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 164.33 s (47 us/read; 1.27 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 267,147 (7.7%) Reads that were too short: 69,158 (2.0%) Reads written (passing filters): 197,989 (5.7%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 56,365,346 bp (5.4%) === Adapter 1 === Sequence: CGACGT; Type: regular 5'; Length: 6; Trimmed: 267147 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 2329 847.3 0 2329 7 96110 847.3 0 96110 8 2313 847.3 0 2313 9 81715 847.3 0 81715 10 81 847.3 0 81 11 38 847.3 0 38 12 41 847.3 0 41 13 37 847.3 0 37 14 59 847.3 0 59 15 33 847.3 0 33 16 45 847.3 0 45 17 38 847.3 0 38 18 50 847.3 0 50 19 35 847.3 0 35 20 25 847.3 0 25 21 59 847.3 0 59 22 47 847.3 0 47 23 37 847.3 0 37 24 44 847.3 0 44 25 82 847.3 0 82 26 45 847.3 0 45 27 35 847.3 0 35 28 43 847.3 0 43 29 48 847.3 0 48 30 54 847.3 0 54 31 49 847.3 0 49 32 51 847.3 0 51 33 36 847.3 0 36 34 35 847.3 0 35 35 49 847.3 0 49 36 51 847.3 0 51 37 43 847.3 0 43 38 33 847.3 0 33 39 20 847.3 0 20 40 37 847.3 0 37 41 41 847.3 0 41 42 48 847.3 0 48 43 35 847.3 0 35 44 52 847.3 0 52 45 33 847.3 0 33 46 33 847.3 0 33 47 59 847.3 0 59 48 38 847.3 0 38 49 32 847.3 0 32 50 46 847.3 0 46 51 36 847.3 0 36 52 57 847.3 0 57 53 63 847.3 0 63 54 56 847.3 0 56 55 85 847.3 0 85 56 53 847.3 0 53 57 46 847.3 0 46 58 44 847.3 0 44 59 55 847.3 0 55 60 42 847.3 0 42 61 58 847.3 0 58 62 55 847.3 0 55 63 69 847.3 0 69 64 48 847.3 0 48 65 63 847.3 0 63 66 97 847.3 0 97 67 1382 847.3 0 1382 68 802 847.3 0 802 69 214 847.3 0 214 70 50 847.3 0 50 71 59 847.3 0 59 72 58 847.3 0 58 73 34 847.3 0 34 74 57 847.3 0 57 75 63 847.3 0 63 76 57 847.3 0 57 77 40 847.3 0 40 78 55 847.3 0 55 79 49 847.3 0 49 80 36 847.3 0 36 81 57 847.3 0 57 82 39 847.3 0 39 83 28 847.3 0 28 84 33 847.3 0 33 85 50 847.3 0 50 86 96 847.3 0 96 87 49 847.3 0 49 88 60 847.3 0 60 89 70 847.3 0 70 90 47 847.3 0 47 91 37 847.3 0 37 92 50 847.3 0 50 93 51 847.3 0 51 94 95 847.3 0 95 95 75 847.3 0 75 96 64 847.3 0 64 97 61 847.3 0 61 98 69 847.3 0 69 99 96 847.3 0 96 100 57 847.3 0 57 101 33 847.3 0 33 102 54 847.3 0 54 103 41 847.3 0 41 104 31 847.3 0 31 105 38 847.3 0 38 106 52 847.3 0 52 107 41 847.3 0 41 108 37 847.3 0 37 109 35 847.3 0 35 110 47 847.3 0 47 111 42 847.3 0 42 112 36 847.3 0 36 113 58 847.3 0 58 114 47 847.3 0 47 115 29 847.3 0 29 116 27 847.3 0 27 117 42 847.3 0 42 118 72 847.3 0 72 119 81 847.3 0 81 120 99 847.3 0 99 121 84 847.3 0 84 122 91 847.3 0 91 123 59 847.3 0 59 124 39 847.3 0 39 125 46 847.3 0 46 126 66 847.3 0 66 127 140 847.3 0 140 128 86 847.3 0 86 129 193 847.3 0 193 130 100 847.3 0 100 131 48 847.3 0 48 132 133 847.3 0 133 133 328 847.3 0 328 134 55 847.3 0 55 135 41 847.3 0 41 136 41 847.3 0 41 137 43 847.3 0 43 138 52 847.3 0 52 139 63 847.3 0 63 140 52 847.3 0 52 141 50 847.3 0 50 142 35 847.3 0 35 143 62 847.3 0 62 144 60 847.3 0 60 145 65 847.3 0 65 146 53 847.3 0 53 147 61 847.3 0 61 148 64 847.3 0 64 149 72 847.3 0 72 150 50 847.3 0 50 151 50 847.3 0 50 152 245 847.3 0 245 153 256 847.3 0 256 154 113 847.3 0 113 155 65 847.3 0 65 156 64 847.3 0 64 157 50 847.3 0 50 158 91 847.3 0 91 159 242 847.3 0 242 160 53 847.3 0 53 161 59 847.3 0 59 162 55 847.3 0 55 163 129 847.3 0 129 164 121 847.3 0 121 165 172 847.3 0 172 166 98 847.3 0 98 167 73 847.3 0 73 168 46 847.3 0 46 169 51 847.3 0 51 170 47 847.3 0 47 171 58 847.3 0 58 172 47 847.3 0 47 173 57 847.3 0 57 174 80 847.3 0 80 175 77 847.3 0 77 176 55 847.3 0 55 177 84 847.3 0 84 178 64 847.3 0 64 179 63 847.3 0 63 180 88 847.3 0 88 181 74 847.3 0 74 182 76 847.3 0 76 183 177 847.3 0 177 184 228 847.3 0 228 185 146 847.3 0 146 186 204 847.3 0 204 187 74 847.3 0 74 188 40 847.3 0 40 189 89 847.3 0 89 190 63 847.3 0 63 191 74 847.3 0 74 192 222 847.3 0 222 193 166 847.3 0 166 194 147 847.3 0 147 195 223 847.3 0 223 196 50 847.3 0 50 197 62 847.3 0 62 198 102 847.3 0 102 199 155 847.3 0 155 200 97 847.3 0 97 201 162 847.3 0 162 202 279 847.3 0 279 203 101 847.3 0 101 204 111 847.3 0 111 205 111 847.3 0 111 206 191 847.3 0 191 207 295 847.3 0 295 208 186 847.3 0 186 209 195 847.3 0 195 210 71 847.3 0 71 211 82 847.3 0 82 212 214 847.3 0 214 213 202 847.3 0 202 214 263 847.3 0 263 215 421 847.3 0 421 216 509 847.3 0 509 217 846 847.3 0 846 218 834 847.3 0 834 219 7594 847.3 0 7594 220 12036 847.3 0 12036 221 35187 847.3 0 35187 222 554 847.3 0 554 223 71 847.3 0 71 224 63 847.3 0 63 225 50 847.3 0 50 226 52 847.3 0 52 227 59 847.3 0 59 228 69 847.3 0 69 229 57 847.3 0 57 230 68 847.3 0 68 231 59 847.3 0 59 232 58 847.3 0 58 233 47 847.3 0 47 234 68 847.3 0 68 235 70 847.3 0 70 236 75 847.3 0 75 237 107 847.3 0 107 238 85 847.3 0 85 239 90 847.3 0 90 240 92 847.3 0 92 241 76 847.3 0 76 242 50 847.3 0 50 243 53 847.3 0 53 244 73 847.3 0 73 245 62 847.3 0 62 246 84 847.3 0 84 247 125 847.3 0 125 248 511 847.3 0 511 249 814 847.3 0 814 250 482 847.3 0 482 251 253 847.3 0 253 252 160 847.3 0 160 253 90 847.3 0 90 254 99 847.3 0 99 255 78 847.3 0 78 256 73 847.3 0 73 257 98 847.3 0 98 258 53 847.3 0 53 259 79 847.3 0 79 260 59 847.3 0 59 261 47 847.3 0 47 262 57 847.3 0 57 263 58 847.3 0 58 264 50 847.3 0 50 265 56 847.3 0 56 266 81 847.3 0 81 267 75 847.3 0 75 268 68 847.3 0 68 269 86 847.3 0 86 270 73 847.3 0 73 271 55 847.3 0 55 272 101 847.3 0 101 273 119 847.3 0 119 274 74 847.3 0 74 275 61 847.3 0 61 276 63 847.3 0 63 277 79 847.3 0 79 278 63 847.3 0 63 279 283 847.3 0 283 280 408 847.3 0 408 281 401 847.3 0 401 282 220 847.3 0 220 283 72 847.3 0 72 284 107 847.3 0 107 285 79 847.3 0 79 286 77 847.3 0 77 287 94 847.3 0 94 288 71 847.3 0 71 289 80 847.3 0 80 290 62 847.3 0 62 291 76 847.3 0 76 292 129 847.3 0 129 293 117 847.3 0 117 294 96 847.3 0 96 295 75 847.3 0 75 296 74 847.3 0 74 297 90 847.3 0 90 298 62 847.3 0 62 299 88 847.3 0 88 300 113 847.3 0 113 301 124 847.3 0 124 Finished in 15.41 s (78 us/read; 0.77 M reads/minute). === Summary === Total reads processed: 197,989 Reads with adapters: 98,272 (49.6%) Reads that were too short: 15 (0.0%) Reads written (passing filters): 98,257 (49.6%) Total basepairs processed: 56,365,346 bp Total written (filtered): 26,831,258 bp (47.6%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 98272 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 48 0.0 3 0 0 45 2 1 19 1313 0.0 3 0 1294 17 2 20 95791 0.0 4 94239 1506 39 6 1 21 153 0.0 4 22 130 1 22 21 0.0 4 4 1 14 0 2 23 62 0.0 4 0 0 0 60 2 24 1 0.0 4 0 0 0 1 25 1 0.0 4 1 26 1 0.0 4 1 27 1 0.0 4 0 0 0 0 1 33 1 0.0 4 1 34 1 0.0 4 1 35 1 0.0 4 1 49 1 0.0 4 0 0 0 0 1 68 1 0.0 4 1 94 7 0.0 4 0 0 0 0 7 126 7 0.0 4 0 0 0 0 7 127 839 0.0 4 0 0 0 0 839 128 3 0.0 4 0 0 0 0 3 130 1 0.0 4 0 0 0 0 1 160 1 0.0 4 1 228 4 0.0 4 0 0 0 0 4 229 3 0.0 4 1 0 0 0 2 257 1 0.0 4 0 0 0 0 1 262 1 0.0 4 0 0 0 0 1 263 1 0.0 4 0 0 0 0 1 264 2 0.0 4 0 0 0 0 2 265 1 0.0 4 0 0 0 0 1 280 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 5.56 s (57 us/read; 1.06 M reads/minute). === Summary === Total reads processed: 98,257 Reads with adapters: 2,371 (2.4%) Reads written (passing filters): 98,257 (100.0%) Total basepairs processed: 26,831,258 bp Total written (filtered): 26,800,705 bp (99.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 2371 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 4.6% C: 4.7% G: 88.5% T: 2.2% 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 97 1535.3 0 97 4 15 383.8 0 15 5 6 96.0 0 6 7 2 6.0 0 2 9 14 0.4 0 3 11 10 29 0.1 1 1 28 11 2073 0.0 1 16 2057 12 93 0.0 1 1 92 13 2 0.0 1 0 2 14 2 0.0 1 0 2 15 3 0.0 1 0 3 20 2 0.0 1 2 24 1 0.0 1 1 79 1 0.0 1 1 146 1 0.0 1 0 1 152 8 0.0 1 0 8 158 8 0.0 1 6 2 210 13 0.0 1 4 9 225 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.