Multiple sequence alignment - TraesCS6B01G249200

Loading Multiple Alignment...

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 TraesCS6B01G249200 chr6B 100.000 5588 0 0 1 5588 447108792 447114379 0.000000e+00 10320.0
1 TraesCS6B01G249200 chr6B 90.299 402 33 5 4 400 567118417 567118817 6.420000e-144 521.0
2 TraesCS6B01G249200 chr6B 89.250 400 40 3 4 401 142948970 142949368 1.080000e-136 497.0
3 TraesCS6B01G249200 chr6B 98.684 76 1 0 2646 2721 447110204 447110279 9.760000e-28 135.0
4 TraesCS6B01G249200 chr6B 98.684 76 1 0 1413 1488 447111437 447111512 9.760000e-28 135.0
5 TraesCS6B01G249200 chr6B 91.071 56 4 1 5063 5117 586040403 586040348 2.160000e-09 75.0
6 TraesCS6B01G249200 chr6D 98.319 2082 35 0 2742 4823 286626796 286628877 0.000000e+00 3651.0
7 TraesCS6B01G249200 chr6D 94.799 2038 66 4 619 2641 286624780 286626792 0.000000e+00 3140.0
8 TraesCS6B01G249200 chr6D 97.886 473 6 1 5116 5588 286629057 286629525 0.000000e+00 815.0
9 TraesCS6B01G249200 chr6D 92.574 404 27 3 1 402 286265191 286265593 1.350000e-160 577.0
10 TraesCS6B01G249200 chr6D 89.250 400 41 2 4 401 345594384 345593985 3.010000e-137 499.0
11 TraesCS6B01G249200 chr6D 92.411 224 13 3 404 624 286267027 286267249 3.250000e-82 316.0
12 TraesCS6B01G249200 chr6D 97.268 183 4 1 4892 5073 286628876 286629058 5.440000e-80 309.0
13 TraesCS6B01G249200 chr6D 96.053 76 3 0 2646 2721 286625579 286625654 2.110000e-24 124.0
14 TraesCS6B01G249200 chr6A 97.632 1858 35 2 2966 4823 408033079 408034927 0.000000e+00 3179.0
15 TraesCS6B01G249200 chr6A 96.844 1901 51 2 749 2641 408030922 408032821 0.000000e+00 3169.0
16 TraesCS6B01G249200 chr6A 92.060 403 29 3 2 402 408018334 408018735 1.050000e-156 564.0
17 TraesCS6B01G249200 chr6A 96.429 280 8 1 5306 5585 408035426 408035703 1.420000e-125 460.0
18 TraesCS6B01G249200 chr6A 88.483 356 28 4 404 756 408020169 408020514 8.660000e-113 418.0
19 TraesCS6B01G249200 chr6A 96.698 212 6 1 2742 2953 408032825 408033035 8.910000e-93 351.0
20 TraesCS6B01G249200 chr6A 93.158 190 4 5 5116 5305 408035088 408035268 2.570000e-68 270.0
21 TraesCS6B01G249200 chr6A 85.165 182 9 3 4892 5073 408034926 408035089 2.680000e-38 171.0
22 TraesCS6B01G249200 chr6A 97.368 76 2 0 2646 2721 408031594 408031669 4.540000e-26 130.0
23 TraesCS6B01G249200 chr5D 90.000 400 37 3 4 401 391234018 391233620 1.070000e-141 514.0
24 TraesCS6B01G249200 chr5D 95.745 47 2 0 4822 4868 326402286 326402240 6.000000e-10 76.8
25 TraesCS6B01G249200 chr5D 100.000 30 0 0 4822 4851 127258082 127258111 7.820000e-04 56.5
26 TraesCS6B01G249200 chr3B 89.526 401 38 4 4 401 479888360 479888759 6.460000e-139 505.0
27 TraesCS6B01G249200 chr3B 94.000 50 3 0 5068 5117 760372340 760372291 6.000000e-10 76.8
28 TraesCS6B01G249200 chr3B 88.333 60 5 2 5059 5116 171173184 171173125 2.790000e-08 71.3
29 TraesCS6B01G249200 chr3D 89.250 400 41 2 4 401 558679073 558678674 3.010000e-137 499.0
30 TraesCS6B01G249200 chr3D 95.918 49 1 1 5067 5114 329491748 329491700 1.670000e-10 78.7
31 TraesCS6B01G249200 chr1B 89.421 397 40 2 6 400 382686294 382686690 3.010000e-137 499.0
32 TraesCS6B01G249200 chr1B 88.525 61 5 2 5055 5113 353213900 353213840 7.770000e-09 73.1
33 TraesCS6B01G249200 chr1B 88.525 61 5 2 5055 5113 363088090 363088150 7.770000e-09 73.1
34 TraesCS6B01G249200 chr7B 98.000 50 1 0 4822 4871 709900244 709900293 2.770000e-13 87.9
35 TraesCS6B01G249200 chr5B 96.296 54 1 1 4819 4871 610966977 610966924 2.770000e-13 87.9
36 TraesCS6B01G249200 chr5B 92.593 54 3 1 4814 4866 687221583 687221530 6.000000e-10 76.8
37 TraesCS6B01G249200 chr5A 98.000 50 1 0 4822 4871 452936220 452936171 2.770000e-13 87.9
38 TraesCS6B01G249200 chr2A 98.000 50 1 0 4822 4871 25813042 25812993 2.770000e-13 87.9
39 TraesCS6B01G249200 chr1D 91.935 62 4 1 5055 5116 470796107 470796167 9.970000e-13 86.1
40 TraesCS6B01G249200 chr4D 95.833 48 2 0 5072 5119 342523424 342523377 1.670000e-10 78.7
41 TraesCS6B01G249200 chr7A 93.333 45 3 0 5072 5116 416496932 416496888 3.610000e-07 67.6


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 TraesCS6B01G249200 chr6B 447108792 447114379 5587 False 10320.000000 10320 100.000000 1 5588 1 chr6B.!!$F2 5587
1 TraesCS6B01G249200 chr6D 286624780 286629525 4745 False 1607.800000 3651 96.865000 619 5588 5 chr6D.!!$F2 4969
2 TraesCS6B01G249200 chr6D 286265191 286267249 2058 False 446.500000 577 92.492500 1 624 2 chr6D.!!$F1 623
3 TraesCS6B01G249200 chr6A 408030922 408035703 4781 False 1104.285714 3179 94.756286 749 5585 7 chr6A.!!$F2 4836
4 TraesCS6B01G249200 chr6A 408018334 408020514 2180 False 491.000000 564 90.271500 2 756 2 chr6A.!!$F1 754

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
485 1931 0.107945 GTGAGCTCGGGCAAGAAGAT 60.108 55.0 11.4 0.0 41.7 2.40 F
1203 2660 0.813184 ATTTGGAACATGCTCAGCCG 59.187 50.0 0.0 0.0 39.3 5.52 F
2654 4118 0.246635 TTAGGAGTGAAGGTCAGCGC 59.753 55.0 0.0 0.0 0.0 5.92 F
2723 4187 0.039911 AACTACCTCCACTCCGAGCT 59.960 55.0 0.0 0.0 0.0 4.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1821 3278 0.606673 GTTGCTCCTCGGCCTTCTTT 60.607 55.0 0.0 0.0 0.00 2.52 R
2704 4168 0.039911 AGCTCGGAGTGGAGGTAGTT 59.960 55.0 6.9 0.0 42.57 2.24 R
4466 5961 0.616679 CTCCGAGAAACCCCCTACCA 60.617 60.0 0.0 0.0 0.00 3.25 R
4723 6218 5.526479 TCATCAACTTCATCTGAGCTTATGC 59.474 40.0 0.0 0.0 40.05 3.14 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
92 94 3.859386 GCATGCATGTAAAAGTTAGCCAC 59.141 43.478 26.79 2.16 0.00 5.01
93 95 4.617995 GCATGCATGTAAAAGTTAGCCACA 60.618 41.667 26.79 0.00 0.00 4.17
133 135 0.895559 GTGGTGAAGCTTTGGGAGGG 60.896 60.000 0.00 0.00 0.00 4.30
227 230 1.434188 TCACCTTGGTCCTCACATGT 58.566 50.000 0.00 0.00 0.00 3.21
261 264 1.370051 CAGTTGTCGTCGTGCTCGA 60.370 57.895 6.80 6.80 44.12 4.04
286 289 2.297033 ACACTAAAGCAAATGCCACCAG 59.703 45.455 0.94 0.00 43.38 4.00
346 349 5.047377 CCATTAGTGTGCCCTTGTATTTGTT 60.047 40.000 0.00 0.00 0.00 2.83
376 379 6.344500 AGAAAGTGCCATCTATAGACAACAG 58.656 40.000 4.10 0.00 0.00 3.16
378 381 5.683876 AGTGCCATCTATAGACAACAGTT 57.316 39.130 4.10 0.00 0.00 3.16
402 405 3.119849 ACGACAATGCTTAAATGCCTCAC 60.120 43.478 0.00 0.00 0.00 3.51
429 1875 4.342092 GCTAAGCAATGGGGATGTATTTGT 59.658 41.667 0.00 0.00 0.00 2.83
441 1887 3.517296 TGTATTTGTTGGAGGCTTGGA 57.483 42.857 0.00 0.00 0.00 3.53
485 1931 0.107945 GTGAGCTCGGGCAAGAAGAT 60.108 55.000 11.40 0.00 41.70 2.40
555 2001 2.634940 ACTCACTTAGCACACTCACCAT 59.365 45.455 0.00 0.00 0.00 3.55
570 2016 2.822637 CCATCCTACCGCCATGGCT 61.823 63.158 33.07 19.02 43.94 4.75
638 2086 4.868171 GCTACTTATCCACATCAACAACGA 59.132 41.667 0.00 0.00 0.00 3.85
647 2095 2.284150 ACATCAACAACGACTCACAACG 59.716 45.455 0.00 0.00 0.00 4.10
668 2116 1.490621 CGTTTACGTTGACCCGAACT 58.509 50.000 0.00 0.00 34.11 3.01
669 2117 2.606795 CCGTTTACGTTGACCCGAACTA 60.607 50.000 0.00 0.00 37.74 2.24
709 2157 3.306294 GCGGTAGTTTGTTACACCCTACT 60.306 47.826 15.59 7.03 0.00 2.57
781 2230 4.081420 AGTTGAGGTCAGATCGTGCTAAAT 60.081 41.667 0.00 0.00 0.00 1.40
788 2237 5.333645 GGTCAGATCGTGCTAAATTATGCAG 60.334 44.000 5.66 2.15 40.06 4.41
789 2238 4.751600 TCAGATCGTGCTAAATTATGCAGG 59.248 41.667 14.95 14.95 43.67 4.85
852 2301 1.152368 AACTCAAGGGCAGCAAGCT 59.848 52.632 0.00 0.00 44.79 3.74
878 2327 2.025155 GACCGTCAGATTGGAGAGCTA 58.975 52.381 0.00 0.00 0.00 3.32
948 2405 2.412089 CGCTTCGTAGGGTTTTTCTCTG 59.588 50.000 0.00 0.00 0.00 3.35
981 2438 1.539869 TGAGGCCTTCTTCCCAGCT 60.540 57.895 6.77 0.00 0.00 4.24
1171 2628 1.227380 CAATCCGAAGAGAGCCCGG 60.227 63.158 0.00 0.00 44.22 5.73
1203 2660 0.813184 ATTTGGAACATGCTCAGCCG 59.187 50.000 0.00 0.00 39.30 5.52
1230 2687 1.550976 GACCCTGTCCTCGATGAGTTT 59.449 52.381 0.00 0.00 0.00 2.66
1608 3065 2.237751 CGAATTCTACCGCGGCCTG 61.238 63.158 28.58 15.90 0.00 4.85
1821 3278 0.621571 AGGCTGTAGATGGGAAGGCA 60.622 55.000 0.00 0.00 37.66 4.75
1983 3440 4.193826 TGAGTTGTATCTCAAGGTCAGC 57.806 45.455 0.00 0.00 40.82 4.26
1993 3450 3.117888 TCTCAAGGTCAGCTTTTCCACTT 60.118 43.478 0.00 0.00 0.00 3.16
2142 3599 3.305897 TGCATGCATAACTAGTTCGTTCG 59.694 43.478 18.46 0.00 0.00 3.95
2378 3835 2.086610 ACAAGCCCCAGAATTGTTGT 57.913 45.000 0.00 0.00 33.49 3.32
2446 3910 4.222810 GGAAAGGGCATAATCAGGTTGTTT 59.777 41.667 0.00 0.00 0.00 2.83
2475 3939 2.945440 GCTTGGAGACCCATATGTGCAA 60.945 50.000 1.24 0.21 43.12 4.08
2479 3943 3.521531 TGGAGACCCATATGTGCAAACTA 59.478 43.478 1.24 0.00 37.58 2.24
2531 3995 4.509600 GGAATTGATCTCGCTTTAGACAGG 59.490 45.833 0.00 0.00 0.00 4.00
2582 4046 7.645058 TGGGAATCTGATTTTACCTCAATTC 57.355 36.000 4.11 0.00 0.00 2.17
2641 4105 4.080863 AGCCCATGTAAGTGACTTTAGGAG 60.081 45.833 1.97 0.00 0.00 3.69
2642 4106 4.323562 GCCCATGTAAGTGACTTTAGGAGT 60.324 45.833 1.97 0.00 42.70 3.85
2643 4107 5.178797 CCCATGTAAGTGACTTTAGGAGTG 58.821 45.833 1.97 0.00 39.19 3.51
2644 4108 5.046591 CCCATGTAAGTGACTTTAGGAGTGA 60.047 44.000 1.97 0.00 39.19 3.41
2645 4109 6.464222 CCATGTAAGTGACTTTAGGAGTGAA 58.536 40.000 1.97 0.00 39.19 3.18
2646 4110 6.591834 CCATGTAAGTGACTTTAGGAGTGAAG 59.408 42.308 1.97 0.00 39.19 3.02
2647 4111 6.097915 TGTAAGTGACTTTAGGAGTGAAGG 57.902 41.667 1.97 0.00 39.19 3.46
2648 4112 5.601313 TGTAAGTGACTTTAGGAGTGAAGGT 59.399 40.000 1.97 0.00 39.19 3.50
2649 4113 4.875561 AGTGACTTTAGGAGTGAAGGTC 57.124 45.455 0.00 0.00 39.19 3.85
2650 4114 4.223953 AGTGACTTTAGGAGTGAAGGTCA 58.776 43.478 0.00 0.00 39.68 4.02
2651 4115 4.282195 AGTGACTTTAGGAGTGAAGGTCAG 59.718 45.833 1.12 0.00 41.75 3.51
2652 4116 3.006967 TGACTTTAGGAGTGAAGGTCAGC 59.993 47.826 0.00 0.00 37.81 4.26
2653 4117 2.028930 ACTTTAGGAGTGAAGGTCAGCG 60.029 50.000 0.00 0.00 37.17 5.18
2654 4118 0.246635 TTAGGAGTGAAGGTCAGCGC 59.753 55.000 0.00 0.00 0.00 5.92
2655 4119 1.605058 TAGGAGTGAAGGTCAGCGCC 61.605 60.000 2.29 0.00 0.00 6.53
2656 4120 2.659610 GAGTGAAGGTCAGCGCCT 59.340 61.111 2.29 0.00 41.41 5.52
2657 4121 1.446966 GAGTGAAGGTCAGCGCCTC 60.447 63.158 2.29 0.00 38.03 4.70
2658 4122 2.435059 GTGAAGGTCAGCGCCTCC 60.435 66.667 2.29 4.11 38.03 4.30
2659 4123 4.069232 TGAAGGTCAGCGCCTCCG 62.069 66.667 2.29 0.00 38.03 4.63
2660 4124 4.070552 GAAGGTCAGCGCCTCCGT 62.071 66.667 2.29 2.02 38.03 4.69
2661 4125 4.379243 AAGGTCAGCGCCTCCGTG 62.379 66.667 2.29 0.00 38.03 4.94
2707 4171 4.125695 GCGCCGACCTCCGTAACT 62.126 66.667 0.00 0.00 36.31 2.24
2708 4172 2.764314 GCGCCGACCTCCGTAACTA 61.764 63.158 0.00 0.00 36.31 2.24
2709 4173 1.063166 CGCCGACCTCCGTAACTAC 59.937 63.158 0.00 0.00 36.31 2.73
2710 4174 1.435105 GCCGACCTCCGTAACTACC 59.565 63.158 0.00 0.00 36.31 3.18
2711 4175 1.034292 GCCGACCTCCGTAACTACCT 61.034 60.000 0.00 0.00 36.31 3.08
2712 4176 1.020437 CCGACCTCCGTAACTACCTC 58.980 60.000 0.00 0.00 36.31 3.85
2713 4177 1.020437 CGACCTCCGTAACTACCTCC 58.980 60.000 0.00 0.00 0.00 4.30
2714 4178 1.679944 CGACCTCCGTAACTACCTCCA 60.680 57.143 0.00 0.00 0.00 3.86
2715 4179 1.747924 GACCTCCGTAACTACCTCCAC 59.252 57.143 0.00 0.00 0.00 4.02
2716 4180 1.357079 ACCTCCGTAACTACCTCCACT 59.643 52.381 0.00 0.00 0.00 4.00
2717 4181 2.022934 CCTCCGTAACTACCTCCACTC 58.977 57.143 0.00 0.00 0.00 3.51
2718 4182 2.022934 CTCCGTAACTACCTCCACTCC 58.977 57.143 0.00 0.00 0.00 3.85
2719 4183 0.737219 CCGTAACTACCTCCACTCCG 59.263 60.000 0.00 0.00 0.00 4.63
2720 4184 1.679944 CCGTAACTACCTCCACTCCGA 60.680 57.143 0.00 0.00 0.00 4.55
2721 4185 1.669779 CGTAACTACCTCCACTCCGAG 59.330 57.143 0.00 0.00 0.00 4.63
2722 4186 1.404748 GTAACTACCTCCACTCCGAGC 59.595 57.143 0.00 0.00 0.00 5.03
2723 4187 0.039911 AACTACCTCCACTCCGAGCT 59.960 55.000 0.00 0.00 0.00 4.09
2724 4188 0.039911 ACTACCTCCACTCCGAGCTT 59.960 55.000 0.00 0.00 0.00 3.74
2725 4189 1.187087 CTACCTCCACTCCGAGCTTT 58.813 55.000 0.00 0.00 0.00 3.51
2726 4190 1.550976 CTACCTCCACTCCGAGCTTTT 59.449 52.381 0.00 0.00 0.00 2.27
2727 4191 1.640917 ACCTCCACTCCGAGCTTTTA 58.359 50.000 0.00 0.00 0.00 1.52
2728 4192 2.188817 ACCTCCACTCCGAGCTTTTAT 58.811 47.619 0.00 0.00 0.00 1.40
2729 4193 2.093447 ACCTCCACTCCGAGCTTTTATG 60.093 50.000 0.00 0.00 0.00 1.90
2730 4194 1.936547 CTCCACTCCGAGCTTTTATGC 59.063 52.381 0.00 0.00 0.00 3.14
2731 4195 0.652592 CCACTCCGAGCTTTTATGCG 59.347 55.000 0.00 0.00 38.13 4.73
2732 4196 0.652592 CACTCCGAGCTTTTATGCGG 59.347 55.000 2.99 2.99 44.83 5.69
2733 4197 1.090052 ACTCCGAGCTTTTATGCGGC 61.090 55.000 4.48 0.00 43.26 6.53
2734 4198 2.094126 CTCCGAGCTTTTATGCGGCG 62.094 60.000 0.51 0.51 43.26 6.46
2735 4199 2.324477 CGAGCTTTTATGCGGCGG 59.676 61.111 9.78 0.00 38.13 6.13
2736 4200 2.461110 CGAGCTTTTATGCGGCGGT 61.461 57.895 9.78 0.00 38.13 5.68
2737 4201 1.800681 GAGCTTTTATGCGGCGGTT 59.199 52.632 9.78 0.00 38.13 4.44
2738 4202 0.170339 GAGCTTTTATGCGGCGGTTT 59.830 50.000 9.78 0.00 38.13 3.27
2739 4203 1.399089 GAGCTTTTATGCGGCGGTTTA 59.601 47.619 9.78 0.00 38.13 2.01
2740 4204 1.400494 AGCTTTTATGCGGCGGTTTAG 59.600 47.619 9.78 0.00 38.13 1.85
2816 4280 6.346096 TCCTTCTGTTCCCAAATATAACTCG 58.654 40.000 0.00 0.00 0.00 4.18
2900 4364 4.322804 CGTGTTTTAGAAGTACTGCTACGG 59.677 45.833 10.36 0.00 0.00 4.02
3070 4565 6.094048 TCAGCCTCAGTTGCTTTGATAATAAC 59.906 38.462 0.00 0.00 36.81 1.89
3140 4635 8.357290 TGACTGGCTTTTGTCTAGTATAGTAA 57.643 34.615 0.00 0.00 40.38 2.24
3170 4665 7.201565 GCTACTATTTCAGCCTTCTGTAAGTTG 60.202 40.741 0.00 0.00 41.10 3.16
3236 4731 5.221422 TGCGATGGACAATGTATATGACTGA 60.221 40.000 0.00 0.00 0.00 3.41
3732 5227 4.161565 TCCATCACCTTAGTCCACATGTAC 59.838 45.833 0.00 0.00 0.00 2.90
3807 5302 0.253160 AGGGCCTCCAACCAGATACA 60.253 55.000 0.00 0.00 34.83 2.29
3878 5373 5.853282 CGAAACAAGCAGAGAAATTGGTAAG 59.147 40.000 0.00 0.00 0.00 2.34
3882 5377 6.012745 ACAAGCAGAGAAATTGGTAAGGAAT 58.987 36.000 0.00 0.00 0.00 3.01
3908 5403 2.956132 TGAGCTTTCCATGAAACCCAA 58.044 42.857 0.00 0.00 0.00 4.12
3976 5471 5.133941 ACTTAGTAGATGGAGCTCAATCGA 58.866 41.667 22.73 16.55 0.00 3.59
4014 5509 3.797353 GCTGGAATCGAGCCCCCA 61.797 66.667 5.94 1.90 0.00 4.96
4262 5757 0.395311 CTGCTGGATTGGCTGTCCAT 60.395 55.000 11.00 0.00 44.34 3.41
4299 5794 4.150897 AGAGGCTGAACAACTTGTACAA 57.849 40.909 8.28 8.28 0.00 2.41
4466 5961 5.721225 TGAGAGGATTATAAGAGGCCTTCT 58.279 41.667 6.77 0.21 37.93 2.85
4485 5980 0.616679 TGGTAGGGGGTTTCTCGGAG 60.617 60.000 0.00 0.00 0.00 4.63
4823 6318 7.518370 CGGGTCTTGCACTTGTATTTCATATAC 60.518 40.741 0.00 0.00 0.00 1.47
4824 6319 7.499232 GGGTCTTGCACTTGTATTTCATATACT 59.501 37.037 0.00 0.00 0.00 2.12
4825 6320 8.552034 GGTCTTGCACTTGTATTTCATATACTC 58.448 37.037 0.00 0.00 0.00 2.59
4826 6321 8.552034 GTCTTGCACTTGTATTTCATATACTCC 58.448 37.037 0.00 0.00 0.00 3.85
4827 6322 7.715249 TCTTGCACTTGTATTTCATATACTCCC 59.285 37.037 0.00 0.00 0.00 4.30
4828 6323 7.136822 TGCACTTGTATTTCATATACTCCCT 57.863 36.000 0.00 0.00 0.00 4.20
4829 6324 7.217200 TGCACTTGTATTTCATATACTCCCTC 58.783 38.462 0.00 0.00 0.00 4.30
4830 6325 6.651225 GCACTTGTATTTCATATACTCCCTCC 59.349 42.308 0.00 0.00 0.00 4.30
4831 6326 6.868864 CACTTGTATTTCATATACTCCCTCCG 59.131 42.308 0.00 0.00 0.00 4.63
4832 6327 6.553852 ACTTGTATTTCATATACTCCCTCCGT 59.446 38.462 0.00 0.00 0.00 4.69
4833 6328 6.989155 TGTATTTCATATACTCCCTCCGTT 57.011 37.500 0.00 0.00 0.00 4.44
4834 6329 6.989659 TGTATTTCATATACTCCCTCCGTTC 58.010 40.000 0.00 0.00 0.00 3.95
4835 6330 6.551975 TGTATTTCATATACTCCCTCCGTTCA 59.448 38.462 0.00 0.00 0.00 3.18
4836 6331 4.931661 TTCATATACTCCCTCCGTTCAC 57.068 45.455 0.00 0.00 0.00 3.18
4837 6332 4.180377 TCATATACTCCCTCCGTTCACT 57.820 45.455 0.00 0.00 0.00 3.41
4838 6333 4.543689 TCATATACTCCCTCCGTTCACTT 58.456 43.478 0.00 0.00 0.00 3.16
4839 6334 4.960469 TCATATACTCCCTCCGTTCACTTT 59.040 41.667 0.00 0.00 0.00 2.66
4840 6335 5.424252 TCATATACTCCCTCCGTTCACTTTT 59.576 40.000 0.00 0.00 0.00 2.27
4841 6336 6.608405 TCATATACTCCCTCCGTTCACTTTTA 59.392 38.462 0.00 0.00 0.00 1.52
4842 6337 3.397849 ACTCCCTCCGTTCACTTTTAC 57.602 47.619 0.00 0.00 0.00 2.01
4843 6338 2.701951 ACTCCCTCCGTTCACTTTTACA 59.298 45.455 0.00 0.00 0.00 2.41
4844 6339 3.135167 ACTCCCTCCGTTCACTTTTACAA 59.865 43.478 0.00 0.00 0.00 2.41
4845 6340 3.735591 TCCCTCCGTTCACTTTTACAAG 58.264 45.455 0.00 0.00 35.92 3.16
4846 6341 3.135167 TCCCTCCGTTCACTTTTACAAGT 59.865 43.478 0.00 0.00 44.72 3.16
4847 6342 3.497262 CCCTCCGTTCACTTTTACAAGTC 59.503 47.826 0.00 0.00 41.69 3.01
4848 6343 3.183775 CCTCCGTTCACTTTTACAAGTCG 59.816 47.826 0.00 0.00 41.69 4.18
4849 6344 3.784338 TCCGTTCACTTTTACAAGTCGT 58.216 40.909 0.00 0.00 41.69 4.34
4850 6345 4.183101 TCCGTTCACTTTTACAAGTCGTT 58.817 39.130 0.00 0.00 41.69 3.85
4851 6346 4.630940 TCCGTTCACTTTTACAAGTCGTTT 59.369 37.500 0.00 0.00 41.69 3.60
4852 6347 4.959757 CCGTTCACTTTTACAAGTCGTTTC 59.040 41.667 0.00 0.00 41.69 2.78
4853 6348 5.446206 CCGTTCACTTTTACAAGTCGTTTCA 60.446 40.000 0.00 0.00 41.69 2.69
4854 6349 5.671140 CGTTCACTTTTACAAGTCGTTTCAG 59.329 40.000 0.00 0.00 41.69 3.02
4855 6350 6.454583 CGTTCACTTTTACAAGTCGTTTCAGA 60.455 38.462 0.00 0.00 41.69 3.27
4856 6351 6.340537 TCACTTTTACAAGTCGTTTCAGAC 57.659 37.500 0.00 0.00 41.69 3.51
4857 6352 5.870433 TCACTTTTACAAGTCGTTTCAGACA 59.130 36.000 0.00 0.00 41.69 3.41
4858 6353 6.369340 TCACTTTTACAAGTCGTTTCAGACAA 59.631 34.615 0.00 0.00 41.69 3.18
4859 6354 6.682863 CACTTTTACAAGTCGTTTCAGACAAG 59.317 38.462 0.00 0.00 41.69 3.16
4860 6355 4.789095 TTACAAGTCGTTTCAGACAAGC 57.211 40.909 0.00 0.00 43.24 4.01
4861 6356 2.627945 ACAAGTCGTTTCAGACAAGCA 58.372 42.857 0.00 0.00 43.24 3.91
4862 6357 3.006940 ACAAGTCGTTTCAGACAAGCAA 58.993 40.909 0.00 0.00 43.24 3.91
4863 6358 3.438781 ACAAGTCGTTTCAGACAAGCAAA 59.561 39.130 0.00 0.00 43.24 3.68
4864 6359 4.083003 ACAAGTCGTTTCAGACAAGCAAAA 60.083 37.500 0.00 0.00 43.24 2.44
4865 6360 4.900635 AGTCGTTTCAGACAAGCAAAAT 57.099 36.364 0.00 0.00 43.24 1.82
4866 6361 5.248870 AGTCGTTTCAGACAAGCAAAATT 57.751 34.783 0.00 0.00 43.24 1.82
4867 6362 6.371809 AGTCGTTTCAGACAAGCAAAATTA 57.628 33.333 0.00 0.00 43.24 1.40
4868 6363 6.791303 AGTCGTTTCAGACAAGCAAAATTAA 58.209 32.000 0.00 0.00 43.24 1.40
4869 6364 6.912591 AGTCGTTTCAGACAAGCAAAATTAAG 59.087 34.615 0.00 0.00 43.24 1.85
4870 6365 5.685511 TCGTTTCAGACAAGCAAAATTAAGC 59.314 36.000 0.00 0.00 0.00 3.09
4871 6366 5.458452 CGTTTCAGACAAGCAAAATTAAGCA 59.542 36.000 5.04 0.00 0.00 3.91
4872 6367 6.560251 CGTTTCAGACAAGCAAAATTAAGCAC 60.560 38.462 5.04 0.00 0.00 4.40
4873 6368 4.536065 TCAGACAAGCAAAATTAAGCACG 58.464 39.130 5.04 0.00 0.00 5.34
4874 6369 4.274705 TCAGACAAGCAAAATTAAGCACGA 59.725 37.500 5.04 0.00 0.00 4.35
4875 6370 5.048782 TCAGACAAGCAAAATTAAGCACGAT 60.049 36.000 5.04 0.00 0.00 3.73
4876 6371 5.630680 CAGACAAGCAAAATTAAGCACGATT 59.369 36.000 5.04 0.00 0.00 3.34
4877 6372 5.630680 AGACAAGCAAAATTAAGCACGATTG 59.369 36.000 5.04 0.00 0.00 2.67
4878 6373 5.288804 ACAAGCAAAATTAAGCACGATTGT 58.711 33.333 5.04 0.00 0.00 2.71
4890 6385 2.751166 ACGATTGTGAACAGAGGGAG 57.249 50.000 0.00 0.00 0.00 4.30
4891 6386 1.971357 ACGATTGTGAACAGAGGGAGT 59.029 47.619 0.00 0.00 0.00 3.85
4892 6387 3.162666 ACGATTGTGAACAGAGGGAGTA 58.837 45.455 0.00 0.00 0.00 2.59
4951 6446 9.023962 AGATTGTGCCAAGAAACAGATTTATTA 57.976 29.630 0.00 0.00 28.23 0.98
5081 6577 7.900782 TTTTGTCTTCTATTTACTCCCTTCG 57.099 36.000 0.00 0.00 0.00 3.79
5082 6578 6.600882 TTGTCTTCTATTTACTCCCTTCGT 57.399 37.500 0.00 0.00 0.00 3.85
5083 6579 6.600882 TGTCTTCTATTTACTCCCTTCGTT 57.399 37.500 0.00 0.00 0.00 3.85
5084 6580 7.001099 TGTCTTCTATTTACTCCCTTCGTTT 57.999 36.000 0.00 0.00 0.00 3.60
5085 6581 7.447594 TGTCTTCTATTTACTCCCTTCGTTTT 58.552 34.615 0.00 0.00 0.00 2.43
5086 6582 8.587608 TGTCTTCTATTTACTCCCTTCGTTTTA 58.412 33.333 0.00 0.00 0.00 1.52
5087 6583 9.428097 GTCTTCTATTTACTCCCTTCGTTTTAA 57.572 33.333 0.00 0.00 0.00 1.52
5096 6592 9.947433 TTACTCCCTTCGTTTTAAAATAGATGA 57.053 29.630 3.52 4.51 0.00 2.92
5097 6593 8.265165 ACTCCCTTCGTTTTAAAATAGATGAC 57.735 34.615 3.52 0.00 0.00 3.06
5098 6594 8.101419 ACTCCCTTCGTTTTAAAATAGATGACT 58.899 33.333 3.52 0.00 0.00 3.41
5099 6595 8.488651 TCCCTTCGTTTTAAAATAGATGACTC 57.511 34.615 3.52 0.00 0.00 3.36
5100 6596 8.098286 TCCCTTCGTTTTAAAATAGATGACTCA 58.902 33.333 3.52 0.00 0.00 3.41
5101 6597 8.726988 CCCTTCGTTTTAAAATAGATGACTCAA 58.273 33.333 3.52 0.00 0.00 3.02
5102 6598 9.543018 CCTTCGTTTTAAAATAGATGACTCAAC 57.457 33.333 3.52 0.00 0.00 3.18
5159 6655 4.811557 CGTTTGGAAGAGAAGAGTTCACTT 59.188 41.667 0.00 0.00 42.10 3.16
5370 7023 2.540101 GTCAATCCGCCGATTACTCTTG 59.460 50.000 0.00 0.00 36.54 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
30 31 4.795962 GCAAAGACCTTACCCATGTTTGTG 60.796 45.833 0.00 0.00 0.00 3.33
67 68 4.928615 GGCTAACTTTTACATGCATGCAAA 59.071 37.500 26.68 22.51 0.00 3.68
75 76 6.820459 GCATTTTGTGGCTAACTTTTACATG 58.180 36.000 0.00 0.00 0.00 3.21
133 135 2.049228 CATAGACGTCGTTATTCCCGC 58.951 52.381 10.46 0.00 0.00 6.13
227 230 0.475632 ACTGGGAGTGGTTCATGGGA 60.476 55.000 0.00 0.00 0.00 4.37
261 264 4.501400 GGTGGCATTTGCTTTAGTGTCTTT 60.501 41.667 2.12 0.00 41.70 2.52
286 289 1.597195 TGTCCAATGATAACGCGATGC 59.403 47.619 15.93 0.00 0.00 3.91
291 294 3.485877 GCTCACTTGTCCAATGATAACGC 60.486 47.826 0.00 0.00 0.00 4.84
346 349 2.957402 AGATGGCACTTTCTTGACCA 57.043 45.000 0.00 0.00 34.28 4.02
376 379 3.608073 GGCATTTAAGCATTGTCGTCAAC 59.392 43.478 0.00 0.00 36.33 3.18
378 381 3.081061 AGGCATTTAAGCATTGTCGTCA 58.919 40.909 0.00 0.00 35.83 4.35
402 405 2.762327 ACATCCCCATTGCTTAGCTTTG 59.238 45.455 5.60 2.93 0.00 2.77
429 1875 0.253630 ACCCCTATCCAAGCCTCCAA 60.254 55.000 0.00 0.00 0.00 3.53
441 1887 2.227703 TCTTCCTCCTCTCACCCCTAT 58.772 52.381 0.00 0.00 0.00 2.57
485 1931 1.381056 CCCATTCGCCCCCAAATCA 60.381 57.895 0.00 0.00 0.00 2.57
528 1974 4.583073 TGAGTGTGCTAAGTGAGTGAGTTA 59.417 41.667 0.00 0.00 0.00 2.24
529 1975 3.384789 TGAGTGTGCTAAGTGAGTGAGTT 59.615 43.478 0.00 0.00 0.00 3.01
570 2016 4.362279 GTTGTTATATCCTACCGTCGCAA 58.638 43.478 0.00 0.00 0.00 4.85
638 2086 0.528249 ACGTAAACGGCGTTGTGAGT 60.528 50.000 27.50 19.69 44.95 3.41
647 2095 1.220817 TTCGGGTCAACGTAAACGGC 61.221 55.000 7.50 0.00 44.95 5.68
668 2116 0.538057 CTACGGGTCCTGGCGGTATA 60.538 60.000 1.89 0.00 0.00 1.47
669 2117 1.831286 CTACGGGTCCTGGCGGTAT 60.831 63.158 1.89 0.00 0.00 2.73
781 2230 2.109128 TGTTTTGACCCCTCCTGCATAA 59.891 45.455 0.00 0.00 0.00 1.90
788 2237 2.358322 TTCACTGTTTTGACCCCTCC 57.642 50.000 0.00 0.00 0.00 4.30
789 2238 4.501400 CCAAATTCACTGTTTTGACCCCTC 60.501 45.833 5.29 0.00 35.34 4.30
869 2318 3.518998 GCGCCGTCTAGCTCTCCA 61.519 66.667 0.00 0.00 0.00 3.86
948 2405 1.507174 CTCACCGAGAACCGAGACC 59.493 63.158 0.00 0.00 41.76 3.85
1171 2628 0.036388 TCCAAATCAGTGCTCGGGTC 60.036 55.000 0.00 0.00 0.00 4.46
1608 3065 1.376609 CCTGTTGGCGCATAACCTCC 61.377 60.000 19.74 0.00 0.00 4.30
1791 3248 1.977293 CTACAGCCTTGGCCTCCTCC 61.977 65.000 3.32 0.00 0.00 4.30
1821 3278 0.606673 GTTGCTCCTCGGCCTTCTTT 60.607 55.000 0.00 0.00 0.00 2.52
1849 3306 2.665603 GCCTTTCCTCGGCTCAGT 59.334 61.111 0.00 0.00 44.17 3.41
1993 3450 9.787532 GCATAAAGCAACACTAGATTTCATTAA 57.212 29.630 0.00 0.00 44.79 1.40
2083 3540 3.120991 GCACAACAACTACTGAAGCTACG 60.121 47.826 0.00 0.00 0.00 3.51
2142 3599 5.239525 ACCTCAGTGCTATTTTCTGTTTGAC 59.760 40.000 0.00 0.00 0.00 3.18
2446 3910 1.304381 GGTCTCCAAGCCATGCCAA 60.304 57.895 0.00 0.00 0.00 4.52
2582 4046 9.490663 CATAAAAGCTCGGAGTTTTAAATAGTG 57.509 33.333 18.26 11.76 33.12 2.74
2641 4105 2.435059 GGAGGCGCTGACCTTCAC 60.435 66.667 7.64 0.00 41.32 3.18
2642 4106 4.069232 CGGAGGCGCTGACCTTCA 62.069 66.667 7.64 0.00 41.32 3.02
2643 4107 4.070552 ACGGAGGCGCTGACCTTC 62.071 66.667 7.64 0.00 41.32 3.46
2644 4108 4.379243 CACGGAGGCGCTGACCTT 62.379 66.667 7.64 0.00 41.32 3.50
2690 4154 2.764314 TAGTTACGGAGGTCGGCGC 61.764 63.158 0.00 0.00 44.45 6.53
2691 4155 1.063166 GTAGTTACGGAGGTCGGCG 59.937 63.158 0.00 0.00 44.45 6.46
2692 4156 1.034292 AGGTAGTTACGGAGGTCGGC 61.034 60.000 0.00 0.00 44.45 5.54
2693 4157 1.020437 GAGGTAGTTACGGAGGTCGG 58.980 60.000 0.00 0.00 44.45 4.79
2694 4158 1.020437 GGAGGTAGTTACGGAGGTCG 58.980 60.000 0.00 0.00 45.88 4.79
2695 4159 1.747924 GTGGAGGTAGTTACGGAGGTC 59.252 57.143 0.00 0.00 0.00 3.85
2696 4160 1.357079 AGTGGAGGTAGTTACGGAGGT 59.643 52.381 0.00 0.00 0.00 3.85
2697 4161 2.022934 GAGTGGAGGTAGTTACGGAGG 58.977 57.143 0.00 0.00 0.00 4.30
2698 4162 2.022934 GGAGTGGAGGTAGTTACGGAG 58.977 57.143 0.00 0.00 0.00 4.63
2699 4163 1.679944 CGGAGTGGAGGTAGTTACGGA 60.680 57.143 0.00 0.00 0.00 4.69
2700 4164 0.737219 CGGAGTGGAGGTAGTTACGG 59.263 60.000 0.00 0.00 0.00 4.02
2701 4165 1.669779 CTCGGAGTGGAGGTAGTTACG 59.330 57.143 0.00 0.00 0.00 3.18
2702 4166 1.404748 GCTCGGAGTGGAGGTAGTTAC 59.595 57.143 6.90 0.00 34.56 2.50
2703 4167 1.284198 AGCTCGGAGTGGAGGTAGTTA 59.716 52.381 6.90 0.00 42.57 2.24
2704 4168 0.039911 AGCTCGGAGTGGAGGTAGTT 59.960 55.000 6.90 0.00 42.57 2.24
2705 4169 0.039911 AAGCTCGGAGTGGAGGTAGT 59.960 55.000 6.90 0.00 43.51 2.73
2706 4170 1.187087 AAAGCTCGGAGTGGAGGTAG 58.813 55.000 6.90 0.00 43.51 3.18
2707 4171 1.640917 AAAAGCTCGGAGTGGAGGTA 58.359 50.000 6.90 0.00 43.51 3.08
2708 4172 1.640917 TAAAAGCTCGGAGTGGAGGT 58.359 50.000 6.90 0.00 46.05 3.85
2709 4173 2.555199 CATAAAAGCTCGGAGTGGAGG 58.445 52.381 6.90 0.00 34.56 4.30
2710 4174 1.936547 GCATAAAAGCTCGGAGTGGAG 59.063 52.381 6.90 0.00 37.11 3.86
2711 4175 1.739035 CGCATAAAAGCTCGGAGTGGA 60.739 52.381 6.90 0.00 0.00 4.02
2712 4176 0.652592 CGCATAAAAGCTCGGAGTGG 59.347 55.000 6.90 0.00 0.00 4.00
2713 4177 0.652592 CCGCATAAAAGCTCGGAGTG 59.347 55.000 6.90 0.00 44.23 3.51
2714 4178 1.090052 GCCGCATAAAAGCTCGGAGT 61.090 55.000 13.00 0.00 44.23 3.85
2715 4179 1.643832 GCCGCATAAAAGCTCGGAG 59.356 57.895 13.00 0.00 44.23 4.63
2716 4180 2.171079 CGCCGCATAAAAGCTCGGA 61.171 57.895 13.00 0.00 44.23 4.55
2717 4181 2.324477 CGCCGCATAAAAGCTCGG 59.676 61.111 4.98 4.98 44.29 4.63
2718 4182 1.977594 AACCGCCGCATAAAAGCTCG 61.978 55.000 0.00 0.00 0.00 5.03
2719 4183 0.170339 AAACCGCCGCATAAAAGCTC 59.830 50.000 0.00 0.00 0.00 4.09
2720 4184 1.400494 CTAAACCGCCGCATAAAAGCT 59.600 47.619 0.00 0.00 0.00 3.74
2721 4185 1.822581 CTAAACCGCCGCATAAAAGC 58.177 50.000 0.00 0.00 0.00 3.51
2722 4186 1.533129 GGCTAAACCGCCGCATAAAAG 60.533 52.381 0.00 0.00 40.79 2.27
2723 4187 0.452585 GGCTAAACCGCCGCATAAAA 59.547 50.000 0.00 0.00 40.79 1.52
2724 4188 2.099994 GGCTAAACCGCCGCATAAA 58.900 52.632 0.00 0.00 40.79 1.40
2725 4189 3.816388 GGCTAAACCGCCGCATAA 58.184 55.556 0.00 0.00 40.79 1.90
2732 4196 0.955905 TGTTTTCTGGGCTAAACCGC 59.044 50.000 0.00 0.00 40.62 5.68
2733 4197 3.934457 ATTGTTTTCTGGGCTAAACCG 57.066 42.857 0.00 0.00 40.62 4.44
2734 4198 5.710567 AGACTATTGTTTTCTGGGCTAAACC 59.289 40.000 0.00 0.00 34.21 3.27
2735 4199 6.819397 AGACTATTGTTTTCTGGGCTAAAC 57.181 37.500 0.00 0.00 35.38 2.01
2736 4200 7.686434 ACTAGACTATTGTTTTCTGGGCTAAA 58.314 34.615 0.00 0.00 0.00 1.85
2737 4201 7.253905 ACTAGACTATTGTTTTCTGGGCTAA 57.746 36.000 0.00 0.00 0.00 3.09
2738 4202 6.869206 ACTAGACTATTGTTTTCTGGGCTA 57.131 37.500 0.00 0.00 0.00 3.93
2739 4203 5.763876 ACTAGACTATTGTTTTCTGGGCT 57.236 39.130 0.00 0.00 0.00 5.19
2740 4204 6.641474 ACTACTAGACTATTGTTTTCTGGGC 58.359 40.000 0.00 0.00 0.00 5.36
2816 4280 4.491676 TCAGACCATAGAACGTTAACAGC 58.508 43.478 0.00 0.00 0.00 4.40
3070 4565 4.342772 GCCACATGTAATAGCGTTCAAAG 58.657 43.478 0.00 0.00 0.00 2.77
3140 4635 3.777522 AGAAGGCTGAAATAGTAGCAGGT 59.222 43.478 0.00 0.00 41.63 4.00
3155 4650 7.069455 ACAATTTTAACCAACTTACAGAAGGCT 59.931 33.333 0.00 0.00 36.95 4.58
3170 4665 8.573035 TCCATGTAAACTCAGACAATTTTAACC 58.427 33.333 0.00 0.00 0.00 2.85
3236 4731 7.378966 TCAGTTTATTTCTGACTGAACTCGAT 58.621 34.615 3.18 0.00 44.77 3.59
3470 4965 5.738118 AAATTGAAACAAAGTGCACATGG 57.262 34.783 21.04 7.37 0.00 3.66
3732 5227 3.861276 TCAAGATTGCCAGATTTGCTG 57.139 42.857 0.00 0.00 44.49 4.41
3807 5302 9.846248 GCACTAATCATTGATGTAAAGAGTTTT 57.154 29.630 0.00 0.00 0.00 2.43
3908 5403 6.514012 TCACATCCATGTATATTTCCCTGT 57.486 37.500 0.00 0.00 39.39 4.00
3976 5471 7.655328 TCCAGCGAATGACATTTTTGTTTTTAT 59.345 29.630 1.39 0.00 0.00 1.40
4014 5509 2.522185 AGCAATGTGAAGCACTCCAAT 58.478 42.857 0.00 0.00 35.11 3.16
4299 5794 4.225267 TCTTCTCCCGCCTTTCTTATCTTT 59.775 41.667 0.00 0.00 0.00 2.52
4466 5961 0.616679 CTCCGAGAAACCCCCTACCA 60.617 60.000 0.00 0.00 0.00 3.25
4485 5980 7.976826 TCATTTTGAAATATTTGCTTGCATCC 58.023 30.769 5.17 0.00 0.00 3.51
4723 6218 5.526479 TCATCAACTTCATCTGAGCTTATGC 59.474 40.000 0.00 0.00 40.05 3.14
4823 6318 3.396260 TGTAAAAGTGAACGGAGGGAG 57.604 47.619 0.00 0.00 0.00 4.30
4824 6319 3.135167 ACTTGTAAAAGTGAACGGAGGGA 59.865 43.478 0.00 0.00 0.00 4.20
4825 6320 3.473625 ACTTGTAAAAGTGAACGGAGGG 58.526 45.455 0.00 0.00 0.00 4.30
4826 6321 3.183775 CGACTTGTAAAAGTGAACGGAGG 59.816 47.826 2.08 0.00 32.22 4.30
4827 6322 3.800506 ACGACTTGTAAAAGTGAACGGAG 59.199 43.478 2.08 0.00 32.22 4.63
4828 6323 3.784338 ACGACTTGTAAAAGTGAACGGA 58.216 40.909 2.08 0.00 32.22 4.69
4829 6324 4.525411 AACGACTTGTAAAAGTGAACGG 57.475 40.909 2.08 0.00 32.22 4.44
4830 6325 5.552807 TGAAACGACTTGTAAAAGTGAACG 58.447 37.500 2.08 3.44 32.22 3.95
4831 6326 6.681599 GTCTGAAACGACTTGTAAAAGTGAAC 59.318 38.462 2.08 0.00 32.22 3.18
4832 6327 6.369340 TGTCTGAAACGACTTGTAAAAGTGAA 59.631 34.615 2.08 0.00 35.00 3.18
4833 6328 5.870433 TGTCTGAAACGACTTGTAAAAGTGA 59.130 36.000 2.08 0.00 35.00 3.41
4834 6329 6.102006 TGTCTGAAACGACTTGTAAAAGTG 57.898 37.500 2.08 0.00 35.00 3.16
4835 6330 6.674760 GCTTGTCTGAAACGACTTGTAAAAGT 60.675 38.462 0.00 0.00 35.00 2.66
4836 6331 5.677178 GCTTGTCTGAAACGACTTGTAAAAG 59.323 40.000 0.00 0.00 35.00 2.27
4837 6332 5.122554 TGCTTGTCTGAAACGACTTGTAAAA 59.877 36.000 0.00 0.00 35.00 1.52
4838 6333 4.632251 TGCTTGTCTGAAACGACTTGTAAA 59.368 37.500 0.00 0.00 35.00 2.01
4839 6334 4.185394 TGCTTGTCTGAAACGACTTGTAA 58.815 39.130 0.00 0.00 35.00 2.41
4840 6335 3.787785 TGCTTGTCTGAAACGACTTGTA 58.212 40.909 0.00 0.00 35.00 2.41
4841 6336 2.627945 TGCTTGTCTGAAACGACTTGT 58.372 42.857 0.00 0.00 35.00 3.16
4842 6337 3.673746 TTGCTTGTCTGAAACGACTTG 57.326 42.857 0.00 0.00 35.00 3.16
4843 6338 4.695217 TTTTGCTTGTCTGAAACGACTT 57.305 36.364 0.00 0.00 35.00 3.01
4844 6339 4.900635 ATTTTGCTTGTCTGAAACGACT 57.099 36.364 0.00 0.00 35.00 4.18
4845 6340 6.345015 GCTTAATTTTGCTTGTCTGAAACGAC 60.345 38.462 0.00 0.00 34.52 4.34
4846 6341 5.685511 GCTTAATTTTGCTTGTCTGAAACGA 59.314 36.000 0.00 0.00 0.00 3.85
4847 6342 5.458452 TGCTTAATTTTGCTTGTCTGAAACG 59.542 36.000 4.44 0.00 0.00 3.60
4848 6343 6.560251 CGTGCTTAATTTTGCTTGTCTGAAAC 60.560 38.462 4.44 0.00 0.00 2.78
4849 6344 5.458452 CGTGCTTAATTTTGCTTGTCTGAAA 59.542 36.000 4.44 0.00 0.00 2.69
4850 6345 4.975502 CGTGCTTAATTTTGCTTGTCTGAA 59.024 37.500 4.44 0.00 0.00 3.02
4851 6346 4.274705 TCGTGCTTAATTTTGCTTGTCTGA 59.725 37.500 4.44 0.00 0.00 3.27
4852 6347 4.536065 TCGTGCTTAATTTTGCTTGTCTG 58.464 39.130 4.44 0.00 0.00 3.51
4853 6348 4.829064 TCGTGCTTAATTTTGCTTGTCT 57.171 36.364 4.44 0.00 0.00 3.41
4854 6349 5.402270 ACAATCGTGCTTAATTTTGCTTGTC 59.598 36.000 4.44 0.00 0.00 3.18
4855 6350 5.175491 CACAATCGTGCTTAATTTTGCTTGT 59.825 36.000 4.44 3.96 36.06 3.16
4856 6351 5.401972 TCACAATCGTGCTTAATTTTGCTTG 59.598 36.000 4.44 3.48 43.28 4.01
4857 6352 5.527951 TCACAATCGTGCTTAATTTTGCTT 58.472 33.333 4.44 0.00 43.28 3.91
4858 6353 5.119931 TCACAATCGTGCTTAATTTTGCT 57.880 34.783 4.44 0.00 43.28 3.91
4859 6354 5.174761 TGTTCACAATCGTGCTTAATTTTGC 59.825 36.000 0.00 0.00 43.28 3.68
4860 6355 6.636447 TCTGTTCACAATCGTGCTTAATTTTG 59.364 34.615 0.00 0.00 43.28 2.44
4861 6356 6.734137 TCTGTTCACAATCGTGCTTAATTTT 58.266 32.000 0.00 0.00 43.28 1.82
4862 6357 6.312399 TCTGTTCACAATCGTGCTTAATTT 57.688 33.333 0.00 0.00 43.28 1.82
4863 6358 5.106555 CCTCTGTTCACAATCGTGCTTAATT 60.107 40.000 0.00 0.00 43.28 1.40
4864 6359 4.393062 CCTCTGTTCACAATCGTGCTTAAT 59.607 41.667 0.00 0.00 43.28 1.40
4865 6360 3.745975 CCTCTGTTCACAATCGTGCTTAA 59.254 43.478 0.00 0.00 43.28 1.85
4866 6361 3.325870 CCTCTGTTCACAATCGTGCTTA 58.674 45.455 0.00 0.00 43.28 3.09
4867 6362 2.146342 CCTCTGTTCACAATCGTGCTT 58.854 47.619 0.00 0.00 43.28 3.91
4868 6363 1.609061 CCCTCTGTTCACAATCGTGCT 60.609 52.381 0.00 0.00 43.28 4.40
4869 6364 0.798776 CCCTCTGTTCACAATCGTGC 59.201 55.000 0.00 0.00 43.28 5.34
4870 6365 2.289072 ACTCCCTCTGTTCACAATCGTG 60.289 50.000 0.00 0.00 45.08 4.35
4871 6366 1.971357 ACTCCCTCTGTTCACAATCGT 59.029 47.619 0.00 0.00 0.00 3.73
4872 6367 2.751166 ACTCCCTCTGTTCACAATCG 57.249 50.000 0.00 0.00 0.00 3.34
4873 6368 4.894784 TGTTACTCCCTCTGTTCACAATC 58.105 43.478 0.00 0.00 0.00 2.67
4874 6369 4.974645 TGTTACTCCCTCTGTTCACAAT 57.025 40.909 0.00 0.00 0.00 2.71
4875 6370 4.102524 ACATGTTACTCCCTCTGTTCACAA 59.897 41.667 0.00 0.00 0.00 3.33
4876 6371 3.646162 ACATGTTACTCCCTCTGTTCACA 59.354 43.478 0.00 0.00 0.00 3.58
4877 6372 4.273148 ACATGTTACTCCCTCTGTTCAC 57.727 45.455 0.00 0.00 0.00 3.18
4878 6373 4.974645 AACATGTTACTCCCTCTGTTCA 57.025 40.909 9.97 0.00 0.00 3.18
4879 6374 5.531287 ACAAAACATGTTACTCCCTCTGTTC 59.469 40.000 12.39 0.00 40.06 3.18
4880 6375 5.445964 ACAAAACATGTTACTCCCTCTGTT 58.554 37.500 12.39 0.00 40.06 3.16
4881 6376 5.048846 ACAAAACATGTTACTCCCTCTGT 57.951 39.130 12.39 3.15 40.06 3.41
4882 6377 5.063204 TGACAAAACATGTTACTCCCTCTG 58.937 41.667 12.39 2.57 44.12 3.35
4883 6378 5.304686 TGACAAAACATGTTACTCCCTCT 57.695 39.130 12.39 0.00 44.12 3.69
4884 6379 6.016276 ACAATGACAAAACATGTTACTCCCTC 60.016 38.462 12.39 2.12 44.12 4.30
4885 6380 5.833131 ACAATGACAAAACATGTTACTCCCT 59.167 36.000 12.39 0.00 44.12 4.20
4886 6381 6.084326 ACAATGACAAAACATGTTACTCCC 57.916 37.500 12.39 1.58 44.12 4.30
4887 6382 9.522804 TTTTACAATGACAAAACATGTTACTCC 57.477 29.630 12.39 2.99 44.12 3.85
4892 6387 9.814899 TCAGATTTTACAATGACAAAACATGTT 57.185 25.926 4.92 4.92 44.12 2.71
4951 6446 4.200092 GGGTATTTGCTCCGAGAAAGATT 58.800 43.478 0.00 0.00 0.00 2.40
5030 6525 1.550327 TGGAGCGAGAGTGAACTCAT 58.450 50.000 12.76 0.00 45.21 2.90
5071 6567 9.374838 GTCATCTATTTTAAAACGAAGGGAGTA 57.625 33.333 1.97 0.00 0.00 2.59
5072 6568 8.101419 AGTCATCTATTTTAAAACGAAGGGAGT 58.899 33.333 1.97 3.92 0.00 3.85
5073 6569 8.494016 AGTCATCTATTTTAAAACGAAGGGAG 57.506 34.615 1.97 0.00 0.00 4.30
5074 6570 8.098286 TGAGTCATCTATTTTAAAACGAAGGGA 58.902 33.333 1.97 1.37 0.00 4.20
5075 6571 8.263940 TGAGTCATCTATTTTAAAACGAAGGG 57.736 34.615 1.97 0.00 0.00 3.95
5076 6572 9.543018 GTTGAGTCATCTATTTTAAAACGAAGG 57.457 33.333 1.97 1.41 0.00 3.46
5091 6587 9.915629 CTACTTTAGTACAAAGTTGAGTCATCT 57.084 33.333 20.78 0.00 40.58 2.90
5092 6588 9.909644 TCTACTTTAGTACAAAGTTGAGTCATC 57.090 33.333 20.78 0.00 40.58 2.92
5094 6590 9.525409 GTTCTACTTTAGTACAAAGTTGAGTCA 57.475 33.333 20.78 11.57 40.83 3.41
5095 6591 8.976471 GGTTCTACTTTAGTACAAAGTTGAGTC 58.024 37.037 20.78 18.58 40.83 3.36
5096 6592 7.930325 GGGTTCTACTTTAGTACAAAGTTGAGT 59.070 37.037 20.78 7.59 40.83 3.41
5097 6593 7.929785 TGGGTTCTACTTTAGTACAAAGTTGAG 59.070 37.037 20.78 15.55 40.83 3.02
5098 6594 7.794041 TGGGTTCTACTTTAGTACAAAGTTGA 58.206 34.615 20.78 20.33 40.58 3.18
5099 6595 7.307811 GCTGGGTTCTACTTTAGTACAAAGTTG 60.308 40.741 20.78 19.03 40.58 3.16
5100 6596 6.709397 GCTGGGTTCTACTTTAGTACAAAGTT 59.291 38.462 20.78 10.72 40.58 2.66
5101 6597 6.183361 TGCTGGGTTCTACTTTAGTACAAAGT 60.183 38.462 19.97 19.97 42.53 2.66
5102 6598 6.228258 TGCTGGGTTCTACTTTAGTACAAAG 58.772 40.000 13.08 13.08 0.00 2.77
5103 6599 6.177310 TGCTGGGTTCTACTTTAGTACAAA 57.823 37.500 0.00 0.00 0.00 2.83
5104 6600 5.279809 CCTGCTGGGTTCTACTTTAGTACAA 60.280 44.000 0.71 0.00 0.00 2.41
5105 6601 4.222145 CCTGCTGGGTTCTACTTTAGTACA 59.778 45.833 0.71 0.00 0.00 2.90
5106 6602 4.756502 CCTGCTGGGTTCTACTTTAGTAC 58.243 47.826 0.71 0.00 0.00 2.73
5107 6603 3.197116 GCCTGCTGGGTTCTACTTTAGTA 59.803 47.826 12.06 0.00 37.43 1.82
5108 6604 2.027100 GCCTGCTGGGTTCTACTTTAGT 60.027 50.000 12.06 0.00 37.43 2.24
5109 6605 2.633488 GCCTGCTGGGTTCTACTTTAG 58.367 52.381 12.06 0.00 37.43 1.85
5110 6606 1.280998 GGCCTGCTGGGTTCTACTTTA 59.719 52.381 12.06 0.00 37.43 1.85
5111 6607 0.038310 GGCCTGCTGGGTTCTACTTT 59.962 55.000 12.06 0.00 37.43 2.66
5112 6608 1.685820 GGCCTGCTGGGTTCTACTT 59.314 57.895 12.06 0.00 37.43 2.24
5113 6609 2.301738 GGGCCTGCTGGGTTCTACT 61.302 63.158 12.06 0.00 37.43 2.57
5114 6610 2.272471 GGGCCTGCTGGGTTCTAC 59.728 66.667 12.06 0.00 37.43 2.59
5159 6655 0.991920 GAGATTGGGGTGAAGTGGGA 59.008 55.000 0.00 0.00 0.00 4.37
5497 7150 3.214845 GTAGCTGCAGGGCCATGC 61.215 66.667 34.60 34.60 46.68 4.06


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

AutoCloner maintained by Alex Coulton.