This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AATGAA -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 181.75 s (34 us/read; 1.76 M reads/minute). === Summary === Total reads processed: 5,333,634 Reads with adapters: 1,055,978 (19.8%) Reads that were too short: 394,010 (7.4%) Reads written (passing filters): 661,968 (12.4%) Total basepairs processed: 1,605,423,834 bp Total written (filtered): 112,259,679 bp (7.0%) === Adapter 1 === Sequence: AATGAA; Type: regular 5'; Length: 6; Trimmed: 1055978 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 182 1302.2 0 182 7 255 1302.2 0 255 8 4634 1302.2 0 4634 9 27548 1302.2 0 27548 10 49 1302.2 0 49 11 24 1302.2 0 24 12 12 1302.2 0 12 13 12 1302.2 0 12 14 22 1302.2 0 22 15 8 1302.2 0 8 16 23 1302.2 0 23 17 19 1302.2 0 19 18 15 1302.2 0 15 19 12 1302.2 0 12 20 16 1302.2 0 16 21 19 1302.2 0 19 22 15 1302.2 0 15 23 11 1302.2 0 11 24 24 1302.2 0 24 25 16 1302.2 0 16 26 25 1302.2 0 25 27 24 1302.2 0 24 28 24 1302.2 0 24 29 23 1302.2 0 23 30 164 1302.2 0 164 31 51 1302.2 0 51 32 23 1302.2 0 23 33 25 1302.2 0 25 34 23 1302.2 0 23 35 16 1302.2 0 16 36 17 1302.2 0 17 37 91 1302.2 0 91 38 38 1302.2 0 38 39 74 1302.2 0 74 40 112 1302.2 0 112 41 27 1302.2 0 27 42 27 1302.2 0 27 43 25 1302.2 0 25 44 20 1302.2 0 20 45 40 1302.2 0 40 46 63 1302.2 0 63 47 58 1302.2 0 58 48 23 1302.2 0 23 49 38 1302.2 0 38 50 41 1302.2 0 41 51 27 1302.2 0 27 52 27 1302.2 0 27 53 18 1302.2 0 18 54 18 1302.2 0 18 55 26 1302.2 0 26 56 22 1302.2 0 22 57 29 1302.2 0 29 58 10 1302.2 0 10 59 21 1302.2 0 21 60 18 1302.2 0 18 61 26 1302.2 0 26 62 31 1302.2 0 31 63 32 1302.2 0 32 64 40 1302.2 0 40 65 38 1302.2 0 38 66 62 1302.2 0 62 67 34 1302.2 0 34 68 105 1302.2 0 105 69 55 1302.2 0 55 70 56 1302.2 0 56 71 39 1302.2 0 39 72 48 1302.2 0 48 73 48 1302.2 0 48 74 79 1302.2 0 79 75 60 1302.2 0 60 76 309 1302.2 0 309 77 3506 1302.2 0 3506 78 1603 1302.2 0 1603 79 8934 1302.2 0 8934 80 10240 1302.2 0 10240 81 9406 1302.2 0 9406 82 5088 1302.2 0 5088 83 5574 1302.2 0 5574 84 8455 1302.2 0 8455 85 2902 1302.2 0 2902 86 6983 1302.2 0 6983 87 634 1302.2 0 634 88 409 1302.2 0 409 89 3016 1302.2 0 3016 90 4655 1302.2 0 4655 91 406 1302.2 0 406 92 384 1302.2 0 384 93 3403 1302.2 0 3403 94 11969 1302.2 0 11969 95 9785 1302.2 0 9785 96 10765 1302.2 0 10765 97 1571 1302.2 0 1571 98 505 1302.2 0 505 99 4262 1302.2 0 4262 100 26809 1302.2 0 26809 101 10915 1302.2 0 10915 102 3349 1302.2 0 3349 103 2476 1302.2 0 2476 104 809 1302.2 0 809 105 2310 1302.2 0 2310 106 8858 1302.2 0 8858 107 1685 1302.2 0 1685 108 824 1302.2 0 824 109 1902 1302.2 0 1902 110 3560 1302.2 0 3560 111 3182 1302.2 0 3182 112 3358 1302.2 0 3358 113 2341 1302.2 0 2341 114 2174 1302.2 0 2174 115 5774 1302.2 0 5774 116 3912 1302.2 0 3912 117 3639 1302.2 0 3639 118 10244 1302.2 0 10244 119 7611 1302.2 0 7611 120 5231 1302.2 0 5231 121 4912 1302.2 0 4912 122 3909 1302.2 0 3909 123 3425 1302.2 0 3425 124 4746 1302.2 0 4746 125 5854 1302.2 0 5854 126 7272 1302.2 0 7272 127 7115 1302.2 0 7115 128 2581 1302.2 0 2581 129 2297 1302.2 0 2297 130 5050 1302.2 0 5050 131 9056 1302.2 0 9056 132 6281 1302.2 0 6281 133 4237 1302.2 0 4237 134 4048 1302.2 0 4048 135 4420 1302.2 0 4420 136 8026 1302.2 0 8026 137 9216 1302.2 0 9216 138 6965 1302.2 0 6965 139 6176 1302.2 0 6176 140 5215 1302.2 0 5215 141 7460 1302.2 0 7460 142 3038 1302.2 0 3038 143 2493 1302.2 0 2493 144 4076 1302.2 0 4076 145 8305 1302.2 0 8305 146 5791 1302.2 0 5791 147 3665 1302.2 0 3665 148 3486 1302.2 0 3486 149 3749 1302.2 0 3749 150 3164 1302.2 0 3164 151 2500 1302.2 0 2500 152 3285 1302.2 0 3285 153 4049 1302.2 0 4049 154 5545 1302.2 0 5545 155 3234 1302.2 0 3234 156 3611 1302.2 0 3611 157 7088 1302.2 0 7088 158 5597 1302.2 0 5597 159 5674 1302.2 0 5674 160 4299 1302.2 0 4299 161 3650 1302.2 0 3650 162 3965 1302.2 0 3965 163 3782 1302.2 0 3782 164 4249 1302.2 0 4249 165 5535 1302.2 0 5535 166 4572 1302.2 0 4572 167 3817 1302.2 0 3817 168 3859 1302.2 0 3859 169 6594 1302.2 0 6594 170 6735 1302.2 0 6735 171 2386 1302.2 0 2386 172 2484 1302.2 0 2484 173 5150 1302.2 0 5150 174 6784 1302.2 0 6784 175 3551 1302.2 0 3551 176 2437 1302.2 0 2437 177 2088 1302.2 0 2088 178 2543 1302.2 0 2543 179 5342 1302.2 0 5342 180 6400 1302.2 0 6400 181 5401 1302.2 0 5401 182 9102 1302.2 0 9102 183 7273 1302.2 0 7273 184 9462 1302.2 0 9462 185 6025 1302.2 0 6025 186 5869 1302.2 0 5869 187 4081 1302.2 0 4081 188 2067 1302.2 0 2067 189 1623 1302.2 0 1623 190 3458 1302.2 0 3458 191 7003 1302.2 0 7003 192 7184 1302.2 0 7184 193 6186 1302.2 0 6186 194 4655 1302.2 0 4655 195 2175 1302.2 0 2175 196 1841 1302.2 0 1841 197 5933 1302.2 0 5933 198 14061 1302.2 0 14061 199 7567 1302.2 0 7567 200 2390 1302.2 0 2390 201 1075 1302.2 0 1075 202 2147 1302.2 0 2147 203 6035 1302.2 0 6035 204 7787 1302.2 0 7787 205 6612 1302.2 0 6612 206 6178 1302.2 0 6178 207 3651 1302.2 0 3651 208 2458 1302.2 0 2458 209 3077 1302.2 0 3077 210 4299 1302.2 0 4299 211 5696 1302.2 0 5696 212 4596 1302.2 0 4596 213 4252 1302.2 0 4252 214 4272 1302.2 0 4272 215 3718 1302.2 0 3718 216 3349 1302.2 0 3349 217 4625 1302.2 0 4625 218 5599 1302.2 0 5599 219 5862 1302.2 0 5862 220 3299 1302.2 0 3299 221 1598 1302.2 0 1598 222 2464 1302.2 0 2464 223 5229 1302.2 0 5229 224 4419 1302.2 0 4419 225 3262 1302.2 0 3262 226 3592 1302.2 0 3592 227 3966 1302.2 0 3966 228 4064 1302.2 0 4064 229 3884 1302.2 0 3884 230 4286 1302.2 0 4286 231 3648 1302.2 0 3648 232 1908 1302.2 0 1908 233 1961 1302.2 0 1961 234 5009 1302.2 0 5009 235 7749 1302.2 0 7749 236 4932 1302.2 0 4932 237 4743 1302.2 0 4743 238 4911 1302.2 0 4911 239 4011 1302.2 0 4011 240 2789 1302.2 0 2789 241 2457 1302.2 0 2457 242 2763 1302.2 0 2763 243 3653 1302.2 0 3653 244 3789 1302.2 0 3789 245 3599 1302.2 0 3599 246 5297 1302.2 0 5297 247 5053 1302.2 0 5053 248 3510 1302.2 0 3510 249 1572 1302.2 0 1572 250 1283 1302.2 0 1283 251 2630 1302.2 0 2630 252 5945 1302.2 0 5945 253 5297 1302.2 0 5297 254 3094 1302.2 0 3094 255 3624 1302.2 0 3624 256 3635 1302.2 0 3635 257 4090 1302.2 0 4090 258 2893 1302.2 0 2893 259 2224 1302.2 0 2224 260 1908 1302.2 0 1908 261 2550 1302.2 0 2550 262 3387 1302.2 0 3387 263 4096 1302.2 0 4096 264 3392 1302.2 0 3392 265 3153 1302.2 0 3153 266 3606 1302.2 0 3606 267 4824 1302.2 0 4824 268 3540 1302.2 0 3540 269 1909 1302.2 0 1909 270 1836 1302.2 0 1836 271 3332 1302.2 0 3332 272 4314 1302.2 0 4314 273 5827 1302.2 0 5827 274 5729 1302.2 0 5729 275 3765 1302.2 0 3765 276 1885 1302.2 0 1885 277 2353 1302.2 0 2353 278 3338 1302.2 0 3338 279 5221 1302.2 0 5221 280 4405 1302.2 0 4405 281 2041 1302.2 0 2041 282 1702 1302.2 0 1702 283 2321 1302.2 0 2321 284 3014 1302.2 0 3014 285 3690 1302.2 0 3690 286 4781 1302.2 0 4781 287 3894 1302.2 0 3894 288 3178 1302.2 0 3178 289 2443 1302.2 0 2443 290 2202 1302.2 0 2202 291 3371 1302.2 0 3371 292 6543 1302.2 0 6543 293 7673 1302.2 0 7673 294 4334 1302.2 0 4334 295 2546 1302.2 0 2546 296 3676 1302.2 0 3676 297 4192 1302.2 0 4192 298 3139 1302.2 0 3139 299 3663 1302.2 0 3663 300 7699 1302.2 0 7699 301 11193 1302.2 0 11193 Finished in 24.25 s (37 us/read; 1.64 M reads/minute). === Summary === Total reads processed: 661,968 Reads with adapters: 4,148 (0.6%) Reads that were too short: 61 (0.0%) Reads written (passing filters): 4,087 (0.6%) Total basepairs processed: 112,259,679 bp Total written (filtered): 1,104,370 bp (1.0%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 4148 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 3 0.0 3 0 0 2 1 16 25 0.0 3 0 23 0 2 17 3839 0.0 3 3782 44 2 11 18 34 0.0 3 0 12 20 2 19 41 0.0 3 4 0 25 12 20 9 0.0 3 0 0 0 9 21 5 0.0 3 0 0 0 5 26 1 0.0 3 0 0 0 1 31 2 0.0 3 0 0 0 2 34 2 0.0 3 0 0 0 2 35 1 0.0 3 0 0 0 1 37 1 0.0 3 0 0 0 1 41 8 0.0 3 0 0 0 8 44 6 0.0 3 0 0 0 6 45 2 0.0 3 0 0 0 2 48 1 0.0 3 0 0 0 1 50 2 0.0 3 0 0 0 2 52 1 0.0 3 0 0 0 1 55 3 0.0 3 0 0 0 3 58 2 0.0 3 0 0 0 2 62 5 0.0 3 0 0 0 5 63 2 0.0 3 0 0 0 2 64 2 0.0 3 0 0 0 2 67 12 0.0 3 0 0 0 12 68 2 0.0 3 0 0 0 2 71 1 0.0 3 0 0 1 74 2 0.0 3 0 0 0 2 75 1 0.0 3 0 0 0 1 76 1 0.0 3 0 0 0 1 77 2 0.0 3 0 0 0 2 78 3 0.0 3 0 0 0 3 79 1 0.0 3 0 0 0 1 83 2 0.0 3 0 0 0 2 84 2 0.0 3 0 0 0 2 85 1 0.0 3 0 0 0 1 87 3 0.0 3 0 0 0 3 89 1 0.0 3 0 0 0 1 90 1 0.0 3 0 0 0 1 91 1 0.0 3 0 0 0 1 92 2 0.0 3 0 0 0 2 93 2 0.0 3 0 0 0 2 95 1 0.0 3 0 0 0 1 96 3 0.0 3 0 0 0 3 97 1 0.0 3 0 0 0 1 98 1 0.0 3 0 0 0 1 99 1 0.0 3 0 0 0 1 101 4 0.0 3 0 0 0 4 103 2 0.0 3 0 0 0 2 104 1 0.0 3 0 0 0 1 106 2 0.0 3 0 0 0 2 107 1 0.0 3 0 0 0 1 108 1 0.0 3 0 0 0 1 109 10 0.0 3 0 0 0 10 110 1 0.0 3 0 0 0 1 111 2 0.0 3 0 0 0 2 112 17 0.0 3 0 0 1 16 113 3 0.0 3 0 0 0 3 114 1 0.0 3 0 0 0 1 115 11 0.0 3 0 0 0 11 116 3 0.0 3 0 0 0 3 117 1 0.0 3 0 0 0 1 118 2 0.0 3 0 0 0 2 120 2 0.0 3 0 0 0 2 126 1 0.0 3 0 0 0 1 127 1 0.0 3 0 0 0 1 128 1 0.0 3 0 0 0 1 132 1 0.0 3 0 0 0 1 134 1 0.0 3 0 0 0 1 135 1 0.0 3 0 0 0 1 139 1 0.0 3 0 0 0 1 140 1 0.0 3 0 0 0 1 143 1 0.0 3 0 0 0 1 144 1 0.0 3 0 0 0 1 146 2 0.0 3 0 0 0 2 147 1 0.0 3 0 0 0 1 150 1 0.0 3 0 0 0 1 152 2 0.0 3 0 0 0 2 155 1 0.0 3 0 0 0 1 159 1 0.0 3 0 0 1 160 1 0.0 3 0 0 0 1 163 1 0.0 3 0 0 0 1 164 1 0.0 3 0 0 0 1 167 1 0.0 3 0 0 0 1 175 1 0.0 3 0 0 0 1 182 1 0.0 3 0 0 0 1 188 1 0.0 3 0 0 0 1 192 2 0.0 3 0 0 0 2 201 1 0.0 3 0 0 0 1 204 1 0.0 3 0 0 0 1 205 2 0.0 3 0 0 0 2 208 1 0.0 3 0 0 0 1 209 1 0.0 3 0 0 0 1 211 1 0.0 3 0 0 0 1 213 1 0.0 3 0 0 0 1 214 4 0.0 3 0 0 0 4 217 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 0.18 s (44 us/read; 1.36 M reads/minute). === Summary === Total reads processed: 4,087 Reads with adapters: 98 (2.4%) Reads written (passing filters): 4,087 (100.0%) Total basepairs processed: 1,104,370 bp Total written (filtered): 1,104,076 bp (100.0%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 98 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 40.8% C: 26.5% G: 31.6% T: 1.0% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 98 63.9 0 98