Multiple sequence alignment - TraesCS2D01G485800

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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 TraesCS2D01G485800 chr2D 100.000 2519 0 0 1 2519 586362113 586364631 0.000000e+00 4652.0
1 TraesCS2D01G485800 chr2D 96.610 531 18 0 1 531 20355788 20356318 0.000000e+00 881.0
2 TraesCS2D01G485800 chr2A 90.970 1196 92 6 653 1842 721442592 721443777 0.000000e+00 1596.0
3 TraesCS2D01G485800 chr2A 89.869 306 30 1 2215 2519 721444533 721444838 2.350000e-105 392.0
4 TraesCS2D01G485800 chr2A 89.399 283 20 2 1963 2236 721443871 721444152 5.160000e-92 348.0
5 TraesCS2D01G485800 chr2A 95.349 43 2 0 2227 2269 721443716 721443758 4.500000e-08 69.4
6 TraesCS2D01G485800 chr2B 93.294 1014 64 2 665 1675 707981956 707982968 0.000000e+00 1493.0
7 TraesCS2D01G485800 chr2B 96.422 531 18 1 1 530 148586863 148587393 0.000000e+00 874.0
8 TraesCS2D01G485800 chr2B 91.608 143 12 0 2377 2519 707983008 707983150 5.500000e-47 198.0
9 TraesCS2D01G485800 chr5B 83.614 1068 152 16 723 1778 477987830 477988886 0.000000e+00 981.0
10 TraesCS2D01G485800 chr5B 96.234 531 17 1 1 528 622615586 622616116 0.000000e+00 867.0
11 TraesCS2D01G485800 chr5B 96.226 530 17 1 1 527 216617339 216616810 0.000000e+00 865.0
12 TraesCS2D01G485800 chr5D 82.507 1069 160 19 723 1778 397997254 397998308 0.000000e+00 913.0
13 TraesCS2D01G485800 chr5D 96.981 530 16 0 1 530 301121040 301121569 0.000000e+00 891.0
14 TraesCS2D01G485800 chr5D 91.250 80 7 0 633 712 397997122 397997201 2.650000e-20 110.0
15 TraesCS2D01G485800 chr3D 97.180 532 15 0 1 532 536325894 536325363 0.000000e+00 900.0
16 TraesCS2D01G485800 chr6D 96.422 531 18 1 1 531 230823110 230822581 0.000000e+00 874.0
17 TraesCS2D01G485800 chr4A 96.415 530 19 0 1 530 735876186 735875657 0.000000e+00 874.0
18 TraesCS2D01G485800 chr4D 96.053 532 19 2 1 532 273595881 273596410 0.000000e+00 865.0
19 TraesCS2D01G485800 chr6B 97.500 40 0 1 2231 2269 42424094 42424133 1.620000e-07 67.6


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2D01G485800 chr2D 586362113 586364631 2518 False 4652.00 4652 100.00000 1 2519 1 chr2D.!!$F2 2518
1 TraesCS2D01G485800 chr2D 20355788 20356318 530 False 881.00 881 96.61000 1 531 1 chr2D.!!$F1 530
2 TraesCS2D01G485800 chr2A 721442592 721444838 2246 False 601.35 1596 91.39675 653 2519 4 chr2A.!!$F1 1866
3 TraesCS2D01G485800 chr2B 148586863 148587393 530 False 874.00 874 96.42200 1 530 1 chr2B.!!$F1 529
4 TraesCS2D01G485800 chr2B 707981956 707983150 1194 False 845.50 1493 92.45100 665 2519 2 chr2B.!!$F2 1854
5 TraesCS2D01G485800 chr5B 477987830 477988886 1056 False 981.00 981 83.61400 723 1778 1 chr5B.!!$F1 1055
6 TraesCS2D01G485800 chr5B 622615586 622616116 530 False 867.00 867 96.23400 1 528 1 chr5B.!!$F2 527
7 TraesCS2D01G485800 chr5B 216616810 216617339 529 True 865.00 865 96.22600 1 527 1 chr5B.!!$R1 526
8 TraesCS2D01G485800 chr5D 301121040 301121569 529 False 891.00 891 96.98100 1 530 1 chr5D.!!$F1 529
9 TraesCS2D01G485800 chr5D 397997122 397998308 1186 False 511.50 913 86.87850 633 1778 2 chr5D.!!$F2 1145
10 TraesCS2D01G485800 chr3D 536325363 536325894 531 True 900.00 900 97.18000 1 532 1 chr3D.!!$R1 531
11 TraesCS2D01G485800 chr6D 230822581 230823110 529 True 874.00 874 96.42200 1 531 1 chr6D.!!$R1 530
12 TraesCS2D01G485800 chr4A 735875657 735876186 529 True 874.00 874 96.41500 1 530 1 chr4A.!!$R1 529
13 TraesCS2D01G485800 chr4D 273595881 273596410 529 False 865.00 865 96.05300 1 532 1 chr4D.!!$F1 531

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
602 606 0.112606 TTCATACCGCCCCACCAAAA 59.887 50.0 0.0 0.0 0.0 2.44 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1937 2037 0.03563 AGCAAGAGAGGTGTGATGGC 60.036 55.0 0.0 0.0 0.0 4.4 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
24 25 2.662596 GATGACCACGGTGAGGCA 59.337 61.111 10.28 8.64 0.00 4.75
110 111 2.742403 CGTTCGGGGTTGTGGGTA 59.258 61.111 0.00 0.00 0.00 3.69
320 324 0.681887 TGGTATGCGGAGGTTCGAGA 60.682 55.000 0.00 0.00 0.00 4.04
504 508 2.671396 CGGGCGGTTGCTATATCAATAC 59.329 50.000 0.00 0.00 42.25 1.89
543 547 6.554334 TTTTTCGTAAAAGAGAGGATGGTG 57.446 37.500 0.00 0.00 0.00 4.17
544 548 5.477607 TTTCGTAAAAGAGAGGATGGTGA 57.522 39.130 0.00 0.00 0.00 4.02
545 549 5.477607 TTCGTAAAAGAGAGGATGGTGAA 57.522 39.130 0.00 0.00 0.00 3.18
546 550 5.477607 TCGTAAAAGAGAGGATGGTGAAA 57.522 39.130 0.00 0.00 0.00 2.69
547 551 5.860611 TCGTAAAAGAGAGGATGGTGAAAA 58.139 37.500 0.00 0.00 0.00 2.29
548 552 6.292923 TCGTAAAAGAGAGGATGGTGAAAAA 58.707 36.000 0.00 0.00 0.00 1.94
569 573 7.595311 AAAAAGCTTTGACCTTAACAACTTG 57.405 32.000 13.54 0.00 0.00 3.16
570 574 6.524101 AAAGCTTTGACCTTAACAACTTGA 57.476 33.333 11.80 0.00 0.00 3.02
571 575 6.524101 AAGCTTTGACCTTAACAACTTGAA 57.476 33.333 0.00 0.00 0.00 2.69
572 576 5.891451 AGCTTTGACCTTAACAACTTGAAC 58.109 37.500 0.00 0.00 0.00 3.18
573 577 5.417580 AGCTTTGACCTTAACAACTTGAACA 59.582 36.000 0.00 0.00 0.00 3.18
574 578 5.515270 GCTTTGACCTTAACAACTTGAACAC 59.485 40.000 0.00 0.00 0.00 3.32
575 579 6.576662 TTTGACCTTAACAACTTGAACACA 57.423 33.333 0.00 0.00 0.00 3.72
576 580 6.576662 TTGACCTTAACAACTTGAACACAA 57.423 33.333 0.00 0.00 0.00 3.33
577 581 5.945155 TGACCTTAACAACTTGAACACAAC 58.055 37.500 0.00 0.00 0.00 3.32
578 582 4.976987 ACCTTAACAACTTGAACACAACG 58.023 39.130 0.00 0.00 0.00 4.10
579 583 4.696402 ACCTTAACAACTTGAACACAACGA 59.304 37.500 0.00 0.00 0.00 3.85
580 584 5.181622 ACCTTAACAACTTGAACACAACGAA 59.818 36.000 0.00 0.00 0.00 3.85
581 585 5.737290 CCTTAACAACTTGAACACAACGAAG 59.263 40.000 0.00 0.00 0.00 3.79
582 586 3.131240 ACAACTTGAACACAACGAAGC 57.869 42.857 0.00 0.00 0.00 3.86
583 587 2.747446 ACAACTTGAACACAACGAAGCT 59.253 40.909 0.00 0.00 0.00 3.74
584 588 3.190535 ACAACTTGAACACAACGAAGCTT 59.809 39.130 0.00 0.00 0.00 3.74
585 589 3.675467 ACTTGAACACAACGAAGCTTC 57.325 42.857 16.84 16.84 0.00 3.86
586 590 3.006940 ACTTGAACACAACGAAGCTTCA 58.993 40.909 25.47 0.76 0.00 3.02
587 591 3.627577 ACTTGAACACAACGAAGCTTCAT 59.372 39.130 25.47 8.48 0.00 2.57
588 592 4.814234 ACTTGAACACAACGAAGCTTCATA 59.186 37.500 25.47 0.00 0.00 2.15
589 593 4.725556 TGAACACAACGAAGCTTCATAC 57.274 40.909 25.47 8.40 0.00 2.39
590 594 3.496884 TGAACACAACGAAGCTTCATACC 59.503 43.478 25.47 6.93 0.00 2.73
591 595 2.066262 ACACAACGAAGCTTCATACCG 58.934 47.619 25.47 14.43 0.00 4.02
592 596 1.076332 ACAACGAAGCTTCATACCGC 58.924 50.000 25.47 0.00 0.00 5.68
593 597 0.373716 CAACGAAGCTTCATACCGCC 59.626 55.000 25.47 0.00 0.00 6.13
594 598 0.743345 AACGAAGCTTCATACCGCCC 60.743 55.000 25.47 0.00 0.00 6.13
595 599 1.887707 CGAAGCTTCATACCGCCCC 60.888 63.158 25.47 0.00 0.00 5.80
596 600 1.223487 GAAGCTTCATACCGCCCCA 59.777 57.895 21.67 0.00 0.00 4.96
597 601 1.077716 AAGCTTCATACCGCCCCAC 60.078 57.895 0.00 0.00 0.00 4.61
598 602 2.516225 GCTTCATACCGCCCCACC 60.516 66.667 0.00 0.00 0.00 4.61
599 603 2.994699 CTTCATACCGCCCCACCA 59.005 61.111 0.00 0.00 0.00 4.17
600 604 1.301623 CTTCATACCGCCCCACCAA 59.698 57.895 0.00 0.00 0.00 3.67
601 605 0.322997 CTTCATACCGCCCCACCAAA 60.323 55.000 0.00 0.00 0.00 3.28
602 606 0.112606 TTCATACCGCCCCACCAAAA 59.887 50.000 0.00 0.00 0.00 2.44
603 607 0.112606 TCATACCGCCCCACCAAAAA 59.887 50.000 0.00 0.00 0.00 1.94
630 634 9.706691 AAAACCTTCATACGGTACATATATCAG 57.293 33.333 0.00 0.00 33.53 2.90
631 635 8.645814 AACCTTCATACGGTACATATATCAGA 57.354 34.615 0.00 0.00 33.53 3.27
650 654 5.821097 TCAGAACTAGACATCTTCCTCTGA 58.179 41.667 0.00 10.27 0.00 3.27
999 1059 2.483877 CCAAGATCGTAGCAGCAAAACA 59.516 45.455 0.00 0.00 0.00 2.83
1004 1064 4.455533 AGATCGTAGCAGCAAAACAATGAA 59.544 37.500 0.00 0.00 0.00 2.57
1005 1065 4.560136 TCGTAGCAGCAAAACAATGAAA 57.440 36.364 0.00 0.00 0.00 2.69
1048 1108 0.034616 CGCCCTCCTCATGATTCTCC 59.965 60.000 0.00 0.00 0.00 3.71
1170 1230 4.235762 ACTGCGGACAAGCACGGT 62.236 61.111 0.00 0.00 42.92 4.83
1389 1449 3.064987 GAGCCTCAACTCCGCGCTA 62.065 63.158 5.56 0.00 0.00 4.26
1555 1615 6.461648 CCGAGGATATGAATCTGTGTAACTGT 60.462 42.308 0.00 0.00 38.04 3.55
1578 1638 5.799827 AGCAGGAGTCTATAGTCATTTCC 57.200 43.478 0.00 0.00 0.00 3.13
1598 1658 2.160417 CCATGAGCAAACTCCTCGAAAC 59.840 50.000 0.00 0.00 42.74 2.78
1620 1680 6.861065 ACTAATAAGCCCACAATGTTATCG 57.139 37.500 0.00 0.00 0.00 2.92
1659 1719 4.176271 GTGCTGGCACATATTTCTTTTCC 58.824 43.478 19.16 0.00 45.53 3.13
1669 1729 7.312154 CACATATTTCTTTTCCGTGGATTTGA 58.688 34.615 0.00 0.00 0.00 2.69
1748 1809 2.514824 GGAGCAATGGTCGGAGGC 60.515 66.667 6.35 0.00 0.00 4.70
1749 1810 2.892425 GAGCAATGGTCGGAGGCG 60.892 66.667 0.00 0.00 0.00 5.52
1752 1813 4.096003 CAATGGTCGGAGGCGGGT 62.096 66.667 0.00 0.00 0.00 5.28
1770 1831 2.106684 GGGTGGGAGATGAGATTAACCC 59.893 54.545 0.00 0.00 39.31 4.11
1772 1833 3.459969 GGTGGGAGATGAGATTAACCCTT 59.540 47.826 0.00 0.00 38.28 3.95
1808 1869 0.987294 TTTGGGAGGAGAGAAGGCAG 59.013 55.000 0.00 0.00 0.00 4.85
1830 1891 4.036971 AGCACAAAACGCTAAAACCACATA 59.963 37.500 0.00 0.00 38.15 2.29
1847 1908 9.774413 AAACCACATATACTACTATTAACAGGC 57.226 33.333 0.00 0.00 0.00 4.85
1848 1909 7.600065 ACCACATATACTACTATTAACAGGCG 58.400 38.462 0.00 0.00 0.00 5.52
1849 1910 6.530534 CCACATATACTACTATTAACAGGCGC 59.469 42.308 0.00 0.00 0.00 6.53
1851 1912 7.273598 CACATATACTACTATTAACAGGCGCTG 59.726 40.741 7.64 6.31 37.52 5.18
1852 1913 2.822764 ACTACTATTAACAGGCGCTGC 58.177 47.619 7.64 0.00 34.37 5.25
1853 1914 2.167693 ACTACTATTAACAGGCGCTGCA 59.832 45.455 7.64 0.00 34.37 4.41
1855 1916 2.643551 ACTATTAACAGGCGCTGCAAT 58.356 42.857 7.64 9.36 34.37 3.56
1856 1917 2.355756 ACTATTAACAGGCGCTGCAATG 59.644 45.455 7.64 1.31 34.37 2.82
1863 1963 3.218470 GCGCTGCAATGGGGCATA 61.218 61.111 0.00 0.00 43.97 3.14
1865 1965 2.120282 CGCTGCAATGGGGCATACA 61.120 57.895 0.00 0.00 43.97 2.29
1901 2001 9.631639 GTTTCAACACAAATTATTACACAAAGC 57.368 29.630 0.00 0.00 0.00 3.51
1902 2002 9.593134 TTTCAACACAAATTATTACACAAAGCT 57.407 25.926 0.00 0.00 0.00 3.74
1903 2003 9.593134 TTCAACACAAATTATTACACAAAGCTT 57.407 25.926 0.00 0.00 0.00 3.74
1904 2004 9.593134 TCAACACAAATTATTACACAAAGCTTT 57.407 25.926 5.69 5.69 0.00 3.51
1905 2005 9.848172 CAACACAAATTATTACACAAAGCTTTC 57.152 29.630 9.23 0.00 0.00 2.62
1906 2006 9.816354 AACACAAATTATTACACAAAGCTTTCT 57.184 25.926 9.23 0.00 0.00 2.52
1907 2007 9.463443 ACACAAATTATTACACAAAGCTTTCTC 57.537 29.630 9.23 0.00 0.00 2.87
1908 2008 8.915654 CACAAATTATTACACAAAGCTTTCTCC 58.084 33.333 9.23 0.00 0.00 3.71
1909 2009 8.088365 ACAAATTATTACACAAAGCTTTCTCCC 58.912 33.333 9.23 0.00 0.00 4.30
1910 2010 8.306761 CAAATTATTACACAAAGCTTTCTCCCT 58.693 33.333 9.23 0.00 0.00 4.20
1911 2011 7.631717 ATTATTACACAAAGCTTTCTCCCTC 57.368 36.000 9.23 0.00 0.00 4.30
1912 2012 4.431416 TTACACAAAGCTTTCTCCCTCA 57.569 40.909 9.23 0.00 0.00 3.86
1913 2013 2.576615 ACACAAAGCTTTCTCCCTCAC 58.423 47.619 9.23 0.00 0.00 3.51
1914 2014 2.173569 ACACAAAGCTTTCTCCCTCACT 59.826 45.455 9.23 0.00 0.00 3.41
1915 2015 3.391296 ACACAAAGCTTTCTCCCTCACTA 59.609 43.478 9.23 0.00 0.00 2.74
1916 2016 3.748568 CACAAAGCTTTCTCCCTCACTAC 59.251 47.826 9.23 0.00 0.00 2.73
1917 2017 3.244596 ACAAAGCTTTCTCCCTCACTACC 60.245 47.826 9.23 0.00 0.00 3.18
1918 2018 2.327325 AGCTTTCTCCCTCACTACCA 57.673 50.000 0.00 0.00 0.00 3.25
1919 2019 1.903183 AGCTTTCTCCCTCACTACCAC 59.097 52.381 0.00 0.00 0.00 4.16
1920 2020 1.623811 GCTTTCTCCCTCACTACCACA 59.376 52.381 0.00 0.00 0.00 4.17
1921 2021 2.237392 GCTTTCTCCCTCACTACCACAT 59.763 50.000 0.00 0.00 0.00 3.21
1922 2022 3.680196 GCTTTCTCCCTCACTACCACATC 60.680 52.174 0.00 0.00 0.00 3.06
1923 2023 3.474798 TTCTCCCTCACTACCACATCT 57.525 47.619 0.00 0.00 0.00 2.90
1924 2024 3.019799 TCTCCCTCACTACCACATCTC 57.980 52.381 0.00 0.00 0.00 2.75
1925 2025 2.583101 TCTCCCTCACTACCACATCTCT 59.417 50.000 0.00 0.00 0.00 3.10
1926 2026 3.011821 TCTCCCTCACTACCACATCTCTT 59.988 47.826 0.00 0.00 0.00 2.85
1927 2027 3.099905 TCCCTCACTACCACATCTCTTG 58.900 50.000 0.00 0.00 0.00 3.02
1928 2028 2.419297 CCCTCACTACCACATCTCTTGC 60.419 54.545 0.00 0.00 0.00 4.01
1929 2029 2.499289 CCTCACTACCACATCTCTTGCT 59.501 50.000 0.00 0.00 0.00 3.91
1930 2030 3.430098 CCTCACTACCACATCTCTTGCTC 60.430 52.174 0.00 0.00 0.00 4.26
1931 2031 2.497675 TCACTACCACATCTCTTGCTCC 59.502 50.000 0.00 0.00 0.00 4.70
1932 2032 2.499289 CACTACCACATCTCTTGCTCCT 59.501 50.000 0.00 0.00 0.00 3.69
1933 2033 2.763448 ACTACCACATCTCTTGCTCCTC 59.237 50.000 0.00 0.00 0.00 3.71
1934 2034 1.649321 ACCACATCTCTTGCTCCTCA 58.351 50.000 0.00 0.00 0.00 3.86
1935 2035 1.980765 ACCACATCTCTTGCTCCTCAA 59.019 47.619 0.00 0.00 0.00 3.02
1936 2036 2.289945 ACCACATCTCTTGCTCCTCAAC 60.290 50.000 0.00 0.00 0.00 3.18
1937 2037 1.998315 CACATCTCTTGCTCCTCAACG 59.002 52.381 0.00 0.00 0.00 4.10
1938 2038 1.005340 CATCTCTTGCTCCTCAACGC 58.995 55.000 0.00 0.00 0.00 4.84
1939 2039 0.107945 ATCTCTTGCTCCTCAACGCC 60.108 55.000 0.00 0.00 0.00 5.68
1940 2040 1.004560 CTCTTGCTCCTCAACGCCA 60.005 57.895 0.00 0.00 0.00 5.69
1941 2041 0.392193 CTCTTGCTCCTCAACGCCAT 60.392 55.000 0.00 0.00 0.00 4.40
1942 2042 0.391661 TCTTGCTCCTCAACGCCATC 60.392 55.000 0.00 0.00 0.00 3.51
1943 2043 0.674581 CTTGCTCCTCAACGCCATCA 60.675 55.000 0.00 0.00 0.00 3.07
1944 2044 0.955428 TTGCTCCTCAACGCCATCAC 60.955 55.000 0.00 0.00 0.00 3.06
1945 2045 1.375908 GCTCCTCAACGCCATCACA 60.376 57.895 0.00 0.00 0.00 3.58
1946 2046 1.639298 GCTCCTCAACGCCATCACAC 61.639 60.000 0.00 0.00 0.00 3.82
1947 2047 1.003839 TCCTCAACGCCATCACACC 60.004 57.895 0.00 0.00 0.00 4.16
1948 2048 1.003355 CCTCAACGCCATCACACCT 60.003 57.895 0.00 0.00 0.00 4.00
1949 2049 1.021390 CCTCAACGCCATCACACCTC 61.021 60.000 0.00 0.00 0.00 3.85
1950 2050 0.036952 CTCAACGCCATCACACCTCT 60.037 55.000 0.00 0.00 0.00 3.69
1951 2051 0.037326 TCAACGCCATCACACCTCTC 60.037 55.000 0.00 0.00 0.00 3.20
1952 2052 0.036952 CAACGCCATCACACCTCTCT 60.037 55.000 0.00 0.00 0.00 3.10
1953 2053 0.687354 AACGCCATCACACCTCTCTT 59.313 50.000 0.00 0.00 0.00 2.85
1954 2054 0.036952 ACGCCATCACACCTCTCTTG 60.037 55.000 0.00 0.00 0.00 3.02
1955 2055 1.364626 CGCCATCACACCTCTCTTGC 61.365 60.000 0.00 0.00 0.00 4.01
1956 2056 0.035630 GCCATCACACCTCTCTTGCT 60.036 55.000 0.00 0.00 0.00 3.91
1957 2057 2.011046 GCCATCACACCTCTCTTGCTC 61.011 57.143 0.00 0.00 0.00 4.26
1958 2058 1.406614 CCATCACACCTCTCTTGCTCC 60.407 57.143 0.00 0.00 0.00 4.70
1959 2059 1.554160 CATCACACCTCTCTTGCTCCT 59.446 52.381 0.00 0.00 0.00 3.69
1960 2060 1.722034 TCACACCTCTCTTGCTCCTT 58.278 50.000 0.00 0.00 0.00 3.36
1961 2061 1.345741 TCACACCTCTCTTGCTCCTTG 59.654 52.381 0.00 0.00 0.00 3.61
1977 2077 3.469863 TTGCCGCCAACGAAGGAGT 62.470 57.895 0.00 0.00 43.93 3.85
1978 2078 3.119096 GCCGCCAACGAAGGAGTC 61.119 66.667 0.00 0.00 43.93 3.36
1996 2096 2.356382 AGTCGTCGAGAAAGCTCCATAG 59.644 50.000 0.00 0.00 37.91 2.23
2044 2144 6.645003 CCCTAACAATTGCTTTTAACTCCAAC 59.355 38.462 5.05 0.00 0.00 3.77
2111 2211 4.666512 ACTGCCAAATTCATAAGTCCACT 58.333 39.130 0.00 0.00 0.00 4.00
2127 2227 7.691993 AAGTCCACTATTGTAATACCCTGAT 57.308 36.000 0.00 0.00 0.00 2.90
2192 2292 4.187694 ACGCATGAAACAAACAACCAAAT 58.812 34.783 0.00 0.00 0.00 2.32
2196 2305 7.653713 ACGCATGAAACAAACAACCAAATAATA 59.346 29.630 0.00 0.00 0.00 0.98
2242 2752 6.582295 CGTGAAACACAAGAATATTTTGGGAG 59.418 38.462 15.21 8.00 35.74 4.30
2251 2761 6.259346 AGAATATTTTGGGAGGAGAGAAGG 57.741 41.667 0.00 0.00 0.00 3.46
2259 2769 1.609320 GGAGGAGAGAAGGCAACACAC 60.609 57.143 0.00 0.00 41.41 3.82
2269 2779 1.333619 AGGCAACACACAACGCTAAAG 59.666 47.619 0.00 0.00 41.41 1.85
2270 2780 1.064952 GGCAACACACAACGCTAAAGT 59.935 47.619 0.00 0.00 0.00 2.66
2279 2789 6.254157 ACACACAACGCTAAAGTAATATACCG 59.746 38.462 0.00 0.00 0.00 4.02
2294 2804 2.925578 TACCGGAATACCATATCGCG 57.074 50.000 9.46 0.00 35.59 5.87
2299 2809 2.334838 GGAATACCATATCGCGGTCAC 58.665 52.381 6.13 0.00 37.99 3.67
2302 2812 0.671796 TACCATATCGCGGTCACTGG 59.328 55.000 6.13 10.21 37.99 4.00
2314 2825 3.057596 GCGGTCACTGGATTCATTGAAAA 60.058 43.478 2.68 0.00 34.95 2.29
2321 2832 5.347635 CACTGGATTCATTGAAAACATGCAG 59.652 40.000 14.16 14.16 36.35 4.41
2328 2839 4.275689 TCATTGAAAACATGCAGACGTCTT 59.724 37.500 17.26 0.00 0.00 3.01
2329 2840 3.878086 TGAAAACATGCAGACGTCTTC 57.122 42.857 17.26 12.51 0.00 2.87
2340 2851 3.429207 GCAGACGTCTTCCAAACTCTAAC 59.571 47.826 17.26 0.00 0.00 2.34
2347 2858 7.270779 ACGTCTTCCAAACTCTAACTAGTTTT 58.729 34.615 14.49 0.00 45.20 2.43
2349 2860 7.437267 CGTCTTCCAAACTCTAACTAGTTTTGA 59.563 37.037 14.49 11.47 45.20 2.69
2382 2893 7.461182 CAGGAAATAACTGGTTCCATAAACA 57.539 36.000 5.31 0.00 44.94 2.83
2443 2954 4.402056 TTGCTTTCCTCTTCCTATACCG 57.598 45.455 0.00 0.00 0.00 4.02
2482 2993 5.454966 ACCCAACCAGTATTTCTTTTGTCT 58.545 37.500 0.00 0.00 0.00 3.41
2484 2995 5.334879 CCCAACCAGTATTTCTTTTGTCTCG 60.335 44.000 0.00 0.00 0.00 4.04
2497 3008 5.405571 TCTTTTGTCTCGAAAGAATCCGAAG 59.594 40.000 9.02 0.00 39.88 3.79
2500 3011 1.134788 TCTCGAAAGAATCCGAAGCCC 60.135 52.381 0.00 0.00 41.32 5.19
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 0.745845 GACTTGCCATCATCACCGCT 60.746 55.000 0.00 0.00 0.00 5.52
64 65 1.149174 CACCACCAGACAAGCCACT 59.851 57.895 0.00 0.00 0.00 4.00
110 111 2.310538 GATTTCTCCCATCCGCCAAAT 58.689 47.619 0.00 0.00 0.00 2.32
320 324 3.790437 CCACCTCGCTCCAGGCAT 61.790 66.667 0.00 0.00 41.91 4.40
476 480 2.736144 TAGCAACCGCCCGATATAAG 57.264 50.000 0.00 0.00 39.83 1.73
479 483 2.764010 TGATATAGCAACCGCCCGATAT 59.236 45.455 0.00 0.00 39.83 1.63
545 549 7.382898 TCAAGTTGTTAAGGTCAAAGCTTTTT 58.617 30.769 9.53 3.95 37.16 1.94
546 550 6.930731 TCAAGTTGTTAAGGTCAAAGCTTTT 58.069 32.000 9.53 0.00 37.16 2.27
547 551 6.524101 TCAAGTTGTTAAGGTCAAAGCTTT 57.476 33.333 5.69 5.69 37.16 3.51
548 552 6.071616 TGTTCAAGTTGTTAAGGTCAAAGCTT 60.072 34.615 2.11 0.00 39.52 3.74
549 553 5.417580 TGTTCAAGTTGTTAAGGTCAAAGCT 59.582 36.000 2.11 0.00 0.00 3.74
550 554 5.515270 GTGTTCAAGTTGTTAAGGTCAAAGC 59.485 40.000 2.11 0.00 0.00 3.51
551 555 6.616947 TGTGTTCAAGTTGTTAAGGTCAAAG 58.383 36.000 2.11 0.00 0.00 2.77
552 556 6.576662 TGTGTTCAAGTTGTTAAGGTCAAA 57.423 33.333 2.11 0.00 0.00 2.69
553 557 6.383415 GTTGTGTTCAAGTTGTTAAGGTCAA 58.617 36.000 2.11 0.00 33.97 3.18
554 558 5.391097 CGTTGTGTTCAAGTTGTTAAGGTCA 60.391 40.000 2.11 0.00 33.97 4.02
555 559 5.025826 CGTTGTGTTCAAGTTGTTAAGGTC 58.974 41.667 2.11 0.00 33.97 3.85
556 560 4.696402 TCGTTGTGTTCAAGTTGTTAAGGT 59.304 37.500 2.11 0.00 33.97 3.50
557 561 5.224562 TCGTTGTGTTCAAGTTGTTAAGG 57.775 39.130 2.11 0.00 33.97 2.69
558 562 5.227184 GCTTCGTTGTGTTCAAGTTGTTAAG 59.773 40.000 2.11 0.00 33.97 1.85
559 563 5.090083 GCTTCGTTGTGTTCAAGTTGTTAA 58.910 37.500 2.11 0.00 33.97 2.01
560 564 4.393680 AGCTTCGTTGTGTTCAAGTTGTTA 59.606 37.500 2.11 0.00 33.97 2.41
561 565 3.190535 AGCTTCGTTGTGTTCAAGTTGTT 59.809 39.130 2.11 0.00 33.97 2.83
562 566 2.747446 AGCTTCGTTGTGTTCAAGTTGT 59.253 40.909 2.11 0.00 33.97 3.32
563 567 3.405170 AGCTTCGTTGTGTTCAAGTTG 57.595 42.857 0.00 0.00 33.97 3.16
564 568 3.438781 TGAAGCTTCGTTGTGTTCAAGTT 59.561 39.130 21.11 0.00 33.97 2.66
565 569 3.006940 TGAAGCTTCGTTGTGTTCAAGT 58.993 40.909 21.11 0.00 33.97 3.16
566 570 3.673746 TGAAGCTTCGTTGTGTTCAAG 57.326 42.857 21.11 0.00 33.97 3.02
567 571 4.024387 GGTATGAAGCTTCGTTGTGTTCAA 60.024 41.667 25.50 2.99 31.24 2.69
568 572 3.496884 GGTATGAAGCTTCGTTGTGTTCA 59.503 43.478 25.50 3.84 0.00 3.18
569 573 3.423123 CGGTATGAAGCTTCGTTGTGTTC 60.423 47.826 25.50 9.83 0.00 3.18
570 574 2.478894 CGGTATGAAGCTTCGTTGTGTT 59.521 45.455 25.50 5.12 0.00 3.32
571 575 2.066262 CGGTATGAAGCTTCGTTGTGT 58.934 47.619 25.50 7.80 0.00 3.72
572 576 1.201921 GCGGTATGAAGCTTCGTTGTG 60.202 52.381 25.50 15.74 0.00 3.33
573 577 1.076332 GCGGTATGAAGCTTCGTTGT 58.924 50.000 25.50 11.78 0.00 3.32
574 578 0.373716 GGCGGTATGAAGCTTCGTTG 59.626 55.000 25.50 16.38 0.00 4.10
575 579 0.743345 GGGCGGTATGAAGCTTCGTT 60.743 55.000 25.50 15.60 0.00 3.85
576 580 1.153429 GGGCGGTATGAAGCTTCGT 60.153 57.895 23.97 23.97 0.00 3.85
577 581 1.887707 GGGGCGGTATGAAGCTTCG 60.888 63.158 21.11 10.81 0.00 3.79
578 582 1.095807 GTGGGGCGGTATGAAGCTTC 61.096 60.000 19.89 19.89 0.00 3.86
579 583 1.077716 GTGGGGCGGTATGAAGCTT 60.078 57.895 0.00 0.00 0.00 3.74
580 584 2.590092 GTGGGGCGGTATGAAGCT 59.410 61.111 0.00 0.00 0.00 3.74
581 585 2.516225 GGTGGGGCGGTATGAAGC 60.516 66.667 0.00 0.00 0.00 3.86
582 586 0.322997 TTTGGTGGGGCGGTATGAAG 60.323 55.000 0.00 0.00 0.00 3.02
583 587 0.112606 TTTTGGTGGGGCGGTATGAA 59.887 50.000 0.00 0.00 0.00 2.57
584 588 0.112606 TTTTTGGTGGGGCGGTATGA 59.887 50.000 0.00 0.00 0.00 2.15
585 589 2.659800 TTTTTGGTGGGGCGGTATG 58.340 52.632 0.00 0.00 0.00 2.39
604 608 9.706691 CTGATATATGTACCGTATGAAGGTTTT 57.293 33.333 0.00 0.00 42.81 2.43
605 609 9.085645 TCTGATATATGTACCGTATGAAGGTTT 57.914 33.333 0.00 0.00 42.81 3.27
606 610 8.645814 TCTGATATATGTACCGTATGAAGGTT 57.354 34.615 0.00 0.00 42.81 3.50
607 611 8.521176 GTTCTGATATATGTACCGTATGAAGGT 58.479 37.037 0.00 0.00 45.28 3.50
608 612 8.740906 AGTTCTGATATATGTACCGTATGAAGG 58.259 37.037 0.00 0.00 0.00 3.46
613 617 9.955102 TGTCTAGTTCTGATATATGTACCGTAT 57.045 33.333 0.00 0.00 0.00 3.06
614 618 9.955102 ATGTCTAGTTCTGATATATGTACCGTA 57.045 33.333 0.00 0.00 0.00 4.02
615 619 8.865420 ATGTCTAGTTCTGATATATGTACCGT 57.135 34.615 0.00 0.00 0.00 4.83
616 620 9.168451 AGATGTCTAGTTCTGATATATGTACCG 57.832 37.037 0.00 0.00 0.00 4.02
620 624 9.821240 AGGAAGATGTCTAGTTCTGATATATGT 57.179 33.333 0.00 0.00 0.00 2.29
623 627 9.513906 CAGAGGAAGATGTCTAGTTCTGATATA 57.486 37.037 9.92 0.00 32.78 0.86
624 628 8.224025 TCAGAGGAAGATGTCTAGTTCTGATAT 58.776 37.037 12.41 0.00 34.06 1.63
625 629 7.500892 GTCAGAGGAAGATGTCTAGTTCTGATA 59.499 40.741 16.41 2.01 37.62 2.15
626 630 6.321181 GTCAGAGGAAGATGTCTAGTTCTGAT 59.679 42.308 16.41 0.00 37.62 2.90
627 631 5.650266 GTCAGAGGAAGATGTCTAGTTCTGA 59.350 44.000 12.41 12.41 35.32 3.27
628 632 5.652014 AGTCAGAGGAAGATGTCTAGTTCTG 59.348 44.000 9.49 9.49 32.54 3.02
629 633 5.652014 CAGTCAGAGGAAGATGTCTAGTTCT 59.348 44.000 0.00 0.00 0.00 3.01
630 634 5.417580 ACAGTCAGAGGAAGATGTCTAGTTC 59.582 44.000 0.00 0.00 0.00 3.01
631 635 5.329399 ACAGTCAGAGGAAGATGTCTAGTT 58.671 41.667 0.00 0.00 0.00 2.24
637 641 3.133721 GGCATACAGTCAGAGGAAGATGT 59.866 47.826 0.00 0.00 0.00 3.06
648 652 2.267642 GTGGGCGGCATACAGTCA 59.732 61.111 12.47 0.00 0.00 3.41
650 654 2.268920 CTGTGGGCGGCATACAGT 59.731 61.111 26.79 0.00 37.59 3.55
839 887 5.696270 GGACCTTGGCAGAACAATTAAAAAG 59.304 40.000 0.00 0.00 0.00 2.27
924 980 5.023533 TCTATTGAACTGTAGGTGGATGC 57.976 43.478 0.00 0.00 0.00 3.91
999 1059 2.421424 GAGAGCTTGCGATGGTTTCATT 59.579 45.455 0.00 0.00 32.98 2.57
1004 1064 0.459237 CGAGAGAGCTTGCGATGGTT 60.459 55.000 0.00 0.00 0.00 3.67
1005 1065 1.140589 CGAGAGAGCTTGCGATGGT 59.859 57.895 0.00 0.00 0.00 3.55
1048 1108 1.153939 CGGAAGCACTGGACGAGAG 60.154 63.158 0.00 0.00 0.00 3.20
1099 1159 1.469940 GCAGATGTCGTAGGTGTCAGG 60.470 57.143 0.00 0.00 0.00 3.86
1166 1226 1.283181 GCGATGATAGCGAGACCGT 59.717 57.895 0.00 0.00 38.24 4.83
1170 1230 0.312102 CAGTGGCGATGATAGCGAGA 59.688 55.000 0.00 0.00 35.00 4.04
1344 1404 4.028490 TCGCCCAACTTGCCCGAT 62.028 61.111 0.00 0.00 0.00 4.18
1379 1439 2.491022 GGGATGTCTAGCGCGGAGT 61.491 63.158 8.83 0.00 0.00 3.85
1389 1449 1.774254 TCGCAATATTGGGGGATGTCT 59.226 47.619 26.70 0.00 41.01 3.41
1555 1615 6.373759 TGGAAATGACTATAGACTCCTGCTA 58.626 40.000 6.78 0.00 0.00 3.49
1578 1638 3.070018 AGTTTCGAGGAGTTTGCTCATG 58.930 45.455 0.00 0.00 43.37 3.07
1598 1658 5.470098 AGCGATAACATTGTGGGCTTATTAG 59.530 40.000 0.00 0.00 0.00 1.73
1620 1680 2.795121 CACGTCTTGCATAGTTCAGC 57.205 50.000 0.00 0.00 0.00 4.26
1736 1796 4.096003 CACCCGCCTCCGACCATT 62.096 66.667 0.00 0.00 36.29 3.16
1748 1809 2.224305 GGTTAATCTCATCTCCCACCCG 60.224 54.545 0.00 0.00 0.00 5.28
1749 1810 2.106684 GGGTTAATCTCATCTCCCACCC 59.893 54.545 0.00 0.00 36.07 4.61
1752 1813 5.509498 CAAAAGGGTTAATCTCATCTCCCA 58.491 41.667 0.00 0.00 37.56 4.37
1759 1820 2.442413 CCGCCAAAAGGGTTAATCTCA 58.558 47.619 0.00 0.00 39.65 3.27
1770 1831 3.525268 AAATATTCCTGCCGCCAAAAG 57.475 42.857 0.00 0.00 0.00 2.27
1772 1833 2.093764 CCAAAATATTCCTGCCGCCAAA 60.094 45.455 0.00 0.00 0.00 3.28
1808 1869 2.531206 TGTGGTTTTAGCGTTTTGTGC 58.469 42.857 0.00 0.00 0.00 4.57
1830 1891 4.038763 TGCAGCGCCTGTTAATAGTAGTAT 59.961 41.667 2.29 0.00 33.43 2.12
1846 1907 3.218470 TATGCCCCATTGCAGCGC 61.218 61.111 0.00 0.00 45.93 5.92
1847 1908 1.457823 ATGTATGCCCCATTGCAGCG 61.458 55.000 0.00 0.00 45.93 5.18
1848 1909 1.619654 TATGTATGCCCCATTGCAGC 58.380 50.000 0.00 0.00 45.93 5.25
1849 1910 7.643569 TTATAATATGTATGCCCCATTGCAG 57.356 36.000 0.00 0.00 45.93 4.41
1851 1912 8.010733 ACATTATAATATGTATGCCCCATTGC 57.989 34.615 0.00 0.00 36.99 3.56
1855 1916 9.593565 TTGAAACATTATAATATGTATGCCCCA 57.406 29.630 0.00 0.00 37.76 4.96
1856 1917 9.855021 GTTGAAACATTATAATATGTATGCCCC 57.145 33.333 0.00 0.00 37.76 5.80
1896 1996 3.244561 TGGTAGTGAGGGAGAAAGCTTTG 60.245 47.826 18.30 0.00 0.00 2.77
1897 1997 2.979678 TGGTAGTGAGGGAGAAAGCTTT 59.020 45.455 12.53 12.53 0.00 3.51
1898 1998 2.303311 GTGGTAGTGAGGGAGAAAGCTT 59.697 50.000 0.00 0.00 0.00 3.74
1899 1999 1.903183 GTGGTAGTGAGGGAGAAAGCT 59.097 52.381 0.00 0.00 0.00 3.74
1900 2000 1.623811 TGTGGTAGTGAGGGAGAAAGC 59.376 52.381 0.00 0.00 0.00 3.51
1901 2001 3.772025 AGATGTGGTAGTGAGGGAGAAAG 59.228 47.826 0.00 0.00 0.00 2.62
1902 2002 3.769844 GAGATGTGGTAGTGAGGGAGAAA 59.230 47.826 0.00 0.00 0.00 2.52
1903 2003 3.011821 AGAGATGTGGTAGTGAGGGAGAA 59.988 47.826 0.00 0.00 0.00 2.87
1904 2004 2.583101 AGAGATGTGGTAGTGAGGGAGA 59.417 50.000 0.00 0.00 0.00 3.71
1905 2005 3.025322 AGAGATGTGGTAGTGAGGGAG 57.975 52.381 0.00 0.00 0.00 4.30
1906 2006 3.099905 CAAGAGATGTGGTAGTGAGGGA 58.900 50.000 0.00 0.00 0.00 4.20
1907 2007 2.419297 GCAAGAGATGTGGTAGTGAGGG 60.419 54.545 0.00 0.00 0.00 4.30
1908 2008 2.499289 AGCAAGAGATGTGGTAGTGAGG 59.501 50.000 0.00 0.00 0.00 3.86
1909 2009 3.430098 GGAGCAAGAGATGTGGTAGTGAG 60.430 52.174 0.00 0.00 0.00 3.51
1910 2010 2.497675 GGAGCAAGAGATGTGGTAGTGA 59.502 50.000 0.00 0.00 0.00 3.41
1911 2011 2.499289 AGGAGCAAGAGATGTGGTAGTG 59.501 50.000 0.00 0.00 0.00 2.74
1912 2012 2.763448 GAGGAGCAAGAGATGTGGTAGT 59.237 50.000 0.00 0.00 0.00 2.73
1913 2013 2.762887 TGAGGAGCAAGAGATGTGGTAG 59.237 50.000 0.00 0.00 0.00 3.18
1914 2014 2.820178 TGAGGAGCAAGAGATGTGGTA 58.180 47.619 0.00 0.00 0.00 3.25
1915 2015 1.649321 TGAGGAGCAAGAGATGTGGT 58.351 50.000 0.00 0.00 0.00 4.16
1916 2016 2.354259 GTTGAGGAGCAAGAGATGTGG 58.646 52.381 0.00 0.00 37.12 4.17
1917 2017 1.998315 CGTTGAGGAGCAAGAGATGTG 59.002 52.381 0.00 0.00 37.12 3.21
1918 2018 1.674221 GCGTTGAGGAGCAAGAGATGT 60.674 52.381 0.00 0.00 37.12 3.06
1919 2019 1.005340 GCGTTGAGGAGCAAGAGATG 58.995 55.000 0.00 0.00 37.12 2.90
1920 2020 0.107945 GGCGTTGAGGAGCAAGAGAT 60.108 55.000 0.00 0.00 37.12 2.75
1921 2021 1.293498 GGCGTTGAGGAGCAAGAGA 59.707 57.895 0.00 0.00 37.12 3.10
1922 2022 0.392193 ATGGCGTTGAGGAGCAAGAG 60.392 55.000 0.00 0.00 37.12 2.85
1923 2023 0.391661 GATGGCGTTGAGGAGCAAGA 60.392 55.000 0.00 0.00 37.12 3.02
1924 2024 0.674581 TGATGGCGTTGAGGAGCAAG 60.675 55.000 0.00 0.00 37.12 4.01
1925 2025 0.955428 GTGATGGCGTTGAGGAGCAA 60.955 55.000 0.00 0.00 34.54 3.91
1926 2026 1.375908 GTGATGGCGTTGAGGAGCA 60.376 57.895 0.00 0.00 34.54 4.26
1927 2027 1.375908 TGTGATGGCGTTGAGGAGC 60.376 57.895 0.00 0.00 0.00 4.70
1928 2028 1.021390 GGTGTGATGGCGTTGAGGAG 61.021 60.000 0.00 0.00 0.00 3.69
1929 2029 1.003839 GGTGTGATGGCGTTGAGGA 60.004 57.895 0.00 0.00 0.00 3.71
1930 2030 1.003355 AGGTGTGATGGCGTTGAGG 60.003 57.895 0.00 0.00 0.00 3.86
1931 2031 0.036952 AGAGGTGTGATGGCGTTGAG 60.037 55.000 0.00 0.00 0.00 3.02
1932 2032 0.037326 GAGAGGTGTGATGGCGTTGA 60.037 55.000 0.00 0.00 0.00 3.18
1933 2033 0.036952 AGAGAGGTGTGATGGCGTTG 60.037 55.000 0.00 0.00 0.00 4.10
1934 2034 0.687354 AAGAGAGGTGTGATGGCGTT 59.313 50.000 0.00 0.00 0.00 4.84
1935 2035 0.036952 CAAGAGAGGTGTGATGGCGT 60.037 55.000 0.00 0.00 0.00 5.68
1936 2036 1.364626 GCAAGAGAGGTGTGATGGCG 61.365 60.000 0.00 0.00 0.00 5.69
1937 2037 0.035630 AGCAAGAGAGGTGTGATGGC 60.036 55.000 0.00 0.00 0.00 4.40
1938 2038 1.406614 GGAGCAAGAGAGGTGTGATGG 60.407 57.143 0.00 0.00 0.00 3.51
1939 2039 1.554160 AGGAGCAAGAGAGGTGTGATG 59.446 52.381 0.00 0.00 0.00 3.07
1940 2040 1.949799 AGGAGCAAGAGAGGTGTGAT 58.050 50.000 0.00 0.00 0.00 3.06
1941 2041 1.345741 CAAGGAGCAAGAGAGGTGTGA 59.654 52.381 0.00 0.00 0.00 3.58
1942 2042 1.805869 CAAGGAGCAAGAGAGGTGTG 58.194 55.000 0.00 0.00 0.00 3.82
1943 2043 0.036022 GCAAGGAGCAAGAGAGGTGT 59.964 55.000 0.00 0.00 44.79 4.16
1944 2044 2.851798 GCAAGGAGCAAGAGAGGTG 58.148 57.895 0.00 0.00 44.79 4.00
1955 2055 2.668212 TTCGTTGGCGGCAAGGAG 60.668 61.111 35.06 24.58 38.89 3.69
1956 2056 2.668212 CTTCGTTGGCGGCAAGGA 60.668 61.111 34.36 34.36 38.89 3.36
1957 2057 3.737172 CCTTCGTTGGCGGCAAGG 61.737 66.667 31.41 31.41 36.31 3.61
1958 2058 2.668212 TCCTTCGTTGGCGGCAAG 60.668 61.111 26.22 18.20 38.89 4.01
1959 2059 2.668212 CTCCTTCGTTGGCGGCAA 60.668 61.111 21.79 21.79 38.89 4.52
1960 2060 3.876589 GACTCCTTCGTTGGCGGCA 62.877 63.158 7.97 7.97 38.89 5.69
1961 2061 3.119096 GACTCCTTCGTTGGCGGC 61.119 66.667 0.00 0.00 38.89 6.53
1977 2077 1.676529 CCTATGGAGCTTTCTCGACGA 59.323 52.381 0.00 0.00 40.26 4.20
1978 2078 1.269309 CCCTATGGAGCTTTCTCGACG 60.269 57.143 0.00 0.00 40.26 5.12
1996 2096 6.952358 GGGGATAATTTTTATAAGGGAGTCCC 59.048 42.308 21.81 21.81 45.90 4.46
2104 2204 7.691993 AATCAGGGTATTACAATAGTGGACT 57.308 36.000 0.00 0.00 0.00 3.85
2107 2207 9.184523 TGAAAAATCAGGGTATTACAATAGTGG 57.815 33.333 0.00 0.00 0.00 4.00
2162 2262 7.380065 GGTTGTTTGTTTCATGCGTTATTTCTA 59.620 33.333 0.00 0.00 0.00 2.10
2218 2327 6.868339 CCTCCCAAAATATTCTTGTGTTTCAC 59.132 38.462 0.00 0.00 34.56 3.18
2242 2752 1.604278 GTTGTGTGTTGCCTTCTCTCC 59.396 52.381 0.00 0.00 0.00 3.71
2251 2761 2.468532 ACTTTAGCGTTGTGTGTTGC 57.531 45.000 0.00 0.00 0.00 4.17
2259 2769 7.647907 ATTCCGGTATATTACTTTAGCGTTG 57.352 36.000 0.00 0.00 37.56 4.10
2269 2779 6.580041 CGCGATATGGTATTCCGGTATATTAC 59.420 42.308 0.00 0.00 36.30 1.89
2270 2780 6.294120 CCGCGATATGGTATTCCGGTATATTA 60.294 42.308 8.23 0.00 36.30 0.98
2279 2789 2.029290 AGTGACCGCGATATGGTATTCC 60.029 50.000 8.23 0.00 40.63 3.01
2294 2804 5.452078 TGTTTTCAATGAATCCAGTGACC 57.548 39.130 0.00 0.00 45.61 4.02
2299 2809 5.575606 GTCTGCATGTTTTCAATGAATCCAG 59.424 40.000 0.00 0.00 0.00 3.86
2302 2812 5.156355 ACGTCTGCATGTTTTCAATGAATC 58.844 37.500 0.00 0.00 0.00 2.52
2314 2825 1.873591 GTTTGGAAGACGTCTGCATGT 59.126 47.619 24.93 6.11 0.00 3.21
2321 2832 6.011476 ACTAGTTAGAGTTTGGAAGACGTC 57.989 41.667 7.70 7.70 0.00 4.34
2347 2858 7.896383 CCAGTTATTTCCTGGGAATAAATCA 57.104 36.000 19.41 0.00 44.77 2.57
2482 2993 0.459585 CGGGCTTCGGATTCTTTCGA 60.460 55.000 0.00 0.00 34.75 3.71
2484 2995 1.450025 AACGGGCTTCGGATTCTTTC 58.550 50.000 5.17 0.00 44.45 2.62


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

AutoCloner maintained by Alex Coulton.