Multiple sequence alignment - TraesCS7A01G273000

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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 TraesCS7A01G273000 chr7A 100.000 2953 0 0 1 2953 286820273 286817321 0.000000e+00 5454.0
1 TraesCS7A01G273000 chr7A 100.000 30 0 0 1110 1139 712769677 712769706 4.110000e-04 56.5
2 TraesCS7A01G273000 chr7D 92.106 2179 111 21 800 2953 263833328 263831186 0.000000e+00 3014.0
3 TraesCS7A01G273000 chr7D 94.778 632 27 4 13 642 263833931 263833304 0.000000e+00 979.0
4 TraesCS7A01G273000 chr7D 100.000 30 0 0 1110 1139 619041042 619041071 4.110000e-04 56.5
5 TraesCS7A01G273000 chr7B 93.591 1498 64 11 812 2305 243870603 243869134 0.000000e+00 2206.0
6 TraesCS7A01G273000 chr7B 93.800 629 36 3 1 627 243871227 243870600 0.000000e+00 942.0
7 TraesCS7A01G273000 chr7B 91.351 185 14 2 632 814 218546081 218546265 4.890000e-63 252.0
8 TraesCS7A01G273000 chr7B 89.583 192 20 0 632 823 716683388 716683197 8.180000e-61 244.0
9 TraesCS7A01G273000 chr7B 100.000 30 0 0 1110 1139 713662257 713662286 4.110000e-04 56.5
10 TraesCS7A01G273000 chr3B 91.837 196 11 5 632 824 787483532 787483725 4.850000e-68 268.0
11 TraesCS7A01G273000 chr2D 92.655 177 13 0 643 819 100784946 100784770 3.780000e-64 255.0
12 TraesCS7A01G273000 chr5D 93.064 173 11 1 643 814 440650136 440649964 4.890000e-63 252.0
13 TraesCS7A01G273000 chr5D 97.143 35 1 0 1110 1144 432533141 432533107 3.180000e-05 60.2
14 TraesCS7A01G273000 chr1D 88.557 201 22 1 633 832 434389700 434389900 2.940000e-60 243.0
15 TraesCS7A01G273000 chr1D 91.011 178 16 0 643 820 297155976 297155799 1.060000e-59 241.0
16 TraesCS7A01G273000 chr5B 88.832 197 19 3 622 817 346616146 346616340 3.800000e-59 239.0
17 TraesCS7A01G273000 chr5B 90.857 175 16 0 643 817 363665473 363665299 4.920000e-58 235.0
18 TraesCS7A01G273000 chr6A 95.455 44 2 0 2342 2385 503528539 503528582 1.470000e-08 71.3
19 TraesCS7A01G273000 chr6B 97.059 34 1 0 2346 2379 227711836 227711869 1.140000e-04 58.4


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 TraesCS7A01G273000 chr7A 286817321 286820273 2952 True 5454.0 5454 100.0000 1 2953 1 chr7A.!!$R1 2952
1 TraesCS7A01G273000 chr7D 263831186 263833931 2745 True 1996.5 3014 93.4420 13 2953 2 chr7D.!!$R1 2940
2 TraesCS7A01G273000 chr7B 243869134 243871227 2093 True 1574.0 2206 93.6955 1 2305 2 chr7B.!!$R2 2304

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
978 986 0.249489 ACCCGATTGATCAGTAGCGC 60.249 55.0 0.0 0.0 0.0 5.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2502 2520 0.036765 TTAGGCTTTCGGCGATGTGT 60.037 50.0 11.76 0.0 42.94 3.72 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
91 93 1.827969 CACATTTCTCCGTCCCTCTCT 59.172 52.381 0.00 0.00 0.00 3.10
208 210 1.065854 AGTCTGGGAATTCGCTTGGAG 60.066 52.381 21.56 11.64 0.00 3.86
279 281 2.514824 GGAGCGGGTGAAGGCATC 60.515 66.667 0.00 0.00 0.00 3.91
347 349 7.307751 CGGTCCGTTAGCATTTATGTATGATTT 60.308 37.037 2.08 0.00 0.00 2.17
376 378 1.136110 CCCGCCTCTCTCTTTTCTCTC 59.864 57.143 0.00 0.00 0.00 3.20
379 381 1.136110 GCCTCTCTCTTTTCTCTCCGG 59.864 57.143 0.00 0.00 0.00 5.14
430 432 4.514577 AGCTACTTCGCGCGCCAT 62.515 61.111 27.95 14.90 34.40 4.40
534 536 2.668550 GCACCCAACACGTCCTCC 60.669 66.667 0.00 0.00 0.00 4.30
626 629 4.045104 GCGTACGAGTAGTGCTAGTAGTA 58.955 47.826 21.65 3.86 36.27 1.82
627 630 4.148000 GCGTACGAGTAGTGCTAGTAGTAG 59.852 50.000 21.65 0.00 36.27 2.57
628 631 5.277825 CGTACGAGTAGTGCTAGTAGTAGT 58.722 45.833 10.44 2.92 36.27 2.73
629 632 6.431278 CGTACGAGTAGTGCTAGTAGTAGTA 58.569 44.000 10.44 0.00 36.27 1.82
630 633 6.358558 CGTACGAGTAGTGCTAGTAGTAGTAC 59.641 46.154 19.97 19.97 41.04 2.73
632 635 7.575414 ACGAGTAGTGCTAGTAGTAGTACTA 57.425 40.000 26.46 23.89 46.86 1.82
650 653 9.541143 GTAGTACTATATAAGATCGGGAGTACC 57.459 40.741 5.75 0.00 38.92 3.34
651 654 8.391305 AGTACTATATAAGATCGGGAGTACCT 57.609 38.462 0.00 5.49 38.92 3.08
652 655 9.499369 AGTACTATATAAGATCGGGAGTACCTA 57.501 37.037 0.00 0.00 38.92 3.08
653 656 9.541143 GTACTATATAAGATCGGGAGTACCTAC 57.459 40.741 0.00 0.00 34.38 3.18
654 657 8.155620 ACTATATAAGATCGGGAGTACCTACA 57.844 38.462 0.00 0.00 36.97 2.74
655 658 8.609483 ACTATATAAGATCGGGAGTACCTACAA 58.391 37.037 0.00 0.00 36.97 2.41
656 659 7.700022 ATATAAGATCGGGAGTACCTACAAC 57.300 40.000 0.00 0.00 36.97 3.32
657 660 3.666345 AGATCGGGAGTACCTACAACT 57.334 47.619 0.00 0.00 36.97 3.16
658 661 3.553904 AGATCGGGAGTACCTACAACTC 58.446 50.000 0.00 0.00 42.19 3.01
659 662 2.885135 TCGGGAGTACCTACAACTCA 57.115 50.000 5.67 0.00 44.25 3.41
660 663 3.377253 TCGGGAGTACCTACAACTCAT 57.623 47.619 5.67 0.00 44.25 2.90
661 664 3.285484 TCGGGAGTACCTACAACTCATC 58.715 50.000 5.67 0.00 44.25 2.92
662 665 3.053842 TCGGGAGTACCTACAACTCATCT 60.054 47.826 5.67 0.00 44.25 2.90
663 666 4.164796 TCGGGAGTACCTACAACTCATCTA 59.835 45.833 5.67 0.00 44.25 1.98
664 667 4.515944 CGGGAGTACCTACAACTCATCTAG 59.484 50.000 5.67 0.00 44.25 2.43
665 668 5.686913 CGGGAGTACCTACAACTCATCTAGA 60.687 48.000 0.00 0.00 44.25 2.43
666 669 6.308566 GGGAGTACCTACAACTCATCTAGAT 58.691 44.000 0.00 0.00 44.25 1.98
667 670 6.207810 GGGAGTACCTACAACTCATCTAGATG 59.792 46.154 24.32 24.32 44.25 2.90
668 671 6.999272 GGAGTACCTACAACTCATCTAGATGA 59.001 42.308 29.17 29.17 44.25 2.92
719 722 8.919145 AGAAAATAAAAACAGATACAACCCACA 58.081 29.630 0.00 0.00 0.00 4.17
720 723 9.705290 GAAAATAAAAACAGATACAACCCACAT 57.295 29.630 0.00 0.00 0.00 3.21
724 727 5.897377 AAACAGATACAACCCACATTAGC 57.103 39.130 0.00 0.00 0.00 3.09
725 728 4.568072 ACAGATACAACCCACATTAGCA 57.432 40.909 0.00 0.00 0.00 3.49
726 729 4.261801 ACAGATACAACCCACATTAGCAC 58.738 43.478 0.00 0.00 0.00 4.40
727 730 4.260985 CAGATACAACCCACATTAGCACA 58.739 43.478 0.00 0.00 0.00 4.57
728 731 4.094887 CAGATACAACCCACATTAGCACAC 59.905 45.833 0.00 0.00 0.00 3.82
729 732 2.356665 ACAACCCACATTAGCACACA 57.643 45.000 0.00 0.00 0.00 3.72
730 733 1.953686 ACAACCCACATTAGCACACAC 59.046 47.619 0.00 0.00 0.00 3.82
731 734 1.069296 CAACCCACATTAGCACACACG 60.069 52.381 0.00 0.00 0.00 4.49
732 735 1.234615 ACCCACATTAGCACACACGC 61.235 55.000 0.00 0.00 0.00 5.34
733 736 1.233950 CCCACATTAGCACACACGCA 61.234 55.000 0.00 0.00 0.00 5.24
734 737 0.804364 CCACATTAGCACACACGCAT 59.196 50.000 0.00 0.00 0.00 4.73
735 738 1.202065 CCACATTAGCACACACGCATC 60.202 52.381 0.00 0.00 0.00 3.91
736 739 1.733912 CACATTAGCACACACGCATCT 59.266 47.619 0.00 0.00 0.00 2.90
737 740 2.160219 CACATTAGCACACACGCATCTT 59.840 45.455 0.00 0.00 0.00 2.40
738 741 3.370672 CACATTAGCACACACGCATCTTA 59.629 43.478 0.00 0.00 0.00 2.10
739 742 4.034394 CACATTAGCACACACGCATCTTAT 59.966 41.667 0.00 0.00 0.00 1.73
740 743 5.234116 CACATTAGCACACACGCATCTTATA 59.766 40.000 0.00 0.00 0.00 0.98
741 744 5.463392 ACATTAGCACACACGCATCTTATAG 59.537 40.000 0.00 0.00 0.00 1.31
742 745 2.205074 AGCACACACGCATCTTATAGC 58.795 47.619 0.00 0.00 0.00 2.97
743 746 1.933181 GCACACACGCATCTTATAGCA 59.067 47.619 0.00 0.00 0.00 3.49
744 747 2.545526 GCACACACGCATCTTATAGCAT 59.454 45.455 0.00 0.00 0.00 3.79
745 748 3.363378 GCACACACGCATCTTATAGCATC 60.363 47.826 0.00 0.00 0.00 3.91
746 749 3.803778 CACACACGCATCTTATAGCATCA 59.196 43.478 0.00 0.00 0.00 3.07
747 750 3.804325 ACACACGCATCTTATAGCATCAC 59.196 43.478 0.00 0.00 0.00 3.06
748 751 3.803778 CACACGCATCTTATAGCATCACA 59.196 43.478 0.00 0.00 0.00 3.58
749 752 4.450080 CACACGCATCTTATAGCATCACAT 59.550 41.667 0.00 0.00 0.00 3.21
750 753 4.687948 ACACGCATCTTATAGCATCACATC 59.312 41.667 0.00 0.00 0.00 3.06
751 754 4.928020 CACGCATCTTATAGCATCACATCT 59.072 41.667 0.00 0.00 0.00 2.90
752 755 6.095377 CACGCATCTTATAGCATCACATCTA 58.905 40.000 0.00 0.00 0.00 1.98
753 756 6.587608 CACGCATCTTATAGCATCACATCTAA 59.412 38.462 0.00 0.00 0.00 2.10
754 757 7.277319 CACGCATCTTATAGCATCACATCTAAT 59.723 37.037 0.00 0.00 0.00 1.73
755 758 7.277319 ACGCATCTTATAGCATCACATCTAATG 59.723 37.037 0.00 0.00 0.00 1.90
756 759 7.254353 CGCATCTTATAGCATCACATCTAATGG 60.254 40.741 0.00 0.00 33.60 3.16
757 760 7.466996 GCATCTTATAGCATCACATCTAATGGC 60.467 40.741 0.00 0.00 33.60 4.40
758 761 7.250032 TCTTATAGCATCACATCTAATGGCT 57.750 36.000 0.00 0.00 33.60 4.75
759 762 8.366359 TCTTATAGCATCACATCTAATGGCTA 57.634 34.615 0.00 0.00 33.60 3.93
760 763 8.985922 TCTTATAGCATCACATCTAATGGCTAT 58.014 33.333 0.00 0.00 32.32 2.97
764 767 9.964354 ATAGCATCACATCTAATGGCTATAAAA 57.036 29.630 0.00 0.00 33.60 1.52
765 768 8.332996 AGCATCACATCTAATGGCTATAAAAG 57.667 34.615 0.00 0.00 33.60 2.27
766 769 8.159447 AGCATCACATCTAATGGCTATAAAAGA 58.841 33.333 0.00 0.00 33.60 2.52
767 770 8.954350 GCATCACATCTAATGGCTATAAAAGAT 58.046 33.333 0.00 0.00 33.60 2.40
777 780 6.959639 TGGCTATAAAAGATGAATGGAACC 57.040 37.500 0.00 0.00 0.00 3.62
778 781 6.430864 TGGCTATAAAAGATGAATGGAACCA 58.569 36.000 0.00 0.00 0.00 3.67
779 782 6.894654 TGGCTATAAAAGATGAATGGAACCAA 59.105 34.615 0.00 0.00 0.00 3.67
780 783 7.398618 TGGCTATAAAAGATGAATGGAACCAAA 59.601 33.333 0.00 0.00 0.00 3.28
781 784 8.424133 GGCTATAAAAGATGAATGGAACCAAAT 58.576 33.333 0.00 0.00 0.00 2.32
782 785 9.822185 GCTATAAAAGATGAATGGAACCAAATT 57.178 29.630 0.00 0.00 0.00 1.82
787 790 9.657419 AAAAGATGAATGGAACCAAATTATGTC 57.343 29.630 0.00 0.00 0.00 3.06
788 791 8.599624 AAGATGAATGGAACCAAATTATGTCT 57.400 30.769 0.00 0.00 0.00 3.41
789 792 8.230472 AGATGAATGGAACCAAATTATGTCTC 57.770 34.615 0.00 0.00 0.00 3.36
790 793 7.835682 AGATGAATGGAACCAAATTATGTCTCA 59.164 33.333 0.00 0.00 0.00 3.27
791 794 7.959658 TGAATGGAACCAAATTATGTCTCAT 57.040 32.000 0.00 0.00 0.00 2.90
792 795 7.999679 TGAATGGAACCAAATTATGTCTCATC 58.000 34.615 0.00 0.00 0.00 2.92
793 796 7.835682 TGAATGGAACCAAATTATGTCTCATCT 59.164 33.333 0.00 0.00 0.00 2.90
794 797 9.342308 GAATGGAACCAAATTATGTCTCATCTA 57.658 33.333 0.00 0.00 0.00 1.98
795 798 8.915057 ATGGAACCAAATTATGTCTCATCTAG 57.085 34.615 0.00 0.00 0.00 2.43
796 799 8.089625 TGGAACCAAATTATGTCTCATCTAGA 57.910 34.615 0.00 0.00 0.00 2.43
797 800 8.717717 TGGAACCAAATTATGTCTCATCTAGAT 58.282 33.333 0.00 0.00 36.36 1.98
798 801 8.997323 GGAACCAAATTATGTCTCATCTAGATG 58.003 37.037 24.32 24.32 36.36 2.90
799 802 9.770097 GAACCAAATTATGTCTCATCTAGATGA 57.230 33.333 29.17 29.17 44.83 2.92
884 892 3.313526 CCAACATAAGCCTTCCTCATTCG 59.686 47.826 0.00 0.00 0.00 3.34
919 927 3.625853 AGAACTCTGATCATCGACCAGA 58.374 45.455 0.00 0.00 35.81 3.86
921 929 3.791973 ACTCTGATCATCGACCAGAAC 57.208 47.619 0.00 0.00 36.61 3.01
923 931 2.428530 CTCTGATCATCGACCAGAACCA 59.571 50.000 0.00 1.92 36.61 3.67
924 932 2.831526 TCTGATCATCGACCAGAACCAA 59.168 45.455 0.00 0.00 34.38 3.67
925 933 3.452264 TCTGATCATCGACCAGAACCAAT 59.548 43.478 0.00 0.00 34.38 3.16
927 935 4.693283 TGATCATCGACCAGAACCAATAC 58.307 43.478 0.00 0.00 0.00 1.89
935 943 3.769844 GACCAGAACCAATACTCTCCTCA 59.230 47.826 0.00 0.00 0.00 3.86
944 952 6.825610 ACCAATACTCTCCTCATCTGATTTC 58.174 40.000 0.00 0.00 0.00 2.17
945 953 6.385176 ACCAATACTCTCCTCATCTGATTTCA 59.615 38.462 0.00 0.00 0.00 2.69
947 955 7.937942 CCAATACTCTCCTCATCTGATTTCATT 59.062 37.037 0.00 0.00 0.00 2.57
948 956 9.339850 CAATACTCTCCTCATCTGATTTCATTT 57.660 33.333 0.00 0.00 0.00 2.32
949 957 8.905660 ATACTCTCCTCATCTGATTTCATTTG 57.094 34.615 0.00 0.00 0.00 2.32
950 958 6.719301 ACTCTCCTCATCTGATTTCATTTGT 58.281 36.000 0.00 0.00 0.00 2.83
951 959 7.173722 ACTCTCCTCATCTGATTTCATTTGTT 58.826 34.615 0.00 0.00 0.00 2.83
952 960 7.120873 ACTCTCCTCATCTGATTTCATTTGTTG 59.879 37.037 0.00 0.00 0.00 3.33
957 965 4.159377 TCTGATTTCATTTGTTGTCCGC 57.841 40.909 0.00 0.00 0.00 5.54
966 974 2.359478 GTTGTCCGCCACCCGATT 60.359 61.111 0.00 0.00 40.02 3.34
971 979 2.189257 CCGCCACCCGATTGATCA 59.811 61.111 0.00 0.00 40.02 2.92
973 981 1.153369 CGCCACCCGATTGATCAGT 60.153 57.895 0.00 0.00 40.02 3.41
975 983 1.869754 CGCCACCCGATTGATCAGTAG 60.870 57.143 0.00 0.00 40.02 2.57
976 984 1.871080 CCACCCGATTGATCAGTAGC 58.129 55.000 0.00 0.00 0.00 3.58
977 985 1.491670 CACCCGATTGATCAGTAGCG 58.508 55.000 0.00 0.00 0.00 4.26
978 986 0.249489 ACCCGATTGATCAGTAGCGC 60.249 55.000 0.00 0.00 0.00 5.92
1038 1046 2.100031 CGCCGACACAGCAGCATTA 61.100 57.895 0.00 0.00 0.00 1.90
1185 1193 7.382110 TGTTTCTTCTTGTTTTCATTTCACCA 58.618 30.769 0.00 0.00 0.00 4.17
1461 1472 2.671396 GACTACACATACCAAACCTGCG 59.329 50.000 0.00 0.00 0.00 5.18
1467 1478 0.881118 ATACCAAACCTGCGCAACTG 59.119 50.000 13.05 5.54 0.00 3.16
1476 1487 1.949015 CTGCGCAACTGACTAGTGCG 61.949 60.000 13.05 17.51 46.91 5.34
1962 1980 2.831742 CCGTCTAGGCCTGGCGTA 60.832 66.667 17.99 19.01 0.00 4.42
2106 2124 8.915871 TTTGTTATACGTAGTTAGCTAGTTGG 57.084 34.615 0.08 0.00 37.78 3.77
2107 2125 7.031226 TGTTATACGTAGTTAGCTAGTTGGG 57.969 40.000 0.08 0.00 37.78 4.12
2108 2126 6.603201 TGTTATACGTAGTTAGCTAGTTGGGT 59.397 38.462 0.08 0.00 37.78 4.51
2109 2127 7.122650 TGTTATACGTAGTTAGCTAGTTGGGTT 59.877 37.037 0.08 0.00 37.78 4.11
2111 2129 3.828451 ACGTAGTTAGCTAGTTGGGTTGA 59.172 43.478 0.00 0.00 37.78 3.18
2112 2130 4.281688 ACGTAGTTAGCTAGTTGGGTTGAA 59.718 41.667 0.00 0.00 37.78 2.69
2113 2131 4.863131 CGTAGTTAGCTAGTTGGGTTGAAG 59.137 45.833 0.00 0.00 0.00 3.02
2114 2132 4.287766 AGTTAGCTAGTTGGGTTGAAGG 57.712 45.455 0.00 0.00 0.00 3.46
2115 2133 2.747989 GTTAGCTAGTTGGGTTGAAGGC 59.252 50.000 0.00 0.00 0.00 4.35
2220 2238 0.179084 ATTGCTATACCACACGCGCT 60.179 50.000 5.73 0.00 0.00 5.92
2236 2254 1.939934 GCGCTGCTGGTTGTGAATATA 59.060 47.619 0.00 0.00 0.00 0.86
2298 2316 6.455360 TTGTCATTTCTTGTTGCTTCTTCT 57.545 33.333 0.00 0.00 0.00 2.85
2299 2317 6.455360 TGTCATTTCTTGTTGCTTCTTCTT 57.545 33.333 0.00 0.00 0.00 2.52
2300 2318 6.498304 TGTCATTTCTTGTTGCTTCTTCTTC 58.502 36.000 0.00 0.00 0.00 2.87
2310 2328 4.637483 TGCTTCTTCTTCCAAACTTGTG 57.363 40.909 0.00 0.00 0.00 3.33
2360 2378 4.379374 AAAAACGCTCGTACATACACAC 57.621 40.909 0.00 0.00 0.00 3.82
2372 2390 7.466805 TCGTACATACACACATACACTTACTC 58.533 38.462 0.00 0.00 0.00 2.59
2384 2402 7.275779 CACATACACTTACTCCTATGAACACAC 59.724 40.741 0.00 0.00 0.00 3.82
2386 2404 6.360370 ACACTTACTCCTATGAACACACAT 57.640 37.500 0.00 0.00 0.00 3.21
2390 2408 4.226427 ACTCCTATGAACACACATGCAT 57.774 40.909 0.00 0.00 0.00 3.96
2393 2411 6.359804 ACTCCTATGAACACACATGCATATT 58.640 36.000 0.00 0.00 0.00 1.28
2409 2427 3.306364 GCATATTCTGTCCCTACGAGCAT 60.306 47.826 0.00 0.00 0.00 3.79
2426 2444 1.605202 GCATCTCCGAGAGATTGAGCC 60.605 57.143 12.13 0.00 45.86 4.70
2434 2452 2.736719 CGAGAGATTGAGCCGACACATT 60.737 50.000 0.00 0.00 0.00 2.71
2438 2456 5.053145 AGAGATTGAGCCGACACATTATTC 58.947 41.667 0.00 0.00 0.00 1.75
2445 2463 4.626042 AGCCGACACATTATTCTGAGATC 58.374 43.478 0.00 0.00 0.00 2.75
2448 2466 4.677378 CCGACACATTATTCTGAGATCGAC 59.323 45.833 0.01 0.00 0.00 4.20
2469 2487 0.249398 AAGTCGCCATAGACGCCTTT 59.751 50.000 0.00 0.00 45.26 3.11
2470 2488 1.108776 AGTCGCCATAGACGCCTTTA 58.891 50.000 0.00 0.00 45.26 1.85
2479 2497 5.629097 CCATAGACGCCTTTATAGTCTACG 58.371 45.833 6.69 0.00 46.27 3.51
2480 2498 5.391736 CCATAGACGCCTTTATAGTCTACGG 60.392 48.000 6.69 4.89 46.27 4.02
2502 2520 3.404899 GAACGTTCCATCCCACTAAACA 58.595 45.455 17.68 0.00 0.00 2.83
2507 2525 4.079253 GTTCCATCCCACTAAACACACAT 58.921 43.478 0.00 0.00 0.00 3.21
2513 2531 1.424403 CACTAAACACACATCGCCGA 58.576 50.000 0.00 0.00 0.00 5.54
2530 2548 6.051646 TCGCCGAAAGCCTAAAATAAATAC 57.948 37.500 0.00 0.00 38.78 1.89
2545 2563 7.975866 AAATAAATACAAGAAATGCGAGCAG 57.024 32.000 3.58 0.00 0.00 4.24
2555 2573 4.455533 AGAAATGCGAGCAGTAATGTCAAA 59.544 37.500 3.58 0.00 0.00 2.69
2589 2607 2.622942 GGCATGAATTATGGAGGCGAAA 59.377 45.455 0.00 0.00 37.26 3.46
2590 2608 3.068024 GGCATGAATTATGGAGGCGAAAA 59.932 43.478 0.00 0.00 37.26 2.29
2591 2609 4.441356 GGCATGAATTATGGAGGCGAAAAA 60.441 41.667 0.00 0.00 37.26 1.94
2611 2629 6.687081 AAAAAGAACACGTAGACATGGAAA 57.313 33.333 0.00 0.00 0.00 3.13
2620 2638 3.557595 CGTAGACATGGAAAGATTGAGGC 59.442 47.826 0.00 0.00 0.00 4.70
2678 2707 2.567169 TCACATCGGTCATCCTTTGTCT 59.433 45.455 0.00 0.00 0.00 3.41
2682 2711 1.275291 TCGGTCATCCTTTGTCTCCAC 59.725 52.381 0.00 0.00 0.00 4.02
2690 2719 1.597663 CCTTTGTCTCCACGTGTTCAC 59.402 52.381 15.65 7.86 0.00 3.18
2691 2720 2.550978 CTTTGTCTCCACGTGTTCACT 58.449 47.619 15.65 0.00 0.00 3.41
2701 2730 4.698304 TCCACGTGTTCACTCTTTTTCTTT 59.302 37.500 15.65 0.00 0.00 2.52
2713 2742 5.899547 ACTCTTTTTCTTTTTCTCCCCATGT 59.100 36.000 0.00 0.00 0.00 3.21
2738 2767 4.421574 TCCTCTCCCTCCTTACTTTCTT 57.578 45.455 0.00 0.00 0.00 2.52
2767 2796 3.764237 TCTACGAAAGAACAGGCCTTT 57.236 42.857 0.00 0.20 36.63 3.11
2768 2797 3.660865 TCTACGAAAGAACAGGCCTTTC 58.339 45.455 0.00 11.03 43.53 2.62
2796 2825 3.549900 TTCACCTGGCGCATGCAGA 62.550 57.895 19.57 0.00 45.35 4.26
2819 2848 1.067776 GCGGTTCTACTAGCACAGTGT 60.068 52.381 1.61 0.00 38.24 3.55
2862 2891 1.626069 GGGGTAGTAGGTTTGGGGCTA 60.626 57.143 0.00 0.00 0.00 3.93
2866 2895 1.596496 AGTAGGTTTGGGGCTATGCT 58.404 50.000 0.00 0.00 0.00 3.79
2950 2979 9.788960 CAACTTTATTCAAGGATTTAGGTTAGC 57.211 33.333 0.00 0.00 36.72 3.09
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 0.177141 CGGAGCCCACTTTCGGAATA 59.823 55.000 0.00 0.00 0.00 1.75
24 25 1.078426 CGGAGCCCACTTTCGGAAT 60.078 57.895 0.00 0.00 0.00 3.01
64 66 2.227194 GACGGAGAAATGTGGGTTTGT 58.773 47.619 0.00 0.00 0.00 2.83
73 75 2.419297 CCAAGAGAGGGACGGAGAAATG 60.419 54.545 0.00 0.00 0.00 2.32
91 93 0.472471 AGAGGCGACAAAAGGACCAA 59.528 50.000 0.00 0.00 0.00 3.67
170 172 2.167487 GACTTCTCCTCACTCCATGACC 59.833 54.545 0.00 0.00 32.37 4.02
347 349 0.836400 AGAGAGGCGGGAAACAAGGA 60.836 55.000 0.00 0.00 0.00 3.36
430 432 1.190643 TATGCGTCAGACATCCCACA 58.809 50.000 0.41 0.00 0.00 4.17
489 491 2.433838 CCAGCTCACCGTCTGCAG 60.434 66.667 7.63 7.63 0.00 4.41
490 492 4.687215 GCCAGCTCACCGTCTGCA 62.687 66.667 0.00 0.00 0.00 4.41
534 536 2.972713 TGGATTAGCTAGCTAACTGGGG 59.027 50.000 33.80 0.00 40.76 4.96
626 629 8.391305 AGGTACTCCCGATCTTATATAGTACT 57.609 38.462 0.00 0.00 38.44 2.73
627 630 9.541143 GTAGGTACTCCCGATCTTATATAGTAC 57.459 40.741 0.00 0.00 41.75 2.73
628 631 9.271921 TGTAGGTACTCCCGATCTTATATAGTA 57.728 37.037 0.00 0.00 41.75 1.82
629 632 8.155620 TGTAGGTACTCCCGATCTTATATAGT 57.844 38.462 0.00 0.00 41.75 2.12
630 633 8.891720 GTTGTAGGTACTCCCGATCTTATATAG 58.108 40.741 0.00 0.00 41.75 1.31
631 634 8.609483 AGTTGTAGGTACTCCCGATCTTATATA 58.391 37.037 0.00 0.00 41.75 0.86
632 635 7.468496 AGTTGTAGGTACTCCCGATCTTATAT 58.532 38.462 0.00 0.00 41.75 0.86
633 636 6.845908 AGTTGTAGGTACTCCCGATCTTATA 58.154 40.000 0.00 0.00 41.75 0.98
634 637 5.703310 AGTTGTAGGTACTCCCGATCTTAT 58.297 41.667 0.00 0.00 41.75 1.73
635 638 5.121380 AGTTGTAGGTACTCCCGATCTTA 57.879 43.478 0.00 0.00 41.75 2.10
636 639 3.952967 GAGTTGTAGGTACTCCCGATCTT 59.047 47.826 0.00 0.00 41.75 2.40
637 640 3.053842 TGAGTTGTAGGTACTCCCGATCT 60.054 47.826 0.00 0.00 41.02 2.75
638 641 3.285484 TGAGTTGTAGGTACTCCCGATC 58.715 50.000 0.00 0.00 41.02 3.69
639 642 3.377253 TGAGTTGTAGGTACTCCCGAT 57.623 47.619 0.00 0.00 41.02 4.18
640 643 2.885135 TGAGTTGTAGGTACTCCCGA 57.115 50.000 0.00 0.00 41.02 5.14
641 644 3.288964 AGATGAGTTGTAGGTACTCCCG 58.711 50.000 0.00 0.00 41.02 5.14
642 645 5.692928 TCTAGATGAGTTGTAGGTACTCCC 58.307 45.833 0.00 0.00 41.02 4.30
643 646 6.999272 TCATCTAGATGAGTTGTAGGTACTCC 59.001 42.308 27.93 0.00 42.42 3.85
693 696 8.919145 TGTGGGTTGTATCTGTTTTTATTTTCT 58.081 29.630 0.00 0.00 0.00 2.52
694 697 9.705290 ATGTGGGTTGTATCTGTTTTTATTTTC 57.295 29.630 0.00 0.00 0.00 2.29
698 701 8.466798 GCTAATGTGGGTTGTATCTGTTTTTAT 58.533 33.333 0.00 0.00 0.00 1.40
699 702 7.448777 TGCTAATGTGGGTTGTATCTGTTTTTA 59.551 33.333 0.00 0.00 0.00 1.52
700 703 6.266558 TGCTAATGTGGGTTGTATCTGTTTTT 59.733 34.615 0.00 0.00 0.00 1.94
701 704 5.772672 TGCTAATGTGGGTTGTATCTGTTTT 59.227 36.000 0.00 0.00 0.00 2.43
702 705 5.183140 GTGCTAATGTGGGTTGTATCTGTTT 59.817 40.000 0.00 0.00 0.00 2.83
703 706 4.700213 GTGCTAATGTGGGTTGTATCTGTT 59.300 41.667 0.00 0.00 0.00 3.16
704 707 4.261801 GTGCTAATGTGGGTTGTATCTGT 58.738 43.478 0.00 0.00 0.00 3.41
705 708 4.094887 GTGTGCTAATGTGGGTTGTATCTG 59.905 45.833 0.00 0.00 0.00 2.90
706 709 4.261801 GTGTGCTAATGTGGGTTGTATCT 58.738 43.478 0.00 0.00 0.00 1.98
707 710 4.006989 TGTGTGCTAATGTGGGTTGTATC 58.993 43.478 0.00 0.00 0.00 2.24
708 711 3.756434 GTGTGTGCTAATGTGGGTTGTAT 59.244 43.478 0.00 0.00 0.00 2.29
709 712 3.142951 GTGTGTGCTAATGTGGGTTGTA 58.857 45.455 0.00 0.00 0.00 2.41
710 713 1.953686 GTGTGTGCTAATGTGGGTTGT 59.046 47.619 0.00 0.00 0.00 3.32
711 714 1.069296 CGTGTGTGCTAATGTGGGTTG 60.069 52.381 0.00 0.00 0.00 3.77
712 715 1.234821 CGTGTGTGCTAATGTGGGTT 58.765 50.000 0.00 0.00 0.00 4.11
713 716 1.234615 GCGTGTGTGCTAATGTGGGT 61.235 55.000 0.00 0.00 0.00 4.51
714 717 1.233950 TGCGTGTGTGCTAATGTGGG 61.234 55.000 0.00 0.00 35.36 4.61
715 718 0.804364 ATGCGTGTGTGCTAATGTGG 59.196 50.000 0.00 0.00 35.36 4.17
716 719 1.733912 AGATGCGTGTGTGCTAATGTG 59.266 47.619 0.00 0.00 35.36 3.21
717 720 2.099141 AGATGCGTGTGTGCTAATGT 57.901 45.000 0.00 0.00 35.36 2.71
718 721 4.801147 ATAAGATGCGTGTGTGCTAATG 57.199 40.909 0.00 0.00 35.36 1.90
719 722 4.449068 GCTATAAGATGCGTGTGTGCTAAT 59.551 41.667 0.00 0.00 35.36 1.73
720 723 3.802139 GCTATAAGATGCGTGTGTGCTAA 59.198 43.478 0.00 0.00 35.36 3.09
721 724 3.181480 TGCTATAAGATGCGTGTGTGCTA 60.181 43.478 0.00 0.00 35.36 3.49
722 725 2.205074 GCTATAAGATGCGTGTGTGCT 58.795 47.619 0.00 0.00 35.36 4.40
723 726 1.933181 TGCTATAAGATGCGTGTGTGC 59.067 47.619 0.00 0.00 0.00 4.57
724 727 3.803778 TGATGCTATAAGATGCGTGTGTG 59.196 43.478 0.00 0.00 0.00 3.82
725 728 3.804325 GTGATGCTATAAGATGCGTGTGT 59.196 43.478 0.00 0.00 0.00 3.72
726 729 3.803778 TGTGATGCTATAAGATGCGTGTG 59.196 43.478 0.00 0.00 0.00 3.82
727 730 4.058721 TGTGATGCTATAAGATGCGTGT 57.941 40.909 0.00 0.00 0.00 4.49
728 731 4.928020 AGATGTGATGCTATAAGATGCGTG 59.072 41.667 0.00 0.00 0.00 5.34
729 732 5.144692 AGATGTGATGCTATAAGATGCGT 57.855 39.130 0.00 0.00 0.00 5.24
730 733 7.254353 CCATTAGATGTGATGCTATAAGATGCG 60.254 40.741 0.00 0.00 0.00 4.73
731 734 7.466996 GCCATTAGATGTGATGCTATAAGATGC 60.467 40.741 0.00 0.00 0.00 3.91
732 735 7.769507 AGCCATTAGATGTGATGCTATAAGATG 59.230 37.037 0.00 0.00 0.00 2.90
733 736 7.859540 AGCCATTAGATGTGATGCTATAAGAT 58.140 34.615 0.00 0.00 0.00 2.40
734 737 7.250032 AGCCATTAGATGTGATGCTATAAGA 57.750 36.000 0.00 0.00 0.00 2.10
738 741 9.964354 TTTTATAGCCATTAGATGTGATGCTAT 57.036 29.630 12.45 12.45 32.56 2.97
739 742 9.440773 CTTTTATAGCCATTAGATGTGATGCTA 57.559 33.333 0.00 0.00 0.00 3.49
740 743 8.159447 TCTTTTATAGCCATTAGATGTGATGCT 58.841 33.333 0.00 0.00 0.00 3.79
741 744 8.327941 TCTTTTATAGCCATTAGATGTGATGC 57.672 34.615 0.00 0.00 0.00 3.91
751 754 9.077885 GGTTCCATTCATCTTTTATAGCCATTA 57.922 33.333 0.00 0.00 0.00 1.90
752 755 7.564660 TGGTTCCATTCATCTTTTATAGCCATT 59.435 33.333 0.00 0.00 0.00 3.16
753 756 7.068702 TGGTTCCATTCATCTTTTATAGCCAT 58.931 34.615 0.00 0.00 0.00 4.40
754 757 6.430864 TGGTTCCATTCATCTTTTATAGCCA 58.569 36.000 0.00 0.00 0.00 4.75
755 758 6.959639 TGGTTCCATTCATCTTTTATAGCC 57.040 37.500 0.00 0.00 0.00 3.93
756 759 9.822185 AATTTGGTTCCATTCATCTTTTATAGC 57.178 29.630 0.00 0.00 0.00 2.97
761 764 9.657419 GACATAATTTGGTTCCATTCATCTTTT 57.343 29.630 0.00 0.00 0.00 2.27
762 765 9.039165 AGACATAATTTGGTTCCATTCATCTTT 57.961 29.630 0.00 0.00 0.00 2.52
763 766 8.599624 AGACATAATTTGGTTCCATTCATCTT 57.400 30.769 0.00 0.00 0.00 2.40
764 767 7.835682 TGAGACATAATTTGGTTCCATTCATCT 59.164 33.333 0.00 0.00 0.00 2.90
765 768 7.999679 TGAGACATAATTTGGTTCCATTCATC 58.000 34.615 0.00 0.00 0.00 2.92
766 769 7.959658 TGAGACATAATTTGGTTCCATTCAT 57.040 32.000 0.00 0.00 0.00 2.57
767 770 7.835682 AGATGAGACATAATTTGGTTCCATTCA 59.164 33.333 0.00 0.00 0.00 2.57
768 771 8.230472 AGATGAGACATAATTTGGTTCCATTC 57.770 34.615 0.00 0.00 0.00 2.67
769 772 9.347240 CTAGATGAGACATAATTTGGTTCCATT 57.653 33.333 0.00 0.00 0.00 3.16
770 773 8.717717 TCTAGATGAGACATAATTTGGTTCCAT 58.282 33.333 0.00 0.00 0.00 3.41
771 774 8.089625 TCTAGATGAGACATAATTTGGTTCCA 57.910 34.615 0.00 0.00 0.00 3.53
772 775 8.997323 CATCTAGATGAGACATAATTTGGTTCC 58.003 37.037 25.78 0.00 41.20 3.62
773 776 9.770097 TCATCTAGATGAGACATAATTTGGTTC 57.230 33.333 27.93 0.00 42.42 3.62
805 808 9.160412 AGTGGGCAGATCTTATATAGTTTTACT 57.840 33.333 0.00 0.00 0.00 2.24
806 809 9.425577 GAGTGGGCAGATCTTATATAGTTTTAC 57.574 37.037 0.00 0.00 0.00 2.01
807 810 8.594550 GGAGTGGGCAGATCTTATATAGTTTTA 58.405 37.037 0.00 0.00 0.00 1.52
808 811 7.293535 AGGAGTGGGCAGATCTTATATAGTTTT 59.706 37.037 0.00 0.00 0.00 2.43
809 812 6.789959 AGGAGTGGGCAGATCTTATATAGTTT 59.210 38.462 0.00 0.00 0.00 2.66
810 813 6.212388 CAGGAGTGGGCAGATCTTATATAGTT 59.788 42.308 0.00 0.00 0.00 2.24
811 814 5.719085 CAGGAGTGGGCAGATCTTATATAGT 59.281 44.000 0.00 0.00 0.00 2.12
829 832 5.999044 AGATTTTGTAGATGATGCAGGAGT 58.001 37.500 0.00 0.00 0.00 3.85
884 892 5.473931 TCAGAGTTCTACAGCTGAATGAAC 58.526 41.667 27.02 27.02 34.71 3.18
919 927 6.821616 AATCAGATGAGGAGAGTATTGGTT 57.178 37.500 0.00 0.00 0.00 3.67
921 929 6.824553 TGAAATCAGATGAGGAGAGTATTGG 58.175 40.000 0.00 0.00 0.00 3.16
923 931 9.339850 CAAATGAAATCAGATGAGGAGAGTATT 57.660 33.333 0.00 0.00 0.00 1.89
924 932 8.492782 ACAAATGAAATCAGATGAGGAGAGTAT 58.507 33.333 5.53 0.00 0.00 2.12
925 933 7.855375 ACAAATGAAATCAGATGAGGAGAGTA 58.145 34.615 5.53 0.00 0.00 2.59
927 935 7.120873 ACAACAAATGAAATCAGATGAGGAGAG 59.879 37.037 5.53 0.00 0.00 3.20
935 943 4.380867 GGCGGACAACAAATGAAATCAGAT 60.381 41.667 0.00 0.00 0.00 2.90
944 952 1.288752 GGGTGGCGGACAACAAATG 59.711 57.895 0.00 0.00 39.06 2.32
945 953 2.265182 CGGGTGGCGGACAACAAAT 61.265 57.895 0.00 0.00 39.06 2.32
947 955 2.684192 AATCGGGTGGCGGACAACAA 62.684 55.000 0.00 0.00 39.06 2.83
948 956 3.185299 AATCGGGTGGCGGACAACA 62.185 57.895 0.00 0.00 39.06 3.33
949 957 2.359478 AATCGGGTGGCGGACAAC 60.359 61.111 0.00 0.00 35.48 3.32
950 958 2.191786 ATCAATCGGGTGGCGGACAA 62.192 55.000 0.00 0.00 0.00 3.18
951 959 2.587322 GATCAATCGGGTGGCGGACA 62.587 60.000 0.00 0.00 0.00 4.02
952 960 1.887707 GATCAATCGGGTGGCGGAC 60.888 63.158 0.00 0.00 0.00 4.79
957 965 1.869754 CGCTACTGATCAATCGGGTGG 60.870 57.143 0.00 0.00 37.50 4.61
966 974 2.583319 GCTGCGCGCTACTGATCA 60.583 61.111 33.29 8.12 35.14 2.92
984 992 2.120909 CATGGTTGCCGGATCACCC 61.121 63.158 5.05 0.00 0.00 4.61
996 1004 2.257409 CTACCGCTGCCTCCATGGTT 62.257 60.000 12.58 0.00 38.35 3.67
1038 1046 2.066999 GTCCTCCTGGCCCGAGAAT 61.067 63.158 16.64 0.00 0.00 2.40
1059 1067 4.899239 GACATGCTCCCCTCGGCG 62.899 72.222 0.00 0.00 0.00 6.46
1185 1193 2.351276 GAACACCCCGCCATGTCT 59.649 61.111 0.00 0.00 0.00 3.41
1461 1472 1.021390 ATGCCGCACTAGTCAGTTGC 61.021 55.000 0.00 0.00 30.46 4.17
1467 1478 1.132588 GAATCGATGCCGCACTAGTC 58.867 55.000 0.00 0.00 35.37 2.59
1476 1487 0.811616 AGAACCGCTGAATCGATGCC 60.812 55.000 0.00 0.00 0.00 4.40
1530 1548 7.103641 ACAACGAATTGATGATTACTACTGGT 58.896 34.615 0.00 0.00 39.30 4.00
1531 1549 7.539712 ACAACGAATTGATGATTACTACTGG 57.460 36.000 0.00 0.00 39.30 4.00
1962 1980 2.487532 CGATCCTAACGAGCCGGGT 61.488 63.158 5.45 5.45 0.00 5.28
2102 2120 1.202818 AGTCTCAGCCTTCAACCCAAC 60.203 52.381 0.00 0.00 0.00 3.77
2104 2122 0.397941 CAGTCTCAGCCTTCAACCCA 59.602 55.000 0.00 0.00 0.00 4.51
2106 2124 1.070758 TGTCAGTCTCAGCCTTCAACC 59.929 52.381 0.00 0.00 0.00 3.77
2107 2125 2.533266 TGTCAGTCTCAGCCTTCAAC 57.467 50.000 0.00 0.00 0.00 3.18
2108 2126 2.634453 TCATGTCAGTCTCAGCCTTCAA 59.366 45.455 0.00 0.00 0.00 2.69
2109 2127 2.028658 GTCATGTCAGTCTCAGCCTTCA 60.029 50.000 0.00 0.00 0.00 3.02
2111 2129 1.973515 TGTCATGTCAGTCTCAGCCTT 59.026 47.619 0.00 0.00 0.00 4.35
2112 2130 1.637338 TGTCATGTCAGTCTCAGCCT 58.363 50.000 0.00 0.00 0.00 4.58
2113 2131 2.093816 TCATGTCATGTCAGTCTCAGCC 60.094 50.000 12.54 0.00 0.00 4.85
2114 2132 2.928757 GTCATGTCATGTCAGTCTCAGC 59.071 50.000 12.54 0.00 0.00 4.26
2115 2133 3.925299 GTGTCATGTCATGTCAGTCTCAG 59.075 47.826 12.26 0.00 0.00 3.35
2192 2210 6.618592 GCGTGTGGTATAGCAATACAATCATC 60.619 42.308 6.12 0.00 39.90 2.92
2236 2254 9.788889 TCTGAATGCTGATGATTTTCTATACAT 57.211 29.630 0.00 0.00 0.00 2.29
2286 2304 4.462483 ACAAGTTTGGAAGAAGAAGCAACA 59.538 37.500 0.00 0.00 0.00 3.33
2298 2316 0.555769 AGGAGGGCACAAGTTTGGAA 59.444 50.000 0.00 0.00 0.00 3.53
2299 2317 0.110486 GAGGAGGGCACAAGTTTGGA 59.890 55.000 0.00 0.00 0.00 3.53
2300 2318 0.111253 AGAGGAGGGCACAAGTTTGG 59.889 55.000 0.00 0.00 0.00 3.28
2330 2348 6.380111 TGTACGAGCGTTTTTACTATGTTC 57.620 37.500 0.00 0.00 0.00 3.18
2335 2353 6.305399 GTGTGTATGTACGAGCGTTTTTACTA 59.695 38.462 0.00 0.00 0.00 1.82
2345 2363 4.669318 AGTGTATGTGTGTATGTACGAGC 58.331 43.478 0.00 0.00 0.00 5.03
2360 2378 7.320399 TGTGTGTTCATAGGAGTAAGTGTATG 58.680 38.462 0.00 0.00 0.00 2.39
2372 2390 6.261603 ACAGAATATGCATGTGTGTTCATAGG 59.738 38.462 10.16 1.40 0.00 2.57
2384 2402 4.240888 CTCGTAGGGACAGAATATGCATG 58.759 47.826 10.16 0.00 0.00 4.06
2386 2404 2.035961 GCTCGTAGGGACAGAATATGCA 59.964 50.000 0.00 0.00 0.00 3.96
2390 2408 3.821600 GAGATGCTCGTAGGGACAGAATA 59.178 47.826 0.00 0.00 0.00 1.75
2393 2411 1.681538 GAGATGCTCGTAGGGACAGA 58.318 55.000 0.00 0.00 0.00 3.41
2409 2427 0.107165 TCGGCTCAATCTCTCGGAGA 60.107 55.000 7.60 7.60 43.20 3.71
2426 2444 4.377153 CGTCGATCTCAGAATAATGTGTCG 59.623 45.833 0.00 0.00 0.00 4.35
2448 2466 1.944676 GGCGTCTATGGCGACTTCG 60.945 63.158 0.00 0.00 43.27 3.79
2459 2477 4.067896 CCCGTAGACTATAAAGGCGTCTA 58.932 47.826 0.00 0.00 38.77 2.59
2487 2505 3.618752 CGATGTGTGTTTAGTGGGATGGA 60.619 47.826 0.00 0.00 0.00 3.41
2488 2506 2.677836 CGATGTGTGTTTAGTGGGATGG 59.322 50.000 0.00 0.00 0.00 3.51
2489 2507 2.095853 GCGATGTGTGTTTAGTGGGATG 59.904 50.000 0.00 0.00 0.00 3.51
2490 2508 2.356135 GCGATGTGTGTTTAGTGGGAT 58.644 47.619 0.00 0.00 0.00 3.85
2498 2516 0.040425 GCTTTCGGCGATGTGTGTTT 60.040 50.000 11.76 0.00 0.00 2.83
2502 2520 0.036765 TTAGGCTTTCGGCGATGTGT 60.037 50.000 11.76 0.00 42.94 3.72
2507 2525 5.585445 TGTATTTATTTTAGGCTTTCGGCGA 59.415 36.000 4.99 4.99 42.94 5.54
2530 2548 4.142838 TGACATTACTGCTCGCATTTCTTG 60.143 41.667 0.00 0.00 0.00 3.02
2545 2563 9.162764 TGCCTTTAGTTCTAGATTTGACATTAC 57.837 33.333 0.00 0.00 0.00 1.89
2555 2573 9.512588 CCATAATTCATGCCTTTAGTTCTAGAT 57.487 33.333 0.00 0.00 32.84 1.98
2589 2607 6.053005 TCTTTCCATGTCTACGTGTTCTTTT 58.947 36.000 0.00 0.00 0.00 2.27
2590 2608 5.607477 TCTTTCCATGTCTACGTGTTCTTT 58.393 37.500 0.00 0.00 0.00 2.52
2591 2609 5.209818 TCTTTCCATGTCTACGTGTTCTT 57.790 39.130 0.00 0.00 0.00 2.52
2597 2615 4.759782 CCTCAATCTTTCCATGTCTACGT 58.240 43.478 0.00 0.00 0.00 3.57
2598 2616 3.557595 GCCTCAATCTTTCCATGTCTACG 59.442 47.826 0.00 0.00 0.00 3.51
2603 2621 3.887716 GCATAGCCTCAATCTTTCCATGT 59.112 43.478 0.00 0.00 0.00 3.21
2611 2629 1.000731 GAGCGAGCATAGCCTCAATCT 59.999 52.381 0.00 0.00 37.48 2.40
2620 2638 2.928757 GCCATCATTAGAGCGAGCATAG 59.071 50.000 0.00 0.00 0.00 2.23
2678 2707 3.869065 AGAAAAAGAGTGAACACGTGGA 58.131 40.909 21.57 0.00 36.20 4.02
2682 2711 6.469275 GGAGAAAAAGAAAAAGAGTGAACACG 59.531 38.462 0.00 0.00 36.20 4.49
2690 2719 6.410942 ACATGGGGAGAAAAAGAAAAAGAG 57.589 37.500 0.00 0.00 0.00 2.85
2691 2720 6.806668 AACATGGGGAGAAAAAGAAAAAGA 57.193 33.333 0.00 0.00 0.00 2.52
2701 2730 4.407365 GAGAGGAAAAACATGGGGAGAAA 58.593 43.478 0.00 0.00 0.00 2.52
2713 2742 5.611408 AGAAAGTAAGGAGGGAGAGGAAAAA 59.389 40.000 0.00 0.00 0.00 1.94
2752 2781 1.239347 AGCGAAAGGCCTGTTCTTTC 58.761 50.000 5.69 4.81 45.17 2.62
2796 2825 1.202582 CTGTGCTAGTAGAACCGCTGT 59.797 52.381 5.79 0.00 0.00 4.40
2804 2833 4.589908 TCAGATGACACTGTGCTAGTAGA 58.410 43.478 7.90 0.00 37.60 2.59
2819 2848 5.396772 CCATAAGCCAACTAGGTTCAGATGA 60.397 44.000 0.00 0.00 40.61 2.92
2914 2943 6.436847 TCCTTGAATAAAGTTGCATGATCCAA 59.563 34.615 0.00 0.00 33.66 3.53
2922 2951 7.775053 ACCTAAATCCTTGAATAAAGTTGCA 57.225 32.000 0.00 0.00 33.66 4.08


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

AutoCloner maintained by Alex Coulton.