This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TGGCGG -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ggactacnngggtatctaat -e 0.2 -O 20 - Trimming 1 adapter with at most 20.0% errors in single-end mode ... Finished in 164.55 s (47 us/read; 1.27 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 73,650 (2.1%) Reads that were too short: 25,371 (0.7%) Reads written (passing filters): 48,279 (1.4%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 12,044,473 bp (1.2%) === Adapter 1 === Sequence: TGGCGG; Type: regular 5'; Length: 6; Trimmed: 73650 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1062 847.3 0 1062 7 13216 847.3 0 13216 8 368 847.3 0 368 9 12447 847.3 0 12447 10 103 847.3 0 103 11 67 847.3 0 67 12 84 847.3 0 84 13 91 847.3 0 91 14 100 847.3 0 100 15 74 847.3 0 74 16 52 847.3 0 52 17 83 847.3 0 83 18 125 847.3 0 125 19 86 847.3 0 86 20 71 847.3 0 71 21 61 847.3 0 61 22 77 847.3 0 77 23 62 847.3 0 62 24 61 847.3 0 61 25 64 847.3 0 64 26 60 847.3 0 60 27 62 847.3 0 62 28 69 847.3 0 69 29 67 847.3 0 67 30 90 847.3 0 90 31 62 847.3 0 62 32 74 847.3 0 74 33 72 847.3 0 72 34 70 847.3 0 70 35 79 847.3 0 79 36 80 847.3 0 80 37 107 847.3 0 107 38 97 847.3 0 97 39 107 847.3 0 107 40 75 847.3 0 75 41 86 847.3 0 86 42 71 847.3 0 71 43 83 847.3 0 83 44 94 847.3 0 94 45 82 847.3 0 82 46 97 847.3 0 97 47 386 847.3 0 386 48 297 847.3 0 297 49 215 847.3 0 215 50 106 847.3 0 106 51 86 847.3 0 86 52 172 847.3 0 172 53 75 847.3 0 75 54 103 847.3 0 103 55 98 847.3 0 98 56 81 847.3 0 81 57 58 847.3 0 58 58 106 847.3 0 106 59 182 847.3 0 182 60 201 847.3 0 201 61 144 847.3 0 144 62 131 847.3 0 131 63 92 847.3 0 92 64 64 847.3 0 64 65 63 847.3 0 63 66 75 847.3 0 75 67 77 847.3 0 77 68 71 847.3 0 71 69 96 847.3 0 96 70 87 847.3 0 87 71 71 847.3 0 71 72 97 847.3 0 97 73 78 847.3 0 78 74 73 847.3 0 73 75 70 847.3 0 70 76 113 847.3 0 113 77 169 847.3 0 169 78 121 847.3 0 121 79 104 847.3 0 104 80 141 847.3 0 141 81 72 847.3 0 72 82 78 847.3 0 78 83 91 847.3 0 91 84 378 847.3 0 378 85 340 847.3 0 340 86 214 847.3 0 214 87 79 847.3 0 79 88 59 847.3 0 59 89 65 847.3 0 65 90 72 847.3 0 72 91 94 847.3 0 94 92 67 847.3 0 67 93 68 847.3 0 68 94 91 847.3 0 91 95 69 847.3 0 69 96 75 847.3 0 75 97 70 847.3 0 70 98 57 847.3 0 57 99 85 847.3 0 85 100 49 847.3 0 49 101 69 847.3 0 69 102 79 847.3 0 79 103 70 847.3 0 70 104 67 847.3 0 67 105 73 847.3 0 73 106 88 847.3 0 88 107 70 847.3 0 70 108 65 847.3 0 65 109 77 847.3 0 77 110 77 847.3 0 77 111 80 847.3 0 80 112 365 847.3 0 365 113 589 847.3 0 589 114 173 847.3 0 173 115 78 847.3 0 78 116 64 847.3 0 64 117 81 847.3 0 81 118 66 847.3 0 66 119 91 847.3 0 91 120 70 847.3 0 70 121 86 847.3 0 86 122 58 847.3 0 58 123 75 847.3 0 75 124 74 847.3 0 74 125 73 847.3 0 73 126 72 847.3 0 72 127 152 847.3 0 152 128 142 847.3 0 142 129 113 847.3 0 113 130 130 847.3 0 130 131 98 847.3 0 98 132 256 847.3 0 256 133 357 847.3 0 357 134 434 847.3 0 434 135 216 847.3 0 216 136 136 847.3 0 136 137 83 847.3 0 83 138 87 847.3 0 87 139 88 847.3 0 88 140 110 847.3 0 110 141 670 847.3 0 670 142 359 847.3 0 359 143 299 847.3 0 299 144 78 847.3 0 78 145 72 847.3 0 72 146 82 847.3 0 82 147 84 847.3 0 84 148 137 847.3 0 137 149 81 847.3 0 81 150 64 847.3 0 64 151 99 847.3 0 99 152 314 847.3 0 314 153 316 847.3 0 316 154 246 847.3 0 246 155 119 847.3 0 119 156 68 847.3 0 68 157 82 847.3 0 82 158 75 847.3 0 75 159 66 847.3 0 66 160 63 847.3 0 63 161 90 847.3 0 90 162 79 847.3 0 79 163 89 847.3 0 89 164 82 847.3 0 82 165 72 847.3 0 72 166 104 847.3 0 104 167 90 847.3 0 90 168 68 847.3 0 68 169 97 847.3 0 97 170 88 847.3 0 88 171 77 847.3 0 77 172 86 847.3 0 86 173 100 847.3 0 100 174 73 847.3 0 73 175 76 847.3 0 76 176 67 847.3 0 67 177 72 847.3 0 72 178 75 847.3 0 75 179 53 847.3 0 53 180 64 847.3 0 64 181 69 847.3 0 69 182 75 847.3 0 75 183 79 847.3 0 79 184 97 847.3 0 97 185 72 847.3 0 72 186 84 847.3 0 84 187 175 847.3 0 175 188 67 847.3 0 67 189 91 847.3 0 91 190 76 847.3 0 76 191 81 847.3 0 81 192 92 847.3 0 92 193 84 847.3 0 84 194 62 847.3 0 62 195 66 847.3 0 66 196 75 847.3 0 75 197 78 847.3 0 78 198 78 847.3 0 78 199 76 847.3 0 76 200 69 847.3 0 69 201 111 847.3 0 111 202 121 847.3 0 121 203 279 847.3 0 279 204 76 847.3 0 76 205 87 847.3 0 87 206 70 847.3 0 70 207 76 847.3 0 76 208 56 847.3 0 56 209 73 847.3 0 73 210 56 847.3 0 56 211 93 847.3 0 93 212 92 847.3 0 92 213 141 847.3 0 141 214 98 847.3 0 98 215 82 847.3 0 82 216 104 847.3 0 104 217 104 847.3 0 104 218 106 847.3 0 106 219 105 847.3 0 105 220 106 847.3 0 106 221 69 847.3 0 69 222 56 847.3 0 56 223 53 847.3 0 53 224 86 847.3 0 86 225 84 847.3 0 84 226 73 847.3 0 73 227 77 847.3 0 77 228 66 847.3 0 66 229 152 847.3 0 152 230 286 847.3 0 286 231 140 847.3 0 140 232 71 847.3 0 71 233 59 847.3 0 59 234 88 847.3 0 88 235 394 847.3 0 394 236 367 847.3 0 367 237 353 847.3 0 353 238 162 847.3 0 162 239 108 847.3 0 108 240 68 847.3 0 68 241 62 847.3 0 62 242 61 847.3 0 61 243 57 847.3 0 57 244 89 847.3 0 89 245 145 847.3 0 145 246 219 847.3 0 219 247 180 847.3 0 180 248 143 847.3 0 143 249 93 847.3 0 93 250 93 847.3 0 93 251 75 847.3 0 75 252 119 847.3 0 119 253 105 847.3 0 105 254 95 847.3 0 95 255 373 847.3 0 373 256 553 847.3 0 553 257 497 847.3 0 497 258 162 847.3 0 162 259 65 847.3 0 65 260 119 847.3 0 119 261 145 847.3 0 145 262 114 847.3 0 114 263 81 847.3 0 81 264 73 847.3 0 73 265 63 847.3 0 63 266 62 847.3 0 62 267 57 847.3 0 57 268 68 847.3 0 68 269 74 847.3 0 74 270 72 847.3 0 72 271 81 847.3 0 81 272 113 847.3 0 113 273 716 847.3 0 716 274 482 847.3 0 482 275 175 847.3 0 175 276 287 847.3 0 287 277 68 847.3 0 68 278 96 847.3 0 96 279 76 847.3 0 76 280 102 847.3 0 102 281 97 847.3 0 97 282 91 847.3 0 91 283 164 847.3 0 164 284 256 847.3 0 256 285 322 847.3 0 322 286 258 847.3 0 258 287 251 847.3 0 251 288 223 847.3 0 223 289 185 847.3 0 185 290 131 847.3 0 131 291 147 847.3 0 147 292 137 847.3 0 137 293 140 847.3 0 140 294 195 847.3 0 195 295 163 847.3 0 163 296 276 847.3 0 276 297 358 847.3 0 358 298 4771 847.3 0 4771 299 3618 847.3 0 3618 300 2262 847.3 0 2262 301 279 847.3 0 279 Finished in 3.62 s (75 us/read; 0.80 M reads/minute). === Summary === Total reads processed: 48,279 Reads with adapters: 13,835 (28.7%) Reads that were too short: 4 (0.0%) Reads written (passing filters): 13,831 (28.6%) Total basepairs processed: 12,044,473 bp Total written (filtered): 3,774,657 bp (31.3%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 13835 times. No. of allowed errors: 0-4 bp: 0; 5-9 bp: 1; 10-14 bp: 2; 15-19 bp: 3; 20 bp: 4 Overview of removed sequences length count expect max.err error counts 17 2 0.0 3 0 0 0 1 1 18 13 0.0 3 0 0 13 19 222 0.0 3 0 220 2 20 13397 0.0 4 13093 291 8 2 3 21 30 0.0 4 9 20 1 22 5 0.0 4 2 0 1 1 1 23 14 0.0 4 0 0 0 13 1 24 3 0.0 4 1 0 0 0 2 31 1 0.0 4 1 67 1 0.0 4 1 71 1 0.0 4 0 0 0 0 1 90 1 0.0 4 1 119 1 0.0 4 0 0 0 0 1 127 118 0.0 4 0 0 0 0 118 128 21 0.0 4 0 0 0 0 21 139 3 0.0 4 0 0 0 0 3 237 1 0.0 4 0 0 0 0 1 264 1 0.0 4 0 0 0 0 1 This is cutadapt 1.11 with Python 2.7.12 Command line parameters: -a CTGSTGCVYCCCRTAGG - Trimming 1 adapter with at most 10.0% errors in single-end mode ... Finished in 0.80 s (58 us/read; 1.04 M reads/minute). === Summary === Total reads processed: 13,831 Reads with adapters: 594 (4.3%) Reads written (passing filters): 13,831 (100.0%) Total basepairs processed: 3,774,657 bp Total written (filtered): 3,750,478 bp (99.4%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 594 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.2% C: 28.5% G: 69.0% T: 0.3% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 15 216.1 0 15 4 4 54.0 0 4 10 6 0.0 1 0 6 11 382 0.0 1 5 377 12 30 0.0 1 12 18 13 1 0.0 1 0 1 124 141 0.0 1 131 10 125 13 0.0 1 12 1 152 1 0.0 1 0 1 222 1 0.0 1 0 1