Multiple sequence alignment - TraesCS5B01G087900

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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 TraesCS5B01G087900 chr5B 100.000 2595 0 0 1 2595 112573499 112576093 0.000000e+00 4793.0
1 TraesCS5B01G087900 chr5B 86.029 136 16 3 327 461 81578397 81578264 2.690000e-30 143.0
2 TraesCS5B01G087900 chr5B 84.892 139 18 3 327 464 532564863 532564727 1.250000e-28 137.0
3 TraesCS5B01G087900 chr5B 88.732 71 5 3 1534 1602 136053558 136053489 1.650000e-12 84.2
4 TraesCS5B01G087900 chr5A 93.728 1419 76 8 1 1415 94747516 94746107 0.000000e+00 2115.0
5 TraesCS5B01G087900 chr5A 94.486 399 21 1 1416 1813 94746051 94745653 4.750000e-172 614.0
6 TraesCS5B01G087900 chr5A 92.754 69 4 1 1535 1602 135548300 135548232 5.910000e-17 99.0
7 TraesCS5B01G087900 chr5A 88.406 69 6 2 1521 1588 539960845 539960778 5.950000e-12 82.4
8 TraesCS5B01G087900 chr5D 93.258 1424 70 13 1 1415 103634245 103635651 0.000000e+00 2074.0
9 TraesCS5B01G087900 chr5D 91.206 398 19 2 1416 1813 103635707 103636088 6.360000e-146 527.0
10 TraesCS5B01G087900 chr5D 96.739 184 4 2 1812 1994 152758272 152758090 3.240000e-79 305.0
11 TraesCS5B01G087900 chr5D 97.238 181 4 1 1812 1992 238175810 238175989 3.240000e-79 305.0
12 TraesCS5B01G087900 chr5D 86.207 203 18 6 476 669 437985001 437985202 7.280000e-51 211.0
13 TraesCS5B01G087900 chr5D 81.250 208 18 11 479 669 425895835 425896038 5.790000e-32 148.0
14 TraesCS5B01G087900 chr5D 85.294 136 17 3 327 461 211916310 211916177 1.250000e-28 137.0
15 TraesCS5B01G087900 chr5D 85.714 133 16 3 327 458 425892969 425893099 1.250000e-28 137.0
16 TraesCS5B01G087900 chr5D 92.857 70 4 1 1534 1602 123089841 123089772 1.640000e-17 100.0
17 TraesCS5B01G087900 chr5D 86.957 69 8 1 1521 1589 367999060 367998993 2.770000e-10 76.8
18 TraesCS5B01G087900 chr4B 90.709 1410 86 21 35 1415 575780826 575779433 0.000000e+00 1836.0
19 TraesCS5B01G087900 chr4B 96.689 604 19 1 1992 2594 169802010 169802613 0.000000e+00 1003.0
20 TraesCS5B01G087900 chr4B 96.529 605 20 1 1992 2595 179926066 179926670 0.000000e+00 1000.0
21 TraesCS5B01G087900 chr4B 91.437 327 24 2 1416 1742 575779377 575779055 1.830000e-121 446.0
22 TraesCS5B01G087900 chr4B 97.268 183 4 1 1812 1994 643645571 643645752 2.510000e-80 309.0
23 TraesCS5B01G087900 chr3B 96.854 604 18 1 1993 2595 545876746 545876143 0.000000e+00 1009.0
24 TraesCS5B01G087900 chr3B 96.529 605 20 1 1992 2595 669858470 669859074 0.000000e+00 1000.0
25 TraesCS5B01G087900 chr3B 96.529 605 20 1 1992 2595 733541536 733540932 0.000000e+00 1000.0
26 TraesCS5B01G087900 chr3B 83.962 212 16 7 479 672 815222046 815221835 1.230000e-43 187.0
27 TraesCS5B01G087900 chr3B 85.000 140 15 4 324 458 43922231 43922369 1.250000e-28 137.0
28 TraesCS5B01G087900 chr3B 85.000 140 15 4 324 458 44028045 44028183 1.250000e-28 137.0
29 TraesCS5B01G087900 chr3B 83.333 84 14 0 1522 1605 126579759 126579676 7.700000e-11 78.7
30 TraesCS5B01G087900 chr2B 96.388 609 20 2 1988 2595 425319241 425319848 0.000000e+00 1002.0
31 TraesCS5B01G087900 chr1B 96.388 609 20 2 1988 2595 152897336 152897943 0.000000e+00 1002.0
32 TraesCS5B01G087900 chr1B 96.529 605 19 2 1992 2595 90365481 90366084 0.000000e+00 1000.0
33 TraesCS5B01G087900 chr1B 97.238 181 4 1 1812 1992 327247736 327247915 3.240000e-79 305.0
34 TraesCS5B01G087900 chr1B 89.706 68 7 0 1532 1599 223137635 223137568 1.280000e-13 87.9
35 TraesCS5B01G087900 chr1B 96.078 51 2 0 1526 1576 56997476 56997426 1.650000e-12 84.2
36 TraesCS5B01G087900 chr1B 92.857 56 4 0 1521 1576 130545896 130545951 5.950000e-12 82.4
37 TraesCS5B01G087900 chr7B 96.529 605 20 1 1992 2595 4460462 4459858 0.000000e+00 1000.0
38 TraesCS5B01G087900 chr7A 97.238 181 4 1 1812 1992 357348206 357348385 3.240000e-79 305.0
39 TraesCS5B01G087900 chr7A 83.500 200 26 4 479 672 468834863 468834665 2.050000e-41 180.0
40 TraesCS5B01G087900 chr6D 97.238 181 4 1 1812 1992 160204357 160204536 3.240000e-79 305.0
41 TraesCS5B01G087900 chr6B 97.238 181 4 1 1812 1992 128742296 128742475 3.240000e-79 305.0
42 TraesCS5B01G087900 chr6B 86.935 199 18 5 479 669 494281893 494282091 1.560000e-52 217.0
43 TraesCS5B01G087900 chr4D 97.238 181 4 1 1812 1992 313597789 313597610 3.240000e-79 305.0
44 TraesCS5B01G087900 chr4D 74.719 356 58 18 335 669 13102317 13101973 2.100000e-26 130.0
45 TraesCS5B01G087900 chr3D 97.238 181 4 1 1812 1992 275109553 275109374 3.240000e-79 305.0
46 TraesCS5B01G087900 chr4A 87.129 202 18 6 479 672 174618777 174618576 3.360000e-54 222.0
47 TraesCS5B01G087900 chr4A 88.288 111 12 1 349 458 174619001 174618891 5.830000e-27 132.0
48 TraesCS5B01G087900 chr7D 86.432 199 22 2 479 672 167405604 167405406 2.020000e-51 213.0
49 TraesCS5B01G087900 chr1A 83.938 193 21 3 482 664 9111707 9111515 2.650000e-40 176.0
50 TraesCS5B01G087900 chr1A 91.667 72 4 2 1532 1602 36563561 36563491 5.910000e-17 99.0
51 TraesCS5B01G087900 chr1A 91.667 60 3 2 1532 1590 234813505 234813563 5.950000e-12 82.4
52 TraesCS5B01G087900 chr1D 79.439 214 24 9 458 665 393439957 393440156 1.620000e-27 134.0


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 TraesCS5B01G087900 chr5B 112573499 112576093 2594 False 4793.0 4793 100.000 1 2595 1 chr5B.!!$F1 2594
1 TraesCS5B01G087900 chr5A 94745653 94747516 1863 True 1364.5 2115 94.107 1 1813 2 chr5A.!!$R3 1812
2 TraesCS5B01G087900 chr5D 103634245 103636088 1843 False 1300.5 2074 92.232 1 1813 2 chr5D.!!$F3 1812
3 TraesCS5B01G087900 chr4B 575779055 575780826 1771 True 1141.0 1836 91.073 35 1742 2 chr4B.!!$R1 1707
4 TraesCS5B01G087900 chr4B 169802010 169802613 603 False 1003.0 1003 96.689 1992 2594 1 chr4B.!!$F1 602
5 TraesCS5B01G087900 chr4B 179926066 179926670 604 False 1000.0 1000 96.529 1992 2595 1 chr4B.!!$F2 603
6 TraesCS5B01G087900 chr3B 545876143 545876746 603 True 1009.0 1009 96.854 1993 2595 1 chr3B.!!$R2 602
7 TraesCS5B01G087900 chr3B 669858470 669859074 604 False 1000.0 1000 96.529 1992 2595 1 chr3B.!!$F3 603
8 TraesCS5B01G087900 chr3B 733540932 733541536 604 True 1000.0 1000 96.529 1992 2595 1 chr3B.!!$R3 603
9 TraesCS5B01G087900 chr2B 425319241 425319848 607 False 1002.0 1002 96.388 1988 2595 1 chr2B.!!$F1 607
10 TraesCS5B01G087900 chr1B 152897336 152897943 607 False 1002.0 1002 96.388 1988 2595 1 chr1B.!!$F3 607
11 TraesCS5B01G087900 chr1B 90365481 90366084 603 False 1000.0 1000 96.529 1992 2595 1 chr1B.!!$F1 603
12 TraesCS5B01G087900 chr7B 4459858 4460462 604 True 1000.0 1000 96.529 1992 2595 1 chr7B.!!$R1 603

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
31 32 1.891919 GCAACCAGCAGTTCGTCCA 60.892 57.895 0.0 0.0 44.79 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1983 2071 0.034059 CTCCCCGGCAACTAGCTATG 59.966 60.0 0.0 0.0 44.79 2.23 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
31 32 1.891919 GCAACCAGCAGTTCGTCCA 60.892 57.895 0.00 0.00 44.79 4.02
155 158 7.839680 ATTGAAACTTGAACCAACTATTCCT 57.160 32.000 0.00 0.00 0.00 3.36
180 183 6.650807 TCTGATTCGAATTGTAGCAGAAACTT 59.349 34.615 18.83 0.00 0.00 2.66
261 264 6.540189 CCCCTGTCTATGTATGAAGAAAGTTG 59.460 42.308 0.00 0.00 0.00 3.16
314 318 4.756642 TCTCATGTTGTAGCAGAAACTTGG 59.243 41.667 0.00 4.09 34.14 3.61
430 445 7.934855 AGAGATATTTTTCATGTTGTCTGCT 57.065 32.000 0.00 0.00 0.00 4.24
434 449 9.399797 AGATATTTTTCATGTTGTCTGCTATGA 57.600 29.630 0.00 0.00 0.00 2.15
438 453 6.882610 TTTCATGTTGTCTGCTATGAAAGT 57.117 33.333 0.00 0.00 41.78 2.66
470 485 4.944930 CCGGGGTTTCAGTTTTATCATGTA 59.055 41.667 0.00 0.00 0.00 2.29
471 486 5.163693 CCGGGGTTTCAGTTTTATCATGTAC 60.164 44.000 0.00 0.00 0.00 2.90
472 487 5.646360 CGGGGTTTCAGTTTTATCATGTACT 59.354 40.000 0.00 0.00 0.00 2.73
473 488 6.183360 CGGGGTTTCAGTTTTATCATGTACTC 60.183 42.308 0.00 0.00 0.00 2.59
474 489 6.095021 GGGGTTTCAGTTTTATCATGTACTCC 59.905 42.308 0.00 0.00 0.00 3.85
475 490 6.183360 GGGTTTCAGTTTTATCATGTACTCCG 60.183 42.308 0.00 0.00 0.00 4.63
476 491 6.370718 GGTTTCAGTTTTATCATGTACTCCGT 59.629 38.462 0.00 0.00 0.00 4.69
477 492 7.546667 GGTTTCAGTTTTATCATGTACTCCGTA 59.453 37.037 0.00 0.00 0.00 4.02
855 887 3.985877 CAATCTTGCACGCCTCCA 58.014 55.556 0.00 0.00 0.00 3.86
881 913 4.383173 CTTCCAACAACTTAACTACCGGT 58.617 43.478 13.98 13.98 0.00 5.28
911 943 2.231380 GCAACCCTCTCCCCTTCCA 61.231 63.158 0.00 0.00 0.00 3.53
1085 1117 6.488344 TGTGTTTATTAGTCTGCCATTTGTCA 59.512 34.615 0.00 0.00 0.00 3.58
1247 1279 5.302360 TGCTTATCGTACTTTCAGTTTGGT 58.698 37.500 0.00 0.00 0.00 3.67
1264 1297 9.206870 TCAGTTTGGTTACTTTATAACCTTACG 57.793 33.333 15.09 9.87 45.38 3.18
1286 1319 5.163499 ACGTTGTTGTGTGGAATTTTGGTAT 60.163 36.000 0.00 0.00 0.00 2.73
1363 1396 2.537560 GCGGCCGGAGATGTTCATG 61.538 63.158 29.38 0.00 0.00 3.07
1370 1403 3.244215 GCCGGAGATGTTCATGAAGGATA 60.244 47.826 8.80 0.00 0.00 2.59
1392 1425 9.178758 GGATAATTCTGTGTATGGTTTCTCTTT 57.821 33.333 0.00 0.00 0.00 2.52
1479 1567 5.255710 TGTGCTATCAGCTTCTCTAGTTC 57.744 43.478 0.00 0.00 42.97 3.01
1516 1604 5.894964 TGGTGCCTATGTGATAACTAGTGTA 59.105 40.000 0.00 0.00 0.00 2.90
1527 1615 8.198778 TGTGATAACTAGTGTAAGTCAACAACA 58.801 33.333 0.00 0.00 0.00 3.33
1544 1632 1.655484 ACAAGCACAAAGCCTTTTGC 58.345 45.000 13.14 13.14 46.05 3.68
1576 1664 3.637821 TGGGGTAGGCTAGAGATGAAT 57.362 47.619 0.00 0.00 0.00 2.57
1590 1678 7.120432 GCTAGAGATGAATTCCAACAGAAAACT 59.880 37.037 2.27 0.00 38.21 2.66
1616 1704 8.857098 TGTGAGAACTAATAACTAGTGTGAGTT 58.143 33.333 9.86 9.86 40.14 3.01
1773 1861 8.768501 TTGCTCTGGAAGAATACTAGAATAGA 57.231 34.615 0.00 0.00 46.34 1.98
1798 1886 6.040166 ACATGAAAGCAGAGAAATGTTTGTCT 59.960 34.615 0.00 0.00 40.93 3.41
1827 1915 7.721286 AAAATCTGAACAACAACAAACAACA 57.279 28.000 0.00 0.00 0.00 3.33
1828 1916 7.721286 AAATCTGAACAACAACAAACAACAA 57.279 28.000 0.00 0.00 0.00 2.83
1829 1917 6.704512 ATCTGAACAACAACAAACAACAAC 57.295 33.333 0.00 0.00 0.00 3.32
1830 1918 5.592054 TCTGAACAACAACAAACAACAACA 58.408 33.333 0.00 0.00 0.00 3.33
1831 1919 6.042777 TCTGAACAACAACAAACAACAACAA 58.957 32.000 0.00 0.00 0.00 2.83
1832 1920 6.019479 TCTGAACAACAACAAACAACAACAAC 60.019 34.615 0.00 0.00 0.00 3.32
1833 1921 5.580691 TGAACAACAACAAACAACAACAACA 59.419 32.000 0.00 0.00 0.00 3.33
1834 1922 6.092122 TGAACAACAACAAACAACAACAACAA 59.908 30.769 0.00 0.00 0.00 2.83
1835 1923 5.801012 ACAACAACAAACAACAACAACAAC 58.199 33.333 0.00 0.00 0.00 3.32
1836 1924 5.351465 ACAACAACAAACAACAACAACAACA 59.649 32.000 0.00 0.00 0.00 3.33
1837 1925 6.128282 ACAACAACAAACAACAACAACAACAA 60.128 30.769 0.00 0.00 0.00 2.83
1838 1926 5.801012 ACAACAAACAACAACAACAACAAC 58.199 33.333 0.00 0.00 0.00 3.32
1839 1927 5.351465 ACAACAAACAACAACAACAACAACA 59.649 32.000 0.00 0.00 0.00 3.33
1840 1928 6.128282 ACAACAAACAACAACAACAACAACAA 60.128 30.769 0.00 0.00 0.00 2.83
1841 1929 5.801012 ACAAACAACAACAACAACAACAAC 58.199 33.333 0.00 0.00 0.00 3.32
1842 1930 5.351465 ACAAACAACAACAACAACAACAACA 59.649 32.000 0.00 0.00 0.00 3.33
1843 1931 6.128282 ACAAACAACAACAACAACAACAACAA 60.128 30.769 0.00 0.00 0.00 2.83
1844 1932 5.396750 ACAACAACAACAACAACAACAAC 57.603 34.783 0.00 0.00 0.00 3.32
1845 1933 4.870426 ACAACAACAACAACAACAACAACA 59.130 33.333 0.00 0.00 0.00 3.33
1846 1934 5.351465 ACAACAACAACAACAACAACAACAA 59.649 32.000 0.00 0.00 0.00 2.83
1847 1935 5.396750 ACAACAACAACAACAACAACAAC 57.603 34.783 0.00 0.00 0.00 3.32
1848 1936 4.870426 ACAACAACAACAACAACAACAACA 59.130 33.333 0.00 0.00 0.00 3.33
1849 1937 5.351465 ACAACAACAACAACAACAACAACAA 59.649 32.000 0.00 0.00 0.00 2.83
1850 1938 5.396750 ACAACAACAACAACAACAACAAC 57.603 34.783 0.00 0.00 0.00 3.32
1851 1939 4.870426 ACAACAACAACAACAACAACAACA 59.130 33.333 0.00 0.00 0.00 3.33
1852 1940 5.351465 ACAACAACAACAACAACAACAACAA 59.649 32.000 0.00 0.00 0.00 2.83
1853 1941 5.396750 ACAACAACAACAACAACAACAAC 57.603 34.783 0.00 0.00 0.00 3.32
1854 1942 4.870426 ACAACAACAACAACAACAACAACA 59.130 33.333 0.00 0.00 0.00 3.33
1855 1943 5.351465 ACAACAACAACAACAACAACAACAA 59.649 32.000 0.00 0.00 0.00 2.83
1856 1944 5.396750 ACAACAACAACAACAACAACAAC 57.603 34.783 0.00 0.00 0.00 3.32
1857 1945 4.870426 ACAACAACAACAACAACAACAACA 59.130 33.333 0.00 0.00 0.00 3.33
1858 1946 5.351465 ACAACAACAACAACAACAACAACAA 59.649 32.000 0.00 0.00 0.00 2.83
1859 1947 5.396750 ACAACAACAACAACAACAACAAC 57.603 34.783 0.00 0.00 0.00 3.32
1860 1948 4.870426 ACAACAACAACAACAACAACAACA 59.130 33.333 0.00 0.00 0.00 3.33
1861 1949 5.351465 ACAACAACAACAACAACAACAACAA 59.649 32.000 0.00 0.00 0.00 2.83
1862 1950 5.396750 ACAACAACAACAACAACAACAAC 57.603 34.783 0.00 0.00 0.00 3.32
1863 1951 4.870426 ACAACAACAACAACAACAACAACA 59.130 33.333 0.00 0.00 0.00 3.33
1864 1952 5.351465 ACAACAACAACAACAACAACAACAA 59.649 32.000 0.00 0.00 0.00 2.83
1865 1953 5.396750 ACAACAACAACAACAACAACAAC 57.603 34.783 0.00 0.00 0.00 3.32
1866 1954 4.870426 ACAACAACAACAACAACAACAACA 59.130 33.333 0.00 0.00 0.00 3.33
1867 1955 5.351465 ACAACAACAACAACAACAACAACAA 59.649 32.000 0.00 0.00 0.00 2.83
1868 1956 5.396750 ACAACAACAACAACAACAACAAC 57.603 34.783 0.00 0.00 0.00 3.32
1869 1957 4.870426 ACAACAACAACAACAACAACAACA 59.130 33.333 0.00 0.00 0.00 3.33
1870 1958 5.351465 ACAACAACAACAACAACAACAACAA 59.649 32.000 0.00 0.00 0.00 2.83
1871 1959 5.396750 ACAACAACAACAACAACAACAAC 57.603 34.783 0.00 0.00 0.00 3.32
1872 1960 4.870426 ACAACAACAACAACAACAACAACA 59.130 33.333 0.00 0.00 0.00 3.33
1873 1961 5.351465 ACAACAACAACAACAACAACAACAA 59.649 32.000 0.00 0.00 0.00 2.83
1874 1962 6.128282 ACAACAACAACAACAACAACAACAAA 60.128 30.769 0.00 0.00 0.00 2.83
1875 1963 6.042144 ACAACAACAACAACAACAACAAAG 57.958 33.333 0.00 0.00 0.00 2.77
1876 1964 4.723879 ACAACAACAACAACAACAAAGC 57.276 36.364 0.00 0.00 0.00 3.51
1877 1965 3.496507 ACAACAACAACAACAACAAAGCC 59.503 39.130 0.00 0.00 0.00 4.35
1878 1966 3.676291 ACAACAACAACAACAAAGCCT 57.324 38.095 0.00 0.00 0.00 4.58
1879 1967 4.001618 ACAACAACAACAACAAAGCCTT 57.998 36.364 0.00 0.00 0.00 4.35
1880 1968 4.384940 ACAACAACAACAACAAAGCCTTT 58.615 34.783 0.00 0.00 0.00 3.11
1881 1969 5.542779 ACAACAACAACAACAAAGCCTTTA 58.457 33.333 0.00 0.00 0.00 1.85
1882 1970 5.637387 ACAACAACAACAACAAAGCCTTTAG 59.363 36.000 0.00 0.00 0.00 1.85
1883 1971 5.400066 ACAACAACAACAAAGCCTTTAGT 57.600 34.783 0.00 0.00 0.00 2.24
1884 1972 5.407502 ACAACAACAACAAAGCCTTTAGTC 58.592 37.500 0.00 0.00 0.00 2.59
1885 1973 4.649088 ACAACAACAAAGCCTTTAGTCC 57.351 40.909 0.00 0.00 0.00 3.85
1886 1974 3.383505 ACAACAACAAAGCCTTTAGTCCC 59.616 43.478 0.00 0.00 0.00 4.46
1887 1975 3.306472 ACAACAAAGCCTTTAGTCCCA 57.694 42.857 0.00 0.00 0.00 4.37
1888 1976 3.637769 ACAACAAAGCCTTTAGTCCCAA 58.362 40.909 0.00 0.00 0.00 4.12
1889 1977 4.027437 ACAACAAAGCCTTTAGTCCCAAA 58.973 39.130 0.00 0.00 0.00 3.28
1890 1978 4.142026 ACAACAAAGCCTTTAGTCCCAAAC 60.142 41.667 0.00 0.00 0.00 2.93
1891 1979 3.637769 ACAAAGCCTTTAGTCCCAAACA 58.362 40.909 0.00 0.00 0.00 2.83
1892 1980 4.027437 ACAAAGCCTTTAGTCCCAAACAA 58.973 39.130 0.00 0.00 0.00 2.83
1893 1981 4.099419 ACAAAGCCTTTAGTCCCAAACAAG 59.901 41.667 0.00 0.00 0.00 3.16
1894 1982 3.595190 AGCCTTTAGTCCCAAACAAGT 57.405 42.857 0.00 0.00 0.00 3.16
1895 1983 3.910989 AGCCTTTAGTCCCAAACAAGTT 58.089 40.909 0.00 0.00 0.00 2.66
1896 1984 3.636764 AGCCTTTAGTCCCAAACAAGTTG 59.363 43.478 0.00 0.00 36.94 3.16
1905 1993 1.995376 CAAACAAGTTGGGGTAGGCT 58.005 50.000 7.96 0.00 33.18 4.58
1906 1994 3.149005 CAAACAAGTTGGGGTAGGCTA 57.851 47.619 7.96 0.00 33.18 3.93
1907 1995 3.081804 CAAACAAGTTGGGGTAGGCTAG 58.918 50.000 7.96 0.00 33.18 3.42
1908 1996 2.337359 ACAAGTTGGGGTAGGCTAGA 57.663 50.000 7.96 0.00 0.00 2.43
1909 1997 2.188817 ACAAGTTGGGGTAGGCTAGAG 58.811 52.381 7.96 0.00 0.00 2.43
1910 1998 1.486726 CAAGTTGGGGTAGGCTAGAGG 59.513 57.143 0.00 0.00 0.00 3.69
1911 1999 0.717196 AGTTGGGGTAGGCTAGAGGT 59.283 55.000 0.00 0.00 0.00 3.85
1912 2000 0.831307 GTTGGGGTAGGCTAGAGGTG 59.169 60.000 0.00 0.00 0.00 4.00
1913 2001 0.714180 TTGGGGTAGGCTAGAGGTGA 59.286 55.000 0.00 0.00 0.00 4.02
1914 2002 0.714180 TGGGGTAGGCTAGAGGTGAA 59.286 55.000 0.00 0.00 0.00 3.18
1915 2003 1.079825 TGGGGTAGGCTAGAGGTGAAA 59.920 52.381 0.00 0.00 0.00 2.69
1916 2004 1.485480 GGGGTAGGCTAGAGGTGAAAC 59.515 57.143 0.00 0.00 0.00 2.78
1932 2020 4.755411 GTGAAACCCATAAGATCTCGTGA 58.245 43.478 0.00 0.00 0.00 4.35
1933 2021 4.567159 GTGAAACCCATAAGATCTCGTGAC 59.433 45.833 0.00 0.00 0.00 3.67
1934 2022 3.821421 AACCCATAAGATCTCGTGACC 57.179 47.619 0.00 0.00 0.00 4.02
1935 2023 2.747177 ACCCATAAGATCTCGTGACCA 58.253 47.619 0.00 0.00 0.00 4.02
1936 2024 3.104512 ACCCATAAGATCTCGTGACCAA 58.895 45.455 0.00 0.00 0.00 3.67
1937 2025 3.118738 ACCCATAAGATCTCGTGACCAAC 60.119 47.826 0.00 0.00 0.00 3.77
1938 2026 3.133003 CCCATAAGATCTCGTGACCAACT 59.867 47.826 0.00 0.00 0.00 3.16
1939 2027 4.363999 CCATAAGATCTCGTGACCAACTC 58.636 47.826 0.00 0.00 0.00 3.01
1940 2028 4.142160 CCATAAGATCTCGTGACCAACTCA 60.142 45.833 0.00 0.00 0.00 3.41
1941 2029 5.452496 CCATAAGATCTCGTGACCAACTCAT 60.452 44.000 0.00 0.00 0.00 2.90
1942 2030 3.516981 AGATCTCGTGACCAACTCATG 57.483 47.619 0.00 0.00 37.26 3.07
1950 2038 3.915575 CCAACTCATGGCTCTGGC 58.084 61.111 0.00 0.00 43.80 4.85
1951 2039 1.001764 CCAACTCATGGCTCTGGCA 60.002 57.895 0.00 0.00 43.80 4.92
1952 2040 1.310933 CCAACTCATGGCTCTGGCAC 61.311 60.000 0.00 0.00 43.80 5.01
1953 2041 0.607217 CAACTCATGGCTCTGGCACA 60.607 55.000 0.00 0.00 41.84 4.57
1954 2042 0.330604 AACTCATGGCTCTGGCACAT 59.669 50.000 0.00 0.00 41.84 3.21
1955 2043 0.393944 ACTCATGGCTCTGGCACATG 60.394 55.000 8.97 8.97 41.84 3.21
1956 2044 1.077285 TCATGGCTCTGGCACATGG 60.077 57.895 13.76 0.00 41.84 3.66
1957 2045 1.077285 CATGGCTCTGGCACATGGA 60.077 57.895 7.68 0.00 41.84 3.41
1958 2046 0.467474 CATGGCTCTGGCACATGGAT 60.467 55.000 7.68 0.00 41.84 3.41
1959 2047 1.142936 ATGGCTCTGGCACATGGATA 58.857 50.000 0.00 0.00 41.84 2.59
1960 2048 0.471191 TGGCTCTGGCACATGGATAG 59.529 55.000 0.00 0.00 38.20 2.08
1961 2049 0.888285 GGCTCTGGCACATGGATAGC 60.888 60.000 0.00 0.00 38.20 2.97
1962 2050 0.179037 GCTCTGGCACATGGATAGCA 60.179 55.000 0.00 0.00 38.20 3.49
1963 2051 1.748244 GCTCTGGCACATGGATAGCAA 60.748 52.381 0.00 0.00 38.20 3.91
1964 2052 2.646930 CTCTGGCACATGGATAGCAAA 58.353 47.619 0.00 0.00 38.20 3.68
1965 2053 2.357009 CTCTGGCACATGGATAGCAAAC 59.643 50.000 0.00 0.00 38.20 2.93
1966 2054 2.025981 TCTGGCACATGGATAGCAAACT 60.026 45.455 0.00 0.00 38.20 2.66
1967 2055 2.756760 CTGGCACATGGATAGCAAACTT 59.243 45.455 0.00 0.00 38.20 2.66
1968 2056 2.754552 TGGCACATGGATAGCAAACTTC 59.245 45.455 0.00 0.00 0.00 3.01
1969 2057 2.099756 GGCACATGGATAGCAAACTTCC 59.900 50.000 0.00 0.00 0.00 3.46
1970 2058 2.754552 GCACATGGATAGCAAACTTCCA 59.245 45.455 0.00 0.00 43.37 3.53
1971 2059 3.428045 GCACATGGATAGCAAACTTCCAC 60.428 47.826 0.00 0.00 42.09 4.02
1972 2060 3.009723 ACATGGATAGCAAACTTCCACG 58.990 45.455 0.00 0.00 42.09 4.94
1973 2061 1.448985 TGGATAGCAAACTTCCACGC 58.551 50.000 0.00 0.00 34.65 5.34
1974 2062 1.271108 TGGATAGCAAACTTCCACGCA 60.271 47.619 0.00 0.00 34.65 5.24
1975 2063 1.130561 GGATAGCAAACTTCCACGCAC 59.869 52.381 0.00 0.00 0.00 5.34
1976 2064 1.130561 GATAGCAAACTTCCACGCACC 59.869 52.381 0.00 0.00 0.00 5.01
1977 2065 0.887387 TAGCAAACTTCCACGCACCC 60.887 55.000 0.00 0.00 0.00 4.61
1978 2066 3.039134 CAAACTTCCACGCACCCC 58.961 61.111 0.00 0.00 0.00 4.95
1979 2067 1.528309 CAAACTTCCACGCACCCCT 60.528 57.895 0.00 0.00 0.00 4.79
1980 2068 1.528309 AAACTTCCACGCACCCCTG 60.528 57.895 0.00 0.00 0.00 4.45
1981 2069 4.643387 ACTTCCACGCACCCCTGC 62.643 66.667 0.00 0.00 40.38 4.85
1986 2074 4.108299 CACGCACCCCTGCCCATA 62.108 66.667 0.00 0.00 40.73 2.74
1987 2075 3.797353 ACGCACCCCTGCCCATAG 61.797 66.667 0.00 0.00 40.73 2.23
1989 2077 3.813724 GCACCCCTGCCCATAGCT 61.814 66.667 0.00 0.00 44.23 3.32
1990 2078 2.452064 GCACCCCTGCCCATAGCTA 61.452 63.158 0.00 0.00 44.23 3.32
2100 2188 6.074648 ACCATGGAAAGTAATTGTTTGAGGA 58.925 36.000 21.47 0.00 0.00 3.71
2167 2255 3.131400 GCTCCTCAACCTAGTGAACCTAG 59.869 52.174 0.00 0.00 42.51 3.02
2240 2329 6.238648 GGAAAAACTGCTAGCTAACACTTTCA 60.239 38.462 17.23 0.00 0.00 2.69
2279 2368 3.721035 CATCCTGACGAACATCTATGCA 58.279 45.455 0.00 0.00 0.00 3.96
2310 2399 8.515414 GGATGATATTTGTGGACTATTTAAGCC 58.485 37.037 0.00 0.00 0.00 4.35
2318 2407 2.945668 GGACTATTTAAGCCTGCAGGTG 59.054 50.000 32.81 10.23 37.57 4.00
2331 2420 0.178068 GCAGGTGTACCCGATGATGT 59.822 55.000 0.00 0.00 38.74 3.06
2366 2455 6.704056 AGACTTTCCCTTTATCTTTGGAGA 57.296 37.500 0.00 0.00 36.09 3.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
31 32 2.303660 AATTACCCTGTCCCCTGGAT 57.696 50.000 0.00 0.00 32.73 3.41
109 112 5.554822 TTAAACACAAAGAAACAGAGCGT 57.445 34.783 0.00 0.00 0.00 5.07
110 113 6.690957 TCAATTAAACACAAAGAAACAGAGCG 59.309 34.615 0.00 0.00 0.00 5.03
155 158 6.166279 AGTTTCTGCTACAATTCGAATCAGA 58.834 36.000 17.76 17.76 0.00 3.27
180 183 2.507886 TCTTGGAGTCTTGGTTGGTTCA 59.492 45.455 0.00 0.00 0.00 3.18
216 219 9.815306 ACAGGGGCTATATATAGATACATACTG 57.185 37.037 21.65 17.85 32.05 2.74
261 264 7.370383 TGAATAGTTGGTTCAAGCTTCAATTC 58.630 34.615 0.00 0.30 32.98 2.17
269 272 5.645497 AGATGACTGAATAGTTGGTTCAAGC 59.355 40.000 0.00 0.00 37.25 4.01
314 318 3.199880 AGCATATAGGCACAGTTGGTC 57.800 47.619 12.54 0.00 35.83 4.02
344 358 7.046652 TCAAAATGCTCCAGTTTCAAATCAAA 58.953 30.769 0.00 0.00 29.07 2.69
427 442 3.368013 CGGGTGTAGACACTTTCATAGCA 60.368 47.826 12.32 0.00 45.73 3.49
430 445 2.498481 CCCGGGTGTAGACACTTTCATA 59.502 50.000 14.18 0.00 45.73 2.15
434 449 0.765519 ACCCCGGGTGTAGACACTTT 60.766 55.000 21.85 0.00 45.73 2.66
438 453 0.763604 TGAAACCCCGGGTGTAGACA 60.764 55.000 21.85 13.92 35.34 3.41
471 486 8.338259 CAATCCAACAAAAGAGATAATACGGAG 58.662 37.037 0.00 0.00 0.00 4.63
472 487 7.827236 ACAATCCAACAAAAGAGATAATACGGA 59.173 33.333 0.00 0.00 0.00 4.69
473 488 7.985476 ACAATCCAACAAAAGAGATAATACGG 58.015 34.615 0.00 0.00 0.00 4.02
477 492 9.860898 GCTTAACAATCCAACAAAAGAGATAAT 57.139 29.630 0.00 0.00 0.00 1.28
584 601 9.049523 GGCACTTATAACTACCCAAAAGTATAC 57.950 37.037 0.00 0.00 0.00 1.47
588 605 5.883180 TGGCACTTATAACTACCCAAAAGT 58.117 37.500 0.00 0.00 0.00 2.66
589 606 6.827586 TTGGCACTTATAACTACCCAAAAG 57.172 37.500 0.00 0.00 0.00 2.27
641 661 1.134699 GCCAGGATTAAAGCAAAGCCC 60.135 52.381 0.00 0.00 35.45 5.19
697 721 8.073467 TGGGATTAGGTTAGCTTTATTTTTGG 57.927 34.615 0.00 0.00 0.00 3.28
698 722 9.936759 TTTGGGATTAGGTTAGCTTTATTTTTG 57.063 29.630 0.00 0.00 0.00 2.44
767 799 2.646143 GCGGAGGAGGAGCGTATC 59.354 66.667 0.00 0.00 0.00 2.24
855 887 4.274214 GGTAGTTAAGTTGTTGGAAGCGTT 59.726 41.667 0.00 0.00 0.00 4.84
881 913 2.503382 GGGTTGCGGAAAAGGGCAA 61.503 57.895 0.00 0.00 46.06 4.52
911 943 7.663493 CCAAGAGAAGAGTGAAGATAAAAAGGT 59.337 37.037 0.00 0.00 0.00 3.50
999 1031 5.052481 CCGAATTCAAGAGTGAGATGCATA 58.948 41.667 0.00 0.00 34.49 3.14
1085 1117 9.643693 GAAACATCACATCAACCTCATAAAAAT 57.356 29.630 0.00 0.00 0.00 1.82
1092 1124 4.074259 CCTGAAACATCACATCAACCTCA 58.926 43.478 0.00 0.00 0.00 3.86
1247 1279 9.323985 ACACAACAACGTAAGGTTATAAAGTAA 57.676 29.630 0.00 0.00 46.39 2.24
1264 1297 7.546778 AAATACCAAAATTCCACACAACAAC 57.453 32.000 0.00 0.00 0.00 3.32
1286 1319 2.817258 CCTTCATCGTGGCCTACAAAAA 59.183 45.455 3.32 0.00 0.00 1.94
1363 1396 8.738645 AGAAACCATACACAGAATTATCCTTC 57.261 34.615 0.00 0.00 0.00 3.46
1392 1425 7.446001 AACACAAGCAAATGAAAAAGGAAAA 57.554 28.000 0.00 0.00 0.00 2.29
1393 1426 7.446001 AAACACAAGCAAATGAAAAAGGAAA 57.554 28.000 0.00 0.00 0.00 3.13
1397 1430 5.512434 GCCAAAACACAAGCAAATGAAAAAG 59.488 36.000 0.00 0.00 0.00 2.27
1479 1567 1.310933 GGCACCAGGCTGAAGTGATG 61.311 60.000 22.81 10.12 44.01 3.07
1516 1604 3.253230 GCTTTGTGCTTGTTGTTGACTT 58.747 40.909 0.00 0.00 38.95 3.01
1527 1615 0.179048 GGGCAAAAGGCTTTGTGCTT 60.179 50.000 28.88 10.11 43.34 3.91
1590 1678 8.405418 ACTCACACTAGTTATTAGTTCTCACA 57.595 34.615 0.00 0.00 40.68 3.58
1743 1831 8.540507 TCTAGTATTCTTCCAGAGCAAAGTAT 57.459 34.615 0.00 0.00 0.00 2.12
1773 1861 6.040166 AGACAAACATTTCTCTGCTTTCATGT 59.960 34.615 0.00 0.00 0.00 3.21
1813 1901 5.799960 TGTTGTTGTTGTTGTTTGTTGTTG 58.200 33.333 0.00 0.00 0.00 3.33
1814 1902 6.128282 TGTTGTTGTTGTTGTTGTTTGTTGTT 60.128 30.769 0.00 0.00 0.00 2.83
1815 1903 5.351465 TGTTGTTGTTGTTGTTGTTTGTTGT 59.649 32.000 0.00 0.00 0.00 3.32
1816 1904 5.799960 TGTTGTTGTTGTTGTTGTTTGTTG 58.200 33.333 0.00 0.00 0.00 3.33
1817 1905 6.128282 TGTTGTTGTTGTTGTTGTTGTTTGTT 60.128 30.769 0.00 0.00 0.00 2.83
1818 1906 5.351465 TGTTGTTGTTGTTGTTGTTGTTTGT 59.649 32.000 0.00 0.00 0.00 2.83
1819 1907 5.799960 TGTTGTTGTTGTTGTTGTTGTTTG 58.200 33.333 0.00 0.00 0.00 2.93
1820 1908 6.128282 TGTTGTTGTTGTTGTTGTTGTTGTTT 60.128 30.769 0.00 0.00 0.00 2.83
1821 1909 5.351465 TGTTGTTGTTGTTGTTGTTGTTGTT 59.649 32.000 0.00 0.00 0.00 2.83
1822 1910 4.870426 TGTTGTTGTTGTTGTTGTTGTTGT 59.130 33.333 0.00 0.00 0.00 3.32
1823 1911 5.395325 TGTTGTTGTTGTTGTTGTTGTTG 57.605 34.783 0.00 0.00 0.00 3.33
1824 1912 5.351465 TGTTGTTGTTGTTGTTGTTGTTGTT 59.649 32.000 0.00 0.00 0.00 2.83
1825 1913 4.870426 TGTTGTTGTTGTTGTTGTTGTTGT 59.130 33.333 0.00 0.00 0.00 3.32
1826 1914 5.395325 TGTTGTTGTTGTTGTTGTTGTTG 57.605 34.783 0.00 0.00 0.00 3.33
1827 1915 5.351465 TGTTGTTGTTGTTGTTGTTGTTGTT 59.649 32.000 0.00 0.00 0.00 2.83
1828 1916 4.870426 TGTTGTTGTTGTTGTTGTTGTTGT 59.130 33.333 0.00 0.00 0.00 3.32
1829 1917 5.395325 TGTTGTTGTTGTTGTTGTTGTTG 57.605 34.783 0.00 0.00 0.00 3.33
1830 1918 5.351465 TGTTGTTGTTGTTGTTGTTGTTGTT 59.649 32.000 0.00 0.00 0.00 2.83
1831 1919 4.870426 TGTTGTTGTTGTTGTTGTTGTTGT 59.130 33.333 0.00 0.00 0.00 3.32
1832 1920 5.395325 TGTTGTTGTTGTTGTTGTTGTTG 57.605 34.783 0.00 0.00 0.00 3.33
1833 1921 5.351465 TGTTGTTGTTGTTGTTGTTGTTGTT 59.649 32.000 0.00 0.00 0.00 2.83
1834 1922 4.870426 TGTTGTTGTTGTTGTTGTTGTTGT 59.130 33.333 0.00 0.00 0.00 3.32
1835 1923 5.395325 TGTTGTTGTTGTTGTTGTTGTTG 57.605 34.783 0.00 0.00 0.00 3.33
1836 1924 5.351465 TGTTGTTGTTGTTGTTGTTGTTGTT 59.649 32.000 0.00 0.00 0.00 2.83
1837 1925 4.870426 TGTTGTTGTTGTTGTTGTTGTTGT 59.130 33.333 0.00 0.00 0.00 3.32
1838 1926 5.395325 TGTTGTTGTTGTTGTTGTTGTTG 57.605 34.783 0.00 0.00 0.00 3.33
1839 1927 5.351465 TGTTGTTGTTGTTGTTGTTGTTGTT 59.649 32.000 0.00 0.00 0.00 2.83
1840 1928 4.870426 TGTTGTTGTTGTTGTTGTTGTTGT 59.130 33.333 0.00 0.00 0.00 3.32
1841 1929 5.395325 TGTTGTTGTTGTTGTTGTTGTTG 57.605 34.783 0.00 0.00 0.00 3.33
1842 1930 5.351465 TGTTGTTGTTGTTGTTGTTGTTGTT 59.649 32.000 0.00 0.00 0.00 2.83
1843 1931 4.870426 TGTTGTTGTTGTTGTTGTTGTTGT 59.130 33.333 0.00 0.00 0.00 3.32
1844 1932 5.395325 TGTTGTTGTTGTTGTTGTTGTTG 57.605 34.783 0.00 0.00 0.00 3.33
1845 1933 5.351465 TGTTGTTGTTGTTGTTGTTGTTGTT 59.649 32.000 0.00 0.00 0.00 2.83
1846 1934 4.870426 TGTTGTTGTTGTTGTTGTTGTTGT 59.130 33.333 0.00 0.00 0.00 3.32
1847 1935 5.395325 TGTTGTTGTTGTTGTTGTTGTTG 57.605 34.783 0.00 0.00 0.00 3.33
1848 1936 5.351465 TGTTGTTGTTGTTGTTGTTGTTGTT 59.649 32.000 0.00 0.00 0.00 2.83
1849 1937 4.870426 TGTTGTTGTTGTTGTTGTTGTTGT 59.130 33.333 0.00 0.00 0.00 3.32
1850 1938 5.395325 TGTTGTTGTTGTTGTTGTTGTTG 57.605 34.783 0.00 0.00 0.00 3.33
1851 1939 6.422776 TTTGTTGTTGTTGTTGTTGTTGTT 57.577 29.167 0.00 0.00 0.00 2.83
1852 1940 5.503194 GCTTTGTTGTTGTTGTTGTTGTTGT 60.503 36.000 0.00 0.00 0.00 3.32
1853 1941 4.903016 GCTTTGTTGTTGTTGTTGTTGTTG 59.097 37.500 0.00 0.00 0.00 3.33
1854 1942 4.024472 GGCTTTGTTGTTGTTGTTGTTGTT 60.024 37.500 0.00 0.00 0.00 2.83
1855 1943 3.496507 GGCTTTGTTGTTGTTGTTGTTGT 59.503 39.130 0.00 0.00 0.00 3.32
1856 1944 3.745458 AGGCTTTGTTGTTGTTGTTGTTG 59.255 39.130 0.00 0.00 0.00 3.33
1857 1945 4.001618 AGGCTTTGTTGTTGTTGTTGTT 57.998 36.364 0.00 0.00 0.00 2.83
1858 1946 3.676291 AGGCTTTGTTGTTGTTGTTGT 57.324 38.095 0.00 0.00 0.00 3.32
1859 1947 5.637387 ACTAAAGGCTTTGTTGTTGTTGTTG 59.363 36.000 22.32 0.00 0.00 3.33
1860 1948 5.789521 ACTAAAGGCTTTGTTGTTGTTGTT 58.210 33.333 22.32 0.00 0.00 2.83
1861 1949 5.400066 ACTAAAGGCTTTGTTGTTGTTGT 57.600 34.783 22.32 0.00 0.00 3.32
1862 1950 4.803613 GGACTAAAGGCTTTGTTGTTGTTG 59.196 41.667 22.32 0.00 0.00 3.33
1863 1951 4.142026 GGGACTAAAGGCTTTGTTGTTGTT 60.142 41.667 22.32 0.00 0.00 2.83
1864 1952 3.383505 GGGACTAAAGGCTTTGTTGTTGT 59.616 43.478 22.32 10.58 0.00 3.32
1865 1953 3.383185 TGGGACTAAAGGCTTTGTTGTTG 59.617 43.478 22.32 7.79 0.00 3.33
1866 1954 3.637769 TGGGACTAAAGGCTTTGTTGTT 58.362 40.909 22.32 1.84 0.00 2.83
1867 1955 3.306472 TGGGACTAAAGGCTTTGTTGT 57.694 42.857 22.32 16.69 0.00 3.32
1868 1956 4.142049 TGTTTGGGACTAAAGGCTTTGTTG 60.142 41.667 22.32 13.85 0.00 3.33
1869 1957 4.027437 TGTTTGGGACTAAAGGCTTTGTT 58.973 39.130 22.32 8.73 0.00 2.83
1870 1958 3.637769 TGTTTGGGACTAAAGGCTTTGT 58.362 40.909 22.32 16.86 0.00 2.83
1871 1959 4.099419 ACTTGTTTGGGACTAAAGGCTTTG 59.901 41.667 22.32 13.97 0.00 2.77
1872 1960 4.286707 ACTTGTTTGGGACTAAAGGCTTT 58.713 39.130 17.76 17.76 0.00 3.51
1873 1961 3.910989 ACTTGTTTGGGACTAAAGGCTT 58.089 40.909 0.00 0.00 0.00 4.35
1874 1962 3.595190 ACTTGTTTGGGACTAAAGGCT 57.405 42.857 0.00 0.00 0.00 4.58
1875 1963 3.977427 CAACTTGTTTGGGACTAAAGGC 58.023 45.455 0.00 0.00 0.00 4.35
1886 1974 1.995376 AGCCTACCCCAACTTGTTTG 58.005 50.000 0.00 0.00 34.63 2.93
1887 1975 2.983898 TCTAGCCTACCCCAACTTGTTT 59.016 45.455 0.00 0.00 0.00 2.83
1888 1976 2.572104 CTCTAGCCTACCCCAACTTGTT 59.428 50.000 0.00 0.00 0.00 2.83
1889 1977 2.188817 CTCTAGCCTACCCCAACTTGT 58.811 52.381 0.00 0.00 0.00 3.16
1890 1978 1.486726 CCTCTAGCCTACCCCAACTTG 59.513 57.143 0.00 0.00 0.00 3.16
1891 1979 1.080666 ACCTCTAGCCTACCCCAACTT 59.919 52.381 0.00 0.00 0.00 2.66
1892 1980 0.717196 ACCTCTAGCCTACCCCAACT 59.283 55.000 0.00 0.00 0.00 3.16
1893 1981 0.831307 CACCTCTAGCCTACCCCAAC 59.169 60.000 0.00 0.00 0.00 3.77
1894 1982 0.714180 TCACCTCTAGCCTACCCCAA 59.286 55.000 0.00 0.00 0.00 4.12
1895 1983 0.714180 TTCACCTCTAGCCTACCCCA 59.286 55.000 0.00 0.00 0.00 4.96
1896 1984 1.485480 GTTTCACCTCTAGCCTACCCC 59.515 57.143 0.00 0.00 0.00 4.95
1897 1985 1.485480 GGTTTCACCTCTAGCCTACCC 59.515 57.143 0.00 0.00 34.73 3.69
1898 1986 1.485480 GGGTTTCACCTCTAGCCTACC 59.515 57.143 0.00 0.00 38.64 3.18
1899 1987 2.185387 TGGGTTTCACCTCTAGCCTAC 58.815 52.381 0.00 0.00 38.64 3.18
1900 1988 2.634639 TGGGTTTCACCTCTAGCCTA 57.365 50.000 0.00 0.00 38.64 3.93
1901 1989 1.972588 ATGGGTTTCACCTCTAGCCT 58.027 50.000 0.00 0.00 38.64 4.58
1902 1990 3.454812 TCTTATGGGTTTCACCTCTAGCC 59.545 47.826 0.00 0.00 38.64 3.93
1903 1991 4.755266 TCTTATGGGTTTCACCTCTAGC 57.245 45.455 0.00 0.00 38.64 3.42
1904 1992 6.515862 CGAGATCTTATGGGTTTCACCTCTAG 60.516 46.154 0.00 0.00 38.64 2.43
1905 1993 5.302059 CGAGATCTTATGGGTTTCACCTCTA 59.698 44.000 0.00 0.00 38.64 2.43
1906 1994 4.100189 CGAGATCTTATGGGTTTCACCTCT 59.900 45.833 0.00 0.00 38.64 3.69
1907 1995 4.141914 ACGAGATCTTATGGGTTTCACCTC 60.142 45.833 0.00 0.00 38.64 3.85
1908 1996 3.775316 ACGAGATCTTATGGGTTTCACCT 59.225 43.478 0.00 0.00 38.64 4.00
1909 1997 3.871594 CACGAGATCTTATGGGTTTCACC 59.128 47.826 0.00 0.00 37.60 4.02
1910 1998 4.567159 GTCACGAGATCTTATGGGTTTCAC 59.433 45.833 0.00 0.00 0.00 3.18
1911 1999 4.382685 GGTCACGAGATCTTATGGGTTTCA 60.383 45.833 0.00 0.00 0.00 2.69
1912 2000 4.120589 GGTCACGAGATCTTATGGGTTTC 58.879 47.826 0.00 0.00 0.00 2.78
1913 2001 3.517901 TGGTCACGAGATCTTATGGGTTT 59.482 43.478 0.00 0.00 0.00 3.27
1914 2002 3.104512 TGGTCACGAGATCTTATGGGTT 58.895 45.455 0.00 0.00 0.00 4.11
1915 2003 2.747177 TGGTCACGAGATCTTATGGGT 58.253 47.619 0.00 0.00 0.00 4.51
1916 2004 3.133003 AGTTGGTCACGAGATCTTATGGG 59.867 47.826 0.00 0.00 0.00 4.00
1917 2005 4.142160 TGAGTTGGTCACGAGATCTTATGG 60.142 45.833 0.00 0.00 0.00 2.74
1918 2006 4.998788 TGAGTTGGTCACGAGATCTTATG 58.001 43.478 0.00 0.00 0.00 1.90
1919 2007 5.452496 CCATGAGTTGGTCACGAGATCTTAT 60.452 44.000 0.00 0.00 40.99 1.73
1920 2008 4.142160 CCATGAGTTGGTCACGAGATCTTA 60.142 45.833 0.00 0.00 40.99 2.10
1921 2009 3.368843 CCATGAGTTGGTCACGAGATCTT 60.369 47.826 0.00 0.00 40.99 2.40
1922 2010 2.167281 CCATGAGTTGGTCACGAGATCT 59.833 50.000 0.00 0.00 40.99 2.75
1923 2011 2.544685 CCATGAGTTGGTCACGAGATC 58.455 52.381 0.00 0.00 40.99 2.75
1924 2012 2.680312 CCATGAGTTGGTCACGAGAT 57.320 50.000 0.00 0.00 40.99 2.75
1934 2022 0.607217 TGTGCCAGAGCCATGAGTTG 60.607 55.000 0.00 0.00 38.69 3.16
1935 2023 0.330604 ATGTGCCAGAGCCATGAGTT 59.669 50.000 0.00 0.00 38.69 3.01
1936 2024 0.393944 CATGTGCCAGAGCCATGAGT 60.394 55.000 0.00 0.00 44.14 3.41
1937 2025 1.101635 CCATGTGCCAGAGCCATGAG 61.102 60.000 14.22 5.17 44.14 2.90
1938 2026 1.077285 CCATGTGCCAGAGCCATGA 60.077 57.895 14.22 0.00 44.14 3.07
1939 2027 0.467474 ATCCATGTGCCAGAGCCATG 60.467 55.000 8.59 8.59 42.54 3.66
1940 2028 1.073444 CTATCCATGTGCCAGAGCCAT 59.927 52.381 0.00 0.00 38.69 4.40
1941 2029 0.471191 CTATCCATGTGCCAGAGCCA 59.529 55.000 0.00 0.00 38.69 4.75
1942 2030 0.888285 GCTATCCATGTGCCAGAGCC 60.888 60.000 0.00 0.00 38.69 4.70
1943 2031 0.179037 TGCTATCCATGTGCCAGAGC 60.179 55.000 0.00 0.00 40.48 4.09
1944 2032 2.336945 TTGCTATCCATGTGCCAGAG 57.663 50.000 0.00 0.00 0.00 3.35
1945 2033 2.025981 AGTTTGCTATCCATGTGCCAGA 60.026 45.455 0.00 0.00 0.00 3.86
1946 2034 2.372264 AGTTTGCTATCCATGTGCCAG 58.628 47.619 0.00 0.00 0.00 4.85
1947 2035 2.512692 AGTTTGCTATCCATGTGCCA 57.487 45.000 0.00 0.00 0.00 4.92
1948 2036 2.099756 GGAAGTTTGCTATCCATGTGCC 59.900 50.000 0.00 0.00 33.30 5.01
1949 2037 2.754552 TGGAAGTTTGCTATCCATGTGC 59.245 45.455 0.00 0.00 38.30 4.57
1950 2038 3.181507 CGTGGAAGTTTGCTATCCATGTG 60.182 47.826 5.31 0.00 44.55 3.21
1951 2039 3.009723 CGTGGAAGTTTGCTATCCATGT 58.990 45.455 5.31 0.00 44.55 3.21
1952 2040 3.680642 CGTGGAAGTTTGCTATCCATG 57.319 47.619 0.00 0.00 44.55 3.66
1953 2041 2.017049 GCGTGGAAGTTTGCTATCCAT 58.983 47.619 0.00 0.00 44.55 3.41
1954 2042 1.271108 TGCGTGGAAGTTTGCTATCCA 60.271 47.619 0.00 0.00 40.84 3.41
1955 2043 1.130561 GTGCGTGGAAGTTTGCTATCC 59.869 52.381 0.00 0.00 0.00 2.59
1956 2044 1.130561 GGTGCGTGGAAGTTTGCTATC 59.869 52.381 0.00 0.00 0.00 2.08
1957 2045 1.165270 GGTGCGTGGAAGTTTGCTAT 58.835 50.000 0.00 0.00 0.00 2.97
1958 2046 0.887387 GGGTGCGTGGAAGTTTGCTA 60.887 55.000 0.00 0.00 0.00 3.49
1959 2047 2.193536 GGGTGCGTGGAAGTTTGCT 61.194 57.895 0.00 0.00 0.00 3.91
1960 2048 2.335011 GGGTGCGTGGAAGTTTGC 59.665 61.111 0.00 0.00 0.00 3.68
1961 2049 1.528309 AGGGGTGCGTGGAAGTTTG 60.528 57.895 0.00 0.00 0.00 2.93
1962 2050 1.528309 CAGGGGTGCGTGGAAGTTT 60.528 57.895 0.00 0.00 0.00 2.66
1963 2051 2.113139 CAGGGGTGCGTGGAAGTT 59.887 61.111 0.00 0.00 0.00 2.66
1964 2052 4.643387 GCAGGGGTGCGTGGAAGT 62.643 66.667 0.00 0.00 0.00 3.01
1969 2057 4.108299 TATGGGCAGGGGTGCGTG 62.108 66.667 0.00 0.00 35.24 5.34
1970 2058 3.797353 CTATGGGCAGGGGTGCGT 61.797 66.667 0.00 0.00 35.24 5.24
1972 2060 2.403132 CTAGCTATGGGCAGGGGTGC 62.403 65.000 0.00 0.00 44.79 5.01
1973 2061 1.056700 ACTAGCTATGGGCAGGGGTG 61.057 60.000 0.00 0.00 44.79 4.61
1974 2062 0.327576 AACTAGCTATGGGCAGGGGT 60.328 55.000 0.00 0.00 44.79 4.95
1975 2063 0.109342 CAACTAGCTATGGGCAGGGG 59.891 60.000 0.00 0.00 44.79 4.79
1976 2064 0.536006 GCAACTAGCTATGGGCAGGG 60.536 60.000 0.00 0.00 44.79 4.45
1977 2065 0.536006 GGCAACTAGCTATGGGCAGG 60.536 60.000 11.31 0.00 44.79 4.85
1978 2066 0.882042 CGGCAACTAGCTATGGGCAG 60.882 60.000 11.31 5.15 44.79 4.85
1979 2067 1.146041 CGGCAACTAGCTATGGGCA 59.854 57.895 11.31 0.00 44.79 5.36
1980 2068 1.598130 CCGGCAACTAGCTATGGGC 60.598 63.158 0.00 0.00 44.79 5.36
1981 2069 1.071471 CCCGGCAACTAGCTATGGG 59.929 63.158 0.00 0.00 44.79 4.00
1982 2070 1.071471 CCCCGGCAACTAGCTATGG 59.929 63.158 0.00 0.00 44.79 2.74
1983 2071 0.034059 CTCCCCGGCAACTAGCTATG 59.966 60.000 0.00 0.00 44.79 2.23
1984 2072 0.398664 ACTCCCCGGCAACTAGCTAT 60.399 55.000 0.00 0.00 44.79 2.97
1985 2073 1.001248 ACTCCCCGGCAACTAGCTA 59.999 57.895 0.00 0.00 44.79 3.32
1986 2074 2.284699 ACTCCCCGGCAACTAGCT 60.285 61.111 0.00 0.00 44.79 3.32
1987 2075 2.125106 CACTCCCCGGCAACTAGC 60.125 66.667 0.00 0.00 44.65 3.42
1988 2076 0.108138 CTTCACTCCCCGGCAACTAG 60.108 60.000 0.00 0.00 0.00 2.57
1989 2077 1.980052 CTTCACTCCCCGGCAACTA 59.020 57.895 0.00 0.00 0.00 2.24
1990 2078 2.750350 CTTCACTCCCCGGCAACT 59.250 61.111 0.00 0.00 0.00 3.16
2100 2188 1.906574 TGAAGATACCCCGAACAAGCT 59.093 47.619 0.00 0.00 0.00 3.74
2125 2213 2.575532 CAACTCTTGGCTCAACTGGAA 58.424 47.619 0.00 0.00 0.00 3.53
2167 2255 7.147976 AGCAGTTTCATTTTCAATAGGTTCAC 58.852 34.615 0.00 0.00 0.00 3.18
2240 2329 2.957402 TGCTTTGTTCCATCTCCTGT 57.043 45.000 0.00 0.00 0.00 4.00
2279 2368 9.425248 AAATAGTCCACAAATATCATCCACAAT 57.575 29.630 0.00 0.00 0.00 2.71
2310 2399 0.465705 ATCATCGGGTACACCTGCAG 59.534 55.000 6.78 6.78 42.21 4.41
2366 2455 3.827008 ATACCATGTCAATGCGTCTCT 57.173 42.857 0.00 0.00 31.93 3.10


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

AutoCloner maintained by Alex Coulton.