This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CCGGAA -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 90.99 s (28 us/read; 2.11 M reads/minute). === Summary === Total reads processed: 3,193,041 Reads with adapters: 1,142,957 (35.8%) Reads that were too short: 1,056,440 (33.1%) Reads written (passing filters): 86,517 (2.7%) Total basepairs processed: 961,105,341 bp Total written (filtered): 13,100,466 bp (1.4%) === Adapter 1 === Sequence: CCGGAA; Type: regular 5'; Length: 6; Trimmed: 1142957 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 66 779.6 0 66 7 238 779.6 0 238 8 294 779.6 0 294 9 3855 779.6 0 3855 10 31 779.6 0 31 11 24 779.6 0 24 12 28 779.6 0 28 13 52 779.6 0 52 14 16 779.6 0 16 15 20 779.6 0 20 16 21 779.6 0 21 17 23 779.6 0 23 18 25 779.6 0 25 19 29 779.6 0 29 20 24 779.6 0 24 21 19 779.6 0 19 22 18 779.6 0 18 23 47 779.6 0 47 24 25 779.6 0 25 25 23 779.6 0 23 26 14 779.6 0 14 27 23 779.6 0 23 28 19 779.6 0 19 29 19 779.6 0 19 30 19 779.6 0 19 31 17 779.6 0 17 32 9 779.6 0 9 33 57 779.6 0 57 34 33 779.6 0 33 35 22 779.6 0 22 36 41 779.6 0 41 37 37 779.6 0 37 38 39 779.6 0 39 39 27 779.6 0 27 40 22 779.6 0 22 41 33 779.6 0 33 42 30 779.6 0 30 43 32 779.6 0 32 44 32 779.6 0 32 45 31 779.6 0 31 46 26 779.6 0 26 47 68 779.6 0 68 48 34 779.6 0 34 49 37 779.6 0 37 50 114 779.6 0 114 51 99 779.6 0 99 52 669 779.6 0 669 53 34 779.6 0 34 54 36 779.6 0 36 55 21 779.6 0 21 56 13 779.6 0 13 57 25 779.6 0 25 58 43 779.6 0 43 59 61 779.6 0 61 60 39 779.6 0 39 61 66 779.6 0 66 62 40 779.6 0 40 63 30 779.6 0 30 64 37 779.6 0 37 65 24 779.6 0 24 66 19 779.6 0 19 67 27 779.6 0 27 68 43 779.6 0 43 69 20 779.6 0 20 70 21 779.6 0 21 71 12 779.6 0 12 72 38 779.6 0 38 73 28 779.6 0 28 74 53 779.6 0 53 75 43 779.6 0 43 76 28 779.6 0 28 77 109 779.6 0 109 78 276 779.6 0 276 79 214 779.6 0 214 80 47 779.6 0 47 81 49 779.6 0 49 82 53 779.6 0 53 83 50 779.6 0 50 84 24 779.6 0 24 85 60 779.6 0 60 86 118 779.6 0 118 87 21 779.6 0 21 88 27 779.6 0 27 89 29 779.6 0 29 90 85 779.6 0 85 91 167 779.6 0 167 92 60 779.6 0 60 93 147 779.6 0 147 94 143 779.6 0 143 95 447 779.6 0 447 96 156 779.6 0 156 97 238 779.6 0 238 98 183 779.6 0 183 99 58 779.6 0 58 100 25 779.6 0 25 101 54 779.6 0 54 102 67 779.6 0 67 103 32 779.6 0 32 104 43 779.6 0 43 105 44 779.6 0 44 106 43 779.6 0 43 107 43 779.6 0 43 108 41 779.6 0 41 109 70 779.6 0 70 110 42 779.6 0 42 111 40 779.6 0 40 112 54 779.6 0 54 113 56 779.6 0 56 114 142 779.6 0 142 115 492 779.6 0 492 116 742 779.6 0 742 117 566 779.6 0 566 118 97 779.6 0 97 119 164 779.6 0 164 120 48 779.6 0 48 121 54 779.6 0 54 122 64 779.6 0 64 123 70 779.6 0 70 124 95 779.6 0 95 125 70 779.6 0 70 126 78 779.6 0 78 127 54 779.6 0 54 128 54 779.6 0 54 129 69 779.6 0 69 130 87 779.6 0 87 131 128 779.6 0 128 132 196 779.6 0 196 133 251 779.6 0 251 134 427 779.6 0 427 135 755 779.6 0 755 136 5286 779.6 0 5286 137 6109 779.6 0 6109 138 16981 779.6 0 16981 139 1003 779.6 0 1003 140 71 779.6 0 71 141 76 779.6 0 76 142 65 779.6 0 65 143 53 779.6 0 53 144 53 779.6 0 53 145 51 779.6 0 51 146 49 779.6 0 49 147 68 779.6 0 68 148 98 779.6 0 98 149 45 779.6 0 45 150 47 779.6 0 47 151 47 779.6 0 47 152 58 779.6 0 58 153 44 779.6 0 44 154 55 779.6 0 55 155 64 779.6 0 64 156 101 779.6 0 101 157 139 779.6 0 139 158 93 779.6 0 93 159 176 779.6 0 176 160 424 779.6 0 424 161 1699 779.6 0 1699 162 1310 779.6 0 1310 163 4046 779.6 0 4046 164 56 779.6 0 56 165 74 779.6 0 74 166 81 779.6 0 81 167 95 779.6 0 95 168 64 779.6 0 64 169 48 779.6 0 48 170 52 779.6 0 52 171 47 779.6 0 47 172 60 779.6 0 60 173 56 779.6 0 56 174 106 779.6 0 106 175 229 779.6 0 229 176 171 779.6 0 171 177 135 779.6 0 135 178 239 779.6 0 239 179 74 779.6 0 74 180 128 779.6 0 128 181 165 779.6 0 165 182 148 779.6 0 148 183 221 779.6 0 221 184 206 779.6 0 206 185 239 779.6 0 239 186 274 779.6 0 274 187 448 779.6 0 448 188 821 779.6 0 821 189 816 779.6 0 816 190 599 779.6 0 599 191 806 779.6 0 806 192 1090 779.6 0 1090 193 3181 779.6 0 3181 194 3087 779.6 0 3087 195 1507 779.6 0 1507 196 996 779.6 0 996 197 1363 779.6 0 1363 198 1463 779.6 0 1463 199 1654 779.6 0 1654 200 2434 779.6 0 2434 201 9573 779.6 0 9573 202 15486 779.6 0 15486 203 27071 779.6 0 27071 204 31261 779.6 0 31261 205 28705 779.6 0 28705 206 35937 779.6 0 35937 207 103657 779.6 0 103657 208 59449 779.6 0 59449 209 67909 779.6 0 67909 210 30770 779.6 0 30770 211 3243 779.6 0 3243 212 1806 779.6 0 1806 213 1970 779.6 0 1970 214 3358 779.6 0 3358 215 968 779.6 0 968 216 1482 779.6 0 1482 217 2162 779.6 0 2162 218 1442 779.6 0 1442 219 1658 779.6 0 1658 220 3423 779.6 0 3423 221 3557 779.6 0 3557 222 7103 779.6 0 7103 223 8120 779.6 0 8120 224 10883 779.6 0 10883 225 7111 779.6 0 7111 226 10191 779.6 0 10191 227 65289 779.6 0 65289 228 278096 779.6 0 278096 229 168776 779.6 0 168776 230 7036 779.6 0 7036 231 94 779.6 0 94 232 30 779.6 0 30 233 32 779.6 0 32 234 130 779.6 0 130 235 36 779.6 0 36 236 17 779.6 0 17 237 172 779.6 0 172 238 41 779.6 0 41 239 258 779.6 0 258 240 20 779.6 0 20 241 11 779.6 0 11 242 5 779.6 0 5 243 11 779.6 0 11 244 67 779.6 0 67 245 32 779.6 0 32 246 126 779.6 0 126 247 162 779.6 0 162 248 152 779.6 0 152 249 66 779.6 0 66 250 15 779.6 0 15 251 14 779.6 0 14 252 6 779.6 0 6 253 14 779.6 0 14 254 34 779.6 0 34 255 139 779.6 0 139 256 842 779.6 0 842 257 1086 779.6 0 1086 258 1715 779.6 0 1715 259 3207 779.6 0 3207 260 5078 779.6 0 5078 261 25544 779.6 0 25544 262 10990 779.6 0 10990 263 3198 779.6 0 3198 264 187 779.6 0 187 265 57 779.6 0 57 266 70 779.6 0 70 267 119 779.6 0 119 268 91 779.6 0 91 269 61 779.6 0 61 270 57 779.6 0 57 271 80 779.6 0 80 272 907 779.6 0 907 273 1910 779.6 0 1910 274 4851 779.6 0 4851 275 85 779.6 0 85 276 50 779.6 0 50 277 310 779.6 0 310 278 544 779.6 0 544 279 601 779.6 0 601 280 112 779.6 0 112 281 70 779.6 0 70 282 61 779.6 0 61 283 49 779.6 0 49 284 37 779.6 0 37 285 102 779.6 0 102 286 318 779.6 0 318 287 464 779.6 0 464 288 260 779.6 0 260 289 43 779.6 0 43 290 19 779.6 0 19 291 136 779.6 0 136 292 119 779.6 0 119 293 143 779.6 0 143 294 122 779.6 0 122 295 1022 779.6 0 1022 296 870 779.6 0 870 297 493 779.6 0 493 298 179 779.6 0 179 299 218 779.6 0 218 300 291 779.6 0 291 301 69 779.6 0 69 Finished in 2.98 s (34 us/read; 1.74 M reads/minute). === Summary === Total reads processed: 86,517 Reads with adapters: 4,340 (5.0%) Reads that were too short: 77 (0.1%) Reads written (passing filters): 4,263 (4.9%) Total basepairs processed: 13,100,466 bp Total written (filtered): 1,156,592 bp (8.8%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 4340 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 4 0.0 3 0 0 0 4 16 46 0.0 3 0 38 2 6 17 4069 0.0 3 3900 144 20 5 18 30 0.0 3 14 4 9 3 19 19 0.0 3 2 1 5 11 20 4 0.0 3 0 0 0 4 24 4 0.0 3 0 0 0 4 29 1 0.0 3 0 0 0 1 31 47 0.0 3 0 0 1 46 34 13 0.0 3 0 0 0 13 37 1 0.0 3 0 0 0 1 40 1 0.0 3 0 0 0 1 42 1 0.0 3 0 0 0 1 43 1 0.0 3 0 0 0 1 49 1 0.0 3 0 0 0 1 50 1 0.0 3 0 0 0 1 51 1 0.0 3 0 0 0 1 60 1 0.0 3 0 0 0 1 69 1 0.0 3 0 0 0 1 76 15 0.0 3 0 0 0 15 77 4 0.0 3 0 0 0 4 78 1 0.0 3 0 0 0 1 79 12 0.0 3 0 0 0 12 83 1 0.0 3 0 0 0 1 85 1 0.0 3 0 0 0 1 88 1 0.0 3 0 0 0 1 91 2 0.0 3 0 0 0 2 93 1 0.0 3 0 0 0 1 94 3 0.0 3 0 0 0 3 97 2 0.0 3 0 0 0 2 98 5 0.0 3 0 0 0 5 99 1 0.0 3 0 0 0 1 103 1 0.0 3 0 0 0 1 104 2 0.0 3 0 0 0 2 105 1 0.0 3 0 0 0 1 112 1 0.0 3 0 0 0 1 117 1 0.0 3 0 0 0 1 118 1 0.0 3 0 0 0 1 121 4 0.0 3 0 0 0 4 122 3 0.0 3 0 0 0 3 132 3 0.0 3 0 0 0 3 133 1 0.0 3 0 0 0 1 137 1 0.0 3 0 0 0 1 142 2 0.0 3 0 0 0 2 145 4 0.0 3 0 0 0 4 146 1 0.0 3 0 0 0 1 151 1 0.0 3 0 0 0 1 152 1 0.0 3 0 0 0 1 153 1 0.0 3 0 0 0 1 159 3 0.0 3 0 0 0 3 160 1 0.0 3 0 0 0 1 176 1 0.0 3 0 0 0 1 178 5 0.0 3 0 0 0 5 183 1 0.0 3 0 0 0 1 199 1 0.0 3 0 0 0 1 218 1 0.0 3 0 0 0 1 223 1 0.0 3 0 0 0 1 233 2 0.0 3 0 0 0 2 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 0.18 s (42 us/read; 1.42 M reads/minute). === Summary === Total reads processed: 4,263 Reads with adapters: 45 (1.1%) Reads written (passing filters): 4,263 (100.0%) Total basepairs processed: 1,156,592 bp Total written (filtered): 1,156,438 bp (100.0%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 45 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 35.6% C: 17.8% G: 20.0% T: 26.7% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 26 66.6 0 26 4 19 16.7 0 19