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 ... This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ggactacnngggtatctaat -e 0.2 -O 20 - Trimming 1 adapter with at most 20.0% errors in single-end mode ... Finished in 164.45 s (47 us/read; 1.27 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 222,156 (6.4%) Reads that were too short: 6,610 (0.2%) Reads written (passing filters): 215,546 (6.2%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 59,645,653 bp (5.7%) === Adapter 1 === Sequence: CGAATC; Type: regular 5'; Length: 6; Trimmed: 222156 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 6329 847.3 0 6329 7 70926 847.3 0 70926 8 2496 847.3 0 2496 9 79649 847.3 0 79649 10 93 847.3 0 93 11 25 847.3 0 25 12 13 847.3 0 13 13 21 847.3 0 21 14 11 847.3 0 11 15 13 847.3 0 13 16 22 847.3 0 22 17 25 847.3 0 25 18 24 847.3 0 24 19 32 847.3 0 32 20 37 847.3 0 37 21 23 847.3 0 23 22 28 847.3 0 28 23 42 847.3 0 42 24 61 847.3 0 61 25 45 847.3 0 45 26 29 847.3 0 29 27 64 847.3 0 64 28 175 847.3 0 175 29 84 847.3 0 84 30 366 847.3 0 366 31 18 847.3 0 18 32 21 847.3 0 21 33 104 847.3 0 104 34 419 847.3 0 419 35 128 847.3 0 128 36 41 847.3 0 41 37 99 847.3 0 99 38 31 847.3 0 31 39 60 847.3 0 60 40 70 847.3 0 70 41 58 847.3 0 58 42 103 847.3 0 103 43 87 847.3 0 87 44 65 847.3 0 65 45 34 847.3 0 34 46 59 847.3 0 59 47 102 847.3 0 102 48 126 847.3 0 126 49 235 847.3 0 235 50 323 847.3 0 323 51 404 847.3 0 404 52 564 847.3 0 564 53 711 847.3 0 711 54 3722 847.3 0 3722 55 16696 847.3 0 16696 56 17675 847.3 0 17675 57 88 847.3 0 88 58 31 847.3 0 31 59 21 847.3 0 21 60 31 847.3 0 31 61 13 847.3 0 13 62 15 847.3 0 15 63 11 847.3 0 11 64 16 847.3 0 16 65 21 847.3 0 21 66 8 847.3 0 8 67 26 847.3 0 26 68 24 847.3 0 24 69 32 847.3 0 32 70 25 847.3 0 25 71 13 847.3 0 13 72 15 847.3 0 15 73 30 847.3 0 30 74 17 847.3 0 17 75 11 847.3 0 11 76 21 847.3 0 21 77 41 847.3 0 41 78 35 847.3 0 35 79 29 847.3 0 29 80 28 847.3 0 28 81 43 847.3 0 43 82 29 847.3 0 29 83 33 847.3 0 33 84 31 847.3 0 31 85 34 847.3 0 34 86 30 847.3 0 30 87 34 847.3 0 34 88 28 847.3 0 28 89 20 847.3 0 20 90 35 847.3 0 35 91 36 847.3 0 36 92 56 847.3 0 56 93 209 847.3 0 209 94 1792 847.3 0 1792 95 1156 847.3 0 1156 96 192 847.3 0 192 97 23 847.3 0 23 98 20 847.3 0 20 99 21 847.3 0 21 100 12 847.3 0 12 101 12 847.3 0 12 102 15 847.3 0 15 103 27 847.3 0 27 104 28 847.3 0 28 105 25 847.3 0 25 106 14 847.3 0 14 107 25 847.3 0 25 108 32 847.3 0 32 109 102 847.3 0 102 110 272 847.3 0 272 111 404 847.3 0 404 112 21 847.3 0 21 113 12 847.3 0 12 114 26 847.3 0 26 115 30 847.3 0 30 116 37 847.3 0 37 117 48 847.3 0 48 118 50 847.3 0 50 119 61 847.3 0 61 120 163 847.3 0 163 121 1100 847.3 0 1100 122 510 847.3 0 510 123 207 847.3 0 207 124 35 847.3 0 35 125 28 847.3 0 28 126 31 847.3 0 31 127 31 847.3 0 31 128 40 847.3 0 40 129 33 847.3 0 33 130 33 847.3 0 33 131 14 847.3 0 14 132 21 847.3 0 21 133 30 847.3 0 30 134 26 847.3 0 26 135 58 847.3 0 58 136 127 847.3 0 127 137 75 847.3 0 75 138 44 847.3 0 44 139 82 847.3 0 82 140 95 847.3 0 95 141 104 847.3 0 104 142 57 847.3 0 57 143 42 847.3 0 42 144 22 847.3 0 22 145 59 847.3 0 59 146 50 847.3 0 50 147 102 847.3 0 102 148 119 847.3 0 119 149 101 847.3 0 101 150 79 847.3 0 79 151 46 847.3 0 46 152 45 847.3 0 45 153 42 847.3 0 42 154 44 847.3 0 44 155 27 847.3 0 27 156 41 847.3 0 41 157 48 847.3 0 48 158 40 847.3 0 40 159 69 847.3 0 69 160 116 847.3 0 116 161 324 847.3 0 324 162 192 847.3 0 192 163 83 847.3 0 83 164 38 847.3 0 38 165 102 847.3 0 102 166 124 847.3 0 124 167 100 847.3 0 100 168 56 847.3 0 56 169 29 847.3 0 29 170 48 847.3 0 48 171 43 847.3 0 43 172 62 847.3 0 62 173 44 847.3 0 44 174 68 847.3 0 68 175 92 847.3 0 92 176 156 847.3 0 156 177 221 847.3 0 221 178 283 847.3 0 283 179 34 847.3 0 34 180 84 847.3 0 84 181 200 847.3 0 200 182 164 847.3 0 164 183 51 847.3 0 51 184 41 847.3 0 41 185 33 847.3 0 33 186 35 847.3 0 35 187 34 847.3 0 34 188 55 847.3 0 55 189 34 847.3 0 34 190 26 847.3 0 26 191 39 847.3 0 39 192 37 847.3 0 37 193 40 847.3 0 40 194 45 847.3 0 45 195 37 847.3 0 37 196 40 847.3 0 40 197 31 847.3 0 31 198 32 847.3 0 32 199 36 847.3 0 36 200 36 847.3 0 36 201 16 847.3 0 16 202 33 847.3 0 33 203 58 847.3 0 58 204 59 847.3 0 59 205 61 847.3 0 61 206 45 847.3 0 45 207 43 847.3 0 43 208 57 847.3 0 57 209 63 847.3 0 63 210 47 847.3 0 47 211 50 847.3 0 50 212 39 847.3 0 39 213 34 847.3 0 34 214 41 847.3 0 41 215 50 847.3 0 50 216 24 847.3 0 24 217 50 847.3 0 50 218 39 847.3 0 39 219 68 847.3 0 68 220 60 847.3 0 60 221 64 847.3 0 64 222 75 847.3 0 75 223 61 847.3 0 61 224 63 847.3 0 63 225 42 847.3 0 42 226 42 847.3 0 42 227 42 847.3 0 42 228 65 847.3 0 65 229 108 847.3 0 108 230 85 847.3 0 85 231 51 847.3 0 51 232 40 847.3 0 40 233 24 847.3 0 24 234 37 847.3 0 37 235 29 847.3 0 29 236 34 847.3 0 34 237 43 847.3 0 43 238 47 847.3 0 47 239 58 847.3 0 58 240 63 847.3 0 63 241 45 847.3 0 45 242 40 847.3 0 40 243 33 847.3 0 33 244 38 847.3 0 38 245 43 847.3 0 43 246 46 847.3 0 46 247 62 847.3 0 62 248 51 847.3 0 51 249 38 847.3 0 38 250 37 847.3 0 37 251 38 847.3 0 38 252 42 847.3 0 42 253 67 847.3 0 67 254 75 847.3 0 75 255 111 847.3 0 111 256 137 847.3 0 137 257 103 847.3 0 103 258 76 847.3 0 76 259 68 847.3 0 68 260 54 847.3 0 54 261 52 847.3 0 52 262 138 847.3 0 138 263 164 847.3 0 164 264 186 847.3 0 186 265 39 847.3 0 39 266 54 847.3 0 54 267 52 847.3 0 52 268 61 847.3 0 61 269 51 847.3 0 51 270 34 847.3 0 34 271 44 847.3 0 44 272 45 847.3 0 45 273 61 847.3 0 61 274 51 847.3 0 51 275 63 847.3 0 63 276 40 847.3 0 40 277 35 847.3 0 35 278 110 847.3 0 110 279 125 847.3 0 125 280 86 847.3 0 86 281 45 847.3 0 45 282 74 847.3 0 74 283 97 847.3 0 97 284 144 847.3 0 144 285 149 847.3 0 149 286 41 847.3 0 41 287 57 847.3 0 57 288 59 847.3 0 59 289 55 847.3 0 55 290 72 847.3 0 72 291 138 847.3 0 138 292 141 847.3 0 141 293 108 847.3 0 108 294 107 847.3 0 107 295 55 847.3 0 55 296 54 847.3 0 54 297 45 847.3 0 45 298 48 847.3 0 48 299 90 847.3 0 90 300 183 847.3 0 183 301 159 847.3 0 159 Finished in 16.43 s (76 us/read; 0.79 M reads/minute). === Summary === Total reads processed: 215,546 Reads with adapters: 75,332 (34.9%) Reads that were too short: 50 (0.0%) Reads written (passing filters): 75,282 (34.9%) Total basepairs processed: 59,645,653 bp Total written (filtered): 20,617,908 bp (34.6%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 75332 times. No. of allowed errors: 0-4 bp: 0; 5-9 bp: 1; 10-14 bp: 2; 15-19 bp: 3; 20 bp: 4 Overview of removed sequences length count expect max.err error counts 17 2 0.0 3 0 0 0 1 1 18 33 0.0 3 0 0 29 2 2 19 968 0.0 3 0 876 62 20 10 20 73828 0.0 4 70900 2469 351 83 25 21 185 0.0 4 25 145 8 3 4 22 20 0.0 4 3 0 13 1 3 23 111 0.0 4 3 2 3 74 29 24 1 0.0 4 0 0 0 0 1 25 1 0.0 4 0 0 0 1 26 1 0.0 4 0 1 34 1 0.0 4 0 0 1 49 1 0.0 4 0 0 0 0 1 55 1 0.0 4 0 0 0 0 1 75 2 0.0 4 0 0 0 0 2 76 1 0.0 4 0 0 0 0 1 84 1 0.0 4 0 0 0 0 1 90 1 0.0 4 0 0 0 0 1 92 1 0.0 4 0 0 0 0 1 93 1 0.0 4 0 0 0 0 1 95 1 0.0 4 0 0 0 0 1 101 1 0.0 4 0 0 0 0 1 102 1 0.0 4 0 0 0 0 1 103 1 0.0 4 0 0 0 0 1 104 1 0.0 4 0 0 0 0 1 105 1 0.0 4 0 0 0 0 1 111 1 0.0 4 0 0 0 0 1 118 1 0.0 4 0 0 0 0 1 126 3 0.0 4 0 0 0 0 3 127 111 0.0 4 0 0 0 0 111 128 1 0.0 4 0 0 0 0 1 129 1 0.0 4 0 0 0 0 1 130 1 0.0 4 0 0 0 0 1 139 2 0.0 4 0 0 0 0 2 149 1 0.0 4 0 0 0 0 1 153 4 0.0 4 0 0 0 0 4 156 1 0.0 4 0 0 0 0 1 157 1 0.0 4 0 0 0 0 1 164 1 0.0 4 0 0 0 0 1 169 2 0.0 4 0 0 0 0 2 174 1 0.0 4 0 0 0 0 1 188 1 0.0 4 0 0 0 0 1 189 2 0.0 4 0 0 0 0 2 215 1 0.0 4 0 0 0 0 1 228 5 0.0 4 0 0 0 0 5 229 1 0.0 4 0 0 0 0 1 230 1 0.0 4 0 0 1 234 3 0.0 4 0 0 0 0 3 235 1 0.0 4 0 0 0 0 1 237 1 0.0 4 0 0 0 0 1 243 1 0.0 4 0 0 0 0 1 256 1 0.0 4 0 0 0 0 1 257 1 0.0 4 0 0 0 0 1 259 3 0.0 4 0 0 0 0 3 262 4 0.0 4 0 0 0 0 4 263 1 0.0 4 0 0 0 0 1 264 1 0.0 4 0 0 0 0 1 265 1 0.0 4 0 0 0 0 1 266 1 0.0 4 0 0 0 0 1 267 1 0.0 4 0 0 0 0 1 274 1 0.0 4 0 0 0 0 1 282 2 0.0 4 0 0 0 0 2 This is cutadapt 1.11 with Python 2.7.12 Command line parameters: -a CTGSTGCVYCCCRTAGG - Trimming 1 adapter with at most 10.0% errors in single-end mode ... Finished in 4.44 s (59 us/read; 1.02 M reads/minute). === Summary === Total reads processed: 75,282 Reads with adapters: 5,107 (6.8%) Reads written (passing filters): 75,282 (100.0%) Total basepairs processed: 20,617,908 bp Total written (filtered): 20,546,315 bp (99.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 5107 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 5.6% C: 7.7% G: 84.8% T: 1.9% none/other: 0.0% WARNING: The adapter is preceded by "G" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "G" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 224 1176.3 0 224 4 27 294.1 0 27 5 3 73.5 0 3 9 22 0.3 0 4 18 10 42 0.1 1 0 42 11 4301 0.0 1 109 4192 12 366 0.0 1 15 351 13 25 0.0 1 0 25 14 4 0.0 1 0 4 15 1 0.0 1 0 1 16 1 0.0 1 0 1 20 2 0.0 1 0 2 124 2 0.0 1 1 1 152 10 0.0 1 8 2 153 1 0.0 1 1 179 1 0.0 1 1 192 1 0.0 1 0 1 207 1 0.0 1 1 210 63 0.0 1 48 15 211 7 0.0 1 5 2 272 1 0.0 1 1 273 1 0.0 1 1 274 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.