Multiple sequence alignment - TraesCS7B01G106200

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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 TraesCS7B01G106200 chr7B 100.000 2204 0 0 1 2204 123279334 123277131 0.000000e+00 4071.0
1 TraesCS7B01G106200 chr7B 85.586 222 26 4 983 1204 123285064 123284849 6.120000e-56 228.0
2 TraesCS7B01G106200 chr7B 97.143 70 2 0 2135 2204 669170481 669170550 3.840000e-23 119.0
3 TraesCS7B01G106200 chr7D 93.419 1565 71 18 1 1562 160980506 160978971 0.000000e+00 2290.0
4 TraesCS7B01G106200 chr7D 91.923 260 19 2 1879 2136 160958962 160958703 1.610000e-96 363.0
5 TraesCS7B01G106200 chr7D 85.843 332 28 10 1557 1869 160977835 160977504 3.510000e-88 335.0
6 TraesCS7B01G106200 chr7D 87.879 231 22 3 976 1206 161040103 161039879 1.300000e-67 267.0
7 TraesCS7B01G106200 chr7D 84.649 228 29 4 979 1206 161060689 161060468 2.850000e-54 222.0
8 TraesCS7B01G106200 chr7D 85.253 217 26 4 988 1204 161057416 161057206 3.680000e-53 219.0
9 TraesCS7B01G106200 chr7A 92.451 1126 57 15 443 1549 162401000 162399884 0.000000e+00 1583.0
10 TraesCS7B01G106200 chr7A 86.946 1241 101 26 1 1225 162409197 162408002 0.000000e+00 1338.0
11 TraesCS7B01G106200 chr7A 92.517 441 27 3 1697 2136 162115568 162115133 5.170000e-176 627.0
12 TraesCS7B01G106200 chr7A 89.869 306 18 8 1 302 162405415 162405119 4.440000e-102 381.0
13 TraesCS7B01G106200 chr7A 85.965 228 26 4 979 1206 162454206 162453985 2.830000e-59 239.0
14 TraesCS7B01G106200 chr7A 85.398 226 27 4 979 1204 162414357 162414138 1.700000e-56 230.0
15 TraesCS7B01G106200 chr7A 93.878 49 3 0 261 309 162407263 162407311 8.440000e-10 75.0
16 TraesCS7B01G106200 chr7A 100.000 34 0 0 1239 1272 162408003 162407970 1.830000e-06 63.9
17 TraesCS7B01G106200 chr7A 97.059 34 1 0 1239 1272 162405094 162405061 8.500000e-05 58.4
18 TraesCS7B01G106200 chr5B 95.890 73 3 0 2132 2204 40765177 40765249 3.840000e-23 119.0
19 TraesCS7B01G106200 chr5B 93.333 75 5 0 2130 2204 638938306 638938380 6.430000e-21 111.0
20 TraesCS7B01G106200 chr2B 97.143 70 2 0 2135 2204 105358190 105358121 3.840000e-23 119.0
21 TraesCS7B01G106200 chr2B 97.143 70 2 0 2135 2204 105361400 105361331 3.840000e-23 119.0
22 TraesCS7B01G106200 chr4B 97.101 69 2 0 2136 2204 616745375 616745307 1.380000e-22 117.0
23 TraesCS7B01G106200 chr4B 95.714 70 3 0 2135 2204 71708058 71708127 1.790000e-21 113.0
24 TraesCS7B01G106200 chr3B 95.714 70 3 0 2135 2204 46994910 46994841 1.790000e-21 113.0
25 TraesCS7B01G106200 chr1B 95.714 70 3 0 2135 2204 549737337 549737406 1.790000e-21 113.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7B01G106200 chr7B 123277131 123279334 2203 True 4071.000 4071 100.0000 1 2204 1 chr7B.!!$R1 2203
1 TraesCS7B01G106200 chr7D 160977504 160980506 3002 True 1312.500 2290 89.6310 1 1869 2 chr7D.!!$R3 1868
2 TraesCS7B01G106200 chr7D 161057206 161060689 3483 True 220.500 222 84.9510 979 1206 2 chr7D.!!$R4 227
3 TraesCS7B01G106200 chr7A 162399884 162401000 1116 True 1583.000 1583 92.4510 443 1549 1 chr7A.!!$R2 1106
4 TraesCS7B01G106200 chr7A 162405061 162409197 4136 True 460.325 1338 93.4685 1 1272 4 chr7A.!!$R5 1271

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
435 437 0.110486 CCCTACCATCAAATCCCCGG 59.89 60.0 0.0 0.0 0.0 5.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1335 4637 0.109086 CTACGTGACAGCCTGAGTGG 60.109 60.0 0.0 0.0 39.35 4.0 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
49 50 5.610982 AGGCCTCACCATCAATATAACCTTA 59.389 40.000 0.00 0.00 43.14 2.69
156 157 2.468532 AACACTGCACAAAACTACGC 57.531 45.000 0.00 0.00 0.00 4.42
169 170 5.980715 ACAAAACTACGCAAAACCCTAATTG 59.019 36.000 0.00 0.00 0.00 2.32
185 186 5.127682 CCCTAATTGGATTTGGAGAAACTGG 59.872 44.000 3.26 0.00 37.34 4.00
226 227 2.289072 CCGACTCGGCCAAGATTATCAT 60.289 50.000 4.10 0.00 41.17 2.45
237 238 5.787380 CCAAGATTATCATCGATCAGACCA 58.213 41.667 0.00 0.00 34.17 4.02
238 239 5.868258 CCAAGATTATCATCGATCAGACCAG 59.132 44.000 0.00 0.00 34.17 4.00
243 245 2.728007 TCATCGATCAGACCAGTCAGT 58.272 47.619 0.00 0.00 0.00 3.41
314 316 6.836007 TGAGCGATCATCAGGATAGGTAATAT 59.164 38.462 0.00 0.00 39.09 1.28
353 355 2.684881 ACTAGATACGTACCAACCCACG 59.315 50.000 0.00 0.00 43.63 4.94
415 417 1.594862 GAATCGCTTCAACCATCCGAG 59.405 52.381 0.00 0.00 0.00 4.63
418 420 2.115291 GCTTCAACCATCCGAGCCC 61.115 63.158 0.00 0.00 0.00 5.19
422 424 1.146263 CAACCATCCGAGCCCTACC 59.854 63.158 0.00 0.00 0.00 3.18
435 437 0.110486 CCCTACCATCAAATCCCCGG 59.890 60.000 0.00 0.00 0.00 5.73
566 572 2.806244 AGTACAGTTAAAAGTGGCTGCG 59.194 45.455 0.00 0.00 33.62 5.18
600 611 2.285827 GACATGAACAGGTCCTCTCG 57.714 55.000 0.00 0.00 36.24 4.04
704 723 6.511416 CGTCTTAGAATCATTCCTGACTGAT 58.489 40.000 11.05 0.00 33.22 2.90
852 871 0.796312 CATATACGCATCGCCCCAAC 59.204 55.000 0.00 0.00 0.00 3.77
1221 4506 4.039730 CCCTGACCTGTGTAATCTATCCAG 59.960 50.000 0.00 0.00 0.00 3.86
1280 4582 1.065701 ACTCAGTCGTGCGCTTATAGG 59.934 52.381 9.73 0.00 0.00 2.57
1324 4626 1.067416 GCGTCGCTATGATCACCCA 59.933 57.895 10.68 0.00 0.00 4.51
1335 4637 1.140852 TGATCACCCATCATTCCGTCC 59.859 52.381 0.00 0.00 36.51 4.79
1368 4670 3.302699 GTCACGTAGTTAATGGTCGAAGC 59.697 47.826 0.00 0.00 41.61 3.86
1387 4693 7.596995 GTCGAAGCAGTGCTCTTATTCTATTAT 59.403 37.037 20.03 0.00 38.25 1.28
1388 4694 8.793592 TCGAAGCAGTGCTCTTATTCTATTATA 58.206 33.333 20.03 0.00 38.25 0.98
1430 4737 6.444633 CGGGTTGTATAGTCTATCGTTTGAT 58.555 40.000 0.00 0.00 38.67 2.57
1485 4792 7.826690 TGGGAAACAATTATTCTTTCTACTGC 58.173 34.615 5.85 0.00 0.00 4.40
1486 4793 7.450014 TGGGAAACAATTATTCTTTCTACTGCA 59.550 33.333 5.85 0.00 0.00 4.41
1511 4907 9.111613 CACAGGTCCGGTTTATTGTATTATTTA 57.888 33.333 0.00 0.00 0.00 1.40
1567 6602 5.613358 AGTAGCTTTGTAATGCAACAGTC 57.387 39.130 0.00 0.00 36.72 3.51
1621 6656 9.743057 CAAGTCAACATTTACCTATTCACAAAA 57.257 29.630 0.00 0.00 0.00 2.44
1652 6701 5.648178 TGTTCAGCTTTGTAATGCATCAT 57.352 34.783 0.00 0.00 0.00 2.45
1656 6705 2.039085 GCTTTGTAATGCATCATCGCG 58.961 47.619 0.00 0.00 33.35 5.87
1667 6716 3.874543 TGCATCATCGCGGTTTAAATAGT 59.125 39.130 6.13 0.00 33.35 2.12
1709 6762 2.556622 CCGGTGTTTCTGGCTACAAAAT 59.443 45.455 0.00 0.00 35.61 1.82
1712 6765 4.378459 CGGTGTTTCTGGCTACAAAATCTC 60.378 45.833 0.00 0.00 0.00 2.75
1724 6777 3.009723 ACAAAATCTCGCCATCGACAAT 58.990 40.909 0.00 0.00 40.21 2.71
1775 6828 3.272334 CTGGATTACCGCGGCTGC 61.272 66.667 28.58 16.32 39.42 5.25
1783 6836 0.387878 TACCGCGGCTGCAAAAATTG 60.388 50.000 28.58 0.00 42.97 2.32
1797 6851 5.908240 CAAAAATTGCGACCTATTGTACG 57.092 39.130 0.00 0.00 0.00 3.67
1805 6859 2.664015 GACCTATTGTACGGGGACTCT 58.336 52.381 0.00 0.00 0.00 3.24
1822 6929 6.273495 GGGGACTCTGGGAGAATAAAATATCT 59.727 42.308 1.31 0.00 33.32 1.98
1845 6952 8.168790 TCTTGTATTAAGGGGTTTTGTAACAC 57.831 34.615 0.00 0.00 36.92 3.32
1878 6985 7.823149 TTCTCCTCTTAATTAGTAAACGTGC 57.177 36.000 0.00 0.00 0.00 5.34
1879 6986 6.335777 TCTCCTCTTAATTAGTAAACGTGCC 58.664 40.000 0.00 0.00 0.00 5.01
1880 6987 6.154021 TCTCCTCTTAATTAGTAAACGTGCCT 59.846 38.462 0.00 0.00 0.00 4.75
1881 6988 6.335777 TCCTCTTAATTAGTAAACGTGCCTC 58.664 40.000 0.00 0.00 0.00 4.70
1882 6989 5.522824 CCTCTTAATTAGTAAACGTGCCTCC 59.477 44.000 0.00 0.00 0.00 4.30
1883 6990 6.040209 TCTTAATTAGTAAACGTGCCTCCA 57.960 37.500 0.00 0.00 0.00 3.86
1884 6991 6.646267 TCTTAATTAGTAAACGTGCCTCCAT 58.354 36.000 0.00 0.00 0.00 3.41
1885 6992 7.107542 TCTTAATTAGTAAACGTGCCTCCATT 58.892 34.615 0.00 0.00 0.00 3.16
1886 6993 7.608761 TCTTAATTAGTAAACGTGCCTCCATTT 59.391 33.333 0.00 0.00 0.00 2.32
1887 6994 6.584185 AATTAGTAAACGTGCCTCCATTTT 57.416 33.333 0.00 0.00 0.00 1.82
1888 6995 7.690952 AATTAGTAAACGTGCCTCCATTTTA 57.309 32.000 0.00 0.00 0.00 1.52
1889 6996 6.730960 TTAGTAAACGTGCCTCCATTTTAG 57.269 37.500 0.00 0.00 0.00 1.85
1890 6997 4.901868 AGTAAACGTGCCTCCATTTTAGA 58.098 39.130 0.00 0.00 0.00 2.10
1891 6998 5.310451 AGTAAACGTGCCTCCATTTTAGAA 58.690 37.500 0.00 0.00 0.00 2.10
1892 6999 5.766174 AGTAAACGTGCCTCCATTTTAGAAA 59.234 36.000 0.00 0.00 0.00 2.52
1893 7000 5.523438 AAACGTGCCTCCATTTTAGAAAA 57.477 34.783 0.00 0.00 0.00 2.29
1894 7001 5.523438 AACGTGCCTCCATTTTAGAAAAA 57.477 34.783 0.00 0.00 0.00 1.94
1924 7031 9.831737 CTTGTTATATTTTGTTGAGAACTCAGG 57.168 33.333 4.72 0.00 41.13 3.86
1925 7032 8.335532 TGTTATATTTTGTTGAGAACTCAGGG 57.664 34.615 4.72 0.00 41.13 4.45
1926 7033 5.904362 ATATTTTGTTGAGAACTCAGGGC 57.096 39.130 4.72 1.63 41.13 5.19
1927 7034 3.297134 TTTTGTTGAGAACTCAGGGCT 57.703 42.857 4.72 0.00 41.13 5.19
1928 7035 3.297134 TTTGTTGAGAACTCAGGGCTT 57.703 42.857 4.72 0.00 41.13 4.35
1929 7036 2.260844 TGTTGAGAACTCAGGGCTTG 57.739 50.000 4.72 0.00 41.13 4.01
1930 7037 0.877743 GTTGAGAACTCAGGGCTTGC 59.122 55.000 4.72 0.00 41.13 4.01
1931 7038 0.473755 TTGAGAACTCAGGGCTTGCA 59.526 50.000 4.72 0.00 41.13 4.08
1932 7039 0.473755 TGAGAACTCAGGGCTTGCAA 59.526 50.000 0.00 0.00 34.14 4.08
1933 7040 1.074405 TGAGAACTCAGGGCTTGCAAT 59.926 47.619 0.00 0.00 34.14 3.56
1934 7041 2.305635 TGAGAACTCAGGGCTTGCAATA 59.694 45.455 0.00 0.00 34.14 1.90
1935 7042 3.244875 TGAGAACTCAGGGCTTGCAATAA 60.245 43.478 0.00 0.00 34.14 1.40
1936 7043 3.950395 GAGAACTCAGGGCTTGCAATAAT 59.050 43.478 0.00 0.00 0.00 1.28
1937 7044 3.698040 AGAACTCAGGGCTTGCAATAATG 59.302 43.478 0.00 0.00 0.00 1.90
1938 7045 2.381911 ACTCAGGGCTTGCAATAATGG 58.618 47.619 0.00 0.00 0.00 3.16
1939 7046 2.291800 ACTCAGGGCTTGCAATAATGGT 60.292 45.455 0.00 0.00 0.00 3.55
1940 7047 2.360165 CTCAGGGCTTGCAATAATGGTC 59.640 50.000 0.00 0.00 0.00 4.02
1941 7048 2.025037 TCAGGGCTTGCAATAATGGTCT 60.025 45.455 0.00 0.00 0.00 3.85
1942 7049 3.201930 TCAGGGCTTGCAATAATGGTCTA 59.798 43.478 0.00 0.00 0.00 2.59
1943 7050 4.141181 TCAGGGCTTGCAATAATGGTCTAT 60.141 41.667 0.00 0.00 0.00 1.98
1944 7051 4.586001 CAGGGCTTGCAATAATGGTCTATT 59.414 41.667 0.00 0.00 0.00 1.73
1945 7052 5.769662 CAGGGCTTGCAATAATGGTCTATTA 59.230 40.000 0.00 0.00 35.79 0.98
1946 7053 6.265196 CAGGGCTTGCAATAATGGTCTATTAA 59.735 38.462 0.00 0.00 35.03 1.40
1947 7054 6.491403 AGGGCTTGCAATAATGGTCTATTAAG 59.509 38.462 0.00 0.00 35.03 1.85
1948 7055 6.152379 GGCTTGCAATAATGGTCTATTAAGC 58.848 40.000 0.00 0.00 34.72 3.09
1949 7056 6.152379 GCTTGCAATAATGGTCTATTAAGCC 58.848 40.000 0.00 0.00 36.39 4.35
1950 7057 5.940192 TGCAATAATGGTCTATTAAGCCG 57.060 39.130 11.57 0.00 36.39 5.52
1951 7058 5.373222 TGCAATAATGGTCTATTAAGCCGT 58.627 37.500 11.57 0.00 36.39 5.68
1952 7059 5.238432 TGCAATAATGGTCTATTAAGCCGTG 59.762 40.000 11.57 1.20 36.39 4.94
1953 7060 5.238650 GCAATAATGGTCTATTAAGCCGTGT 59.761 40.000 5.82 0.00 35.03 4.49
1954 7061 6.425721 GCAATAATGGTCTATTAAGCCGTGTA 59.574 38.462 5.82 0.00 35.03 2.90
1955 7062 7.570691 GCAATAATGGTCTATTAAGCCGTGTAC 60.571 40.741 5.82 0.00 35.03 2.90
1956 7063 5.347620 AATGGTCTATTAAGCCGTGTACA 57.652 39.130 0.00 0.00 0.00 2.90
1957 7064 4.804868 TGGTCTATTAAGCCGTGTACAA 57.195 40.909 0.00 0.00 0.00 2.41
1958 7065 4.751060 TGGTCTATTAAGCCGTGTACAAG 58.249 43.478 0.00 0.00 0.00 3.16
1959 7066 4.117685 GGTCTATTAAGCCGTGTACAAGG 58.882 47.826 22.02 22.02 0.00 3.61
1960 7067 4.142093 GGTCTATTAAGCCGTGTACAAGGA 60.142 45.833 29.16 10.44 31.21 3.36
1961 7068 5.413499 GTCTATTAAGCCGTGTACAAGGAA 58.587 41.667 29.16 15.91 31.21 3.36
1962 7069 5.870978 GTCTATTAAGCCGTGTACAAGGAAA 59.129 40.000 29.16 19.05 31.21 3.13
1963 7070 6.035758 GTCTATTAAGCCGTGTACAAGGAAAG 59.964 42.308 29.16 15.51 31.21 2.62
1964 7071 2.922740 AAGCCGTGTACAAGGAAAGA 57.077 45.000 29.16 0.00 31.21 2.52
1965 7072 3.418684 AAGCCGTGTACAAGGAAAGAT 57.581 42.857 29.16 8.41 31.21 2.40
1966 7073 2.699954 AGCCGTGTACAAGGAAAGATG 58.300 47.619 29.16 3.54 31.21 2.90
1967 7074 1.130561 GCCGTGTACAAGGAAAGATGC 59.869 52.381 29.16 9.72 31.21 3.91
1968 7075 2.699954 CCGTGTACAAGGAAAGATGCT 58.300 47.619 21.87 0.00 31.21 3.79
1969 7076 3.074412 CCGTGTACAAGGAAAGATGCTT 58.926 45.455 21.87 0.00 37.77 3.91
1970 7077 4.250464 CCGTGTACAAGGAAAGATGCTTA 58.750 43.478 21.87 0.00 34.65 3.09
1971 7078 4.330074 CCGTGTACAAGGAAAGATGCTTAG 59.670 45.833 21.87 0.00 34.65 2.18
1972 7079 5.168569 CGTGTACAAGGAAAGATGCTTAGA 58.831 41.667 0.00 0.00 34.65 2.10
1973 7080 5.812642 CGTGTACAAGGAAAGATGCTTAGAT 59.187 40.000 0.00 0.00 34.65 1.98
1974 7081 6.237942 CGTGTACAAGGAAAGATGCTTAGATG 60.238 42.308 0.00 0.00 34.65 2.90
1975 7082 6.595716 GTGTACAAGGAAAGATGCTTAGATGT 59.404 38.462 0.00 0.00 34.65 3.06
1976 7083 6.595326 TGTACAAGGAAAGATGCTTAGATGTG 59.405 38.462 0.00 0.00 34.65 3.21
1977 7084 4.397417 ACAAGGAAAGATGCTTAGATGTGC 59.603 41.667 0.00 0.00 34.65 4.57
1978 7085 4.500499 AGGAAAGATGCTTAGATGTGCT 57.500 40.909 0.00 0.00 0.00 4.40
1979 7086 4.853007 AGGAAAGATGCTTAGATGTGCTT 58.147 39.130 0.00 0.00 0.00 3.91
1980 7087 5.994250 AGGAAAGATGCTTAGATGTGCTTA 58.006 37.500 0.00 0.00 0.00 3.09
1981 7088 6.599445 AGGAAAGATGCTTAGATGTGCTTAT 58.401 36.000 0.00 0.00 0.00 1.73
1982 7089 6.485984 AGGAAAGATGCTTAGATGTGCTTATG 59.514 38.462 0.00 0.00 0.00 1.90
1983 7090 6.484643 GGAAAGATGCTTAGATGTGCTTATGA 59.515 38.462 0.00 0.00 0.00 2.15
1984 7091 7.012704 GGAAAGATGCTTAGATGTGCTTATGAA 59.987 37.037 0.00 0.00 0.00 2.57
1985 7092 7.870509 AAGATGCTTAGATGTGCTTATGAAA 57.129 32.000 0.00 0.00 0.00 2.69
1986 7093 7.870509 AGATGCTTAGATGTGCTTATGAAAA 57.129 32.000 0.00 0.00 0.00 2.29
1987 7094 7.701445 AGATGCTTAGATGTGCTTATGAAAAC 58.299 34.615 0.00 0.00 0.00 2.43
1988 7095 5.868257 TGCTTAGATGTGCTTATGAAAACG 58.132 37.500 0.00 0.00 0.00 3.60
1989 7096 5.641636 TGCTTAGATGTGCTTATGAAAACGA 59.358 36.000 0.00 0.00 0.00 3.85
1990 7097 6.148645 TGCTTAGATGTGCTTATGAAAACGAA 59.851 34.615 0.00 0.00 0.00 3.85
1991 7098 7.021196 GCTTAGATGTGCTTATGAAAACGAAA 58.979 34.615 0.00 0.00 0.00 3.46
1992 7099 7.007456 GCTTAGATGTGCTTATGAAAACGAAAC 59.993 37.037 0.00 0.00 0.00 2.78
1993 7100 5.699839 AGATGTGCTTATGAAAACGAAACC 58.300 37.500 0.00 0.00 0.00 3.27
1994 7101 4.231718 TGTGCTTATGAAAACGAAACCC 57.768 40.909 0.00 0.00 0.00 4.11
1995 7102 3.886505 TGTGCTTATGAAAACGAAACCCT 59.113 39.130 0.00 0.00 0.00 4.34
1996 7103 4.339814 TGTGCTTATGAAAACGAAACCCTT 59.660 37.500 0.00 0.00 0.00 3.95
1997 7104 5.163499 TGTGCTTATGAAAACGAAACCCTTT 60.163 36.000 0.00 0.00 0.00 3.11
1998 7105 5.751509 GTGCTTATGAAAACGAAACCCTTTT 59.248 36.000 0.00 0.00 0.00 2.27
1999 7106 6.256975 GTGCTTATGAAAACGAAACCCTTTTT 59.743 34.615 0.00 0.00 0.00 1.94
2028 7135 6.801377 GCATATTTGCTTATTTGTATAGCGCA 59.199 34.615 11.47 0.00 45.77 6.09
2029 7136 7.485913 GCATATTTGCTTATTTGTATAGCGCAT 59.514 33.333 11.47 3.63 45.77 4.73
2030 7137 9.986833 CATATTTGCTTATTTGTATAGCGCATA 57.013 29.630 11.47 2.51 30.04 3.14
2034 7141 7.905604 TGCTTATTTGTATAGCGCATATTCT 57.094 32.000 11.47 0.00 0.00 2.40
2035 7142 8.322906 TGCTTATTTGTATAGCGCATATTCTT 57.677 30.769 11.47 0.00 0.00 2.52
2037 7144 9.690434 GCTTATTTGTATAGCGCATATTCTTAC 57.310 33.333 11.47 0.98 0.00 2.34
2043 7150 9.622004 TTGTATAGCGCATATTCTTACTTAGAC 57.378 33.333 11.47 0.00 30.90 2.59
2044 7151 8.789762 TGTATAGCGCATATTCTTACTTAGACA 58.210 33.333 11.47 0.00 30.90 3.41
2048 7155 7.087639 AGCGCATATTCTTACTTAGACATCTC 58.912 38.462 11.47 0.00 30.90 2.75
2049 7156 7.040062 AGCGCATATTCTTACTTAGACATCTCT 60.040 37.037 11.47 0.00 30.90 3.10
2050 7157 7.596995 GCGCATATTCTTACTTAGACATCTCTT 59.403 37.037 0.30 0.00 30.90 2.85
2051 7158 9.123709 CGCATATTCTTACTTAGACATCTCTTC 57.876 37.037 0.00 0.00 30.90 2.87
2068 7175 8.355272 CATCTCTTCTATAGATGCATGCATAC 57.645 38.462 32.27 23.56 42.73 2.39
2069 7176 7.472334 TCTCTTCTATAGATGCATGCATACA 57.528 36.000 32.27 22.39 36.70 2.29
2070 7177 8.075761 TCTCTTCTATAGATGCATGCATACAT 57.924 34.615 32.27 26.70 36.70 2.29
2071 7178 7.980099 TCTCTTCTATAGATGCATGCATACATG 59.020 37.037 32.27 20.06 43.38 3.21
2105 7646 8.816640 AAAAATTGATTGAGTTTTACGAGCAT 57.183 26.923 0.00 0.00 0.00 3.79
2107 7648 6.992063 ATTGATTGAGTTTTACGAGCATCT 57.008 33.333 0.00 0.00 0.00 2.90
2108 7649 6.408858 TTGATTGAGTTTTACGAGCATCTC 57.591 37.500 0.00 0.00 0.00 2.75
2112 7653 6.510879 TTGAGTTTTACGAGCATCTCTCTA 57.489 37.500 0.00 0.00 39.70 2.43
2113 7654 6.510879 TGAGTTTTACGAGCATCTCTCTAA 57.489 37.500 0.00 0.00 39.70 2.10
2116 7657 7.101652 AGTTTTACGAGCATCTCTCTAATCA 57.898 36.000 0.00 0.00 39.70 2.57
2121 7662 5.771469 ACGAGCATCTCTCTAATCATCTTG 58.229 41.667 0.00 0.00 39.70 3.02
2122 7663 4.622313 CGAGCATCTCTCTAATCATCTTGC 59.378 45.833 0.00 0.00 39.70 4.01
2123 7664 5.539979 GAGCATCTCTCTAATCATCTTGCA 58.460 41.667 0.00 0.00 38.78 4.08
2130 7671 9.842775 ATCTCTCTAATCATCTTGCATTTTACA 57.157 29.630 0.00 0.00 0.00 2.41
2131 7672 9.842775 TCTCTCTAATCATCTTGCATTTTACAT 57.157 29.630 0.00 0.00 0.00 2.29
2139 7680 9.836864 ATCATCTTGCATTTTACATAGTCACTA 57.163 29.630 0.00 0.00 0.00 2.74
2143 7684 9.803315 TCTTGCATTTTACATAGTCACTAGTAG 57.197 33.333 0.00 0.00 0.00 2.57
2152 7693 7.184067 ACATAGTCACTAGTAGAAAAAGGGG 57.816 40.000 3.59 0.00 0.00 4.79
2153 7694 4.554960 AGTCACTAGTAGAAAAAGGGGC 57.445 45.455 3.59 0.00 0.00 5.80
2154 7695 3.908103 AGTCACTAGTAGAAAAAGGGGCA 59.092 43.478 3.59 0.00 0.00 5.36
2155 7696 4.349930 AGTCACTAGTAGAAAAAGGGGCAA 59.650 41.667 3.59 0.00 0.00 4.52
2156 7697 5.067954 GTCACTAGTAGAAAAAGGGGCAAA 58.932 41.667 3.59 0.00 0.00 3.68
2157 7698 5.710567 GTCACTAGTAGAAAAAGGGGCAAAT 59.289 40.000 3.59 0.00 0.00 2.32
2158 7699 5.944007 TCACTAGTAGAAAAAGGGGCAAATC 59.056 40.000 3.59 0.00 0.00 2.17
2159 7700 5.946377 CACTAGTAGAAAAAGGGGCAAATCT 59.054 40.000 3.59 0.00 0.00 2.40
2160 7701 5.946377 ACTAGTAGAAAAAGGGGCAAATCTG 59.054 40.000 3.59 0.00 0.00 2.90
2162 7703 5.012893 AGTAGAAAAAGGGGCAAATCTGAG 58.987 41.667 0.00 0.00 0.00 3.35
2163 7704 4.118168 AGAAAAAGGGGCAAATCTGAGA 57.882 40.909 0.00 0.00 0.00 3.27
2164 7705 4.482990 AGAAAAAGGGGCAAATCTGAGAA 58.517 39.130 0.00 0.00 0.00 2.87
2165 7706 4.901250 AGAAAAAGGGGCAAATCTGAGAAA 59.099 37.500 0.00 0.00 0.00 2.52
2167 7708 2.978156 AGGGGCAAATCTGAGAAACA 57.022 45.000 0.00 0.00 0.00 2.83
2168 7709 3.463048 AGGGGCAAATCTGAGAAACAT 57.537 42.857 0.00 0.00 0.00 2.71
2169 7710 3.782992 AGGGGCAAATCTGAGAAACATT 58.217 40.909 0.00 0.00 0.00 2.71
2170 7711 4.934356 AGGGGCAAATCTGAGAAACATTA 58.066 39.130 0.00 0.00 0.00 1.90
2171 7712 5.332743 AGGGGCAAATCTGAGAAACATTAA 58.667 37.500 0.00 0.00 0.00 1.40
2172 7713 5.960202 AGGGGCAAATCTGAGAAACATTAAT 59.040 36.000 0.00 0.00 0.00 1.40
2174 7715 7.068716 AGGGGCAAATCTGAGAAACATTAATAC 59.931 37.037 0.00 0.00 0.00 1.89
2175 7716 7.203218 GGGCAAATCTGAGAAACATTAATACC 58.797 38.462 0.00 0.00 0.00 2.73
2176 7717 6.912591 GGCAAATCTGAGAAACATTAATACCG 59.087 38.462 0.00 0.00 0.00 4.02
2178 7719 7.415206 GCAAATCTGAGAAACATTAATACCGGT 60.415 37.037 13.98 13.98 0.00 5.28
2180 7721 8.575649 AATCTGAGAAACATTAATACCGGTTT 57.424 30.769 15.04 9.90 36.27 3.27
2181 7722 7.372451 TCTGAGAAACATTAATACCGGTTTG 57.628 36.000 15.04 6.01 33.92 2.93
2182 7723 5.945155 TGAGAAACATTAATACCGGTTTGC 58.055 37.500 15.04 0.00 33.92 3.68
2183 7724 5.473846 TGAGAAACATTAATACCGGTTTGCA 59.526 36.000 15.04 0.00 33.92 4.08
2185 7726 7.337184 TGAGAAACATTAATACCGGTTTGCATA 59.663 33.333 15.04 0.00 33.92 3.14
2187 7728 8.134895 AGAAACATTAATACCGGTTTGCATATG 58.865 33.333 15.04 12.00 33.92 1.78
2188 7729 7.575414 AACATTAATACCGGTTTGCATATGA 57.425 32.000 15.04 0.00 0.00 2.15
2190 7731 5.682943 TTAATACCGGTTTGCATATGAGC 57.317 39.130 15.04 0.00 0.00 4.26
2191 7732 1.961793 TACCGGTTTGCATATGAGCC 58.038 50.000 15.04 0.00 0.00 4.70
2192 7733 1.095228 ACCGGTTTGCATATGAGCCG 61.095 55.000 0.00 9.67 38.99 5.52
2193 7734 1.648720 CGGTTTGCATATGAGCCGG 59.351 57.895 6.97 0.00 36.05 6.13
2194 7735 1.360192 GGTTTGCATATGAGCCGGC 59.640 57.895 21.89 21.89 0.00 6.13
2195 7736 1.383456 GGTTTGCATATGAGCCGGCA 61.383 55.000 31.54 9.64 0.00 5.69
2196 7737 0.670162 GTTTGCATATGAGCCGGCAT 59.330 50.000 31.54 17.37 35.98 4.40
2197 7738 1.067516 GTTTGCATATGAGCCGGCATT 59.932 47.619 31.54 15.25 35.98 3.56
2198 7739 2.268762 TTGCATATGAGCCGGCATTA 57.731 45.000 31.54 17.08 35.98 1.90
2200 7741 2.794103 TGCATATGAGCCGGCATTAAT 58.206 42.857 31.54 17.90 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
49 50 7.595819 TTTTTGTTGGTAATGGAGTGAATCT 57.404 32.000 0.00 0.00 0.00 2.40
169 170 4.657013 AGAGTTCCAGTTTCTCCAAATCC 58.343 43.478 0.00 0.00 0.00 3.01
185 186 3.707793 GGTACATGACCGATGAGAGTTC 58.292 50.000 0.00 0.00 38.87 3.01
226 227 3.271729 GACTACTGACTGGTCTGATCGA 58.728 50.000 13.13 0.00 33.48 3.59
237 238 1.711375 TGGAGTGGAGGACTACTGACT 59.289 52.381 0.00 0.00 37.94 3.41
238 239 1.819903 GTGGAGTGGAGGACTACTGAC 59.180 57.143 0.00 0.00 37.94 3.51
243 245 1.623811 GCAAAGTGGAGTGGAGGACTA 59.376 52.381 0.00 0.00 33.83 2.59
302 304 4.157289 TCGAAGCGGACATATTACCTATCC 59.843 45.833 0.00 0.00 0.00 2.59
314 316 2.261671 GCCTTCTCGAAGCGGACA 59.738 61.111 1.13 0.00 37.11 4.02
353 355 2.202479 GCATCGCAAACCTTCGGC 60.202 61.111 0.00 0.00 0.00 5.54
376 378 2.131972 TCGATCGTGTGTTTTGGACTG 58.868 47.619 15.94 0.00 0.00 3.51
406 408 1.074471 ATGGTAGGGCTCGGATGGT 60.074 57.895 0.00 0.00 0.00 3.55
415 417 0.537371 CGGGGATTTGATGGTAGGGC 60.537 60.000 0.00 0.00 0.00 5.19
418 420 2.297701 CAACCGGGGATTTGATGGTAG 58.702 52.381 6.32 0.00 31.36 3.18
422 424 1.102978 GACCAACCGGGGATTTGATG 58.897 55.000 6.32 0.00 42.91 3.07
549 555 1.601903 TCACGCAGCCACTTTTAACTG 59.398 47.619 0.00 0.00 0.00 3.16
566 572 3.476552 TCATGTCCTCTTGTTTGGTCAC 58.523 45.455 0.00 0.00 0.00 3.67
704 723 4.411869 TCATTGCCAGGATGTTACAGGATA 59.588 41.667 0.00 0.00 0.00 2.59
806 825 7.282332 TGCATCTGTAGCTATATATAGGCTG 57.718 40.000 19.19 7.03 0.00 4.85
1221 4506 2.513897 CCCCGCACCCGAAATCTC 60.514 66.667 0.00 0.00 36.29 2.75
1280 4582 0.179163 GGCAGCACGCAATAAGGTTC 60.179 55.000 0.00 0.00 45.17 3.62
1324 4626 0.833287 CCTGAGTGGGACGGAATGAT 59.167 55.000 0.00 0.00 0.00 2.45
1335 4637 0.109086 CTACGTGACAGCCTGAGTGG 60.109 60.000 0.00 0.00 39.35 4.00
1387 4693 7.067615 ACAACCCGCAACAAACAATATGATATA 59.932 33.333 0.00 0.00 0.00 0.86
1388 4694 6.127479 ACAACCCGCAACAAACAATATGATAT 60.127 34.615 0.00 0.00 0.00 1.63
1395 4702 4.521256 ACTATACAACCCGCAACAAACAAT 59.479 37.500 0.00 0.00 0.00 2.71
1398 4705 3.749609 AGACTATACAACCCGCAACAAAC 59.250 43.478 0.00 0.00 0.00 2.93
1440 4747 5.186797 TCCCAGAGCAAAAACTCAAAAAGAA 59.813 36.000 0.00 0.00 39.26 2.52
1457 4764 9.454859 AGTAGAAAGAATAATTGTTTCCCAGAG 57.545 33.333 0.00 0.00 42.13 3.35
1485 4792 7.562454 AATAATACAATAAACCGGACCTGTG 57.438 36.000 9.46 2.72 0.00 3.66
1486 4793 9.856162 ATAAATAATACAATAAACCGGACCTGT 57.144 29.630 9.46 6.56 0.00 4.00
1511 4907 2.668144 TGAACCGTCCCCTCAAAAAT 57.332 45.000 0.00 0.00 0.00 1.82
1544 4940 5.334105 CGACTGTTGCATTACAAAGCTACTT 60.334 40.000 0.00 0.00 40.82 2.24
1564 6599 7.545965 CCACTTCTTCAAATCATTACTACGACT 59.454 37.037 0.00 0.00 0.00 4.18
1567 6602 7.827819 TCCACTTCTTCAAATCATTACTACG 57.172 36.000 0.00 0.00 0.00 3.51
1625 6660 5.659463 TGCATTACAAAGCTGAACAACTTT 58.341 33.333 0.00 0.00 36.56 2.66
1626 6661 5.261209 TGCATTACAAAGCTGAACAACTT 57.739 34.783 0.00 0.00 0.00 2.66
1627 6662 4.916983 TGCATTACAAAGCTGAACAACT 57.083 36.364 0.00 0.00 0.00 3.16
1628 6663 5.221880 TGATGCATTACAAAGCTGAACAAC 58.778 37.500 0.00 0.00 0.00 3.32
1629 6664 5.450592 TGATGCATTACAAAGCTGAACAA 57.549 34.783 0.00 0.00 0.00 2.83
1637 6685 2.032054 ACCGCGATGATGCATTACAAAG 59.968 45.455 8.23 0.00 34.15 2.77
1652 6701 6.019640 GTGCACTTATACTATTTAAACCGCGA 60.020 38.462 8.23 0.00 0.00 5.87
1656 6705 9.783256 CTTTGGTGCACTTATACTATTTAAACC 57.217 33.333 17.98 0.00 0.00 3.27
1667 6716 4.076394 GGTGTTCCTTTGGTGCACTTATA 58.924 43.478 17.98 0.95 32.56 0.98
1712 6765 0.234106 GAGCATGATTGTCGATGGCG 59.766 55.000 0.00 0.00 39.35 5.69
1775 6828 4.791163 CCGTACAATAGGTCGCAATTTTTG 59.209 41.667 0.00 0.00 0.00 2.44
1783 6836 0.249197 GTCCCCGTACAATAGGTCGC 60.249 60.000 0.00 0.00 0.00 5.19
1784 6837 1.336125 GAGTCCCCGTACAATAGGTCG 59.664 57.143 0.00 0.00 0.00 4.79
1785 6838 2.361438 CAGAGTCCCCGTACAATAGGTC 59.639 54.545 0.00 0.00 0.00 3.85
1786 6839 2.385803 CAGAGTCCCCGTACAATAGGT 58.614 52.381 0.00 0.00 0.00 3.08
1787 6840 1.687123 CCAGAGTCCCCGTACAATAGG 59.313 57.143 0.00 0.00 0.00 2.57
1797 6851 4.797912 ATTTTATTCTCCCAGAGTCCCC 57.202 45.455 0.00 0.00 0.00 4.81
1822 6929 7.893124 TGTGTTACAAAACCCCTTAATACAA 57.107 32.000 0.00 0.00 34.49 2.41
1866 6973 6.465948 TCTAAAATGGAGGCACGTTTACTAA 58.534 36.000 0.00 0.00 0.00 2.24
1869 6976 5.616488 TTCTAAAATGGAGGCACGTTTAC 57.384 39.130 0.00 0.00 0.00 2.01
1870 6977 6.636562 TTTTCTAAAATGGAGGCACGTTTA 57.363 33.333 0.00 0.00 0.00 2.01
1871 6978 5.523438 TTTTCTAAAATGGAGGCACGTTT 57.477 34.783 0.00 0.00 0.00 3.60
1872 6979 5.523438 TTTTTCTAAAATGGAGGCACGTT 57.477 34.783 0.00 0.00 0.00 3.99
1898 7005 9.831737 CCTGAGTTCTCAACAAAATATAACAAG 57.168 33.333 4.09 0.00 0.00 3.16
1899 7006 8.792633 CCCTGAGTTCTCAACAAAATATAACAA 58.207 33.333 4.09 0.00 0.00 2.83
1900 7007 7.094377 GCCCTGAGTTCTCAACAAAATATAACA 60.094 37.037 4.09 0.00 0.00 2.41
1901 7008 7.121315 AGCCCTGAGTTCTCAACAAAATATAAC 59.879 37.037 4.09 0.00 0.00 1.89
1902 7009 7.175104 AGCCCTGAGTTCTCAACAAAATATAA 58.825 34.615 4.09 0.00 0.00 0.98
1903 7010 6.721318 AGCCCTGAGTTCTCAACAAAATATA 58.279 36.000 4.09 0.00 0.00 0.86
1904 7011 5.574188 AGCCCTGAGTTCTCAACAAAATAT 58.426 37.500 4.09 0.00 0.00 1.28
1905 7012 4.985538 AGCCCTGAGTTCTCAACAAAATA 58.014 39.130 4.09 0.00 0.00 1.40
1906 7013 3.837355 AGCCCTGAGTTCTCAACAAAAT 58.163 40.909 4.09 0.00 0.00 1.82
1907 7014 3.297134 AGCCCTGAGTTCTCAACAAAA 57.703 42.857 4.09 0.00 0.00 2.44
1908 7015 2.951642 CAAGCCCTGAGTTCTCAACAAA 59.048 45.455 4.09 0.00 0.00 2.83
1909 7016 2.575532 CAAGCCCTGAGTTCTCAACAA 58.424 47.619 4.09 0.00 0.00 2.83
1910 7017 1.815408 GCAAGCCCTGAGTTCTCAACA 60.815 52.381 4.09 0.00 0.00 3.33
1911 7018 0.877743 GCAAGCCCTGAGTTCTCAAC 59.122 55.000 4.09 0.00 0.00 3.18
1912 7019 0.473755 TGCAAGCCCTGAGTTCTCAA 59.526 50.000 4.09 0.00 0.00 3.02
1913 7020 0.473755 TTGCAAGCCCTGAGTTCTCA 59.526 50.000 0.00 2.49 0.00 3.27
1914 7021 1.831580 ATTGCAAGCCCTGAGTTCTC 58.168 50.000 4.94 0.00 0.00 2.87
1915 7022 3.439857 TTATTGCAAGCCCTGAGTTCT 57.560 42.857 4.94 0.00 0.00 3.01
1916 7023 3.181483 CCATTATTGCAAGCCCTGAGTTC 60.181 47.826 4.94 0.00 0.00 3.01
1917 7024 2.762327 CCATTATTGCAAGCCCTGAGTT 59.238 45.455 4.94 0.00 0.00 3.01
1918 7025 2.291800 ACCATTATTGCAAGCCCTGAGT 60.292 45.455 4.94 0.00 0.00 3.41
1919 7026 2.360165 GACCATTATTGCAAGCCCTGAG 59.640 50.000 4.94 0.00 0.00 3.35
1920 7027 2.025037 AGACCATTATTGCAAGCCCTGA 60.025 45.455 4.94 0.00 0.00 3.86
1921 7028 2.381911 AGACCATTATTGCAAGCCCTG 58.618 47.619 4.94 0.00 0.00 4.45
1922 7029 2.834638 AGACCATTATTGCAAGCCCT 57.165 45.000 4.94 0.00 0.00 5.19
1923 7030 6.648879 TTAATAGACCATTATTGCAAGCCC 57.351 37.500 4.94 0.00 0.00 5.19
1924 7031 6.152379 GCTTAATAGACCATTATTGCAAGCC 58.848 40.000 4.94 0.00 33.01 4.35
1925 7032 6.152379 GGCTTAATAGACCATTATTGCAAGC 58.848 40.000 4.94 0.00 35.65 4.01
1926 7033 6.017109 ACGGCTTAATAGACCATTATTGCAAG 60.017 38.462 4.94 0.00 33.84 4.01
1927 7034 5.825679 ACGGCTTAATAGACCATTATTGCAA 59.174 36.000 0.00 0.00 33.84 4.08
1928 7035 5.238432 CACGGCTTAATAGACCATTATTGCA 59.762 40.000 0.00 0.00 33.84 4.08
1929 7036 5.238650 ACACGGCTTAATAGACCATTATTGC 59.761 40.000 0.00 0.00 32.57 3.56
1930 7037 6.861065 ACACGGCTTAATAGACCATTATTG 57.139 37.500 0.00 0.00 0.00 1.90
1931 7038 7.502696 TGTACACGGCTTAATAGACCATTATT 58.497 34.615 0.00 0.00 0.00 1.40
1932 7039 7.058023 TGTACACGGCTTAATAGACCATTAT 57.942 36.000 0.00 0.00 0.00 1.28
1933 7040 6.468333 TGTACACGGCTTAATAGACCATTA 57.532 37.500 0.00 0.00 0.00 1.90
1934 7041 5.347620 TGTACACGGCTTAATAGACCATT 57.652 39.130 0.00 0.00 0.00 3.16
1935 7042 5.347620 TTGTACACGGCTTAATAGACCAT 57.652 39.130 0.00 0.00 0.00 3.55
1936 7043 4.382254 CCTTGTACACGGCTTAATAGACCA 60.382 45.833 5.32 0.00 0.00 4.02
1937 7044 4.117685 CCTTGTACACGGCTTAATAGACC 58.882 47.826 5.32 0.00 0.00 3.85
1938 7045 5.002464 TCCTTGTACACGGCTTAATAGAC 57.998 43.478 13.46 0.00 0.00 2.59
1939 7046 5.664294 TTCCTTGTACACGGCTTAATAGA 57.336 39.130 13.46 0.00 0.00 1.98
1940 7047 6.103997 TCTTTCCTTGTACACGGCTTAATAG 58.896 40.000 13.46 1.97 0.00 1.73
1941 7048 6.040209 TCTTTCCTTGTACACGGCTTAATA 57.960 37.500 13.46 0.00 0.00 0.98
1942 7049 4.901868 TCTTTCCTTGTACACGGCTTAAT 58.098 39.130 13.46 0.00 0.00 1.40
1943 7050 4.339872 TCTTTCCTTGTACACGGCTTAA 57.660 40.909 13.46 6.83 0.00 1.85
1944 7051 4.250464 CATCTTTCCTTGTACACGGCTTA 58.750 43.478 13.46 0.00 0.00 3.09
1945 7052 2.922740 TCTTTCCTTGTACACGGCTT 57.077 45.000 13.46 0.00 0.00 4.35
1946 7053 2.699954 CATCTTTCCTTGTACACGGCT 58.300 47.619 13.46 0.00 0.00 5.52
1947 7054 1.130561 GCATCTTTCCTTGTACACGGC 59.869 52.381 13.46 0.00 0.00 5.68
1948 7055 2.699954 AGCATCTTTCCTTGTACACGG 58.300 47.619 12.13 12.13 0.00 4.94
1949 7056 5.168569 TCTAAGCATCTTTCCTTGTACACG 58.831 41.667 0.00 0.00 0.00 4.49
1950 7057 6.595716 ACATCTAAGCATCTTTCCTTGTACAC 59.404 38.462 0.00 0.00 0.00 2.90
1951 7058 6.595326 CACATCTAAGCATCTTTCCTTGTACA 59.405 38.462 0.00 0.00 0.00 2.90
1952 7059 6.457528 GCACATCTAAGCATCTTTCCTTGTAC 60.458 42.308 0.00 0.00 0.00 2.90
1953 7060 5.586243 GCACATCTAAGCATCTTTCCTTGTA 59.414 40.000 0.00 0.00 0.00 2.41
1954 7061 4.397417 GCACATCTAAGCATCTTTCCTTGT 59.603 41.667 0.00 0.00 0.00 3.16
1955 7062 4.639310 AGCACATCTAAGCATCTTTCCTTG 59.361 41.667 0.00 0.00 0.00 3.61
1956 7063 4.853007 AGCACATCTAAGCATCTTTCCTT 58.147 39.130 0.00 0.00 0.00 3.36
1957 7064 4.500499 AGCACATCTAAGCATCTTTCCT 57.500 40.909 0.00 0.00 0.00 3.36
1958 7065 6.484643 TCATAAGCACATCTAAGCATCTTTCC 59.515 38.462 0.00 0.00 0.00 3.13
1959 7066 7.488187 TCATAAGCACATCTAAGCATCTTTC 57.512 36.000 0.00 0.00 0.00 2.62
1960 7067 7.870509 TTCATAAGCACATCTAAGCATCTTT 57.129 32.000 0.00 0.00 0.00 2.52
1961 7068 7.870509 TTTCATAAGCACATCTAAGCATCTT 57.129 32.000 0.00 0.00 0.00 2.40
1962 7069 7.466455 CGTTTTCATAAGCACATCTAAGCATCT 60.466 37.037 0.00 0.00 0.00 2.90
1963 7070 6.630443 CGTTTTCATAAGCACATCTAAGCATC 59.370 38.462 0.00 0.00 0.00 3.91
1964 7071 6.316140 TCGTTTTCATAAGCACATCTAAGCAT 59.684 34.615 0.00 0.00 0.00 3.79
1965 7072 5.641636 TCGTTTTCATAAGCACATCTAAGCA 59.358 36.000 0.00 0.00 0.00 3.91
1966 7073 6.106877 TCGTTTTCATAAGCACATCTAAGC 57.893 37.500 0.00 0.00 0.00 3.09
1967 7074 7.481798 GGTTTCGTTTTCATAAGCACATCTAAG 59.518 37.037 0.00 0.00 0.00 2.18
1968 7075 7.302524 GGTTTCGTTTTCATAAGCACATCTAA 58.697 34.615 0.00 0.00 0.00 2.10
1969 7076 6.128117 GGGTTTCGTTTTCATAAGCACATCTA 60.128 38.462 0.00 0.00 0.00 1.98
1970 7077 5.335661 GGGTTTCGTTTTCATAAGCACATCT 60.336 40.000 0.00 0.00 0.00 2.90
1971 7078 4.857037 GGGTTTCGTTTTCATAAGCACATC 59.143 41.667 0.00 0.00 0.00 3.06
1972 7079 4.522789 AGGGTTTCGTTTTCATAAGCACAT 59.477 37.500 0.00 0.00 0.00 3.21
1973 7080 3.886505 AGGGTTTCGTTTTCATAAGCACA 59.113 39.130 0.00 0.00 0.00 4.57
1974 7081 4.499037 AGGGTTTCGTTTTCATAAGCAC 57.501 40.909 0.00 0.00 0.00 4.40
1975 7082 5.523438 AAAGGGTTTCGTTTTCATAAGCA 57.477 34.783 0.00 0.00 0.00 3.91
1976 7083 6.838198 AAAAAGGGTTTCGTTTTCATAAGC 57.162 33.333 0.00 0.00 39.23 3.09
2019 7126 9.790389 ATGTCTAAGTAAGAATATGCGCTATAC 57.210 33.333 9.73 1.60 35.47 1.47
2021 7128 8.744652 AGATGTCTAAGTAAGAATATGCGCTAT 58.255 33.333 9.73 3.00 35.47 2.97
2024 7131 7.087639 AGAGATGTCTAAGTAAGAATATGCGC 58.912 38.462 0.00 0.00 35.47 6.09
2025 7132 9.123709 GAAGAGATGTCTAAGTAAGAATATGCG 57.876 37.037 0.00 0.00 35.47 4.73
2044 7151 8.075761 TGTATGCATGCATCTATAGAAGAGAT 57.924 34.615 35.35 11.09 37.74 2.75
2080 7187 8.816640 ATGCTCGTAAAACTCAATCAATTTTT 57.183 26.923 0.00 0.00 0.00 1.94
2082 7189 7.820648 AGATGCTCGTAAAACTCAATCAATTT 58.179 30.769 0.00 0.00 0.00 1.82
2085 7192 6.166279 AGAGATGCTCGTAAAACTCAATCAA 58.834 36.000 0.00 0.00 35.36 2.57
2086 7193 5.724328 AGAGATGCTCGTAAAACTCAATCA 58.276 37.500 0.00 0.00 35.36 2.57
2087 7194 6.267500 GAGAGATGCTCGTAAAACTCAATC 57.733 41.667 0.00 0.00 35.36 2.67
2100 7641 5.539979 TGCAAGATGATTAGAGAGATGCTC 58.460 41.667 0.00 0.00 44.29 4.26
2102 7643 6.804770 AATGCAAGATGATTAGAGAGATGC 57.195 37.500 0.00 0.00 0.00 3.91
2105 7646 9.842775 ATGTAAAATGCAAGATGATTAGAGAGA 57.157 29.630 0.00 0.00 0.00 3.10
2112 7653 9.182214 AGTGACTATGTAAAATGCAAGATGATT 57.818 29.630 0.00 0.00 0.00 2.57
2113 7654 8.743085 AGTGACTATGTAAAATGCAAGATGAT 57.257 30.769 0.00 0.00 0.00 2.45
2129 7670 6.049790 GCCCCTTTTTCTACTAGTGACTATG 58.950 44.000 5.39 0.00 0.00 2.23
2130 7671 5.724854 TGCCCCTTTTTCTACTAGTGACTAT 59.275 40.000 5.39 0.00 0.00 2.12
2131 7672 5.088730 TGCCCCTTTTTCTACTAGTGACTA 58.911 41.667 5.39 0.00 0.00 2.59
2135 7676 5.946377 AGATTTGCCCCTTTTTCTACTAGTG 59.054 40.000 5.39 0.00 0.00 2.74
2136 7677 5.946377 CAGATTTGCCCCTTTTTCTACTAGT 59.054 40.000 0.00 0.00 0.00 2.57
2137 7678 6.180472 TCAGATTTGCCCCTTTTTCTACTAG 58.820 40.000 0.00 0.00 0.00 2.57
2139 7680 4.998051 TCAGATTTGCCCCTTTTTCTACT 58.002 39.130 0.00 0.00 0.00 2.57
2142 7683 4.118168 TCTCAGATTTGCCCCTTTTTCT 57.882 40.909 0.00 0.00 0.00 2.52
2143 7684 4.871933 TTCTCAGATTTGCCCCTTTTTC 57.128 40.909 0.00 0.00 0.00 2.29
2145 7686 3.966665 TGTTTCTCAGATTTGCCCCTTTT 59.033 39.130 0.00 0.00 0.00 2.27
2147 7688 3.243359 TGTTTCTCAGATTTGCCCCTT 57.757 42.857 0.00 0.00 0.00 3.95
2148 7689 2.978156 TGTTTCTCAGATTTGCCCCT 57.022 45.000 0.00 0.00 0.00 4.79
2149 7690 5.659440 TTAATGTTTCTCAGATTTGCCCC 57.341 39.130 0.00 0.00 0.00 5.80
2150 7691 7.203218 GGTATTAATGTTTCTCAGATTTGCCC 58.797 38.462 0.00 0.00 0.00 5.36
2151 7692 6.912591 CGGTATTAATGTTTCTCAGATTTGCC 59.087 38.462 0.00 0.00 0.00 4.52
2152 7693 6.912591 CCGGTATTAATGTTTCTCAGATTTGC 59.087 38.462 0.00 0.00 0.00 3.68
2153 7694 7.985476 ACCGGTATTAATGTTTCTCAGATTTG 58.015 34.615 4.49 0.00 0.00 2.32
2154 7695 8.575649 AACCGGTATTAATGTTTCTCAGATTT 57.424 30.769 8.00 0.00 0.00 2.17
2155 7696 8.458843 CAAACCGGTATTAATGTTTCTCAGATT 58.541 33.333 8.00 0.00 0.00 2.40
2156 7697 7.415206 GCAAACCGGTATTAATGTTTCTCAGAT 60.415 37.037 8.00 0.00 0.00 2.90
2157 7698 6.128117 GCAAACCGGTATTAATGTTTCTCAGA 60.128 38.462 8.00 0.00 0.00 3.27
2158 7699 6.027749 GCAAACCGGTATTAATGTTTCTCAG 58.972 40.000 8.00 0.00 0.00 3.35
2159 7700 5.473846 TGCAAACCGGTATTAATGTTTCTCA 59.526 36.000 8.00 0.00 0.00 3.27
2160 7701 5.945155 TGCAAACCGGTATTAATGTTTCTC 58.055 37.500 8.00 0.00 0.00 2.87
2162 7703 8.132362 TCATATGCAAACCGGTATTAATGTTTC 58.868 33.333 8.00 0.00 0.00 2.78
2163 7704 8.001881 TCATATGCAAACCGGTATTAATGTTT 57.998 30.769 8.00 0.00 0.00 2.83
2164 7705 7.575414 TCATATGCAAACCGGTATTAATGTT 57.425 32.000 8.00 0.00 0.00 2.71
2165 7706 6.293955 GCTCATATGCAAACCGGTATTAATGT 60.294 38.462 8.00 0.00 0.00 2.71
2167 7708 5.183140 GGCTCATATGCAAACCGGTATTAAT 59.817 40.000 8.00 2.45 34.04 1.40
2168 7709 4.517453 GGCTCATATGCAAACCGGTATTAA 59.483 41.667 8.00 0.00 34.04 1.40
2169 7710 4.069304 GGCTCATATGCAAACCGGTATTA 58.931 43.478 8.00 0.00 34.04 0.98
2170 7711 2.884639 GGCTCATATGCAAACCGGTATT 59.115 45.455 8.00 1.22 34.04 1.89
2171 7712 2.504367 GGCTCATATGCAAACCGGTAT 58.496 47.619 8.00 0.00 34.04 2.73
2172 7713 1.808512 CGGCTCATATGCAAACCGGTA 60.809 52.381 8.00 0.00 37.04 4.02
2174 7715 1.648720 CGGCTCATATGCAAACCGG 59.351 57.895 0.00 0.00 37.04 5.28
2175 7716 1.648720 CCGGCTCATATGCAAACCG 59.351 57.895 14.68 14.68 40.30 4.44
2176 7717 1.360192 GCCGGCTCATATGCAAACC 59.640 57.895 22.15 0.00 34.04 3.27
2178 7719 1.401761 AATGCCGGCTCATATGCAAA 58.598 45.000 29.70 2.45 37.27 3.68
2180 7721 2.268762 TTAATGCCGGCTCATATGCA 57.731 45.000 29.70 4.25 38.23 3.96
2181 7722 2.489329 ACATTAATGCCGGCTCATATGC 59.511 45.455 29.70 0.00 0.00 3.14
2182 7723 4.087510 CACATTAATGCCGGCTCATATG 57.912 45.455 29.70 24.88 0.00 1.78


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

AutoCloner maintained by Alex Coulton.