Multiple sequence alignment - TraesCS1B01G433200

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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 TraesCS1B01G433200 chr1B 100.000 2555 0 0 1 2555 657506662 657504108 0.000000e+00 4719.0
1 TraesCS1B01G433200 chr1B 91.713 543 38 6 2017 2555 677819206 677819745 0.000000e+00 747.0
2 TraesCS1B01G433200 chr1B 90.876 548 41 8 2015 2555 655061046 655060501 0.000000e+00 726.0
3 TraesCS1B01G433200 chr1B 89.550 555 49 7 2009 2555 605471835 605471282 0.000000e+00 695.0
4 TraesCS1B01G433200 chr1B 92.537 67 4 1 694 759 657505914 657505848 7.530000e-16 95.3
5 TraesCS1B01G433200 chr1B 92.537 67 4 1 749 815 657505969 657505904 7.530000e-16 95.3
6 TraesCS1B01G433200 chr1D 95.612 866 22 4 749 1599 473033452 473032588 0.000000e+00 1375.0
7 TraesCS1B01G433200 chr1D 88.931 786 34 15 1 759 473034146 473033387 0.000000e+00 920.0
8 TraesCS1B01G433200 chr1D 88.272 162 10 5 1618 1770 473032605 473032444 4.340000e-43 185.0
9 TraesCS1B01G433200 chr1A 95.676 717 24 3 890 1599 566687685 566686969 0.000000e+00 1146.0
10 TraesCS1B01G433200 chr1A 95.032 463 19 1 1 463 566688775 566688317 0.000000e+00 725.0
11 TraesCS1B01G433200 chr1A 84.436 257 22 10 516 759 566688051 566687800 1.180000e-58 237.0
12 TraesCS1B01G433200 chr1A 93.711 159 7 3 749 906 566687865 566687709 4.250000e-58 235.0
13 TraesCS1B01G433200 chr1A 86.420 162 13 5 1618 1770 566686986 566686825 4.370000e-38 169.0
14 TraesCS1B01G433200 chr3B 90.991 555 39 6 2012 2555 367477748 367477194 0.000000e+00 737.0
15 TraesCS1B01G433200 chr6B 90.569 562 39 10 2004 2555 84561368 84560811 0.000000e+00 732.0
16 TraesCS1B01G433200 chr6B 90.826 545 40 7 2015 2555 631780207 631779669 0.000000e+00 721.0
17 TraesCS1B01G433200 chr6B 90.545 550 43 9 2013 2555 680132462 680133009 0.000000e+00 719.0
18 TraesCS1B01G433200 chrUn 89.350 554 39 10 2015 2555 41482968 41483514 0.000000e+00 678.0
19 TraesCS1B01G433200 chr4A 87.569 547 59 8 2006 2550 674744722 674745261 2.160000e-175 625.0
20 TraesCS1B01G433200 chr2D 84.848 66 5 4 1731 1791 544207239 544207174 7.630000e-06 62.1


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 TraesCS1B01G433200 chr1B 657504108 657506662 2554 True 1636.533333 4719 95.024667 1 2555 3 chr1B.!!$R3 2554
1 TraesCS1B01G433200 chr1B 677819206 677819745 539 False 747.000000 747 91.713000 2017 2555 1 chr1B.!!$F1 538
2 TraesCS1B01G433200 chr1B 655060501 655061046 545 True 726.000000 726 90.876000 2015 2555 1 chr1B.!!$R2 540
3 TraesCS1B01G433200 chr1B 605471282 605471835 553 True 695.000000 695 89.550000 2009 2555 1 chr1B.!!$R1 546
4 TraesCS1B01G433200 chr1D 473032444 473034146 1702 True 826.666667 1375 90.938333 1 1770 3 chr1D.!!$R1 1769
5 TraesCS1B01G433200 chr1A 566686825 566688775 1950 True 502.400000 1146 91.055000 1 1770 5 chr1A.!!$R1 1769
6 TraesCS1B01G433200 chr3B 367477194 367477748 554 True 737.000000 737 90.991000 2012 2555 1 chr3B.!!$R1 543
7 TraesCS1B01G433200 chr6B 84560811 84561368 557 True 732.000000 732 90.569000 2004 2555 1 chr6B.!!$R1 551
8 TraesCS1B01G433200 chr6B 631779669 631780207 538 True 721.000000 721 90.826000 2015 2555 1 chr6B.!!$R2 540
9 TraesCS1B01G433200 chr6B 680132462 680133009 547 False 719.000000 719 90.545000 2013 2555 1 chr6B.!!$F1 542
10 TraesCS1B01G433200 chrUn 41482968 41483514 546 False 678.000000 678 89.350000 2015 2555 1 chrUn.!!$F1 540
11 TraesCS1B01G433200 chr4A 674744722 674745261 539 False 625.000000 625 87.569000 2006 2550 1 chr4A.!!$F1 544

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
511 711 1.066286 TGCTTTTATGGGGTTGCATGC 60.066 47.619 11.82 11.82 0.0 4.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1851 2131 0.108804 CGACCACCACAATAGAGCGT 60.109 55.0 0.0 0.0 0.0 5.07 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
74 75 7.348274 TGGAGATGGTTTAAGAGGAGATTGTAT 59.652 37.037 0.00 0.00 0.00 2.29
142 143 5.550290 AGAAATTAATTGGTTGGTGCTTGG 58.450 37.500 0.39 0.00 0.00 3.61
413 414 2.153039 GCGCTTGCCCAACAAATTC 58.847 52.632 0.00 0.00 37.96 2.17
463 464 2.472488 CGTCTTGCATGTTTTCTTTGCC 59.528 45.455 0.00 0.00 0.00 4.52
511 711 1.066286 TGCTTTTATGGGGTTGCATGC 60.066 47.619 11.82 11.82 0.00 4.06
512 712 1.925229 CTTTTATGGGGTTGCATGCG 58.075 50.000 14.09 0.00 0.00 4.73
521 735 1.423450 GTTGCATGCGCGTGTGATA 59.577 52.632 29.00 11.90 42.97 2.15
533 747 2.400399 CGTGTGATAGGTTTGTGTCGT 58.600 47.619 0.00 0.00 0.00 4.34
534 748 2.154963 CGTGTGATAGGTTTGTGTCGTG 59.845 50.000 0.00 0.00 0.00 4.35
618 832 5.469479 AGGCAAATATTTTGTCTCCGTTTG 58.531 37.500 0.00 0.00 25.88 2.93
620 834 5.572896 GGCAAATATTTTGTCTCCGTTTGAG 59.427 40.000 0.00 0.00 42.90 3.02
659 885 1.737793 GGCGTTGATCGTTCCAGAAAT 59.262 47.619 0.00 0.00 42.13 2.17
720 946 8.082242 ACAAGAGTAAATATGTGTTTCTTTGCC 58.918 33.333 0.00 0.00 0.00 4.52
721 947 8.299570 CAAGAGTAAATATGTGTTTCTTTGCCT 58.700 33.333 0.00 0.00 0.00 4.75
722 948 8.045176 AGAGTAAATATGTGTTTCTTTGCCTC 57.955 34.615 0.00 0.00 0.00 4.70
723 949 7.885399 AGAGTAAATATGTGTTTCTTTGCCTCT 59.115 33.333 0.00 0.00 0.00 3.69
724 950 8.409358 AGTAAATATGTGTTTCTTTGCCTCTT 57.591 30.769 0.00 0.00 0.00 2.85
725 951 8.299570 AGTAAATATGTGTTTCTTTGCCTCTTG 58.700 33.333 0.00 0.00 0.00 3.02
726 952 6.655078 AATATGTGTTTCTTTGCCTCTTGT 57.345 33.333 0.00 0.00 0.00 3.16
727 953 3.781079 TGTGTTTCTTTGCCTCTTGTG 57.219 42.857 0.00 0.00 0.00 3.33
728 954 3.351740 TGTGTTTCTTTGCCTCTTGTGA 58.648 40.909 0.00 0.00 0.00 3.58
729 955 3.953612 TGTGTTTCTTTGCCTCTTGTGAT 59.046 39.130 0.00 0.00 0.00 3.06
730 956 4.402155 TGTGTTTCTTTGCCTCTTGTGATT 59.598 37.500 0.00 0.00 0.00 2.57
731 957 4.741676 GTGTTTCTTTGCCTCTTGTGATTG 59.258 41.667 0.00 0.00 0.00 2.67
732 958 4.402155 TGTTTCTTTGCCTCTTGTGATTGT 59.598 37.500 0.00 0.00 0.00 2.71
733 959 4.836125 TTCTTTGCCTCTTGTGATTGTC 57.164 40.909 0.00 0.00 0.00 3.18
734 960 3.149196 TCTTTGCCTCTTGTGATTGTCC 58.851 45.455 0.00 0.00 0.00 4.02
735 961 2.655090 TTGCCTCTTGTGATTGTCCA 57.345 45.000 0.00 0.00 0.00 4.02
736 962 2.885135 TGCCTCTTGTGATTGTCCAT 57.115 45.000 0.00 0.00 0.00 3.41
737 963 3.159213 TGCCTCTTGTGATTGTCCATT 57.841 42.857 0.00 0.00 0.00 3.16
738 964 3.084039 TGCCTCTTGTGATTGTCCATTC 58.916 45.455 0.00 0.00 0.00 2.67
739 965 2.424956 GCCTCTTGTGATTGTCCATTCC 59.575 50.000 0.00 0.00 0.00 3.01
740 966 3.019564 CCTCTTGTGATTGTCCATTCCC 58.980 50.000 0.00 0.00 0.00 3.97
741 967 3.308688 CCTCTTGTGATTGTCCATTCCCT 60.309 47.826 0.00 0.00 0.00 4.20
742 968 3.689347 TCTTGTGATTGTCCATTCCCTG 58.311 45.455 0.00 0.00 0.00 4.45
743 969 3.330405 TCTTGTGATTGTCCATTCCCTGA 59.670 43.478 0.00 0.00 0.00 3.86
744 970 3.805066 TGTGATTGTCCATTCCCTGAA 57.195 42.857 0.00 0.00 0.00 3.02
745 971 4.111255 TGTGATTGTCCATTCCCTGAAA 57.889 40.909 0.00 0.00 0.00 2.69
746 972 4.478203 TGTGATTGTCCATTCCCTGAAAA 58.522 39.130 0.00 0.00 0.00 2.29
747 973 4.898265 TGTGATTGTCCATTCCCTGAAAAA 59.102 37.500 0.00 0.00 0.00 1.94
748 974 5.543405 TGTGATTGTCCATTCCCTGAAAAAT 59.457 36.000 0.00 0.00 0.00 1.82
749 975 6.723515 TGTGATTGTCCATTCCCTGAAAAATA 59.276 34.615 0.00 0.00 0.00 1.40
750 976 7.035612 GTGATTGTCCATTCCCTGAAAAATAC 58.964 38.462 0.00 0.00 0.00 1.89
751 977 6.953520 TGATTGTCCATTCCCTGAAAAATACT 59.046 34.615 0.00 0.00 0.00 2.12
752 978 8.112822 TGATTGTCCATTCCCTGAAAAATACTA 58.887 33.333 0.00 0.00 0.00 1.82
753 979 7.938140 TTGTCCATTCCCTGAAAAATACTAG 57.062 36.000 0.00 0.00 0.00 2.57
754 980 7.265599 TGTCCATTCCCTGAAAAATACTAGA 57.734 36.000 0.00 0.00 0.00 2.43
755 981 7.338710 TGTCCATTCCCTGAAAAATACTAGAG 58.661 38.462 0.00 0.00 0.00 2.43
756 982 6.768381 GTCCATTCCCTGAAAAATACTAGAGG 59.232 42.308 0.00 0.00 0.00 3.69
757 983 6.447084 TCCATTCCCTGAAAAATACTAGAGGT 59.553 38.462 0.00 0.00 0.00 3.85
758 984 7.626084 TCCATTCCCTGAAAAATACTAGAGGTA 59.374 37.037 0.00 0.00 34.62 3.08
759 985 8.272173 CCATTCCCTGAAAAATACTAGAGGTAA 58.728 37.037 0.00 0.00 33.74 2.85
760 986 9.681062 CATTCCCTGAAAAATACTAGAGGTAAA 57.319 33.333 0.00 0.00 33.74 2.01
804 1030 3.386402 TGATTGTCCAACCCCTGAAAAAC 59.614 43.478 0.00 0.00 0.00 2.43
867 1093 3.007940 TGTGTGGATAGGAAGACCAAGTG 59.992 47.826 0.00 0.00 38.94 3.16
973 1245 2.047179 GAAGCACCCGACCTGACC 60.047 66.667 0.00 0.00 0.00 4.02
1019 1291 2.105528 GCCCATCGCAATGCCTTG 59.894 61.111 0.00 0.00 37.47 3.61
1118 1390 1.072173 CACCATCGAGGCCATCCAATA 59.928 52.381 5.01 0.00 43.14 1.90
1175 1447 3.414700 CGTCCTGCTCGCCAACAC 61.415 66.667 0.00 0.00 0.00 3.32
1282 1554 2.894257 AATGCCAGGCTCACCACGA 61.894 57.895 14.15 0.00 39.06 4.35
1306 1578 4.759205 ACCCCGCCAAATGCCTCC 62.759 66.667 0.00 0.00 36.24 4.30
1307 1579 4.757355 CCCCGCCAAATGCCTCCA 62.757 66.667 0.00 0.00 36.24 3.86
1582 1854 2.498885 ACGGAGTACCTCGCCTAATTTT 59.501 45.455 5.52 0.00 41.94 1.82
1583 1855 3.701040 ACGGAGTACCTCGCCTAATTTTA 59.299 43.478 5.52 0.00 41.94 1.52
1584 1856 4.343239 ACGGAGTACCTCGCCTAATTTTAT 59.657 41.667 5.52 0.00 41.94 1.40
1585 1857 5.163374 ACGGAGTACCTCGCCTAATTTTATT 60.163 40.000 5.52 0.00 41.94 1.40
1586 1858 5.756833 CGGAGTACCTCGCCTAATTTTATTT 59.243 40.000 0.00 0.00 33.77 1.40
1587 1859 6.259387 CGGAGTACCTCGCCTAATTTTATTTT 59.741 38.462 0.00 0.00 33.77 1.82
1588 1860 7.415229 GGAGTACCTCGCCTAATTTTATTTTG 58.585 38.462 0.00 0.00 33.15 2.44
1589 1861 7.066645 GGAGTACCTCGCCTAATTTTATTTTGT 59.933 37.037 0.00 0.00 33.15 2.83
1590 1862 8.344446 AGTACCTCGCCTAATTTTATTTTGTT 57.656 30.769 0.00 0.00 0.00 2.83
1591 1863 8.799367 AGTACCTCGCCTAATTTTATTTTGTTT 58.201 29.630 0.00 0.00 0.00 2.83
1592 1864 7.883229 ACCTCGCCTAATTTTATTTTGTTTG 57.117 32.000 0.00 0.00 0.00 2.93
1593 1865 7.438564 ACCTCGCCTAATTTTATTTTGTTTGT 58.561 30.769 0.00 0.00 0.00 2.83
1594 1866 7.929245 ACCTCGCCTAATTTTATTTTGTTTGTT 59.071 29.630 0.00 0.00 0.00 2.83
1595 1867 8.432359 CCTCGCCTAATTTTATTTTGTTTGTTC 58.568 33.333 0.00 0.00 0.00 3.18
1596 1868 9.191995 CTCGCCTAATTTTATTTTGTTTGTTCT 57.808 29.630 0.00 0.00 0.00 3.01
1597 1869 9.535878 TCGCCTAATTTTATTTTGTTTGTTCTT 57.464 25.926 0.00 0.00 0.00 2.52
1598 1870 9.791838 CGCCTAATTTTATTTTGTTTGTTCTTC 57.208 29.630 0.00 0.00 0.00 2.87
1609 1881 8.532977 TTTTGTTTGTTCTTCTCCTTTTTCTG 57.467 30.769 0.00 0.00 0.00 3.02
1610 1882 6.834168 TGTTTGTTCTTCTCCTTTTTCTGT 57.166 33.333 0.00 0.00 0.00 3.41
1611 1883 6.620678 TGTTTGTTCTTCTCCTTTTTCTGTG 58.379 36.000 0.00 0.00 0.00 3.66
1612 1884 5.835113 TTGTTCTTCTCCTTTTTCTGTGG 57.165 39.130 0.00 0.00 0.00 4.17
1613 1885 4.207165 TGTTCTTCTCCTTTTTCTGTGGG 58.793 43.478 0.00 0.00 0.00 4.61
1614 1886 4.207955 GTTCTTCTCCTTTTTCTGTGGGT 58.792 43.478 0.00 0.00 0.00 4.51
1615 1887 4.519906 TCTTCTCCTTTTTCTGTGGGTT 57.480 40.909 0.00 0.00 0.00 4.11
1616 1888 5.640158 TCTTCTCCTTTTTCTGTGGGTTA 57.360 39.130 0.00 0.00 0.00 2.85
1681 1953 2.113860 GCACAGGCTTCTGGATTACA 57.886 50.000 0.00 0.00 42.60 2.41
1692 1971 5.749596 TTCTGGATTACAATGCATTACCG 57.250 39.130 12.53 2.40 36.14 4.02
1706 1985 8.769891 CAATGCATTACCGTGATGTACTTATTA 58.230 33.333 12.53 0.00 0.00 0.98
1754 2034 8.781067 TTAATAAATAATTGTGTGCATCGCTC 57.219 30.769 0.00 0.00 0.00 5.03
1766 2046 3.837908 ATCGCTCGATGCAGAGGCG 62.838 63.158 16.23 16.23 45.35 5.52
1769 2049 3.842923 CTCGATGCAGAGGCGGGT 61.843 66.667 0.00 0.00 45.35 5.28
1770 2050 2.441348 TCGATGCAGAGGCGGGTA 60.441 61.111 0.00 0.00 45.35 3.69
1771 2051 2.016393 CTCGATGCAGAGGCGGGTAA 62.016 60.000 0.00 0.00 45.35 2.85
1772 2052 1.069765 CGATGCAGAGGCGGGTAAT 59.930 57.895 0.00 0.00 45.35 1.89
1773 2053 0.946221 CGATGCAGAGGCGGGTAATC 60.946 60.000 0.00 0.00 45.35 1.75
1774 2054 0.603975 GATGCAGAGGCGGGTAATCC 60.604 60.000 0.00 0.00 45.35 3.01
1801 2081 3.790089 TCAAGAAAAGAACTCCCTCCC 57.210 47.619 0.00 0.00 0.00 4.30
1802 2082 3.327439 TCAAGAAAAGAACTCCCTCCCT 58.673 45.455 0.00 0.00 0.00 4.20
1803 2083 3.722101 TCAAGAAAAGAACTCCCTCCCTT 59.278 43.478 0.00 0.00 0.00 3.95
1804 2084 4.075682 CAAGAAAAGAACTCCCTCCCTTC 58.924 47.826 0.00 0.00 0.00 3.46
1805 2085 3.327439 AGAAAAGAACTCCCTCCCTTCA 58.673 45.455 0.00 0.00 0.00 3.02
1806 2086 3.919554 AGAAAAGAACTCCCTCCCTTCAT 59.080 43.478 0.00 0.00 0.00 2.57
1807 2087 5.101529 AGAAAAGAACTCCCTCCCTTCATA 58.898 41.667 0.00 0.00 0.00 2.15
1808 2088 5.551977 AGAAAAGAACTCCCTCCCTTCATAA 59.448 40.000 0.00 0.00 0.00 1.90
1809 2089 5.860648 AAAGAACTCCCTCCCTTCATAAA 57.139 39.130 0.00 0.00 0.00 1.40
1810 2090 6.408770 AAAGAACTCCCTCCCTTCATAAAT 57.591 37.500 0.00 0.00 0.00 1.40
1811 2091 7.525158 AAAGAACTCCCTCCCTTCATAAATA 57.475 36.000 0.00 0.00 0.00 1.40
1812 2092 7.713704 AAGAACTCCCTCCCTTCATAAATAT 57.286 36.000 0.00 0.00 0.00 1.28
1813 2093 8.814448 AAGAACTCCCTCCCTTCATAAATATA 57.186 34.615 0.00 0.00 0.00 0.86
1814 2094 8.814448 AGAACTCCCTCCCTTCATAAATATAA 57.186 34.615 0.00 0.00 0.00 0.98
1815 2095 9.237706 AGAACTCCCTCCCTTCATAAATATAAA 57.762 33.333 0.00 0.00 0.00 1.40
1816 2096 9.508642 GAACTCCCTCCCTTCATAAATATAAAG 57.491 37.037 0.00 0.00 0.00 1.85
1817 2097 8.814448 ACTCCCTCCCTTCATAAATATAAAGA 57.186 34.615 0.00 0.00 0.00 2.52
1818 2098 9.411848 ACTCCCTCCCTTCATAAATATAAAGAT 57.588 33.333 0.00 0.00 0.00 2.40
1819 2099 9.678260 CTCCCTCCCTTCATAAATATAAAGATG 57.322 37.037 0.00 0.00 0.00 2.90
1820 2100 9.182642 TCCCTCCCTTCATAAATATAAAGATGT 57.817 33.333 0.00 0.00 0.00 3.06
1821 2101 9.813826 CCCTCCCTTCATAAATATAAAGATGTT 57.186 33.333 0.00 0.00 0.00 2.71
1838 2118 8.870160 AAAGATGTTCGAATGTTTTGAATCAA 57.130 26.923 0.00 0.00 35.61 2.57
1839 2119 8.870160 AAGATGTTCGAATGTTTTGAATCAAA 57.130 26.923 4.03 4.03 35.61 2.69
1840 2120 9.480053 AAGATGTTCGAATGTTTTGAATCAAAT 57.520 25.926 9.41 0.00 35.61 2.32
1841 2121 8.918658 AGATGTTCGAATGTTTTGAATCAAATG 58.081 29.630 9.41 0.00 35.61 2.32
1842 2122 8.592105 ATGTTCGAATGTTTTGAATCAAATGT 57.408 26.923 9.41 0.00 35.61 2.71
1843 2123 9.689976 ATGTTCGAATGTTTTGAATCAAATGTA 57.310 25.926 9.41 0.00 35.61 2.29
1844 2124 9.689976 TGTTCGAATGTTTTGAATCAAATGTAT 57.310 25.926 9.41 2.25 35.61 2.29
1856 2136 9.929722 TTGAATCAAATGTATATAAACACGCTC 57.070 29.630 0.00 0.00 30.75 5.03
1857 2137 9.325198 TGAATCAAATGTATATAAACACGCTCT 57.675 29.630 0.00 0.00 30.75 4.09
1864 2144 7.940178 TGTATATAAACACGCTCTATTGTGG 57.060 36.000 0.00 0.00 40.39 4.17
1865 2145 7.494211 TGTATATAAACACGCTCTATTGTGGT 58.506 34.615 0.00 0.00 40.39 4.16
1866 2146 6.844696 ATATAAACACGCTCTATTGTGGTG 57.155 37.500 0.00 0.00 40.39 4.17
1867 2147 1.808411 AACACGCTCTATTGTGGTGG 58.192 50.000 0.00 0.00 40.39 4.61
1868 2148 0.685097 ACACGCTCTATTGTGGTGGT 59.315 50.000 0.00 0.00 40.39 4.16
1869 2149 1.337823 ACACGCTCTATTGTGGTGGTC 60.338 52.381 0.00 0.00 40.39 4.02
1870 2150 0.108804 ACGCTCTATTGTGGTGGTCG 60.109 55.000 0.00 0.00 0.00 4.79
1871 2151 0.172578 CGCTCTATTGTGGTGGTCGA 59.827 55.000 0.00 0.00 0.00 4.20
1872 2152 1.641577 GCTCTATTGTGGTGGTCGAC 58.358 55.000 7.13 7.13 0.00 4.20
1873 2153 1.204941 GCTCTATTGTGGTGGTCGACT 59.795 52.381 16.46 0.00 0.00 4.18
1874 2154 2.735762 GCTCTATTGTGGTGGTCGACTC 60.736 54.545 16.46 8.99 0.00 3.36
1875 2155 2.492088 CTCTATTGTGGTGGTCGACTCA 59.508 50.000 16.46 9.06 0.00 3.41
1876 2156 3.096852 TCTATTGTGGTGGTCGACTCAT 58.903 45.455 16.46 2.09 0.00 2.90
1877 2157 2.859165 ATTGTGGTGGTCGACTCATT 57.141 45.000 16.46 2.10 0.00 2.57
1878 2158 2.631160 TTGTGGTGGTCGACTCATTT 57.369 45.000 16.46 0.00 0.00 2.32
1879 2159 2.163818 TGTGGTGGTCGACTCATTTC 57.836 50.000 16.46 0.00 0.00 2.17
1880 2160 1.414550 TGTGGTGGTCGACTCATTTCA 59.585 47.619 16.46 0.12 0.00 2.69
1881 2161 2.069273 GTGGTGGTCGACTCATTTCAG 58.931 52.381 16.46 0.00 0.00 3.02
1882 2162 1.691976 TGGTGGTCGACTCATTTCAGT 59.308 47.619 16.46 0.00 0.00 3.41
1883 2163 2.104111 TGGTGGTCGACTCATTTCAGTT 59.896 45.455 16.46 0.00 0.00 3.16
1884 2164 2.737252 GGTGGTCGACTCATTTCAGTTC 59.263 50.000 16.46 0.00 0.00 3.01
1885 2165 3.390135 GTGGTCGACTCATTTCAGTTCA 58.610 45.455 16.46 0.00 0.00 3.18
1886 2166 3.997021 GTGGTCGACTCATTTCAGTTCAT 59.003 43.478 16.46 0.00 0.00 2.57
1887 2167 5.168569 GTGGTCGACTCATTTCAGTTCATA 58.831 41.667 16.46 0.00 0.00 2.15
1888 2168 5.812642 GTGGTCGACTCATTTCAGTTCATAT 59.187 40.000 16.46 0.00 0.00 1.78
1889 2169 5.812127 TGGTCGACTCATTTCAGTTCATATG 59.188 40.000 16.46 0.00 0.00 1.78
1890 2170 5.812642 GGTCGACTCATTTCAGTTCATATGT 59.187 40.000 16.46 0.00 0.00 2.29
1891 2171 6.978659 GGTCGACTCATTTCAGTTCATATGTA 59.021 38.462 16.46 0.00 0.00 2.29
1892 2172 7.491372 GGTCGACTCATTTCAGTTCATATGTAA 59.509 37.037 16.46 0.00 0.00 2.41
1893 2173 9.035607 GTCGACTCATTTCAGTTCATATGTAAT 57.964 33.333 8.70 0.00 0.00 1.89
1894 2174 9.599866 TCGACTCATTTCAGTTCATATGTAATT 57.400 29.630 1.90 0.00 0.00 1.40
1932 2212 8.610248 TCCAAATCGTCTTATTTGTTAACAGA 57.390 30.769 8.56 4.67 42.68 3.41
1933 2213 8.717821 TCCAAATCGTCTTATTTGTTAACAGAG 58.282 33.333 8.56 6.27 42.68 3.35
1934 2214 7.962918 CCAAATCGTCTTATTTGTTAACAGAGG 59.037 37.037 8.56 8.05 42.68 3.69
1935 2215 8.717821 CAAATCGTCTTATTTGTTAACAGAGGA 58.282 33.333 15.28 15.28 40.44 3.71
1936 2216 9.449719 AAATCGTCTTATTTGTTAACAGAGGAT 57.550 29.630 17.46 17.46 32.95 3.24
1937 2217 7.827819 TCGTCTTATTTGTTAACAGAGGATG 57.172 36.000 8.56 9.54 0.00 3.51
1938 2218 7.383687 TCGTCTTATTTGTTAACAGAGGATGT 58.616 34.615 8.56 0.00 46.97 3.06
1939 2219 8.525316 TCGTCTTATTTGTTAACAGAGGATGTA 58.475 33.333 8.56 0.00 43.00 2.29
1940 2220 8.592998 CGTCTTATTTGTTAACAGAGGATGTAC 58.407 37.037 8.56 2.02 43.00 2.90
1941 2221 9.431887 GTCTTATTTGTTAACAGAGGATGTACA 57.568 33.333 8.56 0.00 43.00 2.90
1944 2224 6.494893 TTTGTTAACAGAGGATGTACATGC 57.505 37.500 18.81 18.81 43.00 4.06
1945 2225 4.513442 TGTTAACAGAGGATGTACATGCC 58.487 43.478 22.20 17.30 43.00 4.40
1946 2226 4.019771 TGTTAACAGAGGATGTACATGCCA 60.020 41.667 22.20 8.83 43.00 4.92
1947 2227 3.719268 AACAGAGGATGTACATGCCAA 57.281 42.857 22.20 0.00 43.00 4.52
1948 2228 3.272574 ACAGAGGATGTACATGCCAAG 57.727 47.619 22.20 14.53 41.60 3.61
1949 2229 2.840038 ACAGAGGATGTACATGCCAAGA 59.160 45.455 22.20 0.00 41.60 3.02
1950 2230 3.264193 ACAGAGGATGTACATGCCAAGAA 59.736 43.478 22.20 0.00 41.60 2.52
1951 2231 4.263462 ACAGAGGATGTACATGCCAAGAAA 60.263 41.667 22.20 0.00 41.60 2.52
1952 2232 4.885907 CAGAGGATGTACATGCCAAGAAAT 59.114 41.667 22.20 3.32 0.00 2.17
1953 2233 5.359009 CAGAGGATGTACATGCCAAGAAATT 59.641 40.000 22.20 2.58 0.00 1.82
1954 2234 6.543465 CAGAGGATGTACATGCCAAGAAATTA 59.457 38.462 22.20 0.00 0.00 1.40
1955 2235 7.067372 CAGAGGATGTACATGCCAAGAAATTAA 59.933 37.037 22.20 0.00 0.00 1.40
1956 2236 7.615365 AGAGGATGTACATGCCAAGAAATTAAA 59.385 33.333 22.20 0.00 0.00 1.52
1957 2237 8.133024 AGGATGTACATGCCAAGAAATTAAAA 57.867 30.769 22.20 0.00 0.00 1.52
1958 2238 8.253113 AGGATGTACATGCCAAGAAATTAAAAG 58.747 33.333 22.20 0.00 0.00 2.27
1959 2239 8.250332 GGATGTACATGCCAAGAAATTAAAAGA 58.750 33.333 14.43 0.00 0.00 2.52
1960 2240 9.294030 GATGTACATGCCAAGAAATTAAAAGAG 57.706 33.333 14.43 0.00 0.00 2.85
1961 2241 7.601856 TGTACATGCCAAGAAATTAAAAGAGG 58.398 34.615 0.00 0.00 0.00 3.69
1962 2242 6.916360 ACATGCCAAGAAATTAAAAGAGGA 57.084 33.333 0.00 0.00 0.00 3.71
1963 2243 7.301868 ACATGCCAAGAAATTAAAAGAGGAA 57.698 32.000 0.00 0.00 0.00 3.36
1964 2244 7.910584 ACATGCCAAGAAATTAAAAGAGGAAT 58.089 30.769 0.00 0.00 0.00 3.01
1965 2245 8.037166 ACATGCCAAGAAATTAAAAGAGGAATC 58.963 33.333 0.00 0.00 0.00 2.52
1966 2246 7.537596 TGCCAAGAAATTAAAAGAGGAATCA 57.462 32.000 0.00 0.00 0.00 2.57
1967 2247 7.961351 TGCCAAGAAATTAAAAGAGGAATCAA 58.039 30.769 0.00 0.00 0.00 2.57
1968 2248 8.090214 TGCCAAGAAATTAAAAGAGGAATCAAG 58.910 33.333 0.00 0.00 0.00 3.02
1969 2249 7.547019 GCCAAGAAATTAAAAGAGGAATCAAGG 59.453 37.037 0.00 0.00 0.00 3.61
1970 2250 8.588472 CCAAGAAATTAAAAGAGGAATCAAGGT 58.412 33.333 0.00 0.00 0.00 3.50
1971 2251 9.415544 CAAGAAATTAAAAGAGGAATCAAGGTG 57.584 33.333 0.00 0.00 0.00 4.00
1972 2252 8.127150 AGAAATTAAAAGAGGAATCAAGGTGG 57.873 34.615 0.00 0.00 0.00 4.61
1973 2253 7.950124 AGAAATTAAAAGAGGAATCAAGGTGGA 59.050 33.333 0.00 0.00 0.00 4.02
1974 2254 8.670521 AAATTAAAAGAGGAATCAAGGTGGAT 57.329 30.769 0.00 0.00 0.00 3.41
1975 2255 8.670521 AATTAAAAGAGGAATCAAGGTGGATT 57.329 30.769 0.00 0.00 40.10 3.01
1976 2256 8.670521 ATTAAAAGAGGAATCAAGGTGGATTT 57.329 30.769 0.00 0.00 37.61 2.17
1977 2257 8.491045 TTAAAAGAGGAATCAAGGTGGATTTT 57.509 30.769 0.00 0.00 37.61 1.82
1978 2258 7.379059 AAAAGAGGAATCAAGGTGGATTTTT 57.621 32.000 0.00 0.00 37.61 1.94
1979 2259 5.990120 AGAGGAATCAAGGTGGATTTTTG 57.010 39.130 0.00 0.00 37.61 2.44
1980 2260 5.397360 AGAGGAATCAAGGTGGATTTTTGT 58.603 37.500 0.00 0.00 37.61 2.83
1981 2261 5.840693 AGAGGAATCAAGGTGGATTTTTGTT 59.159 36.000 0.00 0.00 37.61 2.83
1982 2262 7.010160 AGAGGAATCAAGGTGGATTTTTGTTA 58.990 34.615 0.00 0.00 37.61 2.41
1983 2263 6.993079 AGGAATCAAGGTGGATTTTTGTTAC 58.007 36.000 0.00 0.00 37.61 2.50
1984 2264 6.014584 AGGAATCAAGGTGGATTTTTGTTACC 60.015 38.462 0.00 0.00 37.61 2.85
1985 2265 6.239458 GGAATCAAGGTGGATTTTTGTTACCA 60.239 38.462 0.00 0.00 37.61 3.25
1986 2266 5.782893 TCAAGGTGGATTTTTGTTACCAG 57.217 39.130 0.00 0.00 33.88 4.00
1987 2267 5.205056 TCAAGGTGGATTTTTGTTACCAGT 58.795 37.500 0.00 0.00 33.88 4.00
1988 2268 5.659079 TCAAGGTGGATTTTTGTTACCAGTT 59.341 36.000 0.00 0.00 33.88 3.16
1989 2269 5.529581 AGGTGGATTTTTGTTACCAGTTG 57.470 39.130 0.00 0.00 33.88 3.16
1990 2270 4.343814 AGGTGGATTTTTGTTACCAGTTGG 59.656 41.667 0.00 0.00 42.17 3.77
2048 2328 6.183360 CCAAAACAAACCTTGAATTTGTCAGG 60.183 38.462 3.76 3.47 46.88 3.86
2077 2359 5.181433 GGTAAATCAAACCCTGAACTCTCAC 59.819 44.000 0.00 0.00 37.67 3.51
2105 2387 0.606401 ATCAGCACACCAAACTCCCG 60.606 55.000 0.00 0.00 0.00 5.14
2207 2491 2.501128 GCGCACTGCTCTGGGATA 59.499 61.111 0.30 0.00 41.73 2.59
2286 2621 8.476657 TCGTATCCAATGTACATTTTTAACGA 57.523 30.769 26.18 26.18 32.72 3.85
2516 2857 5.528690 TCAAGCACATGCCAAGTATATTCTC 59.471 40.000 0.00 0.00 43.38 2.87
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
138 139 2.141517 CTCTTGTCAGCTGTCACCAAG 58.858 52.381 13.37 18.45 35.09 3.61
142 143 2.671596 GTCTCTCTTGTCAGCTGTCAC 58.328 52.381 13.37 5.87 0.00 3.67
325 326 1.278127 ACTGGTAAACCATCCCGTGAG 59.722 52.381 1.51 0.00 46.46 3.51
326 327 1.354101 ACTGGTAAACCATCCCGTGA 58.646 50.000 1.51 0.00 46.46 4.35
346 347 2.358957 CAAGAGGATGCGACCAAATGA 58.641 47.619 2.00 0.00 0.00 2.57
413 414 1.344458 GCACGATCAGCCAGATATCG 58.656 55.000 0.00 0.00 46.02 2.92
443 444 3.492011 CAGGCAAAGAAAACATGCAAGAC 59.508 43.478 0.00 0.00 41.80 3.01
463 464 2.226330 TCCGACAATCAAACCCAACAG 58.774 47.619 0.00 0.00 0.00 3.16
511 711 1.126113 GACACAAACCTATCACACGCG 59.874 52.381 3.53 3.53 0.00 6.01
512 712 1.126113 CGACACAAACCTATCACACGC 59.874 52.381 0.00 0.00 0.00 5.34
628 842 3.938963 ACGATCAACGCCAGATAACAAAT 59.061 39.130 0.00 0.00 46.94 2.32
630 844 2.967362 ACGATCAACGCCAGATAACAA 58.033 42.857 0.00 0.00 46.94 2.83
631 845 2.665649 ACGATCAACGCCAGATAACA 57.334 45.000 0.00 0.00 46.94 2.41
632 846 2.284417 GGAACGATCAACGCCAGATAAC 59.716 50.000 0.00 0.00 46.94 1.89
633 847 2.093921 TGGAACGATCAACGCCAGATAA 60.094 45.455 0.00 0.00 46.94 1.75
635 849 0.249120 TGGAACGATCAACGCCAGAT 59.751 50.000 0.00 0.00 46.94 2.90
664 890 3.759618 TCATGTGTGTACTGACCGTATGA 59.240 43.478 0.00 0.00 0.00 2.15
674 900 5.722021 TGTAGTCATGTCATGTGTGTACT 57.278 39.130 12.54 10.32 0.00 2.73
676 902 6.015434 ACTCTTGTAGTCATGTCATGTGTGTA 60.015 38.462 12.54 0.00 30.33 2.90
717 943 2.885135 ATGGACAATCACAAGAGGCA 57.115 45.000 0.00 0.00 0.00 4.75
718 944 2.424956 GGAATGGACAATCACAAGAGGC 59.575 50.000 0.00 0.00 0.00 4.70
719 945 3.019564 GGGAATGGACAATCACAAGAGG 58.980 50.000 0.00 0.00 0.00 3.69
720 946 3.693085 CAGGGAATGGACAATCACAAGAG 59.307 47.826 0.00 0.00 0.00 2.85
721 947 3.330405 TCAGGGAATGGACAATCACAAGA 59.670 43.478 0.00 0.00 0.00 3.02
722 948 3.689347 TCAGGGAATGGACAATCACAAG 58.311 45.455 0.00 0.00 0.00 3.16
723 949 3.805066 TCAGGGAATGGACAATCACAA 57.195 42.857 0.00 0.00 0.00 3.33
724 950 3.805066 TTCAGGGAATGGACAATCACA 57.195 42.857 0.00 0.00 0.00 3.58
725 951 5.467035 TTTTTCAGGGAATGGACAATCAC 57.533 39.130 0.00 0.00 0.00 3.06
726 952 6.953520 AGTATTTTTCAGGGAATGGACAATCA 59.046 34.615 0.00 0.00 0.00 2.57
727 953 7.410120 AGTATTTTTCAGGGAATGGACAATC 57.590 36.000 0.00 0.00 0.00 2.67
728 954 8.336235 TCTAGTATTTTTCAGGGAATGGACAAT 58.664 33.333 0.00 0.00 0.00 2.71
729 955 7.695055 TCTAGTATTTTTCAGGGAATGGACAA 58.305 34.615 0.00 0.00 0.00 3.18
730 956 7.265599 TCTAGTATTTTTCAGGGAATGGACA 57.734 36.000 0.00 0.00 0.00 4.02
731 957 6.768381 CCTCTAGTATTTTTCAGGGAATGGAC 59.232 42.308 0.00 0.00 0.00 4.02
732 958 6.447084 ACCTCTAGTATTTTTCAGGGAATGGA 59.553 38.462 0.00 0.00 0.00 3.41
733 959 6.663734 ACCTCTAGTATTTTTCAGGGAATGG 58.336 40.000 0.00 0.00 0.00 3.16
734 960 9.681062 TTTACCTCTAGTATTTTTCAGGGAATG 57.319 33.333 0.00 0.00 0.00 2.67
749 975 8.947115 GCAAAGAAACACATATTTACCTCTAGT 58.053 33.333 0.00 0.00 0.00 2.57
750 976 8.398665 GGCAAAGAAACACATATTTACCTCTAG 58.601 37.037 0.00 0.00 0.00 2.43
751 977 8.107095 AGGCAAAGAAACACATATTTACCTCTA 58.893 33.333 0.00 0.00 0.00 2.43
752 978 6.948309 AGGCAAAGAAACACATATTTACCTCT 59.052 34.615 0.00 0.00 0.00 3.69
753 979 7.121315 AGAGGCAAAGAAACACATATTTACCTC 59.879 37.037 7.43 7.43 42.08 3.85
754 980 6.948309 AGAGGCAAAGAAACACATATTTACCT 59.052 34.615 0.00 0.00 32.32 3.08
755 981 7.158099 AGAGGCAAAGAAACACATATTTACC 57.842 36.000 0.00 0.00 0.00 2.85
756 982 8.082242 ACAAGAGGCAAAGAAACACATATTTAC 58.918 33.333 0.00 0.00 0.00 2.01
757 983 8.081633 CACAAGAGGCAAAGAAACACATATTTA 58.918 33.333 0.00 0.00 0.00 1.40
758 984 6.925165 CACAAGAGGCAAAGAAACACATATTT 59.075 34.615 0.00 0.00 0.00 1.40
759 985 6.265196 TCACAAGAGGCAAAGAAACACATATT 59.735 34.615 0.00 0.00 0.00 1.28
760 986 5.769662 TCACAAGAGGCAAAGAAACACATAT 59.230 36.000 0.00 0.00 0.00 1.78
761 987 5.129634 TCACAAGAGGCAAAGAAACACATA 58.870 37.500 0.00 0.00 0.00 2.29
762 988 3.953612 TCACAAGAGGCAAAGAAACACAT 59.046 39.130 0.00 0.00 0.00 3.21
763 989 3.351740 TCACAAGAGGCAAAGAAACACA 58.648 40.909 0.00 0.00 0.00 3.72
764 990 4.574599 ATCACAAGAGGCAAAGAAACAC 57.425 40.909 0.00 0.00 0.00 3.32
765 991 4.402155 ACAATCACAAGAGGCAAAGAAACA 59.598 37.500 0.00 0.00 0.00 2.83
766 992 4.936891 ACAATCACAAGAGGCAAAGAAAC 58.063 39.130 0.00 0.00 0.00 2.78
767 993 4.037923 GGACAATCACAAGAGGCAAAGAAA 59.962 41.667 0.00 0.00 0.00 2.52
768 994 3.569701 GGACAATCACAAGAGGCAAAGAA 59.430 43.478 0.00 0.00 0.00 2.52
769 995 3.149196 GGACAATCACAAGAGGCAAAGA 58.851 45.455 0.00 0.00 0.00 2.52
770 996 2.886523 TGGACAATCACAAGAGGCAAAG 59.113 45.455 0.00 0.00 0.00 2.77
771 997 2.942804 TGGACAATCACAAGAGGCAAA 58.057 42.857 0.00 0.00 0.00 3.68
772 998 2.622942 GTTGGACAATCACAAGAGGCAA 59.377 45.455 0.00 0.00 0.00 4.52
804 1030 0.100146 GTTCCGCCGTACCTCTAGTG 59.900 60.000 0.00 0.00 0.00 2.74
867 1093 5.576447 AATTAATTGGTGGTCACGAATCC 57.424 39.130 10.82 0.00 38.51 3.01
973 1245 0.445436 GGTGTTTGATGAGCGAGCTG 59.555 55.000 0.84 0.00 0.00 4.24
1118 1390 3.540617 TGTATTGTCTTGGCGCATGTAT 58.459 40.909 10.83 0.00 0.00 2.29
1306 1578 1.148310 AGGTCGTCGATGCAGTTTTG 58.852 50.000 0.00 0.00 0.00 2.44
1307 1579 1.798813 GAAGGTCGTCGATGCAGTTTT 59.201 47.619 0.00 0.00 0.00 2.43
1583 1855 9.154847 CAGAAAAAGGAGAAGAACAAACAAAAT 57.845 29.630 0.00 0.00 0.00 1.82
1584 1856 8.147704 ACAGAAAAAGGAGAAGAACAAACAAAA 58.852 29.630 0.00 0.00 0.00 2.44
1585 1857 7.598493 CACAGAAAAAGGAGAAGAACAAACAAA 59.402 33.333 0.00 0.00 0.00 2.83
1586 1858 7.090173 CACAGAAAAAGGAGAAGAACAAACAA 58.910 34.615 0.00 0.00 0.00 2.83
1587 1859 6.350110 CCACAGAAAAAGGAGAAGAACAAACA 60.350 38.462 0.00 0.00 0.00 2.83
1588 1860 6.036470 CCACAGAAAAAGGAGAAGAACAAAC 58.964 40.000 0.00 0.00 0.00 2.93
1589 1861 5.127031 CCCACAGAAAAAGGAGAAGAACAAA 59.873 40.000 0.00 0.00 0.00 2.83
1590 1862 4.644685 CCCACAGAAAAAGGAGAAGAACAA 59.355 41.667 0.00 0.00 0.00 2.83
1591 1863 4.207165 CCCACAGAAAAAGGAGAAGAACA 58.793 43.478 0.00 0.00 0.00 3.18
1592 1864 4.207955 ACCCACAGAAAAAGGAGAAGAAC 58.792 43.478 0.00 0.00 0.00 3.01
1593 1865 4.519906 ACCCACAGAAAAAGGAGAAGAA 57.480 40.909 0.00 0.00 0.00 2.52
1594 1866 4.519906 AACCCACAGAAAAAGGAGAAGA 57.480 40.909 0.00 0.00 0.00 2.87
1595 1867 6.901081 AATAACCCACAGAAAAAGGAGAAG 57.099 37.500 0.00 0.00 0.00 2.85
1596 1868 8.950007 AATAATAACCCACAGAAAAAGGAGAA 57.050 30.769 0.00 0.00 0.00 2.87
1597 1869 8.950007 AAATAATAACCCACAGAAAAAGGAGA 57.050 30.769 0.00 0.00 0.00 3.71
1598 1870 9.423061 CAAAATAATAACCCACAGAAAAAGGAG 57.577 33.333 0.00 0.00 0.00 3.69
1599 1871 8.929487 ACAAAATAATAACCCACAGAAAAAGGA 58.071 29.630 0.00 0.00 0.00 3.36
1600 1872 9.554395 AACAAAATAATAACCCACAGAAAAAGG 57.446 29.630 0.00 0.00 0.00 3.11
1605 1877 9.974980 GAAGAAACAAAATAATAACCCACAGAA 57.025 29.630 0.00 0.00 0.00 3.02
1606 1878 9.362151 AGAAGAAACAAAATAATAACCCACAGA 57.638 29.630 0.00 0.00 0.00 3.41
1607 1879 9.981114 AAGAAGAAACAAAATAATAACCCACAG 57.019 29.630 0.00 0.00 0.00 3.66
1608 1880 9.974980 GAAGAAGAAACAAAATAATAACCCACA 57.025 29.630 0.00 0.00 0.00 4.17
1609 1881 9.974980 TGAAGAAGAAACAAAATAATAACCCAC 57.025 29.630 0.00 0.00 0.00 4.61
1616 1888 9.492973 CCACCAATGAAGAAGAAACAAAATAAT 57.507 29.630 0.00 0.00 0.00 1.28
1679 1951 4.513442 AGTACATCACGGTAATGCATTGT 58.487 39.130 22.27 11.53 0.00 2.71
1680 1952 5.484173 AAGTACATCACGGTAATGCATTG 57.516 39.130 22.27 7.93 0.00 2.82
1681 1953 7.801716 AATAAGTACATCACGGTAATGCATT 57.198 32.000 17.56 17.56 0.00 3.56
1734 2014 3.373748 TCGAGCGATGCACACAATTATTT 59.626 39.130 0.00 0.00 0.00 1.40
1736 2016 2.549926 TCGAGCGATGCACACAATTAT 58.450 42.857 0.00 0.00 0.00 1.28
1738 2018 1.063027 CATCGAGCGATGCACACAATT 59.937 47.619 18.40 0.00 44.27 2.32
1739 2019 0.654160 CATCGAGCGATGCACACAAT 59.346 50.000 18.40 0.00 44.27 2.71
1754 2034 0.946221 GATTACCCGCCTCTGCATCG 60.946 60.000 0.00 0.00 37.32 3.84
1769 2049 7.073208 AGTTCTTTTCTTGAAAAGGGGGATTA 58.927 34.615 25.97 10.07 46.24 1.75
1770 2050 5.905331 AGTTCTTTTCTTGAAAAGGGGGATT 59.095 36.000 25.97 11.09 46.24 3.01
1771 2051 5.467738 AGTTCTTTTCTTGAAAAGGGGGAT 58.532 37.500 25.97 12.02 46.24 3.85
1772 2052 4.878968 AGTTCTTTTCTTGAAAAGGGGGA 58.121 39.130 25.97 11.62 46.24 4.81
1773 2053 4.039245 GGAGTTCTTTTCTTGAAAAGGGGG 59.961 45.833 25.97 9.93 46.24 5.40
1774 2054 4.039245 GGGAGTTCTTTTCTTGAAAAGGGG 59.961 45.833 25.97 10.20 46.24 4.79
1775 2055 4.895889 AGGGAGTTCTTTTCTTGAAAAGGG 59.104 41.667 25.97 10.75 46.24 3.95
1776 2056 5.010112 GGAGGGAGTTCTTTTCTTGAAAAGG 59.990 44.000 25.97 13.74 46.24 3.11
1778 2058 4.893524 GGGAGGGAGTTCTTTTCTTGAAAA 59.106 41.667 8.07 8.07 0.00 2.29
1779 2059 4.168088 AGGGAGGGAGTTCTTTTCTTGAAA 59.832 41.667 0.00 0.00 0.00 2.69
1780 2060 3.722101 AGGGAGGGAGTTCTTTTCTTGAA 59.278 43.478 0.00 0.00 0.00 2.69
1781 2061 3.327439 AGGGAGGGAGTTCTTTTCTTGA 58.673 45.455 0.00 0.00 0.00 3.02
1782 2062 3.797559 AGGGAGGGAGTTCTTTTCTTG 57.202 47.619 0.00 0.00 0.00 3.02
1783 2063 3.722101 TGAAGGGAGGGAGTTCTTTTCTT 59.278 43.478 0.00 0.00 0.00 2.52
1784 2064 3.327439 TGAAGGGAGGGAGTTCTTTTCT 58.673 45.455 0.00 0.00 0.00 2.52
1785 2065 3.790089 TGAAGGGAGGGAGTTCTTTTC 57.210 47.619 0.00 0.00 0.00 2.29
1786 2066 5.860648 TTATGAAGGGAGGGAGTTCTTTT 57.139 39.130 0.00 0.00 0.00 2.27
1787 2067 5.860648 TTTATGAAGGGAGGGAGTTCTTT 57.139 39.130 0.00 0.00 0.00 2.52
1788 2068 7.713704 ATATTTATGAAGGGAGGGAGTTCTT 57.286 36.000 0.00 0.00 0.00 2.52
1789 2069 8.814448 TTATATTTATGAAGGGAGGGAGTTCT 57.186 34.615 0.00 0.00 0.00 3.01
1790 2070 9.508642 CTTTATATTTATGAAGGGAGGGAGTTC 57.491 37.037 0.00 0.00 0.00 3.01
1791 2071 9.237706 TCTTTATATTTATGAAGGGAGGGAGTT 57.762 33.333 3.21 0.00 32.15 3.01
1792 2072 8.814448 TCTTTATATTTATGAAGGGAGGGAGT 57.186 34.615 3.21 0.00 32.15 3.85
1793 2073 9.678260 CATCTTTATATTTATGAAGGGAGGGAG 57.322 37.037 3.21 0.00 32.15 4.30
1794 2074 9.182642 ACATCTTTATATTTATGAAGGGAGGGA 57.817 33.333 3.21 0.00 32.15 4.20
1795 2075 9.813826 AACATCTTTATATTTATGAAGGGAGGG 57.186 33.333 3.21 0.00 32.15 4.30
1812 2092 9.958234 TTGATTCAAAACATTCGAACATCTTTA 57.042 25.926 0.00 0.00 0.00 1.85
1813 2093 8.870160 TTGATTCAAAACATTCGAACATCTTT 57.130 26.923 0.00 0.00 0.00 2.52
1814 2094 8.870160 TTTGATTCAAAACATTCGAACATCTT 57.130 26.923 9.36 0.00 29.89 2.40
1815 2095 8.918658 CATTTGATTCAAAACATTCGAACATCT 58.081 29.630 15.34 0.00 36.90 2.90
1816 2096 8.702438 ACATTTGATTCAAAACATTCGAACATC 58.298 29.630 15.34 0.00 36.90 3.06
1817 2097 8.592105 ACATTTGATTCAAAACATTCGAACAT 57.408 26.923 15.34 0.00 36.90 2.71
1818 2098 9.689976 ATACATTTGATTCAAAACATTCGAACA 57.310 25.926 15.34 0.00 36.90 3.18
1830 2110 9.929722 GAGCGTGTTTATATACATTTGATTCAA 57.070 29.630 0.00 0.00 0.00 2.69
1831 2111 9.325198 AGAGCGTGTTTATATACATTTGATTCA 57.675 29.630 0.00 0.00 0.00 2.57
1838 2118 8.988934 CCACAATAGAGCGTGTTTATATACATT 58.011 33.333 0.00 0.00 0.00 2.71
1839 2119 8.148351 ACCACAATAGAGCGTGTTTATATACAT 58.852 33.333 0.00 0.00 0.00 2.29
1840 2120 7.436970 CACCACAATAGAGCGTGTTTATATACA 59.563 37.037 0.00 0.00 0.00 2.29
1841 2121 7.095774 CCACCACAATAGAGCGTGTTTATATAC 60.096 40.741 0.00 0.00 0.00 1.47
1842 2122 6.926826 CCACCACAATAGAGCGTGTTTATATA 59.073 38.462 0.00 0.00 0.00 0.86
1843 2123 5.758296 CCACCACAATAGAGCGTGTTTATAT 59.242 40.000 0.00 0.00 0.00 0.86
1844 2124 5.113383 CCACCACAATAGAGCGTGTTTATA 58.887 41.667 0.00 0.00 0.00 0.98
1845 2125 3.938963 CCACCACAATAGAGCGTGTTTAT 59.061 43.478 0.00 0.00 0.00 1.40
1846 2126 3.244284 ACCACCACAATAGAGCGTGTTTA 60.244 43.478 0.00 0.00 0.00 2.01
1847 2127 2.151202 CCACCACAATAGAGCGTGTTT 58.849 47.619 0.00 0.00 0.00 2.83
1848 2128 1.071699 ACCACCACAATAGAGCGTGTT 59.928 47.619 0.00 0.00 0.00 3.32
1849 2129 0.685097 ACCACCACAATAGAGCGTGT 59.315 50.000 0.00 0.00 0.00 4.49
1850 2130 1.359848 GACCACCACAATAGAGCGTG 58.640 55.000 0.00 0.00 0.00 5.34
1851 2131 0.108804 CGACCACCACAATAGAGCGT 60.109 55.000 0.00 0.00 0.00 5.07
1852 2132 0.172578 TCGACCACCACAATAGAGCG 59.827 55.000 0.00 0.00 0.00 5.03
1853 2133 1.204941 AGTCGACCACCACAATAGAGC 59.795 52.381 13.01 0.00 0.00 4.09
1854 2134 2.492088 TGAGTCGACCACCACAATAGAG 59.508 50.000 13.01 0.00 0.00 2.43
1855 2135 2.521126 TGAGTCGACCACCACAATAGA 58.479 47.619 13.01 0.00 0.00 1.98
1856 2136 3.526931 ATGAGTCGACCACCACAATAG 57.473 47.619 13.01 0.00 0.00 1.73
1857 2137 3.973206 AATGAGTCGACCACCACAATA 57.027 42.857 13.01 0.00 0.00 1.90
1858 2138 2.859165 AATGAGTCGACCACCACAAT 57.141 45.000 13.01 0.00 0.00 2.71
1859 2139 2.158885 TGAAATGAGTCGACCACCACAA 60.159 45.455 13.01 0.00 0.00 3.33
1860 2140 1.414550 TGAAATGAGTCGACCACCACA 59.585 47.619 13.01 5.75 0.00 4.17
1861 2141 2.069273 CTGAAATGAGTCGACCACCAC 58.931 52.381 13.01 5.78 0.00 4.16
1862 2142 1.691976 ACTGAAATGAGTCGACCACCA 59.308 47.619 13.01 8.64 0.00 4.17
1863 2143 2.457366 ACTGAAATGAGTCGACCACC 57.543 50.000 13.01 2.43 0.00 4.61
1864 2144 3.390135 TGAACTGAAATGAGTCGACCAC 58.610 45.455 13.01 7.68 0.00 4.16
1865 2145 3.744238 TGAACTGAAATGAGTCGACCA 57.256 42.857 13.01 10.56 0.00 4.02
1866 2146 5.812642 ACATATGAACTGAAATGAGTCGACC 59.187 40.000 13.01 4.42 0.00 4.79
1867 2147 6.893958 ACATATGAACTGAAATGAGTCGAC 57.106 37.500 10.38 7.70 0.00 4.20
1868 2148 9.599866 AATTACATATGAACTGAAATGAGTCGA 57.400 29.630 10.38 0.00 0.00 4.20
1906 2186 9.226606 TCTGTTAACAAATAAGACGATTTGGAT 57.773 29.630 10.03 9.49 46.61 3.41
1907 2187 8.610248 TCTGTTAACAAATAAGACGATTTGGA 57.390 30.769 10.03 0.00 46.61 3.53
1908 2188 7.962918 CCTCTGTTAACAAATAAGACGATTTGG 59.037 37.037 10.03 0.00 46.61 3.28
1910 2190 8.842358 TCCTCTGTTAACAAATAAGACGATTT 57.158 30.769 10.03 0.00 0.00 2.17
1911 2191 8.883731 CATCCTCTGTTAACAAATAAGACGATT 58.116 33.333 10.03 0.00 0.00 3.34
1912 2192 8.041323 ACATCCTCTGTTAACAAATAAGACGAT 58.959 33.333 10.03 5.37 32.90 3.73
1913 2193 7.383687 ACATCCTCTGTTAACAAATAAGACGA 58.616 34.615 10.03 3.36 32.90 4.20
1914 2194 7.596749 ACATCCTCTGTTAACAAATAAGACG 57.403 36.000 10.03 0.00 32.90 4.18
1915 2195 9.431887 TGTACATCCTCTGTTAACAAATAAGAC 57.568 33.333 10.03 2.65 39.39 3.01
1918 2198 8.673711 GCATGTACATCCTCTGTTAACAAATAA 58.326 33.333 10.03 0.00 39.39 1.40
1919 2199 7.282224 GGCATGTACATCCTCTGTTAACAAATA 59.718 37.037 10.03 0.00 39.39 1.40
1920 2200 6.095440 GGCATGTACATCCTCTGTTAACAAAT 59.905 38.462 10.03 0.00 39.39 2.32
1921 2201 5.414454 GGCATGTACATCCTCTGTTAACAAA 59.586 40.000 10.03 0.00 39.39 2.83
1922 2202 4.941263 GGCATGTACATCCTCTGTTAACAA 59.059 41.667 10.03 0.00 39.39 2.83
1923 2203 4.019771 TGGCATGTACATCCTCTGTTAACA 60.020 41.667 18.94 8.28 39.39 2.41
1924 2204 4.513442 TGGCATGTACATCCTCTGTTAAC 58.487 43.478 18.94 0.00 39.39 2.01
1925 2205 4.835284 TGGCATGTACATCCTCTGTTAA 57.165 40.909 18.94 2.03 39.39 2.01
1926 2206 4.469586 TCTTGGCATGTACATCCTCTGTTA 59.530 41.667 18.94 2.55 39.39 2.41
1927 2207 3.264193 TCTTGGCATGTACATCCTCTGTT 59.736 43.478 18.94 0.00 39.39 3.16
1928 2208 2.840038 TCTTGGCATGTACATCCTCTGT 59.160 45.455 18.94 0.00 42.13 3.41
1929 2209 3.548745 TCTTGGCATGTACATCCTCTG 57.451 47.619 18.94 7.29 0.00 3.35
1930 2210 4.574674 TTTCTTGGCATGTACATCCTCT 57.425 40.909 18.94 0.00 0.00 3.69
1931 2211 5.841957 AATTTCTTGGCATGTACATCCTC 57.158 39.130 18.94 8.52 0.00 3.71
1932 2212 7.716799 TTTAATTTCTTGGCATGTACATCCT 57.283 32.000 18.94 5.92 0.00 3.24
1933 2213 8.250332 TCTTTTAATTTCTTGGCATGTACATCC 58.750 33.333 5.07 10.89 0.00 3.51
1934 2214 9.294030 CTCTTTTAATTTCTTGGCATGTACATC 57.706 33.333 5.07 1.16 0.00 3.06
1935 2215 8.253113 CCTCTTTTAATTTCTTGGCATGTACAT 58.747 33.333 1.41 1.41 0.00 2.29
1936 2216 7.450014 TCCTCTTTTAATTTCTTGGCATGTACA 59.550 33.333 0.00 0.00 0.00 2.90
1937 2217 7.826690 TCCTCTTTTAATTTCTTGGCATGTAC 58.173 34.615 0.00 0.00 0.00 2.90
1938 2218 8.415950 TTCCTCTTTTAATTTCTTGGCATGTA 57.584 30.769 0.00 0.00 0.00 2.29
1939 2219 6.916360 TCCTCTTTTAATTTCTTGGCATGT 57.084 33.333 0.00 0.00 0.00 3.21
1940 2220 8.036575 TGATTCCTCTTTTAATTTCTTGGCATG 58.963 33.333 0.00 0.00 0.00 4.06
1941 2221 8.137745 TGATTCCTCTTTTAATTTCTTGGCAT 57.862 30.769 0.00 0.00 0.00 4.40
1942 2222 7.537596 TGATTCCTCTTTTAATTTCTTGGCA 57.462 32.000 0.00 0.00 0.00 4.92
1943 2223 7.547019 CCTTGATTCCTCTTTTAATTTCTTGGC 59.453 37.037 0.00 0.00 0.00 4.52
1944 2224 8.588472 ACCTTGATTCCTCTTTTAATTTCTTGG 58.412 33.333 0.00 0.00 0.00 3.61
1945 2225 9.415544 CACCTTGATTCCTCTTTTAATTTCTTG 57.584 33.333 0.00 0.00 0.00 3.02
1946 2226 8.588472 CCACCTTGATTCCTCTTTTAATTTCTT 58.412 33.333 0.00 0.00 0.00 2.52
1947 2227 7.950124 TCCACCTTGATTCCTCTTTTAATTTCT 59.050 33.333 0.00 0.00 0.00 2.52
1948 2228 8.122472 TCCACCTTGATTCCTCTTTTAATTTC 57.878 34.615 0.00 0.00 0.00 2.17
1949 2229 8.670521 ATCCACCTTGATTCCTCTTTTAATTT 57.329 30.769 0.00 0.00 0.00 1.82
1950 2230 8.670521 AATCCACCTTGATTCCTCTTTTAATT 57.329 30.769 0.00 0.00 28.88 1.40
1951 2231 8.670521 AAATCCACCTTGATTCCTCTTTTAAT 57.329 30.769 0.00 0.00 33.91 1.40
1952 2232 8.491045 AAAATCCACCTTGATTCCTCTTTTAA 57.509 30.769 0.00 0.00 33.91 1.52
1953 2233 8.367156 CAAAAATCCACCTTGATTCCTCTTTTA 58.633 33.333 0.00 0.00 33.91 1.52
1954 2234 7.147497 ACAAAAATCCACCTTGATTCCTCTTTT 60.147 33.333 0.00 0.00 33.91 2.27
1955 2235 6.327365 ACAAAAATCCACCTTGATTCCTCTTT 59.673 34.615 0.00 0.00 33.91 2.52
1956 2236 5.840693 ACAAAAATCCACCTTGATTCCTCTT 59.159 36.000 0.00 0.00 33.91 2.85
1957 2237 5.397360 ACAAAAATCCACCTTGATTCCTCT 58.603 37.500 0.00 0.00 33.91 3.69
1958 2238 5.728637 ACAAAAATCCACCTTGATTCCTC 57.271 39.130 0.00 0.00 33.91 3.71
1959 2239 6.014584 GGTAACAAAAATCCACCTTGATTCCT 60.015 38.462 0.00 0.00 33.91 3.36
1960 2240 6.163476 GGTAACAAAAATCCACCTTGATTCC 58.837 40.000 0.00 0.00 33.91 3.01
1989 2269 7.661847 CCTTATATTTATGACTTGGTCCTCACC 59.338 40.741 0.00 0.00 44.10 4.02
1990 2270 8.429641 TCCTTATATTTATGACTTGGTCCTCAC 58.570 37.037 0.00 0.00 0.00 3.51
1991 2271 8.561536 TCCTTATATTTATGACTTGGTCCTCA 57.438 34.615 0.00 0.00 0.00 3.86
1992 2272 9.847224 TTTCCTTATATTTATGACTTGGTCCTC 57.153 33.333 0.00 0.00 0.00 3.71
2048 2328 5.538813 AGTTCAGGGTTTGATTTACCTTTCC 59.461 40.000 0.00 0.00 35.27 3.13
2054 2336 5.998363 AGTGAGAGTTCAGGGTTTGATTTAC 59.002 40.000 0.00 0.00 35.27 2.01
2077 2359 1.271543 TGGTGTGCTGATTTCAGGGAG 60.272 52.381 9.49 0.00 43.94 4.30
2105 2387 7.049754 TCAAGGTTTAAAATAGACCGGGATAC 58.950 38.462 6.32 0.00 38.48 2.24
2391 2728 9.762933 AGTAAGAAAATGTAAACATGCATTTGT 57.237 25.926 0.00 0.00 42.39 2.83
2433 2770 5.748152 TGCAGCAGAGTTTGTTTGATTTTAC 59.252 36.000 0.00 0.00 0.00 2.01
2439 2776 2.034939 CCATGCAGCAGAGTTTGTTTGA 59.965 45.455 0.00 0.00 0.00 2.69
2496 2837 7.496529 TTAAGAGAATATACTTGGCATGTGC 57.503 36.000 15.57 0.00 41.14 4.57


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

AutoCloner maintained by Alex Coulton.