Multiple sequence alignment - TraesCS2A01G296900

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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 TraesCS2A01G296900 chr2A 100.000 2504 0 0 1 2504 510991555 510989052 0.000000e+00 4625.0
1 TraesCS2A01G296900 chr2A 96.199 763 22 7 1 760 513283783 513283025 0.000000e+00 1242.0
2 TraesCS2A01G296900 chr5A 98.029 761 14 1 1 760 30804791 30805551 0.000000e+00 1321.0
3 TraesCS2A01G296900 chr2B 91.781 949 52 11 859 1785 448579478 448578534 0.000000e+00 1297.0
4 TraesCS2A01G296900 chr2B 87.299 748 78 15 24 761 11899313 11898573 0.000000e+00 839.0
5 TraesCS2A01G296900 chr3A 97.113 762 18 4 1 760 636990679 636991438 0.000000e+00 1282.0
6 TraesCS2A01G296900 chr6A 96.592 763 22 4 1 761 559315270 559316030 0.000000e+00 1262.0
7 TraesCS2A01G296900 chr6A 96.457 762 23 4 1 760 35569726 35568967 0.000000e+00 1254.0
8 TraesCS2A01G296900 chr1A 96.457 762 23 4 1 760 45779139 45778380 0.000000e+00 1254.0
9 TraesCS2A01G296900 chr1A 85.057 174 20 2 2331 2498 569474915 569475088 3.310000e-39 172.0
10 TraesCS2A01G296900 chr2D 91.740 908 57 11 859 1751 377109112 377108208 0.000000e+00 1245.0
11 TraesCS2A01G296900 chr2D 82.783 424 48 6 2104 2504 88688202 88688623 3.060000e-94 355.0
12 TraesCS2A01G296900 chr7A 95.692 766 26 7 1 764 733083462 733082702 0.000000e+00 1225.0
13 TraesCS2A01G296900 chr7A 80.160 499 85 11 2013 2499 636696220 636696716 6.580000e-96 361.0
14 TraesCS2A01G296900 chr7A 82.437 279 46 3 2013 2290 636696157 636696433 8.950000e-60 241.0
15 TraesCS2A01G296900 chrUn 87.156 763 78 15 9 763 287878376 287879126 0.000000e+00 848.0
16 TraesCS2A01G296900 chr1D 88.415 492 56 1 2013 2504 97221755 97222245 2.140000e-165 592.0
17 TraesCS2A01G296900 chr1D 88.191 398 47 0 1893 2290 97221506 97221903 2.250000e-130 475.0
18 TraesCS2A01G296900 chr1D 82.683 410 41 9 2113 2499 44652783 44652381 1.110000e-88 337.0
19 TraesCS2A01G296900 chr1D 84.892 278 41 1 2013 2290 97221691 97221967 1.900000e-71 279.0
20 TraesCS2A01G296900 chr5D 81.836 523 58 16 2014 2504 334693562 334694079 3.000000e-109 405.0
21 TraesCS2A01G296900 chr5D 86.256 211 26 1 2291 2498 378789373 378789163 2.510000e-55 226.0
22 TraesCS2A01G296900 chr6D 84.048 420 47 7 1891 2290 117375405 117374986 1.090000e-103 387.0
23 TraesCS2A01G296900 chr4D 79.800 500 82 17 2013 2504 455085818 455086306 1.840000e-91 346.0
24 TraesCS2A01G296900 chr4D 83.548 389 42 4 1891 2279 455085589 455085955 6.630000e-91 344.0
25 TraesCS2A01G296900 chr4D 87.075 294 38 0 2079 2372 455085819 455086112 1.440000e-87 333.0
26 TraesCS2A01G296900 chr3B 77.822 505 88 19 2013 2503 758611827 758612321 8.760000e-75 291.0
27 TraesCS2A01G296900 chr4A 85.057 174 20 2 2331 2498 624608576 624608403 3.310000e-39 172.0
28 TraesCS2A01G296900 chr7B 93.333 45 2 1 1858 1901 377604310 377604354 5.780000e-07 65.8


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 TraesCS2A01G296900 chr2A 510989052 510991555 2503 True 4625.000000 4625 100.000000 1 2504 1 chr2A.!!$R1 2503
1 TraesCS2A01G296900 chr2A 513283025 513283783 758 True 1242.000000 1242 96.199000 1 760 1 chr2A.!!$R2 759
2 TraesCS2A01G296900 chr5A 30804791 30805551 760 False 1321.000000 1321 98.029000 1 760 1 chr5A.!!$F1 759
3 TraesCS2A01G296900 chr2B 448578534 448579478 944 True 1297.000000 1297 91.781000 859 1785 1 chr2B.!!$R2 926
4 TraesCS2A01G296900 chr2B 11898573 11899313 740 True 839.000000 839 87.299000 24 761 1 chr2B.!!$R1 737
5 TraesCS2A01G296900 chr3A 636990679 636991438 759 False 1282.000000 1282 97.113000 1 760 1 chr3A.!!$F1 759
6 TraesCS2A01G296900 chr6A 559315270 559316030 760 False 1262.000000 1262 96.592000 1 761 1 chr6A.!!$F1 760
7 TraesCS2A01G296900 chr6A 35568967 35569726 759 True 1254.000000 1254 96.457000 1 760 1 chr6A.!!$R1 759
8 TraesCS2A01G296900 chr1A 45778380 45779139 759 True 1254.000000 1254 96.457000 1 760 1 chr1A.!!$R1 759
9 TraesCS2A01G296900 chr2D 377108208 377109112 904 True 1245.000000 1245 91.740000 859 1751 1 chr2D.!!$R1 892
10 TraesCS2A01G296900 chr7A 733082702 733083462 760 True 1225.000000 1225 95.692000 1 764 1 chr7A.!!$R1 763
11 TraesCS2A01G296900 chr7A 636696157 636696716 559 False 301.000000 361 81.298500 2013 2499 2 chr7A.!!$F1 486
12 TraesCS2A01G296900 chrUn 287878376 287879126 750 False 848.000000 848 87.156000 9 763 1 chrUn.!!$F1 754
13 TraesCS2A01G296900 chr1D 97221506 97222245 739 False 448.666667 592 87.166000 1893 2504 3 chr1D.!!$F1 611
14 TraesCS2A01G296900 chr5D 334693562 334694079 517 False 405.000000 405 81.836000 2014 2504 1 chr5D.!!$F1 490
15 TraesCS2A01G296900 chr4D 455085589 455086306 717 False 341.000000 346 83.474333 1891 2504 3 chr4D.!!$F1 613

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
815 832 0.037447 AGGAGCTTTCTTCACAGGCC 59.963 55.0 0.0 0.0 0.0 5.19 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1793 1831 0.032017 AGGAACTAGCGAGGGTGGAT 60.032 55.0 0.0 0.0 36.02 3.41 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
60 61 7.826260 ATTTTATTTAAACTCAATGCCGTGG 57.174 32.000 0.00 0.00 0.00 4.94
764 781 0.730840 CAAATAGGGTTCGCCGGTTC 59.269 55.000 1.90 0.00 38.45 3.62
765 782 0.393402 AAATAGGGTTCGCCGGTTCC 60.393 55.000 1.90 0.22 38.45 3.62
766 783 1.269703 AATAGGGTTCGCCGGTTCCT 61.270 55.000 1.90 5.90 38.45 3.36
767 784 0.397535 ATAGGGTTCGCCGGTTCCTA 60.398 55.000 1.90 7.99 38.45 2.94
768 785 1.322538 TAGGGTTCGCCGGTTCCTAC 61.323 60.000 1.90 0.00 38.45 3.18
769 786 2.125391 GGTTCGCCGGTTCCTACC 60.125 66.667 1.90 0.15 41.33 3.18
770 787 2.125391 GTTCGCCGGTTCCTACCC 60.125 66.667 1.90 0.00 41.75 3.69
771 788 2.284112 TTCGCCGGTTCCTACCCT 60.284 61.111 1.90 0.00 41.75 4.34
772 789 2.353610 TTCGCCGGTTCCTACCCTC 61.354 63.158 1.90 0.00 41.75 4.30
773 790 2.758737 CGCCGGTTCCTACCCTCT 60.759 66.667 1.90 0.00 41.75 3.69
774 791 2.783288 CGCCGGTTCCTACCCTCTC 61.783 68.421 1.90 0.00 41.75 3.20
775 792 2.783288 GCCGGTTCCTACCCTCTCG 61.783 68.421 1.90 0.00 41.75 4.04
776 793 1.379576 CCGGTTCCTACCCTCTCGT 60.380 63.158 0.00 0.00 41.75 4.18
777 794 0.969409 CCGGTTCCTACCCTCTCGTT 60.969 60.000 0.00 0.00 41.75 3.85
778 795 0.172803 CGGTTCCTACCCTCTCGTTG 59.827 60.000 0.00 0.00 41.75 4.10
779 796 0.535797 GGTTCCTACCCTCTCGTTGG 59.464 60.000 0.00 0.00 38.60 3.77
780 797 1.553706 GTTCCTACCCTCTCGTTGGA 58.446 55.000 0.00 0.00 36.12 3.53
781 798 1.204231 GTTCCTACCCTCTCGTTGGAC 59.796 57.143 0.00 0.00 37.38 4.02
782 799 0.406750 TCCTACCCTCTCGTTGGACA 59.593 55.000 0.00 0.00 33.49 4.02
783 800 1.203087 TCCTACCCTCTCGTTGGACAA 60.203 52.381 0.00 0.00 33.49 3.18
784 801 1.831736 CCTACCCTCTCGTTGGACAAT 59.168 52.381 0.00 0.00 31.09 2.71
785 802 2.159085 CCTACCCTCTCGTTGGACAATC 60.159 54.545 0.00 0.00 31.09 2.67
786 803 0.613777 ACCCTCTCGTTGGACAATCC 59.386 55.000 0.00 0.00 36.96 3.01
787 804 0.107654 CCCTCTCGTTGGACAATCCC 60.108 60.000 0.00 0.00 35.03 3.85
788 805 0.905357 CCTCTCGTTGGACAATCCCT 59.095 55.000 0.00 0.00 35.03 4.20
789 806 2.108168 CCTCTCGTTGGACAATCCCTA 58.892 52.381 0.00 0.00 35.03 3.53
790 807 2.159085 CCTCTCGTTGGACAATCCCTAC 60.159 54.545 0.00 0.00 35.03 3.18
791 808 1.829222 TCTCGTTGGACAATCCCTACC 59.171 52.381 0.00 0.00 35.03 3.18
792 809 1.553248 CTCGTTGGACAATCCCTACCA 59.447 52.381 0.00 0.00 35.03 3.25
793 810 1.553248 TCGTTGGACAATCCCTACCAG 59.447 52.381 0.00 0.00 35.03 4.00
794 811 1.278127 CGTTGGACAATCCCTACCAGT 59.722 52.381 0.00 0.00 35.03 4.00
795 812 2.677037 CGTTGGACAATCCCTACCAGTC 60.677 54.545 0.00 0.00 35.03 3.51
796 813 2.304761 GTTGGACAATCCCTACCAGTCA 59.695 50.000 0.00 0.00 35.03 3.41
797 814 2.187958 TGGACAATCCCTACCAGTCAG 58.812 52.381 0.00 0.00 35.03 3.51
798 815 1.486726 GGACAATCCCTACCAGTCAGG 59.513 57.143 0.00 0.00 45.67 3.86
799 816 2.467880 GACAATCCCTACCAGTCAGGA 58.532 52.381 0.00 0.00 41.22 3.86
800 817 2.432510 GACAATCCCTACCAGTCAGGAG 59.567 54.545 0.00 0.00 41.22 3.69
801 818 1.139853 CAATCCCTACCAGTCAGGAGC 59.860 57.143 0.00 0.00 41.22 4.70
802 819 0.639392 ATCCCTACCAGTCAGGAGCT 59.361 55.000 0.00 0.00 41.22 4.09
803 820 0.413832 TCCCTACCAGTCAGGAGCTT 59.586 55.000 0.00 0.00 41.22 3.74
804 821 1.203313 TCCCTACCAGTCAGGAGCTTT 60.203 52.381 0.00 0.00 41.22 3.51
805 822 1.208293 CCCTACCAGTCAGGAGCTTTC 59.792 57.143 0.00 0.00 41.22 2.62
806 823 2.183679 CCTACCAGTCAGGAGCTTTCT 58.816 52.381 0.00 0.00 41.22 2.52
807 824 2.569404 CCTACCAGTCAGGAGCTTTCTT 59.431 50.000 0.00 0.00 41.22 2.52
808 825 2.849294 ACCAGTCAGGAGCTTTCTTC 57.151 50.000 0.00 0.00 41.22 2.87
809 826 2.050144 ACCAGTCAGGAGCTTTCTTCA 58.950 47.619 0.00 0.00 41.22 3.02
810 827 2.224402 ACCAGTCAGGAGCTTTCTTCAC 60.224 50.000 0.00 0.00 41.22 3.18
811 828 2.224378 CCAGTCAGGAGCTTTCTTCACA 60.224 50.000 0.00 0.00 41.22 3.58
812 829 3.065655 CAGTCAGGAGCTTTCTTCACAG 58.934 50.000 0.00 0.00 0.00 3.66
813 830 2.038295 AGTCAGGAGCTTTCTTCACAGG 59.962 50.000 0.00 0.00 0.00 4.00
814 831 1.163554 CAGGAGCTTTCTTCACAGGC 58.836 55.000 0.00 0.00 0.00 4.85
815 832 0.037447 AGGAGCTTTCTTCACAGGCC 59.963 55.000 0.00 0.00 0.00 5.19
816 833 1.301677 GGAGCTTTCTTCACAGGCCG 61.302 60.000 0.00 0.00 0.00 6.13
817 834 0.320771 GAGCTTTCTTCACAGGCCGA 60.321 55.000 0.00 0.00 0.00 5.54
818 835 0.326264 AGCTTTCTTCACAGGCCGAT 59.674 50.000 0.00 0.00 0.00 4.18
819 836 0.449388 GCTTTCTTCACAGGCCGATG 59.551 55.000 0.00 0.00 0.00 3.84
820 837 1.813513 CTTTCTTCACAGGCCGATGT 58.186 50.000 8.89 0.32 0.00 3.06
825 842 3.168271 CACAGGCCGATGTGTTCG 58.832 61.111 15.33 0.00 44.49 3.95
833 850 4.713946 GATGTGTTCGAAGGCCCA 57.286 55.556 0.00 0.00 0.00 5.36
834 851 2.171635 GATGTGTTCGAAGGCCCAC 58.828 57.895 0.00 3.70 0.00 4.61
835 852 1.635663 GATGTGTTCGAAGGCCCACG 61.636 60.000 12.11 12.11 0.00 4.94
836 853 2.280592 GTGTTCGAAGGCCCACGT 60.281 61.111 16.63 0.00 0.00 4.49
837 854 2.280524 TGTTCGAAGGCCCACGTG 60.281 61.111 9.08 9.08 0.00 4.49
838 855 2.029964 GTTCGAAGGCCCACGTGA 59.970 61.111 19.30 6.52 0.00 4.35
839 856 2.027625 GTTCGAAGGCCCACGTGAG 61.028 63.158 19.30 4.39 0.00 3.51
840 857 2.204461 TTCGAAGGCCCACGTGAGA 61.204 57.895 19.30 1.72 0.00 3.27
841 858 2.125912 CGAAGGCCCACGTGAGAG 60.126 66.667 19.30 6.47 0.00 3.20
842 859 2.636412 CGAAGGCCCACGTGAGAGA 61.636 63.158 19.30 0.00 0.00 3.10
843 860 1.079750 GAAGGCCCACGTGAGAGAC 60.080 63.158 19.30 7.59 0.00 3.36
844 861 2.508586 GAAGGCCCACGTGAGAGACC 62.509 65.000 19.30 10.44 0.00 3.85
845 862 4.436998 GGCCCACGTGAGAGACCG 62.437 72.222 19.30 0.00 0.00 4.79
846 863 3.681835 GCCCACGTGAGAGACCGT 61.682 66.667 19.30 0.00 37.90 4.83
847 864 2.567049 CCCACGTGAGAGACCGTC 59.433 66.667 19.30 0.00 34.59 4.79
848 865 1.972223 CCCACGTGAGAGACCGTCT 60.972 63.158 19.30 0.00 38.71 4.18
895 912 5.813513 AACTTGGTTACGGGTATATAGGG 57.186 43.478 0.00 0.00 0.00 3.53
896 913 4.162651 ACTTGGTTACGGGTATATAGGGG 58.837 47.826 0.00 0.00 0.00 4.79
902 919 1.814527 GGGTATATAGGGGCTCGCG 59.185 63.158 0.00 0.00 0.00 5.87
927 944 2.033448 TTTCCACAATCGCCGCCT 59.967 55.556 0.00 0.00 0.00 5.52
1036 1053 2.581246 TCCCACTCTCAGCCTCTACTAA 59.419 50.000 0.00 0.00 0.00 2.24
1044 1061 1.549170 CAGCCTCTACTAAACCACCGT 59.451 52.381 0.00 0.00 0.00 4.83
1201 1218 0.713883 CATCGACGAAACCAAGGACG 59.286 55.000 0.00 0.00 0.00 4.79
1257 1274 0.961019 GCTTTGAGGACATGTTGGCA 59.039 50.000 0.00 0.00 0.00 4.92
1314 1331 2.507944 GAGGCTGGGATCACGCAT 59.492 61.111 12.63 6.42 38.25 4.73
1438 1455 5.417811 TGTACCGTTTTGTGAAGAAGTACA 58.582 37.500 0.00 0.00 37.18 2.90
1449 1466 2.409948 AGAAGTACATCTGCCCTTGC 57.590 50.000 0.00 0.00 38.26 4.01
1463 1480 1.237285 CCTTGCTTGGACTTGGTCGG 61.237 60.000 0.00 0.00 32.65 4.79
1473 1490 0.886490 ACTTGGTCGGCAGAGCTTTG 60.886 55.000 16.81 0.00 44.65 2.77
1486 1503 1.071128 GCTTTGGGTTGCATGCCAA 59.929 52.632 16.68 9.17 0.00 4.52
1500 1517 2.117156 GCCAAGCATGACGGCTCAT 61.117 57.895 11.92 0.00 45.07 2.90
1574 1591 7.872163 CAATGTTTGCTTTAGTCATGCTTAA 57.128 32.000 0.00 0.00 0.00 1.85
1633 1657 3.508793 AGTTAGCGTAGTTAGTTGCCTGA 59.491 43.478 0.00 0.00 0.00 3.86
1655 1679 6.830736 TGAACACATACATTGTTGATTCTCG 58.169 36.000 0.00 0.00 37.31 4.04
1660 1684 5.582269 ACATACATTGTTGATTCTCGTGGAG 59.418 40.000 0.00 0.00 33.74 3.86
1662 1686 5.147330 ACATTGTTGATTCTCGTGGAGTA 57.853 39.130 0.00 0.00 0.00 2.59
1664 1688 5.047306 ACATTGTTGATTCTCGTGGAGTAGA 60.047 40.000 0.00 0.00 0.00 2.59
1709 1744 0.109919 CGGCTTGTTAAAGGGTTCGC 60.110 55.000 0.00 0.00 33.68 4.70
1737 1775 3.238798 CGTTTGTGTTCTTGTAAAACGGC 59.761 43.478 10.26 0.00 45.57 5.68
1785 1823 1.918293 TGGTTCATCCACCCTCGCT 60.918 57.895 0.00 0.00 41.93 4.93
1786 1824 0.616395 TGGTTCATCCACCCTCGCTA 60.616 55.000 0.00 0.00 41.93 4.26
1787 1825 0.105039 GGTTCATCCACCCTCGCTAG 59.895 60.000 0.00 0.00 35.97 3.42
1788 1826 0.824759 GTTCATCCACCCTCGCTAGT 59.175 55.000 0.00 0.00 0.00 2.57
1789 1827 0.824109 TTCATCCACCCTCGCTAGTG 59.176 55.000 0.00 0.00 0.00 2.74
1790 1828 0.324368 TCATCCACCCTCGCTAGTGT 60.324 55.000 2.66 0.00 31.88 3.55
1791 1829 0.537188 CATCCACCCTCGCTAGTGTT 59.463 55.000 2.66 0.00 31.88 3.32
1792 1830 0.824759 ATCCACCCTCGCTAGTGTTC 59.175 55.000 2.66 0.00 31.88 3.18
1793 1831 0.541063 TCCACCCTCGCTAGTGTTCA 60.541 55.000 2.66 0.00 31.88 3.18
1794 1832 0.537188 CCACCCTCGCTAGTGTTCAT 59.463 55.000 2.66 0.00 31.88 2.57
1795 1833 1.471676 CCACCCTCGCTAGTGTTCATC 60.472 57.143 2.66 0.00 31.88 2.92
1796 1834 0.824759 ACCCTCGCTAGTGTTCATCC 59.175 55.000 2.66 0.00 0.00 3.51
1797 1835 0.824109 CCCTCGCTAGTGTTCATCCA 59.176 55.000 2.66 0.00 0.00 3.41
1798 1836 1.471676 CCCTCGCTAGTGTTCATCCAC 60.472 57.143 2.66 0.00 35.53 4.02
1799 1837 1.471676 CCTCGCTAGTGTTCATCCACC 60.472 57.143 2.66 0.00 35.93 4.61
1800 1838 0.535335 TCGCTAGTGTTCATCCACCC 59.465 55.000 2.66 0.00 35.93 4.61
1801 1839 0.537188 CGCTAGTGTTCATCCACCCT 59.463 55.000 0.00 0.00 35.93 4.34
1802 1840 1.471676 CGCTAGTGTTCATCCACCCTC 60.472 57.143 0.00 0.00 35.93 4.30
1803 1841 1.471676 GCTAGTGTTCATCCACCCTCG 60.472 57.143 0.00 0.00 35.93 4.63
1804 1842 0.535335 TAGTGTTCATCCACCCTCGC 59.465 55.000 0.00 0.00 35.93 5.03
1805 1843 1.194781 AGTGTTCATCCACCCTCGCT 61.195 55.000 0.00 0.00 35.93 4.93
1806 1844 0.535335 GTGTTCATCCACCCTCGCTA 59.465 55.000 0.00 0.00 0.00 4.26
1807 1845 0.824109 TGTTCATCCACCCTCGCTAG 59.176 55.000 0.00 0.00 0.00 3.42
1808 1846 0.824759 GTTCATCCACCCTCGCTAGT 59.175 55.000 0.00 0.00 0.00 2.57
1809 1847 1.207329 GTTCATCCACCCTCGCTAGTT 59.793 52.381 0.00 0.00 0.00 2.24
1810 1848 1.112113 TCATCCACCCTCGCTAGTTC 58.888 55.000 0.00 0.00 0.00 3.01
1811 1849 0.105039 CATCCACCCTCGCTAGTTCC 59.895 60.000 0.00 0.00 0.00 3.62
1812 1850 0.032017 ATCCACCCTCGCTAGTTCCT 60.032 55.000 0.00 0.00 0.00 3.36
1813 1851 0.683504 TCCACCCTCGCTAGTTCCTC 60.684 60.000 0.00 0.00 0.00 3.71
1814 1852 0.684805 CCACCCTCGCTAGTTCCTCT 60.685 60.000 0.00 0.00 0.00 3.69
1815 1853 0.741915 CACCCTCGCTAGTTCCTCTC 59.258 60.000 0.00 0.00 0.00 3.20
1816 1854 0.396001 ACCCTCGCTAGTTCCTCTCC 60.396 60.000 0.00 0.00 0.00 3.71
1817 1855 0.106419 CCCTCGCTAGTTCCTCTCCT 60.106 60.000 0.00 0.00 0.00 3.69
1818 1856 1.314730 CCTCGCTAGTTCCTCTCCTC 58.685 60.000 0.00 0.00 0.00 3.71
1819 1857 1.133915 CCTCGCTAGTTCCTCTCCTCT 60.134 57.143 0.00 0.00 0.00 3.69
1820 1858 2.218603 CTCGCTAGTTCCTCTCCTCTC 58.781 57.143 0.00 0.00 0.00 3.20
1821 1859 0.941542 CGCTAGTTCCTCTCCTCTCG 59.058 60.000 0.00 0.00 0.00 4.04
1822 1860 0.666374 GCTAGTTCCTCTCCTCTCGC 59.334 60.000 0.00 0.00 0.00 5.03
1823 1861 2.019668 GCTAGTTCCTCTCCTCTCGCA 61.020 57.143 0.00 0.00 0.00 5.10
1824 1862 2.370349 CTAGTTCCTCTCCTCTCGCAA 58.630 52.381 0.00 0.00 0.00 4.85
1825 1863 1.633774 AGTTCCTCTCCTCTCGCAAA 58.366 50.000 0.00 0.00 0.00 3.68
1826 1864 1.971357 AGTTCCTCTCCTCTCGCAAAA 59.029 47.619 0.00 0.00 0.00 2.44
1827 1865 2.368875 AGTTCCTCTCCTCTCGCAAAAA 59.631 45.455 0.00 0.00 0.00 1.94
1865 1903 9.681062 ACTAAGAATAATTAAAGGCTGCTACAA 57.319 29.630 0.00 0.00 0.00 2.41
1869 1907 9.189156 AGAATAATTAAAGGCTGCTACAAATCA 57.811 29.630 0.00 0.00 0.00 2.57
1870 1908 9.801873 GAATAATTAAAGGCTGCTACAAATCAA 57.198 29.630 0.00 0.00 0.00 2.57
1871 1909 9.586435 AATAATTAAAGGCTGCTACAAATCAAC 57.414 29.630 0.00 0.00 0.00 3.18
1872 1910 3.942130 AAAGGCTGCTACAAATCAACC 57.058 42.857 0.00 0.00 0.00 3.77
1873 1911 1.453155 AGGCTGCTACAAATCAACCG 58.547 50.000 0.00 0.00 0.00 4.44
1874 1912 1.165270 GGCTGCTACAAATCAACCGT 58.835 50.000 0.00 0.00 0.00 4.83
1875 1913 1.539827 GGCTGCTACAAATCAACCGTT 59.460 47.619 0.00 0.00 0.00 4.44
1876 1914 2.584791 GCTGCTACAAATCAACCGTTG 58.415 47.619 4.78 4.78 0.00 4.10
1877 1915 2.225491 GCTGCTACAAATCAACCGTTGA 59.775 45.455 16.15 16.15 45.01 3.18
1900 1938 4.857509 TTGTTACAAAATTAAGCCGCCT 57.142 36.364 0.00 0.00 0.00 5.52
1912 1950 3.790437 CCGCCTCCACAGCCATCT 61.790 66.667 0.00 0.00 0.00 2.90
1991 2029 4.816984 GCAGCAGCTCCCATGGCT 62.817 66.667 6.09 0.00 41.07 4.75
2006 2044 2.180017 GCTGCACCAATGGCTTCG 59.820 61.111 0.00 0.00 0.00 3.79
2008 2046 1.973281 CTGCACCAATGGCTTCGGT 60.973 57.895 0.00 0.00 0.00 4.69
2077 2115 0.179094 TTCACTGCAACTTCGACGGT 60.179 50.000 0.00 0.00 0.00 4.83
2105 2143 2.203788 AACCTCACCGGAGCTCCA 60.204 61.111 31.67 11.96 39.96 3.86
2110 2148 1.949847 CTCACCGGAGCTCCAACGAT 61.950 60.000 31.67 9.36 33.67 3.73
2111 2149 1.079127 CACCGGAGCTCCAACGATT 60.079 57.895 31.67 6.27 35.14 3.34
2136 2239 1.666023 CGACGCTTCACTACAGCTTCA 60.666 52.381 0.00 0.00 35.73 3.02
2203 2370 0.937304 GCTTCACTGCAGTTTCGACA 59.063 50.000 18.94 2.52 0.00 4.35
2236 2403 4.069232 CTCGCCGGAGCTCCAACA 62.069 66.667 31.67 11.63 36.60 3.33
2243 2410 2.281484 GAGCTCCAACAACCGCCA 60.281 61.111 0.87 0.00 0.00 5.69
2257 2424 4.030452 GCCACGGCACTTCACTGC 62.030 66.667 2.36 0.00 41.49 4.40
2303 2470 3.785859 GCCGCACCTGATGGGAGA 61.786 66.667 0.00 0.00 43.98 3.71
2379 2642 3.138798 GGTGGCGACGGAGCTCTA 61.139 66.667 14.64 0.00 37.29 2.43
2408 2673 2.999648 TTGCGCTGCTCCTCTCCT 61.000 61.111 9.73 0.00 0.00 3.69
2409 2674 3.011635 TTGCGCTGCTCCTCTCCTC 62.012 63.158 9.73 0.00 0.00 3.71
2410 2675 3.456365 GCGCTGCTCCTCTCCTCA 61.456 66.667 0.00 0.00 0.00 3.86
2411 2676 2.806929 CGCTGCTCCTCTCCTCAG 59.193 66.667 0.00 0.00 0.00 3.35
2412 2677 2.500646 GCTGCTCCTCTCCTCAGC 59.499 66.667 0.00 0.00 43.95 4.26
2413 2678 3.092780 GCTGCTCCTCTCCTCAGCC 62.093 68.421 1.96 0.00 44.35 4.85
2442 2707 2.738521 GCATGTGCGACGAGTGGT 60.739 61.111 0.00 0.00 0.00 4.16
2457 2722 2.675772 GGTGACCCGTCTCCGACT 60.676 66.667 0.00 0.00 34.13 4.18
2499 2764 4.394712 GCCACTACCACGCAGCCT 62.395 66.667 0.00 0.00 0.00 4.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
764 781 1.263356 TTGTCCAACGAGAGGGTAGG 58.737 55.000 0.00 0.00 0.00 3.18
765 782 2.159085 GGATTGTCCAACGAGAGGGTAG 60.159 54.545 0.00 0.00 36.28 3.18
766 783 1.829222 GGATTGTCCAACGAGAGGGTA 59.171 52.381 0.00 0.00 36.28 3.69
767 784 0.613777 GGATTGTCCAACGAGAGGGT 59.386 55.000 0.00 0.00 36.28 4.34
768 785 0.107654 GGGATTGTCCAACGAGAGGG 60.108 60.000 0.00 0.00 38.64 4.30
769 786 0.905357 AGGGATTGTCCAACGAGAGG 59.095 55.000 0.00 0.00 38.64 3.69
770 787 2.159085 GGTAGGGATTGTCCAACGAGAG 60.159 54.545 0.00 0.00 38.64 3.20
771 788 1.829222 GGTAGGGATTGTCCAACGAGA 59.171 52.381 0.00 0.00 38.64 4.04
772 789 1.553248 TGGTAGGGATTGTCCAACGAG 59.447 52.381 0.00 0.00 38.64 4.18
773 790 1.553248 CTGGTAGGGATTGTCCAACGA 59.447 52.381 0.00 0.00 38.64 3.85
774 791 1.278127 ACTGGTAGGGATTGTCCAACG 59.722 52.381 0.00 0.00 38.64 4.10
775 792 2.304761 TGACTGGTAGGGATTGTCCAAC 59.695 50.000 0.00 0.00 38.64 3.77
776 793 2.571653 CTGACTGGTAGGGATTGTCCAA 59.428 50.000 0.00 0.00 38.64 3.53
777 794 2.187958 CTGACTGGTAGGGATTGTCCA 58.812 52.381 0.00 0.00 38.64 4.02
778 795 1.486726 CCTGACTGGTAGGGATTGTCC 59.513 57.143 0.00 0.00 35.23 4.02
779 796 2.432510 CTCCTGACTGGTAGGGATTGTC 59.567 54.545 0.00 0.00 35.96 3.18
780 797 2.472029 CTCCTGACTGGTAGGGATTGT 58.528 52.381 0.00 0.00 35.96 2.71
781 798 1.139853 GCTCCTGACTGGTAGGGATTG 59.860 57.143 0.00 0.00 35.96 2.67
782 799 1.008938 AGCTCCTGACTGGTAGGGATT 59.991 52.381 0.00 0.00 35.96 3.01
783 800 0.639392 AGCTCCTGACTGGTAGGGAT 59.361 55.000 0.00 0.00 35.96 3.85
784 801 0.413832 AAGCTCCTGACTGGTAGGGA 59.586 55.000 0.00 0.00 35.96 4.20
785 802 1.208293 GAAAGCTCCTGACTGGTAGGG 59.792 57.143 0.00 0.00 35.96 3.53
786 803 2.183679 AGAAAGCTCCTGACTGGTAGG 58.816 52.381 0.00 0.00 37.07 3.18
787 804 3.259374 TGAAGAAAGCTCCTGACTGGTAG 59.741 47.826 0.00 0.00 37.07 3.18
788 805 3.006967 GTGAAGAAAGCTCCTGACTGGTA 59.993 47.826 0.00 0.00 37.07 3.25
789 806 2.050144 TGAAGAAAGCTCCTGACTGGT 58.950 47.619 0.00 0.00 37.07 4.00
790 807 2.224378 TGTGAAGAAAGCTCCTGACTGG 60.224 50.000 0.00 0.00 37.10 4.00
791 808 3.065655 CTGTGAAGAAAGCTCCTGACTG 58.934 50.000 0.00 0.00 0.00 3.51
792 809 2.038295 CCTGTGAAGAAAGCTCCTGACT 59.962 50.000 0.00 0.00 0.00 3.41
793 810 2.421619 CCTGTGAAGAAAGCTCCTGAC 58.578 52.381 0.00 0.00 0.00 3.51
794 811 1.271054 GCCTGTGAAGAAAGCTCCTGA 60.271 52.381 0.00 0.00 0.00 3.86
795 812 1.163554 GCCTGTGAAGAAAGCTCCTG 58.836 55.000 0.00 0.00 0.00 3.86
796 813 0.037447 GGCCTGTGAAGAAAGCTCCT 59.963 55.000 0.00 0.00 0.00 3.69
797 814 1.301677 CGGCCTGTGAAGAAAGCTCC 61.302 60.000 0.00 0.00 0.00 4.70
798 815 0.320771 TCGGCCTGTGAAGAAAGCTC 60.321 55.000 0.00 0.00 0.00 4.09
799 816 0.326264 ATCGGCCTGTGAAGAAAGCT 59.674 50.000 0.00 0.00 0.00 3.74
800 817 0.449388 CATCGGCCTGTGAAGAAAGC 59.551 55.000 0.00 0.00 0.00 3.51
801 818 1.813513 ACATCGGCCTGTGAAGAAAG 58.186 50.000 10.79 0.00 0.00 2.62
816 833 1.635663 CGTGGGCCTTCGAACACATC 61.636 60.000 14.43 0.88 33.62 3.06
817 834 1.671054 CGTGGGCCTTCGAACACAT 60.671 57.895 14.43 0.00 33.62 3.21
818 835 2.280524 CGTGGGCCTTCGAACACA 60.281 61.111 14.43 2.44 33.62 3.72
819 836 2.280592 ACGTGGGCCTTCGAACAC 60.281 61.111 23.26 11.42 0.00 3.32
820 837 2.280524 CACGTGGGCCTTCGAACA 60.281 61.111 23.26 0.11 0.00 3.18
821 838 2.027625 CTCACGTGGGCCTTCGAAC 61.028 63.158 23.26 4.91 0.00 3.95
822 839 2.154798 CTCTCACGTGGGCCTTCGAA 62.155 60.000 23.26 0.00 0.00 3.71
823 840 2.599281 TCTCACGTGGGCCTTCGA 60.599 61.111 23.26 6.95 0.00 3.71
824 841 2.125912 CTCTCACGTGGGCCTTCG 60.126 66.667 17.00 17.08 0.00 3.79
825 842 1.079750 GTCTCTCACGTGGGCCTTC 60.080 63.158 17.00 0.00 0.00 3.46
826 843 2.584391 GGTCTCTCACGTGGGCCTT 61.584 63.158 17.00 0.00 0.00 4.35
827 844 2.997897 GGTCTCTCACGTGGGCCT 60.998 66.667 17.00 0.00 0.00 5.19
828 845 4.436998 CGGTCTCTCACGTGGGCC 62.437 72.222 17.00 9.86 0.00 5.80
829 846 3.628280 GACGGTCTCTCACGTGGGC 62.628 68.421 17.00 0.30 44.24 5.36
830 847 1.924320 GAGACGGTCTCTCACGTGGG 61.924 65.000 26.79 13.66 44.62 4.61
831 848 1.502640 GAGACGGTCTCTCACGTGG 59.497 63.158 26.79 6.71 44.62 4.94
832 849 1.132844 CGAGACGGTCTCTCACGTG 59.867 63.158 29.59 9.94 45.43 4.49
833 850 2.678956 GCGAGACGGTCTCTCACGT 61.679 63.158 29.59 0.00 45.43 4.49
834 851 2.098680 GCGAGACGGTCTCTCACG 59.901 66.667 29.59 20.57 45.43 4.35
835 852 3.264947 TGCGAGACGGTCTCTCAC 58.735 61.111 29.59 20.74 45.43 3.51
836 853 2.677979 CGTGCGAGACGGTCTCTCA 61.678 63.158 29.59 26.40 45.43 3.27
837 854 2.098680 CGTGCGAGACGGTCTCTC 59.901 66.667 29.59 24.37 44.85 3.20
854 871 6.183360 CCAAGTTTACATACGAGACGGTTTAC 60.183 42.308 0.00 0.00 0.00 2.01
855 872 5.863397 CCAAGTTTACATACGAGACGGTTTA 59.137 40.000 0.00 0.00 0.00 2.01
856 873 4.687483 CCAAGTTTACATACGAGACGGTTT 59.313 41.667 0.00 0.00 0.00 3.27
857 874 4.240096 CCAAGTTTACATACGAGACGGTT 58.760 43.478 0.00 0.00 0.00 4.44
869 886 7.201992 CCCTATATACCCGTAACCAAGTTTACA 60.202 40.741 0.00 0.00 32.32 2.41
874 891 4.162651 CCCCTATATACCCGTAACCAAGT 58.837 47.826 0.00 0.00 0.00 3.16
902 919 1.950472 CGATTGTGGAAAGTCGTTGC 58.050 50.000 0.00 0.00 0.00 4.17
915 932 4.162690 GGAGGAGGCGGCGATTGT 62.163 66.667 12.98 0.00 0.00 2.71
927 944 1.753141 CGGAAGTAGGATTCGGGAGGA 60.753 57.143 0.00 0.00 0.00 3.71
1044 1061 0.172578 CGTGATTGTGCTCCTCGGTA 59.827 55.000 0.00 0.00 0.00 4.02
1201 1218 1.372997 TCTCACGGCGCTTGAAGTC 60.373 57.895 6.90 0.00 0.00 3.01
1257 1274 0.983378 CCTCCCGGAACTCCTTGGAT 60.983 60.000 0.73 0.00 35.13 3.41
1314 1331 4.373116 GCCGTCCTCACAAGCGGA 62.373 66.667 5.99 0.00 46.33 5.54
1417 1434 6.422701 CAGATGTACTTCTTCACAAAACGGTA 59.577 38.462 8.49 0.00 0.00 4.02
1419 1436 5.679906 CAGATGTACTTCTTCACAAAACGG 58.320 41.667 8.49 0.00 0.00 4.44
1438 1455 0.407139 AAGTCCAAGCAAGGGCAGAT 59.593 50.000 1.77 0.00 44.61 2.90
1449 1466 0.671781 CTCTGCCGACCAAGTCCAAG 60.672 60.000 0.00 0.00 0.00 3.61
1463 1480 0.389426 CATGCAACCCAAAGCTCTGC 60.389 55.000 0.00 0.00 0.00 4.26
1486 1503 1.674441 CAATCAATGAGCCGTCATGCT 59.326 47.619 0.00 0.00 43.04 3.79
1489 1506 2.425143 ACCAATCAATGAGCCGTCAT 57.575 45.000 0.00 0.00 46.01 3.06
1492 1509 2.198827 TGAACCAATCAATGAGCCGT 57.801 45.000 0.00 0.00 34.30 5.68
1579 1596 5.295787 AGCTTCACATGACTAACGAACAAAA 59.704 36.000 0.00 0.00 0.00 2.44
1588 1612 3.660501 ACGTCAGCTTCACATGACTAA 57.339 42.857 0.00 0.00 42.93 2.24
1633 1657 6.348458 CCACGAGAATCAACAATGTATGTGTT 60.348 38.462 0.00 0.00 42.99 3.32
1655 1679 8.530269 TTTAGAAAGAAACGAATCTACTCCAC 57.470 34.615 0.00 0.00 0.00 4.02
1687 1722 0.178973 AACCCTTTAACAAGCCGGCT 60.179 50.000 27.08 27.08 0.00 5.52
1709 1744 3.405170 ACAAGAACACAAACGCTCAAG 57.595 42.857 0.00 0.00 0.00 3.02
1785 1823 0.535335 GCGAGGGTGGATGAACACTA 59.465 55.000 0.00 0.00 41.09 2.74
1786 1824 1.194781 AGCGAGGGTGGATGAACACT 61.195 55.000 0.00 0.00 41.09 3.55
1787 1825 0.535335 TAGCGAGGGTGGATGAACAC 59.465 55.000 0.00 0.00 40.60 3.32
1788 1826 0.824109 CTAGCGAGGGTGGATGAACA 59.176 55.000 0.00 0.00 0.00 3.18
1789 1827 0.824759 ACTAGCGAGGGTGGATGAAC 59.175 55.000 0.00 0.00 0.00 3.18
1790 1828 1.480954 GAACTAGCGAGGGTGGATGAA 59.519 52.381 0.00 0.00 0.00 2.57
1791 1829 1.112113 GAACTAGCGAGGGTGGATGA 58.888 55.000 0.00 0.00 0.00 2.92
1792 1830 0.105039 GGAACTAGCGAGGGTGGATG 59.895 60.000 0.00 0.00 0.00 3.51
1793 1831 0.032017 AGGAACTAGCGAGGGTGGAT 60.032 55.000 0.00 0.00 36.02 3.41
1794 1832 0.683504 GAGGAACTAGCGAGGGTGGA 60.684 60.000 0.00 0.00 41.55 4.02
1795 1833 0.684805 AGAGGAACTAGCGAGGGTGG 60.685 60.000 0.00 0.00 41.55 4.61
1796 1834 0.741915 GAGAGGAACTAGCGAGGGTG 59.258 60.000 0.00 0.00 41.55 4.61
1797 1835 0.396001 GGAGAGGAACTAGCGAGGGT 60.396 60.000 0.00 0.00 41.55 4.34
1798 1836 0.106419 AGGAGAGGAACTAGCGAGGG 60.106 60.000 0.00 0.00 41.55 4.30
1799 1837 1.133915 AGAGGAGAGGAACTAGCGAGG 60.134 57.143 0.00 0.00 41.55 4.63
1800 1838 2.218603 GAGAGGAGAGGAACTAGCGAG 58.781 57.143 0.00 0.00 41.55 5.03
1801 1839 1.473610 CGAGAGGAGAGGAACTAGCGA 60.474 57.143 0.00 0.00 41.55 4.93
1802 1840 0.941542 CGAGAGGAGAGGAACTAGCG 59.058 60.000 0.00 0.00 41.55 4.26
1803 1841 0.666374 GCGAGAGGAGAGGAACTAGC 59.334 60.000 0.00 0.00 41.55 3.42
1804 1842 2.045561 TGCGAGAGGAGAGGAACTAG 57.954 55.000 0.00 0.00 41.55 2.57
1805 1843 2.509166 TTGCGAGAGGAGAGGAACTA 57.491 50.000 0.00 0.00 41.55 2.24
1807 1845 2.457366 TTTTGCGAGAGGAGAGGAAC 57.543 50.000 0.00 0.00 0.00 3.62
1839 1877 9.681062 TTGTAGCAGCCTTTAATTATTCTTAGT 57.319 29.630 0.00 0.00 0.00 2.24
1843 1881 9.189156 TGATTTGTAGCAGCCTTTAATTATTCT 57.811 29.630 0.00 0.00 0.00 2.40
1844 1882 9.801873 TTGATTTGTAGCAGCCTTTAATTATTC 57.198 29.630 0.00 0.00 0.00 1.75
1845 1883 9.586435 GTTGATTTGTAGCAGCCTTTAATTATT 57.414 29.630 0.00 0.00 0.00 1.40
1846 1884 8.197439 GGTTGATTTGTAGCAGCCTTTAATTAT 58.803 33.333 0.00 0.00 37.96 1.28
1847 1885 7.543756 GGTTGATTTGTAGCAGCCTTTAATTA 58.456 34.615 0.00 0.00 37.96 1.40
1848 1886 6.398095 GGTTGATTTGTAGCAGCCTTTAATT 58.602 36.000 0.00 0.00 37.96 1.40
1849 1887 5.393027 CGGTTGATTTGTAGCAGCCTTTAAT 60.393 40.000 0.00 0.00 38.72 1.40
1850 1888 4.083003 CGGTTGATTTGTAGCAGCCTTTAA 60.083 41.667 0.00 0.00 38.72 1.52
1851 1889 3.438781 CGGTTGATTTGTAGCAGCCTTTA 59.561 43.478 0.00 0.00 38.72 1.85
1852 1890 2.228822 CGGTTGATTTGTAGCAGCCTTT 59.771 45.455 0.00 0.00 38.72 3.11
1853 1891 1.812571 CGGTTGATTTGTAGCAGCCTT 59.187 47.619 0.00 0.00 38.72 4.35
1854 1892 1.271379 ACGGTTGATTTGTAGCAGCCT 60.271 47.619 0.00 0.00 38.72 4.58
1855 1893 1.165270 ACGGTTGATTTGTAGCAGCC 58.835 50.000 0.00 0.00 37.65 4.85
1856 1894 2.225491 TCAACGGTTGATTTGTAGCAGC 59.775 45.455 19.07 0.00 34.08 5.25
1867 1905 9.582431 TTAATTTTGTAACAAATCAACGGTTGA 57.418 25.926 24.32 24.32 45.01 3.18
1868 1906 9.842444 CTTAATTTTGTAACAAATCAACGGTTG 57.158 29.630 14.62 14.62 0.00 3.77
1869 1907 8.544597 GCTTAATTTTGTAACAAATCAACGGTT 58.455 29.630 0.00 0.00 0.00 4.44
1870 1908 7.170151 GGCTTAATTTTGTAACAAATCAACGGT 59.830 33.333 0.00 0.00 0.00 4.83
1871 1909 7.506474 GGCTTAATTTTGTAACAAATCAACGG 58.494 34.615 0.00 0.00 0.00 4.44
1872 1910 7.217201 CGGCTTAATTTTGTAACAAATCAACG 58.783 34.615 0.00 0.00 0.00 4.10
1873 1911 7.007117 GCGGCTTAATTTTGTAACAAATCAAC 58.993 34.615 0.00 0.00 0.00 3.18
1874 1912 6.146347 GGCGGCTTAATTTTGTAACAAATCAA 59.854 34.615 0.00 0.00 0.00 2.57
1875 1913 5.635700 GGCGGCTTAATTTTGTAACAAATCA 59.364 36.000 0.00 0.00 0.00 2.57
1876 1914 5.867174 AGGCGGCTTAATTTTGTAACAAATC 59.133 36.000 5.25 0.00 0.00 2.17
1877 1915 5.789521 AGGCGGCTTAATTTTGTAACAAAT 58.210 33.333 5.25 0.00 0.00 2.32
1878 1916 5.203060 AGGCGGCTTAATTTTGTAACAAA 57.797 34.783 5.25 0.00 0.00 2.83
1879 1917 4.321378 GGAGGCGGCTTAATTTTGTAACAA 60.321 41.667 14.76 0.00 0.00 2.83
1880 1918 3.191791 GGAGGCGGCTTAATTTTGTAACA 59.808 43.478 14.76 0.00 0.00 2.41
1881 1919 3.191791 TGGAGGCGGCTTAATTTTGTAAC 59.808 43.478 14.76 0.00 0.00 2.50
1882 1920 3.191791 GTGGAGGCGGCTTAATTTTGTAA 59.808 43.478 14.76 0.00 0.00 2.41
1883 1921 2.750712 GTGGAGGCGGCTTAATTTTGTA 59.249 45.455 14.76 0.00 0.00 2.41
1884 1922 1.544246 GTGGAGGCGGCTTAATTTTGT 59.456 47.619 14.76 0.00 0.00 2.83
1885 1923 1.543802 TGTGGAGGCGGCTTAATTTTG 59.456 47.619 14.76 0.00 0.00 2.44
1886 1924 1.818674 CTGTGGAGGCGGCTTAATTTT 59.181 47.619 14.76 0.00 0.00 1.82
1887 1925 1.463674 CTGTGGAGGCGGCTTAATTT 58.536 50.000 14.76 0.00 0.00 1.82
1888 1926 1.032114 GCTGTGGAGGCGGCTTAATT 61.032 55.000 14.76 0.00 37.74 1.40
1889 1927 1.452108 GCTGTGGAGGCGGCTTAAT 60.452 57.895 14.76 0.00 37.74 1.40
1900 1938 2.190538 TCTGAATCAGATGGCTGTGGA 58.809 47.619 9.18 0.00 42.84 4.02
1912 1950 2.804572 GCGGCTAGAAGCATCTGAATCA 60.805 50.000 0.71 0.00 44.75 2.57
1991 2029 1.530419 AACCGAAGCCATTGGTGCA 60.530 52.632 4.26 0.00 35.79 4.57
1997 2035 1.302511 AGCGTCAACCGAAGCCATT 60.303 52.632 0.00 0.00 46.52 3.16
2006 2044 0.387239 GTTGGAATGCAGCGTCAACC 60.387 55.000 7.63 3.93 33.65 3.77
2008 2046 0.537143 AGGTTGGAATGCAGCGTCAA 60.537 50.000 0.00 0.00 0.00 3.18
2077 2115 0.961019 GGTGAGGTTGCAATGAAGCA 59.039 50.000 0.59 0.00 43.99 3.91
2110 2148 3.561217 TAGTGAAGCGTCGCGGCAA 62.561 57.895 12.89 0.00 39.38 4.52
2111 2149 4.045771 TAGTGAAGCGTCGCGGCA 62.046 61.111 12.89 11.17 39.38 5.69
2136 2239 1.371635 GTTGCAATGAAGCGCCGTT 60.372 52.632 2.29 0.00 37.31 4.44
2173 2276 4.090057 GTGAAGCTTCGCGGTGGC 62.090 66.667 23.20 8.57 0.00 5.01
2176 2279 3.044305 GCAGTGAAGCTTCGCGGT 61.044 61.111 31.37 16.66 42.30 5.68
2183 2286 1.221414 GTCGAAACTGCAGTGAAGCT 58.779 50.000 22.49 0.00 34.99 3.74
2196 2363 1.332065 TGCAATGAAGCGTTGTCGAAA 59.668 42.857 0.00 0.00 39.71 3.46
2203 2370 0.238289 CGAGGTTGCAATGAAGCGTT 59.762 50.000 0.59 0.00 37.31 4.84
2243 2410 2.974698 GCTGCAGTGAAGTGCCGT 60.975 61.111 16.64 0.00 43.28 5.68
2294 2461 2.892640 CTTCGCCGTCTCCCATCA 59.107 61.111 0.00 0.00 0.00 3.07
2303 2470 3.044305 GCAGTGAAGCTTCGCCGT 61.044 61.111 31.20 15.13 38.43 5.68
2337 2504 2.819984 ATTCATCGCAGCACCCCGTT 62.820 55.000 0.00 0.00 0.00 4.44
2338 2505 3.329542 ATTCATCGCAGCACCCCGT 62.330 57.895 0.00 0.00 0.00 5.28
2341 2508 1.723870 GTGATTCATCGCAGCACCC 59.276 57.895 0.00 0.00 37.27 4.61
2408 2673 2.586245 CTGCAATCGGGAGGCTGA 59.414 61.111 0.00 0.00 0.00 4.26
2409 2674 3.207669 GCTGCAATCGGGAGGCTG 61.208 66.667 0.00 0.00 35.12 4.85
2410 2675 3.052909 ATGCTGCAATCGGGAGGCT 62.053 57.895 6.36 0.00 35.12 4.58
2411 2676 2.517875 ATGCTGCAATCGGGAGGC 60.518 61.111 6.36 0.00 35.12 4.70
2412 2677 1.452651 ACATGCTGCAATCGGGAGG 60.453 57.895 6.36 0.00 35.12 4.30
2413 2678 1.725665 CACATGCTGCAATCGGGAG 59.274 57.895 6.36 0.00 38.13 4.30
2457 2722 2.181777 GCTGCAGATGACGACGGA 59.818 61.111 20.43 0.00 0.00 4.69


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

AutoCloner maintained by Alex Coulton.