This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CGACGT -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 59.42 s (27 us/read; 2.26 M reads/minute). === Summary === Total reads processed: 2,238,925 Reads with adapters: 317,315 (14.2%) Reads that were too short: 23,037 (1.0%) Reads written (passing filters): 294,278 (13.1%) Total basepairs processed: 673,916,425 bp Total written (filtered): 85,324,291 bp (12.7%) === Adapter 1 === Sequence: CGACGT; Type: regular 5'; Length: 6; Trimmed: 317315 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 4424 546.6 0 4424 7 157113 546.6 0 157113 8 3609 546.6 0 3609 9 120951 546.6 0 120951 10 95 546.6 0 95 11 18 546.6 0 18 12 18 546.6 0 18 13 26 546.6 0 26 14 22 546.6 0 22 15 11 546.6 0 11 16 22 546.6 0 22 17 16 546.6 0 16 18 16 546.6 0 16 19 14 546.6 0 14 20 17 546.6 0 17 21 24 546.6 0 24 22 20 546.6 0 20 23 14 546.6 0 14 24 14 546.6 0 14 25 40 546.6 0 40 26 30 546.6 0 30 27 30 546.6 0 30 28 23 546.6 0 23 29 26 546.6 0 26 30 29 546.6 0 29 31 32 546.6 0 32 32 29 546.6 0 29 33 22 546.6 0 22 34 25 546.6 0 25 35 22 546.6 0 22 36 24 546.6 0 24 37 17 546.6 0 17 38 15 546.6 0 15 39 19 546.6 0 19 40 30 546.6 0 30 41 15 546.6 0 15 42 28 546.6 0 28 43 32 546.6 0 32 44 29 546.6 0 29 45 24 546.6 0 24 46 21 546.6 0 21 47 22 546.6 0 22 48 31 546.6 0 31 49 19 546.6 0 19 50 24 546.6 0 24 51 32 546.6 0 32 52 20 546.6 0 20 53 25 546.6 0 25 54 33 546.6 0 33 55 31 546.6 0 31 56 24 546.6 0 24 57 20 546.6 0 20 58 22 546.6 0 22 59 30 546.6 0 30 60 15 546.6 0 15 61 39 546.6 0 39 62 30 546.6 0 30 63 23 546.6 0 23 64 26 546.6 0 26 65 24 546.6 0 24 66 40 546.6 0 40 67 186 546.6 0 186 68 123 546.6 0 123 69 253 546.6 0 253 70 12 546.6 0 12 71 22 546.6 0 22 72 33 546.6 0 33 73 38 546.6 0 38 74 31 546.6 0 31 75 35 546.6 0 35 76 35 546.6 0 35 77 11 546.6 0 11 78 28 546.6 0 28 79 23 546.6 0 23 80 24 546.6 0 24 81 29 546.6 0 29 82 28 546.6 0 28 83 18 546.6 0 18 84 25 546.6 0 25 85 23 546.6 0 23 86 45 546.6 0 45 87 32 546.6 0 32 88 29 546.6 0 29 89 36 546.6 0 36 90 29 546.6 0 29 91 16 546.6 0 16 92 95 546.6 0 95 93 28 546.6 0 28 94 90 546.6 0 90 95 21 546.6 0 21 96 29 546.6 0 29 97 30 546.6 0 30 98 37 546.6 0 37 99 28 546.6 0 28 100 40 546.6 0 40 101 19 546.6 0 19 102 42 546.6 0 42 103 27 546.6 0 27 104 22 546.6 0 22 105 24 546.6 0 24 106 25 546.6 0 25 107 16 546.6 0 16 108 17 546.6 0 17 109 27 546.6 0 27 110 17 546.6 0 17 111 26 546.6 0 26 112 22 546.6 0 22 113 40 546.6 0 40 114 22 546.6 0 22 115 14 546.6 0 14 116 18 546.6 0 18 117 23 546.6 0 23 118 31 546.6 0 31 119 32 546.6 0 32 120 57 546.6 0 57 121 26 546.6 0 26 122 36 546.6 0 36 123 35 546.6 0 35 124 24 546.6 0 24 125 23 546.6 0 23 126 32 546.6 0 32 127 33 546.6 0 33 128 39 546.6 0 39 129 61 546.6 0 61 130 135 546.6 0 135 131 144 546.6 0 144 132 57 546.6 0 57 133 106 546.6 0 106 134 88 546.6 0 88 135 24 546.6 0 24 136 21 546.6 0 21 137 26 546.6 0 26 138 22 546.6 0 22 139 26 546.6 0 26 140 24 546.6 0 24 141 19 546.6 0 19 142 18 546.6 0 18 143 23 546.6 0 23 144 19 546.6 0 19 145 46 546.6 0 46 146 33 546.6 0 33 147 36 546.6 0 36 148 29 546.6 0 29 149 32 546.6 0 32 150 39 546.6 0 39 151 24 546.6 0 24 152 60 546.6 0 60 153 106 546.6 0 106 154 108 546.6 0 108 155 49 546.6 0 49 156 22 546.6 0 22 157 22 546.6 0 22 158 175 546.6 0 175 159 68 546.6 0 68 160 147 546.6 0 147 161 39 546.6 0 39 162 32 546.6 0 32 163 53 546.6 0 53 164 48 546.6 0 48 165 84 546.6 0 84 166 36 546.6 0 36 167 27 546.6 0 27 168 32 546.6 0 32 169 31 546.6 0 31 170 28 546.6 0 28 171 29 546.6 0 29 172 43 546.6 0 43 173 40 546.6 0 40 174 37 546.6 0 37 175 37 546.6 0 37 176 19 546.6 0 19 177 37 546.6 0 37 178 39 546.6 0 39 179 41 546.6 0 41 180 41 546.6 0 41 181 34 546.6 0 34 182 39 546.6 0 39 183 137 546.6 0 137 184 127 546.6 0 127 185 279 546.6 0 279 186 275 546.6 0 275 187 30 546.6 0 30 188 21 546.6 0 21 189 31 546.6 0 31 190 38 546.6 0 38 191 40 546.6 0 40 192 106 546.6 0 106 193 104 546.6 0 104 194 131 546.6 0 131 195 84 546.6 0 84 196 28 546.6 0 28 197 35 546.6 0 35 198 50 546.6 0 50 199 62 546.6 0 62 200 96 546.6 0 96 201 82 546.6 0 82 202 103 546.6 0 103 203 42 546.6 0 42 204 55 546.6 0 55 205 42 546.6 0 42 206 67 546.6 0 67 207 72 546.6 0 72 208 43 546.6 0 43 209 62 546.6 0 62 210 47 546.6 0 47 211 33 546.6 0 33 212 54 546.6 0 54 213 42 546.6 0 42 214 89 546.6 0 89 215 110 546.6 0 110 216 141 546.6 0 141 217 259 546.6 0 259 218 509 546.6 0 509 219 7423 546.6 0 7423 220 2094 546.6 0 2094 221 6292 546.6 0 6292 222 170 546.6 0 170 223 34 546.6 0 34 224 42 546.6 0 42 225 22 546.6 0 22 226 27 546.6 0 27 227 39 546.6 0 39 228 32 546.6 0 32 229 42 546.6 0 42 230 28 546.6 0 28 231 37 546.6 0 37 232 38 546.6 0 38 233 26 546.6 0 26 234 39 546.6 0 39 235 38 546.6 0 38 236 41 546.6 0 41 237 46 546.6 0 46 238 38 546.6 0 38 239 40 546.6 0 40 240 48 546.6 0 48 241 46 546.6 0 46 242 29 546.6 0 29 243 26 546.6 0 26 244 37 546.6 0 37 245 46 546.6 0 46 246 93 546.6 0 93 247 60 546.6 0 60 248 149 546.6 0 149 249 177 546.6 0 177 250 328 546.6 0 328 251 369 546.6 0 369 252 71 546.6 0 71 253 80 546.6 0 80 254 80 546.6 0 80 255 55 546.6 0 55 256 40 546.6 0 40 257 33 546.6 0 33 258 47 546.6 0 47 259 30 546.6 0 30 260 28 546.6 0 28 261 58 546.6 0 58 262 51 546.6 0 51 263 61 546.6 0 61 264 23 546.6 0 23 265 22 546.6 0 22 266 51 546.6 0 51 267 40 546.6 0 40 268 52 546.6 0 52 269 41 546.6 0 41 270 47 546.6 0 47 271 41 546.6 0 41 272 48 546.6 0 48 273 62 546.6 0 62 274 67 546.6 0 67 275 47 546.6 0 47 276 41 546.6 0 41 277 40 546.6 0 40 278 71 546.6 0 71 279 269 546.6 0 269 280 317 546.6 0 317 281 223 546.6 0 223 282 79 546.6 0 79 283 40 546.6 0 40 284 53 546.6 0 53 285 41 546.6 0 41 286 52 546.6 0 52 287 65 546.6 0 65 288 64 546.6 0 64 289 62 546.6 0 62 290 39 546.6 0 39 291 51 546.6 0 51 292 84 546.6 0 84 293 43 546.6 0 43 294 67 546.6 0 67 295 55 546.6 0 55 296 38 546.6 0 38 297 40 546.6 0 40 298 41 546.6 0 41 299 45 546.6 0 45 300 67 546.6 0 67 301 109 546.6 0 109 Finished in 13.65 s (46 us/read; 1.29 M reads/minute). === Summary === Total reads processed: 294,278 Reads with adapters: 161,751 (55.0%) Reads that were too short: 26 (0.0%) Reads written (passing filters): 161,725 (55.0%) Total basepairs processed: 85,324,291 bp Total written (filtered): 44,169,051 bp (51.8%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 161751 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 3 0.0 3 0 0 0 1 2 18 38 0.0 3 0 0 36 2 19 1873 0.0 3 0 1836 34 2 1 20 158085 0.0 4 155358 2641 77 9 21 250 0.0 4 49 198 3 22 18 0.0 4 4 0 13 1 23 91 0.0 4 0 0 2 82 7 24 3 0.0 4 0 0 0 0 3 35 1 0.0 4 1 44 1 0.0 4 1 47 1 0.0 4 0 0 0 0 1 62 1 0.0 4 0 0 0 0 1 84 1 0.0 4 0 1 96 1 0.0 4 1 103 1 0.0 4 0 0 0 0 1 110 1 0.0 4 0 0 0 0 1 124 1 0.0 4 0 0 0 0 1 125 2 0.0 4 0 0 0 0 2 126 12 0.0 4 0 0 0 0 12 127 1341 0.0 4 0 0 0 0 1341 130 1 0.0 4 0 0 0 0 1 131 1 0.0 4 0 0 0 0 1 137 1 0.0 4 0 0 0 0 1 153 2 0.0 4 0 0 0 0 2 215 1 0.0 4 0 0 0 0 1 216 1 0.0 4 0 0 0 0 1 217 1 0.0 4 0 0 0 0 1 228 8 0.0 4 0 0 0 0 8 229 1 0.0 4 0 0 0 0 1 236 1 0.0 4 0 0 0 0 1 237 1 0.0 4 0 0 0 0 1 254 1 0.0 4 0 0 0 0 1 262 1 0.0 4 0 0 0 0 1 282 2 0.0 4 0 0 0 0 2 285 1 0.0 4 0 0 0 0 1 286 1 0.0 4 0 0 0 0 1 289 1 0.0 4 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 5.60 s (35 us/read; 1.73 M reads/minute). === Summary === Total reads processed: 161,725 Reads with adapters: 8,255 (5.1%) Reads written (passing filters): 161,725 (100.0%) Total basepairs processed: 44,169,051 bp Total written (filtered): 44,060,426 bp (99.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 8255 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 3.7% C: 3.8% G: 90.8% T: 1.7% 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 3 201 2527.0 0 201 4 16 631.7 0 16 5 10 157.9 0 10 6 2 39.5 0 2 8 2 2.5 0 2 9 14 0.6 0 0 14 10 25 0.2 1 1 24 11 7731 0.0 1 66 7665 12 154 0.0 1 7 147 13 1 0.0 1 0 1 14 4 0.0 1 0 4 15 1 0.0 1 0 1 16 1 0.0 1 0 1 37 1 0.0 1 1 70 1 0.0 1 1 76 1 0.0 1 1 124 1 0.0 1 1 127 1 0.0 1 1 149 2 0.0 1 2 152 7 0.0 1 1 6 159 1 0.0 1 1 160 1 0.0 1 1 165 1 0.0 1 1 171 4 0.0 1 3 1 191 1 0.0 1 0 1 210 21 0.0 1 11 10 222 1 0.0 1 1 225 1 0.0 1 1 234 1 0.0 1 1 259 1 0.0 1 1 261 42 0.0 1 41 1 262 4 0.0 1 4 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.