Multiple sequence alignment - TraesCS5B01G103000

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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 TraesCS5B01G103000 chr5B 100.000 3071 0 0 1 3071 137060350 137057280 0.000000e+00 5672.0
1 TraesCS5B01G103000 chr7B 87.764 2174 223 21 932 3071 155566132 155568296 0.000000e+00 2501.0
2 TraesCS5B01G103000 chr7B 100.000 34 0 0 952 985 564738460 564738493 2.560000e-06 63.9
3 TraesCS5B01G103000 chr5D 90.267 1572 147 5 1502 3071 314893230 314894797 0.000000e+00 2050.0
4 TraesCS5B01G103000 chr5D 91.575 546 36 5 254 798 124348222 124347686 0.000000e+00 745.0
5 TraesCS5B01G103000 chr5D 88.601 193 15 4 76 262 124371483 124371292 8.570000e-56 228.0
6 TraesCS5B01G103000 chr5D 92.857 42 3 0 953 994 12325157 12325116 9.190000e-06 62.1
7 TraesCS5B01G103000 chr7D 82.069 1924 303 24 1174 3071 387933256 387935163 0.000000e+00 1604.0
8 TraesCS5B01G103000 chr7D 81.378 1509 259 14 1259 2750 186492536 186491033 0.000000e+00 1210.0
9 TraesCS5B01G103000 chr7D 81.250 304 38 11 935 1223 186504456 186504157 8.570000e-56 228.0
10 TraesCS5B01G103000 chr7D 82.895 228 33 5 935 1158 387925989 387926214 1.870000e-47 200.0
11 TraesCS5B01G103000 chr5A 91.221 729 44 11 76 799 138237718 138237005 0.000000e+00 974.0
12 TraesCS5B01G103000 chr5A 95.349 43 1 1 944 985 267953461 267953419 1.980000e-07 67.6
13 TraesCS5B01G103000 chr6D 83.739 658 101 6 1666 2320 6329521 6330175 4.350000e-173 617.0
14 TraesCS5B01G103000 chr6D 79.665 477 73 21 943 1404 147625642 147625175 3.820000e-84 322.0
15 TraesCS5B01G103000 chr6A 87.719 57 4 1 932 988 15490443 15490390 2.560000e-06 63.9
16 TraesCS5B01G103000 chr3B 97.143 35 1 0 951 985 222766062 222766096 3.310000e-05 60.2


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 TraesCS5B01G103000 chr5B 137057280 137060350 3070 True 5672 5672 100.000 1 3071 1 chr5B.!!$R1 3070
1 TraesCS5B01G103000 chr7B 155566132 155568296 2164 False 2501 2501 87.764 932 3071 1 chr7B.!!$F1 2139
2 TraesCS5B01G103000 chr5D 314893230 314894797 1567 False 2050 2050 90.267 1502 3071 1 chr5D.!!$F1 1569
3 TraesCS5B01G103000 chr5D 124347686 124348222 536 True 745 745 91.575 254 798 1 chr5D.!!$R2 544
4 TraesCS5B01G103000 chr7D 387933256 387935163 1907 False 1604 1604 82.069 1174 3071 1 chr7D.!!$F2 1897
5 TraesCS5B01G103000 chr7D 186491033 186492536 1503 True 1210 1210 81.378 1259 2750 1 chr7D.!!$R1 1491
6 TraesCS5B01G103000 chr5A 138237005 138237718 713 True 974 974 91.221 76 799 1 chr5A.!!$R1 723
7 TraesCS5B01G103000 chr6D 6329521 6330175 654 False 617 617 83.739 1666 2320 1 chr6D.!!$F1 654

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
816 821 0.034896 TCCGAGCCAGTTTCACTTCC 59.965 55.0 0.0 0.0 0.0 3.46 F
1367 1390 0.179004 AATCCAACCAAGTGCGTCCA 60.179 50.0 0.0 0.0 0.0 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2035 2090 0.620410 ACCCCATGGAGGATCAACGA 60.620 55.000 22.03 0.0 41.22 3.85 R
2255 2310 1.077357 ACCTCAGAGTCCGAGCGAT 60.077 57.895 0.00 0.0 0.00 4.58 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
31 32 8.504005 ACGTAGAAATTGTAGAAATTGAACAGG 58.496 33.333 0.00 0.00 0.00 4.00
32 33 8.717821 CGTAGAAATTGTAGAAATTGAACAGGA 58.282 33.333 0.00 0.00 0.00 3.86
34 35 8.924511 AGAAATTGTAGAAATTGAACAGGAGA 57.075 30.769 0.00 0.00 0.00 3.71
35 36 9.354673 AGAAATTGTAGAAATTGAACAGGAGAA 57.645 29.630 0.00 0.00 0.00 2.87
36 37 9.965824 GAAATTGTAGAAATTGAACAGGAGAAA 57.034 29.630 0.00 0.00 0.00 2.52
38 39 9.918630 AATTGTAGAAATTGAACAGGAGAAATG 57.081 29.630 0.00 0.00 0.00 2.32
39 40 8.690203 TTGTAGAAATTGAACAGGAGAAATGA 57.310 30.769 0.00 0.00 0.00 2.57
40 41 8.868522 TGTAGAAATTGAACAGGAGAAATGAT 57.131 30.769 0.00 0.00 0.00 2.45
41 42 8.733458 TGTAGAAATTGAACAGGAGAAATGATG 58.267 33.333 0.00 0.00 0.00 3.07
42 43 7.771927 AGAAATTGAACAGGAGAAATGATGT 57.228 32.000 0.00 0.00 0.00 3.06
43 44 7.824672 AGAAATTGAACAGGAGAAATGATGTC 58.175 34.615 0.00 0.00 0.00 3.06
44 45 6.521151 AATTGAACAGGAGAAATGATGTCC 57.479 37.500 0.00 0.00 41.88 4.02
45 46 3.599343 TGAACAGGAGAAATGATGTCCG 58.401 45.455 0.00 0.00 46.14 4.79
46 47 3.007940 TGAACAGGAGAAATGATGTCCGT 59.992 43.478 0.00 0.00 46.14 4.69
47 48 3.252974 ACAGGAGAAATGATGTCCGTC 57.747 47.619 0.00 0.00 46.14 4.79
48 49 2.093447 ACAGGAGAAATGATGTCCGTCC 60.093 50.000 0.00 0.00 46.14 4.79
49 50 1.137086 AGGAGAAATGATGTCCGTCCG 59.863 52.381 0.00 0.00 46.14 4.79
50 51 1.571919 GAGAAATGATGTCCGTCCGG 58.428 55.000 0.00 0.00 0.00 5.14
51 52 0.902531 AGAAATGATGTCCGTCCGGT 59.097 50.000 0.00 0.00 36.47 5.28
52 53 1.134788 AGAAATGATGTCCGTCCGGTC 60.135 52.381 0.00 0.45 36.47 4.79
53 54 0.611200 AAATGATGTCCGTCCGGTCA 59.389 50.000 8.04 8.04 37.68 4.02
54 55 0.108329 AATGATGTCCGTCCGGTCAC 60.108 55.000 7.78 0.00 36.27 3.67
55 56 1.956629 ATGATGTCCGTCCGGTCACC 61.957 60.000 7.78 0.00 36.27 4.02
56 57 2.283676 ATGTCCGTCCGGTCACCT 60.284 61.111 7.78 0.00 36.27 4.00
57 58 1.885163 GATGTCCGTCCGGTCACCTT 61.885 60.000 7.78 0.00 36.27 3.50
58 59 1.885163 ATGTCCGTCCGGTCACCTTC 61.885 60.000 7.78 0.00 36.27 3.46
59 60 2.203523 TCCGTCCGGTCACCTTCA 60.204 61.111 0.00 0.00 36.47 3.02
60 61 2.261671 CCGTCCGGTCACCTTCAG 59.738 66.667 0.00 0.00 0.00 3.02
61 62 2.432628 CGTCCGGTCACCTTCAGC 60.433 66.667 0.00 0.00 0.00 4.26
62 63 2.741092 GTCCGGTCACCTTCAGCA 59.259 61.111 0.00 0.00 0.00 4.41
63 64 1.374758 GTCCGGTCACCTTCAGCAG 60.375 63.158 0.00 0.00 0.00 4.24
64 65 1.533033 TCCGGTCACCTTCAGCAGA 60.533 57.895 0.00 0.00 0.00 4.26
65 66 1.374758 CCGGTCACCTTCAGCAGAC 60.375 63.158 0.00 0.00 0.00 3.51
66 67 1.734477 CGGTCACCTTCAGCAGACG 60.734 63.158 0.00 0.00 31.93 4.18
67 68 2.029844 GGTCACCTTCAGCAGACGC 61.030 63.158 0.00 0.00 38.99 5.19
68 69 2.049156 TCACCTTCAGCAGACGCG 60.049 61.111 3.53 3.53 45.49 6.01
69 70 2.356313 CACCTTCAGCAGACGCGT 60.356 61.111 13.85 13.85 45.49 6.01
70 71 2.049063 ACCTTCAGCAGACGCGTC 60.049 61.111 31.30 31.30 45.49 5.19
71 72 2.811317 CCTTCAGCAGACGCGTCC 60.811 66.667 34.08 20.57 45.49 4.79
72 73 3.175240 CTTCAGCAGACGCGTCCG 61.175 66.667 34.08 26.25 45.49 4.79
73 74 4.717629 TTCAGCAGACGCGTCCGG 62.718 66.667 34.08 26.71 45.49 5.14
87 88 1.901948 TCCGGGCGCAGGAGTATAG 60.902 63.158 18.23 0.00 33.19 1.31
90 91 1.533273 GGGCGCAGGAGTATAGGGA 60.533 63.158 10.83 0.00 0.00 4.20
91 92 0.905337 GGGCGCAGGAGTATAGGGAT 60.905 60.000 10.83 0.00 0.00 3.85
101 102 6.881602 GCAGGAGTATAGGGATTCAAATTAGG 59.118 42.308 0.00 0.00 0.00 2.69
110 111 1.444836 TTCAAATTAGGTGACCGCGG 58.555 50.000 26.86 26.86 0.00 6.46
127 131 1.088340 CGGCTGATGCTCTGACAAGG 61.088 60.000 0.00 0.00 39.59 3.61
129 133 1.654317 GCTGATGCTCTGACAAGGAG 58.346 55.000 0.00 0.00 36.03 3.69
133 137 3.435275 TGATGCTCTGACAAGGAGTACT 58.565 45.455 0.00 0.00 33.73 2.73
134 138 4.600062 TGATGCTCTGACAAGGAGTACTA 58.400 43.478 0.00 0.00 33.73 1.82
135 139 4.399618 TGATGCTCTGACAAGGAGTACTAC 59.600 45.833 0.00 0.00 33.73 2.73
143 147 8.589701 TCTGACAAGGAGTACTACATCATTTA 57.410 34.615 8.10 0.00 0.00 1.40
181 185 2.380084 TTATCGTTCACACTCAGGCC 57.620 50.000 0.00 0.00 0.00 5.19
198 202 1.066430 GGCCTCACATCTCAAACGGTA 60.066 52.381 0.00 0.00 0.00 4.02
216 220 6.380095 ACGGTAAACAATTAGCAAAACAGA 57.620 33.333 0.00 0.00 39.03 3.41
219 223 6.577427 CGGTAAACAATTAGCAAAACAGAGAC 59.423 38.462 0.00 0.00 39.03 3.36
279 283 1.855360 GCGAGATGCAAGCTACTACAC 59.145 52.381 0.00 0.00 45.45 2.90
406 411 1.316706 CCGCCGTCTTCTCCTTCTCT 61.317 60.000 0.00 0.00 0.00 3.10
407 412 0.528470 CGCCGTCTTCTCCTTCTCTT 59.472 55.000 0.00 0.00 0.00 2.85
408 413 1.468395 CGCCGTCTTCTCCTTCTCTTC 60.468 57.143 0.00 0.00 0.00 2.87
409 414 1.822371 GCCGTCTTCTCCTTCTCTTCT 59.178 52.381 0.00 0.00 0.00 2.85
430 435 1.612395 CCTCCTTCTCCAGCTTCGCT 61.612 60.000 0.00 0.00 40.77 4.93
557 562 4.767255 CCTCGCTTGCCTTCGCCT 62.767 66.667 0.00 0.00 0.00 5.52
624 629 2.100087 TGTGTTACTTGCGTGTCTCTCA 59.900 45.455 0.00 0.00 0.00 3.27
762 767 3.006967 GTGTACAGTGACCATCTGTCCTT 59.993 47.826 0.00 0.00 43.76 3.36
771 776 1.135915 CCATCTGTCCTTGTCTCTCGG 59.864 57.143 0.00 0.00 0.00 4.63
773 778 0.404426 TCTGTCCTTGTCTCTCGGGA 59.596 55.000 0.00 0.00 0.00 5.14
803 808 5.959554 CGTAAGTGTGTATAATTTCCGAGC 58.040 41.667 0.00 0.00 0.00 5.03
804 809 5.051240 CGTAAGTGTGTATAATTTCCGAGCC 60.051 44.000 0.00 0.00 0.00 4.70
805 810 4.481368 AGTGTGTATAATTTCCGAGCCA 57.519 40.909 0.00 0.00 0.00 4.75
806 811 4.442706 AGTGTGTATAATTTCCGAGCCAG 58.557 43.478 0.00 0.00 0.00 4.85
807 812 4.081087 AGTGTGTATAATTTCCGAGCCAGT 60.081 41.667 0.00 0.00 0.00 4.00
808 813 4.634443 GTGTGTATAATTTCCGAGCCAGTT 59.366 41.667 0.00 0.00 0.00 3.16
809 814 5.123344 GTGTGTATAATTTCCGAGCCAGTTT 59.877 40.000 0.00 0.00 0.00 2.66
810 815 5.353123 TGTGTATAATTTCCGAGCCAGTTTC 59.647 40.000 0.00 0.00 0.00 2.78
811 816 5.353123 GTGTATAATTTCCGAGCCAGTTTCA 59.647 40.000 0.00 0.00 0.00 2.69
812 817 4.965119 ATAATTTCCGAGCCAGTTTCAC 57.035 40.909 0.00 0.00 0.00 3.18
813 818 2.568623 ATTTCCGAGCCAGTTTCACT 57.431 45.000 0.00 0.00 0.00 3.41
814 819 2.341846 TTTCCGAGCCAGTTTCACTT 57.658 45.000 0.00 0.00 0.00 3.16
815 820 1.878953 TTCCGAGCCAGTTTCACTTC 58.121 50.000 0.00 0.00 0.00 3.01
816 821 0.034896 TCCGAGCCAGTTTCACTTCC 59.965 55.000 0.00 0.00 0.00 3.46
817 822 1.291877 CCGAGCCAGTTTCACTTCCG 61.292 60.000 0.00 0.00 0.00 4.30
818 823 0.600255 CGAGCCAGTTTCACTTCCGT 60.600 55.000 0.00 0.00 0.00 4.69
819 824 1.149148 GAGCCAGTTTCACTTCCGTC 58.851 55.000 0.00 0.00 0.00 4.79
820 825 0.759346 AGCCAGTTTCACTTCCGTCT 59.241 50.000 0.00 0.00 0.00 4.18
821 826 0.868406 GCCAGTTTCACTTCCGTCTG 59.132 55.000 0.00 0.00 0.00 3.51
822 827 1.540363 GCCAGTTTCACTTCCGTCTGA 60.540 52.381 0.00 0.00 0.00 3.27
823 828 2.872038 GCCAGTTTCACTTCCGTCTGAT 60.872 50.000 0.00 0.00 0.00 2.90
824 829 2.996621 CCAGTTTCACTTCCGTCTGATC 59.003 50.000 0.00 0.00 0.00 2.92
825 830 3.554960 CCAGTTTCACTTCCGTCTGATCA 60.555 47.826 0.00 0.00 0.00 2.92
826 831 4.058124 CAGTTTCACTTCCGTCTGATCAA 58.942 43.478 0.00 0.00 0.00 2.57
827 832 4.151335 CAGTTTCACTTCCGTCTGATCAAG 59.849 45.833 0.00 0.00 0.00 3.02
828 833 4.039245 AGTTTCACTTCCGTCTGATCAAGA 59.961 41.667 0.00 0.00 0.00 3.02
829 834 4.600692 TTCACTTCCGTCTGATCAAGAA 57.399 40.909 0.00 0.00 36.40 2.52
830 835 4.600692 TCACTTCCGTCTGATCAAGAAA 57.399 40.909 0.00 0.00 36.40 2.52
831 836 4.956085 TCACTTCCGTCTGATCAAGAAAA 58.044 39.130 0.00 0.00 36.40 2.29
832 837 5.364778 TCACTTCCGTCTGATCAAGAAAAA 58.635 37.500 0.00 0.00 36.40 1.94
892 897 4.907879 GGAAAAATATCCTGTGCTCCAG 57.092 45.455 0.00 0.00 41.15 3.86
903 908 4.065321 CTGTGCTCCAGGATAACCTAAG 57.935 50.000 0.00 0.00 45.94 2.18
904 909 2.771943 TGTGCTCCAGGATAACCTAAGG 59.228 50.000 0.00 0.00 45.94 2.69
905 910 3.039011 GTGCTCCAGGATAACCTAAGGA 58.961 50.000 0.00 0.00 45.94 3.36
906 911 3.039011 TGCTCCAGGATAACCTAAGGAC 58.961 50.000 0.00 0.00 45.94 3.85
907 912 3.039011 GCTCCAGGATAACCTAAGGACA 58.961 50.000 0.00 0.00 45.94 4.02
908 913 3.070302 GCTCCAGGATAACCTAAGGACAG 59.930 52.174 0.00 0.00 45.94 3.51
909 914 4.547671 CTCCAGGATAACCTAAGGACAGA 58.452 47.826 0.00 0.00 45.94 3.41
910 915 4.287552 TCCAGGATAACCTAAGGACAGAC 58.712 47.826 0.00 0.00 45.94 3.51
911 916 3.068307 CCAGGATAACCTAAGGACAGACG 59.932 52.174 0.00 0.00 45.94 4.18
912 917 2.694109 AGGATAACCTAAGGACAGACGC 59.306 50.000 0.00 0.00 45.83 5.19
913 918 2.694109 GGATAACCTAAGGACAGACGCT 59.306 50.000 0.00 0.00 0.00 5.07
914 919 3.491104 GGATAACCTAAGGACAGACGCTG 60.491 52.174 5.47 5.47 37.52 5.18
915 920 1.629043 AACCTAAGGACAGACGCTGA 58.371 50.000 12.77 0.00 35.18 4.26
916 921 1.853963 ACCTAAGGACAGACGCTGAT 58.146 50.000 12.77 0.00 35.18 2.90
917 922 3.014304 ACCTAAGGACAGACGCTGATA 57.986 47.619 12.77 1.94 35.18 2.15
918 923 3.567397 ACCTAAGGACAGACGCTGATAT 58.433 45.455 12.77 1.04 35.18 1.63
919 924 3.570550 ACCTAAGGACAGACGCTGATATC 59.429 47.826 12.77 0.00 35.18 1.63
920 925 3.570125 CCTAAGGACAGACGCTGATATCA 59.430 47.826 5.07 5.07 35.18 2.15
921 926 4.038042 CCTAAGGACAGACGCTGATATCAA 59.962 45.833 6.90 0.00 35.18 2.57
922 927 3.444703 AGGACAGACGCTGATATCAAC 57.555 47.619 6.90 1.01 35.18 3.18
923 928 2.101582 AGGACAGACGCTGATATCAACC 59.898 50.000 6.90 0.14 35.18 3.77
924 929 2.120232 GACAGACGCTGATATCAACCG 58.880 52.381 18.56 18.56 35.18 4.44
925 930 0.855349 CAGACGCTGATATCAACCGC 59.145 55.000 19.56 13.25 32.44 5.68
926 931 0.747255 AGACGCTGATATCAACCGCT 59.253 50.000 19.56 15.59 0.00 5.52
927 932 1.137086 AGACGCTGATATCAACCGCTT 59.863 47.619 19.56 9.07 0.00 4.68
928 933 1.258982 GACGCTGATATCAACCGCTTG 59.741 52.381 19.56 6.94 0.00 4.01
929 934 1.290203 CGCTGATATCAACCGCTTGT 58.710 50.000 6.90 0.00 0.00 3.16
930 935 1.665679 CGCTGATATCAACCGCTTGTT 59.334 47.619 6.90 0.00 37.80 2.83
943 948 1.536073 GCTTGTTTCCCCTTCCCTGC 61.536 60.000 0.00 0.00 0.00 4.85
945 950 3.062466 GTTTCCCCTTCCCTGCGC 61.062 66.667 0.00 0.00 0.00 6.09
946 951 3.256960 TTTCCCCTTCCCTGCGCT 61.257 61.111 9.73 0.00 0.00 5.92
1023 1028 2.992114 AGCCGCGTCCAACTCTCT 60.992 61.111 4.92 0.00 0.00 3.10
1035 1040 0.907230 AACTCTCTGGCTCCACCTCC 60.907 60.000 0.00 0.00 40.22 4.30
1037 1042 2.681778 CTCTGGCTCCACCTCCGT 60.682 66.667 0.00 0.00 40.22 4.69
1038 1043 2.203788 TCTGGCTCCACCTCCGTT 60.204 61.111 0.00 0.00 40.22 4.44
1039 1044 1.831652 CTCTGGCTCCACCTCCGTTT 61.832 60.000 0.00 0.00 40.22 3.60
1053 1058 1.007336 CCGTTTGTTCGTCTCCCTCG 61.007 60.000 0.00 0.00 0.00 4.63
1056 1061 2.444700 TTTGTTCGTCTCCCTCGGCC 62.445 60.000 0.00 0.00 0.00 6.13
1131 1139 1.537889 TTCCATGGTCGTGGTCCCT 60.538 57.895 12.58 0.00 40.27 4.20
1252 1275 1.007387 CAAGGCGGTGGTTTTCTGC 60.007 57.895 0.00 0.00 36.57 4.26
1254 1277 4.038080 GGCGGTGGTTTTCTGCCG 62.038 66.667 0.00 0.00 45.50 5.69
1259 1282 0.534203 GGTGGTTTTCTGCCGTCTCA 60.534 55.000 0.00 0.00 0.00 3.27
1261 1284 0.468226 TGGTTTTCTGCCGTCTCAGT 59.532 50.000 0.00 0.00 35.63 3.41
1270 1293 1.977544 CCGTCTCAGTCCCGGAGTT 60.978 63.158 0.73 0.00 44.41 3.01
1350 1373 3.944250 CTCCCGCAACTGCCCCAAT 62.944 63.158 0.00 0.00 37.91 3.16
1367 1390 0.179004 AATCCAACCAAGTGCGTCCA 60.179 50.000 0.00 0.00 0.00 4.02
1431 1454 4.116328 CCTCGAAGCTCGTCGCCA 62.116 66.667 2.86 0.00 41.35 5.69
1720 1775 0.252479 CCAGATGGACTGCTGCTTCT 59.748 55.000 0.00 0.00 44.52 2.85
1794 1849 1.067582 GGTCATCGTCGTGGGATCC 59.932 63.158 1.92 1.92 0.00 3.36
1840 1895 2.125552 CTGCGGCAATCGTGGAGA 60.126 61.111 3.44 0.00 41.72 3.71
1869 1924 2.125912 AGGCCCCTGGACATGTCT 59.874 61.111 24.50 0.00 29.21 3.41
1931 1986 2.024176 TCTGTGGAGCTTAGGAACCA 57.976 50.000 0.00 0.00 0.00 3.67
1977 2032 1.271054 ACGCCTCTGTTTGATCTGCTT 60.271 47.619 0.00 0.00 0.00 3.91
2035 2090 0.250124 TTCCATGCCGTTCTTCGTGT 60.250 50.000 0.00 0.00 37.94 4.49
2070 2125 3.998672 GTCCCGGCCAACTCGTGA 61.999 66.667 2.24 0.00 0.00 4.35
2073 2128 2.280524 CCGGCCAACTCGTGAACA 60.281 61.111 2.24 0.00 0.00 3.18
2143 2198 2.892640 CGGAGGCCACAGAATCGA 59.107 61.111 5.01 0.00 0.00 3.59
2255 2310 1.070786 GCAGGAGTGAACGTTCCCA 59.929 57.895 24.78 5.67 33.83 4.37
2301 2356 1.451387 CTGGTACCCGGTTGCCATC 60.451 63.158 9.74 0.00 0.00 3.51
2302 2357 2.191786 CTGGTACCCGGTTGCCATCA 62.192 60.000 9.74 0.00 0.00 3.07
2307 2362 3.061848 CCGGTTGCCATCACCCAC 61.062 66.667 0.00 0.00 0.00 4.61
2407 2466 1.739667 CGTGATGATGCTCGGGGTA 59.260 57.895 0.00 0.00 0.00 3.69
2423 2482 2.755469 TAGCGGTCGGGGTGGTAC 60.755 66.667 0.00 0.00 0.00 3.34
2430 2489 3.632080 CGGGGTGGTACTGGTGCA 61.632 66.667 0.00 0.00 0.00 4.57
2436 2495 1.460497 TGGTACTGGTGCACCTGGA 60.460 57.895 36.74 30.78 39.04 3.86
2607 2666 3.797225 GATCGGATCAGCTGCCGCA 62.797 63.158 23.31 14.65 46.79 5.69
2621 2680 3.117171 CGCAGTCTGGCTGTCAGC 61.117 66.667 16.93 16.93 46.64 4.26
2663 2722 2.972505 CAGCGTTGGTGCGGTTCT 60.973 61.111 0.00 0.00 40.81 3.01
2673 2732 2.204461 TGCGGTTCTCGAGGTTGGA 61.204 57.895 13.56 0.00 42.43 3.53
2702 2762 2.252012 ATTGGCTCCCCCTCGACCTA 62.252 60.000 0.00 0.00 0.00 3.08
2775 2835 1.522092 CGTTCTGGCCATGGCTCTA 59.478 57.895 34.70 20.35 41.60 2.43
2814 2874 0.605319 GGCACGTTCAGAACCATCCA 60.605 55.000 7.76 0.00 0.00 3.41
2920 2980 2.045926 GCATGGCTCGGTCCAAGT 60.046 61.111 0.00 0.00 39.96 3.16
2953 3013 1.476110 CCCCGAGACAAAAAGTGACCA 60.476 52.381 0.00 0.00 0.00 4.02
2969 3029 2.703798 CCATTGGGCCAGTTGCTCG 61.704 63.158 6.23 0.00 46.64 5.03
2981 3041 0.955428 GTTGCTCGTTGGATGGCTCA 60.955 55.000 0.00 0.00 0.00 4.26
2989 3049 2.355756 CGTTGGATGGCTCAATCGATTT 59.644 45.455 8.21 0.00 0.00 2.17
3015 3075 2.281208 CAACCCCTTCGCCGTTGA 60.281 61.111 0.00 0.00 39.36 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 8.504005 CCTGTTCAATTTCTACAATTTCTACGT 58.496 33.333 0.00 0.00 0.00 3.57
6 7 8.717821 TCCTGTTCAATTTCTACAATTTCTACG 58.282 33.333 0.00 0.00 0.00 3.51
9 10 8.924511 TCTCCTGTTCAATTTCTACAATTTCT 57.075 30.769 0.00 0.00 0.00 2.52
10 11 9.965824 TTTCTCCTGTTCAATTTCTACAATTTC 57.034 29.630 0.00 0.00 0.00 2.17
12 13 9.918630 CATTTCTCCTGTTCAATTTCTACAATT 57.081 29.630 0.00 0.00 0.00 2.32
13 14 9.300681 TCATTTCTCCTGTTCAATTTCTACAAT 57.699 29.630 0.00 0.00 0.00 2.71
14 15 8.690203 TCATTTCTCCTGTTCAATTTCTACAA 57.310 30.769 0.00 0.00 0.00 2.41
15 16 8.733458 CATCATTTCTCCTGTTCAATTTCTACA 58.267 33.333 0.00 0.00 0.00 2.74
16 17 8.734386 ACATCATTTCTCCTGTTCAATTTCTAC 58.266 33.333 0.00 0.00 0.00 2.59
17 18 8.868522 ACATCATTTCTCCTGTTCAATTTCTA 57.131 30.769 0.00 0.00 0.00 2.10
18 19 7.094032 GGACATCATTTCTCCTGTTCAATTTCT 60.094 37.037 0.00 0.00 0.00 2.52
19 20 7.031975 GGACATCATTTCTCCTGTTCAATTTC 58.968 38.462 0.00 0.00 0.00 2.17
20 21 6.349611 CGGACATCATTTCTCCTGTTCAATTT 60.350 38.462 0.00 0.00 0.00 1.82
21 22 5.124457 CGGACATCATTTCTCCTGTTCAATT 59.876 40.000 0.00 0.00 0.00 2.32
22 23 4.637534 CGGACATCATTTCTCCTGTTCAAT 59.362 41.667 0.00 0.00 0.00 2.57
23 24 4.002982 CGGACATCATTTCTCCTGTTCAA 58.997 43.478 0.00 0.00 0.00 2.69
24 25 3.007940 ACGGACATCATTTCTCCTGTTCA 59.992 43.478 0.00 0.00 0.00 3.18
25 26 3.600388 ACGGACATCATTTCTCCTGTTC 58.400 45.455 0.00 0.00 0.00 3.18
26 27 3.600388 GACGGACATCATTTCTCCTGTT 58.400 45.455 0.00 0.00 0.00 3.16
27 28 2.093447 GGACGGACATCATTTCTCCTGT 60.093 50.000 0.00 0.00 0.00 4.00
28 29 2.555199 GGACGGACATCATTTCTCCTG 58.445 52.381 0.00 0.00 0.00 3.86
29 30 1.137086 CGGACGGACATCATTTCTCCT 59.863 52.381 0.00 0.00 0.00 3.69
30 31 1.571919 CGGACGGACATCATTTCTCC 58.428 55.000 0.00 0.00 0.00 3.71
31 32 1.134788 ACCGGACGGACATCATTTCTC 60.135 52.381 18.80 0.00 38.96 2.87
32 33 0.902531 ACCGGACGGACATCATTTCT 59.097 50.000 18.80 0.00 38.96 2.52
33 34 1.287425 GACCGGACGGACATCATTTC 58.713 55.000 18.80 0.00 38.96 2.17
34 35 0.611200 TGACCGGACGGACATCATTT 59.389 50.000 18.80 0.00 35.24 2.32
35 36 0.108329 GTGACCGGACGGACATCATT 60.108 55.000 18.80 0.00 41.42 2.57
36 37 1.515954 GTGACCGGACGGACATCAT 59.484 57.895 18.80 0.00 41.42 2.45
37 38 2.642254 GGTGACCGGACGGACATCA 61.642 63.158 18.80 8.09 41.42 3.07
38 39 1.885163 AAGGTGACCGGACGGACATC 61.885 60.000 18.80 17.55 41.42 3.06
39 40 1.885163 GAAGGTGACCGGACGGACAT 61.885 60.000 18.80 2.53 41.42 3.06
40 41 2.522436 AAGGTGACCGGACGGACA 60.522 61.111 18.80 14.94 37.59 4.02
41 42 2.260743 GAAGGTGACCGGACGGAC 59.739 66.667 18.80 12.18 38.96 4.79
42 43 2.203523 TGAAGGTGACCGGACGGA 60.204 61.111 18.80 0.00 38.96 4.69
43 44 2.261671 CTGAAGGTGACCGGACGG 59.738 66.667 9.46 9.56 42.03 4.79
44 45 2.432628 GCTGAAGGTGACCGGACG 60.433 66.667 9.46 0.00 0.00 4.79
45 46 1.374758 CTGCTGAAGGTGACCGGAC 60.375 63.158 9.46 1.07 0.00 4.79
46 47 1.533033 TCTGCTGAAGGTGACCGGA 60.533 57.895 9.46 0.00 0.00 5.14
47 48 1.374758 GTCTGCTGAAGGTGACCGG 60.375 63.158 0.00 0.00 0.00 5.28
48 49 1.734477 CGTCTGCTGAAGGTGACCG 60.734 63.158 0.00 0.00 0.00 4.79
49 50 2.029844 GCGTCTGCTGAAGGTGACC 61.030 63.158 8.47 0.00 38.39 4.02
50 51 2.375766 CGCGTCTGCTGAAGGTGAC 61.376 63.158 0.00 0.00 39.65 3.67
51 52 2.049156 CGCGTCTGCTGAAGGTGA 60.049 61.111 0.00 0.00 39.65 4.02
52 53 2.356313 ACGCGTCTGCTGAAGGTG 60.356 61.111 5.58 6.76 39.65 4.00
53 54 2.049063 GACGCGTCTGCTGAAGGT 60.049 61.111 31.12 0.00 39.65 3.50
54 55 2.811317 GGACGCGTCTGCTGAAGG 60.811 66.667 35.50 0.00 39.65 3.46
55 56 3.175240 CGGACGCGTCTGCTGAAG 61.175 66.667 35.50 15.83 39.65 3.02
56 57 4.717629 CCGGACGCGTCTGCTGAA 62.718 66.667 36.84 0.00 39.65 3.02
68 69 2.143594 CTATACTCCTGCGCCCGGAC 62.144 65.000 0.73 0.00 0.00 4.79
69 70 1.901948 CTATACTCCTGCGCCCGGA 60.902 63.158 13.99 13.99 0.00 5.14
70 71 2.651361 CTATACTCCTGCGCCCGG 59.349 66.667 4.18 5.57 0.00 5.73
71 72 2.651361 CCTATACTCCTGCGCCCG 59.349 66.667 4.18 0.00 0.00 6.13
72 73 0.905337 ATCCCTATACTCCTGCGCCC 60.905 60.000 4.18 0.00 0.00 6.13
73 74 0.977395 AATCCCTATACTCCTGCGCC 59.023 55.000 4.18 0.00 0.00 6.53
74 75 1.618837 TGAATCCCTATACTCCTGCGC 59.381 52.381 0.00 0.00 0.00 6.09
78 79 7.794683 TCACCTAATTTGAATCCCTATACTCCT 59.205 37.037 0.00 0.00 0.00 3.69
81 82 7.472945 CGGTCACCTAATTTGAATCCCTATACT 60.473 40.741 0.00 0.00 0.00 2.12
87 88 2.357952 GCGGTCACCTAATTTGAATCCC 59.642 50.000 0.00 0.00 0.00 3.85
90 91 2.014128 CCGCGGTCACCTAATTTGAAT 58.986 47.619 19.50 0.00 0.00 2.57
91 92 1.444836 CCGCGGTCACCTAATTTGAA 58.555 50.000 19.50 0.00 0.00 2.69
110 111 1.066286 ACTCCTTGTCAGAGCATCAGC 60.066 52.381 0.00 0.00 37.82 4.26
147 151 9.400638 TGTGAACGATAATTTACAAATTTCACC 57.599 29.630 17.88 8.05 38.79 4.02
167 171 0.106708 TGTGAGGCCTGAGTGTGAAC 59.893 55.000 12.00 0.00 0.00 3.18
176 180 1.081892 CGTTTGAGATGTGAGGCCTG 58.918 55.000 12.00 0.00 0.00 4.85
181 185 5.666969 TTGTTTACCGTTTGAGATGTGAG 57.333 39.130 0.00 0.00 0.00 3.51
198 202 8.770438 TTTTGTCTCTGTTTTGCTAATTGTTT 57.230 26.923 0.00 0.00 0.00 2.83
406 411 2.334006 AGCTGGAGAAGGAGGAAGAA 57.666 50.000 0.00 0.00 0.00 2.52
407 412 2.183679 GAAGCTGGAGAAGGAGGAAGA 58.816 52.381 0.00 0.00 0.00 2.87
408 413 1.134848 CGAAGCTGGAGAAGGAGGAAG 60.135 57.143 0.00 0.00 0.00 3.46
409 414 0.898320 CGAAGCTGGAGAAGGAGGAA 59.102 55.000 0.00 0.00 0.00 3.36
439 444 2.505557 GACGTCGTTAGCGGTGGG 60.506 66.667 0.00 0.00 38.89 4.61
624 629 3.834799 GTCGAGGAATCGGCCGGT 61.835 66.667 27.83 18.03 0.00 5.28
762 767 3.654143 TCCCCGTCCCGAGAGACA 61.654 66.667 0.00 0.00 36.52 3.41
771 776 1.080298 CACACTTACGTCCCCGTCC 60.080 63.158 0.00 0.00 46.28 4.79
778 783 6.291479 GCTCGGAAATTATACACACTTACGTC 60.291 42.308 0.00 0.00 0.00 4.34
782 787 5.979993 TGGCTCGGAAATTATACACACTTA 58.020 37.500 0.00 0.00 0.00 2.24
861 866 9.343539 GCACAGGATATTTTTCCTAAACTATCT 57.656 33.333 0.00 0.00 44.54 1.98
862 867 9.343539 AGCACAGGATATTTTTCCTAAACTATC 57.656 33.333 0.00 0.00 44.54 2.08
863 868 9.343539 GAGCACAGGATATTTTTCCTAAACTAT 57.656 33.333 0.00 0.00 44.54 2.12
864 869 7.773690 GGAGCACAGGATATTTTTCCTAAACTA 59.226 37.037 0.00 0.00 44.54 2.24
865 870 6.603599 GGAGCACAGGATATTTTTCCTAAACT 59.396 38.462 0.00 0.00 44.54 2.66
866 871 6.377146 TGGAGCACAGGATATTTTTCCTAAAC 59.623 38.462 0.00 0.00 44.54 2.01
867 872 6.489603 TGGAGCACAGGATATTTTTCCTAAA 58.510 36.000 0.00 0.00 44.54 1.85
868 873 6.073447 TGGAGCACAGGATATTTTTCCTAA 57.927 37.500 0.00 0.00 44.54 2.69
869 874 5.684704 CTGGAGCACAGGATATTTTTCCTA 58.315 41.667 0.82 0.00 44.54 2.94
871 876 4.907879 CTGGAGCACAGGATATTTTTCC 57.092 45.455 0.82 0.00 43.70 3.13
882 887 3.181461 CCTTAGGTTATCCTGGAGCACAG 60.181 52.174 1.52 1.75 44.81 3.66
883 888 2.771943 CCTTAGGTTATCCTGGAGCACA 59.228 50.000 1.52 0.00 44.81 4.57
884 889 3.039011 TCCTTAGGTTATCCTGGAGCAC 58.961 50.000 1.52 0.83 44.81 4.40
885 890 3.039011 GTCCTTAGGTTATCCTGGAGCA 58.961 50.000 1.52 0.00 44.81 4.26
886 891 3.039011 TGTCCTTAGGTTATCCTGGAGC 58.961 50.000 1.52 0.00 44.81 4.70
887 892 4.342665 GTCTGTCCTTAGGTTATCCTGGAG 59.657 50.000 1.52 1.16 44.81 3.86
888 893 4.287552 GTCTGTCCTTAGGTTATCCTGGA 58.712 47.826 0.00 0.00 44.81 3.86
889 894 3.068307 CGTCTGTCCTTAGGTTATCCTGG 59.932 52.174 2.34 0.00 44.81 4.45
890 895 3.491104 GCGTCTGTCCTTAGGTTATCCTG 60.491 52.174 2.34 0.00 44.81 3.86
891 896 7.857868 TCAGCGTCTGTCCTTAGGTTATCCT 62.858 48.000 0.00 0.00 38.97 3.24
892 897 2.694109 AGCGTCTGTCCTTAGGTTATCC 59.306 50.000 0.00 0.00 0.00 2.59
893 898 3.380637 TCAGCGTCTGTCCTTAGGTTATC 59.619 47.826 0.00 0.00 32.61 1.75
894 899 3.362706 TCAGCGTCTGTCCTTAGGTTAT 58.637 45.455 0.00 0.00 32.61 1.89
895 900 2.799017 TCAGCGTCTGTCCTTAGGTTA 58.201 47.619 0.00 0.00 32.61 2.85
896 901 1.629043 TCAGCGTCTGTCCTTAGGTT 58.371 50.000 0.00 0.00 32.61 3.50
897 902 1.853963 ATCAGCGTCTGTCCTTAGGT 58.146 50.000 0.00 0.00 32.61 3.08
898 903 3.570125 TGATATCAGCGTCTGTCCTTAGG 59.430 47.826 0.00 0.00 32.61 2.69
899 904 4.837896 TGATATCAGCGTCTGTCCTTAG 57.162 45.455 0.00 0.00 32.61 2.18
900 905 4.202121 GGTTGATATCAGCGTCTGTCCTTA 60.202 45.833 12.72 0.00 32.61 2.69
901 906 3.430929 GGTTGATATCAGCGTCTGTCCTT 60.431 47.826 12.72 0.00 32.61 3.36
902 907 2.101582 GGTTGATATCAGCGTCTGTCCT 59.898 50.000 12.72 0.00 32.61 3.85
903 908 2.474816 GGTTGATATCAGCGTCTGTCC 58.525 52.381 12.72 0.00 32.61 4.02
904 909 2.120232 CGGTTGATATCAGCGTCTGTC 58.880 52.381 12.72 0.00 32.61 3.51
905 910 1.802880 GCGGTTGATATCAGCGTCTGT 60.803 52.381 20.07 0.00 37.46 3.41
906 911 0.855349 GCGGTTGATATCAGCGTCTG 59.145 55.000 20.07 12.67 37.46 3.51
907 912 0.747255 AGCGGTTGATATCAGCGTCT 59.253 50.000 20.07 13.86 37.46 4.18
908 913 1.258982 CAAGCGGTTGATATCAGCGTC 59.741 52.381 22.45 12.34 37.46 5.19
909 914 1.290203 CAAGCGGTTGATATCAGCGT 58.710 50.000 22.45 11.41 37.46 5.07
910 915 1.290203 ACAAGCGGTTGATATCAGCG 58.710 50.000 32.17 15.16 37.10 5.18
911 916 3.487544 GGAAACAAGCGGTTGATATCAGC 60.488 47.826 32.17 10.87 40.35 4.26
912 917 3.065371 GGGAAACAAGCGGTTGATATCAG 59.935 47.826 32.17 5.69 40.35 2.90
913 918 3.013921 GGGAAACAAGCGGTTGATATCA 58.986 45.455 32.17 0.00 40.35 2.15
914 919 2.357952 GGGGAAACAAGCGGTTGATATC 59.642 50.000 32.17 23.30 40.35 1.63
915 920 2.025321 AGGGGAAACAAGCGGTTGATAT 60.025 45.455 32.17 17.41 40.35 1.63
916 921 1.353022 AGGGGAAACAAGCGGTTGATA 59.647 47.619 32.17 0.00 40.35 2.15
917 922 0.112412 AGGGGAAACAAGCGGTTGAT 59.888 50.000 32.17 19.27 40.35 2.57
918 923 0.106419 AAGGGGAAACAAGCGGTTGA 60.106 50.000 32.17 0.00 40.35 3.18
919 924 0.313987 GAAGGGGAAACAAGCGGTTG 59.686 55.000 24.85 24.85 40.35 3.77
920 925 0.826256 GGAAGGGGAAACAAGCGGTT 60.826 55.000 0.00 0.00 42.98 4.44
921 926 1.228459 GGAAGGGGAAACAAGCGGT 60.228 57.895 0.00 0.00 0.00 5.68
922 927 1.977009 GGGAAGGGGAAACAAGCGG 60.977 63.158 0.00 0.00 0.00 5.52
923 928 1.074951 AGGGAAGGGGAAACAAGCG 59.925 57.895 0.00 0.00 0.00 4.68
924 929 1.536073 GCAGGGAAGGGGAAACAAGC 61.536 60.000 0.00 0.00 0.00 4.01
925 930 1.244019 CGCAGGGAAGGGGAAACAAG 61.244 60.000 0.00 0.00 0.00 3.16
926 931 1.228429 CGCAGGGAAGGGGAAACAA 60.228 57.895 0.00 0.00 0.00 2.83
927 932 2.434331 CGCAGGGAAGGGGAAACA 59.566 61.111 0.00 0.00 0.00 2.83
928 933 3.062466 GCGCAGGGAAGGGGAAAC 61.062 66.667 0.30 0.00 0.00 2.78
929 934 3.256960 AGCGCAGGGAAGGGGAAA 61.257 61.111 11.47 0.00 0.00 3.13
930 935 3.717294 GAGCGCAGGGAAGGGGAA 61.717 66.667 11.47 0.00 0.00 3.97
1010 1015 1.446966 GAGCCAGAGAGTTGGACGC 60.447 63.158 0.00 0.00 40.87 5.19
1012 1017 0.036858 GTGGAGCCAGAGAGTTGGAC 60.037 60.000 0.00 0.00 40.87 4.02
1015 1020 0.248843 GAGGTGGAGCCAGAGAGTTG 59.751 60.000 0.00 0.00 40.61 3.16
1023 1028 1.990160 AACAAACGGAGGTGGAGCCA 61.990 55.000 0.00 0.00 40.61 4.75
1035 1040 1.007336 CCGAGGGAGACGAACAAACG 61.007 60.000 0.00 0.00 39.31 3.60
1037 1042 1.005394 GCCGAGGGAGACGAACAAA 60.005 57.895 0.00 0.00 0.00 2.83
1038 1043 2.654877 GCCGAGGGAGACGAACAA 59.345 61.111 0.00 0.00 0.00 2.83
1039 1044 3.379445 GGCCGAGGGAGACGAACA 61.379 66.667 0.00 0.00 0.00 3.18
1104 1109 4.096003 ACCATGGAACGGAGCCGG 62.096 66.667 21.47 0.00 44.69 6.13
1106 1111 2.511600 CGACCATGGAACGGAGCC 60.512 66.667 21.47 0.00 0.00 4.70
1233 1256 1.007387 CAGAAAACCACCGCCTTGC 60.007 57.895 0.00 0.00 0.00 4.01
1252 1275 1.935327 GAACTCCGGGACTGAGACGG 61.935 65.000 0.00 8.26 42.45 4.79
1254 1277 0.959372 TCGAACTCCGGGACTGAGAC 60.959 60.000 0.00 0.00 42.45 3.36
1259 1282 2.679287 GGGTCGAACTCCGGGACT 60.679 66.667 0.00 0.00 39.14 3.85
1261 1284 1.980772 GAAGGGTCGAACTCCGGGA 60.981 63.158 0.00 0.00 39.14 5.14
1329 1352 2.742116 GGGGCAGTTGCGGGAGATA 61.742 63.158 0.00 0.00 43.26 1.98
1350 1373 0.179004 AATGGACGCACTTGGTTGGA 60.179 50.000 0.00 0.00 0.00 3.53
1367 1390 3.355077 TGGTTGAATCCGCCACAAT 57.645 47.368 0.00 0.00 0.00 2.71
1488 1511 2.747686 GGCGGGAACTGAAGGTCA 59.252 61.111 0.00 0.00 36.31 4.02
1580 1634 2.836154 GGACAACCTGGCTCCACA 59.164 61.111 0.00 0.00 0.00 4.17
1734 1789 1.874019 CTCCAGGACGCGAATGTCG 60.874 63.158 15.93 0.00 43.89 4.35
1840 1895 1.077429 GGGGCCTGAGCTCGAATTT 60.077 57.895 9.64 0.00 42.15 1.82
1869 1924 1.144298 TGCGGGTAGTAGCTCCTGATA 59.856 52.381 2.19 0.00 32.26 2.15
1931 1986 4.176752 GGCCCCGGCGAAGAATCT 62.177 66.667 9.30 0.00 43.06 2.40
1977 2032 0.966920 GACGAGACCAGGGTGAGAAA 59.033 55.000 0.00 0.00 0.00 2.52
2029 2084 0.963225 TGGAGGATCAACGACACGAA 59.037 50.000 0.00 0.00 36.25 3.85
2035 2090 0.620410 ACCCCATGGAGGATCAACGA 60.620 55.000 22.03 0.00 41.22 3.85
2127 2182 1.144936 CCTCGATTCTGTGGCCTCC 59.855 63.158 3.32 0.00 0.00 4.30
2158 2213 1.378762 GGAGCCACACCCTAAAGCA 59.621 57.895 0.00 0.00 0.00 3.91
2244 2299 1.445410 CGAGCGATGGGAACGTTCA 60.445 57.895 28.24 11.32 40.02 3.18
2247 2302 3.066190 TCCGAGCGATGGGAACGT 61.066 61.111 0.42 0.00 0.00 3.99
2255 2310 1.077357 ACCTCAGAGTCCGAGCGAT 60.077 57.895 0.00 0.00 0.00 4.58
2301 2356 3.832237 AACAGCTGCCTCGTGGGTG 62.832 63.158 15.27 0.00 37.43 4.61
2302 2357 3.537206 GAACAGCTGCCTCGTGGGT 62.537 63.158 15.27 0.00 37.43 4.51
2307 2362 1.803519 GAGACGAACAGCTGCCTCG 60.804 63.158 27.97 27.97 38.53 4.63
2407 2466 4.691359 AGTACCACCCCGACCGCT 62.691 66.667 0.00 0.00 0.00 5.52
2423 2482 2.359602 CAGCTCCAGGTGCACCAG 60.360 66.667 36.39 28.75 38.89 4.00
2430 2489 1.371558 GTCGAAACCAGCTCCAGGT 59.628 57.895 0.00 0.00 42.34 4.00
2586 2645 1.953138 GGCAGCTGATCCGATCGTG 60.953 63.158 20.43 4.79 0.00 4.35
2621 2680 1.587043 TTCTGACGAGCCGACTGAGG 61.587 60.000 1.50 0.00 32.84 3.86
2625 2684 2.569134 GCTTCTGACGAGCCGACT 59.431 61.111 1.50 0.00 34.06 4.18
2663 2722 2.154798 CTCCTGCGTTCCAACCTCGA 62.155 60.000 0.00 0.00 0.00 4.04
2673 2732 4.625800 GAGCCAATCTCCTGCGTT 57.374 55.556 0.00 0.00 35.77 4.84
2828 2888 4.410743 GCAAAGTCGCCAGGCAGC 62.411 66.667 13.30 2.85 0.00 5.25
2920 2980 3.781307 CGGGGCACGGGAGAATCA 61.781 66.667 0.00 0.00 39.42 2.57
2943 3003 1.341080 CTGGCCCAATGGTCACTTTT 58.659 50.000 0.00 0.00 42.76 2.27
2953 3013 1.228552 AACGAGCAACTGGCCCAAT 60.229 52.632 0.00 0.00 46.50 3.16
2969 3029 3.489738 CCAAATCGATTGAGCCATCCAAC 60.490 47.826 12.25 0.00 41.85 3.77


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

AutoCloner maintained by Alex Coulton.