Multiple sequence alignment - TraesCS2D01G154500

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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 TraesCS2D01G154500 chr2D 100.000 4209 0 0 1 4209 97636918 97641126 0.000000e+00 7773
1 TraesCS2D01G154500 chr2D 98.188 828 13 2 3383 4209 487266469 487267295 0.000000e+00 1445
2 TraesCS2D01G154500 chr2D 97.497 839 18 3 3372 4209 402549359 402548523 0.000000e+00 1430
3 TraesCS2D01G154500 chr2B 93.942 2443 122 9 879 3302 148866249 148863814 0.000000e+00 3668
4 TraesCS2D01G154500 chr3D 91.737 1416 93 10 1755 3160 604775637 604777038 0.000000e+00 1945
5 TraesCS2D01G154500 chr3D 98.197 832 12 3 3380 4209 288046793 288045963 0.000000e+00 1450
6 TraesCS2D01G154500 chr3D 98.188 828 12 3 3383 4209 35694926 35695751 0.000000e+00 1443
7 TraesCS2D01G154500 chr3D 97.713 787 9 6 1 786 37295906 37295128 0.000000e+00 1345
8 TraesCS2D01G154500 chr5D 98.188 828 13 2 3383 4209 393980155 393980981 0.000000e+00 1445
9 TraesCS2D01G154500 chr5D 98.070 829 14 2 3382 4209 65113300 65112473 0.000000e+00 1441
10 TraesCS2D01G154500 chr5D 98.068 828 14 2 3383 4209 103604987 103605813 0.000000e+00 1439
11 TraesCS2D01G154500 chr5D 86.885 183 24 0 2456 2638 534762068 534762250 5.520000e-49 206
12 TraesCS2D01G154500 chr1D 98.188 828 13 2 3383 4209 9661451 9660625 0.000000e+00 1445
13 TraesCS2D01G154500 chr1D 98.601 786 6 4 1 786 467313942 467313162 0.000000e+00 1386
14 TraesCS2D01G154500 chr6D 98.068 828 14 2 3383 4209 11163420 11162594 0.000000e+00 1439
15 TraesCS2D01G154500 chr6D 97.215 790 13 6 1 788 156433926 156434708 0.000000e+00 1328
16 TraesCS2D01G154500 chr7D 97.208 788 12 6 1 786 400415567 400414788 0.000000e+00 1325
17 TraesCS2D01G154500 chr7D 88.493 365 39 3 1 364 59172947 59172585 5.000000e-119 438
18 TraesCS2D01G154500 chr2A 91.058 794 49 10 879 1650 96137932 96137139 0.000000e+00 1053
19 TraesCS2D01G154500 chr1B 86.074 517 72 0 2351 2867 561546537 561546021 1.320000e-154 556
20 TraesCS2D01G154500 chr1B 86.264 364 47 3 1 364 168965858 168965498 3.940000e-105 392
21 TraesCS2D01G154500 chr4D 87.945 365 40 3 1 364 129781248 129780887 1.080000e-115 427
22 TraesCS2D01G154500 chr7B 87.263 369 35 11 1 364 672488803 672488442 1.090000e-110 411
23 TraesCS2D01G154500 chr7B 89.264 326 26 8 11 333 639893668 639893987 2.360000e-107 399


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 TraesCS2D01G154500 chr2D 97636918 97641126 4208 False 7773 7773 100.000 1 4209 1 chr2D.!!$F1 4208
1 TraesCS2D01G154500 chr2D 487266469 487267295 826 False 1445 1445 98.188 3383 4209 1 chr2D.!!$F2 826
2 TraesCS2D01G154500 chr2D 402548523 402549359 836 True 1430 1430 97.497 3372 4209 1 chr2D.!!$R1 837
3 TraesCS2D01G154500 chr2B 148863814 148866249 2435 True 3668 3668 93.942 879 3302 1 chr2B.!!$R1 2423
4 TraesCS2D01G154500 chr3D 604775637 604777038 1401 False 1945 1945 91.737 1755 3160 1 chr3D.!!$F2 1405
5 TraesCS2D01G154500 chr3D 288045963 288046793 830 True 1450 1450 98.197 3380 4209 1 chr3D.!!$R2 829
6 TraesCS2D01G154500 chr3D 35694926 35695751 825 False 1443 1443 98.188 3383 4209 1 chr3D.!!$F1 826
7 TraesCS2D01G154500 chr3D 37295128 37295906 778 True 1345 1345 97.713 1 786 1 chr3D.!!$R1 785
8 TraesCS2D01G154500 chr5D 393980155 393980981 826 False 1445 1445 98.188 3383 4209 1 chr5D.!!$F2 826
9 TraesCS2D01G154500 chr5D 65112473 65113300 827 True 1441 1441 98.070 3382 4209 1 chr5D.!!$R1 827
10 TraesCS2D01G154500 chr5D 103604987 103605813 826 False 1439 1439 98.068 3383 4209 1 chr5D.!!$F1 826
11 TraesCS2D01G154500 chr1D 9660625 9661451 826 True 1445 1445 98.188 3383 4209 1 chr1D.!!$R1 826
12 TraesCS2D01G154500 chr1D 467313162 467313942 780 True 1386 1386 98.601 1 786 1 chr1D.!!$R2 785
13 TraesCS2D01G154500 chr6D 11162594 11163420 826 True 1439 1439 98.068 3383 4209 1 chr6D.!!$R1 826
14 TraesCS2D01G154500 chr6D 156433926 156434708 782 False 1328 1328 97.215 1 788 1 chr6D.!!$F1 787
15 TraesCS2D01G154500 chr7D 400414788 400415567 779 True 1325 1325 97.208 1 786 1 chr7D.!!$R2 785
16 TraesCS2D01G154500 chr2A 96137139 96137932 793 True 1053 1053 91.058 879 1650 1 chr2A.!!$R1 771
17 TraesCS2D01G154500 chr1B 561546021 561546537 516 True 556 556 86.074 2351 2867 1 chr1B.!!$R2 516

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
802 812 0.032130 CGAGATTTAGCAGCGCCCTA 59.968 55.000 2.29 1.87 0.00 3.53 F
807 817 0.037139 TTTAGCAGCGCCCTAACGAA 60.037 50.000 15.29 2.05 34.06 3.85 F
808 818 0.037139 TTAGCAGCGCCCTAACGAAA 60.037 50.000 2.29 0.00 34.06 3.46 F
809 819 0.037139 TAGCAGCGCCCTAACGAAAA 60.037 50.000 2.29 0.00 34.06 2.29 F
1041 1088 0.250295 CCCAGTCACACACCGACAAT 60.250 55.000 0.00 0.00 35.77 2.71 F
1185 1232 0.954449 TCGGCTTCGACGTCTTCTCT 60.954 55.000 14.70 0.00 38.07 3.10 F
2099 2151 1.076923 ACTCGCTGATCCCGTACCT 60.077 57.895 3.29 0.00 0.00 3.08 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1953 2000 0.108615 AGGTGAATTGCTCCGTCTCG 60.109 55.000 0.00 0.0 35.30 4.04 R
2016 2068 2.494918 CCGGACGGCGAGAAGAAT 59.505 61.111 16.62 0.0 0.00 2.40 R
2389 2441 3.735029 GTCGGTGAGGTCGCTCGT 61.735 66.667 0.00 0.0 0.00 4.18 R
2862 2914 2.430367 GGCTGGAACTGGTTCGGT 59.570 61.111 7.28 0.0 40.37 4.69 R
3080 3133 0.108377 CACCCATCAATCGACGACCA 60.108 55.000 0.00 0.0 0.00 4.02 R
3083 3136 0.460109 CTGCACCCATCAATCGACGA 60.460 55.000 0.00 0.0 0.00 4.20 R
3354 3412 0.108774 TGGTTACATGCCGACCAACA 59.891 50.000 11.69 0.0 40.31 3.33 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
392 397 2.707849 GCGCTACCGACTCCTCCAA 61.708 63.158 0.00 0.00 36.29 3.53
788 798 3.148279 GGACAGGGGCGTCGAGAT 61.148 66.667 0.00 0.00 36.73 2.75
789 799 2.722201 GGACAGGGGCGTCGAGATT 61.722 63.158 0.00 0.00 36.73 2.40
790 800 1.218316 GACAGGGGCGTCGAGATTT 59.782 57.895 0.00 0.00 0.00 2.17
791 801 0.458669 GACAGGGGCGTCGAGATTTA 59.541 55.000 0.00 0.00 0.00 1.40
792 802 0.460311 ACAGGGGCGTCGAGATTTAG 59.540 55.000 0.00 0.00 0.00 1.85
793 803 0.876342 CAGGGGCGTCGAGATTTAGC 60.876 60.000 0.00 0.00 0.00 3.09
794 804 1.143183 GGGGCGTCGAGATTTAGCA 59.857 57.895 0.00 0.00 0.00 3.49
795 805 0.876342 GGGGCGTCGAGATTTAGCAG 60.876 60.000 0.00 0.00 0.00 4.24
796 806 1.491505 GGGCGTCGAGATTTAGCAGC 61.492 60.000 0.00 0.00 0.00 5.25
797 807 1.555538 GCGTCGAGATTTAGCAGCG 59.444 57.895 0.00 0.00 0.00 5.18
798 808 1.555538 CGTCGAGATTTAGCAGCGC 59.444 57.895 0.00 0.00 0.00 5.92
799 809 1.812214 CGTCGAGATTTAGCAGCGCC 61.812 60.000 2.29 0.00 0.00 6.53
800 810 1.227263 TCGAGATTTAGCAGCGCCC 60.227 57.895 2.29 0.00 0.00 6.13
801 811 1.227380 CGAGATTTAGCAGCGCCCT 60.227 57.895 2.29 3.07 0.00 5.19
802 812 0.032130 CGAGATTTAGCAGCGCCCTA 59.968 55.000 2.29 1.87 0.00 3.53
803 813 1.538204 CGAGATTTAGCAGCGCCCTAA 60.538 52.381 2.29 9.02 0.00 2.69
804 814 1.867865 GAGATTTAGCAGCGCCCTAAC 59.132 52.381 15.29 7.48 0.00 2.34
805 815 0.582005 GATTTAGCAGCGCCCTAACG 59.418 55.000 15.29 0.00 0.00 3.18
806 816 0.177141 ATTTAGCAGCGCCCTAACGA 59.823 50.000 15.29 5.31 34.06 3.85
807 817 0.037139 TTTAGCAGCGCCCTAACGAA 60.037 50.000 15.29 2.05 34.06 3.85
808 818 0.037139 TTAGCAGCGCCCTAACGAAA 60.037 50.000 2.29 0.00 34.06 3.46
809 819 0.037139 TAGCAGCGCCCTAACGAAAA 60.037 50.000 2.29 0.00 34.06 2.29
810 820 0.676782 AGCAGCGCCCTAACGAAAAT 60.677 50.000 2.29 0.00 34.06 1.82
811 821 1.011333 GCAGCGCCCTAACGAAAATA 58.989 50.000 2.29 0.00 34.06 1.40
812 822 1.602377 GCAGCGCCCTAACGAAAATAT 59.398 47.619 2.29 0.00 34.06 1.28
813 823 2.602217 GCAGCGCCCTAACGAAAATATG 60.602 50.000 2.29 0.00 34.06 1.78
814 824 2.612212 CAGCGCCCTAACGAAAATATGT 59.388 45.455 2.29 0.00 34.06 2.29
815 825 2.870411 AGCGCCCTAACGAAAATATGTC 59.130 45.455 2.29 0.00 34.06 3.06
816 826 2.610374 GCGCCCTAACGAAAATATGTCA 59.390 45.455 0.00 0.00 34.06 3.58
817 827 3.250040 GCGCCCTAACGAAAATATGTCAT 59.750 43.478 0.00 0.00 34.06 3.06
818 828 4.772434 CGCCCTAACGAAAATATGTCATG 58.228 43.478 0.00 0.00 34.06 3.07
819 829 4.537015 GCCCTAACGAAAATATGTCATGC 58.463 43.478 0.00 0.00 0.00 4.06
820 830 4.036262 GCCCTAACGAAAATATGTCATGCA 59.964 41.667 0.00 0.00 0.00 3.96
821 831 5.278463 GCCCTAACGAAAATATGTCATGCAT 60.278 40.000 0.00 0.00 41.42 3.96
822 832 6.373779 CCCTAACGAAAATATGTCATGCATC 58.626 40.000 0.00 0.00 38.94 3.91
823 833 6.373779 CCTAACGAAAATATGTCATGCATCC 58.626 40.000 0.00 0.00 38.94 3.51
824 834 4.472691 ACGAAAATATGTCATGCATCCG 57.527 40.909 0.00 0.00 38.94 4.18
825 835 4.126437 ACGAAAATATGTCATGCATCCGA 58.874 39.130 0.00 0.00 38.94 4.55
826 836 4.756642 ACGAAAATATGTCATGCATCCGAT 59.243 37.500 0.00 0.00 38.94 4.18
827 837 5.106948 ACGAAAATATGTCATGCATCCGATC 60.107 40.000 0.00 0.00 38.94 3.69
828 838 4.934075 AAATATGTCATGCATCCGATCG 57.066 40.909 8.51 8.51 38.94 3.69
829 839 3.874392 ATATGTCATGCATCCGATCGA 57.126 42.857 18.66 2.91 38.94 3.59
830 840 2.531522 ATGTCATGCATCCGATCGAA 57.468 45.000 18.66 0.00 30.67 3.71
831 841 2.307934 TGTCATGCATCCGATCGAAA 57.692 45.000 18.66 4.45 0.00 3.46
832 842 1.933181 TGTCATGCATCCGATCGAAAC 59.067 47.619 18.66 3.51 0.00 2.78
833 843 1.933181 GTCATGCATCCGATCGAAACA 59.067 47.619 18.66 9.54 0.00 2.83
834 844 2.033407 GTCATGCATCCGATCGAAACAG 60.033 50.000 18.66 0.00 0.00 3.16
835 845 1.935873 CATGCATCCGATCGAAACAGT 59.064 47.619 18.66 0.00 0.00 3.55
836 846 1.358877 TGCATCCGATCGAAACAGTG 58.641 50.000 18.66 6.82 0.00 3.66
837 847 0.652592 GCATCCGATCGAAACAGTGG 59.347 55.000 18.66 0.00 0.00 4.00
838 848 2.007049 GCATCCGATCGAAACAGTGGT 61.007 52.381 18.66 0.00 0.00 4.16
839 849 2.737359 GCATCCGATCGAAACAGTGGTA 60.737 50.000 18.66 0.00 0.00 3.25
840 850 2.642139 TCCGATCGAAACAGTGGTAC 57.358 50.000 18.66 0.00 0.00 3.34
841 851 1.203052 TCCGATCGAAACAGTGGTACC 59.797 52.381 18.66 4.43 0.00 3.34
842 852 1.265568 CGATCGAAACAGTGGTACCG 58.734 55.000 10.26 0.00 0.00 4.02
843 853 1.401931 CGATCGAAACAGTGGTACCGT 60.402 52.381 10.26 0.00 0.00 4.83
844 854 1.990563 GATCGAAACAGTGGTACCGTG 59.009 52.381 7.57 9.93 0.00 4.94
845 855 0.598158 TCGAAACAGTGGTACCGTGC 60.598 55.000 7.57 0.00 0.00 5.34
846 856 0.876777 CGAAACAGTGGTACCGTGCA 60.877 55.000 7.57 0.00 0.00 4.57
847 857 0.865769 GAAACAGTGGTACCGTGCAG 59.134 55.000 7.57 0.00 0.00 4.41
849 859 2.047274 CAGTGGTACCGTGCAGGG 60.047 66.667 23.61 23.61 46.96 4.45
850 860 4.016706 AGTGGTACCGTGCAGGGC 62.017 66.667 25.03 9.83 46.96 5.19
863 873 4.847367 AGGGCGGGGTACGGGTAG 62.847 72.222 0.00 0.00 44.51 3.18
865 875 4.839706 GGCGGGGTACGGGTAGGA 62.840 72.222 0.00 0.00 44.51 2.94
866 876 2.759560 GCGGGGTACGGGTAGGAA 60.760 66.667 0.00 0.00 44.51 3.36
867 877 3.081311 GCGGGGTACGGGTAGGAAC 62.081 68.421 0.00 0.00 44.51 3.62
868 878 1.682005 CGGGGTACGGGTAGGAACA 60.682 63.158 0.00 0.00 39.42 3.18
869 879 1.257055 CGGGGTACGGGTAGGAACAA 61.257 60.000 0.00 0.00 39.42 2.83
870 880 0.983467 GGGGTACGGGTAGGAACAAA 59.017 55.000 0.00 0.00 0.00 2.83
871 881 1.561076 GGGGTACGGGTAGGAACAAAT 59.439 52.381 0.00 0.00 0.00 2.32
872 882 2.771372 GGGGTACGGGTAGGAACAAATA 59.229 50.000 0.00 0.00 0.00 1.40
873 883 3.392285 GGGGTACGGGTAGGAACAAATAT 59.608 47.826 0.00 0.00 0.00 1.28
874 884 4.383173 GGGTACGGGTAGGAACAAATATG 58.617 47.826 0.00 0.00 0.00 1.78
875 885 4.141642 GGGTACGGGTAGGAACAAATATGT 60.142 45.833 0.00 0.00 43.14 2.29
876 886 5.052481 GGTACGGGTAGGAACAAATATGTC 58.948 45.833 0.00 0.00 39.40 3.06
877 887 4.829872 ACGGGTAGGAACAAATATGTCA 57.170 40.909 0.00 0.00 39.40 3.58
918 928 3.126703 ATGCACCCGTTCACACCCA 62.127 57.895 0.00 0.00 0.00 4.51
965 975 0.524392 GACAGCAGAGTGATCCGACG 60.524 60.000 0.00 0.00 0.00 5.12
1041 1088 0.250295 CCCAGTCACACACCGACAAT 60.250 55.000 0.00 0.00 35.77 2.71
1068 1115 2.896801 GACAAGCACCAGCACCACG 61.897 63.158 0.00 0.00 45.49 4.94
1185 1232 0.954449 TCGGCTTCGACGTCTTCTCT 60.954 55.000 14.70 0.00 38.07 3.10
1516 1563 4.680237 CGACGGACCTGGCAAGCA 62.680 66.667 0.00 0.00 0.00 3.91
1520 1567 2.677875 GGACCTGGCAAGCAAGGG 60.678 66.667 19.26 7.85 41.48 3.95
1521 1568 3.376918 GACCTGGCAAGCAAGGGC 61.377 66.667 19.26 13.23 41.48 5.19
1567 1614 3.790437 CAGACATGAGCCCCGCCT 61.790 66.667 0.00 0.00 0.00 5.52
1810 1857 2.818714 TCTCGCCGGAGACTCGAC 60.819 66.667 5.05 0.00 44.28 4.20
1816 1863 3.827898 CGGAGACTCGACAGCCCC 61.828 72.222 0.00 0.00 0.00 5.80
1953 2000 1.728971 CACATTGAGCTGTTCGACCTC 59.271 52.381 0.00 0.00 0.00 3.85
2016 2068 1.228124 GCTGCACCACTACAACCCA 60.228 57.895 0.00 0.00 0.00 4.51
2099 2151 1.076923 ACTCGCTGATCCCGTACCT 60.077 57.895 3.29 0.00 0.00 3.08
2303 2355 4.087892 CACCTCGTGGAGCCCCAG 62.088 72.222 11.17 0.00 44.55 4.45
2397 2449 2.138601 CGAGTTCGACACGAGCGAC 61.139 63.158 0.00 0.00 41.66 5.19
2698 2750 1.204704 CCGTGTTCAGCATCTACCTGA 59.795 52.381 0.00 0.00 37.54 3.86
2832 2884 2.328099 GCTCTTCACGGCCAACCTG 61.328 63.158 2.24 0.00 0.00 4.00
3048 3100 2.126424 GAGTTCGACGAGCCGCTT 60.126 61.111 8.17 0.00 0.00 4.68
3072 3124 4.363990 AGCTGCGACGTGTGAGGG 62.364 66.667 0.00 0.00 0.00 4.30
3078 3131 4.394712 GACGTGTGAGGGGCAGGG 62.395 72.222 0.00 0.00 0.00 4.45
3080 3133 3.402681 CGTGTGAGGGGCAGGGAT 61.403 66.667 0.00 0.00 0.00 3.85
3081 3134 2.273449 GTGTGAGGGGCAGGGATG 59.727 66.667 0.00 0.00 0.00 3.51
3083 3136 3.017581 GTGAGGGGCAGGGATGGT 61.018 66.667 0.00 0.00 0.00 3.55
3084 3137 2.692368 TGAGGGGCAGGGATGGTC 60.692 66.667 0.00 0.00 0.00 4.02
3086 3139 4.741239 AGGGGCAGGGATGGTCGT 62.741 66.667 0.00 0.00 0.00 4.34
3087 3140 4.176752 GGGGCAGGGATGGTCGTC 62.177 72.222 0.00 0.00 0.00 4.20
3097 3150 1.502231 GATGGTCGTCGATTGATGGG 58.498 55.000 0.00 0.00 0.00 4.00
3101 3154 0.739462 GTCGTCGATTGATGGGTGCA 60.739 55.000 0.00 0.00 0.00 4.57
3102 3155 0.460109 TCGTCGATTGATGGGTGCAG 60.460 55.000 2.21 0.00 0.00 4.41
3103 3156 1.723870 GTCGATTGATGGGTGCAGC 59.276 57.895 7.55 7.55 0.00 5.25
3104 3157 1.451927 TCGATTGATGGGTGCAGCC 60.452 57.895 28.15 28.15 0.00 4.85
3105 3158 1.750018 CGATTGATGGGTGCAGCCA 60.750 57.895 37.62 37.62 39.65 4.75
3106 3159 1.811860 GATTGATGGGTGCAGCCAC 59.188 57.895 38.27 29.07 41.32 5.01
3107 3160 1.996786 GATTGATGGGTGCAGCCACG 61.997 60.000 38.27 0.00 43.00 4.94
3142 3198 6.203338 GGTGGCTTCGGTCGATAATAATTTAA 59.797 38.462 0.00 0.00 0.00 1.52
3145 3201 9.146984 TGGCTTCGGTCGATAATAATTTAATAG 57.853 33.333 0.00 0.00 0.00 1.73
3251 3307 3.375299 GGAATCCACTATGTGTTGTCAGC 59.625 47.826 0.00 0.00 0.00 4.26
3262 3318 5.270893 TGTGTTGTCAGCTAAAGTAGTGA 57.729 39.130 0.00 0.00 0.00 3.41
3265 3321 5.047847 TGTTGTCAGCTAAAGTAGTGACAC 58.952 41.667 14.63 0.00 41.70 3.67
3269 3325 5.243954 TGTCAGCTAAAGTAGTGACACTGAT 59.756 40.000 18.58 3.47 39.53 2.90
3274 3330 6.043411 GCTAAAGTAGTGACACTGATAAGGG 58.957 44.000 18.58 4.46 0.00 3.95
3276 3332 5.662674 AAGTAGTGACACTGATAAGGGTC 57.337 43.478 18.58 5.39 0.00 4.46
3283 3341 3.285484 ACACTGATAAGGGTCGACGTAT 58.715 45.455 9.92 7.08 0.00 3.06
3286 3344 4.274214 CACTGATAAGGGTCGACGTATGTA 59.726 45.833 9.92 0.00 0.00 2.29
3296 3354 2.096980 TCGACGTATGTACTTCTGCCTG 59.903 50.000 0.00 0.00 0.00 4.85
3306 3364 2.746697 TTCTGCCTGAAGACTCGGT 58.253 52.632 0.00 0.00 0.00 4.69
3307 3365 0.603569 TTCTGCCTGAAGACTCGGTC 59.396 55.000 0.00 0.00 0.00 4.79
3308 3366 1.153939 CTGCCTGAAGACTCGGTCG 60.154 63.158 0.00 0.00 37.67 4.79
3309 3367 2.182030 GCCTGAAGACTCGGTCGG 59.818 66.667 0.00 0.00 37.67 4.79
3310 3368 2.341101 GCCTGAAGACTCGGTCGGA 61.341 63.158 0.00 0.00 37.67 4.55
3311 3369 1.507174 CCTGAAGACTCGGTCGGAC 59.493 63.158 0.00 0.00 37.67 4.79
3312 3370 1.507174 CTGAAGACTCGGTCGGACC 59.493 63.158 17.38 17.38 37.67 4.46
3313 3371 1.228337 TGAAGACTCGGTCGGACCA 60.228 57.895 25.80 12.54 38.47 4.02
3314 3372 1.212229 GAAGACTCGGTCGGACCAC 59.788 63.158 25.80 13.67 38.47 4.16
3315 3373 2.524636 GAAGACTCGGTCGGACCACG 62.525 65.000 25.80 17.52 38.47 4.94
3339 3397 7.710766 GAGTTTTTCTCGTCTTTCTCCTAAA 57.289 36.000 0.00 0.00 33.25 1.85
3340 3398 7.716768 AGTTTTTCTCGTCTTTCTCCTAAAG 57.283 36.000 0.00 0.00 0.00 1.85
3341 3399 6.203145 AGTTTTTCTCGTCTTTCTCCTAAAGC 59.797 38.462 0.00 0.00 0.00 3.51
3342 3400 3.870633 TCTCGTCTTTCTCCTAAAGCC 57.129 47.619 0.00 0.00 0.00 4.35
3343 3401 2.163815 TCTCGTCTTTCTCCTAAAGCCG 59.836 50.000 0.00 0.00 30.88 5.52
3344 3402 2.163815 CTCGTCTTTCTCCTAAAGCCGA 59.836 50.000 3.97 3.97 35.65 5.54
3345 3403 2.758979 TCGTCTTTCTCCTAAAGCCGAT 59.241 45.455 0.10 0.00 33.53 4.18
3346 3404 2.860735 CGTCTTTCTCCTAAAGCCGATG 59.139 50.000 0.00 0.00 31.19 3.84
3347 3405 2.609916 GTCTTTCTCCTAAAGCCGATGC 59.390 50.000 0.00 0.00 37.95 3.91
3348 3406 2.236146 TCTTTCTCCTAAAGCCGATGCA 59.764 45.455 0.00 0.00 41.13 3.96
3349 3407 2.315925 TTCTCCTAAAGCCGATGCAG 57.684 50.000 0.00 0.00 41.13 4.41
3350 3408 1.485124 TCTCCTAAAGCCGATGCAGA 58.515 50.000 0.00 0.00 41.13 4.26
3351 3409 1.831106 TCTCCTAAAGCCGATGCAGAA 59.169 47.619 0.00 0.00 41.13 3.02
3352 3410 2.435805 TCTCCTAAAGCCGATGCAGAAT 59.564 45.455 0.00 0.00 41.13 2.40
3353 3411 3.118261 TCTCCTAAAGCCGATGCAGAATT 60.118 43.478 0.00 0.00 41.13 2.17
3354 3412 3.620488 TCCTAAAGCCGATGCAGAATTT 58.380 40.909 0.00 0.00 41.13 1.82
3355 3413 3.378112 TCCTAAAGCCGATGCAGAATTTG 59.622 43.478 0.00 0.00 41.13 2.32
3356 3414 3.129287 CCTAAAGCCGATGCAGAATTTGT 59.871 43.478 0.00 0.00 41.13 2.83
3357 3415 3.665745 AAAGCCGATGCAGAATTTGTT 57.334 38.095 0.00 0.00 41.13 2.83
3358 3416 2.642139 AGCCGATGCAGAATTTGTTG 57.358 45.000 0.00 0.00 41.13 3.33
3359 3417 1.203052 AGCCGATGCAGAATTTGTTGG 59.797 47.619 0.00 0.00 41.13 3.77
3360 3418 1.067635 GCCGATGCAGAATTTGTTGGT 60.068 47.619 0.00 0.00 37.47 3.67
3361 3419 2.867429 CCGATGCAGAATTTGTTGGTC 58.133 47.619 0.00 0.00 0.00 4.02
3362 3420 2.508867 CGATGCAGAATTTGTTGGTCG 58.491 47.619 0.00 0.00 0.00 4.79
3363 3421 2.728846 CGATGCAGAATTTGTTGGTCGG 60.729 50.000 0.00 0.00 0.00 4.79
3364 3422 0.313672 TGCAGAATTTGTTGGTCGGC 59.686 50.000 0.00 0.00 0.00 5.54
3365 3423 0.313672 GCAGAATTTGTTGGTCGGCA 59.686 50.000 0.00 0.00 0.00 5.69
3366 3424 1.067635 GCAGAATTTGTTGGTCGGCAT 60.068 47.619 0.00 0.00 0.00 4.40
3367 3425 2.598589 CAGAATTTGTTGGTCGGCATG 58.401 47.619 0.00 0.00 0.00 4.06
3368 3426 2.030007 CAGAATTTGTTGGTCGGCATGT 60.030 45.455 0.00 0.00 0.00 3.21
3369 3427 3.190327 CAGAATTTGTTGGTCGGCATGTA 59.810 43.478 0.00 0.00 0.00 2.29
3370 3428 3.823873 AGAATTTGTTGGTCGGCATGTAA 59.176 39.130 0.00 0.00 0.00 2.41
3371 3429 3.569250 ATTTGTTGGTCGGCATGTAAC 57.431 42.857 0.00 0.00 0.00 2.50
3372 3430 1.240256 TTGTTGGTCGGCATGTAACC 58.760 50.000 0.00 0.35 0.00 2.85
3373 3431 0.108774 TGTTGGTCGGCATGTAACCA 59.891 50.000 10.69 10.69 41.23 3.67
3374 3432 1.271652 TGTTGGTCGGCATGTAACCAT 60.272 47.619 14.18 0.00 42.41 3.55
3375 3433 1.400494 GTTGGTCGGCATGTAACCATC 59.600 52.381 14.18 10.86 42.41 3.51
3376 3434 0.461163 TGGTCGGCATGTAACCATCG 60.461 55.000 10.69 0.00 38.14 3.84
3377 3435 0.179094 GGTCGGCATGTAACCATCGA 60.179 55.000 8.01 0.00 33.11 3.59
3378 3436 1.540363 GGTCGGCATGTAACCATCGAT 60.540 52.381 0.00 0.00 32.21 3.59
3379 3437 1.792949 GTCGGCATGTAACCATCGATC 59.207 52.381 0.00 0.00 32.21 3.69
3380 3438 1.410882 TCGGCATGTAACCATCGATCA 59.589 47.619 0.00 0.00 0.00 2.92
3381 3439 2.159028 TCGGCATGTAACCATCGATCAA 60.159 45.455 0.00 0.00 0.00 2.57
3382 3440 2.807967 CGGCATGTAACCATCGATCAAT 59.192 45.455 0.00 0.00 0.00 2.57
3383 3441 3.364267 CGGCATGTAACCATCGATCAATG 60.364 47.826 0.00 0.00 0.00 2.82
3384 3442 3.565482 GGCATGTAACCATCGATCAATGT 59.435 43.478 0.00 0.00 0.00 2.71
3385 3443 4.036734 GGCATGTAACCATCGATCAATGTT 59.963 41.667 0.00 0.00 0.00 2.71
3386 3444 5.238432 GGCATGTAACCATCGATCAATGTTA 59.762 40.000 0.00 0.00 0.00 2.41
3387 3445 6.238621 GGCATGTAACCATCGATCAATGTTAA 60.239 38.462 0.00 0.00 0.00 2.01
3395 3453 7.556844 ACCATCGATCAATGTTAAGAGTAGTT 58.443 34.615 0.00 0.00 0.00 2.24
3422 3480 8.523915 TTATGGTATACGACTTCTAGTCCAAA 57.476 34.615 0.00 0.00 42.12 3.28
3560 3619 2.588925 AGGGTTTAGGGTATGGCTCT 57.411 50.000 0.00 0.00 0.00 4.09
3736 3795 1.200252 CTGACACAATCTCCGACGTCT 59.800 52.381 14.70 0.00 0.00 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
151 154 0.032678 CACTCGACTGCAACTGACCT 59.967 55.000 0.00 0.00 0.00 3.85
586 592 8.625651 GCTTTATTTTGTGGGGTTGTAATTTTT 58.374 29.630 0.00 0.00 0.00 1.94
600 610 6.804534 TTTCGTTGTGAGCTTTATTTTGTG 57.195 33.333 0.00 0.00 0.00 3.33
627 637 1.603455 CGTTGGACAGGGTTGGCAT 60.603 57.895 0.00 0.00 32.23 4.40
788 798 0.037139 TTCGTTAGGGCGCTGCTAAA 60.037 50.000 14.51 0.00 0.00 1.85
789 799 0.037139 TTTCGTTAGGGCGCTGCTAA 60.037 50.000 14.51 0.00 0.00 3.09
790 800 0.037139 TTTTCGTTAGGGCGCTGCTA 60.037 50.000 14.51 0.00 0.00 3.49
791 801 0.676782 ATTTTCGTTAGGGCGCTGCT 60.677 50.000 14.51 0.00 0.00 4.24
792 802 1.011333 TATTTTCGTTAGGGCGCTGC 58.989 50.000 14.51 5.35 0.00 5.25
793 803 2.612212 ACATATTTTCGTTAGGGCGCTG 59.388 45.455 14.51 0.00 0.00 5.18
794 804 2.870411 GACATATTTTCGTTAGGGCGCT 59.130 45.455 7.64 8.86 0.00 5.92
795 805 2.610374 TGACATATTTTCGTTAGGGCGC 59.390 45.455 0.00 0.00 0.00 6.53
796 806 4.772434 CATGACATATTTTCGTTAGGGCG 58.228 43.478 0.00 0.00 0.00 6.13
797 807 4.036262 TGCATGACATATTTTCGTTAGGGC 59.964 41.667 0.00 0.00 0.00 5.19
798 808 5.749596 TGCATGACATATTTTCGTTAGGG 57.250 39.130 0.00 0.00 0.00 3.53
799 809 6.373779 GGATGCATGACATATTTTCGTTAGG 58.626 40.000 2.46 0.00 39.84 2.69
800 810 6.073369 CGGATGCATGACATATTTTCGTTAG 58.927 40.000 2.46 0.00 39.84 2.34
801 811 5.755861 TCGGATGCATGACATATTTTCGTTA 59.244 36.000 2.46 0.00 39.84 3.18
802 812 4.574421 TCGGATGCATGACATATTTTCGTT 59.426 37.500 2.46 0.00 39.84 3.85
803 813 4.126437 TCGGATGCATGACATATTTTCGT 58.874 39.130 2.46 0.00 39.84 3.85
804 814 4.730600 TCGGATGCATGACATATTTTCG 57.269 40.909 2.46 0.00 39.84 3.46
805 815 5.120674 TCGATCGGATGCATGACATATTTTC 59.879 40.000 16.41 0.00 39.84 2.29
806 816 4.996758 TCGATCGGATGCATGACATATTTT 59.003 37.500 16.41 0.00 39.84 1.82
807 817 4.568956 TCGATCGGATGCATGACATATTT 58.431 39.130 16.41 0.00 39.84 1.40
808 818 4.192429 TCGATCGGATGCATGACATATT 57.808 40.909 16.41 0.00 39.84 1.28
809 819 3.874392 TCGATCGGATGCATGACATAT 57.126 42.857 16.41 0.00 39.84 1.78
810 820 3.658757 TTCGATCGGATGCATGACATA 57.341 42.857 16.41 0.00 39.84 2.29
811 821 2.531522 TTCGATCGGATGCATGACAT 57.468 45.000 16.41 0.00 43.54 3.06
812 822 1.933181 GTTTCGATCGGATGCATGACA 59.067 47.619 16.41 0.00 0.00 3.58
813 823 1.933181 TGTTTCGATCGGATGCATGAC 59.067 47.619 16.41 0.50 0.00 3.06
814 824 2.204237 CTGTTTCGATCGGATGCATGA 58.796 47.619 16.41 0.00 0.00 3.07
815 825 1.935873 ACTGTTTCGATCGGATGCATG 59.064 47.619 16.41 5.98 0.00 4.06
816 826 1.935873 CACTGTTTCGATCGGATGCAT 59.064 47.619 16.41 0.00 0.00 3.96
817 827 1.358877 CACTGTTTCGATCGGATGCA 58.641 50.000 16.41 8.08 0.00 3.96
818 828 0.652592 CCACTGTTTCGATCGGATGC 59.347 55.000 16.41 3.33 0.00 3.91
819 829 2.010145 ACCACTGTTTCGATCGGATG 57.990 50.000 16.41 1.02 0.00 3.51
820 830 2.159142 GGTACCACTGTTTCGATCGGAT 60.159 50.000 16.41 0.00 0.00 4.18
821 831 1.203052 GGTACCACTGTTTCGATCGGA 59.797 52.381 16.41 2.60 0.00 4.55
822 832 1.636988 GGTACCACTGTTTCGATCGG 58.363 55.000 16.41 0.47 0.00 4.18
823 833 1.265568 CGGTACCACTGTTTCGATCG 58.734 55.000 13.54 9.36 0.00 3.69
824 834 1.990563 CACGGTACCACTGTTTCGATC 59.009 52.381 13.54 0.00 35.04 3.69
825 835 1.938016 GCACGGTACCACTGTTTCGAT 60.938 52.381 13.54 0.00 35.04 3.59
826 836 0.598158 GCACGGTACCACTGTTTCGA 60.598 55.000 13.54 0.00 35.04 3.71
827 837 0.876777 TGCACGGTACCACTGTTTCG 60.877 55.000 13.54 0.00 35.04 3.46
828 838 0.865769 CTGCACGGTACCACTGTTTC 59.134 55.000 13.54 0.00 35.04 2.78
829 839 0.534203 CCTGCACGGTACCACTGTTT 60.534 55.000 13.54 0.00 35.04 2.83
830 840 1.070786 CCTGCACGGTACCACTGTT 59.929 57.895 13.54 0.00 35.04 3.16
831 841 2.741092 CCTGCACGGTACCACTGT 59.259 61.111 13.54 0.00 38.46 3.55
832 842 2.047274 CCCTGCACGGTACCACTG 60.047 66.667 13.54 7.46 0.00 3.66
833 843 4.016706 GCCCTGCACGGTACCACT 62.017 66.667 13.54 0.00 0.00 4.00
846 856 4.847367 CTACCCGTACCCCGCCCT 62.847 72.222 0.00 0.00 34.38 5.19
848 858 4.839706 TCCTACCCGTACCCCGCC 62.840 72.222 0.00 0.00 34.38 6.13
849 859 2.759560 TTCCTACCCGTACCCCGC 60.760 66.667 0.00 0.00 34.38 6.13
850 860 1.257055 TTGTTCCTACCCGTACCCCG 61.257 60.000 0.00 0.00 0.00 5.73
851 861 0.983467 TTTGTTCCTACCCGTACCCC 59.017 55.000 0.00 0.00 0.00 4.95
852 862 4.141642 ACATATTTGTTCCTACCCGTACCC 60.142 45.833 0.00 0.00 29.55 3.69
853 863 5.027293 ACATATTTGTTCCTACCCGTACC 57.973 43.478 0.00 0.00 29.55 3.34
854 864 5.663456 TGACATATTTGTTCCTACCCGTAC 58.337 41.667 0.00 0.00 35.79 3.67
855 865 5.936187 TGACATATTTGTTCCTACCCGTA 57.064 39.130 0.00 0.00 35.79 4.02
856 866 4.829872 TGACATATTTGTTCCTACCCGT 57.170 40.909 0.00 0.00 35.79 5.28
857 867 4.024048 GCATGACATATTTGTTCCTACCCG 60.024 45.833 0.00 0.00 35.79 5.28
858 868 5.133221 AGCATGACATATTTGTTCCTACCC 58.867 41.667 0.00 0.00 35.79 3.69
859 869 5.239525 GGAGCATGACATATTTGTTCCTACC 59.760 44.000 0.00 0.00 37.66 3.18
860 870 5.822519 TGGAGCATGACATATTTGTTCCTAC 59.177 40.000 10.02 0.00 40.31 3.18
861 871 5.822519 GTGGAGCATGACATATTTGTTCCTA 59.177 40.000 10.02 0.00 40.31 2.94
862 872 4.641989 GTGGAGCATGACATATTTGTTCCT 59.358 41.667 10.02 0.00 40.31 3.36
863 873 4.398988 TGTGGAGCATGACATATTTGTTCC 59.601 41.667 0.00 3.42 40.13 3.62
864 874 5.355071 TCTGTGGAGCATGACATATTTGTTC 59.645 40.000 0.00 0.00 35.79 3.18
865 875 5.255687 TCTGTGGAGCATGACATATTTGTT 58.744 37.500 0.00 0.00 35.79 2.83
866 876 4.847198 TCTGTGGAGCATGACATATTTGT 58.153 39.130 0.00 0.00 39.32 2.83
867 877 6.387041 AATCTGTGGAGCATGACATATTTG 57.613 37.500 0.00 0.00 0.00 2.32
868 878 5.533903 GGAATCTGTGGAGCATGACATATTT 59.466 40.000 0.00 0.00 0.00 1.40
869 879 5.068636 GGAATCTGTGGAGCATGACATATT 58.931 41.667 0.00 0.00 0.00 1.28
870 880 4.649692 GGAATCTGTGGAGCATGACATAT 58.350 43.478 0.00 0.00 0.00 1.78
871 881 3.493176 CGGAATCTGTGGAGCATGACATA 60.493 47.826 0.00 0.00 0.00 2.29
872 882 2.744166 CGGAATCTGTGGAGCATGACAT 60.744 50.000 0.00 0.00 0.00 3.06
873 883 1.405933 CGGAATCTGTGGAGCATGACA 60.406 52.381 0.00 0.00 0.00 3.58
874 884 1.293924 CGGAATCTGTGGAGCATGAC 58.706 55.000 0.00 0.00 0.00 3.06
875 885 0.904649 ACGGAATCTGTGGAGCATGA 59.095 50.000 0.00 0.00 0.00 3.07
876 886 1.742761 AACGGAATCTGTGGAGCATG 58.257 50.000 0.00 0.00 0.00 4.06
877 887 2.086869 CAAACGGAATCTGTGGAGCAT 58.913 47.619 0.00 0.00 0.00 3.79
965 975 0.178068 TATCTGCGGGAAGTTGGCTC 59.822 55.000 0.00 0.00 0.00 4.70
1041 1088 0.391228 TGGTGCTTGTCGCTTGTAGA 59.609 50.000 0.00 0.00 40.11 2.59
1064 1111 2.432628 GGTTGAGTCGAGCCGTGG 60.433 66.667 0.00 0.00 0.00 4.94
1096 1143 2.911143 GGGCTCCATGATCGGTGT 59.089 61.111 0.00 0.00 0.00 4.16
1466 1513 4.379243 AGCTCCTGAACCACGCGG 62.379 66.667 12.47 0.00 38.77 6.46
1467 1514 3.114616 CAGCTCCTGAACCACGCG 61.115 66.667 3.53 3.53 32.44 6.01
1469 1516 2.046892 CCCAGCTCCTGAACCACG 60.047 66.667 0.00 0.00 32.44 4.94
1511 1558 4.347453 GCACCGTGCCCTTGCTTG 62.347 66.667 12.80 0.00 37.42 4.01
1541 1588 3.320879 CTCATGTCTGCCACGCCCT 62.321 63.158 0.00 0.00 0.00 5.19
1551 1598 3.011517 AAGGCGGGGCTCATGTCT 61.012 61.111 0.00 0.00 0.00 3.41
1629 1676 1.209383 CGTCTCGAGCTCGTGGAAA 59.791 57.895 33.33 14.80 40.80 3.13
1779 1826 1.594833 CGAGATGTCCACCCGGAAA 59.405 57.895 0.73 0.00 45.20 3.13
1879 1926 1.973281 CAATCCAACGGCAGCCACT 60.973 57.895 13.30 0.00 0.00 4.00
1953 2000 0.108615 AGGTGAATTGCTCCGTCTCG 60.109 55.000 0.00 0.00 35.30 4.04
2016 2068 2.494918 CCGGACGGCGAGAAGAAT 59.505 61.111 16.62 0.00 0.00 2.40
2389 2441 3.735029 GTCGGTGAGGTCGCTCGT 61.735 66.667 0.00 0.00 0.00 4.18
2862 2914 2.430367 GGCTGGAACTGGTTCGGT 59.570 61.111 7.28 0.00 40.37 4.69
2924 2976 2.031012 CGTTGCTGGTGAGCCTGA 59.969 61.111 0.00 0.00 45.57 3.86
2935 2987 1.443872 CGTTCTCGTAGGCGTTGCT 60.444 57.895 0.00 0.00 39.49 3.91
3048 3100 4.299547 ACGTCGCAGCTGAGCCAA 62.300 61.111 20.43 0.00 0.00 4.52
3072 3124 2.311688 AATCGACGACCATCCCTGCC 62.312 60.000 0.00 0.00 0.00 4.85
3076 3128 1.502231 CATCAATCGACGACCATCCC 58.498 55.000 0.00 0.00 0.00 3.85
3078 3131 1.202533 ACCCATCAATCGACGACCATC 60.203 52.381 0.00 0.00 0.00 3.51
3080 3133 0.108377 CACCCATCAATCGACGACCA 60.108 55.000 0.00 0.00 0.00 4.02
3081 3134 1.429148 GCACCCATCAATCGACGACC 61.429 60.000 0.00 0.00 0.00 4.79
3083 3136 0.460109 CTGCACCCATCAATCGACGA 60.460 55.000 0.00 0.00 0.00 4.20
3084 3137 2.009108 CTGCACCCATCAATCGACG 58.991 57.895 0.00 0.00 0.00 5.12
3086 3139 1.451927 GGCTGCACCCATCAATCGA 60.452 57.895 0.50 0.00 0.00 3.59
3087 3140 1.750018 TGGCTGCACCCATCAATCG 60.750 57.895 0.50 0.00 37.83 3.34
3117 3170 2.806608 TATTATCGACCGAAGCCACC 57.193 50.000 0.00 0.00 0.00 4.61
3142 3198 2.700371 TGAGGATCATTCGCACCACTAT 59.300 45.455 0.00 0.00 42.56 2.12
3145 3201 3.458872 TGAGGATCATTCGCACCAC 57.541 52.632 0.00 0.00 42.56 4.16
3241 3297 5.047847 TGTCACTACTTTAGCTGACAACAC 58.952 41.667 0.00 0.00 40.45 3.32
3251 3307 7.171630 ACCCTTATCAGTGTCACTACTTTAG 57.828 40.000 4.85 0.40 0.00 1.85
3262 3318 1.542492 ACGTCGACCCTTATCAGTGT 58.458 50.000 10.58 0.00 0.00 3.55
3265 3321 3.984508 ACATACGTCGACCCTTATCAG 57.015 47.619 10.58 0.00 0.00 2.90
3269 3325 4.333649 CAGAAGTACATACGTCGACCCTTA 59.666 45.833 10.58 0.00 39.24 2.69
3274 3330 2.097142 AGGCAGAAGTACATACGTCGAC 59.903 50.000 5.18 5.18 39.24 4.20
3276 3332 2.096980 TCAGGCAGAAGTACATACGTCG 59.903 50.000 0.00 0.00 39.24 5.12
3296 3354 1.212229 GTGGTCCGACCGAGTCTTC 59.788 63.158 13.02 0.00 42.58 2.87
3302 3360 1.737355 AAAACTCGTGGTCCGACCGA 61.737 55.000 13.02 6.42 42.58 4.69
3303 3361 0.877213 AAAAACTCGTGGTCCGACCG 60.877 55.000 13.02 2.09 42.58 4.79
3304 3362 0.863799 GAAAAACTCGTGGTCCGACC 59.136 55.000 10.96 10.96 41.60 4.79
3305 3363 1.791204 GAGAAAAACTCGTGGTCCGAC 59.209 52.381 0.00 0.00 41.60 4.79
3306 3364 2.144482 GAGAAAAACTCGTGGTCCGA 57.856 50.000 0.00 0.00 45.00 4.55
3315 3373 7.569774 GCTTTAGGAGAAAGACGAGAAAAACTC 60.570 40.741 1.28 0.00 41.79 3.01
3316 3374 6.203145 GCTTTAGGAGAAAGACGAGAAAAACT 59.797 38.462 1.28 0.00 0.00 2.66
3317 3375 6.364261 GCTTTAGGAGAAAGACGAGAAAAAC 58.636 40.000 1.28 0.00 0.00 2.43
3318 3376 5.469084 GGCTTTAGGAGAAAGACGAGAAAAA 59.531 40.000 1.28 0.00 0.00 1.94
3319 3377 4.995487 GGCTTTAGGAGAAAGACGAGAAAA 59.005 41.667 1.28 0.00 0.00 2.29
3320 3378 4.566987 GGCTTTAGGAGAAAGACGAGAAA 58.433 43.478 1.28 0.00 0.00 2.52
3321 3379 4.189639 GGCTTTAGGAGAAAGACGAGAA 57.810 45.455 1.28 0.00 0.00 2.87
3322 3380 3.870633 GGCTTTAGGAGAAAGACGAGA 57.129 47.619 1.28 0.00 0.00 4.04
3326 3384 2.609916 GCATCGGCTTTAGGAGAAAGAC 59.390 50.000 1.28 0.00 36.96 3.01
3327 3385 2.236146 TGCATCGGCTTTAGGAGAAAGA 59.764 45.455 1.28 0.00 41.91 2.52
3328 3386 2.611292 CTGCATCGGCTTTAGGAGAAAG 59.389 50.000 0.00 0.00 41.91 2.62
3329 3387 2.236146 TCTGCATCGGCTTTAGGAGAAA 59.764 45.455 0.00 0.00 41.91 2.52
3330 3388 1.831106 TCTGCATCGGCTTTAGGAGAA 59.169 47.619 0.00 0.00 41.91 2.87
3331 3389 1.485124 TCTGCATCGGCTTTAGGAGA 58.515 50.000 0.00 0.00 41.91 3.71
3332 3390 2.315925 TTCTGCATCGGCTTTAGGAG 57.684 50.000 0.00 0.00 41.91 3.69
3333 3391 3.281727 AATTCTGCATCGGCTTTAGGA 57.718 42.857 0.00 0.00 41.91 2.94
3334 3392 3.129287 ACAAATTCTGCATCGGCTTTAGG 59.871 43.478 0.00 0.00 41.91 2.69
3335 3393 4.361451 ACAAATTCTGCATCGGCTTTAG 57.639 40.909 0.00 0.00 41.91 1.85
3336 3394 4.484236 CAACAAATTCTGCATCGGCTTTA 58.516 39.130 0.00 0.00 41.91 1.85
3337 3395 3.319755 CAACAAATTCTGCATCGGCTTT 58.680 40.909 0.00 0.00 41.91 3.51
3338 3396 2.353011 CCAACAAATTCTGCATCGGCTT 60.353 45.455 0.00 0.00 41.91 4.35
3339 3397 1.203052 CCAACAAATTCTGCATCGGCT 59.797 47.619 0.00 0.00 41.91 5.52
3340 3398 1.067635 ACCAACAAATTCTGCATCGGC 60.068 47.619 0.00 0.00 41.68 5.54
3341 3399 2.728846 CGACCAACAAATTCTGCATCGG 60.729 50.000 0.00 0.00 0.00 4.18
3342 3400 2.508867 CGACCAACAAATTCTGCATCG 58.491 47.619 0.00 0.00 0.00 3.84
3343 3401 2.867429 CCGACCAACAAATTCTGCATC 58.133 47.619 0.00 0.00 0.00 3.91
3344 3402 1.067635 GCCGACCAACAAATTCTGCAT 60.068 47.619 0.00 0.00 0.00 3.96
3345 3403 0.313672 GCCGACCAACAAATTCTGCA 59.686 50.000 0.00 0.00 0.00 4.41
3346 3404 0.313672 TGCCGACCAACAAATTCTGC 59.686 50.000 0.00 0.00 0.00 4.26
3347 3405 2.030007 ACATGCCGACCAACAAATTCTG 60.030 45.455 0.00 0.00 0.00 3.02
3348 3406 2.238521 ACATGCCGACCAACAAATTCT 58.761 42.857 0.00 0.00 0.00 2.40
3349 3407 2.723124 ACATGCCGACCAACAAATTC 57.277 45.000 0.00 0.00 0.00 2.17
3350 3408 3.305744 GGTTACATGCCGACCAACAAATT 60.306 43.478 7.62 0.00 33.61 1.82
3351 3409 2.230266 GGTTACATGCCGACCAACAAAT 59.770 45.455 7.62 0.00 33.61 2.32
3352 3410 1.609555 GGTTACATGCCGACCAACAAA 59.390 47.619 7.62 0.00 33.61 2.83
3353 3411 1.240256 GGTTACATGCCGACCAACAA 58.760 50.000 7.62 0.00 33.61 2.83
3354 3412 0.108774 TGGTTACATGCCGACCAACA 59.891 50.000 11.69 0.00 40.31 3.33
3355 3413 1.400494 GATGGTTACATGCCGACCAAC 59.600 52.381 16.44 11.65 45.73 3.77
3356 3414 1.745232 GATGGTTACATGCCGACCAA 58.255 50.000 16.44 4.27 45.73 3.67
3357 3415 0.461163 CGATGGTTACATGCCGACCA 60.461 55.000 15.26 15.26 46.57 4.02
3358 3416 0.179094 TCGATGGTTACATGCCGACC 60.179 55.000 0.00 0.00 37.47 4.79
3359 3417 1.792949 GATCGATGGTTACATGCCGAC 59.207 52.381 0.54 0.00 36.54 4.79
3360 3418 1.410882 TGATCGATGGTTACATGCCGA 59.589 47.619 0.54 0.00 37.61 5.54
3361 3419 1.864565 TGATCGATGGTTACATGCCG 58.135 50.000 0.54 0.00 37.47 5.69
3362 3420 3.565482 ACATTGATCGATGGTTACATGCC 59.435 43.478 23.96 0.00 37.47 4.40
3363 3421 4.818534 ACATTGATCGATGGTTACATGC 57.181 40.909 23.96 0.00 37.47 4.06
3364 3422 8.141835 TCTTAACATTGATCGATGGTTACATG 57.858 34.615 23.96 7.99 37.47 3.21
3365 3423 7.987458 ACTCTTAACATTGATCGATGGTTACAT 59.013 33.333 23.96 2.21 40.85 2.29
3366 3424 7.327975 ACTCTTAACATTGATCGATGGTTACA 58.672 34.615 23.96 3.08 0.00 2.41
3367 3425 7.772332 ACTCTTAACATTGATCGATGGTTAC 57.228 36.000 23.96 0.00 0.00 2.50
3368 3426 8.692710 ACTACTCTTAACATTGATCGATGGTTA 58.307 33.333 23.96 12.79 0.00 2.85
3369 3427 7.556844 ACTACTCTTAACATTGATCGATGGTT 58.443 34.615 23.96 17.48 0.00 3.67
3370 3428 7.113658 ACTACTCTTAACATTGATCGATGGT 57.886 36.000 23.96 20.99 0.00 3.55
3371 3429 9.698309 ATAACTACTCTTAACATTGATCGATGG 57.302 33.333 23.96 9.76 0.00 3.51
3395 3453 9.797642 TTGGACTAGAAGTCGTATACCATAATA 57.202 33.333 0.00 0.00 45.96 0.98
3422 3480 4.116113 TGGGATAGGGGTACAAAACTGAT 58.884 43.478 0.00 0.00 0.00 2.90
3736 3795 0.270699 ACTATGGGGATGTAGGGGCA 59.729 55.000 0.00 0.00 0.00 5.36


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

AutoCloner maintained by Alex Coulton.