Multiple sequence alignment - TraesCS7B01G127500

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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 TraesCS7B01G127500 chr7B 100.000 4363 0 0 1 4363 152062821 152058459 0.000 8058.0
1 TraesCS7B01G127500 chr7D 95.328 3596 87 23 806 4363 183330152 183326600 0.000 5635.0
2 TraesCS7B01G127500 chr7D 100.000 28 0 0 3988 4015 104885785 104885812 0.008 52.8
3 TraesCS7B01G127500 chr7A 94.870 3645 99 23 785 4363 187937934 187941556 0.000 5614.0
4 TraesCS7B01G127500 chr3A 97.361 682 16 2 1 681 521602760 521602080 0.000 1158.0
5 TraesCS7B01G127500 chr3A 97.333 675 16 2 1 674 547190850 547190177 0.000 1146.0
6 TraesCS7B01G127500 chr5B 97.214 682 17 2 1 681 633703259 633702579 0.000 1153.0
7 TraesCS7B01G127500 chrUn 97.481 675 16 1 1 674 241397917 241398591 0.000 1151.0
8 TraesCS7B01G127500 chrUn 97.333 675 17 1 1 674 231445885 231445211 0.000 1146.0
9 TraesCS7B01G127500 chr1B 97.481 675 15 2 1 674 678138103 678138776 0.000 1151.0
10 TraesCS7B01G127500 chr1B 100.000 28 0 0 3988 4015 513155455 513155428 0.008 52.8
11 TraesCS7B01G127500 chr6B 97.333 675 17 1 1 674 624524015 624524689 0.000 1146.0
12 TraesCS7B01G127500 chr4B 97.333 675 16 2 1 674 347642874 347643547 0.000 1146.0
13 TraesCS7B01G127500 chr2A 96.921 682 17 4 1 681 763256570 763257248 0.000 1140.0
14 TraesCS7B01G127500 chr1D 100.000 29 0 0 3989 4017 420715972 420716000 0.002 54.7


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 TraesCS7B01G127500 chr7B 152058459 152062821 4362 True 8058 8058 100.000 1 4363 1 chr7B.!!$R1 4362
1 TraesCS7B01G127500 chr7D 183326600 183330152 3552 True 5635 5635 95.328 806 4363 1 chr7D.!!$R1 3557
2 TraesCS7B01G127500 chr7A 187937934 187941556 3622 False 5614 5614 94.870 785 4363 1 chr7A.!!$F1 3578
3 TraesCS7B01G127500 chr3A 521602080 521602760 680 True 1158 1158 97.361 1 681 1 chr3A.!!$R1 680
4 TraesCS7B01G127500 chr3A 547190177 547190850 673 True 1146 1146 97.333 1 674 1 chr3A.!!$R2 673
5 TraesCS7B01G127500 chr5B 633702579 633703259 680 True 1153 1153 97.214 1 681 1 chr5B.!!$R1 680
6 TraesCS7B01G127500 chrUn 241397917 241398591 674 False 1151 1151 97.481 1 674 1 chrUn.!!$F1 673
7 TraesCS7B01G127500 chrUn 231445211 231445885 674 True 1146 1146 97.333 1 674 1 chrUn.!!$R1 673
8 TraesCS7B01G127500 chr1B 678138103 678138776 673 False 1151 1151 97.481 1 674 1 chr1B.!!$F1 673
9 TraesCS7B01G127500 chr6B 624524015 624524689 674 False 1146 1146 97.333 1 674 1 chr6B.!!$F1 673
10 TraesCS7B01G127500 chr4B 347642874 347643547 673 False 1146 1146 97.333 1 674 1 chr4B.!!$F1 673
11 TraesCS7B01G127500 chr2A 763256570 763257248 678 False 1140 1140 96.921 1 681 1 chr2A.!!$F1 680

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
254 255 0.041238 ATGGGACTGAGGGACGAAGA 59.959 55.0 0.00 0.00 0.00 2.87 F
677 680 0.251077 ACCTACCAACCGAGACGAGT 60.251 55.0 0.00 0.00 0.00 4.18 F
773 776 0.604243 TTTGGGGACGAATGTGACCG 60.604 55.0 0.00 0.00 0.00 4.79 F
781 784 0.665068 CGAATGTGACCGTCGGTGAA 60.665 55.0 24.45 7.01 35.25 3.18 F
3206 3253 0.528017 CTGCGCTCAGGTAGTTCTCA 59.472 55.0 9.73 0.00 36.68 3.27 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1479 1512 1.955778 CCAGGAACACTCACATTTGCA 59.044 47.619 0.00 0.00 0.00 4.08 R
2619 2661 1.207811 TCCAGATGCGCAAAGATCAGA 59.792 47.619 17.11 5.77 0.00 3.27 R
3206 3253 6.428159 AGCTGAAACACGATAAAGAGACAATT 59.572 34.615 0.00 0.00 0.00 2.32 R
3248 3295 0.535797 GGGAAGTGGTAAGGAGGACG 59.464 60.000 0.00 0.00 0.00 4.79 R
4077 4147 2.568509 ACTCCCTCCGTTCGGAAATAAA 59.431 45.455 14.79 0.00 33.41 1.40 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
103 104 2.225091 TGTAGGACGTGAGGGTTTAGGA 60.225 50.000 0.00 0.00 0.00 2.94
254 255 0.041238 ATGGGACTGAGGGACGAAGA 59.959 55.000 0.00 0.00 0.00 2.87
269 270 3.759618 GACGAAGAGAAGAGAAGGGAAGA 59.240 47.826 0.00 0.00 0.00 2.87
634 636 1.647334 AAAAAGACCGGGTGGGGTGA 61.647 55.000 3.30 0.00 41.40 4.02
668 671 1.620413 CGAAACGCGACCTACCAACC 61.620 60.000 15.93 0.00 44.57 3.77
674 677 1.136147 CGACCTACCAACCGAGACG 59.864 63.158 0.00 0.00 0.00 4.18
675 678 1.300971 CGACCTACCAACCGAGACGA 61.301 60.000 0.00 0.00 0.00 4.20
676 679 0.450983 GACCTACCAACCGAGACGAG 59.549 60.000 0.00 0.00 0.00 4.18
677 680 0.251077 ACCTACCAACCGAGACGAGT 60.251 55.000 0.00 0.00 0.00 4.18
678 681 1.003580 ACCTACCAACCGAGACGAGTA 59.996 52.381 0.00 0.00 0.00 2.59
679 682 1.669779 CCTACCAACCGAGACGAGTAG 59.330 57.143 0.00 0.00 0.00 2.57
680 683 2.625737 CTACCAACCGAGACGAGTAGA 58.374 52.381 0.00 0.00 31.00 2.59
681 684 1.451067 ACCAACCGAGACGAGTAGAG 58.549 55.000 0.00 0.00 0.00 2.43
682 685 1.002888 ACCAACCGAGACGAGTAGAGA 59.997 52.381 0.00 0.00 0.00 3.10
683 686 1.397692 CCAACCGAGACGAGTAGAGAC 59.602 57.143 0.00 0.00 0.00 3.36
684 687 2.348660 CAACCGAGACGAGTAGAGACT 58.651 52.381 0.00 0.00 39.20 3.24
736 739 5.796350 AAAAATACTCCACGTGCATACTC 57.204 39.130 10.91 0.00 0.00 2.59
737 740 4.465632 AAATACTCCACGTGCATACTCA 57.534 40.909 10.91 0.00 0.00 3.41
738 741 4.465632 AATACTCCACGTGCATACTCAA 57.534 40.909 10.91 0.00 0.00 3.02
739 742 2.831685 ACTCCACGTGCATACTCAAA 57.168 45.000 10.91 0.00 0.00 2.69
740 743 3.120321 ACTCCACGTGCATACTCAAAA 57.880 42.857 10.91 0.00 0.00 2.44
741 744 3.472652 ACTCCACGTGCATACTCAAAAA 58.527 40.909 10.91 0.00 0.00 1.94
764 767 2.721425 AAAGTGAACTTTGGGGACGA 57.279 45.000 7.62 0.00 43.87 4.20
765 768 2.721425 AAGTGAACTTTGGGGACGAA 57.279 45.000 0.00 0.00 30.82 3.85
766 769 2.951229 AGTGAACTTTGGGGACGAAT 57.049 45.000 0.00 0.00 31.91 3.34
767 770 2.504367 AGTGAACTTTGGGGACGAATG 58.496 47.619 0.00 0.00 31.91 2.67
768 771 2.158667 AGTGAACTTTGGGGACGAATGT 60.159 45.455 0.00 0.00 31.91 2.71
769 772 2.031157 GTGAACTTTGGGGACGAATGTG 60.031 50.000 0.00 0.00 31.91 3.21
770 773 2.158740 TGAACTTTGGGGACGAATGTGA 60.159 45.455 0.00 0.00 31.91 3.58
771 774 1.892209 ACTTTGGGGACGAATGTGAC 58.108 50.000 0.00 0.00 31.91 3.67
772 775 1.165270 CTTTGGGGACGAATGTGACC 58.835 55.000 0.00 0.00 31.91 4.02
773 776 0.604243 TTTGGGGACGAATGTGACCG 60.604 55.000 0.00 0.00 0.00 4.79
774 777 1.760479 TTGGGGACGAATGTGACCGT 61.760 55.000 0.00 0.00 42.17 4.83
777 780 3.763319 GACGAATGTGACCGTCGG 58.237 61.111 10.48 10.48 44.23 4.79
778 781 1.080974 GACGAATGTGACCGTCGGT 60.081 57.895 18.94 18.94 44.23 4.69
779 782 1.342082 GACGAATGTGACCGTCGGTG 61.342 60.000 24.45 7.95 44.23 4.94
780 783 1.081041 CGAATGTGACCGTCGGTGA 60.081 57.895 24.45 11.59 35.25 4.02
781 784 0.665068 CGAATGTGACCGTCGGTGAA 60.665 55.000 24.45 7.01 35.25 3.18
782 785 1.722011 GAATGTGACCGTCGGTGAAT 58.278 50.000 24.45 9.43 35.25 2.57
783 786 2.073816 GAATGTGACCGTCGGTGAATT 58.926 47.619 24.45 17.38 35.25 2.17
784 787 2.178912 ATGTGACCGTCGGTGAATTT 57.821 45.000 24.45 0.00 35.25 1.82
785 788 1.956297 TGTGACCGTCGGTGAATTTT 58.044 45.000 24.45 0.00 35.25 1.82
786 789 2.290464 TGTGACCGTCGGTGAATTTTT 58.710 42.857 24.45 0.00 35.25 1.94
787 790 2.288458 TGTGACCGTCGGTGAATTTTTC 59.712 45.455 24.45 4.98 35.25 2.29
788 791 2.546789 GTGACCGTCGGTGAATTTTTCT 59.453 45.455 24.45 0.00 35.25 2.52
789 792 2.803956 TGACCGTCGGTGAATTTTTCTC 59.196 45.455 24.45 3.37 35.25 2.87
852 856 1.294659 CGAGAAGAACAGGCAGGCAC 61.295 60.000 0.00 0.00 0.00 5.01
884 888 2.203788 TGGCCAACGACTCCCTCT 60.204 61.111 0.61 0.00 0.00 3.69
982 989 0.828343 GAGATCCCCAGACCCTACGG 60.828 65.000 0.00 0.00 0.00 4.02
983 990 2.446036 ATCCCCAGACCCTACGGC 60.446 66.667 0.00 0.00 0.00 5.68
984 991 4.791069 TCCCCAGACCCTACGGCC 62.791 72.222 0.00 0.00 0.00 6.13
985 992 4.798682 CCCCAGACCCTACGGCCT 62.799 72.222 0.00 0.00 0.00 5.19
986 993 2.281091 CCCAGACCCTACGGCCTA 59.719 66.667 0.00 0.00 0.00 3.93
987 994 2.132352 CCCAGACCCTACGGCCTAC 61.132 68.421 0.00 0.00 0.00 3.18
1006 1013 2.745884 CGCGAGTTCCCATGGCAA 60.746 61.111 6.09 0.00 0.00 4.52
1266 1273 7.299787 TCGATGGTCGTGATATATACTGTAC 57.700 40.000 0.00 0.00 41.35 2.90
1335 1342 5.584649 TCATATGTTTTCTTGGCGGAACTAG 59.415 40.000 1.90 0.00 0.00 2.57
1459 1492 8.458843 AGCATATTATACCACGGCAATTATTTC 58.541 33.333 0.00 0.00 0.00 2.17
1663 1697 7.406031 AAAGTAGTACCGATTGATCTTGAGA 57.594 36.000 0.00 0.00 0.00 3.27
1670 1704 5.738909 ACCGATTGATCTTGAGATTTCAGT 58.261 37.500 0.00 0.00 34.37 3.41
1720 1754 6.642131 CAGAAAATGTTGGTGGATAGTGTTTG 59.358 38.462 0.00 0.00 0.00 2.93
1730 1764 2.749621 GGATAGTGTTTGGCCACAAGAG 59.250 50.000 3.88 0.00 37.97 2.85
1731 1765 3.412386 GATAGTGTTTGGCCACAAGAGT 58.588 45.455 3.88 7.61 37.97 3.24
1733 1767 3.290948 AGTGTTTGGCCACAAGAGTTA 57.709 42.857 3.88 0.00 37.97 2.24
1735 1769 3.380320 AGTGTTTGGCCACAAGAGTTAAC 59.620 43.478 3.88 5.16 37.97 2.01
1736 1770 3.380320 GTGTTTGGCCACAAGAGTTAACT 59.620 43.478 3.88 8.13 37.97 2.24
1737 1771 3.630312 TGTTTGGCCACAAGAGTTAACTC 59.370 43.478 25.24 25.24 43.17 3.01
1840 1877 7.400052 TGCTGTATCTTGCTGGATTCCTATATA 59.600 37.037 3.95 0.00 0.00 0.86
1841 1878 8.428063 GCTGTATCTTGCTGGATTCCTATATAT 58.572 37.037 3.95 0.00 0.00 0.86
1902 1939 8.420222 TCATTTTGGTTGAGATCAAAGCTTTAA 58.580 29.630 12.25 0.00 37.63 1.52
2082 2119 6.995091 ACATTATTCCTTTCTAGACATGCTCC 59.005 38.462 0.00 0.00 0.00 4.70
2280 2317 1.375326 GAAGTTCCCGAGCCAACCT 59.625 57.895 0.00 0.00 0.00 3.50
2361 2401 6.066690 AGTGCCATAATACATGATTTCTGCT 58.933 36.000 0.00 0.00 0.00 4.24
2519 2560 2.521958 TAGCCCTTCCAAGCACTCGC 62.522 60.000 0.00 0.00 38.99 5.03
2657 2699 5.423015 TCTGGATTTGCTTGAGTACTGATC 58.577 41.667 0.00 0.00 0.00 2.92
2882 2924 2.038557 CCTACATCCCAATAACCTCGGG 59.961 54.545 0.00 0.00 41.76 5.14
2982 3024 4.097892 CCACTATACCAAATTGAAGTGCCC 59.902 45.833 0.00 0.00 34.41 5.36
2985 3027 1.047801 ACCAAATTGAAGTGCCCCAC 58.952 50.000 0.00 0.00 34.10 4.61
3142 3189 7.296660 GCCGAATCTTATTCTGATCAATTGAG 58.703 38.462 14.54 0.40 0.00 3.02
3206 3253 0.528017 CTGCGCTCAGGTAGTTCTCA 59.472 55.000 9.73 0.00 36.68 3.27
3725 3772 8.879759 CAACATTTGGTAGTACTACACATAAGG 58.120 37.037 29.38 20.36 37.78 2.69
3941 3988 7.710907 TGATTATTTGAGAGGGAATGTTAGTCG 59.289 37.037 0.00 0.00 0.00 4.18
3986 4033 5.068987 GCAAAAATGCTATTACCTCCATCCA 59.931 40.000 0.00 0.00 0.00 3.41
4156 4226 1.004927 GCACGCACCTATTCGTTGATC 60.005 52.381 0.00 0.00 36.73 2.92
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
103 104 0.904649 TGAGTTCTCGTGATGCCCAT 59.095 50.000 0.00 0.00 0.00 4.00
254 255 2.900546 TCGCTTTCTTCCCTTCTCTTCT 59.099 45.455 0.00 0.00 0.00 2.85
269 270 2.165845 AGGTACGTCATTAGCTCGCTTT 59.834 45.455 0.00 0.00 0.00 3.51
567 569 2.429478 CTCCCACCCGTTTTATTTCGT 58.571 47.619 0.00 0.00 0.00 3.85
629 631 2.417586 CGGGTTTATTTTCGTCTCACCC 59.582 50.000 0.00 0.00 39.31 4.61
634 636 3.364267 GCGTTTCGGGTTTATTTTCGTCT 60.364 43.478 0.00 0.00 0.00 4.18
714 717 5.242434 TGAGTATGCACGTGGAGTATTTTT 58.758 37.500 18.88 0.00 0.00 1.94
715 718 4.827692 TGAGTATGCACGTGGAGTATTTT 58.172 39.130 18.88 0.09 0.00 1.82
716 719 4.465632 TGAGTATGCACGTGGAGTATTT 57.534 40.909 18.88 0.92 0.00 1.40
717 720 4.465632 TTGAGTATGCACGTGGAGTATT 57.534 40.909 18.88 1.35 0.00 1.89
718 721 4.465632 TTTGAGTATGCACGTGGAGTAT 57.534 40.909 18.88 3.87 0.00 2.12
719 722 3.945981 TTTGAGTATGCACGTGGAGTA 57.054 42.857 18.88 6.41 0.00 2.59
720 723 2.831685 TTTGAGTATGCACGTGGAGT 57.168 45.000 18.88 7.42 0.00 3.85
745 748 2.721425 TCGTCCCCAAAGTTCACTTT 57.279 45.000 0.00 0.00 46.23 2.66
746 749 2.721425 TTCGTCCCCAAAGTTCACTT 57.279 45.000 0.00 0.00 37.91 3.16
747 750 2.158667 ACATTCGTCCCCAAAGTTCACT 60.159 45.455 0.00 0.00 0.00 3.41
748 751 2.031157 CACATTCGTCCCCAAAGTTCAC 60.031 50.000 0.00 0.00 0.00 3.18
749 752 2.158740 TCACATTCGTCCCCAAAGTTCA 60.159 45.455 0.00 0.00 0.00 3.18
750 753 2.225727 GTCACATTCGTCCCCAAAGTTC 59.774 50.000 0.00 0.00 0.00 3.01
751 754 2.227194 GTCACATTCGTCCCCAAAGTT 58.773 47.619 0.00 0.00 0.00 2.66
752 755 1.544759 GGTCACATTCGTCCCCAAAGT 60.545 52.381 0.00 0.00 0.00 2.66
753 756 1.165270 GGTCACATTCGTCCCCAAAG 58.835 55.000 0.00 0.00 0.00 2.77
754 757 0.604243 CGGTCACATTCGTCCCCAAA 60.604 55.000 0.00 0.00 0.00 3.28
755 758 1.004320 CGGTCACATTCGTCCCCAA 60.004 57.895 0.00 0.00 0.00 4.12
756 759 2.162338 GACGGTCACATTCGTCCCCA 62.162 60.000 2.62 0.00 46.79 4.96
757 760 1.447314 GACGGTCACATTCGTCCCC 60.447 63.158 2.62 0.00 46.79 4.81
758 761 4.180496 GACGGTCACATTCGTCCC 57.820 61.111 2.62 0.00 46.79 4.46
761 764 1.372499 CACCGACGGTCACATTCGT 60.372 57.895 18.72 0.00 42.67 3.85
762 765 0.665068 TTCACCGACGGTCACATTCG 60.665 55.000 18.72 4.03 31.02 3.34
763 766 1.722011 ATTCACCGACGGTCACATTC 58.278 50.000 18.72 0.00 31.02 2.67
764 767 2.178912 AATTCACCGACGGTCACATT 57.821 45.000 18.72 12.37 31.02 2.71
765 768 2.178912 AAATTCACCGACGGTCACAT 57.821 45.000 18.72 6.42 31.02 3.21
766 769 1.956297 AAAATTCACCGACGGTCACA 58.044 45.000 18.72 3.96 31.02 3.58
767 770 2.546789 AGAAAAATTCACCGACGGTCAC 59.453 45.455 18.72 2.69 31.02 3.67
768 771 2.803956 GAGAAAAATTCACCGACGGTCA 59.196 45.455 18.72 0.00 31.02 4.02
769 772 2.159037 GGAGAAAAATTCACCGACGGTC 59.841 50.000 18.72 2.96 31.02 4.79
770 773 2.148768 GGAGAAAAATTCACCGACGGT 58.851 47.619 15.37 15.37 35.62 4.83
771 774 2.095919 GTGGAGAAAAATTCACCGACGG 60.096 50.000 13.61 13.61 42.51 4.79
772 775 2.411031 CGTGGAGAAAAATTCACCGACG 60.411 50.000 12.70 12.70 42.51 5.12
773 776 2.546789 ACGTGGAGAAAAATTCACCGAC 59.453 45.455 0.00 2.29 42.51 4.79
774 777 2.546368 CACGTGGAGAAAAATTCACCGA 59.454 45.455 7.95 0.00 42.51 4.69
775 778 2.916111 CACGTGGAGAAAAATTCACCG 58.084 47.619 7.95 0.00 42.51 4.94
776 779 2.661594 GCACGTGGAGAAAAATTCACC 58.338 47.619 18.88 0.31 40.36 4.02
777 780 2.032377 TCGCACGTGGAGAAAAATTCAC 60.032 45.455 18.88 0.00 0.00 3.18
778 781 2.032377 GTCGCACGTGGAGAAAAATTCA 60.032 45.455 18.88 0.00 0.00 2.57
779 782 2.223377 AGTCGCACGTGGAGAAAAATTC 59.777 45.455 18.88 0.00 0.00 2.17
780 783 2.218603 AGTCGCACGTGGAGAAAAATT 58.781 42.857 18.88 0.00 0.00 1.82
781 784 1.878953 AGTCGCACGTGGAGAAAAAT 58.121 45.000 18.88 0.00 0.00 1.82
782 785 1.329292 CAAGTCGCACGTGGAGAAAAA 59.671 47.619 18.88 0.00 0.00 1.94
783 786 0.934496 CAAGTCGCACGTGGAGAAAA 59.066 50.000 18.88 0.00 0.00 2.29
784 787 1.495584 GCAAGTCGCACGTGGAGAAA 61.496 55.000 18.88 0.00 41.79 2.52
785 788 1.954146 GCAAGTCGCACGTGGAGAA 60.954 57.895 18.88 0.00 41.79 2.87
786 789 2.355837 GCAAGTCGCACGTGGAGA 60.356 61.111 18.88 2.43 41.79 3.71
787 790 1.956170 AAGCAAGTCGCACGTGGAG 60.956 57.895 18.88 0.00 46.13 3.86
788 791 2.108157 AAGCAAGTCGCACGTGGA 59.892 55.556 18.88 10.14 46.13 4.02
789 792 2.249309 CAAGCAAGTCGCACGTGG 59.751 61.111 18.88 7.71 46.13 4.94
852 856 3.111939 CCACTCGGCTACTCCTCG 58.888 66.667 0.00 0.00 0.00 4.63
983 990 3.426117 ATGGGAACTCGCGCGTAGG 62.426 63.158 30.98 21.91 0.00 3.18
984 991 2.104331 ATGGGAACTCGCGCGTAG 59.896 61.111 30.98 25.63 0.00 3.51
985 992 2.202690 CATGGGAACTCGCGCGTA 60.203 61.111 30.98 15.53 0.00 4.42
1209 1216 6.619329 AATTCTAGAATCTAGATCCAGGGC 57.381 41.667 19.49 0.00 0.00 5.19
1266 1273 3.865745 CAGCCACTCTCCTACGTAATTTG 59.134 47.826 0.00 0.00 0.00 2.32
1307 1314 4.509970 TCCGCCAAGAAAACATATGATACG 59.490 41.667 10.38 0.27 0.00 3.06
1335 1342 3.935828 GCTTAGACAGAACAGTTCCCATC 59.064 47.826 9.85 5.44 0.00 3.51
1441 1449 6.995686 TCATGTAGAAATAATTGCCGTGGTAT 59.004 34.615 0.00 0.00 0.00 2.73
1442 1450 6.350103 TCATGTAGAAATAATTGCCGTGGTA 58.650 36.000 0.00 0.00 0.00 3.25
1479 1512 1.955778 CCAGGAACACTCACATTTGCA 59.044 47.619 0.00 0.00 0.00 4.08
1480 1513 2.229792 TCCAGGAACACTCACATTTGC 58.770 47.619 0.00 0.00 0.00 3.68
1670 1704 6.428295 CCACCCAACCCTTAATTAAGTGATA 58.572 40.000 20.99 0.00 0.00 2.15
1730 1764 9.217278 CCTTTTAGAGTCCCTTTTAGAGTTAAC 57.783 37.037 0.00 0.00 0.00 2.01
1731 1765 8.380867 CCCTTTTAGAGTCCCTTTTAGAGTTAA 58.619 37.037 0.00 0.00 0.00 2.01
1733 1767 6.240205 CCCCTTTTAGAGTCCCTTTTAGAGTT 60.240 42.308 0.00 0.00 0.00 3.01
1735 1769 5.251005 ACCCCTTTTAGAGTCCCTTTTAGAG 59.749 44.000 0.00 0.00 0.00 2.43
1736 1770 5.013808 CACCCCTTTTAGAGTCCCTTTTAGA 59.986 44.000 0.00 0.00 0.00 2.10
1737 1771 5.222068 ACACCCCTTTTAGAGTCCCTTTTAG 60.222 44.000 0.00 0.00 0.00 1.85
1740 1774 3.061369 ACACCCCTTTTAGAGTCCCTTT 58.939 45.455 0.00 0.00 0.00 3.11
1742 1776 2.435203 ACACCCCTTTTAGAGTCCCT 57.565 50.000 0.00 0.00 0.00 4.20
1744 1778 4.904895 AACTACACCCCTTTTAGAGTCC 57.095 45.455 0.00 0.00 0.00 3.85
1868 1905 5.534207 TCTCAACCAAAATGACATTTGCT 57.466 34.783 14.05 0.00 38.64 3.91
1902 1939 6.011122 AGCATGGAGAGAGGTGATATTTTT 57.989 37.500 0.00 0.00 0.00 1.94
2063 2100 2.168521 CCGGAGCATGTCTAGAAAGGAA 59.831 50.000 0.00 0.00 0.00 3.36
2280 2317 1.688735 CTCTTCACCAGTCACCACAGA 59.311 52.381 0.00 0.00 0.00 3.41
2361 2401 7.422089 GGTATCATTACCAAAAGGGATCCCTAA 60.422 40.741 34.08 22.51 45.45 2.69
2519 2560 3.589988 ACAACAGTTCGAGCCATTCTAG 58.410 45.455 0.00 0.00 0.00 2.43
2619 2661 1.207811 TCCAGATGCGCAAAGATCAGA 59.792 47.619 17.11 5.77 0.00 3.27
3206 3253 6.428159 AGCTGAAACACGATAAAGAGACAATT 59.572 34.615 0.00 0.00 0.00 2.32
3248 3295 0.535797 GGGAAGTGGTAAGGAGGACG 59.464 60.000 0.00 0.00 0.00 4.79
3725 3772 3.855689 AATGTTGGCTGCTACATTGAC 57.144 42.857 23.03 5.60 41.90 3.18
3986 4033 8.885722 TGAACTAAAACAACGTCACTTATTTCT 58.114 29.630 0.00 0.00 0.00 2.52
4077 4147 2.568509 ACTCCCTCCGTTCGGAAATAAA 59.431 45.455 14.79 0.00 33.41 1.40
4128 4198 3.555956 CGAATAGGTGCGTGCTTAGATTT 59.444 43.478 0.00 0.00 0.00 2.17
4212 4283 5.599999 AGAAATCTAGCCAATGACGTACT 57.400 39.130 0.00 0.00 0.00 2.73


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

AutoCloner maintained by Alex Coulton.