This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AATCCT -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 107.82 s (34 us/read; 1.78 M reads/minute). === Summary === Total reads processed: 3,193,041 Reads with adapters: 1,226,732 (38.4%) Reads that were too short: 45,398 (1.4%) Reads written (passing filters): 1,181,334 (37.0%) Total basepairs processed: 961,105,341 bp Total written (filtered): 317,382,945 bp (33.0%) === Adapter 1 === Sequence: AATCCT; Type: regular 5'; Length: 6; Trimmed: 1226732 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 263 779.6 0 263 7 130 779.6 0 130 8 323 779.6 0 323 9 9532 779.6 0 9532 10 399 779.6 0 399 11 390 779.6 0 390 12 961 779.6 0 961 13 2937 779.6 0 2937 14 457 779.6 0 457 15 1002 779.6 0 1002 16 536 779.6 0 536 17 709 779.6 0 709 18 1537 779.6 0 1537 19 829 779.6 0 829 20 1150 779.6 0 1150 21 529 779.6 0 529 22 712 779.6 0 712 23 1604 779.6 0 1604 24 2086 779.6 0 2086 25 4085 779.6 0 4085 26 5205 779.6 0 5205 27 6968 779.6 0 6968 28 14718 779.6 0 14718 29 18314 779.6 0 18314 30 298799 779.6 0 298799 31 372876 779.6 0 372876 32 408967 779.6 0 408967 33 1938 779.6 0 1938 34 189 779.6 0 189 35 203 779.6 0 203 36 422 779.6 0 422 37 527 779.6 0 527 38 41 779.6 0 41 39 16 779.6 0 16 40 27 779.6 0 27 41 16 779.6 0 16 42 8 779.6 0 8 43 14 779.6 0 14 44 23 779.6 0 23 45 11 779.6 0 11 46 17 779.6 0 17 47 17 779.6 0 17 48 8 779.6 0 8 49 13 779.6 0 13 50 12 779.6 0 12 51 56 779.6 0 56 52 21 779.6 0 21 53 65 779.6 0 65 54 401 779.6 0 401 55 1235 779.6 0 1235 56 281 779.6 0 281 57 9 779.6 0 9 58 8 779.6 0 8 59 5 779.6 0 5 60 7 779.6 0 7 61 1 779.6 0 1 62 4 779.6 0 4 63 4 779.6 0 4 64 3 779.6 0 3 65 11 779.6 0 11 66 3 779.6 0 3 67 3 779.6 0 3 68 1 779.6 0 1 69 11 779.6 0 11 70 16 779.6 0 16 71 72 779.6 0 72 72 36 779.6 0 36 73 20 779.6 0 20 74 36 779.6 0 36 75 13 779.6 0 13 76 28 779.6 0 28 77 128 779.6 0 128 78 64 779.6 0 64 79 74 779.6 0 74 80 111 779.6 0 111 81 101 779.6 0 101 82 73 779.6 0 73 83 78 779.6 0 78 84 104 779.6 0 104 85 72 779.6 0 72 86 46 779.6 0 46 87 215 779.6 0 215 88 92 779.6 0 92 89 194 779.6 0 194 90 122 779.6 0 122 91 18 779.6 0 18 92 50 779.6 0 50 93 198 779.6 0 198 94 46 779.6 0 46 95 37 779.6 0 37 96 24 779.6 0 24 97 39 779.6 0 39 98 53 779.6 0 53 99 84 779.6 0 84 100 195 779.6 0 195 101 98 779.6 0 98 102 202 779.6 0 202 103 244 779.6 0 244 104 544 779.6 0 544 105 439 779.6 0 439 106 693 779.6 0 693 107 68 779.6 0 68 108 16 779.6 0 16 109 38 779.6 0 38 110 173 779.6 0 173 111 167 779.6 0 167 112 65 779.6 0 65 113 60 779.6 0 60 114 56 779.6 0 56 115 52 779.6 0 52 116 43 779.6 0 43 117 50 779.6 0 50 118 397 779.6 0 397 119 242 779.6 0 242 120 182 779.6 0 182 121 77 779.6 0 77 122 77 779.6 0 77 123 107 779.6 0 107 124 368 779.6 0 368 125 508 779.6 0 508 126 4224 779.6 0 4224 127 67 779.6 0 67 128 49 779.6 0 49 129 37 779.6 0 37 130 55 779.6 0 55 131 89 779.6 0 89 132 117 779.6 0 117 133 89 779.6 0 89 134 64 779.6 0 64 135 75 779.6 0 75 136 79 779.6 0 79 137 177 779.6 0 177 138 257 779.6 0 257 139 161 779.6 0 161 140 65 779.6 0 65 141 86 779.6 0 86 142 108 779.6 0 108 143 86 779.6 0 86 144 140 779.6 0 140 145 72 779.6 0 72 146 67 779.6 0 67 147 66 779.6 0 66 148 56 779.6 0 56 149 130 779.6 0 130 150 73 779.6 0 73 151 79 779.6 0 79 152 89 779.6 0 89 153 100 779.6 0 100 154 134 779.6 0 134 155 50 779.6 0 50 156 66 779.6 0 66 157 150 779.6 0 150 158 156 779.6 0 156 159 533 779.6 0 533 160 527 779.6 0 527 161 237 779.6 0 237 162 78 779.6 0 78 163 135 779.6 0 135 164 258 779.6 0 258 165 229 779.6 0 229 166 105 779.6 0 105 167 89 779.6 0 89 168 105 779.6 0 105 169 67 779.6 0 67 170 66 779.6 0 66 171 74 779.6 0 74 172 61 779.6 0 61 173 57 779.6 0 57 174 49 779.6 0 49 175 24 779.6 0 24 176 39 779.6 0 39 177 69 779.6 0 69 178 112 779.6 0 112 179 202 779.6 0 202 180 194 779.6 0 194 181 82 779.6 0 82 182 83 779.6 0 83 183 121 779.6 0 121 184 172 779.6 0 172 185 74 779.6 0 74 186 37 779.6 0 37 187 28 779.6 0 28 188 51 779.6 0 51 189 103 779.6 0 103 190 197 779.6 0 197 191 106 779.6 0 106 192 70 779.6 0 70 193 28 779.6 0 28 194 19 779.6 0 19 195 49 779.6 0 49 196 80 779.6 0 80 197 83 779.6 0 83 198 75 779.6 0 75 199 79 779.6 0 79 200 55 779.6 0 55 201 65 779.6 0 65 202 103 779.6 0 103 203 304 779.6 0 304 204 285 779.6 0 285 205 281 779.6 0 281 206 215 779.6 0 215 207 113 779.6 0 113 208 70 779.6 0 70 209 108 779.6 0 108 210 85 779.6 0 85 211 57 779.6 0 57 212 67 779.6 0 67 213 35 779.6 0 35 214 64 779.6 0 64 215 117 779.6 0 117 216 80 779.6 0 80 217 119 779.6 0 119 218 86 779.6 0 86 219 74 779.6 0 74 220 67 779.6 0 67 221 37 779.6 0 37 222 89 779.6 0 89 223 271 779.6 0 271 224 192 779.6 0 192 225 126 779.6 0 126 226 207 779.6 0 207 227 149 779.6 0 149 228 151 779.6 0 151 229 70 779.6 0 70 230 97 779.6 0 97 231 82 779.6 0 82 232 105 779.6 0 105 233 97 779.6 0 97 234 182 779.6 0 182 235 70 779.6 0 70 236 35 779.6 0 35 237 38 779.6 0 38 238 32 779.6 0 32 239 58 779.6 0 58 240 117 779.6 0 117 241 239 779.6 0 239 242 145 779.6 0 145 243 251 779.6 0 251 244 225 779.6 0 225 245 137 779.6 0 137 246 128 779.6 0 128 247 137 779.6 0 137 248 93 779.6 0 93 249 119 779.6 0 119 250 186 779.6 0 186 251 233 779.6 0 233 252 430 779.6 0 430 253 822 779.6 0 822 254 5755 779.6 0 5755 255 3817 779.6 0 3817 256 6427 779.6 0 6427 257 682 779.6 0 682 258 284 779.6 0 284 259 254 779.6 0 254 260 1881 779.6 0 1881 261 3025 779.6 0 3025 262 3827 779.6 0 3827 263 268 779.6 0 268 264 409 779.6 0 409 265 263 779.6 0 263 266 81 779.6 0 81 267 99 779.6 0 99 268 100 779.6 0 100 269 86 779.6 0 86 270 94 779.6 0 94 271 123 779.6 0 123 272 208 779.6 0 208 273 231 779.6 0 231 274 355 779.6 0 355 275 832 779.6 0 832 276 401 779.6 0 401 277 1906 779.6 0 1906 278 1375 779.6 0 1375 279 2318 779.6 0 2318 280 753 779.6 0 753 281 96 779.6 0 96 282 158 779.6 0 158 283 95 779.6 0 95 284 92 779.6 0 92 285 110 779.6 0 110 286 81 779.6 0 81 287 37 779.6 0 37 288 47 779.6 0 47 289 65 779.6 0 65 290 93 779.6 0 93 291 175 779.6 0 175 292 96 779.6 0 96 293 73 779.6 0 73 294 47 779.6 0 47 295 33 779.6 0 33 296 49 779.6 0 49 297 145 779.6 0 145 298 93 779.6 0 93 299 55 779.6 0 55 300 92 779.6 0 92 301 132 779.6 0 132 Finished in 60.89 s (52 us/read; 1.16 M reads/minute). === Summary === Total reads processed: 1,181,334 Reads with adapters: 11,209 (0.9%) Reads that were too short: 669 (0.1%) Reads written (passing filters): 10,540 (0.9%) Total basepairs processed: 317,382,945 bp Total written (filtered): 2,789,474 bp (0.9%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 11209 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 3 0.0 3 0 0 3 16 134 0.0 3 0 127 5 2 17 9581 0.0 3 9230 308 32 11 18 40 0.0 3 2 33 2 3 19 8 0.0 3 0 1 2 5 20 131 0.0 3 113 5 1 12 29 1 0.0 3 0 0 0 1 32 1 0.0 3 0 0 0 1 41 1 0.0 3 1 50 1 0.0 3 0 0 0 1 55 1 0.0 3 0 0 0 1 59 1 0.0 3 0 0 0 1 67 4 0.0 3 0 0 0 4 68 1 0.0 3 0 0 0 1 69 1 0.0 3 0 0 0 1 70 2 0.0 3 0 0 0 2 71 2 0.0 3 0 0 0 2 76 1 0.0 3 0 0 0 1 89 1 0.0 3 0 0 0 1 91 1 0.0 3 0 0 0 1 94 1 0.0 3 0 0 0 1 95 1 0.0 3 0 0 0 1 109 1 0.0 3 0 0 0 1 116 1 0.0 3 1 117 3 0.0 3 0 0 0 3 118 1 0.0 3 0 0 0 1 121 1 0.0 3 0 0 0 1 127 1 0.0 3 0 0 0 1 129 1 0.0 3 0 0 0 1 130 3 0.0 3 0 0 0 3 133 3 0.0 3 0 0 0 3 135 1 0.0 3 0 0 0 1 137 15 0.0 3 0 0 0 15 138 2 0.0 3 0 0 0 2 140 8 0.0 3 0 0 0 8 141 27 0.0 3 0 0 0 27 150 2 0.0 3 0 1 0 1 155 1 0.0 3 0 0 0 1 156 8 0.0 3 0 0 0 8 157 1 0.0 3 0 0 0 1 160 3 0.0 3 0 0 0 3 166 1 0.0 3 0 1 168 14 0.0 3 0 0 0 14 169 531 0.0 3 0 0 0 531 170 1 0.0 3 0 0 0 1 171 1 0.0 3 0 0 0 1 172 1 0.0 3 0 0 0 1 180 1 0.0 3 0 0 0 1 181 1 0.0 3 0 0 0 1 182 4 0.0 3 0 0 1 3 183 4 0.0 3 0 0 0 4 193 1 0.0 3 0 0 0 1 194 4 0.0 3 0 0 0 4 198 17 0.0 3 0 0 0 17 199 1 0.0 3 0 0 0 1 202 2 0.0 3 0 0 0 2 209 1 0.0 3 0 0 0 1 210 1 0.0 3 0 0 0 1 215 1 0.0 3 0 1 219 1 0.0 3 0 0 0 1 223 1 0.0 3 0 0 0 1 231 1 0.0 3 0 0 0 1 232 1 0.0 3 0 0 0 1 233 1 0.0 3 0 0 0 1 236 1 0.0 3 0 0 0 1 239 1 0.0 3 0 0 0 1 240 1 0.0 3 0 0 0 1 242 1 0.0 3 0 0 0 1 246 1 0.0 3 0 0 0 1 247 8 0.0 3 0 0 0 8 255 1 0.0 3 0 0 0 1 256 8 0.0 3 0 0 0 8 257 16 0.0 3 0 0 0 16 258 125 0.0 3 0 0 0 125 259 294 0.0 3 0 0 1 293 260 100 0.0 3 0 0 2 98 262 14 0.0 3 0 0 0 14 263 1 0.0 3 0 0 0 1 264 2 0.0 3 0 0 0 2 265 25 0.0 3 0 0 0 25 266 5 0.0 3 0 0 0 5 267 7 0.0 3 0 0 0 7 268 1 0.0 3 0 0 0 1 269 1 0.0 3 0 0 0 1 270 1 0.0 3 0 0 0 1 271 1 0.0 3 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 0.45 s (43 us/read; 1.41 M reads/minute). === Summary === Total reads processed: 10,540 Reads with adapters: 527 (5.0%) Reads written (passing filters): 10,540 (100.0%) Total basepairs processed: 2,789,474 bp Total written (filtered): 2,787,825 bp (99.9%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 527 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 46.1% C: 7.6% G: 26.8% T: 19.5% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 461 164.7 0 461 4 64 41.2 0 64 5 2 10.3 0 2