Multiple sequence alignment - TraesCS4D01G245400

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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 TraesCS4D01G245400 chr4D 100.000 4428 0 0 1 4428 414144761 414149188 0.000000e+00 8178.0
1 TraesCS4D01G245400 chr4D 96.610 59 1 1 4046 4103 297227957 297228015 3.650000e-16 97.1
2 TraesCS4D01G245400 chr4A 96.856 1654 46 2 1966 3619 49263323 49261676 0.000000e+00 2761.0
3 TraesCS4D01G245400 chr4A 89.317 1844 99 35 1 1795 49265181 49263387 0.000000e+00 2224.0
4 TraesCS4D01G245400 chr4A 95.480 354 11 3 3665 4018 49261669 49261321 1.080000e-155 560.0
5 TraesCS4D01G245400 chr4A 91.049 324 16 2 4105 4428 49261311 49261001 4.090000e-115 425.0
6 TraesCS4D01G245400 chr4A 90.291 103 9 1 1780 1881 609073919 609073817 2.780000e-27 134.0
7 TraesCS4D01G245400 chr4A 100.000 28 0 0 4022 4049 49261326 49261299 8.000000e-03 52.8
8 TraesCS4D01G245400 chr4B 96.216 1665 50 7 1966 3623 510305237 510306895 0.000000e+00 2713.0
9 TraesCS4D01G245400 chr4B 91.794 1828 90 26 1 1795 510303105 510304905 0.000000e+00 2490.0
10 TraesCS4D01G245400 chr4B 93.396 212 10 2 3838 4049 510306893 510307100 1.200000e-80 311.0
11 TraesCS4D01G245400 chr4B 90.164 183 10 2 4145 4319 510307116 510307298 9.580000e-57 231.0
12 TraesCS4D01G245400 chr4B 93.137 102 7 0 1789 1890 636919071 636918970 2.760000e-32 150.0
13 TraesCS4D01G245400 chr4B 91.089 101 8 1 4328 4428 510307938 510308037 7.730000e-28 135.0
14 TraesCS4D01G245400 chr1B 86.686 1044 134 3 2111 3153 345409678 345408639 0.000000e+00 1153.0
15 TraesCS4D01G245400 chr1D 86.424 1046 133 7 2111 3153 267594804 267595843 0.000000e+00 1136.0
16 TraesCS4D01G245400 chr1A 86.398 1044 137 3 2111 3153 335543149 335542110 0.000000e+00 1136.0
17 TraesCS4D01G245400 chr1A 88.000 75 7 2 4036 4110 374250087 374250159 2.190000e-13 87.9
18 TraesCS4D01G245400 chr6A 89.655 116 10 2 1771 1885 173639925 173640039 3.570000e-31 147.0
19 TraesCS4D01G245400 chr6A 94.624 93 5 0 1792 1884 337716918 337716826 1.280000e-30 145.0
20 TraesCS4D01G245400 chr6A 93.750 96 6 0 1792 1887 617249198 617249293 1.280000e-30 145.0
21 TraesCS4D01G245400 chr6A 96.552 58 2 0 4046 4103 387977258 387977315 3.650000e-16 97.1
22 TraesCS4D01G245400 chr6A 96.552 58 2 0 4046 4103 545314307 545314364 3.650000e-16 97.1
23 TraesCS4D01G245400 chr3B 95.455 88 4 0 1791 1878 807575514 807575427 1.660000e-29 141.0
24 TraesCS4D01G245400 chr2B 93.617 94 5 1 1791 1884 766029915 766029823 5.970000e-29 139.0
25 TraesCS4D01G245400 chr6D 91.176 102 5 4 1780 1878 417354801 417354701 7.730000e-28 135.0
26 TraesCS4D01G245400 chr3A 91.000 100 7 2 1785 1882 443203681 443203582 2.780000e-27 134.0
27 TraesCS4D01G245400 chr3A 100.000 58 0 0 4046 4103 717915177 717915234 1.680000e-19 108.0
28 TraesCS4D01G245400 chr5B 98.276 58 1 0 4046 4103 606830238 606830181 7.840000e-18 102.0
29 TraesCS4D01G245400 chr5D 96.667 60 2 0 4046 4105 297795055 297794996 2.820000e-17 100.0
30 TraesCS4D01G245400 chr7D 98.214 56 1 0 4046 4101 402321137 402321082 1.010000e-16 99.0
31 TraesCS4D01G245400 chr7B 95.161 62 3 0 4046 4107 135032190 135032251 1.010000e-16 99.0


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 TraesCS4D01G245400 chr4D 414144761 414149188 4427 False 8178.00 8178 100.0000 1 4428 1 chr4D.!!$F2 4427
1 TraesCS4D01G245400 chr4A 49261001 49265181 4180 True 1204.56 2761 94.5404 1 4428 5 chr4A.!!$R2 4427
2 TraesCS4D01G245400 chr4B 510303105 510308037 4932 False 1176.00 2713 92.5318 1 4428 5 chr4B.!!$F1 4427
3 TraesCS4D01G245400 chr1B 345408639 345409678 1039 True 1153.00 1153 86.6860 2111 3153 1 chr1B.!!$R1 1042
4 TraesCS4D01G245400 chr1D 267594804 267595843 1039 False 1136.00 1136 86.4240 2111 3153 1 chr1D.!!$F1 1042
5 TraesCS4D01G245400 chr1A 335542110 335543149 1039 True 1136.00 1136 86.3980 2111 3153 1 chr1A.!!$R1 1042

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
384 408 0.452987 CCATTGCTTCCGTCACATGG 59.547 55.000 0.00 0.00 0.00 3.66 F
1576 1628 0.179076 GCTTTGGTTGCTTGCACCTT 60.179 50.000 12.70 0.00 35.07 3.50 F
1577 1629 1.068434 GCTTTGGTTGCTTGCACCTTA 59.932 47.619 12.70 2.67 35.07 2.69 F
2721 3018 0.036022 ACAACCTTGAGGCTCTGCTC 59.964 55.000 16.72 0.00 39.32 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1622 1674 0.032130 ACCTATGTACGAGCGGCATG 59.968 55.0 1.45 0.00 0.00 4.06 R
2721 3018 0.322906 GGAGCTCAAGGGGGAACAAG 60.323 60.0 17.19 0.00 0.00 3.16 R
3325 3622 0.900421 GGTGTCTGGTACCCTACACC 59.100 60.0 33.34 33.34 45.93 4.16 R
3762 4066 0.250553 TTTCGCCGTTCATTCACCCT 60.251 50.0 0.00 0.00 0.00 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
44 45 2.101209 GATAAATCGCCACGCCACCG 62.101 60.000 0.00 0.00 41.14 4.94
63 72 1.893062 CTCAGTCGACAGCATCCCA 59.107 57.895 19.50 0.00 0.00 4.37
188 197 2.184579 GGCGAGGTTCTCTTCCCG 59.815 66.667 0.00 0.00 0.00 5.14
205 214 4.077180 GTCCCCGTCCCCCTCTCT 62.077 72.222 0.00 0.00 0.00 3.10
303 323 1.128200 TGGATATTCCGTGGTCCTGG 58.872 55.000 0.00 0.00 40.17 4.45
384 408 0.452987 CCATTGCTTCCGTCACATGG 59.547 55.000 0.00 0.00 0.00 3.66
400 424 0.742505 ATGGATGCATGTTTCAGCGG 59.257 50.000 2.46 0.00 0.00 5.52
404 428 1.605710 GATGCATGTTTCAGCGGCTAT 59.394 47.619 2.46 0.00 0.00 2.97
421 445 2.547642 GCTATCTCCAGCGCTTCAATCT 60.548 50.000 7.50 0.00 0.00 2.40
709 734 1.833934 CCTTGTGGGCAACTGGCTT 60.834 57.895 3.06 0.00 44.01 4.35
739 764 1.022451 TAATTGCGACCCCGTCTTGC 61.022 55.000 0.00 0.00 38.24 4.01
745 770 1.671379 GACCCCGTCTTGCTTGACC 60.671 63.158 4.55 0.00 33.70 4.02
776 801 2.226437 CGCTTAGGTGTTGTGCTGAATT 59.774 45.455 0.00 0.00 0.00 2.17
782 807 7.575414 TTAGGTGTTGTGCTGAATTTTCTTA 57.425 32.000 0.00 0.00 0.00 2.10
785 810 6.039616 GGTGTTGTGCTGAATTTTCTTACAA 58.960 36.000 0.00 0.00 0.00 2.41
801 839 7.843490 TTCTTACAAAATTCTCCGATCGATT 57.157 32.000 18.66 5.23 0.00 3.34
806 844 2.847327 ATTCTCCGATCGATTGCCAT 57.153 45.000 18.66 0.00 0.00 4.40
997 1035 2.074967 CCACCTTAAGCCCTGACCA 58.925 57.895 0.00 0.00 0.00 4.02
1224 1262 2.680339 GGTGCTGCTATTGTTTCCTCTC 59.320 50.000 0.00 0.00 0.00 3.20
1266 1304 3.634910 TGGGAGCTGAAACCTGTTTTTAC 59.365 43.478 0.00 0.00 32.11 2.01
1285 1323 9.499585 GTTTTTACTACTTGTCTGTTTCCTTTC 57.500 33.333 0.00 0.00 0.00 2.62
1374 1412 3.051581 AGGAGAACATATGGAGGTGCAT 58.948 45.455 7.80 0.00 0.00 3.96
1394 1432 6.293698 TGCATAGTCAGCACAAATAGATCAT 58.706 36.000 0.00 0.00 37.02 2.45
1396 1434 7.076362 GCATAGTCAGCACAAATAGATCATTG 58.924 38.462 0.00 0.00 0.00 2.82
1456 1494 6.497624 AGAGGATGATTGTTTGCTAGAGAT 57.502 37.500 0.00 0.00 0.00 2.75
1457 1495 6.289834 AGAGGATGATTGTTTGCTAGAGATG 58.710 40.000 0.00 0.00 0.00 2.90
1461 1499 7.444792 AGGATGATTGTTTGCTAGAGATGATTC 59.555 37.037 0.00 0.00 0.00 2.52
1507 1559 6.590677 GTCCTGTCTGTAAAGTTTCTCCATAC 59.409 42.308 0.00 0.00 0.00 2.39
1516 1568 4.559862 AGTTTCTCCATACTTGTCAGGG 57.440 45.455 0.00 0.00 0.00 4.45
1517 1569 4.168101 AGTTTCTCCATACTTGTCAGGGA 58.832 43.478 0.00 0.00 0.00 4.20
1528 1580 4.330250 ACTTGTCAGGGACATTCAATCAG 58.670 43.478 0.00 0.00 42.40 2.90
1532 1584 1.747355 CAGGGACATTCAATCAGCACC 59.253 52.381 0.00 0.00 0.00 5.01
1571 1623 2.159327 AATCAGCTTTGGTTGCTTGC 57.841 45.000 0.00 0.00 38.92 4.01
1576 1628 0.179076 GCTTTGGTTGCTTGCACCTT 60.179 50.000 12.70 0.00 35.07 3.50
1577 1629 1.068434 GCTTTGGTTGCTTGCACCTTA 59.932 47.619 12.70 2.67 35.07 2.69
1578 1630 2.289010 GCTTTGGTTGCTTGCACCTTAT 60.289 45.455 12.70 0.00 35.07 1.73
1579 1631 3.056891 GCTTTGGTTGCTTGCACCTTATA 60.057 43.478 12.70 0.00 35.07 0.98
1580 1632 4.381932 GCTTTGGTTGCTTGCACCTTATAT 60.382 41.667 12.70 0.00 35.07 0.86
1581 1633 5.163561 GCTTTGGTTGCTTGCACCTTATATA 60.164 40.000 12.70 0.00 35.07 0.86
1605 1657 9.986157 ATATATGGATCATGCCTTTGAACTATT 57.014 29.630 0.00 0.00 0.00 1.73
1629 1681 4.355543 TTTTCTCTGAAATACATGCCGC 57.644 40.909 0.00 0.00 0.00 6.53
1633 1685 1.134818 TCTGAAATACATGCCGCTCGT 60.135 47.619 0.00 0.00 0.00 4.18
1644 1696 1.734137 CCGCTCGTACATAGGTGCT 59.266 57.895 0.00 0.00 0.00 4.40
1651 1703 1.404391 CGTACATAGGTGCTTCCTCGT 59.596 52.381 4.41 6.54 44.42 4.18
1685 1737 4.816392 TCGTTCAAAGTCAATGCTAGCTA 58.184 39.130 17.23 2.58 0.00 3.32
1695 1747 5.067023 AGTCAATGCTAGCTAAAATTCAGCC 59.933 40.000 17.23 0.00 39.99 4.85
1705 1757 9.455847 CTAGCTAAAATTCAGCCAAAATATGTC 57.544 33.333 8.07 0.00 39.99 3.06
1710 1762 7.760131 AAATTCAGCCAAAATATGTCGATTG 57.240 32.000 0.00 0.00 0.00 2.67
1712 1764 5.484173 TCAGCCAAAATATGTCGATTGTC 57.516 39.130 0.00 0.00 0.00 3.18
1718 1770 6.183360 GCCAAAATATGTCGATTGTCTTCAGA 60.183 38.462 0.00 0.00 0.00 3.27
1720 1772 9.045223 CCAAAATATGTCGATTGTCTTCAGATA 57.955 33.333 0.00 0.00 0.00 1.98
1723 1775 9.770097 AAATATGTCGATTGTCTTCAGATACAT 57.230 29.630 0.00 0.00 0.00 2.29
1726 1778 6.809869 TGTCGATTGTCTTCAGATACATGAT 58.190 36.000 0.00 0.00 0.00 2.45
1754 1806 6.431234 ACTGGGTTTTAGAAGTAAAGCAGATG 59.569 38.462 0.00 0.00 35.32 2.90
1766 1818 9.661187 GAAGTAAAGCAGATGATTATGTTCATG 57.339 33.333 0.00 0.00 36.48 3.07
1798 1851 7.845037 ACTATGTTAACTTACCTTGTACTCCC 58.155 38.462 7.22 0.00 0.00 4.30
1799 1852 6.947376 ATGTTAACTTACCTTGTACTCCCT 57.053 37.500 7.22 0.00 0.00 4.20
1800 1853 6.752285 TGTTAACTTACCTTGTACTCCCTT 57.248 37.500 7.22 0.00 0.00 3.95
1801 1854 6.762333 TGTTAACTTACCTTGTACTCCCTTC 58.238 40.000 7.22 0.00 0.00 3.46
1802 1855 4.532314 AACTTACCTTGTACTCCCTTCG 57.468 45.455 0.00 0.00 0.00 3.79
1803 1856 3.504375 ACTTACCTTGTACTCCCTTCGT 58.496 45.455 0.00 0.00 0.00 3.85
1804 1857 4.666512 ACTTACCTTGTACTCCCTTCGTA 58.333 43.478 0.00 0.00 0.00 3.43
1805 1858 5.079643 ACTTACCTTGTACTCCCTTCGTAA 58.920 41.667 0.00 0.00 0.00 3.18
1806 1859 5.539955 ACTTACCTTGTACTCCCTTCGTAAA 59.460 40.000 0.00 0.00 0.00 2.01
1807 1860 4.263018 ACCTTGTACTCCCTTCGTAAAC 57.737 45.455 0.00 0.00 0.00 2.01
1808 1861 3.899980 ACCTTGTACTCCCTTCGTAAACT 59.100 43.478 0.00 0.00 0.00 2.66
1809 1862 5.079643 ACCTTGTACTCCCTTCGTAAACTA 58.920 41.667 0.00 0.00 0.00 2.24
1810 1863 5.539955 ACCTTGTACTCCCTTCGTAAACTAA 59.460 40.000 0.00 0.00 0.00 2.24
1811 1864 6.212187 ACCTTGTACTCCCTTCGTAAACTAAT 59.788 38.462 0.00 0.00 0.00 1.73
1812 1865 7.397192 ACCTTGTACTCCCTTCGTAAACTAATA 59.603 37.037 0.00 0.00 0.00 0.98
1813 1866 8.419442 CCTTGTACTCCCTTCGTAAACTAATAT 58.581 37.037 0.00 0.00 0.00 1.28
1819 1872 8.358895 ACTCCCTTCGTAAACTAATATAAGAGC 58.641 37.037 0.00 0.00 0.00 4.09
1820 1873 7.365741 TCCCTTCGTAAACTAATATAAGAGCG 58.634 38.462 0.00 0.00 0.00 5.03
1821 1874 7.013655 TCCCTTCGTAAACTAATATAAGAGCGT 59.986 37.037 0.00 0.00 0.00 5.07
1822 1875 7.650903 CCCTTCGTAAACTAATATAAGAGCGTT 59.349 37.037 0.00 0.00 0.00 4.84
1823 1876 9.028185 CCTTCGTAAACTAATATAAGAGCGTTT 57.972 33.333 0.00 0.00 0.00 3.60
1824 1877 9.831054 CTTCGTAAACTAATATAAGAGCGTTTG 57.169 33.333 0.00 0.00 0.00 2.93
1825 1878 9.571810 TTCGTAAACTAATATAAGAGCGTTTGA 57.428 29.630 0.00 0.00 0.00 2.69
1826 1879 9.571810 TCGTAAACTAATATAAGAGCGTTTGAA 57.428 29.630 0.00 0.00 0.00 2.69
1830 1883 9.821662 AAACTAATATAAGAGCGTTTGAAACAC 57.178 29.630 8.93 0.00 0.00 3.32
1831 1884 8.773404 ACTAATATAAGAGCGTTTGAAACACT 57.227 30.769 8.93 3.34 0.00 3.55
1832 1885 9.865321 ACTAATATAAGAGCGTTTGAAACACTA 57.135 29.630 8.93 0.00 0.00 2.74
1834 1887 8.773404 AATATAAGAGCGTTTGAAACACTACT 57.227 30.769 8.93 0.00 0.00 2.57
1835 1888 8.773404 ATATAAGAGCGTTTGAAACACTACTT 57.227 30.769 8.93 10.95 0.00 2.24
1836 1889 5.813080 AAGAGCGTTTGAAACACTACTTT 57.187 34.783 8.93 0.00 0.00 2.66
1837 1890 6.913873 AAGAGCGTTTGAAACACTACTTTA 57.086 33.333 8.93 0.00 0.00 1.85
1838 1891 6.526566 AGAGCGTTTGAAACACTACTTTAG 57.473 37.500 8.93 0.00 0.00 1.85
1839 1892 6.047231 AGAGCGTTTGAAACACTACTTTAGT 58.953 36.000 8.93 0.00 40.28 2.24
1873 1926 9.710818 ACACTCTTATATTAGTTTACAGAGGGA 57.289 33.333 2.59 0.00 34.50 4.20
1887 1940 8.665685 GTTTACAGAGGGAGTACAAATTATGTG 58.334 37.037 0.00 0.00 43.77 3.21
1889 1942 7.490657 ACAGAGGGAGTACAAATTATGTGTA 57.509 36.000 0.00 0.00 43.77 2.90
1916 1969 2.092753 TGATTCAAGACCCAGATCCAGC 60.093 50.000 0.00 0.00 0.00 4.85
1923 1976 4.559063 CCAGATCCAGCGGCAGGG 62.559 72.222 11.78 7.96 0.00 4.45
1935 1988 1.546961 CGGCAGGGTAGAGTATAGGG 58.453 60.000 0.00 0.00 0.00 3.53
1937 1990 1.552719 GGCAGGGTAGAGTATAGGGGG 60.553 61.905 0.00 0.00 0.00 5.40
1938 1991 1.432024 GCAGGGTAGAGTATAGGGGGA 59.568 57.143 0.00 0.00 0.00 4.81
1939 1992 2.557901 GCAGGGTAGAGTATAGGGGGAG 60.558 59.091 0.00 0.00 0.00 4.30
1940 1993 2.723010 CAGGGTAGAGTATAGGGGGAGT 59.277 54.545 0.00 0.00 0.00 3.85
1941 1994 3.921486 CAGGGTAGAGTATAGGGGGAGTA 59.079 52.174 0.00 0.00 0.00 2.59
1942 1995 4.356190 CAGGGTAGAGTATAGGGGGAGTAA 59.644 50.000 0.00 0.00 0.00 2.24
1943 1996 5.016459 CAGGGTAGAGTATAGGGGGAGTAAT 59.984 48.000 0.00 0.00 0.00 1.89
1944 1997 5.016459 AGGGTAGAGTATAGGGGGAGTAATG 59.984 48.000 0.00 0.00 0.00 1.90
1945 1998 5.016031 GGGTAGAGTATAGGGGGAGTAATGA 59.984 48.000 0.00 0.00 0.00 2.57
1978 2275 6.772233 ACCATATATTTGCAGTTGCTACATCA 59.228 34.615 5.62 0.00 42.66 3.07
1991 2288 8.493547 CAGTTGCTACATCAGTATATGACATTG 58.506 37.037 0.13 0.00 41.91 2.82
2003 2300 5.698741 ATATGACATTGAACTGTCTGGGA 57.301 39.130 0.00 0.00 44.73 4.37
2637 2934 4.230314 TCTAGCGAGCATGTCTATTGAC 57.770 45.455 0.00 0.00 43.20 3.18
2652 2949 7.149307 TGTCTATTGACTTCGTGTACATCAAA 58.851 34.615 11.69 1.25 43.29 2.69
2721 3018 0.036022 ACAACCTTGAGGCTCTGCTC 59.964 55.000 16.72 0.00 39.32 4.26
3153 3450 3.823304 ACTCAAGTCAAAAGCATTCCTCC 59.177 43.478 0.00 0.00 0.00 4.30
3154 3451 4.077822 CTCAAGTCAAAAGCATTCCTCCT 58.922 43.478 0.00 0.00 0.00 3.69
3155 3452 3.822735 TCAAGTCAAAAGCATTCCTCCTG 59.177 43.478 0.00 0.00 0.00 3.86
3324 3621 0.110486 GACAGGATTGTGGTGGTGGT 59.890 55.000 0.00 0.00 37.76 4.16
3325 3622 0.178992 ACAGGATTGTGGTGGTGGTG 60.179 55.000 0.00 0.00 35.83 4.17
3326 3623 0.895100 CAGGATTGTGGTGGTGGTGG 60.895 60.000 0.00 0.00 0.00 4.61
3388 3685 5.908831 TCCCCTGTATACTGAACCATGTATT 59.091 40.000 11.06 0.00 32.42 1.89
3486 3790 4.340950 GGGTGAAGGAAATTTTGTCTGACA 59.659 41.667 6.36 6.36 0.00 3.58
3596 3900 6.824704 TGTTGGTTAGCCAGTTATATTGTACC 59.175 38.462 0.00 0.00 46.91 3.34
3621 3925 2.173143 TCCGTTTGGGTGTAAAAGGTCT 59.827 45.455 0.00 0.00 39.32 3.85
3622 3926 2.292292 CCGTTTGGGTGTAAAAGGTCTG 59.708 50.000 0.00 0.00 35.38 3.51
3623 3927 2.287368 CGTTTGGGTGTAAAAGGTCTGC 60.287 50.000 0.00 0.00 0.00 4.26
3624 3928 2.691011 GTTTGGGTGTAAAAGGTCTGCA 59.309 45.455 0.00 0.00 0.00 4.41
3625 3929 1.975660 TGGGTGTAAAAGGTCTGCAC 58.024 50.000 0.00 0.00 0.00 4.57
3626 3930 1.213182 TGGGTGTAAAAGGTCTGCACA 59.787 47.619 0.00 0.00 0.00 4.57
3627 3931 2.158534 TGGGTGTAAAAGGTCTGCACAT 60.159 45.455 0.00 0.00 0.00 3.21
3628 3932 3.073209 TGGGTGTAAAAGGTCTGCACATA 59.927 43.478 0.00 0.00 0.00 2.29
3629 3933 4.263727 TGGGTGTAAAAGGTCTGCACATAT 60.264 41.667 0.00 0.00 0.00 1.78
3630 3934 4.705023 GGGTGTAAAAGGTCTGCACATATT 59.295 41.667 0.00 0.00 0.00 1.28
3631 3935 5.883673 GGGTGTAAAAGGTCTGCACATATTA 59.116 40.000 0.00 0.00 0.00 0.98
3632 3936 6.038271 GGGTGTAAAAGGTCTGCACATATTAG 59.962 42.308 0.00 0.00 0.00 1.73
3633 3937 6.598064 GGTGTAAAAGGTCTGCACATATTAGT 59.402 38.462 0.00 0.00 0.00 2.24
3634 3938 7.120726 GGTGTAAAAGGTCTGCACATATTAGTT 59.879 37.037 0.00 0.00 0.00 2.24
3635 3939 9.158233 GTGTAAAAGGTCTGCACATATTAGTTA 57.842 33.333 0.00 0.00 0.00 2.24
3636 3940 9.899661 TGTAAAAGGTCTGCACATATTAGTTAT 57.100 29.630 0.00 0.00 0.00 1.89
3724 4028 4.094887 CAGGCTATGTGTGTCATTTGTACC 59.905 45.833 0.00 0.00 37.91 3.34
3766 4070 5.994416 ACAAGACAAATGGGATATAGGGT 57.006 39.130 0.00 0.00 0.00 4.34
3778 4082 2.519377 TATAGGGTGAATGAACGGCG 57.481 50.000 4.80 4.80 0.00 6.46
3843 4147 2.358737 CAGTGTCCGCCCTGGTTC 60.359 66.667 0.00 0.00 39.52 3.62
3913 4217 3.665745 ATTTTGCTCGAGCCAAATGTT 57.334 38.095 35.39 20.82 42.44 2.71
3914 4218 4.782019 ATTTTGCTCGAGCCAAATGTTA 57.218 36.364 35.39 18.50 42.44 2.41
3915 4219 4.782019 TTTTGCTCGAGCCAAATGTTAT 57.218 36.364 33.23 0.00 41.18 1.89
3916 4220 5.888691 TTTTGCTCGAGCCAAATGTTATA 57.111 34.783 33.23 14.30 41.18 0.98
3977 4281 5.422012 TGACCTGTCATCTCATTAACTGCTA 59.578 40.000 0.00 0.00 34.14 3.49
4020 4324 7.577046 CGGAACCTAATCAGTTTGAGAAGACTA 60.577 40.741 0.00 0.00 0.00 2.59
4049 4353 0.251787 ACTCCATCAAAAGGGTGGCC 60.252 55.000 0.00 0.00 33.01 5.36
4050 4354 1.304052 TCCATCAAAAGGGTGGCCG 60.304 57.895 0.00 0.00 33.01 6.13
4051 4355 2.573340 CATCAAAAGGGTGGCCGC 59.427 61.111 8.12 8.12 0.00 6.53
4052 4356 2.117206 ATCAAAAGGGTGGCCGCA 59.883 55.556 19.98 0.00 0.00 5.69
4053 4357 1.305213 ATCAAAAGGGTGGCCGCAT 60.305 52.632 19.98 2.50 0.00 4.73
4054 4358 1.606885 ATCAAAAGGGTGGCCGCATG 61.607 55.000 19.98 8.62 0.00 4.06
4055 4359 3.694538 AAAAGGGTGGCCGCATGC 61.695 61.111 19.98 7.91 40.16 4.06
4056 4360 4.992740 AAAGGGTGGCCGCATGCA 62.993 61.111 19.98 0.00 43.89 3.96
4057 4361 4.764771 AAGGGTGGCCGCATGCAT 62.765 61.111 19.98 0.00 43.89 3.96
4061 4365 4.241999 GTGGCCGCATGCATCGTC 62.242 66.667 19.57 6.28 43.89 4.20
4064 4368 3.945434 GCCGCATGCATCGTCCAG 61.945 66.667 19.57 0.00 40.77 3.86
4065 4369 2.202919 CCGCATGCATCGTCCAGA 60.203 61.111 19.57 0.00 0.00 3.86
4066 4370 1.596203 CCGCATGCATCGTCCAGAT 60.596 57.895 19.57 0.00 41.01 2.90
4074 4378 1.445095 ATCGTCCAGATGCAGAGGC 59.555 57.895 0.00 0.00 38.36 4.70
4075 4379 2.037620 ATCGTCCAGATGCAGAGGCC 62.038 60.000 0.00 0.00 38.36 5.19
4076 4380 2.202987 GTCCAGATGCAGAGGCCG 60.203 66.667 0.00 0.00 40.13 6.13
4077 4381 3.473647 TCCAGATGCAGAGGCCGG 61.474 66.667 0.00 0.00 40.13 6.13
4078 4382 4.559063 CCAGATGCAGAGGCCGGG 62.559 72.222 2.18 0.00 40.13 5.73
4079 4383 4.559063 CAGATGCAGAGGCCGGGG 62.559 72.222 2.18 0.00 40.13 5.73
4084 4388 3.723922 GCAGAGGCCGGGGGTTTA 61.724 66.667 2.18 0.00 0.00 2.01
4085 4389 3.056754 GCAGAGGCCGGGGGTTTAT 62.057 63.158 2.18 0.00 0.00 1.40
4086 4390 1.148498 CAGAGGCCGGGGGTTTATC 59.852 63.158 2.18 0.00 0.00 1.75
4087 4391 2.076803 AGAGGCCGGGGGTTTATCC 61.077 63.158 2.18 0.00 0.00 2.59
4088 4392 2.043941 AGGCCGGGGGTTTATCCT 59.956 61.111 2.18 0.00 36.25 3.24
4089 4393 2.053259 GAGGCCGGGGGTTTATCCTC 62.053 65.000 2.18 3.91 36.25 3.71
4097 4401 3.750501 GGGGTTTATCCTCCTTTTCCA 57.249 47.619 0.00 0.00 36.25 3.53
4098 4402 4.055710 GGGGTTTATCCTCCTTTTCCAA 57.944 45.455 0.00 0.00 36.25 3.53
4099 4403 4.422057 GGGGTTTATCCTCCTTTTCCAAA 58.578 43.478 0.00 0.00 36.25 3.28
4100 4404 4.841813 GGGGTTTATCCTCCTTTTCCAAAA 59.158 41.667 0.00 0.00 36.25 2.44
4101 4405 5.308497 GGGGTTTATCCTCCTTTTCCAAAAA 59.692 40.000 0.00 0.00 36.25 1.94
4131 4435 2.545322 GGGTGATAGATCGTTTCCGGTC 60.545 54.545 0.00 0.00 44.69 4.79
4278 4590 3.003378 AGACAAAAGTCTAAACCGCTTGC 59.997 43.478 0.00 0.00 30.91 4.01
4340 5295 3.442977 CGAAGTACTGTAGCACTTAGGGT 59.557 47.826 0.00 0.00 35.17 4.34
4411 5366 4.022849 GCTCTAAACCATGTTCTGCAGTTT 60.023 41.667 14.67 8.33 32.53 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
44 45 1.520342 GGGATGCTGTCGACTGAGC 60.520 63.158 24.65 21.33 35.65 4.26
132 141 2.869801 GTTTGTGGTCGAAGTCACATGA 59.130 45.455 15.17 7.43 40.60 3.07
188 197 2.021318 ATAGAGAGGGGGACGGGGAC 62.021 65.000 0.00 0.00 0.00 4.46
202 211 6.806249 GCCAAGATCGAGTTTGAGATATAGAG 59.194 42.308 11.93 0.00 0.00 2.43
203 212 6.491745 AGCCAAGATCGAGTTTGAGATATAGA 59.508 38.462 11.93 0.00 0.00 1.98
204 213 6.585702 CAGCCAAGATCGAGTTTGAGATATAG 59.414 42.308 11.93 0.00 0.00 1.31
205 214 6.450545 CAGCCAAGATCGAGTTTGAGATATA 58.549 40.000 11.93 0.00 0.00 0.86
315 335 1.553704 AGATCGTTAGGTGGGTGGAAC 59.446 52.381 0.00 0.00 0.00 3.62
316 336 1.829222 GAGATCGTTAGGTGGGTGGAA 59.171 52.381 0.00 0.00 0.00 3.53
318 338 0.464452 GGAGATCGTTAGGTGGGTGG 59.536 60.000 0.00 0.00 0.00 4.61
319 339 1.137086 CTGGAGATCGTTAGGTGGGTG 59.863 57.143 0.00 0.00 0.00 4.61
320 340 1.273098 ACTGGAGATCGTTAGGTGGGT 60.273 52.381 0.00 0.00 0.00 4.51
321 341 1.486211 ACTGGAGATCGTTAGGTGGG 58.514 55.000 0.00 0.00 0.00 4.61
384 408 1.016627 TAGCCGCTGAAACATGCATC 58.983 50.000 2.16 0.00 0.00 3.91
400 424 1.797635 GATTGAAGCGCTGGAGATAGC 59.202 52.381 12.58 0.00 40.29 2.97
404 428 3.610040 TTAAGATTGAAGCGCTGGAGA 57.390 42.857 12.58 0.00 0.00 3.71
475 499 1.227205 GCACTCGCTAGCTGCTGAT 60.227 57.895 17.60 0.00 40.11 2.90
638 663 2.713708 AGGAAGACAGGGAAGCTTCTTT 59.286 45.455 25.05 11.43 38.41 2.52
721 746 2.332654 GCAAGACGGGGTCGCAATT 61.333 57.895 0.00 0.00 40.63 2.32
731 756 2.328099 GCCAGGTCAAGCAAGACGG 61.328 63.158 2.97 1.50 39.42 4.79
739 764 2.919494 GCGGTTTGGCCAGGTCAAG 61.919 63.158 6.58 0.00 36.97 3.02
745 770 1.303317 ACCTAAGCGGTTTGGCCAG 60.303 57.895 24.50 7.36 46.37 4.85
776 801 7.843490 ATCGATCGGAGAATTTTGTAAGAAA 57.157 32.000 16.41 0.00 43.58 2.52
782 807 3.065371 GGCAATCGATCGGAGAATTTTGT 59.935 43.478 16.41 0.00 43.58 2.83
785 810 2.917933 TGGCAATCGATCGGAGAATTT 58.082 42.857 16.41 0.00 43.58 1.82
806 844 1.600356 TCACAAGCGCATCAGCCAA 60.600 52.632 11.47 0.00 37.52 4.52
997 1035 6.827586 TGTATCCTTTTAAACAAAGCCGAT 57.172 33.333 0.00 0.00 0.00 4.18
1224 1262 3.321968 CCAAGAAAAGGGTCAAAGGAAGG 59.678 47.826 0.00 0.00 0.00 3.46
1266 1304 5.823045 ACCAAGAAAGGAAACAGACAAGTAG 59.177 40.000 0.00 0.00 0.00 2.57
1285 1323 1.524008 GGTCAAGGCCCGAAACCAAG 61.524 60.000 0.00 0.00 0.00 3.61
1374 1412 7.559486 AGACAATGATCTATTTGTGCTGACTA 58.441 34.615 12.07 0.00 0.00 2.59
1456 1494 1.207089 CCCGTGCACTTCCTAGAATCA 59.793 52.381 16.19 0.00 0.00 2.57
1457 1495 1.207329 ACCCGTGCACTTCCTAGAATC 59.793 52.381 16.19 0.00 0.00 2.52
1461 1499 1.183549 AGTACCCGTGCACTTCCTAG 58.816 55.000 16.19 0.00 0.00 3.02
1507 1559 3.128242 GCTGATTGAATGTCCCTGACAAG 59.872 47.826 0.46 0.00 45.96 3.16
1546 1598 3.062042 GCAACCAAAGCTGATTTTCCAG 58.938 45.455 0.00 0.00 37.23 3.86
1547 1599 2.699846 AGCAACCAAAGCTGATTTTCCA 59.300 40.909 0.00 0.00 41.61 3.53
1548 1600 3.391506 AGCAACCAAAGCTGATTTTCC 57.608 42.857 0.00 0.00 41.61 3.13
1571 1623 9.857656 AAAGGCATGATCCATATATATAAGGTG 57.142 33.333 12.58 6.09 0.00 4.00
1579 1631 9.986157 AATAGTTCAAAGGCATGATCCATATAT 57.014 29.630 0.00 0.00 0.00 0.86
1580 1632 9.812347 AAATAGTTCAAAGGCATGATCCATATA 57.188 29.630 0.00 0.00 0.00 0.86
1581 1633 8.716674 AAATAGTTCAAAGGCATGATCCATAT 57.283 30.769 0.00 0.00 0.00 1.78
1622 1674 0.032130 ACCTATGTACGAGCGGCATG 59.968 55.000 1.45 0.00 0.00 4.06
1626 1678 0.102481 AAGCACCTATGTACGAGCGG 59.898 55.000 0.00 0.00 0.00 5.52
1644 1696 4.515361 ACGAAGAATCTCTCTACGAGGAA 58.485 43.478 0.00 0.00 40.30 3.36
1651 1703 7.215719 TGACTTTGAACGAAGAATCTCTCTA 57.784 36.000 8.56 0.00 32.46 2.43
1685 1737 7.818930 ACAATCGACATATTTTGGCTGAATTTT 59.181 29.630 0.00 0.00 0.00 1.82
1695 1747 9.855361 GTATCTGAAGACAATCGACATATTTTG 57.145 33.333 0.00 0.00 0.00 2.44
1705 1757 9.254133 AGTAAATCATGTATCTGAAGACAATCG 57.746 33.333 0.00 0.00 28.87 3.34
1710 1762 7.275920 ACCCAGTAAATCATGTATCTGAAGAC 58.724 38.462 0.00 0.00 0.00 3.01
1712 1764 8.511604 AAACCCAGTAAATCATGTATCTGAAG 57.488 34.615 0.00 0.00 0.00 3.02
1718 1770 9.975218 ACTTCTAAAACCCAGTAAATCATGTAT 57.025 29.630 0.00 0.00 0.00 2.29
1720 1772 9.802039 TTACTTCTAAAACCCAGTAAATCATGT 57.198 29.630 0.00 0.00 30.48 3.21
1723 1775 8.789762 GCTTTACTTCTAAAACCCAGTAAATCA 58.210 33.333 4.31 0.00 39.70 2.57
1726 1778 7.994334 TCTGCTTTACTTCTAAAACCCAGTAAA 59.006 33.333 0.00 0.00 38.70 2.01
1795 1848 7.013655 ACGCTCTTATATTAGTTTACGAAGGGA 59.986 37.037 0.00 0.00 0.00 4.20
1796 1849 7.144000 ACGCTCTTATATTAGTTTACGAAGGG 58.856 38.462 0.00 0.00 0.00 3.95
1797 1850 8.571461 AACGCTCTTATATTAGTTTACGAAGG 57.429 34.615 0.00 0.00 0.00 3.46
1798 1851 9.831054 CAAACGCTCTTATATTAGTTTACGAAG 57.169 33.333 0.00 0.00 31.63 3.79
1799 1852 9.571810 TCAAACGCTCTTATATTAGTTTACGAA 57.428 29.630 0.00 0.00 31.63 3.85
1800 1853 9.571810 TTCAAACGCTCTTATATTAGTTTACGA 57.428 29.630 0.00 0.00 31.63 3.43
1804 1857 9.821662 GTGTTTCAAACGCTCTTATATTAGTTT 57.178 29.630 6.57 0.00 38.81 2.66
1847 1900 9.710818 TCCCTCTGTAAACTAATATAAGAGTGT 57.289 33.333 0.00 0.00 0.00 3.55
1849 1902 9.939424 ACTCCCTCTGTAAACTAATATAAGAGT 57.061 33.333 0.00 0.00 0.00 3.24
1860 1913 8.603304 ACATAATTTGTACTCCCTCTGTAAACT 58.397 33.333 0.00 0.00 36.57 2.66
1861 1914 8.665685 CACATAATTTGTACTCCCTCTGTAAAC 58.334 37.037 0.00 0.00 36.57 2.01
1862 1915 8.380099 ACACATAATTTGTACTCCCTCTGTAAA 58.620 33.333 0.00 0.00 36.57 2.01
1863 1916 7.913789 ACACATAATTTGTACTCCCTCTGTAA 58.086 34.615 0.00 0.00 36.57 2.41
1864 1917 7.490657 ACACATAATTTGTACTCCCTCTGTA 57.509 36.000 0.00 0.00 36.57 2.74
1865 1918 6.374417 ACACATAATTTGTACTCCCTCTGT 57.626 37.500 0.00 0.00 36.57 3.41
1866 1919 7.782049 TCTACACATAATTTGTACTCCCTCTG 58.218 38.462 0.00 0.00 36.57 3.35
1867 1920 7.973048 TCTACACATAATTTGTACTCCCTCT 57.027 36.000 0.00 0.00 36.57 3.69
1868 1921 9.262358 GATTCTACACATAATTTGTACTCCCTC 57.738 37.037 0.00 0.00 36.57 4.30
1869 1922 8.993424 AGATTCTACACATAATTTGTACTCCCT 58.007 33.333 0.00 0.00 36.57 4.20
1870 1923 9.046296 CAGATTCTACACATAATTTGTACTCCC 57.954 37.037 0.00 0.00 36.57 4.30
1871 1924 9.817809 TCAGATTCTACACATAATTTGTACTCC 57.182 33.333 0.00 0.00 36.57 3.85
1887 1940 6.227298 TCTGGGTCTTGAATCAGATTCTAC 57.773 41.667 21.44 16.18 39.96 2.59
1889 1942 5.163216 GGATCTGGGTCTTGAATCAGATTCT 60.163 44.000 21.44 0.02 44.18 2.40
1916 1969 1.546961 CCCTATACTCTACCCTGCCG 58.453 60.000 0.00 0.00 0.00 5.69
1923 1976 6.664384 CCTTCATTACTCCCCCTATACTCTAC 59.336 46.154 0.00 0.00 0.00 2.59
1935 1988 4.563140 TGGTTACACCTTCATTACTCCC 57.437 45.455 0.00 0.00 39.58 4.30
1939 1992 9.893305 GCAAATATATGGTTACACCTTCATTAC 57.107 33.333 0.00 0.00 39.58 1.89
1940 1993 9.634021 TGCAAATATATGGTTACACCTTCATTA 57.366 29.630 0.00 0.00 39.58 1.90
1941 1994 8.532186 TGCAAATATATGGTTACACCTTCATT 57.468 30.769 0.00 0.00 39.58 2.57
1942 1995 7.779798 ACTGCAAATATATGGTTACACCTTCAT 59.220 33.333 0.00 0.00 39.58 2.57
1943 1996 7.116075 ACTGCAAATATATGGTTACACCTTCA 58.884 34.615 0.00 0.00 39.58 3.02
1944 1997 7.568199 ACTGCAAATATATGGTTACACCTTC 57.432 36.000 0.00 0.00 39.58 3.46
1945 1998 7.630513 GCAACTGCAAATATATGGTTACACCTT 60.631 37.037 0.00 0.00 39.07 3.50
1960 2226 7.716560 TCATATACTGATGTAGCAACTGCAAAT 59.283 33.333 4.22 0.00 45.16 2.32
1962 2228 6.479990 GTCATATACTGATGTAGCAACTGCAA 59.520 38.462 4.22 0.00 38.86 4.08
1970 2267 8.706936 CAGTTCAATGTCATATACTGATGTAGC 58.293 37.037 12.95 0.00 36.07 3.58
1991 2288 1.971357 TGGAGAAGTCCCAGACAGTTC 59.029 52.381 0.00 0.00 43.15 3.01
2652 2949 0.456142 CGATGGTCATGACGACGTGT 60.456 55.000 19.33 0.34 46.42 4.49
2721 3018 0.322906 GGAGCTCAAGGGGGAACAAG 60.323 60.000 17.19 0.00 0.00 3.16
3109 3406 2.825836 CTCATGCCCGGGCTGAAC 60.826 66.667 43.34 17.81 42.51 3.18
3153 3450 6.890293 AGGGAAGGTAAAGTAAGCTTATCAG 58.110 40.000 9.88 0.00 37.32 2.90
3154 3451 6.406624 CGAGGGAAGGTAAAGTAAGCTTATCA 60.407 42.308 9.88 0.00 37.32 2.15
3155 3452 5.984323 CGAGGGAAGGTAAAGTAAGCTTATC 59.016 44.000 9.88 3.85 37.32 1.75
3324 3621 1.636148 GTGTCTGGTACCCTACACCA 58.364 55.000 25.72 3.65 43.82 4.17
3325 3622 0.900421 GGTGTCTGGTACCCTACACC 59.100 60.000 33.34 33.34 45.93 4.16
3326 3623 1.823610 GAGGTGTCTGGTACCCTACAC 59.176 57.143 27.11 27.11 39.05 2.90
3399 3696 9.479549 AAGTACATCCATTGTATTTCTGGAATT 57.520 29.630 0.00 0.00 42.63 2.17
3486 3790 7.288621 TCATGAACCATGACTAGTACTGATGAT 59.711 37.037 5.39 0.00 44.60 2.45
3579 3883 4.593634 GGAGGAGGTACAATATAACTGGCT 59.406 45.833 0.00 0.00 0.00 4.75
3596 3900 2.554370 TTTACACCCAAACGGAGGAG 57.446 50.000 0.00 0.00 34.64 3.69
3761 4065 0.609151 TTCGCCGTTCATTCACCCTA 59.391 50.000 0.00 0.00 0.00 3.53
3762 4066 0.250553 TTTCGCCGTTCATTCACCCT 60.251 50.000 0.00 0.00 0.00 4.34
3778 4082 5.859205 ATGTCAAAATCCTATGGGCTTTC 57.141 39.130 0.00 0.00 30.66 2.62
3843 4147 1.645034 CGACAGGTTGCCATCTACAG 58.355 55.000 0.00 0.00 0.00 2.74
3913 4217 8.047911 GGCAGTCCTCTATCTATGTACTGTATA 58.952 40.741 0.00 0.00 36.20 1.47
3914 4218 6.887545 GGCAGTCCTCTATCTATGTACTGTAT 59.112 42.308 0.00 0.00 36.20 2.29
3915 4219 6.183361 TGGCAGTCCTCTATCTATGTACTGTA 60.183 42.308 0.00 0.00 36.20 2.74
3916 4220 5.074115 GGCAGTCCTCTATCTATGTACTGT 58.926 45.833 0.00 0.00 36.20 3.55
3977 4281 1.837439 TCCGACATGTTAAGCAGGGAT 59.163 47.619 0.00 0.00 32.37 3.85
4020 4324 5.312079 CCTTTTGATGGAGTGACTCTTCTT 58.688 41.667 12.92 0.00 0.00 2.52
4049 4353 1.568025 CATCTGGACGATGCATGCG 59.432 57.895 14.09 10.48 42.75 4.73
4056 4360 1.445095 GCCTCTGCATCTGGACGAT 59.555 57.895 0.00 0.00 37.47 3.73
4057 4361 2.725312 GGCCTCTGCATCTGGACGA 61.725 63.158 0.00 0.00 40.13 4.20
4058 4362 2.202987 GGCCTCTGCATCTGGACG 60.203 66.667 0.00 0.00 40.13 4.79
4059 4363 2.202987 CGGCCTCTGCATCTGGAC 60.203 66.667 0.00 0.35 40.13 4.02
4060 4364 3.473647 CCGGCCTCTGCATCTGGA 61.474 66.667 0.00 0.00 40.13 3.86
4061 4365 4.559063 CCCGGCCTCTGCATCTGG 62.559 72.222 0.00 0.00 40.13 3.86
4062 4366 4.559063 CCCCGGCCTCTGCATCTG 62.559 72.222 0.00 0.00 40.13 2.90
4067 4371 2.960359 GATAAACCCCCGGCCTCTGC 62.960 65.000 0.00 0.00 0.00 4.26
4068 4372 1.148498 GATAAACCCCCGGCCTCTG 59.852 63.158 0.00 0.00 0.00 3.35
4069 4373 2.076803 GGATAAACCCCCGGCCTCT 61.077 63.158 0.00 0.00 0.00 3.69
4070 4374 2.053259 GAGGATAAACCCCCGGCCTC 62.053 65.000 0.00 0.00 40.05 4.70
4071 4375 2.043941 AGGATAAACCCCCGGCCT 59.956 61.111 0.00 0.00 40.05 5.19
4072 4376 2.514395 GAGGATAAACCCCCGGCC 59.486 66.667 0.00 0.00 40.05 6.13
4073 4377 1.642513 AAGGAGGATAAACCCCCGGC 61.643 60.000 0.00 0.00 40.05 6.13
4074 4378 0.924090 AAAGGAGGATAAACCCCCGG 59.076 55.000 0.00 0.00 40.05 5.73
4075 4379 2.651455 GAAAAGGAGGATAAACCCCCG 58.349 52.381 0.00 0.00 40.05 5.73
4076 4380 2.313643 TGGAAAAGGAGGATAAACCCCC 59.686 50.000 0.00 0.00 40.05 5.40
4077 4381 3.750501 TGGAAAAGGAGGATAAACCCC 57.249 47.619 0.00 0.00 40.05 4.95
4078 4382 6.428083 TTTTTGGAAAAGGAGGATAAACCC 57.572 37.500 0.00 0.00 40.05 4.11
4098 4402 8.122472 ACGATCTATCACCCTTTTGAATTTTT 57.878 30.769 0.00 0.00 0.00 1.94
4099 4403 7.703058 ACGATCTATCACCCTTTTGAATTTT 57.297 32.000 0.00 0.00 0.00 1.82
4100 4404 7.703058 AACGATCTATCACCCTTTTGAATTT 57.297 32.000 0.00 0.00 0.00 1.82
4101 4405 7.148069 GGAAACGATCTATCACCCTTTTGAATT 60.148 37.037 0.00 0.00 0.00 2.17
4102 4406 6.318900 GGAAACGATCTATCACCCTTTTGAAT 59.681 38.462 0.00 0.00 0.00 2.57
4103 4407 5.646360 GGAAACGATCTATCACCCTTTTGAA 59.354 40.000 0.00 0.00 0.00 2.69
4104 4408 5.183228 GGAAACGATCTATCACCCTTTTGA 58.817 41.667 0.00 0.00 0.00 2.69
4105 4409 5.485662 GGAAACGATCTATCACCCTTTTG 57.514 43.478 0.00 0.00 0.00 2.44
4131 4435 1.364721 TGTCCACTGTGTTGTCAACG 58.635 50.000 11.03 0.00 0.00 4.10
4297 4609 6.890663 TCGTACTCCGTATTTAATTTGTGG 57.109 37.500 0.00 0.00 37.94 4.17
4318 5273 3.442977 ACCCTAAGTGCTACAGTACTTCG 59.557 47.826 14.80 9.66 45.60 3.79
4319 5274 6.096564 ACATACCCTAAGTGCTACAGTACTTC 59.903 42.308 14.80 0.00 45.60 3.01
4321 5276 5.516984 ACATACCCTAAGTGCTACAGTACT 58.483 41.667 0.00 0.00 42.80 2.73
4322 5277 5.848833 ACATACCCTAAGTGCTACAGTAC 57.151 43.478 0.00 0.00 0.00 2.73
4323 5278 6.351541 CCAAACATACCCTAAGTGCTACAGTA 60.352 42.308 0.00 0.00 0.00 2.74
4324 5279 5.488341 CAAACATACCCTAAGTGCTACAGT 58.512 41.667 0.00 0.00 0.00 3.55
4325 5280 4.876107 CCAAACATACCCTAAGTGCTACAG 59.124 45.833 0.00 0.00 0.00 2.74
4326 5281 4.287585 ACCAAACATACCCTAAGTGCTACA 59.712 41.667 0.00 0.00 0.00 2.74
4327 5282 4.840271 ACCAAACATACCCTAAGTGCTAC 58.160 43.478 0.00 0.00 0.00 3.58
4328 5283 5.508280 AACCAAACATACCCTAAGTGCTA 57.492 39.130 0.00 0.00 0.00 3.49
4329 5284 4.382386 AACCAAACATACCCTAAGTGCT 57.618 40.909 0.00 0.00 0.00 4.40
4366 5321 1.105167 GCATTAGCTCAGCCATGCCA 61.105 55.000 17.43 0.00 38.82 4.92


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

AutoCloner maintained by Alex Coulton.