292 492 779.6 0 492 293 291 779.6 0 291 294 185 779.6 0 185 295 257 779.6 0 257 296 217 779.6 0 217 297 445 779.6 0 445 298 441 779.6 0 441 299 460 779.6 0 460 300 310 779.6 0 310 301 95 779.6 0 95 Finished in 10.47 s (41 us/read; 1.46 M reads/minute). === Summary === Total reads processed: 254,208 Reads with adapters: 5,813 (2.3%) Reads that were too short: 49 (0.0%) Reads written (passing filters): 5,764 (2.3%) Total basepairs processed: 55,246,582 bp Total written (filtered): 1,591,475 bp (2.9%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 5813 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 1 0.0 3 0 0 1 16 53 0.0 3 0 51 2 17 5651 0.0 3 5569 80 2 18 13 0.0 3 0 10 3 19 4 0.0 3 3 0 1 20 13 0.0 3 0 0 0 13 23 2 0.0 3 0 0 0 2 27 1 0.0 3 0 0 0 1 31 1 0.0 3 0 0 0 1 36 1 0.0 3 0 0 0 1 41 2 0.0 3 0 0 0 2 44 9 0.0 3 0 0 0 9 49 1 0.0 3 0 0 0 1 55 1 0.0 3 0 0 0 1 56 1 0.0 3 0 0 0 1 58 1 0.0 3 0 0 0 1 68 1 0.0 3 0 0 0 1 70 1 0.0 3 0 0 0 1 75 2 0.0 3 0 0 0 2 76 2 0.0 3 0 0 0 2 79 1 0.0 3 0 0 0 1 106 1 0.0 3 0 0 0 1 111 1 0.0 3 0 0 0 1 125 1 0.0 3 0 0 0 1 126 1 0.0 3 0 0 0 1 145 1 0.0 3 0 0 0 1 149 3 0.0 3 0 0 0 3 155 1 0.0 3 0 0 0 1 163 1 0.0 3 0 0 0 1 166 1 0.0 3 0 0 0 1 168 3 0.0 3 0 0 0 3 170 1 0.0 3 0 0 0 1 171 3 0.0 3 0 0 0 3 182 1 0.0 3 0 0 0 1 185 1 0.0 3 0 0 0 1 186 1 0.0 3 0 0 0 1 207 1 0.0 3 0 0 0 1 208 2 0.0 3 0 0 0 2 209 5 0.0 3 0 0 0 5 210 10 0.0 3 0 0 0 10 211 5 0.0 3 0 0 0 5 216 1 0.0 3 0 0 0 1 217 3 0.0 3 0 0 0 3 221 2 0.0 3 0 0 0 2 222 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 0.24 s (42 us/read; 1.44 M reads/minute). === Summary === Total reads processed: 5,764 Reads with adapters: 491 (8.5%) Reads written (passing filters): 5,764 (100.0%) Total basepairs processed: 1,591,475 bp Total written (filtered): 1,589,991 bp (99.9%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 491 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 22.2% C: 60.9% G: 10.6% T: 6.3% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 483 90.1 0 483 4 6 22.5 0 6 5 1 5.6 0 1 6 1 1.4 0 1