Multiple sequence alignment - TraesCS1B01G165800

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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 TraesCS1B01G165800 chr1B 100.000 2465 0 0 1 2465 288961283 288958819 0.000000e+00 4553.0
1 TraesCS1B01G165800 chr1B 83.770 610 79 16 1875 2465 137420102 137419494 5.950000e-156 560.0
2 TraesCS1B01G165800 chr1D 93.275 1026 54 5 521 1543 201057755 201056742 0.000000e+00 1498.0
3 TraesCS1B01G165800 chr1D 92.489 466 31 4 61 524 201058363 201057900 0.000000e+00 664.0
4 TraesCS1B01G165800 chr1D 85.082 610 71 7 1875 2465 84616902 84616294 2.710000e-169 604.0
5 TraesCS1B01G165800 chr1D 84.779 611 70 16 1874 2465 84730908 84730302 2.110000e-165 592.0
6 TraesCS1B01G165800 chr1D 91.772 316 20 4 1534 1847 201056722 201056411 3.760000e-118 435.0
7 TraesCS1B01G165800 chr1D 91.597 119 6 3 231 348 201057888 201057773 7.050000e-36 161.0
8 TraesCS1B01G165800 chr1A 92.795 1027 58 7 521 1543 254997143 254996129 0.000000e+00 1472.0
9 TraesCS1B01G165800 chr1A 89.936 467 41 6 61 524 254997751 254997288 4.540000e-167 597.0
10 TraesCS1B01G165800 chr1A 84.477 612 72 17 1874 2465 78557803 78557195 1.270000e-162 582.0
11 TraesCS1B01G165800 chr1A 91.195 318 22 4 1532 1847 254996111 254995798 6.300000e-116 427.0
12 TraesCS1B01G165800 chr5A 81.400 500 90 3 973 1469 675958368 675957869 2.950000e-109 405.0
13 TraesCS1B01G165800 chr7D 91.892 37 3 0 393 429 104616644 104616608 4.000000e-03 52.8


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 TraesCS1B01G165800 chr1B 288958819 288961283 2464 True 4553.0 4553 100.000000 1 2465 1 chr1B.!!$R2 2464
1 TraesCS1B01G165800 chr1B 137419494 137420102 608 True 560.0 560 83.770000 1875 2465 1 chr1B.!!$R1 590
2 TraesCS1B01G165800 chr1D 201056411 201058363 1952 True 689.5 1498 92.283250 61 1847 4 chr1D.!!$R3 1786
3 TraesCS1B01G165800 chr1D 84616294 84616902 608 True 604.0 604 85.082000 1875 2465 1 chr1D.!!$R1 590
4 TraesCS1B01G165800 chr1D 84730302 84730908 606 True 592.0 592 84.779000 1874 2465 1 chr1D.!!$R2 591
5 TraesCS1B01G165800 chr1A 254995798 254997751 1953 True 832.0 1472 91.308667 61 1847 3 chr1A.!!$R2 1786
6 TraesCS1B01G165800 chr1A 78557195 78557803 608 True 582.0 582 84.477000 1874 2465 1 chr1A.!!$R1 591

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
27 28 0.25361 TGGCCACCGTGGTATTAAGG 59.746 55.0 18.95 0.0 40.46 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1953 2139 0.036732 TTCAGCCGAAGCCACAGAAT 59.963 50.0 0.0 0.0 41.25 2.4 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 0.678950 AAAAGAAATGGCCACCGTGG 59.321 50.000 8.16 13.71 41.55 4.94
20 21 0.469144 AAAGAAATGGCCACCGTGGT 60.469 50.000 18.95 0.00 40.46 4.16
21 22 0.402504 AAGAAATGGCCACCGTGGTA 59.597 50.000 18.95 9.05 40.46 3.25
22 23 0.623723 AGAAATGGCCACCGTGGTAT 59.376 50.000 18.95 10.90 40.46 2.73
23 24 1.005450 AGAAATGGCCACCGTGGTATT 59.995 47.619 18.95 15.68 40.46 1.89
24 25 2.240160 AGAAATGGCCACCGTGGTATTA 59.760 45.455 18.95 3.84 40.46 0.98
25 26 2.810870 AATGGCCACCGTGGTATTAA 57.189 45.000 18.95 1.35 40.46 1.40
26 27 2.341846 ATGGCCACCGTGGTATTAAG 57.658 50.000 18.95 0.00 40.46 1.85
27 28 0.253610 TGGCCACCGTGGTATTAAGG 59.746 55.000 18.95 0.00 40.46 2.69
28 29 0.464916 GGCCACCGTGGTATTAAGGG 60.465 60.000 18.95 0.00 40.46 3.95
29 30 0.253894 GCCACCGTGGTATTAAGGGT 59.746 55.000 18.95 0.00 40.46 4.34
30 31 1.485895 GCCACCGTGGTATTAAGGGTA 59.514 52.381 18.95 0.00 40.46 3.69
31 32 2.093021 GCCACCGTGGTATTAAGGGTAA 60.093 50.000 18.95 0.00 40.46 2.85
32 33 3.434024 GCCACCGTGGTATTAAGGGTAAT 60.434 47.826 18.95 0.00 40.46 1.89
33 34 4.784177 CCACCGTGGTATTAAGGGTAATT 58.216 43.478 9.64 0.00 34.12 1.40
34 35 5.687177 GCCACCGTGGTATTAAGGGTAATTA 60.687 44.000 18.95 0.00 40.46 1.40
35 36 5.759763 CCACCGTGGTATTAAGGGTAATTAC 59.240 44.000 9.64 7.09 34.12 1.89
36 37 6.347696 CACCGTGGTATTAAGGGTAATTACA 58.652 40.000 17.16 0.00 34.12 2.41
37 38 6.822676 CACCGTGGTATTAAGGGTAATTACAA 59.177 38.462 17.16 3.49 34.12 2.41
38 39 7.336427 CACCGTGGTATTAAGGGTAATTACAAA 59.664 37.037 17.16 6.24 34.12 2.83
39 40 7.336679 ACCGTGGTATTAAGGGTAATTACAAAC 59.663 37.037 17.16 6.96 34.12 2.93
40 41 7.553760 CCGTGGTATTAAGGGTAATTACAAACT 59.446 37.037 17.16 9.01 32.10 2.66
41 42 8.949177 CGTGGTATTAAGGGTAATTACAAACTT 58.051 33.333 17.16 17.49 32.10 2.66
43 44 9.810870 TGGTATTAAGGGTAATTACAAACTTGT 57.189 29.630 17.16 12.20 36.93 3.16
50 51 7.207383 AGGGTAATTACAAACTTGTTTTGAGC 58.793 34.615 17.16 0.00 46.76 4.26
51 52 6.981559 GGGTAATTACAAACTTGTTTTGAGCA 59.018 34.615 17.16 0.00 46.76 4.26
52 53 7.169140 GGGTAATTACAAACTTGTTTTGAGCAG 59.831 37.037 17.16 0.00 46.76 4.24
53 54 7.704899 GGTAATTACAAACTTGTTTTGAGCAGT 59.295 33.333 17.16 0.00 46.76 4.40
54 55 7.524294 AATTACAAACTTGTTTTGAGCAGTG 57.476 32.000 0.00 0.00 46.76 3.66
55 56 4.782019 ACAAACTTGTTTTGAGCAGTGA 57.218 36.364 3.81 0.00 46.76 3.41
56 57 4.737054 ACAAACTTGTTTTGAGCAGTGAG 58.263 39.130 3.81 0.00 46.76 3.51
57 58 4.218417 ACAAACTTGTTTTGAGCAGTGAGT 59.782 37.500 3.81 0.00 46.76 3.41
58 59 5.414454 ACAAACTTGTTTTGAGCAGTGAGTA 59.586 36.000 3.81 0.00 46.76 2.59
59 60 6.072175 ACAAACTTGTTTTGAGCAGTGAGTAA 60.072 34.615 3.81 0.00 46.76 2.24
65 66 5.414454 TGTTTTGAGCAGTGAGTAAACTTGT 59.586 36.000 0.00 0.00 0.00 3.16
92 93 5.432885 TTCTCCAACCTTTCGTTTTCATC 57.567 39.130 0.00 0.00 29.93 2.92
142 143 2.418976 GAGGATTTGTGGTACCGCTTTC 59.581 50.000 25.27 17.63 0.00 2.62
196 197 2.438021 AGACTGTTTGTAGAGCACCCAA 59.562 45.455 0.00 0.00 0.00 4.12
249 250 5.746245 TCTGCCTGAATAAAACGTTGTTTTG 59.254 36.000 15.77 1.89 0.00 2.44
262 263 1.961793 TGTTTTGGTTGGTCTCCTCG 58.038 50.000 0.00 0.00 0.00 4.63
310 311 5.048713 ACAAGCCAAGTAACTGTATGAAAGC 60.049 40.000 0.00 0.00 0.00 3.51
314 315 6.884295 AGCCAAGTAACTGTATGAAAGCAATA 59.116 34.615 0.00 0.00 0.00 1.90
377 379 2.796032 CGATTGCGAGCATCTACAGTGA 60.796 50.000 0.00 0.00 40.82 3.41
383 385 3.674682 GCGAGCATCTACAGTGAGTTTCT 60.675 47.826 0.00 0.00 0.00 2.52
384 386 4.489810 CGAGCATCTACAGTGAGTTTCTT 58.510 43.478 0.00 0.00 0.00 2.52
385 387 5.641709 CGAGCATCTACAGTGAGTTTCTTA 58.358 41.667 0.00 0.00 0.00 2.10
388 390 6.393990 AGCATCTACAGTGAGTTTCTTAGTG 58.606 40.000 0.00 0.00 0.00 2.74
389 391 6.209589 AGCATCTACAGTGAGTTTCTTAGTGA 59.790 38.462 0.00 0.00 0.00 3.41
390 392 6.309251 GCATCTACAGTGAGTTTCTTAGTGAC 59.691 42.308 0.00 0.00 0.00 3.67
402 405 2.033675 TCTTAGTGACGCGTTGAACTCA 59.966 45.455 21.52 13.08 0.00 3.41
430 433 1.279271 CCTTTCCCGTCTCCTGAACAT 59.721 52.381 0.00 0.00 0.00 2.71
441 444 3.769300 TCTCCTGAACATTCTTGGATCGA 59.231 43.478 0.00 0.00 32.97 3.59
452 455 8.110860 ACATTCTTGGATCGACTTTGTATTTT 57.889 30.769 0.00 0.00 0.00 1.82
453 456 8.576442 ACATTCTTGGATCGACTTTGTATTTTT 58.424 29.630 0.00 0.00 0.00 1.94
492 495 2.563297 GGTTTAGCCCGGTTCCAAG 58.437 57.895 0.00 0.00 0.00 3.61
494 497 1.162698 GTTTAGCCCGGTTCCAAGAC 58.837 55.000 0.00 0.00 0.00 3.01
499 502 1.956802 CCCGGTTCCAAGACAAAGC 59.043 57.895 0.00 0.00 0.00 3.51
502 505 1.068333 CCGGTTCCAAGACAAAGCATG 60.068 52.381 0.00 0.00 0.00 4.06
540 692 3.084786 GAGTTCCAGAAGGTTCATTGGG 58.915 50.000 0.00 0.00 35.89 4.12
558 710 2.875296 GGGTTGCCCAGATATATTGCA 58.125 47.619 0.00 0.00 44.65 4.08
559 711 2.821969 GGGTTGCCCAGATATATTGCAG 59.178 50.000 0.00 0.00 44.65 4.41
560 712 3.490348 GGTTGCCCAGATATATTGCAGT 58.510 45.455 0.00 0.00 32.88 4.40
561 713 4.506625 GGGTTGCCCAGATATATTGCAGTA 60.507 45.833 0.00 0.00 44.65 2.74
562 714 5.256474 GGTTGCCCAGATATATTGCAGTAT 58.744 41.667 6.95 6.95 32.88 2.12
580 732 5.652452 GCAGTATTACTTCATCCCCAAAAGT 59.348 40.000 0.00 0.00 37.10 2.66
607 759 0.955428 TTGCGCCAATCAGTCTGACC 60.955 55.000 4.18 0.00 0.00 4.02
612 764 1.813513 CCAATCAGTCTGACCGCTTT 58.186 50.000 4.21 0.00 0.00 3.51
622 774 3.252458 GTCTGACCGCTTTTAACCACATT 59.748 43.478 0.00 0.00 0.00 2.71
623 775 3.500680 TCTGACCGCTTTTAACCACATTC 59.499 43.478 0.00 0.00 0.00 2.67
631 786 6.967199 CCGCTTTTAACCACATTCTAGAATTC 59.033 38.462 15.49 0.00 0.00 2.17
649 804 7.528996 AGAATTCTTCATCATTTGACCACAA 57.471 32.000 0.88 0.00 32.84 3.33
684 839 2.303022 GGATTGACTGAAGAGGGTGTCA 59.697 50.000 0.00 0.00 37.62 3.58
687 842 3.475566 TGACTGAAGAGGGTGTCAAAG 57.524 47.619 0.00 0.00 36.64 2.77
756 911 3.129287 GGAATTTCCATGCCACTGTGTAG 59.871 47.826 10.67 0.00 36.28 2.74
759 914 3.719268 TTCCATGCCACTGTGTAGATT 57.281 42.857 7.08 0.00 0.00 2.40
760 915 2.989909 TCCATGCCACTGTGTAGATTG 58.010 47.619 7.08 0.00 0.00 2.67
771 926 2.642311 TGTGTAGATTGCCTTTCCTCCA 59.358 45.455 0.00 0.00 0.00 3.86
773 928 3.691609 GTGTAGATTGCCTTTCCTCCAAG 59.308 47.826 0.00 0.00 0.00 3.61
810 965 7.334421 CAGCTACATTACAAGTGTATCTTTGGT 59.666 37.037 0.00 0.00 33.63 3.67
858 1013 2.415010 CCGTCGAGGAGGCAGATG 59.585 66.667 6.70 0.00 45.00 2.90
872 1027 1.745141 GCAGATGGCAGGTCCTAAGTG 60.745 57.143 0.00 0.00 43.97 3.16
919 1074 6.064846 ACACTTGATTAAGTTGTCTTGCAG 57.935 37.500 0.00 0.00 44.57 4.41
925 1080 7.985634 TGATTAAGTTGTCTTGCAGTTTTTC 57.014 32.000 0.00 0.00 35.36 2.29
937 1092 4.305769 TGCAGTTTTTCCATGAAATTCGG 58.694 39.130 0.00 0.00 31.34 4.30
959 1114 5.644644 GGTGAAAACTCTGCTAATTCCATG 58.355 41.667 0.00 0.00 0.00 3.66
960 1115 5.393461 GGTGAAAACTCTGCTAATTCCATGG 60.393 44.000 4.97 4.97 0.00 3.66
969 1124 5.190528 TCTGCTAATTCCATGGAAACTCTCT 59.809 40.000 30.28 10.74 37.69 3.10
1059 1214 1.153958 GGCAACAATCCGCTTGCTC 60.154 57.895 6.13 0.00 42.11 4.26
1107 1262 2.669569 CCAGTTGGTCCGGCACTG 60.670 66.667 13.19 13.19 38.14 3.66
1113 1268 2.671963 GGTCCGGCACTGGGTTTC 60.672 66.667 0.00 0.00 0.00 2.78
1170 1325 4.870636 TCAATGCAAGGACCCAGAAATAT 58.129 39.130 0.00 0.00 0.00 1.28
1197 1352 2.237392 AGAAACTCCTATGCAGGTCACC 59.763 50.000 0.00 0.00 43.18 4.02
1203 1358 1.141053 CCTATGCAGGTCACCCTAACC 59.859 57.143 0.00 0.00 39.89 2.85
1466 1621 5.417811 TGAGATTGTCAAAGATCTCTGAGC 58.582 41.667 0.00 0.00 45.40 4.26
1476 1631 0.835941 ATCTCTGAGCGGATTGGCTT 59.164 50.000 0.00 0.00 44.93 4.35
1492 1647 2.504175 TGGCTTGTCTCCAATAGTACCC 59.496 50.000 0.00 0.00 0.00 3.69
1502 1657 3.052414 TCCAATAGTACCCAGCTCCTACA 60.052 47.826 0.00 0.00 0.00 2.74
1508 1663 1.501582 ACCCAGCTCCTACATTCCTC 58.498 55.000 0.00 0.00 0.00 3.71
1509 1664 1.273838 ACCCAGCTCCTACATTCCTCA 60.274 52.381 0.00 0.00 0.00 3.86
1524 1679 4.422073 TTCCTCAGTGACATTTGTGAGT 57.578 40.909 0.00 0.00 35.62 3.41
1526 1681 4.780815 TCCTCAGTGACATTTGTGAGTTT 58.219 39.130 0.00 0.00 35.62 2.66
1530 1685 6.060028 TCAGTGACATTTGTGAGTTTTAGC 57.940 37.500 0.00 0.00 0.00 3.09
1533 1688 6.974622 CAGTGACATTTGTGAGTTTTAGCTTT 59.025 34.615 0.00 0.00 0.00 3.51
1574 1759 2.093235 AGCTCTTCAGACCAGGCAATAC 60.093 50.000 0.00 0.00 0.00 1.89
1630 1816 2.417586 TGCTGCAATGTTGATCTCTTCG 59.582 45.455 0.00 0.00 0.00 3.79
1633 1819 4.785658 GCTGCAATGTTGATCTCTTCGATG 60.786 45.833 0.00 0.00 30.84 3.84
1636 1822 4.445453 CAATGTTGATCTCTTCGATGGGA 58.555 43.478 3.00 3.00 30.84 4.37
1670 1856 5.122396 ACGGAAAATAATGTCACTTCTGAGC 59.878 40.000 0.00 0.00 0.00 4.26
1671 1857 5.352569 CGGAAAATAATGTCACTTCTGAGCT 59.647 40.000 0.00 0.00 0.00 4.09
1672 1858 6.128172 CGGAAAATAATGTCACTTCTGAGCTT 60.128 38.462 0.00 0.00 0.00 3.74
1703 1889 8.682128 GCCAGACGAACAATATTTTTCATTTA 57.318 30.769 13.34 0.00 0.00 1.40
1722 1908 6.266558 TCATTTATGTTACCTTGCCAAGTTGT 59.733 34.615 3.37 0.00 0.00 3.32
1735 1921 4.926238 TGCCAAGTTGTTAGTTGTTTGTTG 59.074 37.500 1.45 0.00 33.63 3.33
1749 1935 7.257722 AGTTGTTTGTTGACTTTTGGTATCAG 58.742 34.615 0.00 0.00 0.00 2.90
1751 1937 7.164230 TGTTTGTTGACTTTTGGTATCAGTT 57.836 32.000 0.00 0.00 0.00 3.16
1754 1940 6.385649 TGTTGACTTTTGGTATCAGTTTCC 57.614 37.500 0.00 0.00 0.00 3.13
1770 1956 4.755123 CAGTTTCCTTTCTCGTGTAATGGT 59.245 41.667 0.00 0.00 0.00 3.55
1771 1957 4.755123 AGTTTCCTTTCTCGTGTAATGGTG 59.245 41.667 0.00 0.00 0.00 4.17
1823 2009 4.989279 AATTCTGGCGCTTTTACATGAT 57.011 36.364 7.64 0.00 0.00 2.45
1854 2040 8.730680 ACTTGCAACTTTAAATATCAGTACAGG 58.269 33.333 0.00 0.00 0.00 4.00
1855 2041 7.083875 TGCAACTTTAAATATCAGTACAGGC 57.916 36.000 0.00 0.00 0.00 4.85
1856 2042 6.657117 TGCAACTTTAAATATCAGTACAGGCA 59.343 34.615 0.00 0.00 0.00 4.75
1857 2043 7.148255 TGCAACTTTAAATATCAGTACAGGCAG 60.148 37.037 0.00 0.00 0.00 4.85
1858 2044 7.679638 GCAACTTTAAATATCAGTACAGGCAGG 60.680 40.741 0.00 0.00 0.00 4.85
1859 2045 6.357367 ACTTTAAATATCAGTACAGGCAGGG 58.643 40.000 0.00 0.00 0.00 4.45
1860 2046 2.938956 AATATCAGTACAGGCAGGGC 57.061 50.000 0.00 0.00 0.00 5.19
1861 2047 0.681733 ATATCAGTACAGGCAGGGCG 59.318 55.000 0.00 0.00 0.00 6.13
1862 2048 0.686441 TATCAGTACAGGCAGGGCGT 60.686 55.000 0.00 0.00 0.00 5.68
1863 2049 1.961180 ATCAGTACAGGCAGGGCGTC 61.961 60.000 0.00 0.00 0.00 5.19
1864 2050 2.283966 AGTACAGGCAGGGCGTCT 60.284 61.111 0.00 0.00 0.00 4.18
1865 2051 1.000019 AGTACAGGCAGGGCGTCTA 60.000 57.895 0.00 0.00 0.00 2.59
1866 2052 1.038130 AGTACAGGCAGGGCGTCTAG 61.038 60.000 0.00 0.00 0.00 2.43
1914 2100 1.681327 GACTGTCCGGTGGCTCCTA 60.681 63.158 0.00 0.00 0.00 2.94
1919 2105 0.252197 GTCCGGTGGCTCCTAATGTT 59.748 55.000 0.00 0.00 0.00 2.71
1925 2111 2.092323 GTGGCTCCTAATGTTTGGGAC 58.908 52.381 0.00 0.00 35.14 4.46
1943 2129 5.940617 TGGGACAAGATCATACCCAATAAG 58.059 41.667 14.51 0.00 46.06 1.73
1953 2139 6.413783 TCATACCCAATAAGCATCGAGTTA 57.586 37.500 0.00 0.00 0.00 2.24
1956 2143 7.602644 TCATACCCAATAAGCATCGAGTTATTC 59.397 37.037 7.06 0.00 28.37 1.75
1991 2191 4.525996 TGAACACCAGGATAACATGATGG 58.474 43.478 0.00 0.12 37.07 3.51
2003 2203 3.899052 ACATGATGGAAAAGCATTGGG 57.101 42.857 0.00 0.00 30.67 4.12
2074 2274 1.160137 GCTGCCACATTCTTCTTCGT 58.840 50.000 0.00 0.00 0.00 3.85
2079 2279 4.130857 TGCCACATTCTTCTTCGTTGTAA 58.869 39.130 0.00 0.00 0.00 2.41
2092 2292 2.293122 TCGTTGTAAGCTTGCAAATGCT 59.707 40.909 28.19 7.34 42.66 3.79
2111 2312 2.166459 GCTGTTTGGGAGAAATTAGGCC 59.834 50.000 0.00 0.00 0.00 5.19
2119 2320 4.348168 TGGGAGAAATTAGGCCTATCTGAC 59.652 45.833 17.35 10.84 0.00 3.51
2120 2321 4.263112 GGGAGAAATTAGGCCTATCTGACC 60.263 50.000 17.35 14.77 0.00 4.02
2163 2364 0.453390 CATGGCTTCCTTCTTTCGCC 59.547 55.000 0.00 0.00 41.06 5.54
2165 2366 0.606401 TGGCTTCCTTCTTTCGCCAG 60.606 55.000 0.00 0.00 45.08 4.85
2168 2369 1.676014 GCTTCCTTCTTTCGCCAGCTA 60.676 52.381 0.00 0.00 0.00 3.32
2184 2385 3.552273 CCAGCTACAAGACACAAGTACGT 60.552 47.826 0.00 0.00 0.00 3.57
2188 2389 4.148348 GCTACAAGACACAAGTACGTCAAG 59.852 45.833 0.00 0.00 34.48 3.02
2203 2404 0.983467 TCAAGCTGTGGCACATCCTA 59.017 50.000 22.35 2.32 44.52 2.94
2215 2416 1.066605 CACATCCTATTTGCAGCCTGC 59.933 52.381 10.45 10.45 45.29 4.85
2236 2437 1.686052 GTGGTTGCACTTTGGAATGGA 59.314 47.619 0.00 0.00 28.47 3.41
2245 2446 3.440173 CACTTTGGAATGGACGTAATGCT 59.560 43.478 0.00 0.00 0.00 3.79
2247 2448 1.934589 TGGAATGGACGTAATGCTCG 58.065 50.000 0.00 0.00 0.00 5.03
2248 2449 1.478916 TGGAATGGACGTAATGCTCGA 59.521 47.619 0.00 0.00 0.00 4.04
2254 2455 3.395639 TGGACGTAATGCTCGAGTTTTT 58.604 40.909 15.13 7.95 0.00 1.94
2272 2473 1.452110 TTGACAATGCCAGATGGTCG 58.548 50.000 0.00 0.00 37.57 4.79
2279 2480 1.375908 GCCAGATGGTCGTCAGCAA 60.376 57.895 0.00 0.00 37.57 3.91
2294 2495 3.023119 TCAGCAAAAACCTTCTCTGCAA 58.977 40.909 0.00 0.00 35.44 4.08
2329 2530 3.290948 AGGTTGTGGTGTTTTAGAGCA 57.709 42.857 0.00 0.00 0.00 4.26
2340 2541 0.619255 TTTAGAGCACCGGGGGATGA 60.619 55.000 5.47 0.00 0.00 2.92
2357 2558 4.562347 GGGATGATGATCGAGCTGTGTTAT 60.562 45.833 0.90 0.00 0.00 1.89
2361 2562 2.892374 TGATCGAGCTGTGTTATGTGG 58.108 47.619 0.90 0.00 0.00 4.17
2366 2568 2.504367 GAGCTGTGTTATGTGGTTGGT 58.496 47.619 0.00 0.00 0.00 3.67
2372 2574 4.211125 TGTGTTATGTGGTTGGTTGACAT 58.789 39.130 0.00 0.00 34.68 3.06
2385 2587 6.151144 GGTTGGTTGACATAGTTGAATAAGCT 59.849 38.462 0.00 0.00 0.00 3.74
2389 2591 5.102953 TGACATAGTTGAATAAGCTGCCT 57.897 39.130 0.00 0.00 0.00 4.75
2404 2606 1.002011 GCCTTCTCTGACCCCCAAC 60.002 63.158 0.00 0.00 0.00 3.77
2423 2626 0.965363 CACCCCCACCATGTACTTGC 60.965 60.000 3.24 0.00 0.00 4.01
2428 2631 2.231235 CCCCACCATGTACTTGCTTTTC 59.769 50.000 3.24 0.00 0.00 2.29
2431 2634 3.573967 CCACCATGTACTTGCTTTTCCTT 59.426 43.478 3.24 0.00 0.00 3.36
2432 2635 4.321230 CCACCATGTACTTGCTTTTCCTTC 60.321 45.833 3.24 0.00 0.00 3.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.678950 CCACGGTGGCCATTTCTTTT 59.321 50.000 15.29 0.00 0.00 2.27
1 2 0.469144 ACCACGGTGGCCATTTCTTT 60.469 50.000 26.62 0.92 42.67 2.52
2 3 0.402504 TACCACGGTGGCCATTTCTT 59.597 50.000 26.62 7.46 42.67 2.52
3 4 0.623723 ATACCACGGTGGCCATTTCT 59.376 50.000 26.62 8.21 42.67 2.52
4 5 1.470051 AATACCACGGTGGCCATTTC 58.530 50.000 26.62 0.46 42.67 2.17
5 6 2.810870 TAATACCACGGTGGCCATTT 57.189 45.000 26.62 16.18 42.67 2.32
6 7 2.650322 CTTAATACCACGGTGGCCATT 58.350 47.619 26.62 24.60 42.67 3.16
7 8 1.133915 CCTTAATACCACGGTGGCCAT 60.134 52.381 26.62 16.87 42.67 4.40
8 9 0.253610 CCTTAATACCACGGTGGCCA 59.746 55.000 26.62 15.29 42.67 5.36
9 10 0.464916 CCCTTAATACCACGGTGGCC 60.465 60.000 26.62 0.00 42.67 5.36
10 11 0.253894 ACCCTTAATACCACGGTGGC 59.746 55.000 26.62 0.00 42.67 5.01
11 12 3.910568 TTACCCTTAATACCACGGTGG 57.089 47.619 25.21 25.21 45.02 4.61
12 13 6.347696 TGTAATTACCCTTAATACCACGGTG 58.652 40.000 13.01 0.00 0.00 4.94
13 14 6.558488 TGTAATTACCCTTAATACCACGGT 57.442 37.500 13.01 0.00 0.00 4.83
14 15 7.553760 AGTTTGTAATTACCCTTAATACCACGG 59.446 37.037 13.01 0.00 0.00 4.94
15 16 8.496707 AGTTTGTAATTACCCTTAATACCACG 57.503 34.615 13.01 0.00 0.00 4.94
17 18 9.810870 ACAAGTTTGTAATTACCCTTAATACCA 57.189 29.630 13.01 0.00 40.16 3.25
24 25 7.709182 GCTCAAAACAAGTTTGTAATTACCCTT 59.291 33.333 13.01 9.23 45.83 3.95
25 26 7.147811 TGCTCAAAACAAGTTTGTAATTACCCT 60.148 33.333 13.01 3.78 45.83 4.34
26 27 6.981559 TGCTCAAAACAAGTTTGTAATTACCC 59.018 34.615 13.01 1.55 45.83 3.69
27 28 7.704899 ACTGCTCAAAACAAGTTTGTAATTACC 59.295 33.333 13.01 0.00 45.83 2.85
28 29 8.531530 CACTGCTCAAAACAAGTTTGTAATTAC 58.468 33.333 8.75 8.75 45.83 1.89
29 30 8.462811 TCACTGCTCAAAACAAGTTTGTAATTA 58.537 29.630 0.00 0.00 45.83 1.40
30 31 7.319646 TCACTGCTCAAAACAAGTTTGTAATT 58.680 30.769 0.00 0.00 45.83 1.40
31 32 6.862209 TCACTGCTCAAAACAAGTTTGTAAT 58.138 32.000 0.00 0.00 45.83 1.89
32 33 6.072175 ACTCACTGCTCAAAACAAGTTTGTAA 60.072 34.615 0.00 0.00 45.83 2.41
33 34 5.414454 ACTCACTGCTCAAAACAAGTTTGTA 59.586 36.000 0.00 0.00 45.83 2.41
34 35 4.218417 ACTCACTGCTCAAAACAAGTTTGT 59.782 37.500 0.00 0.00 45.83 2.83
35 36 4.737054 ACTCACTGCTCAAAACAAGTTTG 58.263 39.130 0.00 0.00 46.86 2.93
36 37 6.509418 TTACTCACTGCTCAAAACAAGTTT 57.491 33.333 0.00 0.00 0.00 2.66
37 38 6.151144 AGTTTACTCACTGCTCAAAACAAGTT 59.849 34.615 0.00 0.00 31.02 2.66
38 39 5.648092 AGTTTACTCACTGCTCAAAACAAGT 59.352 36.000 0.00 0.00 31.02 3.16
39 40 6.124088 AGTTTACTCACTGCTCAAAACAAG 57.876 37.500 0.00 0.00 31.02 3.16
40 41 6.072175 ACAAGTTTACTCACTGCTCAAAACAA 60.072 34.615 0.00 0.00 31.02 2.83
41 42 5.414454 ACAAGTTTACTCACTGCTCAAAACA 59.586 36.000 0.00 0.00 31.02 2.83
42 43 5.880341 ACAAGTTTACTCACTGCTCAAAAC 58.120 37.500 0.00 0.00 0.00 2.43
43 44 6.260050 CCTACAAGTTTACTCACTGCTCAAAA 59.740 38.462 0.00 0.00 0.00 2.44
44 45 5.758296 CCTACAAGTTTACTCACTGCTCAAA 59.242 40.000 0.00 0.00 0.00 2.69
45 46 5.069914 TCCTACAAGTTTACTCACTGCTCAA 59.930 40.000 0.00 0.00 0.00 3.02
46 47 4.587262 TCCTACAAGTTTACTCACTGCTCA 59.413 41.667 0.00 0.00 0.00 4.26
47 48 5.135508 TCCTACAAGTTTACTCACTGCTC 57.864 43.478 0.00 0.00 0.00 4.26
48 49 5.746990 ATCCTACAAGTTTACTCACTGCT 57.253 39.130 0.00 0.00 0.00 4.24
49 50 6.166982 AGAATCCTACAAGTTTACTCACTGC 58.833 40.000 0.00 0.00 0.00 4.40
50 51 7.820044 GAGAATCCTACAAGTTTACTCACTG 57.180 40.000 0.00 0.00 0.00 3.66
92 93 9.619316 TGAAATTTAGAAACAATGATTACCACG 57.381 29.630 0.00 0.00 0.00 4.94
120 121 0.981183 AGCGGTACCACAAATCCTCA 59.019 50.000 13.54 0.00 0.00 3.86
185 186 4.599041 ACTTGCAATATTTGGGTGCTCTA 58.401 39.130 0.00 0.00 39.09 2.43
196 197 4.826733 TGTTGGACACTGACTTGCAATATT 59.173 37.500 0.00 0.00 0.00 1.28
249 250 0.966920 TTCAGACGAGGAGACCAACC 59.033 55.000 0.00 0.00 0.00 3.77
262 263 7.279536 TGTCAGCTCATTGAATCTATTTCAGAC 59.720 37.037 0.00 0.00 44.90 3.51
278 279 3.077359 GTTACTTGGCTTGTCAGCTCAT 58.923 45.455 0.00 0.00 46.44 2.90
352 353 2.603110 TGTAGATGCTCGCAATCGAAAC 59.397 45.455 0.00 0.00 44.98 2.78
377 379 3.088194 TCAACGCGTCACTAAGAAACT 57.912 42.857 14.44 0.00 0.00 2.66
383 385 2.121786 GTGAGTTCAACGCGTCACTAA 58.878 47.619 14.44 5.62 37.04 2.24
384 386 1.335810 AGTGAGTTCAACGCGTCACTA 59.664 47.619 22.68 3.28 46.13 2.74
385 387 0.102481 AGTGAGTTCAACGCGTCACT 59.898 50.000 19.61 19.61 43.81 3.41
388 390 1.488527 AGAAGTGAGTTCAACGCGTC 58.511 50.000 14.44 0.00 37.67 5.19
389 391 1.859080 GAAGAAGTGAGTTCAACGCGT 59.141 47.619 5.58 5.58 37.67 6.01
390 392 1.192534 GGAAGAAGTGAGTTCAACGCG 59.807 52.381 3.53 3.53 37.67 6.01
402 405 1.624312 GAGACGGGAAAGGGAAGAAGT 59.376 52.381 0.00 0.00 0.00 3.01
452 455 8.616799 AACCCCTTTCCATTAAAGCATAATAA 57.383 30.769 0.00 0.00 42.85 1.40
453 456 8.616799 AAACCCCTTTCCATTAAAGCATAATA 57.383 30.769 0.00 0.00 42.85 0.98
454 457 7.509236 AAACCCCTTTCCATTAAAGCATAAT 57.491 32.000 0.00 0.00 42.85 1.28
488 491 3.731652 TCCAAACATGCTTTGTCTTGG 57.268 42.857 17.64 17.64 42.12 3.61
489 492 6.128336 TGTTTTTCCAAACATGCTTTGTCTTG 60.128 34.615 15.13 0.00 46.06 3.02
492 495 5.793026 TGTTTTTCCAAACATGCTTTGTC 57.207 34.783 15.13 4.63 46.06 3.18
502 505 6.801575 TGGAACTCATACTGTTTTTCCAAAC 58.198 36.000 0.00 0.00 39.59 2.93
540 692 6.824305 AATACTGCAATATATCTGGGCAAC 57.176 37.500 0.00 0.00 33.58 4.17
555 707 4.853468 TTGGGGATGAAGTAATACTGCA 57.147 40.909 3.16 3.16 38.33 4.41
556 708 5.652452 ACTTTTGGGGATGAAGTAATACTGC 59.348 40.000 0.00 0.00 32.22 4.40
557 709 6.884295 TGACTTTTGGGGATGAAGTAATACTG 59.116 38.462 0.00 0.00 34.02 2.74
558 710 7.027874 TGACTTTTGGGGATGAAGTAATACT 57.972 36.000 0.00 0.00 34.02 2.12
559 711 7.696992 TTGACTTTTGGGGATGAAGTAATAC 57.303 36.000 0.00 0.00 34.02 1.89
560 712 8.112822 TGATTGACTTTTGGGGATGAAGTAATA 58.887 33.333 0.00 0.00 34.02 0.98
561 713 6.953520 TGATTGACTTTTGGGGATGAAGTAAT 59.046 34.615 0.00 0.00 34.02 1.89
562 714 6.310941 TGATTGACTTTTGGGGATGAAGTAA 58.689 36.000 0.00 0.00 34.02 2.24
573 725 2.053627 GCGCAACTGATTGACTTTTGG 58.946 47.619 0.30 0.00 38.15 3.28
580 732 1.469703 CTGATTGGCGCAACTGATTGA 59.530 47.619 10.83 0.00 38.15 2.57
607 759 7.752695 AGAATTCTAGAATGTGGTTAAAAGCG 58.247 34.615 18.61 0.00 0.00 4.68
631 786 6.459298 GCCTAGATTGTGGTCAAATGATGAAG 60.459 42.308 0.00 0.00 40.50 3.02
649 804 5.604231 TCAGTCAATCCAACATAGCCTAGAT 59.396 40.000 0.00 0.00 0.00 1.98
706 861 3.738286 GCTCTAAGCAGAAGCAAGTTC 57.262 47.619 0.00 0.00 45.49 3.01
837 992 3.708220 CTGCCTCCTCGACGGCTTC 62.708 68.421 14.54 0.00 46.42 3.86
858 1013 3.388024 TCATATCACACTTAGGACCTGCC 59.612 47.826 3.53 0.00 0.00 4.85
863 1018 6.051717 AGCAACATCATATCACACTTAGGAC 58.948 40.000 0.00 0.00 0.00 3.85
864 1019 6.239217 AGCAACATCATATCACACTTAGGA 57.761 37.500 0.00 0.00 0.00 2.94
903 1058 6.872920 TGGAAAAACTGCAAGACAACTTAAT 58.127 32.000 0.00 0.00 37.43 1.40
905 1060 5.906113 TGGAAAAACTGCAAGACAACTTA 57.094 34.783 0.00 0.00 37.43 2.24
906 1061 4.799564 TGGAAAAACTGCAAGACAACTT 57.200 36.364 0.00 0.00 37.43 2.66
919 1074 6.836577 TTTCACCGAATTTCATGGAAAAAC 57.163 33.333 0.00 0.00 35.11 2.43
925 1080 5.156355 CAGAGTTTTCACCGAATTTCATGG 58.844 41.667 0.00 0.00 0.00 3.66
937 1092 5.415701 TCCATGGAATTAGCAGAGTTTTCAC 59.584 40.000 13.46 0.00 0.00 3.18
959 1114 5.057149 TCTGCAGTAAACAAGAGAGTTTCC 58.943 41.667 14.67 0.00 41.58 3.13
960 1115 6.648725 AGATCTGCAGTAAACAAGAGAGTTTC 59.351 38.462 14.67 0.00 41.58 2.78
969 1124 7.158697 TGCTTTAGTAGATCTGCAGTAAACAA 58.841 34.615 14.67 0.00 0.00 2.83
1054 1209 1.597854 CACCAGCTGGAACGAGCAA 60.598 57.895 39.19 0.00 41.83 3.91
1080 1235 2.598394 CCAACTGGTGGTGCAGGG 60.598 66.667 2.79 0.00 43.20 4.45
1107 1262 6.015940 CCATCAAATTGAGCCTATAGAAACCC 60.016 42.308 0.00 0.00 0.00 4.11
1113 1268 6.433404 AGAATGCCATCAAATTGAGCCTATAG 59.567 38.462 1.10 0.00 0.00 1.31
1170 1325 4.142609 CTGCATAGGAGTTTCTGCCTTA 57.857 45.455 0.00 0.00 35.73 2.69
1197 1352 3.181469 TGCTATCTTTGTAGGCGGTTAGG 60.181 47.826 0.00 0.00 0.00 2.69
1203 1358 3.000322 CGAAAGTGCTATCTTTGTAGGCG 60.000 47.826 6.79 0.00 37.70 5.52
1416 1571 3.194116 CCATTGAGTTAGCTGTGCCAATT 59.806 43.478 0.00 0.00 0.00 2.32
1455 1610 0.392336 GCCAATCCGCTCAGAGATCT 59.608 55.000 0.00 0.00 0.00 2.75
1476 1631 3.031736 GAGCTGGGTACTATTGGAGACA 58.968 50.000 0.00 0.00 39.83 3.41
1492 1647 2.762887 TCACTGAGGAATGTAGGAGCTG 59.237 50.000 0.00 0.00 0.00 4.24
1502 1657 4.978099 ACTCACAAATGTCACTGAGGAAT 58.022 39.130 0.00 0.00 0.00 3.01
1508 1663 6.064846 AGCTAAAACTCACAAATGTCACTG 57.935 37.500 0.00 0.00 0.00 3.66
1509 1664 6.699575 AAGCTAAAACTCACAAATGTCACT 57.300 33.333 0.00 0.00 0.00 3.41
1526 1681 8.896744 CAGTAAGGATCATCAATGAAAAGCTAA 58.103 33.333 0.00 0.00 40.69 3.09
1530 1685 7.282675 AGCTCAGTAAGGATCATCAATGAAAAG 59.717 37.037 0.00 0.00 40.69 2.27
1533 1688 6.099413 AGAGCTCAGTAAGGATCATCAATGAA 59.901 38.462 17.77 0.00 40.69 2.57
1563 1748 5.774690 TGAGAAAATGAAAGTATTGCCTGGT 59.225 36.000 0.00 0.00 0.00 4.00
1574 1759 7.391554 TGAAGACTGGGTATGAGAAAATGAAAG 59.608 37.037 0.00 0.00 0.00 2.62
1645 1831 6.312918 GCTCAGAAGTGACATTATTTTCCGTA 59.687 38.462 0.00 0.00 0.00 4.02
1660 1846 0.165511 GCGCAAGAAGCTCAGAAGTG 59.834 55.000 0.30 0.00 42.61 3.16
1670 1856 1.221466 TGTTCGTCTGGCGCAAGAAG 61.221 55.000 18.05 19.35 41.07 2.85
1671 1857 0.812014 TTGTTCGTCTGGCGCAAGAA 60.812 50.000 18.05 2.97 41.07 2.52
1672 1858 0.602638 ATTGTTCGTCTGGCGCAAGA 60.603 50.000 11.41 11.41 41.07 3.02
1695 1881 7.296628 ACTTGGCAAGGTAACATAAATGAAA 57.703 32.000 29.26 0.00 41.41 2.69
1697 1883 6.266558 ACAACTTGGCAAGGTAACATAAATGA 59.733 34.615 29.26 0.00 41.41 2.57
1703 1889 5.137551 ACTAACAACTTGGCAAGGTAACAT 58.862 37.500 29.26 13.10 41.41 2.71
1722 1908 8.740906 TGATACCAAAAGTCAACAAACAACTAA 58.259 29.630 0.00 0.00 0.00 2.24
1735 1921 7.511959 AGAAAGGAAACTGATACCAAAAGTC 57.488 36.000 0.00 0.00 42.68 3.01
1749 1935 4.753107 TCACCATTACACGAGAAAGGAAAC 59.247 41.667 0.00 0.00 0.00 2.78
1751 1937 4.610605 TCACCATTACACGAGAAAGGAA 57.389 40.909 0.00 0.00 0.00 3.36
1754 1940 7.539712 AATACATCACCATTACACGAGAAAG 57.460 36.000 0.00 0.00 0.00 2.62
1791 1977 3.377172 AGCGCCAGAATTAACCATTACAC 59.623 43.478 2.29 0.00 0.00 2.90
1806 1992 6.092748 AGTAAAAATCATGTAAAAGCGCCAG 58.907 36.000 2.29 0.00 0.00 4.85
1847 2033 1.000019 TAGACGCCCTGCCTGTACT 60.000 57.895 0.00 0.00 0.00 2.73
1848 2034 1.437986 CTAGACGCCCTGCCTGTAC 59.562 63.158 0.00 0.00 0.00 2.90
1849 2035 2.423898 GCTAGACGCCCTGCCTGTA 61.424 63.158 0.00 0.00 0.00 2.74
1850 2036 3.775654 GCTAGACGCCCTGCCTGT 61.776 66.667 0.00 0.00 0.00 4.00
1851 2037 2.985512 GATGCTAGACGCCCTGCCTG 62.986 65.000 0.00 0.00 38.05 4.85
1852 2038 2.765807 ATGCTAGACGCCCTGCCT 60.766 61.111 0.00 0.00 38.05 4.75
1853 2039 2.280457 GATGCTAGACGCCCTGCC 60.280 66.667 0.00 0.00 38.05 4.85
1854 2040 2.280457 GGATGCTAGACGCCCTGC 60.280 66.667 0.00 0.00 38.05 4.85
1855 2041 2.423446 GGGATGCTAGACGCCCTG 59.577 66.667 0.00 0.00 37.59 4.45
1856 2042 2.041922 TGGGATGCTAGACGCCCT 60.042 61.111 13.35 0.00 41.28 5.19
1857 2043 1.972660 AAGTGGGATGCTAGACGCCC 61.973 60.000 0.00 0.08 41.08 6.13
1858 2044 0.811616 CAAGTGGGATGCTAGACGCC 60.812 60.000 0.00 0.00 38.05 5.68
1859 2045 1.432270 GCAAGTGGGATGCTAGACGC 61.432 60.000 0.00 0.00 40.64 5.19
1860 2046 2.682893 GCAAGTGGGATGCTAGACG 58.317 57.895 0.00 0.00 40.64 4.18
1866 2052 1.742268 GAAAGAGAGCAAGTGGGATGC 59.258 52.381 0.00 0.00 44.15 3.91
1867 2053 2.746362 GTGAAAGAGAGCAAGTGGGATG 59.254 50.000 0.00 0.00 0.00 3.51
1868 2054 2.290577 GGTGAAAGAGAGCAAGTGGGAT 60.291 50.000 0.00 0.00 0.00 3.85
1869 2055 1.072331 GGTGAAAGAGAGCAAGTGGGA 59.928 52.381 0.00 0.00 0.00 4.37
1870 2056 1.528129 GGTGAAAGAGAGCAAGTGGG 58.472 55.000 0.00 0.00 0.00 4.61
1871 2057 1.151668 CGGTGAAAGAGAGCAAGTGG 58.848 55.000 0.00 0.00 0.00 4.00
1872 2058 1.151668 CCGGTGAAAGAGAGCAAGTG 58.848 55.000 0.00 0.00 0.00 3.16
1914 2100 4.956075 GGGTATGATCTTGTCCCAAACATT 59.044 41.667 14.49 0.00 37.82 2.71
1925 2111 5.934043 TCGATGCTTATTGGGTATGATCTTG 59.066 40.000 0.00 0.00 0.00 3.02
1943 2129 2.555199 AGCCACAGAATAACTCGATGC 58.445 47.619 0.00 0.00 0.00 3.91
1953 2139 0.036732 TTCAGCCGAAGCCACAGAAT 59.963 50.000 0.00 0.00 41.25 2.40
1956 2143 1.597854 TGTTCAGCCGAAGCCACAG 60.598 57.895 0.00 0.00 41.25 3.66
1991 2191 2.506881 CGCCGCCCAATGCTTTTC 60.507 61.111 0.00 0.00 38.05 2.29
2033 2233 0.179108 GACTCCACGGCTGGACATAC 60.179 60.000 0.00 0.00 42.15 2.39
2050 2250 0.807496 GAAGAATGTGGCAGCTGGAC 59.193 55.000 17.12 0.00 0.00 4.02
2074 2274 3.731652 ACAGCATTTGCAAGCTTACAA 57.268 38.095 8.06 8.06 45.16 2.41
2079 2279 1.541670 CCCAAACAGCATTTGCAAGCT 60.542 47.619 7.34 7.34 45.16 3.74
2092 2292 3.825908 AGGCCTAATTTCTCCCAAACA 57.174 42.857 1.29 0.00 0.00 2.83
2163 2364 3.639538 ACGTACTTGTGTCTTGTAGCTG 58.360 45.455 0.00 0.00 0.00 4.24
2165 2366 3.635331 TGACGTACTTGTGTCTTGTAGC 58.365 45.455 0.00 0.00 36.10 3.58
2168 2369 2.864343 GCTTGACGTACTTGTGTCTTGT 59.136 45.455 0.00 0.00 36.10 3.16
2184 2385 0.983467 TAGGATGTGCCACAGCTTGA 59.017 50.000 13.39 0.00 40.80 3.02
2188 2389 1.202336 GCAAATAGGATGTGCCACAGC 60.202 52.381 4.09 4.09 40.02 4.40
2203 2404 2.202395 AACCACGCAGGCTGCAAAT 61.202 52.632 35.94 19.86 45.36 2.32
2215 2416 1.602668 CCATTCCAAAGTGCAACCACG 60.603 52.381 0.00 0.00 46.62 4.94
2217 2418 1.686052 GTCCATTCCAAAGTGCAACCA 59.314 47.619 0.00 0.00 37.80 3.67
2221 2422 2.552599 TACGTCCATTCCAAAGTGCA 57.447 45.000 0.00 0.00 0.00 4.57
2236 2437 3.805422 TGTCAAAAACTCGAGCATTACGT 59.195 39.130 13.61 0.00 0.00 3.57
2245 2446 3.210227 TCTGGCATTGTCAAAAACTCGA 58.790 40.909 0.00 0.00 0.00 4.04
2247 2448 4.240096 CCATCTGGCATTGTCAAAAACTC 58.760 43.478 0.00 0.00 0.00 3.01
2248 2449 3.642848 ACCATCTGGCATTGTCAAAAACT 59.357 39.130 0.00 0.00 39.32 2.66
2254 2455 0.324614 ACGACCATCTGGCATTGTCA 59.675 50.000 0.00 0.00 39.32 3.58
2272 2473 2.358898 TGCAGAGAAGGTTTTTGCTGAC 59.641 45.455 0.00 0.00 35.85 3.51
2294 2495 6.010219 ACCACAACCTAATAAGAGTTGCAAT 58.990 36.000 0.59 0.00 43.68 3.56
2302 2503 7.389607 GCTCTAAAACACCACAACCTAATAAGA 59.610 37.037 0.00 0.00 0.00 2.10
2303 2504 7.174253 TGCTCTAAAACACCACAACCTAATAAG 59.826 37.037 0.00 0.00 0.00 1.73
2304 2505 6.999272 TGCTCTAAAACACCACAACCTAATAA 59.001 34.615 0.00 0.00 0.00 1.40
2306 2507 5.240844 GTGCTCTAAAACACCACAACCTAAT 59.759 40.000 0.00 0.00 0.00 1.73
2329 2530 1.152333 TCGATCATCATCCCCCGGT 60.152 57.895 0.00 0.00 0.00 5.28
2332 2533 0.036577 CAGCTCGATCATCATCCCCC 60.037 60.000 0.00 0.00 0.00 5.40
2333 2534 0.683973 ACAGCTCGATCATCATCCCC 59.316 55.000 0.00 0.00 0.00 4.81
2340 2541 3.118629 ACCACATAACACAGCTCGATCAT 60.119 43.478 0.00 0.00 0.00 2.45
2357 2558 4.157849 TCAACTATGTCAACCAACCACA 57.842 40.909 0.00 0.00 0.00 4.17
2361 2562 7.023575 CAGCTTATTCAACTATGTCAACCAAC 58.976 38.462 0.00 0.00 0.00 3.77
2366 2568 5.500234 AGGCAGCTTATTCAACTATGTCAA 58.500 37.500 0.00 0.00 0.00 3.18
2372 2574 5.187772 TCAGAGAAGGCAGCTTATTCAACTA 59.812 40.000 0.00 0.00 0.00 2.24
2385 2587 1.463214 TTGGGGGTCAGAGAAGGCA 60.463 57.895 0.00 0.00 0.00 4.75
2389 2591 1.423794 GGGTGTTGGGGGTCAGAGAA 61.424 60.000 0.00 0.00 0.00 2.87
2404 2606 0.965363 GCAAGTACATGGTGGGGGTG 60.965 60.000 0.00 0.00 0.00 4.61
2414 2616 6.566197 CTGAAGAAGGAAAAGCAAGTACAT 57.434 37.500 0.00 0.00 0.00 2.29
2431 2634 0.322816 GCCATCACCAAGCCTGAAGA 60.323 55.000 0.00 0.00 0.00 2.87
2432 2635 1.318158 GGCCATCACCAAGCCTGAAG 61.318 60.000 0.00 0.00 43.62 3.02


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

AutoCloner maintained by Alex Coulton.