This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CCTGTC -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 163.18 s (47 us/read; 1.28 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 155,303 (4.5%) Reads that were too short: 11,392 (0.3%) Reads written (passing filters): 143,911 (4.1%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 35,022,190 bp (3.4%) === Adapter 1 === Sequence: CCTGTC; Type: regular 5'; Length: 6; Trimmed: 155303 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1912 847.3 0 1912 7 50409 847.3 0 50409 8 1667 847.3 0 1667 9 39670 847.3 0 39670 10 38 847.3 0 38 11 43 847.3 0 43 12 36 847.3 0 36 13 31 847.3 0 31 14 31 847.3 0 31 15 36 847.3 0 36 16 52 847.3 0 52 17 42 847.3 0 42 18 48 847.3 0 48 19 47 847.3 0 47 20 41 847.3 0 41 21 40 847.3 0 40 22 46 847.3 0 46 23 27 847.3 0 27 24 34 847.3 0 34 25 47 847.3 0 47 26 28 847.3 0 28 27 40 847.3 0 40 28 37 847.3 0 37 29 36 847.3 0 36 30 230 847.3 0 230 31 131 847.3 0 131 32 52 847.3 0 52 33 270 847.3 0 270 34 379 847.3 0 379 35 600 847.3 0 600 36 43 847.3 0 43 37 35 847.3 0 35 38 69 847.3 0 69 39 34 847.3 0 34 40 31 847.3 0 31 41 35 847.3 0 35 42 34 847.3 0 34 43 51 847.3 0 51 44 41 847.3 0 41 45 27 847.3 0 27 46 48 847.3 0 48 47 54 847.3 0 54 48 38 847.3 0 38 49 43 847.3 0 43 50 55 847.3 0 55 51 25 847.3 0 25 52 35 847.3 0 35 53 54 847.3 0 54 54 49 847.3 0 49 55 51 847.3 0 51 56 64 847.3 0 64 57 165 847.3 0 165 58 163 847.3 0 163 59 62 847.3 0 62 60 48 847.3 0 48 61 39 847.3 0 39 62 31 847.3 0 31 63 28 847.3 0 28 64 48 847.3 0 48 65 53 847.3 0 53 66 43 847.3 0 43 67 36 847.3 0 36 68 37 847.3 0 37 69 41 847.3 0 41 70 55 847.3 0 55 71 33 847.3 0 33 72 97 847.3 0 97 73 608 847.3 0 608 74 266 847.3 0 266 75 39 847.3 0 39 76 54 847.3 0 54 77 49 847.3 0 49 78 51 847.3 0 51 79 61 847.3 0 61 80 44 847.3 0 44 81 44 847.3 0 44 82 40 847.3 0 40 83 39 847.3 0 39 84 94 847.3 0 94 85 279 847.3 0 279 86 382 847.3 0 382 87 274 847.3 0 274 88 47 847.3 0 47 89 47 847.3 0 47 90 66 847.3 0 66 91 45 847.3 0 45 92 45 847.3 0 45 93 37 847.3 0 37 94 58 847.3 0 58 95 48 847.3 0 48 96 58 847.3 0 58 97 59 847.3 0 59 98 36 847.3 0 36 99 58 847.3 0 58 100 41 847.3 0 41 101 46 847.3 0 46 102 35 847.3 0 35 103 47 847.3 0 47 104 49 847.3 0 49 105 64 847.3 0 64 106 90 847.3 0 90 107 1502 847.3 0 1502 108 858 847.3 0 858 109 514 847.3 0 514 110 54 847.3 0 54 111 55 847.3 0 55 112 33 847.3 0 33 113 62 847.3 0 62 114 46 847.3 0 46 115 33 847.3 0 33 116 59 847.3 0 59 117 54 847.3 0 54 118 31 847.3 0 31 119 43 847.3 0 43 120 52 847.3 0 52 121 48 847.3 0 48 122 68 847.3 0 68 123 68 847.3 0 68 124 57 847.3 0 57 125 73 847.3 0 73 126 95 847.3 0 95 127 1264 847.3 0 1264 128 966 847.3 0 966 129 341 847.3 0 341 130 108 847.3 0 108 131 61 847.3 0 61 132 52 847.3 0 52 133 59 847.3 0 59 134 62 847.3 0 62 135 81 847.3 0 81 136 148 847.3 0 148 137 109 847.3 0 109 138 142 847.3 0 142 139 54 847.3 0 54 140 88 847.3 0 88 141 170 847.3 0 170 142 211 847.3 0 211 143 2779 847.3 0 2779 144 1487 847.3 0 1487 145 372 847.3 0 372 146 83 847.3 0 83 147 234 847.3 0 234 148 94 847.3 0 94 149 104 847.3 0 104 150 68 847.3 0 68 151 80 847.3 0 80 152 120 847.3 0 120 153 354 847.3 0 354 154 315 847.3 0 315 155 1610 847.3 0 1610 156 339 847.3 0 339 157 64 847.3 0 64 158 113 847.3 0 113 159 114 847.3 0 114 160 58 847.3 0 58 161 76 847.3 0 76 162 88 847.3 0 88 163 43 847.3 0 43 164 63 847.3 0 63 165 49 847.3 0 49 166 94 847.3 0 94 167 93 847.3 0 93 168 99 847.3 0 99 169 271 847.3 0 271 170 204 847.3 0 204 171 153 847.3 0 153 172 62 847.3 0 62 173 97 847.3 0 97 174 195 847.3 0 195 175 171 847.3 0 171 176 174 847.3 0 174 177 64 847.3 0 64 178 78 847.3 0 78 179 123 847.3 0 123 180 94 847.3 0 94 181 146 847.3 0 146 182 367 847.3 0 367 183 232 847.3 0 232 184 409 847.3 0 409 185 391 847.3 0 391 186 4095 847.3 0 4095 187 4808 847.3 0 4808 188 12957 847.3 0 12957 189 153 847.3 0 153 190 50 847.3 0 50 191 44 847.3 0 44 192 38 847.3 0 38 193 33 847.3 0 33 194 76 847.3 0 76 195 97 847.3 0 97 196 61 847.3 0 61 197 47 847.3 0 47 198 52 847.3 0 52 199 47 847.3 0 47 200 61 847.3 0 61 201 52 847.3 0 52 202 59 847.3 0 59 203 56 847.3 0 56 204 128 847.3 0 128 205 74 847.3 0 74 206 90 847.3 0 90 207 51 847.3 0 51 208 60 847.3 0 60 209 70 847.3 0 70 210 51 847.3 0 51 211 52 847.3 0 52 212 72 847.3 0 72 213 53 847.3 0 53 214 62 847.3 0 62 215 71 847.3 0 71 216 85 847.3 0 85 217 250 847.3 0 250 218 983 847.3 0 983 219 660 847.3 0 660 220 50 847.3 0 50 221 42 847.3 0 42 222 52 847.3 0 52 223 53 847.3 0 53 224 43 847.3 0 43 225 35 847.3 0 35 226 61 847.3 0 61 227 61 847.3 0 61 228 61 847.3 0 61 229 45 847.3 0 45 230 62 847.3 0 62 231 62 847.3 0 62 232 62 847.3 0 62 233 55 847.3 0 55 234 44 847.3 0 44 235 65 847.3 0 65 236 69 847.3 0 69 237 49 847.3 0 49 238 66 847.3 0 66 239 46 847.3 0 46 240 53 847.3 0 53 241 81 847.3 0 81 242 82 847.3 0 82 243 129 847.3 0 129 244 62 847.3 0 62 245 72 847.3 0 72 246 87 847.3 0 87 247 60 847.3 0 60 248 60 847.3 0 60 249 55 847.3 0 55 250 223 847.3 0 223 251 193 847.3 0 193 252 83 847.3 0 83 253 98 847.3 0 98 254 132 847.3 0 132 255 111 847.3 0 111 256 49 847.3 0 49 257 60 847.3 0 60 258 67 847.3 0 67 259 59 847.3 0 59 260 49 847.3 0 49 261 86 847.3 0 86 262 158 847.3 0 158 263 144 847.3 0 144 264 127 847.3 0 127 265 57 847.3 0 57 266 76 847.3 0 76 267 66 847.3 0 66 268 66 847.3 0 66 269 60 847.3 0 60 270 94 847.3 0 94 271 113 847.3 0 113 272 100 847.3 0 100 273 92 847.3 0 92 274 49 847.3 0 49 275 63 847.3 0 63 276 65 847.3 0 65 277 93 847.3 0 93 278 186 847.3 0 186 279 258 847.3 0 258 280 649 847.3 0 649 281 274 847.3 0 274 282 213 847.3 0 213 283 71 847.3 0 71 284 70 847.3 0 70 285 126 847.3 0 126 286 126 847.3 0 126 287 77 847.3 0 77 288 94 847.3 0 94 289 107 847.3 0 107 290 113 847.3 0 113 291 96 847.3 0 96 292 76 847.3 0 76 293 76 847.3 0 76 294 102 847.3 0 102 295 115 847.3 0 115 296 175 847.3 0 175 297 317 847.3 0 317 298 226 847.3 0 226 299 220 847.3 0 220 300 180 847.3 0 180 301 61 847.3 0 61 Finished in 10.47 s (73 us/read; 0.82 M reads/minute). === Summary === Total reads processed: 143,911 Reads with adapters: 51,798 (36.0%) Reads that were too short: 20 (0.0%) Reads written (passing filters): 51,778 (36.0%) Total basepairs processed: 35,022,190 bp Total written (filtered): 14,140,143 bp (40.4%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 51798 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 1 0.0 3 0 0 0 0 1 18 23 0.0 3 0 0 21 2 19 626 0.0 3 0 600 23 3 20 50512 0.0 4 49636 840 30 5 1 21 124 0.0 4 18 105 1 22 10 0.0 4 0 0 8 1 1 23 31 0.0 4 0 0 0 29 2 25 6 0.0 4 0 0 0 0 6 27 4 0.0 4 2 0 1 0 1 29 1 0.0 4 1 31 1 0.0 4 1 34 1 0.0 4 1 74 1 0.0 4 0 0 0 0 1 108 1 0.0 4 0 0 0 0 1 110 1 0.0 4 0 0 0 0 1 126 12 0.0 4 0 0 0 0 12 127 419 0.0 4 0 0 0 0 419 128 5 0.0 4 0 0 0 0 5 129 1 0.0 4 0 0 0 0 1 137 1 0.0 4 1 149 1 0.0 4 0 0 0 0 1 150 1 0.0 4 1 151 1 0.0 4 1 152 1 0.0 4 0 1 162 1 0.0 4 0 0 0 0 1 215 1 0.0 4 0 0 0 0 1 228 2 0.0 4 0 0 0 0 2 229 2 0.0 4 0 0 0 0 2 235 1 0.0 4 0 0 0 0 1 238 5 0.0 4 0 0 0 0 5 279 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 2.80 s (54 us/read; 1.11 M reads/minute). === Summary === Total reads processed: 51,778 Reads with adapters: 848 (1.6%) Reads written (passing filters): 51,778 (100.0%) Total basepairs processed: 14,140,143 bp Total written (filtered): 14,128,574 bp (99.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 848 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 7.5% C: 6.4% G: 82.7% T: 3.4% 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 72 809.0 0 72 4 9 202.3 0 9 5 62 50.6 0 62 6 3 12.6 0 3 9 4 0.2 0 2 2 10 21 0.0 1 1 20 11 594 0.0 1 2 592 12 57 0.0 1 1 56 14 1 0.0 1 0 1 15 2 0.0 1 0 2 16 1 0.0 1 0 1 25 2 0.0 1 1 1 51 1 0.0 1 1 79 1 0.0 1 1 106 1 0.0 1 0 1 108 1 0.0 1 1 152 4 0.0 1 0 4 153 1 0.0 1 0 1 210 11 0.0 1 2 9 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.