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 78.79 s (26 us/read; 2.29 M reads/minute). === Summary === Total reads processed: 3,009,659 Reads with adapters: 42,344 (1.4%) Reads that were too short: 28,402 (0.9%) Reads written (passing filters): 13,942 (0.5%) Total basepairs processed: 905,907,359 bp Total written (filtered): 2,844,700 bp (0.3%) === Adapter 1 === Sequence: AACGCG; Type: regular 5'; Length: 6; Trimmed: 42344 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 63 734.8 0 63 7 77 734.8 0 77 8 53 734.8 0 53 9 2707 734.8 0 2707 10 46 734.8 0 46 11 45 734.8 0 45 12 40 734.8 0 40 13 52 734.8 0 52 14 27 734.8 0 27 15 33 734.8 0 33 16 50 734.8 0 50 17 56 734.8 0 56 18 40 734.8 0 40 19 47 734.8 0 47 20 37 734.8 0 37 21 44 734.8 0 44 22 43 734.8 0 43 23 37 734.8 0 37 24 35 734.8 0 35 25 41 734.8 0 41 26 37 734.8 0 37 27 37 734.8 0 37 28 28 734.8 0 28 29 33 734.8 0 33 30 36 734.8 0 36 31 44 734.8 0 44 32 35 734.8 0 35 33 37 734.8 0 37 34 28 734.8 0 28 35 38 734.8 0 38 36 35 734.8 0 35 37 57 734.8 0 57 38 41 734.8 0 41 39 35 734.8 0 35 40 26 734.8 0 26 41 40 734.8 0 40 42 35 734.8 0 35 43 44 734.8 0 44 44 60 734.8 0 60 45 31 734.8 0 31 46 58 734.8 0 58 47 49 734.8 0 49 48 63 734.8 0 63 49 55 734.8 0 55 50 29 734.8 0 29 51 33 734.8 0 33 52 50 734.8 0 50 53 37 734.8 0 37 54 43 734.8 0 43 55 42 734.8 0 42 56 35 734.8 0 35 57 38 734.8 0 38 58 51 734.8 0 51 59 39 734.8 0 39 60 44 734.8 0 44 61 36 734.8 0 36 62 45 734.8 0 45 63 29 734.8 0 29 64 41 734.8 0 41 65 48 734.8 0 48 66 47 734.8 0 47 67 48 734.8 0 48 68 68 734.8 0 68 69 57 734.8 0 57 70 42 734.8 0 42 71 49 734.8 0 49 72 52 734.8 0 52 73 47 734.8 0 47 74 47 734.8 0 47 75 36 734.8 0 36 76 39 734.8 0 39 77 32 734.8 0 32 78 32 734.8 0 32 79 44 734.8 0 44 80 29 734.8 0 29 81 42 734.8 0 42 82 47 734.8 0 47 83 38 734.8 0 38 84 45 734.8 0 45 85 48 734.8 0 48 86 47 734.8 0 47 87 38 734.8 0 38 88 36 734.8 0 36 89 45 734.8 0 45 90 54 734.8 0 54 91 74 734.8 0 74 92 66 734.8 0 66 93 67 734.8 0 67 94 73 734.8 0 73 95 47 734.8 0 47 96 54 734.8 0 54 97 46 734.8 0 46 98 50 734.8 0 50 99 56 734.8 0 56 100 71 734.8 0 71 101 56 734.8 0 56 102 60 734.8 0 60 103 40 734.8 0 40 104 29 734.8 0 29 105 54 734.8 0 54 106 46 734.8 0 46 107 41 734.8 0 41 108 50 734.8 0 50 109 56 734.8 0 56 110 52 734.8 0 52 111 55 734.8 0 55 112 51 734.8 0 51 113 53 734.8 0 53 114 71 734.8 0 71 115 72 734.8 0 72 116 57 734.8 0 57 117 68 734.8 0 68 118 57 734.8 0 57 119 61 734.8 0 61 120 47 734.8 0 47 121 65 734.8 0 65 122 74 734.8 0 74 123 93 734.8 0 93 124 108 734.8 0 108 125 73 734.8 0 73 126 56 734.8 0 56 127 162 734.8 0 162 128 110 734.8 0 110 129 77 734.8 0 77 130 42 734.8 0 42 131 68 734.8 0 68 132 54 734.8 0 54 133 42 734.8 0 42 134 82 734.8 0 82 135 84 734.8 0 84 136 76 734.8 0 76 137 61 734.8 0 61 138 46 734.8 0 46 139 52 734.8 0 52 140 56 734.8 0 56 141 41 734.8 0 41 142 47 734.8 0 47 143 50 734.8 0 50 144 70 734.8 0 70 145 66 734.8 0 66 146 56 734.8 0 56 147 60 734.8 0 60 148 37 734.8 0 37 149 56 734.8 0 56 150 55 734.8 0 55 151 55 734.8 0 55 152 50 734.8 0 50 153 53 734.8 0 53 154 49 734.8 0 49 155 47 734.8 0 47 156 61 734.8 0 61 157 60 734.8 0 60 158 53 734.8 0 53 159 43 734.8 0 43 160 52 734.8 0 52 161 44 734.8 0 44 162 52 734.8 0 52 163 66 734.8 0 66 164 56 734.8 0 56 165 62 734.8 0 62 166 65 734.8 0 65 167 63 734.8 0 63 168 54 734.8 0 54 169 58 734.8 0 58 170 79 734.8 0 79 171 78 734.8 0 78 172 68 734.8 0 68 173 66 734.8 0 66 174 59 734.8 0 59 175 54 734.8 0 54 176 76 734.8 0 76 177 96 734.8 0 96 178 81 734.8 0 81 179 83 734.8 0 83 180 90 734.8 0 90 181 78 734.8 0 78 182 148 734.8 0 148 183 190 734.8 0 190 184 98 734.8 0 98 185 59 734.8 0 59 186 61 734.8 0 61 187 46 734.8 0 46 188 139 734.8 0 139 189 111 734.8 0 111 190 119 734.8 0 119 191 101 734.8 0 101 192 73 734.8 0 73 193 69 734.8 0 69 194 59 734.8 0 59 195 56 734.8 0 56 196 115 734.8 0 115 197 230 734.8 0 230 198 155 734.8 0 155 199 65 734.8 0 65 200 36 734.8 0 36 201 58 734.8 0 58 202 90 734.8 0 90 203 102 734.8 0 102 204 82 734.8 0 82 205 52 734.8 0 52 206 53 734.8 0 53 207 48 734.8 0 48 208 42 734.8 0 42 209 51 734.8 0 51 210 59 734.8 0 59 211 53 734.8 0 53 212 66 734.8 0 66 213 74 734.8 0 74 214 61 734.8 0 61 215 80 734.8 0 80 216 80 734.8 0 80 217 128 734.8 0 128 218 107 734.8 0 107 219 155 734.8 0 155 220 358 734.8 0 358 221 631 734.8 0 631 222 312 734.8 0 312 223 166 734.8 0 166 224 121 734.8 0 121 225 117 734.8 0 117 226 101 734.8 0 101 227 94 734.8 0 94 228 110 734.8 0 110 229 63 734.8 0 63 230 58 734.8 0 58 231 46 734.8 0 46 232 53 734.8 0 53 233 79 734.8 0 79 234 76 734.8 0 76 235 113 734.8 0 113 236 568 734.8 0 568 237 279 734.8 0 279 238 164 734.8 0 164 239 78 734.8 0 78 240 79 734.8 0 79 241 72 734.8 0 72 242 99 734.8 0 99 243 151 734.8 0 151 244 832 734.8 0 832 245 1173 734.8 0 1173 246 1146 734.8 0 1146 247 420 734.8 0 420 248 99 734.8 0 99 249 46 734.8 0 46 250 80 734.8 0 80 251 91 734.8 0 91 252 106 734.8 0 106 253 92 734.8 0 92 254 75 734.8 0 75 255 78 734.8 0 78 256 82 734.8 0 82 257 48 734.8 0 48 258 59 734.8 0 59 259 47 734.8 0 47 260 68 734.8 0 68 261 106 734.8 0 106 262 101 734.8 0 101 263 103 734.8 0 103 264 96 734.8 0 96 265 89 734.8 0 89 266 64 734.8 0 64 267 132 734.8 0 132 268 184 734.8 0 184 269 261 734.8 0 261 270 98 734.8 0 98 271 154 734.8 0 154 272 101 734.8 0 101 273 82 734.8 0 82 274 69 734.8 0 69 275 82 734.8 0 82 276 67 734.8 0 67 277 76 734.8 0 76 278 95 734.8 0 95 279 65 734.8 0 65 280 51 734.8 0 51 281 64 734.8 0 64 282 79 734.8 0 79 283 203 734.8 0 203 284 125 734.8 0 125 285 110 734.8 0 110 286 146 734.8 0 146 287 316 734.8 0 316 288 2236 734.8 0 2236 289 4276 734.8 0 4276 290 7553 734.8 0 7553 291 737 734.8 0 737 292 71 734.8 0 71 293 49 734.8 0 49 294 40 734.8 0 40 295 57 734.8 0 57 296 38 734.8 0 38 297 48 734.8 0 48 298 62 734.8 0 62 299 82 734.8 0 82 300 90 734.8 0 90 301 31 734.8 0 31 Finished in 0.53 s (38 us/read; 1.58 M reads/minute). === Summary === Total reads processed: 13,942 Reads with adapters: 2,642 (18.9%) Reads that were too short: 3 (0.0%) Reads written (passing filters): 2,639 (18.9%) Total basepairs processed: 2,844,700 bp Total written (filtered): 724,152 bp (25.5%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 2642 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 15 1 0.0 3 0 0 1 16 21 0.0 3 0 20 0 1 17 2588 0.0 3 2516 68 3 1 18 13 0.0 3 0 9 1 3 19 2 0.0 3 0 0 1 1 20 4 0.0 3 0 0 0 4 22 1 0.0 3 0 0 0 1 49 1 0.0 3 0 0 0 1 56 1 0.0 3 0 0 0 1 58 1 0.0 3 0 0 0 1 64 2 0.0 3 0 0 0 2 123 3 0.0 3 0 0 1 2 124 1 0.0 3 0 0 0 1 125 1 0.0 3 0 0 0 1 126 1 0.0 3 0 0 0 1 174 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 (38 us/read; 1.58 M reads/minute). === Summary === Total reads processed: 2,639 Reads with adapters: 492 (18.6%) Reads written (passing filters): 2,639 (100.0%) Total basepairs processed: 724,152 bp Total written (filtered): 722,676 bp (99.8%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 492 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 90.9% C: 4.3% G: 4.3% T: 0.6% 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 3 492 41.2 0 492 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.