Multiple sequence alignment - TraesCS4A01G234300

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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 TraesCS4A01G234300 chr4A 100.000 2972 0 0 1 2972 543346199 543349170 0.000000e+00 5489
1 TraesCS4A01G234300 chr4A 84.047 677 67 16 1 667 620944729 620945374 5.440000e-172 614
2 TraesCS4A01G234300 chr4B 93.425 2099 75 15 898 2972 78620507 78618448 0.000000e+00 3053
3 TraesCS4A01G234300 chr4D 94.727 1100 50 3 911 2003 53775404 53774306 0.000000e+00 1703
4 TraesCS4A01G234300 chr4D 89.286 616 43 12 2163 2764 53774198 53773592 0.000000e+00 750
5 TraesCS4A01G234300 chr6D 84.934 677 64 21 1 671 428602514 428603158 0.000000e+00 651
6 TraesCS4A01G234300 chr6D 82.424 330 49 7 50 377 461632022 461631700 2.260000e-71 279
7 TraesCS4A01G234300 chr1A 84.134 687 75 21 1 667 464917996 464917324 4.180000e-178 634
8 TraesCS4A01G234300 chr2A 84.273 674 69 17 1 667 593434668 593434025 9.050000e-175 623
9 TraesCS4A01G234300 chr5D 84.155 669 76 15 1 667 198819312 198819952 3.250000e-174 621
10 TraesCS4A01G234300 chr5D 86.466 399 47 6 272 667 519097511 519097117 5.890000e-117 431
11 TraesCS4A01G234300 chr3D 83.900 677 77 22 2 667 545335945 545336600 4.210000e-173 617
12 TraesCS4A01G234300 chr3D 83.476 351 48 9 48 398 104343168 104342828 4.780000e-83 318
13 TraesCS4A01G234300 chr7D 83.507 673 77 10 1 667 442279390 442278746 5.480000e-167 597
14 TraesCS4A01G234300 chr7D 80.978 552 86 15 58 600 524253496 524254037 1.270000e-113 420
15 TraesCS4A01G234300 chr3A 81.845 672 61 16 1 667 79183447 79182832 2.640000e-140 508
16 TraesCS4A01G234300 chr3A 85.523 373 45 7 1 366 7121796 7122166 6.010000e-102 381
17 TraesCS4A01G234300 chr7A 89.744 351 30 5 1 348 171260835 171261182 7.560000e-121 444
18 TraesCS4A01G234300 chr7A 85.600 375 45 8 298 667 611230112 611229742 4.650000e-103 385
19 TraesCS4A01G234300 chr7A 84.350 377 50 7 1 374 92859262 92859632 7.830000e-96 361
20 TraesCS4A01G234300 chr6A 86.327 373 46 3 298 667 539166881 539167251 4.610000e-108 401
21 TraesCS4A01G234300 chr6A 85.523 373 49 4 298 667 419680045 419679675 4.650000e-103 385
22 TraesCS4A01G234300 chr2D 83.069 378 52 9 1 376 616993589 616993956 1.710000e-87 333
23 TraesCS4A01G234300 chr2D 83.180 327 46 7 51 375 322855992 322856311 1.040000e-74 291
24 TraesCS4A01G234300 chr1D 80.851 376 56 11 1 375 28964253 28963893 6.270000e-72 281


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 TraesCS4A01G234300 chr4A 543346199 543349170 2971 False 5489.0 5489 100.0000 1 2972 1 chr4A.!!$F1 2971
1 TraesCS4A01G234300 chr4A 620944729 620945374 645 False 614.0 614 84.0470 1 667 1 chr4A.!!$F2 666
2 TraesCS4A01G234300 chr4B 78618448 78620507 2059 True 3053.0 3053 93.4250 898 2972 1 chr4B.!!$R1 2074
3 TraesCS4A01G234300 chr4D 53773592 53775404 1812 True 1226.5 1703 92.0065 911 2764 2 chr4D.!!$R1 1853
4 TraesCS4A01G234300 chr6D 428602514 428603158 644 False 651.0 651 84.9340 1 671 1 chr6D.!!$F1 670
5 TraesCS4A01G234300 chr1A 464917324 464917996 672 True 634.0 634 84.1340 1 667 1 chr1A.!!$R1 666
6 TraesCS4A01G234300 chr2A 593434025 593434668 643 True 623.0 623 84.2730 1 667 1 chr2A.!!$R1 666
7 TraesCS4A01G234300 chr5D 198819312 198819952 640 False 621.0 621 84.1550 1 667 1 chr5D.!!$F1 666
8 TraesCS4A01G234300 chr3D 545335945 545336600 655 False 617.0 617 83.9000 2 667 1 chr3D.!!$F1 665
9 TraesCS4A01G234300 chr7D 442278746 442279390 644 True 597.0 597 83.5070 1 667 1 chr7D.!!$R1 666
10 TraesCS4A01G234300 chr7D 524253496 524254037 541 False 420.0 420 80.9780 58 600 1 chr7D.!!$F1 542
11 TraesCS4A01G234300 chr3A 79182832 79183447 615 True 508.0 508 81.8450 1 667 1 chr3A.!!$R1 666

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
718 816 0.03601 CTCTGGGCCTGTAAGTGTGG 60.036 60.0 4.53 0.0 0.0 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2008 2114 0.822532 CCAGAATCATGAGCAGCCCC 60.823 60.0 0.09 0.0 0.0 5.8 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
93 98 0.949105 GTTTTGCTTCCGCGAGAGGA 60.949 55.000 8.23 2.69 39.65 3.71
140 145 1.338200 GCCGAGCCTCTCAGAAAAAGA 60.338 52.381 0.00 0.00 0.00 2.52
184 196 2.743636 TTTTCTTCCGCGAGAGTCAT 57.256 45.000 8.23 0.00 0.00 3.06
187 199 1.880340 CTTCCGCGAGAGTCATGGC 60.880 63.158 8.23 0.00 0.00 4.40
244 258 3.733960 CACGGTCGTGCCTCTCGA 61.734 66.667 10.59 0.00 39.39 4.04
319 382 2.125912 CTTCCACGAGAGGCACGG 60.126 66.667 0.00 0.00 34.93 4.94
320 383 3.649277 CTTCCACGAGAGGCACGGG 62.649 68.421 0.00 0.00 34.93 5.28
339 402 4.185413 GTGATTTCGCGAGAGGCA 57.815 55.556 9.59 4.82 43.84 4.75
340 403 1.710339 GTGATTTCGCGAGAGGCAC 59.290 57.895 9.59 13.70 43.84 5.01
341 404 1.014044 GTGATTTCGCGAGAGGCACA 61.014 55.000 22.21 10.83 43.84 4.57
366 429 2.884087 GATTTCGCGAGAGGCACGGA 62.884 60.000 9.59 0.00 43.84 4.69
382 445 1.218316 GGACGTGCCTCTTTCGGAT 59.782 57.895 0.00 0.00 0.00 4.18
408 487 1.029681 AAAACTGTGCTCCCGGTTTC 58.970 50.000 0.00 0.00 41.79 2.78
487 582 7.122204 TGGTATCTAGTTTTGAAGATCTCGACA 59.878 37.037 0.00 0.00 0.00 4.35
524 619 2.412770 GGCGAAAACGGTTCGAGATTTA 59.587 45.455 22.75 0.00 43.97 1.40
541 636 7.224362 TCGAGATTTAGACACACGGTTTAAAAA 59.776 33.333 0.00 0.00 38.90 1.94
637 734 1.237285 GCCACTTGTTGCGACCTGAT 61.237 55.000 0.45 0.00 0.00 2.90
667 765 3.555956 AGTGTTCTTTGCAACGAGTACTG 59.444 43.478 17.47 0.00 0.00 2.74
671 769 5.295787 TGTTCTTTGCAACGAGTACTGATTT 59.704 36.000 0.00 0.00 0.00 2.17
672 770 6.183360 TGTTCTTTGCAACGAGTACTGATTTT 60.183 34.615 0.00 0.00 0.00 1.82
673 771 5.747565 TCTTTGCAACGAGTACTGATTTTG 58.252 37.500 0.00 0.00 0.00 2.44
674 772 5.525745 TCTTTGCAACGAGTACTGATTTTGA 59.474 36.000 0.00 0.00 0.00 2.69
675 773 5.940192 TTGCAACGAGTACTGATTTTGAT 57.060 34.783 0.00 0.00 0.00 2.57
676 774 5.281693 TGCAACGAGTACTGATTTTGATG 57.718 39.130 0.00 0.00 0.00 3.07
677 775 4.754618 TGCAACGAGTACTGATTTTGATGT 59.245 37.500 0.00 0.00 0.00 3.06
678 776 5.238432 TGCAACGAGTACTGATTTTGATGTT 59.762 36.000 0.00 0.00 0.00 2.71
679 777 6.142817 GCAACGAGTACTGATTTTGATGTTT 58.857 36.000 0.00 0.00 0.00 2.83
680 778 6.086765 GCAACGAGTACTGATTTTGATGTTTG 59.913 38.462 0.00 0.00 0.00 2.93
681 779 6.861065 ACGAGTACTGATTTTGATGTTTGT 57.139 33.333 0.00 0.00 0.00 2.83
682 780 7.956420 ACGAGTACTGATTTTGATGTTTGTA 57.044 32.000 0.00 0.00 0.00 2.41
683 781 8.018677 ACGAGTACTGATTTTGATGTTTGTAG 57.981 34.615 0.00 0.00 0.00 2.74
684 782 7.117812 ACGAGTACTGATTTTGATGTTTGTAGG 59.882 37.037 0.00 0.00 0.00 3.18
685 783 7.413000 CGAGTACTGATTTTGATGTTTGTAGGG 60.413 40.741 0.00 0.00 0.00 3.53
686 784 7.458397 AGTACTGATTTTGATGTTTGTAGGGA 58.542 34.615 0.00 0.00 0.00 4.20
687 785 6.824305 ACTGATTTTGATGTTTGTAGGGAG 57.176 37.500 0.00 0.00 0.00 4.30
688 786 6.306987 ACTGATTTTGATGTTTGTAGGGAGT 58.693 36.000 0.00 0.00 0.00 3.85
689 787 6.431234 ACTGATTTTGATGTTTGTAGGGAGTC 59.569 38.462 0.00 0.00 0.00 3.36
690 788 5.411361 TGATTTTGATGTTTGTAGGGAGTCG 59.589 40.000 0.00 0.00 0.00 4.18
691 789 4.610605 TTTGATGTTTGTAGGGAGTCGA 57.389 40.909 0.00 0.00 0.00 4.20
692 790 3.868757 TGATGTTTGTAGGGAGTCGAG 57.131 47.619 0.00 0.00 0.00 4.04
693 791 2.496070 TGATGTTTGTAGGGAGTCGAGG 59.504 50.000 0.00 0.00 0.00 4.63
694 792 1.263356 TGTTTGTAGGGAGTCGAGGG 58.737 55.000 0.00 0.00 0.00 4.30
695 793 0.108281 GTTTGTAGGGAGTCGAGGGC 60.108 60.000 0.00 0.00 0.00 5.19
696 794 1.262640 TTTGTAGGGAGTCGAGGGCC 61.263 60.000 0.00 0.00 0.00 5.80
697 795 2.043248 GTAGGGAGTCGAGGGCCA 60.043 66.667 6.18 0.00 0.00 5.36
698 796 2.128507 GTAGGGAGTCGAGGGCCAG 61.129 68.421 6.18 0.00 0.00 4.85
701 799 3.844090 GGAGTCGAGGGCCAGCTC 61.844 72.222 6.18 10.07 0.00 4.09
702 800 2.757917 GAGTCGAGGGCCAGCTCT 60.758 66.667 6.18 0.00 0.00 4.09
703 801 3.073735 AGTCGAGGGCCAGCTCTG 61.074 66.667 6.18 0.00 0.00 3.35
712 810 3.403624 CCAGCTCTGGGCCTGTAA 58.596 61.111 4.53 0.00 46.81 2.41
713 811 1.222936 CCAGCTCTGGGCCTGTAAG 59.777 63.158 4.53 0.00 46.81 2.34
714 812 1.557269 CCAGCTCTGGGCCTGTAAGT 61.557 60.000 4.53 0.00 46.81 2.24
715 813 0.392193 CAGCTCTGGGCCTGTAAGTG 60.392 60.000 4.53 0.00 43.05 3.16
716 814 0.838122 AGCTCTGGGCCTGTAAGTGT 60.838 55.000 4.53 0.00 43.05 3.55
717 815 0.674895 GCTCTGGGCCTGTAAGTGTG 60.675 60.000 4.53 0.00 34.27 3.82
718 816 0.036010 CTCTGGGCCTGTAAGTGTGG 60.036 60.000 4.53 0.00 0.00 4.17
719 817 1.675641 CTGGGCCTGTAAGTGTGGC 60.676 63.158 4.53 0.00 45.42 5.01
723 821 3.021451 GCCTGTAAGTGTGGCAAGT 57.979 52.632 0.00 0.00 45.46 3.16
724 822 0.593128 GCCTGTAAGTGTGGCAAGTG 59.407 55.000 0.00 0.00 45.46 3.16
725 823 1.967319 CCTGTAAGTGTGGCAAGTGT 58.033 50.000 0.00 0.00 0.00 3.55
726 824 1.603802 CCTGTAAGTGTGGCAAGTGTG 59.396 52.381 0.00 0.00 0.00 3.82
753 851 2.502213 GGCACGGCCCATTTATAAAC 57.498 50.000 0.00 0.00 44.06 2.01
754 852 1.268845 GGCACGGCCCATTTATAAACG 60.269 52.381 0.00 2.00 44.06 3.60
755 853 1.268845 GCACGGCCCATTTATAAACGG 60.269 52.381 3.24 3.24 0.00 4.44
756 854 1.335496 CACGGCCCATTTATAAACGGG 59.665 52.381 22.48 22.48 42.03 5.28
760 858 0.312729 CCCATTTATAAACGGGCCGC 59.687 55.000 28.71 0.00 0.00 6.53
761 859 0.312729 CCATTTATAAACGGGCCGCC 59.687 55.000 28.71 0.00 0.00 6.13
762 860 0.040781 CATTTATAAACGGGCCGCCG 60.041 55.000 28.71 2.21 39.31 6.46
764 862 1.367599 TTTATAAACGGGCCGCCGTG 61.368 55.000 28.71 0.00 46.11 4.94
765 863 3.736732 TATAAACGGGCCGCCGTGG 62.737 63.158 28.71 0.00 46.11 4.94
789 887 3.130819 CCGCGCCAGGCATGTTTA 61.131 61.111 13.30 0.00 43.84 2.01
790 888 2.695759 CCGCGCCAGGCATGTTTAA 61.696 57.895 13.30 0.00 43.84 1.52
791 889 1.514014 CGCGCCAGGCATGTTTAAC 60.514 57.895 13.30 0.00 43.84 2.01
792 890 1.514014 GCGCCAGGCATGTTTAACG 60.514 57.895 13.30 0.00 42.87 3.18
793 891 1.136565 CGCCAGGCATGTTTAACGG 59.863 57.895 13.30 0.00 0.00 4.44
794 892 1.510844 GCCAGGCATGTTTAACGGG 59.489 57.895 6.55 0.00 0.00 5.28
795 893 1.944234 GCCAGGCATGTTTAACGGGG 61.944 60.000 6.55 0.00 0.00 5.73
796 894 1.319614 CCAGGCATGTTTAACGGGGG 61.320 60.000 0.00 0.00 0.00 5.40
815 913 4.129737 CGAGCCGTGTCGACCCAT 62.130 66.667 14.12 0.00 42.85 4.00
816 914 2.264794 GAGCCGTGTCGACCCATT 59.735 61.111 14.12 0.00 0.00 3.16
817 915 1.810030 GAGCCGTGTCGACCCATTC 60.810 63.158 14.12 0.85 0.00 2.67
827 925 4.561155 ACCCATTCGGTCAGGTCT 57.439 55.556 0.00 0.00 43.58 3.85
828 926 1.983224 ACCCATTCGGTCAGGTCTG 59.017 57.895 0.00 0.00 43.58 3.51
829 927 1.450312 CCCATTCGGTCAGGTCTGC 60.450 63.158 0.00 0.00 0.00 4.26
830 928 1.599047 CCATTCGGTCAGGTCTGCT 59.401 57.895 0.00 0.00 0.00 4.24
831 929 0.460987 CCATTCGGTCAGGTCTGCTC 60.461 60.000 0.00 0.00 0.00 4.26
832 930 0.460987 CATTCGGTCAGGTCTGCTCC 60.461 60.000 0.00 0.00 0.00 4.70
833 931 0.616111 ATTCGGTCAGGTCTGCTCCT 60.616 55.000 9.11 0.00 38.51 3.69
834 932 1.251527 TTCGGTCAGGTCTGCTCCTC 61.252 60.000 9.11 0.00 35.37 3.71
835 933 2.716017 CGGTCAGGTCTGCTCCTCC 61.716 68.421 9.11 0.00 35.37 4.30
836 934 1.305718 GGTCAGGTCTGCTCCTCCT 60.306 63.158 0.00 0.00 35.37 3.69
837 935 0.907230 GGTCAGGTCTGCTCCTCCTT 60.907 60.000 0.00 0.00 35.37 3.36
838 936 0.534873 GTCAGGTCTGCTCCTCCTTC 59.465 60.000 0.00 0.00 35.37 3.46
839 937 0.616111 TCAGGTCTGCTCCTCCTTCC 60.616 60.000 0.00 0.00 35.37 3.46
840 938 0.617249 CAGGTCTGCTCCTCCTTCCT 60.617 60.000 0.00 0.00 35.37 3.36
841 939 0.617249 AGGTCTGCTCCTCCTTCCTG 60.617 60.000 0.00 0.00 31.32 3.86
842 940 1.220477 GTCTGCTCCTCCTTCCTGC 59.780 63.158 0.00 0.00 0.00 4.85
843 941 1.079987 TCTGCTCCTCCTTCCTGCT 59.920 57.895 0.00 0.00 0.00 4.24
844 942 0.975040 TCTGCTCCTCCTTCCTGCTC 60.975 60.000 0.00 0.00 0.00 4.26
845 943 2.295472 CTGCTCCTCCTTCCTGCTCG 62.295 65.000 0.00 0.00 0.00 5.03
846 944 2.355193 GCTCCTCCTTCCTGCTCGT 61.355 63.158 0.00 0.00 0.00 4.18
847 945 1.515020 CTCCTCCTTCCTGCTCGTG 59.485 63.158 0.00 0.00 0.00 4.35
848 946 2.125350 CCTCCTTCCTGCTCGTGC 60.125 66.667 1.71 1.71 40.20 5.34
849 947 2.507992 CTCCTTCCTGCTCGTGCG 60.508 66.667 4.84 0.00 43.34 5.34
850 948 2.989253 TCCTTCCTGCTCGTGCGA 60.989 61.111 4.84 0.00 43.34 5.10
851 949 2.811317 CCTTCCTGCTCGTGCGAC 60.811 66.667 4.84 0.00 43.34 5.19
852 950 2.811317 CTTCCTGCTCGTGCGACC 60.811 66.667 4.84 0.00 43.34 4.79
853 951 4.373116 TTCCTGCTCGTGCGACCC 62.373 66.667 4.84 0.00 43.34 4.46
872 970 4.423209 GAGCCCCTCCTCCCTGGT 62.423 72.222 0.00 0.00 37.07 4.00
873 971 3.952799 GAGCCCCTCCTCCCTGGTT 62.953 68.421 0.00 0.00 37.07 3.67
874 972 3.412408 GCCCCTCCTCCCTGGTTC 61.412 72.222 0.00 0.00 37.07 3.62
875 973 3.083997 CCCCTCCTCCCTGGTTCG 61.084 72.222 0.00 0.00 37.07 3.95
876 974 2.284699 CCCTCCTCCCTGGTTCGT 60.285 66.667 0.00 0.00 37.07 3.85
877 975 2.359967 CCCTCCTCCCTGGTTCGTC 61.360 68.421 0.00 0.00 37.07 4.20
878 976 1.609501 CCTCCTCCCTGGTTCGTCA 60.610 63.158 0.00 0.00 37.07 4.35
879 977 1.608717 CCTCCTCCCTGGTTCGTCAG 61.609 65.000 0.00 0.00 37.07 3.51
880 978 0.900647 CTCCTCCCTGGTTCGTCAGT 60.901 60.000 0.00 0.00 37.07 3.41
881 979 0.898789 TCCTCCCTGGTTCGTCAGTC 60.899 60.000 0.00 0.00 37.07 3.51
882 980 1.592223 CTCCCTGGTTCGTCAGTCC 59.408 63.158 0.00 0.00 33.14 3.85
883 981 1.152419 TCCCTGGTTCGTCAGTCCA 60.152 57.895 0.00 0.00 33.14 4.02
884 982 1.004918 CCCTGGTTCGTCAGTCCAC 60.005 63.158 0.00 0.00 33.14 4.02
885 983 1.004918 CCTGGTTCGTCAGTCCACC 60.005 63.158 0.00 0.00 33.14 4.61
886 984 1.472662 CCTGGTTCGTCAGTCCACCT 61.473 60.000 0.00 0.00 33.14 4.00
887 985 0.038159 CTGGTTCGTCAGTCCACCTC 60.038 60.000 0.00 0.00 0.00 3.85
888 986 1.292541 GGTTCGTCAGTCCACCTCC 59.707 63.158 0.00 0.00 0.00 4.30
889 987 1.080705 GTTCGTCAGTCCACCTCCG 60.081 63.158 0.00 0.00 0.00 4.63
890 988 2.927580 TTCGTCAGTCCACCTCCGC 61.928 63.158 0.00 0.00 0.00 5.54
891 989 4.436998 CGTCAGTCCACCTCCGCC 62.437 72.222 0.00 0.00 0.00 6.13
892 990 2.997897 GTCAGTCCACCTCCGCCT 60.998 66.667 0.00 0.00 0.00 5.52
893 991 2.680352 TCAGTCCACCTCCGCCTC 60.680 66.667 0.00 0.00 0.00 4.70
894 992 3.775654 CAGTCCACCTCCGCCTCC 61.776 72.222 0.00 0.00 0.00 4.30
939 1038 5.163814 CCAAAACGAGGTCAGATTCTCAATC 60.164 44.000 0.00 0.00 38.20 2.67
956 1055 3.515502 TCAATCTCCACTCGGAAATCAGT 59.484 43.478 0.00 0.00 42.21 3.41
1083 1189 2.764128 TCCACCTCCGCCTCATCC 60.764 66.667 0.00 0.00 0.00 3.51
1152 1258 4.548513 GCAACCACCCAACCCCCA 62.549 66.667 0.00 0.00 0.00 4.96
1172 1278 2.411504 AAACGCAACAACGCCCACT 61.412 52.632 0.00 0.00 36.19 4.00
1177 1283 1.302511 CAACAACGCCCACTAGCCT 60.303 57.895 0.00 0.00 0.00 4.58
1180 1286 2.606519 AACGCCCACTAGCCTCCA 60.607 61.111 0.00 0.00 0.00 3.86
1181 1287 2.660064 AACGCCCACTAGCCTCCAG 61.660 63.158 0.00 0.00 0.00 3.86
1275 1381 2.046604 GTCCCTAACACCCACCGC 60.047 66.667 0.00 0.00 0.00 5.68
1557 1663 1.153349 GGTGATCTCCGTTGAGCCC 60.153 63.158 0.00 0.00 38.58 5.19
1558 1664 1.596934 GTGATCTCCGTTGAGCCCA 59.403 57.895 0.00 0.00 38.58 5.36
1632 1738 1.685148 GCAGGATGGGGTTTGAGATC 58.315 55.000 0.00 0.00 35.86 2.75
1811 1917 1.899814 TCTGTTCGTGAAGCCATACCT 59.100 47.619 0.00 0.00 0.00 3.08
1869 1975 1.078143 AAAGGATGAGGTGAGGCGC 60.078 57.895 0.00 0.00 0.00 6.53
2008 2114 4.732784 CCAACTGGTACCGATTTTGAATG 58.267 43.478 7.57 0.00 0.00 2.67
2068 2174 5.516090 ACAATGTGGTTCGTATTGTGAAAC 58.484 37.500 0.00 0.00 41.85 2.78
2087 2193 4.846779 AACCGTATGTTTGAATTGCAGT 57.153 36.364 0.00 0.00 31.47 4.40
2088 2194 4.159377 ACCGTATGTTTGAATTGCAGTG 57.841 40.909 0.00 0.00 0.00 3.66
2089 2195 2.916716 CCGTATGTTTGAATTGCAGTGC 59.083 45.455 8.58 8.58 0.00 4.40
2090 2196 3.563508 CGTATGTTTGAATTGCAGTGCA 58.436 40.909 15.37 15.37 36.47 4.57
2091 2197 3.361644 CGTATGTTTGAATTGCAGTGCAC 59.638 43.478 19.58 9.40 38.71 4.57
2111 2217 2.268298 CTGCATTCTGCCAGCAAAATC 58.732 47.619 0.00 0.00 44.23 2.17
2112 2218 1.619332 TGCATTCTGCCAGCAAAATCA 59.381 42.857 0.00 0.00 44.23 2.57
2113 2219 2.037381 TGCATTCTGCCAGCAAAATCAA 59.963 40.909 0.00 0.00 44.23 2.57
2114 2220 3.068560 GCATTCTGCCAGCAAAATCAAA 58.931 40.909 0.00 0.00 37.42 2.69
2115 2221 3.499157 GCATTCTGCCAGCAAAATCAAAA 59.501 39.130 0.00 0.00 37.42 2.44
2116 2222 4.155280 GCATTCTGCCAGCAAAATCAAAAT 59.845 37.500 0.00 0.00 37.42 1.82
2161 2306 2.787473 ACCGATTGGAATCTGCAAGA 57.213 45.000 5.81 0.00 43.89 3.02
2196 2341 3.464080 AGTCCTAGGCTCCTAGCTTAAGA 59.536 47.826 15.80 6.20 43.35 2.10
2209 2355 7.727181 TCCTAGCTTAAGATGAGGTCAATTAC 58.273 38.462 6.67 0.00 0.00 1.89
2331 2488 5.112686 CAAATAGGTAAGAGAGGCAGTCAC 58.887 45.833 0.00 0.00 0.00 3.67
2370 2529 4.537688 AGTAATCAATGATCATCGGGGGAT 59.462 41.667 9.06 5.03 0.00 3.85
2388 2547 4.466726 GGGGATAATACTCGATAGGTTGCT 59.533 45.833 0.00 0.00 0.00 3.91
2769 2931 6.595716 GTCATGCTTCCTAACTTGTATCTGTT 59.404 38.462 0.00 0.00 0.00 3.16
2770 2932 6.595326 TCATGCTTCCTAACTTGTATCTGTTG 59.405 38.462 0.00 0.00 0.00 3.33
2771 2933 5.245531 TGCTTCCTAACTTGTATCTGTTGG 58.754 41.667 0.00 0.00 0.00 3.77
2772 2934 5.221843 TGCTTCCTAACTTGTATCTGTTGGT 60.222 40.000 0.00 0.00 0.00 3.67
2773 2935 5.351740 GCTTCCTAACTTGTATCTGTTGGTC 59.648 44.000 0.00 0.00 0.00 4.02
2774 2936 6.428083 TTCCTAACTTGTATCTGTTGGTCA 57.572 37.500 0.00 0.00 0.00 4.02
2775 2937 6.037786 TCCTAACTTGTATCTGTTGGTCAG 57.962 41.667 0.00 0.00 44.85 3.51
2776 2938 5.542635 TCCTAACTTGTATCTGTTGGTCAGT 59.457 40.000 0.00 0.00 43.97 3.41
2777 2939 6.722590 TCCTAACTTGTATCTGTTGGTCAGTA 59.277 38.462 0.00 0.00 43.97 2.74
2778 2940 7.233962 TCCTAACTTGTATCTGTTGGTCAGTAA 59.766 37.037 0.00 0.00 43.97 2.24
2779 2941 8.041323 CCTAACTTGTATCTGTTGGTCAGTAAT 58.959 37.037 0.00 0.00 43.97 1.89
2781 2943 8.773404 AACTTGTATCTGTTGGTCAGTAATAC 57.227 34.615 0.00 0.00 43.97 1.89
2782 2944 8.135382 ACTTGTATCTGTTGGTCAGTAATACT 57.865 34.615 0.00 0.00 43.97 2.12
2784 2946 7.476540 TGTATCTGTTGGTCAGTAATACTGT 57.523 36.000 18.71 0.65 46.03 3.55
2785 2947 7.320399 TGTATCTGTTGGTCAGTAATACTGTG 58.680 38.462 18.71 0.00 46.03 3.66
2786 2948 5.801531 TCTGTTGGTCAGTAATACTGTGT 57.198 39.130 18.71 0.00 46.03 3.72
2787 2949 6.904463 TCTGTTGGTCAGTAATACTGTGTA 57.096 37.500 18.71 5.04 46.03 2.90
2788 2950 7.292713 TCTGTTGGTCAGTAATACTGTGTAA 57.707 36.000 18.71 10.07 46.03 2.41
2789 2951 7.149973 TCTGTTGGTCAGTAATACTGTGTAAC 58.850 38.462 18.71 18.96 46.03 2.50
2790 2952 6.926826 CTGTTGGTCAGTAATACTGTGTAACA 59.073 38.462 23.09 23.09 46.03 2.41
2815 2977 4.878397 GGTTGACATTCTCTCCACCTAATG 59.122 45.833 0.00 0.00 35.83 1.90
2822 2984 4.944619 TCTCTCCACCTAATGTGCTATG 57.055 45.455 0.00 0.00 44.01 2.23
2888 3050 2.872842 GCCAAGCTGATTGTTGCCATTT 60.873 45.455 4.82 0.00 37.17 2.32
2895 3057 2.490115 TGATTGTTGCCATTTCCCGTAC 59.510 45.455 0.00 0.00 0.00 3.67
2905 3067 7.675962 TGCCATTTCCCGTACATATAAATAC 57.324 36.000 0.00 0.00 0.00 1.89
2939 3101 7.874940 TGACTCTTGGTTATTTTGAATCACAG 58.125 34.615 0.00 0.00 0.00 3.66
2946 3108 6.095377 GGTTATTTTGAATCACAGAAGCTGG 58.905 40.000 0.00 0.00 35.51 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
59 64 1.521423 CAAAACCGTGACTCTCGTGAC 59.479 52.381 0.24 0.00 0.00 3.67
93 98 0.655733 CTCGTGAAAGCACAACCGTT 59.344 50.000 0.00 0.00 45.41 4.44
184 196 0.952497 CTCTCGCAGAAGCAAAGCCA 60.952 55.000 0.00 0.00 42.27 4.75
187 199 0.952497 TGCCTCTCGCAGAAGCAAAG 60.952 55.000 6.89 0.00 44.64 2.77
285 325 3.067106 GGAAGCAAAATCGTGACTCTCA 58.933 45.455 0.00 0.00 0.00 3.27
321 384 1.805539 TGCCTCTCGCGAAATCACG 60.806 57.895 11.33 0.00 42.08 4.35
322 385 1.014044 TGTGCCTCTCGCGAAATCAC 61.014 55.000 11.33 15.60 42.08 3.06
323 386 0.737367 CTGTGCCTCTCGCGAAATCA 60.737 55.000 11.33 2.93 42.08 2.57
324 387 1.424493 CCTGTGCCTCTCGCGAAATC 61.424 60.000 11.33 0.00 42.08 2.17
325 388 1.448540 CCTGTGCCTCTCGCGAAAT 60.449 57.895 11.33 0.00 42.08 2.17
326 389 2.048222 CCTGTGCCTCTCGCGAAA 60.048 61.111 11.33 0.00 42.08 3.46
327 390 4.742201 GCCTGTGCCTCTCGCGAA 62.742 66.667 11.33 0.02 42.08 4.70
331 394 2.842394 AATCACGCCTGTGCCTCTCG 62.842 60.000 0.00 0.00 46.01 4.04
332 395 0.674895 AAATCACGCCTGTGCCTCTC 60.675 55.000 0.00 0.00 46.01 3.20
333 396 0.674895 GAAATCACGCCTGTGCCTCT 60.675 55.000 0.00 0.00 46.01 3.69
334 397 1.796796 GAAATCACGCCTGTGCCTC 59.203 57.895 0.00 0.00 46.01 4.70
335 398 2.034879 CGAAATCACGCCTGTGCCT 61.035 57.895 0.00 0.00 46.01 4.75
336 399 2.480555 CGAAATCACGCCTGTGCC 59.519 61.111 0.00 0.00 46.01 5.01
366 429 0.460311 CCTATCCGAAAGAGGCACGT 59.540 55.000 0.00 0.00 0.00 4.49
439 534 7.560368 ACCATGTTGATAGGTTTTGACAAAAA 58.440 30.769 14.75 0.59 32.82 1.94
487 582 1.094785 CGCCATTGGATTTTCCTCGT 58.905 50.000 6.95 0.00 37.46 4.18
495 590 1.253100 ACCGTTTTCGCCATTGGATT 58.747 45.000 6.95 0.00 42.58 3.01
496 591 1.201414 GAACCGTTTTCGCCATTGGAT 59.799 47.619 6.95 0.00 42.58 3.41
637 734 5.122554 TCGTTGCAAAGAACACTTCACTTTA 59.877 36.000 12.88 0.00 33.44 1.85
667 765 5.642063 TCGACTCCCTACAAACATCAAAATC 59.358 40.000 0.00 0.00 0.00 2.17
671 769 3.056107 CCTCGACTCCCTACAAACATCAA 60.056 47.826 0.00 0.00 0.00 2.57
672 770 2.496070 CCTCGACTCCCTACAAACATCA 59.504 50.000 0.00 0.00 0.00 3.07
673 771 2.159085 CCCTCGACTCCCTACAAACATC 60.159 54.545 0.00 0.00 0.00 3.06
674 772 1.831736 CCCTCGACTCCCTACAAACAT 59.168 52.381 0.00 0.00 0.00 2.71
675 773 1.263356 CCCTCGACTCCCTACAAACA 58.737 55.000 0.00 0.00 0.00 2.83
676 774 0.108281 GCCCTCGACTCCCTACAAAC 60.108 60.000 0.00 0.00 0.00 2.93
677 775 1.262640 GGCCCTCGACTCCCTACAAA 61.263 60.000 0.00 0.00 0.00 2.83
678 776 1.684734 GGCCCTCGACTCCCTACAA 60.685 63.158 0.00 0.00 0.00 2.41
679 777 2.043248 GGCCCTCGACTCCCTACA 60.043 66.667 0.00 0.00 0.00 2.74
680 778 2.043248 TGGCCCTCGACTCCCTAC 60.043 66.667 0.00 0.00 0.00 3.18
681 779 2.279073 CTGGCCCTCGACTCCCTA 59.721 66.667 0.00 0.00 0.00 3.53
684 782 3.844090 GAGCTGGCCCTCGACTCC 61.844 72.222 0.00 0.00 0.00 3.85
685 783 2.757917 AGAGCTGGCCCTCGACTC 60.758 66.667 0.00 0.00 36.95 3.36
686 784 3.073735 CAGAGCTGGCCCTCGACT 61.074 66.667 0.00 0.00 36.95 4.18
687 785 4.154347 CCAGAGCTGGCCCTCGAC 62.154 72.222 0.00 0.00 44.73 4.20
696 794 0.392193 CACTTACAGGCCCAGAGCTG 60.392 60.000 0.00 0.00 43.05 4.24
697 795 0.838122 ACACTTACAGGCCCAGAGCT 60.838 55.000 0.00 0.00 43.05 4.09
698 796 0.674895 CACACTTACAGGCCCAGAGC 60.675 60.000 0.00 0.00 42.60 4.09
699 797 0.036010 CCACACTTACAGGCCCAGAG 60.036 60.000 0.00 0.00 0.00 3.35
700 798 2.066340 CCACACTTACAGGCCCAGA 58.934 57.895 0.00 0.00 0.00 3.86
701 799 1.675641 GCCACACTTACAGGCCCAG 60.676 63.158 0.00 0.00 42.58 4.45
702 800 2.434331 GCCACACTTACAGGCCCA 59.566 61.111 0.00 0.00 42.58 5.36
706 804 1.603802 CACACTTGCCACACTTACAGG 59.396 52.381 0.00 0.00 0.00 4.00
707 805 1.002468 GCACACTTGCCACACTTACAG 60.002 52.381 0.00 0.00 43.66 2.74
708 806 1.021202 GCACACTTGCCACACTTACA 58.979 50.000 0.00 0.00 43.66 2.41
709 807 3.845625 GCACACTTGCCACACTTAC 57.154 52.632 0.00 0.00 43.66 2.34
735 833 1.268845 CCGTTTATAAATGGGCCGTGC 60.269 52.381 23.70 0.00 40.61 5.34
736 834 2.766970 CCGTTTATAAATGGGCCGTG 57.233 50.000 23.70 2.47 40.61 4.94
742 840 0.312729 GGCGGCCCGTTTATAAATGG 59.687 55.000 24.25 24.25 43.28 3.16
743 841 3.857638 GGCGGCCCGTTTATAAATG 57.142 52.632 8.12 10.03 0.00 2.32
772 870 2.695759 TTAAACATGCCTGGCGCGG 61.696 57.895 14.98 8.32 42.08 6.46
773 871 1.514014 GTTAAACATGCCTGGCGCG 60.514 57.895 14.98 9.93 42.08 6.86
774 872 1.514014 CGTTAAACATGCCTGGCGC 60.514 57.895 14.98 0.00 38.31 6.53
775 873 1.136565 CCGTTAAACATGCCTGGCG 59.863 57.895 14.98 2.80 0.00 5.69
776 874 1.510844 CCCGTTAAACATGCCTGGC 59.489 57.895 12.87 12.87 0.00 4.85
777 875 1.319614 CCCCCGTTAAACATGCCTGG 61.320 60.000 0.00 0.00 0.00 4.45
778 876 2.188912 CCCCCGTTAAACATGCCTG 58.811 57.895 0.00 0.00 0.00 4.85
779 877 4.755656 CCCCCGTTAAACATGCCT 57.244 55.556 0.00 0.00 0.00 4.75
798 896 3.642778 AATGGGTCGACACGGCTCG 62.643 63.158 18.91 0.00 33.12 5.03
799 897 1.810030 GAATGGGTCGACACGGCTC 60.810 63.158 18.91 7.85 29.99 4.70
800 898 2.264794 GAATGGGTCGACACGGCT 59.735 61.111 18.91 1.28 0.00 5.52
811 909 1.450312 GCAGACCTGACCGAATGGG 60.450 63.158 0.47 0.00 40.75 4.00
812 910 0.460987 GAGCAGACCTGACCGAATGG 60.461 60.000 0.47 0.00 42.84 3.16
813 911 0.460987 GGAGCAGACCTGACCGAATG 60.461 60.000 0.47 0.00 0.00 2.67
814 912 0.616111 AGGAGCAGACCTGACCGAAT 60.616 55.000 0.47 0.00 39.01 3.34
815 913 1.228894 AGGAGCAGACCTGACCGAA 60.229 57.895 0.47 0.00 39.01 4.30
816 914 1.679305 GAGGAGCAGACCTGACCGA 60.679 63.158 0.47 0.00 40.73 4.69
817 915 2.716017 GGAGGAGCAGACCTGACCG 61.716 68.421 0.47 0.00 40.73 4.79
818 916 0.907230 AAGGAGGAGCAGACCTGACC 60.907 60.000 0.47 3.75 40.73 4.02
819 917 0.534873 GAAGGAGGAGCAGACCTGAC 59.465 60.000 0.47 0.00 40.73 3.51
820 918 0.616111 GGAAGGAGGAGCAGACCTGA 60.616 60.000 0.47 0.00 40.73 3.86
821 919 0.617249 AGGAAGGAGGAGCAGACCTG 60.617 60.000 1.98 0.00 40.73 4.00
822 920 0.617249 CAGGAAGGAGGAGCAGACCT 60.617 60.000 0.00 0.00 43.64 3.85
823 921 1.904032 CAGGAAGGAGGAGCAGACC 59.096 63.158 0.00 0.00 0.00 3.85
824 922 1.220477 GCAGGAAGGAGGAGCAGAC 59.780 63.158 0.00 0.00 0.00 3.51
825 923 0.975040 GAGCAGGAAGGAGGAGCAGA 60.975 60.000 0.00 0.00 0.00 4.26
826 924 1.521616 GAGCAGGAAGGAGGAGCAG 59.478 63.158 0.00 0.00 0.00 4.24
827 925 2.354401 CGAGCAGGAAGGAGGAGCA 61.354 63.158 0.00 0.00 0.00 4.26
828 926 2.355193 ACGAGCAGGAAGGAGGAGC 61.355 63.158 0.00 0.00 0.00 4.70
829 927 1.515020 CACGAGCAGGAAGGAGGAG 59.485 63.158 0.00 0.00 0.00 3.69
830 928 2.650116 GCACGAGCAGGAAGGAGGA 61.650 63.158 0.00 0.00 41.58 3.71
831 929 2.125350 GCACGAGCAGGAAGGAGG 60.125 66.667 0.00 0.00 41.58 4.30
832 930 2.507992 CGCACGAGCAGGAAGGAG 60.508 66.667 5.50 0.00 42.27 3.69
833 931 2.989253 TCGCACGAGCAGGAAGGA 60.989 61.111 5.50 0.00 42.27 3.36
834 932 2.811317 GTCGCACGAGCAGGAAGG 60.811 66.667 5.50 0.00 42.27 3.46
835 933 2.811317 GGTCGCACGAGCAGGAAG 60.811 66.667 16.58 0.00 42.27 3.46
836 934 4.373116 GGGTCGCACGAGCAGGAA 62.373 66.667 21.94 0.00 43.66 3.36
855 953 3.952799 AACCAGGGAGGAGGGGCTC 62.953 68.421 0.00 0.00 41.22 4.70
856 954 3.952799 GAACCAGGGAGGAGGGGCT 62.953 68.421 0.00 0.00 41.22 5.19
857 955 3.412408 GAACCAGGGAGGAGGGGC 61.412 72.222 0.00 0.00 41.22 5.80
858 956 3.083997 CGAACCAGGGAGGAGGGG 61.084 72.222 0.00 0.00 41.22 4.79
859 957 2.284699 ACGAACCAGGGAGGAGGG 60.285 66.667 0.00 0.00 41.22 4.30
860 958 1.608717 CTGACGAACCAGGGAGGAGG 61.609 65.000 0.00 0.00 41.22 4.30
861 959 0.900647 ACTGACGAACCAGGGAGGAG 60.901 60.000 0.00 0.00 41.22 3.69
862 960 0.898789 GACTGACGAACCAGGGAGGA 60.899 60.000 0.00 0.00 41.22 3.71
863 961 1.592223 GACTGACGAACCAGGGAGG 59.408 63.158 0.00 0.00 45.67 4.30
864 962 1.185618 TGGACTGACGAACCAGGGAG 61.186 60.000 0.00 0.00 38.44 4.30
865 963 1.152419 TGGACTGACGAACCAGGGA 60.152 57.895 0.00 0.00 38.44 4.20
866 964 1.004918 GTGGACTGACGAACCAGGG 60.005 63.158 0.00 0.00 38.44 4.45
867 965 1.004918 GGTGGACTGACGAACCAGG 60.005 63.158 0.00 0.00 38.44 4.45
868 966 0.038159 GAGGTGGACTGACGAACCAG 60.038 60.000 0.00 0.00 39.93 4.00
869 967 1.469335 GGAGGTGGACTGACGAACCA 61.469 60.000 0.00 0.00 35.01 3.67
870 968 1.292541 GGAGGTGGACTGACGAACC 59.707 63.158 0.00 0.00 0.00 3.62
871 969 1.080705 CGGAGGTGGACTGACGAAC 60.081 63.158 0.00 0.00 0.00 3.95
872 970 2.927580 GCGGAGGTGGACTGACGAA 61.928 63.158 0.00 0.00 0.00 3.85
873 971 3.371063 GCGGAGGTGGACTGACGA 61.371 66.667 0.00 0.00 0.00 4.20
874 972 4.436998 GGCGGAGGTGGACTGACG 62.437 72.222 0.00 0.00 0.00 4.35
875 973 2.997897 AGGCGGAGGTGGACTGAC 60.998 66.667 0.00 0.00 0.00 3.51
876 974 2.680352 GAGGCGGAGGTGGACTGA 60.680 66.667 0.00 0.00 0.00 3.41
877 975 3.775654 GGAGGCGGAGGTGGACTG 61.776 72.222 0.00 0.00 0.00 3.51
885 983 2.844362 TATGGCTGGGAGGCGGAG 60.844 66.667 0.00 0.00 44.78 4.63
886 984 3.161450 GTATGGCTGGGAGGCGGA 61.161 66.667 0.00 0.00 44.78 5.54
887 985 3.466791 CTGTATGGCTGGGAGGCGG 62.467 68.421 0.00 0.00 44.78 6.13
888 986 2.109799 CTGTATGGCTGGGAGGCG 59.890 66.667 0.00 0.00 44.78 5.52
889 987 2.512896 CCTGTATGGCTGGGAGGC 59.487 66.667 0.00 0.00 41.77 4.70
956 1055 1.371337 CGACGGAGATGACCACGGTA 61.371 60.000 0.00 0.00 0.00 4.02
1152 1258 2.103340 GGGCGTTGTTGCGTTTGT 59.897 55.556 0.00 0.00 35.06 2.83
1172 1278 3.390521 CCGTGGTGCTGGAGGCTA 61.391 66.667 0.00 0.00 42.39 3.93
1177 1283 3.625897 CAGGTCCGTGGTGCTGGA 61.626 66.667 0.00 0.00 0.00 3.86
1180 1286 4.626081 GTGCAGGTCCGTGGTGCT 62.626 66.667 2.82 0.00 38.09 4.40
1186 1292 3.991051 CAGTCGGTGCAGGTCCGT 61.991 66.667 13.28 0.00 46.86 4.69
1258 1364 2.046604 GCGGTGGGTGTTAGGGAC 60.047 66.667 0.00 0.00 0.00 4.46
1275 1381 2.490270 CTTGGAGAAGGTGGCCCAGG 62.490 65.000 0.00 0.00 0.00 4.45
1280 1386 2.155279 GAAGTTCTTGGAGAAGGTGGC 58.845 52.381 0.00 0.00 34.42 5.01
1281 1387 2.224305 ACGAAGTTCTTGGAGAAGGTGG 60.224 50.000 0.56 0.00 37.78 4.61
1395 1501 1.358402 CTCGTCCAGGAGCTCGATG 59.642 63.158 7.83 9.06 0.00 3.84
1396 1502 3.834726 CTCGTCCAGGAGCTCGAT 58.165 61.111 7.83 0.00 0.00 3.59
1557 1663 5.324409 TCCAGGCTATATAAAATTGCCCTG 58.676 41.667 6.81 0.00 44.19 4.45
1558 1664 5.517299 CCTCCAGGCTATATAAAATTGCCCT 60.517 44.000 6.81 0.00 44.19 5.19
1632 1738 1.375523 GTACTCCACCAGCCAACCG 60.376 63.158 0.00 0.00 0.00 4.44
1687 1793 4.101790 CACATTGTGCCGCGGGAC 62.102 66.667 39.10 39.10 36.97 4.46
1754 1860 2.225019 CGGCTGAATCTCACATAATGCC 59.775 50.000 0.00 0.00 35.02 4.40
1811 1917 1.404181 CGAAAATCCTCTCGCACTCCA 60.404 52.381 0.00 0.00 0.00 3.86
1869 1975 4.047125 AACCCCACCGGATGCTGG 62.047 66.667 9.46 4.82 35.68 4.85
2008 2114 0.822532 CCAGAATCATGAGCAGCCCC 60.823 60.000 0.09 0.00 0.00 5.80
2068 2174 2.916716 GCACTGCAATTCAAACATACGG 59.083 45.455 0.00 0.00 0.00 4.02
2111 2217 5.305139 TGATCAGCACAGATGACATTTTG 57.695 39.130 0.00 0.00 28.34 2.44
2112 2218 5.970317 TTGATCAGCACAGATGACATTTT 57.030 34.783 0.00 0.00 28.34 1.82
2113 2219 5.242171 TGTTTGATCAGCACAGATGACATTT 59.758 36.000 5.85 0.00 28.34 2.32
2114 2220 4.763279 TGTTTGATCAGCACAGATGACATT 59.237 37.500 5.85 0.00 28.34 2.71
2115 2221 4.329392 TGTTTGATCAGCACAGATGACAT 58.671 39.130 5.85 0.00 28.34 3.06
2116 2222 3.742385 TGTTTGATCAGCACAGATGACA 58.258 40.909 5.85 0.00 28.34 3.58
2161 2306 6.015265 GGAGCCTAGGACTCGATTTACTTAAT 60.015 42.308 14.75 0.00 34.87 1.40
2209 2355 2.158652 AGCTCTCATGATGGGGTCATTG 60.159 50.000 0.00 0.00 45.25 2.82
2665 2827 8.834004 ACAAAATCATACTACCTGAGTACCTA 57.166 34.615 0.00 0.00 43.56 3.08
2774 2936 6.042322 TGTCAACCCTGTTACACAGTATTACT 59.958 38.462 3.30 0.00 44.50 2.24
2775 2937 6.225318 TGTCAACCCTGTTACACAGTATTAC 58.775 40.000 3.30 0.00 44.50 1.89
2776 2938 6.422344 TGTCAACCCTGTTACACAGTATTA 57.578 37.500 3.30 0.00 44.50 0.98
2777 2939 5.298989 TGTCAACCCTGTTACACAGTATT 57.701 39.130 3.30 0.00 44.50 1.89
2778 2940 4.967084 TGTCAACCCTGTTACACAGTAT 57.033 40.909 3.30 0.00 44.50 2.12
2779 2941 4.967084 ATGTCAACCCTGTTACACAGTA 57.033 40.909 3.30 0.00 44.50 2.74
2780 2942 3.857157 ATGTCAACCCTGTTACACAGT 57.143 42.857 3.30 0.00 44.50 3.55
2781 2943 4.389374 AGAATGTCAACCCTGTTACACAG 58.611 43.478 0.00 0.00 45.53 3.66
2782 2944 4.102524 AGAGAATGTCAACCCTGTTACACA 59.897 41.667 0.00 0.00 0.00 3.72
2783 2945 4.642429 AGAGAATGTCAACCCTGTTACAC 58.358 43.478 0.00 0.00 0.00 2.90
2784 2946 4.262894 GGAGAGAATGTCAACCCTGTTACA 60.263 45.833 0.00 0.00 0.00 2.41
2785 2947 4.254492 GGAGAGAATGTCAACCCTGTTAC 58.746 47.826 0.00 0.00 0.00 2.50
2786 2948 3.907474 TGGAGAGAATGTCAACCCTGTTA 59.093 43.478 0.00 0.00 0.00 2.41
2787 2949 2.711009 TGGAGAGAATGTCAACCCTGTT 59.289 45.455 0.00 0.00 0.00 3.16
2788 2950 2.039084 GTGGAGAGAATGTCAACCCTGT 59.961 50.000 0.00 0.00 0.00 4.00
2789 2951 2.616510 GGTGGAGAGAATGTCAACCCTG 60.617 54.545 0.00 0.00 0.00 4.45
2790 2952 1.630878 GGTGGAGAGAATGTCAACCCT 59.369 52.381 0.00 0.00 0.00 4.34
2791 2953 1.630878 AGGTGGAGAGAATGTCAACCC 59.369 52.381 0.00 0.00 0.00 4.11
2792 2954 4.553330 TTAGGTGGAGAGAATGTCAACC 57.447 45.455 0.00 0.00 0.00 3.77
2793 2955 5.352569 CACATTAGGTGGAGAGAATGTCAAC 59.647 44.000 0.00 0.00 44.04 3.18
2794 2956 5.491070 CACATTAGGTGGAGAGAATGTCAA 58.509 41.667 0.00 0.00 44.04 3.18
2795 2957 5.089970 CACATTAGGTGGAGAGAATGTCA 57.910 43.478 0.00 0.00 44.04 3.58
2815 2977 6.041523 AGAGAAAGAGTTAGGATCCATAGCAC 59.958 42.308 15.82 2.66 0.00 4.40
2905 3067 8.834465 CAAAATAACCAAGAGTCATATCTCCTG 58.166 37.037 0.00 0.00 35.28 3.86
2936 3098 1.422161 AACCAGAGGCCAGCTTCTGT 61.422 55.000 24.67 13.50 45.15 3.41
2939 3101 0.905357 TAGAACCAGAGGCCAGCTTC 59.095 55.000 5.01 0.00 0.00 3.86
2946 3108 1.751924 ACGACAGATAGAACCAGAGGC 59.248 52.381 0.00 0.00 0.00 4.70


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

AutoCloner maintained by Alex Coulton.