Multiple sequence alignment - TraesCS5D01G068000

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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 TraesCS5D01G068000 chr5D 100.000 2507 0 0 1 2507 64133285 64135791 0.000000e+00 4630.0
1 TraesCS5D01G068000 chr5D 90.665 632 46 9 871 1494 64144641 64144015 0.000000e+00 828.0
2 TraesCS5D01G068000 chr5B 92.435 1388 41 30 521 1865 66054053 66052687 0.000000e+00 1923.0
3 TraesCS5D01G068000 chr5B 91.111 630 34 12 871 1494 66036756 66037369 0.000000e+00 833.0
4 TraesCS5D01G068000 chr5B 94.292 473 14 4 1 469 66054619 66054156 0.000000e+00 712.0
5 TraesCS5D01G068000 chr5B 97.368 228 6 0 2045 2272 66052603 66052376 3.020000e-104 388.0
6 TraesCS5D01G068000 chr5B 90.196 102 3 2 1910 2011 66052700 66052606 2.620000e-25 126.0
7 TraesCS5D01G068000 chr5A 92.397 1210 40 22 609 1798 54463664 54464841 0.000000e+00 1677.0
8 TraesCS5D01G068000 chr5A 90.837 633 42 12 871 1494 54482451 54481826 0.000000e+00 833.0
9 TraesCS5D01G068000 chr5A 88.748 551 28 21 30 561 54463124 54463659 0.000000e+00 643.0
10 TraesCS5D01G068000 chr5A 97.727 44 1 0 1862 1905 689186387 689186344 2.670000e-10 76.8
11 TraesCS5D01G068000 chr5A 90.196 51 3 2 1857 1906 608452518 608452469 5.790000e-07 65.8
12 TraesCS5D01G068000 chr1B 92.021 188 14 1 2318 2505 646858596 646858410 1.910000e-66 263.0
13 TraesCS5D01G068000 chr2D 82.587 201 35 0 1268 1468 49877508 49877708 7.130000e-41 178.0
14 TraesCS5D01G068000 chr2A 82.266 203 36 0 1266 1468 51583709 51583911 2.560000e-40 176.0
15 TraesCS5D01G068000 chr7A 100.000 44 0 0 1865 1908 497113355 497113398 5.750000e-12 82.4
16 TraesCS5D01G068000 chr4D 97.826 46 1 0 1863 1908 483471870 483471915 2.070000e-11 80.5
17 TraesCS5D01G068000 chr4D 95.238 42 2 0 1865 1906 64613250 64613209 1.610000e-07 67.6
18 TraesCS5D01G068000 chr1A 97.674 43 1 0 1864 1906 35140847 35140805 9.620000e-10 75.0
19 TraesCS5D01G068000 chr1A 93.333 45 3 0 1862 1906 94503048 94503092 1.610000e-07 67.6
20 TraesCS5D01G068000 chr6B 97.619 42 1 0 1865 1906 119134063 119134022 3.460000e-09 73.1
21 TraesCS5D01G068000 chr6A 97.619 42 1 0 1865 1906 572312713 572312672 3.460000e-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 TraesCS5D01G068000 chr5D 64133285 64135791 2506 False 4630.00 4630 100.00000 1 2507 1 chr5D.!!$F1 2506
1 TraesCS5D01G068000 chr5D 64144015 64144641 626 True 828.00 828 90.66500 871 1494 1 chr5D.!!$R1 623
2 TraesCS5D01G068000 chr5B 66036756 66037369 613 False 833.00 833 91.11100 871 1494 1 chr5B.!!$F1 623
3 TraesCS5D01G068000 chr5B 66052376 66054619 2243 True 787.25 1923 93.57275 1 2272 4 chr5B.!!$R1 2271
4 TraesCS5D01G068000 chr5A 54463124 54464841 1717 False 1160.00 1677 90.57250 30 1798 2 chr5A.!!$F1 1768
5 TraesCS5D01G068000 chr5A 54481826 54482451 625 True 833.00 833 90.83700 871 1494 1 chr5A.!!$R1 623

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
977 1075 0.461548 TCCATCGTCATCTCTGTGCC 59.538 55.0 0.0 0.0 0.0 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2373 2494 0.031585 GTGGGCCCGACAAAGAAAAC 59.968 55.0 19.37 0.76 0.0 2.43 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
45 46 3.060272 CGCAGCACTACAATTCTATTCCG 60.060 47.826 0.00 0.00 0.00 4.30
71 72 1.298014 CCCAGACAGGCCTCAGAAC 59.702 63.158 0.00 0.00 35.39 3.01
77 81 4.521146 CAGACAGGCCTCAGAACAATATT 58.479 43.478 0.00 0.00 0.00 1.28
117 121 6.017934 ACCGATACAATATGCATGTGAACTTC 60.018 38.462 10.16 4.51 32.27 3.01
255 261 1.531365 TTTGGGCCAGAAGTGCAGG 60.531 57.895 6.23 0.00 0.00 4.85
470 480 4.384208 GCCACCAGTTTACTACTCCATCAT 60.384 45.833 0.00 0.00 33.85 2.45
471 481 5.163343 GCCACCAGTTTACTACTCCATCATA 60.163 44.000 0.00 0.00 33.85 2.15
482 492 9.516546 TTACTACTCCATCATATTAGATCACGT 57.483 33.333 0.00 0.00 0.00 4.49
487 497 8.735315 ACTCCATCATATTAGATCACGTCTTAG 58.265 37.037 0.00 0.00 38.42 2.18
488 498 7.539436 TCCATCATATTAGATCACGTCTTAGC 58.461 38.462 0.00 0.00 38.42 3.09
489 499 7.176690 TCCATCATATTAGATCACGTCTTAGCA 59.823 37.037 0.00 0.00 38.42 3.49
490 500 7.814587 CCATCATATTAGATCACGTCTTAGCAA 59.185 37.037 0.00 0.00 38.42 3.91
494 504 2.263077 AGATCACGTCTTAGCAAAGCG 58.737 47.619 0.00 0.00 37.86 4.68
509 553 4.034048 AGCAAAGCGACCGTATAGAAAATG 59.966 41.667 0.00 0.00 0.00 2.32
511 555 5.490213 CAAAGCGACCGTATAGAAAATGTC 58.510 41.667 0.00 0.00 0.00 3.06
516 560 5.501897 GCGACCGTATAGAAAATGTCCAAAG 60.502 44.000 0.00 0.00 0.00 2.77
517 561 5.579511 CGACCGTATAGAAAATGTCCAAAGT 59.420 40.000 0.00 0.00 0.00 2.66
518 562 6.091713 CGACCGTATAGAAAATGTCCAAAGTT 59.908 38.462 0.00 0.00 0.00 2.66
555 619 7.156876 AGGAGTATTCGATTCAAATTGCAAA 57.843 32.000 1.71 0.00 0.00 3.68
561 625 9.464248 GTATTCGATTCAAATTGCAAACATTTC 57.536 29.630 1.71 0.00 0.00 2.17
562 626 6.138449 TCGATTCAAATTGCAAACATTTCG 57.862 33.333 1.71 8.79 0.00 3.46
566 630 7.057118 CGATTCAAATTGCAAACATTTCGTTTC 59.943 33.333 1.71 0.00 44.78 2.78
604 668 1.467883 CGTTTCCCGTACGTGCAGATA 60.468 52.381 15.21 0.00 34.47 1.98
605 669 2.797087 CGTTTCCCGTACGTGCAGATAT 60.797 50.000 15.21 0.00 34.47 1.63
656 727 8.909923 TCTTCCTCCTTTTTAAAACTGTTTAGG 58.090 33.333 6.16 9.17 30.92 2.69
915 1000 3.019564 CAATCCTCTGAACCCATCCAAC 58.980 50.000 0.00 0.00 0.00 3.77
924 1009 4.513442 TGAACCCATCCAACTTAATCTCG 58.487 43.478 0.00 0.00 0.00 4.04
933 1019 4.876107 TCCAACTTAATCTCGCCTTCATTC 59.124 41.667 0.00 0.00 0.00 2.67
977 1075 0.461548 TCCATCGTCATCTCTGTGCC 59.538 55.000 0.00 0.00 0.00 5.01
978 1076 0.531532 CCATCGTCATCTCTGTGCCC 60.532 60.000 0.00 0.00 0.00 5.36
1522 1631 3.862642 GCATTGAGAGTTTGTCCGAGACT 60.863 47.826 5.77 0.00 33.15 3.24
1527 1642 3.757493 GAGAGTTTGTCCGAGACTAGGAA 59.243 47.826 5.81 0.00 39.84 3.36
1531 1646 6.608002 AGAGTTTGTCCGAGACTAGGAAATAT 59.392 38.462 5.81 0.00 39.84 1.28
1557 1672 1.214589 CCGTCCGTCGTCCATTTCT 59.785 57.895 0.00 0.00 37.94 2.52
1691 1808 9.959721 ACTGTTATTGGAAAAGCTAGAGATTAA 57.040 29.630 0.00 0.00 0.00 1.40
1855 1976 4.517285 ACCACGGTACTTATCGAACTCTA 58.483 43.478 0.00 0.00 33.26 2.43
1856 1977 4.943705 ACCACGGTACTTATCGAACTCTAA 59.056 41.667 0.00 0.00 33.26 2.10
1857 1978 5.163713 ACCACGGTACTTATCGAACTCTAAC 60.164 44.000 0.00 0.00 33.26 2.34
1858 1979 5.269313 CACGGTACTTATCGAACTCTAACC 58.731 45.833 0.00 0.00 33.26 2.85
1859 1980 5.065731 CACGGTACTTATCGAACTCTAACCT 59.934 44.000 0.00 0.00 33.26 3.50
1860 1981 5.295540 ACGGTACTTATCGAACTCTAACCTC 59.704 44.000 0.00 0.00 33.26 3.85
1861 1982 5.526846 CGGTACTTATCGAACTCTAACCTCT 59.473 44.000 0.00 0.00 29.66 3.69
1862 1983 6.511444 CGGTACTTATCGAACTCTAACCTCTG 60.511 46.154 0.00 0.00 29.66 3.35
1863 1984 6.318396 GGTACTTATCGAACTCTAACCTCTGT 59.682 42.308 0.00 0.00 0.00 3.41
1864 1985 7.497249 GGTACTTATCGAACTCTAACCTCTGTA 59.503 40.741 0.00 0.00 0.00 2.74
1865 1986 7.319142 ACTTATCGAACTCTAACCTCTGTAC 57.681 40.000 0.00 0.00 0.00 2.90
1866 1987 6.318396 ACTTATCGAACTCTAACCTCTGTACC 59.682 42.308 0.00 0.00 0.00 3.34
1867 1988 4.025040 TCGAACTCTAACCTCTGTACCA 57.975 45.455 0.00 0.00 0.00 3.25
1868 1989 3.755378 TCGAACTCTAACCTCTGTACCAC 59.245 47.826 0.00 0.00 0.00 4.16
1869 1990 3.504906 CGAACTCTAACCTCTGTACCACA 59.495 47.826 0.00 0.00 0.00 4.17
1870 1991 4.158025 CGAACTCTAACCTCTGTACCACAT 59.842 45.833 0.00 0.00 0.00 3.21
1871 1992 5.407407 AACTCTAACCTCTGTACCACATG 57.593 43.478 0.00 0.00 0.00 3.21
1872 1993 4.673968 ACTCTAACCTCTGTACCACATGA 58.326 43.478 0.00 0.00 0.00 3.07
1873 1994 4.463186 ACTCTAACCTCTGTACCACATGAC 59.537 45.833 0.00 0.00 0.00 3.06
1874 1995 4.412843 TCTAACCTCTGTACCACATGACA 58.587 43.478 0.00 0.00 0.00 3.58
1875 1996 5.023452 TCTAACCTCTGTACCACATGACAT 58.977 41.667 0.00 0.00 0.00 3.06
1876 1997 6.192044 TCTAACCTCTGTACCACATGACATA 58.808 40.000 0.00 0.00 0.00 2.29
1877 1998 5.957771 AACCTCTGTACCACATGACATAT 57.042 39.130 0.00 0.00 0.00 1.78
1878 1999 5.282055 ACCTCTGTACCACATGACATATG 57.718 43.478 0.00 0.00 0.00 1.78
1879 2000 4.716784 ACCTCTGTACCACATGACATATGT 59.283 41.667 8.43 8.43 0.00 2.29
1880 2001 5.052481 CCTCTGTACCACATGACATATGTG 58.948 45.833 14.43 11.92 46.49 3.21
1888 2009 5.816449 CACATGACATATGTGGTAAGCAA 57.184 39.130 14.43 0.00 44.04 3.91
1889 2010 6.381481 CACATGACATATGTGGTAAGCAAT 57.619 37.500 14.43 0.00 44.04 3.56
1890 2011 6.798482 CACATGACATATGTGGTAAGCAATT 58.202 36.000 14.43 0.00 44.04 2.32
1891 2012 6.914215 CACATGACATATGTGGTAAGCAATTC 59.086 38.462 14.43 0.00 44.04 2.17
1892 2013 6.602803 ACATGACATATGTGGTAAGCAATTCA 59.397 34.615 14.43 0.32 0.00 2.57
1893 2014 7.122501 ACATGACATATGTGGTAAGCAATTCAA 59.877 33.333 14.43 0.00 0.00 2.69
1894 2015 7.459795 TGACATATGTGGTAAGCAATTCAAA 57.540 32.000 14.43 0.00 0.00 2.69
1895 2016 7.312154 TGACATATGTGGTAAGCAATTCAAAC 58.688 34.615 14.43 0.00 0.00 2.93
1896 2017 6.630071 ACATATGTGGTAAGCAATTCAAACC 58.370 36.000 7.78 0.00 0.00 3.27
1897 2018 6.210385 ACATATGTGGTAAGCAATTCAAACCA 59.790 34.615 7.78 0.00 37.88 3.67
1898 2019 5.543507 ATGTGGTAAGCAATTCAAACCAA 57.456 34.783 0.00 0.00 41.65 3.67
1899 2020 5.543507 TGTGGTAAGCAATTCAAACCAAT 57.456 34.783 0.00 0.00 41.65 3.16
1900 2021 5.537188 TGTGGTAAGCAATTCAAACCAATC 58.463 37.500 0.00 0.00 41.65 2.67
1901 2022 4.929211 GTGGTAAGCAATTCAAACCAATCC 59.071 41.667 0.00 0.00 41.65 3.01
1902 2023 4.590647 TGGTAAGCAATTCAAACCAATCCA 59.409 37.500 0.00 0.00 37.29 3.41
1903 2024 5.070981 TGGTAAGCAATTCAAACCAATCCAA 59.929 36.000 0.00 0.00 37.29 3.53
1904 2025 5.994668 GGTAAGCAATTCAAACCAATCCAAA 59.005 36.000 0.00 0.00 0.00 3.28
1905 2026 6.484977 GGTAAGCAATTCAAACCAATCCAAAA 59.515 34.615 0.00 0.00 0.00 2.44
1906 2027 6.622833 AAGCAATTCAAACCAATCCAAAAG 57.377 33.333 0.00 0.00 0.00 2.27
1907 2028 5.927819 AGCAATTCAAACCAATCCAAAAGA 58.072 33.333 0.00 0.00 0.00 2.52
1908 2029 5.993441 AGCAATTCAAACCAATCCAAAAGAG 59.007 36.000 0.00 0.00 0.00 2.85
1909 2030 5.334337 GCAATTCAAACCAATCCAAAAGAGC 60.334 40.000 0.00 0.00 0.00 4.09
1910 2031 5.813513 ATTCAAACCAATCCAAAAGAGCT 57.186 34.783 0.00 0.00 0.00 4.09
1911 2032 4.853924 TCAAACCAATCCAAAAGAGCTC 57.146 40.909 5.27 5.27 0.00 4.09
1912 2033 4.473444 TCAAACCAATCCAAAAGAGCTCT 58.527 39.130 11.45 11.45 0.00 4.09
1957 2078 4.256180 GCGGATACAGGCCCCAGG 62.256 72.222 0.00 0.00 0.00 4.45
1977 2098 3.997064 CTCGAGCGTGAGGCCCAAG 62.997 68.421 0.00 0.33 45.17 3.61
2003 2124 1.073603 TGGTGTGACTGAATGCATCCA 59.926 47.619 0.00 0.00 0.00 3.41
2027 2148 2.843701 CAGCTCTGCCCGAATTATTCT 58.156 47.619 3.34 0.00 0.00 2.40
2028 2149 3.209410 CAGCTCTGCCCGAATTATTCTT 58.791 45.455 3.34 0.00 0.00 2.52
2029 2150 3.003068 CAGCTCTGCCCGAATTATTCTTG 59.997 47.826 3.34 0.00 0.00 3.02
2030 2151 2.291741 GCTCTGCCCGAATTATTCTTGG 59.708 50.000 3.34 4.95 0.00 3.61
2031 2152 2.880890 CTCTGCCCGAATTATTCTTGGG 59.119 50.000 11.90 11.90 43.02 4.12
2032 2153 1.956477 CTGCCCGAATTATTCTTGGGG 59.044 52.381 16.17 13.54 44.61 4.96
2034 2155 2.364972 CCCGAATTATTCTTGGGGCT 57.635 50.000 9.26 0.00 37.35 5.19
2035 2156 1.956477 CCCGAATTATTCTTGGGGCTG 59.044 52.381 9.26 0.00 37.35 4.85
2036 2157 2.422803 CCCGAATTATTCTTGGGGCTGA 60.423 50.000 9.26 0.00 37.35 4.26
2037 2158 3.287222 CCGAATTATTCTTGGGGCTGAA 58.713 45.455 3.34 0.00 0.00 3.02
2038 2159 3.699038 CCGAATTATTCTTGGGGCTGAAA 59.301 43.478 3.34 0.00 0.00 2.69
2039 2160 4.202050 CCGAATTATTCTTGGGGCTGAAAG 60.202 45.833 3.34 0.00 0.00 2.62
2040 2161 4.640201 CGAATTATTCTTGGGGCTGAAAGA 59.360 41.667 3.34 0.00 34.07 2.52
2041 2162 5.300286 CGAATTATTCTTGGGGCTGAAAGAT 59.700 40.000 3.34 0.00 34.07 2.40
2042 2163 6.183360 CGAATTATTCTTGGGGCTGAAAGATT 60.183 38.462 3.34 0.00 34.07 2.40
2043 2164 5.920193 TTATTCTTGGGGCTGAAAGATTG 57.080 39.130 0.00 0.00 34.07 2.67
2065 2186 3.595709 TGTCTTTTTACGCCTCGTTTG 57.404 42.857 0.00 0.00 41.54 2.93
2173 2294 3.188460 ACGTGTCATGTGGAAATGTAAGC 59.812 43.478 0.00 0.00 30.90 3.09
2177 2298 4.771577 TGTCATGTGGAAATGTAAGCCATT 59.228 37.500 0.00 0.00 45.81 3.16
2217 2338 5.563280 CGTTGTTTAGTATTTGAACCCCACC 60.563 44.000 0.00 0.00 0.00 4.61
2234 2355 4.343814 CCCCACCTCATGTTTTTGTTTACT 59.656 41.667 0.00 0.00 0.00 2.24
2241 2362 7.228706 ACCTCATGTTTTTGTTTACTAGGACAG 59.771 37.037 0.00 0.00 0.00 3.51
2272 2393 7.271868 CGTGCAATGCAACAGGATATAAATATG 59.728 37.037 10.44 0.00 41.47 1.78
2273 2394 7.543172 GTGCAATGCAACAGGATATAAATATGG 59.457 37.037 10.44 0.00 41.47 2.74
2274 2395 7.233144 TGCAATGCAACAGGATATAAATATGGT 59.767 33.333 5.01 0.00 34.76 3.55
2275 2396 8.739039 GCAATGCAACAGGATATAAATATGGTA 58.261 33.333 0.00 0.00 0.00 3.25
2279 2400 8.779303 TGCAACAGGATATAAATATGGTAAACG 58.221 33.333 0.00 0.00 0.00 3.60
2280 2401 8.780249 GCAACAGGATATAAATATGGTAAACGT 58.220 33.333 0.00 0.00 0.00 3.99
2285 2406 8.789762 AGGATATAAATATGGTAAACGTTTGGC 58.210 33.333 23.46 15.00 0.00 4.52
2286 2407 8.569641 GGATATAAATATGGTAAACGTTTGGCA 58.430 33.333 23.46 0.24 0.00 4.92
2287 2408 9.953697 GATATAAATATGGTAAACGTTTGGCAA 57.046 29.630 23.46 10.05 0.00 4.52
2290 2411 9.959749 ATAAATATGGTAAACGTTTGGCAATAG 57.040 29.630 23.46 0.34 0.00 1.73
2291 2412 7.399245 AATATGGTAAACGTTTGGCAATAGT 57.601 32.000 23.46 14.30 0.00 2.12
2292 2413 4.491234 TGGTAAACGTTTGGCAATAGTG 57.509 40.909 23.46 0.00 0.00 2.74
2302 2423 3.630148 CAATAGTGCGCGGCCGAG 61.630 66.667 33.48 29.38 36.29 4.63
2303 2424 4.143333 AATAGTGCGCGGCCGAGT 62.143 61.111 33.48 14.19 36.29 4.18
2304 2425 3.659089 AATAGTGCGCGGCCGAGTT 62.659 57.895 33.48 18.01 36.29 3.01
2305 2426 3.659089 ATAGTGCGCGGCCGAGTTT 62.659 57.895 33.48 17.64 36.29 2.66
2350 2471 3.136123 CGGGTCCTTGCTGGCATG 61.136 66.667 0.00 0.00 35.26 4.06
2351 2472 2.036256 GGGTCCTTGCTGGCATGT 59.964 61.111 0.00 0.00 35.26 3.21
2352 2473 2.345760 GGGTCCTTGCTGGCATGTG 61.346 63.158 0.00 0.00 35.26 3.21
2353 2474 2.570181 GTCCTTGCTGGCATGTGC 59.430 61.111 0.00 0.00 41.14 4.57
2354 2475 1.975407 GTCCTTGCTGGCATGTGCT 60.975 57.895 4.84 0.00 41.70 4.40
2355 2476 0.677731 GTCCTTGCTGGCATGTGCTA 60.678 55.000 4.84 0.00 41.70 3.49
2356 2477 0.677731 TCCTTGCTGGCATGTGCTAC 60.678 55.000 4.84 0.00 41.70 3.58
2357 2478 1.660560 CCTTGCTGGCATGTGCTACC 61.661 60.000 4.84 0.00 41.70 3.18
2358 2479 0.679002 CTTGCTGGCATGTGCTACCT 60.679 55.000 4.84 0.00 41.70 3.08
2359 2480 0.677731 TTGCTGGCATGTGCTACCTC 60.678 55.000 4.84 0.00 41.70 3.85
2360 2481 1.821332 GCTGGCATGTGCTACCTCC 60.821 63.158 4.84 0.00 41.70 4.30
2361 2482 1.153086 CTGGCATGTGCTACCTCCC 60.153 63.158 4.84 0.00 41.70 4.30
2362 2483 1.616327 TGGCATGTGCTACCTCCCT 60.616 57.895 4.84 0.00 41.70 4.20
2363 2484 1.153086 GGCATGTGCTACCTCCCTG 60.153 63.158 4.84 0.00 41.70 4.45
2364 2485 1.821332 GCATGTGCTACCTCCCTGC 60.821 63.158 0.00 0.00 38.21 4.85
2365 2486 1.603842 CATGTGCTACCTCCCTGCA 59.396 57.895 0.00 0.00 0.00 4.41
2366 2487 0.182061 CATGTGCTACCTCCCTGCAT 59.818 55.000 0.00 0.00 39.00 3.96
2367 2488 0.471617 ATGTGCTACCTCCCTGCATC 59.528 55.000 0.00 0.00 39.00 3.91
2368 2489 1.227380 GTGCTACCTCCCTGCATCG 60.227 63.158 0.00 0.00 39.00 3.84
2369 2490 2.423446 GCTACCTCCCTGCATCGG 59.577 66.667 0.00 0.00 0.00 4.18
2370 2491 2.423446 CTACCTCCCTGCATCGGC 59.577 66.667 0.00 0.00 41.68 5.54
2383 2504 2.676076 GCATCGGCATGTTTTCTTTGT 58.324 42.857 0.00 0.00 40.72 2.83
2384 2505 2.663119 GCATCGGCATGTTTTCTTTGTC 59.337 45.455 0.00 0.00 40.72 3.18
2385 2506 2.679355 TCGGCATGTTTTCTTTGTCG 57.321 45.000 0.00 0.00 0.00 4.35
2386 2507 1.265635 TCGGCATGTTTTCTTTGTCGG 59.734 47.619 0.00 0.00 0.00 4.79
2387 2508 1.665735 CGGCATGTTTTCTTTGTCGGG 60.666 52.381 0.00 0.00 0.00 5.14
2388 2509 1.418373 GCATGTTTTCTTTGTCGGGC 58.582 50.000 0.00 0.00 0.00 6.13
2389 2510 1.934849 GCATGTTTTCTTTGTCGGGCC 60.935 52.381 0.00 0.00 0.00 5.80
2390 2511 0.966179 ATGTTTTCTTTGTCGGGCCC 59.034 50.000 13.57 13.57 0.00 5.80
2391 2512 0.395862 TGTTTTCTTTGTCGGGCCCA 60.396 50.000 24.92 6.15 0.00 5.36
2392 2513 0.031585 GTTTTCTTTGTCGGGCCCAC 59.968 55.000 24.92 19.22 0.00 4.61
2393 2514 1.448922 TTTTCTTTGTCGGGCCCACG 61.449 55.000 24.92 9.15 0.00 4.94
2405 2526 4.410400 CCCACGCCTGTCCCTTCC 62.410 72.222 0.00 0.00 0.00 3.46
2406 2527 3.322466 CCACGCCTGTCCCTTCCT 61.322 66.667 0.00 0.00 0.00 3.36
2407 2528 2.266055 CACGCCTGTCCCTTCCTC 59.734 66.667 0.00 0.00 0.00 3.71
2408 2529 2.120718 ACGCCTGTCCCTTCCTCT 59.879 61.111 0.00 0.00 0.00 3.69
2409 2530 1.536662 ACGCCTGTCCCTTCCTCTT 60.537 57.895 0.00 0.00 0.00 2.85
2410 2531 1.128188 ACGCCTGTCCCTTCCTCTTT 61.128 55.000 0.00 0.00 0.00 2.52
2411 2532 0.036875 CGCCTGTCCCTTCCTCTTTT 59.963 55.000 0.00 0.00 0.00 2.27
2412 2533 1.539157 GCCTGTCCCTTCCTCTTTTG 58.461 55.000 0.00 0.00 0.00 2.44
2413 2534 1.202940 GCCTGTCCCTTCCTCTTTTGT 60.203 52.381 0.00 0.00 0.00 2.83
2414 2535 2.039879 GCCTGTCCCTTCCTCTTTTGTA 59.960 50.000 0.00 0.00 0.00 2.41
2415 2536 3.308473 GCCTGTCCCTTCCTCTTTTGTAT 60.308 47.826 0.00 0.00 0.00 2.29
2416 2537 4.811063 GCCTGTCCCTTCCTCTTTTGTATT 60.811 45.833 0.00 0.00 0.00 1.89
2417 2538 5.325239 CCTGTCCCTTCCTCTTTTGTATTT 58.675 41.667 0.00 0.00 0.00 1.40
2418 2539 5.775195 CCTGTCCCTTCCTCTTTTGTATTTT 59.225 40.000 0.00 0.00 0.00 1.82
2419 2540 6.267699 CCTGTCCCTTCCTCTTTTGTATTTTT 59.732 38.462 0.00 0.00 0.00 1.94
2440 2561 5.959583 TTTCTCCTTCCTTATCCTCTTCC 57.040 43.478 0.00 0.00 0.00 3.46
2441 2562 4.909355 TCTCCTTCCTTATCCTCTTCCT 57.091 45.455 0.00 0.00 0.00 3.36
2442 2563 4.810345 TCTCCTTCCTTATCCTCTTCCTC 58.190 47.826 0.00 0.00 0.00 3.71
2443 2564 3.901222 CTCCTTCCTTATCCTCTTCCTCC 59.099 52.174 0.00 0.00 0.00 4.30
2444 2565 2.976185 CCTTCCTTATCCTCTTCCTCCC 59.024 54.545 0.00 0.00 0.00 4.30
2445 2566 3.375878 CCTTCCTTATCCTCTTCCTCCCT 60.376 52.174 0.00 0.00 0.00 4.20
2446 2567 3.621682 TCCTTATCCTCTTCCTCCCTC 57.378 52.381 0.00 0.00 0.00 4.30
2447 2568 2.180308 TCCTTATCCTCTTCCTCCCTCC 59.820 54.545 0.00 0.00 0.00 4.30
2448 2569 2.615391 CTTATCCTCTTCCTCCCTCCC 58.385 57.143 0.00 0.00 0.00 4.30
2449 2570 0.483328 TATCCTCTTCCTCCCTCCCG 59.517 60.000 0.00 0.00 0.00 5.14
2450 2571 1.595058 ATCCTCTTCCTCCCTCCCGT 61.595 60.000 0.00 0.00 0.00 5.28
2451 2572 1.758906 CCTCTTCCTCCCTCCCGTC 60.759 68.421 0.00 0.00 0.00 4.79
2452 2573 1.000486 CTCTTCCTCCCTCCCGTCA 60.000 63.158 0.00 0.00 0.00 4.35
2453 2574 0.397816 CTCTTCCTCCCTCCCGTCAT 60.398 60.000 0.00 0.00 0.00 3.06
2454 2575 0.042731 TCTTCCTCCCTCCCGTCATT 59.957 55.000 0.00 0.00 0.00 2.57
2455 2576 0.912486 CTTCCTCCCTCCCGTCATTT 59.088 55.000 0.00 0.00 0.00 2.32
2456 2577 1.282157 CTTCCTCCCTCCCGTCATTTT 59.718 52.381 0.00 0.00 0.00 1.82
2457 2578 0.909623 TCCTCCCTCCCGTCATTTTC 59.090 55.000 0.00 0.00 0.00 2.29
2458 2579 0.107165 CCTCCCTCCCGTCATTTTCC 60.107 60.000 0.00 0.00 0.00 3.13
2459 2580 0.912486 CTCCCTCCCGTCATTTTCCT 59.088 55.000 0.00 0.00 0.00 3.36
2460 2581 0.909623 TCCCTCCCGTCATTTTCCTC 59.090 55.000 0.00 0.00 0.00 3.71
2461 2582 0.107165 CCCTCCCGTCATTTTCCTCC 60.107 60.000 0.00 0.00 0.00 4.30
2462 2583 0.107165 CCTCCCGTCATTTTCCTCCC 60.107 60.000 0.00 0.00 0.00 4.30
2463 2584 0.107165 CTCCCGTCATTTTCCTCCCC 60.107 60.000 0.00 0.00 0.00 4.81
2464 2585 0.549169 TCCCGTCATTTTCCTCCCCT 60.549 55.000 0.00 0.00 0.00 4.79
2465 2586 0.107165 CCCGTCATTTTCCTCCCCTC 60.107 60.000 0.00 0.00 0.00 4.30
2466 2587 0.618458 CCGTCATTTTCCTCCCCTCA 59.382 55.000 0.00 0.00 0.00 3.86
2467 2588 1.212935 CCGTCATTTTCCTCCCCTCAT 59.787 52.381 0.00 0.00 0.00 2.90
2468 2589 2.357154 CCGTCATTTTCCTCCCCTCATT 60.357 50.000 0.00 0.00 0.00 2.57
2469 2590 2.945668 CGTCATTTTCCTCCCCTCATTC 59.054 50.000 0.00 0.00 0.00 2.67
2470 2591 3.291584 GTCATTTTCCTCCCCTCATTCC 58.708 50.000 0.00 0.00 0.00 3.01
2471 2592 2.244769 TCATTTTCCTCCCCTCATTCCC 59.755 50.000 0.00 0.00 0.00 3.97
2472 2593 2.074922 TTTTCCTCCCCTCATTCCCT 57.925 50.000 0.00 0.00 0.00 4.20
2473 2594 1.596496 TTTCCTCCCCTCATTCCCTC 58.404 55.000 0.00 0.00 0.00 4.30
2474 2595 0.725133 TTCCTCCCCTCATTCCCTCT 59.275 55.000 0.00 0.00 0.00 3.69
2475 2596 0.266152 TCCTCCCCTCATTCCCTCTC 59.734 60.000 0.00 0.00 0.00 3.20
2476 2597 0.267356 CCTCCCCTCATTCCCTCTCT 59.733 60.000 0.00 0.00 0.00 3.10
2477 2598 1.422531 CTCCCCTCATTCCCTCTCTG 58.577 60.000 0.00 0.00 0.00 3.35
2478 2599 0.719015 TCCCCTCATTCCCTCTCTGT 59.281 55.000 0.00 0.00 0.00 3.41
2479 2600 1.081174 TCCCCTCATTCCCTCTCTGTT 59.919 52.381 0.00 0.00 0.00 3.16
2480 2601 1.918957 CCCCTCATTCCCTCTCTGTTT 59.081 52.381 0.00 0.00 0.00 2.83
2481 2602 2.092699 CCCCTCATTCCCTCTCTGTTTC 60.093 54.545 0.00 0.00 0.00 2.78
2482 2603 2.843113 CCCTCATTCCCTCTCTGTTTCT 59.157 50.000 0.00 0.00 0.00 2.52
2483 2604 3.265479 CCCTCATTCCCTCTCTGTTTCTT 59.735 47.826 0.00 0.00 0.00 2.52
2484 2605 4.512484 CCTCATTCCCTCTCTGTTTCTTC 58.488 47.826 0.00 0.00 0.00 2.87
2485 2606 4.224818 CCTCATTCCCTCTCTGTTTCTTCT 59.775 45.833 0.00 0.00 0.00 2.85
2486 2607 5.280419 CCTCATTCCCTCTCTGTTTCTTCTT 60.280 44.000 0.00 0.00 0.00 2.52
2487 2608 6.192970 TCATTCCCTCTCTGTTTCTTCTTT 57.807 37.500 0.00 0.00 0.00 2.52
2488 2609 6.605119 TCATTCCCTCTCTGTTTCTTCTTTT 58.395 36.000 0.00 0.00 0.00 2.27
2489 2610 6.712547 TCATTCCCTCTCTGTTTCTTCTTTTC 59.287 38.462 0.00 0.00 0.00 2.29
2490 2611 4.974399 TCCCTCTCTGTTTCTTCTTTTCC 58.026 43.478 0.00 0.00 0.00 3.13
2491 2612 4.660771 TCCCTCTCTGTTTCTTCTTTTCCT 59.339 41.667 0.00 0.00 0.00 3.36
2492 2613 5.000591 CCCTCTCTGTTTCTTCTTTTCCTC 58.999 45.833 0.00 0.00 0.00 3.71
2493 2614 5.000591 CCTCTCTGTTTCTTCTTTTCCTCC 58.999 45.833 0.00 0.00 0.00 4.30
2494 2615 5.455326 CCTCTCTGTTTCTTCTTTTCCTCCA 60.455 44.000 0.00 0.00 0.00 3.86
2495 2616 6.192970 TCTCTGTTTCTTCTTTTCCTCCAT 57.807 37.500 0.00 0.00 0.00 3.41
2496 2617 6.000219 TCTCTGTTTCTTCTTTTCCTCCATG 59.000 40.000 0.00 0.00 0.00 3.66
2497 2618 5.072741 TCTGTTTCTTCTTTTCCTCCATGG 58.927 41.667 4.97 4.97 37.10 3.66
2498 2619 5.060427 TGTTTCTTCTTTTCCTCCATGGA 57.940 39.130 15.27 15.27 44.51 3.41
2499 2620 5.644188 TGTTTCTTCTTTTCCTCCATGGAT 58.356 37.500 16.63 0.00 45.68 3.41
2500 2621 5.711976 TGTTTCTTCTTTTCCTCCATGGATC 59.288 40.000 16.63 0.00 45.68 3.36
2501 2622 5.786121 TTCTTCTTTTCCTCCATGGATCT 57.214 39.130 16.63 0.00 45.68 2.75
2502 2623 5.365021 TCTTCTTTTCCTCCATGGATCTC 57.635 43.478 16.63 0.00 45.68 2.75
2503 2624 5.035556 TCTTCTTTTCCTCCATGGATCTCT 58.964 41.667 16.63 0.00 45.68 3.10
2504 2625 5.130145 TCTTCTTTTCCTCCATGGATCTCTC 59.870 44.000 16.63 0.00 45.68 3.20
2505 2626 3.713764 TCTTTTCCTCCATGGATCTCTCC 59.286 47.826 16.63 0.00 45.68 3.71
2506 2627 3.428063 TTTCCTCCATGGATCTCTCCT 57.572 47.619 16.63 0.00 45.68 3.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
45 46 2.757077 CCTGTCTGGGGGAACACC 59.243 66.667 0.00 0.00 39.11 4.16
71 72 4.572389 GGTACAGTGGCACAGAGAATATTG 59.428 45.833 21.41 8.26 41.80 1.90
77 81 0.538746 TCGGTACAGTGGCACAGAGA 60.539 55.000 21.41 8.92 41.80 3.10
255 261 3.041874 CATCCTCTGCACTGTCGTC 57.958 57.895 0.00 0.00 0.00 4.20
470 480 5.685954 CGCTTTGCTAAGACGTGATCTAATA 59.314 40.000 12.29 0.00 36.27 0.98
471 481 4.504461 CGCTTTGCTAAGACGTGATCTAAT 59.496 41.667 12.29 0.00 36.27 1.73
482 492 2.953466 ATACGGTCGCTTTGCTAAGA 57.047 45.000 12.29 0.00 32.92 2.10
487 497 4.201783 ACATTTTCTATACGGTCGCTTTGC 60.202 41.667 0.00 0.00 0.00 3.68
488 498 5.464965 ACATTTTCTATACGGTCGCTTTG 57.535 39.130 0.00 0.00 0.00 2.77
489 499 4.569564 GGACATTTTCTATACGGTCGCTTT 59.430 41.667 0.00 0.00 0.00 3.51
490 500 4.117685 GGACATTTTCTATACGGTCGCTT 58.882 43.478 0.00 0.00 0.00 4.68
494 504 6.980051 ACTTTGGACATTTTCTATACGGTC 57.020 37.500 0.00 0.00 0.00 4.79
516 560 2.434359 CCTCCTTCGCGGACCAAC 60.434 66.667 6.13 0.00 36.69 3.77
517 561 2.602267 TCCTCCTTCGCGGACCAA 60.602 61.111 6.13 0.00 36.69 3.67
518 562 2.488771 TACTCCTCCTTCGCGGACCA 62.489 60.000 6.13 0.00 36.69 4.02
526 590 7.634522 CAATTTGAATCGAATACTCCTCCTTC 58.365 38.462 0.00 0.00 0.00 3.46
555 619 1.766069 GCAAAGGCGAAACGAAATGT 58.234 45.000 0.00 0.00 0.00 2.71
604 668 9.880157 ATGCATTCTTCTAAAAGTGCAAAATAT 57.120 25.926 0.00 0.00 43.53 1.28
605 669 9.357652 GATGCATTCTTCTAAAAGTGCAAAATA 57.642 29.630 0.00 0.00 43.53 1.40
627 698 6.749139 ACAGTTTTAAAAAGGAGGAAGATGC 58.251 36.000 1.31 0.00 0.00 3.91
656 727 1.326245 GCGTTCCCAAAGTGCAAAAAC 59.674 47.619 0.00 0.00 0.00 2.43
915 1000 4.061596 GGAGGAATGAAGGCGAGATTAAG 58.938 47.826 0.00 0.00 0.00 1.85
924 1009 1.134068 GTGGGTAGGAGGAATGAAGGC 60.134 57.143 0.00 0.00 0.00 4.35
933 1019 1.686325 CGATGTGGGTGGGTAGGAGG 61.686 65.000 0.00 0.00 0.00 4.30
977 1075 0.931005 GCTACCTCTTTTCGATGCGG 59.069 55.000 0.00 0.00 0.00 5.69
978 1076 1.590238 CTGCTACCTCTTTTCGATGCG 59.410 52.381 0.00 0.00 0.00 4.73
1290 1396 1.371558 GTCGAACACCCTGAAGGCT 59.628 57.895 0.00 0.00 40.58 4.58
1522 1631 4.074970 GGACGGACGGACTATATTTCCTA 58.925 47.826 0.00 0.00 0.00 2.94
1527 1642 1.876156 GACGGACGGACGGACTATATT 59.124 52.381 6.00 0.00 38.39 1.28
1531 1646 2.815211 CGACGGACGGACGGACTA 60.815 66.667 6.00 0.00 38.39 2.59
1557 1672 3.673484 GTCCGTCCGTCCACCGAA 61.673 66.667 0.00 0.00 39.56 4.30
1659 1775 9.344772 TCTAGCTTTTCCAATAACAGTTGTAAA 57.655 29.630 0.00 0.00 0.00 2.01
1713 1832 5.820947 AGAATCACCACGTTCAGTTAGTTTT 59.179 36.000 0.00 0.00 0.00 2.43
1779 1898 5.010282 GGTTTGAGTTGGATAATCACTGGT 58.990 41.667 0.00 0.00 0.00 4.00
1820 1939 6.594788 AGTACCGTGGTTTGAGTAATTCTA 57.405 37.500 0.00 0.00 0.00 2.10
1838 1957 6.318396 ACAGAGGTTAGAGTTCGATAAGTACC 59.682 42.308 0.00 0.00 0.00 3.34
1855 1976 5.189736 ACATATGTCATGTGGTACAGAGGTT 59.810 40.000 13.45 0.00 41.80 3.50
1856 1977 4.716784 ACATATGTCATGTGGTACAGAGGT 59.283 41.667 13.45 0.00 41.80 3.85
1857 1978 5.052481 CACATATGTCATGTGGTACAGAGG 58.948 45.833 5.07 0.00 44.04 3.69
1866 1987 5.816449 TTGCTTACCACATATGTCATGTG 57.184 39.130 5.07 7.94 46.49 3.21
1867 1988 6.602803 TGAATTGCTTACCACATATGTCATGT 59.397 34.615 5.07 6.42 0.00 3.21
1868 1989 7.030075 TGAATTGCTTACCACATATGTCATG 57.970 36.000 5.07 0.13 0.00 3.07
1869 1990 7.643569 TTGAATTGCTTACCACATATGTCAT 57.356 32.000 5.07 0.00 0.00 3.06
1870 1991 7.312154 GTTTGAATTGCTTACCACATATGTCA 58.688 34.615 5.07 0.00 0.00 3.58
1871 1992 6.751888 GGTTTGAATTGCTTACCACATATGTC 59.248 38.462 5.07 0.00 0.00 3.06
1872 1993 6.210385 TGGTTTGAATTGCTTACCACATATGT 59.790 34.615 1.41 1.41 34.13 2.29
1873 1994 6.629128 TGGTTTGAATTGCTTACCACATATG 58.371 36.000 0.00 0.00 34.13 1.78
1874 1995 6.849085 TGGTTTGAATTGCTTACCACATAT 57.151 33.333 0.00 0.00 34.13 1.78
1875 1996 6.656632 TTGGTTTGAATTGCTTACCACATA 57.343 33.333 0.00 0.00 38.53 2.29
1876 1997 5.543507 TTGGTTTGAATTGCTTACCACAT 57.456 34.783 0.00 0.00 38.53 3.21
1877 1998 5.510520 GGATTGGTTTGAATTGCTTACCACA 60.511 40.000 0.00 0.00 38.53 4.17
1878 1999 4.929211 GGATTGGTTTGAATTGCTTACCAC 59.071 41.667 0.00 0.00 38.53 4.16
1879 2000 4.590647 TGGATTGGTTTGAATTGCTTACCA 59.409 37.500 0.00 0.00 37.12 3.25
1880 2001 5.146010 TGGATTGGTTTGAATTGCTTACC 57.854 39.130 0.00 0.00 0.00 2.85
1881 2002 7.440856 TCTTTTGGATTGGTTTGAATTGCTTAC 59.559 33.333 0.00 0.00 0.00 2.34
1882 2003 7.504403 TCTTTTGGATTGGTTTGAATTGCTTA 58.496 30.769 0.00 0.00 0.00 3.09
1883 2004 6.355747 TCTTTTGGATTGGTTTGAATTGCTT 58.644 32.000 0.00 0.00 0.00 3.91
1884 2005 5.927819 TCTTTTGGATTGGTTTGAATTGCT 58.072 33.333 0.00 0.00 0.00 3.91
1885 2006 5.334337 GCTCTTTTGGATTGGTTTGAATTGC 60.334 40.000 0.00 0.00 0.00 3.56
1886 2007 5.993441 AGCTCTTTTGGATTGGTTTGAATTG 59.007 36.000 0.00 0.00 0.00 2.32
1887 2008 6.042437 AGAGCTCTTTTGGATTGGTTTGAATT 59.958 34.615 11.45 0.00 0.00 2.17
1888 2009 5.541484 AGAGCTCTTTTGGATTGGTTTGAAT 59.459 36.000 11.45 0.00 0.00 2.57
1889 2010 4.895297 AGAGCTCTTTTGGATTGGTTTGAA 59.105 37.500 11.45 0.00 0.00 2.69
1890 2011 4.473444 AGAGCTCTTTTGGATTGGTTTGA 58.527 39.130 11.45 0.00 0.00 2.69
1891 2012 4.861102 AGAGCTCTTTTGGATTGGTTTG 57.139 40.909 11.45 0.00 0.00 2.93
1892 2013 5.243954 GGTTAGAGCTCTTTTGGATTGGTTT 59.756 40.000 23.84 0.00 0.00 3.27
1893 2014 4.767409 GGTTAGAGCTCTTTTGGATTGGTT 59.233 41.667 23.84 0.00 0.00 3.67
1894 2015 4.043435 AGGTTAGAGCTCTTTTGGATTGGT 59.957 41.667 23.84 0.00 0.00 3.67
1895 2016 4.593956 AGGTTAGAGCTCTTTTGGATTGG 58.406 43.478 23.84 0.00 0.00 3.16
1896 2017 5.809719 GAGGTTAGAGCTCTTTTGGATTG 57.190 43.478 23.84 0.00 39.50 2.67
1906 2027 3.004944 CGGGATTACAGAGGTTAGAGCTC 59.995 52.174 5.27 5.27 42.72 4.09
1907 2028 2.959707 CGGGATTACAGAGGTTAGAGCT 59.040 50.000 0.00 0.00 0.00 4.09
1908 2029 2.036089 CCGGGATTACAGAGGTTAGAGC 59.964 54.545 0.00 0.00 0.00 4.09
1909 2030 3.297736 ACCGGGATTACAGAGGTTAGAG 58.702 50.000 6.32 0.00 0.00 2.43
1910 2031 3.294214 GACCGGGATTACAGAGGTTAGA 58.706 50.000 6.32 0.00 35.00 2.10
1911 2032 2.034305 CGACCGGGATTACAGAGGTTAG 59.966 54.545 6.32 0.00 35.00 2.34
1912 2033 2.026641 CGACCGGGATTACAGAGGTTA 58.973 52.381 6.32 0.00 35.00 2.85
1953 2074 4.504916 CTCACGCTCGAGGCCTGG 62.505 72.222 12.00 10.16 37.74 4.45
1959 2080 3.997064 CTTGGGCCTCACGCTCGAG 62.997 68.421 8.45 8.45 43.05 4.04
1960 2081 4.069232 CTTGGGCCTCACGCTCGA 62.069 66.667 4.53 0.00 43.05 4.04
1961 2082 4.379243 ACTTGGGCCTCACGCTCG 62.379 66.667 4.53 0.00 43.05 5.03
1962 2083 2.743928 CACTTGGGCCTCACGCTC 60.744 66.667 4.53 0.00 39.08 5.03
1977 2098 1.802960 CATTCAGTCACACCAGAGCAC 59.197 52.381 0.00 0.00 0.00 4.40
2011 2132 2.422803 CCCCAAGAATAATTCGGGCAGA 60.423 50.000 0.00 0.00 35.40 4.26
2012 2133 1.956477 CCCCAAGAATAATTCGGGCAG 59.044 52.381 0.00 0.00 35.40 4.85
2013 2134 2.026905 GCCCCAAGAATAATTCGGGCA 61.027 52.381 14.44 0.00 46.75 5.36
2014 2135 0.673985 GCCCCAAGAATAATTCGGGC 59.326 55.000 6.65 6.65 43.43 6.13
2015 2136 1.956477 CAGCCCCAAGAATAATTCGGG 59.044 52.381 0.00 0.00 36.59 5.14
2016 2137 2.930950 TCAGCCCCAAGAATAATTCGG 58.069 47.619 0.00 0.00 34.02 4.30
2017 2138 4.640201 TCTTTCAGCCCCAAGAATAATTCG 59.360 41.667 0.00 0.00 34.02 3.34
2018 2139 6.721704 ATCTTTCAGCCCCAAGAATAATTC 57.278 37.500 0.00 0.00 32.76 2.17
2019 2140 6.669154 TCAATCTTTCAGCCCCAAGAATAATT 59.331 34.615 0.00 0.00 32.76 1.40
2020 2141 6.197168 TCAATCTTTCAGCCCCAAGAATAAT 58.803 36.000 0.00 0.00 32.76 1.28
2021 2142 5.579047 TCAATCTTTCAGCCCCAAGAATAA 58.421 37.500 0.00 0.00 32.76 1.40
2022 2143 5.191727 TCAATCTTTCAGCCCCAAGAATA 57.808 39.130 0.00 0.00 32.76 1.75
2023 2144 4.051661 TCAATCTTTCAGCCCCAAGAAT 57.948 40.909 0.00 0.00 32.76 2.40
2024 2145 3.524095 TCAATCTTTCAGCCCCAAGAA 57.476 42.857 0.00 0.00 32.76 2.52
2025 2146 3.245371 ACATCAATCTTTCAGCCCCAAGA 60.245 43.478 0.00 0.00 33.55 3.02
2026 2147 3.094572 ACATCAATCTTTCAGCCCCAAG 58.905 45.455 0.00 0.00 0.00 3.61
2027 2148 3.091545 GACATCAATCTTTCAGCCCCAA 58.908 45.455 0.00 0.00 0.00 4.12
2028 2149 2.309755 AGACATCAATCTTTCAGCCCCA 59.690 45.455 0.00 0.00 0.00 4.96
2029 2150 3.010200 AGACATCAATCTTTCAGCCCC 57.990 47.619 0.00 0.00 0.00 5.80
2030 2151 5.397142 AAAAGACATCAATCTTTCAGCCC 57.603 39.130 1.47 0.00 46.02 5.19
2031 2152 6.524586 CGTAAAAAGACATCAATCTTTCAGCC 59.475 38.462 1.47 0.00 46.02 4.85
2032 2153 6.032880 GCGTAAAAAGACATCAATCTTTCAGC 59.967 38.462 1.47 2.62 46.02 4.26
2033 2154 6.524586 GGCGTAAAAAGACATCAATCTTTCAG 59.475 38.462 1.47 0.00 46.02 3.02
2034 2155 6.206634 AGGCGTAAAAAGACATCAATCTTTCA 59.793 34.615 1.47 0.00 46.02 2.69
2035 2156 6.612306 AGGCGTAAAAAGACATCAATCTTTC 58.388 36.000 1.47 0.00 46.02 2.62
2036 2157 8.905956 ACGAGGCGTAAAAAGACATCAATCTTT 61.906 37.037 0.00 0.00 43.36 2.52
2037 2158 5.163854 CGAGGCGTAAAAAGACATCAATCTT 60.164 40.000 0.00 0.00 40.78 2.40
2038 2159 4.330074 CGAGGCGTAAAAAGACATCAATCT 59.670 41.667 0.00 0.00 0.00 2.40
2039 2160 4.092968 ACGAGGCGTAAAAAGACATCAATC 59.907 41.667 0.00 0.00 38.73 2.67
2040 2161 4.000988 ACGAGGCGTAAAAAGACATCAAT 58.999 39.130 0.00 0.00 38.73 2.57
2041 2162 3.395639 ACGAGGCGTAAAAAGACATCAA 58.604 40.909 0.00 0.00 38.73 2.57
2042 2163 3.034721 ACGAGGCGTAAAAAGACATCA 57.965 42.857 0.00 0.00 38.73 3.07
2043 2164 4.148891 CAAACGAGGCGTAAAAAGACATC 58.851 43.478 0.00 0.00 39.99 3.06
2065 2186 4.806640 TCAAATTCAATTCTTGGGAGCC 57.193 40.909 0.00 0.00 0.00 4.70
2217 2338 8.070171 CACTGTCCTAGTAAACAAAAACATGAG 58.930 37.037 0.00 0.00 37.60 2.90
2272 2393 3.239254 GCACTATTGCCAAACGTTTACC 58.761 45.455 14.20 8.10 43.66 2.85
2285 2406 3.630148 CTCGGCCGCGCACTATTG 61.630 66.667 23.51 0.00 0.00 1.90
2286 2407 3.659089 AACTCGGCCGCGCACTATT 62.659 57.895 23.51 0.18 0.00 1.73
2287 2408 3.659089 AAACTCGGCCGCGCACTAT 62.659 57.895 23.51 0.00 0.00 2.12
2288 2409 4.367023 AAACTCGGCCGCGCACTA 62.367 61.111 23.51 0.00 0.00 2.74
2333 2454 3.136123 CATGCCAGCAAGGACCCG 61.136 66.667 0.00 0.00 41.22 5.28
2334 2455 2.036256 ACATGCCAGCAAGGACCC 59.964 61.111 0.00 0.00 41.22 4.46
2335 2456 2.998279 GCACATGCCAGCAAGGACC 61.998 63.158 0.00 0.00 41.22 4.46
2336 2457 0.677731 TAGCACATGCCAGCAAGGAC 60.678 55.000 0.00 0.00 43.38 3.85
2337 2458 0.677731 GTAGCACATGCCAGCAAGGA 60.678 55.000 0.00 0.00 43.38 3.36
2338 2459 1.660560 GGTAGCACATGCCAGCAAGG 61.661 60.000 0.00 0.00 43.38 3.61
2339 2460 0.679002 AGGTAGCACATGCCAGCAAG 60.679 55.000 4.39 0.00 43.38 4.01
2340 2461 0.677731 GAGGTAGCACATGCCAGCAA 60.678 55.000 4.39 0.00 43.38 3.91
2341 2462 1.078214 GAGGTAGCACATGCCAGCA 60.078 57.895 4.39 0.00 43.38 4.41
2342 2463 1.821332 GGAGGTAGCACATGCCAGC 60.821 63.158 0.00 0.00 43.38 4.85
2343 2464 1.153086 GGGAGGTAGCACATGCCAG 60.153 63.158 0.00 0.00 40.25 4.85
2344 2465 1.616327 AGGGAGGTAGCACATGCCA 60.616 57.895 12.33 0.00 43.08 4.92
2345 2466 1.153086 CAGGGAGGTAGCACATGCC 60.153 63.158 0.00 3.92 40.85 4.40
2346 2467 1.821332 GCAGGGAGGTAGCACATGC 60.821 63.158 9.78 9.78 42.49 4.06
2347 2468 0.182061 ATGCAGGGAGGTAGCACATG 59.818 55.000 0.00 0.00 41.60 3.21
2348 2469 0.471617 GATGCAGGGAGGTAGCACAT 59.528 55.000 0.00 0.00 41.60 3.21
2349 2470 1.907739 GATGCAGGGAGGTAGCACA 59.092 57.895 0.00 0.00 41.60 4.57
2350 2471 1.227380 CGATGCAGGGAGGTAGCAC 60.227 63.158 0.00 0.00 41.60 4.40
2351 2472 2.434843 CCGATGCAGGGAGGTAGCA 61.435 63.158 0.23 0.00 43.14 3.49
2352 2473 2.423446 CCGATGCAGGGAGGTAGC 59.577 66.667 0.23 0.00 0.00 3.58
2353 2474 2.423446 GCCGATGCAGGGAGGTAG 59.577 66.667 10.61 0.00 37.47 3.18
2354 2475 2.364973 TGCCGATGCAGGGAGGTA 60.365 61.111 10.61 0.00 44.23 3.08
2363 2484 2.663119 GACAAAGAAAACATGCCGATGC 59.337 45.455 0.00 0.00 32.14 3.91
2364 2485 2.910482 CGACAAAGAAAACATGCCGATG 59.090 45.455 0.00 0.00 35.49 3.84
2365 2486 2.095263 CCGACAAAGAAAACATGCCGAT 60.095 45.455 0.00 0.00 0.00 4.18
2366 2487 1.265635 CCGACAAAGAAAACATGCCGA 59.734 47.619 0.00 0.00 0.00 5.54
2367 2488 1.665735 CCCGACAAAGAAAACATGCCG 60.666 52.381 0.00 0.00 0.00 5.69
2368 2489 1.934849 GCCCGACAAAGAAAACATGCC 60.935 52.381 0.00 0.00 0.00 4.40
2369 2490 1.418373 GCCCGACAAAGAAAACATGC 58.582 50.000 0.00 0.00 0.00 4.06
2370 2491 1.336795 GGGCCCGACAAAGAAAACATG 60.337 52.381 5.69 0.00 0.00 3.21
2371 2492 0.966179 GGGCCCGACAAAGAAAACAT 59.034 50.000 5.69 0.00 0.00 2.71
2372 2493 0.395862 TGGGCCCGACAAAGAAAACA 60.396 50.000 19.37 0.00 0.00 2.83
2373 2494 0.031585 GTGGGCCCGACAAAGAAAAC 59.968 55.000 19.37 0.76 0.00 2.43
2374 2495 1.448922 CGTGGGCCCGACAAAGAAAA 61.449 55.000 19.37 0.00 0.00 2.29
2375 2496 1.894756 CGTGGGCCCGACAAAGAAA 60.895 57.895 19.37 0.00 0.00 2.52
2376 2497 2.281208 CGTGGGCCCGACAAAGAA 60.281 61.111 19.37 0.00 0.00 2.52
2388 2509 4.410400 GGAAGGGACAGGCGTGGG 62.410 72.222 11.67 0.00 0.00 4.61
2389 2510 3.316573 GAGGAAGGGACAGGCGTGG 62.317 68.421 11.67 0.00 0.00 4.94
2390 2511 1.831652 AAGAGGAAGGGACAGGCGTG 61.832 60.000 4.53 4.53 0.00 5.34
2391 2512 1.128188 AAAGAGGAAGGGACAGGCGT 61.128 55.000 0.00 0.00 0.00 5.68
2392 2513 0.036875 AAAAGAGGAAGGGACAGGCG 59.963 55.000 0.00 0.00 0.00 5.52
2393 2514 1.202940 ACAAAAGAGGAAGGGACAGGC 60.203 52.381 0.00 0.00 0.00 4.85
2394 2515 2.959465 ACAAAAGAGGAAGGGACAGG 57.041 50.000 0.00 0.00 0.00 4.00
2395 2516 6.901081 AAAATACAAAAGAGGAAGGGACAG 57.099 37.500 0.00 0.00 0.00 3.51
2416 2537 6.505700 AGGAAGAGGATAAGGAAGGAGAAAAA 59.494 38.462 0.00 0.00 0.00 1.94
2417 2538 6.032693 AGGAAGAGGATAAGGAAGGAGAAAA 58.967 40.000 0.00 0.00 0.00 2.29
2418 2539 5.604752 AGGAAGAGGATAAGGAAGGAGAAA 58.395 41.667 0.00 0.00 0.00 2.52
2419 2540 5.212745 GAGGAAGAGGATAAGGAAGGAGAA 58.787 45.833 0.00 0.00 0.00 2.87
2420 2541 4.388118 GGAGGAAGAGGATAAGGAAGGAGA 60.388 50.000 0.00 0.00 0.00 3.71
2421 2542 3.901222 GGAGGAAGAGGATAAGGAAGGAG 59.099 52.174 0.00 0.00 0.00 3.69
2422 2543 3.375430 GGGAGGAAGAGGATAAGGAAGGA 60.375 52.174 0.00 0.00 0.00 3.36
2423 2544 2.976185 GGGAGGAAGAGGATAAGGAAGG 59.024 54.545 0.00 0.00 0.00 3.46
2424 2545 3.901222 GAGGGAGGAAGAGGATAAGGAAG 59.099 52.174 0.00 0.00 0.00 3.46
2425 2546 3.375430 GGAGGGAGGAAGAGGATAAGGAA 60.375 52.174 0.00 0.00 0.00 3.36
2426 2547 2.180308 GGAGGGAGGAAGAGGATAAGGA 59.820 54.545 0.00 0.00 0.00 3.36
2427 2548 2.615391 GGAGGGAGGAAGAGGATAAGG 58.385 57.143 0.00 0.00 0.00 2.69
2428 2549 2.615391 GGGAGGGAGGAAGAGGATAAG 58.385 57.143 0.00 0.00 0.00 1.73
2429 2550 1.133136 CGGGAGGGAGGAAGAGGATAA 60.133 57.143 0.00 0.00 0.00 1.75
2430 2551 0.483328 CGGGAGGGAGGAAGAGGATA 59.517 60.000 0.00 0.00 0.00 2.59
2431 2552 1.234529 CGGGAGGGAGGAAGAGGAT 59.765 63.158 0.00 0.00 0.00 3.24
2432 2553 2.226149 GACGGGAGGGAGGAAGAGGA 62.226 65.000 0.00 0.00 0.00 3.71
2433 2554 1.758906 GACGGGAGGGAGGAAGAGG 60.759 68.421 0.00 0.00 0.00 3.69
2434 2555 0.397816 ATGACGGGAGGGAGGAAGAG 60.398 60.000 0.00 0.00 0.00 2.85
2435 2556 0.042731 AATGACGGGAGGGAGGAAGA 59.957 55.000 0.00 0.00 0.00 2.87
2436 2557 0.912486 AAATGACGGGAGGGAGGAAG 59.088 55.000 0.00 0.00 0.00 3.46
2437 2558 1.280998 GAAAATGACGGGAGGGAGGAA 59.719 52.381 0.00 0.00 0.00 3.36
2438 2559 0.909623 GAAAATGACGGGAGGGAGGA 59.090 55.000 0.00 0.00 0.00 3.71
2439 2560 0.107165 GGAAAATGACGGGAGGGAGG 60.107 60.000 0.00 0.00 0.00 4.30
2440 2561 0.912486 AGGAAAATGACGGGAGGGAG 59.088 55.000 0.00 0.00 0.00 4.30
2441 2562 0.909623 GAGGAAAATGACGGGAGGGA 59.090 55.000 0.00 0.00 0.00 4.20
2442 2563 0.107165 GGAGGAAAATGACGGGAGGG 60.107 60.000 0.00 0.00 0.00 4.30
2443 2564 0.107165 GGGAGGAAAATGACGGGAGG 60.107 60.000 0.00 0.00 0.00 4.30
2444 2565 0.107165 GGGGAGGAAAATGACGGGAG 60.107 60.000 0.00 0.00 0.00 4.30
2445 2566 0.549169 AGGGGAGGAAAATGACGGGA 60.549 55.000 0.00 0.00 0.00 5.14
2446 2567 0.107165 GAGGGGAGGAAAATGACGGG 60.107 60.000 0.00 0.00 0.00 5.28
2447 2568 0.618458 TGAGGGGAGGAAAATGACGG 59.382 55.000 0.00 0.00 0.00 4.79
2448 2569 2.717639 ATGAGGGGAGGAAAATGACG 57.282 50.000 0.00 0.00 0.00 4.35
2449 2570 3.291584 GGAATGAGGGGAGGAAAATGAC 58.708 50.000 0.00 0.00 0.00 3.06
2450 2571 2.244769 GGGAATGAGGGGAGGAAAATGA 59.755 50.000 0.00 0.00 0.00 2.57
2451 2572 2.245806 AGGGAATGAGGGGAGGAAAATG 59.754 50.000 0.00 0.00 0.00 2.32
2452 2573 2.515853 GAGGGAATGAGGGGAGGAAAAT 59.484 50.000 0.00 0.00 0.00 1.82
2453 2574 1.923148 GAGGGAATGAGGGGAGGAAAA 59.077 52.381 0.00 0.00 0.00 2.29
2454 2575 1.082879 AGAGGGAATGAGGGGAGGAAA 59.917 52.381 0.00 0.00 0.00 3.13
2455 2576 0.725133 AGAGGGAATGAGGGGAGGAA 59.275 55.000 0.00 0.00 0.00 3.36
2456 2577 0.266152 GAGAGGGAATGAGGGGAGGA 59.734 60.000 0.00 0.00 0.00 3.71
2457 2578 0.267356 AGAGAGGGAATGAGGGGAGG 59.733 60.000 0.00 0.00 0.00 4.30
2458 2579 1.343884 ACAGAGAGGGAATGAGGGGAG 60.344 57.143 0.00 0.00 0.00 4.30
2459 2580 0.719015 ACAGAGAGGGAATGAGGGGA 59.281 55.000 0.00 0.00 0.00 4.81
2460 2581 1.589414 AACAGAGAGGGAATGAGGGG 58.411 55.000 0.00 0.00 0.00 4.79
2461 2582 2.843113 AGAAACAGAGAGGGAATGAGGG 59.157 50.000 0.00 0.00 0.00 4.30
2462 2583 4.224818 AGAAGAAACAGAGAGGGAATGAGG 59.775 45.833 0.00 0.00 0.00 3.86
2463 2584 5.419239 AGAAGAAACAGAGAGGGAATGAG 57.581 43.478 0.00 0.00 0.00 2.90
2464 2585 5.832539 AAGAAGAAACAGAGAGGGAATGA 57.167 39.130 0.00 0.00 0.00 2.57
2465 2586 6.072230 GGAAAAGAAGAAACAGAGAGGGAATG 60.072 42.308 0.00 0.00 0.00 2.67
2466 2587 6.007076 GGAAAAGAAGAAACAGAGAGGGAAT 58.993 40.000 0.00 0.00 0.00 3.01
2467 2588 5.132816 AGGAAAAGAAGAAACAGAGAGGGAA 59.867 40.000 0.00 0.00 0.00 3.97
2468 2589 4.660771 AGGAAAAGAAGAAACAGAGAGGGA 59.339 41.667 0.00 0.00 0.00 4.20
2469 2590 4.979335 AGGAAAAGAAGAAACAGAGAGGG 58.021 43.478 0.00 0.00 0.00 4.30
2470 2591 5.000591 GGAGGAAAAGAAGAAACAGAGAGG 58.999 45.833 0.00 0.00 0.00 3.69
2471 2592 5.615289 TGGAGGAAAAGAAGAAACAGAGAG 58.385 41.667 0.00 0.00 0.00 3.20
2472 2593 5.630415 TGGAGGAAAAGAAGAAACAGAGA 57.370 39.130 0.00 0.00 0.00 3.10
2473 2594 5.182760 CCATGGAGGAAAAGAAGAAACAGAG 59.817 44.000 5.56 0.00 41.22 3.35
2474 2595 5.072741 CCATGGAGGAAAAGAAGAAACAGA 58.927 41.667 5.56 0.00 41.22 3.41
2475 2596 5.072741 TCCATGGAGGAAAAGAAGAAACAG 58.927 41.667 11.44 0.00 45.65 3.16
2476 2597 5.060427 TCCATGGAGGAAAAGAAGAAACA 57.940 39.130 11.44 0.00 45.65 2.83


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

AutoCloner maintained by Alex Coulton.