Multiple sequence alignment - TraesCS3B01G255900

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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 TraesCS3B01G255900 chr3B 100.000 2249 0 0 1 2249 413043795 413041547 0.000000e+00 4154.0
1 TraesCS3B01G255900 chr3B 100.000 73 0 0 1679 1751 413042041 413041969 3.900000e-28 135.0
2 TraesCS3B01G255900 chr3B 100.000 73 0 0 1755 1827 413042117 413042045 3.900000e-28 135.0
3 TraesCS3B01G255900 chr3A 90.742 1793 92 29 1 1751 427758416 427760176 0.000000e+00 2324.0
4 TraesCS3B01G255900 chr3A 92.000 125 6 2 1755 1879 427760104 427760224 2.970000e-39 172.0
5 TraesCS3B01G255900 chr3A 87.037 54 4 3 329 380 746592027 746591975 8.680000e-05 58.4
6 TraesCS3B01G255900 chr3D 95.560 901 22 6 858 1751 308264119 308265008 0.000000e+00 1426.0
7 TraesCS3B01G255900 chr3D 83.524 613 55 26 232 819 308263522 308264113 4.250000e-147 531.0
8 TraesCS3B01G255900 chr3D 89.888 267 21 3 1985 2249 308265086 308265348 2.770000e-89 339.0
9 TraesCS3B01G255900 chr3D 92.800 125 2 4 1755 1879 308264938 308265055 8.260000e-40 174.0
10 TraesCS3B01G255900 chr3D 89.623 106 4 3 1258 1363 16425298 16425200 6.520000e-26 128.0
11 TraesCS3B01G255900 chr3D 84.848 66 7 3 312 377 354005566 354005628 1.860000e-06 63.9
12 TraesCS3B01G255900 chrUn 77.847 641 91 34 7 623 3555951 3556564 1.280000e-92 350.0
13 TraesCS3B01G255900 chrUn 77.605 643 91 36 7 623 340213901 340214516 7.690000e-90 340.0
14 TraesCS3B01G255900 chr7A 85.235 149 12 6 1216 1363 343178961 343179100 6.470000e-31 145.0
15 TraesCS3B01G255900 chr2B 84.564 149 14 8 1216 1363 551273284 551273144 3.010000e-29 139.0
16 TraesCS3B01G255900 chr6B 83.893 149 15 5 1216 1363 10523181 10523041 1.400000e-27 134.0
17 TraesCS3B01G255900 chr6B 87.826 115 6 4 1249 1363 10587377 10587271 6.520000e-26 128.0
18 TraesCS3B01G255900 chr4A 83.108 148 18 3 1216 1363 697959557 697959417 6.520000e-26 128.0
19 TraesCS3B01G255900 chr5D 81.208 149 20 5 1216 1363 117738149 117738290 1.830000e-21 113.0
20 TraesCS3B01G255900 chr7B 87.755 49 5 1 308 356 495194423 495194470 3.120000e-04 56.5


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 TraesCS3B01G255900 chr3B 413041547 413043795 2248 True 1474.666667 4154 100.000 1 2249 3 chr3B.!!$R1 2248
1 TraesCS3B01G255900 chr3A 427758416 427760224 1808 False 1248.000000 2324 91.371 1 1879 2 chr3A.!!$F1 1878
2 TraesCS3B01G255900 chr3D 308263522 308265348 1826 False 617.500000 1426 90.443 232 2249 4 chr3D.!!$F2 2017
3 TraesCS3B01G255900 chrUn 3555951 3556564 613 False 350.000000 350 77.847 7 623 1 chrUn.!!$F1 616
4 TraesCS3B01G255900 chrUn 340213901 340214516 615 False 340.000000 340 77.605 7 623 1 chrUn.!!$F2 616

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
728 815 0.76489 TGTTCCCTGTGCAGTTAGCT 59.235 50.0 0.0 0.0 45.94 3.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1787 1888 0.040058 TGGCCTCAATCAACTGGCAT 59.96 50.0 3.32 0.0 46.53 4.4 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
50 51 3.081804 ACAATTTCCGAATCCTGGACAC 58.918 45.455 0.00 0.00 34.56 3.67
122 123 8.873242 AACAACGTGAACAAATTTCAAATTTC 57.127 26.923 5.04 0.00 0.00 2.17
123 124 7.170114 ACAACGTGAACAAATTTCAAATTTCG 58.830 30.769 5.04 8.30 0.00 3.46
276 295 7.801752 TGTGAACAAATTTTGAAAACCAGAAC 58.198 30.769 15.81 2.42 0.00 3.01
311 332 8.661352 ATTCAAGAAAATTTGAAACCACGAAT 57.339 26.923 5.41 0.00 46.63 3.34
400 444 2.100749 ACCCTGAGCCTTTTTCAAAACG 59.899 45.455 0.00 0.00 0.00 3.60
402 446 3.316868 CCCTGAGCCTTTTTCAAAACGTA 59.683 43.478 0.00 0.00 0.00 3.57
558 615 8.981659 TGAAAAGGGAGAAAGAAGAAAAGAAAT 58.018 29.630 0.00 0.00 0.00 2.17
615 681 3.377439 CAAAACCAGTAAAAACCGCCTC 58.623 45.455 0.00 0.00 0.00 4.70
658 724 1.017177 GCACGGTAAATCGACCAGCA 61.017 55.000 0.00 0.00 39.72 4.41
659 725 0.999406 CACGGTAAATCGACCAGCAG 59.001 55.000 0.00 0.00 39.72 4.24
660 726 0.892755 ACGGTAAATCGACCAGCAGA 59.107 50.000 0.00 0.00 39.72 4.26
661 727 1.274167 ACGGTAAATCGACCAGCAGAA 59.726 47.619 0.00 0.00 39.72 3.02
662 728 2.289195 ACGGTAAATCGACCAGCAGAAA 60.289 45.455 0.00 0.00 39.72 2.52
663 729 2.739913 CGGTAAATCGACCAGCAGAAAA 59.260 45.455 0.00 0.00 39.72 2.29
664 730 3.181520 CGGTAAATCGACCAGCAGAAAAG 60.182 47.826 0.00 0.00 39.72 2.27
665 731 4.000988 GGTAAATCGACCAGCAGAAAAGA 58.999 43.478 0.00 0.00 39.51 2.52
666 732 4.454504 GGTAAATCGACCAGCAGAAAAGAA 59.545 41.667 0.00 0.00 39.51 2.52
667 733 5.048991 GGTAAATCGACCAGCAGAAAAGAAA 60.049 40.000 0.00 0.00 39.51 2.52
668 734 5.514274 AAATCGACCAGCAGAAAAGAAAA 57.486 34.783 0.00 0.00 0.00 2.29
669 735 5.712152 AATCGACCAGCAGAAAAGAAAAT 57.288 34.783 0.00 0.00 0.00 1.82
670 736 4.749245 TCGACCAGCAGAAAAGAAAATC 57.251 40.909 0.00 0.00 0.00 2.17
671 737 3.186409 TCGACCAGCAGAAAAGAAAATCG 59.814 43.478 0.00 0.00 0.00 3.34
672 738 3.186409 CGACCAGCAGAAAAGAAAATCGA 59.814 43.478 0.00 0.00 0.00 3.59
673 739 4.467735 GACCAGCAGAAAAGAAAATCGAC 58.532 43.478 0.00 0.00 0.00 4.20
674 740 3.253432 ACCAGCAGAAAAGAAAATCGACC 59.747 43.478 0.00 0.00 0.00 4.79
675 741 3.253188 CCAGCAGAAAAGAAAATCGACCA 59.747 43.478 0.00 0.00 0.00 4.02
676 742 4.470462 CAGCAGAAAAGAAAATCGACCAG 58.530 43.478 0.00 0.00 0.00 4.00
677 743 3.057946 AGCAGAAAAGAAAATCGACCAGC 60.058 43.478 0.00 0.00 0.00 4.85
728 815 0.764890 TGTTCCCTGTGCAGTTAGCT 59.235 50.000 0.00 0.00 45.94 3.32
751 845 6.626623 GCTTCAAATAGAATGTCCACAATGCT 60.627 38.462 0.00 0.00 35.25 3.79
795 889 6.041423 AGTTTGGCCCAATTCAAAGATAAG 57.959 37.500 0.00 0.00 34.11 1.73
822 916 2.091665 CCCAATAGCATTTGAGGACCCT 60.092 50.000 0.60 0.00 0.00 4.34
952 1050 2.283821 GCATCCCCAAAGGCCACA 60.284 61.111 5.01 0.00 34.51 4.17
1237 1335 4.709840 GCTTGCTCCAGCTTCTGA 57.290 55.556 0.00 0.00 42.66 3.27
1452 1552 6.833933 TCTTGTTAGATACCTGAGATGCTACA 59.166 38.462 0.00 0.00 0.00 2.74
1543 1644 5.323900 CCTGATGCGTGTGTATGTTTTAAG 58.676 41.667 0.00 0.00 0.00 1.85
1635 1736 2.031012 TTGGTGCCTGACTGCTCG 59.969 61.111 0.00 0.00 0.00 5.03
1647 1748 1.996191 GACTGCTCGTTCATTCAGTCC 59.004 52.381 9.39 0.00 45.73 3.85
1735 1836 0.333993 AGTTGATTGAGGCCATGGCT 59.666 50.000 34.70 21.29 42.48 4.75
1736 1837 1.565759 AGTTGATTGAGGCCATGGCTA 59.434 47.619 34.70 19.27 38.98 3.93
1737 1838 2.025037 AGTTGATTGAGGCCATGGCTAA 60.025 45.455 34.70 25.71 38.98 3.09
1738 1839 2.961062 GTTGATTGAGGCCATGGCTAAT 59.039 45.455 34.70 28.61 38.98 1.73
1739 1840 3.317455 TGATTGAGGCCATGGCTAATT 57.683 42.857 34.70 18.51 38.98 1.40
1740 1841 4.451891 TGATTGAGGCCATGGCTAATTA 57.548 40.909 34.70 23.75 38.98 1.40
1741 1842 4.401022 TGATTGAGGCCATGGCTAATTAG 58.599 43.478 34.70 8.20 38.98 1.73
1742 1843 3.951563 TTGAGGCCATGGCTAATTAGT 57.048 42.857 34.70 11.80 38.98 2.24
1743 1844 3.951563 TGAGGCCATGGCTAATTAGTT 57.048 42.857 34.70 11.25 38.98 2.24
1744 1845 5.381184 TTGAGGCCATGGCTAATTAGTTA 57.619 39.130 34.70 9.57 38.98 2.24
1745 1846 4.973168 TGAGGCCATGGCTAATTAGTTAG 58.027 43.478 34.70 0.76 38.98 2.34
1746 1847 4.412199 TGAGGCCATGGCTAATTAGTTAGT 59.588 41.667 34.70 6.34 38.98 2.24
1747 1848 4.974399 AGGCCATGGCTAATTAGTTAGTC 58.026 43.478 34.70 14.17 41.79 2.59
1748 1849 3.746492 GGCCATGGCTAATTAGTTAGTCG 59.254 47.826 34.70 0.00 43.84 4.18
1749 1850 4.377897 GCCATGGCTAATTAGTTAGTCGT 58.622 43.478 29.98 2.19 43.84 4.34
1754 1855 6.956299 TGGCTAATTAGTTAGTCGTGAAAC 57.044 37.500 13.91 0.00 43.84 2.78
1755 1856 6.457355 TGGCTAATTAGTTAGTCGTGAAACA 58.543 36.000 13.91 0.00 43.84 2.83
1756 1857 6.588756 TGGCTAATTAGTTAGTCGTGAAACAG 59.411 38.462 13.91 0.00 43.84 3.16
1757 1858 6.455246 GGCTAATTAGTTAGTCGTGAAACAGC 60.455 42.308 13.91 0.00 39.60 4.40
1758 1859 5.857822 AATTAGTTAGTCGTGAAACAGCC 57.142 39.130 0.00 0.00 35.74 4.85
1759 1860 4.595762 TTAGTTAGTCGTGAAACAGCCT 57.404 40.909 0.00 0.00 35.74 4.58
1760 1861 5.710513 TTAGTTAGTCGTGAAACAGCCTA 57.289 39.130 0.00 0.00 35.74 3.93
1761 1862 4.175787 AGTTAGTCGTGAAACAGCCTAG 57.824 45.455 0.00 0.00 35.74 3.02
1762 1863 3.825014 AGTTAGTCGTGAAACAGCCTAGA 59.175 43.478 0.00 0.00 35.74 2.43
1763 1864 4.463186 AGTTAGTCGTGAAACAGCCTAGAT 59.537 41.667 0.00 0.00 35.74 1.98
1764 1865 3.238108 AGTCGTGAAACAGCCTAGATG 57.762 47.619 0.00 0.00 35.74 2.90
1765 1866 2.093973 AGTCGTGAAACAGCCTAGATGG 60.094 50.000 0.00 0.00 35.74 3.51
1766 1867 2.094182 GTCGTGAAACAGCCTAGATGGA 60.094 50.000 0.00 0.00 34.93 3.41
1767 1868 2.766263 TCGTGAAACAGCCTAGATGGAT 59.234 45.455 0.00 0.00 34.93 3.41
1768 1869 3.197766 TCGTGAAACAGCCTAGATGGATT 59.802 43.478 0.00 0.00 34.93 3.01
1769 1870 3.941483 CGTGAAACAGCCTAGATGGATTT 59.059 43.478 0.00 0.00 34.93 2.17
1770 1871 5.105106 TCGTGAAACAGCCTAGATGGATTTA 60.105 40.000 0.00 0.00 34.93 1.40
1771 1872 5.760253 CGTGAAACAGCCTAGATGGATTTAT 59.240 40.000 0.00 0.00 34.93 1.40
1772 1873 6.293081 CGTGAAACAGCCTAGATGGATTTATG 60.293 42.308 0.00 0.00 34.93 1.90
1773 1874 6.016777 GTGAAACAGCCTAGATGGATTTATGG 60.017 42.308 0.00 0.00 35.28 2.74
1774 1875 5.912149 AACAGCCTAGATGGATTTATGGA 57.088 39.130 0.00 0.00 38.35 3.41
1775 1876 5.912149 ACAGCCTAGATGGATTTATGGAA 57.088 39.130 0.00 0.00 38.35 3.53
1776 1877 5.625150 ACAGCCTAGATGGATTTATGGAAC 58.375 41.667 0.00 0.00 38.35 3.62
1777 1878 5.132648 ACAGCCTAGATGGATTTATGGAACA 59.867 40.000 0.00 0.00 40.53 3.18
1778 1879 5.471456 CAGCCTAGATGGATTTATGGAACAC 59.529 44.000 0.00 0.00 39.14 3.32
1779 1880 4.762251 GCCTAGATGGATTTATGGAACACC 59.238 45.833 0.00 0.00 39.14 4.16
1780 1881 5.690097 GCCTAGATGGATTTATGGAACACCA 60.690 44.000 0.00 0.00 39.14 4.17
1781 1882 6.000219 CCTAGATGGATTTATGGAACACCAG 59.000 44.000 0.00 0.00 39.14 4.00
1782 1883 6.183361 CCTAGATGGATTTATGGAACACCAGA 60.183 42.308 0.00 0.00 39.14 3.86
1783 1884 7.637968 CCTAGATGGATTTATGGAACACCAGAA 60.638 40.741 0.00 0.00 39.14 3.02
1790 1891 0.889994 TGGAACACCAGAATGCATGC 59.110 50.000 11.82 11.82 31.97 4.06
1791 1892 0.174162 GGAACACCAGAATGCATGCC 59.826 55.000 16.68 0.00 31.97 4.40
1792 1893 0.889994 GAACACCAGAATGCATGCCA 59.110 50.000 16.68 3.52 31.97 4.92
1793 1894 0.892755 AACACCAGAATGCATGCCAG 59.107 50.000 16.68 0.00 31.97 4.85
1794 1895 0.251474 ACACCAGAATGCATGCCAGT 60.251 50.000 16.68 2.16 31.97 4.00
1795 1896 0.892755 CACCAGAATGCATGCCAGTT 59.107 50.000 16.68 7.53 31.97 3.16
1796 1897 0.892755 ACCAGAATGCATGCCAGTTG 59.107 50.000 16.68 8.68 31.97 3.16
1823 1924 4.974399 AGGCCATGGCTAATTAGTTAGTC 58.026 43.478 34.70 14.17 41.79 2.59
1861 1962 8.594550 GGGACACACAGTTTATACCTGATATAT 58.405 37.037 5.76 0.00 34.04 0.86
1889 1990 8.624776 AGGTTGTTCTAAAGAATTGTCTTCTTG 58.375 33.333 1.28 0.00 43.59 3.02
1908 2009 5.830912 TCTTGTAAAGGAACTGCAATGTTG 58.169 37.500 0.00 0.00 46.24 3.33
1910 2011 5.590530 TGTAAAGGAACTGCAATGTTGTT 57.409 34.783 0.00 0.00 40.86 2.83
1924 2028 2.790433 TGTTGTTAAGCTGTCATCCCC 58.210 47.619 0.00 0.00 0.00 4.81
1925 2029 2.375174 TGTTGTTAAGCTGTCATCCCCT 59.625 45.455 0.00 0.00 0.00 4.79
1926 2030 3.010420 GTTGTTAAGCTGTCATCCCCTC 58.990 50.000 0.00 0.00 0.00 4.30
1927 2031 1.207089 TGTTAAGCTGTCATCCCCTCG 59.793 52.381 0.00 0.00 0.00 4.63
1928 2032 0.178068 TTAAGCTGTCATCCCCTCGC 59.822 55.000 0.00 0.00 0.00 5.03
1929 2033 0.975556 TAAGCTGTCATCCCCTCGCA 60.976 55.000 0.00 0.00 0.00 5.10
1930 2034 1.841302 AAGCTGTCATCCCCTCGCAA 61.841 55.000 0.00 0.00 0.00 4.85
1931 2035 2.109126 GCTGTCATCCCCTCGCAAC 61.109 63.158 0.00 0.00 0.00 4.17
1932 2036 1.599047 CTGTCATCCCCTCGCAACT 59.401 57.895 0.00 0.00 0.00 3.16
1933 2037 0.742281 CTGTCATCCCCTCGCAACTG 60.742 60.000 0.00 0.00 0.00 3.16
1934 2038 1.296715 GTCATCCCCTCGCAACTGT 59.703 57.895 0.00 0.00 0.00 3.55
1935 2039 1.021390 GTCATCCCCTCGCAACTGTG 61.021 60.000 0.00 0.00 0.00 3.66
1936 2040 1.191489 TCATCCCCTCGCAACTGTGA 61.191 55.000 0.00 0.00 0.00 3.58
1937 2041 0.321564 CATCCCCTCGCAACTGTGAA 60.322 55.000 0.00 0.00 33.75 3.18
1938 2042 0.400213 ATCCCCTCGCAACTGTGAAA 59.600 50.000 0.00 0.00 33.75 2.69
1939 2043 0.400213 TCCCCTCGCAACTGTGAAAT 59.600 50.000 0.00 0.00 33.75 2.17
1940 2044 0.804989 CCCCTCGCAACTGTGAAATC 59.195 55.000 0.00 0.00 33.75 2.17
1941 2045 1.522668 CCCTCGCAACTGTGAAATCA 58.477 50.000 0.00 0.00 33.75 2.57
1942 2046 2.086869 CCCTCGCAACTGTGAAATCAT 58.913 47.619 0.00 0.00 33.75 2.45
1943 2047 2.489329 CCCTCGCAACTGTGAAATCATT 59.511 45.455 0.00 0.00 33.75 2.57
1944 2048 3.057315 CCCTCGCAACTGTGAAATCATTT 60.057 43.478 0.00 0.00 33.75 2.32
1945 2049 3.916172 CCTCGCAACTGTGAAATCATTTG 59.084 43.478 0.00 0.00 33.75 2.32
1946 2050 4.539870 CTCGCAACTGTGAAATCATTTGT 58.460 39.130 0.00 0.00 33.75 2.83
1947 2051 4.536065 TCGCAACTGTGAAATCATTTGTC 58.464 39.130 0.00 0.00 32.89 3.18
1948 2052 4.036144 TCGCAACTGTGAAATCATTTGTCA 59.964 37.500 0.00 0.00 32.89 3.58
1949 2053 4.146961 CGCAACTGTGAAATCATTTGTCAC 59.853 41.667 0.00 0.00 41.66 3.67
1950 2054 4.445385 GCAACTGTGAAATCATTTGTCACC 59.555 41.667 0.63 0.00 40.79 4.02
1951 2055 4.853924 ACTGTGAAATCATTTGTCACCC 57.146 40.909 0.63 0.00 40.79 4.61
1952 2056 4.473444 ACTGTGAAATCATTTGTCACCCT 58.527 39.130 0.63 0.00 40.79 4.34
1953 2057 4.520492 ACTGTGAAATCATTTGTCACCCTC 59.480 41.667 0.63 0.00 40.79 4.30
1954 2058 3.826157 TGTGAAATCATTTGTCACCCTCC 59.174 43.478 0.63 0.00 40.79 4.30
1955 2059 3.826157 GTGAAATCATTTGTCACCCTCCA 59.174 43.478 0.00 0.00 36.48 3.86
1956 2060 4.280677 GTGAAATCATTTGTCACCCTCCAA 59.719 41.667 0.00 0.00 36.48 3.53
1957 2061 4.523943 TGAAATCATTTGTCACCCTCCAAG 59.476 41.667 0.00 0.00 0.00 3.61
1958 2062 1.909700 TCATTTGTCACCCTCCAAGC 58.090 50.000 0.00 0.00 0.00 4.01
1959 2063 0.523072 CATTTGTCACCCTCCAAGCG 59.477 55.000 0.00 0.00 0.00 4.68
1960 2064 0.400213 ATTTGTCACCCTCCAAGCGA 59.600 50.000 0.00 0.00 0.00 4.93
1961 2065 0.181587 TTTGTCACCCTCCAAGCGAA 59.818 50.000 0.00 0.00 0.00 4.70
1962 2066 0.534203 TTGTCACCCTCCAAGCGAAC 60.534 55.000 0.00 0.00 0.00 3.95
1963 2067 1.070786 GTCACCCTCCAAGCGAACA 59.929 57.895 0.00 0.00 0.00 3.18
1964 2068 0.321653 GTCACCCTCCAAGCGAACAT 60.322 55.000 0.00 0.00 0.00 2.71
1965 2069 0.400213 TCACCCTCCAAGCGAACATT 59.600 50.000 0.00 0.00 0.00 2.71
1966 2070 0.804989 CACCCTCCAAGCGAACATTC 59.195 55.000 0.00 0.00 0.00 2.67
1967 2071 0.400213 ACCCTCCAAGCGAACATTCA 59.600 50.000 0.00 0.00 0.00 2.57
1968 2072 0.804989 CCCTCCAAGCGAACATTCAC 59.195 55.000 0.00 0.00 0.00 3.18
1969 2073 0.804989 CCTCCAAGCGAACATTCACC 59.195 55.000 0.00 0.00 0.00 4.02
1970 2074 1.522668 CTCCAAGCGAACATTCACCA 58.477 50.000 0.00 0.00 0.00 4.17
1971 2075 1.466167 CTCCAAGCGAACATTCACCAG 59.534 52.381 0.00 0.00 0.00 4.00
1972 2076 0.109597 CCAAGCGAACATTCACCAGC 60.110 55.000 0.00 0.00 0.00 4.85
1973 2077 0.877071 CAAGCGAACATTCACCAGCT 59.123 50.000 0.00 0.00 36.40 4.24
1974 2078 2.076100 CAAGCGAACATTCACCAGCTA 58.924 47.619 0.00 0.00 34.24 3.32
1975 2079 2.472695 AGCGAACATTCACCAGCTAA 57.527 45.000 0.00 0.00 32.73 3.09
1976 2080 2.350522 AGCGAACATTCACCAGCTAAG 58.649 47.619 0.00 0.00 32.73 2.18
1977 2081 1.398390 GCGAACATTCACCAGCTAAGG 59.602 52.381 0.00 0.00 0.00 2.69
1978 2082 2.009774 CGAACATTCACCAGCTAAGGG 58.990 52.381 0.00 0.00 0.00 3.95
1979 2083 2.615493 CGAACATTCACCAGCTAAGGGT 60.615 50.000 0.00 0.00 39.88 4.34
1980 2084 2.789409 ACATTCACCAGCTAAGGGTC 57.211 50.000 0.00 0.00 36.19 4.46
1981 2085 1.282157 ACATTCACCAGCTAAGGGTCC 59.718 52.381 0.00 0.00 36.19 4.46
1982 2086 1.561542 CATTCACCAGCTAAGGGTCCT 59.438 52.381 0.00 0.00 36.19 3.85
1983 2087 1.742308 TTCACCAGCTAAGGGTCCTT 58.258 50.000 7.47 7.47 36.19 3.36
2033 2137 3.889196 GTGTTTAACGATTGCCACAGA 57.111 42.857 0.00 0.00 0.00 3.41
2036 2141 5.219633 GTGTTTAACGATTGCCACAGAAAT 58.780 37.500 0.00 0.00 0.00 2.17
2042 2147 3.494251 ACGATTGCCACAGAAATTTTTGC 59.506 39.130 8.55 0.95 0.00 3.68
2045 2150 3.383620 TGCCACAGAAATTTTTGCGAT 57.616 38.095 8.55 0.00 0.00 4.58
2054 2159 6.128172 ACAGAAATTTTTGCGATGAGGACTAG 60.128 38.462 8.55 0.00 0.00 2.57
2056 2161 5.803020 AATTTTTGCGATGAGGACTAGAC 57.197 39.130 0.00 0.00 0.00 2.59
2069 2174 4.369182 AGGACTAGACAGACAACGTTTTG 58.631 43.478 0.00 0.00 38.83 2.44
2070 2175 3.059800 GGACTAGACAGACAACGTTTTGC 60.060 47.826 0.00 0.00 36.00 3.68
2096 2201 7.494625 CCGTTGTATGGTGTCTAATTTCATACT 59.505 37.037 0.00 0.00 40.18 2.12
2097 2202 9.524106 CGTTGTATGGTGTCTAATTTCATACTA 57.476 33.333 0.00 0.00 40.18 1.82
2229 2334 6.989759 TCACACTTCTGTTTGTGTACATGTAT 59.010 34.615 9.18 0.00 44.43 2.29
2235 2340 7.716768 TCTGTTTGTGTACATGTATTTCGAA 57.283 32.000 9.18 0.00 0.00 3.71
2237 2342 8.779303 TCTGTTTGTGTACATGTATTTCGAATT 58.221 29.630 9.18 0.00 0.00 2.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 33 3.721087 AAGTGTCCAGGATTCGGAAAT 57.279 42.857 0.00 0.00 33.29 2.17
79 80 7.060059 CACGTTGTTAAATAAATGTTCGCATGA 59.940 33.333 0.00 0.00 37.97 3.07
129 130 9.906660 TTCTTGAAAATTTGCTCACGTTTATAT 57.093 25.926 0.00 0.00 0.00 0.86
153 154 9.097257 TCAAAATTTCAAGAAATGACCACTTTC 57.903 29.630 8.66 0.00 40.57 2.62
347 369 8.862325 AAGTTCCCTTTTTCTGAAATTTGTTT 57.138 26.923 3.31 0.00 0.00 2.83
483 529 9.835389 TCCTTTTCAATTCATGTCTTTTTCAAT 57.165 25.926 0.00 0.00 0.00 2.57
485 531 9.664332 TTTCCTTTTCAATTCATGTCTTTTTCA 57.336 25.926 0.00 0.00 0.00 2.69
486 532 9.920826 GTTTCCTTTTCAATTCATGTCTTTTTC 57.079 29.630 0.00 0.00 0.00 2.29
487 533 9.447157 TGTTTCCTTTTCAATTCATGTCTTTTT 57.553 25.926 0.00 0.00 0.00 1.94
488 534 9.101655 CTGTTTCCTTTTCAATTCATGTCTTTT 57.898 29.630 0.00 0.00 0.00 2.27
489 535 8.477256 TCTGTTTCCTTTTCAATTCATGTCTTT 58.523 29.630 0.00 0.00 0.00 2.52
490 536 8.010733 TCTGTTTCCTTTTCAATTCATGTCTT 57.989 30.769 0.00 0.00 0.00 3.01
491 537 7.587037 TCTGTTTCCTTTTCAATTCATGTCT 57.413 32.000 0.00 0.00 0.00 3.41
492 538 8.647143 TTTCTGTTTCCTTTTCAATTCATGTC 57.353 30.769 0.00 0.00 0.00 3.06
493 539 9.447157 TTTTTCTGTTTCCTTTTCAATTCATGT 57.553 25.926 0.00 0.00 0.00 3.21
523 580 9.468532 CTTCTTTCTCCCTTTTCAAGTTTTATG 57.531 33.333 0.00 0.00 0.00 1.90
615 681 1.747745 GATCCCGGTTTGGTTCCCG 60.748 63.158 0.00 0.00 43.82 5.14
658 724 4.023707 CACTGCTGGTCGATTTTCTTTTCT 60.024 41.667 0.00 0.00 0.00 2.52
659 725 4.222114 CACTGCTGGTCGATTTTCTTTTC 58.778 43.478 0.00 0.00 0.00 2.29
660 726 3.004734 CCACTGCTGGTCGATTTTCTTTT 59.995 43.478 0.00 0.00 32.03 2.27
661 727 2.554032 CCACTGCTGGTCGATTTTCTTT 59.446 45.455 0.00 0.00 32.03 2.52
662 728 2.154462 CCACTGCTGGTCGATTTTCTT 58.846 47.619 0.00 0.00 32.03 2.52
663 729 1.611673 CCCACTGCTGGTCGATTTTCT 60.612 52.381 0.00 0.00 35.46 2.52
664 730 0.804989 CCCACTGCTGGTCGATTTTC 59.195 55.000 0.00 0.00 35.46 2.29
665 731 1.244019 GCCCACTGCTGGTCGATTTT 61.244 55.000 0.00 0.00 35.46 1.82
666 732 1.675641 GCCCACTGCTGGTCGATTT 60.676 57.895 0.00 0.00 35.46 2.17
667 733 2.045926 GCCCACTGCTGGTCGATT 60.046 61.111 0.00 0.00 35.46 3.34
668 734 4.101448 GGCCCACTGCTGGTCGAT 62.101 66.667 0.00 0.00 40.92 3.59
728 815 6.433716 TGAGCATTGTGGACATTCTATTTGAA 59.566 34.615 0.00 0.00 39.24 2.69
751 845 1.003839 CCAAGTAACCAGGCGCTGA 60.004 57.895 7.64 0.00 32.44 4.26
795 889 2.555757 CTCAAATGCTATTGGGCTAGGC 59.444 50.000 8.00 8.00 0.00 3.93
935 1033 1.679559 GATGTGGCCTTTGGGGATGC 61.680 60.000 3.32 0.00 37.23 3.91
952 1050 2.168728 GCTGGACGAAAACCCTAGAGAT 59.831 50.000 0.00 0.00 0.00 2.75
1046 1144 4.194720 CGGACGAGCCCCTCTTCG 62.195 72.222 0.00 0.00 30.83 3.79
1237 1335 1.345715 GGATTGGATCAGACGGGGGT 61.346 60.000 0.00 0.00 0.00 4.95
1635 1736 4.437930 GCTAGCATTGTGGACTGAATGAAC 60.438 45.833 10.63 0.00 32.24 3.18
1672 1773 3.939740 AATCCATCTAGGCTGCTGAAA 57.060 42.857 0.00 0.00 37.29 2.69
1735 1836 6.694447 AGGCTGTTTCACGACTAACTAATTA 58.306 36.000 0.00 0.00 0.00 1.40
1736 1837 5.548406 AGGCTGTTTCACGACTAACTAATT 58.452 37.500 0.00 0.00 0.00 1.40
1737 1838 5.148651 AGGCTGTTTCACGACTAACTAAT 57.851 39.130 0.00 0.00 0.00 1.73
1738 1839 4.595762 AGGCTGTTTCACGACTAACTAA 57.404 40.909 0.00 0.00 0.00 2.24
1739 1840 5.005740 TCTAGGCTGTTTCACGACTAACTA 58.994 41.667 0.00 0.00 0.00 2.24
1740 1841 3.825014 TCTAGGCTGTTTCACGACTAACT 59.175 43.478 0.00 0.00 0.00 2.24
1741 1842 4.170292 TCTAGGCTGTTTCACGACTAAC 57.830 45.455 0.00 0.00 0.00 2.34
1742 1843 4.381612 CCATCTAGGCTGTTTCACGACTAA 60.382 45.833 0.00 0.00 0.00 2.24
1743 1844 3.130516 CCATCTAGGCTGTTTCACGACTA 59.869 47.826 0.00 0.00 0.00 2.59
1744 1845 2.093973 CCATCTAGGCTGTTTCACGACT 60.094 50.000 0.00 0.00 0.00 4.18
1745 1846 2.094182 TCCATCTAGGCTGTTTCACGAC 60.094 50.000 0.00 0.00 37.29 4.34
1746 1847 2.176045 TCCATCTAGGCTGTTTCACGA 58.824 47.619 0.00 0.00 37.29 4.35
1747 1848 2.672961 TCCATCTAGGCTGTTTCACG 57.327 50.000 0.00 0.00 37.29 4.35
1748 1849 6.016777 CCATAAATCCATCTAGGCTGTTTCAC 60.017 42.308 0.00 0.00 37.29 3.18
1749 1850 6.064060 CCATAAATCCATCTAGGCTGTTTCA 58.936 40.000 0.00 0.00 37.29 2.69
1750 1851 6.299141 TCCATAAATCCATCTAGGCTGTTTC 58.701 40.000 0.00 0.00 37.29 2.78
1751 1852 6.266131 TCCATAAATCCATCTAGGCTGTTT 57.734 37.500 0.00 0.00 37.29 2.83
1752 1853 5.912149 TCCATAAATCCATCTAGGCTGTT 57.088 39.130 0.00 0.00 37.29 3.16
1753 1854 5.132648 TGTTCCATAAATCCATCTAGGCTGT 59.867 40.000 0.00 0.00 37.29 4.40
1754 1855 5.471456 GTGTTCCATAAATCCATCTAGGCTG 59.529 44.000 0.00 0.00 37.29 4.85
1755 1856 5.456763 GGTGTTCCATAAATCCATCTAGGCT 60.457 44.000 0.00 0.00 37.29 4.58
1756 1857 4.762251 GGTGTTCCATAAATCCATCTAGGC 59.238 45.833 0.00 0.00 37.29 3.93
1757 1858 5.940617 TGGTGTTCCATAAATCCATCTAGG 58.059 41.667 0.00 0.00 39.03 3.02
1758 1859 6.830912 TCTGGTGTTCCATAAATCCATCTAG 58.169 40.000 0.00 0.00 43.43 2.43
1759 1860 6.823286 TCTGGTGTTCCATAAATCCATCTA 57.177 37.500 0.00 0.00 43.43 1.98
1760 1861 5.715439 TCTGGTGTTCCATAAATCCATCT 57.285 39.130 0.00 0.00 43.43 2.90
1761 1862 6.736794 GCATTCTGGTGTTCCATAAATCCATC 60.737 42.308 0.00 0.00 43.43 3.51
1762 1863 5.069516 GCATTCTGGTGTTCCATAAATCCAT 59.930 40.000 0.00 0.00 43.43 3.41
1763 1864 4.402155 GCATTCTGGTGTTCCATAAATCCA 59.598 41.667 0.00 0.00 43.43 3.41
1764 1865 4.402155 TGCATTCTGGTGTTCCATAAATCC 59.598 41.667 0.00 0.00 43.43 3.01
1765 1866 5.581126 TGCATTCTGGTGTTCCATAAATC 57.419 39.130 0.00 0.00 43.43 2.17
1766 1867 5.682990 GCATGCATTCTGGTGTTCCATAAAT 60.683 40.000 14.21 0.00 43.43 1.40
1767 1868 4.381825 GCATGCATTCTGGTGTTCCATAAA 60.382 41.667 14.21 0.00 43.43 1.40
1768 1869 3.130869 GCATGCATTCTGGTGTTCCATAA 59.869 43.478 14.21 0.00 43.43 1.90
1769 1870 2.689471 GCATGCATTCTGGTGTTCCATA 59.311 45.455 14.21 0.00 43.43 2.74
1770 1871 1.479323 GCATGCATTCTGGTGTTCCAT 59.521 47.619 14.21 0.00 43.43 3.41
1771 1872 0.889994 GCATGCATTCTGGTGTTCCA 59.110 50.000 14.21 0.00 42.05 3.53
1772 1873 0.174162 GGCATGCATTCTGGTGTTCC 59.826 55.000 21.36 0.00 0.00 3.62
1773 1874 0.889994 TGGCATGCATTCTGGTGTTC 59.110 50.000 21.36 0.00 0.00 3.18
1774 1875 0.892755 CTGGCATGCATTCTGGTGTT 59.107 50.000 21.36 0.00 0.00 3.32
1775 1876 0.251474 ACTGGCATGCATTCTGGTGT 60.251 50.000 21.36 2.91 0.00 4.16
1776 1877 0.892755 AACTGGCATGCATTCTGGTG 59.107 50.000 21.36 2.29 0.00 4.17
1777 1878 0.892755 CAACTGGCATGCATTCTGGT 59.107 50.000 21.36 1.77 0.00 4.00
1778 1879 1.179152 TCAACTGGCATGCATTCTGG 58.821 50.000 21.36 4.08 0.00 3.86
1779 1880 3.119280 TCAATCAACTGGCATGCATTCTG 60.119 43.478 21.36 11.10 0.00 3.02
1780 1881 3.093814 TCAATCAACTGGCATGCATTCT 58.906 40.909 21.36 0.00 0.00 2.40
1781 1882 3.444916 CTCAATCAACTGGCATGCATTC 58.555 45.455 21.36 2.31 0.00 2.67
1782 1883 2.167693 CCTCAATCAACTGGCATGCATT 59.832 45.455 21.36 7.67 0.00 3.56
1783 1884 1.754803 CCTCAATCAACTGGCATGCAT 59.245 47.619 21.36 0.55 0.00 3.96
1784 1885 1.179152 CCTCAATCAACTGGCATGCA 58.821 50.000 21.36 4.79 0.00 3.96
1785 1886 0.179119 GCCTCAATCAACTGGCATGC 60.179 55.000 9.90 9.90 44.34 4.06
1786 1887 0.458669 GGCCTCAATCAACTGGCATG 59.541 55.000 0.00 0.00 46.53 4.06
1787 1888 0.040058 TGGCCTCAATCAACTGGCAT 59.960 50.000 3.32 0.00 46.53 4.40
1788 1889 0.040058 ATGGCCTCAATCAACTGGCA 59.960 50.000 3.32 0.00 46.53 4.92
1789 1890 0.458669 CATGGCCTCAATCAACTGGC 59.541 55.000 3.32 0.00 44.22 4.85
1790 1891 1.108776 CCATGGCCTCAATCAACTGG 58.891 55.000 3.32 0.00 0.00 4.00
1791 1892 0.458669 GCCATGGCCTCAATCAACTG 59.541 55.000 27.24 0.00 34.56 3.16
1792 1893 0.333993 AGCCATGGCCTCAATCAACT 59.666 50.000 33.14 7.61 43.17 3.16
1793 1894 2.057137 TAGCCATGGCCTCAATCAAC 57.943 50.000 33.14 1.44 43.17 3.18
1794 1895 2.824689 TTAGCCATGGCCTCAATCAA 57.175 45.000 33.14 12.54 43.17 2.57
1795 1896 3.317455 AATTAGCCATGGCCTCAATCA 57.683 42.857 33.14 6.16 43.17 2.57
1796 1897 4.401925 ACTAATTAGCCATGGCCTCAATC 58.598 43.478 33.14 3.90 43.17 2.67
1823 1924 0.805614 TGTGTCCCAACAACAACACG 59.194 50.000 0.00 0.00 43.81 4.49
1861 1962 9.847224 AGAAGACAATTCTTTAGAACAACCTTA 57.153 29.630 0.00 0.00 42.53 2.69
1862 1963 8.753497 AGAAGACAATTCTTTAGAACAACCTT 57.247 30.769 0.00 0.00 42.53 3.50
1863 1964 8.624776 CAAGAAGACAATTCTTTAGAACAACCT 58.375 33.333 0.21 0.00 42.53 3.50
1864 1965 8.406297 ACAAGAAGACAATTCTTTAGAACAACC 58.594 33.333 0.21 0.00 42.53 3.77
1873 1974 9.190317 AGTTCCTTTACAAGAAGACAATTCTTT 57.810 29.630 0.21 0.00 42.53 2.52
1874 1975 8.624776 CAGTTCCTTTACAAGAAGACAATTCTT 58.375 33.333 0.00 0.00 45.35 2.52
1875 1976 7.255277 GCAGTTCCTTTACAAGAAGACAATTCT 60.255 37.037 0.00 0.00 0.00 2.40
1876 1977 6.858478 GCAGTTCCTTTACAAGAAGACAATTC 59.142 38.462 0.00 0.00 0.00 2.17
1877 1978 6.321181 TGCAGTTCCTTTACAAGAAGACAATT 59.679 34.615 0.00 0.00 0.00 2.32
1878 1979 5.827797 TGCAGTTCCTTTACAAGAAGACAAT 59.172 36.000 0.00 0.00 0.00 2.71
1879 1980 5.189928 TGCAGTTCCTTTACAAGAAGACAA 58.810 37.500 0.00 0.00 0.00 3.18
1880 1981 4.776349 TGCAGTTCCTTTACAAGAAGACA 58.224 39.130 0.00 0.00 0.00 3.41
1881 1982 5.751243 TTGCAGTTCCTTTACAAGAAGAC 57.249 39.130 0.00 0.00 0.00 3.01
1882 1983 5.827797 ACATTGCAGTTCCTTTACAAGAAGA 59.172 36.000 0.00 0.00 0.00 2.87
1883 1984 6.076981 ACATTGCAGTTCCTTTACAAGAAG 57.923 37.500 0.00 0.00 0.00 2.85
1886 1987 5.591099 ACAACATTGCAGTTCCTTTACAAG 58.409 37.500 0.00 0.00 0.00 3.16
1889 1990 6.143919 GCTTAACAACATTGCAGTTCCTTTAC 59.856 38.462 0.00 0.00 0.00 2.01
1891 1992 5.049828 GCTTAACAACATTGCAGTTCCTTT 58.950 37.500 0.00 0.00 0.00 3.11
1895 1996 4.610945 ACAGCTTAACAACATTGCAGTTC 58.389 39.130 0.00 0.00 0.00 3.01
1908 2009 1.941325 CGAGGGGATGACAGCTTAAC 58.059 55.000 0.00 0.00 0.00 2.01
1910 2011 0.975556 TGCGAGGGGATGACAGCTTA 60.976 55.000 0.00 0.00 0.00 3.09
1924 2028 4.539870 ACAAATGATTTCACAGTTGCGAG 58.460 39.130 0.00 0.00 45.55 5.03
1925 2029 4.036144 TGACAAATGATTTCACAGTTGCGA 59.964 37.500 0.00 0.00 45.55 5.10
1926 2030 4.146961 GTGACAAATGATTTCACAGTTGCG 59.853 41.667 0.00 0.00 45.55 4.85
1927 2031 4.445385 GGTGACAAATGATTTCACAGTTGC 59.555 41.667 10.98 0.00 45.55 4.17
1928 2032 4.984161 GGGTGACAAATGATTTCACAGTTG 59.016 41.667 10.98 0.00 46.54 3.16
1929 2033 4.895297 AGGGTGACAAATGATTTCACAGTT 59.105 37.500 10.98 0.00 41.27 3.16
1930 2034 4.473444 AGGGTGACAAATGATTTCACAGT 58.527 39.130 10.98 0.00 41.27 3.55
1931 2035 4.082571 GGAGGGTGACAAATGATTTCACAG 60.083 45.833 10.98 0.00 41.27 3.66
1932 2036 3.826157 GGAGGGTGACAAATGATTTCACA 59.174 43.478 10.98 1.98 41.27 3.58
1933 2037 3.826157 TGGAGGGTGACAAATGATTTCAC 59.174 43.478 2.20 2.20 39.18 3.18
1934 2038 4.111255 TGGAGGGTGACAAATGATTTCA 57.889 40.909 0.00 0.00 0.00 2.69
1935 2039 4.619160 GCTTGGAGGGTGACAAATGATTTC 60.619 45.833 0.00 0.00 0.00 2.17
1936 2040 3.259123 GCTTGGAGGGTGACAAATGATTT 59.741 43.478 0.00 0.00 0.00 2.17
1937 2041 2.827921 GCTTGGAGGGTGACAAATGATT 59.172 45.455 0.00 0.00 0.00 2.57
1938 2042 2.450476 GCTTGGAGGGTGACAAATGAT 58.550 47.619 0.00 0.00 0.00 2.45
1939 2043 1.881925 CGCTTGGAGGGTGACAAATGA 60.882 52.381 0.00 0.00 0.00 2.57
1940 2044 0.523072 CGCTTGGAGGGTGACAAATG 59.477 55.000 0.00 0.00 0.00 2.32
1941 2045 0.400213 TCGCTTGGAGGGTGACAAAT 59.600 50.000 0.00 0.00 0.00 2.32
1942 2046 0.181587 TTCGCTTGGAGGGTGACAAA 59.818 50.000 0.00 0.00 0.00 2.83
1943 2047 0.534203 GTTCGCTTGGAGGGTGACAA 60.534 55.000 0.00 0.00 0.00 3.18
1944 2048 1.070786 GTTCGCTTGGAGGGTGACA 59.929 57.895 0.00 0.00 0.00 3.58
1945 2049 0.321653 ATGTTCGCTTGGAGGGTGAC 60.322 55.000 0.00 0.00 0.00 3.67
1946 2050 0.400213 AATGTTCGCTTGGAGGGTGA 59.600 50.000 0.00 0.00 0.00 4.02
1947 2051 0.804989 GAATGTTCGCTTGGAGGGTG 59.195 55.000 0.00 0.00 0.00 4.61
1948 2052 0.400213 TGAATGTTCGCTTGGAGGGT 59.600 50.000 0.00 0.00 0.00 4.34
1949 2053 0.804989 GTGAATGTTCGCTTGGAGGG 59.195 55.000 0.00 0.00 34.94 4.30
1950 2054 0.804989 GGTGAATGTTCGCTTGGAGG 59.195 55.000 6.30 0.00 37.80 4.30
1951 2055 1.466167 CTGGTGAATGTTCGCTTGGAG 59.534 52.381 6.30 0.00 37.80 3.86
1952 2056 1.522668 CTGGTGAATGTTCGCTTGGA 58.477 50.000 6.30 0.00 37.80 3.53
1953 2057 0.109597 GCTGGTGAATGTTCGCTTGG 60.110 55.000 6.30 0.00 37.80 3.61
1954 2058 0.877071 AGCTGGTGAATGTTCGCTTG 59.123 50.000 6.30 1.82 37.80 4.01
1955 2059 2.472695 TAGCTGGTGAATGTTCGCTT 57.527 45.000 0.00 0.00 37.80 4.68
1956 2060 2.350522 CTTAGCTGGTGAATGTTCGCT 58.649 47.619 0.00 2.95 37.80 4.93
1957 2061 1.398390 CCTTAGCTGGTGAATGTTCGC 59.602 52.381 0.00 0.00 36.98 4.70
1958 2062 2.009774 CCCTTAGCTGGTGAATGTTCG 58.990 52.381 0.00 0.00 0.00 3.95
1959 2063 3.010420 GACCCTTAGCTGGTGAATGTTC 58.990 50.000 0.00 0.00 35.85 3.18
1960 2064 2.290960 GGACCCTTAGCTGGTGAATGTT 60.291 50.000 0.00 0.00 35.85 2.71
1961 2065 1.282157 GGACCCTTAGCTGGTGAATGT 59.718 52.381 0.00 0.00 35.85 2.71
1962 2066 1.561542 AGGACCCTTAGCTGGTGAATG 59.438 52.381 0.00 0.00 35.85 2.67
1963 2067 1.972588 AGGACCCTTAGCTGGTGAAT 58.027 50.000 0.00 0.00 35.85 2.57
1964 2068 1.742308 AAGGACCCTTAGCTGGTGAA 58.258 50.000 0.00 0.00 35.85 3.18
1965 2069 2.634639 TAAGGACCCTTAGCTGGTGA 57.365 50.000 4.48 0.00 35.85 4.02
1966 2070 3.933861 ATTAAGGACCCTTAGCTGGTG 57.066 47.619 8.37 0.00 39.36 4.17
1967 2071 7.701257 TTAATATTAAGGACCCTTAGCTGGT 57.299 36.000 3.71 0.00 39.36 4.00
1999 2103 5.919196 CGTTAAACACGGCTTACTATTTGT 58.081 37.500 0.00 0.00 45.89 2.83
2016 2120 7.625553 CAAAAATTTCTGTGGCAATCGTTAAA 58.374 30.769 0.00 0.00 0.00 1.52
2032 2136 6.128282 TGTCTAGTCCTCATCGCAAAAATTTC 60.128 38.462 0.00 0.00 0.00 2.17
2033 2137 5.705441 TGTCTAGTCCTCATCGCAAAAATTT 59.295 36.000 0.00 0.00 0.00 1.82
2036 2141 4.021456 TCTGTCTAGTCCTCATCGCAAAAA 60.021 41.667 0.00 0.00 0.00 1.94
2042 2147 3.486043 CGTTGTCTGTCTAGTCCTCATCG 60.486 52.174 0.00 0.00 0.00 3.84
2045 2150 2.860009 ACGTTGTCTGTCTAGTCCTCA 58.140 47.619 0.00 0.00 0.00 3.86
2054 2159 0.375803 ACGGCAAAACGTTGTCTGTC 59.624 50.000 0.00 0.33 46.25 3.51
2069 2174 4.393680 TGAAATTAGACACCATACAACGGC 59.606 41.667 0.00 0.00 0.00 5.68
2070 2175 6.677781 ATGAAATTAGACACCATACAACGG 57.322 37.500 0.00 0.00 0.00 4.44
2110 2215 9.936759 TTTACATACAGTGATGTAGACAAATCA 57.063 29.630 0.00 0.00 41.95 2.57
2163 2268 8.496707 AAAGTTAAACGTCAACTTCTTAAGGA 57.503 30.769 21.65 0.00 43.62 3.36


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

AutoCloner maintained by Alex Coulton.