Multiple sequence alignment - TraesCS7A01G265500

Loading Multiple Alignment...

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 TraesCS7A01G265500 chr7A 100.000 2603 0 0 1 2603 266588602 266591204 0.000000e+00 4807.0
1 TraesCS7A01G265500 chr7A 85.126 437 41 6 2077 2491 717331371 717331805 2.390000e-115 425.0
2 TraesCS7A01G265500 chr7A 88.306 248 29 0 1754 2001 556161085 556161332 5.450000e-77 298.0
3 TraesCS7A01G265500 chr7A 82.295 305 51 3 2082 2384 15711129 15710826 7.150000e-66 261.0
4 TraesCS7A01G265500 chr7A 94.872 39 2 0 2031 2069 609574459 609574421 7.780000e-06 62.1
5 TraesCS7A01G265500 chr7D 92.508 1655 84 17 117 1751 249078886 249080520 0.000000e+00 2333.0
6 TraesCS7A01G265500 chr7D 88.934 244 26 1 1759 2002 620719623 620719381 1.510000e-77 300.0
7 TraesCS7A01G265500 chr7D 87.259 259 31 2 1759 2017 369463528 369463272 7.040000e-76 294.0
8 TraesCS7A01G265500 chr7D 95.745 94 4 0 1 94 566244373 566244280 4.490000e-33 152.0
9 TraesCS7A01G265500 chr7D 94.737 38 1 1 2030 2067 26533855 26533819 1.010000e-04 58.4
10 TraesCS7A01G265500 chr7B 91.858 1658 99 19 86 1731 226178153 226179786 0.000000e+00 2281.0
11 TraesCS7A01G265500 chr7B 87.836 633 54 12 1979 2594 315079277 315078651 0.000000e+00 721.0
12 TraesCS7A01G265500 chr7B 80.952 315 52 7 2075 2385 504772723 504772413 2.590000e-60 243.0
13 TraesCS7A01G265500 chr5B 90.598 585 41 7 2029 2603 511012146 511012726 0.000000e+00 763.0
14 TraesCS7A01G265500 chr5B 89.601 577 35 8 2029 2603 440191871 440191318 0.000000e+00 710.0
15 TraesCS7A01G265500 chr5B 82.692 312 44 7 2082 2383 325960548 325960237 4.270000e-68 268.0
16 TraesCS7A01G265500 chr4A 87.789 606 48 14 2006 2594 422912774 422913370 0.000000e+00 686.0
17 TraesCS7A01G265500 chr4D 88.627 255 28 1 1746 2000 298844854 298844601 2.520000e-80 309.0
18 TraesCS7A01G265500 chr4D 88.235 255 28 2 1748 2001 24775862 24775609 1.170000e-78 303.0
19 TraesCS7A01G265500 chr4D 96.809 94 3 0 1 94 277385366 277385273 9.640000e-35 158.0
20 TraesCS7A01G265500 chr3A 89.344 244 26 0 1755 1998 107080594 107080837 9.050000e-80 307.0
21 TraesCS7A01G265500 chr3A 98.925 93 1 0 1 93 727293873 727293781 1.600000e-37 167.0
22 TraesCS7A01G265500 chr1A 88.327 257 29 1 1761 2017 29811711 29811966 9.050000e-80 307.0
23 TraesCS7A01G265500 chr1A 97.872 94 2 0 1 94 540299378 540299285 2.070000e-36 163.0
24 TraesCS7A01G265500 chr1D 88.492 252 29 0 1750 2001 448103128 448103379 3.250000e-79 305.0
25 TraesCS7A01G265500 chr2A 88.980 245 27 0 1757 2001 497997671 497997427 1.170000e-78 303.0
26 TraesCS7A01G265500 chr6A 82.581 310 44 8 2084 2385 2958343 2958650 5.520000e-67 265.0
27 TraesCS7A01G265500 chr3D 98.925 93 1 0 1 93 217581519 217581427 1.600000e-37 167.0
28 TraesCS7A01G265500 chr5A 95.833 96 4 0 1 96 463997338 463997243 3.470000e-34 156.0
29 TraesCS7A01G265500 chr5A 89.091 55 6 0 2029 2083 536216633 536216579 4.650000e-08 69.4
30 TraesCS7A01G265500 chr3B 96.774 93 3 0 1 93 325856177 325856269 3.470000e-34 156.0
31 TraesCS7A01G265500 chr4B 95.745 94 4 0 1 94 242711520 242711427 4.490000e-33 152.0
32 TraesCS7A01G265500 chr2B 95.745 94 4 0 1 94 749657698 749657791 4.490000e-33 152.0


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 TraesCS7A01G265500 chr7A 266588602 266591204 2602 False 4807 4807 100.000 1 2603 1 chr7A.!!$F1 2602
1 TraesCS7A01G265500 chr7D 249078886 249080520 1634 False 2333 2333 92.508 117 1751 1 chr7D.!!$F1 1634
2 TraesCS7A01G265500 chr7B 226178153 226179786 1633 False 2281 2281 91.858 86 1731 1 chr7B.!!$F1 1645
3 TraesCS7A01G265500 chr7B 315078651 315079277 626 True 721 721 87.836 1979 2594 1 chr7B.!!$R1 615
4 TraesCS7A01G265500 chr5B 511012146 511012726 580 False 763 763 90.598 2029 2603 1 chr5B.!!$F1 574
5 TraesCS7A01G265500 chr5B 440191318 440191871 553 True 710 710 89.601 2029 2603 1 chr5B.!!$R2 574
6 TraesCS7A01G265500 chr4A 422912774 422913370 596 False 686 686 87.789 2006 2594 1 chr4A.!!$F1 588

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
80 81 0.107214 GCCCATGTAGCCTTGCTGTA 60.107 55.0 0.0 0.0 40.1 2.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1887 1914 0.091344 CGAGCGCTCAACACGTTTAG 59.909 55.0 34.69 12.34 0.0 1.85 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
32 33 6.831727 CTCATGAGCTGACTTTCATAGAAG 57.168 41.667 10.38 0.00 32.96 2.85
33 34 6.535963 TCATGAGCTGACTTTCATAGAAGA 57.464 37.500 0.00 0.00 32.96 2.87
34 35 6.939622 TCATGAGCTGACTTTCATAGAAGAA 58.060 36.000 0.00 0.00 32.96 2.52
35 36 7.389232 TCATGAGCTGACTTTCATAGAAGAAA 58.611 34.615 0.00 0.00 36.21 2.52
36 37 7.879677 TCATGAGCTGACTTTCATAGAAGAAAA 59.120 33.333 0.00 0.00 37.09 2.29
37 38 8.675504 CATGAGCTGACTTTCATAGAAGAAAAT 58.324 33.333 0.00 0.00 37.09 1.82
38 39 8.037382 TGAGCTGACTTTCATAGAAGAAAATG 57.963 34.615 0.00 0.00 37.09 2.32
39 40 6.850555 AGCTGACTTTCATAGAAGAAAATGC 58.149 36.000 0.00 0.00 37.09 3.56
40 41 6.658391 AGCTGACTTTCATAGAAGAAAATGCT 59.342 34.615 0.00 0.00 37.09 3.79
41 42 7.826252 AGCTGACTTTCATAGAAGAAAATGCTA 59.174 33.333 0.00 0.00 37.09 3.49
42 43 7.907563 GCTGACTTTCATAGAAGAAAATGCTAC 59.092 37.037 0.00 0.00 37.09 3.58
43 44 8.846943 TGACTTTCATAGAAGAAAATGCTACA 57.153 30.769 0.00 0.00 37.09 2.74
44 45 9.283768 TGACTTTCATAGAAGAAAATGCTACAA 57.716 29.630 0.00 0.00 37.09 2.41
47 48 8.970691 TTTCATAGAAGAAAATGCTACAAAGC 57.029 30.769 0.00 0.00 40.53 3.51
48 49 8.796475 TTTCATAGAAGAAAATGCTACAAAGCT 58.204 29.630 0.00 0.00 40.64 3.74
55 56 3.134127 GCTACAAAGCTGGGCGGG 61.134 66.667 0.00 0.00 45.85 6.13
56 57 3.134127 CTACAAAGCTGGGCGGGC 61.134 66.667 0.00 0.00 0.00 6.13
57 58 4.733542 TACAAAGCTGGGCGGGCC 62.734 66.667 14.65 14.65 0.00 5.80
78 79 3.518003 GCCCATGTAGCCTTGCTG 58.482 61.111 0.00 0.00 40.10 4.41
79 80 1.379044 GCCCATGTAGCCTTGCTGT 60.379 57.895 0.00 0.00 40.10 4.40
80 81 0.107214 GCCCATGTAGCCTTGCTGTA 60.107 55.000 0.00 0.00 40.10 2.74
81 82 1.959042 CCCATGTAGCCTTGCTGTAG 58.041 55.000 0.00 0.00 40.10 2.74
82 83 1.303309 CCATGTAGCCTTGCTGTAGC 58.697 55.000 0.00 0.00 40.10 3.58
83 84 1.134280 CCATGTAGCCTTGCTGTAGCT 60.134 52.381 5.38 0.00 40.10 3.32
84 85 2.208431 CATGTAGCCTTGCTGTAGCTC 58.792 52.381 5.38 0.00 40.10 4.09
85 86 0.537188 TGTAGCCTTGCTGTAGCTCC 59.463 55.000 5.38 0.00 40.10 4.70
86 87 0.528684 GTAGCCTTGCTGTAGCTCCG 60.529 60.000 5.38 0.00 40.10 4.63
87 88 2.298158 TAGCCTTGCTGTAGCTCCGC 62.298 60.000 5.38 3.86 40.10 5.54
88 89 2.512515 CCTTGCTGTAGCTCCGCC 60.513 66.667 5.38 0.00 42.66 6.13
89 90 2.265739 CTTGCTGTAGCTCCGCCA 59.734 61.111 5.38 0.00 42.66 5.69
90 91 2.047274 TTGCTGTAGCTCCGCCAC 60.047 61.111 5.38 0.00 42.66 5.01
91 92 2.513026 CTTGCTGTAGCTCCGCCACT 62.513 60.000 5.38 0.00 42.66 4.00
92 93 2.510238 GCTGTAGCTCCGCCACTG 60.510 66.667 0.00 0.00 38.21 3.66
105 106 1.626356 GCCACTGCTGGGGACTATGA 61.626 60.000 17.34 0.00 38.13 2.15
113 114 1.137086 CTGGGGACTATGAAGACACCG 59.863 57.143 0.00 0.00 43.14 4.94
114 115 0.464452 GGGGACTATGAAGACACCGG 59.536 60.000 0.00 0.00 31.20 5.28
118 119 2.232941 GGACTATGAAGACACCGGAACA 59.767 50.000 9.46 0.00 0.00 3.18
136 138 3.899052 ACAGATGCATTTTTGATGGGG 57.101 42.857 0.00 0.00 0.00 4.96
180 183 4.951254 TCGTGTGTCCATAAAAGAAGACA 58.049 39.130 0.00 0.00 36.92 3.41
191 194 1.561643 AAGAAGACATCCGCCTCTGA 58.438 50.000 0.00 0.00 0.00 3.27
243 252 9.449719 CACTATGTTACCCAAGAGATAGTTTTT 57.550 33.333 0.00 0.00 0.00 1.94
285 294 0.111253 CAACCCTTGTCCCTCAGCTT 59.889 55.000 0.00 0.00 0.00 3.74
316 325 1.227639 GCTCATGCCAGCTCATGTAG 58.772 55.000 13.44 10.87 43.18 2.74
375 384 8.823794 TCTTCTCTCCTATCAATGCAATGATAT 58.176 33.333 21.75 4.19 40.51 1.63
376 385 9.451002 CTTCTCTCCTATCAATGCAATGATATT 57.549 33.333 21.75 3.49 40.51 1.28
493 502 5.351465 CGGATTTCGTTATAATGGATGGAGG 59.649 44.000 4.86 0.00 0.00 4.30
597 606 9.080097 GTAGTTTGTATATAGAGTGGACATCCT 57.920 37.037 0.00 0.00 36.82 3.24
679 688 2.664402 AGAGTTTGATTGGGCAGTGT 57.336 45.000 0.00 0.00 0.00 3.55
685 694 0.615331 TGATTGGGCAGTGTCTCTCC 59.385 55.000 0.00 0.00 0.00 3.71
687 696 0.908198 ATTGGGCAGTGTCTCTCCTC 59.092 55.000 0.00 0.00 0.00 3.71
688 697 0.471780 TTGGGCAGTGTCTCTCCTCA 60.472 55.000 0.00 0.00 0.00 3.86
689 698 0.471780 TGGGCAGTGTCTCTCCTCAA 60.472 55.000 0.00 0.00 0.00 3.02
690 699 0.687354 GGGCAGTGTCTCTCCTCAAA 59.313 55.000 0.00 0.00 0.00 2.69
691 700 1.072331 GGGCAGTGTCTCTCCTCAAAA 59.928 52.381 0.00 0.00 0.00 2.44
692 701 2.487265 GGGCAGTGTCTCTCCTCAAAAA 60.487 50.000 0.00 0.00 0.00 1.94
693 702 2.810852 GGCAGTGTCTCTCCTCAAAAAG 59.189 50.000 0.00 0.00 0.00 2.27
694 703 3.495100 GGCAGTGTCTCTCCTCAAAAAGA 60.495 47.826 0.00 0.00 0.00 2.52
891 900 3.869014 CGCACTCGTTAATTGCAATTG 57.131 42.857 30.43 17.61 35.93 2.32
893 902 4.097714 CGCACTCGTTAATTGCAATTGAT 58.902 39.130 30.43 10.87 35.93 2.57
925 934 4.557496 GCACCAATTTGTTCTCTCTTGTCC 60.557 45.833 0.00 0.00 0.00 4.02
952 961 2.924290 CCTGCACTCGCTAAAGAACTAC 59.076 50.000 0.00 0.00 39.64 2.73
991 1001 7.771183 CCAAGAAGGAGTTCGAAAGAAGCTAC 61.771 46.154 0.00 0.00 46.51 3.58
995 1005 3.826637 TTCGAAAGAAGCTACCCGG 57.173 52.632 0.00 0.00 46.92 5.73
1007 1017 1.209747 GCTACCCGGAAAGATGAAGGT 59.790 52.381 0.73 0.00 0.00 3.50
1011 1021 2.107552 ACCCGGAAAGATGAAGGTCAAA 59.892 45.455 0.73 0.00 0.00 2.69
1026 1036 3.882888 AGGTCAAAACGAAGATCAGCAAA 59.117 39.130 0.00 0.00 0.00 3.68
1111 1121 1.751162 CTCCTCTTCCTCGCCTCGT 60.751 63.158 0.00 0.00 0.00 4.18
1328 1338 1.985447 GACGACGATGACGGCCACTA 61.985 60.000 2.24 0.00 45.81 2.74
1366 1376 0.594028 GCACTCACTGTTCGACGACA 60.594 55.000 0.00 0.00 0.00 4.35
1382 1392 0.710567 GACAACGATGACGACTGCAG 59.289 55.000 13.48 13.48 42.66 4.41
1404 1414 2.105128 CAGGAGGGCGACGATGTC 59.895 66.667 0.00 0.00 0.00 3.06
1514 1524 2.902457 GCAGGGAAGGGGACGGAAA 61.902 63.158 0.00 0.00 0.00 3.13
1528 1538 3.399330 GACGGAAAGGAGTTCAACATCA 58.601 45.455 0.00 0.00 38.06 3.07
1586 1596 2.435938 GGTCCGCAGCCGAATGAA 60.436 61.111 0.00 0.00 36.29 2.57
1603 1613 1.337823 TGAACAACCGGAGCTTCTAGC 60.338 52.381 9.46 0.00 42.84 3.42
1609 1619 2.415608 CGGAGCTTCTAGCCGTCCA 61.416 63.158 2.73 0.00 43.77 4.02
1622 1633 1.079127 CGTCCAGGCCTTCGATTGT 60.079 57.895 0.00 0.00 0.00 2.71
1669 1696 4.159321 TCAGTGAGCTTCCAGATGTCTTAG 59.841 45.833 0.00 0.00 0.00 2.18
1677 1704 8.256356 AGCTTCCAGATGTCTTAGTACATAAT 57.744 34.615 0.00 0.00 40.17 1.28
1717 1744 4.233632 TGACAGATGCATGTTATTCCCA 57.766 40.909 2.46 0.00 32.25 4.37
1731 1758 5.777732 TGTTATTCCCAGTTAAAAGCCACAT 59.222 36.000 0.00 0.00 0.00 3.21
1734 1761 9.127277 GTTATTCCCAGTTAAAAGCCACATATA 57.873 33.333 0.00 0.00 0.00 0.86
1778 1805 5.945466 TCACTAGTCAATGTGTACGTACA 57.055 39.130 24.10 24.10 35.82 2.90
1779 1806 6.316440 TCACTAGTCAATGTGTACGTACAA 57.684 37.500 28.89 18.89 38.04 2.41
1780 1807 6.916440 TCACTAGTCAATGTGTACGTACAAT 58.084 36.000 28.89 20.11 38.04 2.71
1781 1808 6.804783 TCACTAGTCAATGTGTACGTACAATG 59.195 38.462 28.89 24.77 38.04 2.82
1782 1809 4.921470 AGTCAATGTGTACGTACAATGC 57.079 40.909 28.89 17.46 38.04 3.56
1783 1810 4.311606 AGTCAATGTGTACGTACAATGCA 58.688 39.130 28.89 22.20 38.04 3.96
1784 1811 4.151689 AGTCAATGTGTACGTACAATGCAC 59.848 41.667 28.89 22.18 38.04 4.57
1785 1812 3.122111 TCAATGTGTACGTACAATGCACG 59.878 43.478 28.89 16.70 44.80 5.34
1797 1824 7.187886 CGTACAATGCACGTTAATTTAAAGG 57.812 36.000 0.00 0.00 34.74 3.11
1798 1825 6.797995 CGTACAATGCACGTTAATTTAAAGGT 59.202 34.615 0.00 0.00 34.74 3.50
1799 1826 7.956403 CGTACAATGCACGTTAATTTAAAGGTA 59.044 33.333 0.00 0.00 34.74 3.08
1800 1827 9.777575 GTACAATGCACGTTAATTTAAAGGTAT 57.222 29.630 6.96 0.08 0.00 2.73
1857 1884 9.658475 TTATTTGCGTGTTATTATGTGATTAGC 57.342 29.630 0.00 0.00 0.00 3.09
1858 1885 6.670077 TTGCGTGTTATTATGTGATTAGCA 57.330 33.333 0.00 0.00 0.00 3.49
1887 1914 4.857871 TGATATGAAACTAACTGCACGC 57.142 40.909 0.00 0.00 0.00 5.34
1888 1915 4.503910 TGATATGAAACTAACTGCACGCT 58.496 39.130 0.00 0.00 0.00 5.07
1889 1916 5.656480 TGATATGAAACTAACTGCACGCTA 58.344 37.500 0.00 0.00 0.00 4.26
1890 1917 6.103330 TGATATGAAACTAACTGCACGCTAA 58.897 36.000 0.00 0.00 0.00 3.09
1891 1918 6.592220 TGATATGAAACTAACTGCACGCTAAA 59.408 34.615 0.00 0.00 0.00 1.85
1892 1919 4.461992 TGAAACTAACTGCACGCTAAAC 57.538 40.909 0.00 0.00 0.00 2.01
1903 1930 4.417240 GCTAAACGTGTTGAGCGC 57.583 55.556 6.34 0.00 37.32 5.92
1904 1931 1.860078 GCTAAACGTGTTGAGCGCT 59.140 52.632 11.27 11.27 37.32 5.92
1905 1932 0.179248 GCTAAACGTGTTGAGCGCTC 60.179 55.000 30.42 30.42 37.32 5.03
1906 1933 0.091344 CTAAACGTGTTGAGCGCTCG 59.909 55.000 30.75 21.89 0.00 5.03
1907 1934 0.318022 TAAACGTGTTGAGCGCTCGA 60.318 50.000 30.75 27.40 0.00 4.04
1908 1935 0.944311 AAACGTGTTGAGCGCTCGAT 60.944 50.000 29.35 11.63 0.00 3.59
1909 1936 0.109458 AACGTGTTGAGCGCTCGATA 60.109 50.000 29.35 24.23 0.00 2.92
1910 1937 0.100682 ACGTGTTGAGCGCTCGATAT 59.899 50.000 29.35 10.96 0.00 1.63
1911 1938 1.200483 CGTGTTGAGCGCTCGATATT 58.800 50.000 29.35 0.00 0.00 1.28
1912 1939 1.071894 CGTGTTGAGCGCTCGATATTG 60.072 52.381 29.35 18.76 0.00 1.90
1913 1940 2.193447 GTGTTGAGCGCTCGATATTGA 58.807 47.619 29.35 9.02 0.00 2.57
1914 1941 2.603110 GTGTTGAGCGCTCGATATTGAA 59.397 45.455 29.35 14.80 0.00 2.69
1915 1942 2.860136 TGTTGAGCGCTCGATATTGAAG 59.140 45.455 29.35 0.00 0.00 3.02
1916 1943 1.491670 TGAGCGCTCGATATTGAAGC 58.508 50.000 30.75 5.13 0.00 3.86
1917 1944 1.202405 TGAGCGCTCGATATTGAAGCA 60.202 47.619 30.75 7.93 0.00 3.91
1918 1945 1.455030 GAGCGCTCGATATTGAAGCAG 59.545 52.381 23.61 10.14 0.00 4.24
1919 1946 1.202463 AGCGCTCGATATTGAAGCAGT 60.202 47.619 2.64 1.36 0.00 4.40
1920 1947 1.191204 GCGCTCGATATTGAAGCAGTC 59.809 52.381 0.00 0.00 0.00 3.51
1921 1948 2.736978 CGCTCGATATTGAAGCAGTCT 58.263 47.619 12.20 0.00 0.00 3.24
1922 1949 3.853676 GCGCTCGATATTGAAGCAGTCTA 60.854 47.826 0.00 0.00 0.00 2.59
1923 1950 3.911365 CGCTCGATATTGAAGCAGTCTAG 59.089 47.826 12.20 0.00 0.00 2.43
1924 1951 4.233789 GCTCGATATTGAAGCAGTCTAGG 58.766 47.826 8.64 0.00 0.00 3.02
1925 1952 4.261825 GCTCGATATTGAAGCAGTCTAGGT 60.262 45.833 8.64 0.00 0.00 3.08
1926 1953 5.440234 TCGATATTGAAGCAGTCTAGGTC 57.560 43.478 0.00 0.00 0.00 3.85
1927 1954 4.023963 TCGATATTGAAGCAGTCTAGGTCG 60.024 45.833 0.00 0.00 0.00 4.79
1928 1955 4.261238 CGATATTGAAGCAGTCTAGGTCGT 60.261 45.833 0.00 0.00 0.00 4.34
1929 1956 3.963428 ATTGAAGCAGTCTAGGTCGTT 57.037 42.857 0.00 0.00 0.00 3.85
1930 1957 2.724977 TGAAGCAGTCTAGGTCGTTG 57.275 50.000 0.00 0.00 0.00 4.10
1931 1958 2.235891 TGAAGCAGTCTAGGTCGTTGA 58.764 47.619 0.00 0.00 0.00 3.18
1932 1959 2.626266 TGAAGCAGTCTAGGTCGTTGAA 59.374 45.455 0.00 0.00 0.00 2.69
1933 1960 3.258372 TGAAGCAGTCTAGGTCGTTGAAT 59.742 43.478 0.00 0.00 0.00 2.57
1934 1961 3.963428 AGCAGTCTAGGTCGTTGAATT 57.037 42.857 0.00 0.00 0.00 2.17
1935 1962 5.047590 TGAAGCAGTCTAGGTCGTTGAATTA 60.048 40.000 0.00 0.00 0.00 1.40
1936 1963 5.401531 AGCAGTCTAGGTCGTTGAATTAA 57.598 39.130 0.00 0.00 0.00 1.40
1937 1964 5.169295 AGCAGTCTAGGTCGTTGAATTAAC 58.831 41.667 0.00 0.00 35.90 2.01
1938 1965 4.927425 GCAGTCTAGGTCGTTGAATTAACA 59.073 41.667 0.00 0.00 39.30 2.41
1939 1966 5.581085 GCAGTCTAGGTCGTTGAATTAACAT 59.419 40.000 0.00 0.00 39.30 2.71
1940 1967 6.755141 GCAGTCTAGGTCGTTGAATTAACATA 59.245 38.462 0.00 0.00 39.30 2.29
1941 1968 7.277098 GCAGTCTAGGTCGTTGAATTAACATAA 59.723 37.037 0.00 0.00 39.30 1.90
1942 1969 9.314321 CAGTCTAGGTCGTTGAATTAACATAAT 57.686 33.333 0.00 0.00 39.30 1.28
1943 1970 9.886132 AGTCTAGGTCGTTGAATTAACATAATT 57.114 29.630 0.00 0.00 39.30 1.40
1948 1975 9.787532 AGGTCGTTGAATTAACATAATTTGATG 57.212 29.630 0.00 0.00 39.30 3.07
1949 1976 9.019764 GGTCGTTGAATTAACATAATTTGATGG 57.980 33.333 0.00 0.00 39.30 3.51
1950 1977 8.531530 GTCGTTGAATTAACATAATTTGATGGC 58.468 33.333 0.00 0.00 39.30 4.40
1951 1978 8.465999 TCGTTGAATTAACATAATTTGATGGCT 58.534 29.630 0.00 0.00 39.30 4.75
1952 1979 8.533965 CGTTGAATTAACATAATTTGATGGCTG 58.466 33.333 0.00 0.00 39.30 4.85
1953 1980 9.585099 GTTGAATTAACATAATTTGATGGCTGA 57.415 29.630 0.00 0.00 39.16 4.26
1969 1996 8.876275 TGATGGCTGAAATTAATTAAATCTGC 57.124 30.769 23.45 23.45 33.49 4.26
1970 1997 7.927629 TGATGGCTGAAATTAATTAAATCTGCC 59.072 33.333 31.91 31.91 43.00 4.85
1971 1998 7.422465 TGGCTGAAATTAATTAAATCTGCCT 57.578 32.000 34.34 11.03 43.05 4.75
1972 1999 7.491682 TGGCTGAAATTAATTAAATCTGCCTC 58.508 34.615 34.34 23.37 43.05 4.70
1973 2000 7.342799 TGGCTGAAATTAATTAAATCTGCCTCT 59.657 33.333 34.34 9.98 43.05 3.69
1974 2001 7.650903 GGCTGAAATTAATTAAATCTGCCTCTG 59.349 37.037 31.63 15.11 41.48 3.35
1975 2002 8.193438 GCTGAAATTAATTAAATCTGCCTCTGT 58.807 33.333 22.23 0.00 30.85 3.41
1976 2003 9.512435 CTGAAATTAATTAAATCTGCCTCTGTG 57.488 33.333 1.21 0.00 0.00 3.66
1977 2004 9.241919 TGAAATTAATTAAATCTGCCTCTGTGA 57.758 29.630 1.21 0.00 0.00 3.58
2048 2086 0.251165 ACTAGCAAAATGGCCCGTGT 60.251 50.000 0.00 0.00 0.00 4.49
2059 2097 2.897846 CCCGTGTGTTGCAACGGA 60.898 61.111 25.44 12.15 41.17 4.69
2232 2272 5.192927 TGGGCAAACATTTCTAGATTCGAT 58.807 37.500 0.00 0.00 0.00 3.59
2497 2549 7.754851 TTTTCCCACTTTTATGTTAGAGTCC 57.245 36.000 0.00 0.00 0.00 3.85
2502 2554 6.595716 CCCACTTTTATGTTAGAGTCCTTCTG 59.404 42.308 0.00 0.00 36.61 3.02
2515 2581 7.264294 AGAGTCCTTCTGGTAAAATCTGATT 57.736 36.000 0.00 0.00 33.93 2.57
2519 2585 8.383175 AGTCCTTCTGGTAAAATCTGATTGTTA 58.617 33.333 3.22 2.97 34.23 2.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 7.606858 TTTCTTCTATGAAAGTCAGCTCATG 57.393 36.000 0.00 0.00 34.21 3.07
12 13 8.675504 CATTTTCTTCTATGAAAGTCAGCTCAT 58.324 33.333 0.00 0.00 37.27 2.90
13 14 7.361542 GCATTTTCTTCTATGAAAGTCAGCTCA 60.362 37.037 0.00 0.00 37.27 4.26
14 15 6.966066 GCATTTTCTTCTATGAAAGTCAGCTC 59.034 38.462 0.00 0.00 37.27 4.09
16 17 6.850555 AGCATTTTCTTCTATGAAAGTCAGC 58.149 36.000 0.00 0.00 37.27 4.26
17 18 8.939929 TGTAGCATTTTCTTCTATGAAAGTCAG 58.060 33.333 0.00 0.00 37.27 3.51
21 22 9.070149 GCTTTGTAGCATTTTCTTCTATGAAAG 57.930 33.333 0.00 0.00 46.95 2.62
22 23 8.970691 GCTTTGTAGCATTTTCTTCTATGAAA 57.029 30.769 0.00 0.00 46.95 2.69
39 40 3.134127 GCCCGCCCAGCTTTGTAG 61.134 66.667 0.00 0.00 0.00 2.74
40 41 4.733542 GGCCCGCCCAGCTTTGTA 62.734 66.667 0.00 0.00 0.00 2.41
61 62 0.107214 TACAGCAAGGCTACATGGGC 60.107 55.000 0.00 0.50 36.40 5.36
62 63 1.959042 CTACAGCAAGGCTACATGGG 58.041 55.000 0.00 0.00 36.40 4.00
63 64 1.134280 AGCTACAGCAAGGCTACATGG 60.134 52.381 3.70 0.00 45.16 3.66
64 65 2.208431 GAGCTACAGCAAGGCTACATG 58.792 52.381 3.70 0.00 45.16 3.21
65 66 1.139853 GGAGCTACAGCAAGGCTACAT 59.860 52.381 3.70 0.00 45.16 2.29
66 67 0.537188 GGAGCTACAGCAAGGCTACA 59.463 55.000 3.70 0.00 45.16 2.74
67 68 0.528684 CGGAGCTACAGCAAGGCTAC 60.529 60.000 3.70 0.00 45.16 3.58
68 69 1.816537 CGGAGCTACAGCAAGGCTA 59.183 57.895 3.70 0.00 45.16 3.93
69 70 2.581354 CGGAGCTACAGCAAGGCT 59.419 61.111 3.70 0.00 45.16 4.58
86 87 1.153086 CATAGTCCCCAGCAGTGGC 60.153 63.158 0.00 0.00 43.44 5.01
87 88 0.911769 TTCATAGTCCCCAGCAGTGG 59.088 55.000 0.00 0.00 44.56 4.00
88 89 1.833630 TCTTCATAGTCCCCAGCAGTG 59.166 52.381 0.00 0.00 0.00 3.66
89 90 1.834263 GTCTTCATAGTCCCCAGCAGT 59.166 52.381 0.00 0.00 0.00 4.40
90 91 1.833630 TGTCTTCATAGTCCCCAGCAG 59.166 52.381 0.00 0.00 0.00 4.24
91 92 1.555075 GTGTCTTCATAGTCCCCAGCA 59.445 52.381 0.00 0.00 0.00 4.41
92 93 1.134371 GGTGTCTTCATAGTCCCCAGC 60.134 57.143 0.00 0.00 0.00 4.85
98 99 3.192844 TCTGTTCCGGTGTCTTCATAGTC 59.807 47.826 0.00 0.00 0.00 2.59
105 106 0.396435 TGCATCTGTTCCGGTGTCTT 59.604 50.000 0.00 0.00 0.00 3.01
113 114 4.186159 CCCATCAAAAATGCATCTGTTCC 58.814 43.478 0.00 0.00 0.00 3.62
114 115 4.081531 TCCCCATCAAAAATGCATCTGTTC 60.082 41.667 0.00 0.00 0.00 3.18
118 119 3.119029 CGTTCCCCATCAAAAATGCATCT 60.119 43.478 0.00 0.00 0.00 2.90
209 218 2.578480 TGGGTAACATAGTGGCCAATCA 59.422 45.455 10.05 0.00 39.74 2.57
285 294 1.210478 GGCATGAGCTTAGGAGACCAA 59.790 52.381 0.00 0.00 41.70 3.67
336 345 5.584913 AGGAGAGAAGAATGAGTACAAGGA 58.415 41.667 0.00 0.00 0.00 3.36
338 347 8.231692 TGATAGGAGAGAAGAATGAGTACAAG 57.768 38.462 0.00 0.00 0.00 3.16
375 384 5.599359 TTCACGAATACGCAAAGATTGAA 57.401 34.783 0.00 0.00 43.96 2.69
376 385 5.599359 TTTCACGAATACGCAAAGATTGA 57.401 34.783 0.00 0.00 43.96 2.57
405 414 8.292448 TCTCATTGACAAACAAAAATCTCTAGC 58.708 33.333 0.00 0.00 42.03 3.42
579 588 5.580998 GGGTGAGGATGTCCACTCTATATA 58.419 45.833 1.30 0.00 38.89 0.86
584 593 0.972983 CGGGTGAGGATGTCCACTCT 60.973 60.000 1.30 0.00 38.89 3.24
688 697 4.743493 TCGACAAAGCAAAAGCTCTTTTT 58.257 34.783 4.97 0.00 40.45 1.94
689 698 4.354587 CTCGACAAAGCAAAAGCTCTTTT 58.645 39.130 2.01 2.01 42.91 2.27
690 699 3.793465 GCTCGACAAAGCAAAAGCTCTTT 60.793 43.478 0.00 0.00 42.05 2.52
691 700 2.287248 GCTCGACAAAGCAAAAGCTCTT 60.287 45.455 0.00 0.00 42.05 2.85
692 701 1.265365 GCTCGACAAAGCAAAAGCTCT 59.735 47.619 0.00 0.00 42.05 4.09
693 702 1.265365 AGCTCGACAAAGCAAAAGCTC 59.735 47.619 0.00 0.00 45.00 4.09
694 703 1.265365 GAGCTCGACAAAGCAAAAGCT 59.735 47.619 0.00 0.00 45.00 3.74
879 888 5.811613 GCTGCTGGTTATCAATTGCAATTAA 59.188 36.000 23.69 11.24 0.00 1.40
891 900 3.056607 ACAAATTGGTGCTGCTGGTTATC 60.057 43.478 0.00 0.00 0.00 1.75
893 902 2.315176 ACAAATTGGTGCTGCTGGTTA 58.685 42.857 0.00 0.00 0.00 2.85
925 934 1.083806 TTAGCGAGTGCAGGAATGCG 61.084 55.000 0.00 0.00 46.23 4.73
943 952 6.453926 GCTACCTAGCTACAGTAGTTCTTT 57.546 41.667 19.98 0.00 45.62 2.52
964 974 2.368875 TCTTTCGAACTCCTTCTTGGCT 59.631 45.455 0.00 0.00 35.26 4.75
965 975 2.767505 TCTTTCGAACTCCTTCTTGGC 58.232 47.619 0.00 0.00 35.26 4.52
966 976 3.187432 GCTTCTTTCGAACTCCTTCTTGG 59.813 47.826 0.00 0.00 37.10 3.61
967 977 4.061596 AGCTTCTTTCGAACTCCTTCTTG 58.938 43.478 0.00 0.00 0.00 3.02
968 978 4.344359 AGCTTCTTTCGAACTCCTTCTT 57.656 40.909 0.00 0.00 0.00 2.52
969 979 4.322123 GGTAGCTTCTTTCGAACTCCTTCT 60.322 45.833 0.00 0.00 0.00 2.85
970 980 3.927758 GGTAGCTTCTTTCGAACTCCTTC 59.072 47.826 0.00 0.00 0.00 3.46
991 1001 2.489938 TTGACCTTCATCTTTCCGGG 57.510 50.000 0.00 0.00 0.00 5.73
994 1004 5.238650 TCTTCGTTTTGACCTTCATCTTTCC 59.761 40.000 0.00 0.00 0.00 3.13
995 1005 6.300354 TCTTCGTTTTGACCTTCATCTTTC 57.700 37.500 0.00 0.00 0.00 2.62
1007 1017 3.565482 AGCTTTGCTGATCTTCGTTTTGA 59.435 39.130 0.00 0.00 37.57 2.69
1026 1036 1.188219 TCCTCAAGAACTCGGCAGCT 61.188 55.000 0.00 0.00 0.00 4.24
1035 1045 1.578206 GCACCGCCTTCCTCAAGAAC 61.578 60.000 0.00 0.00 0.00 3.01
1328 1338 1.982938 GTCCAGTCTGGGTAGCCGT 60.983 63.158 19.11 0.00 38.32 5.68
1338 1348 1.109920 ACAGTGAGTGCGTCCAGTCT 61.110 55.000 0.00 0.00 41.15 3.24
1366 1376 1.738099 GGCTGCAGTCGTCATCGTT 60.738 57.895 16.64 0.00 38.33 3.85
1404 1414 4.831307 CCGCGTTCCTCCTCGTCG 62.831 72.222 4.92 0.00 0.00 5.12
1408 1418 3.692406 ACCACCGCGTTCCTCCTC 61.692 66.667 4.92 0.00 0.00 3.71
1409 1419 4.003788 CACCACCGCGTTCCTCCT 62.004 66.667 4.92 0.00 0.00 3.69
1514 1524 3.251484 TCCTCCTTGATGTTGAACTCCT 58.749 45.455 0.00 0.00 0.00 3.69
1528 1538 1.668101 GCGTGGTCGATCTCCTCCTT 61.668 60.000 0.00 0.00 39.71 3.36
1586 1596 1.597461 GGCTAGAAGCTCCGGTTGT 59.403 57.895 0.00 0.00 41.99 3.32
1603 1613 1.815421 CAATCGAAGGCCTGGACGG 60.815 63.158 21.21 9.05 0.00 4.79
1609 1619 3.636764 AGAAACAAAACAATCGAAGGCCT 59.363 39.130 0.00 0.00 0.00 5.19
1622 1633 3.938963 AGCTCAGTCACGAAGAAACAAAA 59.061 39.130 0.00 0.00 0.00 2.44
1652 1674 7.661536 TTATGTACTAAGACATCTGGAAGCT 57.338 36.000 0.00 0.00 40.54 3.74
1669 1696 5.756347 TGCCATGTCTAACCGAATTATGTAC 59.244 40.000 0.00 0.00 0.00 2.90
1677 1704 4.141824 TGTCATATGCCATGTCTAACCGAA 60.142 41.667 0.00 0.00 0.00 4.30
1685 1712 3.826236 GCATCTGTCATATGCCATGTC 57.174 47.619 11.22 0.00 43.17 3.06
1752 1779 9.328845 TGTACGTACACATTGACTAGTGATATA 57.671 33.333 24.10 0.00 39.03 0.86
1753 1780 8.217131 TGTACGTACACATTGACTAGTGATAT 57.783 34.615 24.10 0.00 39.03 1.63
1754 1781 7.614124 TGTACGTACACATTGACTAGTGATA 57.386 36.000 24.10 0.00 39.03 2.15
1755 1782 6.505044 TGTACGTACACATTGACTAGTGAT 57.495 37.500 24.10 0.00 39.03 3.06
1756 1783 5.945466 TGTACGTACACATTGACTAGTGA 57.055 39.130 24.10 0.00 39.03 3.41
1757 1784 6.453791 GCATTGTACGTACACATTGACTAGTG 60.454 42.308 27.36 10.76 41.40 2.74
1758 1785 5.575606 GCATTGTACGTACACATTGACTAGT 59.424 40.000 27.36 0.00 35.64 2.57
1759 1786 5.575218 TGCATTGTACGTACACATTGACTAG 59.425 40.000 27.36 11.71 35.64 2.57
1760 1787 5.346551 GTGCATTGTACGTACACATTGACTA 59.653 40.000 27.36 11.19 35.64 2.59
1761 1788 4.151689 GTGCATTGTACGTACACATTGACT 59.848 41.667 27.36 4.49 35.64 3.41
1762 1789 4.391358 GTGCATTGTACGTACACATTGAC 58.609 43.478 27.36 15.90 35.64 3.18
1763 1790 3.122111 CGTGCATTGTACGTACACATTGA 59.878 43.478 27.36 13.43 35.64 2.57
1764 1791 3.403670 CGTGCATTGTACGTACACATTG 58.596 45.455 27.36 23.06 35.64 2.82
1765 1792 3.715618 CGTGCATTGTACGTACACATT 57.284 42.857 27.36 12.83 35.64 2.71
1773 1800 6.797995 ACCTTTAAATTAACGTGCATTGTACG 59.202 34.615 22.96 22.96 46.31 3.67
1774 1801 9.777575 ATACCTTTAAATTAACGTGCATTGTAC 57.222 29.630 0.00 0.00 0.00 2.90
1831 1858 9.658475 GCTAATCACATAATAACACGCAAATAA 57.342 29.630 0.00 0.00 0.00 1.40
1832 1859 8.831550 TGCTAATCACATAATAACACGCAAATA 58.168 29.630 0.00 0.00 0.00 1.40
1833 1860 7.643764 GTGCTAATCACATAATAACACGCAAAT 59.356 33.333 0.00 0.00 44.98 2.32
1834 1861 6.964370 GTGCTAATCACATAATAACACGCAAA 59.036 34.615 0.00 0.00 44.98 3.68
1835 1862 6.482835 GTGCTAATCACATAATAACACGCAA 58.517 36.000 0.00 0.00 44.98 4.85
1836 1863 6.043327 GTGCTAATCACATAATAACACGCA 57.957 37.500 0.00 0.00 44.98 5.24
1861 1888 8.070171 GCGTGCAGTTAGTTTCATATCAAATAT 58.930 33.333 0.00 0.00 0.00 1.28
1862 1889 7.279981 AGCGTGCAGTTAGTTTCATATCAAATA 59.720 33.333 0.00 0.00 0.00 1.40
1863 1890 6.094048 AGCGTGCAGTTAGTTTCATATCAAAT 59.906 34.615 0.00 0.00 0.00 2.32
1864 1891 5.411361 AGCGTGCAGTTAGTTTCATATCAAA 59.589 36.000 0.00 0.00 0.00 2.69
1865 1892 4.935205 AGCGTGCAGTTAGTTTCATATCAA 59.065 37.500 0.00 0.00 0.00 2.57
1866 1893 4.503910 AGCGTGCAGTTAGTTTCATATCA 58.496 39.130 0.00 0.00 0.00 2.15
1867 1894 6.583912 TTAGCGTGCAGTTAGTTTCATATC 57.416 37.500 0.00 0.00 0.00 1.63
1868 1895 6.455113 CGTTTAGCGTGCAGTTAGTTTCATAT 60.455 38.462 0.00 0.00 35.54 1.78
1869 1896 5.164031 CGTTTAGCGTGCAGTTAGTTTCATA 60.164 40.000 0.00 0.00 35.54 2.15
1870 1897 4.377022 CGTTTAGCGTGCAGTTAGTTTCAT 60.377 41.667 0.00 0.00 35.54 2.57
1871 1898 3.060138 CGTTTAGCGTGCAGTTAGTTTCA 60.060 43.478 0.00 0.00 35.54 2.69
1872 1899 3.466836 CGTTTAGCGTGCAGTTAGTTTC 58.533 45.455 0.00 0.00 35.54 2.78
1873 1900 3.515071 CGTTTAGCGTGCAGTTAGTTT 57.485 42.857 0.00 0.00 35.54 2.66
1886 1913 0.179248 GAGCGCTCAACACGTTTAGC 60.179 55.000 31.91 6.11 36.68 3.09
1887 1914 0.091344 CGAGCGCTCAACACGTTTAG 59.909 55.000 34.69 12.34 0.00 1.85
1888 1915 0.318022 TCGAGCGCTCAACACGTTTA 60.318 50.000 34.69 4.78 0.00 2.01
1889 1916 0.944311 ATCGAGCGCTCAACACGTTT 60.944 50.000 34.69 12.03 0.00 3.60
1890 1917 0.109458 TATCGAGCGCTCAACACGTT 60.109 50.000 34.69 18.96 0.00 3.99
1891 1918 0.100682 ATATCGAGCGCTCAACACGT 59.899 50.000 34.69 16.29 0.00 4.49
1892 1919 1.071894 CAATATCGAGCGCTCAACACG 60.072 52.381 34.69 22.24 0.00 4.49
1893 1920 2.193447 TCAATATCGAGCGCTCAACAC 58.807 47.619 34.69 10.69 0.00 3.32
1894 1921 2.577449 TCAATATCGAGCGCTCAACA 57.423 45.000 34.69 19.42 0.00 3.33
1895 1922 2.348032 GCTTCAATATCGAGCGCTCAAC 60.348 50.000 34.69 11.49 0.00 3.18
1896 1923 1.860950 GCTTCAATATCGAGCGCTCAA 59.139 47.619 34.69 20.63 0.00 3.02
1897 1924 1.202405 TGCTTCAATATCGAGCGCTCA 60.202 47.619 34.69 22.54 39.23 4.26
1898 1925 1.455030 CTGCTTCAATATCGAGCGCTC 59.545 52.381 27.64 27.64 39.23 5.03
1899 1926 1.202463 ACTGCTTCAATATCGAGCGCT 60.202 47.619 11.27 11.27 39.23 5.92
1900 1927 1.191204 GACTGCTTCAATATCGAGCGC 59.809 52.381 0.00 0.00 39.23 5.92
1901 1928 2.736978 AGACTGCTTCAATATCGAGCG 58.263 47.619 0.00 0.00 39.23 5.03
1902 1929 4.233789 CCTAGACTGCTTCAATATCGAGC 58.766 47.826 0.00 0.00 36.95 5.03
1903 1930 5.446143 ACCTAGACTGCTTCAATATCGAG 57.554 43.478 0.00 0.00 0.00 4.04
1904 1931 4.023963 CGACCTAGACTGCTTCAATATCGA 60.024 45.833 0.00 0.00 0.00 3.59
1905 1932 4.222886 CGACCTAGACTGCTTCAATATCG 58.777 47.826 0.00 0.00 0.00 2.92
1906 1933 5.189659 ACGACCTAGACTGCTTCAATATC 57.810 43.478 0.00 0.00 0.00 1.63
1907 1934 5.127194 TCAACGACCTAGACTGCTTCAATAT 59.873 40.000 0.00 0.00 0.00 1.28
1908 1935 4.461431 TCAACGACCTAGACTGCTTCAATA 59.539 41.667 0.00 0.00 0.00 1.90
1909 1936 3.258372 TCAACGACCTAGACTGCTTCAAT 59.742 43.478 0.00 0.00 0.00 2.57
1910 1937 2.626266 TCAACGACCTAGACTGCTTCAA 59.374 45.455 0.00 0.00 0.00 2.69
1911 1938 2.235891 TCAACGACCTAGACTGCTTCA 58.764 47.619 0.00 0.00 0.00 3.02
1912 1939 3.299340 TTCAACGACCTAGACTGCTTC 57.701 47.619 0.00 0.00 0.00 3.86
1913 1940 3.963428 ATTCAACGACCTAGACTGCTT 57.037 42.857 0.00 0.00 0.00 3.91
1914 1941 3.963428 AATTCAACGACCTAGACTGCT 57.037 42.857 0.00 0.00 0.00 4.24
1915 1942 4.927425 TGTTAATTCAACGACCTAGACTGC 59.073 41.667 0.00 0.00 40.26 4.40
1916 1943 8.697846 TTATGTTAATTCAACGACCTAGACTG 57.302 34.615 0.00 0.00 40.26 3.51
1917 1944 9.886132 AATTATGTTAATTCAACGACCTAGACT 57.114 29.630 0.00 0.00 40.26 3.24
1922 1949 9.787532 CATCAAATTATGTTAATTCAACGACCT 57.212 29.630 0.00 0.00 40.26 3.85
1923 1950 9.019764 CCATCAAATTATGTTAATTCAACGACC 57.980 33.333 0.00 0.00 40.26 4.79
1924 1951 8.531530 GCCATCAAATTATGTTAATTCAACGAC 58.468 33.333 0.00 0.00 40.26 4.34
1925 1952 8.465999 AGCCATCAAATTATGTTAATTCAACGA 58.534 29.630 0.00 0.00 40.26 3.85
1926 1953 8.533965 CAGCCATCAAATTATGTTAATTCAACG 58.466 33.333 0.00 0.00 40.26 4.10
1927 1954 9.585099 TCAGCCATCAAATTATGTTAATTCAAC 57.415 29.630 0.00 0.00 37.67 3.18
1943 1970 9.316730 GCAGATTTAATTAATTTCAGCCATCAA 57.683 29.630 5.91 0.00 0.00 2.57
1944 1971 7.927629 GGCAGATTTAATTAATTTCAGCCATCA 59.072 33.333 24.79 1.90 37.23 3.07
1945 1972 8.146412 AGGCAGATTTAATTAATTTCAGCCATC 58.854 33.333 27.95 15.53 39.60 3.51
1946 1973 8.026396 AGGCAGATTTAATTAATTTCAGCCAT 57.974 30.769 27.95 18.44 39.60 4.40
1947 1974 7.342799 AGAGGCAGATTTAATTAATTTCAGCCA 59.657 33.333 27.95 6.27 39.60 4.75
1948 1975 7.650903 CAGAGGCAGATTTAATTAATTTCAGCC 59.349 37.037 23.54 23.54 37.52 4.85
1949 1976 8.193438 ACAGAGGCAGATTTAATTAATTTCAGC 58.807 33.333 5.91 6.61 0.00 4.26
1950 1977 9.512435 CACAGAGGCAGATTTAATTAATTTCAG 57.488 33.333 5.91 0.00 0.00 3.02
1951 1978 9.241919 TCACAGAGGCAGATTTAATTAATTTCA 57.758 29.630 5.91 0.00 0.00 2.69
2016 2054 9.003658 GCCATTTTGCTAGTATGATACATAAGT 57.996 33.333 5.28 0.00 0.00 2.24
2017 2055 8.454106 GGCCATTTTGCTAGTATGATACATAAG 58.546 37.037 5.28 0.91 0.00 1.73
2018 2056 7.393234 GGGCCATTTTGCTAGTATGATACATAA 59.607 37.037 4.39 0.00 0.00 1.90
2019 2057 6.884295 GGGCCATTTTGCTAGTATGATACATA 59.116 38.462 4.39 0.00 0.00 2.29
2020 2058 5.711976 GGGCCATTTTGCTAGTATGATACAT 59.288 40.000 4.39 0.00 0.00 2.29
2021 2059 5.070001 GGGCCATTTTGCTAGTATGATACA 58.930 41.667 4.39 0.00 0.00 2.29
2022 2060 4.154195 CGGGCCATTTTGCTAGTATGATAC 59.846 45.833 4.39 0.00 0.00 2.24
2023 2061 4.202419 ACGGGCCATTTTGCTAGTATGATA 60.202 41.667 4.39 0.00 0.00 2.15
2024 2062 3.149196 CGGGCCATTTTGCTAGTATGAT 58.851 45.455 4.39 0.00 0.00 2.45
2025 2063 2.092646 ACGGGCCATTTTGCTAGTATGA 60.093 45.455 4.39 0.00 0.00 2.15
2039 2077 3.522731 GTTGCAACACACGGGCCA 61.523 61.111 24.52 0.00 0.00 5.36
2203 2243 6.662865 TCTAGAAATGTTTGCCCATTCAAA 57.337 33.333 0.00 0.00 34.01 2.69
2369 2413 5.714333 TGCAGGCCTATTCAAAAACTATTCA 59.286 36.000 3.98 0.00 0.00 2.57
2427 2471 4.978099 TCTTGAACTGAAGCTCCAGAAAT 58.022 39.130 7.09 0.00 37.59 2.17
2428 2472 4.422073 TCTTGAACTGAAGCTCCAGAAA 57.578 40.909 7.09 0.00 37.59 2.52
2472 2516 8.002459 AGGACTCTAACATAAAAGTGGGAAAAA 58.998 33.333 0.00 0.00 0.00 1.94
2497 2549 7.917505 GGCATAACAATCAGATTTTACCAGAAG 59.082 37.037 0.00 0.00 0.00 2.85
2502 2554 6.131544 ACGGCATAACAATCAGATTTTACC 57.868 37.500 0.00 0.00 0.00 2.85
2540 2606 7.335924 GTGATACAAGTTAAATGGAGGTGCTAA 59.664 37.037 0.00 0.00 0.00 3.09
2541 2607 6.821665 GTGATACAAGTTAAATGGAGGTGCTA 59.178 38.462 0.00 0.00 0.00 3.49
2544 2610 5.943416 TGGTGATACAAGTTAAATGGAGGTG 59.057 40.000 0.00 0.00 0.00 4.00


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

AutoCloner maintained by Alex Coulton.