Multiple sequence alignment - TraesCS3A01G127500

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 TraesCS3A01G127500 chr3A 100.000 2390 0 0 1 2390 102685298 102687687 0.000000e+00 4414.0
1 TraesCS3A01G127500 chr3A 84.770 348 29 14 1028 1366 102554683 102555015 6.370000e-86 327.0
2 TraesCS3A01G127500 chr3D 88.431 2014 99 65 2 1969 86356687 86358612 0.000000e+00 2305.0
3 TraesCS3A01G127500 chr3D 84.012 344 30 14 1028 1366 85896454 85896777 8.300000e-80 307.0
4 TraesCS3A01G127500 chr3D 82.913 357 28 22 1028 1366 86236951 86237292 8.360000e-75 291.0
5 TraesCS3A01G127500 chr3D 94.737 76 4 0 1968 2043 86358779 86358854 4.170000e-23 119.0
6 TraesCS3A01G127500 chr3B 91.120 732 29 7 1 711 136484135 136484851 0.000000e+00 959.0
7 TraesCS3A01G127500 chr3B 84.167 960 62 35 845 1763 136491740 136492650 0.000000e+00 848.0
8 TraesCS3A01G127500 chr3B 88.580 683 34 15 160 815 130308065 130307400 0.000000e+00 789.0
9 TraesCS3A01G127500 chr3B 83.944 355 27 15 1028 1367 136091380 136091719 1.780000e-81 313.0
10 TraesCS3A01G127500 chr3B 95.882 170 4 1 1795 1961 136492642 136492811 3.030000e-69 272.0
11 TraesCS3A01G127500 chr1B 81.818 231 21 15 1136 1351 174784124 174783900 8.780000e-40 174.0
12 TraesCS3A01G127500 chr1D 81.333 225 28 13 1136 1350 114083491 114083271 1.140000e-38 171.0
13 TraesCS3A01G127500 chr1A 80.000 230 31 11 1136 1350 124190015 124189786 3.180000e-34 156.0
14 TraesCS3A01G127500 chr2D 85.366 82 10 2 2310 2390 298252312 298252232 1.520000e-12 84.2
15 TraesCS3A01G127500 chr4D 83.951 81 13 0 2310 2390 146229817 146229737 7.080000e-11 78.7
16 TraesCS3A01G127500 chr2B 77.622 143 19 9 2068 2206 18798110 18798243 9.160000e-10 75.0


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 TraesCS3A01G127500 chr3A 102685298 102687687 2389 False 4414 4414 100.0000 1 2390 1 chr3A.!!$F2 2389
1 TraesCS3A01G127500 chr3D 86356687 86358854 2167 False 1212 2305 91.5840 2 2043 2 chr3D.!!$F3 2041
2 TraesCS3A01G127500 chr3B 136484135 136484851 716 False 959 959 91.1200 1 711 1 chr3B.!!$F2 710
3 TraesCS3A01G127500 chr3B 130307400 130308065 665 True 789 789 88.5800 160 815 1 chr3B.!!$R1 655
4 TraesCS3A01G127500 chr3B 136491740 136492811 1071 False 560 848 90.0245 845 1961 2 chr3B.!!$F3 1116

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
474 492 0.038526 GTGAATGCTGCTGCTTTGCT 60.039 50.0 19.18 0.0 40.48 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2290 2534 0.034896 AGCACACTCGACGGGAAAAT 59.965 50.0 0.0 0.0 0.0 1.82 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
58 59 1.420891 AGCCACCACCATTTGCAAAAT 59.579 42.857 17.19 1.85 0.00 1.82
255 267 2.738314 GGGCATCATTCAACTTTGTTGC 59.262 45.455 5.65 0.00 37.67 4.17
474 492 0.038526 GTGAATGCTGCTGCTTTGCT 60.039 50.000 19.18 0.00 40.48 3.91
475 493 0.038618 TGAATGCTGCTGCTTTGCTG 60.039 50.000 19.18 0.00 40.48 4.41
512 530 7.651704 CCAACTTGTTTGTGTATAAAAGAAGGG 59.348 37.037 9.64 3.22 40.41 3.95
561 589 4.290155 GTGTTGTGCCTGTAATCTTTGTG 58.710 43.478 0.00 0.00 0.00 3.33
648 677 5.862924 ACCGGATTATTATTCGCTGATTG 57.137 39.130 9.46 0.00 31.06 2.67
663 692 3.444916 CTGATTGTTGAATGCTGGATGC 58.555 45.455 0.00 0.00 43.25 3.91
685 714 5.758296 TGCGAGTTGGAACTATTTATCATCC 59.242 40.000 0.00 0.00 39.88 3.51
705 734 4.469657 TCCAATGTTTCTTGGTTGTAGCT 58.530 39.130 0.00 0.00 44.99 3.32
711 740 2.113860 TCTTGGTTGTAGCTCATGGC 57.886 50.000 0.00 0.00 42.19 4.40
712 741 1.098050 CTTGGTTGTAGCTCATGGCC 58.902 55.000 0.00 0.00 43.05 5.36
713 742 0.403655 TTGGTTGTAGCTCATGGCCA 59.596 50.000 8.56 8.56 43.05 5.36
714 743 0.625316 TGGTTGTAGCTCATGGCCAT 59.375 50.000 14.09 14.09 43.05 4.40
717 746 1.406539 GTTGTAGCTCATGGCCATTGG 59.593 52.381 17.92 12.88 43.05 3.16
718 747 0.625316 TGTAGCTCATGGCCATTGGT 59.375 50.000 17.92 19.17 43.05 3.67
719 748 1.312815 GTAGCTCATGGCCATTGGTC 58.687 55.000 17.92 5.70 43.05 4.02
720 749 0.179048 TAGCTCATGGCCATTGGTCG 60.179 55.000 17.92 4.30 43.05 4.79
721 750 1.750399 GCTCATGGCCATTGGTCGT 60.750 57.895 17.92 0.00 34.27 4.34
722 751 1.996786 GCTCATGGCCATTGGTCGTG 61.997 60.000 21.25 21.25 44.86 4.35
723 752 1.996786 CTCATGGCCATTGGTCGTGC 61.997 60.000 22.24 0.00 43.35 5.34
724 753 2.755469 ATGGCCATTGGTCGTGCC 60.755 61.111 14.09 0.00 44.27 5.01
725 754 3.286694 ATGGCCATTGGTCGTGCCT 62.287 57.895 14.09 0.00 44.32 4.75
726 755 2.676471 GGCCATTGGTCGTGCCTT 60.676 61.111 4.26 0.00 40.77 4.35
739 768 4.464112 GTCGTGCCTTCTTTGTTCATAAC 58.536 43.478 0.00 0.00 0.00 1.89
759 788 8.150296 TCATAACGATGATGATATGTGGACTTT 58.850 33.333 0.00 0.00 37.15 2.66
760 789 8.777413 CATAACGATGATGATATGTGGACTTTT 58.223 33.333 0.00 0.00 34.73 2.27
761 790 9.996554 ATAACGATGATGATATGTGGACTTTTA 57.003 29.630 0.00 0.00 0.00 1.52
762 791 7.715265 ACGATGATGATATGTGGACTTTTAC 57.285 36.000 0.00 0.00 0.00 2.01
763 792 7.500992 ACGATGATGATATGTGGACTTTTACT 58.499 34.615 0.00 0.00 0.00 2.24
764 793 7.987458 ACGATGATGATATGTGGACTTTTACTT 59.013 33.333 0.00 0.00 0.00 2.24
765 794 8.278408 CGATGATGATATGTGGACTTTTACTTG 58.722 37.037 0.00 0.00 0.00 3.16
766 795 7.864108 TGATGATATGTGGACTTTTACTTGG 57.136 36.000 0.00 0.00 0.00 3.61
767 796 7.629157 TGATGATATGTGGACTTTTACTTGGA 58.371 34.615 0.00 0.00 0.00 3.53
768 797 8.274322 TGATGATATGTGGACTTTTACTTGGAT 58.726 33.333 0.00 0.00 0.00 3.41
769 798 7.864108 TGATATGTGGACTTTTACTTGGATG 57.136 36.000 0.00 0.00 0.00 3.51
770 799 7.402054 TGATATGTGGACTTTTACTTGGATGT 58.598 34.615 0.00 0.00 0.00 3.06
771 800 8.544622 TGATATGTGGACTTTTACTTGGATGTA 58.455 33.333 0.00 0.00 0.00 2.29
772 801 8.964476 ATATGTGGACTTTTACTTGGATGTAG 57.036 34.615 0.00 0.00 0.00 2.74
776 805 6.001460 TGGACTTTTACTTGGATGTAGTTGG 58.999 40.000 0.00 0.00 0.00 3.77
786 815 3.075283 TGGATGTAGTTGGATGTTTGGGT 59.925 43.478 0.00 0.00 0.00 4.51
816 845 1.534717 AAGACGAAACGGAGGGGGA 60.535 57.895 0.00 0.00 0.00 4.81
818 847 1.980772 GACGAAACGGAGGGGGAGA 60.981 63.158 0.00 0.00 0.00 3.71
819 848 1.946475 GACGAAACGGAGGGGGAGAG 61.946 65.000 0.00 0.00 0.00 3.20
820 849 2.585153 GAAACGGAGGGGGAGAGC 59.415 66.667 0.00 0.00 0.00 4.09
821 850 3.372554 GAAACGGAGGGGGAGAGCG 62.373 68.421 0.00 0.00 0.00 5.03
861 890 1.078848 CTCAACTGAAGGAGCCCGG 60.079 63.158 0.00 0.00 0.00 5.73
893 926 3.006677 GGGCCTGGCTTATCCACA 58.993 61.111 19.68 0.00 40.72 4.17
906 940 1.848886 ATCCACACGTTTCCCCTCCC 61.849 60.000 0.00 0.00 0.00 4.30
939 973 0.601841 CCACCTTTAGCAACGGACGT 60.602 55.000 0.00 0.00 0.00 4.34
960 995 1.752694 GAAGCCAGCCCGCCAATTA 60.753 57.895 0.00 0.00 0.00 1.40
961 996 1.304879 AAGCCAGCCCGCCAATTAA 60.305 52.632 0.00 0.00 0.00 1.40
962 997 0.902516 AAGCCAGCCCGCCAATTAAA 60.903 50.000 0.00 0.00 0.00 1.52
963 998 1.153647 GCCAGCCCGCCAATTAAAC 60.154 57.895 0.00 0.00 0.00 2.01
964 999 1.515487 CCAGCCCGCCAATTAAACC 59.485 57.895 0.00 0.00 0.00 3.27
965 1000 1.515487 CAGCCCGCCAATTAAACCC 59.485 57.895 0.00 0.00 0.00 4.11
968 1003 1.894512 CCCGCCAATTAAACCCACC 59.105 57.895 0.00 0.00 0.00 4.61
974 1009 0.613572 CAATTAAACCCACCCGCCCT 60.614 55.000 0.00 0.00 0.00 5.19
998 1039 0.469917 TCCATTCCATTCCTCTCGCC 59.530 55.000 0.00 0.00 0.00 5.54
1026 1067 4.814294 GCGTCAGGAATCGCCGGT 62.814 66.667 1.90 0.00 45.54 5.28
1221 1271 3.827898 CTGGAGGAGGACCGCGAC 61.828 72.222 8.23 0.17 41.83 5.19
1462 1512 3.619767 TGCAGCTCAGCTCACCGT 61.620 61.111 0.00 0.00 36.40 4.83
1542 1593 1.866496 CGTTCGTTCTAGACCGCGG 60.866 63.158 26.86 26.86 0.00 6.46
1548 1599 2.355986 TTCTAGACCGCGGCCATGT 61.356 57.895 28.58 4.48 0.00 3.21
1644 1700 6.363357 GCAACCAAGAATGTTGTGAGAATAAC 59.637 38.462 5.19 0.00 43.86 1.89
1700 1778 5.004251 CGTTTCTCGATCTCTGTTCAATGAG 59.996 44.000 0.00 0.00 42.86 2.90
1703 1781 1.857217 CGATCTCTGTTCAATGAGGCG 59.143 52.381 0.00 0.00 0.00 5.52
1732 1810 4.323028 CCTGATGCTCACAAGTTCTTCCTA 60.323 45.833 0.00 0.00 0.00 2.94
1755 1833 4.572389 ACTACCATCATCAACGATTTCTGC 59.428 41.667 0.00 0.00 0.00 4.26
1855 1933 2.076622 ATTCGTCCAGGCCTCGATCG 62.077 60.000 15.03 9.36 33.72 3.69
1961 2039 0.234106 CTCCGCGATGATTCATGCAC 59.766 55.000 8.23 0.00 0.00 4.57
1962 2040 0.179076 TCCGCGATGATTCATGCACT 60.179 50.000 8.23 0.00 0.00 4.40
1963 2041 0.041576 CCGCGATGATTCATGCACTG 60.042 55.000 8.23 0.00 0.00 3.66
1964 2042 0.932399 CGCGATGATTCATGCACTGA 59.068 50.000 0.00 0.00 0.00 3.41
1965 2043 1.529865 CGCGATGATTCATGCACTGAT 59.470 47.619 0.00 0.00 32.72 2.90
1966 2044 2.661979 CGCGATGATTCATGCACTGATG 60.662 50.000 0.00 0.00 32.72 3.07
1971 2215 4.210724 TGATTCATGCACTGATGACTGA 57.789 40.909 0.00 0.00 31.92 3.41
1993 2237 2.126424 GACCGACGTCTGCCTGAC 60.126 66.667 14.70 0.00 42.06 3.51
1997 2241 1.442857 CGACGTCTGCCTGACTGAC 60.443 63.158 14.70 0.00 43.25 3.51
2032 2276 7.918076 TCTCATCCTTGTTTGTAGTTTAGGAT 58.082 34.615 0.00 0.00 41.85 3.24
2046 2290 9.725206 TGTAGTTTAGGATAAAAGATACTCCCT 57.275 33.333 0.00 0.00 0.00 4.20
2048 2292 8.265108 AGTTTAGGATAAAAGATACTCCCTCC 57.735 38.462 0.00 0.00 0.00 4.30
2049 2293 8.074991 AGTTTAGGATAAAAGATACTCCCTCCT 58.925 37.037 0.00 0.00 36.01 3.69
2050 2294 8.369424 GTTTAGGATAAAAGATACTCCCTCCTC 58.631 40.741 0.00 0.00 33.97 3.71
2051 2295 5.407936 AGGATAAAAGATACTCCCTCCTCC 58.592 45.833 0.00 0.00 0.00 4.30
2052 2296 4.532916 GGATAAAAGATACTCCCTCCTCCC 59.467 50.000 0.00 0.00 0.00 4.30
2053 2297 2.498473 AAAGATACTCCCTCCTCCCC 57.502 55.000 0.00 0.00 0.00 4.81
2054 2298 1.330155 AAGATACTCCCTCCTCCCCA 58.670 55.000 0.00 0.00 0.00 4.96
2055 2299 1.563616 AGATACTCCCTCCTCCCCAT 58.436 55.000 0.00 0.00 0.00 4.00
2056 2300 2.744391 AGATACTCCCTCCTCCCCATA 58.256 52.381 0.00 0.00 0.00 2.74
2057 2301 3.291584 AGATACTCCCTCCTCCCCATAT 58.708 50.000 0.00 0.00 0.00 1.78
2058 2302 3.675183 AGATACTCCCTCCTCCCCATATT 59.325 47.826 0.00 0.00 0.00 1.28
2059 2303 2.124560 ACTCCCTCCTCCCCATATTG 57.875 55.000 0.00 0.00 0.00 1.90
2060 2304 1.298382 ACTCCCTCCTCCCCATATTGT 59.702 52.381 0.00 0.00 0.00 2.71
2061 2305 2.527057 ACTCCCTCCTCCCCATATTGTA 59.473 50.000 0.00 0.00 0.00 2.41
2062 2306 3.050564 ACTCCCTCCTCCCCATATTGTAA 60.051 47.826 0.00 0.00 0.00 2.41
2063 2307 3.584848 CTCCCTCCTCCCCATATTGTAAG 59.415 52.174 0.00 0.00 0.00 2.34
2064 2308 2.644798 CCCTCCTCCCCATATTGTAAGG 59.355 54.545 0.00 0.00 0.00 2.69
2065 2309 2.040412 CCTCCTCCCCATATTGTAAGGC 59.960 54.545 0.00 0.00 0.00 4.35
2066 2310 1.697432 TCCTCCCCATATTGTAAGGCG 59.303 52.381 0.00 0.00 0.00 5.52
2067 2311 1.420138 CCTCCCCATATTGTAAGGCGT 59.580 52.381 0.00 0.00 0.00 5.68
2068 2312 2.635915 CCTCCCCATATTGTAAGGCGTA 59.364 50.000 0.00 0.00 0.00 4.42
2069 2313 3.263425 CCTCCCCATATTGTAAGGCGTAT 59.737 47.826 0.00 0.00 0.00 3.06
2070 2314 4.263331 CCTCCCCATATTGTAAGGCGTATT 60.263 45.833 0.00 0.00 0.00 1.89
2071 2315 5.046159 CCTCCCCATATTGTAAGGCGTATTA 60.046 44.000 0.00 0.00 0.00 0.98
2072 2316 6.045072 TCCCCATATTGTAAGGCGTATTAG 57.955 41.667 0.00 0.00 0.00 1.73
2073 2317 5.781306 TCCCCATATTGTAAGGCGTATTAGA 59.219 40.000 0.00 0.00 0.00 2.10
2074 2318 6.070995 TCCCCATATTGTAAGGCGTATTAGAG 60.071 42.308 0.00 0.00 0.00 2.43
2075 2319 5.581085 CCCATATTGTAAGGCGTATTAGAGC 59.419 44.000 0.00 0.00 0.00 4.09
2076 2320 6.163476 CCATATTGTAAGGCGTATTAGAGCA 58.837 40.000 0.00 0.00 34.54 4.26
2077 2321 6.818644 CCATATTGTAAGGCGTATTAGAGCAT 59.181 38.462 0.00 0.00 34.54 3.79
2078 2322 7.201556 CCATATTGTAAGGCGTATTAGAGCATG 60.202 40.741 0.00 0.00 34.54 4.06
2079 2323 3.990092 TGTAAGGCGTATTAGAGCATGG 58.010 45.455 0.00 0.00 34.54 3.66
2080 2324 3.386726 TGTAAGGCGTATTAGAGCATGGT 59.613 43.478 0.00 0.00 34.54 3.55
2081 2325 3.560636 AAGGCGTATTAGAGCATGGTT 57.439 42.857 0.00 0.00 34.54 3.67
2082 2326 4.682778 AAGGCGTATTAGAGCATGGTTA 57.317 40.909 0.00 0.00 34.54 2.85
2083 2327 4.682778 AGGCGTATTAGAGCATGGTTAA 57.317 40.909 0.00 0.68 34.54 2.01
2084 2328 5.228945 AGGCGTATTAGAGCATGGTTAAT 57.771 39.130 0.00 7.97 34.54 1.40
2085 2329 6.354794 AGGCGTATTAGAGCATGGTTAATA 57.645 37.500 0.00 7.07 34.54 0.98
2086 2330 6.765403 AGGCGTATTAGAGCATGGTTAATAA 58.235 36.000 15.09 9.42 34.54 1.40
2087 2331 6.874134 AGGCGTATTAGAGCATGGTTAATAAG 59.126 38.462 17.58 17.58 34.54 1.73
2088 2332 6.872020 GGCGTATTAGAGCATGGTTAATAAGA 59.128 38.462 21.63 10.38 34.54 2.10
2089 2333 7.386848 GGCGTATTAGAGCATGGTTAATAAGAA 59.613 37.037 21.63 7.46 34.54 2.52
2090 2334 8.770828 GCGTATTAGAGCATGGTTAATAAGAAA 58.229 33.333 21.63 6.29 0.00 2.52
2093 2337 7.568199 TTAGAGCATGGTTAATAAGAAAGCC 57.432 36.000 0.00 0.00 0.00 4.35
2094 2338 4.576463 AGAGCATGGTTAATAAGAAAGCCG 59.424 41.667 0.00 0.00 0.00 5.52
2095 2339 3.632145 AGCATGGTTAATAAGAAAGCCGG 59.368 43.478 0.00 0.00 0.00 6.13
2096 2340 3.795488 GCATGGTTAATAAGAAAGCCGGC 60.795 47.826 21.89 21.89 0.00 6.13
2097 2341 2.371306 TGGTTAATAAGAAAGCCGGCC 58.629 47.619 26.15 8.19 0.00 6.13
2098 2342 1.332686 GGTTAATAAGAAAGCCGGCCG 59.667 52.381 26.15 21.04 0.00 6.13
2099 2343 1.018910 TTAATAAGAAAGCCGGCCGC 58.981 50.000 26.15 16.01 37.98 6.53
2125 2369 3.743521 TCTATAGCATTGCCATGTCACC 58.256 45.455 4.70 0.00 32.28 4.02
2126 2370 2.742428 ATAGCATTGCCATGTCACCT 57.258 45.000 4.70 0.00 32.28 4.00
2127 2371 1.753930 TAGCATTGCCATGTCACCTG 58.246 50.000 4.70 0.00 32.28 4.00
2128 2372 0.038599 AGCATTGCCATGTCACCTGA 59.961 50.000 4.70 0.00 32.28 3.86
2129 2373 0.889994 GCATTGCCATGTCACCTGAA 59.110 50.000 0.00 0.00 32.28 3.02
2130 2374 1.135199 GCATTGCCATGTCACCTGAAG 60.135 52.381 0.00 0.00 32.28 3.02
2131 2375 1.135199 CATTGCCATGTCACCTGAAGC 60.135 52.381 0.00 0.00 0.00 3.86
2132 2376 0.895100 TTGCCATGTCACCTGAAGCC 60.895 55.000 0.00 0.00 0.00 4.35
2133 2377 1.001641 GCCATGTCACCTGAAGCCT 60.002 57.895 0.00 0.00 0.00 4.58
2134 2378 0.610232 GCCATGTCACCTGAAGCCTT 60.610 55.000 0.00 0.00 0.00 4.35
2135 2379 1.915141 CCATGTCACCTGAAGCCTTT 58.085 50.000 0.00 0.00 0.00 3.11
2136 2380 1.542915 CCATGTCACCTGAAGCCTTTG 59.457 52.381 0.00 0.00 0.00 2.77
2137 2381 1.068055 CATGTCACCTGAAGCCTTTGC 60.068 52.381 0.00 0.00 37.95 3.68
2156 2400 9.379791 GCCTTTGCTAAAAGACTACTAATAAGA 57.620 33.333 0.00 0.00 44.81 2.10
2202 2446 7.951530 ATTGGCTATAGCATTTATTGTTTGC 57.048 32.000 25.53 4.62 44.36 3.68
2203 2447 6.462552 TGGCTATAGCATTTATTGTTTGCA 57.537 33.333 25.53 7.16 44.36 4.08
2204 2448 7.053316 TGGCTATAGCATTTATTGTTTGCAT 57.947 32.000 25.53 0.00 44.36 3.96
2205 2449 6.924612 TGGCTATAGCATTTATTGTTTGCATG 59.075 34.615 25.53 0.00 44.36 4.06
2206 2450 6.925165 GGCTATAGCATTTATTGTTTGCATGT 59.075 34.615 25.53 0.00 44.36 3.21
2207 2451 7.095940 GGCTATAGCATTTATTGTTTGCATGTG 60.096 37.037 25.53 0.00 44.36 3.21
2208 2452 7.095940 GCTATAGCATTTATTGTTTGCATGTGG 60.096 37.037 20.01 0.00 41.59 4.17
2209 2453 4.255301 AGCATTTATTGTTTGCATGTGGG 58.745 39.130 0.00 0.00 38.84 4.61
2210 2454 3.374678 GCATTTATTGTTTGCATGTGGGG 59.625 43.478 0.00 0.00 36.40 4.96
2211 2455 4.829968 CATTTATTGTTTGCATGTGGGGA 58.170 39.130 0.00 0.00 0.00 4.81
2212 2456 4.963318 TTTATTGTTTGCATGTGGGGAA 57.037 36.364 0.00 0.00 0.00 3.97
2213 2457 4.533919 TTATTGTTTGCATGTGGGGAAG 57.466 40.909 0.00 0.00 0.00 3.46
2214 2458 1.047002 TTGTTTGCATGTGGGGAAGG 58.953 50.000 0.00 0.00 0.00 3.46
2215 2459 0.831288 TGTTTGCATGTGGGGAAGGG 60.831 55.000 0.00 0.00 0.00 3.95
2216 2460 0.541764 GTTTGCATGTGGGGAAGGGA 60.542 55.000 0.00 0.00 0.00 4.20
2217 2461 0.251742 TTTGCATGTGGGGAAGGGAG 60.252 55.000 0.00 0.00 0.00 4.30
2218 2462 1.139498 TTGCATGTGGGGAAGGGAGA 61.139 55.000 0.00 0.00 0.00 3.71
2219 2463 1.139498 TGCATGTGGGGAAGGGAGAA 61.139 55.000 0.00 0.00 0.00 2.87
2220 2464 0.394899 GCATGTGGGGAAGGGAGAAG 60.395 60.000 0.00 0.00 0.00 2.85
2221 2465 1.289160 CATGTGGGGAAGGGAGAAGA 58.711 55.000 0.00 0.00 0.00 2.87
2222 2466 1.635487 CATGTGGGGAAGGGAGAAGAA 59.365 52.381 0.00 0.00 0.00 2.52
2223 2467 1.064825 TGTGGGGAAGGGAGAAGAAC 58.935 55.000 0.00 0.00 0.00 3.01
2224 2468 1.064825 GTGGGGAAGGGAGAAGAACA 58.935 55.000 0.00 0.00 0.00 3.18
2225 2469 1.064825 TGGGGAAGGGAGAAGAACAC 58.935 55.000 0.00 0.00 0.00 3.32
2226 2470 1.064825 GGGGAAGGGAGAAGAACACA 58.935 55.000 0.00 0.00 0.00 3.72
2227 2471 1.271434 GGGGAAGGGAGAAGAACACAC 60.271 57.143 0.00 0.00 0.00 3.82
2228 2472 1.608283 GGGAAGGGAGAAGAACACACG 60.608 57.143 0.00 0.00 0.00 4.49
2229 2473 1.070289 GGAAGGGAGAAGAACACACGT 59.930 52.381 0.00 0.00 0.00 4.49
2230 2474 2.135933 GAAGGGAGAAGAACACACGTG 58.864 52.381 15.48 15.48 0.00 4.49
2231 2475 1.410004 AGGGAGAAGAACACACGTGA 58.590 50.000 25.01 0.00 0.00 4.35
2232 2476 1.971357 AGGGAGAAGAACACACGTGAT 59.029 47.619 25.01 6.94 0.00 3.06
2233 2477 2.368875 AGGGAGAAGAACACACGTGATT 59.631 45.455 25.01 15.91 0.00 2.57
2234 2478 2.480419 GGGAGAAGAACACACGTGATTG 59.520 50.000 25.01 13.86 0.00 2.67
2235 2479 2.480419 GGAGAAGAACACACGTGATTGG 59.520 50.000 25.01 10.90 0.00 3.16
2236 2480 3.131396 GAGAAGAACACACGTGATTGGT 58.869 45.455 25.01 9.93 0.00 3.67
2237 2481 2.872245 AGAAGAACACACGTGATTGGTG 59.128 45.455 25.01 12.24 41.15 4.17
2238 2482 1.593196 AGAACACACGTGATTGGTGG 58.407 50.000 25.01 4.79 39.69 4.61
2239 2483 1.140052 AGAACACACGTGATTGGTGGA 59.860 47.619 25.01 0.00 39.69 4.02
2240 2484 1.263217 GAACACACGTGATTGGTGGAC 59.737 52.381 25.01 4.49 39.69 4.02
2241 2485 0.179234 ACACACGTGATTGGTGGACA 59.821 50.000 25.01 0.00 39.69 4.02
2242 2486 1.304254 CACACGTGATTGGTGGACAA 58.696 50.000 25.01 0.00 44.54 3.18
2243 2487 1.673400 CACACGTGATTGGTGGACAAA 59.327 47.619 25.01 0.00 43.46 2.83
2244 2488 2.098280 CACACGTGATTGGTGGACAAAA 59.902 45.455 25.01 0.00 43.46 2.44
2245 2489 2.755655 ACACGTGATTGGTGGACAAAAA 59.244 40.909 25.01 0.00 43.46 1.94
2246 2490 3.112580 CACGTGATTGGTGGACAAAAAC 58.887 45.455 10.90 0.00 43.46 2.43
2247 2491 2.755655 ACGTGATTGGTGGACAAAAACA 59.244 40.909 0.00 0.00 43.46 2.83
2248 2492 3.193691 ACGTGATTGGTGGACAAAAACAA 59.806 39.130 0.00 0.00 43.46 2.83
2249 2493 4.177026 CGTGATTGGTGGACAAAAACAAA 58.823 39.130 0.00 0.00 43.46 2.83
2250 2494 4.267452 CGTGATTGGTGGACAAAAACAAAG 59.733 41.667 0.00 0.00 43.46 2.77
2251 2495 4.033932 GTGATTGGTGGACAAAAACAAAGC 59.966 41.667 0.00 0.00 43.46 3.51
2252 2496 3.685139 TTGGTGGACAAAAACAAAGCA 57.315 38.095 0.00 0.00 35.79 3.91
2253 2497 3.244033 TGGTGGACAAAAACAAAGCAG 57.756 42.857 0.00 0.00 0.00 4.24
2254 2498 1.933181 GGTGGACAAAAACAAAGCAGC 59.067 47.619 0.00 0.00 0.00 5.25
2255 2499 1.587946 GTGGACAAAAACAAAGCAGCG 59.412 47.619 0.00 0.00 0.00 5.18
2256 2500 1.208259 GGACAAAAACAAAGCAGCGG 58.792 50.000 0.00 0.00 0.00 5.52
2257 2501 0.576798 GACAAAAACAAAGCAGCGGC 59.423 50.000 0.00 0.00 41.61 6.53
2268 2512 3.553597 GCAGCGGCTGTAGTACTAG 57.446 57.895 28.88 2.86 36.96 2.57
2269 2513 0.595310 GCAGCGGCTGTAGTACTAGC 60.595 60.000 28.88 8.86 39.17 3.42
2270 2514 0.738975 CAGCGGCTGTAGTACTAGCA 59.261 55.000 21.60 11.07 41.63 3.49
2271 2515 1.338337 CAGCGGCTGTAGTACTAGCAT 59.662 52.381 21.60 2.61 41.63 3.79
2272 2516 1.338337 AGCGGCTGTAGTACTAGCATG 59.662 52.381 17.34 10.98 41.63 4.06
2273 2517 1.603172 GCGGCTGTAGTACTAGCATGG 60.603 57.143 17.34 8.48 41.63 3.66
2274 2518 1.000163 CGGCTGTAGTACTAGCATGGG 60.000 57.143 17.34 2.55 41.63 4.00
2275 2519 1.270358 GGCTGTAGTACTAGCATGGGC 60.270 57.143 17.34 11.20 41.63 5.36
2292 2536 4.013702 CTGCAAGCCAGCTCCATT 57.986 55.556 0.00 0.00 34.21 3.16
2293 2537 2.273908 CTGCAAGCCAGCTCCATTT 58.726 52.632 0.00 0.00 34.21 2.32
2294 2538 0.606604 CTGCAAGCCAGCTCCATTTT 59.393 50.000 0.00 0.00 34.21 1.82
2295 2539 0.604578 TGCAAGCCAGCTCCATTTTC 59.395 50.000 0.00 0.00 34.99 2.29
2296 2540 0.108472 GCAAGCCAGCTCCATTTTCC 60.108 55.000 0.00 0.00 0.00 3.13
2297 2541 0.533951 CAAGCCAGCTCCATTTTCCC 59.466 55.000 0.00 0.00 0.00 3.97
2298 2542 0.967380 AAGCCAGCTCCATTTTCCCG 60.967 55.000 0.00 0.00 0.00 5.14
2299 2543 1.678970 GCCAGCTCCATTTTCCCGT 60.679 57.895 0.00 0.00 0.00 5.28
2300 2544 1.657751 GCCAGCTCCATTTTCCCGTC 61.658 60.000 0.00 0.00 0.00 4.79
2301 2545 1.369091 CCAGCTCCATTTTCCCGTCG 61.369 60.000 0.00 0.00 0.00 5.12
2302 2546 0.391130 CAGCTCCATTTTCCCGTCGA 60.391 55.000 0.00 0.00 0.00 4.20
2303 2547 0.108138 AGCTCCATTTTCCCGTCGAG 60.108 55.000 0.00 0.00 0.00 4.04
2304 2548 0.391263 GCTCCATTTTCCCGTCGAGT 60.391 55.000 0.00 0.00 0.00 4.18
2305 2549 1.359848 CTCCATTTTCCCGTCGAGTG 58.640 55.000 0.00 0.00 0.00 3.51
2306 2550 0.682852 TCCATTTTCCCGTCGAGTGT 59.317 50.000 0.00 0.00 0.00 3.55
2307 2551 0.796312 CCATTTTCCCGTCGAGTGTG 59.204 55.000 0.00 0.00 0.00 3.82
2308 2552 0.165944 CATTTTCCCGTCGAGTGTGC 59.834 55.000 0.00 0.00 0.00 4.57
2309 2553 0.034896 ATTTTCCCGTCGAGTGTGCT 59.965 50.000 0.00 0.00 0.00 4.40
2310 2554 0.675083 TTTTCCCGTCGAGTGTGCTA 59.325 50.000 0.00 0.00 0.00 3.49
2311 2555 0.242825 TTTCCCGTCGAGTGTGCTAG 59.757 55.000 0.00 0.00 0.00 3.42
2312 2556 0.607217 TTCCCGTCGAGTGTGCTAGA 60.607 55.000 0.00 0.00 0.00 2.43
2313 2557 1.025113 TCCCGTCGAGTGTGCTAGAG 61.025 60.000 0.00 0.00 0.00 2.43
2314 2558 1.226435 CCGTCGAGTGTGCTAGAGC 60.226 63.158 0.00 0.00 42.50 4.09
2333 2577 8.740906 GCTAGAGCATGGTTAATAGTATAGACA 58.259 37.037 0.00 0.00 41.59 3.41
2335 2579 7.607250 AGAGCATGGTTAATAGTATAGACAGC 58.393 38.462 0.00 0.00 0.00 4.40
2336 2580 7.453126 AGAGCATGGTTAATAGTATAGACAGCT 59.547 37.037 0.00 0.00 0.00 4.24
2337 2581 8.651589 AGCATGGTTAATAGTATAGACAGCTA 57.348 34.615 0.00 0.00 0.00 3.32
2338 2582 8.524487 AGCATGGTTAATAGTATAGACAGCTAC 58.476 37.037 0.00 0.00 0.00 3.58
2339 2583 8.524487 GCATGGTTAATAGTATAGACAGCTACT 58.476 37.037 0.00 0.00 33.02 2.57
2340 2584 9.847706 CATGGTTAATAGTATAGACAGCTACTG 57.152 37.037 0.00 0.00 37.52 2.74
2341 2585 8.405418 TGGTTAATAGTATAGACAGCTACTGG 57.595 38.462 0.00 0.00 35.51 4.00
2342 2586 7.039923 TGGTTAATAGTATAGACAGCTACTGGC 60.040 40.741 0.00 0.00 40.37 4.85
2357 2601 5.601662 GCTACTGGCTATAAGTCATTGTCA 58.398 41.667 0.00 0.00 38.06 3.58
2358 2602 6.226787 GCTACTGGCTATAAGTCATTGTCAT 58.773 40.000 0.00 0.00 38.06 3.06
2359 2603 6.146837 GCTACTGGCTATAAGTCATTGTCATG 59.853 42.308 0.00 0.00 38.06 3.07
2360 2604 5.994250 ACTGGCTATAAGTCATTGTCATGT 58.006 37.500 0.00 0.00 0.00 3.21
2361 2605 6.418101 ACTGGCTATAAGTCATTGTCATGTT 58.582 36.000 0.00 0.00 0.00 2.71
2362 2606 7.564793 ACTGGCTATAAGTCATTGTCATGTTA 58.435 34.615 0.00 0.00 0.00 2.41
2363 2607 8.213679 ACTGGCTATAAGTCATTGTCATGTTAT 58.786 33.333 0.00 0.00 0.00 1.89
2364 2608 8.978874 TGGCTATAAGTCATTGTCATGTTATT 57.021 30.769 0.00 0.00 0.00 1.40
2365 2609 9.407380 TGGCTATAAGTCATTGTCATGTTATTT 57.593 29.630 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
58 59 3.161450 GTGGCGCCCCTATCTCCA 61.161 66.667 26.77 0.00 0.00 3.86
61 62 4.853142 TCCGTGGCGCCCCTATCT 62.853 66.667 26.77 0.00 0.00 1.98
226 227 3.025978 GTTGAATGATGCCCAATGGAGA 58.974 45.455 0.00 0.00 0.00 3.71
255 267 2.940561 GTTGCCACGGGTAACACG 59.059 61.111 15.44 0.00 45.37 4.49
455 473 0.038526 AGCAAAGCAGCAGCATTCAC 60.039 50.000 3.17 0.00 45.49 3.18
474 492 4.972733 AGTTGGCATGGCACGGCA 62.973 61.111 23.26 5.46 37.12 5.69
475 493 3.683937 AAGTTGGCATGGCACGGC 61.684 61.111 23.26 14.76 0.00 5.68
489 507 8.528044 TTCCCTTCTTTTATACACAAACAAGT 57.472 30.769 0.00 0.00 0.00 3.16
512 530 5.637387 CCTACAACAGCTTCTCTTCTCTTTC 59.363 44.000 0.00 0.00 0.00 2.62
561 589 6.759827 AGACATATAACGGTTATTGGTGTGTC 59.240 38.462 17.74 19.50 33.27 3.67
648 677 1.089920 ACTCGCATCCAGCATTCAAC 58.910 50.000 0.00 0.00 46.13 3.18
663 692 7.786178 TTGGATGATAAATAGTTCCAACTCG 57.214 36.000 0.00 0.00 40.57 4.18
685 714 5.437289 TGAGCTACAACCAAGAAACATTG 57.563 39.130 0.00 0.00 0.00 2.82
705 734 2.045708 GCACGACCAATGGCCATGA 61.046 57.895 21.63 0.00 0.00 3.07
711 740 1.068333 CAAAGAAGGCACGACCAATGG 60.068 52.381 0.00 0.00 43.14 3.16
712 741 1.608590 ACAAAGAAGGCACGACCAATG 59.391 47.619 0.00 0.00 43.14 2.82
713 742 1.981256 ACAAAGAAGGCACGACCAAT 58.019 45.000 0.00 0.00 43.14 3.16
714 743 1.673920 GAACAAAGAAGGCACGACCAA 59.326 47.619 0.00 0.00 43.14 3.67
717 746 4.464112 GTTATGAACAAAGAAGGCACGAC 58.536 43.478 0.00 0.00 0.00 4.34
718 747 3.185594 CGTTATGAACAAAGAAGGCACGA 59.814 43.478 0.00 0.00 0.00 4.35
719 748 3.185594 TCGTTATGAACAAAGAAGGCACG 59.814 43.478 0.00 0.00 0.00 5.34
720 749 4.742438 TCGTTATGAACAAAGAAGGCAC 57.258 40.909 0.00 0.00 0.00 5.01
721 750 5.000591 TCATCGTTATGAACAAAGAAGGCA 58.999 37.500 0.00 0.00 39.20 4.75
722 751 5.545658 TCATCGTTATGAACAAAGAAGGC 57.454 39.130 0.00 0.00 39.20 4.35
723 752 7.307493 TCATCATCGTTATGAACAAAGAAGG 57.693 36.000 0.00 0.00 45.12 3.46
726 755 9.546428 ACATATCATCATCGTTATGAACAAAGA 57.454 29.630 0.00 0.00 45.12 2.52
739 768 7.953158 AGTAAAAGTCCACATATCATCATCG 57.047 36.000 0.00 0.00 0.00 3.84
759 788 6.432783 CCAAACATCCAACTACATCCAAGTAA 59.567 38.462 0.00 0.00 0.00 2.24
760 789 5.943416 CCAAACATCCAACTACATCCAAGTA 59.057 40.000 0.00 0.00 0.00 2.24
761 790 4.766891 CCAAACATCCAACTACATCCAAGT 59.233 41.667 0.00 0.00 0.00 3.16
762 791 4.158394 CCCAAACATCCAACTACATCCAAG 59.842 45.833 0.00 0.00 0.00 3.61
763 792 4.085733 CCCAAACATCCAACTACATCCAA 58.914 43.478 0.00 0.00 0.00 3.53
764 793 3.075283 ACCCAAACATCCAACTACATCCA 59.925 43.478 0.00 0.00 0.00 3.41
765 794 3.697166 ACCCAAACATCCAACTACATCC 58.303 45.455 0.00 0.00 0.00 3.51
766 795 7.404671 AAATACCCAAACATCCAACTACATC 57.595 36.000 0.00 0.00 0.00 3.06
767 796 7.790782 AAAATACCCAAACATCCAACTACAT 57.209 32.000 0.00 0.00 0.00 2.29
768 797 7.604657 AAAAATACCCAAACATCCAACTACA 57.395 32.000 0.00 0.00 0.00 2.74
786 815 9.090692 CCTCCGTTTCGTCTTCTTATAAAAATA 57.909 33.333 0.00 0.00 0.00 1.40
796 825 1.542187 CCCCCTCCGTTTCGTCTTCT 61.542 60.000 0.00 0.00 0.00 2.85
831 860 1.005630 AGTTGAGAGCTGACGGCAC 60.006 57.895 9.39 1.64 44.79 5.01
832 861 1.005748 CAGTTGAGAGCTGACGGCA 60.006 57.895 9.39 0.00 44.79 5.69
833 862 0.319900 TTCAGTTGAGAGCTGACGGC 60.320 55.000 0.00 0.00 42.00 5.68
834 863 1.671261 CCTTCAGTTGAGAGCTGACGG 60.671 57.143 0.00 3.96 42.97 4.79
835 864 1.270826 TCCTTCAGTTGAGAGCTGACG 59.729 52.381 0.00 0.00 42.00 4.35
836 865 2.930455 GCTCCTTCAGTTGAGAGCTGAC 60.930 54.545 13.22 0.00 46.50 3.51
837 866 1.274728 GCTCCTTCAGTTGAGAGCTGA 59.725 52.381 13.22 0.00 46.50 4.26
838 867 1.724429 GCTCCTTCAGTTGAGAGCTG 58.276 55.000 13.22 0.00 46.50 4.24
841 870 0.108424 CGGGCTCCTTCAGTTGAGAG 60.108 60.000 0.00 0.00 0.00 3.20
842 871 1.544825 CCGGGCTCCTTCAGTTGAGA 61.545 60.000 0.00 0.00 0.00 3.27
893 926 4.932911 TTATAAAAGGGAGGGGAAACGT 57.067 40.909 0.00 0.00 0.00 3.99
906 940 5.278315 GCTAAAGGTGGCGGGATTATAAAAG 60.278 44.000 0.00 0.00 0.00 2.27
949 983 1.216977 GTGGGTTTAATTGGCGGGC 59.783 57.895 0.00 0.00 0.00 6.13
974 1009 1.770658 AGAGGAATGGAATGGATCGCA 59.229 47.619 0.00 0.00 0.00 5.10
978 1013 1.072965 GGCGAGAGGAATGGAATGGAT 59.927 52.381 0.00 0.00 0.00 3.41
982 1017 2.579873 CATTGGCGAGAGGAATGGAAT 58.420 47.619 0.00 0.00 0.00 3.01
998 1039 4.170062 CTGACGCGGCTGCCATTG 62.170 66.667 20.29 9.81 38.08 2.82
1019 1060 3.803082 CGGAGAACGTACCGGCGA 61.803 66.667 9.30 0.00 44.59 5.54
1229 1279 4.891727 CGAACCGCCTCATCCCCG 62.892 72.222 0.00 0.00 0.00 5.73
1445 1495 3.580100 GACGGTGAGCTGAGCTGCA 62.580 63.158 13.71 7.12 39.88 4.41
1481 1531 2.100024 TACAAACACACAGCTGCGCG 62.100 55.000 15.27 0.00 0.00 6.86
1542 1593 2.300996 TCCAGGAGGAGAACATGGC 58.699 57.895 0.00 0.00 39.61 4.40
1596 1647 4.891992 AGTGTTGCTACAGGACTTATGT 57.108 40.909 0.00 0.00 34.24 2.29
1644 1700 7.225931 GGCGGTACATACCATACCATATTATTG 59.774 40.741 8.76 0.00 46.80 1.90
1700 1778 0.676184 TGAGCATCAGGATCTACGCC 59.324 55.000 0.00 0.00 42.56 5.68
1732 1810 4.572389 GCAGAAATCGTTGATGATGGTAGT 59.428 41.667 0.00 0.00 0.00 2.73
1855 1933 1.593006 CAATGATACGCAAGGACGGAC 59.407 52.381 0.00 0.00 46.39 4.79
1961 2039 1.943340 TCGGTCTCGATCAGTCATCAG 59.057 52.381 0.00 0.00 40.88 2.90
1962 2040 2.038387 TCGGTCTCGATCAGTCATCA 57.962 50.000 0.00 0.00 40.88 3.07
1993 2237 7.102346 ACAAGGATGAGATTAGAACAAGTCAG 58.898 38.462 0.00 0.00 0.00 3.51
1997 2241 8.103948 ACAAACAAGGATGAGATTAGAACAAG 57.896 34.615 0.00 0.00 0.00 3.16
2032 2276 3.276578 TGGGGAGGAGGGAGTATCTTTTA 59.723 47.826 0.00 0.00 33.73 1.52
2043 2287 2.644798 CCTTACAATATGGGGAGGAGGG 59.355 54.545 0.00 0.00 0.00 4.30
2044 2288 2.040412 GCCTTACAATATGGGGAGGAGG 59.960 54.545 5.44 0.00 0.00 4.30
2045 2289 2.289694 CGCCTTACAATATGGGGAGGAG 60.290 54.545 5.44 0.00 37.92 3.69
2046 2290 1.697432 CGCCTTACAATATGGGGAGGA 59.303 52.381 5.44 0.00 37.92 3.71
2047 2291 1.420138 ACGCCTTACAATATGGGGAGG 59.580 52.381 10.59 0.00 38.69 4.30
2048 2292 2.930826 ACGCCTTACAATATGGGGAG 57.069 50.000 10.59 0.00 38.69 4.30
2049 2293 4.986054 AATACGCCTTACAATATGGGGA 57.014 40.909 10.59 0.00 38.69 4.81
2050 2294 6.045072 TCTAATACGCCTTACAATATGGGG 57.955 41.667 0.00 0.00 40.41 4.96
2051 2295 5.581085 GCTCTAATACGCCTTACAATATGGG 59.419 44.000 0.00 0.00 0.00 4.00
2052 2296 6.163476 TGCTCTAATACGCCTTACAATATGG 58.837 40.000 0.00 0.00 0.00 2.74
2053 2297 7.201556 CCATGCTCTAATACGCCTTACAATATG 60.202 40.741 0.00 0.00 0.00 1.78
2054 2298 6.818644 CCATGCTCTAATACGCCTTACAATAT 59.181 38.462 0.00 0.00 0.00 1.28
2055 2299 6.163476 CCATGCTCTAATACGCCTTACAATA 58.837 40.000 0.00 0.00 0.00 1.90
2056 2300 4.997395 CCATGCTCTAATACGCCTTACAAT 59.003 41.667 0.00 0.00 0.00 2.71
2057 2301 4.141801 ACCATGCTCTAATACGCCTTACAA 60.142 41.667 0.00 0.00 0.00 2.41
2058 2302 3.386726 ACCATGCTCTAATACGCCTTACA 59.613 43.478 0.00 0.00 0.00 2.41
2059 2303 3.991367 ACCATGCTCTAATACGCCTTAC 58.009 45.455 0.00 0.00 0.00 2.34
2060 2304 4.682778 AACCATGCTCTAATACGCCTTA 57.317 40.909 0.00 0.00 0.00 2.69
2061 2305 3.560636 AACCATGCTCTAATACGCCTT 57.439 42.857 0.00 0.00 0.00 4.35
2062 2306 4.682778 TTAACCATGCTCTAATACGCCT 57.317 40.909 0.00 0.00 0.00 5.52
2063 2307 6.872020 TCTTATTAACCATGCTCTAATACGCC 59.128 38.462 0.00 0.00 0.00 5.68
2064 2308 7.884816 TCTTATTAACCATGCTCTAATACGC 57.115 36.000 0.00 0.00 0.00 4.42
2067 2311 9.284968 GGCTTTCTTATTAACCATGCTCTAATA 57.715 33.333 0.00 0.00 0.00 0.98
2068 2312 7.041098 CGGCTTTCTTATTAACCATGCTCTAAT 60.041 37.037 0.00 0.00 0.00 1.73
2069 2313 6.260050 CGGCTTTCTTATTAACCATGCTCTAA 59.740 38.462 0.00 0.00 0.00 2.10
2070 2314 5.758296 CGGCTTTCTTATTAACCATGCTCTA 59.242 40.000 0.00 0.00 0.00 2.43
2071 2315 4.576463 CGGCTTTCTTATTAACCATGCTCT 59.424 41.667 0.00 0.00 0.00 4.09
2072 2316 4.261197 CCGGCTTTCTTATTAACCATGCTC 60.261 45.833 0.00 0.00 0.00 4.26
2073 2317 3.632145 CCGGCTTTCTTATTAACCATGCT 59.368 43.478 0.00 0.00 0.00 3.79
2074 2318 3.795488 GCCGGCTTTCTTATTAACCATGC 60.795 47.826 22.15 0.00 0.00 4.06
2075 2319 3.243401 GGCCGGCTTTCTTATTAACCATG 60.243 47.826 28.56 0.00 0.00 3.66
2076 2320 2.956333 GGCCGGCTTTCTTATTAACCAT 59.044 45.455 28.56 0.00 0.00 3.55
2077 2321 2.371306 GGCCGGCTTTCTTATTAACCA 58.629 47.619 28.56 0.00 0.00 3.67
2078 2322 1.332686 CGGCCGGCTTTCTTATTAACC 59.667 52.381 28.56 3.07 0.00 2.85
2079 2323 1.268386 GCGGCCGGCTTTCTTATTAAC 60.268 52.381 29.38 3.31 39.11 2.01
2080 2324 1.018910 GCGGCCGGCTTTCTTATTAA 58.981 50.000 29.38 0.00 39.11 1.40
2081 2325 2.697819 GCGGCCGGCTTTCTTATTA 58.302 52.632 29.38 0.00 39.11 0.98
2082 2326 3.509659 GCGGCCGGCTTTCTTATT 58.490 55.556 29.38 0.00 39.11 1.40
2103 2347 3.750130 GGTGACATGGCAATGCTATAGAG 59.250 47.826 0.58 0.00 37.29 2.43
2104 2348 3.392285 AGGTGACATGGCAATGCTATAGA 59.608 43.478 0.58 0.00 37.29 1.98
2105 2349 3.501062 CAGGTGACATGGCAATGCTATAG 59.499 47.826 0.58 1.92 37.29 1.31
2106 2350 3.136260 TCAGGTGACATGGCAATGCTATA 59.864 43.478 0.58 0.00 37.29 1.31
2107 2351 2.092267 TCAGGTGACATGGCAATGCTAT 60.092 45.455 0.58 0.42 37.29 2.97
2108 2352 1.281577 TCAGGTGACATGGCAATGCTA 59.718 47.619 0.58 0.00 37.29 3.49
2109 2353 0.038599 TCAGGTGACATGGCAATGCT 59.961 50.000 0.58 0.00 37.29 3.79
2110 2354 0.889994 TTCAGGTGACATGGCAATGC 59.110 50.000 0.58 0.00 37.29 3.56
2111 2355 1.135199 GCTTCAGGTGACATGGCAATG 60.135 52.381 0.58 5.63 39.89 2.82
2112 2356 1.180029 GCTTCAGGTGACATGGCAAT 58.820 50.000 0.58 0.00 0.00 3.56
2113 2357 0.895100 GGCTTCAGGTGACATGGCAA 60.895 55.000 0.58 0.00 0.00 4.52
2114 2358 1.303561 GGCTTCAGGTGACATGGCA 60.304 57.895 0.00 0.00 0.00 4.92
2115 2359 0.610232 AAGGCTTCAGGTGACATGGC 60.610 55.000 0.00 0.00 0.00 4.40
2116 2360 1.542915 CAAAGGCTTCAGGTGACATGG 59.457 52.381 0.00 0.00 0.00 3.66
2117 2361 1.068055 GCAAAGGCTTCAGGTGACATG 60.068 52.381 0.00 0.00 36.96 3.21
2118 2362 1.251251 GCAAAGGCTTCAGGTGACAT 58.749 50.000 0.00 0.00 36.96 3.06
2119 2363 2.719376 GCAAAGGCTTCAGGTGACA 58.281 52.632 0.00 0.00 36.96 3.58
2130 2374 9.379791 TCTTATTAGTAGTCTTTTAGCAAAGGC 57.620 33.333 0.00 0.00 43.92 4.35
2158 2402 8.769359 AGCCAATTTAGTACCTAATCTACAGTT 58.231 33.333 0.00 0.00 0.00 3.16
2159 2403 8.320338 AGCCAATTTAGTACCTAATCTACAGT 57.680 34.615 0.00 0.00 0.00 3.55
2164 2408 9.101325 TGCTATAGCCAATTTAGTACCTAATCT 57.899 33.333 21.84 0.00 41.18 2.40
2165 2409 9.892130 ATGCTATAGCCAATTTAGTACCTAATC 57.108 33.333 21.84 0.00 41.18 1.75
2176 2420 8.829612 GCAAACAATAAATGCTATAGCCAATTT 58.170 29.630 21.84 21.07 41.18 1.82
2177 2421 7.986320 TGCAAACAATAAATGCTATAGCCAATT 59.014 29.630 21.84 12.71 40.66 2.32
2178 2422 7.499292 TGCAAACAATAAATGCTATAGCCAAT 58.501 30.769 21.84 7.00 40.66 3.16
2179 2423 6.871844 TGCAAACAATAAATGCTATAGCCAA 58.128 32.000 21.84 4.66 40.66 4.52
2180 2424 6.462552 TGCAAACAATAAATGCTATAGCCA 57.537 33.333 21.84 10.43 40.66 4.75
2181 2425 6.925165 ACATGCAAACAATAAATGCTATAGCC 59.075 34.615 21.84 4.84 40.66 3.93
2182 2426 7.095940 CCACATGCAAACAATAAATGCTATAGC 60.096 37.037 18.18 18.18 40.66 2.97
2183 2427 7.383029 CCCACATGCAAACAATAAATGCTATAG 59.617 37.037 0.00 0.00 40.66 1.31
2184 2428 7.208777 CCCACATGCAAACAATAAATGCTATA 58.791 34.615 0.00 0.00 40.66 1.31
2185 2429 6.050432 CCCACATGCAAACAATAAATGCTAT 58.950 36.000 0.00 0.00 40.66 2.97
2186 2430 5.417811 CCCACATGCAAACAATAAATGCTA 58.582 37.500 0.00 0.00 40.66 3.49
2187 2431 4.255301 CCCACATGCAAACAATAAATGCT 58.745 39.130 0.00 0.00 40.66 3.79
2188 2432 3.374678 CCCCACATGCAAACAATAAATGC 59.625 43.478 0.00 0.00 40.45 3.56
2189 2433 4.829968 TCCCCACATGCAAACAATAAATG 58.170 39.130 0.00 0.00 0.00 2.32
2190 2434 5.490159 CTTCCCCACATGCAAACAATAAAT 58.510 37.500 0.00 0.00 0.00 1.40
2191 2435 4.262808 CCTTCCCCACATGCAAACAATAAA 60.263 41.667 0.00 0.00 0.00 1.40
2192 2436 3.260380 CCTTCCCCACATGCAAACAATAA 59.740 43.478 0.00 0.00 0.00 1.40
2193 2437 2.830923 CCTTCCCCACATGCAAACAATA 59.169 45.455 0.00 0.00 0.00 1.90
2194 2438 1.624813 CCTTCCCCACATGCAAACAAT 59.375 47.619 0.00 0.00 0.00 2.71
2195 2439 1.047002 CCTTCCCCACATGCAAACAA 58.953 50.000 0.00 0.00 0.00 2.83
2196 2440 0.831288 CCCTTCCCCACATGCAAACA 60.831 55.000 0.00 0.00 0.00 2.83
2197 2441 0.541764 TCCCTTCCCCACATGCAAAC 60.542 55.000 0.00 0.00 0.00 2.93
2198 2442 0.251742 CTCCCTTCCCCACATGCAAA 60.252 55.000 0.00 0.00 0.00 3.68
2199 2443 1.139498 TCTCCCTTCCCCACATGCAA 61.139 55.000 0.00 0.00 0.00 4.08
2200 2444 1.139498 TTCTCCCTTCCCCACATGCA 61.139 55.000 0.00 0.00 0.00 3.96
2201 2445 0.394899 CTTCTCCCTTCCCCACATGC 60.395 60.000 0.00 0.00 0.00 4.06
2202 2446 1.289160 TCTTCTCCCTTCCCCACATG 58.711 55.000 0.00 0.00 0.00 3.21
2203 2447 1.636003 GTTCTTCTCCCTTCCCCACAT 59.364 52.381 0.00 0.00 0.00 3.21
2204 2448 1.064825 GTTCTTCTCCCTTCCCCACA 58.935 55.000 0.00 0.00 0.00 4.17
2205 2449 1.064825 TGTTCTTCTCCCTTCCCCAC 58.935 55.000 0.00 0.00 0.00 4.61
2206 2450 1.064825 GTGTTCTTCTCCCTTCCCCA 58.935 55.000 0.00 0.00 0.00 4.96
2207 2451 1.064825 TGTGTTCTTCTCCCTTCCCC 58.935 55.000 0.00 0.00 0.00 4.81
2208 2452 1.608283 CGTGTGTTCTTCTCCCTTCCC 60.608 57.143 0.00 0.00 0.00 3.97
2209 2453 1.070289 ACGTGTGTTCTTCTCCCTTCC 59.930 52.381 0.00 0.00 0.00 3.46
2210 2454 2.135933 CACGTGTGTTCTTCTCCCTTC 58.864 52.381 7.58 0.00 0.00 3.46
2211 2455 1.760613 TCACGTGTGTTCTTCTCCCTT 59.239 47.619 16.51 0.00 0.00 3.95
2212 2456 1.410004 TCACGTGTGTTCTTCTCCCT 58.590 50.000 16.51 0.00 0.00 4.20
2213 2457 2.457366 ATCACGTGTGTTCTTCTCCC 57.543 50.000 16.51 0.00 0.00 4.30
2214 2458 2.480419 CCAATCACGTGTGTTCTTCTCC 59.520 50.000 16.51 0.00 0.00 3.71
2215 2459 3.059597 CACCAATCACGTGTGTTCTTCTC 60.060 47.826 16.51 0.00 0.00 2.87
2216 2460 2.872245 CACCAATCACGTGTGTTCTTCT 59.128 45.455 16.51 0.00 0.00 2.85
2217 2461 2.032030 CCACCAATCACGTGTGTTCTTC 60.032 50.000 16.51 0.00 0.00 2.87
2218 2462 1.946768 CCACCAATCACGTGTGTTCTT 59.053 47.619 16.51 0.19 0.00 2.52
2219 2463 1.140052 TCCACCAATCACGTGTGTTCT 59.860 47.619 16.51 0.00 0.00 3.01
2220 2464 1.263217 GTCCACCAATCACGTGTGTTC 59.737 52.381 16.51 0.00 0.00 3.18
2221 2465 1.305201 GTCCACCAATCACGTGTGTT 58.695 50.000 16.51 9.18 0.00 3.32
2222 2466 0.179234 TGTCCACCAATCACGTGTGT 59.821 50.000 16.51 6.22 0.00 3.72
2223 2467 1.304254 TTGTCCACCAATCACGTGTG 58.696 50.000 16.51 7.35 0.00 3.82
2224 2468 2.045561 TTTGTCCACCAATCACGTGT 57.954 45.000 16.51 0.00 31.81 4.49
2225 2469 3.112580 GTTTTTGTCCACCAATCACGTG 58.887 45.455 9.94 9.94 31.81 4.49
2226 2470 2.755655 TGTTTTTGTCCACCAATCACGT 59.244 40.909 0.00 0.00 31.81 4.49
2227 2471 3.428746 TGTTTTTGTCCACCAATCACG 57.571 42.857 0.00 0.00 31.81 4.35
2228 2472 4.033932 GCTTTGTTTTTGTCCACCAATCAC 59.966 41.667 0.00 0.00 31.81 3.06
2229 2473 4.187694 GCTTTGTTTTTGTCCACCAATCA 58.812 39.130 0.00 0.00 31.81 2.57
2230 2474 4.187694 TGCTTTGTTTTTGTCCACCAATC 58.812 39.130 0.00 0.00 31.81 2.67
2231 2475 4.190772 CTGCTTTGTTTTTGTCCACCAAT 58.809 39.130 0.00 0.00 31.81 3.16
2232 2476 3.594134 CTGCTTTGTTTTTGTCCACCAA 58.406 40.909 0.00 0.00 0.00 3.67
2233 2477 2.676463 GCTGCTTTGTTTTTGTCCACCA 60.676 45.455 0.00 0.00 0.00 4.17
2234 2478 1.933181 GCTGCTTTGTTTTTGTCCACC 59.067 47.619 0.00 0.00 0.00 4.61
2235 2479 1.587946 CGCTGCTTTGTTTTTGTCCAC 59.412 47.619 0.00 0.00 0.00 4.02
2236 2480 1.470632 CCGCTGCTTTGTTTTTGTCCA 60.471 47.619 0.00 0.00 0.00 4.02
2237 2481 1.208259 CCGCTGCTTTGTTTTTGTCC 58.792 50.000 0.00 0.00 0.00 4.02
2238 2482 0.576798 GCCGCTGCTTTGTTTTTGTC 59.423 50.000 0.00 0.00 33.53 3.18
2239 2483 2.676744 GCCGCTGCTTTGTTTTTGT 58.323 47.368 0.00 0.00 33.53 2.83
2250 2494 0.595310 GCTAGTACTACAGCCGCTGC 60.595 60.000 20.56 3.56 34.37 5.25
2251 2495 0.738975 TGCTAGTACTACAGCCGCTG 59.261 55.000 19.08 19.08 36.95 5.18
2252 2496 1.338337 CATGCTAGTACTACAGCCGCT 59.662 52.381 13.80 0.00 36.95 5.52
2253 2497 1.603172 CCATGCTAGTACTACAGCCGC 60.603 57.143 13.80 9.15 36.95 6.53
2254 2498 1.000163 CCCATGCTAGTACTACAGCCG 60.000 57.143 13.80 6.28 36.95 5.52
2255 2499 1.270358 GCCCATGCTAGTACTACAGCC 60.270 57.143 13.80 0.00 36.95 4.85
2256 2500 2.156343 GCCCATGCTAGTACTACAGC 57.844 55.000 10.22 10.22 38.31 4.40
2274 2518 1.885163 AAATGGAGCTGGCTTGCAGC 61.885 55.000 5.40 5.40 45.38 5.25
2275 2519 0.606604 AAAATGGAGCTGGCTTGCAG 59.393 50.000 0.00 0.00 34.99 4.41
2276 2520 0.604578 GAAAATGGAGCTGGCTTGCA 59.395 50.000 0.00 0.00 34.99 4.08
2277 2521 0.108472 GGAAAATGGAGCTGGCTTGC 60.108 55.000 0.00 0.00 0.00 4.01
2278 2522 0.533951 GGGAAAATGGAGCTGGCTTG 59.466 55.000 0.00 0.00 0.00 4.01
2279 2523 0.967380 CGGGAAAATGGAGCTGGCTT 60.967 55.000 0.00 0.00 0.00 4.35
2280 2524 1.379044 CGGGAAAATGGAGCTGGCT 60.379 57.895 0.00 0.00 0.00 4.75
2281 2525 1.657751 GACGGGAAAATGGAGCTGGC 61.658 60.000 0.00 0.00 0.00 4.85
2282 2526 1.369091 CGACGGGAAAATGGAGCTGG 61.369 60.000 0.00 0.00 0.00 4.85
2283 2527 0.391130 TCGACGGGAAAATGGAGCTG 60.391 55.000 0.00 0.00 0.00 4.24
2284 2528 0.108138 CTCGACGGGAAAATGGAGCT 60.108 55.000 0.00 0.00 0.00 4.09
2285 2529 0.391263 ACTCGACGGGAAAATGGAGC 60.391 55.000 0.00 0.00 0.00 4.70
2286 2530 1.337823 ACACTCGACGGGAAAATGGAG 60.338 52.381 0.00 0.00 0.00 3.86
2287 2531 0.682852 ACACTCGACGGGAAAATGGA 59.317 50.000 0.00 0.00 0.00 3.41
2288 2532 0.796312 CACACTCGACGGGAAAATGG 59.204 55.000 0.00 0.00 0.00 3.16
2289 2533 0.165944 GCACACTCGACGGGAAAATG 59.834 55.000 0.00 0.00 0.00 2.32
2290 2534 0.034896 AGCACACTCGACGGGAAAAT 59.965 50.000 0.00 0.00 0.00 1.82
2291 2535 0.675083 TAGCACACTCGACGGGAAAA 59.325 50.000 0.00 0.00 0.00 2.29
2292 2536 0.242825 CTAGCACACTCGACGGGAAA 59.757 55.000 0.00 0.00 0.00 3.13
2293 2537 0.607217 TCTAGCACACTCGACGGGAA 60.607 55.000 0.00 0.00 0.00 3.97
2294 2538 1.002990 TCTAGCACACTCGACGGGA 60.003 57.895 0.00 0.00 0.00 5.14
2295 2539 1.429825 CTCTAGCACACTCGACGGG 59.570 63.158 0.00 0.00 0.00 5.28
2296 2540 1.226435 GCTCTAGCACACTCGACGG 60.226 63.158 0.00 0.00 41.59 4.79
2297 2541 4.368756 GCTCTAGCACACTCGACG 57.631 61.111 0.00 0.00 41.59 5.12
2307 2551 8.740906 TGTCTATACTATTAACCATGCTCTAGC 58.259 37.037 0.00 0.00 42.50 3.42
2309 2553 8.740906 GCTGTCTATACTATTAACCATGCTCTA 58.259 37.037 0.00 0.00 0.00 2.43
2310 2554 7.453126 AGCTGTCTATACTATTAACCATGCTCT 59.547 37.037 0.00 0.00 0.00 4.09
2311 2555 7.607250 AGCTGTCTATACTATTAACCATGCTC 58.393 38.462 0.00 0.00 0.00 4.26
2312 2556 7.546250 AGCTGTCTATACTATTAACCATGCT 57.454 36.000 0.00 0.00 0.00 3.79
2313 2557 8.524487 AGTAGCTGTCTATACTATTAACCATGC 58.476 37.037 0.00 0.00 30.50 4.06
2314 2558 9.847706 CAGTAGCTGTCTATACTATTAACCATG 57.152 37.037 0.00 0.00 31.10 3.66
2315 2559 9.026121 CCAGTAGCTGTCTATACTATTAACCAT 57.974 37.037 0.00 0.00 31.10 3.55
2316 2560 7.039923 GCCAGTAGCTGTCTATACTATTAACCA 60.040 40.741 0.00 0.00 38.99 3.67
2317 2561 7.314393 GCCAGTAGCTGTCTATACTATTAACC 58.686 42.308 0.00 0.00 38.99 2.85
2333 2577 7.953932 CATGACAATGACTTATAGCCAGTAGCT 60.954 40.741 0.00 0.00 45.42 3.32
2334 2578 5.601662 TGACAATGACTTATAGCCAGTAGC 58.398 41.667 0.00 0.00 44.25 3.58
2335 2579 7.212976 ACATGACAATGACTTATAGCCAGTAG 58.787 38.462 0.00 0.00 37.24 2.57
2336 2580 7.124573 ACATGACAATGACTTATAGCCAGTA 57.875 36.000 0.00 0.00 37.24 2.74
2337 2581 5.994250 ACATGACAATGACTTATAGCCAGT 58.006 37.500 0.00 0.00 37.24 4.00
2338 2582 6.932356 AACATGACAATGACTTATAGCCAG 57.068 37.500 0.00 0.00 37.24 4.85
2339 2583 8.978874 AATAACATGACAATGACTTATAGCCA 57.021 30.769 0.00 0.00 37.24 4.75


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

AutoCloner maintained by Alex Coulton.