Multiple sequence alignment - TraesCS2B01G299500

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS2B01G299500 chr2B 100.000 3305 0 0 1 3305 419936889 419940193 0.000000e+00 6104
1 TraesCS2B01G299500 chr2B 94.008 2420 137 6 892 3305 528810281 528807864 0.000000e+00 3659
2 TraesCS2B01G299500 chr2B 92.453 636 41 6 258 887 528810958 528810324 0.000000e+00 902
3 TraesCS2B01G299500 chr2B 88.855 332 14 10 64 392 419937048 419937359 1.440000e-103 387
4 TraesCS2B01G299500 chr7D 97.184 2734 65 6 160 2887 83757457 83760184 0.000000e+00 4612
5 TraesCS2B01G299500 chr7D 97.125 1565 35 5 160 1719 366438760 366437201 0.000000e+00 2632
6 TraesCS2B01G299500 chr7D 96.711 1368 35 5 160 1522 126714009 126715371 0.000000e+00 2268
7 TraesCS2B01G299500 chr7D 91.624 394 15 9 1 392 126713946 126714323 2.260000e-146 529
8 TraesCS2B01G299500 chr7D 91.117 394 17 9 1 392 366438823 366438446 4.890000e-143 518
9 TraesCS2B01G299500 chr7D 90.863 394 19 10 1 392 83757394 83757772 2.270000e-141 512
10 TraesCS2B01G299500 chr7B 95.761 2831 97 6 477 3305 517901336 517904145 0.000000e+00 4542
11 TraesCS2B01G299500 chr7B 96.647 2416 76 4 892 3305 73167193 73169605 0.000000e+00 4008
12 TraesCS2B01G299500 chr7B 87.729 546 34 13 262 788 73166581 73167112 1.010000e-169 606
13 TraesCS2B01G299500 chr3B 96.109 2416 88 5 892 3305 766341160 766343571 0.000000e+00 3936
14 TraesCS2B01G299500 chr3B 87.442 215 27 0 3091 3305 512390230 512390444 7.080000e-62 248
15 TraesCS2B01G299500 chr6B 93.839 2451 104 17 257 2676 676682231 676684665 0.000000e+00 3646
16 TraesCS2B01G299500 chr6B 95.405 1545 66 3 1764 3305 617031452 617032994 0.000000e+00 2455
17 TraesCS2B01G299500 chr6B 93.878 637 38 1 2670 3305 676703236 676703872 0.000000e+00 959
18 TraesCS2B01G299500 chr6B 86.577 596 34 21 3 561 616984306 616984892 1.690000e-172 616
19 TraesCS2B01G299500 chr6B 87.461 319 26 11 1 306 676682163 676682480 4.060000e-94 355
20 TraesCS2B01G299500 chr1B 93.534 1531 79 5 1778 3305 344040425 344041938 0.000000e+00 2261
21 TraesCS2B01G299500 chr1B 91.706 639 43 8 257 887 344012113 344012749 0.000000e+00 878
22 TraesCS2B01G299500 chr1B 85.531 311 25 11 1 306 344012045 344012340 1.150000e-79 307
23 TraesCS2B01G299500 chr4B 94.296 1385 77 2 1285 2669 43574175 43572793 0.000000e+00 2119
24 TraesCS2B01G299500 chr4B 94.224 1385 78 2 1285 2669 43588041 43586659 0.000000e+00 2113
25 TraesCS2B01G299500 chr4B 95.334 643 28 2 2664 3305 43564379 43563738 0.000000e+00 1020
26 TraesCS2B01G299500 chr4B 90.387 749 48 13 162 887 43593173 43592426 0.000000e+00 963
27 TraesCS2B01G299500 chr4B 95.935 492 19 1 2663 3154 43578259 43577769 0.000000e+00 797
28 TraesCS2B01G299500 chr4B 89.356 404 25 10 1 392 43593241 43592844 2.960000e-135 492
29 TraesCS2B01G299500 chr2D 96.490 1225 32 5 255 1473 238092898 238091679 0.000000e+00 2013
30 TraesCS2B01G299500 chr2D 88.350 309 16 10 1 306 238092961 238092670 1.460000e-93 353
31 TraesCS2B01G299500 chr6A 89.593 442 28 10 258 684 360534623 360534185 2.240000e-151 545
32 TraesCS2B01G299500 chr7A 88.079 453 26 10 261 686 447284439 447283988 2.270000e-141 512
33 TraesCS2B01G299500 chr6D 89.655 116 7 3 1 113 446742445 446742558 3.440000e-30 143


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2B01G299500 chr2B 419936889 419940193 3304 False 3245.5 6104 94.4275 1 3305 2 chr2B.!!$F1 3304
1 TraesCS2B01G299500 chr2B 528807864 528810958 3094 True 2280.5 3659 93.2305 258 3305 2 chr2B.!!$R1 3047
2 TraesCS2B01G299500 chr7D 83757394 83760184 2790 False 2562.0 4612 94.0235 1 2887 2 chr7D.!!$F1 2886
3 TraesCS2B01G299500 chr7D 366437201 366438823 1622 True 1575.0 2632 94.1210 1 1719 2 chr7D.!!$R1 1718
4 TraesCS2B01G299500 chr7D 126713946 126715371 1425 False 1398.5 2268 94.1675 1 1522 2 chr7D.!!$F2 1521
5 TraesCS2B01G299500 chr7B 517901336 517904145 2809 False 4542.0 4542 95.7610 477 3305 1 chr7B.!!$F1 2828
6 TraesCS2B01G299500 chr7B 73166581 73169605 3024 False 2307.0 4008 92.1880 262 3305 2 chr7B.!!$F2 3043
7 TraesCS2B01G299500 chr3B 766341160 766343571 2411 False 3936.0 3936 96.1090 892 3305 1 chr3B.!!$F2 2413
8 TraesCS2B01G299500 chr6B 617031452 617032994 1542 False 2455.0 2455 95.4050 1764 3305 1 chr6B.!!$F2 1541
9 TraesCS2B01G299500 chr6B 676682163 676684665 2502 False 2000.5 3646 90.6500 1 2676 2 chr6B.!!$F4 2675
10 TraesCS2B01G299500 chr6B 676703236 676703872 636 False 959.0 959 93.8780 2670 3305 1 chr6B.!!$F3 635
11 TraesCS2B01G299500 chr6B 616984306 616984892 586 False 616.0 616 86.5770 3 561 1 chr6B.!!$F1 558
12 TraesCS2B01G299500 chr1B 344040425 344041938 1513 False 2261.0 2261 93.5340 1778 3305 1 chr1B.!!$F1 1527
13 TraesCS2B01G299500 chr1B 344012045 344012749 704 False 592.5 878 88.6185 1 887 2 chr1B.!!$F2 886
14 TraesCS2B01G299500 chr4B 43586659 43588041 1382 True 2113.0 2113 94.2240 1285 2669 1 chr4B.!!$R2 1384
15 TraesCS2B01G299500 chr4B 43572793 43578259 5466 True 1458.0 2119 95.1155 1285 3154 2 chr4B.!!$R3 1869
16 TraesCS2B01G299500 chr4B 43563738 43564379 641 True 1020.0 1020 95.3340 2664 3305 1 chr4B.!!$R1 641
17 TraesCS2B01G299500 chr4B 43592426 43593241 815 True 727.5 963 89.8715 1 887 2 chr4B.!!$R4 886
18 TraesCS2B01G299500 chr2D 238091679 238092961 1282 True 1183.0 2013 92.4200 1 1473 2 chr2D.!!$R1 1472

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
119 322 4.453478 TGTGTGCTTGATCTGTTCTTGATC 59.547 41.667 0.0 0.00 40.34 2.92 F
1863 4669 0.179137 TCTTGTCGATGCTGGCTACG 60.179 55.000 0.0 0.53 0.00 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1953 4760 2.799978 CGTGGCGCATGTTGAGATATTA 59.200 45.455 10.83 0.0 0.0 0.98 R
3170 5989 0.327591 CTGCCTCTCCAAAGCCTTCT 59.672 55.000 0.00 0.0 0.0 2.85 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 31 5.013287 CCAGATCAATCTCTTCCTCCATCAT 59.987 44.000 0.00 0.00 34.22 2.45
119 322 4.453478 TGTGTGCTTGATCTGTTCTTGATC 59.547 41.667 0.00 0.00 40.34 2.92
121 324 5.871524 GTGTGCTTGATCTGTTCTTGATCTA 59.128 40.000 0.00 0.00 40.51 1.98
123 326 6.105333 GTGCTTGATCTGTTCTTGATCTACT 58.895 40.000 0.00 0.00 40.51 2.57
125 328 7.761704 GTGCTTGATCTGTTCTTGATCTACTAA 59.238 37.037 0.00 0.00 40.51 2.24
126 329 8.481314 TGCTTGATCTGTTCTTGATCTACTAAT 58.519 33.333 0.00 0.00 40.51 1.73
127 330 8.763356 GCTTGATCTGTTCTTGATCTACTAATG 58.237 37.037 0.00 0.00 40.51 1.90
134 337 9.814899 CTGTTCTTGATCTACTAATGATCTGTT 57.185 33.333 0.00 0.00 40.51 3.16
147 350 9.988815 ACTAATGATCTGTTATAGGTTGATGTC 57.011 33.333 0.00 0.00 0.00 3.06
151 354 7.661968 TGATCTGTTATAGGTTGATGTCTAGC 58.338 38.462 0.00 0.00 0.00 3.42
152 355 7.287696 TGATCTGTTATAGGTTGATGTCTAGCA 59.712 37.037 0.00 0.00 0.00 3.49
153 356 7.603180 TCTGTTATAGGTTGATGTCTAGCAT 57.397 36.000 0.06 0.06 41.24 3.79
154 357 8.706322 TCTGTTATAGGTTGATGTCTAGCATA 57.294 34.615 0.46 0.00 38.06 3.14
162 365 7.977818 AGGTTGATGTCTAGCATATATTTCCA 58.022 34.615 0.46 0.00 38.06 3.53
164 367 8.887717 GGTTGATGTCTAGCATATATTTCCATC 58.112 37.037 0.46 0.00 38.06 3.51
165 368 9.664332 GTTGATGTCTAGCATATATTTCCATCT 57.336 33.333 0.00 0.00 38.06 2.90
166 369 9.662947 TTGATGTCTAGCATATATTTCCATCTG 57.337 33.333 0.00 0.00 38.06 2.90
168 371 9.664332 GATGTCTAGCATATATTTCCATCTGTT 57.336 33.333 0.46 0.00 38.06 3.16
169 372 9.664332 ATGTCTAGCATATATTTCCATCTGTTC 57.336 33.333 0.00 0.00 35.74 3.18
170 373 8.874156 TGTCTAGCATATATTTCCATCTGTTCT 58.126 33.333 0.00 0.00 0.00 3.01
171 374 9.717942 GTCTAGCATATATTTCCATCTGTTCTT 57.282 33.333 0.00 0.00 0.00 2.52
172 375 9.716531 TCTAGCATATATTTCCATCTGTTCTTG 57.283 33.333 0.00 0.00 0.00 3.02
175 378 9.228949 AGCATATATTTCCATCTGTTCTTGATC 57.771 33.333 0.00 0.00 0.00 2.92
176 379 9.228949 GCATATATTTCCATCTGTTCTTGATCT 57.771 33.333 0.00 0.00 0.00 2.75
180 383 9.690913 ATATTTCCATCTGTTCTTGATCTTGAA 57.309 29.630 0.00 0.00 0.00 2.69
181 384 7.444629 TTTCCATCTGTTCTTGATCTTGAAG 57.555 36.000 0.00 0.00 0.00 3.02
183 386 7.244886 TCCATCTGTTCTTGATCTTGAAGTA 57.755 36.000 0.00 0.00 0.00 2.24
184 387 7.679783 TCCATCTGTTCTTGATCTTGAAGTAA 58.320 34.615 0.00 0.00 0.00 2.24
185 388 8.156820 TCCATCTGTTCTTGATCTTGAAGTAAA 58.843 33.333 0.00 0.00 0.00 2.01
186 389 8.786898 CCATCTGTTCTTGATCTTGAAGTAAAA 58.213 33.333 0.00 0.00 0.00 1.52
210 413 6.949352 AAATGTGTGACTTGATCTGTTCTT 57.051 33.333 0.00 0.00 0.00 2.52
211 414 5.936686 ATGTGTGACTTGATCTGTTCTTG 57.063 39.130 0.00 0.00 0.00 3.02
212 415 5.022282 TGTGTGACTTGATCTGTTCTTGA 57.978 39.130 0.00 0.00 0.00 3.02
213 416 5.614308 TGTGTGACTTGATCTGTTCTTGAT 58.386 37.500 0.00 0.00 0.00 2.57
214 417 5.698089 TGTGTGACTTGATCTGTTCTTGATC 59.302 40.000 0.00 0.00 40.34 2.92
215 418 5.931146 GTGTGACTTGATCTGTTCTTGATCT 59.069 40.000 0.00 0.00 40.51 2.75
216 419 7.093354 GTGTGACTTGATCTGTTCTTGATCTA 58.907 38.462 0.00 0.00 40.51 1.98
217 420 7.062839 GTGTGACTTGATCTGTTCTTGATCTAC 59.937 40.741 0.00 0.00 40.51 2.59
218 421 7.039434 TGTGACTTGATCTGTTCTTGATCTACT 60.039 37.037 0.00 0.00 40.51 2.57
219 422 8.462811 GTGACTTGATCTGTTCTTGATCTACTA 58.537 37.037 0.00 0.00 40.51 1.82
220 423 9.025041 TGACTTGATCTGTTCTTGATCTACTAA 57.975 33.333 0.00 0.00 40.51 2.24
222 425 9.814899 ACTTGATCTGTTCTTGATCTACTAATG 57.185 33.333 0.00 0.00 40.51 1.90
242 445 9.988815 ACTAATGATCTGTTATAGGTTGATGTC 57.011 33.333 0.00 0.00 0.00 3.06
247 450 7.287696 TGATCTGTTATAGGTTGATGTCTAGCA 59.712 37.037 0.00 0.00 0.00 3.49
248 451 7.603180 TCTGTTATAGGTTGATGTCTAGCAT 57.397 36.000 0.06 0.06 41.24 3.79
249 452 8.706322 TCTGTTATAGGTTGATGTCTAGCATA 57.294 34.615 0.46 0.00 38.06 3.14
250 453 8.577296 TCTGTTATAGGTTGATGTCTAGCATAC 58.423 37.037 0.46 0.00 38.06 2.39
251 454 8.245195 TGTTATAGGTTGATGTCTAGCATACA 57.755 34.615 0.46 0.00 38.06 2.29
255 458 8.839310 ATAGGTTGATGTCTAGCATACATTTC 57.161 34.615 0.00 0.00 37.69 2.17
256 459 6.058183 AGGTTGATGTCTAGCATACATTTCC 58.942 40.000 0.00 2.22 37.69 3.13
269 472 6.318144 AGCATACATTTCCATCTGTTCTTGAG 59.682 38.462 0.00 0.00 0.00 3.02
339 641 5.891451 TGATCTGTTATAGGTTGACGTCTG 58.109 41.667 17.92 0.00 0.00 3.51
531 979 9.762381 ATTGGTGGTCTATCCTTTGTATTTTTA 57.238 29.630 0.00 0.00 37.07 1.52
562 1010 6.611642 TGTTCTTCATCTGCCTAGTTAGGTAT 59.388 38.462 7.03 0.00 45.42 2.73
652 1100 6.299922 TGTTCCTGTTGACAATTGTACCATA 58.700 36.000 11.95 0.00 0.00 2.74
655 1103 8.303876 GTTCCTGTTGACAATTGTACCATATTT 58.696 33.333 11.95 0.00 0.00 1.40
706 1154 7.685481 TCCTGATACTTGGAACTTTACATGAA 58.315 34.615 0.00 0.00 0.00 2.57
718 1166 7.707035 GGAACTTTACATGAACAGTAGATCGAT 59.293 37.037 0.00 0.00 0.00 3.59
804 1252 5.396484 CAATTTTCCTATCCATATGCAGCG 58.604 41.667 0.00 0.00 0.00 5.18
944 1434 6.439675 TTCTTGTTTTGTACTACCACCAAC 57.560 37.500 0.00 0.00 0.00 3.77
1453 4254 0.956633 CTTGAAGCTGCACCATGTGT 59.043 50.000 0.00 0.00 35.75 3.72
1677 4483 6.381133 CCCAGCTAATTTGAAAGGAAGGTATT 59.619 38.462 0.00 0.00 0.00 1.89
1863 4669 0.179137 TCTTGTCGATGCTGGCTACG 60.179 55.000 0.00 0.53 0.00 3.51
1945 4752 4.735369 ACACCACAAAATCCACCTCATAA 58.265 39.130 0.00 0.00 0.00 1.90
1953 4760 3.845781 ATCCACCTCATAACGCAGAAT 57.154 42.857 0.00 0.00 0.00 2.40
2231 5042 6.556212 TCATCACTTCTATCTCAACTTCGAC 58.444 40.000 0.00 0.00 0.00 4.20
2531 5344 6.153510 AGGCAAGAATAAAAGGAATTGGTCTC 59.846 38.462 0.00 0.00 0.00 3.36
2597 5410 0.252103 AGACCCGAGGTGGAAAGCTA 60.252 55.000 0.00 0.00 42.00 3.32
2854 5667 6.605594 ACTTGAACCACTAAAACTGAATTCCA 59.394 34.615 2.27 0.00 0.00 3.53
2916 5729 7.016465 ACCTTGGTTACCTGTTATTGTAGTGTA 59.984 37.037 2.07 0.00 0.00 2.90
3004 5819 7.513371 AGATATTCCAGGAGAAAGTAGTACG 57.487 40.000 0.00 0.00 38.21 3.67
3005 5820 7.061688 AGATATTCCAGGAGAAAGTAGTACGT 58.938 38.462 0.00 0.00 38.21 3.57
3018 5833 9.247861 AGAAAGTAGTACGTTTTCTATCCCTTA 57.752 33.333 13.22 0.00 38.88 2.69
3036 5851 6.489603 TCCCTTATTTTTGTCCTTGCTATCA 58.510 36.000 0.00 0.00 0.00 2.15
3244 6063 4.946772 GGAAGAAGAAAATGAGGAAGAGGG 59.053 45.833 0.00 0.00 0.00 4.30
3248 6067 4.328118 AGAAAATGAGGAAGAGGGCATT 57.672 40.909 0.00 0.00 32.75 3.56
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 31 3.703556 CCTTCAGATCTGCAGTAGGAGAA 59.296 47.826 18.36 11.46 45.75 2.87
121 324 9.988815 GACATCAACCTATAACAGATCATTAGT 57.011 33.333 0.00 0.00 0.00 2.24
125 328 8.310382 GCTAGACATCAACCTATAACAGATCAT 58.690 37.037 0.00 0.00 0.00 2.45
126 329 7.287696 TGCTAGACATCAACCTATAACAGATCA 59.712 37.037 0.00 0.00 0.00 2.92
127 330 7.661968 TGCTAGACATCAACCTATAACAGATC 58.338 38.462 0.00 0.00 0.00 2.75
128 331 7.603180 TGCTAGACATCAACCTATAACAGAT 57.397 36.000 0.00 0.00 0.00 2.90
129 332 7.603180 ATGCTAGACATCAACCTATAACAGA 57.397 36.000 0.00 0.00 31.52 3.41
138 341 8.798859 ATGGAAATATATGCTAGACATCAACC 57.201 34.615 0.00 0.00 40.38 3.77
139 342 9.664332 AGATGGAAATATATGCTAGACATCAAC 57.336 33.333 0.00 0.00 40.38 3.18
140 343 9.662947 CAGATGGAAATATATGCTAGACATCAA 57.337 33.333 0.00 0.00 40.38 2.57
142 345 9.664332 AACAGATGGAAATATATGCTAGACATC 57.336 33.333 0.00 0.00 40.38 3.06
143 346 9.664332 GAACAGATGGAAATATATGCTAGACAT 57.336 33.333 0.00 0.00 43.18 3.06
144 347 8.874156 AGAACAGATGGAAATATATGCTAGACA 58.126 33.333 0.00 0.00 0.00 3.41
145 348 9.717942 AAGAACAGATGGAAATATATGCTAGAC 57.282 33.333 0.00 0.00 0.00 2.59
146 349 9.716531 CAAGAACAGATGGAAATATATGCTAGA 57.283 33.333 0.00 0.00 0.00 2.43
147 350 9.716531 TCAAGAACAGATGGAAATATATGCTAG 57.283 33.333 0.00 0.00 0.00 3.42
149 352 9.228949 GATCAAGAACAGATGGAAATATATGCT 57.771 33.333 0.00 0.00 0.00 3.79
150 353 9.228949 AGATCAAGAACAGATGGAAATATATGC 57.771 33.333 0.00 0.00 0.00 3.14
154 357 9.690913 TTCAAGATCAAGAACAGATGGAAATAT 57.309 29.630 0.00 0.00 0.00 1.28
159 362 6.119240 ACTTCAAGATCAAGAACAGATGGA 57.881 37.500 0.00 0.00 0.00 3.41
160 363 7.912056 TTACTTCAAGATCAAGAACAGATGG 57.088 36.000 0.00 0.00 0.00 3.51
185 388 7.338800 AGAACAGATCAAGTCACACATTTTT 57.661 32.000 0.00 0.00 0.00 1.94
186 389 6.949352 AGAACAGATCAAGTCACACATTTT 57.051 33.333 0.00 0.00 0.00 1.82
187 390 6.543465 TCAAGAACAGATCAAGTCACACATTT 59.457 34.615 0.00 0.00 0.00 2.32
189 392 5.614308 TCAAGAACAGATCAAGTCACACAT 58.386 37.500 0.00 0.00 0.00 3.21
191 394 5.931146 AGATCAAGAACAGATCAAGTCACAC 59.069 40.000 6.03 0.00 43.35 3.82
192 395 6.106648 AGATCAAGAACAGATCAAGTCACA 57.893 37.500 6.03 0.00 43.35 3.58
193 396 7.319646 AGTAGATCAAGAACAGATCAAGTCAC 58.680 38.462 6.03 0.00 43.35 3.67
194 397 7.473735 AGTAGATCAAGAACAGATCAAGTCA 57.526 36.000 6.03 0.00 43.35 3.41
203 406 9.814899 AACAGATCATTAGTAGATCAAGAACAG 57.185 33.333 6.03 0.00 43.35 3.16
216 419 9.988815 GACATCAACCTATAACAGATCATTAGT 57.011 33.333 0.00 0.00 0.00 2.24
220 423 8.310382 GCTAGACATCAACCTATAACAGATCAT 58.690 37.037 0.00 0.00 0.00 2.45
222 425 7.661968 TGCTAGACATCAACCTATAACAGATC 58.338 38.462 0.00 0.00 0.00 2.75
224 427 7.603180 ATGCTAGACATCAACCTATAACAGA 57.397 36.000 0.00 0.00 31.52 3.41
225 428 8.360390 TGTATGCTAGACATCAACCTATAACAG 58.640 37.037 0.00 0.00 40.38 3.16
226 429 8.245195 TGTATGCTAGACATCAACCTATAACA 57.755 34.615 0.00 0.00 40.38 2.41
227 430 9.712305 AATGTATGCTAGACATCAACCTATAAC 57.288 33.333 0.00 0.00 40.38 1.89
230 433 7.880195 GGAAATGTATGCTAGACATCAACCTAT 59.120 37.037 0.00 0.00 40.38 2.57
233 436 5.822519 TGGAAATGTATGCTAGACATCAACC 59.177 40.000 0.00 0.97 40.38 3.77
235 438 7.443272 CAGATGGAAATGTATGCTAGACATCAA 59.557 37.037 0.00 0.00 40.38 2.57
238 441 6.835174 ACAGATGGAAATGTATGCTAGACAT 58.165 36.000 0.00 0.00 43.18 3.06
239 442 6.239217 ACAGATGGAAATGTATGCTAGACA 57.761 37.500 0.00 0.00 0.00 3.41
240 443 6.989169 AGAACAGATGGAAATGTATGCTAGAC 59.011 38.462 0.00 0.00 0.00 2.59
241 444 7.129457 AGAACAGATGGAAATGTATGCTAGA 57.871 36.000 0.00 0.00 0.00 2.43
242 445 7.496920 TCAAGAACAGATGGAAATGTATGCTAG 59.503 37.037 0.00 0.00 0.00 3.42
244 447 6.182627 TCAAGAACAGATGGAAATGTATGCT 58.817 36.000 0.00 0.00 0.00 3.79
245 448 6.441093 TCAAGAACAGATGGAAATGTATGC 57.559 37.500 0.00 0.00 0.00 3.14
247 450 6.421485 AGCTCAAGAACAGATGGAAATGTAT 58.579 36.000 0.00 0.00 0.00 2.29
248 451 5.809001 AGCTCAAGAACAGATGGAAATGTA 58.191 37.500 0.00 0.00 0.00 2.29
249 452 4.660168 AGCTCAAGAACAGATGGAAATGT 58.340 39.130 0.00 0.00 0.00 2.71
250 453 5.182570 TCAAGCTCAAGAACAGATGGAAATG 59.817 40.000 0.00 0.00 0.00 2.32
251 454 5.319453 TCAAGCTCAAGAACAGATGGAAAT 58.681 37.500 0.00 0.00 0.00 2.17
255 458 4.070716 ACTTCAAGCTCAAGAACAGATGG 58.929 43.478 11.44 0.00 0.00 3.51
256 459 6.791887 TTACTTCAAGCTCAAGAACAGATG 57.208 37.500 11.44 0.00 0.00 2.90
286 489 5.931146 AGATCAAGAACAGATCAAGTCACAC 59.069 40.000 6.03 0.00 43.35 3.82
334 636 5.240891 ACAGATGGAAATATATGCCAGACG 58.759 41.667 11.82 6.33 34.74 4.18
339 641 7.750229 TCAAGAACAGATGGAAATATATGCC 57.250 36.000 0.00 0.00 0.00 4.40
450 893 7.856145 ACAGATCAAGAACACATATCTTTCC 57.144 36.000 0.00 0.00 34.99 3.13
531 979 4.232188 AGGCAGATGAAGAACACATCAT 57.768 40.909 0.00 0.00 44.29 2.45
562 1010 7.939039 CCAACCTAATTCATCTATTTGCCTAGA 59.061 37.037 0.00 0.00 32.49 2.43
700 1148 4.402474 TCACCATCGATCTACTGTTCATGT 59.598 41.667 0.00 0.00 0.00 3.21
706 1154 5.184096 GTGGATATCACCATCGATCTACTGT 59.816 44.000 4.83 0.00 42.17 3.55
917 1407 7.337167 TGGTGGTAGTACAAAACAAGAAACTA 58.663 34.615 2.06 0.00 0.00 2.24
944 1434 8.297426 GGTTGGTATGACTTTCTTTCCTAAAAG 58.703 37.037 0.00 0.00 42.77 2.27
1453 4254 8.208903 GGGTATATGTTCAGGCTTCTTAAGTAA 58.791 37.037 1.63 0.00 0.00 2.24
1677 4483 7.512402 TGTATCTATATCACCCAACCTTGATCA 59.488 37.037 0.00 0.00 34.28 2.92
1863 4669 3.181544 GCTAAAAATCCTTTCGCGTTTGC 60.182 43.478 5.77 0.00 37.91 3.68
1871 4677 7.095017 CCTCGATATGGAGCTAAAAATCCTTTC 60.095 40.741 9.12 0.00 36.50 2.62
1945 4752 5.107337 CGCATGTTGAGATATTATTCTGCGT 60.107 40.000 0.00 0.00 35.28 5.24
1953 4760 2.799978 CGTGGCGCATGTTGAGATATTA 59.200 45.455 10.83 0.00 0.00 0.98
2054 4863 3.260632 TCGACATTGAGTCTTCATGGGAA 59.739 43.478 0.00 0.00 45.32 3.97
2231 5042 4.829064 TTCCGAAAATTTGTCCACTCAG 57.171 40.909 0.00 0.00 0.00 3.35
2446 5259 4.584688 GCACAAGCAAGAATGGGC 57.415 55.556 0.00 0.00 39.03 5.36
2531 5344 1.006805 GCTCATCGTCCTCATCGGG 60.007 63.158 0.00 0.00 0.00 5.14
2578 5391 0.252103 TAGCTTTCCACCTCGGGTCT 60.252 55.000 0.00 0.00 31.02 3.85
2597 5410 0.542702 CCACCCTTGAAGGCACCATT 60.543 55.000 5.50 0.00 32.73 3.16
2988 5803 7.701501 GGATAGAAAACGTACTACTTTCTCCTG 59.298 40.741 13.86 0.00 39.50 3.86
3004 5819 9.639601 CAAGGACAAAAATAAGGGATAGAAAAC 57.360 33.333 0.00 0.00 0.00 2.43
3005 5820 8.311109 GCAAGGACAAAAATAAGGGATAGAAAA 58.689 33.333 0.00 0.00 0.00 2.29
3018 5833 7.278875 TGGTTTTTGATAGCAAGGACAAAAAT 58.721 30.769 15.83 0.00 46.26 1.82
3021 5836 5.860941 TGGTTTTTGATAGCAAGGACAAA 57.139 34.783 9.69 0.00 35.04 2.83
3149 5968 8.311836 CCTTCTACACTTTCTCCTGTTACAATA 58.688 37.037 0.00 0.00 0.00 1.90
3154 5973 4.838986 AGCCTTCTACACTTTCTCCTGTTA 59.161 41.667 0.00 0.00 0.00 2.41
3170 5989 0.327591 CTGCCTCTCCAAAGCCTTCT 59.672 55.000 0.00 0.00 0.00 2.85
3244 6063 3.944015 AGCTGTTCCTGTTGAGATAATGC 59.056 43.478 0.00 0.00 0.00 3.56
3248 6067 3.089284 TCGAGCTGTTCCTGTTGAGATA 58.911 45.455 0.00 0.00 0.00 1.98


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.