Multiple sequence alignment - TraesCS7B01G143000

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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 TraesCS7B01G143000 chr7B 100.000 4483 0 0 1 4483 183300961 183305443 0.000000e+00 8279
1 TraesCS7B01G143000 chr7D 92.650 2177 109 19 1860 4028 217479943 217477810 0.000000e+00 3086
2 TraesCS7B01G143000 chr7D 94.692 1865 74 14 1 1845 217481786 217479927 0.000000e+00 2872
3 TraesCS7B01G143000 chr7D 84.749 459 31 8 4027 4483 217477871 217477450 1.490000e-114 424
4 TraesCS7B01G143000 chr7A 94.495 1762 66 18 102 1845 230304049 230302301 0.000000e+00 2687
5 TraesCS7B01G143000 chr7A 95.015 1023 45 6 1860 2879 230302317 230301298 0.000000e+00 1602
6 TraesCS7B01G143000 chr7A 92.652 1116 51 11 2914 4028 230300635 230299550 0.000000e+00 1578
7 TraesCS7B01G143000 chr7A 89.863 365 27 5 4119 4483 230299538 230299184 1.140000e-125 460
8 TraesCS7B01G143000 chr7A 94.681 94 5 0 1 94 230304463 230304370 3.610000e-31 147
9 TraesCS7B01G143000 chr5A 83.406 229 21 6 445 668 416116407 416116623 3.540000e-46 196


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 TraesCS7B01G143000 chr7B 183300961 183305443 4482 False 8279.000000 8279 100.0000 1 4483 1 chr7B.!!$F1 4482
1 TraesCS7B01G143000 chr7D 217477450 217481786 4336 True 2127.333333 3086 90.6970 1 4483 3 chr7D.!!$R1 4482
2 TraesCS7B01G143000 chr7A 230299184 230304463 5279 True 1294.800000 2687 93.3412 1 4483 5 chr7A.!!$R1 4482

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
838 1170 0.313043 TCTCGTGTTTGACCGGAGAC 59.687 55.0 9.46 0.95 0.00 3.36 F
2520 2870 0.106708 TGGATGCTACATCGCCTTCC 59.893 55.0 1.74 0.00 33.92 3.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2784 3134 0.553819 AACAGCCCACAACCTGGTAA 59.446 50.0 0.0 0.0 38.60 2.85 R
4118 5095 0.037882 TCTGCCAGAGTTGCTCGAAG 60.038 55.0 0.0 0.0 35.36 3.79 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
34 35 0.608130 TCTATCTGCGTGCCAGTTGT 59.392 50.000 0.00 0.00 42.38 3.32
36 37 1.129251 CTATCTGCGTGCCAGTTGTTG 59.871 52.381 0.00 0.00 42.38 3.33
47 48 1.131883 CCAGTTGTTGCTAGCATGCTC 59.868 52.381 26.57 11.86 0.00 4.26
114 428 4.542075 GGTGTAGCCTAGGCAAGC 57.458 61.111 34.70 23.74 44.88 4.01
162 476 5.056480 CCGAGAGCAAATACCACATATTCA 58.944 41.667 0.00 0.00 31.90 2.57
211 525 5.243981 CAACCATCCATGATCCATCTACTC 58.756 45.833 0.00 0.00 0.00 2.59
212 526 4.761086 ACCATCCATGATCCATCTACTCT 58.239 43.478 0.00 0.00 0.00 3.24
329 649 0.758685 CCCCCTGACACAAAAAGGCA 60.759 55.000 0.00 0.00 0.00 4.75
336 656 5.221422 CCCTGACACAAAAAGGCAAAATCTA 60.221 40.000 0.00 0.00 0.00 1.98
425 745 0.393132 GGAGGCTGTAGGCAGGAAAC 60.393 60.000 8.22 0.00 42.78 2.78
670 991 3.188460 CCGTGGTTCATTTCGTCTTTGAT 59.812 43.478 0.00 0.00 0.00 2.57
717 1038 0.396435 TCTGTGCTCGGTTCACCAAT 59.604 50.000 0.00 0.00 35.14 3.16
727 1048 2.293122 CGGTTCACCAATTTCTTGCTCA 59.707 45.455 0.00 0.00 35.14 4.26
729 1050 4.692228 GGTTCACCAATTTCTTGCTCAAA 58.308 39.130 0.00 0.00 35.64 2.69
732 1053 6.460953 GGTTCACCAATTTCTTGCTCAAACTA 60.461 38.462 0.00 0.00 35.64 2.24
733 1054 6.072112 TCACCAATTTCTTGCTCAAACTAC 57.928 37.500 0.00 0.00 0.00 2.73
734 1055 5.827797 TCACCAATTTCTTGCTCAAACTACT 59.172 36.000 0.00 0.00 0.00 2.57
735 1056 6.017109 TCACCAATTTCTTGCTCAAACTACTC 60.017 38.462 0.00 0.00 0.00 2.59
786 1118 7.510549 TCAGTTTCTTGGAGGTAATTTCTTG 57.489 36.000 0.00 0.00 0.00 3.02
835 1167 1.254026 AGATCTCGTGTTTGACCGGA 58.746 50.000 9.46 0.00 0.00 5.14
838 1170 0.313043 TCTCGTGTTTGACCGGAGAC 59.687 55.000 9.46 0.95 0.00 3.36
881 1220 5.103000 AGCTTCCTAATCCCTAGTCCTAACT 60.103 44.000 0.00 0.00 39.66 2.24
932 1271 1.509162 GTGTGAAAATCGCGGCGTC 60.509 57.895 22.90 12.82 0.00 5.19
1248 1588 2.125106 GGAGGAAATGGCGTCGCT 60.125 61.111 18.11 0.00 0.00 4.93
1344 1684 0.760567 TGTCTCTGGCACTGGTGACT 60.761 55.000 8.11 0.00 39.96 3.41
1679 2022 6.116711 TGGGTTAAGTGTGCTATTTGTCTA 57.883 37.500 0.00 0.00 0.00 2.59
1747 2091 3.713826 TTAAAGGGTGAACTGCTAGGG 57.286 47.619 0.00 0.00 0.00 3.53
1749 2093 1.280457 AAGGGTGAACTGCTAGGGAG 58.720 55.000 0.00 0.00 0.00 4.30
1781 2125 5.298989 TCTAGCACTCCCTTGTTGTTTTA 57.701 39.130 0.00 0.00 0.00 1.52
1795 2139 8.479280 CCTTGTTGTTTTACTTTGATTGATTCG 58.521 33.333 0.00 0.00 0.00 3.34
1841 2185 6.072119 GCAGGTTTACCTAAAGCATTTACAGT 60.072 38.462 0.14 0.00 46.65 3.55
1845 2189 8.182227 GGTTTACCTAAAGCATTTACAGTGATC 58.818 37.037 0.00 0.00 41.78 2.92
1846 2190 8.947115 GTTTACCTAAAGCATTTACAGTGATCT 58.053 33.333 0.00 0.00 40.09 2.75
1847 2191 8.718102 TTACCTAAAGCATTTACAGTGATCTC 57.282 34.615 0.00 0.00 40.09 2.75
1848 2192 6.951971 ACCTAAAGCATTTACAGTGATCTCT 58.048 36.000 0.00 0.00 40.09 3.10
1849 2193 7.044798 ACCTAAAGCATTTACAGTGATCTCTC 58.955 38.462 0.00 0.00 40.09 3.20
1850 2194 7.093112 ACCTAAAGCATTTACAGTGATCTCTCT 60.093 37.037 0.00 0.00 40.09 3.10
1851 2195 7.437862 CCTAAAGCATTTACAGTGATCTCTCTC 59.562 40.741 0.00 0.00 40.09 3.20
1852 2196 5.929058 AGCATTTACAGTGATCTCTCTCA 57.071 39.130 0.00 0.00 0.00 3.27
1853 2197 6.291648 AGCATTTACAGTGATCTCTCTCAA 57.708 37.500 0.00 0.00 0.00 3.02
1854 2198 6.705302 AGCATTTACAGTGATCTCTCTCAAA 58.295 36.000 0.00 0.00 0.00 2.69
1855 2199 7.164122 AGCATTTACAGTGATCTCTCTCAAAA 58.836 34.615 0.00 0.00 0.00 2.44
1856 2200 7.663081 AGCATTTACAGTGATCTCTCTCAAAAA 59.337 33.333 0.00 0.00 0.00 1.94
1882 2226 6.795098 AAAGCATTTACAGTGATTCACGTA 57.205 33.333 11.01 12.60 35.86 3.57
1901 2245 6.018507 TCACGTATTGATGCATTTCTGAGATG 60.019 38.462 0.00 3.94 0.00 2.90
1917 2261 7.692460 TCTGAGATGTTTAATTTGATGCTGT 57.308 32.000 0.00 0.00 0.00 4.40
2018 2364 4.082300 ACACTGATGTTTGTTGACTTTGCA 60.082 37.500 0.00 0.00 34.46 4.08
2032 2379 4.883585 TGACTTTGCATCTGTGAAGTTCTT 59.116 37.500 4.17 0.00 0.00 2.52
2120 2467 3.476552 TGTTCTTACAGTTCAAGCTGGG 58.523 45.455 0.00 0.00 40.59 4.45
2129 2476 3.041946 AGTTCAAGCTGGGGAGGTATAG 58.958 50.000 0.00 0.00 0.00 1.31
2130 2477 2.772515 GTTCAAGCTGGGGAGGTATAGT 59.227 50.000 0.00 0.00 0.00 2.12
2179 2526 7.558161 TGCTATACTCAATGATGTTTGAAGG 57.442 36.000 0.00 0.00 35.31 3.46
2188 2535 8.044060 TCAATGATGTTTGAAGGATGAACTAC 57.956 34.615 0.00 0.00 32.82 2.73
2203 2550 9.901172 AGGATGAACTACTTTTAATCGGTTAAT 57.099 29.630 0.86 0.00 30.34 1.40
2218 2566 5.245531 TCGGTTAATCTTATCCCATGCATC 58.754 41.667 0.00 0.00 0.00 3.91
2283 2631 1.490910 CCCTCCCAATTCTGACCCTAC 59.509 57.143 0.00 0.00 0.00 3.18
2285 2633 2.576191 CCTCCCAATTCTGACCCTACAA 59.424 50.000 0.00 0.00 0.00 2.41
2326 2674 5.808366 ATCCGATATCCTAGAGCACAAAA 57.192 39.130 0.00 0.00 0.00 2.44
2347 2695 3.370840 TCCAGTCTGCATTAAGCCAAT 57.629 42.857 0.00 0.00 44.83 3.16
2442 2790 0.749649 TTGATGCTTTGCGGGTTTGT 59.250 45.000 0.00 0.00 0.00 2.83
2453 2801 0.750249 CGGGTTTGTGCCTCCTTTTT 59.250 50.000 0.00 0.00 0.00 1.94
2455 2803 1.484653 GGGTTTGTGCCTCCTTTTTGT 59.515 47.619 0.00 0.00 0.00 2.83
2520 2870 0.106708 TGGATGCTACATCGCCTTCC 59.893 55.000 1.74 0.00 33.92 3.46
2550 2900 1.070134 TGTTAAGCTGGCGAGTTCTGT 59.930 47.619 0.00 0.00 0.00 3.41
2581 2931 4.040461 AGCACAGCTTTCCTCTAACTAACA 59.960 41.667 0.00 0.00 33.89 2.41
2647 2997 9.690913 AAGATTATGTCATTTTCTCAGAATGGA 57.309 29.630 0.00 0.00 35.66 3.41
2827 3177 5.389778 TGCAATAAAGCACGTAAGATGTTG 58.610 37.500 0.00 0.00 40.11 3.33
2872 3222 1.533753 CCTGCATGGTTGTGGGGTT 60.534 57.895 0.00 0.00 0.00 4.11
2890 3558 4.323945 GGGGTTCAGTGTCCATGTACAATA 60.324 45.833 0.00 0.00 0.00 1.90
2896 3564 9.109393 GTTCAGTGTCCATGTACAATATACAAT 57.891 33.333 0.00 0.00 0.00 2.71
3143 4120 6.852345 GCAATTTTTCATGTGCTAACAAAAGG 59.148 34.615 0.00 0.00 40.46 3.11
3150 4127 4.040445 TGTGCTAACAAAAGGAAAGTGC 57.960 40.909 0.00 0.00 31.82 4.40
3338 4315 1.342174 GTACCACTGAAGGTCGTTCCA 59.658 52.381 2.94 0.00 42.06 3.53
3683 4660 2.294233 TCAGCTTGAATTTCTGTGCCAC 59.706 45.455 0.00 0.00 0.00 5.01
3750 4727 0.969894 GTGACCCTATGAGGCGCTAT 59.030 55.000 7.64 2.23 32.73 2.97
3752 4729 0.247736 GACCCTATGAGGCGCTATGG 59.752 60.000 7.64 0.36 32.73 2.74
3759 4736 5.053145 CCTATGAGGCGCTATGGAATAATC 58.947 45.833 7.64 0.00 0.00 1.75
3765 4742 4.697352 AGGCGCTATGGAATAATCATGTTC 59.303 41.667 7.64 0.00 0.00 3.18
3816 4793 6.757237 TCATGTATGTCCTGCAAAAATTGTT 58.243 32.000 0.00 0.00 0.00 2.83
3826 4803 3.251917 CAAAAATTGTTTTGCCGGCTC 57.748 42.857 29.70 15.44 45.20 4.70
3827 4804 2.611225 AAAATTGTTTTGCCGGCTCA 57.389 40.000 29.70 17.86 0.00 4.26
3854 4831 3.244491 CCTGATTTGTTCAATGCCCCAAA 60.244 43.478 0.00 0.00 32.78 3.28
3874 4851 5.572896 CCAAAAGCGATACAAGAATTTGACC 59.427 40.000 0.00 0.00 37.73 4.02
3875 4852 5.957842 AAAGCGATACAAGAATTTGACCA 57.042 34.783 0.00 0.00 37.73 4.02
3876 4853 5.957842 AAGCGATACAAGAATTTGACCAA 57.042 34.783 0.00 0.00 37.73 3.67
3877 4854 5.551760 AGCGATACAAGAATTTGACCAAG 57.448 39.130 0.00 0.00 37.73 3.61
3886 4863 3.251004 AGAATTTGACCAAGACGCAAGAC 59.749 43.478 0.00 0.00 43.62 3.01
3893 4870 2.752903 ACCAAGACGCAAGACAAAACTT 59.247 40.909 0.00 0.00 43.62 2.66
3921 4898 7.093552 TGCCAAAACATAAGGTTACAAGCATAT 60.094 33.333 0.00 0.00 39.29 1.78
3922 4899 8.410141 GCCAAAACATAAGGTTACAAGCATATA 58.590 33.333 0.00 0.00 39.29 0.86
3940 4917 8.859236 AGCATATATAAGATCAACACAGCAAT 57.141 30.769 0.00 0.00 0.00 3.56
3956 4933 2.340337 GCAATTGGCATTCTGTGGAAC 58.660 47.619 7.72 0.00 43.97 3.62
3957 4934 2.288948 GCAATTGGCATTCTGTGGAACA 60.289 45.455 7.72 0.00 44.68 3.18
3958 4935 3.803021 GCAATTGGCATTCTGTGGAACAA 60.803 43.478 7.72 0.00 45.74 2.83
3959 4936 5.275052 GCAATTGGCATTCTGTGGAACAAA 61.275 41.667 7.72 0.00 45.74 2.83
3960 4937 7.257397 GCAATTGGCATTCTGTGGAACAAAC 62.257 44.000 7.72 0.00 45.74 2.93
3972 4949 4.033019 GTGGAACAAACGTTCTTTACAGC 58.967 43.478 0.00 0.00 44.16 4.40
3973 4950 3.690139 TGGAACAAACGTTCTTTACAGCA 59.310 39.130 0.00 0.00 42.11 4.41
3974 4951 4.201871 TGGAACAAACGTTCTTTACAGCAG 60.202 41.667 0.00 0.00 42.11 4.24
3975 4952 4.201881 GGAACAAACGTTCTTTACAGCAGT 60.202 41.667 0.00 0.00 42.11 4.40
3976 4953 5.006941 GGAACAAACGTTCTTTACAGCAGTA 59.993 40.000 0.00 0.00 42.11 2.74
3977 4954 6.293244 GGAACAAACGTTCTTTACAGCAGTAT 60.293 38.462 0.00 0.00 42.11 2.12
3978 4955 5.985781 ACAAACGTTCTTTACAGCAGTATG 58.014 37.500 0.00 0.00 40.87 2.39
3995 4972 6.706055 CAGTATGCTACGTATAACCATTGG 57.294 41.667 0.00 0.00 0.00 3.16
3996 4973 5.120208 CAGTATGCTACGTATAACCATTGGC 59.880 44.000 1.54 0.00 0.00 4.52
3997 4974 3.830744 TGCTACGTATAACCATTGGCT 57.169 42.857 1.54 0.00 0.00 4.75
3998 4975 4.145365 TGCTACGTATAACCATTGGCTT 57.855 40.909 1.54 0.00 0.00 4.35
3999 4976 4.124238 TGCTACGTATAACCATTGGCTTC 58.876 43.478 1.54 0.00 0.00 3.86
4000 4977 3.183775 GCTACGTATAACCATTGGCTTCG 59.816 47.826 1.54 3.98 0.00 3.79
4001 4978 2.557317 ACGTATAACCATTGGCTTCGG 58.443 47.619 1.54 0.00 0.00 4.30
4002 4979 1.263217 CGTATAACCATTGGCTTCGGC 59.737 52.381 1.54 0.00 40.88 5.54
4003 4980 1.263217 GTATAACCATTGGCTTCGGCG 59.737 52.381 0.00 0.00 42.91 6.46
4004 4981 1.101049 ATAACCATTGGCTTCGGCGG 61.101 55.000 7.21 0.00 42.91 6.13
4006 4983 4.794648 CCATTGGCTTCGGCGGGA 62.795 66.667 7.21 0.00 42.91 5.14
4007 4984 3.204827 CATTGGCTTCGGCGGGAG 61.205 66.667 7.21 6.96 42.91 4.30
4008 4985 4.489771 ATTGGCTTCGGCGGGAGG 62.490 66.667 7.21 0.00 42.91 4.30
4019 4996 3.233355 GCGGGAGGCCACTATATTG 57.767 57.895 5.01 0.00 34.80 1.90
4020 4997 0.955919 GCGGGAGGCCACTATATTGC 60.956 60.000 5.01 0.00 34.80 3.56
4021 4998 0.396435 CGGGAGGCCACTATATTGCA 59.604 55.000 5.01 0.00 0.00 4.08
4022 4999 1.202758 CGGGAGGCCACTATATTGCAA 60.203 52.381 5.01 0.00 0.00 4.08
4023 5000 2.230660 GGGAGGCCACTATATTGCAAC 58.769 52.381 5.01 0.00 0.00 4.17
4024 5001 2.158608 GGGAGGCCACTATATTGCAACT 60.159 50.000 5.01 0.00 0.00 3.16
4025 5002 3.142174 GGAGGCCACTATATTGCAACTC 58.858 50.000 5.01 0.00 0.00 3.01
4031 5008 4.157656 GCCACTATATTGCAACTCCAAACA 59.842 41.667 0.00 0.00 0.00 2.83
4040 5017 5.843673 TGCAACTCCAAACATTCTTTACA 57.156 34.783 0.00 0.00 0.00 2.41
4048 5025 7.448469 ACTCCAAACATTCTTTACAGCAGTATT 59.552 33.333 0.00 0.00 0.00 1.89
4067 5044 0.326595 TCTAACCATTGGCTTCGGCA 59.673 50.000 1.54 0.00 43.96 5.69
4082 5059 0.870393 CGGCAGCCACTATATTGCAG 59.130 55.000 13.30 0.00 38.27 4.41
4083 5060 1.811558 CGGCAGCCACTATATTGCAGT 60.812 52.381 13.30 0.00 38.27 4.40
4100 5077 3.818773 TGCAGTTCCAGTTAGTTAAAGCC 59.181 43.478 0.00 0.00 0.00 4.35
4101 5078 3.818773 GCAGTTCCAGTTAGTTAAAGCCA 59.181 43.478 0.00 0.00 0.00 4.75
4102 5079 4.277423 GCAGTTCCAGTTAGTTAAAGCCAA 59.723 41.667 0.00 0.00 0.00 4.52
4103 5080 5.758924 CAGTTCCAGTTAGTTAAAGCCAAC 58.241 41.667 0.00 0.00 0.00 3.77
4104 5081 5.298276 CAGTTCCAGTTAGTTAAAGCCAACA 59.702 40.000 0.00 0.00 0.00 3.33
4105 5082 5.889289 AGTTCCAGTTAGTTAAAGCCAACAA 59.111 36.000 0.00 0.00 0.00 2.83
4106 5083 6.549736 AGTTCCAGTTAGTTAAAGCCAACAAT 59.450 34.615 0.00 0.00 0.00 2.71
4107 5084 6.325919 TCCAGTTAGTTAAAGCCAACAATG 57.674 37.500 0.00 0.00 0.00 2.82
4108 5085 6.065374 TCCAGTTAGTTAAAGCCAACAATGA 58.935 36.000 0.00 0.00 0.00 2.57
4109 5086 6.016610 TCCAGTTAGTTAAAGCCAACAATGAC 60.017 38.462 0.00 0.00 0.00 3.06
4110 5087 6.238897 CCAGTTAGTTAAAGCCAACAATGACA 60.239 38.462 0.00 0.00 0.00 3.58
4111 5088 6.857964 CAGTTAGTTAAAGCCAACAATGACAG 59.142 38.462 0.00 0.00 0.00 3.51
4112 5089 4.853924 AGTTAAAGCCAACAATGACAGG 57.146 40.909 0.00 0.00 0.00 4.00
4113 5090 4.215109 AGTTAAAGCCAACAATGACAGGT 58.785 39.130 0.00 0.00 0.00 4.00
4114 5091 4.278419 AGTTAAAGCCAACAATGACAGGTC 59.722 41.667 0.00 0.00 0.00 3.85
4115 5092 1.238439 AAGCCAACAATGACAGGTCG 58.762 50.000 0.00 0.00 0.00 4.79
4116 5093 1.210155 GCCAACAATGACAGGTCGC 59.790 57.895 0.00 0.00 0.00 5.19
4117 5094 1.875963 CCAACAATGACAGGTCGCC 59.124 57.895 0.00 0.00 0.00 5.54
4118 5095 1.586154 CCAACAATGACAGGTCGCCC 61.586 60.000 0.00 0.00 0.00 6.13
4132 5109 2.097038 CGCCCTTCGAGCAACTCTG 61.097 63.158 0.00 0.00 41.67 3.35
4141 5118 1.673923 CGAGCAACTCTGGCAGAATCA 60.674 52.381 19.29 0.00 0.00 2.57
4144 5121 2.568956 AGCAACTCTGGCAGAATCACTA 59.431 45.455 19.29 0.00 0.00 2.74
4152 5129 6.053632 TCTGGCAGAATCACTAAAATCTCA 57.946 37.500 16.28 0.00 0.00 3.27
4181 5158 2.665185 GCTGAAAGGGCGACGTGT 60.665 61.111 0.00 0.00 0.00 4.49
4196 5173 4.088648 CGACGTGTCAAAATTTATGGAGC 58.911 43.478 0.00 0.00 0.00 4.70
4239 5216 6.109359 ACTCAGATTCGCTATAATATTGGGC 58.891 40.000 0.00 0.00 0.00 5.36
4247 5224 6.356556 TCGCTATAATATTGGGCTGCATATT 58.643 36.000 0.50 5.54 31.77 1.28
4248 5225 6.260714 TCGCTATAATATTGGGCTGCATATTG 59.739 38.462 11.73 0.85 30.00 1.90
4249 5226 6.038603 CGCTATAATATTGGGCTGCATATTGT 59.961 38.462 11.73 8.80 30.00 2.71
4250 5227 7.226523 CGCTATAATATTGGGCTGCATATTGTA 59.773 37.037 11.73 9.30 30.00 2.41
4251 5228 9.071276 GCTATAATATTGGGCTGCATATTGTAT 57.929 33.333 11.73 4.08 30.00 2.29
4256 5233 4.286297 TGGGCTGCATATTGTATCTACC 57.714 45.455 0.50 0.00 0.00 3.18
4311 5288 1.071699 TCACCTTCTCCAAAACTCCCG 59.928 52.381 0.00 0.00 0.00 5.14
4338 5317 1.622811 CTCTCTGCTCAAGTTCACCCT 59.377 52.381 0.00 0.00 0.00 4.34
4361 5340 2.684104 CTCTCTCCCACTCCCCGA 59.316 66.667 0.00 0.00 0.00 5.14
4412 5391 1.823041 CCCTACCCGTCGACTCCTC 60.823 68.421 14.70 0.00 0.00 3.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 35 1.819928 TTTTCCGAGCATGCTAGCAA 58.180 45.000 23.54 10.66 36.85 3.91
36 37 1.070309 CGATTTTCCGAGCATGCTAGC 60.070 52.381 22.74 8.10 0.00 3.42
86 87 0.741221 GGCTACACCTCCGCTCTTTG 60.741 60.000 0.00 0.00 34.51 2.77
142 456 5.380043 CCCTGAATATGTGGTATTTGCTCT 58.620 41.667 0.00 0.00 33.16 4.09
162 476 0.911525 TCTAGCAGCTTTGCTCCCCT 60.912 55.000 0.00 0.00 45.00 4.79
177 491 1.278985 TGGATGGTTGCAGGTGTCTAG 59.721 52.381 0.00 0.00 0.00 2.43
211 525 0.555769 AGAGGAGGGGAGCAGAGTAG 59.444 60.000 0.00 0.00 0.00 2.57
212 526 0.553819 GAGAGGAGGGGAGCAGAGTA 59.446 60.000 0.00 0.00 0.00 2.59
249 569 4.837093 TTGCCTCGGGGGAAATATATAG 57.163 45.455 5.47 0.00 39.98 1.31
425 745 1.133009 ACTCCTACCCAGCTCCCATAG 60.133 57.143 0.00 0.00 0.00 2.23
670 991 1.898190 ATCCCCTTCTCCCTCCGGAA 61.898 60.000 5.23 0.00 37.86 4.30
717 1038 5.552870 AGAGGAGTAGTTTGAGCAAGAAA 57.447 39.130 0.00 0.00 0.00 2.52
727 1048 7.097834 CGGTAAAATCTCAAGAGGAGTAGTTT 58.902 38.462 0.00 0.00 44.40 2.66
729 1050 5.715753 ACGGTAAAATCTCAAGAGGAGTAGT 59.284 40.000 0.00 0.00 44.40 2.73
732 1053 5.480205 GAACGGTAAAATCTCAAGAGGAGT 58.520 41.667 0.00 0.00 44.40 3.85
733 1054 4.870991 GGAACGGTAAAATCTCAAGAGGAG 59.129 45.833 0.00 0.00 45.49 3.69
734 1055 4.323257 GGGAACGGTAAAATCTCAAGAGGA 60.323 45.833 0.00 0.00 0.00 3.71
735 1056 3.939592 GGGAACGGTAAAATCTCAAGAGG 59.060 47.826 0.00 0.00 0.00 3.69
786 1118 3.372060 GCAAACCAGAGTTTTACAGCAC 58.628 45.455 0.00 0.00 43.82 4.40
835 1167 2.429478 CGAAAACCCATAAACCCGTCT 58.571 47.619 0.00 0.00 0.00 4.18
838 1170 0.882474 TGCGAAAACCCATAAACCCG 59.118 50.000 0.00 0.00 0.00 5.28
903 1242 4.724036 GCGATTTTCACACCGCTAACTAAG 60.724 45.833 0.00 0.00 43.75 2.18
904 1243 3.123959 GCGATTTTCACACCGCTAACTAA 59.876 43.478 0.00 0.00 43.75 2.24
1197 1537 1.226686 CGGACATGCTAGAGCCATGC 61.227 60.000 8.29 3.11 41.18 4.06
1335 1675 2.421739 GTCGGCACAGTCACCAGT 59.578 61.111 0.00 0.00 0.00 4.00
1366 1706 1.526887 CACCCTGTGTCACACCTGT 59.473 57.895 5.21 0.00 32.73 4.00
1370 1710 0.179045 AGAAGCACCCTGTGTCACAC 60.179 55.000 0.00 0.00 35.75 3.82
1506 1846 4.785511 ATAGGGAATCGAGATGTTACCG 57.214 45.455 0.00 0.00 0.00 4.02
1679 2022 6.949117 ATATCTCATTTAGCCTCTGACCAT 57.051 37.500 0.00 0.00 0.00 3.55
1749 2093 4.967036 AGGGAGTGCTAGATTGCTAAATC 58.033 43.478 0.00 0.00 42.26 2.17
1795 2139 7.068716 ACCTGCCTTACCAATATTCTCAATTTC 59.931 37.037 0.00 0.00 0.00 2.17
1803 2147 6.387041 GGTAAACCTGCCTTACCAATATTC 57.613 41.667 6.84 0.00 45.21 1.75
1857 2201 6.503524 ACGTGAATCACTGTAAATGCTTTTT 58.496 32.000 11.92 0.00 31.34 1.94
1858 2202 6.072112 ACGTGAATCACTGTAAATGCTTTT 57.928 33.333 11.92 2.86 31.34 2.27
1859 2203 5.689383 ACGTGAATCACTGTAAATGCTTT 57.311 34.783 11.92 0.00 31.34 3.51
1860 2204 6.985188 ATACGTGAATCACTGTAAATGCTT 57.015 33.333 11.92 0.00 31.56 3.91
1861 2205 6.593770 TCAATACGTGAATCACTGTAAATGCT 59.406 34.615 11.92 0.00 31.51 3.79
1862 2206 6.771076 TCAATACGTGAATCACTGTAAATGC 58.229 36.000 11.92 0.00 31.51 3.56
1863 2207 7.374228 GCATCAATACGTGAATCACTGTAAATG 59.626 37.037 11.92 16.92 40.50 2.32
1864 2208 7.065683 TGCATCAATACGTGAATCACTGTAAAT 59.934 33.333 11.92 8.05 40.50 1.40
1865 2209 6.370166 TGCATCAATACGTGAATCACTGTAAA 59.630 34.615 11.92 6.44 40.50 2.01
1866 2210 5.872070 TGCATCAATACGTGAATCACTGTAA 59.128 36.000 11.92 2.23 40.50 2.41
1867 2211 5.415221 TGCATCAATACGTGAATCACTGTA 58.585 37.500 11.92 14.37 40.50 2.74
1868 2212 4.252878 TGCATCAATACGTGAATCACTGT 58.747 39.130 11.92 12.77 40.50 3.55
1869 2213 4.863152 TGCATCAATACGTGAATCACTG 57.137 40.909 11.92 7.64 40.50 3.66
1870 2214 6.317140 AGAAATGCATCAATACGTGAATCACT 59.683 34.615 11.92 1.55 40.50 3.41
1871 2215 6.412943 CAGAAATGCATCAATACGTGAATCAC 59.587 38.462 0.00 2.75 40.50 3.06
1872 2216 6.315891 TCAGAAATGCATCAATACGTGAATCA 59.684 34.615 0.00 0.00 40.50 2.57
1873 2217 6.718388 TCAGAAATGCATCAATACGTGAATC 58.282 36.000 0.00 0.00 40.50 2.52
1874 2218 6.539826 TCTCAGAAATGCATCAATACGTGAAT 59.460 34.615 0.00 0.00 40.50 2.57
1875 2219 5.874261 TCTCAGAAATGCATCAATACGTGAA 59.126 36.000 0.00 0.00 40.50 3.18
1879 2223 6.296365 ACATCTCAGAAATGCATCAATACG 57.704 37.500 0.00 0.00 0.00 3.06
1901 2245 8.593492 AGGAGAAAAACAGCATCAAATTAAAC 57.407 30.769 0.00 0.00 0.00 2.01
1917 2261 8.966868 GTATGGTCCATAATTCAAGGAGAAAAA 58.033 33.333 13.37 0.00 40.22 1.94
2018 2364 6.939163 ACTATGCAAAGAAGAACTTCACAGAT 59.061 34.615 15.43 4.96 41.84 2.90
2203 2550 9.623000 CATATTATCTTGATGCATGGGATAAGA 57.377 33.333 20.31 18.13 34.03 2.10
2218 2566 6.570672 AACCATCAGCAGCATATTATCTTG 57.429 37.500 0.00 0.00 0.00 3.02
2283 2631 7.227314 TCGGATATGAAGGTTGATTGAGATTTG 59.773 37.037 0.00 0.00 0.00 2.32
2285 2633 6.830912 TCGGATATGAAGGTTGATTGAGATT 58.169 36.000 0.00 0.00 0.00 2.40
2306 2654 4.932200 GGATTTTGTGCTCTAGGATATCGG 59.068 45.833 0.00 0.00 0.00 4.18
2326 2674 3.370840 TTGGCTTAATGCAGACTGGAT 57.629 42.857 3.21 3.21 45.15 3.41
2347 2695 5.248020 ACATGAAATCCTGGCCAAAATAACA 59.752 36.000 7.01 4.26 0.00 2.41
2477 2827 6.639632 AGTTATGCAGCAGGGTAAAATATG 57.360 37.500 0.00 0.00 0.00 1.78
2520 2870 3.614616 CGCCAGCTTAACACTTTCTAGAG 59.385 47.826 0.00 0.00 0.00 2.43
2550 2900 3.107601 AGGAAAGCTGTGCTGATACCTA 58.892 45.455 0.00 0.00 39.62 3.08
2600 2950 7.129109 TCTTTGACGATACATCCTGAAAAAC 57.871 36.000 0.00 0.00 0.00 2.43
2768 3118 7.923414 ACCTGGTAACTAATTCAGATTGAAC 57.077 36.000 0.00 0.00 36.91 3.18
2784 3134 0.553819 AACAGCCCACAACCTGGTAA 59.446 50.000 0.00 0.00 38.60 2.85
2827 3177 0.671781 ACTGCTCGTTGCCTCATGAC 60.672 55.000 0.00 0.00 42.00 3.06
2861 3211 0.822121 GGACACTGAACCCCACAACC 60.822 60.000 0.00 0.00 0.00 3.77
2890 3558 6.261603 CAGCATTGGTGAGTGACATATTGTAT 59.738 38.462 10.30 0.00 32.22 2.29
2896 3564 3.979101 TCAGCATTGGTGAGTGACATA 57.021 42.857 14.28 0.00 35.04 2.29
3143 4120 4.669318 CATCTCATGTCATTGGCACTTTC 58.331 43.478 0.00 0.00 0.00 2.62
3309 4286 1.541310 TTCAGTGGTACGGGCTCAGG 61.541 60.000 0.00 0.00 0.00 3.86
3481 4458 1.347707 TCGGTCAAGGATGCTGAGTTT 59.652 47.619 0.00 0.00 0.00 2.66
3523 4500 2.528818 CCAGGGAGGCAGTTCACCA 61.529 63.158 0.00 0.00 0.00 4.17
3750 4727 9.685276 ACTGAACATAAGAACATGATTATTCCA 57.315 29.630 0.00 0.00 0.00 3.53
3782 4759 8.744568 TGCAGGACATACATGAAAATTACATA 57.255 30.769 0.00 0.00 31.40 2.29
3789 4766 7.714377 ACAATTTTTGCAGGACATACATGAAAA 59.286 29.630 0.00 0.00 36.24 2.29
3816 4793 0.605319 CAGGTAAGTGAGCCGGCAAA 60.605 55.000 31.54 13.92 0.00 3.68
3819 4796 0.107654 AATCAGGTAAGTGAGCCGGC 60.108 55.000 21.89 21.89 0.00 6.13
3820 4797 2.009774 CAAATCAGGTAAGTGAGCCGG 58.990 52.381 0.00 0.00 0.00 6.13
3821 4798 2.699954 ACAAATCAGGTAAGTGAGCCG 58.300 47.619 0.00 0.00 0.00 5.52
3822 4799 4.072131 TGAACAAATCAGGTAAGTGAGCC 58.928 43.478 0.00 0.00 33.04 4.70
3823 4800 5.689383 TTGAACAAATCAGGTAAGTGAGC 57.311 39.130 0.00 0.00 39.77 4.26
3824 4801 6.088824 GCATTGAACAAATCAGGTAAGTGAG 58.911 40.000 0.00 0.00 39.77 3.51
3825 4802 5.048083 GGCATTGAACAAATCAGGTAAGTGA 60.048 40.000 0.00 0.00 39.77 3.41
3826 4803 5.163513 GGCATTGAACAAATCAGGTAAGTG 58.836 41.667 0.00 0.00 39.77 3.16
3827 4804 4.220602 GGGCATTGAACAAATCAGGTAAGT 59.779 41.667 0.00 0.00 39.77 2.24
3854 4831 5.705441 TCTTGGTCAAATTCTTGTATCGCTT 59.295 36.000 0.00 0.00 33.94 4.68
3874 4851 3.543494 CACAAGTTTTGTCTTGCGTCTTG 59.457 43.478 6.38 0.00 45.86 3.02
3875 4852 3.758300 CACAAGTTTTGTCTTGCGTCTT 58.242 40.909 6.38 0.00 45.86 3.01
3876 4853 2.477863 GCACAAGTTTTGTCTTGCGTCT 60.478 45.455 6.38 0.00 45.86 4.18
3877 4854 1.846175 GCACAAGTTTTGTCTTGCGTC 59.154 47.619 6.38 0.00 45.86 5.19
3886 4863 7.278868 TAACCTTATGTTTTGGCACAAGTTTTG 59.721 33.333 0.00 0.00 40.44 2.44
3893 4870 5.737635 GCTTGTAACCTTATGTTTTGGCACA 60.738 40.000 0.00 0.00 38.42 4.57
3921 4898 5.651576 TGCCAATTGCTGTGTTGATCTTATA 59.348 36.000 0.00 0.00 42.00 0.98
3922 4899 4.463539 TGCCAATTGCTGTGTTGATCTTAT 59.536 37.500 0.00 0.00 42.00 1.73
3923 4900 3.825585 TGCCAATTGCTGTGTTGATCTTA 59.174 39.130 0.00 0.00 42.00 2.10
3924 4901 2.629137 TGCCAATTGCTGTGTTGATCTT 59.371 40.909 0.00 0.00 42.00 2.40
3925 4902 2.241160 TGCCAATTGCTGTGTTGATCT 58.759 42.857 0.00 0.00 42.00 2.75
3926 4903 2.728690 TGCCAATTGCTGTGTTGATC 57.271 45.000 0.00 0.00 42.00 2.92
3940 4917 2.223688 CGTTTGTTCCACAGAATGCCAA 60.224 45.455 0.00 0.00 42.53 4.52
3951 4928 8.592477 ATACTGCTGTAAAGAACGTTTGTTCCA 61.592 37.037 0.46 0.00 42.42 3.53
3952 4929 6.293244 ATACTGCTGTAAAGAACGTTTGTTCC 60.293 38.462 0.46 0.00 42.42 3.62
3954 4931 4.957759 ACTGCTGTAAAGAACGTTTGTT 57.042 36.364 0.46 2.28 42.23 2.83
3956 4933 4.846137 GCATACTGCTGTAAAGAACGTTTG 59.154 41.667 0.46 0.00 40.96 2.93
3957 4934 5.030874 GCATACTGCTGTAAAGAACGTTT 57.969 39.130 0.46 0.00 40.96 3.60
3958 4935 4.663636 GCATACTGCTGTAAAGAACGTT 57.336 40.909 0.00 0.00 40.96 3.99
3971 4948 5.120208 CCAATGGTTATACGTAGCATACTGC 59.880 44.000 0.08 0.00 45.46 4.40
3972 4949 5.120208 GCCAATGGTTATACGTAGCATACTG 59.880 44.000 0.00 0.00 40.12 2.74
3973 4950 5.011738 AGCCAATGGTTATACGTAGCATACT 59.988 40.000 0.00 0.00 40.12 2.12
3974 4951 5.235516 AGCCAATGGTTATACGTAGCATAC 58.764 41.667 0.00 0.00 38.50 2.39
3975 4952 5.477607 AGCCAATGGTTATACGTAGCATA 57.522 39.130 0.00 0.00 33.67 3.14
3976 4953 4.351874 AGCCAATGGTTATACGTAGCAT 57.648 40.909 0.00 0.00 35.39 3.79
3977 4954 3.830744 AGCCAATGGTTATACGTAGCA 57.169 42.857 0.00 0.00 0.00 3.49
3978 4955 3.183775 CGAAGCCAATGGTTATACGTAGC 59.816 47.826 0.00 0.00 30.94 3.58
3979 4956 3.739300 CCGAAGCCAATGGTTATACGTAG 59.261 47.826 0.00 0.00 30.94 3.51
3980 4957 3.719924 CCGAAGCCAATGGTTATACGTA 58.280 45.455 0.00 0.00 30.94 3.57
3981 4958 2.557317 CCGAAGCCAATGGTTATACGT 58.443 47.619 0.00 0.00 30.94 3.57
3982 4959 1.263217 GCCGAAGCCAATGGTTATACG 59.737 52.381 0.00 2.47 30.94 3.06
3983 4960 1.263217 CGCCGAAGCCAATGGTTATAC 59.737 52.381 0.00 0.00 34.57 1.47
3984 4961 1.588674 CGCCGAAGCCAATGGTTATA 58.411 50.000 0.00 0.00 34.57 0.98
3985 4962 1.101049 CCGCCGAAGCCAATGGTTAT 61.101 55.000 0.00 0.00 34.57 1.89
3986 4963 1.747367 CCGCCGAAGCCAATGGTTA 60.747 57.895 0.00 0.00 34.57 2.85
3987 4964 3.061848 CCGCCGAAGCCAATGGTT 61.062 61.111 0.00 0.00 34.57 3.67
3989 4966 4.794648 TCCCGCCGAAGCCAATGG 62.795 66.667 0.00 0.00 34.57 3.16
3990 4967 3.204827 CTCCCGCCGAAGCCAATG 61.205 66.667 0.00 0.00 34.57 2.82
3991 4968 4.489771 CCTCCCGCCGAAGCCAAT 62.490 66.667 0.00 0.00 34.57 3.16
4001 4978 0.955919 GCAATATAGTGGCCTCCCGC 60.956 60.000 3.32 0.00 42.11 6.13
4002 4979 0.396435 TGCAATATAGTGGCCTCCCG 59.604 55.000 3.32 0.00 0.00 5.14
4003 4980 2.158608 AGTTGCAATATAGTGGCCTCCC 60.159 50.000 0.59 0.00 0.00 4.30
4004 4981 3.142174 GAGTTGCAATATAGTGGCCTCC 58.858 50.000 0.59 0.00 0.00 4.30
4005 4982 3.142174 GGAGTTGCAATATAGTGGCCTC 58.858 50.000 0.59 0.00 0.00 4.70
4006 4983 2.509548 TGGAGTTGCAATATAGTGGCCT 59.490 45.455 0.59 0.00 0.00 5.19
4007 4984 2.930950 TGGAGTTGCAATATAGTGGCC 58.069 47.619 0.59 0.00 0.00 5.36
4008 4985 4.157656 TGTTTGGAGTTGCAATATAGTGGC 59.842 41.667 0.59 0.00 0.00 5.01
4009 4986 5.895636 TGTTTGGAGTTGCAATATAGTGG 57.104 39.130 0.59 0.00 0.00 4.00
4010 4987 7.765307 AGAATGTTTGGAGTTGCAATATAGTG 58.235 34.615 0.59 0.00 0.00 2.74
4011 4988 7.944729 AGAATGTTTGGAGTTGCAATATAGT 57.055 32.000 0.59 0.00 0.00 2.12
4014 4991 8.584157 TGTAAAGAATGTTTGGAGTTGCAATAT 58.416 29.630 0.59 0.00 0.00 1.28
4015 4992 7.946207 TGTAAAGAATGTTTGGAGTTGCAATA 58.054 30.769 0.59 0.00 0.00 1.90
4016 4993 6.815089 TGTAAAGAATGTTTGGAGTTGCAAT 58.185 32.000 0.59 0.00 0.00 3.56
4017 4994 6.214191 TGTAAAGAATGTTTGGAGTTGCAA 57.786 33.333 0.00 0.00 0.00 4.08
4018 4995 5.735922 GCTGTAAAGAATGTTTGGAGTTGCA 60.736 40.000 0.00 0.00 0.00 4.08
4019 4996 4.681483 GCTGTAAAGAATGTTTGGAGTTGC 59.319 41.667 0.00 0.00 0.00 4.17
4020 4997 5.830912 TGCTGTAAAGAATGTTTGGAGTTG 58.169 37.500 0.00 0.00 0.00 3.16
4021 4998 5.594317 ACTGCTGTAAAGAATGTTTGGAGTT 59.406 36.000 0.00 0.00 0.00 3.01
4022 4999 5.133221 ACTGCTGTAAAGAATGTTTGGAGT 58.867 37.500 0.00 0.00 0.00 3.85
4023 5000 5.695851 ACTGCTGTAAAGAATGTTTGGAG 57.304 39.130 0.00 0.00 0.00 3.86
4024 5001 7.665559 AGAATACTGCTGTAAAGAATGTTTGGA 59.334 33.333 7.59 0.00 31.80 3.53
4025 5002 7.820648 AGAATACTGCTGTAAAGAATGTTTGG 58.179 34.615 7.59 0.00 31.80 3.28
4031 5008 9.686683 AATGGTTAGAATACTGCTGTAAAGAAT 57.313 29.630 7.59 0.00 31.80 2.40
4040 5017 4.510167 AGCCAATGGTTAGAATACTGCT 57.490 40.909 0.00 0.00 0.00 4.24
4048 5025 0.326595 TGCCGAAGCCAATGGTTAGA 59.673 50.000 0.00 0.00 38.69 2.10
4067 5044 3.200825 ACTGGAACTGCAATATAGTGGCT 59.799 43.478 1.88 0.00 0.00 4.75
4069 5046 6.349300 ACTAACTGGAACTGCAATATAGTGG 58.651 40.000 1.88 0.00 0.00 4.00
4082 5059 5.761165 TGTTGGCTTTAACTAACTGGAAC 57.239 39.130 0.00 0.00 0.00 3.62
4083 5060 6.547880 TCATTGTTGGCTTTAACTAACTGGAA 59.452 34.615 0.00 0.00 0.00 3.53
4112 5089 2.048127 AGTTGCTCGAAGGGCGAC 60.048 61.111 7.29 7.29 45.59 5.19
4114 5091 2.097038 CAGAGTTGCTCGAAGGGCG 61.097 63.158 0.00 0.00 42.69 6.13
4115 5092 1.743252 CCAGAGTTGCTCGAAGGGC 60.743 63.158 0.00 0.00 35.36 5.19
4116 5093 1.743252 GCCAGAGTTGCTCGAAGGG 60.743 63.158 0.00 0.00 35.36 3.95
4117 5094 1.004560 TGCCAGAGTTGCTCGAAGG 60.005 57.895 0.00 0.00 35.36 3.46
4118 5095 0.037882 TCTGCCAGAGTTGCTCGAAG 60.038 55.000 0.00 0.00 35.36 3.79
4132 5109 6.204495 GGAGATGAGATTTTAGTGATTCTGCC 59.796 42.308 0.00 0.00 0.00 4.85
4141 5118 7.601886 CAGCGAATATGGAGATGAGATTTTAGT 59.398 37.037 0.00 0.00 0.00 2.24
4144 5121 6.528321 TCAGCGAATATGGAGATGAGATTTT 58.472 36.000 0.00 0.00 0.00 1.82
4152 5129 3.808618 GCCCTTTCAGCGAATATGGAGAT 60.809 47.826 0.00 0.00 0.00 2.75
4177 5154 4.701956 AGGCTCCATAAATTTTGACACG 57.298 40.909 0.00 0.00 0.00 4.49
4178 5155 7.870445 TGTTTTAGGCTCCATAAATTTTGACAC 59.130 33.333 0.00 0.00 0.00 3.67
4179 5156 7.957002 TGTTTTAGGCTCCATAAATTTTGACA 58.043 30.769 0.00 0.00 0.00 3.58
4180 5157 7.545615 CCTGTTTTAGGCTCCATAAATTTTGAC 59.454 37.037 0.00 0.00 40.38 3.18
4181 5158 7.610865 CCTGTTTTAGGCTCCATAAATTTTGA 58.389 34.615 0.00 0.00 40.38 2.69
4196 5173 5.237344 CTGAGTTTCAGTCACCTGTTTTAGG 59.763 44.000 0.00 0.00 44.61 2.69
4213 5190 7.119846 GCCCAATATTATAGCGAATCTGAGTTT 59.880 37.037 0.00 0.00 0.00 2.66
4232 5209 6.414732 GGTAGATACAATATGCAGCCCAATA 58.585 40.000 0.00 0.00 0.00 1.90
4235 5212 3.306710 CGGTAGATACAATATGCAGCCCA 60.307 47.826 0.00 0.00 0.00 5.36
4239 5216 5.179368 CCCAAACGGTAGATACAATATGCAG 59.821 44.000 0.00 0.00 0.00 4.41
4247 5224 1.832998 GGGTCCCAAACGGTAGATACA 59.167 52.381 1.78 0.00 0.00 2.29
4248 5225 1.832998 TGGGTCCCAAACGGTAGATAC 59.167 52.381 8.65 0.00 0.00 2.24
4249 5226 1.832998 GTGGGTCCCAAACGGTAGATA 59.167 52.381 13.78 0.00 34.18 1.98
4250 5227 0.616891 GTGGGTCCCAAACGGTAGAT 59.383 55.000 13.78 0.00 34.18 1.98
4251 5228 1.482748 GGTGGGTCCCAAACGGTAGA 61.483 60.000 13.78 0.00 34.18 2.59
4252 5229 1.002990 GGTGGGTCCCAAACGGTAG 60.003 63.158 13.78 0.00 34.18 3.18
4256 5233 1.599797 GACAGGTGGGTCCCAAACG 60.600 63.158 13.78 6.15 34.18 3.60
4280 5257 5.860941 TGGAGAAGGTGAATATGTCTCTC 57.139 43.478 0.00 0.00 35.96 3.20
4281 5258 6.627087 TTTGGAGAAGGTGAATATGTCTCT 57.373 37.500 0.00 0.00 35.96 3.10
4311 5288 1.810151 ACTTGAGCAGAGAGAGACGTC 59.190 52.381 7.70 7.70 0.00 4.34
4338 5317 1.343478 GGGAGTGGGAGAGAGGAATCA 60.343 57.143 0.00 0.00 0.00 2.57
4361 5340 2.982130 GGCCACCACACTCGAGAT 59.018 61.111 21.68 3.45 0.00 2.75
4443 5422 3.573772 CTCGTGGAGTTGCGCCTCA 62.574 63.158 14.42 0.00 32.91 3.86


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

AutoCloner maintained by Alex Coulton.