Multiple sequence alignment - TraesCS3A01G005900

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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 TraesCS3A01G005900 chr3A 100.000 3004 0 0 1 3004 7202717 7199714 0.000000e+00 5548
1 TraesCS3A01G005900 chr3A 97.076 171 4 1 700 870 710866862 710866693 1.360000e-73 287
2 TraesCS3A01G005900 chr3A 96.512 172 5 1 698 869 157045214 157045384 1.760000e-72 283
3 TraesCS3A01G005900 chr3D 94.045 1377 51 15 866 2235 1845191 1846543 0.000000e+00 2060
4 TraesCS3A01G005900 chr3D 91.699 783 42 13 2228 3004 1846862 1847627 0.000000e+00 1064
5 TraesCS3A01G005900 chr3D 85.734 715 68 18 1 704 1844501 1845192 0.000000e+00 725
6 TraesCS3A01G005900 chr3D 85.926 135 17 1 2726 2858 471085025 471085159 3.120000e-30 143
7 TraesCS3A01G005900 chr3D 79.500 200 27 12 2240 2435 504046516 504046327 2.430000e-26 130
8 TraesCS3A01G005900 chr3D 83.459 133 21 1 2726 2858 13975211 13975342 4.070000e-24 122
9 TraesCS3A01G005900 chr3B 94.350 1292 38 15 866 2141 4202083 4203355 0.000000e+00 1951
10 TraesCS3A01G005900 chr3B 95.276 995 26 10 866 1858 5058277 5059252 0.000000e+00 1557
11 TraesCS3A01G005900 chr3B 86.176 680 72 16 1 670 5056497 5057164 0.000000e+00 715
12 TraesCS3A01G005900 chr3B 85.735 680 77 16 1 670 4200338 4201007 0.000000e+00 701
13 TraesCS3A01G005900 chr6A 95.082 183 7 2 687 868 96715942 96716123 1.360000e-73 287
14 TraesCS3A01G005900 chr6A 96.512 172 5 1 698 869 349516471 349516641 1.760000e-72 283
15 TraesCS3A01G005900 chr4B 95.531 179 5 3 702 878 658178326 658178149 1.760000e-72 283
16 TraesCS3A01G005900 chr5D 96.491 171 5 1 698 868 355074731 355074562 6.340000e-72 281
17 TraesCS3A01G005900 chr5D 95.808 167 6 1 703 869 66671785 66671950 4.940000e-68 268
18 TraesCS3A01G005900 chr1A 94.505 182 6 4 687 868 425168432 425168609 8.200000e-71 278
19 TraesCS3A01G005900 chr5A 93.548 186 9 3 699 884 693314951 693314769 1.060000e-69 274
20 TraesCS3A01G005900 chr5A 86.179 123 13 4 2736 2856 443736599 443736479 2.430000e-26 130
21 TraesCS3A01G005900 chrUn 82.096 229 33 6 2251 2474 421241263 421241488 3.950000e-44 189
22 TraesCS3A01G005900 chr2B 82.096 229 33 6 2251 2474 7030993 7031218 3.950000e-44 189
23 TraesCS3A01G005900 chr2B 82.096 229 33 6 2251 2474 7125188 7125413 3.950000e-44 189
24 TraesCS3A01G005900 chr2B 81.659 229 34 6 2251 2474 7069684 7069909 1.840000e-42 183
25 TraesCS3A01G005900 chr2B 81.659 229 34 6 2251 2474 7111353 7111578 1.840000e-42 183
26 TraesCS3A01G005900 chr2B 81.223 229 35 5 2251 2474 454765205 454764980 8.560000e-41 178
27 TraesCS3A01G005900 chr2B 83.582 134 20 2 2726 2858 697731054 697730922 1.130000e-24 124
28 TraesCS3A01G005900 chr5B 81.771 192 32 3 2284 2473 288439959 288439769 1.110000e-34 158
29 TraesCS3A01G005900 chr1D 81.250 192 28 7 2281 2467 474358238 474358050 6.710000e-32 148
30 TraesCS3A01G005900 chr1D 86.992 123 13 3 2735 2857 326785902 326785783 5.220000e-28 135
31 TraesCS3A01G005900 chr7D 89.815 108 9 2 2228 2335 129804595 129804490 1.450000e-28 137
32 TraesCS3A01G005900 chr7D 85.484 124 17 1 2734 2857 364623888 364624010 8.740000e-26 128
33 TraesCS3A01G005900 chr2A 84.328 134 16 2 2726 2859 753679495 753679367 3.140000e-25 126
34 TraesCS3A01G005900 chr7B 84.921 126 15 4 2735 2859 730394969 730395091 1.130000e-24 124


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 TraesCS3A01G005900 chr3A 7199714 7202717 3003 True 5548 5548 100.000000 1 3004 1 chr3A.!!$R1 3003
1 TraesCS3A01G005900 chr3D 1844501 1847627 3126 False 1283 2060 90.492667 1 3004 3 chr3D.!!$F3 3003
2 TraesCS3A01G005900 chr3B 4200338 4203355 3017 False 1326 1951 90.042500 1 2141 2 chr3B.!!$F1 2140
3 TraesCS3A01G005900 chr3B 5056497 5059252 2755 False 1136 1557 90.726000 1 1858 2 chr3B.!!$F2 1857

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
585 597 0.041839 CAGATGGCTAAATCGCACGC 60.042 55.0 0.0 0.0 0.0 5.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2556 4001 0.10412 TCGGATGTAGATGCAACGGG 59.896 55.0 0.0 0.0 0.0 5.28 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
107 108 7.202526 ACTATTTTGGAGATTGTTGTTGTGTG 58.797 34.615 0.00 0.00 0.00 3.82
108 109 4.383850 TTTGGAGATTGTTGTTGTGTGG 57.616 40.909 0.00 0.00 0.00 4.17
109 110 3.011566 TGGAGATTGTTGTTGTGTGGT 57.988 42.857 0.00 0.00 0.00 4.16
110 111 3.360867 TGGAGATTGTTGTTGTGTGGTT 58.639 40.909 0.00 0.00 0.00 3.67
175 180 2.151502 TTTTCTTCAACTGGCCACCA 57.848 45.000 0.00 0.00 0.00 4.17
187 192 1.754226 TGGCCACCAGAGTTGTTTTTC 59.246 47.619 0.00 0.00 0.00 2.29
193 198 3.625764 CACCAGAGTTGTTTTTCCTTCGA 59.374 43.478 0.00 0.00 0.00 3.71
252 257 2.047274 CGGCGACTGTGGGACAAT 60.047 61.111 0.00 0.00 44.16 2.71
332 337 3.680620 ATCCATGGTGACCGCGGTG 62.681 63.158 39.65 20.44 0.00 4.94
342 347 2.819595 CCGCGGTGTGGGATTCAG 60.820 66.667 19.50 0.00 0.00 3.02
344 349 1.671054 CGCGGTGTGGGATTCAGTT 60.671 57.895 0.00 0.00 0.00 3.16
350 361 1.537202 GTGTGGGATTCAGTTGTGCTC 59.463 52.381 0.00 0.00 0.00 4.26
363 374 2.933287 TGCTCCAATCCCGGTGGT 60.933 61.111 9.27 0.00 37.43 4.16
408 419 2.560861 CGGGCATGTCCACAAACG 59.439 61.111 18.31 0.00 36.21 3.60
446 457 3.126703 TTGAGGGTTGGAAGCGGCA 62.127 57.895 1.45 0.00 0.00 5.69
533 545 3.574396 AGTGAGAAAGAAGACGACATGGA 59.426 43.478 0.00 0.00 0.00 3.41
539 551 2.374184 AGAAGACGACATGGAGAGAGG 58.626 52.381 0.00 0.00 0.00 3.69
540 552 2.025793 AGAAGACGACATGGAGAGAGGA 60.026 50.000 0.00 0.00 0.00 3.71
541 553 1.757682 AGACGACATGGAGAGAGGAC 58.242 55.000 0.00 0.00 0.00 3.85
542 554 1.004862 AGACGACATGGAGAGAGGACA 59.995 52.381 0.00 0.00 0.00 4.02
543 555 2.028130 GACGACATGGAGAGAGGACAT 58.972 52.381 0.00 0.00 0.00 3.06
568 580 4.832266 AGGATCAGATCTAACAGCTACCAG 59.168 45.833 10.36 0.00 0.00 4.00
581 593 1.801178 GCTACCAGATGGCTAAATCGC 59.199 52.381 0.00 0.00 39.32 4.58
585 597 0.041839 CAGATGGCTAAATCGCACGC 60.042 55.000 0.00 0.00 0.00 5.34
586 598 0.179073 AGATGGCTAAATCGCACGCT 60.179 50.000 0.00 0.00 0.00 5.07
589 601 0.672091 TGGCTAAATCGCACGCTTGA 60.672 50.000 0.00 0.00 0.00 3.02
597 609 3.127533 GCACGCTTGAAGGCCGAT 61.128 61.111 0.00 0.00 0.00 4.18
619 631 2.126110 CCAAATTTGGGGCGACGC 60.126 61.111 26.87 12.43 44.70 5.19
647 659 1.134371 CCTAGCACTGCCCTTTAGACC 60.134 57.143 0.00 0.00 0.00 3.85
652 664 3.203040 AGCACTGCCCTTTAGACCAATAT 59.797 43.478 0.00 0.00 0.00 1.28
657 669 7.201911 GCACTGCCCTTTAGACCAATATTATTT 60.202 37.037 0.00 0.00 0.00 1.40
658 670 9.349713 CACTGCCCTTTAGACCAATATTATTTA 57.650 33.333 0.00 0.00 0.00 1.40
685 1778 6.838382 TGGCTAAGATAATCTAAAGTTCCCC 58.162 40.000 0.00 0.00 0.00 4.81
712 1805 6.525578 TTTATGCATATACTACTCCCTCCG 57.474 41.667 7.36 0.00 0.00 4.63
713 1806 3.520691 TGCATATACTACTCCCTCCGT 57.479 47.619 0.00 0.00 0.00 4.69
714 1807 3.840991 TGCATATACTACTCCCTCCGTT 58.159 45.455 0.00 0.00 0.00 4.44
715 1808 4.220724 TGCATATACTACTCCCTCCGTTT 58.779 43.478 0.00 0.00 0.00 3.60
716 1809 4.280174 TGCATATACTACTCCCTCCGTTTC 59.720 45.833 0.00 0.00 0.00 2.78
717 1810 4.523558 GCATATACTACTCCCTCCGTTTCT 59.476 45.833 0.00 0.00 0.00 2.52
718 1811 5.709164 GCATATACTACTCCCTCCGTTTCTA 59.291 44.000 0.00 0.00 0.00 2.10
719 1812 6.208204 GCATATACTACTCCCTCCGTTTCTAA 59.792 42.308 0.00 0.00 0.00 2.10
720 1813 7.255730 GCATATACTACTCCCTCCGTTTCTAAA 60.256 40.741 0.00 0.00 0.00 1.85
721 1814 8.804204 CATATACTACTCCCTCCGTTTCTAAAT 58.196 37.037 0.00 0.00 0.00 1.40
723 1816 8.953223 ATACTACTCCCTCCGTTTCTAAATAT 57.047 34.615 0.00 0.00 0.00 1.28
724 1817 7.672122 ACTACTCCCTCCGTTTCTAAATATT 57.328 36.000 0.00 0.00 0.00 1.28
725 1818 8.087303 ACTACTCCCTCCGTTTCTAAATATTT 57.913 34.615 5.89 5.89 0.00 1.40
726 1819 7.985752 ACTACTCCCTCCGTTTCTAAATATTTG 59.014 37.037 11.05 1.65 0.00 2.32
727 1820 6.718294 ACTCCCTCCGTTTCTAAATATTTGT 58.282 36.000 11.05 0.00 0.00 2.83
728 1821 6.822170 ACTCCCTCCGTTTCTAAATATTTGTC 59.178 38.462 11.05 0.00 0.00 3.18
729 1822 6.954232 TCCCTCCGTTTCTAAATATTTGTCT 58.046 36.000 11.05 0.00 0.00 3.41
730 1823 7.399634 TCCCTCCGTTTCTAAATATTTGTCTT 58.600 34.615 11.05 0.00 0.00 3.01
731 1824 7.886446 TCCCTCCGTTTCTAAATATTTGTCTTT 59.114 33.333 11.05 0.00 0.00 2.52
732 1825 8.182227 CCCTCCGTTTCTAAATATTTGTCTTTC 58.818 37.037 11.05 0.00 0.00 2.62
733 1826 8.947115 CCTCCGTTTCTAAATATTTGTCTTTCT 58.053 33.333 11.05 0.00 0.00 2.52
752 1845 8.988064 TCTTTCTAGACATTTCACATGACTAC 57.012 34.615 0.00 0.00 0.00 2.73
753 1846 8.807118 TCTTTCTAGACATTTCACATGACTACT 58.193 33.333 0.00 0.00 0.00 2.57
755 1848 9.856488 TTTCTAGACATTTCACATGACTACTAC 57.144 33.333 0.00 0.00 0.00 2.73
756 1849 8.575649 TCTAGACATTTCACATGACTACTACA 57.424 34.615 0.00 0.00 0.00 2.74
757 1850 9.190317 TCTAGACATTTCACATGACTACTACAT 57.810 33.333 0.00 0.00 0.00 2.29
760 1853 7.915923 AGACATTTCACATGACTACTACATACG 59.084 37.037 0.00 0.00 0.00 3.06
761 1854 6.978659 ACATTTCACATGACTACTACATACGG 59.021 38.462 0.00 0.00 0.00 4.02
762 1855 6.762702 TTTCACATGACTACTACATACGGA 57.237 37.500 0.00 0.00 0.00 4.69
763 1856 6.954487 TTCACATGACTACTACATACGGAT 57.046 37.500 0.00 0.00 0.00 4.18
764 1857 6.313744 TCACATGACTACTACATACGGATG 57.686 41.667 5.94 5.94 39.16 3.51
766 1859 6.993902 TCACATGACTACTACATACGGATGTA 59.006 38.462 19.32 19.32 44.77 2.29
767 1860 7.664318 TCACATGACTACTACATACGGATGTAT 59.336 37.037 20.64 13.02 45.42 2.29
807 1900 7.516198 AGTGTAGATTCACTCATTTTGCTTT 57.484 32.000 0.00 0.00 44.07 3.51
808 1901 7.365741 AGTGTAGATTCACTCATTTTGCTTTG 58.634 34.615 0.00 0.00 44.07 2.77
809 1902 7.013655 AGTGTAGATTCACTCATTTTGCTTTGT 59.986 33.333 0.00 0.00 44.07 2.83
810 1903 8.289618 GTGTAGATTCACTCATTTTGCTTTGTA 58.710 33.333 0.00 0.00 35.68 2.41
811 1904 9.013229 TGTAGATTCACTCATTTTGCTTTGTAT 57.987 29.630 0.00 0.00 0.00 2.29
812 1905 9.282247 GTAGATTCACTCATTTTGCTTTGTATG 57.718 33.333 0.00 0.00 0.00 2.39
813 1906 7.889469 AGATTCACTCATTTTGCTTTGTATGT 58.111 30.769 0.00 0.00 0.00 2.29
814 1907 9.013229 AGATTCACTCATTTTGCTTTGTATGTA 57.987 29.630 0.00 0.00 0.00 2.29
815 1908 9.282247 GATTCACTCATTTTGCTTTGTATGTAG 57.718 33.333 0.00 0.00 0.00 2.74
816 1909 7.744087 TCACTCATTTTGCTTTGTATGTAGT 57.256 32.000 0.00 0.00 0.00 2.73
817 1910 7.806690 TCACTCATTTTGCTTTGTATGTAGTC 58.193 34.615 0.00 0.00 0.00 2.59
818 1911 7.443879 TCACTCATTTTGCTTTGTATGTAGTCA 59.556 33.333 0.00 0.00 0.00 3.41
819 1912 7.535258 CACTCATTTTGCTTTGTATGTAGTCAC 59.465 37.037 0.00 0.00 0.00 3.67
820 1913 7.445402 ACTCATTTTGCTTTGTATGTAGTCACT 59.555 33.333 0.00 0.00 0.00 3.41
821 1914 8.165239 TCATTTTGCTTTGTATGTAGTCACTT 57.835 30.769 0.00 0.00 0.00 3.16
822 1915 8.075574 TCATTTTGCTTTGTATGTAGTCACTTG 58.924 33.333 0.00 0.00 0.00 3.16
823 1916 6.935741 TTTGCTTTGTATGTAGTCACTTGT 57.064 33.333 0.00 0.00 0.00 3.16
824 1917 6.935741 TTGCTTTGTATGTAGTCACTTGTT 57.064 33.333 0.00 0.00 0.00 2.83
825 1918 6.299023 TGCTTTGTATGTAGTCACTTGTTG 57.701 37.500 0.00 0.00 0.00 3.33
826 1919 6.052360 TGCTTTGTATGTAGTCACTTGTTGA 58.948 36.000 0.00 0.00 0.00 3.18
827 1920 6.540551 TGCTTTGTATGTAGTCACTTGTTGAA 59.459 34.615 0.00 0.00 35.39 2.69
828 1921 7.066404 TGCTTTGTATGTAGTCACTTGTTGAAA 59.934 33.333 0.00 0.00 35.39 2.69
829 1922 8.076178 GCTTTGTATGTAGTCACTTGTTGAAAT 58.924 33.333 0.00 0.00 35.39 2.17
832 1925 8.542497 TGTATGTAGTCACTTGTTGAAATACC 57.458 34.615 0.00 0.00 35.39 2.73
833 1926 8.372459 TGTATGTAGTCACTTGTTGAAATACCT 58.628 33.333 0.00 0.00 35.39 3.08
834 1927 9.865321 GTATGTAGTCACTTGTTGAAATACCTA 57.135 33.333 0.00 0.00 35.39 3.08
836 1929 8.185506 TGTAGTCACTTGTTGAAATACCTAGA 57.814 34.615 0.00 0.00 35.39 2.43
837 1930 8.644216 TGTAGTCACTTGTTGAAATACCTAGAA 58.356 33.333 0.00 0.00 35.39 2.10
838 1931 9.485206 GTAGTCACTTGTTGAAATACCTAGAAA 57.515 33.333 0.00 0.00 35.39 2.52
839 1932 8.608844 AGTCACTTGTTGAAATACCTAGAAAG 57.391 34.615 0.00 0.00 35.39 2.62
840 1933 8.429641 AGTCACTTGTTGAAATACCTAGAAAGA 58.570 33.333 0.00 0.00 35.39 2.52
841 1934 8.496751 GTCACTTGTTGAAATACCTAGAAAGAC 58.503 37.037 0.00 0.00 35.39 3.01
842 1935 8.208224 TCACTTGTTGAAATACCTAGAAAGACA 58.792 33.333 0.00 0.00 0.00 3.41
843 1936 8.836413 CACTTGTTGAAATACCTAGAAAGACAA 58.164 33.333 0.00 0.00 0.00 3.18
844 1937 9.057089 ACTTGTTGAAATACCTAGAAAGACAAG 57.943 33.333 0.00 0.00 43.36 3.16
845 1938 8.974060 TTGTTGAAATACCTAGAAAGACAAGT 57.026 30.769 0.00 0.00 0.00 3.16
856 1949 8.041919 ACCTAGAAAGACAAGTATTTAGGAAGC 58.958 37.037 13.29 0.00 29.07 3.86
857 1950 6.969828 AGAAAGACAAGTATTTAGGAAGCG 57.030 37.500 0.00 0.00 0.00 4.68
858 1951 5.875359 AGAAAGACAAGTATTTAGGAAGCGG 59.125 40.000 0.00 0.00 0.00 5.52
859 1952 5.416271 AAGACAAGTATTTAGGAAGCGGA 57.584 39.130 0.00 0.00 0.00 5.54
860 1953 5.012328 AGACAAGTATTTAGGAAGCGGAG 57.988 43.478 0.00 0.00 0.00 4.63
861 1954 4.120589 GACAAGTATTTAGGAAGCGGAGG 58.879 47.826 0.00 0.00 0.00 4.30
862 1955 3.118371 ACAAGTATTTAGGAAGCGGAGGG 60.118 47.826 0.00 0.00 0.00 4.30
863 1956 3.042059 AGTATTTAGGAAGCGGAGGGA 57.958 47.619 0.00 0.00 0.00 4.20
864 1957 2.966516 AGTATTTAGGAAGCGGAGGGAG 59.033 50.000 0.00 0.00 0.00 4.30
865 1958 1.880941 ATTTAGGAAGCGGAGGGAGT 58.119 50.000 0.00 0.00 0.00 3.85
866 1959 2.537633 TTTAGGAAGCGGAGGGAGTA 57.462 50.000 0.00 0.00 0.00 2.59
877 1970 2.106857 CGGAGGGAGTAGTGGAGTATCT 59.893 54.545 0.00 0.00 33.73 1.98
878 1971 3.492337 GGAGGGAGTAGTGGAGTATCTG 58.508 54.545 0.00 0.00 33.73 2.90
879 1972 2.888414 GAGGGAGTAGTGGAGTATCTGC 59.112 54.545 0.00 0.00 33.73 4.26
951 2044 4.033009 GGAAATGGATTTGGGTCCTCATT 58.967 43.478 0.00 0.00 39.12 2.57
1792 2891 3.254892 GCCTACTTCAAGTCAGTGCTAC 58.745 50.000 0.00 0.00 0.00 3.58
1798 2899 2.160205 TCAAGTCAGTGCTACGCTAGT 58.840 47.619 0.00 0.00 0.00 2.57
1833 2934 1.008361 CCGCAAGCAAAATTCACCGG 61.008 55.000 0.00 0.00 0.00 5.28
2000 3118 0.683973 ACTGTGGAGTCCTTGAGCAG 59.316 55.000 11.33 12.38 0.00 4.24
2001 3119 0.683973 CTGTGGAGTCCTTGAGCAGT 59.316 55.000 11.33 0.00 0.00 4.40
2002 3120 1.895798 CTGTGGAGTCCTTGAGCAGTA 59.104 52.381 11.33 0.00 0.00 2.74
2022 3140 8.492782 AGCAGTAGTAGTAGTAGTGGAATAAGA 58.507 37.037 17.76 0.00 0.00 2.10
2056 3174 3.767673 ACTTGAGATTCATGCATGGCTTT 59.232 39.130 25.97 10.25 0.00 3.51
2062 3180 3.598019 TTCATGCATGGCTTTCTTTCC 57.402 42.857 25.97 0.00 0.00 3.13
2110 3229 5.587844 ACATTGCAACCAGTCTTAGATCATC 59.412 40.000 0.00 0.00 0.00 2.92
2132 3251 1.407656 AAGGCGTCCAAGGACAGTGA 61.408 55.000 18.57 0.00 44.77 3.41
2141 3260 3.068024 TCCAAGGACAGTGAATTTGTTGC 59.932 43.478 0.00 0.00 0.00 4.17
2142 3261 3.181477 CCAAGGACAGTGAATTTGTTGCA 60.181 43.478 0.00 0.00 0.00 4.08
2143 3262 4.431809 CAAGGACAGTGAATTTGTTGCAA 58.568 39.130 0.00 0.00 0.00 4.08
2144 3263 4.734398 AGGACAGTGAATTTGTTGCAAA 57.266 36.364 0.00 0.00 0.00 3.68
2152 3271 5.754890 AGTGAATTTGTTGCAAAATGGAGTC 59.245 36.000 0.00 0.00 30.21 3.36
2163 3282 4.207019 GCAAAATGGAGTCGAGTTTTGTTG 59.793 41.667 18.92 8.01 41.30 3.33
2166 3285 5.576447 AATGGAGTCGAGTTTTGTTGTTT 57.424 34.783 0.00 0.00 0.00 2.83
2167 3286 4.349663 TGGAGTCGAGTTTTGTTGTTTG 57.650 40.909 0.00 0.00 0.00 2.93
2168 3287 4.004314 TGGAGTCGAGTTTTGTTGTTTGA 58.996 39.130 0.00 0.00 0.00 2.69
2171 3290 5.859648 GGAGTCGAGTTTTGTTGTTTGAAAA 59.140 36.000 0.00 0.00 0.00 2.29
2173 3292 5.861787 AGTCGAGTTTTGTTGTTTGAAAAGG 59.138 36.000 0.00 0.00 0.00 3.11
2174 3293 5.859648 GTCGAGTTTTGTTGTTTGAAAAGGA 59.140 36.000 0.00 0.00 0.00 3.36
2205 3324 0.261991 TCCGGGCTTCTAGATCCACT 59.738 55.000 0.00 0.00 0.00 4.00
2212 3331 4.263243 GGGCTTCTAGATCCACTAATGCAT 60.263 45.833 12.10 0.00 0.00 3.96
2222 3341 7.400439 AGATCCACTAATGCATGCAACTATAT 58.600 34.615 26.68 12.23 0.00 0.86
2274 3719 2.363172 GGGGAGGAAGAAGCTCGCT 61.363 63.158 0.00 0.00 0.00 4.93
2279 3724 1.672356 GGAAGAAGCTCGCTGGCAA 60.672 57.895 0.00 0.00 34.17 4.52
2385 3830 1.369321 CGAGGCTAGAGGAATGGCC 59.631 63.158 0.00 0.00 46.63 5.36
2389 3834 1.453669 GCTAGAGGAATGGCCAGGG 59.546 63.158 13.05 0.00 40.02 4.45
2430 3875 3.412408 GGAGGTTGAGGGGAGGGC 61.412 72.222 0.00 0.00 0.00 5.19
2530 3975 3.055094 GCTGGAGGTAGATGAACAGGAAA 60.055 47.826 0.00 0.00 0.00 3.13
2556 4001 3.963428 TCAGAGGTGGAAGAAAGCTAC 57.037 47.619 0.00 0.00 0.00 3.58
2557 4002 2.567615 TCAGAGGTGGAAGAAAGCTACC 59.432 50.000 0.00 0.00 37.18 3.18
2568 4016 2.500098 AGAAAGCTACCCGTTGCATCTA 59.500 45.455 4.18 0.00 31.98 1.98
2641 4089 1.024536 TACCCCTAGCCTCTCCCTTT 58.975 55.000 0.00 0.00 0.00 3.11
2649 4097 3.147553 AGCCTCTCCCTTTTTCTCAAC 57.852 47.619 0.00 0.00 0.00 3.18
2753 4202 6.253013 GTTTGCTTTAGTGTTTGTAGTCGTT 58.747 36.000 0.00 0.00 0.00 3.85
2769 4218 0.179145 CGTTGCTAGGTGGTCTACGG 60.179 60.000 0.00 0.00 0.00 4.02
2783 4232 4.957954 TGGTCTACGGATGTAGGTGTAATT 59.042 41.667 2.88 0.00 46.65 1.40
2824 4273 6.374053 TGTTCGTGGTAATGTCATGATTGAAT 59.626 34.615 0.00 0.00 32.48 2.57
2826 4275 8.559536 GTTCGTGGTAATGTCATGATTGAATAT 58.440 33.333 0.00 0.00 32.48 1.28
2886 4335 4.332186 CATTGAGAATGTTCCAGTGACG 57.668 45.455 0.00 0.00 34.18 4.35
2895 4344 0.944311 TTCCAGTGACGCGAAAGAGC 60.944 55.000 15.93 0.00 0.00 4.09
2912 4361 6.346120 CGAAAGAGCATATTTGATACTGGTCG 60.346 42.308 0.00 0.00 40.19 4.79
2953 4402 1.839354 TCCACCAATGCTGCATCTCTA 59.161 47.619 16.55 0.00 0.00 2.43
2972 4421 8.523658 CATCTCTATGACGGGAAAGAACATATA 58.476 37.037 0.00 0.00 34.84 0.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
175 180 4.377897 ACGATCGAAGGAAAAACAACTCT 58.622 39.130 24.34 0.00 0.00 3.24
203 208 4.177026 ACTAGCACATTCGTGTTCTGATC 58.823 43.478 0.00 0.00 45.50 2.92
207 212 2.228103 TCGACTAGCACATTCGTGTTCT 59.772 45.455 0.00 0.00 45.50 3.01
214 219 2.120232 CCATCGTCGACTAGCACATTC 58.880 52.381 14.70 0.00 0.00 2.67
217 222 1.138883 GCCATCGTCGACTAGCACA 59.861 57.895 14.70 0.00 0.00 4.57
246 251 3.238108 ACATCTCTCGTGTCATTGTCC 57.762 47.619 0.00 0.00 0.00 4.02
252 257 2.135139 GTTGCAACATCTCTCGTGTCA 58.865 47.619 24.52 0.00 0.00 3.58
304 309 1.142262 TCACCATGGATGCATCTCTGG 59.858 52.381 30.28 30.28 35.70 3.86
332 337 1.168714 GGAGCACAACTGAATCCCAC 58.831 55.000 0.00 0.00 0.00 4.61
342 347 1.303317 ACCGGGATTGGAGCACAAC 60.303 57.895 6.32 0.00 42.94 3.32
344 349 2.350895 CACCGGGATTGGAGCACA 59.649 61.111 6.32 0.00 0.00 4.57
350 361 1.691337 TCCCTACCACCGGGATTGG 60.691 63.158 6.32 7.32 45.67 3.16
363 374 3.341629 ACGAGGTCCCCGTCCCTA 61.342 66.667 0.00 0.00 34.97 3.53
390 401 2.961768 GTTTGTGGACATGCCCGG 59.038 61.111 0.00 0.00 34.97 5.73
401 412 3.905678 TTTGCCCCGCCGTTTGTG 61.906 61.111 0.00 0.00 0.00 3.33
507 519 2.225963 GTCGTCTTCTTTCTCACTCCGA 59.774 50.000 0.00 0.00 0.00 4.55
509 521 3.644884 TGTCGTCTTCTTTCTCACTCC 57.355 47.619 0.00 0.00 0.00 3.85
517 529 3.194542 CCTCTCTCCATGTCGTCTTCTTT 59.805 47.826 0.00 0.00 0.00 2.52
533 545 3.969466 TCTGATCCTCATGTCCTCTCT 57.031 47.619 0.00 0.00 0.00 3.10
539 551 5.010922 AGCTGTTAGATCTGATCCTCATGTC 59.989 44.000 13.83 0.00 0.00 3.06
540 552 4.900652 AGCTGTTAGATCTGATCCTCATGT 59.099 41.667 13.83 0.00 0.00 3.21
541 553 5.471556 AGCTGTTAGATCTGATCCTCATG 57.528 43.478 13.83 4.07 0.00 3.07
542 554 5.480073 GGTAGCTGTTAGATCTGATCCTCAT 59.520 44.000 13.83 0.00 0.00 2.90
543 555 4.830046 GGTAGCTGTTAGATCTGATCCTCA 59.170 45.833 13.83 9.66 0.00 3.86
559 571 3.062763 CGATTTAGCCATCTGGTAGCTG 58.937 50.000 0.00 0.00 37.45 4.24
563 575 2.801699 CGTGCGATTTAGCCATCTGGTA 60.802 50.000 0.00 0.00 37.57 3.25
564 576 1.668419 GTGCGATTTAGCCATCTGGT 58.332 50.000 0.00 0.00 37.57 4.00
568 580 0.657840 AAGCGTGCGATTTAGCCATC 59.342 50.000 0.00 0.00 36.02 3.51
581 593 2.802667 CGATCGGCCTTCAAGCGTG 61.803 63.158 7.38 0.00 0.00 5.34
603 615 2.503809 CGCGTCGCCCCAAATTTG 60.504 61.111 12.44 11.40 0.00 2.32
631 643 1.839424 ATTGGTCTAAAGGGCAGTGC 58.161 50.000 6.55 6.55 0.00 4.40
657 669 9.998106 GGAACTTTAGATTATCTTAGCCATGTA 57.002 33.333 0.00 0.00 0.00 2.29
658 670 7.939588 GGGAACTTTAGATTATCTTAGCCATGT 59.060 37.037 0.00 0.00 0.00 3.21
690 1783 5.577100 ACGGAGGGAGTAGTATATGCATAA 58.423 41.667 11.13 0.00 0.00 1.90
694 1787 4.523558 AGAAACGGAGGGAGTAGTATATGC 59.476 45.833 0.00 0.00 0.00 3.14
699 1792 8.773033 AATATTTAGAAACGGAGGGAGTAGTA 57.227 34.615 0.00 0.00 0.00 1.82
704 1797 7.048512 AGACAAATATTTAGAAACGGAGGGAG 58.951 38.462 0.00 0.00 0.00 4.30
705 1798 6.954232 AGACAAATATTTAGAAACGGAGGGA 58.046 36.000 0.00 0.00 0.00 4.20
706 1799 7.625828 AAGACAAATATTTAGAAACGGAGGG 57.374 36.000 0.00 0.00 0.00 4.30
707 1800 8.947115 AGAAAGACAAATATTTAGAAACGGAGG 58.053 33.333 0.00 0.00 0.00 4.30
727 1820 8.807118 AGTAGTCATGTGAAATGTCTAGAAAGA 58.193 33.333 0.00 0.00 0.00 2.52
728 1821 8.994429 AGTAGTCATGTGAAATGTCTAGAAAG 57.006 34.615 0.00 0.00 0.00 2.62
729 1822 9.856488 GTAGTAGTCATGTGAAATGTCTAGAAA 57.144 33.333 0.00 0.00 0.00 2.52
730 1823 9.020731 TGTAGTAGTCATGTGAAATGTCTAGAA 57.979 33.333 0.00 0.00 0.00 2.10
731 1824 8.575649 TGTAGTAGTCATGTGAAATGTCTAGA 57.424 34.615 0.00 0.00 0.00 2.43
734 1827 7.915923 CGTATGTAGTAGTCATGTGAAATGTCT 59.084 37.037 0.00 0.00 0.00 3.41
735 1828 7.167635 CCGTATGTAGTAGTCATGTGAAATGTC 59.832 40.741 0.00 0.00 0.00 3.06
736 1829 6.978659 CCGTATGTAGTAGTCATGTGAAATGT 59.021 38.462 0.00 0.00 0.00 2.71
737 1830 7.200455 TCCGTATGTAGTAGTCATGTGAAATG 58.800 38.462 0.00 0.00 0.00 2.32
738 1831 7.342769 TCCGTATGTAGTAGTCATGTGAAAT 57.657 36.000 0.00 0.00 0.00 2.17
739 1832 6.762702 TCCGTATGTAGTAGTCATGTGAAA 57.237 37.500 0.00 0.00 0.00 2.69
740 1833 6.320418 ACATCCGTATGTAGTAGTCATGTGAA 59.680 38.462 0.00 0.00 44.66 3.18
741 1834 5.826208 ACATCCGTATGTAGTAGTCATGTGA 59.174 40.000 0.00 0.00 44.66 3.58
742 1835 6.073327 ACATCCGTATGTAGTAGTCATGTG 57.927 41.667 0.00 0.00 44.66 3.21
784 1877 7.141363 ACAAAGCAAAATGAGTGAATCTACAC 58.859 34.615 0.00 0.00 40.60 2.90
785 1878 7.275888 ACAAAGCAAAATGAGTGAATCTACA 57.724 32.000 0.00 0.00 0.00 2.74
786 1879 9.282247 CATACAAAGCAAAATGAGTGAATCTAC 57.718 33.333 0.00 0.00 0.00 2.59
787 1880 9.013229 ACATACAAAGCAAAATGAGTGAATCTA 57.987 29.630 0.00 0.00 0.00 1.98
788 1881 7.889469 ACATACAAAGCAAAATGAGTGAATCT 58.111 30.769 0.00 0.00 0.00 2.40
789 1882 9.282247 CTACATACAAAGCAAAATGAGTGAATC 57.718 33.333 0.00 0.00 0.00 2.52
790 1883 8.796475 ACTACATACAAAGCAAAATGAGTGAAT 58.204 29.630 0.00 0.00 0.00 2.57
791 1884 8.165239 ACTACATACAAAGCAAAATGAGTGAA 57.835 30.769 0.00 0.00 0.00 3.18
792 1885 7.443879 TGACTACATACAAAGCAAAATGAGTGA 59.556 33.333 0.00 0.00 0.00 3.41
793 1886 7.535258 GTGACTACATACAAAGCAAAATGAGTG 59.465 37.037 0.00 0.00 0.00 3.51
794 1887 7.445402 AGTGACTACATACAAAGCAAAATGAGT 59.555 33.333 0.00 0.00 0.00 3.41
795 1888 7.810658 AGTGACTACATACAAAGCAAAATGAG 58.189 34.615 0.00 0.00 0.00 2.90
796 1889 7.744087 AGTGACTACATACAAAGCAAAATGA 57.256 32.000 0.00 0.00 0.00 2.57
797 1890 7.862372 ACAAGTGACTACATACAAAGCAAAATG 59.138 33.333 0.00 0.00 0.00 2.32
798 1891 7.940850 ACAAGTGACTACATACAAAGCAAAAT 58.059 30.769 0.00 0.00 0.00 1.82
799 1892 7.328277 ACAAGTGACTACATACAAAGCAAAA 57.672 32.000 0.00 0.00 0.00 2.44
800 1893 6.935741 ACAAGTGACTACATACAAAGCAAA 57.064 33.333 0.00 0.00 0.00 3.68
801 1894 6.540551 TCAACAAGTGACTACATACAAAGCAA 59.459 34.615 0.00 0.00 0.00 3.91
802 1895 6.052360 TCAACAAGTGACTACATACAAAGCA 58.948 36.000 0.00 0.00 0.00 3.91
803 1896 6.539649 TCAACAAGTGACTACATACAAAGC 57.460 37.500 0.00 0.00 0.00 3.51
806 1899 8.995220 GGTATTTCAACAAGTGACTACATACAA 58.005 33.333 0.00 0.00 35.39 2.41
807 1900 8.372459 AGGTATTTCAACAAGTGACTACATACA 58.628 33.333 0.00 0.00 35.39 2.29
808 1901 8.773404 AGGTATTTCAACAAGTGACTACATAC 57.227 34.615 0.00 0.00 35.39 2.39
810 1903 8.812972 TCTAGGTATTTCAACAAGTGACTACAT 58.187 33.333 0.00 0.00 35.39 2.29
811 1904 8.185506 TCTAGGTATTTCAACAAGTGACTACA 57.814 34.615 0.00 0.00 35.39 2.74
812 1905 9.485206 TTTCTAGGTATTTCAACAAGTGACTAC 57.515 33.333 0.00 0.00 35.39 2.73
813 1906 9.706691 CTTTCTAGGTATTTCAACAAGTGACTA 57.293 33.333 0.00 0.00 35.39 2.59
814 1907 8.429641 TCTTTCTAGGTATTTCAACAAGTGACT 58.570 33.333 0.00 0.00 35.39 3.41
815 1908 8.496751 GTCTTTCTAGGTATTTCAACAAGTGAC 58.503 37.037 0.00 0.00 35.39 3.67
816 1909 8.208224 TGTCTTTCTAGGTATTTCAACAAGTGA 58.792 33.333 0.00 0.00 0.00 3.41
817 1910 8.378172 TGTCTTTCTAGGTATTTCAACAAGTG 57.622 34.615 0.00 0.00 0.00 3.16
818 1911 8.974060 TTGTCTTTCTAGGTATTTCAACAAGT 57.026 30.769 0.00 0.00 0.00 3.16
819 1912 9.057089 ACTTGTCTTTCTAGGTATTTCAACAAG 57.943 33.333 0.00 0.00 43.26 3.16
820 1913 8.974060 ACTTGTCTTTCTAGGTATTTCAACAA 57.026 30.769 0.00 0.00 0.00 2.83
830 1923 8.041919 GCTTCCTAAATACTTGTCTTTCTAGGT 58.958 37.037 0.00 0.00 0.00 3.08
831 1924 7.222999 CGCTTCCTAAATACTTGTCTTTCTAGG 59.777 40.741 0.00 0.00 0.00 3.02
832 1925 7.222999 CCGCTTCCTAAATACTTGTCTTTCTAG 59.777 40.741 0.00 0.00 0.00 2.43
833 1926 7.039882 CCGCTTCCTAAATACTTGTCTTTCTA 58.960 38.462 0.00 0.00 0.00 2.10
834 1927 5.875359 CCGCTTCCTAAATACTTGTCTTTCT 59.125 40.000 0.00 0.00 0.00 2.52
835 1928 5.873164 TCCGCTTCCTAAATACTTGTCTTTC 59.127 40.000 0.00 0.00 0.00 2.62
836 1929 5.801380 TCCGCTTCCTAAATACTTGTCTTT 58.199 37.500 0.00 0.00 0.00 2.52
837 1930 5.416271 TCCGCTTCCTAAATACTTGTCTT 57.584 39.130 0.00 0.00 0.00 3.01
838 1931 4.141914 CCTCCGCTTCCTAAATACTTGTCT 60.142 45.833 0.00 0.00 0.00 3.41
839 1932 4.120589 CCTCCGCTTCCTAAATACTTGTC 58.879 47.826 0.00 0.00 0.00 3.18
840 1933 3.118371 CCCTCCGCTTCCTAAATACTTGT 60.118 47.826 0.00 0.00 0.00 3.16
841 1934 3.134081 TCCCTCCGCTTCCTAAATACTTG 59.866 47.826 0.00 0.00 0.00 3.16
842 1935 3.381335 TCCCTCCGCTTCCTAAATACTT 58.619 45.455 0.00 0.00 0.00 2.24
843 1936 2.966516 CTCCCTCCGCTTCCTAAATACT 59.033 50.000 0.00 0.00 0.00 2.12
844 1937 2.699321 ACTCCCTCCGCTTCCTAAATAC 59.301 50.000 0.00 0.00 0.00 1.89
845 1938 3.042059 ACTCCCTCCGCTTCCTAAATA 57.958 47.619 0.00 0.00 0.00 1.40
846 1939 1.880941 ACTCCCTCCGCTTCCTAAAT 58.119 50.000 0.00 0.00 0.00 1.40
847 1940 2.292061 ACTACTCCCTCCGCTTCCTAAA 60.292 50.000 0.00 0.00 0.00 1.85
848 1941 1.287146 ACTACTCCCTCCGCTTCCTAA 59.713 52.381 0.00 0.00 0.00 2.69
849 1942 0.924823 ACTACTCCCTCCGCTTCCTA 59.075 55.000 0.00 0.00 0.00 2.94
850 1943 0.684805 CACTACTCCCTCCGCTTCCT 60.685 60.000 0.00 0.00 0.00 3.36
851 1944 1.677637 CCACTACTCCCTCCGCTTCC 61.678 65.000 0.00 0.00 0.00 3.46
852 1945 0.683504 TCCACTACTCCCTCCGCTTC 60.684 60.000 0.00 0.00 0.00 3.86
853 1946 0.684805 CTCCACTACTCCCTCCGCTT 60.685 60.000 0.00 0.00 0.00 4.68
854 1947 1.076632 CTCCACTACTCCCTCCGCT 60.077 63.158 0.00 0.00 0.00 5.52
855 1948 0.106819 TACTCCACTACTCCCTCCGC 60.107 60.000 0.00 0.00 0.00 5.54
856 1949 2.106857 AGATACTCCACTACTCCCTCCG 59.893 54.545 0.00 0.00 0.00 4.63
857 1950 3.492337 CAGATACTCCACTACTCCCTCC 58.508 54.545 0.00 0.00 0.00 4.30
858 1951 2.888414 GCAGATACTCCACTACTCCCTC 59.112 54.545 0.00 0.00 0.00 4.30
859 1952 2.245028 TGCAGATACTCCACTACTCCCT 59.755 50.000 0.00 0.00 0.00 4.20
860 1953 2.667470 TGCAGATACTCCACTACTCCC 58.333 52.381 0.00 0.00 0.00 4.30
861 1954 3.553922 GCATGCAGATACTCCACTACTCC 60.554 52.174 14.21 0.00 0.00 3.85
862 1955 3.553922 GGCATGCAGATACTCCACTACTC 60.554 52.174 21.36 0.00 0.00 2.59
863 1956 2.366916 GGCATGCAGATACTCCACTACT 59.633 50.000 21.36 0.00 0.00 2.57
864 1957 2.366916 AGGCATGCAGATACTCCACTAC 59.633 50.000 21.36 0.00 0.00 2.73
865 1958 2.366590 CAGGCATGCAGATACTCCACTA 59.633 50.000 21.36 0.00 0.00 2.74
866 1959 1.140452 CAGGCATGCAGATACTCCACT 59.860 52.381 21.36 0.00 0.00 4.00
877 1970 1.477700 GCTGAATAAACCAGGCATGCA 59.522 47.619 21.36 0.00 32.51 3.96
878 1971 2.214387 GCTGAATAAACCAGGCATGC 57.786 50.000 9.90 9.90 32.51 4.06
1207 2300 4.451150 GTCGATGCAGGGTGCCGA 62.451 66.667 0.00 0.00 44.23 5.54
1209 2302 4.451150 TCGTCGATGCAGGGTGCC 62.451 66.667 0.00 0.00 44.23 5.01
1210 2303 2.887568 CTCGTCGATGCAGGGTGC 60.888 66.667 0.00 0.00 45.29 5.01
1211 2304 2.887568 GCTCGTCGATGCAGGGTG 60.888 66.667 0.00 0.00 0.00 4.61
1212 2305 3.071206 AGCTCGTCGATGCAGGGT 61.071 61.111 15.71 0.00 0.00 4.34
1213 2306 2.584418 CAGCTCGTCGATGCAGGG 60.584 66.667 15.71 4.83 0.00 4.45
1792 2891 2.553079 AGAAAGAGCGAGAACTAGCG 57.447 50.000 0.00 0.00 36.30 4.26
1798 2899 1.291877 GCGGCAAGAAAGAGCGAGAA 61.292 55.000 0.00 0.00 0.00 2.87
1881 2996 0.591170 ACCCTGCAAAATCACGTTCG 59.409 50.000 0.00 0.00 0.00 3.95
1885 3000 1.080569 GCCACCCTGCAAAATCACG 60.081 57.895 0.00 0.00 0.00 4.35
2056 3174 6.136155 ACAGGAAAGAATGAAAAGGGAAAGA 58.864 36.000 0.00 0.00 0.00 2.52
2062 3180 4.083271 GGACGACAGGAAAGAATGAAAAGG 60.083 45.833 0.00 0.00 0.00 3.11
2110 3229 1.228124 TGTCCTTGGACGCCTTTGG 60.228 57.895 14.24 0.00 0.00 3.28
2132 3251 4.942852 TCGACTCCATTTTGCAACAAATT 58.057 34.783 0.00 0.00 0.00 1.82
2141 3260 5.339990 ACAACAAAACTCGACTCCATTTTG 58.660 37.500 6.72 6.72 44.11 2.44
2142 3261 5.576447 ACAACAAAACTCGACTCCATTTT 57.424 34.783 0.00 0.00 0.00 1.82
2143 3262 5.576447 AACAACAAAACTCGACTCCATTT 57.424 34.783 0.00 0.00 0.00 2.32
2144 3263 5.124776 TCAAACAACAAAACTCGACTCCATT 59.875 36.000 0.00 0.00 0.00 3.16
2152 3271 6.698359 TTCCTTTTCAAACAACAAAACTCG 57.302 33.333 0.00 0.00 0.00 4.18
2189 3308 3.071602 TGCATTAGTGGATCTAGAAGCCC 59.928 47.826 11.31 7.24 0.00 5.19
2274 3719 0.183492 GATGATGGGGTAGCTTGCCA 59.817 55.000 8.92 0.00 0.00 4.92
2279 3724 5.276440 CCTAAGATAGATGATGGGGTAGCT 58.724 45.833 0.00 0.00 0.00 3.32
2327 3772 3.276846 GCGAACTTGCACCACCGT 61.277 61.111 0.00 0.00 34.15 4.83
2332 3777 3.423154 CTCCGGCGAACTTGCACC 61.423 66.667 9.30 0.00 36.28 5.01
2364 3809 1.402896 CCATTCCTCTAGCCTCGGCA 61.403 60.000 11.02 0.00 44.88 5.69
2368 3813 0.396060 CTGGCCATTCCTCTAGCCTC 59.604 60.000 5.51 0.00 45.94 4.70
2430 3875 2.125912 CGTTGCCTCACCTCCTCG 60.126 66.667 0.00 0.00 0.00 4.63
2471 3916 4.941309 ACAACCACCGGCCGAACC 62.941 66.667 30.73 0.00 0.00 3.62
2472 3917 3.656045 CACAACCACCGGCCGAAC 61.656 66.667 30.73 0.00 0.00 3.95
2473 3918 4.939368 CCACAACCACCGGCCGAA 62.939 66.667 30.73 0.00 0.00 4.30
2475 3920 4.939368 TTCCACAACCACCGGCCG 62.939 66.667 21.04 21.04 0.00 6.13
2476 3921 2.969300 TTCTTCCACAACCACCGGCC 62.969 60.000 0.00 0.00 0.00 6.13
2477 3922 1.515521 CTTCTTCCACAACCACCGGC 61.516 60.000 0.00 0.00 0.00 6.13
2478 3923 0.107831 TCTTCTTCCACAACCACCGG 59.892 55.000 0.00 0.00 0.00 5.28
2530 3975 4.455606 CTTTCTTCCACCTCTGAACAGTT 58.544 43.478 1.73 0.00 0.00 3.16
2556 4001 0.104120 TCGGATGTAGATGCAACGGG 59.896 55.000 0.00 0.00 0.00 5.28
2557 4002 1.860950 CTTCGGATGTAGATGCAACGG 59.139 52.381 0.00 0.00 0.00 4.44
2568 4016 1.094785 CATTTTCGGCCTTCGGATGT 58.905 50.000 0.00 0.00 39.77 3.06
2641 4089 7.041440 TCGCTTGACTTCAATAATGTTGAGAAA 60.041 33.333 0.00 0.00 35.02 2.52
2649 4097 4.944962 TGGTCGCTTGACTTCAATAATG 57.055 40.909 0.00 0.00 42.47 1.90
2719 4168 8.596380 CAAACACTAAAGCAAACCGAATAAAAA 58.404 29.630 0.00 0.00 0.00 1.94
2720 4169 7.760340 ACAAACACTAAAGCAAACCGAATAAAA 59.240 29.630 0.00 0.00 0.00 1.52
2721 4170 7.259161 ACAAACACTAAAGCAAACCGAATAAA 58.741 30.769 0.00 0.00 0.00 1.40
2730 4179 6.252281 CAACGACTACAAACACTAAAGCAAA 58.748 36.000 0.00 0.00 0.00 3.68
2732 4181 4.260456 GCAACGACTACAAACACTAAAGCA 60.260 41.667 0.00 0.00 0.00 3.91
2734 4183 5.652744 AGCAACGACTACAAACACTAAAG 57.347 39.130 0.00 0.00 0.00 1.85
2753 4202 1.341679 ACATCCGTAGACCACCTAGCA 60.342 52.381 0.00 0.00 0.00 3.49
2875 4324 0.784778 CTCTTTCGCGTCACTGGAAC 59.215 55.000 5.77 0.00 0.00 3.62
2878 4327 1.016130 ATGCTCTTTCGCGTCACTGG 61.016 55.000 5.77 0.00 0.00 4.00
2880 4329 2.586258 ATATGCTCTTTCGCGTCACT 57.414 45.000 5.77 0.00 0.00 3.41
2886 4335 5.237344 ACCAGTATCAAATATGCTCTTTCGC 59.763 40.000 0.00 0.00 0.00 4.70
2895 4344 5.755375 AGTCAAGCGACCAGTATCAAATATG 59.245 40.000 0.00 0.00 43.73 1.78
2912 4361 8.078596 GGTGGATCATTATTATTGAAGTCAAGC 58.921 37.037 0.00 0.00 39.47 4.01


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

AutoCloner maintained by Alex Coulton.