Multiple sequence alignment - TraesCS5A01G531000

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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 TraesCS5A01G531000 chr5A 100.000 2216 0 0 1 2216 689485253 689483038 0.000000e+00 4093.0
1 TraesCS5A01G531000 chr5A 93.680 1519 81 3 3 1506 23905560 23904042 0.000000e+00 2259.0
2 TraesCS5A01G531000 chr5A 93.491 1521 83 4 1 1506 33881969 33880450 0.000000e+00 2246.0
3 TraesCS5A01G531000 chr5A 93.487 1520 84 3 1 1505 606886431 606884912 0.000000e+00 2244.0
4 TraesCS5A01G531000 chr5A 100.000 38 0 0 1820 1857 689486261 689486298 1.100000e-08 71.3
5 TraesCS5A01G531000 chr3A 94.353 1523 69 5 1 1506 11599045 11597523 0.000000e+00 2320.0
6 TraesCS5A01G531000 chr3A 94.353 1523 69 5 1 1506 11605933 11604411 0.000000e+00 2320.0
7 TraesCS5A01G531000 chr3A 94.017 1521 74 5 1 1506 684743928 684745446 0.000000e+00 2289.0
8 TraesCS5A01G531000 chr3A 93.688 1521 78 6 1 1506 459623258 459621741 0.000000e+00 2261.0
9 TraesCS5A01G531000 chr4B 93.951 1521 75 5 1 1506 604142972 604144490 0.000000e+00 2283.0
10 TraesCS5A01G531000 chr4B 93.688 1521 78 6 1 1506 85985484 85987001 0.000000e+00 2261.0
11 TraesCS5A01G531000 chr7A 93.561 1522 80 6 1 1506 17368984 17370503 0.000000e+00 2252.0
12 TraesCS5A01G531000 chr7A 89.175 194 18 2 1930 2123 448265217 448265027 2.840000e-59 239.0
13 TraesCS5A01G531000 chr6A 93.557 1521 81 5 1 1506 531392501 531390983 0.000000e+00 2250.0
14 TraesCS5A01G531000 chr6A 93.293 492 19 2 1 478 472969519 472970010 0.000000e+00 713.0
15 TraesCS5A01G531000 chr6A 93.293 492 18 3 1 478 595511489 595510999 0.000000e+00 712.0
16 TraesCS5A01G531000 chr6A 89.175 194 18 3 1930 2122 592186972 592186781 2.840000e-59 239.0
17 TraesCS5A01G531000 chr6A 89.175 194 14 5 1929 2122 554780636 554780822 3.680000e-58 235.0
18 TraesCS5A01G531000 chr2A 92.806 1529 86 8 1 1506 516398409 516396882 0.000000e+00 2193.0
19 TraesCS5A01G531000 chr2A 88.832 197 16 2 1926 2122 68865390 68865580 1.020000e-58 237.0
20 TraesCS5A01G531000 chr6B 91.629 1314 85 12 1 1294 317215601 317214293 0.000000e+00 1794.0
21 TraesCS5A01G531000 chr1A 93.141 1108 62 2 1 1094 20992221 20991114 0.000000e+00 1613.0
22 TraesCS5A01G531000 chr4D 91.521 401 22 9 1499 1891 505258487 505258883 1.940000e-150 542.0
23 TraesCS5A01G531000 chr4D 94.505 91 5 0 2124 2214 505258901 505258991 8.250000e-30 141.0
24 TraesCS5A01G531000 chr3B 89.691 194 19 1 1929 2122 240267689 240267881 1.700000e-61 246.0
25 TraesCS5A01G531000 chr5B 89.637 193 15 4 1930 2122 591140640 591140827 7.910000e-60 241.0
26 TraesCS5A01G531000 chr5D 89.119 193 17 4 1930 2122 288133467 288133279 1.020000e-58 237.0
27 TraesCS5A01G531000 chr3D 89.529 191 15 4 1932 2122 610880489 610880674 1.020000e-58 237.0
28 TraesCS5A01G531000 chr2B 89.119 193 15 3 1930 2122 577254020 577253834 3.680000e-58 235.0


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 TraesCS5A01G531000 chr5A 689483038 689485253 2215 True 4093.0 4093 100.000 1 2216 1 chr5A.!!$R4 2215
1 TraesCS5A01G531000 chr5A 23904042 23905560 1518 True 2259.0 2259 93.680 3 1506 1 chr5A.!!$R1 1503
2 TraesCS5A01G531000 chr5A 33880450 33881969 1519 True 2246.0 2246 93.491 1 1506 1 chr5A.!!$R2 1505
3 TraesCS5A01G531000 chr5A 606884912 606886431 1519 True 2244.0 2244 93.487 1 1505 1 chr5A.!!$R3 1504
4 TraesCS5A01G531000 chr3A 11597523 11599045 1522 True 2320.0 2320 94.353 1 1506 1 chr3A.!!$R1 1505
5 TraesCS5A01G531000 chr3A 11604411 11605933 1522 True 2320.0 2320 94.353 1 1506 1 chr3A.!!$R2 1505
6 TraesCS5A01G531000 chr3A 684743928 684745446 1518 False 2289.0 2289 94.017 1 1506 1 chr3A.!!$F1 1505
7 TraesCS5A01G531000 chr3A 459621741 459623258 1517 True 2261.0 2261 93.688 1 1506 1 chr3A.!!$R3 1505
8 TraesCS5A01G531000 chr4B 604142972 604144490 1518 False 2283.0 2283 93.951 1 1506 1 chr4B.!!$F2 1505
9 TraesCS5A01G531000 chr4B 85985484 85987001 1517 False 2261.0 2261 93.688 1 1506 1 chr4B.!!$F1 1505
10 TraesCS5A01G531000 chr7A 17368984 17370503 1519 False 2252.0 2252 93.561 1 1506 1 chr7A.!!$F1 1505
11 TraesCS5A01G531000 chr6A 531390983 531392501 1518 True 2250.0 2250 93.557 1 1506 1 chr6A.!!$R1 1505
12 TraesCS5A01G531000 chr2A 516396882 516398409 1527 True 2193.0 2193 92.806 1 1506 1 chr2A.!!$R1 1505
13 TraesCS5A01G531000 chr6B 317214293 317215601 1308 True 1794.0 1794 91.629 1 1294 1 chr6B.!!$R1 1293
14 TraesCS5A01G531000 chr1A 20991114 20992221 1107 True 1613.0 1613 93.141 1 1094 1 chr1A.!!$R1 1093
15 TraesCS5A01G531000 chr4D 505258487 505258991 504 False 341.5 542 93.013 1499 2214 2 chr4D.!!$F1 715

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
992 1019 0.946221 CTGCGAACGGAGCTGAAGTT 60.946 55.0 2.59 0.0 35.92 2.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1987 2024 0.035458 CGCCTCCCCATCTATTGACC 59.965 60.0 0.0 0.0 0.0 4.02 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
23 24 2.489938 AGAGAGGCGGTGCAAATAAA 57.510 45.000 0.00 0.00 0.00 1.40
213 217 3.664107 ACCAATATACGGCAGCTGTATG 58.336 45.455 30.05 18.48 36.69 2.39
329 346 3.871006 TGCATATCTTTACAGAACAGCGG 59.129 43.478 0.00 0.00 30.76 5.52
340 357 3.452627 ACAGAACAGCGGGAGATATTCTT 59.547 43.478 0.00 0.00 0.00 2.52
355 379 9.362539 GGAGATATTCTTTAACAACAGTTACGA 57.637 33.333 0.00 0.00 0.00 3.43
387 411 8.262227 TGTGACCCGTTTTAGATGTATAGAATT 58.738 33.333 0.00 0.00 0.00 2.17
506 531 7.162062 CGCGTGTAAAGTTTTATCTAAGAATGC 59.838 37.037 0.00 0.00 0.00 3.56
630 656 5.885912 ACCGATCAAATAGCACAAATAAGGT 59.114 36.000 0.00 0.00 0.00 3.50
690 716 4.887071 GGTCCAGTTTAATGCATATGGTGA 59.113 41.667 0.00 0.00 0.00 4.02
760 786 6.327365 TCATGGGAAATAGACTCTGCATCTTA 59.673 38.462 0.00 0.00 0.00 2.10
762 788 7.141758 TGGGAAATAGACTCTGCATCTTAAT 57.858 36.000 0.00 0.00 0.00 1.40
782 808 7.770897 TCTTAATTTCTTCAGTATCCCTCTTGC 59.229 37.037 0.00 0.00 0.00 4.01
792 818 4.651962 AGTATCCCTCTTGCTCCTACTTTC 59.348 45.833 0.00 0.00 0.00 2.62
806 832 7.039011 TGCTCCTACTTTCTAAGACAAGATTGA 60.039 37.037 0.00 0.00 0.00 2.57
899 926 9.692325 ATCCCAAATCTATAATTCTAGATTGCC 57.308 33.333 20.68 0.00 44.08 4.52
901 928 9.525826 CCCAAATCTATAATTCTAGATTGCCTT 57.474 33.333 20.68 7.80 44.08 4.35
992 1019 0.946221 CTGCGAACGGAGCTGAAGTT 60.946 55.000 2.59 0.00 35.92 2.66
995 1022 1.390463 GCGAACGGAGCTGAAGTTAAG 59.610 52.381 0.00 0.00 0.00 1.85
1135 1162 0.899019 GGAGGAAGACGAAGCTCCTT 59.101 55.000 0.00 0.00 0.00 3.36
1175 1202 3.813143 CGTGCATGATGGCGGCAA 61.813 61.111 18.31 0.00 39.57 4.52
1213 1240 4.804261 GCTTCCTAATAGGATGGATGCGTT 60.804 45.833 19.76 0.00 45.34 4.84
1214 1241 4.271696 TCCTAATAGGATGGATGCGTTG 57.728 45.455 4.61 0.00 40.06 4.10
1215 1242 3.901222 TCCTAATAGGATGGATGCGTTGA 59.099 43.478 4.61 0.00 40.06 3.18
1331 1359 8.050930 ACCCGTGATTATTAGTTTCCTAATTGT 58.949 33.333 0.73 0.00 40.25 2.71
1358 1386 5.960202 AGGCATGGAGTTTCATATTTTCCTT 59.040 36.000 0.00 0.00 0.00 3.36
1366 1394 6.001460 AGTTTCATATTTTCCTTCACGGTGA 58.999 36.000 6.76 6.76 0.00 4.02
1593 1626 4.600012 AAATTTACCTTGCACGAGATCG 57.400 40.909 0.00 0.00 46.33 3.69
1603 1636 4.933064 CGAGATCGTCGGCCTGCC 62.933 72.222 0.00 0.00 45.58 4.85
1629 1662 2.105821 TGAGGAAGGTAACCCACAGTTG 59.894 50.000 0.00 0.00 39.67 3.16
1640 1673 2.159382 CCCACAGTTGGCGATTACTTT 58.841 47.619 0.00 0.00 42.35 2.66
1666 1699 9.725019 TCTTAAGAGCCCATACATACAAATATG 57.275 33.333 0.00 0.00 43.46 1.78
1688 1721 5.258841 TGGGAATATACATAGGACGTCGAT 58.741 41.667 9.92 2.39 0.00 3.59
1689 1722 5.713389 TGGGAATATACATAGGACGTCGATT 59.287 40.000 9.92 0.07 0.00 3.34
1690 1723 6.034591 GGGAATATACATAGGACGTCGATTG 58.965 44.000 9.92 8.91 0.00 2.67
1691 1724 6.127814 GGGAATATACATAGGACGTCGATTGA 60.128 42.308 9.92 0.00 0.00 2.57
1693 1726 7.974501 GGAATATACATAGGACGTCGATTGATT 59.025 37.037 9.92 1.77 0.00 2.57
1694 1727 9.355215 GAATATACATAGGACGTCGATTGATTT 57.645 33.333 9.92 0.00 0.00 2.17
1695 1728 8.912787 ATATACATAGGACGTCGATTGATTTC 57.087 34.615 9.92 0.00 0.00 2.17
1696 1729 4.369182 ACATAGGACGTCGATTGATTTCC 58.631 43.478 9.92 5.09 0.00 3.13
1716 1749 2.421424 CCTTTCATCGGAGGAAGCAAAG 59.579 50.000 5.18 0.60 34.91 2.77
1784 1817 2.281070 ACGGAGGTGCACTGCAAG 60.281 61.111 17.98 7.50 41.47 4.01
1805 1838 1.375551 GCCGCGGGAAGAAGATTAAA 58.624 50.000 29.38 0.00 0.00 1.52
1814 1847 4.402793 GGGAAGAAGATTAAAAAGGCCCTC 59.597 45.833 0.00 0.00 0.00 4.30
1825 1858 4.838152 GGCCCTCGAGCGCATCAA 62.838 66.667 22.66 0.00 0.00 2.57
1867 1904 8.910351 TCTATCTATCCATGAGTATATGTCCG 57.090 38.462 0.00 0.00 0.00 4.79
1887 1924 3.966732 CATGCATGCAACGTACGC 58.033 55.556 26.68 0.00 0.00 4.42
1891 1928 4.514569 CATGCAACGTACGCCCGC 62.515 66.667 16.72 15.68 0.00 6.13
1899 1936 3.560278 GTACGCCCGCGGTTGATG 61.560 66.667 26.12 9.44 44.69 3.07
1900 1937 3.761140 TACGCCCGCGGTTGATGA 61.761 61.111 26.12 0.41 44.69 2.92
1901 1938 3.298115 TACGCCCGCGGTTGATGAA 62.298 57.895 26.12 0.00 44.69 2.57
1902 1939 2.581208 TACGCCCGCGGTTGATGAAT 62.581 55.000 26.12 2.75 44.69 2.57
1903 1940 2.408835 GCCCGCGGTTGATGAATG 59.591 61.111 26.12 6.10 0.00 2.67
1904 1941 2.406616 GCCCGCGGTTGATGAATGT 61.407 57.895 26.12 0.00 0.00 2.71
1905 1942 1.721487 CCCGCGGTTGATGAATGTC 59.279 57.895 26.12 0.00 0.00 3.06
1906 1943 1.714899 CCCGCGGTTGATGAATGTCC 61.715 60.000 26.12 0.00 0.00 4.02
1924 1961 1.077265 CTTGGTTGCAGGGGTGGAT 59.923 57.895 0.00 0.00 0.00 3.41
1925 1962 0.331278 CTTGGTTGCAGGGGTGGATA 59.669 55.000 0.00 0.00 0.00 2.59
1926 1963 0.331278 TTGGTTGCAGGGGTGGATAG 59.669 55.000 0.00 0.00 0.00 2.08
1927 1964 1.453928 GGTTGCAGGGGTGGATAGC 60.454 63.158 0.00 0.00 0.00 2.97
1928 1965 1.819632 GTTGCAGGGGTGGATAGCG 60.820 63.158 0.00 0.00 0.00 4.26
1929 1966 3.042733 TTGCAGGGGTGGATAGCGG 62.043 63.158 0.00 0.00 0.00 5.52
1930 1967 3.161450 GCAGGGGTGGATAGCGGA 61.161 66.667 0.00 0.00 0.00 5.54
1931 1968 3.142393 CAGGGGTGGATAGCGGAG 58.858 66.667 0.00 0.00 0.00 4.63
1932 1969 1.762460 CAGGGGTGGATAGCGGAGT 60.762 63.158 0.00 0.00 0.00 3.85
1933 1970 0.469331 CAGGGGTGGATAGCGGAGTA 60.469 60.000 0.00 0.00 0.00 2.59
1934 1971 0.263765 AGGGGTGGATAGCGGAGTAA 59.736 55.000 0.00 0.00 0.00 2.24
1935 1972 1.132817 AGGGGTGGATAGCGGAGTAAT 60.133 52.381 0.00 0.00 0.00 1.89
1936 1973 1.002087 GGGGTGGATAGCGGAGTAATG 59.998 57.143 0.00 0.00 0.00 1.90
1937 1974 1.608283 GGGTGGATAGCGGAGTAATGC 60.608 57.143 0.00 0.00 0.00 3.56
1938 1975 1.344763 GGTGGATAGCGGAGTAATGCT 59.655 52.381 0.00 0.00 45.04 3.79
1939 1976 2.561419 GGTGGATAGCGGAGTAATGCTA 59.439 50.000 0.00 0.00 46.75 3.49
1940 1977 3.576648 GTGGATAGCGGAGTAATGCTAC 58.423 50.000 0.00 0.00 45.65 3.58
1941 1978 3.005472 GTGGATAGCGGAGTAATGCTACA 59.995 47.826 0.00 0.00 45.65 2.74
1942 1979 3.005472 TGGATAGCGGAGTAATGCTACAC 59.995 47.826 0.00 0.00 45.65 2.90
1943 1980 2.768833 TAGCGGAGTAATGCTACACG 57.231 50.000 0.00 0.00 42.48 4.49
1944 1981 0.815734 AGCGGAGTAATGCTACACGT 59.184 50.000 0.00 0.00 40.28 4.49
1945 1982 2.019249 AGCGGAGTAATGCTACACGTA 58.981 47.619 0.00 0.00 40.28 3.57
1946 1983 2.114825 GCGGAGTAATGCTACACGTAC 58.885 52.381 0.00 0.00 34.83 3.67
1947 1984 2.478370 GCGGAGTAATGCTACACGTACA 60.478 50.000 0.00 0.00 34.83 2.90
1948 1985 3.761657 CGGAGTAATGCTACACGTACAA 58.238 45.455 0.00 0.00 0.00 2.41
1949 1986 4.168014 CGGAGTAATGCTACACGTACAAA 58.832 43.478 0.00 0.00 0.00 2.83
1950 1987 4.030977 CGGAGTAATGCTACACGTACAAAC 59.969 45.833 0.00 0.00 0.00 2.93
1968 2005 8.075593 GTACAAACGAGTTATAAGGTTTCACA 57.924 34.615 0.00 0.00 30.73 3.58
1969 2006 7.556733 ACAAACGAGTTATAAGGTTTCACAA 57.443 32.000 0.00 0.00 30.73 3.33
1970 2007 7.987649 ACAAACGAGTTATAAGGTTTCACAAA 58.012 30.769 0.00 0.00 30.73 2.83
1971 2008 8.460428 ACAAACGAGTTATAAGGTTTCACAAAA 58.540 29.630 0.00 0.00 30.73 2.44
1972 2009 9.291664 CAAACGAGTTATAAGGTTTCACAAAAA 57.708 29.630 0.00 0.00 30.73 1.94
1974 2011 9.458374 AACGAGTTATAAGGTTTCACAAAAATG 57.542 29.630 0.00 0.00 0.00 2.32
1975 2012 8.079809 ACGAGTTATAAGGTTTCACAAAAATGG 58.920 33.333 0.00 0.00 0.00 3.16
1976 2013 8.079809 CGAGTTATAAGGTTTCACAAAAATGGT 58.920 33.333 0.00 0.00 0.00 3.55
1977 2014 9.758651 GAGTTATAAGGTTTCACAAAAATGGTT 57.241 29.630 0.00 0.00 0.00 3.67
1984 2021 9.454859 AAGGTTTCACAAAAATGGTTAATTTGA 57.545 25.926 5.68 0.00 38.52 2.69
1985 2022 9.625747 AGGTTTCACAAAAATGGTTAATTTGAT 57.374 25.926 5.68 0.00 38.52 2.57
1989 2026 8.970859 TCACAAAAATGGTTAATTTGATTGGT 57.029 26.923 5.68 0.00 38.52 3.67
1990 2027 9.050601 TCACAAAAATGGTTAATTTGATTGGTC 57.949 29.630 5.68 0.00 38.52 4.02
1991 2028 8.834465 CACAAAAATGGTTAATTTGATTGGTCA 58.166 29.630 5.68 0.00 38.52 4.02
1992 2029 9.401058 ACAAAAATGGTTAATTTGATTGGTCAA 57.599 25.926 5.68 0.00 42.41 3.18
1999 2036 8.694540 TGGTTAATTTGATTGGTCAATAGATGG 58.305 33.333 0.00 0.00 43.49 3.51
2000 2037 8.143835 GGTTAATTTGATTGGTCAATAGATGGG 58.856 37.037 0.00 0.00 43.49 4.00
2001 2038 6.736110 AATTTGATTGGTCAATAGATGGGG 57.264 37.500 0.00 0.00 43.49 4.96
2002 2039 5.464588 TTTGATTGGTCAATAGATGGGGA 57.535 39.130 0.00 0.00 43.49 4.81
2003 2040 4.712051 TGATTGGTCAATAGATGGGGAG 57.288 45.455 0.00 0.00 0.00 4.30
2004 2041 3.395607 TGATTGGTCAATAGATGGGGAGG 59.604 47.826 0.00 0.00 0.00 4.30
2005 2042 1.140312 TGGTCAATAGATGGGGAGGC 58.860 55.000 0.00 0.00 0.00 4.70
2006 2043 0.035458 GGTCAATAGATGGGGAGGCG 59.965 60.000 0.00 0.00 0.00 5.52
2007 2044 0.035458 GTCAATAGATGGGGAGGCGG 59.965 60.000 0.00 0.00 0.00 6.13
2008 2045 1.302832 CAATAGATGGGGAGGCGGC 60.303 63.158 0.00 0.00 0.00 6.53
2009 2046 2.529744 AATAGATGGGGAGGCGGCC 61.530 63.158 12.11 12.11 0.00 6.13
2020 2057 4.785453 GGCGGCCCACCTCTTCTG 62.785 72.222 8.12 0.00 0.00 3.02
2021 2058 3.706373 GCGGCCCACCTCTTCTGA 61.706 66.667 0.00 0.00 0.00 3.27
2022 2059 3.068881 CGGCCCACCTCTTCTGAA 58.931 61.111 0.00 0.00 0.00 3.02
2023 2060 1.374947 CGGCCCACCTCTTCTGAAA 59.625 57.895 0.00 0.00 0.00 2.69
2024 2061 0.250727 CGGCCCACCTCTTCTGAAAA 60.251 55.000 0.00 0.00 0.00 2.29
2025 2062 1.614317 CGGCCCACCTCTTCTGAAAAT 60.614 52.381 0.00 0.00 0.00 1.82
2026 2063 2.095461 GGCCCACCTCTTCTGAAAATC 58.905 52.381 0.00 0.00 0.00 2.17
2027 2064 2.555227 GGCCCACCTCTTCTGAAAATCA 60.555 50.000 0.00 0.00 0.00 2.57
2028 2065 3.157087 GCCCACCTCTTCTGAAAATCAA 58.843 45.455 0.00 0.00 0.00 2.57
2029 2066 3.192212 GCCCACCTCTTCTGAAAATCAAG 59.808 47.826 0.00 0.00 0.00 3.02
2030 2067 3.760684 CCCACCTCTTCTGAAAATCAAGG 59.239 47.826 0.00 0.00 0.00 3.61
2031 2068 4.507335 CCCACCTCTTCTGAAAATCAAGGA 60.507 45.833 3.48 0.00 0.00 3.36
2032 2069 5.072741 CCACCTCTTCTGAAAATCAAGGAA 58.927 41.667 3.48 0.00 0.00 3.36
2033 2070 5.182760 CCACCTCTTCTGAAAATCAAGGAAG 59.817 44.000 3.48 3.77 32.88 3.46
2034 2071 5.182760 CACCTCTTCTGAAAATCAAGGAAGG 59.817 44.000 8.57 0.00 32.64 3.46
2035 2072 4.704057 CCTCTTCTGAAAATCAAGGAAGGG 59.296 45.833 8.57 6.10 32.64 3.95
2036 2073 4.666512 TCTTCTGAAAATCAAGGAAGGGG 58.333 43.478 8.57 0.00 32.64 4.79
2037 2074 3.456380 TCTGAAAATCAAGGAAGGGGG 57.544 47.619 0.00 0.00 0.00 5.40
2057 2094 6.451064 GGGGGACAAGTTTATGATTAGTTG 57.549 41.667 0.00 0.00 0.00 3.16
2058 2095 6.184789 GGGGGACAAGTTTATGATTAGTTGA 58.815 40.000 0.00 0.00 0.00 3.18
2059 2096 6.833933 GGGGGACAAGTTTATGATTAGTTGAT 59.166 38.462 0.00 0.00 0.00 2.57
2060 2097 7.996644 GGGGGACAAGTTTATGATTAGTTGATA 59.003 37.037 0.00 0.00 0.00 2.15
2061 2098 9.057089 GGGGACAAGTTTATGATTAGTTGATAG 57.943 37.037 0.00 0.00 0.00 2.08
2062 2099 9.832445 GGGACAAGTTTATGATTAGTTGATAGA 57.168 33.333 0.00 0.00 0.00 1.98
2082 2119 9.539825 TGATAGATGAAGAAAATTCTAGTCAGC 57.460 33.333 5.41 5.41 36.28 4.26
2083 2120 6.900568 AGATGAAGAAAATTCTAGTCAGCG 57.099 37.500 7.20 0.00 36.24 5.18
2084 2121 6.402222 AGATGAAGAAAATTCTAGTCAGCGT 58.598 36.000 7.20 0.00 36.24 5.07
2085 2122 5.845985 TGAAGAAAATTCTAGTCAGCGTG 57.154 39.130 0.00 0.00 36.28 5.34
2086 2123 5.297547 TGAAGAAAATTCTAGTCAGCGTGT 58.702 37.500 0.00 0.00 36.28 4.49
2087 2124 6.452242 TGAAGAAAATTCTAGTCAGCGTGTA 58.548 36.000 0.00 0.00 36.28 2.90
2088 2125 6.926826 TGAAGAAAATTCTAGTCAGCGTGTAA 59.073 34.615 0.00 0.00 36.28 2.41
2089 2126 7.602644 TGAAGAAAATTCTAGTCAGCGTGTAAT 59.397 33.333 0.00 0.00 36.28 1.89
2090 2127 7.907214 AGAAAATTCTAGTCAGCGTGTAATT 57.093 32.000 0.00 0.00 35.34 1.40
2091 2128 7.743104 AGAAAATTCTAGTCAGCGTGTAATTG 58.257 34.615 0.00 0.00 35.34 2.32
2092 2129 5.470845 AATTCTAGTCAGCGTGTAATTGC 57.529 39.130 0.00 0.00 0.00 3.56
2093 2130 2.526077 TCTAGTCAGCGTGTAATTGCG 58.474 47.619 0.00 0.00 35.87 4.85
2094 2131 2.094906 TCTAGTCAGCGTGTAATTGCGT 60.095 45.455 0.00 0.00 35.87 5.24
2095 2132 0.790207 AGTCAGCGTGTAATTGCGTG 59.210 50.000 0.00 0.00 35.87 5.34
2096 2133 0.511221 GTCAGCGTGTAATTGCGTGT 59.489 50.000 0.00 0.00 35.87 4.49
2097 2134 1.722464 GTCAGCGTGTAATTGCGTGTA 59.278 47.619 0.00 0.00 35.87 2.90
2098 2135 2.156117 GTCAGCGTGTAATTGCGTGTAA 59.844 45.455 0.00 0.00 35.87 2.41
2099 2136 2.156117 TCAGCGTGTAATTGCGTGTAAC 59.844 45.455 0.00 0.00 35.87 2.50
2100 2137 2.156891 CAGCGTGTAATTGCGTGTAACT 59.843 45.455 0.00 0.00 35.87 2.24
2101 2138 2.410730 AGCGTGTAATTGCGTGTAACTC 59.589 45.455 0.00 0.00 35.87 3.01
2102 2139 2.410730 GCGTGTAATTGCGTGTAACTCT 59.589 45.455 0.00 0.00 31.75 3.24
2103 2140 3.120786 GCGTGTAATTGCGTGTAACTCTT 60.121 43.478 0.00 0.00 31.75 2.85
2104 2141 4.609783 GCGTGTAATTGCGTGTAACTCTTT 60.610 41.667 0.00 0.00 31.75 2.52
2105 2142 4.838642 CGTGTAATTGCGTGTAACTCTTTG 59.161 41.667 0.00 0.00 31.75 2.77
2106 2143 5.557514 CGTGTAATTGCGTGTAACTCTTTGT 60.558 40.000 0.00 0.00 31.75 2.83
2107 2144 6.345961 CGTGTAATTGCGTGTAACTCTTTGTA 60.346 38.462 0.00 0.00 31.75 2.41
2108 2145 7.515643 GTGTAATTGCGTGTAACTCTTTGTAT 58.484 34.615 0.00 0.00 31.75 2.29
2109 2146 7.477422 GTGTAATTGCGTGTAACTCTTTGTATG 59.523 37.037 0.00 0.00 31.75 2.39
2110 2147 6.554334 AATTGCGTGTAACTCTTTGTATGT 57.446 33.333 0.00 0.00 31.75 2.29
2111 2148 5.994887 TTGCGTGTAACTCTTTGTATGTT 57.005 34.783 0.00 0.00 31.75 2.71
2112 2149 5.994887 TGCGTGTAACTCTTTGTATGTTT 57.005 34.783 0.00 0.00 31.75 2.83
2113 2150 7.479897 TTGCGTGTAACTCTTTGTATGTTTA 57.520 32.000 0.00 0.00 31.75 2.01
2114 2151 7.479897 TGCGTGTAACTCTTTGTATGTTTAA 57.520 32.000 0.00 0.00 31.75 1.52
2115 2152 8.090250 TGCGTGTAACTCTTTGTATGTTTAAT 57.910 30.769 0.00 0.00 31.75 1.40
2116 2153 9.205719 TGCGTGTAACTCTTTGTATGTTTAATA 57.794 29.630 0.00 0.00 31.75 0.98
2140 2177 9.692749 ATATTATTATGGATAGCGTATGGTTCG 57.307 33.333 0.00 0.00 0.00 3.95
2145 2182 3.131577 TGGATAGCGTATGGTTCGAAGTT 59.868 43.478 0.00 0.00 0.00 2.66
2214 2251 0.250513 GGACGCTCAAGGTGGAGATT 59.749 55.000 0.00 0.00 37.05 2.40
2215 2252 1.363744 GACGCTCAAGGTGGAGATTG 58.636 55.000 0.00 0.00 37.05 2.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 3.754965 TGAAGACATGCTGTTTAAGGCT 58.245 40.909 0.00 0.00 0.00 4.58
329 346 9.362539 TCGTAACTGTTGTTAAAGAATATCTCC 57.637 33.333 2.69 0.00 39.96 3.71
340 357 8.065407 GTCACATGATTTCGTAACTGTTGTTAA 58.935 33.333 0.00 0.00 39.96 2.01
355 379 5.710099 ACATCTAAAACGGGTCACATGATTT 59.290 36.000 0.00 0.00 0.00 2.17
357 381 4.843728 ACATCTAAAACGGGTCACATGAT 58.156 39.130 0.00 0.00 0.00 2.45
524 549 4.483950 CACTATCTCCAGGGATAGGTTGA 58.516 47.826 16.95 3.72 45.50 3.18
630 656 6.494666 ACGTCATCCCCTTGATTAGAATTA 57.505 37.500 0.00 0.00 0.00 1.40
690 716 4.514401 CTTCCTTGGGCTTTACTTCGTAT 58.486 43.478 0.00 0.00 0.00 3.06
760 786 6.072199 AGCAAGAGGGATACTGAAGAAATT 57.928 37.500 0.00 0.00 0.00 1.82
762 788 4.080863 GGAGCAAGAGGGATACTGAAGAAA 60.081 45.833 0.00 0.00 0.00 2.52
782 808 9.311916 CATCAATCTTGTCTTAGAAAGTAGGAG 57.688 37.037 0.00 0.00 0.00 3.69
792 818 9.880064 CATAAGAATGCATCAATCTTGTCTTAG 57.120 33.333 18.32 8.16 34.89 2.18
806 832 3.540617 TGGCACGTACATAAGAATGCAT 58.459 40.909 0.00 0.00 36.50 3.96
899 926 7.562454 TTAAATAAGAATCGTGGGGCTTAAG 57.438 36.000 0.00 0.00 0.00 1.85
901 928 9.226606 CATATTAAATAAGAATCGTGGGGCTTA 57.773 33.333 0.00 0.00 0.00 3.09
932 959 1.817941 GTTCAGTGGGTGCACGTGT 60.818 57.895 18.38 0.00 0.00 4.49
1058 1085 2.364317 AGGCCAGGCGCTCTTCTA 60.364 61.111 7.64 0.00 37.74 2.10
1135 1162 4.776322 CACGATGGGGGAAGCGCA 62.776 66.667 11.47 0.00 0.00 6.09
1331 1359 6.127366 GGAAAATATGAAACTCCATGCCTGAA 60.127 38.462 0.00 0.00 0.00 3.02
1358 1386 0.594602 CTGACCGTACTTCACCGTGA 59.405 55.000 0.00 0.00 0.00 4.35
1366 1394 6.348213 GCAATTTACATTGACTGACCGTACTT 60.348 38.462 5.78 0.00 42.35 2.24
1593 1626 3.655810 CTCAGTCAGGCAGGCCGAC 62.656 68.421 20.18 20.18 41.95 4.79
1603 1636 2.028020 GTGGGTTACCTTCCTCAGTCAG 60.028 54.545 0.00 0.00 37.76 3.51
1629 1662 3.560481 GGGCTCTTAAGAAAGTAATCGCC 59.440 47.826 16.04 16.04 34.13 5.54
1640 1673 9.725019 CATATTTGTATGTATGGGCTCTTAAGA 57.275 33.333 4.81 4.81 0.00 2.10
1666 1699 5.831702 ATCGACGTCCTATGTATATTCCC 57.168 43.478 10.58 0.00 0.00 3.97
1688 1721 4.568072 TCCTCCGATGAAAGGAAATCAA 57.432 40.909 0.00 0.00 38.74 2.57
1689 1722 4.568072 TTCCTCCGATGAAAGGAAATCA 57.432 40.909 1.44 0.00 46.20 2.57
1693 1726 1.628340 TGCTTCCTCCGATGAAAGGAA 59.372 47.619 3.97 3.97 46.83 3.36
1694 1727 1.275666 TGCTTCCTCCGATGAAAGGA 58.724 50.000 0.00 0.00 39.94 3.36
1695 1728 2.113860 TTGCTTCCTCCGATGAAAGG 57.886 50.000 0.00 0.00 0.00 3.11
1696 1729 2.159462 GCTTTGCTTCCTCCGATGAAAG 60.159 50.000 0.00 0.00 0.00 2.62
1757 1790 3.745803 ACCTCCGTCGCGAAGACC 61.746 66.667 23.78 3.77 46.92 3.85
1784 1817 2.319890 TAATCTTCTTCCCGCGGCCC 62.320 60.000 22.85 0.00 0.00 5.80
1788 1821 3.730963 GCCTTTTTAATCTTCTTCCCGCG 60.731 47.826 0.00 0.00 0.00 6.46
1814 1847 0.651610 GCGTACAATTGATGCGCTCG 60.652 55.000 25.72 14.87 44.00 5.03
1887 1924 1.714899 GGACATTCATCAACCGCGGG 61.715 60.000 31.76 13.23 0.00 6.13
1891 1928 2.436417 ACCAAGGACATTCATCAACCG 58.564 47.619 0.00 0.00 0.00 4.44
1893 1930 3.005684 TGCAACCAAGGACATTCATCAAC 59.994 43.478 0.00 0.00 0.00 3.18
1895 1932 2.821378 CTGCAACCAAGGACATTCATCA 59.179 45.455 0.00 0.00 0.00 3.07
1896 1933 2.165030 CCTGCAACCAAGGACATTCATC 59.835 50.000 0.00 0.00 0.00 2.92
1897 1934 2.173519 CCTGCAACCAAGGACATTCAT 58.826 47.619 0.00 0.00 0.00 2.57
1898 1935 1.619654 CCTGCAACCAAGGACATTCA 58.380 50.000 0.00 0.00 0.00 2.57
1899 1936 0.890683 CCCTGCAACCAAGGACATTC 59.109 55.000 0.00 0.00 0.00 2.67
1900 1937 0.542702 CCCCTGCAACCAAGGACATT 60.543 55.000 0.00 0.00 0.00 2.71
1901 1938 1.077265 CCCCTGCAACCAAGGACAT 59.923 57.895 0.00 0.00 0.00 3.06
1902 1939 2.391130 ACCCCTGCAACCAAGGACA 61.391 57.895 0.00 0.00 0.00 4.02
1903 1940 1.903404 CACCCCTGCAACCAAGGAC 60.903 63.158 0.00 0.00 0.00 3.85
1904 1941 2.520458 CACCCCTGCAACCAAGGA 59.480 61.111 0.00 0.00 0.00 3.36
1905 1942 2.445492 ATCCACCCCTGCAACCAAGG 62.445 60.000 0.00 0.00 0.00 3.61
1906 1943 0.331278 TATCCACCCCTGCAACCAAG 59.669 55.000 0.00 0.00 0.00 3.61
1924 1961 2.019249 ACGTGTAGCATTACTCCGCTA 58.981 47.619 0.00 0.00 39.70 4.26
1925 1962 0.815734 ACGTGTAGCATTACTCCGCT 59.184 50.000 0.00 0.00 42.34 5.52
1926 1963 2.114825 GTACGTGTAGCATTACTCCGC 58.885 52.381 0.00 0.00 32.08 5.54
1927 1964 3.409851 TGTACGTGTAGCATTACTCCG 57.590 47.619 0.00 0.00 33.80 4.63
1928 1965 4.030977 CGTTTGTACGTGTAGCATTACTCC 59.969 45.833 0.00 0.00 42.72 3.85
1929 1966 5.109815 CGTTTGTACGTGTAGCATTACTC 57.890 43.478 0.00 0.00 42.72 2.59
1942 1979 7.096106 TGTGAAACCTTATAACTCGTTTGTACG 60.096 37.037 5.66 0.00 42.71 3.67
1943 1980 8.075593 TGTGAAACCTTATAACTCGTTTGTAC 57.924 34.615 5.66 0.00 34.36 2.90
1944 1981 8.659925 TTGTGAAACCTTATAACTCGTTTGTA 57.340 30.769 5.66 0.00 34.36 2.41
1945 1982 7.556733 TTGTGAAACCTTATAACTCGTTTGT 57.443 32.000 5.66 0.00 34.36 2.83
1946 1983 8.844441 TTTTGTGAAACCTTATAACTCGTTTG 57.156 30.769 5.66 0.00 34.36 2.93
1948 1985 9.458374 CATTTTTGTGAAACCTTATAACTCGTT 57.542 29.630 0.00 0.00 34.36 3.85
1949 1986 8.079809 CCATTTTTGTGAAACCTTATAACTCGT 58.920 33.333 0.00 0.00 34.36 4.18
1950 1987 8.079809 ACCATTTTTGTGAAACCTTATAACTCG 58.920 33.333 0.00 0.00 34.36 4.18
1951 1988 9.758651 AACCATTTTTGTGAAACCTTATAACTC 57.241 29.630 0.00 0.00 34.36 3.01
1958 1995 9.454859 TCAAATTAACCATTTTTGTGAAACCTT 57.545 25.926 0.00 0.00 32.24 3.50
1959 1996 9.625747 ATCAAATTAACCATTTTTGTGAAACCT 57.374 25.926 0.00 0.00 32.24 3.50
1963 2000 9.401058 ACCAATCAAATTAACCATTTTTGTGAA 57.599 25.926 0.00 0.00 32.24 3.18
1964 2001 8.970859 ACCAATCAAATTAACCATTTTTGTGA 57.029 26.923 0.00 0.00 32.24 3.58
1965 2002 8.834465 TGACCAATCAAATTAACCATTTTTGTG 58.166 29.630 0.00 0.00 32.24 3.33
1966 2003 8.970859 TGACCAATCAAATTAACCATTTTTGT 57.029 26.923 0.00 0.00 32.24 2.83
1982 2019 3.395607 CCTCCCCATCTATTGACCAATCA 59.604 47.826 0.00 0.00 32.50 2.57
1983 2020 3.812167 GCCTCCCCATCTATTGACCAATC 60.812 52.174 0.00 0.00 32.50 2.67
1984 2021 2.108952 GCCTCCCCATCTATTGACCAAT 59.891 50.000 0.64 0.64 34.93 3.16
1985 2022 1.494721 GCCTCCCCATCTATTGACCAA 59.505 52.381 0.00 0.00 0.00 3.67
1986 2023 1.140312 GCCTCCCCATCTATTGACCA 58.860 55.000 0.00 0.00 0.00 4.02
1987 2024 0.035458 CGCCTCCCCATCTATTGACC 59.965 60.000 0.00 0.00 0.00 4.02
1988 2025 0.035458 CCGCCTCCCCATCTATTGAC 59.965 60.000 0.00 0.00 0.00 3.18
1989 2026 1.768684 GCCGCCTCCCCATCTATTGA 61.769 60.000 0.00 0.00 0.00 2.57
1990 2027 1.302832 GCCGCCTCCCCATCTATTG 60.303 63.158 0.00 0.00 0.00 1.90
1991 2028 2.529744 GGCCGCCTCCCCATCTATT 61.530 63.158 0.71 0.00 0.00 1.73
1992 2029 2.930562 GGCCGCCTCCCCATCTAT 60.931 66.667 0.71 0.00 0.00 1.98
2003 2040 4.785453 CAGAAGAGGTGGGCCGCC 62.785 72.222 28.99 28.99 40.50 6.13
2004 2041 2.748058 TTTCAGAAGAGGTGGGCCGC 62.748 60.000 9.05 9.05 40.50 6.53
2005 2042 0.250727 TTTTCAGAAGAGGTGGGCCG 60.251 55.000 0.00 0.00 40.50 6.13
2006 2043 2.095461 GATTTTCAGAAGAGGTGGGCC 58.905 52.381 0.00 0.00 0.00 5.80
2007 2044 2.795329 TGATTTTCAGAAGAGGTGGGC 58.205 47.619 0.00 0.00 0.00 5.36
2008 2045 3.760684 CCTTGATTTTCAGAAGAGGTGGG 59.239 47.826 0.00 0.00 0.00 4.61
2009 2046 4.655963 TCCTTGATTTTCAGAAGAGGTGG 58.344 43.478 0.00 0.00 0.00 4.61
2010 2047 5.182760 CCTTCCTTGATTTTCAGAAGAGGTG 59.817 44.000 7.64 0.00 33.19 4.00
2011 2048 5.320277 CCTTCCTTGATTTTCAGAAGAGGT 58.680 41.667 7.64 0.00 33.19 3.85
2012 2049 4.704057 CCCTTCCTTGATTTTCAGAAGAGG 59.296 45.833 7.64 0.00 33.19 3.69
2013 2050 4.704057 CCCCTTCCTTGATTTTCAGAAGAG 59.296 45.833 7.64 0.00 33.19 2.85
2014 2051 4.509122 CCCCCTTCCTTGATTTTCAGAAGA 60.509 45.833 7.64 0.00 33.19 2.87
2015 2052 3.766051 CCCCCTTCCTTGATTTTCAGAAG 59.234 47.826 0.00 0.00 31.98 2.85
2016 2053 3.778265 CCCCCTTCCTTGATTTTCAGAA 58.222 45.455 0.00 0.00 0.00 3.02
2017 2054 3.456380 CCCCCTTCCTTGATTTTCAGA 57.544 47.619 0.00 0.00 0.00 3.27
2034 2071 6.184789 TCAACTAATCATAAACTTGTCCCCC 58.815 40.000 0.00 0.00 0.00 5.40
2035 2072 7.881775 ATCAACTAATCATAAACTTGTCCCC 57.118 36.000 0.00 0.00 0.00 4.81
2036 2073 9.832445 TCTATCAACTAATCATAAACTTGTCCC 57.168 33.333 0.00 0.00 0.00 4.46
2056 2093 9.539825 GCTGACTAGAATTTTCTTCATCTATCA 57.460 33.333 0.00 0.00 38.70 2.15
2057 2094 8.698854 CGCTGACTAGAATTTTCTTCATCTATC 58.301 37.037 0.00 0.00 38.70 2.08
2058 2095 8.200792 ACGCTGACTAGAATTTTCTTCATCTAT 58.799 33.333 0.00 0.00 38.70 1.98
2059 2096 7.489435 CACGCTGACTAGAATTTTCTTCATCTA 59.511 37.037 0.00 0.00 38.70 1.98
2060 2097 6.312426 CACGCTGACTAGAATTTTCTTCATCT 59.688 38.462 0.00 0.00 38.70 2.90
2061 2098 6.091441 ACACGCTGACTAGAATTTTCTTCATC 59.909 38.462 0.00 0.00 38.70 2.92
2062 2099 5.934625 ACACGCTGACTAGAATTTTCTTCAT 59.065 36.000 0.00 0.00 38.70 2.57
2063 2100 5.297547 ACACGCTGACTAGAATTTTCTTCA 58.702 37.500 0.00 0.00 38.70 3.02
2064 2101 5.847670 ACACGCTGACTAGAATTTTCTTC 57.152 39.130 0.00 0.00 38.70 2.87
2065 2102 7.907214 ATTACACGCTGACTAGAATTTTCTT 57.093 32.000 0.00 0.00 38.70 2.52
2066 2103 7.624344 GCAATTACACGCTGACTAGAATTTTCT 60.624 37.037 0.00 0.00 41.24 2.52
2067 2104 6.466097 GCAATTACACGCTGACTAGAATTTTC 59.534 38.462 0.00 0.00 0.00 2.29
2068 2105 6.314784 GCAATTACACGCTGACTAGAATTTT 58.685 36.000 0.00 0.00 0.00 1.82
2069 2106 5.445939 CGCAATTACACGCTGACTAGAATTT 60.446 40.000 0.00 0.00 0.00 1.82
2070 2107 4.032900 CGCAATTACACGCTGACTAGAATT 59.967 41.667 0.00 0.00 0.00 2.17
2071 2108 3.551890 CGCAATTACACGCTGACTAGAAT 59.448 43.478 0.00 0.00 0.00 2.40
2072 2109 2.921121 CGCAATTACACGCTGACTAGAA 59.079 45.455 0.00 0.00 0.00 2.10
2073 2110 2.094906 ACGCAATTACACGCTGACTAGA 60.095 45.455 0.00 0.00 0.00 2.43
2074 2111 2.028045 CACGCAATTACACGCTGACTAG 59.972 50.000 0.00 0.00 0.00 2.57
2075 2112 1.989864 CACGCAATTACACGCTGACTA 59.010 47.619 0.00 0.00 0.00 2.59
2076 2113 0.790207 CACGCAATTACACGCTGACT 59.210 50.000 0.00 0.00 0.00 3.41
2077 2114 0.511221 ACACGCAATTACACGCTGAC 59.489 50.000 0.00 0.00 0.00 3.51
2078 2115 2.067414 TACACGCAATTACACGCTGA 57.933 45.000 0.00 0.00 0.00 4.26
2079 2116 2.156891 AGTTACACGCAATTACACGCTG 59.843 45.455 0.00 0.00 0.00 5.18
2080 2117 2.409975 AGTTACACGCAATTACACGCT 58.590 42.857 0.00 0.00 0.00 5.07
2081 2118 2.410730 AGAGTTACACGCAATTACACGC 59.589 45.455 0.00 0.00 0.00 5.34
2082 2119 4.640805 AAGAGTTACACGCAATTACACG 57.359 40.909 0.00 0.00 0.00 4.49
2083 2120 5.744490 ACAAAGAGTTACACGCAATTACAC 58.256 37.500 0.00 0.00 0.00 2.90
2084 2121 5.994887 ACAAAGAGTTACACGCAATTACA 57.005 34.783 0.00 0.00 0.00 2.41
2085 2122 7.515643 ACATACAAAGAGTTACACGCAATTAC 58.484 34.615 0.00 0.00 0.00 1.89
2086 2123 7.661127 ACATACAAAGAGTTACACGCAATTA 57.339 32.000 0.00 0.00 0.00 1.40
2087 2124 6.554334 ACATACAAAGAGTTACACGCAATT 57.446 33.333 0.00 0.00 0.00 2.32
2088 2125 6.554334 AACATACAAAGAGTTACACGCAAT 57.446 33.333 0.00 0.00 0.00 3.56
2089 2126 5.994887 AACATACAAAGAGTTACACGCAA 57.005 34.783 0.00 0.00 0.00 4.85
2090 2127 5.994887 AAACATACAAAGAGTTACACGCA 57.005 34.783 0.00 0.00 0.00 5.24
2114 2151 9.692749 CGAACCATACGCTATCCATAATAATAT 57.307 33.333 0.00 0.00 0.00 1.28
2115 2152 8.905850 TCGAACCATACGCTATCCATAATAATA 58.094 33.333 0.00 0.00 0.00 0.98
2116 2153 7.778083 TCGAACCATACGCTATCCATAATAAT 58.222 34.615 0.00 0.00 0.00 1.28
2117 2154 7.160547 TCGAACCATACGCTATCCATAATAA 57.839 36.000 0.00 0.00 0.00 1.40
2118 2155 6.762702 TCGAACCATACGCTATCCATAATA 57.237 37.500 0.00 0.00 0.00 0.98
2119 2156 5.654603 TCGAACCATACGCTATCCATAAT 57.345 39.130 0.00 0.00 0.00 1.28
2120 2157 5.010314 ACTTCGAACCATACGCTATCCATAA 59.990 40.000 0.00 0.00 0.00 1.90
2121 2158 4.521639 ACTTCGAACCATACGCTATCCATA 59.478 41.667 0.00 0.00 0.00 2.74
2122 2159 3.321111 ACTTCGAACCATACGCTATCCAT 59.679 43.478 0.00 0.00 0.00 3.41
2123 2160 2.691526 ACTTCGAACCATACGCTATCCA 59.308 45.455 0.00 0.00 0.00 3.41
2124 2161 3.366440 ACTTCGAACCATACGCTATCC 57.634 47.619 0.00 0.00 0.00 2.59
2125 2162 3.489785 CCAACTTCGAACCATACGCTATC 59.510 47.826 0.00 0.00 0.00 2.08
2126 2163 3.118884 ACCAACTTCGAACCATACGCTAT 60.119 43.478 0.00 0.00 0.00 2.97
2127 2164 2.231964 ACCAACTTCGAACCATACGCTA 59.768 45.455 0.00 0.00 0.00 4.26
2140 2177 1.068588 GCTGTCCCCAAAACCAACTTC 59.931 52.381 0.00 0.00 0.00 3.01
2145 2182 2.203422 CCGCTGTCCCCAAAACCA 60.203 61.111 0.00 0.00 0.00 3.67
2166 2203 2.203294 AGGCCGTCCACAAACACC 60.203 61.111 0.00 0.00 33.74 4.16


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

AutoCloner maintained by Alex Coulton.