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 57.90 s (26 us/read; 2.27 M reads/minute). === Summary === Total reads processed: 2,192,295 Reads with adapters: 246,440 (11.2%) Reads that were too short: 20,703 (0.9%) Reads written (passing filters): 225,737 (10.3%) Total basepairs processed: 659,880,795 bp Total written (filtered): 60,995,284 bp (9.2%) === Adapter 1 === Sequence: CCTGTC; Type: regular 5'; Length: 6; Trimmed: 246440 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 7205 535.2 0 7205 7 77156 535.2 0 77156 8 7738 535.2 0 7738 9 94653 535.2 0 94653 10 103 535.2 0 103 11 41 535.2 0 41 12 45 535.2 0 45 13 44 535.2 0 44 14 41 535.2 0 41 15 43 535.2 0 43 16 42 535.2 0 42 17 40 535.2 0 40 18 37 535.2 0 37 19 39 535.2 0 39 20 36 535.2 0 36 21 42 535.2 0 42 22 58 535.2 0 58 23 44 535.2 0 44 24 21 535.2 0 21 25 26 535.2 0 26 26 40 535.2 0 40 27 44 535.2 0 44 28 73 535.2 0 73 29 60 535.2 0 60 30 52 535.2 0 52 31 43 535.2 0 43 32 36 535.2 0 36 33 341 535.2 0 341 34 364 535.2 0 364 35 736 535.2 0 736 36 30 535.2 0 30 37 32 535.2 0 32 38 30 535.2 0 30 39 78 535.2 0 78 40 34 535.2 0 34 41 27 535.2 0 27 42 30 535.2 0 30 43 32 535.2 0 32 44 54 535.2 0 54 45 61 535.2 0 61 46 61 535.2 0 61 47 50 535.2 0 50 48 42 535.2 0 42 49 49 535.2 0 49 50 49 535.2 0 49 51 39 535.2 0 39 52 43 535.2 0 43 53 46 535.2 0 46 54 51 535.2 0 51 55 53 535.2 0 53 56 87 535.2 0 87 57 280 535.2 0 280 58 474 535.2 0 474 59 204 535.2 0 204 60 61 535.2 0 61 61 38 535.2 0 38 62 39 535.2 0 39 63 50 535.2 0 50 64 74 535.2 0 74 65 47 535.2 0 47 66 56 535.2 0 56 67 51 535.2 0 51 68 69 535.2 0 69 69 61 535.2 0 61 70 44 535.2 0 44 71 37 535.2 0 37 72 145 535.2 0 145 73 358 535.2 0 358 74 166 535.2 0 166 75 47 535.2 0 47 76 40 535.2 0 40 77 70 535.2 0 70 78 47 535.2 0 47 79 64 535.2 0 64 80 38 535.2 0 38 81 42 535.2 0 42 82 49 535.2 0 49 83 51 535.2 0 51 84 134 535.2 0 134 85 85 535.2 0 85 86 193 535.2 0 193 87 104 535.2 0 104 88 50 535.2 0 50 89 51 535.2 0 51 90 89 535.2 0 89 91 80 535.2 0 80 92 73 535.2 0 73 93 53 535.2 0 53 94 117 535.2 0 117 95 73 535.2 0 73 96 71 535.2 0 71 97 84 535.2 0 84 98 85 535.2 0 85 99 306 535.2 0 306 100 41 535.2 0 41 101 52 535.2 0 52 102 110 535.2 0 110 103 47 535.2 0 47 104 67 535.2 0 67 105 83 535.2 0 83 106 251 535.2 0 251 107 940 535.2 0 940 108 1962 535.2 0 1962 109 1180 535.2 0 1180 110 78 535.2 0 78 111 59 535.2 0 59 112 45 535.2 0 45 113 45 535.2 0 45 114 45 535.2 0 45 115 58 535.2 0 58 116 48 535.2 0 48 117 41 535.2 0 41 118 47 535.2 0 47 119 31 535.2 0 31 120 48 535.2 0 48 121 82 535.2 0 82 122 66 535.2 0 66 123 85 535.2 0 85 124 62 535.2 0 62 125 45 535.2 0 45 126 69 535.2 0 69 127 492 535.2 0 492 128 685 535.2 0 685 129 482 535.2 0 482 130 183 535.2 0 183 131 76 535.2 0 76 132 54 535.2 0 54 133 32 535.2 0 32 134 74 535.2 0 74 135 125 535.2 0 125 136 165 535.2 0 165 137 121 535.2 0 121 138 139 535.2 0 139 139 146 535.2 0 146 140 136 535.2 0 136 141 188 535.2 0 188 142 300 535.2 0 300 143 571 535.2 0 571 144 553 535.2 0 553 145 470 535.2 0 470 146 200 535.2 0 200 147 248 535.2 0 248 148 60 535.2 0 60 149 97 535.2 0 97 150 105 535.2 0 105 151 77 535.2 0 77 152 150 535.2 0 150 153 206 535.2 0 206 154 356 535.2 0 356 155 385 535.2 0 385 156 238 535.2 0 238 157 92 535.2 0 92 158 266 535.2 0 266 159 340 535.2 0 340 160 104 535.2 0 104 161 117 535.2 0 117 162 130 535.2 0 130 163 66 535.2 0 66 164 60 535.2 0 60 165 59 535.2 0 59 166 101 535.2 0 101 167 110 535.2 0 110 168 81 535.2 0 81 169 119 535.2 0 119 170 76 535.2 0 76 171 126 535.2 0 126 172 60 535.2 0 60 173 74 535.2 0 74 174 116 535.2 0 116 175 246 535.2 0 246 176 213 535.2 0 213 177 79 535.2 0 79 178 89 535.2 0 89 179 91 535.2 0 91 180 89 535.2 0 89 181 108 535.2 0 108 182 160 535.2 0 160 183 246 535.2 0 246 184 383 535.2 0 383 185 396 535.2 0 396 186 3556 535.2 0 3556 187 6439 535.2 0 6439 188 3178 535.2 0 3178 189 69 535.2 0 69 190 40 535.2 0 40 191 65 535.2 0 65 192 47 535.2 0 47 193 77 535.2 0 77 194 283 535.2 0 283 195 69 535.2 0 69 196 56 535.2 0 56 197 49 535.2 0 49 198 61 535.2 0 61 199 54 535.2 0 54 200 70 535.2 0 70 201 55 535.2 0 55 202 42 535.2 0 42 203 91 535.2 0 91 204 121 535.2 0 121 205 104 535.2 0 104 206 89 535.2 0 89 207 68 535.2 0 68 208 150 535.2 0 150 209 138 535.2 0 138 210 163 535.2 0 163 211 62 535.2 0 62 212 71 535.2 0 71 213 78 535.2 0 78 214 65 535.2 0 65 215 76 535.2 0 76 216 105 535.2 0 105 217 369 535.2 0 369 218 470 535.2 0 470 219 567 535.2 0 567 220 57 535.2 0 57 221 73 535.2 0 73 222 85 535.2 0 85 223 89 535.2 0 89 224 60 535.2 0 60 225 58 535.2 0 58 226 90 535.2 0 90 227 106 535.2 0 106 228 139 535.2 0 139 229 51 535.2 0 51 230 75 535.2 0 75 231 75 535.2 0 75 232 103 535.2 0 103 233 72 535.2 0 72 234 113 535.2 0 113 235 76 535.2 0 76 236 121 535.2 0 121 237 133 535.2 0 133 238 91 535.2 0 91 239 85 535.2 0 85 240 73 535.2 0 73 241 174 535.2 0 174 242 209 535.2 0 209 243 351 535.2 0 351 244 178 535.2 0 178 245 191 535.2 0 191 246 111 535.2 0 111 247 98 535.2 0 98 248 86 535.2 0 86 249 94 535.2 0 94 250 675 535.2 0 675 251 1081 535.2 0 1081 252 1104 535.2 0 1104 253 152 535.2 0 152 254 248 535.2 0 248 255 111 535.2 0 111 256 76 535.2 0 76 257 132 535.2 0 132 258 123 535.2 0 123 259 77 535.2 0 77 260 88 535.2 0 88 261 132 535.2 0 132 262 180 535.2 0 180 263 150 535.2 0 150 264 131 535.2 0 131 265 75 535.2 0 75 266 99 535.2 0 99 267 75 535.2 0 75 268 61 535.2 0 61 269 79 535.2 0 79 270 197 535.2 0 197 271 458 535.2 0 458 272 254 535.2 0 254 273 194 535.2 0 194 274 143 535.2 0 143 275 127 535.2 0 127 276 79 535.2 0 79 277 101 535.2 0 101 278 202 535.2 0 202 279 210 535.2 0 210 280 688 535.2 0 688 281 788 535.2 0 788 282 865 535.2 0 865 283 514 535.2 0 514 284 95 535.2 0 95 285 178 535.2 0 178 286 173 535.2 0 173 287 123 535.2 0 123 288 83 535.2 0 83 289 178 535.2 0 178 290 239 535.2 0 239 291 219 535.2 0 219 292 165 535.2 0 165 293 96 535.2 0 96 294 181 535.2 0 181 295 221 535.2 0 221 296 352 535.2 0 352 297 871 535.2 0 871 298 744 535.2 0 744 299 678 535.2 0 678 300 209 535.2 0 209 301 83 535.2 0 83 Finished in 11.01 s (49 us/read; 1.23 M reads/minute). === Summary === Total reads processed: 225,737 Reads with adapters: 83,508 (37.0%) Reads that were too short: 123 (0.1%) Reads written (passing filters): 83,385 (36.9%) Total basepairs processed: 60,995,284 bp Total written (filtered): 22,734,500 bp (37.3%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 83508 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 16 1 0.0 3 0 0 0 0 1 17 8 0.0 3 0 0 0 4 4 18 59 0.0 3 0 0 38 10 11 19 1102 0.0 3 0 882 126 63 31 20 80646 0.0 4 74957 4496 857 253 83 21 258 0.0 4 35 187 24 6 6 22 17 0.0 4 1 1 11 1 3 23 195 0.0 4 2 0 0 138 55 24 5 0.0 4 0 0 0 0 5 25 3 0.0 4 1 0 0 0 2 26 1 0.0 4 0 0 0 0 1 28 1 0.0 4 0 0 0 0 1 29 1 0.0 4 0 1 31 2 0.0 4 0 0 0 0 2 32 1 0.0 4 0 0 1 34 1 0.0 4 0 0 0 0 1 35 1 0.0 4 1 43 2 0.0 4 2 47 1 0.0 4 0 0 0 0 1 49 2 0.0 4 0 0 0 0 2 57 2 0.0 4 0 0 0 0 2 58 1 0.0 4 0 0 0 0 1 65 1 0.0 4 0 0 1 69 1 0.0 4 0 0 0 0 1 86 1 0.0 4 0 1 92 3 0.0 4 0 0 0 0 3 103 2 0.0 4 0 0 0 0 2 105 1 0.0 4 0 0 0 0 1 106 2 0.0 4 0 0 0 0 2 107 5 0.0 4 0 0 0 0 5 122 1 0.0 4 1 126 15 0.0 4 0 0 0 0 15 127 1027 0.0 4 0 0 0 0 1027 128 6 0.0 4 0 0 0 0 6 129 4 0.0 4 0 0 0 0 4 130 5 0.0 4 0 0 0 1 4 133 3 0.0 4 0 0 0 0 3 134 1 0.0 4 0 1 136 2 0.0 4 0 0 0 0 2 137 1 0.0 4 0 0 0 0 1 147 1 0.0 4 0 0 0 0 1 153 4 0.0 4 0 0 0 0 4 168 1 0.0 4 0 0 0 0 1 174 1 0.0 4 0 1 181 1 0.0 4 0 0 0 0 1 186 1 0.0 4 0 0 0 0 1 195 1 0.0 4 0 0 0 0 1 203 1 0.0 4 0 0 0 0 1 205 4 0.0 4 0 0 0 0 4 208 4 0.0 4 0 0 0 0 4 214 4 0.0 4 0 0 0 0 4 215 2 0.0 4 0 0 0 0 2 216 1 0.0 4 0 0 0 0 1 218 1 0.0 4 0 0 0 0 1 223 1 0.0 4 0 0 0 0 1 225 2 0.0 4 0 0 0 0 2 228 12 0.0 4 0 0 0 1 11 229 11 0.0 4 0 0 0 1 10 233 5 0.0 4 0 0 0 0 5 234 3 0.0 4 0 0 0 0 3 235 2 0.0 4 0 0 0 0 2 238 22 0.0 4 0 0 0 0 22 258 1 0.0 4 0 0 0 0 1 259 1 0.0 4 0 0 0 0 1 262 1 0.0 4 0 0 0 0 1 265 1 0.0 4 0 0 0 0 1 269 1 0.0 4 0 0 0 0 1 282 17 0.0 4 0 0 0 0 17 288 10 0.0 4 0 0 0 0 10 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 2.93 s (35 us/read; 1.71 M reads/minute). === Summary === Total reads processed: 83,385 Reads with adapters: 11,062 (13.3%) Reads written (passing filters): 83,385 (100.0%) Total basepairs processed: 22,734,500 bp Total written (filtered): 22,605,803 bp (99.4%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 11062 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 3.6% C: 8.1% G: 86.3% T: 2.0% 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 3 417 1302.9 0 417 4 143 325.7 0 143 5 165 81.4 0 165 6 31 20.4 0 31 7 7 5.1 0 7 8 4 1.3 0 4 9 36 0.3 0 2 34 10 75 0.1 1 1 74 11 8749 0.0 1 251 8498 12 1307 0.0 1 42 1265 13 42 0.0 1 1 41 14 5 0.0 1 0 5 15 9 0.0 1 0 9 16 1 0.0 1 0 1 101 1 0.0 1 0 1 107 1 0.0 1 1 152 43 0.0 1 29 14 153 5 0.0 1 4 1 160 1 0.0 1 0 1 163 1 0.0 1 1 171 1 0.0 1 1 179 1 0.0 1 1 191 1 0.0 1 0 1 192 1 0.0 1 0 1 210 5 0.0 1 4 1 227 1 0.0 1 1 228 5 0.0 1 4 1 230 1 0.0 1 1 259 1 0.0 1 1 273 1 0.0 1 1 274 1 0.0 1 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.