This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AACGCG -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 78.43 s (26 us/read; 2.30 M reads/minute). === Summary === Total reads processed: 3,009,659 Reads with adapters: 85,144 (2.8%) Reads that were too short: 66,632 (2.2%) Reads written (passing filters): 18,512 (0.6%) Total basepairs processed: 905,907,359 bp Total written (filtered): 3,657,240 bp (0.4%) === Adapter 1 === Sequence: AACGCG; Type: regular 5'; Length: 6; Trimmed: 85144 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 78 734.8 0 78 7 88 734.8 0 88 8 77 734.8 0 77 9 2867 734.8 0 2867 10 53 734.8 0 53 11 50 734.8 0 50 12 54 734.8 0 54 13 28 734.8 0 28 14 37 734.8 0 37 15 42 734.8 0 42 16 42 734.8 0 42 17 25 734.8 0 25 18 54 734.8 0 54 19 38 734.8 0 38 20 39 734.8 0 39 21 41 734.8 0 41 22 33 734.8 0 33 23 28 734.8 0 28 24 45 734.8 0 45 25 34 734.8 0 34 26 33 734.8 0 33 27 27 734.8 0 27 28 40 734.8 0 40 29 36 734.8 0 36 30 36 734.8 0 36 31 33 734.8 0 33 32 29 734.8 0 29 33 34 734.8 0 34 34 27 734.8 0 27 35 32 734.8 0 32 36 49 734.8 0 49 37 45 734.8 0 45 38 38 734.8 0 38 39 79 734.8 0 79 40 37 734.8 0 37 41 36 734.8 0 36 42 42 734.8 0 42 43 38 734.8 0 38 44 46 734.8 0 46 45 40 734.8 0 40 46 86 734.8 0 86 47 62 734.8 0 62 48 70 734.8 0 70 49 60 734.8 0 60 50 27 734.8 0 27 51 40 734.8 0 40 52 29 734.8 0 29 53 41 734.8 0 41 54 53 734.8 0 53 55 50 734.8 0 50 56 44 734.8 0 44 57 41 734.8 0 41 58 46 734.8 0 46 59 32 734.8 0 32 60 46 734.8 0 46 61 36 734.8 0 36 62 43 734.8 0 43 63 50 734.8 0 50 64 48 734.8 0 48 65 38 734.8 0 38 66 34 734.8 0 34 67 29 734.8 0 29 68 72 734.8 0 72 69 70 734.8 0 70 70 50 734.8 0 50 71 481 734.8 0 481 72 375 734.8 0 375 73 234 734.8 0 234 74 44 734.8 0 44 75 56 734.8 0 56 76 46 734.8 0 46 77 67 734.8 0 67 78 41 734.8 0 41 79 96 734.8 0 96 80 62 734.8 0 62 81 72 734.8 0 72 82 151 734.8 0 151 83 102 734.8 0 102 84 125 734.8 0 125 85 79 734.8 0 79 86 85 734.8 0 85 87 42 734.8 0 42 88 64 734.8 0 64 89 72 734.8 0 72 90 95 734.8 0 95 91 131 734.8 0 131 92 104 734.8 0 104 93 60 734.8 0 60 94 57 734.8 0 57 95 38 734.8 0 38 96 53 734.8 0 53 97 60 734.8 0 60 98 30 734.8 0 30 99 55 734.8 0 55 100 46 734.8 0 46 101 52 734.8 0 52 102 55 734.8 0 55 103 48 734.8 0 48 104 36 734.8 0 36 105 40 734.8 0 40 106 35 734.8 0 35 107 30 734.8 0 30 108 61 734.8 0 61 109 60 734.8 0 60 110 80 734.8 0 80 111 71 734.8 0 71 112 71 734.8 0 71 113 88 734.8 0 88 114 73 734.8 0 73 115 81 734.8 0 81 116 70 734.8 0 70 117 90 734.8 0 90 118 77 734.8 0 77 119 76 734.8 0 76 120 60 734.8 0 60 121 100 734.8 0 100 122 93 734.8 0 93 123 137 734.8 0 137 124 176 734.8 0 176 125 96 734.8 0 96 126 78 734.8 0 78 127 289 734.8 0 289 128 189 734.8 0 189 129 105 734.8 0 105 130 70 734.8 0 70 131 55 734.8 0 55 132 76 734.8 0 76 133 54 734.8 0 54 134 94 734.8 0 94 135 99 734.8 0 99 136 88 734.8 0 88 137 90 734.8 0 90 138 74 734.8 0 74 139 63 734.8 0 63 140 68 734.8 0 68 141 66 734.8 0 66 142 70 734.8 0 70 143 67 734.8 0 67 144 86 734.8 0 86 145 78 734.8 0 78 146 85 734.8 0 85 147 58 734.8 0 58 148 56 734.8 0 56 149 76 734.8 0 76 150 84 734.8 0 84 151 75 734.8 0 75 152 84 734.8 0 84 153 70 734.8 0 70 154 99 734.8 0 99 155 76 734.8 0 76 156 74 734.8 0 74 157 90 734.8 0 90 158 77 734.8 0 77 159 81 734.8 0 81 160 63 734.8 0 63 161 65 734.8 0 65 162 68 734.8 0 68 163 85 734.8 0 85 164 95 734.8 0 95 165 90 734.8 0 90 166 73 734.8 0 73 167 85 734.8 0 85 168 64 734.8 0 64 169 78 734.8 0 78 170 77 734.8 0 77 171 130 734.8 0 130 172 109 734.8 0 109 173 109 734.8 0 109 174 98 734.8 0 98 175 59 734.8 0 59 176 110 734.8 0 110 177 113 734.8 0 113 178 110 734.8 0 110 179 103 734.8 0 103 180 106 734.8 0 106 181 111 734.8 0 111 182 324 734.8 0 324 183 469 734.8 0 469 184 170 734.8 0 170 185 77 734.8 0 77 186 85 734.8 0 85 187 77 734.8 0 77 188 153 734.8 0 153 189 142 734.8 0 142 190 184 734.8 0 184 191 119 734.8 0 119 192 99 734.8 0 99 193 76 734.8 0 76 194 58 734.8 0 58 195 59 734.8 0 59 196 140 734.8 0 140 197 315 734.8 0 315 198 214 734.8 0 214 199 72 734.8 0 72 200 64 734.8 0 64 201 64 734.8 0 64 202 105 734.8 0 105 203 144 734.8 0 144 204 113 734.8 0 113 205 77 734.8 0 77 206 67 734.8 0 67 207 80 734.8 0 80 208 81 734.8 0 81 209 54 734.8 0 54 210 83 734.8 0 83 211 90 734.8 0 90 212 86 734.8 0 86 213 96 734.8 0 96 214 94 734.8 0 94 215 87 734.8 0 87 216 120 734.8 0 120 217 236 734.8 0 236 218 246 734.8 0 246 219 285 734.8 0 285 220 654 734.8 0 654 221 968 734.8 0 968 222 601 734.8 0 601 223 396 734.8 0 396 224 322 734.8 0 322 225 318 734.8 0 318 226 295 734.8 0 295 227 212 734.8 0 212 228 161 734.8 0 161 229 98 734.8 0 98 230 80 734.8 0 80 231 94 734.8 0 94 232 109 734.8 0 109 233 148 734.8 0 148 234 193 734.8 0 193 235 206 734.8 0 206 236 996 734.8 0 996 237 456 734.8 0 456 238 254 734.8 0 254 239 204 734.8 0 204 240 123 734.8 0 123 241 160 734.8 0 160 242 240 734.8 0 240 243 423 734.8 0 423 244 5099 734.8 0 5099 245 4734 734.8 0 4734 246 3669 734.8 0 3669 247 1219 734.8 0 1219 248 326 734.8 0 326 249 138 734.8 0 138 250 128 734.8 0 128 251 146 734.8 0 146 252 175 734.8 0 175 253 146 734.8 0 146 254 161 734.8 0 161 255 181 734.8 0 181 256 105 734.8 0 105 257 51 734.8 0 51 258 43 734.8 0 43 259 50 734.8 0 50 260 49 734.8 0 49 261 175 734.8 0 175 262 179 734.8 0 179 263 198 734.8 0 198 264 165 734.8 0 165 265 129 734.8 0 129 266 123 734.8 0 123 267 239 734.8 0 239 268 317 734.8 0 317 269 316 734.8 0 316 270 147 734.8 0 147 271 204 734.8 0 204 272 142 734.8 0 142 273 106 734.8 0 106 274 149 734.8 0 149 275 104 734.8 0 104 276 147 734.8 0 147 277 222 734.8 0 222 278 216 734.8 0 216 279 137 734.8 0 137 280 67 734.8 0 67 281 71 734.8 0 71 282 113 734.8 0 113 283 322 734.8 0 322 284 295 734.8 0 295 285 259 734.8 0 259 286 358 734.8 0 358 287 516 734.8 0 516 288 4158 734.8 0 4158 289 17555 734.8 0 17555 290 11191 734.8 0 11191 291 1066 734.8 0 1066 292 128 734.8 0 128 293 87 734.8 0 87 294 239 734.8 0 239 295 222 734.8 0 222 296 80 734.8 0 80 297 67 734.8 0 67 298 45 734.8 0 45 299 42 734.8 0 42 300 42 734.8 0 42 301 19 734.8 0 19 Finished in 0.68 s (37 us/read; 1.63 M reads/minute). === Summary === Total reads processed: 18,512 Reads with adapters: 2,874 (15.5%) Reads that were too short: 16 (0.1%) Reads written (passing filters): 2,858 (15.4%) Total basepairs processed: 3,657,240 bp Total written (filtered): 780,819 bp (21.3%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 2874 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 1 0.0 2 0 0 0 1 15 1 0.0 3 0 0 1 16 19 0.0 3 0 18 0 1 17 2778 0.0 3 2706 58 10 4 18 11 0.0 3 0 10 1 19 11 0.0 3 3 0 1 7 20 4 0.0 3 0 0 0 4 22 2 0.0 3 0 0 0 2 26 1 0.0 3 0 0 0 1 39 1 0.0 3 1 40 1 0.0 3 0 0 0 1 43 2 0.0 3 0 0 0 2 46 1 0.0 3 0 0 0 1 49 1 0.0 3 0 0 0 1 51 1 0.0 3 0 0 0 1 52 1 0.0 3 0 0 1 64 5 0.0 3 0 0 0 5 67 4 0.0 3 0 0 0 4 69 3 0.0 3 0 0 0 3 77 2 0.0 3 0 0 0 2 88 1 0.0 3 0 0 0 1 98 1 0.0 3 0 0 0 1 106 1 0.0 3 0 0 0 1 107 1 0.0 3 0 0 0 1 113 1 0.0 3 0 0 0 1 114 1 0.0 3 0 0 0 1 119 3 0.0 3 0 0 0 3 120 3 0.0 3 0 0 0 3 123 4 0.0 3 0 0 0 4 152 1 0.0 3 0 0 0 1 169 1 0.0 3 0 0 0 1 190 1 0.0 3 0 0 0 1 197 1 0.0 3 0 0 0 1 204 1 0.0 3 0 0 0 1 228 1 0.0 3 0 0 0 1 246 1 0.0 3 0 0 0 1 247 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 0.10 s (35 us/read; 1.71 M reads/minute). === Summary === Total reads processed: 2,858 Reads with adapters: 303 (10.6%) Reads written (passing filters): 2,858 (100.0%) Total basepairs processed: 780,819 bp Total written (filtered): 779,908 bp (99.9%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 303 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 85.5% C: 5.0% G: 7.3% T: 2.3% 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 3 301 44.7 0 301 4 2 11.2 0 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.