Multiple sequence alignment - TraesCS7D01G151700
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 | TraesCS7D01G151700 | chr7D | 100.000 | 2867 | 0 | 0 | 1 | 2867 | 100752279 | 100749413 | 0.000000e+00 | 5295 |
1 | TraesCS7D01G151700 | chr7D | 98.544 | 824 | 11 | 1 | 2044 | 2867 | 552297235 | 552296413 | 0.000000e+00 | 1454 |
2 | TraesCS7D01G151700 | chr7D | 86.970 | 660 | 59 | 13 | 93 | 733 | 269041140 | 269040489 | 0.000000e+00 | 717 |
3 | TraesCS7D01G151700 | chr7D | 89.151 | 212 | 21 | 2 | 1 | 210 | 195318024 | 195318235 | 2.190000e-66 | 263 |
4 | TraesCS7D01G151700 | chr7B | 92.322 | 1107 | 57 | 13 | 953 | 2037 | 56924020 | 56925120 | 0.000000e+00 | 1548 |
5 | TraesCS7D01G151700 | chr7B | 86.115 | 785 | 84 | 21 | 1 | 765 | 598418633 | 598419412 | 0.000000e+00 | 822 |
6 | TraesCS7D01G151700 | chr2D | 97.983 | 843 | 17 | 0 | 2025 | 2867 | 28935980 | 28935138 | 0.000000e+00 | 1463 |
7 | TraesCS7D01G151700 | chr2D | 98.313 | 830 | 12 | 1 | 2038 | 2867 | 313228971 | 313229798 | 0.000000e+00 | 1454 |
8 | TraesCS7D01G151700 | chr2D | 97.967 | 836 | 15 | 1 | 2034 | 2867 | 44732598 | 44731763 | 0.000000e+00 | 1448 |
9 | TraesCS7D01G151700 | chr6D | 98.434 | 830 | 12 | 1 | 2038 | 2867 | 2561898 | 2562726 | 0.000000e+00 | 1459 |
10 | TraesCS7D01G151700 | chr6D | 98.665 | 824 | 8 | 1 | 2044 | 2867 | 1944105 | 1943285 | 0.000000e+00 | 1458 |
11 | TraesCS7D01G151700 | chr6D | 98.199 | 833 | 13 | 1 | 2035 | 2867 | 20744955 | 20745785 | 0.000000e+00 | 1454 |
12 | TraesCS7D01G151700 | chr3D | 98.665 | 824 | 10 | 1 | 2044 | 2867 | 475645971 | 475646793 | 0.000000e+00 | 1459 |
13 | TraesCS7D01G151700 | chrUn | 98.665 | 824 | 8 | 1 | 2044 | 2867 | 114784210 | 114785030 | 0.000000e+00 | 1458 |
14 | TraesCS7D01G151700 | chr5D | 86.829 | 782 | 74 | 16 | 2 | 766 | 50812662 | 50813431 | 0.000000e+00 | 846 |
15 | TraesCS7D01G151700 | chr5D | 89.358 | 639 | 58 | 10 | 1 | 633 | 538976442 | 538975808 | 0.000000e+00 | 795 |
16 | TraesCS7D01G151700 | chr5D | 88.247 | 485 | 35 | 14 | 151 | 629 | 538998455 | 538997987 | 6.940000e-156 | 560 |
17 | TraesCS7D01G151700 | chr5D | 91.892 | 148 | 11 | 1 | 1 | 148 | 538999597 | 538999451 | 3.740000e-49 | 206 |
18 | TraesCS7D01G151700 | chr7A | 87.651 | 745 | 68 | 12 | 8 | 735 | 296562801 | 296562064 | 0.000000e+00 | 845 |
19 | TraesCS7D01G151700 | chr7A | 91.549 | 213 | 9 | 2 | 1699 | 1902 | 102749402 | 102749190 | 4.680000e-73 | 285 |
20 | TraesCS7D01G151700 | chr5B | 85.476 | 778 | 67 | 21 | 2 | 762 | 53699995 | 53700743 | 0.000000e+00 | 769 |
21 | TraesCS7D01G151700 | chr5B | 88.784 | 633 | 61 | 10 | 1 | 629 | 680494777 | 680494151 | 0.000000e+00 | 767 |
22 | TraesCS7D01G151700 | chr4A | 87.536 | 690 | 55 | 20 | 1 | 677 | 629527287 | 629527958 | 0.000000e+00 | 769 |
23 | TraesCS7D01G151700 | chr5A | 88.535 | 628 | 52 | 14 | 2 | 623 | 40136202 | 40136815 | 0.000000e+00 | 743 |
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 | TraesCS7D01G151700 | chr7D | 100749413 | 100752279 | 2866 | True | 5295 | 5295 | 100.0000 | 1 | 2867 | 1 | chr7D.!!$R1 | 2866 |
1 | TraesCS7D01G151700 | chr7D | 552296413 | 552297235 | 822 | True | 1454 | 1454 | 98.5440 | 2044 | 2867 | 1 | chr7D.!!$R3 | 823 |
2 | TraesCS7D01G151700 | chr7D | 269040489 | 269041140 | 651 | True | 717 | 717 | 86.9700 | 93 | 733 | 1 | chr7D.!!$R2 | 640 |
3 | TraesCS7D01G151700 | chr7B | 56924020 | 56925120 | 1100 | False | 1548 | 1548 | 92.3220 | 953 | 2037 | 1 | chr7B.!!$F1 | 1084 |
4 | TraesCS7D01G151700 | chr7B | 598418633 | 598419412 | 779 | False | 822 | 822 | 86.1150 | 1 | 765 | 1 | chr7B.!!$F2 | 764 |
5 | TraesCS7D01G151700 | chr2D | 28935138 | 28935980 | 842 | True | 1463 | 1463 | 97.9830 | 2025 | 2867 | 1 | chr2D.!!$R1 | 842 |
6 | TraesCS7D01G151700 | chr2D | 313228971 | 313229798 | 827 | False | 1454 | 1454 | 98.3130 | 2038 | 2867 | 1 | chr2D.!!$F1 | 829 |
7 | TraesCS7D01G151700 | chr2D | 44731763 | 44732598 | 835 | True | 1448 | 1448 | 97.9670 | 2034 | 2867 | 1 | chr2D.!!$R2 | 833 |
8 | TraesCS7D01G151700 | chr6D | 2561898 | 2562726 | 828 | False | 1459 | 1459 | 98.4340 | 2038 | 2867 | 1 | chr6D.!!$F1 | 829 |
9 | TraesCS7D01G151700 | chr6D | 1943285 | 1944105 | 820 | True | 1458 | 1458 | 98.6650 | 2044 | 2867 | 1 | chr6D.!!$R1 | 823 |
10 | TraesCS7D01G151700 | chr6D | 20744955 | 20745785 | 830 | False | 1454 | 1454 | 98.1990 | 2035 | 2867 | 1 | chr6D.!!$F2 | 832 |
11 | TraesCS7D01G151700 | chr3D | 475645971 | 475646793 | 822 | False | 1459 | 1459 | 98.6650 | 2044 | 2867 | 1 | chr3D.!!$F1 | 823 |
12 | TraesCS7D01G151700 | chrUn | 114784210 | 114785030 | 820 | False | 1458 | 1458 | 98.6650 | 2044 | 2867 | 1 | chrUn.!!$F1 | 823 |
13 | TraesCS7D01G151700 | chr5D | 50812662 | 50813431 | 769 | False | 846 | 846 | 86.8290 | 2 | 766 | 1 | chr5D.!!$F1 | 764 |
14 | TraesCS7D01G151700 | chr5D | 538975808 | 538976442 | 634 | True | 795 | 795 | 89.3580 | 1 | 633 | 1 | chr5D.!!$R1 | 632 |
15 | TraesCS7D01G151700 | chr5D | 538997987 | 538999597 | 1610 | True | 383 | 560 | 90.0695 | 1 | 629 | 2 | chr5D.!!$R2 | 628 |
16 | TraesCS7D01G151700 | chr7A | 296562064 | 296562801 | 737 | True | 845 | 845 | 87.6510 | 8 | 735 | 1 | chr7A.!!$R2 | 727 |
17 | TraesCS7D01G151700 | chr5B | 53699995 | 53700743 | 748 | False | 769 | 769 | 85.4760 | 2 | 762 | 1 | chr5B.!!$F1 | 760 |
18 | TraesCS7D01G151700 | chr5B | 680494151 | 680494777 | 626 | True | 767 | 767 | 88.7840 | 1 | 629 | 1 | chr5B.!!$R1 | 628 |
19 | TraesCS7D01G151700 | chr4A | 629527287 | 629527958 | 671 | False | 769 | 769 | 87.5360 | 1 | 677 | 1 | chr4A.!!$F1 | 676 |
20 | TraesCS7D01G151700 | chr5A | 40136202 | 40136815 | 613 | False | 743 | 743 | 88.5350 | 2 | 623 | 1 | chr5A.!!$F1 | 621 |
AutoCloner calculated primer pairsThese primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
868 | 1934 | 0.035056 | ACTAGCAACACCAGATGGCC | 60.035 | 55.0 | 0.00 | 0.00 | 39.32 | 5.36 | F |
869 | 1935 | 0.035152 | CTAGCAACACCAGATGGCCA | 60.035 | 55.0 | 8.56 | 8.56 | 39.32 | 5.36 | F |
870 | 1936 | 0.035152 | TAGCAACACCAGATGGCCAG | 60.035 | 55.0 | 13.05 | 0.00 | 39.32 | 4.85 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1824 | 2910 | 0.107993 | ACGATGATGGCACTCCTGTG | 60.108 | 55.000 | 0.0 | 0.0 | 46.37 | 3.66 | R |
1848 | 2934 | 1.308069 | ATCATGCGTCCACTGCAACC | 61.308 | 55.000 | 0.0 | 0.0 | 46.87 | 3.77 | R |
1910 | 2996 | 1.596203 | CGCAGGGACATGATCGCAT | 60.596 | 57.895 | 0.0 | 0.0 | 42.75 | 4.73 | R |
All possible primersListed 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. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
46 | 47 | 5.189659 | TGTTTTACACCAGTACAATTGCC | 57.810 | 39.130 | 5.05 | 0.00 | 0.00 | 4.52 |
100 | 101 | 4.637534 | GCATAAAAGAGCAGATCAAGTGGA | 59.362 | 41.667 | 0.00 | 0.00 | 0.00 | 4.02 |
225 | 1221 | 7.613585 | TCACCAATTGCTGATGAAAATGTTAT | 58.386 | 30.769 | 0.00 | 0.00 | 0.00 | 1.89 |
258 | 1254 | 6.097356 | TGTTGTAAGTCCACGATATGAAGTC | 58.903 | 40.000 | 0.00 | 0.00 | 0.00 | 3.01 |
324 | 1321 | 2.369394 | GCGACCCTGAAATGGAGAATT | 58.631 | 47.619 | 0.00 | 0.00 | 0.00 | 2.17 |
370 | 1367 | 6.414732 | TCGTCATCACCTAATCTCCAAAAAT | 58.585 | 36.000 | 0.00 | 0.00 | 0.00 | 1.82 |
388 | 1385 | 0.893727 | ATGTTTGGTGACGGAAGCCC | 60.894 | 55.000 | 0.00 | 0.00 | 0.00 | 5.19 |
425 | 1431 | 7.997773 | ACTAATCTTACTATGTGCGGAGATA | 57.002 | 36.000 | 0.00 | 0.00 | 0.00 | 1.98 |
685 | 1732 | 0.394625 | GGTAGAGAGAGTGCGGGAGT | 60.395 | 60.000 | 0.00 | 0.00 | 0.00 | 3.85 |
693 | 1740 | 1.228583 | AGTGCGGGAGTGAGAGACA | 60.229 | 57.895 | 0.00 | 0.00 | 0.00 | 3.41 |
696 | 1743 | 2.888863 | CGGGAGTGAGAGACAGGC | 59.111 | 66.667 | 0.00 | 0.00 | 0.00 | 4.85 |
745 | 1811 | 4.450082 | AATTAAAAGGTCCGTGGCAATC | 57.550 | 40.909 | 0.00 | 0.00 | 0.00 | 2.67 |
746 | 1812 | 1.444836 | TAAAAGGTCCGTGGCAATCG | 58.555 | 50.000 | 0.00 | 0.00 | 0.00 | 3.34 |
747 | 1813 | 1.862602 | AAAAGGTCCGTGGCAATCGC | 61.863 | 55.000 | 0.00 | 0.00 | 37.44 | 4.58 |
748 | 1814 | 3.545124 | AAGGTCCGTGGCAATCGCA | 62.545 | 57.895 | 0.00 | 0.00 | 41.24 | 5.10 |
749 | 1815 | 3.799755 | GGTCCGTGGCAATCGCAC | 61.800 | 66.667 | 0.00 | 0.00 | 41.24 | 5.34 |
765 | 1831 | 1.268437 | CGCACGGGCTTCTACTAGTAC | 60.268 | 57.143 | 8.62 | 0.00 | 38.10 | 2.73 |
766 | 1832 | 2.022934 | GCACGGGCTTCTACTAGTACT | 58.977 | 52.381 | 0.00 | 0.00 | 36.96 | 2.73 |
767 | 1833 | 3.209410 | GCACGGGCTTCTACTAGTACTA | 58.791 | 50.000 | 0.00 | 1.89 | 36.96 | 1.82 |
768 | 1834 | 3.003171 | GCACGGGCTTCTACTAGTACTAC | 59.997 | 52.174 | 0.00 | 0.00 | 36.96 | 2.73 |
769 | 1835 | 4.450053 | CACGGGCTTCTACTAGTACTACT | 58.550 | 47.826 | 0.00 | 0.00 | 0.00 | 2.57 |
770 | 1836 | 5.605534 | CACGGGCTTCTACTAGTACTACTA | 58.394 | 45.833 | 0.00 | 0.00 | 0.00 | 1.82 |
771 | 1837 | 6.051717 | CACGGGCTTCTACTAGTACTACTAA | 58.948 | 44.000 | 0.00 | 0.00 | 29.00 | 2.24 |
772 | 1838 | 6.202570 | CACGGGCTTCTACTAGTACTACTAAG | 59.797 | 46.154 | 0.00 | 2.15 | 29.00 | 2.18 |
773 | 1839 | 6.126911 | ACGGGCTTCTACTAGTACTACTAAGT | 60.127 | 42.308 | 0.00 | 0.00 | 39.91 | 2.24 |
774 | 1840 | 6.765512 | CGGGCTTCTACTAGTACTACTAAGTT | 59.234 | 42.308 | 0.00 | 0.00 | 37.15 | 2.66 |
775 | 1841 | 7.281999 | CGGGCTTCTACTAGTACTACTAAGTTT | 59.718 | 40.741 | 0.00 | 0.00 | 37.15 | 2.66 |
776 | 1842 | 8.965819 | GGGCTTCTACTAGTACTACTAAGTTTT | 58.034 | 37.037 | 0.00 | 0.00 | 37.15 | 2.43 |
808 | 1874 | 7.527084 | AAAAGAATCAGTCGATGTACTAAGC | 57.473 | 36.000 | 0.00 | 0.00 | 30.13 | 3.09 |
809 | 1875 | 5.836821 | AGAATCAGTCGATGTACTAAGCA | 57.163 | 39.130 | 0.00 | 0.00 | 30.13 | 3.91 |
810 | 1876 | 6.208988 | AGAATCAGTCGATGTACTAAGCAA | 57.791 | 37.500 | 0.00 | 0.00 | 30.13 | 3.91 |
811 | 1877 | 6.631016 | AGAATCAGTCGATGTACTAAGCAAA | 58.369 | 36.000 | 0.00 | 0.00 | 30.13 | 3.68 |
812 | 1878 | 6.754209 | AGAATCAGTCGATGTACTAAGCAAAG | 59.246 | 38.462 | 0.00 | 0.00 | 30.13 | 2.77 |
813 | 1879 | 4.744570 | TCAGTCGATGTACTAAGCAAAGG | 58.255 | 43.478 | 0.00 | 0.00 | 0.00 | 3.11 |
814 | 1880 | 4.461431 | TCAGTCGATGTACTAAGCAAAGGA | 59.539 | 41.667 | 0.00 | 0.00 | 0.00 | 3.36 |
815 | 1881 | 5.047590 | TCAGTCGATGTACTAAGCAAAGGAA | 60.048 | 40.000 | 0.00 | 0.00 | 0.00 | 3.36 |
816 | 1882 | 5.637810 | CAGTCGATGTACTAAGCAAAGGAAA | 59.362 | 40.000 | 0.00 | 0.00 | 0.00 | 3.13 |
817 | 1883 | 5.638234 | AGTCGATGTACTAAGCAAAGGAAAC | 59.362 | 40.000 | 0.00 | 0.00 | 0.00 | 2.78 |
819 | 1885 | 5.867716 | TCGATGTACTAAGCAAAGGAAACTC | 59.132 | 40.000 | 0.00 | 0.00 | 42.68 | 3.01 |
820 | 1886 | 5.220228 | CGATGTACTAAGCAAAGGAAACTCG | 60.220 | 44.000 | 0.00 | 0.00 | 42.68 | 4.18 |
821 | 1887 | 3.744426 | TGTACTAAGCAAAGGAAACTCGC | 59.256 | 43.478 | 0.00 | 0.00 | 42.68 | 5.03 |
822 | 1888 | 2.846193 | ACTAAGCAAAGGAAACTCGCA | 58.154 | 42.857 | 0.00 | 0.00 | 42.68 | 5.10 |
823 | 1889 | 3.211045 | ACTAAGCAAAGGAAACTCGCAA | 58.789 | 40.909 | 0.00 | 0.00 | 42.68 | 4.85 |
824 | 1890 | 3.630312 | ACTAAGCAAAGGAAACTCGCAAA | 59.370 | 39.130 | 0.00 | 0.00 | 42.68 | 3.68 |
825 | 1891 | 3.518634 | AAGCAAAGGAAACTCGCAAAA | 57.481 | 38.095 | 0.00 | 0.00 | 42.68 | 2.44 |
826 | 1892 | 3.733443 | AGCAAAGGAAACTCGCAAAAT | 57.267 | 38.095 | 0.00 | 0.00 | 42.68 | 1.82 |
827 | 1893 | 4.058721 | AGCAAAGGAAACTCGCAAAATT | 57.941 | 36.364 | 0.00 | 0.00 | 42.68 | 1.82 |
828 | 1894 | 3.803778 | AGCAAAGGAAACTCGCAAAATTG | 59.196 | 39.130 | 0.00 | 0.00 | 42.68 | 2.32 |
829 | 1895 | 3.604543 | GCAAAGGAAACTCGCAAAATTGC | 60.605 | 43.478 | 8.06 | 8.06 | 46.17 | 3.56 |
845 | 1911 | 7.109006 | CAAAATTGCTTGAATGTGTTAGTCC | 57.891 | 36.000 | 0.00 | 0.00 | 0.00 | 3.85 |
846 | 1912 | 6.403866 | AAATTGCTTGAATGTGTTAGTCCA | 57.596 | 33.333 | 0.00 | 0.00 | 0.00 | 4.02 |
847 | 1913 | 5.633830 | ATTGCTTGAATGTGTTAGTCCAG | 57.366 | 39.130 | 0.00 | 0.00 | 0.00 | 3.86 |
848 | 1914 | 2.813754 | TGCTTGAATGTGTTAGTCCAGC | 59.186 | 45.455 | 0.00 | 0.00 | 41.10 | 4.85 |
849 | 1915 | 2.813754 | GCTTGAATGTGTTAGTCCAGCA | 59.186 | 45.455 | 0.00 | 0.00 | 40.61 | 4.41 |
850 | 1916 | 3.365364 | GCTTGAATGTGTTAGTCCAGCAC | 60.365 | 47.826 | 0.00 | 0.00 | 40.61 | 4.40 |
851 | 1917 | 3.769739 | TGAATGTGTTAGTCCAGCACT | 57.230 | 42.857 | 0.00 | 0.00 | 39.02 | 4.40 |
852 | 1918 | 4.882842 | TGAATGTGTTAGTCCAGCACTA | 57.117 | 40.909 | 0.00 | 0.00 | 39.02 | 2.74 |
853 | 1919 | 4.820897 | TGAATGTGTTAGTCCAGCACTAG | 58.179 | 43.478 | 0.00 | 0.00 | 38.90 | 2.57 |
854 | 1920 | 2.743636 | TGTGTTAGTCCAGCACTAGC | 57.256 | 50.000 | 0.00 | 0.00 | 38.90 | 3.42 |
855 | 1921 | 1.967779 | TGTGTTAGTCCAGCACTAGCA | 59.032 | 47.619 | 0.00 | 0.00 | 44.21 | 3.49 |
856 | 1922 | 2.367241 | TGTGTTAGTCCAGCACTAGCAA | 59.633 | 45.455 | 1.61 | 0.00 | 46.83 | 3.91 |
857 | 1923 | 2.737252 | GTGTTAGTCCAGCACTAGCAAC | 59.263 | 50.000 | 1.61 | 0.00 | 46.83 | 4.17 |
858 | 1924 | 2.367241 | TGTTAGTCCAGCACTAGCAACA | 59.633 | 45.455 | 0.00 | 0.00 | 43.66 | 3.33 |
859 | 1925 | 2.737252 | GTTAGTCCAGCACTAGCAACAC | 59.263 | 50.000 | 0.00 | 0.00 | 45.49 | 3.32 |
860 | 1926 | 0.035458 | AGTCCAGCACTAGCAACACC | 59.965 | 55.000 | 0.00 | 0.00 | 45.49 | 4.16 |
861 | 1927 | 0.250295 | GTCCAGCACTAGCAACACCA | 60.250 | 55.000 | 0.00 | 0.00 | 45.49 | 4.17 |
862 | 1928 | 0.035317 | TCCAGCACTAGCAACACCAG | 59.965 | 55.000 | 0.00 | 0.00 | 45.49 | 4.00 |
863 | 1929 | 0.035317 | CCAGCACTAGCAACACCAGA | 59.965 | 55.000 | 0.00 | 0.00 | 45.49 | 3.86 |
864 | 1930 | 1.339438 | CCAGCACTAGCAACACCAGAT | 60.339 | 52.381 | 0.00 | 0.00 | 45.49 | 2.90 |
865 | 1931 | 1.736126 | CAGCACTAGCAACACCAGATG | 59.264 | 52.381 | 0.00 | 0.00 | 45.49 | 2.90 |
866 | 1932 | 1.089920 | GCACTAGCAACACCAGATGG | 58.910 | 55.000 | 0.00 | 0.00 | 41.58 | 3.51 |
867 | 1933 | 1.089920 | CACTAGCAACACCAGATGGC | 58.910 | 55.000 | 0.00 | 0.00 | 39.32 | 4.40 |
868 | 1934 | 0.035056 | ACTAGCAACACCAGATGGCC | 60.035 | 55.000 | 0.00 | 0.00 | 39.32 | 5.36 |
869 | 1935 | 0.035152 | CTAGCAACACCAGATGGCCA | 60.035 | 55.000 | 8.56 | 8.56 | 39.32 | 5.36 |
870 | 1936 | 0.035152 | TAGCAACACCAGATGGCCAG | 60.035 | 55.000 | 13.05 | 0.00 | 39.32 | 4.85 |
871 | 1937 | 1.604593 | GCAACACCAGATGGCCAGT | 60.605 | 57.895 | 13.05 | 0.00 | 39.32 | 4.00 |
872 | 1938 | 1.181098 | GCAACACCAGATGGCCAGTT | 61.181 | 55.000 | 13.05 | 5.69 | 39.32 | 3.16 |
873 | 1939 | 1.331214 | CAACACCAGATGGCCAGTTT | 58.669 | 50.000 | 13.05 | 0.00 | 39.32 | 2.66 |
874 | 1940 | 1.688197 | CAACACCAGATGGCCAGTTTT | 59.312 | 47.619 | 13.05 | 0.00 | 39.32 | 2.43 |
875 | 1941 | 2.890311 | CAACACCAGATGGCCAGTTTTA | 59.110 | 45.455 | 13.05 | 0.00 | 39.32 | 1.52 |
876 | 1942 | 3.456380 | ACACCAGATGGCCAGTTTTAT | 57.544 | 42.857 | 13.05 | 0.00 | 39.32 | 1.40 |
877 | 1943 | 3.778265 | ACACCAGATGGCCAGTTTTATT | 58.222 | 40.909 | 13.05 | 0.00 | 39.32 | 1.40 |
878 | 1944 | 4.159557 | ACACCAGATGGCCAGTTTTATTT | 58.840 | 39.130 | 13.05 | 0.00 | 39.32 | 1.40 |
879 | 1945 | 5.329399 | ACACCAGATGGCCAGTTTTATTTA | 58.671 | 37.500 | 13.05 | 0.00 | 39.32 | 1.40 |
880 | 1946 | 5.957774 | ACACCAGATGGCCAGTTTTATTTAT | 59.042 | 36.000 | 13.05 | 0.00 | 39.32 | 1.40 |
881 | 1947 | 7.122715 | ACACCAGATGGCCAGTTTTATTTATA | 58.877 | 34.615 | 13.05 | 0.00 | 39.32 | 0.98 |
882 | 1948 | 7.784550 | ACACCAGATGGCCAGTTTTATTTATAT | 59.215 | 33.333 | 13.05 | 0.00 | 39.32 | 0.86 |
883 | 1949 | 8.299570 | CACCAGATGGCCAGTTTTATTTATATC | 58.700 | 37.037 | 13.05 | 0.00 | 39.32 | 1.63 |
884 | 1950 | 8.227507 | ACCAGATGGCCAGTTTTATTTATATCT | 58.772 | 33.333 | 13.05 | 0.47 | 39.32 | 1.98 |
885 | 1951 | 8.517878 | CCAGATGGCCAGTTTTATTTATATCTG | 58.482 | 37.037 | 13.05 | 13.93 | 38.19 | 2.90 |
886 | 1952 | 9.288576 | CAGATGGCCAGTTTTATTTATATCTGA | 57.711 | 33.333 | 13.05 | 0.00 | 39.86 | 3.27 |
887 | 1953 | 9.866655 | AGATGGCCAGTTTTATTTATATCTGAA | 57.133 | 29.630 | 13.05 | 0.00 | 0.00 | 3.02 |
890 | 1956 | 9.420118 | TGGCCAGTTTTATTTATATCTGAATGT | 57.580 | 29.630 | 0.00 | 0.00 | 0.00 | 2.71 |
926 | 1992 | 7.810766 | TTGAAAAGTGTCAACAAATTCTCAC | 57.189 | 32.000 | 0.00 | 0.00 | 32.56 | 3.51 |
927 | 1993 | 6.918626 | TGAAAAGTGTCAACAAATTCTCACA | 58.081 | 32.000 | 0.00 | 0.00 | 0.00 | 3.58 |
928 | 1994 | 7.546358 | TGAAAAGTGTCAACAAATTCTCACAT | 58.454 | 30.769 | 0.00 | 0.00 | 0.00 | 3.21 |
929 | 1995 | 8.034215 | TGAAAAGTGTCAACAAATTCTCACATT | 58.966 | 29.630 | 0.00 | 0.00 | 0.00 | 2.71 |
930 | 1996 | 7.760131 | AAAGTGTCAACAAATTCTCACATTG | 57.240 | 32.000 | 0.00 | 0.00 | 0.00 | 2.82 |
931 | 1997 | 6.698008 | AGTGTCAACAAATTCTCACATTGA | 57.302 | 33.333 | 0.00 | 0.00 | 0.00 | 2.57 |
932 | 1998 | 7.281040 | AGTGTCAACAAATTCTCACATTGAT | 57.719 | 32.000 | 0.00 | 0.00 | 0.00 | 2.57 |
933 | 1999 | 7.143340 | AGTGTCAACAAATTCTCACATTGATG | 58.857 | 34.615 | 0.00 | 0.00 | 0.00 | 3.07 |
934 | 2000 | 7.013559 | AGTGTCAACAAATTCTCACATTGATGA | 59.986 | 33.333 | 0.00 | 0.00 | 34.71 | 2.92 |
935 | 2001 | 7.325338 | GTGTCAACAAATTCTCACATTGATGAG | 59.675 | 37.037 | 0.00 | 8.90 | 46.40 | 2.90 |
945 | 2011 | 5.051409 | TCACATTGATGAGAATATGCCCA | 57.949 | 39.130 | 0.00 | 0.00 | 0.00 | 5.36 |
946 | 2012 | 5.447757 | TCACATTGATGAGAATATGCCCAA | 58.552 | 37.500 | 0.00 | 0.00 | 0.00 | 4.12 |
947 | 2013 | 5.300034 | TCACATTGATGAGAATATGCCCAAC | 59.700 | 40.000 | 0.00 | 0.00 | 0.00 | 3.77 |
948 | 2014 | 5.301045 | CACATTGATGAGAATATGCCCAACT | 59.699 | 40.000 | 0.00 | 0.00 | 0.00 | 3.16 |
949 | 2015 | 6.487668 | CACATTGATGAGAATATGCCCAACTA | 59.512 | 38.462 | 0.00 | 0.00 | 0.00 | 2.24 |
950 | 2016 | 6.488006 | ACATTGATGAGAATATGCCCAACTAC | 59.512 | 38.462 | 0.00 | 0.00 | 0.00 | 2.73 |
951 | 2017 | 5.628797 | TGATGAGAATATGCCCAACTACA | 57.371 | 39.130 | 0.00 | 0.00 | 0.00 | 2.74 |
966 | 2032 | 6.438763 | CCCAACTACAAGAAATGTGAAAGAC | 58.561 | 40.000 | 0.00 | 0.00 | 43.77 | 3.01 |
980 | 2046 | 6.808008 | TGTGAAAGACATTTGAGAAGATCC | 57.192 | 37.500 | 0.00 | 0.00 | 0.00 | 3.36 |
991 | 2057 | 2.026822 | TGAGAAGATCCTCAACCAAGCC | 60.027 | 50.000 | 0.00 | 0.00 | 39.96 | 4.35 |
992 | 2058 | 1.988107 | AGAAGATCCTCAACCAAGCCA | 59.012 | 47.619 | 0.00 | 0.00 | 0.00 | 4.75 |
993 | 2059 | 2.579860 | AGAAGATCCTCAACCAAGCCAT | 59.420 | 45.455 | 0.00 | 0.00 | 0.00 | 4.40 |
1002 | 2068 | 2.897207 | CCAAGCCATGGGTGCATG | 59.103 | 61.111 | 19.09 | 12.21 | 46.27 | 4.06 |
1012 | 2078 | 3.264104 | CATGGGTGCATGCCTTTTAAAG | 58.736 | 45.455 | 16.68 | 0.00 | 0.00 | 1.85 |
1024 | 2090 | 0.472161 | TTTTAAAGGCCACCACCCCC | 60.472 | 55.000 | 5.01 | 0.00 | 0.00 | 5.40 |
1039 | 2105 | 1.602237 | CCCCGTGCACCTGATAACT | 59.398 | 57.895 | 12.15 | 0.00 | 0.00 | 2.24 |
1042 | 2128 | 1.421410 | CCGTGCACCTGATAACTCGC | 61.421 | 60.000 | 12.15 | 0.00 | 0.00 | 5.03 |
1048 | 2134 | 1.944676 | CCTGATAACTCGCGACGGC | 60.945 | 63.158 | 3.71 | 0.00 | 0.00 | 5.68 |
1366 | 2452 | 0.241213 | CTGCGACTTCCTCTTCGTCA | 59.759 | 55.000 | 0.00 | 0.00 | 37.56 | 4.35 |
1368 | 2454 | 1.066114 | GCGACTTCCTCTTCGTCACG | 61.066 | 60.000 | 0.00 | 0.00 | 37.56 | 4.35 |
1507 | 2593 | 1.457346 | CAAGAACTGGTCCTCCATGC | 58.543 | 55.000 | 0.00 | 0.00 | 43.43 | 4.06 |
1541 | 2627 | 4.636435 | CCACCCCAAGAACCGCGT | 62.636 | 66.667 | 4.92 | 0.00 | 0.00 | 6.01 |
1542 | 2628 | 3.047877 | CACCCCAAGAACCGCGTC | 61.048 | 66.667 | 4.92 | 0.00 | 0.00 | 5.19 |
1543 | 2629 | 4.675029 | ACCCCAAGAACCGCGTCG | 62.675 | 66.667 | 4.92 | 0.00 | 0.00 | 5.12 |
1665 | 2751 | 4.308458 | CTCGTGGGGCACAACCGA | 62.308 | 66.667 | 2.36 | 2.36 | 40.62 | 4.69 |
1800 | 2886 | 2.476051 | GACGCGTACGAGTCCGAA | 59.524 | 61.111 | 33.39 | 0.00 | 43.93 | 4.30 |
1814 | 2900 | 3.147629 | AGTCCGAAGAGAAAGAAGACGA | 58.852 | 45.455 | 0.00 | 0.00 | 0.00 | 4.20 |
1824 | 2910 | 0.321996 | AAGAAGACGAGGTGGAAGGC | 59.678 | 55.000 | 0.00 | 0.00 | 0.00 | 4.35 |
1848 | 2934 | 1.485838 | GAGTGCCATCATCGTCTGCG | 61.486 | 60.000 | 0.00 | 0.00 | 39.92 | 5.18 |
1879 | 2965 | 1.580942 | GCATGATGCACCACGTGTT | 59.419 | 52.632 | 13.36 | 0.00 | 44.26 | 3.32 |
1886 | 2972 | 1.275657 | GCACCACGTGTTCTGTTCG | 59.724 | 57.895 | 15.65 | 0.00 | 35.75 | 3.95 |
1904 | 2990 | 6.316640 | TCTGTTCGTCTTTGTTGTTTTCCATA | 59.683 | 34.615 | 0.00 | 0.00 | 0.00 | 2.74 |
1906 | 2992 | 7.484975 | TGTTCGTCTTTGTTGTTTTCCATATT | 58.515 | 30.769 | 0.00 | 0.00 | 0.00 | 1.28 |
1910 | 2996 | 6.915300 | CGTCTTTGTTGTTTTCCATATTGACA | 59.085 | 34.615 | 0.00 | 0.00 | 0.00 | 3.58 |
1943 | 3031 | 2.169327 | GCGTACGCCGTTGTCAAC | 59.831 | 61.111 | 29.51 | 5.58 | 39.32 | 3.18 |
1960 | 3048 | 7.272948 | CGTTGTCAACTTAGTTCCTACTATGAC | 59.727 | 40.741 | 13.67 | 0.00 | 41.00 | 3.06 |
1968 | 3056 | 4.586884 | AGTTCCTACTATGACTGTGACGA | 58.413 | 43.478 | 0.00 | 0.00 | 31.21 | 4.20 |
1969 | 3057 | 4.395542 | AGTTCCTACTATGACTGTGACGAC | 59.604 | 45.833 | 0.00 | 0.00 | 31.21 | 4.34 |
1994 | 3082 | 8.499406 | ACACTATCATGTAAAAATAAGGCCCTA | 58.501 | 33.333 | 0.00 | 0.00 | 0.00 | 3.53 |
2126 | 3214 | 5.589192 | ACTAAATATGCGCGACTAAAGACT | 58.411 | 37.500 | 12.10 | 0.00 | 0.00 | 3.24 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
81 | 82 | 5.319453 | TCAATCCACTTGATCTGCTCTTTT | 58.681 | 37.500 | 0.00 | 0.00 | 38.97 | 2.27 |
148 | 149 | 6.552008 | TCCTTTAAGGTCACTCCATTCATTT | 58.448 | 36.000 | 11.13 | 0.00 | 36.53 | 2.32 |
149 | 150 | 6.012508 | TCTCCTTTAAGGTCACTCCATTCATT | 60.013 | 38.462 | 11.13 | 0.00 | 36.53 | 2.57 |
258 | 1254 | 7.489435 | CACCAATAGTACTTGACTCATACACAG | 59.511 | 40.741 | 0.00 | 0.00 | 39.81 | 3.66 |
324 | 1321 | 1.899814 | AGTAAACCGAGACATGCCTGA | 59.100 | 47.619 | 0.00 | 0.00 | 0.00 | 3.86 |
370 | 1367 | 1.527380 | GGGCTTCCGTCACCAAACA | 60.527 | 57.895 | 0.00 | 0.00 | 0.00 | 2.83 |
380 | 1377 | 3.317603 | ACAAAATTTGATGGGCTTCCG | 57.682 | 42.857 | 13.19 | 0.00 | 0.00 | 4.30 |
412 | 1418 | 7.045416 | AGTAACAACAATTATCTCCGCACATA | 58.955 | 34.615 | 0.00 | 0.00 | 0.00 | 2.29 |
520 | 1533 | 4.142425 | GCCGGCTACAGTATATCCTAGAAC | 60.142 | 50.000 | 22.15 | 0.00 | 0.00 | 3.01 |
576 | 1590 | 8.840321 | CCTCTCAAGACTCAAAGTTTAATTTGA | 58.160 | 33.333 | 5.40 | 5.40 | 44.72 | 2.69 |
685 | 1732 | 3.370209 | CCTCAATTGATGCCTGTCTCTCA | 60.370 | 47.826 | 8.96 | 0.00 | 0.00 | 3.27 |
693 | 1740 | 1.927487 | TTGCACCTCAATTGATGCCT | 58.073 | 45.000 | 24.31 | 0.75 | 37.26 | 4.75 |
696 | 1743 | 5.840243 | TTCCTATTGCACCTCAATTGATG | 57.160 | 39.130 | 8.96 | 8.96 | 42.48 | 3.07 |
745 | 1811 | 1.019673 | TACTAGTAGAAGCCCGTGCG | 58.980 | 55.000 | 3.59 | 0.00 | 44.33 | 5.34 |
746 | 1812 | 2.022934 | AGTACTAGTAGAAGCCCGTGC | 58.977 | 52.381 | 1.87 | 0.00 | 37.95 | 5.34 |
747 | 1813 | 4.450053 | AGTAGTACTAGTAGAAGCCCGTG | 58.550 | 47.826 | 8.55 | 0.00 | 0.00 | 4.94 |
748 | 1814 | 4.769345 | AGTAGTACTAGTAGAAGCCCGT | 57.231 | 45.455 | 8.55 | 0.00 | 0.00 | 5.28 |
749 | 1815 | 6.287525 | ACTTAGTAGTACTAGTAGAAGCCCG | 58.712 | 44.000 | 15.40 | 4.98 | 31.47 | 6.13 |
782 | 1848 | 9.084164 | GCTTAGTACATCGACTGATTCTTTTTA | 57.916 | 33.333 | 0.00 | 0.00 | 30.49 | 1.52 |
783 | 1849 | 7.602644 | TGCTTAGTACATCGACTGATTCTTTTT | 59.397 | 33.333 | 0.00 | 0.00 | 30.49 | 1.94 |
784 | 1850 | 7.097192 | TGCTTAGTACATCGACTGATTCTTTT | 58.903 | 34.615 | 0.00 | 0.00 | 30.49 | 2.27 |
785 | 1851 | 6.631016 | TGCTTAGTACATCGACTGATTCTTT | 58.369 | 36.000 | 0.00 | 0.00 | 30.49 | 2.52 |
786 | 1852 | 6.208988 | TGCTTAGTACATCGACTGATTCTT | 57.791 | 37.500 | 0.00 | 0.00 | 30.49 | 2.52 |
787 | 1853 | 5.836821 | TGCTTAGTACATCGACTGATTCT | 57.163 | 39.130 | 0.00 | 0.00 | 30.49 | 2.40 |
788 | 1854 | 6.019479 | CCTTTGCTTAGTACATCGACTGATTC | 60.019 | 42.308 | 0.00 | 0.00 | 30.49 | 2.52 |
789 | 1855 | 5.812642 | CCTTTGCTTAGTACATCGACTGATT | 59.187 | 40.000 | 0.00 | 0.00 | 30.49 | 2.57 |
790 | 1856 | 5.127194 | TCCTTTGCTTAGTACATCGACTGAT | 59.873 | 40.000 | 0.00 | 0.00 | 34.28 | 2.90 |
791 | 1857 | 4.461431 | TCCTTTGCTTAGTACATCGACTGA | 59.539 | 41.667 | 0.00 | 0.00 | 0.00 | 3.41 |
792 | 1858 | 4.744570 | TCCTTTGCTTAGTACATCGACTG | 58.255 | 43.478 | 0.00 | 0.00 | 0.00 | 3.51 |
793 | 1859 | 5.401531 | TTCCTTTGCTTAGTACATCGACT | 57.598 | 39.130 | 0.00 | 0.00 | 0.00 | 4.18 |
794 | 1860 | 5.638234 | AGTTTCCTTTGCTTAGTACATCGAC | 59.362 | 40.000 | 0.00 | 0.00 | 0.00 | 4.20 |
795 | 1861 | 5.790593 | AGTTTCCTTTGCTTAGTACATCGA | 58.209 | 37.500 | 0.00 | 0.00 | 0.00 | 3.59 |
796 | 1862 | 5.220228 | CGAGTTTCCTTTGCTTAGTACATCG | 60.220 | 44.000 | 0.00 | 0.00 | 0.00 | 3.84 |
797 | 1863 | 5.446073 | GCGAGTTTCCTTTGCTTAGTACATC | 60.446 | 44.000 | 0.00 | 0.00 | 0.00 | 3.06 |
798 | 1864 | 4.392138 | GCGAGTTTCCTTTGCTTAGTACAT | 59.608 | 41.667 | 0.00 | 0.00 | 0.00 | 2.29 |
799 | 1865 | 3.744426 | GCGAGTTTCCTTTGCTTAGTACA | 59.256 | 43.478 | 0.00 | 0.00 | 0.00 | 2.90 |
800 | 1866 | 3.744426 | TGCGAGTTTCCTTTGCTTAGTAC | 59.256 | 43.478 | 0.00 | 0.00 | 0.00 | 2.73 |
801 | 1867 | 3.997762 | TGCGAGTTTCCTTTGCTTAGTA | 58.002 | 40.909 | 0.00 | 0.00 | 0.00 | 1.82 |
802 | 1868 | 2.846193 | TGCGAGTTTCCTTTGCTTAGT | 58.154 | 42.857 | 0.00 | 0.00 | 0.00 | 2.24 |
803 | 1869 | 3.896648 | TTGCGAGTTTCCTTTGCTTAG | 57.103 | 42.857 | 0.00 | 0.00 | 0.00 | 2.18 |
804 | 1870 | 4.640789 | TTTTGCGAGTTTCCTTTGCTTA | 57.359 | 36.364 | 0.00 | 0.00 | 0.00 | 3.09 |
805 | 1871 | 3.518634 | TTTTGCGAGTTTCCTTTGCTT | 57.481 | 38.095 | 0.00 | 0.00 | 0.00 | 3.91 |
806 | 1872 | 3.733443 | ATTTTGCGAGTTTCCTTTGCT | 57.267 | 38.095 | 0.00 | 0.00 | 0.00 | 3.91 |
807 | 1873 | 3.604543 | GCAATTTTGCGAGTTTCCTTTGC | 60.605 | 43.478 | 0.00 | 0.00 | 45.11 | 3.68 |
808 | 1874 | 4.119334 | GCAATTTTGCGAGTTTCCTTTG | 57.881 | 40.909 | 0.00 | 0.00 | 45.11 | 2.77 |
821 | 1887 | 6.700960 | TGGACTAACACATTCAAGCAATTTTG | 59.299 | 34.615 | 0.00 | 0.00 | 0.00 | 2.44 |
822 | 1888 | 6.815089 | TGGACTAACACATTCAAGCAATTTT | 58.185 | 32.000 | 0.00 | 0.00 | 0.00 | 1.82 |
823 | 1889 | 6.403866 | TGGACTAACACATTCAAGCAATTT | 57.596 | 33.333 | 0.00 | 0.00 | 0.00 | 1.82 |
824 | 1890 | 5.565439 | GCTGGACTAACACATTCAAGCAATT | 60.565 | 40.000 | 0.00 | 0.00 | 0.00 | 2.32 |
825 | 1891 | 4.082571 | GCTGGACTAACACATTCAAGCAAT | 60.083 | 41.667 | 0.00 | 0.00 | 0.00 | 3.56 |
826 | 1892 | 3.253188 | GCTGGACTAACACATTCAAGCAA | 59.747 | 43.478 | 0.00 | 0.00 | 0.00 | 3.91 |
827 | 1893 | 2.813754 | GCTGGACTAACACATTCAAGCA | 59.186 | 45.455 | 0.00 | 0.00 | 0.00 | 3.91 |
828 | 1894 | 2.813754 | TGCTGGACTAACACATTCAAGC | 59.186 | 45.455 | 0.00 | 0.00 | 0.00 | 4.01 |
829 | 1895 | 4.067896 | AGTGCTGGACTAACACATTCAAG | 58.932 | 43.478 | 0.00 | 0.00 | 36.76 | 3.02 |
830 | 1896 | 4.085357 | AGTGCTGGACTAACACATTCAA | 57.915 | 40.909 | 0.00 | 0.00 | 36.76 | 2.69 |
831 | 1897 | 3.769739 | AGTGCTGGACTAACACATTCA | 57.230 | 42.857 | 0.00 | 0.00 | 36.76 | 2.57 |
832 | 1898 | 3.619038 | GCTAGTGCTGGACTAACACATTC | 59.381 | 47.826 | 10.31 | 0.00 | 36.69 | 2.67 |
833 | 1899 | 3.007940 | TGCTAGTGCTGGACTAACACATT | 59.992 | 43.478 | 10.31 | 0.00 | 36.69 | 2.71 |
834 | 1900 | 2.567169 | TGCTAGTGCTGGACTAACACAT | 59.433 | 45.455 | 10.31 | 0.00 | 36.69 | 3.21 |
835 | 1901 | 1.967779 | TGCTAGTGCTGGACTAACACA | 59.032 | 47.619 | 10.31 | 6.42 | 36.69 | 3.72 |
836 | 1902 | 2.737252 | GTTGCTAGTGCTGGACTAACAC | 59.263 | 50.000 | 11.27 | 4.67 | 36.69 | 3.32 |
837 | 1903 | 2.367241 | TGTTGCTAGTGCTGGACTAACA | 59.633 | 45.455 | 10.31 | 10.57 | 36.69 | 2.41 |
838 | 1904 | 2.737252 | GTGTTGCTAGTGCTGGACTAAC | 59.263 | 50.000 | 10.31 | 8.23 | 36.69 | 2.34 |
839 | 1905 | 2.289444 | GGTGTTGCTAGTGCTGGACTAA | 60.289 | 50.000 | 10.31 | 0.00 | 36.69 | 2.24 |
840 | 1906 | 1.275291 | GGTGTTGCTAGTGCTGGACTA | 59.725 | 52.381 | 8.78 | 8.78 | 40.48 | 2.59 |
841 | 1907 | 0.035458 | GGTGTTGCTAGTGCTGGACT | 59.965 | 55.000 | 7.10 | 7.10 | 40.48 | 3.85 |
842 | 1908 | 0.250295 | TGGTGTTGCTAGTGCTGGAC | 60.250 | 55.000 | 0.00 | 0.00 | 40.48 | 4.02 |
843 | 1909 | 0.035317 | CTGGTGTTGCTAGTGCTGGA | 59.965 | 55.000 | 0.00 | 0.00 | 40.48 | 3.86 |
844 | 1910 | 0.035317 | TCTGGTGTTGCTAGTGCTGG | 59.965 | 55.000 | 0.00 | 0.00 | 40.48 | 4.85 |
845 | 1911 | 1.736126 | CATCTGGTGTTGCTAGTGCTG | 59.264 | 52.381 | 0.00 | 0.00 | 40.48 | 4.41 |
846 | 1912 | 1.339438 | CCATCTGGTGTTGCTAGTGCT | 60.339 | 52.381 | 0.00 | 0.00 | 40.48 | 4.40 |
847 | 1913 | 1.089920 | CCATCTGGTGTTGCTAGTGC | 58.910 | 55.000 | 0.00 | 0.00 | 40.20 | 4.40 |
848 | 1914 | 1.089920 | GCCATCTGGTGTTGCTAGTG | 58.910 | 55.000 | 0.00 | 0.00 | 37.57 | 2.74 |
849 | 1915 | 0.035056 | GGCCATCTGGTGTTGCTAGT | 60.035 | 55.000 | 0.00 | 0.00 | 37.57 | 2.57 |
850 | 1916 | 0.035152 | TGGCCATCTGGTGTTGCTAG | 60.035 | 55.000 | 0.00 | 0.00 | 37.57 | 3.42 |
851 | 1917 | 0.035152 | CTGGCCATCTGGTGTTGCTA | 60.035 | 55.000 | 5.51 | 0.00 | 37.57 | 3.49 |
852 | 1918 | 1.303888 | CTGGCCATCTGGTGTTGCT | 60.304 | 57.895 | 5.51 | 0.00 | 37.57 | 3.91 |
853 | 1919 | 1.181098 | AACTGGCCATCTGGTGTTGC | 61.181 | 55.000 | 5.51 | 0.00 | 37.57 | 4.17 |
854 | 1920 | 1.331214 | AAACTGGCCATCTGGTGTTG | 58.669 | 50.000 | 5.51 | 0.00 | 37.57 | 3.33 |
855 | 1921 | 2.086610 | AAAACTGGCCATCTGGTGTT | 57.913 | 45.000 | 5.51 | 2.24 | 37.57 | 3.32 |
856 | 1922 | 2.969821 | TAAAACTGGCCATCTGGTGT | 57.030 | 45.000 | 5.51 | 0.00 | 37.57 | 4.16 |
857 | 1923 | 4.806640 | AAATAAAACTGGCCATCTGGTG | 57.193 | 40.909 | 5.51 | 0.00 | 37.57 | 4.17 |
858 | 1924 | 8.227507 | AGATATAAATAAAACTGGCCATCTGGT | 58.772 | 33.333 | 5.51 | 0.00 | 37.57 | 4.00 |
859 | 1925 | 8.517878 | CAGATATAAATAAAACTGGCCATCTGG | 58.482 | 37.037 | 5.51 | 0.00 | 34.62 | 3.86 |
860 | 1926 | 9.288576 | TCAGATATAAATAAAACTGGCCATCTG | 57.711 | 33.333 | 5.51 | 11.89 | 37.87 | 2.90 |
861 | 1927 | 9.866655 | TTCAGATATAAATAAAACTGGCCATCT | 57.133 | 29.630 | 5.51 | 0.00 | 0.00 | 2.90 |
864 | 1930 | 9.420118 | ACATTCAGATATAAATAAAACTGGCCA | 57.580 | 29.630 | 4.71 | 4.71 | 0.00 | 5.36 |
900 | 1966 | 8.872845 | GTGAGAATTTGTTGACACTTTTCAAAT | 58.127 | 29.630 | 0.00 | 0.00 | 37.24 | 2.32 |
901 | 1967 | 7.869937 | TGTGAGAATTTGTTGACACTTTTCAAA | 59.130 | 29.630 | 0.00 | 0.00 | 37.24 | 2.69 |
902 | 1968 | 7.374272 | TGTGAGAATTTGTTGACACTTTTCAA | 58.626 | 30.769 | 0.00 | 0.00 | 32.94 | 2.69 |
903 | 1969 | 6.918626 | TGTGAGAATTTGTTGACACTTTTCA | 58.081 | 32.000 | 0.00 | 0.00 | 0.00 | 2.69 |
904 | 1970 | 7.992180 | ATGTGAGAATTTGTTGACACTTTTC | 57.008 | 32.000 | 0.00 | 0.00 | 0.00 | 2.29 |
905 | 1971 | 8.034215 | TCAATGTGAGAATTTGTTGACACTTTT | 58.966 | 29.630 | 0.00 | 0.00 | 0.00 | 2.27 |
906 | 1972 | 7.546358 | TCAATGTGAGAATTTGTTGACACTTT | 58.454 | 30.769 | 0.00 | 0.00 | 0.00 | 2.66 |
907 | 1973 | 7.099266 | TCAATGTGAGAATTTGTTGACACTT | 57.901 | 32.000 | 0.00 | 0.00 | 0.00 | 3.16 |
908 | 1974 | 6.698008 | TCAATGTGAGAATTTGTTGACACT | 57.302 | 33.333 | 0.00 | 0.00 | 0.00 | 3.55 |
909 | 1975 | 7.140705 | TCATCAATGTGAGAATTTGTTGACAC | 58.859 | 34.615 | 0.00 | 0.00 | 29.00 | 3.67 |
910 | 1976 | 7.274603 | TCATCAATGTGAGAATTTGTTGACA | 57.725 | 32.000 | 0.00 | 0.00 | 29.00 | 3.58 |
911 | 1977 | 7.792383 | CTCATCAATGTGAGAATTTGTTGAC | 57.208 | 36.000 | 6.91 | 0.00 | 46.77 | 3.18 |
922 | 1988 | 5.067954 | TGGGCATATTCTCATCAATGTGAG | 58.932 | 41.667 | 6.53 | 6.53 | 45.51 | 3.51 |
923 | 1989 | 5.051409 | TGGGCATATTCTCATCAATGTGA | 57.949 | 39.130 | 0.00 | 0.00 | 28.77 | 3.58 |
924 | 1990 | 5.301045 | AGTTGGGCATATTCTCATCAATGTG | 59.699 | 40.000 | 0.00 | 0.00 | 0.00 | 3.21 |
925 | 1991 | 5.452255 | AGTTGGGCATATTCTCATCAATGT | 58.548 | 37.500 | 0.00 | 0.00 | 0.00 | 2.71 |
926 | 1992 | 6.487668 | TGTAGTTGGGCATATTCTCATCAATG | 59.512 | 38.462 | 0.00 | 0.00 | 0.00 | 2.82 |
927 | 1993 | 6.604171 | TGTAGTTGGGCATATTCTCATCAAT | 58.396 | 36.000 | 0.00 | 0.00 | 0.00 | 2.57 |
928 | 1994 | 6.000246 | TGTAGTTGGGCATATTCTCATCAA | 58.000 | 37.500 | 0.00 | 0.00 | 0.00 | 2.57 |
929 | 1995 | 5.628797 | TGTAGTTGGGCATATTCTCATCA | 57.371 | 39.130 | 0.00 | 0.00 | 0.00 | 3.07 |
930 | 1996 | 6.291377 | TCTTGTAGTTGGGCATATTCTCATC | 58.709 | 40.000 | 0.00 | 0.00 | 0.00 | 2.92 |
931 | 1997 | 6.252599 | TCTTGTAGTTGGGCATATTCTCAT | 57.747 | 37.500 | 0.00 | 0.00 | 0.00 | 2.90 |
932 | 1998 | 5.692115 | TCTTGTAGTTGGGCATATTCTCA | 57.308 | 39.130 | 0.00 | 0.00 | 0.00 | 3.27 |
933 | 1999 | 7.067494 | ACATTTCTTGTAGTTGGGCATATTCTC | 59.933 | 37.037 | 0.00 | 0.00 | 36.57 | 2.87 |
934 | 2000 | 6.891908 | ACATTTCTTGTAGTTGGGCATATTCT | 59.108 | 34.615 | 0.00 | 0.00 | 36.57 | 2.40 |
935 | 2001 | 6.974622 | CACATTTCTTGTAGTTGGGCATATTC | 59.025 | 38.462 | 0.00 | 0.00 | 36.57 | 1.75 |
936 | 2002 | 6.663093 | TCACATTTCTTGTAGTTGGGCATATT | 59.337 | 34.615 | 0.00 | 0.00 | 36.57 | 1.28 |
937 | 2003 | 6.186957 | TCACATTTCTTGTAGTTGGGCATAT | 58.813 | 36.000 | 0.00 | 0.00 | 36.57 | 1.78 |
938 | 2004 | 5.565509 | TCACATTTCTTGTAGTTGGGCATA | 58.434 | 37.500 | 0.00 | 0.00 | 36.57 | 3.14 |
939 | 2005 | 4.406456 | TCACATTTCTTGTAGTTGGGCAT | 58.594 | 39.130 | 0.00 | 0.00 | 36.57 | 4.40 |
940 | 2006 | 3.826524 | TCACATTTCTTGTAGTTGGGCA | 58.173 | 40.909 | 0.00 | 0.00 | 36.57 | 5.36 |
941 | 2007 | 4.846779 | TTCACATTTCTTGTAGTTGGGC | 57.153 | 40.909 | 0.00 | 0.00 | 36.57 | 5.36 |
942 | 2008 | 6.039270 | TGTCTTTCACATTTCTTGTAGTTGGG | 59.961 | 38.462 | 0.00 | 0.00 | 36.57 | 4.12 |
943 | 2009 | 7.026631 | TGTCTTTCACATTTCTTGTAGTTGG | 57.973 | 36.000 | 0.00 | 0.00 | 36.57 | 3.77 |
979 | 2045 | 1.077265 | ACCCATGGCTTGGTTGAGG | 59.923 | 57.895 | 17.23 | 5.09 | 44.83 | 3.86 |
980 | 2046 | 1.880819 | GCACCCATGGCTTGGTTGAG | 61.881 | 60.000 | 19.17 | 6.51 | 40.25 | 3.02 |
992 | 2058 | 2.236893 | CCTTTAAAAGGCATGCACCCAT | 59.763 | 45.455 | 21.36 | 3.74 | 42.78 | 4.00 |
993 | 2059 | 1.622811 | CCTTTAAAAGGCATGCACCCA | 59.377 | 47.619 | 21.36 | 0.00 | 42.78 | 4.51 |
1024 | 2090 | 1.742900 | CGCGAGTTATCAGGTGCACG | 61.743 | 60.000 | 11.45 | 0.00 | 0.00 | 5.34 |
1062 | 2148 | 3.650950 | TGGGAAGGTGCTGGAGGC | 61.651 | 66.667 | 0.00 | 0.00 | 42.22 | 4.70 |
1063 | 2149 | 2.352805 | GTGGGAAGGTGCTGGAGG | 59.647 | 66.667 | 0.00 | 0.00 | 0.00 | 4.30 |
1064 | 2150 | 2.190488 | GAGGTGGGAAGGTGCTGGAG | 62.190 | 65.000 | 0.00 | 0.00 | 0.00 | 3.86 |
1107 | 2193 | 1.429148 | CCACGTAGAAGCGGAATGGC | 61.429 | 60.000 | 0.00 | 0.00 | 35.98 | 4.40 |
1263 | 2349 | 1.115930 | ACTCTGTGCTCTCCGTTGGT | 61.116 | 55.000 | 0.00 | 0.00 | 0.00 | 3.67 |
1266 | 2352 | 1.271102 | GAGAACTCTGTGCTCTCCGTT | 59.729 | 52.381 | 0.00 | 0.00 | 35.44 | 4.44 |
1329 | 2415 | 4.373116 | TCCACGAAGAGCGCCCAC | 62.373 | 66.667 | 2.29 | 0.00 | 46.04 | 4.61 |
1478 | 2564 | 1.289109 | CCAGTTCTTGCGGTGGTACG | 61.289 | 60.000 | 0.00 | 0.00 | 0.00 | 3.67 |
1484 | 2570 | 1.371558 | GAGGACCAGTTCTTGCGGT | 59.628 | 57.895 | 0.00 | 0.00 | 35.12 | 5.68 |
1507 | 2593 | 2.684843 | GGCCGCAGTTGAAGAGCAG | 61.685 | 63.158 | 0.00 | 0.00 | 0.00 | 4.24 |
1593 | 2679 | 4.116328 | TCGTCGAGCCAGGCGAAG | 62.116 | 66.667 | 5.55 | 0.51 | 45.75 | 3.79 |
1734 | 2820 | 1.448013 | GCAGTCCTTGTACCGCTCC | 60.448 | 63.158 | 0.00 | 0.00 | 0.00 | 4.70 |
1800 | 2886 | 2.877866 | TCCACCTCGTCTTCTTTCTCT | 58.122 | 47.619 | 0.00 | 0.00 | 0.00 | 3.10 |
1814 | 2900 | 1.462238 | ACTCCTGTGCCTTCCACCT | 60.462 | 57.895 | 0.00 | 0.00 | 44.01 | 4.00 |
1824 | 2910 | 0.107993 | ACGATGATGGCACTCCTGTG | 60.108 | 55.000 | 0.00 | 0.00 | 46.37 | 3.66 |
1837 | 2923 | 2.341911 | TGCAACCGCAGACGATGA | 59.658 | 55.556 | 0.00 | 0.00 | 45.36 | 2.92 |
1848 | 2934 | 1.308069 | ATCATGCGTCCACTGCAACC | 61.308 | 55.000 | 0.00 | 0.00 | 46.87 | 3.77 |
1879 | 2965 | 4.456222 | TGGAAAACAACAAAGACGAACAGA | 59.544 | 37.500 | 0.00 | 0.00 | 0.00 | 3.41 |
1886 | 2972 | 8.702438 | CATGTCAATATGGAAAACAACAAAGAC | 58.298 | 33.333 | 0.00 | 0.00 | 0.00 | 3.01 |
1910 | 2996 | 1.596203 | CGCAGGGACATGATCGCAT | 60.596 | 57.895 | 0.00 | 0.00 | 42.75 | 4.73 |
1943 | 3031 | 6.315642 | TCGTCACAGTCATAGTAGGAACTAAG | 59.684 | 42.308 | 0.00 | 0.00 | 45.48 | 2.18 |
1960 | 3048 | 6.944557 | TTTTACATGATAGTGTCGTCACAG | 57.055 | 37.500 | 15.05 | 0.84 | 46.01 | 3.66 |
1968 | 3056 | 7.354312 | AGGGCCTTATTTTTACATGATAGTGT | 58.646 | 34.615 | 0.00 | 0.00 | 36.13 | 3.55 |
1969 | 3057 | 7.823745 | AGGGCCTTATTTTTACATGATAGTG | 57.176 | 36.000 | 0.00 | 0.00 | 0.00 | 2.74 |
2041 | 3129 | 5.208890 | GGGACTAAAGGCCCATTTTCTATT | 58.791 | 41.667 | 16.61 | 0.00 | 44.07 | 1.73 |
2042 | 3130 | 4.688874 | CGGGACTAAAGGCCCATTTTCTAT | 60.689 | 45.833 | 21.10 | 0.00 | 44.94 | 1.98 |
2102 | 3190 | 6.040878 | AGTCTTTAGTCGCGCATATTTAGTT | 58.959 | 36.000 | 8.75 | 0.00 | 0.00 | 2.24 |
2508 | 3600 | 7.721842 | TCCTAATTGTGTATGGAAACTTGTTCA | 59.278 | 33.333 | 0.00 | 0.00 | 0.00 | 3.18 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.