This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CGCGAT -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 65.23 s (26 us/read; 2.26 M reads/minute). === Summary === Total reads processed: 2,461,683 Reads with adapters: 73,095 (3.0%) Reads that were too short: 11,513 (0.5%) Reads written (passing filters): 61,582 (2.5%) Total basepairs processed: 740,966,583 bp Total written (filtered): 16,556,396 bp (2.2%) === Adapter 1 === Sequence: CGCGAT; Type: regular 5'; Length: 6; Trimmed: 73095 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1184 601.0 0 1184 7 25503 601.0 0 25503 8 286 601.0 0 286 9 20743 601.0 0 20743 10 50 601.0 0 50 11 39 601.0 0 39 12 27 601.0 0 27 13 37 601.0 0 37 14 35 601.0 0 35 15 36 601.0 0 36 16 38 601.0 0 38 17 38 601.0 0 38 18 35 601.0 0 35 19 29 601.0 0 29 20 30 601.0 0 30 21 50 601.0 0 50 22 31 601.0 0 31 23 47 601.0 0 47 24 46 601.0 0 46 25 31 601.0 0 31 26 51 601.0 0 51 27 36 601.0 0 36 28 41 601.0 0 41 29 37 601.0 0 37 30 39 601.0 0 39 31 27 601.0 0 27 32 38 601.0 0 38 33 30 601.0 0 30 34 39 601.0 0 39 35 36 601.0 0 36 36 22 601.0 0 22 37 42 601.0 0 42 38 59 601.0 0 59 39 46 601.0 0 46 40 30 601.0 0 30 41 29 601.0 0 29 42 107 601.0 0 107 43 66 601.0 0 66 44 77 601.0 0 77 45 38 601.0 0 38 46 23 601.0 0 23 47 27 601.0 0 27 48 47 601.0 0 47 49 36 601.0 0 36 50 42 601.0 0 42 51 26 601.0 0 26 52 32 601.0 0 32 53 28 601.0 0 28 54 33 601.0 0 33 55 41 601.0 0 41 56 30 601.0 0 30 57 20 601.0 0 20 58 57 601.0 0 57 59 28 601.0 0 28 60 30 601.0 0 30 61 30 601.0 0 30 62 30 601.0 0 30 63 45 601.0 0 45 64 31 601.0 0 31 65 38 601.0 0 38 66 60 601.0 0 60 67 60 601.0 0 60 68 31 601.0 0 31 69 39 601.0 0 39 70 36 601.0 0 36 71 36 601.0 0 36 72 42 601.0 0 42 73 44 601.0 0 44 74 52 601.0 0 52 75 66 601.0 0 66 76 54 601.0 0 54 77 40 601.0 0 40 78 30 601.0 0 30 79 98 601.0 0 98 80 65 601.0 0 65 81 75 601.0 0 75 82 26 601.0 0 26 83 39 601.0 0 39 84 30 601.0 0 30 85 44 601.0 0 44 86 31 601.0 0 31 87 61 601.0 0 61 88 55 601.0 0 55 89 57 601.0 0 57 90 68 601.0 0 68 91 49 601.0 0 49 92 150 601.0 0 150 93 578 601.0 0 578 94 1534 601.0 0 1534 95 49 601.0 0 49 96 56 601.0 0 56 97 39 601.0 0 39 98 46 601.0 0 46 99 38 601.0 0 38 100 49 601.0 0 49 101 36 601.0 0 36 102 30 601.0 0 30 103 31 601.0 0 31 104 53 601.0 0 53 105 58 601.0 0 58 106 43 601.0 0 43 107 34 601.0 0 34 108 54 601.0 0 54 109 60 601.0 0 60 110 63 601.0 0 63 111 58 601.0 0 58 112 188 601.0 0 188 113 48 601.0 0 48 114 57 601.0 0 57 115 62 601.0 0 62 116 36 601.0 0 36 117 65 601.0 0 65 118 44 601.0 0 44 119 50 601.0 0 50 120 48 601.0 0 48 121 59 601.0 0 59 122 49 601.0 0 49 123 310 601.0 0 310 124 431 601.0 0 431 125 673 601.0 0 673 126 46 601.0 0 46 127 50 601.0 0 50 128 73 601.0 0 73 129 368 601.0 0 368 130 118 601.0 0 118 131 79 601.0 0 79 132 80 601.0 0 80 133 41 601.0 0 41 134 26 601.0 0 26 135 37 601.0 0 37 136 44 601.0 0 44 137 38 601.0 0 38 138 46 601.0 0 46 139 49 601.0 0 49 140 50 601.0 0 50 141 42 601.0 0 42 142 53 601.0 0 53 143 41 601.0 0 41 144 41 601.0 0 41 145 38 601.0 0 38 146 44 601.0 0 44 147 44 601.0 0 44 148 67 601.0 0 67 149 25 601.0 0 25 150 32 601.0 0 32 151 31 601.0 0 31 152 55 601.0 0 55 153 40 601.0 0 40 154 51 601.0 0 51 155 50 601.0 0 50 156 57 601.0 0 57 157 37 601.0 0 37 158 90 601.0 0 90 159 27 601.0 0 27 160 35 601.0 0 35 161 44 601.0 0 44 162 57 601.0 0 57 163 51 601.0 0 51 164 69 601.0 0 69 165 38 601.0 0 38 166 33 601.0 0 33 167 88 601.0 0 88 168 53 601.0 0 53 169 81 601.0 0 81 170 44 601.0 0 44 171 40 601.0 0 40 172 47 601.0 0 47 173 73 601.0 0 73 174 58 601.0 0 58 175 52 601.0 0 52 176 46 601.0 0 46 177 37 601.0 0 37 178 173 601.0 0 173 179 167 601.0 0 167 180 127 601.0 0 127 181 67 601.0 0 67 182 45 601.0 0 45 183 41 601.0 0 41 184 282 601.0 0 282 185 61 601.0 0 61 186 89 601.0 0 89 187 44 601.0 0 44 188 73 601.0 0 73 189 45 601.0 0 45 190 52 601.0 0 52 191 49 601.0 0 49 192 47 601.0 0 47 193 51 601.0 0 51 194 71 601.0 0 71 195 94 601.0 0 94 196 50 601.0 0 50 197 61 601.0 0 61 198 142 601.0 0 142 199 195 601.0 0 195 200 167 601.0 0 167 201 87 601.0 0 87 202 59 601.0 0 59 203 45 601.0 0 45 204 55 601.0 0 55 205 79 601.0 0 79 206 64 601.0 0 64 207 103 601.0 0 103 208 72 601.0 0 72 209 44 601.0 0 44 210 50 601.0 0 50 211 58 601.0 0 58 212 34 601.0 0 34 213 32 601.0 0 32 214 46 601.0 0 46 215 62 601.0 0 62 216 44 601.0 0 44 217 39 601.0 0 39 218 69 601.0 0 69 219 116 601.0 0 116 220 128 601.0 0 128 221 161 601.0 0 161 222 431 601.0 0 431 223 391 601.0 0 391 224 2623 601.0 0 2623 225 92 601.0 0 92 226 63 601.0 0 63 227 59 601.0 0 59 228 43 601.0 0 43 229 52 601.0 0 52 230 60 601.0 0 60 231 48 601.0 0 48 232 36 601.0 0 36 233 50 601.0 0 50 234 56 601.0 0 56 235 38 601.0 0 38 236 38 601.0 0 38 237 30 601.0 0 30 238 81 601.0 0 81 239 104 601.0 0 104 240 486 601.0 0 486 241 803 601.0 0 803 242 774 601.0 0 774 243 68 601.0 0 68 244 68 601.0 0 68 245 32 601.0 0 32 246 49 601.0 0 49 247 56 601.0 0 56 248 58 601.0 0 58 249 51 601.0 0 51 250 73 601.0 0 73 251 86 601.0 0 86 252 94 601.0 0 94 253 63 601.0 0 63 254 40 601.0 0 40 255 57 601.0 0 57 256 52 601.0 0 52 257 45 601.0 0 45 258 47 601.0 0 47 259 41 601.0 0 41 260 67 601.0 0 67 261 55 601.0 0 55 262 135 601.0 0 135 263 85 601.0 0 85 264 42 601.0 0 42 265 44 601.0 0 44 266 47 601.0 0 47 267 52 601.0 0 52 268 43 601.0 0 43 269 59 601.0 0 59 270 45 601.0 0 45 271 62 601.0 0 62 272 54 601.0 0 54 273 43 601.0 0 43 274 49 601.0 0 49 275 43 601.0 0 43 276 44 601.0 0 44 277 57 601.0 0 57 278 53 601.0 0 53 279 64 601.0 0 64 280 43 601.0 0 43 281 43 601.0 0 43 282 43 601.0 0 43 283 48 601.0 0 48 284 69 601.0 0 69 285 48 601.0 0 48 286 75 601.0 0 75 287 77 601.0 0 77 288 158 601.0 0 158 289 170 601.0 0 170 290 152 601.0 0 152 291 93 601.0 0 93 292 73 601.0 0 73 293 76 601.0 0 76 294 54 601.0 0 54 295 58 601.0 0 58 296 49 601.0 0 49 297 63 601.0 0 63 298 68 601.0 0 68 299 61 601.0 0 61 300 85 601.0 0 85 301 66 601.0 0 66 Finished in 2.93 s (48 us/read; 1.26 M reads/minute). === Summary === Total reads processed: 61,582 Reads with adapters: 21,329 (34.6%) Reads that were too short: 15 (0.0%) Reads written (passing filters): 21,314 (34.6%) Total basepairs processed: 16,556,396 bp Total written (filtered): 5,859,781 bp (35.4%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 21329 times. No. of allowed errors: 0-4 bp: 0; 5-9 bp: 1; 10-14 bp: 2; 15-17 bp: 3 Overview of removed sequences length count expect max.err error counts 14 2 0.0 2 0 0 0 2 15 3 0.0 3 0 0 3 16 158 0.0 3 0 150 6 2 17 20861 0.0 3 20447 402 10 2 18 38 0.0 3 6 31 1 19 21 0.0 3 3 5 10 3 20 215 0.0 3 189 5 0 21 21 1 0.0 3 0 0 0 1 23 1 0.0 3 0 0 0 1 24 1 0.0 3 1 39 1 0.0 3 0 0 0 1 47 1 0.0 3 0 0 0 1 62 1 0.0 3 0 0 0 1 63 3 0.0 3 0 0 0 3 66 1 0.0 3 0 0 0 1 72 2 0.0 3 0 0 0 2 84 1 0.0 3 0 0 0 1 88 1 0.0 3 0 0 0 1 103 1 0.0 3 0 0 0 1 105 1 0.0 3 0 0 0 1 106 1 0.0 3 0 0 0 1 108 1 0.0 3 0 0 0 1 117 1 0.0 3 0 0 0 1 122 1 0.0 3 0 0 0 1 133 1 0.0 3 0 0 0 1 183 1 0.0 3 0 0 0 1 192 1 0.0 3 0 0 0 1 217 3 0.0 3 0 0 0 3 218 2 0.0 3 0 0 0 2 227 1 0.0 3 0 0 0 1 238 1 0.0 3 0 0 0 1 243 1 0.0 3 0 0 0 1 This is cutadapt 1.11 with Python 2.7.12 Command line parameters: -a taatctatgggnncatcagg - Trimming 1 adapter with at most 10.0% errors in single-end mode ... Finished in 0.76 s (36 us/read; 1.68 M reads/minute). === Summary === Total reads processed: 21,314 Reads with adapters: 262 (1.2%) Reads written (passing filters): 21,314 (100.0%) Total basepairs processed: 5,859,781 bp Total written (filtered): 5,858,985 bp (100.0%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 262 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 84.0% C: 5.3% G: 7.3% T: 3.4% none/other: 0.0% WARNING: The adapter is preceded by "A" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "A" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 255 333.0 0 255 4 5 83.3 0 5 5 1 20.8 0 1 6 1 5.2 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.