Multiple sequence alignment - TraesCS5D01G188000

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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 TraesCS5D01G188000 chr5D 100.000 2634 0 0 1 2634 289799873 289797240 0.000000e+00 4865
1 TraesCS5D01G188000 chr5D 88.740 746 49 7 918 1652 289425271 289424550 0.000000e+00 880
2 TraesCS5D01G188000 chr5D 90.088 454 45 0 975 1428 289501169 289500716 8.120000e-165 590
3 TraesCS5D01G188000 chr5D 85.281 231 22 6 1650 1873 424622529 424622304 7.330000e-56 228
4 TraesCS5D01G188000 chr1B 94.581 775 36 3 882 1655 426502697 426501928 0.000000e+00 1194
5 TraesCS5D01G188000 chr1B 84.522 575 71 6 2042 2614 636880913 636881471 1.070000e-153 553
6 TraesCS5D01G188000 chr1B 78.241 671 121 21 226 888 278464521 278463868 8.780000e-110 407
7 TraesCS5D01G188000 chrUn 90.828 894 64 12 1 888 403485653 403486534 0.000000e+00 1181
8 TraesCS5D01G188000 chrUn 93.385 771 34 5 882 1652 383291282 383292035 0.000000e+00 1125
9 TraesCS5D01G188000 chr3D 87.097 992 88 19 1653 2634 536930308 536931269 0.000000e+00 1086
10 TraesCS5D01G188000 chr3D 76.877 826 161 26 77 888 267255417 267256226 8.650000e-120 440
11 TraesCS5D01G188000 chr3D 85.652 230 20 6 1653 1873 451200098 451200323 2.040000e-56 230
12 TraesCS5D01G188000 chr7B 92.418 765 39 7 891 1655 588502450 588501705 0.000000e+00 1074
13 TraesCS5D01G188000 chr7B 89.083 687 70 5 1949 2634 591610657 591611339 0.000000e+00 848
14 TraesCS5D01G188000 chr7B 91.083 157 7 3 1652 1802 710506814 710506969 3.440000e-49 206
15 TraesCS5D01G188000 chr7B 85.185 189 16 6 1672 1852 223219442 223219258 1.610000e-42 183
16 TraesCS5D01G188000 chr4D 88.902 820 75 10 1658 2464 495369575 495370391 0.000000e+00 996
17 TraesCS5D01G188000 chr4D 77.022 779 139 30 60 822 64610988 64611742 6.790000e-111 411
18 TraesCS5D01G188000 chr7D 89.559 680 47 12 975 1652 545270571 545269914 0.000000e+00 841
19 TraesCS5D01G188000 chr7D 77.294 872 175 18 27 888 264070511 264071369 2.360000e-135 492
20 TraesCS5D01G188000 chr6A 81.818 990 113 48 1653 2634 105292817 105291887 0.000000e+00 769
21 TraesCS5D01G188000 chr6A 79.502 683 125 14 102 778 169205870 169206543 3.070000e-129 472
22 TraesCS5D01G188000 chr1A 90.511 548 47 4 2091 2634 517744845 517744299 0.000000e+00 719
23 TraesCS5D01G188000 chr7A 88.576 604 41 10 918 1517 627011613 627011034 0.000000e+00 708
24 TraesCS5D01G188000 chr7A 88.576 604 41 10 918 1517 627049382 627048803 0.000000e+00 708
25 TraesCS5D01G188000 chr7A 85.031 648 77 15 1990 2634 569059791 569060421 2.210000e-180 641
26 TraesCS5D01G188000 chr2B 82.893 795 81 24 1841 2634 521438653 521437913 0.000000e+00 664
27 TraesCS5D01G188000 chr2B 88.421 475 54 1 982 1456 182147813 182147340 2.940000e-159 571
28 TraesCS5D01G188000 chr2B 87.961 407 28 12 1653 2047 169855641 169855244 6.640000e-126 460
29 TraesCS5D01G188000 chr2B 84.783 230 19 9 1654 1873 95508697 95508920 1.590000e-52 217
30 TraesCS5D01G188000 chr2B 85.990 207 17 6 1652 1849 53295522 53295319 7.390000e-51 211
31 TraesCS5D01G188000 chr3B 81.527 812 100 20 1841 2634 49304021 49303242 8.010000e-175 623
32 TraesCS5D01G188000 chr3B 80.748 722 80 42 1929 2634 52870344 52869666 2.340000e-140 508
33 TraesCS5D01G188000 chr3B 74.688 561 123 18 82 632 550977692 550977141 5.670000e-57 231
34 TraesCS5D01G188000 chr3B 91.411 163 5 5 1649 1802 823524753 823524591 5.710000e-52 215
35 TraesCS5D01G188000 chr5B 85.763 590 52 14 2045 2634 19108935 19108378 1.750000e-166 595
36 TraesCS5D01G188000 chr3A 81.692 721 119 11 176 887 550501149 550501865 2.920000e-164 588
37 TraesCS5D01G188000 chr3A 77.827 902 171 25 1 888 667791096 667791982 4.990000e-147 531
38 TraesCS5D01G188000 chr3A 79.803 406 44 19 1655 2056 16484347 16483976 7.230000e-66 261
39 TraesCS5D01G188000 chr3A 73.764 526 116 20 119 632 41105450 41104935 1.240000e-43 187
40 TraesCS5D01G188000 chr6D 78.281 884 165 20 1 871 359561071 359560202 6.410000e-151 544
41 TraesCS5D01G188000 chr2A 74.135 549 121 18 86 623 521252672 521253210 9.550000e-50 207


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 TraesCS5D01G188000 chr5D 289797240 289799873 2633 True 4865 4865 100.000 1 2634 1 chr5D.!!$R3 2633
1 TraesCS5D01G188000 chr5D 289424550 289425271 721 True 880 880 88.740 918 1652 1 chr5D.!!$R1 734
2 TraesCS5D01G188000 chr1B 426501928 426502697 769 True 1194 1194 94.581 882 1655 1 chr1B.!!$R2 773
3 TraesCS5D01G188000 chr1B 636880913 636881471 558 False 553 553 84.522 2042 2614 1 chr1B.!!$F1 572
4 TraesCS5D01G188000 chr1B 278463868 278464521 653 True 407 407 78.241 226 888 1 chr1B.!!$R1 662
5 TraesCS5D01G188000 chrUn 403485653 403486534 881 False 1181 1181 90.828 1 888 1 chrUn.!!$F2 887
6 TraesCS5D01G188000 chrUn 383291282 383292035 753 False 1125 1125 93.385 882 1652 1 chrUn.!!$F1 770
7 TraesCS5D01G188000 chr3D 536930308 536931269 961 False 1086 1086 87.097 1653 2634 1 chr3D.!!$F3 981
8 TraesCS5D01G188000 chr3D 267255417 267256226 809 False 440 440 76.877 77 888 1 chr3D.!!$F1 811
9 TraesCS5D01G188000 chr7B 588501705 588502450 745 True 1074 1074 92.418 891 1655 1 chr7B.!!$R2 764
10 TraesCS5D01G188000 chr7B 591610657 591611339 682 False 848 848 89.083 1949 2634 1 chr7B.!!$F1 685
11 TraesCS5D01G188000 chr4D 495369575 495370391 816 False 996 996 88.902 1658 2464 1 chr4D.!!$F2 806
12 TraesCS5D01G188000 chr4D 64610988 64611742 754 False 411 411 77.022 60 822 1 chr4D.!!$F1 762
13 TraesCS5D01G188000 chr7D 545269914 545270571 657 True 841 841 89.559 975 1652 1 chr7D.!!$R1 677
14 TraesCS5D01G188000 chr7D 264070511 264071369 858 False 492 492 77.294 27 888 1 chr7D.!!$F1 861
15 TraesCS5D01G188000 chr6A 105291887 105292817 930 True 769 769 81.818 1653 2634 1 chr6A.!!$R1 981
16 TraesCS5D01G188000 chr6A 169205870 169206543 673 False 472 472 79.502 102 778 1 chr6A.!!$F1 676
17 TraesCS5D01G188000 chr1A 517744299 517744845 546 True 719 719 90.511 2091 2634 1 chr1A.!!$R1 543
18 TraesCS5D01G188000 chr7A 627011034 627011613 579 True 708 708 88.576 918 1517 1 chr7A.!!$R1 599
19 TraesCS5D01G188000 chr7A 627048803 627049382 579 True 708 708 88.576 918 1517 1 chr7A.!!$R2 599
20 TraesCS5D01G188000 chr7A 569059791 569060421 630 False 641 641 85.031 1990 2634 1 chr7A.!!$F1 644
21 TraesCS5D01G188000 chr2B 521437913 521438653 740 True 664 664 82.893 1841 2634 1 chr2B.!!$R4 793
22 TraesCS5D01G188000 chr3B 49303242 49304021 779 True 623 623 81.527 1841 2634 1 chr3B.!!$R1 793
23 TraesCS5D01G188000 chr3B 52869666 52870344 678 True 508 508 80.748 1929 2634 1 chr3B.!!$R2 705
24 TraesCS5D01G188000 chr3B 550977141 550977692 551 True 231 231 74.688 82 632 1 chr3B.!!$R3 550
25 TraesCS5D01G188000 chr5B 19108378 19108935 557 True 595 595 85.763 2045 2634 1 chr5B.!!$R1 589
26 TraesCS5D01G188000 chr3A 550501149 550501865 716 False 588 588 81.692 176 887 1 chr3A.!!$F1 711
27 TraesCS5D01G188000 chr3A 667791096 667791982 886 False 531 531 77.827 1 888 1 chr3A.!!$F2 887
28 TraesCS5D01G188000 chr6D 359560202 359561071 869 True 544 544 78.281 1 871 1 chr6D.!!$R1 870
29 TraesCS5D01G188000 chr2A 521252672 521253210 538 False 207 207 74.135 86 623 1 chr2A.!!$F1 537

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
782 785 0.109039 GTCGTCAGCAGAACCCTCTC 60.109 60.0 0.0 0.0 0.0 3.2 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1924 2010 0.598158 GTTTGACCACCGACGCACTA 60.598 55.0 0.0 0.0 0.0 2.74 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
25 26 1.676635 GATCTTGCTGCCTGGCACA 60.677 57.895 19.30 17.56 42.27 4.57
39 40 0.536006 GGCACAAGCTCCTTGAGTGT 60.536 55.000 11.56 0.00 43.42 3.55
54 55 3.385384 TGTGCCGCTCTCCAGGAG 61.385 66.667 10.70 10.70 44.49 3.69
234 235 2.870035 TTTGGCAATGGATCCGGGGG 62.870 60.000 7.39 0.00 0.00 5.40
253 254 1.611261 CGGGTCCCCTTAGGTGTGA 60.611 63.158 1.00 0.00 36.75 3.58
272 273 1.131315 GAAGGTTCTCAAGCGGAATGC 59.869 52.381 0.00 0.00 46.98 3.56
389 391 4.699522 GAGGTGGTCGGTGGGTGC 62.700 72.222 0.00 0.00 0.00 5.01
514 517 1.549620 TGGACGGTCCGCAATAAACTA 59.450 47.619 21.52 0.00 40.17 2.24
644 647 7.040892 CCATCGATACCATCATTGTTGATCTTT 60.041 37.037 0.00 0.00 40.70 2.52
646 649 8.593492 TCGATACCATCATTGTTGATCTTTAG 57.407 34.615 0.00 0.00 40.70 1.85
647 650 7.171508 TCGATACCATCATTGTTGATCTTTAGC 59.828 37.037 0.00 0.00 40.70 3.09
649 652 5.263599 ACCATCATTGTTGATCTTTAGCCA 58.736 37.500 0.00 0.00 40.70 4.75
704 707 4.447342 CCCCCAAGCCGGATTGCT 62.447 66.667 26.87 1.85 45.43 3.91
710 713 4.208632 AGCCGGATTGCTTCTTCG 57.791 55.556 5.05 0.00 38.85 3.79
711 714 1.596934 AGCCGGATTGCTTCTTCGA 59.403 52.632 5.05 0.00 38.85 3.71
712 715 0.179000 AGCCGGATTGCTTCTTCGAT 59.821 50.000 5.05 0.00 38.85 3.59
713 716 0.305922 GCCGGATTGCTTCTTCGATG 59.694 55.000 5.05 0.00 0.00 3.84
714 717 0.940126 CCGGATTGCTTCTTCGATGG 59.060 55.000 0.00 0.00 0.00 3.51
715 718 0.305922 CGGATTGCTTCTTCGATGGC 59.694 55.000 0.00 0.00 0.00 4.40
716 719 1.673168 GGATTGCTTCTTCGATGGCT 58.327 50.000 0.00 0.00 0.00 4.75
717 720 1.332997 GGATTGCTTCTTCGATGGCTG 59.667 52.381 0.00 0.00 0.00 4.85
718 721 2.012673 GATTGCTTCTTCGATGGCTGT 58.987 47.619 0.00 0.00 0.00 4.40
719 722 1.442769 TTGCTTCTTCGATGGCTGTC 58.557 50.000 0.00 0.00 0.00 3.51
720 723 0.391661 TGCTTCTTCGATGGCTGTCC 60.392 55.000 0.00 0.00 0.00 4.02
721 724 1.424493 GCTTCTTCGATGGCTGTCCG 61.424 60.000 0.00 0.00 34.14 4.79
722 725 1.424493 CTTCTTCGATGGCTGTCCGC 61.424 60.000 0.00 0.00 38.13 5.54
731 734 2.665185 GCTGTCCGCCGTCTTTGT 60.665 61.111 0.00 0.00 0.00 2.83
732 735 2.251642 GCTGTCCGCCGTCTTTGTT 61.252 57.895 0.00 0.00 0.00 2.83
733 736 1.860078 CTGTCCGCCGTCTTTGTTC 59.140 57.895 0.00 0.00 0.00 3.18
734 737 0.600255 CTGTCCGCCGTCTTTGTTCT 60.600 55.000 0.00 0.00 0.00 3.01
735 738 0.878523 TGTCCGCCGTCTTTGTTCTG 60.879 55.000 0.00 0.00 0.00 3.02
736 739 0.878961 GTCCGCCGTCTTTGTTCTGT 60.879 55.000 0.00 0.00 0.00 3.41
737 740 0.179067 TCCGCCGTCTTTGTTCTGTT 60.179 50.000 0.00 0.00 0.00 3.16
738 741 0.661020 CCGCCGTCTTTGTTCTGTTT 59.339 50.000 0.00 0.00 0.00 2.83
739 742 1.064952 CCGCCGTCTTTGTTCTGTTTT 59.935 47.619 0.00 0.00 0.00 2.43
740 743 2.478879 CCGCCGTCTTTGTTCTGTTTTT 60.479 45.455 0.00 0.00 0.00 1.94
758 761 4.654091 TTTTTCTTCAGGGCTTGTTGAG 57.346 40.909 0.00 0.00 0.00 3.02
759 762 3.297134 TTTCTTCAGGGCTTGTTGAGT 57.703 42.857 0.00 0.00 0.00 3.41
760 763 3.297134 TTCTTCAGGGCTTGTTGAGTT 57.703 42.857 0.00 0.00 0.00 3.01
761 764 2.575532 TCTTCAGGGCTTGTTGAGTTG 58.424 47.619 0.00 0.00 0.00 3.16
762 765 2.092429 TCTTCAGGGCTTGTTGAGTTGT 60.092 45.455 0.00 0.00 0.00 3.32
763 766 1.679139 TCAGGGCTTGTTGAGTTGTG 58.321 50.000 0.00 0.00 0.00 3.33
764 767 1.064758 TCAGGGCTTGTTGAGTTGTGT 60.065 47.619 0.00 0.00 0.00 3.72
765 768 1.334869 CAGGGCTTGTTGAGTTGTGTC 59.665 52.381 0.00 0.00 0.00 3.67
766 769 0.307760 GGGCTTGTTGAGTTGTGTCG 59.692 55.000 0.00 0.00 0.00 4.35
767 770 1.014352 GGCTTGTTGAGTTGTGTCGT 58.986 50.000 0.00 0.00 0.00 4.34
768 771 1.003866 GGCTTGTTGAGTTGTGTCGTC 60.004 52.381 0.00 0.00 0.00 4.20
769 772 1.663643 GCTTGTTGAGTTGTGTCGTCA 59.336 47.619 0.00 0.00 0.00 4.35
770 773 2.285834 GCTTGTTGAGTTGTGTCGTCAG 60.286 50.000 0.00 0.00 0.00 3.51
771 774 1.286501 TGTTGAGTTGTGTCGTCAGC 58.713 50.000 0.00 0.00 0.00 4.26
772 775 1.286501 GTTGAGTTGTGTCGTCAGCA 58.713 50.000 0.00 0.00 0.00 4.41
773 776 1.258982 GTTGAGTTGTGTCGTCAGCAG 59.741 52.381 0.00 0.00 0.00 4.24
774 777 0.744281 TGAGTTGTGTCGTCAGCAGA 59.256 50.000 0.00 0.00 0.00 4.26
775 778 1.136110 TGAGTTGTGTCGTCAGCAGAA 59.864 47.619 0.00 0.00 0.00 3.02
776 779 1.523095 GAGTTGTGTCGTCAGCAGAAC 59.477 52.381 0.00 0.00 39.47 3.01
777 780 0.582005 GTTGTGTCGTCAGCAGAACC 59.418 55.000 0.00 0.00 35.08 3.62
778 781 0.531974 TTGTGTCGTCAGCAGAACCC 60.532 55.000 0.00 0.00 0.00 4.11
779 782 1.367840 GTGTCGTCAGCAGAACCCT 59.632 57.895 0.00 0.00 0.00 4.34
780 783 0.667792 GTGTCGTCAGCAGAACCCTC 60.668 60.000 0.00 0.00 0.00 4.30
781 784 0.827925 TGTCGTCAGCAGAACCCTCT 60.828 55.000 0.00 0.00 0.00 3.69
782 785 0.109039 GTCGTCAGCAGAACCCTCTC 60.109 60.000 0.00 0.00 0.00 3.20
783 786 1.153939 CGTCAGCAGAACCCTCTCG 60.154 63.158 0.00 0.00 0.00 4.04
784 787 1.867919 CGTCAGCAGAACCCTCTCGT 61.868 60.000 0.00 0.00 0.00 4.18
785 788 1.174783 GTCAGCAGAACCCTCTCGTA 58.825 55.000 0.00 0.00 0.00 3.43
786 789 1.135344 GTCAGCAGAACCCTCTCGTAC 60.135 57.143 0.00 0.00 0.00 3.67
787 790 1.178276 CAGCAGAACCCTCTCGTACT 58.822 55.000 0.00 0.00 0.00 2.73
788 791 2.026542 TCAGCAGAACCCTCTCGTACTA 60.027 50.000 0.00 0.00 0.00 1.82
789 792 2.952978 CAGCAGAACCCTCTCGTACTAT 59.047 50.000 0.00 0.00 0.00 2.12
790 793 2.952978 AGCAGAACCCTCTCGTACTATG 59.047 50.000 0.00 0.00 0.00 2.23
791 794 2.688958 GCAGAACCCTCTCGTACTATGT 59.311 50.000 0.00 0.00 0.00 2.29
792 795 3.130693 GCAGAACCCTCTCGTACTATGTT 59.869 47.826 0.00 0.00 0.00 2.71
793 796 4.673441 CAGAACCCTCTCGTACTATGTTG 58.327 47.826 0.00 0.00 0.00 3.33
794 797 4.158025 CAGAACCCTCTCGTACTATGTTGT 59.842 45.833 0.00 0.00 0.00 3.32
795 798 4.158025 AGAACCCTCTCGTACTATGTTGTG 59.842 45.833 0.00 0.00 0.00 3.33
796 799 3.428532 ACCCTCTCGTACTATGTTGTGT 58.571 45.455 0.00 0.00 0.00 3.72
797 800 4.592942 ACCCTCTCGTACTATGTTGTGTA 58.407 43.478 0.00 0.00 0.00 2.90
798 801 5.198965 ACCCTCTCGTACTATGTTGTGTAT 58.801 41.667 0.00 0.00 0.00 2.29
799 802 5.655532 ACCCTCTCGTACTATGTTGTGTATT 59.344 40.000 0.00 0.00 0.00 1.89
800 803 6.830324 ACCCTCTCGTACTATGTTGTGTATTA 59.170 38.462 0.00 0.00 0.00 0.98
801 804 7.137426 CCCTCTCGTACTATGTTGTGTATTAC 58.863 42.308 0.00 0.00 0.00 1.89
802 805 7.201758 CCCTCTCGTACTATGTTGTGTATTACA 60.202 40.741 0.00 0.00 37.56 2.41
803 806 8.350722 CCTCTCGTACTATGTTGTGTATTACAT 58.649 37.037 0.00 0.00 39.48 2.29
804 807 9.731819 CTCTCGTACTATGTTGTGTATTACATT 57.268 33.333 0.00 0.00 39.48 2.71
807 810 8.597227 TCGTACTATGTTGTGTATTACATTTGC 58.403 33.333 0.00 0.00 39.48 3.68
808 811 7.577668 CGTACTATGTTGTGTATTACATTTGCG 59.422 37.037 0.00 0.00 39.48 4.85
809 812 7.372451 ACTATGTTGTGTATTACATTTGCGT 57.628 32.000 0.00 0.00 39.48 5.24
810 813 8.481974 ACTATGTTGTGTATTACATTTGCGTA 57.518 30.769 0.00 0.00 39.48 4.42
811 814 9.104965 ACTATGTTGTGTATTACATTTGCGTAT 57.895 29.630 0.00 0.00 39.48 3.06
812 815 9.368921 CTATGTTGTGTATTACATTTGCGTATG 57.631 33.333 0.00 0.00 39.48 2.39
813 816 7.135089 TGTTGTGTATTACATTTGCGTATGT 57.865 32.000 8.35 8.35 39.48 2.29
814 817 7.018235 TGTTGTGTATTACATTTGCGTATGTG 58.982 34.615 12.32 0.00 39.06 3.21
815 818 5.564768 TGTGTATTACATTTGCGTATGTGC 58.435 37.500 12.32 3.20 39.06 4.57
816 819 4.664410 GTGTATTACATTTGCGTATGTGCG 59.336 41.667 12.32 0.00 39.06 5.34
817 820 4.567159 TGTATTACATTTGCGTATGTGCGA 59.433 37.500 12.32 1.56 39.06 5.10
818 821 4.811555 ATTACATTTGCGTATGTGCGAT 57.188 36.364 12.32 3.39 39.06 4.58
819 822 2.456942 ACATTTGCGTATGTGCGATG 57.543 45.000 3.01 5.97 37.36 3.84
820 823 1.737236 ACATTTGCGTATGTGCGATGT 59.263 42.857 3.01 6.86 37.36 3.06
821 824 2.103388 CATTTGCGTATGTGCGATGTG 58.897 47.619 0.00 0.00 37.81 3.21
822 825 1.433534 TTTGCGTATGTGCGATGTGA 58.566 45.000 0.00 0.00 37.81 3.58
823 826 1.433534 TTGCGTATGTGCGATGTGAA 58.566 45.000 0.00 0.00 37.81 3.18
824 827 1.650825 TGCGTATGTGCGATGTGAAT 58.349 45.000 0.00 0.00 37.81 2.57
825 828 2.006169 TGCGTATGTGCGATGTGAATT 58.994 42.857 0.00 0.00 37.81 2.17
826 829 2.418280 TGCGTATGTGCGATGTGAATTT 59.582 40.909 0.00 0.00 37.81 1.82
827 830 3.120025 TGCGTATGTGCGATGTGAATTTT 60.120 39.130 0.00 0.00 37.81 1.82
828 831 3.851403 GCGTATGTGCGATGTGAATTTTT 59.149 39.130 0.00 0.00 0.00 1.94
829 832 4.258977 GCGTATGTGCGATGTGAATTTTTG 60.259 41.667 0.00 0.00 0.00 2.44
830 833 4.851014 CGTATGTGCGATGTGAATTTTTGT 59.149 37.500 0.00 0.00 0.00 2.83
831 834 6.018542 CGTATGTGCGATGTGAATTTTTGTA 58.981 36.000 0.00 0.00 0.00 2.41
832 835 6.192682 CGTATGTGCGATGTGAATTTTTGTAG 59.807 38.462 0.00 0.00 0.00 2.74
833 836 5.431420 TGTGCGATGTGAATTTTTGTAGT 57.569 34.783 0.00 0.00 0.00 2.73
834 837 6.546972 TGTGCGATGTGAATTTTTGTAGTA 57.453 33.333 0.00 0.00 0.00 1.82
835 838 6.367421 TGTGCGATGTGAATTTTTGTAGTAC 58.633 36.000 0.00 0.00 0.00 2.73
836 839 5.793457 GTGCGATGTGAATTTTTGTAGTACC 59.207 40.000 0.00 0.00 0.00 3.34
837 840 5.470437 TGCGATGTGAATTTTTGTAGTACCA 59.530 36.000 0.00 0.00 0.00 3.25
838 841 6.150307 TGCGATGTGAATTTTTGTAGTACCAT 59.850 34.615 0.00 0.00 0.00 3.55
839 842 6.468956 GCGATGTGAATTTTTGTAGTACCATG 59.531 38.462 0.00 0.00 0.00 3.66
840 843 7.526608 CGATGTGAATTTTTGTAGTACCATGT 58.473 34.615 0.00 0.00 0.00 3.21
841 844 7.481483 CGATGTGAATTTTTGTAGTACCATGTG 59.519 37.037 0.00 0.00 0.00 3.21
842 845 7.809546 TGTGAATTTTTGTAGTACCATGTGA 57.190 32.000 0.00 0.00 0.00 3.58
843 846 8.226819 TGTGAATTTTTGTAGTACCATGTGAA 57.773 30.769 0.00 0.00 0.00 3.18
844 847 8.855110 TGTGAATTTTTGTAGTACCATGTGAAT 58.145 29.630 0.00 0.00 0.00 2.57
845 848 9.341899 GTGAATTTTTGTAGTACCATGTGAATC 57.658 33.333 0.00 0.00 0.00 2.52
846 849 9.295825 TGAATTTTTGTAGTACCATGTGAATCT 57.704 29.630 0.00 0.00 0.00 2.40
847 850 9.559958 GAATTTTTGTAGTACCATGTGAATCTG 57.440 33.333 0.00 0.00 0.00 2.90
848 851 7.447374 TTTTTGTAGTACCATGTGAATCTGG 57.553 36.000 0.00 0.00 38.55 3.86
850 853 5.084818 TGTAGTACCATGTGAATCTGGTG 57.915 43.478 4.52 0.00 45.28 4.17
851 854 3.634397 AGTACCATGTGAATCTGGTGG 57.366 47.619 4.52 0.81 45.28 4.61
852 855 2.912956 AGTACCATGTGAATCTGGTGGT 59.087 45.455 4.52 6.18 45.28 4.16
853 856 2.978156 ACCATGTGAATCTGGTGGTT 57.022 45.000 0.00 0.00 44.06 3.67
854 857 3.243359 ACCATGTGAATCTGGTGGTTT 57.757 42.857 0.00 0.00 44.06 3.27
855 858 2.892852 ACCATGTGAATCTGGTGGTTTG 59.107 45.455 0.00 0.00 44.06 2.93
856 859 2.353011 CCATGTGAATCTGGTGGTTTGC 60.353 50.000 0.00 0.00 0.00 3.68
857 860 2.363306 TGTGAATCTGGTGGTTTGCT 57.637 45.000 0.00 0.00 0.00 3.91
858 861 2.665165 TGTGAATCTGGTGGTTTGCTT 58.335 42.857 0.00 0.00 0.00 3.91
859 862 2.361757 TGTGAATCTGGTGGTTTGCTTG 59.638 45.455 0.00 0.00 0.00 4.01
860 863 2.622942 GTGAATCTGGTGGTTTGCTTGA 59.377 45.455 0.00 0.00 0.00 3.02
861 864 3.256631 GTGAATCTGGTGGTTTGCTTGAT 59.743 43.478 0.00 0.00 0.00 2.57
862 865 3.256383 TGAATCTGGTGGTTTGCTTGATG 59.744 43.478 0.00 0.00 0.00 3.07
863 866 2.363306 TCTGGTGGTTTGCTTGATGT 57.637 45.000 0.00 0.00 0.00 3.06
864 867 3.500448 TCTGGTGGTTTGCTTGATGTA 57.500 42.857 0.00 0.00 0.00 2.29
865 868 4.032960 TCTGGTGGTTTGCTTGATGTAT 57.967 40.909 0.00 0.00 0.00 2.29
866 869 5.172687 TCTGGTGGTTTGCTTGATGTATA 57.827 39.130 0.00 0.00 0.00 1.47
867 870 5.565509 TCTGGTGGTTTGCTTGATGTATAA 58.434 37.500 0.00 0.00 0.00 0.98
868 871 6.007076 TCTGGTGGTTTGCTTGATGTATAAA 58.993 36.000 0.00 0.00 0.00 1.40
869 872 6.150976 TCTGGTGGTTTGCTTGATGTATAAAG 59.849 38.462 0.00 0.00 0.00 1.85
876 879 4.653806 GCTTGATGTATAAAGCTAGGCG 57.346 45.455 6.69 0.00 44.33 5.52
877 880 4.307432 GCTTGATGTATAAAGCTAGGCGA 58.693 43.478 6.69 0.00 44.33 5.54
878 881 4.750098 GCTTGATGTATAAAGCTAGGCGAA 59.250 41.667 6.69 0.00 44.33 4.70
879 882 5.236478 GCTTGATGTATAAAGCTAGGCGAAA 59.764 40.000 6.69 0.00 44.33 3.46
880 883 6.564873 GCTTGATGTATAAAGCTAGGCGAAAG 60.565 42.308 6.69 0.00 44.33 2.62
988 998 3.303135 AACGAGTGCAGGAGCGGA 61.303 61.111 0.00 0.00 46.23 5.54
1017 1027 1.598962 CATGGCGAGCGAATGGGAT 60.599 57.895 0.00 0.00 0.00 3.85
1035 1057 0.542938 ATAGCCCATCGAGCAGCCTA 60.543 55.000 0.00 0.00 0.00 3.93
1224 1246 2.775856 GCTCGAGGACCTGATGCGA 61.776 63.158 15.58 0.00 0.00 5.10
1439 1462 5.357032 TCGACAATTCTACTGCAGATAGTCA 59.643 40.000 23.35 9.81 32.47 3.41
1480 1523 6.194235 AGTATCAAAATTGGGGCAATCACTA 58.806 36.000 0.00 0.00 32.43 2.74
1547 1594 8.787852 GTTGAGGAAAATTACTGATTTCAGAGT 58.212 33.333 14.29 0.00 46.59 3.24
1697 1773 3.520290 GACACATCAACGGTCCAGATA 57.480 47.619 0.00 0.00 0.00 1.98
1698 1774 3.857052 GACACATCAACGGTCCAGATAA 58.143 45.455 0.00 0.00 0.00 1.75
1701 1777 3.809832 CACATCAACGGTCCAGATAATCC 59.190 47.826 0.00 0.00 0.00 3.01
1808 1892 4.409218 GCGACGTACGTGCTCCCA 62.409 66.667 28.16 0.00 44.60 4.37
1822 1906 1.903877 CTCCCATGGCTTCAGACGGT 61.904 60.000 6.09 0.00 0.00 4.83
1823 1907 1.746615 CCCATGGCTTCAGACGGTG 60.747 63.158 6.09 0.00 0.00 4.94
1824 1908 1.003355 CCATGGCTTCAGACGGTGT 60.003 57.895 0.00 0.00 0.00 4.16
1927 2013 2.488355 CGCGTCGGTGGTCATAGT 59.512 61.111 0.00 0.00 0.00 2.12
1934 2020 1.518572 GGTGGTCATAGTGCGTCGG 60.519 63.158 0.00 0.00 0.00 4.79
1942 2028 0.319083 ATAGTGCGTCGGTGGTCAAA 59.681 50.000 0.00 0.00 0.00 2.69
2071 2199 2.758327 CCCATCTCGTCCGTCCCA 60.758 66.667 0.00 0.00 0.00 4.37
2078 2206 2.102357 CGTCCGTCCCATCGACTG 59.898 66.667 0.00 0.00 39.56 3.51
2079 2207 2.202756 GTCCGTCCCATCGACTGC 60.203 66.667 0.00 0.00 39.56 4.40
2080 2208 3.458163 TCCGTCCCATCGACTGCC 61.458 66.667 0.00 0.00 39.56 4.85
2081 2209 3.770040 CCGTCCCATCGACTGCCA 61.770 66.667 0.00 0.00 39.56 4.92
2082 2210 2.509336 CGTCCCATCGACTGCCAC 60.509 66.667 0.00 0.00 39.56 5.01
2083 2211 2.125106 GTCCCATCGACTGCCACC 60.125 66.667 0.00 0.00 38.57 4.61
2084 2212 3.399181 TCCCATCGACTGCCACCC 61.399 66.667 0.00 0.00 0.00 4.61
2085 2213 4.489771 CCCATCGACTGCCACCCC 62.490 72.222 0.00 0.00 0.00 4.95
2086 2214 3.716195 CCATCGACTGCCACCCCA 61.716 66.667 0.00 0.00 0.00 4.96
2087 2215 2.436646 CATCGACTGCCACCCCAC 60.437 66.667 0.00 0.00 0.00 4.61
2088 2216 3.717294 ATCGACTGCCACCCCACC 61.717 66.667 0.00 0.00 0.00 4.61
2177 2380 1.520666 CCCGTCGCATTTACTCCCT 59.479 57.895 0.00 0.00 0.00 4.20
2260 2491 2.609921 ACTTCTTCCCCCGACCCC 60.610 66.667 0.00 0.00 0.00 4.95
2268 2499 3.849951 CCCCGACCCCTCATCACG 61.850 72.222 0.00 0.00 0.00 4.35
2378 2609 4.681978 GAGCCTGAACACGCCGGT 62.682 66.667 1.90 0.00 0.00 5.28
2391 2622 2.052690 GCCGGTGACAGAGGAGCTA 61.053 63.158 1.90 0.00 0.00 3.32
2393 2624 1.115467 CCGGTGACAGAGGAGCTATT 58.885 55.000 0.00 0.00 0.00 1.73
2413 2644 2.430367 GGTTTGGGCTCCTCGTGT 59.570 61.111 0.00 0.00 0.00 4.49
2464 2697 1.827969 AGCTCGACAAAGATGGCTACT 59.172 47.619 0.00 0.00 29.70 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 1.302033 CGGCACACTCAAGGAGCTT 60.302 57.895 0.00 0.00 32.04 3.74
54 55 1.337071 CTTGCATGATCCACATCTGGC 59.663 52.381 0.00 0.00 37.49 4.85
69 70 0.527600 AAGATACGCGATCGCTTGCA 60.528 50.000 34.69 18.42 39.80 4.08
253 254 1.168714 GCATTCCGCTTGAGAACCTT 58.831 50.000 0.00 0.00 37.77 3.50
389 391 2.231235 GGGGAACTTGTTATTGCACCAG 59.769 50.000 0.00 0.00 0.00 4.00
453 456 2.159179 AATCCCCAACCACCTAATGC 57.841 50.000 0.00 0.00 0.00 3.56
514 517 2.046892 GGCACACGCTGGATCACT 60.047 61.111 0.00 0.00 38.60 3.41
625 628 6.422333 TGGCTAAAGATCAACAATGATGGTA 58.578 36.000 0.00 0.00 46.30 3.25
702 705 1.424493 CGGACAGCCATCGAAGAAGC 61.424 60.000 0.00 0.00 43.58 3.86
703 706 1.424493 GCGGACAGCCATCGAAGAAG 61.424 60.000 0.00 0.00 39.63 2.85
704 707 1.447838 GCGGACAGCCATCGAAGAA 60.448 57.895 0.00 0.00 39.63 2.52
715 718 0.600255 AGAACAAAGACGGCGGACAG 60.600 55.000 13.24 0.00 0.00 3.51
716 719 0.878523 CAGAACAAAGACGGCGGACA 60.879 55.000 13.24 0.00 0.00 4.02
717 720 0.878961 ACAGAACAAAGACGGCGGAC 60.879 55.000 13.24 4.88 0.00 4.79
718 721 0.179067 AACAGAACAAAGACGGCGGA 60.179 50.000 13.24 0.00 0.00 5.54
719 722 0.661020 AAACAGAACAAAGACGGCGG 59.339 50.000 13.24 0.00 0.00 6.13
720 723 2.468532 AAAACAGAACAAAGACGGCG 57.531 45.000 4.80 4.80 0.00 6.46
737 740 4.023291 ACTCAACAAGCCCTGAAGAAAAA 58.977 39.130 0.00 0.00 0.00 1.94
738 741 3.631250 ACTCAACAAGCCCTGAAGAAAA 58.369 40.909 0.00 0.00 0.00 2.29
739 742 3.297134 ACTCAACAAGCCCTGAAGAAA 57.703 42.857 0.00 0.00 0.00 2.52
740 743 2.951642 CAACTCAACAAGCCCTGAAGAA 59.048 45.455 0.00 0.00 0.00 2.52
741 744 2.092429 ACAACTCAACAAGCCCTGAAGA 60.092 45.455 0.00 0.00 0.00 2.87
742 745 2.033801 CACAACTCAACAAGCCCTGAAG 59.966 50.000 0.00 0.00 0.00 3.02
743 746 2.023673 CACAACTCAACAAGCCCTGAA 58.976 47.619 0.00 0.00 0.00 3.02
744 747 1.064758 ACACAACTCAACAAGCCCTGA 60.065 47.619 0.00 0.00 0.00 3.86
745 748 1.334869 GACACAACTCAACAAGCCCTG 59.665 52.381 0.00 0.00 0.00 4.45
746 749 1.680338 GACACAACTCAACAAGCCCT 58.320 50.000 0.00 0.00 0.00 5.19
747 750 0.307760 CGACACAACTCAACAAGCCC 59.692 55.000 0.00 0.00 0.00 5.19
748 751 1.003866 GACGACACAACTCAACAAGCC 60.004 52.381 0.00 0.00 0.00 4.35
749 752 1.663643 TGACGACACAACTCAACAAGC 59.336 47.619 0.00 0.00 0.00 4.01
750 753 2.285834 GCTGACGACACAACTCAACAAG 60.286 50.000 0.00 0.00 0.00 3.16
751 754 1.663643 GCTGACGACACAACTCAACAA 59.336 47.619 0.00 0.00 0.00 2.83
752 755 1.286501 GCTGACGACACAACTCAACA 58.713 50.000 0.00 0.00 0.00 3.33
753 756 1.258982 CTGCTGACGACACAACTCAAC 59.741 52.381 0.00 0.00 0.00 3.18
754 757 1.136110 TCTGCTGACGACACAACTCAA 59.864 47.619 0.00 0.00 0.00 3.02
755 758 0.744281 TCTGCTGACGACACAACTCA 59.256 50.000 0.00 0.00 0.00 3.41
756 759 1.523095 GTTCTGCTGACGACACAACTC 59.477 52.381 0.00 0.00 0.00 3.01
757 760 1.571919 GTTCTGCTGACGACACAACT 58.428 50.000 0.00 0.00 0.00 3.16
758 761 0.582005 GGTTCTGCTGACGACACAAC 59.418 55.000 0.00 0.00 0.00 3.32
759 762 0.531974 GGGTTCTGCTGACGACACAA 60.532 55.000 0.00 0.00 0.00 3.33
760 763 1.069090 GGGTTCTGCTGACGACACA 59.931 57.895 0.00 0.00 0.00 3.72
761 764 0.667792 GAGGGTTCTGCTGACGACAC 60.668 60.000 0.00 0.00 0.00 3.67
762 765 0.827925 AGAGGGTTCTGCTGACGACA 60.828 55.000 0.00 0.00 30.72 4.35
763 766 0.109039 GAGAGGGTTCTGCTGACGAC 60.109 60.000 0.00 0.00 32.53 4.34
764 767 1.587043 CGAGAGGGTTCTGCTGACGA 61.587 60.000 0.00 0.00 32.53 4.20
765 768 1.153939 CGAGAGGGTTCTGCTGACG 60.154 63.158 0.00 0.00 32.53 4.35
766 769 1.135344 GTACGAGAGGGTTCTGCTGAC 60.135 57.143 0.00 0.00 32.53 3.51
767 770 1.174783 GTACGAGAGGGTTCTGCTGA 58.825 55.000 0.00 0.00 32.53 4.26
768 771 1.178276 AGTACGAGAGGGTTCTGCTG 58.822 55.000 0.00 0.00 32.53 4.41
769 772 2.803030 TAGTACGAGAGGGTTCTGCT 57.197 50.000 0.00 0.00 32.53 4.24
770 773 2.688958 ACATAGTACGAGAGGGTTCTGC 59.311 50.000 0.00 0.00 32.53 4.26
771 774 4.158025 ACAACATAGTACGAGAGGGTTCTG 59.842 45.833 0.00 0.00 32.53 3.02
772 775 4.158025 CACAACATAGTACGAGAGGGTTCT 59.842 45.833 0.00 0.00 36.01 3.01
773 776 4.082354 ACACAACATAGTACGAGAGGGTTC 60.082 45.833 0.00 0.00 0.00 3.62
774 777 3.830755 ACACAACATAGTACGAGAGGGTT 59.169 43.478 0.00 0.00 0.00 4.11
775 778 3.428532 ACACAACATAGTACGAGAGGGT 58.571 45.455 0.00 0.00 0.00 4.34
776 779 5.769484 ATACACAACATAGTACGAGAGGG 57.231 43.478 0.00 0.00 0.00 4.30
777 780 7.700505 TGTAATACACAACATAGTACGAGAGG 58.299 38.462 0.00 0.00 32.95 3.69
778 781 9.731819 AATGTAATACACAACATAGTACGAGAG 57.268 33.333 0.00 0.00 41.55 3.20
781 784 8.597227 GCAAATGTAATACACAACATAGTACGA 58.403 33.333 0.00 0.00 41.55 3.43
782 785 7.577668 CGCAAATGTAATACACAACATAGTACG 59.422 37.037 0.00 0.00 41.55 3.67
783 786 8.385111 ACGCAAATGTAATACACAACATAGTAC 58.615 33.333 0.00 0.00 41.55 2.73
784 787 8.481974 ACGCAAATGTAATACACAACATAGTA 57.518 30.769 0.00 0.00 41.55 1.82
785 788 7.372451 ACGCAAATGTAATACACAACATAGT 57.628 32.000 0.00 0.00 41.55 2.12
786 789 9.368921 CATACGCAAATGTAATACACAACATAG 57.631 33.333 0.00 0.00 41.55 2.23
787 790 8.884726 ACATACGCAAATGTAATACACAACATA 58.115 29.630 0.00 0.00 41.55 2.29
788 791 7.696035 CACATACGCAAATGTAATACACAACAT 59.304 33.333 0.00 0.00 41.55 2.71
789 792 7.018235 CACATACGCAAATGTAATACACAACA 58.982 34.615 0.00 0.00 41.55 3.33
790 793 6.021782 GCACATACGCAAATGTAATACACAAC 60.022 38.462 0.00 0.00 41.55 3.32
791 794 6.024664 GCACATACGCAAATGTAATACACAA 58.975 36.000 0.00 0.00 41.55 3.33
792 795 5.564768 GCACATACGCAAATGTAATACACA 58.435 37.500 0.00 0.00 38.01 3.72
793 796 4.664410 CGCACATACGCAAATGTAATACAC 59.336 41.667 0.00 0.00 38.01 2.90
794 797 4.567159 TCGCACATACGCAAATGTAATACA 59.433 37.500 0.00 0.00 38.01 2.29
795 798 5.073192 TCGCACATACGCAAATGTAATAC 57.927 39.130 0.91 0.00 38.01 1.89
796 799 5.235401 ACATCGCACATACGCAAATGTAATA 59.765 36.000 0.91 0.00 38.01 0.98
797 800 4.035091 ACATCGCACATACGCAAATGTAAT 59.965 37.500 0.91 0.00 38.01 1.89
798 801 3.372514 ACATCGCACATACGCAAATGTAA 59.627 39.130 0.91 0.00 38.01 2.41
799 802 2.933260 ACATCGCACATACGCAAATGTA 59.067 40.909 0.91 0.00 38.01 2.29
800 803 1.737236 ACATCGCACATACGCAAATGT 59.263 42.857 0.00 0.00 40.75 2.71
801 804 2.103388 CACATCGCACATACGCAAATG 58.897 47.619 0.00 0.00 33.26 2.32
802 805 2.006169 TCACATCGCACATACGCAAAT 58.994 42.857 0.00 0.00 0.00 2.32
803 806 1.433534 TCACATCGCACATACGCAAA 58.566 45.000 0.00 0.00 0.00 3.68
804 807 1.433534 TTCACATCGCACATACGCAA 58.566 45.000 0.00 0.00 0.00 4.85
805 808 1.650825 ATTCACATCGCACATACGCA 58.349 45.000 0.00 0.00 0.00 5.24
806 809 2.737467 AATTCACATCGCACATACGC 57.263 45.000 0.00 0.00 0.00 4.42
807 810 4.851014 ACAAAAATTCACATCGCACATACG 59.149 37.500 0.00 0.00 0.00 3.06
808 811 7.021196 ACTACAAAAATTCACATCGCACATAC 58.979 34.615 0.00 0.00 0.00 2.39
809 812 7.139896 ACTACAAAAATTCACATCGCACATA 57.860 32.000 0.00 0.00 0.00 2.29
810 813 6.012658 ACTACAAAAATTCACATCGCACAT 57.987 33.333 0.00 0.00 0.00 3.21
811 814 5.431420 ACTACAAAAATTCACATCGCACA 57.569 34.783 0.00 0.00 0.00 4.57
812 815 5.793457 GGTACTACAAAAATTCACATCGCAC 59.207 40.000 0.00 0.00 0.00 5.34
813 816 5.470437 TGGTACTACAAAAATTCACATCGCA 59.530 36.000 0.00 0.00 0.00 5.10
814 817 5.933790 TGGTACTACAAAAATTCACATCGC 58.066 37.500 0.00 0.00 0.00 4.58
815 818 7.481483 CACATGGTACTACAAAAATTCACATCG 59.519 37.037 0.00 0.00 0.00 3.84
816 819 8.511321 TCACATGGTACTACAAAAATTCACATC 58.489 33.333 0.00 0.00 0.00 3.06
817 820 8.402798 TCACATGGTACTACAAAAATTCACAT 57.597 30.769 0.00 0.00 0.00 3.21
818 821 7.809546 TCACATGGTACTACAAAAATTCACA 57.190 32.000 0.00 0.00 0.00 3.58
819 822 9.341899 GATTCACATGGTACTACAAAAATTCAC 57.658 33.333 0.00 0.00 0.00 3.18
820 823 9.295825 AGATTCACATGGTACTACAAAAATTCA 57.704 29.630 0.00 0.00 0.00 2.57
821 824 9.559958 CAGATTCACATGGTACTACAAAAATTC 57.440 33.333 0.00 0.00 0.00 2.17
822 825 8.522830 CCAGATTCACATGGTACTACAAAAATT 58.477 33.333 0.00 0.00 0.00 1.82
823 826 8.055279 CCAGATTCACATGGTACTACAAAAAT 57.945 34.615 0.00 0.00 0.00 1.82
824 827 7.447374 CCAGATTCACATGGTACTACAAAAA 57.553 36.000 0.00 0.00 0.00 1.94
835 838 2.353011 GCAAACCACCAGATTCACATGG 60.353 50.000 0.00 0.00 42.60 3.66
836 839 2.559668 AGCAAACCACCAGATTCACATG 59.440 45.455 0.00 0.00 0.00 3.21
837 840 2.880443 AGCAAACCACCAGATTCACAT 58.120 42.857 0.00 0.00 0.00 3.21
838 841 2.361757 CAAGCAAACCACCAGATTCACA 59.638 45.455 0.00 0.00 0.00 3.58
839 842 2.622942 TCAAGCAAACCACCAGATTCAC 59.377 45.455 0.00 0.00 0.00 3.18
840 843 2.942804 TCAAGCAAACCACCAGATTCA 58.057 42.857 0.00 0.00 0.00 2.57
841 844 3.256631 ACATCAAGCAAACCACCAGATTC 59.743 43.478 0.00 0.00 0.00 2.52
842 845 3.233507 ACATCAAGCAAACCACCAGATT 58.766 40.909 0.00 0.00 0.00 2.40
843 846 2.880443 ACATCAAGCAAACCACCAGAT 58.120 42.857 0.00 0.00 0.00 2.90
844 847 2.363306 ACATCAAGCAAACCACCAGA 57.637 45.000 0.00 0.00 0.00 3.86
845 848 5.895636 TTATACATCAAGCAAACCACCAG 57.104 39.130 0.00 0.00 0.00 4.00
846 849 5.336372 GCTTTATACATCAAGCAAACCACCA 60.336 40.000 3.77 0.00 44.18 4.17
847 850 5.102313 GCTTTATACATCAAGCAAACCACC 58.898 41.667 3.77 0.00 44.18 4.61
848 851 5.954335 AGCTTTATACATCAAGCAAACCAC 58.046 37.500 10.00 0.00 46.70 4.16
849 852 6.318648 CCTAGCTTTATACATCAAGCAAACCA 59.681 38.462 10.00 0.00 46.70 3.67
850 853 6.729187 CCTAGCTTTATACATCAAGCAAACC 58.271 40.000 10.00 0.00 46.70 3.27
851 854 6.202226 GCCTAGCTTTATACATCAAGCAAAC 58.798 40.000 10.00 0.00 46.70 2.93
852 855 5.007626 CGCCTAGCTTTATACATCAAGCAAA 59.992 40.000 10.00 0.00 46.70 3.68
853 856 4.511454 CGCCTAGCTTTATACATCAAGCAA 59.489 41.667 10.00 0.00 46.70 3.91
854 857 4.058124 CGCCTAGCTTTATACATCAAGCA 58.942 43.478 10.00 0.00 46.70 3.91
855 858 4.307432 TCGCCTAGCTTTATACATCAAGC 58.693 43.478 0.00 0.76 44.96 4.01
856 859 6.564873 GCTTTCGCCTAGCTTTATACATCAAG 60.565 42.308 0.00 0.00 35.74 3.02
857 860 5.236478 GCTTTCGCCTAGCTTTATACATCAA 59.764 40.000 0.00 0.00 35.74 2.57
858 861 4.750098 GCTTTCGCCTAGCTTTATACATCA 59.250 41.667 0.00 0.00 35.74 3.07
859 862 5.270812 GCTTTCGCCTAGCTTTATACATC 57.729 43.478 0.00 0.00 35.74 3.06
874 877 5.463499 TTTCTTTTCAAAAAGGCTTTCGC 57.537 34.783 13.76 0.00 44.22 4.70
910 914 2.105960 GAGCTTGTGTGTGTCGCCAC 62.106 60.000 0.00 0.00 42.19 5.01
911 915 1.887242 GAGCTTGTGTGTGTCGCCA 60.887 57.895 0.00 0.00 0.00 5.69
1017 1027 0.542938 ATAGGCTGCTCGATGGGCTA 60.543 55.000 14.46 14.46 41.15 3.93
1023 1033 3.476386 CCCCATAGGCTGCTCGAT 58.524 61.111 0.00 0.00 0.00 3.59
1096 1118 1.741770 GCACGACCATGGAGACCAC 60.742 63.158 21.47 0.00 35.80 4.16
1215 1237 4.899239 GCCTCCCGTCGCATCAGG 62.899 72.222 0.00 0.00 0.00 3.86
1284 1306 4.893601 TGGCACGCGGTCACGAAA 62.894 61.111 12.47 0.00 44.60 3.46
1439 1462 5.012239 TGATACTACTAACCTTGACACGGT 58.988 41.667 0.00 0.00 35.97 4.83
1697 1773 4.295905 TCAGGTGAAGGGGTATAGGATT 57.704 45.455 0.00 0.00 0.00 3.01
1698 1774 4.295905 TTCAGGTGAAGGGGTATAGGAT 57.704 45.455 0.00 0.00 0.00 3.24
1701 1777 5.437191 AGTTTTCAGGTGAAGGGGTATAG 57.563 43.478 0.00 0.00 35.21 1.31
1732 1809 1.010793 AGGGGGAATGACCATCCTACA 59.989 52.381 0.00 0.00 40.33 2.74
1808 1892 1.981256 AAAACACCGTCTGAAGCCAT 58.019 45.000 0.00 0.00 0.00 4.40
1833 1917 3.740397 CGTACGTCGCCCCAGTGA 61.740 66.667 7.22 0.00 0.00 3.41
1924 2010 0.598158 GTTTGACCACCGACGCACTA 60.598 55.000 0.00 0.00 0.00 2.74
1927 2013 2.962786 CGTTTGACCACCGACGCA 60.963 61.111 0.00 0.00 0.00 5.24
1934 2020 2.527867 AACCGTCGCGTTTGACCAC 61.528 57.895 5.77 0.00 35.40 4.16
1942 2028 2.025418 GATTGACCAACCGTCGCGT 61.025 57.895 5.77 0.00 45.23 6.01
2071 2199 3.717294 GGTGGGGTGGCAGTCGAT 61.717 66.667 0.00 0.00 0.00 3.59
2260 2491 1.257750 TGGGAGGTGGACGTGATGAG 61.258 60.000 0.00 0.00 0.00 2.90
2268 2499 1.606601 GGGCTTTTGGGAGGTGGAC 60.607 63.158 0.00 0.00 0.00 4.02
2369 2600 3.991051 CCTCTGTCACCGGCGTGT 61.991 66.667 6.01 0.00 41.09 4.49
2378 2609 1.342076 ACCGGAATAGCTCCTCTGTCA 60.342 52.381 9.46 0.00 42.85 3.58
2391 2622 1.303282 GAGGAGCCCAAACCGGAAT 59.697 57.895 9.46 0.00 36.56 3.01
2393 2624 3.702048 CGAGGAGCCCAAACCGGA 61.702 66.667 9.46 0.00 36.56 5.14
2527 2760 1.134560 GTCCTAGAACTCGTGCCGATT 59.865 52.381 0.00 0.00 34.61 3.34
2598 2831 2.579657 ATTGAGGTCGGGCGTGACA 61.580 57.895 10.15 0.00 40.72 3.58


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

AutoCloner maintained by Alex Coulton.