This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CCTAAT -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 60.33 s (27 us/read; 2.23 M reads/minute). === Summary === Total reads processed: 2,238,925 Reads with adapters: 331,554 (14.8%) Reads that were too short: 8,460 (0.4%) Reads written (passing filters): 323,094 (14.4%) Total basepairs processed: 673,916,425 bp Total written (filtered): 50,219,893 bp (7.5%) === Adapter 1 === Sequence: CCTAAT; Type: regular 5'; Length: 6; Trimmed: 331554 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 142 546.6 0 142 7 6237 546.6 0 6237 8 488 546.6 0 488 9 5288 546.6 0 5288 10 58 546.6 0 58 11 21 546.6 0 21 12 48 546.6 0 48 13 76 546.6 0 76 14 67 546.6 0 67 15 96 546.6 0 96 16 37 546.6 0 37 17 24 546.6 0 24 18 31 546.6 0 31 19 54 546.6 0 54 20 35 546.6 0 35 21 44 546.6 0 44 22 21 546.6 0 21 23 26 546.6 0 26 24 49 546.6 0 49 25 80 546.6 0 80 26 135 546.6 0 135 27 937 546.6 0 937 28 792 546.6 0 792 29 800 546.6 0 800 30 65 546.6 0 65 31 25 546.6 0 25 32 34 546.6 0 34 33 40 546.6 0 40 34 62 546.6 0 62 35 41 546.6 0 41 36 39 546.6 0 39 37 56 546.6 0 56 38 64 546.6 0 64 39 32 546.6 0 32 40 31 546.6 0 31 41 51 546.6 0 51 42 47 546.6 0 47 43 41 546.6 0 41 44 57 546.6 0 57 45 45 546.6 0 45 46 31 546.6 0 31 47 56 546.6 0 56 48 46 546.6 0 46 49 65 546.6 0 65 50 77 546.6 0 77 51 58 546.6 0 58 52 47 546.6 0 47 53 49 546.6 0 49 54 42 546.6 0 42 55 47 546.6 0 47 56 50 546.6 0 50 57 102 546.6 0 102 58 204 546.6 0 204 59 436 546.6 0 436 60 53 546.6 0 53 61 30 546.6 0 30 62 29 546.6 0 29 63 41 546.6 0 41 64 35 546.6 0 35 65 44 546.6 0 44 66 32 546.6 0 32 67 59 546.6 0 59 68 35 546.6 0 35 69 39 546.6 0 39 70 45 546.6 0 45 71 48 546.6 0 48 72 34 546.6 0 34 73 44 546.6 0 44 74 51 546.6 0 51 75 56 546.6 0 56 76 38 546.6 0 38 77 48 546.6 0 48 78 54 546.6 0 54 79 47 546.6 0 47 80 45 546.6 0 45 81 106 546.6 0 106 82 41 546.6 0 41 83 41 546.6 0 41 84 64 546.6 0 64 85 59 546.6 0 59 86 37 546.6 0 37 87 39 546.6 0 39 88 57 546.6 0 57 89 60 546.6 0 60 90 64 546.6 0 64 91 152 546.6 0 152 92 115 546.6 0 115 93 131 546.6 0 131 94 99 546.6 0 99 95 107 546.6 0 107 96 120 546.6 0 120 97 57 546.6 0 57 98 62 546.6 0 62 99 64 546.6 0 64 100 80 546.6 0 80 101 93 546.6 0 93 102 99 546.6 0 99 103 127 546.6 0 127 104 167 546.6 0 167 105 252 546.6 0 252 106 529 546.6 0 529 107 1262 546.6 0 1262 108 17975 546.6 0 17975 109 5098 546.6 0 5098 110 10978 546.6 0 10978 111 123 546.6 0 123 112 53 546.6 0 53 113 48 546.6 0 48 114 61 546.6 0 61 115 65 546.6 0 65 116 112 546.6 0 112 117 88 546.6 0 88 118 65 546.6 0 65 119 66 546.6 0 66 120 75 546.6 0 75 121 75 546.6 0 75 122 52 546.6 0 52 123 58 546.6 0 58 124 88 546.6 0 88 125 131 546.6 0 131 126 86 546.6 0 86 127 103 546.6 0 103 128 129 546.6 0 129 129 149 546.6 0 149 130 117 546.6 0 117 131 128 546.6 0 128 132 113 546.6 0 113 133 126 546.6 0 126 134 1142 546.6 0 1142 135 1288 546.6 0 1288 136 2552 546.6 0 2552 137 142 546.6 0 142 138 121 546.6 0 121 139 87 546.6 0 87 140 174 546.6 0 174 141 147 546.6 0 147 142 218 546.6 0 218 143 196 546.6 0 196 144 258 546.6 0 258 145 421 546.6 0 421 146 856 546.6 0 856 147 1724 546.6 0 1724 148 491 546.6 0 491 149 567 546.6 0 567 150 1023 546.6 0 1023 151 526 546.6 0 526 152 435 546.6 0 435 153 917 546.6 0 917 154 988 546.6 0 988 155 2729 546.6 0 2729 156 2318 546.6 0 2318 157 3093 546.6 0 3093 158 2662 546.6 0 2662 159 3565 546.6 0 3565 160 98899 546.6 0 98899 161 25771 546.6 0 25771 162 108271 546.6 0 108271 163 435 546.6 0 435 164 85 546.6 0 85 165 87 546.6 0 87 166 73 546.6 0 73 167 61 546.6 0 61 168 64 546.6 0 64 169 67 546.6 0 67 170 55 546.6 0 55 171 79 546.6 0 79 172 41 546.6 0 41 173 38 546.6 0 38 174 83 546.6 0 83 175 80 546.6 0 80 176 56 546.6 0 56 177 44 546.6 0 44 178 49 546.6 0 49 179 80 546.6 0 80 180 77 546.6 0 77 181 81 546.6 0 81 182 49 546.6 0 49 183 64 546.6 0 64 184 55 546.6 0 55 185 51 546.6 0 51 186 47 546.6 0 47 187 58 546.6 0 58 188 34 546.6 0 34 189 35 546.6 0 35 190 34 546.6 0 34 191 102 546.6 0 102 192 93 546.6 0 93 193 145 546.6 0 145 194 39 546.6 0 39 195 40 546.6 0 40 196 31 546.6 0 31 197 35 546.6 0 35 198 55 546.6 0 55 199 46 546.6 0 46 200 47 546.6 0 47 201 39 546.6 0 39 202 73 546.6 0 73 203 109 546.6 0 109 204 71 546.6 0 71 205 61 546.6 0 61 206 57 546.6 0 57 207 36 546.6 0 36 208 59 546.6 0 59 209 55 546.6 0 55 210 46 546.6 0 46 211 33 546.6 0 33 212 46 546.6 0 46 213 42 546.6 0 42 214 37 546.6 0 37 215 40 546.6 0 40 216 38 546.6 0 38 217 57 546.6 0 57 218 64 546.6 0 64 219 54 546.6 0 54 220 98 546.6 0 98 221 105 546.6 0 105 222 256 546.6 0 256 223 148 546.6 0 148 224 173 546.6 0 173 225 60 546.6 0 60 226 51 546.6 0 51 227 47 546.6 0 47 228 53 546.6 0 53 229 51 546.6 0 51 230 51 546.6 0 51 231 62 546.6 0 62 232 84 546.6 0 84 233 63 546.6 0 63 234 133 546.6 0 133 235 78 546.6 0 78 236 85 546.6 0 85 237 37 546.6 0 37 238 33 546.6 0 33 239 38 546.6 0 38 240 44 546.6 0 44 241 55 546.6 0 55 242 66 546.6 0 66 243 80 546.6 0 80 244 49 546.6 0 49 245 27 546.6 0 27 246 32 546.6 0 32 247 44 546.6 0 44 248 46 546.6 0 46 249 58 546.6 0 58 250 93 546.6 0 93 251 252 546.6 0 252 252 258 546.6 0 258 253 285 546.6 0 285 254 662 546.6 0 662 255 264 546.6 0 264 256 198 546.6 0 198 257 72 546.6 0 72 258 53 546.6 0 53 259 49 546.6 0 49 260 42 546.6 0 42 261 102 546.6 0 102 262 94 546.6 0 94 263 144 546.6 0 144 264 52 546.6 0 52 265 61 546.6 0 61 266 49 546.6 0 49 267 46 546.6 0 46 268 43 546.6 0 43 269 46 546.6 0 46 270 63 546.6 0 63 271 71 546.6 0 71 272 200 546.6 0 200 273 52 546.6 0 52 274 38 546.6 0 38 275 54 546.6 0 54 276 38 546.6 0 38 277 60 546.6 0 60 278 123 546.6 0 123 279 137 546.6 0 137 280 97 546.6 0 97 281 144 546.6 0 144 282 174 546.6 0 174 283 205 546.6 0 205 284 99 546.6 0 99 285 64 546.6 0 64 286 50 546.6 0 50 287 42 546.6 0 42 288 38 546.6 0 38 289 30 546.6 0 30 290 50 546.6 0 50 291 62 546.6 0 62 292 71 546.6 0 71 293 59 546.6 0 59 294 53 546.6 0 53 295 48 546.6 0 48 296 40 546.6 0 40 297 45 546.6 0 45 298 51 546.6 0 51 299 75 546.6 0 75 300 44 546.6 0 44 301 33 546.6 0 33 Finished in 9.82 s (30 us/read; 1.97 M reads/minute). === Summary === Total reads processed: 323,094 Reads with adapters: 12,380 (3.8%) Reads that were too short: 517 (0.2%) Reads written (passing filters): 11,863 (3.7%) Total basepairs processed: 50,219,893 bp Total written (filtered): 2,336,755 bp (4.7%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 12380 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 41 0.0 3 0 36 3 2 17 6064 0.0 3 5746 270 39 9 18 37 0.0 3 10 15 4 8 19 22 0.0 3 1 0 14 7 20 12 0.0 3 0 0 0 12 21 1 0.0 3 1 25 1 0.0 3 0 0 0 1 28 3 0.0 3 0 0 0 3 30 3 0.0 3 0 0 0 3 31 5196 0.0 3 0 0 28 5168 32 5 0.0 3 0 0 0 5 33 2 0.0 3 0 0 0 2 34 391 0.0 3 0 0 18 373 37 1 0.0 3 0 0 0 1 38 1 0.0 3 0 0 0 1 39 5 0.0 3 0 0 1 4 40 2 0.0 3 0 0 0 2 43 1 0.0 3 0 0 0 1 44 4 0.0 3 0 0 0 4 47 2 0.0 3 0 0 0 2 49 1 0.0 3 0 0 0 1 53 1 0.0 3 0 0 0 1 54 2 0.0 3 0 0 0 2 55 4 0.0 3 0 0 0 4 56 1 0.0 3 0 0 0 1 57 45 0.0 3 0 0 2 43 58 4 0.0 3 0 0 0 4 63 4 0.0 3 0 0 0 4 65 4 0.0 3 0 0 1 3 72 1 0.0 3 0 0 0 1 73 1 0.0 3 0 0 0 1 80 1 0.0 3 0 0 0 1 81 1 0.0 3 0 0 0 1 82 37 0.0 3 0 0 0 37 83 3 0.0 3 0 0 0 3 84 4 0.0 3 0 0 1 3 85 1 0.0 3 0 0 0 1 88 1 0.0 3 0 0 0 1 89 7 0.0 3 0 0 0 7 90 1 0.0 3 0 0 0 1 91 16 0.0 3 0 0 0 16 92 1 0.0 3 0 0 0 1 93 2 0.0 3 0 0 0 2 95 1 0.0 3 0 0 0 1 97 1 0.0 3 0 0 0 1 104 1 0.0 3 0 0 0 1 108 2 0.0 3 0 0 0 2 109 1 0.0 3 0 0 0 1 110 2 0.0 3 0 0 0 2 113 1 0.0 3 0 0 0 1 114 2 0.0 3 0 0 0 2 116 2 0.0 3 0 0 1 1 117 4 0.0 3 0 0 0 4 118 1 0.0 3 0 0 0 1 119 3 0.0 3 0 1 0 2 121 1 0.0 3 0 0 0 1 122 3 0.0 3 0 0 0 3 123 29 0.0 3 0 0 1 28 124 1 0.0 3 0 0 0 1 129 1 0.0 3 0 0 0 1 131 4 0.0 3 0 0 0 4 132 274 0.0 3 0 0 3 271 133 33 0.0 3 0 0 0 33 134 13 0.0 3 0 0 0 13 135 3 0.0 3 0 0 0 3 138 1 0.0 3 0 0 0 1 142 2 0.0 3 0 0 0 2 143 2 0.0 3 0 0 0 2 144 2 0.0 3 0 0 0 2 146 1 0.0 3 0 0 1 158 4 0.0 3 0 0 0 4 159 8 0.0 3 0 0 1 7 163 1 0.0 3 0 0 0 1 169 2 0.0 3 0 0 0 2 171 4 0.0 3 0 0 0 4 177 2 0.0 3 0 0 0 2 178 1 0.0 3 0 0 0 1 179 6 0.0 3 0 0 0 6 180 5 0.0 3 0 0 0 5 181 1 0.0 3 0 0 0 1 185 3 0.0 3 0 0 0 3 186 1 0.0 3 0 0 0 1 187 1 0.0 3 0 0 0 1 190 1 0.0 3 0 0 0 1 207 1 0.0 3 0 0 0 1 229 2 0.0 3 0 0 0 2 231 1 0.0 3 0 0 0 1 239 1 0.0 3 0 0 0 1 250 1 0.0 3 0 0 0 1 262 1 0.0 3 0 0 0 1 272 1 0.0 3 0 0 0 1 280 1 0.0 3 0 0 0 1 281 1 0.0 3 0 0 0 1 283 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 0.35 s (30 us/read; 2.03 M reads/minute). === Summary === Total reads processed: 11,863 Reads with adapters: 221 (1.9%) Reads written (passing filters): 11,863 (100.0%) Total basepairs processed: 2,336,755 bp Total written (filtered): 2,336,087 bp (100.0%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 221 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 38.5% C: 40.3% G: 18.6% T: 2.7% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 217 185.4 0 217 4 3 46.3 0 3 5 1 11.6 0 1