Multiple sequence alignment - TraesCS6B01G212700

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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 TraesCS6B01G212700 chr6B 100.000 4880 0 0 809 5688 281232957 281237836 0.000000e+00 9012
1 TraesCS6B01G212700 chr6B 95.809 692 15 8 5004 5688 281237897 281237213 0.000000e+00 1105
2 TraesCS6B01G212700 chr6B 100.000 382 0 0 1 382 281232149 281232530 0.000000e+00 706
3 TraesCS6B01G212700 chr6B 95.726 351 15 0 5000 5350 530574808 530575158 2.970000e-157 566
4 TraesCS6B01G212700 chr6B 95.625 320 14 0 5369 5688 530575192 530574873 1.090000e-141 514
5 TraesCS6B01G212700 chr6B 97.500 120 3 0 4114 4233 267021893 267021774 7.470000e-49 206
6 TraesCS6B01G212700 chr6D 95.062 3321 147 10 809 4118 157590401 157593715 0.000000e+00 5208
7 TraesCS6B01G212700 chr6D 95.021 723 30 4 4231 4949 157593713 157594433 0.000000e+00 1131
8 TraesCS6B01G212700 chr6D 95.101 347 17 0 5004 5350 335395578 335395924 1.080000e-151 547
9 TraesCS6B01G212700 chr6D 94.340 318 18 0 5371 5688 335395956 335395639 6.620000e-134 488
10 TraesCS6B01G212700 chr6D 92.991 214 7 3 176 382 157590163 157590375 7.160000e-79 305
11 TraesCS6B01G212700 chr6D 95.652 184 6 2 1 182 157589292 157589475 1.550000e-75 294
12 TraesCS6B01G212700 chr6A 94.944 3323 145 11 810 4118 214563255 214559942 0.000000e+00 5184
13 TraesCS6B01G212700 chr6A 97.736 530 7 4 4231 4755 214559944 214559415 0.000000e+00 907
14 TraesCS6B01G212700 chr6A 94.650 243 10 3 1 240 214563627 214563385 1.940000e-99 374
15 TraesCS6B01G212700 chr6A 88.841 233 22 3 4763 4993 214559328 214559098 3.350000e-72 283
16 TraesCS6B01G212700 chr7A 99.713 349 1 0 5002 5350 206924880 206925228 1.730000e-179 640
17 TraesCS6B01G212700 chr7A 99.688 320 1 0 5369 5688 206925262 206924943 2.280000e-163 586
18 TraesCS6B01G212700 chr7A 91.954 348 26 2 5004 5350 145390404 145390750 2.380000e-133 486
19 TraesCS6B01G212700 chr7A 90.654 321 28 2 5369 5688 145390784 145390465 5.270000e-115 425
20 TraesCS6B01G212700 chr5D 99.712 347 1 0 5004 5350 520350676 520351022 2.240000e-178 636
21 TraesCS6B01G212700 chr5D 99.688 320 1 0 5369 5688 520351056 520350737 2.280000e-163 586
22 TraesCS6B01G212700 chr5D 96.721 122 4 0 4116 4237 420228166 420228287 2.690000e-48 204
23 TraesCS6B01G212700 chr5D 94.531 128 5 2 4107 4233 566048414 566048288 4.500000e-46 196
24 TraesCS6B01G212700 chr3D 96.910 356 10 1 4995 5350 47752292 47752646 3.790000e-166 595
25 TraesCS6B01G212700 chr3D 93.103 348 23 1 5004 5350 172223571 172223224 5.080000e-140 508
26 TraesCS6B01G212700 chr3D 97.288 295 7 1 5394 5688 47752655 47752362 3.060000e-137 499
27 TraesCS6B01G212700 chr3D 91.562 320 27 0 5369 5688 172223190 172223509 5.230000e-120 442
28 TraesCS6B01G212700 chr7D 94.236 347 20 0 5004 5350 246148441 246148787 1.090000e-146 531
29 TraesCS6B01G212700 chr7D 93.949 314 19 0 5375 5688 246148815 246148502 5.160000e-130 475
30 TraesCS6B01G212700 chr4D 97.521 121 3 0 4116 4236 234179259 234179139 2.080000e-49 207
31 TraesCS6B01G212700 chr5B 97.500 120 3 0 4114 4233 79817995 79817876 7.470000e-49 206
32 TraesCS6B01G212700 chr5B 96.721 122 4 0 4112 4233 70795776 70795655 2.690000e-48 204
33 TraesCS6B01G212700 chr1B 96.748 123 4 0 4117 4239 389309873 389309751 7.470000e-49 206
34 TraesCS6B01G212700 chr3B 94.574 129 5 2 4117 4245 50423441 50423315 1.250000e-46 198
35 TraesCS6B01G212700 chr3B 92.254 142 7 4 4097 4236 52921905 52922044 1.250000e-46 198


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 TraesCS6B01G212700 chr6B 281232149 281237836 5687 False 4859.0 9012 100.00000 1 5688 2 chr6B.!!$F2 5687
1 TraesCS6B01G212700 chr6B 281237213 281237897 684 True 1105.0 1105 95.80900 5004 5688 1 chr6B.!!$R2 684
2 TraesCS6B01G212700 chr6D 157589292 157594433 5141 False 1734.5 5208 94.68150 1 4949 4 chr6D.!!$F2 4948
3 TraesCS6B01G212700 chr6A 214559098 214563627 4529 True 1687.0 5184 94.04275 1 4993 4 chr6A.!!$R1 4992


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
890 1596 0.321653 ACACTCACCCGAGCCAAATC 60.322 55.0 0.00 0.00 43.66 2.17 F
1603 2323 0.036577 CCAGAACAGGCTCACAGGAG 60.037 60.0 0.00 0.00 44.33 3.69 F
1887 2607 0.843309 TGGAAGACAACAGCCTTGGA 59.157 50.0 0.00 0.00 0.00 3.53 F
3162 3882 0.537188 GCATTCCTGAGTTCCTCGGA 59.463 55.0 1.62 1.96 39.05 4.55 F
4132 4852 0.251297 TTGTACTTCCTCCGTCCGGA 60.251 55.0 0.00 0.00 42.90 5.14 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1887 2607 0.332972 GCCAAGAAGGGATGGTTCCT 59.667 55.000 0.00 0.00 42.20 3.36 R
2430 3150 0.533531 TGCTGCAGTTGGTCAGACTG 60.534 55.000 16.64 0.00 45.64 3.51 R
3279 3999 0.625849 GTTGAGGGATCCCACCACAT 59.374 55.000 32.69 10.96 38.92 3.21 R
4201 4921 0.030369 CCGGAAATACTCGTCGGAGG 59.970 60.000 0.00 0.00 44.93 4.30 R
4961 5767 1.071228 TCCGCATCCTTCAGATCCATG 59.929 52.381 0.00 0.00 30.59 3.66 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
302 1007 1.003545 CCGCCAGCTTTTCATATCACG 60.004 52.381 0.00 0.00 0.00 4.35
355 1060 2.817258 AGTCCTCAGAGAGACGAAACAG 59.183 50.000 0.00 0.00 0.00 3.16
833 1538 2.726912 GCCAAACGACGACGACGA 60.727 61.111 25.15 0.00 42.66 4.20
834 1539 2.980563 GCCAAACGACGACGACGAC 61.981 63.158 25.15 7.02 42.66 4.34
890 1596 0.321653 ACACTCACCCGAGCCAAATC 60.322 55.000 0.00 0.00 43.66 2.17
891 1597 1.026718 CACTCACCCGAGCCAAATCC 61.027 60.000 0.00 0.00 43.66 3.01
898 1604 1.414158 CCGAGCCAAATCCCTCTCTA 58.586 55.000 0.00 0.00 0.00 2.43
900 1606 2.370189 CCGAGCCAAATCCCTCTCTATT 59.630 50.000 0.00 0.00 0.00 1.73
901 1607 3.578716 CCGAGCCAAATCCCTCTCTATTA 59.421 47.826 0.00 0.00 0.00 0.98
902 1608 4.223923 CCGAGCCAAATCCCTCTCTATTAT 59.776 45.833 0.00 0.00 0.00 1.28
903 1609 5.422331 CCGAGCCAAATCCCTCTCTATTATA 59.578 44.000 0.00 0.00 0.00 0.98
904 1610 6.070767 CCGAGCCAAATCCCTCTCTATTATAA 60.071 42.308 0.00 0.00 0.00 0.98
905 1611 7.386851 CGAGCCAAATCCCTCTCTATTATAAA 58.613 38.462 0.00 0.00 0.00 1.40
906 1612 8.043710 CGAGCCAAATCCCTCTCTATTATAAAT 58.956 37.037 0.00 0.00 0.00 1.40
919 1625 9.352191 TCTCTATTATAAATATACCTCTCCCGC 57.648 37.037 0.00 0.00 0.00 6.13
920 1626 9.132923 CTCTATTATAAATATACCTCTCCCGCA 57.867 37.037 0.00 0.00 0.00 5.69
923 1634 1.700955 AATATACCTCTCCCGCACGT 58.299 50.000 0.00 0.00 0.00 4.49
942 1653 1.381165 TACGTATGCTCTCTGCCGCA 61.381 55.000 0.00 0.00 42.00 5.69
1008 1725 3.784719 GGGGCGGCAATGGCAATT 61.785 61.111 12.47 0.00 43.71 2.32
1153 1870 2.811317 CCTTCAGGTCGCTCGTGC 60.811 66.667 0.00 0.00 32.68 5.34
1603 2323 0.036577 CCAGAACAGGCTCACAGGAG 60.037 60.000 0.00 0.00 44.33 3.69
1618 2338 3.797353 GAGGCATCCCTTCCGGCA 61.797 66.667 0.00 0.00 43.12 5.69
1879 2599 1.879380 CGCTCCATTTGGAAGACAACA 59.121 47.619 0.18 0.00 44.91 3.33
1880 2600 2.095567 CGCTCCATTTGGAAGACAACAG 60.096 50.000 0.18 0.00 44.91 3.16
1884 2604 2.629617 CCATTTGGAAGACAACAGCCTT 59.370 45.455 0.00 0.00 39.19 4.35
1887 2607 0.843309 TGGAAGACAACAGCCTTGGA 59.157 50.000 0.00 0.00 0.00 3.53
1950 2670 3.418684 TCCTTAAACCTCCAGAGCAAC 57.581 47.619 0.00 0.00 0.00 4.17
2086 2806 1.480954 CCCTCGCTGAGCTTTACCTAA 59.519 52.381 1.78 0.00 0.00 2.69
2124 2844 1.835927 GCCCTCTGCCACTCTCAGTT 61.836 60.000 0.00 0.00 33.48 3.16
2139 2859 3.325135 TCTCAGTTTTCAACCTCTCCTCC 59.675 47.826 0.00 0.00 0.00 4.30
2289 3009 1.317431 TGTGCAATGCCTCCATGCTC 61.317 55.000 1.53 0.00 0.00 4.26
2428 3148 1.755783 GCTGAATGGGGCTTCCTGG 60.756 63.158 0.00 0.00 36.20 4.45
2460 3180 6.080648 ACCAACTGCAGCAATATGATATTG 57.919 37.500 18.42 18.42 0.00 1.90
2578 3298 4.800914 GCATAGCAGGGACGATAACTGAAT 60.801 45.833 0.00 0.00 34.21 2.57
2666 3386 0.933796 GCATCTCTCGGCAAGCTTAC 59.066 55.000 0.00 0.00 0.00 2.34
2910 3630 3.551890 CGAGTACCATGTATCTTGCACAC 59.448 47.826 0.00 0.00 0.00 3.82
2973 3693 5.186021 TCTCAGGAATCTAGGTGAACTTGAC 59.814 44.000 0.00 0.00 33.84 3.18
2991 3711 6.815089 ACTTGACCTCTCTGACAATATGATC 58.185 40.000 0.00 0.00 0.00 2.92
3072 3792 1.601419 GGAACCATCTCGACGGGACA 61.601 60.000 0.00 0.00 0.00 4.02
3162 3882 0.537188 GCATTCCTGAGTTCCTCGGA 59.463 55.000 1.62 1.96 39.05 4.55
3223 3943 3.568007 TGATTTTGAAGGTGAAGTTCCGG 59.432 43.478 0.00 0.00 0.00 5.14
3272 3992 3.221771 CAACCTCAGTCATGGGAAACAA 58.778 45.455 0.00 0.00 0.00 2.83
3279 3999 4.019411 TCAGTCATGGGAAACAATGCTCTA 60.019 41.667 0.00 0.00 0.00 2.43
3424 4144 7.148983 CCGCAATGTTTGTGTTATGTAAAAGAG 60.149 37.037 0.72 0.00 39.46 2.85
3428 4148 6.734137 TGTTTGTGTTATGTAAAAGAGGCAG 58.266 36.000 0.00 0.00 0.00 4.85
3477 4197 5.440610 ACTCTCCCCAATGACAAATACATC 58.559 41.667 0.00 0.00 0.00 3.06
3727 4447 8.537016 AGGTTATAACAGTGTGCTCAAGTATTA 58.463 33.333 17.16 0.00 0.00 0.98
3732 4452 5.238583 ACAGTGTGCTCAAGTATTAACTCC 58.761 41.667 0.00 0.00 33.75 3.85
3734 4454 4.286032 AGTGTGCTCAAGTATTAACTCCCA 59.714 41.667 0.00 0.00 33.75 4.37
3822 4542 5.221601 ACACAAGCATATCGAGGAAGATGAT 60.222 40.000 0.00 0.00 32.39 2.45
3841 4561 4.711399 TGATGAACCCAAGATGCTAGATG 58.289 43.478 0.00 0.00 0.00 2.90
3949 4669 3.876914 CGACCTCAAGCCAAGCAATATTA 59.123 43.478 0.00 0.00 0.00 0.98
3961 4681 5.333339 CCAAGCAATATTATCCTCGACAACG 60.333 44.000 0.00 0.00 41.26 4.10
4089 4809 0.323360 TTGGTTATGTGGCTCCAGGC 60.323 55.000 0.00 0.00 41.50 4.85
4115 4835 8.910666 CGAGCATAATTCTACTCTCAACTATTG 58.089 37.037 0.00 0.00 0.00 1.90
4116 4836 9.757227 GAGCATAATTCTACTCTCAACTATTGT 57.243 33.333 0.00 0.00 0.00 2.71
4123 4843 8.880991 TTCTACTCTCAACTATTGTACTTCCT 57.119 34.615 0.00 0.00 0.00 3.36
4124 4844 8.508883 TCTACTCTCAACTATTGTACTTCCTC 57.491 38.462 0.00 0.00 0.00 3.71
4125 4845 6.532988 ACTCTCAACTATTGTACTTCCTCC 57.467 41.667 0.00 0.00 0.00 4.30
4126 4846 5.125739 ACTCTCAACTATTGTACTTCCTCCG 59.874 44.000 0.00 0.00 0.00 4.63
4127 4847 5.014858 TCTCAACTATTGTACTTCCTCCGT 58.985 41.667 0.00 0.00 0.00 4.69
4128 4848 5.125097 TCTCAACTATTGTACTTCCTCCGTC 59.875 44.000 0.00 0.00 0.00 4.79
4129 4849 4.159135 TCAACTATTGTACTTCCTCCGTCC 59.841 45.833 0.00 0.00 0.00 4.79
4130 4850 2.686915 ACTATTGTACTTCCTCCGTCCG 59.313 50.000 0.00 0.00 0.00 4.79
4131 4851 0.822164 ATTGTACTTCCTCCGTCCGG 59.178 55.000 0.00 0.00 0.00 5.14
4132 4852 0.251297 TTGTACTTCCTCCGTCCGGA 60.251 55.000 0.00 0.00 42.90 5.14
4133 4853 0.251297 TGTACTTCCTCCGTCCGGAA 60.251 55.000 5.23 0.00 44.66 4.30
4134 4854 0.890683 GTACTTCCTCCGTCCGGAAA 59.109 55.000 5.23 1.47 44.66 3.13
4135 4855 1.479730 GTACTTCCTCCGTCCGGAAAT 59.520 52.381 5.23 0.00 44.66 2.17
4136 4856 1.856629 ACTTCCTCCGTCCGGAAATA 58.143 50.000 5.23 0.00 44.66 1.40
4137 4857 1.479730 ACTTCCTCCGTCCGGAAATAC 59.520 52.381 5.23 0.00 44.66 1.89
4138 4858 1.755380 CTTCCTCCGTCCGGAAATACT 59.245 52.381 5.23 0.00 44.66 2.12
4139 4859 1.856629 TCCTCCGTCCGGAAATACTT 58.143 50.000 5.23 0.00 44.66 2.24
4140 4860 1.479323 TCCTCCGTCCGGAAATACTTG 59.521 52.381 5.23 0.00 44.66 3.16
4141 4861 1.206371 CCTCCGTCCGGAAATACTTGT 59.794 52.381 5.23 0.00 44.66 3.16
4142 4862 2.537401 CTCCGTCCGGAAATACTTGTC 58.463 52.381 5.23 0.00 44.66 3.18
4143 4863 1.135315 TCCGTCCGGAAATACTTGTCG 60.135 52.381 5.23 1.25 42.05 4.35
4144 4864 1.135315 CCGTCCGGAAATACTTGTCGA 60.135 52.381 5.23 0.00 37.50 4.20
4145 4865 2.598589 CGTCCGGAAATACTTGTCGAA 58.401 47.619 5.23 0.00 0.00 3.71
4146 4866 2.597305 CGTCCGGAAATACTTGTCGAAG 59.403 50.000 5.23 0.00 35.07 3.79
4147 4867 3.671433 CGTCCGGAAATACTTGTCGAAGA 60.671 47.826 5.23 0.00 32.98 2.87
4148 4868 4.240096 GTCCGGAAATACTTGTCGAAGAA 58.760 43.478 5.23 0.00 39.69 2.52
4149 4869 4.687483 GTCCGGAAATACTTGTCGAAGAAA 59.313 41.667 5.23 0.00 39.69 2.52
4150 4870 5.350640 GTCCGGAAATACTTGTCGAAGAAAT 59.649 40.000 5.23 0.00 39.69 2.17
4151 4871 5.350365 TCCGGAAATACTTGTCGAAGAAATG 59.650 40.000 0.00 0.00 39.69 2.32
4152 4872 5.022021 CGGAAATACTTGTCGAAGAAATGC 58.978 41.667 0.00 0.00 39.69 3.56
4153 4873 5.390461 CGGAAATACTTGTCGAAGAAATGCA 60.390 40.000 0.00 0.00 39.69 3.96
4154 4874 6.555315 GGAAATACTTGTCGAAGAAATGCAT 58.445 36.000 0.00 0.00 39.69 3.96
4155 4875 7.465379 CGGAAATACTTGTCGAAGAAATGCATA 60.465 37.037 0.00 0.00 39.69 3.14
4156 4876 8.181573 GGAAATACTTGTCGAAGAAATGCATAA 58.818 33.333 0.00 0.00 39.69 1.90
4157 4877 9.554724 GAAATACTTGTCGAAGAAATGCATAAA 57.445 29.630 0.00 0.00 39.69 1.40
4158 4878 9.906660 AAATACTTGTCGAAGAAATGCATAAAA 57.093 25.926 0.00 0.00 39.69 1.52
4159 4879 9.906660 AATACTTGTCGAAGAAATGCATAAAAA 57.093 25.926 0.00 0.00 39.69 1.94
4161 4881 8.231304 ACTTGTCGAAGAAATGCATAAAAATG 57.769 30.769 0.00 0.00 39.69 2.32
4162 4882 8.081633 ACTTGTCGAAGAAATGCATAAAAATGA 58.918 29.630 0.00 0.00 39.69 2.57
4163 4883 8.809159 TTGTCGAAGAAATGCATAAAAATGAA 57.191 26.923 0.00 0.00 39.69 2.57
4164 4884 8.984891 TGTCGAAGAAATGCATAAAAATGAAT 57.015 26.923 0.00 0.00 39.69 2.57
4165 4885 8.862074 TGTCGAAGAAATGCATAAAAATGAATG 58.138 29.630 0.00 0.00 39.69 2.67
4166 4886 7.842721 GTCGAAGAAATGCATAAAAATGAATGC 59.157 33.333 0.00 0.44 43.65 3.56
4205 4925 6.865834 ACATCTAGATACATCCATTCCTCC 57.134 41.667 4.54 0.00 0.00 4.30
4206 4926 5.420421 ACATCTAGATACATCCATTCCTCCG 59.580 44.000 4.54 0.00 0.00 4.63
4207 4927 5.256806 TCTAGATACATCCATTCCTCCGA 57.743 43.478 0.00 0.00 0.00 4.55
4208 4928 5.010933 TCTAGATACATCCATTCCTCCGAC 58.989 45.833 0.00 0.00 0.00 4.79
4209 4929 2.558795 AGATACATCCATTCCTCCGACG 59.441 50.000 0.00 0.00 0.00 5.12
4210 4930 2.061509 TACATCCATTCCTCCGACGA 57.938 50.000 0.00 0.00 0.00 4.20
4211 4931 0.747255 ACATCCATTCCTCCGACGAG 59.253 55.000 0.00 0.00 35.72 4.18
4212 4932 0.747255 CATCCATTCCTCCGACGAGT 59.253 55.000 0.00 0.00 33.93 4.18
4213 4933 1.954382 CATCCATTCCTCCGACGAGTA 59.046 52.381 0.00 0.00 33.93 2.59
4214 4934 2.359981 TCCATTCCTCCGACGAGTAT 57.640 50.000 0.00 0.00 33.93 2.12
4215 4935 2.662866 TCCATTCCTCCGACGAGTATT 58.337 47.619 0.00 0.00 33.93 1.89
4216 4936 3.028850 TCCATTCCTCCGACGAGTATTT 58.971 45.455 0.00 0.00 33.93 1.40
4217 4937 3.067742 TCCATTCCTCCGACGAGTATTTC 59.932 47.826 0.00 0.00 33.93 2.17
4218 4938 3.381949 CATTCCTCCGACGAGTATTTCC 58.618 50.000 0.00 0.00 33.93 3.13
4219 4939 1.019673 TCCTCCGACGAGTATTTCCG 58.980 55.000 0.00 0.00 33.93 4.30
4220 4940 0.030369 CCTCCGACGAGTATTTCCGG 59.970 60.000 0.00 0.00 41.36 5.14
4221 4941 1.019673 CTCCGACGAGTATTTCCGGA 58.980 55.000 0.00 0.00 45.74 5.14
4222 4942 0.734889 TCCGACGAGTATTTCCGGAC 59.265 55.000 1.83 0.00 43.47 4.79
4223 4943 0.590732 CCGACGAGTATTTCCGGACG 60.591 60.000 1.83 5.89 42.49 4.79
4224 4944 0.590732 CGACGAGTATTTCCGGACGG 60.591 60.000 1.83 3.96 0.00 4.79
4225 4945 0.734889 GACGAGTATTTCCGGACGGA 59.265 55.000 1.83 9.76 43.52 4.69
4226 4946 0.737219 ACGAGTATTTCCGGACGGAG 59.263 55.000 13.64 3.15 46.06 4.63
4227 4947 0.030369 CGAGTATTTCCGGACGGAGG 59.970 60.000 13.64 0.00 46.06 4.30
4228 4948 0.388294 GAGTATTTCCGGACGGAGGG 59.612 60.000 13.64 0.00 46.06 4.30
4229 4949 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.000 13.64 4.95 46.06 4.20
4298 5021 7.003402 AGGAAGCACTTATTAAATTTGCCAA 57.997 32.000 0.00 0.00 0.00 4.52
4340 5063 2.094854 GGACTTGGCAATGAAGCTTCAG 60.095 50.000 31.14 20.73 41.08 3.02
4694 5417 4.630069 AGTTTTACGCGCATTAGTGATCTT 59.370 37.500 5.73 0.00 0.00 2.40
4759 5484 2.430248 TGAGGATCATGCATGCAACT 57.570 45.000 26.68 17.02 42.56 3.16
4779 5583 6.646636 CAACTTGGTCGTTTTAACTCTGTAG 58.353 40.000 0.00 0.00 0.00 2.74
4791 5595 8.865001 GTTTTAACTCTGTAGTAAGATGCTGAG 58.135 37.037 0.00 0.00 37.06 3.35
4794 5598 4.887071 ACTCTGTAGTAAGATGCTGAGAGG 59.113 45.833 0.00 0.00 35.44 3.69
4811 5615 1.556911 GAGGTGAAGAGCCTCCATCAA 59.443 52.381 0.00 0.00 45.05 2.57
4841 5645 9.533253 CATTTTAAGGAGTCAACAACAATTCTT 57.467 29.630 0.00 0.00 0.00 2.52
4868 5673 7.028962 TGATTTTTCATATCAACAGGAAAGCG 58.971 34.615 0.00 0.00 31.62 4.68
4881 5686 3.753272 CAGGAAAGCGAAGAAATTCCAGA 59.247 43.478 6.21 0.00 43.03 3.86
4882 5687 4.397417 CAGGAAAGCGAAGAAATTCCAGAT 59.603 41.667 6.21 0.00 43.03 2.90
4961 5767 3.088532 AGTCTCACTGTCTCAGGATGAC 58.911 50.000 1.90 6.11 42.56 3.06
4962 5768 2.822561 GTCTCACTGTCTCAGGATGACA 59.177 50.000 1.90 0.00 42.56 3.58
4971 5777 3.640498 GTCTCAGGATGACATGGATCTGA 59.360 47.826 0.00 2.38 42.56 3.27
4972 5778 4.100653 GTCTCAGGATGACATGGATCTGAA 59.899 45.833 0.00 0.00 42.56 3.02
4993 5799 0.815615 GATGCGGATGGACCCACTTC 60.816 60.000 0.00 0.00 34.64 3.01
4994 5800 1.561769 ATGCGGATGGACCCACTTCA 61.562 55.000 0.00 0.00 34.64 3.02
4995 5801 1.745489 GCGGATGGACCCACTTCAC 60.745 63.158 0.00 0.00 34.64 3.18
4996 5802 1.078426 CGGATGGACCCACTTCACC 60.078 63.158 0.00 0.00 34.64 4.02
4997 5803 1.303282 GGATGGACCCACTTCACCC 59.697 63.158 0.00 0.00 0.00 4.61
4998 5804 1.208165 GGATGGACCCACTTCACCCT 61.208 60.000 0.00 0.00 0.00 4.34
4999 5805 0.698818 GATGGACCCACTTCACCCTT 59.301 55.000 0.00 0.00 0.00 3.95
5000 5806 0.405585 ATGGACCCACTTCACCCTTG 59.594 55.000 0.00 0.00 0.00 3.61
5001 5807 1.074951 GGACCCACTTCACCCTTGG 59.925 63.158 0.00 0.00 0.00 3.61
5002 5808 1.603739 GACCCACTTCACCCTTGGC 60.604 63.158 0.00 0.00 0.00 4.52
5350 6156 2.536365 CGCCGTATGACTGTACACATT 58.464 47.619 4.47 0.00 0.00 2.71
5351 6157 2.281498 CGCCGTATGACTGTACACATTG 59.719 50.000 4.47 0.00 0.00 2.82
5352 6158 3.259064 GCCGTATGACTGTACACATTGT 58.741 45.455 4.47 0.00 0.00 2.71
5366 6172 4.242475 ACACATTGTACAGTCATACACCG 58.758 43.478 0.00 0.00 34.79 4.94
5367 6173 4.242475 CACATTGTACAGTCATACACCGT 58.758 43.478 0.00 0.00 34.79 4.83
5368 6174 4.688879 CACATTGTACAGTCATACACCGTT 59.311 41.667 0.00 0.00 34.79 4.44
5369 6175 4.927425 ACATTGTACAGTCATACACCGTTC 59.073 41.667 0.00 0.00 34.79 3.95
5370 6176 4.587584 TTGTACAGTCATACACCGTTCA 57.412 40.909 0.00 0.00 34.79 3.18
5371 6177 4.587584 TGTACAGTCATACACCGTTCAA 57.412 40.909 0.00 0.00 29.97 2.69
5372 6178 4.552355 TGTACAGTCATACACCGTTCAAG 58.448 43.478 0.00 0.00 29.97 3.02
5373 6179 3.746045 ACAGTCATACACCGTTCAAGT 57.254 42.857 0.00 0.00 0.00 3.16
5374 6180 3.650139 ACAGTCATACACCGTTCAAGTC 58.350 45.455 0.00 0.00 0.00 3.01
5375 6181 3.321111 ACAGTCATACACCGTTCAAGTCT 59.679 43.478 0.00 0.00 0.00 3.24
5376 6182 4.521639 ACAGTCATACACCGTTCAAGTCTA 59.478 41.667 0.00 0.00 0.00 2.59
5377 6183 5.185249 ACAGTCATACACCGTTCAAGTCTAT 59.815 40.000 0.00 0.00 0.00 1.98
5378 6184 6.100004 CAGTCATACACCGTTCAAGTCTATT 58.900 40.000 0.00 0.00 0.00 1.73
5379 6185 6.590292 CAGTCATACACCGTTCAAGTCTATTT 59.410 38.462 0.00 0.00 0.00 1.40
5380 6186 7.117812 CAGTCATACACCGTTCAAGTCTATTTT 59.882 37.037 0.00 0.00 0.00 1.82
5381 6187 7.331193 AGTCATACACCGTTCAAGTCTATTTTC 59.669 37.037 0.00 0.00 0.00 2.29
5382 6188 7.331193 GTCATACACCGTTCAAGTCTATTTTCT 59.669 37.037 0.00 0.00 0.00 2.52
5383 6189 5.924475 ACACCGTTCAAGTCTATTTTCTG 57.076 39.130 0.00 0.00 0.00 3.02
5384 6190 4.213482 ACACCGTTCAAGTCTATTTTCTGC 59.787 41.667 0.00 0.00 0.00 4.26
5385 6191 3.432252 ACCGTTCAAGTCTATTTTCTGCG 59.568 43.478 0.00 0.00 0.00 5.18
5386 6192 3.408150 CGTTCAAGTCTATTTTCTGCGC 58.592 45.455 0.00 0.00 0.00 6.09
5387 6193 3.123621 CGTTCAAGTCTATTTTCTGCGCT 59.876 43.478 9.73 0.00 0.00 5.92
5398 6204 2.357327 TTCTGCGCTTGTACGTACAT 57.643 45.000 27.82 0.00 35.89 2.29
5399 6205 2.357327 TCTGCGCTTGTACGTACATT 57.643 45.000 27.82 0.00 35.89 2.71
5400 6206 2.679450 TCTGCGCTTGTACGTACATTT 58.321 42.857 27.82 0.00 35.89 2.32
5401 6207 3.061322 TCTGCGCTTGTACGTACATTTT 58.939 40.909 27.82 0.00 35.89 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
172 176 0.249489 CCTATCGCCGTCTTCCCTTG 60.249 60.000 0.00 0.00 0.00 3.61
252 953 4.653806 TGTTTGTTTCGGCAAAAGTTTG 57.346 36.364 0.00 0.00 39.65 2.93
253 954 5.674933 TTTGTTTGTTTCGGCAAAAGTTT 57.325 30.435 0.00 0.00 39.65 2.66
302 1007 0.386113 GCCATGAGTAGTCGAGGTCC 59.614 60.000 0.00 0.00 0.00 4.46
355 1060 3.272334 GTGATGCGATCCGTGGCC 61.272 66.667 0.00 0.00 0.00 5.36
898 1604 6.154021 ACGTGCGGGAGAGGTATATTTATAAT 59.846 38.462 0.00 0.00 0.00 1.28
900 1606 5.012239 ACGTGCGGGAGAGGTATATTTATA 58.988 41.667 0.00 0.00 0.00 0.98
901 1607 3.830755 ACGTGCGGGAGAGGTATATTTAT 59.169 43.478 0.00 0.00 0.00 1.40
902 1608 3.225104 ACGTGCGGGAGAGGTATATTTA 58.775 45.455 0.00 0.00 0.00 1.40
903 1609 2.037144 ACGTGCGGGAGAGGTATATTT 58.963 47.619 0.00 0.00 0.00 1.40
904 1610 1.700955 ACGTGCGGGAGAGGTATATT 58.299 50.000 0.00 0.00 0.00 1.28
905 1611 2.157738 GTACGTGCGGGAGAGGTATAT 58.842 52.381 0.00 0.00 0.00 0.86
906 1612 1.597742 GTACGTGCGGGAGAGGTATA 58.402 55.000 0.00 0.00 0.00 1.47
907 1613 1.442526 CGTACGTGCGGGAGAGGTAT 61.443 60.000 18.81 0.00 0.00 2.73
908 1614 2.108514 CGTACGTGCGGGAGAGGTA 61.109 63.158 18.81 0.00 0.00 3.08
909 1615 2.803155 TACGTACGTGCGGGAGAGGT 62.803 60.000 30.25 9.50 35.98 3.85
910 1616 1.442526 ATACGTACGTGCGGGAGAGG 61.443 60.000 30.25 0.48 35.98 3.69
911 1617 0.316772 CATACGTACGTGCGGGAGAG 60.317 60.000 30.25 10.82 35.98 3.20
912 1618 1.723273 CATACGTACGTGCGGGAGA 59.277 57.895 30.25 9.30 35.98 3.71
913 1619 1.942712 GCATACGTACGTGCGGGAG 60.943 63.158 30.25 18.10 35.98 4.30
914 1620 2.102749 GCATACGTACGTGCGGGA 59.897 61.111 30.25 17.20 35.98 5.14
917 1623 0.027716 AGAGAGCATACGTACGTGCG 59.972 55.000 30.25 24.57 45.69 5.34
918 1624 1.467875 CAGAGAGCATACGTACGTGC 58.532 55.000 30.25 24.60 41.57 5.34
919 1625 1.467875 GCAGAGAGCATACGTACGTG 58.532 55.000 30.25 15.95 44.79 4.49
920 1626 3.920144 GCAGAGAGCATACGTACGT 57.080 52.632 25.98 25.98 44.79 3.57
942 1653 1.434188 TTGTGGAGTGTGGACTGGAT 58.566 50.000 0.00 0.00 30.16 3.41
1018 1735 3.839432 GGCGACGAGAAGGAGGGG 61.839 72.222 0.00 0.00 0.00 4.79
1104 1821 4.136511 TAATCCGCGACGCTGGCA 62.137 61.111 19.02 10.79 0.00 4.92
1421 2141 1.837051 TCGCTGAGGTTGAGGTGGT 60.837 57.895 0.00 0.00 0.00 4.16
1479 2199 3.123620 GTCTTGAGCCGCCTGCAG 61.124 66.667 6.78 6.78 44.83 4.41
1493 2213 2.203640 TGTGGAGCAGGACGGTCT 60.204 61.111 8.23 0.00 42.06 3.85
1618 2338 4.814294 GTTGACGAGGCCGCCGAT 62.814 66.667 23.79 10.47 39.95 4.18
1782 2502 3.991536 GAAGGCGGTGAGAGCGGTC 62.992 68.421 6.48 6.48 39.82 4.79
1887 2607 0.332972 GCCAAGAAGGGATGGTTCCT 59.667 55.000 0.00 0.00 42.20 3.36
1896 2616 0.681243 GGTTGCCTAGCCAAGAAGGG 60.681 60.000 0.00 0.00 38.09 3.95
2040 2760 4.418328 TTCCCAATGGCGTCCGGG 62.418 66.667 0.00 7.67 40.32 5.73
2086 2806 3.084786 GGCCTTCTAGCTCATTGTTGTT 58.915 45.455 0.00 0.00 0.00 2.83
2124 2844 2.639839 CTCAAGGGAGGAGAGGTTGAAA 59.360 50.000 0.00 0.00 37.51 2.69
2190 2910 1.447663 CATCGTGTCGCCCATGTCA 60.448 57.895 0.00 0.00 0.00 3.58
2289 3009 4.641396 TGTTTACTGTCTGAACCATCTGG 58.359 43.478 0.00 0.00 42.17 3.86
2322 3042 2.579201 CACTGCGGGATCGTTCCT 59.421 61.111 12.19 0.00 42.20 3.36
2428 3148 1.227943 TGCAGTTGGTCAGACTGGC 60.228 57.895 1.81 0.00 43.63 4.85
2430 3150 0.533531 TGCTGCAGTTGGTCAGACTG 60.534 55.000 16.64 0.00 45.64 3.51
2460 3180 3.058224 GCTTGTTGTCACTAACATCCACC 60.058 47.826 0.00 0.00 40.00 4.61
2578 3298 2.235402 GGTTGATGAAGTTCCCTACCGA 59.765 50.000 0.00 0.00 0.00 4.69
2581 3301 3.263425 TCCAGGTTGATGAAGTTCCCTAC 59.737 47.826 0.00 0.07 0.00 3.18
2611 3331 6.040166 CCCTGGAGAAGATTATTTTCCATGTG 59.960 42.308 3.98 0.00 37.32 3.21
2666 3386 3.121944 CAGAGACAACCGATTCAACTTCG 59.878 47.826 0.00 0.00 36.38 3.79
2718 3438 4.365514 TGTAAGATTTCCAAGAGCCACA 57.634 40.909 0.00 0.00 0.00 4.17
2910 3630 3.304928 GCAAAGTCCCAGTCAGTGAATTG 60.305 47.826 0.00 0.00 0.00 2.32
2973 3693 5.774184 TCCTGAGATCATATTGTCAGAGAGG 59.226 44.000 8.55 0.00 39.04 3.69
3009 3729 3.054361 AGCTTCGACACTCCCCAATATTT 60.054 43.478 0.00 0.00 0.00 1.40
3072 3792 2.674796 GTCCTAGTGACAGCGGAATT 57.325 50.000 6.51 0.00 43.85 2.17
3162 3882 4.373156 ACTAGCAAGACCTTTCATGGTT 57.627 40.909 0.00 0.00 41.00 3.67
3272 3992 1.701847 GGATCCCACCACATAGAGCAT 59.298 52.381 0.00 0.00 0.00 3.79
3279 3999 0.625849 GTTGAGGGATCCCACCACAT 59.374 55.000 32.69 10.96 38.92 3.21
3424 4144 1.742268 CTTTGCTCTTCTAAGCCTGCC 59.258 52.381 0.00 0.00 41.77 4.85
3477 4197 5.338365 GCCAATTCAGCATAAGAAACTCTG 58.662 41.667 0.00 0.00 0.00 3.35
3727 4447 1.705997 AAGTCGCCACCTTGGGAGTT 61.706 55.000 0.00 0.00 38.19 3.01
3732 4452 1.237285 CCTTGAAGTCGCCACCTTGG 61.237 60.000 0.00 0.00 41.55 3.61
3734 4454 1.600916 GCCTTGAAGTCGCCACCTT 60.601 57.895 0.00 0.00 0.00 3.50
3822 4542 3.519107 TGACATCTAGCATCTTGGGTTCA 59.481 43.478 0.00 0.00 0.00 3.18
3841 4561 5.877012 TGGCTATCTGAAGTCTTTCAATGAC 59.123 40.000 0.00 0.00 42.48 3.06
3949 4669 0.895530 ACCATGTCGTTGTCGAGGAT 59.104 50.000 0.00 0.00 46.96 3.24
4089 4809 8.910666 CAATAGTTGAGAGTAGAATTATGCTCG 58.089 37.037 11.74 0.00 37.05 5.03
4115 4835 2.571548 TTCCGGACGGAGGAAGTAC 58.428 57.895 13.64 0.00 46.06 2.73
4119 4839 1.856629 AGTATTTCCGGACGGAGGAA 58.143 50.000 13.64 6.93 46.06 3.36
4120 4840 1.479323 CAAGTATTTCCGGACGGAGGA 59.521 52.381 13.64 7.39 46.06 3.71
4121 4841 1.206371 ACAAGTATTTCCGGACGGAGG 59.794 52.381 13.64 0.00 46.06 4.30
4122 4842 2.537401 GACAAGTATTTCCGGACGGAG 58.463 52.381 13.64 3.15 46.06 4.63
4123 4843 1.135315 CGACAAGTATTTCCGGACGGA 60.135 52.381 1.83 9.76 43.52 4.69
4124 4844 1.135315 TCGACAAGTATTTCCGGACGG 60.135 52.381 1.83 3.96 0.00 4.79
4125 4845 2.267188 TCGACAAGTATTTCCGGACG 57.733 50.000 1.83 0.27 0.00 4.79
4126 4846 3.841643 TCTTCGACAAGTATTTCCGGAC 58.158 45.455 1.83 0.00 0.00 4.79
4127 4847 4.524316 TTCTTCGACAAGTATTTCCGGA 57.476 40.909 0.00 0.00 0.00 5.14
4128 4848 5.560148 CATTTCTTCGACAAGTATTTCCGG 58.440 41.667 0.00 0.00 0.00 5.14
4129 4849 5.022021 GCATTTCTTCGACAAGTATTTCCG 58.978 41.667 0.00 0.00 0.00 4.30
4130 4850 5.938322 TGCATTTCTTCGACAAGTATTTCC 58.062 37.500 0.00 0.00 0.00 3.13
4131 4851 9.554724 TTTATGCATTTCTTCGACAAGTATTTC 57.445 29.630 3.54 0.00 0.00 2.17
4132 4852 9.906660 TTTTATGCATTTCTTCGACAAGTATTT 57.093 25.926 3.54 0.00 0.00 1.40
4133 4853 9.906660 TTTTTATGCATTTCTTCGACAAGTATT 57.093 25.926 3.54 0.00 0.00 1.89
4135 4855 9.340695 CATTTTTATGCATTTCTTCGACAAGTA 57.659 29.630 3.54 0.00 0.00 2.24
4136 4856 8.081633 TCATTTTTATGCATTTCTTCGACAAGT 58.918 29.630 3.54 0.00 0.00 3.16
4137 4857 8.451687 TCATTTTTATGCATTTCTTCGACAAG 57.548 30.769 3.54 0.00 0.00 3.16
4138 4858 8.809159 TTCATTTTTATGCATTTCTTCGACAA 57.191 26.923 3.54 0.00 0.00 3.18
4139 4859 8.862074 CATTCATTTTTATGCATTTCTTCGACA 58.138 29.630 3.54 0.00 0.00 4.35
4140 4860 7.842721 GCATTCATTTTTATGCATTTCTTCGAC 59.157 33.333 3.54 0.00 44.99 4.20
4141 4861 7.897920 GCATTCATTTTTATGCATTTCTTCGA 58.102 30.769 3.54 0.00 44.99 3.71
4179 4899 8.986991 GGAGGAATGGATGTATCTAGATGTATT 58.013 37.037 15.79 6.57 0.00 1.89
4180 4900 7.286546 CGGAGGAATGGATGTATCTAGATGTAT 59.713 40.741 15.79 9.11 0.00 2.29
4181 4901 6.603599 CGGAGGAATGGATGTATCTAGATGTA 59.396 42.308 15.79 4.44 0.00 2.29
4182 4902 5.420421 CGGAGGAATGGATGTATCTAGATGT 59.580 44.000 15.79 1.25 0.00 3.06
4183 4903 5.654209 TCGGAGGAATGGATGTATCTAGATG 59.346 44.000 15.79 0.00 0.00 2.90
4184 4904 5.654650 GTCGGAGGAATGGATGTATCTAGAT 59.345 44.000 10.73 10.73 0.00 1.98
4185 4905 5.010933 GTCGGAGGAATGGATGTATCTAGA 58.989 45.833 0.00 0.00 0.00 2.43
4186 4906 4.142578 CGTCGGAGGAATGGATGTATCTAG 60.143 50.000 0.00 0.00 0.00 2.43
4187 4907 3.756963 CGTCGGAGGAATGGATGTATCTA 59.243 47.826 0.00 0.00 0.00 1.98
4188 4908 2.558795 CGTCGGAGGAATGGATGTATCT 59.441 50.000 0.00 0.00 0.00 1.98
4189 4909 2.557056 TCGTCGGAGGAATGGATGTATC 59.443 50.000 0.00 0.00 0.00 2.24
4190 4910 2.558795 CTCGTCGGAGGAATGGATGTAT 59.441 50.000 1.73 0.00 36.61 2.29
4191 4911 1.954382 CTCGTCGGAGGAATGGATGTA 59.046 52.381 1.73 0.00 36.61 2.29
4192 4912 0.747255 CTCGTCGGAGGAATGGATGT 59.253 55.000 1.73 0.00 36.61 3.06
4193 4913 0.747255 ACTCGTCGGAGGAATGGATG 59.253 55.000 1.73 0.00 44.93 3.51
4194 4914 2.359981 TACTCGTCGGAGGAATGGAT 57.640 50.000 1.73 0.00 44.93 3.41
4195 4915 2.359981 ATACTCGTCGGAGGAATGGA 57.640 50.000 1.73 0.00 44.93 3.41
4196 4916 3.381949 GAAATACTCGTCGGAGGAATGG 58.618 50.000 1.73 0.00 44.93 3.16
4197 4917 3.381949 GGAAATACTCGTCGGAGGAATG 58.618 50.000 1.73 0.00 44.93 2.67
4198 4918 2.034305 CGGAAATACTCGTCGGAGGAAT 59.966 50.000 1.73 0.00 44.93 3.01
4199 4919 1.402968 CGGAAATACTCGTCGGAGGAA 59.597 52.381 1.73 0.00 44.93 3.36
4200 4920 1.019673 CGGAAATACTCGTCGGAGGA 58.980 55.000 0.00 0.00 44.93 3.71
4201 4921 0.030369 CCGGAAATACTCGTCGGAGG 59.970 60.000 0.00 0.00 44.93 4.30
4202 4922 1.019673 TCCGGAAATACTCGTCGGAG 58.980 55.000 0.00 0.00 43.84 4.63
4203 4923 0.734889 GTCCGGAAATACTCGTCGGA 59.265 55.000 5.23 0.00 46.06 4.55
4204 4924 0.590732 CGTCCGGAAATACTCGTCGG 60.591 60.000 5.23 0.00 41.80 4.79
4205 4925 0.590732 CCGTCCGGAAATACTCGTCG 60.591 60.000 5.23 1.25 37.50 5.12
4206 4926 0.734889 TCCGTCCGGAAATACTCGTC 59.265 55.000 5.23 0.00 42.05 4.20
4207 4927 0.737219 CTCCGTCCGGAAATACTCGT 59.263 55.000 5.23 0.00 44.66 4.18
4208 4928 0.030369 CCTCCGTCCGGAAATACTCG 59.970 60.000 5.23 3.90 44.66 4.18
4209 4929 0.388294 CCCTCCGTCCGGAAATACTC 59.612 60.000 5.23 0.00 44.66 2.59
4210 4930 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.00 44.66 2.12
4211 4931 0.388294 CTCCCTCCGTCCGGAAATAC 59.612 60.000 5.23 0.00 44.66 1.89
4212 4932 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.00 44.66 1.40
4213 4933 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
4214 4934 0.682209 CTACTCCCTCCGTCCGGAAA 60.682 60.000 5.23 0.00 44.66 3.13
4215 4935 1.077212 CTACTCCCTCCGTCCGGAA 60.077 63.158 5.23 0.00 44.66 4.30
4216 4936 0.982852 TACTACTCCCTCCGTCCGGA 60.983 60.000 0.00 0.00 42.90 5.14
4217 4937 0.110104 ATACTACTCCCTCCGTCCGG 59.890 60.000 0.00 0.00 0.00 5.14
4218 4938 1.607628 CAATACTACTCCCTCCGTCCG 59.392 57.143 0.00 0.00 0.00 4.79
4219 4939 2.664015 ACAATACTACTCCCTCCGTCC 58.336 52.381 0.00 0.00 0.00 4.79
4220 4940 3.737355 GCAACAATACTACTCCCTCCGTC 60.737 52.174 0.00 0.00 0.00 4.79
4221 4941 2.167900 GCAACAATACTACTCCCTCCGT 59.832 50.000 0.00 0.00 0.00 4.69
4222 4942 2.167693 TGCAACAATACTACTCCCTCCG 59.832 50.000 0.00 0.00 0.00 4.63
4223 4943 3.906720 TGCAACAATACTACTCCCTCC 57.093 47.619 0.00 0.00 0.00 4.30
4224 4944 5.880332 TCAAATGCAACAATACTACTCCCTC 59.120 40.000 0.00 0.00 0.00 4.30
4225 4945 5.815581 TCAAATGCAACAATACTACTCCCT 58.184 37.500 0.00 0.00 0.00 4.20
4226 4946 6.699575 ATCAAATGCAACAATACTACTCCC 57.300 37.500 0.00 0.00 0.00 4.30
4227 4947 8.986477 AAAATCAAATGCAACAATACTACTCC 57.014 30.769 0.00 0.00 0.00 3.85
4229 4949 9.979578 TGAAAAATCAAATGCAACAATACTACT 57.020 25.926 0.00 0.00 0.00 2.57
4340 5063 2.169352 AGCTGTAGACATCACCATGGAC 59.831 50.000 21.47 3.60 33.82 4.02
4694 5417 7.953005 TCTATATTTTGCCAATTCACCAAGA 57.047 32.000 0.00 0.00 0.00 3.02
4755 5480 5.479716 ACAGAGTTAAAACGACCAAGTTG 57.520 39.130 0.00 0.00 34.14 3.16
4756 5481 6.343703 ACTACAGAGTTAAAACGACCAAGTT 58.656 36.000 0.00 0.00 30.91 2.66
4757 5482 5.910614 ACTACAGAGTTAAAACGACCAAGT 58.089 37.500 0.00 0.00 28.61 3.16
4758 5483 7.864379 TCTTACTACAGAGTTAAAACGACCAAG 59.136 37.037 0.00 0.00 37.10 3.61
4759 5484 7.715657 TCTTACTACAGAGTTAAAACGACCAA 58.284 34.615 0.00 0.00 37.10 3.67
4779 5583 4.681744 CTCTTCACCTCTCAGCATCTTAC 58.318 47.826 0.00 0.00 0.00 2.34
4794 5598 2.363683 CCTTTGATGGAGGCTCTTCAC 58.636 52.381 15.23 4.72 0.00 3.18
4811 5615 5.362430 TGTTGTTGACTCCTTAAAATGCCTT 59.638 36.000 0.00 0.00 0.00 4.35
4841 5645 9.206870 GCTTTCCTGTTGATATGAAAAATCAAA 57.793 29.630 0.39 0.00 43.12 2.69
4853 5657 6.128007 GGAATTTCTTCGCTTTCCTGTTGATA 60.128 38.462 0.00 0.00 35.74 2.15
4854 5658 5.335976 GGAATTTCTTCGCTTTCCTGTTGAT 60.336 40.000 0.00 0.00 35.74 2.57
4857 5662 3.888930 TGGAATTTCTTCGCTTTCCTGTT 59.111 39.130 0.00 0.00 38.73 3.16
4868 5673 9.838339 TCAGTTCCTTATATCTGGAATTTCTTC 57.162 33.333 11.12 0.83 43.25 2.87
4961 5767 1.071228 TCCGCATCCTTCAGATCCATG 59.929 52.381 0.00 0.00 30.59 3.66
4962 5768 1.427809 TCCGCATCCTTCAGATCCAT 58.572 50.000 0.00 0.00 30.59 3.41
4971 5777 2.000701 TGGGTCCATCCGCATCCTT 61.001 57.895 0.00 0.00 37.00 3.36
4972 5778 2.366837 TGGGTCCATCCGCATCCT 60.367 61.111 0.00 0.00 37.00 3.24
4996 5802 3.117512 ACCATTTACATCCCTAGCCAAGG 60.118 47.826 0.00 0.00 46.09 3.61
4997 5803 4.170468 ACCATTTACATCCCTAGCCAAG 57.830 45.455 0.00 0.00 0.00 3.61
4998 5804 4.443739 CGTACCATTTACATCCCTAGCCAA 60.444 45.833 0.00 0.00 0.00 4.52
4999 5805 3.070446 CGTACCATTTACATCCCTAGCCA 59.930 47.826 0.00 0.00 0.00 4.75
5000 5806 3.556423 CCGTACCATTTACATCCCTAGCC 60.556 52.174 0.00 0.00 0.00 3.93
5001 5807 3.322828 TCCGTACCATTTACATCCCTAGC 59.677 47.826 0.00 0.00 0.00 3.42
5002 5808 5.740290 ATCCGTACCATTTACATCCCTAG 57.260 43.478 0.00 0.00 0.00 3.02
5350 6156 4.038282 ACTTGAACGGTGTATGACTGTACA 59.962 41.667 0.00 0.00 43.96 2.90
5351 6157 4.553323 ACTTGAACGGTGTATGACTGTAC 58.447 43.478 0.00 0.00 43.96 2.90
5352 6158 4.521639 AGACTTGAACGGTGTATGACTGTA 59.478 41.667 0.00 0.00 43.96 2.74
5354 6160 3.914312 AGACTTGAACGGTGTATGACTG 58.086 45.455 0.00 0.00 36.94 3.51
5355 6161 5.916661 ATAGACTTGAACGGTGTATGACT 57.083 39.130 0.00 0.00 0.00 3.41
5356 6162 6.963049 AAATAGACTTGAACGGTGTATGAC 57.037 37.500 0.00 0.00 0.00 3.06
5357 6163 7.330946 CAGAAAATAGACTTGAACGGTGTATGA 59.669 37.037 0.00 0.00 0.00 2.15
5358 6164 7.456253 CAGAAAATAGACTTGAACGGTGTATG 58.544 38.462 0.00 0.00 0.00 2.39
5359 6165 6.092259 GCAGAAAATAGACTTGAACGGTGTAT 59.908 38.462 0.00 0.00 0.00 2.29
5360 6166 5.407387 GCAGAAAATAGACTTGAACGGTGTA 59.593 40.000 0.00 0.00 0.00 2.90
5361 6167 4.213482 GCAGAAAATAGACTTGAACGGTGT 59.787 41.667 0.00 0.00 0.00 4.16
5362 6168 4.666655 CGCAGAAAATAGACTTGAACGGTG 60.667 45.833 0.00 0.00 0.00 4.94
5363 6169 3.432252 CGCAGAAAATAGACTTGAACGGT 59.568 43.478 0.00 0.00 0.00 4.83
5364 6170 3.725010 GCGCAGAAAATAGACTTGAACGG 60.725 47.826 0.30 0.00 0.00 4.44
5365 6171 3.123621 AGCGCAGAAAATAGACTTGAACG 59.876 43.478 11.47 0.00 0.00 3.95
5366 6172 4.670227 AGCGCAGAAAATAGACTTGAAC 57.330 40.909 11.47 0.00 0.00 3.18
5367 6173 4.515191 ACAAGCGCAGAAAATAGACTTGAA 59.485 37.500 11.47 0.00 37.17 2.69
5368 6174 4.065088 ACAAGCGCAGAAAATAGACTTGA 58.935 39.130 11.47 0.00 37.17 3.02
5369 6175 4.410492 ACAAGCGCAGAAAATAGACTTG 57.590 40.909 11.47 2.82 39.09 3.16
5370 6176 4.091509 CGTACAAGCGCAGAAAATAGACTT 59.908 41.667 11.47 0.00 0.00 3.01
5371 6177 3.612860 CGTACAAGCGCAGAAAATAGACT 59.387 43.478 11.47 0.00 0.00 3.24
5372 6178 3.367025 ACGTACAAGCGCAGAAAATAGAC 59.633 43.478 11.47 0.00 34.88 2.59
5373 6179 3.581755 ACGTACAAGCGCAGAAAATAGA 58.418 40.909 11.47 0.00 34.88 1.98
5374 6180 3.991605 ACGTACAAGCGCAGAAAATAG 57.008 42.857 11.47 0.00 34.88 1.73
5375 6181 4.236147 TGTACGTACAAGCGCAGAAAATA 58.764 39.130 25.54 0.00 32.40 1.40
5376 6182 3.061322 TGTACGTACAAGCGCAGAAAAT 58.939 40.909 25.54 0.00 32.40 1.82
5377 6183 2.471818 TGTACGTACAAGCGCAGAAAA 58.528 42.857 25.54 0.00 32.40 2.29
5378 6184 2.137129 TGTACGTACAAGCGCAGAAA 57.863 45.000 25.54 0.00 32.40 2.52
5379 6185 2.357327 ATGTACGTACAAGCGCAGAA 57.643 45.000 30.46 5.79 39.99 3.02
5380 6186 2.357327 AATGTACGTACAAGCGCAGA 57.643 45.000 30.46 6.54 39.99 4.26
5381 6187 3.449322 AAAATGTACGTACAAGCGCAG 57.551 42.857 30.46 3.78 39.99 5.18
5382 6188 4.389382 ACATAAAATGTACGTACAAGCGCA 59.611 37.500 30.46 15.73 42.78 6.09
5383 6189 4.721977 CACATAAAATGTACGTACAAGCGC 59.278 41.667 30.46 0.00 42.70 5.92
5384 6190 5.849858 ACACATAAAATGTACGTACAAGCG 58.150 37.500 30.46 17.71 42.70 4.68
5398 6204 4.563580 CGCCGTATGACTGTACACATAAAA 59.436 41.667 7.54 0.00 32.07 1.52
5399 6205 4.106909 CGCCGTATGACTGTACACATAAA 58.893 43.478 7.54 0.00 32.07 1.40
5400 6206 3.489568 CCGCCGTATGACTGTACACATAA 60.490 47.826 7.54 0.00 32.07 1.90
5401 6207 2.033675 CCGCCGTATGACTGTACACATA 59.966 50.000 0.00 0.00 0.00 2.29



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

AutoCloner maintained by Alex Coulton.