Multiple sequence alignment - TraesCS5D01G184400

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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 TraesCS5D01G184400 chr5D 100.000 3176 0 0 1 3176 285841577 285838402 0.000000e+00 5866.0
1 TraesCS5D01G184400 chr5D 85.714 588 65 13 19 596 62529986 62530564 1.260000e-168 603.0
2 TraesCS5D01G184400 chr5A 92.349 2614 105 33 601 3176 378273260 378270704 0.000000e+00 3631.0
3 TraesCS5D01G184400 chr5B 92.275 2123 112 26 1082 3171 324249405 324247302 0.000000e+00 2964.0
4 TraesCS5D01G184400 chr5B 96.269 268 5 2 698 964 324249910 324249647 4.870000e-118 435.0
5 TraesCS5D01G184400 chr2A 86.047 602 66 10 1 596 564613507 564614096 5.780000e-177 630.0
6 TraesCS5D01G184400 chr3D 84.692 601 72 14 4 594 156891040 156890450 1.640000e-162 582.0
7 TraesCS5D01G184400 chr6D 83.721 602 80 13 4 596 5070145 5069553 1.290000e-153 553.0
8 TraesCS5D01G184400 chr4B 83.250 603 83 15 1 596 575652364 575652955 3.600000e-149 538.0
9 TraesCS5D01G184400 chr4B 82.890 602 88 9 1 596 575046397 575045805 7.800000e-146 527.0
10 TraesCS5D01G184400 chr4A 83.361 601 80 15 4 596 717817225 717816637 3.600000e-149 538.0
11 TraesCS5D01G184400 chr7D 83.082 597 83 12 1 591 25058050 25058634 7.800000e-146 527.0
12 TraesCS5D01G184400 chr7D 82.118 425 53 10 1662 2085 512747071 512746669 3.030000e-90 342.0
13 TraesCS5D01G184400 chr3B 82.972 599 86 11 1 591 775734384 775734974 7.800000e-146 527.0
14 TraesCS5D01G184400 chr1D 85.969 392 46 8 1662 2049 372360599 372360985 8.200000e-111 411.0
15 TraesCS5D01G184400 chr1B 85.788 387 47 7 1662 2044 497274562 497274944 1.370000e-108 403.0
16 TraesCS5D01G184400 chr1A 85.901 383 46 7 1662 2040 471730050 471730428 4.930000e-108 401.0
17 TraesCS5D01G184400 chr7B 84.062 389 39 10 1662 2049 544481052 544480686 1.400000e-93 353.0
18 TraesCS5D01G184400 chr7B 86.306 314 39 4 1737 2048 193310891 193311202 3.920000e-89 339.0
19 TraesCS5D01G184400 chr7A 81.368 424 58 5 1662 2085 585356881 585356479 3.060000e-85 326.0
20 TraesCS5D01G184400 chr2D 100.000 30 0 0 1265 1294 575947136 575947107 4.430000e-04 56.5


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 TraesCS5D01G184400 chr5D 285838402 285841577 3175 True 5866.0 5866 100.000 1 3176 1 chr5D.!!$R1 3175
1 TraesCS5D01G184400 chr5D 62529986 62530564 578 False 603.0 603 85.714 19 596 1 chr5D.!!$F1 577
2 TraesCS5D01G184400 chr5A 378270704 378273260 2556 True 3631.0 3631 92.349 601 3176 1 chr5A.!!$R1 2575
3 TraesCS5D01G184400 chr5B 324247302 324249910 2608 True 1699.5 2964 94.272 698 3171 2 chr5B.!!$R1 2473
4 TraesCS5D01G184400 chr2A 564613507 564614096 589 False 630.0 630 86.047 1 596 1 chr2A.!!$F1 595
5 TraesCS5D01G184400 chr3D 156890450 156891040 590 True 582.0 582 84.692 4 594 1 chr3D.!!$R1 590
6 TraesCS5D01G184400 chr6D 5069553 5070145 592 True 553.0 553 83.721 4 596 1 chr6D.!!$R1 592
7 TraesCS5D01G184400 chr4B 575652364 575652955 591 False 538.0 538 83.250 1 596 1 chr4B.!!$F1 595
8 TraesCS5D01G184400 chr4B 575045805 575046397 592 True 527.0 527 82.890 1 596 1 chr4B.!!$R1 595
9 TraesCS5D01G184400 chr4A 717816637 717817225 588 True 538.0 538 83.361 4 596 1 chr4A.!!$R1 592
10 TraesCS5D01G184400 chr7D 25058050 25058634 584 False 527.0 527 83.082 1 591 1 chr7D.!!$F1 590
11 TraesCS5D01G184400 chr3B 775734384 775734974 590 False 527.0 527 82.972 1 591 1 chr3B.!!$F1 590

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
372 380 0.108567 GACAAGGCGGAGAGAACCTC 60.109 60.0 0.0 0.0 41.22 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2268 2440 1.444895 GCAGTTGGGAAGCAATGCG 60.445 57.895 0.0 0.0 0.0 4.73 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
34 35 3.742385 GTCTATAGACCACCTAGCGACT 58.258 50.000 20.40 0.00 39.07 4.18
45 46 3.875727 CACCTAGCGACTACTACTAGCAA 59.124 47.826 0.00 0.00 33.53 3.91
47 48 5.699915 CACCTAGCGACTACTACTAGCAATA 59.300 44.000 0.00 0.00 33.53 1.90
104 106 2.749839 CATCGGAGCCGGGCAAAA 60.750 61.111 23.09 3.70 40.25 2.44
168 173 2.038557 AGGACCAACGCACTAGAACAAT 59.961 45.455 0.00 0.00 0.00 2.71
222 229 2.301870 GGATCCAACCTGTAGACACACA 59.698 50.000 6.95 0.00 0.00 3.72
271 279 4.023279 CACGTGGATCCATGAAAGACAAAA 60.023 41.667 35.58 0.00 36.80 2.44
273 281 4.216257 CGTGGATCCATGAAAGACAAAAGT 59.784 41.667 27.27 0.00 35.09 2.66
284 292 6.522054 TGAAAGACAAAAGTAGACCGAATCT 58.478 36.000 0.00 0.00 41.95 2.40
296 304 6.774163 TAGACCGAATCTCACGAGATCCGT 62.774 50.000 13.56 8.54 46.75 4.69
308 316 3.326747 CGAGATCCGTTGGAGAAAAACT 58.673 45.455 0.00 0.00 34.05 2.66
310 318 4.377431 CGAGATCCGTTGGAGAAAAACTTG 60.377 45.833 0.00 0.00 34.05 3.16
315 323 3.490761 CCGTTGGAGAAAAACTTGCACAT 60.491 43.478 0.00 0.00 0.00 3.21
336 344 2.362397 TGCCCTCTAACGATGCTAGAAG 59.638 50.000 0.00 0.00 0.00 2.85
349 357 1.734047 GCTAGAAGCACCACTGAGACG 60.734 57.143 0.00 0.00 41.89 4.18
372 380 0.108567 GACAAGGCGGAGAGAACCTC 60.109 60.000 0.00 0.00 41.22 3.85
379 387 1.740718 GCGGAGAGAACCTCATTCCAC 60.741 57.143 0.00 0.00 43.76 4.02
411 419 2.829003 CGCCACCTCGCCTCTCTA 60.829 66.667 0.00 0.00 0.00 2.43
454 463 8.953507 AACAAAACTCAAAAAGCATGAAAAAG 57.046 26.923 0.00 0.00 0.00 2.27
489 499 2.138179 GCATGCATGGGCTGGGATT 61.138 57.895 27.34 0.00 41.91 3.01
530 540 3.203716 GAAGACCACAAAAGACGAGGTT 58.796 45.455 0.00 0.00 31.57 3.50
560 570 4.704833 CACCGGTGGGAGGCACAG 62.705 72.222 27.57 0.00 36.97 3.66
576 586 2.593026 CACAGGAAACCCTAGCCAAAA 58.407 47.619 0.00 0.00 31.47 2.44
596 606 1.078324 AGGGTCCTCTTTCTTCCCGTA 59.922 52.381 0.00 0.00 42.57 4.02
597 607 1.206610 GGGTCCTCTTTCTTCCCGTAC 59.793 57.143 0.00 0.00 0.00 3.67
598 608 1.206610 GGTCCTCTTTCTTCCCGTACC 59.793 57.143 0.00 0.00 0.00 3.34
599 609 1.206610 GTCCTCTTTCTTCCCGTACCC 59.793 57.143 0.00 0.00 0.00 3.69
635 645 8.185003 GGATAAAAATCCTCCAAAATTCAACG 57.815 34.615 0.00 0.00 37.73 4.10
647 658 5.048364 CCAAAATTCAACGGTCCTACATTCA 60.048 40.000 0.00 0.00 0.00 2.57
651 662 5.471556 TTCAACGGTCCTACATTCAAGTA 57.528 39.130 0.00 0.00 0.00 2.24
660 671 7.417570 CGGTCCTACATTCAAGTACCTTAATCT 60.418 40.741 0.00 0.00 0.00 2.40
661 672 7.711339 GGTCCTACATTCAAGTACCTTAATCTG 59.289 40.741 0.00 0.00 0.00 2.90
664 675 4.876107 ACATTCAAGTACCTTAATCTGCGG 59.124 41.667 0.00 0.00 0.00 5.69
689 700 6.207417 GCATGCATCTGTGTTAAGGGTAATAT 59.793 38.462 14.21 0.00 0.00 1.28
690 701 7.390440 GCATGCATCTGTGTTAAGGGTAATATA 59.610 37.037 14.21 0.00 0.00 0.86
691 702 8.939929 CATGCATCTGTGTTAAGGGTAATATAG 58.060 37.037 0.00 0.00 0.00 1.31
692 703 7.450074 TGCATCTGTGTTAAGGGTAATATAGG 58.550 38.462 0.00 0.00 0.00 2.57
693 704 6.371825 GCATCTGTGTTAAGGGTAATATAGGC 59.628 42.308 0.00 0.00 0.00 3.93
694 705 7.450074 CATCTGTGTTAAGGGTAATATAGGCA 58.550 38.462 0.00 0.00 0.00 4.75
695 706 6.823497 TCTGTGTTAAGGGTAATATAGGCAC 58.177 40.000 0.00 0.00 0.00 5.01
696 707 5.603596 TGTGTTAAGGGTAATATAGGCACG 58.396 41.667 0.00 0.00 0.00 5.34
700 711 4.879197 AAGGGTAATATAGGCACGTACC 57.121 45.455 0.00 0.00 34.63 3.34
766 778 1.593006 CGCTACGACCAATCATTCACC 59.407 52.381 0.00 0.00 0.00 4.02
1160 1296 3.551496 CTGGCCACCACCATGACGT 62.551 63.158 0.00 0.00 39.54 4.34
1161 1297 3.055719 GGCCACCACCATGACGTG 61.056 66.667 0.00 0.00 0.00 4.49
1574 1722 3.521560 TGCAGGTAACACGATGATCTTC 58.478 45.455 0.00 0.00 41.41 2.87
1575 1723 3.195610 TGCAGGTAACACGATGATCTTCT 59.804 43.478 6.99 0.00 41.41 2.85
1577 1725 4.033358 GCAGGTAACACGATGATCTTCTTG 59.967 45.833 12.01 12.01 41.41 3.02
1578 1726 5.171476 CAGGTAACACGATGATCTTCTTGT 58.829 41.667 13.12 13.12 41.41 3.16
1598 1748 5.478233 TGTCGTACATCATTTAATGCACC 57.522 39.130 0.00 0.00 0.00 5.01
1619 1769 0.235665 GTGGTGCAGATCAACGTGTG 59.764 55.000 0.00 0.00 34.29 3.82
1620 1770 0.179059 TGGTGCAGATCAACGTGTGT 60.179 50.000 0.00 0.00 34.29 3.72
1621 1771 0.235665 GGTGCAGATCAACGTGTGTG 59.764 55.000 0.00 0.00 0.00 3.82
1622 1772 0.937304 GTGCAGATCAACGTGTGTGT 59.063 50.000 0.00 0.00 0.00 3.72
1627 1782 2.351418 CAGATCAACGTGTGTGTGTGTT 59.649 45.455 0.00 0.00 0.00 3.32
1628 1783 2.607635 AGATCAACGTGTGTGTGTGTTC 59.392 45.455 0.00 0.00 0.00 3.18
1651 1806 5.466728 TCTCAAAGTACATGTGTTGAGCTTC 59.533 40.000 27.43 5.40 44.28 3.86
1652 1807 5.368145 TCAAAGTACATGTGTTGAGCTTCT 58.632 37.500 9.11 0.00 0.00 2.85
1653 1808 5.822519 TCAAAGTACATGTGTTGAGCTTCTT 59.177 36.000 9.11 0.00 0.00 2.52
2097 2262 1.818785 GGACGAGGACGAGGACGAT 60.819 63.158 0.00 0.00 42.66 3.73
2179 2344 3.733380 CGACATGGTCTTGCTCTAGACAG 60.733 52.174 12.14 5.49 45.07 3.51
2188 2353 2.925724 TGCTCTAGACAGCTACTCCTC 58.074 52.381 5.66 0.00 40.39 3.71
2189 2354 2.239907 TGCTCTAGACAGCTACTCCTCA 59.760 50.000 5.66 0.00 40.39 3.86
2205 2377 5.372373 ACTCCTCATTAGCTTTATTGCCTC 58.628 41.667 0.00 0.00 0.00 4.70
2209 2381 5.703130 CCTCATTAGCTTTATTGCCTCTACC 59.297 44.000 0.00 0.00 0.00 3.18
2223 2395 6.808321 TGCCTCTACCATGTCTTTAGTTAT 57.192 37.500 0.00 0.00 0.00 1.89
2237 2409 9.399797 TGTCTTTAGTTATTACTAGTCGATCCA 57.600 33.333 0.00 0.00 38.09 3.41
2238 2410 9.662545 GTCTTTAGTTATTACTAGTCGATCCAC 57.337 37.037 0.00 0.00 38.09 4.02
2268 2440 6.127897 TGGTACGTAGCTTCTAGGTTTAGTTC 60.128 42.308 23.89 0.00 0.00 3.01
2283 2456 0.598065 AGTTCGCATTGCTTCCCAAC 59.402 50.000 7.12 2.32 35.99 3.77
2289 2467 1.338389 GCATTGCTTCCCAACTGCATT 60.338 47.619 0.16 0.00 37.63 3.56
2331 2509 0.250510 TTGCATGGCGAGGTGTTACA 60.251 50.000 0.00 0.00 0.00 2.41
2345 2523 1.697432 TGTTACAGCCCTAGTGCAAGT 59.303 47.619 0.00 0.27 0.00 3.16
2364 2542 8.953990 GTGCAAGTTTAATTAACTACAAGTGTG 58.046 33.333 0.00 0.00 46.34 3.82
2365 2543 7.646130 TGCAAGTTTAATTAACTACAAGTGTGC 59.354 33.333 0.00 4.95 46.34 4.57
2568 2751 4.027437 ACTACAAAAGAGCTAGAGGGAGG 58.973 47.826 0.00 0.00 0.00 4.30
2572 2755 1.614449 AAGAGCTAGAGGGAGGGAGA 58.386 55.000 0.00 0.00 0.00 3.71
2583 2766 1.529309 GAGGGAGAGGGTGCCATTC 59.471 63.158 0.00 0.00 39.84 2.67
2610 2793 1.627864 ACTGGGTTTATTTTGGCGCT 58.372 45.000 7.64 0.00 0.00 5.92
2621 2804 2.490328 TTTGGCGCTGAAAAGAGTTG 57.510 45.000 7.64 0.00 0.00 3.16
2867 3050 3.017048 AGAATCATTTCCAATCCGCCA 57.983 42.857 0.00 0.00 31.84 5.69
2997 3190 4.599047 AAAAATCTGAACCGGCATTTCA 57.401 36.364 0.00 3.16 0.00 2.69
3000 3193 0.036732 TCTGAACCGGCATTTCAGCT 59.963 50.000 22.36 0.00 46.51 4.24
3013 3206 3.660970 TTTCAGCTGGGGCACATTATA 57.339 42.857 15.13 0.00 41.70 0.98
3015 3208 2.930950 TCAGCTGGGGCACATTATAAC 58.069 47.619 15.13 0.00 41.70 1.89
3023 3216 6.017934 GCTGGGGCACATTATAACGATATATG 60.018 42.308 0.00 0.00 38.54 1.78
3146 3339 9.868277 TTGGAATATGAATTTAATGACACCAAC 57.132 29.630 0.00 0.00 0.00 3.77
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 35 3.752222 GGCTCGCTCTATTGCTAGTAGTA 59.248 47.826 0.00 0.00 0.00 1.82
45 46 2.731374 GCCTTCGGCTCGCTCTAT 59.269 61.111 0.00 0.00 46.69 1.98
72 73 1.392710 CGATGAGGTAGGGGCGAAGT 61.393 60.000 0.00 0.00 0.00 3.01
104 106 2.313317 TCCCGACTGTCTACAACAAGT 58.687 47.619 6.21 0.00 37.45 3.16
168 173 2.202824 CTTCATCGGCGGCGGTTA 60.203 61.111 31.73 14.01 0.00 2.85
222 229 5.116180 TCTTGTCTTCATTCGTCTGTGTTT 58.884 37.500 0.00 0.00 0.00 2.83
260 268 6.522054 AGATTCGGTCTACTTTTGTCTTTCA 58.478 36.000 0.00 0.00 34.69 2.69
261 269 6.645415 TGAGATTCGGTCTACTTTTGTCTTTC 59.355 38.462 0.00 0.00 37.29 2.62
271 279 3.263489 TCTCGTGAGATTCGGTCTACT 57.737 47.619 0.00 0.00 40.84 2.57
296 304 3.456280 GCATGTGCAAGTTTTTCTCCAA 58.544 40.909 0.00 0.00 41.59 3.53
308 316 0.323302 TCGTTAGAGGGCATGTGCAA 59.677 50.000 7.36 0.00 44.36 4.08
310 318 0.940126 CATCGTTAGAGGGCATGTGC 59.060 55.000 0.00 0.00 41.14 4.57
315 323 2.067365 TCTAGCATCGTTAGAGGGCA 57.933 50.000 0.00 0.00 34.33 5.36
336 344 4.394712 CCCCCGTCTCAGTGGTGC 62.395 72.222 0.00 0.00 0.00 5.01
343 351 3.319198 GCCTTGTCCCCCGTCTCA 61.319 66.667 0.00 0.00 0.00 3.27
349 357 3.787001 CTCTCCGCCTTGTCCCCC 61.787 72.222 0.00 0.00 0.00 5.40
363 371 3.251484 TGAAGGTGGAATGAGGTTCTCT 58.749 45.455 0.00 0.00 37.01 3.10
372 380 2.886081 CGACTCTCTGAAGGTGGAATG 58.114 52.381 0.00 0.00 0.00 2.67
379 387 2.202676 GCGGCGACTCTCTGAAGG 60.203 66.667 12.98 0.00 0.00 3.46
411 419 1.607148 GTTAGGGTTTGCGTTCTGCTT 59.393 47.619 0.00 0.00 46.63 3.91
474 484 1.380246 GTGAATCCCAGCCCATGCA 60.380 57.895 0.00 0.00 41.13 3.96
475 485 2.129785 GGTGAATCCCAGCCCATGC 61.130 63.158 0.00 0.00 37.30 4.06
476 486 1.039233 GTGGTGAATCCCAGCCCATG 61.039 60.000 0.00 0.00 42.36 3.66
477 487 1.307647 GTGGTGAATCCCAGCCCAT 59.692 57.895 0.00 0.00 42.36 4.00
478 488 2.763215 GTGGTGAATCCCAGCCCA 59.237 61.111 0.00 0.00 42.36 5.36
509 519 2.835027 ACCTCGTCTTTTGTGGTCTTC 58.165 47.619 0.00 0.00 0.00 2.87
549 559 2.840753 GGGTTTCCTGTGCCTCCCA 61.841 63.158 0.00 0.00 35.43 4.37
560 570 1.557099 CCCTTTTGGCTAGGGTTTCC 58.443 55.000 10.58 0.00 46.16 3.13
576 586 0.178900 ACGGGAAGAAAGAGGACCCT 60.179 55.000 0.00 0.00 38.51 4.34
579 589 1.206610 GGGTACGGGAAGAAAGAGGAC 59.793 57.143 0.00 0.00 0.00 3.85
596 606 8.306313 GGATTTTTATCCTTCAACATTAGGGT 57.694 34.615 0.00 0.00 37.73 4.34
633 643 3.881937 GGTACTTGAATGTAGGACCGT 57.118 47.619 0.00 0.00 36.90 4.83
651 662 2.408333 GCATGCCGCAGATTAAGGT 58.592 52.632 6.36 0.00 41.79 3.50
661 672 0.451383 TTAACACAGATGCATGCCGC 59.549 50.000 16.68 7.03 42.89 6.53
664 675 2.094675 ACCCTTAACACAGATGCATGC 58.905 47.619 11.82 11.82 0.00 4.06
672 683 5.694910 CGTGCCTATATTACCCTTAACACAG 59.305 44.000 0.00 0.00 0.00 3.66
700 711 2.429610 ACGTGCAACATAGGTACCCTAG 59.570 50.000 8.74 0.41 39.70 3.02
766 778 1.122019 AGGGGGCTCGGCTAAGTATG 61.122 60.000 0.00 0.00 0.00 2.39
1063 1078 1.679977 CACCACTGGCCATCTTGGG 60.680 63.158 24.82 16.40 38.19 4.12
1143 1279 3.565214 ACGTCATGGTGGTGGCCA 61.565 61.111 0.00 0.00 43.48 5.36
1574 1722 5.965334 GGTGCATTAAATGATGTACGACAAG 59.035 40.000 0.00 0.00 41.67 3.16
1575 1723 5.446607 CGGTGCATTAAATGATGTACGACAA 60.447 40.000 0.00 0.00 41.67 3.18
1577 1725 4.514506 CGGTGCATTAAATGATGTACGAC 58.485 43.478 0.00 0.00 41.67 4.34
1578 1726 3.558006 CCGGTGCATTAAATGATGTACGA 59.442 43.478 0.00 0.00 41.67 3.43
1598 1748 1.667830 ACGTTGATCTGCACCACCG 60.668 57.895 0.00 0.00 0.00 4.94
1619 1769 5.064707 ACACATGTACTTTGAGAACACACAC 59.935 40.000 0.00 0.00 0.00 3.82
1620 1770 5.182487 ACACATGTACTTTGAGAACACACA 58.818 37.500 0.00 0.00 0.00 3.72
1621 1771 5.734855 ACACATGTACTTTGAGAACACAC 57.265 39.130 0.00 0.00 0.00 3.82
1622 1772 5.877564 TCAACACATGTACTTTGAGAACACA 59.122 36.000 0.00 0.00 0.00 3.72
1627 1782 4.960938 AGCTCAACACATGTACTTTGAGA 58.039 39.130 30.17 11.68 45.22 3.27
1628 1783 5.468072 AGAAGCTCAACACATGTACTTTGAG 59.532 40.000 25.69 25.69 45.19 3.02
2097 2262 3.743636 TCGCCGTCGTCATGCTCA 61.744 61.111 0.00 0.00 36.96 4.26
2179 2344 5.180304 GGCAATAAAGCTAATGAGGAGTAGC 59.820 44.000 0.00 0.00 44.50 3.58
2188 2353 6.488006 ACATGGTAGAGGCAATAAAGCTAATG 59.512 38.462 0.00 0.00 34.17 1.90
2189 2354 6.605119 ACATGGTAGAGGCAATAAAGCTAAT 58.395 36.000 0.00 0.00 34.17 1.73
2198 2370 5.700402 ACTAAAGACATGGTAGAGGCAAT 57.300 39.130 0.00 0.00 0.00 3.56
2268 2440 1.444895 GCAGTTGGGAAGCAATGCG 60.445 57.895 0.00 0.00 0.00 4.73
2283 2456 6.447162 TCTGGACGTACTAATGATAATGCAG 58.553 40.000 0.00 0.00 0.00 4.41
2289 2467 5.131067 AGCACTCTGGACGTACTAATGATA 58.869 41.667 0.00 0.00 0.00 2.15
2331 2509 6.246163 AGTTAATTAAACTTGCACTAGGGCT 58.754 36.000 19.73 0.00 46.61 5.19
2345 2523 7.225145 ACAGACGCACACTTGTAGTTAATTAAA 59.775 33.333 0.00 0.00 0.00 1.52
2364 2542 1.664965 GGGACAGACACACAGACGC 60.665 63.158 0.00 0.00 0.00 5.19
2365 2543 1.739667 TGGGACAGACACACAGACG 59.260 57.895 0.00 0.00 0.00 4.18
2432 2610 4.514781 TGACACAGTACACTACACATCC 57.485 45.455 0.00 0.00 0.00 3.51
2568 2751 1.349357 GATAGGAATGGCACCCTCTCC 59.651 57.143 12.88 3.83 34.11 3.71
2572 2755 3.392616 CAGTAAGATAGGAATGGCACCCT 59.607 47.826 13.83 13.83 36.60 4.34
2583 2766 6.238648 CGCCAAAATAAACCCAGTAAGATAGG 60.239 42.308 0.00 0.00 0.00 2.57
2723 2906 1.201429 AAACGCCCTCCCATCAGTCT 61.201 55.000 0.00 0.00 0.00 3.24
2867 3050 4.468153 GGTCCTTGAGTTTCTATCTGGAGT 59.532 45.833 0.00 0.00 0.00 3.85
2908 3091 3.797451 TCACATGCTGTTGCTTTTGAA 57.203 38.095 0.00 0.00 40.48 2.69
2914 3097 2.022195 GATGGATCACATGCTGTTGCT 58.978 47.619 0.00 0.00 40.72 3.91
2996 3189 1.603802 CGTTATAATGTGCCCCAGCTG 59.396 52.381 6.78 6.78 40.80 4.24
2997 3190 1.488812 TCGTTATAATGTGCCCCAGCT 59.511 47.619 4.63 0.00 40.80 4.24
3000 3193 6.821160 CACATATATCGTTATAATGTGCCCCA 59.179 38.462 15.34 0.00 31.20 4.96
3013 3206 9.290483 CGAGAACTAATATGCACATATATCGTT 57.710 33.333 3.65 7.43 33.86 3.85
3015 3208 8.842942 ACGAGAACTAATATGCACATATATCG 57.157 34.615 3.65 4.18 33.86 2.92
3023 3216 6.736123 TCTCCTAACGAGAACTAATATGCAC 58.264 40.000 0.00 0.00 44.94 4.57
3035 3228 2.233922 CCAAAGGCTTCTCCTAACGAGA 59.766 50.000 0.00 0.00 46.94 4.04
3133 3326 7.809546 TGTGTCATAAAGTTGGTGTCATTAA 57.190 32.000 0.00 0.00 0.00 1.40


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

AutoCloner maintained by Alex Coulton.