Multiple sequence alignment - TraesCS6D01G232000

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 TraesCS6D01G232000 chr6D 100.000 3834 0 0 1 3834 325731428 325727595 0.000000e+00 7081.0
1 TraesCS6D01G232000 chr6D 100.000 1870 0 0 3979 5848 325727450 325725581 0.000000e+00 3454.0
2 TraesCS6D01G232000 chr6A 98.644 2065 15 5 1770 3834 464516364 464514313 0.000000e+00 3646.0
3 TraesCS6D01G232000 chr6A 93.887 1685 54 20 1 1655 464518014 464516349 0.000000e+00 2495.0
4 TraesCS6D01G232000 chr6A 98.281 931 8 2 3989 4919 464514232 464513310 0.000000e+00 1624.0
5 TraesCS6D01G232000 chr6A 97.576 660 13 3 5191 5848 464509362 464508704 0.000000e+00 1127.0
6 TraesCS6D01G232000 chr6A 95.238 147 5 1 4918 5062 464513196 464513050 1.270000e-56 231.0
7 TraesCS6D01G232000 chr6A 94.400 125 7 0 5078 5202 464510728 464510604 5.980000e-45 193.0
8 TraesCS6D01G232000 chr6B 94.704 2077 89 7 1770 3834 497235590 497237657 0.000000e+00 3206.0
9 TraesCS6D01G232000 chr6B 96.317 733 18 2 3979 4711 497237725 497238448 0.000000e+00 1195.0
10 TraesCS6D01G232000 chr6B 90.778 900 25 20 810 1655 497234710 497235605 0.000000e+00 1149.0
11 TraesCS6D01G232000 chr6B 90.529 813 37 14 4708 5516 497238521 497239297 0.000000e+00 1038.0
12 TraesCS6D01G232000 chr6B 83.404 705 59 34 3 693 497232715 497233375 8.390000e-168 601.0
13 TraesCS6D01G232000 chr6B 91.429 175 6 3 5565 5730 497239303 497239477 1.270000e-56 231.0
14 TraesCS6D01G232000 chr6B 93.798 129 8 0 5720 5848 245983292 245983420 1.660000e-45 195.0
15 TraesCS6D01G232000 chr6B 91.525 118 4 1 695 812 95348473 95348584 2.180000e-34 158.0
16 TraesCS6D01G232000 chr6B 90.164 122 6 1 691 812 692964198 692964083 2.820000e-33 154.0
17 TraesCS6D01G232000 chr6B 92.308 91 7 0 1656 1746 706208864 706208774 4.760000e-26 130.0
18 TraesCS6D01G232000 chr6B 92.308 91 6 1 1656 1746 706008103 706008014 1.710000e-25 128.0
19 TraesCS6D01G232000 chr2A 96.124 129 5 0 5720 5848 214235845 214235717 1.650000e-50 211.0
20 TraesCS6D01G232000 chr2A 87.500 160 18 2 1815 1973 709626101 709626259 3.600000e-42 183.0
21 TraesCS6D01G232000 chr2B 96.094 128 5 0 5721 5848 521938485 521938358 5.940000e-50 209.0
22 TraesCS6D01G232000 chr2B 95.238 126 6 0 5723 5848 153266072 153266197 3.570000e-47 200.0
23 TraesCS6D01G232000 chr2B 89.600 125 5 3 688 811 501608014 501608131 1.010000e-32 152.0
24 TraesCS6D01G232000 chr2B 94.186 86 5 0 3633 3718 14834410 14834325 1.320000e-26 132.0
25 TraesCS6D01G232000 chr1B 96.032 126 5 0 5723 5848 597445156 597445031 7.680000e-49 206.0
26 TraesCS6D01G232000 chr1B 90.984 122 5 1 691 812 98565406 98565521 6.070000e-35 159.0
27 TraesCS6D01G232000 chr1B 91.228 114 4 1 696 809 113565231 113565124 3.650000e-32 150.0
28 TraesCS6D01G232000 chr2D 93.939 132 8 0 5717 5848 54600339 54600208 3.570000e-47 200.0
29 TraesCS6D01G232000 chr2D 91.379 116 4 1 696 811 617397858 617397749 2.820000e-33 154.0
30 TraesCS6D01G232000 chr3A 89.308 159 13 3 1817 1972 509990465 509990308 4.620000e-46 196.0
31 TraesCS6D01G232000 chr7D 90.541 148 9 4 1828 1971 104593046 104593192 2.150000e-44 191.0
32 TraesCS6D01G232000 chr7D 86.061 165 16 6 1812 1972 385434327 385434488 2.800000e-38 171.0
33 TraesCS6D01G232000 chr7D 94.318 88 5 0 3633 3720 463263158 463263071 1.020000e-27 135.0
34 TraesCS6D01G232000 chr7D 87.179 78 6 2 1651 1727 559273912 559273986 1.040000e-12 86.1
35 TraesCS6D01G232000 chr5A 87.342 158 16 4 1815 1971 2074996 2075150 1.670000e-40 178.0
36 TraesCS6D01G232000 chr4D 87.671 146 15 3 1829 1972 382337186 382337042 3.620000e-37 167.0
37 TraesCS6D01G232000 chr4D 91.111 45 3 1 5722 5766 165610551 165610508 6.330000e-05 60.2
38 TraesCS6D01G232000 chr1A 86.452 155 15 5 1817 1969 532594833 532594983 1.300000e-36 165.0
39 TraesCS6D01G232000 chr1A 91.398 93 6 1 1654 1746 23900748 23900658 6.150000e-25 126.0
40 TraesCS6D01G232000 chr1A 89.691 97 7 3 1652 1746 477086413 477086318 2.860000e-23 121.0
41 TraesCS6D01G232000 chr1A 91.429 70 6 0 810 879 321292388 321292319 4.820000e-16 97.1
42 TraesCS6D01G232000 chr1D 89.683 126 6 2 688 812 47705849 47705730 2.820000e-33 154.0
43 TraesCS6D01G232000 chr1D 93.103 87 5 1 3634 3720 78965826 78965911 6.150000e-25 126.0
44 TraesCS6D01G232000 chr7B 89.431 123 7 1 693 815 677714506 677714390 3.650000e-32 150.0
45 TraesCS6D01G232000 chr5D 94.382 89 3 2 3630 3718 122198517 122198431 1.020000e-27 135.0
46 TraesCS6D01G232000 chr5D 92.222 90 5 2 3634 3721 498655369 498655280 6.150000e-25 126.0
47 TraesCS6D01G232000 chr5D 97.015 67 2 0 1680 1746 498717614 498717548 4.790000e-21 113.0
48 TraesCS6D01G232000 chr7A 92.391 92 6 1 3631 3722 40538156 40538246 4.760000e-26 130.0
49 TraesCS6D01G232000 chr4A 92.135 89 6 1 3634 3722 647209389 647209302 2.210000e-24 124.0
50 TraesCS6D01G232000 chr4B 91.860 86 5 2 1655 1740 374217884 374217801 1.030000e-22 119.0
51 TraesCS6D01G232000 chr4B 89.333 75 4 4 1654 1727 629770435 629770364 2.240000e-14 91.6
52 TraesCS6D01G232000 chr3D 89.333 75 3 5 1655 1727 344558184 344558113 8.070000e-14 89.8


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6D01G232000 chr6D 325725581 325731428 5847 True 5267.500000 7081 100.000000 1 5848 2 chr6D.!!$R1 5847
1 TraesCS6D01G232000 chr6A 464508704 464518014 9310 True 1552.666667 3646 96.337667 1 5848 6 chr6A.!!$R1 5847
2 TraesCS6D01G232000 chr6B 497232715 497239477 6762 False 1236.666667 3206 91.193500 3 5730 6 chr6B.!!$F3 5727

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
888 2141 1.016130 CGTCGCCTCAAGCATCAACT 61.016 55.000 0.0 0.0 44.04 3.16 F
891 2144 1.134699 TCGCCTCAAGCATCAACTAGG 60.135 52.381 0.0 0.0 44.04 3.02 F
892 2145 1.134699 CGCCTCAAGCATCAACTAGGA 60.135 52.381 0.0 0.0 44.04 2.94 F
1717 3052 0.034960 GGAAGTGGGGAGAAAGAGCC 60.035 60.000 0.0 0.0 0.00 4.70 F
1725 3060 0.106967 GGAGAAAGAGCCCCATCCAC 60.107 60.000 0.0 0.0 0.00 4.02 F
1735 3070 0.469917 CCCCATCCACATAGCGTTCT 59.530 55.000 0.0 0.0 0.00 3.01 F
1736 3071 1.134098 CCCCATCCACATAGCGTTCTT 60.134 52.381 0.0 0.0 0.00 2.52 F
2094 3441 1.364171 CGGAGAACCTCATAGGGCG 59.636 63.158 0.0 0.0 40.58 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1698 3033 0.034960 GGCTCTTTCTCCCCACTTCC 60.035 60.000 0.00 0.00 0.00 3.46 R
1699 3034 0.034960 GGGCTCTTTCTCCCCACTTC 60.035 60.000 0.00 0.00 38.70 3.01 R
1782 3117 0.039798 CTGCACTGCGCTGTTTCAAT 60.040 50.000 18.01 0.00 43.06 2.57 R
3308 4655 0.608640 GAAGACCCCATGTGTCGTCT 59.391 55.000 16.11 7.86 37.95 4.18 R
4077 5424 0.800683 TAATCTCGTCGCTTGCCGTG 60.801 55.000 0.00 0.00 38.35 4.94 R
4507 5854 2.494471 CAGGCAGCAATCCATCTTGAAA 59.506 45.455 0.00 0.00 0.00 2.69 R
4588 5935 4.339247 GCAACAATAGGTGCATCCACTAAT 59.661 41.667 0.00 0.00 41.75 1.73 R
4875 6299 1.341209 TGTCATAGGCGCATCAGTAGG 59.659 52.381 10.83 0.00 0.00 3.18 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 4.157246 AGCGACATATGTAGGGGATAACA 58.843 43.478 16.45 0.00 0.00 2.41
77 79 1.898574 CCAGCCCACTTCAGCGTTT 60.899 57.895 0.00 0.00 0.00 3.60
174 176 3.303229 CCTTTGTTTTGTTCGTTGCACTC 59.697 43.478 0.00 0.00 0.00 3.51
701 736 1.135333 GCCGCTACAAAGAGCTACTCT 59.865 52.381 0.00 0.00 43.37 3.24
726 761 3.612860 CCGTTCAGAATTACTCGTCCAAG 59.387 47.826 0.00 0.00 0.00 3.61
735 770 7.907045 CAGAATTACTCGTCCAAGAAATGAATG 59.093 37.037 0.00 0.00 0.00 2.67
745 780 9.914131 CGTCCAAGAAATGAATGTATCTAGATA 57.086 33.333 8.44 8.44 0.00 1.98
785 820 9.559958 GATACATTCATTTTTGTGACAAGTAGG 57.440 33.333 0.00 0.00 0.00 3.18
786 821 7.581213 ACATTCATTTTTGTGACAAGTAGGA 57.419 32.000 0.00 0.00 0.00 2.94
789 824 8.783093 CATTCATTTTTGTGACAAGTAGGAGTA 58.217 33.333 0.00 0.00 0.00 2.59
790 825 8.740123 TTCATTTTTGTGACAAGTAGGAGTAA 57.260 30.769 0.00 0.00 0.00 2.24
791 826 8.918202 TCATTTTTGTGACAAGTAGGAGTAAT 57.082 30.769 0.00 0.00 0.00 1.89
792 827 9.349713 TCATTTTTGTGACAAGTAGGAGTAATT 57.650 29.630 0.00 0.00 0.00 1.40
793 828 9.612620 CATTTTTGTGACAAGTAGGAGTAATTC 57.387 33.333 0.00 0.00 0.00 2.17
882 2135 3.513768 TTCAGCGTCGCCTCAAGCA 62.514 57.895 14.86 0.00 44.04 3.91
885 2138 2.815211 GCGTCGCCTCAAGCATCA 60.815 61.111 5.75 0.00 44.04 3.07
886 2139 2.390599 GCGTCGCCTCAAGCATCAA 61.391 57.895 5.75 0.00 44.04 2.57
887 2140 1.421485 CGTCGCCTCAAGCATCAAC 59.579 57.895 0.00 0.00 44.04 3.18
888 2141 1.016130 CGTCGCCTCAAGCATCAACT 61.016 55.000 0.00 0.00 44.04 3.16
889 2142 1.735700 CGTCGCCTCAAGCATCAACTA 60.736 52.381 0.00 0.00 44.04 2.24
890 2143 1.929836 GTCGCCTCAAGCATCAACTAG 59.070 52.381 0.00 0.00 44.04 2.57
891 2144 1.134699 TCGCCTCAAGCATCAACTAGG 60.135 52.381 0.00 0.00 44.04 3.02
892 2145 1.134699 CGCCTCAAGCATCAACTAGGA 60.135 52.381 0.00 0.00 44.04 2.94
893 2146 2.559440 GCCTCAAGCATCAACTAGGAG 58.441 52.381 0.00 0.00 42.97 3.69
894 2147 2.744494 GCCTCAAGCATCAACTAGGAGG 60.744 54.545 0.00 0.00 41.19 4.30
895 2148 2.503356 CCTCAAGCATCAACTAGGAGGT 59.497 50.000 0.00 0.00 36.95 3.85
896 2149 3.431486 CCTCAAGCATCAACTAGGAGGTC 60.431 52.174 0.00 0.00 36.95 3.85
897 2150 3.445008 TCAAGCATCAACTAGGAGGTCT 58.555 45.455 0.00 0.00 0.00 3.85
898 2151 3.449018 TCAAGCATCAACTAGGAGGTCTC 59.551 47.826 0.00 0.00 0.00 3.36
899 2152 3.396685 AGCATCAACTAGGAGGTCTCT 57.603 47.619 0.00 0.00 0.00 3.10
900 2153 3.295973 AGCATCAACTAGGAGGTCTCTC 58.704 50.000 0.00 0.00 39.25 3.20
901 2154 3.052944 AGCATCAACTAGGAGGTCTCTCT 60.053 47.826 0.00 0.00 39.86 3.10
902 2155 3.704061 GCATCAACTAGGAGGTCTCTCTT 59.296 47.826 0.00 0.00 39.86 2.85
903 2156 4.441356 GCATCAACTAGGAGGTCTCTCTTG 60.441 50.000 0.00 0.00 39.86 3.02
904 2157 4.390129 TCAACTAGGAGGTCTCTCTTGT 57.610 45.455 0.00 0.00 39.86 3.16
905 2158 4.337145 TCAACTAGGAGGTCTCTCTTGTC 58.663 47.826 0.00 0.00 39.86 3.18
906 2159 4.043561 TCAACTAGGAGGTCTCTCTTGTCT 59.956 45.833 0.00 0.00 39.86 3.41
907 2160 4.230745 ACTAGGAGGTCTCTCTTGTCTC 57.769 50.000 0.00 0.00 39.86 3.36
908 2161 3.589735 ACTAGGAGGTCTCTCTTGTCTCA 59.410 47.826 0.00 0.00 39.86 3.27
909 2162 3.534357 AGGAGGTCTCTCTTGTCTCAA 57.466 47.619 0.00 0.00 39.86 3.02
910 2163 3.850752 AGGAGGTCTCTCTTGTCTCAAA 58.149 45.455 0.00 0.00 39.86 2.69
911 2164 4.227197 AGGAGGTCTCTCTTGTCTCAAAA 58.773 43.478 0.00 0.00 39.86 2.44
912 2165 4.656112 AGGAGGTCTCTCTTGTCTCAAAAA 59.344 41.667 0.00 0.00 39.86 1.94
1356 2680 2.933287 TGGGATGTTGCCTCCGGT 60.933 61.111 0.00 0.00 33.29 5.28
1676 3011 5.756950 TTTTTCTAGAATACGCACGAGTG 57.243 39.130 5.89 0.00 0.00 3.51
1677 3012 4.430137 TTTCTAGAATACGCACGAGTGT 57.570 40.909 5.89 4.12 42.14 3.55
1691 3026 4.784329 CACGAGTGTGCGTATCATATACT 58.216 43.478 0.00 0.00 43.59 2.12
1692 3027 5.923665 CACGAGTGTGCGTATCATATACTA 58.076 41.667 0.00 0.00 43.59 1.82
1693 3028 6.016111 CACGAGTGTGCGTATCATATACTAG 58.984 44.000 0.00 0.00 43.59 2.57
1694 3029 5.930569 ACGAGTGTGCGTATCATATACTAGA 59.069 40.000 0.00 0.00 43.61 2.43
1695 3030 6.091034 ACGAGTGTGCGTATCATATACTAGAG 59.909 42.308 0.00 0.00 43.61 2.43
1696 3031 6.310711 CGAGTGTGCGTATCATATACTAGAGA 59.689 42.308 0.00 0.00 0.00 3.10
1697 3032 7.148623 CGAGTGTGCGTATCATATACTAGAGAA 60.149 40.741 0.00 0.00 0.00 2.87
1698 3033 8.035165 AGTGTGCGTATCATATACTAGAGAAG 57.965 38.462 0.00 0.00 0.00 2.85
1699 3034 7.119992 AGTGTGCGTATCATATACTAGAGAAGG 59.880 40.741 0.00 0.00 0.00 3.46
1700 3035 7.119407 GTGTGCGTATCATATACTAGAGAAGGA 59.881 40.741 0.00 0.00 0.00 3.36
1701 3036 7.664318 TGTGCGTATCATATACTAGAGAAGGAA 59.336 37.037 0.00 0.00 0.00 3.36
1702 3037 8.178964 GTGCGTATCATATACTAGAGAAGGAAG 58.821 40.741 0.00 0.00 0.00 3.46
1703 3038 7.883833 TGCGTATCATATACTAGAGAAGGAAGT 59.116 37.037 0.00 0.00 0.00 3.01
1704 3039 8.178964 GCGTATCATATACTAGAGAAGGAAGTG 58.821 40.741 0.00 0.00 0.00 3.16
1705 3040 8.670135 CGTATCATATACTAGAGAAGGAAGTGG 58.330 40.741 0.00 0.00 0.00 4.00
1706 3041 8.962679 GTATCATATACTAGAGAAGGAAGTGGG 58.037 40.741 0.00 0.00 0.00 4.61
1707 3042 6.315714 TCATATACTAGAGAAGGAAGTGGGG 58.684 44.000 0.00 0.00 0.00 4.96
1708 3043 4.901785 ATACTAGAGAAGGAAGTGGGGA 57.098 45.455 0.00 0.00 0.00 4.81
1709 3044 3.108847 ACTAGAGAAGGAAGTGGGGAG 57.891 52.381 0.00 0.00 0.00 4.30
1710 3045 2.655407 ACTAGAGAAGGAAGTGGGGAGA 59.345 50.000 0.00 0.00 0.00 3.71
1711 3046 2.723530 AGAGAAGGAAGTGGGGAGAA 57.276 50.000 0.00 0.00 0.00 2.87
1712 3047 2.991580 AGAGAAGGAAGTGGGGAGAAA 58.008 47.619 0.00 0.00 0.00 2.52
1713 3048 2.909662 AGAGAAGGAAGTGGGGAGAAAG 59.090 50.000 0.00 0.00 0.00 2.62
1714 3049 2.907042 GAGAAGGAAGTGGGGAGAAAGA 59.093 50.000 0.00 0.00 0.00 2.52
1715 3050 2.909662 AGAAGGAAGTGGGGAGAAAGAG 59.090 50.000 0.00 0.00 0.00 2.85
1716 3051 0.988063 AGGAAGTGGGGAGAAAGAGC 59.012 55.000 0.00 0.00 0.00 4.09
1717 3052 0.034960 GGAAGTGGGGAGAAAGAGCC 60.035 60.000 0.00 0.00 0.00 4.70
1718 3053 0.034960 GAAGTGGGGAGAAAGAGCCC 60.035 60.000 0.00 0.00 43.91 5.19
1723 3058 1.534203 GGGAGAAAGAGCCCCATCC 59.466 63.158 0.00 0.00 39.89 3.51
1724 3059 1.281925 GGGAGAAAGAGCCCCATCCA 61.282 60.000 0.00 0.00 39.89 3.41
1725 3060 0.106967 GGAGAAAGAGCCCCATCCAC 60.107 60.000 0.00 0.00 0.00 4.02
1726 3061 0.620556 GAGAAAGAGCCCCATCCACA 59.379 55.000 0.00 0.00 0.00 4.17
1727 3062 1.213926 GAGAAAGAGCCCCATCCACAT 59.786 52.381 0.00 0.00 0.00 3.21
1728 3063 2.439507 GAGAAAGAGCCCCATCCACATA 59.560 50.000 0.00 0.00 0.00 2.29
1729 3064 2.441001 AGAAAGAGCCCCATCCACATAG 59.559 50.000 0.00 0.00 0.00 2.23
1730 3065 0.475906 AAGAGCCCCATCCACATAGC 59.524 55.000 0.00 0.00 0.00 2.97
1731 3066 1.302033 GAGCCCCATCCACATAGCG 60.302 63.158 0.00 0.00 0.00 4.26
1732 3067 2.044806 GAGCCCCATCCACATAGCGT 62.045 60.000 0.00 0.00 0.00 5.07
1733 3068 1.152963 GCCCCATCCACATAGCGTT 60.153 57.895 0.00 0.00 0.00 4.84
1734 3069 1.166531 GCCCCATCCACATAGCGTTC 61.167 60.000 0.00 0.00 0.00 3.95
1735 3070 0.469917 CCCCATCCACATAGCGTTCT 59.530 55.000 0.00 0.00 0.00 3.01
1736 3071 1.134098 CCCCATCCACATAGCGTTCTT 60.134 52.381 0.00 0.00 0.00 2.52
1737 3072 2.104111 CCCCATCCACATAGCGTTCTTA 59.896 50.000 0.00 0.00 0.00 2.10
1738 3073 3.131396 CCCATCCACATAGCGTTCTTAC 58.869 50.000 0.00 0.00 0.00 2.34
1739 3074 3.431626 CCCATCCACATAGCGTTCTTACA 60.432 47.826 0.00 0.00 0.00 2.41
1740 3075 4.380531 CCATCCACATAGCGTTCTTACAT 58.619 43.478 0.00 0.00 0.00 2.29
1741 3076 4.449068 CCATCCACATAGCGTTCTTACATC 59.551 45.833 0.00 0.00 0.00 3.06
1742 3077 4.729227 TCCACATAGCGTTCTTACATCA 57.271 40.909 0.00 0.00 0.00 3.07
1743 3078 5.276461 TCCACATAGCGTTCTTACATCAT 57.724 39.130 0.00 0.00 0.00 2.45
1744 3079 5.049828 TCCACATAGCGTTCTTACATCATG 58.950 41.667 0.00 0.00 0.00 3.07
1745 3080 4.811024 CCACATAGCGTTCTTACATCATGT 59.189 41.667 0.00 0.00 0.00 3.21
1746 3081 5.983118 CCACATAGCGTTCTTACATCATGTA 59.017 40.000 0.00 0.00 0.00 2.29
1747 3082 6.478673 CCACATAGCGTTCTTACATCATGTAA 59.521 38.462 9.92 9.92 40.21 2.41
1748 3083 7.171508 CCACATAGCGTTCTTACATCATGTAAT 59.828 37.037 10.75 0.00 41.45 1.89
1749 3084 8.551205 CACATAGCGTTCTTACATCATGTAATT 58.449 33.333 10.75 0.00 41.45 1.40
1750 3085 9.109393 ACATAGCGTTCTTACATCATGTAATTT 57.891 29.630 10.75 0.00 41.45 1.82
1751 3086 9.373750 CATAGCGTTCTTACATCATGTAATTTG 57.626 33.333 10.75 0.16 41.45 2.32
1752 3087 7.377766 AGCGTTCTTACATCATGTAATTTGT 57.622 32.000 10.75 0.00 41.45 2.83
1753 3088 8.487313 AGCGTTCTTACATCATGTAATTTGTA 57.513 30.769 10.75 0.00 41.45 2.41
1754 3089 8.604035 AGCGTTCTTACATCATGTAATTTGTAG 58.396 33.333 10.75 0.00 41.45 2.74
1755 3090 8.600625 GCGTTCTTACATCATGTAATTTGTAGA 58.399 33.333 10.75 0.87 41.45 2.59
1773 3108 8.848474 TTTGTAGAAGAAATAGAGAGGGTTTG 57.152 34.615 0.00 0.00 0.00 2.93
1774 3109 7.554959 TGTAGAAGAAATAGAGAGGGTTTGT 57.445 36.000 0.00 0.00 0.00 2.83
1775 3110 7.386851 TGTAGAAGAAATAGAGAGGGTTTGTG 58.613 38.462 0.00 0.00 0.00 3.33
1776 3111 6.688073 AGAAGAAATAGAGAGGGTTTGTGA 57.312 37.500 0.00 0.00 0.00 3.58
1777 3112 7.264294 AGAAGAAATAGAGAGGGTTTGTGAT 57.736 36.000 0.00 0.00 0.00 3.06
1778 3113 7.694093 AGAAGAAATAGAGAGGGTTTGTGATT 58.306 34.615 0.00 0.00 0.00 2.57
1779 3114 7.609532 AGAAGAAATAGAGAGGGTTTGTGATTG 59.390 37.037 0.00 0.00 0.00 2.67
1780 3115 6.784031 AGAAATAGAGAGGGTTTGTGATTGT 58.216 36.000 0.00 0.00 0.00 2.71
1781 3116 7.918076 AGAAATAGAGAGGGTTTGTGATTGTA 58.082 34.615 0.00 0.00 0.00 2.41
1782 3117 8.383175 AGAAATAGAGAGGGTTTGTGATTGTAA 58.617 33.333 0.00 0.00 0.00 2.41
1783 3118 9.178758 GAAATAGAGAGGGTTTGTGATTGTAAT 57.821 33.333 0.00 0.00 0.00 1.89
1784 3119 9.533831 AAATAGAGAGGGTTTGTGATTGTAATT 57.466 29.630 0.00 0.00 0.00 1.40
1785 3120 6.824305 AGAGAGGGTTTGTGATTGTAATTG 57.176 37.500 0.00 0.00 0.00 2.32
1786 3121 6.542821 AGAGAGGGTTTGTGATTGTAATTGA 58.457 36.000 0.00 0.00 0.00 2.57
1787 3122 7.004086 AGAGAGGGTTTGTGATTGTAATTGAA 58.996 34.615 0.00 0.00 0.00 2.69
1788 3123 7.505585 AGAGAGGGTTTGTGATTGTAATTGAAA 59.494 33.333 0.00 0.00 0.00 2.69
1789 3124 7.433680 AGAGGGTTTGTGATTGTAATTGAAAC 58.566 34.615 0.00 0.00 0.00 2.78
1790 3125 7.069331 AGAGGGTTTGTGATTGTAATTGAAACA 59.931 33.333 0.00 0.00 0.00 2.83
1791 3126 7.209475 AGGGTTTGTGATTGTAATTGAAACAG 58.791 34.615 0.00 0.00 0.00 3.16
1792 3127 6.073819 GGGTTTGTGATTGTAATTGAAACAGC 60.074 38.462 0.00 0.00 0.00 4.40
1793 3128 6.345723 GGTTTGTGATTGTAATTGAAACAGCG 60.346 38.462 0.00 0.00 0.00 5.18
1794 3129 4.225984 TGTGATTGTAATTGAAACAGCGC 58.774 39.130 0.00 0.00 0.00 5.92
2094 3441 1.364171 CGGAGAACCTCATAGGGCG 59.636 63.158 0.00 0.00 40.58 6.13
2272 3619 5.592054 CATTACCATACATCGACAGTGTCT 58.408 41.667 20.64 4.90 0.00 3.41
2551 3898 7.290110 TGGATTCGTCAATCATAGTCATAGT 57.710 36.000 0.00 0.00 40.41 2.12
2552 3899 7.726216 TGGATTCGTCAATCATAGTCATAGTT 58.274 34.615 0.00 0.00 40.41 2.24
3308 4655 5.299531 CCGATCTATTTCCTGTACTGAGTCA 59.700 44.000 0.60 0.00 0.00 3.41
3815 5162 9.527157 TTTCTATGGACTTGGTCAAATATTGAA 57.473 29.630 0.00 0.00 42.15 2.69
4077 5424 6.454795 TGCATTATTTCTGTTTTTGGGAGAC 58.545 36.000 0.00 0.00 0.00 3.36
4507 5854 5.304686 TGTCCTTACAATTTCCACAGTCT 57.695 39.130 0.00 0.00 30.91 3.24
4588 5935 2.691011 CGGGTTTGTTTTCTTCTGGGAA 59.309 45.455 0.00 0.00 0.00 3.97
4661 6008 6.912591 GGTATTATTTCCTTGTCAGAATTGCG 59.087 38.462 0.00 0.00 0.00 4.85
4875 6299 6.199937 AGAAATTGCTGATGTGTGTTATCC 57.800 37.500 0.00 0.00 0.00 2.59
4968 6507 5.738619 TGTGTACTACTCCATGTGACATT 57.261 39.130 0.00 0.00 0.00 2.71
4997 6536 5.752036 TGAGAACAGACTCAAGGATTCAT 57.248 39.130 0.00 0.00 42.79 2.57
5046 6587 7.386848 ACGTTGTTGCTACTATGTTGTATTCTT 59.613 33.333 2.20 0.00 0.00 2.52
5063 6604 9.929180 TTGTATTCTTCATGGATATGTAGTAGC 57.071 33.333 0.00 0.00 34.43 3.58
5113 8960 0.534203 TGGGTTGCCTCGTGAAAGAC 60.534 55.000 0.00 0.00 0.00 3.01
5115 8962 1.305201 GGTTGCCTCGTGAAAGACAA 58.695 50.000 0.00 0.00 0.00 3.18
5246 10346 6.790285 AATTGTTGGCTTTGATTGTTGATC 57.210 33.333 0.00 0.00 35.21 2.92
5543 10643 1.699656 CTTGTGCGGAGGCGATCTTG 61.700 60.000 0.00 0.00 44.10 3.02
5695 10805 2.852449 CTCATCATCTGCCATGAAGCT 58.148 47.619 0.00 0.00 0.00 3.74
5747 10857 0.321919 TGAGCAGTGGAAGCATCACC 60.322 55.000 0.00 0.00 35.87 4.02
5752 10862 2.681976 GCAGTGGAAGCATCACCATACT 60.682 50.000 0.00 0.00 38.48 2.12
5773 10883 2.230994 TAGCCTCAGTGCTTCCAGCG 62.231 60.000 0.00 0.00 46.26 5.18
5798 10908 2.863132 AGAGACGGTGAGACTACTGT 57.137 50.000 0.00 0.00 42.62 3.55
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
36 37 3.070878 CCAAATTTGCCTTGTAACAGGGT 59.929 43.478 12.92 0.00 32.88 4.34
77 79 5.682943 ATAGCAAACGAAACAACTTAGCA 57.317 34.783 0.00 0.00 0.00 3.49
82 84 6.259167 TCAACAGTATAGCAAACGAAACAACT 59.741 34.615 0.00 0.00 0.00 3.16
120 122 4.979815 GGTGGAACAAAAATAACAACGAGG 59.020 41.667 0.00 0.00 44.16 4.63
701 736 3.128242 GGACGAGTAATTCTGAACGGAGA 59.872 47.826 0.00 0.00 0.00 3.71
706 741 6.780706 TTTCTTGGACGAGTAATTCTGAAC 57.219 37.500 0.00 0.00 0.00 3.18
753 788 9.891828 TGTCACAAAAATGAATGTATCTACAAC 57.108 29.630 0.00 0.00 39.99 3.32
784 819 2.237893 TCCCTCCGTTTGGAATTACTCC 59.762 50.000 0.00 0.00 45.87 3.85
785 820 3.055312 ACTCCCTCCGTTTGGAATTACTC 60.055 47.826 0.00 0.00 45.87 2.59
786 821 2.910977 ACTCCCTCCGTTTGGAATTACT 59.089 45.455 0.00 0.00 45.87 2.24
789 824 2.640826 TGTACTCCCTCCGTTTGGAATT 59.359 45.455 0.00 0.00 45.87 2.17
790 825 2.262637 TGTACTCCCTCCGTTTGGAAT 58.737 47.619 0.00 0.00 45.87 3.01
791 826 1.719529 TGTACTCCCTCCGTTTGGAA 58.280 50.000 0.00 0.00 45.87 3.53
792 827 1.553248 CATGTACTCCCTCCGTTTGGA 59.447 52.381 0.00 0.00 43.88 3.53
793 828 1.406887 CCATGTACTCCCTCCGTTTGG 60.407 57.143 0.00 0.00 0.00 3.28
795 830 0.252197 GCCATGTACTCCCTCCGTTT 59.748 55.000 0.00 0.00 0.00 3.60
796 831 0.617820 AGCCATGTACTCCCTCCGTT 60.618 55.000 0.00 0.00 0.00 4.44
797 832 0.260816 TAGCCATGTACTCCCTCCGT 59.739 55.000 0.00 0.00 0.00 4.69
799 834 1.689273 CTGTAGCCATGTACTCCCTCC 59.311 57.143 0.00 0.00 0.00 4.30
800 835 2.667470 TCTGTAGCCATGTACTCCCTC 58.333 52.381 0.00 0.00 0.00 4.30
882 2135 4.941713 ACAAGAGAGACCTCCTAGTTGAT 58.058 43.478 0.00 0.00 40.30 2.57
885 2138 4.043561 TGAGACAAGAGAGACCTCCTAGTT 59.956 45.833 0.00 0.00 40.30 2.24
886 2139 3.589735 TGAGACAAGAGAGACCTCCTAGT 59.410 47.826 0.00 0.00 40.30 2.57
887 2140 4.229304 TGAGACAAGAGAGACCTCCTAG 57.771 50.000 0.00 0.00 40.30 3.02
888 2141 4.659529 TTGAGACAAGAGAGACCTCCTA 57.340 45.455 0.00 0.00 40.30 2.94
889 2142 3.534357 TTGAGACAAGAGAGACCTCCT 57.466 47.619 0.00 0.00 40.30 3.69
890 2143 4.608948 TTTTGAGACAAGAGAGACCTCC 57.391 45.455 0.00 0.00 40.30 4.30
911 2164 5.899278 AGAGAGAGAGACCTCCTAGTTTTT 58.101 41.667 0.00 0.00 40.30 1.94
912 2165 5.253096 AGAGAGAGAGAGACCTCCTAGTTTT 59.747 44.000 0.00 0.00 40.30 2.43
913 2166 4.788617 AGAGAGAGAGAGACCTCCTAGTTT 59.211 45.833 0.00 0.00 40.30 2.66
950 2242 3.459063 GCGTCGGGCTACCTCCTT 61.459 66.667 0.00 0.00 39.11 3.36
1356 2680 2.343101 CGGAACTTGCGGATGACTTTA 58.657 47.619 0.00 0.00 0.00 1.85
1655 2990 4.619760 CACACTCGTGCGTATTCTAGAAAA 59.380 41.667 9.71 0.00 36.06 2.29
1656 2991 4.163552 CACACTCGTGCGTATTCTAGAAA 58.836 43.478 9.71 0.00 36.06 2.52
1657 2992 3.754955 CACACTCGTGCGTATTCTAGAA 58.245 45.455 7.82 7.82 36.06 2.10
1658 2993 3.400505 CACACTCGTGCGTATTCTAGA 57.599 47.619 0.00 0.00 36.06 2.43
1669 3004 4.784329 AGTATATGATACGCACACTCGTG 58.216 43.478 0.00 0.00 46.56 4.35
1670 3005 5.930569 TCTAGTATATGATACGCACACTCGT 59.069 40.000 0.00 0.00 45.49 4.18
1671 3006 6.310711 TCTCTAGTATATGATACGCACACTCG 59.689 42.308 0.00 0.00 0.00 4.18
1672 3007 7.598189 TCTCTAGTATATGATACGCACACTC 57.402 40.000 0.00 0.00 0.00 3.51
1673 3008 7.119992 CCTTCTCTAGTATATGATACGCACACT 59.880 40.741 0.00 0.00 0.00 3.55
1674 3009 7.119407 TCCTTCTCTAGTATATGATACGCACAC 59.881 40.741 0.00 0.00 0.00 3.82
1675 3010 7.166167 TCCTTCTCTAGTATATGATACGCACA 58.834 38.462 0.00 0.00 0.00 4.57
1676 3011 7.612668 TCCTTCTCTAGTATATGATACGCAC 57.387 40.000 0.00 0.00 0.00 5.34
1677 3012 7.883833 ACTTCCTTCTCTAGTATATGATACGCA 59.116 37.037 0.00 0.00 0.00 5.24
1678 3013 8.178964 CACTTCCTTCTCTAGTATATGATACGC 58.821 40.741 0.00 0.00 0.00 4.42
1679 3014 8.670135 CCACTTCCTTCTCTAGTATATGATACG 58.330 40.741 0.00 0.00 0.00 3.06
1680 3015 8.962679 CCCACTTCCTTCTCTAGTATATGATAC 58.037 40.741 0.00 0.00 0.00 2.24
1681 3016 8.116669 CCCCACTTCCTTCTCTAGTATATGATA 58.883 40.741 0.00 0.00 0.00 2.15
1682 3017 6.957020 CCCCACTTCCTTCTCTAGTATATGAT 59.043 42.308 0.00 0.00 0.00 2.45
1683 3018 6.104243 TCCCCACTTCCTTCTCTAGTATATGA 59.896 42.308 0.00 0.00 0.00 2.15
1684 3019 6.315714 TCCCCACTTCCTTCTCTAGTATATG 58.684 44.000 0.00 0.00 0.00 1.78
1685 3020 6.335850 TCTCCCCACTTCCTTCTCTAGTATAT 59.664 42.308 0.00 0.00 0.00 0.86
1686 3021 5.675421 TCTCCCCACTTCCTTCTCTAGTATA 59.325 44.000 0.00 0.00 0.00 1.47
1687 3022 4.482772 TCTCCCCACTTCCTTCTCTAGTAT 59.517 45.833 0.00 0.00 0.00 2.12
1688 3023 3.856813 TCTCCCCACTTCCTTCTCTAGTA 59.143 47.826 0.00 0.00 0.00 1.82
1689 3024 2.655407 TCTCCCCACTTCCTTCTCTAGT 59.345 50.000 0.00 0.00 0.00 2.57
1690 3025 3.390175 TCTCCCCACTTCCTTCTCTAG 57.610 52.381 0.00 0.00 0.00 2.43
1691 3026 3.847042 TTCTCCCCACTTCCTTCTCTA 57.153 47.619 0.00 0.00 0.00 2.43
1692 3027 2.723530 TTCTCCCCACTTCCTTCTCT 57.276 50.000 0.00 0.00 0.00 3.10
1693 3028 2.907042 TCTTTCTCCCCACTTCCTTCTC 59.093 50.000 0.00 0.00 0.00 2.87
1694 3029 2.909662 CTCTTTCTCCCCACTTCCTTCT 59.090 50.000 0.00 0.00 0.00 2.85
1695 3030 2.616765 GCTCTTTCTCCCCACTTCCTTC 60.617 54.545 0.00 0.00 0.00 3.46
1696 3031 1.352687 GCTCTTTCTCCCCACTTCCTT 59.647 52.381 0.00 0.00 0.00 3.36
1697 3032 0.988063 GCTCTTTCTCCCCACTTCCT 59.012 55.000 0.00 0.00 0.00 3.36
1698 3033 0.034960 GGCTCTTTCTCCCCACTTCC 60.035 60.000 0.00 0.00 0.00 3.46
1699 3034 0.034960 GGGCTCTTTCTCCCCACTTC 60.035 60.000 0.00 0.00 38.70 3.01
1700 3035 2.079326 GGGCTCTTTCTCCCCACTT 58.921 57.895 0.00 0.00 38.70 3.16
1701 3036 3.827752 GGGCTCTTTCTCCCCACT 58.172 61.111 0.00 0.00 38.70 4.00
1705 3040 1.281925 TGGATGGGGCTCTTTCTCCC 61.282 60.000 0.00 0.00 41.87 4.30
1706 3041 0.106967 GTGGATGGGGCTCTTTCTCC 60.107 60.000 0.00 0.00 0.00 3.71
1707 3042 0.620556 TGTGGATGGGGCTCTTTCTC 59.379 55.000 0.00 0.00 0.00 2.87
1708 3043 1.302907 ATGTGGATGGGGCTCTTTCT 58.697 50.000 0.00 0.00 0.00 2.52
1709 3044 2.856222 CTATGTGGATGGGGCTCTTTC 58.144 52.381 0.00 0.00 0.00 2.62
1710 3045 1.133668 GCTATGTGGATGGGGCTCTTT 60.134 52.381 0.00 0.00 0.00 2.52
1711 3046 0.475906 GCTATGTGGATGGGGCTCTT 59.524 55.000 0.00 0.00 0.00 2.85
1712 3047 1.762522 CGCTATGTGGATGGGGCTCT 61.763 60.000 0.00 0.00 0.00 4.09
1713 3048 1.302033 CGCTATGTGGATGGGGCTC 60.302 63.158 0.00 0.00 0.00 4.70
1714 3049 1.635817 AACGCTATGTGGATGGGGCT 61.636 55.000 0.00 0.00 0.00 5.19
1715 3050 1.152963 AACGCTATGTGGATGGGGC 60.153 57.895 0.00 0.00 0.00 5.80
1716 3051 0.469917 AGAACGCTATGTGGATGGGG 59.530 55.000 0.00 0.00 0.00 4.96
1717 3052 2.332063 AAGAACGCTATGTGGATGGG 57.668 50.000 0.00 0.00 0.00 4.00
1718 3053 3.792401 TGTAAGAACGCTATGTGGATGG 58.208 45.455 0.00 0.00 0.00 3.51
1719 3054 5.049828 TGATGTAAGAACGCTATGTGGATG 58.950 41.667 0.00 0.00 0.00 3.51
1720 3055 5.276461 TGATGTAAGAACGCTATGTGGAT 57.724 39.130 0.00 0.00 0.00 3.41
1721 3056 4.729227 TGATGTAAGAACGCTATGTGGA 57.271 40.909 0.00 0.00 0.00 4.02
1722 3057 4.811024 ACATGATGTAAGAACGCTATGTGG 59.189 41.667 0.00 0.00 0.00 4.17
1723 3058 5.973651 ACATGATGTAAGAACGCTATGTG 57.026 39.130 0.00 0.00 0.00 3.21
1724 3059 8.662781 AATTACATGATGTAAGAACGCTATGT 57.337 30.769 21.02 0.38 44.89 2.29
1725 3060 9.373750 CAAATTACATGATGTAAGAACGCTATG 57.626 33.333 21.02 8.74 44.89 2.23
1726 3061 9.109393 ACAAATTACATGATGTAAGAACGCTAT 57.891 29.630 21.02 1.71 44.89 2.97
1727 3062 8.487313 ACAAATTACATGATGTAAGAACGCTA 57.513 30.769 21.02 0.00 44.89 4.26
1728 3063 7.377766 ACAAATTACATGATGTAAGAACGCT 57.622 32.000 21.02 3.05 44.89 5.07
1729 3064 8.600625 TCTACAAATTACATGATGTAAGAACGC 58.399 33.333 21.02 0.00 44.89 4.84
1747 3082 9.454859 CAAACCCTCTCTATTTCTTCTACAAAT 57.545 33.333 0.00 0.00 0.00 2.32
1748 3083 8.437575 ACAAACCCTCTCTATTTCTTCTACAAA 58.562 33.333 0.00 0.00 0.00 2.83
1749 3084 7.878127 CACAAACCCTCTCTATTTCTTCTACAA 59.122 37.037 0.00 0.00 0.00 2.41
1750 3085 7.234782 TCACAAACCCTCTCTATTTCTTCTACA 59.765 37.037 0.00 0.00 0.00 2.74
1751 3086 7.612677 TCACAAACCCTCTCTATTTCTTCTAC 58.387 38.462 0.00 0.00 0.00 2.59
1752 3087 7.792364 TCACAAACCCTCTCTATTTCTTCTA 57.208 36.000 0.00 0.00 0.00 2.10
1753 3088 6.688073 TCACAAACCCTCTCTATTTCTTCT 57.312 37.500 0.00 0.00 0.00 2.85
1754 3089 7.391833 ACAATCACAAACCCTCTCTATTTCTTC 59.608 37.037 0.00 0.00 0.00 2.87
1755 3090 7.234355 ACAATCACAAACCCTCTCTATTTCTT 58.766 34.615 0.00 0.00 0.00 2.52
1756 3091 6.784031 ACAATCACAAACCCTCTCTATTTCT 58.216 36.000 0.00 0.00 0.00 2.52
1757 3092 8.561738 TTACAATCACAAACCCTCTCTATTTC 57.438 34.615 0.00 0.00 0.00 2.17
1758 3093 9.533831 AATTACAATCACAAACCCTCTCTATTT 57.466 29.630 0.00 0.00 0.00 1.40
1759 3094 8.960591 CAATTACAATCACAAACCCTCTCTATT 58.039 33.333 0.00 0.00 0.00 1.73
1760 3095 8.328758 TCAATTACAATCACAAACCCTCTCTAT 58.671 33.333 0.00 0.00 0.00 1.98
1761 3096 7.685481 TCAATTACAATCACAAACCCTCTCTA 58.315 34.615 0.00 0.00 0.00 2.43
1762 3097 6.542821 TCAATTACAATCACAAACCCTCTCT 58.457 36.000 0.00 0.00 0.00 3.10
1763 3098 6.817765 TCAATTACAATCACAAACCCTCTC 57.182 37.500 0.00 0.00 0.00 3.20
1764 3099 7.069331 TGTTTCAATTACAATCACAAACCCTCT 59.931 33.333 0.00 0.00 0.00 3.69
1765 3100 7.206687 TGTTTCAATTACAATCACAAACCCTC 58.793 34.615 0.00 0.00 0.00 4.30
1766 3101 7.118496 TGTTTCAATTACAATCACAAACCCT 57.882 32.000 0.00 0.00 0.00 4.34
1767 3102 6.073819 GCTGTTTCAATTACAATCACAAACCC 60.074 38.462 0.00 0.00 0.00 4.11
1768 3103 6.345723 CGCTGTTTCAATTACAATCACAAACC 60.346 38.462 0.00 0.00 0.00 3.27
1769 3104 6.571588 CGCTGTTTCAATTACAATCACAAAC 58.428 36.000 0.00 0.00 0.00 2.93
1770 3105 5.174761 GCGCTGTTTCAATTACAATCACAAA 59.825 36.000 0.00 0.00 0.00 2.83
1771 3106 4.679197 GCGCTGTTTCAATTACAATCACAA 59.321 37.500 0.00 0.00 0.00 3.33
1772 3107 4.225984 GCGCTGTTTCAATTACAATCACA 58.774 39.130 0.00 0.00 0.00 3.58
1773 3108 4.225984 TGCGCTGTTTCAATTACAATCAC 58.774 39.130 9.73 0.00 0.00 3.06
1774 3109 4.023279 ACTGCGCTGTTTCAATTACAATCA 60.023 37.500 14.78 0.00 0.00 2.57
1775 3110 4.321745 CACTGCGCTGTTTCAATTACAATC 59.678 41.667 18.01 0.00 0.00 2.67
1776 3111 4.229096 CACTGCGCTGTTTCAATTACAAT 58.771 39.130 18.01 0.00 0.00 2.71
1777 3112 3.626977 CACTGCGCTGTTTCAATTACAA 58.373 40.909 18.01 0.00 0.00 2.41
1778 3113 2.604373 GCACTGCGCTGTTTCAATTACA 60.604 45.455 18.01 0.00 37.77 2.41
1779 3114 1.978782 GCACTGCGCTGTTTCAATTAC 59.021 47.619 18.01 0.00 37.77 1.89
1780 3115 1.606189 TGCACTGCGCTGTTTCAATTA 59.394 42.857 18.01 0.00 43.06 1.40
1781 3116 0.385029 TGCACTGCGCTGTTTCAATT 59.615 45.000 18.01 0.00 43.06 2.32
1782 3117 0.039798 CTGCACTGCGCTGTTTCAAT 60.040 50.000 18.01 0.00 43.06 2.57
1783 3118 1.094650 TCTGCACTGCGCTGTTTCAA 61.095 50.000 18.01 1.35 43.06 2.69
1784 3119 1.523484 TCTGCACTGCGCTGTTTCA 60.523 52.632 18.01 16.25 43.06 2.69
1785 3120 1.082496 GTCTGCACTGCGCTGTTTC 60.082 57.895 18.01 12.60 43.06 2.78
1786 3121 2.546494 GGTCTGCACTGCGCTGTTT 61.546 57.895 18.01 0.00 43.06 2.83
1787 3122 2.974698 GGTCTGCACTGCGCTGTT 60.975 61.111 18.01 0.23 43.06 3.16
1788 3123 4.240103 TGGTCTGCACTGCGCTGT 62.240 61.111 14.78 14.78 43.06 4.40
1789 3124 3.720193 GTGGTCTGCACTGCGCTG 61.720 66.667 13.23 13.23 43.06 5.18
1790 3125 3.933722 AGTGGTCTGCACTGCGCT 61.934 61.111 9.73 0.00 43.06 5.92
1791 3126 3.720193 CAGTGGTCTGCACTGCGC 61.720 66.667 0.00 0.00 42.68 6.09
2094 3441 4.181309 ACAGCTTGCTTGTAGAGTACTC 57.819 45.455 15.41 15.41 0.00 2.59
2272 3619 9.969001 GGTATTACTGATGGGCCTAATAATAAA 57.031 33.333 4.53 0.00 0.00 1.40
3308 4655 0.608640 GAAGACCCCATGTGTCGTCT 59.391 55.000 16.11 7.86 37.95 4.18
4077 5424 0.800683 TAATCTCGTCGCTTGCCGTG 60.801 55.000 0.00 0.00 38.35 4.94
4507 5854 2.494471 CAGGCAGCAATCCATCTTGAAA 59.506 45.455 0.00 0.00 0.00 2.69
4588 5935 4.339247 GCAACAATAGGTGCATCCACTAAT 59.661 41.667 0.00 0.00 41.75 1.73
4875 6299 1.341209 TGTCATAGGCGCATCAGTAGG 59.659 52.381 10.83 0.00 0.00 3.18
4968 6507 4.021632 CCTTGAGTCTGTTCTCATGTCAGA 60.022 45.833 0.00 1.00 42.84 3.27
4997 6536 3.351740 TCTCAAAAAGGGATTGCGCATA 58.648 40.909 12.75 2.21 0.00 3.14
5074 6615 6.122277 ACCCACTACATATCCATGTCAAAAG 58.878 40.000 0.00 0.00 44.42 2.27
5095 8942 0.534203 TGTCTTTCACGAGGCAACCC 60.534 55.000 0.00 0.00 37.17 4.11
5246 10346 2.987413 TCCATTGCGTTGTGCTAAAG 57.013 45.000 0.00 0.00 46.63 1.85
5645 10748 1.121240 GACATCGCTACGTCAATCGG 58.879 55.000 0.00 0.00 44.69 4.18
5752 10862 0.610174 CTGGAAGCACTGAGGCTACA 59.390 55.000 0.00 0.00 45.07 2.74
5773 10883 2.164338 AGTCTCACCGTCTCTTTCCTC 58.836 52.381 0.00 0.00 0.00 3.71
5780 10890 2.160022 GTGACAGTAGTCTCACCGTCTC 59.840 54.545 0.00 0.00 45.20 3.36
5798 10908 2.288666 GTTGGACAAGAGCAACTGTGA 58.711 47.619 0.00 0.00 0.00 3.58


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

AutoCloner maintained by Alex Coulton.