Multiple sequence alignment - TraesCS1A01G175400

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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 TraesCS1A01G175400 chr1A 100.000 2234 0 0 1 2234 313486341 313488574 0.000000e+00 4126
1 TraesCS1A01G175400 chr1A 98.224 1351 24 0 1 1351 186735172 186733822 0.000000e+00 2362
2 TraesCS1A01G175400 chr1A 92.913 254 17 1 1979 2231 564346332 564346079 3.500000e-98 368
3 TraesCS1A01G175400 chr5A 98.150 1351 25 0 1 1351 625913832 625915182 0.000000e+00 2357
4 TraesCS1A01G175400 chr5A 96.443 253 9 0 1979 2231 127983202 127983454 3.430000e-113 418
5 TraesCS1A01G175400 chr5A 94.163 257 14 1 1978 2234 536698247 536697992 7.480000e-105 390
6 TraesCS1A01G175400 chr5A 93.281 253 17 0 1979 2231 566289755 566290007 7.530000e-100 374
7 TraesCS1A01G175400 chr4B 97.557 1351 33 0 1 1351 478451546 478452896 0.000000e+00 2313
8 TraesCS1A01G175400 chr6A 97.483 1351 34 0 1 1351 601939176 601937826 0.000000e+00 2307
9 TraesCS1A01G175400 chr6A 95.929 1351 54 1 1 1351 539671699 539673048 0.000000e+00 2189
10 TraesCS1A01G175400 chr5B 97.050 1356 40 0 1 1356 402873404 402872049 0.000000e+00 2283
11 TraesCS1A01G175400 chr7B 96.669 1351 45 0 1 1351 217621857 217620507 0.000000e+00 2246
12 TraesCS1A01G175400 chr7B 90.909 143 13 0 1356 1498 130108526 130108384 2.260000e-45 193
13 TraesCS1A01G175400 chr3A 96.524 1352 46 1 1 1351 143538710 143540061 0.000000e+00 2235
14 TraesCS1A01G175400 chr3A 93.333 255 16 1 1978 2231 181696641 181696895 2.090000e-100 375
15 TraesCS1A01G175400 chr2A 95.781 1351 57 0 1 1351 7825052 7826402 0.000000e+00 2180
16 TraesCS1A01G175400 chr2A 95.276 254 11 1 1978 2231 270463286 270463538 3.460000e-108 401
17 TraesCS1A01G175400 chr3D 90.681 558 48 1 1349 1906 188411756 188412309 0.000000e+00 739
18 TraesCS1A01G175400 chr7A 94.677 263 11 3 1971 2230 538735812 538735550 2.670000e-109 405
19 TraesCS1A01G175400 chr7A 92.885 253 16 2 1980 2231 138733183 138733434 1.260000e-97 366
20 TraesCS1A01G175400 chr4A 94.510 255 13 1 1980 2234 595244890 595244637 2.080000e-105 392


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 TraesCS1A01G175400 chr1A 313486341 313488574 2233 False 4126 4126 100.000 1 2234 1 chr1A.!!$F1 2233
1 TraesCS1A01G175400 chr1A 186733822 186735172 1350 True 2362 2362 98.224 1 1351 1 chr1A.!!$R1 1350
2 TraesCS1A01G175400 chr5A 625913832 625915182 1350 False 2357 2357 98.150 1 1351 1 chr5A.!!$F3 1350
3 TraesCS1A01G175400 chr4B 478451546 478452896 1350 False 2313 2313 97.557 1 1351 1 chr4B.!!$F1 1350
4 TraesCS1A01G175400 chr6A 601937826 601939176 1350 True 2307 2307 97.483 1 1351 1 chr6A.!!$R1 1350
5 TraesCS1A01G175400 chr6A 539671699 539673048 1349 False 2189 2189 95.929 1 1351 1 chr6A.!!$F1 1350
6 TraesCS1A01G175400 chr5B 402872049 402873404 1355 True 2283 2283 97.050 1 1356 1 chr5B.!!$R1 1355
7 TraesCS1A01G175400 chr7B 217620507 217621857 1350 True 2246 2246 96.669 1 1351 1 chr7B.!!$R2 1350
8 TraesCS1A01G175400 chr3A 143538710 143540061 1351 False 2235 2235 96.524 1 1351 1 chr3A.!!$F1 1350
9 TraesCS1A01G175400 chr2A 7825052 7826402 1350 False 2180 2180 95.781 1 1351 1 chr2A.!!$F1 1350
10 TraesCS1A01G175400 chr3D 188411756 188412309 553 False 739 739 90.681 1349 1906 1 chr3D.!!$F1 557

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
195 196 0.601841 GGGAAGACTCGGAAAACGCA 60.602 55.0 0.0 0.0 43.86 5.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1978 1980 0.179045 GTGCGGGGCATCATCTAGTT 60.179 55.0 0.0 0.0 41.91 2.24 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
195 196 0.601841 GGGAAGACTCGGAAAACGCA 60.602 55.000 0.00 0.00 43.86 5.24
197 198 1.804748 GGAAGACTCGGAAAACGCATT 59.195 47.619 0.00 0.00 43.86 3.56
294 296 1.745489 GAGATTTGGTCGGGCGCTT 60.745 57.895 7.64 0.00 0.00 4.68
354 356 2.036098 CAATGGGTGGGCTCTGCA 59.964 61.111 0.00 0.00 0.00 4.41
684 686 1.616091 GGTGGACCCCAAATGGCATG 61.616 60.000 0.00 0.00 34.18 4.06
1388 1390 3.124921 GGTGCGCGGCTTGTATGT 61.125 61.111 8.83 0.00 0.00 2.29
1435 1437 0.583438 CGTCGTGGATCCATGCATTC 59.417 55.000 26.64 15.64 33.28 2.67
1441 1443 3.058432 CGTGGATCCATGCATTCTCAATC 60.058 47.826 20.90 0.59 0.00 2.67
1450 1452 2.494471 TGCATTCTCAATCAAAGCCTGG 59.506 45.455 0.00 0.00 0.00 4.45
1464 1466 1.701847 AGCCTGGTGAACAGTTCTCAT 59.298 47.619 14.51 0.00 46.06 2.90
1502 1504 1.001048 GCACAAGCTGAACAATGAGCA 60.001 47.619 0.00 0.00 37.70 4.26
1503 1505 2.544277 GCACAAGCTGAACAATGAGCAA 60.544 45.455 0.00 0.00 37.70 3.91
1506 1508 1.597742 AGCTGAACAATGAGCAACGT 58.402 45.000 0.00 0.00 37.70 3.99
1516 1518 5.003804 ACAATGAGCAACGTAATTTCTCCT 58.996 37.500 0.00 0.00 0.00 3.69
1520 1522 4.082625 TGAGCAACGTAATTTCTCCTACGA 60.083 41.667 8.47 0.00 42.73 3.43
1523 1525 4.025979 GCAACGTAATTTCTCCTACGATGG 60.026 45.833 8.47 0.00 41.71 3.51
1527 1529 4.202080 CGTAATTTCTCCTACGATGGACCA 60.202 45.833 0.00 0.00 42.73 4.02
1546 1548 5.495640 GACCAATGGATCCATCTATCCTTC 58.504 45.833 27.45 12.77 44.98 3.46
1547 1549 5.168679 ACCAATGGATCCATCTATCCTTCT 58.831 41.667 27.45 5.82 44.98 2.85
1550 1552 6.347696 CAATGGATCCATCTATCCTTCTAGC 58.652 44.000 27.45 0.00 44.98 3.42
1567 1569 2.887151 AGCATAGGACTTTGTTGCCT 57.113 45.000 0.00 0.00 33.85 4.75
1570 1572 2.819608 GCATAGGACTTTGTTGCCTTCA 59.180 45.455 0.00 0.00 33.28 3.02
1611 1613 6.455360 CATACTTTGGAATACCATGCAAGT 57.545 37.500 0.00 0.00 46.34 3.16
1630 1632 3.480470 AGTGTCCTTGTCTTCAACCATG 58.520 45.455 0.00 0.00 0.00 3.66
1645 1647 1.514087 CATGCTCAACCCATGCCAC 59.486 57.895 0.00 0.00 34.34 5.01
1654 1656 4.440127 CCATGCCACGGCCTTTGC 62.440 66.667 5.42 0.00 41.09 3.68
1677 1679 6.716628 TGCTGATCTACTCTTTTCAACCATTT 59.283 34.615 0.00 0.00 0.00 2.32
1684 1686 4.218417 ACTCTTTTCAACCATTTCCATCGG 59.782 41.667 0.00 0.00 0.00 4.18
1716 1718 2.953821 CGCTTGCAACCGGATGTT 59.046 55.556 9.46 0.00 37.80 2.71
1726 1728 1.584724 ACCGGATGTTCTTGATCCCT 58.415 50.000 9.46 0.00 36.74 4.20
1730 1732 3.134804 CCGGATGTTCTTGATCCCTAGTT 59.865 47.826 0.00 0.00 36.74 2.24
1772 1774 2.678580 TGGTCTCCCATGCGACGA 60.679 61.111 0.00 0.00 35.17 4.20
1773 1775 2.058001 TGGTCTCCCATGCGACGAT 61.058 57.895 0.00 0.00 35.17 3.73
1774 1776 1.300233 GGTCTCCCATGCGACGATC 60.300 63.158 0.00 0.00 0.00 3.69
1783 1785 0.313987 ATGCGACGATCGAGGCATTA 59.686 50.000 30.46 16.09 43.08 1.90
1784 1786 0.101579 TGCGACGATCGAGGCATTAA 59.898 50.000 25.67 10.09 43.74 1.40
1809 1811 5.897824 CCTCCATTTACTCTGTCCTTACCTA 59.102 44.000 0.00 0.00 0.00 3.08
1810 1812 6.555360 CCTCCATTTACTCTGTCCTTACCTAT 59.445 42.308 0.00 0.00 0.00 2.57
1811 1813 7.361457 TCCATTTACTCTGTCCTTACCTATG 57.639 40.000 0.00 0.00 0.00 2.23
1825 1827 1.303309 CCTATGCAGAAGAAAGCCCG 58.697 55.000 0.00 0.00 0.00 6.13
1829 1831 1.138247 GCAGAAGAAAGCCCGCATG 59.862 57.895 0.00 0.00 0.00 4.06
1845 1847 3.928992 CCGCATGCACTTATCGATATCTT 59.071 43.478 19.57 0.00 0.00 2.40
1846 1848 4.032217 CCGCATGCACTTATCGATATCTTC 59.968 45.833 19.57 0.00 0.00 2.87
1858 1860 4.407496 CGATATCTTCGTAGACCCACTC 57.593 50.000 0.34 0.00 43.01 3.51
1873 1875 1.004745 CCACTCTGGGGTGTTAAGCAT 59.995 52.381 0.00 0.00 35.63 3.79
1896 1898 4.576053 TCATTAGTTGATGAATTGGCCTCG 59.424 41.667 3.32 0.00 33.31 4.63
1908 1910 4.654412 GCCTCGCCGCGATCATCT 62.654 66.667 17.22 0.00 34.61 2.90
1909 1911 2.954611 CCTCGCCGCGATCATCTA 59.045 61.111 17.22 0.00 34.61 1.98
1910 1912 1.154131 CCTCGCCGCGATCATCTAG 60.154 63.158 17.22 2.26 34.61 2.43
1911 1913 1.578206 CCTCGCCGCGATCATCTAGA 61.578 60.000 17.22 0.00 34.61 2.43
1912 1914 0.179202 CTCGCCGCGATCATCTAGAG 60.179 60.000 17.22 0.00 34.61 2.43
1913 1915 0.602905 TCGCCGCGATCATCTAGAGA 60.603 55.000 12.39 0.00 0.00 3.10
1914 1916 0.238553 CGCCGCGATCATCTAGAGAA 59.761 55.000 8.23 0.00 0.00 2.87
1915 1917 1.727535 CGCCGCGATCATCTAGAGAAG 60.728 57.143 8.23 0.00 0.00 2.85
1916 1918 1.537638 GCCGCGATCATCTAGAGAAGA 59.462 52.381 8.23 0.00 39.02 2.87
1917 1919 2.030717 GCCGCGATCATCTAGAGAAGAA 60.031 50.000 8.23 0.00 37.89 2.52
1918 1920 3.366883 GCCGCGATCATCTAGAGAAGAAT 60.367 47.826 8.23 0.00 37.89 2.40
1919 1921 4.804108 CCGCGATCATCTAGAGAAGAATT 58.196 43.478 8.23 0.00 37.89 2.17
1920 1922 5.620205 GCCGCGATCATCTAGAGAAGAATTA 60.620 44.000 8.23 0.00 37.89 1.40
1921 1923 6.027131 CCGCGATCATCTAGAGAAGAATTAG 58.973 44.000 8.23 0.00 37.89 1.73
1922 1924 6.348950 CCGCGATCATCTAGAGAAGAATTAGT 60.349 42.308 8.23 0.00 37.89 2.24
1923 1925 7.148390 CCGCGATCATCTAGAGAAGAATTAGTA 60.148 40.741 8.23 0.00 37.89 1.82
1924 1926 8.231161 CGCGATCATCTAGAGAAGAATTAGTAA 58.769 37.037 0.00 0.00 37.89 2.24
1925 1927 9.900710 GCGATCATCTAGAGAAGAATTAGTAAA 57.099 33.333 0.00 0.00 37.89 2.01
1952 1954 6.698380 TGTTAAGAGTAACCTGACATCTTCC 58.302 40.000 0.00 0.00 39.16 3.46
1953 1955 6.269077 TGTTAAGAGTAACCTGACATCTTCCA 59.731 38.462 0.00 0.00 39.16 3.53
1954 1956 5.825593 AAGAGTAACCTGACATCTTCCAA 57.174 39.130 0.00 0.00 0.00 3.53
1955 1957 5.153950 AGAGTAACCTGACATCTTCCAAC 57.846 43.478 0.00 0.00 0.00 3.77
1956 1958 4.841246 AGAGTAACCTGACATCTTCCAACT 59.159 41.667 0.00 0.00 0.00 3.16
1957 1959 6.017192 AGAGTAACCTGACATCTTCCAACTA 58.983 40.000 0.00 0.00 0.00 2.24
1958 1960 6.670027 AGAGTAACCTGACATCTTCCAACTAT 59.330 38.462 0.00 0.00 0.00 2.12
1959 1961 7.181125 AGAGTAACCTGACATCTTCCAACTATT 59.819 37.037 0.00 0.00 0.00 1.73
1960 1962 7.690256 AGTAACCTGACATCTTCCAACTATTT 58.310 34.615 0.00 0.00 0.00 1.40
1961 1963 6.824305 AACCTGACATCTTCCAACTATTTG 57.176 37.500 0.00 0.00 0.00 2.32
1975 1977 6.751514 CAACTATTTGGTGGCTGTATTACA 57.248 37.500 0.00 0.00 0.00 2.41
1992 1994 7.217200 TGTATTACAGAAACTAGATGATGCCC 58.783 38.462 0.00 0.00 0.00 5.36
1993 1995 3.567478 ACAGAAACTAGATGATGCCCC 57.433 47.619 0.00 0.00 0.00 5.80
1994 1996 2.158900 ACAGAAACTAGATGATGCCCCG 60.159 50.000 0.00 0.00 0.00 5.73
1995 1997 1.202698 AGAAACTAGATGATGCCCCGC 60.203 52.381 0.00 0.00 0.00 6.13
1996 1998 0.546122 AAACTAGATGATGCCCCGCA 59.454 50.000 0.00 0.00 44.86 5.69
1997 1999 0.179045 AACTAGATGATGCCCCGCAC 60.179 55.000 0.00 0.00 43.04 5.34
1998 2000 1.665916 CTAGATGATGCCCCGCACG 60.666 63.158 0.00 0.00 43.04 5.34
1999 2001 2.369257 CTAGATGATGCCCCGCACGT 62.369 60.000 0.00 0.00 43.04 4.49
2000 2002 1.966901 TAGATGATGCCCCGCACGTT 61.967 55.000 0.00 0.00 43.04 3.99
2001 2003 3.112126 GATGATGCCCCGCACGTTG 62.112 63.158 0.00 0.00 43.04 4.10
2002 2004 3.918253 ATGATGCCCCGCACGTTGT 62.918 57.895 0.00 0.00 43.04 3.32
2003 2005 3.361977 GATGCCCCGCACGTTGTT 61.362 61.111 0.00 0.00 43.04 2.83
2004 2006 3.609214 GATGCCCCGCACGTTGTTG 62.609 63.158 0.00 0.00 43.04 3.33
2011 2013 2.642700 GCACGTTGTTGCGGGAAT 59.357 55.556 0.00 0.00 37.48 3.01
2012 2014 1.870383 GCACGTTGTTGCGGGAATA 59.130 52.632 0.00 0.00 37.48 1.75
2013 2015 0.450184 GCACGTTGTTGCGGGAATAT 59.550 50.000 0.00 0.00 37.48 1.28
2014 2016 1.135517 GCACGTTGTTGCGGGAATATT 60.136 47.619 0.00 0.00 37.48 1.28
2015 2017 2.669950 GCACGTTGTTGCGGGAATATTT 60.670 45.455 0.00 0.00 37.48 1.40
2016 2018 3.570559 CACGTTGTTGCGGGAATATTTT 58.429 40.909 0.00 0.00 37.48 1.82
2017 2019 3.363426 CACGTTGTTGCGGGAATATTTTG 59.637 43.478 0.00 0.00 37.48 2.44
2018 2020 2.344142 CGTTGTTGCGGGAATATTTTGC 59.656 45.455 0.00 0.00 0.00 3.68
2019 2021 3.321497 GTTGTTGCGGGAATATTTTGCA 58.679 40.909 6.21 6.21 0.00 4.08
2020 2022 3.667497 TGTTGCGGGAATATTTTGCAA 57.333 38.095 14.93 14.93 42.68 4.08
2021 2023 4.199432 TGTTGCGGGAATATTTTGCAAT 57.801 36.364 19.26 0.00 45.95 3.56
2022 2024 5.330455 TGTTGCGGGAATATTTTGCAATA 57.670 34.783 19.26 15.80 45.95 1.90
2023 2025 5.911752 TGTTGCGGGAATATTTTGCAATAT 58.088 33.333 19.26 3.39 45.95 1.28
2024 2026 5.982516 TGTTGCGGGAATATTTTGCAATATC 59.017 36.000 19.26 11.37 45.95 1.63
2025 2027 6.183360 TGTTGCGGGAATATTTTGCAATATCT 60.183 34.615 19.26 0.00 45.95 1.98
2026 2028 6.012658 TGCGGGAATATTTTGCAATATCTC 57.987 37.500 5.60 4.84 34.91 2.75
2027 2029 5.534278 TGCGGGAATATTTTGCAATATCTCA 59.466 36.000 5.60 0.00 34.91 3.27
2028 2030 6.040278 TGCGGGAATATTTTGCAATATCTCAA 59.960 34.615 5.60 0.00 34.91 3.02
2029 2031 7.092716 GCGGGAATATTTTGCAATATCTCAAT 58.907 34.615 5.60 1.57 34.91 2.57
2030 2032 7.062605 GCGGGAATATTTTGCAATATCTCAATG 59.937 37.037 5.60 0.00 34.91 2.82
2031 2033 8.298854 CGGGAATATTTTGCAATATCTCAATGA 58.701 33.333 5.60 0.00 34.91 2.57
2032 2034 9.635520 GGGAATATTTTGCAATATCTCAATGAG 57.364 33.333 3.38 3.38 34.91 2.90
2033 2035 9.635520 GGAATATTTTGCAATATCTCAATGAGG 57.364 33.333 10.71 0.00 34.91 3.86
2038 2040 9.729281 ATTTTGCAATATCTCAATGAGGTTTTT 57.271 25.926 10.71 0.00 0.00 1.94
2039 2041 8.537049 TTTGCAATATCTCAATGAGGTTTTTG 57.463 30.769 10.71 11.49 0.00 2.44
2040 2042 6.632909 TGCAATATCTCAATGAGGTTTTTGG 58.367 36.000 10.71 0.00 0.00 3.28
2041 2043 6.211184 TGCAATATCTCAATGAGGTTTTTGGT 59.789 34.615 10.71 0.00 0.00 3.67
2042 2044 7.099120 GCAATATCTCAATGAGGTTTTTGGTT 58.901 34.615 10.71 0.00 0.00 3.67
2043 2045 8.250332 GCAATATCTCAATGAGGTTTTTGGTTA 58.750 33.333 10.71 0.00 0.00 2.85
2044 2046 9.573133 CAATATCTCAATGAGGTTTTTGGTTAC 57.427 33.333 10.71 0.00 0.00 2.50
2045 2047 8.877864 ATATCTCAATGAGGTTTTTGGTTACA 57.122 30.769 10.71 0.00 0.00 2.41
2046 2048 6.385649 TCTCAATGAGGTTTTTGGTTACAC 57.614 37.500 10.71 0.00 0.00 2.90
2047 2049 5.008217 TCTCAATGAGGTTTTTGGTTACACG 59.992 40.000 10.71 0.00 0.00 4.49
2048 2050 4.882427 TCAATGAGGTTTTTGGTTACACGA 59.118 37.500 0.00 0.00 0.00 4.35
2049 2051 5.357314 TCAATGAGGTTTTTGGTTACACGAA 59.643 36.000 0.00 0.00 0.00 3.85
2050 2052 5.838531 ATGAGGTTTTTGGTTACACGAAA 57.161 34.783 0.00 0.00 0.00 3.46
2051 2053 4.984205 TGAGGTTTTTGGTTACACGAAAC 58.016 39.130 0.00 0.00 34.55 2.78
2052 2054 4.458295 TGAGGTTTTTGGTTACACGAAACA 59.542 37.500 0.00 0.00 35.87 2.83
2053 2055 5.125739 TGAGGTTTTTGGTTACACGAAACAT 59.874 36.000 0.00 2.76 33.72 2.71
2054 2056 5.584442 AGGTTTTTGGTTACACGAAACATC 58.416 37.500 0.00 0.00 33.72 3.06
2055 2057 5.125739 AGGTTTTTGGTTACACGAAACATCA 59.874 36.000 0.00 0.00 33.72 3.07
2056 2058 5.805994 GGTTTTTGGTTACACGAAACATCAA 59.194 36.000 0.00 0.00 33.72 2.57
2057 2059 6.477360 GGTTTTTGGTTACACGAAACATCAAT 59.523 34.615 0.00 0.00 33.72 2.57
2058 2060 7.648510 GGTTTTTGGTTACACGAAACATCAATA 59.351 33.333 0.00 0.00 33.72 1.90
2059 2061 9.187455 GTTTTTGGTTACACGAAACATCAATAT 57.813 29.630 0.00 0.00 33.72 1.28
2060 2062 9.751542 TTTTTGGTTACACGAAACATCAATATT 57.248 25.926 0.00 0.00 33.72 1.28
2061 2063 9.751542 TTTTGGTTACACGAAACATCAATATTT 57.248 25.926 0.00 0.00 33.72 1.40
2062 2064 8.735303 TTGGTTACACGAAACATCAATATTTG 57.265 30.769 0.00 0.00 33.72 2.32
2063 2065 8.100508 TGGTTACACGAAACATCAATATTTGA 57.899 30.769 0.00 0.00 45.01 2.69
2064 2066 8.568794 TGGTTACACGAAACATCAATATTTGAA 58.431 29.630 0.00 0.00 43.95 2.69
2065 2067 9.400638 GGTTACACGAAACATCAATATTTGAAA 57.599 29.630 0.00 0.00 43.95 2.69
2130 2132 9.918630 AGCATAATAGAATGGAATTTTACATGC 57.081 29.630 0.00 0.00 40.81 4.06
2131 2133 9.695526 GCATAATAGAATGGAATTTTACATGCA 57.304 29.630 0.00 0.00 40.54 3.96
2133 2135 9.897744 ATAATAGAATGGAATTTTACATGCACG 57.102 29.630 0.00 0.00 36.07 5.34
2134 2136 4.423732 AGAATGGAATTTTACATGCACGC 58.576 39.130 0.00 0.00 36.07 5.34
2135 2137 3.865011 ATGGAATTTTACATGCACGCA 57.135 38.095 0.00 0.00 28.40 5.24
2136 2138 3.865011 TGGAATTTTACATGCACGCAT 57.135 38.095 0.00 0.00 37.08 4.73
2137 2139 4.567558 AATGGAATTTTACATGCACGCATG 59.432 37.500 26.30 26.30 46.33 4.06
2138 2140 6.420030 AATGGAATTTTACATGCACGCATGG 61.420 40.000 29.85 15.61 45.68 3.66
2139 2141 8.517861 AATGGAATTTTACATGCACGCATGGA 62.518 38.462 29.85 22.60 45.68 3.41
2140 2142 9.725565 AATGGAATTTTACATGCACGCATGGAT 62.726 37.037 29.85 16.21 45.68 3.41
2153 2155 2.863401 CATGGATGCATGGTGAAGTG 57.137 50.000 18.76 0.00 0.00 3.16
2154 2156 1.407618 CATGGATGCATGGTGAAGTGG 59.592 52.381 18.76 0.00 0.00 4.00
2155 2157 0.697658 TGGATGCATGGTGAAGTGGA 59.302 50.000 2.46 0.00 0.00 4.02
2156 2158 1.285667 TGGATGCATGGTGAAGTGGAT 59.714 47.619 2.46 0.00 0.00 3.41
2157 2159 2.291735 TGGATGCATGGTGAAGTGGATT 60.292 45.455 2.46 0.00 0.00 3.01
2158 2160 2.762327 GGATGCATGGTGAAGTGGATTT 59.238 45.455 2.46 0.00 0.00 2.17
2159 2161 3.196254 GGATGCATGGTGAAGTGGATTTT 59.804 43.478 2.46 0.00 0.00 1.82
2160 2162 4.322953 GGATGCATGGTGAAGTGGATTTTT 60.323 41.667 2.46 0.00 0.00 1.94
2161 2163 5.105392 GGATGCATGGTGAAGTGGATTTTTA 60.105 40.000 2.46 0.00 0.00 1.52
2162 2164 5.798125 TGCATGGTGAAGTGGATTTTTAA 57.202 34.783 0.00 0.00 0.00 1.52
2163 2165 6.166984 TGCATGGTGAAGTGGATTTTTAAA 57.833 33.333 0.00 0.00 0.00 1.52
2164 2166 6.586344 TGCATGGTGAAGTGGATTTTTAAAA 58.414 32.000 0.00 0.00 0.00 1.52
2165 2167 7.222872 TGCATGGTGAAGTGGATTTTTAAAAT 58.777 30.769 2.23 2.23 0.00 1.82
2166 2168 7.172875 TGCATGGTGAAGTGGATTTTTAAAATG 59.827 33.333 7.72 0.00 0.00 2.32
2167 2169 7.520686 CATGGTGAAGTGGATTTTTAAAATGC 58.479 34.615 13.71 13.71 0.00 3.56
2168 2170 6.586344 TGGTGAAGTGGATTTTTAAAATGCA 58.414 32.000 18.19 18.19 0.00 3.96
2169 2171 7.222872 TGGTGAAGTGGATTTTTAAAATGCAT 58.777 30.769 23.23 11.65 30.87 3.96
2170 2172 8.370940 TGGTGAAGTGGATTTTTAAAATGCATA 58.629 29.630 23.23 10.81 30.87 3.14
2171 2173 8.872845 GGTGAAGTGGATTTTTAAAATGCATAG 58.127 33.333 23.23 0.00 30.87 2.23
2172 2174 9.423061 GTGAAGTGGATTTTTAAAATGCATAGT 57.577 29.630 23.23 13.68 30.87 2.12
2173 2175 9.995003 TGAAGTGGATTTTTAAAATGCATAGTT 57.005 25.926 23.23 17.45 30.87 2.24
2175 2177 9.777297 AAGTGGATTTTTAAAATGCATAGTTGT 57.223 25.926 23.23 6.91 30.87 3.32
2187 2189 6.942532 ATGCATAGTTGTATGTTAAGGTGG 57.057 37.500 0.00 0.00 38.71 4.61
2188 2190 5.189928 TGCATAGTTGTATGTTAAGGTGGG 58.810 41.667 0.00 0.00 38.71 4.61
2189 2191 4.036380 GCATAGTTGTATGTTAAGGTGGGC 59.964 45.833 0.00 0.00 38.71 5.36
2190 2192 3.081710 AGTTGTATGTTAAGGTGGGCC 57.918 47.619 0.00 0.00 0.00 5.80
2191 2193 5.631481 CATAGTTGTATGTTAAGGTGGGCCT 60.631 44.000 4.53 0.00 38.03 5.19
2192 2194 7.083653 CATAGTTGTATGTTAAGGTGGGCCTT 61.084 42.308 4.53 4.23 42.79 4.35
2193 2195 8.502217 CATAGTTGTATGTTAAGGTGGGCCTTT 61.502 40.741 4.53 0.00 40.39 3.11
2218 2220 8.929827 TTTTATGCATGTTGAATAATGAGGTG 57.070 30.769 10.16 0.00 28.54 4.00
2219 2221 7.643569 TTATGCATGTTGAATAATGAGGTGT 57.356 32.000 10.16 0.00 0.00 4.16
2220 2222 5.565592 TGCATGTTGAATAATGAGGTGTC 57.434 39.130 0.00 0.00 0.00 3.67
2221 2223 5.008980 TGCATGTTGAATAATGAGGTGTCA 58.991 37.500 0.00 0.00 37.02 3.58
2222 2224 5.653330 TGCATGTTGAATAATGAGGTGTCAT 59.347 36.000 0.00 0.00 46.01 3.06
2223 2225 5.975344 GCATGTTGAATAATGAGGTGTCATG 59.025 40.000 0.00 0.00 43.04 3.07
2224 2226 6.405065 GCATGTTGAATAATGAGGTGTCATGT 60.405 38.462 0.00 0.00 43.04 3.21
2225 2227 7.541162 CATGTTGAATAATGAGGTGTCATGTT 58.459 34.615 0.00 0.00 43.04 2.71
2226 2228 7.523293 TGTTGAATAATGAGGTGTCATGTTT 57.477 32.000 0.00 0.00 43.04 2.83
2227 2229 7.369607 TGTTGAATAATGAGGTGTCATGTTTG 58.630 34.615 0.00 0.00 43.04 2.93
2228 2230 5.953183 TGAATAATGAGGTGTCATGTTTGC 58.047 37.500 0.00 0.00 43.04 3.68
2229 2231 5.476254 TGAATAATGAGGTGTCATGTTTGCA 59.524 36.000 0.00 0.00 43.04 4.08
2230 2232 6.153170 TGAATAATGAGGTGTCATGTTTGCAT 59.847 34.615 0.00 0.00 43.04 3.96
2231 2233 7.338957 TGAATAATGAGGTGTCATGTTTGCATA 59.661 33.333 0.00 0.00 43.04 3.14
2232 2234 7.828508 ATAATGAGGTGTCATGTTTGCATAT 57.171 32.000 0.00 0.00 43.04 1.78
2233 2235 6.534475 AATGAGGTGTCATGTTTGCATATT 57.466 33.333 0.00 0.00 43.04 1.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
195 196 1.004745 ACCAGAGAATGTCCGCCAAAT 59.995 47.619 0.00 0.00 0.00 2.32
197 198 0.036388 GACCAGAGAATGTCCGCCAA 60.036 55.000 0.00 0.00 0.00 4.52
259 261 5.413309 AATCTCTCGAGGTCAGTGATTTT 57.587 39.130 13.56 0.00 32.62 1.82
260 262 5.174395 CAAATCTCTCGAGGTCAGTGATTT 58.826 41.667 13.56 14.43 41.47 2.17
354 356 2.581354 GTCTCATCGCAGGGCACT 59.419 61.111 0.00 0.00 0.00 4.40
684 686 1.811679 GGCCGAAGCAGCAGAGTAC 60.812 63.158 0.00 0.00 42.56 2.73
1244 1246 2.025898 GAGAAACCGGACAAAAACCCA 58.974 47.619 9.46 0.00 0.00 4.51
1379 1381 0.451383 TTCATGGCGCACATACAAGC 59.549 50.000 10.83 0.00 37.84 4.01
1381 1383 1.093972 CCTTCATGGCGCACATACAA 58.906 50.000 10.83 6.08 37.84 2.41
1388 1390 0.960364 GACCTTTCCTTCATGGCGCA 60.960 55.000 10.83 0.00 35.26 6.09
1435 1437 2.886523 TGTTCACCAGGCTTTGATTGAG 59.113 45.455 0.00 0.00 0.00 3.02
1441 1443 2.291741 GAGAACTGTTCACCAGGCTTTG 59.708 50.000 21.50 0.00 46.06 2.77
1482 1484 1.001048 TGCTCATTGTTCAGCTTGTGC 60.001 47.619 1.83 1.83 36.53 4.57
1502 1504 5.346522 GTCCATCGTAGGAGAAATTACGTT 58.653 41.667 0.00 0.00 38.64 3.99
1503 1505 4.202090 GGTCCATCGTAGGAGAAATTACGT 60.202 45.833 0.00 0.00 38.64 3.57
1506 1508 5.943349 TTGGTCCATCGTAGGAGAAATTA 57.057 39.130 0.00 0.00 38.64 1.40
1516 1518 2.403561 TGGATCCATTGGTCCATCGTA 58.596 47.619 11.44 1.84 39.51 3.43
1523 1525 5.250313 AGAAGGATAGATGGATCCATTGGTC 59.750 44.000 27.93 22.29 46.94 4.02
1527 1529 6.028131 TGCTAGAAGGATAGATGGATCCATT 58.972 40.000 27.93 18.85 46.94 3.16
1546 1548 3.878778 AGGCAACAAAGTCCTATGCTAG 58.121 45.455 0.00 0.00 37.20 3.42
1547 1549 4.261801 GAAGGCAACAAAGTCCTATGCTA 58.738 43.478 0.00 0.00 37.20 3.49
1550 1552 3.191371 GGTGAAGGCAACAAAGTCCTATG 59.809 47.826 0.00 0.00 41.41 2.23
1567 1569 3.849574 TGGTCAAGATAATCCTGGGTGAA 59.150 43.478 0.00 0.00 0.00 3.18
1570 1572 5.227593 AGTATGGTCAAGATAATCCTGGGT 58.772 41.667 0.00 0.00 0.00 4.51
1611 1613 2.158623 AGCATGGTTGAAGACAAGGACA 60.159 45.455 0.00 0.00 36.64 4.02
1630 1632 3.443045 CCGTGGCATGGGTTGAGC 61.443 66.667 18.36 0.00 0.00 4.26
1645 1647 1.137872 AGAGTAGATCAGCAAAGGCCG 59.862 52.381 0.00 0.00 42.56 6.13
1654 1656 7.391554 TGGAAATGGTTGAAAAGAGTAGATCAG 59.608 37.037 0.00 0.00 0.00 2.90
1677 1679 2.885113 CACTGCGAGTCCGATGGA 59.115 61.111 0.00 0.00 38.22 3.41
1707 1709 1.584724 AGGGATCAAGAACATCCGGT 58.415 50.000 0.00 0.00 40.91 5.28
1716 1718 0.744874 CGGCGAACTAGGGATCAAGA 59.255 55.000 0.00 0.00 0.00 3.02
1783 1785 5.045797 GGTAAGGACAGAGTAAATGGAGGTT 60.046 44.000 0.00 0.00 0.00 3.50
1784 1786 4.470304 GGTAAGGACAGAGTAAATGGAGGT 59.530 45.833 0.00 0.00 0.00 3.85
1809 1811 1.303561 TGCGGGCTTTCTTCTGCAT 60.304 52.632 0.00 0.00 39.97 3.96
1810 1812 2.112928 TGCGGGCTTTCTTCTGCA 59.887 55.556 0.00 0.00 42.26 4.41
1811 1813 1.138247 CATGCGGGCTTTCTTCTGC 59.862 57.895 0.00 0.00 35.93 4.26
1858 1860 4.526970 ACTAATGATGCTTAACACCCCAG 58.473 43.478 0.00 0.00 0.00 4.45
1873 1875 4.576053 CGAGGCCAATTCATCAACTAATGA 59.424 41.667 5.01 0.00 43.67 2.57
1896 1898 1.537638 TCTTCTCTAGATGATCGCGGC 59.462 52.381 6.13 0.00 0.00 6.53
1926 1928 8.475639 GGAAGATGTCAGGTTACTCTTAACATA 58.524 37.037 0.00 0.00 39.64 2.29
1927 1929 7.038302 TGGAAGATGTCAGGTTACTCTTAACAT 60.038 37.037 0.00 0.00 39.64 2.71
1928 1930 6.269077 TGGAAGATGTCAGGTTACTCTTAACA 59.731 38.462 0.00 0.00 39.64 2.41
1929 1931 6.698380 TGGAAGATGTCAGGTTACTCTTAAC 58.302 40.000 0.00 0.00 37.46 2.01
1930 1932 6.928348 TGGAAGATGTCAGGTTACTCTTAA 57.072 37.500 0.00 0.00 0.00 1.85
1931 1933 6.497259 AGTTGGAAGATGTCAGGTTACTCTTA 59.503 38.462 0.00 0.00 0.00 2.10
1932 1934 5.308237 AGTTGGAAGATGTCAGGTTACTCTT 59.692 40.000 0.00 0.00 0.00 2.85
1933 1935 4.841246 AGTTGGAAGATGTCAGGTTACTCT 59.159 41.667 0.00 0.00 0.00 3.24
1934 1936 5.153950 AGTTGGAAGATGTCAGGTTACTC 57.846 43.478 0.00 0.00 0.00 2.59
1935 1937 6.875972 ATAGTTGGAAGATGTCAGGTTACT 57.124 37.500 0.00 0.00 0.00 2.24
1936 1938 7.752695 CAAATAGTTGGAAGATGTCAGGTTAC 58.247 38.462 0.00 0.00 0.00 2.50
1937 1939 7.921786 CAAATAGTTGGAAGATGTCAGGTTA 57.078 36.000 0.00 0.00 0.00 2.85
1938 1940 6.824305 CAAATAGTTGGAAGATGTCAGGTT 57.176 37.500 0.00 0.00 0.00 3.50
1950 1952 8.280515 CTGTAATACAGCCACCAAATAGTTGGA 61.281 40.741 27.71 4.32 46.99 3.53
1952 1954 6.597672 TCTGTAATACAGCCACCAAATAGTTG 59.402 38.462 15.17 0.00 45.54 3.16
1953 1955 6.717289 TCTGTAATACAGCCACCAAATAGTT 58.283 36.000 15.17 0.00 45.54 2.24
1954 1956 6.308015 TCTGTAATACAGCCACCAAATAGT 57.692 37.500 15.17 0.00 45.54 2.12
1955 1957 7.336931 AGTTTCTGTAATACAGCCACCAAATAG 59.663 37.037 15.17 0.00 45.54 1.73
1956 1958 7.172342 AGTTTCTGTAATACAGCCACCAAATA 58.828 34.615 15.17 0.00 45.54 1.40
1957 1959 6.010219 AGTTTCTGTAATACAGCCACCAAAT 58.990 36.000 15.17 0.69 45.54 2.32
1958 1960 5.381757 AGTTTCTGTAATACAGCCACCAAA 58.618 37.500 15.17 7.66 45.54 3.28
1959 1961 4.980573 AGTTTCTGTAATACAGCCACCAA 58.019 39.130 15.17 1.81 45.54 3.67
1960 1962 4.634012 AGTTTCTGTAATACAGCCACCA 57.366 40.909 15.17 0.00 45.54 4.17
1961 1963 5.974108 TCTAGTTTCTGTAATACAGCCACC 58.026 41.667 15.17 3.84 45.54 4.61
1962 1964 7.265673 TCATCTAGTTTCTGTAATACAGCCAC 58.734 38.462 15.17 13.07 45.54 5.01
1963 1965 7.418337 TCATCTAGTTTCTGTAATACAGCCA 57.582 36.000 15.17 2.10 45.54 4.75
1964 1966 7.095439 GCATCATCTAGTTTCTGTAATACAGCC 60.095 40.741 15.17 6.09 45.54 4.85
1965 1967 7.095439 GGCATCATCTAGTTTCTGTAATACAGC 60.095 40.741 15.17 2.29 45.54 4.40
1967 1969 7.217200 GGGCATCATCTAGTTTCTGTAATACA 58.783 38.462 0.00 0.00 0.00 2.29
1968 1970 6.651225 GGGGCATCATCTAGTTTCTGTAATAC 59.349 42.308 0.00 0.00 0.00 1.89
1969 1971 6.518369 CGGGGCATCATCTAGTTTCTGTAATA 60.518 42.308 0.00 0.00 0.00 0.98
1970 1972 5.625150 GGGGCATCATCTAGTTTCTGTAAT 58.375 41.667 0.00 0.00 0.00 1.89
1971 1973 4.442893 CGGGGCATCATCTAGTTTCTGTAA 60.443 45.833 0.00 0.00 0.00 2.41
1972 1974 3.069586 CGGGGCATCATCTAGTTTCTGTA 59.930 47.826 0.00 0.00 0.00 2.74
1973 1975 2.158900 CGGGGCATCATCTAGTTTCTGT 60.159 50.000 0.00 0.00 0.00 3.41
1974 1976 2.487934 CGGGGCATCATCTAGTTTCTG 58.512 52.381 0.00 0.00 0.00 3.02
1975 1977 1.202698 GCGGGGCATCATCTAGTTTCT 60.203 52.381 0.00 0.00 0.00 2.52
1976 1978 1.230324 GCGGGGCATCATCTAGTTTC 58.770 55.000 0.00 0.00 0.00 2.78
1977 1979 0.546122 TGCGGGGCATCATCTAGTTT 59.454 50.000 0.00 0.00 31.71 2.66
1978 1980 0.179045 GTGCGGGGCATCATCTAGTT 60.179 55.000 0.00 0.00 41.91 2.24
1979 1981 1.447643 GTGCGGGGCATCATCTAGT 59.552 57.895 0.00 0.00 41.91 2.57
1980 1982 1.665916 CGTGCGGGGCATCATCTAG 60.666 63.158 0.00 0.00 41.91 2.43
1981 1983 1.966901 AACGTGCGGGGCATCATCTA 61.967 55.000 0.00 0.00 41.91 1.98
1982 1984 3.329542 AACGTGCGGGGCATCATCT 62.330 57.895 0.00 0.00 41.91 2.90
1983 1985 2.824041 AACGTGCGGGGCATCATC 60.824 61.111 0.00 0.00 41.91 2.92
1984 1986 3.133464 CAACGTGCGGGGCATCAT 61.133 61.111 0.00 0.00 41.91 2.45
1985 1987 4.634703 ACAACGTGCGGGGCATCA 62.635 61.111 0.00 0.00 41.91 3.07
1986 1988 3.361977 AACAACGTGCGGGGCATC 61.362 61.111 0.00 0.00 41.91 3.91
1987 1989 3.669344 CAACAACGTGCGGGGCAT 61.669 61.111 0.00 0.00 41.91 4.40
1994 1996 0.450184 ATATTCCCGCAACAACGTGC 59.550 50.000 0.00 0.00 41.32 5.34
1995 1997 2.911819 AATATTCCCGCAACAACGTG 57.088 45.000 0.00 0.00 0.00 4.49
1996 1998 3.570559 CAAAATATTCCCGCAACAACGT 58.429 40.909 0.00 0.00 0.00 3.99
1997 1999 2.344142 GCAAAATATTCCCGCAACAACG 59.656 45.455 0.00 0.00 0.00 4.10
1998 2000 3.321497 TGCAAAATATTCCCGCAACAAC 58.679 40.909 4.44 0.00 0.00 3.32
1999 2001 3.667497 TGCAAAATATTCCCGCAACAA 57.333 38.095 4.44 0.00 0.00 2.83
2000 2002 3.667497 TTGCAAAATATTCCCGCAACA 57.333 38.095 12.54 0.00 37.64 3.33
2001 2003 6.215845 AGATATTGCAAAATATTCCCGCAAC 58.784 36.000 16.70 8.41 44.57 4.17
2002 2004 6.040278 TGAGATATTGCAAAATATTCCCGCAA 59.960 34.615 16.70 16.70 45.70 4.85
2003 2005 5.534278 TGAGATATTGCAAAATATTCCCGCA 59.466 36.000 1.71 3.09 0.00 5.69
2004 2006 6.012658 TGAGATATTGCAAAATATTCCCGC 57.987 37.500 1.71 0.00 0.00 6.13
2005 2007 8.298854 TCATTGAGATATTGCAAAATATTCCCG 58.701 33.333 1.71 0.00 0.00 5.14
2006 2008 9.635520 CTCATTGAGATATTGCAAAATATTCCC 57.364 33.333 8.00 0.00 0.00 3.97
2007 2009 9.635520 CCTCATTGAGATATTGCAAAATATTCC 57.364 33.333 15.36 0.00 0.00 3.01
2012 2014 9.729281 AAAAACCTCATTGAGATATTGCAAAAT 57.271 25.926 15.36 0.00 0.00 1.82
2013 2015 8.991026 CAAAAACCTCATTGAGATATTGCAAAA 58.009 29.630 15.36 0.00 0.00 2.44
2014 2016 7.603404 CCAAAAACCTCATTGAGATATTGCAAA 59.397 33.333 15.36 0.00 0.00 3.68
2015 2017 7.098477 CCAAAAACCTCATTGAGATATTGCAA 58.902 34.615 15.36 0.00 0.00 4.08
2016 2018 6.211184 ACCAAAAACCTCATTGAGATATTGCA 59.789 34.615 15.36 0.00 0.00 4.08
2017 2019 6.633856 ACCAAAAACCTCATTGAGATATTGC 58.366 36.000 15.36 0.00 0.00 3.56
2018 2020 9.573133 GTAACCAAAAACCTCATTGAGATATTG 57.427 33.333 15.36 12.82 0.00 1.90
2019 2021 9.308000 TGTAACCAAAAACCTCATTGAGATATT 57.692 29.630 15.36 3.93 0.00 1.28
2020 2022 8.739972 GTGTAACCAAAAACCTCATTGAGATAT 58.260 33.333 15.36 0.00 0.00 1.63
2021 2023 7.094975 CGTGTAACCAAAAACCTCATTGAGATA 60.095 37.037 15.36 0.00 0.00 1.98
2022 2024 6.293955 CGTGTAACCAAAAACCTCATTGAGAT 60.294 38.462 15.36 0.00 0.00 2.75
2023 2025 5.008217 CGTGTAACCAAAAACCTCATTGAGA 59.992 40.000 15.36 0.00 0.00 3.27
2024 2026 5.008217 TCGTGTAACCAAAAACCTCATTGAG 59.992 40.000 6.70 6.70 0.00 3.02
2025 2027 4.882427 TCGTGTAACCAAAAACCTCATTGA 59.118 37.500 0.00 0.00 0.00 2.57
2026 2028 5.176407 TCGTGTAACCAAAAACCTCATTG 57.824 39.130 0.00 0.00 0.00 2.82
2027 2029 5.838531 TTCGTGTAACCAAAAACCTCATT 57.161 34.783 0.00 0.00 0.00 2.57
2028 2030 5.125739 TGTTTCGTGTAACCAAAAACCTCAT 59.874 36.000 0.00 0.00 31.93 2.90
2029 2031 4.458295 TGTTTCGTGTAACCAAAAACCTCA 59.542 37.500 0.00 0.00 31.93 3.86
2030 2032 4.984205 TGTTTCGTGTAACCAAAAACCTC 58.016 39.130 0.00 0.00 31.93 3.85
2031 2033 5.125739 TGATGTTTCGTGTAACCAAAAACCT 59.874 36.000 0.00 0.00 31.93 3.50
2032 2034 5.341617 TGATGTTTCGTGTAACCAAAAACC 58.658 37.500 0.00 0.00 31.93 3.27
2033 2035 6.872670 TTGATGTTTCGTGTAACCAAAAAC 57.127 33.333 0.00 0.00 32.83 2.43
2034 2036 9.751542 AATATTGATGTTTCGTGTAACCAAAAA 57.248 25.926 0.00 0.00 0.00 1.94
2035 2037 9.751542 AAATATTGATGTTTCGTGTAACCAAAA 57.248 25.926 0.00 0.00 0.00 2.44
2036 2038 9.186323 CAAATATTGATGTTTCGTGTAACCAAA 57.814 29.630 0.00 0.00 0.00 3.28
2037 2039 8.568794 TCAAATATTGATGTTTCGTGTAACCAA 58.431 29.630 0.00 0.00 34.08 3.67
2038 2040 8.100508 TCAAATATTGATGTTTCGTGTAACCA 57.899 30.769 0.00 0.00 34.08 3.67
2039 2041 8.958175 TTCAAATATTGATGTTTCGTGTAACC 57.042 30.769 0.00 0.00 39.84 2.85
2104 2106 9.918630 GCATGTAAAATTCCATTCTATTATGCT 57.081 29.630 0.00 0.00 33.79 3.79
2105 2107 9.695526 TGCATGTAAAATTCCATTCTATTATGC 57.304 29.630 0.00 0.00 36.25 3.14
2107 2109 9.897744 CGTGCATGTAAAATTCCATTCTATTAT 57.102 29.630 0.00 0.00 0.00 1.28
2108 2110 7.860373 GCGTGCATGTAAAATTCCATTCTATTA 59.140 33.333 7.93 0.00 0.00 0.98
2109 2111 6.697019 GCGTGCATGTAAAATTCCATTCTATT 59.303 34.615 7.93 0.00 0.00 1.73
2110 2112 6.183360 TGCGTGCATGTAAAATTCCATTCTAT 60.183 34.615 7.93 0.00 0.00 1.98
2111 2113 5.124617 TGCGTGCATGTAAAATTCCATTCTA 59.875 36.000 7.93 0.00 0.00 2.10
2112 2114 4.082300 TGCGTGCATGTAAAATTCCATTCT 60.082 37.500 7.93 0.00 0.00 2.40
2113 2115 4.172505 TGCGTGCATGTAAAATTCCATTC 58.827 39.130 7.93 0.00 0.00 2.67
2114 2116 4.185467 TGCGTGCATGTAAAATTCCATT 57.815 36.364 7.93 0.00 0.00 3.16
2115 2117 3.865011 TGCGTGCATGTAAAATTCCAT 57.135 38.095 7.93 0.00 0.00 3.41
2116 2118 3.509740 CATGCGTGCATGTAAAATTCCA 58.490 40.909 23.27 0.00 46.20 3.53
2134 2136 1.407618 CCACTTCACCATGCATCCATG 59.592 52.381 0.00 0.00 46.70 3.66
2135 2137 1.285667 TCCACTTCACCATGCATCCAT 59.714 47.619 0.00 0.00 0.00 3.41
2136 2138 0.697658 TCCACTTCACCATGCATCCA 59.302 50.000 0.00 0.00 0.00 3.41
2137 2139 2.062971 ATCCACTTCACCATGCATCC 57.937 50.000 0.00 0.00 0.00 3.51
2138 2140 4.460948 AAAATCCACTTCACCATGCATC 57.539 40.909 0.00 0.00 0.00 3.91
2139 2141 4.895668 AAAAATCCACTTCACCATGCAT 57.104 36.364 0.00 0.00 0.00 3.96
2140 2142 5.798125 TTAAAAATCCACTTCACCATGCA 57.202 34.783 0.00 0.00 0.00 3.96
2141 2143 7.520686 CATTTTAAAAATCCACTTCACCATGC 58.479 34.615 4.44 0.00 0.00 4.06
2142 2144 7.172875 TGCATTTTAAAAATCCACTTCACCATG 59.827 33.333 4.44 0.00 0.00 3.66
2143 2145 7.222872 TGCATTTTAAAAATCCACTTCACCAT 58.777 30.769 4.44 0.00 0.00 3.55
2144 2146 6.586344 TGCATTTTAAAAATCCACTTCACCA 58.414 32.000 4.44 0.00 0.00 4.17
2145 2147 7.671495 ATGCATTTTAAAAATCCACTTCACC 57.329 32.000 4.44 0.00 0.00 4.02
2146 2148 9.423061 ACTATGCATTTTAAAAATCCACTTCAC 57.577 29.630 3.54 0.00 0.00 3.18
2147 2149 9.995003 AACTATGCATTTTAAAAATCCACTTCA 57.005 25.926 3.54 0.00 0.00 3.02
2149 2151 9.777297 ACAACTATGCATTTTAAAAATCCACTT 57.223 25.926 3.54 0.00 0.00 3.16
2161 2163 8.250332 CCACCTTAACATACAACTATGCATTTT 58.750 33.333 3.54 0.00 34.08 1.82
2162 2164 7.147915 CCCACCTTAACATACAACTATGCATTT 60.148 37.037 3.54 0.00 34.08 2.32
2163 2165 6.321181 CCCACCTTAACATACAACTATGCATT 59.679 38.462 3.54 0.00 34.08 3.56
2164 2166 5.827797 CCCACCTTAACATACAACTATGCAT 59.172 40.000 3.79 3.79 34.08 3.96
2165 2167 5.189928 CCCACCTTAACATACAACTATGCA 58.810 41.667 0.00 0.00 34.08 3.96
2166 2168 4.036380 GCCCACCTTAACATACAACTATGC 59.964 45.833 0.00 0.00 34.08 3.14
2167 2169 4.578928 GGCCCACCTTAACATACAACTATG 59.421 45.833 0.00 0.00 36.54 2.23
2168 2170 4.788679 GGCCCACCTTAACATACAACTAT 58.211 43.478 0.00 0.00 0.00 2.12
2169 2171 4.224991 GGCCCACCTTAACATACAACTA 57.775 45.455 0.00 0.00 0.00 2.24
2170 2172 3.081710 GGCCCACCTTAACATACAACT 57.918 47.619 0.00 0.00 0.00 3.16
2192 2194 9.368674 CACCTCATTATTCAACATGCATAAAAA 57.631 29.630 0.00 0.00 0.00 1.94
2193 2195 8.530311 ACACCTCATTATTCAACATGCATAAAA 58.470 29.630 0.00 0.00 0.00 1.52
2194 2196 8.065473 ACACCTCATTATTCAACATGCATAAA 57.935 30.769 0.00 0.00 0.00 1.40
2195 2197 7.338957 TGACACCTCATTATTCAACATGCATAA 59.661 33.333 0.00 0.00 0.00 1.90
2196 2198 6.827762 TGACACCTCATTATTCAACATGCATA 59.172 34.615 0.00 0.00 0.00 3.14
2197 2199 5.653330 TGACACCTCATTATTCAACATGCAT 59.347 36.000 0.00 0.00 0.00 3.96
2198 2200 5.008980 TGACACCTCATTATTCAACATGCA 58.991 37.500 0.00 0.00 0.00 3.96
2199 2201 5.565592 TGACACCTCATTATTCAACATGC 57.434 39.130 0.00 0.00 0.00 4.06
2200 2202 7.092137 ACATGACACCTCATTATTCAACATG 57.908 36.000 0.00 0.00 34.65 3.21
2201 2203 7.707624 AACATGACACCTCATTATTCAACAT 57.292 32.000 0.00 0.00 34.65 2.71
2202 2204 7.369607 CAAACATGACACCTCATTATTCAACA 58.630 34.615 0.00 0.00 34.65 3.33
2203 2205 6.308766 GCAAACATGACACCTCATTATTCAAC 59.691 38.462 0.00 0.00 34.65 3.18
2204 2206 6.015603 TGCAAACATGACACCTCATTATTCAA 60.016 34.615 0.00 0.00 34.65 2.69
2205 2207 5.476254 TGCAAACATGACACCTCATTATTCA 59.524 36.000 0.00 0.00 34.65 2.57
2206 2208 5.953183 TGCAAACATGACACCTCATTATTC 58.047 37.500 0.00 0.00 34.65 1.75
2207 2209 5.981088 TGCAAACATGACACCTCATTATT 57.019 34.783 0.00 0.00 34.65 1.40
2208 2210 7.828508 ATATGCAAACATGACACCTCATTAT 57.171 32.000 0.00 0.00 34.65 1.28
2209 2211 7.643569 AATATGCAAACATGACACCTCATTA 57.356 32.000 0.00 0.00 34.65 1.90
2210 2212 6.534475 AATATGCAAACATGACACCTCATT 57.466 33.333 0.00 0.00 34.65 2.57


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

AutoCloner maintained by Alex Coulton.