Multiple sequence alignment - TraesCS6A01G345600

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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 TraesCS6A01G345600 chr6A 100.000 2447 0 0 1 2447 579125157 579122711 0.000000e+00 4519.0
1 TraesCS6A01G345600 chr6A 89.283 1577 148 9 141 1705 579143227 579141660 0.000000e+00 1956.0
2 TraesCS6A01G345600 chr6A 92.424 66 4 1 2302 2366 579139360 579139295 2.590000e-15 93.5
3 TraesCS6A01G345600 chr6B 93.734 1963 92 11 1 1933 653856781 653854820 0.000000e+00 2915.0
4 TraesCS6A01G345600 chr6B 90.294 2009 150 18 1 1972 653715894 653713894 0.000000e+00 2588.0
5 TraesCS6A01G345600 chr6B 92.110 1521 97 6 1 1502 653195065 653193549 0.000000e+00 2122.0
6 TraesCS6A01G345600 chr6B 89.270 1575 153 5 141 1705 653872740 653871172 0.000000e+00 1958.0
7 TraesCS6A01G345600 chr6B 90.161 1057 88 6 750 1796 653698578 653697528 0.000000e+00 1362.0
8 TraesCS6A01G345600 chr6B 88.631 431 25 8 1499 1906 653187459 653187030 1.010000e-138 503.0
9 TraesCS6A01G345600 chr6B 93.913 115 5 1 2254 2366 653186813 653186699 3.230000e-39 172.0
10 TraesCS6A01G345600 chr6B 91.525 118 5 1 2254 2366 653854578 653854461 9.060000e-35 158.0
11 TraesCS6A01G345600 chr6B 94.937 79 4 0 2363 2441 653854112 653854034 9.190000e-25 124.0
12 TraesCS6A01G345600 chr6B 95.588 68 3 0 2379 2446 653186332 653186265 2.570000e-20 110.0
13 TraesCS6A01G345600 chr6B 90.000 80 8 0 2366 2445 653231370 653231291 1.200000e-18 104.0
14 TraesCS6A01G345600 chr6B 96.610 59 2 0 1925 1983 653854634 653854576 5.570000e-17 99.0
15 TraesCS6A01G345600 chr6B 95.082 61 3 0 2306 2366 653713827 653713767 2.000000e-16 97.1
16 TraesCS6A01G345600 chr6B 92.424 66 4 1 2302 2366 653696674 653696609 2.590000e-15 93.5
17 TraesCS6A01G345600 chr6D 93.250 1926 100 15 1 1900 432914686 432912765 0.000000e+00 2809.0
18 TraesCS6A01G345600 chr6D 90.232 2027 141 20 1 1980 433259372 433257356 0.000000e+00 2593.0
19 TraesCS6A01G345600 chr6D 89.089 1668 169 4 141 1798 433155432 433153768 0.000000e+00 2060.0
20 TraesCS6A01G345600 chr6D 89.089 1668 166 6 141 1798 432931619 432929958 0.000000e+00 2058.0
21 TraesCS6A01G345600 chr6D 89.367 1580 147 9 141 1708 433280766 433279196 0.000000e+00 1967.0
22 TraesCS6A01G345600 chr6D 83.688 564 62 15 1405 1942 433037324 433036765 2.810000e-139 505.0
23 TraesCS6A01G345600 chr6D 95.161 62 3 0 2303 2364 432911700 432911639 5.570000e-17 99.0
24 TraesCS6A01G345600 chr6D 92.593 54 4 0 2306 2359 433257308 433257255 7.250000e-11 78.7


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 TraesCS6A01G345600 chr6A 579122711 579125157 2446 True 4519.000000 4519 100.000000 1 2447 1 chr6A.!!$R1 2446
1 TraesCS6A01G345600 chr6A 579139295 579143227 3932 True 1024.750000 1956 90.853500 141 2366 2 chr6A.!!$R2 2225
2 TraesCS6A01G345600 chr6B 653193549 653195065 1516 True 2122.000000 2122 92.110000 1 1502 1 chr6B.!!$R1 1501
3 TraesCS6A01G345600 chr6B 653871172 653872740 1568 True 1958.000000 1958 89.270000 141 1705 1 chr6B.!!$R3 1564
4 TraesCS6A01G345600 chr6B 653713767 653715894 2127 True 1342.550000 2588 92.688000 1 2366 2 chr6B.!!$R6 2365
5 TraesCS6A01G345600 chr6B 653854034 653856781 2747 True 824.000000 2915 94.201500 1 2441 4 chr6B.!!$R7 2440
6 TraesCS6A01G345600 chr6B 653696609 653698578 1969 True 727.750000 1362 91.292500 750 2366 2 chr6B.!!$R5 1616
7 TraesCS6A01G345600 chr6B 653186265 653187459 1194 True 261.666667 503 92.710667 1499 2446 3 chr6B.!!$R4 947
8 TraesCS6A01G345600 chr6D 433153768 433155432 1664 True 2060.000000 2060 89.089000 141 1798 1 chr6D.!!$R3 1657
9 TraesCS6A01G345600 chr6D 432929958 432931619 1661 True 2058.000000 2058 89.089000 141 1798 1 chr6D.!!$R1 1657
10 TraesCS6A01G345600 chr6D 433279196 433280766 1570 True 1967.000000 1967 89.367000 141 1708 1 chr6D.!!$R4 1567
11 TraesCS6A01G345600 chr6D 432911639 432914686 3047 True 1454.000000 2809 94.205500 1 2364 2 chr6D.!!$R5 2363
12 TraesCS6A01G345600 chr6D 433257255 433259372 2117 True 1335.850000 2593 91.412500 1 2359 2 chr6D.!!$R6 2358
13 TraesCS6A01G345600 chr6D 433036765 433037324 559 True 505.000000 505 83.688000 1405 1942 1 chr6D.!!$R2 537

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
319 337 0.036577 AGACCAGCAGTAGCAAGCAG 60.037 55.0 0.0 0.0 45.49 4.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2154 4963 0.0297 ACCGTGGTTTTTGTTAGCGC 59.97 50.0 0.0 0.0 0.0 5.92 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
202 220 0.443869 GACGTACTTCACCGCTACGA 59.556 55.000 6.45 0.00 37.34 3.43
319 337 0.036577 AGACCAGCAGTAGCAAGCAG 60.037 55.000 0.00 0.00 45.49 4.24
497 520 5.241064 GTGTACAAGGACACTACTGAGAAGA 59.759 44.000 8.30 0.00 45.21 2.87
744 768 1.774856 ACCAAAGGTGCAGTTACTCCT 59.225 47.619 0.00 0.00 32.98 3.69
930 956 4.335416 AGCTCAAAACTGGCAAGCTAATA 58.665 39.130 7.31 0.00 41.32 0.98
996 1022 1.420138 GACCAAGGTTGTGAAGGAGGA 59.580 52.381 0.00 0.00 0.00 3.71
1131 1157 4.439289 GCAACCATCAAAAGCTATGAGGAC 60.439 45.833 13.77 5.68 30.48 3.85
1221 1247 3.371034 TGGAGGAGATATGACGTTCCAA 58.629 45.455 4.61 0.00 32.02 3.53
1363 1389 0.179004 AACAACATGGGGCGAGAACA 60.179 50.000 0.00 0.00 0.00 3.18
1436 1462 1.635487 TGCAATGGAGCCTTCTTACCT 59.365 47.619 0.00 0.00 0.00 3.08
1457 1483 4.081752 CCTCACTGCATAGAAAGAGTGTCT 60.082 45.833 0.00 0.00 37.63 3.41
1458 1484 5.065704 TCACTGCATAGAAAGAGTGTCTC 57.934 43.478 0.00 0.00 37.63 3.36
1508 1534 7.652909 ACAAATATCAAATAATTGCCCACATCG 59.347 33.333 0.00 0.00 36.45 3.84
1798 2008 9.476202 GATTTGTAAATAAAAGTTGAAGCCTGT 57.524 29.630 0.00 0.00 0.00 4.00
1832 2065 9.465199 TGAATCTTGAGGAAATGAATTATGACA 57.535 29.630 0.00 0.00 0.00 3.58
1871 2105 5.514136 CCAATTACTGTTGTCCTGGTCCTTA 60.514 44.000 0.00 0.00 0.00 2.69
1890 2124 0.535102 AAACCCTCAACACCAGAGCG 60.535 55.000 0.00 0.00 0.00 5.03
1900 2185 2.043450 CCAGAGCGTCCTCTCCCT 60.043 66.667 0.00 0.00 45.21 4.20
1972 4781 9.477484 TTTAACAAACTAAAACTTGTGCTTTCA 57.523 25.926 0.00 0.00 35.95 2.69
1980 4789 8.903820 ACTAAAACTTGTGCTTTCATAGAGTTT 58.096 29.630 0.00 0.00 0.00 2.66
1981 4790 9.736023 CTAAAACTTGTGCTTTCATAGAGTTTT 57.264 29.630 13.60 13.60 39.33 2.43
1983 4792 9.516314 AAAACTTGTGCTTTCATAGAGTTTTAC 57.484 29.630 8.92 0.00 35.89 2.01
1984 4793 6.888430 ACTTGTGCTTTCATAGAGTTTTACG 58.112 36.000 0.00 0.00 0.00 3.18
1985 4794 6.704493 ACTTGTGCTTTCATAGAGTTTTACGA 59.296 34.615 0.00 0.00 0.00 3.43
1986 4795 6.462073 TGTGCTTTCATAGAGTTTTACGAC 57.538 37.500 0.00 0.00 0.00 4.34
1987 4796 5.118050 TGTGCTTTCATAGAGTTTTACGACG 59.882 40.000 0.00 0.00 0.00 5.12
1988 4797 4.090930 TGCTTTCATAGAGTTTTACGACGC 59.909 41.667 0.00 0.00 0.00 5.19
1989 4798 4.775083 GCTTTCATAGAGTTTTACGACGCG 60.775 45.833 3.53 3.53 0.00 6.01
1990 4799 3.476295 TCATAGAGTTTTACGACGCGT 57.524 42.857 13.85 13.85 44.35 6.01
1991 4800 3.825308 TCATAGAGTTTTACGACGCGTT 58.175 40.909 15.53 0.00 41.54 4.84
1992 4801 4.229096 TCATAGAGTTTTACGACGCGTTT 58.771 39.130 15.53 6.34 41.54 3.60
1993 4802 2.916735 AGAGTTTTACGACGCGTTTG 57.083 45.000 15.53 12.46 41.54 2.93
1994 4803 1.523934 AGAGTTTTACGACGCGTTTGG 59.476 47.619 15.53 8.91 41.54 3.28
1995 4804 1.258720 GAGTTTTACGACGCGTTTGGT 59.741 47.619 15.53 14.81 41.54 3.67
1996 4805 1.665169 AGTTTTACGACGCGTTTGGTT 59.335 42.857 15.53 0.00 41.54 3.67
1997 4806 2.029107 GTTTTACGACGCGTTTGGTTC 58.971 47.619 15.53 0.00 41.54 3.62
1998 4807 0.581053 TTTACGACGCGTTTGGTTCC 59.419 50.000 15.53 0.00 41.54 3.62
1999 4808 1.547292 TTACGACGCGTTTGGTTCCG 61.547 55.000 15.53 13.35 41.54 4.30
2000 4809 4.712873 CGACGCGTTTGGTTCCGC 62.713 66.667 15.53 0.00 46.10 5.54
2005 4814 4.607024 CGTTTGGTTCCGCACAAG 57.393 55.556 0.00 0.00 0.00 3.16
2006 4815 1.725066 CGTTTGGTTCCGCACAAGT 59.275 52.632 0.00 0.00 0.00 3.16
2007 4816 0.938713 CGTTTGGTTCCGCACAAGTA 59.061 50.000 0.00 0.00 0.00 2.24
2008 4817 1.331138 CGTTTGGTTCCGCACAAGTAA 59.669 47.619 0.00 0.00 0.00 2.24
2009 4818 2.031508 CGTTTGGTTCCGCACAAGTAAT 60.032 45.455 0.00 0.00 0.00 1.89
2010 4819 3.305110 GTTTGGTTCCGCACAAGTAATG 58.695 45.455 0.00 0.00 0.00 1.90
2011 4820 2.264005 TGGTTCCGCACAAGTAATGT 57.736 45.000 0.00 0.00 45.34 2.71
2012 4821 3.404224 TGGTTCCGCACAAGTAATGTA 57.596 42.857 0.00 0.00 41.46 2.29
2013 4822 3.945346 TGGTTCCGCACAAGTAATGTAT 58.055 40.909 0.00 0.00 41.46 2.29
2014 4823 4.328536 TGGTTCCGCACAAGTAATGTATT 58.671 39.130 0.00 0.00 41.46 1.89
2015 4824 4.393680 TGGTTCCGCACAAGTAATGTATTC 59.606 41.667 0.00 0.00 41.46 1.75
2016 4825 4.393680 GGTTCCGCACAAGTAATGTATTCA 59.606 41.667 0.00 0.00 41.46 2.57
2017 4826 5.065988 GGTTCCGCACAAGTAATGTATTCAT 59.934 40.000 0.00 0.00 41.46 2.57
2018 4827 6.404293 GGTTCCGCACAAGTAATGTATTCATT 60.404 38.462 2.93 2.93 41.46 2.57
2019 4828 6.117911 TCCGCACAAGTAATGTATTCATTG 57.882 37.500 7.74 0.00 43.17 2.82
2020 4829 5.645929 TCCGCACAAGTAATGTATTCATTGT 59.354 36.000 7.74 0.00 43.17 2.71
2021 4830 6.819146 TCCGCACAAGTAATGTATTCATTGTA 59.181 34.615 7.74 0.00 43.17 2.41
2022 4831 7.334671 TCCGCACAAGTAATGTATTCATTGTAA 59.665 33.333 7.74 0.00 43.17 2.41
2023 4832 7.639850 CCGCACAAGTAATGTATTCATTGTAAG 59.360 37.037 7.74 0.00 43.17 2.34
2024 4833 8.175069 CGCACAAGTAATGTATTCATTGTAAGT 58.825 33.333 7.74 0.00 43.17 2.24
2025 4834 9.490663 GCACAAGTAATGTATTCATTGTAAGTC 57.509 33.333 7.74 0.00 43.17 3.01
2030 4839 9.823647 AGTAATGTATTCATTGTAAGTCTCCAG 57.176 33.333 7.74 0.00 43.17 3.86
2031 4840 9.046296 GTAATGTATTCATTGTAAGTCTCCAGG 57.954 37.037 7.74 0.00 43.17 4.45
2032 4841 6.867519 TGTATTCATTGTAAGTCTCCAGGA 57.132 37.500 0.00 0.00 0.00 3.86
2033 4842 7.252612 TGTATTCATTGTAAGTCTCCAGGAA 57.747 36.000 0.00 0.00 0.00 3.36
2034 4843 7.331026 TGTATTCATTGTAAGTCTCCAGGAAG 58.669 38.462 0.00 0.00 0.00 3.46
2035 4844 4.207891 TCATTGTAAGTCTCCAGGAAGC 57.792 45.455 0.00 0.00 0.00 3.86
2036 4845 2.743636 TTGTAAGTCTCCAGGAAGCG 57.256 50.000 0.00 0.00 0.00 4.68
2037 4846 0.246635 TGTAAGTCTCCAGGAAGCGC 59.753 55.000 0.00 0.00 0.00 5.92
2038 4847 0.460459 GTAAGTCTCCAGGAAGCGCC 60.460 60.000 2.29 0.00 0.00 6.53
2039 4848 1.945354 TAAGTCTCCAGGAAGCGCCG 61.945 60.000 2.29 0.00 43.43 6.46
2057 4866 1.383120 CGCGTCGGAATACTCTTACG 58.617 55.000 0.00 0.00 34.70 3.18
2058 4867 1.267732 CGCGTCGGAATACTCTTACGT 60.268 52.381 0.00 0.00 34.34 3.57
2059 4868 2.033747 CGCGTCGGAATACTCTTACGTA 60.034 50.000 0.00 0.00 34.34 3.57
2060 4869 3.544048 CGCGTCGGAATACTCTTACGTAA 60.544 47.826 7.94 7.94 34.34 3.18
2061 4870 4.531332 GCGTCGGAATACTCTTACGTAAT 58.469 43.478 8.76 0.00 34.34 1.89
2062 4871 4.378030 GCGTCGGAATACTCTTACGTAATG 59.622 45.833 8.76 7.60 34.34 1.90
2063 4872 4.378030 CGTCGGAATACTCTTACGTAATGC 59.622 45.833 8.76 0.00 0.00 3.56
2064 4873 5.276270 GTCGGAATACTCTTACGTAATGCA 58.724 41.667 8.76 0.00 0.00 3.96
2065 4874 5.172771 GTCGGAATACTCTTACGTAATGCAC 59.827 44.000 8.76 0.00 0.00 4.57
2077 4886 3.569250 GTAATGCACGGATTGTTTGGT 57.431 42.857 0.00 0.00 0.00 3.67
2078 4887 3.908213 GTAATGCACGGATTGTTTGGTT 58.092 40.909 0.00 0.00 0.00 3.67
2079 4888 2.723124 ATGCACGGATTGTTTGGTTC 57.277 45.000 0.00 0.00 0.00 3.62
2080 4889 0.671251 TGCACGGATTGTTTGGTTCC 59.329 50.000 0.00 0.00 0.00 3.62
2081 4890 0.958822 GCACGGATTGTTTGGTTCCT 59.041 50.000 0.00 0.00 0.00 3.36
2082 4891 1.339929 GCACGGATTGTTTGGTTCCTT 59.660 47.619 0.00 0.00 0.00 3.36
2083 4892 2.223947 GCACGGATTGTTTGGTTCCTTT 60.224 45.455 0.00 0.00 0.00 3.11
2084 4893 3.380142 CACGGATTGTTTGGTTCCTTTG 58.620 45.455 0.00 0.00 0.00 2.77
2085 4894 3.028130 ACGGATTGTTTGGTTCCTTTGT 58.972 40.909 0.00 0.00 0.00 2.83
2086 4895 3.067601 ACGGATTGTTTGGTTCCTTTGTC 59.932 43.478 0.00 0.00 0.00 3.18
2087 4896 3.317993 CGGATTGTTTGGTTCCTTTGTCT 59.682 43.478 0.00 0.00 0.00 3.41
2088 4897 4.556699 CGGATTGTTTGGTTCCTTTGTCTC 60.557 45.833 0.00 0.00 0.00 3.36
2089 4898 4.340950 GGATTGTTTGGTTCCTTTGTCTCA 59.659 41.667 0.00 0.00 0.00 3.27
2090 4899 5.163457 GGATTGTTTGGTTCCTTTGTCTCAA 60.163 40.000 0.00 0.00 0.00 3.02
2091 4900 5.730296 TTGTTTGGTTCCTTTGTCTCAAA 57.270 34.783 0.00 0.00 0.00 2.69
2092 4901 5.066968 TGTTTGGTTCCTTTGTCTCAAAC 57.933 39.130 0.00 0.00 42.18 2.93
2093 4902 4.770010 TGTTTGGTTCCTTTGTCTCAAACT 59.230 37.500 14.81 0.00 42.27 2.66
2094 4903 4.981806 TTGGTTCCTTTGTCTCAAACTG 57.018 40.909 0.00 0.00 0.00 3.16
2095 4904 3.963129 TGGTTCCTTTGTCTCAAACTGT 58.037 40.909 0.00 0.00 0.00 3.55
2096 4905 4.340617 TGGTTCCTTTGTCTCAAACTGTT 58.659 39.130 0.00 0.00 0.00 3.16
2097 4906 4.770010 TGGTTCCTTTGTCTCAAACTGTTT 59.230 37.500 0.00 0.00 0.00 2.83
2098 4907 5.245075 TGGTTCCTTTGTCTCAAACTGTTTT 59.755 36.000 2.41 0.00 0.00 2.43
2099 4908 5.805486 GGTTCCTTTGTCTCAAACTGTTTTC 59.195 40.000 2.41 0.00 0.00 2.29
2100 4909 6.350194 GGTTCCTTTGTCTCAAACTGTTTTCT 60.350 38.462 2.41 0.00 0.00 2.52
2101 4910 7.148137 GGTTCCTTTGTCTCAAACTGTTTTCTA 60.148 37.037 2.41 0.00 0.00 2.10
2102 4911 7.931578 TCCTTTGTCTCAAACTGTTTTCTAA 57.068 32.000 2.41 0.00 0.00 2.10
2103 4912 7.758495 TCCTTTGTCTCAAACTGTTTTCTAAC 58.242 34.615 2.41 1.19 34.75 2.34
2104 4913 6.972901 CCTTTGTCTCAAACTGTTTTCTAACC 59.027 38.462 2.41 0.00 33.15 2.85
2105 4914 6.445357 TTGTCTCAAACTGTTTTCTAACCC 57.555 37.500 2.41 0.00 33.15 4.11
2106 4915 5.502079 TGTCTCAAACTGTTTTCTAACCCA 58.498 37.500 2.41 0.00 33.15 4.51
2107 4916 5.355910 TGTCTCAAACTGTTTTCTAACCCAC 59.644 40.000 2.41 0.00 33.15 4.61
2108 4917 4.573201 TCTCAAACTGTTTTCTAACCCACG 59.427 41.667 2.41 0.00 33.15 4.94
2109 4918 4.515361 TCAAACTGTTTTCTAACCCACGA 58.485 39.130 2.41 0.00 33.15 4.35
2110 4919 4.333372 TCAAACTGTTTTCTAACCCACGAC 59.667 41.667 2.41 0.00 33.15 4.34
2111 4920 2.476821 ACTGTTTTCTAACCCACGACG 58.523 47.619 0.00 0.00 33.15 5.12
2112 4921 2.101249 ACTGTTTTCTAACCCACGACGA 59.899 45.455 0.00 0.00 33.15 4.20
2113 4922 3.243975 ACTGTTTTCTAACCCACGACGAT 60.244 43.478 0.00 0.00 33.15 3.73
2114 4923 3.731089 TGTTTTCTAACCCACGACGATT 58.269 40.909 0.00 0.00 33.15 3.34
2115 4924 3.742369 TGTTTTCTAACCCACGACGATTC 59.258 43.478 0.00 0.00 33.15 2.52
2116 4925 5.607511 TGTTTTCTAACCCACGACGATTCG 61.608 45.833 0.00 4.14 41.20 3.34
2124 4933 2.102749 CGACGATTCGGGCGGTTA 59.897 61.111 11.29 0.00 41.89 2.85
2125 4934 2.226225 CGACGATTCGGGCGGTTAC 61.226 63.158 11.29 0.00 41.89 2.50
2126 4935 2.202650 ACGATTCGGGCGGTTACG 60.203 61.111 11.29 0.00 44.63 3.18
2127 4936 2.102749 CGATTCGGGCGGTTACGA 59.897 61.111 0.00 0.00 44.60 3.43
2128 4937 1.299620 CGATTCGGGCGGTTACGAT 60.300 57.895 0.00 0.00 44.60 3.73
2129 4938 0.872881 CGATTCGGGCGGTTACGATT 60.873 55.000 0.00 0.00 44.60 3.34
2130 4939 1.292992 GATTCGGGCGGTTACGATTT 58.707 50.000 0.00 0.00 44.60 2.17
2131 4940 1.667212 GATTCGGGCGGTTACGATTTT 59.333 47.619 0.00 0.00 44.60 1.82
2132 4941 0.797542 TTCGGGCGGTTACGATTTTG 59.202 50.000 0.00 0.00 44.60 2.44
2133 4942 0.320596 TCGGGCGGTTACGATTTTGT 60.321 50.000 0.00 0.00 44.60 2.83
2134 4943 0.179210 CGGGCGGTTACGATTTTGTG 60.179 55.000 0.00 0.00 44.60 3.33
2135 4944 1.158434 GGGCGGTTACGATTTTGTGA 58.842 50.000 0.00 0.00 44.60 3.58
2136 4945 1.536331 GGGCGGTTACGATTTTGTGAA 59.464 47.619 0.00 0.00 44.60 3.18
2137 4946 2.030981 GGGCGGTTACGATTTTGTGAAA 60.031 45.455 0.00 0.00 44.60 2.69
2138 4947 2.975193 GGCGGTTACGATTTTGTGAAAC 59.025 45.455 0.00 0.00 44.60 2.78
2139 4948 2.648431 GCGGTTACGATTTTGTGAAACG 59.352 45.455 0.00 0.00 44.60 3.60
2140 4949 3.845662 GCGGTTACGATTTTGTGAAACGT 60.846 43.478 0.00 0.00 44.60 3.99
2141 4950 4.273274 CGGTTACGATTTTGTGAAACGTT 58.727 39.130 0.00 0.00 44.60 3.99
2142 4951 4.143374 CGGTTACGATTTTGTGAAACGTTG 59.857 41.667 0.00 0.00 44.60 4.10
2143 4952 5.029654 GGTTACGATTTTGTGAAACGTTGT 58.970 37.500 0.00 0.00 42.39 3.32
2144 4953 6.190962 GGTTACGATTTTGTGAAACGTTGTA 58.809 36.000 0.00 0.00 42.39 2.41
2145 4954 6.852345 GGTTACGATTTTGTGAAACGTTGTAT 59.148 34.615 0.00 0.00 42.39 2.29
2146 4955 7.058693 GGTTACGATTTTGTGAAACGTTGTATC 59.941 37.037 0.00 0.00 42.39 2.24
2147 4956 6.050454 ACGATTTTGTGAAACGTTGTATCA 57.950 33.333 0.00 0.00 42.39 2.15
2148 4957 6.133392 ACGATTTTGTGAAACGTTGTATCAG 58.867 36.000 0.00 0.00 42.39 2.90
2149 4958 6.018588 ACGATTTTGTGAAACGTTGTATCAGA 60.019 34.615 0.00 0.00 42.39 3.27
2150 4959 6.848800 CGATTTTGTGAAACGTTGTATCAGAA 59.151 34.615 0.00 4.15 42.39 3.02
2151 4960 7.374754 CGATTTTGTGAAACGTTGTATCAGAAA 59.625 33.333 15.72 15.72 42.39 2.52
2152 4961 7.962934 TTTTGTGAAACGTTGTATCAGAAAG 57.037 32.000 17.75 0.00 42.39 2.62
2153 4962 5.090652 TGTGAAACGTTGTATCAGAAAGC 57.909 39.130 0.00 0.00 42.39 3.51
2154 4963 4.141680 GTGAAACGTTGTATCAGAAAGCG 58.858 43.478 0.00 0.00 0.00 4.68
2155 4964 2.875080 AACGTTGTATCAGAAAGCGC 57.125 45.000 0.00 0.00 0.00 5.92
2156 4965 0.713883 ACGTTGTATCAGAAAGCGCG 59.286 50.000 0.00 0.00 0.00 6.86
2157 4966 0.584054 CGTTGTATCAGAAAGCGCGC 60.584 55.000 26.66 26.66 0.00 6.86
2158 4967 0.721718 GTTGTATCAGAAAGCGCGCT 59.278 50.000 31.32 31.32 0.00 5.92
2159 4968 1.924524 GTTGTATCAGAAAGCGCGCTA 59.075 47.619 36.73 19.75 0.00 4.26
2160 4969 2.287393 TGTATCAGAAAGCGCGCTAA 57.713 45.000 36.73 17.70 0.00 3.09
2161 4970 1.924524 TGTATCAGAAAGCGCGCTAAC 59.075 47.619 36.73 28.81 0.00 2.34
2162 4971 1.924524 GTATCAGAAAGCGCGCTAACA 59.075 47.619 36.73 17.06 0.00 2.41
2163 4972 1.438651 ATCAGAAAGCGCGCTAACAA 58.561 45.000 36.73 21.35 0.00 2.83
2164 4973 1.222300 TCAGAAAGCGCGCTAACAAA 58.778 45.000 36.73 17.57 0.00 2.83
2165 4974 1.600013 TCAGAAAGCGCGCTAACAAAA 59.400 42.857 36.73 15.82 0.00 2.44
2166 4975 2.032302 TCAGAAAGCGCGCTAACAAAAA 59.968 40.909 36.73 14.07 0.00 1.94
2167 4976 2.151172 CAGAAAGCGCGCTAACAAAAAC 59.849 45.455 36.73 17.90 0.00 2.43
2168 4977 1.450533 GAAAGCGCGCTAACAAAAACC 59.549 47.619 36.73 11.44 0.00 3.27
2169 4978 0.382515 AAGCGCGCTAACAAAAACCA 59.617 45.000 36.73 0.00 0.00 3.67
2170 4979 0.317519 AGCGCGCTAACAAAAACCAC 60.318 50.000 35.79 0.00 0.00 4.16
2171 4980 1.593414 GCGCGCTAACAAAAACCACG 61.593 55.000 26.67 0.00 0.00 4.94
2172 4981 0.994737 CGCGCTAACAAAAACCACGG 60.995 55.000 5.56 0.00 0.00 4.94
2173 4982 0.029700 GCGCTAACAAAAACCACGGT 59.970 50.000 0.00 0.00 0.00 4.83
2174 4983 1.749153 CGCTAACAAAAACCACGGTG 58.251 50.000 0.00 0.00 0.00 4.94
2175 4984 1.598430 CGCTAACAAAAACCACGGTGG 60.598 52.381 25.21 25.21 45.02 4.61
2176 4985 1.866471 GCTAACAAAAACCACGGTGGC 60.866 52.381 26.62 5.05 42.67 5.01
2177 4986 0.745468 TAACAAAAACCACGGTGGCC 59.255 50.000 26.62 0.00 42.67 5.36
2188 4997 2.354188 GGTGGCCGAAACAAACGC 60.354 61.111 0.00 0.00 0.00 4.84
2189 4998 2.719354 GTGGCCGAAACAAACGCT 59.281 55.556 0.00 0.00 0.00 5.07
2190 4999 1.508808 GGTGGCCGAAACAAACGCTA 61.509 55.000 0.00 0.00 0.00 4.26
2191 5000 0.110373 GTGGCCGAAACAAACGCTAG 60.110 55.000 0.00 0.00 0.00 3.42
2192 5001 0.533308 TGGCCGAAACAAACGCTAGT 60.533 50.000 0.00 0.00 0.00 2.57
2193 5002 0.589708 GGCCGAAACAAACGCTAGTT 59.410 50.000 0.00 0.00 43.50 2.24
2194 5003 1.799994 GGCCGAAACAAACGCTAGTTA 59.200 47.619 0.00 0.00 40.18 2.24
2195 5004 2.411935 GGCCGAAACAAACGCTAGTTAC 60.412 50.000 0.00 0.00 40.18 2.50
2196 5005 2.719688 GCCGAAACAAACGCTAGTTACG 60.720 50.000 0.00 0.00 40.18 3.18
2197 5006 2.159934 CCGAAACAAACGCTAGTTACGG 60.160 50.000 0.00 0.00 40.18 4.02
2198 5007 2.472488 CGAAACAAACGCTAGTTACGGT 59.528 45.455 0.00 0.00 40.18 4.83
2199 5008 3.060339 CGAAACAAACGCTAGTTACGGTT 60.060 43.478 0.00 0.00 42.09 4.44
2200 5009 4.550639 CGAAACAAACGCTAGTTACGGTTT 60.551 41.667 0.00 0.00 38.65 3.27
2201 5010 4.880886 AACAAACGCTAGTTACGGTTTT 57.119 36.364 0.00 0.00 38.65 2.43
2202 5011 5.982465 AACAAACGCTAGTTACGGTTTTA 57.018 34.783 0.00 0.00 38.65 1.52
2203 5012 5.580911 ACAAACGCTAGTTACGGTTTTAG 57.419 39.130 0.00 0.00 38.65 1.85
2204 5013 5.288804 ACAAACGCTAGTTACGGTTTTAGA 58.711 37.500 0.00 0.00 38.65 2.10
2205 5014 5.752955 ACAAACGCTAGTTACGGTTTTAGAA 59.247 36.000 0.00 0.00 38.65 2.10
2206 5015 6.257630 ACAAACGCTAGTTACGGTTTTAGAAA 59.742 34.615 0.00 0.00 38.65 2.52
2207 5016 5.829233 ACGCTAGTTACGGTTTTAGAAAC 57.171 39.130 0.00 0.00 34.00 2.78
2208 5017 5.532557 ACGCTAGTTACGGTTTTAGAAACT 58.467 37.500 3.85 0.00 34.86 2.66
2209 5018 5.403466 ACGCTAGTTACGGTTTTAGAAACTG 59.597 40.000 10.06 10.06 32.85 3.16
2210 5019 5.615708 GCTAGTTACGGTTTTAGAAACTGC 58.384 41.667 11.25 1.82 32.85 4.40
2211 5020 5.407691 GCTAGTTACGGTTTTAGAAACTGCT 59.592 40.000 11.25 4.86 32.85 4.24
2212 5021 5.668558 AGTTACGGTTTTAGAAACTGCTG 57.331 39.130 11.25 0.00 0.00 4.41
2213 5022 4.514066 AGTTACGGTTTTAGAAACTGCTGG 59.486 41.667 11.25 0.00 0.00 4.85
2214 5023 3.202829 ACGGTTTTAGAAACTGCTGGA 57.797 42.857 11.25 0.00 0.00 3.86
2215 5024 3.547746 ACGGTTTTAGAAACTGCTGGAA 58.452 40.909 11.25 0.00 0.00 3.53
2216 5025 4.142038 ACGGTTTTAGAAACTGCTGGAAT 58.858 39.130 11.25 0.00 0.00 3.01
2217 5026 4.215613 ACGGTTTTAGAAACTGCTGGAATC 59.784 41.667 11.25 0.00 0.00 2.52
2218 5027 4.669197 CGGTTTTAGAAACTGCTGGAATCG 60.669 45.833 3.85 0.00 0.00 3.34
2219 5028 4.379499 GGTTTTAGAAACTGCTGGAATCGG 60.379 45.833 3.85 0.00 0.00 4.18
2220 5029 3.973206 TTAGAAACTGCTGGAATCGGA 57.027 42.857 0.00 0.00 0.00 4.55
2221 5030 2.859165 AGAAACTGCTGGAATCGGAA 57.141 45.000 0.00 0.00 0.00 4.30
2222 5031 2.704572 AGAAACTGCTGGAATCGGAAG 58.295 47.619 0.00 0.00 0.00 3.46
2224 5033 2.100605 AACTGCTGGAATCGGAAGAC 57.899 50.000 0.00 0.00 46.97 3.01
2225 5034 0.976641 ACTGCTGGAATCGGAAGACA 59.023 50.000 0.00 0.00 46.97 3.41
2226 5035 1.338200 ACTGCTGGAATCGGAAGACAC 60.338 52.381 0.00 0.00 46.97 3.67
2227 5036 0.036388 TGCTGGAATCGGAAGACACC 60.036 55.000 0.00 0.00 46.97 4.16
2228 5037 0.744771 GCTGGAATCGGAAGACACCC 60.745 60.000 0.00 0.00 46.97 4.61
2229 5038 0.905357 CTGGAATCGGAAGACACCCT 59.095 55.000 0.00 0.00 46.97 4.34
2230 5039 1.279271 CTGGAATCGGAAGACACCCTT 59.721 52.381 0.00 0.00 46.97 3.95
2231 5040 1.702957 TGGAATCGGAAGACACCCTTT 59.297 47.619 0.00 0.00 46.97 3.11
2232 5041 2.107552 TGGAATCGGAAGACACCCTTTT 59.892 45.455 0.00 0.00 46.97 2.27
2233 5042 3.154710 GGAATCGGAAGACACCCTTTTT 58.845 45.455 0.00 0.00 46.97 1.94
2234 5043 3.190744 GGAATCGGAAGACACCCTTTTTC 59.809 47.826 0.00 0.00 46.97 2.29
2235 5044 3.502123 ATCGGAAGACACCCTTTTTCA 57.498 42.857 0.00 0.00 46.97 2.69
2236 5045 2.846193 TCGGAAGACACCCTTTTTCAG 58.154 47.619 0.00 0.00 34.68 3.02
2237 5046 1.266989 CGGAAGACACCCTTTTTCAGC 59.733 52.381 0.00 0.00 34.68 4.26
2238 5047 1.266989 GGAAGACACCCTTTTTCAGCG 59.733 52.381 0.00 0.00 34.68 5.18
2239 5048 2.218603 GAAGACACCCTTTTTCAGCGA 58.781 47.619 0.00 0.00 34.68 4.93
2240 5049 2.341846 AGACACCCTTTTTCAGCGAA 57.658 45.000 0.00 0.00 0.00 4.70
2241 5050 1.947456 AGACACCCTTTTTCAGCGAAC 59.053 47.619 0.00 0.00 0.00 3.95
2242 5051 1.001706 GACACCCTTTTTCAGCGAACC 60.002 52.381 0.00 0.00 0.00 3.62
2243 5052 1.028905 CACCCTTTTTCAGCGAACCA 58.971 50.000 0.00 0.00 0.00 3.67
2244 5053 1.407258 CACCCTTTTTCAGCGAACCAA 59.593 47.619 0.00 0.00 0.00 3.67
2245 5054 2.104170 ACCCTTTTTCAGCGAACCAAA 58.896 42.857 0.00 0.00 0.00 3.28
2246 5055 2.159156 ACCCTTTTTCAGCGAACCAAAC 60.159 45.455 0.00 0.00 0.00 2.93
2247 5056 2.116366 CCTTTTTCAGCGAACCAAACG 58.884 47.619 0.00 0.00 0.00 3.60
2270 5086 2.095372 GTCGTTAGTGGTATGCAAAGGC 59.905 50.000 0.00 0.00 41.68 4.35
2276 5098 0.878416 TGGTATGCAAAGGCGTGTTC 59.122 50.000 0.00 0.00 45.35 3.18
2281 5103 0.749818 TGCAAAGGCGTGTTCAAGGA 60.750 50.000 0.00 0.00 45.35 3.36
2298 5120 3.524095 AGGACCCATTGTGAACATTGA 57.476 42.857 6.85 0.00 31.01 2.57
2404 5586 0.955428 GCAGGAAGACAACCATCGCA 60.955 55.000 0.00 0.00 0.00 5.10
2414 5596 4.098349 AGACAACCATCGCATTTGCATATT 59.902 37.500 3.13 0.00 42.21 1.28
2446 5628 3.599792 AACGTGCTCATTGCTGCGC 62.600 57.895 0.00 0.00 43.37 6.09
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
175 193 2.165998 GGTGAAGTACGTCTAGTGGGT 58.834 52.381 10.21 0.00 0.00 4.51
307 325 2.391616 TGATGGACTGCTTGCTACTG 57.608 50.000 0.00 0.00 0.00 2.74
319 337 2.362077 GGCCATGGTATGTTTGATGGAC 59.638 50.000 14.67 0.00 38.10 4.02
419 442 2.596346 TGCCACCATTGACAAGTCATT 58.404 42.857 3.43 0.00 39.64 2.57
519 542 1.379843 ATGAACCCGACATTGGCCC 60.380 57.895 0.00 0.00 0.00 5.80
598 621 1.797025 CCTTGAACTCCTCGTTGGTC 58.203 55.000 0.00 0.00 35.56 4.02
744 768 2.785269 ACATTGGCCCTGATCCTTGATA 59.215 45.455 0.00 0.00 0.00 2.15
841 867 4.278170 ACAACCTACACATGGTGATGTTTG 59.722 41.667 2.98 3.47 41.12 2.93
848 874 3.243367 CCAACAACAACCTACACATGGTG 60.243 47.826 0.00 0.00 37.93 4.17
930 956 1.261480 ACTCTTGCTCCGACAGTGAT 58.739 50.000 0.00 0.00 0.00 3.06
996 1022 3.055094 ACTTAAAGGCATCGTCCATGAGT 60.055 43.478 0.00 0.00 33.80 3.41
1131 1157 1.269448 CCCTCATTGTTGGTTGGAACG 59.731 52.381 0.00 0.00 0.00 3.95
1221 1247 7.176690 CCAGTCATTACTCCACCTTTGTAAAAT 59.823 37.037 0.00 0.00 31.97 1.82
1317 1343 7.364939 CCCCATGAATTCTTCAACAACCAATAT 60.365 37.037 7.05 0.00 43.95 1.28
1419 1445 3.054802 CAGTGAGGTAAGAAGGCTCCATT 60.055 47.826 0.00 0.00 0.00 3.16
1436 1462 4.524328 TGAGACACTCTTTCTATGCAGTGA 59.476 41.667 4.97 0.00 38.90 3.41
1457 1483 6.070653 TGTGCATATGAGGATATGTAGCATGA 60.071 38.462 6.97 0.00 42.48 3.07
1458 1484 6.036844 GTGTGCATATGAGGATATGTAGCATG 59.963 42.308 6.97 0.00 42.48 4.06
1647 1685 7.009907 GGCAGCATAATTCAATTTCTCTGAAAC 59.990 37.037 0.00 0.00 36.43 2.78
1666 1705 0.886563 GAAAGCACAAGAGGCAGCAT 59.113 50.000 0.00 0.00 0.00 3.79
1832 2065 5.073691 CAGTAATTGGGGGAGAGAATGGTAT 59.926 44.000 0.00 0.00 0.00 2.73
1833 2066 4.412199 CAGTAATTGGGGGAGAGAATGGTA 59.588 45.833 0.00 0.00 0.00 3.25
1844 2077 2.446435 CAGGACAACAGTAATTGGGGG 58.554 52.381 0.00 0.00 33.63 5.40
1871 2105 0.535102 CGCTCTGGTGTTGAGGGTTT 60.535 55.000 0.00 0.00 38.94 3.27
1890 2124 2.233305 TTGTAGGTCAGGGAGAGGAC 57.767 55.000 0.00 0.00 0.00 3.85
1900 2185 1.003839 CGGCTGGCTTTGTAGGTCA 60.004 57.895 0.00 0.00 0.00 4.02
1972 4781 3.365820 CCAAACGCGTCGTAAAACTCTAT 59.634 43.478 14.44 0.00 39.99 1.98
1980 4789 1.547292 CGGAACCAAACGCGTCGTAA 61.547 55.000 14.44 0.00 39.99 3.18
1981 4790 2.015627 CGGAACCAAACGCGTCGTA 61.016 57.895 14.44 0.00 39.99 3.43
1982 4791 3.332409 CGGAACCAAACGCGTCGT 61.332 61.111 14.44 6.47 43.97 4.34
1983 4792 4.712873 GCGGAACCAAACGCGTCG 62.713 66.667 14.44 11.45 46.58 5.12
1988 4797 0.938713 TACTTGTGCGGAACCAAACG 59.061 50.000 0.00 0.00 0.00 3.60
1989 4798 3.243267 ACATTACTTGTGCGGAACCAAAC 60.243 43.478 0.00 0.00 37.11 2.93
1990 4799 2.952978 ACATTACTTGTGCGGAACCAAA 59.047 40.909 0.00 0.00 37.11 3.28
1991 4800 2.577700 ACATTACTTGTGCGGAACCAA 58.422 42.857 0.00 0.00 37.11 3.67
1992 4801 2.264005 ACATTACTTGTGCGGAACCA 57.736 45.000 0.00 0.00 37.11 3.67
1993 4802 4.393680 TGAATACATTACTTGTGCGGAACC 59.606 41.667 0.00 0.00 39.48 3.62
1994 4803 5.539582 TGAATACATTACTTGTGCGGAAC 57.460 39.130 0.00 0.00 39.48 3.62
1995 4804 6.150307 ACAATGAATACATTACTTGTGCGGAA 59.850 34.615 0.00 0.00 43.76 4.30
1996 4805 5.645929 ACAATGAATACATTACTTGTGCGGA 59.354 36.000 0.00 0.00 43.76 5.54
1997 4806 5.879237 ACAATGAATACATTACTTGTGCGG 58.121 37.500 0.00 0.00 43.76 5.69
1998 4807 8.175069 ACTTACAATGAATACATTACTTGTGCG 58.825 33.333 9.94 0.00 43.76 5.34
1999 4808 9.490663 GACTTACAATGAATACATTACTTGTGC 57.509 33.333 9.94 0.00 43.76 4.57
2004 4813 9.823647 CTGGAGACTTACAATGAATACATTACT 57.176 33.333 0.00 0.00 43.76 2.24
2005 4814 9.046296 CCTGGAGACTTACAATGAATACATTAC 57.954 37.037 0.00 0.00 43.76 1.89
2006 4815 8.988060 TCCTGGAGACTTACAATGAATACATTA 58.012 33.333 0.00 0.00 43.76 1.90
2007 4816 7.861629 TCCTGGAGACTTACAATGAATACATT 58.138 34.615 0.00 0.00 46.10 2.71
2008 4817 7.437713 TCCTGGAGACTTACAATGAATACAT 57.562 36.000 0.00 0.00 38.50 2.29
2009 4818 6.867519 TCCTGGAGACTTACAATGAATACA 57.132 37.500 0.00 0.00 0.00 2.29
2010 4819 6.258947 GCTTCCTGGAGACTTACAATGAATAC 59.741 42.308 0.00 0.00 0.00 1.89
2011 4820 6.349300 GCTTCCTGGAGACTTACAATGAATA 58.651 40.000 0.00 0.00 0.00 1.75
2012 4821 5.189180 GCTTCCTGGAGACTTACAATGAAT 58.811 41.667 0.00 0.00 0.00 2.57
2013 4822 4.579869 GCTTCCTGGAGACTTACAATGAA 58.420 43.478 0.00 0.00 0.00 2.57
2014 4823 3.368427 CGCTTCCTGGAGACTTACAATGA 60.368 47.826 0.00 0.00 0.00 2.57
2015 4824 2.932614 CGCTTCCTGGAGACTTACAATG 59.067 50.000 0.00 0.00 0.00 2.82
2016 4825 2.678190 GCGCTTCCTGGAGACTTACAAT 60.678 50.000 0.00 0.00 0.00 2.71
2017 4826 1.337823 GCGCTTCCTGGAGACTTACAA 60.338 52.381 0.00 0.00 0.00 2.41
2018 4827 0.246635 GCGCTTCCTGGAGACTTACA 59.753 55.000 0.00 0.00 0.00 2.41
2019 4828 0.460459 GGCGCTTCCTGGAGACTTAC 60.460 60.000 7.64 0.00 0.00 2.34
2020 4829 1.898154 GGCGCTTCCTGGAGACTTA 59.102 57.895 7.64 0.00 0.00 2.24
2021 4830 2.665603 GGCGCTTCCTGGAGACTT 59.334 61.111 7.64 0.00 0.00 3.01
2022 4831 3.764466 CGGCGCTTCCTGGAGACT 61.764 66.667 7.64 0.00 0.00 3.24
2037 4846 1.918974 CGTAAGAGTATTCCGACGCGG 60.919 57.143 12.47 11.37 45.73 6.46
2038 4847 1.267732 ACGTAAGAGTATTCCGACGCG 60.268 52.381 3.53 3.53 43.62 6.01
2039 4848 2.465210 ACGTAAGAGTATTCCGACGC 57.535 50.000 8.77 0.00 43.62 5.19
2040 4849 4.378030 GCATTACGTAAGAGTATTCCGACG 59.622 45.833 14.25 7.66 43.62 5.12
2041 4850 5.172771 GTGCATTACGTAAGAGTATTCCGAC 59.827 44.000 14.25 0.00 43.62 4.79
2042 4851 5.276270 GTGCATTACGTAAGAGTATTCCGA 58.724 41.667 14.25 0.00 43.62 4.55
2043 4852 5.556690 GTGCATTACGTAAGAGTATTCCG 57.443 43.478 14.25 0.00 43.62 4.30
2057 4866 3.569250 ACCAAACAATCCGTGCATTAC 57.431 42.857 0.00 0.00 0.00 1.89
2058 4867 3.057174 GGAACCAAACAATCCGTGCATTA 60.057 43.478 0.00 0.00 0.00 1.90
2059 4868 2.288763 GGAACCAAACAATCCGTGCATT 60.289 45.455 0.00 0.00 0.00 3.56
2060 4869 1.272212 GGAACCAAACAATCCGTGCAT 59.728 47.619 0.00 0.00 0.00 3.96
2061 4870 0.671251 GGAACCAAACAATCCGTGCA 59.329 50.000 0.00 0.00 0.00 4.57
2062 4871 0.958822 AGGAACCAAACAATCCGTGC 59.041 50.000 0.00 0.00 38.31 5.34
2063 4872 3.181480 ACAAAGGAACCAAACAATCCGTG 60.181 43.478 0.00 0.00 38.31 4.94
2064 4873 3.028130 ACAAAGGAACCAAACAATCCGT 58.972 40.909 0.00 0.00 38.31 4.69
2065 4874 3.317993 AGACAAAGGAACCAAACAATCCG 59.682 43.478 0.00 0.00 38.31 4.18
2066 4875 4.340950 TGAGACAAAGGAACCAAACAATCC 59.659 41.667 0.00 0.00 0.00 3.01
2067 4876 5.514274 TGAGACAAAGGAACCAAACAATC 57.486 39.130 0.00 0.00 0.00 2.67
2068 4877 5.930837 TTGAGACAAAGGAACCAAACAAT 57.069 34.783 0.00 0.00 0.00 2.71
2069 4878 5.245075 AGTTTGAGACAAAGGAACCAAACAA 59.755 36.000 15.22 0.00 43.16 2.83
2070 4879 4.770010 AGTTTGAGACAAAGGAACCAAACA 59.230 37.500 15.22 0.00 43.16 2.83
2071 4880 5.102313 CAGTTTGAGACAAAGGAACCAAAC 58.898 41.667 0.00 0.00 41.88 2.93
2072 4881 4.770010 ACAGTTTGAGACAAAGGAACCAAA 59.230 37.500 0.00 0.00 0.00 3.28
2073 4882 4.340617 ACAGTTTGAGACAAAGGAACCAA 58.659 39.130 0.00 0.00 0.00 3.67
2074 4883 3.963129 ACAGTTTGAGACAAAGGAACCA 58.037 40.909 0.00 0.00 0.00 3.67
2075 4884 4.983671 AACAGTTTGAGACAAAGGAACC 57.016 40.909 0.00 0.00 0.00 3.62
2076 4885 6.621613 AGAAAACAGTTTGAGACAAAGGAAC 58.378 36.000 0.00 0.00 0.00 3.62
2077 4886 6.834168 AGAAAACAGTTTGAGACAAAGGAA 57.166 33.333 0.00 0.00 0.00 3.36
2078 4887 7.148137 GGTTAGAAAACAGTTTGAGACAAAGGA 60.148 37.037 0.00 0.00 37.34 3.36
2079 4888 6.972901 GGTTAGAAAACAGTTTGAGACAAAGG 59.027 38.462 0.00 0.00 37.34 3.11
2080 4889 6.972901 GGGTTAGAAAACAGTTTGAGACAAAG 59.027 38.462 0.00 0.00 37.34 2.77
2081 4890 6.434652 TGGGTTAGAAAACAGTTTGAGACAAA 59.565 34.615 0.00 0.00 37.34 2.83
2082 4891 5.946972 TGGGTTAGAAAACAGTTTGAGACAA 59.053 36.000 0.00 0.00 37.34 3.18
2083 4892 5.355910 GTGGGTTAGAAAACAGTTTGAGACA 59.644 40.000 0.00 0.00 37.34 3.41
2084 4893 5.503520 CGTGGGTTAGAAAACAGTTTGAGAC 60.504 44.000 0.00 0.00 37.34 3.36
2085 4894 4.573201 CGTGGGTTAGAAAACAGTTTGAGA 59.427 41.667 0.00 0.00 37.34 3.27
2086 4895 4.573201 TCGTGGGTTAGAAAACAGTTTGAG 59.427 41.667 0.00 0.00 37.34 3.02
2087 4896 4.333372 GTCGTGGGTTAGAAAACAGTTTGA 59.667 41.667 0.00 0.00 37.34 2.69
2088 4897 4.594136 GTCGTGGGTTAGAAAACAGTTTG 58.406 43.478 0.00 0.00 37.34 2.93
2089 4898 3.310501 CGTCGTGGGTTAGAAAACAGTTT 59.689 43.478 0.00 0.00 37.34 2.66
2090 4899 2.867975 CGTCGTGGGTTAGAAAACAGTT 59.132 45.455 0.00 0.00 37.34 3.16
2091 4900 2.101249 TCGTCGTGGGTTAGAAAACAGT 59.899 45.455 0.00 0.00 37.34 3.55
2092 4901 2.746269 TCGTCGTGGGTTAGAAAACAG 58.254 47.619 0.00 0.00 37.34 3.16
2093 4902 2.886862 TCGTCGTGGGTTAGAAAACA 57.113 45.000 0.00 0.00 37.34 2.83
2094 4903 3.181537 CGAATCGTCGTGGGTTAGAAAAC 60.182 47.826 0.00 0.00 42.53 2.43
2095 4904 2.988493 CGAATCGTCGTGGGTTAGAAAA 59.012 45.455 0.00 0.00 42.53 2.29
2096 4905 2.598589 CGAATCGTCGTGGGTTAGAAA 58.401 47.619 0.00 0.00 42.53 2.52
2097 4906 1.135315 CCGAATCGTCGTGGGTTAGAA 60.135 52.381 0.82 0.00 46.21 2.10
2098 4907 0.452987 CCGAATCGTCGTGGGTTAGA 59.547 55.000 0.82 0.00 46.21 2.10
2099 4908 0.526954 CCCGAATCGTCGTGGGTTAG 60.527 60.000 0.82 0.00 46.21 2.34
2100 4909 1.512230 CCCGAATCGTCGTGGGTTA 59.488 57.895 0.82 0.00 46.21 2.85
2101 4910 2.263540 CCCGAATCGTCGTGGGTT 59.736 61.111 0.82 0.00 46.21 4.11
2102 4911 4.446413 GCCCGAATCGTCGTGGGT 62.446 66.667 0.82 0.00 46.21 4.51
2105 4914 2.870667 TAACCGCCCGAATCGTCGTG 62.871 60.000 0.82 0.00 46.21 4.35
2106 4915 2.699768 TAACCGCCCGAATCGTCGT 61.700 57.895 0.82 0.00 46.21 4.34
2108 4917 2.226225 CGTAACCGCCCGAATCGTC 61.226 63.158 0.82 0.00 0.00 4.20
2109 4918 2.008268 ATCGTAACCGCCCGAATCGT 62.008 55.000 0.82 0.00 36.57 3.73
2110 4919 0.872881 AATCGTAACCGCCCGAATCG 60.873 55.000 0.00 0.00 36.57 3.34
2111 4920 1.292992 AAATCGTAACCGCCCGAATC 58.707 50.000 0.00 0.00 36.57 2.52
2112 4921 1.399089 CAAAATCGTAACCGCCCGAAT 59.601 47.619 0.00 0.00 36.57 3.34
2113 4922 0.797542 CAAAATCGTAACCGCCCGAA 59.202 50.000 0.00 0.00 36.57 4.30
2114 4923 0.320596 ACAAAATCGTAACCGCCCGA 60.321 50.000 0.00 0.00 37.51 5.14
2115 4924 0.179210 CACAAAATCGTAACCGCCCG 60.179 55.000 0.00 0.00 0.00 6.13
2116 4925 1.158434 TCACAAAATCGTAACCGCCC 58.842 50.000 0.00 0.00 0.00 6.13
2117 4926 2.973419 TTCACAAAATCGTAACCGCC 57.027 45.000 0.00 0.00 0.00 6.13
2118 4927 2.648431 CGTTTCACAAAATCGTAACCGC 59.352 45.455 0.00 0.00 0.00 5.68
2119 4928 3.864163 ACGTTTCACAAAATCGTAACCG 58.136 40.909 0.00 0.00 33.48 4.44
2120 4929 5.029654 ACAACGTTTCACAAAATCGTAACC 58.970 37.500 0.00 0.00 33.84 2.85
2121 4930 7.583401 TGATACAACGTTTCACAAAATCGTAAC 59.417 33.333 0.00 0.00 33.84 2.50
2122 4931 7.628235 TGATACAACGTTTCACAAAATCGTAA 58.372 30.769 0.00 0.00 33.84 3.18
2123 4932 7.169476 TCTGATACAACGTTTCACAAAATCGTA 59.831 33.333 0.00 0.00 33.84 3.43
2124 4933 6.018588 TCTGATACAACGTTTCACAAAATCGT 60.019 34.615 0.00 0.00 35.29 3.73
2125 4934 6.359545 TCTGATACAACGTTTCACAAAATCG 58.640 36.000 0.00 0.00 0.00 3.34
2126 4935 8.555166 TTTCTGATACAACGTTTCACAAAATC 57.445 30.769 0.00 0.00 0.00 2.17
2127 4936 7.167468 GCTTTCTGATACAACGTTTCACAAAAT 59.833 33.333 0.00 0.00 0.00 1.82
2128 4937 6.470877 GCTTTCTGATACAACGTTTCACAAAA 59.529 34.615 0.00 1.78 0.00 2.44
2129 4938 5.968848 GCTTTCTGATACAACGTTTCACAAA 59.031 36.000 0.00 0.00 0.00 2.83
2130 4939 5.507077 GCTTTCTGATACAACGTTTCACAA 58.493 37.500 0.00 0.00 0.00 3.33
2131 4940 4.318475 CGCTTTCTGATACAACGTTTCACA 60.318 41.667 0.00 0.00 0.00 3.58
2132 4941 4.141680 CGCTTTCTGATACAACGTTTCAC 58.858 43.478 0.00 0.00 0.00 3.18
2133 4942 3.363575 GCGCTTTCTGATACAACGTTTCA 60.364 43.478 0.00 0.00 0.00 2.69
2134 4943 3.153735 GCGCTTTCTGATACAACGTTTC 58.846 45.455 0.00 0.00 0.00 2.78
2135 4944 2.411031 CGCGCTTTCTGATACAACGTTT 60.411 45.455 5.56 0.00 0.00 3.60
2136 4945 1.126113 CGCGCTTTCTGATACAACGTT 59.874 47.619 5.56 0.00 0.00 3.99
2137 4946 0.713883 CGCGCTTTCTGATACAACGT 59.286 50.000 5.56 0.00 0.00 3.99
2138 4947 0.584054 GCGCGCTTTCTGATACAACG 60.584 55.000 26.67 0.00 0.00 4.10
2139 4948 0.721718 AGCGCGCTTTCTGATACAAC 59.278 50.000 31.32 0.00 0.00 3.32
2140 4949 2.287393 TAGCGCGCTTTCTGATACAA 57.713 45.000 41.04 14.65 0.00 2.41
2141 4950 1.924524 GTTAGCGCGCTTTCTGATACA 59.075 47.619 41.04 15.53 0.00 2.29
2142 4951 1.924524 TGTTAGCGCGCTTTCTGATAC 59.075 47.619 41.04 23.03 0.00 2.24
2143 4952 2.287393 TGTTAGCGCGCTTTCTGATA 57.713 45.000 41.04 17.30 0.00 2.15
2144 4953 1.438651 TTGTTAGCGCGCTTTCTGAT 58.561 45.000 41.04 16.28 0.00 2.90
2145 4954 1.222300 TTTGTTAGCGCGCTTTCTGA 58.778 45.000 41.04 19.08 0.00 3.27
2146 4955 2.031037 TTTTGTTAGCGCGCTTTCTG 57.969 45.000 41.04 0.00 0.00 3.02
2147 4956 2.381589 GTTTTTGTTAGCGCGCTTTCT 58.618 42.857 41.04 18.45 0.00 2.52
2148 4957 1.450533 GGTTTTTGTTAGCGCGCTTTC 59.549 47.619 41.04 29.77 0.00 2.62
2149 4958 1.202313 TGGTTTTTGTTAGCGCGCTTT 60.202 42.857 41.04 19.77 0.00 3.51
2150 4959 0.382515 TGGTTTTTGTTAGCGCGCTT 59.617 45.000 41.04 23.00 0.00 4.68
2151 4960 0.317519 GTGGTTTTTGTTAGCGCGCT 60.318 50.000 38.01 38.01 0.00 5.92
2152 4961 1.593414 CGTGGTTTTTGTTAGCGCGC 61.593 55.000 26.66 26.66 39.61 6.86
2153 4962 0.994737 CCGTGGTTTTTGTTAGCGCG 60.995 55.000 0.00 0.00 44.03 6.86
2154 4963 0.029700 ACCGTGGTTTTTGTTAGCGC 59.970 50.000 0.00 0.00 0.00 5.92
2155 4964 1.598430 CCACCGTGGTTTTTGTTAGCG 60.598 52.381 9.64 0.00 31.35 4.26
2156 4965 1.866471 GCCACCGTGGTTTTTGTTAGC 60.866 52.381 18.95 0.00 40.46 3.09
2157 4966 1.269361 GGCCACCGTGGTTTTTGTTAG 60.269 52.381 18.95 0.00 40.46 2.34
2158 4967 0.745468 GGCCACCGTGGTTTTTGTTA 59.255 50.000 18.95 0.00 40.46 2.41
2159 4968 1.518302 GGCCACCGTGGTTTTTGTT 59.482 52.632 18.95 0.00 40.46 2.83
2160 4969 2.776913 CGGCCACCGTGGTTTTTGT 61.777 57.895 18.95 0.00 42.73 2.83
2161 4970 2.026879 CGGCCACCGTGGTTTTTG 59.973 61.111 18.95 1.40 42.73 2.44
2171 4980 1.508808 TAGCGTTTGTTTCGGCCACC 61.509 55.000 2.24 0.00 0.00 4.61
2172 4981 0.110373 CTAGCGTTTGTTTCGGCCAC 60.110 55.000 2.24 0.00 0.00 5.01
2173 4982 0.533308 ACTAGCGTTTGTTTCGGCCA 60.533 50.000 2.24 0.00 0.00 5.36
2174 4983 0.589708 AACTAGCGTTTGTTTCGGCC 59.410 50.000 0.00 0.00 0.00 6.13
2175 4984 2.719688 CGTAACTAGCGTTTGTTTCGGC 60.720 50.000 14.78 1.00 34.79 5.54
2176 4985 2.159934 CCGTAACTAGCGTTTGTTTCGG 60.160 50.000 23.04 23.04 45.32 4.30
2177 4986 2.472488 ACCGTAACTAGCGTTTGTTTCG 59.528 45.455 15.37 15.37 36.95 3.46
2178 4987 4.457433 AACCGTAACTAGCGTTTGTTTC 57.543 40.909 4.32 0.00 34.59 2.78
2179 4988 4.880886 AAACCGTAACTAGCGTTTGTTT 57.119 36.364 4.32 0.00 34.59 2.83
2180 4989 4.880886 AAAACCGTAACTAGCGTTTGTT 57.119 36.364 4.43 4.43 34.59 2.83
2181 4990 5.288804 TCTAAAACCGTAACTAGCGTTTGT 58.711 37.500 0.00 0.00 34.59 2.83
2182 4991 5.827568 TCTAAAACCGTAACTAGCGTTTG 57.172 39.130 0.00 0.00 34.59 2.93
2183 4992 6.479990 AGTTTCTAAAACCGTAACTAGCGTTT 59.520 34.615 0.00 0.00 34.59 3.60
2184 4993 5.985530 AGTTTCTAAAACCGTAACTAGCGTT 59.014 36.000 0.00 0.00 37.15 4.84
2185 4994 5.403466 CAGTTTCTAAAACCGTAACTAGCGT 59.597 40.000 0.00 0.00 0.00 5.07
2186 4995 5.667156 GCAGTTTCTAAAACCGTAACTAGCG 60.667 44.000 0.00 0.00 0.00 4.26
2187 4996 5.407691 AGCAGTTTCTAAAACCGTAACTAGC 59.592 40.000 0.00 0.00 0.00 3.42
2188 4997 6.128634 CCAGCAGTTTCTAAAACCGTAACTAG 60.129 42.308 0.00 0.00 0.00 2.57
2189 4998 5.697633 CCAGCAGTTTCTAAAACCGTAACTA 59.302 40.000 0.00 0.00 0.00 2.24
2190 4999 4.514066 CCAGCAGTTTCTAAAACCGTAACT 59.486 41.667 0.00 0.00 0.00 2.24
2191 5000 4.512571 TCCAGCAGTTTCTAAAACCGTAAC 59.487 41.667 0.00 0.00 0.00 2.50
2192 5001 4.706035 TCCAGCAGTTTCTAAAACCGTAA 58.294 39.130 0.00 0.00 0.00 3.18
2193 5002 4.339872 TCCAGCAGTTTCTAAAACCGTA 57.660 40.909 0.00 0.00 0.00 4.02
2194 5003 3.202829 TCCAGCAGTTTCTAAAACCGT 57.797 42.857 0.00 0.00 0.00 4.83
2195 5004 4.669197 CGATTCCAGCAGTTTCTAAAACCG 60.669 45.833 0.00 0.00 0.00 4.44
2196 5005 4.379499 CCGATTCCAGCAGTTTCTAAAACC 60.379 45.833 0.00 0.00 0.00 3.27
2197 5006 4.454504 TCCGATTCCAGCAGTTTCTAAAAC 59.545 41.667 0.00 0.00 0.00 2.43
2198 5007 4.647611 TCCGATTCCAGCAGTTTCTAAAA 58.352 39.130 0.00 0.00 0.00 1.52
2199 5008 4.280436 TCCGATTCCAGCAGTTTCTAAA 57.720 40.909 0.00 0.00 0.00 1.85
2200 5009 3.973206 TCCGATTCCAGCAGTTTCTAA 57.027 42.857 0.00 0.00 0.00 2.10
2201 5010 3.513912 TCTTCCGATTCCAGCAGTTTCTA 59.486 43.478 0.00 0.00 0.00 2.10
2202 5011 2.303022 TCTTCCGATTCCAGCAGTTTCT 59.697 45.455 0.00 0.00 0.00 2.52
2203 5012 2.416893 GTCTTCCGATTCCAGCAGTTTC 59.583 50.000 0.00 0.00 0.00 2.78
2204 5013 2.224523 TGTCTTCCGATTCCAGCAGTTT 60.225 45.455 0.00 0.00 0.00 2.66
2205 5014 1.347707 TGTCTTCCGATTCCAGCAGTT 59.652 47.619 0.00 0.00 0.00 3.16
2206 5015 0.976641 TGTCTTCCGATTCCAGCAGT 59.023 50.000 0.00 0.00 0.00 4.40
2207 5016 1.363744 GTGTCTTCCGATTCCAGCAG 58.636 55.000 0.00 0.00 0.00 4.24
2208 5017 0.036388 GGTGTCTTCCGATTCCAGCA 60.036 55.000 0.00 0.00 0.00 4.41
2209 5018 0.744771 GGGTGTCTTCCGATTCCAGC 60.745 60.000 0.00 0.00 0.00 4.85
2210 5019 0.905357 AGGGTGTCTTCCGATTCCAG 59.095 55.000 0.00 0.00 0.00 3.86
2211 5020 1.358152 AAGGGTGTCTTCCGATTCCA 58.642 50.000 0.00 0.00 0.00 3.53
2212 5021 2.491675 AAAGGGTGTCTTCCGATTCC 57.508 50.000 0.00 0.00 33.94 3.01
2213 5022 3.818773 TGAAAAAGGGTGTCTTCCGATTC 59.181 43.478 0.00 0.00 33.94 2.52
2214 5023 3.821033 CTGAAAAAGGGTGTCTTCCGATT 59.179 43.478 0.00 0.00 33.94 3.34
2215 5024 3.412386 CTGAAAAAGGGTGTCTTCCGAT 58.588 45.455 0.00 0.00 33.94 4.18
2216 5025 2.846193 CTGAAAAAGGGTGTCTTCCGA 58.154 47.619 0.00 0.00 33.94 4.55
2217 5026 1.266989 GCTGAAAAAGGGTGTCTTCCG 59.733 52.381 0.00 0.00 33.94 4.30
2218 5027 1.266989 CGCTGAAAAAGGGTGTCTTCC 59.733 52.381 0.00 0.00 33.94 3.46
2219 5028 2.218603 TCGCTGAAAAAGGGTGTCTTC 58.781 47.619 0.00 0.00 39.79 2.87
2220 5029 2.341846 TCGCTGAAAAAGGGTGTCTT 57.658 45.000 0.00 0.00 39.79 3.01
2221 5030 1.947456 GTTCGCTGAAAAAGGGTGTCT 59.053 47.619 0.00 0.00 39.79 3.41
2222 5031 1.001706 GGTTCGCTGAAAAAGGGTGTC 60.002 52.381 0.00 0.00 39.79 3.67
2223 5032 1.029681 GGTTCGCTGAAAAAGGGTGT 58.970 50.000 0.00 0.00 39.79 4.16
2224 5033 1.028905 TGGTTCGCTGAAAAAGGGTG 58.971 50.000 0.00 0.00 39.79 4.61
2225 5034 1.770294 TTGGTTCGCTGAAAAAGGGT 58.230 45.000 0.00 0.00 39.79 4.34
2226 5035 2.469826 GTTTGGTTCGCTGAAAAAGGG 58.530 47.619 0.00 0.00 40.19 3.95
2227 5036 2.116366 CGTTTGGTTCGCTGAAAAAGG 58.884 47.619 0.00 0.00 0.00 3.11
2245 5054 0.799534 GCATACCACTAACGACGCGT 60.800 55.000 13.85 13.85 43.97 6.01
2246 5055 0.799152 TGCATACCACTAACGACGCG 60.799 55.000 3.53 3.53 0.00 6.01
2247 5056 1.352114 TTGCATACCACTAACGACGC 58.648 50.000 0.00 0.00 0.00 5.19
2248 5057 2.347452 CCTTTGCATACCACTAACGACG 59.653 50.000 0.00 0.00 0.00 5.12
2249 5058 2.095372 GCCTTTGCATACCACTAACGAC 59.905 50.000 0.00 0.00 37.47 4.34
2250 5059 2.352388 GCCTTTGCATACCACTAACGA 58.648 47.619 0.00 0.00 37.47 3.85
2251 5060 1.062002 CGCCTTTGCATACCACTAACG 59.938 52.381 0.00 0.00 37.32 3.18
2252 5061 2.081462 ACGCCTTTGCATACCACTAAC 58.919 47.619 0.00 0.00 37.32 2.34
2270 5086 1.266718 CACAATGGGTCCTTGAACACG 59.733 52.381 0.00 0.00 0.00 4.49
2276 5098 3.573538 TCAATGTTCACAATGGGTCCTTG 59.426 43.478 0.00 0.00 0.00 3.61
2298 5120 5.572511 CGCAGCACAAACATAACATTAACAT 59.427 36.000 0.00 0.00 0.00 2.71
2404 5586 1.742831 ACACCGACGCAATATGCAAAT 59.257 42.857 2.99 0.00 45.36 2.32
2414 5596 2.354188 CGTTGAGACACCGACGCA 60.354 61.111 0.00 0.00 37.16 5.24


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

AutoCloner maintained by Alex Coulton.