Multiple sequence alignment - TraesCS7A01G533500

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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 TraesCS7A01G533500 chr7A 100.000 2854 0 0 588 3441 712052596 712049743 0.000000e+00 5271
1 TraesCS7A01G533500 chr7A 100.000 117 0 0 1 117 712053183 712053067 2.080000e-52 217
2 TraesCS7A01G533500 chr7B 92.742 1915 124 9 743 2645 712725923 712724012 0.000000e+00 2752
3 TraesCS7A01G533500 chr7D 91.812 2003 109 10 640 2640 618314572 618312623 0.000000e+00 2739
4 TraesCS7A01G533500 chr7D 91.745 533 39 3 2914 3441 266323221 266322689 0.000000e+00 736
5 TraesCS7A01G533500 chr7D 91.778 523 43 0 2915 3437 163001638 163002160 0.000000e+00 728
6 TraesCS7A01G533500 chr7D 90.772 531 44 4 2915 3441 568654165 568653636 0.000000e+00 704
7 TraesCS7A01G533500 chr7D 92.905 296 9 4 2624 2919 618312427 618312144 1.480000e-113 420
8 TraesCS7A01G533500 chr1B 79.893 1308 199 39 1152 2427 10088786 10087511 0.000000e+00 900
9 TraesCS7A01G533500 chr1D 79.832 1309 201 39 1152 2427 7906948 7905670 0.000000e+00 896
10 TraesCS7A01G533500 chr1A 79.237 1310 208 41 1152 2427 9563010 9561731 0.000000e+00 854
11 TraesCS7A01G533500 chr1A 78.779 344 54 14 1780 2116 9367465 9367134 2.690000e-51 213
12 TraesCS7A01G533500 chr4D 92.817 529 33 3 2918 3441 32248312 32247784 0.000000e+00 761
13 TraesCS7A01G533500 chr5D 91.917 532 38 3 2911 3438 389700375 389700905 0.000000e+00 739
14 TraesCS7A01G533500 chr5B 91.667 528 40 2 2915 3438 704553655 704554182 0.000000e+00 728
15 TraesCS7A01G533500 chr6B 91.635 526 41 2 2918 3441 184356018 184355494 0.000000e+00 725
16 TraesCS7A01G533500 chr3D 91.082 527 44 2 2915 3441 114228750 114228227 0.000000e+00 710
17 TraesCS7A01G533500 chr6D 90.755 530 45 4 2915 3441 143085434 143084906 0.000000e+00 704


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 TraesCS7A01G533500 chr7A 712049743 712053183 3440 True 2744.0 5271 100.0000 1 3441 2 chr7A.!!$R1 3440
1 TraesCS7A01G533500 chr7B 712724012 712725923 1911 True 2752.0 2752 92.7420 743 2645 1 chr7B.!!$R1 1902
2 TraesCS7A01G533500 chr7D 618312144 618314572 2428 True 1579.5 2739 92.3585 640 2919 2 chr7D.!!$R3 2279
3 TraesCS7A01G533500 chr7D 266322689 266323221 532 True 736.0 736 91.7450 2914 3441 1 chr7D.!!$R1 527
4 TraesCS7A01G533500 chr7D 163001638 163002160 522 False 728.0 728 91.7780 2915 3437 1 chr7D.!!$F1 522
5 TraesCS7A01G533500 chr7D 568653636 568654165 529 True 704.0 704 90.7720 2915 3441 1 chr7D.!!$R2 526
6 TraesCS7A01G533500 chr1B 10087511 10088786 1275 True 900.0 900 79.8930 1152 2427 1 chr1B.!!$R1 1275
7 TraesCS7A01G533500 chr1D 7905670 7906948 1278 True 896.0 896 79.8320 1152 2427 1 chr1D.!!$R1 1275
8 TraesCS7A01G533500 chr1A 9561731 9563010 1279 True 854.0 854 79.2370 1152 2427 1 chr1A.!!$R2 1275
9 TraesCS7A01G533500 chr4D 32247784 32248312 528 True 761.0 761 92.8170 2918 3441 1 chr4D.!!$R1 523
10 TraesCS7A01G533500 chr5D 389700375 389700905 530 False 739.0 739 91.9170 2911 3438 1 chr5D.!!$F1 527
11 TraesCS7A01G533500 chr5B 704553655 704554182 527 False 728.0 728 91.6670 2915 3438 1 chr5B.!!$F1 523
12 TraesCS7A01G533500 chr6B 184355494 184356018 524 True 725.0 725 91.6350 2918 3441 1 chr6B.!!$R1 523
13 TraesCS7A01G533500 chr3D 114228227 114228750 523 True 710.0 710 91.0820 2915 3441 1 chr3D.!!$R1 526
14 TraesCS7A01G533500 chr6D 143084906 143085434 528 True 704.0 704 90.7550 2915 3441 1 chr6D.!!$R1 526

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
88 89 0.036671 GTCAAGAGGGTTACGGGGTG 60.037 60.0 0.0 0.00 0.00 4.61 F
93 94 0.036671 GAGGGTTACGGGGTGACTTG 60.037 60.0 0.0 0.00 0.00 3.16 F
96 97 0.107268 GGTTACGGGGTGACTTGTGT 59.893 55.0 0.0 0.00 0.00 3.72 F
887 897 0.305922 GCTAGCTGTTGGCATTAGCG 59.694 55.0 7.7 6.11 44.79 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1239 1258 0.183731 GGAAGCCGGGATCAAGGAAT 59.816 55.000 2.18 0.00 0.00 3.01 R
1856 1891 0.302890 GCAATGCAGTAGCTAGCACG 59.697 55.000 18.83 10.20 44.49 5.34 R
2014 2054 1.451927 TGGATTGCTTAGCGCCCAG 60.452 57.895 2.29 0.25 38.05 4.45 R
2473 2519 0.316196 GTGAAGTTCGTGTGTGCAGC 60.316 55.000 0.00 0.00 0.00 5.25 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
26 27 5.841957 AGCCATATGGTTGAAACAGATTC 57.158 39.130 22.79 1.55 36.67 2.52
27 28 4.646492 AGCCATATGGTTGAAACAGATTCC 59.354 41.667 22.79 1.11 35.87 3.01
28 29 4.498009 GCCATATGGTTGAAACAGATTCCG 60.498 45.833 22.79 0.00 35.87 4.30
29 30 4.640201 CCATATGGTTGAAACAGATTCCGT 59.360 41.667 14.09 0.00 37.22 4.69
30 31 5.125417 CCATATGGTTGAAACAGATTCCGTT 59.875 40.000 14.09 0.00 37.22 4.44
31 32 6.317642 CCATATGGTTGAAACAGATTCCGTTA 59.682 38.462 14.09 0.00 37.22 3.18
32 33 7.013274 CCATATGGTTGAAACAGATTCCGTTAT 59.987 37.037 14.09 0.00 37.22 1.89
33 34 5.873179 TGGTTGAAACAGATTCCGTTATC 57.127 39.130 0.00 0.00 37.22 1.75
34 35 4.698304 TGGTTGAAACAGATTCCGTTATCC 59.302 41.667 0.00 0.00 37.22 2.59
35 36 4.941873 GGTTGAAACAGATTCCGTTATCCT 59.058 41.667 0.00 0.00 37.22 3.24
36 37 5.163754 GGTTGAAACAGATTCCGTTATCCTG 60.164 44.000 0.00 0.00 37.22 3.86
37 38 5.414789 TGAAACAGATTCCGTTATCCTGA 57.585 39.130 0.00 0.00 37.22 3.86
38 39 5.800296 TGAAACAGATTCCGTTATCCTGAA 58.200 37.500 0.00 0.00 37.22 3.02
39 40 6.234920 TGAAACAGATTCCGTTATCCTGAAA 58.765 36.000 0.00 0.00 37.22 2.69
40 41 6.371548 TGAAACAGATTCCGTTATCCTGAAAG 59.628 38.462 0.00 0.00 37.22 2.62
41 42 4.192317 ACAGATTCCGTTATCCTGAAAGC 58.808 43.478 0.00 0.00 0.00 3.51
42 43 4.080863 ACAGATTCCGTTATCCTGAAAGCT 60.081 41.667 0.00 0.00 0.00 3.74
43 44 4.878397 CAGATTCCGTTATCCTGAAAGCTT 59.122 41.667 0.00 0.00 0.00 3.74
44 45 5.355350 CAGATTCCGTTATCCTGAAAGCTTT 59.645 40.000 12.53 12.53 0.00 3.51
45 46 5.355350 AGATTCCGTTATCCTGAAAGCTTTG 59.645 40.000 18.30 2.65 0.00 2.77
46 47 2.747446 TCCGTTATCCTGAAAGCTTTGC 59.253 45.455 18.30 8.93 0.00 3.68
47 48 2.749621 CCGTTATCCTGAAAGCTTTGCT 59.250 45.455 18.30 0.00 42.56 3.91
48 49 3.938963 CCGTTATCCTGAAAGCTTTGCTA 59.061 43.478 18.30 1.77 38.25 3.49
49 50 4.201822 CCGTTATCCTGAAAGCTTTGCTAC 60.202 45.833 18.30 2.21 38.25 3.58
50 51 4.391830 CGTTATCCTGAAAGCTTTGCTACA 59.608 41.667 18.30 7.29 38.25 2.74
51 52 5.631992 GTTATCCTGAAAGCTTTGCTACAC 58.368 41.667 18.30 0.99 38.25 2.90
52 53 2.504367 TCCTGAAAGCTTTGCTACACC 58.496 47.619 18.30 0.19 38.25 4.16
53 54 2.106511 TCCTGAAAGCTTTGCTACACCT 59.893 45.455 18.30 0.00 38.25 4.00
54 55 3.326588 TCCTGAAAGCTTTGCTACACCTA 59.673 43.478 18.30 0.00 38.25 3.08
55 56 3.437049 CCTGAAAGCTTTGCTACACCTAC 59.563 47.826 18.30 0.00 38.25 3.18
56 57 3.064207 TGAAAGCTTTGCTACACCTACG 58.936 45.455 18.30 0.00 38.25 3.51
57 58 2.833631 AAGCTTTGCTACACCTACGT 57.166 45.000 0.00 0.00 38.25 3.57
58 59 2.080286 AGCTTTGCTACACCTACGTG 57.920 50.000 0.00 0.00 46.11 4.49
59 60 1.616865 AGCTTTGCTACACCTACGTGA 59.383 47.619 0.00 0.00 43.45 4.35
60 61 1.993370 GCTTTGCTACACCTACGTGAG 59.007 52.381 0.00 0.00 43.14 3.51
61 62 2.352421 GCTTTGCTACACCTACGTGAGA 60.352 50.000 0.00 0.00 43.14 3.27
62 63 3.676324 GCTTTGCTACACCTACGTGAGAT 60.676 47.826 0.00 0.00 43.14 2.75
63 64 4.495422 CTTTGCTACACCTACGTGAGATT 58.505 43.478 0.00 0.00 43.14 2.40
64 65 5.647589 CTTTGCTACACCTACGTGAGATTA 58.352 41.667 0.00 0.00 43.14 1.75
65 66 4.895224 TGCTACACCTACGTGAGATTAG 57.105 45.455 0.00 0.00 43.14 1.73
66 67 3.630769 TGCTACACCTACGTGAGATTAGG 59.369 47.826 0.00 0.00 43.14 2.69
67 68 3.004524 GCTACACCTACGTGAGATTAGGG 59.995 52.174 0.00 0.00 43.14 3.53
68 69 2.385803 ACACCTACGTGAGATTAGGGG 58.614 52.381 0.00 0.00 43.66 4.79
69 70 1.687123 CACCTACGTGAGATTAGGGGG 59.313 57.143 0.00 0.00 43.14 5.40
70 71 1.290130 ACCTACGTGAGATTAGGGGGT 59.710 52.381 0.00 0.00 39.50 4.95
71 72 1.962100 CCTACGTGAGATTAGGGGGTC 59.038 57.143 0.00 0.00 32.49 4.46
72 73 2.662866 CTACGTGAGATTAGGGGGTCA 58.337 52.381 0.00 0.00 0.00 4.02
73 74 1.946984 ACGTGAGATTAGGGGGTCAA 58.053 50.000 0.00 0.00 0.00 3.18
74 75 1.831736 ACGTGAGATTAGGGGGTCAAG 59.168 52.381 0.00 0.00 0.00 3.02
75 76 2.108168 CGTGAGATTAGGGGGTCAAGA 58.892 52.381 0.00 0.00 0.00 3.02
76 77 2.101582 CGTGAGATTAGGGGGTCAAGAG 59.898 54.545 0.00 0.00 0.00 2.85
77 78 2.436173 GTGAGATTAGGGGGTCAAGAGG 59.564 54.545 0.00 0.00 0.00 3.69
78 79 2.050918 GAGATTAGGGGGTCAAGAGGG 58.949 57.143 0.00 0.00 0.00 4.30
79 80 1.369983 AGATTAGGGGGTCAAGAGGGT 59.630 52.381 0.00 0.00 0.00 4.34
80 81 2.206223 GATTAGGGGGTCAAGAGGGTT 58.794 52.381 0.00 0.00 0.00 4.11
81 82 3.014807 AGATTAGGGGGTCAAGAGGGTTA 59.985 47.826 0.00 0.00 0.00 2.85
82 83 2.259014 TAGGGGGTCAAGAGGGTTAC 57.741 55.000 0.00 0.00 0.00 2.50
83 84 0.908180 AGGGGGTCAAGAGGGTTACG 60.908 60.000 0.00 0.00 0.00 3.18
84 85 1.600638 GGGGTCAAGAGGGTTACGG 59.399 63.158 0.00 0.00 0.00 4.02
85 86 1.600638 GGGTCAAGAGGGTTACGGG 59.399 63.158 0.00 0.00 0.00 5.28
86 87 1.600638 GGTCAAGAGGGTTACGGGG 59.399 63.158 0.00 0.00 0.00 5.73
87 88 1.196766 GGTCAAGAGGGTTACGGGGT 61.197 60.000 0.00 0.00 0.00 4.95
88 89 0.036671 GTCAAGAGGGTTACGGGGTG 60.037 60.000 0.00 0.00 0.00 4.61
89 90 0.178926 TCAAGAGGGTTACGGGGTGA 60.179 55.000 0.00 0.00 0.00 4.02
90 91 0.036671 CAAGAGGGTTACGGGGTGAC 60.037 60.000 0.00 0.00 0.00 3.67
91 92 0.178912 AAGAGGGTTACGGGGTGACT 60.179 55.000 0.00 0.00 0.00 3.41
92 93 0.178912 AGAGGGTTACGGGGTGACTT 60.179 55.000 0.00 0.00 0.00 3.01
93 94 0.036671 GAGGGTTACGGGGTGACTTG 60.037 60.000 0.00 0.00 0.00 3.16
94 95 0.765519 AGGGTTACGGGGTGACTTGT 60.766 55.000 0.00 0.00 0.00 3.16
95 96 0.604511 GGGTTACGGGGTGACTTGTG 60.605 60.000 0.00 0.00 0.00 3.33
96 97 0.107268 GGTTACGGGGTGACTTGTGT 59.893 55.000 0.00 0.00 0.00 3.72
97 98 1.223187 GTTACGGGGTGACTTGTGTG 58.777 55.000 0.00 0.00 0.00 3.82
98 99 1.121378 TTACGGGGTGACTTGTGTGA 58.879 50.000 0.00 0.00 0.00 3.58
99 100 1.121378 TACGGGGTGACTTGTGTGAA 58.879 50.000 0.00 0.00 0.00 3.18
100 101 0.472471 ACGGGGTGACTTGTGTGAAT 59.528 50.000 0.00 0.00 0.00 2.57
101 102 1.133915 ACGGGGTGACTTGTGTGAATT 60.134 47.619 0.00 0.00 0.00 2.17
102 103 1.266718 CGGGGTGACTTGTGTGAATTG 59.733 52.381 0.00 0.00 0.00 2.32
103 104 1.000274 GGGGTGACTTGTGTGAATTGC 60.000 52.381 0.00 0.00 0.00 3.56
104 105 1.000274 GGGTGACTTGTGTGAATTGCC 60.000 52.381 0.00 0.00 0.00 4.52
105 106 1.956477 GGTGACTTGTGTGAATTGCCT 59.044 47.619 0.00 0.00 0.00 4.75
106 107 3.146066 GGTGACTTGTGTGAATTGCCTA 58.854 45.455 0.00 0.00 0.00 3.93
107 108 3.758554 GGTGACTTGTGTGAATTGCCTAT 59.241 43.478 0.00 0.00 0.00 2.57
108 109 4.218417 GGTGACTTGTGTGAATTGCCTATT 59.782 41.667 0.00 0.00 0.00 1.73
109 110 5.278957 GGTGACTTGTGTGAATTGCCTATTT 60.279 40.000 0.00 0.00 0.00 1.40
110 111 6.215845 GTGACTTGTGTGAATTGCCTATTTT 58.784 36.000 0.00 0.00 0.00 1.82
111 112 6.701400 GTGACTTGTGTGAATTGCCTATTTTT 59.299 34.615 0.00 0.00 0.00 1.94
610 611 5.503634 AAGGTAATTACGTAGGGGTTTGT 57.496 39.130 11.01 0.00 0.00 2.83
611 612 6.619329 AAGGTAATTACGTAGGGGTTTGTA 57.381 37.500 11.01 0.00 0.00 2.41
612 613 6.619329 AGGTAATTACGTAGGGGTTTGTAA 57.381 37.500 9.01 0.00 0.00 2.41
613 614 7.014988 AGGTAATTACGTAGGGGTTTGTAAA 57.985 36.000 9.01 0.00 31.30 2.01
614 615 7.457561 AGGTAATTACGTAGGGGTTTGTAAAA 58.542 34.615 9.01 0.00 31.30 1.52
615 616 7.941790 AGGTAATTACGTAGGGGTTTGTAAAAA 59.058 33.333 9.01 0.00 31.30 1.94
616 617 8.020819 GGTAATTACGTAGGGGTTTGTAAAAAC 58.979 37.037 9.46 0.00 31.30 2.43
628 629 7.669438 GGTTTGTAAAAACCTTTCGTAAGTC 57.331 36.000 18.87 0.00 46.63 3.01
629 630 7.475015 GGTTTGTAAAAACCTTTCGTAAGTCT 58.525 34.615 18.87 0.00 46.63 3.24
630 631 8.611757 GGTTTGTAAAAACCTTTCGTAAGTCTA 58.388 33.333 18.87 0.00 46.63 2.59
631 632 9.642312 GTTTGTAAAAACCTTTCGTAAGTCTAG 57.358 33.333 0.00 0.00 39.48 2.43
632 633 7.412137 TGTAAAAACCTTTCGTAAGTCTAGC 57.588 36.000 0.93 0.00 39.48 3.42
633 634 6.985645 TGTAAAAACCTTTCGTAAGTCTAGCA 59.014 34.615 0.93 0.00 39.48 3.49
634 635 7.658575 TGTAAAAACCTTTCGTAAGTCTAGCAT 59.341 33.333 0.93 0.00 39.48 3.79
635 636 7.506328 AAAAACCTTTCGTAAGTCTAGCATT 57.494 32.000 0.93 0.00 39.48 3.56
636 637 7.506328 AAAACCTTTCGTAAGTCTAGCATTT 57.494 32.000 0.93 0.00 39.48 2.32
637 638 7.506328 AAACCTTTCGTAAGTCTAGCATTTT 57.494 32.000 0.93 0.00 39.48 1.82
638 639 7.506328 AACCTTTCGTAAGTCTAGCATTTTT 57.494 32.000 0.93 0.00 39.48 1.94
688 690 3.053619 ACTTGTTTCAGGTTCCCTTCACT 60.054 43.478 0.00 0.00 0.00 3.41
698 700 3.449377 GGTTCCCTTCACTTTTTGTTGGA 59.551 43.478 0.00 0.00 0.00 3.53
701 703 3.895041 TCCCTTCACTTTTTGTTGGATCC 59.105 43.478 4.20 4.20 0.00 3.36
717 719 2.360165 GGATCCACATGCAGAATTCCAC 59.640 50.000 6.95 0.00 0.00 4.02
719 721 1.075212 TCCACATGCAGAATTCCACCA 59.925 47.619 0.65 0.00 0.00 4.17
721 723 2.439409 CACATGCAGAATTCCACCAGA 58.561 47.619 0.65 0.00 0.00 3.86
724 726 2.957402 TGCAGAATTCCACCAGAACT 57.043 45.000 0.65 0.00 37.29 3.01
725 727 2.507484 TGCAGAATTCCACCAGAACTG 58.493 47.619 0.65 0.00 37.29 3.16
726 728 2.158623 TGCAGAATTCCACCAGAACTGT 60.159 45.455 0.65 0.00 37.29 3.55
727 729 2.485814 GCAGAATTCCACCAGAACTGTC 59.514 50.000 0.65 0.00 37.29 3.51
728 730 3.808618 GCAGAATTCCACCAGAACTGTCT 60.809 47.826 0.65 0.00 37.29 3.41
737 739 2.983402 CAGAACTGTCTGTGCCAATG 57.017 50.000 0.00 0.00 45.44 2.82
738 740 1.538512 CAGAACTGTCTGTGCCAATGG 59.461 52.381 0.00 0.00 45.44 3.16
739 741 1.143684 AGAACTGTCTGTGCCAATGGT 59.856 47.619 0.00 0.00 30.83 3.55
740 742 1.956477 GAACTGTCTGTGCCAATGGTT 59.044 47.619 0.00 0.00 0.00 3.67
741 743 2.071778 ACTGTCTGTGCCAATGGTTT 57.928 45.000 0.00 0.00 0.00 3.27
747 749 3.568007 GTCTGTGCCAATGGTTTTGTCTA 59.432 43.478 0.00 0.00 0.00 2.59
753 755 3.118665 GCCAATGGTTTTGTCTATGCCAT 60.119 43.478 0.00 0.00 41.22 4.40
756 758 4.741321 ATGGTTTTGTCTATGCCATTGG 57.259 40.909 0.00 0.00 36.64 3.16
866 870 7.721399 AGTCATTATGTCTAAATTTAGCCCCTG 59.279 37.037 18.68 11.34 0.00 4.45
882 892 2.046023 TGCGCTAGCTGTTGGCAT 60.046 55.556 13.93 0.00 45.42 4.40
887 897 0.305922 GCTAGCTGTTGGCATTAGCG 59.694 55.000 7.70 6.11 44.79 4.26
909 919 2.416162 CCACTCGCTCCTTCACTCTTAC 60.416 54.545 0.00 0.00 0.00 2.34
961 971 3.713003 TCTCCTCTCAGCCTGTTAATGA 58.287 45.455 0.00 0.00 0.00 2.57
988 998 5.915758 GCCATCACTACTCAAGTATTAGTCG 59.084 44.000 0.00 0.00 35.76 4.18
1053 1063 1.543802 CTGGTTCTCTTCGTGCTCTCT 59.456 52.381 0.00 0.00 0.00 3.10
1245 1264 1.575447 GGGAGGACTGCCCATTCCTT 61.575 60.000 8.37 0.00 45.31 3.36
1369 1396 3.103447 TCGCCATTGACATCTCTCATC 57.897 47.619 0.00 0.00 0.00 2.92
1886 1921 4.321008 GCTACTGCATTGCATTGCTATGAT 60.321 41.667 29.10 18.28 42.51 2.45
1893 1928 4.737353 TTGCATTGCTATGATCGTGATC 57.263 40.909 12.54 2.86 38.29 2.92
1905 1944 5.897377 TGATCGTGATCAACTGACTAGAA 57.103 39.130 10.01 0.00 44.14 2.10
2014 2054 0.951040 CCCTGCAGACGGTGAAAGAC 60.951 60.000 17.39 0.00 0.00 3.01
2044 2084 0.037326 GCAATCCACGACTCTCCACA 60.037 55.000 0.00 0.00 0.00 4.17
2047 2087 0.898320 ATCCACGACTCTCCACAAGG 59.102 55.000 0.00 0.00 0.00 3.61
2053 2093 1.501582 GACTCTCCACAAGGGGCTAT 58.498 55.000 0.00 0.00 34.34 2.97
2231 2277 2.357009 GGCACAATTAGACAGCAGATGG 59.643 50.000 0.00 0.00 0.00 3.51
2271 2317 2.159430 TGAACATAACGCACATGACAGC 59.841 45.455 0.00 0.00 0.00 4.40
2272 2318 1.807139 ACATAACGCACATGACAGCA 58.193 45.000 0.00 0.00 0.00 4.41
2293 2339 0.041238 TGAGAAGGGACGGTCATCCT 59.959 55.000 10.76 5.31 38.95 3.24
2296 2342 3.082619 AAGGGACGGTCATCCTTCA 57.917 52.632 10.76 0.00 36.22 3.02
2427 2473 1.140312 ACGGGATATGGCATGAGGTT 58.860 50.000 10.98 0.00 0.00 3.50
2468 2514 3.118629 AGCTCATCTCGCACCAATTCTAA 60.119 43.478 0.00 0.00 0.00 2.10
2473 2519 3.270027 TCTCGCACCAATTCTAACATGG 58.730 45.455 0.00 0.00 40.16 3.66
2621 2670 0.394565 CTCTGGCACATAGGGTAGGC 59.605 60.000 0.00 0.00 38.20 3.93
2622 2671 0.326143 TCTGGCACATAGGGTAGGCA 60.326 55.000 0.00 0.00 38.20 4.75
2742 3002 2.146342 CTCAAGTTGTTGCATCCGTCT 58.854 47.619 2.11 0.00 33.23 4.18
2746 3006 2.350522 AGTTGTTGCATCCGTCTGATC 58.649 47.619 0.00 0.00 0.00 2.92
2787 3047 1.608590 CGAGCAACAAAACCTGGATGT 59.391 47.619 0.00 0.00 0.00 3.06
2805 3065 4.761739 GGATGTTTGATCCTGTTCAAGTCA 59.238 41.667 0.00 0.00 36.97 3.41
2818 3078 3.111853 TCAAGTCACGAACTGAGCATT 57.888 42.857 0.00 0.00 38.58 3.56
2864 3124 3.495331 TGTGGTGAAATTGGTATGCACT 58.505 40.909 0.00 0.00 0.00 4.40
2865 3125 4.657013 TGTGGTGAAATTGGTATGCACTA 58.343 39.130 0.00 0.00 0.00 2.74
2866 3126 5.260424 TGTGGTGAAATTGGTATGCACTAT 58.740 37.500 0.00 0.00 0.00 2.12
2868 3128 5.356751 GTGGTGAAATTGGTATGCACTATGA 59.643 40.000 0.00 0.00 0.00 2.15
2869 3129 6.039717 GTGGTGAAATTGGTATGCACTATGAT 59.960 38.462 0.00 0.00 0.00 2.45
2870 3130 7.228507 GTGGTGAAATTGGTATGCACTATGATA 59.771 37.037 0.00 0.00 0.00 2.15
2871 3131 7.445096 TGGTGAAATTGGTATGCACTATGATAG 59.555 37.037 0.00 0.00 0.00 2.08
2872 3132 7.661437 GGTGAAATTGGTATGCACTATGATAGA 59.339 37.037 6.45 0.00 0.00 1.98
2873 3133 9.224267 GTGAAATTGGTATGCACTATGATAGAT 57.776 33.333 6.45 0.00 0.00 1.98
2874 3134 9.440773 TGAAATTGGTATGCACTATGATAGATC 57.559 33.333 6.45 0.00 0.00 2.75
2875 3135 8.798859 AAATTGGTATGCACTATGATAGATCC 57.201 34.615 6.45 0.64 0.00 3.36
2876 3136 6.933514 TTGGTATGCACTATGATAGATCCA 57.066 37.500 6.45 0.73 0.00 3.41
2877 3137 6.286240 TGGTATGCACTATGATAGATCCAC 57.714 41.667 6.45 0.00 0.00 4.02
2878 3138 5.779771 TGGTATGCACTATGATAGATCCACA 59.220 40.000 6.45 0.00 0.00 4.17
2879 3139 6.441604 TGGTATGCACTATGATAGATCCACAT 59.558 38.462 6.45 4.96 0.00 3.21
2981 3242 2.913765 TTTGCAACACGCCCATCGG 61.914 57.895 0.00 0.00 43.86 4.18
3097 3368 2.810852 TCTCGTGCAAACAACATATGCA 59.189 40.909 1.58 0.00 46.97 3.96
3346 3617 3.385755 GGCATGATAGGAGGCAACAAAAT 59.614 43.478 0.00 0.00 41.41 1.82
3400 3671 0.908198 AGGATGTCCCAAGAGCTCAC 59.092 55.000 17.77 5.27 37.41 3.51
3438 3709 0.674581 CTTGGCCACGCTCATTCTCA 60.675 55.000 3.88 0.00 0.00 3.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 4.009675 TCTGTTTCAACCATATGGCTGTC 58.990 43.478 22.18 14.06 39.32 3.51
2 3 4.032960 TCTGTTTCAACCATATGGCTGT 57.967 40.909 22.18 4.46 39.32 4.40
4 5 4.646492 GGAATCTGTTTCAACCATATGGCT 59.354 41.667 22.18 6.77 35.78 4.75
5 6 4.498009 CGGAATCTGTTTCAACCATATGGC 60.498 45.833 22.18 4.76 35.78 4.40
6 7 4.640201 ACGGAATCTGTTTCAACCATATGG 59.360 41.667 20.68 20.68 37.36 2.74
7 8 5.818136 ACGGAATCTGTTTCAACCATATG 57.182 39.130 0.00 0.00 35.94 1.78
8 9 7.228706 GGATAACGGAATCTGTTTCAACCATAT 59.771 37.037 13.14 0.00 35.94 1.78
9 10 6.540914 GGATAACGGAATCTGTTTCAACCATA 59.459 38.462 13.14 0.00 35.94 2.74
10 11 5.357032 GGATAACGGAATCTGTTTCAACCAT 59.643 40.000 13.14 0.00 35.94 3.55
11 12 4.698304 GGATAACGGAATCTGTTTCAACCA 59.302 41.667 13.14 0.00 35.94 3.67
12 13 4.941873 AGGATAACGGAATCTGTTTCAACC 59.058 41.667 13.14 10.89 35.94 3.77
13 14 5.642063 TCAGGATAACGGAATCTGTTTCAAC 59.358 40.000 13.14 2.22 35.94 3.18
14 15 5.800296 TCAGGATAACGGAATCTGTTTCAA 58.200 37.500 13.14 0.00 35.94 2.69
15 16 5.414789 TCAGGATAACGGAATCTGTTTCA 57.585 39.130 13.14 0.00 35.94 2.69
16 17 6.675728 GCTTTCAGGATAACGGAATCTGTTTC 60.676 42.308 13.14 9.93 33.30 2.78
17 18 5.123979 GCTTTCAGGATAACGGAATCTGTTT 59.876 40.000 13.14 1.38 33.30 2.83
18 19 4.636206 GCTTTCAGGATAACGGAATCTGTT 59.364 41.667 12.50 12.50 33.30 3.16
19 20 4.080863 AGCTTTCAGGATAACGGAATCTGT 60.081 41.667 0.00 0.00 33.30 3.41
20 21 4.446371 AGCTTTCAGGATAACGGAATCTG 58.554 43.478 0.00 0.00 33.30 2.90
21 22 4.762289 AGCTTTCAGGATAACGGAATCT 57.238 40.909 0.00 0.00 33.30 2.40
22 23 5.573146 CAAAGCTTTCAGGATAACGGAATC 58.427 41.667 9.23 0.00 33.30 2.52
23 24 4.142381 GCAAAGCTTTCAGGATAACGGAAT 60.142 41.667 9.23 0.00 33.30 3.01
24 25 3.190535 GCAAAGCTTTCAGGATAACGGAA 59.809 43.478 9.23 0.00 0.00 4.30
25 26 2.747446 GCAAAGCTTTCAGGATAACGGA 59.253 45.455 9.23 0.00 0.00 4.69
26 27 2.749621 AGCAAAGCTTTCAGGATAACGG 59.250 45.455 9.23 0.00 33.89 4.44
27 28 4.391830 TGTAGCAAAGCTTTCAGGATAACG 59.608 41.667 9.23 0.00 40.44 3.18
28 29 5.392057 GGTGTAGCAAAGCTTTCAGGATAAC 60.392 44.000 9.23 2.43 40.44 1.89
29 30 4.700213 GGTGTAGCAAAGCTTTCAGGATAA 59.300 41.667 9.23 0.00 40.44 1.75
30 31 4.019321 AGGTGTAGCAAAGCTTTCAGGATA 60.019 41.667 9.23 0.00 40.44 2.59
31 32 3.084786 GGTGTAGCAAAGCTTTCAGGAT 58.915 45.455 9.23 0.00 40.44 3.24
32 33 2.106511 AGGTGTAGCAAAGCTTTCAGGA 59.893 45.455 9.23 0.00 40.44 3.86
33 34 2.508526 AGGTGTAGCAAAGCTTTCAGG 58.491 47.619 9.23 0.00 40.44 3.86
34 35 3.123621 CGTAGGTGTAGCAAAGCTTTCAG 59.876 47.826 9.23 0.00 40.44 3.02
35 36 3.064207 CGTAGGTGTAGCAAAGCTTTCA 58.936 45.455 9.23 1.01 40.44 2.69
36 37 3.064931 ACGTAGGTGTAGCAAAGCTTTC 58.935 45.455 9.23 4.68 40.44 2.62
37 38 2.806244 CACGTAGGTGTAGCAAAGCTTT 59.194 45.455 5.69 5.69 39.38 3.51
38 39 2.036733 TCACGTAGGTGTAGCAAAGCTT 59.963 45.455 14.78 0.00 44.68 3.74
39 40 1.616865 TCACGTAGGTGTAGCAAAGCT 59.383 47.619 14.78 0.00 44.68 3.74
40 41 1.993370 CTCACGTAGGTGTAGCAAAGC 59.007 52.381 14.78 0.00 44.68 3.51
41 42 3.570926 TCTCACGTAGGTGTAGCAAAG 57.429 47.619 14.78 4.68 44.68 2.77
42 43 4.530710 AATCTCACGTAGGTGTAGCAAA 57.469 40.909 14.78 0.00 44.68 3.68
43 44 4.097437 CCTAATCTCACGTAGGTGTAGCAA 59.903 45.833 14.78 0.00 44.68 3.91
44 45 3.630769 CCTAATCTCACGTAGGTGTAGCA 59.369 47.826 14.78 0.00 44.68 3.49
45 46 3.004524 CCCTAATCTCACGTAGGTGTAGC 59.995 52.174 14.78 0.00 44.68 3.58
46 47 3.568853 CCCCTAATCTCACGTAGGTGTAG 59.431 52.174 14.78 10.90 44.68 2.74
47 48 3.559069 CCCCTAATCTCACGTAGGTGTA 58.441 50.000 14.78 5.77 44.68 2.90
48 49 2.385803 CCCCTAATCTCACGTAGGTGT 58.614 52.381 14.78 0.00 44.68 4.16
49 50 1.687123 CCCCCTAATCTCACGTAGGTG 59.313 57.143 9.30 9.30 45.78 4.00
50 51 1.290130 ACCCCCTAATCTCACGTAGGT 59.710 52.381 0.00 0.00 35.97 3.08
51 52 1.962100 GACCCCCTAATCTCACGTAGG 59.038 57.143 0.00 0.00 37.26 3.18
52 53 2.662866 TGACCCCCTAATCTCACGTAG 58.337 52.381 0.00 0.00 0.00 3.51
53 54 2.832643 TGACCCCCTAATCTCACGTA 57.167 50.000 0.00 0.00 0.00 3.57
54 55 1.831736 CTTGACCCCCTAATCTCACGT 59.168 52.381 0.00 0.00 0.00 4.49
55 56 2.101582 CTCTTGACCCCCTAATCTCACG 59.898 54.545 0.00 0.00 0.00 4.35
56 57 2.436173 CCTCTTGACCCCCTAATCTCAC 59.564 54.545 0.00 0.00 0.00 3.51
57 58 2.629639 CCCTCTTGACCCCCTAATCTCA 60.630 54.545 0.00 0.00 0.00 3.27
58 59 2.050918 CCCTCTTGACCCCCTAATCTC 58.949 57.143 0.00 0.00 0.00 2.75
59 60 1.369983 ACCCTCTTGACCCCCTAATCT 59.630 52.381 0.00 0.00 0.00 2.40
60 61 1.894699 ACCCTCTTGACCCCCTAATC 58.105 55.000 0.00 0.00 0.00 1.75
61 62 2.378308 AACCCTCTTGACCCCCTAAT 57.622 50.000 0.00 0.00 0.00 1.73
62 63 2.554563 GTAACCCTCTTGACCCCCTAA 58.445 52.381 0.00 0.00 0.00 2.69
63 64 1.620524 CGTAACCCTCTTGACCCCCTA 60.621 57.143 0.00 0.00 0.00 3.53
64 65 0.908180 CGTAACCCTCTTGACCCCCT 60.908 60.000 0.00 0.00 0.00 4.79
65 66 1.600638 CGTAACCCTCTTGACCCCC 59.399 63.158 0.00 0.00 0.00 5.40
66 67 1.600638 CCGTAACCCTCTTGACCCC 59.399 63.158 0.00 0.00 0.00 4.95
67 68 1.600638 CCCGTAACCCTCTTGACCC 59.399 63.158 0.00 0.00 0.00 4.46
68 69 1.196766 ACCCCGTAACCCTCTTGACC 61.197 60.000 0.00 0.00 0.00 4.02
69 70 0.036671 CACCCCGTAACCCTCTTGAC 60.037 60.000 0.00 0.00 0.00 3.18
70 71 0.178926 TCACCCCGTAACCCTCTTGA 60.179 55.000 0.00 0.00 0.00 3.02
71 72 0.036671 GTCACCCCGTAACCCTCTTG 60.037 60.000 0.00 0.00 0.00 3.02
72 73 0.178912 AGTCACCCCGTAACCCTCTT 60.179 55.000 0.00 0.00 0.00 2.85
73 74 0.178912 AAGTCACCCCGTAACCCTCT 60.179 55.000 0.00 0.00 0.00 3.69
74 75 0.036671 CAAGTCACCCCGTAACCCTC 60.037 60.000 0.00 0.00 0.00 4.30
75 76 0.765519 ACAAGTCACCCCGTAACCCT 60.766 55.000 0.00 0.00 0.00 4.34
76 77 0.604511 CACAAGTCACCCCGTAACCC 60.605 60.000 0.00 0.00 0.00 4.11
77 78 0.107268 ACACAAGTCACCCCGTAACC 59.893 55.000 0.00 0.00 0.00 2.85
78 79 1.202557 TCACACAAGTCACCCCGTAAC 60.203 52.381 0.00 0.00 0.00 2.50
79 80 1.121378 TCACACAAGTCACCCCGTAA 58.879 50.000 0.00 0.00 0.00 3.18
80 81 1.121378 TTCACACAAGTCACCCCGTA 58.879 50.000 0.00 0.00 0.00 4.02
81 82 0.472471 ATTCACACAAGTCACCCCGT 59.528 50.000 0.00 0.00 0.00 5.28
82 83 1.266718 CAATTCACACAAGTCACCCCG 59.733 52.381 0.00 0.00 0.00 5.73
83 84 1.000274 GCAATTCACACAAGTCACCCC 60.000 52.381 0.00 0.00 0.00 4.95
84 85 1.000274 GGCAATTCACACAAGTCACCC 60.000 52.381 0.00 0.00 0.00 4.61
85 86 1.956477 AGGCAATTCACACAAGTCACC 59.044 47.619 0.00 0.00 0.00 4.02
86 87 5.376854 AATAGGCAATTCACACAAGTCAC 57.623 39.130 0.00 0.00 0.00 3.67
87 88 6.403866 AAAATAGGCAATTCACACAAGTCA 57.596 33.333 0.00 0.00 0.00 3.41
587 588 5.879763 ACAAACCCCTACGTAATTACCTTT 58.120 37.500 10.01 0.00 0.00 3.11
588 589 5.503634 ACAAACCCCTACGTAATTACCTT 57.496 39.130 10.01 0.20 0.00 3.50
589 590 6.619329 TTACAAACCCCTACGTAATTACCT 57.381 37.500 10.01 1.35 0.00 3.08
590 591 7.680442 TTTTACAAACCCCTACGTAATTACC 57.320 36.000 10.01 0.00 0.00 2.85
591 592 8.948853 GTTTTTACAAACCCCTACGTAATTAC 57.051 34.615 5.47 5.47 36.96 1.89
605 606 9.642312 CTAGACTTACGAAAGGTTTTTACAAAC 57.358 33.333 0.00 0.00 41.57 2.93
606 607 8.337532 GCTAGACTTACGAAAGGTTTTTACAAA 58.662 33.333 0.00 0.00 37.01 2.83
607 608 7.495279 TGCTAGACTTACGAAAGGTTTTTACAA 59.505 33.333 0.00 0.00 37.01 2.41
608 609 6.985645 TGCTAGACTTACGAAAGGTTTTTACA 59.014 34.615 0.00 0.00 37.01 2.41
609 610 7.412137 TGCTAGACTTACGAAAGGTTTTTAC 57.588 36.000 0.00 0.00 37.01 2.01
610 611 8.611654 AATGCTAGACTTACGAAAGGTTTTTA 57.388 30.769 0.00 0.00 37.01 1.52
611 612 7.506328 AATGCTAGACTTACGAAAGGTTTTT 57.494 32.000 0.00 0.00 37.01 1.94
612 613 7.506328 AAATGCTAGACTTACGAAAGGTTTT 57.494 32.000 0.00 0.00 37.01 2.43
613 614 7.506328 AAAATGCTAGACTTACGAAAGGTTT 57.494 32.000 0.00 0.00 37.01 3.27
614 615 7.506328 AAAAATGCTAGACTTACGAAAGGTT 57.494 32.000 0.00 0.00 37.01 3.50
688 690 3.640498 TCTGCATGTGGATCCAACAAAAA 59.360 39.130 18.20 6.12 0.00 1.94
698 700 2.291735 TGGTGGAATTCTGCATGTGGAT 60.292 45.455 5.23 0.00 0.00 3.41
701 703 2.439409 TCTGGTGGAATTCTGCATGTG 58.561 47.619 5.23 0.00 0.00 3.21
719 721 1.143684 ACCATTGGCACAGACAGTTCT 59.856 47.619 1.54 0.00 42.39 3.01
721 723 2.071778 AACCATTGGCACAGACAGTT 57.928 45.000 1.54 0.00 42.39 3.16
724 726 2.100584 GACAAAACCATTGGCACAGACA 59.899 45.455 1.54 0.00 42.39 3.41
725 727 2.362077 AGACAAAACCATTGGCACAGAC 59.638 45.455 1.54 0.00 42.39 3.51
726 728 2.665165 AGACAAAACCATTGGCACAGA 58.335 42.857 1.54 0.00 42.39 3.41
727 729 4.487948 CATAGACAAAACCATTGGCACAG 58.512 43.478 1.54 0.00 42.39 3.66
728 730 3.305950 GCATAGACAAAACCATTGGCACA 60.306 43.478 1.54 0.00 0.00 4.57
729 731 3.253230 GCATAGACAAAACCATTGGCAC 58.747 45.455 1.54 0.00 0.00 5.01
730 732 2.233431 GGCATAGACAAAACCATTGGCA 59.767 45.455 1.54 0.00 0.00 4.92
731 733 2.233431 TGGCATAGACAAAACCATTGGC 59.767 45.455 1.54 0.00 0.00 4.52
732 734 4.741321 ATGGCATAGACAAAACCATTGG 57.259 40.909 0.00 0.00 37.89 3.16
735 737 4.095946 ACCAATGGCATAGACAAAACCAT 58.904 39.130 0.00 0.00 42.89 3.55
736 738 3.505386 ACCAATGGCATAGACAAAACCA 58.495 40.909 0.00 0.00 34.28 3.67
737 739 4.535526 AACCAATGGCATAGACAAAACC 57.464 40.909 0.00 0.00 0.00 3.27
738 740 5.634859 CAGAAACCAATGGCATAGACAAAAC 59.365 40.000 0.00 0.00 0.00 2.43
739 741 5.304101 ACAGAAACCAATGGCATAGACAAAA 59.696 36.000 0.00 0.00 0.00 2.44
740 742 4.832266 ACAGAAACCAATGGCATAGACAAA 59.168 37.500 0.00 0.00 0.00 2.83
741 743 4.406456 ACAGAAACCAATGGCATAGACAA 58.594 39.130 0.00 0.00 0.00 3.18
747 749 2.607499 TCCAACAGAAACCAATGGCAT 58.393 42.857 0.00 0.00 0.00 4.40
753 755 5.047943 TCGTTTTCTTTCCAACAGAAACCAA 60.048 36.000 0.00 0.00 39.47 3.67
756 758 5.511729 CACTCGTTTTCTTTCCAACAGAAAC 59.488 40.000 0.00 0.00 39.47 2.78
866 870 0.305922 CTAATGCCAACAGCTAGCGC 59.694 55.000 9.55 0.00 44.23 5.92
887 897 1.446966 GAGTGAAGGAGCGAGTGGC 60.447 63.158 0.00 0.00 44.05 5.01
899 909 3.728845 GTGGAGTTGCAGTAAGAGTGAA 58.271 45.455 0.00 0.00 0.00 3.18
909 919 2.281070 AGTGGCGTGGAGTTGCAG 60.281 61.111 0.00 0.00 0.00 4.41
961 971 5.537300 AATACTTGAGTAGTGATGGCGAT 57.463 39.130 0.00 0.00 37.73 4.58
988 998 1.202903 AGCTTGCATGGATGGATCTCC 60.203 52.381 1.34 0.00 35.74 3.71
1028 1038 1.069636 GCACGAAGAGAACCAGCAAAG 60.070 52.381 0.00 0.00 0.00 2.77
1029 1039 0.944386 GCACGAAGAGAACCAGCAAA 59.056 50.000 0.00 0.00 0.00 3.68
1113 1123 2.032204 GCCATCATTGTCGATCAGAAGC 60.032 50.000 0.00 0.00 0.00 3.86
1160 1176 3.076258 TAGTCGCAGCCACCGGATG 62.076 63.158 9.46 2.15 42.66 3.51
1161 1177 2.758327 TAGTCGCAGCCACCGGAT 60.758 61.111 9.46 0.00 0.00 4.18
1239 1258 0.183731 GGAAGCCGGGATCAAGGAAT 59.816 55.000 2.18 0.00 0.00 3.01
1381 1408 4.818546 AGGTGACAGAGACAAGACAAAATG 59.181 41.667 0.00 0.00 0.00 2.32
1856 1891 0.302890 GCAATGCAGTAGCTAGCACG 59.697 55.000 18.83 10.20 44.49 5.34
1868 1903 8.694140 GATCACGATCATAGCAATGCAATGCA 62.694 42.308 27.56 11.44 41.77 3.96
1886 1921 4.616143 GCAGTTCTAGTCAGTTGATCACGA 60.616 45.833 0.00 0.00 0.00 4.35
1893 1928 5.064452 GGATCAATGCAGTTCTAGTCAGTTG 59.936 44.000 0.00 0.00 0.00 3.16
1896 1931 4.763073 TGGATCAATGCAGTTCTAGTCAG 58.237 43.478 0.00 0.00 0.00 3.51
1905 1944 3.286329 TGCAGTATGGATCAATGCAGT 57.714 42.857 2.88 0.00 41.65 4.40
2014 2054 1.451927 TGGATTGCTTAGCGCCCAG 60.452 57.895 2.29 0.25 38.05 4.45
2044 2084 3.044894 CCTGAAGAAGAGATAGCCCCTT 58.955 50.000 0.00 0.00 0.00 3.95
2047 2087 2.037121 GCTCCTGAAGAAGAGATAGCCC 59.963 54.545 0.00 0.00 31.43 5.19
2162 2202 4.819105 TGATCCACGAATACTCTTGGTT 57.181 40.909 0.00 0.00 40.94 3.67
2231 2277 4.015872 TCAAGAACACCACCCTATTGTC 57.984 45.455 0.00 0.00 0.00 3.18
2271 2317 0.898320 ATGACCGTCCCTTCTCAGTG 59.102 55.000 0.00 0.00 0.00 3.66
2272 2318 1.187087 GATGACCGTCCCTTCTCAGT 58.813 55.000 0.00 0.00 0.00 3.41
2293 2339 4.373116 GGCTCTCGGTGCCGTGAA 62.373 66.667 14.85 0.77 40.57 3.18
2468 2514 1.525765 TTCGTGTGTGCAGCCATGT 60.526 52.632 0.00 0.00 0.00 3.21
2473 2519 0.316196 GTGAAGTTCGTGTGTGCAGC 60.316 55.000 0.00 0.00 0.00 5.25
2621 2670 2.311688 GATACACCGGGGTCCTGCTG 62.312 65.000 15.89 0.00 0.00 4.41
2622 2671 2.040606 ATACACCGGGGTCCTGCT 59.959 61.111 15.89 0.00 0.00 4.24
2700 2960 1.224315 CCATGGGATCAACGGCTCA 59.776 57.895 2.85 0.00 0.00 4.26
2742 3002 6.146510 GTCTTTGTGTGTATACAAACCGATCA 59.853 38.462 21.07 5.03 43.46 2.92
2746 3006 4.445052 TCGTCTTTGTGTGTATACAAACCG 59.555 41.667 21.07 16.54 43.46 4.44
2787 3047 4.066646 TCGTGACTTGAACAGGATCAAA 57.933 40.909 0.00 0.00 38.75 2.69
2818 3078 1.966354 ACATAGCCATCGATCTGAGCA 59.034 47.619 0.00 0.00 0.00 4.26
2865 3125 9.491406 AAGAAGCTATCTATGTGGATCTATCAT 57.509 33.333 0.00 0.00 37.42 2.45
2866 3126 8.891985 AAGAAGCTATCTATGTGGATCTATCA 57.108 34.615 0.00 0.00 37.42 2.15
2870 3130 9.771534 GTAAAAAGAAGCTATCTATGTGGATCT 57.228 33.333 0.00 0.00 37.42 2.75
2871 3131 9.547753 TGTAAAAAGAAGCTATCTATGTGGATC 57.452 33.333 0.00 0.00 37.42 3.36
2872 3132 9.553064 CTGTAAAAAGAAGCTATCTATGTGGAT 57.447 33.333 0.00 0.00 37.42 3.41
2873 3133 8.540388 ACTGTAAAAAGAAGCTATCTATGTGGA 58.460 33.333 0.00 0.00 37.42 4.02
2874 3134 8.723942 ACTGTAAAAAGAAGCTATCTATGTGG 57.276 34.615 0.00 0.00 37.42 4.17
2878 3138 9.530633 CGGTTACTGTAAAAAGAAGCTATCTAT 57.469 33.333 1.10 0.00 37.42 1.98
2879 3139 8.742777 TCGGTTACTGTAAAAAGAAGCTATCTA 58.257 33.333 1.10 0.00 37.42 1.98
3081 3352 2.889678 TGGAGTGCATATGTTGTTTGCA 59.110 40.909 4.29 0.00 43.63 4.08
3082 3353 3.574284 TGGAGTGCATATGTTGTTTGC 57.426 42.857 4.29 0.00 36.91 3.68
3097 3368 3.620488 TCTTCTTGCTTGTGTTTGGAGT 58.380 40.909 0.00 0.00 0.00 3.85
3400 3671 5.449862 GCCAAGATGTAGACTACTCTCACTG 60.450 48.000 13.67 10.67 0.00 3.66


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

AutoCloner maintained by Alex Coulton.