Multiple sequence alignment - TraesCS1D01G435000

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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 TraesCS1D01G435000 chr1D 100.000 2798 0 0 1 2798 483901011 483903808 0.000000e+00 5168.0
1 TraesCS1D01G435000 chr1D 85.630 675 74 15 1175 1845 483895754 483896409 0.000000e+00 688.0
2 TraesCS1D01G435000 chr1D 80.419 955 130 32 868 1796 483865008 483865931 0.000000e+00 675.0
3 TraesCS1D01G435000 chr1D 82.238 822 106 22 985 1796 483680698 483681489 0.000000e+00 673.0
4 TraesCS1D01G435000 chr1B 88.661 1905 128 42 370 2230 673892608 673894468 0.000000e+00 2241.0
5 TraesCS1D01G435000 chr1B 88.022 1845 120 54 370 2191 673925355 673927121 0.000000e+00 2089.0
6 TraesCS1D01G435000 chr1B 88.204 941 101 5 989 1927 673889253 673890185 0.000000e+00 1114.0
7 TraesCS1D01G435000 chr1B 90.872 734 60 6 3 733 673917306 673918035 0.000000e+00 977.0
8 TraesCS1D01G435000 chr1B 89.605 760 75 4 1304 2061 673915099 673915856 0.000000e+00 963.0
9 TraesCS1D01G435000 chr1B 81.829 831 102 29 985 1796 673855505 673856305 0.000000e+00 652.0
10 TraesCS1D01G435000 chr1B 84.647 241 19 9 2234 2460 673894552 673894788 1.010000e-54 224.0
11 TraesCS1D01G435000 chr1B 78.947 380 32 25 2450 2798 673894823 673895185 6.070000e-52 215.0
12 TraesCS1D01G435000 chr1B 91.971 137 5 4 1925 2061 673890301 673890431 1.320000e-43 187.0
13 TraesCS1D01G435000 chr1B 76.699 309 51 19 2258 2550 673890870 673891173 4.830000e-33 152.0
14 TraesCS1D01G435000 chr1B 93.443 61 3 1 2151 2210 673915922 673915982 3.840000e-14 89.8
15 TraesCS1D01G435000 chr1A 90.654 1391 93 20 821 2191 580925256 580926629 0.000000e+00 1814.0
16 TraesCS1D01G435000 chr1A 91.222 581 45 6 178 755 580924679 580925256 0.000000e+00 785.0
17 TraesCS1D01G435000 chr1A 85.932 590 73 9 1175 1761 580893649 580894231 3.060000e-174 621.0
18 TraesCS1D01G435000 chr7B 88.163 245 14 3 2151 2381 232753001 232753244 7.630000e-71 278.0
19 TraesCS1D01G435000 chr7A 88.163 245 14 3 2151 2381 87022234 87021991 7.630000e-71 278.0
20 TraesCS1D01G435000 chr2B 88.163 245 14 3 2151 2381 793125865 793126108 7.630000e-71 278.0
21 TraesCS1D01G435000 chr6B 88.115 244 14 3 2152 2381 690993042 690992800 2.750000e-70 276.0
22 TraesCS1D01G435000 chr6B 92.941 170 10 2 2151 2319 282851444 282851612 2.150000e-61 246.0
23 TraesCS1D01G435000 chr5A 86.531 245 18 3 2151 2381 641110435 641110678 3.580000e-64 255.0
24 TraesCS1D01G435000 chr5B 85.207 169 11 2 2226 2381 710172598 710172431 8.020000e-36 161.0


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 TraesCS1D01G435000 chr1D 483901011 483903808 2797 False 5168.000000 5168 100.000000 1 2798 1 chr1D.!!$F4 2797
1 TraesCS1D01G435000 chr1D 483895754 483896409 655 False 688.000000 688 85.630000 1175 1845 1 chr1D.!!$F3 670
2 TraesCS1D01G435000 chr1D 483865008 483865931 923 False 675.000000 675 80.419000 868 1796 1 chr1D.!!$F2 928
3 TraesCS1D01G435000 chr1D 483680698 483681489 791 False 673.000000 673 82.238000 985 1796 1 chr1D.!!$F1 811
4 TraesCS1D01G435000 chr1B 673925355 673927121 1766 False 2089.000000 2089 88.022000 370 2191 1 chr1B.!!$F2 1821
5 TraesCS1D01G435000 chr1B 673889253 673895185 5932 False 688.833333 2241 84.854833 370 2798 6 chr1B.!!$F3 2428
6 TraesCS1D01G435000 chr1B 673915099 673918035 2936 False 676.600000 977 91.306667 3 2210 3 chr1B.!!$F4 2207
7 TraesCS1D01G435000 chr1B 673855505 673856305 800 False 652.000000 652 81.829000 985 1796 1 chr1B.!!$F1 811
8 TraesCS1D01G435000 chr1A 580924679 580926629 1950 False 1299.500000 1814 90.938000 178 2191 2 chr1A.!!$F2 2013
9 TraesCS1D01G435000 chr1A 580893649 580894231 582 False 621.000000 621 85.932000 1175 1761 1 chr1A.!!$F1 586

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
23 24 0.107263 TCGGGCAGCATCAAAGCATA 60.107 50.0 0.0 0.0 36.85 3.14 F
72 73 0.108662 GCTTTGGAAGGCCCGAAATG 60.109 55.0 0.0 0.0 37.85 2.32 F
73 74 0.108662 CTTTGGAAGGCCCGAAATGC 60.109 55.0 0.0 0.0 37.85 3.56 F
78 79 0.109132 GAAGGCCCGAAATGCTTGTG 60.109 55.0 0.0 0.0 0.00 3.33 F
481 3473 0.313672 GCTTTTCAACGTGGGCATGA 59.686 50.0 0.0 0.0 0.00 3.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1096 4111 1.140052 TGTGGCTTCTTCTTGGTTCGA 59.860 47.619 0.00 0.0 0.00 3.71 R
1098 4113 1.268079 GCTGTGGCTTCTTCTTGGTTC 59.732 52.381 0.00 0.0 35.22 3.62 R
1143 4161 2.110006 GGAAGAGATGGCGAGCCC 59.890 66.667 12.05 0.0 34.56 5.19 R
1173 4191 2.142761 CATGCCGGGGATCTGAGGA 61.143 63.158 2.18 0.0 0.00 3.71 R
2415 5617 0.622665 CCCCATGCTGAGAGGACTTT 59.377 55.000 0.00 0.0 0.00 2.66 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
17 18 3.908189 CATGTCGGGCAGCATCAA 58.092 55.556 0.00 0.00 0.00 2.57
18 19 2.182496 CATGTCGGGCAGCATCAAA 58.818 52.632 0.00 0.00 0.00 2.69
20 21 1.660560 ATGTCGGGCAGCATCAAAGC 61.661 55.000 0.00 0.00 0.00 3.51
21 22 2.033911 TCGGGCAGCATCAAAGCA 59.966 55.556 0.00 0.00 36.85 3.91
22 23 1.378911 TCGGGCAGCATCAAAGCAT 60.379 52.632 0.00 0.00 36.85 3.79
23 24 0.107263 TCGGGCAGCATCAAAGCATA 60.107 50.000 0.00 0.00 36.85 3.14
25 26 1.534595 CGGGCAGCATCAAAGCATAAC 60.535 52.381 0.00 0.00 36.85 1.89
26 27 1.202452 GGGCAGCATCAAAGCATAACC 60.202 52.381 0.00 0.00 36.85 2.85
28 29 2.223665 GGCAGCATCAAAGCATAACCTC 60.224 50.000 0.00 0.00 36.85 3.85
31 32 3.635373 CAGCATCAAAGCATAACCTCCAT 59.365 43.478 0.00 0.00 36.85 3.41
32 33 3.635373 AGCATCAAAGCATAACCTCCATG 59.365 43.478 0.00 0.00 36.85 3.66
33 34 3.633525 GCATCAAAGCATAACCTCCATGA 59.366 43.478 0.00 0.00 0.00 3.07
35 36 5.769367 CATCAAAGCATAACCTCCATGATG 58.231 41.667 0.00 0.00 37.61 3.07
37 38 3.956199 CAAAGCATAACCTCCATGATGGT 59.044 43.478 11.87 0.00 39.03 3.55
38 39 3.498774 AGCATAACCTCCATGATGGTC 57.501 47.619 11.87 0.00 39.03 4.02
39 40 2.107204 AGCATAACCTCCATGATGGTCC 59.893 50.000 11.87 0.00 39.03 4.46
40 41 2.107204 GCATAACCTCCATGATGGTCCT 59.893 50.000 11.87 0.00 39.03 3.85
41 42 3.808618 GCATAACCTCCATGATGGTCCTC 60.809 52.174 11.87 0.00 39.03 3.71
42 43 1.971149 AACCTCCATGATGGTCCTCA 58.029 50.000 11.87 0.00 39.03 3.86
51 52 1.848388 TGATGGTCCTCATGGAATGCT 59.152 47.619 0.00 0.00 46.21 3.79
52 53 2.228059 GATGGTCCTCATGGAATGCTG 58.772 52.381 0.00 0.00 46.21 4.41
53 54 0.256752 TGGTCCTCATGGAATGCTGG 59.743 55.000 0.00 0.00 46.21 4.85
56 57 0.627451 TCCTCATGGAATGCTGGCTT 59.373 50.000 0.00 0.00 46.21 4.35
58 59 1.136305 CCTCATGGAATGCTGGCTTTG 59.864 52.381 0.00 0.00 46.21 2.77
59 60 1.136305 CTCATGGAATGCTGGCTTTGG 59.864 52.381 0.00 0.00 46.21 3.28
61 62 1.551430 CATGGAATGCTGGCTTTGGAA 59.449 47.619 0.00 0.00 37.62 3.53
62 63 1.259609 TGGAATGCTGGCTTTGGAAG 58.740 50.000 0.00 0.00 0.00 3.46
70 71 3.771978 GCTTTGGAAGGCCCGAAA 58.228 55.556 0.00 0.00 37.85 3.46
71 72 2.276869 GCTTTGGAAGGCCCGAAAT 58.723 52.632 0.00 0.00 37.85 2.17
72 73 0.108662 GCTTTGGAAGGCCCGAAATG 60.109 55.000 0.00 0.00 37.85 2.32
73 74 0.108662 CTTTGGAAGGCCCGAAATGC 60.109 55.000 0.00 0.00 37.85 3.56
74 75 0.541764 TTTGGAAGGCCCGAAATGCT 60.542 50.000 0.00 0.00 35.36 3.79
75 76 0.541764 TTGGAAGGCCCGAAATGCTT 60.542 50.000 0.00 0.00 37.93 3.91
76 77 1.250154 TGGAAGGCCCGAAATGCTTG 61.250 55.000 0.00 0.00 37.93 4.01
77 78 1.250840 GGAAGGCCCGAAATGCTTGT 61.251 55.000 0.00 0.00 0.00 3.16
78 79 0.109132 GAAGGCCCGAAATGCTTGTG 60.109 55.000 0.00 0.00 0.00 3.33
79 80 0.827507 AAGGCCCGAAATGCTTGTGT 60.828 50.000 0.00 0.00 0.00 3.72
80 81 1.212751 GGCCCGAAATGCTTGTGTC 59.787 57.895 0.00 0.00 0.00 3.67
82 83 0.598065 GCCCGAAATGCTTGTGTCTT 59.402 50.000 0.00 0.00 0.00 3.01
89 90 1.251251 ATGCTTGTGTCTTTGAGGCC 58.749 50.000 0.00 0.00 0.00 5.19
90 91 1.165907 TGCTTGTGTCTTTGAGGCCG 61.166 55.000 0.00 0.00 0.00 6.13
91 92 0.884704 GCTTGTGTCTTTGAGGCCGA 60.885 55.000 0.00 0.00 0.00 5.54
92 93 1.813513 CTTGTGTCTTTGAGGCCGAT 58.186 50.000 0.00 0.00 0.00 4.18
93 94 1.734465 CTTGTGTCTTTGAGGCCGATC 59.266 52.381 0.00 0.00 0.00 3.69
94 95 0.684535 TGTGTCTTTGAGGCCGATCA 59.315 50.000 0.00 0.00 0.00 2.92
95 96 1.071542 TGTGTCTTTGAGGCCGATCAA 59.928 47.619 3.37 3.37 37.41 2.57
96 97 2.290260 TGTGTCTTTGAGGCCGATCAAT 60.290 45.455 8.15 0.00 38.90 2.57
97 98 2.352960 GTGTCTTTGAGGCCGATCAATC 59.647 50.000 8.15 3.99 38.90 2.67
98 99 2.027285 TGTCTTTGAGGCCGATCAATCA 60.027 45.455 8.15 6.12 38.90 2.57
99 100 3.209410 GTCTTTGAGGCCGATCAATCAT 58.791 45.455 8.15 0.00 38.90 2.45
111 112 2.713895 TCAATCATCGATCTCTCGGC 57.286 50.000 0.00 0.00 45.10 5.54
112 113 2.234143 TCAATCATCGATCTCTCGGCT 58.766 47.619 0.00 0.00 45.10 5.52
113 114 2.625314 TCAATCATCGATCTCTCGGCTT 59.375 45.455 0.00 0.00 45.10 4.35
114 115 3.821033 TCAATCATCGATCTCTCGGCTTA 59.179 43.478 0.00 0.00 45.10 3.09
115 116 3.840890 ATCATCGATCTCTCGGCTTAC 57.159 47.619 0.00 0.00 45.10 2.34
116 117 1.880675 TCATCGATCTCTCGGCTTACC 59.119 52.381 0.00 0.00 45.10 2.85
117 118 1.609072 CATCGATCTCTCGGCTTACCA 59.391 52.381 0.00 0.00 45.10 3.25
118 119 1.982660 TCGATCTCTCGGCTTACCAT 58.017 50.000 0.00 0.00 45.10 3.55
119 120 1.609072 TCGATCTCTCGGCTTACCATG 59.391 52.381 0.00 0.00 45.10 3.66
120 121 1.609072 CGATCTCTCGGCTTACCATGA 59.391 52.381 0.00 0.00 41.27 3.07
121 122 2.605823 CGATCTCTCGGCTTACCATGAC 60.606 54.545 0.00 0.00 41.27 3.06
122 123 1.112113 TCTCTCGGCTTACCATGACC 58.888 55.000 0.00 0.00 34.57 4.02
123 124 0.824109 CTCTCGGCTTACCATGACCA 59.176 55.000 0.00 0.00 34.57 4.02
124 125 1.414181 CTCTCGGCTTACCATGACCAT 59.586 52.381 0.00 0.00 34.57 3.55
125 126 1.837439 TCTCGGCTTACCATGACCATT 59.163 47.619 0.00 0.00 34.57 3.16
126 127 1.942657 CTCGGCTTACCATGACCATTG 59.057 52.381 0.00 0.00 34.57 2.82
127 128 1.024271 CGGCTTACCATGACCATTGG 58.976 55.000 0.00 0.00 34.57 3.16
130 131 2.092429 GGCTTACCATGACCATTGGAGA 60.092 50.000 10.37 0.00 35.26 3.71
131 132 3.435601 GGCTTACCATGACCATTGGAGAT 60.436 47.826 10.37 0.00 35.26 2.75
132 133 3.567164 GCTTACCATGACCATTGGAGATG 59.433 47.826 10.37 10.23 0.00 2.90
133 134 4.686944 GCTTACCATGACCATTGGAGATGA 60.687 45.833 10.37 0.00 0.00 2.92
134 135 5.439721 CTTACCATGACCATTGGAGATGAA 58.560 41.667 10.37 2.14 0.00 2.57
135 136 3.894759 ACCATGACCATTGGAGATGAAG 58.105 45.455 10.37 2.38 0.00 3.02
137 138 3.284617 CATGACCATTGGAGATGAAGCA 58.715 45.455 10.37 0.00 0.00 3.91
139 140 3.765381 TGACCATTGGAGATGAAGCAAA 58.235 40.909 10.37 0.00 0.00 3.68
141 142 3.760684 GACCATTGGAGATGAAGCAAAGT 59.239 43.478 10.37 0.00 0.00 2.66
144 145 3.795688 TTGGAGATGAAGCAAAGTCCT 57.204 42.857 0.00 0.00 0.00 3.85
145 146 3.063510 TGGAGATGAAGCAAAGTCCTG 57.936 47.619 0.00 0.00 0.00 3.86
146 147 2.290514 TGGAGATGAAGCAAAGTCCTGG 60.291 50.000 0.00 0.00 0.00 4.45
147 148 1.742268 GAGATGAAGCAAAGTCCTGGC 59.258 52.381 0.00 0.00 0.00 4.85
148 149 0.813821 GATGAAGCAAAGTCCTGGCC 59.186 55.000 0.00 0.00 0.00 5.36
149 150 0.962356 ATGAAGCAAAGTCCTGGCCG 60.962 55.000 0.00 0.00 0.00 6.13
171 172 3.230245 CCGGAGCTCCTGGGCTAG 61.230 72.222 29.73 12.56 43.20 3.42
172 173 2.123683 CGGAGCTCCTGGGCTAGA 60.124 66.667 29.73 0.00 43.20 2.43
173 174 1.532794 CGGAGCTCCTGGGCTAGAT 60.533 63.158 29.73 0.00 43.20 1.98
174 175 1.814772 CGGAGCTCCTGGGCTAGATG 61.815 65.000 29.73 6.88 43.20 2.90
176 177 1.383664 AGCTCCTGGGCTAGATGCA 60.384 57.895 14.70 0.00 45.15 3.96
230 231 4.607024 CCGTGTTGGTCGCTTTTG 57.393 55.556 0.00 0.00 0.00 2.44
233 234 1.299850 GTGTTGGTCGCTTTTGGGC 60.300 57.895 0.00 0.00 0.00 5.36
292 293 2.677337 TGCGCGAGATCAATGAAATGAA 59.323 40.909 12.10 0.00 32.06 2.57
297 298 6.237648 GCGCGAGATCAATGAAATGAATTTTT 60.238 34.615 12.10 0.00 32.06 1.94
376 3363 8.691661 ATACATTATCAGCCGAAAAATAACCT 57.308 30.769 0.00 0.00 0.00 3.50
481 3473 0.313672 GCTTTTCAACGTGGGCATGA 59.686 50.000 0.00 0.00 0.00 3.07
484 3476 3.366883 GCTTTTCAACGTGGGCATGAATA 60.367 43.478 0.00 0.00 33.45 1.75
526 3518 1.003545 GATCCATGTCGTGCGATTTGG 60.004 52.381 15.16 15.16 33.23 3.28
541 3533 4.260172 GCGATTTGGGTTGTCTTTGTTTTG 60.260 41.667 0.00 0.00 0.00 2.44
572 3565 9.442047 GAAGTATTATATCCCATGAGTTCCAAG 57.558 37.037 0.00 0.00 0.00 3.61
690 3685 4.120589 GGAATCTTATCCACCTCAACGTC 58.879 47.826 0.00 0.00 39.42 4.34
751 3746 1.402259 CTGCATAGAGAGGACGTCGTT 59.598 52.381 12.67 1.06 0.00 3.85
775 3770 2.421952 GGGACTCTGCTTAATCCATGCA 60.422 50.000 0.00 0.00 36.05 3.96
781 3776 2.821969 CTGCTTAATCCATGCATACCCC 59.178 50.000 0.00 0.00 36.77 4.95
785 3780 0.557238 AATCCATGCATACCCCAGCA 59.443 50.000 0.00 0.00 45.92 4.41
788 3783 1.152819 CATGCATACCCCAGCAGCT 60.153 57.895 0.00 0.00 44.94 4.24
798 3793 1.966354 CCCCAGCAGCTTCTTTCTTTT 59.034 47.619 0.00 0.00 0.00 2.27
799 3794 2.366590 CCCCAGCAGCTTCTTTCTTTTT 59.633 45.455 0.00 0.00 0.00 1.94
889 3889 7.814264 TTTTCAAATGGGTATGCAAATGTTT 57.186 28.000 0.00 0.00 0.00 2.83
1098 4113 4.436998 GTCCAGCCCACCGTCTCG 62.437 72.222 0.00 0.00 0.00 4.04
1129 4147 4.202574 CCACAGCCACCACCACCA 62.203 66.667 0.00 0.00 0.00 4.17
1130 4148 2.906897 CACAGCCACCACCACCAC 60.907 66.667 0.00 0.00 0.00 4.16
1131 4149 4.204028 ACAGCCACCACCACCACC 62.204 66.667 0.00 0.00 0.00 4.61
1132 4150 4.202574 CAGCCACCACCACCACCA 62.203 66.667 0.00 0.00 0.00 4.17
1133 4151 4.204028 AGCCACCACCACCACCAC 62.204 66.667 0.00 0.00 0.00 4.16
1469 4487 2.357517 CTGCGACGGCCTCAAGTT 60.358 61.111 0.00 0.00 38.85 2.66
1491 4509 1.803922 CGTCAACACTGCGCCGATA 60.804 57.895 4.18 0.00 0.00 2.92
1654 4688 3.708563 TGCTAACCTTGTTCTTTGTGC 57.291 42.857 0.00 0.00 0.00 4.57
1658 4692 4.740205 GCTAACCTTGTTCTTTGTGCTTTC 59.260 41.667 0.00 0.00 0.00 2.62
1881 4930 7.266400 GTTTCGTTTAGGTAGGATCAGAGAAT 58.734 38.462 0.00 0.00 0.00 2.40
1919 4987 1.358445 AGGGGTTTAGGACGTCTCTCT 59.642 52.381 16.46 6.78 0.00 3.10
2054 5128 5.877564 TGCTTGGTGATTCATGTCGTTATTA 59.122 36.000 0.00 0.00 0.00 0.98
2091 5165 2.643551 AGTGATGGCCCAGAATTAACG 58.356 47.619 0.00 0.00 0.00 3.18
2118 5192 4.202101 GGTCGATCTGATCTATATGCCTGG 60.202 50.000 15.16 0.00 0.00 4.45
2119 5193 3.956848 TCGATCTGATCTATATGCCTGGG 59.043 47.826 15.16 0.00 0.00 4.45
2120 5194 3.703556 CGATCTGATCTATATGCCTGGGT 59.296 47.826 15.16 0.00 0.00 4.51
2121 5195 4.441217 CGATCTGATCTATATGCCTGGGTG 60.441 50.000 15.16 0.00 0.00 4.61
2122 5196 2.568956 TCTGATCTATATGCCTGGGTGC 59.431 50.000 0.00 0.00 0.00 5.01
2123 5197 2.570752 CTGATCTATATGCCTGGGTGCT 59.429 50.000 0.00 0.00 0.00 4.40
2124 5198 2.981784 TGATCTATATGCCTGGGTGCTT 59.018 45.455 0.00 0.00 0.00 3.91
2125 5199 2.936919 TCTATATGCCTGGGTGCTTG 57.063 50.000 0.00 0.00 0.00 4.01
2126 5200 1.421268 TCTATATGCCTGGGTGCTTGG 59.579 52.381 0.00 0.00 0.00 3.61
2212 5304 2.532973 CGCAGCTCGTTTAAATCTGTCG 60.533 50.000 0.00 2.82 0.00 4.35
2215 5307 1.730064 GCTCGTTTAAATCTGTCGCCA 59.270 47.619 0.00 0.00 0.00 5.69
2264 5436 1.372087 GCATGCCACCAGCTAGACAC 61.372 60.000 6.36 0.00 44.23 3.67
2266 5438 0.692476 ATGCCACCAGCTAGACACAA 59.308 50.000 0.00 0.00 44.23 3.33
2271 5443 2.948979 CCACCAGCTAGACACAAAACAA 59.051 45.455 0.00 0.00 0.00 2.83
2273 5445 3.876914 CACCAGCTAGACACAAAACAAGA 59.123 43.478 0.00 0.00 0.00 3.02
2307 5479 2.537792 TTCGGAGATCGGACGCACAC 62.538 60.000 2.52 0.00 39.77 3.82
2312 5484 0.532573 AGATCGGACGCACACATTCT 59.467 50.000 0.00 0.00 0.00 2.40
2350 5552 4.599241 CCCTATACCCCAGAATTGATCAGT 59.401 45.833 0.00 0.00 0.00 3.41
2385 5587 8.347771 CAAGAATTGCTGCACAACATATATAGT 58.652 33.333 0.00 0.00 42.27 2.12
2429 5631 0.250467 GGCACAAAGTCCTCTCAGCA 60.250 55.000 0.00 0.00 0.00 4.41
2467 5714 1.669999 GCACCAATGGCTCATCCCAC 61.670 60.000 0.00 0.00 37.79 4.61
2471 5718 0.734889 CAATGGCTCATCCCACGAAC 59.265 55.000 0.00 0.00 37.79 3.95
2515 5768 2.817258 TCGTGATGTGGGAAATTTGGAC 59.183 45.455 0.00 0.00 0.00 4.02
2528 6156 0.316841 TTTGGACGCAAAGGAATGCC 59.683 50.000 0.00 0.00 43.47 4.40
2552 6180 3.991121 TCGTATTTGACAATGCGTCTTCA 59.009 39.130 5.53 0.00 45.64 3.02
2555 6183 5.220472 CGTATTTGACAATGCGTCTTCATCT 60.220 40.000 0.00 0.00 45.60 2.90
2556 6184 4.408993 TTTGACAATGCGTCTTCATCTG 57.591 40.909 0.00 0.00 45.60 2.90
2619 6977 1.740025 GCAGATGGCTAAGCTTTTCGT 59.260 47.619 3.20 0.00 40.25 3.85
2621 6979 2.744202 CAGATGGCTAAGCTTTTCGTGT 59.256 45.455 3.20 0.00 0.00 4.49
2622 6980 2.744202 AGATGGCTAAGCTTTTCGTGTG 59.256 45.455 3.20 0.00 0.00 3.82
2623 6981 1.234821 TGGCTAAGCTTTTCGTGTGG 58.765 50.000 3.20 0.00 0.00 4.17
2624 6982 1.235724 GGCTAAGCTTTTCGTGTGGT 58.764 50.000 3.20 0.00 0.00 4.16
2625 6983 1.607148 GGCTAAGCTTTTCGTGTGGTT 59.393 47.619 3.20 0.00 0.00 3.67
2627 6985 3.251487 GGCTAAGCTTTTCGTGTGGTTTA 59.749 43.478 3.20 0.00 0.00 2.01
2628 6986 4.464112 GCTAAGCTTTTCGTGTGGTTTAG 58.536 43.478 3.20 0.00 0.00 1.85
2641 7026 1.449778 GTTTAGGCGGGTCTCTGGC 60.450 63.158 0.00 0.00 44.31 4.85
2673 7058 2.214376 TTTGTATCTTGGGTGGCTGG 57.786 50.000 0.00 0.00 0.00 4.85
2675 7060 0.327924 TGTATCTTGGGTGGCTGGTG 59.672 55.000 0.00 0.00 0.00 4.17
2676 7061 0.618458 GTATCTTGGGTGGCTGGTGA 59.382 55.000 0.00 0.00 0.00 4.02
2677 7062 1.212935 GTATCTTGGGTGGCTGGTGAT 59.787 52.381 0.00 0.00 0.00 3.06
2678 7063 0.706433 ATCTTGGGTGGCTGGTGATT 59.294 50.000 0.00 0.00 0.00 2.57
2679 7064 0.038166 TCTTGGGTGGCTGGTGATTC 59.962 55.000 0.00 0.00 0.00 2.52
2686 7071 2.187073 GGCTGGTGATTCTGCCAAG 58.813 57.895 7.68 0.32 46.69 3.61
2687 7072 0.610232 GGCTGGTGATTCTGCCAAGT 60.610 55.000 7.68 0.00 46.69 3.16
2688 7073 1.251251 GCTGGTGATTCTGCCAAGTT 58.749 50.000 3.00 0.00 33.93 2.66
2691 7076 3.411446 CTGGTGATTCTGCCAAGTTGTA 58.589 45.455 1.45 0.00 33.93 2.41
2726 7111 3.562557 GGATAGACGTCTCACCTCTTCTC 59.437 52.174 23.89 6.01 0.00 2.87
2731 7116 4.409574 AGACGTCTCACCTCTTCTCCTATA 59.590 45.833 13.58 0.00 0.00 1.31
2794 7187 3.997021 AGCTGAACTCAAATGGTTCTACG 59.003 43.478 12.67 0.00 42.27 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 0.107263 TATGCTTTGATGCTGCCCGA 60.107 50.000 0.00 0.00 0.00 5.14
5 6 0.740149 TTATGCTTTGATGCTGCCCG 59.260 50.000 0.00 0.00 0.00 6.13
6 7 1.202452 GGTTATGCTTTGATGCTGCCC 60.202 52.381 0.00 0.00 0.00 5.36
7 8 1.753073 AGGTTATGCTTTGATGCTGCC 59.247 47.619 0.00 0.00 0.00 4.85
8 9 2.223665 GGAGGTTATGCTTTGATGCTGC 60.224 50.000 0.00 0.00 0.00 5.25
9 10 3.018856 TGGAGGTTATGCTTTGATGCTG 58.981 45.455 0.00 0.00 0.00 4.41
10 11 3.370840 TGGAGGTTATGCTTTGATGCT 57.629 42.857 0.00 0.00 0.00 3.79
12 13 5.278808 CCATCATGGAGGTTATGCTTTGATG 60.279 44.000 0.00 0.00 40.96 3.07
13 14 4.831155 CCATCATGGAGGTTATGCTTTGAT 59.169 41.667 0.00 0.00 40.96 2.57
14 15 4.209538 CCATCATGGAGGTTATGCTTTGA 58.790 43.478 0.00 0.00 40.96 2.69
15 16 3.956199 ACCATCATGGAGGTTATGCTTTG 59.044 43.478 11.90 0.00 40.96 2.77
16 17 4.210331 GACCATCATGGAGGTTATGCTTT 58.790 43.478 11.90 0.00 40.96 3.51
17 18 3.435601 GGACCATCATGGAGGTTATGCTT 60.436 47.826 11.90 0.00 40.96 3.91
18 19 2.107204 GGACCATCATGGAGGTTATGCT 59.893 50.000 11.90 0.00 40.96 3.79
20 21 3.392285 TGAGGACCATCATGGAGGTTATG 59.608 47.826 11.90 0.00 40.96 1.90
21 22 3.668821 TGAGGACCATCATGGAGGTTAT 58.331 45.455 11.90 3.98 40.96 1.89
22 23 3.129262 TGAGGACCATCATGGAGGTTA 57.871 47.619 11.90 0.00 40.96 2.85
23 24 1.971149 TGAGGACCATCATGGAGGTT 58.029 50.000 11.90 0.00 40.96 3.50
31 32 1.848388 AGCATTCCATGAGGACCATCA 59.152 47.619 0.00 0.00 45.73 3.07
32 33 2.228059 CAGCATTCCATGAGGACCATC 58.772 52.381 0.00 0.00 45.73 3.51
33 34 1.133575 CCAGCATTCCATGAGGACCAT 60.134 52.381 0.00 0.00 45.73 3.55
35 36 1.105759 GCCAGCATTCCATGAGGACC 61.106 60.000 0.00 0.00 45.73 4.46
37 38 0.627451 AAGCCAGCATTCCATGAGGA 59.373 50.000 0.00 0.00 43.93 3.71
38 39 1.136305 CAAAGCCAGCATTCCATGAGG 59.864 52.381 0.00 0.00 0.00 3.86
39 40 1.136305 CCAAAGCCAGCATTCCATGAG 59.864 52.381 0.00 0.00 0.00 2.90
40 41 1.187974 CCAAAGCCAGCATTCCATGA 58.812 50.000 0.00 0.00 0.00 3.07
41 42 1.187974 TCCAAAGCCAGCATTCCATG 58.812 50.000 0.00 0.00 0.00 3.66
42 43 1.829222 CTTCCAAAGCCAGCATTCCAT 59.171 47.619 0.00 0.00 0.00 3.41
44 45 0.533951 CCTTCCAAAGCCAGCATTCC 59.466 55.000 0.00 0.00 0.00 3.01
45 46 0.108472 GCCTTCCAAAGCCAGCATTC 60.108 55.000 0.00 0.00 0.00 2.67
46 47 1.977685 GCCTTCCAAAGCCAGCATT 59.022 52.632 0.00 0.00 0.00 3.56
47 48 3.704151 GCCTTCCAAAGCCAGCAT 58.296 55.556 0.00 0.00 0.00 3.79
53 54 0.108662 CATTTCGGGCCTTCCAAAGC 60.109 55.000 0.84 0.00 34.36 3.51
56 57 0.541764 AAGCATTTCGGGCCTTCCAA 60.542 50.000 0.84 0.00 34.36 3.53
58 59 1.250840 ACAAGCATTTCGGGCCTTCC 61.251 55.000 0.84 0.00 0.00 3.46
59 60 0.109132 CACAAGCATTTCGGGCCTTC 60.109 55.000 0.84 0.00 0.00 3.46
61 62 1.228552 ACACAAGCATTTCGGGCCT 60.229 52.632 0.84 0.00 0.00 5.19
62 63 1.212751 GACACAAGCATTTCGGGCC 59.787 57.895 0.00 0.00 0.00 5.80
65 66 3.558505 CTCAAAGACACAAGCATTTCGG 58.441 45.455 0.00 0.00 0.00 4.30
66 67 3.558505 CCTCAAAGACACAAGCATTTCG 58.441 45.455 0.00 0.00 0.00 3.46
67 68 3.311966 GCCTCAAAGACACAAGCATTTC 58.688 45.455 0.00 0.00 0.00 2.17
68 69 2.036346 GGCCTCAAAGACACAAGCATTT 59.964 45.455 0.00 0.00 0.00 2.32
70 71 1.251251 GGCCTCAAAGACACAAGCAT 58.749 50.000 0.00 0.00 0.00 3.79
71 72 1.165907 CGGCCTCAAAGACACAAGCA 61.166 55.000 0.00 0.00 0.00 3.91
72 73 0.884704 TCGGCCTCAAAGACACAAGC 60.885 55.000 0.00 0.00 0.00 4.01
73 74 1.734465 GATCGGCCTCAAAGACACAAG 59.266 52.381 0.00 0.00 0.00 3.16
74 75 1.071542 TGATCGGCCTCAAAGACACAA 59.928 47.619 0.00 0.00 0.00 3.33
75 76 0.684535 TGATCGGCCTCAAAGACACA 59.315 50.000 0.00 0.00 0.00 3.72
76 77 1.808411 TTGATCGGCCTCAAAGACAC 58.192 50.000 4.99 0.00 32.35 3.67
77 78 2.027285 TGATTGATCGGCCTCAAAGACA 60.027 45.455 11.13 9.17 38.55 3.41
78 79 2.632377 TGATTGATCGGCCTCAAAGAC 58.368 47.619 11.13 7.09 38.55 3.01
79 80 3.470709 GATGATTGATCGGCCTCAAAGA 58.529 45.455 11.13 2.28 38.55 2.52
80 81 3.892918 GATGATTGATCGGCCTCAAAG 57.107 47.619 11.13 0.00 38.55 2.77
90 91 3.119531 AGCCGAGAGATCGATGATTGATC 60.120 47.826 13.65 13.65 42.04 2.92
91 92 2.824936 AGCCGAGAGATCGATGATTGAT 59.175 45.455 0.54 0.00 34.64 2.57
92 93 2.234143 AGCCGAGAGATCGATGATTGA 58.766 47.619 0.54 0.00 34.64 2.57
93 94 2.721274 AGCCGAGAGATCGATGATTG 57.279 50.000 0.54 0.00 34.64 2.67
94 95 3.057174 GGTAAGCCGAGAGATCGATGATT 60.057 47.826 0.54 0.00 34.64 2.57
95 96 2.490115 GGTAAGCCGAGAGATCGATGAT 59.510 50.000 0.54 0.00 34.64 2.45
96 97 1.880675 GGTAAGCCGAGAGATCGATGA 59.119 52.381 0.54 0.00 34.64 2.92
97 98 1.609072 TGGTAAGCCGAGAGATCGATG 59.391 52.381 0.54 0.00 37.67 3.84
98 99 1.982660 TGGTAAGCCGAGAGATCGAT 58.017 50.000 0.00 0.00 37.67 3.59
99 100 1.609072 CATGGTAAGCCGAGAGATCGA 59.391 52.381 0.00 0.00 37.67 3.59
101 102 2.288518 GGTCATGGTAAGCCGAGAGATC 60.289 54.545 0.00 0.00 37.67 2.75
102 103 1.689273 GGTCATGGTAAGCCGAGAGAT 59.311 52.381 0.00 0.00 37.67 2.75
103 104 1.112113 GGTCATGGTAAGCCGAGAGA 58.888 55.000 0.00 0.00 37.67 3.10
105 106 1.496060 ATGGTCATGGTAAGCCGAGA 58.504 50.000 0.00 0.00 37.67 4.04
106 107 1.942657 CAATGGTCATGGTAAGCCGAG 59.057 52.381 0.00 0.00 37.67 4.63
108 109 1.024271 CCAATGGTCATGGTAAGCCG 58.976 55.000 0.00 0.00 37.67 5.52
109 110 2.092429 TCTCCAATGGTCATGGTAAGCC 60.092 50.000 0.00 0.00 39.09 4.35
110 111 3.281727 TCTCCAATGGTCATGGTAAGC 57.718 47.619 0.00 0.00 39.09 3.09
111 112 5.039920 TCATCTCCAATGGTCATGGTAAG 57.960 43.478 0.00 0.00 39.09 2.34
112 113 5.439721 CTTCATCTCCAATGGTCATGGTAA 58.560 41.667 0.00 0.00 39.09 2.85
113 114 4.686944 GCTTCATCTCCAATGGTCATGGTA 60.687 45.833 0.00 0.00 39.09 3.25
114 115 3.894759 CTTCATCTCCAATGGTCATGGT 58.105 45.455 0.00 0.00 39.09 3.55
115 116 2.621998 GCTTCATCTCCAATGGTCATGG 59.378 50.000 0.00 0.00 39.41 3.66
116 117 3.284617 TGCTTCATCTCCAATGGTCATG 58.715 45.455 0.00 3.10 0.00 3.07
117 118 3.657398 TGCTTCATCTCCAATGGTCAT 57.343 42.857 0.00 0.00 0.00 3.06
118 119 3.438216 TTGCTTCATCTCCAATGGTCA 57.562 42.857 0.00 0.00 0.00 4.02
119 120 3.760684 ACTTTGCTTCATCTCCAATGGTC 59.239 43.478 0.00 0.00 0.00 4.02
120 121 3.760684 GACTTTGCTTCATCTCCAATGGT 59.239 43.478 0.00 0.00 0.00 3.55
121 122 3.129988 GGACTTTGCTTCATCTCCAATGG 59.870 47.826 0.00 0.00 0.00 3.16
122 123 4.015084 AGGACTTTGCTTCATCTCCAATG 58.985 43.478 0.00 0.00 0.00 2.82
123 124 4.015084 CAGGACTTTGCTTCATCTCCAAT 58.985 43.478 0.00 0.00 0.00 3.16
124 125 3.415212 CAGGACTTTGCTTCATCTCCAA 58.585 45.455 0.00 0.00 0.00 3.53
125 126 2.290514 CCAGGACTTTGCTTCATCTCCA 60.291 50.000 0.00 0.00 0.00 3.86
126 127 2.363683 CCAGGACTTTGCTTCATCTCC 58.636 52.381 0.00 0.00 0.00 3.71
127 128 1.742268 GCCAGGACTTTGCTTCATCTC 59.258 52.381 0.00 0.00 0.00 2.75
130 131 0.962356 CGGCCAGGACTTTGCTTCAT 60.962 55.000 2.24 0.00 0.00 2.57
131 132 1.600636 CGGCCAGGACTTTGCTTCA 60.601 57.895 2.24 0.00 0.00 3.02
132 133 2.335712 CCGGCCAGGACTTTGCTTC 61.336 63.158 2.24 0.00 45.00 3.86
133 134 2.282462 CCGGCCAGGACTTTGCTT 60.282 61.111 2.24 0.00 45.00 3.91
156 157 2.056985 CATCTAGCCCAGGAGCTCC 58.943 63.158 26.22 26.22 43.67 4.70
157 158 1.370810 GCATCTAGCCCAGGAGCTC 59.629 63.158 4.71 4.71 43.67 4.09
159 160 0.110104 AATGCATCTAGCCCAGGAGC 59.890 55.000 0.00 0.00 44.83 4.70
163 164 0.952280 CAGCAATGCATCTAGCCCAG 59.048 55.000 8.35 0.00 44.83 4.45
165 166 1.658673 GCAGCAATGCATCTAGCCC 59.341 57.895 8.35 0.00 44.83 5.19
166 167 0.822532 AGGCAGCAATGCATCTAGCC 60.823 55.000 19.06 19.06 44.83 3.93
167 168 0.311165 CAGGCAGCAATGCATCTAGC 59.689 55.000 8.35 5.06 45.96 3.42
168 169 1.874231 CTCAGGCAGCAATGCATCTAG 59.126 52.381 8.35 0.00 36.33 2.43
169 170 1.476291 CCTCAGGCAGCAATGCATCTA 60.476 52.381 8.35 0.00 36.33 1.98
170 171 0.752009 CCTCAGGCAGCAATGCATCT 60.752 55.000 8.35 0.00 36.33 2.90
171 172 1.734137 CCTCAGGCAGCAATGCATC 59.266 57.895 8.35 0.00 36.33 3.91
172 173 3.935024 CCTCAGGCAGCAATGCAT 58.065 55.556 8.35 0.00 36.33 3.96
189 190 0.384669 ACGGTGAATCTAGGCTACGC 59.615 55.000 0.00 0.00 0.00 4.42
230 231 1.741327 AATGGCTTGATCATGCGCCC 61.741 55.000 22.90 12.65 41.80 6.13
233 234 0.101579 TGCAATGGCTTGATCATGCG 59.898 50.000 22.90 12.82 41.91 4.73
376 3363 7.949690 AGGGCATACGTACATATACTATTCA 57.050 36.000 0.00 0.00 0.00 2.57
420 3407 6.442541 TCTTGGGAAAGTACAAGGACATAA 57.557 37.500 0.00 0.00 43.20 1.90
463 3455 2.791383 TTCATGCCCACGTTGAAAAG 57.209 45.000 0.00 0.00 0.00 2.27
502 3494 1.300156 CGCACGACATGGATCGGAT 60.300 57.895 10.11 0.00 46.56 4.18
526 3518 6.156519 ACTTCTTGTCAAAACAAAGACAACC 58.843 36.000 4.07 0.00 46.46 3.77
546 3539 9.442047 CTTGGAACTCATGGGATATAATACTTC 57.558 37.037 0.00 0.00 0.00 3.01
547 3540 8.949421 ACTTGGAACTCATGGGATATAATACTT 58.051 33.333 0.00 0.00 0.00 2.24
549 3542 9.574516 AAACTTGGAACTCATGGGATATAATAC 57.425 33.333 0.00 0.00 0.00 1.89
658 3652 5.958380 GGTGGATAAGATTCCCTTTTTCCTT 59.042 40.000 0.00 0.00 37.10 3.36
659 3653 5.256389 AGGTGGATAAGATTCCCTTTTTCCT 59.744 40.000 0.00 0.00 37.10 3.36
668 3663 4.120589 GACGTTGAGGTGGATAAGATTCC 58.879 47.826 0.00 0.00 36.24 3.01
690 3685 3.935203 ACGAGACCATTTGCATTCTACAG 59.065 43.478 0.00 0.00 0.00 2.74
751 3746 2.832838 TGGATTAAGCAGAGTCCCTGA 58.167 47.619 0.00 0.00 45.78 3.86
775 3770 1.918957 AGAAAGAAGCTGCTGGGGTAT 59.081 47.619 1.35 0.00 0.00 2.73
798 3793 6.032956 TCAATTTCCTGCTACGTCTAGAAA 57.967 37.500 0.00 0.00 0.00 2.52
799 3794 5.654603 TCAATTTCCTGCTACGTCTAGAA 57.345 39.130 0.00 0.00 0.00 2.10
802 3797 4.464951 TCCTTCAATTTCCTGCTACGTCTA 59.535 41.667 0.00 0.00 0.00 2.59
803 3798 3.260884 TCCTTCAATTTCCTGCTACGTCT 59.739 43.478 0.00 0.00 0.00 4.18
804 3799 3.596214 TCCTTCAATTTCCTGCTACGTC 58.404 45.455 0.00 0.00 0.00 4.34
889 3889 7.504911 AGGGCACGTTAGAGATAGATAAGTTTA 59.495 37.037 0.00 0.00 0.00 2.01
896 3896 2.297597 GCAGGGCACGTTAGAGATAGAT 59.702 50.000 0.00 0.00 0.00 1.98
1094 4109 1.691976 TGGCTTCTTCTTGGTTCGAGA 59.308 47.619 0.00 0.00 0.00 4.04
1096 4111 1.140052 TGTGGCTTCTTCTTGGTTCGA 59.860 47.619 0.00 0.00 0.00 3.71
1098 4113 1.268079 GCTGTGGCTTCTTCTTGGTTC 59.732 52.381 0.00 0.00 35.22 3.62
1143 4161 2.110006 GGAAGAGATGGCGAGCCC 59.890 66.667 12.05 0.00 34.56 5.19
1173 4191 2.142761 CATGCCGGGGATCTGAGGA 61.143 63.158 2.18 0.00 0.00 3.71
1469 4487 2.964925 GCGCAGTGTTGACGACCA 60.965 61.111 0.30 0.00 0.00 4.02
1654 4688 5.039333 GCAAGCAGCACATATAAAGGAAAG 58.961 41.667 0.00 0.00 44.79 2.62
1860 4908 6.392625 TCATTCTCTGATCCTACCTAAACG 57.607 41.667 0.00 0.00 0.00 3.60
1881 4930 3.258372 CCCCTAAACGCTAGCTGATATCA 59.742 47.826 13.93 5.07 0.00 2.15
2013 5087 4.934001 CCAAGCATGCATCGATCTAGTATT 59.066 41.667 21.98 0.00 0.00 1.89
2054 5128 7.120726 GGCCATCACTAAAGTAAACAATACAGT 59.879 37.037 0.00 0.00 0.00 3.55
2070 5144 3.804036 CGTTAATTCTGGGCCATCACTA 58.196 45.455 6.72 0.00 0.00 2.74
2071 5145 2.643551 CGTTAATTCTGGGCCATCACT 58.356 47.619 6.72 0.00 0.00 3.41
2091 5165 4.736168 GCATATAGATCAGATCGACCCAGC 60.736 50.000 4.67 3.41 0.00 4.85
2212 5304 2.093235 AGCACTTAGAGAACCTGATGGC 60.093 50.000 0.00 0.00 36.63 4.40
2215 5307 6.992664 ATCATAGCACTTAGAGAACCTGAT 57.007 37.500 0.00 0.00 0.00 2.90
2266 5438 9.083080 CCGAAAACTCTTACAAAAATCTTGTTT 57.917 29.630 0.00 0.00 34.11 2.83
2271 5443 8.622948 ATCTCCGAAAACTCTTACAAAAATCT 57.377 30.769 0.00 0.00 0.00 2.40
2273 5445 7.360946 CCGATCTCCGAAAACTCTTACAAAAAT 60.361 37.037 0.00 0.00 41.76 1.82
2290 5462 2.579787 GTGTGCGTCCGATCTCCG 60.580 66.667 0.00 0.00 38.18 4.63
2307 5479 4.406649 AGGGAATTTGGCATGGTAAGAATG 59.593 41.667 0.00 0.00 0.00 2.67
2312 5484 5.390387 GGTATAGGGAATTTGGCATGGTAA 58.610 41.667 0.00 0.00 0.00 2.85
2350 5552 2.418628 GCAGCAATTCTTGGCTACGTAA 59.581 45.455 0.00 0.00 38.56 3.18
2370 5572 8.438676 AAGGAGTTCAACTATATATGTTGTGC 57.561 34.615 18.94 14.91 43.54 4.57
2380 5582 5.001232 GTGTGGCAAAGGAGTTCAACTATA 58.999 41.667 0.00 0.00 0.00 1.31
2385 5587 2.023673 CTGTGTGGCAAAGGAGTTCAA 58.976 47.619 0.00 0.00 0.00 2.69
2415 5617 0.622665 CCCCATGCTGAGAGGACTTT 59.377 55.000 0.00 0.00 0.00 2.66
2429 5631 1.622499 CCAATCCTCCTTGCCCCAT 59.378 57.895 0.00 0.00 0.00 4.00
2455 5702 2.264480 CGTTCGTGGGATGAGCCA 59.736 61.111 0.00 0.00 38.95 4.75
2463 5710 1.137513 GAGTTGAAGTCGTTCGTGGG 58.862 55.000 0.00 0.00 35.17 4.61
2467 5714 2.672714 TCATGGAGTTGAAGTCGTTCG 58.327 47.619 0.00 0.00 35.17 3.95
2471 5718 3.806521 GGATGATCATGGAGTTGAAGTCG 59.193 47.826 14.30 0.00 0.00 4.18
2515 5768 1.355796 TACGACGGCATTCCTTTGCG 61.356 55.000 0.00 0.00 43.71 4.85
2528 6156 2.780361 ACGCATTGTCAAATACGACG 57.220 45.000 10.93 0.00 38.84 5.12
2552 6180 3.814316 GCCTAAGAACAAACCCCACAGAT 60.814 47.826 0.00 0.00 0.00 2.90
2555 6183 1.816183 CGCCTAAGAACAAACCCCACA 60.816 52.381 0.00 0.00 0.00 4.17
2556 6184 0.879090 CGCCTAAGAACAAACCCCAC 59.121 55.000 0.00 0.00 0.00 4.61
2619 6977 0.834687 AGAGACCCGCCTAAACCACA 60.835 55.000 0.00 0.00 0.00 4.17
2621 6979 1.550130 CCAGAGACCCGCCTAAACCA 61.550 60.000 0.00 0.00 0.00 3.67
2622 6980 1.221021 CCAGAGACCCGCCTAAACC 59.779 63.158 0.00 0.00 0.00 3.27
2623 6981 1.449778 GCCAGAGACCCGCCTAAAC 60.450 63.158 0.00 0.00 0.00 2.01
2624 6982 2.987125 GCCAGAGACCCGCCTAAA 59.013 61.111 0.00 0.00 0.00 1.85
2625 6983 3.458163 CGCCAGAGACCCGCCTAA 61.458 66.667 0.00 0.00 0.00 2.69
2641 7026 6.037098 CCAAGATACAAAAGGAGACTACTCG 58.963 44.000 0.00 0.00 42.68 4.18
2673 7058 5.376854 ACATTACAACTTGGCAGAATCAC 57.623 39.130 0.00 0.00 0.00 3.06
2675 7060 7.593825 AGTTTACATTACAACTTGGCAGAATC 58.406 34.615 0.00 0.00 28.27 2.52
2676 7061 7.524717 AGTTTACATTACAACTTGGCAGAAT 57.475 32.000 0.00 0.00 28.27 2.40
2677 7062 6.952773 AGTTTACATTACAACTTGGCAGAA 57.047 33.333 0.00 0.00 28.27 3.02
2678 7063 6.952773 AAGTTTACATTACAACTTGGCAGA 57.047 33.333 0.00 0.00 40.87 4.26
2679 7064 7.754924 CCATAAGTTTACATTACAACTTGGCAG 59.245 37.037 7.41 0.00 42.09 4.85
2688 7073 9.740239 GACGTCTATCCATAAGTTTACATTACA 57.260 33.333 8.70 0.00 0.00 2.41
2691 7076 8.692710 TGAGACGTCTATCCATAAGTTTACATT 58.307 33.333 20.09 0.00 0.00 2.71
2710 7095 3.655615 ATAGGAGAAGAGGTGAGACGT 57.344 47.619 0.00 0.00 0.00 4.34
2711 7096 4.452825 TGTATAGGAGAAGAGGTGAGACG 58.547 47.826 0.00 0.00 0.00 4.18
2776 7169 4.066710 GCACGTAGAACCATTTGAGTTC 57.933 45.455 0.00 0.00 43.22 3.01


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

AutoCloner maintained by Alex Coulton.