This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AAGGTC -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 96.90 s (30 us/read; 1.98 M reads/minute). === Summary === Total reads processed: 3,193,041 Reads with adapters: 691,671 (21.7%) Reads that were too short: 11,972 (0.4%) Reads written (passing filters): 679,699 (21.3%) Total basepairs processed: 961,105,341 bp Total written (filtered): 155,346,330 bp (16.2%) === Adapter 1 === Sequence: AAGGTC; Type: regular 5'; Length: 6; Trimmed: 691671 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 3101 779.6 0 3101 7 10699 779.6 0 10699 8 2696 779.6 0 2696 9 142335 779.6 0 142335 10 265 779.6 0 265 11 32 779.6 0 32 12 47 779.6 0 47 13 15 779.6 0 15 14 21 779.6 0 21 15 34 779.6 0 34 16 22 779.6 0 22 17 40 779.6 0 40 18 32 779.6 0 32 19 28 779.6 0 28 20 37 779.6 0 37 21 37 779.6 0 37 22 26 779.6 0 26 23 11 779.6 0 11 24 27 779.6 0 27 25 27 779.6 0 27 26 12 779.6 0 12 27 20 779.6 0 20 28 14 779.6 0 14 29 19 779.6 0 19 30 29 779.6 0 29 31 28 779.6 0 28 32 22 779.6 0 22 33 17 779.6 0 17 34 15 779.6 0 15 35 30 779.6 0 30 36 34 779.6 0 34 37 28 779.6 0 28 38 35 779.6 0 35 39 22 779.6 0 22 40 19 779.6 0 19 41 29 779.6 0 29 42 25 779.6 0 25 43 26 779.6 0 26 44 39 779.6 0 39 45 26 779.6 0 26 46 28 779.6 0 28 47 28 779.6 0 28 48 23 779.6 0 23 49 16 779.6 0 16 50 21 779.6 0 21 51 100 779.6 0 100 52 45 779.6 0 45 53 51 779.6 0 51 54 81 779.6 0 81 55 58 779.6 0 58 56 53 779.6 0 53 57 111 779.6 0 111 58 42 779.6 0 42 59 106 779.6 0 106 60 117 779.6 0 117 61 102 779.6 0 102 62 355 779.6 0 355 63 107 779.6 0 107 64 82 779.6 0 82 65 60 779.6 0 60 66 206 779.6 0 206 67 144 779.6 0 144 68 321 779.6 0 321 69 468 779.6 0 468 70 554 779.6 0 554 71 535 779.6 0 535 72 1284 779.6 0 1284 73 3386 779.6 0 3386 74 926 779.6 0 926 75 1109 779.6 0 1109 76 2055 779.6 0 2055 77 1107 779.6 0 1107 78 1023 779.6 0 1023 79 2335 779.6 0 2335 80 3094 779.6 0 3094 81 3072 779.6 0 3072 82 3018 779.6 0 3018 83 5549 779.6 0 5549 84 5677 779.6 0 5677 85 6225 779.6 0 6225 86 68214 779.6 0 68214 87 283444 779.6 0 283444 88 85875 779.6 0 85875 89 383 779.6 0 383 90 35 779.6 0 35 91 18 779.6 0 18 92 25 779.6 0 25 93 44 779.6 0 44 94 45 779.6 0 45 95 22 779.6 0 22 96 16 779.6 0 16 97 19 779.6 0 19 98 14 779.6 0 14 99 42 779.6 0 42 100 63 779.6 0 63 101 43 779.6 0 43 102 23 779.6 0 23 103 27 779.6 0 27 104 24 779.6 0 24 105 116 779.6 0 116 106 10 779.6 0 10 107 13 779.6 0 13 108 6 779.6 0 6 109 15 779.6 0 15 110 34 779.6 0 34 111 23 779.6 0 23 112 26 779.6 0 26 113 16 779.6 0 16 114 18 779.6 0 18 115 29 779.6 0 29 116 37 779.6 0 37 117 41 779.6 0 41 118 48 779.6 0 48 119 55 779.6 0 55 120 49 779.6 0 49 121 45 779.6 0 45 122 48 779.6 0 48 123 275 779.6 0 275 124 569 779.6 0 569 125 963 779.6 0 963 126 635 779.6 0 635 127 361 779.6 0 361 128 73 779.6 0 73 129 70 779.6 0 70 130 92 779.6 0 92 131 200 779.6 0 200 132 47 779.6 0 47 133 39 779.6 0 39 134 71 779.6 0 71 135 49 779.6 0 49 136 73 779.6 0 73 137 92 779.6 0 92 138 65 779.6 0 65 139 94 779.6 0 94 140 86 779.6 0 86 141 101 779.6 0 101 142 145 779.6 0 145 143 236 779.6 0 236 144 2868 779.6 0 2868 145 3015 779.6 0 3015 146 4345 779.6 0 4345 147 83 779.6 0 83 148 17 779.6 0 17 149 29 779.6 0 29 150 16 779.6 0 16 151 21 779.6 0 21 152 34 779.6 0 34 153 22 779.6 0 22 154 20 779.6 0 20 155 29 779.6 0 29 156 54 779.6 0 54 157 54 779.6 0 54 158 31 779.6 0 31 159 37 779.6 0 37 160 28 779.6 0 28 161 44 779.6 0 44 162 39 779.6 0 39 163 48 779.6 0 48 164 69 779.6 0 69 165 92 779.6 0 92 166 1261 779.6 0 1261 167 506 779.6 0 506 168 1360 779.6 0 1360 169 47 779.6 0 47 170 48 779.6 0 48 171 85 779.6 0 85 172 213 779.6 0 213 173 62 779.6 0 62 174 74 779.6 0 74 175 67 779.6 0 67 176 32 779.6 0 32 177 57 779.6 0 57 178 87 779.6 0 87 179 120 779.6 0 120 180 128 779.6 0 128 181 108 779.6 0 108 182 125 779.6 0 125 183 187 779.6 0 187 184 335 779.6 0 335 185 4914 779.6 0 4914 186 3482 779.6 0 3482 187 7627 779.6 0 7627 188 48 779.6 0 48 189 22 779.6 0 22 190 39 779.6 0 39 191 92 779.6 0 92 192 64 779.6 0 64 193 81 779.6 0 81 194 29 779.6 0 29 195 48 779.6 0 48 196 40 779.6 0 40 197 60 779.6 0 60 198 97 779.6 0 97 199 43 779.6 0 43 200 28 779.6 0 28 201 52 779.6 0 52 202 48 779.6 0 48 203 94 779.6 0 94 204 110 779.6 0 110 205 125 779.6 0 125 206 1234 779.6 0 1234 207 995 779.6 0 995 208 2258 779.6 0 2258 209 60 779.6 0 60 210 197 779.6 0 197 211 631 779.6 0 631 212 188 779.6 0 188 213 348 779.6 0 348 214 22 779.6 0 22 215 22 779.6 0 22 216 29 779.6 0 29 217 32 779.6 0 32 218 20 779.6 0 20 219 14 779.6 0 14 220 9 779.6 0 9 221 16 779.6 0 16 222 55 779.6 0 55 223 73 779.6 0 73 224 35 779.6 0 35 225 43 779.6 0 43 226 50 779.6 0 50 227 82 779.6 0 82 228 89 779.6 0 89 229 16 779.6 0 16 230 8 779.6 0 8 231 12 779.6 0 12 232 20 779.6 0 20 233 22 779.6 0 22 234 41 779.6 0 41 235 24 779.6 0 24 236 13 779.6 0 13 237 9 779.6 0 9 238 23 779.6 0 23 239 28 779.6 0 28 240 29 779.6 0 29 241 495 779.6 0 495 242 417 779.6 0 417 243 579 779.6 0 579 244 36 779.6 0 36 245 25 779.6 0 25 246 35 779.6 0 35 247 27 779.6 0 27 248 9 779.6 0 9 249 8 779.6 0 8 250 38 779.6 0 38 251 59 779.6 0 59 252 90 779.6 0 90 253 51 779.6 0 51 254 19 779.6 0 19 255 25 779.6 0 25 256 21 779.6 0 21 257 20 779.6 0 20 258 14 779.6 0 14 259 80 779.6 0 80 260 55 779.6 0 55 261 49 779.6 0 49 262 37 779.6 0 37 263 142 779.6 0 142 264 80 779.6 0 80 265 435 779.6 0 435 266 55 779.6 0 55 267 46 779.6 0 46 268 14 779.6 0 14 269 16 779.6 0 16 270 13 779.6 0 13 271 23 779.6 0 23 272 36 779.6 0 36 273 28 779.6 0 28 274 20 779.6 0 20 275 56 779.6 0 56 276 54 779.6 0 54 277 98 779.6 0 98 278 103 779.6 0 103 279 45 779.6 0 45 280 16 779.6 0 16 281 21 779.6 0 21 282 24 779.6 0 24 283 56 779.6 0 56 284 21 779.6 0 21 285 12 779.6 0 12 286 40 779.6 0 40 287 28 779.6 0 28 288 21 779.6 0 21 289 29 779.6 0 29 290 46 779.6 0 46 291 81 779.6 0 81 292 38 779.6 0 38 293 31 779.6 0 31 294 60 779.6 0 60 295 67 779.6 0 67 296 132 779.6 0 132 297 118 779.6 0 118 298 141 779.6 0 141 299 100 779.6 0 100 300 80 779.6 0 80 301 233 779.6 0 233 Finished in 33.99 s (50 us/read; 1.20 M reads/minute). === Summary === Total reads processed: 679,699 Reads with adapters: 10,194 (1.5%) Reads that were too short: 105 (0.0%) Reads written (passing filters): 10,089 (1.5%) Total basepairs processed: 155,346,330 bp Total written (filtered): 2,723,962 bp (1.8%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 10194 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 19 19 0.0 3 0 19 20 745 0.0 4 725 17 3 21 162 0.0 4 10 147 5 22 8946 0.0 4 8697 214 28 5 2 23 29 0.0 4 9 20 24 1 0.0 4 0 0 1 25 9 0.0 4 0 0 0 7 2 26 1 0.0 4 0 0 0 1 41 2 0.0 4 0 1 0 0 1 48 4 0.0 4 0 0 0 0 4 58 2 0.0 4 0 0 1 0 1 73 6 0.0 4 0 0 0 0 6 74 106 0.0 4 0 0 0 0 106 95 1 0.0 4 0 0 0 0 1 96 1 0.0 4 1 127 22 0.0 4 0 0 0 0 22 128 1 0.0 4 0 0 0 0 1 129 9 0.0 4 0 0 0 0 9 130 1 0.0 4 0 0 0 0 1 137 1 0.0 4 0 0 0 0 1 143 1 0.0 4 0 0 0 0 1 145 2 0.0 4 0 0 0 0 2 146 3 0.0 4 0 0 0 0 3 149 3 0.0 4 0 0 0 0 3 150 1 0.0 4 0 0 0 0 1 151 10 0.0 4 0 0 0 0 10 152 1 0.0 4 0 0 0 0 1 153 18 0.0 4 0 0 0 0 18 154 5 0.0 4 0 0 0 0 5 155 2 0.0 4 0 0 0 0 2 156 4 0.0 4 0 0 0 0 4 157 1 0.0 4 0 0 0 0 1 158 1 0.0 4 0 0 0 0 1 176 4 0.0 4 0 0 0 0 4 177 7 0.0 4 0 0 0 1 6 178 15 0.0 4 0 0 0 0 15 179 13 0.0 4 0 0 0 0 13 181 1 0.0 4 0 0 0 0 1 203 3 0.0 4 0 0 0 1 2 210 1 0.0 4 0 0 0 0 1 211 1 0.0 4 0 0 0 0 1 212 2 0.0 4 0 0 0 0 2 214 1 0.0 4 0 0 0 0 1 228 2 0.0 4 0 0 0 0 2 232 1 0.0 4 0 0 0 0 1 233 2 0.0 4 0 0 0 0 2 234 2 0.0 4 0 0 0 0 2 235 1 0.0 4 0 0 0 0 1 256 2 0.0 4 0 0 0 0 2 258 7 0.0 4 0 0 0 0 7 260 4 0.0 4 0 0 0 0 4 263 1 0.0 4 0 0 0 0 1 269 1 0.0 4 0 0 0 1 270 1 0.0 4 0 0 0 0 1 282 1 0.0 4 0 0 0 0 1 285 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 0.39 s (39 us/read; 1.55 M reads/minute). === Summary === Total reads processed: 10,089 Reads with adapters: 900 (8.9%) Reads written (passing filters): 10,089 (100.0%) Total basepairs processed: 2,723,962 bp Total written (filtered): 2,713,314 bp (99.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 900 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.9% C: 3.2% G: 92.0% T: 1.9% none/other: 0.0% WARNING: The adapter is preceded by "G" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "G" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 4 157.6 0 4 4 1 39.4 0 1 6 1 2.5 0 1 9 67 0.0 0 5 62 10 171 0.0 1 4 167 11 644 0.0 1 2 642 12 4 0.0 1 0 4 15 1 0.0 1 0 1 150 5 0.0 1 4 1 208 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.