This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GCGAGA -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 78.63 s (26 us/read; 2.30 M reads/minute). === Summary === Total reads processed: 3,009,659 Reads with adapters: 97,264 (3.2%) Reads that were too short: 15,332 (0.5%) Reads written (passing filters): 81,932 (2.7%) Total basepairs processed: 905,907,359 bp Total written (filtered): 19,112,993 bp (2.1%) === Adapter 1 === Sequence: GCGAGA; Type: regular 5'; Length: 6; Trimmed: 97264 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 407 734.8 0 407 7 3275 734.8 0 3275 8 42613 734.8 0 42613 9 81 734.8 0 81 10 29 734.8 0 29 11 41 734.8 0 41 12 34 734.8 0 34 13 21 734.8 0 21 14 21 734.8 0 21 15 16 734.8 0 16 16 16 734.8 0 16 17 15 734.8 0 15 18 22 734.8 0 22 19 18 734.8 0 18 20 27 734.8 0 27 21 21 734.8 0 21 22 20 734.8 0 20 23 22 734.8 0 22 24 16 734.8 0 16 25 22 734.8 0 22 26 22 734.8 0 22 27 35 734.8 0 35 28 28 734.8 0 28 29 20 734.8 0 20 30 36 734.8 0 36 31 52 734.8 0 52 32 56 734.8 0 56 33 28 734.8 0 28 34 23 734.8 0 23 35 133 734.8 0 133 36 46 734.8 0 46 37 28 734.8 0 28 38 30 734.8 0 30 39 29 734.8 0 29 40 41 734.8 0 41 41 52 734.8 0 52 42 19 734.8 0 19 43 40 734.8 0 40 44 31 734.8 0 31 45 33 734.8 0 33 46 27 734.8 0 27 47 42 734.8 0 42 48 55 734.8 0 55 49 46 734.8 0 46 50 714 734.8 0 714 51 1085 734.8 0 1085 52 205 734.8 0 205 53 39 734.8 0 39 54 36 734.8 0 36 55 18 734.8 0 18 56 123 734.8 0 123 57 28 734.8 0 28 58 42 734.8 0 42 59 28 734.8 0 28 60 32 734.8 0 32 61 32 734.8 0 32 62 34 734.8 0 34 63 103 734.8 0 103 64 45 734.8 0 45 65 132 734.8 0 132 66 42 734.8 0 42 67 41 734.8 0 41 68 34 734.8 0 34 69 308 734.8 0 308 70 28 734.8 0 28 71 38 734.8 0 38 72 68 734.8 0 68 73 149 734.8 0 149 74 258 734.8 0 258 75 463 734.8 0 463 76 145 734.8 0 145 77 70 734.8 0 70 78 32 734.8 0 32 79 32 734.8 0 32 80 30 734.8 0 30 81 34 734.8 0 34 82 33 734.8 0 33 83 26 734.8 0 26 84 32 734.8 0 32 85 50 734.8 0 50 86 38 734.8 0 38 87 43 734.8 0 43 88 34 734.8 0 34 89 10 734.8 0 10 90 28 734.8 0 28 91 20 734.8 0 20 92 28 734.8 0 28 93 21 734.8 0 21 94 19 734.8 0 19 95 42 734.8 0 42 96 46 734.8 0 46 97 39 734.8 0 39 98 69 734.8 0 69 99 33 734.8 0 33 100 33 734.8 0 33 101 30 734.8 0 30 102 46 734.8 0 46 103 51 734.8 0 51 104 45 734.8 0 45 105 35 734.8 0 35 106 33 734.8 0 33 107 24 734.8 0 24 108 22 734.8 0 22 109 25 734.8 0 25 110 34 734.8 0 34 111 59 734.8 0 59 112 65 734.8 0 65 113 37 734.8 0 37 114 157 734.8 0 157 115 118 734.8 0 118 116 80 734.8 0 80 117 50 734.8 0 50 118 70 734.8 0 70 119 69 734.8 0 69 120 67 734.8 0 67 121 56 734.8 0 56 122 68 734.8 0 68 123 48 734.8 0 48 124 81 734.8 0 81 125 598 734.8 0 598 126 899 734.8 0 899 127 173 734.8 0 173 128 69 734.8 0 69 129 59 734.8 0 59 130 111 734.8 0 111 131 122 734.8 0 122 132 48 734.8 0 48 133 73 734.8 0 73 134 61 734.8 0 61 135 259 734.8 0 259 136 251 734.8 0 251 137 214 734.8 0 214 138 48 734.8 0 48 139 40 734.8 0 40 140 79 734.8 0 79 141 48 734.8 0 48 142 55 734.8 0 55 143 62 734.8 0 62 144 73 734.8 0 73 145 114 734.8 0 114 146 51 734.8 0 51 147 58 734.8 0 58 148 42 734.8 0 42 149 56 734.8 0 56 150 65 734.8 0 65 151 85 734.8 0 85 152 37 734.8 0 37 153 82 734.8 0 82 154 83 734.8 0 83 155 70 734.8 0 70 156 58 734.8 0 58 157 95 734.8 0 95 158 91 734.8 0 91 159 123 734.8 0 123 160 119 734.8 0 119 161 133 734.8 0 133 162 143 734.8 0 143 163 307 734.8 0 307 164 9672 734.8 0 9672 165 4934 734.8 0 4934 166 571 734.8 0 571 167 69 734.8 0 69 168 73 734.8 0 73 169 91 734.8 0 91 170 63 734.8 0 63 171 59 734.8 0 59 172 57 734.8 0 57 173 68 734.8 0 68 174 62 734.8 0 62 175 69 734.8 0 69 176 52 734.8 0 52 177 42 734.8 0 42 178 57 734.8 0 57 179 56 734.8 0 56 180 51 734.8 0 51 181 69 734.8 0 69 182 64 734.8 0 64 183 66 734.8 0 66 184 61 734.8 0 61 185 73 734.8 0 73 186 86 734.8 0 86 187 77 734.8 0 77 188 49 734.8 0 49 189 61 734.8 0 61 190 75 734.8 0 75 191 108 734.8 0 108 192 273 734.8 0 273 193 160 734.8 0 160 194 97 734.8 0 97 195 123 734.8 0 123 196 469 734.8 0 469 197 1058 734.8 0 1058 198 2658 734.8 0 2658 199 554 734.8 0 554 200 271 734.8 0 271 201 109 734.8 0 109 202 79 734.8 0 79 203 46 734.8 0 46 204 107 734.8 0 107 205 317 734.8 0 317 206 85 734.8 0 85 207 52 734.8 0 52 208 66 734.8 0 66 209 52 734.8 0 52 210 60 734.8 0 60 211 66 734.8 0 66 212 54 734.8 0 54 213 73 734.8 0 73 214 81 734.8 0 81 215 75 734.8 0 75 216 196 734.8 0 196 217 350 734.8 0 350 218 305 734.8 0 305 219 124 734.8 0 124 220 113 734.8 0 113 221 85 734.8 0 85 222 77 734.8 0 77 223 73 734.8 0 73 224 52 734.8 0 52 225 84 734.8 0 84 226 73 734.8 0 73 227 63 734.8 0 63 228 82 734.8 0 82 229 72 734.8 0 72 230 61 734.8 0 61 231 48 734.8 0 48 232 41 734.8 0 41 233 48 734.8 0 48 234 59 734.8 0 59 235 78 734.8 0 78 236 65 734.8 0 65 237 115 734.8 0 115 238 122 734.8 0 122 239 274 734.8 0 274 240 208 734.8 0 208 241 116 734.8 0 116 242 66 734.8 0 66 243 32 734.8 0 32 244 51 734.8 0 51 245 51 734.8 0 51 246 134 734.8 0 134 247 1254 734.8 0 1254 248 4192 734.8 0 4192 249 627 734.8 0 627 250 290 734.8 0 290 251 47 734.8 0 47 252 30 734.8 0 30 253 35 734.8 0 35 254 57 734.8 0 57 255 85 734.8 0 85 256 70 734.8 0 70 257 80 734.8 0 80 258 93 734.8 0 93 259 63 734.8 0 63 260 63 734.8 0 63 261 61 734.8 0 61 262 53 734.8 0 53 263 47 734.8 0 47 264 62 734.8 0 62 265 61 734.8 0 61 266 77 734.8 0 77 267 81 734.8 0 81 268 103 734.8 0 103 269 71 734.8 0 71 270 100 734.8 0 100 271 27 734.8 0 27 272 46 734.8 0 46 273 41 734.8 0 41 274 59 734.8 0 59 275 71 734.8 0 71 276 75 734.8 0 75 277 83 734.8 0 83 278 99 734.8 0 99 279 112 734.8 0 112 280 128 734.8 0 128 281 228 734.8 0 228 282 86 734.8 0 86 283 46 734.8 0 46 284 60 734.8 0 60 285 77 734.8 0 77 286 84 734.8 0 84 287 79 734.8 0 79 288 92 734.8 0 92 289 169 734.8 0 169 290 245 734.8 0 245 291 283 734.8 0 283 292 166 734.8 0 166 293 127 734.8 0 127 294 138 734.8 0 138 295 82 734.8 0 82 296 62 734.8 0 62 297 78 734.8 0 78 298 52 734.8 0 52 299 43 734.8 0 43 300 50 734.8 0 50 301 111 734.8 0 111 Finished in 3.29 s (40 us/read; 1.49 M reads/minute). === Summary === Total reads processed: 81,932 Reads with adapters: 3,075 (3.8%) Reads that were too short: 105 (0.1%) Reads written (passing filters): 2,970 (3.6%) Total basepairs processed: 19,112,993 bp Total written (filtered): 810,681 bp (4.2%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 3075 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 16 12 0.0 3 0 12 17 2862 0.0 3 2819 38 4 1 18 7 0.0 3 0 5 2 19 4 0.0 3 1 0 2 1 20 9 0.0 3 0 0 0 9 27 37 0.0 3 0 0 0 37 30 9 0.0 3 0 0 0 9 31 1 0.0 3 0 0 0 1 33 1 0.0 3 0 0 0 1 38 1 0.0 3 0 0 0 1 41 1 0.0 3 0 0 0 1 50 1 0.0 3 0 0 0 1 62 1 0.0 3 0 0 0 1 67 1 0.0 3 0 0 0 1 73 1 0.0 3 0 0 0 1 75 1 0.0 3 0 0 0 1 78 1 0.0 3 0 0 0 1 86 1 0.0 3 0 0 0 1 87 12 0.0 3 0 0 0 12 88 1 0.0 3 0 0 0 1 90 25 0.0 3 0 0 0 25 91 1 0.0 3 0 0 0 1 96 1 0.0 3 0 0 0 1 97 1 0.0 3 0 0 0 1 99 1 0.0 3 0 0 0 1 100 1 0.0 3 0 0 0 1 102 1 0.0 3 0 0 0 1 109 2 0.0 3 0 0 0 2 114 1 0.0 3 0 0 1 117 3 0.0 3 0 0 0 3 118 3 0.0 3 0 0 0 3 119 2 0.0 3 0 0 0 2 120 1 0.0 3 0 0 0 1 121 3 0.0 3 0 0 0 3 124 1 0.0 3 0 0 0 1 129 1 0.0 3 0 0 0 1 139 1 0.0 3 0 0 0 1 141 3 0.0 3 0 0 0 3 153 1 0.0 3 0 0 0 1 161 2 0.0 3 0 0 0 2 176 1 0.0 3 0 0 0 1 192 2 0.0 3 0 0 0 2 212 1 0.0 3 0 0 0 1 217 46 0.0 3 0 0 1 45 218 2 0.0 3 0 0 0 2 279 1 0.0 3 0 0 0 1 281 1 0.0 3 0 0 0 1 282 1 0.0 3 0 0 0 1 288 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 0.11 s (37 us/read; 1.62 M reads/minute). === Summary === Total reads processed: 2,970 Reads with adapters: 349 (11.8%) Reads written (passing filters): 2,970 (100.0%) Total basepairs processed: 810,681 bp Total written (filtered): 809,634 bp (99.9%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 349 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 6.3% C: 83.1% G: 10.0% T: 0.6% none/other: 0.0% WARNING: The adapter is preceded by "C" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "C" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 349 46.4 0 349 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.