Multiple sequence alignment - TraesCS1B01G248500

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS1B01G248500 chr1B 100.000 2343 0 0 1 2343 439447714 439450056 0.000000e+00 4327.0
1 TraesCS1B01G248500 chr1A 89.433 1306 69 26 394 1672 415641491 415642754 0.000000e+00 1583.0
2 TraesCS1B01G248500 chr1A 90.799 413 24 5 1 408 415641068 415641471 7.370000e-150 540.0
3 TraesCS1B01G248500 chr1A 83.142 522 81 5 1820 2338 415642753 415643270 9.800000e-129 470.0
4 TraesCS1B01G248500 chr1D 93.092 912 39 12 510 1419 326167891 326168780 0.000000e+00 1314.0
5 TraesCS1B01G248500 chr1D 85.821 536 75 1 1803 2338 326169019 326169553 3.380000e-158 568.0
6 TraesCS1B01G248500 chr1D 91.785 353 18 5 1 349 326167548 326167893 4.530000e-132 481.0
7 TraesCS1B01G248500 chr1D 89.593 221 17 6 1435 1653 326168766 326168982 2.290000e-70 276.0
8 TraesCS1B01G248500 chr5A 80.919 283 51 3 2032 2314 654123138 654122859 1.090000e-53 220.0
9 TraesCS1B01G248500 chr5A 74.286 280 60 9 2068 2342 668903398 668903126 8.850000e-20 108.0
10 TraesCS1B01G248500 chr3B 72.338 770 159 38 1606 2343 562778317 562779064 2.380000e-45 193.0
11 TraesCS1B01G248500 chr4A 75.000 396 71 17 1963 2343 668842096 668841714 8.670000e-35 158.0
12 TraesCS1B01G248500 chr4A 73.698 384 75 16 1963 2342 136752806 136752445 2.440000e-25 126.0
13 TraesCS1B01G248500 chr3A 84.615 117 13 5 2231 2343 693344390 693344275 6.840000e-21 111.0
14 TraesCS1B01G248500 chr4D 74.654 217 34 9 1960 2164 336664635 336664842 2.500000e-10 76.8
15 TraesCS1B01G248500 chr4D 80.851 94 16 2 2251 2342 336664895 336664988 3.230000e-09 73.1
16 TraesCS1B01G248500 chr4B 100.000 36 0 0 2255 2290 148134449 148134484 1.500000e-07 67.6
17 TraesCS1B01G248500 chr4B 100.000 36 0 0 2255 2290 148167512 148167547 1.500000e-07 67.6
18 TraesCS1B01G248500 chr6D 96.774 31 1 0 1572 1602 336819858 336819888 4.000000e-03 52.8


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 TraesCS1B01G248500 chr1B 439447714 439450056 2342 False 4327.000000 4327 100.000000 1 2343 1 chr1B.!!$F1 2342
1 TraesCS1B01G248500 chr1A 415641068 415643270 2202 False 864.333333 1583 87.791333 1 2338 3 chr1A.!!$F1 2337
2 TraesCS1B01G248500 chr1D 326167548 326169553 2005 False 659.750000 1314 90.072750 1 2338 4 chr1D.!!$F1 2337

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
502 541 0.109319 GCCGGGCAATGTTAACTGTG 60.109 55.0 15.62 6.0 0.0 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1858 1970 0.179936 CTTGTCTCTCCATCCCAGCC 59.82 60.0 0.0 0.0 0.0 4.85 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
54 55 8.440833 ACTGTTGTCGATAAAAGCATTAGTTAC 58.559 33.333 11.67 0.00 0.00 2.50
63 64 5.541098 AAAGCATTAGTTACGCCTTGTAC 57.459 39.130 0.00 0.00 31.20 2.90
108 113 3.040655 TGGCTCCTACTATTGCAGGTA 57.959 47.619 0.00 0.00 33.37 3.08
109 114 2.965831 TGGCTCCTACTATTGCAGGTAG 59.034 50.000 13.24 13.24 36.23 3.18
110 115 3.231818 GGCTCCTACTATTGCAGGTAGA 58.768 50.000 18.66 8.88 38.03 2.59
180 185 5.476599 CGATCTCATCTCTCTGTTAAGGGAT 59.523 44.000 0.00 0.00 30.51 3.85
258 263 5.067023 GCCTTTGATCTATGAGGACCTTTTG 59.933 44.000 0.00 0.00 0.00 2.44
273 278 8.286191 AGGACCTTTTGATTATGATGAAGTTC 57.714 34.615 0.00 0.00 0.00 3.01
295 300 9.036980 AGTTCTAGATCCTTGTTGTATTGTACT 57.963 33.333 0.00 0.00 0.00 2.73
376 381 2.700371 TGTGCTCCCCTATGTCTATGTG 59.300 50.000 0.00 0.00 0.00 3.21
377 382 2.700897 GTGCTCCCCTATGTCTATGTGT 59.299 50.000 0.00 0.00 0.00 3.72
378 383 2.700371 TGCTCCCCTATGTCTATGTGTG 59.300 50.000 0.00 0.00 0.00 3.82
379 384 2.548920 GCTCCCCTATGTCTATGTGTGC 60.549 54.545 0.00 0.00 0.00 4.57
380 385 2.700371 CTCCCCTATGTCTATGTGTGCA 59.300 50.000 0.00 0.00 0.00 4.57
402 407 2.616376 GTGCAGTGTGTGATGTTTGGTA 59.384 45.455 0.00 0.00 0.00 3.25
412 451 3.498397 GTGATGTTTGGTACCAGTGTCAG 59.502 47.826 15.65 0.00 0.00 3.51
436 475 2.262423 AGGTTCAGGTTCAGTCAAGC 57.738 50.000 0.00 0.00 0.00 4.01
496 535 1.756172 CATGGGCCGGGCAATGTTA 60.756 57.895 32.26 11.33 0.00 2.41
502 541 0.109319 GCCGGGCAATGTTAACTGTG 60.109 55.000 15.62 6.00 0.00 3.66
503 542 1.243902 CCGGGCAATGTTAACTGTGT 58.756 50.000 7.22 0.00 0.00 3.72
504 543 1.611491 CCGGGCAATGTTAACTGTGTT 59.389 47.619 7.22 0.00 0.00 3.32
505 544 2.606795 CCGGGCAATGTTAACTGTGTTG 60.607 50.000 7.22 7.91 0.00 3.33
506 545 2.606795 CGGGCAATGTTAACTGTGTTGG 60.607 50.000 7.22 0.00 0.00 3.77
507 546 2.403259 GGCAATGTTAACTGTGTTGGC 58.597 47.619 17.16 17.16 38.00 4.52
508 547 2.403259 GCAATGTTAACTGTGTTGGCC 58.597 47.619 7.22 0.00 0.00 5.36
521 560 1.484240 TGTTGGCCTTTTGGGAGTTTG 59.516 47.619 3.32 0.00 40.82 2.93
558 597 4.614946 TGCACAGATGATTCGAGTATGAG 58.385 43.478 0.00 0.00 0.00 2.90
567 606 7.704472 AGATGATTCGAGTATGAGAGAACAAAC 59.296 37.037 0.00 0.00 0.00 2.93
589 630 3.379057 CCGTGTCCTGTTTTTACCAAGTT 59.621 43.478 0.00 0.00 0.00 2.66
597 638 7.865889 GTCCTGTTTTTACCAAGTTTATGAAGG 59.134 37.037 0.00 0.00 0.00 3.46
774 839 4.622220 GCTGACGGTGATTCCCTTTTACTA 60.622 45.833 0.00 0.00 0.00 1.82
775 840 4.824289 TGACGGTGATTCCCTTTTACTAC 58.176 43.478 0.00 0.00 0.00 2.73
776 841 4.529377 TGACGGTGATTCCCTTTTACTACT 59.471 41.667 0.00 0.00 0.00 2.57
876 941 2.477176 TTTGTTGCCGCGTCAAGCT 61.477 52.632 1.32 0.00 45.59 3.74
882 947 4.421479 CCGCGTCAAGCTCGTCCT 62.421 66.667 4.92 0.00 45.59 3.85
909 974 0.736325 CTCCCCTGTCTAAACGCACG 60.736 60.000 0.00 0.00 0.00 5.34
950 1016 3.438434 GCCTCAGAAGACACATTTCCTTC 59.562 47.826 0.00 0.00 37.23 3.46
959 1025 5.066593 AGACACATTTCCTTCCTTCACTTC 58.933 41.667 0.00 0.00 0.00 3.01
1025 1091 1.001633 TCTCCCTGCGAACCTTGTAAC 59.998 52.381 0.00 0.00 0.00 2.50
1123 1189 1.666872 CCGTCCGACAACTGGTTCC 60.667 63.158 0.00 0.00 0.00 3.62
1235 1305 0.179062 ATTGCTCCGCCTGATCTGTC 60.179 55.000 0.00 0.00 0.00 3.51
1346 1416 0.166814 GTTCAAGCATGCGTGAGGAC 59.833 55.000 30.22 24.05 36.00 3.85
1348 1418 0.671472 TCAAGCATGCGTGAGGACTG 60.671 55.000 28.94 5.44 31.36 3.51
1349 1419 0.671472 CAAGCATGCGTGAGGACTGA 60.671 55.000 26.87 0.00 0.00 3.41
1350 1420 0.390866 AAGCATGCGTGAGGACTGAG 60.391 55.000 13.01 0.00 0.00 3.35
1351 1421 1.812922 GCATGCGTGAGGACTGAGG 60.813 63.158 10.93 0.00 0.00 3.86
1352 1422 1.893062 CATGCGTGAGGACTGAGGA 59.107 57.895 0.00 0.00 0.00 3.71
1353 1423 0.179116 CATGCGTGAGGACTGAGGAG 60.179 60.000 0.00 0.00 0.00 3.69
1354 1424 0.613292 ATGCGTGAGGACTGAGGAGT 60.613 55.000 0.00 0.00 33.98 3.85
1355 1425 1.214062 GCGTGAGGACTGAGGAGTG 59.786 63.158 0.00 0.00 30.16 3.51
1415 1485 3.639672 AGGCATCATGAGTTCATCACA 57.360 42.857 0.09 0.00 41.91 3.58
1416 1486 3.276857 AGGCATCATGAGTTCATCACAC 58.723 45.455 0.09 0.00 41.91 3.82
1419 1489 4.201891 GGCATCATGAGTTCATCACACTTC 60.202 45.833 0.09 0.00 41.91 3.01
1522 1598 4.675976 TCTTTGGAAGAAACTACGGTGA 57.324 40.909 0.00 0.00 33.83 4.02
1557 1634 7.759433 ACCGAAAAATTTGCTTGGTCATATTAG 59.241 33.333 6.63 0.00 0.00 1.73
1569 1646 5.914033 TGGTCATATTAGTAACTGAGGTGC 58.086 41.667 0.00 0.00 0.00 5.01
1671 1783 4.395231 GGATAATAAGCGGCTAATTGGACC 59.605 45.833 1.35 0.00 0.00 4.46
1672 1784 3.577805 AATAAGCGGCTAATTGGACCT 57.422 42.857 1.35 0.00 0.00 3.85
1673 1785 4.699925 AATAAGCGGCTAATTGGACCTA 57.300 40.909 1.35 0.00 0.00 3.08
1674 1786 4.699925 ATAAGCGGCTAATTGGACCTAA 57.300 40.909 1.35 0.00 0.00 2.69
1675 1787 2.327200 AGCGGCTAATTGGACCTAAC 57.673 50.000 0.00 0.00 0.00 2.34
1676 1788 1.134189 AGCGGCTAATTGGACCTAACC 60.134 52.381 0.00 0.00 0.00 2.85
1677 1789 1.963172 CGGCTAATTGGACCTAACCC 58.037 55.000 0.00 0.00 0.00 4.11
1678 1790 1.476291 CGGCTAATTGGACCTAACCCC 60.476 57.143 0.00 0.00 0.00 4.95
1679 1791 1.567175 GGCTAATTGGACCTAACCCCA 59.433 52.381 0.00 0.00 0.00 4.96
1680 1792 2.024751 GGCTAATTGGACCTAACCCCAA 60.025 50.000 0.00 0.00 45.40 4.12
1681 1793 3.564790 GGCTAATTGGACCTAACCCCAAA 60.565 47.826 0.00 0.00 44.60 3.28
1682 1794 3.446161 GCTAATTGGACCTAACCCCAAAC 59.554 47.826 0.00 0.00 44.60 2.93
1683 1795 2.615986 ATTGGACCTAACCCCAAACC 57.384 50.000 0.00 0.00 44.60 3.27
1684 1796 0.110869 TTGGACCTAACCCCAAACCG 59.889 55.000 0.00 0.00 39.29 4.44
1685 1797 1.061324 TGGACCTAACCCCAAACCGT 61.061 55.000 0.00 0.00 0.00 4.83
1686 1798 0.111061 GGACCTAACCCCAAACCGTT 59.889 55.000 0.00 0.00 0.00 4.44
1687 1799 1.350684 GGACCTAACCCCAAACCGTTA 59.649 52.381 0.00 0.00 0.00 3.18
1688 1800 2.616256 GGACCTAACCCCAAACCGTTAG 60.616 54.545 0.00 0.00 40.65 2.34
1690 1802 2.118313 CTAACCCCAAACCGTTAGGG 57.882 55.000 14.99 14.99 45.75 3.53
1694 1806 1.301954 CCCAAACCGTTAGGGGAGG 59.698 63.158 13.40 0.00 43.57 4.30
1695 1807 1.202769 CCCAAACCGTTAGGGGAGGA 61.203 60.000 13.40 0.00 43.57 3.71
1696 1808 0.694196 CCAAACCGTTAGGGGAGGAA 59.306 55.000 0.00 0.00 43.47 3.36
1697 1809 1.074244 CCAAACCGTTAGGGGAGGAAA 59.926 52.381 0.00 0.00 43.47 3.13
1698 1810 2.489437 CCAAACCGTTAGGGGAGGAAAA 60.489 50.000 0.00 0.00 43.47 2.29
1699 1811 3.224269 CAAACCGTTAGGGGAGGAAAAA 58.776 45.455 0.00 0.00 43.47 1.94
1700 1812 3.820195 AACCGTTAGGGGAGGAAAAAT 57.180 42.857 0.00 0.00 43.47 1.82
1701 1813 3.820195 ACCGTTAGGGGAGGAAAAATT 57.180 42.857 0.00 0.00 43.47 1.82
1702 1814 4.932911 ACCGTTAGGGGAGGAAAAATTA 57.067 40.909 0.00 0.00 43.47 1.40
1703 1815 5.461516 ACCGTTAGGGGAGGAAAAATTAT 57.538 39.130 0.00 0.00 43.47 1.28
1704 1816 5.443283 ACCGTTAGGGGAGGAAAAATTATC 58.557 41.667 0.00 0.00 43.47 1.75
1705 1817 4.825634 CCGTTAGGGGAGGAAAAATTATCC 59.174 45.833 2.63 2.63 37.22 2.59
1706 1818 7.786476 ACCGTTAGGGGAGGAAAAATTATCCT 61.786 42.308 11.51 11.51 45.69 3.24
1714 1826 4.290093 AGGAAAAATTATCCTCCTTGGCC 58.710 43.478 0.00 0.00 44.01 5.36
1715 1827 3.388024 GGAAAAATTATCCTCCTTGGCCC 59.612 47.826 0.00 0.00 33.98 5.80
1716 1828 3.774842 AAAATTATCCTCCTTGGCCCA 57.225 42.857 0.00 0.00 35.26 5.36
1717 1829 3.774842 AAATTATCCTCCTTGGCCCAA 57.225 42.857 0.00 0.00 35.26 4.12
1718 1830 3.774842 AATTATCCTCCTTGGCCCAAA 57.225 42.857 0.00 0.00 35.26 3.28
1719 1831 3.774842 ATTATCCTCCTTGGCCCAAAA 57.225 42.857 0.00 0.00 35.26 2.44
1720 1832 2.525105 TATCCTCCTTGGCCCAAAAC 57.475 50.000 0.00 0.00 35.26 2.43
1721 1833 0.786435 ATCCTCCTTGGCCCAAAACT 59.214 50.000 0.00 0.00 35.26 2.66
1722 1834 0.560688 TCCTCCTTGGCCCAAAACTT 59.439 50.000 0.00 0.00 35.26 2.66
1723 1835 1.062505 TCCTCCTTGGCCCAAAACTTT 60.063 47.619 0.00 0.00 35.26 2.66
1724 1836 1.070601 CCTCCTTGGCCCAAAACTTTG 59.929 52.381 0.00 0.00 37.90 2.77
1735 1847 3.097877 CAAAACTTTGGCCAAGTCTCC 57.902 47.619 19.48 0.00 45.77 3.71
1736 1848 1.704641 AAACTTTGGCCAAGTCTCCC 58.295 50.000 19.48 0.00 45.77 4.30
1737 1849 0.555769 AACTTTGGCCAAGTCTCCCA 59.444 50.000 19.48 0.30 45.77 4.37
1738 1850 0.555769 ACTTTGGCCAAGTCTCCCAA 59.444 50.000 19.48 0.00 42.62 4.12
1739 1851 1.063266 ACTTTGGCCAAGTCTCCCAAA 60.063 47.619 19.48 0.00 42.62 3.28
1740 1852 2.250924 CTTTGGCCAAGTCTCCCAAAT 58.749 47.619 19.48 0.00 44.82 2.32
1741 1853 3.181423 ACTTTGGCCAAGTCTCCCAAATA 60.181 43.478 19.48 0.00 42.62 1.40
1742 1854 3.756082 TTGGCCAAGTCTCCCAAATAT 57.244 42.857 16.05 0.00 35.80 1.28
1743 1855 4.871871 TTGGCCAAGTCTCCCAAATATA 57.128 40.909 16.05 0.00 35.80 0.86
1744 1856 4.164843 TGGCCAAGTCTCCCAAATATAC 57.835 45.455 0.61 0.00 0.00 1.47
1745 1857 3.785887 TGGCCAAGTCTCCCAAATATACT 59.214 43.478 0.61 0.00 0.00 2.12
1746 1858 4.229582 TGGCCAAGTCTCCCAAATATACTT 59.770 41.667 0.61 0.00 0.00 2.24
1747 1859 4.580580 GGCCAAGTCTCCCAAATATACTTG 59.419 45.833 0.00 0.00 44.15 3.16
1748 1860 5.437060 GCCAAGTCTCCCAAATATACTTGA 58.563 41.667 13.52 0.00 46.29 3.02
1749 1861 5.297029 GCCAAGTCTCCCAAATATACTTGAC 59.703 44.000 13.52 0.30 46.29 3.18
1750 1862 5.823045 CCAAGTCTCCCAAATATACTTGACC 59.177 44.000 13.52 0.00 46.29 4.02
1751 1863 6.353082 CCAAGTCTCCCAAATATACTTGACCT 60.353 42.308 13.52 0.00 46.29 3.85
1752 1864 6.893020 AGTCTCCCAAATATACTTGACCTT 57.107 37.500 0.00 0.00 0.00 3.50
1753 1865 6.653989 AGTCTCCCAAATATACTTGACCTTG 58.346 40.000 0.00 0.00 0.00 3.61
1754 1866 5.823045 GTCTCCCAAATATACTTGACCTTGG 59.177 44.000 0.00 0.00 34.38 3.61
1755 1867 4.532834 TCCCAAATATACTTGACCTTGGC 58.467 43.478 0.00 0.00 33.46 4.52
1756 1868 3.636764 CCCAAATATACTTGACCTTGGCC 59.363 47.826 0.00 0.00 33.46 5.36
1757 1869 3.315191 CCAAATATACTTGACCTTGGCCG 59.685 47.826 0.00 0.00 0.00 6.13
1758 1870 3.926058 AATATACTTGACCTTGGCCGT 57.074 42.857 0.00 0.00 0.00 5.68
1759 1871 2.684001 TATACTTGACCTTGGCCGTG 57.316 50.000 0.00 0.00 0.00 4.94
1760 1872 0.676782 ATACTTGACCTTGGCCGTGC 60.677 55.000 0.00 0.00 0.00 5.34
1761 1873 3.726517 CTTGACCTTGGCCGTGCG 61.727 66.667 0.00 0.00 0.00 5.34
1762 1874 4.243008 TTGACCTTGGCCGTGCGA 62.243 61.111 0.00 0.00 0.00 5.10
1763 1875 3.758973 TTGACCTTGGCCGTGCGAA 62.759 57.895 0.00 0.00 0.00 4.70
1764 1876 3.423154 GACCTTGGCCGTGCGAAG 61.423 66.667 11.72 11.72 42.51 3.79
1765 1877 4.250305 ACCTTGGCCGTGCGAAGT 62.250 61.111 15.52 5.47 41.57 3.01
1766 1878 2.047655 CCTTGGCCGTGCGAAGTA 60.048 61.111 15.52 0.00 41.57 2.24
1767 1879 1.669760 CCTTGGCCGTGCGAAGTAA 60.670 57.895 15.52 0.00 41.57 2.24
1768 1880 1.231958 CCTTGGCCGTGCGAAGTAAA 61.232 55.000 15.52 0.00 41.57 2.01
1769 1881 0.802494 CTTGGCCGTGCGAAGTAAAT 59.198 50.000 0.00 0.00 39.05 1.40
1770 1882 1.199097 CTTGGCCGTGCGAAGTAAATT 59.801 47.619 0.00 0.00 39.05 1.82
1771 1883 1.240256 TGGCCGTGCGAAGTAAATTT 58.760 45.000 0.00 0.00 0.00 1.82
1772 1884 1.609555 TGGCCGTGCGAAGTAAATTTT 59.390 42.857 0.00 0.00 0.00 1.82
1773 1885 2.247637 GGCCGTGCGAAGTAAATTTTC 58.752 47.619 0.00 0.00 0.00 2.29
1774 1886 2.095415 GGCCGTGCGAAGTAAATTTTCT 60.095 45.455 0.00 0.00 0.00 2.52
1775 1887 3.561503 GCCGTGCGAAGTAAATTTTCTT 58.438 40.909 9.54 9.54 0.00 2.52
1776 1888 3.978855 GCCGTGCGAAGTAAATTTTCTTT 59.021 39.130 10.89 0.00 0.00 2.52
1777 1889 4.088071 GCCGTGCGAAGTAAATTTTCTTTC 59.912 41.667 10.89 7.39 0.00 2.62
1778 1890 4.615541 CCGTGCGAAGTAAATTTTCTTTCC 59.384 41.667 10.89 6.51 0.00 3.13
1779 1891 4.615541 CGTGCGAAGTAAATTTTCTTTCCC 59.384 41.667 10.89 4.52 0.00 3.97
1780 1892 5.562113 CGTGCGAAGTAAATTTTCTTTCCCT 60.562 40.000 10.89 0.00 0.00 4.20
1781 1893 5.856986 GTGCGAAGTAAATTTTCTTTCCCTC 59.143 40.000 10.89 0.00 0.00 4.30
1782 1894 5.048294 TGCGAAGTAAATTTTCTTTCCCTCC 60.048 40.000 10.89 0.00 0.00 4.30
1783 1895 5.183331 GCGAAGTAAATTTTCTTTCCCTCCT 59.817 40.000 10.89 0.00 0.00 3.69
1784 1896 6.623114 GCGAAGTAAATTTTCTTTCCCTCCTC 60.623 42.308 10.89 0.00 0.00 3.71
1785 1897 6.655425 CGAAGTAAATTTTCTTTCCCTCCTCT 59.345 38.462 10.89 0.00 0.00 3.69
1786 1898 7.148390 CGAAGTAAATTTTCTTTCCCTCCTCTC 60.148 40.741 10.89 0.00 0.00 3.20
1787 1899 6.174049 AGTAAATTTTCTTTCCCTCCTCTCG 58.826 40.000 0.00 0.00 0.00 4.04
1788 1900 2.474410 TTTTCTTTCCCTCCTCTCGC 57.526 50.000 0.00 0.00 0.00 5.03
1789 1901 0.613777 TTTCTTTCCCTCCTCTCGCC 59.386 55.000 0.00 0.00 0.00 5.54
1790 1902 1.265454 TTCTTTCCCTCCTCTCGCCC 61.265 60.000 0.00 0.00 0.00 6.13
1791 1903 3.075005 TTTCCCTCCTCTCGCCCG 61.075 66.667 0.00 0.00 0.00 6.13
1792 1904 3.595428 TTTCCCTCCTCTCGCCCGA 62.595 63.158 0.00 0.00 0.00 5.14
1793 1905 4.507916 TCCCTCCTCTCGCCCGAG 62.508 72.222 11.24 11.24 43.21 4.63
1840 1952 1.655654 CTACTCGTCGCAGCCATCG 60.656 63.158 0.00 0.00 0.00 3.84
1856 1968 0.184451 ATCGCTGATGCCCCTGATTT 59.816 50.000 0.00 0.00 35.36 2.17
1857 1969 0.034186 TCGCTGATGCCCCTGATTTT 60.034 50.000 0.00 0.00 35.36 1.82
1858 1970 0.101759 CGCTGATGCCCCTGATTTTG 59.898 55.000 0.00 0.00 35.36 2.44
1873 1985 1.371467 TTTTGGCTGGGATGGAGAGA 58.629 50.000 0.00 0.00 0.00 3.10
1895 2007 4.912299 ACCCTTCCACCACCCCGT 62.912 66.667 0.00 0.00 0.00 5.28
1897 2009 3.246112 CCTTCCACCACCCCGTCA 61.246 66.667 0.00 0.00 0.00 4.35
1898 2010 2.347490 CTTCCACCACCCCGTCAG 59.653 66.667 0.00 0.00 0.00 3.51
1899 2011 3.901797 CTTCCACCACCCCGTCAGC 62.902 68.421 0.00 0.00 0.00 4.26
1900 2012 4.954118 TCCACCACCCCGTCAGCT 62.954 66.667 0.00 0.00 0.00 4.24
1911 2026 2.887568 GTCAGCTGCCATCGTCGG 60.888 66.667 9.47 0.00 0.00 4.79
1963 2078 1.427819 GCCGCCCACGTCATAAAAG 59.572 57.895 0.00 0.00 37.70 2.27
2010 2127 4.263572 CCTCACCGGCAACCACCA 62.264 66.667 0.00 0.00 0.00 4.17
2025 2142 1.839747 ACCACCGGTAGCAAGGTCA 60.840 57.895 6.87 0.00 39.00 4.02
2027 2144 1.375523 CACCGGTAGCAAGGTCACC 60.376 63.158 6.87 0.00 39.00 4.02
2028 2145 1.839747 ACCGGTAGCAAGGTCACCA 60.840 57.895 4.49 0.00 35.50 4.17
2041 2158 2.058001 TCACCACATCTCCGGCGAT 61.058 57.895 9.30 0.00 0.00 4.58
2062 2179 4.172512 AGGCTGCCATCTCGCTGG 62.173 66.667 22.65 0.00 39.45 4.85
2067 2184 2.202987 GCCATCTCGCTGGTCCAG 60.203 66.667 15.15 15.15 38.63 3.86
2092 2209 2.620112 GCAAGCGAGCAAGGAAGCA 61.620 57.895 0.00 0.00 36.85 3.91
2097 2214 1.080501 CGAGCAAGGAAGCAGACGA 60.081 57.895 0.00 0.00 36.85 4.20
2099 2216 1.004440 AGCAAGGAAGCAGACGACC 60.004 57.895 0.00 0.00 36.85 4.79
2157 2274 1.671742 GACAAGAAGGTGGCTCCGA 59.328 57.895 0.00 0.00 41.99 4.55
2177 2294 3.147595 CCTCATCCTCGTCCGGCA 61.148 66.667 0.00 0.00 0.00 5.69
2191 2308 2.430367 GGCACCTTGGACCTCGTT 59.570 61.111 0.00 0.00 0.00 3.85
2197 2314 0.249398 CCTTGGACCTCGTTTCCGAT 59.751 55.000 0.00 0.00 43.27 4.18
2206 2323 1.687123 CTCGTTTCCGATCACCCCTAT 59.313 52.381 0.00 0.00 43.27 2.57
2227 2344 2.267006 CACTCCTGTGGCGCATCT 59.733 61.111 10.83 0.00 40.33 2.90
2258 2375 2.203294 GACAACAAGGGCCGTGGT 60.203 61.111 23.36 15.03 0.00 4.16
2259 2376 1.826487 GACAACAAGGGCCGTGGTT 60.826 57.895 23.36 12.58 0.00 3.67
2324 2441 0.249120 TCATCTCGGTCGGTGCATTT 59.751 50.000 0.00 0.00 0.00 2.32
2342 2459 1.789506 TTTTTGGTATTGCTTGCGGC 58.210 45.000 0.00 0.00 42.22 6.53
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 1.334869 CAACAGTGGGTGTGAAGAAGC 59.665 52.381 0.00 0.00 40.26 3.86
54 55 4.600012 ATTCAGAATTTCGTACAAGGCG 57.400 40.909 0.00 0.00 0.00 5.52
63 64 7.263100 TCCATCCACATAATTCAGAATTTCG 57.737 36.000 13.71 7.96 32.38 3.46
108 113 3.283751 CTTATCTCTCACCCTGACGTCT 58.716 50.000 17.92 0.00 0.00 4.18
109 114 2.223618 GCTTATCTCTCACCCTGACGTC 60.224 54.545 9.11 9.11 0.00 4.34
110 115 1.751924 GCTTATCTCTCACCCTGACGT 59.248 52.381 0.00 0.00 0.00 4.34
143 148 1.132453 TGAGATCGTCGACGCTCATTT 59.868 47.619 34.70 20.04 37.01 2.32
180 185 1.776662 ATCTGTAGGCCGCTACTTCA 58.223 50.000 0.00 0.00 0.00 3.02
242 247 8.937835 TCATCATAATCAAAAGGTCCTCATAGA 58.062 33.333 0.00 0.00 0.00 1.98
258 263 9.995003 ACAAGGATCTAGAACTTCATCATAATC 57.005 33.333 9.41 0.00 0.00 1.75
273 278 9.737427 CAGTAGTACAATACAACAAGGATCTAG 57.263 37.037 2.52 0.00 0.00 2.43
295 300 3.550233 GCTCAGACGTTCAAGACACAGTA 60.550 47.826 0.00 0.00 0.00 2.74
296 301 2.799917 GCTCAGACGTTCAAGACACAGT 60.800 50.000 0.00 0.00 0.00 3.55
297 302 1.789464 GCTCAGACGTTCAAGACACAG 59.211 52.381 0.00 0.00 0.00 3.66
376 381 0.040692 CATCACACACTGCACTGCAC 60.041 55.000 0.00 0.00 33.79 4.57
377 382 0.464193 ACATCACACACTGCACTGCA 60.464 50.000 3.11 3.11 36.92 4.41
378 383 0.664761 AACATCACACACTGCACTGC 59.335 50.000 0.00 0.00 0.00 4.40
379 384 2.542205 CCAAACATCACACACTGCACTG 60.542 50.000 0.00 0.00 0.00 3.66
380 385 1.677576 CCAAACATCACACACTGCACT 59.322 47.619 0.00 0.00 0.00 4.40
402 407 3.441101 TGAACCTATAGCTGACACTGGT 58.559 45.455 0.00 0.00 0.00 4.00
412 451 4.737855 TGACTGAACCTGAACCTATAGC 57.262 45.455 0.00 0.00 0.00 2.97
436 475 1.071605 GTAGAAACACCGCAGCTCAG 58.928 55.000 0.00 0.00 0.00 3.35
496 535 0.829990 CCCAAAAGGCCAACACAGTT 59.170 50.000 5.01 0.00 0.00 3.16
502 541 1.760029 TCAAACTCCCAAAAGGCCAAC 59.240 47.619 5.01 0.00 34.51 3.77
503 542 2.166907 TCAAACTCCCAAAAGGCCAA 57.833 45.000 5.01 0.00 34.51 4.52
504 543 2.247358 GATCAAACTCCCAAAAGGCCA 58.753 47.619 5.01 0.00 34.51 5.36
505 544 1.202348 CGATCAAACTCCCAAAAGGCC 59.798 52.381 0.00 0.00 34.51 5.19
506 545 2.159382 TCGATCAAACTCCCAAAAGGC 58.841 47.619 0.00 0.00 34.51 4.35
507 546 3.412386 ACTCGATCAAACTCCCAAAAGG 58.588 45.455 0.00 0.00 0.00 3.11
508 547 4.320494 CCAACTCGATCAAACTCCCAAAAG 60.320 45.833 0.00 0.00 0.00 2.27
521 560 1.221414 GTGCATAGGCCAACTCGATC 58.779 55.000 5.01 0.00 40.13 3.69
558 597 1.949465 ACAGGACACGGTTTGTTCTC 58.051 50.000 0.00 0.00 40.49 2.87
567 606 2.946990 ACTTGGTAAAAACAGGACACGG 59.053 45.455 0.00 0.00 0.00 4.94
589 630 1.134521 CACGTAGCCCAGCCTTCATAA 60.135 52.381 0.00 0.00 0.00 1.90
650 706 6.323482 CCCCTATCTCATCTACTCCATACATG 59.677 46.154 0.00 0.00 0.00 3.21
658 714 6.091718 GTGAAACCCCTATCTCATCTACTC 57.908 45.833 0.00 0.00 0.00 2.59
774 839 2.032071 CCGCGGGTCCAGAAAAGT 59.968 61.111 20.10 0.00 0.00 2.66
775 840 3.431725 GCCGCGGGTCCAGAAAAG 61.432 66.667 29.38 0.00 0.00 2.27
876 941 3.752167 GGAGGGAGGGGAGGACGA 61.752 72.222 0.00 0.00 0.00 4.20
882 947 2.836293 TAGACAGGGGAGGGAGGGGA 62.836 65.000 0.00 0.00 0.00 4.81
909 974 3.615536 ATTGCGCCGAACAGCTTGC 62.616 57.895 4.18 0.00 0.00 4.01
950 1016 4.758674 TCTGAAAGAGCAATGAAGTGAAGG 59.241 41.667 0.00 0.00 38.67 3.46
1123 1189 3.159984 GTTCTGAACGGCGAGCAG 58.840 61.111 16.62 19.74 0.00 4.24
1160 1226 0.671251 CCAGGTGAGGCGAGAGATAC 59.329 60.000 0.00 0.00 0.00 2.24
1235 1305 5.418840 AGCAGTAATACCTGGAAAACAATGG 59.581 40.000 0.00 0.00 32.92 3.16
1289 1359 2.027625 GCAGGTACACAGCCACGAC 61.028 63.158 0.00 0.00 0.00 4.34
1346 1416 1.888436 TTAGCACGGCCACTCCTCAG 61.888 60.000 2.24 0.00 0.00 3.35
1348 1418 1.019805 GTTTAGCACGGCCACTCCTC 61.020 60.000 2.24 0.00 0.00 3.71
1349 1419 1.003718 GTTTAGCACGGCCACTCCT 60.004 57.895 2.24 0.00 0.00 3.69
1350 1420 0.887387 TTGTTTAGCACGGCCACTCC 60.887 55.000 2.24 0.00 0.00 3.85
1351 1421 0.948678 TTTGTTTAGCACGGCCACTC 59.051 50.000 2.24 0.00 0.00 3.51
1352 1422 1.394618 TTTTGTTTAGCACGGCCACT 58.605 45.000 2.24 0.00 0.00 4.00
1353 1423 2.324860 GATTTTGTTTAGCACGGCCAC 58.675 47.619 2.24 0.00 0.00 5.01
1354 1424 1.271102 GGATTTTGTTTAGCACGGCCA 59.729 47.619 2.24 0.00 0.00 5.36
1355 1425 1.271102 TGGATTTTGTTTAGCACGGCC 59.729 47.619 0.00 0.00 0.00 6.13
1541 1618 7.047891 CCTCAGTTACTAATATGACCAAGCAA 58.952 38.462 0.00 0.00 0.00 3.91
1542 1619 6.156256 ACCTCAGTTACTAATATGACCAAGCA 59.844 38.462 0.00 0.00 0.00 3.91
1548 1625 5.828747 TCGCACCTCAGTTACTAATATGAC 58.171 41.667 0.00 0.00 0.00 3.06
1557 1634 0.243907 TGCTCTCGCACCTCAGTTAC 59.756 55.000 0.00 0.00 42.25 2.50
1613 1690 9.005318 AGGATTATAGGAGATCGGTTAGAGATA 57.995 37.037 0.00 0.00 0.00 1.98
1658 1735 1.476291 GGGGTTAGGTCCAATTAGCCG 60.476 57.143 0.00 0.00 0.00 5.52
1671 1783 2.118313 CCCTAACGGTTTGGGGTTAG 57.882 55.000 26.60 6.38 46.44 2.34
1676 1788 1.202769 TCCTCCCCTAACGGTTTGGG 61.203 60.000 27.12 27.12 40.59 4.12
1677 1789 0.694196 TTCCTCCCCTAACGGTTTGG 59.306 55.000 13.47 13.47 0.00 3.28
1678 1790 2.572209 TTTCCTCCCCTAACGGTTTG 57.428 50.000 0.00 0.00 0.00 2.93
1679 1791 3.598693 TTTTTCCTCCCCTAACGGTTT 57.401 42.857 0.00 0.00 0.00 3.27
1680 1792 3.820195 ATTTTTCCTCCCCTAACGGTT 57.180 42.857 0.00 0.00 0.00 4.44
1681 1793 3.820195 AATTTTTCCTCCCCTAACGGT 57.180 42.857 0.00 0.00 0.00 4.83
1682 1794 4.825634 GGATAATTTTTCCTCCCCTAACGG 59.174 45.833 0.00 0.00 0.00 4.44
1683 1795 5.691896 AGGATAATTTTTCCTCCCCTAACG 58.308 41.667 2.84 0.00 39.46 3.18
1692 1804 4.290093 GGCCAAGGAGGATAATTTTTCCT 58.710 43.478 7.99 7.99 46.41 3.36
1693 1805 3.388024 GGGCCAAGGAGGATAATTTTTCC 59.612 47.826 4.39 0.00 41.22 3.13
1694 1806 4.030216 TGGGCCAAGGAGGATAATTTTTC 58.970 43.478 2.13 0.00 41.22 2.29
1695 1807 4.073425 TGGGCCAAGGAGGATAATTTTT 57.927 40.909 2.13 0.00 41.22 1.94
1696 1808 3.774842 TGGGCCAAGGAGGATAATTTT 57.225 42.857 2.13 0.00 41.22 1.82
1697 1809 3.774842 TTGGGCCAAGGAGGATAATTT 57.225 42.857 16.66 0.00 41.22 1.82
1698 1810 3.774766 GTTTTGGGCCAAGGAGGATAATT 59.225 43.478 19.90 0.00 41.22 1.40
1699 1811 3.012844 AGTTTTGGGCCAAGGAGGATAAT 59.987 43.478 19.90 0.00 41.22 1.28
1700 1812 2.381961 AGTTTTGGGCCAAGGAGGATAA 59.618 45.455 19.90 6.11 41.22 1.75
1701 1813 2.000048 AGTTTTGGGCCAAGGAGGATA 59.000 47.619 19.90 0.00 41.22 2.59
1702 1814 0.786435 AGTTTTGGGCCAAGGAGGAT 59.214 50.000 19.90 0.99 41.22 3.24
1703 1815 0.560688 AAGTTTTGGGCCAAGGAGGA 59.439 50.000 19.90 0.47 41.22 3.71
1704 1816 1.070601 CAAAGTTTTGGGCCAAGGAGG 59.929 52.381 19.90 4.81 36.01 4.30
1705 1817 2.531522 CAAAGTTTTGGGCCAAGGAG 57.468 50.000 19.90 4.12 34.59 3.69
1720 1832 1.703411 TTTGGGAGACTTGGCCAAAG 58.297 50.000 20.91 15.62 42.07 2.77
1721 1833 2.397044 ATTTGGGAGACTTGGCCAAA 57.603 45.000 20.91 0.71 35.37 3.28
1722 1834 3.756082 ATATTTGGGAGACTTGGCCAA 57.244 42.857 19.25 19.25 0.00 4.52
1723 1835 3.785887 AGTATATTTGGGAGACTTGGCCA 59.214 43.478 0.00 0.00 0.00 5.36
1724 1836 4.439253 AGTATATTTGGGAGACTTGGCC 57.561 45.455 0.00 0.00 0.00 5.36
1725 1837 5.297029 GTCAAGTATATTTGGGAGACTTGGC 59.703 44.000 11.86 7.43 44.54 4.52
1726 1838 5.823045 GGTCAAGTATATTTGGGAGACTTGG 59.177 44.000 11.86 0.00 44.54 3.61
1727 1839 6.653989 AGGTCAAGTATATTTGGGAGACTTG 58.346 40.000 7.99 6.71 45.37 3.16
1728 1840 6.893020 AGGTCAAGTATATTTGGGAGACTT 57.107 37.500 7.99 0.00 0.00 3.01
1729 1841 6.353082 CCAAGGTCAAGTATATTTGGGAGACT 60.353 42.308 7.99 0.00 33.22 3.24
1730 1842 5.823045 CCAAGGTCAAGTATATTTGGGAGAC 59.177 44.000 7.99 0.00 33.22 3.36
1731 1843 5.631481 GCCAAGGTCAAGTATATTTGGGAGA 60.631 44.000 7.99 0.00 36.46 3.71
1732 1844 4.580580 GCCAAGGTCAAGTATATTTGGGAG 59.419 45.833 7.99 0.00 36.46 4.30
1733 1845 4.532834 GCCAAGGTCAAGTATATTTGGGA 58.467 43.478 7.99 0.00 36.46 4.37
1734 1846 3.636764 GGCCAAGGTCAAGTATATTTGGG 59.363 47.826 7.99 2.76 36.46 4.12
1735 1847 3.315191 CGGCCAAGGTCAAGTATATTTGG 59.685 47.826 2.24 0.00 38.42 3.28
1736 1848 3.945285 ACGGCCAAGGTCAAGTATATTTG 59.055 43.478 2.24 1.66 0.00 2.32
1737 1849 3.945285 CACGGCCAAGGTCAAGTATATTT 59.055 43.478 2.24 0.00 0.00 1.40
1738 1850 3.541632 CACGGCCAAGGTCAAGTATATT 58.458 45.455 2.24 0.00 0.00 1.28
1739 1851 2.745152 GCACGGCCAAGGTCAAGTATAT 60.745 50.000 2.24 0.00 0.00 0.86
1740 1852 1.406341 GCACGGCCAAGGTCAAGTATA 60.406 52.381 2.24 0.00 0.00 1.47
1741 1853 0.676782 GCACGGCCAAGGTCAAGTAT 60.677 55.000 2.24 0.00 0.00 2.12
1742 1854 1.302192 GCACGGCCAAGGTCAAGTA 60.302 57.895 2.24 0.00 0.00 2.24
1743 1855 2.594592 GCACGGCCAAGGTCAAGT 60.595 61.111 2.24 0.00 0.00 3.16
1744 1856 3.726517 CGCACGGCCAAGGTCAAG 61.727 66.667 2.24 0.00 0.00 3.02
1745 1857 3.758973 TTCGCACGGCCAAGGTCAA 62.759 57.895 2.24 0.00 0.00 3.18
1746 1858 4.243008 TTCGCACGGCCAAGGTCA 62.243 61.111 2.24 0.00 0.00 4.02
1747 1859 2.775032 TACTTCGCACGGCCAAGGTC 62.775 60.000 2.24 0.00 0.00 3.85
1748 1860 2.386064 TTACTTCGCACGGCCAAGGT 62.386 55.000 2.24 0.00 0.00 3.50
1749 1861 1.231958 TTTACTTCGCACGGCCAAGG 61.232 55.000 2.24 0.00 0.00 3.61
1750 1862 0.802494 ATTTACTTCGCACGGCCAAG 59.198 50.000 2.24 0.00 0.00 3.61
1751 1863 1.240256 AATTTACTTCGCACGGCCAA 58.760 45.000 2.24 0.00 0.00 4.52
1752 1864 1.240256 AAATTTACTTCGCACGGCCA 58.760 45.000 2.24 0.00 0.00 5.36
1753 1865 2.095415 AGAAAATTTACTTCGCACGGCC 60.095 45.455 0.00 0.00 0.00 6.13
1754 1866 3.197434 AGAAAATTTACTTCGCACGGC 57.803 42.857 0.00 0.00 0.00 5.68
1755 1867 4.615541 GGAAAGAAAATTTACTTCGCACGG 59.384 41.667 0.00 0.00 0.00 4.94
1756 1868 4.615541 GGGAAAGAAAATTTACTTCGCACG 59.384 41.667 14.07 0.00 0.00 5.34
1757 1869 5.769367 AGGGAAAGAAAATTTACTTCGCAC 58.231 37.500 18.09 6.64 0.00 5.34
1758 1870 5.048294 GGAGGGAAAGAAAATTTACTTCGCA 60.048 40.000 18.09 0.00 0.00 5.10
1759 1871 5.183331 AGGAGGGAAAGAAAATTTACTTCGC 59.817 40.000 12.32 12.32 0.00 4.70
1760 1872 6.655425 AGAGGAGGGAAAGAAAATTTACTTCG 59.345 38.462 0.00 0.00 0.00 3.79
1761 1873 7.148390 CGAGAGGAGGGAAAGAAAATTTACTTC 60.148 40.741 0.00 0.00 0.00 3.01
1762 1874 6.655425 CGAGAGGAGGGAAAGAAAATTTACTT 59.345 38.462 0.00 0.00 0.00 2.24
1763 1875 6.174049 CGAGAGGAGGGAAAGAAAATTTACT 58.826 40.000 0.00 0.00 0.00 2.24
1764 1876 5.163744 GCGAGAGGAGGGAAAGAAAATTTAC 60.164 44.000 0.00 0.00 0.00 2.01
1765 1877 4.941873 GCGAGAGGAGGGAAAGAAAATTTA 59.058 41.667 0.00 0.00 0.00 1.40
1766 1878 3.759086 GCGAGAGGAGGGAAAGAAAATTT 59.241 43.478 0.00 0.00 0.00 1.82
1767 1879 3.348119 GCGAGAGGAGGGAAAGAAAATT 58.652 45.455 0.00 0.00 0.00 1.82
1768 1880 2.356227 GGCGAGAGGAGGGAAAGAAAAT 60.356 50.000 0.00 0.00 0.00 1.82
1769 1881 1.003233 GGCGAGAGGAGGGAAAGAAAA 59.997 52.381 0.00 0.00 0.00 2.29
1770 1882 0.613777 GGCGAGAGGAGGGAAAGAAA 59.386 55.000 0.00 0.00 0.00 2.52
1771 1883 1.265454 GGGCGAGAGGAGGGAAAGAA 61.265 60.000 0.00 0.00 0.00 2.52
1772 1884 1.686110 GGGCGAGAGGAGGGAAAGA 60.686 63.158 0.00 0.00 0.00 2.52
1773 1885 2.904131 GGGCGAGAGGAGGGAAAG 59.096 66.667 0.00 0.00 0.00 2.62
1774 1886 3.075005 CGGGCGAGAGGAGGGAAA 61.075 66.667 0.00 0.00 0.00 3.13
1775 1887 4.056584 TCGGGCGAGAGGAGGGAA 62.057 66.667 0.00 0.00 0.00 3.97
1776 1888 4.507916 CTCGGGCGAGAGGAGGGA 62.508 72.222 0.00 0.00 44.53 4.20
1817 1929 4.554363 CTGCGACGAGTAGGGGCG 62.554 72.222 0.00 0.00 0.00 6.13
1818 1930 4.874977 GCTGCGACGAGTAGGGGC 62.875 72.222 0.00 0.00 32.85 5.80
1819 1931 4.208686 GGCTGCGACGAGTAGGGG 62.209 72.222 0.00 0.00 32.85 4.79
1840 1952 0.462789 CCAAAATCAGGGGCATCAGC 59.537 55.000 0.00 0.00 41.10 4.26
1842 1954 2.594342 GCCAAAATCAGGGGCATCA 58.406 52.632 0.00 0.00 46.92 3.07
1856 1968 0.547471 TGTCTCTCCATCCCAGCCAA 60.547 55.000 0.00 0.00 0.00 4.52
1857 1969 0.547471 TTGTCTCTCCATCCCAGCCA 60.547 55.000 0.00 0.00 0.00 4.75
1858 1970 0.179936 CTTGTCTCTCCATCCCAGCC 59.820 60.000 0.00 0.00 0.00 4.85
1873 1985 1.716028 GGGTGGTGGAAGGGTCTTGT 61.716 60.000 0.00 0.00 0.00 3.16
1958 2073 7.046935 AAGGTTTTTGGTGCCCAACCTTTTA 62.047 40.000 16.84 0.00 44.92 1.52
2010 2127 1.839747 TGGTGACCTTGCTACCGGT 60.840 57.895 13.98 13.98 37.29 5.28
2014 2131 2.622436 GAGATGTGGTGACCTTGCTAC 58.378 52.381 2.11 0.00 0.00 3.58
2025 2142 2.501128 CATCGCCGGAGATGTGGT 59.499 61.111 32.77 6.22 42.15 4.16
2027 2144 2.969238 GCCATCGCCGGAGATGTG 60.969 66.667 36.11 29.14 44.76 3.21
2028 2145 3.451556 CTGCCATCGCCGGAGATGT 62.452 63.158 36.11 11.26 44.76 3.06
2081 2198 1.004440 GGTCGTCTGCTTCCTTGCT 60.004 57.895 0.00 0.00 0.00 3.91
2157 2274 2.502492 CCGGACGAGGATGAGGCAT 61.502 63.158 0.00 0.00 0.00 4.40
2209 2326 3.503363 GATGCGCCACAGGAGTGC 61.503 66.667 4.18 0.00 44.53 4.40
2258 2375 1.974265 TTTCATCGACCACTTGGCAA 58.026 45.000 0.00 0.00 39.32 4.52
2259 2376 1.811965 CATTTCATCGACCACTTGGCA 59.188 47.619 0.00 0.00 39.32 4.92
2324 2441 3.505808 GCCGCAAGCAATACCAAAA 57.494 47.368 0.00 0.00 42.97 2.44


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

AutoCloner maintained by Alex Coulton.