Multiple sequence alignment - TraesCS4B01G195100

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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 TraesCS4B01G195100 chr4B 100.000 2292 0 0 1 2292 420198676 420196385 0.000000e+00 4233.0
1 TraesCS4B01G195100 chr4B 100.000 54 0 0 2682 2735 420195995 420195942 1.730000e-17 100.0
2 TraesCS4B01G195100 chr4D 94.710 1966 51 14 1 1936 340087759 340085817 0.000000e+00 3005.0
3 TraesCS4B01G195100 chr4A 93.845 1966 60 17 1 1936 129089392 129091326 0.000000e+00 2904.0
4 TraesCS4B01G195100 chr7D 92.642 299 12 2 1990 2278 519973652 519973950 3.260000e-114 422.0
5 TraesCS4B01G195100 chr7D 83.712 264 27 13 1991 2247 591439008 591439262 4.550000e-58 235.0
6 TraesCS4B01G195100 chr7D 85.572 201 23 3 1992 2191 530096962 530096767 3.570000e-49 206.0
7 TraesCS4B01G195100 chr5A 87.987 308 26 2 1996 2292 648964441 648964134 1.200000e-93 353.0
8 TraesCS4B01G195100 chr5B 91.089 202 8 2 1990 2181 127500396 127500195 5.810000e-67 265.0
9 TraesCS4B01G195100 chr3A 91.579 190 12 1 2101 2290 121399265 121399080 2.700000e-65 259.0
10 TraesCS4B01G195100 chr3A 95.122 82 4 0 1992 2073 121391354 121391435 2.210000e-26 130.0
11 TraesCS4B01G195100 chr3A 80.153 131 9 14 2132 2253 31795325 31795203 6.280000e-12 82.4
12 TraesCS4B01G195100 chr3A 94.231 52 3 0 2682 2733 31795133 31795082 2.260000e-11 80.5
13 TraesCS4B01G195100 chr5D 84.980 253 24 7 1990 2230 419036120 419036370 7.570000e-61 244.0
14 TraesCS4B01G195100 chr5D 84.264 197 25 3 1991 2186 488227519 488227710 1.290000e-43 187.0
15 TraesCS4B01G195100 chr6D 84.615 247 27 6 1986 2226 15169103 15168862 4.550000e-58 235.0
16 TraesCS4B01G195100 chr3B 96.296 54 2 0 2682 2735 156620693 156620746 3.750000e-14 89.8
17 TraesCS4B01G195100 chr2A 96.296 54 2 0 2682 2735 23484572 23484625 3.750000e-14 89.8


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 TraesCS4B01G195100 chr4B 420195942 420198676 2734 True 2166.5 4233 100.000 1 2735 2 chr4B.!!$R1 2734
1 TraesCS4B01G195100 chr4D 340085817 340087759 1942 True 3005.0 3005 94.710 1 1936 1 chr4D.!!$R1 1935
2 TraesCS4B01G195100 chr4A 129089392 129091326 1934 False 2904.0 2904 93.845 1 1936 1 chr4A.!!$F1 1935

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
805 812 0.670546 CGTCACCGCCTGATCTGTTT 60.671 55.0 0.0 0.0 0.0 2.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1992 2026 0.106819 GCAAGGCATGGGATCTCAGT 60.107 55.0 0.0 0.0 0.0 3.41 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
114 116 4.120331 GGCGATGGTTGGCAGCAC 62.120 66.667 3.14 0.00 31.73 4.40
129 131 2.762472 CAGCACGATTTTAAGCAGACG 58.238 47.619 0.00 0.00 0.00 4.18
226 231 8.528643 TGATAAGTAGAATCCGAAAAGAAGTGA 58.471 33.333 0.00 0.00 0.00 3.41
400 405 2.210711 GGAGGATAGCTGGGTCCCG 61.211 68.421 2.65 0.00 35.00 5.14
428 433 0.840722 AGATGGGTTCACCTTCCCGT 60.841 55.000 0.00 0.00 46.13 5.28
626 631 4.796618 GCTTCGAGTTTGTCTAGTCACCTT 60.797 45.833 0.00 0.00 0.00 3.50
658 663 1.617755 CTAGGAGTGCGTGTGTTGCG 61.618 60.000 0.00 0.00 34.24 4.85
805 812 0.670546 CGTCACCGCCTGATCTGTTT 60.671 55.000 0.00 0.00 0.00 2.83
936 944 4.299796 GGCAAGGGCAAGGGGACA 62.300 66.667 0.00 0.00 43.71 4.02
942 950 1.152830 GGGCAAGGGGACAACAAGA 59.847 57.895 0.00 0.00 0.00 3.02
997 1005 1.153086 GAGCAGGCGGAATCCATGT 60.153 57.895 0.00 0.00 0.00 3.21
1062 1070 4.961511 TCAGGCGTGTCACGGTGC 62.962 66.667 25.70 9.92 42.82 5.01
1067 1075 4.710695 CGTGTCACGGTGCCGCTA 62.711 66.667 17.75 0.00 44.19 4.26
1068 1076 3.110178 GTGTCACGGTGCCGCTAC 61.110 66.667 10.87 9.44 44.19 3.58
1069 1077 3.299977 TGTCACGGTGCCGCTACT 61.300 61.111 10.87 0.00 44.19 2.57
1070 1078 2.809601 GTCACGGTGCCGCTACTG 60.810 66.667 10.87 1.64 44.19 2.74
1071 1079 4.735132 TCACGGTGCCGCTACTGC 62.735 66.667 10.87 0.00 44.19 4.40
1459 1470 6.949463 AGGCCTCAGGTAATTAGTAGACTATC 59.051 42.308 0.00 0.00 0.00 2.08
1480 1513 1.948834 CGGATGATTAAGTGGCATGCA 59.051 47.619 21.36 2.54 31.69 3.96
1484 1517 3.786516 TGATTAAGTGGCATGCATGTG 57.213 42.857 26.79 5.68 0.00 3.21
1492 1525 1.587568 GCATGCATGTGCTGTCCAA 59.412 52.632 26.79 0.00 41.82 3.53
1520 1553 5.079643 ACTGATGTGGATAAAGCTTTTGGT 58.920 37.500 18.47 4.03 0.00 3.67
1668 1701 2.128729 GGAGAGCAAGCTCCGGTAT 58.871 57.895 17.81 0.00 44.52 2.73
1719 1752 1.398739 CTTCAGATCTTGCTGCTGCTG 59.601 52.381 17.00 9.59 40.48 4.41
1728 1761 4.393155 CTGCTGCTGCGGGTGGTA 62.393 66.667 16.16 0.00 43.34 3.25
1737 1770 0.398696 TGCGGGTGGTACAGTGAAAT 59.601 50.000 0.00 0.00 41.80 2.17
1738 1771 1.084289 GCGGGTGGTACAGTGAAATC 58.916 55.000 0.00 0.00 41.80 2.17
1739 1772 1.355971 CGGGTGGTACAGTGAAATCG 58.644 55.000 0.00 0.00 41.80 3.34
1740 1773 1.067425 CGGGTGGTACAGTGAAATCGA 60.067 52.381 0.00 0.00 41.80 3.59
1742 1775 2.740447 GGGTGGTACAGTGAAATCGAAC 59.260 50.000 0.00 0.00 41.80 3.95
1743 1776 2.410730 GGTGGTACAGTGAAATCGAACG 59.589 50.000 0.00 0.00 41.80 3.95
1744 1777 2.410730 GTGGTACAGTGAAATCGAACGG 59.589 50.000 0.00 0.00 41.80 4.44
1745 1778 2.296752 TGGTACAGTGAAATCGAACGGA 59.703 45.455 0.00 0.00 0.00 4.69
1746 1779 3.243805 TGGTACAGTGAAATCGAACGGAA 60.244 43.478 0.00 0.00 0.00 4.30
1747 1780 3.742369 GGTACAGTGAAATCGAACGGAAA 59.258 43.478 0.00 0.00 0.00 3.13
1748 1781 4.390909 GGTACAGTGAAATCGAACGGAAAT 59.609 41.667 0.00 0.00 0.00 2.17
1764 1797 3.562141 CGGAAATACGGAATGCAATGGTA 59.438 43.478 0.00 0.00 0.00 3.25
1769 1802 7.604927 GGAAATACGGAATGCAATGGTAGTATA 59.395 37.037 0.00 0.00 0.00 1.47
1772 1805 5.784177 ACGGAATGCAATGGTAGTATAGAG 58.216 41.667 0.00 0.00 0.00 2.43
1784 1817 1.228337 TATAGAGTGGCGCGCCCTA 60.228 57.895 44.42 35.70 34.56 3.53
1799 1832 1.141858 GCCCTATGCTCCAAGTTAGCT 59.858 52.381 0.00 0.00 40.73 3.32
1821 1854 2.499289 TCTCAATCCAGTTCTGCTCTCC 59.501 50.000 0.00 0.00 0.00 3.71
1852 1885 4.970472 TTTGCTTAATTTTGCTTCAGCG 57.030 36.364 0.00 0.00 45.83 5.18
1865 1898 2.736721 GCTTCAGCGAAGTGTTGTATGA 59.263 45.455 16.09 0.00 41.27 2.15
1875 1908 6.363626 GCGAAGTGTTGTATGATAGATCGAAT 59.636 38.462 0.00 0.00 0.00 3.34
1936 1970 6.313905 CCCTTGTCAACATCTTGTACTACATC 59.686 42.308 0.00 0.00 0.00 3.06
1937 1971 7.099764 CCTTGTCAACATCTTGTACTACATCT 58.900 38.462 0.00 0.00 0.00 2.90
1938 1972 7.604164 CCTTGTCAACATCTTGTACTACATCTT 59.396 37.037 0.00 0.00 0.00 2.40
1939 1973 7.889589 TGTCAACATCTTGTACTACATCTTG 57.110 36.000 0.00 0.00 0.00 3.02
1940 1974 7.666623 TGTCAACATCTTGTACTACATCTTGA 58.333 34.615 0.00 0.00 0.00 3.02
1941 1975 8.314021 TGTCAACATCTTGTACTACATCTTGAT 58.686 33.333 0.00 0.00 0.00 2.57
1942 1976 8.812329 GTCAACATCTTGTACTACATCTTGATC 58.188 37.037 0.00 0.00 0.00 2.92
1943 1977 8.753133 TCAACATCTTGTACTACATCTTGATCT 58.247 33.333 0.00 0.00 0.00 2.75
1972 2006 6.780457 AAAACCATGTTCCATATCTTCCTG 57.220 37.500 0.00 0.00 0.00 3.86
1973 2007 3.825328 ACCATGTTCCATATCTTCCTGC 58.175 45.455 0.00 0.00 0.00 4.85
1974 2008 3.461085 ACCATGTTCCATATCTTCCTGCT 59.539 43.478 0.00 0.00 0.00 4.24
1975 2009 3.819337 CCATGTTCCATATCTTCCTGCTG 59.181 47.826 0.00 0.00 0.00 4.41
1976 2010 4.445305 CCATGTTCCATATCTTCCTGCTGA 60.445 45.833 0.00 0.00 0.00 4.26
1977 2011 4.412796 TGTTCCATATCTTCCTGCTGAG 57.587 45.455 0.00 0.00 0.00 3.35
1978 2012 3.137533 GTTCCATATCTTCCTGCTGAGC 58.862 50.000 0.00 0.00 0.00 4.26
1979 2013 1.696336 TCCATATCTTCCTGCTGAGCC 59.304 52.381 0.23 0.00 0.00 4.70
1980 2014 1.271271 CCATATCTTCCTGCTGAGCCC 60.271 57.143 0.23 0.00 0.00 5.19
1981 2015 1.063183 ATATCTTCCTGCTGAGCCCC 58.937 55.000 0.23 0.00 0.00 5.80
1982 2016 1.056700 TATCTTCCTGCTGAGCCCCC 61.057 60.000 0.23 0.00 0.00 5.40
1983 2017 2.854420 ATCTTCCTGCTGAGCCCCCT 62.854 60.000 0.23 0.00 0.00 4.79
1984 2018 2.532715 TTCCTGCTGAGCCCCCTT 60.533 61.111 0.23 0.00 0.00 3.95
1985 2019 2.147433 CTTCCTGCTGAGCCCCCTTT 62.147 60.000 0.23 0.00 0.00 3.11
1986 2020 2.044551 CCTGCTGAGCCCCCTTTC 60.045 66.667 0.23 0.00 0.00 2.62
1987 2021 2.610519 CCTGCTGAGCCCCCTTTCT 61.611 63.158 0.23 0.00 0.00 2.52
1988 2022 1.077858 CTGCTGAGCCCCCTTTCTC 60.078 63.158 0.23 0.00 0.00 2.87
1989 2023 2.273776 GCTGAGCCCCCTTTCTCC 59.726 66.667 0.00 0.00 0.00 3.71
1990 2024 2.586792 CTGAGCCCCCTTTCTCCG 59.413 66.667 0.00 0.00 0.00 4.63
1991 2025 3.009115 TGAGCCCCCTTTCTCCGG 61.009 66.667 0.00 0.00 0.00 5.14
1992 2026 2.687566 GAGCCCCCTTTCTCCGGA 60.688 66.667 2.93 2.93 0.00 5.14
1993 2027 3.009714 AGCCCCCTTTCTCCGGAC 61.010 66.667 0.00 0.00 0.00 4.79
1994 2028 3.009714 GCCCCCTTTCTCCGGACT 61.010 66.667 0.00 0.00 0.00 3.85
1995 2029 2.990479 CCCCCTTTCTCCGGACTG 59.010 66.667 0.00 0.00 0.00 3.51
1996 2030 1.612442 CCCCCTTTCTCCGGACTGA 60.612 63.158 0.00 0.00 0.00 3.41
1997 2031 1.617947 CCCCCTTTCTCCGGACTGAG 61.618 65.000 0.00 0.00 0.00 3.35
1998 2032 0.614979 CCCCTTTCTCCGGACTGAGA 60.615 60.000 0.00 0.00 39.58 3.27
1999 2033 1.490574 CCCTTTCTCCGGACTGAGAT 58.509 55.000 0.00 0.00 40.89 2.75
2000 2034 1.410882 CCCTTTCTCCGGACTGAGATC 59.589 57.143 0.00 0.00 40.89 2.75
2001 2035 1.410882 CCTTTCTCCGGACTGAGATCC 59.589 57.143 0.00 0.00 40.89 3.36
2002 2036 1.410882 CTTTCTCCGGACTGAGATCCC 59.589 57.143 0.00 0.00 40.89 3.85
2003 2037 0.335019 TTCTCCGGACTGAGATCCCA 59.665 55.000 0.00 0.00 40.89 4.37
2004 2038 0.558220 TCTCCGGACTGAGATCCCAT 59.442 55.000 0.00 0.00 36.48 4.00
2005 2039 0.678395 CTCCGGACTGAGATCCCATG 59.322 60.000 0.00 0.00 35.03 3.66
2006 2040 1.070445 CCGGACTGAGATCCCATGC 59.930 63.158 0.00 0.00 35.03 4.06
2007 2041 1.070445 CGGACTGAGATCCCATGCC 59.930 63.158 0.00 0.00 35.03 4.40
2008 2042 1.406065 CGGACTGAGATCCCATGCCT 61.406 60.000 0.00 0.00 35.03 4.75
2009 2043 0.842635 GGACTGAGATCCCATGCCTT 59.157 55.000 0.00 0.00 31.94 4.35
2010 2044 1.476471 GGACTGAGATCCCATGCCTTG 60.476 57.143 0.00 0.00 31.94 3.61
2011 2045 0.106819 ACTGAGATCCCATGCCTTGC 60.107 55.000 0.00 0.00 0.00 4.01
2012 2046 0.822532 CTGAGATCCCATGCCTTGCC 60.823 60.000 0.00 0.00 0.00 4.52
2013 2047 1.228228 GAGATCCCATGCCTTGCCA 59.772 57.895 0.00 0.00 0.00 4.92
2014 2048 0.822532 GAGATCCCATGCCTTGCCAG 60.823 60.000 0.00 0.00 0.00 4.85
2015 2049 1.228228 GATCCCATGCCTTGCCAGA 59.772 57.895 0.00 0.00 0.00 3.86
2016 2050 0.822532 GATCCCATGCCTTGCCAGAG 60.823 60.000 0.00 0.00 0.00 3.35
2017 2051 2.294170 ATCCCATGCCTTGCCAGAGG 62.294 60.000 0.00 0.00 39.93 3.69
2029 2063 4.742201 CAGAGGCGGGTCACGGTG 62.742 72.222 0.56 0.56 44.51 4.94
2035 2069 4.619227 CGGGTCACGGTGTGCCTT 62.619 66.667 18.39 0.00 39.42 4.35
2036 2070 2.978010 GGGTCACGGTGTGCCTTG 60.978 66.667 18.39 0.00 35.55 3.61
2037 2071 3.660111 GGTCACGGTGTGCCTTGC 61.660 66.667 8.17 0.00 34.37 4.01
2038 2072 4.012895 GTCACGGTGTGCCTTGCG 62.013 66.667 8.17 0.00 34.37 4.85
2044 2078 4.715523 GTGTGCCTTGCGCCCCTA 62.716 66.667 4.18 0.00 38.39 3.53
2045 2079 4.715523 TGTGCCTTGCGCCCCTAC 62.716 66.667 4.18 0.00 38.39 3.18
2046 2080 4.715523 GTGCCTTGCGCCCCTACA 62.716 66.667 4.18 0.00 36.24 2.74
2047 2081 3.727258 TGCCTTGCGCCCCTACAT 61.727 61.111 4.18 0.00 36.24 2.29
2048 2082 2.902343 GCCTTGCGCCCCTACATC 60.902 66.667 4.18 0.00 0.00 3.06
2049 2083 2.203209 CCTTGCGCCCCTACATCC 60.203 66.667 4.18 0.00 0.00 3.51
2050 2084 2.589540 CTTGCGCCCCTACATCCA 59.410 61.111 4.18 0.00 0.00 3.41
2051 2085 1.149174 CTTGCGCCCCTACATCCAT 59.851 57.895 4.18 0.00 0.00 3.41
2052 2086 0.886490 CTTGCGCCCCTACATCCATC 60.886 60.000 4.18 0.00 0.00 3.51
2053 2087 2.357517 GCGCCCCTACATCCATCG 60.358 66.667 0.00 0.00 0.00 3.84
2054 2088 3.138625 CGCCCCTACATCCATCGT 58.861 61.111 0.00 0.00 0.00 3.73
2055 2089 1.006102 CGCCCCTACATCCATCGTC 60.006 63.158 0.00 0.00 0.00 4.20
2056 2090 1.371558 GCCCCTACATCCATCGTCC 59.628 63.158 0.00 0.00 0.00 4.79
2057 2091 1.407656 GCCCCTACATCCATCGTCCA 61.408 60.000 0.00 0.00 0.00 4.02
2058 2092 1.128200 CCCCTACATCCATCGTCCAA 58.872 55.000 0.00 0.00 0.00 3.53
2059 2093 1.488812 CCCCTACATCCATCGTCCAAA 59.511 52.381 0.00 0.00 0.00 3.28
2060 2094 2.092646 CCCCTACATCCATCGTCCAAAA 60.093 50.000 0.00 0.00 0.00 2.44
2061 2095 3.435026 CCCCTACATCCATCGTCCAAAAT 60.435 47.826 0.00 0.00 0.00 1.82
2062 2096 4.202419 CCCCTACATCCATCGTCCAAAATA 60.202 45.833 0.00 0.00 0.00 1.40
2063 2097 5.373222 CCCTACATCCATCGTCCAAAATAA 58.627 41.667 0.00 0.00 0.00 1.40
2064 2098 6.003950 CCCTACATCCATCGTCCAAAATAAT 58.996 40.000 0.00 0.00 0.00 1.28
2065 2099 6.149474 CCCTACATCCATCGTCCAAAATAATC 59.851 42.308 0.00 0.00 0.00 1.75
2066 2100 6.149474 CCTACATCCATCGTCCAAAATAATCC 59.851 42.308 0.00 0.00 0.00 3.01
2067 2101 5.694995 ACATCCATCGTCCAAAATAATCCT 58.305 37.500 0.00 0.00 0.00 3.24
2068 2102 6.837312 ACATCCATCGTCCAAAATAATCCTA 58.163 36.000 0.00 0.00 0.00 2.94
2069 2103 6.710744 ACATCCATCGTCCAAAATAATCCTAC 59.289 38.462 0.00 0.00 0.00 3.18
2070 2104 5.294356 TCCATCGTCCAAAATAATCCTACG 58.706 41.667 0.00 0.00 0.00 3.51
2071 2105 4.451096 CCATCGTCCAAAATAATCCTACGG 59.549 45.833 0.00 0.00 0.00 4.02
2072 2106 3.460103 TCGTCCAAAATAATCCTACGGC 58.540 45.455 0.00 0.00 0.00 5.68
2073 2107 3.133362 TCGTCCAAAATAATCCTACGGCT 59.867 43.478 0.00 0.00 0.00 5.52
2074 2108 3.247648 CGTCCAAAATAATCCTACGGCTG 59.752 47.826 0.00 0.00 0.00 4.85
2075 2109 4.196971 GTCCAAAATAATCCTACGGCTGT 58.803 43.478 2.42 2.42 0.00 4.40
2076 2110 5.362263 GTCCAAAATAATCCTACGGCTGTA 58.638 41.667 5.05 5.05 0.00 2.74
2077 2111 5.818857 GTCCAAAATAATCCTACGGCTGTAA 59.181 40.000 6.88 0.00 0.00 2.41
2078 2112 5.818857 TCCAAAATAATCCTACGGCTGTAAC 59.181 40.000 6.88 0.00 0.00 2.50
2079 2113 5.008316 CCAAAATAATCCTACGGCTGTAACC 59.992 44.000 6.88 0.00 0.00 2.85
2080 2114 5.362105 AAATAATCCTACGGCTGTAACCA 57.638 39.130 6.88 0.00 0.00 3.67
2081 2115 2.981859 AATCCTACGGCTGTAACCAG 57.018 50.000 6.88 0.00 41.91 4.00
2082 2116 1.861982 ATCCTACGGCTGTAACCAGT 58.138 50.000 6.88 0.00 41.02 4.00
2083 2117 1.636148 TCCTACGGCTGTAACCAGTT 58.364 50.000 6.88 0.00 41.02 3.16
2084 2118 1.547372 TCCTACGGCTGTAACCAGTTC 59.453 52.381 6.88 0.00 41.02 3.01
2085 2119 1.274167 CCTACGGCTGTAACCAGTTCA 59.726 52.381 6.88 0.00 41.02 3.18
2086 2120 2.334838 CTACGGCTGTAACCAGTTCAC 58.665 52.381 6.88 0.00 41.02 3.18
2087 2121 0.466543 ACGGCTGTAACCAGTTCACA 59.533 50.000 0.00 0.00 41.02 3.58
2088 2122 0.865769 CGGCTGTAACCAGTTCACAC 59.134 55.000 0.00 0.00 41.02 3.82
2089 2123 1.235724 GGCTGTAACCAGTTCACACC 58.764 55.000 0.00 0.00 41.02 4.16
2090 2124 1.235724 GCTGTAACCAGTTCACACCC 58.764 55.000 0.00 0.00 41.02 4.61
2091 2125 1.476110 GCTGTAACCAGTTCACACCCA 60.476 52.381 0.00 0.00 41.02 4.51
2092 2126 2.494059 CTGTAACCAGTTCACACCCAG 58.506 52.381 0.00 0.00 33.80 4.45
2093 2127 1.841277 TGTAACCAGTTCACACCCAGT 59.159 47.619 0.00 0.00 0.00 4.00
2094 2128 2.158871 TGTAACCAGTTCACACCCAGTC 60.159 50.000 0.00 0.00 0.00 3.51
2095 2129 0.916086 AACCAGTTCACACCCAGTCA 59.084 50.000 0.00 0.00 0.00 3.41
2096 2130 0.916086 ACCAGTTCACACCCAGTCAA 59.084 50.000 0.00 0.00 0.00 3.18
2097 2131 1.308998 CCAGTTCACACCCAGTCAAC 58.691 55.000 0.00 0.00 0.00 3.18
2098 2132 0.937304 CAGTTCACACCCAGTCAACG 59.063 55.000 0.00 0.00 0.00 4.10
2099 2133 0.828022 AGTTCACACCCAGTCAACGA 59.172 50.000 0.00 0.00 0.00 3.85
2100 2134 1.202533 AGTTCACACCCAGTCAACGAG 60.203 52.381 0.00 0.00 0.00 4.18
2101 2135 1.116308 TTCACACCCAGTCAACGAGA 58.884 50.000 0.00 0.00 0.00 4.04
2102 2136 1.338107 TCACACCCAGTCAACGAGAT 58.662 50.000 0.00 0.00 0.00 2.75
2103 2137 1.691976 TCACACCCAGTCAACGAGATT 59.308 47.619 0.00 0.00 0.00 2.40
2104 2138 2.069273 CACACCCAGTCAACGAGATTC 58.931 52.381 0.00 0.00 0.00 2.52
2105 2139 1.691976 ACACCCAGTCAACGAGATTCA 59.308 47.619 0.00 0.00 0.00 2.57
2106 2140 2.104111 ACACCCAGTCAACGAGATTCAA 59.896 45.455 0.00 0.00 0.00 2.69
2107 2141 2.480419 CACCCAGTCAACGAGATTCAAC 59.520 50.000 0.00 0.00 0.00 3.18
2108 2142 2.104111 ACCCAGTCAACGAGATTCAACA 59.896 45.455 0.00 0.00 0.00 3.33
2109 2143 2.480419 CCCAGTCAACGAGATTCAACAC 59.520 50.000 0.00 0.00 0.00 3.32
2110 2144 3.130633 CCAGTCAACGAGATTCAACACA 58.869 45.455 0.00 0.00 0.00 3.72
2111 2145 3.185188 CCAGTCAACGAGATTCAACACAG 59.815 47.826 0.00 0.00 0.00 3.66
2112 2146 3.185188 CAGTCAACGAGATTCAACACAGG 59.815 47.826 0.00 0.00 0.00 4.00
2113 2147 2.096218 GTCAACGAGATTCAACACAGGC 60.096 50.000 0.00 0.00 0.00 4.85
2114 2148 1.872952 CAACGAGATTCAACACAGGCA 59.127 47.619 0.00 0.00 0.00 4.75
2115 2149 2.254546 ACGAGATTCAACACAGGCAA 57.745 45.000 0.00 0.00 0.00 4.52
2116 2150 2.571212 ACGAGATTCAACACAGGCAAA 58.429 42.857 0.00 0.00 0.00 3.68
2117 2151 2.948979 ACGAGATTCAACACAGGCAAAA 59.051 40.909 0.00 0.00 0.00 2.44
2118 2152 3.380004 ACGAGATTCAACACAGGCAAAAA 59.620 39.130 0.00 0.00 0.00 1.94
2119 2153 4.037923 ACGAGATTCAACACAGGCAAAAAT 59.962 37.500 0.00 0.00 0.00 1.82
2120 2154 4.984161 CGAGATTCAACACAGGCAAAAATT 59.016 37.500 0.00 0.00 0.00 1.82
2121 2155 6.148948 CGAGATTCAACACAGGCAAAAATTA 58.851 36.000 0.00 0.00 0.00 1.40
2122 2156 6.088085 CGAGATTCAACACAGGCAAAAATTAC 59.912 38.462 0.00 0.00 0.00 1.89
2123 2157 5.920273 AGATTCAACACAGGCAAAAATTACG 59.080 36.000 0.00 0.00 0.00 3.18
2124 2158 3.376540 TCAACACAGGCAAAAATTACGC 58.623 40.909 0.00 0.00 0.00 4.42
2125 2159 2.044888 ACACAGGCAAAAATTACGCG 57.955 45.000 3.53 3.53 0.00 6.01
2126 2160 1.335506 ACACAGGCAAAAATTACGCGG 60.336 47.619 12.47 0.00 0.00 6.46
2127 2161 0.242555 ACAGGCAAAAATTACGCGGG 59.757 50.000 12.47 0.00 0.00 6.13
2128 2162 1.075979 CAGGCAAAAATTACGCGGGC 61.076 55.000 12.47 1.48 0.00 6.13
2129 2163 2.155819 GGCAAAAATTACGCGGGCG 61.156 57.895 12.47 12.04 46.03 6.13
2130 2164 2.155819 GCAAAAATTACGCGGGCGG 61.156 57.895 18.03 0.00 44.69 6.13
2131 2165 2.155819 CAAAAATTACGCGGGCGGC 61.156 57.895 18.03 7.01 44.69 6.53
2132 2166 3.345209 AAAAATTACGCGGGCGGCC 62.345 57.895 20.04 20.04 44.69 6.13
2164 2198 4.340246 GGCGGGTCGGGGAAAACT 62.340 66.667 0.00 0.00 0.00 2.66
2165 2199 3.053896 GCGGGTCGGGGAAAACTG 61.054 66.667 0.00 0.00 0.00 3.16
2166 2200 3.053896 CGGGTCGGGGAAAACTGC 61.054 66.667 0.00 0.00 0.00 4.40
2167 2201 3.053896 GGGTCGGGGAAAACTGCG 61.054 66.667 0.00 0.00 0.00 5.18
2168 2202 3.733960 GGTCGGGGAAAACTGCGC 61.734 66.667 0.00 0.00 0.00 6.09
2169 2203 4.084888 GTCGGGGAAAACTGCGCG 62.085 66.667 0.00 0.00 0.00 6.86
2174 2208 4.404654 GGAAAACTGCGCGGGCTG 62.405 66.667 26.01 26.01 43.10 4.85
2175 2209 4.404654 GAAAACTGCGCGGGCTGG 62.405 66.667 29.62 21.73 41.89 4.85
2256 2290 4.882396 GCCCTCGCTTCCGCTCTC 62.882 72.222 0.00 0.00 0.00 3.20
2257 2291 4.214327 CCCTCGCTTCCGCTCTCC 62.214 72.222 0.00 0.00 0.00 3.71
2258 2292 3.452786 CCTCGCTTCCGCTCTCCA 61.453 66.667 0.00 0.00 0.00 3.86
2259 2293 2.103934 CTCGCTTCCGCTCTCCAG 59.896 66.667 0.00 0.00 0.00 3.86
2260 2294 4.135153 TCGCTTCCGCTCTCCAGC 62.135 66.667 0.00 0.00 42.96 4.85
2711 2745 4.697756 CCGCGGCCACTGAAGGAA 62.698 66.667 14.67 0.00 0.00 3.36
2712 2746 2.668212 CGCGGCCACTGAAGGAAA 60.668 61.111 2.24 0.00 0.00 3.13
2713 2747 2.954611 GCGGCCACTGAAGGAAAC 59.045 61.111 2.24 0.00 0.00 2.78
2714 2748 2.966309 GCGGCCACTGAAGGAAACG 61.966 63.158 2.24 0.00 0.00 3.60
2715 2749 2.325082 CGGCCACTGAAGGAAACGG 61.325 63.158 2.24 0.00 0.00 4.44
2716 2750 2.626780 GGCCACTGAAGGAAACGGC 61.627 63.158 0.00 0.00 38.85 5.68
2717 2751 2.966309 GCCACTGAAGGAAACGGCG 61.966 63.158 4.80 4.80 0.00 6.46
2718 2752 1.597027 CCACTGAAGGAAACGGCGT 60.597 57.895 6.77 6.77 0.00 5.68
2719 2753 1.566018 CCACTGAAGGAAACGGCGTC 61.566 60.000 15.17 0.38 0.00 5.19
2720 2754 1.663702 ACTGAAGGAAACGGCGTCG 60.664 57.895 15.17 8.42 43.02 5.12
2721 2755 2.356553 TGAAGGAAACGGCGTCGG 60.357 61.111 15.17 0.00 41.39 4.79
2722 2756 3.785499 GAAGGAAACGGCGTCGGC 61.785 66.667 15.17 9.07 41.39 5.54
2723 2757 4.612412 AAGGAAACGGCGTCGGCA 62.612 61.111 15.17 0.00 42.47 5.69
2727 2761 4.922026 AAACGGCGTCGGCAGGTT 62.922 61.111 15.17 12.41 39.52 3.50
2733 2767 4.796231 CGTCGGCAGGTTCCTCCG 62.796 72.222 17.29 17.29 44.16 4.63
2734 2768 3.692406 GTCGGCAGGTTCCTCCGT 61.692 66.667 20.28 0.00 43.35 4.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
114 116 3.474961 CGAAATGCGTCTGCTTAAAATCG 59.525 43.478 0.00 0.00 43.34 3.34
129 131 4.156739 GGAGGGGAATATGAATCGAAATGC 59.843 45.833 0.00 0.00 0.00 3.56
226 231 4.057432 CGCTGATTTCCAATGTTTTTGGT 58.943 39.130 4.42 0.00 40.40 3.67
400 405 2.369394 GTGAACCCATCTTCCCACATC 58.631 52.381 0.00 0.00 0.00 3.06
626 631 1.899437 CTCCTAGTCTGCCGGCCAAA 61.899 60.000 26.77 6.13 0.00 3.28
658 663 7.302350 TGATATACTACAACACATGTGCAAC 57.698 36.000 25.68 5.11 43.77 4.17
936 944 1.160137 GCTCTGGCGATTGTCTTGTT 58.840 50.000 0.00 0.00 0.00 2.83
942 950 2.434884 CCGTGCTCTGGCGATTGT 60.435 61.111 0.00 0.00 42.25 2.71
1064 1072 3.188786 CCTTGACGCGGCAGTAGC 61.189 66.667 17.30 0.00 41.10 3.58
1065 1073 3.188786 GCCTTGACGCGGCAGTAG 61.189 66.667 17.30 11.37 46.77 2.57
1459 1470 1.267806 GCATGCCACTTAATCATCCGG 59.732 52.381 6.36 0.00 0.00 5.14
1480 1513 2.158769 TCAGTCAACTTGGACAGCACAT 60.159 45.455 0.00 0.00 40.29 3.21
1484 1517 2.225019 CACATCAGTCAACTTGGACAGC 59.775 50.000 0.00 0.00 40.29 4.40
1492 1525 5.171339 AGCTTTATCCACATCAGTCAACT 57.829 39.130 0.00 0.00 0.00 3.16
1520 1553 4.837860 ACCTTGAATTGATTAACAGCCCAA 59.162 37.500 0.00 0.00 0.00 4.12
1556 1589 3.250323 CGTCGTGCAGCATCCTCG 61.250 66.667 0.00 0.00 0.00 4.63
1668 1701 2.907482 ATACTCCCCCGATGGTGGCA 62.907 60.000 0.00 0.00 0.00 4.92
1719 1752 1.084289 GATTTCACTGTACCACCCGC 58.916 55.000 0.00 0.00 0.00 6.13
1728 1761 4.090930 CGTATTTCCGTTCGATTTCACTGT 59.909 41.667 0.00 0.00 0.00 3.55
1737 1770 1.928503 GCATTCCGTATTTCCGTTCGA 59.071 47.619 0.00 0.00 0.00 3.71
1738 1771 1.661617 TGCATTCCGTATTTCCGTTCG 59.338 47.619 0.00 0.00 0.00 3.95
1739 1772 3.750639 TTGCATTCCGTATTTCCGTTC 57.249 42.857 0.00 0.00 0.00 3.95
1740 1773 3.181491 CCATTGCATTCCGTATTTCCGTT 60.181 43.478 0.00 0.00 0.00 4.44
1742 1775 2.357637 ACCATTGCATTCCGTATTTCCG 59.642 45.455 0.00 0.00 0.00 4.30
1743 1776 4.578928 ACTACCATTGCATTCCGTATTTCC 59.421 41.667 0.00 0.00 0.00 3.13
1744 1777 5.751243 ACTACCATTGCATTCCGTATTTC 57.249 39.130 0.00 0.00 0.00 2.17
1745 1778 8.372459 TCTATACTACCATTGCATTCCGTATTT 58.628 33.333 0.00 0.00 0.00 1.40
1746 1779 7.903145 TCTATACTACCATTGCATTCCGTATT 58.097 34.615 0.00 0.00 0.00 1.89
1747 1780 7.178628 ACTCTATACTACCATTGCATTCCGTAT 59.821 37.037 0.00 0.00 0.00 3.06
1748 1781 6.492429 ACTCTATACTACCATTGCATTCCGTA 59.508 38.462 0.00 0.00 0.00 4.02
1764 1797 2.728817 GGCGCGCCACTCTATACT 59.271 61.111 43.55 0.00 35.81 2.12
1769 1802 4.227134 CATAGGGCGCGCCACTCT 62.227 66.667 46.88 36.19 37.98 3.24
1784 1817 3.988976 TGAGAAGCTAACTTGGAGCAT 57.011 42.857 0.00 0.00 42.69 3.79
1799 1832 3.055530 GGAGAGCAGAACTGGATTGAGAA 60.056 47.826 3.99 0.00 0.00 2.87
1821 1854 5.564882 GCAAAATTAAGCAAATCAAAAGGCG 59.435 36.000 0.00 0.00 0.00 5.52
1852 1885 8.803201 TCATTCGATCTATCATACAACACTTC 57.197 34.615 0.00 0.00 0.00 3.01
1865 1898 9.764363 TTACTTTGCAACTATCATTCGATCTAT 57.236 29.630 0.00 0.00 32.73 1.98
1875 1908 9.230122 TGAATCTGAATTACTTTGCAACTATCA 57.770 29.630 0.00 0.00 0.00 2.15
1883 1916 4.346129 CGGCTGAATCTGAATTACTTTGC 58.654 43.478 0.00 0.00 0.00 3.68
1957 1991 3.137533 GCTCAGCAGGAAGATATGGAAC 58.862 50.000 0.00 0.00 0.00 3.62
1958 1992 2.105477 GGCTCAGCAGGAAGATATGGAA 59.895 50.000 0.00 0.00 0.00 3.53
1959 1993 1.696336 GGCTCAGCAGGAAGATATGGA 59.304 52.381 0.00 0.00 0.00 3.41
1960 1994 1.271271 GGGCTCAGCAGGAAGATATGG 60.271 57.143 0.00 0.00 0.00 2.74
1961 1995 1.271271 GGGGCTCAGCAGGAAGATATG 60.271 57.143 0.00 0.00 0.00 1.78
1962 1996 1.063183 GGGGCTCAGCAGGAAGATAT 58.937 55.000 0.00 0.00 0.00 1.63
1963 1997 1.056700 GGGGGCTCAGCAGGAAGATA 61.057 60.000 0.00 0.00 0.00 1.98
1964 1998 2.381941 GGGGGCTCAGCAGGAAGAT 61.382 63.158 0.00 0.00 0.00 2.40
1965 1999 3.011517 GGGGGCTCAGCAGGAAGA 61.012 66.667 0.00 0.00 0.00 2.87
1966 2000 2.147433 AAAGGGGGCTCAGCAGGAAG 62.147 60.000 0.00 0.00 0.00 3.46
1967 2001 2.142292 GAAAGGGGGCTCAGCAGGAA 62.142 60.000 0.00 0.00 0.00 3.36
1968 2002 2.532715 AAAGGGGGCTCAGCAGGA 60.533 61.111 0.00 0.00 0.00 3.86
1969 2003 2.044551 GAAAGGGGGCTCAGCAGG 60.045 66.667 0.00 0.00 0.00 4.85
1970 2004 1.077858 GAGAAAGGGGGCTCAGCAG 60.078 63.158 0.00 0.00 0.00 4.24
1971 2005 2.606587 GGAGAAAGGGGGCTCAGCA 61.607 63.158 0.00 0.00 32.83 4.41
1972 2006 2.273776 GGAGAAAGGGGGCTCAGC 59.726 66.667 0.00 0.00 32.83 4.26
1973 2007 2.586792 CGGAGAAAGGGGGCTCAG 59.413 66.667 0.00 0.00 32.83 3.35
1974 2008 3.009115 CCGGAGAAAGGGGGCTCA 61.009 66.667 0.00 0.00 32.83 4.26
1975 2009 2.687566 TCCGGAGAAAGGGGGCTC 60.688 66.667 0.00 0.00 0.00 4.70
1976 2010 3.009714 GTCCGGAGAAAGGGGGCT 61.010 66.667 3.06 0.00 0.00 5.19
1977 2011 3.009714 AGTCCGGAGAAAGGGGGC 61.010 66.667 3.06 0.00 0.00 5.80
1978 2012 1.612442 TCAGTCCGGAGAAAGGGGG 60.612 63.158 3.06 0.00 0.00 5.40
1979 2013 0.614979 TCTCAGTCCGGAGAAAGGGG 60.615 60.000 3.06 0.00 40.81 4.79
1980 2014 1.410882 GATCTCAGTCCGGAGAAAGGG 59.589 57.143 3.06 0.00 46.28 3.95
1981 2015 1.410882 GGATCTCAGTCCGGAGAAAGG 59.589 57.143 3.06 0.00 46.28 3.11
1982 2016 1.410882 GGGATCTCAGTCCGGAGAAAG 59.589 57.143 3.06 1.93 46.28 2.62
1983 2017 1.273041 TGGGATCTCAGTCCGGAGAAA 60.273 52.381 3.06 0.00 46.28 2.52
1984 2018 0.335019 TGGGATCTCAGTCCGGAGAA 59.665 55.000 3.06 0.00 46.28 2.87
1986 2020 0.678395 CATGGGATCTCAGTCCGGAG 59.322 60.000 3.06 0.00 39.26 4.63
1987 2021 1.402896 GCATGGGATCTCAGTCCGGA 61.403 60.000 0.00 0.00 39.26 5.14
1988 2022 1.070445 GCATGGGATCTCAGTCCGG 59.930 63.158 0.00 0.00 39.26 5.14
1989 2023 1.070445 GGCATGGGATCTCAGTCCG 59.930 63.158 0.00 0.00 39.26 4.79
1990 2024 0.842635 AAGGCATGGGATCTCAGTCC 59.157 55.000 0.00 4.54 37.56 3.85
1991 2025 1.964552 CAAGGCATGGGATCTCAGTC 58.035 55.000 0.00 0.00 0.00 3.51
1992 2026 0.106819 GCAAGGCATGGGATCTCAGT 60.107 55.000 0.00 0.00 0.00 3.41
1993 2027 0.822532 GGCAAGGCATGGGATCTCAG 60.823 60.000 0.00 0.00 0.00 3.35
1994 2028 1.228228 GGCAAGGCATGGGATCTCA 59.772 57.895 0.00 0.00 0.00 3.27
1995 2029 0.822532 CTGGCAAGGCATGGGATCTC 60.823 60.000 0.00 0.00 0.00 2.75
1996 2030 1.229359 CTGGCAAGGCATGGGATCT 59.771 57.895 0.00 0.00 0.00 2.75
1997 2031 0.822532 CTCTGGCAAGGCATGGGATC 60.823 60.000 0.00 0.00 0.00 3.36
1998 2032 1.229359 CTCTGGCAAGGCATGGGAT 59.771 57.895 0.00 0.00 0.00 3.85
1999 2033 2.679092 CTCTGGCAAGGCATGGGA 59.321 61.111 0.00 0.00 0.00 4.37
2000 2034 2.441532 CCTCTGGCAAGGCATGGG 60.442 66.667 0.00 0.00 0.00 4.00
2012 2046 4.742201 CACCGTGACCCGCCTCTG 62.742 72.222 0.00 0.00 34.38 3.35
2018 2052 4.619227 AAGGCACACCGTGACCCG 62.619 66.667 5.28 0.00 43.69 5.28
2032 2066 2.203209 GGATGTAGGGGCGCAAGG 60.203 66.667 10.83 0.00 38.28 3.61
2033 2067 0.886490 GATGGATGTAGGGGCGCAAG 60.886 60.000 10.83 0.00 43.44 4.01
2034 2068 1.148273 GATGGATGTAGGGGCGCAA 59.852 57.895 10.83 0.00 0.00 4.85
2035 2069 2.828868 GATGGATGTAGGGGCGCA 59.171 61.111 10.83 0.00 0.00 6.09
2036 2070 2.357517 CGATGGATGTAGGGGCGC 60.358 66.667 0.00 0.00 0.00 6.53
2037 2071 1.006102 GACGATGGATGTAGGGGCG 60.006 63.158 0.00 0.00 0.00 6.13
2038 2072 1.371558 GGACGATGGATGTAGGGGC 59.628 63.158 0.00 0.00 0.00 5.80
2039 2073 1.128200 TTGGACGATGGATGTAGGGG 58.872 55.000 0.00 0.00 0.00 4.79
2040 2074 3.275617 TTTTGGACGATGGATGTAGGG 57.724 47.619 0.00 0.00 0.00 3.53
2041 2075 6.149474 GGATTATTTTGGACGATGGATGTAGG 59.851 42.308 0.00 0.00 0.00 3.18
2042 2076 6.936900 AGGATTATTTTGGACGATGGATGTAG 59.063 38.462 0.00 0.00 0.00 2.74
2043 2077 6.837312 AGGATTATTTTGGACGATGGATGTA 58.163 36.000 0.00 0.00 0.00 2.29
2044 2078 5.694995 AGGATTATTTTGGACGATGGATGT 58.305 37.500 0.00 0.00 0.00 3.06
2045 2079 6.128553 CGTAGGATTATTTTGGACGATGGATG 60.129 42.308 0.00 0.00 0.00 3.51
2046 2080 5.932303 CGTAGGATTATTTTGGACGATGGAT 59.068 40.000 0.00 0.00 0.00 3.41
2047 2081 5.294356 CGTAGGATTATTTTGGACGATGGA 58.706 41.667 0.00 0.00 0.00 3.41
2048 2082 5.591643 CGTAGGATTATTTTGGACGATGG 57.408 43.478 0.00 0.00 0.00 3.51
2073 2107 1.841277 ACTGGGTGTGAACTGGTTACA 59.159 47.619 0.00 0.00 0.00 2.41
2074 2108 2.158871 TGACTGGGTGTGAACTGGTTAC 60.159 50.000 0.00 0.00 0.00 2.50
2075 2109 2.120312 TGACTGGGTGTGAACTGGTTA 58.880 47.619 0.00 0.00 0.00 2.85
2076 2110 0.916086 TGACTGGGTGTGAACTGGTT 59.084 50.000 0.00 0.00 0.00 3.67
2077 2111 0.916086 TTGACTGGGTGTGAACTGGT 59.084 50.000 0.00 0.00 0.00 4.00
2078 2112 1.308998 GTTGACTGGGTGTGAACTGG 58.691 55.000 0.00 0.00 39.22 4.00
2079 2113 0.937304 CGTTGACTGGGTGTGAACTG 59.063 55.000 0.00 0.00 39.96 3.16
2080 2114 0.828022 TCGTTGACTGGGTGTGAACT 59.172 50.000 0.00 0.00 39.96 3.01
2081 2115 1.202486 TCTCGTTGACTGGGTGTGAAC 60.202 52.381 0.00 0.00 38.99 3.18
2082 2116 1.116308 TCTCGTTGACTGGGTGTGAA 58.884 50.000 0.00 0.00 0.00 3.18
2083 2117 1.338107 ATCTCGTTGACTGGGTGTGA 58.662 50.000 0.00 0.00 0.00 3.58
2084 2118 2.069273 GAATCTCGTTGACTGGGTGTG 58.931 52.381 0.00 0.00 0.00 3.82
2085 2119 1.691976 TGAATCTCGTTGACTGGGTGT 59.308 47.619 0.00 0.00 0.00 4.16
2086 2120 2.455674 TGAATCTCGTTGACTGGGTG 57.544 50.000 0.00 0.00 0.00 4.61
2087 2121 2.104111 TGTTGAATCTCGTTGACTGGGT 59.896 45.455 0.00 0.00 0.00 4.51
2088 2122 2.480419 GTGTTGAATCTCGTTGACTGGG 59.520 50.000 0.00 0.00 0.00 4.45
2089 2123 3.130633 TGTGTTGAATCTCGTTGACTGG 58.869 45.455 0.00 0.00 0.00 4.00
2090 2124 3.185188 CCTGTGTTGAATCTCGTTGACTG 59.815 47.826 0.00 0.00 0.00 3.51
2091 2125 3.393800 CCTGTGTTGAATCTCGTTGACT 58.606 45.455 0.00 0.00 0.00 3.41
2092 2126 2.096218 GCCTGTGTTGAATCTCGTTGAC 60.096 50.000 0.00 0.00 0.00 3.18
2093 2127 2.143122 GCCTGTGTTGAATCTCGTTGA 58.857 47.619 0.00 0.00 0.00 3.18
2094 2128 1.872952 TGCCTGTGTTGAATCTCGTTG 59.127 47.619 0.00 0.00 0.00 4.10
2095 2129 2.254546 TGCCTGTGTTGAATCTCGTT 57.745 45.000 0.00 0.00 0.00 3.85
2096 2130 2.254546 TTGCCTGTGTTGAATCTCGT 57.745 45.000 0.00 0.00 0.00 4.18
2097 2131 3.624326 TTTTGCCTGTGTTGAATCTCG 57.376 42.857 0.00 0.00 0.00 4.04
2098 2132 6.088085 CGTAATTTTTGCCTGTGTTGAATCTC 59.912 38.462 0.00 0.00 0.00 2.75
2099 2133 5.920273 CGTAATTTTTGCCTGTGTTGAATCT 59.080 36.000 0.00 0.00 0.00 2.40
2100 2134 5.388371 GCGTAATTTTTGCCTGTGTTGAATC 60.388 40.000 0.00 0.00 0.00 2.52
2101 2135 4.447389 GCGTAATTTTTGCCTGTGTTGAAT 59.553 37.500 0.00 0.00 0.00 2.57
2102 2136 3.799420 GCGTAATTTTTGCCTGTGTTGAA 59.201 39.130 0.00 0.00 0.00 2.69
2103 2137 3.376540 GCGTAATTTTTGCCTGTGTTGA 58.623 40.909 0.00 0.00 0.00 3.18
2104 2138 2.152868 CGCGTAATTTTTGCCTGTGTTG 59.847 45.455 0.00 0.00 0.00 3.33
2105 2139 2.389998 CGCGTAATTTTTGCCTGTGTT 58.610 42.857 0.00 0.00 0.00 3.32
2106 2140 1.335506 CCGCGTAATTTTTGCCTGTGT 60.336 47.619 4.92 0.00 0.00 3.72
2107 2141 1.335935 CCGCGTAATTTTTGCCTGTG 58.664 50.000 4.92 0.00 0.00 3.66
2108 2142 0.242555 CCCGCGTAATTTTTGCCTGT 59.757 50.000 4.92 0.00 0.00 4.00
2109 2143 1.075979 GCCCGCGTAATTTTTGCCTG 61.076 55.000 4.92 0.00 0.00 4.85
2110 2144 1.214325 GCCCGCGTAATTTTTGCCT 59.786 52.632 4.92 0.00 0.00 4.75
2111 2145 2.155819 CGCCCGCGTAATTTTTGCC 61.156 57.895 4.92 0.00 34.35 4.52
2112 2146 2.155819 CCGCCCGCGTAATTTTTGC 61.156 57.895 4.92 0.00 37.81 3.68
2113 2147 2.155819 GCCGCCCGCGTAATTTTTG 61.156 57.895 4.92 0.00 37.81 2.44
2114 2148 2.179767 GCCGCCCGCGTAATTTTT 59.820 55.556 4.92 0.00 37.81 1.94
2115 2149 3.817655 GGCCGCCCGCGTAATTTT 61.818 61.111 4.92 0.00 38.94 1.82
2147 2181 4.340246 AGTTTTCCCCGACCCGCC 62.340 66.667 0.00 0.00 0.00 6.13
2148 2182 3.053896 CAGTTTTCCCCGACCCGC 61.054 66.667 0.00 0.00 0.00 6.13
2149 2183 3.053896 GCAGTTTTCCCCGACCCG 61.054 66.667 0.00 0.00 0.00 5.28
2150 2184 3.053896 CGCAGTTTTCCCCGACCC 61.054 66.667 0.00 0.00 0.00 4.46
2151 2185 3.733960 GCGCAGTTTTCCCCGACC 61.734 66.667 0.30 0.00 0.00 4.79
2152 2186 4.084888 CGCGCAGTTTTCCCCGAC 62.085 66.667 8.75 0.00 0.00 4.79
2157 2191 4.404654 CAGCCCGCGCAGTTTTCC 62.405 66.667 8.75 0.00 37.52 3.13
2158 2192 4.404654 CCAGCCCGCGCAGTTTTC 62.405 66.667 8.75 0.00 37.52 2.29
2694 2728 4.697756 TTCCTTCAGTGGCCGCGG 62.698 66.667 24.05 24.05 0.00 6.46
2695 2729 2.668212 TTTCCTTCAGTGGCCGCG 60.668 61.111 11.42 0.00 0.00 6.46
2696 2730 2.954611 GTTTCCTTCAGTGGCCGC 59.045 61.111 8.71 8.71 0.00 6.53
2697 2731 2.325082 CCGTTTCCTTCAGTGGCCG 61.325 63.158 0.00 0.00 0.00 6.13
2698 2732 2.626780 GCCGTTTCCTTCAGTGGCC 61.627 63.158 0.00 0.00 36.51 5.36
2699 2733 2.954611 GCCGTTTCCTTCAGTGGC 59.045 61.111 0.00 0.00 35.04 5.01
2700 2734 1.566018 GACGCCGTTTCCTTCAGTGG 61.566 60.000 0.00 0.00 0.00 4.00
2701 2735 1.860078 GACGCCGTTTCCTTCAGTG 59.140 57.895 0.00 0.00 0.00 3.66
2702 2736 1.663702 CGACGCCGTTTCCTTCAGT 60.664 57.895 0.00 0.00 0.00 3.41
2703 2737 2.380410 CCGACGCCGTTTCCTTCAG 61.380 63.158 0.00 0.00 0.00 3.02
2704 2738 2.356553 CCGACGCCGTTTCCTTCA 60.357 61.111 0.00 0.00 0.00 3.02
2705 2739 3.785499 GCCGACGCCGTTTCCTTC 61.785 66.667 0.00 0.00 0.00 3.46
2706 2740 4.612412 TGCCGACGCCGTTTCCTT 62.612 61.111 0.00 0.00 0.00 3.36
2710 2744 4.922026 AACCTGCCGACGCCGTTT 62.922 61.111 0.00 0.00 0.00 3.60


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

AutoCloner maintained by Alex Coulton.