Multiple sequence alignment - TraesCS5A01G189800

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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 TraesCS5A01G189800 chr5A 100.000 3176 0 0 1 3176 393362647 393365822 0.000000e+00 5866.0
1 TraesCS5A01G189800 chr5A 81.319 91 17 0 3062 3152 385545930 385546020 1.220000e-09 75.0
2 TraesCS5A01G189800 chr5B 88.694 1822 148 33 120 1913 349380600 349378809 0.000000e+00 2170.0
3 TraesCS5A01G189800 chr5B 90.041 482 26 7 1944 2423 349378715 349378254 3.500000e-169 604.0
4 TraesCS5A01G189800 chr5B 84.682 346 31 12 2625 2960 349377394 349377061 3.060000e-85 326.0
5 TraesCS5A01G189800 chr5B 91.216 148 11 2 2471 2618 349377582 349377437 1.930000e-47 200.0
6 TraesCS5A01G189800 chr5B 85.484 124 18 0 3032 3155 539032140 539032017 2.570000e-26 130.0
7 TraesCS5A01G189800 chr5D 87.757 1748 158 36 209 1915 304741549 304739817 0.000000e+00 1991.0
8 TraesCS5A01G189800 chr5D 90.485 515 28 13 1944 2448 304739756 304739253 0.000000e+00 660.0
9 TraesCS5A01G189800 chr5D 81.003 379 42 21 2624 2995 304738999 304738644 1.120000e-69 274.0
10 TraesCS5A01G189800 chr2D 87.402 127 15 1 3023 3148 612454620 612454746 9.180000e-31 145.0
11 TraesCS5A01G189800 chr6D 80.672 119 21 2 3032 3149 452731513 452731630 1.210000e-14 91.6
12 TraesCS5A01G189800 chrUn 81.818 99 17 1 3061 3158 100201251 100201153 7.300000e-12 82.4
13 TraesCS5A01G189800 chr6B 78.512 121 26 0 3032 3152 370158495 370158375 2.630000e-11 80.5
14 TraesCS5A01G189800 chr7B 82.955 88 14 1 3062 3149 335623380 335623466 9.450000e-11 78.7
15 TraesCS5A01G189800 chr7B 77.966 118 26 0 3032 3149 708434620 708434503 1.220000e-09 75.0
16 TraesCS5A01G189800 chr6A 76.471 119 26 2 3032 3149 15583224 15583107 2.640000e-06 63.9


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 TraesCS5A01G189800 chr5A 393362647 393365822 3175 False 5866 5866 100.00000 1 3176 1 chr5A.!!$F2 3175
1 TraesCS5A01G189800 chr5B 349377061 349380600 3539 True 825 2170 88.65825 120 2960 4 chr5B.!!$R2 2840
2 TraesCS5A01G189800 chr5D 304738644 304741549 2905 True 975 1991 86.41500 209 2995 3 chr5D.!!$R1 2786

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
750 831 0.596341 CCAAAGCCGGTGGAAAAACG 60.596 55.0 1.9 0.0 38.54 3.60 F
1345 1428 0.318869 TTTGCAGCTTGATTGTGCGG 60.319 50.0 0.0 0.0 40.23 5.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2055 2205 0.396811 ACCTGTACAGCTTGTCCCAC 59.603 55.0 17.86 0.0 0.00 4.61 R
3125 3966 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.0 5.23 0.0 44.66 2.12 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
28 29 9.883142 AACTTTCAAAAATTGGAAATACACAGA 57.117 25.926 0.00 0.00 33.00 3.41
29 30 9.533253 ACTTTCAAAAATTGGAAATACACAGAG 57.467 29.630 0.00 0.00 33.00 3.35
30 31 9.748708 CTTTCAAAAATTGGAAATACACAGAGA 57.251 29.630 0.00 0.00 33.00 3.10
111 112 9.011095 TGTATGGTAAACAATTTTTCCGATACA 57.989 29.630 0.00 0.00 35.99 2.29
115 116 9.233649 TGGTAAACAATTTTTCCGATACATACT 57.766 29.630 0.00 0.00 35.42 2.12
116 117 9.498307 GGTAAACAATTTTTCCGATACATACTG 57.502 33.333 0.00 0.00 0.00 2.74
126 127 7.931578 TTCCGATACATACTGACCAAATTTT 57.068 32.000 0.00 0.00 0.00 1.82
129 130 9.621629 TCCGATACATACTGACCAAATTTTTAT 57.378 29.630 0.00 0.00 0.00 1.40
180 184 4.827835 TGAAATTTTCCCATGTACGGTGAA 59.172 37.500 6.68 0.00 0.00 3.18
182 186 6.659668 TGAAATTTTCCCATGTACGGTGAATA 59.340 34.615 6.68 0.00 0.00 1.75
219 223 8.256611 ACACACTGATCATTTATACACTGAAC 57.743 34.615 0.00 0.00 0.00 3.18
220 224 7.063426 ACACACTGATCATTTATACACTGAACG 59.937 37.037 0.00 0.00 0.00 3.95
224 228 9.647797 ACTGATCATTTATACACTGAACGTTTA 57.352 29.630 0.46 0.00 0.00 2.01
236 240 7.197017 ACACTGAACGTTTAATTAAATGCACA 58.803 30.769 23.93 21.30 36.01 4.57
287 292 4.149598 AGAAAAGTAGAAAAACCGGGCAT 58.850 39.130 6.32 0.00 0.00 4.40
306 312 6.483307 CGGGCATGAAACATAGAGAAGAAATA 59.517 38.462 0.00 0.00 0.00 1.40
331 371 4.842029 TGCCAATTTGAAACAAAAATCGC 58.158 34.783 0.00 0.00 0.00 4.58
421 471 5.794726 TGCAAATCCAGAATATTCCATGG 57.205 39.130 14.74 14.74 0.00 3.66
424 474 5.987347 GCAAATCCAGAATATTCCATGGTTG 59.013 40.000 18.44 16.93 34.32 3.77
449 499 7.592903 TGACAAAAAGTTTGCAAATCCAAAAAC 59.407 29.630 16.21 0.00 36.55 2.43
460 512 7.846485 TGCAAATCCAAAAACTTTACGAATTC 58.154 30.769 0.00 0.00 0.00 2.17
478 530 8.647143 ACGAATTCAAAAGTTCACAAATTCAT 57.353 26.923 6.22 0.00 34.39 2.57
479 531 9.097257 ACGAATTCAAAAGTTCACAAATTCATT 57.903 25.926 6.22 0.00 34.39 2.57
580 654 8.757164 AAATATCCACAAAAATCGAAAAGGTC 57.243 30.769 0.00 0.00 0.00 3.85
581 655 5.782893 ATCCACAAAAATCGAAAAGGTCA 57.217 34.783 0.00 0.00 0.00 4.02
583 657 3.728718 CCACAAAAATCGAAAAGGTCACG 59.271 43.478 0.00 0.00 0.00 4.35
584 658 4.496673 CCACAAAAATCGAAAAGGTCACGA 60.497 41.667 0.00 0.00 40.18 4.35
586 660 5.685511 CACAAAAATCGAAAAGGTCACGAAT 59.314 36.000 0.00 0.00 39.38 3.34
722 803 7.749539 TTCTGAAATTTCAAAAAGTCCGAAC 57.250 32.000 20.82 0.00 36.64 3.95
750 831 0.596341 CCAAAGCCGGTGGAAAAACG 60.596 55.000 1.90 0.00 38.54 3.60
758 839 0.958876 GGTGGAAAAACGATCCCGCT 60.959 55.000 0.00 0.00 39.95 5.52
837 918 2.577059 CGGCCTCAAACCGCTCTA 59.423 61.111 0.00 0.00 44.90 2.43
865 946 4.408921 CCACCTTCCACATATCTTGTCCTA 59.591 45.833 0.00 0.00 36.00 2.94
867 948 5.363868 CACCTTCCACATATCTTGTCCTAGA 59.636 44.000 0.00 0.00 36.00 2.43
953 1035 2.512515 GTGATCCTCGGCAGGTGC 60.513 66.667 0.00 0.00 41.28 5.01
1050 1132 3.637273 GTGAAGGACCGGGTGGCT 61.637 66.667 3.30 0.00 39.70 4.75
1183 1265 0.684805 GGGCGAGGAGGAGAAGAAGA 60.685 60.000 0.00 0.00 0.00 2.87
1307 1389 2.502093 CGGCCCAATGGTACGCTA 59.498 61.111 0.00 0.00 0.00 4.26
1313 1395 1.003851 CCAATGGTACGCTACGTTGG 58.996 55.000 0.00 9.50 41.54 3.77
1314 1396 1.673626 CCAATGGTACGCTACGTTGGT 60.674 52.381 13.63 0.00 41.54 3.67
1344 1427 0.780002 GTTTGCAGCTTGATTGTGCG 59.220 50.000 0.00 0.00 40.23 5.34
1345 1428 0.318869 TTTGCAGCTTGATTGTGCGG 60.319 50.000 0.00 0.00 40.23 5.69
1350 1433 1.517694 GCTTGATTGTGCGGGCATG 60.518 57.895 0.00 0.00 0.00 4.06
1353 1436 1.135527 CTTGATTGTGCGGGCATGAAT 59.864 47.619 0.00 0.00 0.00 2.57
1355 1438 0.740149 GATTGTGCGGGCATGAATGA 59.260 50.000 0.00 0.00 0.00 2.57
1357 1440 1.184431 TTGTGCGGGCATGAATGATT 58.816 45.000 0.00 0.00 0.00 2.57
1640 1723 3.838795 GCACGCGCCTACTCGTTG 61.839 66.667 5.73 0.00 34.41 4.10
1654 1737 3.829948 ACTCGTTGAGTTACATACCACG 58.170 45.455 0.00 0.00 40.28 4.94
1658 1741 7.732976 ACTCGTTGAGTTACATACCACGTAGT 61.733 42.308 0.00 0.00 40.28 2.73
1659 1742 4.790140 CGTTGAGTTACATACCACGTAGTC 59.210 45.833 0.00 0.00 41.61 2.59
1729 1813 1.664965 GTGGCTGAAGACGAAGCGT 60.665 57.895 0.00 0.00 45.10 5.07
1730 1814 1.664649 TGGCTGAAGACGAAGCGTG 60.665 57.895 0.00 0.00 41.37 5.34
1731 1815 2.383527 GGCTGAAGACGAAGCGTGG 61.384 63.158 0.00 0.00 41.37 4.94
1807 1891 0.528684 GGCTGTACGAGTGCATCCTC 60.529 60.000 6.89 0.00 30.43 3.71
1852 1936 0.531200 CGTCCTACTGGTGGAACTCC 59.469 60.000 0.00 0.00 43.26 3.85
1915 1999 1.505353 GGTCTCCGACAGGTACGTG 59.495 63.158 13.84 13.84 39.05 4.49
1917 2001 2.202440 CTCCGACAGGTACGTGCG 60.202 66.667 15.25 17.38 39.05 5.34
1918 2002 2.974489 CTCCGACAGGTACGTGCGT 61.974 63.158 21.73 2.05 39.05 5.24
1919 2003 1.638388 CTCCGACAGGTACGTGCGTA 61.638 60.000 21.73 11.86 39.05 4.42
1920 2004 1.226211 CCGACAGGTACGTGCGTAG 60.226 63.158 21.73 10.51 0.00 3.51
1922 2006 0.721154 CGACAGGTACGTGCGTAGTA 59.279 55.000 15.25 0.00 0.00 1.82
1924 2008 1.464608 GACAGGTACGTGCGTAGTACA 59.535 52.381 15.25 0.00 45.55 2.90
1925 2009 1.466167 ACAGGTACGTGCGTAGTACAG 59.534 52.381 15.25 10.44 45.55 2.74
1926 2010 1.466167 CAGGTACGTGCGTAGTACAGT 59.534 52.381 14.97 0.00 45.55 3.55
1927 2011 2.672874 CAGGTACGTGCGTAGTACAGTA 59.327 50.000 14.97 0.00 45.55 2.74
1928 2012 2.673368 AGGTACGTGCGTAGTACAGTAC 59.327 50.000 14.97 2.05 45.55 2.73
1929 2013 2.673368 GGTACGTGCGTAGTACAGTACT 59.327 50.000 17.51 17.51 45.55 2.73
1931 2015 3.461946 ACGTGCGTAGTACAGTACTTC 57.538 47.619 18.56 12.43 45.55 3.01
1932 2016 2.159787 ACGTGCGTAGTACAGTACTTCG 60.160 50.000 26.87 26.87 45.55 3.79
1933 2017 2.159787 CGTGCGTAGTACAGTACTTCGT 60.160 50.000 29.46 8.16 46.75 3.85
1934 2018 3.060761 CGTGCGTAGTACAGTACTTCGTA 59.939 47.826 29.46 25.52 46.75 3.43
1936 2020 4.960354 GTGCGTAGTACAGTACTTCGTATG 59.040 45.833 29.46 15.42 46.75 2.39
1937 2021 4.869861 TGCGTAGTACAGTACTTCGTATGA 59.130 41.667 29.46 15.46 46.75 2.15
1938 2022 5.525012 TGCGTAGTACAGTACTTCGTATGAT 59.475 40.000 29.46 5.39 46.75 2.45
1940 2024 6.909357 GCGTAGTACAGTACTTCGTATGATTT 59.091 38.462 29.46 4.34 46.75 2.17
1941 2025 7.430502 GCGTAGTACAGTACTTCGTATGATTTT 59.569 37.037 29.46 4.17 46.75 1.82
1942 2026 8.731326 CGTAGTACAGTACTTCGTATGATTTTG 58.269 37.037 24.29 1.05 42.28 2.44
1965 2115 3.543680 TTTGTTTTTGCGGGGATCAAA 57.456 38.095 0.00 0.00 0.00 2.69
1968 2118 2.695666 TGTTTTTGCGGGGATCAAAGAA 59.304 40.909 0.00 0.00 35.21 2.52
1969 2119 3.323403 TGTTTTTGCGGGGATCAAAGAAT 59.677 39.130 0.00 0.00 35.21 2.40
2000 2150 2.679837 GAGTGATTCGTGGTGCAATGAT 59.320 45.455 0.00 0.00 0.00 2.45
2290 2440 8.243426 TGTGTTGATCTGGAAACTAAATAATGC 58.757 33.333 0.00 0.00 0.00 3.56
2360 2510 2.038837 GGCGCAGGTAGTGGGTTTC 61.039 63.158 10.83 0.00 41.24 2.78
2366 2516 2.039348 GCAGGTAGTGGGTTTCCTGTTA 59.961 50.000 10.94 0.00 46.23 2.41
2367 2517 3.868754 GCAGGTAGTGGGTTTCCTGTTAG 60.869 52.174 10.94 0.00 46.23 2.34
2368 2518 2.305052 AGGTAGTGGGTTTCCTGTTAGC 59.695 50.000 0.00 0.00 0.00 3.09
2382 2548 3.096092 CTGTTAGCTCCTCTCCTGTCTT 58.904 50.000 0.00 0.00 0.00 3.01
2404 2570 4.950050 TCTGTTCTCTTGTTCTGGAACTC 58.050 43.478 13.54 0.00 41.67 3.01
2412 2578 7.155328 TCTCTTGTTCTGGAACTCTGTATTTC 58.845 38.462 13.54 0.00 41.67 2.17
2415 2581 4.039973 TGTTCTGGAACTCTGTATTTCCGT 59.960 41.667 13.54 0.00 43.83 4.69
2448 2669 2.224670 TGGAAAGTGGTTAATGCTCGGT 60.225 45.455 0.00 0.00 0.00 4.69
2449 2670 2.817844 GGAAAGTGGTTAATGCTCGGTT 59.182 45.455 0.00 0.00 0.00 4.44
2493 3283 3.992943 AACATACCTTCGGATGGTTGA 57.007 42.857 19.27 4.64 38.88 3.18
2506 3296 5.646360 TCGGATGGTTGAAGATAAAAGTTCC 59.354 40.000 0.00 0.00 0.00 3.62
2618 3410 0.108992 CCATTGCAACGCAGCTGAAT 60.109 50.000 20.43 3.85 40.61 2.57
2620 3412 0.599558 ATTGCAACGCAGCTGAATGT 59.400 45.000 20.43 9.51 40.61 2.71
2621 3413 1.233919 TTGCAACGCAGCTGAATGTA 58.766 45.000 20.43 9.17 40.61 2.29
2622 3414 0.516877 TGCAACGCAGCTGAATGTAC 59.483 50.000 20.43 8.72 33.32 2.90
2624 3416 1.067693 CAACGCAGCTGAATGTACGA 58.932 50.000 20.43 0.00 0.00 3.43
2625 3417 1.459209 CAACGCAGCTGAATGTACGAA 59.541 47.619 20.43 0.00 0.00 3.85
2626 3418 1.068474 ACGCAGCTGAATGTACGAAC 58.932 50.000 20.43 0.00 0.00 3.95
2627 3419 1.336887 ACGCAGCTGAATGTACGAACT 60.337 47.619 20.43 0.00 0.00 3.01
2629 3421 2.472886 CGCAGCTGAATGTACGAACTTG 60.473 50.000 20.43 0.00 0.00 3.16
2661 3491 1.152610 CGTTCTCCCCGGATCCCTA 60.153 63.158 0.73 0.00 0.00 3.53
2662 3492 1.179814 CGTTCTCCCCGGATCCCTAG 61.180 65.000 0.73 0.00 0.00 3.02
2663 3493 0.832559 GTTCTCCCCGGATCCCTAGG 60.833 65.000 0.73 0.06 0.00 3.02
2692 3528 3.676093 AGCTCTTTTCCGGTTTTAGGAG 58.324 45.455 0.00 4.58 39.22 3.69
2754 3593 5.275741 GCTTTCGTTCTTTCCGTTCTTTTTG 60.276 40.000 0.00 0.00 0.00 2.44
2770 3609 7.149680 CGTTCTTTTTGCATTTTCGATTTTTCG 60.150 33.333 0.00 0.00 0.00 3.46
2771 3610 7.456684 TCTTTTTGCATTTTCGATTTTTCGA 57.543 28.000 0.00 0.00 40.66 3.71
2777 3616 8.692543 TTGCATTTTCGATTTTTCGATTTTTC 57.307 26.923 0.00 0.00 42.02 2.29
2778 3617 8.071122 TGCATTTTCGATTTTTCGATTTTTCT 57.929 26.923 0.00 0.00 42.02 2.52
2779 3618 8.547069 TGCATTTTCGATTTTTCGATTTTTCTT 58.453 25.926 0.00 0.00 42.02 2.52
2780 3619 9.030157 GCATTTTCGATTTTTCGATTTTTCTTC 57.970 29.630 0.00 0.00 42.02 2.87
2781 3620 9.516091 CATTTTCGATTTTTCGATTTTTCTTCC 57.484 29.630 0.00 0.00 42.02 3.46
2782 3621 8.865590 TTTTCGATTTTTCGATTTTTCTTCCT 57.134 26.923 0.00 0.00 42.02 3.36
2783 3622 8.865590 TTTCGATTTTTCGATTTTTCTTCCTT 57.134 26.923 0.00 0.00 42.02 3.36
2847 3686 8.586570 AAATGCAGTAACATTTTTCAAATCGA 57.413 26.923 0.00 0.00 45.63 3.59
2848 3687 8.761575 AATGCAGTAACATTTTTCAAATCGAT 57.238 26.923 0.00 0.00 36.91 3.59
2849 3688 7.795431 TGCAGTAACATTTTTCAAATCGATC 57.205 32.000 0.00 0.00 0.00 3.69
2973 3814 8.810652 TGGAAACATTTTCGGAAATTTAGAAG 57.189 30.769 0.00 0.00 33.25 2.85
2974 3815 7.383843 TGGAAACATTTTCGGAAATTTAGAAGC 59.616 33.333 0.00 0.00 33.25 3.86
2979 3820 8.978539 ACATTTTCGGAAATTTAGAAGCTTTTC 58.021 29.630 0.00 0.00 33.25 2.29
2998 3839 8.797438 AGCTTTTCTAAAAGAGGAAAATACTGG 58.203 33.333 17.25 0.00 46.39 4.00
2999 3840 8.793592 GCTTTTCTAAAAGAGGAAAATACTGGA 58.206 33.333 17.25 0.00 46.39 3.86
3001 3842 8.863872 TTTCTAAAAGAGGAAAATACTGGAGG 57.136 34.615 0.00 0.00 0.00 4.30
3002 3843 7.569599 TCTAAAAGAGGAAAATACTGGAGGT 57.430 36.000 0.00 0.00 0.00 3.85
3003 3844 7.621796 TCTAAAAGAGGAAAATACTGGAGGTC 58.378 38.462 0.00 0.00 0.00 3.85
3004 3845 4.846168 AAGAGGAAAATACTGGAGGTCC 57.154 45.455 0.00 0.00 0.00 4.46
3005 3846 3.803340 AGAGGAAAATACTGGAGGTCCA 58.197 45.455 0.00 0.00 45.30 4.02
3006 3847 4.175962 AGAGGAAAATACTGGAGGTCCAA 58.824 43.478 0.00 0.00 46.97 3.53
3007 3848 4.601857 AGAGGAAAATACTGGAGGTCCAAA 59.398 41.667 0.00 0.00 46.97 3.28
3008 3849 4.663334 AGGAAAATACTGGAGGTCCAAAC 58.337 43.478 0.00 0.00 46.97 2.93
3009 3850 4.105697 AGGAAAATACTGGAGGTCCAAACA 59.894 41.667 0.00 0.00 46.97 2.83
3010 3851 4.830600 GGAAAATACTGGAGGTCCAAACAA 59.169 41.667 0.00 0.00 46.97 2.83
3011 3852 5.303333 GGAAAATACTGGAGGTCCAAACAAA 59.697 40.000 0.00 0.00 46.97 2.83
3012 3853 6.405278 AAAATACTGGAGGTCCAAACAAAG 57.595 37.500 0.00 0.00 46.97 2.77
3013 3854 4.993705 ATACTGGAGGTCCAAACAAAGA 57.006 40.909 0.00 0.00 46.97 2.52
3014 3855 3.214696 ACTGGAGGTCCAAACAAAGAG 57.785 47.619 0.00 0.00 46.97 2.85
3015 3856 2.509964 ACTGGAGGTCCAAACAAAGAGT 59.490 45.455 0.00 0.00 46.97 3.24
3016 3857 3.714798 ACTGGAGGTCCAAACAAAGAGTA 59.285 43.478 0.00 0.00 46.97 2.59
3017 3858 4.351111 ACTGGAGGTCCAAACAAAGAGTAT 59.649 41.667 0.00 0.00 46.97 2.12
3018 3859 4.906618 TGGAGGTCCAAACAAAGAGTATC 58.093 43.478 0.00 0.00 44.35 2.24
3019 3860 5.167303 GGAGGTCCAAACAAAGAGTATCT 57.833 43.478 0.00 0.00 41.76 1.98
3020 3861 4.938226 GGAGGTCCAAACAAAGAGTATCTG 59.062 45.833 0.00 0.00 39.76 2.90
3021 3862 5.280011 GGAGGTCCAAACAAAGAGTATCTGA 60.280 44.000 0.00 0.00 39.76 3.27
3022 3863 6.744339 GGAGGTCCAAACAAAGAGTATCTGAA 60.744 42.308 0.00 0.00 39.76 3.02
3023 3864 8.486333 GGAGGTCCAAACAAAGAGTATCTGAAG 61.486 44.444 0.00 0.00 39.76 3.02
3036 3877 6.518208 AGTATCTGAAGTGTCAAGTACTCC 57.482 41.667 0.00 0.00 32.57 3.85
3037 3878 4.810191 ATCTGAAGTGTCAAGTACTCCC 57.190 45.455 0.00 0.00 31.88 4.30
3038 3879 3.845860 TCTGAAGTGTCAAGTACTCCCT 58.154 45.455 0.00 0.00 31.88 4.20
3039 3880 3.827302 TCTGAAGTGTCAAGTACTCCCTC 59.173 47.826 0.00 0.00 31.88 4.30
3040 3881 2.897969 TGAAGTGTCAAGTACTCCCTCC 59.102 50.000 0.00 0.00 0.00 4.30
3041 3882 1.546961 AGTGTCAAGTACTCCCTCCG 58.453 55.000 0.00 0.00 0.00 4.63
3042 3883 1.203025 AGTGTCAAGTACTCCCTCCGT 60.203 52.381 0.00 0.00 0.00 4.69
3043 3884 1.617357 GTGTCAAGTACTCCCTCCGTT 59.383 52.381 0.00 0.00 0.00 4.44
3044 3885 2.821969 GTGTCAAGTACTCCCTCCGTTA 59.178 50.000 0.00 0.00 0.00 3.18
3045 3886 3.087031 TGTCAAGTACTCCCTCCGTTAG 58.913 50.000 0.00 0.00 0.00 2.34
3046 3887 2.426381 GTCAAGTACTCCCTCCGTTAGG 59.574 54.545 0.00 0.00 46.09 2.69
3059 3900 4.563140 TCCGTTAGGAAATACTTGCCTT 57.437 40.909 0.00 0.00 45.12 4.35
3060 3901 4.913784 TCCGTTAGGAAATACTTGCCTTT 58.086 39.130 0.00 0.00 45.12 3.11
3061 3902 6.052405 TCCGTTAGGAAATACTTGCCTTTA 57.948 37.500 0.00 0.00 45.12 1.85
3062 3903 6.474630 TCCGTTAGGAAATACTTGCCTTTAA 58.525 36.000 0.00 0.00 45.12 1.52
3063 3904 6.941436 TCCGTTAGGAAATACTTGCCTTTAAA 59.059 34.615 0.00 0.00 45.12 1.52
3064 3905 7.447853 TCCGTTAGGAAATACTTGCCTTTAAAA 59.552 33.333 0.00 0.00 45.12 1.52
3065 3906 8.248253 CCGTTAGGAAATACTTGCCTTTAAAAT 58.752 33.333 0.00 0.00 41.02 1.82
3066 3907 9.072294 CGTTAGGAAATACTTGCCTTTAAAATG 57.928 33.333 0.00 0.00 33.28 2.32
3070 3911 9.657419 AGGAAATACTTGCCTTTAAAATGATTG 57.343 29.630 0.00 0.00 0.00 2.67
3071 3912 9.435688 GGAAATACTTGCCTTTAAAATGATTGT 57.564 29.630 0.00 0.00 0.00 2.71
3080 3921 9.905713 TGCCTTTAAAATGATTGTATCTAGACT 57.094 29.630 0.00 0.00 0.00 3.24
3136 3977 9.627123 ATCATTTTGAAGATAAGTATTTCCGGA 57.373 29.630 0.00 0.00 0.00 5.14
3137 3978 8.889717 TCATTTTGAAGATAAGTATTTCCGGAC 58.110 33.333 1.83 0.00 0.00 4.79
3138 3979 6.897259 TTTGAAGATAAGTATTTCCGGACG 57.103 37.500 1.83 0.00 0.00 4.79
3139 3980 4.940463 TGAAGATAAGTATTTCCGGACGG 58.060 43.478 1.83 3.96 0.00 4.79
3140 3981 4.646040 TGAAGATAAGTATTTCCGGACGGA 59.354 41.667 1.83 9.76 43.52 4.69
3141 3982 4.850347 AGATAAGTATTTCCGGACGGAG 57.150 45.455 13.64 0.00 46.06 4.63
3142 3983 3.573110 AGATAAGTATTTCCGGACGGAGG 59.427 47.826 13.64 0.00 46.06 4.30
3143 3984 0.828677 AAGTATTTCCGGACGGAGGG 59.171 55.000 13.64 0.00 46.06 4.30
3144 3985 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.000 13.64 4.95 46.06 4.20
3145 3986 0.388294 GTATTTCCGGACGGAGGGAG 59.612 60.000 13.64 0.00 46.06 4.30
3146 3987 0.032813 TATTTCCGGACGGAGGGAGT 60.033 55.000 13.64 0.00 46.06 3.85
3147 3988 0.032813 ATTTCCGGACGGAGGGAGTA 60.033 55.000 13.64 0.00 46.06 2.59
3148 3989 0.682209 TTTCCGGACGGAGGGAGTAG 60.682 60.000 13.64 0.00 46.06 2.57
3149 3990 2.518825 CCGGACGGAGGGAGTAGG 60.519 72.222 4.40 0.00 37.50 3.18
3150 3991 2.274760 CGGACGGAGGGAGTAGGT 59.725 66.667 0.00 0.00 0.00 3.08
3151 3992 1.379576 CGGACGGAGGGAGTAGGTT 60.380 63.158 0.00 0.00 0.00 3.50
3152 3993 1.382692 CGGACGGAGGGAGTAGGTTC 61.383 65.000 0.00 0.00 0.00 3.62
3153 3994 0.033306 GGACGGAGGGAGTAGGTTCT 60.033 60.000 0.00 0.00 0.00 3.01
3154 3995 1.213926 GGACGGAGGGAGTAGGTTCTA 59.786 57.143 0.00 0.00 0.00 2.10
3155 3996 2.357569 GGACGGAGGGAGTAGGTTCTAA 60.358 54.545 0.00 0.00 0.00 2.10
3156 3997 3.359950 GACGGAGGGAGTAGGTTCTAAA 58.640 50.000 0.00 0.00 0.00 1.85
3157 3998 3.766051 GACGGAGGGAGTAGGTTCTAAAA 59.234 47.826 0.00 0.00 0.00 1.52
3158 3999 4.162651 ACGGAGGGAGTAGGTTCTAAAAA 58.837 43.478 0.00 0.00 0.00 1.94
3159 4000 4.781621 ACGGAGGGAGTAGGTTCTAAAAAT 59.218 41.667 0.00 0.00 0.00 1.82
3160 4001 5.250082 ACGGAGGGAGTAGGTTCTAAAAATT 59.750 40.000 0.00 0.00 0.00 1.82
3161 4002 6.178324 CGGAGGGAGTAGGTTCTAAAAATTT 58.822 40.000 0.00 0.00 0.00 1.82
3162 4003 7.038088 ACGGAGGGAGTAGGTTCTAAAAATTTA 60.038 37.037 0.00 0.00 0.00 1.40
3163 4004 7.494952 CGGAGGGAGTAGGTTCTAAAAATTTAG 59.505 40.741 6.59 6.59 41.10 1.85
3164 4005 8.546322 GGAGGGAGTAGGTTCTAAAAATTTAGA 58.454 37.037 10.75 10.75 45.31 2.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 9.883142 TCTGTGTATTTCCAATTTTTGAAAGTT 57.117 25.926 0.00 0.00 0.00 2.66
3 4 9.533253 CTCTGTGTATTTCCAATTTTTGAAAGT 57.467 29.630 0.00 0.00 0.00 2.66
4 5 9.748708 TCTCTGTGTATTTCCAATTTTTGAAAG 57.251 29.630 0.00 0.00 0.00 2.62
85 86 9.011095 TGTATCGGAAAAATTGTTTACCATACA 57.989 29.630 0.00 0.00 31.53 2.29
89 90 9.233649 AGTATGTATCGGAAAAATTGTTTACCA 57.766 29.630 0.00 0.00 0.00 3.25
90 91 9.498307 CAGTATGTATCGGAAAAATTGTTTACC 57.502 33.333 0.00 0.00 0.00 2.85
93 94 8.241367 GGTCAGTATGTATCGGAAAAATTGTTT 58.759 33.333 0.00 0.00 37.40 2.83
94 95 7.392113 TGGTCAGTATGTATCGGAAAAATTGTT 59.608 33.333 0.00 0.00 37.40 2.83
95 96 6.882140 TGGTCAGTATGTATCGGAAAAATTGT 59.118 34.615 0.00 0.00 37.40 2.71
96 97 7.315247 TGGTCAGTATGTATCGGAAAAATTG 57.685 36.000 0.00 0.00 37.40 2.32
97 98 7.931578 TTGGTCAGTATGTATCGGAAAAATT 57.068 32.000 0.00 0.00 37.40 1.82
98 99 7.931578 TTTGGTCAGTATGTATCGGAAAAAT 57.068 32.000 0.00 0.00 37.40 1.82
99 100 7.931578 ATTTGGTCAGTATGTATCGGAAAAA 57.068 32.000 0.00 0.00 37.40 1.94
100 101 7.931578 AATTTGGTCAGTATGTATCGGAAAA 57.068 32.000 0.00 0.00 37.40 2.29
101 102 7.931578 AAATTTGGTCAGTATGTATCGGAAA 57.068 32.000 0.00 0.00 37.40 3.13
102 103 7.931578 AAAATTTGGTCAGTATGTATCGGAA 57.068 32.000 0.00 0.00 37.40 4.30
103 104 7.931578 AAAAATTTGGTCAGTATGTATCGGA 57.068 32.000 0.00 0.00 37.40 4.55
154 155 5.413213 CACCGTACATGGGAAAATTTCACTA 59.587 40.000 9.56 0.00 33.11 2.74
161 162 7.654022 AAATATTCACCGTACATGGGAAAAT 57.346 32.000 0.00 0.00 0.00 1.82
162 163 7.469537 AAAATATTCACCGTACATGGGAAAA 57.530 32.000 0.00 0.00 0.00 2.29
271 276 3.004944 TGTTTCATGCCCGGTTTTTCTAC 59.995 43.478 0.00 0.00 0.00 2.59
287 292 9.241919 TGGCAAATATTTCTTCTCTATGTTTCA 57.758 29.630 0.00 0.00 0.00 2.69
306 312 6.417339 GCGATTTTTGTTTCAAATTGGCAAAT 59.583 30.769 3.01 0.00 0.00 2.32
312 318 7.062240 TGATTCGCGATTTTTGTTTCAAATTG 58.938 30.769 10.88 0.00 0.00 2.32
414 463 4.633565 GCAAACTTTTTGTCAACCATGGAA 59.366 37.500 21.47 0.00 0.00 3.53
416 465 3.937706 TGCAAACTTTTTGTCAACCATGG 59.062 39.130 11.19 11.19 0.00 3.66
421 471 6.175712 TGGATTTGCAAACTTTTTGTCAAC 57.824 33.333 15.41 0.00 0.00 3.18
424 474 7.807433 AGTTTTTGGATTTGCAAACTTTTTGTC 59.193 29.630 15.41 6.08 36.29 3.18
561 635 3.728718 CGTGACCTTTTCGATTTTTGTGG 59.271 43.478 0.00 0.00 0.00 4.17
702 782 6.799786 TTCGTTCGGACTTTTTGAAATTTC 57.200 33.333 11.41 11.41 0.00 2.17
758 839 1.206371 GAGGCCCAAGTAAGTAGCGAA 59.794 52.381 0.00 0.00 0.00 4.70
783 864 2.173669 CCATGCGGGCTCTAACGTG 61.174 63.158 0.00 0.00 0.00 4.49
854 935 3.447586 GTGTGGCACTCTAGGACAAGATA 59.552 47.826 19.83 0.00 0.00 1.98
865 946 2.027605 CGACACGTGTGGCACTCT 59.972 61.111 28.82 0.00 38.95 3.24
867 948 2.279252 GACGACACGTGTGGCACT 60.279 61.111 28.82 9.16 41.37 4.40
1166 1248 0.102300 GCTCTTCTTCTCCTCCTCGC 59.898 60.000 0.00 0.00 0.00 5.03
1307 1389 0.461339 ACGAACAGCAAGACCAACGT 60.461 50.000 0.00 0.00 0.00 3.99
1313 1395 1.746760 CTGCAAACGAACAGCAAGAC 58.253 50.000 0.00 0.00 37.89 3.01
1337 1420 1.405872 ATCATTCATGCCCGCACAAT 58.594 45.000 0.00 0.00 0.00 2.71
1344 1427 2.159014 ACATGCACAATCATTCATGCCC 60.159 45.455 0.00 0.00 39.75 5.36
1345 1428 2.863740 CACATGCACAATCATTCATGCC 59.136 45.455 0.00 0.00 39.75 4.40
1371 1454 2.125512 GCACGTCCAGCACCTAGG 60.126 66.667 7.41 7.41 0.00 3.02
1640 1723 6.292061 CGACTAGACTACGTGGTATGTAACTC 60.292 46.154 9.65 0.00 0.00 3.01
1654 1737 6.939551 TTGCAACATTAACGACTAGACTAC 57.060 37.500 0.00 0.00 0.00 2.73
1658 1741 6.874664 TGGTTATTGCAACATTAACGACTAGA 59.125 34.615 0.00 0.00 33.61 2.43
1659 1742 7.067532 TGGTTATTGCAACATTAACGACTAG 57.932 36.000 0.00 0.00 33.61 2.57
1929 2013 9.267096 GCAAAAACAAAAACAAAATCATACGAA 57.733 25.926 0.00 0.00 0.00 3.85
1931 2015 7.097649 CCGCAAAAACAAAAACAAAATCATACG 60.098 33.333 0.00 0.00 0.00 3.06
1932 2016 7.164990 CCCGCAAAAACAAAAACAAAATCATAC 59.835 33.333 0.00 0.00 0.00 2.39
1933 2017 7.189512 CCCGCAAAAACAAAAACAAAATCATA 58.810 30.769 0.00 0.00 0.00 2.15
1934 2018 6.032717 CCCGCAAAAACAAAAACAAAATCAT 58.967 32.000 0.00 0.00 0.00 2.45
1936 2020 4.795795 CCCCGCAAAAACAAAAACAAAATC 59.204 37.500 0.00 0.00 0.00 2.17
1937 2021 4.459337 TCCCCGCAAAAACAAAAACAAAAT 59.541 33.333 0.00 0.00 0.00 1.82
1938 2022 3.818773 TCCCCGCAAAAACAAAAACAAAA 59.181 34.783 0.00 0.00 0.00 2.44
1940 2024 3.053831 TCCCCGCAAAAACAAAAACAA 57.946 38.095 0.00 0.00 0.00 2.83
1941 2025 2.762535 TCCCCGCAAAAACAAAAACA 57.237 40.000 0.00 0.00 0.00 2.83
1942 2026 3.198872 TGATCCCCGCAAAAACAAAAAC 58.801 40.909 0.00 0.00 0.00 2.43
1965 2115 8.788806 CCACGAATCACTCTAGTTAGATATTCT 58.211 37.037 0.00 0.00 31.08 2.40
1968 2118 7.522399 GCACCACGAATCACTCTAGTTAGATAT 60.522 40.741 0.00 0.00 0.00 1.63
1969 2119 6.238676 GCACCACGAATCACTCTAGTTAGATA 60.239 42.308 0.00 0.00 0.00 1.98
2000 2150 0.717224 GTCGTCGCGGCTTCAAATTA 59.283 50.000 9.90 0.00 0.00 1.40
2055 2205 0.396811 ACCTGTACAGCTTGTCCCAC 59.603 55.000 17.86 0.00 0.00 4.61
2203 2353 2.695314 GGAGCCACCGATTGACATC 58.305 57.895 0.00 0.00 0.00 3.06
2218 2368 3.267860 GCGATTCAGCTGCCGGAG 61.268 66.667 9.47 0.10 0.00 4.63
2219 2369 4.081185 TGCGATTCAGCTGCCGGA 62.081 61.111 9.47 10.80 38.13 5.14
2220 2370 3.570638 CTGCGATTCAGCTGCCGG 61.571 66.667 9.47 0.00 35.78 6.13
2290 2440 6.151985 TGCCATTACAACAACAATTACCTAGG 59.848 38.462 7.41 7.41 0.00 3.02
2303 2453 3.505680 GTGATTCACCTGCCATTACAACA 59.494 43.478 5.44 0.00 0.00 3.33
2304 2454 3.505680 TGTGATTCACCTGCCATTACAAC 59.494 43.478 14.05 0.00 32.73 3.32
2360 2510 1.754226 GACAGGAGAGGAGCTAACAGG 59.246 57.143 0.00 0.00 0.00 4.00
2366 2516 1.077005 ACAGAAGACAGGAGAGGAGCT 59.923 52.381 0.00 0.00 0.00 4.09
2367 2517 1.555967 ACAGAAGACAGGAGAGGAGC 58.444 55.000 0.00 0.00 0.00 4.70
2368 2518 3.430453 AGAACAGAAGACAGGAGAGGAG 58.570 50.000 0.00 0.00 0.00 3.69
2382 2548 4.651503 AGAGTTCCAGAACAAGAGAACAGA 59.348 41.667 12.76 0.00 43.47 3.41
2423 2589 5.124776 CCGAGCATTAACCACTTTCCATTAA 59.875 40.000 0.00 0.00 0.00 1.40
2434 2655 4.920640 TTTTTGAACCGAGCATTAACCA 57.079 36.364 0.00 0.00 0.00 3.67
2493 3283 8.170730 AGGTGTAAATCCAGGAACTTTTATCTT 58.829 33.333 0.00 0.00 34.60 2.40
2506 3296 5.997746 TGTTTCTCTTCAGGTGTAAATCCAG 59.002 40.000 0.00 0.00 0.00 3.86
2577 3367 2.497273 GCCATGGCAGGATTTACAAGTT 59.503 45.455 32.08 0.00 41.49 2.66
2636 3466 2.663196 CGGGGAGAACGGCTTCTT 59.337 61.111 1.66 0.00 36.82 2.52
2662 3492 0.749818 GGAAAAGAGCTAGGCTGGCC 60.750 60.000 19.96 10.98 39.88 5.36
2663 3493 1.092345 CGGAAAAGAGCTAGGCTGGC 61.092 60.000 15.83 15.83 39.88 4.85
2730 3569 3.604065 AAGAACGGAAAGAACGAAAGC 57.396 42.857 0.00 0.00 34.93 3.51
2754 3593 8.918175 AAGAAAAATCGAAAAATCGAAAATGC 57.082 26.923 4.94 0.00 45.62 3.56
2826 3665 7.538678 ACTGATCGATTTGAAAAATGTTACTGC 59.461 33.333 0.00 0.00 0.00 4.40
2846 3685 9.859427 TGAATTTCAAAATAATGGTCACTGATC 57.141 29.630 0.00 0.00 0.00 2.92
2938 3777 9.717942 TTCCGAAAATGTTTCCATAATTTCAAT 57.282 25.926 0.00 0.00 31.56 2.57
2973 3814 8.793592 TCCAGTATTTTCCTCTTTTAGAAAAGC 58.206 33.333 9.45 1.08 43.19 3.51
2979 3820 6.824196 GGACCTCCAGTATTTTCCTCTTTTAG 59.176 42.308 0.00 0.00 35.64 1.85
2996 3837 4.597507 AGATACTCTTTGTTTGGACCTCCA 59.402 41.667 0.00 0.00 45.94 3.86
2997 3838 4.938226 CAGATACTCTTTGTTTGGACCTCC 59.062 45.833 0.00 0.00 0.00 4.30
2998 3839 5.794894 TCAGATACTCTTTGTTTGGACCTC 58.205 41.667 0.00 0.00 0.00 3.85
2999 3840 5.825593 TCAGATACTCTTTGTTTGGACCT 57.174 39.130 0.00 0.00 0.00 3.85
3000 3841 5.998363 ACTTCAGATACTCTTTGTTTGGACC 59.002 40.000 0.00 0.00 0.00 4.46
3001 3842 6.483640 ACACTTCAGATACTCTTTGTTTGGAC 59.516 38.462 0.00 0.00 0.00 4.02
3002 3843 6.591935 ACACTTCAGATACTCTTTGTTTGGA 58.408 36.000 0.00 0.00 0.00 3.53
3003 3844 6.483307 TGACACTTCAGATACTCTTTGTTTGG 59.517 38.462 0.00 0.00 0.00 3.28
3004 3845 7.482654 TGACACTTCAGATACTCTTTGTTTG 57.517 36.000 0.00 0.00 0.00 2.93
3005 3846 7.770897 ACTTGACACTTCAGATACTCTTTGTTT 59.229 33.333 0.00 0.00 31.71 2.83
3006 3847 7.275920 ACTTGACACTTCAGATACTCTTTGTT 58.724 34.615 0.00 0.00 31.71 2.83
3007 3848 6.821388 ACTTGACACTTCAGATACTCTTTGT 58.179 36.000 0.00 0.00 31.71 2.83
3008 3849 8.085296 AGTACTTGACACTTCAGATACTCTTTG 58.915 37.037 0.00 0.00 32.58 2.77
3009 3850 8.184304 AGTACTTGACACTTCAGATACTCTTT 57.816 34.615 0.00 0.00 32.58 2.52
3010 3851 7.094118 GGAGTACTTGACACTTCAGATACTCTT 60.094 40.741 17.88 0.00 43.12 2.85
3011 3852 6.376018 GGAGTACTTGACACTTCAGATACTCT 59.624 42.308 17.88 0.00 43.12 3.24
3012 3853 6.404954 GGGAGTACTTGACACTTCAGATACTC 60.405 46.154 0.00 13.75 43.00 2.59
3013 3854 5.419471 GGGAGTACTTGACACTTCAGATACT 59.581 44.000 0.00 0.00 37.13 2.12
3014 3855 5.419471 AGGGAGTACTTGACACTTCAGATAC 59.581 44.000 0.00 0.00 31.71 2.24
3015 3856 5.580998 AGGGAGTACTTGACACTTCAGATA 58.419 41.667 0.00 0.00 31.71 1.98
3016 3857 4.421131 AGGGAGTACTTGACACTTCAGAT 58.579 43.478 0.00 0.00 31.71 2.90
3017 3858 3.827302 GAGGGAGTACTTGACACTTCAGA 59.173 47.826 0.00 0.00 31.71 3.27
3018 3859 3.056465 GGAGGGAGTACTTGACACTTCAG 60.056 52.174 0.00 0.00 31.71 3.02
3019 3860 2.897969 GGAGGGAGTACTTGACACTTCA 59.102 50.000 0.00 0.00 0.00 3.02
3020 3861 2.094649 CGGAGGGAGTACTTGACACTTC 60.095 54.545 0.00 0.00 0.00 3.01
3021 3862 1.893801 CGGAGGGAGTACTTGACACTT 59.106 52.381 0.00 0.00 0.00 3.16
3022 3863 1.203025 ACGGAGGGAGTACTTGACACT 60.203 52.381 0.00 0.00 0.00 3.55
3023 3864 1.254954 ACGGAGGGAGTACTTGACAC 58.745 55.000 0.00 0.00 0.00 3.67
3024 3865 2.005370 AACGGAGGGAGTACTTGACA 57.995 50.000 0.00 0.00 0.00 3.58
3025 3866 2.426381 CCTAACGGAGGGAGTACTTGAC 59.574 54.545 0.00 0.00 42.39 3.18
3026 3867 2.309755 TCCTAACGGAGGGAGTACTTGA 59.690 50.000 0.00 0.00 46.70 3.02
3027 3868 2.731572 TCCTAACGGAGGGAGTACTTG 58.268 52.381 0.00 0.00 46.70 3.16
3028 3869 3.463048 TTCCTAACGGAGGGAGTACTT 57.537 47.619 0.00 0.00 46.70 2.24
3029 3870 3.463048 TTTCCTAACGGAGGGAGTACT 57.537 47.619 0.00 0.00 46.70 2.73
3030 3871 4.892345 AGTATTTCCTAACGGAGGGAGTAC 59.108 45.833 10.12 10.12 43.55 2.73
3031 3872 5.134725 AGTATTTCCTAACGGAGGGAGTA 57.865 43.478 5.85 0.00 46.70 2.59
3032 3873 3.991683 AGTATTTCCTAACGGAGGGAGT 58.008 45.455 5.85 0.00 46.70 3.85
3033 3874 4.694339 CAAGTATTTCCTAACGGAGGGAG 58.306 47.826 5.85 0.00 46.70 4.30
3034 3875 3.118519 GCAAGTATTTCCTAACGGAGGGA 60.119 47.826 5.85 0.00 46.70 4.20
3035 3876 3.203716 GCAAGTATTTCCTAACGGAGGG 58.796 50.000 5.85 0.00 46.70 4.30
3037 3878 4.138487 AGGCAAGTATTTCCTAACGGAG 57.862 45.455 0.00 0.00 41.25 4.63
3038 3879 4.563140 AAGGCAAGTATTTCCTAACGGA 57.437 40.909 0.00 0.00 37.60 4.69
3039 3880 6.746745 TTAAAGGCAAGTATTTCCTAACGG 57.253 37.500 0.00 0.00 0.00 4.44
3040 3881 9.072294 CATTTTAAAGGCAAGTATTTCCTAACG 57.928 33.333 0.00 0.00 0.00 3.18
3044 3885 9.657419 CAATCATTTTAAAGGCAAGTATTTCCT 57.343 29.630 0.00 0.00 0.00 3.36
3045 3886 9.435688 ACAATCATTTTAAAGGCAAGTATTTCC 57.564 29.630 0.00 0.00 0.00 3.13
3054 3895 9.905713 AGTCTAGATACAATCATTTTAAAGGCA 57.094 29.630 0.00 0.00 0.00 4.75
3110 3951 9.627123 TCCGGAAATACTTATCTTCAAAATGAT 57.373 29.630 0.00 0.00 0.00 2.45
3111 3952 8.889717 GTCCGGAAATACTTATCTTCAAAATGA 58.110 33.333 5.23 0.00 0.00 2.57
3112 3953 7.850982 CGTCCGGAAATACTTATCTTCAAAATG 59.149 37.037 5.23 0.00 0.00 2.32
3113 3954 7.012044 CCGTCCGGAAATACTTATCTTCAAAAT 59.988 37.037 5.23 0.00 37.50 1.82
3114 3955 6.314400 CCGTCCGGAAATACTTATCTTCAAAA 59.686 38.462 5.23 0.00 37.50 2.44
3115 3956 5.813672 CCGTCCGGAAATACTTATCTTCAAA 59.186 40.000 5.23 0.00 37.50 2.69
3116 3957 5.127519 TCCGTCCGGAAATACTTATCTTCAA 59.872 40.000 5.23 0.00 42.05 2.69
3117 3958 4.646040 TCCGTCCGGAAATACTTATCTTCA 59.354 41.667 5.23 0.00 42.05 3.02
3118 3959 5.192327 TCCGTCCGGAAATACTTATCTTC 57.808 43.478 5.23 0.00 42.05 2.87
3119 3960 4.038883 CCTCCGTCCGGAAATACTTATCTT 59.961 45.833 5.23 0.00 44.66 2.40
3120 3961 3.573110 CCTCCGTCCGGAAATACTTATCT 59.427 47.826 5.23 0.00 44.66 1.98
3121 3962 3.305881 CCCTCCGTCCGGAAATACTTATC 60.306 52.174 5.23 0.00 44.66 1.75
3122 3963 2.631545 CCCTCCGTCCGGAAATACTTAT 59.368 50.000 5.23 0.00 44.66 1.73
3123 3964 2.034124 CCCTCCGTCCGGAAATACTTA 58.966 52.381 5.23 0.00 44.66 2.24
3124 3965 0.828677 CCCTCCGTCCGGAAATACTT 59.171 55.000 5.23 0.00 44.66 2.24
3125 3966 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.00 44.66 2.12
3126 3967 0.388294 CTCCCTCCGTCCGGAAATAC 59.612 60.000 5.23 0.00 44.66 1.89
3127 3968 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.00 44.66 1.40
3128 3969 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
3129 3970 0.682209 CTACTCCCTCCGTCCGGAAA 60.682 60.000 5.23 0.00 44.66 3.13
3130 3971 1.077212 CTACTCCCTCCGTCCGGAA 60.077 63.158 5.23 0.00 44.66 4.30
3131 3972 2.593978 CTACTCCCTCCGTCCGGA 59.406 66.667 0.00 0.00 42.90 5.14
3132 3973 2.518825 CCTACTCCCTCCGTCCGG 60.519 72.222 0.00 0.00 0.00 5.14
3133 3974 1.379576 AACCTACTCCCTCCGTCCG 60.380 63.158 0.00 0.00 0.00 4.79
3134 3975 0.033306 AGAACCTACTCCCTCCGTCC 60.033 60.000 0.00 0.00 0.00 4.79
3135 3976 2.725221 TAGAACCTACTCCCTCCGTC 57.275 55.000 0.00 0.00 0.00 4.79
3136 3977 3.463048 TTTAGAACCTACTCCCTCCGT 57.537 47.619 0.00 0.00 0.00 4.69
3137 3978 4.813750 TTTTTAGAACCTACTCCCTCCG 57.186 45.455 0.00 0.00 0.00 4.63
3138 3979 8.546322 TCTAAATTTTTAGAACCTACTCCCTCC 58.454 37.037 9.72 0.00 44.36 4.30


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

AutoCloner maintained by Alex Coulton.