Multiple sequence alignment - TraesCS3A01G120100

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 TraesCS3A01G120100 chr3A 100.000 3773 0 0 1 3773 93897119 93893347 0.000000e+00 6968.0
1 TraesCS3A01G120100 chr3A 94.681 94 4 1 1733 1825 426027499 426027592 1.090000e-30 145.0
2 TraesCS3A01G120100 chr3D 96.198 1736 51 7 1 1735 79632817 79631096 0.000000e+00 2826.0
3 TraesCS3A01G120100 chr3D 93.319 1392 63 20 1826 3206 79631095 79629723 0.000000e+00 2028.0
4 TraesCS3A01G120100 chr3D 82.888 374 29 13 3289 3632 79629651 79629283 1.700000e-78 303.0
5 TraesCS3A01G120100 chr3D 92.405 79 6 0 3653 3731 79629086 79629008 3.080000e-21 113.0
6 TraesCS3A01G120100 chr3B 95.582 1743 67 5 1 1735 126003381 126001641 0.000000e+00 2784.0
7 TraesCS3A01G120100 chr3B 95.960 990 36 3 1827 2816 126001643 126000658 0.000000e+00 1604.0
8 TraesCS3A01G120100 chr3B 93.913 345 19 2 2865 3208 126000653 126000310 1.550000e-143 520.0
9 TraesCS3A01G120100 chr3B 82.159 454 44 13 3208 3632 126000266 125999821 4.640000e-94 355.0
10 TraesCS3A01G120100 chr3B 74.432 176 35 10 3233 3404 4461131 4460962 2.430000e-07 67.6
11 TraesCS3A01G120100 chr4D 84.348 230 28 6 3241 3468 27151429 27151206 6.350000e-53 219.0
12 TraesCS3A01G120100 chr4D 90.654 107 7 2 1733 1839 110076182 110076285 5.080000e-29 139.0
13 TraesCS3A01G120100 chr2A 80.417 240 36 8 3233 3468 97309608 97309376 5.010000e-39 172.0
14 TraesCS3A01G120100 chr1D 73.849 478 98 20 1960 2426 116548643 116549104 8.380000e-37 165.0
15 TraesCS3A01G120100 chr1A 73.849 478 98 21 1960 2426 127759795 127760256 8.380000e-37 165.0
16 TraesCS3A01G120100 chr2D 94.898 98 4 1 1732 1828 571042787 571042884 6.530000e-33 152.0
17 TraesCS3A01G120100 chr2D 93.814 97 6 0 1732 1828 636776254 636776350 3.040000e-31 147.0
18 TraesCS3A01G120100 chr5A 94.000 100 5 1 1733 1831 258060790 258060691 2.350000e-32 150.0
19 TraesCS3A01G120100 chrUn 93.939 99 5 1 1731 1828 477580551 477580649 8.440000e-32 148.0
20 TraesCS3A01G120100 chrUn 89.815 108 10 1 1732 1838 98281205 98281098 1.830000e-28 137.0
21 TraesCS3A01G120100 chrUn 94.340 53 2 1 3013 3064 408298328 408298276 3.120000e-11 80.5
22 TraesCS3A01G120100 chr5B 91.743 109 5 3 1724 1828 295217252 295217360 8.440000e-32 148.0
23 TraesCS3A01G120100 chr5B 91.589 107 6 3 1724 1828 121676283 121676388 1.090000e-30 145.0
24 TraesCS3A01G120100 chr6A 88.889 108 10 2 1952 2058 579146956 579146850 8.500000e-27 132.0
25 TraesCS3A01G120100 chr6D 87.850 107 13 0 1952 2058 433286375 433286269 3.960000e-25 126.0
26 TraesCS3A01G120100 chr6D 86.486 111 15 0 1952 2062 433164237 433164127 5.120000e-24 122.0
27 TraesCS3A01G120100 chr6B 86.916 107 14 0 1952 2058 653883209 653883103 1.840000e-23 121.0
28 TraesCS3A01G120100 chr4B 88.889 72 6 2 3013 3084 366471199 366471268 1.870000e-13 87.9
29 TraesCS3A01G120100 chr7D 100.000 33 0 0 3130 3162 134847200 134847168 1.130000e-05 62.1


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 TraesCS3A01G120100 chr3A 93893347 93897119 3772 True 6968.00 6968 100.0000 1 3773 1 chr3A.!!$R1 3772
1 TraesCS3A01G120100 chr3D 79629008 79632817 3809 True 1317.50 2826 91.2025 1 3731 4 chr3D.!!$R1 3730
2 TraesCS3A01G120100 chr3B 125999821 126003381 3560 True 1315.75 2784 91.9035 1 3632 4 chr3B.!!$R2 3631

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
239 247 0.413037 ATTTGGGGGAATGGTGAGCA 59.587 50.0 0.00 0.00 0.00 4.26 F
1650 1661 0.249868 TTCGACTGAACCACCTGCAG 60.250 55.0 6.78 6.78 35.81 4.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1811 1822 0.042131 ATGTACTCCCTCCGTCCCAA 59.958 55.0 0.0 0.0 0.00 4.12 R
3634 3730 0.179081 CTACGTTGCCCTAGCCCTTC 60.179 60.0 0.0 0.0 38.69 3.46 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
47 48 0.535102 CGTTCAGGGTTTGCTGGTCT 60.535 55.000 0.00 0.00 0.00 3.85
66 68 4.479619 GTCTGATTGAATTGTTGTGAGCC 58.520 43.478 0.00 0.00 0.00 4.70
73 75 2.592102 ATTGTTGTGAGCCACTGGAT 57.408 45.000 0.00 0.00 35.11 3.41
114 116 5.681337 TTATGCGGAATATTGAATTCGCA 57.319 34.783 15.42 15.42 39.63 5.10
239 247 0.413037 ATTTGGGGGAATGGTGAGCA 59.587 50.000 0.00 0.00 0.00 4.26
453 462 1.126488 TTGCATGCCACTGGGAAAAA 58.874 45.000 16.68 0.00 35.59 1.94
852 863 1.611519 GGGGAAACACATCGGTTCAA 58.388 50.000 0.00 0.00 0.00 2.69
973 984 2.349817 CCTGTTGAATCGCAGTGTGAAC 60.350 50.000 11.02 8.66 0.00 3.18
979 990 1.560004 ATCGCAGTGTGAACGTGCAG 61.560 55.000 11.02 0.00 37.01 4.41
1118 1129 3.855255 TCACTTGGATGAGTTGAACCA 57.145 42.857 0.00 0.00 0.00 3.67
1240 1251 3.055530 AGTCAATCGTCAGCAGAATCCTT 60.056 43.478 0.00 0.00 0.00 3.36
1304 1315 5.292765 TGTTAGTCAGATTATAGCAGCTGC 58.707 41.667 31.53 31.53 42.49 5.25
1380 1391 6.331837 AGTGGGTTGTTGGCTATATAATAGGT 59.668 38.462 0.00 0.00 0.00 3.08
1539 1550 4.036498 GCTCATGCATCAGAAGCTGTAAAT 59.964 41.667 0.00 0.00 39.41 1.40
1551 1562 8.721478 TCAGAAGCTGTAAATGAAGATAACAAC 58.279 33.333 0.00 0.00 32.61 3.32
1647 1658 1.613925 TCTCTTCGACTGAACCACCTG 59.386 52.381 0.00 0.00 0.00 4.00
1650 1661 0.249868 TTCGACTGAACCACCTGCAG 60.250 55.000 6.78 6.78 35.81 4.41
1651 1662 1.112916 TCGACTGAACCACCTGCAGA 61.113 55.000 17.39 0.00 33.94 4.26
1728 1739 5.184892 ACATTAGGTCTTTCAGGATTGCT 57.815 39.130 0.00 0.00 0.00 3.91
1735 1746 5.045286 AGGTCTTTCAGGATTGCTCAATACT 60.045 40.000 1.57 1.57 42.53 2.12
1736 1747 5.295540 GGTCTTTCAGGATTGCTCAATACTC 59.704 44.000 4.42 0.00 39.89 2.59
1737 1748 5.295540 GTCTTTCAGGATTGCTCAATACTCC 59.704 44.000 4.42 0.00 39.89 3.85
1738 1749 3.845781 TCAGGATTGCTCAATACTCCC 57.154 47.619 4.42 0.00 39.89 4.30
1739 1750 3.387962 TCAGGATTGCTCAATACTCCCT 58.612 45.455 4.42 0.40 39.89 4.20
1740 1751 3.389329 TCAGGATTGCTCAATACTCCCTC 59.611 47.826 4.42 0.00 39.89 4.30
1741 1752 2.708325 AGGATTGCTCAATACTCCCTCC 59.292 50.000 1.57 0.00 37.41 4.30
1742 1753 2.439507 GGATTGCTCAATACTCCCTCCA 59.560 50.000 0.00 0.00 0.00 3.86
1743 1754 3.073650 GGATTGCTCAATACTCCCTCCAT 59.926 47.826 0.00 0.00 0.00 3.41
1744 1755 4.446889 GGATTGCTCAATACTCCCTCCATT 60.447 45.833 0.00 0.00 0.00 3.16
1745 1756 3.845781 TGCTCAATACTCCCTCCATTC 57.154 47.619 0.00 0.00 0.00 2.67
1746 1757 2.439507 TGCTCAATACTCCCTCCATTCC 59.560 50.000 0.00 0.00 0.00 3.01
1747 1758 2.439507 GCTCAATACTCCCTCCATTCCA 59.560 50.000 0.00 0.00 0.00 3.53
1748 1759 3.117888 GCTCAATACTCCCTCCATTCCAA 60.118 47.826 0.00 0.00 0.00 3.53
1749 1760 4.628715 GCTCAATACTCCCTCCATTCCAAA 60.629 45.833 0.00 0.00 0.00 3.28
1750 1761 5.509498 CTCAATACTCCCTCCATTCCAAAA 58.491 41.667 0.00 0.00 0.00 2.44
1751 1762 6.091076 TCAATACTCCCTCCATTCCAAAAT 57.909 37.500 0.00 0.00 0.00 1.82
1752 1763 7.219601 TCAATACTCCCTCCATTCCAAAATA 57.780 36.000 0.00 0.00 0.00 1.40
1753 1764 7.647827 TCAATACTCCCTCCATTCCAAAATAA 58.352 34.615 0.00 0.00 0.00 1.40
1754 1765 7.779798 TCAATACTCCCTCCATTCCAAAATAAG 59.220 37.037 0.00 0.00 0.00 1.73
1755 1766 5.536497 ACTCCCTCCATTCCAAAATAAGT 57.464 39.130 0.00 0.00 0.00 2.24
1756 1767 5.264395 ACTCCCTCCATTCCAAAATAAGTG 58.736 41.667 0.00 0.00 0.00 3.16
1757 1768 5.222337 ACTCCCTCCATTCCAAAATAAGTGT 60.222 40.000 0.00 0.00 0.00 3.55
1758 1769 5.261216 TCCCTCCATTCCAAAATAAGTGTC 58.739 41.667 0.00 0.00 0.00 3.67
1759 1770 5.015178 TCCCTCCATTCCAAAATAAGTGTCT 59.985 40.000 0.00 0.00 0.00 3.41
1760 1771 5.358160 CCCTCCATTCCAAAATAAGTGTCTC 59.642 44.000 0.00 0.00 0.00 3.36
1761 1772 5.945784 CCTCCATTCCAAAATAAGTGTCTCA 59.054 40.000 0.00 0.00 0.00 3.27
1762 1773 6.434028 CCTCCATTCCAAAATAAGTGTCTCAA 59.566 38.462 0.00 0.00 0.00 3.02
1763 1774 7.362401 CCTCCATTCCAAAATAAGTGTCTCAAG 60.362 40.741 0.00 0.00 0.00 3.02
1764 1775 6.071952 TCCATTCCAAAATAAGTGTCTCAAGC 60.072 38.462 0.00 0.00 0.00 4.01
1765 1776 6.071728 CCATTCCAAAATAAGTGTCTCAAGCT 60.072 38.462 0.00 0.00 0.00 3.74
1766 1777 6.959639 TTCCAAAATAAGTGTCTCAAGCTT 57.040 33.333 0.00 0.00 0.00 3.74
1767 1778 8.514594 CATTCCAAAATAAGTGTCTCAAGCTTA 58.485 33.333 0.00 0.00 0.00 3.09
1768 1779 8.458573 TTCCAAAATAAGTGTCTCAAGCTTAA 57.541 30.769 0.00 0.00 0.00 1.85
1769 1780 8.635765 TCCAAAATAAGTGTCTCAAGCTTAAT 57.364 30.769 0.00 0.00 0.00 1.40
1770 1781 9.733556 TCCAAAATAAGTGTCTCAAGCTTAATA 57.266 29.630 0.00 0.00 0.00 0.98
1771 1782 9.774742 CCAAAATAAGTGTCTCAAGCTTAATAC 57.225 33.333 0.00 0.00 0.00 1.89
1775 1786 9.726438 AATAAGTGTCTCAAGCTTAATACAACT 57.274 29.630 0.00 0.00 0.00 3.16
1776 1787 9.726438 ATAAGTGTCTCAAGCTTAATACAACTT 57.274 29.630 0.00 8.06 0.00 2.66
1777 1788 8.451908 AAGTGTCTCAAGCTTAATACAACTTT 57.548 30.769 0.00 0.00 0.00 2.66
1778 1789 7.865707 AGTGTCTCAAGCTTAATACAACTTTG 58.134 34.615 0.00 0.00 0.00 2.77
1779 1790 7.499232 AGTGTCTCAAGCTTAATACAACTTTGT 59.501 33.333 0.00 0.00 44.86 2.83
1780 1791 8.770828 GTGTCTCAAGCTTAATACAACTTTGTA 58.229 33.333 0.00 4.34 46.55 2.41
1781 1792 8.770828 TGTCTCAAGCTTAATACAACTTTGTAC 58.229 33.333 0.00 0.00 45.47 2.90
1782 1793 8.989980 GTCTCAAGCTTAATACAACTTTGTACT 58.010 33.333 0.00 0.00 45.47 2.73
1804 1815 6.896969 ACTAGAGTTAGTACAACGTTGAGAC 58.103 40.000 33.66 26.99 38.35 3.36
1805 1816 5.762825 AGAGTTAGTACAACGTTGAGACA 57.237 39.130 33.66 16.98 0.00 3.41
1806 1817 5.517904 AGAGTTAGTACAACGTTGAGACAC 58.482 41.667 33.66 22.38 0.00 3.67
1807 1818 5.298777 AGAGTTAGTACAACGTTGAGACACT 59.701 40.000 33.66 26.84 0.00 3.55
1808 1819 5.899299 AGTTAGTACAACGTTGAGACACTT 58.101 37.500 33.66 16.42 0.00 3.16
1809 1820 7.012704 AGAGTTAGTACAACGTTGAGACACTTA 59.987 37.037 33.66 19.24 0.00 2.24
1810 1821 7.655490 AGTTAGTACAACGTTGAGACACTTAT 58.345 34.615 33.66 15.81 0.00 1.73
1811 1822 8.139989 AGTTAGTACAACGTTGAGACACTTATT 58.860 33.333 33.66 16.59 0.00 1.40
1812 1823 8.758715 GTTAGTACAACGTTGAGACACTTATTT 58.241 33.333 33.66 14.62 0.00 1.40
1813 1824 7.173863 AGTACAACGTTGAGACACTTATTTG 57.826 36.000 33.66 3.80 0.00 2.32
1814 1825 5.418310 ACAACGTTGAGACACTTATTTGG 57.582 39.130 33.66 2.37 0.00 3.28
1815 1826 4.274950 ACAACGTTGAGACACTTATTTGGG 59.725 41.667 33.66 1.96 0.00 4.12
1816 1827 4.345859 ACGTTGAGACACTTATTTGGGA 57.654 40.909 0.00 0.00 0.00 4.37
1817 1828 4.062991 ACGTTGAGACACTTATTTGGGAC 58.937 43.478 0.00 0.00 0.00 4.46
1818 1829 3.122948 CGTTGAGACACTTATTTGGGACG 59.877 47.826 0.00 0.00 0.00 4.79
1819 1830 3.328382 TGAGACACTTATTTGGGACGG 57.672 47.619 0.00 0.00 0.00 4.79
1820 1831 2.901192 TGAGACACTTATTTGGGACGGA 59.099 45.455 0.00 0.00 0.00 4.69
1821 1832 3.056107 TGAGACACTTATTTGGGACGGAG 60.056 47.826 0.00 0.00 0.00 4.63
1822 1833 2.236395 AGACACTTATTTGGGACGGAGG 59.764 50.000 0.00 0.00 0.00 4.30
1823 1834 1.280998 ACACTTATTTGGGACGGAGGG 59.719 52.381 0.00 0.00 0.00 4.30
1824 1835 1.557832 CACTTATTTGGGACGGAGGGA 59.442 52.381 0.00 0.00 0.00 4.20
2075 2088 0.868406 GTGTGTGTTGCTAGGTGCTC 59.132 55.000 0.00 0.00 43.37 4.26
2082 2095 0.614812 TTGCTAGGTGCTCTGCATGA 59.385 50.000 0.00 0.00 41.91 3.07
2134 2147 9.862585 CTTGCTTATTTGTTTGTAACCATTTTC 57.137 29.630 0.00 0.00 0.00 2.29
2213 2226 0.939419 TGTGCACGATGATATGCTGC 59.061 50.000 13.13 0.00 42.55 5.25
2336 2349 3.031495 TCGATGAGGATCCGCGAC 58.969 61.111 8.23 6.35 35.32 5.19
2363 2376 1.005924 GATGTGGGGGAAGACAATGGT 59.994 52.381 0.00 0.00 0.00 3.55
2366 2379 1.682344 GGGGGAAGACAATGGTGGC 60.682 63.158 0.00 0.00 0.00 5.01
2384 2397 0.674895 GCGTTCTGGCATCTGGAACT 60.675 55.000 13.36 0.00 37.69 3.01
2491 2504 2.855963 GCTCATGCATACACATTTGTGC 59.144 45.455 10.52 0.00 43.39 4.57
2514 2527 1.375396 TTGCGCGGTTAGCTGACAT 60.375 52.632 8.83 0.00 45.59 3.06
2518 2531 1.148157 CGCGGTTAGCTGACATCTGG 61.148 60.000 11.15 0.00 45.59 3.86
2700 2713 3.376935 CTCAACGGCGGCATCTCCT 62.377 63.158 13.24 0.00 0.00 3.69
2829 2846 2.975799 TGGAACACGCCCTTTCGC 60.976 61.111 0.00 0.00 0.00 4.70
2974 2993 9.497030 GCTAGTGATCATACTCAGTATTTATCG 57.503 37.037 0.00 0.00 32.15 2.92
3069 3088 5.381174 TCATGTGAAATTCCAAAGCAGAG 57.619 39.130 0.00 0.00 0.00 3.35
3105 3124 6.114221 TGTAACTAATTAATGCCGCACTTC 57.886 37.500 0.00 0.00 0.00 3.01
3114 3133 2.167861 GCCGCACTTCGAGTCCATC 61.168 63.158 0.00 0.00 41.67 3.51
3128 3147 4.319911 CGAGTCCATCCGAGAGTCTTATTC 60.320 50.000 0.00 0.00 32.49 1.75
3235 3300 7.187824 ACCATAGTGTGTTTCTGACATCTAT 57.812 36.000 0.00 0.00 41.10 1.98
3272 3337 1.077993 TGGACCCCCTTGTATTTTGGG 59.922 52.381 0.00 0.00 42.23 4.12
3365 3432 6.411376 TCGTATTTGAAAGAGCTTTCCCATA 58.589 36.000 17.57 11.67 46.15 2.74
3366 3433 6.538742 TCGTATTTGAAAGAGCTTTCCCATAG 59.461 38.462 17.57 7.46 46.15 2.23
3367 3434 6.238484 CGTATTTGAAAGAGCTTTCCCATAGG 60.238 42.308 17.57 14.34 46.15 2.57
3372 3439 6.969043 TGAAAGAGCTTTCCCATAGGATAAA 58.031 36.000 17.57 0.00 46.15 1.40
3451 3518 7.201884 GCCCAAAATAAGAGGGGTCTAATAAAC 60.202 40.741 0.00 0.00 43.04 2.01
3468 3535 0.686769 AACCCGGGCAGAGGTAGTAG 60.687 60.000 24.08 0.00 34.45 2.57
3478 3545 2.419324 CAGAGGTAGTAGCGAAGTTCGT 59.581 50.000 25.04 14.69 42.81 3.85
3479 3546 3.080319 AGAGGTAGTAGCGAAGTTCGTT 58.920 45.455 25.04 21.88 42.81 3.85
3486 3553 6.089954 GGTAGTAGCGAAGTTCGTTAACAAAT 59.910 38.462 25.04 7.38 42.81 2.32
3498 3565 6.176975 TCGTTAACAAATGGCTTACATGAG 57.823 37.500 6.39 0.00 40.44 2.90
3500 3567 5.794945 CGTTAACAAATGGCTTACATGAGTG 59.205 40.000 6.39 0.00 40.44 3.51
3502 3569 2.493278 ACAAATGGCTTACATGAGTGGC 59.507 45.455 0.00 1.34 40.44 5.01
3505 3592 0.673333 TGGCTTACATGAGTGGCACG 60.673 55.000 12.71 0.00 32.18 5.34
3513 3600 4.465632 ACATGAGTGGCACGAGTATTTA 57.534 40.909 12.71 0.00 0.00 1.40
3540 3636 6.252233 TCCACTTTTATTTCATCCACCATGA 58.748 36.000 0.00 0.00 39.99 3.07
3569 3665 9.004717 GTGTATCTTGATCTATCAGTGTAGCTA 57.995 37.037 0.00 0.00 38.19 3.32
3590 3686 6.488344 AGCTAGCCTTTAGAAGATTAAATGCC 59.512 38.462 12.13 0.00 35.84 4.40
3602 3698 7.398332 AGAAGATTAAATGCCTCCAAACAATCT 59.602 33.333 0.00 0.00 33.97 2.40
3616 3712 5.474532 CCAAACAATCTGTCTCCATCAGAAA 59.525 40.000 0.00 0.00 43.65 2.52
3632 3728 6.183360 CCATCAGAAATGGGAAATTACTCCAC 60.183 42.308 0.00 0.00 37.20 4.02
3633 3729 6.139679 TCAGAAATGGGAAATTACTCCACT 57.860 37.500 0.00 0.00 37.20 4.00
3634 3730 5.945784 TCAGAAATGGGAAATTACTCCACTG 59.054 40.000 0.00 0.00 37.20 3.66
3635 3731 5.945784 CAGAAATGGGAAATTACTCCACTGA 59.054 40.000 0.00 0.00 37.20 3.41
3636 3732 6.434028 CAGAAATGGGAAATTACTCCACTGAA 59.566 38.462 0.00 0.00 37.20 3.02
3637 3733 6.660949 AGAAATGGGAAATTACTCCACTGAAG 59.339 38.462 0.00 0.00 37.20 3.02
3638 3734 4.301072 TGGGAAATTACTCCACTGAAGG 57.699 45.455 0.00 0.00 37.20 3.46
3639 3735 3.010138 TGGGAAATTACTCCACTGAAGGG 59.990 47.826 0.00 0.00 37.20 3.95
3641 3737 3.308473 GGAAATTACTCCACTGAAGGGCT 60.308 47.826 0.00 0.00 35.36 5.19
3643 3739 4.762289 AATTACTCCACTGAAGGGCTAG 57.238 45.455 0.00 0.00 0.00 3.42
3645 3741 0.618968 ACTCCACTGAAGGGCTAGGG 60.619 60.000 0.00 0.00 0.00 3.53
3646 3742 1.977293 CTCCACTGAAGGGCTAGGGC 61.977 65.000 0.00 0.00 37.82 5.19
3647 3743 2.300967 CCACTGAAGGGCTAGGGCA 61.301 63.158 0.00 0.00 40.87 5.36
3648 3744 1.685224 CACTGAAGGGCTAGGGCAA 59.315 57.895 0.00 0.00 40.87 4.52
3649 3745 0.678048 CACTGAAGGGCTAGGGCAAC 60.678 60.000 0.00 0.00 40.87 4.17
3650 3746 1.450312 CTGAAGGGCTAGGGCAACG 60.450 63.158 0.00 0.00 40.87 4.10
3687 3959 3.645660 TGCATCCCACGCCTTCCA 61.646 61.111 0.00 0.00 0.00 3.53
3688 3960 3.134127 GCATCCCACGCCTTCCAC 61.134 66.667 0.00 0.00 0.00 4.02
3693 3965 3.357079 CCACGCCTTCCACTGTGC 61.357 66.667 1.29 0.00 0.00 4.57
3708 3980 1.074566 CTGTGCTTTCCTCTCCCCTTT 59.925 52.381 0.00 0.00 0.00 3.11
3718 3990 2.187100 CTCTCCCCTTTCTCAGAAGCT 58.813 52.381 0.00 0.00 0.00 3.74
3724 3996 2.224621 CCCTTTCTCAGAAGCTCACCAA 60.225 50.000 0.00 0.00 0.00 3.67
3731 4003 4.637534 TCTCAGAAGCTCACCAATAATTGC 59.362 41.667 0.00 0.00 0.00 3.56
3732 4004 3.696051 TCAGAAGCTCACCAATAATTGCC 59.304 43.478 0.00 0.00 0.00 4.52
3733 4005 2.684881 AGAAGCTCACCAATAATTGCCG 59.315 45.455 0.00 0.00 0.00 5.69
3734 4006 2.418368 AGCTCACCAATAATTGCCGA 57.582 45.000 0.00 0.00 0.00 5.54
3735 4007 2.936202 AGCTCACCAATAATTGCCGAT 58.064 42.857 0.00 0.00 0.00 4.18
3736 4008 2.880890 AGCTCACCAATAATTGCCGATC 59.119 45.455 0.00 0.00 0.00 3.69
3737 4009 2.618241 GCTCACCAATAATTGCCGATCA 59.382 45.455 0.00 0.00 0.00 2.92
3738 4010 3.254166 GCTCACCAATAATTGCCGATCAT 59.746 43.478 0.00 0.00 0.00 2.45
3739 4011 4.261741 GCTCACCAATAATTGCCGATCATT 60.262 41.667 0.00 0.00 0.00 2.57
3740 4012 5.737063 GCTCACCAATAATTGCCGATCATTT 60.737 40.000 0.00 0.00 0.00 2.32
3741 4013 5.590145 TCACCAATAATTGCCGATCATTTG 58.410 37.500 0.00 0.00 0.00 2.32
3742 4014 5.359292 TCACCAATAATTGCCGATCATTTGA 59.641 36.000 0.00 0.00 0.00 2.69
3743 4015 6.040729 TCACCAATAATTGCCGATCATTTGAT 59.959 34.615 0.00 0.00 37.51 2.57
3744 4016 6.702723 CACCAATAATTGCCGATCATTTGATT 59.297 34.615 0.00 0.00 34.37 2.57
3745 4017 6.702723 ACCAATAATTGCCGATCATTTGATTG 59.297 34.615 1.39 1.39 34.37 2.67
3746 4018 6.924612 CCAATAATTGCCGATCATTTGATTGA 59.075 34.615 9.02 0.00 38.01 2.57
3747 4019 7.115805 CCAATAATTGCCGATCATTTGATTGAG 59.884 37.037 9.02 1.93 38.01 3.02
3748 4020 4.579454 ATTGCCGATCATTTGATTGAGG 57.421 40.909 9.02 7.54 38.01 3.86
3749 4021 3.003394 TGCCGATCATTTGATTGAGGT 57.997 42.857 9.02 0.00 38.01 3.85
3750 4022 2.945008 TGCCGATCATTTGATTGAGGTC 59.055 45.455 9.02 4.67 38.01 3.85
3751 4023 2.945008 GCCGATCATTTGATTGAGGTCA 59.055 45.455 9.02 0.00 38.01 4.02
3752 4024 3.567164 GCCGATCATTTGATTGAGGTCAT 59.433 43.478 9.02 0.00 38.01 3.06
3753 4025 4.320057 GCCGATCATTTGATTGAGGTCATC 60.320 45.833 9.02 0.00 38.01 2.92
3754 4026 4.818005 CCGATCATTTGATTGAGGTCATCA 59.182 41.667 9.02 0.00 38.01 3.07
3755 4027 5.277683 CCGATCATTTGATTGAGGTCATCAC 60.278 44.000 9.02 0.00 37.77 3.06
3756 4028 5.295045 CGATCATTTGATTGAGGTCATCACA 59.705 40.000 2.12 0.00 37.77 3.58
3757 4029 6.511282 CGATCATTTGATTGAGGTCATCACAG 60.511 42.308 2.12 0.00 37.77 3.66
3758 4030 5.807909 TCATTTGATTGAGGTCATCACAGA 58.192 37.500 0.00 0.00 37.77 3.41
3759 4031 6.240145 TCATTTGATTGAGGTCATCACAGAA 58.760 36.000 0.00 0.00 37.77 3.02
3760 4032 5.947228 TTTGATTGAGGTCATCACAGAAC 57.053 39.130 0.00 0.00 37.77 3.01
3761 4033 3.942829 TGATTGAGGTCATCACAGAACC 58.057 45.455 0.00 0.00 37.77 3.62
3762 4034 2.859165 TTGAGGTCATCACAGAACCC 57.141 50.000 0.00 0.00 37.77 4.11
3763 4035 0.984230 TGAGGTCATCACAGAACCCC 59.016 55.000 0.00 0.00 31.12 4.95
3764 4036 0.984230 GAGGTCATCACAGAACCCCA 59.016 55.000 0.00 0.00 0.00 4.96
3765 4037 1.351017 GAGGTCATCACAGAACCCCAA 59.649 52.381 0.00 0.00 0.00 4.12
3766 4038 1.352352 AGGTCATCACAGAACCCCAAG 59.648 52.381 0.00 0.00 0.00 3.61
3767 4039 1.351017 GGTCATCACAGAACCCCAAGA 59.649 52.381 0.00 0.00 0.00 3.02
3768 4040 2.616510 GGTCATCACAGAACCCCAAGAG 60.617 54.545 0.00 0.00 0.00 2.85
3769 4041 1.630369 TCATCACAGAACCCCAAGAGG 59.370 52.381 0.00 0.00 0.00 3.69
3770 4042 1.630369 CATCACAGAACCCCAAGAGGA 59.370 52.381 0.00 0.00 38.24 3.71
3771 4043 1.352083 TCACAGAACCCCAAGAGGAG 58.648 55.000 0.00 0.00 38.24 3.69
3772 4044 1.059913 CACAGAACCCCAAGAGGAGT 58.940 55.000 0.00 0.00 38.24 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
47 48 3.890756 AGTGGCTCACAACAATTCAATCA 59.109 39.130 7.86 0.00 36.74 2.57
66 68 4.279169 ACAACCACAAGATCAAATCCAGTG 59.721 41.667 0.00 0.00 35.54 3.66
73 75 5.982516 GCATAAACACAACCACAAGATCAAA 59.017 36.000 0.00 0.00 0.00 2.69
114 116 3.091545 CTCAACCCAACAATGTGGCTAT 58.908 45.455 0.00 0.00 37.34 2.97
239 247 4.754411 AATGCCCCTCCTAATCATCAAT 57.246 40.909 0.00 0.00 0.00 2.57
274 283 6.166982 ACAATGAAAACGGAGGAAACAAAAA 58.833 32.000 0.00 0.00 0.00 1.94
453 462 1.291877 GCACGCCAGAAGTCGATGTT 61.292 55.000 0.00 0.00 0.00 2.71
454 463 1.738099 GCACGCCAGAAGTCGATGT 60.738 57.895 0.00 0.00 0.00 3.06
458 467 2.357517 AAGGCACGCCAGAAGTCG 60.358 61.111 11.35 0.00 38.92 4.18
459 468 2.383527 CGAAGGCACGCCAGAAGTC 61.384 63.158 11.35 0.00 38.92 3.01
746 755 3.473923 TCACTGCAAATCTCTGTCACA 57.526 42.857 0.00 0.00 0.00 3.58
852 863 7.175347 TGCTCTATATCTTTCTCACACACTT 57.825 36.000 0.00 0.00 0.00 3.16
973 984 0.585357 GGATGCTAATCTGCTGCACG 59.415 55.000 0.00 0.00 39.63 5.34
979 990 5.180868 CCATCAGTAAAGGATGCTAATCTGC 59.819 44.000 0.00 0.00 40.60 4.26
1118 1129 4.437682 TCATTTGAAGGACCTCTGTTGT 57.562 40.909 0.00 0.00 0.00 3.32
1171 1182 1.429148 CGAAAGTCAGGCATACCGGC 61.429 60.000 0.00 0.00 42.76 6.13
1240 1251 6.005066 TGAGATCCATAAGCCAGAATTCAA 57.995 37.500 8.44 0.00 0.00 2.69
1304 1315 3.066900 CCTTGATACCGACAGGACAGTAG 59.933 52.174 0.00 0.00 41.02 2.57
1380 1391 5.804639 AGATGTGGAATAGTAGCAACACAA 58.195 37.500 0.00 0.00 41.46 3.33
1539 1550 4.262894 GGGACTCCAGTGTTGTTATCTTCA 60.263 45.833 0.00 0.00 0.00 3.02
1551 1562 2.638480 TGTTTCTTGGGACTCCAGTG 57.362 50.000 0.00 0.00 45.04 3.66
1647 1658 3.000724 CGTGATAGCTAAACTGCTTCTGC 59.999 47.826 0.00 0.00 43.74 4.26
1650 1661 5.975410 AATCGTGATAGCTAAACTGCTTC 57.025 39.130 0.00 0.00 43.74 3.86
1651 1662 5.065218 CCAAATCGTGATAGCTAAACTGCTT 59.935 40.000 0.00 0.00 43.74 3.91
1666 1677 0.455633 GCAGAAGCAGCCAAATCGTG 60.456 55.000 0.00 0.00 41.58 4.35
1728 1739 5.528600 TTTTGGAATGGAGGGAGTATTGA 57.471 39.130 0.00 0.00 0.00 2.57
1735 1746 5.015178 AGACACTTATTTTGGAATGGAGGGA 59.985 40.000 0.00 0.00 0.00 4.20
1736 1747 5.264395 AGACACTTATTTTGGAATGGAGGG 58.736 41.667 0.00 0.00 0.00 4.30
1737 1748 5.945784 TGAGACACTTATTTTGGAATGGAGG 59.054 40.000 0.00 0.00 0.00 4.30
1738 1749 7.452880 TTGAGACACTTATTTTGGAATGGAG 57.547 36.000 0.00 0.00 0.00 3.86
1739 1750 6.071952 GCTTGAGACACTTATTTTGGAATGGA 60.072 38.462 0.00 0.00 0.00 3.41
1740 1751 6.071728 AGCTTGAGACACTTATTTTGGAATGG 60.072 38.462 0.00 0.00 0.00 3.16
1741 1752 6.917533 AGCTTGAGACACTTATTTTGGAATG 58.082 36.000 0.00 0.00 0.00 2.67
1742 1753 7.530426 AAGCTTGAGACACTTATTTTGGAAT 57.470 32.000 0.00 0.00 0.00 3.01
1743 1754 6.959639 AAGCTTGAGACACTTATTTTGGAA 57.040 33.333 0.00 0.00 0.00 3.53
1744 1755 8.635765 ATTAAGCTTGAGACACTTATTTTGGA 57.364 30.769 9.86 0.00 0.00 3.53
1745 1756 9.774742 GTATTAAGCTTGAGACACTTATTTTGG 57.225 33.333 9.86 0.00 0.00 3.28
1749 1760 9.726438 AGTTGTATTAAGCTTGAGACACTTATT 57.274 29.630 17.19 0.00 0.00 1.40
1750 1761 9.726438 AAGTTGTATTAAGCTTGAGACACTTAT 57.274 29.630 17.19 3.23 0.00 1.73
1751 1762 9.555727 AAAGTTGTATTAAGCTTGAGACACTTA 57.444 29.630 17.19 1.83 0.00 2.24
1752 1763 8.345565 CAAAGTTGTATTAAGCTTGAGACACTT 58.654 33.333 17.19 18.16 0.00 3.16
1753 1764 7.499232 ACAAAGTTGTATTAAGCTTGAGACACT 59.501 33.333 17.19 14.21 40.16 3.55
1754 1765 7.639945 ACAAAGTTGTATTAAGCTTGAGACAC 58.360 34.615 17.19 12.50 40.16 3.67
1755 1766 7.801716 ACAAAGTTGTATTAAGCTTGAGACA 57.198 32.000 14.00 14.00 40.16 3.41
1756 1767 8.989980 AGTACAAAGTTGTATTAAGCTTGAGAC 58.010 33.333 9.86 9.33 44.59 3.36
1779 1790 7.657354 TGTCTCAACGTTGTACTAACTCTAGTA 59.343 37.037 26.47 2.47 39.23 1.82
1780 1791 6.484643 TGTCTCAACGTTGTACTAACTCTAGT 59.515 38.462 26.47 0.00 41.43 2.57
1781 1792 6.796072 GTGTCTCAACGTTGTACTAACTCTAG 59.204 42.308 26.47 13.07 0.00 2.43
1782 1793 6.484643 AGTGTCTCAACGTTGTACTAACTCTA 59.515 38.462 26.47 3.63 0.00 2.43
1783 1794 5.298777 AGTGTCTCAACGTTGTACTAACTCT 59.701 40.000 26.47 18.70 0.00 3.24
1784 1795 5.517904 AGTGTCTCAACGTTGTACTAACTC 58.482 41.667 26.47 17.19 0.00 3.01
1785 1796 5.511234 AGTGTCTCAACGTTGTACTAACT 57.489 39.130 26.47 20.20 0.00 2.24
1786 1797 7.864307 ATAAGTGTCTCAACGTTGTACTAAC 57.136 36.000 26.47 18.68 0.00 2.34
1787 1798 8.757789 CAAATAAGTGTCTCAACGTTGTACTAA 58.242 33.333 26.47 7.30 0.00 2.24
1788 1799 7.383029 CCAAATAAGTGTCTCAACGTTGTACTA 59.617 37.037 26.47 14.47 0.00 1.82
1789 1800 6.202188 CCAAATAAGTGTCTCAACGTTGTACT 59.798 38.462 26.47 21.22 0.00 2.73
1790 1801 6.360329 CCAAATAAGTGTCTCAACGTTGTAC 58.640 40.000 26.47 23.65 0.00 2.90
1791 1802 5.467399 CCCAAATAAGTGTCTCAACGTTGTA 59.533 40.000 26.47 14.17 0.00 2.41
1792 1803 4.274950 CCCAAATAAGTGTCTCAACGTTGT 59.725 41.667 26.47 9.20 0.00 3.32
1793 1804 4.513692 TCCCAAATAAGTGTCTCAACGTTG 59.486 41.667 22.35 22.35 0.00 4.10
1794 1805 4.514066 GTCCCAAATAAGTGTCTCAACGTT 59.486 41.667 0.00 0.00 0.00 3.99
1795 1806 4.062991 GTCCCAAATAAGTGTCTCAACGT 58.937 43.478 0.00 0.00 0.00 3.99
1796 1807 3.122948 CGTCCCAAATAAGTGTCTCAACG 59.877 47.826 0.00 0.00 0.00 4.10
1797 1808 3.435671 CCGTCCCAAATAAGTGTCTCAAC 59.564 47.826 0.00 0.00 0.00 3.18
1798 1809 3.325425 TCCGTCCCAAATAAGTGTCTCAA 59.675 43.478 0.00 0.00 0.00 3.02
1799 1810 2.901192 TCCGTCCCAAATAAGTGTCTCA 59.099 45.455 0.00 0.00 0.00 3.27
1800 1811 3.522553 CTCCGTCCCAAATAAGTGTCTC 58.477 50.000 0.00 0.00 0.00 3.36
1801 1812 2.236395 CCTCCGTCCCAAATAAGTGTCT 59.764 50.000 0.00 0.00 0.00 3.41
1802 1813 2.629051 CCTCCGTCCCAAATAAGTGTC 58.371 52.381 0.00 0.00 0.00 3.67
1803 1814 1.280998 CCCTCCGTCCCAAATAAGTGT 59.719 52.381 0.00 0.00 0.00 3.55
1804 1815 1.557832 TCCCTCCGTCCCAAATAAGTG 59.442 52.381 0.00 0.00 0.00 3.16
1805 1816 1.838077 CTCCCTCCGTCCCAAATAAGT 59.162 52.381 0.00 0.00 0.00 2.24
1806 1817 1.838077 ACTCCCTCCGTCCCAAATAAG 59.162 52.381 0.00 0.00 0.00 1.73
1807 1818 1.961133 ACTCCCTCCGTCCCAAATAA 58.039 50.000 0.00 0.00 0.00 1.40
1808 1819 2.292389 TGTACTCCCTCCGTCCCAAATA 60.292 50.000 0.00 0.00 0.00 1.40
1809 1820 1.201424 GTACTCCCTCCGTCCCAAAT 58.799 55.000 0.00 0.00 0.00 2.32
1810 1821 0.178926 TGTACTCCCTCCGTCCCAAA 60.179 55.000 0.00 0.00 0.00 3.28
1811 1822 0.042131 ATGTACTCCCTCCGTCCCAA 59.958 55.000 0.00 0.00 0.00 4.12
1812 1823 0.042131 AATGTACTCCCTCCGTCCCA 59.958 55.000 0.00 0.00 0.00 4.37
1813 1824 1.962100 CTAATGTACTCCCTCCGTCCC 59.038 57.143 0.00 0.00 0.00 4.46
1814 1825 2.941480 TCTAATGTACTCCCTCCGTCC 58.059 52.381 0.00 0.00 0.00 4.79
1815 1826 4.142790 TGATCTAATGTACTCCCTCCGTC 58.857 47.826 0.00 0.00 0.00 4.79
1816 1827 4.180377 TGATCTAATGTACTCCCTCCGT 57.820 45.455 0.00 0.00 0.00 4.69
1817 1828 5.730296 AATGATCTAATGTACTCCCTCCG 57.270 43.478 0.00 0.00 0.00 4.63
1818 1829 8.652290 AGTAAAATGATCTAATGTACTCCCTCC 58.348 37.037 0.00 0.00 0.00 4.30
1819 1830 9.699703 GAGTAAAATGATCTAATGTACTCCCTC 57.300 37.037 10.06 0.00 33.14 4.30
1820 1831 9.440761 AGAGTAAAATGATCTAATGTACTCCCT 57.559 33.333 14.49 2.07 37.68 4.20
1821 1832 9.482627 CAGAGTAAAATGATCTAATGTACTCCC 57.517 37.037 14.49 0.27 37.68 4.30
1822 1833 8.983724 GCAGAGTAAAATGATCTAATGTACTCC 58.016 37.037 14.49 3.63 37.68 3.85
1823 1834 8.983724 GGCAGAGTAAAATGATCTAATGTACTC 58.016 37.037 11.99 11.99 37.38 2.59
1824 1835 7.934120 GGGCAGAGTAAAATGATCTAATGTACT 59.066 37.037 0.00 0.00 0.00 2.73
2075 2088 1.872952 TGAAAGGAACGTGTCATGCAG 59.127 47.619 0.00 0.00 0.00 4.41
2082 2095 0.249741 CCGAGGTGAAAGGAACGTGT 60.250 55.000 0.00 0.00 0.00 4.49
2134 2147 2.501723 AGGAACACTATACACAGCCTGG 59.498 50.000 0.00 0.00 0.00 4.45
2213 2226 0.178998 AGATTATGCAGGGCAGGCAG 60.179 55.000 8.28 0.00 45.68 4.85
2282 2295 3.067106 CACCAGCGTGTTGATTACTTCT 58.933 45.455 0.00 0.00 35.10 2.85
2336 2349 1.689233 TTCCCCCACATCTCCTCCG 60.689 63.158 0.00 0.00 0.00 4.63
2345 2358 0.112218 CACCATTGTCTTCCCCCACA 59.888 55.000 0.00 0.00 0.00 4.17
2363 2376 2.046023 CCAGATGCCAGAACGCCA 60.046 61.111 0.00 0.00 0.00 5.69
2366 2379 1.081892 CAGTTCCAGATGCCAGAACG 58.918 55.000 0.00 0.00 43.65 3.95
2384 2397 2.025155 GAGATAGTCCGCTCCTTGTCA 58.975 52.381 0.00 0.00 0.00 3.58
2468 2481 3.855379 CACAAATGTGTATGCATGAGCAC 59.145 43.478 10.16 15.31 46.44 4.40
2514 2527 1.613630 GAGCCCAGAGGTTCCCAGA 60.614 63.158 0.00 0.00 37.41 3.86
2518 2531 0.693049 TGAAAGAGCCCAGAGGTTCC 59.307 55.000 0.00 0.00 44.20 3.62
2610 2623 2.399916 TGTCGATGCATTCCATGTGA 57.600 45.000 0.00 0.00 33.29 3.58
3069 3088 4.737855 TTAGTTACAGGGTCATGAGCTC 57.262 45.455 23.24 6.82 0.00 4.09
3105 3124 1.384525 AAGACTCTCGGATGGACTCG 58.615 55.000 0.00 0.00 0.00 4.18
3114 3133 3.307242 CCGCAAAAGAATAAGACTCTCGG 59.693 47.826 0.00 0.00 0.00 4.63
3128 3147 7.883229 AATACAAAGTATTTTCCCGCAAAAG 57.117 32.000 0.00 0.00 35.03 2.27
3170 3191 1.571919 ATCGCTGTAACGAGGAATGC 58.428 50.000 0.00 0.00 46.69 3.56
3213 3278 8.412456 AGAGATAGATGTCAGAAACACACTATG 58.588 37.037 9.72 0.00 41.75 2.23
3220 3285 5.163612 CGGACAGAGATAGATGTCAGAAACA 60.164 44.000 7.54 0.00 46.14 2.83
3235 3300 2.235402 GTCCAATAAACCCGGACAGAGA 59.765 50.000 0.73 0.00 46.98 3.10
3262 3327 9.495572 GATGGTCAAAAATTTACCCAAAATACA 57.504 29.630 6.22 0.00 36.76 2.29
3413 3480 7.761249 CCTCTTATTTTGGGCTAAAGTTTGATG 59.239 37.037 0.00 0.00 0.00 3.07
3451 3518 2.499827 GCTACTACCTCTGCCCGGG 61.500 68.421 19.09 19.09 0.00 5.73
3456 3523 2.791849 CGAACTTCGCTACTACCTCTGC 60.792 54.545 0.00 0.00 31.14 4.26
3468 3535 2.655001 GCCATTTGTTAACGAACTTCGC 59.345 45.455 10.52 6.39 45.12 4.70
3478 3545 5.336372 GCCACTCATGTAAGCCATTTGTTAA 60.336 40.000 0.00 0.00 0.00 2.01
3479 3546 4.157656 GCCACTCATGTAAGCCATTTGTTA 59.842 41.667 0.00 0.00 0.00 2.41
3486 3553 0.673333 CGTGCCACTCATGTAAGCCA 60.673 55.000 0.00 0.00 0.00 4.75
3498 3565 3.370061 GTGGAACTAAATACTCGTGCCAC 59.630 47.826 3.25 3.25 46.81 5.01
3513 3600 7.309990 CATGGTGGATGAAATAAAAGTGGAACT 60.310 37.037 0.00 0.00 41.86 3.01
3565 3661 6.488344 GGCATTTAATCTTCTAAAGGCTAGCT 59.512 38.462 15.72 0.00 44.17 3.32
3569 3665 5.830457 GGAGGCATTTAATCTTCTAAAGGCT 59.170 40.000 11.16 0.00 44.17 4.58
3616 3712 4.325344 CCCTTCAGTGGAGTAATTTCCCAT 60.325 45.833 0.00 0.00 36.35 4.00
3632 3728 1.450312 CGTTGCCCTAGCCCTTCAG 60.450 63.158 0.00 0.00 38.69 3.02
3633 3729 0.905809 TACGTTGCCCTAGCCCTTCA 60.906 55.000 0.00 0.00 38.69 3.02
3634 3730 0.179081 CTACGTTGCCCTAGCCCTTC 60.179 60.000 0.00 0.00 38.69 3.46
3635 3731 1.905512 CTACGTTGCCCTAGCCCTT 59.094 57.895 0.00 0.00 38.69 3.95
3636 3732 2.732619 GCTACGTTGCCCTAGCCCT 61.733 63.158 11.09 0.00 38.69 5.19
3637 3733 1.397390 TAGCTACGTTGCCCTAGCCC 61.397 60.000 18.33 0.00 36.76 5.19
3638 3734 0.462789 TTAGCTACGTTGCCCTAGCC 59.537 55.000 18.33 0.00 36.76 3.93
3639 3735 1.136500 AGTTAGCTACGTTGCCCTAGC 59.864 52.381 18.33 8.03 36.40 3.42
3641 3737 2.426024 CTCAGTTAGCTACGTTGCCCTA 59.574 50.000 18.33 2.64 0.00 3.53
3643 3739 1.641577 CTCAGTTAGCTACGTTGCCC 58.358 55.000 18.33 7.04 0.00 5.36
3687 3959 0.474660 AGGGGAGAGGAAAGCACAGT 60.475 55.000 0.00 0.00 0.00 3.55
3688 3960 0.695347 AAGGGGAGAGGAAAGCACAG 59.305 55.000 0.00 0.00 0.00 3.66
3693 3965 3.177228 TCTGAGAAAGGGGAGAGGAAAG 58.823 50.000 0.00 0.00 0.00 2.62
3708 3980 4.637534 GCAATTATTGGTGAGCTTCTGAGA 59.362 41.667 7.08 0.00 0.00 3.27
3718 3990 5.359292 TCAAATGATCGGCAATTATTGGTGA 59.641 36.000 7.08 0.00 0.00 4.02
3724 3996 6.266103 ACCTCAATCAAATGATCGGCAATTAT 59.734 34.615 0.00 0.00 32.75 1.28
3731 4003 4.818005 TGATGACCTCAATCAAATGATCGG 59.182 41.667 0.00 1.42 32.75 4.18
3732 4004 5.295045 TGTGATGACCTCAATCAAATGATCG 59.705 40.000 0.00 0.00 35.07 3.69
3733 4005 6.541278 TCTGTGATGACCTCAATCAAATGATC 59.459 38.462 0.00 0.00 35.07 2.92
3734 4006 6.420638 TCTGTGATGACCTCAATCAAATGAT 58.579 36.000 0.00 0.00 35.07 2.45
3735 4007 5.807909 TCTGTGATGACCTCAATCAAATGA 58.192 37.500 0.00 0.00 35.07 2.57
3736 4008 6.320171 GTTCTGTGATGACCTCAATCAAATG 58.680 40.000 0.00 0.00 35.07 2.32
3737 4009 5.416952 GGTTCTGTGATGACCTCAATCAAAT 59.583 40.000 0.00 0.00 35.07 2.32
3738 4010 4.761739 GGTTCTGTGATGACCTCAATCAAA 59.238 41.667 0.00 0.00 35.07 2.69
3739 4011 4.326826 GGTTCTGTGATGACCTCAATCAA 58.673 43.478 0.00 0.00 35.07 2.57
3740 4012 3.307691 GGGTTCTGTGATGACCTCAATCA 60.308 47.826 0.00 0.00 35.07 2.57
3741 4013 3.274288 GGGTTCTGTGATGACCTCAATC 58.726 50.000 0.00 0.00 35.07 2.67
3742 4014 2.025887 GGGGTTCTGTGATGACCTCAAT 60.026 50.000 0.00 0.00 35.07 2.57
3743 4015 1.351017 GGGGTTCTGTGATGACCTCAA 59.649 52.381 0.00 0.00 35.07 3.02
3744 4016 0.984230 GGGGTTCTGTGATGACCTCA 59.016 55.000 0.00 0.00 0.00 3.86
3745 4017 0.984230 TGGGGTTCTGTGATGACCTC 59.016 55.000 0.00 0.00 0.00 3.85
3746 4018 1.352352 CTTGGGGTTCTGTGATGACCT 59.648 52.381 0.00 0.00 0.00 3.85
3747 4019 1.351017 TCTTGGGGTTCTGTGATGACC 59.649 52.381 0.00 0.00 0.00 4.02
3748 4020 2.616510 CCTCTTGGGGTTCTGTGATGAC 60.617 54.545 0.00 0.00 0.00 3.06
3749 4021 1.630369 CCTCTTGGGGTTCTGTGATGA 59.370 52.381 0.00 0.00 0.00 2.92
3750 4022 1.630369 TCCTCTTGGGGTTCTGTGATG 59.370 52.381 0.00 0.00 35.33 3.07
3751 4023 1.912043 CTCCTCTTGGGGTTCTGTGAT 59.088 52.381 0.00 0.00 35.33 3.06
3752 4024 1.352083 CTCCTCTTGGGGTTCTGTGA 58.648 55.000 0.00 0.00 35.33 3.58
3753 4025 3.944476 CTCCTCTTGGGGTTCTGTG 57.056 57.895 0.00 0.00 35.33 3.66


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

AutoCloner maintained by Alex Coulton.