This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CGAATC -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 166.41 s (48 us/read; 1.25 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 229,072 (6.6%) Reads that were too short: 5,121 (0.1%) Reads written (passing filters): 223,951 (6.5%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 62,200,082 bp (6.0%) === Adapter 1 === Sequence: CGAATC; Type: regular 5'; Length: 6; Trimmed: 229072 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 4333 847.3 0 4333 7 87851 847.3 0 87851 8 1647 847.3 0 1647 9 71618 847.3 0 71618 10 73 847.3 0 73 11 26 847.3 0 26 12 27 847.3 0 27 13 27 847.3 0 27 14 23 847.3 0 23 15 24 847.3 0 24 16 28 847.3 0 28 17 29 847.3 0 29 18 30 847.3 0 30 19 26 847.3 0 26 20 37 847.3 0 37 21 37 847.3 0 37 22 19 847.3 0 19 23 43 847.3 0 43 24 55 847.3 0 55 25 24 847.3 0 24 26 25 847.3 0 25 27 88 847.3 0 88 28 56 847.3 0 56 29 38 847.3 0 38 30 69 847.3 0 69 31 31 847.3 0 31 32 18 847.3 0 18 33 62 847.3 0 62 34 140 847.3 0 140 35 61 847.3 0 61 36 53 847.3 0 53 37 128 847.3 0 128 38 52 847.3 0 52 39 87 847.3 0 87 40 85 847.3 0 85 41 69 847.3 0 69 42 129 847.3 0 129 43 119 847.3 0 119 44 91 847.3 0 91 45 47 847.3 0 47 46 77 847.3 0 77 47 109 847.3 0 109 48 162 847.3 0 162 49 216 847.3 0 216 50 323 847.3 0 323 51 407 847.3 0 407 52 586 847.3 0 586 53 491 847.3 0 491 54 3386 847.3 0 3386 55 19266 847.3 0 19266 56 20735 847.3 0 20735 57 104 847.3 0 104 58 30 847.3 0 30 59 30 847.3 0 30 60 38 847.3 0 38 61 17 847.3 0 17 62 25 847.3 0 25 63 20 847.3 0 20 64 14 847.3 0 14 65 19 847.3 0 19 66 19 847.3 0 19 67 21 847.3 0 21 68 17 847.3 0 17 69 40 847.3 0 40 70 23 847.3 0 23 71 16 847.3 0 16 72 20 847.3 0 20 73 38 847.3 0 38 74 22 847.3 0 22 75 29 847.3 0 29 76 12 847.3 0 12 77 24 847.3 0 24 78 20 847.3 0 20 79 33 847.3 0 33 80 35 847.3 0 35 81 53 847.3 0 53 82 31 847.3 0 31 83 46 847.3 0 46 84 53 847.3 0 53 85 39 847.3 0 39 86 39 847.3 0 39 87 45 847.3 0 45 88 48 847.3 0 48 89 42 847.3 0 42 90 30 847.3 0 30 91 43 847.3 0 43 92 62 847.3 0 62 93 61 847.3 0 61 94 1660 847.3 0 1660 95 1145 847.3 0 1145 96 174 847.3 0 174 97 37 847.3 0 37 98 22 847.3 0 22 99 33 847.3 0 33 100 31 847.3 0 31 101 26 847.3 0 26 102 42 847.3 0 42 103 29 847.3 0 29 104 35 847.3 0 35 105 17 847.3 0 17 106 20 847.3 0 20 107 36 847.3 0 36 108 36 847.3 0 36 109 70 847.3 0 70 110 181 847.3 0 181 111 279 847.3 0 279 112 22 847.3 0 22 113 19 847.3 0 19 114 29 847.3 0 29 115 38 847.3 0 38 116 37 847.3 0 37 117 44 847.3 0 44 118 52 847.3 0 52 119 50 847.3 0 50 120 116 847.3 0 116 121 844 847.3 0 844 122 318 847.3 0 318 123 116 847.3 0 116 124 35 847.3 0 35 125 43 847.3 0 43 126 34 847.3 0 34 127 21 847.3 0 21 128 30 847.3 0 30 129 45 847.3 0 45 130 32 847.3 0 32 131 36 847.3 0 36 132 29 847.3 0 29 133 41 847.3 0 41 134 39 847.3 0 39 135 42 847.3 0 42 136 56 847.3 0 56 137 58 847.3 0 58 138 39 847.3 0 39 139 60 847.3 0 60 140 69 847.3 0 69 141 65 847.3 0 65 142 38 847.3 0 38 143 33 847.3 0 33 144 38 847.3 0 38 145 56 847.3 0 56 146 37 847.3 0 37 147 53 847.3 0 53 148 62 847.3 0 62 149 51 847.3 0 51 150 55 847.3 0 55 151 40 847.3 0 40 152 40 847.3 0 40 153 55 847.3 0 55 154 49 847.3 0 49 155 38 847.3 0 38 156 34 847.3 0 34 157 55 847.3 0 55 158 39 847.3 0 39 159 88 847.3 0 88 160 74 847.3 0 74 161 138 847.3 0 138 162 57 847.3 0 57 163 38 847.3 0 38 164 38 847.3 0 38 165 43 847.3 0 43 166 72 847.3 0 72 167 49 847.3 0 49 168 47 847.3 0 47 169 34 847.3 0 34 170 45 847.3 0 45 171 38 847.3 0 38 172 34 847.3 0 34 173 49 847.3 0 49 174 49 847.3 0 49 175 66 847.3 0 66 176 123 847.3 0 123 177 125 847.3 0 125 178 194 847.3 0 194 179 27 847.3 0 27 180 43 847.3 0 43 181 81 847.3 0 81 182 75 847.3 0 75 183 37 847.3 0 37 184 32 847.3 0 32 185 39 847.3 0 39 186 43 847.3 0 43 187 37 847.3 0 37 188 56 847.3 0 56 189 37 847.3 0 37 190 25 847.3 0 25 191 32 847.3 0 32 192 44 847.3 0 44 193 50 847.3 0 50 194 41 847.3 0 41 195 43 847.3 0 43 196 39 847.3 0 39 197 37 847.3 0 37 198 49 847.3 0 49 199 42 847.3 0 42 200 53 847.3 0 53 201 42 847.3 0 42 202 42 847.3 0 42 203 43 847.3 0 43 204 75 847.3 0 75 205 47 847.3 0 47 206 43 847.3 0 43 207 38 847.3 0 38 208 38 847.3 0 38 209 38 847.3 0 38 210 42 847.3 0 42 211 31 847.3 0 31 212 41 847.3 0 41 213 31 847.3 0 31 214 27 847.3 0 27 215 31 847.3 0 31 216 28 847.3 0 28 217 32 847.3 0 32 218 42 847.3 0 42 219 50 847.3 0 50 220 65 847.3 0 65 221 68 847.3 0 68 222 63 847.3 0 63 223 35 847.3 0 35 224 58 847.3 0 58 225 45 847.3 0 45 226 49 847.3 0 49 227 43 847.3 0 43 228 46 847.3 0 46 229 55 847.3 0 55 230 46 847.3 0 46 231 44 847.3 0 44 232 39 847.3 0 39 233 32 847.3 0 32 234 47 847.3 0 47 235 31 847.3 0 31 236 33 847.3 0 33 237 41 847.3 0 41 238 39 847.3 0 39 239 53 847.3 0 53 240 52 847.3 0 52 241 23 847.3 0 23 242 48 847.3 0 48 243 42 847.3 0 42 244 38 847.3 0 38 245 37 847.3 0 37 246 40 847.3 0 40 247 60 847.3 0 60 248 53 847.3 0 53 249 40 847.3 0 40 250 40 847.3 0 40 251 32 847.3 0 32 252 53 847.3 0 53 253 50 847.3 0 50 254 52 847.3 0 52 255 64 847.3 0 64 256 72 847.3 0 72 257 59 847.3 0 59 258 61 847.3 0 61 259 54 847.3 0 54 260 35 847.3 0 35 261 55 847.3 0 55 262 93 847.3 0 93 263 111 847.3 0 111 264 124 847.3 0 124 265 31 847.3 0 31 266 62 847.3 0 62 267 39 847.3 0 39 268 38 847.3 0 38 269 38 847.3 0 38 270 35 847.3 0 35 271 38 847.3 0 38 272 39 847.3 0 39 273 54 847.3 0 54 274 50 847.3 0 50 275 62 847.3 0 62 276 38 847.3 0 38 277 41 847.3 0 41 278 55 847.3 0 55 279 74 847.3 0 74 280 45 847.3 0 45 281 38 847.3 0 38 282 43 847.3 0 43 283 62 847.3 0 62 284 88 847.3 0 88 285 85 847.3 0 85 286 34 847.3 0 34 287 44 847.3 0 44 288 36 847.3 0 36 289 42 847.3 0 42 290 42 847.3 0 42 291 78 847.3 0 78 292 118 847.3 0 118 293 86 847.3 0 86 294 99 847.3 0 99 295 50 847.3 0 50 296 47 847.3 0 47 297 51 847.3 0 51 298 42 847.3 0 42 299 64 847.3 0 64 300 81 847.3 0 81 301 113 847.3 0 113 Finished in 16.16 s (72 us/read; 0.83 M reads/minute). === Summary === Total reads processed: 223,951 Reads with adapters: 74,771 (33.4%) Reads that were too short: 31 (0.0%) Reads written (passing filters): 74,740 (33.4%) Total basepairs processed: 62,200,082 bp Total written (filtered): 20,516,844 bp (33.0%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 74771 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 6 0.0 2 0 0 0 6 15 23 0.0 3 0 0 23 16 544 0.0 3 0 532 12 17 72789 0.0 3 71310 1428 45 6 18 203 0.0 3 11 186 6 19 829 0.0 3 774 11 41 3 20 88 0.0 3 0 0 0 88 21 1 0.0 3 0 0 0 1 22 3 0.0 3 0 0 0 3 23 3 0.0 3 1 0 0 2 26 1 0.0 3 0 1 27 1 0.0 3 0 1 28 1 0.0 3 1 29 1 0.0 3 1 31 1 0.0 3 1 32 1 0.0 3 0 0 0 1 47 2 0.0 3 1 0 0 1 49 2 0.0 3 0 0 0 2 50 5 0.0 3 0 0 0 5 51 8 0.0 3 0 0 0 8 52 4 0.0 3 0 0 0 4 53 1 0.0 3 0 0 0 1 54 1 0.0 3 0 0 0 1 55 1 0.0 3 0 0 0 1 56 2 0.0 3 0 0 0 2 64 2 0.0 3 0 0 0 2 68 1 0.0 3 0 0 0 1 72 14 0.0 3 0 0 0 14 74 1 0.0 3 0 0 0 1 75 1 0.0 3 0 0 0 1 76 1 0.0 3 0 0 0 1 77 1 0.0 3 0 0 0 1 78 1 0.0 3 0 0 0 1 97 2 0.0 3 0 0 0 2 98 184 0.0 3 0 0 0 184 100 1 0.0 3 0 0 0 1 107 1 0.0 3 0 0 0 1 120 1 0.0 3 0 0 0 1 125 1 0.0 3 0 0 0 1 132 1 0.0 3 0 0 0 1 138 1 0.0 3 0 0 0 1 142 1 0.0 3 0 0 0 1 148 1 0.0 3 0 0 0 1 152 1 0.0 3 0 0 0 1 158 1 0.0 3 0 0 0 1 160 1 0.0 3 0 0 0 1 162 1 0.0 3 0 0 0 1 163 2 0.0 3 0 0 0 2 164 2 0.0 3 0 0 0 2 166 1 0.0 3 0 0 0 1 167 2 0.0 3 0 0 1 1 168 2 0.0 3 0 0 1 1 179 1 0.0 3 0 0 0 1 182 1 0.0 3 0 0 0 1 191 1 0.0 3 0 0 0 1 192 4 0.0 3 0 0 0 4 201 1 0.0 3 0 0 1 205 1 0.0 3 0 0 0 1 206 1 0.0 3 0 0 0 1 217 1 0.0 3 0 0 0 1 234 1 0.0 3 0 0 0 1 262 1 0.0 3 0 0 0 1 280 3 0.0 3 0 0 0 3 281 3 0.0 3 0 0 0 3 282 1 0.0 3 0 0 0 1 291 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 4.44 s (59 us/read; 1.01 M reads/minute). === Summary === Total reads processed: 74,740 Reads with adapters: 6,793 (9.1%) Reads written (passing filters): 74,740 (100.0%) Total basepairs processed: 20,516,844 bp Total written (filtered): 20,496,403 bp (99.9%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 6793 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 88.8% C: 5.6% G: 5.1% T: 0.5% 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 6738 1167.8 0 6738 4 50 292.0 0 50 5 3 73.0 0 3 6 2 18.2 0 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.