Multiple sequence alignment - TraesCS7A01G349800

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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 TraesCS7A01G349800 chr7A 100.000 3572 0 0 340 3911 512443812 512440241 0.000000e+00 6597.0
1 TraesCS7A01G349800 chr7A 90.659 546 45 5 340 881 552457668 552457125 0.000000e+00 721.0
2 TraesCS7A01G349800 chr7A 90.179 560 42 8 340 892 235471712 235472265 0.000000e+00 717.0
3 TraesCS7A01G349800 chr7A 90.275 545 47 5 340 879 650498111 650498654 0.000000e+00 708.0
4 TraesCS7A01G349800 chr7A 100.000 92 0 0 1 92 512444151 512444060 1.870000e-38 171.0
5 TraesCS7A01G349800 chr7A 98.889 90 1 0 3727 3816 409259617 409259528 1.120000e-35 161.0
6 TraesCS7A01G349800 chr7A 96.739 92 3 0 1 92 680597015 680597106 1.880000e-33 154.0
7 TraesCS7A01G349800 chr7A 93.814 97 4 2 3731 3826 65537109 65537014 1.130000e-30 145.0
8 TraesCS7A01G349800 chr7A 91.429 105 6 3 3731 3833 65535267 65535370 1.470000e-29 141.0
9 TraesCS7A01G349800 chr7D 94.822 2781 104 17 978 3733 420626529 420629294 0.000000e+00 4301.0
10 TraesCS7A01G349800 chr7D 98.969 97 1 0 3815 3911 420629293 420629389 1.440000e-39 174.0
11 TraesCS7A01G349800 chr7B 94.285 2782 131 13 978 3733 436701589 436704368 0.000000e+00 4231.0
12 TraesCS7A01G349800 chr7B 96.907 97 3 0 3815 3911 436704367 436704463 3.130000e-36 163.0
13 TraesCS7A01G349800 chr2D 91.209 546 44 4 340 881 119370535 119369990 0.000000e+00 739.0
14 TraesCS7A01G349800 chr5D 91.042 547 42 6 340 881 170318385 170318929 0.000000e+00 732.0
15 TraesCS7A01G349800 chr5D 95.833 96 2 2 3732 3826 528967496 528967402 1.880000e-33 154.0
16 TraesCS7A01G349800 chr5A 90.744 551 41 8 340 881 259074751 259074202 0.000000e+00 726.0
17 TraesCS7A01G349800 chr5A 90.826 545 43 6 340 881 484495964 484496504 0.000000e+00 723.0
18 TraesCS7A01G349800 chr5A 90.511 548 45 6 340 881 296306496 296307042 0.000000e+00 717.0
19 TraesCS7A01G349800 chr5A 97.059 34 1 0 896 929 545753776 545753809 1.520000e-04 58.4
20 TraesCS7A01G349800 chr6D 90.143 558 39 13 340 893 448624930 448625475 0.000000e+00 712.0
21 TraesCS7A01G349800 chr6D 96.739 92 3 0 3725 3816 144745021 144745112 1.880000e-33 154.0
22 TraesCS7A01G349800 chr6B 98.837 86 1 0 3731 3816 390628814 390628729 1.880000e-33 154.0
23 TraesCS7A01G349800 chr4D 96.739 92 3 0 1 92 501151424 501151333 1.880000e-33 154.0
24 TraesCS7A01G349800 chr2B 96.739 92 3 0 1 92 143477404 143477313 1.880000e-33 154.0
25 TraesCS7A01G349800 chr1D 96.739 92 3 0 1 92 404078835 404078744 1.880000e-33 154.0
26 TraesCS7A01G349800 chr1D 96.739 92 2 1 1 92 475956793 475956883 6.770000e-33 152.0
27 TraesCS7A01G349800 chr1D 95.745 94 2 1 1 92 247133838 247133931 2.430000e-32 150.0
28 TraesCS7A01G349800 chr5B 96.739 92 2 1 3727 3817 457963171 457963262 6.770000e-33 152.0
29 TraesCS7A01G349800 chr3A 96.739 92 2 1 1 92 584481859 584481769 6.770000e-33 152.0
30 TraesCS7A01G349800 chr4A 96.703 91 2 1 3731 3821 744188209 744188298 2.430000e-32 150.0
31 TraesCS7A01G349800 chr3D 95.745 94 2 1 1 92 11333134 11333041 2.430000e-32 150.0
32 TraesCS7A01G349800 chr3D 95.745 94 2 2 1 92 16012949 16012856 2.430000e-32 150.0
33 TraesCS7A01G349800 chr3D 95.652 92 4 0 3725 3816 393409059 393408968 8.760000e-32 148.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7A01G349800 chr7A 512440241 512444151 3910 True 3384.0 6597 100.0000 1 3911 2 chr7A.!!$R4 3910
1 TraesCS7A01G349800 chr7A 552457125 552457668 543 True 721.0 721 90.6590 340 881 1 chr7A.!!$R3 541
2 TraesCS7A01G349800 chr7A 235471712 235472265 553 False 717.0 717 90.1790 340 892 1 chr7A.!!$F2 552
3 TraesCS7A01G349800 chr7A 650498111 650498654 543 False 708.0 708 90.2750 340 879 1 chr7A.!!$F3 539
4 TraesCS7A01G349800 chr7D 420626529 420629389 2860 False 2237.5 4301 96.8955 978 3911 2 chr7D.!!$F1 2933
5 TraesCS7A01G349800 chr7B 436701589 436704463 2874 False 2197.0 4231 95.5960 978 3911 2 chr7B.!!$F1 2933
6 TraesCS7A01G349800 chr2D 119369990 119370535 545 True 739.0 739 91.2090 340 881 1 chr2D.!!$R1 541
7 TraesCS7A01G349800 chr5D 170318385 170318929 544 False 732.0 732 91.0420 340 881 1 chr5D.!!$F1 541
8 TraesCS7A01G349800 chr5A 259074202 259074751 549 True 726.0 726 90.7440 340 881 1 chr5A.!!$R1 541
9 TraesCS7A01G349800 chr5A 484495964 484496504 540 False 723.0 723 90.8260 340 881 1 chr5A.!!$F2 541
10 TraesCS7A01G349800 chr5A 296306496 296307042 546 False 717.0 717 90.5110 340 881 1 chr5A.!!$F1 541
11 TraesCS7A01G349800 chr6D 448624930 448625475 545 False 712.0 712 90.1430 340 893 1 chr6D.!!$F2 553

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
910 926 0.040067 GGCGACAGTTTGAAGCAAGG 60.04 55.0 0.0 0.0 0.0 3.61 F
965 981 0.319555 TGTGACGTGCTCAAGTAGGC 60.32 55.0 0.0 0.0 0.0 3.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2826 2847 0.247185 TGATGATCTCACGCTGCACA 59.753 50.00 0.0 0.0 0.00 4.57 R
2953 2989 5.661056 AAGACCATCTTCTGTCGTATGAA 57.339 39.13 0.0 0.0 36.61 2.57 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
18 19 1.646540 TCACGGTTTTGCTTCTGCG 59.353 52.632 0.00 0.00 43.34 5.18
19 20 0.812014 TCACGGTTTTGCTTCTGCGA 60.812 50.000 0.00 0.00 43.34 5.10
20 21 0.384725 CACGGTTTTGCTTCTGCGAG 60.385 55.000 0.00 0.00 43.34 5.03
21 22 0.531974 ACGGTTTTGCTTCTGCGAGA 60.532 50.000 0.00 0.00 43.34 4.04
22 23 0.164647 CGGTTTTGCTTCTGCGAGAG 59.835 55.000 0.00 0.00 43.34 3.20
23 24 0.519077 GGTTTTGCTTCTGCGAGAGG 59.481 55.000 0.00 0.00 43.34 3.69
24 25 0.110010 GTTTTGCTTCTGCGAGAGGC 60.110 55.000 11.53 11.53 46.21 4.70
41 42 2.425124 CACGGTTGTGCTTTCGCG 60.425 61.111 0.00 0.00 39.67 5.87
42 43 2.586635 ACGGTTGTGCTTTCGCGA 60.587 55.556 3.71 3.71 39.65 5.87
43 44 2.170985 CGGTTGTGCTTTCGCGAG 59.829 61.111 9.59 0.00 39.65 5.03
44 45 2.307309 CGGTTGTGCTTTCGCGAGA 61.307 57.895 9.59 3.35 39.65 4.04
45 46 1.493311 GGTTGTGCTTTCGCGAGAG 59.507 57.895 21.42 21.42 43.69 3.20
46 47 1.222115 GGTTGTGCTTTCGCGAGAGT 61.222 55.000 25.34 0.00 43.69 3.24
47 48 0.161870 GTTGTGCTTTCGCGAGAGTC 59.838 55.000 25.34 18.16 43.69 3.36
48 49 0.249280 TTGTGCTTTCGCGAGAGTCA 60.249 50.000 25.34 20.22 43.69 3.41
49 50 0.939577 TGTGCTTTCGCGAGAGTCAC 60.940 55.000 29.56 29.56 43.69 3.67
50 51 1.729484 TGCTTTCGCGAGAGTCACG 60.729 57.895 25.34 5.53 43.69 4.35
51 52 2.437343 GCTTTCGCGAGAGTCACGG 61.437 63.158 25.34 2.90 43.69 4.94
52 53 2.430244 TTTCGCGAGAGTCACGGC 60.430 61.111 9.59 3.61 43.69 5.68
53 54 3.909258 TTTCGCGAGAGTCACGGCC 62.909 63.158 9.59 0.00 43.69 6.13
70 71 2.970639 CGTGCCTCTCGGAAAGGA 59.029 61.111 0.36 0.00 35.83 3.36
71 72 1.292223 CGTGCCTCTCGGAAAGGAA 59.708 57.895 0.36 0.00 35.83 3.36
72 73 0.320421 CGTGCCTCTCGGAAAGGAAA 60.320 55.000 0.36 0.00 35.83 3.13
73 74 1.876416 CGTGCCTCTCGGAAAGGAAAA 60.876 52.381 0.36 0.00 35.83 2.29
74 75 2.227194 GTGCCTCTCGGAAAGGAAAAA 58.773 47.619 0.36 0.00 35.83 1.94
707 722 1.153901 GACGCGAGGAATCCAACGA 60.154 57.895 15.93 0.00 0.00 3.85
709 724 0.742505 ACGCGAGGAATCCAACGATA 59.257 50.000 15.93 0.00 0.00 2.92
742 757 2.879646 AGATTTGGACGCACGGTTTAAA 59.120 40.909 0.00 0.00 0.00 1.52
744 759 2.471862 TTGGACGCACGGTTTAAAAC 57.528 45.000 0.00 0.00 0.00 2.43
748 763 3.186817 TGGACGCACGGTTTAAAACATAG 59.813 43.478 3.76 0.00 0.00 2.23
786 801 4.931601 ACGGATCTACGTAAAAAGGGAAAC 59.068 41.667 0.00 0.00 46.58 2.78
787 802 5.173664 CGGATCTACGTAAAAAGGGAAACT 58.826 41.667 0.00 0.00 0.00 2.66
820 836 0.815213 AAGTGACGTGCTGCATGTGT 60.815 50.000 30.32 17.30 33.38 3.72
831 847 2.032170 GCATGTGTGCCACTTGTCA 58.968 52.632 16.78 0.00 45.76 3.58
835 851 2.275134 TGTGTGCCACTTGTCATGAT 57.725 45.000 0.00 0.00 35.11 2.45
838 854 3.007831 TGTGTGCCACTTGTCATGATCTA 59.992 43.478 0.00 0.00 35.11 1.98
873 889 4.676546 GCCTTTTGCAATGAGTATTCCTC 58.323 43.478 0.00 0.00 40.77 3.71
892 908 7.843490 TTCCTCAATTAGTTAGTGATTTCGG 57.157 36.000 0.00 0.00 0.00 4.30
893 909 5.815740 TCCTCAATTAGTTAGTGATTTCGGC 59.184 40.000 0.00 0.00 0.00 5.54
894 910 5.276868 CCTCAATTAGTTAGTGATTTCGGCG 60.277 44.000 0.00 0.00 0.00 6.46
895 911 5.412640 TCAATTAGTTAGTGATTTCGGCGA 58.587 37.500 4.99 4.99 0.00 5.54
896 912 5.290158 TCAATTAGTTAGTGATTTCGGCGAC 59.710 40.000 10.16 0.00 0.00 5.19
897 913 2.736144 AGTTAGTGATTTCGGCGACA 57.264 45.000 10.16 2.52 0.00 4.35
898 914 2.607187 AGTTAGTGATTTCGGCGACAG 58.393 47.619 10.16 0.00 0.00 3.51
899 915 2.029290 AGTTAGTGATTTCGGCGACAGT 60.029 45.455 10.16 10.42 0.00 3.55
900 916 2.735134 GTTAGTGATTTCGGCGACAGTT 59.265 45.455 10.16 0.00 0.00 3.16
901 917 1.878953 AGTGATTTCGGCGACAGTTT 58.121 45.000 10.16 0.00 0.00 2.66
902 918 1.531149 AGTGATTTCGGCGACAGTTTG 59.469 47.619 10.16 0.00 0.00 2.93
903 919 1.529438 GTGATTTCGGCGACAGTTTGA 59.471 47.619 10.16 0.00 0.00 2.69
904 920 2.032377 GTGATTTCGGCGACAGTTTGAA 60.032 45.455 10.16 0.00 0.00 2.69
905 921 2.223144 TGATTTCGGCGACAGTTTGAAG 59.777 45.455 10.16 0.00 0.00 3.02
906 922 0.306533 TTTCGGCGACAGTTTGAAGC 59.693 50.000 10.16 0.00 0.00 3.86
907 923 0.812014 TTCGGCGACAGTTTGAAGCA 60.812 50.000 10.16 0.00 0.00 3.91
908 924 0.812014 TCGGCGACAGTTTGAAGCAA 60.812 50.000 4.99 0.00 0.00 3.91
909 925 0.384725 CGGCGACAGTTTGAAGCAAG 60.385 55.000 0.00 0.00 0.00 4.01
910 926 0.040067 GGCGACAGTTTGAAGCAAGG 60.040 55.000 0.00 0.00 0.00 3.61
911 927 0.663153 GCGACAGTTTGAAGCAAGGT 59.337 50.000 0.00 0.00 0.00 3.50
912 928 1.597937 GCGACAGTTTGAAGCAAGGTG 60.598 52.381 0.00 0.00 0.00 4.00
913 929 1.597937 CGACAGTTTGAAGCAAGGTGC 60.598 52.381 0.00 0.00 45.46 5.01
923 939 3.996825 GCAAGGTGCGTCAAATAGG 57.003 52.632 0.00 0.00 31.71 2.57
924 940 0.451783 GCAAGGTGCGTCAAATAGGG 59.548 55.000 0.00 0.00 31.71 3.53
925 941 1.948611 GCAAGGTGCGTCAAATAGGGA 60.949 52.381 0.00 0.00 31.71 4.20
926 942 2.643551 CAAGGTGCGTCAAATAGGGAT 58.356 47.619 0.00 0.00 0.00 3.85
927 943 3.016736 CAAGGTGCGTCAAATAGGGATT 58.983 45.455 0.00 0.00 0.00 3.01
928 944 3.366052 AGGTGCGTCAAATAGGGATTT 57.634 42.857 0.00 0.00 35.56 2.17
929 945 3.279434 AGGTGCGTCAAATAGGGATTTC 58.721 45.455 0.00 0.00 32.73 2.17
930 946 2.357952 GGTGCGTCAAATAGGGATTTCC 59.642 50.000 0.00 0.00 32.73 3.13
932 948 3.694566 GTGCGTCAAATAGGGATTTCCTT 59.305 43.478 0.00 0.00 45.47 3.36
933 949 3.694072 TGCGTCAAATAGGGATTTCCTTG 59.306 43.478 0.00 0.00 45.47 3.61
934 950 3.066760 GCGTCAAATAGGGATTTCCTTGG 59.933 47.826 0.00 0.00 45.47 3.61
935 951 3.632145 CGTCAAATAGGGATTTCCTTGGG 59.368 47.826 0.00 0.00 45.47 4.12
936 952 4.610333 GTCAAATAGGGATTTCCTTGGGT 58.390 43.478 0.00 0.00 45.47 4.51
937 953 5.630539 CGTCAAATAGGGATTTCCTTGGGTA 60.631 44.000 0.00 0.00 45.47 3.69
938 954 6.373759 GTCAAATAGGGATTTCCTTGGGTAT 58.626 40.000 0.00 0.00 45.47 2.73
939 955 7.523415 GTCAAATAGGGATTTCCTTGGGTATA 58.477 38.462 0.00 0.00 45.47 1.47
940 956 8.170730 GTCAAATAGGGATTTCCTTGGGTATAT 58.829 37.037 0.00 0.00 45.47 0.86
941 957 8.390921 TCAAATAGGGATTTCCTTGGGTATATC 58.609 37.037 0.00 0.00 45.47 1.63
942 958 4.910458 AGGGATTTCCTTGGGTATATCG 57.090 45.455 0.00 0.00 45.47 2.92
943 959 4.499472 AGGGATTTCCTTGGGTATATCGA 58.501 43.478 0.00 0.00 45.47 3.59
944 960 4.286291 AGGGATTTCCTTGGGTATATCGAC 59.714 45.833 0.00 0.00 45.47 4.20
945 961 4.243270 GGATTTCCTTGGGTATATCGACG 58.757 47.826 0.00 0.00 0.00 5.12
946 962 4.262335 GGATTTCCTTGGGTATATCGACGT 60.262 45.833 0.00 0.00 0.00 4.34
947 963 3.720949 TTCCTTGGGTATATCGACGTG 57.279 47.619 0.00 0.00 0.00 4.49
948 964 2.658285 TCCTTGGGTATATCGACGTGT 58.342 47.619 0.00 0.00 0.00 4.49
949 965 2.359848 TCCTTGGGTATATCGACGTGTG 59.640 50.000 0.00 0.00 0.00 3.82
950 966 2.359848 CCTTGGGTATATCGACGTGTGA 59.640 50.000 0.00 0.00 0.00 3.58
951 967 3.369385 CTTGGGTATATCGACGTGTGAC 58.631 50.000 0.00 0.00 0.00 3.67
961 977 4.012554 CGTGTGACGTGCTCAAGT 57.987 55.556 0.00 0.00 36.74 3.16
962 978 3.173247 CGTGTGACGTGCTCAAGTA 57.827 52.632 0.00 0.00 36.74 2.24
963 979 1.053048 CGTGTGACGTGCTCAAGTAG 58.947 55.000 0.00 0.00 36.74 2.57
964 980 1.419374 GTGTGACGTGCTCAAGTAGG 58.581 55.000 0.00 0.00 0.00 3.18
965 981 0.319555 TGTGACGTGCTCAAGTAGGC 60.320 55.000 0.00 0.00 0.00 3.93
966 982 0.319555 GTGACGTGCTCAAGTAGGCA 60.320 55.000 0.00 0.00 36.01 4.75
969 985 3.876300 GTGCTCAAGTAGGCACGG 58.124 61.111 2.40 0.00 46.87 4.94
970 986 1.741770 GTGCTCAAGTAGGCACGGG 60.742 63.158 2.40 0.00 46.87 5.28
971 987 2.125106 GCTCAAGTAGGCACGGGG 60.125 66.667 0.00 0.00 0.00 5.73
972 988 2.125106 CTCAAGTAGGCACGGGGC 60.125 66.667 1.25 1.25 43.74 5.80
1023 1041 2.757314 GCTTCCCTCCATCCTTTCAAAG 59.243 50.000 0.00 0.00 0.00 2.77
1026 1044 2.027192 TCCCTCCATCCTTTCAAAGTCG 60.027 50.000 0.00 0.00 0.00 4.18
1075 1093 3.429141 GCCGTCTCCGTCGTCTCA 61.429 66.667 0.00 0.00 0.00 3.27
1086 1104 1.332375 CGTCGTCTCATCTCCTCTTCC 59.668 57.143 0.00 0.00 0.00 3.46
1132 1150 3.682885 CCACCGCCATTGCAGCAA 61.683 61.111 11.07 11.07 37.32 3.91
1134 1152 4.041917 ACCGCCATTGCAGCAACG 62.042 61.111 10.85 9.83 37.32 4.10
1154 1175 1.174712 CCACCTCCAAGCACCAACTG 61.175 60.000 0.00 0.00 0.00 3.16
1171 1192 2.347490 GCCACCTCGCTTCTTCCA 59.653 61.111 0.00 0.00 0.00 3.53
1318 1339 0.522180 CAAGCTCGTCGACCTGTACT 59.478 55.000 10.58 0.00 0.00 2.73
1449 1470 4.899239 GCCGCGGTGCAGCTCTAT 62.899 66.667 28.70 0.00 34.40 1.98
1450 1471 2.202932 CCGCGGTGCAGCTCTATT 60.203 61.111 19.50 0.00 34.40 1.73
1451 1472 1.067416 CCGCGGTGCAGCTCTATTA 59.933 57.895 19.50 0.00 34.40 0.98
1755 1776 2.255252 GCGCTTTCATTGTGCCGT 59.745 55.556 0.00 0.00 35.17 5.68
1912 1933 5.124617 CAGGATAAGCTGAAAACTTCCCTTC 59.875 44.000 0.00 0.00 31.70 3.46
1941 1962 2.282462 GCCAAGAGTGGGTGGGTG 60.282 66.667 0.00 0.00 46.09 4.61
2153 2174 3.432890 GGAGGGATGGTAGAAGAAGCAAG 60.433 52.174 0.00 0.00 0.00 4.01
2241 2262 4.002906 TGTAGATGTTCTTGGTCACACC 57.997 45.455 0.00 0.00 39.22 4.16
2265 2286 4.816925 GGTAGGTTTGAGGAAGCATATGAC 59.183 45.833 6.97 0.00 38.21 3.06
2274 2295 9.693739 TTTGAGGAAGCATATGACCTTATTAAA 57.306 29.630 6.97 8.82 32.53 1.52
2454 2475 3.496331 TCAGTCTGGGAAATGGGAAAAC 58.504 45.455 0.00 0.00 0.00 2.43
2532 2553 3.569701 GCAGTTGGATTGAGTTGAAAGGA 59.430 43.478 0.00 0.00 0.00 3.36
2634 2655 2.102084 TCTCATGAGTGATGCTGGCTAC 59.898 50.000 21.92 0.00 32.98 3.58
2811 2832 5.408299 CGAGGACTGTCATGTTGTTATCAAA 59.592 40.000 10.38 0.00 35.20 2.69
2821 2842 8.905702 GTCATGTTGTTATCAAACTGATTTCAC 58.094 33.333 0.00 0.00 38.26 3.18
2826 2847 9.683069 GTTGTTATCAAACTGATTTCACAGATT 57.317 29.630 0.00 0.00 38.26 2.40
2838 2859 0.165295 CACAGATTGTGCAGCGTGAG 59.835 55.000 0.00 0.00 41.89 3.51
2862 2883 6.870965 AGATCATCATAAGAGATGTTAACCGC 59.129 38.462 2.48 0.00 44.46 5.68
2918 2939 5.542779 CAAAGACTACTGGTAGCTTTCACT 58.457 41.667 18.07 5.13 37.39 3.41
2935 2956 6.198966 GCTTTCACTGTGAATAAACAAGTTGG 59.801 38.462 22.60 0.00 36.11 3.77
2936 2957 7.397892 TTTCACTGTGAATAAACAAGTTGGA 57.602 32.000 22.60 1.68 36.11 3.53
2937 2958 7.397892 TTCACTGTGAATAAACAAGTTGGAA 57.602 32.000 18.69 0.00 30.26 3.53
2940 2961 8.474025 TCACTGTGAATAAACAAGTTGGAATTT 58.526 29.630 8.27 1.68 0.00 1.82
2941 2962 8.542132 CACTGTGAATAAACAAGTTGGAATTTG 58.458 33.333 7.96 0.00 0.00 2.32
2942 2963 7.224557 ACTGTGAATAAACAAGTTGGAATTTGC 59.775 33.333 7.96 2.61 0.00 3.68
2953 2989 7.040686 ACAAGTTGGAATTTGCTCGTATTAGTT 60.041 33.333 7.96 0.00 0.00 2.24
2994 3032 3.513515 TCTTTTCCAAAACAGCACAGGTT 59.486 39.130 0.00 0.00 0.00 3.50
3085 3123 4.371786 TGTCAGAGTTCACTGTGATGTTC 58.628 43.478 11.86 9.49 45.99 3.18
3099 3137 7.011389 CACTGTGATGTTCTTCTACAAGACAAA 59.989 37.037 0.32 0.00 38.44 2.83
3290 3334 4.098807 GGTGTACACAAATTCAAGGTTGGT 59.901 41.667 26.51 0.00 0.00 3.67
3306 3363 4.714308 AGGTTGGTCTTCATGGTTTCAAAA 59.286 37.500 0.00 0.00 0.00 2.44
3307 3364 5.366477 AGGTTGGTCTTCATGGTTTCAAAAT 59.634 36.000 0.00 0.00 0.00 1.82
3308 3365 5.466393 GGTTGGTCTTCATGGTTTCAAAATG 59.534 40.000 0.00 0.00 0.00 2.32
3309 3366 5.212532 TGGTCTTCATGGTTTCAAAATGG 57.787 39.130 0.00 0.00 0.00 3.16
3310 3367 4.653341 TGGTCTTCATGGTTTCAAAATGGT 59.347 37.500 0.00 0.00 0.00 3.55
3311 3368 5.835819 TGGTCTTCATGGTTTCAAAATGGTA 59.164 36.000 0.00 0.00 0.00 3.25
3312 3369 6.325028 TGGTCTTCATGGTTTCAAAATGGTAA 59.675 34.615 0.00 0.00 0.00 2.85
3313 3370 6.868339 GGTCTTCATGGTTTCAAAATGGTAAG 59.132 38.462 0.00 0.00 0.00 2.34
3314 3371 6.366061 GTCTTCATGGTTTCAAAATGGTAAGC 59.634 38.462 0.00 0.00 0.00 3.09
3315 3372 5.798125 TCATGGTTTCAAAATGGTAAGCA 57.202 34.783 0.00 0.00 33.22 3.91
3316 3373 6.166984 TCATGGTTTCAAAATGGTAAGCAA 57.833 33.333 0.00 0.00 32.55 3.91
3317 3374 6.767456 TCATGGTTTCAAAATGGTAAGCAAT 58.233 32.000 0.00 0.00 32.55 3.56
3318 3375 7.901029 TCATGGTTTCAAAATGGTAAGCAATA 58.099 30.769 0.00 0.00 32.55 1.90
3319 3376 7.816995 TCATGGTTTCAAAATGGTAAGCAATAC 59.183 33.333 0.00 0.00 32.55 1.89
3514 3571 9.939802 AAGACGGAAATAACTATTAGAAGTTGT 57.060 29.630 0.00 0.00 39.95 3.32
3518 3576 8.447833 CGGAAATAACTATTAGAAGTTGTTGCA 58.552 33.333 0.00 0.00 39.13 4.08
3595 3653 8.711457 CATGTTCGATCTATTGTGTTGCATATA 58.289 33.333 0.00 0.00 0.00 0.86
3691 3749 2.868583 CAGATATGAAGTCTGTTGGCCG 59.131 50.000 0.00 0.00 38.58 6.13
3711 3769 5.288472 GGCCGTTTTTCTATAAGTTGCAATG 59.712 40.000 0.59 0.00 0.00 2.82
3717 3775 9.243637 GTTTTTCTATAAGTTGCAATGTTGTCA 57.756 29.630 0.59 0.00 0.00 3.58
3731 3789 7.092716 GCAATGTTGTCAAGGACTTCAAATAT 58.907 34.615 0.00 0.00 33.15 1.28
3732 3790 8.243426 GCAATGTTGTCAAGGACTTCAAATATA 58.757 33.333 0.00 0.00 33.15 0.86
3733 3791 9.559958 CAATGTTGTCAAGGACTTCAAATATAC 57.440 33.333 0.00 0.00 33.15 1.47
3734 3792 9.520515 AATGTTGTCAAGGACTTCAAATATACT 57.479 29.630 0.00 0.00 33.15 2.12
3735 3793 8.547967 TGTTGTCAAGGACTTCAAATATACTC 57.452 34.615 0.00 0.00 33.15 2.59
3736 3794 7.606456 TGTTGTCAAGGACTTCAAATATACTCC 59.394 37.037 0.00 0.00 33.15 3.85
3737 3795 6.650120 TGTCAAGGACTTCAAATATACTCCC 58.350 40.000 0.00 0.00 33.15 4.30
3738 3796 6.443849 TGTCAAGGACTTCAAATATACTCCCT 59.556 38.462 0.00 0.00 33.15 4.20
3739 3797 6.987404 GTCAAGGACTTCAAATATACTCCCTC 59.013 42.308 0.00 0.00 0.00 4.30
3740 3798 6.099845 TCAAGGACTTCAAATATACTCCCTCC 59.900 42.308 0.00 0.00 0.00 4.30
3741 3799 4.589374 AGGACTTCAAATATACTCCCTCCG 59.411 45.833 0.00 0.00 0.00 4.63
3742 3800 4.344390 GGACTTCAAATATACTCCCTCCGT 59.656 45.833 0.00 0.00 0.00 4.69
3743 3801 5.509332 GGACTTCAAATATACTCCCTCCGTC 60.509 48.000 0.00 0.00 0.00 4.79
3744 3802 4.344390 ACTTCAAATATACTCCCTCCGTCC 59.656 45.833 0.00 0.00 0.00 4.79
3745 3803 3.236896 TCAAATATACTCCCTCCGTCCC 58.763 50.000 0.00 0.00 0.00 4.46
3746 3804 2.969950 CAAATATACTCCCTCCGTCCCA 59.030 50.000 0.00 0.00 0.00 4.37
3747 3805 3.339713 AATATACTCCCTCCGTCCCAA 57.660 47.619 0.00 0.00 0.00 4.12
3748 3806 2.852714 TATACTCCCTCCGTCCCAAA 57.147 50.000 0.00 0.00 0.00 3.28
3749 3807 1.961133 ATACTCCCTCCGTCCCAAAA 58.039 50.000 0.00 0.00 0.00 2.44
3750 3808 1.961133 TACTCCCTCCGTCCCAAAAT 58.039 50.000 0.00 0.00 0.00 1.82
3751 3809 1.961133 ACTCCCTCCGTCCCAAAATA 58.039 50.000 0.00 0.00 0.00 1.40
3752 3810 2.488836 ACTCCCTCCGTCCCAAAATAT 58.511 47.619 0.00 0.00 0.00 1.28
3753 3811 3.660959 ACTCCCTCCGTCCCAAAATATA 58.339 45.455 0.00 0.00 0.00 0.86
3754 3812 4.042174 ACTCCCTCCGTCCCAAAATATAA 58.958 43.478 0.00 0.00 0.00 0.98
3755 3813 4.102681 ACTCCCTCCGTCCCAAAATATAAG 59.897 45.833 0.00 0.00 0.00 1.73
3756 3814 4.300345 TCCCTCCGTCCCAAAATATAAGA 58.700 43.478 0.00 0.00 0.00 2.10
3757 3815 4.722781 TCCCTCCGTCCCAAAATATAAGAA 59.277 41.667 0.00 0.00 0.00 2.52
3758 3816 4.820173 CCCTCCGTCCCAAAATATAAGAAC 59.180 45.833 0.00 0.00 0.00 3.01
3759 3817 4.510340 CCTCCGTCCCAAAATATAAGAACG 59.490 45.833 0.00 0.00 0.00 3.95
3760 3818 5.088680 TCCGTCCCAAAATATAAGAACGT 57.911 39.130 0.00 0.00 0.00 3.99
3761 3819 5.490159 TCCGTCCCAAAATATAAGAACGTT 58.510 37.500 0.00 0.00 0.00 3.99
3762 3820 5.939296 TCCGTCCCAAAATATAAGAACGTTT 59.061 36.000 0.46 0.00 0.00 3.60
3763 3821 6.430616 TCCGTCCCAAAATATAAGAACGTTTT 59.569 34.615 0.46 0.00 0.00 2.43
3764 3822 7.040548 TCCGTCCCAAAATATAAGAACGTTTTT 60.041 33.333 9.22 9.22 0.00 1.94
3792 3850 7.138692 ACTATACTAGTGTCGAAAACGTTCT 57.861 36.000 5.39 0.00 37.69 3.01
3793 3851 7.588512 ACTATACTAGTGTCGAAAACGTTCTT 58.411 34.615 5.39 0.00 37.69 2.52
3794 3852 8.721478 ACTATACTAGTGTCGAAAACGTTCTTA 58.279 33.333 5.39 0.00 37.69 2.10
3795 3853 9.713740 CTATACTAGTGTCGAAAACGTTCTTAT 57.286 33.333 5.39 0.00 0.00 1.73
3798 3856 8.976986 ACTAGTGTCGAAAACGTTCTTATATT 57.023 30.769 0.00 0.00 0.00 1.28
3799 3857 9.415544 ACTAGTGTCGAAAACGTTCTTATATTT 57.584 29.630 0.00 0.00 0.00 1.40
3801 3859 8.928844 AGTGTCGAAAACGTTCTTATATTTTG 57.071 30.769 0.00 0.00 0.00 2.44
3802 3860 8.013378 AGTGTCGAAAACGTTCTTATATTTTGG 58.987 33.333 0.00 0.00 0.00 3.28
3803 3861 7.269724 GTGTCGAAAACGTTCTTATATTTTGGG 59.730 37.037 0.00 0.00 0.00 4.12
3804 3862 7.172875 TGTCGAAAACGTTCTTATATTTTGGGA 59.827 33.333 0.00 0.00 0.00 4.37
3805 3863 7.479603 GTCGAAAACGTTCTTATATTTTGGGAC 59.520 37.037 0.00 0.00 0.00 4.46
3806 3864 7.172875 TCGAAAACGTTCTTATATTTTGGGACA 59.827 33.333 0.00 0.00 0.00 4.02
3807 3865 7.480542 CGAAAACGTTCTTATATTTTGGGACAG 59.519 37.037 0.00 0.00 42.39 3.51
3808 3866 7.989416 AAACGTTCTTATATTTTGGGACAGA 57.011 32.000 0.00 0.00 42.39 3.41
3809 3867 7.611213 AACGTTCTTATATTTTGGGACAGAG 57.389 36.000 0.00 0.00 42.39 3.35
3810 3868 6.113411 ACGTTCTTATATTTTGGGACAGAGG 58.887 40.000 0.00 0.00 42.39 3.69
3811 3869 5.527582 CGTTCTTATATTTTGGGACAGAGGG 59.472 44.000 0.00 0.00 42.39 4.30
3812 3870 6.631766 CGTTCTTATATTTTGGGACAGAGGGA 60.632 42.308 0.00 0.00 42.39 4.20
3813 3871 6.500589 TCTTATATTTTGGGACAGAGGGAG 57.499 41.667 0.00 0.00 42.39 4.30
3884 3942 6.491394 TGAGAACTTTGATTTGGTGTTAACG 58.509 36.000 0.26 0.00 0.00 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.812014 TCGCAGAAGCAAAACCGTGA 60.812 50.000 0.00 0.00 42.27 4.35
1 2 0.384725 CTCGCAGAAGCAAAACCGTG 60.385 55.000 0.00 0.00 42.27 4.94
2 3 0.531974 TCTCGCAGAAGCAAAACCGT 60.532 50.000 0.00 0.00 42.27 4.83
3 4 0.164647 CTCTCGCAGAAGCAAAACCG 59.835 55.000 0.00 0.00 42.27 4.44
4 5 0.519077 CCTCTCGCAGAAGCAAAACC 59.481 55.000 0.00 0.00 42.27 3.27
5 6 0.110010 GCCTCTCGCAGAAGCAAAAC 60.110 55.000 2.95 0.00 42.27 2.43
6 7 0.534877 TGCCTCTCGCAGAAGCAAAA 60.535 50.000 6.89 0.00 44.64 2.44
7 8 1.071299 TGCCTCTCGCAGAAGCAAA 59.929 52.632 6.89 0.00 44.64 3.68
8 9 2.743060 TGCCTCTCGCAGAAGCAA 59.257 55.556 6.89 0.00 44.64 3.91
16 17 3.414700 CACAACCGTGCCTCTCGC 61.415 66.667 0.00 0.00 36.06 5.03
536 546 2.998667 GTGCCTCTCGCGAAATCG 59.001 61.111 11.33 0.00 42.08 3.34
707 722 5.390145 CGTCCAAATCTCGAACCGTTTTTAT 60.390 40.000 0.00 0.00 0.00 1.40
709 724 3.303526 CGTCCAAATCTCGAACCGTTTTT 60.304 43.478 0.00 0.00 0.00 1.94
774 789 5.666462 GCAACCTGAAAGTTTCCCTTTTTA 58.334 37.500 13.01 0.00 43.47 1.52
786 801 1.939934 TCACTTGTCGCAACCTGAAAG 59.060 47.619 0.00 0.00 0.00 2.62
787 802 1.668751 GTCACTTGTCGCAACCTGAAA 59.331 47.619 0.00 0.00 0.00 2.69
868 884 6.315393 GCCGAAATCACTAACTAATTGAGGAA 59.685 38.462 0.00 0.00 0.00 3.36
873 889 5.062934 TGTCGCCGAAATCACTAACTAATTG 59.937 40.000 0.00 0.00 0.00 2.32
881 897 2.734606 CAAACTGTCGCCGAAATCACTA 59.265 45.455 0.00 0.00 0.00 2.74
883 899 1.529438 TCAAACTGTCGCCGAAATCAC 59.471 47.619 0.00 0.00 0.00 3.06
885 901 2.839474 CTTCAAACTGTCGCCGAAATC 58.161 47.619 0.00 0.00 0.00 2.17
886 902 1.069227 GCTTCAAACTGTCGCCGAAAT 60.069 47.619 0.00 0.00 0.00 2.17
887 903 0.306533 GCTTCAAACTGTCGCCGAAA 59.693 50.000 0.00 0.00 0.00 3.46
888 904 0.812014 TGCTTCAAACTGTCGCCGAA 60.812 50.000 0.00 0.00 0.00 4.30
889 905 0.812014 TTGCTTCAAACTGTCGCCGA 60.812 50.000 0.00 0.00 0.00 5.54
890 906 0.384725 CTTGCTTCAAACTGTCGCCG 60.385 55.000 0.00 0.00 0.00 6.46
891 907 0.040067 CCTTGCTTCAAACTGTCGCC 60.040 55.000 0.00 0.00 0.00 5.54
892 908 0.663153 ACCTTGCTTCAAACTGTCGC 59.337 50.000 0.00 0.00 0.00 5.19
893 909 1.597937 GCACCTTGCTTCAAACTGTCG 60.598 52.381 0.00 0.00 40.96 4.35
894 910 1.597937 CGCACCTTGCTTCAAACTGTC 60.598 52.381 0.00 0.00 42.25 3.51
895 911 0.381801 CGCACCTTGCTTCAAACTGT 59.618 50.000 0.00 0.00 42.25 3.55
896 912 0.381801 ACGCACCTTGCTTCAAACTG 59.618 50.000 0.00 0.00 42.25 3.16
897 913 0.663153 GACGCACCTTGCTTCAAACT 59.337 50.000 0.13 0.00 40.80 2.66
898 914 0.380378 TGACGCACCTTGCTTCAAAC 59.620 50.000 4.98 0.00 46.46 2.93
899 915 2.787191 TGACGCACCTTGCTTCAAA 58.213 47.368 4.98 0.00 46.46 2.69
900 916 4.549793 TGACGCACCTTGCTTCAA 57.450 50.000 4.98 0.00 46.46 2.69
902 918 2.159517 CCTATTTGACGCACCTTGCTTC 60.160 50.000 0.00 0.00 42.25 3.86
903 919 1.812571 CCTATTTGACGCACCTTGCTT 59.187 47.619 0.00 0.00 42.25 3.91
904 920 1.453155 CCTATTTGACGCACCTTGCT 58.547 50.000 0.00 0.00 42.25 3.91
905 921 0.451783 CCCTATTTGACGCACCTTGC 59.548 55.000 0.00 0.00 40.69 4.01
906 922 2.107950 TCCCTATTTGACGCACCTTG 57.892 50.000 0.00 0.00 0.00 3.61
907 923 3.366052 AATCCCTATTTGACGCACCTT 57.634 42.857 0.00 0.00 0.00 3.50
908 924 3.279434 GAAATCCCTATTTGACGCACCT 58.721 45.455 0.00 0.00 35.41 4.00
909 925 2.357952 GGAAATCCCTATTTGACGCACC 59.642 50.000 0.00 0.00 35.41 5.01
910 926 3.279434 AGGAAATCCCTATTTGACGCAC 58.721 45.455 0.00 0.00 45.48 5.34
911 927 3.644966 AGGAAATCCCTATTTGACGCA 57.355 42.857 0.00 0.00 45.48 5.24
922 938 4.576879 GTCGATATACCCAAGGAAATCCC 58.423 47.826 0.00 0.00 36.42 3.85
923 939 4.243270 CGTCGATATACCCAAGGAAATCC 58.757 47.826 0.00 0.00 0.00 3.01
924 940 4.684703 CACGTCGATATACCCAAGGAAATC 59.315 45.833 0.00 0.00 0.00 2.17
925 941 4.100498 ACACGTCGATATACCCAAGGAAAT 59.900 41.667 0.00 0.00 0.00 2.17
926 942 3.448301 ACACGTCGATATACCCAAGGAAA 59.552 43.478 0.00 0.00 0.00 3.13
927 943 3.025978 ACACGTCGATATACCCAAGGAA 58.974 45.455 0.00 0.00 0.00 3.36
928 944 2.359848 CACACGTCGATATACCCAAGGA 59.640 50.000 0.00 0.00 0.00 3.36
929 945 2.359848 TCACACGTCGATATACCCAAGG 59.640 50.000 0.00 0.00 0.00 3.61
930 946 3.369385 GTCACACGTCGATATACCCAAG 58.631 50.000 0.00 0.00 0.00 3.61
931 947 2.223317 CGTCACACGTCGATATACCCAA 60.223 50.000 0.00 0.00 36.74 4.12
932 948 1.331447 CGTCACACGTCGATATACCCA 59.669 52.381 0.00 0.00 36.74 4.51
933 949 2.028287 CGTCACACGTCGATATACCC 57.972 55.000 0.00 0.00 36.74 3.69
945 961 1.419374 CCTACTTGAGCACGTCACAC 58.581 55.000 0.00 0.00 33.71 3.82
946 962 0.319555 GCCTACTTGAGCACGTCACA 60.320 55.000 0.00 0.00 33.71 3.58
947 963 0.319555 TGCCTACTTGAGCACGTCAC 60.320 55.000 0.00 0.00 33.71 3.67
948 964 2.046108 TGCCTACTTGAGCACGTCA 58.954 52.632 0.00 0.00 33.08 4.35
949 965 4.988065 TGCCTACTTGAGCACGTC 57.012 55.556 0.00 0.00 33.08 4.34
953 969 2.662596 CCCGTGCCTACTTGAGCA 59.337 61.111 0.00 0.00 36.44 4.26
954 970 2.125106 CCCCGTGCCTACTTGAGC 60.125 66.667 0.00 0.00 0.00 4.26
955 971 2.125106 GCCCCGTGCCTACTTGAG 60.125 66.667 0.00 0.00 0.00 3.02
964 980 3.740397 GTTAAACCGGCCCCGTGC 61.740 66.667 0.00 0.00 37.81 5.34
965 981 3.057548 GGTTAAACCGGCCCCGTG 61.058 66.667 0.00 0.15 37.81 4.94
996 1014 0.250081 GGATGGAGGGAAGCATCGTC 60.250 60.000 0.00 0.00 0.00 4.20
1023 1041 3.824510 GACGGCGCGTTTCTCGAC 61.825 66.667 6.90 1.58 41.37 4.20
1026 1044 3.774702 GGTGACGGCGCGTTTCTC 61.775 66.667 6.90 2.70 41.37 2.87
1075 1093 0.758685 CTGCCGAGGGAAGAGGAGAT 60.759 60.000 0.00 0.00 26.79 2.75
1086 1104 2.125106 GTTGTAGCCCTGCCGAGG 60.125 66.667 0.00 0.00 39.42 4.63
1132 1150 4.643387 GGTGCTTGGAGGTGGCGT 62.643 66.667 0.00 0.00 0.00 5.68
1134 1152 2.203480 TTGGTGCTTGGAGGTGGC 60.203 61.111 0.00 0.00 0.00 5.01
1154 1175 2.035442 GTGGAAGAAGCGAGGTGGC 61.035 63.158 0.00 0.00 0.00 5.01
1171 1192 3.514309 GTGTAGTGGTGGTAGGAATGAGT 59.486 47.826 0.00 0.00 0.00 3.41
1236 1257 4.124943 CCATGGAGCTGCCTGCCT 62.125 66.667 5.56 0.00 44.23 4.75
1449 1470 1.148273 GTGCTCCGCCATCCCATAA 59.852 57.895 0.00 0.00 0.00 1.90
1450 1471 2.828868 GTGCTCCGCCATCCCATA 59.171 61.111 0.00 0.00 0.00 2.74
1451 1472 4.552365 CGTGCTCCGCCATCCCAT 62.552 66.667 0.00 0.00 0.00 4.00
1605 1626 0.862490 TGGCGTACATGTCAACAACG 59.138 50.000 12.60 12.60 36.67 4.10
1686 1707 2.352651 AGCAATCATCGAATTCCACACG 59.647 45.455 0.00 0.00 0.00 4.49
1755 1776 3.719268 ACACCATTAGAAGCCATGTCA 57.281 42.857 0.00 0.00 0.00 3.58
1912 1933 2.941064 CACTCTTGGCATACATGTCCAG 59.059 50.000 0.00 0.00 36.10 3.86
1941 1962 2.029844 GAGAACACGAGCCACCTGC 61.030 63.158 0.00 0.00 41.71 4.85
2043 2064 7.264947 CCCTCATTTTGTTAAACAGTTCAAGT 58.735 34.615 0.00 0.00 0.00 3.16
2153 2174 4.278975 ACCATCAGACCAAAGAACTCTC 57.721 45.455 0.00 0.00 0.00 3.20
2241 2262 2.403252 ATGCTTCCTCAAACCTACCG 57.597 50.000 0.00 0.00 0.00 4.02
2274 2295 6.962182 TGAATCTGGTTTGATAGACATTCCT 58.038 36.000 0.00 0.00 0.00 3.36
2454 2475 1.871772 CTTTCTCACCCTTGCAGCG 59.128 57.895 0.00 0.00 0.00 5.18
2532 2553 6.211384 CCCCAACTAGAAATCCATGAGTTTTT 59.789 38.462 0.00 0.00 0.00 1.94
2596 2617 5.832595 TCATGAGACCTTCCAATCTCTCTAG 59.167 44.000 0.00 0.00 41.69 2.43
2669 2690 8.222637 TCACCATATTCCTCTTTTCATCATCAT 58.777 33.333 0.00 0.00 0.00 2.45
2821 2842 1.326852 GATCTCACGCTGCACAATCTG 59.673 52.381 0.00 0.00 0.00 2.90
2826 2847 0.247185 TGATGATCTCACGCTGCACA 59.753 50.000 0.00 0.00 0.00 4.57
2838 2859 6.870965 AGCGGTTAACATCTCTTATGATGATC 59.129 38.462 8.10 0.00 44.71 2.92
2918 2939 7.271511 AGCAAATTCCAACTTGTTTATTCACA 58.728 30.769 0.00 0.00 0.00 3.58
2953 2989 5.661056 AAGACCATCTTCTGTCGTATGAA 57.339 39.130 0.00 0.00 36.61 2.57
2994 3032 4.644685 ACTGAGCTGTTTTCTTTTTGGCTA 59.355 37.500 0.00 0.00 0.00 3.93
3026 3064 5.124457 CACAGATTTCCAGTCAATTCCGAAT 59.876 40.000 0.00 0.00 0.00 3.34
3031 3069 6.917533 ACAATCACAGATTTCCAGTCAATTC 58.082 36.000 0.00 0.00 0.00 2.17
3034 3072 5.471116 CAGACAATCACAGATTTCCAGTCAA 59.529 40.000 9.26 0.00 0.00 3.18
3112 3150 0.959372 GCAACTCTGTGCTGGCTCAT 60.959 55.000 0.00 0.00 41.51 2.90
3191 3233 4.645667 TGAACACGATCATGTTTCTTCG 57.354 40.909 8.78 0.00 42.89 3.79
3266 3310 4.098654 CCAACCTTGAATTTGTGTACACCA 59.901 41.667 22.91 9.81 0.00 4.17
3290 3334 6.041409 TGCTTACCATTTTGAAACCATGAAGA 59.959 34.615 0.00 0.00 0.00 2.87
3306 3363 5.075761 TCCCCCATTATGTATTGCTTACCAT 59.924 40.000 0.00 0.00 0.00 3.55
3307 3364 4.417183 TCCCCCATTATGTATTGCTTACCA 59.583 41.667 0.00 0.00 0.00 3.25
3308 3365 4.993028 TCCCCCATTATGTATTGCTTACC 58.007 43.478 0.00 0.00 0.00 2.85
3309 3366 6.969993 TTTCCCCCATTATGTATTGCTTAC 57.030 37.500 0.00 0.00 0.00 2.34
3310 3367 8.010105 AGATTTTCCCCCATTATGTATTGCTTA 58.990 33.333 0.00 0.00 0.00 3.09
3311 3368 6.845975 AGATTTTCCCCCATTATGTATTGCTT 59.154 34.615 0.00 0.00 0.00 3.91
3312 3369 6.384603 AGATTTTCCCCCATTATGTATTGCT 58.615 36.000 0.00 0.00 0.00 3.91
3313 3370 6.570378 CGAGATTTTCCCCCATTATGTATTGC 60.570 42.308 0.00 0.00 0.00 3.56
3314 3371 6.490040 ACGAGATTTTCCCCCATTATGTATTG 59.510 38.462 0.00 0.00 0.00 1.90
3315 3372 6.610830 ACGAGATTTTCCCCCATTATGTATT 58.389 36.000 0.00 0.00 0.00 1.89
3316 3373 6.200878 ACGAGATTTTCCCCCATTATGTAT 57.799 37.500 0.00 0.00 0.00 2.29
3317 3374 5.640158 ACGAGATTTTCCCCCATTATGTA 57.360 39.130 0.00 0.00 0.00 2.29
3318 3375 4.519906 ACGAGATTTTCCCCCATTATGT 57.480 40.909 0.00 0.00 0.00 2.29
3319 3376 5.009010 CAGAACGAGATTTTCCCCCATTATG 59.991 44.000 0.00 0.00 0.00 1.90
3492 3549 8.447833 TGCAACAACTTCTAATAGTTATTTCCG 58.552 33.333 0.00 0.00 36.24 4.30
3595 3653 6.846505 TCCCACCAGACAGAAGAATAGAATAT 59.153 38.462 0.00 0.00 0.00 1.28
3599 3657 4.061131 TCCCACCAGACAGAAGAATAGA 57.939 45.455 0.00 0.00 0.00 1.98
3691 3749 9.243637 TGACAACATTGCAACTTATAGAAAAAC 57.756 29.630 0.00 0.00 0.00 2.43
3711 3769 7.065923 GGGAGTATATTTGAAGTCCTTGACAAC 59.934 40.741 0.00 0.00 35.80 3.32
3717 3775 5.070580 CGGAGGGAGTATATTTGAAGTCCTT 59.929 44.000 0.00 0.00 35.80 3.36
3731 3789 1.961133 ATTTTGGGACGGAGGGAGTA 58.039 50.000 0.00 0.00 0.00 2.59
3732 3790 1.961133 TATTTTGGGACGGAGGGAGT 58.039 50.000 0.00 0.00 0.00 3.85
3733 3791 4.347000 TCTTATATTTTGGGACGGAGGGAG 59.653 45.833 0.00 0.00 0.00 4.30
3734 3792 4.300345 TCTTATATTTTGGGACGGAGGGA 58.700 43.478 0.00 0.00 0.00 4.20
3735 3793 4.699925 TCTTATATTTTGGGACGGAGGG 57.300 45.455 0.00 0.00 0.00 4.30
3736 3794 4.510340 CGTTCTTATATTTTGGGACGGAGG 59.490 45.833 0.00 0.00 0.00 4.30
3737 3795 5.114081 ACGTTCTTATATTTTGGGACGGAG 58.886 41.667 0.00 0.00 0.00 4.63
3738 3796 5.088680 ACGTTCTTATATTTTGGGACGGA 57.911 39.130 0.00 0.00 0.00 4.69
3739 3797 5.806366 AACGTTCTTATATTTTGGGACGG 57.194 39.130 0.00 0.00 0.00 4.79
3782 3840 8.508875 TCTGTCCCAAAATATAAGAACGTTTTC 58.491 33.333 0.46 0.00 0.00 2.29
3783 3841 8.398878 TCTGTCCCAAAATATAAGAACGTTTT 57.601 30.769 0.46 0.00 0.00 2.43
3784 3842 7.120726 CCTCTGTCCCAAAATATAAGAACGTTT 59.879 37.037 0.46 0.00 0.00 3.60
3785 3843 6.598064 CCTCTGTCCCAAAATATAAGAACGTT 59.402 38.462 0.00 0.00 0.00 3.99
3786 3844 6.113411 CCTCTGTCCCAAAATATAAGAACGT 58.887 40.000 0.00 0.00 0.00 3.99
3787 3845 5.527582 CCCTCTGTCCCAAAATATAAGAACG 59.472 44.000 0.00 0.00 0.00 3.95
3788 3846 6.659824 TCCCTCTGTCCCAAAATATAAGAAC 58.340 40.000 0.00 0.00 0.00 3.01
3789 3847 6.447084 ACTCCCTCTGTCCCAAAATATAAGAA 59.553 38.462 0.00 0.00 0.00 2.52
3790 3848 5.970640 ACTCCCTCTGTCCCAAAATATAAGA 59.029 40.000 0.00 0.00 0.00 2.10
3791 3849 6.253946 ACTCCCTCTGTCCCAAAATATAAG 57.746 41.667 0.00 0.00 0.00 1.73
3792 3850 7.404980 ACTTACTCCCTCTGTCCCAAAATATAA 59.595 37.037 0.00 0.00 0.00 0.98
3793 3851 6.906901 ACTTACTCCCTCTGTCCCAAAATATA 59.093 38.462 0.00 0.00 0.00 0.86
3794 3852 5.731678 ACTTACTCCCTCTGTCCCAAAATAT 59.268 40.000 0.00 0.00 0.00 1.28
3795 3853 5.098663 ACTTACTCCCTCTGTCCCAAAATA 58.901 41.667 0.00 0.00 0.00 1.40
3796 3854 3.916989 ACTTACTCCCTCTGTCCCAAAAT 59.083 43.478 0.00 0.00 0.00 1.82
3797 3855 3.323775 ACTTACTCCCTCTGTCCCAAAA 58.676 45.455 0.00 0.00 0.00 2.44
3798 3856 2.986050 ACTTACTCCCTCTGTCCCAAA 58.014 47.619 0.00 0.00 0.00 3.28
3799 3857 2.715763 ACTTACTCCCTCTGTCCCAA 57.284 50.000 0.00 0.00 0.00 4.12
3800 3858 2.111972 AGAACTTACTCCCTCTGTCCCA 59.888 50.000 0.00 0.00 0.00 4.37
3801 3859 2.822697 AGAACTTACTCCCTCTGTCCC 58.177 52.381 0.00 0.00 0.00 4.46
3802 3860 4.771054 TGTAAGAACTTACTCCCTCTGTCC 59.229 45.833 20.43 0.00 44.21 4.02
3803 3861 5.979288 TGTAAGAACTTACTCCCTCTGTC 57.021 43.478 20.43 0.00 44.21 3.51
3804 3862 6.326843 ACTTTGTAAGAACTTACTCCCTCTGT 59.673 38.462 20.43 10.15 44.21 3.41
3805 3863 6.760291 ACTTTGTAAGAACTTACTCCCTCTG 58.240 40.000 20.43 9.71 44.21 3.35
3806 3864 6.997942 ACTTTGTAAGAACTTACTCCCTCT 57.002 37.500 20.43 2.19 44.21 3.69
3807 3865 6.812656 GCTACTTTGTAAGAACTTACTCCCTC 59.187 42.308 20.43 5.71 44.21 4.30
3808 3866 6.269307 TGCTACTTTGTAAGAACTTACTCCCT 59.731 38.462 20.43 7.89 44.21 4.20
3809 3867 6.368243 GTGCTACTTTGTAAGAACTTACTCCC 59.632 42.308 20.43 7.31 44.21 4.30
3810 3868 6.927381 TGTGCTACTTTGTAAGAACTTACTCC 59.073 38.462 20.43 1.44 44.21 3.85
3811 3869 7.941795 TGTGCTACTTTGTAAGAACTTACTC 57.058 36.000 20.43 2.02 44.21 2.59
3812 3870 8.774586 CATTGTGCTACTTTGTAAGAACTTACT 58.225 33.333 20.43 7.52 44.21 2.24
3813 3871 8.770828 TCATTGTGCTACTTTGTAAGAACTTAC 58.229 33.333 15.22 15.22 44.16 2.34


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

AutoCloner maintained by Alex Coulton.