Multiple sequence alignment - TraesCS2D01G496900

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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 TraesCS2D01G496900 chr2D 100.000 3856 0 0 1 3856 593136461 593140316 0.000000e+00 7121.0
1 TraesCS2D01G496900 chr2D 86.621 1024 111 10 1006 2019 593165308 593164301 0.000000e+00 1109.0
2 TraesCS2D01G496900 chr2D 79.446 686 79 24 2556 3204 593158834 593158174 2.750000e-116 429.0
3 TraesCS2D01G496900 chr2D 86.066 366 50 1 2075 2439 593164293 593163928 3.610000e-105 392.0
4 TraesCS2D01G496900 chr2B 89.982 2266 165 27 869 3089 719167999 719170247 0.000000e+00 2870.0
5 TraesCS2D01G496900 chr2B 84.815 1429 164 21 1015 2439 719200464 719199085 0.000000e+00 1387.0
6 TraesCS2D01G496900 chr2B 74.933 742 168 14 1426 2155 557365374 557364639 1.340000e-84 324.0
7 TraesCS2D01G496900 chr2B 96.774 93 1 2 790 881 719167880 719167971 1.860000e-33 154.0
8 TraesCS2D01G496900 chr2B 100.000 68 0 0 735 802 719158294 719158361 4.040000e-25 126.0
9 TraesCS2D01G496900 chr2B 100.000 28 0 0 1242 1269 719200343 719200316 7.000000e-03 52.8
10 TraesCS2D01G496900 chr2A 84.754 1443 172 18 1006 2439 727687826 727686423 0.000000e+00 1402.0
11 TraesCS2D01G496900 chr2A 91.480 716 26 11 1 692 78766512 78767216 0.000000e+00 952.0
12 TraesCS2D01G496900 chr2A 76.993 439 95 5 1556 1991 618435118 618434683 2.980000e-61 246.0
13 TraesCS2D01G496900 chr5D 97.724 659 13 2 3200 3856 431275777 431275119 0.000000e+00 1133.0
14 TraesCS2D01G496900 chr5D 97.269 659 16 2 3200 3856 552111371 552112029 0.000000e+00 1116.0
15 TraesCS2D01G496900 chr5D 96.813 659 18 3 3200 3856 432921562 432920905 0.000000e+00 1098.0
16 TraesCS2D01G496900 chr5D 96.526 662 20 3 3197 3856 529772403 529773063 0.000000e+00 1092.0
17 TraesCS2D01G496900 chr5D 92.598 716 22 8 1 692 541599479 541600187 0.000000e+00 1000.0
18 TraesCS2D01G496900 chr6D 97.269 659 15 3 3200 3856 13253668 13253011 0.000000e+00 1114.0
19 TraesCS2D01G496900 chr1D 97.117 659 17 2 3200 3856 59044595 59043937 0.000000e+00 1110.0
20 TraesCS2D01G496900 chr1D 91.226 718 31 10 1 694 488501288 488501997 0.000000e+00 948.0
21 TraesCS2D01G496900 chr1D 90.833 720 33 9 1 694 8038863 8039575 0.000000e+00 933.0
22 TraesCS2D01G496900 chr1D 93.981 432 6 4 1 414 455079249 455079678 1.510000e-178 636.0
23 TraesCS2D01G496900 chr4D 96.965 659 17 3 3200 3856 54305484 54304827 0.000000e+00 1103.0
24 TraesCS2D01G496900 chr4D 89.833 718 36 11 1 694 51991274 51991978 0.000000e+00 887.0
25 TraesCS2D01G496900 chr3D 96.682 663 19 3 3196 3856 585379336 585379997 0.000000e+00 1099.0
26 TraesCS2D01G496900 chr3D 96.813 659 19 2 3200 3856 586165283 586164625 0.000000e+00 1099.0
27 TraesCS2D01G496900 chr3D 85.513 711 36 27 1 692 7412963 7412301 0.000000e+00 680.0
28 TraesCS2D01G496900 chr7D 92.350 719 24 10 1 695 576855631 576854920 0.000000e+00 994.0
29 TraesCS2D01G496900 chr7D 91.771 717 24 10 1 692 14574880 14575586 0.000000e+00 965.0
30 TraesCS2D01G496900 chr7D 91.492 717 23 11 1 693 32809403 32810105 0.000000e+00 952.0
31 TraesCS2D01G496900 chr7D 90.014 721 37 15 1 697 525706801 525706092 0.000000e+00 900.0
32 TraesCS2D01G496900 chr7D 89.679 717 28 8 1 694 365981098 365981791 0.000000e+00 872.0
33 TraesCS2D01G496900 chrUn 91.197 727 31 12 1 702 103887255 103887973 0.000000e+00 957.0
34 TraesCS2D01G496900 chr4A 90.125 719 38 13 1 695 12520313 12519604 0.000000e+00 904.0
35 TraesCS2D01G496900 chr7A 87.304 701 68 9 1 694 33182531 33181845 0.000000e+00 782.0
36 TraesCS2D01G496900 chr7A 83.853 706 85 16 1 690 675434768 675434076 0.000000e+00 645.0
37 TraesCS2D01G496900 chr6B 91.892 74 6 0 2583 2656 123582048 123582121 1.890000e-18 104.0


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 TraesCS2D01G496900 chr2D 593136461 593140316 3855 False 7121.0 7121 100.0000 1 3856 1 chr2D.!!$F1 3855
1 TraesCS2D01G496900 chr2D 593163928 593165308 1380 True 750.5 1109 86.3435 1006 2439 2 chr2D.!!$R2 1433
2 TraesCS2D01G496900 chr2D 593158174 593158834 660 True 429.0 429 79.4460 2556 3204 1 chr2D.!!$R1 648
3 TraesCS2D01G496900 chr2B 719167880 719170247 2367 False 1512.0 2870 93.3780 790 3089 2 chr2B.!!$F2 2299
4 TraesCS2D01G496900 chr2B 719199085 719200464 1379 True 719.9 1387 92.4075 1015 2439 2 chr2B.!!$R2 1424
5 TraesCS2D01G496900 chr2B 557364639 557365374 735 True 324.0 324 74.9330 1426 2155 1 chr2B.!!$R1 729
6 TraesCS2D01G496900 chr2A 727686423 727687826 1403 True 1402.0 1402 84.7540 1006 2439 1 chr2A.!!$R2 1433
7 TraesCS2D01G496900 chr2A 78766512 78767216 704 False 952.0 952 91.4800 1 692 1 chr2A.!!$F1 691
8 TraesCS2D01G496900 chr5D 431275119 431275777 658 True 1133.0 1133 97.7240 3200 3856 1 chr5D.!!$R1 656
9 TraesCS2D01G496900 chr5D 552111371 552112029 658 False 1116.0 1116 97.2690 3200 3856 1 chr5D.!!$F3 656
10 TraesCS2D01G496900 chr5D 432920905 432921562 657 True 1098.0 1098 96.8130 3200 3856 1 chr5D.!!$R2 656
11 TraesCS2D01G496900 chr5D 529772403 529773063 660 False 1092.0 1092 96.5260 3197 3856 1 chr5D.!!$F1 659
12 TraesCS2D01G496900 chr5D 541599479 541600187 708 False 1000.0 1000 92.5980 1 692 1 chr5D.!!$F2 691
13 TraesCS2D01G496900 chr6D 13253011 13253668 657 True 1114.0 1114 97.2690 3200 3856 1 chr6D.!!$R1 656
14 TraesCS2D01G496900 chr1D 59043937 59044595 658 True 1110.0 1110 97.1170 3200 3856 1 chr1D.!!$R1 656
15 TraesCS2D01G496900 chr1D 488501288 488501997 709 False 948.0 948 91.2260 1 694 1 chr1D.!!$F3 693
16 TraesCS2D01G496900 chr1D 8038863 8039575 712 False 933.0 933 90.8330 1 694 1 chr1D.!!$F1 693
17 TraesCS2D01G496900 chr4D 54304827 54305484 657 True 1103.0 1103 96.9650 3200 3856 1 chr4D.!!$R1 656
18 TraesCS2D01G496900 chr4D 51991274 51991978 704 False 887.0 887 89.8330 1 694 1 chr4D.!!$F1 693
19 TraesCS2D01G496900 chr3D 585379336 585379997 661 False 1099.0 1099 96.6820 3196 3856 1 chr3D.!!$F1 660
20 TraesCS2D01G496900 chr3D 586164625 586165283 658 True 1099.0 1099 96.8130 3200 3856 1 chr3D.!!$R2 656
21 TraesCS2D01G496900 chr3D 7412301 7412963 662 True 680.0 680 85.5130 1 692 1 chr3D.!!$R1 691
22 TraesCS2D01G496900 chr7D 576854920 576855631 711 True 994.0 994 92.3500 1 695 1 chr7D.!!$R2 694
23 TraesCS2D01G496900 chr7D 14574880 14575586 706 False 965.0 965 91.7710 1 692 1 chr7D.!!$F1 691
24 TraesCS2D01G496900 chr7D 32809403 32810105 702 False 952.0 952 91.4920 1 693 1 chr7D.!!$F2 692
25 TraesCS2D01G496900 chr7D 525706092 525706801 709 True 900.0 900 90.0140 1 697 1 chr7D.!!$R1 696
26 TraesCS2D01G496900 chr7D 365981098 365981791 693 False 872.0 872 89.6790 1 694 1 chr7D.!!$F3 693
27 TraesCS2D01G496900 chrUn 103887255 103887973 718 False 957.0 957 91.1970 1 702 1 chrUn.!!$F1 701
28 TraesCS2D01G496900 chr4A 12519604 12520313 709 True 904.0 904 90.1250 1 695 1 chr4A.!!$R1 694
29 TraesCS2D01G496900 chr7A 33181845 33182531 686 True 782.0 782 87.3040 1 694 1 chr7A.!!$R1 693
30 TraesCS2D01G496900 chr7A 675434076 675434768 692 True 645.0 645 83.8530 1 690 1 chr7A.!!$R2 689

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
885 951 0.108424 CCGAGAAACAGAGGCAGGAG 60.108 60.0 0.0 0.0 0.00 3.69 F
1467 1576 0.037326 TCAAGATGAAGGCGTTCGCT 60.037 50.0 16.4 10.8 35.17 4.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2237 2379 0.033366 AAGAAAACGCATTGGGGTGC 59.967 50.0 5.65 0.0 40.48 5.01 R
2969 3175 0.106116 GACCCTGTATCCTCTCCCGT 60.106 60.0 0.00 0.0 0.00 5.28 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
697 763 3.951037 TCTGCTAGAGTTGCTCTAAGAGG 59.049 47.826 7.22 0.00 41.74 3.69
698 764 3.027412 TGCTAGAGTTGCTCTAAGAGGG 58.973 50.000 7.22 0.00 41.74 4.30
699 765 2.364002 GCTAGAGTTGCTCTAAGAGGGG 59.636 54.545 7.22 0.00 41.74 4.79
700 766 2.930109 AGAGTTGCTCTAAGAGGGGA 57.070 50.000 0.00 0.00 39.28 4.81
701 767 3.191888 AGAGTTGCTCTAAGAGGGGAA 57.808 47.619 0.00 0.00 39.28 3.97
702 768 3.521727 AGAGTTGCTCTAAGAGGGGAAA 58.478 45.455 0.00 0.00 39.28 3.13
703 769 3.262151 AGAGTTGCTCTAAGAGGGGAAAC 59.738 47.826 0.00 0.00 39.28 2.78
704 770 2.028020 AGTTGCTCTAAGAGGGGAAACG 60.028 50.000 0.00 0.00 0.00 3.60
705 771 0.902531 TGCTCTAAGAGGGGAAACGG 59.097 55.000 0.00 0.00 0.00 4.44
706 772 1.192428 GCTCTAAGAGGGGAAACGGA 58.808 55.000 0.00 0.00 0.00 4.69
707 773 1.553704 GCTCTAAGAGGGGAAACGGAA 59.446 52.381 0.00 0.00 0.00 4.30
708 774 2.677325 GCTCTAAGAGGGGAAACGGAAC 60.677 54.545 0.00 0.00 0.00 3.62
709 775 1.904537 TCTAAGAGGGGAAACGGAACC 59.095 52.381 0.00 0.00 0.00 3.62
710 776 1.907255 CTAAGAGGGGAAACGGAACCT 59.093 52.381 0.00 0.00 35.67 3.50
711 777 1.146452 AAGAGGGGAAACGGAACCTT 58.854 50.000 0.00 0.00 32.42 3.50
712 778 2.034436 AGAGGGGAAACGGAACCTTA 57.966 50.000 0.00 0.00 32.42 2.69
713 779 1.907255 AGAGGGGAAACGGAACCTTAG 59.093 52.381 0.00 0.00 32.42 2.18
714 780 1.904537 GAGGGGAAACGGAACCTTAGA 59.095 52.381 0.00 0.00 32.42 2.10
715 781 2.303890 GAGGGGAAACGGAACCTTAGAA 59.696 50.000 0.00 0.00 32.42 2.10
716 782 2.917600 AGGGGAAACGGAACCTTAGAAT 59.082 45.455 0.00 0.00 0.00 2.40
717 783 3.332783 AGGGGAAACGGAACCTTAGAATT 59.667 43.478 0.00 0.00 0.00 2.17
718 784 4.084287 GGGGAAACGGAACCTTAGAATTT 58.916 43.478 0.00 0.00 0.00 1.82
719 785 4.525487 GGGGAAACGGAACCTTAGAATTTT 59.475 41.667 0.00 0.00 0.00 1.82
720 786 5.011329 GGGGAAACGGAACCTTAGAATTTTT 59.989 40.000 0.00 0.00 0.00 1.94
743 809 8.990163 TTTTTAGGTGGTAGAGAAAATGTCTT 57.010 30.769 0.00 0.00 36.41 3.01
744 810 8.990163 TTTTAGGTGGTAGAGAAAATGTCTTT 57.010 30.769 0.00 0.00 36.41 2.52
745 811 8.990163 TTTAGGTGGTAGAGAAAATGTCTTTT 57.010 30.769 0.00 0.00 36.41 2.27
769 835 9.750125 TTTCTTTTTCTTTTGAGAGAAATAGCC 57.250 29.630 10.82 0.00 43.15 3.93
770 836 7.584987 TCTTTTTCTTTTGAGAGAAATAGCCG 58.415 34.615 10.82 0.00 43.15 5.52
771 837 4.946784 TTCTTTTGAGAGAAATAGCCGC 57.053 40.909 0.00 0.00 32.95 6.53
772 838 4.207891 TCTTTTGAGAGAAATAGCCGCT 57.792 40.909 0.00 0.00 0.00 5.52
773 839 4.184629 TCTTTTGAGAGAAATAGCCGCTC 58.815 43.478 0.00 0.00 0.00 5.03
774 840 3.610040 TTTGAGAGAAATAGCCGCTCA 57.390 42.857 0.00 0.00 38.39 4.26
775 841 2.879002 TGAGAGAAATAGCCGCTCAG 57.121 50.000 0.00 0.00 35.95 3.35
776 842 2.103373 TGAGAGAAATAGCCGCTCAGT 58.897 47.619 0.00 0.00 35.95 3.41
777 843 2.497675 TGAGAGAAATAGCCGCTCAGTT 59.502 45.455 0.00 0.00 35.95 3.16
778 844 3.120041 GAGAGAAATAGCCGCTCAGTTC 58.880 50.000 0.00 0.00 31.97 3.01
779 845 2.763448 AGAGAAATAGCCGCTCAGTTCT 59.237 45.455 11.13 11.13 0.00 3.01
780 846 3.120041 GAGAAATAGCCGCTCAGTTCTC 58.880 50.000 17.91 17.91 35.61 2.87
781 847 2.763448 AGAAATAGCCGCTCAGTTCTCT 59.237 45.455 0.00 0.00 0.00 3.10
782 848 2.880963 AATAGCCGCTCAGTTCTCTC 57.119 50.000 0.00 0.00 0.00 3.20
783 849 1.769026 ATAGCCGCTCAGTTCTCTCA 58.231 50.000 0.00 0.00 0.00 3.27
784 850 1.545841 TAGCCGCTCAGTTCTCTCAA 58.454 50.000 0.00 0.00 0.00 3.02
785 851 0.901124 AGCCGCTCAGTTCTCTCAAT 59.099 50.000 0.00 0.00 0.00 2.57
786 852 1.134848 AGCCGCTCAGTTCTCTCAATC 60.135 52.381 0.00 0.00 0.00 2.67
787 853 1.554392 CCGCTCAGTTCTCTCAATCG 58.446 55.000 0.00 0.00 0.00 3.34
788 854 1.135257 CCGCTCAGTTCTCTCAATCGT 60.135 52.381 0.00 0.00 0.00 3.73
789 855 1.916651 CGCTCAGTTCTCTCAATCGTG 59.083 52.381 0.00 0.00 0.00 4.35
790 856 2.414691 CGCTCAGTTCTCTCAATCGTGA 60.415 50.000 0.00 0.00 0.00 4.35
791 857 3.733380 CGCTCAGTTCTCTCAATCGTGAT 60.733 47.826 0.00 0.00 31.85 3.06
792 858 4.496507 CGCTCAGTTCTCTCAATCGTGATA 60.497 45.833 0.00 0.00 31.85 2.15
793 859 5.344066 GCTCAGTTCTCTCAATCGTGATAA 58.656 41.667 0.00 0.00 31.85 1.75
842 908 1.421485 GATTGAGCGGAACTGCACG 59.579 57.895 8.34 0.00 37.31 5.34
854 920 3.211564 CTGCACGGGCCCAACAAAG 62.212 63.158 24.92 6.57 40.13 2.77
881 947 2.172483 GAGCCCGAGAAACAGAGGCA 62.172 60.000 1.74 0.00 46.35 4.75
882 948 1.743252 GCCCGAGAAACAGAGGCAG 60.743 63.158 0.00 0.00 43.32 4.85
883 949 1.078848 CCCGAGAAACAGAGGCAGG 60.079 63.158 0.00 0.00 0.00 4.85
885 951 0.108424 CCGAGAAACAGAGGCAGGAG 60.108 60.000 0.00 0.00 0.00 3.69
886 952 0.891373 CGAGAAACAGAGGCAGGAGA 59.109 55.000 0.00 0.00 0.00 3.71
887 953 1.135141 CGAGAAACAGAGGCAGGAGAG 60.135 57.143 0.00 0.00 0.00 3.20
888 954 1.206849 GAGAAACAGAGGCAGGAGAGG 59.793 57.143 0.00 0.00 0.00 3.69
889 955 0.251634 GAAACAGAGGCAGGAGAGGG 59.748 60.000 0.00 0.00 0.00 4.30
890 956 0.474660 AAACAGAGGCAGGAGAGGGT 60.475 55.000 0.00 0.00 0.00 4.34
891 957 0.907230 AACAGAGGCAGGAGAGGGTC 60.907 60.000 0.00 0.00 0.00 4.46
907 1009 1.054406 GGTCGATCCTTCCCATCCCA 61.054 60.000 0.00 0.00 0.00 4.37
1035 1138 2.736826 GGAGGAGGGGAAGAAGGCG 61.737 68.421 0.00 0.00 0.00 5.52
1038 1141 2.064581 GGAGGGGAAGAAGGCGCTA 61.065 63.158 7.64 0.00 0.00 4.26
1467 1576 0.037326 TCAAGATGAAGGCGTTCGCT 60.037 50.000 16.40 10.80 35.17 4.93
1795 1907 1.608055 TGGTGTCAAGCTTGGTGATG 58.392 50.000 25.73 0.00 0.00 3.07
1815 1927 0.107410 TCCTCTTTGTGTTGCACGGT 60.107 50.000 0.00 0.00 37.14 4.83
1822 1934 0.678366 TGTGTTGCACGGTTGGTCTT 60.678 50.000 0.00 0.00 37.14 3.01
1878 1990 6.042093 AGTTCTATGTCTCTTCCAAGTTCACA 59.958 38.462 0.00 0.00 0.00 3.58
1879 1991 6.419484 TCTATGTCTCTTCCAAGTTCACAA 57.581 37.500 0.00 0.00 0.00 3.33
1887 1999 3.208747 TCCAAGTTCACAAAGGAGTCC 57.791 47.619 0.00 0.00 0.00 3.85
1896 2008 3.327757 TCACAAAGGAGTCCTTGTATGCT 59.672 43.478 25.25 5.41 43.92 3.79
1944 2056 1.550976 ACGGTCCCTGTTGAGAATCTC 59.449 52.381 2.75 2.75 34.92 2.75
1946 2058 2.675317 CGGTCCCTGTTGAGAATCTCAC 60.675 54.545 13.17 8.89 40.46 3.51
2002 2114 5.126396 ACAAGATAAAAGGAAAGTGCAGC 57.874 39.130 0.00 0.00 0.00 5.25
2237 2379 6.506500 AGAATTTGAGGACACTTGCTATTG 57.493 37.500 0.00 0.00 0.00 1.90
2263 2405 3.376540 CCAATGCGTTTTCTTTTCGGAA 58.623 40.909 0.00 0.00 0.00 4.30
2273 2415 5.907866 TTTCTTTTCGGAAAACCTGAACT 57.092 34.783 11.68 0.00 39.73 3.01
2316 2458 2.776536 AGAGGAGCTATGCCAAAGTGAT 59.223 45.455 0.00 0.00 0.00 3.06
2331 2473 3.263489 AGTGATGAGATGTGCAAGGAG 57.737 47.619 0.00 0.00 0.00 3.69
2333 2475 2.676839 GTGATGAGATGTGCAAGGAGTG 59.323 50.000 0.00 0.00 0.00 3.51
2356 2498 5.592282 TGTCTAGAGGAGTCTATGAAGCTTG 59.408 44.000 2.10 0.00 34.63 4.01
2357 2500 3.817709 AGAGGAGTCTATGAAGCTTGC 57.182 47.619 2.10 0.00 0.00 4.01
2366 2509 5.128499 AGTCTATGAAGCTTGCAGTACAGAT 59.872 40.000 2.10 0.00 0.00 2.90
2375 2518 3.676291 TGCAGTACAGATGTAAGTGCA 57.324 42.857 19.76 19.76 44.09 4.57
2384 2528 8.721478 AGTACAGATGTAAGTGCACTATTTTTG 58.279 33.333 22.01 16.11 31.52 2.44
2388 2532 8.400947 CAGATGTAAGTGCACTATTTTTGCTAT 58.599 33.333 22.01 2.33 40.86 2.97
2390 2534 7.921786 TGTAAGTGCACTATTTTTGCTATCT 57.078 32.000 22.01 1.52 40.86 1.98
2418 2562 6.145535 GTCTTCATTTTAGCTCACTTGTTGG 58.854 40.000 0.00 0.00 0.00 3.77
2441 2585 8.786826 TGGTAGGTAATTTGTCTGAAGTTATG 57.213 34.615 0.00 0.00 0.00 1.90
2477 2622 5.896073 AGTCCTAGTAGCCTAAAATGCAT 57.104 39.130 0.00 0.00 0.00 3.96
2483 2628 9.101325 TCCTAGTAGCCTAAAATGCATACTATT 57.899 33.333 0.00 0.00 31.18 1.73
2497 2642 6.414732 TGCATACTATTAGCACTTGGTTTCT 58.585 36.000 0.00 0.00 32.55 2.52
2499 2644 8.044309 TGCATACTATTAGCACTTGGTTTCTTA 58.956 33.333 0.00 0.00 32.55 2.10
2500 2645 9.057089 GCATACTATTAGCACTTGGTTTCTTAT 57.943 33.333 0.00 0.00 0.00 1.73
2508 2653 9.906660 TTAGCACTTGGTTTCTTATGTATTTTG 57.093 29.630 0.00 0.00 0.00 2.44
2517 2664 4.599041 TCTTATGTATTTTGTGGCCTGCT 58.401 39.130 3.32 0.00 0.00 4.24
2523 2670 4.342378 TGTATTTTGTGGCCTGCTTTGTTA 59.658 37.500 3.32 0.00 0.00 2.41
2623 2771 7.172532 GGTCTGAAATGTATGAGTGTTGTACAA 59.827 37.037 3.59 3.59 32.65 2.41
2656 2804 3.871006 TGTATGCTGTAGCTGTAACATGC 59.129 43.478 5.38 0.00 42.66 4.06
2718 2881 2.681976 GCCTCTGCAGTTACATGTGGAT 60.682 50.000 14.67 0.00 37.47 3.41
2725 2888 6.265196 TCTGCAGTTACATGTGGATTTTTCTT 59.735 34.615 14.67 0.00 0.00 2.52
2726 2889 6.446318 TGCAGTTACATGTGGATTTTTCTTC 58.554 36.000 9.11 0.00 0.00 2.87
2727 2890 6.265196 TGCAGTTACATGTGGATTTTTCTTCT 59.735 34.615 9.11 0.00 0.00 2.85
2728 2891 6.583806 GCAGTTACATGTGGATTTTTCTTCTG 59.416 38.462 9.11 0.08 0.00 3.02
2729 2892 7.522073 GCAGTTACATGTGGATTTTTCTTCTGA 60.522 37.037 9.11 0.00 0.00 3.27
2730 2893 8.019669 CAGTTACATGTGGATTTTTCTTCTGAG 58.980 37.037 9.11 0.00 0.00 3.35
2731 2894 7.939039 AGTTACATGTGGATTTTTCTTCTGAGA 59.061 33.333 9.11 0.00 0.00 3.27
2732 2895 8.567948 GTTACATGTGGATTTTTCTTCTGAGAA 58.432 33.333 9.11 0.00 40.07 2.87
2733 2896 7.771927 ACATGTGGATTTTTCTTCTGAGAAT 57.228 32.000 0.00 0.00 41.35 2.40
2734 2897 7.824672 ACATGTGGATTTTTCTTCTGAGAATC 58.175 34.615 0.00 0.00 41.35 2.52
2735 2898 6.486253 TGTGGATTTTTCTTCTGAGAATCG 57.514 37.500 0.00 0.00 41.35 3.34
2736 2899 5.106555 TGTGGATTTTTCTTCTGAGAATCGC 60.107 40.000 0.00 0.00 41.35 4.58
2737 2900 5.123027 GTGGATTTTTCTTCTGAGAATCGCT 59.877 40.000 0.00 0.00 41.35 4.93
2743 2919 3.892284 TCTTCTGAGAATCGCTACCTCT 58.108 45.455 0.00 0.00 38.61 3.69
2744 2920 3.629855 TCTTCTGAGAATCGCTACCTCTG 59.370 47.826 0.00 0.00 38.61 3.35
2816 2993 1.136329 ATCTTGGTGGTGGTGGAGCT 61.136 55.000 0.00 0.00 0.00 4.09
2833 3010 1.937924 GCTGGGGCAGGTAAGGGAAT 61.938 60.000 0.00 0.00 38.54 3.01
2838 3015 2.690840 GGGCAGGTAAGGGAATAGAGA 58.309 52.381 0.00 0.00 0.00 3.10
2860 3042 1.349627 CATCGCCAGCATGACGAAC 59.650 57.895 0.00 0.00 39.69 3.95
3075 3287 9.657419 ATGGTTATAATCAAAAAGAGCCTTTTG 57.343 29.630 1.78 10.48 44.27 2.44
3077 3289 8.094548 GGTTATAATCAAAAAGAGCCTTTTGGT 58.905 33.333 11.96 5.29 43.48 3.67
3078 3290 9.140286 GTTATAATCAAAAAGAGCCTTTTGGTC 57.860 33.333 11.96 0.00 43.48 4.02
3104 3326 4.891992 AAAAAGAGCCTAGCTACTGTCA 57.108 40.909 0.00 0.00 39.88 3.58
3112 3334 4.099266 AGCCTAGCTACTGTCAAGATTCAG 59.901 45.833 0.00 0.00 36.99 3.02
3122 3346 7.081526 ACTGTCAAGATTCAGATAATGCAAC 57.918 36.000 0.00 0.00 35.84 4.17
3178 3403 5.645056 AACCCTGGGTTTCAATTCATTTT 57.355 34.783 25.42 0.00 44.33 1.82
3180 3405 6.755542 ACCCTGGGTTTCAATTCATTTTTA 57.244 33.333 14.05 0.00 27.29 1.52
3183 3408 6.465035 CCCTGGGTTTCAATTCATTTTTACCA 60.465 38.462 3.97 0.00 0.00 3.25
3248 3473 5.760253 CACAGGACAGTTTTCACATTAGTCT 59.240 40.000 0.00 0.00 0.00 3.24
3260 3485 4.279922 TCACATTAGTCTCGGTTCAGTCAA 59.720 41.667 0.00 0.00 0.00 3.18
3357 3582 1.368579 GTTCGTCCGGACCCTTTGA 59.631 57.895 28.52 16.47 0.00 2.69
3359 3584 0.688487 TTCGTCCGGACCCTTTGATT 59.312 50.000 28.52 0.00 0.00 2.57
3453 3678 1.279846 CAAACCGGGACTAAAGGCCTA 59.720 52.381 5.16 0.00 0.00 3.93
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
419 472 4.463788 CACCATTGCCCCCTCCCC 62.464 72.222 0.00 0.00 0.00 4.81
420 473 4.463788 CCACCATTGCCCCCTCCC 62.464 72.222 0.00 0.00 0.00 4.30
624 688 0.745486 GTCAAATTACGGGTCGGGGG 60.745 60.000 0.00 0.00 0.00 5.40
697 763 5.717078 AAAATTCTAAGGTTCCGTTTCCC 57.283 39.130 0.00 0.00 0.00 3.97
718 784 8.990163 AAGACATTTTCTCTACCACCTAAAAA 57.010 30.769 0.00 0.00 31.02 1.94
719 785 8.990163 AAAGACATTTTCTCTACCACCTAAAA 57.010 30.769 0.00 0.00 31.02 1.52
720 786 8.990163 AAAAGACATTTTCTCTACCACCTAAA 57.010 30.769 0.00 0.00 33.21 1.85
743 809 9.750125 GGCTATTTCTCTCAAAAGAAAAAGAAA 57.250 29.630 3.45 0.00 45.62 2.52
744 810 8.076178 CGGCTATTTCTCTCAAAAGAAAAAGAA 58.924 33.333 3.45 0.00 45.62 2.52
745 811 7.584987 CGGCTATTTCTCTCAAAAGAAAAAGA 58.415 34.615 3.45 0.00 45.62 2.52
746 812 6.306596 GCGGCTATTTCTCTCAAAAGAAAAAG 59.693 38.462 3.45 0.00 45.62 2.27
747 813 6.016276 AGCGGCTATTTCTCTCAAAAGAAAAA 60.016 34.615 0.00 0.00 45.62 1.94
748 814 5.473504 AGCGGCTATTTCTCTCAAAAGAAAA 59.526 36.000 0.00 0.00 45.62 2.29
749 815 5.003804 AGCGGCTATTTCTCTCAAAAGAAA 58.996 37.500 0.00 1.91 46.31 2.52
750 816 4.579869 AGCGGCTATTTCTCTCAAAAGAA 58.420 39.130 0.00 0.00 33.50 2.52
751 817 4.184629 GAGCGGCTATTTCTCTCAAAAGA 58.815 43.478 0.60 0.00 0.00 2.52
752 818 3.935203 TGAGCGGCTATTTCTCTCAAAAG 59.065 43.478 0.60 0.00 31.62 2.27
753 819 3.935203 CTGAGCGGCTATTTCTCTCAAAA 59.065 43.478 0.60 0.00 33.93 2.44
754 820 3.055819 ACTGAGCGGCTATTTCTCTCAAA 60.056 43.478 0.60 0.00 33.93 2.69
755 821 2.497675 ACTGAGCGGCTATTTCTCTCAA 59.502 45.455 0.60 0.00 33.93 3.02
756 822 2.103373 ACTGAGCGGCTATTTCTCTCA 58.897 47.619 0.60 0.00 33.35 3.27
757 823 2.880963 ACTGAGCGGCTATTTCTCTC 57.119 50.000 0.60 0.00 0.00 3.20
758 824 2.763448 AGAACTGAGCGGCTATTTCTCT 59.237 45.455 0.60 0.00 0.00 3.10
759 825 3.120041 GAGAACTGAGCGGCTATTTCTC 58.880 50.000 21.99 21.99 34.06 2.87
760 826 2.763448 AGAGAACTGAGCGGCTATTTCT 59.237 45.455 16.06 16.06 0.00 2.52
761 827 3.120041 GAGAGAACTGAGCGGCTATTTC 58.880 50.000 0.60 6.05 0.00 2.17
762 828 2.497675 TGAGAGAACTGAGCGGCTATTT 59.502 45.455 0.60 0.00 0.00 1.40
763 829 2.103373 TGAGAGAACTGAGCGGCTATT 58.897 47.619 0.60 0.00 0.00 1.73
764 830 1.769026 TGAGAGAACTGAGCGGCTAT 58.231 50.000 0.60 0.00 0.00 2.97
765 831 1.545841 TTGAGAGAACTGAGCGGCTA 58.454 50.000 0.60 0.00 0.00 3.93
766 832 0.901124 ATTGAGAGAACTGAGCGGCT 59.099 50.000 0.00 0.00 0.00 5.52
767 833 1.285578 GATTGAGAGAACTGAGCGGC 58.714 55.000 0.00 0.00 0.00 6.53
768 834 1.135257 ACGATTGAGAGAACTGAGCGG 60.135 52.381 0.00 0.00 0.00 5.52
769 835 1.916651 CACGATTGAGAGAACTGAGCG 59.083 52.381 0.00 0.00 0.00 5.03
770 836 3.223423 TCACGATTGAGAGAACTGAGC 57.777 47.619 0.00 0.00 0.00 4.26
771 837 6.559810 ACTTATCACGATTGAGAGAACTGAG 58.440 40.000 0.00 0.00 34.35 3.35
772 838 6.516739 ACTTATCACGATTGAGAGAACTGA 57.483 37.500 0.00 0.00 34.35 3.41
773 839 6.915300 CCTACTTATCACGATTGAGAGAACTG 59.085 42.308 0.00 0.00 34.35 3.16
774 840 6.460399 GCCTACTTATCACGATTGAGAGAACT 60.460 42.308 0.00 0.00 34.35 3.01
775 841 5.688176 GCCTACTTATCACGATTGAGAGAAC 59.312 44.000 0.00 0.00 34.35 3.01
776 842 5.359860 TGCCTACTTATCACGATTGAGAGAA 59.640 40.000 0.00 0.00 34.35 2.87
777 843 4.887655 TGCCTACTTATCACGATTGAGAGA 59.112 41.667 0.00 0.00 34.35 3.10
778 844 4.979197 GTGCCTACTTATCACGATTGAGAG 59.021 45.833 0.00 0.00 34.35 3.20
779 845 4.202121 GGTGCCTACTTATCACGATTGAGA 60.202 45.833 0.00 0.00 34.35 3.27
780 846 4.051922 GGTGCCTACTTATCACGATTGAG 58.948 47.826 0.00 0.00 34.35 3.02
781 847 3.490249 CGGTGCCTACTTATCACGATTGA 60.490 47.826 0.00 0.00 35.73 2.57
782 848 2.794910 CGGTGCCTACTTATCACGATTG 59.205 50.000 0.00 0.00 0.00 2.67
783 849 2.691526 TCGGTGCCTACTTATCACGATT 59.308 45.455 0.00 0.00 0.00 3.34
784 850 2.304092 TCGGTGCCTACTTATCACGAT 58.696 47.619 0.00 0.00 0.00 3.73
785 851 1.753930 TCGGTGCCTACTTATCACGA 58.246 50.000 0.00 0.00 0.00 4.35
786 852 2.190981 GTTCGGTGCCTACTTATCACG 58.809 52.381 0.00 0.00 0.00 4.35
787 853 3.241067 TGTTCGGTGCCTACTTATCAC 57.759 47.619 0.00 0.00 0.00 3.06
788 854 3.857052 CTTGTTCGGTGCCTACTTATCA 58.143 45.455 0.00 0.00 0.00 2.15
789 855 2.608090 GCTTGTTCGGTGCCTACTTATC 59.392 50.000 0.00 0.00 0.00 1.75
790 856 2.027561 TGCTTGTTCGGTGCCTACTTAT 60.028 45.455 0.00 0.00 0.00 1.73
791 857 1.345089 TGCTTGTTCGGTGCCTACTTA 59.655 47.619 0.00 0.00 0.00 2.24
792 858 0.107831 TGCTTGTTCGGTGCCTACTT 59.892 50.000 0.00 0.00 0.00 2.24
793 859 0.324943 ATGCTTGTTCGGTGCCTACT 59.675 50.000 0.00 0.00 0.00 2.57
842 908 1.471829 CCCTTGTCTTTGTTGGGCCC 61.472 60.000 17.59 17.59 0.00 5.80
854 920 1.838073 TTTCTCGGGCTCCCCTTGTC 61.838 60.000 0.00 0.00 42.67 3.18
881 947 0.105913 GGAAGGATCGACCCTCTCCT 60.106 60.000 15.98 8.84 41.19 3.69
882 948 1.116536 GGGAAGGATCGACCCTCTCC 61.117 65.000 15.28 15.28 40.39 3.71
883 949 0.397254 TGGGAAGGATCGACCCTCTC 60.397 60.000 0.00 0.00 43.59 3.20
885 951 0.682292 GATGGGAAGGATCGACCCTC 59.318 60.000 0.00 0.00 43.59 4.30
886 952 0.764752 GGATGGGAAGGATCGACCCT 60.765 60.000 17.28 0.00 43.59 4.34
887 953 1.755384 GGATGGGAAGGATCGACCC 59.245 63.158 11.86 11.86 43.51 4.46
888 954 1.054406 TGGGATGGGAAGGATCGACC 61.054 60.000 0.00 0.00 39.35 4.79
889 955 0.837272 TTGGGATGGGAAGGATCGAC 59.163 55.000 0.00 0.00 0.00 4.20
890 956 1.490490 CTTTGGGATGGGAAGGATCGA 59.510 52.381 0.00 0.00 0.00 3.59
891 957 1.477558 CCTTTGGGATGGGAAGGATCG 60.478 57.143 0.00 0.00 41.97 3.69
907 1009 5.039645 TGAGATCCAGATTAGGGTTCCTTT 58.960 41.667 0.00 0.00 34.61 3.11
923 1026 1.004927 CGCCGACGAAATTTGAGATCC 60.005 52.381 0.00 0.00 43.93 3.36
1165 1268 1.048601 TCGACCAGCTTCCTCACTTT 58.951 50.000 0.00 0.00 0.00 2.66
1467 1576 2.554142 CATGATACCTGCGCTTTCTCA 58.446 47.619 9.73 5.84 0.00 3.27
1795 1907 0.307760 CCGTGCAACACAAAGAGGAC 59.692 55.000 0.00 0.00 35.74 3.85
1822 1934 1.551883 GAAGGTCAGGGCTACGGTTAA 59.448 52.381 0.00 0.00 0.00 2.01
1878 1990 3.430929 CGCTAGCATACAAGGACTCCTTT 60.431 47.826 16.45 3.17 41.69 3.11
1879 1991 2.101582 CGCTAGCATACAAGGACTCCTT 59.898 50.000 16.45 4.29 45.88 3.36
1896 2008 5.923114 GTCTATGAAATCAAGATCAGCGCTA 59.077 40.000 10.99 0.00 0.00 4.26
1944 2056 4.074970 ACATCTGGTAAAGCTTCTTGGTG 58.925 43.478 0.00 0.00 0.00 4.17
1946 2058 7.254932 GCTTATACATCTGGTAAAGCTTCTTGG 60.255 40.741 0.00 0.00 39.85 3.61
1979 2091 5.157067 GCTGCACTTTCCTTTTATCTTGTC 58.843 41.667 0.00 0.00 0.00 3.18
2002 2114 6.675002 GCTGTCTGCTGATTATCTTGTTTCTG 60.675 42.308 0.00 0.00 38.95 3.02
2237 2379 0.033366 AAGAAAACGCATTGGGGTGC 59.967 50.000 5.65 0.00 40.48 5.01
2252 2394 5.416326 TCAAGTTCAGGTTTTCCGAAAAGAA 59.584 36.000 6.54 4.91 46.35 2.52
2253 2395 4.944930 TCAAGTTCAGGTTTTCCGAAAAGA 59.055 37.500 6.54 0.00 46.35 2.52
2263 2405 2.955660 TCGCCAAATCAAGTTCAGGTTT 59.044 40.909 0.00 0.00 0.00 3.27
2316 2458 1.973515 AGACACTCCTTGCACATCTCA 59.026 47.619 0.00 0.00 0.00 3.27
2331 2473 5.130350 AGCTTCATAGACTCCTCTAGACAC 58.870 45.833 0.00 0.00 32.24 3.67
2333 2475 5.507315 GCAAGCTTCATAGACTCCTCTAGAC 60.507 48.000 0.00 0.00 32.24 2.59
2356 2498 3.589988 AGTGCACTTACATCTGTACTGC 58.410 45.455 15.25 10.34 36.06 4.40
2357 2500 7.834068 AAATAGTGCACTTACATCTGTACTG 57.166 36.000 27.06 0.00 34.63 2.74
2366 2509 7.921786 AGATAGCAAAAATAGTGCACTTACA 57.078 32.000 27.06 7.61 44.74 2.41
2375 2518 9.678260 ATGAAGACAGAAGATAGCAAAAATAGT 57.322 29.630 0.00 0.00 0.00 2.12
2384 2528 7.493971 TGAGCTAAAATGAAGACAGAAGATAGC 59.506 37.037 0.00 0.00 33.91 2.97
2388 2532 6.763355 AGTGAGCTAAAATGAAGACAGAAGA 58.237 36.000 0.00 0.00 0.00 2.87
2390 2534 6.767902 ACAAGTGAGCTAAAATGAAGACAGAA 59.232 34.615 0.00 0.00 0.00 3.02
2405 2549 4.910458 ATTACCTACCAACAAGTGAGCT 57.090 40.909 0.00 0.00 0.00 4.09
2418 2562 8.665685 CCACATAACTTCAGACAAATTACCTAC 58.334 37.037 0.00 0.00 0.00 3.18
2441 2585 7.201835 GCTACTAGGACTTTAGTGTAATCCAC 58.798 42.308 0.00 0.00 44.89 4.02
2451 2595 7.272978 TGCATTTTAGGCTACTAGGACTTTAG 58.727 38.462 0.00 0.00 0.00 1.85
2453 2597 6.062258 TGCATTTTAGGCTACTAGGACTTT 57.938 37.500 0.00 0.00 0.00 2.66
2456 2600 6.760291 AGTATGCATTTTAGGCTACTAGGAC 58.240 40.000 3.54 0.00 0.00 3.85
2461 2605 8.375506 TGCTAATAGTATGCATTTTAGGCTACT 58.624 33.333 3.54 1.70 33.23 2.57
2465 2609 7.440523 AGTGCTAATAGTATGCATTTTAGGC 57.559 36.000 3.54 2.31 39.00 3.93
2483 2628 9.073475 ACAAAATACATAAGAAACCAAGTGCTA 57.927 29.630 0.00 0.00 0.00 3.49
2497 2642 5.011533 ACAAAGCAGGCCACAAAATACATAA 59.988 36.000 5.01 0.00 0.00 1.90
2499 2644 3.324556 ACAAAGCAGGCCACAAAATACAT 59.675 39.130 5.01 0.00 0.00 2.29
2500 2645 2.697751 ACAAAGCAGGCCACAAAATACA 59.302 40.909 5.01 0.00 0.00 2.29
2501 2646 3.385193 ACAAAGCAGGCCACAAAATAC 57.615 42.857 5.01 0.00 0.00 1.89
2502 2647 5.736951 ATAACAAAGCAGGCCACAAAATA 57.263 34.783 5.01 0.00 0.00 1.40
2503 2648 4.622260 ATAACAAAGCAGGCCACAAAAT 57.378 36.364 5.01 0.00 0.00 1.82
2504 2649 4.141846 TGAATAACAAAGCAGGCCACAAAA 60.142 37.500 5.01 0.00 0.00 2.44
2506 2651 2.961741 TGAATAACAAAGCAGGCCACAA 59.038 40.909 5.01 0.00 0.00 3.33
2508 2653 2.295909 TGTGAATAACAAAGCAGGCCAC 59.704 45.455 5.01 0.00 35.24 5.01
2549 2697 5.545335 TCCTACATCTGCAGATCACCATATT 59.455 40.000 26.44 0.00 31.21 1.28
2611 2759 8.460831 ACAAAACTGAAAATTGTACAACACTC 57.539 30.769 11.22 7.94 35.63 3.51
2623 2771 7.086376 CAGCTACAGCATACAAAACTGAAAAT 58.914 34.615 3.70 0.00 45.16 1.82
2694 2846 2.932614 CACATGTAACTGCAGAGGCTAC 59.067 50.000 23.35 15.29 41.91 3.58
2718 2881 5.794894 AGGTAGCGATTCTCAGAAGAAAAA 58.205 37.500 0.00 0.00 44.49 1.94
2725 2888 2.302260 CCAGAGGTAGCGATTCTCAGA 58.698 52.381 6.52 0.00 0.00 3.27
2726 2889 1.339610 CCCAGAGGTAGCGATTCTCAG 59.660 57.143 6.52 0.00 0.00 3.35
2727 2890 1.403814 CCCAGAGGTAGCGATTCTCA 58.596 55.000 6.52 0.00 0.00 3.27
2728 2891 0.676736 CCCCAGAGGTAGCGATTCTC 59.323 60.000 0.00 0.00 0.00 2.87
2729 2892 2.827715 CCCCAGAGGTAGCGATTCT 58.172 57.895 0.00 0.00 0.00 2.40
2736 2899 5.118286 TCACATAGTGAACCCCAGAGGTAG 61.118 50.000 0.00 0.00 41.99 3.18
2737 2900 3.245839 TCACATAGTGAACCCCAGAGGTA 60.246 47.826 0.00 0.00 41.99 3.08
2791 2968 2.555227 CCACCACCACCAAGATTAAGCT 60.555 50.000 0.00 0.00 0.00 3.74
2816 2993 1.010294 TCTATTCCCTTACCTGCCCCA 59.990 52.381 0.00 0.00 0.00 4.96
2833 3010 0.901827 TGCTGGCGATGGTTTCTCTA 59.098 50.000 0.00 0.00 0.00 2.43
2838 3015 2.183409 GTCATGCTGGCGATGGTTT 58.817 52.632 0.00 0.00 0.00 3.27
2873 3055 9.667107 CTACAGTAACAAAAGAAATAGGATGGA 57.333 33.333 0.00 0.00 0.00 3.41
2965 3171 2.374504 CCCTGTATCCTCTCCCGTACTA 59.625 54.545 0.00 0.00 0.00 1.82
2966 3172 1.145325 CCCTGTATCCTCTCCCGTACT 59.855 57.143 0.00 0.00 0.00 2.73
2967 3173 1.133544 ACCCTGTATCCTCTCCCGTAC 60.134 57.143 0.00 0.00 0.00 3.67
2968 3174 1.144503 GACCCTGTATCCTCTCCCGTA 59.855 57.143 0.00 0.00 0.00 4.02
2969 3175 0.106116 GACCCTGTATCCTCTCCCGT 60.106 60.000 0.00 0.00 0.00 5.28
2970 3176 1.173444 CGACCCTGTATCCTCTCCCG 61.173 65.000 0.00 0.00 0.00 5.14
2999 3206 0.397254 TTCTTAGGGAGGGAGCTCCG 60.397 60.000 26.36 10.08 44.23 4.63
3054 3266 7.093509 GGGACCAAAAGGCTCTTTTTGATTATA 60.094 37.037 15.77 0.00 46.13 0.98
3055 3267 6.295859 GGGACCAAAAGGCTCTTTTTGATTAT 60.296 38.462 15.77 2.44 46.13 1.28
3060 3272 2.433970 TGGGACCAAAAGGCTCTTTTTG 59.566 45.455 9.39 9.40 44.01 2.44
3088 3300 4.098654 TGAATCTTGACAGTAGCTAGGCTC 59.901 45.833 0.00 0.00 40.44 4.70
3090 3302 4.098654 TCTGAATCTTGACAGTAGCTAGGC 59.901 45.833 0.00 0.00 35.84 3.93
3091 3303 5.843673 TCTGAATCTTGACAGTAGCTAGG 57.156 43.478 0.00 0.00 35.84 3.02
3092 3304 9.409312 CATTATCTGAATCTTGACAGTAGCTAG 57.591 37.037 0.00 0.00 35.84 3.42
3093 3305 7.869937 GCATTATCTGAATCTTGACAGTAGCTA 59.130 37.037 0.00 0.00 35.84 3.32
3094 3306 6.705381 GCATTATCTGAATCTTGACAGTAGCT 59.295 38.462 0.00 0.00 35.84 3.32
3095 3307 6.481313 TGCATTATCTGAATCTTGACAGTAGC 59.519 38.462 0.00 0.00 35.84 3.58
3144 3368 8.722622 TGAAACCCAGGGTTACAAAATATTTA 57.277 30.769 25.26 0.00 46.20 1.40
3154 3378 5.738619 AATGAATTGAAACCCAGGGTTAC 57.261 39.130 25.26 11.83 46.20 2.50
3155 3379 6.755542 AAAATGAATTGAAACCCAGGGTTA 57.244 33.333 25.26 9.72 46.20 2.85
3160 3384 7.334171 GGATGGTAAAAATGAATTGAAACCCAG 59.666 37.037 0.00 0.00 0.00 4.45
3178 3403 6.074648 AGTGGTTTCAGAAAATGGATGGTAA 58.925 36.000 0.00 0.00 0.00 2.85
3180 3405 4.482990 AGTGGTTTCAGAAAATGGATGGT 58.517 39.130 0.00 0.00 0.00 3.55
3183 3408 7.918076 TCTACTAGTGGTTTCAGAAAATGGAT 58.082 34.615 5.39 0.00 0.00 3.41
3191 3416 6.463897 CCCTGTTTTCTACTAGTGGTTTCAGA 60.464 42.308 5.39 0.00 0.00 3.27
3192 3417 5.701290 CCCTGTTTTCTACTAGTGGTTTCAG 59.299 44.000 5.39 10.16 0.00 3.02
3260 3485 1.207329 GCTCACATTAGTCCCGGTTCT 59.793 52.381 0.00 0.15 0.00 3.01
3357 3582 0.186386 TTTGTCCCACCAACCGGAAT 59.814 50.000 9.46 0.00 35.59 3.01
3359 3584 0.250989 GATTTGTCCCACCAACCGGA 60.251 55.000 9.46 0.00 35.59 5.14
3453 3678 1.913762 ACTGGCCGCAACTAGGACT 60.914 57.895 0.00 0.00 37.76 3.85
3634 3860 9.929180 ACATAGATGCGCTTATAGAGAAAATTA 57.071 29.630 9.73 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.