Multiple sequence alignment - TraesCS3B01G255900
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 | TraesCS3B01G255900 | chr3B | 100.000 | 2249 | 0 | 0 | 1 | 2249 | 413043795 | 413041547 | 0.000000e+00 | 4154.0 |
1 | TraesCS3B01G255900 | chr3B | 100.000 | 73 | 0 | 0 | 1679 | 1751 | 413042041 | 413041969 | 3.900000e-28 | 135.0 |
2 | TraesCS3B01G255900 | chr3B | 100.000 | 73 | 0 | 0 | 1755 | 1827 | 413042117 | 413042045 | 3.900000e-28 | 135.0 |
3 | TraesCS3B01G255900 | chr3A | 90.742 | 1793 | 92 | 29 | 1 | 1751 | 427758416 | 427760176 | 0.000000e+00 | 2324.0 |
4 | TraesCS3B01G255900 | chr3A | 92.000 | 125 | 6 | 2 | 1755 | 1879 | 427760104 | 427760224 | 2.970000e-39 | 172.0 |
5 | TraesCS3B01G255900 | chr3A | 87.037 | 54 | 4 | 3 | 329 | 380 | 746592027 | 746591975 | 8.680000e-05 | 58.4 |
6 | TraesCS3B01G255900 | chr3D | 95.560 | 901 | 22 | 6 | 858 | 1751 | 308264119 | 308265008 | 0.000000e+00 | 1426.0 |
7 | TraesCS3B01G255900 | chr3D | 83.524 | 613 | 55 | 26 | 232 | 819 | 308263522 | 308264113 | 4.250000e-147 | 531.0 |
8 | TraesCS3B01G255900 | chr3D | 89.888 | 267 | 21 | 3 | 1985 | 2249 | 308265086 | 308265348 | 2.770000e-89 | 339.0 |
9 | TraesCS3B01G255900 | chr3D | 92.800 | 125 | 2 | 4 | 1755 | 1879 | 308264938 | 308265055 | 8.260000e-40 | 174.0 |
10 | TraesCS3B01G255900 | chr3D | 89.623 | 106 | 4 | 3 | 1258 | 1363 | 16425298 | 16425200 | 6.520000e-26 | 128.0 |
11 | TraesCS3B01G255900 | chr3D | 84.848 | 66 | 7 | 3 | 312 | 377 | 354005566 | 354005628 | 1.860000e-06 | 63.9 |
12 | TraesCS3B01G255900 | chrUn | 77.847 | 641 | 91 | 34 | 7 | 623 | 3555951 | 3556564 | 1.280000e-92 | 350.0 |
13 | TraesCS3B01G255900 | chrUn | 77.605 | 643 | 91 | 36 | 7 | 623 | 340213901 | 340214516 | 7.690000e-90 | 340.0 |
14 | TraesCS3B01G255900 | chr7A | 85.235 | 149 | 12 | 6 | 1216 | 1363 | 343178961 | 343179100 | 6.470000e-31 | 145.0 |
15 | TraesCS3B01G255900 | chr2B | 84.564 | 149 | 14 | 8 | 1216 | 1363 | 551273284 | 551273144 | 3.010000e-29 | 139.0 |
16 | TraesCS3B01G255900 | chr6B | 83.893 | 149 | 15 | 5 | 1216 | 1363 | 10523181 | 10523041 | 1.400000e-27 | 134.0 |
17 | TraesCS3B01G255900 | chr6B | 87.826 | 115 | 6 | 4 | 1249 | 1363 | 10587377 | 10587271 | 6.520000e-26 | 128.0 |
18 | TraesCS3B01G255900 | chr4A | 83.108 | 148 | 18 | 3 | 1216 | 1363 | 697959557 | 697959417 | 6.520000e-26 | 128.0 |
19 | TraesCS3B01G255900 | chr5D | 81.208 | 149 | 20 | 5 | 1216 | 1363 | 117738149 | 117738290 | 1.830000e-21 | 113.0 |
20 | TraesCS3B01G255900 | chr7B | 87.755 | 49 | 5 | 1 | 308 | 356 | 495194423 | 495194470 | 3.120000e-04 | 56.5 |
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 | TraesCS3B01G255900 | chr3B | 413041547 | 413043795 | 2248 | True | 1474.666667 | 4154 | 100.000 | 1 | 2249 | 3 | chr3B.!!$R1 | 2248 |
1 | TraesCS3B01G255900 | chr3A | 427758416 | 427760224 | 1808 | False | 1248.000000 | 2324 | 91.371 | 1 | 1879 | 2 | chr3A.!!$F1 | 1878 |
2 | TraesCS3B01G255900 | chr3D | 308263522 | 308265348 | 1826 | False | 617.500000 | 1426 | 90.443 | 232 | 2249 | 4 | chr3D.!!$F2 | 2017 |
3 | TraesCS3B01G255900 | chrUn | 3555951 | 3556564 | 613 | False | 350.000000 | 350 | 77.847 | 7 | 623 | 1 | chrUn.!!$F1 | 616 |
4 | TraesCS3B01G255900 | chrUn | 340213901 | 340214516 | 615 | False | 340.000000 | 340 | 77.605 | 7 | 623 | 1 | chrUn.!!$F2 | 616 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
728 | 815 | 0.76489 | TGTTCCCTGTGCAGTTAGCT | 59.235 | 50.0 | 0.0 | 0.0 | 45.94 | 3.32 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1787 | 1888 | 0.040058 | TGGCCTCAATCAACTGGCAT | 59.96 | 50.0 | 3.32 | 0.0 | 46.53 | 4.4 | 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 |
---|---|---|---|---|---|---|---|---|---|
50 | 51 | 3.081804 | ACAATTTCCGAATCCTGGACAC | 58.918 | 45.455 | 0.00 | 0.00 | 34.56 | 3.67 |
122 | 123 | 8.873242 | AACAACGTGAACAAATTTCAAATTTC | 57.127 | 26.923 | 5.04 | 0.00 | 0.00 | 2.17 |
123 | 124 | 7.170114 | ACAACGTGAACAAATTTCAAATTTCG | 58.830 | 30.769 | 5.04 | 8.30 | 0.00 | 3.46 |
276 | 295 | 7.801752 | TGTGAACAAATTTTGAAAACCAGAAC | 58.198 | 30.769 | 15.81 | 2.42 | 0.00 | 3.01 |
311 | 332 | 8.661352 | ATTCAAGAAAATTTGAAACCACGAAT | 57.339 | 26.923 | 5.41 | 0.00 | 46.63 | 3.34 |
400 | 444 | 2.100749 | ACCCTGAGCCTTTTTCAAAACG | 59.899 | 45.455 | 0.00 | 0.00 | 0.00 | 3.60 |
402 | 446 | 3.316868 | CCCTGAGCCTTTTTCAAAACGTA | 59.683 | 43.478 | 0.00 | 0.00 | 0.00 | 3.57 |
558 | 615 | 8.981659 | TGAAAAGGGAGAAAGAAGAAAAGAAAT | 58.018 | 29.630 | 0.00 | 0.00 | 0.00 | 2.17 |
615 | 681 | 3.377439 | CAAAACCAGTAAAAACCGCCTC | 58.623 | 45.455 | 0.00 | 0.00 | 0.00 | 4.70 |
658 | 724 | 1.017177 | GCACGGTAAATCGACCAGCA | 61.017 | 55.000 | 0.00 | 0.00 | 39.72 | 4.41 |
659 | 725 | 0.999406 | CACGGTAAATCGACCAGCAG | 59.001 | 55.000 | 0.00 | 0.00 | 39.72 | 4.24 |
660 | 726 | 0.892755 | ACGGTAAATCGACCAGCAGA | 59.107 | 50.000 | 0.00 | 0.00 | 39.72 | 4.26 |
661 | 727 | 1.274167 | ACGGTAAATCGACCAGCAGAA | 59.726 | 47.619 | 0.00 | 0.00 | 39.72 | 3.02 |
662 | 728 | 2.289195 | ACGGTAAATCGACCAGCAGAAA | 60.289 | 45.455 | 0.00 | 0.00 | 39.72 | 2.52 |
663 | 729 | 2.739913 | CGGTAAATCGACCAGCAGAAAA | 59.260 | 45.455 | 0.00 | 0.00 | 39.72 | 2.29 |
664 | 730 | 3.181520 | CGGTAAATCGACCAGCAGAAAAG | 60.182 | 47.826 | 0.00 | 0.00 | 39.72 | 2.27 |
665 | 731 | 4.000988 | GGTAAATCGACCAGCAGAAAAGA | 58.999 | 43.478 | 0.00 | 0.00 | 39.51 | 2.52 |
666 | 732 | 4.454504 | GGTAAATCGACCAGCAGAAAAGAA | 59.545 | 41.667 | 0.00 | 0.00 | 39.51 | 2.52 |
667 | 733 | 5.048991 | GGTAAATCGACCAGCAGAAAAGAAA | 60.049 | 40.000 | 0.00 | 0.00 | 39.51 | 2.52 |
668 | 734 | 5.514274 | AAATCGACCAGCAGAAAAGAAAA | 57.486 | 34.783 | 0.00 | 0.00 | 0.00 | 2.29 |
669 | 735 | 5.712152 | AATCGACCAGCAGAAAAGAAAAT | 57.288 | 34.783 | 0.00 | 0.00 | 0.00 | 1.82 |
670 | 736 | 4.749245 | TCGACCAGCAGAAAAGAAAATC | 57.251 | 40.909 | 0.00 | 0.00 | 0.00 | 2.17 |
671 | 737 | 3.186409 | TCGACCAGCAGAAAAGAAAATCG | 59.814 | 43.478 | 0.00 | 0.00 | 0.00 | 3.34 |
672 | 738 | 3.186409 | CGACCAGCAGAAAAGAAAATCGA | 59.814 | 43.478 | 0.00 | 0.00 | 0.00 | 3.59 |
673 | 739 | 4.467735 | GACCAGCAGAAAAGAAAATCGAC | 58.532 | 43.478 | 0.00 | 0.00 | 0.00 | 4.20 |
674 | 740 | 3.253432 | ACCAGCAGAAAAGAAAATCGACC | 59.747 | 43.478 | 0.00 | 0.00 | 0.00 | 4.79 |
675 | 741 | 3.253188 | CCAGCAGAAAAGAAAATCGACCA | 59.747 | 43.478 | 0.00 | 0.00 | 0.00 | 4.02 |
676 | 742 | 4.470462 | CAGCAGAAAAGAAAATCGACCAG | 58.530 | 43.478 | 0.00 | 0.00 | 0.00 | 4.00 |
677 | 743 | 3.057946 | AGCAGAAAAGAAAATCGACCAGC | 60.058 | 43.478 | 0.00 | 0.00 | 0.00 | 4.85 |
728 | 815 | 0.764890 | TGTTCCCTGTGCAGTTAGCT | 59.235 | 50.000 | 0.00 | 0.00 | 45.94 | 3.32 |
751 | 845 | 6.626623 | GCTTCAAATAGAATGTCCACAATGCT | 60.627 | 38.462 | 0.00 | 0.00 | 35.25 | 3.79 |
795 | 889 | 6.041423 | AGTTTGGCCCAATTCAAAGATAAG | 57.959 | 37.500 | 0.00 | 0.00 | 34.11 | 1.73 |
822 | 916 | 2.091665 | CCCAATAGCATTTGAGGACCCT | 60.092 | 50.000 | 0.60 | 0.00 | 0.00 | 4.34 |
952 | 1050 | 2.283821 | GCATCCCCAAAGGCCACA | 60.284 | 61.111 | 5.01 | 0.00 | 34.51 | 4.17 |
1237 | 1335 | 4.709840 | GCTTGCTCCAGCTTCTGA | 57.290 | 55.556 | 0.00 | 0.00 | 42.66 | 3.27 |
1452 | 1552 | 6.833933 | TCTTGTTAGATACCTGAGATGCTACA | 59.166 | 38.462 | 0.00 | 0.00 | 0.00 | 2.74 |
1543 | 1644 | 5.323900 | CCTGATGCGTGTGTATGTTTTAAG | 58.676 | 41.667 | 0.00 | 0.00 | 0.00 | 1.85 |
1635 | 1736 | 2.031012 | TTGGTGCCTGACTGCTCG | 59.969 | 61.111 | 0.00 | 0.00 | 0.00 | 5.03 |
1647 | 1748 | 1.996191 | GACTGCTCGTTCATTCAGTCC | 59.004 | 52.381 | 9.39 | 0.00 | 45.73 | 3.85 |
1735 | 1836 | 0.333993 | AGTTGATTGAGGCCATGGCT | 59.666 | 50.000 | 34.70 | 21.29 | 42.48 | 4.75 |
1736 | 1837 | 1.565759 | AGTTGATTGAGGCCATGGCTA | 59.434 | 47.619 | 34.70 | 19.27 | 38.98 | 3.93 |
1737 | 1838 | 2.025037 | AGTTGATTGAGGCCATGGCTAA | 60.025 | 45.455 | 34.70 | 25.71 | 38.98 | 3.09 |
1738 | 1839 | 2.961062 | GTTGATTGAGGCCATGGCTAAT | 59.039 | 45.455 | 34.70 | 28.61 | 38.98 | 1.73 |
1739 | 1840 | 3.317455 | TGATTGAGGCCATGGCTAATT | 57.683 | 42.857 | 34.70 | 18.51 | 38.98 | 1.40 |
1740 | 1841 | 4.451891 | TGATTGAGGCCATGGCTAATTA | 57.548 | 40.909 | 34.70 | 23.75 | 38.98 | 1.40 |
1741 | 1842 | 4.401022 | TGATTGAGGCCATGGCTAATTAG | 58.599 | 43.478 | 34.70 | 8.20 | 38.98 | 1.73 |
1742 | 1843 | 3.951563 | TTGAGGCCATGGCTAATTAGT | 57.048 | 42.857 | 34.70 | 11.80 | 38.98 | 2.24 |
1743 | 1844 | 3.951563 | TGAGGCCATGGCTAATTAGTT | 57.048 | 42.857 | 34.70 | 11.25 | 38.98 | 2.24 |
1744 | 1845 | 5.381184 | TTGAGGCCATGGCTAATTAGTTA | 57.619 | 39.130 | 34.70 | 9.57 | 38.98 | 2.24 |
1745 | 1846 | 4.973168 | TGAGGCCATGGCTAATTAGTTAG | 58.027 | 43.478 | 34.70 | 0.76 | 38.98 | 2.34 |
1746 | 1847 | 4.412199 | TGAGGCCATGGCTAATTAGTTAGT | 59.588 | 41.667 | 34.70 | 6.34 | 38.98 | 2.24 |
1747 | 1848 | 4.974399 | AGGCCATGGCTAATTAGTTAGTC | 58.026 | 43.478 | 34.70 | 14.17 | 41.79 | 2.59 |
1748 | 1849 | 3.746492 | GGCCATGGCTAATTAGTTAGTCG | 59.254 | 47.826 | 34.70 | 0.00 | 43.84 | 4.18 |
1749 | 1850 | 4.377897 | GCCATGGCTAATTAGTTAGTCGT | 58.622 | 43.478 | 29.98 | 2.19 | 43.84 | 4.34 |
1754 | 1855 | 6.956299 | TGGCTAATTAGTTAGTCGTGAAAC | 57.044 | 37.500 | 13.91 | 0.00 | 43.84 | 2.78 |
1755 | 1856 | 6.457355 | TGGCTAATTAGTTAGTCGTGAAACA | 58.543 | 36.000 | 13.91 | 0.00 | 43.84 | 2.83 |
1756 | 1857 | 6.588756 | TGGCTAATTAGTTAGTCGTGAAACAG | 59.411 | 38.462 | 13.91 | 0.00 | 43.84 | 3.16 |
1757 | 1858 | 6.455246 | GGCTAATTAGTTAGTCGTGAAACAGC | 60.455 | 42.308 | 13.91 | 0.00 | 39.60 | 4.40 |
1758 | 1859 | 5.857822 | AATTAGTTAGTCGTGAAACAGCC | 57.142 | 39.130 | 0.00 | 0.00 | 35.74 | 4.85 |
1759 | 1860 | 4.595762 | TTAGTTAGTCGTGAAACAGCCT | 57.404 | 40.909 | 0.00 | 0.00 | 35.74 | 4.58 |
1760 | 1861 | 5.710513 | TTAGTTAGTCGTGAAACAGCCTA | 57.289 | 39.130 | 0.00 | 0.00 | 35.74 | 3.93 |
1761 | 1862 | 4.175787 | AGTTAGTCGTGAAACAGCCTAG | 57.824 | 45.455 | 0.00 | 0.00 | 35.74 | 3.02 |
1762 | 1863 | 3.825014 | AGTTAGTCGTGAAACAGCCTAGA | 59.175 | 43.478 | 0.00 | 0.00 | 35.74 | 2.43 |
1763 | 1864 | 4.463186 | AGTTAGTCGTGAAACAGCCTAGAT | 59.537 | 41.667 | 0.00 | 0.00 | 35.74 | 1.98 |
1764 | 1865 | 3.238108 | AGTCGTGAAACAGCCTAGATG | 57.762 | 47.619 | 0.00 | 0.00 | 35.74 | 2.90 |
1765 | 1866 | 2.093973 | AGTCGTGAAACAGCCTAGATGG | 60.094 | 50.000 | 0.00 | 0.00 | 35.74 | 3.51 |
1766 | 1867 | 2.094182 | GTCGTGAAACAGCCTAGATGGA | 60.094 | 50.000 | 0.00 | 0.00 | 34.93 | 3.41 |
1767 | 1868 | 2.766263 | TCGTGAAACAGCCTAGATGGAT | 59.234 | 45.455 | 0.00 | 0.00 | 34.93 | 3.41 |
1768 | 1869 | 3.197766 | TCGTGAAACAGCCTAGATGGATT | 59.802 | 43.478 | 0.00 | 0.00 | 34.93 | 3.01 |
1769 | 1870 | 3.941483 | CGTGAAACAGCCTAGATGGATTT | 59.059 | 43.478 | 0.00 | 0.00 | 34.93 | 2.17 |
1770 | 1871 | 5.105106 | TCGTGAAACAGCCTAGATGGATTTA | 60.105 | 40.000 | 0.00 | 0.00 | 34.93 | 1.40 |
1771 | 1872 | 5.760253 | CGTGAAACAGCCTAGATGGATTTAT | 59.240 | 40.000 | 0.00 | 0.00 | 34.93 | 1.40 |
1772 | 1873 | 6.293081 | CGTGAAACAGCCTAGATGGATTTATG | 60.293 | 42.308 | 0.00 | 0.00 | 34.93 | 1.90 |
1773 | 1874 | 6.016777 | GTGAAACAGCCTAGATGGATTTATGG | 60.017 | 42.308 | 0.00 | 0.00 | 35.28 | 2.74 |
1774 | 1875 | 5.912149 | AACAGCCTAGATGGATTTATGGA | 57.088 | 39.130 | 0.00 | 0.00 | 38.35 | 3.41 |
1775 | 1876 | 5.912149 | ACAGCCTAGATGGATTTATGGAA | 57.088 | 39.130 | 0.00 | 0.00 | 38.35 | 3.53 |
1776 | 1877 | 5.625150 | ACAGCCTAGATGGATTTATGGAAC | 58.375 | 41.667 | 0.00 | 0.00 | 38.35 | 3.62 |
1777 | 1878 | 5.132648 | ACAGCCTAGATGGATTTATGGAACA | 59.867 | 40.000 | 0.00 | 0.00 | 40.53 | 3.18 |
1778 | 1879 | 5.471456 | CAGCCTAGATGGATTTATGGAACAC | 59.529 | 44.000 | 0.00 | 0.00 | 39.14 | 3.32 |
1779 | 1880 | 4.762251 | GCCTAGATGGATTTATGGAACACC | 59.238 | 45.833 | 0.00 | 0.00 | 39.14 | 4.16 |
1780 | 1881 | 5.690097 | GCCTAGATGGATTTATGGAACACCA | 60.690 | 44.000 | 0.00 | 0.00 | 39.14 | 4.17 |
1781 | 1882 | 6.000219 | CCTAGATGGATTTATGGAACACCAG | 59.000 | 44.000 | 0.00 | 0.00 | 39.14 | 4.00 |
1782 | 1883 | 6.183361 | CCTAGATGGATTTATGGAACACCAGA | 60.183 | 42.308 | 0.00 | 0.00 | 39.14 | 3.86 |
1783 | 1884 | 7.637968 | CCTAGATGGATTTATGGAACACCAGAA | 60.638 | 40.741 | 0.00 | 0.00 | 39.14 | 3.02 |
1790 | 1891 | 0.889994 | TGGAACACCAGAATGCATGC | 59.110 | 50.000 | 11.82 | 11.82 | 31.97 | 4.06 |
1791 | 1892 | 0.174162 | GGAACACCAGAATGCATGCC | 59.826 | 55.000 | 16.68 | 0.00 | 31.97 | 4.40 |
1792 | 1893 | 0.889994 | GAACACCAGAATGCATGCCA | 59.110 | 50.000 | 16.68 | 3.52 | 31.97 | 4.92 |
1793 | 1894 | 0.892755 | AACACCAGAATGCATGCCAG | 59.107 | 50.000 | 16.68 | 0.00 | 31.97 | 4.85 |
1794 | 1895 | 0.251474 | ACACCAGAATGCATGCCAGT | 60.251 | 50.000 | 16.68 | 2.16 | 31.97 | 4.00 |
1795 | 1896 | 0.892755 | CACCAGAATGCATGCCAGTT | 59.107 | 50.000 | 16.68 | 7.53 | 31.97 | 3.16 |
1796 | 1897 | 0.892755 | ACCAGAATGCATGCCAGTTG | 59.107 | 50.000 | 16.68 | 8.68 | 31.97 | 3.16 |
1823 | 1924 | 4.974399 | AGGCCATGGCTAATTAGTTAGTC | 58.026 | 43.478 | 34.70 | 14.17 | 41.79 | 2.59 |
1861 | 1962 | 8.594550 | GGGACACACAGTTTATACCTGATATAT | 58.405 | 37.037 | 5.76 | 0.00 | 34.04 | 0.86 |
1889 | 1990 | 8.624776 | AGGTTGTTCTAAAGAATTGTCTTCTTG | 58.375 | 33.333 | 1.28 | 0.00 | 43.59 | 3.02 |
1908 | 2009 | 5.830912 | TCTTGTAAAGGAACTGCAATGTTG | 58.169 | 37.500 | 0.00 | 0.00 | 46.24 | 3.33 |
1910 | 2011 | 5.590530 | TGTAAAGGAACTGCAATGTTGTT | 57.409 | 34.783 | 0.00 | 0.00 | 40.86 | 2.83 |
1924 | 2028 | 2.790433 | TGTTGTTAAGCTGTCATCCCC | 58.210 | 47.619 | 0.00 | 0.00 | 0.00 | 4.81 |
1925 | 2029 | 2.375174 | TGTTGTTAAGCTGTCATCCCCT | 59.625 | 45.455 | 0.00 | 0.00 | 0.00 | 4.79 |
1926 | 2030 | 3.010420 | GTTGTTAAGCTGTCATCCCCTC | 58.990 | 50.000 | 0.00 | 0.00 | 0.00 | 4.30 |
1927 | 2031 | 1.207089 | TGTTAAGCTGTCATCCCCTCG | 59.793 | 52.381 | 0.00 | 0.00 | 0.00 | 4.63 |
1928 | 2032 | 0.178068 | TTAAGCTGTCATCCCCTCGC | 59.822 | 55.000 | 0.00 | 0.00 | 0.00 | 5.03 |
1929 | 2033 | 0.975556 | TAAGCTGTCATCCCCTCGCA | 60.976 | 55.000 | 0.00 | 0.00 | 0.00 | 5.10 |
1930 | 2034 | 1.841302 | AAGCTGTCATCCCCTCGCAA | 61.841 | 55.000 | 0.00 | 0.00 | 0.00 | 4.85 |
1931 | 2035 | 2.109126 | GCTGTCATCCCCTCGCAAC | 61.109 | 63.158 | 0.00 | 0.00 | 0.00 | 4.17 |
1932 | 2036 | 1.599047 | CTGTCATCCCCTCGCAACT | 59.401 | 57.895 | 0.00 | 0.00 | 0.00 | 3.16 |
1933 | 2037 | 0.742281 | CTGTCATCCCCTCGCAACTG | 60.742 | 60.000 | 0.00 | 0.00 | 0.00 | 3.16 |
1934 | 2038 | 1.296715 | GTCATCCCCTCGCAACTGT | 59.703 | 57.895 | 0.00 | 0.00 | 0.00 | 3.55 |
1935 | 2039 | 1.021390 | GTCATCCCCTCGCAACTGTG | 61.021 | 60.000 | 0.00 | 0.00 | 0.00 | 3.66 |
1936 | 2040 | 1.191489 | TCATCCCCTCGCAACTGTGA | 61.191 | 55.000 | 0.00 | 0.00 | 0.00 | 3.58 |
1937 | 2041 | 0.321564 | CATCCCCTCGCAACTGTGAA | 60.322 | 55.000 | 0.00 | 0.00 | 33.75 | 3.18 |
1938 | 2042 | 0.400213 | ATCCCCTCGCAACTGTGAAA | 59.600 | 50.000 | 0.00 | 0.00 | 33.75 | 2.69 |
1939 | 2043 | 0.400213 | TCCCCTCGCAACTGTGAAAT | 59.600 | 50.000 | 0.00 | 0.00 | 33.75 | 2.17 |
1940 | 2044 | 0.804989 | CCCCTCGCAACTGTGAAATC | 59.195 | 55.000 | 0.00 | 0.00 | 33.75 | 2.17 |
1941 | 2045 | 1.522668 | CCCTCGCAACTGTGAAATCA | 58.477 | 50.000 | 0.00 | 0.00 | 33.75 | 2.57 |
1942 | 2046 | 2.086869 | CCCTCGCAACTGTGAAATCAT | 58.913 | 47.619 | 0.00 | 0.00 | 33.75 | 2.45 |
1943 | 2047 | 2.489329 | CCCTCGCAACTGTGAAATCATT | 59.511 | 45.455 | 0.00 | 0.00 | 33.75 | 2.57 |
1944 | 2048 | 3.057315 | CCCTCGCAACTGTGAAATCATTT | 60.057 | 43.478 | 0.00 | 0.00 | 33.75 | 2.32 |
1945 | 2049 | 3.916172 | CCTCGCAACTGTGAAATCATTTG | 59.084 | 43.478 | 0.00 | 0.00 | 33.75 | 2.32 |
1946 | 2050 | 4.539870 | CTCGCAACTGTGAAATCATTTGT | 58.460 | 39.130 | 0.00 | 0.00 | 33.75 | 2.83 |
1947 | 2051 | 4.536065 | TCGCAACTGTGAAATCATTTGTC | 58.464 | 39.130 | 0.00 | 0.00 | 32.89 | 3.18 |
1948 | 2052 | 4.036144 | TCGCAACTGTGAAATCATTTGTCA | 59.964 | 37.500 | 0.00 | 0.00 | 32.89 | 3.58 |
1949 | 2053 | 4.146961 | CGCAACTGTGAAATCATTTGTCAC | 59.853 | 41.667 | 0.00 | 0.00 | 41.66 | 3.67 |
1950 | 2054 | 4.445385 | GCAACTGTGAAATCATTTGTCACC | 59.555 | 41.667 | 0.63 | 0.00 | 40.79 | 4.02 |
1951 | 2055 | 4.853924 | ACTGTGAAATCATTTGTCACCC | 57.146 | 40.909 | 0.63 | 0.00 | 40.79 | 4.61 |
1952 | 2056 | 4.473444 | ACTGTGAAATCATTTGTCACCCT | 58.527 | 39.130 | 0.63 | 0.00 | 40.79 | 4.34 |
1953 | 2057 | 4.520492 | ACTGTGAAATCATTTGTCACCCTC | 59.480 | 41.667 | 0.63 | 0.00 | 40.79 | 4.30 |
1954 | 2058 | 3.826157 | TGTGAAATCATTTGTCACCCTCC | 59.174 | 43.478 | 0.63 | 0.00 | 40.79 | 4.30 |
1955 | 2059 | 3.826157 | GTGAAATCATTTGTCACCCTCCA | 59.174 | 43.478 | 0.00 | 0.00 | 36.48 | 3.86 |
1956 | 2060 | 4.280677 | GTGAAATCATTTGTCACCCTCCAA | 59.719 | 41.667 | 0.00 | 0.00 | 36.48 | 3.53 |
1957 | 2061 | 4.523943 | TGAAATCATTTGTCACCCTCCAAG | 59.476 | 41.667 | 0.00 | 0.00 | 0.00 | 3.61 |
1958 | 2062 | 1.909700 | TCATTTGTCACCCTCCAAGC | 58.090 | 50.000 | 0.00 | 0.00 | 0.00 | 4.01 |
1959 | 2063 | 0.523072 | CATTTGTCACCCTCCAAGCG | 59.477 | 55.000 | 0.00 | 0.00 | 0.00 | 4.68 |
1960 | 2064 | 0.400213 | ATTTGTCACCCTCCAAGCGA | 59.600 | 50.000 | 0.00 | 0.00 | 0.00 | 4.93 |
1961 | 2065 | 0.181587 | TTTGTCACCCTCCAAGCGAA | 59.818 | 50.000 | 0.00 | 0.00 | 0.00 | 4.70 |
1962 | 2066 | 0.534203 | TTGTCACCCTCCAAGCGAAC | 60.534 | 55.000 | 0.00 | 0.00 | 0.00 | 3.95 |
1963 | 2067 | 1.070786 | GTCACCCTCCAAGCGAACA | 59.929 | 57.895 | 0.00 | 0.00 | 0.00 | 3.18 |
1964 | 2068 | 0.321653 | GTCACCCTCCAAGCGAACAT | 60.322 | 55.000 | 0.00 | 0.00 | 0.00 | 2.71 |
1965 | 2069 | 0.400213 | TCACCCTCCAAGCGAACATT | 59.600 | 50.000 | 0.00 | 0.00 | 0.00 | 2.71 |
1966 | 2070 | 0.804989 | CACCCTCCAAGCGAACATTC | 59.195 | 55.000 | 0.00 | 0.00 | 0.00 | 2.67 |
1967 | 2071 | 0.400213 | ACCCTCCAAGCGAACATTCA | 59.600 | 50.000 | 0.00 | 0.00 | 0.00 | 2.57 |
1968 | 2072 | 0.804989 | CCCTCCAAGCGAACATTCAC | 59.195 | 55.000 | 0.00 | 0.00 | 0.00 | 3.18 |
1969 | 2073 | 0.804989 | CCTCCAAGCGAACATTCACC | 59.195 | 55.000 | 0.00 | 0.00 | 0.00 | 4.02 |
1970 | 2074 | 1.522668 | CTCCAAGCGAACATTCACCA | 58.477 | 50.000 | 0.00 | 0.00 | 0.00 | 4.17 |
1971 | 2075 | 1.466167 | CTCCAAGCGAACATTCACCAG | 59.534 | 52.381 | 0.00 | 0.00 | 0.00 | 4.00 |
1972 | 2076 | 0.109597 | CCAAGCGAACATTCACCAGC | 60.110 | 55.000 | 0.00 | 0.00 | 0.00 | 4.85 |
1973 | 2077 | 0.877071 | CAAGCGAACATTCACCAGCT | 59.123 | 50.000 | 0.00 | 0.00 | 36.40 | 4.24 |
1974 | 2078 | 2.076100 | CAAGCGAACATTCACCAGCTA | 58.924 | 47.619 | 0.00 | 0.00 | 34.24 | 3.32 |
1975 | 2079 | 2.472695 | AGCGAACATTCACCAGCTAA | 57.527 | 45.000 | 0.00 | 0.00 | 32.73 | 3.09 |
1976 | 2080 | 2.350522 | AGCGAACATTCACCAGCTAAG | 58.649 | 47.619 | 0.00 | 0.00 | 32.73 | 2.18 |
1977 | 2081 | 1.398390 | GCGAACATTCACCAGCTAAGG | 59.602 | 52.381 | 0.00 | 0.00 | 0.00 | 2.69 |
1978 | 2082 | 2.009774 | CGAACATTCACCAGCTAAGGG | 58.990 | 52.381 | 0.00 | 0.00 | 0.00 | 3.95 |
1979 | 2083 | 2.615493 | CGAACATTCACCAGCTAAGGGT | 60.615 | 50.000 | 0.00 | 0.00 | 39.88 | 4.34 |
1980 | 2084 | 2.789409 | ACATTCACCAGCTAAGGGTC | 57.211 | 50.000 | 0.00 | 0.00 | 36.19 | 4.46 |
1981 | 2085 | 1.282157 | ACATTCACCAGCTAAGGGTCC | 59.718 | 52.381 | 0.00 | 0.00 | 36.19 | 4.46 |
1982 | 2086 | 1.561542 | CATTCACCAGCTAAGGGTCCT | 59.438 | 52.381 | 0.00 | 0.00 | 36.19 | 3.85 |
1983 | 2087 | 1.742308 | TTCACCAGCTAAGGGTCCTT | 58.258 | 50.000 | 7.47 | 7.47 | 36.19 | 3.36 |
2033 | 2137 | 3.889196 | GTGTTTAACGATTGCCACAGA | 57.111 | 42.857 | 0.00 | 0.00 | 0.00 | 3.41 |
2036 | 2141 | 5.219633 | GTGTTTAACGATTGCCACAGAAAT | 58.780 | 37.500 | 0.00 | 0.00 | 0.00 | 2.17 |
2042 | 2147 | 3.494251 | ACGATTGCCACAGAAATTTTTGC | 59.506 | 39.130 | 8.55 | 0.95 | 0.00 | 3.68 |
2045 | 2150 | 3.383620 | TGCCACAGAAATTTTTGCGAT | 57.616 | 38.095 | 8.55 | 0.00 | 0.00 | 4.58 |
2054 | 2159 | 6.128172 | ACAGAAATTTTTGCGATGAGGACTAG | 60.128 | 38.462 | 8.55 | 0.00 | 0.00 | 2.57 |
2056 | 2161 | 5.803020 | AATTTTTGCGATGAGGACTAGAC | 57.197 | 39.130 | 0.00 | 0.00 | 0.00 | 2.59 |
2069 | 2174 | 4.369182 | AGGACTAGACAGACAACGTTTTG | 58.631 | 43.478 | 0.00 | 0.00 | 38.83 | 2.44 |
2070 | 2175 | 3.059800 | GGACTAGACAGACAACGTTTTGC | 60.060 | 47.826 | 0.00 | 0.00 | 36.00 | 3.68 |
2096 | 2201 | 7.494625 | CCGTTGTATGGTGTCTAATTTCATACT | 59.505 | 37.037 | 0.00 | 0.00 | 40.18 | 2.12 |
2097 | 2202 | 9.524106 | CGTTGTATGGTGTCTAATTTCATACTA | 57.476 | 33.333 | 0.00 | 0.00 | 40.18 | 1.82 |
2229 | 2334 | 6.989759 | TCACACTTCTGTTTGTGTACATGTAT | 59.010 | 34.615 | 9.18 | 0.00 | 44.43 | 2.29 |
2235 | 2340 | 7.716768 | TCTGTTTGTGTACATGTATTTCGAA | 57.283 | 32.000 | 9.18 | 0.00 | 0.00 | 3.71 |
2237 | 2342 | 8.779303 | TCTGTTTGTGTACATGTATTTCGAATT | 58.221 | 29.630 | 9.18 | 0.00 | 0.00 | 2.17 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
32 | 33 | 3.721087 | AAGTGTCCAGGATTCGGAAAT | 57.279 | 42.857 | 0.00 | 0.00 | 33.29 | 2.17 |
79 | 80 | 7.060059 | CACGTTGTTAAATAAATGTTCGCATGA | 59.940 | 33.333 | 0.00 | 0.00 | 37.97 | 3.07 |
129 | 130 | 9.906660 | TTCTTGAAAATTTGCTCACGTTTATAT | 57.093 | 25.926 | 0.00 | 0.00 | 0.00 | 0.86 |
153 | 154 | 9.097257 | TCAAAATTTCAAGAAATGACCACTTTC | 57.903 | 29.630 | 8.66 | 0.00 | 40.57 | 2.62 |
347 | 369 | 8.862325 | AAGTTCCCTTTTTCTGAAATTTGTTT | 57.138 | 26.923 | 3.31 | 0.00 | 0.00 | 2.83 |
483 | 529 | 9.835389 | TCCTTTTCAATTCATGTCTTTTTCAAT | 57.165 | 25.926 | 0.00 | 0.00 | 0.00 | 2.57 |
485 | 531 | 9.664332 | TTTCCTTTTCAATTCATGTCTTTTTCA | 57.336 | 25.926 | 0.00 | 0.00 | 0.00 | 2.69 |
486 | 532 | 9.920826 | GTTTCCTTTTCAATTCATGTCTTTTTC | 57.079 | 29.630 | 0.00 | 0.00 | 0.00 | 2.29 |
487 | 533 | 9.447157 | TGTTTCCTTTTCAATTCATGTCTTTTT | 57.553 | 25.926 | 0.00 | 0.00 | 0.00 | 1.94 |
488 | 534 | 9.101655 | CTGTTTCCTTTTCAATTCATGTCTTTT | 57.898 | 29.630 | 0.00 | 0.00 | 0.00 | 2.27 |
489 | 535 | 8.477256 | TCTGTTTCCTTTTCAATTCATGTCTTT | 58.523 | 29.630 | 0.00 | 0.00 | 0.00 | 2.52 |
490 | 536 | 8.010733 | TCTGTTTCCTTTTCAATTCATGTCTT | 57.989 | 30.769 | 0.00 | 0.00 | 0.00 | 3.01 |
491 | 537 | 7.587037 | TCTGTTTCCTTTTCAATTCATGTCT | 57.413 | 32.000 | 0.00 | 0.00 | 0.00 | 3.41 |
492 | 538 | 8.647143 | TTTCTGTTTCCTTTTCAATTCATGTC | 57.353 | 30.769 | 0.00 | 0.00 | 0.00 | 3.06 |
493 | 539 | 9.447157 | TTTTTCTGTTTCCTTTTCAATTCATGT | 57.553 | 25.926 | 0.00 | 0.00 | 0.00 | 3.21 |
523 | 580 | 9.468532 | CTTCTTTCTCCCTTTTCAAGTTTTATG | 57.531 | 33.333 | 0.00 | 0.00 | 0.00 | 1.90 |
615 | 681 | 1.747745 | GATCCCGGTTTGGTTCCCG | 60.748 | 63.158 | 0.00 | 0.00 | 43.82 | 5.14 |
658 | 724 | 4.023707 | CACTGCTGGTCGATTTTCTTTTCT | 60.024 | 41.667 | 0.00 | 0.00 | 0.00 | 2.52 |
659 | 725 | 4.222114 | CACTGCTGGTCGATTTTCTTTTC | 58.778 | 43.478 | 0.00 | 0.00 | 0.00 | 2.29 |
660 | 726 | 3.004734 | CCACTGCTGGTCGATTTTCTTTT | 59.995 | 43.478 | 0.00 | 0.00 | 32.03 | 2.27 |
661 | 727 | 2.554032 | CCACTGCTGGTCGATTTTCTTT | 59.446 | 45.455 | 0.00 | 0.00 | 32.03 | 2.52 |
662 | 728 | 2.154462 | CCACTGCTGGTCGATTTTCTT | 58.846 | 47.619 | 0.00 | 0.00 | 32.03 | 2.52 |
663 | 729 | 1.611673 | CCCACTGCTGGTCGATTTTCT | 60.612 | 52.381 | 0.00 | 0.00 | 35.46 | 2.52 |
664 | 730 | 0.804989 | CCCACTGCTGGTCGATTTTC | 59.195 | 55.000 | 0.00 | 0.00 | 35.46 | 2.29 |
665 | 731 | 1.244019 | GCCCACTGCTGGTCGATTTT | 61.244 | 55.000 | 0.00 | 0.00 | 35.46 | 1.82 |
666 | 732 | 1.675641 | GCCCACTGCTGGTCGATTT | 60.676 | 57.895 | 0.00 | 0.00 | 35.46 | 2.17 |
667 | 733 | 2.045926 | GCCCACTGCTGGTCGATT | 60.046 | 61.111 | 0.00 | 0.00 | 35.46 | 3.34 |
668 | 734 | 4.101448 | GGCCCACTGCTGGTCGAT | 62.101 | 66.667 | 0.00 | 0.00 | 40.92 | 3.59 |
728 | 815 | 6.433716 | TGAGCATTGTGGACATTCTATTTGAA | 59.566 | 34.615 | 0.00 | 0.00 | 39.24 | 2.69 |
751 | 845 | 1.003839 | CCAAGTAACCAGGCGCTGA | 60.004 | 57.895 | 7.64 | 0.00 | 32.44 | 4.26 |
795 | 889 | 2.555757 | CTCAAATGCTATTGGGCTAGGC | 59.444 | 50.000 | 8.00 | 8.00 | 0.00 | 3.93 |
935 | 1033 | 1.679559 | GATGTGGCCTTTGGGGATGC | 61.680 | 60.000 | 3.32 | 0.00 | 37.23 | 3.91 |
952 | 1050 | 2.168728 | GCTGGACGAAAACCCTAGAGAT | 59.831 | 50.000 | 0.00 | 0.00 | 0.00 | 2.75 |
1046 | 1144 | 4.194720 | CGGACGAGCCCCTCTTCG | 62.195 | 72.222 | 0.00 | 0.00 | 30.83 | 3.79 |
1237 | 1335 | 1.345715 | GGATTGGATCAGACGGGGGT | 61.346 | 60.000 | 0.00 | 0.00 | 0.00 | 4.95 |
1635 | 1736 | 4.437930 | GCTAGCATTGTGGACTGAATGAAC | 60.438 | 45.833 | 10.63 | 0.00 | 32.24 | 3.18 |
1672 | 1773 | 3.939740 | AATCCATCTAGGCTGCTGAAA | 57.060 | 42.857 | 0.00 | 0.00 | 37.29 | 2.69 |
1735 | 1836 | 6.694447 | AGGCTGTTTCACGACTAACTAATTA | 58.306 | 36.000 | 0.00 | 0.00 | 0.00 | 1.40 |
1736 | 1837 | 5.548406 | AGGCTGTTTCACGACTAACTAATT | 58.452 | 37.500 | 0.00 | 0.00 | 0.00 | 1.40 |
1737 | 1838 | 5.148651 | AGGCTGTTTCACGACTAACTAAT | 57.851 | 39.130 | 0.00 | 0.00 | 0.00 | 1.73 |
1738 | 1839 | 4.595762 | AGGCTGTTTCACGACTAACTAA | 57.404 | 40.909 | 0.00 | 0.00 | 0.00 | 2.24 |
1739 | 1840 | 5.005740 | TCTAGGCTGTTTCACGACTAACTA | 58.994 | 41.667 | 0.00 | 0.00 | 0.00 | 2.24 |
1740 | 1841 | 3.825014 | TCTAGGCTGTTTCACGACTAACT | 59.175 | 43.478 | 0.00 | 0.00 | 0.00 | 2.24 |
1741 | 1842 | 4.170292 | TCTAGGCTGTTTCACGACTAAC | 57.830 | 45.455 | 0.00 | 0.00 | 0.00 | 2.34 |
1742 | 1843 | 4.381612 | CCATCTAGGCTGTTTCACGACTAA | 60.382 | 45.833 | 0.00 | 0.00 | 0.00 | 2.24 |
1743 | 1844 | 3.130516 | CCATCTAGGCTGTTTCACGACTA | 59.869 | 47.826 | 0.00 | 0.00 | 0.00 | 2.59 |
1744 | 1845 | 2.093973 | CCATCTAGGCTGTTTCACGACT | 60.094 | 50.000 | 0.00 | 0.00 | 0.00 | 4.18 |
1745 | 1846 | 2.094182 | TCCATCTAGGCTGTTTCACGAC | 60.094 | 50.000 | 0.00 | 0.00 | 37.29 | 4.34 |
1746 | 1847 | 2.176045 | TCCATCTAGGCTGTTTCACGA | 58.824 | 47.619 | 0.00 | 0.00 | 37.29 | 4.35 |
1747 | 1848 | 2.672961 | TCCATCTAGGCTGTTTCACG | 57.327 | 50.000 | 0.00 | 0.00 | 37.29 | 4.35 |
1748 | 1849 | 6.016777 | CCATAAATCCATCTAGGCTGTTTCAC | 60.017 | 42.308 | 0.00 | 0.00 | 37.29 | 3.18 |
1749 | 1850 | 6.064060 | CCATAAATCCATCTAGGCTGTTTCA | 58.936 | 40.000 | 0.00 | 0.00 | 37.29 | 2.69 |
1750 | 1851 | 6.299141 | TCCATAAATCCATCTAGGCTGTTTC | 58.701 | 40.000 | 0.00 | 0.00 | 37.29 | 2.78 |
1751 | 1852 | 6.266131 | TCCATAAATCCATCTAGGCTGTTT | 57.734 | 37.500 | 0.00 | 0.00 | 37.29 | 2.83 |
1752 | 1853 | 5.912149 | TCCATAAATCCATCTAGGCTGTT | 57.088 | 39.130 | 0.00 | 0.00 | 37.29 | 3.16 |
1753 | 1854 | 5.132648 | TGTTCCATAAATCCATCTAGGCTGT | 59.867 | 40.000 | 0.00 | 0.00 | 37.29 | 4.40 |
1754 | 1855 | 5.471456 | GTGTTCCATAAATCCATCTAGGCTG | 59.529 | 44.000 | 0.00 | 0.00 | 37.29 | 4.85 |
1755 | 1856 | 5.456763 | GGTGTTCCATAAATCCATCTAGGCT | 60.457 | 44.000 | 0.00 | 0.00 | 37.29 | 4.58 |
1756 | 1857 | 4.762251 | GGTGTTCCATAAATCCATCTAGGC | 59.238 | 45.833 | 0.00 | 0.00 | 37.29 | 3.93 |
1757 | 1858 | 5.940617 | TGGTGTTCCATAAATCCATCTAGG | 58.059 | 41.667 | 0.00 | 0.00 | 39.03 | 3.02 |
1758 | 1859 | 6.830912 | TCTGGTGTTCCATAAATCCATCTAG | 58.169 | 40.000 | 0.00 | 0.00 | 43.43 | 2.43 |
1759 | 1860 | 6.823286 | TCTGGTGTTCCATAAATCCATCTA | 57.177 | 37.500 | 0.00 | 0.00 | 43.43 | 1.98 |
1760 | 1861 | 5.715439 | TCTGGTGTTCCATAAATCCATCT | 57.285 | 39.130 | 0.00 | 0.00 | 43.43 | 2.90 |
1761 | 1862 | 6.736794 | GCATTCTGGTGTTCCATAAATCCATC | 60.737 | 42.308 | 0.00 | 0.00 | 43.43 | 3.51 |
1762 | 1863 | 5.069516 | GCATTCTGGTGTTCCATAAATCCAT | 59.930 | 40.000 | 0.00 | 0.00 | 43.43 | 3.41 |
1763 | 1864 | 4.402155 | GCATTCTGGTGTTCCATAAATCCA | 59.598 | 41.667 | 0.00 | 0.00 | 43.43 | 3.41 |
1764 | 1865 | 4.402155 | TGCATTCTGGTGTTCCATAAATCC | 59.598 | 41.667 | 0.00 | 0.00 | 43.43 | 3.01 |
1765 | 1866 | 5.581126 | TGCATTCTGGTGTTCCATAAATC | 57.419 | 39.130 | 0.00 | 0.00 | 43.43 | 2.17 |
1766 | 1867 | 5.682990 | GCATGCATTCTGGTGTTCCATAAAT | 60.683 | 40.000 | 14.21 | 0.00 | 43.43 | 1.40 |
1767 | 1868 | 4.381825 | GCATGCATTCTGGTGTTCCATAAA | 60.382 | 41.667 | 14.21 | 0.00 | 43.43 | 1.40 |
1768 | 1869 | 3.130869 | GCATGCATTCTGGTGTTCCATAA | 59.869 | 43.478 | 14.21 | 0.00 | 43.43 | 1.90 |
1769 | 1870 | 2.689471 | GCATGCATTCTGGTGTTCCATA | 59.311 | 45.455 | 14.21 | 0.00 | 43.43 | 2.74 |
1770 | 1871 | 1.479323 | GCATGCATTCTGGTGTTCCAT | 59.521 | 47.619 | 14.21 | 0.00 | 43.43 | 3.41 |
1771 | 1872 | 0.889994 | GCATGCATTCTGGTGTTCCA | 59.110 | 50.000 | 14.21 | 0.00 | 42.05 | 3.53 |
1772 | 1873 | 0.174162 | GGCATGCATTCTGGTGTTCC | 59.826 | 55.000 | 21.36 | 0.00 | 0.00 | 3.62 |
1773 | 1874 | 0.889994 | TGGCATGCATTCTGGTGTTC | 59.110 | 50.000 | 21.36 | 0.00 | 0.00 | 3.18 |
1774 | 1875 | 0.892755 | CTGGCATGCATTCTGGTGTT | 59.107 | 50.000 | 21.36 | 0.00 | 0.00 | 3.32 |
1775 | 1876 | 0.251474 | ACTGGCATGCATTCTGGTGT | 60.251 | 50.000 | 21.36 | 2.91 | 0.00 | 4.16 |
1776 | 1877 | 0.892755 | AACTGGCATGCATTCTGGTG | 59.107 | 50.000 | 21.36 | 2.29 | 0.00 | 4.17 |
1777 | 1878 | 0.892755 | CAACTGGCATGCATTCTGGT | 59.107 | 50.000 | 21.36 | 1.77 | 0.00 | 4.00 |
1778 | 1879 | 1.179152 | TCAACTGGCATGCATTCTGG | 58.821 | 50.000 | 21.36 | 4.08 | 0.00 | 3.86 |
1779 | 1880 | 3.119280 | TCAATCAACTGGCATGCATTCTG | 60.119 | 43.478 | 21.36 | 11.10 | 0.00 | 3.02 |
1780 | 1881 | 3.093814 | TCAATCAACTGGCATGCATTCT | 58.906 | 40.909 | 21.36 | 0.00 | 0.00 | 2.40 |
1781 | 1882 | 3.444916 | CTCAATCAACTGGCATGCATTC | 58.555 | 45.455 | 21.36 | 2.31 | 0.00 | 2.67 |
1782 | 1883 | 2.167693 | CCTCAATCAACTGGCATGCATT | 59.832 | 45.455 | 21.36 | 7.67 | 0.00 | 3.56 |
1783 | 1884 | 1.754803 | CCTCAATCAACTGGCATGCAT | 59.245 | 47.619 | 21.36 | 0.55 | 0.00 | 3.96 |
1784 | 1885 | 1.179152 | CCTCAATCAACTGGCATGCA | 58.821 | 50.000 | 21.36 | 4.79 | 0.00 | 3.96 |
1785 | 1886 | 0.179119 | GCCTCAATCAACTGGCATGC | 60.179 | 55.000 | 9.90 | 9.90 | 44.34 | 4.06 |
1786 | 1887 | 0.458669 | GGCCTCAATCAACTGGCATG | 59.541 | 55.000 | 0.00 | 0.00 | 46.53 | 4.06 |
1787 | 1888 | 0.040058 | TGGCCTCAATCAACTGGCAT | 59.960 | 50.000 | 3.32 | 0.00 | 46.53 | 4.40 |
1788 | 1889 | 0.040058 | ATGGCCTCAATCAACTGGCA | 59.960 | 50.000 | 3.32 | 0.00 | 46.53 | 4.92 |
1789 | 1890 | 0.458669 | CATGGCCTCAATCAACTGGC | 59.541 | 55.000 | 3.32 | 0.00 | 44.22 | 4.85 |
1790 | 1891 | 1.108776 | CCATGGCCTCAATCAACTGG | 58.891 | 55.000 | 3.32 | 0.00 | 0.00 | 4.00 |
1791 | 1892 | 0.458669 | GCCATGGCCTCAATCAACTG | 59.541 | 55.000 | 27.24 | 0.00 | 34.56 | 3.16 |
1792 | 1893 | 0.333993 | AGCCATGGCCTCAATCAACT | 59.666 | 50.000 | 33.14 | 7.61 | 43.17 | 3.16 |
1793 | 1894 | 2.057137 | TAGCCATGGCCTCAATCAAC | 57.943 | 50.000 | 33.14 | 1.44 | 43.17 | 3.18 |
1794 | 1895 | 2.824689 | TTAGCCATGGCCTCAATCAA | 57.175 | 45.000 | 33.14 | 12.54 | 43.17 | 2.57 |
1795 | 1896 | 3.317455 | AATTAGCCATGGCCTCAATCA | 57.683 | 42.857 | 33.14 | 6.16 | 43.17 | 2.57 |
1796 | 1897 | 4.401925 | ACTAATTAGCCATGGCCTCAATC | 58.598 | 43.478 | 33.14 | 3.90 | 43.17 | 2.67 |
1823 | 1924 | 0.805614 | TGTGTCCCAACAACAACACG | 59.194 | 50.000 | 0.00 | 0.00 | 43.81 | 4.49 |
1861 | 1962 | 9.847224 | AGAAGACAATTCTTTAGAACAACCTTA | 57.153 | 29.630 | 0.00 | 0.00 | 42.53 | 2.69 |
1862 | 1963 | 8.753497 | AGAAGACAATTCTTTAGAACAACCTT | 57.247 | 30.769 | 0.00 | 0.00 | 42.53 | 3.50 |
1863 | 1964 | 8.624776 | CAAGAAGACAATTCTTTAGAACAACCT | 58.375 | 33.333 | 0.21 | 0.00 | 42.53 | 3.50 |
1864 | 1965 | 8.406297 | ACAAGAAGACAATTCTTTAGAACAACC | 58.594 | 33.333 | 0.21 | 0.00 | 42.53 | 3.77 |
1873 | 1974 | 9.190317 | AGTTCCTTTACAAGAAGACAATTCTTT | 57.810 | 29.630 | 0.21 | 0.00 | 42.53 | 2.52 |
1874 | 1975 | 8.624776 | CAGTTCCTTTACAAGAAGACAATTCTT | 58.375 | 33.333 | 0.00 | 0.00 | 45.35 | 2.52 |
1875 | 1976 | 7.255277 | GCAGTTCCTTTACAAGAAGACAATTCT | 60.255 | 37.037 | 0.00 | 0.00 | 0.00 | 2.40 |
1876 | 1977 | 6.858478 | GCAGTTCCTTTACAAGAAGACAATTC | 59.142 | 38.462 | 0.00 | 0.00 | 0.00 | 2.17 |
1877 | 1978 | 6.321181 | TGCAGTTCCTTTACAAGAAGACAATT | 59.679 | 34.615 | 0.00 | 0.00 | 0.00 | 2.32 |
1878 | 1979 | 5.827797 | TGCAGTTCCTTTACAAGAAGACAAT | 59.172 | 36.000 | 0.00 | 0.00 | 0.00 | 2.71 |
1879 | 1980 | 5.189928 | TGCAGTTCCTTTACAAGAAGACAA | 58.810 | 37.500 | 0.00 | 0.00 | 0.00 | 3.18 |
1880 | 1981 | 4.776349 | TGCAGTTCCTTTACAAGAAGACA | 58.224 | 39.130 | 0.00 | 0.00 | 0.00 | 3.41 |
1881 | 1982 | 5.751243 | TTGCAGTTCCTTTACAAGAAGAC | 57.249 | 39.130 | 0.00 | 0.00 | 0.00 | 3.01 |
1882 | 1983 | 5.827797 | ACATTGCAGTTCCTTTACAAGAAGA | 59.172 | 36.000 | 0.00 | 0.00 | 0.00 | 2.87 |
1883 | 1984 | 6.076981 | ACATTGCAGTTCCTTTACAAGAAG | 57.923 | 37.500 | 0.00 | 0.00 | 0.00 | 2.85 |
1886 | 1987 | 5.591099 | ACAACATTGCAGTTCCTTTACAAG | 58.409 | 37.500 | 0.00 | 0.00 | 0.00 | 3.16 |
1889 | 1990 | 6.143919 | GCTTAACAACATTGCAGTTCCTTTAC | 59.856 | 38.462 | 0.00 | 0.00 | 0.00 | 2.01 |
1891 | 1992 | 5.049828 | GCTTAACAACATTGCAGTTCCTTT | 58.950 | 37.500 | 0.00 | 0.00 | 0.00 | 3.11 |
1895 | 1996 | 4.610945 | ACAGCTTAACAACATTGCAGTTC | 58.389 | 39.130 | 0.00 | 0.00 | 0.00 | 3.01 |
1908 | 2009 | 1.941325 | CGAGGGGATGACAGCTTAAC | 58.059 | 55.000 | 0.00 | 0.00 | 0.00 | 2.01 |
1910 | 2011 | 0.975556 | TGCGAGGGGATGACAGCTTA | 60.976 | 55.000 | 0.00 | 0.00 | 0.00 | 3.09 |
1924 | 2028 | 4.539870 | ACAAATGATTTCACAGTTGCGAG | 58.460 | 39.130 | 0.00 | 0.00 | 45.55 | 5.03 |
1925 | 2029 | 4.036144 | TGACAAATGATTTCACAGTTGCGA | 59.964 | 37.500 | 0.00 | 0.00 | 45.55 | 5.10 |
1926 | 2030 | 4.146961 | GTGACAAATGATTTCACAGTTGCG | 59.853 | 41.667 | 0.00 | 0.00 | 45.55 | 4.85 |
1927 | 2031 | 4.445385 | GGTGACAAATGATTTCACAGTTGC | 59.555 | 41.667 | 10.98 | 0.00 | 45.55 | 4.17 |
1928 | 2032 | 4.984161 | GGGTGACAAATGATTTCACAGTTG | 59.016 | 41.667 | 10.98 | 0.00 | 46.54 | 3.16 |
1929 | 2033 | 4.895297 | AGGGTGACAAATGATTTCACAGTT | 59.105 | 37.500 | 10.98 | 0.00 | 41.27 | 3.16 |
1930 | 2034 | 4.473444 | AGGGTGACAAATGATTTCACAGT | 58.527 | 39.130 | 10.98 | 0.00 | 41.27 | 3.55 |
1931 | 2035 | 4.082571 | GGAGGGTGACAAATGATTTCACAG | 60.083 | 45.833 | 10.98 | 0.00 | 41.27 | 3.66 |
1932 | 2036 | 3.826157 | GGAGGGTGACAAATGATTTCACA | 59.174 | 43.478 | 10.98 | 1.98 | 41.27 | 3.58 |
1933 | 2037 | 3.826157 | TGGAGGGTGACAAATGATTTCAC | 59.174 | 43.478 | 2.20 | 2.20 | 39.18 | 3.18 |
1934 | 2038 | 4.111255 | TGGAGGGTGACAAATGATTTCA | 57.889 | 40.909 | 0.00 | 0.00 | 0.00 | 2.69 |
1935 | 2039 | 4.619160 | GCTTGGAGGGTGACAAATGATTTC | 60.619 | 45.833 | 0.00 | 0.00 | 0.00 | 2.17 |
1936 | 2040 | 3.259123 | GCTTGGAGGGTGACAAATGATTT | 59.741 | 43.478 | 0.00 | 0.00 | 0.00 | 2.17 |
1937 | 2041 | 2.827921 | GCTTGGAGGGTGACAAATGATT | 59.172 | 45.455 | 0.00 | 0.00 | 0.00 | 2.57 |
1938 | 2042 | 2.450476 | GCTTGGAGGGTGACAAATGAT | 58.550 | 47.619 | 0.00 | 0.00 | 0.00 | 2.45 |
1939 | 2043 | 1.881925 | CGCTTGGAGGGTGACAAATGA | 60.882 | 52.381 | 0.00 | 0.00 | 0.00 | 2.57 |
1940 | 2044 | 0.523072 | CGCTTGGAGGGTGACAAATG | 59.477 | 55.000 | 0.00 | 0.00 | 0.00 | 2.32 |
1941 | 2045 | 0.400213 | TCGCTTGGAGGGTGACAAAT | 59.600 | 50.000 | 0.00 | 0.00 | 0.00 | 2.32 |
1942 | 2046 | 0.181587 | TTCGCTTGGAGGGTGACAAA | 59.818 | 50.000 | 0.00 | 0.00 | 0.00 | 2.83 |
1943 | 2047 | 0.534203 | GTTCGCTTGGAGGGTGACAA | 60.534 | 55.000 | 0.00 | 0.00 | 0.00 | 3.18 |
1944 | 2048 | 1.070786 | GTTCGCTTGGAGGGTGACA | 59.929 | 57.895 | 0.00 | 0.00 | 0.00 | 3.58 |
1945 | 2049 | 0.321653 | ATGTTCGCTTGGAGGGTGAC | 60.322 | 55.000 | 0.00 | 0.00 | 0.00 | 3.67 |
1946 | 2050 | 0.400213 | AATGTTCGCTTGGAGGGTGA | 59.600 | 50.000 | 0.00 | 0.00 | 0.00 | 4.02 |
1947 | 2051 | 0.804989 | GAATGTTCGCTTGGAGGGTG | 59.195 | 55.000 | 0.00 | 0.00 | 0.00 | 4.61 |
1948 | 2052 | 0.400213 | TGAATGTTCGCTTGGAGGGT | 59.600 | 50.000 | 0.00 | 0.00 | 0.00 | 4.34 |
1949 | 2053 | 0.804989 | GTGAATGTTCGCTTGGAGGG | 59.195 | 55.000 | 0.00 | 0.00 | 34.94 | 4.30 |
1950 | 2054 | 0.804989 | GGTGAATGTTCGCTTGGAGG | 59.195 | 55.000 | 6.30 | 0.00 | 37.80 | 4.30 |
1951 | 2055 | 1.466167 | CTGGTGAATGTTCGCTTGGAG | 59.534 | 52.381 | 6.30 | 0.00 | 37.80 | 3.86 |
1952 | 2056 | 1.522668 | CTGGTGAATGTTCGCTTGGA | 58.477 | 50.000 | 6.30 | 0.00 | 37.80 | 3.53 |
1953 | 2057 | 0.109597 | GCTGGTGAATGTTCGCTTGG | 60.110 | 55.000 | 6.30 | 0.00 | 37.80 | 3.61 |
1954 | 2058 | 0.877071 | AGCTGGTGAATGTTCGCTTG | 59.123 | 50.000 | 6.30 | 1.82 | 37.80 | 4.01 |
1955 | 2059 | 2.472695 | TAGCTGGTGAATGTTCGCTT | 57.527 | 45.000 | 0.00 | 0.00 | 37.80 | 4.68 |
1956 | 2060 | 2.350522 | CTTAGCTGGTGAATGTTCGCT | 58.649 | 47.619 | 0.00 | 2.95 | 37.80 | 4.93 |
1957 | 2061 | 1.398390 | CCTTAGCTGGTGAATGTTCGC | 59.602 | 52.381 | 0.00 | 0.00 | 36.98 | 4.70 |
1958 | 2062 | 2.009774 | CCCTTAGCTGGTGAATGTTCG | 58.990 | 52.381 | 0.00 | 0.00 | 0.00 | 3.95 |
1959 | 2063 | 3.010420 | GACCCTTAGCTGGTGAATGTTC | 58.990 | 50.000 | 0.00 | 0.00 | 35.85 | 3.18 |
1960 | 2064 | 2.290960 | GGACCCTTAGCTGGTGAATGTT | 60.291 | 50.000 | 0.00 | 0.00 | 35.85 | 2.71 |
1961 | 2065 | 1.282157 | GGACCCTTAGCTGGTGAATGT | 59.718 | 52.381 | 0.00 | 0.00 | 35.85 | 2.71 |
1962 | 2066 | 1.561542 | AGGACCCTTAGCTGGTGAATG | 59.438 | 52.381 | 0.00 | 0.00 | 35.85 | 2.67 |
1963 | 2067 | 1.972588 | AGGACCCTTAGCTGGTGAAT | 58.027 | 50.000 | 0.00 | 0.00 | 35.85 | 2.57 |
1964 | 2068 | 1.742308 | AAGGACCCTTAGCTGGTGAA | 58.258 | 50.000 | 0.00 | 0.00 | 35.85 | 3.18 |
1965 | 2069 | 2.634639 | TAAGGACCCTTAGCTGGTGA | 57.365 | 50.000 | 4.48 | 0.00 | 35.85 | 4.02 |
1966 | 2070 | 3.933861 | ATTAAGGACCCTTAGCTGGTG | 57.066 | 47.619 | 8.37 | 0.00 | 39.36 | 4.17 |
1967 | 2071 | 7.701257 | TTAATATTAAGGACCCTTAGCTGGT | 57.299 | 36.000 | 3.71 | 0.00 | 39.36 | 4.00 |
1999 | 2103 | 5.919196 | CGTTAAACACGGCTTACTATTTGT | 58.081 | 37.500 | 0.00 | 0.00 | 45.89 | 2.83 |
2016 | 2120 | 7.625553 | CAAAAATTTCTGTGGCAATCGTTAAA | 58.374 | 30.769 | 0.00 | 0.00 | 0.00 | 1.52 |
2032 | 2136 | 6.128282 | TGTCTAGTCCTCATCGCAAAAATTTC | 60.128 | 38.462 | 0.00 | 0.00 | 0.00 | 2.17 |
2033 | 2137 | 5.705441 | TGTCTAGTCCTCATCGCAAAAATTT | 59.295 | 36.000 | 0.00 | 0.00 | 0.00 | 1.82 |
2036 | 2141 | 4.021456 | TCTGTCTAGTCCTCATCGCAAAAA | 60.021 | 41.667 | 0.00 | 0.00 | 0.00 | 1.94 |
2042 | 2147 | 3.486043 | CGTTGTCTGTCTAGTCCTCATCG | 60.486 | 52.174 | 0.00 | 0.00 | 0.00 | 3.84 |
2045 | 2150 | 2.860009 | ACGTTGTCTGTCTAGTCCTCA | 58.140 | 47.619 | 0.00 | 0.00 | 0.00 | 3.86 |
2054 | 2159 | 0.375803 | ACGGCAAAACGTTGTCTGTC | 59.624 | 50.000 | 0.00 | 0.33 | 46.25 | 3.51 |
2069 | 2174 | 4.393680 | TGAAATTAGACACCATACAACGGC | 59.606 | 41.667 | 0.00 | 0.00 | 0.00 | 5.68 |
2070 | 2175 | 6.677781 | ATGAAATTAGACACCATACAACGG | 57.322 | 37.500 | 0.00 | 0.00 | 0.00 | 4.44 |
2110 | 2215 | 9.936759 | TTTACATACAGTGATGTAGACAAATCA | 57.063 | 29.630 | 0.00 | 0.00 | 41.95 | 2.57 |
2163 | 2268 | 8.496707 | AAAGTTAAACGTCAACTTCTTAAGGA | 57.503 | 30.769 | 21.65 | 0.00 | 43.62 | 3.36 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.