Multiple sequence alignment - TraesCS7D01G147000

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


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

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS7D01G147000 chr7D 100.000 2391 0 0 1 2391 93939297 93936907 0.000000e+00 4416.0
1 TraesCS7D01G147000 chr7B 91.542 1005 60 11 665 1660 47620639 47619651 0.000000e+00 1362.0
2 TraesCS7D01G147000 chr7B 86.637 449 55 2 3 450 7362401 7362845 2.140000e-135 492.0
3 TraesCS7D01G147000 chr7B 79.844 640 120 8 1 638 197491392 197492024 2.170000e-125 459.0
4 TraesCS7D01G147000 chr7B 89.172 314 27 3 1852 2163 47619648 47619340 3.730000e-103 385.0
5 TraesCS7D01G147000 chr7B 93.578 218 8 4 2161 2377 47619227 47619015 1.070000e-83 320.0
6 TraesCS7D01G147000 chr7A 89.920 1002 42 29 668 1660 97251986 97251035 0.000000e+00 1236.0
7 TraesCS7D01G147000 chr7A 90.152 528 42 4 1853 2377 97251031 97250511 0.000000e+00 678.0
8 TraesCS7D01G147000 chr5D 92.547 644 39 4 1 644 392075513 392076147 0.000000e+00 915.0
9 TraesCS7D01G147000 chr5B 90.244 656 39 8 1 644 473086665 473087307 0.000000e+00 833.0
10 TraesCS7D01G147000 chr5B 90.829 567 47 2 1 567 411080209 411079648 0.000000e+00 754.0
11 TraesCS7D01G147000 chr5B 92.857 196 11 3 1658 1851 401158671 401158477 5.030000e-72 281.0
12 TraesCS7D01G147000 chr3D 87.269 542 64 2 3 544 1841983 1842519 4.370000e-172 614.0
13 TraesCS7D01G147000 chr3D 92.233 206 9 7 1653 1854 533955705 533955503 3.890000e-73 285.0
14 TraesCS7D01G147000 chr2B 92.929 198 9 4 1655 1849 771215325 771215130 1.400000e-72 283.0
15 TraesCS7D01G147000 chr2B 91.262 206 15 3 1654 1856 516245041 516244836 6.510000e-71 278.0
16 TraesCS7D01G147000 chr1B 92.079 202 12 4 1658 1856 63310996 63310796 5.030000e-72 281.0
17 TraesCS7D01G147000 chr1B 92.040 201 12 4 1658 1856 83140920 83141118 1.810000e-71 279.0
18 TraesCS7D01G147000 chr1B 91.262 206 13 5 1654 1856 286670813 286670610 2.340000e-70 276.0
19 TraesCS7D01G147000 chr4B 92.040 201 12 4 1658 1856 480242936 480242738 1.810000e-71 279.0
20 TraesCS7D01G147000 chr2D 92.040 201 13 3 1658 1856 146424204 146424005 1.810000e-71 279.0
21 TraesCS7D01G147000 chr6D 90.972 144 11 2 1112 1255 443844686 443844827 2.430000e-45 193.0
22 TraesCS7D01G147000 chr6D 93.333 60 3 1 1332 1390 443844875 443844934 1.180000e-13 87.9
23 TraesCS7D01G147000 chr6B 96.552 116 3 1 1108 1223 668245352 668245466 8.720000e-45 191.0
24 TraesCS7D01G147000 chr6B 93.333 60 3 1 1332 1390 668245547 668245606 1.180000e-13 87.9
25 TraesCS7D01G147000 chr6A 97.321 112 3 0 1112 1223 591428115 591428226 8.720000e-45 191.0
26 TraesCS7D01G147000 chr6A 93.333 60 3 1 1332 1390 591428307 591428366 1.180000e-13 87.9


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 TraesCS7D01G147000 chr7D 93936907 93939297 2390 True 4416 4416 100.000000 1 2391 1 chr7D.!!$R1 2390
1 TraesCS7D01G147000 chr7B 47619015 47620639 1624 True 689 1362 91.430667 665 2377 3 chr7B.!!$R1 1712
2 TraesCS7D01G147000 chr7B 197491392 197492024 632 False 459 459 79.844000 1 638 1 chr7B.!!$F2 637
3 TraesCS7D01G147000 chr7A 97250511 97251986 1475 True 957 1236 90.036000 668 2377 2 chr7A.!!$R1 1709
4 TraesCS7D01G147000 chr5D 392075513 392076147 634 False 915 915 92.547000 1 644 1 chr5D.!!$F1 643
5 TraesCS7D01G147000 chr5B 473086665 473087307 642 False 833 833 90.244000 1 644 1 chr5B.!!$F1 643
6 TraesCS7D01G147000 chr5B 411079648 411080209 561 True 754 754 90.829000 1 567 1 chr5B.!!$R2 566
7 TraesCS7D01G147000 chr3D 1841983 1842519 536 False 614 614 87.269000 3 544 1 chr3D.!!$F1 541

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
595 616 0.519961 CTAAAAACACGCCCCCTTCG 59.48 55.0 0.0 0.0 0.0 3.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1661 1699 1.203237 AGATGTGTCCTGACAGACCCT 60.203 52.381 3.32 0.0 42.74 4.34 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
36 37 1.192534 GCTGGACGAAACTTGTTCTCG 59.807 52.381 12.66 12.66 38.53 4.04
60 61 3.453717 CCATCAAGTCAAGATCTCCCAGA 59.546 47.826 0.00 0.00 0.00 3.86
89 90 3.689649 GTGATAAAAACCGAGGTGCTCAT 59.310 43.478 0.00 0.00 0.00 2.90
239 247 3.191371 GCATCCTCAGTTCGGTTTGAAAT 59.809 43.478 0.00 0.00 38.60 2.17
240 248 4.394920 GCATCCTCAGTTCGGTTTGAAATA 59.605 41.667 0.00 0.00 38.60 1.40
241 249 5.447818 GCATCCTCAGTTCGGTTTGAAATAG 60.448 44.000 0.00 0.00 38.60 1.73
242 250 4.000988 TCCTCAGTTCGGTTTGAAATAGC 58.999 43.478 0.00 0.00 38.60 2.97
291 299 4.343323 TGCCCACACACATCGGGG 62.343 66.667 0.00 0.00 43.72 5.73
335 343 0.758734 CCTCCAGGTATCAATCGCCA 59.241 55.000 0.00 0.00 0.00 5.69
358 366 3.275617 TTGCATATAGAACAAGCCGGT 57.724 42.857 1.90 0.00 0.00 5.28
448 468 4.499019 GCAAAAACTTTGATCTTGGACGGA 60.499 41.667 3.35 0.00 0.00 4.69
451 471 7.367285 CAAAAACTTTGATCTTGGACGGAATA 58.633 34.615 0.00 0.00 0.00 1.75
587 608 2.899977 CAGACCGAACTAAAAACACGC 58.100 47.619 0.00 0.00 0.00 5.34
595 616 0.519961 CTAAAAACACGCCCCCTTCG 59.480 55.000 0.00 0.00 0.00 3.79
638 659 3.625099 GCTTGGGCTCGGGTACTA 58.375 61.111 0.00 0.00 35.22 1.82
644 665 2.279318 GCTCGGGTACTAAGCGGC 60.279 66.667 0.00 0.00 0.00 6.53
645 666 2.416260 CTCGGGTACTAAGCGGCC 59.584 66.667 0.00 0.00 0.00 6.13
646 667 3.148031 CTCGGGTACTAAGCGGCCC 62.148 68.421 0.00 0.00 37.79 5.80
647 668 3.152400 CGGGTACTAAGCGGCCCT 61.152 66.667 0.00 0.00 38.97 5.19
648 669 2.820261 GGGTACTAAGCGGCCCTC 59.180 66.667 0.00 0.00 38.12 4.30
649 670 2.062177 GGGTACTAAGCGGCCCTCA 61.062 63.158 0.00 0.00 38.12 3.86
650 671 1.442148 GGTACTAAGCGGCCCTCAG 59.558 63.158 0.00 0.00 0.00 3.35
651 672 1.041447 GGTACTAAGCGGCCCTCAGA 61.041 60.000 0.00 0.00 0.00 3.27
652 673 1.041437 GTACTAAGCGGCCCTCAGAT 58.959 55.000 0.00 0.00 0.00 2.90
653 674 1.040646 TACTAAGCGGCCCTCAGATG 58.959 55.000 0.00 0.00 0.00 2.90
654 675 0.978146 ACTAAGCGGCCCTCAGATGT 60.978 55.000 0.00 0.00 0.00 3.06
655 676 1.040646 CTAAGCGGCCCTCAGATGTA 58.959 55.000 0.00 0.00 0.00 2.29
656 677 1.000283 CTAAGCGGCCCTCAGATGTAG 60.000 57.143 0.00 0.00 0.00 2.74
657 678 0.687757 AAGCGGCCCTCAGATGTAGA 60.688 55.000 0.00 0.00 0.00 2.59
658 679 1.112315 AGCGGCCCTCAGATGTAGAG 61.112 60.000 0.00 0.00 0.00 2.43
687 708 2.930682 GAGGAAGCCGTTATTGTGAGAC 59.069 50.000 0.00 0.00 0.00 3.36
688 709 1.659098 GGAAGCCGTTATTGTGAGACG 59.341 52.381 0.00 0.00 36.61 4.18
782 805 4.158025 AGGGAAGAGTACAGACATAACGTG 59.842 45.833 0.00 0.00 0.00 4.49
785 809 2.159421 AGAGTACAGACATAACGTGCGG 60.159 50.000 0.00 0.00 0.00 5.69
818 842 2.542595 CCCAGTTCTGTACGTTTGACAC 59.457 50.000 0.00 0.00 0.00 3.67
830 854 1.045911 TTTGACACAAAGGCCCACCC 61.046 55.000 0.00 0.00 36.11 4.61
851 875 1.303074 AGTAGTCAGTCCGCCGACA 60.303 57.895 7.93 0.00 41.87 4.35
916 940 4.262036 CGGCACTGCTCTCCACTATATAAA 60.262 45.833 0.00 0.00 0.00 1.40
1027 1052 1.479709 CATCTCCGTTCACTCTCCCT 58.520 55.000 0.00 0.00 0.00 4.20
1034 1059 1.202313 CGTTCACTCTCCCTCGAATCC 60.202 57.143 0.00 0.00 0.00 3.01
1085 1111 2.131023 GTTCCCTCCTTCATGGATCCT 58.869 52.381 14.23 0.00 45.16 3.24
1237 1263 2.895372 GTACCTTCCGCCGCCATG 60.895 66.667 0.00 0.00 0.00 3.66
1239 1265 3.379865 TACCTTCCGCCGCCATGAC 62.380 63.158 0.00 0.00 0.00 3.06
1241 1267 4.473520 CTTCCGCCGCCATGACCT 62.474 66.667 0.00 0.00 0.00 3.85
1242 1268 3.976701 CTTCCGCCGCCATGACCTT 62.977 63.158 0.00 0.00 0.00 3.50
1243 1269 3.969250 TTCCGCCGCCATGACCTTC 62.969 63.158 0.00 0.00 0.00 3.46
1244 1270 4.473520 CCGCCGCCATGACCTTCT 62.474 66.667 0.00 0.00 0.00 2.85
1245 1271 2.892425 CGCCGCCATGACCTTCTC 60.892 66.667 0.00 0.00 0.00 2.87
1246 1272 2.514824 GCCGCCATGACCTTCTCC 60.515 66.667 0.00 0.00 0.00 3.71
1247 1273 2.202932 CCGCCATGACCTTCTCCG 60.203 66.667 0.00 0.00 0.00 4.63
1255 1281 0.178944 TGACCTTCTCCGTTCTCCCA 60.179 55.000 0.00 0.00 0.00 4.37
1300 1330 3.753797 CAGCGCTAGTAGTGGATCTATGA 59.246 47.826 10.99 0.00 0.00 2.15
1313 1343 1.693627 TCTATGAAGAGGAGACGGCC 58.306 55.000 0.00 0.00 0.00 6.13
1393 1423 1.212616 CCAAGCTCGGATTCTAAGCG 58.787 55.000 0.00 0.00 40.95 4.68
1594 1632 8.582437 CCATCATATTTTGCTGATTATGGAACT 58.418 33.333 0.00 0.00 29.74 3.01
1657 1695 1.425066 TGGCCTGACCAGTTGAAATCT 59.575 47.619 3.32 0.00 46.36 2.40
1660 1698 4.079253 GGCCTGACCAGTTGAAATCTTTA 58.921 43.478 0.00 0.00 38.86 1.85
1661 1699 4.522789 GGCCTGACCAGTTGAAATCTTTAA 59.477 41.667 0.00 0.00 38.86 1.52
1662 1700 5.335976 GGCCTGACCAGTTGAAATCTTTAAG 60.336 44.000 0.00 0.00 38.86 1.85
1663 1701 5.335976 GCCTGACCAGTTGAAATCTTTAAGG 60.336 44.000 0.00 0.00 0.00 2.69
1664 1702 5.183904 CCTGACCAGTTGAAATCTTTAAGGG 59.816 44.000 0.00 0.00 0.00 3.95
1665 1703 5.701224 TGACCAGTTGAAATCTTTAAGGGT 58.299 37.500 0.00 0.00 0.00 4.34
1666 1704 5.768164 TGACCAGTTGAAATCTTTAAGGGTC 59.232 40.000 0.00 0.00 41.02 4.46
1667 1705 5.953571 ACCAGTTGAAATCTTTAAGGGTCT 58.046 37.500 0.00 0.00 0.00 3.85
1668 1706 5.770162 ACCAGTTGAAATCTTTAAGGGTCTG 59.230 40.000 0.00 0.00 0.00 3.51
1669 1707 5.770162 CCAGTTGAAATCTTTAAGGGTCTGT 59.230 40.000 0.00 0.00 0.00 3.41
1670 1708 6.072452 CCAGTTGAAATCTTTAAGGGTCTGTC 60.072 42.308 0.00 0.00 0.00 3.51
1671 1709 6.486657 CAGTTGAAATCTTTAAGGGTCTGTCA 59.513 38.462 0.00 0.00 0.00 3.58
1672 1710 6.712547 AGTTGAAATCTTTAAGGGTCTGTCAG 59.287 38.462 0.00 0.00 0.00 3.51
1673 1711 5.560724 TGAAATCTTTAAGGGTCTGTCAGG 58.439 41.667 0.00 0.00 0.00 3.86
1674 1712 5.309543 TGAAATCTTTAAGGGTCTGTCAGGA 59.690 40.000 0.00 0.00 0.00 3.86
1675 1713 4.828072 ATCTTTAAGGGTCTGTCAGGAC 57.172 45.455 0.00 0.00 35.66 3.85
1676 1714 3.583228 TCTTTAAGGGTCTGTCAGGACA 58.417 45.455 0.00 1.70 37.91 4.02
1677 1715 3.323979 TCTTTAAGGGTCTGTCAGGACAC 59.676 47.826 0.00 0.00 39.71 3.67
1678 1716 2.391926 TAAGGGTCTGTCAGGACACA 57.608 50.000 0.00 0.00 41.67 3.72
1679 1717 1.734655 AAGGGTCTGTCAGGACACAT 58.265 50.000 0.00 0.00 41.67 3.21
1680 1718 1.270907 AGGGTCTGTCAGGACACATC 58.729 55.000 0.00 0.00 41.67 3.06
1681 1719 1.203237 AGGGTCTGTCAGGACACATCT 60.203 52.381 0.00 0.00 41.67 2.90
1682 1720 2.043115 AGGGTCTGTCAGGACACATCTA 59.957 50.000 0.00 0.00 41.67 1.98
1683 1721 2.166664 GGGTCTGTCAGGACACATCTAC 59.833 54.545 0.00 0.00 39.26 2.59
1684 1722 2.826128 GGTCTGTCAGGACACATCTACA 59.174 50.000 0.00 0.00 37.91 2.74
1685 1723 3.449018 GGTCTGTCAGGACACATCTACAT 59.551 47.826 0.00 0.00 37.91 2.29
1686 1724 4.428209 GTCTGTCAGGACACATCTACATG 58.572 47.826 0.00 0.00 36.21 3.21
1687 1725 4.081972 GTCTGTCAGGACACATCTACATGT 60.082 45.833 2.69 2.69 44.72 3.21
1714 1752 8.011844 ACATAGTTATGTCACATCTAAGCTGA 57.988 34.615 0.00 0.00 42.96 4.26
1715 1753 8.646004 ACATAGTTATGTCACATCTAAGCTGAT 58.354 33.333 0.00 0.00 42.96 2.90
1716 1754 8.923683 CATAGTTATGTCACATCTAAGCTGATG 58.076 37.037 11.48 11.48 46.61 3.07
1724 1762 4.669206 CATCTAAGCTGATGTCCACTCT 57.331 45.455 5.99 0.00 39.05 3.24
1725 1763 4.370049 CATCTAAGCTGATGTCCACTCTG 58.630 47.826 5.99 0.00 39.05 3.35
1726 1764 3.435275 TCTAAGCTGATGTCCACTCTGT 58.565 45.455 0.00 0.00 0.00 3.41
1727 1765 3.834813 TCTAAGCTGATGTCCACTCTGTT 59.165 43.478 0.00 0.00 0.00 3.16
1728 1766 3.498774 AAGCTGATGTCCACTCTGTTT 57.501 42.857 0.00 0.00 0.00 2.83
1729 1767 2.775890 AGCTGATGTCCACTCTGTTTG 58.224 47.619 0.00 0.00 0.00 2.93
1730 1768 2.105477 AGCTGATGTCCACTCTGTTTGT 59.895 45.455 0.00 0.00 0.00 2.83
1731 1769 2.225019 GCTGATGTCCACTCTGTTTGTG 59.775 50.000 0.00 0.00 35.39 3.33
1763 1801 8.766000 TTTTTGTCCTAGGTTCTTTTTGTTTC 57.234 30.769 9.08 0.00 0.00 2.78
1764 1802 7.712204 TTTGTCCTAGGTTCTTTTTGTTTCT 57.288 32.000 9.08 0.00 0.00 2.52
1765 1803 7.712204 TTGTCCTAGGTTCTTTTTGTTTCTT 57.288 32.000 9.08 0.00 0.00 2.52
1766 1804 7.095695 TGTCCTAGGTTCTTTTTGTTTCTTG 57.904 36.000 9.08 0.00 0.00 3.02
1767 1805 6.661805 TGTCCTAGGTTCTTTTTGTTTCTTGT 59.338 34.615 9.08 0.00 0.00 3.16
1768 1806 7.177744 TGTCCTAGGTTCTTTTTGTTTCTTGTT 59.822 33.333 9.08 0.00 0.00 2.83
1769 1807 7.488150 GTCCTAGGTTCTTTTTGTTTCTTGTTG 59.512 37.037 9.08 0.00 0.00 3.33
1770 1808 6.255670 CCTAGGTTCTTTTTGTTTCTTGTTGC 59.744 38.462 0.00 0.00 0.00 4.17
1771 1809 5.793817 AGGTTCTTTTTGTTTCTTGTTGCT 58.206 33.333 0.00 0.00 0.00 3.91
1772 1810 5.639082 AGGTTCTTTTTGTTTCTTGTTGCTG 59.361 36.000 0.00 0.00 0.00 4.41
1773 1811 5.315982 GTTCTTTTTGTTTCTTGTTGCTGC 58.684 37.500 0.00 0.00 0.00 5.25
1774 1812 4.564041 TCTTTTTGTTTCTTGTTGCTGCA 58.436 34.783 0.00 0.00 0.00 4.41
1775 1813 5.177326 TCTTTTTGTTTCTTGTTGCTGCAT 58.823 33.333 1.84 0.00 0.00 3.96
1776 1814 5.642919 TCTTTTTGTTTCTTGTTGCTGCATT 59.357 32.000 1.84 0.00 0.00 3.56
1777 1815 6.815641 TCTTTTTGTTTCTTGTTGCTGCATTA 59.184 30.769 1.84 0.00 0.00 1.90
1778 1816 7.495279 TCTTTTTGTTTCTTGTTGCTGCATTAT 59.505 29.630 1.84 0.00 0.00 1.28
1779 1817 8.654230 TTTTTGTTTCTTGTTGCTGCATTATA 57.346 26.923 1.84 0.00 0.00 0.98
1780 1818 7.872163 TTTGTTTCTTGTTGCTGCATTATAG 57.128 32.000 1.84 0.00 0.00 1.31
1781 1819 6.816134 TGTTTCTTGTTGCTGCATTATAGA 57.184 33.333 1.84 1.75 0.00 1.98
1782 1820 7.395190 TGTTTCTTGTTGCTGCATTATAGAT 57.605 32.000 1.84 0.00 0.00 1.98
1783 1821 7.829725 TGTTTCTTGTTGCTGCATTATAGATT 58.170 30.769 1.84 0.00 0.00 2.40
1784 1822 8.306038 TGTTTCTTGTTGCTGCATTATAGATTT 58.694 29.630 1.84 0.00 0.00 2.17
1785 1823 8.589629 GTTTCTTGTTGCTGCATTATAGATTTG 58.410 33.333 1.84 0.00 0.00 2.32
1786 1824 7.395190 TCTTGTTGCTGCATTATAGATTTGT 57.605 32.000 1.84 0.00 0.00 2.83
1787 1825 7.252708 TCTTGTTGCTGCATTATAGATTTGTG 58.747 34.615 1.84 0.00 0.00 3.33
1788 1826 5.893687 TGTTGCTGCATTATAGATTTGTGG 58.106 37.500 1.84 0.00 0.00 4.17
1789 1827 5.163530 TGTTGCTGCATTATAGATTTGTGGG 60.164 40.000 1.84 0.00 0.00 4.61
1790 1828 4.790937 TGCTGCATTATAGATTTGTGGGA 58.209 39.130 0.00 0.00 0.00 4.37
1791 1829 4.823442 TGCTGCATTATAGATTTGTGGGAG 59.177 41.667 0.00 0.00 0.00 4.30
1792 1830 4.320788 GCTGCATTATAGATTTGTGGGAGC 60.321 45.833 0.00 0.00 0.00 4.70
1793 1831 5.052693 TGCATTATAGATTTGTGGGAGCT 57.947 39.130 0.00 0.00 0.00 4.09
1794 1832 5.448654 TGCATTATAGATTTGTGGGAGCTT 58.551 37.500 0.00 0.00 0.00 3.74
1795 1833 6.600388 TGCATTATAGATTTGTGGGAGCTTA 58.400 36.000 0.00 0.00 0.00 3.09
1796 1834 6.712095 TGCATTATAGATTTGTGGGAGCTTAG 59.288 38.462 0.00 0.00 0.00 2.18
1797 1835 6.936900 GCATTATAGATTTGTGGGAGCTTAGA 59.063 38.462 0.00 0.00 0.00 2.10
1798 1836 7.609532 GCATTATAGATTTGTGGGAGCTTAGAT 59.390 37.037 0.00 0.00 0.00 1.98
1799 1837 8.944029 CATTATAGATTTGTGGGAGCTTAGATG 58.056 37.037 0.00 0.00 0.00 2.90
1800 1838 4.851639 AGATTTGTGGGAGCTTAGATGT 57.148 40.909 0.00 0.00 0.00 3.06
1801 1839 4.521146 AGATTTGTGGGAGCTTAGATGTG 58.479 43.478 0.00 0.00 0.00 3.21
1802 1840 4.225942 AGATTTGTGGGAGCTTAGATGTGA 59.774 41.667 0.00 0.00 0.00 3.58
1803 1841 3.334583 TTGTGGGAGCTTAGATGTGAC 57.665 47.619 0.00 0.00 0.00 3.67
1804 1842 2.256306 TGTGGGAGCTTAGATGTGACA 58.744 47.619 0.00 0.00 0.00 3.58
1805 1843 2.840038 TGTGGGAGCTTAGATGTGACAT 59.160 45.455 0.00 0.00 0.00 3.06
1806 1844 3.118629 TGTGGGAGCTTAGATGTGACATC 60.119 47.826 17.46 17.46 0.00 3.06
1807 1845 2.435805 TGGGAGCTTAGATGTGACATCC 59.564 50.000 21.05 6.28 0.00 3.51
1808 1846 2.703007 GGGAGCTTAGATGTGACATCCT 59.297 50.000 21.05 11.37 0.00 3.24
1809 1847 3.135530 GGGAGCTTAGATGTGACATCCTT 59.864 47.826 21.05 7.22 0.00 3.36
1810 1848 4.345257 GGGAGCTTAGATGTGACATCCTTA 59.655 45.833 21.05 6.22 0.00 2.69
1811 1849 5.163301 GGGAGCTTAGATGTGACATCCTTAA 60.163 44.000 21.05 13.11 0.00 1.85
1812 1850 6.349300 GGAGCTTAGATGTGACATCCTTAAA 58.651 40.000 21.05 10.18 0.00 1.52
1813 1851 6.823689 GGAGCTTAGATGTGACATCCTTAAAA 59.176 38.462 21.05 8.00 0.00 1.52
1814 1852 7.336931 GGAGCTTAGATGTGACATCCTTAAAAA 59.663 37.037 21.05 6.46 0.00 1.94
1841 1879 7.845483 CATCTAGATGTGAATTAGACAAACCG 58.155 38.462 22.42 0.00 34.23 4.44
1842 1880 7.165460 TCTAGATGTGAATTAGACAAACCGA 57.835 36.000 0.00 0.00 0.00 4.69
1843 1881 7.608153 TCTAGATGTGAATTAGACAAACCGAA 58.392 34.615 0.00 0.00 0.00 4.30
1844 1882 8.258007 TCTAGATGTGAATTAGACAAACCGAAT 58.742 33.333 0.00 0.00 0.00 3.34
1845 1883 7.308782 AGATGTGAATTAGACAAACCGAATC 57.691 36.000 0.00 0.00 0.00 2.52
1846 1884 7.106239 AGATGTGAATTAGACAAACCGAATCT 58.894 34.615 0.00 0.00 0.00 2.40
1847 1885 7.607991 AGATGTGAATTAGACAAACCGAATCTT 59.392 33.333 0.00 0.00 0.00 2.40
1848 1886 7.504924 TGTGAATTAGACAAACCGAATCTTT 57.495 32.000 0.00 0.00 0.00 2.52
1849 1887 8.610248 TGTGAATTAGACAAACCGAATCTTTA 57.390 30.769 0.00 0.00 0.00 1.85
1850 1888 9.058174 TGTGAATTAGACAAACCGAATCTTTAA 57.942 29.630 0.00 0.00 0.00 1.52
1901 1939 9.934190 GCATTTTTAATGAATTTCTTGTGTTGT 57.066 25.926 3.70 0.00 0.00 3.32
1904 1942 9.658799 TTTTTAATGAATTTCTTGTGTTGTGGA 57.341 25.926 0.00 0.00 0.00 4.02
1905 1943 8.641499 TTTAATGAATTTCTTGTGTTGTGGAC 57.359 30.769 0.00 0.00 0.00 4.02
1907 1945 5.913137 TGAATTTCTTGTGTTGTGGACTT 57.087 34.783 0.00 0.00 0.00 3.01
1908 1946 6.279513 TGAATTTCTTGTGTTGTGGACTTT 57.720 33.333 0.00 0.00 0.00 2.66
1909 1947 6.696411 TGAATTTCTTGTGTTGTGGACTTTT 58.304 32.000 0.00 0.00 0.00 2.27
1910 1948 7.831753 TGAATTTCTTGTGTTGTGGACTTTTA 58.168 30.769 0.00 0.00 0.00 1.52
1911 1949 8.307483 TGAATTTCTTGTGTTGTGGACTTTTAA 58.693 29.630 0.00 0.00 0.00 1.52
1912 1950 8.702163 AATTTCTTGTGTTGTGGACTTTTAAG 57.298 30.769 0.00 0.00 0.00 1.85
1913 1951 6.827586 TTCTTGTGTTGTGGACTTTTAAGT 57.172 33.333 0.00 0.00 43.16 2.24
1914 1952 6.827586 TCTTGTGTTGTGGACTTTTAAGTT 57.172 33.333 0.00 0.00 39.88 2.66
1976 2017 5.899278 AGGGGATAGTTGTATTGTGGTTTT 58.101 37.500 0.00 0.00 0.00 2.43
2029 2070 2.505819 CCTGGGTGACTTGCCTAGTATT 59.494 50.000 0.00 0.00 37.17 1.89
2039 2080 4.637534 ACTTGCCTAGTATTCTGCACAATG 59.362 41.667 0.00 0.00 34.56 2.82
2118 2159 4.385825 CCTCTGTTGTGGTTGCTTTACTA 58.614 43.478 0.00 0.00 0.00 1.82
2126 2167 5.054477 TGTGGTTGCTTTACTAGTTCAGTC 58.946 41.667 0.00 0.00 38.80 3.51
2131 2172 5.135508 TGCTTTACTAGTTCAGTCTGGTC 57.864 43.478 0.00 0.00 38.80 4.02
2139 2180 4.264460 AGTTCAGTCTGGTCTTAAGCTG 57.736 45.455 0.00 0.00 0.00 4.24
2180 2336 2.504175 GGTAGGAGATTGCCCTGTTGTA 59.496 50.000 0.00 0.00 35.30 2.41
2181 2337 3.432326 GGTAGGAGATTGCCCTGTTGTAG 60.432 52.174 0.00 0.00 35.30 2.74
2232 2388 5.390387 ACCTTTTTGCCATTAGTAGTTCCA 58.610 37.500 0.00 0.00 0.00 3.53
2238 2394 5.172687 TGCCATTAGTAGTTCCATTGTGA 57.827 39.130 0.00 0.00 0.00 3.58
2272 2428 4.566004 TGCACACAGTTAGGTATTCTGTC 58.434 43.478 0.00 0.00 39.89 3.51
2275 2431 4.627467 CACACAGTTAGGTATTCTGTCTGC 59.373 45.833 0.00 0.00 39.89 4.26
2289 2445 4.350346 TCTGTCTGCATGTTTTGTTTTCG 58.650 39.130 0.00 0.00 0.00 3.46
2298 2454 7.176075 TGCATGTTTTGTTTTCGTAACAATTG 58.824 30.769 15.58 3.24 39.56 2.32
2301 2457 6.164176 TGTTTTGTTTTCGTAACAATTGGGT 58.836 32.000 10.83 0.00 39.56 4.51
2318 2475 7.497579 ACAATTGGGTTTTGGATGTTTTAGTTC 59.502 33.333 10.83 0.00 0.00 3.01
2350 2507 6.986817 GTGCTGATACCTGTCATTATACAAGT 59.013 38.462 0.00 0.00 0.00 3.16
2351 2508 8.141909 GTGCTGATACCTGTCATTATACAAGTA 58.858 37.037 0.00 0.00 32.39 2.24
2377 2534 7.107639 AGTTTAATGTTTGTGGTTTGCTACT 57.892 32.000 0.00 0.00 0.00 2.57
2378 2535 6.978080 AGTTTAATGTTTGTGGTTTGCTACTG 59.022 34.615 0.00 0.00 0.00 2.74
2379 2536 6.458232 TTAATGTTTGTGGTTTGCTACTGT 57.542 33.333 0.00 0.00 0.00 3.55
2380 2537 5.337578 AATGTTTGTGGTTTGCTACTGTT 57.662 34.783 0.00 0.00 0.00 3.16
2381 2538 4.103365 TGTTTGTGGTTTGCTACTGTTG 57.897 40.909 0.00 0.00 0.00 3.33
2382 2539 3.759086 TGTTTGTGGTTTGCTACTGTTGA 59.241 39.130 0.00 0.00 0.00 3.18
2383 2540 4.400884 TGTTTGTGGTTTGCTACTGTTGAT 59.599 37.500 0.00 0.00 0.00 2.57
2384 2541 5.590663 TGTTTGTGGTTTGCTACTGTTGATA 59.409 36.000 0.00 0.00 0.00 2.15
2385 2542 5.682943 TTGTGGTTTGCTACTGTTGATAC 57.317 39.130 0.00 0.00 0.00 2.24
2386 2543 4.968259 TGTGGTTTGCTACTGTTGATACT 58.032 39.130 0.00 0.00 0.00 2.12
2387 2544 5.373222 TGTGGTTTGCTACTGTTGATACTT 58.627 37.500 0.00 0.00 0.00 2.24
2388 2545 5.238432 TGTGGTTTGCTACTGTTGATACTTG 59.762 40.000 0.00 0.00 0.00 3.16
2389 2546 5.238650 GTGGTTTGCTACTGTTGATACTTGT 59.761 40.000 0.00 0.00 0.00 3.16
2390 2547 5.825679 TGGTTTGCTACTGTTGATACTTGTT 59.174 36.000 0.00 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
36 37 2.570135 GGAGATCTTGACTTGATGGCC 58.430 52.381 0.00 0.00 0.00 5.36
60 61 6.270064 CACCTCGGTTTTTATCACAAAGTTT 58.730 36.000 0.00 0.00 0.00 2.66
89 90 1.367346 TGATCAGTACCAAAGCCCCA 58.633 50.000 0.00 0.00 0.00 4.96
239 247 2.808919 ACTGACAGAGGTTGCTAGCTA 58.191 47.619 17.23 5.31 30.79 3.32
240 248 1.638529 ACTGACAGAGGTTGCTAGCT 58.361 50.000 17.23 0.00 34.07 3.32
241 249 2.342179 GAACTGACAGAGGTTGCTAGC 58.658 52.381 10.08 8.10 0.00 3.42
242 250 2.564947 AGGAACTGACAGAGGTTGCTAG 59.435 50.000 10.08 0.00 41.10 3.42
291 299 3.768406 TCGTTATTTGATTGCCACATGC 58.232 40.909 0.00 0.00 41.77 4.06
335 343 3.565482 CCGGCTTGTTCTATATGCAATGT 59.435 43.478 0.00 0.00 0.00 2.71
358 366 8.088365 CGGAACCATAGAAATATGACAGATACA 58.912 37.037 0.00 0.00 0.00 2.29
448 468 6.126739 GGGGTAAACTCTGGAATCTGAGTATT 60.127 42.308 9.07 8.53 46.77 1.89
578 599 0.538746 ATCGAAGGGGGCGTGTTTTT 60.539 50.000 0.00 0.00 0.00 1.94
587 608 0.035458 GGCACTATGATCGAAGGGGG 59.965 60.000 0.00 0.00 0.00 5.40
595 616 0.250640 CTGGGCCTGGCACTATGATC 60.251 60.000 23.45 0.13 30.56 2.92
638 659 0.687757 TCTACATCTGAGGGCCGCTT 60.688 55.000 9.19 0.00 0.00 4.68
646 667 5.070001 CCTCTAGAACCCTCTACATCTGAG 58.930 50.000 0.00 0.00 32.70 3.35
647 668 4.727332 TCCTCTAGAACCCTCTACATCTGA 59.273 45.833 0.00 0.00 32.70 3.27
648 669 5.055265 TCCTCTAGAACCCTCTACATCTG 57.945 47.826 0.00 0.00 32.70 2.90
649 670 5.701224 CTTCCTCTAGAACCCTCTACATCT 58.299 45.833 0.00 0.00 32.70 2.90
650 671 4.279922 GCTTCCTCTAGAACCCTCTACATC 59.720 50.000 0.00 0.00 32.70 3.06
651 672 4.219919 GCTTCCTCTAGAACCCTCTACAT 58.780 47.826 0.00 0.00 32.70 2.29
652 673 3.627747 GGCTTCCTCTAGAACCCTCTACA 60.628 52.174 0.00 0.00 32.70 2.74
653 674 2.960384 GGCTTCCTCTAGAACCCTCTAC 59.040 54.545 0.00 0.00 32.70 2.59
654 675 2.423088 CGGCTTCCTCTAGAACCCTCTA 60.423 54.545 0.00 0.00 32.70 2.43
655 676 1.686741 CGGCTTCCTCTAGAACCCTCT 60.687 57.143 0.00 0.00 35.52 3.69
656 677 0.747852 CGGCTTCCTCTAGAACCCTC 59.252 60.000 0.00 0.00 29.07 4.30
657 678 0.041386 ACGGCTTCCTCTAGAACCCT 59.959 55.000 0.00 0.00 29.07 4.34
658 679 0.903236 AACGGCTTCCTCTAGAACCC 59.097 55.000 0.00 0.00 0.00 4.11
659 680 4.120589 CAATAACGGCTTCCTCTAGAACC 58.879 47.826 0.00 0.00 0.00 3.62
660 681 4.567159 CACAATAACGGCTTCCTCTAGAAC 59.433 45.833 0.00 0.00 0.00 3.01
661 682 4.464951 TCACAATAACGGCTTCCTCTAGAA 59.535 41.667 0.00 0.00 0.00 2.10
662 683 4.021229 TCACAATAACGGCTTCCTCTAGA 58.979 43.478 0.00 0.00 0.00 2.43
663 684 4.098044 TCTCACAATAACGGCTTCCTCTAG 59.902 45.833 0.00 0.00 0.00 2.43
673 694 0.457166 TCCGCGTCTCACAATAACGG 60.457 55.000 4.92 0.00 40.47 4.44
687 708 2.081425 CTCTGATTCCCTCCTCCGCG 62.081 65.000 0.00 0.00 0.00 6.46
688 709 0.757188 TCTCTGATTCCCTCCTCCGC 60.757 60.000 0.00 0.00 0.00 5.54
818 842 3.561120 TACTGCGGGTGGGCCTTTG 62.561 63.158 4.53 0.00 34.45 2.77
830 854 2.202623 GGCGGACTGACTACTGCG 60.203 66.667 0.00 0.00 39.04 5.18
851 875 7.054124 TCGGCTAGTTCTTTGGAATGAAATAT 58.946 34.615 0.00 0.00 33.71 1.28
1027 1052 1.075226 CAGGGGGAGAGGGATTCGA 60.075 63.158 0.00 0.00 0.00 3.71
1034 1059 1.341156 AATCGAAGCAGGGGGAGAGG 61.341 60.000 0.00 0.00 0.00 3.69
1237 1263 0.246910 GTGGGAGAACGGAGAAGGTC 59.753 60.000 0.00 0.00 0.00 3.85
1239 1265 1.215647 CGTGGGAGAACGGAGAAGG 59.784 63.158 0.00 0.00 39.89 3.46
1246 1272 3.110178 GCGAACCGTGGGAGAACG 61.110 66.667 0.00 0.00 43.20 3.95
1247 1273 2.741211 GGCGAACCGTGGGAGAAC 60.741 66.667 0.00 0.00 0.00 3.01
1281 1307 5.123186 CCTCTTCATAGATCCACTACTAGCG 59.877 48.000 0.00 0.00 33.62 4.26
1289 1319 3.254657 CCGTCTCCTCTTCATAGATCCAC 59.745 52.174 0.00 0.00 0.00 4.02
1323 1353 0.389166 CCTGAGACAGCAACGAGACC 60.389 60.000 0.00 0.00 0.00 3.85
1326 1356 1.269723 TGTACCTGAGACAGCAACGAG 59.730 52.381 0.00 0.00 0.00 4.18
1393 1423 1.067582 GTCATCGTCGTCATCCCCC 59.932 63.158 0.00 0.00 0.00 5.40
1594 1632 6.947464 ACAGAGCTTAAGCAGGATAAAAGTA 58.053 36.000 28.39 0.00 45.16 2.24
1595 1633 5.810095 ACAGAGCTTAAGCAGGATAAAAGT 58.190 37.500 28.39 10.68 45.16 2.66
1657 1695 3.042682 TGTGTCCTGACAGACCCTTAAA 58.957 45.455 3.32 0.00 42.74 1.52
1660 1698 1.625818 GATGTGTCCTGACAGACCCTT 59.374 52.381 3.32 0.00 42.74 3.95
1661 1699 1.203237 AGATGTGTCCTGACAGACCCT 60.203 52.381 3.32 0.00 42.74 4.34
1662 1700 1.270907 AGATGTGTCCTGACAGACCC 58.729 55.000 3.32 0.00 42.74 4.46
1663 1701 2.826128 TGTAGATGTGTCCTGACAGACC 59.174 50.000 3.32 0.00 42.74 3.85
1664 1702 4.081972 ACATGTAGATGTGTCCTGACAGAC 60.082 45.833 4.42 1.18 41.52 3.51
1665 1703 4.089361 ACATGTAGATGTGTCCTGACAGA 58.911 43.478 4.42 0.00 41.52 3.41
1666 1704 4.462508 ACATGTAGATGTGTCCTGACAG 57.537 45.455 4.42 0.00 41.52 3.51
1674 1712 8.478066 ACATAACTATGTCACATGTAGATGTGT 58.522 33.333 26.83 14.29 44.41 3.72
1675 1713 8.877808 ACATAACTATGTCACATGTAGATGTG 57.122 34.615 23.48 23.48 45.96 3.21
1690 1728 8.923683 CATCAGCTTAGATGTGACATAACTATG 58.076 37.037 0.00 0.92 40.35 2.23
1704 1742 4.029520 ACAGAGTGGACATCAGCTTAGAT 58.970 43.478 0.00 0.00 0.00 1.98
1705 1743 3.435275 ACAGAGTGGACATCAGCTTAGA 58.565 45.455 0.00 0.00 0.00 2.10
1706 1744 3.883830 ACAGAGTGGACATCAGCTTAG 57.116 47.619 0.00 0.00 0.00 2.18
1707 1745 4.202357 ACAAACAGAGTGGACATCAGCTTA 60.202 41.667 0.00 0.00 0.00 3.09
1708 1746 3.144506 CAAACAGAGTGGACATCAGCTT 58.855 45.455 0.00 0.00 0.00 3.74
1709 1747 2.105477 ACAAACAGAGTGGACATCAGCT 59.895 45.455 0.00 0.00 0.00 4.24
1710 1748 2.225019 CACAAACAGAGTGGACATCAGC 59.775 50.000 0.00 0.00 33.43 4.26
1738 1776 8.590204 AGAAACAAAAAGAACCTAGGACAAAAA 58.410 29.630 17.98 0.00 0.00 1.94
1739 1777 8.129496 AGAAACAAAAAGAACCTAGGACAAAA 57.871 30.769 17.98 0.00 0.00 2.44
1740 1778 7.712204 AGAAACAAAAAGAACCTAGGACAAA 57.288 32.000 17.98 0.00 0.00 2.83
1741 1779 7.177744 ACAAGAAACAAAAAGAACCTAGGACAA 59.822 33.333 17.98 0.00 0.00 3.18
1742 1780 6.661805 ACAAGAAACAAAAAGAACCTAGGACA 59.338 34.615 17.98 0.00 0.00 4.02
1743 1781 7.096884 ACAAGAAACAAAAAGAACCTAGGAC 57.903 36.000 17.98 9.20 0.00 3.85
1744 1782 7.543756 CAACAAGAAACAAAAAGAACCTAGGA 58.456 34.615 17.98 0.00 0.00 2.94
1745 1783 6.255670 GCAACAAGAAACAAAAAGAACCTAGG 59.744 38.462 7.41 7.41 0.00 3.02
1746 1784 7.009540 CAGCAACAAGAAACAAAAAGAACCTAG 59.990 37.037 0.00 0.00 0.00 3.02
1747 1785 6.811170 CAGCAACAAGAAACAAAAAGAACCTA 59.189 34.615 0.00 0.00 0.00 3.08
1748 1786 5.639082 CAGCAACAAGAAACAAAAAGAACCT 59.361 36.000 0.00 0.00 0.00 3.50
1749 1787 5.671082 GCAGCAACAAGAAACAAAAAGAACC 60.671 40.000 0.00 0.00 0.00 3.62
1750 1788 5.107143 TGCAGCAACAAGAAACAAAAAGAAC 60.107 36.000 0.00 0.00 0.00 3.01
1751 1789 4.993584 TGCAGCAACAAGAAACAAAAAGAA 59.006 33.333 0.00 0.00 0.00 2.52
1752 1790 4.564041 TGCAGCAACAAGAAACAAAAAGA 58.436 34.783 0.00 0.00 0.00 2.52
1753 1791 4.925061 TGCAGCAACAAGAAACAAAAAG 57.075 36.364 0.00 0.00 0.00 2.27
1754 1792 5.876612 AATGCAGCAACAAGAAACAAAAA 57.123 30.435 0.00 0.00 0.00 1.94
1755 1793 8.140628 TCTATAATGCAGCAACAAGAAACAAAA 58.859 29.630 0.00 0.00 0.00 2.44
1756 1794 7.656412 TCTATAATGCAGCAACAAGAAACAAA 58.344 30.769 0.00 0.00 0.00 2.83
1757 1795 7.213216 TCTATAATGCAGCAACAAGAAACAA 57.787 32.000 0.00 0.00 0.00 2.83
1758 1796 6.816134 TCTATAATGCAGCAACAAGAAACA 57.184 33.333 0.00 0.00 0.00 2.83
1759 1797 8.589629 CAAATCTATAATGCAGCAACAAGAAAC 58.410 33.333 0.00 0.00 0.00 2.78
1760 1798 8.306038 ACAAATCTATAATGCAGCAACAAGAAA 58.694 29.630 0.00 0.00 0.00 2.52
1761 1799 7.756272 CACAAATCTATAATGCAGCAACAAGAA 59.244 33.333 0.00 0.00 0.00 2.52
1762 1800 7.252708 CACAAATCTATAATGCAGCAACAAGA 58.747 34.615 0.00 0.60 0.00 3.02
1763 1801 6.474427 CCACAAATCTATAATGCAGCAACAAG 59.526 38.462 0.00 0.00 0.00 3.16
1764 1802 6.331845 CCACAAATCTATAATGCAGCAACAA 58.668 36.000 0.00 0.00 0.00 2.83
1765 1803 5.163530 CCCACAAATCTATAATGCAGCAACA 60.164 40.000 0.00 0.00 0.00 3.33
1766 1804 5.067674 TCCCACAAATCTATAATGCAGCAAC 59.932 40.000 0.00 0.00 0.00 4.17
1767 1805 5.199723 TCCCACAAATCTATAATGCAGCAA 58.800 37.500 0.00 0.00 0.00 3.91
1768 1806 4.790937 TCCCACAAATCTATAATGCAGCA 58.209 39.130 0.00 0.00 0.00 4.41
1769 1807 4.320788 GCTCCCACAAATCTATAATGCAGC 60.321 45.833 0.00 0.00 0.00 5.25
1770 1808 5.068636 AGCTCCCACAAATCTATAATGCAG 58.931 41.667 0.00 0.00 0.00 4.41
1771 1809 5.052693 AGCTCCCACAAATCTATAATGCA 57.947 39.130 0.00 0.00 0.00 3.96
1772 1810 6.936900 TCTAAGCTCCCACAAATCTATAATGC 59.063 38.462 0.00 0.00 0.00 3.56
1773 1811 8.944029 CATCTAAGCTCCCACAAATCTATAATG 58.056 37.037 0.00 0.00 0.00 1.90
1774 1812 8.664079 ACATCTAAGCTCCCACAAATCTATAAT 58.336 33.333 0.00 0.00 0.00 1.28
1775 1813 7.933577 CACATCTAAGCTCCCACAAATCTATAA 59.066 37.037 0.00 0.00 0.00 0.98
1776 1814 7.290014 TCACATCTAAGCTCCCACAAATCTATA 59.710 37.037 0.00 0.00 0.00 1.31
1777 1815 6.100279 TCACATCTAAGCTCCCACAAATCTAT 59.900 38.462 0.00 0.00 0.00 1.98
1778 1816 5.425217 TCACATCTAAGCTCCCACAAATCTA 59.575 40.000 0.00 0.00 0.00 1.98
1779 1817 4.225942 TCACATCTAAGCTCCCACAAATCT 59.774 41.667 0.00 0.00 0.00 2.40
1780 1818 4.333926 GTCACATCTAAGCTCCCACAAATC 59.666 45.833 0.00 0.00 0.00 2.17
1781 1819 4.263462 TGTCACATCTAAGCTCCCACAAAT 60.263 41.667 0.00 0.00 0.00 2.32
1782 1820 3.072330 TGTCACATCTAAGCTCCCACAAA 59.928 43.478 0.00 0.00 0.00 2.83
1783 1821 2.637382 TGTCACATCTAAGCTCCCACAA 59.363 45.455 0.00 0.00 0.00 3.33
1784 1822 2.256306 TGTCACATCTAAGCTCCCACA 58.744 47.619 0.00 0.00 0.00 4.17
1785 1823 3.462021 GATGTCACATCTAAGCTCCCAC 58.538 50.000 10.81 0.00 0.00 4.61
1786 1824 2.435805 GGATGTCACATCTAAGCTCCCA 59.564 50.000 17.46 0.00 0.00 4.37
1787 1825 2.703007 AGGATGTCACATCTAAGCTCCC 59.297 50.000 17.46 0.00 0.00 4.30
1788 1826 4.414337 AAGGATGTCACATCTAAGCTCC 57.586 45.455 17.46 0.18 0.00 4.70
1789 1827 7.849804 TTTTAAGGATGTCACATCTAAGCTC 57.150 36.000 17.46 0.00 0.00 4.09
1816 1854 7.706607 TCGGTTTGTCTAATTCACATCTAGATG 59.293 37.037 27.63 27.63 44.15 2.90
1817 1855 7.782049 TCGGTTTGTCTAATTCACATCTAGAT 58.218 34.615 0.00 0.00 0.00 1.98
1818 1856 7.165460 TCGGTTTGTCTAATTCACATCTAGA 57.835 36.000 0.00 0.00 0.00 2.43
1819 1857 7.827819 TTCGGTTTGTCTAATTCACATCTAG 57.172 36.000 0.00 0.00 0.00 2.43
1820 1858 8.258007 AGATTCGGTTTGTCTAATTCACATCTA 58.742 33.333 0.00 0.00 0.00 1.98
1821 1859 7.106239 AGATTCGGTTTGTCTAATTCACATCT 58.894 34.615 0.00 0.00 0.00 2.90
1822 1860 7.308782 AGATTCGGTTTGTCTAATTCACATC 57.691 36.000 0.00 0.00 0.00 3.06
1823 1861 7.687941 AAGATTCGGTTTGTCTAATTCACAT 57.312 32.000 0.00 0.00 0.00 3.21
1824 1862 7.504924 AAAGATTCGGTTTGTCTAATTCACA 57.495 32.000 0.00 0.00 0.00 3.58
1830 1868 8.949177 GGGTAATTAAAGATTCGGTTTGTCTAA 58.051 33.333 0.00 0.00 0.00 2.10
1831 1869 8.323567 AGGGTAATTAAAGATTCGGTTTGTCTA 58.676 33.333 0.00 0.00 0.00 2.59
1832 1870 7.173032 AGGGTAATTAAAGATTCGGTTTGTCT 58.827 34.615 0.00 0.00 0.00 3.41
1833 1871 7.387119 AGGGTAATTAAAGATTCGGTTTGTC 57.613 36.000 0.00 0.00 0.00 3.18
1834 1872 8.105197 ACTAGGGTAATTAAAGATTCGGTTTGT 58.895 33.333 0.00 0.00 0.00 2.83
1835 1873 8.502105 ACTAGGGTAATTAAAGATTCGGTTTG 57.498 34.615 0.00 0.00 0.00 2.93
1837 1875 9.774413 CATACTAGGGTAATTAAAGATTCGGTT 57.226 33.333 0.00 0.00 0.00 4.44
1838 1876 8.373220 CCATACTAGGGTAATTAAAGATTCGGT 58.627 37.037 0.00 0.00 0.00 4.69
1839 1877 8.373220 ACCATACTAGGGTAATTAAAGATTCGG 58.627 37.037 0.00 0.00 36.72 4.30
1840 1878 9.774413 AACCATACTAGGGTAATTAAAGATTCG 57.226 33.333 0.00 0.00 37.77 3.34
1844 1882 9.733907 AGGTAACCATACTAGGGTAATTAAAGA 57.266 33.333 0.00 0.00 37.77 2.52
1882 1920 7.581213 AGTCCACAACACAAGAAATTCATTA 57.419 32.000 0.00 0.00 0.00 1.90
1899 1937 7.038659 CCAAATGAACAACTTAAAAGTCCACA 58.961 34.615 0.00 0.00 38.57 4.17
1901 1939 6.155393 ACCCAAATGAACAACTTAAAAGTCCA 59.845 34.615 0.00 0.00 38.57 4.02
1904 1942 6.941857 ACACCCAAATGAACAACTTAAAAGT 58.058 32.000 0.00 0.00 42.04 2.66
1905 1943 8.410141 TCTACACCCAAATGAACAACTTAAAAG 58.590 33.333 0.00 0.00 0.00 2.27
1907 1945 7.883391 TCTACACCCAAATGAACAACTTAAA 57.117 32.000 0.00 0.00 0.00 1.52
1908 1946 7.883391 TTCTACACCCAAATGAACAACTTAA 57.117 32.000 0.00 0.00 0.00 1.85
1909 1947 8.356657 CAATTCTACACCCAAATGAACAACTTA 58.643 33.333 0.00 0.00 0.00 2.24
1910 1948 6.976934 ATTCTACACCCAAATGAACAACTT 57.023 33.333 0.00 0.00 0.00 2.66
1911 1949 6.323739 ACAATTCTACACCCAAATGAACAACT 59.676 34.615 0.00 0.00 0.00 3.16
1912 1950 6.512297 ACAATTCTACACCCAAATGAACAAC 58.488 36.000 0.00 0.00 0.00 3.32
1913 1951 6.723298 ACAATTCTACACCCAAATGAACAA 57.277 33.333 0.00 0.00 0.00 2.83
1914 1952 6.723298 AACAATTCTACACCCAAATGAACA 57.277 33.333 0.00 0.00 0.00 3.18
1976 2017 7.120579 CACATGCCTACAACAGGTATTCTAAAA 59.879 37.037 0.00 0.00 46.79 1.52
1978 2019 6.112734 CACATGCCTACAACAGGTATTCTAA 58.887 40.000 0.00 0.00 46.79 2.10
2029 2070 1.634973 TGGAAGATCCCATTGTGCAGA 59.365 47.619 0.00 0.00 35.03 4.26
2118 2159 3.643792 ACAGCTTAAGACCAGACTGAACT 59.356 43.478 6.67 0.00 0.00 3.01
2126 2167 5.335191 GGAAAACATCACAGCTTAAGACCAG 60.335 44.000 6.67 0.00 0.00 4.00
2131 2172 6.074142 GCAAAAGGAAAACATCACAGCTTAAG 60.074 38.462 0.00 0.00 0.00 1.85
2139 2180 4.441792 ACCAAGCAAAAGGAAAACATCAC 58.558 39.130 0.00 0.00 0.00 3.06
2223 2379 4.307032 AGGCATTCACAATGGAACTACT 57.693 40.909 0.00 0.00 39.31 2.57
2232 2388 6.127394 TGTGTGCATAAATAGGCATTCACAAT 60.127 34.615 16.20 0.00 45.18 2.71
2238 2394 5.920193 AACTGTGTGCATAAATAGGCATT 57.080 34.783 2.89 0.00 45.18 3.56
2272 2428 5.940603 TGTTACGAAAACAAAACATGCAG 57.059 34.783 5.78 0.00 0.00 4.41
2275 2431 7.122550 CCCAATTGTTACGAAAACAAAACATG 58.877 34.615 19.36 15.73 42.57 3.21
2289 2445 7.561021 AAAACATCCAAAACCCAATTGTTAC 57.439 32.000 4.43 0.00 0.00 2.50
2298 2454 8.500753 AAAAAGAACTAAAACATCCAAAACCC 57.499 30.769 0.00 0.00 0.00 4.11
2318 2475 6.992063 ATGACAGGTATCAGCACTAAAAAG 57.008 37.500 0.00 0.00 30.46 2.27
2351 2508 8.856103 AGTAGCAAACCACAAACATTAAACTAT 58.144 29.630 0.00 0.00 0.00 2.12


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

AutoCloner maintained by Alex Coulton.