This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGACCG -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 75.36 s (26 us/read; 2.33 M reads/minute). === Summary === Total reads processed: 2,926,947 Reads with adapters: 61,111 (2.1%) Reads that were too short: 33,411 (1.1%) Reads written (passing filters): 27,700 (0.9%) Total basepairs processed: 881,011,047 bp Total written (filtered): 5,700,932 bp (0.6%) === Adapter 1 === Sequence: AGACCG; Type: regular 5'; Length: 6; Trimmed: 61111 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 297 714.6 0 297 7 9147 714.6 0 9147 8 34 714.6 0 34 9 14 714.6 0 14 10 14 714.6 0 14 11 18 714.6 0 18 12 23 714.6 0 23 13 22 714.6 0 22 14 14 714.6 0 14 15 14 714.6 0 14 16 28 714.6 0 28 17 16 714.6 0 16 18 17 714.6 0 17 19 22 714.6 0 22 20 18 714.6 0 18 21 14 714.6 0 14 22 18 714.6 0 18 23 16 714.6 0 16 24 14 714.6 0 14 25 27 714.6 0 27 26 18 714.6 0 18 27 13 714.6 0 13 28 16 714.6 0 16 29 17 714.6 0 17 30 20 714.6 0 20 31 21 714.6 0 21 32 24 714.6 0 24 33 17 714.6 0 17 34 8 714.6 0 8 35 14 714.6 0 14 36 19 714.6 0 19 37 33 714.6 0 33 38 9 714.6 0 9 39 18 714.6 0 18 40 26 714.6 0 26 41 22 714.6 0 22 42 23 714.6 0 23 43 21 714.6 0 21 44 23 714.6 0 23 45 27 714.6 0 27 46 21 714.6 0 21 47 15 714.6 0 15 48 11 714.6 0 11 49 14 714.6 0 14 50 15 714.6 0 15 51 23 714.6 0 23 52 20 714.6 0 20 53 15 714.6 0 15 54 17 714.6 0 17 55 25 714.6 0 25 56 22 714.6 0 22 57 15 714.6 0 15 58 14 714.6 0 14 59 16 714.6 0 16 60 14 714.6 0 14 61 19 714.6 0 19 62 21 714.6 0 21 63 33 714.6 0 33 64 15 714.6 0 15 65 13 714.6 0 13 66 17 714.6 0 17 67 22 714.6 0 22 68 10 714.6 0 10 69 16 714.6 0 16 70 16 714.6 0 16 71 26 714.6 0 26 72 8 714.6 0 8 73 23 714.6 0 23 74 38 714.6 0 38 75 61 714.6 0 61 76 30 714.6 0 30 77 23 714.6 0 23 78 24 714.6 0 24 79 41 714.6 0 41 80 228 714.6 0 228 81 159 714.6 0 159 82 1661 714.6 0 1661 83 661 714.6 0 661 84 194 714.6 0 194 85 33 714.6 0 33 86 28 714.6 0 28 87 26 714.6 0 26 88 42 714.6 0 42 89 34 714.6 0 34 90 26 714.6 0 26 91 27 714.6 0 27 92 47 714.6 0 47 93 106 714.6 0 106 94 46 714.6 0 46 95 37 714.6 0 37 96 36 714.6 0 36 97 48 714.6 0 48 98 25 714.6 0 25 99 30 714.6 0 30 100 27 714.6 0 27 101 41 714.6 0 41 102 47 714.6 0 47 103 27 714.6 0 27 104 29 714.6 0 29 105 15 714.6 0 15 106 28 714.6 0 28 107 17 714.6 0 17 108 14 714.6 0 14 109 35 714.6 0 35 110 29 714.6 0 29 111 34 714.6 0 34 112 32 714.6 0 32 113 74 714.6 0 74 114 35 714.6 0 35 115 48 714.6 0 48 116 40 714.6 0 40 117 71 714.6 0 71 118 92 714.6 0 92 119 109 714.6 0 109 120 55 714.6 0 55 121 69 714.6 0 69 122 107 714.6 0 107 123 136 714.6 0 136 124 53 714.6 0 53 125 95 714.6 0 95 126 111 714.6 0 111 127 98 714.6 0 98 128 51 714.6 0 51 129 52 714.6 0 52 130 55 714.6 0 55 131 75 714.6 0 75 132 125 714.6 0 125 133 93 714.6 0 93 134 82 714.6 0 82 135 77 714.6 0 77 136 89 714.6 0 89 137 84 714.6 0 84 138 99 714.6 0 99 139 110 714.6 0 110 140 83 714.6 0 83 141 56 714.6 0 56 142 80 714.6 0 80 143 112 714.6 0 112 144 113 714.6 0 113 145 70 714.6 0 70 146 51 714.6 0 51 147 80 714.6 0 80 148 65 714.6 0 65 149 85 714.6 0 85 150 56 714.6 0 56 151 64 714.6 0 64 152 90 714.6 0 90 153 116 714.6 0 116 154 113 714.6 0 113 155 86 714.6 0 86 156 126 714.6 0 126 157 89 714.6 0 89 158 93 714.6 0 93 159 114 714.6 0 114 160 71 714.6 0 71 161 71 714.6 0 71 162 93 714.6 0 93 163 150 714.6 0 150 164 136 714.6 0 136 165 104 714.6 0 104 166 105 714.6 0 105 167 693 714.6 0 693 168 729 714.6 0 729 169 297 714.6 0 297 170 117 714.6 0 117 171 379 714.6 0 379 172 607 714.6 0 607 173 212 714.6 0 212 174 118 714.6 0 118 175 100 714.6 0 100 176 93 714.6 0 93 177 101 714.6 0 101 178 112 714.6 0 112 179 123 714.6 0 123 180 115 714.6 0 115 181 140 714.6 0 140 182 110 714.6 0 110 183 194 714.6 0 194 184 258 714.6 0 258 185 143 714.6 0 143 186 83 714.6 0 83 187 355 714.6 0 355 188 162 714.6 0 162 189 422 714.6 0 422 190 200 714.6 0 200 191 122 714.6 0 122 192 117 714.6 0 117 193 80 714.6 0 80 194 91 714.6 0 91 195 111 714.6 0 111 196 155 714.6 0 155 197 112 714.6 0 112 198 98 714.6 0 98 199 112 714.6 0 112 200 277 714.6 0 277 201 1147 714.6 0 1147 202 481 714.6 0 481 203 132 714.6 0 132 204 137 714.6 0 137 205 133 714.6 0 133 206 139 714.6 0 139 207 105 714.6 0 105 208 117 714.6 0 117 209 104 714.6 0 104 210 111 714.6 0 111 211 120 714.6 0 120 212 127 714.6 0 127 213 124 714.6 0 124 214 127 714.6 0 127 215 165 714.6 0 165 216 153 714.6 0 153 217 140 714.6 0 140 218 128 714.6 0 128 219 122 714.6 0 122 220 118 714.6 0 118 221 112 714.6 0 112 222 133 714.6 0 133 223 186 714.6 0 186 224 171 714.6 0 171 225 243 714.6 0 243 226 296 714.6 0 296 227 610 714.6 0 610 228 3572 714.6 0 3572 229 3186 714.6 0 3186 230 1884 714.6 0 1884 231 208 714.6 0 208 232 144 714.6 0 144 233 131 714.6 0 131 234 145 714.6 0 145 235 115 714.6 0 115 236 107 714.6 0 107 237 109 714.6 0 109 238 108 714.6 0 108 239 133 714.6 0 133 240 115 714.6 0 115 241 98 714.6 0 98 242 118 714.6 0 118 243 166 714.6 0 166 244 142 714.6 0 142 245 137 714.6 0 137 246 142 714.6 0 142 247 97 714.6 0 97 248 107 714.6 0 107 249 112 714.6 0 112 250 183 714.6 0 183 251 322 714.6 0 322 252 153 714.6 0 153 253 184 714.6 0 184 254 138 714.6 0 138 255 216 714.6 0 216 256 279 714.6 0 279 257 310 714.6 0 310 258 379 714.6 0 379 259 207 714.6 0 207 260 190 714.6 0 190 261 620 714.6 0 620 262 4820 714.6 0 4820 263 894 714.6 0 894 264 302 714.6 0 302 265 809 714.6 0 809 266 175 714.6 0 175 267 98 714.6 0 98 268 502 714.6 0 502 269 2205 714.6 0 2205 270 638 714.6 0 638 271 151 714.6 0 151 272 114 714.6 0 114 273 157 714.6 0 157 274 126 714.6 0 126 275 124 714.6 0 124 276 127 714.6 0 127 277 177 714.6 0 177 278 118 714.6 0 118 279 85 714.6 0 85 280 101 714.6 0 101 281 135 714.6 0 135 282 204 714.6 0 204 283 258 714.6 0 258 284 154 714.6 0 154 285 114 714.6 0 114 286 87 714.6 0 87 287 75 714.6 0 75 288 84 714.6 0 84 289 149 714.6 0 149 290 120 714.6 0 120 291 161 714.6 0 161 292 130 714.6 0 130 293 101 714.6 0 101 294 58 714.6 0 58 295 54 714.6 0 54 296 61 714.6 0 61 297 122 714.6 0 122 298 162 714.6 0 162 299 211 714.6 0 211 300 355 714.6 0 355 301 102 714.6 0 102 Finished in 1.07 s (39 us/read; 1.55 M reads/minute). === Summary === Total reads processed: 27,700 Reads with adapters: 9,366 (33.8%) Reads that were too short: 9 (0.0%) Reads written (passing filters): 9,357 (33.8%) Total basepairs processed: 5,700,932 bp Total written (filtered): 2,591,389 bp (45.5%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 9366 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 4 0.0 2 0 0 0 4 15 7 0.0 3 0 0 7 16 69 0.0 3 0 69 17 9212 0.0 3 9106 103 1 2 18 33 0.0 3 3 14 11 5 19 19 0.0 3 0 0 8 11 20 6 0.0 3 0 0 0 6 40 2 0.0 3 0 0 0 2 59 1 0.0 3 0 0 0 1 66 1 0.0 3 0 0 0 1 68 1 0.0 3 0 0 0 1 71 2 0.0 3 0 0 0 2 74 1 0.0 3 0 0 0 1 88 1 0.0 3 0 0 0 1 97 1 0.0 3 0 0 0 1 98 1 0.0 3 0 0 0 1 111 1 0.0 3 0 0 0 1 118 1 0.0 3 0 0 0 1 124 1 0.0 3 0 0 0 1 132 1 0.0 3 0 0 0 1 166 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 0.33 s (35 us/read; 1.70 M reads/minute). === Summary === Total reads processed: 9,357 Reads with adapters: 691 (7.4%) Reads written (passing filters): 9,357 (100.0%) Total basepairs processed: 2,591,389 bp Total written (filtered): 2,589,306 bp (99.9%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 691 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 4.9% C: 84.9% G: 9.1% T: 1.0% none/other: 0.0% WARNING: The adapter is preceded by "C" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "C" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 689 146.2 0 689 4 1 36.6 0 1 12 1 0.0 1 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.