This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CGGCCA -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 141.25 s (45 us/read; 1.35 M reads/minute). === Summary === Total reads processed: 3,166,434 Reads with adapters: 156,266 (4.9%) Reads that were too short: 34,584 (1.1%) Reads written (passing filters): 121,682 (3.8%) Total basepairs processed: 953,096,634 bp Total written (filtered): 32,997,793 bp (3.5%) === Adapter 1 === Sequence: CGGCCA; Type: regular 5'; Length: 6; Trimmed: 156266 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 9872 773.1 0 9872 7 48125 773.1 0 48125 8 1401 773.1 0 1401 9 40992 773.1 0 40992 10 54 773.1 0 54 11 93 773.1 0 93 12 43 773.1 0 43 13 28 773.1 0 28 14 30 773.1 0 30 15 18 773.1 0 18 16 29 773.1 0 29 17 30 773.1 0 30 18 26 773.1 0 26 19 29 773.1 0 29 20 29 773.1 0 29 21 34 773.1 0 34 22 32 773.1 0 32 23 26 773.1 0 26 24 36 773.1 0 36 25 29 773.1 0 29 26 23 773.1 0 23 27 27 773.1 0 27 28 37 773.1 0 37 29 35 773.1 0 35 30 45 773.1 0 45 31 36 773.1 0 36 32 44 773.1 0 44 33 33 773.1 0 33 34 38 773.1 0 38 35 34 773.1 0 34 36 31 773.1 0 31 37 42 773.1 0 42 38 54 773.1 0 54 39 33 773.1 0 33 40 26 773.1 0 26 41 114 773.1 0 114 42 136 773.1 0 136 43 132 773.1 0 132 44 35 773.1 0 35 45 24 773.1 0 24 46 49 773.1 0 49 47 48 773.1 0 48 48 51 773.1 0 51 49 58 773.1 0 58 50 33 773.1 0 33 51 30 773.1 0 30 52 42 773.1 0 42 53 48 773.1 0 48 54 47 773.1 0 47 55 64 773.1 0 64 56 49 773.1 0 49 57 33 773.1 0 33 58 36 773.1 0 36 59 31 773.1 0 31 60 28 773.1 0 28 61 28 773.1 0 28 62 27 773.1 0 27 63 33 773.1 0 33 64 193 773.1 0 193 65 165 773.1 0 165 66 214 773.1 0 214 67 29 773.1 0 29 68 35 773.1 0 35 69 28 773.1 0 28 70 38 773.1 0 38 71 31 773.1 0 31 72 38 773.1 0 38 73 152 773.1 0 152 74 353 773.1 0 353 75 222 773.1 0 222 76 430 773.1 0 430 77 49 773.1 0 49 78 58 773.1 0 58 79 34 773.1 0 34 80 37 773.1 0 37 81 47 773.1 0 47 82 40 773.1 0 40 83 58 773.1 0 58 84 42 773.1 0 42 85 35 773.1 0 35 86 45 773.1 0 45 87 95 773.1 0 95 88 72 773.1 0 72 89 160 773.1 0 160 90 34 773.1 0 34 91 36 773.1 0 36 92 76 773.1 0 76 93 53 773.1 0 53 94 44 773.1 0 44 95 45 773.1 0 45 96 49 773.1 0 49 97 50 773.1 0 50 98 46 773.1 0 46 99 53 773.1 0 53 100 40 773.1 0 40 101 38 773.1 0 38 102 41 773.1 0 41 103 35 773.1 0 35 104 30 773.1 0 30 105 49 773.1 0 49 106 25 773.1 0 25 107 29 773.1 0 29 108 41 773.1 0 41 109 51 773.1 0 51 110 27 773.1 0 27 111 41 773.1 0 41 112 43 773.1 0 43 113 32 773.1 0 32 114 34 773.1 0 34 115 51 773.1 0 51 116 44 773.1 0 44 117 54 773.1 0 54 118 49 773.1 0 49 119 40 773.1 0 40 120 53 773.1 0 53 121 41 773.1 0 41 122 47 773.1 0 47 123 44 773.1 0 44 124 34 773.1 0 34 125 46 773.1 0 46 126 43 773.1 0 43 127 42 773.1 0 42 128 65 773.1 0 65 129 35 773.1 0 35 130 41 773.1 0 41 131 40 773.1 0 40 132 58 773.1 0 58 133 34 773.1 0 34 134 44 773.1 0 44 135 34 773.1 0 34 136 28 773.1 0 28 137 55 773.1 0 55 138 53 773.1 0 53 139 37 773.1 0 37 140 31 773.1 0 31 141 40 773.1 0 40 142 77 773.1 0 77 143 60 773.1 0 60 144 59 773.1 0 59 145 58 773.1 0 58 146 62 773.1 0 62 147 36 773.1 0 36 148 54 773.1 0 54 149 55 773.1 0 55 150 115 773.1 0 115 151 675 773.1 0 675 152 700 773.1 0 700 153 448 773.1 0 448 154 213 773.1 0 213 155 109 773.1 0 109 156 1822 773.1 0 1822 157 1752 773.1 0 1752 158 1442 773.1 0 1442 159 233 773.1 0 233 160 75 773.1 0 75 161 61 773.1 0 61 162 44 773.1 0 44 163 89 773.1 0 89 164 498 773.1 0 498 165 322 773.1 0 322 166 262 773.1 0 262 167 162 773.1 0 162 168 94 773.1 0 94 169 103 773.1 0 103 170 271 773.1 0 271 171 508 773.1 0 508 172 275 773.1 0 275 173 88 773.1 0 88 174 60 773.1 0 60 175 93 773.1 0 93 176 420 773.1 0 420 177 575 773.1 0 575 178 575 773.1 0 575 179 237 773.1 0 237 180 60 773.1 0 60 181 67 773.1 0 67 182 58 773.1 0 58 183 65 773.1 0 65 184 74 773.1 0 74 185 64 773.1 0 64 186 89 773.1 0 89 187 41 773.1 0 41 188 101 773.1 0 101 189 63 773.1 0 63 190 52 773.1 0 52 191 43 773.1 0 43 192 37 773.1 0 37 193 36 773.1 0 36 194 27 773.1 0 27 195 38 773.1 0 38 196 54 773.1 0 54 197 47 773.1 0 47 198 26 773.1 0 26 199 64 773.1 0 64 200 89 773.1 0 89 201 110 773.1 0 110 202 59 773.1 0 59 203 38 773.1 0 38 204 30 773.1 0 30 205 45 773.1 0 45 206 36 773.1 0 36 207 40 773.1 0 40 208 43 773.1 0 43 209 39 773.1 0 39 210 32 773.1 0 32 211 43 773.1 0 43 212 36 773.1 0 36 213 44 773.1 0 44 214 39 773.1 0 39 215 50 773.1 0 50 216 39 773.1 0 39 217 32 773.1 0 32 218 34 773.1 0 34 219 38 773.1 0 38 220 51 773.1 0 51 221 39 773.1 0 39 222 44 773.1 0 44 223 51 773.1 0 51 224 45 773.1 0 45 225 35 773.1 0 35 226 67 773.1 0 67 227 57 773.1 0 57 228 76 773.1 0 76 229 74 773.1 0 74 230 84 773.1 0 84 231 71 773.1 0 71 232 234 773.1 0 234 233 689 773.1 0 689 234 331 773.1 0 331 235 268 773.1 0 268 236 301 773.1 0 301 237 177 773.1 0 177 238 232 773.1 0 232 239 73 773.1 0 73 240 86 773.1 0 86 241 40 773.1 0 40 242 34 773.1 0 34 243 68 773.1 0 68 244 53 773.1 0 53 245 50 773.1 0 50 246 53 773.1 0 53 247 58 773.1 0 58 248 108 773.1 0 108 249 195 773.1 0 195 250 233 773.1 0 233 251 174 773.1 0 174 252 96 773.1 0 96 253 610 773.1 0 610 254 390 773.1 0 390 255 712 773.1 0 712 256 98 773.1 0 98 257 270 773.1 0 270 258 228 773.1 0 228 259 566 773.1 0 566 260 556 773.1 0 556 261 2985 773.1 0 2985 262 4718 773.1 0 4718 263 5818 773.1 0 5818 264 4054 773.1 0 4054 265 1871 773.1 0 1871 266 47 773.1 0 47 267 35 773.1 0 35 268 48 773.1 0 48 269 41 773.1 0 41 270 39 773.1 0 39 271 38 773.1 0 38 272 54 773.1 0 54 273 45 773.1 0 45 274 60 773.1 0 60 275 51 773.1 0 51 276 45 773.1 0 45 277 191 773.1 0 191 278 128 773.1 0 128 279 68 773.1 0 68 280 54 773.1 0 54 281 62 773.1 0 62 282 70 773.1 0 70 283 67 773.1 0 67 284 51 773.1 0 51 285 62 773.1 0 62 286 40 773.1 0 40 287 249 773.1 0 249 288 367 773.1 0 367 289 201 773.1 0 201 290 51 773.1 0 51 291 76 773.1 0 76 292 161 773.1 0 161 293 145 773.1 0 145 294 116 773.1 0 116 295 175 773.1 0 175 296 169 773.1 0 169 297 241 773.1 0 241 298 1100 773.1 0 1100 299 1016 773.1 0 1016 300 1290 773.1 0 1290 301 91 773.1 0 91 Finished in 8.86 s (73 us/read; 0.82 M reads/minute). === Summary === Total reads processed: 121,682 Reads with adapters: 57,534 (47.3%) Reads that were too short: 19 (0.0%) Reads written (passing filters): 57,515 (47.3%) Total basepairs processed: 32,997,793 bp Total written (filtered): 15,721,759 bp (47.6%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 57534 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 18 7 0.0 3 0 0 4 0 3 19 193 0.0 3 0 190 3 20 50259 0.0 4 49573 661 21 3 1 21 95 0.0 4 9 80 5 1 22 127 0.0 4 13 111 1 0 2 23 6567 0.0 4 6442 94 2 24 5 24 19 0.0 4 4 13 2 25 1 0.0 4 0 0 0 0 1 26 2 0.0 4 0 0 0 2 41 1 0.0 4 0 0 0 0 1 56 1 0.0 4 0 0 0 0 1 64 2 0.0 4 0 0 0 0 2 65 2 0.0 4 0 0 0 0 2 70 27 0.0 4 0 0 0 0 27 77 1 0.0 4 1 85 1 0.0 4 0 0 0 0 1 94 2 0.0 4 0 0 0 0 2 110 1 0.0 4 1 115 1 0.0 4 0 0 0 0 1 123 2 0.0 4 0 0 0 0 2 125 1 0.0 4 0 0 0 0 1 126 1 0.0 4 0 0 0 0 1 127 208 0.0 4 0 0 0 0 208 130 1 0.0 4 0 0 0 0 1 142 1 0.0 4 0 0 0 0 1 152 1 0.0 4 0 0 0 0 1 214 1 0.0 4 0 0 0 0 1 216 1 0.0 4 0 0 0 0 1 228 1 0.0 4 0 0 0 0 1 236 1 0.0 4 0 0 0 0 1 258 1 0.0 4 0 0 0 0 1 260 1 0.0 4 0 0 0 0 1 263 1 0.0 4 0 0 0 0 1 264 1 0.0 4 0 0 0 0 1 265 1 0.0 4 0 0 0 0 1 283 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 3.03 s (53 us/read; 1.14 M reads/minute). === Summary === Total reads processed: 57,515 Reads with adapters: 3,450 (6.0%) Reads written (passing filters): 57,515 (100.0%) Total basepairs processed: 15,721,759 bp Total written (filtered): 15,684,447 bp (99.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 3450 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.0% C: 2.4% G: 94.7% T: 1.0% 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 60 898.7 0 60 4 6 224.7 0 6 5 1 56.2 0 1 6 2 14.0 0 2 9 659 0.2 0 19 640 10 315 0.1 1 15 300 11 2342 0.0 1 5 2337 12 50 0.0 1 18 32 13 3 0.0 1 1 2 14 1 0.0 1 0 1 18 1 0.0 1 1 23 1 0.0 1 1 114 2 0.0 1 2 152 1 0.0 1 0 1 171 2 0.0 1 1 1 191 1 0.0 1 0 1 208 2 0.0 1 2 225 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.