This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGCACT -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 71.11 s (27 us/read; 2.24 M reads/minute). === Summary === Total reads processed: 2,658,179 Reads with adapters: 230,359 (8.7%) Reads that were too short: 14,729 (0.6%) Reads written (passing filters): 215,630 (8.1%) Total basepairs processed: 800,111,879 bp Total written (filtered): 40,134,379 bp (5.0%) === Adapter 1 === Sequence: AGCACT; Type: regular 5'; Length: 6; Trimmed: 230359 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 121 649.0 0 121 7 7397 649.0 0 7397 8 8089 649.0 0 8089 9 30 649.0 0 30 10 18 649.0 0 18 11 17 649.0 0 17 12 41 649.0 0 41 13 49 649.0 0 49 14 89 649.0 0 89 15 36 649.0 0 36 16 14 649.0 0 14 17 15 649.0 0 15 18 19 649.0 0 19 19 21 649.0 0 21 20 30 649.0 0 30 21 29 649.0 0 29 22 34 649.0 0 34 23 20 649.0 0 20 24 25 649.0 0 25 25 71 649.0 0 71 26 47 649.0 0 47 27 59 649.0 0 59 28 48 649.0 0 48 29 66 649.0 0 66 30 38 649.0 0 38 31 35 649.0 0 35 32 54 649.0 0 54 33 36 649.0 0 36 34 36 649.0 0 36 35 92 649.0 0 92 36 61 649.0 0 61 37 40 649.0 0 40 38 35 649.0 0 35 39 32 649.0 0 32 40 41 649.0 0 41 41 44 649.0 0 44 42 44 649.0 0 44 43 43 649.0 0 43 44 46 649.0 0 46 45 26 649.0 0 26 46 63 649.0 0 63 47 47 649.0 0 47 48 35 649.0 0 35 49 51 649.0 0 51 50 199 649.0 0 199 51 57 649.0 0 57 52 30 649.0 0 30 53 43 649.0 0 43 54 51 649.0 0 51 55 85 649.0 0 85 56 67 649.0 0 67 57 56 649.0 0 56 58 70 649.0 0 70 59 51 649.0 0 51 60 50 649.0 0 50 61 64 649.0 0 64 62 100 649.0 0 100 63 47 649.0 0 47 64 63 649.0 0 63 65 111 649.0 0 111 66 83 649.0 0 83 67 94 649.0 0 94 68 50 649.0 0 50 69 37 649.0 0 37 70 41 649.0 0 41 71 43 649.0 0 43 72 67 649.0 0 67 73 41 649.0 0 41 74 60 649.0 0 60 75 51 649.0 0 51 76 35 649.0 0 35 77 55 649.0 0 55 78 56 649.0 0 56 79 105 649.0 0 105 80 154 649.0 0 154 81 86 649.0 0 86 82 108 649.0 0 108 83 47 649.0 0 47 84 59 649.0 0 59 85 60 649.0 0 60 86 108 649.0 0 108 87 143 649.0 0 143 88 184 649.0 0 184 89 259 649.0 0 259 90 405 649.0 0 405 91 767 649.0 0 767 92 275 649.0 0 275 93 388 649.0 0 388 94 464 649.0 0 464 95 248 649.0 0 248 96 242 649.0 0 242 97 417 649.0 0 417 98 453 649.0 0 453 99 530 649.0 0 530 100 457 649.0 0 457 101 742 649.0 0 742 102 1086 649.0 0 1086 103 2753 649.0 0 2753 104 50075 649.0 0 50075 105 30769 649.0 0 30769 106 31903 649.0 0 31903 107 140 649.0 0 140 108 43 649.0 0 43 109 38 649.0 0 38 110 51 649.0 0 51 111 66 649.0 0 66 112 87 649.0 0 87 113 93 649.0 0 93 114 145 649.0 0 145 115 824 649.0 0 824 116 400 649.0 0 400 117 95 649.0 0 95 118 62 649.0 0 62 119 120 649.0 0 120 120 88 649.0 0 88 121 99 649.0 0 99 122 52 649.0 0 52 123 79 649.0 0 79 124 159 649.0 0 159 125 97 649.0 0 97 126 213 649.0 0 213 127 113 649.0 0 113 128 118 649.0 0 118 129 107 649.0 0 107 130 99 649.0 0 99 131 72 649.0 0 72 132 161 649.0 0 161 133 62 649.0 0 62 134 65 649.0 0 65 135 44 649.0 0 44 136 57 649.0 0 57 137 60 649.0 0 60 138 87 649.0 0 87 139 92 649.0 0 92 140 96 649.0 0 96 141 115 649.0 0 115 142 160 649.0 0 160 143 96 649.0 0 96 144 166 649.0 0 166 145 107 649.0 0 107 146 240 649.0 0 240 147 181 649.0 0 181 148 127 649.0 0 127 149 112 649.0 0 112 150 85 649.0 0 85 151 155 649.0 0 155 152 243 649.0 0 243 153 274 649.0 0 274 154 242 649.0 0 242 155 429 649.0 0 429 156 496 649.0 0 496 157 928 649.0 0 928 158 1520 649.0 0 1520 159 22692 649.0 0 22692 160 14996 649.0 0 14996 161 20404 649.0 0 20404 162 135 649.0 0 135 163 66 649.0 0 66 164 72 649.0 0 72 165 66 649.0 0 66 166 94 649.0 0 94 167 156 649.0 0 156 168 99 649.0 0 99 169 148 649.0 0 148 170 63 649.0 0 63 171 84 649.0 0 84 172 120 649.0 0 120 173 138 649.0 0 138 174 83 649.0 0 83 175 64 649.0 0 64 176 62 649.0 0 62 177 102 649.0 0 102 178 76 649.0 0 76 179 82 649.0 0 82 180 215 649.0 0 215 181 177 649.0 0 177 182 101 649.0 0 101 183 82 649.0 0 82 184 169 649.0 0 169 185 108 649.0 0 108 186 216 649.0 0 216 187 103 649.0 0 103 188 130 649.0 0 130 189 181 649.0 0 181 190 101 649.0 0 101 191 55 649.0 0 55 192 72 649.0 0 72 193 73 649.0 0 73 194 64 649.0 0 64 195 74 649.0 0 74 196 190 649.0 0 190 197 131 649.0 0 131 198 138 649.0 0 138 199 204 649.0 0 204 200 558 649.0 0 558 201 398 649.0 0 398 202 293 649.0 0 293 203 57 649.0 0 57 204 102 649.0 0 102 205 162 649.0 0 162 206 113 649.0 0 113 207 114 649.0 0 114 208 82 649.0 0 82 209 120 649.0 0 120 210 60 649.0 0 60 211 64 649.0 0 64 212 67 649.0 0 67 213 63 649.0 0 63 214 107 649.0 0 107 215 86 649.0 0 86 216 74 649.0 0 74 217 73 649.0 0 73 218 138 649.0 0 138 219 142 649.0 0 142 220 104 649.0 0 104 221 101 649.0 0 101 222 97 649.0 0 97 223 240 649.0 0 240 224 70 649.0 0 70 225 66 649.0 0 66 226 91 649.0 0 91 227 95 649.0 0 95 228 118 649.0 0 118 229 115 649.0 0 115 230 124 649.0 0 124 231 113 649.0 0 113 232 94 649.0 0 94 233 86 649.0 0 86 234 97 649.0 0 97 235 83 649.0 0 83 236 93 649.0 0 93 237 122 649.0 0 122 238 239 649.0 0 239 239 296 649.0 0 296 240 609 649.0 0 609 241 600 649.0 0 600 242 644 649.0 0 644 243 246 649.0 0 246 244 86 649.0 0 86 245 64 649.0 0 64 246 108 649.0 0 108 247 80 649.0 0 80 248 117 649.0 0 117 249 80 649.0 0 80 250 90 649.0 0 90 251 108 649.0 0 108 252 86 649.0 0 86 253 87 649.0 0 87 254 96 649.0 0 96 255 114 649.0 0 114 256 122 649.0 0 122 257 129 649.0 0 129 258 103 649.0 0 103 259 88 649.0 0 88 260 60 649.0 0 60 261 67 649.0 0 67 262 77 649.0 0 77 263 82 649.0 0 82 264 86 649.0 0 86 265 103 649.0 0 103 266 99 649.0 0 99 267 130 649.0 0 130 268 117 649.0 0 117 269 110 649.0 0 110 270 122 649.0 0 122 271 100 649.0 0 100 272 115 649.0 0 115 273 118 649.0 0 118 274 170 649.0 0 170 275 151 649.0 0 151 276 167 649.0 0 167 277 132 649.0 0 132 278 454 649.0 0 454 279 329 649.0 0 329 280 340 649.0 0 340 281 390 649.0 0 390 282 322 649.0 0 322 283 485 649.0 0 485 284 117 649.0 0 117 285 84 649.0 0 84 286 81 649.0 0 81 287 97 649.0 0 97 288 116 649.0 0 116 289 131 649.0 0 131 290 96 649.0 0 96 291 140 649.0 0 140 292 167 649.0 0 167 293 130 649.0 0 130 294 144 649.0 0 144 295 146 649.0 0 146 296 109 649.0 0 109 297 70 649.0 0 70 298 95 649.0 0 95 299 145 649.0 0 145 300 239 649.0 0 239 301 278 649.0 0 278 Finished in 7.52 s (35 us/read; 1.72 M reads/minute). === Summary === Total reads processed: 215,630 Reads with adapters: 7,777 (3.6%) Reads that were too short: 111 (0.1%) Reads written (passing filters): 7,666 (3.6%) Total basepairs processed: 40,134,379 bp Total written (filtered): 2,064,627 bp (5.1%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 7777 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 5 0.0 3 0 0 4 1 16 65 0.0 3 0 65 17 7216 0.0 3 7061 151 4 18 8 0.0 3 1 7 19 12 0.0 3 1 0 10 1 20 5 0.0 3 1 0 0 4 23 17 0.0 3 0 0 0 17 28 1 0.0 3 0 0 0 1 31 1 0.0 3 0 1 42 1 0.0 3 0 0 0 1 44 2 0.0 3 0 0 0 2 46 154 0.0 3 0 0 7 147 49 1 0.0 3 0 0 0 1 50 1 0.0 3 0 0 0 1 51 1 0.0 3 0 0 0 1 53 1 0.0 3 0 0 1 54 1 0.0 3 0 0 0 1 57 1 0.0 3 0 0 0 1 58 32 0.0 3 0 0 1 31 61 1 0.0 3 0 0 0 1 63 1 0.0 3 1 68 3 0.0 3 0 0 0 3 70 1 0.0 3 0 0 0 1 71 1 0.0 3 0 0 0 1 74 1 0.0 3 0 0 0 1 75 2 0.0 3 0 0 0 2 78 5 0.0 3 0 0 0 5 79 1 0.0 3 0 0 0 1 81 1 0.0 3 0 0 0 1 84 1 0.0 3 0 0 0 1 85 1 0.0 3 0 0 1 87 45 0.0 3 0 0 0 45 88 30 0.0 3 0 0 1 29 89 2 0.0 3 0 0 0 2 90 15 0.0 3 0 0 1 14 91 16 0.0 3 0 0 0 16 92 2 0.0 3 0 0 0 2 95 1 0.0 3 0 0 0 1 100 1 0.0 3 0 0 0 1 102 1 0.0 3 0 0 0 1 108 1 0.0 3 0 0 0 1 115 1 0.0 3 0 0 0 1 122 4 0.0 3 0 0 0 4 124 1 0.0 3 0 0 0 1 126 1 0.0 3 0 0 0 1 128 2 0.0 3 0 0 0 2 129 1 0.0 3 0 0 0 1 130 7 0.0 3 0 0 0 7 131 3 0.0 3 0 0 0 3 134 1 0.0 3 0 1 135 2 0.0 3 0 0 0 2 137 1 0.0 3 0 0 0 1 138 3 0.0 3 0 0 0 3 139 1 0.0 3 0 0 0 1 140 1 0.0 3 1 141 1 0.0 3 0 1 142 22 0.0 3 0 0 0 22 147 3 0.0 3 0 0 0 3 149 1 0.0 3 0 0 0 1 155 1 0.0 3 0 1 160 1 0.0 3 0 0 0 1 161 1 0.0 3 0 0 0 1 163 1 0.0 3 0 0 0 1 165 3 0.0 3 0 0 0 3 167 1 0.0 3 0 0 0 1 171 3 0.0 3 0 0 0 3 176 1 0.0 3 0 0 0 1 179 6 0.0 3 0 0 0 6 180 7 0.0 3 0 0 0 7 182 1 0.0 3 0 0 0 1 184 1 0.0 3 0 0 0 1 188 2 0.0 3 0 0 0 2 189 30 0.0 3 0 0 2 28 205 1 0.0 3 0 0 0 1 218 1 0.0 3 0 0 0 1 224 1 0.0 3 0 0 1 227 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 0.27 s (35 us/read; 1.70 M reads/minute). === Summary === Total reads processed: 7,666 Reads with adapters: 9 (0.1%) Reads written (passing filters): 7,666 (100.0%) Total basepairs processed: 2,064,627 bp Total written (filtered): 2,064,596 bp (100.0%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 9 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 33.3% C: 0.0% G: 55.6% T: 11.1% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 5 119.8 0 5 4 4 29.9 0 4