Multiple sequence alignment - TraesCS2A01G424800

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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 TraesCS2A01G424800 chr2A 100.000 2495 0 0 1 2495 678832741 678830247 0.000000e+00 4608.0
1 TraesCS2A01G424800 chr2A 92.973 185 8 3 1929 2113 717577435 717577614 5.290000e-67 265.0
2 TraesCS2A01G424800 chr2A 81.048 248 45 2 1224 1470 678898778 678898532 1.960000e-46 196.0
3 TraesCS2A01G424800 chr2A 81.818 110 14 5 855 960 678900022 678899915 1.230000e-13 87.9
4 TraesCS2A01G424800 chr2B 92.744 1833 89 18 1 1805 637446266 637444450 0.000000e+00 2608.0
5 TraesCS2A01G424800 chr2B 90.306 392 26 5 2113 2495 637444299 637443911 1.030000e-138 503.0
6 TraesCS2A01G424800 chr2B 80.812 271 50 2 1220 1489 637464623 637464354 6.990000e-51 211.0
7 TraesCS2A01G424800 chr2B 91.096 146 8 4 1786 1929 637444431 637444289 2.530000e-45 193.0
8 TraesCS2A01G424800 chr2B 83.333 120 15 5 845 960 637466316 637466198 3.390000e-19 106.0
9 TraesCS2A01G424800 chr2D 90.336 1728 84 31 242 1929 535753019 535751335 0.000000e+00 2189.0
10 TraesCS2A01G424800 chr2D 88.279 401 27 5 2113 2495 535751345 535750947 1.750000e-126 462.0
11 TraesCS2A01G424800 chr2D 85.603 257 35 2 1215 1470 536087376 536087121 4.090000e-68 268.0
12 TraesCS2A01G424800 chr3A 93.684 190 6 4 1925 2113 265538066 265538250 1.890000e-71 279.0
13 TraesCS2A01G424800 chr3A 92.973 185 8 4 1929 2113 608119025 608118846 5.290000e-67 265.0
14 TraesCS2A01G424800 chr3B 93.514 185 7 3 1929 2113 23363461 23363282 1.140000e-68 270.0
15 TraesCS2A01G424800 chr7A 93.011 186 8 3 1928 2113 602027902 602027722 1.470000e-67 267.0
16 TraesCS2A01G424800 chr7A 91.935 186 12 3 1929 2113 694116180 694115997 8.850000e-65 257.0
17 TraesCS2A01G424800 chr1A 90.909 187 10 4 1927 2113 562072760 562072581 6.890000e-61 244.0
18 TraesCS2A01G424800 chr1A 90.811 185 12 3 1929 2113 421657915 421658094 2.480000e-60 243.0
19 TraesCS2A01G424800 chr5B 90.217 184 16 2 1932 2113 26883126 26882943 3.210000e-59 239.0
20 TraesCS2A01G424800 chr1D 96.364 55 2 0 1337 1391 288906173 288906227 9.500000e-15 91.6


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 TraesCS2A01G424800 chr2A 678830247 678832741 2494 True 4608.000000 4608 100.0000 1 2495 1 chr2A.!!$R1 2494
1 TraesCS2A01G424800 chr2B 637443911 637446266 2355 True 1101.333333 2608 91.3820 1 2495 3 chr2B.!!$R1 2494
2 TraesCS2A01G424800 chr2D 535750947 535753019 2072 True 1325.500000 2189 89.3075 242 2495 2 chr2D.!!$R2 2253

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
261 262 0.317854 GCAAGTCAAGCCACCGAAAC 60.318 55.0 0.0 0.0 0.0 2.78 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2005 2086 0.033503 ATTTTCAAGGGGGTAGGCCG 60.034 55.0 0.0 0.0 34.97 6.13 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
66 67 1.336755 GCTTGGGTGGTGTAAGTTGTG 59.663 52.381 0.00 0.00 0.00 3.33
82 83 1.860676 TGTGCCGAGACAACAGTTAC 58.139 50.000 0.00 0.00 0.00 2.50
118 119 4.819082 GGCATCATGTTGCGCAAT 57.181 50.000 27.79 8.52 43.71 3.56
136 137 7.514805 TGCGCAATATTTATGTTAGTATTCCG 58.485 34.615 8.16 0.00 0.00 4.30
156 157 4.709397 TCCGCCCTTATGATTGAATGTTTT 59.291 37.500 0.00 0.00 0.00 2.43
177 178 3.972133 TGGCTCATCAATTCACCAAGAT 58.028 40.909 0.00 0.00 0.00 2.40
188 189 2.621338 TCACCAAGATGCGATGAAGTC 58.379 47.619 0.00 0.00 0.00 3.01
211 212 1.003839 GTGATGTGTCGAGGGGCAA 60.004 57.895 0.00 0.00 0.00 4.52
227 228 1.459209 GGCAACAAATTAAAGTGCGGC 59.541 47.619 0.00 0.00 0.00 6.53
254 255 1.405105 GTCAAGTTGCAAGTCAAGCCA 59.595 47.619 7.36 0.00 34.91 4.75
261 262 0.317854 GCAAGTCAAGCCACCGAAAC 60.318 55.000 0.00 0.00 0.00 2.78
263 264 0.822121 AAGTCAAGCCACCGAAACCC 60.822 55.000 0.00 0.00 0.00 4.11
299 300 2.023414 GATGGATGCCGTGGTCCGTA 62.023 60.000 0.00 0.00 37.32 4.02
310 314 2.372264 GTGGTCCGTAGTGTATCAGGA 58.628 52.381 0.00 0.00 0.00 3.86
448 461 4.889832 AAATTGATCTTCTCGGTGATGC 57.110 40.909 0.00 0.00 0.00 3.91
472 485 2.223572 CCTTCAAGTTTGTGCCACTGTC 60.224 50.000 0.00 0.00 0.00 3.51
547 560 6.393171 CAAAAATGGGAAGGTTTCATCTCTC 58.607 40.000 0.00 0.00 0.00 3.20
585 603 3.891324 GCAGAGGCTATGTAACGACTAG 58.109 50.000 11.25 0.00 36.96 2.57
706 724 2.546368 TGATTCCAGGAACAAAACGACG 59.454 45.455 3.18 0.00 0.00 5.12
722 747 1.521450 GACGGAGACCTTGGTCGTCA 61.521 60.000 20.27 0.00 46.23 4.35
771 796 2.434884 ACGCCAGCCACAATCTCG 60.435 61.111 0.00 0.00 0.00 4.04
784 809 0.458543 AATCTCGCTGCCAGTGTACG 60.459 55.000 4.99 0.00 0.00 3.67
787 812 2.201436 CTCGCTGCCAGTGTACGACT 62.201 60.000 4.99 0.00 34.02 4.18
932 957 1.270907 TCTTCTTCCCTCAGACCAGC 58.729 55.000 0.00 0.00 0.00 4.85
1048 1073 4.731612 CGCTGCTCTCCGTGCTGT 62.732 66.667 0.00 0.00 0.00 4.40
1049 1074 2.813042 GCTGCTCTCCGTGCTGTC 60.813 66.667 0.00 0.00 0.00 3.51
1052 1077 4.057428 GCTCTCCGTGCTGTCCGT 62.057 66.667 0.00 0.00 0.00 4.69
1497 1522 0.178767 TCCAGTGCCCTTCATGATCG 59.821 55.000 0.00 0.00 0.00 3.69
1523 1548 2.628178 CCTCCATCGATTAGCACCTACA 59.372 50.000 0.00 0.00 0.00 2.74
1529 1557 6.661805 TCCATCGATTAGCACCTACATACATA 59.338 38.462 0.00 0.00 0.00 2.29
1530 1558 6.752351 CCATCGATTAGCACCTACATACATAC 59.248 42.308 0.00 0.00 0.00 2.39
1531 1559 6.263516 TCGATTAGCACCTACATACATACC 57.736 41.667 0.00 0.00 0.00 2.73
1532 1560 5.771165 TCGATTAGCACCTACATACATACCA 59.229 40.000 0.00 0.00 0.00 3.25
1533 1561 6.072119 TCGATTAGCACCTACATACATACCAG 60.072 42.308 0.00 0.00 0.00 4.00
1534 1562 6.072119 CGATTAGCACCTACATACATACCAGA 60.072 42.308 0.00 0.00 0.00 3.86
1535 1563 7.363007 CGATTAGCACCTACATACATACCAGAT 60.363 40.741 0.00 0.00 0.00 2.90
1536 1564 8.895141 ATTAGCACCTACATACATACCAGATA 57.105 34.615 0.00 0.00 0.00 1.98
1537 1565 6.591750 AGCACCTACATACATACCAGATAC 57.408 41.667 0.00 0.00 0.00 2.24
1538 1566 5.480772 AGCACCTACATACATACCAGATACC 59.519 44.000 0.00 0.00 0.00 2.73
1589 1617 3.634072 GCGTGCATGGAGCTAGCG 61.634 66.667 9.55 0.00 45.94 4.26
1621 1649 4.811557 AGGTAAGTACGTATACGGAGTGTC 59.188 45.833 27.62 17.68 45.73 3.67
1704 1732 1.828081 CATGGGCAGCTAGCTCTGA 59.172 57.895 16.15 0.00 46.80 3.27
1713 1741 4.298332 GCAGCTAGCTCTGACTATCTTTC 58.702 47.826 16.15 0.00 41.15 2.62
1714 1742 4.202101 GCAGCTAGCTCTGACTATCTTTCA 60.202 45.833 16.15 0.00 41.15 2.69
1724 1752 3.182967 GACTATCTTTCAGTGTGGAGCG 58.817 50.000 0.00 0.00 0.00 5.03
1905 1986 6.392354 CATGTATGCATGTCTTCCTTTTTGT 58.608 36.000 14.98 0.00 45.48 2.83
1913 1994 6.260714 GCATGTCTTCCTTTTTGTGGAAAATT 59.739 34.615 0.00 0.00 42.29 1.82
1921 2002 7.548967 TCCTTTTTGTGGAAAATTTTACGACT 58.451 30.769 8.61 0.00 36.68 4.18
1922 2003 7.703197 TCCTTTTTGTGGAAAATTTTACGACTC 59.297 33.333 8.61 0.64 36.68 3.36
1923 2004 7.042992 CCTTTTTGTGGAAAATTTTACGACTCC 60.043 37.037 8.61 3.27 36.68 3.85
1924 2005 6.452494 TTTGTGGAAAATTTTACGACTCCA 57.548 33.333 8.61 5.86 0.00 3.86
1925 2006 6.452494 TTGTGGAAAATTTTACGACTCCAA 57.548 33.333 8.61 3.93 34.84 3.53
1926 2007 6.452494 TGTGGAAAATTTTACGACTCCAAA 57.548 33.333 8.61 1.24 34.84 3.28
1927 2008 7.045126 TGTGGAAAATTTTACGACTCCAAAT 57.955 32.000 8.61 0.00 34.84 2.32
1928 2009 7.142680 TGTGGAAAATTTTACGACTCCAAATC 58.857 34.615 8.61 0.00 34.84 2.17
1929 2010 6.304683 GTGGAAAATTTTACGACTCCAAATCG 59.695 38.462 8.61 0.00 45.17 3.34
1930 2011 5.798434 GGAAAATTTTACGACTCCAAATCGG 59.202 40.000 2.75 0.00 43.95 4.18
1931 2012 4.351131 AATTTTACGACTCCAAATCGGC 57.649 40.909 0.00 0.00 43.95 5.54
1932 2013 2.459060 TTTACGACTCCAAATCGGCA 57.541 45.000 0.00 0.00 43.95 5.69
1933 2014 2.459060 TTACGACTCCAAATCGGCAA 57.541 45.000 0.00 0.00 43.95 4.52
1934 2015 2.684001 TACGACTCCAAATCGGCAAT 57.316 45.000 0.00 0.00 43.95 3.56
1935 2016 1.086696 ACGACTCCAAATCGGCAATG 58.913 50.000 0.00 0.00 43.95 2.82
1936 2017 0.248215 CGACTCCAAATCGGCAATGC 60.248 55.000 0.00 0.00 35.92 3.56
1937 2018 1.098050 GACTCCAAATCGGCAATGCT 58.902 50.000 4.82 0.00 33.14 3.79
1938 2019 2.288666 GACTCCAAATCGGCAATGCTA 58.711 47.619 4.82 0.00 33.14 3.49
1939 2020 2.017049 ACTCCAAATCGGCAATGCTAC 58.983 47.619 4.82 0.00 33.14 3.58
1940 2021 2.016318 CTCCAAATCGGCAATGCTACA 58.984 47.619 4.82 0.00 33.14 2.74
1941 2022 1.742831 TCCAAATCGGCAATGCTACAC 59.257 47.619 4.82 0.00 33.14 2.90
1942 2023 1.531677 CCAAATCGGCAATGCTACACG 60.532 52.381 4.82 0.00 0.00 4.49
1943 2024 1.130373 CAAATCGGCAATGCTACACGT 59.870 47.619 4.82 0.00 0.00 4.49
1944 2025 2.303163 AATCGGCAATGCTACACGTA 57.697 45.000 4.82 0.00 0.00 3.57
1945 2026 1.567504 ATCGGCAATGCTACACGTAC 58.432 50.000 4.82 0.00 0.00 3.67
1946 2027 0.244178 TCGGCAATGCTACACGTACA 59.756 50.000 4.82 0.00 0.00 2.90
1947 2028 1.072391 CGGCAATGCTACACGTACAA 58.928 50.000 4.82 0.00 0.00 2.41
1948 2029 1.461512 CGGCAATGCTACACGTACAAA 59.538 47.619 4.82 0.00 0.00 2.83
1949 2030 2.723618 CGGCAATGCTACACGTACAAAC 60.724 50.000 4.82 0.00 0.00 2.93
1950 2031 2.224549 GGCAATGCTACACGTACAAACA 59.775 45.455 4.82 0.00 0.00 2.83
1951 2032 3.479006 GCAATGCTACACGTACAAACAG 58.521 45.455 0.00 0.00 0.00 3.16
1952 2033 3.059188 GCAATGCTACACGTACAAACAGT 60.059 43.478 0.00 0.00 0.00 3.55
1953 2034 4.553938 GCAATGCTACACGTACAAACAGTT 60.554 41.667 0.00 0.00 0.00 3.16
1954 2035 5.507077 CAATGCTACACGTACAAACAGTTT 58.493 37.500 0.00 0.00 0.00 2.66
1955 2036 6.651308 CAATGCTACACGTACAAACAGTTTA 58.349 36.000 0.00 0.00 0.00 2.01
1956 2037 5.640218 TGCTACACGTACAAACAGTTTAC 57.360 39.130 0.00 0.00 0.00 2.01
1957 2038 5.107824 TGCTACACGTACAAACAGTTTACA 58.892 37.500 0.00 0.00 0.00 2.41
1958 2039 5.232626 TGCTACACGTACAAACAGTTTACAG 59.767 40.000 0.00 0.00 0.00 2.74
1959 2040 5.332808 GCTACACGTACAAACAGTTTACAGG 60.333 44.000 0.00 0.00 0.00 4.00
1960 2041 3.310501 ACACGTACAAACAGTTTACAGGC 59.689 43.478 0.00 0.00 0.00 4.85
1961 2042 3.558418 CACGTACAAACAGTTTACAGGCT 59.442 43.478 0.00 0.00 0.00 4.58
1962 2043 4.034742 CACGTACAAACAGTTTACAGGCTT 59.965 41.667 0.00 0.00 0.00 4.35
1963 2044 4.637091 ACGTACAAACAGTTTACAGGCTTT 59.363 37.500 0.00 0.00 0.00 3.51
1964 2045 5.124297 ACGTACAAACAGTTTACAGGCTTTT 59.876 36.000 0.00 0.00 0.00 2.27
1965 2046 6.315891 ACGTACAAACAGTTTACAGGCTTTTA 59.684 34.615 0.00 0.00 0.00 1.52
1966 2047 6.630045 CGTACAAACAGTTTACAGGCTTTTAC 59.370 38.462 0.00 0.00 0.00 2.01
1967 2048 6.518208 ACAAACAGTTTACAGGCTTTTACA 57.482 33.333 0.00 0.00 0.00 2.41
1968 2049 6.560711 ACAAACAGTTTACAGGCTTTTACAG 58.439 36.000 0.00 0.00 0.00 2.74
1969 2050 6.376018 ACAAACAGTTTACAGGCTTTTACAGA 59.624 34.615 0.00 0.00 0.00 3.41
1970 2051 7.068226 ACAAACAGTTTACAGGCTTTTACAGAT 59.932 33.333 0.00 0.00 0.00 2.90
1971 2052 6.560253 ACAGTTTACAGGCTTTTACAGATG 57.440 37.500 0.00 0.00 0.00 2.90
1972 2053 5.473504 ACAGTTTACAGGCTTTTACAGATGG 59.526 40.000 0.00 0.00 0.00 3.51
1973 2054 5.010282 AGTTTACAGGCTTTTACAGATGGG 58.990 41.667 0.00 0.00 0.00 4.00
1974 2055 4.650972 TTACAGGCTTTTACAGATGGGT 57.349 40.909 0.00 0.00 0.00 4.51
1975 2056 3.525800 ACAGGCTTTTACAGATGGGTT 57.474 42.857 0.00 0.00 0.00 4.11
1976 2057 4.650972 ACAGGCTTTTACAGATGGGTTA 57.349 40.909 0.00 0.00 0.00 2.85
1977 2058 4.589908 ACAGGCTTTTACAGATGGGTTAG 58.410 43.478 0.00 0.00 0.00 2.34
1978 2059 4.042934 ACAGGCTTTTACAGATGGGTTAGT 59.957 41.667 0.00 0.00 0.00 2.24
1979 2060 5.010282 CAGGCTTTTACAGATGGGTTAGTT 58.990 41.667 0.00 0.00 0.00 2.24
1980 2061 5.476945 CAGGCTTTTACAGATGGGTTAGTTT 59.523 40.000 0.00 0.00 0.00 2.66
1981 2062 6.015434 CAGGCTTTTACAGATGGGTTAGTTTT 60.015 38.462 0.00 0.00 0.00 2.43
1982 2063 6.553476 AGGCTTTTACAGATGGGTTAGTTTTT 59.447 34.615 0.00 0.00 0.00 1.94
1983 2064 7.726738 AGGCTTTTACAGATGGGTTAGTTTTTA 59.273 33.333 0.00 0.00 0.00 1.52
1984 2065 8.528643 GGCTTTTACAGATGGGTTAGTTTTTAT 58.471 33.333 0.00 0.00 0.00 1.40
1985 2066 9.923143 GCTTTTACAGATGGGTTAGTTTTTATT 57.077 29.630 0.00 0.00 0.00 1.40
1988 2069 8.943594 TTACAGATGGGTTAGTTTTTATTGGT 57.056 30.769 0.00 0.00 0.00 3.67
1989 2070 7.462571 ACAGATGGGTTAGTTTTTATTGGTC 57.537 36.000 0.00 0.00 0.00 4.02
1990 2071 7.007723 ACAGATGGGTTAGTTTTTATTGGTCA 58.992 34.615 0.00 0.00 0.00 4.02
1991 2072 7.507616 ACAGATGGGTTAGTTTTTATTGGTCAA 59.492 33.333 0.00 0.00 0.00 3.18
1992 2073 7.812669 CAGATGGGTTAGTTTTTATTGGTCAAC 59.187 37.037 0.00 0.00 0.00 3.18
1993 2074 7.507616 AGATGGGTTAGTTTTTATTGGTCAACA 59.492 33.333 0.00 0.00 0.00 3.33
1994 2075 7.419711 TGGGTTAGTTTTTATTGGTCAACAA 57.580 32.000 0.00 0.00 44.54 2.83
1995 2076 7.493367 TGGGTTAGTTTTTATTGGTCAACAAG 58.507 34.615 0.00 0.00 43.48 3.16
1996 2077 7.124448 TGGGTTAGTTTTTATTGGTCAACAAGT 59.876 33.333 0.00 0.00 43.48 3.16
1997 2078 7.436970 GGGTTAGTTTTTATTGGTCAACAAGTG 59.563 37.037 0.00 0.00 43.48 3.16
1998 2079 8.192110 GGTTAGTTTTTATTGGTCAACAAGTGA 58.808 33.333 0.00 0.00 43.48 3.41
1999 2080 9.233232 GTTAGTTTTTATTGGTCAACAAGTGAG 57.767 33.333 0.00 0.00 43.48 3.51
2003 2084 3.655481 GGTCAACAAGTGAGCGGG 58.345 61.111 0.00 0.00 44.38 6.13
2004 2085 1.070786 GGTCAACAAGTGAGCGGGA 59.929 57.895 0.00 0.00 44.38 5.14
2005 2086 1.228657 GGTCAACAAGTGAGCGGGAC 61.229 60.000 0.00 0.00 44.38 4.46
2019 2100 3.793888 GGACGGCCTACCCCCTTG 61.794 72.222 0.00 0.00 0.00 3.61
2020 2101 2.686106 GACGGCCTACCCCCTTGA 60.686 66.667 0.00 0.00 0.00 3.02
2021 2102 2.204029 ACGGCCTACCCCCTTGAA 60.204 61.111 0.00 0.00 0.00 2.69
2022 2103 1.844544 GACGGCCTACCCCCTTGAAA 61.845 60.000 0.00 0.00 0.00 2.69
2023 2104 1.381076 CGGCCTACCCCCTTGAAAA 59.619 57.895 0.00 0.00 0.00 2.29
2024 2105 0.033503 CGGCCTACCCCCTTGAAAAT 60.034 55.000 0.00 0.00 0.00 1.82
2025 2106 1.776662 GGCCTACCCCCTTGAAAATC 58.223 55.000 0.00 0.00 0.00 2.17
2026 2107 1.389555 GCCTACCCCCTTGAAAATCG 58.610 55.000 0.00 0.00 0.00 3.34
2027 2108 2.022238 GCCTACCCCCTTGAAAATCGG 61.022 57.143 0.00 0.00 0.00 4.18
2028 2109 1.562475 CCTACCCCCTTGAAAATCGGA 59.438 52.381 0.00 0.00 0.00 4.55
2029 2110 2.421529 CCTACCCCCTTGAAAATCGGAG 60.422 54.545 0.00 0.00 0.00 4.63
2030 2111 0.331616 ACCCCCTTGAAAATCGGAGG 59.668 55.000 0.00 0.00 0.00 4.30
2031 2112 0.395724 CCCCCTTGAAAATCGGAGGG 60.396 60.000 10.21 10.21 46.89 4.30
2032 2113 3.191182 CCCTTGAAAATCGGAGGGG 57.809 57.895 9.58 0.00 44.21 4.79
2033 2114 0.623723 CCCTTGAAAATCGGAGGGGA 59.376 55.000 9.58 0.00 44.21 4.81
2034 2115 1.408822 CCCTTGAAAATCGGAGGGGAG 60.409 57.143 9.58 0.00 44.21 4.30
2035 2116 1.408822 CCTTGAAAATCGGAGGGGAGG 60.409 57.143 0.00 0.00 0.00 4.30
2036 2117 0.623723 TTGAAAATCGGAGGGGAGGG 59.376 55.000 0.00 0.00 0.00 4.30
2037 2118 1.279025 TGAAAATCGGAGGGGAGGGG 61.279 60.000 0.00 0.00 0.00 4.79
2038 2119 1.996070 GAAAATCGGAGGGGAGGGGG 61.996 65.000 0.00 0.00 0.00 5.40
2054 2135 2.976099 GGGGGAGGTTTGTGATTGG 58.024 57.895 0.00 0.00 0.00 3.16
2055 2136 0.114364 GGGGGAGGTTTGTGATTGGT 59.886 55.000 0.00 0.00 0.00 3.67
2056 2137 1.482365 GGGGGAGGTTTGTGATTGGTT 60.482 52.381 0.00 0.00 0.00 3.67
2057 2138 1.618343 GGGGAGGTTTGTGATTGGTTG 59.382 52.381 0.00 0.00 0.00 3.77
2058 2139 2.316108 GGGAGGTTTGTGATTGGTTGT 58.684 47.619 0.00 0.00 0.00 3.32
2059 2140 2.698274 GGGAGGTTTGTGATTGGTTGTT 59.302 45.455 0.00 0.00 0.00 2.83
2060 2141 3.892588 GGGAGGTTTGTGATTGGTTGTTA 59.107 43.478 0.00 0.00 0.00 2.41
2061 2142 4.022329 GGGAGGTTTGTGATTGGTTGTTAG 60.022 45.833 0.00 0.00 0.00 2.34
2062 2143 4.825085 GGAGGTTTGTGATTGGTTGTTAGA 59.175 41.667 0.00 0.00 0.00 2.10
2063 2144 5.476945 GGAGGTTTGTGATTGGTTGTTAGAT 59.523 40.000 0.00 0.00 0.00 1.98
2064 2145 6.331369 AGGTTTGTGATTGGTTGTTAGATG 57.669 37.500 0.00 0.00 0.00 2.90
2065 2146 6.068010 AGGTTTGTGATTGGTTGTTAGATGA 58.932 36.000 0.00 0.00 0.00 2.92
2066 2147 6.549364 AGGTTTGTGATTGGTTGTTAGATGAA 59.451 34.615 0.00 0.00 0.00 2.57
2067 2148 7.069331 AGGTTTGTGATTGGTTGTTAGATGAAA 59.931 33.333 0.00 0.00 0.00 2.69
2068 2149 7.708752 GGTTTGTGATTGGTTGTTAGATGAAAA 59.291 33.333 0.00 0.00 0.00 2.29
2069 2150 8.755018 GTTTGTGATTGGTTGTTAGATGAAAAG 58.245 33.333 0.00 0.00 0.00 2.27
2070 2151 7.815840 TGTGATTGGTTGTTAGATGAAAAGA 57.184 32.000 0.00 0.00 0.00 2.52
2071 2152 7.874940 TGTGATTGGTTGTTAGATGAAAAGAG 58.125 34.615 0.00 0.00 0.00 2.85
2072 2153 6.803807 GTGATTGGTTGTTAGATGAAAAGAGC 59.196 38.462 0.00 0.00 0.00 4.09
2073 2154 6.716628 TGATTGGTTGTTAGATGAAAAGAGCT 59.283 34.615 0.00 0.00 0.00 4.09
2074 2155 6.959639 TTGGTTGTTAGATGAAAAGAGCTT 57.040 33.333 0.00 0.00 0.00 3.74
2075 2156 6.317789 TGGTTGTTAGATGAAAAGAGCTTG 57.682 37.500 0.00 0.00 0.00 4.01
2076 2157 5.827797 TGGTTGTTAGATGAAAAGAGCTTGT 59.172 36.000 0.00 0.00 0.00 3.16
2077 2158 6.995686 TGGTTGTTAGATGAAAAGAGCTTGTA 59.004 34.615 0.00 0.00 0.00 2.41
2078 2159 7.500892 TGGTTGTTAGATGAAAAGAGCTTGTAA 59.499 33.333 0.00 0.00 0.00 2.41
2079 2160 8.349983 GGTTGTTAGATGAAAAGAGCTTGTAAA 58.650 33.333 0.00 0.00 0.00 2.01
2080 2161 9.730420 GTTGTTAGATGAAAAGAGCTTGTAAAA 57.270 29.630 0.00 0.00 0.00 1.52
2081 2162 9.950680 TTGTTAGATGAAAAGAGCTTGTAAAAG 57.049 29.630 0.00 0.00 0.00 2.27
2082 2163 8.076178 TGTTAGATGAAAAGAGCTTGTAAAAGC 58.924 33.333 9.83 9.83 45.81 3.51
2114 2195 9.846248 AATCTTTGTATGTCTAGCATTTTTGAC 57.154 29.630 5.22 0.00 38.94 3.18
2115 2196 8.621532 TCTTTGTATGTCTAGCATTTTTGACT 57.378 30.769 5.22 0.00 38.94 3.41
2123 2204 6.071952 TGTCTAGCATTTTTGACTCCAAATCC 60.072 38.462 0.00 0.00 41.43 3.01
2134 2215 0.181114 TCCAAATCCTCCTCGGCATG 59.819 55.000 0.00 0.00 0.00 4.06
2136 2217 1.303309 CAAATCCTCCTCGGCATGAC 58.697 55.000 0.00 0.00 0.00 3.06
2148 2229 1.134580 CGGCATGACAAGTCATCCTCT 60.135 52.381 12.50 0.00 46.57 3.69
2275 2357 3.005367 GCCTCTTTGGATTGGAACGAAAA 59.995 43.478 0.00 0.00 38.35 2.29
2276 2358 4.798574 CCTCTTTGGATTGGAACGAAAAG 58.201 43.478 0.00 0.00 38.35 2.27
2278 2360 5.009610 CCTCTTTGGATTGGAACGAAAAGAA 59.990 40.000 0.00 0.00 38.35 2.52
2279 2361 5.827666 TCTTTGGATTGGAACGAAAAGAAC 58.172 37.500 0.00 0.00 32.35 3.01
2309 2403 9.553064 AAAACATAAAATATGACCAAGTTTGCA 57.447 25.926 4.47 0.00 0.00 4.08
2352 2446 7.893124 ATAATGACAAAAGCAGGATTCAGAT 57.107 32.000 0.00 0.00 0.00 2.90
2375 2469 9.099071 AGATATCATATCCTATGGATTGCTACC 57.901 37.037 5.32 0.00 39.79 3.18
2401 2501 7.524698 CGGGTAAAAAGATTGGAATCCTCAAAA 60.525 37.037 0.00 0.00 36.04 2.44
2423 2523 5.713822 ACTTTTCGTGAATATCTTACGGC 57.286 39.130 0.00 0.00 38.29 5.68
2471 2571 6.699242 ATGATGACAGGAGACAATATGGAT 57.301 37.500 0.00 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
66 67 4.430007 TCATATGTAACTGTTGTCTCGGC 58.570 43.478 2.69 0.00 0.00 5.54
78 79 5.707298 CCCATCAATGTCCCTCATATGTAAC 59.293 44.000 1.90 0.00 35.48 2.50
82 83 3.087031 GCCCATCAATGTCCCTCATATG 58.913 50.000 0.00 0.00 35.48 1.78
118 119 9.661563 CATAAGGGCGGAATACTAACATAAATA 57.338 33.333 0.00 0.00 0.00 1.40
136 137 4.571984 GCCAAAACATTCAATCATAAGGGC 59.428 41.667 0.00 0.00 0.00 5.19
142 143 6.288941 TGATGAGCCAAAACATTCAATCAT 57.711 33.333 0.00 0.00 0.00 2.45
156 157 3.438216 TCTTGGTGAATTGATGAGCCA 57.562 42.857 0.00 0.00 0.00 4.75
188 189 1.139734 CCTCGACACATCACCTCCG 59.860 63.158 0.00 0.00 0.00 4.63
211 212 2.033550 TCGTTGCCGCACTTTAATTTGT 59.966 40.909 0.00 0.00 0.00 2.83
227 228 3.242706 TGACTTGCAACTTGACATCGTTG 60.243 43.478 0.00 11.67 42.47 4.10
254 255 2.281276 GGCAACTCGGGTTTCGGT 60.281 61.111 0.00 0.00 39.77 4.69
290 291 2.372264 TCCTGATACACTACGGACCAC 58.628 52.381 0.00 0.00 0.00 4.16
299 300 3.044156 AGTCCATGCATCCTGATACACT 58.956 45.455 0.00 0.00 0.00 3.55
310 314 4.848000 TGCACCAAGTCCATGCAT 57.152 50.000 0.00 0.00 44.17 3.96
355 359 0.508641 CGACTTCACTGCGGACAAAG 59.491 55.000 0.00 2.12 0.00 2.77
448 461 1.021202 TGGCACAAACTTGAAGGTCG 58.979 50.000 0.00 0.00 31.92 4.79
472 485 8.236586 TCCGTTTAATCTGAGAAAAACATGATG 58.763 33.333 18.06 0.00 32.61 3.07
564 582 2.873133 AGTCGTTACATAGCCTCTGC 57.127 50.000 0.00 0.00 37.95 4.26
565 583 3.607310 CGCTAGTCGTTACATAGCCTCTG 60.607 52.174 5.90 0.00 38.96 3.35
566 584 2.548904 CGCTAGTCGTTACATAGCCTCT 59.451 50.000 5.90 0.00 38.96 3.69
567 585 2.918616 CGCTAGTCGTTACATAGCCTC 58.081 52.381 5.90 0.00 38.96 4.70
585 603 2.424640 GTTTCAACCGTCGCACGC 60.425 61.111 3.56 0.00 40.91 5.34
706 724 0.966920 TTCTGACGACCAAGGTCTCC 59.033 55.000 16.57 8.78 42.54 3.71
722 747 4.514577 CCATCGACGGCCGCTTCT 62.515 66.667 28.58 4.99 38.37 2.85
784 809 3.018149 CCTCAGTAGTCAGTACCCAGTC 58.982 54.545 0.00 0.00 31.06 3.51
787 812 1.848652 GCCTCAGTAGTCAGTACCCA 58.151 55.000 0.00 0.00 31.06 4.51
847 872 2.607892 GGACGAACTGCTGGTGTGC 61.608 63.158 0.00 0.00 0.00 4.57
939 964 0.251354 TCTTGCTCTTGGCTAGCCTG 59.749 55.000 33.07 24.53 42.09 4.85
941 966 1.377536 CTTCTTGCTCTTGGCTAGCC 58.622 55.000 27.71 27.71 42.09 3.93
1497 1522 1.374758 CTAATCGATGGAGGCCGGC 60.375 63.158 21.18 21.18 0.00 6.13
1523 1548 6.267014 GTGGTACAGTGGTATCTGGTATGTAT 59.733 42.308 0.00 0.00 41.80 2.29
1529 1557 2.185387 GGTGGTACAGTGGTATCTGGT 58.815 52.381 0.00 0.00 41.80 4.00
1530 1558 2.093658 GTGGTGGTACAGTGGTATCTGG 60.094 54.545 0.00 0.00 41.80 3.86
1531 1559 2.093658 GGTGGTGGTACAGTGGTATCTG 60.094 54.545 0.00 0.00 41.80 2.90
1532 1560 2.185387 GGTGGTGGTACAGTGGTATCT 58.815 52.381 0.00 0.00 41.80 1.98
1533 1561 2.093658 CAGGTGGTGGTACAGTGGTATC 60.094 54.545 0.00 0.00 41.80 2.24
1534 1562 1.906574 CAGGTGGTGGTACAGTGGTAT 59.093 52.381 0.00 0.00 41.80 2.73
1535 1563 1.344065 CAGGTGGTGGTACAGTGGTA 58.656 55.000 0.00 0.00 41.80 3.25
1536 1564 2.052047 GCAGGTGGTGGTACAGTGGT 62.052 60.000 0.00 0.00 41.80 4.16
1537 1565 1.302511 GCAGGTGGTGGTACAGTGG 60.303 63.158 0.00 0.00 41.80 4.00
1538 1566 0.036732 ATGCAGGTGGTGGTACAGTG 59.963 55.000 0.00 0.00 41.80 3.66
1621 1649 5.816449 TGTATGTATGACCAAACATGCAG 57.184 39.130 0.00 0.00 43.49 4.41
1704 1732 2.093973 CCGCTCCACACTGAAAGATAGT 60.094 50.000 0.00 0.00 37.43 2.12
1713 1741 3.414700 GTTCGCCGCTCCACACTG 61.415 66.667 0.00 0.00 0.00 3.66
1714 1742 3.240134 ATGTTCGCCGCTCCACACT 62.240 57.895 0.00 0.00 0.00 3.55
1724 1752 1.570347 TACACAACCGCATGTTCGCC 61.570 55.000 0.00 0.00 34.00 5.54
1781 1823 4.730042 CACAACTCGCATGTATATTTGCAC 59.270 41.667 9.63 0.00 38.80 4.57
1786 1828 6.238456 CCAACATCACAACTCGCATGTATATT 60.238 38.462 0.00 0.00 0.00 1.28
1889 1970 7.790823 AATTTTCCACAAAAAGGAAGACATG 57.209 32.000 0.00 0.00 45.25 3.21
1890 1971 8.806429 AAAATTTTCCACAAAAAGGAAGACAT 57.194 26.923 0.00 0.00 45.25 3.06
1900 1981 6.864342 TGGAGTCGTAAAATTTTCCACAAAA 58.136 32.000 6.72 0.00 35.92 2.44
1905 1986 6.375377 CGATTTGGAGTCGTAAAATTTTCCA 58.625 36.000 6.72 4.80 34.56 3.53
1913 1994 2.459060 TGCCGATTTGGAGTCGTAAA 57.541 45.000 0.00 0.00 42.00 2.01
1921 2002 1.742831 GTGTAGCATTGCCGATTTGGA 59.257 47.619 4.70 0.00 42.00 3.53
1922 2003 1.531677 CGTGTAGCATTGCCGATTTGG 60.532 52.381 4.70 0.00 42.50 3.28
1923 2004 1.130373 ACGTGTAGCATTGCCGATTTG 59.870 47.619 4.70 0.00 0.00 2.32
1924 2005 1.448985 ACGTGTAGCATTGCCGATTT 58.551 45.000 4.70 0.00 0.00 2.17
1925 2006 1.931172 GTACGTGTAGCATTGCCGATT 59.069 47.619 4.70 0.00 0.00 3.34
1926 2007 1.134936 TGTACGTGTAGCATTGCCGAT 60.135 47.619 4.70 0.00 0.00 4.18
1927 2008 0.244178 TGTACGTGTAGCATTGCCGA 59.756 50.000 4.70 0.00 0.00 5.54
1928 2009 1.072391 TTGTACGTGTAGCATTGCCG 58.928 50.000 4.70 4.23 0.00 5.69
1929 2010 2.224549 TGTTTGTACGTGTAGCATTGCC 59.775 45.455 4.70 0.00 0.00 4.52
1930 2011 3.059188 ACTGTTTGTACGTGTAGCATTGC 60.059 43.478 0.00 0.00 0.00 3.56
1931 2012 4.725556 ACTGTTTGTACGTGTAGCATTG 57.274 40.909 0.00 0.00 0.00 2.82
1932 2013 5.744666 AAACTGTTTGTACGTGTAGCATT 57.255 34.783 4.73 0.00 0.00 3.56
1933 2014 5.754406 TGTAAACTGTTTGTACGTGTAGCAT 59.246 36.000 15.69 0.00 0.00 3.79
1934 2015 5.107824 TGTAAACTGTTTGTACGTGTAGCA 58.892 37.500 15.69 0.00 0.00 3.49
1935 2016 5.332808 CCTGTAAACTGTTTGTACGTGTAGC 60.333 44.000 15.69 0.00 0.00 3.58
1936 2017 5.332808 GCCTGTAAACTGTTTGTACGTGTAG 60.333 44.000 15.69 1.28 0.00 2.74
1937 2018 4.507388 GCCTGTAAACTGTTTGTACGTGTA 59.493 41.667 15.69 0.00 0.00 2.90
1938 2019 3.310501 GCCTGTAAACTGTTTGTACGTGT 59.689 43.478 15.69 0.00 0.00 4.49
1939 2020 3.558418 AGCCTGTAAACTGTTTGTACGTG 59.442 43.478 15.69 3.86 0.00 4.49
1940 2021 3.800531 AGCCTGTAAACTGTTTGTACGT 58.199 40.909 15.69 0.00 0.00 3.57
1941 2022 4.806342 AAGCCTGTAAACTGTTTGTACG 57.194 40.909 15.69 2.60 0.00 3.67
1942 2023 7.474190 TGTAAAAGCCTGTAAACTGTTTGTAC 58.526 34.615 15.69 7.54 0.00 2.90
1943 2024 7.553402 TCTGTAAAAGCCTGTAAACTGTTTGTA 59.447 33.333 15.69 3.94 0.00 2.41
1944 2025 6.376018 TCTGTAAAAGCCTGTAAACTGTTTGT 59.624 34.615 15.69 0.00 0.00 2.83
1945 2026 6.791303 TCTGTAAAAGCCTGTAAACTGTTTG 58.209 36.000 15.69 0.28 0.00 2.93
1946 2027 7.425606 CATCTGTAAAAGCCTGTAAACTGTTT 58.574 34.615 10.98 10.98 0.00 2.83
1947 2028 6.016276 CCATCTGTAAAAGCCTGTAAACTGTT 60.016 38.462 0.00 0.00 0.00 3.16
1948 2029 5.473504 CCATCTGTAAAAGCCTGTAAACTGT 59.526 40.000 0.00 0.00 0.00 3.55
1949 2030 5.106157 CCCATCTGTAAAAGCCTGTAAACTG 60.106 44.000 0.00 0.00 0.00 3.16
1950 2031 5.010282 CCCATCTGTAAAAGCCTGTAAACT 58.990 41.667 0.00 0.00 0.00 2.66
1951 2032 4.765339 ACCCATCTGTAAAAGCCTGTAAAC 59.235 41.667 0.00 0.00 0.00 2.01
1952 2033 4.993028 ACCCATCTGTAAAAGCCTGTAAA 58.007 39.130 0.00 0.00 0.00 2.01
1953 2034 4.650972 ACCCATCTGTAAAAGCCTGTAA 57.349 40.909 0.00 0.00 0.00 2.41
1954 2035 4.650972 AACCCATCTGTAAAAGCCTGTA 57.349 40.909 0.00 0.00 0.00 2.74
1955 2036 3.525800 AACCCATCTGTAAAAGCCTGT 57.474 42.857 0.00 0.00 0.00 4.00
1956 2037 4.589908 ACTAACCCATCTGTAAAAGCCTG 58.410 43.478 0.00 0.00 0.00 4.85
1957 2038 4.929146 ACTAACCCATCTGTAAAAGCCT 57.071 40.909 0.00 0.00 0.00 4.58
1958 2039 5.977489 AAACTAACCCATCTGTAAAAGCC 57.023 39.130 0.00 0.00 0.00 4.35
1959 2040 9.923143 AATAAAAACTAACCCATCTGTAAAAGC 57.077 29.630 0.00 0.00 0.00 3.51
1962 2043 9.369672 ACCAATAAAAACTAACCCATCTGTAAA 57.630 29.630 0.00 0.00 0.00 2.01
1963 2044 8.943594 ACCAATAAAAACTAACCCATCTGTAA 57.056 30.769 0.00 0.00 0.00 2.41
1964 2045 8.164733 TGACCAATAAAAACTAACCCATCTGTA 58.835 33.333 0.00 0.00 0.00 2.74
1965 2046 7.007723 TGACCAATAAAAACTAACCCATCTGT 58.992 34.615 0.00 0.00 0.00 3.41
1966 2047 7.461182 TGACCAATAAAAACTAACCCATCTG 57.539 36.000 0.00 0.00 0.00 2.90
1967 2048 7.507616 TGTTGACCAATAAAAACTAACCCATCT 59.492 33.333 0.00 0.00 0.00 2.90
1968 2049 7.662897 TGTTGACCAATAAAAACTAACCCATC 58.337 34.615 0.00 0.00 0.00 3.51
1969 2050 7.604657 TGTTGACCAATAAAAACTAACCCAT 57.395 32.000 0.00 0.00 0.00 4.00
1970 2051 7.124448 ACTTGTTGACCAATAAAAACTAACCCA 59.876 33.333 0.00 0.00 31.20 4.51
1971 2052 7.436970 CACTTGTTGACCAATAAAAACTAACCC 59.563 37.037 0.00 0.00 31.20 4.11
1972 2053 8.192110 TCACTTGTTGACCAATAAAAACTAACC 58.808 33.333 0.00 0.00 31.20 2.85
1973 2054 9.233232 CTCACTTGTTGACCAATAAAAACTAAC 57.767 33.333 0.00 0.00 31.20 2.34
1974 2055 7.918562 GCTCACTTGTTGACCAATAAAAACTAA 59.081 33.333 0.00 0.00 31.20 2.24
1975 2056 7.422399 GCTCACTTGTTGACCAATAAAAACTA 58.578 34.615 0.00 0.00 31.20 2.24
1976 2057 6.273071 GCTCACTTGTTGACCAATAAAAACT 58.727 36.000 0.00 0.00 31.20 2.66
1977 2058 5.173131 CGCTCACTTGTTGACCAATAAAAAC 59.827 40.000 0.00 0.00 31.20 2.43
1978 2059 5.277825 CGCTCACTTGTTGACCAATAAAAA 58.722 37.500 0.00 0.00 31.20 1.94
1979 2060 4.261405 CCGCTCACTTGTTGACCAATAAAA 60.261 41.667 0.00 0.00 31.20 1.52
1980 2061 3.252215 CCGCTCACTTGTTGACCAATAAA 59.748 43.478 0.00 0.00 31.20 1.40
1981 2062 2.811431 CCGCTCACTTGTTGACCAATAA 59.189 45.455 0.00 0.00 31.20 1.40
1982 2063 2.422597 CCGCTCACTTGTTGACCAATA 58.577 47.619 0.00 0.00 31.20 1.90
1983 2064 1.238439 CCGCTCACTTGTTGACCAAT 58.762 50.000 0.00 0.00 31.20 3.16
1984 2065 0.817634 CCCGCTCACTTGTTGACCAA 60.818 55.000 0.00 0.00 0.00 3.67
1985 2066 1.227823 CCCGCTCACTTGTTGACCA 60.228 57.895 0.00 0.00 0.00 4.02
1986 2067 1.070786 TCCCGCTCACTTGTTGACC 59.929 57.895 0.00 0.00 0.00 4.02
1987 2068 1.557443 CGTCCCGCTCACTTGTTGAC 61.557 60.000 0.00 0.00 0.00 3.18
1988 2069 1.300620 CGTCCCGCTCACTTGTTGA 60.301 57.895 0.00 0.00 0.00 3.18
1989 2070 2.317609 CCGTCCCGCTCACTTGTTG 61.318 63.158 0.00 0.00 0.00 3.33
1990 2071 2.030562 CCGTCCCGCTCACTTGTT 59.969 61.111 0.00 0.00 0.00 2.83
1991 2072 4.681978 GCCGTCCCGCTCACTTGT 62.682 66.667 0.00 0.00 0.00 3.16
1994 2075 4.753662 TAGGCCGTCCCGCTCACT 62.754 66.667 0.00 0.00 39.21 3.41
1995 2076 4.509737 GTAGGCCGTCCCGCTCAC 62.510 72.222 0.00 0.00 39.21 3.51
2002 2083 3.793888 CAAGGGGGTAGGCCGTCC 61.794 72.222 10.20 10.20 34.97 4.79
2003 2084 1.844544 TTTCAAGGGGGTAGGCCGTC 61.845 60.000 0.00 0.00 34.97 4.79
2004 2085 1.428718 TTTTCAAGGGGGTAGGCCGT 61.429 55.000 0.00 0.00 34.97 5.68
2005 2086 0.033503 ATTTTCAAGGGGGTAGGCCG 60.034 55.000 0.00 0.00 34.97 6.13
2006 2087 1.776662 GATTTTCAAGGGGGTAGGCC 58.223 55.000 0.00 0.00 0.00 5.19
2007 2088 1.389555 CGATTTTCAAGGGGGTAGGC 58.610 55.000 0.00 0.00 0.00 3.93
2008 2089 1.562475 TCCGATTTTCAAGGGGGTAGG 59.438 52.381 0.00 0.00 0.00 3.18
2009 2090 2.421529 CCTCCGATTTTCAAGGGGGTAG 60.422 54.545 0.00 0.00 40.80 3.18
2010 2091 1.562475 CCTCCGATTTTCAAGGGGGTA 59.438 52.381 0.00 0.00 40.80 3.69
2011 2092 0.331616 CCTCCGATTTTCAAGGGGGT 59.668 55.000 0.00 0.00 40.80 4.95
2012 2093 0.395724 CCCTCCGATTTTCAAGGGGG 60.396 60.000 0.00 0.00 44.09 5.40
2013 2094 3.191182 CCCTCCGATTTTCAAGGGG 57.809 57.895 0.00 0.00 44.09 4.79
2014 2095 0.623723 TCCCCTCCGATTTTCAAGGG 59.376 55.000 0.00 0.00 46.85 3.95
2015 2096 1.408822 CCTCCCCTCCGATTTTCAAGG 60.409 57.143 0.00 0.00 0.00 3.61
2016 2097 1.408822 CCCTCCCCTCCGATTTTCAAG 60.409 57.143 0.00 0.00 0.00 3.02
2017 2098 0.623723 CCCTCCCCTCCGATTTTCAA 59.376 55.000 0.00 0.00 0.00 2.69
2018 2099 1.279025 CCCCTCCCCTCCGATTTTCA 61.279 60.000 0.00 0.00 0.00 2.69
2019 2100 1.532238 CCCCTCCCCTCCGATTTTC 59.468 63.158 0.00 0.00 0.00 2.29
2020 2101 2.006991 CCCCCTCCCCTCCGATTTT 61.007 63.158 0.00 0.00 0.00 1.82
2021 2102 2.368329 CCCCCTCCCCTCCGATTT 60.368 66.667 0.00 0.00 0.00 2.17
2036 2117 0.114364 ACCAATCACAAACCTCCCCC 59.886 55.000 0.00 0.00 0.00 5.40
2037 2118 1.618343 CAACCAATCACAAACCTCCCC 59.382 52.381 0.00 0.00 0.00 4.81
2038 2119 2.316108 ACAACCAATCACAAACCTCCC 58.684 47.619 0.00 0.00 0.00 4.30
2039 2120 4.825085 TCTAACAACCAATCACAAACCTCC 59.175 41.667 0.00 0.00 0.00 4.30
2040 2121 6.206634 TCATCTAACAACCAATCACAAACCTC 59.793 38.462 0.00 0.00 0.00 3.85
2041 2122 6.068010 TCATCTAACAACCAATCACAAACCT 58.932 36.000 0.00 0.00 0.00 3.50
2042 2123 6.325919 TCATCTAACAACCAATCACAAACC 57.674 37.500 0.00 0.00 0.00 3.27
2043 2124 8.641499 TTTTCATCTAACAACCAATCACAAAC 57.359 30.769 0.00 0.00 0.00 2.93
2044 2125 8.690884 TCTTTTCATCTAACAACCAATCACAAA 58.309 29.630 0.00 0.00 0.00 2.83
2045 2126 8.231692 TCTTTTCATCTAACAACCAATCACAA 57.768 30.769 0.00 0.00 0.00 3.33
2046 2127 7.522073 GCTCTTTTCATCTAACAACCAATCACA 60.522 37.037 0.00 0.00 0.00 3.58
2047 2128 6.803807 GCTCTTTTCATCTAACAACCAATCAC 59.196 38.462 0.00 0.00 0.00 3.06
2048 2129 6.716628 AGCTCTTTTCATCTAACAACCAATCA 59.283 34.615 0.00 0.00 0.00 2.57
2049 2130 7.150783 AGCTCTTTTCATCTAACAACCAATC 57.849 36.000 0.00 0.00 0.00 2.67
2050 2131 7.014615 ACAAGCTCTTTTCATCTAACAACCAAT 59.985 33.333 0.00 0.00 0.00 3.16
2051 2132 6.321181 ACAAGCTCTTTTCATCTAACAACCAA 59.679 34.615 0.00 0.00 0.00 3.67
2052 2133 5.827797 ACAAGCTCTTTTCATCTAACAACCA 59.172 36.000 0.00 0.00 0.00 3.67
2053 2134 6.319141 ACAAGCTCTTTTCATCTAACAACC 57.681 37.500 0.00 0.00 0.00 3.77
2054 2135 9.730420 TTTTACAAGCTCTTTTCATCTAACAAC 57.270 29.630 0.00 0.00 0.00 3.32
2055 2136 9.950680 CTTTTACAAGCTCTTTTCATCTAACAA 57.049 29.630 0.00 0.00 0.00 2.83
2088 2169 9.846248 GTCAAAAATGCTAGACATACAAAGATT 57.154 29.630 0.00 0.00 38.34 2.40
2089 2170 9.236006 AGTCAAAAATGCTAGACATACAAAGAT 57.764 29.630 0.00 0.00 38.34 2.40
2090 2171 8.621532 AGTCAAAAATGCTAGACATACAAAGA 57.378 30.769 0.00 0.00 38.34 2.52
2091 2172 7.965107 GGAGTCAAAAATGCTAGACATACAAAG 59.035 37.037 0.00 0.00 38.34 2.77
2092 2173 7.446931 TGGAGTCAAAAATGCTAGACATACAAA 59.553 33.333 0.00 0.00 38.34 2.83
2093 2174 6.939730 TGGAGTCAAAAATGCTAGACATACAA 59.060 34.615 0.00 0.00 38.34 2.41
2094 2175 6.472016 TGGAGTCAAAAATGCTAGACATACA 58.528 36.000 0.00 0.00 38.34 2.29
2095 2176 6.985188 TGGAGTCAAAAATGCTAGACATAC 57.015 37.500 0.00 0.00 38.34 2.39
2096 2177 7.994425 TTTGGAGTCAAAAATGCTAGACATA 57.006 32.000 0.00 0.00 39.64 2.29
2097 2178 6.899393 TTTGGAGTCAAAAATGCTAGACAT 57.101 33.333 0.00 0.00 39.64 3.06
2098 2179 6.071952 GGATTTGGAGTCAAAAATGCTAGACA 60.072 38.462 12.10 0.00 44.83 3.41
2099 2180 6.151817 AGGATTTGGAGTCAAAAATGCTAGAC 59.848 38.462 17.43 0.00 44.83 2.59
2100 2181 6.248433 AGGATTTGGAGTCAAAAATGCTAGA 58.752 36.000 17.43 0.00 44.83 2.43
2101 2182 6.405176 GGAGGATTTGGAGTCAAAAATGCTAG 60.405 42.308 18.35 0.00 42.35 3.42
2102 2183 5.418840 GGAGGATTTGGAGTCAAAAATGCTA 59.581 40.000 18.35 0.00 42.35 3.49
2103 2184 4.221482 GGAGGATTTGGAGTCAAAAATGCT 59.779 41.667 18.37 18.37 44.18 3.79
2104 2185 4.221482 AGGAGGATTTGGAGTCAAAAATGC 59.779 41.667 11.67 11.67 44.83 3.56
2105 2186 5.392380 CGAGGAGGATTTGGAGTCAAAAATG 60.392 44.000 7.54 0.00 44.83 2.32
2106 2187 4.702131 CGAGGAGGATTTGGAGTCAAAAAT 59.298 41.667 0.00 0.00 44.83 1.82
2107 2188 4.072131 CGAGGAGGATTTGGAGTCAAAAA 58.928 43.478 0.00 0.00 44.83 1.94
2108 2189 3.559171 CCGAGGAGGATTTGGAGTCAAAA 60.559 47.826 0.00 0.00 44.83 2.44
2109 2190 2.027192 CCGAGGAGGATTTGGAGTCAAA 60.027 50.000 0.00 0.00 45.61 2.69
2110 2191 1.555075 CCGAGGAGGATTTGGAGTCAA 59.445 52.381 0.00 0.00 45.00 3.18
2111 2192 1.195115 CCGAGGAGGATTTGGAGTCA 58.805 55.000 0.00 0.00 45.00 3.41
2112 2193 0.179070 GCCGAGGAGGATTTGGAGTC 60.179 60.000 0.00 0.00 45.00 3.36
2113 2194 0.909610 TGCCGAGGAGGATTTGGAGT 60.910 55.000 0.00 0.00 45.00 3.85
2114 2195 0.471617 ATGCCGAGGAGGATTTGGAG 59.528 55.000 0.00 0.00 45.00 3.86
2115 2196 0.181114 CATGCCGAGGAGGATTTGGA 59.819 55.000 0.00 0.00 45.00 3.53
2123 2204 0.247460 TGACTTGTCATGCCGAGGAG 59.753 55.000 0.00 0.00 0.00 3.69
2169 2250 5.882557 CAGCCTATCAAGTGGTGAAAAGTAT 59.117 40.000 0.00 0.00 40.50 2.12
2181 2262 2.437281 CCATGAGACCAGCCTATCAAGT 59.563 50.000 0.00 0.00 0.00 3.16
2251 2333 1.186200 GTTCCAATCCAAAGAGGCCC 58.814 55.000 0.00 0.00 37.29 5.80
2252 2334 0.811281 CGTTCCAATCCAAAGAGGCC 59.189 55.000 0.00 0.00 37.29 5.19
2352 2446 6.267699 CCGGTAGCAATCCATAGGATATGATA 59.732 42.308 0.00 1.57 42.27 2.15
2375 2469 4.947388 TGAGGATTCCAATCTTTTTACCCG 59.053 41.667 5.29 0.00 35.73 5.28
2401 2501 4.569564 GGCCGTAAGATATTCACGAAAAGT 59.430 41.667 0.00 0.00 37.89 2.66
2423 2523 0.991920 TTGTCTAGGGCCTCTTTGGG 59.008 55.000 10.74 0.00 36.00 4.12
2471 2571 2.094026 AGTCGTGACAGCTGCATATGAA 60.094 45.455 15.27 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.