Multiple sequence alignment - TraesCS2A01G253700

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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 TraesCS2A01G253700 chr2A 100.000 3497 0 0 2525 6021 385976456 385979952 0.000000e+00 6458.0
1 TraesCS2A01G253700 chr2A 100.000 1965 0 0 1 1965 385973932 385975896 0.000000e+00 3629.0
2 TraesCS2A01G253700 chr2A 87.778 90 11 0 5330 5419 524333404 524333493 8.250000e-19 106.0
3 TraesCS2A01G253700 chr2A 88.372 86 10 0 5329 5414 524333489 524333404 2.970000e-18 104.0
4 TraesCS2A01G253700 chr2A 81.176 85 16 0 5524 5608 587277784 587277868 1.080000e-07 69.4
5 TraesCS2A01G253700 chr2D 97.414 2977 41 6 2554 5497 306484859 306487832 0.000000e+00 5038.0
6 TraesCS2A01G253700 chr2D 95.106 1083 34 11 742 1811 306483066 306484142 0.000000e+00 1688.0
7 TraesCS2A01G253700 chr2D 94.534 494 25 2 5498 5990 306487866 306488358 0.000000e+00 761.0
8 TraesCS2A01G253700 chr2D 92.742 124 8 1 1837 1959 109700472 109700349 1.720000e-40 178.0
9 TraesCS2A01G253700 chr2D 94.737 38 0 2 5983 6019 592182870 592182834 2.340000e-04 58.4
10 TraesCS2A01G253700 chr2B 95.015 2989 101 25 2542 5497 374679936 374682909 0.000000e+00 4650.0
11 TraesCS2A01G253700 chr2B 93.806 1114 51 12 744 1846 374677421 374678527 0.000000e+00 1659.0
12 TraesCS2A01G253700 chr2B 95.111 450 19 3 5543 5990 374683011 374683459 0.000000e+00 706.0
13 TraesCS2A01G253700 chr2B 95.775 71 3 0 5498 5568 374682943 374683013 1.370000e-21 115.0
14 TraesCS2A01G253700 chr2B 90.741 54 4 1 702 754 6598918 6598865 3.010000e-08 71.3
15 TraesCS2A01G253700 chr2B 89.474 57 4 2 703 759 73627650 73627596 3.010000e-08 71.3
16 TraesCS2A01G253700 chr2B 100.000 31 0 0 5991 6021 40446699 40446729 2.340000e-04 58.4
17 TraesCS2A01G253700 chr3A 98.917 739 8 0 1 739 714400541 714399803 0.000000e+00 1321.0
18 TraesCS2A01G253700 chr3A 94.167 120 6 1 1842 1960 108378992 108378873 1.330000e-41 182.0
19 TraesCS2A01G253700 chr3A 93.388 121 7 1 1843 1962 12239979 12239859 1.720000e-40 178.0
20 TraesCS2A01G253700 chr1B 98.782 739 9 0 1 739 355684192 355684930 0.000000e+00 1315.0
21 TraesCS2A01G253700 chr1B 98.113 742 12 1 1 740 55458384 55459125 0.000000e+00 1291.0
22 TraesCS2A01G253700 chr1B 90.000 50 3 2 704 752 17263305 17263257 5.040000e-06 63.9
23 TraesCS2A01G253700 chr1B 100.000 31 0 0 5991 6021 38222803 38222833 2.340000e-04 58.4
24 TraesCS2A01G253700 chr7B 98.378 740 11 1 1 740 453755571 453756309 0.000000e+00 1299.0
25 TraesCS2A01G253700 chr7B 98.106 739 14 0 1 739 11335298 11336036 0.000000e+00 1288.0
26 TraesCS2A01G253700 chr7B 94.872 117 5 1 1843 1958 433515367 433515251 1.330000e-41 182.0
27 TraesCS2A01G253700 chr7B 89.552 67 5 2 690 755 380850611 380850546 3.870000e-12 84.2
28 TraesCS2A01G253700 chr7B 89.091 55 2 4 702 752 78118382 78118328 1.400000e-06 65.8
29 TraesCS2A01G253700 chr1A 98.108 740 14 0 1 740 582663000 582662261 0.000000e+00 1290.0
30 TraesCS2A01G253700 chr1A 80.702 114 17 3 5516 5628 545537421 545537530 3.870000e-12 84.2
31 TraesCS2A01G253700 chr1A 100.000 29 0 0 5993 6021 3799022 3799050 3.000000e-03 54.7
32 TraesCS2A01G253700 chr6B 97.981 743 13 2 1 741 247044774 247044032 0.000000e+00 1288.0
33 TraesCS2A01G253700 chr6B 81.452 124 23 0 5505 5628 646254526 646254649 1.070000e-17 102.0
34 TraesCS2A01G253700 chr5B 97.976 741 13 2 1 740 703085656 703086395 0.000000e+00 1284.0
35 TraesCS2A01G253700 chr5B 95.000 40 1 1 5505 5543 652625338 652625299 1.810000e-05 62.1
36 TraesCS2A01G253700 chr4A 97.055 747 19 3 1 746 743134630 743133886 0.000000e+00 1254.0
37 TraesCS2A01G253700 chr4A 93.333 75 4 1 5329 5403 703430515 703430588 6.380000e-20 110.0
38 TraesCS2A01G253700 chr4A 79.032 124 26 0 5505 5628 3450396 3450273 1.080000e-12 86.1
39 TraesCS2A01G253700 chr4A 100.000 29 0 0 5993 6021 614259925 614259897 3.000000e-03 54.7
40 TraesCS2A01G253700 chr7D 94.915 118 5 1 1843 1959 301329624 301329741 3.710000e-42 183.0
41 TraesCS2A01G253700 chr7D 80.357 112 20 2 5505 5615 59415082 59415192 3.870000e-12 84.2
42 TraesCS2A01G253700 chr7D 85.507 69 6 4 704 769 3466263 3466196 1.080000e-07 69.4
43 TraesCS2A01G253700 chr7D 97.500 40 1 0 702 741 340233543 340233582 1.080000e-07 69.4
44 TraesCS2A01G253700 chr5A 93.388 121 7 1 1842 1961 136985007 136984887 1.720000e-40 178.0
45 TraesCS2A01G253700 chr1D 92.623 122 8 1 1839 1959 116548336 116548457 2.230000e-39 174.0
46 TraesCS2A01G253700 chr1D 89.535 86 9 0 5330 5415 279101376 279101461 6.380000e-20 110.0
47 TraesCS2A01G253700 chr1D 87.209 86 11 0 5329 5414 279101461 279101376 1.380000e-16 99.0
48 TraesCS2A01G253700 chr1D 92.500 40 3 0 5711 5750 101090743 101090704 2.340000e-04 58.4
49 TraesCS2A01G253700 chr7A 90.698 129 10 2 1838 1965 721098228 721098355 2.890000e-38 171.0
50 TraesCS2A01G253700 chr7A 87.500 64 7 1 692 754 137016642 137016579 8.370000e-09 73.1
51 TraesCS2A01G253700 chr7A 87.500 56 4 3 702 755 22322091 22322145 1.810000e-05 62.1
52 TraesCS2A01G253700 chr4B 84.431 167 17 7 1796 1959 565530248 565530088 8.080000e-34 156.0
53 TraesCS2A01G253700 chr6D 88.636 88 10 0 5330 5417 90111817 90111904 2.290000e-19 108.0
54 TraesCS2A01G253700 chr6D 81.538 130 23 1 5505 5633 429020840 429020969 8.250000e-19 106.0
55 TraesCS2A01G253700 chr6D 88.372 86 10 0 5332 5417 13290848 13290763 2.970000e-18 104.0
56 TraesCS2A01G253700 chr3B 93.478 46 2 1 5712 5756 749030442 749030397 3.890000e-07 67.6
57 TraesCS2A01G253700 chr6A 100.000 33 0 0 5507 5539 574243948 574243980 1.810000e-05 62.1


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 TraesCS2A01G253700 chr2A 385973932 385979952 6020 False 5043.500000 6458 100.000000 1 6021 2 chr2A.!!$F3 6020
1 TraesCS2A01G253700 chr2D 306483066 306488358 5292 False 2495.666667 5038 95.684667 742 5990 3 chr2D.!!$F1 5248
2 TraesCS2A01G253700 chr2B 374677421 374683459 6038 False 1782.500000 4650 94.926750 744 5990 4 chr2B.!!$F2 5246
3 TraesCS2A01G253700 chr3A 714399803 714400541 738 True 1321.000000 1321 98.917000 1 739 1 chr3A.!!$R3 738
4 TraesCS2A01G253700 chr1B 355684192 355684930 738 False 1315.000000 1315 98.782000 1 739 1 chr1B.!!$F3 738
5 TraesCS2A01G253700 chr1B 55458384 55459125 741 False 1291.000000 1291 98.113000 1 740 1 chr1B.!!$F2 739
6 TraesCS2A01G253700 chr7B 453755571 453756309 738 False 1299.000000 1299 98.378000 1 740 1 chr7B.!!$F2 739
7 TraesCS2A01G253700 chr7B 11335298 11336036 738 False 1288.000000 1288 98.106000 1 739 1 chr7B.!!$F1 738
8 TraesCS2A01G253700 chr1A 582662261 582663000 739 True 1290.000000 1290 98.108000 1 740 1 chr1A.!!$R1 739
9 TraesCS2A01G253700 chr6B 247044032 247044774 742 True 1288.000000 1288 97.981000 1 741 1 chr6B.!!$R1 740
10 TraesCS2A01G253700 chr5B 703085656 703086395 739 False 1284.000000 1284 97.976000 1 740 1 chr5B.!!$F1 739
11 TraesCS2A01G253700 chr4A 743133886 743134630 744 True 1254.000000 1254 97.055000 1 746 1 chr4A.!!$R3 745

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
835 844 0.319900 CTACATTCTGGGCCGATCCG 60.320 60.0 0.00 0.00 34.94 4.18 F
1837 1856 0.107312 ATGGCTGCCTGATGACTCAC 60.107 55.0 21.03 0.00 0.00 3.51 F
1883 1902 0.110486 TTGTCCCAAGCTTGTCCCTC 59.890 55.0 24.35 10.65 0.00 4.30 F
1940 1959 0.486879 TCCATTTGGGGGACAAGCTT 59.513 50.0 0.00 0.00 40.82 3.74 F
2549 3733 0.523519 GCTAGTTTGCCTTGCTGTCC 59.476 55.0 0.00 0.00 38.66 4.02 F
4709 5925 0.106268 TGGCGGTACCCCTAATCGTA 60.106 55.0 17.32 0.00 37.83 3.43 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1866 1885 0.110486 TTGAGGGACAAGCTTGGGAC 59.890 55.0 29.18 18.90 34.20 4.46 R
3686 4899 2.386661 ACCCAGATGCTAAACTGACG 57.613 50.0 0.00 0.00 36.38 4.35 R
4356 5570 0.533951 CAATGCCTTTCTTCCCTGCC 59.466 55.0 0.00 0.00 0.00 4.85 R
4516 5732 0.400213 CCTTGGGAAGCTACACACCA 59.600 55.0 0.00 0.00 0.00 4.17 R
4810 6026 0.528684 GACCTCGCCAAGAATCTCCG 60.529 60.0 0.00 0.00 0.00 4.63 R
5997 7272 0.106819 ATGAGCCTGGGCACTGAATC 60.107 55.0 14.39 2.15 44.88 2.52 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
196 201 6.834168 AAAACAGTCCCGTAAATGATGAAT 57.166 33.333 0.00 0.00 0.00 2.57
216 221 4.717233 ATAAAATCAAACATCGCCTGCA 57.283 36.364 0.00 0.00 0.00 4.41
401 406 7.902920 AAATGTCTATTTTGCCTCCATACAT 57.097 32.000 0.00 0.00 32.70 2.29
541 546 6.682861 GCGCCTTAGGAAATCAAATTATGGTT 60.683 38.462 0.69 0.00 32.26 3.67
798 807 4.081254 AGGACTTGTATTTAGGAACGGACC 60.081 45.833 0.00 0.00 0.00 4.46
800 809 5.485620 GACTTGTATTTAGGAACGGACCTT 58.514 41.667 7.89 0.00 41.00 3.50
801 810 5.243207 ACTTGTATTTAGGAACGGACCTTG 58.757 41.667 7.89 0.00 41.00 3.61
813 822 5.066117 GGAACGGACCTTGGAAAAAGATATC 59.934 44.000 0.00 0.00 0.00 1.63
817 826 5.429130 GGACCTTGGAAAAAGATATCGACT 58.571 41.667 0.00 0.00 0.00 4.18
822 831 8.047310 ACCTTGGAAAAAGATATCGACTACATT 58.953 33.333 0.00 0.00 0.00 2.71
830 839 0.389391 ATCGACTACATTCTGGGCCG 59.611 55.000 0.00 0.00 0.00 6.13
831 840 0.681887 TCGACTACATTCTGGGCCGA 60.682 55.000 0.00 0.00 0.00 5.54
833 842 1.603172 CGACTACATTCTGGGCCGATC 60.603 57.143 0.00 0.00 0.00 3.69
834 843 0.759346 ACTACATTCTGGGCCGATCC 59.241 55.000 0.00 0.00 0.00 3.36
835 844 0.319900 CTACATTCTGGGCCGATCCG 60.320 60.000 0.00 0.00 34.94 4.18
873 888 2.046285 GCCCAGTCCAATTCACGGG 61.046 63.158 0.00 0.00 36.71 5.28
882 897 1.656652 CAATTCACGGGCTAGACCAG 58.343 55.000 16.92 10.25 42.05 4.00
1309 1324 1.377366 GATCGTGGAGAGACTCGCCA 61.377 60.000 22.55 22.55 44.14 5.69
1398 1413 4.984161 CAGTCCCAGTGTTTTGCTTAATTG 59.016 41.667 0.00 0.00 0.00 2.32
1399 1414 3.740832 GTCCCAGTGTTTTGCTTAATTGC 59.259 43.478 0.00 0.00 0.00 3.56
1443 1460 8.031277 TGGAATCATTAGATACGAGTCATGATG 58.969 37.037 0.00 0.00 32.83 3.07
1460 1477 0.396435 ATGCTCCCAGTTGTTCGTGA 59.604 50.000 0.00 0.00 0.00 4.35
1612 1630 0.516877 CCGCTGAAATGTTGCTTCGA 59.483 50.000 0.00 0.00 0.00 3.71
1647 1665 4.916983 AATTTGTTGAACAGTGCTGCTA 57.083 36.364 0.00 0.00 0.00 3.49
1835 1854 2.855209 ATATGGCTGCCTGATGACTC 57.145 50.000 21.03 0.00 0.00 3.36
1837 1856 0.107312 ATGGCTGCCTGATGACTCAC 60.107 55.000 21.03 0.00 0.00 3.51
1846 1865 4.142071 TGCCTGATGACTCACTGAATACTC 60.142 45.833 0.00 0.00 0.00 2.59
1847 1866 4.739137 GCCTGATGACTCACTGAATACTCC 60.739 50.000 0.00 0.00 0.00 3.85
1848 1867 4.202202 CCTGATGACTCACTGAATACTCCC 60.202 50.000 0.00 0.00 0.00 4.30
1850 1869 4.646945 TGATGACTCACTGAATACTCCCTC 59.353 45.833 0.00 0.00 0.00 4.30
1852 1871 2.359531 GACTCACTGAATACTCCCTCCG 59.640 54.545 0.00 0.00 0.00 4.63
1857 1876 2.108168 CTGAATACTCCCTCCGTCCAA 58.892 52.381 0.00 0.00 0.00 3.53
1858 1877 2.500098 CTGAATACTCCCTCCGTCCAAA 59.500 50.000 0.00 0.00 0.00 3.28
1859 1878 2.907696 TGAATACTCCCTCCGTCCAAAA 59.092 45.455 0.00 0.00 0.00 2.44
1860 1879 3.328343 TGAATACTCCCTCCGTCCAAAAA 59.672 43.478 0.00 0.00 0.00 1.94
1879 1898 3.801114 AAAACTTGTCCCAAGCTTGTC 57.199 42.857 24.35 14.49 0.00 3.18
1880 1899 1.692411 AACTTGTCCCAAGCTTGTCC 58.308 50.000 24.35 12.15 0.00 4.02
1881 1900 0.178990 ACTTGTCCCAAGCTTGTCCC 60.179 55.000 24.35 11.81 0.00 4.46
1882 1901 0.111253 CTTGTCCCAAGCTTGTCCCT 59.889 55.000 24.35 0.00 0.00 4.20
1883 1902 0.110486 TTGTCCCAAGCTTGTCCCTC 59.890 55.000 24.35 10.65 0.00 4.30
1884 1903 1.059584 TGTCCCAAGCTTGTCCCTCA 61.060 55.000 24.35 12.85 0.00 3.86
1885 1904 0.110486 GTCCCAAGCTTGTCCCTCAA 59.890 55.000 24.35 0.00 34.61 3.02
1886 1905 0.850100 TCCCAAGCTTGTCCCTCAAA 59.150 50.000 24.35 0.00 35.48 2.69
1887 1906 1.428912 TCCCAAGCTTGTCCCTCAAAT 59.571 47.619 24.35 0.00 35.48 2.32
1888 1907 1.547372 CCCAAGCTTGTCCCTCAAATG 59.453 52.381 24.35 5.47 35.48 2.32
1889 1908 1.547372 CCAAGCTTGTCCCTCAAATGG 59.453 52.381 24.35 1.81 35.48 3.16
1890 1909 2.242043 CAAGCTTGTCCCTCAAATGGT 58.758 47.619 18.65 0.00 35.48 3.55
1891 1910 3.420893 CAAGCTTGTCCCTCAAATGGTA 58.579 45.455 18.65 0.00 35.48 3.25
1892 1911 3.073274 AGCTTGTCCCTCAAATGGTAC 57.927 47.619 0.00 0.00 35.48 3.34
1893 1912 2.375174 AGCTTGTCCCTCAAATGGTACA 59.625 45.455 0.00 0.00 35.48 2.90
1894 1913 3.010584 AGCTTGTCCCTCAAATGGTACAT 59.989 43.478 0.00 0.00 35.93 2.29
1895 1914 3.378427 GCTTGTCCCTCAAATGGTACATC 59.622 47.826 0.00 0.00 35.93 3.06
1896 1915 4.848357 CTTGTCCCTCAAATGGTACATCT 58.152 43.478 0.00 0.00 35.93 2.90
1897 1916 5.629133 GCTTGTCCCTCAAATGGTACATCTA 60.629 44.000 0.00 0.00 35.93 1.98
1898 1917 6.051717 CTTGTCCCTCAAATGGTACATCTAG 58.948 44.000 0.00 0.00 35.93 2.43
1899 1918 7.403346 CTTGTCCCTCAAATGGTACATCTAGC 61.403 46.154 0.00 0.00 35.93 3.42
1900 1919 9.684763 CTTGTCCCTCAAATGGTACATCTAGCA 62.685 44.444 0.00 0.00 35.93 3.49
1923 1942 5.986135 CACTAACTTGGTGCTAGATACATCC 59.014 44.000 0.00 0.00 0.00 3.51
1924 1943 5.661312 ACTAACTTGGTGCTAGATACATCCA 59.339 40.000 0.00 0.00 0.00 3.41
1925 1944 5.636903 AACTTGGTGCTAGATACATCCAT 57.363 39.130 0.00 0.00 0.00 3.41
1926 1945 5.636903 ACTTGGTGCTAGATACATCCATT 57.363 39.130 0.00 0.00 0.00 3.16
1927 1946 6.006275 ACTTGGTGCTAGATACATCCATTT 57.994 37.500 0.00 0.00 0.00 2.32
1928 1947 5.824624 ACTTGGTGCTAGATACATCCATTTG 59.175 40.000 0.00 0.00 0.00 2.32
1929 1948 4.717877 TGGTGCTAGATACATCCATTTGG 58.282 43.478 0.00 0.00 0.00 3.28
1930 1949 4.074970 GGTGCTAGATACATCCATTTGGG 58.925 47.826 0.00 0.00 35.41 4.12
1931 1950 4.074970 GTGCTAGATACATCCATTTGGGG 58.925 47.826 0.00 0.00 37.22 4.96
1932 1951 3.074390 TGCTAGATACATCCATTTGGGGG 59.926 47.826 0.00 0.00 37.22 5.40
1933 1952 3.330701 GCTAGATACATCCATTTGGGGGA 59.669 47.826 0.00 0.00 39.14 4.81
1934 1953 3.884037 AGATACATCCATTTGGGGGAC 57.116 47.619 0.00 0.00 37.23 4.46
1935 1954 3.130450 AGATACATCCATTTGGGGGACA 58.870 45.455 0.00 0.00 37.23 4.02
1936 1955 3.531397 AGATACATCCATTTGGGGGACAA 59.469 43.478 0.00 0.00 37.23 3.18
1937 1956 2.236489 ACATCCATTTGGGGGACAAG 57.764 50.000 0.00 0.00 40.82 3.16
1938 1957 0.826062 CATCCATTTGGGGGACAAGC 59.174 55.000 0.00 0.00 40.82 4.01
1939 1958 0.712380 ATCCATTTGGGGGACAAGCT 59.288 50.000 0.00 0.00 40.82 3.74
1940 1959 0.486879 TCCATTTGGGGGACAAGCTT 59.513 50.000 0.00 0.00 40.82 3.74
1941 1960 1.132881 TCCATTTGGGGGACAAGCTTT 60.133 47.619 0.00 0.00 40.82 3.51
1942 1961 1.699083 CCATTTGGGGGACAAGCTTTT 59.301 47.619 0.00 0.00 40.82 2.27
1943 1962 2.106338 CCATTTGGGGGACAAGCTTTTT 59.894 45.455 0.00 0.00 40.82 1.94
1944 1963 3.402110 CATTTGGGGGACAAGCTTTTTC 58.598 45.455 0.00 0.00 40.82 2.29
1945 1964 1.036707 TTGGGGGACAAGCTTTTTCG 58.963 50.000 0.00 0.00 33.18 3.46
1946 1965 0.825840 TGGGGGACAAGCTTTTTCGG 60.826 55.000 0.00 0.00 0.00 4.30
1947 1966 0.538746 GGGGGACAAGCTTTTTCGGA 60.539 55.000 0.00 0.00 0.00 4.55
1948 1967 0.596577 GGGGACAAGCTTTTTCGGAC 59.403 55.000 0.00 0.00 0.00 4.79
1949 1968 1.314730 GGGACAAGCTTTTTCGGACA 58.685 50.000 0.00 0.00 0.00 4.02
1950 1969 1.266989 GGGACAAGCTTTTTCGGACAG 59.733 52.381 0.00 0.00 0.00 3.51
1951 1970 2.218603 GGACAAGCTTTTTCGGACAGA 58.781 47.619 0.00 0.00 0.00 3.41
1952 1971 2.224314 GGACAAGCTTTTTCGGACAGAG 59.776 50.000 0.00 0.00 0.00 3.35
1953 1972 2.222027 ACAAGCTTTTTCGGACAGAGG 58.778 47.619 0.00 0.00 0.00 3.69
1954 1973 1.537202 CAAGCTTTTTCGGACAGAGGG 59.463 52.381 0.00 0.00 0.00 4.30
1955 1974 1.056660 AGCTTTTTCGGACAGAGGGA 58.943 50.000 0.00 0.00 0.00 4.20
1956 1975 1.002544 AGCTTTTTCGGACAGAGGGAG 59.997 52.381 0.00 0.00 0.00 4.30
1957 1976 1.270893 GCTTTTTCGGACAGAGGGAGT 60.271 52.381 0.00 0.00 0.00 3.85
1958 1977 2.028385 GCTTTTTCGGACAGAGGGAGTA 60.028 50.000 0.00 0.00 0.00 2.59
1959 1978 3.586892 CTTTTTCGGACAGAGGGAGTAC 58.413 50.000 0.00 0.00 0.00 2.73
1960 1979 2.599408 TTTCGGACAGAGGGAGTACT 57.401 50.000 0.00 0.00 0.00 2.73
1961 1980 3.726557 TTTCGGACAGAGGGAGTACTA 57.273 47.619 0.00 0.00 0.00 1.82
1962 1981 3.726557 TTCGGACAGAGGGAGTACTAA 57.273 47.619 0.00 0.00 0.00 2.24
1963 1982 3.278668 TCGGACAGAGGGAGTACTAAG 57.721 52.381 0.00 0.00 0.00 2.18
1964 1983 2.575279 TCGGACAGAGGGAGTACTAAGT 59.425 50.000 0.00 0.00 0.00 2.24
2548 3732 1.238439 TGCTAGTTTGCCTTGCTGTC 58.762 50.000 0.00 0.00 41.73 3.51
2549 3733 0.523519 GCTAGTTTGCCTTGCTGTCC 59.476 55.000 0.00 0.00 38.66 4.02
2550 3734 1.884067 GCTAGTTTGCCTTGCTGTCCT 60.884 52.381 0.00 0.00 38.66 3.85
2558 3742 3.084039 TGCCTTGCTGTCCTTATTTCTG 58.916 45.455 0.00 0.00 0.00 3.02
2564 3748 3.134458 GCTGTCCTTATTTCTGGATCCG 58.866 50.000 7.39 2.06 34.58 4.18
3025 4238 4.641396 ACAGGATTCTTCGTCACAATGAA 58.359 39.130 0.00 0.00 0.00 2.57
3200 4413 7.421530 TCGACAAGTTGAGAAGGAATTTAAG 57.578 36.000 10.54 0.00 0.00 1.85
3620 4833 4.724074 TTTTGCATGAATCCCTTGCTAG 57.276 40.909 0.00 0.00 43.84 3.42
3686 4899 7.581011 TTTTGTTCTTCACTTGCTTTTCTTC 57.419 32.000 0.00 0.00 0.00 2.87
4356 5570 1.078759 GATCTGGACGAACTGCACGG 61.079 60.000 0.08 0.00 34.93 4.94
4516 5732 6.165700 ACTCATTGGCTGATTTCTTTTTGT 57.834 33.333 0.00 0.00 32.10 2.83
4518 5734 5.299148 TCATTGGCTGATTTCTTTTTGTGG 58.701 37.500 0.00 0.00 0.00 4.17
4638 5854 0.955919 GGTTCCTCTTTCAGCCACGG 60.956 60.000 0.00 0.00 0.00 4.94
4709 5925 0.106268 TGGCGGTACCCCTAATCGTA 60.106 55.000 17.32 0.00 37.83 3.43
4820 6036 0.108138 CAGCGGGTTCGGAGATTCTT 60.108 55.000 0.00 0.00 35.04 2.52
4872 6088 1.137872 CAGGTCTAGCTTCAATCGCCT 59.862 52.381 0.00 0.00 0.00 5.52
5011 6227 2.362120 GGCAGACCAGGCAGCATT 60.362 61.111 0.00 0.00 35.26 3.56
5024 6240 4.402155 CAGGCAGCATTAAGGATTAACCAA 59.598 41.667 0.00 0.00 44.35 3.67
5025 6241 5.069516 CAGGCAGCATTAAGGATTAACCAAT 59.930 40.000 0.00 0.00 44.35 3.16
5118 6334 5.304357 TGAGTTCACCAATCTCTCTGTGTAA 59.696 40.000 0.00 0.00 0.00 2.41
5121 6337 7.227156 AGTTCACCAATCTCTCTGTGTAATTT 58.773 34.615 0.00 0.00 0.00 1.82
5158 6374 5.183904 GGGTTGTTTGAGAAGATGTATGCTT 59.816 40.000 0.00 0.00 0.00 3.91
5227 6443 1.393539 CCTGGTGCTCGTTGTATTTCG 59.606 52.381 0.00 0.00 0.00 3.46
5323 6540 4.322801 GCTCAGGCAGGTCTCTAAAAGTTA 60.323 45.833 0.00 0.00 38.54 2.24
5357 6574 6.266103 TCCCTCCGTATCAAAATATAAGACGT 59.734 38.462 0.00 0.00 0.00 4.34
5501 6751 6.372931 ACAGCTTGATTTAAGGGGCATTATA 58.627 36.000 0.00 0.00 36.87 0.98
5557 6807 7.792374 TCTAACACTTATCTTGATTGGATGC 57.208 36.000 0.00 0.00 0.00 3.91
5669 6943 7.411486 TTTTTCTACATTGGAACTGTTTGGA 57.589 32.000 0.00 0.00 0.00 3.53
5739 7013 9.362151 AGTTTGATCCAGTTTATAAGGAAAACA 57.638 29.630 15.23 7.24 38.92 2.83
5788 7062 5.046910 ACAATACATCTTGCCGAAAACAG 57.953 39.130 0.00 0.00 0.00 3.16
5914 7188 7.596749 CGCAAGTTTTCTTCTAGGAGAAATA 57.403 36.000 23.96 13.57 43.15 1.40
5916 7190 7.332182 CGCAAGTTTTCTTCTAGGAGAAATACT 59.668 37.037 23.96 23.15 43.15 2.12
5964 7238 8.090214 ACAAAATTACAGCAAATGTAGCATCTT 58.910 29.630 0.00 0.00 45.05 2.40
5965 7239 8.377681 CAAAATTACAGCAAATGTAGCATCTTG 58.622 33.333 0.00 0.00 45.05 3.02
5990 7265 5.111989 TGAGAAATGCAAAGAGATAGGACG 58.888 41.667 0.00 0.00 0.00 4.79
5991 7266 5.091261 AGAAATGCAAAGAGATAGGACGT 57.909 39.130 0.00 0.00 0.00 4.34
5992 7267 4.872691 AGAAATGCAAAGAGATAGGACGTG 59.127 41.667 0.00 0.00 0.00 4.49
5993 7268 2.010145 TGCAAAGAGATAGGACGTGC 57.990 50.000 0.00 0.00 0.00 5.34
5994 7269 1.275010 TGCAAAGAGATAGGACGTGCA 59.725 47.619 10.52 0.00 0.00 4.57
5995 7270 1.929836 GCAAAGAGATAGGACGTGCAG 59.070 52.381 10.52 0.00 0.00 4.41
5996 7271 1.929836 CAAAGAGATAGGACGTGCAGC 59.070 52.381 10.52 0.00 0.00 5.25
5998 7273 0.748367 AGAGATAGGACGTGCAGCGA 60.748 55.000 10.52 0.00 44.77 4.93
5999 7274 0.312416 GAGATAGGACGTGCAGCGAT 59.688 55.000 10.52 0.00 44.77 4.58
6000 7275 0.747255 AGATAGGACGTGCAGCGATT 59.253 50.000 10.52 0.00 44.77 3.34
6001 7276 1.132588 GATAGGACGTGCAGCGATTC 58.867 55.000 10.52 3.94 44.77 2.52
6002 7277 0.459899 ATAGGACGTGCAGCGATTCA 59.540 50.000 10.52 0.00 44.77 2.57
6003 7278 0.179137 TAGGACGTGCAGCGATTCAG 60.179 55.000 10.52 0.00 44.77 3.02
6004 7279 1.738099 GGACGTGCAGCGATTCAGT 60.738 57.895 14.18 0.00 44.77 3.41
6005 7280 1.417592 GACGTGCAGCGATTCAGTG 59.582 57.895 14.18 0.00 44.77 3.66
6006 7281 2.097160 CGTGCAGCGATTCAGTGC 59.903 61.111 3.04 1.18 44.77 4.40
6007 7282 2.482374 GTGCAGCGATTCAGTGCC 59.518 61.111 0.00 0.00 36.31 5.01
6008 7283 2.747460 TGCAGCGATTCAGTGCCC 60.747 61.111 5.11 0.00 36.31 5.36
6009 7284 2.747460 GCAGCGATTCAGTGCCCA 60.747 61.111 0.00 0.00 0.00 5.36
6010 7285 2.758089 GCAGCGATTCAGTGCCCAG 61.758 63.158 0.00 0.00 0.00 4.45
6011 7286 2.110967 CAGCGATTCAGTGCCCAGG 61.111 63.158 0.00 0.00 0.00 4.45
6012 7287 3.512516 GCGATTCAGTGCCCAGGC 61.513 66.667 0.38 0.38 42.35 4.85
6013 7288 2.270205 CGATTCAGTGCCCAGGCT 59.730 61.111 10.58 0.00 42.51 4.58
6014 7289 1.817099 CGATTCAGTGCCCAGGCTC 60.817 63.158 10.58 6.42 42.51 4.70
6015 7290 1.300963 GATTCAGTGCCCAGGCTCA 59.699 57.895 10.58 0.00 42.51 4.26
6016 7291 0.106819 GATTCAGTGCCCAGGCTCAT 60.107 55.000 10.58 0.00 42.51 2.90
6017 7292 0.106819 ATTCAGTGCCCAGGCTCATC 60.107 55.000 10.58 0.00 42.51 2.92
6018 7293 1.203441 TTCAGTGCCCAGGCTCATCT 61.203 55.000 10.58 0.81 42.51 2.90
6019 7294 1.451567 CAGTGCCCAGGCTCATCTG 60.452 63.158 10.58 9.24 42.51 2.90
6020 7295 2.827642 GTGCCCAGGCTCATCTGC 60.828 66.667 10.58 0.00 42.51 4.26
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
180 185 9.796120 GTTTGATTTTATTCATCATTTACGGGA 57.204 29.630 0.00 0.00 30.63 5.14
196 201 4.717233 ATGCAGGCGATGTTTGATTTTA 57.283 36.364 0.00 0.00 0.00 1.52
401 406 7.125204 ACTGTGGTACCAGAATAAACATAGCTA 59.875 37.037 16.93 0.00 36.30 3.32
776 782 4.081254 AGGTCCGTTCCTAAATACAAGTCC 60.081 45.833 0.00 0.00 35.87 3.85
782 788 4.476628 TCCAAGGTCCGTTCCTAAATAC 57.523 45.455 0.00 0.00 36.74 1.89
798 807 9.319143 AGAATGTAGTCGATATCTTTTTCCAAG 57.681 33.333 0.34 0.00 0.00 3.61
800 809 7.710907 CCAGAATGTAGTCGATATCTTTTTCCA 59.289 37.037 0.34 0.00 0.00 3.53
801 810 7.171678 CCCAGAATGTAGTCGATATCTTTTTCC 59.828 40.741 0.34 0.00 0.00 3.13
813 822 0.389391 ATCGGCCCAGAATGTAGTCG 59.611 55.000 0.00 0.00 36.98 4.18
817 826 1.745890 CGGATCGGCCCAGAATGTA 59.254 57.895 0.00 0.00 0.00 2.29
822 831 2.912542 CTAGCGGATCGGCCCAGA 60.913 66.667 20.46 4.44 0.00 3.86
830 839 1.006805 ATCAGCACGCTAGCGGATC 60.007 57.895 37.66 25.39 44.26 3.36
831 840 3.133014 ATCAGCACGCTAGCGGAT 58.867 55.556 37.66 26.85 43.10 4.18
833 842 0.030773 TAAGATCAGCACGCTAGCGG 59.969 55.000 37.66 27.08 44.69 5.52
834 843 1.124462 GTAAGATCAGCACGCTAGCG 58.876 55.000 34.27 34.27 46.03 4.26
835 844 2.123342 CTGTAAGATCAGCACGCTAGC 58.877 52.381 4.06 4.06 34.07 3.42
955 970 1.785041 CGTGCTGGTGTTGGAAGGTG 61.785 60.000 0.00 0.00 0.00 4.00
989 1004 0.457166 CGAGTTCATGGCGACGGTTA 60.457 55.000 0.00 0.00 0.00 2.85
1289 1304 1.098712 GGCGAGTCTCTCCACGATCT 61.099 60.000 3.87 0.00 0.00 2.75
1356 1371 5.476752 ACTGAAGCTTCGAATTCTAATGC 57.523 39.130 21.11 4.46 0.00 3.56
1362 1377 2.675348 CTGGGACTGAAGCTTCGAATTC 59.325 50.000 21.11 13.44 0.00 2.17
1443 1460 2.380084 TATCACGAACAACTGGGAGC 57.620 50.000 0.00 0.00 0.00 4.70
1612 1630 6.210287 TCAACAAATTTTAACCCGTCAGTT 57.790 33.333 0.00 0.00 0.00 3.16
1647 1665 9.851686 TCAATAGACCACTTGCTAAATTATCAT 57.148 29.630 0.00 0.00 0.00 2.45
1819 1838 1.196766 AGTGAGTCATCAGGCAGCCA 61.197 55.000 15.80 0.00 35.66 4.75
1824 1843 4.367450 GAGTATTCAGTGAGTCATCAGGC 58.633 47.826 0.00 0.00 35.66 4.85
1835 1854 1.409427 GGACGGAGGGAGTATTCAGTG 59.591 57.143 0.00 0.00 0.00 3.66
1837 1856 1.776662 TGGACGGAGGGAGTATTCAG 58.223 55.000 0.00 0.00 0.00 3.02
1863 1882 5.893518 TTGAGGGACAAGCTTGGGACAAG 62.894 52.174 29.18 3.71 37.48 3.16
1864 1883 4.092026 TTGAGGGACAAGCTTGGGACAA 62.092 50.000 29.18 21.59 37.48 3.18
1865 1884 1.059584 TGAGGGACAAGCTTGGGACA 61.060 55.000 29.18 17.71 0.00 4.02
1866 1885 0.110486 TTGAGGGACAAGCTTGGGAC 59.890 55.000 29.18 18.90 34.20 4.46
1867 1886 0.850100 TTTGAGGGACAAGCTTGGGA 59.150 50.000 29.18 4.51 39.77 4.37
1868 1887 1.547372 CATTTGAGGGACAAGCTTGGG 59.453 52.381 29.18 6.83 39.77 4.12
1869 1888 1.547372 CCATTTGAGGGACAAGCTTGG 59.453 52.381 29.18 12.28 39.77 3.61
1870 1889 2.242043 ACCATTTGAGGGACAAGCTTG 58.758 47.619 24.84 24.84 39.77 4.01
1871 1890 2.683211 ACCATTTGAGGGACAAGCTT 57.317 45.000 0.00 0.00 39.77 3.74
1872 1891 3.073274 GTACCATTTGAGGGACAAGCT 57.927 47.619 0.00 0.00 42.43 3.74
1877 1896 4.141711 TGCTAGATGTACCATTTGAGGGAC 60.142 45.833 0.00 0.00 43.23 4.46
1878 1897 4.037222 TGCTAGATGTACCATTTGAGGGA 58.963 43.478 0.00 0.00 0.00 4.20
1879 1898 4.130118 GTGCTAGATGTACCATTTGAGGG 58.870 47.826 0.00 0.00 0.00 4.30
1880 1899 5.028549 AGTGCTAGATGTACCATTTGAGG 57.971 43.478 0.00 0.00 31.32 3.86
1881 1900 7.268586 AGTTAGTGCTAGATGTACCATTTGAG 58.731 38.462 0.00 0.00 31.32 3.02
1882 1901 7.182817 AGTTAGTGCTAGATGTACCATTTGA 57.817 36.000 0.00 0.00 31.32 2.69
1883 1902 7.201644 CCAAGTTAGTGCTAGATGTACCATTTG 60.202 40.741 0.00 0.00 31.32 2.32
1884 1903 6.823689 CCAAGTTAGTGCTAGATGTACCATTT 59.176 38.462 0.00 0.00 31.32 2.32
1885 1904 6.070194 ACCAAGTTAGTGCTAGATGTACCATT 60.070 38.462 0.00 0.00 31.32 3.16
1886 1905 5.425539 ACCAAGTTAGTGCTAGATGTACCAT 59.574 40.000 0.00 0.00 31.32 3.55
1887 1906 4.775780 ACCAAGTTAGTGCTAGATGTACCA 59.224 41.667 0.00 0.00 31.32 3.25
1888 1907 5.109903 CACCAAGTTAGTGCTAGATGTACC 58.890 45.833 0.00 0.00 31.32 3.34
1899 1918 5.986135 GGATGTATCTAGCACCAAGTTAGTG 59.014 44.000 0.00 0.00 38.30 2.74
1900 1919 5.661312 TGGATGTATCTAGCACCAAGTTAGT 59.339 40.000 0.00 0.00 33.25 2.24
1901 1920 6.161855 TGGATGTATCTAGCACCAAGTTAG 57.838 41.667 0.00 0.00 32.79 2.34
1902 1921 6.747414 ATGGATGTATCTAGCACCAAGTTA 57.253 37.500 0.00 0.00 0.00 2.24
1903 1922 5.636903 ATGGATGTATCTAGCACCAAGTT 57.363 39.130 0.00 0.00 0.00 2.66
1904 1923 5.636903 AATGGATGTATCTAGCACCAAGT 57.363 39.130 0.00 0.00 0.00 3.16
1905 1924 5.240183 CCAAATGGATGTATCTAGCACCAAG 59.760 44.000 0.00 0.00 37.39 3.61
1906 1925 5.132502 CCAAATGGATGTATCTAGCACCAA 58.867 41.667 0.00 0.00 37.39 3.67
1907 1926 4.446167 CCCAAATGGATGTATCTAGCACCA 60.446 45.833 0.00 0.00 37.39 4.17
1908 1927 4.074970 CCCAAATGGATGTATCTAGCACC 58.925 47.826 0.00 0.00 37.39 5.01
1923 1942 3.402110 GAAAAAGCTTGTCCCCCAAATG 58.598 45.455 0.00 0.00 31.20 2.32
1924 1943 2.037121 CGAAAAAGCTTGTCCCCCAAAT 59.963 45.455 0.00 0.00 31.20 2.32
1925 1944 1.410882 CGAAAAAGCTTGTCCCCCAAA 59.589 47.619 0.00 0.00 31.20 3.28
1926 1945 1.036707 CGAAAAAGCTTGTCCCCCAA 58.963 50.000 0.00 0.00 0.00 4.12
1927 1946 0.825840 CCGAAAAAGCTTGTCCCCCA 60.826 55.000 0.00 0.00 0.00 4.96
1928 1947 0.538746 TCCGAAAAAGCTTGTCCCCC 60.539 55.000 0.00 0.00 0.00 5.40
1929 1948 0.596577 GTCCGAAAAAGCTTGTCCCC 59.403 55.000 0.00 0.00 0.00 4.81
1930 1949 1.266989 CTGTCCGAAAAAGCTTGTCCC 59.733 52.381 0.00 0.00 0.00 4.46
1931 1950 2.218603 TCTGTCCGAAAAAGCTTGTCC 58.781 47.619 0.00 0.00 0.00 4.02
1932 1951 2.224314 CCTCTGTCCGAAAAAGCTTGTC 59.776 50.000 0.00 0.00 0.00 3.18
1933 1952 2.222027 CCTCTGTCCGAAAAAGCTTGT 58.778 47.619 0.00 0.00 0.00 3.16
1934 1953 1.537202 CCCTCTGTCCGAAAAAGCTTG 59.463 52.381 0.00 0.00 0.00 4.01
1935 1954 1.420138 TCCCTCTGTCCGAAAAAGCTT 59.580 47.619 0.00 0.00 0.00 3.74
1936 1955 1.002544 CTCCCTCTGTCCGAAAAAGCT 59.997 52.381 0.00 0.00 0.00 3.74
1937 1956 1.270893 ACTCCCTCTGTCCGAAAAAGC 60.271 52.381 0.00 0.00 0.00 3.51
1938 1957 2.841442 ACTCCCTCTGTCCGAAAAAG 57.159 50.000 0.00 0.00 0.00 2.27
1939 1958 3.236896 AGTACTCCCTCTGTCCGAAAAA 58.763 45.455 0.00 0.00 0.00 1.94
1940 1959 2.885616 AGTACTCCCTCTGTCCGAAAA 58.114 47.619 0.00 0.00 0.00 2.29
1941 1960 2.599408 AGTACTCCCTCTGTCCGAAA 57.401 50.000 0.00 0.00 0.00 3.46
1942 1961 3.009916 ACTTAGTACTCCCTCTGTCCGAA 59.990 47.826 0.00 0.00 0.00 4.30
1943 1962 2.575279 ACTTAGTACTCCCTCTGTCCGA 59.425 50.000 0.00 0.00 0.00 4.55
1944 1963 3.002038 ACTTAGTACTCCCTCTGTCCG 57.998 52.381 0.00 0.00 0.00 4.79
2548 3732 2.755650 CCGACGGATCCAGAAATAAGG 58.244 52.381 8.64 0.00 0.00 2.69
2549 3733 2.135933 GCCGACGGATCCAGAAATAAG 58.864 52.381 20.50 0.00 0.00 1.73
2550 3734 1.483004 TGCCGACGGATCCAGAAATAA 59.517 47.619 20.50 0.00 0.00 1.40
2558 3742 2.180204 CCACATTGCCGACGGATCC 61.180 63.158 20.50 0.00 0.00 3.36
2611 3795 0.687920 TGATCCTGTACCGTTTGCCA 59.312 50.000 0.00 0.00 0.00 4.92
3025 4238 6.853490 AGAAAGAGAACCTTACCCATTCTTT 58.147 36.000 0.00 0.00 36.45 2.52
3200 4413 4.100808 AGAGTGTCTAATGGAGCAGATTCC 59.899 45.833 0.00 0.00 37.77 3.01
3560 4773 7.556275 CCCAGCACAAAGATTAAAGGTCTTATA 59.444 37.037 0.00 0.00 34.97 0.98
3674 4887 4.906437 GCTAAACTGACGAAGAAAAGCAAG 59.094 41.667 0.00 0.00 31.71 4.01
3686 4899 2.386661 ACCCAGATGCTAAACTGACG 57.613 50.000 0.00 0.00 36.38 4.35
4356 5570 0.533951 CAATGCCTTTCTTCCCTGCC 59.466 55.000 0.00 0.00 0.00 4.85
4516 5732 0.400213 CCTTGGGAAGCTACACACCA 59.600 55.000 0.00 0.00 0.00 4.17
4518 5734 1.880027 CAACCTTGGGAAGCTACACAC 59.120 52.381 0.00 0.00 0.00 3.82
4638 5854 4.700365 GTTCGCCAAAGCCACCGC 62.700 66.667 0.00 0.00 34.57 5.68
4810 6026 0.528684 GACCTCGCCAAGAATCTCCG 60.529 60.000 0.00 0.00 0.00 4.63
4872 6088 1.274728 CAAATTCGCCAAATCCACCCA 59.725 47.619 0.00 0.00 0.00 4.51
5011 6227 6.619437 TCCTCTGATCCATTGGTTAATCCTTA 59.381 38.462 1.86 0.00 37.07 2.69
5024 6240 6.319048 ACACAGTTAAATCCTCTGATCCAT 57.681 37.500 0.00 0.00 33.93 3.41
5025 6241 5.762179 ACACAGTTAAATCCTCTGATCCA 57.238 39.130 0.00 0.00 33.93 3.41
5118 6334 8.043710 TCAAACAACCCAAGATACAAAACAAAT 58.956 29.630 0.00 0.00 0.00 2.32
5121 6337 6.378564 TCTCAAACAACCCAAGATACAAAACA 59.621 34.615 0.00 0.00 0.00 2.83
5227 6443 3.552890 GCACAAGATGAGTTTTTCCCCAC 60.553 47.826 0.00 0.00 0.00 4.61
5323 6540 7.427989 TTTTGATACGGAGGGAGTATAAACT 57.572 36.000 0.00 0.00 39.21 2.66
5489 6706 6.545860 AAGGGAGTAAATATAATGCCCCTT 57.454 37.500 0.00 0.00 45.30 3.95
5501 6751 9.762381 TTATATTTGTGAACCAAGGGAGTAAAT 57.238 29.630 0.00 0.00 33.75 1.40
5574 6848 7.136119 GGATTGAAATAAGTGAACAAACACGA 58.864 34.615 0.00 0.00 44.35 4.35
5617 6891 2.707791 TCCCTCAGAGCTTTGGATATGG 59.292 50.000 4.15 0.00 0.00 2.74
5669 6943 4.044571 TCCCAATGGAAATTTCTCCTCTGT 59.955 41.667 17.42 0.00 37.86 3.41
5739 7013 5.116180 TCGGCACTTAAGATTTTCGATCAT 58.884 37.500 10.09 0.00 0.00 2.45
5788 7062 5.763204 TGGTGTTCTGTGTTTTCTATCTTCC 59.237 40.000 0.00 0.00 0.00 3.46
5964 7238 4.880120 CCTATCTCTTTGCATTTCTCAGCA 59.120 41.667 0.00 0.00 39.32 4.41
5965 7239 5.007528 GTCCTATCTCTTTGCATTTCTCAGC 59.992 44.000 0.00 0.00 0.00 4.26
5990 7265 2.482374 GGCACTGAATCGCTGCAC 59.518 61.111 0.00 0.00 32.20 4.57
5991 7266 2.747460 GGGCACTGAATCGCTGCA 60.747 61.111 0.00 0.00 32.20 4.41
5992 7267 2.747460 TGGGCACTGAATCGCTGC 60.747 61.111 0.00 0.00 0.00 5.25
5993 7268 2.110967 CCTGGGCACTGAATCGCTG 61.111 63.158 0.00 0.00 0.00 5.18
5994 7269 2.270205 CCTGGGCACTGAATCGCT 59.730 61.111 0.00 0.00 0.00 4.93
5995 7270 3.512516 GCCTGGGCACTGAATCGC 61.513 66.667 6.75 0.00 41.49 4.58
5996 7271 1.817099 GAGCCTGGGCACTGAATCG 60.817 63.158 14.39 0.00 44.88 3.34
5997 7272 0.106819 ATGAGCCTGGGCACTGAATC 60.107 55.000 14.39 2.15 44.88 2.52
5998 7273 0.106819 GATGAGCCTGGGCACTGAAT 60.107 55.000 14.39 0.00 44.88 2.57
5999 7274 1.203441 AGATGAGCCTGGGCACTGAA 61.203 55.000 14.39 0.00 44.88 3.02
6000 7275 1.614525 AGATGAGCCTGGGCACTGA 60.615 57.895 14.39 0.00 44.88 3.41
6001 7276 1.451567 CAGATGAGCCTGGGCACTG 60.452 63.158 14.39 12.40 44.88 3.66
6002 7277 2.996395 CAGATGAGCCTGGGCACT 59.004 61.111 14.39 4.88 44.88 4.40
6003 7278 2.827642 GCAGATGAGCCTGGGCAC 60.828 66.667 14.39 8.23 44.88 5.01


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

AutoCloner maintained by Alex Coulton.