This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGGTAA -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 143.48 s (49 us/read; 1.23 M reads/minute). === Summary === Total reads processed: 2,949,860 Reads with adapters: 166,993 (5.7%) Reads that were too short: 16,619 (0.6%) Reads written (passing filters): 150,374 (5.1%) Total basepairs processed: 887,907,860 bp Total written (filtered): 40,382,263 bp (4.5%) === Adapter 1 === Sequence: AGGTAA; Type: regular 5'; Length: 6; Trimmed: 166993 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 690 720.2 0 690 7 68267 720.2 0 68267 8 640 720.2 0 640 9 51101 720.2 0 51101 10 82 720.2 0 82 11 53 720.2 0 53 12 38 720.2 0 38 13 41 720.2 0 41 14 35 720.2 0 35 15 48 720.2 0 48 16 35 720.2 0 35 17 36 720.2 0 36 18 34 720.2 0 34 19 34 720.2 0 34 20 36 720.2 0 36 21 48 720.2 0 48 22 50 720.2 0 50 23 35 720.2 0 35 24 43 720.2 0 43 25 31 720.2 0 31 26 34 720.2 0 34 27 44 720.2 0 44 28 48 720.2 0 48 29 83 720.2 0 83 30 37 720.2 0 37 31 77 720.2 0 77 32 99 720.2 0 99 33 84 720.2 0 84 34 50 720.2 0 50 35 29 720.2 0 29 36 37 720.2 0 37 37 63 720.2 0 63 38 60 720.2 0 60 39 44 720.2 0 44 40 43 720.2 0 43 41 41 720.2 0 41 42 35 720.2 0 35 43 33 720.2 0 33 44 54 720.2 0 54 45 52 720.2 0 52 46 49 720.2 0 49 47 39 720.2 0 39 48 39 720.2 0 39 49 42 720.2 0 42 50 145 720.2 0 145 51 56 720.2 0 56 52 48 720.2 0 48 53 42 720.2 0 42 54 39 720.2 0 39 55 40 720.2 0 40 56 51 720.2 0 51 57 31 720.2 0 31 58 49 720.2 0 49 59 50 720.2 0 50 60 38 720.2 0 38 61 57 720.2 0 57 62 51 720.2 0 51 63 52 720.2 0 52 64 58 720.2 0 58 65 78 720.2 0 78 66 103 720.2 0 103 67 135 720.2 0 135 68 835 720.2 0 835 69 1652 720.2 0 1652 70 1711 720.2 0 1711 71 42 720.2 0 42 72 48 720.2 0 48 73 37 720.2 0 37 74 44 720.2 0 44 75 45 720.2 0 45 76 40 720.2 0 40 77 38 720.2 0 38 78 41 720.2 0 41 79 110 720.2 0 110 80 76 720.2 0 76 81 108 720.2 0 108 82 61 720.2 0 61 83 42 720.2 0 42 84 46 720.2 0 46 85 44 720.2 0 44 86 51 720.2 0 51 87 46 720.2 0 46 88 57 720.2 0 57 89 49 720.2 0 49 90 47 720.2 0 47 91 67 720.2 0 67 92 41 720.2 0 41 93 52 720.2 0 52 94 58 720.2 0 58 95 58 720.2 0 58 96 76 720.2 0 76 97 56 720.2 0 56 98 63 720.2 0 63 99 84 720.2 0 84 100 65 720.2 0 65 101 59 720.2 0 59 102 55 720.2 0 55 103 54 720.2 0 54 104 38 720.2 0 38 105 32 720.2 0 32 106 41 720.2 0 41 107 71 720.2 0 71 108 39 720.2 0 39 109 79 720.2 0 79 110 54 720.2 0 54 111 78 720.2 0 78 112 56 720.2 0 56 113 49 720.2 0 49 114 247 720.2 0 247 115 57 720.2 0 57 116 116 720.2 0 116 117 156 720.2 0 156 118 86 720.2 0 86 119 71 720.2 0 71 120 52 720.2 0 52 121 65 720.2 0 65 122 92 720.2 0 92 123 91 720.2 0 91 124 74 720.2 0 74 125 61 720.2 0 61 126 77 720.2 0 77 127 70 720.2 0 70 128 77 720.2 0 77 129 80 720.2 0 80 130 79 720.2 0 79 131 125 720.2 0 125 132 104 720.2 0 104 133 451 720.2 0 451 134 2853 720.2 0 2853 135 887 720.2 0 887 136 288 720.2 0 288 137 223 720.2 0 223 138 71 720.2 0 71 139 116 720.2 0 116 140 56 720.2 0 56 141 95 720.2 0 95 142 66 720.2 0 66 143 91 720.2 0 91 144 105 720.2 0 105 145 66 720.2 0 66 146 88 720.2 0 88 147 117 720.2 0 117 148 78 720.2 0 78 149 69 720.2 0 69 150 110 720.2 0 110 151 280 720.2 0 280 152 122 720.2 0 122 153 254 720.2 0 254 154 150 720.2 0 150 155 129 720.2 0 129 156 213 720.2 0 213 157 219 720.2 0 219 158 73 720.2 0 73 159 115 720.2 0 115 160 136 720.2 0 136 161 85 720.2 0 85 162 76 720.2 0 76 163 80 720.2 0 80 164 146 720.2 0 146 165 240 720.2 0 240 166 160 720.2 0 160 167 141 720.2 0 141 168 110 720.2 0 110 169 155 720.2 0 155 170 64 720.2 0 64 171 51 720.2 0 51 172 61 720.2 0 61 173 53 720.2 0 53 174 75 720.2 0 75 175 202 720.2 0 202 176 271 720.2 0 271 177 277 720.2 0 277 178 306 720.2 0 306 179 174 720.2 0 174 180 239 720.2 0 239 181 509 720.2 0 509 182 777 720.2 0 777 183 316 720.2 0 316 184 173 720.2 0 173 185 102 720.2 0 102 186 87 720.2 0 87 187 123 720.2 0 123 188 74 720.2 0 74 189 64 720.2 0 64 190 91 720.2 0 91 191 83 720.2 0 83 192 83 720.2 0 83 193 88 720.2 0 88 194 188 720.2 0 188 195 347 720.2 0 347 196 472 720.2 0 472 197 417 720.2 0 417 198 197 720.2 0 197 199 107 720.2 0 107 200 1015 720.2 0 1015 201 2483 720.2 0 2483 202 1993 720.2 0 1993 203 609 720.2 0 609 204 38 720.2 0 38 205 51 720.2 0 51 206 54 720.2 0 54 207 79 720.2 0 79 208 65 720.2 0 65 209 63 720.2 0 63 210 44 720.2 0 44 211 54 720.2 0 54 212 59 720.2 0 59 213 94 720.2 0 94 214 129 720.2 0 129 215 63 720.2 0 63 216 41 720.2 0 41 217 43 720.2 0 43 218 41 720.2 0 41 219 51 720.2 0 51 220 61 720.2 0 61 221 121 720.2 0 121 222 145 720.2 0 145 223 105 720.2 0 105 224 74 720.2 0 74 225 50 720.2 0 50 226 135 720.2 0 135 227 157 720.2 0 157 228 53 720.2 0 53 229 62 720.2 0 62 230 58 720.2 0 58 231 79 720.2 0 79 232 60 720.2 0 60 233 68 720.2 0 68 234 55 720.2 0 55 235 52 720.2 0 52 236 82 720.2 0 82 237 68 720.2 0 68 238 62 720.2 0 62 239 93 720.2 0 93 240 98 720.2 0 98 241 96 720.2 0 96 242 98 720.2 0 98 243 93 720.2 0 93 244 132 720.2 0 132 245 63 720.2 0 63 246 52 720.2 0 52 247 57 720.2 0 57 248 63 720.2 0 63 249 74 720.2 0 74 250 136 720.2 0 136 251 205 720.2 0 205 252 99 720.2 0 99 253 248 720.2 0 248 254 190 720.2 0 190 255 436 720.2 0 436 256 113 720.2 0 113 257 107 720.2 0 107 258 285 720.2 0 285 259 648 720.2 0 648 260 303 720.2 0 303 261 157 720.2 0 157 262 93 720.2 0 93 263 207 720.2 0 207 264 806 720.2 0 806 265 969 720.2 0 969 266 404 720.2 0 404 267 59 720.2 0 59 268 90 720.2 0 90 269 102 720.2 0 102 270 81 720.2 0 81 271 82 720.2 0 82 272 70 720.2 0 70 273 67 720.2 0 67 274 134 720.2 0 134 275 95 720.2 0 95 276 652 720.2 0 652 277 1281 720.2 0 1281 278 683 720.2 0 683 279 54 720.2 0 54 280 51 720.2 0 51 281 48 720.2 0 48 282 67 720.2 0 67 283 44 720.2 0 44 284 56 720.2 0 56 285 79 720.2 0 79 286 47 720.2 0 47 287 71 720.2 0 71 288 63 720.2 0 63 289 111 720.2 0 111 290 66 720.2 0 66 291 70 720.2 0 70 292 67 720.2 0 67 293 91 720.2 0 91 294 55 720.2 0 55 295 63 720.2 0 63 296 75 720.2 0 75 297 97 720.2 0 97 298 113 720.2 0 113 299 140 720.2 0 140 300 95 720.2 0 95 301 157 720.2 0 157 Finished in 10.95 s (73 us/read; 0.82 M reads/minute). === Summary === Total reads processed: 150,374 Reads with adapters: 52,524 (34.9%) Reads that were too short: 70 (0.0%) Reads written (passing filters): 52,454 (34.9%) Total basepairs processed: 40,382,263 bp Total written (filtered): 14,410,741 bp (35.7%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 52524 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 9 0.0 3 0 0 9 16 185 0.0 3 0 177 7 1 17 51979 0.0 3 50967 964 37 11 18 132 0.0 3 13 111 6 2 19 22 0.0 3 7 0 9 6 20 33 0.0 3 2 0 0 31 24 1 0.0 3 0 0 0 1 25 1 0.0 3 0 0 1 27 1 0.0 3 1 28 2 0.0 3 0 0 0 2 29 2 0.0 3 0 1 0 1 30 1 0.0 3 0 0 1 31 1 0.0 3 0 1 32 7 0.0 3 1 0 0 6 36 8 0.0 3 0 0 0 8 37 3 0.0 3 0 0 0 3 39 3 0.0 3 0 0 0 3 44 1 0.0 3 0 0 0 1 51 1 0.0 3 0 0 0 1 56 2 0.0 3 0 0 0 2 57 42 0.0 3 0 0 0 42 58 1 0.0 3 0 0 0 1 60 4 0.0 3 0 0 0 4 62 1 0.0 3 0 0 0 1 64 1 0.0 3 0 0 0 1 69 1 0.0 3 0 0 0 1 75 4 0.0 3 0 0 0 4 78 1 0.0 3 0 0 0 1 79 1 0.0 3 0 0 0 1 81 2 0.0 3 0 0 0 2 82 3 0.0 3 0 0 0 3 83 1 0.0 3 0 0 0 1 91 1 0.0 3 0 0 0 1 92 2 0.0 3 0 0 0 2 93 4 0.0 3 0 0 0 4 94 3 0.0 3 1 0 0 2 103 6 0.0 3 0 0 0 6 104 1 0.0 3 0 0 0 1 105 1 0.0 3 0 0 0 1 106 4 0.0 3 0 0 0 4 108 1 0.0 3 0 0 0 1 115 1 0.0 3 0 0 0 1 117 7 0.0 3 0 0 0 7 120 1 0.0 3 0 0 0 1 123 1 0.0 3 0 0 0 1 139 2 0.0 3 0 0 0 2 146 1 0.0 3 0 0 0 1 156 2 0.0 3 0 0 0 2 160 4 0.0 3 0 0 0 4 165 1 0.0 3 0 0 0 1 182 1 0.0 3 0 0 0 1 188 1 0.0 3 0 0 0 1 192 3 0.0 3 0 0 0 3 194 1 0.0 3 0 0 0 1 206 2 0.0 3 0 0 0 2 217 1 0.0 3 0 0 0 1 218 2 0.0 3 0 0 0 2 220 1 0.0 3 0 0 0 1 221 2 0.0 3 0 0 0 2 232 1 0.0 3 0 0 0 1 248 1 0.0 3 0 0 0 1 278 1 0.0 3 0 0 0 1 279 2 0.0 3 0 0 0 2 280 1 0.0 3 0 0 0 1 282 3 0.0 3 0 0 0 3 283 2 0.0 3 1 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 3.12 s (59 us/read; 1.01 M reads/minute). === Summary === Total reads processed: 52,454 Reads with adapters: 2,670 (5.1%) Reads written (passing filters): 52,454 (100.0%) Total basepairs processed: 14,410,741 bp Total written (filtered): 14,402,678 bp (99.9%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 2670 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 85.1% C: 4.8% G: 9.4% T: 0.8% 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 2617 819.6 0 2617 4 53 204.9 0 53 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.