Multiple sequence alignment - TraesCS1B01G355900

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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 TraesCS1B01G355900 chr1B 100.000 2780 0 0 1 2780 585202411 585205190 0.000000e+00 5134.0
1 TraesCS1B01G355900 chr1D 92.261 1163 39 19 666 1794 433257777 433258922 0.000000e+00 1602.0
2 TraesCS1B01G355900 chr1D 94.340 53 1 2 590 641 433257725 433257776 2.300000e-11 80.5
3 TraesCS1B01G355900 chr6D 87.730 815 93 6 1967 2778 340945546 340944736 0.000000e+00 944.0
4 TraesCS1B01G355900 chr6D 86.233 799 106 3 1981 2777 286799525 286800321 0.000000e+00 863.0
5 TraesCS1B01G355900 chr1A 87.933 779 34 25 628 1373 531645231 531645982 0.000000e+00 863.0
6 TraesCS1B01G355900 chr1A 91.892 111 6 3 1968 2078 587851501 587851608 4.800000e-33 152.0
7 TraesCS1B01G355900 chr2A 91.385 650 25 5 1970 2617 755117340 755117960 0.000000e+00 861.0
8 TraesCS1B01G355900 chr4A 94.004 517 31 0 1 517 738865183 738865699 0.000000e+00 784.0
9 TraesCS1B01G355900 chr4A 89.864 513 52 0 1 513 157805353 157805865 0.000000e+00 660.0
10 TraesCS1B01G355900 chr4A 92.958 71 1 3 522 588 738865742 738865812 1.760000e-17 100.0
11 TraesCS1B01G355900 chr2B 94.004 517 31 0 1 517 568747242 568747758 0.000000e+00 784.0
12 TraesCS1B01G355900 chr2B 94.203 69 2 2 522 588 568747801 568747869 1.360000e-18 104.0
13 TraesCS1B01G355900 chr2B 75.000 160 29 9 1981 2134 508007996 508008150 2.310000e-06 63.9
14 TraesCS1B01G355900 chr3B 94.172 429 22 3 2354 2780 739073472 739073045 0.000000e+00 651.0
15 TraesCS1B01G355900 chr5B 94.828 406 21 0 112 517 642822680 642823085 3.910000e-178 634.0
16 TraesCS1B01G355900 chr5B 91.549 71 3 3 522 589 642823128 642823198 8.200000e-16 95.3
17 TraesCS1B01G355900 chr5D 77.094 812 165 16 1970 2771 223954000 223954800 1.520000e-122 449.0
18 TraesCS1B01G355900 chr5A 93.103 116 7 1 1963 2078 695762901 695762787 4.760000e-38 169.0
19 TraesCS1B01G355900 chr3A 88.793 116 10 3 2339 2453 69499535 69499422 3.730000e-29 139.0
20 TraesCS1B01G355900 chrUn 85.057 87 10 3 1962 2048 38956312 38956395 4.930000e-13 86.1
21 TraesCS1B01G355900 chr4B 86.250 80 9 2 1969 2048 17524429 17524352 4.930000e-13 86.1
22 TraesCS1B01G355900 chr2D 82.292 96 12 4 1970 2062 430218083 430218176 8.260000e-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 TraesCS1B01G355900 chr1B 585202411 585205190 2779 False 5134.00 5134 100.0000 1 2780 1 chr1B.!!$F1 2779
1 TraesCS1B01G355900 chr1D 433257725 433258922 1197 False 841.25 1602 93.3005 590 1794 2 chr1D.!!$F1 1204
2 TraesCS1B01G355900 chr6D 340944736 340945546 810 True 944.00 944 87.7300 1967 2778 1 chr6D.!!$R1 811
3 TraesCS1B01G355900 chr6D 286799525 286800321 796 False 863.00 863 86.2330 1981 2777 1 chr6D.!!$F1 796
4 TraesCS1B01G355900 chr1A 531645231 531645982 751 False 863.00 863 87.9330 628 1373 1 chr1A.!!$F1 745
5 TraesCS1B01G355900 chr2A 755117340 755117960 620 False 861.00 861 91.3850 1970 2617 1 chr2A.!!$F1 647
6 TraesCS1B01G355900 chr4A 157805353 157805865 512 False 660.00 660 89.8640 1 513 1 chr4A.!!$F1 512
7 TraesCS1B01G355900 chr4A 738865183 738865812 629 False 442.00 784 93.4810 1 588 2 chr4A.!!$F2 587
8 TraesCS1B01G355900 chr2B 568747242 568747869 627 False 444.00 784 94.1035 1 588 2 chr2B.!!$F2 587
9 TraesCS1B01G355900 chr5B 642822680 642823198 518 False 364.65 634 93.1885 112 589 2 chr5B.!!$F1 477
10 TraesCS1B01G355900 chr5D 223954000 223954800 800 False 449.00 449 77.0940 1970 2771 1 chr5D.!!$F1 801

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
771 812 0.17668 GCCTCGTGGTCATGATCAGT 59.823 55.0 9.47 0.0 35.27 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1947 2043 0.039035 ATAGCAAACCCAGGCCGAAA 59.961 50.0 0.0 0.0 0.0 3.46 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
21 22 1.981256 ACGAGCAACCAAAGGAACAT 58.019 45.000 0.00 0.00 0.00 2.71
44 45 3.307269 CGCTCCTGATGGGATACATGAAT 60.307 47.826 0.00 0.00 44.15 2.57
45 46 4.081476 CGCTCCTGATGGGATACATGAATA 60.081 45.833 0.00 0.00 44.15 1.75
59 60 7.015292 GGATACATGAATACCAAGTAGGACTGA 59.985 40.741 0.00 0.00 41.22 3.41
182 183 1.549243 TACAACGGCTGGCTCCATCA 61.549 55.000 0.00 0.00 0.00 3.07
196 197 3.678289 CTCCATCATCAGAACACACCAA 58.322 45.455 0.00 0.00 0.00 3.67
243 244 4.247781 CCTGCAGGCATGTAAGGG 57.752 61.111 22.33 0.00 31.97 3.95
249 250 4.894896 GGCATGTAAGGGCCCGGG 62.895 72.222 19.09 19.09 44.53 5.73
256 257 3.935456 TAAGGGCCCGGGAGAAGCA 62.935 63.158 29.31 0.00 0.00 3.91
274 275 7.066284 GGAGAAGCAGAATTATCAGCTGTTTTA 59.934 37.037 14.67 1.69 46.47 1.52
312 313 3.334280 CTGAGTAGGTACTATAGGGGGCT 59.666 52.174 4.43 0.00 45.60 5.19
451 452 3.041940 GTGTCGTTCAGGGCCACG 61.042 66.667 6.18 7.54 37.77 4.94
513 514 1.699634 TGGGAGGAAACAAGGAGACTG 59.300 52.381 0.00 0.00 42.68 3.51
522 523 2.021355 CAAGGAGACTGCTTGCTAGG 57.979 55.000 21.78 0.50 38.90 3.02
523 524 1.552337 CAAGGAGACTGCTTGCTAGGA 59.448 52.381 21.78 0.00 38.90 2.94
525 526 1.006519 AGGAGACTGCTTGCTAGGAGA 59.993 52.381 22.28 0.00 42.01 3.71
526 527 1.136110 GGAGACTGCTTGCTAGGAGAC 59.864 57.143 22.28 16.14 42.01 3.36
539 580 5.888105 TGCTAGGAGACGTAATTGTTCTAC 58.112 41.667 0.00 0.00 0.00 2.59
578 619 0.409092 ATTGTGGCTGGGTTGATCCA 59.591 50.000 0.00 0.00 38.11 3.41
617 658 4.564821 GGTTGTGGAGCTCTATGGTTGTTA 60.565 45.833 14.64 0.00 0.00 2.41
621 662 4.404715 GTGGAGCTCTATGGTTGTTACCTA 59.595 45.833 14.64 0.00 45.27 3.08
622 663 4.649674 TGGAGCTCTATGGTTGTTACCTAG 59.350 45.833 14.64 0.00 45.27 3.02
624 665 3.388350 AGCTCTATGGTTGTTACCTAGCC 59.612 47.826 0.00 0.00 45.27 3.93
732 773 2.223180 GGTGGTCGTGTTCAAGTGTTTC 60.223 50.000 0.00 0.00 0.00 2.78
755 796 2.556114 CCACCTGGAATTTTGAGAGCCT 60.556 50.000 0.00 0.00 37.39 4.58
756 797 2.751806 CACCTGGAATTTTGAGAGCCTC 59.248 50.000 0.00 0.00 0.00 4.70
757 798 2.012673 CCTGGAATTTTGAGAGCCTCG 58.987 52.381 0.00 0.00 32.35 4.63
759 800 2.417933 CTGGAATTTTGAGAGCCTCGTG 59.582 50.000 0.00 0.00 32.35 4.35
761 802 2.427506 GAATTTTGAGAGCCTCGTGGT 58.572 47.619 5.26 0.00 32.35 4.16
762 803 2.100605 ATTTTGAGAGCCTCGTGGTC 57.899 50.000 5.26 2.20 41.93 4.02
763 804 0.756294 TTTTGAGAGCCTCGTGGTCA 59.244 50.000 5.26 0.00 44.10 4.02
764 805 0.976641 TTTGAGAGCCTCGTGGTCAT 59.023 50.000 5.26 0.00 44.10 3.06
765 806 0.247460 TTGAGAGCCTCGTGGTCATG 59.753 55.000 5.26 0.00 44.10 3.07
766 807 0.611896 TGAGAGCCTCGTGGTCATGA 60.612 55.000 5.26 0.00 44.10 3.07
770 811 0.463204 AGCCTCGTGGTCATGATCAG 59.537 55.000 9.47 4.04 35.27 2.90
771 812 0.176680 GCCTCGTGGTCATGATCAGT 59.823 55.000 9.47 0.00 35.27 3.41
801 842 0.601558 ACGTCACTCTGTACGCCATT 59.398 50.000 0.00 0.00 42.74 3.16
806 847 2.559231 TCACTCTGTACGCCATTGTGTA 59.441 45.455 0.00 0.00 36.42 2.90
811 852 0.636733 GTACGCCATTGTGTACGTCG 59.363 55.000 5.03 0.00 45.48 5.12
812 853 0.456482 TACGCCATTGTGTACGTCGG 60.456 55.000 0.00 0.00 39.78 4.79
814 855 1.680105 CGCCATTGTGTACGTCGGAC 61.680 60.000 0.00 0.00 0.00 4.79
855 908 4.137116 TCCCATGCCTATATAACGCATC 57.863 45.455 12.05 0.00 41.18 3.91
906 964 3.583806 CTGGTGCACAAACAAGAAACAA 58.416 40.909 20.43 0.00 0.00 2.83
907 965 3.321497 TGGTGCACAAACAAGAAACAAC 58.679 40.909 20.43 0.00 0.00 3.32
908 966 3.006323 TGGTGCACAAACAAGAAACAACT 59.994 39.130 20.43 0.00 0.00 3.16
948 1006 2.481952 GTGAGCAAGAAAATCGTGAGCT 59.518 45.455 0.00 0.00 0.00 4.09
949 1007 3.679980 GTGAGCAAGAAAATCGTGAGCTA 59.320 43.478 0.00 0.00 0.00 3.32
968 1026 3.170585 GTCACTCGCGCCACGTAC 61.171 66.667 0.00 0.00 44.19 3.67
1335 1431 3.463585 CCCAAGTACCCCGCGCTA 61.464 66.667 5.56 0.00 0.00 4.26
1461 1557 1.874019 CCGCATCGTGACCTTCTCG 60.874 63.158 0.00 0.00 35.02 4.04
1626 1722 4.821589 GAGCTGTTCCTCGCCGGG 62.822 72.222 2.18 0.00 0.00 5.73
1659 1755 1.920325 CCTCAAGAGGGTGGAGGCA 60.920 63.158 8.28 0.00 44.87 4.75
1774 1870 3.131478 GGGTCAATGGCGGGTTCG 61.131 66.667 0.00 0.00 39.81 3.95
1801 1897 9.659830 CGTGAGCTACTAAAATTTAGTTTGTTT 57.340 29.630 21.60 9.40 0.00 2.83
1827 1923 8.863872 TTTCTAGAGAGAAATTTAGTTTGGGG 57.136 34.615 0.00 0.00 44.94 4.96
1828 1924 7.569599 TCTAGAGAGAAATTTAGTTTGGGGT 57.430 36.000 0.00 0.00 0.00 4.95
1829 1925 8.674925 TCTAGAGAGAAATTTAGTTTGGGGTA 57.325 34.615 0.00 0.00 0.00 3.69
1830 1926 9.280456 TCTAGAGAGAAATTTAGTTTGGGGTAT 57.720 33.333 0.00 0.00 0.00 2.73
1831 1927 9.331282 CTAGAGAGAAATTTAGTTTGGGGTATG 57.669 37.037 0.00 0.00 0.00 2.39
1832 1928 6.603599 AGAGAGAAATTTAGTTTGGGGTATGC 59.396 38.462 0.00 0.00 0.00 3.14
1833 1929 6.494059 AGAGAAATTTAGTTTGGGGTATGCT 58.506 36.000 0.00 0.00 0.00 3.79
1834 1930 7.639378 AGAGAAATTTAGTTTGGGGTATGCTA 58.361 34.615 0.00 0.00 0.00 3.49
1835 1931 7.775561 AGAGAAATTTAGTTTGGGGTATGCTAG 59.224 37.037 0.00 0.00 0.00 3.42
1836 1932 7.410991 AGAAATTTAGTTTGGGGTATGCTAGT 58.589 34.615 0.00 0.00 0.00 2.57
1837 1933 7.893833 AGAAATTTAGTTTGGGGTATGCTAGTT 59.106 33.333 0.00 0.00 0.00 2.24
1838 1934 9.181061 GAAATTTAGTTTGGGGTATGCTAGTTA 57.819 33.333 0.00 0.00 0.00 2.24
1839 1935 9.536510 AAATTTAGTTTGGGGTATGCTAGTTAA 57.463 29.630 0.00 0.00 0.00 2.01
1840 1936 9.709387 AATTTAGTTTGGGGTATGCTAGTTAAT 57.291 29.630 0.00 0.00 0.00 1.40
1841 1937 9.709387 ATTTAGTTTGGGGTATGCTAGTTAATT 57.291 29.630 0.00 0.00 0.00 1.40
1842 1938 9.536510 TTTAGTTTGGGGTATGCTAGTTAATTT 57.463 29.630 0.00 0.00 0.00 1.82
1843 1939 9.536510 TTAGTTTGGGGTATGCTAGTTAATTTT 57.463 29.630 0.00 0.00 0.00 1.82
1844 1940 8.430573 AGTTTGGGGTATGCTAGTTAATTTTT 57.569 30.769 0.00 0.00 0.00 1.94
1845 1941 8.311109 AGTTTGGGGTATGCTAGTTAATTTTTG 58.689 33.333 0.00 0.00 0.00 2.44
1846 1942 7.784470 TTGGGGTATGCTAGTTAATTTTTGT 57.216 32.000 0.00 0.00 0.00 2.83
1847 1943 7.784470 TGGGGTATGCTAGTTAATTTTTGTT 57.216 32.000 0.00 0.00 0.00 2.83
1848 1944 8.196378 TGGGGTATGCTAGTTAATTTTTGTTT 57.804 30.769 0.00 0.00 0.00 2.83
1849 1945 8.652290 TGGGGTATGCTAGTTAATTTTTGTTTT 58.348 29.630 0.00 0.00 0.00 2.43
1850 1946 9.496873 GGGGTATGCTAGTTAATTTTTGTTTTT 57.503 29.630 0.00 0.00 0.00 1.94
1856 1952 9.862371 TGCTAGTTAATTTTTGTTTTTGAGTCA 57.138 25.926 0.00 0.00 0.00 3.41
1859 1955 8.751302 AGTTAATTTTTGTTTTTGAGTCACGT 57.249 26.923 0.00 0.00 0.00 4.49
1860 1956 9.198837 AGTTAATTTTTGTTTTTGAGTCACGTT 57.801 25.926 0.00 0.00 0.00 3.99
1861 1957 9.800299 GTTAATTTTTGTTTTTGAGTCACGTTT 57.200 25.926 0.00 0.00 0.00 3.60
1862 1958 9.798885 TTAATTTTTGTTTTTGAGTCACGTTTG 57.201 25.926 0.00 0.00 0.00 2.93
1863 1959 7.644986 ATTTTTGTTTTTGAGTCACGTTTGA 57.355 28.000 0.00 0.00 0.00 2.69
1864 1960 6.683090 TTTTGTTTTTGAGTCACGTTTGAG 57.317 33.333 0.00 0.00 30.10 3.02
1865 1961 4.349663 TGTTTTTGAGTCACGTTTGAGG 57.650 40.909 0.00 0.00 30.10 3.86
1866 1962 3.754323 TGTTTTTGAGTCACGTTTGAGGT 59.246 39.130 0.00 0.00 30.10 3.85
1867 1963 4.936411 TGTTTTTGAGTCACGTTTGAGGTA 59.064 37.500 0.00 0.00 30.10 3.08
1868 1964 5.587043 TGTTTTTGAGTCACGTTTGAGGTAT 59.413 36.000 0.00 0.00 30.10 2.73
1869 1965 5.666969 TTTTGAGTCACGTTTGAGGTATG 57.333 39.130 0.00 0.00 30.10 2.39
1870 1966 4.330944 TTGAGTCACGTTTGAGGTATGT 57.669 40.909 0.00 0.00 30.10 2.29
1871 1967 5.456548 TTGAGTCACGTTTGAGGTATGTA 57.543 39.130 0.00 0.00 30.10 2.29
1872 1968 5.654603 TGAGTCACGTTTGAGGTATGTAT 57.345 39.130 0.00 0.00 30.10 2.29
1873 1969 6.032956 TGAGTCACGTTTGAGGTATGTATT 57.967 37.500 0.00 0.00 30.10 1.89
1874 1970 6.460781 TGAGTCACGTTTGAGGTATGTATTT 58.539 36.000 0.00 0.00 30.10 1.40
1875 1971 6.932400 TGAGTCACGTTTGAGGTATGTATTTT 59.068 34.615 0.00 0.00 30.10 1.82
1876 1972 7.442969 TGAGTCACGTTTGAGGTATGTATTTTT 59.557 33.333 0.00 0.00 30.10 1.94
1900 1996 3.944055 TCTCTCTCTGTTTGTGTAGGC 57.056 47.619 0.00 0.00 0.00 3.93
1901 1997 3.501349 TCTCTCTCTGTTTGTGTAGGCT 58.499 45.455 0.00 0.00 0.00 4.58
1902 1998 3.898123 TCTCTCTCTGTTTGTGTAGGCTT 59.102 43.478 0.00 0.00 0.00 4.35
1903 1999 4.021894 TCTCTCTCTGTTTGTGTAGGCTTC 60.022 45.833 0.00 0.00 0.00 3.86
1904 2000 2.989840 CTCTCTGTTTGTGTAGGCTTCG 59.010 50.000 0.00 0.00 0.00 3.79
1905 2001 2.069273 CTCTGTTTGTGTAGGCTTCGG 58.931 52.381 0.00 0.00 0.00 4.30
1906 2002 1.414919 TCTGTTTGTGTAGGCTTCGGT 59.585 47.619 0.00 0.00 0.00 4.69
1907 2003 2.158871 TCTGTTTGTGTAGGCTTCGGTT 60.159 45.455 0.00 0.00 0.00 4.44
1908 2004 1.944024 TGTTTGTGTAGGCTTCGGTTG 59.056 47.619 0.00 0.00 0.00 3.77
1909 2005 1.944709 GTTTGTGTAGGCTTCGGTTGT 59.055 47.619 0.00 0.00 0.00 3.32
1910 2006 1.588674 TTGTGTAGGCTTCGGTTGTG 58.411 50.000 0.00 0.00 0.00 3.33
1911 2007 0.466543 TGTGTAGGCTTCGGTTGTGT 59.533 50.000 0.00 0.00 0.00 3.72
1912 2008 1.134340 TGTGTAGGCTTCGGTTGTGTT 60.134 47.619 0.00 0.00 0.00 3.32
1913 2009 1.529865 GTGTAGGCTTCGGTTGTGTTC 59.470 52.381 0.00 0.00 0.00 3.18
1914 2010 1.414919 TGTAGGCTTCGGTTGTGTTCT 59.585 47.619 0.00 0.00 0.00 3.01
1915 2011 1.798813 GTAGGCTTCGGTTGTGTTCTG 59.201 52.381 0.00 0.00 0.00 3.02
1916 2012 0.180406 AGGCTTCGGTTGTGTTCTGT 59.820 50.000 0.00 0.00 0.00 3.41
1917 2013 0.586802 GGCTTCGGTTGTGTTCTGTC 59.413 55.000 0.00 0.00 0.00 3.51
1918 2014 1.583054 GCTTCGGTTGTGTTCTGTCT 58.417 50.000 0.00 0.00 0.00 3.41
1919 2015 1.940613 GCTTCGGTTGTGTTCTGTCTT 59.059 47.619 0.00 0.00 0.00 3.01
1920 2016 2.354821 GCTTCGGTTGTGTTCTGTCTTT 59.645 45.455 0.00 0.00 0.00 2.52
1921 2017 3.181500 GCTTCGGTTGTGTTCTGTCTTTT 60.181 43.478 0.00 0.00 0.00 2.27
1922 2018 4.674362 GCTTCGGTTGTGTTCTGTCTTTTT 60.674 41.667 0.00 0.00 0.00 1.94
1923 2019 4.609691 TCGGTTGTGTTCTGTCTTTTTC 57.390 40.909 0.00 0.00 0.00 2.29
1924 2020 4.258543 TCGGTTGTGTTCTGTCTTTTTCT 58.741 39.130 0.00 0.00 0.00 2.52
1925 2021 4.698304 TCGGTTGTGTTCTGTCTTTTTCTT 59.302 37.500 0.00 0.00 0.00 2.52
1926 2022 5.875910 TCGGTTGTGTTCTGTCTTTTTCTTA 59.124 36.000 0.00 0.00 0.00 2.10
1927 2023 6.540914 TCGGTTGTGTTCTGTCTTTTTCTTAT 59.459 34.615 0.00 0.00 0.00 1.73
1928 2024 6.632834 CGGTTGTGTTCTGTCTTTTTCTTATG 59.367 38.462 0.00 0.00 0.00 1.90
1929 2025 6.918022 GGTTGTGTTCTGTCTTTTTCTTATGG 59.082 38.462 0.00 0.00 0.00 2.74
1930 2026 7.416326 GGTTGTGTTCTGTCTTTTTCTTATGGT 60.416 37.037 0.00 0.00 0.00 3.55
1931 2027 7.026631 TGTGTTCTGTCTTTTTCTTATGGTG 57.973 36.000 0.00 0.00 0.00 4.17
1932 2028 6.039270 TGTGTTCTGTCTTTTTCTTATGGTGG 59.961 38.462 0.00 0.00 0.00 4.61
1933 2029 6.039382 GTGTTCTGTCTTTTTCTTATGGTGGT 59.961 38.462 0.00 0.00 0.00 4.16
1934 2030 6.605594 TGTTCTGTCTTTTTCTTATGGTGGTT 59.394 34.615 0.00 0.00 0.00 3.67
1935 2031 7.123547 TGTTCTGTCTTTTTCTTATGGTGGTTT 59.876 33.333 0.00 0.00 0.00 3.27
1936 2032 7.654022 TCTGTCTTTTTCTTATGGTGGTTTT 57.346 32.000 0.00 0.00 0.00 2.43
1937 2033 7.488322 TCTGTCTTTTTCTTATGGTGGTTTTG 58.512 34.615 0.00 0.00 0.00 2.44
1938 2034 6.578023 TGTCTTTTTCTTATGGTGGTTTTGG 58.422 36.000 0.00 0.00 0.00 3.28
1939 2035 5.989168 GTCTTTTTCTTATGGTGGTTTTGGG 59.011 40.000 0.00 0.00 0.00 4.12
1940 2036 5.900123 TCTTTTTCTTATGGTGGTTTTGGGA 59.100 36.000 0.00 0.00 0.00 4.37
1941 2037 6.556874 TCTTTTTCTTATGGTGGTTTTGGGAT 59.443 34.615 0.00 0.00 0.00 3.85
1942 2038 5.993748 TTTCTTATGGTGGTTTTGGGATC 57.006 39.130 0.00 0.00 0.00 3.36
1943 2039 3.616219 TCTTATGGTGGTTTTGGGATCG 58.384 45.455 0.00 0.00 0.00 3.69
1944 2040 3.009695 TCTTATGGTGGTTTTGGGATCGT 59.990 43.478 0.00 0.00 0.00 3.73
1945 2041 2.302587 ATGGTGGTTTTGGGATCGTT 57.697 45.000 0.00 0.00 0.00 3.85
1946 2042 1.323412 TGGTGGTTTTGGGATCGTTG 58.677 50.000 0.00 0.00 0.00 4.10
1947 2043 1.324383 GGTGGTTTTGGGATCGTTGT 58.676 50.000 0.00 0.00 0.00 3.32
1948 2044 1.684450 GGTGGTTTTGGGATCGTTGTT 59.316 47.619 0.00 0.00 0.00 2.83
1949 2045 2.101750 GGTGGTTTTGGGATCGTTGTTT 59.898 45.455 0.00 0.00 0.00 2.83
1950 2046 3.377439 GTGGTTTTGGGATCGTTGTTTC 58.623 45.455 0.00 0.00 0.00 2.78
1951 2047 2.033550 TGGTTTTGGGATCGTTGTTTCG 59.966 45.455 0.00 0.00 0.00 3.46
1952 2048 2.606065 GGTTTTGGGATCGTTGTTTCGG 60.606 50.000 0.00 0.00 0.00 4.30
1953 2049 0.594110 TTTGGGATCGTTGTTTCGGC 59.406 50.000 0.00 0.00 0.00 5.54
1954 2050 1.238625 TTGGGATCGTTGTTTCGGCC 61.239 55.000 0.00 0.00 0.00 6.13
1955 2051 1.376812 GGGATCGTTGTTTCGGCCT 60.377 57.895 0.00 0.00 0.00 5.19
1956 2052 1.644786 GGGATCGTTGTTTCGGCCTG 61.645 60.000 0.00 0.00 0.00 4.85
1957 2053 1.644786 GGATCGTTGTTTCGGCCTGG 61.645 60.000 0.00 0.00 0.00 4.45
1958 2054 1.644786 GATCGTTGTTTCGGCCTGGG 61.645 60.000 0.00 0.00 0.00 4.45
1959 2055 2.406002 ATCGTTGTTTCGGCCTGGGT 62.406 55.000 0.00 0.00 0.00 4.51
1960 2056 2.190841 CGTTGTTTCGGCCTGGGTT 61.191 57.895 0.00 0.00 0.00 4.11
1961 2057 1.730451 CGTTGTTTCGGCCTGGGTTT 61.730 55.000 0.00 0.00 0.00 3.27
1962 2058 0.249280 GTTGTTTCGGCCTGGGTTTG 60.249 55.000 0.00 0.00 0.00 2.93
1963 2059 2.022240 TTGTTTCGGCCTGGGTTTGC 62.022 55.000 0.00 0.00 0.00 3.68
1964 2060 2.197324 TTTCGGCCTGGGTTTGCT 59.803 55.556 0.00 0.00 0.00 3.91
1965 2061 0.891904 GTTTCGGCCTGGGTTTGCTA 60.892 55.000 0.00 0.00 0.00 3.49
2002 2098 7.282675 TGACGGGTAAACAACTTTATTTCTCAA 59.717 33.333 0.00 0.00 0.00 3.02
2078 2174 3.248024 TCCCAAACCTCAGAAGCTCTAA 58.752 45.455 0.00 0.00 0.00 2.10
2135 2233 1.988293 TGGCTTTCCGGAAACAATGA 58.012 45.000 25.67 4.56 34.14 2.57
2215 2313 4.101585 TGTTTCTGGGCCTAGATACTCATG 59.898 45.833 30.15 1.04 32.18 3.07
2233 2331 3.387374 TCATGTTGGTTTGTTGCCTCAAT 59.613 39.130 0.00 0.00 0.00 2.57
2242 2340 5.278957 GGTTTGTTGCCTCAATAGTGTTCAT 60.279 40.000 0.00 0.00 0.00 2.57
2303 2401 6.788598 TTTGCAGCCAAATAGAATCCATTA 57.211 33.333 0.00 0.00 36.09 1.90
2379 2491 1.450312 GCTGCAGCTATGAACCCGT 60.450 57.895 31.33 0.00 38.21 5.28
2492 2604 3.073678 TGGTTTTCTCCACATGTGATCG 58.926 45.455 27.46 14.00 31.96 3.69
2497 2609 0.249031 CTCCACATGTGATCGCGCTA 60.249 55.000 27.46 0.00 0.00 4.26
2651 2763 0.394488 TCGCCACTGCTACTAGCTCT 60.394 55.000 9.49 0.00 42.97 4.09
2684 2796 2.679837 CTCGCCTATCAATGTTTGCTGT 59.320 45.455 0.00 0.00 0.00 4.40
2686 2798 2.223340 CGCCTATCAATGTTTGCTGTCC 60.223 50.000 0.00 0.00 0.00 4.02
2748 2860 5.596361 TCCAGGACTGATCTTTGTATCTCTC 59.404 44.000 0.00 0.00 0.00 3.20
2749 2861 5.507149 CCAGGACTGATCTTTGTATCTCTCG 60.507 48.000 0.00 0.00 0.00 4.04
2755 2867 6.809196 ACTGATCTTTGTATCTCTCGTTTCAC 59.191 38.462 0.00 0.00 0.00 3.18
2773 2885 3.189606 TCACCCCAAGTTCAGTCCATAT 58.810 45.455 0.00 0.00 0.00 1.78
2778 2890 4.350816 CCCCAAGTTCAGTCCATATATCCA 59.649 45.833 0.00 0.00 0.00 3.41
2779 2891 5.163099 CCCCAAGTTCAGTCCATATATCCAA 60.163 44.000 0.00 0.00 0.00 3.53
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
44 45 5.104941 CCATTGTCATCAGTCCTACTTGGTA 60.105 44.000 0.00 0.00 37.07 3.25
45 46 4.323792 CCATTGTCATCAGTCCTACTTGGT 60.324 45.833 0.00 0.00 37.07 3.67
59 60 3.705051 ACTGCTTGGATTCCATTGTCAT 58.295 40.909 6.15 0.00 31.53 3.06
196 197 2.521708 GCCAAAGCCACCACACCT 60.522 61.111 0.00 0.00 0.00 4.00
243 244 0.180406 TAATTCTGCTTCTCCCGGGC 59.820 55.000 18.49 3.64 0.00 6.13
256 257 6.204882 GCCCGTATAAAACAGCTGATAATTCT 59.795 38.462 23.35 4.92 0.00 2.40
297 298 1.349067 CACCAGCCCCCTATAGTACC 58.651 60.000 0.00 0.00 0.00 3.34
312 313 0.602638 GTCTGATTCCACGCACACCA 60.603 55.000 0.00 0.00 0.00 4.17
451 452 3.626670 CCATCTTGTTGCTGGATCTTCTC 59.373 47.826 0.00 0.00 33.99 2.87
495 496 1.349357 AGCAGTCTCCTTGTTTCCTCC 59.651 52.381 0.00 0.00 0.00 4.30
513 514 3.522553 ACAATTACGTCTCCTAGCAAGC 58.477 45.455 0.00 0.00 0.00 4.01
517 518 6.134040 AGTAGAACAATTACGTCTCCTAGC 57.866 41.667 0.00 0.00 0.00 3.42
518 519 7.067251 AGGAAGTAGAACAATTACGTCTCCTAG 59.933 40.741 0.00 0.00 32.54 3.02
519 520 6.888632 AGGAAGTAGAACAATTACGTCTCCTA 59.111 38.462 0.00 0.00 32.54 2.94
521 522 5.963594 AGGAAGTAGAACAATTACGTCTCC 58.036 41.667 0.00 0.00 32.44 3.71
522 523 6.867293 ACAAGGAAGTAGAACAATTACGTCTC 59.133 38.462 0.00 0.00 32.44 3.36
523 524 6.756221 ACAAGGAAGTAGAACAATTACGTCT 58.244 36.000 0.00 0.00 32.44 4.18
525 526 6.145048 CGAACAAGGAAGTAGAACAATTACGT 59.855 38.462 0.00 0.00 0.00 3.57
526 527 6.145048 ACGAACAAGGAAGTAGAACAATTACG 59.855 38.462 0.00 0.00 0.00 3.18
539 580 7.537306 CCACAATTTATACAACGAACAAGGAAG 59.463 37.037 0.00 0.00 0.00 3.46
588 629 0.398318 AGAGCTCCACAACCCTGTTC 59.602 55.000 10.93 0.00 31.64 3.18
617 658 2.824880 TTTGTGGTGGCGGCTAGGT 61.825 57.895 11.43 0.00 0.00 3.08
621 662 3.842925 ATCGTTTGTGGTGGCGGCT 62.843 57.895 11.43 0.00 0.00 5.52
622 663 3.322706 GATCGTTTGTGGTGGCGGC 62.323 63.158 0.00 0.00 0.00 6.53
624 665 1.955529 CTCGATCGTTTGTGGTGGCG 61.956 60.000 15.94 0.00 0.00 5.69
652 693 0.037697 TTGATGACGTACGGCAGCTT 60.038 50.000 36.07 18.28 40.73 3.74
656 697 1.729517 CACATTTGATGACGTACGGCA 59.270 47.619 28.62 28.62 37.65 5.69
661 702 4.739195 TCGATGACACATTTGATGACGTA 58.261 39.130 0.00 0.00 0.00 3.57
662 703 3.584834 TCGATGACACATTTGATGACGT 58.415 40.909 0.00 0.00 0.00 4.34
663 704 4.582441 TTCGATGACACATTTGATGACG 57.418 40.909 0.00 0.00 0.00 4.35
664 705 6.602179 TCTTTTCGATGACACATTTGATGAC 58.398 36.000 0.00 0.00 0.00 3.06
732 773 2.229784 GCTCTCAAAATTCCAGGTGGTG 59.770 50.000 0.00 0.00 36.34 4.17
755 796 3.954258 ACTGATACTGATCATGACCACGA 59.046 43.478 0.00 0.00 41.33 4.35
756 797 4.294232 GACTGATACTGATCATGACCACG 58.706 47.826 0.00 0.00 41.33 4.94
757 798 4.100035 TGGACTGATACTGATCATGACCAC 59.900 45.833 0.00 0.00 41.33 4.16
759 800 4.944619 TGGACTGATACTGATCATGACC 57.055 45.455 0.00 0.00 41.33 4.02
761 802 5.770162 ACGTATGGACTGATACTGATCATGA 59.230 40.000 0.00 0.00 41.33 3.07
762 803 6.018589 ACGTATGGACTGATACTGATCATG 57.981 41.667 0.00 0.00 41.33 3.07
763 804 5.770162 TGACGTATGGACTGATACTGATCAT 59.230 40.000 0.00 0.00 41.33 2.45
764 805 5.008712 GTGACGTATGGACTGATACTGATCA 59.991 44.000 0.00 0.00 39.88 2.92
765 806 5.239744 AGTGACGTATGGACTGATACTGATC 59.760 44.000 0.00 0.00 0.00 2.92
766 807 5.133941 AGTGACGTATGGACTGATACTGAT 58.866 41.667 0.00 0.00 0.00 2.90
770 811 4.335874 ACAGAGTGACGTATGGACTGATAC 59.664 45.833 13.35 0.00 0.00 2.24
771 812 4.524053 ACAGAGTGACGTATGGACTGATA 58.476 43.478 13.35 0.00 0.00 2.15
801 842 1.284715 CAGCAGTCCGACGTACACA 59.715 57.895 0.00 0.00 0.00 3.72
806 847 2.256591 ACGTACAGCAGTCCGACGT 61.257 57.895 0.32 1.93 41.59 4.34
807 848 1.511464 GACGTACAGCAGTCCGACG 60.511 63.158 0.32 1.26 39.37 5.12
808 849 1.511464 CGACGTACAGCAGTCCGAC 60.511 63.158 0.32 0.00 34.10 4.79
809 850 2.683859 CCGACGTACAGCAGTCCGA 61.684 63.158 0.32 0.00 34.10 4.55
810 851 2.202440 CCGACGTACAGCAGTCCG 60.202 66.667 0.00 0.00 34.10 4.79
811 852 1.154073 GTCCGACGTACAGCAGTCC 60.154 63.158 0.00 0.00 34.10 3.85
812 853 1.081892 TAGTCCGACGTACAGCAGTC 58.918 55.000 0.00 0.00 0.00 3.51
814 855 1.085091 AGTAGTCCGACGTACAGCAG 58.915 55.000 0.00 0.00 0.00 4.24
906 964 3.568853 ACTTTACGTGTCTGCTCTGTAGT 59.431 43.478 0.00 0.00 0.00 2.73
907 965 3.914966 CACTTTACGTGTCTGCTCTGTAG 59.085 47.826 0.00 0.00 38.84 2.74
908 966 3.566742 TCACTTTACGTGTCTGCTCTGTA 59.433 43.478 0.00 0.00 44.16 2.74
948 1006 1.576451 TACGTGGCGCGAGTGACTTA 61.576 55.000 28.85 3.85 44.77 2.24
949 1007 2.911484 TACGTGGCGCGAGTGACTT 61.911 57.895 28.85 4.96 44.77 3.01
1308 1404 0.322546 GGTACTTGGGGTTGAGCAGG 60.323 60.000 0.00 0.00 0.00 4.85
1461 1557 2.173669 CGTGCCCATGATGGACGAC 61.174 63.158 17.73 8.26 40.96 4.34
1626 1722 2.971452 AGGAACGCCTCGTCCTTC 59.029 61.111 0.00 0.00 42.19 3.46
1650 1746 1.377725 CATGGACTGTGCCTCCACC 60.378 63.158 0.00 0.00 40.73 4.61
1659 1755 3.704231 GATGCGCCCCATGGACTGT 62.704 63.158 15.22 0.00 33.29 3.55
1733 1829 2.357034 CCTGACCGTTCACCCACG 60.357 66.667 0.00 0.00 40.02 4.94
1774 1870 7.295930 ACAAACTAAATTTTAGTAGCTCACGC 58.704 34.615 19.43 0.00 0.00 5.34
1803 1899 7.985589 ACCCCAAACTAAATTTCTCTCTAGAA 58.014 34.615 0.00 0.00 40.03 2.10
1804 1900 7.569599 ACCCCAAACTAAATTTCTCTCTAGA 57.430 36.000 0.00 0.00 0.00 2.43
1805 1901 9.331282 CATACCCCAAACTAAATTTCTCTCTAG 57.669 37.037 0.00 0.00 0.00 2.43
1806 1902 7.773690 GCATACCCCAAACTAAATTTCTCTCTA 59.226 37.037 0.00 0.00 0.00 2.43
1807 1903 6.603599 GCATACCCCAAACTAAATTTCTCTCT 59.396 38.462 0.00 0.00 0.00 3.10
1808 1904 6.603599 AGCATACCCCAAACTAAATTTCTCTC 59.396 38.462 0.00 0.00 0.00 3.20
1809 1905 6.494059 AGCATACCCCAAACTAAATTTCTCT 58.506 36.000 0.00 0.00 0.00 3.10
1810 1906 6.775594 AGCATACCCCAAACTAAATTTCTC 57.224 37.500 0.00 0.00 0.00 2.87
1811 1907 7.410991 ACTAGCATACCCCAAACTAAATTTCT 58.589 34.615 0.00 0.00 0.00 2.52
1812 1908 7.640597 ACTAGCATACCCCAAACTAAATTTC 57.359 36.000 0.00 0.00 0.00 2.17
1813 1909 9.536510 TTAACTAGCATACCCCAAACTAAATTT 57.463 29.630 0.00 0.00 0.00 1.82
1814 1910 9.709387 ATTAACTAGCATACCCCAAACTAAATT 57.291 29.630 0.00 0.00 0.00 1.82
1815 1911 9.709387 AATTAACTAGCATACCCCAAACTAAAT 57.291 29.630 0.00 0.00 0.00 1.40
1816 1912 9.536510 AAATTAACTAGCATACCCCAAACTAAA 57.463 29.630 0.00 0.00 0.00 1.85
1817 1913 9.536510 AAAATTAACTAGCATACCCCAAACTAA 57.463 29.630 0.00 0.00 0.00 2.24
1818 1914 9.536510 AAAAATTAACTAGCATACCCCAAACTA 57.463 29.630 0.00 0.00 0.00 2.24
1819 1915 8.311109 CAAAAATTAACTAGCATACCCCAAACT 58.689 33.333 0.00 0.00 0.00 2.66
1820 1916 8.092068 ACAAAAATTAACTAGCATACCCCAAAC 58.908 33.333 0.00 0.00 0.00 2.93
1821 1917 8.196378 ACAAAAATTAACTAGCATACCCCAAA 57.804 30.769 0.00 0.00 0.00 3.28
1822 1918 7.784470 ACAAAAATTAACTAGCATACCCCAA 57.216 32.000 0.00 0.00 0.00 4.12
1823 1919 7.784470 AACAAAAATTAACTAGCATACCCCA 57.216 32.000 0.00 0.00 0.00 4.96
1824 1920 9.496873 AAAAACAAAAATTAACTAGCATACCCC 57.503 29.630 0.00 0.00 0.00 4.95
1830 1926 9.862371 TGACTCAAAAACAAAAATTAACTAGCA 57.138 25.926 0.00 0.00 0.00 3.49
1833 1929 9.843334 ACGTGACTCAAAAACAAAAATTAACTA 57.157 25.926 0.00 0.00 0.00 2.24
1834 1930 8.751302 ACGTGACTCAAAAACAAAAATTAACT 57.249 26.923 0.00 0.00 0.00 2.24
1835 1931 9.800299 AAACGTGACTCAAAAACAAAAATTAAC 57.200 25.926 0.00 0.00 0.00 2.01
1836 1932 9.798885 CAAACGTGACTCAAAAACAAAAATTAA 57.201 25.926 0.00 0.00 0.00 1.40
1837 1933 9.193133 TCAAACGTGACTCAAAAACAAAAATTA 57.807 25.926 0.00 0.00 0.00 1.40
1838 1934 8.077836 TCAAACGTGACTCAAAAACAAAAATT 57.922 26.923 0.00 0.00 0.00 1.82
1839 1935 7.148656 CCTCAAACGTGACTCAAAAACAAAAAT 60.149 33.333 0.00 0.00 0.00 1.82
1840 1936 6.144724 CCTCAAACGTGACTCAAAAACAAAAA 59.855 34.615 0.00 0.00 0.00 1.94
1841 1937 5.631512 CCTCAAACGTGACTCAAAAACAAAA 59.368 36.000 0.00 0.00 0.00 2.44
1842 1938 5.157781 CCTCAAACGTGACTCAAAAACAAA 58.842 37.500 0.00 0.00 0.00 2.83
1843 1939 4.216687 ACCTCAAACGTGACTCAAAAACAA 59.783 37.500 0.00 0.00 0.00 2.83
1844 1940 3.754323 ACCTCAAACGTGACTCAAAAACA 59.246 39.130 0.00 0.00 0.00 2.83
1845 1941 4.351131 ACCTCAAACGTGACTCAAAAAC 57.649 40.909 0.00 0.00 0.00 2.43
1846 1942 5.587043 ACATACCTCAAACGTGACTCAAAAA 59.413 36.000 0.00 0.00 0.00 1.94
1847 1943 5.120399 ACATACCTCAAACGTGACTCAAAA 58.880 37.500 0.00 0.00 0.00 2.44
1848 1944 4.699637 ACATACCTCAAACGTGACTCAAA 58.300 39.130 0.00 0.00 0.00 2.69
1849 1945 4.330944 ACATACCTCAAACGTGACTCAA 57.669 40.909 0.00 0.00 0.00 3.02
1850 1946 5.654603 ATACATACCTCAAACGTGACTCA 57.345 39.130 0.00 0.00 0.00 3.41
1851 1947 6.963049 AAATACATACCTCAAACGTGACTC 57.037 37.500 0.00 0.00 0.00 3.36
1852 1948 7.739498 AAAAATACATACCTCAAACGTGACT 57.261 32.000 0.00 0.00 0.00 3.41
1876 1972 5.527582 GCCTACACAAACAGAGAGAGAAAAA 59.472 40.000 0.00 0.00 0.00 1.94
1877 1973 5.057149 GCCTACACAAACAGAGAGAGAAAA 58.943 41.667 0.00 0.00 0.00 2.29
1878 1974 4.345257 AGCCTACACAAACAGAGAGAGAAA 59.655 41.667 0.00 0.00 0.00 2.52
1879 1975 3.898123 AGCCTACACAAACAGAGAGAGAA 59.102 43.478 0.00 0.00 0.00 2.87
1880 1976 3.501349 AGCCTACACAAACAGAGAGAGA 58.499 45.455 0.00 0.00 0.00 3.10
1881 1977 3.951775 AGCCTACACAAACAGAGAGAG 57.048 47.619 0.00 0.00 0.00 3.20
1882 1978 3.305403 CGAAGCCTACACAAACAGAGAGA 60.305 47.826 0.00 0.00 0.00 3.10
1883 1979 2.989840 CGAAGCCTACACAAACAGAGAG 59.010 50.000 0.00 0.00 0.00 3.20
1884 1980 2.288825 CCGAAGCCTACACAAACAGAGA 60.289 50.000 0.00 0.00 0.00 3.10
1885 1981 2.069273 CCGAAGCCTACACAAACAGAG 58.931 52.381 0.00 0.00 0.00 3.35
1886 1982 1.414919 ACCGAAGCCTACACAAACAGA 59.585 47.619 0.00 0.00 0.00 3.41
1887 1983 1.878953 ACCGAAGCCTACACAAACAG 58.121 50.000 0.00 0.00 0.00 3.16
1888 1984 1.944024 CAACCGAAGCCTACACAAACA 59.056 47.619 0.00 0.00 0.00 2.83
1889 1985 1.944709 ACAACCGAAGCCTACACAAAC 59.055 47.619 0.00 0.00 0.00 2.93
1890 1986 1.944024 CACAACCGAAGCCTACACAAA 59.056 47.619 0.00 0.00 0.00 2.83
1891 1987 1.134340 ACACAACCGAAGCCTACACAA 60.134 47.619 0.00 0.00 0.00 3.33
1892 1988 0.466543 ACACAACCGAAGCCTACACA 59.533 50.000 0.00 0.00 0.00 3.72
1893 1989 1.529865 GAACACAACCGAAGCCTACAC 59.470 52.381 0.00 0.00 0.00 2.90
1894 1990 1.414919 AGAACACAACCGAAGCCTACA 59.585 47.619 0.00 0.00 0.00 2.74
1895 1991 1.798813 CAGAACACAACCGAAGCCTAC 59.201 52.381 0.00 0.00 0.00 3.18
1896 1992 1.414919 ACAGAACACAACCGAAGCCTA 59.585 47.619 0.00 0.00 0.00 3.93
1897 1993 0.180406 ACAGAACACAACCGAAGCCT 59.820 50.000 0.00 0.00 0.00 4.58
1898 1994 0.586802 GACAGAACACAACCGAAGCC 59.413 55.000 0.00 0.00 0.00 4.35
1899 1995 1.583054 AGACAGAACACAACCGAAGC 58.417 50.000 0.00 0.00 0.00 3.86
1900 1996 4.616181 AAAAGACAGAACACAACCGAAG 57.384 40.909 0.00 0.00 0.00 3.79
1901 1997 4.698304 AGAAAAAGACAGAACACAACCGAA 59.302 37.500 0.00 0.00 0.00 4.30
1902 1998 4.258543 AGAAAAAGACAGAACACAACCGA 58.741 39.130 0.00 0.00 0.00 4.69
1903 1999 4.616181 AGAAAAAGACAGAACACAACCG 57.384 40.909 0.00 0.00 0.00 4.44
1904 2000 6.918022 CCATAAGAAAAAGACAGAACACAACC 59.082 38.462 0.00 0.00 0.00 3.77
1905 2001 7.432252 CACCATAAGAAAAAGACAGAACACAAC 59.568 37.037 0.00 0.00 0.00 3.32
1906 2002 7.416213 CCACCATAAGAAAAAGACAGAACACAA 60.416 37.037 0.00 0.00 0.00 3.33
1907 2003 6.039270 CCACCATAAGAAAAAGACAGAACACA 59.961 38.462 0.00 0.00 0.00 3.72
1908 2004 6.039382 ACCACCATAAGAAAAAGACAGAACAC 59.961 38.462 0.00 0.00 0.00 3.32
1909 2005 6.126409 ACCACCATAAGAAAAAGACAGAACA 58.874 36.000 0.00 0.00 0.00 3.18
1910 2006 6.635030 ACCACCATAAGAAAAAGACAGAAC 57.365 37.500 0.00 0.00 0.00 3.01
1911 2007 7.654022 AAACCACCATAAGAAAAAGACAGAA 57.346 32.000 0.00 0.00 0.00 3.02
1912 2008 7.417342 CCAAAACCACCATAAGAAAAAGACAGA 60.417 37.037 0.00 0.00 0.00 3.41
1913 2009 6.701400 CCAAAACCACCATAAGAAAAAGACAG 59.299 38.462 0.00 0.00 0.00 3.51
1914 2010 6.407525 CCCAAAACCACCATAAGAAAAAGACA 60.408 38.462 0.00 0.00 0.00 3.41
1915 2011 5.989168 CCCAAAACCACCATAAGAAAAAGAC 59.011 40.000 0.00 0.00 0.00 3.01
1916 2012 5.900123 TCCCAAAACCACCATAAGAAAAAGA 59.100 36.000 0.00 0.00 0.00 2.52
1917 2013 6.168270 TCCCAAAACCACCATAAGAAAAAG 57.832 37.500 0.00 0.00 0.00 2.27
1918 2014 6.517529 CGATCCCAAAACCACCATAAGAAAAA 60.518 38.462 0.00 0.00 0.00 1.94
1919 2015 5.047660 CGATCCCAAAACCACCATAAGAAAA 60.048 40.000 0.00 0.00 0.00 2.29
1920 2016 4.461081 CGATCCCAAAACCACCATAAGAAA 59.539 41.667 0.00 0.00 0.00 2.52
1921 2017 4.013728 CGATCCCAAAACCACCATAAGAA 58.986 43.478 0.00 0.00 0.00 2.52
1922 2018 3.009695 ACGATCCCAAAACCACCATAAGA 59.990 43.478 0.00 0.00 0.00 2.10
1923 2019 3.352648 ACGATCCCAAAACCACCATAAG 58.647 45.455 0.00 0.00 0.00 1.73
1924 2020 3.443145 ACGATCCCAAAACCACCATAA 57.557 42.857 0.00 0.00 0.00 1.90
1925 2021 3.085533 CAACGATCCCAAAACCACCATA 58.914 45.455 0.00 0.00 0.00 2.74
1926 2022 1.892474 CAACGATCCCAAAACCACCAT 59.108 47.619 0.00 0.00 0.00 3.55
1927 2023 1.323412 CAACGATCCCAAAACCACCA 58.677 50.000 0.00 0.00 0.00 4.17
1928 2024 1.324383 ACAACGATCCCAAAACCACC 58.676 50.000 0.00 0.00 0.00 4.61
1929 2025 3.377439 GAAACAACGATCCCAAAACCAC 58.623 45.455 0.00 0.00 0.00 4.16
1930 2026 2.033550 CGAAACAACGATCCCAAAACCA 59.966 45.455 0.00 0.00 35.09 3.67
1931 2027 2.606065 CCGAAACAACGATCCCAAAACC 60.606 50.000 0.00 0.00 35.09 3.27
1932 2028 2.657184 CCGAAACAACGATCCCAAAAC 58.343 47.619 0.00 0.00 35.09 2.43
1933 2029 1.001158 GCCGAAACAACGATCCCAAAA 60.001 47.619 0.00 0.00 35.09 2.44
1934 2030 0.594110 GCCGAAACAACGATCCCAAA 59.406 50.000 0.00 0.00 35.09 3.28
1935 2031 1.238625 GGCCGAAACAACGATCCCAA 61.239 55.000 0.00 0.00 35.09 4.12
1936 2032 1.673009 GGCCGAAACAACGATCCCA 60.673 57.895 0.00 0.00 35.09 4.37
1937 2033 1.376812 AGGCCGAAACAACGATCCC 60.377 57.895 0.00 0.00 35.09 3.85
1938 2034 1.644786 CCAGGCCGAAACAACGATCC 61.645 60.000 0.00 0.00 35.09 3.36
1939 2035 1.644786 CCCAGGCCGAAACAACGATC 61.645 60.000 0.00 0.00 35.09 3.69
1940 2036 1.674322 CCCAGGCCGAAACAACGAT 60.674 57.895 0.00 0.00 35.09 3.73
1941 2037 2.281208 CCCAGGCCGAAACAACGA 60.281 61.111 0.00 0.00 35.09 3.85
1942 2038 1.730451 AAACCCAGGCCGAAACAACG 61.730 55.000 0.00 0.00 0.00 4.10
1943 2039 0.249280 CAAACCCAGGCCGAAACAAC 60.249 55.000 0.00 0.00 0.00 3.32
1944 2040 2.022240 GCAAACCCAGGCCGAAACAA 62.022 55.000 0.00 0.00 0.00 2.83
1945 2041 2.494530 GCAAACCCAGGCCGAAACA 61.495 57.895 0.00 0.00 0.00 2.83
1946 2042 0.891904 TAGCAAACCCAGGCCGAAAC 60.892 55.000 0.00 0.00 0.00 2.78
1947 2043 0.039035 ATAGCAAACCCAGGCCGAAA 59.961 50.000 0.00 0.00 0.00 3.46
1948 2044 0.679640 CATAGCAAACCCAGGCCGAA 60.680 55.000 0.00 0.00 0.00 4.30
1949 2045 1.077787 CATAGCAAACCCAGGCCGA 60.078 57.895 0.00 0.00 0.00 5.54
1950 2046 0.965363 AACATAGCAAACCCAGGCCG 60.965 55.000 0.00 0.00 0.00 6.13
1951 2047 1.266178 AAACATAGCAAACCCAGGCC 58.734 50.000 0.00 0.00 0.00 5.19
1952 2048 3.401033 AAAAACATAGCAAACCCAGGC 57.599 42.857 0.00 0.00 0.00 4.85
1975 2071 7.041644 TGAGAAATAAAGTTGTTTACCCGTCAG 60.042 37.037 0.00 0.00 30.79 3.51
1976 2072 6.766944 TGAGAAATAAAGTTGTTTACCCGTCA 59.233 34.615 0.00 0.00 30.79 4.35
1977 2073 7.193377 TGAGAAATAAAGTTGTTTACCCGTC 57.807 36.000 0.00 0.00 30.79 4.79
2078 2174 6.824305 AGTATTGCAAAACACTCTTAGCAT 57.176 33.333 1.71 0.00 0.00 3.79
2122 2220 2.350057 TGTGGTTCATTGTTTCCGGA 57.650 45.000 0.00 0.00 0.00 5.14
2135 2233 2.026262 ACTATCAAAGGCCGATGTGGTT 60.026 45.455 10.14 0.00 41.21 3.67
2215 2313 4.202111 ACACTATTGAGGCAACAAACCAAC 60.202 41.667 1.73 0.00 41.41 3.77
2233 2331 8.234136 AGTTGAATCCGATAGTATGAACACTA 57.766 34.615 0.00 0.00 35.54 2.74
2303 2401 0.595588 CAGAGATAGCAGCGATCCGT 59.404 55.000 11.59 0.00 0.00 4.69
2376 2488 0.039617 GCTCGAGATGATCAGGACGG 60.040 60.000 18.75 2.78 0.00 4.79
2379 2491 3.145286 CAGTAGCTCGAGATGATCAGGA 58.855 50.000 18.75 0.00 0.00 3.86
2651 2763 0.836606 TAGGCGAGATTCCAATGGCA 59.163 50.000 0.00 0.00 0.00 4.92
2684 2796 2.974794 CACCATGGATACTCTGATGGGA 59.025 50.000 21.47 0.00 39.86 4.37
2686 2798 4.904895 ATCACCATGGATACTCTGATGG 57.095 45.455 21.47 0.00 41.11 3.51
2748 2860 1.602377 GACTGAACTTGGGGTGAAACG 59.398 52.381 0.00 0.00 38.12 3.60
2749 2861 1.954382 GGACTGAACTTGGGGTGAAAC 59.046 52.381 0.00 0.00 0.00 2.78
2755 2867 4.350816 TGGATATATGGACTGAACTTGGGG 59.649 45.833 0.00 0.00 0.00 4.96


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

AutoCloner maintained by Alex Coulton.