Multiple sequence alignment - TraesCS6B01G331000

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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 TraesCS6B01G331000 chr6B 100.000 3002 0 0 1 3002 581869328 581866327 0.000000e+00 5544
1 TraesCS6B01G331000 chr6B 98.182 110 2 0 2893 3002 279573985 279574094 3.050000e-45 193
2 TraesCS6B01G331000 chr6B 96.364 110 4 0 2893 3002 581854690 581854799 6.610000e-42 182
3 TraesCS6B01G331000 chr6B 90.000 130 13 0 1509 1638 474749465 474749336 5.150000e-38 169
4 TraesCS6B01G331000 chr6D 92.328 2620 95 39 1 2567 388952938 388950372 0.000000e+00 3627
5 TraesCS6B01G331000 chr6D 83.232 328 27 11 2567 2892 388950302 388950001 2.950000e-70 276
6 TraesCS6B01G331000 chr6D 89.231 130 14 0 1509 1638 307517486 307517357 2.390000e-36 163
7 TraesCS6B01G331000 chr6A 89.765 2941 148 57 1 2892 535404859 535402023 0.000000e+00 3622
8 TraesCS6B01G331000 chr6A 90.000 130 13 0 1509 1638 444674571 444674442 5.150000e-38 169
9 TraesCS6B01G331000 chr7A 80.784 536 57 27 1511 2002 135689646 135689113 7.860000e-101 377
10 TraesCS6B01G331000 chr7D 90.511 274 24 2 1511 1783 136204684 136204412 7.910000e-96 361
11 TraesCS6B01G331000 chr7B 89.630 270 28 0 1511 1780 99089374 99089105 7.970000e-91 344
12 TraesCS6B01G331000 chr4D 82.353 255 43 2 1509 1762 438153351 438153604 1.400000e-53 220
13 TraesCS6B01G331000 chr4A 82.353 255 43 2 1509 1762 27589625 27589878 1.400000e-53 220
14 TraesCS6B01G331000 chr5A 83.750 240 27 6 1511 1750 393917978 393918205 1.810000e-52 217
15 TraesCS6B01G331000 chr5A 100.000 112 0 0 2891 3002 37996238 37996127 1.090000e-49 207
16 TraesCS6B01G331000 chr5A 96.364 110 4 0 2893 3002 37984722 37984831 6.610000e-42 182
17 TraesCS6B01G331000 chr5D 82.422 256 31 11 1511 1765 304163177 304162935 8.430000e-51 211
18 TraesCS6B01G331000 chr5D 100.000 111 0 0 2892 3002 24886450 24886340 3.920000e-49 206
19 TraesCS6B01G331000 chr5B 95.041 121 5 1 2883 3002 588652324 588652444 3.950000e-44 189
20 TraesCS6B01G331000 chr5B 96.364 110 4 0 2893 3002 588654896 588654787 6.610000e-42 182
21 TraesCS6B01G331000 chr2B 97.273 110 3 0 2893 3002 539373666 539373775 1.420000e-43 187
22 TraesCS6B01G331000 chr2B 97.273 110 3 0 2893 3002 539376189 539376080 1.420000e-43 187


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 TraesCS6B01G331000 chr6B 581866327 581869328 3001 True 5544.0 5544 100.000 1 3002 1 chr6B.!!$R2 3001
1 TraesCS6B01G331000 chr6D 388950001 388952938 2937 True 1951.5 3627 87.780 1 2892 2 chr6D.!!$R2 2891
2 TraesCS6B01G331000 chr6A 535402023 535404859 2836 True 3622.0 3622 89.765 1 2892 1 chr6A.!!$R2 2891
3 TraesCS6B01G331000 chr7A 135689113 135689646 533 True 377.0 377 80.784 1511 2002 1 chr7A.!!$R1 491

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
467 483 0.899717 CAACCCCCACCATCCACAAG 60.9 60.0 0.0 0.0 0.0 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2055 2174 0.100682 CCGATCCGAGCGAAAGAGAA 59.899 55.0 7.8 0.0 0.0 2.87 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
20 21 2.651382 ACTTTAAGCAAGGGGTTCGT 57.349 45.000 0.00 0.00 36.72 3.85
79 80 2.523902 CACAAAGGGCAGGGGCAA 60.524 61.111 0.00 0.00 43.71 4.52
141 142 2.063541 GACGCCACTTGCACAAAGCT 62.064 55.000 0.00 0.00 45.94 3.74
154 155 1.079127 AAAGCTACAGCGTGGCGAT 60.079 52.632 10.29 3.13 44.64 4.58
286 287 3.451141 TTCAAAATCACACTGCCAACC 57.549 42.857 0.00 0.00 0.00 3.77
295 296 1.120795 CACTGCCAACCCCCAACAAT 61.121 55.000 0.00 0.00 0.00 2.71
320 324 8.085720 TCAAGAAACGATTAACGAAATTACCA 57.914 30.769 0.00 0.00 45.77 3.25
342 346 3.286751 GACCGCTTTGTGGCAGCA 61.287 61.111 0.00 0.00 37.07 4.41
350 354 2.355444 GCTTTGTGGCAGCAAACAAATT 59.645 40.909 20.18 0.00 43.33 1.82
380 384 3.353836 GGTTGCTTCGCTTCGCCA 61.354 61.111 0.00 0.00 0.00 5.69
460 476 4.047125 CGCCTCAACCCCCACCAT 62.047 66.667 0.00 0.00 0.00 3.55
461 477 2.043953 GCCTCAACCCCCACCATC 60.044 66.667 0.00 0.00 0.00 3.51
463 479 2.237965 CCTCAACCCCCACCATCCA 61.238 63.158 0.00 0.00 0.00 3.41
464 480 1.000896 CTCAACCCCCACCATCCAC 60.001 63.158 0.00 0.00 0.00 4.02
465 481 1.776293 TCAACCCCCACCATCCACA 60.776 57.895 0.00 0.00 0.00 4.17
466 482 1.154921 CAACCCCCACCATCCACAA 59.845 57.895 0.00 0.00 0.00 3.33
467 483 0.899717 CAACCCCCACCATCCACAAG 60.900 60.000 0.00 0.00 0.00 3.16
472 494 1.480312 CCCCACCATCCACAAGAACAA 60.480 52.381 0.00 0.00 0.00 2.83
574 604 4.502259 GGTTTGCTCTCTGAACTTCTCTGA 60.502 45.833 0.00 0.00 0.00 3.27
613 643 3.074412 AGCAGGAATACACAAGAAACCG 58.926 45.455 0.00 0.00 0.00 4.44
614 644 3.071479 GCAGGAATACACAAGAAACCGA 58.929 45.455 0.00 0.00 0.00 4.69
615 645 3.689649 GCAGGAATACACAAGAAACCGAT 59.310 43.478 0.00 0.00 0.00 4.18
616 646 4.201822 GCAGGAATACACAAGAAACCGATC 60.202 45.833 0.00 0.00 0.00 3.69
617 647 4.032900 CAGGAATACACAAGAAACCGATCG 59.967 45.833 8.51 8.51 0.00 3.69
659 691 8.432805 GGTTCTTCTTCTGGGATTATTAGATCA 58.567 37.037 0.00 0.00 0.00 2.92
682 714 4.416738 GGCGCCCTCCTCTTGCTT 62.417 66.667 18.11 0.00 0.00 3.91
775 807 2.023015 TCTCTCCTGGATTCTTGCCCTA 60.023 50.000 0.00 0.00 0.00 3.53
830 863 3.925379 GGGTTCTTTTGCAATACCCTTG 58.075 45.455 22.53 1.02 44.10 3.61
843 876 1.331214 ACCCTTGTAGTTCGTCCGAA 58.669 50.000 0.00 0.00 0.00 4.30
849 882 5.233689 CCCTTGTAGTTCGTCCGAATTATTC 59.766 44.000 5.33 0.00 36.45 1.75
850 883 6.040878 CCTTGTAGTTCGTCCGAATTATTCT 58.959 40.000 5.33 0.64 36.45 2.40
851 884 6.534079 CCTTGTAGTTCGTCCGAATTATTCTT 59.466 38.462 5.33 0.00 36.45 2.52
1056 1093 3.071206 ACGCACCAGATCGGCTCT 61.071 61.111 3.85 0.00 39.03 4.09
1126 1163 1.478510 TCACGATTGCTTCCTCCTCTC 59.521 52.381 0.00 0.00 0.00 3.20
1178 1221 4.780815 TCCATGACCCAAGATTCATACAC 58.219 43.478 0.00 0.00 31.04 2.90
1191 1234 1.998438 ATACACGGCCACCCCATCA 60.998 57.895 2.24 0.00 0.00 3.07
1194 1237 3.014538 ACGGCCACCCCATCATCA 61.015 61.111 2.24 0.00 0.00 3.07
1224 1276 1.088340 CGTTCGCGACCTCTCCTCTA 61.088 60.000 9.15 0.00 44.71 2.43
1236 1288 3.000819 CCTCTACCCACCACCGCA 61.001 66.667 0.00 0.00 0.00 5.69
1288 1340 1.604755 CGCTCTACTCCTCGCAGTATT 59.395 52.381 0.00 0.00 0.00 1.89
1289 1341 2.350007 CGCTCTACTCCTCGCAGTATTC 60.350 54.545 0.00 0.00 0.00 1.75
1290 1342 2.030628 GCTCTACTCCTCGCAGTATTCC 60.031 54.545 0.00 0.00 0.00 3.01
1291 1343 3.215151 CTCTACTCCTCGCAGTATTCCA 58.785 50.000 0.00 0.00 0.00 3.53
1695 1753 2.987547 AACTTCCCGTCGCTCCGA 60.988 61.111 0.00 0.00 0.00 4.55
1793 1854 1.446272 CGCCCTCGTCCAAGAACTC 60.446 63.158 0.00 0.00 0.00 3.01
1794 1855 1.446272 GCCCTCGTCCAAGAACTCG 60.446 63.158 0.00 0.00 0.00 4.18
1795 1856 1.215647 CCCTCGTCCAAGAACTCGG 59.784 63.158 0.00 0.00 0.00 4.63
1796 1857 1.446272 CCTCGTCCAAGAACTCGGC 60.446 63.158 0.00 0.00 0.00 5.54
1797 1858 1.446272 CTCGTCCAAGAACTCGGCC 60.446 63.158 0.00 0.00 0.00 6.13
1798 1859 2.809601 CGTCCAAGAACTCGGCCG 60.810 66.667 22.12 22.12 0.00 6.13
1799 1860 2.654877 GTCCAAGAACTCGGCCGA 59.345 61.111 29.03 29.03 0.00 5.54
1800 1861 1.446272 GTCCAAGAACTCGGCCGAG 60.446 63.158 45.26 45.26 46.91 4.63
2055 2174 7.717568 ACAGTCTTCGTAGCTATGATGTAATT 58.282 34.615 21.80 8.45 0.00 1.40
2060 2179 8.851145 TCTTCGTAGCTATGATGTAATTTCTCT 58.149 33.333 21.80 0.00 0.00 3.10
2065 2184 7.183580 AGCTATGATGTAATTTCTCTTTCGC 57.816 36.000 0.00 0.00 0.00 4.70
2069 2188 4.566759 TGATGTAATTTCTCTTTCGCTCGG 59.433 41.667 0.00 0.00 0.00 4.63
2258 2381 4.742649 AGGCGGCCAGTCGAGAGA 62.743 66.667 23.09 0.00 38.16 3.10
2352 2475 4.281657 ACTGCTACTGATCCAGTGATGTA 58.718 43.478 9.64 0.24 45.01 2.29
2360 2483 4.445453 TGATCCAGTGATGTATGAAGTGC 58.555 43.478 0.00 0.00 0.00 4.40
2363 2486 1.328680 CAGTGATGTATGAAGTGCGCC 59.671 52.381 4.18 0.00 0.00 6.53
2364 2487 1.208052 AGTGATGTATGAAGTGCGCCT 59.792 47.619 4.18 0.00 0.00 5.52
2377 2500 4.166011 CGCCTTTGCTGTAGCGGC 62.166 66.667 10.16 10.16 44.64 6.53
2382 2505 0.179215 CTTTGCTGTAGCGGCTTTCG 60.179 55.000 8.26 0.00 45.83 3.46
2606 2799 4.340381 GCTTTTCATGGGACTTGAGCATAT 59.660 41.667 0.00 0.00 0.00 1.78
2607 2800 5.735354 GCTTTTCATGGGACTTGAGCATATG 60.735 44.000 0.00 0.00 0.00 1.78
2608 2801 4.776435 TTCATGGGACTTGAGCATATGA 57.224 40.909 6.97 0.00 0.00 2.15
2609 2802 4.776435 TCATGGGACTTGAGCATATGAA 57.224 40.909 6.97 0.00 0.00 2.57
2610 2803 4.711399 TCATGGGACTTGAGCATATGAAG 58.289 43.478 6.97 4.00 0.00 3.02
2611 2804 4.164796 TCATGGGACTTGAGCATATGAAGT 59.835 41.667 6.97 7.44 32.57 3.01
2612 2805 4.574674 TGGGACTTGAGCATATGAAGTT 57.425 40.909 6.97 0.00 30.01 2.66
2613 2806 5.692115 TGGGACTTGAGCATATGAAGTTA 57.308 39.130 6.97 0.00 30.01 2.24
2632 2825 4.021016 AGTTATGAACGGAGCAGAGTTCTT 60.021 41.667 15.62 12.70 44.95 2.52
2633 2826 5.185249 AGTTATGAACGGAGCAGAGTTCTTA 59.815 40.000 15.62 11.97 44.95 2.10
2634 2827 3.577649 TGAACGGAGCAGAGTTCTTAG 57.422 47.619 15.62 0.00 44.95 2.18
2635 2828 2.263945 GAACGGAGCAGAGTTCTTAGC 58.736 52.381 9.85 0.00 42.34 3.09
2636 2829 0.533032 ACGGAGCAGAGTTCTTAGCC 59.467 55.000 0.00 0.00 0.00 3.93
2638 2831 1.205893 CGGAGCAGAGTTCTTAGCCTT 59.794 52.381 0.00 0.00 0.00 4.35
2640 2833 2.419436 GGAGCAGAGTTCTTAGCCTTCC 60.419 54.545 0.00 0.00 0.00 3.46
2641 2834 2.234908 GAGCAGAGTTCTTAGCCTTCCA 59.765 50.000 0.00 0.00 0.00 3.53
2642 2835 2.235898 AGCAGAGTTCTTAGCCTTCCAG 59.764 50.000 0.00 0.00 0.00 3.86
2643 2836 2.027653 GCAGAGTTCTTAGCCTTCCAGT 60.028 50.000 0.00 0.00 0.00 4.00
2644 2837 3.855858 CAGAGTTCTTAGCCTTCCAGTC 58.144 50.000 0.00 0.00 0.00 3.51
2646 2839 4.020662 CAGAGTTCTTAGCCTTCCAGTCTT 60.021 45.833 0.00 0.00 0.00 3.01
2647 2840 5.186021 CAGAGTTCTTAGCCTTCCAGTCTTA 59.814 44.000 0.00 0.00 0.00 2.10
2648 2841 5.961421 AGAGTTCTTAGCCTTCCAGTCTTAT 59.039 40.000 0.00 0.00 0.00 1.73
2650 2843 5.104735 AGTTCTTAGCCTTCCAGTCTTATGG 60.105 44.000 0.00 0.00 42.11 2.74
2653 2846 2.839228 AGCCTTCCAGTCTTATGGTCT 58.161 47.619 0.00 0.00 41.43 3.85
2654 2847 3.995636 AGCCTTCCAGTCTTATGGTCTA 58.004 45.455 0.00 0.00 41.43 2.59
2655 2848 3.707102 AGCCTTCCAGTCTTATGGTCTAC 59.293 47.826 0.00 0.00 41.43 2.59
2657 2850 4.202172 GCCTTCCAGTCTTATGGTCTACTC 60.202 50.000 0.00 0.00 41.43 2.59
2659 2852 4.603094 TCCAGTCTTATGGTCTACTCCA 57.397 45.455 0.00 0.00 41.43 3.86
2677 2870 2.674754 CCATAAGGTGTGGCCGGT 59.325 61.111 1.90 0.00 43.70 5.28
2713 2911 0.679002 CACACTCCAGGCCATCCAAG 60.679 60.000 5.01 0.00 33.74 3.61
2734 2933 1.597937 GGAAGCGCAAACTGACACTTG 60.598 52.381 11.47 0.00 0.00 3.16
2781 2980 3.368013 GCACCCAAGTTTATTAGGTTGCC 60.368 47.826 0.00 0.00 0.00 4.52
2782 2981 3.829601 CACCCAAGTTTATTAGGTTGCCA 59.170 43.478 0.00 0.00 0.00 4.92
2786 2985 4.380867 CCAAGTTTATTAGGTTGCCAGCTG 60.381 45.833 6.78 6.78 31.45 4.24
2800 2999 2.483013 GCCAGCTGTGTCGATTGGTATA 60.483 50.000 13.81 0.00 0.00 1.47
2831 3030 6.068010 TCTCCTAAAATGAAAAGCACCAAGA 58.932 36.000 0.00 0.00 0.00 3.02
2834 3033 7.153985 TCCTAAAATGAAAAGCACCAAGATTG 58.846 34.615 0.00 0.00 0.00 2.67
2862 3061 5.703130 GGATGTGTTTAGCTCTTTGACTTCT 59.297 40.000 0.00 0.00 0.00 2.85
2867 3066 0.767375 AGCTCTTTGACTTCTGCCCA 59.233 50.000 0.00 0.00 0.00 5.36
2879 3078 1.362224 TCTGCCCACTTTCTAGCCTT 58.638 50.000 0.00 0.00 0.00 4.35
2892 3091 6.655425 ACTTTCTAGCCTTTGCCTAACTAAAG 59.345 38.462 0.00 0.00 38.69 1.85
2893 3092 6.368779 TTCTAGCCTTTGCCTAACTAAAGA 57.631 37.500 0.00 0.00 36.29 2.52
2894 3093 5.978814 TCTAGCCTTTGCCTAACTAAAGAG 58.021 41.667 0.00 0.00 36.29 2.85
2895 3094 3.956744 AGCCTTTGCCTAACTAAAGAGG 58.043 45.455 0.00 0.00 36.29 3.69
2896 3095 3.330998 AGCCTTTGCCTAACTAAAGAGGT 59.669 43.478 0.00 0.00 36.29 3.85
2897 3096 4.534897 AGCCTTTGCCTAACTAAAGAGGTA 59.465 41.667 0.00 0.00 36.29 3.08
2898 3097 5.013808 AGCCTTTGCCTAACTAAAGAGGTAA 59.986 40.000 0.00 0.00 36.29 2.85
2899 3098 5.886474 GCCTTTGCCTAACTAAAGAGGTAAT 59.114 40.000 0.00 0.00 37.30 1.89
2900 3099 7.052248 GCCTTTGCCTAACTAAAGAGGTAATA 58.948 38.462 0.00 0.00 37.30 0.98
2901 3100 7.226918 GCCTTTGCCTAACTAAAGAGGTAATAG 59.773 40.741 0.00 0.00 37.30 1.73
2902 3101 7.226918 CCTTTGCCTAACTAAAGAGGTAATAGC 59.773 40.741 0.00 0.00 37.30 2.97
2903 3102 6.801718 TGCCTAACTAAAGAGGTAATAGCA 57.198 37.500 0.00 0.00 35.08 3.49
2904 3103 6.579865 TGCCTAACTAAAGAGGTAATAGCAC 58.420 40.000 0.00 0.00 35.08 4.40
2905 3104 6.383147 TGCCTAACTAAAGAGGTAATAGCACT 59.617 38.462 0.00 0.00 35.08 4.40
2906 3105 6.702282 GCCTAACTAAAGAGGTAATAGCACTG 59.298 42.308 0.00 0.00 35.08 3.66
2907 3106 6.702282 CCTAACTAAAGAGGTAATAGCACTGC 59.298 42.308 0.00 0.00 0.00 4.40
2908 3107 5.677319 ACTAAAGAGGTAATAGCACTGCA 57.323 39.130 3.30 0.00 0.00 4.41
2909 3108 5.665459 ACTAAAGAGGTAATAGCACTGCAG 58.335 41.667 13.48 13.48 0.00 4.41
2910 3109 3.550437 AAGAGGTAATAGCACTGCAGG 57.450 47.619 19.93 8.27 0.00 4.85
2911 3110 2.472029 AGAGGTAATAGCACTGCAGGT 58.528 47.619 19.93 4.61 0.00 4.00
2912 3111 2.432510 AGAGGTAATAGCACTGCAGGTC 59.567 50.000 19.93 9.05 0.00 3.85
2913 3112 1.486726 AGGTAATAGCACTGCAGGTCC 59.513 52.381 19.93 5.52 0.00 4.46
2914 3113 1.475213 GGTAATAGCACTGCAGGTCCC 60.475 57.143 19.93 2.84 0.00 4.46
2915 3114 1.486726 GTAATAGCACTGCAGGTCCCT 59.513 52.381 19.93 10.43 0.00 4.20
2916 3115 1.879575 AATAGCACTGCAGGTCCCTA 58.120 50.000 19.93 12.24 0.00 3.53
2917 3116 1.879575 ATAGCACTGCAGGTCCCTAA 58.120 50.000 19.93 0.00 0.00 2.69
2918 3117 1.651737 TAGCACTGCAGGTCCCTAAA 58.348 50.000 19.93 0.00 0.00 1.85
2919 3118 0.036875 AGCACTGCAGGTCCCTAAAC 59.963 55.000 19.93 0.00 0.00 2.01
2920 3119 0.036875 GCACTGCAGGTCCCTAAACT 59.963 55.000 19.93 0.00 0.00 2.66
2921 3120 1.545651 GCACTGCAGGTCCCTAAACTT 60.546 52.381 19.93 0.00 0.00 2.66
2922 3121 2.154462 CACTGCAGGTCCCTAAACTTG 58.846 52.381 19.93 0.00 0.00 3.16
2926 3125 2.568623 CAGGTCCCTAAACTTGCAGT 57.431 50.000 0.00 0.00 0.00 4.40
2927 3126 2.154462 CAGGTCCCTAAACTTGCAGTG 58.846 52.381 0.00 0.00 0.00 3.66
2928 3127 1.073923 AGGTCCCTAAACTTGCAGTGG 59.926 52.381 0.00 0.00 0.00 4.00
2929 3128 1.073284 GGTCCCTAAACTTGCAGTGGA 59.927 52.381 0.00 0.00 0.00 4.02
2930 3129 2.290960 GGTCCCTAAACTTGCAGTGGAT 60.291 50.000 0.00 0.00 0.00 3.41
2931 3130 2.749621 GTCCCTAAACTTGCAGTGGATG 59.250 50.000 0.00 0.00 0.00 3.51
2932 3131 2.375174 TCCCTAAACTTGCAGTGGATGT 59.625 45.455 0.00 0.00 0.00 3.06
2933 3132 2.489329 CCCTAAACTTGCAGTGGATGTG 59.511 50.000 3.90 0.00 0.00 3.21
2934 3133 3.411446 CCTAAACTTGCAGTGGATGTGA 58.589 45.455 3.90 0.00 0.00 3.58
2935 3134 4.012374 CCTAAACTTGCAGTGGATGTGAT 58.988 43.478 3.90 0.18 0.00 3.06
2936 3135 3.928727 AAACTTGCAGTGGATGTGATG 57.071 42.857 3.90 0.00 0.00 3.07
2937 3136 2.865119 ACTTGCAGTGGATGTGATGA 57.135 45.000 2.22 0.00 0.00 2.92
2938 3137 3.361281 ACTTGCAGTGGATGTGATGAT 57.639 42.857 2.22 0.00 0.00 2.45
2939 3138 3.693807 ACTTGCAGTGGATGTGATGATT 58.306 40.909 2.22 0.00 0.00 2.57
2940 3139 4.084287 ACTTGCAGTGGATGTGATGATTT 58.916 39.130 2.22 0.00 0.00 2.17
2941 3140 4.082408 ACTTGCAGTGGATGTGATGATTTG 60.082 41.667 2.22 0.00 0.00 2.32
2942 3141 2.756207 TGCAGTGGATGTGATGATTTGG 59.244 45.455 0.00 0.00 0.00 3.28
2943 3142 2.756760 GCAGTGGATGTGATGATTTGGT 59.243 45.455 0.00 0.00 0.00 3.67
2944 3143 3.181493 GCAGTGGATGTGATGATTTGGTC 60.181 47.826 0.00 0.00 0.00 4.02
2945 3144 3.379372 CAGTGGATGTGATGATTTGGTCC 59.621 47.826 0.00 0.00 0.00 4.46
2946 3145 3.267812 AGTGGATGTGATGATTTGGTCCT 59.732 43.478 0.00 0.00 0.00 3.85
2947 3146 4.019174 GTGGATGTGATGATTTGGTCCTT 58.981 43.478 0.00 0.00 0.00 3.36
2948 3147 4.018490 TGGATGTGATGATTTGGTCCTTG 58.982 43.478 0.00 0.00 0.00 3.61
2949 3148 4.263860 TGGATGTGATGATTTGGTCCTTGA 60.264 41.667 0.00 0.00 0.00 3.02
2950 3149 4.706476 GGATGTGATGATTTGGTCCTTGAA 59.294 41.667 0.00 0.00 0.00 2.69
2951 3150 5.163581 GGATGTGATGATTTGGTCCTTGAAG 60.164 44.000 0.00 0.00 0.00 3.02
2952 3151 4.728772 TGTGATGATTTGGTCCTTGAAGT 58.271 39.130 0.00 0.00 0.00 3.01
2953 3152 5.139727 TGTGATGATTTGGTCCTTGAAGTT 58.860 37.500 0.00 0.00 0.00 2.66
2954 3153 5.009911 TGTGATGATTTGGTCCTTGAAGTTG 59.990 40.000 0.00 0.00 0.00 3.16
2955 3154 5.241506 GTGATGATTTGGTCCTTGAAGTTGA 59.758 40.000 0.00 0.00 0.00 3.18
2956 3155 5.832595 TGATGATTTGGTCCTTGAAGTTGAA 59.167 36.000 0.00 0.00 0.00 2.69
2957 3156 6.323482 TGATGATTTGGTCCTTGAAGTTGAAA 59.677 34.615 0.00 0.00 0.00 2.69
2958 3157 6.537453 TGATTTGGTCCTTGAAGTTGAAAA 57.463 33.333 0.00 0.00 0.00 2.29
2959 3158 6.572519 TGATTTGGTCCTTGAAGTTGAAAAG 58.427 36.000 0.00 0.00 0.00 2.27
2960 3159 5.337578 TTTGGTCCTTGAAGTTGAAAAGG 57.662 39.130 0.00 0.00 41.60 3.11
2961 3160 3.976015 TGGTCCTTGAAGTTGAAAAGGT 58.024 40.909 7.94 0.00 41.12 3.50
2962 3161 3.699038 TGGTCCTTGAAGTTGAAAAGGTG 59.301 43.478 7.94 0.00 41.12 4.00
2963 3162 3.068165 GGTCCTTGAAGTTGAAAAGGTGG 59.932 47.826 7.94 0.00 41.12 4.61
2964 3163 3.951680 GTCCTTGAAGTTGAAAAGGTGGA 59.048 43.478 7.94 0.00 41.12 4.02
2965 3164 4.584743 GTCCTTGAAGTTGAAAAGGTGGAT 59.415 41.667 7.94 0.00 41.12 3.41
2966 3165 5.069119 GTCCTTGAAGTTGAAAAGGTGGATT 59.931 40.000 7.94 0.00 41.12 3.01
2967 3166 6.264518 GTCCTTGAAGTTGAAAAGGTGGATTA 59.735 38.462 7.94 0.00 41.12 1.75
2968 3167 7.010160 TCCTTGAAGTTGAAAAGGTGGATTAT 58.990 34.615 7.94 0.00 41.12 1.28
2969 3168 7.508977 TCCTTGAAGTTGAAAAGGTGGATTATT 59.491 33.333 7.94 0.00 41.12 1.40
2970 3169 8.150296 CCTTGAAGTTGAAAAGGTGGATTATTT 58.850 33.333 0.00 0.00 36.50 1.40
2971 3170 9.196552 CTTGAAGTTGAAAAGGTGGATTATTTC 57.803 33.333 0.00 0.00 33.48 2.17
2972 3171 8.243961 TGAAGTTGAAAAGGTGGATTATTTCA 57.756 30.769 0.00 0.00 39.33 2.69
2973 3172 8.869109 TGAAGTTGAAAAGGTGGATTATTTCAT 58.131 29.630 0.00 0.00 40.36 2.57
2974 3173 9.358872 GAAGTTGAAAAGGTGGATTATTTCATC 57.641 33.333 0.00 0.00 40.36 2.92
2975 3174 7.840931 AGTTGAAAAGGTGGATTATTTCATCC 58.159 34.615 0.00 0.00 40.36 3.51
2976 3175 6.790232 TGAAAAGGTGGATTATTTCATCCC 57.210 37.500 0.00 0.00 42.14 3.85
2977 3176 6.502138 TGAAAAGGTGGATTATTTCATCCCT 58.498 36.000 0.00 0.00 42.14 4.20
2978 3177 6.607198 TGAAAAGGTGGATTATTTCATCCCTC 59.393 38.462 0.00 0.00 42.14 4.30
2979 3178 5.732331 AAGGTGGATTATTTCATCCCTCA 57.268 39.130 0.00 0.00 42.14 3.86
2980 3179 5.732331 AGGTGGATTATTTCATCCCTCAA 57.268 39.130 0.00 0.00 42.14 3.02
2981 3180 5.449553 AGGTGGATTATTTCATCCCTCAAC 58.550 41.667 0.00 0.00 42.14 3.18
2982 3181 5.194537 AGGTGGATTATTTCATCCCTCAACT 59.805 40.000 0.00 0.00 42.14 3.16
2983 3182 5.893824 GGTGGATTATTTCATCCCTCAACTT 59.106 40.000 0.00 0.00 42.14 2.66
2984 3183 6.183360 GGTGGATTATTTCATCCCTCAACTTG 60.183 42.308 0.00 0.00 42.14 3.16
2985 3184 6.378280 GTGGATTATTTCATCCCTCAACTTGT 59.622 38.462 0.00 0.00 42.14 3.16
2986 3185 6.603201 TGGATTATTTCATCCCTCAACTTGTC 59.397 38.462 0.00 0.00 42.14 3.18
2987 3186 6.603201 GGATTATTTCATCCCTCAACTTGTCA 59.397 38.462 0.00 0.00 37.36 3.58
2988 3187 7.286316 GGATTATTTCATCCCTCAACTTGTCAT 59.714 37.037 0.00 0.00 37.36 3.06
2989 3188 5.909621 ATTTCATCCCTCAACTTGTCATG 57.090 39.130 0.00 0.00 0.00 3.07
2990 3189 3.354948 TCATCCCTCAACTTGTCATGG 57.645 47.619 0.00 0.00 0.00 3.66
2991 3190 2.912295 TCATCCCTCAACTTGTCATGGA 59.088 45.455 0.00 0.00 0.00 3.41
2992 3191 3.524789 TCATCCCTCAACTTGTCATGGAT 59.475 43.478 0.00 0.00 0.00 3.41
2993 3192 3.354948 TCCCTCAACTTGTCATGGATG 57.645 47.619 0.00 0.00 0.00 3.51
2994 3193 2.644299 TCCCTCAACTTGTCATGGATGT 59.356 45.455 0.00 0.00 0.00 3.06
2995 3194 2.751259 CCCTCAACTTGTCATGGATGTG 59.249 50.000 0.00 0.00 0.00 3.21
2996 3195 2.163010 CCTCAACTTGTCATGGATGTGC 59.837 50.000 0.00 0.00 0.00 4.57
2997 3196 2.815503 CTCAACTTGTCATGGATGTGCA 59.184 45.455 0.00 0.00 0.00 4.57
2998 3197 3.220940 TCAACTTGTCATGGATGTGCAA 58.779 40.909 0.00 0.00 0.00 4.08
2999 3198 3.635836 TCAACTTGTCATGGATGTGCAAA 59.364 39.130 0.00 0.00 0.00 3.68
3000 3199 4.281435 TCAACTTGTCATGGATGTGCAAAT 59.719 37.500 0.00 0.00 0.00 2.32
3001 3200 4.877378 ACTTGTCATGGATGTGCAAATT 57.123 36.364 0.00 0.00 0.00 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 0.950555 CTGCGTTGCACCAAGAGCTA 60.951 55.000 0.00 0.00 33.79 3.32
79 80 1.344438 TCGCTTGACCTCAGAATGTGT 59.656 47.619 0.00 0.00 37.40 3.72
84 85 1.080501 CGCTCGCTTGACCTCAGAA 60.081 57.895 0.00 0.00 0.00 3.02
141 142 0.527600 GTGATCATCGCCACGCTGTA 60.528 55.000 0.00 0.00 0.00 2.74
166 167 3.680786 CCTCGTGTGCTCCGGACA 61.681 66.667 0.00 0.46 0.00 4.02
188 189 3.976701 AAGTCGCGGCCAATGAGGG 62.977 63.158 7.31 0.00 38.09 4.30
255 256 6.358030 CAGTGTGATTTTGAAAATGAGACGTC 59.642 38.462 8.03 7.70 0.00 4.34
286 287 4.519540 AATCGTTTCTTGATTGTTGGGG 57.480 40.909 0.00 0.00 34.86 4.96
295 296 8.085720 TGGTAATTTCGTTAATCGTTTCTTGA 57.914 30.769 0.00 0.00 40.80 3.02
320 324 0.537143 TGCCACAAAGCGGTCTGATT 60.537 50.000 0.00 0.00 34.65 2.57
342 346 1.408702 ACTCAGCCGTGCAATTTGTTT 59.591 42.857 0.00 0.00 0.00 2.83
350 354 2.591429 CAACCACTCAGCCGTGCA 60.591 61.111 0.00 0.00 33.60 4.57
405 421 4.137872 CGTCGCTCCGGGGCTTTA 62.138 66.667 26.87 6.78 0.00 1.85
459 475 1.251251 GGCTGCTTGTTCTTGTGGAT 58.749 50.000 0.00 0.00 0.00 3.41
460 476 0.106769 TGGCTGCTTGTTCTTGTGGA 60.107 50.000 0.00 0.00 0.00 4.02
461 477 0.031178 GTGGCTGCTTGTTCTTGTGG 59.969 55.000 0.00 0.00 0.00 4.17
463 479 1.473258 TTGTGGCTGCTTGTTCTTGT 58.527 45.000 0.00 0.00 0.00 3.16
464 480 2.608752 GGATTGTGGCTGCTTGTTCTTG 60.609 50.000 0.00 0.00 0.00 3.02
465 481 1.615392 GGATTGTGGCTGCTTGTTCTT 59.385 47.619 0.00 0.00 0.00 2.52
466 482 1.251251 GGATTGTGGCTGCTTGTTCT 58.749 50.000 0.00 0.00 0.00 3.01
467 483 0.244721 GGGATTGTGGCTGCTTGTTC 59.755 55.000 0.00 0.00 0.00 3.18
472 494 0.685458 GGAATGGGATTGTGGCTGCT 60.685 55.000 0.00 0.00 0.00 4.24
574 604 1.098050 CTGGCTGCCGCTAAAAAGAT 58.902 50.000 14.98 0.00 36.09 2.40
600 630 2.559668 ACCTCGATCGGTTTCTTGTGTA 59.440 45.455 16.41 0.00 31.94 2.90
613 643 0.179108 CCTTGAACGGGACCTCGATC 60.179 60.000 9.04 7.35 33.49 3.69
614 644 1.898154 CCTTGAACGGGACCTCGAT 59.102 57.895 9.04 0.00 0.00 3.59
615 645 3.373226 CCTTGAACGGGACCTCGA 58.627 61.111 9.04 0.00 0.00 4.04
682 714 4.019174 GGCAAGAAATCAAGAGAATCCCA 58.981 43.478 0.00 0.00 33.66 4.37
775 807 2.288395 CCGAAGCAAAACAAGGCTGAAT 60.288 45.455 0.00 0.00 40.93 2.57
830 863 8.182658 AGAAAAGAATAATTCGGACGAACTAC 57.817 34.615 9.52 1.00 36.91 2.73
843 876 7.175797 AGAAACGAGGGGAAGAAAAGAATAAT 58.824 34.615 0.00 0.00 0.00 1.28
849 882 4.009370 AGAGAAACGAGGGGAAGAAAAG 57.991 45.455 0.00 0.00 0.00 2.27
850 883 5.556006 TTAGAGAAACGAGGGGAAGAAAA 57.444 39.130 0.00 0.00 0.00 2.29
851 884 5.757099 ATTAGAGAAACGAGGGGAAGAAA 57.243 39.130 0.00 0.00 0.00 2.52
899 935 1.725706 CGTGCAAGCAGAAAGAGAGAG 59.274 52.381 0.00 0.00 0.00 3.20
903 939 1.788258 TCTCGTGCAAGCAGAAAGAG 58.212 50.000 0.00 3.03 0.00 2.85
1126 1163 2.788215 AGTAGTACTGGTAGGGGTAGGG 59.212 54.545 5.39 0.00 0.00 3.53
1178 1221 1.601759 GATGATGATGGGGTGGCCG 60.602 63.158 0.00 0.00 0.00 6.13
1191 1234 0.316772 CGAACGAGGCGTACGATGAT 60.317 55.000 21.65 0.00 39.99 2.45
1194 1237 2.277756 GCGAACGAGGCGTACGAT 60.278 61.111 21.65 6.25 39.99 3.73
1212 1261 0.335361 TGGTGGGTAGAGGAGAGGTC 59.665 60.000 0.00 0.00 0.00 3.85
1213 1262 0.041386 GTGGTGGGTAGAGGAGAGGT 59.959 60.000 0.00 0.00 0.00 3.85
1236 1288 3.236003 GAAAGACGGCGAGGTGGGT 62.236 63.158 16.62 0.00 0.00 4.51
1240 1292 2.567049 CGAGAAAGACGGCGAGGT 59.433 61.111 16.62 0.00 0.00 3.85
1288 1340 4.776322 CATGCCCGAAGCGGTGGA 62.776 66.667 5.06 0.00 46.80 4.02
1289 1341 4.776322 TCATGCCCGAAGCGGTGG 62.776 66.667 5.06 0.00 46.80 4.61
1290 1342 2.745884 TTCATGCCCGAAGCGGTG 60.746 61.111 5.06 0.00 46.80 4.94
1291 1343 2.746277 GTTCATGCCCGAAGCGGT 60.746 61.111 5.06 0.00 46.80 5.68
1500 1558 1.667830 GTACAGCTTGGACTGCGCA 60.668 57.895 10.98 10.98 41.60 6.09
1536 1594 2.776526 ACCCACTTGCCCCAGTGA 60.777 61.111 8.91 0.00 46.29 3.41
1662 1720 4.344865 TTGAGGCGGGCAAGGTCC 62.345 66.667 3.78 0.00 0.00 4.46
1668 1726 4.344865 GGGAAGTTGAGGCGGGCA 62.345 66.667 3.78 0.00 0.00 5.36
2055 2174 0.100682 CCGATCCGAGCGAAAGAGAA 59.899 55.000 7.80 0.00 0.00 2.87
2238 2361 3.121030 CTCGACTGGCCGCCTTTG 61.121 66.667 11.61 3.61 0.00 2.77
2239 2362 3.302347 CTCTCGACTGGCCGCCTTT 62.302 63.158 11.61 0.00 0.00 3.11
2258 2381 7.446013 TCTTTCAACGGGTAAACAAGATTACAT 59.554 33.333 3.24 0.00 37.48 2.29
2266 2389 5.044558 GCAATTCTTTCAACGGGTAAACAA 58.955 37.500 0.00 0.00 0.00 2.83
2363 2486 0.179215 CGAAAGCCGCTACAGCAAAG 60.179 55.000 1.61 0.00 42.21 2.77
2364 2487 0.882927 ACGAAAGCCGCTACAGCAAA 60.883 50.000 1.61 0.00 43.32 3.68
2376 2499 2.202349 GGATGCACGCACGAAAGC 60.202 61.111 0.00 0.00 0.00 3.51
2377 2500 2.034879 AGGGATGCACGCACGAAAG 61.035 57.895 0.00 0.00 0.00 2.62
2382 2505 1.672356 AACTCAGGGATGCACGCAC 60.672 57.895 0.00 0.00 0.00 5.34
2606 2799 3.258372 ACTCTGCTCCGTTCATAACTTCA 59.742 43.478 0.00 0.00 0.00 3.02
2607 2800 3.851098 ACTCTGCTCCGTTCATAACTTC 58.149 45.455 0.00 0.00 0.00 3.01
2608 2801 3.963428 ACTCTGCTCCGTTCATAACTT 57.037 42.857 0.00 0.00 0.00 2.66
2609 2802 3.511934 AGAACTCTGCTCCGTTCATAACT 59.488 43.478 12.64 0.00 41.40 2.24
2610 2803 3.851098 AGAACTCTGCTCCGTTCATAAC 58.149 45.455 12.64 0.00 41.40 1.89
2611 2804 4.537135 AAGAACTCTGCTCCGTTCATAA 57.463 40.909 12.64 0.00 41.40 1.90
2612 2805 4.440250 GCTAAGAACTCTGCTCCGTTCATA 60.440 45.833 12.64 6.43 41.40 2.15
2613 2806 3.677424 GCTAAGAACTCTGCTCCGTTCAT 60.677 47.826 12.64 5.78 41.40 2.57
2635 2828 4.342665 GGAGTAGACCATAAGACTGGAAGG 59.657 50.000 0.00 0.00 39.73 3.46
2636 2829 4.956700 TGGAGTAGACCATAAGACTGGAAG 59.043 45.833 0.00 0.00 39.73 3.46
2638 2831 4.279145 GTGGAGTAGACCATAAGACTGGA 58.721 47.826 0.00 0.00 42.17 3.86
2640 2833 4.023980 TGGTGGAGTAGACCATAAGACTG 58.976 47.826 0.00 0.00 42.17 3.51
2641 2834 4.332683 TGGTGGAGTAGACCATAAGACT 57.667 45.455 0.00 0.00 42.17 3.24
2648 2841 3.484953 ACCTTATGGTGGAGTAGACCA 57.515 47.619 0.00 0.00 46.51 4.02
2663 2856 0.250553 CTTTGACCGGCCACACCTTA 60.251 55.000 0.00 0.00 35.61 2.69
2667 2860 0.534203 TCTTCTTTGACCGGCCACAC 60.534 55.000 0.00 0.00 0.00 3.82
2668 2861 0.181587 TTCTTCTTTGACCGGCCACA 59.818 50.000 0.00 0.00 0.00 4.17
2669 2862 0.591659 GTTCTTCTTTGACCGGCCAC 59.408 55.000 0.00 0.00 0.00 5.01
2670 2863 0.882927 CGTTCTTCTTTGACCGGCCA 60.883 55.000 0.00 0.00 0.00 5.36
2672 2865 0.942252 AACGTTCTTCTTTGACCGGC 59.058 50.000 0.00 0.00 0.00 6.13
2674 2867 1.333791 GGCAACGTTCTTCTTTGACCG 60.334 52.381 0.00 0.00 28.50 4.79
2675 2868 1.673920 TGGCAACGTTCTTCTTTGACC 59.326 47.619 0.00 0.00 42.51 4.02
2676 2869 2.096819 TGTGGCAACGTTCTTCTTTGAC 59.903 45.455 0.00 0.00 42.51 3.18
2677 2870 2.096819 GTGTGGCAACGTTCTTCTTTGA 59.903 45.455 0.00 0.00 42.51 2.69
2707 2905 0.251341 AGTTTGCGCTTCCCTTGGAT 60.251 50.000 9.73 0.00 0.00 3.41
2708 2906 1.150536 AGTTTGCGCTTCCCTTGGA 59.849 52.632 9.73 0.00 0.00 3.53
2713 2911 1.166531 AGTGTCAGTTTGCGCTTCCC 61.167 55.000 9.73 0.00 0.00 3.97
2734 2933 4.611366 GCGTGTAAATAAGTTGTTGCTGTC 59.389 41.667 0.00 0.00 0.00 3.51
2781 2980 3.555956 GGTTATACCAATCGACACAGCTG 59.444 47.826 13.48 13.48 38.42 4.24
2782 2981 3.451178 AGGTTATACCAATCGACACAGCT 59.549 43.478 0.00 0.00 41.95 4.24
2786 2985 5.903810 AGAAGAGGTTATACCAATCGACAC 58.096 41.667 0.00 0.00 41.95 3.67
2800 2999 6.777580 TGCTTTTCATTTTAGGAGAAGAGGTT 59.222 34.615 0.00 0.00 30.36 3.50
2831 3030 5.086104 AGAGCTAAACACATCCGTACAAT 57.914 39.130 0.00 0.00 0.00 2.71
2834 3033 4.927425 TCAAAGAGCTAAACACATCCGTAC 59.073 41.667 0.00 0.00 0.00 3.67
2862 3061 1.909700 CAAAGGCTAGAAAGTGGGCA 58.090 50.000 0.00 0.00 34.09 5.36
2867 3066 4.642466 AGTTAGGCAAAGGCTAGAAAGT 57.358 40.909 0.00 0.00 41.54 2.66
2879 3078 7.046033 GTGCTATTACCTCTTTAGTTAGGCAA 58.954 38.462 0.00 0.00 36.24 4.52
2892 3091 2.483889 GGACCTGCAGTGCTATTACCTC 60.484 54.545 17.60 1.32 33.19 3.85
2893 3092 1.486726 GGACCTGCAGTGCTATTACCT 59.513 52.381 17.60 0.00 33.19 3.08
2894 3093 1.475213 GGGACCTGCAGTGCTATTACC 60.475 57.143 17.60 12.53 36.93 2.85
2895 3094 1.486726 AGGGACCTGCAGTGCTATTAC 59.513 52.381 17.60 3.98 36.93 1.89
2896 3095 1.879575 AGGGACCTGCAGTGCTATTA 58.120 50.000 17.60 0.00 36.93 0.98
2897 3096 1.879575 TAGGGACCTGCAGTGCTATT 58.120 50.000 17.60 0.00 36.93 1.73
2898 3097 1.879575 TTAGGGACCTGCAGTGCTAT 58.120 50.000 17.60 0.90 36.93 2.97
2899 3098 1.278127 GTTTAGGGACCTGCAGTGCTA 59.722 52.381 17.60 1.74 36.93 3.49
2900 3099 0.036875 GTTTAGGGACCTGCAGTGCT 59.963 55.000 17.60 0.00 36.93 4.40
2901 3100 0.036875 AGTTTAGGGACCTGCAGTGC 59.963 55.000 13.81 8.58 35.74 4.40
2902 3101 2.154462 CAAGTTTAGGGACCTGCAGTG 58.846 52.381 13.81 6.81 0.00 3.66
2903 3102 1.545651 GCAAGTTTAGGGACCTGCAGT 60.546 52.381 13.81 0.11 37.04 4.40
2904 3103 1.168714 GCAAGTTTAGGGACCTGCAG 58.831 55.000 6.78 6.78 37.04 4.41
2905 3104 0.476338 TGCAAGTTTAGGGACCTGCA 59.524 50.000 0.00 0.00 42.83 4.41
2906 3105 1.168714 CTGCAAGTTTAGGGACCTGC 58.831 55.000 0.00 0.00 37.47 4.85
2919 3118 4.421058 CAAATCATCACATCCACTGCAAG 58.579 43.478 0.00 0.00 42.29 4.01
2920 3119 3.193903 CCAAATCATCACATCCACTGCAA 59.806 43.478 0.00 0.00 0.00 4.08
2921 3120 2.756207 CCAAATCATCACATCCACTGCA 59.244 45.455 0.00 0.00 0.00 4.41
2922 3121 2.756760 ACCAAATCATCACATCCACTGC 59.243 45.455 0.00 0.00 0.00 4.40
2923 3122 3.379372 GGACCAAATCATCACATCCACTG 59.621 47.826 0.00 0.00 0.00 3.66
2924 3123 3.267812 AGGACCAAATCATCACATCCACT 59.732 43.478 0.00 0.00 0.00 4.00
2925 3124 3.624777 AGGACCAAATCATCACATCCAC 58.375 45.455 0.00 0.00 0.00 4.02
2926 3125 4.018490 CAAGGACCAAATCATCACATCCA 58.982 43.478 0.00 0.00 0.00 3.41
2927 3126 4.272489 TCAAGGACCAAATCATCACATCC 58.728 43.478 0.00 0.00 0.00 3.51
2928 3127 5.416952 ACTTCAAGGACCAAATCATCACATC 59.583 40.000 0.00 0.00 0.00 3.06
2929 3128 5.327732 ACTTCAAGGACCAAATCATCACAT 58.672 37.500 0.00 0.00 0.00 3.21
2930 3129 4.728772 ACTTCAAGGACCAAATCATCACA 58.271 39.130 0.00 0.00 0.00 3.58
2931 3130 5.241506 TCAACTTCAAGGACCAAATCATCAC 59.758 40.000 0.00 0.00 0.00 3.06
2932 3131 5.384336 TCAACTTCAAGGACCAAATCATCA 58.616 37.500 0.00 0.00 0.00 3.07
2933 3132 5.964958 TCAACTTCAAGGACCAAATCATC 57.035 39.130 0.00 0.00 0.00 2.92
2934 3133 6.729690 TTTCAACTTCAAGGACCAAATCAT 57.270 33.333 0.00 0.00 0.00 2.45
2935 3134 6.406849 CCTTTTCAACTTCAAGGACCAAATCA 60.407 38.462 0.00 0.00 39.73 2.57
2936 3135 5.985530 CCTTTTCAACTTCAAGGACCAAATC 59.014 40.000 0.00 0.00 39.73 2.17
2937 3136 5.425217 ACCTTTTCAACTTCAAGGACCAAAT 59.575 36.000 4.18 0.00 39.73 2.32
2938 3137 4.775253 ACCTTTTCAACTTCAAGGACCAAA 59.225 37.500 4.18 0.00 39.73 3.28
2939 3138 4.159506 CACCTTTTCAACTTCAAGGACCAA 59.840 41.667 4.18 0.00 39.73 3.67
2940 3139 3.699038 CACCTTTTCAACTTCAAGGACCA 59.301 43.478 4.18 0.00 39.73 4.02
2941 3140 3.068165 CCACCTTTTCAACTTCAAGGACC 59.932 47.826 4.18 0.00 39.73 4.46
2942 3141 3.951680 TCCACCTTTTCAACTTCAAGGAC 59.048 43.478 4.18 0.00 39.73 3.85
2943 3142 4.243793 TCCACCTTTTCAACTTCAAGGA 57.756 40.909 4.18 0.00 39.73 3.36
2944 3143 5.535753 AATCCACCTTTTCAACTTCAAGG 57.464 39.130 0.00 0.00 42.59 3.61
2945 3144 9.196552 GAAATAATCCACCTTTTCAACTTCAAG 57.803 33.333 0.00 0.00 0.00 3.02
2946 3145 8.700051 TGAAATAATCCACCTTTTCAACTTCAA 58.300 29.630 0.00 0.00 35.71 2.69
2947 3146 8.243961 TGAAATAATCCACCTTTTCAACTTCA 57.756 30.769 0.00 0.00 35.71 3.02
2948 3147 9.358872 GATGAAATAATCCACCTTTTCAACTTC 57.641 33.333 0.00 0.00 40.36 3.01
2949 3148 8.314021 GGATGAAATAATCCACCTTTTCAACTT 58.686 33.333 0.00 0.00 44.85 2.66
2950 3149 7.093333 GGGATGAAATAATCCACCTTTTCAACT 60.093 37.037 5.63 0.00 46.94 3.16
2951 3150 7.041721 GGGATGAAATAATCCACCTTTTCAAC 58.958 38.462 5.63 0.00 46.94 3.18
2952 3151 6.959366 AGGGATGAAATAATCCACCTTTTCAA 59.041 34.615 5.63 0.00 46.94 2.69
2953 3152 6.502138 AGGGATGAAATAATCCACCTTTTCA 58.498 36.000 5.63 0.00 46.94 2.69
2954 3153 6.607198 TGAGGGATGAAATAATCCACCTTTTC 59.393 38.462 5.63 0.00 46.94 2.29
2955 3154 6.502138 TGAGGGATGAAATAATCCACCTTTT 58.498 36.000 5.63 0.00 46.94 2.27
2956 3155 6.091076 TGAGGGATGAAATAATCCACCTTT 57.909 37.500 5.63 0.00 46.94 3.11
2957 3156 5.732331 TGAGGGATGAAATAATCCACCTT 57.268 39.130 5.63 0.00 46.94 3.50
2958 3157 5.194537 AGTTGAGGGATGAAATAATCCACCT 59.805 40.000 5.63 0.00 46.94 4.00
2959 3158 5.449553 AGTTGAGGGATGAAATAATCCACC 58.550 41.667 5.63 0.00 46.94 4.61
2960 3159 6.378280 ACAAGTTGAGGGATGAAATAATCCAC 59.622 38.462 10.54 0.41 46.94 4.02
2961 3160 6.493166 ACAAGTTGAGGGATGAAATAATCCA 58.507 36.000 10.54 0.00 46.94 3.41
2962 3161 6.603201 TGACAAGTTGAGGGATGAAATAATCC 59.397 38.462 10.54 0.00 44.76 3.01
2963 3162 7.630242 TGACAAGTTGAGGGATGAAATAATC 57.370 36.000 10.54 0.00 0.00 1.75
2964 3163 7.069085 CCATGACAAGTTGAGGGATGAAATAAT 59.931 37.037 10.54 0.00 0.00 1.28
2965 3164 6.377996 CCATGACAAGTTGAGGGATGAAATAA 59.622 38.462 10.54 0.00 0.00 1.40
2966 3165 5.887598 CCATGACAAGTTGAGGGATGAAATA 59.112 40.000 10.54 0.00 0.00 1.40
2967 3166 4.708421 CCATGACAAGTTGAGGGATGAAAT 59.292 41.667 10.54 0.00 0.00 2.17
2968 3167 4.081406 CCATGACAAGTTGAGGGATGAAA 58.919 43.478 10.54 0.00 0.00 2.69
2969 3168 3.330405 TCCATGACAAGTTGAGGGATGAA 59.670 43.478 10.54 0.00 0.00 2.57
2970 3169 2.912295 TCCATGACAAGTTGAGGGATGA 59.088 45.455 10.54 0.00 0.00 2.92
2971 3170 3.354948 TCCATGACAAGTTGAGGGATG 57.645 47.619 10.54 5.68 0.00 3.51
2972 3171 3.267812 ACATCCATGACAAGTTGAGGGAT 59.732 43.478 10.54 7.38 34.13 3.85
2973 3172 2.644299 ACATCCATGACAAGTTGAGGGA 59.356 45.455 10.54 5.09 0.00 4.20
2974 3173 2.751259 CACATCCATGACAAGTTGAGGG 59.249 50.000 10.54 0.00 0.00 4.30
2975 3174 2.163010 GCACATCCATGACAAGTTGAGG 59.837 50.000 10.54 6.02 0.00 3.86
2976 3175 2.815503 TGCACATCCATGACAAGTTGAG 59.184 45.455 10.54 0.00 0.00 3.02
2977 3176 2.861274 TGCACATCCATGACAAGTTGA 58.139 42.857 10.54 0.00 0.00 3.18
2978 3177 3.646611 TTGCACATCCATGACAAGTTG 57.353 42.857 0.00 0.00 0.00 3.16
2979 3178 4.877378 ATTTGCACATCCATGACAAGTT 57.123 36.364 0.00 0.00 32.32 2.66
2980 3179 4.877378 AATTTGCACATCCATGACAAGT 57.123 36.364 0.00 0.00 32.32 3.16


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

AutoCloner maintained by Alex Coulton.