Multiple sequence alignment - TraesCS5B01G047900

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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 TraesCS5B01G047900 chr5B 100.000 2615 0 0 1 2615 53736501 53739115 0.000000e+00 4830.0
1 TraesCS5B01G047900 chr5D 96.360 1044 26 6 1 1039 50818681 50819717 0.000000e+00 1707.0
2 TraesCS5B01G047900 chr5D 93.489 599 37 1 1042 1640 50826437 50827033 0.000000e+00 889.0
3 TraesCS5B01G047900 chr5D 91.003 289 25 1 64 351 50734032 50733744 3.160000e-104 388.0
4 TraesCS5B01G047900 chr5D 88.235 323 29 8 2056 2375 50827351 50827667 6.830000e-101 377.0
5 TraesCS5B01G047900 chr5D 82.787 244 39 3 2132 2375 382945223 382945463 5.670000e-52 215.0
6 TraesCS5B01G047900 chr5D 88.525 183 11 3 1695 1873 50827134 50827310 2.040000e-51 213.0
7 TraesCS5B01G047900 chr5D 89.855 69 7 0 1 69 50771495 50771427 3.580000e-14 89.8
8 TraesCS5B01G047900 chr5D 90.196 51 5 0 2564 2614 456624172 456624122 1.680000e-07 67.6
9 TraesCS5B01G047900 chr5D 100.000 29 0 0 763 791 50819477 50819505 1.000000e-03 54.7
10 TraesCS5B01G047900 chr5A 87.234 846 44 20 858 1683 40154771 40155572 0.000000e+00 905.0
11 TraesCS5B01G047900 chr5A 95.020 502 25 0 1 502 40153263 40153764 0.000000e+00 789.0
12 TraesCS5B01G047900 chr5A 89.071 366 40 0 1 366 40087191 40086826 3.070000e-124 455.0
13 TraesCS5B01G047900 chr5A 89.928 278 19 5 2048 2322 40158163 40158434 1.490000e-92 350.0
14 TraesCS5B01G047900 chr5A 86.726 226 19 7 491 712 40154476 40154694 9.350000e-60 241.0
15 TraesCS5B01G047900 chr5A 83.846 260 33 6 2117 2370 623219622 623219878 3.360000e-59 239.0
16 TraesCS5B01G047900 chr5A 88.199 161 7 4 1761 1921 40159093 40159241 5.750000e-42 182.0
17 TraesCS5B01G047900 chr5A 85.714 175 10 9 1751 1921 40157988 40158151 1.240000e-38 171.0
18 TraesCS5B01G047900 chr5A 91.892 111 7 1 1751 1861 40157760 40157868 1.250000e-33 154.0
19 TraesCS5B01G047900 chr5A 94.681 94 4 1 712 804 40154729 40154822 7.540000e-31 145.0
20 TraesCS5B01G047900 chr5A 92.208 77 6 0 1787 1863 40156097 40156173 2.750000e-20 110.0
21 TraesCS5B01G047900 chr5A 90.000 50 2 1 1647 1696 40157681 40157727 7.810000e-06 62.1
22 TraesCS5B01G047900 chr6A 86.260 262 34 2 2115 2375 27087178 27086918 1.530000e-72 283.0
23 TraesCS5B01G047900 chr6B 86.975 238 26 5 2141 2375 57702062 57701827 2.000000e-66 263.0
24 TraesCS5B01G047900 chr6B 93.878 98 6 0 1919 2016 610814549 610814646 5.830000e-32 148.0
25 TraesCS5B01G047900 chr3B 84.151 265 38 4 2116 2379 204395642 204395903 1.200000e-63 254.0
26 TraesCS5B01G047900 chr1D 84.553 246 38 0 2130 2375 58580584 58580829 7.230000e-61 244.0
27 TraesCS5B01G047900 chr1D 84.112 107 15 1 1919 2025 486144624 486144728 4.600000e-18 102.0
28 TraesCS5B01G047900 chr3D 84.255 235 36 1 2131 2365 570507313 570507546 7.280000e-56 228.0
29 TraesCS5B01G047900 chr7D 82.591 247 32 9 2376 2614 388995788 388995545 9.490000e-50 207.0
30 TraesCS5B01G047900 chr7D 89.565 115 12 0 1913 2027 175648242 175648356 2.100000e-31 147.0
31 TraesCS5B01G047900 chr7B 88.696 115 13 0 1913 2027 140933783 140933897 9.760000e-30 141.0
32 TraesCS5B01G047900 chr4D 78.505 214 36 9 2400 2609 1144975 1145182 5.870000e-27 132.0
33 TraesCS5B01G047900 chr2D 78.325 203 27 11 2415 2615 476338083 476337896 5.910000e-22 115.0
34 TraesCS5B01G047900 chr2D 80.172 116 23 0 1910 2025 101379221 101379336 1.290000e-13 87.9
35 TraesCS5B01G047900 chr4B 86.735 98 13 0 1919 2016 644877603 644877506 2.750000e-20 110.0
36 TraesCS5B01G047900 chr4B 89.706 68 7 0 1920 1987 17045219 17045286 1.290000e-13 87.9
37 TraesCS5B01G047900 chr3A 78.916 166 32 3 2446 2609 545359808 545359644 2.750000e-20 110.0
38 TraesCS5B01G047900 chr7A 86.458 96 9 4 2522 2614 439631543 439631449 4.600000e-18 102.0
39 TraesCS5B01G047900 chr7A 81.481 108 15 5 1912 2016 94458218 94458323 1.670000e-12 84.2
40 TraesCS5B01G047900 chr1B 85.000 100 12 2 1916 2013 141770919 141771017 5.960000e-17 99.0
41 TraesCS5B01G047900 chr2B 92.157 51 4 0 1977 2027 426479214 426479264 3.610000e-09 73.1


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 TraesCS5B01G047900 chr5B 53736501 53739115 2614 False 4830.00 4830 100.0000 1 2615 1 chr5B.!!$F1 2614
1 TraesCS5B01G047900 chr5D 50818681 50819717 1036 False 880.85 1707 98.1800 1 1039 2 chr5D.!!$F2 1038
2 TraesCS5B01G047900 chr5D 50826437 50827667 1230 False 493.00 889 90.0830 1042 2375 3 chr5D.!!$F3 1333
3 TraesCS5B01G047900 chr5A 40153263 40159241 5978 False 310.91 905 90.1602 1 2322 10 chr5A.!!$F2 2321

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
969 1737 0.320374 TTAGTCCAACCGTCTGCCTG 59.68 55.0 0.0 0.0 0.0 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1945 5104 0.098728 AATCTCGAAAAATGCGGGCG 59.901 50.0 0.0 0.0 0.0 6.13 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 1.134367 TCTTCGCGTTGGGAGTAGATG 59.866 52.381 5.77 0.00 0.00 2.90
56 57 4.577677 TGGCCAGGCTTTGCACGA 62.578 61.111 12.43 0.00 0.00 4.35
155 156 0.679505 TCTCCACCACGAACTCCAAG 59.320 55.000 0.00 0.00 0.00 3.61
170 171 2.683933 AAGTCCCCCGATCGCAGT 60.684 61.111 10.32 0.00 0.00 4.40
502 503 6.825721 CACTTTTGAAGCCCTAGTATCAGAAT 59.174 38.462 0.00 0.00 0.00 2.40
520 1244 1.515487 TGCCGACGCATAGTGTGAT 59.485 52.632 0.00 0.00 41.12 3.06
527 1251 3.363128 CGACGCATAGTGTGATGATGATC 59.637 47.826 0.00 0.00 0.00 2.92
546 1270 1.226974 GCAAGGATCGCAGCTCGTA 60.227 57.895 5.66 0.00 39.67 3.43
547 1271 1.211818 GCAAGGATCGCAGCTCGTAG 61.212 60.000 5.66 0.00 39.67 3.51
548 1272 1.066587 AAGGATCGCAGCTCGTAGC 59.933 57.895 5.66 0.00 42.84 3.58
816 1580 4.038763 ACACGTTACATGGAGTTTGAGAGA 59.961 41.667 0.00 0.00 0.00 3.10
842 1606 3.790212 GGTTCAGCTCAGAAACGTAAC 57.210 47.619 0.00 0.00 0.00 2.50
844 1608 3.059800 GGTTCAGCTCAGAAACGTAACAC 60.060 47.826 0.00 0.00 0.00 3.32
879 1643 3.671716 AGTCGGTTTTTACATGGAGTCC 58.328 45.455 0.73 0.73 0.00 3.85
941 1709 9.358406 TCTCGTGAGGTCCTACAAATAAATATA 57.642 33.333 0.00 0.00 0.00 0.86
942 1710 9.408069 CTCGTGAGGTCCTACAAATAAATATAC 57.592 37.037 0.00 0.00 0.00 1.47
969 1737 0.320374 TTAGTCCAACCGTCTGCCTG 59.680 55.000 0.00 0.00 0.00 4.85
1039 1811 0.883814 CATGGATCCCGAAGCTGCTC 60.884 60.000 9.90 0.00 0.00 4.26
1040 1812 2.049627 ATGGATCCCGAAGCTGCTCC 62.050 60.000 9.90 0.00 0.00 4.70
1043 1815 0.531753 GATCCCGAAGCTGCTCCTTC 60.532 60.000 1.00 0.00 38.24 3.46
1075 1847 1.013005 CAAGCACAGAGACAGAGGCG 61.013 60.000 0.00 0.00 0.00 5.52
1110 1882 6.976636 TGTGTCATTCTAATAATTGTCGCA 57.023 33.333 0.00 0.00 0.00 5.10
1113 1885 7.065683 TGTGTCATTCTAATAATTGTCGCATGT 59.934 33.333 0.00 0.00 0.00 3.21
1124 1896 1.375908 TCGCATGTCTGACCTTGGC 60.376 57.895 5.17 3.02 0.00 4.52
1132 1904 1.000938 GTCTGACCTTGGCAGCTTTTG 60.001 52.381 0.00 0.00 38.81 2.44
1134 1906 1.000938 CTGACCTTGGCAGCTTTTGTC 60.001 52.381 0.00 0.00 29.34 3.18
1136 1908 2.158682 TGACCTTGGCAGCTTTTGTCTA 60.159 45.455 0.00 0.00 30.85 2.59
1239 2011 2.516923 GGGATATATCGCAACGACTCG 58.483 52.381 21.44 0.00 39.18 4.18
1404 2176 0.806102 AAGGTTCGATCGCCATGACG 60.806 55.000 11.09 0.00 0.00 4.35
1568 2340 1.875963 CCAAGTTGGATGCCACGAC 59.124 57.895 17.60 0.00 40.96 4.34
1590 2362 4.040706 ACCACATCACCATGCAAATCTTTT 59.959 37.500 0.00 0.00 32.57 2.27
1609 2383 6.074648 TCTTTTGGTCTGGGATACATTTGTT 58.925 36.000 0.00 0.00 39.74 2.83
1610 2384 6.553100 TCTTTTGGTCTGGGATACATTTGTTT 59.447 34.615 0.00 0.00 39.74 2.83
1611 2385 5.720371 TTGGTCTGGGATACATTTGTTTG 57.280 39.130 0.00 0.00 39.74 2.93
1612 2386 4.735369 TGGTCTGGGATACATTTGTTTGT 58.265 39.130 0.00 0.00 39.74 2.83
1635 2409 5.565259 GTGAAACATGATGAAACGCAACTAG 59.435 40.000 0.00 0.00 36.32 2.57
1640 2414 3.599343 TGATGAAACGCAACTAGCAGAT 58.401 40.909 0.00 0.00 46.13 2.90
1641 2415 4.002982 TGATGAAACGCAACTAGCAGATT 58.997 39.130 0.00 0.00 46.13 2.40
1644 2418 3.186409 TGAAACGCAACTAGCAGATTGAC 59.814 43.478 0.00 0.00 46.13 3.18
1645 2419 1.350193 ACGCAACTAGCAGATTGACG 58.650 50.000 0.00 0.00 46.13 4.35
1653 4585 1.219124 GCAGATTGACGCTCCTCCA 59.781 57.895 0.00 0.00 0.00 3.86
1654 4586 0.391661 GCAGATTGACGCTCCTCCAA 60.392 55.000 0.00 0.00 0.00 3.53
1686 4618 7.420002 TCTGTCGTACGTATTGCTGTAATAAT 58.580 34.615 16.05 0.00 33.22 1.28
1688 4620 9.172820 CTGTCGTACGTATTGCTGTAATAATAA 57.827 33.333 16.05 0.00 33.22 1.40
1689 4621 8.957028 TGTCGTACGTATTGCTGTAATAATAAC 58.043 33.333 16.05 0.00 33.22 1.89
1690 4622 8.957028 GTCGTACGTATTGCTGTAATAATAACA 58.043 33.333 16.05 0.00 33.22 2.41
1691 4623 9.172820 TCGTACGTATTGCTGTAATAATAACAG 57.827 33.333 16.05 0.00 45.80 3.16
1692 4624 8.961092 CGTACGTATTGCTGTAATAATAACAGT 58.039 33.333 7.22 0.00 45.01 3.55
1711 4643 7.801716 AACAGTTTATGCTACTTTTCTCACA 57.198 32.000 0.00 0.00 0.00 3.58
1712 4644 7.986085 ACAGTTTATGCTACTTTTCTCACAT 57.014 32.000 0.00 0.00 0.00 3.21
1713 4645 8.034058 ACAGTTTATGCTACTTTTCTCACATC 57.966 34.615 0.00 0.00 0.00 3.06
1714 4646 7.880195 ACAGTTTATGCTACTTTTCTCACATCT 59.120 33.333 0.00 0.00 0.00 2.90
1735 4667 9.935682 ACATCTCGCATGTAAAAGTATATTTTG 57.064 29.630 0.00 0.00 0.00 2.44
1776 4710 2.811431 TGGTTACAGATTGCGGTGAAAG 59.189 45.455 0.00 0.00 0.00 2.62
1788 4722 1.822990 CGGTGAAAGTAGGCTCTGGTA 59.177 52.381 0.00 0.00 0.00 3.25
1865 5024 9.103861 GAATTTGGGTTTATTTTCTGTGTTGAA 57.896 29.630 0.00 0.00 0.00 2.69
1881 5040 9.208022 TCTGTGTTGAATTGTCTATAAAGTCTG 57.792 33.333 0.00 0.00 0.00 3.51
1882 5041 8.902540 TGTGTTGAATTGTCTATAAAGTCTGT 57.097 30.769 0.00 0.00 0.00 3.41
1921 5080 9.127277 TCTAATTTTGCCCTGGTTAATACATAC 57.873 33.333 0.00 0.00 0.00 2.39
1922 5081 7.971368 AATTTTGCCCTGGTTAATACATACT 57.029 32.000 0.00 0.00 0.00 2.12
1923 5082 7.582667 ATTTTGCCCTGGTTAATACATACTC 57.417 36.000 0.00 0.00 0.00 2.59
1924 5083 4.699925 TGCCCTGGTTAATACATACTCC 57.300 45.455 0.00 0.00 0.00 3.85
1925 5084 3.393278 TGCCCTGGTTAATACATACTCCC 59.607 47.826 0.00 0.00 0.00 4.30
1927 5086 4.262938 GCCCTGGTTAATACATACTCCCTC 60.263 50.000 0.00 0.00 0.00 4.30
1928 5087 4.286291 CCCTGGTTAATACATACTCCCTCC 59.714 50.000 0.00 0.00 0.00 4.30
1929 5088 4.021368 CCTGGTTAATACATACTCCCTCCG 60.021 50.000 0.00 0.00 0.00 4.63
1930 5089 4.549668 TGGTTAATACATACTCCCTCCGT 58.450 43.478 0.00 0.00 0.00 4.69
1933 5092 5.987953 GGTTAATACATACTCCCTCCGTTTC 59.012 44.000 0.00 0.00 0.00 2.78
1934 5093 6.407299 GGTTAATACATACTCCCTCCGTTTCA 60.407 42.308 0.00 0.00 0.00 2.69
1935 5094 5.888982 AATACATACTCCCTCCGTTTCAT 57.111 39.130 0.00 0.00 0.00 2.57
1936 5095 6.989155 AATACATACTCCCTCCGTTTCATA 57.011 37.500 0.00 0.00 0.00 2.15
1937 5096 6.989155 ATACATACTCCCTCCGTTTCATAA 57.011 37.500 0.00 0.00 0.00 1.90
1938 5097 5.888982 ACATACTCCCTCCGTTTCATAAT 57.111 39.130 0.00 0.00 0.00 1.28
1939 5098 5.611374 ACATACTCCCTCCGTTTCATAATG 58.389 41.667 0.00 0.00 0.00 1.90
1940 5099 5.130477 ACATACTCCCTCCGTTTCATAATGT 59.870 40.000 0.00 0.00 0.00 2.71
1941 5100 6.325545 ACATACTCCCTCCGTTTCATAATGTA 59.674 38.462 0.00 0.00 0.00 2.29
1942 5101 5.277857 ACTCCCTCCGTTTCATAATGTAG 57.722 43.478 0.00 0.00 0.00 2.74
1943 5102 4.715297 ACTCCCTCCGTTTCATAATGTAGT 59.285 41.667 0.00 0.00 0.00 2.73
1944 5103 5.018539 TCCCTCCGTTTCATAATGTAGTG 57.981 43.478 0.00 0.00 0.00 2.74
1945 5104 3.560068 CCCTCCGTTTCATAATGTAGTGC 59.440 47.826 0.00 0.00 0.00 4.40
1946 5105 3.245284 CCTCCGTTTCATAATGTAGTGCG 59.755 47.826 0.00 0.00 0.00 5.34
1947 5106 2.605818 TCCGTTTCATAATGTAGTGCGC 59.394 45.455 0.00 0.00 0.00 6.09
1948 5107 2.286184 CCGTTTCATAATGTAGTGCGCC 60.286 50.000 4.18 0.00 0.00 6.53
1949 5108 2.286184 CGTTTCATAATGTAGTGCGCCC 60.286 50.000 4.18 0.00 0.00 6.13
1950 5109 1.577468 TTCATAATGTAGTGCGCCCG 58.423 50.000 4.18 0.00 0.00 6.13
1951 5110 0.878523 TCATAATGTAGTGCGCCCGC 60.879 55.000 4.18 5.60 42.35 6.13
1961 5120 2.576847 GCGCCCGCATTTTTCGAG 60.577 61.111 7.91 0.00 41.49 4.04
1962 5121 3.034370 GCGCCCGCATTTTTCGAGA 62.034 57.895 7.91 0.00 41.49 4.04
1963 5122 1.721487 CGCCCGCATTTTTCGAGAT 59.279 52.632 0.00 0.00 0.00 2.75
1964 5123 0.098728 CGCCCGCATTTTTCGAGATT 59.901 50.000 0.00 0.00 0.00 2.40
1965 5124 1.467374 CGCCCGCATTTTTCGAGATTT 60.467 47.619 0.00 0.00 0.00 2.17
1966 5125 2.223157 CGCCCGCATTTTTCGAGATTTA 60.223 45.455 0.00 0.00 0.00 1.40
1967 5126 3.729462 CGCCCGCATTTTTCGAGATTTAA 60.729 43.478 0.00 0.00 0.00 1.52
1968 5127 4.170256 GCCCGCATTTTTCGAGATTTAAA 58.830 39.130 0.00 0.00 0.00 1.52
1969 5128 4.803613 GCCCGCATTTTTCGAGATTTAAAT 59.196 37.500 0.00 0.00 0.00 1.40
1970 5129 5.290885 GCCCGCATTTTTCGAGATTTAAATT 59.709 36.000 1.43 0.00 0.00 1.82
1971 5130 6.183360 GCCCGCATTTTTCGAGATTTAAATTT 60.183 34.615 1.43 0.00 0.00 1.82
1972 5131 7.172757 CCCGCATTTTTCGAGATTTAAATTTG 58.827 34.615 1.43 0.00 0.00 2.32
1973 5132 7.062839 CCCGCATTTTTCGAGATTTAAATTTGA 59.937 33.333 1.43 0.00 0.00 2.69
1974 5133 8.594687 CCGCATTTTTCGAGATTTAAATTTGAT 58.405 29.630 1.43 0.00 0.00 2.57
1975 5134 9.610532 CGCATTTTTCGAGATTTAAATTTGATC 57.389 29.630 1.43 4.77 0.00 2.92
1996 5155 7.699566 TGATCATAAATTTAACTAACGTGGGC 58.300 34.615 1.21 0.00 0.00 5.36
1997 5156 6.109320 TCATAAATTTAACTAACGTGGGCG 57.891 37.500 1.21 0.00 44.93 6.13
1998 5157 5.873712 TCATAAATTTAACTAACGTGGGCGA 59.126 36.000 1.21 0.00 42.00 5.54
1999 5158 4.408993 AAATTTAACTAACGTGGGCGAC 57.591 40.909 0.00 0.00 42.00 5.19
2000 5159 2.818130 TTTAACTAACGTGGGCGACT 57.182 45.000 0.00 0.00 42.00 4.18
2001 5160 2.068837 TTAACTAACGTGGGCGACTG 57.931 50.000 0.00 0.00 42.00 3.51
2002 5161 0.388907 TAACTAACGTGGGCGACTGC 60.389 55.000 0.00 0.00 42.00 4.40
2003 5162 3.179265 CTAACGTGGGCGACTGCG 61.179 66.667 3.65 3.65 44.10 5.18
2004 5163 4.728102 TAACGTGGGCGACTGCGG 62.728 66.667 9.51 0.00 44.10 5.69
2027 5186 5.695851 CGGGAGCAAAAGCTATATCATTT 57.304 39.130 0.00 0.00 0.00 2.32
2028 5187 6.076981 CGGGAGCAAAAGCTATATCATTTT 57.923 37.500 0.00 0.00 0.00 1.82
2029 5188 6.507023 CGGGAGCAAAAGCTATATCATTTTT 58.493 36.000 0.00 0.00 0.00 1.94
2106 5265 0.609131 CCTTTGTTGGCCGACCTCAT 60.609 55.000 20.91 0.00 36.63 2.90
2112 5271 0.911769 TTGGCCGACCTCATCTTCAT 59.088 50.000 0.00 0.00 36.63 2.57
2115 5274 1.293924 GCCGACCTCATCTTCATGTG 58.706 55.000 0.00 0.00 0.00 3.21
2122 5281 3.131223 ACCTCATCTTCATGTGTACTCCG 59.869 47.826 0.00 0.00 0.00 4.63
2127 5286 0.528924 TTCATGTGTACTCCGTCCGG 59.471 55.000 0.00 0.00 0.00 5.14
2128 5287 1.141019 CATGTGTACTCCGTCCGGG 59.859 63.158 0.00 0.00 35.59 5.73
2323 5485 9.877178 CCTGTAATCTTAGTCAAACTCTACAAT 57.123 33.333 0.00 0.00 0.00 2.71
2354 5516 9.124807 GGCTTAATACAAATTTTATATGCGGAC 57.875 33.333 0.00 0.00 0.00 4.79
2369 5531 5.975693 ATGCGGACTAAAAAGAAATGGAA 57.024 34.783 0.00 0.00 0.00 3.53
2388 5550 4.683432 GAGTCACCTGTGTGCTCC 57.317 61.111 10.97 0.00 42.46 4.70
2401 5563 1.079197 TGCTCCACACCGCTACATG 60.079 57.895 0.00 0.00 0.00 3.21
2402 5564 1.079127 GCTCCACACCGCTACATGT 60.079 57.895 2.69 2.69 0.00 3.21
2403 5565 0.673644 GCTCCACACCGCTACATGTT 60.674 55.000 2.30 0.00 0.00 2.71
2404 5566 1.808411 CTCCACACCGCTACATGTTT 58.192 50.000 2.30 0.00 0.00 2.83
2405 5567 2.933492 GCTCCACACCGCTACATGTTTA 60.933 50.000 2.30 0.00 0.00 2.01
2406 5568 3.331150 CTCCACACCGCTACATGTTTAA 58.669 45.455 2.30 0.00 0.00 1.52
2407 5569 3.331150 TCCACACCGCTACATGTTTAAG 58.669 45.455 2.30 0.00 0.00 1.85
2409 5571 3.938963 CCACACCGCTACATGTTTAAGAT 59.061 43.478 2.30 0.00 0.00 2.40
2410 5572 4.034048 CCACACCGCTACATGTTTAAGATC 59.966 45.833 2.30 0.00 0.00 2.75
2411 5573 4.629634 CACACCGCTACATGTTTAAGATCA 59.370 41.667 2.30 0.00 0.00 2.92
2412 5574 4.870426 ACACCGCTACATGTTTAAGATCAG 59.130 41.667 2.30 0.00 0.00 2.90
2423 5587 8.458843 ACATGTTTAAGATCAGAAAAATACCGG 58.541 33.333 0.00 0.00 0.00 5.28
2428 5592 8.817092 TTAAGATCAGAAAAATACCGGGAAAT 57.183 30.769 6.32 0.00 0.00 2.17
2430 5594 7.718334 AGATCAGAAAAATACCGGGAAATTT 57.282 32.000 6.32 2.53 0.00 1.82
2431 5595 7.772166 AGATCAGAAAAATACCGGGAAATTTC 58.228 34.615 16.15 16.15 0.00 2.17
2433 5597 6.919721 TCAGAAAAATACCGGGAAATTTCAG 58.080 36.000 22.58 17.15 31.06 3.02
2467 5631 4.412060 TTTGGGGATATGAAACTTGGGT 57.588 40.909 0.00 0.00 0.00 4.51
2483 5647 3.760580 TGGGTGCCCAATTTACTTTTG 57.239 42.857 7.63 0.00 44.12 2.44
2490 5654 5.582665 GTGCCCAATTTACTTTTGTGTGAAA 59.417 36.000 0.00 0.00 0.00 2.69
2496 5660 8.061268 CCAATTTACTTTTGTGTGAAATTTCGG 58.939 33.333 13.34 0.00 29.51 4.30
2503 5667 5.462034 TTGTGTGAAATTTCGGCAAAAAG 57.538 34.783 13.34 0.00 0.00 2.27
2507 5671 6.419413 TGTGTGAAATTTCGGCAAAAAGATAC 59.581 34.615 13.34 2.41 0.00 2.24
2518 5682 4.456566 GGCAAAAAGATACCAGGAAACGTA 59.543 41.667 0.00 0.00 0.00 3.57
2519 5683 5.388111 GCAAAAAGATACCAGGAAACGTAC 58.612 41.667 0.00 0.00 0.00 3.67
2520 5684 5.618418 GCAAAAAGATACCAGGAAACGTACC 60.618 44.000 0.00 3.86 0.00 3.34
2521 5685 3.515330 AAGATACCAGGAAACGTACCG 57.485 47.619 0.00 0.00 0.00 4.02
2522 5686 2.450476 AGATACCAGGAAACGTACCGT 58.550 47.619 0.00 0.00 43.97 4.83
2523 5687 2.165030 AGATACCAGGAAACGTACCGTG 59.835 50.000 0.00 0.00 39.99 4.94
2525 5689 2.030958 CCAGGAAACGTACCGTGGC 61.031 63.158 13.47 0.00 39.99 5.01
2526 5690 1.005394 CAGGAAACGTACCGTGGCT 60.005 57.895 0.00 0.00 39.99 4.75
2573 5740 5.885449 AGAACAAAAATGGTTTGGATGGA 57.115 34.783 4.04 0.00 33.92 3.41
2577 5744 7.779326 AGAACAAAAATGGTTTGGATGGATTTT 59.221 29.630 4.04 0.00 33.92 1.82
2583 5750 5.637006 TGGTTTGGATGGATTTTAGTTCG 57.363 39.130 0.00 0.00 0.00 3.95
2589 5756 4.019681 TGGATGGATTTTAGTTCGGACTGT 60.020 41.667 6.62 0.00 36.60 3.55
2603 5770 2.936498 CGGACTGTATTTTCTTCGCCAT 59.064 45.455 0.00 0.00 0.00 4.40
2609 5776 6.299141 ACTGTATTTTCTTCGCCATGGATAT 58.701 36.000 18.40 0.00 0.00 1.63
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 2.537401 GCCAAGACTATGTACACCGTC 58.463 52.381 15.15 15.15 0.00 4.79
56 57 2.829120 GAGGCAGTCTTTCCTACTCTGT 59.171 50.000 0.00 0.00 31.71 3.41
155 156 2.202892 GAACTGCGATCGGGGGAC 60.203 66.667 18.30 0.00 0.00 4.46
446 447 3.378427 GCATTCACCTTGATCCCAGTTAC 59.622 47.826 0.00 0.00 0.00 2.50
520 1244 0.104671 TGCGATCCTTGCGATCATCA 59.895 50.000 0.00 0.00 46.85 3.07
527 1251 2.936829 TACGAGCTGCGATCCTTGCG 62.937 60.000 11.64 0.00 44.57 4.85
552 1276 1.612442 AGCCGGAGTCCAAGCCTAA 60.612 57.895 5.05 0.00 0.00 2.69
615 1339 1.535462 ACGGCACATCTTGTAAGTTGC 59.465 47.619 3.29 5.31 30.64 4.17
700 1427 7.463961 AGTCTAACTCAAAGGATTCTTACGA 57.536 36.000 0.00 0.00 32.01 3.43
724 1487 4.397103 TCTTACGTTCTGAGCCGAATTCTA 59.603 41.667 3.52 0.00 0.00 2.10
816 1580 2.872858 GTTTCTGAGCTGAACCGACTTT 59.127 45.455 0.00 0.00 0.00 2.66
842 1606 6.598753 AACCGACTTATATTTGGATTCGTG 57.401 37.500 0.00 0.00 0.00 4.35
844 1608 9.429600 GTAAAAACCGACTTATATTTGGATTCG 57.570 33.333 0.00 0.00 0.00 3.34
879 1643 0.596577 TGTGAACCGACTTCCTCTCG 59.403 55.000 0.00 0.00 0.00 4.04
941 1709 2.924101 TTGGACTAACGGCGGGGT 60.924 61.111 13.24 6.61 0.00 4.95
942 1710 2.435410 GTTGGACTAACGGCGGGG 60.435 66.667 13.24 2.91 0.00 5.73
969 1737 5.053811 CCCTGGTTTGTTTTGTGGTTTATC 58.946 41.667 0.00 0.00 0.00 1.75
1039 1811 4.468689 GGACGGGGGCTTCGAAGG 62.469 72.222 25.77 11.59 0.00 3.46
1040 1812 3.248446 TTGGACGGGGGCTTCGAAG 62.248 63.158 21.02 21.02 0.00 3.79
1085 1857 7.984391 TGCGACAATTATTAGAATGACACATT 58.016 30.769 0.00 0.00 0.00 2.71
1110 1882 0.403271 AAGCTGCCAAGGTCAGACAT 59.597 50.000 2.17 0.00 33.54 3.06
1113 1885 1.321474 CAAAAGCTGCCAAGGTCAGA 58.679 50.000 12.62 0.00 33.54 3.27
1124 1896 1.061131 CGGCGACATAGACAAAAGCTG 59.939 52.381 0.00 0.00 0.00 4.24
1132 1904 3.296584 GCGAACGGCGACATAGAC 58.703 61.111 16.62 0.00 44.57 2.59
1239 2011 3.291167 GACGTTGAAAGCCGGCGAC 62.291 63.158 23.20 16.70 0.00 5.19
1303 2075 4.742201 CACGTCCCCGCCTCTGTG 62.742 72.222 0.00 0.00 37.70 3.66
1568 2340 3.880047 AAGATTTGCATGGTGATGTGG 57.120 42.857 0.00 0.00 31.50 4.17
1590 2362 4.522405 CACAAACAAATGTATCCCAGACCA 59.478 41.667 0.00 0.00 30.84 4.02
1609 2383 4.298744 TGCGTTTCATCATGTTTCACAA 57.701 36.364 0.00 0.00 0.00 3.33
1610 2384 3.978718 TGCGTTTCATCATGTTTCACA 57.021 38.095 0.00 0.00 0.00 3.58
1611 2385 4.290155 AGTTGCGTTTCATCATGTTTCAC 58.710 39.130 0.00 0.00 0.00 3.18
1612 2386 4.566545 AGTTGCGTTTCATCATGTTTCA 57.433 36.364 0.00 0.00 0.00 2.69
1635 2409 0.391661 TTGGAGGAGCGTCAATCTGC 60.392 55.000 0.00 0.00 0.00 4.26
1640 2414 1.000955 GAAGAGTTGGAGGAGCGTCAA 59.999 52.381 0.00 0.00 0.00 3.18
1641 2415 0.603569 GAAGAGTTGGAGGAGCGTCA 59.396 55.000 0.00 0.00 0.00 4.35
1644 2418 1.135141 CAGAGAAGAGTTGGAGGAGCG 60.135 57.143 0.00 0.00 0.00 5.03
1645 2419 1.899142 ACAGAGAAGAGTTGGAGGAGC 59.101 52.381 0.00 0.00 0.00 4.70
1653 4585 5.629097 CAATACGTACGACAGAGAAGAGTT 58.371 41.667 24.41 0.00 0.00 3.01
1654 4586 4.437121 GCAATACGTACGACAGAGAAGAGT 60.437 45.833 24.41 0.00 0.00 3.24
1686 4618 8.896320 TGTGAGAAAAGTAGCATAAACTGTTA 57.104 30.769 0.00 0.00 0.00 2.41
1688 4620 7.880195 AGATGTGAGAAAAGTAGCATAAACTGT 59.120 33.333 0.00 0.00 0.00 3.55
1689 4621 8.261492 AGATGTGAGAAAAGTAGCATAAACTG 57.739 34.615 0.00 0.00 0.00 3.16
1690 4622 7.276658 CGAGATGTGAGAAAAGTAGCATAAACT 59.723 37.037 0.00 0.00 0.00 2.66
1691 4623 7.394872 CGAGATGTGAGAAAAGTAGCATAAAC 58.605 38.462 0.00 0.00 0.00 2.01
1692 4624 6.036083 GCGAGATGTGAGAAAAGTAGCATAAA 59.964 38.462 0.00 0.00 0.00 1.40
1693 4625 5.520288 GCGAGATGTGAGAAAAGTAGCATAA 59.480 40.000 0.00 0.00 0.00 1.90
1694 4626 5.043903 GCGAGATGTGAGAAAAGTAGCATA 58.956 41.667 0.00 0.00 0.00 3.14
1697 4629 3.254060 TGCGAGATGTGAGAAAAGTAGC 58.746 45.455 0.00 0.00 0.00 3.58
1698 4630 4.867047 ACATGCGAGATGTGAGAAAAGTAG 59.133 41.667 0.00 0.00 0.00 2.57
1699 4631 4.820897 ACATGCGAGATGTGAGAAAAGTA 58.179 39.130 0.00 0.00 0.00 2.24
1700 4632 3.668447 ACATGCGAGATGTGAGAAAAGT 58.332 40.909 0.00 0.00 0.00 2.66
1701 4633 5.784750 TTACATGCGAGATGTGAGAAAAG 57.215 39.130 9.99 0.00 33.76 2.27
1702 4634 6.204688 ACTTTTACATGCGAGATGTGAGAAAA 59.795 34.615 9.99 8.16 33.76 2.29
1703 4635 5.700832 ACTTTTACATGCGAGATGTGAGAAA 59.299 36.000 9.99 7.72 33.76 2.52
1705 4637 4.820897 ACTTTTACATGCGAGATGTGAGA 58.179 39.130 9.99 0.00 33.76 3.27
1709 4641 9.935682 CAAAATATACTTTTACATGCGAGATGT 57.064 29.630 5.88 5.88 36.13 3.06
1710 4642 9.935682 ACAAAATATACTTTTACATGCGAGATG 57.064 29.630 0.00 0.00 0.00 2.90
1714 4646 9.562583 GGAAACAAAATATACTTTTACATGCGA 57.437 29.630 0.00 0.00 0.00 5.10
1735 4667 7.563888 AACCAGTTTAGTTTACAGAGGAAAC 57.436 36.000 0.00 0.00 37.11 2.78
1743 4675 7.307514 CGCAATCTGTAACCAGTTTAGTTTACA 60.308 37.037 0.00 0.00 39.82 2.41
1751 4683 2.552315 CACCGCAATCTGTAACCAGTTT 59.448 45.455 0.00 0.00 39.82 2.66
1752 4684 2.151202 CACCGCAATCTGTAACCAGTT 58.849 47.619 0.00 0.00 39.82 3.16
1753 4685 1.346395 TCACCGCAATCTGTAACCAGT 59.654 47.619 0.00 0.00 39.82 4.00
1754 4686 2.093306 TCACCGCAATCTGTAACCAG 57.907 50.000 0.00 0.00 40.25 4.00
1755 4687 2.552599 TTCACCGCAATCTGTAACCA 57.447 45.000 0.00 0.00 0.00 3.67
1767 4699 0.741221 CCAGAGCCTACTTTCACCGC 60.741 60.000 0.00 0.00 0.00 5.68
1768 4700 0.608640 ACCAGAGCCTACTTTCACCG 59.391 55.000 0.00 0.00 0.00 4.94
1776 4710 2.468915 ACTTCCCTTACCAGAGCCTAC 58.531 52.381 0.00 0.00 0.00 3.18
1788 4722 7.014326 GGAAAACAGTTTCTCATAACTTCCCTT 59.986 37.037 0.00 0.00 42.45 3.95
1892 5051 6.775594 ATTAACCAGGGCAAAATTAGAGTC 57.224 37.500 0.00 0.00 0.00 3.36
1897 5056 9.127277 GAGTATGTATTAACCAGGGCAAAATTA 57.873 33.333 0.00 0.00 0.00 1.40
1921 5080 5.050490 CACTACATTATGAAACGGAGGGAG 58.950 45.833 0.00 0.00 0.00 4.30
1922 5081 4.682320 GCACTACATTATGAAACGGAGGGA 60.682 45.833 0.00 0.00 0.00 4.20
1923 5082 3.560068 GCACTACATTATGAAACGGAGGG 59.440 47.826 0.00 0.00 0.00 4.30
1924 5083 3.245284 CGCACTACATTATGAAACGGAGG 59.755 47.826 0.00 0.00 0.00 4.30
1925 5084 3.302480 GCGCACTACATTATGAAACGGAG 60.302 47.826 0.30 0.00 0.00 4.63
1927 5086 2.286184 GGCGCACTACATTATGAAACGG 60.286 50.000 10.83 0.00 0.00 4.44
1928 5087 2.286184 GGGCGCACTACATTATGAAACG 60.286 50.000 10.83 0.00 0.00 3.60
1929 5088 2.286184 CGGGCGCACTACATTATGAAAC 60.286 50.000 8.62 0.00 0.00 2.78
1930 5089 1.937223 CGGGCGCACTACATTATGAAA 59.063 47.619 8.62 0.00 0.00 2.69
1933 5092 1.569493 GCGGGCGCACTACATTATG 59.431 57.895 8.62 0.00 41.49 1.90
1934 5093 4.043168 GCGGGCGCACTACATTAT 57.957 55.556 8.62 0.00 41.49 1.28
1944 5103 2.322999 ATCTCGAAAAATGCGGGCGC 62.323 55.000 0.00 0.00 42.35 6.53
1945 5104 0.098728 AATCTCGAAAAATGCGGGCG 59.901 50.000 0.00 0.00 0.00 6.13
1946 5105 2.278026 AAATCTCGAAAAATGCGGGC 57.722 45.000 0.00 0.00 0.00 6.13
1947 5106 6.885735 AATTTAAATCTCGAAAAATGCGGG 57.114 33.333 0.10 0.00 0.00 6.13
1948 5107 7.948137 TCAAATTTAAATCTCGAAAAATGCGG 58.052 30.769 0.10 0.00 0.00 5.69
1949 5108 9.610532 GATCAAATTTAAATCTCGAAAAATGCG 57.389 29.630 0.10 0.00 0.00 4.73
1970 5129 8.185505 GCCCACGTTAGTTAAATTTATGATCAA 58.814 33.333 0.00 0.00 0.00 2.57
1971 5130 7.466185 CGCCCACGTTAGTTAAATTTATGATCA 60.466 37.037 0.00 0.00 33.53 2.92
1972 5131 6.849305 CGCCCACGTTAGTTAAATTTATGATC 59.151 38.462 0.00 0.00 33.53 2.92
1973 5132 6.539464 TCGCCCACGTTAGTTAAATTTATGAT 59.461 34.615 0.00 0.00 41.18 2.45
1974 5133 5.873712 TCGCCCACGTTAGTTAAATTTATGA 59.126 36.000 0.00 0.00 41.18 2.15
1975 5134 5.961263 GTCGCCCACGTTAGTTAAATTTATG 59.039 40.000 0.00 0.00 41.18 1.90
1976 5135 5.876460 AGTCGCCCACGTTAGTTAAATTTAT 59.124 36.000 0.00 0.00 41.18 1.40
1977 5136 5.120519 CAGTCGCCCACGTTAGTTAAATTTA 59.879 40.000 0.00 0.00 41.18 1.40
1978 5137 4.067192 AGTCGCCCACGTTAGTTAAATTT 58.933 39.130 0.00 0.00 41.18 1.82
1979 5138 3.434299 CAGTCGCCCACGTTAGTTAAATT 59.566 43.478 0.00 0.00 41.18 1.82
1980 5139 2.997986 CAGTCGCCCACGTTAGTTAAAT 59.002 45.455 0.00 0.00 41.18 1.40
1981 5140 2.406130 CAGTCGCCCACGTTAGTTAAA 58.594 47.619 0.00 0.00 41.18 1.52
1982 5141 1.936203 GCAGTCGCCCACGTTAGTTAA 60.936 52.381 0.00 0.00 41.18 2.01
1983 5142 0.388907 GCAGTCGCCCACGTTAGTTA 60.389 55.000 0.00 0.00 41.18 2.24
1984 5143 1.666872 GCAGTCGCCCACGTTAGTT 60.667 57.895 0.00 0.00 41.18 2.24
1985 5144 2.048503 GCAGTCGCCCACGTTAGT 60.049 61.111 0.00 0.00 41.18 2.24
1986 5145 3.179265 CGCAGTCGCCCACGTTAG 61.179 66.667 0.00 0.00 41.18 2.34
1987 5146 4.728102 CCGCAGTCGCCCACGTTA 62.728 66.667 0.00 0.00 41.18 3.18
1998 5157 4.947147 TTTTGCTCCCGCCGCAGT 62.947 61.111 0.00 0.00 38.80 4.40
1999 5158 4.107051 CTTTTGCTCCCGCCGCAG 62.107 66.667 0.00 0.00 38.80 5.18
2027 5186 2.904434 AGCCTTAGAGAGACCCGAAAAA 59.096 45.455 0.00 0.00 0.00 1.94
2028 5187 2.496470 GAGCCTTAGAGAGACCCGAAAA 59.504 50.000 0.00 0.00 0.00 2.29
2029 5188 2.100989 GAGCCTTAGAGAGACCCGAAA 58.899 52.381 0.00 0.00 0.00 3.46
2030 5189 1.005569 TGAGCCTTAGAGAGACCCGAA 59.994 52.381 0.00 0.00 0.00 4.30
2031 5190 0.624254 TGAGCCTTAGAGAGACCCGA 59.376 55.000 0.00 0.00 0.00 5.14
2032 5191 1.611491 GATGAGCCTTAGAGAGACCCG 59.389 57.143 0.00 0.00 0.00 5.28
2033 5192 2.957474 AGATGAGCCTTAGAGAGACCC 58.043 52.381 0.00 0.00 0.00 4.46
2034 5193 4.079253 CCTAGATGAGCCTTAGAGAGACC 58.921 52.174 0.00 0.00 0.00 3.85
2035 5194 4.518970 CACCTAGATGAGCCTTAGAGAGAC 59.481 50.000 0.00 0.00 0.00 3.36
2036 5195 4.413851 TCACCTAGATGAGCCTTAGAGAGA 59.586 45.833 0.00 0.00 0.00 3.10
2037 5196 4.518970 GTCACCTAGATGAGCCTTAGAGAG 59.481 50.000 0.00 0.00 0.00 3.20
2038 5197 4.465886 GTCACCTAGATGAGCCTTAGAGA 58.534 47.826 0.00 0.00 0.00 3.10
2039 5198 3.252215 CGTCACCTAGATGAGCCTTAGAG 59.748 52.174 0.00 0.00 35.12 2.43
2040 5199 3.215151 CGTCACCTAGATGAGCCTTAGA 58.785 50.000 0.00 0.00 35.12 2.10
2041 5200 2.952978 ACGTCACCTAGATGAGCCTTAG 59.047 50.000 0.00 0.00 36.71 2.18
2042 5201 2.950309 GACGTCACCTAGATGAGCCTTA 59.050 50.000 11.55 0.00 36.71 2.69
2043 5202 1.751924 GACGTCACCTAGATGAGCCTT 59.248 52.381 11.55 0.00 36.71 4.35
2044 5203 1.341089 TGACGTCACCTAGATGAGCCT 60.341 52.381 15.76 0.00 36.71 4.58
2045 5204 1.103803 TGACGTCACCTAGATGAGCC 58.896 55.000 15.76 0.00 36.71 4.70
2046 5205 2.621055 AGATGACGTCACCTAGATGAGC 59.379 50.000 22.71 0.00 36.71 4.26
2088 5247 0.804989 GATGAGGTCGGCCAACAAAG 59.195 55.000 9.71 0.00 37.19 2.77
2089 5248 0.400213 AGATGAGGTCGGCCAACAAA 59.600 50.000 9.71 0.00 37.19 2.83
2106 5265 1.471287 CGGACGGAGTACACATGAAGA 59.529 52.381 0.00 0.00 45.67 2.87
2112 5271 1.114722 AAACCCGGACGGAGTACACA 61.115 55.000 13.13 0.00 45.67 3.72
2344 5506 8.740123 TTCCATTTCTTTTTAGTCCGCATATA 57.260 30.769 0.00 0.00 0.00 0.86
2350 5512 5.705905 ACTCCTTCCATTTCTTTTTAGTCCG 59.294 40.000 0.00 0.00 0.00 4.79
2354 5516 6.717084 AGGTGACTCCTTCCATTTCTTTTTAG 59.283 38.462 0.00 0.00 45.67 1.85
2388 5550 4.629634 TGATCTTAAACATGTAGCGGTGTG 59.370 41.667 0.00 0.00 0.00 3.82
2398 5560 7.915397 CCCGGTATTTTTCTGATCTTAAACATG 59.085 37.037 0.00 0.00 0.00 3.21
2401 5563 7.619964 TCCCGGTATTTTTCTGATCTTAAAC 57.380 36.000 0.00 0.00 0.00 2.01
2402 5564 8.638629 TTTCCCGGTATTTTTCTGATCTTAAA 57.361 30.769 0.00 0.00 0.00 1.52
2403 5565 8.817092 ATTTCCCGGTATTTTTCTGATCTTAA 57.183 30.769 0.00 0.00 0.00 1.85
2404 5566 8.817092 AATTTCCCGGTATTTTTCTGATCTTA 57.183 30.769 0.00 0.00 0.00 2.10
2405 5567 7.718334 AATTTCCCGGTATTTTTCTGATCTT 57.282 32.000 0.00 0.00 0.00 2.40
2406 5568 7.396055 TGAAATTTCCCGGTATTTTTCTGATCT 59.604 33.333 15.48 0.00 0.00 2.75
2407 5569 7.543756 TGAAATTTCCCGGTATTTTTCTGATC 58.456 34.615 15.48 0.00 0.00 2.92
2409 5571 6.717540 TCTGAAATTTCCCGGTATTTTTCTGA 59.282 34.615 15.48 15.96 32.36 3.27
2410 5572 6.919721 TCTGAAATTTCCCGGTATTTTTCTG 58.080 36.000 15.48 8.82 0.00 3.02
2411 5573 7.533289 TTCTGAAATTTCCCGGTATTTTTCT 57.467 32.000 15.48 0.00 0.00 2.52
2412 5574 8.596271 TTTTCTGAAATTTCCCGGTATTTTTC 57.404 30.769 15.48 5.53 0.00 2.29
2439 5603 6.848562 AGTTTCATATCCCCAAATCCTAGT 57.151 37.500 0.00 0.00 0.00 2.57
2442 5606 5.211201 CCAAGTTTCATATCCCCAAATCCT 58.789 41.667 0.00 0.00 0.00 3.24
2449 5613 2.031870 GCACCCAAGTTTCATATCCCC 58.968 52.381 0.00 0.00 0.00 4.81
2467 5631 5.344743 TTCACACAAAAGTAAATTGGGCA 57.655 34.783 0.00 0.00 34.49 5.36
2475 5639 5.651530 TGCCGAAATTTCACACAAAAGTAA 58.348 33.333 17.99 0.00 0.00 2.24
2478 5642 5.462034 TTTGCCGAAATTTCACACAAAAG 57.538 34.783 17.99 0.00 0.00 2.27
2479 5643 5.862924 TTTTGCCGAAATTTCACACAAAA 57.137 30.435 24.53 24.53 33.93 2.44
2480 5644 5.639506 TCTTTTTGCCGAAATTTCACACAAA 59.360 32.000 17.99 18.45 0.00 2.83
2482 5646 4.748892 TCTTTTTGCCGAAATTTCACACA 58.251 34.783 17.99 9.41 0.00 3.72
2483 5647 5.905480 ATCTTTTTGCCGAAATTTCACAC 57.095 34.783 17.99 7.01 0.00 3.82
2490 5654 4.340617 TCCTGGTATCTTTTTGCCGAAAT 58.659 39.130 0.00 0.00 0.00 2.17
2496 5660 4.499037 ACGTTTCCTGGTATCTTTTTGC 57.501 40.909 0.00 0.00 0.00 3.68
2555 5722 8.620116 ACTAAAATCCATCCAAACCATTTTTG 57.380 30.769 0.00 0.00 30.99 2.44
2558 5725 7.096551 CGAACTAAAATCCATCCAAACCATTT 58.903 34.615 0.00 0.00 0.00 2.32
2559 5726 6.350949 CCGAACTAAAATCCATCCAAACCATT 60.351 38.462 0.00 0.00 0.00 3.16
2560 5727 5.127031 CCGAACTAAAATCCATCCAAACCAT 59.873 40.000 0.00 0.00 0.00 3.55
2561 5728 4.461081 CCGAACTAAAATCCATCCAAACCA 59.539 41.667 0.00 0.00 0.00 3.67
2562 5729 4.703093 TCCGAACTAAAATCCATCCAAACC 59.297 41.667 0.00 0.00 0.00 3.27
2573 5740 8.440833 CGAAGAAAATACAGTCCGAACTAAAAT 58.559 33.333 0.00 0.00 33.25 1.82
2577 5744 4.860907 GCGAAGAAAATACAGTCCGAACTA 59.139 41.667 0.00 0.00 33.25 2.24
2583 5750 3.065371 CCATGGCGAAGAAAATACAGTCC 59.935 47.826 0.00 0.00 0.00 3.85


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

AutoCloner maintained by Alex Coulton.