Multiple sequence alignment - TraesCS3B01G472800

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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 TraesCS3B01G472800 chr3B 100.000 2787 0 0 1 2787 721492855 721495641 0.000000e+00 5147
1 TraesCS3B01G472800 chr3D 89.817 2848 144 62 5 2787 545338748 545341514 0.000000e+00 3518
2 TraesCS3B01G472800 chr3A 87.413 2574 165 71 280 2787 681747286 681749766 0.000000e+00 2811
3 TraesCS3B01G472800 chr3A 86.307 241 17 7 5 229 681747028 681747268 5.960000e-62 248


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 TraesCS3B01G472800 chr3B 721492855 721495641 2786 False 5147.0 5147 100.000 1 2787 1 chr3B.!!$F1 2786
1 TraesCS3B01G472800 chr3D 545338748 545341514 2766 False 3518.0 3518 89.817 5 2787 1 chr3D.!!$F1 2782
2 TraesCS3B01G472800 chr3A 681747028 681749766 2738 False 1529.5 2811 86.860 5 2787 2 chr3A.!!$F1 2782

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
700 754 0.251121 TCGCTTGATGGAAAGGGCAA 60.251 50.0 0.0 0.0 39.33 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2426 2550 0.034477 CTCTTGCCAATAACGGGGGT 60.034 55.0 0.0 0.0 0.0 4.95 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
122 130 1.249407 TGCTGCAATGCACTCATCAA 58.751 45.000 2.72 0.00 38.12 2.57
123 131 1.614413 TGCTGCAATGCACTCATCAAA 59.386 42.857 2.72 0.00 38.12 2.69
124 132 1.990563 GCTGCAATGCACTCATCAAAC 59.009 47.619 2.72 0.00 33.79 2.93
125 133 2.247637 CTGCAATGCACTCATCAAACG 58.752 47.619 2.72 0.00 33.79 3.60
126 134 1.608109 TGCAATGCACTCATCAAACGT 59.392 42.857 2.72 0.00 31.71 3.99
132 149 1.790755 CACTCATCAAACGTCCGGAA 58.209 50.000 5.23 0.00 0.00 4.30
280 297 0.395311 AGGCCAAGGAGACGACGATA 60.395 55.000 5.01 0.00 0.00 2.92
285 302 4.365723 GCCAAGGAGACGACGATAATAAA 58.634 43.478 0.00 0.00 0.00 1.40
288 305 6.509677 GCCAAGGAGACGACGATAATAAAAAG 60.510 42.308 0.00 0.00 0.00 2.27
291 308 8.653338 CAAGGAGACGACGATAATAAAAAGAAA 58.347 33.333 0.00 0.00 0.00 2.52
299 316 9.564041 CGACGATAATAAAAAGAAATAAGGTCG 57.436 33.333 0.00 0.00 34.94 4.79
300 317 9.366513 GACGATAATAAAAAGAAATAAGGTCGC 57.633 33.333 0.00 0.00 0.00 5.19
311 328 6.924111 AGAAATAAGGTCGCAAATTGAATGT 58.076 32.000 0.00 0.00 0.00 2.71
360 377 0.321298 CGTTGATTCCCCGTTCCAGT 60.321 55.000 0.00 0.00 0.00 4.00
391 408 1.343069 ACGTGGAAGCTTCTCCTTCT 58.657 50.000 25.05 1.71 40.76 2.85
398 415 0.715987 AGCTTCTCCTTCTCCCTCCT 59.284 55.000 0.00 0.00 0.00 3.69
399 416 1.119684 GCTTCTCCTTCTCCCTCCTC 58.880 60.000 0.00 0.00 0.00 3.71
407 424 0.254638 TTCTCCCTCCTCCCCTCCTA 60.255 60.000 0.00 0.00 0.00 2.94
413 430 0.758685 CTCCTCCCCTCCTACAGCAG 60.759 65.000 0.00 0.00 0.00 4.24
434 452 6.536582 AGCAGAAAAGAAAAAGAAAAGGAAGC 59.463 34.615 0.00 0.00 0.00 3.86
485 510 3.052745 GGGCGCAAAGAAAAGAAAAGAG 58.947 45.455 10.83 0.00 0.00 2.85
487 512 3.977579 GGCGCAAAGAAAAGAAAAGAGAG 59.022 43.478 10.83 0.00 0.00 3.20
488 513 4.261197 GGCGCAAAGAAAAGAAAAGAGAGA 60.261 41.667 10.83 0.00 0.00 3.10
498 534 6.720012 AAAGAAAAGAGAGAAGAGAATCGC 57.280 37.500 0.00 0.00 42.67 4.58
503 539 1.874019 GAGAAGAGAATCGCGCGCA 60.874 57.895 32.61 18.69 42.67 6.09
520 556 2.474032 GCGCACACGAAAAAGATAGTCC 60.474 50.000 0.30 0.00 43.93 3.85
521 557 2.734606 CGCACACGAAAAAGATAGTCCA 59.265 45.455 0.00 0.00 43.93 4.02
522 558 3.181530 CGCACACGAAAAAGATAGTCCAG 60.182 47.826 0.00 0.00 43.93 3.86
524 560 3.997021 CACACGAAAAAGATAGTCCAGCT 59.003 43.478 0.00 0.00 0.00 4.24
525 561 3.997021 ACACGAAAAAGATAGTCCAGCTG 59.003 43.478 6.78 6.78 0.00 4.24
526 562 3.003480 ACGAAAAAGATAGTCCAGCTGC 58.997 45.455 8.66 0.00 0.00 5.25
527 563 2.029728 CGAAAAAGATAGTCCAGCTGCG 59.970 50.000 8.66 1.56 0.00 5.18
528 564 1.373570 AAAAGATAGTCCAGCTGCGC 58.626 50.000 8.66 0.00 0.00 6.09
529 565 0.539051 AAAGATAGTCCAGCTGCGCT 59.461 50.000 8.66 10.72 40.77 5.92
591 640 4.463043 GTGCAGAGGGACCCTACT 57.537 61.111 14.87 9.85 31.76 2.57
606 660 2.619074 CCCTACTTGCTTGCTTAAGCCT 60.619 50.000 24.30 1.35 44.89 4.58
607 661 3.370527 CCCTACTTGCTTGCTTAAGCCTA 60.371 47.826 24.30 11.61 44.89 3.93
621 675 2.501492 GCCTAGAGCTCACCGGTTA 58.499 57.895 17.77 0.00 38.99 2.85
660 714 2.826738 GGGACGCTCGCTCTCTCT 60.827 66.667 0.00 0.00 0.00 3.10
700 754 0.251121 TCGCTTGATGGAAAGGGCAA 60.251 50.000 0.00 0.00 39.33 4.52
717 781 1.800805 CAAGAAGAAAGCCGAGCTCA 58.199 50.000 15.40 0.00 38.25 4.26
718 782 1.731160 CAAGAAGAAAGCCGAGCTCAG 59.269 52.381 15.40 2.93 38.25 3.35
753 817 1.593209 TGTTTCACGACACCGGCTC 60.593 57.895 0.00 0.00 40.78 4.70
755 819 2.798364 TTTCACGACACCGGCTCCA 61.798 57.895 0.00 0.00 40.78 3.86
756 820 2.981977 TTTCACGACACCGGCTCCAC 62.982 60.000 0.00 0.00 40.78 4.02
757 821 3.991051 CACGACACCGGCTCCACT 61.991 66.667 0.00 0.00 40.78 4.00
758 822 3.681835 ACGACACCGGCTCCACTC 61.682 66.667 0.00 0.00 40.78 3.51
759 823 3.374402 CGACACCGGCTCCACTCT 61.374 66.667 0.00 0.00 0.00 3.24
846 926 2.167487 GCCCAACCACTCTCTCTTCTAG 59.833 54.545 0.00 0.00 0.00 2.43
904 989 2.478134 GTGAGTCTGACTTGCATGTGAC 59.522 50.000 12.27 11.76 0.00 3.67
925 1010 4.063529 GCCTACAGCAAGCACACA 57.936 55.556 0.00 0.00 42.97 3.72
926 1011 2.559785 GCCTACAGCAAGCACACAT 58.440 52.632 0.00 0.00 42.97 3.21
929 1014 1.611410 CCTACAGCAAGCACACATCCA 60.611 52.381 0.00 0.00 0.00 3.41
935 1037 1.198637 GCAAGCACACATCCAAGAGAC 59.801 52.381 0.00 0.00 0.00 3.36
980 1091 2.316108 CTTGCTTAGTTGGGTTGGGTT 58.684 47.619 0.00 0.00 0.00 4.11
983 1094 2.432510 TGCTTAGTTGGGTTGGGTTTTG 59.567 45.455 0.00 0.00 0.00 2.44
984 1095 2.432874 GCTTAGTTGGGTTGGGTTTTGT 59.567 45.455 0.00 0.00 0.00 2.83
985 1096 3.118555 GCTTAGTTGGGTTGGGTTTTGTT 60.119 43.478 0.00 0.00 0.00 2.83
986 1097 4.624364 GCTTAGTTGGGTTGGGTTTTGTTT 60.624 41.667 0.00 0.00 0.00 2.83
987 1098 3.620427 AGTTGGGTTGGGTTTTGTTTC 57.380 42.857 0.00 0.00 0.00 2.78
1043 1154 4.803426 CGAGGAGGCCGCAGTCAC 62.803 72.222 9.31 0.00 0.00 3.67
1237 1348 1.134560 CAGGTACGCTCCACTTACTCC 59.865 57.143 0.00 0.00 0.00 3.85
1531 1642 1.146930 CTGGGCCATGCACGAGTAT 59.853 57.895 6.72 0.00 32.76 2.12
1627 1738 1.166531 GCGTGTTCAAGAAGGCCACT 61.167 55.000 5.01 0.00 0.00 4.00
1633 1744 1.130054 TCAAGAAGGCCACTCCAGCT 61.130 55.000 5.01 0.00 37.29 4.24
1747 1861 2.501610 GGCATGGAGGAGGACGAC 59.498 66.667 0.00 0.00 0.00 4.34
1802 1916 3.383185 GCATTAGAGTAGCTGACCTGACT 59.617 47.826 0.00 0.00 0.00 3.41
1885 1999 3.198635 TGGTAGCACTAGTAGTACCTCGT 59.801 47.826 23.75 0.00 28.26 4.18
1936 2050 4.130118 GGAGAAACAAACTGAGCTCAAGA 58.870 43.478 18.85 0.00 0.00 3.02
1939 2053 5.884771 AGAAACAAACTGAGCTCAAGAAAC 58.115 37.500 18.85 4.98 0.00 2.78
1942 2056 4.016444 ACAAACTGAGCTCAAGAAACCAA 58.984 39.130 18.85 0.00 0.00 3.67
1944 2058 2.576615 ACTGAGCTCAAGAAACCAACC 58.423 47.619 18.85 0.00 0.00 3.77
2011 2125 0.036875 TGAGACCGAGAGAGCTCACA 59.963 55.000 17.77 0.00 41.36 3.58
2046 2160 6.434340 AGAGTTCATGTTCCAAGGTTAAATCC 59.566 38.462 0.00 0.00 0.00 3.01
2076 2190 1.806542 TGCTCGTGAATTTCAGCTTCC 59.193 47.619 0.00 0.00 0.00 3.46
2077 2191 2.079925 GCTCGTGAATTTCAGCTTCCT 58.920 47.619 0.00 0.00 0.00 3.36
2078 2192 2.095053 GCTCGTGAATTTCAGCTTCCTC 59.905 50.000 0.00 0.00 0.00 3.71
2082 2205 3.669023 CGTGAATTTCAGCTTCCTCTTGC 60.669 47.826 0.00 0.00 0.00 4.01
2151 2274 0.679505 AGTAGAAACACAGAGCGGCA 59.320 50.000 1.45 0.00 0.00 5.69
2172 2296 2.045131 GCAGAGAAAGCAGGGCAGG 61.045 63.158 0.00 0.00 0.00 4.85
2227 2351 2.029970 GCGAGCGGATTCACGAATTTTA 59.970 45.455 0.00 0.00 35.47 1.52
2228 2352 3.594312 CGAGCGGATTCACGAATTTTAC 58.406 45.455 0.00 0.00 35.47 2.01
2229 2353 3.061563 CGAGCGGATTCACGAATTTTACA 59.938 43.478 0.00 0.00 35.47 2.41
2239 2363 9.982291 GATTCACGAATTTTACAATAAGCTACA 57.018 29.630 0.00 0.00 0.00 2.74
2251 2375 2.856032 GCTACAGCTGTGCGTGTG 59.144 61.111 29.57 12.41 38.21 3.82
2252 2376 2.856032 CTACAGCTGTGCGTGTGC 59.144 61.111 29.57 0.00 43.20 4.57
2274 2398 1.741401 CGTGCGTGGTGATGATGGT 60.741 57.895 0.00 0.00 0.00 3.55
2362 2486 0.103937 CTCAGTCCGGAGATGCCTTC 59.896 60.000 3.06 0.00 37.05 3.46
2426 2550 2.692709 TTCCAGCCATCAAAAAGGGA 57.307 45.000 0.00 0.00 0.00 4.20
2588 2730 7.484035 TGAGAATCATATCGTATCGATCGAT 57.516 36.000 31.39 31.39 41.08 3.59
2589 2731 7.568433 TGAGAATCATATCGTATCGATCGATC 58.432 38.462 32.50 21.71 41.08 3.69
2590 2732 6.585852 AGAATCATATCGTATCGATCGATCG 58.414 40.000 35.91 35.91 43.45 3.69
2621 2763 3.541632 GAATAAGGCGGACAGATTTGGA 58.458 45.455 0.00 0.00 0.00 3.53
2635 2777 3.593328 AGATTTGGAGGAGGAATCAACCA 59.407 43.478 0.00 0.00 33.34 3.67
2689 2832 2.492019 TTCACACTGTCACTGTCTCG 57.508 50.000 0.00 0.00 0.00 4.04
2768 2912 2.487532 GCTGATGGCCATGGCTCAC 61.488 63.158 34.70 24.15 41.60 3.51
2775 2919 3.129502 CCATGGCTCACACGCTGG 61.130 66.667 0.00 0.00 0.00 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
42 43 4.776647 GTCAAACGCATGGCCGCC 62.777 66.667 1.04 1.04 0.00 6.13
43 44 3.667429 GAGTCAAACGCATGGCCGC 62.667 63.158 0.00 0.00 0.00 6.53
44 45 2.480555 GAGTCAAACGCATGGCCG 59.519 61.111 0.00 0.00 0.00 6.13
46 47 1.573829 TTCGGAGTCAAACGCATGGC 61.574 55.000 0.00 0.00 0.00 4.40
53 61 1.206831 GCGGCTTTCGGAGTCAAAC 59.793 57.895 0.00 0.00 39.69 2.93
106 114 1.608109 ACGTTTGATGAGTGCATTGCA 59.392 42.857 7.38 7.38 34.11 4.08
109 117 1.464608 CGGACGTTTGATGAGTGCATT 59.535 47.619 0.00 0.00 34.11 3.56
111 119 0.948623 CCGGACGTTTGATGAGTGCA 60.949 55.000 0.00 0.00 0.00 4.57
122 130 0.249741 CAGTTCACCTTCCGGACGTT 60.250 55.000 1.83 0.00 0.00 3.99
123 131 1.366366 CAGTTCACCTTCCGGACGT 59.634 57.895 1.83 0.00 0.00 4.34
124 132 1.374252 CCAGTTCACCTTCCGGACG 60.374 63.158 1.83 0.66 0.00 4.79
125 133 0.602905 CACCAGTTCACCTTCCGGAC 60.603 60.000 1.83 0.00 0.00 4.79
126 134 0.761323 TCACCAGTTCACCTTCCGGA 60.761 55.000 0.00 0.00 0.00 5.14
132 149 5.705905 GCTTAATTACTTCACCAGTTCACCT 59.294 40.000 0.00 0.00 36.88 4.00
285 302 7.872483 ACATTCAATTTGCGACCTTATTTCTTT 59.128 29.630 0.00 0.00 0.00 2.52
288 305 7.411804 CCAACATTCAATTTGCGACCTTATTTC 60.412 37.037 0.00 0.00 0.00 2.17
291 308 5.184864 TCCAACATTCAATTTGCGACCTTAT 59.815 36.000 0.00 0.00 0.00 1.73
296 313 4.327087 GGATTCCAACATTCAATTTGCGAC 59.673 41.667 0.00 0.00 0.00 5.19
299 316 5.122711 CCTTGGATTCCAACATTCAATTTGC 59.877 40.000 14.24 0.00 38.75 3.68
300 317 6.232692 ACCTTGGATTCCAACATTCAATTTG 58.767 36.000 14.24 1.02 38.75 2.32
311 328 1.005450 GCCACCTACCTTGGATTCCAA 59.995 52.381 17.09 17.09 41.69 3.53
391 408 1.230853 TGTAGGAGGGGAGGAGGGA 60.231 63.158 0.00 0.00 0.00 4.20
398 415 1.909302 CTTTTCTGCTGTAGGAGGGGA 59.091 52.381 0.45 0.00 34.00 4.81
399 416 1.909302 TCTTTTCTGCTGTAGGAGGGG 59.091 52.381 0.45 0.00 34.00 4.79
407 424 6.935167 TCCTTTTCTTTTTCTTTTCTGCTGT 58.065 32.000 0.00 0.00 0.00 4.40
413 430 6.199154 CCTCGCTTCCTTTTCTTTTTCTTTTC 59.801 38.462 0.00 0.00 0.00 2.29
434 452 4.047822 CGAAATTCCTTCTCATCTCCTCG 58.952 47.826 0.00 0.00 31.20 4.63
485 510 1.874019 TGCGCGCGATTCTCTTCTC 60.874 57.895 37.18 12.22 0.00 2.87
487 512 2.318024 GTGCGCGCGATTCTCTTC 59.682 61.111 37.18 13.89 0.00 2.87
488 513 2.432456 TGTGCGCGCGATTCTCTT 60.432 55.556 37.18 0.00 0.00 2.85
498 534 1.126113 ACTATCTTTTTCGTGTGCGCG 59.874 47.619 0.00 0.00 38.14 6.86
503 539 3.997021 CAGCTGGACTATCTTTTTCGTGT 59.003 43.478 5.57 0.00 0.00 4.49
533 569 0.659957 GAGAACAAGGCATCCATCGC 59.340 55.000 0.00 0.00 0.00 4.58
534 570 1.134280 AGGAGAACAAGGCATCCATCG 60.134 52.381 0.00 0.00 34.08 3.84
535 571 2.725221 AGGAGAACAAGGCATCCATC 57.275 50.000 0.00 0.00 34.08 3.51
536 572 2.357569 GGAAGGAGAACAAGGCATCCAT 60.358 50.000 0.00 0.00 34.08 3.41
537 573 1.004745 GGAAGGAGAACAAGGCATCCA 59.995 52.381 0.00 0.00 34.08 3.41
538 574 1.683319 GGGAAGGAGAACAAGGCATCC 60.683 57.143 0.00 0.00 0.00 3.51
606 660 1.409802 CCCTCTAACCGGTGAGCTCTA 60.410 57.143 14.91 0.00 0.00 2.43
607 661 0.684805 CCCTCTAACCGGTGAGCTCT 60.685 60.000 14.91 0.00 0.00 4.09
621 675 0.548510 GCAGCCCTTAATCACCCTCT 59.451 55.000 0.00 0.00 0.00 3.69
650 704 2.900546 AGAAAGGGAAAAGAGAGAGCGA 59.099 45.455 0.00 0.00 0.00 4.93
656 710 4.202472 GGGAACAGAGAAAGGGAAAAGAGA 60.202 45.833 0.00 0.00 0.00 3.10
658 712 3.722101 AGGGAACAGAGAAAGGGAAAAGA 59.278 43.478 0.00 0.00 0.00 2.52
660 714 4.470602 GAAGGGAACAGAGAAAGGGAAAA 58.529 43.478 0.00 0.00 0.00 2.29
700 754 0.390998 GCTGAGCTCGGCTTTCTTCT 60.391 55.000 35.32 0.00 44.58 2.85
717 781 2.434884 CACTCAACCGCCATCGCT 60.435 61.111 0.00 0.00 0.00 4.93
718 782 2.742372 ACACTCAACCGCCATCGC 60.742 61.111 0.00 0.00 0.00 4.58
753 817 4.321304 CGGTTATATAGTGGCAGAGAGTGG 60.321 50.000 0.00 0.00 0.00 4.00
755 819 3.256136 GCGGTTATATAGTGGCAGAGAGT 59.744 47.826 0.00 0.00 0.00 3.24
756 820 3.367498 GGCGGTTATATAGTGGCAGAGAG 60.367 52.174 0.00 0.00 0.00 3.20
757 821 2.561419 GGCGGTTATATAGTGGCAGAGA 59.439 50.000 0.00 0.00 0.00 3.10
758 822 2.299013 TGGCGGTTATATAGTGGCAGAG 59.701 50.000 0.00 0.00 0.00 3.35
759 823 2.321719 TGGCGGTTATATAGTGGCAGA 58.678 47.619 0.00 0.00 0.00 4.26
827 899 3.096092 AGCTAGAAGAGAGAGTGGTTGG 58.904 50.000 0.00 0.00 0.00 3.77
846 926 2.430610 ATGGAGGACGGAGCAGAGC 61.431 63.158 0.00 0.00 0.00 4.09
904 989 2.103042 GTGCTTGCTGTAGGCTCGG 61.103 63.158 1.20 0.00 42.39 4.63
925 1010 4.264352 ACTTCCTCTCTCTGTCTCTTGGAT 60.264 45.833 0.00 0.00 0.00 3.41
926 1011 3.075283 ACTTCCTCTCTCTGTCTCTTGGA 59.925 47.826 0.00 0.00 0.00 3.53
929 1014 6.731467 AGATTACTTCCTCTCTCTGTCTCTT 58.269 40.000 0.00 0.00 0.00 2.85
935 1037 5.596836 AGCAAGATTACTTCCTCTCTCTG 57.403 43.478 0.00 0.00 33.70 3.35
980 1091 4.320129 CCATAGATGCACACACGAAACAAA 60.320 41.667 0.00 0.00 0.00 2.83
983 1094 2.476185 GCCATAGATGCACACACGAAAC 60.476 50.000 0.00 0.00 0.00 2.78
984 1095 1.737236 GCCATAGATGCACACACGAAA 59.263 47.619 0.00 0.00 0.00 3.46
985 1096 1.368641 GCCATAGATGCACACACGAA 58.631 50.000 0.00 0.00 0.00 3.85
986 1097 0.805711 CGCCATAGATGCACACACGA 60.806 55.000 0.00 0.00 0.00 4.35
987 1098 1.637934 CGCCATAGATGCACACACG 59.362 57.895 0.00 0.00 0.00 4.49
1026 1137 4.803426 GTGACTGCGGCCTCCTCG 62.803 72.222 0.00 0.00 0.00 4.63
1237 1348 1.484653 TCCGTTGGTCAGTGATATGGG 59.515 52.381 0.00 0.00 0.00 4.00
1420 1531 3.626924 ACGACCAGCCGCTCCTTT 61.627 61.111 0.00 0.00 0.00 3.11
1665 1776 3.838795 GTGTCATGTCGGCGTCGC 61.839 66.667 9.22 9.22 36.13 5.19
1702 1816 2.362503 TCGGTCACGCAGGAGGAT 60.363 61.111 0.00 0.00 40.69 3.24
1747 1861 0.179073 AATTGGAGGCGGTCTCATCG 60.179 55.000 12.28 0.00 44.19 3.84
1781 1895 5.126222 TGAAGTCAGGTCAGCTACTCTAATG 59.874 44.000 0.00 0.00 0.00 1.90
1789 1903 4.383444 CCATGATTGAAGTCAGGTCAGCTA 60.383 45.833 0.00 0.00 0.00 3.32
1802 1916 6.953520 AGAAAATTACAGGGACCATGATTGAA 59.046 34.615 14.23 1.83 0.00 2.69
1885 1999 7.973048 AAGTTGGGACTGATGATTACTACTA 57.027 36.000 0.00 0.00 35.91 1.82
1936 2050 0.106918 TGAGCTCGGTTGGTTGGTTT 60.107 50.000 9.64 0.00 0.00 3.27
1939 2053 1.856265 GCTTGAGCTCGGTTGGTTGG 61.856 60.000 9.64 0.00 38.21 3.77
1942 2056 0.250901 ATTGCTTGAGCTCGGTTGGT 60.251 50.000 9.64 0.00 42.66 3.67
1944 2058 1.159285 TGATTGCTTGAGCTCGGTTG 58.841 50.000 9.64 0.00 42.66 3.77
2011 2125 6.064060 TGGAACATGAACTCTTTGATTCACT 58.936 36.000 0.00 0.00 37.64 3.41
2076 2190 7.195646 TCTTTACTTGTTGATTTGTGCAAGAG 58.804 34.615 9.68 0.00 40.30 2.85
2077 2191 7.094508 TCTTTACTTGTTGATTTGTGCAAGA 57.905 32.000 9.68 0.00 40.30 3.02
2078 2192 7.754069 TTCTTTACTTGTTGATTTGTGCAAG 57.246 32.000 0.00 0.00 42.65 4.01
2082 2205 9.520204 AGTTCATTCTTTACTTGTTGATTTGTG 57.480 29.630 0.00 0.00 0.00 3.33
2128 2251 3.243336 CCGCTCTGTGTTTCTACTGTAC 58.757 50.000 0.00 0.00 0.00 2.90
2151 2274 2.046507 CCCTGCTTTCTCTGCGCT 60.047 61.111 9.73 0.00 0.00 5.92
2172 2296 2.202676 CTGAGCTCCGACGCCTTC 60.203 66.667 12.15 0.00 0.00 3.46
2210 2334 6.075572 GCTTATTGTAAAATTCGTGAATCCGC 60.076 38.462 0.00 0.00 0.00 5.54
2252 2376 4.428922 CATCACCACGCACGCACG 62.429 66.667 0.00 0.00 39.50 5.34
2274 2398 1.937191 TGGATCAGTACTCAGTGGCA 58.063 50.000 0.00 0.00 0.00 4.92
2362 2486 2.184579 GCGTCGGGAGGAAGAAGG 59.815 66.667 0.00 0.00 0.00 3.46
2390 2514 1.202604 GGAAATATTCCTGTCGCCCGA 60.203 52.381 1.86 0.00 46.57 5.14
2422 2546 2.686572 GCCAATAACGGGGGTCCCT 61.687 63.158 8.15 0.00 42.67 4.20
2426 2550 0.034477 CTCTTGCCAATAACGGGGGT 60.034 55.000 0.00 0.00 0.00 4.95
2588 2730 2.601504 CGCCTTATTCGTCTTCGATCGA 60.602 50.000 15.15 15.15 45.65 3.59
2589 2731 1.709203 CGCCTTATTCGTCTTCGATCG 59.291 52.381 9.36 9.36 45.65 3.69
2590 2732 2.052157 CCGCCTTATTCGTCTTCGATC 58.948 52.381 0.00 0.00 45.65 3.69
2598 2740 2.936498 CAAATCTGTCCGCCTTATTCGT 59.064 45.455 0.00 0.00 0.00 3.85
2607 2749 0.462759 CCTCCTCCAAATCTGTCCGC 60.463 60.000 0.00 0.00 0.00 5.54
2621 2763 1.279271 CGGTCTTGGTTGATTCCTCCT 59.721 52.381 0.00 0.00 0.00 3.69
2689 2832 3.333804 CTGCCTGGAGAAGAAGAAGAAC 58.666 50.000 0.00 0.00 0.00 3.01


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

AutoCloner maintained by Alex Coulton.