Multiple sequence alignment - TraesCS1B01G034600

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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 TraesCS1B01G034600 chr1B 100.000 2825 0 0 1 2825 16529030 16531854 0.000000e+00 5217.0
1 TraesCS1B01G034600 chr1B 99.368 1107 7 0 1719 2825 16545669 16546775 0.000000e+00 2006.0
2 TraesCS1B01G034600 chr1B 90.535 1289 112 6 998 2283 16856397 16857678 0.000000e+00 1696.0
3 TraesCS1B01G034600 chr1B 89.193 1277 106 6 1010 2283 16925821 16927068 0.000000e+00 1565.0
4 TraesCS1B01G034600 chr1B 93.282 908 55 5 1916 2821 16519090 16519993 0.000000e+00 1334.0
5 TraesCS1B01G034600 chr1B 85.340 1221 148 17 878 2081 16839431 16840637 0.000000e+00 1234.0
6 TraesCS1B01G034600 chr1B 86.906 947 107 8 903 1843 16518149 16519084 0.000000e+00 1046.0
7 TraesCS1B01G034600 chr1B 85.729 953 125 6 940 1887 17018997 17018051 0.000000e+00 996.0
8 TraesCS1B01G034600 chr1B 80.899 801 121 23 2022 2816 17339933 17340707 1.120000e-168 603.0
9 TraesCS1B01G034600 chr1B 89.149 470 43 4 2350 2812 16927065 16927533 1.890000e-161 579.0
10 TraesCS1B01G034600 chr1B 88.323 471 46 4 2350 2812 16857675 16858144 8.840000e-155 556.0
11 TraesCS1B01G034600 chr1D 88.934 1238 108 13 931 2158 11176980 11178198 0.000000e+00 1500.0
12 TraesCS1B01G034600 chr1D 84.663 978 139 6 940 1912 11273050 11274021 0.000000e+00 965.0
13 TraesCS1B01G034600 chr1D 80.979 899 158 9 997 1893 11288059 11288946 0.000000e+00 701.0
14 TraesCS1B01G034600 chr1D 97.619 42 1 0 818 859 11452897 11452938 3.900000e-09 73.1
15 TraesCS1B01G034600 chr1D 96.970 33 1 0 369 401 11452424 11452456 3.930000e-04 56.5
16 TraesCS1B01G034600 chr1A 81.170 1248 179 33 940 2170 13569469 13570677 0.000000e+00 952.0
17 TraesCS1B01G034600 chr1A 84.735 904 122 11 1010 1906 13347399 13348293 0.000000e+00 891.0
18 TraesCS1B01G034600 chr1A 81.402 984 164 11 931 1912 13663230 13664196 0.000000e+00 785.0
19 TraesCS1B01G034600 chr1A 85.346 737 101 4 1177 1912 12571053 12570323 0.000000e+00 756.0
20 TraesCS1B01G034600 chr1A 79.898 786 123 25 2041 2821 12589773 12589018 6.880000e-151 544.0
21 TraesCS1B01G034600 chr1A 87.701 374 44 2 2449 2821 13454430 13454802 4.320000e-118 435.0
22 TraesCS1B01G034600 chr1A 82.339 436 44 16 1 419 13567753 13568172 5.790000e-92 348.0
23 TraesCS1B01G034600 chr1A 79.730 444 66 15 2375 2804 13315681 13316114 1.640000e-77 300.0
24 TraesCS1B01G034600 chr1A 80.952 378 37 18 815 1191 12572573 12572230 1.670000e-67 267.0
25 TraesCS1B01G034600 chr1A 90.769 130 8 2 1 129 13346177 13346303 1.350000e-38 171.0
26 TraesCS1B01G034600 chr1A 82.297 209 16 8 215 406 22616927 22616723 8.100000e-36 161.0
27 TraesCS1B01G034600 chr1A 81.407 199 14 7 238 419 12592578 12592386 1.060000e-29 141.0
28 TraesCS1B01G034600 chr1A 86.667 75 7 2 215 286 13346449 13346523 2.330000e-11 80.5
29 TraesCS1B01G034600 chr1A 95.349 43 1 1 818 859 22616273 22616231 1.820000e-07 67.6
30 TraesCS1B01G034600 chr1A 96.970 33 0 1 635 666 13413785 13413817 1.000000e-03 54.7
31 TraesCS1B01G034600 chrUn 81.149 801 119 23 2022 2816 317984165 317983391 5.170000e-172 614.0
32 TraesCS1B01G034600 chrUn 80.563 391 56 15 2022 2410 317004365 317003993 1.660000e-72 283.0
33 TraesCS1B01G034600 chrUn 80.563 391 56 15 2022 2410 346218134 346218506 1.660000e-72 283.0


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 TraesCS1B01G034600 chr1B 16529030 16531854 2824 False 5217.000000 5217 100.000000 1 2825 1 chr1B.!!$F1 2824
1 TraesCS1B01G034600 chr1B 16545669 16546775 1106 False 2006.000000 2006 99.368000 1719 2825 1 chr1B.!!$F2 1106
2 TraesCS1B01G034600 chr1B 16839431 16840637 1206 False 1234.000000 1234 85.340000 878 2081 1 chr1B.!!$F3 1203
3 TraesCS1B01G034600 chr1B 16518149 16519993 1844 False 1190.000000 1334 90.094000 903 2821 2 chr1B.!!$F5 1918
4 TraesCS1B01G034600 chr1B 16856397 16858144 1747 False 1126.000000 1696 89.429000 998 2812 2 chr1B.!!$F6 1814
5 TraesCS1B01G034600 chr1B 16925821 16927533 1712 False 1072.000000 1565 89.171000 1010 2812 2 chr1B.!!$F7 1802
6 TraesCS1B01G034600 chr1B 17018051 17018997 946 True 996.000000 996 85.729000 940 1887 1 chr1B.!!$R1 947
7 TraesCS1B01G034600 chr1B 17339933 17340707 774 False 603.000000 603 80.899000 2022 2816 1 chr1B.!!$F4 794
8 TraesCS1B01G034600 chr1D 11176980 11178198 1218 False 1500.000000 1500 88.934000 931 2158 1 chr1D.!!$F1 1227
9 TraesCS1B01G034600 chr1D 11273050 11274021 971 False 965.000000 965 84.663000 940 1912 1 chr1D.!!$F2 972
10 TraesCS1B01G034600 chr1D 11288059 11288946 887 False 701.000000 701 80.979000 997 1893 1 chr1D.!!$F3 896
11 TraesCS1B01G034600 chr1A 13663230 13664196 966 False 785.000000 785 81.402000 931 1912 1 chr1A.!!$F4 981
12 TraesCS1B01G034600 chr1A 13567753 13570677 2924 False 650.000000 952 81.754500 1 2170 2 chr1A.!!$F6 2169
13 TraesCS1B01G034600 chr1A 12570323 12572573 2250 True 511.500000 756 83.149000 815 1912 2 chr1A.!!$R1 1097
14 TraesCS1B01G034600 chr1A 13346177 13348293 2116 False 380.833333 891 87.390333 1 1906 3 chr1A.!!$F5 1905
15 TraesCS1B01G034600 chr1A 12589018 12592578 3560 True 342.500000 544 80.652500 238 2821 2 chr1A.!!$R2 2583
16 TraesCS1B01G034600 chrUn 317983391 317984165 774 True 614.000000 614 81.149000 2022 2816 1 chrUn.!!$R2 794

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
702 1890 0.033504 TCGAGTGAAGCAACCTCCAC 59.966 55.0 0.00 0.0 0.00 4.02 F
749 1937 0.034896 GAAGCAACCTCCACGGAGAA 59.965 55.0 14.91 0.0 44.53 2.87 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1620 4621 0.038166 GAGTGGTCTTGCCCAATCCA 59.962 55.0 0.00 2.46 42.37 3.41 R
1927 4956 1.227999 CCTTCCGTGTGACGCACAAT 61.228 55.0 18.67 0.00 46.28 2.71 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
30 31 5.127356 CCTTGTAGGAGTAGTACTCAAAGGG 59.873 48.000 27.41 17.63 46.79 3.95
37 38 5.163395 GGAGTAGTACTCAAAGGGAATGAGG 60.163 48.000 27.41 0.00 46.79 3.86
104 109 3.492102 TCTTTACCAGCTGCAAAGAGT 57.508 42.857 25.85 14.32 34.28 3.24
108 113 2.638480 ACCAGCTGCAAAGAGTAACA 57.362 45.000 8.66 0.00 0.00 2.41
147 238 8.521170 TTACTACAGTAGTGTCATTAGCTGAT 57.479 34.615 21.71 0.00 39.81 2.90
174 284 3.857309 GAAGCCTGGCAGGTGCACT 62.857 63.158 32.80 19.30 44.36 4.40
186 296 3.826221 TGCACTGCACTGACCAAC 58.174 55.556 0.00 0.00 31.71 3.77
187 297 2.179547 TGCACTGCACTGACCAACG 61.180 57.895 0.00 0.00 31.71 4.10
189 299 1.835483 GCACTGCACTGACCAACGAG 61.835 60.000 0.00 0.00 0.00 4.18
190 300 0.249447 CACTGCACTGACCAACGAGA 60.249 55.000 0.00 0.00 0.00 4.04
192 302 1.070758 ACTGCACTGACCAACGAGATT 59.929 47.619 0.00 0.00 0.00 2.40
193 303 1.462283 CTGCACTGACCAACGAGATTG 59.538 52.381 0.00 0.00 38.12 2.67
233 343 8.186178 ACGTACAATTATTGTCTCTGAATCAC 57.814 34.615 14.29 3.16 44.12 3.06
246 359 3.452264 TCTGAATCACTGTCCCTGTATGG 59.548 47.826 0.00 0.00 0.00 2.74
296 578 6.265577 GCCAAAAGCACTACTATTGGTATTG 58.734 40.000 4.92 0.00 41.98 1.90
297 579 6.680378 GCCAAAAGCACTACTATTGGTATTGG 60.680 42.308 4.92 0.00 41.98 3.16
310 592 0.468226 GTATTGGGAGGCATCGTGGA 59.532 55.000 0.00 0.00 0.00 4.02
323 609 1.393603 TCGTGGAGGCTCTGTATCTG 58.606 55.000 15.23 0.00 0.00 2.90
346 632 2.171659 TGACCTGCTGTTGTTGGTCTTA 59.828 45.455 11.52 0.00 46.50 2.10
370 663 1.267574 GCTCCTCATCTCCACCACCA 61.268 60.000 0.00 0.00 0.00 4.17
420 719 2.345760 CCTCCATTGCGCTGCCTTT 61.346 57.895 9.73 0.00 0.00 3.11
422 721 1.303561 TCCATTGCGCTGCCTTTCT 60.304 52.632 9.73 0.00 0.00 2.52
423 722 1.138247 CCATTGCGCTGCCTTTCTC 59.862 57.895 9.73 0.00 0.00 2.87
425 724 0.454600 CATTGCGCTGCCTTTCTCAT 59.545 50.000 9.73 0.00 0.00 2.90
426 725 0.737219 ATTGCGCTGCCTTTCTCATC 59.263 50.000 9.73 0.00 0.00 2.92
443 773 1.768684 ATCACAGTGTTCGCCCCTGT 61.769 55.000 0.00 0.00 39.93 4.00
451 781 0.321653 GTTCGCCCCTGTCAACTGAT 60.322 55.000 0.00 0.00 0.00 2.90
452 782 1.066430 GTTCGCCCCTGTCAACTGATA 60.066 52.381 0.00 0.00 0.00 2.15
453 783 0.535335 TCGCCCCTGTCAACTGATAC 59.465 55.000 0.00 0.00 0.00 2.24
478 1596 3.085533 TGGACATTTGGGGTATGTTTCG 58.914 45.455 0.00 0.00 36.41 3.46
483 1601 2.188062 TTGGGGTATGTTTCGTGTCC 57.812 50.000 0.00 0.00 0.00 4.02
496 1614 1.606668 TCGTGTCCATTTGTTTCCAGC 59.393 47.619 0.00 0.00 0.00 4.85
505 1623 6.430000 GTCCATTTGTTTCCAGCTAAAGTAGA 59.570 38.462 0.00 0.00 0.00 2.59
513 1631 7.014230 TGTTTCCAGCTAAAGTAGAAATGCTTT 59.986 33.333 0.00 0.00 38.35 3.51
515 1633 6.237901 TCCAGCTAAAGTAGAAATGCTTTGA 58.762 36.000 2.17 0.00 36.47 2.69
551 1669 9.976776 TTATTAGTTCTCCTTCTTAGAGTCTGA 57.023 33.333 1.86 0.00 32.93 3.27
553 1671 8.887264 TTAGTTCTCCTTCTTAGAGTCTGATT 57.113 34.615 1.86 0.00 32.93 2.57
554 1672 7.169158 AGTTCTCCTTCTTAGAGTCTGATTG 57.831 40.000 1.86 0.00 32.93 2.67
555 1673 6.951198 AGTTCTCCTTCTTAGAGTCTGATTGA 59.049 38.462 1.86 0.00 32.93 2.57
556 1674 6.767524 TCTCCTTCTTAGAGTCTGATTGAC 57.232 41.667 1.86 0.00 45.67 3.18
572 1690 9.185192 GTCTGATTGACTTGTTTTAATTTCCAG 57.815 33.333 0.00 0.00 42.21 3.86
573 1691 8.912988 TCTGATTGACTTGTTTTAATTTCCAGT 58.087 29.630 0.00 0.00 0.00 4.00
574 1692 9.185192 CTGATTGACTTGTTTTAATTTCCAGTC 57.815 33.333 0.00 0.00 0.00 3.51
580 1698 9.399403 GACTTGTTTTAATTTCCAGTCTGATTC 57.601 33.333 0.00 0.00 0.00 2.52
582 1700 7.504924 TGTTTTAATTTCCAGTCTGATTCGT 57.495 32.000 0.00 0.00 0.00 3.85
601 1766 2.813754 CGTGTTGGTTGAATCCACTGAT 59.186 45.455 0.00 0.00 37.20 2.90
609 1774 2.115427 TGAATCCACTGATCCGGCTAA 58.885 47.619 0.00 0.00 0.00 3.09
625 1790 1.467342 GCTAACGGCCTGGTAACTTTG 59.533 52.381 0.00 0.00 33.56 2.77
626 1791 2.872842 GCTAACGGCCTGGTAACTTTGA 60.873 50.000 0.00 0.00 33.56 2.69
628 1793 0.763035 ACGGCCTGGTAACTTTGACT 59.237 50.000 0.00 0.00 37.61 3.41
630 1795 1.270625 CGGCCTGGTAACTTTGACTCA 60.271 52.381 0.00 0.00 37.61 3.41
631 1796 2.615493 CGGCCTGGTAACTTTGACTCAT 60.615 50.000 0.00 0.00 37.61 2.90
633 1798 3.307762 GGCCTGGTAACTTTGACTCATCT 60.308 47.826 0.00 0.00 37.61 2.90
639 1822 7.308229 CCTGGTAACTTTGACTCATCTTTCTTG 60.308 40.741 0.00 0.00 37.61 3.02
662 1845 8.962884 TTGTTAATCTGCTGATTTGCTAGATA 57.037 30.769 21.91 1.16 42.37 1.98
663 1846 9.565090 TTGTTAATCTGCTGATTTGCTAGATAT 57.435 29.630 21.91 0.00 42.37 1.63
694 1882 2.171003 TCTTCCAGATCGAGTGAAGCA 58.829 47.619 9.77 0.00 35.35 3.91
701 1889 0.976641 ATCGAGTGAAGCAACCTCCA 59.023 50.000 0.00 0.00 0.00 3.86
702 1890 0.033504 TCGAGTGAAGCAACCTCCAC 59.966 55.000 0.00 0.00 0.00 4.02
703 1891 1.284982 CGAGTGAAGCAACCTCCACG 61.285 60.000 0.00 0.00 34.93 4.94
704 1892 0.951040 GAGTGAAGCAACCTCCACGG 60.951 60.000 0.00 0.00 34.93 4.94
705 1893 1.070786 GTGAAGCAACCTCCACGGA 59.929 57.895 0.00 0.00 36.31 4.69
706 1894 0.951040 GTGAAGCAACCTCCACGGAG 60.951 60.000 6.08 6.08 41.63 4.63
707 1895 1.118965 TGAAGCAACCTCCACGGAGA 61.119 55.000 14.91 0.00 44.53 3.71
708 1896 0.390472 GAAGCAACCTCCACGGAGAG 60.390 60.000 14.91 7.27 44.53 3.20
709 1897 0.832135 AAGCAACCTCCACGGAGAGA 60.832 55.000 14.91 0.00 44.53 3.10
710 1898 1.216710 GCAACCTCCACGGAGAGAG 59.783 63.158 14.91 4.70 44.53 3.20
711 1899 1.251527 GCAACCTCCACGGAGAGAGA 61.252 60.000 14.91 0.00 44.53 3.10
712 1900 0.814457 CAACCTCCACGGAGAGAGAG 59.186 60.000 14.91 0.00 44.53 3.20
713 1901 0.699399 AACCTCCACGGAGAGAGAGA 59.301 55.000 14.91 0.00 44.53 3.10
714 1902 0.254747 ACCTCCACGGAGAGAGAGAG 59.745 60.000 14.91 0.00 44.53 3.20
715 1903 0.544223 CCTCCACGGAGAGAGAGAGA 59.456 60.000 14.91 0.00 44.53 3.10
716 1904 1.475034 CCTCCACGGAGAGAGAGAGAG 60.475 61.905 14.91 0.00 44.53 3.20
717 1905 1.484653 CTCCACGGAGAGAGAGAGAGA 59.515 57.143 7.35 0.00 44.53 3.10
718 1906 1.208535 TCCACGGAGAGAGAGAGAGAC 59.791 57.143 0.00 0.00 0.00 3.36
719 1907 1.663695 CACGGAGAGAGAGAGAGACC 58.336 60.000 0.00 0.00 0.00 3.85
720 1908 0.544697 ACGGAGAGAGAGAGAGACCC 59.455 60.000 0.00 0.00 0.00 4.46
721 1909 0.544223 CGGAGAGAGAGAGAGACCCA 59.456 60.000 0.00 0.00 0.00 4.51
722 1910 1.475034 CGGAGAGAGAGAGAGACCCAG 60.475 61.905 0.00 0.00 0.00 4.45
723 1911 1.843851 GGAGAGAGAGAGAGACCCAGA 59.156 57.143 0.00 0.00 0.00 3.86
724 1912 2.443255 GGAGAGAGAGAGAGACCCAGAT 59.557 54.545 0.00 0.00 0.00 2.90
725 1913 3.117512 GGAGAGAGAGAGAGACCCAGATT 60.118 52.174 0.00 0.00 0.00 2.40
726 1914 3.885297 GAGAGAGAGAGAGACCCAGATTG 59.115 52.174 0.00 0.00 0.00 2.67
727 1915 3.527253 AGAGAGAGAGAGACCCAGATTGA 59.473 47.826 0.00 0.00 0.00 2.57
728 1916 3.885297 GAGAGAGAGAGACCCAGATTGAG 59.115 52.174 0.00 0.00 0.00 3.02
729 1917 3.269381 AGAGAGAGAGACCCAGATTGAGT 59.731 47.826 0.00 0.00 0.00 3.41
730 1918 3.364549 AGAGAGAGACCCAGATTGAGTG 58.635 50.000 0.00 0.00 0.00 3.51
731 1919 3.011144 AGAGAGAGACCCAGATTGAGTGA 59.989 47.826 0.00 0.00 0.00 3.41
732 1920 3.766591 GAGAGAGACCCAGATTGAGTGAA 59.233 47.826 0.00 0.00 0.00 3.18
733 1921 3.768757 AGAGAGACCCAGATTGAGTGAAG 59.231 47.826 0.00 0.00 0.00 3.02
734 1922 2.235898 AGAGACCCAGATTGAGTGAAGC 59.764 50.000 0.00 0.00 0.00 3.86
735 1923 1.980765 AGACCCAGATTGAGTGAAGCA 59.019 47.619 0.00 0.00 0.00 3.91
736 1924 2.373169 AGACCCAGATTGAGTGAAGCAA 59.627 45.455 0.00 0.00 0.00 3.91
737 1925 2.485814 GACCCAGATTGAGTGAAGCAAC 59.514 50.000 0.00 0.00 0.00 4.17
738 1926 1.815003 CCCAGATTGAGTGAAGCAACC 59.185 52.381 0.00 0.00 0.00 3.77
739 1927 2.553904 CCCAGATTGAGTGAAGCAACCT 60.554 50.000 0.00 0.00 0.00 3.50
740 1928 2.746362 CCAGATTGAGTGAAGCAACCTC 59.254 50.000 0.00 0.00 0.00 3.85
741 1929 2.746362 CAGATTGAGTGAAGCAACCTCC 59.254 50.000 0.00 0.00 0.00 4.30
742 1930 2.373169 AGATTGAGTGAAGCAACCTCCA 59.627 45.455 0.00 0.00 0.00 3.86
743 1931 1.967319 TTGAGTGAAGCAACCTCCAC 58.033 50.000 0.00 0.00 0.00 4.02
744 1932 0.249868 TGAGTGAAGCAACCTCCACG 60.250 55.000 0.00 0.00 34.93 4.94
745 1933 0.951040 GAGTGAAGCAACCTCCACGG 60.951 60.000 0.00 0.00 34.93 4.94
746 1934 1.070786 GTGAAGCAACCTCCACGGA 59.929 57.895 0.00 0.00 36.31 4.69
747 1935 0.951040 GTGAAGCAACCTCCACGGAG 60.951 60.000 6.08 6.08 41.63 4.63
748 1936 1.118965 TGAAGCAACCTCCACGGAGA 61.119 55.000 14.91 0.00 44.53 3.71
749 1937 0.034896 GAAGCAACCTCCACGGAGAA 59.965 55.000 14.91 0.00 44.53 2.87
750 1938 0.472471 AAGCAACCTCCACGGAGAAA 59.528 50.000 14.91 0.00 44.53 2.52
751 1939 0.035458 AGCAACCTCCACGGAGAAAG 59.965 55.000 14.91 4.70 44.53 2.62
752 1940 0.034896 GCAACCTCCACGGAGAAAGA 59.965 55.000 14.91 0.00 44.53 2.52
753 1941 1.941668 GCAACCTCCACGGAGAAAGAG 60.942 57.143 14.91 0.00 44.53 2.85
754 1942 1.618837 CAACCTCCACGGAGAAAGAGA 59.381 52.381 14.91 0.00 44.53 3.10
755 1943 1.551452 ACCTCCACGGAGAAAGAGAG 58.449 55.000 14.91 0.00 44.53 3.20
756 1944 1.075698 ACCTCCACGGAGAAAGAGAGA 59.924 52.381 14.91 0.00 44.53 3.10
757 1945 1.474879 CCTCCACGGAGAAAGAGAGAC 59.525 57.143 14.91 0.00 44.53 3.36
758 1946 2.163509 CTCCACGGAGAAAGAGAGACA 58.836 52.381 7.35 0.00 44.53 3.41
759 1947 1.887198 TCCACGGAGAAAGAGAGACAC 59.113 52.381 0.00 0.00 0.00 3.67
760 1948 1.889829 CCACGGAGAAAGAGAGACACT 59.110 52.381 0.00 0.00 0.00 3.55
768 1956 4.057428 GAGAGACACTGCCGCCGT 62.057 66.667 0.00 0.00 0.00 5.68
769 1957 3.973267 GAGAGACACTGCCGCCGTC 62.973 68.421 0.00 0.00 0.00 4.79
782 1970 2.261671 CCGTCGTGTTCCCTCTGG 59.738 66.667 0.00 0.00 0.00 3.86
783 1971 2.571216 CCGTCGTGTTCCCTCTGGT 61.571 63.158 0.00 0.00 0.00 4.00
786 1974 2.137528 TCGTGTTCCCTCTGGTGCA 61.138 57.895 0.00 0.00 0.00 4.57
789 1977 2.743928 GTTCCCTCTGGTGCAGCG 60.744 66.667 11.91 6.42 0.00 5.18
790 1978 2.922503 TTCCCTCTGGTGCAGCGA 60.923 61.111 11.91 10.46 0.00 4.93
791 1979 3.240134 TTCCCTCTGGTGCAGCGAC 62.240 63.158 11.91 0.00 0.00 5.19
792 1980 4.767255 CCCTCTGGTGCAGCGACC 62.767 72.222 11.91 6.98 36.43 4.79
797 2155 3.320879 CTGGTGCAGCGACCCTCAT 62.321 63.158 11.91 0.00 34.79 2.90
799 2157 3.503363 GTGCAGCGACCCTCATGC 61.503 66.667 0.00 0.00 39.14 4.06
801 2159 2.747460 GCAGCGACCCTCATGCAA 60.747 61.111 0.00 0.00 38.54 4.08
894 2688 8.539117 AGCCTATCTAAACTTTAATTTGGCAT 57.461 30.769 0.00 0.00 38.07 4.40
895 2689 9.640952 AGCCTATCTAAACTTTAATTTGGCATA 57.359 29.630 0.00 0.00 38.07 3.14
919 2713 3.154710 TGTTCTAGAGCTCGTTCAAGGA 58.845 45.455 8.37 0.00 0.00 3.36
929 2723 3.003275 GCTCGTTCAAGGATTCACACAAA 59.997 43.478 0.00 0.00 0.00 2.83
967 2761 6.187727 AGCTCCCCTTATTCATCGATTTAA 57.812 37.500 0.00 0.00 0.00 1.52
969 2763 6.486993 AGCTCCCCTTATTCATCGATTTAAAC 59.513 38.462 0.00 0.00 0.00 2.01
1251 4240 2.554032 GGATGTGGTTGACAAGTTCCTG 59.446 50.000 0.00 0.00 38.36 3.86
1272 4273 3.255395 TGGTACGTGTCGAAGGTATTCAA 59.745 43.478 0.00 0.00 34.94 2.69
1275 4276 3.054878 ACGTGTCGAAGGTATTCAACAC 58.945 45.455 2.80 2.80 45.76 3.32
1424 4425 1.079503 GCTAGGCGTGAAAGGAACAG 58.920 55.000 0.00 0.00 0.00 3.16
1481 4482 1.456196 GCCATCGATCCTCGTCTCCA 61.456 60.000 0.00 0.00 41.35 3.86
1534 4535 3.454858 GGCATCTATGGGAAGAGGGATA 58.545 50.000 0.00 0.00 0.00 2.59
1564 4565 1.229464 AGGCTGCTCTCCTTGGAGT 60.229 57.895 15.44 0.00 35.89 3.85
1567 4568 1.515020 CTGCTCTCCTTGGAGTCCG 59.485 63.158 15.44 7.53 35.89 4.79
1571 4572 1.658686 CTCTCCTTGGAGTCCGACGG 61.659 65.000 7.84 7.84 0.00 4.79
1620 4621 3.775316 AGGTCTCTATCGTTGGATTTGGT 59.225 43.478 0.00 0.00 34.00 3.67
1692 4693 5.070847 AGGTGATTTTGATTATGGGGCATTC 59.929 40.000 0.00 0.00 0.00 2.67
1716 4717 1.605058 CTGTCGGTCGGAACCCTGAT 61.605 60.000 0.00 0.00 43.21 2.90
1717 4718 0.323633 TGTCGGTCGGAACCCTGATA 60.324 55.000 0.00 0.00 43.21 2.15
2016 5053 7.107542 TGCACTAAACTGTAAACCTTATAGGG 58.892 38.462 0.00 0.00 40.58 3.53
2209 5282 9.393249 CAACTGTAACAAATAATACACCAACAG 57.607 33.333 0.00 0.00 37.29 3.16
2766 5862 6.405731 GGTTATCAAGTTTAAGATGCATGCCA 60.406 38.462 16.68 3.52 0.00 4.92
2794 5890 4.733887 CGAGTTCGTTTCTGAATATACGCT 59.266 41.667 7.94 1.89 34.24 5.07
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 5.895807 TCCCTTTGAGTACTACTCCTACAA 58.104 41.667 12.79 0.00 44.44 2.41
9 10 5.525454 TCCCTTTGAGTACTACTCCTACA 57.475 43.478 12.79 0.00 44.44 2.74
10 11 6.606395 TCATTCCCTTTGAGTACTACTCCTAC 59.394 42.308 12.79 0.00 44.44 3.18
14 15 5.657302 TCCTCATTCCCTTTGAGTACTACTC 59.343 44.000 9.04 9.04 45.26 2.59
30 31 3.119352 GGTTTGGCAGTGAATCCTCATTC 60.119 47.826 0.00 0.00 39.24 2.67
37 38 3.575965 ATTTCGGTTTGGCAGTGAATC 57.424 42.857 0.00 0.00 0.00 2.52
142 233 3.552273 CCAGGCTTCATGCATTTATCAGC 60.552 47.826 0.00 0.00 45.15 4.26
147 238 1.752498 CTGCCAGGCTTCATGCATTTA 59.248 47.619 14.15 0.00 45.15 1.40
174 284 1.069978 TCAATCTCGTTGGTCAGTGCA 59.930 47.619 0.00 0.00 38.39 4.57
175 285 1.728971 CTCAATCTCGTTGGTCAGTGC 59.271 52.381 0.00 0.00 38.39 4.40
176 286 3.057245 TCTCTCAATCTCGTTGGTCAGTG 60.057 47.826 0.00 0.00 38.39 3.66
177 287 3.157881 TCTCTCAATCTCGTTGGTCAGT 58.842 45.455 0.00 0.00 38.39 3.41
178 288 3.857549 TCTCTCAATCTCGTTGGTCAG 57.142 47.619 0.00 0.00 38.39 3.51
179 289 4.600692 TTTCTCTCAATCTCGTTGGTCA 57.399 40.909 0.00 0.00 38.39 4.02
182 292 5.414360 TCTCATTTCTCTCAATCTCGTTGG 58.586 41.667 0.00 0.00 38.39 3.77
183 293 5.519566 CCTCTCATTTCTCTCAATCTCGTTG 59.480 44.000 0.00 0.00 39.25 4.10
184 294 5.420421 TCCTCTCATTTCTCTCAATCTCGTT 59.580 40.000 0.00 0.00 0.00 3.85
185 295 4.952957 TCCTCTCATTTCTCTCAATCTCGT 59.047 41.667 0.00 0.00 0.00 4.18
186 296 5.280945 GTCCTCTCATTTCTCTCAATCTCG 58.719 45.833 0.00 0.00 0.00 4.04
187 297 5.163561 ACGTCCTCTCATTTCTCTCAATCTC 60.164 44.000 0.00 0.00 0.00 2.75
189 299 5.004922 ACGTCCTCTCATTTCTCTCAATC 57.995 43.478 0.00 0.00 0.00 2.67
190 300 5.419155 TGTACGTCCTCTCATTTCTCTCAAT 59.581 40.000 0.00 0.00 0.00 2.57
192 302 4.332828 TGTACGTCCTCTCATTTCTCTCA 58.667 43.478 0.00 0.00 0.00 3.27
193 303 4.966965 TGTACGTCCTCTCATTTCTCTC 57.033 45.455 0.00 0.00 0.00 3.20
233 343 1.224592 GTGGGCCATACAGGGACAG 59.775 63.158 10.70 0.00 37.87 3.51
246 359 3.694072 TGTAATTATTCAGTGCAGTGGGC 59.306 43.478 21.21 4.21 45.13 5.36
286 399 2.708861 ACGATGCCTCCCAATACCAATA 59.291 45.455 0.00 0.00 0.00 1.90
287 400 1.494721 ACGATGCCTCCCAATACCAAT 59.505 47.619 0.00 0.00 0.00 3.16
296 578 4.554036 GCCTCCACGATGCCTCCC 62.554 72.222 0.00 0.00 0.00 4.30
297 579 3.453070 GAGCCTCCACGATGCCTCC 62.453 68.421 0.00 0.00 0.00 4.30
310 592 2.499289 CAGGTCAACAGATACAGAGCCT 59.501 50.000 0.00 0.00 0.00 4.58
323 609 1.102978 ACCAACAACAGCAGGTCAAC 58.897 50.000 0.00 0.00 0.00 3.18
346 632 1.484038 GTGGAGATGAGGAGCAGAGT 58.516 55.000 0.00 0.00 0.00 3.24
370 663 0.980423 GAGGAAGGGAGCACTCTGTT 59.020 55.000 0.00 0.00 0.00 3.16
420 719 0.037326 GGGCGAACACTGTGATGAGA 60.037 55.000 15.86 0.00 0.00 3.27
422 721 1.003839 GGGGCGAACACTGTGATGA 60.004 57.895 15.86 0.00 0.00 2.92
423 722 1.003355 AGGGGCGAACACTGTGATG 60.003 57.895 15.86 4.66 0.00 3.07
425 724 2.377628 GACAGGGGCGAACACTGTGA 62.378 60.000 18.43 0.00 44.79 3.58
426 725 1.961277 GACAGGGGCGAACACTGTG 60.961 63.158 18.43 6.19 44.79 3.66
443 773 1.634960 TGTCCACGGGTATCAGTTGA 58.365 50.000 0.00 0.00 0.00 3.18
451 781 1.135068 ACCCCAAATGTCCACGGGTA 61.135 55.000 0.00 0.00 45.37 3.69
452 782 2.438795 CCCCAAATGTCCACGGGT 59.561 61.111 0.00 0.00 36.92 5.28
453 783 0.257616 ATACCCCAAATGTCCACGGG 59.742 55.000 0.00 0.00 39.85 5.28
478 1596 4.846779 TTAGCTGGAAACAAATGGACAC 57.153 40.909 0.00 0.00 42.06 3.67
483 1601 9.132521 CATTTCTACTTTAGCTGGAAACAAATG 57.867 33.333 0.00 0.00 42.06 2.32
530 1648 6.951198 TCAATCAGACTCTAAGAAGGAGAACT 59.049 38.462 0.00 0.00 35.10 3.01
531 1649 7.033185 GTCAATCAGACTCTAAGAAGGAGAAC 58.967 42.308 0.00 0.00 44.09 3.01
547 1665 8.912988 ACTGGAAATTAAAACAAGTCAATCAGA 58.087 29.630 0.00 0.00 0.00 3.27
548 1666 9.185192 GACTGGAAATTAAAACAAGTCAATCAG 57.815 33.333 0.00 0.00 0.00 2.90
550 1668 9.185192 CAGACTGGAAATTAAAACAAGTCAATC 57.815 33.333 13.22 0.00 0.00 2.67
551 1669 8.912988 TCAGACTGGAAATTAAAACAAGTCAAT 58.087 29.630 1.81 0.00 0.00 2.57
552 1670 8.287439 TCAGACTGGAAATTAAAACAAGTCAA 57.713 30.769 1.81 3.28 0.00 3.18
553 1671 7.873719 TCAGACTGGAAATTAAAACAAGTCA 57.126 32.000 1.81 0.00 0.00 3.41
554 1672 9.399403 GAATCAGACTGGAAATTAAAACAAGTC 57.601 33.333 1.81 0.00 0.00 3.01
555 1673 8.076178 CGAATCAGACTGGAAATTAAAACAAGT 58.924 33.333 1.81 0.00 0.00 3.16
556 1674 8.076178 ACGAATCAGACTGGAAATTAAAACAAG 58.924 33.333 1.81 0.00 0.00 3.16
557 1675 7.860373 CACGAATCAGACTGGAAATTAAAACAA 59.140 33.333 1.81 0.00 0.00 2.83
558 1676 7.012894 ACACGAATCAGACTGGAAATTAAAACA 59.987 33.333 1.81 0.00 0.00 2.83
559 1677 7.360361 ACACGAATCAGACTGGAAATTAAAAC 58.640 34.615 1.81 0.00 0.00 2.43
560 1678 7.504924 ACACGAATCAGACTGGAAATTAAAA 57.495 32.000 1.81 0.00 0.00 1.52
561 1679 7.359595 CAACACGAATCAGACTGGAAATTAAA 58.640 34.615 1.81 0.00 0.00 1.52
562 1680 6.072728 CCAACACGAATCAGACTGGAAATTAA 60.073 38.462 1.81 0.00 0.00 1.40
563 1681 5.411361 CCAACACGAATCAGACTGGAAATTA 59.589 40.000 1.81 0.00 0.00 1.40
564 1682 4.216257 CCAACACGAATCAGACTGGAAATT 59.784 41.667 1.81 0.00 0.00 1.82
565 1683 3.753272 CCAACACGAATCAGACTGGAAAT 59.247 43.478 1.81 0.00 0.00 2.17
566 1684 3.138304 CCAACACGAATCAGACTGGAAA 58.862 45.455 1.81 0.00 0.00 3.13
567 1685 2.104111 ACCAACACGAATCAGACTGGAA 59.896 45.455 1.81 0.00 0.00 3.53
568 1686 1.691976 ACCAACACGAATCAGACTGGA 59.308 47.619 1.81 0.00 0.00 3.86
569 1687 2.169832 ACCAACACGAATCAGACTGG 57.830 50.000 1.81 0.00 0.00 4.00
570 1688 3.130633 TCAACCAACACGAATCAGACTG 58.869 45.455 0.00 0.00 0.00 3.51
571 1689 3.469008 TCAACCAACACGAATCAGACT 57.531 42.857 0.00 0.00 0.00 3.24
572 1690 4.378459 GGATTCAACCAACACGAATCAGAC 60.378 45.833 12.05 0.00 44.41 3.51
573 1691 3.751175 GGATTCAACCAACACGAATCAGA 59.249 43.478 12.05 0.00 44.41 3.27
574 1692 3.501828 TGGATTCAACCAACACGAATCAG 59.498 43.478 12.05 0.00 44.41 2.90
580 1698 2.217750 TCAGTGGATTCAACCAACACG 58.782 47.619 0.00 0.00 41.87 4.49
582 1700 3.420893 GGATCAGTGGATTCAACCAACA 58.579 45.455 0.00 0.00 41.87 3.33
609 1774 0.763035 AGTCAAAGTTACCAGGCCGT 59.237 50.000 0.00 0.00 0.00 5.68
621 1786 9.823098 CAGATTAACAAGAAAGATGAGTCAAAG 57.177 33.333 0.00 0.00 0.00 2.77
622 1787 8.292448 GCAGATTAACAAGAAAGATGAGTCAAA 58.708 33.333 0.00 0.00 0.00 2.69
625 1790 7.332926 TCAGCAGATTAACAAGAAAGATGAGTC 59.667 37.037 0.00 0.00 0.00 3.36
626 1791 7.164122 TCAGCAGATTAACAAGAAAGATGAGT 58.836 34.615 0.00 0.00 0.00 3.41
628 1793 8.571461 AATCAGCAGATTAACAAGAAAGATGA 57.429 30.769 1.97 0.00 42.54 2.92
630 1795 7.758528 GCAAATCAGCAGATTAACAAGAAAGAT 59.241 33.333 4.61 0.00 43.52 2.40
631 1796 7.040201 AGCAAATCAGCAGATTAACAAGAAAGA 60.040 33.333 4.61 0.00 43.52 2.52
633 1798 6.985117 AGCAAATCAGCAGATTAACAAGAAA 58.015 32.000 4.61 0.00 43.52 2.52
694 1882 0.699399 TCTCTCTCTCCGTGGAGGTT 59.301 55.000 15.67 0.00 42.20 3.50
701 1889 0.544697 GGGTCTCTCTCTCTCTCCGT 59.455 60.000 0.00 0.00 0.00 4.69
702 1890 0.544223 TGGGTCTCTCTCTCTCTCCG 59.456 60.000 0.00 0.00 0.00 4.63
703 1891 1.843851 TCTGGGTCTCTCTCTCTCTCC 59.156 57.143 0.00 0.00 0.00 3.71
704 1892 3.864789 ATCTGGGTCTCTCTCTCTCTC 57.135 52.381 0.00 0.00 0.00 3.20
705 1893 3.527253 TCAATCTGGGTCTCTCTCTCTCT 59.473 47.826 0.00 0.00 0.00 3.10
706 1894 3.885297 CTCAATCTGGGTCTCTCTCTCTC 59.115 52.174 0.00 0.00 0.00 3.20
707 1895 3.269381 ACTCAATCTGGGTCTCTCTCTCT 59.731 47.826 0.00 0.00 0.00 3.10
708 1896 3.381272 CACTCAATCTGGGTCTCTCTCTC 59.619 52.174 0.00 0.00 0.00 3.20
709 1897 3.011144 TCACTCAATCTGGGTCTCTCTCT 59.989 47.826 0.00 0.00 0.00 3.10
710 1898 3.360867 TCACTCAATCTGGGTCTCTCTC 58.639 50.000 0.00 0.00 0.00 3.20
711 1899 3.464720 TCACTCAATCTGGGTCTCTCT 57.535 47.619 0.00 0.00 0.00 3.10
712 1900 3.678529 GCTTCACTCAATCTGGGTCTCTC 60.679 52.174 0.00 0.00 0.00 3.20
713 1901 2.235898 GCTTCACTCAATCTGGGTCTCT 59.764 50.000 0.00 0.00 0.00 3.10
714 1902 2.027745 TGCTTCACTCAATCTGGGTCTC 60.028 50.000 0.00 0.00 0.00 3.36
715 1903 1.980765 TGCTTCACTCAATCTGGGTCT 59.019 47.619 0.00 0.00 0.00 3.85
716 1904 2.479566 TGCTTCACTCAATCTGGGTC 57.520 50.000 0.00 0.00 0.00 4.46
717 1905 2.508526 GTTGCTTCACTCAATCTGGGT 58.491 47.619 0.00 0.00 0.00 4.51
718 1906 1.815003 GGTTGCTTCACTCAATCTGGG 59.185 52.381 0.00 0.00 0.00 4.45
719 1907 2.746362 GAGGTTGCTTCACTCAATCTGG 59.254 50.000 0.00 0.00 35.23 3.86
720 1908 2.746362 GGAGGTTGCTTCACTCAATCTG 59.254 50.000 0.00 0.00 35.23 2.90
721 1909 2.373169 TGGAGGTTGCTTCACTCAATCT 59.627 45.455 0.00 0.00 37.58 2.40
722 1910 2.485814 GTGGAGGTTGCTTCACTCAATC 59.514 50.000 0.00 0.00 32.98 2.67
723 1911 2.508526 GTGGAGGTTGCTTCACTCAAT 58.491 47.619 0.00 0.00 32.98 2.57
724 1912 1.810031 CGTGGAGGTTGCTTCACTCAA 60.810 52.381 0.00 0.00 32.98 3.02
725 1913 0.249868 CGTGGAGGTTGCTTCACTCA 60.250 55.000 0.00 0.00 32.98 3.41
726 1914 0.951040 CCGTGGAGGTTGCTTCACTC 60.951 60.000 0.00 0.00 34.51 3.51
727 1915 1.071471 CCGTGGAGGTTGCTTCACT 59.929 57.895 0.00 0.00 34.51 3.41
728 1916 0.951040 CTCCGTGGAGGTTGCTTCAC 60.951 60.000 8.09 0.00 41.99 3.18
729 1917 1.118965 TCTCCGTGGAGGTTGCTTCA 61.119 55.000 15.67 0.00 42.20 3.02
730 1918 0.034896 TTCTCCGTGGAGGTTGCTTC 59.965 55.000 15.67 0.00 42.20 3.86
731 1919 0.472471 TTTCTCCGTGGAGGTTGCTT 59.528 50.000 15.67 0.00 42.20 3.91
732 1920 0.035458 CTTTCTCCGTGGAGGTTGCT 59.965 55.000 15.67 0.00 42.20 3.91
733 1921 0.034896 TCTTTCTCCGTGGAGGTTGC 59.965 55.000 15.67 0.00 42.20 4.17
734 1922 1.618837 TCTCTTTCTCCGTGGAGGTTG 59.381 52.381 15.67 6.39 42.20 3.77
735 1923 1.896465 CTCTCTTTCTCCGTGGAGGTT 59.104 52.381 15.67 0.00 42.20 3.50
736 1924 1.075698 TCTCTCTTTCTCCGTGGAGGT 59.924 52.381 15.67 0.00 42.20 3.85
737 1925 1.474879 GTCTCTCTTTCTCCGTGGAGG 59.525 57.143 15.67 0.45 42.20 4.30
738 1926 2.094957 GTGTCTCTCTTTCTCCGTGGAG 60.095 54.545 9.73 9.73 43.21 3.86
739 1927 1.887198 GTGTCTCTCTTTCTCCGTGGA 59.113 52.381 0.00 0.00 0.00 4.02
740 1928 1.889829 AGTGTCTCTCTTTCTCCGTGG 59.110 52.381 0.00 0.00 0.00 4.94
741 1929 2.924454 GCAGTGTCTCTCTTTCTCCGTG 60.924 54.545 0.00 0.00 0.00 4.94
742 1930 1.271102 GCAGTGTCTCTCTTTCTCCGT 59.729 52.381 0.00 0.00 0.00 4.69
743 1931 1.403514 GGCAGTGTCTCTCTTTCTCCG 60.404 57.143 0.00 0.00 0.00 4.63
744 1932 1.403514 CGGCAGTGTCTCTCTTTCTCC 60.404 57.143 0.00 0.00 0.00 3.71
745 1933 1.989430 CGGCAGTGTCTCTCTTTCTC 58.011 55.000 0.00 0.00 0.00 2.87
746 1934 0.037790 GCGGCAGTGTCTCTCTTTCT 60.038 55.000 0.00 0.00 0.00 2.52
747 1935 1.016653 GGCGGCAGTGTCTCTCTTTC 61.017 60.000 3.07 0.00 0.00 2.62
748 1936 1.004440 GGCGGCAGTGTCTCTCTTT 60.004 57.895 3.07 0.00 0.00 2.52
749 1937 2.659610 GGCGGCAGTGTCTCTCTT 59.340 61.111 3.07 0.00 0.00 2.85
750 1938 3.753434 CGGCGGCAGTGTCTCTCT 61.753 66.667 10.53 0.00 0.00 3.10
751 1939 3.973267 GACGGCGGCAGTGTCTCTC 62.973 68.421 8.47 0.00 0.00 3.20
752 1940 4.057428 GACGGCGGCAGTGTCTCT 62.057 66.667 8.47 0.00 0.00 3.10
768 1956 2.099652 CTGCACCAGAGGGAACACGA 62.100 60.000 0.00 0.00 38.05 4.35
769 1957 1.669115 CTGCACCAGAGGGAACACG 60.669 63.158 0.00 0.00 38.05 4.49
770 1958 1.968540 GCTGCACCAGAGGGAACAC 60.969 63.158 0.00 0.00 38.05 3.32
774 1962 3.695606 GTCGCTGCACCAGAGGGA 61.696 66.667 0.00 0.00 38.05 4.20
779 1967 3.320879 ATGAGGGTCGCTGCACCAG 62.321 63.158 18.44 0.00 38.32 4.00
782 1970 3.503363 GCATGAGGGTCGCTGCAC 61.503 66.667 0.00 0.00 34.77 4.57
783 1971 3.549900 TTGCATGAGGGTCGCTGCA 62.550 57.895 0.00 0.00 42.48 4.41
786 1974 1.376424 CAGTTGCATGAGGGTCGCT 60.376 57.895 0.00 0.00 0.00 4.93
789 1977 2.048603 GGCCAGTTGCATGAGGGTC 61.049 63.158 0.00 0.00 43.89 4.46
790 1978 2.036256 GGCCAGTTGCATGAGGGT 59.964 61.111 0.00 0.00 43.89 4.34
791 1979 1.751927 GAGGCCAGTTGCATGAGGG 60.752 63.158 5.01 0.00 43.89 4.30
792 1980 1.030488 CAGAGGCCAGTTGCATGAGG 61.030 60.000 5.01 0.00 43.89 3.86
797 2155 2.113774 CACCAGAGGCCAGTTGCA 59.886 61.111 5.01 0.00 43.89 4.08
799 2157 3.052082 CGCACCAGAGGCCAGTTG 61.052 66.667 5.01 0.00 0.00 3.16
880 2674 9.905713 TCTAGAACAGATATGCCAAATTAAAGT 57.094 29.630 0.00 0.00 0.00 2.66
894 2688 5.066634 CCTTGAACGAGCTCTAGAACAGATA 59.933 44.000 12.85 0.00 31.13 1.98
895 2689 4.142271 CCTTGAACGAGCTCTAGAACAGAT 60.142 45.833 12.85 0.00 31.13 2.90
898 2692 3.154710 TCCTTGAACGAGCTCTAGAACA 58.845 45.455 12.85 2.27 0.00 3.18
919 2713 9.537192 CTATAATGCAATCCAATTTGTGTGAAT 57.463 29.630 0.00 0.00 0.00 2.57
929 2723 4.045079 AGGGGAGCTATAATGCAATCCAAT 59.955 41.667 0.00 0.00 31.35 3.16
967 2761 2.749621 GGATCAATCAGCTGGAAACGTT 59.250 45.455 15.13 0.00 0.00 3.99
969 2763 2.353889 CTGGATCAATCAGCTGGAAACG 59.646 50.000 15.13 0.00 0.00 3.60
1084 2882 6.459066 TGAGAAACTCGACATCTTTCTTGAT 58.541 36.000 0.00 0.00 34.97 2.57
1163 2961 1.708993 TTGCCTGTCAAGCTGGTCCT 61.709 55.000 0.00 0.00 38.33 3.85
1173 2971 0.761187 AGAGCTTGACTTGCCTGTCA 59.239 50.000 4.99 4.99 44.17 3.58
1251 4240 3.492421 TGAATACCTTCGACACGTACC 57.508 47.619 0.00 0.00 33.86 3.34
1272 4273 0.843309 TGGTGTTGTCATGAGGGTGT 59.157 50.000 0.00 0.00 0.00 4.16
1275 4276 1.881973 CTGTTGGTGTTGTCATGAGGG 59.118 52.381 0.00 0.00 0.00 4.30
1368 4369 3.507162 TGCTCCTTGATTTCCTTGACA 57.493 42.857 0.00 0.00 0.00 3.58
1424 4425 0.394565 AGGAGCAATACCATCGAGCC 59.605 55.000 0.00 0.00 0.00 4.70
1501 4502 0.463833 TAGATGCCGACGAGCTCTGA 60.464 55.000 12.85 0.00 0.00 3.27
1571 4572 2.030805 AGTCTTTTGTTTGAGGCATCGC 60.031 45.455 0.00 0.00 0.00 4.58
1581 4582 7.468141 AGAGACCTTTTTCAGTCTTTTGTTT 57.532 32.000 0.00 0.00 43.32 2.83
1587 4588 6.347859 ACGATAGAGACCTTTTTCAGTCTT 57.652 37.500 0.00 0.00 43.32 3.01
1620 4621 0.038166 GAGTGGTCTTGCCCAATCCA 59.962 55.000 0.00 2.46 42.37 3.41
1682 4683 1.463674 GACAGAAACGAATGCCCCAT 58.536 50.000 0.00 0.00 0.00 4.00
1692 4693 1.280206 GGTTCCGACCGACAGAAACG 61.280 60.000 0.00 0.00 35.91 3.60
1717 4718 8.166726 GGATATCCCTGAAAACCTTCTTGATAT 58.833 37.037 11.02 0.00 33.85 1.63
1927 4956 1.227999 CCTTCCGTGTGACGCACAAT 61.228 55.000 18.67 0.00 46.28 2.71
2016 5053 1.555967 TACAGGCTTGAAATTGGGCC 58.444 50.000 1.40 0.00 44.38 5.80
2209 5282 6.156748 TCTTTCTTTCCTTTACTTTTGCCC 57.843 37.500 0.00 0.00 0.00 5.36
2734 5827 7.201652 GCATCTTAAACTTGATAACCTGACCTC 60.202 40.741 0.00 0.00 0.00 3.85
2735 5828 6.599638 GCATCTTAAACTTGATAACCTGACCT 59.400 38.462 0.00 0.00 0.00 3.85
2794 5890 5.722441 TGGGTGGAACTACACATCTATAACA 59.278 40.000 0.00 0.00 43.08 2.41


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

AutoCloner maintained by Alex Coulton.