Multiple sequence alignment - TraesCS7D01G138000

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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 TraesCS7D01G138000 chr7D 100.000 2996 0 0 1 2996 88600027 88597032 0.000000e+00 5533
1 TraesCS7D01G138000 chr2A 95.650 2276 89 6 116 2381 726904121 726901846 0.000000e+00 3646
2 TraesCS7D01G138000 chr2A 94.137 614 31 2 2383 2996 335825295 335825903 0.000000e+00 929
3 TraesCS7D01G138000 chr3D 95.473 2275 94 5 116 2381 589261193 589258919 0.000000e+00 3622
4 TraesCS7D01G138000 chr3D 94.959 615 30 1 2383 2996 21896570 21897184 0.000000e+00 963
5 TraesCS7D01G138000 chr3D 94.175 103 6 0 17 119 12192442 12192340 1.110000e-34 158
6 TraesCS7D01G138000 chr5D 95.347 2278 91 9 116 2381 503262442 503260168 0.000000e+00 3605
7 TraesCS7D01G138000 chr5D 95.261 2279 96 8 113 2381 503247603 503249879 0.000000e+00 3600
8 TraesCS7D01G138000 chr5D 95.146 103 5 0 17 119 483805781 483805883 2.390000e-36 163
9 TraesCS7D01G138000 chr5D 94.175 103 6 0 17 119 6234253 6234355 1.110000e-34 158
10 TraesCS7D01G138000 chr3B 95.167 2276 100 6 116 2381 201572453 201570178 0.000000e+00 3585
11 TraesCS7D01G138000 chr3B 95.083 2278 101 7 113 2381 201541851 201544126 0.000000e+00 3576
12 TraesCS7D01G138000 chr3B 94.175 103 6 0 17 119 201494998 201494896 1.110000e-34 158
13 TraesCS7D01G138000 chr7B 95.086 2279 102 6 113 2381 662729244 662731522 0.000000e+00 3579
14 TraesCS7D01G138000 chr7B 95.077 2275 103 5 116 2381 663097091 663094817 0.000000e+00 3572
15 TraesCS7D01G138000 chr2D 95.033 2275 101 8 116 2381 272809912 272807641 0.000000e+00 3565
16 TraesCS7D01G138000 chr2D 94.788 614 26 1 2383 2996 628284686 628285293 0.000000e+00 952
17 TraesCS7D01G138000 chr6D 95.130 616 28 1 2383 2996 431399039 431399654 0.000000e+00 970
18 TraesCS7D01G138000 chr1D 95.138 617 27 2 2383 2996 394177918 394178534 0.000000e+00 970
19 TraesCS7D01G138000 chr1D 94.968 616 29 1 2383 2996 254488710 254489325 0.000000e+00 965
20 TraesCS7D01G138000 chr1D 92.834 614 39 4 2383 2996 244407632 244408240 0.000000e+00 885
21 TraesCS7D01G138000 chr1D 92.508 614 41 4 2383 2996 244423170 244423778 0.000000e+00 874
22 TraesCS7D01G138000 chr1D 95.146 103 5 0 17 119 254478973 254478871 2.390000e-36 163
23 TraesCS7D01G138000 chr1A 94.463 614 29 1 2383 2996 256027151 256026543 0.000000e+00 941
24 TraesCS7D01G138000 chr1A 95.146 103 5 0 17 119 548023790 548023892 2.390000e-36 163
25 TraesCS7D01G138000 chr4A 96.117 103 4 0 17 119 309287204 309287306 5.140000e-38 169
26 TraesCS7D01G138000 chrUn 95.146 103 5 0 17 119 386523744 386523846 2.390000e-36 163
27 TraesCS7D01G138000 chrUn 95.146 103 5 0 17 119 397678008 397677906 2.390000e-36 163


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 TraesCS7D01G138000 chr7D 88597032 88600027 2995 True 5533 5533 100.000 1 2996 1 chr7D.!!$R1 2995
1 TraesCS7D01G138000 chr2A 726901846 726904121 2275 True 3646 3646 95.650 116 2381 1 chr2A.!!$R1 2265
2 TraesCS7D01G138000 chr2A 335825295 335825903 608 False 929 929 94.137 2383 2996 1 chr2A.!!$F1 613
3 TraesCS7D01G138000 chr3D 589258919 589261193 2274 True 3622 3622 95.473 116 2381 1 chr3D.!!$R2 2265
4 TraesCS7D01G138000 chr3D 21896570 21897184 614 False 963 963 94.959 2383 2996 1 chr3D.!!$F1 613
5 TraesCS7D01G138000 chr5D 503260168 503262442 2274 True 3605 3605 95.347 116 2381 1 chr5D.!!$R1 2265
6 TraesCS7D01G138000 chr5D 503247603 503249879 2276 False 3600 3600 95.261 113 2381 1 chr5D.!!$F3 2268
7 TraesCS7D01G138000 chr3B 201570178 201572453 2275 True 3585 3585 95.167 116 2381 1 chr3B.!!$R2 2265
8 TraesCS7D01G138000 chr3B 201541851 201544126 2275 False 3576 3576 95.083 113 2381 1 chr3B.!!$F1 2268
9 TraesCS7D01G138000 chr7B 662729244 662731522 2278 False 3579 3579 95.086 113 2381 1 chr7B.!!$F1 2268
10 TraesCS7D01G138000 chr7B 663094817 663097091 2274 True 3572 3572 95.077 116 2381 1 chr7B.!!$R1 2265
11 TraesCS7D01G138000 chr2D 272807641 272809912 2271 True 3565 3565 95.033 116 2381 1 chr2D.!!$R1 2265
12 TraesCS7D01G138000 chr2D 628284686 628285293 607 False 952 952 94.788 2383 2996 1 chr2D.!!$F1 613
13 TraesCS7D01G138000 chr6D 431399039 431399654 615 False 970 970 95.130 2383 2996 1 chr6D.!!$F1 613
14 TraesCS7D01G138000 chr1D 394177918 394178534 616 False 970 970 95.138 2383 2996 1 chr1D.!!$F4 613
15 TraesCS7D01G138000 chr1D 254488710 254489325 615 False 965 965 94.968 2383 2996 1 chr1D.!!$F3 613
16 TraesCS7D01G138000 chr1D 244407632 244408240 608 False 885 885 92.834 2383 2996 1 chr1D.!!$F1 613
17 TraesCS7D01G138000 chr1D 244423170 244423778 608 False 874 874 92.508 2383 2996 1 chr1D.!!$F2 613
18 TraesCS7D01G138000 chr1A 256026543 256027151 608 True 941 941 94.463 2383 2996 1 chr1A.!!$R1 613

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
629 632 0.105453 GAGGGATGGAGGTGGCTAGA 60.105 60.0 0.0 0.0 0.0 2.43 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2142 2155 0.038892 TTTAAACGGCTCGTCTCGCT 60.039 50.0 0.69 0.0 39.99 4.93 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
29 30 9.823647 TTCATCCTTGTTCTGTTAAGATATCTC 57.176 33.333 5.51 0.00 30.72 2.75
30 31 9.206690 TCATCCTTGTTCTGTTAAGATATCTCT 57.793 33.333 5.51 0.00 30.72 3.10
31 32 9.258826 CATCCTTGTTCTGTTAAGATATCTCTG 57.741 37.037 5.51 0.00 30.72 3.35
32 33 8.595362 TCCTTGTTCTGTTAAGATATCTCTGA 57.405 34.615 5.51 0.82 30.72 3.27
33 34 9.206690 TCCTTGTTCTGTTAAGATATCTCTGAT 57.793 33.333 5.51 0.00 30.72 2.90
38 39 9.921637 GTTCTGTTAAGATATCTCTGATAAGGG 57.078 37.037 5.51 0.00 30.72 3.95
39 40 8.128322 TCTGTTAAGATATCTCTGATAAGGGC 57.872 38.462 5.51 0.00 0.00 5.19
40 41 7.952930 TCTGTTAAGATATCTCTGATAAGGGCT 59.047 37.037 5.51 0.00 0.00 5.19
41 42 9.249053 CTGTTAAGATATCTCTGATAAGGGCTA 57.751 37.037 5.51 0.00 0.00 3.93
42 43 9.775539 TGTTAAGATATCTCTGATAAGGGCTAT 57.224 33.333 5.51 0.00 0.00 2.97
45 46 8.477419 AAGATATCTCTGATAAGGGCTATAGC 57.523 38.462 16.78 16.78 41.14 2.97
46 47 7.825709 AGATATCTCTGATAAGGGCTATAGCT 58.174 38.462 23.53 7.42 41.70 3.32
47 48 8.288812 AGATATCTCTGATAAGGGCTATAGCTT 58.711 37.037 23.53 13.69 41.70 3.74
48 49 9.581289 GATATCTCTGATAAGGGCTATAGCTTA 57.419 37.037 23.53 15.35 41.70 3.09
49 50 7.896383 ATCTCTGATAAGGGCTATAGCTTAG 57.104 40.000 23.53 10.02 41.70 2.18
50 51 6.795590 TCTCTGATAAGGGCTATAGCTTAGT 58.204 40.000 23.53 9.76 41.70 2.24
51 52 7.242359 TCTCTGATAAGGGCTATAGCTTAGTT 58.758 38.462 23.53 13.74 41.70 2.24
52 53 7.394923 TCTCTGATAAGGGCTATAGCTTAGTTC 59.605 40.741 23.53 15.15 41.70 3.01
53 54 6.151312 TCTGATAAGGGCTATAGCTTAGTTCG 59.849 42.308 23.53 11.61 41.70 3.95
54 55 5.185249 TGATAAGGGCTATAGCTTAGTTCGG 59.815 44.000 23.53 0.00 41.70 4.30
55 56 2.960163 AGGGCTATAGCTTAGTTCGGT 58.040 47.619 23.53 0.00 41.70 4.69
56 57 4.109877 AGGGCTATAGCTTAGTTCGGTA 57.890 45.455 23.53 0.00 41.70 4.02
57 58 4.080687 AGGGCTATAGCTTAGTTCGGTAG 58.919 47.826 23.53 0.00 41.70 3.18
58 59 4.077822 GGGCTATAGCTTAGTTCGGTAGA 58.922 47.826 23.53 0.00 41.70 2.59
59 60 4.156373 GGGCTATAGCTTAGTTCGGTAGAG 59.844 50.000 23.53 0.00 41.70 2.43
60 61 4.379708 GGCTATAGCTTAGTTCGGTAGAGC 60.380 50.000 23.53 7.18 44.44 4.09
61 62 4.215827 GCTATAGCTTAGTTCGGTAGAGCA 59.784 45.833 17.75 0.00 44.51 4.26
62 63 5.278364 GCTATAGCTTAGTTCGGTAGAGCAA 60.278 44.000 17.75 0.00 44.51 3.91
63 64 3.233684 AGCTTAGTTCGGTAGAGCAAC 57.766 47.619 0.00 0.00 35.86 4.17
64 65 2.826725 AGCTTAGTTCGGTAGAGCAACT 59.173 45.455 0.00 0.00 35.86 3.16
65 66 3.119424 AGCTTAGTTCGGTAGAGCAACTC 60.119 47.826 0.00 0.00 35.86 3.01
66 67 3.367087 GCTTAGTTCGGTAGAGCAACTCA 60.367 47.826 0.00 0.00 32.56 3.41
67 68 4.678309 GCTTAGTTCGGTAGAGCAACTCAT 60.678 45.833 0.00 0.00 32.56 2.90
68 69 3.963428 AGTTCGGTAGAGCAACTCATT 57.037 42.857 0.00 0.00 32.06 2.57
69 70 4.273148 AGTTCGGTAGAGCAACTCATTT 57.727 40.909 0.00 0.00 32.06 2.32
70 71 5.401531 AGTTCGGTAGAGCAACTCATTTA 57.598 39.130 0.00 0.00 32.06 1.40
71 72 5.169295 AGTTCGGTAGAGCAACTCATTTAC 58.831 41.667 0.00 0.00 32.06 2.01
72 73 4.794278 TCGGTAGAGCAACTCATTTACA 57.206 40.909 0.00 0.00 32.06 2.41
73 74 4.491676 TCGGTAGAGCAACTCATTTACAC 58.508 43.478 0.00 0.00 32.06 2.90
74 75 3.303495 CGGTAGAGCAACTCATTTACACG 59.697 47.826 0.00 0.00 32.06 4.49
75 76 4.243270 GGTAGAGCAACTCATTTACACGT 58.757 43.478 0.00 0.00 32.06 4.49
76 77 4.091509 GGTAGAGCAACTCATTTACACGTG 59.908 45.833 15.48 15.48 32.06 4.49
77 78 3.728845 AGAGCAACTCATTTACACGTGT 58.271 40.909 26.52 26.52 32.06 4.49
78 79 3.494626 AGAGCAACTCATTTACACGTGTG 59.505 43.478 30.83 15.26 32.06 3.82
79 80 2.548057 AGCAACTCATTTACACGTGTGG 59.452 45.455 30.83 16.72 34.19 4.17
80 81 2.916111 CAACTCATTTACACGTGTGGC 58.084 47.619 30.83 0.00 34.19 5.01
81 82 2.248280 ACTCATTTACACGTGTGGCA 57.752 45.000 30.83 14.55 34.19 4.92
82 83 2.566913 ACTCATTTACACGTGTGGCAA 58.433 42.857 30.83 19.70 34.19 4.52
83 84 3.146066 ACTCATTTACACGTGTGGCAAT 58.854 40.909 30.83 20.93 34.19 3.56
84 85 3.058293 ACTCATTTACACGTGTGGCAATG 60.058 43.478 30.83 28.81 36.37 2.82
85 86 1.984990 CATTTACACGTGTGGCAATGC 59.015 47.619 30.83 0.00 31.73 3.56
86 87 1.313772 TTTACACGTGTGGCAATGCT 58.686 45.000 30.83 2.89 34.19 3.79
87 88 1.313772 TTACACGTGTGGCAATGCTT 58.686 45.000 30.83 2.09 34.19 3.91
88 89 1.313772 TACACGTGTGGCAATGCTTT 58.686 45.000 30.83 1.52 34.19 3.51
89 90 0.459489 ACACGTGTGGCAATGCTTTT 59.541 45.000 22.71 0.00 34.19 2.27
90 91 1.130955 CACGTGTGGCAATGCTTTTC 58.869 50.000 7.58 0.00 0.00 2.29
91 92 0.743688 ACGTGTGGCAATGCTTTTCA 59.256 45.000 4.82 0.00 0.00 2.69
92 93 1.135915 ACGTGTGGCAATGCTTTTCAA 59.864 42.857 4.82 0.00 0.00 2.69
93 94 2.200067 CGTGTGGCAATGCTTTTCAAA 58.800 42.857 4.82 0.00 0.00 2.69
94 95 2.219216 CGTGTGGCAATGCTTTTCAAAG 59.781 45.455 4.82 0.00 39.03 2.77
95 96 2.545106 GTGTGGCAATGCTTTTCAAAGG 59.455 45.455 4.82 0.00 36.53 3.11
96 97 2.433604 TGTGGCAATGCTTTTCAAAGGA 59.566 40.909 4.82 0.00 40.68 3.36
97 98 3.062042 GTGGCAATGCTTTTCAAAGGAG 58.938 45.455 4.82 0.00 39.75 3.69
98 99 2.071540 GGCAATGCTTTTCAAAGGAGC 58.928 47.619 4.82 0.00 39.75 4.70
99 100 2.289257 GGCAATGCTTTTCAAAGGAGCT 60.289 45.455 4.82 0.00 39.75 4.09
100 101 3.396560 GCAATGCTTTTCAAAGGAGCTT 58.603 40.909 0.00 0.00 39.75 3.74
101 102 4.559153 GCAATGCTTTTCAAAGGAGCTTA 58.441 39.130 0.00 0.00 39.75 3.09
102 103 5.173664 GCAATGCTTTTCAAAGGAGCTTAT 58.826 37.500 0.00 0.00 39.75 1.73
103 104 5.640783 GCAATGCTTTTCAAAGGAGCTTATT 59.359 36.000 0.00 0.00 39.75 1.40
104 105 6.148315 GCAATGCTTTTCAAAGGAGCTTATTT 59.852 34.615 0.00 0.00 39.75 1.40
105 106 7.308169 GCAATGCTTTTCAAAGGAGCTTATTTT 60.308 33.333 0.00 0.00 39.75 1.82
106 107 7.662604 ATGCTTTTCAAAGGAGCTTATTTTG 57.337 32.000 10.53 10.53 39.75 2.44
107 108 5.466393 TGCTTTTCAAAGGAGCTTATTTTGC 59.534 36.000 11.48 3.65 37.32 3.68
108 109 5.466393 GCTTTTCAAAGGAGCTTATTTTGCA 59.534 36.000 11.48 0.00 36.53 4.08
109 110 6.018016 GCTTTTCAAAGGAGCTTATTTTGCAA 60.018 34.615 0.00 0.00 36.53 4.08
110 111 7.308169 GCTTTTCAAAGGAGCTTATTTTGCAAT 60.308 33.333 0.00 0.00 36.53 3.56
111 112 7.424227 TTTCAAAGGAGCTTATTTTGCAATG 57.576 32.000 0.00 0.00 33.10 2.82
114 115 6.646240 TCAAAGGAGCTTATTTTGCAATGAAC 59.354 34.615 0.00 0.00 33.10 3.18
134 135 1.553248 CATAACAGGGGTCAAGGTCGA 59.447 52.381 0.00 0.00 0.00 4.20
213 214 1.214424 GCTAAGGCCCCTAAATGACCA 59.786 52.381 0.00 0.00 0.00 4.02
301 303 3.868757 AAGAGTGCGTAATAGCTCACA 57.131 42.857 0.00 0.00 38.13 3.58
303 305 2.099921 AGAGTGCGTAATAGCTCACAGG 59.900 50.000 0.00 0.00 38.13 4.00
447 450 3.279434 ACGAAGTGGAAGCAAGAAGTTT 58.721 40.909 0.00 0.00 42.51 2.66
470 473 3.668656 GCTTGAGTAACGAAAACATTGGC 59.331 43.478 0.00 0.00 0.00 4.52
576 579 2.435805 AGGCATAGTCGATGGACAACAT 59.564 45.455 10.69 0.00 45.92 2.71
609 612 3.836562 CTGTACTACCCCTTGTTGGTACT 59.163 47.826 0.00 0.00 36.63 2.73
622 625 0.716591 TGGTACTGAGGGATGGAGGT 59.283 55.000 0.00 0.00 0.00 3.85
629 632 0.105453 GAGGGATGGAGGTGGCTAGA 60.105 60.000 0.00 0.00 0.00 2.43
680 683 1.338020 CACAAGGTGACCCTGCTTTTC 59.662 52.381 0.00 0.00 41.56 2.29
751 754 2.781300 GCTGCAGCGCTGAAGTAC 59.219 61.111 39.03 24.09 38.53 2.73
801 804 3.083349 AGGCTCATACCAGGCGCA 61.083 61.111 10.83 0.00 43.75 6.09
885 894 1.534595 CCTATACCCGAAACCGACACG 60.535 57.143 0.00 0.00 0.00 4.49
930 939 1.515304 GCGCGAGACAACTCTCTCC 60.515 63.158 12.10 0.00 40.96 3.71
937 946 3.366883 CGAGACAACTCTCTCCAAGGAAG 60.367 52.174 0.00 0.00 40.96 3.46
1108 1117 3.230976 GGAAGGTCAAGGAAATTGGTGT 58.769 45.455 0.00 0.00 39.54 4.16
1130 1139 3.329542 GATGACAGGGAAGCCGGCA 62.330 63.158 31.54 4.05 0.00 5.69
1134 1143 4.659172 CAGGGAAGCCGGCAACCA 62.659 66.667 32.15 0.00 0.00 3.67
1148 1157 1.341080 CAACCAAAGCCCCAGTGAAT 58.659 50.000 0.00 0.00 0.00 2.57
1193 1202 7.395617 GTCCTAAGGTAGAGAAATTCCTTGTT 58.604 38.462 4.53 0.00 40.05 2.83
1219 1228 0.521735 GTTCCGACCCACATGAAAGC 59.478 55.000 0.00 0.00 0.00 3.51
1236 1245 1.227556 GCCGTAACGATCTGGGCAT 60.228 57.895 0.00 0.00 43.23 4.40
1238 1247 1.539496 GCCGTAACGATCTGGGCATTA 60.539 52.381 0.00 0.00 43.23 1.90
1243 1252 4.558697 CGTAACGATCTGGGCATTATCTCA 60.559 45.833 0.00 0.00 0.00 3.27
1254 1263 3.306225 GGCATTATCTCAGAGAGAGGCTG 60.306 52.174 17.68 9.04 42.26 4.85
1261 1270 0.248843 CAGAGAGAGGCTGGGTGAAC 59.751 60.000 0.00 0.00 0.00 3.18
1326 1335 7.180408 ACAGAAAGACCCTATGAAGCTTTACTA 59.820 37.037 0.00 0.00 0.00 1.82
1333 1342 7.080353 ACCCTATGAAGCTTTACTATTCCCTA 58.920 38.462 0.00 0.00 0.00 3.53
1460 1471 1.343465 CTAACCTTGTGTCAGACCCGT 59.657 52.381 0.00 0.00 0.00 5.28
1516 1527 4.408378 GCGTAGGCCTCCCAAAAA 57.592 55.556 9.68 0.00 0.00 1.94
1560 1571 2.032071 CGGGCCAGACGGACTTTT 59.968 61.111 4.39 0.00 41.90 2.27
1563 1574 1.515521 GGGCCAGACGGACTTTTGTG 61.516 60.000 4.39 0.00 41.90 3.33
1596 1607 1.367659 GCAGAAGCTAGCTTGACTGG 58.632 55.000 33.91 18.70 36.26 4.00
1645 1656 0.681887 TCGGCCTTAGTGATCCGACA 60.682 55.000 0.00 0.00 44.99 4.35
1651 1662 1.204704 CTTAGTGATCCGACAGTGCCA 59.795 52.381 0.00 0.00 0.00 4.92
1668 1681 3.239253 AAGTGGAAGGGCCGTCGT 61.239 61.111 13.39 0.00 40.66 4.34
1762 1775 0.965866 ACCTCGATGTCGGCTCTTCA 60.966 55.000 2.25 0.00 40.29 3.02
1838 1851 4.802563 GGTACGTGAGCTATGTTTAGAACC 59.197 45.833 0.00 0.00 0.00 3.62
1886 1899 2.412089 GTGTGGACGTTAGAGCATTGAC 59.588 50.000 0.00 0.00 0.00 3.18
1903 1916 2.257207 TGACAGGACCTTTCCCTAGTG 58.743 52.381 5.18 0.00 44.10 2.74
2042 2055 3.025978 CAAGATGAGTGCTCTCTCCTCT 58.974 50.000 16.23 12.10 39.72 3.69
2053 2066 3.436470 GCTCTCTCCTCTGACTTCCCTAT 60.436 52.174 0.00 0.00 0.00 2.57
2061 2074 2.158295 TCTGACTTCCCTATAGCCTCCC 60.158 54.545 0.00 0.00 0.00 4.30
2079 2092 0.172578 CCGTATCACAGCCGAGACAA 59.827 55.000 0.00 0.00 0.00 3.18
2096 2109 1.076533 CAACGACGGGTTCTCCATCG 61.077 60.000 0.00 0.00 44.26 3.84
2142 2155 8.506196 AAGTATGGAAATAGGATAAGGTAGCA 57.494 34.615 0.00 0.00 0.00 3.49
2255 2268 2.419990 CCTACACGGCCTGATCAAATCA 60.420 50.000 0.00 0.00 37.76 2.57
2362 2378 3.625762 TGGATAGATAGAGAGGGAGGGT 58.374 50.000 0.00 0.00 0.00 4.34
2381 2397 1.205460 TAGAGGCCTTTGGTGTCCCC 61.205 60.000 6.77 0.00 0.00 4.81
2397 2413 2.276740 CCTGGTCATTGAGGGCCC 59.723 66.667 16.46 16.46 0.00 5.80
2448 2464 7.059147 CGAGTTGTTCTAAAGAATTAAAACGGC 59.941 37.037 0.00 0.00 36.33 5.68
2473 2489 5.352016 CGGTTATTAACGGAATTCCTTGTCA 59.648 40.000 22.05 5.12 34.00 3.58
2507 2523 2.226962 ACTCGTTTGGCCTAGGACTA 57.773 50.000 17.75 5.10 0.00 2.59
2508 2524 2.532843 ACTCGTTTGGCCTAGGACTAA 58.467 47.619 17.75 12.49 0.00 2.24
2509 2525 3.105283 ACTCGTTTGGCCTAGGACTAAT 58.895 45.455 17.75 0.00 0.00 1.73
2517 2533 3.129109 GGCCTAGGACTAATAAACACGC 58.871 50.000 14.75 0.00 0.00 5.34
2574 2590 5.250774 ACCGCAATGAATAGGGAAGGTATAT 59.749 40.000 0.00 0.00 0.00 0.86
2645 2661 2.809601 CGTTCTCCCGTGCTTCCG 60.810 66.667 0.00 0.00 0.00 4.30
2672 2688 5.350504 TGCTGAACTCCCAAAAATTTTGA 57.649 34.783 18.98 0.20 0.00 2.69
2761 2777 5.947228 TTCATCCTTGTGAGATTGTCAAC 57.053 39.130 0.00 0.00 36.74 3.18
2789 2805 8.927675 TGTACCAAAGGTGTATTTTGAGTATT 57.072 30.769 0.00 0.00 37.65 1.89
2791 2807 9.227777 GTACCAAAGGTGTATTTTGAGTATTCT 57.772 33.333 0.00 0.00 37.65 2.40
2839 2855 2.741228 GCACAACAATCTGGTTTTGCCA 60.741 45.455 6.02 0.00 44.55 4.92
2864 2896 9.124807 CAGGTTCCGAAACATAATTACTTTTTC 57.875 33.333 0.00 0.00 37.10 2.29
2939 2980 7.528675 ACCCCATTTTTGTAGGTTCTACTTAA 58.471 34.615 6.63 0.00 0.00 1.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 9.823647 GAGATATCTTAACAGAACAAGGATGAA 57.176 33.333 6.70 0.00 30.76 2.57
4 5 9.206690 AGAGATATCTTAACAGAACAAGGATGA 57.793 33.333 6.70 0.00 30.76 2.92
5 6 9.258826 CAGAGATATCTTAACAGAACAAGGATG 57.741 37.037 6.70 0.00 30.76 3.51
6 7 9.206690 TCAGAGATATCTTAACAGAACAAGGAT 57.793 33.333 6.70 0.00 30.76 3.24
7 8 8.595362 TCAGAGATATCTTAACAGAACAAGGA 57.405 34.615 6.70 0.00 30.76 3.36
12 13 9.921637 CCCTTATCAGAGATATCTTAACAGAAC 57.078 37.037 6.70 0.00 30.76 3.01
13 14 8.589338 GCCCTTATCAGAGATATCTTAACAGAA 58.411 37.037 6.70 0.00 30.76 3.02
14 15 7.952930 AGCCCTTATCAGAGATATCTTAACAGA 59.047 37.037 6.70 1.83 0.00 3.41
15 16 8.133024 AGCCCTTATCAGAGATATCTTAACAG 57.867 38.462 6.70 0.00 0.00 3.16
16 17 9.775539 ATAGCCCTTATCAGAGATATCTTAACA 57.224 33.333 6.70 0.00 0.00 2.41
19 20 9.581289 GCTATAGCCCTTATCAGAGATATCTTA 57.419 37.037 14.13 0.00 34.31 2.10
20 21 8.288812 AGCTATAGCCCTTATCAGAGATATCTT 58.711 37.037 21.17 0.00 43.38 2.40
21 22 7.825709 AGCTATAGCCCTTATCAGAGATATCT 58.174 38.462 21.17 4.47 43.38 1.98
22 23 8.477419 AAGCTATAGCCCTTATCAGAGATATC 57.523 38.462 21.17 0.00 43.38 1.63
23 24 9.586732 CTAAGCTATAGCCCTTATCAGAGATAT 57.413 37.037 21.17 0.00 43.38 1.63
24 25 8.561769 ACTAAGCTATAGCCCTTATCAGAGATA 58.438 37.037 21.17 0.00 43.38 1.98
25 26 7.418378 ACTAAGCTATAGCCCTTATCAGAGAT 58.582 38.462 21.17 0.00 43.38 2.75
26 27 6.795590 ACTAAGCTATAGCCCTTATCAGAGA 58.204 40.000 21.17 0.00 43.38 3.10
27 28 7.475137 AACTAAGCTATAGCCCTTATCAGAG 57.525 40.000 21.17 6.52 43.38 3.35
28 29 6.151312 CGAACTAAGCTATAGCCCTTATCAGA 59.849 42.308 21.17 0.00 43.38 3.27
29 30 6.326375 CGAACTAAGCTATAGCCCTTATCAG 58.674 44.000 21.17 9.92 43.38 2.90
30 31 5.185249 CCGAACTAAGCTATAGCCCTTATCA 59.815 44.000 21.17 0.00 43.38 2.15
31 32 5.185442 ACCGAACTAAGCTATAGCCCTTATC 59.815 44.000 21.17 12.98 43.38 1.75
32 33 5.085219 ACCGAACTAAGCTATAGCCCTTAT 58.915 41.667 21.17 5.41 43.38 1.73
33 34 4.477249 ACCGAACTAAGCTATAGCCCTTA 58.523 43.478 21.17 12.75 43.38 2.69
34 35 3.306613 ACCGAACTAAGCTATAGCCCTT 58.693 45.455 21.17 12.28 43.38 3.95
35 36 2.960163 ACCGAACTAAGCTATAGCCCT 58.040 47.619 21.17 11.30 43.38 5.19
36 37 4.077822 TCTACCGAACTAAGCTATAGCCC 58.922 47.826 21.17 3.40 43.38 5.19
37 38 4.379708 GCTCTACCGAACTAAGCTATAGCC 60.380 50.000 21.17 3.79 43.38 3.93
38 39 4.215827 TGCTCTACCGAACTAAGCTATAGC 59.784 45.833 17.33 17.33 42.49 2.97
39 40 5.943706 TGCTCTACCGAACTAAGCTATAG 57.056 43.478 0.00 0.00 34.11 1.31
40 41 5.826737 AGTTGCTCTACCGAACTAAGCTATA 59.173 40.000 0.00 0.00 34.11 1.31
41 42 4.645588 AGTTGCTCTACCGAACTAAGCTAT 59.354 41.667 0.00 0.00 34.11 2.97
42 43 4.015084 AGTTGCTCTACCGAACTAAGCTA 58.985 43.478 0.00 0.00 34.11 3.32
43 44 2.826725 AGTTGCTCTACCGAACTAAGCT 59.173 45.455 0.00 0.00 34.11 3.74
44 45 3.180613 GAGTTGCTCTACCGAACTAAGC 58.819 50.000 0.00 0.00 30.01 3.09
45 46 4.436242 TGAGTTGCTCTACCGAACTAAG 57.564 45.455 0.00 0.00 30.01 2.18
46 47 5.401531 AATGAGTTGCTCTACCGAACTAA 57.598 39.130 0.00 0.00 30.01 2.24
47 48 5.401531 AAATGAGTTGCTCTACCGAACTA 57.598 39.130 0.00 0.00 30.01 2.24
48 49 3.963428 AATGAGTTGCTCTACCGAACT 57.037 42.857 0.00 0.00 32.57 3.01
49 50 4.927425 TGTAAATGAGTTGCTCTACCGAAC 59.073 41.667 0.00 0.00 0.00 3.95
50 51 4.927425 GTGTAAATGAGTTGCTCTACCGAA 59.073 41.667 0.00 0.00 0.00 4.30
51 52 4.491676 GTGTAAATGAGTTGCTCTACCGA 58.508 43.478 0.00 0.00 0.00 4.69
52 53 3.303495 CGTGTAAATGAGTTGCTCTACCG 59.697 47.826 0.00 0.00 0.00 4.02
53 54 4.091509 CACGTGTAAATGAGTTGCTCTACC 59.908 45.833 7.58 0.00 0.00 3.18
54 55 4.684703 ACACGTGTAAATGAGTTGCTCTAC 59.315 41.667 21.98 0.00 0.00 2.59
55 56 4.684242 CACACGTGTAAATGAGTTGCTCTA 59.316 41.667 22.90 0.00 0.00 2.43
56 57 3.494626 CACACGTGTAAATGAGTTGCTCT 59.505 43.478 22.90 0.00 0.00 4.09
57 58 3.363970 CCACACGTGTAAATGAGTTGCTC 60.364 47.826 22.90 0.00 0.00 4.26
58 59 2.548057 CCACACGTGTAAATGAGTTGCT 59.452 45.455 22.90 0.00 0.00 3.91
59 60 2.916111 CCACACGTGTAAATGAGTTGC 58.084 47.619 22.90 0.00 0.00 4.17
60 61 2.289274 TGCCACACGTGTAAATGAGTTG 59.711 45.455 22.90 5.41 0.00 3.16
61 62 2.566913 TGCCACACGTGTAAATGAGTT 58.433 42.857 22.90 0.00 0.00 3.01
62 63 2.248280 TGCCACACGTGTAAATGAGT 57.752 45.000 22.90 0.00 0.00 3.41
63 64 3.491356 CATTGCCACACGTGTAAATGAG 58.509 45.455 29.15 16.22 35.36 2.90
64 65 2.351253 GCATTGCCACACGTGTAAATGA 60.351 45.455 33.17 18.39 35.36 2.57
65 66 1.984990 GCATTGCCACACGTGTAAATG 59.015 47.619 28.89 28.89 35.93 2.32
66 67 1.885887 AGCATTGCCACACGTGTAAAT 59.114 42.857 22.90 17.63 0.00 1.40
67 68 1.313772 AGCATTGCCACACGTGTAAA 58.686 45.000 22.90 16.13 0.00 2.01
68 69 1.313772 AAGCATTGCCACACGTGTAA 58.686 45.000 22.90 13.07 0.00 2.41
69 70 1.313772 AAAGCATTGCCACACGTGTA 58.686 45.000 22.90 6.04 0.00 2.90
70 71 0.459489 AAAAGCATTGCCACACGTGT 59.541 45.000 17.22 17.22 0.00 4.49
71 72 1.130955 GAAAAGCATTGCCACACGTG 58.869 50.000 15.48 15.48 0.00 4.49
72 73 0.743688 TGAAAAGCATTGCCACACGT 59.256 45.000 4.70 0.00 0.00 4.49
73 74 1.850377 TTGAAAAGCATTGCCACACG 58.150 45.000 4.70 0.00 0.00 4.49
74 75 2.545106 CCTTTGAAAAGCATTGCCACAC 59.455 45.455 4.70 0.00 34.69 3.82
75 76 2.433604 TCCTTTGAAAAGCATTGCCACA 59.566 40.909 4.70 0.00 34.69 4.17
76 77 3.062042 CTCCTTTGAAAAGCATTGCCAC 58.938 45.455 4.70 0.00 34.69 5.01
77 78 2.548493 GCTCCTTTGAAAAGCATTGCCA 60.548 45.455 4.70 0.00 36.06 4.92
78 79 2.071540 GCTCCTTTGAAAAGCATTGCC 58.928 47.619 4.70 0.00 36.06 4.52
79 80 3.036075 AGCTCCTTTGAAAAGCATTGC 57.964 42.857 0.00 0.00 38.51 3.56
80 81 7.662604 AAATAAGCTCCTTTGAAAAGCATTG 57.337 32.000 4.62 0.00 38.51 2.82
81 82 7.308169 GCAAAATAAGCTCCTTTGAAAAGCATT 60.308 33.333 15.55 0.01 38.51 3.56
82 83 6.148315 GCAAAATAAGCTCCTTTGAAAAGCAT 59.852 34.615 15.55 0.00 38.51 3.79
83 84 5.466393 GCAAAATAAGCTCCTTTGAAAAGCA 59.534 36.000 15.55 0.00 38.51 3.91
84 85 5.466393 TGCAAAATAAGCTCCTTTGAAAAGC 59.534 36.000 15.55 0.00 34.69 3.51
85 86 7.481275 TTGCAAAATAAGCTCCTTTGAAAAG 57.519 32.000 15.55 0.00 32.87 2.27
86 87 7.714377 TCATTGCAAAATAAGCTCCTTTGAAAA 59.286 29.630 1.71 10.51 32.64 2.29
87 88 7.215789 TCATTGCAAAATAAGCTCCTTTGAAA 58.784 30.769 1.71 12.62 33.26 2.69
88 89 6.757237 TCATTGCAAAATAAGCTCCTTTGAA 58.243 32.000 1.71 5.75 32.87 2.69
89 90 6.343716 TCATTGCAAAATAAGCTCCTTTGA 57.656 33.333 1.71 0.00 32.87 2.69
90 91 6.424509 TGTTCATTGCAAAATAAGCTCCTTTG 59.575 34.615 1.71 9.60 33.99 2.77
91 92 6.523840 TGTTCATTGCAAAATAAGCTCCTTT 58.476 32.000 1.71 0.00 0.00 3.11
92 93 6.100404 TGTTCATTGCAAAATAAGCTCCTT 57.900 33.333 1.71 0.00 0.00 3.36
93 94 5.726980 TGTTCATTGCAAAATAAGCTCCT 57.273 34.783 1.71 0.00 0.00 3.69
94 95 7.545265 TGTTATGTTCATTGCAAAATAAGCTCC 59.455 33.333 1.71 0.00 0.00 4.70
95 96 8.464770 TGTTATGTTCATTGCAAAATAAGCTC 57.535 30.769 1.71 0.00 0.00 4.09
96 97 7.546667 CCTGTTATGTTCATTGCAAAATAAGCT 59.453 33.333 1.71 0.00 0.00 3.74
97 98 7.201548 CCCTGTTATGTTCATTGCAAAATAAGC 60.202 37.037 1.71 0.00 0.00 3.09
98 99 7.278424 CCCCTGTTATGTTCATTGCAAAATAAG 59.722 37.037 1.71 0.00 0.00 1.73
99 100 7.102346 CCCCTGTTATGTTCATTGCAAAATAA 58.898 34.615 1.71 0.91 0.00 1.40
100 101 6.212388 ACCCCTGTTATGTTCATTGCAAAATA 59.788 34.615 1.71 0.00 0.00 1.40
101 102 5.012975 ACCCCTGTTATGTTCATTGCAAAAT 59.987 36.000 1.71 0.00 0.00 1.82
102 103 4.346418 ACCCCTGTTATGTTCATTGCAAAA 59.654 37.500 1.71 0.00 0.00 2.44
103 104 3.900601 ACCCCTGTTATGTTCATTGCAAA 59.099 39.130 1.71 0.00 0.00 3.68
104 105 3.505386 ACCCCTGTTATGTTCATTGCAA 58.495 40.909 0.00 0.00 0.00 4.08
105 106 3.088532 GACCCCTGTTATGTTCATTGCA 58.911 45.455 0.00 0.00 0.00 4.08
106 107 3.088532 TGACCCCTGTTATGTTCATTGC 58.911 45.455 0.00 0.00 0.00 3.56
107 108 4.158394 CCTTGACCCCTGTTATGTTCATTG 59.842 45.833 0.00 0.00 0.00 2.82
108 109 4.202673 ACCTTGACCCCTGTTATGTTCATT 60.203 41.667 0.00 0.00 0.00 2.57
109 110 3.333680 ACCTTGACCCCTGTTATGTTCAT 59.666 43.478 0.00 0.00 0.00 2.57
110 111 2.714250 ACCTTGACCCCTGTTATGTTCA 59.286 45.455 0.00 0.00 0.00 3.18
111 112 3.344515 GACCTTGACCCCTGTTATGTTC 58.655 50.000 0.00 0.00 0.00 3.18
114 115 1.553248 TCGACCTTGACCCCTGTTATG 59.447 52.381 0.00 0.00 0.00 1.90
134 135 1.990060 CCCCCATCGTCTCACTGGT 60.990 63.158 0.00 0.00 0.00 4.00
213 214 2.840651 CCCACCTCCTTTATCACTGAGT 59.159 50.000 0.00 0.00 0.00 3.41
310 312 0.036732 TTCATCTTCAGCGCAAGGGT 59.963 50.000 11.47 0.00 38.28 4.34
418 420 1.532316 TTCCACTTCGTCGACCCCT 60.532 57.895 10.58 0.00 0.00 4.79
439 441 6.431198 TTTCGTTACTCAAGCAAACTTCTT 57.569 33.333 0.00 0.00 32.29 2.52
447 450 4.791411 GCCAATGTTTTCGTTACTCAAGCA 60.791 41.667 0.00 0.00 0.00 3.91
470 473 0.463654 TTCGGGGCATTGGATTCTCG 60.464 55.000 0.00 0.00 0.00 4.04
523 526 2.758852 TTAGGCCCCGACTCACCCTT 62.759 60.000 0.00 0.00 0.00 3.95
559 562 4.736126 TGACATGTTGTCCATCGACTAT 57.264 40.909 0.00 0.00 46.40 2.12
576 579 5.535029 AGGGGTAGTACAGGAATATTGACA 58.465 41.667 2.06 0.00 0.00 3.58
609 612 0.399091 CTAGCCACCTCCATCCCTCA 60.399 60.000 0.00 0.00 0.00 3.86
629 632 6.435292 ACCTATAACCATCTTTCGGCTAAT 57.565 37.500 0.00 0.00 0.00 1.73
680 683 2.023307 TCTCTACCCCTTCTTACCCTGG 60.023 54.545 0.00 0.00 0.00 4.45
751 754 4.208686 GCTAGTCCACGGGGCTCG 62.209 72.222 4.58 4.58 45.88 5.03
801 804 1.997606 GTTACATACTTCAGCGCCGTT 59.002 47.619 2.29 0.00 0.00 4.44
840 843 2.108700 CTTTTGTTGAAGGTCGTTGCG 58.891 47.619 0.00 0.00 0.00 4.85
841 844 2.459934 CCTTTTGTTGAAGGTCGTTGC 58.540 47.619 0.00 0.00 41.06 4.17
842 845 2.425668 ACCCTTTTGTTGAAGGTCGTTG 59.574 45.455 3.26 0.00 43.84 4.10
885 894 3.116823 AGGTATTCTCTACCTACCCACCC 60.117 52.174 2.10 0.00 45.47 4.61
930 939 2.159379 GGCTATTTTGCCGACTTCCTTG 60.159 50.000 0.00 0.00 43.74 3.61
959 968 3.090532 GGCACCCCTTCTCCCGAT 61.091 66.667 0.00 0.00 0.00 4.18
1101 1110 3.181329 TCCCTGTCATCAGTACACCAAT 58.819 45.455 0.00 0.00 39.82 3.16
1108 1117 0.824109 CGGCTTCCCTGTCATCAGTA 59.176 55.000 0.00 0.00 39.82 2.74
1130 1139 1.341080 CATTCACTGGGGCTTTGGTT 58.659 50.000 0.00 0.00 0.00 3.67
1134 1143 4.118584 GCCATTCACTGGGGCTTT 57.881 55.556 0.00 0.00 46.06 3.51
1142 1151 1.743995 GTTACGGCCGCCATTCACT 60.744 57.895 28.58 5.26 0.00 3.41
1148 1157 0.248990 CGTTATAGTTACGGCCGCCA 60.249 55.000 28.58 11.22 35.47 5.69
1210 1219 2.930040 CAGATCGTTACGGCTTTCATGT 59.070 45.455 4.53 0.00 0.00 3.21
1219 1228 2.519377 TAATGCCCAGATCGTTACGG 57.481 50.000 4.53 0.00 0.00 4.02
1236 1245 2.246067 ACCCAGCCTCTCTCTGAGATAA 59.754 50.000 8.00 0.00 45.39 1.75
1238 1247 0.636101 ACCCAGCCTCTCTCTGAGAT 59.364 55.000 8.00 0.00 45.39 2.75
1243 1252 0.116143 AGTTCACCCAGCCTCTCTCT 59.884 55.000 0.00 0.00 0.00 3.10
1254 1263 3.258372 TCACAGACATGTCTAGTTCACCC 59.742 47.826 27.44 0.00 37.65 4.61
1261 1270 3.795639 CGCATCTTCACAGACATGTCTAG 59.204 47.826 27.44 20.35 37.65 2.43
1326 1335 2.091111 CCCAAAGCCAATCCTAGGGAAT 60.091 50.000 9.46 0.00 34.34 3.01
1400 1411 2.432146 GTGGTATCTCACTGATGGCTCA 59.568 50.000 0.00 0.00 36.65 4.26
1460 1471 2.121963 AGACTGTCCCTTGGCCCA 60.122 61.111 0.00 0.00 0.00 5.36
1557 1568 1.065401 CCTTTGCACTCGAGCACAAAA 59.935 47.619 24.94 15.11 45.61 2.44
1560 1571 2.253758 GCCTTTGCACTCGAGCACA 61.254 57.895 13.61 8.23 45.61 4.57
1563 1574 1.230635 TTCTGCCTTTGCACTCGAGC 61.231 55.000 13.61 0.00 44.23 5.03
1584 1595 3.367910 GGTGAGTCTTCCAGTCAAGCTAG 60.368 52.174 0.00 0.00 36.13 3.42
1585 1596 2.563179 GGTGAGTCTTCCAGTCAAGCTA 59.437 50.000 0.00 0.00 36.13 3.32
1596 1607 1.153997 GCTCGACGGGTGAGTCTTC 60.154 63.158 0.00 0.00 38.90 2.87
1645 1656 2.116125 GCCCTTCCACTTGGCACT 59.884 61.111 0.00 0.00 44.70 4.40
1651 1662 2.726822 GAACGACGGCCCTTCCACTT 62.727 60.000 0.00 0.00 34.01 3.16
1668 1681 8.542080 TCCCTAGAGTAAATTTTATCCGTTGAA 58.458 33.333 0.00 0.00 0.00 2.69
1682 1695 8.235230 AGATCATCCTGTTATCCCTAGAGTAAA 58.765 37.037 0.00 0.00 0.00 2.01
1702 1715 2.507471 GTGGACTCTTGGGGAAGATCAT 59.493 50.000 0.00 0.00 0.00 2.45
1762 1775 1.158705 ACCTACAGCTCCAGGTGGT 59.841 57.895 13.84 3.36 46.90 4.16
1827 1840 6.777213 ACTATCTCACGAGGTTCTAAACAT 57.223 37.500 0.00 0.00 0.00 2.71
1828 1841 6.585695 AACTATCTCACGAGGTTCTAAACA 57.414 37.500 0.00 0.00 0.00 2.83
1832 1845 3.875727 CCGAACTATCTCACGAGGTTCTA 59.124 47.826 10.78 0.00 35.53 2.10
1838 1851 2.014857 TGGACCGAACTATCTCACGAG 58.985 52.381 0.00 0.00 0.00 4.18
1871 1884 2.353803 GGTCCTGTCAATGCTCTAACGT 60.354 50.000 0.00 0.00 0.00 3.99
1886 1899 0.108138 CGCACTAGGGAAAGGTCCTG 60.108 60.000 0.00 0.00 44.28 3.86
1903 1916 3.839432 CCTTCCCGGTCCTCTCGC 61.839 72.222 0.00 0.00 0.00 5.03
2001 2014 3.466836 TGGGGTGGGCTTACTACTTATT 58.533 45.455 0.00 0.00 0.00 1.40
2042 2055 1.480683 CGGGAGGCTATAGGGAAGTCA 60.481 57.143 1.04 0.00 0.00 3.41
2053 2066 1.113517 GGCTGTGATACGGGAGGCTA 61.114 60.000 0.00 0.00 0.00 3.93
2061 2074 1.269166 GTTGTCTCGGCTGTGATACG 58.731 55.000 0.00 0.00 0.00 3.06
2096 2109 1.289380 GTCGCTCCATCCCCGTATC 59.711 63.158 0.00 0.00 0.00 2.24
2142 2155 0.038892 TTTAAACGGCTCGTCTCGCT 60.039 50.000 0.69 0.00 39.99 4.93
2277 2290 8.633075 TTTTCATCAAAGAGTTGAACAATGAC 57.367 30.769 0.00 0.00 46.66 3.06
2362 2378 1.205460 GGGGACACCAAAGGCCTCTA 61.205 60.000 5.23 0.00 39.85 2.43
2381 2397 2.276740 GGGGCCCTCAATGACCAG 59.723 66.667 24.38 0.00 0.00 4.00
2397 2413 8.247562 CGATGAATTTAGTAGATCCTTCTAGGG 58.752 40.741 0.00 0.00 35.12 3.53
2402 2418 8.973378 CAACTCGATGAATTTAGTAGATCCTTC 58.027 37.037 0.00 0.00 0.00 3.46
2440 2456 2.675348 CCGTTAATAACCGGCCGTTTTA 59.325 45.455 26.12 20.46 37.43 1.52
2448 2464 4.637091 ACAAGGAATTCCGTTAATAACCGG 59.363 41.667 18.82 0.00 45.55 5.28
2473 2489 3.314541 ACGAGTATTTCACGGAAAGCT 57.685 42.857 0.00 5.89 34.92 3.74
2517 2533 4.117685 GTCAGTACGGGTTTAGCTTATGG 58.882 47.826 0.00 0.00 0.00 2.74
2645 2661 1.909700 TTTGGGAGTTCAGCATGTCC 58.090 50.000 0.00 0.00 37.40 4.02
2702 2718 5.144832 TCTATTTACTGGTCGATCCCATCA 58.855 41.667 0.00 0.00 33.00 3.07
2795 2811 7.507616 GTGCCATAGGAAGGATAGCTATACTAT 59.492 40.741 19.11 10.59 44.62 2.12
2839 2855 8.852135 TGAAAAAGTAATTATGTTTCGGAACCT 58.148 29.630 3.60 0.00 34.80 3.50


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

AutoCloner maintained by Alex Coulton.