Multiple sequence alignment - TraesCS2D01G427600

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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 TraesCS2D01G427600 chr2D 100.000 2417 0 0 1 2417 539448363 539445947 0.000000e+00 4464
1 TraesCS2D01G427600 chr3D 96.354 1920 58 8 1 1911 553073870 553075786 0.000000e+00 3147
2 TraesCS2D01G427600 chr3D 96.287 1562 46 8 365 1916 553035617 553037176 0.000000e+00 2553
3 TraesCS2D01G427600 chr3D 97.320 970 25 1 1 970 553067992 553068960 0.000000e+00 1646
4 TraesCS2D01G427600 chr3D 93.562 233 11 4 1695 1924 553070188 553070419 6.400000e-91 344
5 TraesCS2D01G427600 chr4B 89.148 1843 179 16 1 1832 650925357 650927189 0.000000e+00 2276
6 TraesCS2D01G427600 chr6A 87.527 1876 196 23 1 1847 605856438 605858304 0.000000e+00 2134
7 TraesCS2D01G427600 chr6A 89.451 1640 165 4 3 1636 604465225 604463588 0.000000e+00 2063
8 TraesCS2D01G427600 chr5A 87.320 1877 202 20 1 1847 583452780 583454650 0.000000e+00 2115
9 TraesCS2D01G427600 chr7B 88.605 1720 187 6 1 1713 60057284 60059001 0.000000e+00 2082
10 TraesCS2D01G427600 chr3A 88.415 1407 154 6 189 1588 584370998 584372402 0.000000e+00 1687
11 TraesCS2D01G427600 chr3B 85.458 1451 174 30 534 1962 767557586 767559021 0.000000e+00 1476
12 TraesCS2D01G427600 chr7D 85.366 820 105 9 949 1760 517565986 517566798 0.000000e+00 835


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 TraesCS2D01G427600 chr2D 539445947 539448363 2416 True 4464.000000 4464 100.000000 1 2417 1 chr2D.!!$R1 2416
1 TraesCS2D01G427600 chr3D 553035617 553037176 1559 False 2553.000000 2553 96.287000 365 1916 1 chr3D.!!$F1 1551
2 TraesCS2D01G427600 chr3D 553067992 553075786 7794 False 1712.333333 3147 95.745333 1 1924 3 chr3D.!!$F2 1923
3 TraesCS2D01G427600 chr4B 650925357 650927189 1832 False 2276.000000 2276 89.148000 1 1832 1 chr4B.!!$F1 1831
4 TraesCS2D01G427600 chr6A 605856438 605858304 1866 False 2134.000000 2134 87.527000 1 1847 1 chr6A.!!$F1 1846
5 TraesCS2D01G427600 chr6A 604463588 604465225 1637 True 2063.000000 2063 89.451000 3 1636 1 chr6A.!!$R1 1633
6 TraesCS2D01G427600 chr5A 583452780 583454650 1870 False 2115.000000 2115 87.320000 1 1847 1 chr5A.!!$F1 1846
7 TraesCS2D01G427600 chr7B 60057284 60059001 1717 False 2082.000000 2082 88.605000 1 1713 1 chr7B.!!$F1 1712
8 TraesCS2D01G427600 chr3A 584370998 584372402 1404 False 1687.000000 1687 88.415000 189 1588 1 chr3A.!!$F1 1399
9 TraesCS2D01G427600 chr3B 767557586 767559021 1435 False 1476.000000 1476 85.458000 534 1962 1 chr3B.!!$F1 1428
10 TraesCS2D01G427600 chr7D 517565986 517566798 812 False 835.000000 835 85.366000 949 1760 1 chr7D.!!$F1 811

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
185 186 1.067821 CTGCTTTCCTACTCGGCTAGG 59.932 57.143 0.0 0.97 35.43 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2172 8091 0.037326 GCAGTGGACGGTGAAGATGA 60.037 55.0 0.0 0.0 0.0 2.92 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
185 186 1.067821 CTGCTTTCCTACTCGGCTAGG 59.932 57.143 0.00 0.97 35.43 3.02
749 752 7.201705 GGGGACACTATCAAACTTACATTTAGC 60.202 40.741 0.00 0.00 0.00 3.09
905 908 8.349245 TCGTTGTATGCCATCATTAATTTTAGG 58.651 33.333 0.00 0.00 34.22 2.69
1041 6923 6.687901 GCTTAAAAGGGGGATTGACAAAACTT 60.688 38.462 0.00 0.00 0.00 2.66
1225 7114 0.319813 AAATGCCTTTTGCGCCTGTC 60.320 50.000 4.18 0.00 45.60 3.51
1257 7146 6.154534 GGTGCCTTTGGAAAGTTAGGAATAAT 59.845 38.462 0.00 0.00 34.20 1.28
1410 7301 1.305623 CTGCATCCTCAAAGCCCCT 59.694 57.895 0.00 0.00 0.00 4.79
1806 7716 7.039784 TGTTCCACTTTGAGGGATCATAAAAAG 60.040 37.037 0.00 2.15 32.15 2.27
1807 7717 5.418840 TCCACTTTGAGGGATCATAAAAAGC 59.581 40.000 0.00 0.00 0.00 3.51
1808 7718 5.185635 CCACTTTGAGGGATCATAAAAAGCA 59.814 40.000 0.00 0.00 0.00 3.91
1809 7719 6.127253 CCACTTTGAGGGATCATAAAAAGCAT 60.127 38.462 0.00 0.00 0.00 3.79
1810 7720 6.755141 CACTTTGAGGGATCATAAAAAGCATG 59.245 38.462 0.00 0.00 0.00 4.06
1811 7721 6.438425 ACTTTGAGGGATCATAAAAAGCATGT 59.562 34.615 0.00 0.00 0.00 3.21
1812 7722 7.615365 ACTTTGAGGGATCATAAAAAGCATGTA 59.385 33.333 0.00 0.00 0.00 2.29
1851 7762 7.047271 CCATTTTCCTTTTTCCTTTCTGTTCA 58.953 34.615 0.00 0.00 0.00 3.18
1921 7833 7.004086 TGAGACTTCTGTTATGGGTTTCATTT 58.996 34.615 0.00 0.00 37.30 2.32
1958 7877 3.481453 GGCTCCCCTGATGATCTAAAAC 58.519 50.000 0.00 0.00 0.00 2.43
1962 7881 5.595952 GCTCCCCTGATGATCTAAAACAATT 59.404 40.000 0.00 0.00 0.00 2.32
1963 7882 6.097412 GCTCCCCTGATGATCTAAAACAATTT 59.903 38.462 0.00 0.00 0.00 1.82
1964 7883 7.645058 TCCCCTGATGATCTAAAACAATTTC 57.355 36.000 0.00 0.00 0.00 2.17
1965 7884 7.181361 TCCCCTGATGATCTAAAACAATTTCA 58.819 34.615 0.00 0.00 0.00 2.69
1966 7885 7.122650 TCCCCTGATGATCTAAAACAATTTCAC 59.877 37.037 0.00 0.00 0.00 3.18
1967 7886 7.093814 CCCCTGATGATCTAAAACAATTTCACA 60.094 37.037 0.00 0.00 0.00 3.58
1968 7887 8.306038 CCCTGATGATCTAAAACAATTTCACAA 58.694 33.333 0.00 0.00 0.00 3.33
1969 7888 9.695526 CCTGATGATCTAAAACAATTTCACAAA 57.304 29.630 0.00 0.00 0.00 2.83
1971 7890 9.474920 TGATGATCTAAAACAATTTCACAAACC 57.525 29.630 0.00 0.00 0.00 3.27
1972 7891 7.922505 TGATCTAAAACAATTTCACAAACCG 57.077 32.000 0.00 0.00 0.00 4.44
1973 7892 6.920758 TGATCTAAAACAATTTCACAAACCGG 59.079 34.615 0.00 0.00 0.00 5.28
1974 7893 6.452494 TCTAAAACAATTTCACAAACCGGA 57.548 33.333 9.46 0.00 0.00 5.14
1975 7894 7.045126 TCTAAAACAATTTCACAAACCGGAT 57.955 32.000 9.46 0.00 0.00 4.18
1976 7895 7.493367 TCTAAAACAATTTCACAAACCGGATT 58.507 30.769 9.46 0.00 0.00 3.01
1977 7896 6.597262 AAAACAATTTCACAAACCGGATTC 57.403 33.333 9.46 0.00 0.00 2.52
1978 7897 5.529581 AACAATTTCACAAACCGGATTCT 57.470 34.783 9.46 0.00 0.00 2.40
1979 7898 5.121221 ACAATTTCACAAACCGGATTCTC 57.879 39.130 9.46 0.00 0.00 2.87
1980 7899 4.582656 ACAATTTCACAAACCGGATTCTCA 59.417 37.500 9.46 0.00 0.00 3.27
1981 7900 5.068460 ACAATTTCACAAACCGGATTCTCAA 59.932 36.000 9.46 0.00 0.00 3.02
1982 7901 5.782893 ATTTCACAAACCGGATTCTCAAA 57.217 34.783 9.46 0.86 0.00 2.69
1983 7902 5.584253 TTTCACAAACCGGATTCTCAAAA 57.416 34.783 9.46 0.00 0.00 2.44
1984 7903 5.584253 TTCACAAACCGGATTCTCAAAAA 57.416 34.783 9.46 0.00 0.00 1.94
2010 7929 2.900716 AAACAATTCCACAAACCGGG 57.099 45.000 6.32 0.00 0.00 5.73
2011 7930 0.391228 AACAATTCCACAAACCGGGC 59.609 50.000 6.32 0.00 0.00 6.13
2012 7931 1.291906 CAATTCCACAAACCGGGCC 59.708 57.895 6.32 0.00 0.00 5.80
2013 7932 1.911269 AATTCCACAAACCGGGCCC 60.911 57.895 13.57 13.57 0.00 5.80
2014 7933 2.380571 AATTCCACAAACCGGGCCCT 62.381 55.000 22.43 0.00 0.00 5.19
2015 7934 1.502527 ATTCCACAAACCGGGCCCTA 61.503 55.000 22.43 0.00 0.00 3.53
2016 7935 2.045340 CCACAAACCGGGCCCTAG 60.045 66.667 22.43 14.13 0.00 3.02
2017 7936 2.045340 CACAAACCGGGCCCTAGG 60.045 66.667 22.43 17.77 0.00 3.02
2018 7937 2.530916 ACAAACCGGGCCCTAGGT 60.531 61.111 22.43 18.54 43.68 3.08
2023 7942 3.728373 CCGGGCCCTAGGTTGCTT 61.728 66.667 22.43 0.00 0.00 3.91
2024 7943 2.438434 CGGGCCCTAGGTTGCTTG 60.438 66.667 22.43 0.00 0.00 4.01
2025 7944 2.043953 GGGCCCTAGGTTGCTTGG 60.044 66.667 17.04 0.00 0.00 3.61
2026 7945 2.755876 GGCCCTAGGTTGCTTGGC 60.756 66.667 8.29 1.41 41.42 4.52
2027 7946 2.356667 GCCCTAGGTTGCTTGGCT 59.643 61.111 8.29 0.00 39.05 4.75
2028 7947 2.048603 GCCCTAGGTTGCTTGGCTG 61.049 63.158 8.29 0.00 39.05 4.85
2029 7948 2.048603 CCCTAGGTTGCTTGGCTGC 61.049 63.158 8.29 0.00 0.00 5.25
2030 7949 2.048603 CCTAGGTTGCTTGGCTGCC 61.049 63.158 12.87 12.87 0.00 4.85
2031 7950 1.303561 CTAGGTTGCTTGGCTGCCA 60.304 57.895 19.30 19.30 0.00 4.92
2032 7951 1.589716 CTAGGTTGCTTGGCTGCCAC 61.590 60.000 23.30 11.88 30.78 5.01
2033 7952 4.347453 GGTTGCTTGGCTGCCACG 62.347 66.667 23.30 21.37 30.78 4.94
2038 7957 3.123620 CTTGGCTGCCACGCTCTC 61.124 66.667 23.30 0.00 30.78 3.20
2039 7958 3.889134 CTTGGCTGCCACGCTCTCA 62.889 63.158 23.30 3.52 30.78 3.27
2040 7959 4.687215 TGGCTGCCACGCTCTCAC 62.687 66.667 19.30 0.00 0.00 3.51
2041 7960 4.687215 GGCTGCCACGCTCTCACA 62.687 66.667 15.17 0.00 0.00 3.58
2042 7961 3.418068 GCTGCCACGCTCTCACAC 61.418 66.667 0.00 0.00 0.00 3.82
2043 7962 2.029518 CTGCCACGCTCTCACACA 59.970 61.111 0.00 0.00 0.00 3.72
2044 7963 1.595109 CTGCCACGCTCTCACACAA 60.595 57.895 0.00 0.00 0.00 3.33
2045 7964 1.153269 TGCCACGCTCTCACACAAA 60.153 52.632 0.00 0.00 0.00 2.83
2046 7965 0.746204 TGCCACGCTCTCACACAAAA 60.746 50.000 0.00 0.00 0.00 2.44
2047 7966 0.593128 GCCACGCTCTCACACAAAAT 59.407 50.000 0.00 0.00 0.00 1.82
2048 7967 1.400242 GCCACGCTCTCACACAAAATC 60.400 52.381 0.00 0.00 0.00 2.17
2049 7968 1.872952 CCACGCTCTCACACAAAATCA 59.127 47.619 0.00 0.00 0.00 2.57
2050 7969 2.485426 CCACGCTCTCACACAAAATCAT 59.515 45.455 0.00 0.00 0.00 2.45
2051 7970 3.485633 CACGCTCTCACACAAAATCATG 58.514 45.455 0.00 0.00 0.00 3.07
2052 7971 3.058708 CACGCTCTCACACAAAATCATGT 60.059 43.478 0.00 0.00 0.00 3.21
2053 7972 3.187227 ACGCTCTCACACAAAATCATGTC 59.813 43.478 0.00 0.00 0.00 3.06
2054 7973 3.187022 CGCTCTCACACAAAATCATGTCA 59.813 43.478 0.00 0.00 0.00 3.58
2055 7974 4.470462 GCTCTCACACAAAATCATGTCAC 58.530 43.478 0.00 0.00 0.00 3.67
2056 7975 4.705492 CTCTCACACAAAATCATGTCACG 58.295 43.478 0.00 0.00 0.00 4.35
2057 7976 3.058983 TCTCACACAAAATCATGTCACGC 60.059 43.478 0.00 0.00 0.00 5.34
2058 7977 1.971284 CACACAAAATCATGTCACGCG 59.029 47.619 3.53 3.53 0.00 6.01
2059 7978 1.069296 ACACAAAATCATGTCACGCGG 60.069 47.619 12.47 0.00 0.00 6.46
2060 7979 0.109781 ACAAAATCATGTCACGCGGC 60.110 50.000 12.47 0.03 0.00 6.53
2061 7980 0.798009 CAAAATCATGTCACGCGGCC 60.798 55.000 12.47 0.00 0.00 6.13
2062 7981 0.960364 AAAATCATGTCACGCGGCCT 60.960 50.000 12.47 0.00 0.00 5.19
2063 7982 1.369091 AAATCATGTCACGCGGCCTC 61.369 55.000 12.47 0.00 0.00 4.70
2064 7983 4.794439 TCATGTCACGCGGCCTCG 62.794 66.667 14.81 14.81 39.81 4.63
2081 8000 4.327885 GGCTGCTCTCCGATAACG 57.672 61.111 0.00 0.00 39.43 3.18
2082 8001 1.734137 GGCTGCTCTCCGATAACGA 59.266 57.895 0.00 0.00 42.66 3.85
2083 8002 0.315568 GGCTGCTCTCCGATAACGAT 59.684 55.000 0.00 0.00 42.66 3.73
2084 8003 1.269831 GGCTGCTCTCCGATAACGATT 60.270 52.381 0.00 0.00 42.66 3.34
2085 8004 1.789464 GCTGCTCTCCGATAACGATTG 59.211 52.381 0.00 0.00 42.66 2.67
2086 8005 2.398498 CTGCTCTCCGATAACGATTGG 58.602 52.381 0.00 0.00 42.66 3.16
2087 8006 1.140816 GCTCTCCGATAACGATTGGC 58.859 55.000 0.00 0.00 42.66 4.52
2088 8007 1.269831 GCTCTCCGATAACGATTGGCT 60.270 52.381 0.00 0.00 42.66 4.75
2089 8008 2.667137 CTCTCCGATAACGATTGGCTC 58.333 52.381 0.00 0.00 42.66 4.70
2098 8017 2.609825 CGATTGGCTCGGAATCCTG 58.390 57.895 0.00 0.00 43.82 3.86
2099 8018 0.882042 CGATTGGCTCGGAATCCTGG 60.882 60.000 0.00 0.00 43.82 4.45
2100 8019 1.152881 ATTGGCTCGGAATCCTGGC 60.153 57.895 0.00 3.28 0.00 4.85
2101 8020 1.639635 ATTGGCTCGGAATCCTGGCT 61.640 55.000 14.31 0.00 0.00 4.75
2102 8021 2.110006 GGCTCGGAATCCTGGCTC 59.890 66.667 11.69 0.00 0.00 4.70
2103 8022 2.279784 GCTCGGAATCCTGGCTCG 60.280 66.667 0.00 0.00 0.00 5.03
2104 8023 2.279784 CTCGGAATCCTGGCTCGC 60.280 66.667 0.00 0.00 0.00 5.03
2105 8024 2.759973 TCGGAATCCTGGCTCGCT 60.760 61.111 0.00 0.00 0.00 4.93
2106 8025 2.587194 CGGAATCCTGGCTCGCTG 60.587 66.667 0.00 0.00 0.00 5.18
2107 8026 2.899339 GGAATCCTGGCTCGCTGC 60.899 66.667 0.00 0.00 41.94 5.25
2141 8060 4.700365 GCCCGTTGCGCTTTCACC 62.700 66.667 9.73 0.00 0.00 4.02
2142 8061 4.383602 CCCGTTGCGCTTTCACCG 62.384 66.667 9.73 1.41 0.00 4.94
2143 8062 4.383602 CCGTTGCGCTTTCACCGG 62.384 66.667 9.73 0.00 35.77 5.28
2144 8063 3.342627 CGTTGCGCTTTCACCGGA 61.343 61.111 9.46 0.00 0.00 5.14
2145 8064 2.887889 CGTTGCGCTTTCACCGGAA 61.888 57.895 9.46 0.00 33.69 4.30
2146 8065 1.357334 GTTGCGCTTTCACCGGAAA 59.643 52.632 9.46 0.00 40.60 3.13
2153 8072 2.323213 TTTCACCGGAAAGCGAACC 58.677 52.632 9.46 0.00 38.07 3.62
2154 8073 1.167781 TTTCACCGGAAAGCGAACCC 61.168 55.000 9.46 0.00 38.07 4.11
2155 8074 2.281208 CACCGGAAAGCGAACCCA 60.281 61.111 9.46 0.00 0.00 4.51
2156 8075 2.281276 ACCGGAAAGCGAACCCAC 60.281 61.111 9.46 0.00 0.00 4.61
2157 8076 3.053896 CCGGAAAGCGAACCCACC 61.054 66.667 0.00 0.00 0.00 4.61
2158 8077 3.053896 CGGAAAGCGAACCCACCC 61.054 66.667 0.00 0.00 0.00 4.61
2159 8078 2.675423 GGAAAGCGAACCCACCCC 60.675 66.667 0.00 0.00 0.00 4.95
2160 8079 2.114411 GAAAGCGAACCCACCCCA 59.886 61.111 0.00 0.00 0.00 4.96
2161 8080 2.203437 AAAGCGAACCCACCCCAC 60.203 61.111 0.00 0.00 0.00 4.61
2162 8081 2.969300 GAAAGCGAACCCACCCCACA 62.969 60.000 0.00 0.00 0.00 4.17
2163 8082 3.785122 AAGCGAACCCACCCCACAC 62.785 63.158 0.00 0.00 0.00 3.82
2165 8084 3.879885 CGAACCCACCCCACACCA 61.880 66.667 0.00 0.00 0.00 4.17
2166 8085 2.115266 GAACCCACCCCACACCAG 59.885 66.667 0.00 0.00 0.00 4.00
2167 8086 2.369015 AACCCACCCCACACCAGA 60.369 61.111 0.00 0.00 0.00 3.86
2168 8087 2.692273 GAACCCACCCCACACCAGAC 62.692 65.000 0.00 0.00 0.00 3.51
2169 8088 3.966543 CCCACCCCACACCAGACC 61.967 72.222 0.00 0.00 0.00 3.85
2170 8089 3.966543 CCACCCCACACCAGACCC 61.967 72.222 0.00 0.00 0.00 4.46
2171 8090 3.966543 CACCCCACACCAGACCCC 61.967 72.222 0.00 0.00 0.00 4.95
2172 8091 4.202030 ACCCCACACCAGACCCCT 62.202 66.667 0.00 0.00 0.00 4.79
2173 8092 3.330720 CCCCACACCAGACCCCTC 61.331 72.222 0.00 0.00 0.00 4.30
2174 8093 2.529136 CCCACACCAGACCCCTCA 60.529 66.667 0.00 0.00 0.00 3.86
2175 8094 1.925455 CCCACACCAGACCCCTCAT 60.925 63.158 0.00 0.00 0.00 2.90
2176 8095 1.604378 CCACACCAGACCCCTCATC 59.396 63.158 0.00 0.00 0.00 2.92
2177 8096 0.911525 CCACACCAGACCCCTCATCT 60.912 60.000 0.00 0.00 0.00 2.90
2178 8097 0.987294 CACACCAGACCCCTCATCTT 59.013 55.000 0.00 0.00 0.00 2.40
2179 8098 1.065854 CACACCAGACCCCTCATCTTC 60.066 57.143 0.00 0.00 0.00 2.87
2180 8099 1.279496 CACCAGACCCCTCATCTTCA 58.721 55.000 0.00 0.00 0.00 3.02
2181 8100 1.065854 CACCAGACCCCTCATCTTCAC 60.066 57.143 0.00 0.00 0.00 3.18
2182 8101 0.543749 CCAGACCCCTCATCTTCACC 59.456 60.000 0.00 0.00 0.00 4.02
2183 8102 0.176680 CAGACCCCTCATCTTCACCG 59.823 60.000 0.00 0.00 0.00 4.94
2184 8103 0.252284 AGACCCCTCATCTTCACCGT 60.252 55.000 0.00 0.00 0.00 4.83
2185 8104 0.175989 GACCCCTCATCTTCACCGTC 59.824 60.000 0.00 0.00 0.00 4.79
2186 8105 1.265454 ACCCCTCATCTTCACCGTCC 61.265 60.000 0.00 0.00 0.00 4.79
2187 8106 1.264749 CCCCTCATCTTCACCGTCCA 61.265 60.000 0.00 0.00 0.00 4.02
2188 8107 0.108138 CCCTCATCTTCACCGTCCAC 60.108 60.000 0.00 0.00 0.00 4.02
2189 8108 0.898320 CCTCATCTTCACCGTCCACT 59.102 55.000 0.00 0.00 0.00 4.00
2190 8109 1.404717 CCTCATCTTCACCGTCCACTG 60.405 57.143 0.00 0.00 0.00 3.66
2191 8110 0.037326 TCATCTTCACCGTCCACTGC 60.037 55.000 0.00 0.00 0.00 4.40
2192 8111 1.079819 ATCTTCACCGTCCACTGCG 60.080 57.895 0.00 0.00 0.00 5.18
2193 8112 3.414700 CTTCACCGTCCACTGCGC 61.415 66.667 0.00 0.00 0.00 6.09
2194 8113 4.228567 TTCACCGTCCACTGCGCA 62.229 61.111 10.98 10.98 0.00 6.09
2195 8114 3.529341 TTCACCGTCCACTGCGCAT 62.529 57.895 12.24 0.00 0.00 4.73
2196 8115 3.490759 CACCGTCCACTGCGCATC 61.491 66.667 12.24 0.00 0.00 3.91
2197 8116 4.760047 ACCGTCCACTGCGCATCC 62.760 66.667 12.24 0.00 0.00 3.51
2198 8117 4.758251 CCGTCCACTGCGCATCCA 62.758 66.667 12.24 0.00 0.00 3.41
2199 8118 2.741985 CGTCCACTGCGCATCCAA 60.742 61.111 12.24 0.00 0.00 3.53
2200 8119 2.870372 GTCCACTGCGCATCCAAC 59.130 61.111 12.24 3.75 0.00 3.77
2201 8120 2.741985 TCCACTGCGCATCCAACG 60.742 61.111 12.24 0.00 0.00 4.10
2221 8140 4.769063 CCACGCACCCACGGCATA 62.769 66.667 0.00 0.00 37.37 3.14
2222 8141 3.195002 CACGCACCCACGGCATAG 61.195 66.667 0.00 0.00 37.37 2.23
2223 8142 4.467084 ACGCACCCACGGCATAGG 62.467 66.667 0.00 0.00 37.37 2.57
2248 8167 4.778415 CTCTCGCACCCCGTCACG 62.778 72.222 0.00 0.00 38.35 4.35
2250 8169 4.351938 CTCGCACCCCGTCACGAA 62.352 66.667 0.00 0.00 38.35 3.85
2251 8170 3.642778 CTCGCACCCCGTCACGAAT 62.643 63.158 0.00 0.00 38.35 3.34
2252 8171 3.186047 CGCACCCCGTCACGAATC 61.186 66.667 0.00 0.00 0.00 2.52
2253 8172 2.818274 GCACCCCGTCACGAATCC 60.818 66.667 0.00 0.00 0.00 3.01
2254 8173 2.508439 CACCCCGTCACGAATCCG 60.508 66.667 0.00 0.00 42.50 4.18
2265 8184 3.190337 CGAATCCGTACCCCGAATC 57.810 57.895 0.00 0.00 39.56 2.52
2266 8185 0.662374 CGAATCCGTACCCCGAATCG 60.662 60.000 0.00 0.00 39.56 3.34
2267 8186 0.942884 GAATCCGTACCCCGAATCGC 60.943 60.000 0.00 0.00 39.56 4.58
2268 8187 2.373434 AATCCGTACCCCGAATCGCC 62.373 60.000 0.00 0.00 39.56 5.54
2269 8188 3.534056 CCGTACCCCGAATCGCCT 61.534 66.667 0.00 0.00 39.56 5.52
2270 8189 2.027169 CGTACCCCGAATCGCCTC 59.973 66.667 0.00 0.00 39.56 4.70
2271 8190 2.420466 GTACCCCGAATCGCCTCC 59.580 66.667 0.00 0.00 0.00 4.30
2272 8191 2.042741 TACCCCGAATCGCCTCCA 60.043 61.111 0.00 0.00 0.00 3.86
2273 8192 2.428925 TACCCCGAATCGCCTCCAC 61.429 63.158 0.00 0.00 0.00 4.02
2274 8193 4.547367 CCCCGAATCGCCTCCACC 62.547 72.222 0.00 0.00 0.00 4.61
2275 8194 4.547367 CCCGAATCGCCTCCACCC 62.547 72.222 0.00 0.00 0.00 4.61
2276 8195 4.891727 CCGAATCGCCTCCACCCG 62.892 72.222 0.00 0.00 0.00 5.28
2292 8211 4.323477 CGCCCTCCCACGGTGAAA 62.323 66.667 10.28 0.00 32.29 2.69
2293 8212 2.114411 GCCCTCCCACGGTGAAAA 59.886 61.111 10.28 0.00 0.00 2.29
2294 8213 1.971695 GCCCTCCCACGGTGAAAAG 60.972 63.158 10.28 3.75 0.00 2.27
2295 8214 1.303317 CCCTCCCACGGTGAAAAGG 60.303 63.158 10.28 12.20 0.00 3.11
2296 8215 1.303317 CCTCCCACGGTGAAAAGGG 60.303 63.158 10.28 1.48 42.86 3.95
2297 8216 1.971695 CTCCCACGGTGAAAAGGGC 60.972 63.158 10.28 0.00 41.22 5.19
2298 8217 2.989253 CCCACGGTGAAAAGGGCC 60.989 66.667 10.28 0.00 33.91 5.80
2299 8218 2.989253 CCACGGTGAAAAGGGCCC 60.989 66.667 16.46 16.46 0.00 5.80
2300 8219 2.989253 CACGGTGAAAAGGGCCCC 60.989 66.667 21.43 2.76 0.00 5.80
2301 8220 4.295199 ACGGTGAAAAGGGCCCCC 62.295 66.667 21.43 10.73 0.00 5.40
2315 8234 3.347590 CCCCCACCCTCCCCTTTC 61.348 72.222 0.00 0.00 0.00 2.62
2316 8235 3.347590 CCCCACCCTCCCCTTTCC 61.348 72.222 0.00 0.00 0.00 3.13
2317 8236 2.204306 CCCACCCTCCCCTTTCCT 60.204 66.667 0.00 0.00 0.00 3.36
2318 8237 2.309504 CCCACCCTCCCCTTTCCTC 61.310 68.421 0.00 0.00 0.00 3.71
2319 8238 1.229984 CCACCCTCCCCTTTCCTCT 60.230 63.158 0.00 0.00 0.00 3.69
2320 8239 0.846870 CCACCCTCCCCTTTCCTCTT 60.847 60.000 0.00 0.00 0.00 2.85
2321 8240 1.076438 CACCCTCCCCTTTCCTCTTT 58.924 55.000 0.00 0.00 0.00 2.52
2322 8241 1.429299 CACCCTCCCCTTTCCTCTTTT 59.571 52.381 0.00 0.00 0.00 2.27
2323 8242 1.711375 ACCCTCCCCTTTCCTCTTTTC 59.289 52.381 0.00 0.00 0.00 2.29
2324 8243 1.996291 CCCTCCCCTTTCCTCTTTTCT 59.004 52.381 0.00 0.00 0.00 2.52
2325 8244 2.025793 CCCTCCCCTTTCCTCTTTTCTC 60.026 54.545 0.00 0.00 0.00 2.87
2326 8245 2.355209 CCTCCCCTTTCCTCTTTTCTCG 60.355 54.545 0.00 0.00 0.00 4.04
2327 8246 1.628846 TCCCCTTTCCTCTTTTCTCGG 59.371 52.381 0.00 0.00 0.00 4.63
2328 8247 1.628846 CCCCTTTCCTCTTTTCTCGGA 59.371 52.381 0.00 0.00 0.00 4.55
2329 8248 2.615747 CCCCTTTCCTCTTTTCTCGGAC 60.616 54.545 0.00 0.00 0.00 4.79
2330 8249 2.338500 CCTTTCCTCTTTTCTCGGACG 58.662 52.381 0.00 0.00 0.00 4.79
2331 8250 1.727335 CTTTCCTCTTTTCTCGGACGC 59.273 52.381 0.00 0.00 0.00 5.19
2332 8251 0.388134 TTCCTCTTTTCTCGGACGCG 60.388 55.000 3.53 3.53 0.00 6.01
2333 8252 2.445438 CCTCTTTTCTCGGACGCGC 61.445 63.158 5.73 0.00 0.00 6.86
2334 8253 2.431942 TCTTTTCTCGGACGCGCC 60.432 61.111 5.73 7.90 0.00 6.53
2335 8254 3.488090 CTTTTCTCGGACGCGCCC 61.488 66.667 5.73 2.39 0.00 6.13
2361 8280 4.916314 TCCCCGGCGGAGGAGATC 62.916 72.222 30.79 0.00 34.86 2.75
2365 8284 2.986413 CGGCGGAGGAGATCGGAT 60.986 66.667 0.00 0.00 0.00 4.18
2366 8285 1.674651 CGGCGGAGGAGATCGGATA 60.675 63.158 0.00 0.00 0.00 2.59
2367 8286 1.241990 CGGCGGAGGAGATCGGATAA 61.242 60.000 0.00 0.00 0.00 1.75
2368 8287 0.528470 GGCGGAGGAGATCGGATAAG 59.472 60.000 0.00 0.00 0.00 1.73
2369 8288 1.535833 GCGGAGGAGATCGGATAAGA 58.464 55.000 0.00 0.00 0.00 2.10
2370 8289 2.096248 GCGGAGGAGATCGGATAAGAT 58.904 52.381 0.00 0.00 0.00 2.40
2371 8290 2.098443 GCGGAGGAGATCGGATAAGATC 59.902 54.545 0.00 0.00 45.45 2.75
2377 8296 7.836883 GAGGAGATCGGATAAGATCGGTCCT 62.837 52.000 13.95 13.95 46.35 3.85
2378 8297 3.495670 GATCGGATAAGATCGGTCCTG 57.504 52.381 10.85 6.23 37.82 3.86
2379 8298 2.359981 TCGGATAAGATCGGTCCTGT 57.640 50.000 10.85 0.00 0.00 4.00
2380 8299 2.228059 TCGGATAAGATCGGTCCTGTC 58.772 52.381 10.85 0.00 0.00 3.51
2381 8300 1.269998 CGGATAAGATCGGTCCTGTCC 59.730 57.143 0.06 0.06 0.00 4.02
2382 8301 1.619332 GGATAAGATCGGTCCTGTCCC 59.381 57.143 0.00 0.00 0.00 4.46
2383 8302 1.619332 GATAAGATCGGTCCTGTCCCC 59.381 57.143 0.00 0.00 0.00 4.81
2384 8303 0.337082 TAAGATCGGTCCTGTCCCCA 59.663 55.000 0.00 0.00 0.00 4.96
2385 8304 0.326618 AAGATCGGTCCTGTCCCCAT 60.327 55.000 0.00 0.00 0.00 4.00
2386 8305 0.760945 AGATCGGTCCTGTCCCCATC 60.761 60.000 0.00 0.00 0.00 3.51
2387 8306 0.760945 GATCGGTCCTGTCCCCATCT 60.761 60.000 0.00 0.00 0.00 2.90
2388 8307 0.561184 ATCGGTCCTGTCCCCATCTA 59.439 55.000 0.00 0.00 0.00 1.98
2389 8308 0.106167 TCGGTCCTGTCCCCATCTAG 60.106 60.000 0.00 0.00 0.00 2.43
2390 8309 0.106167 CGGTCCTGTCCCCATCTAGA 60.106 60.000 0.00 0.00 0.00 2.43
2391 8310 1.415200 GGTCCTGTCCCCATCTAGAC 58.585 60.000 0.00 0.00 0.00 2.59
2392 8311 1.062810 GGTCCTGTCCCCATCTAGACT 60.063 57.143 0.00 0.00 34.02 3.24
2393 8312 2.627217 GGTCCTGTCCCCATCTAGACTT 60.627 54.545 0.00 0.00 34.02 3.01
2394 8313 2.696187 GTCCTGTCCCCATCTAGACTTC 59.304 54.545 0.00 0.00 34.02 3.01
2395 8314 2.043227 CCTGTCCCCATCTAGACTTCC 58.957 57.143 0.00 0.00 34.02 3.46
2396 8315 2.626950 CCTGTCCCCATCTAGACTTCCA 60.627 54.545 0.00 0.00 34.02 3.53
2397 8316 2.697751 CTGTCCCCATCTAGACTTCCAG 59.302 54.545 0.00 0.00 34.02 3.86
2398 8317 2.314852 TGTCCCCATCTAGACTTCCAGA 59.685 50.000 0.00 0.00 34.02 3.86
2399 8318 3.245984 TGTCCCCATCTAGACTTCCAGAA 60.246 47.826 0.00 0.00 34.02 3.02
2400 8319 3.970640 GTCCCCATCTAGACTTCCAGAAT 59.029 47.826 0.00 0.00 0.00 2.40
2401 8320 4.039852 GTCCCCATCTAGACTTCCAGAATC 59.960 50.000 0.00 0.00 0.00 2.52
2402 8321 3.326297 CCCCATCTAGACTTCCAGAATCC 59.674 52.174 0.00 0.00 0.00 3.01
2403 8322 3.006323 CCCATCTAGACTTCCAGAATCCG 59.994 52.174 0.00 0.00 0.00 4.18
2404 8323 3.891977 CCATCTAGACTTCCAGAATCCGA 59.108 47.826 0.00 0.00 0.00 4.55
2405 8324 4.022416 CCATCTAGACTTCCAGAATCCGAG 60.022 50.000 0.00 0.00 0.00 4.63
2406 8325 3.556999 TCTAGACTTCCAGAATCCGAGG 58.443 50.000 0.00 0.00 0.00 4.63
2407 8326 1.490574 AGACTTCCAGAATCCGAGGG 58.509 55.000 0.00 0.00 0.00 4.30
2408 8327 0.466124 GACTTCCAGAATCCGAGGGG 59.534 60.000 0.00 0.00 0.00 4.79
2409 8328 1.147153 CTTCCAGAATCCGAGGGGC 59.853 63.158 0.00 0.00 0.00 5.80
2410 8329 2.650813 CTTCCAGAATCCGAGGGGCG 62.651 65.000 0.00 0.00 40.47 6.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
185 186 2.093235 ACAGGCCTTGATCAGAGTTAGC 60.093 50.000 0.00 0.00 0.00 3.09
575 578 5.046520 CCCTACTACCCATCTATAGCCAAAC 60.047 48.000 0.00 0.00 0.00 2.93
730 733 7.770897 AGACCCTGCTAAATGTAAGTTTGATAG 59.229 37.037 0.00 0.00 0.00 2.08
835 838 7.560262 CCTTGGATTCATATTGCCAGATCATAT 59.440 37.037 0.00 0.00 0.00 1.78
1041 6923 1.048601 GGTCAGAATAGGCATCCCGA 58.951 55.000 0.00 0.00 35.76 5.14
1225 7114 2.270352 TTCCAAAGGCACCACAGTAG 57.730 50.000 0.00 0.00 0.00 2.57
1257 7146 9.585099 GACCAAATAGCATTATCAAAAACATGA 57.415 29.630 0.00 0.00 0.00 3.07
1410 7301 3.119319 TCACCCCATATCCAGCTACAAA 58.881 45.455 0.00 0.00 0.00 2.83
1414 7305 4.447616 CCATTTTCACCCCATATCCAGCTA 60.448 45.833 0.00 0.00 0.00 3.32
1806 7716 1.876156 GCCTACAGCCAAGATACATGC 59.124 52.381 0.00 0.00 34.35 4.06
1851 7762 6.367969 GCAATGCATGTTCAGAGAAAGAAAAT 59.632 34.615 0.00 0.00 0.00 1.82
1891 7802 3.182967 CCATAACAGAAGTCTCAGACGC 58.817 50.000 0.00 0.00 37.67 5.19
1921 7833 4.193240 GGAGCCCCCTTTCCATTAATAA 57.807 45.455 0.00 0.00 33.55 1.40
1943 7862 9.695526 TTTGTGAAATTGTTTTAGATCATCAGG 57.304 29.630 0.00 0.00 0.00 3.86
1958 7877 5.119931 TGAGAATCCGGTTTGTGAAATTG 57.880 39.130 1.57 0.00 0.00 2.32
1962 7881 5.584253 TTTTTGAGAATCCGGTTTGTGAA 57.416 34.783 1.57 0.00 0.00 3.18
1989 7908 3.536570 CCCGGTTTGTGGAATTGTTTTT 58.463 40.909 0.00 0.00 0.00 1.94
1990 7909 2.743510 GCCCGGTTTGTGGAATTGTTTT 60.744 45.455 0.00 0.00 0.00 2.43
1991 7910 1.202592 GCCCGGTTTGTGGAATTGTTT 60.203 47.619 0.00 0.00 0.00 2.83
1992 7911 0.391228 GCCCGGTTTGTGGAATTGTT 59.609 50.000 0.00 0.00 0.00 2.83
1993 7912 1.468506 GGCCCGGTTTGTGGAATTGT 61.469 55.000 0.00 0.00 0.00 2.71
1994 7913 1.291906 GGCCCGGTTTGTGGAATTG 59.708 57.895 0.00 0.00 0.00 2.32
1995 7914 1.911269 GGGCCCGGTTTGTGGAATT 60.911 57.895 5.69 0.00 0.00 2.17
1996 7915 1.502527 TAGGGCCCGGTTTGTGGAAT 61.503 55.000 18.44 0.00 0.00 3.01
1997 7916 2.132089 CTAGGGCCCGGTTTGTGGAA 62.132 60.000 18.44 0.00 0.00 3.53
1998 7917 2.529643 TAGGGCCCGGTTTGTGGA 60.530 61.111 18.44 0.00 0.00 4.02
1999 7918 2.045340 CTAGGGCCCGGTTTGTGG 60.045 66.667 18.44 0.00 0.00 4.17
2000 7919 2.045340 CCTAGGGCCCGGTTTGTG 60.045 66.667 18.44 2.41 0.00 3.33
2001 7920 2.158130 AACCTAGGGCCCGGTTTGT 61.158 57.895 24.34 12.89 40.47 2.83
2002 7921 1.677633 CAACCTAGGGCCCGGTTTG 60.678 63.158 26.70 19.16 41.37 2.93
2003 7922 2.761160 CAACCTAGGGCCCGGTTT 59.239 61.111 26.70 12.27 41.37 3.27
2004 7923 4.043100 GCAACCTAGGGCCCGGTT 62.043 66.667 24.34 24.34 43.99 4.44
2006 7925 3.728373 AAGCAACCTAGGGCCCGG 61.728 66.667 18.44 15.89 0.00 5.73
2007 7926 2.438434 CAAGCAACCTAGGGCCCG 60.438 66.667 18.44 4.53 0.00 6.13
2008 7927 2.043953 CCAAGCAACCTAGGGCCC 60.044 66.667 16.46 16.46 0.00 5.80
2009 7928 2.755876 GCCAAGCAACCTAGGGCC 60.756 66.667 14.81 0.00 36.29 5.80
2010 7929 2.048603 CAGCCAAGCAACCTAGGGC 61.049 63.158 14.81 7.90 40.25 5.19
2011 7930 2.048603 GCAGCCAAGCAACCTAGGG 61.049 63.158 14.81 0.00 0.00 3.53
2012 7931 2.048603 GGCAGCCAAGCAACCTAGG 61.049 63.158 6.55 7.41 35.83 3.02
2013 7932 1.303561 TGGCAGCCAAGCAACCTAG 60.304 57.895 13.33 0.00 35.83 3.02
2014 7933 1.603455 GTGGCAGCCAAGCAACCTA 60.603 57.895 18.28 0.00 34.18 3.08
2015 7934 2.914097 GTGGCAGCCAAGCAACCT 60.914 61.111 18.28 0.00 34.18 3.50
2016 7935 4.347453 CGTGGCAGCCAAGCAACC 62.347 66.667 18.28 0.74 34.92 3.77
2021 7940 3.123620 GAGAGCGTGGCAGCCAAG 61.124 66.667 22.13 22.13 34.18 3.61
2022 7941 3.939939 TGAGAGCGTGGCAGCCAA 61.940 61.111 18.28 0.00 34.18 4.52
2023 7942 4.687215 GTGAGAGCGTGGCAGCCA 62.687 66.667 11.22 11.22 38.01 4.75
2024 7943 4.687215 TGTGAGAGCGTGGCAGCC 62.687 66.667 3.66 3.66 38.01 4.85
2025 7944 3.418068 GTGTGAGAGCGTGGCAGC 61.418 66.667 0.00 0.00 37.41 5.25
2026 7945 1.159713 TTTGTGTGAGAGCGTGGCAG 61.160 55.000 0.00 0.00 0.00 4.85
2027 7946 0.746204 TTTTGTGTGAGAGCGTGGCA 60.746 50.000 0.00 0.00 0.00 4.92
2028 7947 0.593128 ATTTTGTGTGAGAGCGTGGC 59.407 50.000 0.00 0.00 0.00 5.01
2029 7948 1.872952 TGATTTTGTGTGAGAGCGTGG 59.127 47.619 0.00 0.00 0.00 4.94
2030 7949 3.058708 ACATGATTTTGTGTGAGAGCGTG 60.059 43.478 0.00 0.00 0.00 5.34
2031 7950 3.141398 ACATGATTTTGTGTGAGAGCGT 58.859 40.909 0.00 0.00 0.00 5.07
2032 7951 3.187022 TGACATGATTTTGTGTGAGAGCG 59.813 43.478 0.00 0.00 0.00 5.03
2033 7952 4.470462 GTGACATGATTTTGTGTGAGAGC 58.530 43.478 0.00 0.00 0.00 4.09
2034 7953 4.705492 CGTGACATGATTTTGTGTGAGAG 58.295 43.478 0.00 0.00 0.00 3.20
2035 7954 3.058983 GCGTGACATGATTTTGTGTGAGA 60.059 43.478 0.00 0.00 0.00 3.27
2036 7955 3.228749 GCGTGACATGATTTTGTGTGAG 58.771 45.455 0.00 0.00 0.00 3.51
2037 7956 2.349343 CGCGTGACATGATTTTGTGTGA 60.349 45.455 0.00 0.00 0.00 3.58
2038 7957 1.971284 CGCGTGACATGATTTTGTGTG 59.029 47.619 0.00 0.00 0.00 3.82
2039 7958 1.069296 CCGCGTGACATGATTTTGTGT 60.069 47.619 4.92 0.00 0.00 3.72
2040 7959 1.605500 CCGCGTGACATGATTTTGTG 58.394 50.000 4.92 0.00 0.00 3.33
2041 7960 0.109781 GCCGCGTGACATGATTTTGT 60.110 50.000 4.92 0.00 0.00 2.83
2042 7961 0.798009 GGCCGCGTGACATGATTTTG 60.798 55.000 4.92 0.00 0.00 2.44
2043 7962 0.960364 AGGCCGCGTGACATGATTTT 60.960 50.000 4.92 0.00 0.00 1.82
2044 7963 1.369091 GAGGCCGCGTGACATGATTT 61.369 55.000 4.92 0.00 0.00 2.17
2045 7964 1.815421 GAGGCCGCGTGACATGATT 60.815 57.895 4.92 0.00 0.00 2.57
2046 7965 2.202932 GAGGCCGCGTGACATGAT 60.203 61.111 4.92 0.00 0.00 2.45
2047 7966 4.794439 CGAGGCCGCGTGACATGA 62.794 66.667 21.77 0.00 0.00 3.07
2064 7983 0.315568 ATCGTTATCGGAGAGCAGCC 59.684 55.000 0.00 0.00 43.63 4.85
2065 7984 1.789464 CAATCGTTATCGGAGAGCAGC 59.211 52.381 0.00 0.00 43.63 5.25
2066 7985 2.398498 CCAATCGTTATCGGAGAGCAG 58.602 52.381 0.00 0.00 43.63 4.24
2067 7986 1.538204 GCCAATCGTTATCGGAGAGCA 60.538 52.381 0.00 0.00 43.63 4.26
2068 7987 1.140816 GCCAATCGTTATCGGAGAGC 58.859 55.000 0.00 0.00 43.63 4.09
2069 7988 2.667137 GAGCCAATCGTTATCGGAGAG 58.333 52.381 0.00 0.00 43.63 3.20
2070 7989 1.001706 CGAGCCAATCGTTATCGGAGA 60.002 52.381 0.00 0.00 46.62 3.71
2071 7990 1.409412 CGAGCCAATCGTTATCGGAG 58.591 55.000 0.00 0.00 46.62 4.63
2072 7991 3.562639 CGAGCCAATCGTTATCGGA 57.437 52.632 0.00 0.00 46.62 4.55
2081 8000 1.169034 GCCAGGATTCCGAGCCAATC 61.169 60.000 8.38 0.00 32.29 2.67
2082 8001 1.152881 GCCAGGATTCCGAGCCAAT 60.153 57.895 8.38 0.00 32.29 3.16
2083 8002 2.257409 GAGCCAGGATTCCGAGCCAA 62.257 60.000 14.21 0.00 32.29 4.52
2084 8003 2.688666 AGCCAGGATTCCGAGCCA 60.689 61.111 14.21 0.00 32.29 4.75
2085 8004 2.110006 GAGCCAGGATTCCGAGCC 59.890 66.667 14.21 5.09 0.00 4.70
2086 8005 2.279784 CGAGCCAGGATTCCGAGC 60.280 66.667 10.93 10.93 0.00 5.03
2087 8006 2.279784 GCGAGCCAGGATTCCGAG 60.280 66.667 0.00 0.00 0.00 4.63
2088 8007 2.759973 AGCGAGCCAGGATTCCGA 60.760 61.111 0.00 0.00 0.00 4.55
2089 8008 2.587194 CAGCGAGCCAGGATTCCG 60.587 66.667 0.00 0.00 0.00 4.30
2090 8009 2.899339 GCAGCGAGCCAGGATTCC 60.899 66.667 0.00 0.00 37.23 3.01
2124 8043 4.700365 GGTGAAAGCGCAACGGGC 62.700 66.667 11.47 0.00 41.91 6.13
2135 8054 1.167781 GGGTTCGCTTTCCGGTGAAA 61.168 55.000 0.00 0.00 37.44 2.69
2136 8055 1.598685 GGGTTCGCTTTCCGGTGAA 60.599 57.895 0.00 0.00 37.59 3.18
2137 8056 2.031465 GGGTTCGCTTTCCGGTGA 59.969 61.111 0.00 0.00 37.59 4.02
2138 8057 2.281208 TGGGTTCGCTTTCCGGTG 60.281 61.111 0.00 0.00 37.59 4.94
2139 8058 2.281276 GTGGGTTCGCTTTCCGGT 60.281 61.111 0.00 0.00 37.59 5.28
2140 8059 3.053896 GGTGGGTTCGCTTTCCGG 61.054 66.667 0.00 0.00 37.59 5.14
2141 8060 3.053896 GGGTGGGTTCGCTTTCCG 61.054 66.667 0.00 0.00 38.61 4.30
2142 8061 2.675423 GGGGTGGGTTCGCTTTCC 60.675 66.667 0.00 0.00 0.00 3.13
2143 8062 2.114411 TGGGGTGGGTTCGCTTTC 59.886 61.111 0.00 0.00 0.00 2.62
2144 8063 2.203437 GTGGGGTGGGTTCGCTTT 60.203 61.111 0.00 0.00 0.00 3.51
2145 8064 3.494254 TGTGGGGTGGGTTCGCTT 61.494 61.111 0.00 0.00 0.00 4.68
2146 8065 4.265056 GTGTGGGGTGGGTTCGCT 62.265 66.667 0.00 0.00 0.00 4.93
2148 8067 3.842925 CTGGTGTGGGGTGGGTTCG 62.843 68.421 0.00 0.00 0.00 3.95
2149 8068 2.115266 CTGGTGTGGGGTGGGTTC 59.885 66.667 0.00 0.00 0.00 3.62
2150 8069 2.369015 TCTGGTGTGGGGTGGGTT 60.369 61.111 0.00 0.00 0.00 4.11
2151 8070 3.175710 GTCTGGTGTGGGGTGGGT 61.176 66.667 0.00 0.00 0.00 4.51
2152 8071 3.966543 GGTCTGGTGTGGGGTGGG 61.967 72.222 0.00 0.00 0.00 4.61
2153 8072 3.966543 GGGTCTGGTGTGGGGTGG 61.967 72.222 0.00 0.00 0.00 4.61
2154 8073 3.966543 GGGGTCTGGTGTGGGGTG 61.967 72.222 0.00 0.00 0.00 4.61
2155 8074 4.202030 AGGGGTCTGGTGTGGGGT 62.202 66.667 0.00 0.00 0.00 4.95
2156 8075 3.330720 GAGGGGTCTGGTGTGGGG 61.331 72.222 0.00 0.00 0.00 4.96
2157 8076 1.915078 GATGAGGGGTCTGGTGTGGG 61.915 65.000 0.00 0.00 0.00 4.61
2158 8077 0.911525 AGATGAGGGGTCTGGTGTGG 60.912 60.000 0.00 0.00 0.00 4.17
2159 8078 0.987294 AAGATGAGGGGTCTGGTGTG 59.013 55.000 0.00 0.00 0.00 3.82
2160 8079 1.280457 GAAGATGAGGGGTCTGGTGT 58.720 55.000 0.00 0.00 0.00 4.16
2161 8080 1.065854 GTGAAGATGAGGGGTCTGGTG 60.066 57.143 0.00 0.00 0.00 4.17
2162 8081 1.280457 GTGAAGATGAGGGGTCTGGT 58.720 55.000 0.00 0.00 0.00 4.00
2163 8082 0.543749 GGTGAAGATGAGGGGTCTGG 59.456 60.000 0.00 0.00 0.00 3.86
2164 8083 0.176680 CGGTGAAGATGAGGGGTCTG 59.823 60.000 0.00 0.00 0.00 3.51
2165 8084 0.252284 ACGGTGAAGATGAGGGGTCT 60.252 55.000 0.00 0.00 0.00 3.85
2166 8085 0.175989 GACGGTGAAGATGAGGGGTC 59.824 60.000 0.00 0.00 0.00 4.46
2167 8086 1.265454 GGACGGTGAAGATGAGGGGT 61.265 60.000 0.00 0.00 0.00 4.95
2168 8087 1.264749 TGGACGGTGAAGATGAGGGG 61.265 60.000 0.00 0.00 0.00 4.79
2169 8088 0.108138 GTGGACGGTGAAGATGAGGG 60.108 60.000 0.00 0.00 0.00 4.30
2170 8089 0.898320 AGTGGACGGTGAAGATGAGG 59.102 55.000 0.00 0.00 0.00 3.86
2171 8090 2.001812 CAGTGGACGGTGAAGATGAG 57.998 55.000 0.00 0.00 0.00 2.90
2172 8091 0.037326 GCAGTGGACGGTGAAGATGA 60.037 55.000 0.00 0.00 0.00 2.92
2173 8092 1.354337 CGCAGTGGACGGTGAAGATG 61.354 60.000 0.00 0.00 0.00 2.90
2174 8093 1.079819 CGCAGTGGACGGTGAAGAT 60.080 57.895 0.00 0.00 0.00 2.40
2175 8094 2.338620 CGCAGTGGACGGTGAAGA 59.661 61.111 0.00 0.00 0.00 2.87
2176 8095 3.414700 GCGCAGTGGACGGTGAAG 61.415 66.667 0.30 0.00 0.00 3.02
2177 8096 3.529341 ATGCGCAGTGGACGGTGAA 62.529 57.895 18.32 0.00 0.00 3.18
2178 8097 3.932580 GATGCGCAGTGGACGGTGA 62.933 63.158 18.32 0.00 0.00 4.02
2179 8098 3.490759 GATGCGCAGTGGACGGTG 61.491 66.667 18.32 0.00 0.00 4.94
2180 8099 4.760047 GGATGCGCAGTGGACGGT 62.760 66.667 18.32 0.00 0.00 4.83
2181 8100 4.758251 TGGATGCGCAGTGGACGG 62.758 66.667 18.32 0.00 0.00 4.79
2182 8101 2.741985 TTGGATGCGCAGTGGACG 60.742 61.111 18.32 0.00 0.00 4.79
2183 8102 2.870372 GTTGGATGCGCAGTGGAC 59.130 61.111 18.32 8.63 0.00 4.02
2184 8103 2.741985 CGTTGGATGCGCAGTGGA 60.742 61.111 18.32 0.00 0.00 4.02
2204 8123 4.769063 TATGCCGTGGGTGCGTGG 62.769 66.667 0.00 0.00 0.00 4.94
2205 8124 3.195002 CTATGCCGTGGGTGCGTG 61.195 66.667 0.00 0.00 0.00 5.34
2206 8125 4.467084 CCTATGCCGTGGGTGCGT 62.467 66.667 0.00 0.00 0.00 5.24
2211 8130 4.483243 AACCGCCTATGCCGTGGG 62.483 66.667 0.00 0.00 35.07 4.61
2212 8131 2.895372 GAACCGCCTATGCCGTGG 60.895 66.667 0.00 0.00 36.92 4.94
2213 8132 3.261951 CGAACCGCCTATGCCGTG 61.262 66.667 0.00 0.00 0.00 4.94
2231 8150 4.778415 CGTGACGGGGTGCGAGAG 62.778 72.222 0.00 0.00 0.00 3.20
2233 8152 3.642778 ATTCGTGACGGGGTGCGAG 62.643 63.158 4.70 0.00 34.78 5.03
2234 8153 3.636313 GATTCGTGACGGGGTGCGA 62.636 63.158 4.70 0.00 0.00 5.10
2235 8154 3.186047 GATTCGTGACGGGGTGCG 61.186 66.667 4.70 0.00 0.00 5.34
2236 8155 2.818274 GGATTCGTGACGGGGTGC 60.818 66.667 4.70 0.00 0.00 5.01
2237 8156 2.508439 CGGATTCGTGACGGGGTG 60.508 66.667 4.70 0.00 0.00 4.61
2247 8166 0.662374 CGATTCGGGGTACGGATTCG 60.662 60.000 0.00 0.00 42.02 3.34
2248 8167 0.942884 GCGATTCGGGGTACGGATTC 60.943 60.000 8.34 0.00 42.02 2.52
2249 8168 1.068585 GCGATTCGGGGTACGGATT 59.931 57.895 8.34 0.00 42.02 3.01
2250 8169 2.732658 GCGATTCGGGGTACGGAT 59.267 61.111 8.34 0.00 45.48 4.18
2251 8170 3.530260 GGCGATTCGGGGTACGGA 61.530 66.667 8.34 0.00 44.45 4.69
2252 8171 3.495352 GAGGCGATTCGGGGTACGG 62.495 68.421 8.34 0.00 44.45 4.02
2253 8172 2.027169 GAGGCGATTCGGGGTACG 59.973 66.667 8.34 0.00 46.11 3.67
2254 8173 2.420466 GGAGGCGATTCGGGGTAC 59.580 66.667 8.34 0.00 0.00 3.34
2255 8174 2.042741 TGGAGGCGATTCGGGGTA 60.043 61.111 8.34 0.00 0.00 3.69
2256 8175 3.782443 GTGGAGGCGATTCGGGGT 61.782 66.667 8.34 0.00 0.00 4.95
2257 8176 4.547367 GGTGGAGGCGATTCGGGG 62.547 72.222 8.34 0.00 0.00 5.73
2258 8177 4.547367 GGGTGGAGGCGATTCGGG 62.547 72.222 8.34 0.00 0.00 5.14
2259 8178 4.891727 CGGGTGGAGGCGATTCGG 62.892 72.222 8.34 0.00 0.00 4.30
2275 8194 3.835790 TTTTCACCGTGGGAGGGCG 62.836 63.158 0.00 0.00 35.02 6.13
2276 8195 1.971695 CTTTTCACCGTGGGAGGGC 60.972 63.158 0.00 0.00 35.02 5.19
2277 8196 1.303317 CCTTTTCACCGTGGGAGGG 60.303 63.158 0.00 0.00 35.02 4.30
2278 8197 1.303317 CCCTTTTCACCGTGGGAGG 60.303 63.158 0.00 4.06 42.11 4.30
2279 8198 1.971695 GCCCTTTTCACCGTGGGAG 60.972 63.158 0.00 0.00 42.11 4.30
2280 8199 2.114411 GCCCTTTTCACCGTGGGA 59.886 61.111 0.00 0.00 42.11 4.37
2281 8200 2.989253 GGCCCTTTTCACCGTGGG 60.989 66.667 0.00 0.00 42.41 4.61
2282 8201 2.989253 GGGCCCTTTTCACCGTGG 60.989 66.667 17.04 0.00 0.00 4.94
2283 8202 2.989253 GGGGCCCTTTTCACCGTG 60.989 66.667 24.38 0.00 0.00 4.94
2284 8203 4.295199 GGGGGCCCTTTTCACCGT 62.295 66.667 24.38 0.00 0.00 4.83
2298 8217 3.347590 GAAAGGGGAGGGTGGGGG 61.348 72.222 0.00 0.00 0.00 5.40
2299 8218 3.347590 GGAAAGGGGAGGGTGGGG 61.348 72.222 0.00 0.00 0.00 4.96
2300 8219 2.204306 AGGAAAGGGGAGGGTGGG 60.204 66.667 0.00 0.00 0.00 4.61
2301 8220 0.846870 AAGAGGAAAGGGGAGGGTGG 60.847 60.000 0.00 0.00 0.00 4.61
2302 8221 1.076438 AAAGAGGAAAGGGGAGGGTG 58.924 55.000 0.00 0.00 0.00 4.61
2303 8222 1.711375 GAAAAGAGGAAAGGGGAGGGT 59.289 52.381 0.00 0.00 0.00 4.34
2304 8223 1.996291 AGAAAAGAGGAAAGGGGAGGG 59.004 52.381 0.00 0.00 0.00 4.30
2305 8224 2.355209 CGAGAAAAGAGGAAAGGGGAGG 60.355 54.545 0.00 0.00 0.00 4.30
2306 8225 2.355209 CCGAGAAAAGAGGAAAGGGGAG 60.355 54.545 0.00 0.00 0.00 4.30
2307 8226 1.628846 CCGAGAAAAGAGGAAAGGGGA 59.371 52.381 0.00 0.00 0.00 4.81
2308 8227 1.628846 TCCGAGAAAAGAGGAAAGGGG 59.371 52.381 0.00 0.00 0.00 4.79
2309 8228 2.701107 GTCCGAGAAAAGAGGAAAGGG 58.299 52.381 0.00 0.00 35.60 3.95
2310 8229 2.338500 CGTCCGAGAAAAGAGGAAAGG 58.662 52.381 0.00 0.00 35.60 3.11
2311 8230 1.727335 GCGTCCGAGAAAAGAGGAAAG 59.273 52.381 0.00 0.00 35.60 2.62
2312 8231 1.792006 GCGTCCGAGAAAAGAGGAAA 58.208 50.000 0.00 0.00 35.60 3.13
2313 8232 0.388134 CGCGTCCGAGAAAAGAGGAA 60.388 55.000 0.00 0.00 35.60 3.36
2314 8233 1.211969 CGCGTCCGAGAAAAGAGGA 59.788 57.895 0.00 0.00 36.29 3.71
2315 8234 2.445438 GCGCGTCCGAGAAAAGAGG 61.445 63.158 8.43 0.00 36.29 3.69
2316 8235 2.445438 GGCGCGTCCGAGAAAAGAG 61.445 63.158 8.43 0.00 36.29 2.85
2317 8236 2.431942 GGCGCGTCCGAGAAAAGA 60.432 61.111 8.43 0.00 36.29 2.52
2318 8237 3.488090 GGGCGCGTCCGAGAAAAG 61.488 66.667 16.93 0.00 36.29 2.27
2344 8263 4.916314 GATCTCCTCCGCCGGGGA 62.916 72.222 21.95 15.56 44.68 4.81
2348 8267 1.241990 TTATCCGATCTCCTCCGCCG 61.242 60.000 0.00 0.00 0.00 6.46
2349 8268 0.528470 CTTATCCGATCTCCTCCGCC 59.472 60.000 0.00 0.00 0.00 6.13
2350 8269 1.535833 TCTTATCCGATCTCCTCCGC 58.464 55.000 0.00 0.00 0.00 5.54
2351 8270 2.353269 CGATCTTATCCGATCTCCTCCG 59.647 54.545 0.00 0.00 38.09 4.63
2352 8271 2.685897 CCGATCTTATCCGATCTCCTCC 59.314 54.545 0.00 0.00 38.09 4.30
2353 8272 3.349022 ACCGATCTTATCCGATCTCCTC 58.651 50.000 0.00 0.00 38.09 3.71
2354 8273 3.349022 GACCGATCTTATCCGATCTCCT 58.651 50.000 0.00 0.00 38.09 3.69
2355 8274 2.424246 GGACCGATCTTATCCGATCTCC 59.576 54.545 0.00 0.00 38.09 3.71
2356 8275 3.127895 CAGGACCGATCTTATCCGATCTC 59.872 52.174 0.00 0.00 38.09 2.75
2357 8276 3.085533 CAGGACCGATCTTATCCGATCT 58.914 50.000 0.00 0.00 38.09 2.75
2358 8277 2.820787 ACAGGACCGATCTTATCCGATC 59.179 50.000 0.00 0.00 37.60 3.69
2359 8278 2.820787 GACAGGACCGATCTTATCCGAT 59.179 50.000 0.00 0.00 37.60 4.18
2360 8279 2.228059 GACAGGACCGATCTTATCCGA 58.772 52.381 0.00 0.00 37.60 4.55
2361 8280 1.269998 GGACAGGACCGATCTTATCCG 59.730 57.143 0.00 0.00 37.60 4.18
2362 8281 1.619332 GGGACAGGACCGATCTTATCC 59.381 57.143 0.00 0.00 0.00 2.59
2363 8282 1.619332 GGGGACAGGACCGATCTTATC 59.381 57.143 0.00 0.00 0.00 1.75
2364 8283 1.062428 TGGGGACAGGACCGATCTTAT 60.062 52.381 0.00 0.00 35.01 1.73
2365 8284 0.337082 TGGGGACAGGACCGATCTTA 59.663 55.000 0.00 0.00 35.01 2.10
2366 8285 1.080354 TGGGGACAGGACCGATCTT 59.920 57.895 0.00 0.00 35.01 2.40
2367 8286 2.777853 TGGGGACAGGACCGATCT 59.222 61.111 0.00 0.00 35.01 2.75
2375 8294 6.721953 TCTGGAAGTCTAGATGGGGACAGG 62.722 54.167 0.00 0.00 38.82 4.00
2376 8295 3.628513 TCTGGAAGTCTAGATGGGGACAG 60.629 52.174 0.00 1.09 38.82 3.51
2377 8296 2.314852 TCTGGAAGTCTAGATGGGGACA 59.685 50.000 0.00 0.00 39.64 4.02
2378 8297 3.033659 TCTGGAAGTCTAGATGGGGAC 57.966 52.381 0.00 0.00 33.76 4.46
2379 8298 3.776731 TTCTGGAAGTCTAGATGGGGA 57.223 47.619 0.00 0.00 33.41 4.81
2380 8299 3.326297 GGATTCTGGAAGTCTAGATGGGG 59.674 52.174 0.00 0.00 33.41 4.96
2381 8300 3.006323 CGGATTCTGGAAGTCTAGATGGG 59.994 52.174 0.00 0.00 33.41 4.00
2382 8301 3.891977 TCGGATTCTGGAAGTCTAGATGG 59.108 47.826 0.00 0.00 33.41 3.51
2383 8302 4.022416 CCTCGGATTCTGGAAGTCTAGATG 60.022 50.000 0.00 0.00 33.41 2.90
2384 8303 4.148838 CCTCGGATTCTGGAAGTCTAGAT 58.851 47.826 0.00 0.00 33.41 1.98
2385 8304 3.556999 CCTCGGATTCTGGAAGTCTAGA 58.443 50.000 0.00 0.00 33.76 2.43
2386 8305 2.625790 CCCTCGGATTCTGGAAGTCTAG 59.374 54.545 0.00 0.00 33.76 2.43
2387 8306 2.667470 CCCTCGGATTCTGGAAGTCTA 58.333 52.381 0.00 0.00 33.76 2.59
2388 8307 1.490574 CCCTCGGATTCTGGAAGTCT 58.509 55.000 0.00 0.00 33.76 3.24
2389 8308 0.466124 CCCCTCGGATTCTGGAAGTC 59.534 60.000 0.00 0.00 33.76 3.01
2390 8309 1.627297 GCCCCTCGGATTCTGGAAGT 61.627 60.000 0.00 0.00 33.76 3.01
2391 8310 1.147153 GCCCCTCGGATTCTGGAAG 59.853 63.158 0.00 0.00 0.00 3.46
2392 8311 2.731571 CGCCCCTCGGATTCTGGAA 61.732 63.158 0.00 0.00 33.78 3.53
2393 8312 3.154473 CGCCCCTCGGATTCTGGA 61.154 66.667 0.00 0.00 33.78 3.86


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

AutoCloner maintained by Alex Coulton.