Multiple sequence alignment - TraesCS3B01G466200

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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 TraesCS3B01G466200 chr3B 100.000 3251 0 0 1 3251 708795705 708798955 0.000000e+00 6004.0
1 TraesCS3B01G466200 chr3B 83.145 884 123 16 1468 2337 740040124 740040995 0.000000e+00 784.0
2 TraesCS3B01G466200 chr3B 82.468 713 107 13 1599 2309 740101321 740102017 2.770000e-170 608.0
3 TraesCS3B01G466200 chr3B 81.740 701 109 11 1610 2309 740052054 740052736 4.710000e-158 568.0
4 TraesCS3B01G466200 chr3B 90.977 399 18 5 935 1315 708514039 708513641 3.720000e-144 521.0
5 TraesCS3B01G466200 chr3B 86.398 397 49 5 1016 1411 740503029 740503421 2.320000e-116 429.0
6 TraesCS3B01G466200 chr3B 88.136 354 36 4 996 1348 740514516 740514864 1.800000e-112 416.0
7 TraesCS3B01G466200 chr3B 76.786 784 147 25 1604 2375 740541341 740542101 1.090000e-109 407.0
8 TraesCS3B01G466200 chr3B 80.237 506 61 21 2696 3168 740053951 740054450 8.640000e-91 344.0
9 TraesCS3B01G466200 chr3B 76.389 144 34 0 1330 1473 740039947 740040090 9.670000e-11 78.7
10 TraesCS3B01G466200 chr3A 92.163 906 59 6 1468 2363 671760448 671761351 0.000000e+00 1269.0
11 TraesCS3B01G466200 chr3A 86.866 868 56 21 2413 3251 671761750 671762588 0.000000e+00 918.0
12 TraesCS3B01G466200 chr3A 90.657 578 27 8 917 1473 671759849 671760420 0.000000e+00 743.0
13 TraesCS3B01G466200 chr3A 84.417 738 109 4 1551 2288 693484644 693485375 0.000000e+00 721.0
14 TraesCS3B01G466200 chr3A 82.048 713 109 12 1599 2309 693581535 693582230 1.000000e-164 590.0
15 TraesCS3B01G466200 chr3A 80.914 744 123 11 1603 2337 693558634 693557901 1.310000e-158 569.0
16 TraesCS3B01G466200 chr3A 87.915 331 35 4 1039 1368 693484068 693484394 5.090000e-103 385.0
17 TraesCS3B01G466200 chr3A 86.158 354 37 8 996 1348 693647026 693647368 3.960000e-99 372.0
18 TraesCS3B01G466200 chr3A 76.590 393 59 22 2874 3239 693649767 693650153 5.540000e-43 185.0
19 TraesCS3B01G466200 chr3A 82.353 238 17 12 2693 2909 693583692 693583925 1.990000e-42 183.0
20 TraesCS3B01G466200 chr2B 95.739 704 28 2 1 703 769029075 769029777 0.000000e+00 1133.0
21 TraesCS3B01G466200 chr2B 94.840 717 35 2 1 717 676188826 676189540 0.000000e+00 1118.0
22 TraesCS3B01G466200 chr5B 94.922 709 32 2 1 709 541102586 541101882 0.000000e+00 1107.0
23 TraesCS3B01G466200 chr5B 94.515 711 36 2 1 711 567614990 567615697 0.000000e+00 1094.0
24 TraesCS3B01G466200 chr5B 94.186 688 37 3 1 688 134559294 134559978 0.000000e+00 1046.0
25 TraesCS3B01G466200 chr2A 93.638 723 43 3 1 721 560676709 560677430 0.000000e+00 1077.0
26 TraesCS3B01G466200 chr2A 93.352 707 44 3 1 706 459001303 459002007 0.000000e+00 1042.0
27 TraesCS3B01G466200 chr6A 93.512 709 43 3 1 708 54974846 54975552 0.000000e+00 1051.0
28 TraesCS3B01G466200 chr6A 92.978 712 47 3 1 710 22757006 22757716 0.000000e+00 1035.0
29 TraesCS3B01G466200 chr3D 93.042 503 29 2 977 1473 536334939 536335441 0.000000e+00 730.0
30 TraesCS3B01G466200 chr3D 79.478 882 155 18 1470 2337 557764492 557763623 1.290000e-168 603.0
31 TraesCS3B01G466200 chr3D 80.808 792 124 16 1520 2309 557795436 557796201 2.160000e-166 595.0
32 TraesCS3B01G466200 chr3D 95.044 343 17 0 1468 1810 536335469 536335811 1.030000e-149 540.0
33 TraesCS3B01G466200 chr3D 86.935 398 41 9 1015 1411 557879051 557879438 1.380000e-118 436.0
34 TraesCS3B01G466200 chr3D 77.822 762 131 23 1618 2365 557921630 557922367 1.380000e-118 436.0
35 TraesCS3B01G466200 chr3D 88.218 348 31 7 1027 1370 557721128 557721469 1.090000e-109 407.0
36 TraesCS3B01G466200 chr3D 86.761 355 34 9 996 1348 557914223 557914566 1.830000e-102 383.0
37 TraesCS3B01G466200 chr3D 79.494 395 49 19 2754 3126 557797363 557797747 5.380000e-63 252.0
38 TraesCS3B01G466200 chr3D 76.081 393 61 22 2874 3239 557916697 557917083 1.200000e-39 174.0
39 TraesCS3B01G466200 chr3D 93.636 110 7 0 2387 2496 536236773 536236882 7.220000e-37 165.0
40 TraesCS3B01G466200 chr3D 76.389 144 34 0 1330 1473 557721471 557721614 9.670000e-11 78.7
41 TraesCS3B01G466200 chrUn 79.203 577 96 12 1799 2365 295851800 295852362 2.370000e-101 379.0


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 TraesCS3B01G466200 chr3B 708795705 708798955 3250 False 6004.000000 6004 100.000000 1 3251 1 chr3B.!!$F1 3250
1 TraesCS3B01G466200 chr3B 740101321 740102017 696 False 608.000000 608 82.468000 1599 2309 1 chr3B.!!$F2 710
2 TraesCS3B01G466200 chr3B 740052054 740054450 2396 False 456.000000 568 80.988500 1610 3168 2 chr3B.!!$F7 1558
3 TraesCS3B01G466200 chr3B 740039947 740040995 1048 False 431.350000 784 79.767000 1330 2337 2 chr3B.!!$F6 1007
4 TraesCS3B01G466200 chr3B 740541341 740542101 760 False 407.000000 407 76.786000 1604 2375 1 chr3B.!!$F5 771
5 TraesCS3B01G466200 chr3A 671759849 671762588 2739 False 976.666667 1269 89.895333 917 3251 3 chr3A.!!$F1 2334
6 TraesCS3B01G466200 chr3A 693557901 693558634 733 True 569.000000 569 80.914000 1603 2337 1 chr3A.!!$R1 734
7 TraesCS3B01G466200 chr3A 693484068 693485375 1307 False 553.000000 721 86.166000 1039 2288 2 chr3A.!!$F2 1249
8 TraesCS3B01G466200 chr3A 693581535 693583925 2390 False 386.500000 590 82.200500 1599 2909 2 chr3A.!!$F3 1310
9 TraesCS3B01G466200 chr3A 693647026 693650153 3127 False 278.500000 372 81.374000 996 3239 2 chr3A.!!$F4 2243
10 TraesCS3B01G466200 chr2B 769029075 769029777 702 False 1133.000000 1133 95.739000 1 703 1 chr2B.!!$F2 702
11 TraesCS3B01G466200 chr2B 676188826 676189540 714 False 1118.000000 1118 94.840000 1 717 1 chr2B.!!$F1 716
12 TraesCS3B01G466200 chr5B 541101882 541102586 704 True 1107.000000 1107 94.922000 1 709 1 chr5B.!!$R1 708
13 TraesCS3B01G466200 chr5B 567614990 567615697 707 False 1094.000000 1094 94.515000 1 711 1 chr5B.!!$F2 710
14 TraesCS3B01G466200 chr5B 134559294 134559978 684 False 1046.000000 1046 94.186000 1 688 1 chr5B.!!$F1 687
15 TraesCS3B01G466200 chr2A 560676709 560677430 721 False 1077.000000 1077 93.638000 1 721 1 chr2A.!!$F2 720
16 TraesCS3B01G466200 chr2A 459001303 459002007 704 False 1042.000000 1042 93.352000 1 706 1 chr2A.!!$F1 705
17 TraesCS3B01G466200 chr6A 54974846 54975552 706 False 1051.000000 1051 93.512000 1 708 1 chr6A.!!$F2 707
18 TraesCS3B01G466200 chr6A 22757006 22757716 710 False 1035.000000 1035 92.978000 1 710 1 chr6A.!!$F1 709
19 TraesCS3B01G466200 chr3D 536334939 536335811 872 False 635.000000 730 94.043000 977 1810 2 chr3D.!!$F4 833
20 TraesCS3B01G466200 chr3D 557763623 557764492 869 True 603.000000 603 79.478000 1470 2337 1 chr3D.!!$R1 867
21 TraesCS3B01G466200 chr3D 557921630 557922367 737 False 436.000000 436 77.822000 1618 2365 1 chr3D.!!$F3 747
22 TraesCS3B01G466200 chr3D 557795436 557797747 2311 False 423.500000 595 80.151000 1520 3126 2 chr3D.!!$F6 1606
23 TraesCS3B01G466200 chr3D 557914223 557917083 2860 False 278.500000 383 81.421000 996 3239 2 chr3D.!!$F7 2243
24 TraesCS3B01G466200 chrUn 295851800 295852362 562 False 379.000000 379 79.203000 1799 2365 1 chrUn.!!$F1 566

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
838 846 0.034089 GCTTGATGGGCCCTAGTTGT 60.034 55.0 25.7 1.33 0.0 3.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2462 4059 0.605319 TTGACAAGGCTAGGCAACCG 60.605 55.0 19.7 5.93 37.17 4.44 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
558 566 2.431942 AACTAACGTGCGGGCGAG 60.432 61.111 0.00 0.00 35.59 5.03
572 580 0.108615 GGCGAGCTATGTCACACACT 60.109 55.000 0.00 0.00 0.00 3.55
682 690 2.755876 TCGAGATGGTCAGCGCCT 60.756 61.111 2.29 0.00 0.00 5.52
788 796 9.706691 TTTATTTTGAGTGTAGTAGGAGAGTTG 57.293 33.333 0.00 0.00 0.00 3.16
789 797 6.971726 TTTTGAGTGTAGTAGGAGAGTTGA 57.028 37.500 0.00 0.00 0.00 3.18
790 798 6.971726 TTTGAGTGTAGTAGGAGAGTTGAA 57.028 37.500 0.00 0.00 0.00 2.69
791 799 7.540474 TTTGAGTGTAGTAGGAGAGTTGAAT 57.460 36.000 0.00 0.00 0.00 2.57
792 800 6.516739 TGAGTGTAGTAGGAGAGTTGAATG 57.483 41.667 0.00 0.00 0.00 2.67
793 801 5.419155 TGAGTGTAGTAGGAGAGTTGAATGG 59.581 44.000 0.00 0.00 0.00 3.16
794 802 4.712337 AGTGTAGTAGGAGAGTTGAATGGG 59.288 45.833 0.00 0.00 0.00 4.00
795 803 3.451178 TGTAGTAGGAGAGTTGAATGGGC 59.549 47.826 0.00 0.00 0.00 5.36
796 804 2.839228 AGTAGGAGAGTTGAATGGGCT 58.161 47.619 0.00 0.00 0.00 5.19
797 805 2.503356 AGTAGGAGAGTTGAATGGGCTG 59.497 50.000 0.00 0.00 0.00 4.85
798 806 1.661463 AGGAGAGTTGAATGGGCTGA 58.339 50.000 0.00 0.00 0.00 4.26
799 807 1.280421 AGGAGAGTTGAATGGGCTGAC 59.720 52.381 0.00 0.00 0.00 3.51
800 808 1.680249 GGAGAGTTGAATGGGCTGACC 60.680 57.143 0.00 0.00 40.81 4.02
817 825 1.405872 ACCCGCTCGGTCATATTACA 58.594 50.000 7.59 0.00 43.58 2.41
818 826 1.340248 ACCCGCTCGGTCATATTACAG 59.660 52.381 7.59 0.00 43.58 2.74
819 827 1.336887 CCCGCTCGGTCATATTACAGG 60.337 57.143 7.59 0.00 0.00 4.00
820 828 1.419374 CGCTCGGTCATATTACAGGC 58.581 55.000 0.00 0.00 0.00 4.85
821 829 1.000163 CGCTCGGTCATATTACAGGCT 60.000 52.381 0.00 0.00 0.00 4.58
822 830 2.545952 CGCTCGGTCATATTACAGGCTT 60.546 50.000 0.00 0.00 0.00 4.35
823 831 2.802816 GCTCGGTCATATTACAGGCTTG 59.197 50.000 0.00 0.00 0.00 4.01
824 832 3.492656 GCTCGGTCATATTACAGGCTTGA 60.493 47.826 1.40 0.00 0.00 3.02
825 833 4.800914 GCTCGGTCATATTACAGGCTTGAT 60.801 45.833 1.40 0.00 0.00 2.57
826 834 4.631131 TCGGTCATATTACAGGCTTGATG 58.369 43.478 1.40 0.00 0.00 3.07
827 835 3.748048 CGGTCATATTACAGGCTTGATGG 59.252 47.826 1.40 0.00 0.00 3.51
828 836 4.074970 GGTCATATTACAGGCTTGATGGG 58.925 47.826 1.40 0.00 0.00 4.00
829 837 3.503748 GTCATATTACAGGCTTGATGGGC 59.496 47.826 1.40 0.00 0.00 5.36
835 843 3.335711 GGCTTGATGGGCCCTAGT 58.664 61.111 25.70 9.23 43.49 2.57
836 844 1.615262 GGCTTGATGGGCCCTAGTT 59.385 57.895 25.70 4.90 43.49 2.24
837 845 0.753111 GGCTTGATGGGCCCTAGTTG 60.753 60.000 25.70 11.68 43.49 3.16
838 846 0.034089 GCTTGATGGGCCCTAGTTGT 60.034 55.000 25.70 1.33 0.00 3.32
839 847 1.616994 GCTTGATGGGCCCTAGTTGTT 60.617 52.381 25.70 0.00 0.00 2.83
840 848 2.356741 GCTTGATGGGCCCTAGTTGTTA 60.357 50.000 25.70 0.00 0.00 2.41
841 849 3.545703 CTTGATGGGCCCTAGTTGTTAG 58.454 50.000 25.70 5.67 0.00 2.34
842 850 2.557869 TGATGGGCCCTAGTTGTTAGT 58.442 47.619 25.70 0.00 0.00 2.24
843 851 2.504175 TGATGGGCCCTAGTTGTTAGTC 59.496 50.000 25.70 5.93 0.00 2.59
844 852 1.282382 TGGGCCCTAGTTGTTAGTCC 58.718 55.000 25.70 0.00 0.00 3.85
845 853 0.177373 GGGCCCTAGTTGTTAGTCCG 59.823 60.000 17.04 0.00 0.00 4.79
846 854 0.177373 GGCCCTAGTTGTTAGTCCGG 59.823 60.000 0.00 0.00 0.00 5.14
847 855 0.177373 GCCCTAGTTGTTAGTCCGGG 59.823 60.000 0.00 0.00 0.00 5.73
848 856 0.177373 CCCTAGTTGTTAGTCCGGGC 59.823 60.000 0.00 0.00 0.00 6.13
849 857 1.192428 CCTAGTTGTTAGTCCGGGCT 58.808 55.000 15.76 15.76 0.00 5.19
850 858 1.134788 CCTAGTTGTTAGTCCGGGCTG 60.135 57.143 21.58 0.00 0.00 4.85
851 859 0.899720 TAGTTGTTAGTCCGGGCTGG 59.100 55.000 21.58 5.83 40.09 4.85
860 868 2.516448 TCCGGGCTGGAGTTAGATG 58.484 57.895 12.08 0.00 43.74 2.90
861 869 1.048724 TCCGGGCTGGAGTTAGATGG 61.049 60.000 12.08 0.00 43.74 3.51
862 870 1.447643 CGGGCTGGAGTTAGATGGG 59.552 63.158 0.00 0.00 0.00 4.00
863 871 1.149401 GGGCTGGAGTTAGATGGGC 59.851 63.158 0.00 0.00 0.00 5.36
864 872 1.149401 GGCTGGAGTTAGATGGGCC 59.851 63.158 0.00 0.00 0.00 5.80
865 873 1.348775 GGCTGGAGTTAGATGGGCCT 61.349 60.000 4.53 0.00 35.73 5.19
866 874 0.548510 GCTGGAGTTAGATGGGCCTT 59.451 55.000 4.53 0.00 0.00 4.35
867 875 1.748591 GCTGGAGTTAGATGGGCCTTG 60.749 57.143 4.53 0.00 0.00 3.61
868 876 0.918983 TGGAGTTAGATGGGCCTTGG 59.081 55.000 4.53 0.00 0.00 3.61
869 877 0.919710 GGAGTTAGATGGGCCTTGGT 59.080 55.000 4.53 0.00 0.00 3.67
870 878 1.285078 GGAGTTAGATGGGCCTTGGTT 59.715 52.381 4.53 0.00 0.00 3.67
871 879 2.508300 GGAGTTAGATGGGCCTTGGTTA 59.492 50.000 4.53 0.00 0.00 2.85
872 880 3.138468 GGAGTTAGATGGGCCTTGGTTAT 59.862 47.826 4.53 0.00 0.00 1.89
873 881 4.390264 GAGTTAGATGGGCCTTGGTTATC 58.610 47.826 4.53 0.00 0.00 1.75
874 882 3.785887 AGTTAGATGGGCCTTGGTTATCA 59.214 43.478 4.53 0.00 0.00 2.15
875 883 4.137543 GTTAGATGGGCCTTGGTTATCAG 58.862 47.826 4.53 0.00 0.00 2.90
876 884 1.496429 AGATGGGCCTTGGTTATCAGG 59.504 52.381 4.53 0.00 0.00 3.86
877 885 0.106015 ATGGGCCTTGGTTATCAGGC 60.106 55.000 4.53 1.27 45.99 4.85
880 888 3.520623 GCCTTGGTTATCAGGCCAT 57.479 52.632 5.01 0.00 41.28 4.40
881 889 1.035139 GCCTTGGTTATCAGGCCATG 58.965 55.000 5.01 0.00 41.28 3.66
882 890 1.696063 CCTTGGTTATCAGGCCATGG 58.304 55.000 7.63 7.63 41.58 3.66
883 891 1.035139 CTTGGTTATCAGGCCATGGC 58.965 55.000 29.47 29.47 41.06 4.40
893 901 2.360191 GCCATGGCCAGGAAAGGA 59.640 61.111 27.24 0.00 34.56 3.36
894 902 1.305213 GCCATGGCCAGGAAAGGAA 60.305 57.895 27.24 0.00 34.56 3.36
895 903 0.688749 GCCATGGCCAGGAAAGGAAT 60.689 55.000 27.24 0.00 34.56 3.01
896 904 1.117150 CCATGGCCAGGAAAGGAATG 58.883 55.000 21.32 4.37 0.00 2.67
897 905 0.462789 CATGGCCAGGAAAGGAATGC 59.537 55.000 13.35 0.00 0.00 3.56
898 906 0.041535 ATGGCCAGGAAAGGAATGCA 59.958 50.000 13.05 0.00 0.00 3.96
899 907 0.041535 TGGCCAGGAAAGGAATGCAT 59.958 50.000 0.00 0.00 0.00 3.96
900 908 0.749049 GGCCAGGAAAGGAATGCATC 59.251 55.000 0.00 0.00 0.00 3.91
901 909 0.383231 GCCAGGAAAGGAATGCATCG 59.617 55.000 0.00 0.00 0.00 3.84
902 910 1.027357 CCAGGAAAGGAATGCATCGG 58.973 55.000 0.00 0.00 0.00 4.18
903 911 0.383231 CAGGAAAGGAATGCATCGGC 59.617 55.000 0.00 0.00 41.68 5.54
904 912 0.257039 AGGAAAGGAATGCATCGGCT 59.743 50.000 0.00 0.00 41.91 5.52
905 913 0.665298 GGAAAGGAATGCATCGGCTC 59.335 55.000 0.00 0.00 41.91 4.70
906 914 1.673168 GAAAGGAATGCATCGGCTCT 58.327 50.000 0.00 0.00 41.91 4.09
907 915 2.019984 GAAAGGAATGCATCGGCTCTT 58.980 47.619 0.00 0.00 41.91 2.85
908 916 2.134789 AAGGAATGCATCGGCTCTTT 57.865 45.000 0.00 0.00 41.91 2.52
909 917 2.134789 AGGAATGCATCGGCTCTTTT 57.865 45.000 0.00 0.00 41.91 2.27
910 918 2.450476 AGGAATGCATCGGCTCTTTTT 58.550 42.857 0.00 0.00 41.91 1.94
911 919 2.165030 AGGAATGCATCGGCTCTTTTTG 59.835 45.455 0.00 0.00 41.91 2.44
912 920 2.094545 GGAATGCATCGGCTCTTTTTGT 60.095 45.455 0.00 0.00 41.91 2.83
913 921 2.927553 ATGCATCGGCTCTTTTTGTC 57.072 45.000 0.00 0.00 41.91 3.18
914 922 1.896220 TGCATCGGCTCTTTTTGTCT 58.104 45.000 0.00 0.00 41.91 3.41
915 923 1.536766 TGCATCGGCTCTTTTTGTCTG 59.463 47.619 0.00 0.00 41.91 3.51
948 958 1.745141 GCATCGGCTCTTCACTCCATT 60.745 52.381 0.00 0.00 36.96 3.16
971 989 0.178973 TCGCCTCGATCCCCATTCTA 60.179 55.000 0.00 0.00 0.00 2.10
981 999 1.493022 TCCCCATTCTACCCAAATCCG 59.507 52.381 0.00 0.00 0.00 4.18
990 1016 0.610785 ACCCAAATCCGCGGAAACAT 60.611 50.000 34.66 13.56 0.00 2.71
1016 1042 0.827368 AGAATGGAAGGAGAGACGCC 59.173 55.000 0.00 0.00 0.00 5.68
1253 1282 0.464013 CTCCTCGGCTTCTACCTCGA 60.464 60.000 0.00 0.00 0.00 4.04
1382 1454 3.490759 CGCACAGACCGACATGGC 61.491 66.667 0.00 0.00 43.94 4.40
1413 1485 4.008933 GGCAGCGTCCTCACCAGT 62.009 66.667 0.00 0.00 0.00 4.00
1425 1497 2.143122 CTCACCAGTTTGCACGTGTAT 58.857 47.619 18.38 0.00 0.00 2.29
1454 1544 0.580104 CACCGCCGATCCGAAATTAC 59.420 55.000 0.00 0.00 0.00 1.89
1460 1550 3.242608 CGCCGATCCGAAATTACATTTGT 60.243 43.478 0.00 0.00 31.47 2.83
1490 1620 3.088532 TCCCAGCATTACACCACAAATC 58.911 45.455 0.00 0.00 0.00 2.17
1544 1674 2.293399 TCTTTTCCAAAGAAGAAGGCGC 59.707 45.455 0.00 0.00 32.35 6.53
1608 1753 5.391523 GCTTCAAACATATTCTACGGTGCAA 60.392 40.000 0.00 0.00 0.00 4.08
1633 1778 7.483307 AGTATATGTGTTGCAAAATGGTGATC 58.517 34.615 0.00 0.00 0.00 2.92
1672 1817 1.888436 TACCTTGGCCTCAGCAGACG 61.888 60.000 3.32 0.00 42.56 4.18
1917 2065 1.884579 CACATATGGCTCCTCAATGGC 59.115 52.381 7.80 0.00 35.26 4.40
2022 2170 3.434596 GGATAAACCATGTGGGGGACTAC 60.435 52.174 3.77 0.00 42.91 2.73
2047 2195 7.667219 ACAATGAGTTTGTATTCTTGGAGATGT 59.333 33.333 0.00 0.00 46.75 3.06
2172 2320 1.381735 CTGGCCTCCCATTTTCCCC 60.382 63.158 3.32 0.00 41.21 4.81
2178 2326 3.068064 CCCATTTTCCCCGCGCTT 61.068 61.111 5.56 0.00 0.00 4.68
2223 2372 3.573967 TCTTCTGCCCTTTTGGTGATTTC 59.426 43.478 0.00 0.00 38.10 2.17
2292 2445 4.551388 CATCTCTCCGTTTGGTATAGCTC 58.449 47.826 3.20 0.00 36.30 4.09
2312 2590 2.443632 TCTGGGGTGGTTTTACATGTGA 59.556 45.455 9.11 0.00 0.00 3.58
2313 2591 3.075283 TCTGGGGTGGTTTTACATGTGAT 59.925 43.478 9.11 0.00 0.00 3.06
2314 2592 3.426615 TGGGGTGGTTTTACATGTGATC 58.573 45.455 9.11 0.00 0.00 2.92
2316 2594 3.443681 GGGGTGGTTTTACATGTGATCTG 59.556 47.826 9.11 0.00 0.00 2.90
2368 2734 5.837437 ACATTTGTGAATTCTTGCCGTAAA 58.163 33.333 7.05 0.00 0.00 2.01
2370 2736 6.758886 ACATTTGTGAATTCTTGCCGTAAAAA 59.241 30.769 7.05 0.00 0.00 1.94
2414 2780 9.600432 AAGAGGATTAATAGCTGAGAGATTACT 57.400 33.333 0.00 0.00 0.00 2.24
2428 4025 9.442047 CTGAGAGATTACTGACCTACAAAAATT 57.558 33.333 0.00 0.00 0.00 1.82
2465 4062 8.857098 TGTATAAGAGAATTAATAGCTGACGGT 58.143 33.333 0.00 0.00 0.00 4.83
2484 4086 1.745653 GTTGCCTAGCCTTGTCAATCC 59.254 52.381 0.00 0.00 0.00 3.01
2488 4090 2.280628 CCTAGCCTTGTCAATCCGTTC 58.719 52.381 0.00 0.00 0.00 3.95
2491 4093 1.625818 AGCCTTGTCAATCCGTTCTCT 59.374 47.619 0.00 0.00 0.00 3.10
2492 4094 1.734465 GCCTTGTCAATCCGTTCTCTG 59.266 52.381 0.00 0.00 0.00 3.35
2493 4095 2.612972 GCCTTGTCAATCCGTTCTCTGA 60.613 50.000 0.00 0.00 0.00 3.27
2494 4096 3.664107 CCTTGTCAATCCGTTCTCTGAA 58.336 45.455 0.00 0.00 0.00 3.02
2495 4097 4.065088 CCTTGTCAATCCGTTCTCTGAAA 58.935 43.478 0.00 0.00 0.00 2.69
2496 4098 4.083802 CCTTGTCAATCCGTTCTCTGAAAC 60.084 45.833 0.00 0.00 0.00 2.78
2497 4099 4.336889 TGTCAATCCGTTCTCTGAAACT 57.663 40.909 0.00 0.00 0.00 2.66
2498 4100 4.058124 TGTCAATCCGTTCTCTGAAACTG 58.942 43.478 0.00 0.00 0.00 3.16
2499 4101 4.202212 TGTCAATCCGTTCTCTGAAACTGA 60.202 41.667 0.00 0.00 0.00 3.41
2500 4102 4.750098 GTCAATCCGTTCTCTGAAACTGAA 59.250 41.667 0.00 0.00 0.00 3.02
2501 4103 5.236478 GTCAATCCGTTCTCTGAAACTGAAA 59.764 40.000 0.00 0.00 0.00 2.69
2502 4104 5.997746 TCAATCCGTTCTCTGAAACTGAAAT 59.002 36.000 0.00 0.00 0.00 2.17
2503 4105 5.869753 ATCCGTTCTCTGAAACTGAAATG 57.130 39.130 0.00 0.00 0.00 2.32
2509 4112 4.067896 TCTCTGAAACTGAAATGCCACTC 58.932 43.478 0.00 0.00 0.00 3.51
2544 4148 5.583854 CACAGAAATAGTCAGAACCCATCAG 59.416 44.000 0.00 0.00 0.00 2.90
2547 4151 5.723887 AGAAATAGTCAGAACCCATCAGTCT 59.276 40.000 0.00 0.00 0.00 3.24
2559 4163 3.698040 CCCATCAGTCTTGGAATTTCCTG 59.302 47.826 16.25 9.31 37.46 3.86
2569 4179 8.414003 AGTCTTGGAATTTCCTGTTTCTTAAAC 58.586 33.333 16.25 0.00 37.46 2.01
2571 4181 8.194769 TCTTGGAATTTCCTGTTTCTTAAACAC 58.805 33.333 16.25 0.00 45.11 3.32
2607 4518 8.035394 TGTAATTTTCTACAGCCTACTTCTCAG 58.965 37.037 0.00 0.00 0.00 3.35
2608 4519 6.613153 ATTTTCTACAGCCTACTTCTCAGT 57.387 37.500 0.00 0.00 36.99 3.41
2655 4569 6.852664 AGATTGCTAATACTTGTTTTTCCCG 58.147 36.000 0.00 0.00 0.00 5.14
2656 4570 5.379732 TTGCTAATACTTGTTTTTCCCGG 57.620 39.130 0.00 0.00 0.00 5.73
2687 4601 7.373617 TGCCTAGTGGATCATATGTTCTTTA 57.626 36.000 12.41 4.06 34.57 1.85
2690 4604 8.097038 GCCTAGTGGATCATATGTTCTTTATCA 58.903 37.037 12.41 0.99 34.57 2.15
2727 4667 8.741841 TGAGCTTATTCATGATTTGTGATTCAA 58.258 29.630 0.00 0.00 0.00 2.69
2741 4681 7.552458 TTGTGATTCAAATATATCGCAGTGT 57.448 32.000 0.00 0.00 40.95 3.55
2811 4769 6.662755 TGTGTGGCATTTCTCCTTCTATAAT 58.337 36.000 0.00 0.00 0.00 1.28
2976 4941 4.388773 GTGCACTTGACATTTGACTATCGA 59.611 41.667 10.32 0.00 0.00 3.59
2991 4966 2.859165 ATCGATGGTGTCTTGTTGGT 57.141 45.000 0.00 0.00 0.00 3.67
2996 4971 2.746279 TGGTGTCTTGTTGGTCCATT 57.254 45.000 0.00 0.00 0.00 3.16
3063 5045 6.672593 TGCTTAATTACCTCCATCTGGATTT 58.327 36.000 0.00 0.00 44.46 2.17
3084 5067 7.201565 GGATTTTCCTATGTCTTCTCTGAAACG 60.202 40.741 0.00 0.00 32.53 3.60
3148 5140 3.000724 GCTTGTGTCAAGAGCGCTATAAG 59.999 47.826 11.50 7.84 0.00 1.73
3173 5165 3.451894 CACGGGGCTGCATTTCCC 61.452 66.667 0.50 9.64 41.87 3.97
3207 5199 7.491696 AGTTCTAACCGTGTTCATCTTATAAGC 59.508 37.037 7.67 0.00 0.00 3.09
3223 5215 9.646522 ATCTTATAAGCAGTGGTGGATTAATTT 57.353 29.630 7.67 0.00 0.00 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
482 486 2.190578 GGGAACTGCTATGCGCCT 59.809 61.111 4.18 0.00 38.05 5.52
558 566 3.428870 GTGTGTGTAGTGTGTGACATAGC 59.571 47.826 0.00 0.00 0.00 2.97
572 580 1.000060 GTAGGACAAGGCGTGTGTGTA 60.000 52.381 11.66 0.00 41.96 2.90
762 770 9.706691 CAACTCTCCTACTACACTCAAAATAAA 57.293 33.333 0.00 0.00 0.00 1.40
763 771 9.085645 TCAACTCTCCTACTACACTCAAAATAA 57.914 33.333 0.00 0.00 0.00 1.40
764 772 8.645814 TCAACTCTCCTACTACACTCAAAATA 57.354 34.615 0.00 0.00 0.00 1.40
765 773 7.540474 TCAACTCTCCTACTACACTCAAAAT 57.460 36.000 0.00 0.00 0.00 1.82
766 774 6.971726 TCAACTCTCCTACTACACTCAAAA 57.028 37.500 0.00 0.00 0.00 2.44
767 775 6.971726 TTCAACTCTCCTACTACACTCAAA 57.028 37.500 0.00 0.00 0.00 2.69
768 776 6.071334 CCATTCAACTCTCCTACTACACTCAA 60.071 42.308 0.00 0.00 0.00 3.02
769 777 5.419155 CCATTCAACTCTCCTACTACACTCA 59.581 44.000 0.00 0.00 0.00 3.41
770 778 5.163499 CCCATTCAACTCTCCTACTACACTC 60.163 48.000 0.00 0.00 0.00 3.51
771 779 4.712337 CCCATTCAACTCTCCTACTACACT 59.288 45.833 0.00 0.00 0.00 3.55
772 780 4.680975 GCCCATTCAACTCTCCTACTACAC 60.681 50.000 0.00 0.00 0.00 2.90
773 781 3.451178 GCCCATTCAACTCTCCTACTACA 59.549 47.826 0.00 0.00 0.00 2.74
774 782 3.707102 AGCCCATTCAACTCTCCTACTAC 59.293 47.826 0.00 0.00 0.00 2.73
775 783 3.706594 CAGCCCATTCAACTCTCCTACTA 59.293 47.826 0.00 0.00 0.00 1.82
776 784 2.503356 CAGCCCATTCAACTCTCCTACT 59.497 50.000 0.00 0.00 0.00 2.57
777 785 2.501723 TCAGCCCATTCAACTCTCCTAC 59.498 50.000 0.00 0.00 0.00 3.18
778 786 2.501723 GTCAGCCCATTCAACTCTCCTA 59.498 50.000 0.00 0.00 0.00 2.94
779 787 1.280421 GTCAGCCCATTCAACTCTCCT 59.720 52.381 0.00 0.00 0.00 3.69
780 788 1.680249 GGTCAGCCCATTCAACTCTCC 60.680 57.143 0.00 0.00 0.00 3.71
781 789 1.743996 GGTCAGCCCATTCAACTCTC 58.256 55.000 0.00 0.00 0.00 3.20
782 790 3.965888 GGTCAGCCCATTCAACTCT 57.034 52.632 0.00 0.00 0.00 3.24
799 807 1.336887 CCTGTAATATGACCGAGCGGG 60.337 57.143 14.07 0.00 43.62 6.13
800 808 1.935300 GCCTGTAATATGACCGAGCGG 60.935 57.143 7.48 7.48 42.03 5.52
801 809 1.000163 AGCCTGTAATATGACCGAGCG 60.000 52.381 0.00 0.00 0.00 5.03
802 810 2.802816 CAAGCCTGTAATATGACCGAGC 59.197 50.000 0.00 0.00 0.00 5.03
803 811 4.322080 TCAAGCCTGTAATATGACCGAG 57.678 45.455 0.00 0.00 0.00 4.63
804 812 4.503123 CCATCAAGCCTGTAATATGACCGA 60.503 45.833 0.00 0.00 0.00 4.69
805 813 3.748048 CCATCAAGCCTGTAATATGACCG 59.252 47.826 0.00 0.00 0.00 4.79
806 814 4.074970 CCCATCAAGCCTGTAATATGACC 58.925 47.826 0.00 0.00 0.00 4.02
807 815 3.503748 GCCCATCAAGCCTGTAATATGAC 59.496 47.826 0.00 0.00 0.00 3.06
808 816 3.754965 GCCCATCAAGCCTGTAATATGA 58.245 45.455 0.00 0.00 0.00 2.15
819 827 0.034089 ACAACTAGGGCCCATCAAGC 60.034 55.000 27.56 0.00 0.00 4.01
820 828 2.514458 AACAACTAGGGCCCATCAAG 57.486 50.000 27.56 17.68 0.00 3.02
821 829 2.916934 ACTAACAACTAGGGCCCATCAA 59.083 45.455 27.56 5.13 31.14 2.57
822 830 2.504175 GACTAACAACTAGGGCCCATCA 59.496 50.000 27.56 7.67 31.14 3.07
823 831 2.158798 GGACTAACAACTAGGGCCCATC 60.159 54.545 27.56 4.91 31.14 3.51
824 832 1.844497 GGACTAACAACTAGGGCCCAT 59.156 52.381 27.56 12.06 31.14 4.00
825 833 1.282382 GGACTAACAACTAGGGCCCA 58.718 55.000 27.56 9.36 31.14 5.36
826 834 0.177373 CGGACTAACAACTAGGGCCC 59.823 60.000 16.46 16.46 31.14 5.80
827 835 0.177373 CCGGACTAACAACTAGGGCC 59.823 60.000 0.00 0.00 31.14 5.80
828 836 0.177373 CCCGGACTAACAACTAGGGC 59.823 60.000 0.73 0.00 31.14 5.19
829 837 0.177373 GCCCGGACTAACAACTAGGG 59.823 60.000 0.73 0.00 40.27 3.53
830 838 1.134788 CAGCCCGGACTAACAACTAGG 60.135 57.143 0.73 0.00 31.14 3.02
831 839 1.134788 CCAGCCCGGACTAACAACTAG 60.135 57.143 0.73 0.00 36.56 2.57
832 840 0.899720 CCAGCCCGGACTAACAACTA 59.100 55.000 0.73 0.00 36.56 2.24
833 841 0.834687 TCCAGCCCGGACTAACAACT 60.835 55.000 0.73 0.00 39.64 3.16
834 842 0.391263 CTCCAGCCCGGACTAACAAC 60.391 60.000 0.73 0.00 39.64 3.32
835 843 0.834687 ACTCCAGCCCGGACTAACAA 60.835 55.000 0.73 0.00 39.64 2.83
836 844 0.834687 AACTCCAGCCCGGACTAACA 60.835 55.000 0.73 0.00 39.64 2.41
837 845 1.136500 CTAACTCCAGCCCGGACTAAC 59.864 57.143 0.73 0.00 39.64 2.34
838 846 1.006281 TCTAACTCCAGCCCGGACTAA 59.994 52.381 0.73 0.00 39.64 2.24
839 847 0.627451 TCTAACTCCAGCCCGGACTA 59.373 55.000 0.73 0.00 39.64 2.59
840 848 0.032017 ATCTAACTCCAGCCCGGACT 60.032 55.000 0.73 0.00 39.64 3.85
841 849 0.105039 CATCTAACTCCAGCCCGGAC 59.895 60.000 0.73 0.00 39.64 4.79
842 850 1.048724 CCATCTAACTCCAGCCCGGA 61.049 60.000 0.73 0.00 43.61 5.14
843 851 1.447643 CCATCTAACTCCAGCCCGG 59.552 63.158 0.00 0.00 0.00 5.73
844 852 1.447643 CCCATCTAACTCCAGCCCG 59.552 63.158 0.00 0.00 0.00 6.13
845 853 1.149401 GCCCATCTAACTCCAGCCC 59.851 63.158 0.00 0.00 0.00 5.19
846 854 1.149401 GGCCCATCTAACTCCAGCC 59.851 63.158 0.00 0.00 0.00 4.85
847 855 0.548510 AAGGCCCATCTAACTCCAGC 59.451 55.000 0.00 0.00 0.00 4.85
848 856 1.133976 CCAAGGCCCATCTAACTCCAG 60.134 57.143 0.00 0.00 0.00 3.86
849 857 0.918983 CCAAGGCCCATCTAACTCCA 59.081 55.000 0.00 0.00 0.00 3.86
850 858 0.919710 ACCAAGGCCCATCTAACTCC 59.080 55.000 0.00 0.00 0.00 3.85
851 859 2.808906 AACCAAGGCCCATCTAACTC 57.191 50.000 0.00 0.00 0.00 3.01
852 860 3.785887 TGATAACCAAGGCCCATCTAACT 59.214 43.478 0.00 0.00 0.00 2.24
853 861 4.137543 CTGATAACCAAGGCCCATCTAAC 58.862 47.826 0.00 0.00 0.00 2.34
854 862 3.138283 CCTGATAACCAAGGCCCATCTAA 59.862 47.826 0.00 0.00 0.00 2.10
855 863 2.711009 CCTGATAACCAAGGCCCATCTA 59.289 50.000 0.00 0.00 0.00 1.98
856 864 1.496429 CCTGATAACCAAGGCCCATCT 59.504 52.381 0.00 0.00 0.00 2.90
857 865 1.986882 CCTGATAACCAAGGCCCATC 58.013 55.000 0.00 0.00 0.00 3.51
858 866 0.106015 GCCTGATAACCAAGGCCCAT 60.106 55.000 0.00 0.00 41.28 4.00
859 867 1.306296 GCCTGATAACCAAGGCCCA 59.694 57.895 0.00 0.00 41.28 5.36
860 868 4.259952 GCCTGATAACCAAGGCCC 57.740 61.111 0.00 0.00 41.28 5.80
862 870 1.035139 CATGGCCTGATAACCAAGGC 58.965 55.000 3.32 5.10 45.99 4.35
863 871 1.696063 CCATGGCCTGATAACCAAGG 58.304 55.000 3.32 0.00 39.96 3.61
864 872 1.035139 GCCATGGCCTGATAACCAAG 58.965 55.000 27.24 0.00 39.96 3.61
865 873 3.205815 GCCATGGCCTGATAACCAA 57.794 52.632 27.24 0.00 39.96 3.67
876 884 0.688749 ATTCCTTTCCTGGCCATGGC 60.689 55.000 29.47 29.47 41.06 4.40
877 885 1.117150 CATTCCTTTCCTGGCCATGG 58.883 55.000 5.51 7.63 0.00 3.66
878 886 0.462789 GCATTCCTTTCCTGGCCATG 59.537 55.000 5.51 2.84 0.00 3.66
879 887 0.041535 TGCATTCCTTTCCTGGCCAT 59.958 50.000 5.51 0.00 0.00 4.40
880 888 0.041535 ATGCATTCCTTTCCTGGCCA 59.958 50.000 4.71 4.71 0.00 5.36
881 889 0.749049 GATGCATTCCTTTCCTGGCC 59.251 55.000 0.00 0.00 0.00 5.36
882 890 0.383231 CGATGCATTCCTTTCCTGGC 59.617 55.000 0.00 0.00 0.00 4.85
883 891 1.027357 CCGATGCATTCCTTTCCTGG 58.973 55.000 0.00 0.00 0.00 4.45
884 892 0.383231 GCCGATGCATTCCTTTCCTG 59.617 55.000 0.00 0.00 37.47 3.86
885 893 0.257039 AGCCGATGCATTCCTTTCCT 59.743 50.000 0.00 0.00 41.13 3.36
886 894 0.665298 GAGCCGATGCATTCCTTTCC 59.335 55.000 0.00 0.00 41.13 3.13
887 895 1.673168 AGAGCCGATGCATTCCTTTC 58.327 50.000 0.00 0.00 41.13 2.62
888 896 2.134789 AAGAGCCGATGCATTCCTTT 57.865 45.000 0.00 0.00 41.13 3.11
889 897 2.134789 AAAGAGCCGATGCATTCCTT 57.865 45.000 0.00 0.00 41.13 3.36
890 898 2.134789 AAAAGAGCCGATGCATTCCT 57.865 45.000 0.00 0.00 41.13 3.36
891 899 2.094545 ACAAAAAGAGCCGATGCATTCC 60.095 45.455 0.00 0.00 41.13 3.01
892 900 3.119708 AGACAAAAAGAGCCGATGCATTC 60.120 43.478 0.00 0.00 41.13 2.67
893 901 2.821969 AGACAAAAAGAGCCGATGCATT 59.178 40.909 0.00 0.00 41.13 3.56
894 902 2.163010 CAGACAAAAAGAGCCGATGCAT 59.837 45.455 0.00 0.00 41.13 3.96
895 903 1.536766 CAGACAAAAAGAGCCGATGCA 59.463 47.619 0.00 0.00 41.13 3.96
896 904 1.806542 TCAGACAAAAAGAGCCGATGC 59.193 47.619 0.00 0.00 37.95 3.91
897 905 3.748048 TCTTCAGACAAAAAGAGCCGATG 59.252 43.478 0.00 0.00 0.00 3.84
898 906 4.008074 TCTTCAGACAAAAAGAGCCGAT 57.992 40.909 0.00 0.00 0.00 4.18
899 907 3.469008 TCTTCAGACAAAAAGAGCCGA 57.531 42.857 0.00 0.00 0.00 5.54
900 908 4.552166 TTTCTTCAGACAAAAAGAGCCG 57.448 40.909 0.00 0.00 33.32 5.52
934 944 2.266554 CGAGTCAATGGAGTGAAGAGC 58.733 52.381 0.00 0.00 0.00 4.09
948 958 2.833582 GGGGATCGAGGCGAGTCA 60.834 66.667 0.00 0.00 39.91 3.41
971 989 0.610785 ATGTTTCCGCGGATTTGGGT 60.611 50.000 31.56 10.56 0.00 4.51
990 1016 2.166459 CTCTCCTTCCATTCTGTGCGTA 59.834 50.000 0.00 0.00 0.00 4.42
1253 1282 0.831307 GTCCGGATACTCCCTTTGCT 59.169 55.000 7.81 0.00 31.13 3.91
1284 1314 0.179034 GAGGCAGCATCGGGAAGAAT 60.179 55.000 0.00 0.00 0.00 2.40
1413 1485 4.575236 TGGTTGAAGTTATACACGTGCAAA 59.425 37.500 17.22 4.48 0.00 3.68
1425 1497 0.322322 ATCGGCGGTGGTTGAAGTTA 59.678 50.000 7.21 0.00 0.00 2.24
1460 1550 0.330941 TAATGCTGGGATGTGCACCA 59.669 50.000 15.69 3.70 42.26 4.17
1490 1620 2.192605 CAGAAATTGCCTTCCCCGG 58.807 57.895 0.00 0.00 0.00 5.73
1544 1674 1.931172 CATAAAAGTAGGACACGCCGG 59.069 52.381 0.00 0.00 43.43 6.13
1608 1753 6.832520 TCACCATTTTGCAACACATATACT 57.167 33.333 0.00 0.00 0.00 2.12
1633 1778 2.438975 ATGGGTGCGCCAGACATG 60.439 61.111 19.98 0.00 36.17 3.21
1672 1817 3.697045 CTGGATCGTGGATATAGGAGGAC 59.303 52.174 0.00 0.00 0.00 3.85
1917 2065 1.648720 CACCAACAACCAGCTGTCG 59.351 57.895 13.81 0.00 0.00 4.35
2022 2170 7.966753 CACATCTCCAAGAATACAAACTCATTG 59.033 37.037 0.00 0.00 44.95 2.82
2047 2195 4.329392 TCCAAGTAGAGTACACATCGACA 58.671 43.478 0.00 0.00 0.00 4.35
2172 2320 3.272334 GGGCTATCCACAAGCGCG 61.272 66.667 0.00 0.00 42.09 6.86
2178 2326 1.207488 ACCTTGCAGGGCTATCCACA 61.207 55.000 16.02 0.00 40.58 4.17
2201 2349 2.978156 ATCACCAAAAGGGCAGAAGA 57.022 45.000 0.00 0.00 42.05 2.87
2205 2353 5.888161 ACTATAGAAATCACCAAAAGGGCAG 59.112 40.000 6.78 0.00 42.05 4.85
2276 2426 1.760613 CCCAGAGCTATACCAAACGGA 59.239 52.381 0.00 0.00 0.00 4.69
2278 2428 1.485066 ACCCCAGAGCTATACCAAACG 59.515 52.381 0.00 0.00 0.00 3.60
2292 2445 2.870175 TCACATGTAAAACCACCCCAG 58.130 47.619 0.00 0.00 0.00 4.45
2312 2590 6.857437 ATTGTTAAAAAGGCCTAAGCAGAT 57.143 33.333 5.16 0.00 42.56 2.90
2313 2591 6.946009 ACTATTGTTAAAAAGGCCTAAGCAGA 59.054 34.615 5.16 0.00 42.56 4.26
2314 2592 7.158099 ACTATTGTTAAAAAGGCCTAAGCAG 57.842 36.000 5.16 0.00 42.56 4.24
2316 2594 9.569167 CTTAACTATTGTTAAAAAGGCCTAAGC 57.431 33.333 5.16 0.00 44.84 3.09
2388 2754 9.600432 AGTAATCTCTCAGCTATTAATCCTCTT 57.400 33.333 0.00 0.00 0.00 2.85
2389 2755 9.023962 CAGTAATCTCTCAGCTATTAATCCTCT 57.976 37.037 0.00 0.00 0.00 3.69
2390 2756 9.019656 TCAGTAATCTCTCAGCTATTAATCCTC 57.980 37.037 0.00 0.00 0.00 3.71
2391 2757 8.802267 GTCAGTAATCTCTCAGCTATTAATCCT 58.198 37.037 0.00 0.00 0.00 3.24
2392 2758 8.032451 GGTCAGTAATCTCTCAGCTATTAATCC 58.968 40.741 0.00 0.00 0.00 3.01
2397 2763 7.063593 TGTAGGTCAGTAATCTCTCAGCTATT 58.936 38.462 0.00 0.00 0.00 1.73
2399 2765 6.002653 TGTAGGTCAGTAATCTCTCAGCTA 57.997 41.667 0.00 0.00 0.00 3.32
2400 2766 4.861196 TGTAGGTCAGTAATCTCTCAGCT 58.139 43.478 0.00 0.00 0.00 4.24
2402 2768 9.442047 AATTTTTGTAGGTCAGTAATCTCTCAG 57.558 33.333 0.00 0.00 0.00 3.35
2403 2769 9.793259 AAATTTTTGTAGGTCAGTAATCTCTCA 57.207 29.630 0.00 0.00 0.00 3.27
2405 2771 9.793259 TCAAATTTTTGTAGGTCAGTAATCTCT 57.207 29.630 3.18 0.00 39.18 3.10
2411 2777 9.959749 GATGTTTCAAATTTTTGTAGGTCAGTA 57.040 29.630 3.18 0.00 39.18 2.74
2412 2778 8.474025 TGATGTTTCAAATTTTTGTAGGTCAGT 58.526 29.630 3.18 0.00 39.18 3.41
2413 2779 8.870160 TGATGTTTCAAATTTTTGTAGGTCAG 57.130 30.769 3.18 0.00 39.18 3.51
2414 2780 9.258826 CATGATGTTTCAAATTTTTGTAGGTCA 57.741 29.630 3.18 4.08 39.18 4.02
2455 4052 1.515954 GCTAGGCAACCGTCAGCTA 59.484 57.895 0.00 0.00 37.17 3.32
2462 4059 0.605319 TTGACAAGGCTAGGCAACCG 60.605 55.000 19.70 5.93 37.17 4.44
2465 4062 1.678728 CGGATTGACAAGGCTAGGCAA 60.679 52.381 19.70 3.64 0.00 4.52
2484 4086 3.250762 TGGCATTTCAGTTTCAGAGAACG 59.749 43.478 0.00 0.00 34.74 3.95
2488 4090 4.070716 AGAGTGGCATTTCAGTTTCAGAG 58.929 43.478 0.00 0.00 0.00 3.35
2491 4093 3.554934 ACAGAGTGGCATTTCAGTTTCA 58.445 40.909 0.00 0.00 0.00 2.69
2492 4094 4.574599 AACAGAGTGGCATTTCAGTTTC 57.425 40.909 0.00 0.00 0.00 2.78
2493 4095 5.127682 AGAAAACAGAGTGGCATTTCAGTTT 59.872 36.000 14.97 14.97 35.43 2.66
2494 4096 4.646492 AGAAAACAGAGTGGCATTTCAGTT 59.354 37.500 10.57 8.66 33.53 3.16
2495 4097 4.210331 AGAAAACAGAGTGGCATTTCAGT 58.790 39.130 10.57 3.68 33.53 3.41
2496 4098 4.843220 AGAAAACAGAGTGGCATTTCAG 57.157 40.909 10.57 3.13 33.53 3.02
2497 4099 4.737352 GCAAGAAAACAGAGTGGCATTTCA 60.737 41.667 10.57 0.00 33.53 2.69
2498 4100 3.737774 GCAAGAAAACAGAGTGGCATTTC 59.262 43.478 0.00 0.00 0.00 2.17
2499 4101 3.132646 TGCAAGAAAACAGAGTGGCATTT 59.867 39.130 0.00 0.00 0.00 2.32
2500 4102 2.694628 TGCAAGAAAACAGAGTGGCATT 59.305 40.909 0.00 0.00 0.00 3.56
2501 4103 2.035066 GTGCAAGAAAACAGAGTGGCAT 59.965 45.455 0.00 0.00 32.16 4.40
2502 4104 1.405105 GTGCAAGAAAACAGAGTGGCA 59.595 47.619 0.00 0.00 0.00 4.92
2503 4105 1.405105 TGTGCAAGAAAACAGAGTGGC 59.595 47.619 0.00 0.00 0.00 5.01
2544 4148 8.194769 TGTTTAAGAAACAGGAAATTCCAAGAC 58.805 33.333 15.21 1.92 45.79 3.01
2571 4181 7.489113 GGCTGTAGAAAATTACACAATGGATTG 59.511 37.037 0.00 0.00 43.26 2.67
2607 4518 5.874810 TCATACATAGCTTGAGGTTCACAAC 59.125 40.000 0.00 0.00 0.00 3.32
2608 4519 6.048732 TCATACATAGCTTGAGGTTCACAA 57.951 37.500 0.00 0.00 0.00 3.33
2655 4569 2.092429 TGATCCACTAGGCAACATTCCC 60.092 50.000 0.00 0.00 41.41 3.97
2656 4570 3.281727 TGATCCACTAGGCAACATTCC 57.718 47.619 0.00 0.00 41.41 3.01
2741 4681 7.015195 AGCTTGGACTAGCAAAAGGAAAATTTA 59.985 33.333 8.35 0.00 43.68 1.40
2811 4769 5.730296 TTCCAACAAAACCAAAACTCTGA 57.270 34.783 0.00 0.00 0.00 3.27
2860 4818 0.389391 ATGCCTTCGTATCCCAGTCG 59.611 55.000 0.00 0.00 0.00 4.18
2976 4941 2.978156 ATGGACCAACAAGACACCAT 57.022 45.000 0.00 0.00 33.98 3.55
2991 4966 8.970020 ACTTTAAGCATCACAATATCAAATGGA 58.030 29.630 0.00 0.00 0.00 3.41
2996 4971 6.152492 TGCCACTTTAAGCATCACAATATCAA 59.848 34.615 0.00 0.00 33.08 2.57
3063 5045 4.770531 TCCGTTTCAGAGAAGACATAGGAA 59.229 41.667 0.00 0.00 0.00 3.36
3084 5067 4.278975 AGTCTCCTTCACTGACATTTCC 57.721 45.455 0.00 0.00 33.56 3.13
3173 5165 3.596214 ACACGGTTAGAACTGCTATTGG 58.404 45.455 1.01 0.00 38.89 3.16
3176 5168 4.530710 TGAACACGGTTAGAACTGCTAT 57.469 40.909 1.01 0.00 38.89 2.97
3207 5199 4.403432 AGCATCCAAATTAATCCACCACTG 59.597 41.667 0.00 0.00 0.00 3.66
3223 5215 5.511373 GCCTGATACAGTTACATAGCATCCA 60.511 44.000 0.00 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.