Multiple sequence alignment - TraesCS4D01G130200

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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 TraesCS4D01G130200 chr4D 100.000 2737 0 0 1 2737 116154810 116152074 0.000000e+00 5055.0
1 TraesCS4D01G130200 chr4B 93.258 1943 71 23 826 2733 177862171 177860254 0.000000e+00 2808.0
2 TraesCS4D01G130200 chr4A 97.323 1345 34 2 914 2257 460448731 460450074 0.000000e+00 2283.0
3 TraesCS4D01G130200 chr4A 94.845 194 8 2 2542 2733 460450501 460450694 4.430000e-78 302.0
4 TraesCS4D01G130200 chr4A 94.444 90 3 2 826 915 460448617 460448704 1.320000e-28 137.0
5 TraesCS4D01G130200 chr4A 95.122 82 2 2 2242 2323 460450252 460450331 7.960000e-26 128.0
6 TraesCS4D01G130200 chr4A 100.000 28 0 0 2261 2288 76903572 76903599 5.000000e-03 52.8
7 TraesCS4D01G130200 chr6D 91.265 767 67 0 1 767 266767074 266767840 0.000000e+00 1046.0
8 TraesCS4D01G130200 chr3D 91.169 770 66 2 1 769 433434820 433435588 0.000000e+00 1044.0
9 TraesCS4D01G130200 chr3D 90.222 767 72 3 1 767 310695051 310694288 0.000000e+00 998.0
10 TraesCS4D01G130200 chr7D 91.027 769 69 0 1 769 53630177 53629409 0.000000e+00 1038.0
11 TraesCS4D01G130200 chr7D 90.222 767 75 0 1 767 521714427 521713661 0.000000e+00 1002.0
12 TraesCS4D01G130200 chr5D 90.377 769 73 1 1 769 480852430 480853197 0.000000e+00 1009.0
13 TraesCS4D01G130200 chr5D 86.631 374 34 6 1055 1418 249981049 249981416 1.530000e-107 399.0
14 TraesCS4D01G130200 chr7A 90.155 772 74 2 1 770 274248313 274247542 0.000000e+00 1003.0
15 TraesCS4D01G130200 chr1D 90.143 771 71 4 1 770 33842247 33841481 0.000000e+00 998.0
16 TraesCS4D01G130200 chr1D 100.000 28 0 0 2334 2361 98834914 98834887 5.000000e-03 52.8
17 TraesCS4D01G130200 chr1B 89.870 770 76 2 1 769 673608292 673609060 0.000000e+00 989.0
18 TraesCS4D01G130200 chr5A 86.559 372 37 6 1054 1418 332719478 332719843 5.490000e-107 398.0
19 TraesCS4D01G130200 chr5A 95.556 45 2 0 2314 2358 55159020 55159064 3.780000e-09 73.1
20 TraesCS4D01G130200 chr5B 86.253 371 41 7 1055 1418 282847332 282847699 7.100000e-106 394.0
21 TraesCS4D01G130200 chr6B 95.745 47 2 0 2314 2360 143769990 143769944 2.920000e-10 76.8
22 TraesCS4D01G130200 chr6B 95.349 43 2 0 2314 2356 700090432 700090390 4.890000e-08 69.4
23 TraesCS4D01G130200 chr2A 93.878 49 3 0 2314 2362 615347681 615347633 1.050000e-09 75.0
24 TraesCS4D01G130200 chr7B 95.556 45 2 0 2314 2358 727606993 727607037 3.780000e-09 73.1
25 TraesCS4D01G130200 chr7B 88.679 53 4 2 2319 2371 659404241 659404291 2.280000e-06 63.9
26 TraesCS4D01G130200 chr2B 80.769 78 9 5 2289 2360 72603598 72603675 3.810000e-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 TraesCS4D01G130200 chr4D 116152074 116154810 2736 True 5055.0 5055 100.0000 1 2737 1 chr4D.!!$R1 2736
1 TraesCS4D01G130200 chr4B 177860254 177862171 1917 True 2808.0 2808 93.2580 826 2733 1 chr4B.!!$R1 1907
2 TraesCS4D01G130200 chr4A 460448617 460450694 2077 False 712.5 2283 95.4335 826 2733 4 chr4A.!!$F2 1907
3 TraesCS4D01G130200 chr6D 266767074 266767840 766 False 1046.0 1046 91.2650 1 767 1 chr6D.!!$F1 766
4 TraesCS4D01G130200 chr3D 433434820 433435588 768 False 1044.0 1044 91.1690 1 769 1 chr3D.!!$F1 768
5 TraesCS4D01G130200 chr3D 310694288 310695051 763 True 998.0 998 90.2220 1 767 1 chr3D.!!$R1 766
6 TraesCS4D01G130200 chr7D 53629409 53630177 768 True 1038.0 1038 91.0270 1 769 1 chr7D.!!$R1 768
7 TraesCS4D01G130200 chr7D 521713661 521714427 766 True 1002.0 1002 90.2220 1 767 1 chr7D.!!$R2 766
8 TraesCS4D01G130200 chr5D 480852430 480853197 767 False 1009.0 1009 90.3770 1 769 1 chr5D.!!$F2 768
9 TraesCS4D01G130200 chr7A 274247542 274248313 771 True 1003.0 1003 90.1550 1 770 1 chr7A.!!$R1 769
10 TraesCS4D01G130200 chr1D 33841481 33842247 766 True 998.0 998 90.1430 1 770 1 chr1D.!!$R1 769
11 TraesCS4D01G130200 chr1B 673608292 673609060 768 False 989.0 989 89.8700 1 769 1 chr1B.!!$F1 768

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
93 94 0.526662 GCCGATGGTACCTATCCTCG 59.473 60.0 14.36 12.68 0.0 4.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1808 1850 3.006323 AGTGACACAGAAGCTCGAGAAAT 59.994 43.478 18.75 0.0 0.0 2.17 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
43 44 2.143122 CTGTGCAACTACACCGTCAAT 58.857 47.619 0.00 0.00 39.93 2.57
58 59 2.680805 CGTCAATGGCTGGGACTACAAT 60.681 50.000 0.00 0.00 0.00 2.71
93 94 0.526662 GCCGATGGTACCTATCCTCG 59.473 60.000 14.36 12.68 0.00 4.63
128 129 2.101582 GTGAAGACCATATCTGAGCCGT 59.898 50.000 0.00 0.00 37.88 5.68
182 183 1.614241 GGAAGCGGCTAGGAAGGACA 61.614 60.000 1.35 0.00 0.00 4.02
319 320 2.159179 TGATTGTCGAGGATGAGGGA 57.841 50.000 0.00 0.00 0.00 4.20
329 330 3.309296 GAGGATGAGGGAGATGGTGTAA 58.691 50.000 0.00 0.00 0.00 2.41
330 331 3.711704 GAGGATGAGGGAGATGGTGTAAA 59.288 47.826 0.00 0.00 0.00 2.01
354 355 2.198827 ACCCATGATTTCGAAGCACA 57.801 45.000 0.00 0.75 0.00 4.57
386 387 6.072119 ACAAGTTGAAATCCCGGAAGATTAAC 60.072 38.462 10.54 6.97 35.40 2.01
474 476 5.220359 CGCAACTACTCAATGATCTTGTGAG 60.220 44.000 15.18 15.18 43.61 3.51
610 612 3.076621 ACATTGTGTTGCATGATCGACT 58.923 40.909 0.00 0.00 0.00 4.18
684 687 2.230660 GAAGAAAATATGAGGGCCCGG 58.769 52.381 18.44 0.00 0.00 5.73
770 775 4.214545 AGTTCGATCGTAGATGCTCTAAGG 59.785 45.833 15.94 0.00 45.12 2.69
771 776 3.075148 TCGATCGTAGATGCTCTAAGGG 58.925 50.000 15.94 0.00 45.12 3.95
772 777 2.162608 CGATCGTAGATGCTCTAAGGGG 59.837 54.545 7.03 0.00 45.12 4.79
773 778 2.750141 TCGTAGATGCTCTAAGGGGT 57.250 50.000 6.39 0.00 30.90 4.95
774 779 2.584236 TCGTAGATGCTCTAAGGGGTC 58.416 52.381 6.39 0.00 30.90 4.46
775 780 2.092049 TCGTAGATGCTCTAAGGGGTCA 60.092 50.000 6.39 0.00 30.90 4.02
776 781 2.693591 CGTAGATGCTCTAAGGGGTCAA 59.306 50.000 0.00 0.00 29.58 3.18
777 782 3.132289 CGTAGATGCTCTAAGGGGTCAAA 59.868 47.826 0.00 0.00 29.58 2.69
778 783 4.382685 CGTAGATGCTCTAAGGGGTCAAAA 60.383 45.833 0.00 0.00 29.58 2.44
779 784 4.657814 AGATGCTCTAAGGGGTCAAAAA 57.342 40.909 0.00 0.00 0.00 1.94
780 785 4.593956 AGATGCTCTAAGGGGTCAAAAAG 58.406 43.478 0.00 0.00 0.00 2.27
781 786 3.876309 TGCTCTAAGGGGTCAAAAAGT 57.124 42.857 0.00 0.00 0.00 2.66
782 787 4.986054 TGCTCTAAGGGGTCAAAAAGTA 57.014 40.909 0.00 0.00 0.00 2.24
783 788 5.313280 TGCTCTAAGGGGTCAAAAAGTAA 57.687 39.130 0.00 0.00 0.00 2.24
784 789 5.313712 TGCTCTAAGGGGTCAAAAAGTAAG 58.686 41.667 0.00 0.00 0.00 2.34
785 790 4.156190 GCTCTAAGGGGTCAAAAAGTAAGC 59.844 45.833 0.00 0.00 0.00 3.09
786 791 4.659115 TCTAAGGGGTCAAAAAGTAAGCC 58.341 43.478 0.00 0.00 0.00 4.35
787 792 3.322191 AAGGGGTCAAAAAGTAAGCCA 57.678 42.857 0.00 0.00 32.14 4.75
788 793 3.542969 AGGGGTCAAAAAGTAAGCCAT 57.457 42.857 0.00 0.00 32.14 4.40
789 794 3.165071 AGGGGTCAAAAAGTAAGCCATG 58.835 45.455 0.00 0.00 32.14 3.66
790 795 2.897326 GGGGTCAAAAAGTAAGCCATGT 59.103 45.455 0.00 0.00 32.14 3.21
791 796 3.056821 GGGGTCAAAAAGTAAGCCATGTC 60.057 47.826 0.00 0.00 32.14 3.06
792 797 3.056821 GGGTCAAAAAGTAAGCCATGTCC 60.057 47.826 0.00 0.00 0.00 4.02
793 798 3.572255 GGTCAAAAAGTAAGCCATGTCCA 59.428 43.478 0.00 0.00 0.00 4.02
794 799 4.220602 GGTCAAAAAGTAAGCCATGTCCAT 59.779 41.667 0.00 0.00 0.00 3.41
795 800 5.279456 GGTCAAAAAGTAAGCCATGTCCATT 60.279 40.000 0.00 0.00 0.00 3.16
796 801 5.634859 GTCAAAAAGTAAGCCATGTCCATTG 59.365 40.000 0.00 0.00 0.00 2.82
797 802 5.304101 TCAAAAAGTAAGCCATGTCCATTGT 59.696 36.000 0.00 0.00 0.00 2.71
798 803 5.391312 AAAAGTAAGCCATGTCCATTGTC 57.609 39.130 0.00 0.00 0.00 3.18
799 804 3.004752 AGTAAGCCATGTCCATTGTCC 57.995 47.619 0.00 0.00 0.00 4.02
800 805 2.308570 AGTAAGCCATGTCCATTGTCCA 59.691 45.455 0.00 0.00 0.00 4.02
801 806 1.843368 AAGCCATGTCCATTGTCCAG 58.157 50.000 0.00 0.00 0.00 3.86
802 807 0.700564 AGCCATGTCCATTGTCCAGT 59.299 50.000 0.00 0.00 0.00 4.00
803 808 0.813184 GCCATGTCCATTGTCCAGTG 59.187 55.000 0.00 0.00 0.00 3.66
804 809 1.614051 GCCATGTCCATTGTCCAGTGA 60.614 52.381 0.00 0.00 0.00 3.41
805 810 2.794103 CCATGTCCATTGTCCAGTGAA 58.206 47.619 0.00 0.00 0.00 3.18
806 811 2.751259 CCATGTCCATTGTCCAGTGAAG 59.249 50.000 0.00 0.00 0.00 3.02
807 812 3.559811 CCATGTCCATTGTCCAGTGAAGA 60.560 47.826 0.00 0.00 0.00 2.87
808 813 3.407424 TGTCCATTGTCCAGTGAAGAG 57.593 47.619 0.00 0.00 0.00 2.85
809 814 2.972021 TGTCCATTGTCCAGTGAAGAGA 59.028 45.455 0.00 0.00 0.00 3.10
810 815 3.390967 TGTCCATTGTCCAGTGAAGAGAA 59.609 43.478 0.00 0.00 0.00 2.87
811 816 4.141505 TGTCCATTGTCCAGTGAAGAGAAA 60.142 41.667 0.00 0.00 0.00 2.52
812 817 4.821805 GTCCATTGTCCAGTGAAGAGAAAA 59.178 41.667 0.00 0.00 0.00 2.29
813 818 5.049129 GTCCATTGTCCAGTGAAGAGAAAAG 60.049 44.000 0.00 0.00 0.00 2.27
814 819 4.823989 CCATTGTCCAGTGAAGAGAAAAGT 59.176 41.667 0.00 0.00 0.00 2.66
815 820 5.997746 CCATTGTCCAGTGAAGAGAAAAGTA 59.002 40.000 0.00 0.00 0.00 2.24
816 821 6.148480 CCATTGTCCAGTGAAGAGAAAAGTAG 59.852 42.308 0.00 0.00 0.00 2.57
817 822 6.479972 TTGTCCAGTGAAGAGAAAAGTAGA 57.520 37.500 0.00 0.00 0.00 2.59
818 823 6.090483 TGTCCAGTGAAGAGAAAAGTAGAG 57.910 41.667 0.00 0.00 0.00 2.43
819 824 5.598830 TGTCCAGTGAAGAGAAAAGTAGAGT 59.401 40.000 0.00 0.00 0.00 3.24
820 825 6.098409 TGTCCAGTGAAGAGAAAAGTAGAGTT 59.902 38.462 0.00 0.00 0.00 3.01
821 826 6.987404 GTCCAGTGAAGAGAAAAGTAGAGTTT 59.013 38.462 0.00 0.00 0.00 2.66
822 827 7.496263 GTCCAGTGAAGAGAAAAGTAGAGTTTT 59.504 37.037 0.00 0.00 32.18 2.43
823 828 7.711339 TCCAGTGAAGAGAAAAGTAGAGTTTTC 59.289 37.037 12.67 12.67 43.81 2.29
842 847 8.107196 AGTTTTCTAAATGATATGAGGGAGGT 57.893 34.615 0.00 0.00 0.00 3.85
1431 1470 1.002624 TGATCAACCCGGTTCCTGC 60.003 57.895 0.00 0.00 0.00 4.85
1432 1471 1.299976 GATCAACCCGGTTCCTGCT 59.700 57.895 0.00 0.00 0.00 4.24
1433 1472 0.744771 GATCAACCCGGTTCCTGCTC 60.745 60.000 0.00 0.00 0.00 4.26
1434 1473 2.198304 ATCAACCCGGTTCCTGCTCC 62.198 60.000 0.00 0.00 0.00 4.70
1435 1474 2.529389 AACCCGGTTCCTGCTCCT 60.529 61.111 0.00 0.00 0.00 3.69
1436 1475 2.895424 AACCCGGTTCCTGCTCCTG 61.895 63.158 0.00 0.00 0.00 3.86
1440 1479 1.237285 CCGGTTCCTGCTCCTGTTTG 61.237 60.000 0.00 0.00 0.00 2.93
1449 1488 2.614057 CTGCTCCTGTTTGTTCTTCGTT 59.386 45.455 0.00 0.00 0.00 3.85
1710 1749 2.288457 TGCATCTCGCTAGCTTCATACC 60.288 50.000 13.93 0.00 43.06 2.73
1733 1775 6.482308 ACCTTGCTTAATTAAGTACCTATGCG 59.518 38.462 22.94 6.51 35.75 4.73
1737 1779 7.499292 TGCTTAATTAAGTACCTATGCGGTTA 58.501 34.615 22.94 0.00 37.98 2.85
1785 1827 3.809905 AGAGAACTGGTTGTTTCTGTCC 58.190 45.455 0.00 0.00 39.30 4.02
1787 1829 2.093128 AGAACTGGTTGTTTCTGTCCGT 60.093 45.455 0.00 0.00 39.30 4.69
1805 1847 4.452455 GTCCGTTAATTAGGCATCTCATGG 59.548 45.833 0.00 0.00 0.00 3.66
1808 1850 5.995282 CCGTTAATTAGGCATCTCATGGTTA 59.005 40.000 0.00 0.00 0.00 2.85
1970 2014 2.749076 TGGTGGAAATTCTGCTCAATCG 59.251 45.455 0.00 0.00 0.00 3.34
2269 2504 8.402798 TGGCAAGATAATTTACAAGAACAAGA 57.597 30.769 0.00 0.00 0.00 3.02
2270 2505 8.855110 TGGCAAGATAATTTACAAGAACAAGAA 58.145 29.630 0.00 0.00 0.00 2.52
2271 2506 9.129209 GGCAAGATAATTTACAAGAACAAGAAC 57.871 33.333 0.00 0.00 0.00 3.01
2272 2507 9.677567 GCAAGATAATTTACAAGAACAAGAACA 57.322 29.630 0.00 0.00 0.00 3.18
2296 2537 7.786943 ACAAGAGATGTCTAATATTCCCTCTGA 59.213 37.037 0.00 0.00 37.96 3.27
2303 2544 6.389869 TGTCTAATATTCCCTCTGACCCAAAT 59.610 38.462 0.00 0.00 0.00 2.32
2361 2685 4.748277 TTTGGAACGGAGGGAGTATTAG 57.252 45.455 0.00 0.00 0.00 1.73
2392 2716 9.855021 CTTTTTATATGGAGGTTAGGTTTGTTG 57.145 33.333 0.00 0.00 0.00 3.33
2480 2805 9.129209 GTTATTCTTGTGAATTGCTTTTCTACC 57.871 33.333 0.00 0.00 42.37 3.18
2484 2809 7.425606 TCTTGTGAATTGCTTTTCTACCTTTC 58.574 34.615 0.00 0.00 0.00 2.62
2495 2820 5.759506 TTTCTACCTTTCGACAAAATGCA 57.240 34.783 0.00 0.00 0.00 3.96
2498 2823 1.052287 CCTTTCGACAAAATGCACGC 58.948 50.000 0.00 0.00 0.00 5.34
2507 2832 3.987220 GACAAAATGCACGCTAATTTGGT 59.013 39.130 14.55 6.97 33.54 3.67
2538 2864 4.381292 GCTCTGCTTATTTTCTTGTGGCAT 60.381 41.667 0.00 0.00 0.00 4.40
2543 2869 5.655974 TGCTTATTTTCTTGTGGCATCCATA 59.344 36.000 0.00 0.00 35.28 2.74
2551 2877 1.415289 TGTGGCATCCATAGCTCAGAG 59.585 52.381 0.00 0.00 35.28 3.35
2560 2886 4.293494 TCCATAGCTCAGAGAACCTCAAT 58.707 43.478 0.00 0.00 32.06 2.57
2616 2945 6.594937 GTGATTGTTTAGGGGTAACGTATCAA 59.405 38.462 0.00 0.00 34.19 2.57
2655 2984 4.501915 CCAAGGTTTTGATGTGAACAGCAT 60.502 41.667 1.73 0.00 42.26 3.79
2733 3062 8.777865 TCATTGATTCGTCATTAGAAGTTCTT 57.222 30.769 11.40 0.00 0.00 2.52
2734 3063 9.219603 TCATTGATTCGTCATTAGAAGTTCTTT 57.780 29.630 11.40 0.00 0.00 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
43 44 1.774254 CCCATATTGTAGTCCCAGCCA 59.226 52.381 0.00 0.00 0.00 4.75
58 59 3.247948 TCGGCAAGATAGTACCCCATA 57.752 47.619 0.00 0.00 0.00 2.74
84 85 3.616721 CCGCCCACCGAGGATAGG 61.617 72.222 0.00 0.00 41.22 2.57
128 129 4.032960 AGTGGATCTGTTTATTGCCACA 57.967 40.909 11.81 0.00 46.15 4.17
182 183 0.706433 ACACCAAATGCCCTCTCCAT 59.294 50.000 0.00 0.00 0.00 3.41
329 330 3.306019 GCTTCGAAATCATGGGTTTGGTT 60.306 43.478 0.00 0.00 0.00 3.67
330 331 2.231235 GCTTCGAAATCATGGGTTTGGT 59.769 45.455 0.00 0.00 0.00 3.67
354 355 3.146847 GGGATTTCAACTTGTTCTCCGT 58.853 45.455 0.00 0.00 0.00 4.69
386 387 2.679837 AGTTCATAAGTTGAGCCGCATG 59.320 45.455 0.00 0.00 36.29 4.06
454 456 4.223700 TGCCTCACAAGATCATTGAGTAGT 59.776 41.667 13.95 0.00 35.89 2.73
770 775 3.056821 GGACATGGCTTACTTTTTGACCC 60.057 47.826 0.00 0.00 0.00 4.46
771 776 3.572255 TGGACATGGCTTACTTTTTGACC 59.428 43.478 0.00 0.00 0.00 4.02
772 777 4.846779 TGGACATGGCTTACTTTTTGAC 57.153 40.909 0.00 0.00 0.00 3.18
773 778 5.304101 ACAATGGACATGGCTTACTTTTTGA 59.696 36.000 0.00 0.00 0.00 2.69
774 779 5.540911 ACAATGGACATGGCTTACTTTTTG 58.459 37.500 0.00 0.00 0.00 2.44
775 780 5.279456 GGACAATGGACATGGCTTACTTTTT 60.279 40.000 0.00 0.00 0.00 1.94
776 781 4.220602 GGACAATGGACATGGCTTACTTTT 59.779 41.667 0.00 0.00 0.00 2.27
777 782 3.763897 GGACAATGGACATGGCTTACTTT 59.236 43.478 0.00 0.00 0.00 2.66
778 783 3.245229 TGGACAATGGACATGGCTTACTT 60.245 43.478 0.00 0.00 0.00 2.24
779 784 2.308570 TGGACAATGGACATGGCTTACT 59.691 45.455 0.00 0.00 0.00 2.24
780 785 2.684881 CTGGACAATGGACATGGCTTAC 59.315 50.000 0.00 0.00 0.00 2.34
781 786 2.308570 ACTGGACAATGGACATGGCTTA 59.691 45.455 0.00 0.00 0.00 3.09
782 787 1.076024 ACTGGACAATGGACATGGCTT 59.924 47.619 0.00 0.00 0.00 4.35
783 788 0.700564 ACTGGACAATGGACATGGCT 59.299 50.000 0.00 0.00 0.00 4.75
784 789 0.813184 CACTGGACAATGGACATGGC 59.187 55.000 0.00 0.00 0.00 4.40
785 790 2.495155 TCACTGGACAATGGACATGG 57.505 50.000 0.00 0.00 0.00 3.66
786 791 3.678289 TCTTCACTGGACAATGGACATG 58.322 45.455 0.00 0.00 0.00 3.21
787 792 3.584406 TCTCTTCACTGGACAATGGACAT 59.416 43.478 0.00 0.00 0.00 3.06
788 793 2.972021 TCTCTTCACTGGACAATGGACA 59.028 45.455 0.00 0.00 0.00 4.02
789 794 3.685139 TCTCTTCACTGGACAATGGAC 57.315 47.619 0.00 0.00 0.00 4.02
790 795 4.705110 TTTCTCTTCACTGGACAATGGA 57.295 40.909 0.00 0.00 0.00 3.41
791 796 4.823989 ACTTTTCTCTTCACTGGACAATGG 59.176 41.667 0.00 0.00 0.00 3.16
792 797 6.931281 TCTACTTTTCTCTTCACTGGACAATG 59.069 38.462 0.00 0.00 0.00 2.82
793 798 7.067496 TCTACTTTTCTCTTCACTGGACAAT 57.933 36.000 0.00 0.00 0.00 2.71
794 799 6.098409 ACTCTACTTTTCTCTTCACTGGACAA 59.902 38.462 0.00 0.00 0.00 3.18
795 800 5.598830 ACTCTACTTTTCTCTTCACTGGACA 59.401 40.000 0.00 0.00 0.00 4.02
796 801 6.091718 ACTCTACTTTTCTCTTCACTGGAC 57.908 41.667 0.00 0.00 0.00 4.02
797 802 6.732896 AACTCTACTTTTCTCTTCACTGGA 57.267 37.500 0.00 0.00 0.00 3.86
798 803 7.713073 AGAAAACTCTACTTTTCTCTTCACTGG 59.287 37.037 1.83 0.00 43.89 4.00
799 804 8.655651 AGAAAACTCTACTTTTCTCTTCACTG 57.344 34.615 1.83 0.00 43.89 3.66
815 820 8.435982 CCTCCCTCATATCATTTAGAAAACTCT 58.564 37.037 0.00 0.00 0.00 3.24
816 821 8.214364 ACCTCCCTCATATCATTTAGAAAACTC 58.786 37.037 0.00 0.00 0.00 3.01
817 822 8.107196 ACCTCCCTCATATCATTTAGAAAACT 57.893 34.615 0.00 0.00 0.00 2.66
818 823 9.495572 CTACCTCCCTCATATCATTTAGAAAAC 57.504 37.037 0.00 0.00 0.00 2.43
819 824 8.660435 CCTACCTCCCTCATATCATTTAGAAAA 58.340 37.037 0.00 0.00 0.00 2.29
820 825 8.016652 TCCTACCTCCCTCATATCATTTAGAAA 58.983 37.037 0.00 0.00 0.00 2.52
821 826 7.544650 TCCTACCTCCCTCATATCATTTAGAA 58.455 38.462 0.00 0.00 0.00 2.10
822 827 7.116089 TCCTACCTCCCTCATATCATTTAGA 57.884 40.000 0.00 0.00 0.00 2.10
823 828 7.986553 ATCCTACCTCCCTCATATCATTTAG 57.013 40.000 0.00 0.00 0.00 1.85
824 829 9.439461 CATATCCTACCTCCCTCATATCATTTA 57.561 37.037 0.00 0.00 0.00 1.40
828 833 5.499852 TCCATATCCTACCTCCCTCATATCA 59.500 44.000 0.00 0.00 0.00 2.15
833 838 3.246130 CCATCCATATCCTACCTCCCTCA 60.246 52.174 0.00 0.00 0.00 3.86
842 847 6.671340 CCTCTCAGATTTCCATCCATATCCTA 59.329 42.308 0.00 0.00 0.00 2.94
1431 1470 4.570772 TCTGAAACGAAGAACAAACAGGAG 59.429 41.667 0.00 0.00 0.00 3.69
1432 1471 4.509616 TCTGAAACGAAGAACAAACAGGA 58.490 39.130 0.00 0.00 0.00 3.86
1433 1472 4.875544 TCTGAAACGAAGAACAAACAGG 57.124 40.909 0.00 0.00 0.00 4.00
1434 1473 6.018751 TCTGATCTGAAACGAAGAACAAACAG 60.019 38.462 0.00 0.00 0.00 3.16
1435 1474 5.815222 TCTGATCTGAAACGAAGAACAAACA 59.185 36.000 0.00 0.00 0.00 2.83
1436 1475 6.287107 TCTGATCTGAAACGAAGAACAAAC 57.713 37.500 0.00 0.00 0.00 2.93
1440 1479 6.096036 TCTGATCTGATCTGAAACGAAGAAC 58.904 40.000 20.60 0.00 34.82 3.01
1449 1488 5.884232 CCAAAACCATCTGATCTGATCTGAA 59.116 40.000 24.75 12.71 40.03 3.02
1710 1749 6.888430 CCGCATAGGTACTTAATTAAGCAAG 58.112 40.000 22.45 4.76 41.75 4.01
1733 1775 8.831715 AAATTGATGACAACCAAAAGATAACC 57.168 30.769 0.00 0.00 38.90 2.85
1774 1816 5.064558 TGCCTAATTAACGGACAGAAACAA 58.935 37.500 0.00 0.00 0.00 2.83
1785 1827 7.672983 ATAACCATGAGATGCCTAATTAACG 57.327 36.000 0.00 0.00 0.00 3.18
1787 1829 9.866655 AGAAATAACCATGAGATGCCTAATTAA 57.133 29.630 0.00 0.00 0.00 1.40
1805 1847 4.923871 TGACACAGAAGCTCGAGAAATAAC 59.076 41.667 18.75 0.00 0.00 1.89
1808 1850 3.006323 AGTGACACAGAAGCTCGAGAAAT 59.994 43.478 18.75 0.00 0.00 2.17
1970 2014 8.184192 CACTCATCATTTATTACCCTGTCAAAC 58.816 37.037 0.00 0.00 0.00 2.93
2269 2504 8.428063 CAGAGGGAATATTAGACATCTCTTGTT 58.572 37.037 0.00 0.00 39.18 2.83
2270 2505 7.786943 TCAGAGGGAATATTAGACATCTCTTGT 59.213 37.037 0.00 0.00 42.79 3.16
2271 2506 8.087750 GTCAGAGGGAATATTAGACATCTCTTG 58.912 40.741 0.00 0.00 0.00 3.02
2272 2507 7.234577 GGTCAGAGGGAATATTAGACATCTCTT 59.765 40.741 0.00 0.00 0.00 2.85
2273 2508 6.723977 GGTCAGAGGGAATATTAGACATCTCT 59.276 42.308 0.00 0.00 0.00 3.10
2274 2509 6.071051 GGGTCAGAGGGAATATTAGACATCTC 60.071 46.154 0.00 0.00 0.00 2.75
2296 2537 6.538945 ACAACTTCAACACTTAATTTGGGT 57.461 33.333 0.00 0.00 0.00 4.51
2392 2716 3.054655 TGGGCCACTATGGAGTAAAACTC 60.055 47.826 0.00 0.00 44.32 3.01
2442 2767 9.956720 ATTCACAAGAATAACTCAAAAGAACTG 57.043 29.630 0.00 0.00 42.54 3.16
2450 2775 9.248291 GAAAAGCAATTCACAAGAATAACTCAA 57.752 29.630 0.00 0.00 43.52 3.02
2454 2779 9.129209 GGTAGAAAAGCAATTCACAAGAATAAC 57.871 33.333 4.59 0.00 43.52 1.89
2480 2805 2.036556 AGCGTGCATTTTGTCGAAAG 57.963 45.000 0.00 0.00 0.00 2.62
2484 2809 3.059306 CCAAATTAGCGTGCATTTTGTCG 59.941 43.478 0.00 0.00 0.00 4.35
2495 2820 3.127589 GCCAACAAAACCAAATTAGCGT 58.872 40.909 0.00 0.00 0.00 5.07
2498 2823 4.448732 GCAGAGCCAACAAAACCAAATTAG 59.551 41.667 0.00 0.00 0.00 1.73
2507 2832 6.160576 AGAAAATAAGCAGAGCCAACAAAA 57.839 33.333 0.00 0.00 0.00 2.44
2538 2864 3.388552 TGAGGTTCTCTGAGCTATGGA 57.611 47.619 0.00 0.00 0.00 3.41
2596 2924 5.011943 ACAGTTGATACGTTACCCCTAAACA 59.988 40.000 0.00 0.00 0.00 2.83
2616 2945 0.537143 TTGGCTCGGAATTGCACAGT 60.537 50.000 0.00 0.00 0.00 3.55
2655 2984 8.680001 CAGAACAACATCAATCAATATCTTCCA 58.320 33.333 0.00 0.00 0.00 3.53


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

AutoCloner maintained by Alex Coulton.