Multiple sequence alignment - TraesCS7D01G324000

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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 TraesCS7D01G324000 chr7D 100.000 4474 0 0 1 4474 413689582 413694055 0.000000e+00 8263
1 TraesCS7D01G324000 chr7D 92.000 150 10 2 1533 1682 40412524 40412377 4.530000e-50 209
2 TraesCS7D01G324000 chr7B 91.247 3610 185 56 876 4434 428093225 428096754 0.000000e+00 4795
3 TraesCS7D01G324000 chr7B 92.898 704 31 6 132 828 428092536 428093227 0.000000e+00 1005
4 TraesCS7D01G324000 chr7B 78.505 214 22 14 3690 3881 234647935 234647724 7.860000e-23 119
5 TraesCS7D01G324000 chr7A 92.227 2946 177 32 784 3695 475771183 475774110 0.000000e+00 4124
6 TraesCS7D01G324000 chr7A 89.831 708 47 11 8 705 475770346 475771038 0.000000e+00 885
7 TraesCS7D01G324000 chr7A 90.022 451 24 3 3992 4434 475775002 475775439 8.400000e-157 564
8 TraesCS7D01G324000 chr7A 77.934 213 25 12 3690 3881 9465133 9464922 3.660000e-21 113
9 TraesCS7D01G324000 chr4D 79.474 190 39 0 3180 3369 468422117 468422306 7.810000e-28 135
10 TraesCS7D01G324000 chr4D 88.571 105 12 0 2961 3065 468421493 468421597 1.310000e-25 128
11 TraesCS7D01G324000 chr4B 88.571 105 12 0 2961 3065 586933972 586934076 1.310000e-25 128
12 TraesCS7D01G324000 chr4B 77.895 190 42 0 3180 3369 586934990 586935179 7.860000e-23 119
13 TraesCS7D01G324000 chr4B 87.879 99 12 0 2961 3059 587162463 587162561 2.830000e-22 117
14 TraesCS7D01G324000 chr4A 87.963 108 13 0 2961 3068 3063966 3063859 1.310000e-25 128
15 TraesCS7D01G324000 chr4A 78.421 190 41 0 3180 3369 3063142 3062953 1.690000e-24 124
16 TraesCS7D01G324000 chr2B 78.199 211 22 14 3690 3878 197584587 197584795 3.660000e-21 113
17 TraesCS7D01G324000 chr3B 77.778 207 24 12 3690 3875 785669552 785669757 1.700000e-19 108


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 TraesCS7D01G324000 chr7D 413689582 413694055 4473 False 8263.000000 8263 100.000000 1 4474 1 chr7D.!!$F1 4473
1 TraesCS7D01G324000 chr7B 428092536 428096754 4218 False 2900.000000 4795 92.072500 132 4434 2 chr7B.!!$F1 4302
2 TraesCS7D01G324000 chr7A 475770346 475775439 5093 False 1857.666667 4124 90.693333 8 4434 3 chr7A.!!$F1 4426

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
727 774 0.528017 CTCGTGCACTTGCCTCTCTA 59.472 55.0 16.19 0.00 41.18 2.43 F
1690 1799 0.323087 TGGCTGTGATTGCTGCAGAT 60.323 50.0 20.43 1.92 35.44 2.90 F
1923 2053 1.411041 AACTAGCTACGGTCATCCCC 58.589 55.0 0.00 0.00 0.00 4.81 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1953 2083 0.530650 CATCGGGCTCATTGCTACGT 60.531 55.0 0.0 0.0 42.39 3.57 R
3297 3432 0.321653 ATCAGCGGGAACAAGGTGAC 60.322 55.0 0.0 0.0 44.51 3.67 R
3822 3978 0.466124 CTAGAGGGAGGCTTTTCGGG 59.534 60.0 0.0 0.0 0.00 5.14 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
23 24 2.188817 GGCTGGGAAACTCTAGAAGGA 58.811 52.381 0.00 0.00 0.00 3.36
33 34 4.473477 ACTCTAGAAGGATCCCAAAACG 57.527 45.455 8.55 0.00 0.00 3.60
34 35 3.197983 ACTCTAGAAGGATCCCAAAACGG 59.802 47.826 8.55 0.00 0.00 4.44
52 53 1.001815 CGGGAAATGCTTCAACACGTT 60.002 47.619 0.00 0.00 32.75 3.99
53 54 2.224549 CGGGAAATGCTTCAACACGTTA 59.775 45.455 0.00 0.00 32.75 3.18
54 55 3.304123 CGGGAAATGCTTCAACACGTTAA 60.304 43.478 0.00 0.00 32.75 2.01
55 56 4.614993 CGGGAAATGCTTCAACACGTTAAT 60.615 41.667 0.00 0.00 32.75 1.40
56 57 4.621034 GGGAAATGCTTCAACACGTTAATG 59.379 41.667 0.00 0.00 32.75 1.90
60 61 1.727857 GCTTCAACACGTTAATGGGCG 60.728 52.381 0.00 0.00 0.00 6.13
75 76 3.527427 GCGGGCCCAGGTAATTGC 61.527 66.667 24.92 10.79 0.00 3.56
82 83 1.873591 GCCCAGGTAATTGCTACATCG 59.126 52.381 0.00 0.00 31.45 3.84
83 84 1.873591 CCCAGGTAATTGCTACATCGC 59.126 52.381 0.00 0.00 31.45 4.58
84 85 2.485479 CCCAGGTAATTGCTACATCGCT 60.485 50.000 0.00 0.00 31.45 4.93
87 96 2.361119 AGGTAATTGCTACATCGCTCGA 59.639 45.455 0.00 0.00 31.45 4.04
110 119 0.874390 GTCGACATTTTGAGGCAGCA 59.126 50.000 11.55 0.00 0.00 4.41
158 167 4.330944 AAAGGACACGTCATACTGTGAA 57.669 40.909 0.00 0.00 38.90 3.18
264 275 3.414700 GCCACCAGCGTGTTCTCG 61.415 66.667 0.00 0.00 38.41 4.04
384 395 2.446036 GGGTATCCGCCCCAGTCT 60.446 66.667 0.00 0.00 42.89 3.24
528 539 1.737735 CGATCGAGCAAGCACCACA 60.738 57.895 10.26 0.00 0.00 4.17
603 620 4.030913 TGTTCCTTAGATCGGAGTTCCAT 58.969 43.478 0.00 0.00 35.14 3.41
727 774 0.528017 CTCGTGCACTTGCCTCTCTA 59.472 55.000 16.19 0.00 41.18 2.43
738 785 2.013483 CCTCTCTATTCGCGCGCTG 61.013 63.158 30.48 22.06 0.00 5.18
763 810 2.652382 TTCCTGTTCGTCGCCAAGCA 62.652 55.000 0.00 0.00 0.00 3.91
806 896 2.813179 CGCATTGCCGTCCACTAGC 61.813 63.158 2.41 0.00 0.00 3.42
812 902 0.684479 TGCCGTCCACTAGCTCAGAT 60.684 55.000 0.00 0.00 0.00 2.90
824 914 4.694509 ACTAGCTCAGATTTCACTGCTTTG 59.305 41.667 0.00 0.00 37.75 2.77
825 915 2.818432 AGCTCAGATTTCACTGCTTTGG 59.182 45.455 0.00 0.00 37.75 3.28
826 916 2.670509 GCTCAGATTTCACTGCTTTGGC 60.671 50.000 0.00 0.00 37.75 4.52
827 917 2.818432 CTCAGATTTCACTGCTTTGGCT 59.182 45.455 0.00 0.00 39.59 4.75
829 919 1.808945 AGATTTCACTGCTTTGGCTCG 59.191 47.619 0.00 0.00 39.59 5.03
830 920 1.806542 GATTTCACTGCTTTGGCTCGA 59.193 47.619 0.00 0.00 39.59 4.04
831 921 1.896220 TTTCACTGCTTTGGCTCGAT 58.104 45.000 0.00 0.00 39.59 3.59
832 922 1.159285 TTCACTGCTTTGGCTCGATG 58.841 50.000 0.00 0.00 39.59 3.84
833 923 1.136147 CACTGCTTTGGCTCGATGC 59.864 57.895 0.00 0.00 39.59 3.91
864 954 2.516460 TCGACCCTAGCGAGCTCC 60.516 66.667 8.47 0.68 33.33 4.70
868 958 0.891904 GACCCTAGCGAGCTCCCTAG 60.892 65.000 23.25 23.25 0.00 3.02
894 984 1.060698 GGCTGTTCGTGCGTAGATTTC 59.939 52.381 0.00 0.00 0.00 2.17
917 1007 6.761312 TCCTTTTCGTAAATCAAGTCCTACA 58.239 36.000 0.00 0.00 0.00 2.74
958 1053 7.965107 AGATTTGATCTACAACGATTTTGAAGC 59.035 33.333 0.00 0.00 38.00 3.86
1022 1120 2.028476 TGGAACATAACAGGGAGACACG 60.028 50.000 0.00 0.00 0.00 4.49
1186 1284 4.141914 ACCTCGATCCTGGAAACTGTAATC 60.142 45.833 0.00 0.00 0.00 1.75
1212 1310 7.040201 CCTCTCTTCTCCATAAATCTCTCTCAG 60.040 44.444 0.00 0.00 0.00 3.35
1254 1359 5.363580 TGATTCCAGTACATATCTGCTCACA 59.636 40.000 0.00 0.00 0.00 3.58
1280 1385 4.340617 TCCAAACTGAAACAGTGGAAACT 58.659 39.130 5.17 0.00 44.62 2.66
1377 1482 3.390003 GGTCAGTCACCGTGGAAAA 57.610 52.632 0.00 0.00 34.56 2.29
1398 1503 8.817100 GGAAAATAATTATTTTGCTTCCTTCCG 58.183 33.333 31.77 0.00 45.01 4.30
1443 1548 1.416401 TGGGTGATTCTAATCGGCCTC 59.584 52.381 0.00 0.00 38.26 4.70
1444 1549 1.605712 GGGTGATTCTAATCGGCCTCG 60.606 57.143 0.00 0.00 38.26 4.63
1523 1632 7.086230 AGTAAGAGGCATGTATAGTATACGC 57.914 40.000 14.21 12.07 0.00 4.42
1529 1638 3.850273 GCATGTATAGTATACGCGACACC 59.150 47.826 15.93 0.00 0.00 4.16
1633 1742 2.354103 GCTGTGCAAGTCAGAGTATCCA 60.354 50.000 6.97 0.00 38.27 3.41
1690 1799 0.323087 TGGCTGTGATTGCTGCAGAT 60.323 50.000 20.43 1.92 35.44 2.90
1718 1827 3.586430 GGTTTGAACCGCTGCATTT 57.414 47.368 0.00 0.00 39.66 2.32
1735 1844 8.223769 CGCTGCATTTTATATACTCCAAAGTAG 58.776 37.037 0.00 0.00 41.22 2.57
1736 1845 9.273016 GCTGCATTTTATATACTCCAAAGTAGA 57.727 33.333 0.00 0.00 41.22 2.59
1766 1875 7.216920 ACAAAAACAAATCTGCGTTTAACTC 57.783 32.000 0.00 0.00 34.32 3.01
1907 2031 4.386424 GGCCTTCAAAGATATGGGGTAACT 60.386 45.833 0.00 0.00 0.00 2.24
1923 2053 1.411041 AACTAGCTACGGTCATCCCC 58.589 55.000 0.00 0.00 0.00 4.81
1937 2067 5.449553 GGTCATCCCCTAACTGAAATGAAT 58.550 41.667 0.00 0.00 0.00 2.57
1938 2068 5.532779 GGTCATCCCCTAACTGAAATGAATC 59.467 44.000 0.00 0.00 0.00 2.52
1947 2077 9.109393 CCCTAACTGAAATGAATCGATTTTCTA 57.891 33.333 12.81 0.16 32.02 2.10
1953 2083 6.312672 TGAAATGAATCGATTTTCTAGACGCA 59.687 34.615 12.81 2.49 32.02 5.24
1986 2120 2.364632 CCCGATGGCATGTTGTTCTTA 58.635 47.619 3.81 0.00 0.00 2.10
1992 2126 5.064579 CGATGGCATGTTGTTCTTATGTGTA 59.935 40.000 3.81 0.00 0.00 2.90
2045 2179 1.965930 GCTGGTGTTCGTCATGGCA 60.966 57.895 0.00 0.00 0.00 4.92
2126 2260 2.224967 GCTATTCATCCCCAGGCTCAAT 60.225 50.000 0.00 0.00 0.00 2.57
2187 2321 3.522553 GCTCTTGTAATGCCGTAAGTCT 58.477 45.455 0.00 0.00 0.00 3.24
2224 2358 3.684305 GCCATTTGCCATACCTGTTTTTC 59.316 43.478 0.00 0.00 0.00 2.29
2225 2359 4.563374 GCCATTTGCCATACCTGTTTTTCT 60.563 41.667 0.00 0.00 0.00 2.52
2276 2410 9.221775 GTGAACATTAATTCACGGTAATGAATC 57.778 33.333 9.70 8.04 46.35 2.52
2357 2491 5.053145 GCATCAGTAAGAGGAATGAACGAT 58.947 41.667 0.00 0.00 0.00 3.73
2525 2659 3.090790 GGACTCGTCTTCCTTCCTACTT 58.909 50.000 0.00 0.00 0.00 2.24
2534 2668 5.411977 GTCTTCCTTCCTACTTAAGGTTTGC 59.588 44.000 7.53 0.00 46.62 3.68
2594 2728 4.136796 ACATGATCGATGGTGGTTTATGG 58.863 43.478 0.54 0.00 36.23 2.74
2605 2739 7.228507 CGATGGTGGTTTATGGAAGATTGATTA 59.771 37.037 0.00 0.00 0.00 1.75
2709 2843 2.887783 CTCGAGTATCACTGGCACCTAT 59.112 50.000 3.62 0.00 33.17 2.57
2712 2846 2.864097 GAGTATCACTGGCACCTATGCG 60.864 54.545 0.00 0.00 44.51 4.73
2944 3079 3.194116 GCATGACATATATTGGCCTTGGG 59.806 47.826 3.32 0.00 29.16 4.12
2949 3084 6.619464 TGACATATATTGGCCTTGGGTTATT 58.381 36.000 3.32 0.00 29.16 1.40
2952 3087 6.843861 ACATATATTGGCCTTGGGTTATTGTT 59.156 34.615 3.32 0.00 0.00 2.83
2972 3107 4.334481 TGTTCATGCAAGCAGATGATACTG 59.666 41.667 0.00 0.00 40.43 2.74
3203 3338 3.256879 TCTCATGGACGCTAGGATTCATC 59.743 47.826 0.00 0.00 0.00 2.92
3449 3584 3.706373 GAGGGTGGCAGCGAGGAA 61.706 66.667 10.99 0.00 0.00 3.36
3486 3621 4.846779 TCAAACTGATGCTTGTTTACCC 57.153 40.909 0.00 0.00 35.01 3.69
3600 3737 6.479006 TGCTAATGATAAATAGGCTCTGCAT 58.521 36.000 0.00 0.00 0.00 3.96
3623 3760 2.437850 GCACGGCTTTGCAGAAATG 58.562 52.632 5.35 0.00 42.49 2.32
3667 3804 7.896383 TTTCTCTTCTCCCAATTTCTTTTCA 57.104 32.000 0.00 0.00 0.00 2.69
3695 3832 3.333414 GCAAACTGCACGAGCTCA 58.667 55.556 15.40 0.00 44.26 4.26
3698 3835 1.070445 AAACTGCACGAGCTCAGCT 59.930 52.632 23.60 0.00 43.88 4.24
3736 3873 0.948623 GGAAAAACGCACAATGGGCC 60.949 55.000 0.22 0.00 33.10 5.80
3744 3881 1.388547 GCACAATGGGCCGAGAAATA 58.611 50.000 0.00 0.00 0.00 1.40
3773 3912 2.287915 CAGAGGAAAAACACGGTCACAG 59.712 50.000 0.00 0.00 0.00 3.66
3802 3941 3.515502 CAGGAGGGAGACACAAACTATGA 59.484 47.826 0.00 0.00 0.00 2.15
3807 3946 5.880901 AGGGAGACACAAACTATGAACATT 58.119 37.500 0.00 0.00 0.00 2.71
3825 3981 8.259049 TGAACATTTACTAACAATTACTCCCG 57.741 34.615 0.00 0.00 0.00 5.14
3826 3982 8.095792 TGAACATTTACTAACAATTACTCCCGA 58.904 33.333 0.00 0.00 0.00 5.14
3849 4008 2.727103 CCTCCCTCTAGAGGCGAAG 58.273 63.158 30.56 24.21 46.76 3.79
3851 4010 1.203001 CCTCCCTCTAGAGGCGAAGAT 60.203 57.143 30.56 0.00 46.76 2.40
3853 4012 5.650570 CCTCCCTCTAGAGGCGAAGATCA 62.651 56.522 30.56 8.20 46.76 2.92
3854 4013 6.880934 CCTCCCTCTAGAGGCGAAGATCAT 62.881 54.167 30.56 0.00 46.76 2.45
3855 4014 3.848272 CCTCTAGAGGCGAAGATCATC 57.152 52.381 25.73 0.00 42.44 2.92
3856 4015 3.153130 CCTCTAGAGGCGAAGATCATCA 58.847 50.000 25.73 0.00 42.44 3.07
3857 4016 3.057596 CCTCTAGAGGCGAAGATCATCAC 60.058 52.174 25.73 0.00 42.44 3.06
3858 4017 3.555966 TCTAGAGGCGAAGATCATCACA 58.444 45.455 0.00 0.00 0.00 3.58
3859 4018 3.954258 TCTAGAGGCGAAGATCATCACAA 59.046 43.478 0.00 0.00 0.00 3.33
3860 4019 3.616956 AGAGGCGAAGATCATCACAAA 57.383 42.857 0.00 0.00 0.00 2.83
3861 4020 3.265791 AGAGGCGAAGATCATCACAAAC 58.734 45.455 0.00 0.00 0.00 2.93
3864 4023 2.096496 GGCGAAGATCATCACAAACCAG 59.904 50.000 0.00 0.00 0.00 4.00
3865 4024 2.476854 GCGAAGATCATCACAAACCAGC 60.477 50.000 0.00 0.00 0.00 4.85
3866 4025 3.005554 CGAAGATCATCACAAACCAGCT 58.994 45.455 0.00 0.00 0.00 4.24
3867 4026 3.063180 CGAAGATCATCACAAACCAGCTC 59.937 47.826 0.00 0.00 0.00 4.09
3868 4027 2.625737 AGATCATCACAAACCAGCTCG 58.374 47.619 0.00 0.00 0.00 5.03
3869 4028 2.027745 AGATCATCACAAACCAGCTCGT 60.028 45.455 0.00 0.00 0.00 4.18
3870 4029 3.195610 AGATCATCACAAACCAGCTCGTA 59.804 43.478 0.00 0.00 0.00 3.43
3871 4030 3.394674 TCATCACAAACCAGCTCGTAA 57.605 42.857 0.00 0.00 0.00 3.18
3872 4031 3.734463 TCATCACAAACCAGCTCGTAAA 58.266 40.909 0.00 0.00 0.00 2.01
3873 4032 3.496884 TCATCACAAACCAGCTCGTAAAC 59.503 43.478 0.00 0.00 0.00 2.01
3874 4033 3.188159 TCACAAACCAGCTCGTAAACT 57.812 42.857 0.00 0.00 0.00 2.66
3875 4034 2.869801 TCACAAACCAGCTCGTAAACTG 59.130 45.455 0.00 0.00 0.00 3.16
3876 4035 1.602377 ACAAACCAGCTCGTAAACTGC 59.398 47.619 0.00 0.00 32.37 4.40
3877 4036 1.601903 CAAACCAGCTCGTAAACTGCA 59.398 47.619 0.00 0.00 32.37 4.41
3878 4037 2.185004 AACCAGCTCGTAAACTGCAT 57.815 45.000 0.00 0.00 32.37 3.96
3879 4038 1.726853 ACCAGCTCGTAAACTGCATC 58.273 50.000 0.00 0.00 32.37 3.91
3885 4044 3.681897 AGCTCGTAAACTGCATCTCTTTG 59.318 43.478 0.00 0.00 0.00 2.77
3907 4066 0.950071 GCCAAACGTGCCATGCAATT 60.950 50.000 0.00 0.00 41.47 2.32
3938 4097 0.179163 CGAGCCCAAATCTTTTCGCC 60.179 55.000 0.00 0.00 0.00 5.54
3941 4100 1.257750 GCCCAAATCTTTTCGCCCCT 61.258 55.000 0.00 0.00 0.00 4.79
3942 4101 0.817654 CCCAAATCTTTTCGCCCCTC 59.182 55.000 0.00 0.00 0.00 4.30
3943 4102 1.616994 CCCAAATCTTTTCGCCCCTCT 60.617 52.381 0.00 0.00 0.00 3.69
3944 4103 2.171003 CCAAATCTTTTCGCCCCTCTT 58.829 47.619 0.00 0.00 0.00 2.85
3945 4104 2.562738 CCAAATCTTTTCGCCCCTCTTT 59.437 45.455 0.00 0.00 0.00 2.52
3946 4105 3.006859 CCAAATCTTTTCGCCCCTCTTTT 59.993 43.478 0.00 0.00 0.00 2.27
3947 4106 3.942130 AATCTTTTCGCCCCTCTTTTG 57.058 42.857 0.00 0.00 0.00 2.44
3948 4107 1.616159 TCTTTTCGCCCCTCTTTTGG 58.384 50.000 0.00 0.00 0.00 3.28
3949 4108 0.038251 CTTTTCGCCCCTCTTTTGGC 60.038 55.000 0.00 0.00 44.41 4.52
3964 4123 6.089417 CCTCTTTTGGCAAATTAATCGTTGTC 59.911 38.462 14.29 0.00 0.00 3.18
3966 4125 4.491234 TTGGCAAATTAATCGTTGTCGT 57.509 36.364 0.00 0.00 38.33 4.34
3968 4127 3.168193 GGCAAATTAATCGTTGTCGTGG 58.832 45.455 2.66 0.00 38.33 4.94
3983 4142 1.495951 GTGGTTGTTCCGACGATGC 59.504 57.895 0.00 0.00 39.52 3.91
3985 4144 0.669318 TGGTTGTTCCGACGATGCTC 60.669 55.000 0.00 0.00 39.52 4.26
3986 4145 0.669318 GGTTGTTCCGACGATGCTCA 60.669 55.000 0.00 0.00 0.00 4.26
4104 4836 1.134280 CAGAGAGGATTGTTCGGCCAT 60.134 52.381 2.24 0.00 0.00 4.40
4121 4853 3.308473 GGCCATCCTCTCTTTTGTAACCT 60.308 47.826 0.00 0.00 0.00 3.50
4181 4913 0.540597 GCCTTTGGCCTTGACCTTCT 60.541 55.000 3.32 0.00 44.06 2.85
4215 4947 1.487976 CTGTGGCATAGGGATGTGACT 59.512 52.381 2.92 0.00 35.30 3.41
4257 4989 1.455383 GCCTTGGCCGAATATGTGGG 61.455 60.000 0.00 0.00 0.00 4.61
4258 4990 0.106719 CCTTGGCCGAATATGTGGGT 60.107 55.000 0.00 0.00 0.00 4.51
4259 4991 1.684869 CCTTGGCCGAATATGTGGGTT 60.685 52.381 0.00 0.00 0.00 4.11
4295 5027 4.906060 TCCATGAGATCTCATCAGGATTGT 59.094 41.667 31.15 9.35 46.57 2.71
4296 5028 5.368816 TCCATGAGATCTCATCAGGATTGTT 59.631 40.000 31.15 8.63 46.57 2.83
4327 5059 6.295292 GGTTAACTTGCTGAATTCTTTCCCAT 60.295 38.462 7.05 0.00 0.00 4.00
4434 5174 2.808543 AGTCTTTTCATCGAGGTGTTGC 59.191 45.455 0.00 0.00 0.00 4.17
4435 5175 2.095718 GTCTTTTCATCGAGGTGTTGCC 60.096 50.000 0.00 0.00 37.58 4.52
4436 5176 0.871722 TTTTCATCGAGGTGTTGCCG 59.128 50.000 0.00 0.00 43.70 5.69
4437 5177 1.573829 TTTCATCGAGGTGTTGCCGC 61.574 55.000 0.00 0.00 43.70 6.53
4438 5178 3.499737 CATCGAGGTGTTGCCGCC 61.500 66.667 0.00 0.00 43.70 6.13
4442 5182 4.980805 GAGGTGTTGCCGCCGTGA 62.981 66.667 0.00 0.00 46.35 4.35
4443 5183 4.988598 AGGTGTTGCCGCCGTGAG 62.989 66.667 0.00 0.00 46.35 3.51
4453 5193 4.400961 GCCGTGAGCCTCCTTGCT 62.401 66.667 0.00 0.00 46.37 3.91
4454 5194 3.019003 GCCGTGAGCCTCCTTGCTA 62.019 63.158 0.00 0.00 42.95 3.49
4455 5195 1.596934 CCGTGAGCCTCCTTGCTAA 59.403 57.895 0.00 0.00 42.95 3.09
4456 5196 0.036388 CCGTGAGCCTCCTTGCTAAA 60.036 55.000 0.00 0.00 42.95 1.85
4457 5197 1.079503 CGTGAGCCTCCTTGCTAAAC 58.920 55.000 0.00 0.00 42.95 2.01
4458 5198 1.454201 GTGAGCCTCCTTGCTAAACC 58.546 55.000 0.00 0.00 42.95 3.27
4459 5199 1.064003 TGAGCCTCCTTGCTAAACCA 58.936 50.000 0.00 0.00 42.95 3.67
4460 5200 1.003580 TGAGCCTCCTTGCTAAACCAG 59.996 52.381 0.00 0.00 42.95 4.00
4461 5201 1.279271 GAGCCTCCTTGCTAAACCAGA 59.721 52.381 0.00 0.00 42.95 3.86
4462 5202 1.280421 AGCCTCCTTGCTAAACCAGAG 59.720 52.381 0.00 0.00 40.56 3.35
4463 5203 1.279271 GCCTCCTTGCTAAACCAGAGA 59.721 52.381 0.00 0.00 0.00 3.10
4464 5204 2.290323 GCCTCCTTGCTAAACCAGAGAA 60.290 50.000 0.00 0.00 0.00 2.87
4465 5205 3.810743 GCCTCCTTGCTAAACCAGAGAAA 60.811 47.826 0.00 0.00 0.00 2.52
4466 5206 4.006319 CCTCCTTGCTAAACCAGAGAAAG 58.994 47.826 0.00 0.00 0.00 2.62
4467 5207 4.505742 CCTCCTTGCTAAACCAGAGAAAGT 60.506 45.833 0.00 0.00 0.00 2.66
4468 5208 5.048846 TCCTTGCTAAACCAGAGAAAGTT 57.951 39.130 0.00 0.00 0.00 2.66
4469 5209 5.445964 TCCTTGCTAAACCAGAGAAAGTTT 58.554 37.500 0.00 0.00 39.44 2.66
4470 5210 5.531287 TCCTTGCTAAACCAGAGAAAGTTTC 59.469 40.000 7.57 7.57 37.39 2.78
4471 5211 5.532779 CCTTGCTAAACCAGAGAAAGTTTCT 59.467 40.000 18.05 18.05 44.21 2.52
4472 5212 6.039829 CCTTGCTAAACCAGAGAAAGTTTCTT 59.960 38.462 18.96 5.15 40.87 2.52
4473 5213 6.619801 TGCTAAACCAGAGAAAGTTTCTTC 57.380 37.500 18.96 12.02 40.87 2.87
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.252103 TCTAGAGTTTCCCAGCCGGT 60.252 55.000 1.90 0.00 0.00 5.28
1 2 0.902531 TTCTAGAGTTTCCCAGCCGG 59.097 55.000 0.00 0.00 0.00 6.13
2 3 1.134670 CCTTCTAGAGTTTCCCAGCCG 60.135 57.143 0.00 0.00 0.00 5.52
3 4 2.188817 TCCTTCTAGAGTTTCCCAGCC 58.811 52.381 0.00 0.00 0.00 4.85
4 5 3.181459 GGATCCTTCTAGAGTTTCCCAGC 60.181 52.174 3.84 0.00 0.00 4.85
5 6 3.389656 GGGATCCTTCTAGAGTTTCCCAG 59.610 52.174 12.58 3.60 41.26 4.45
6 7 3.246350 TGGGATCCTTCTAGAGTTTCCCA 60.246 47.826 21.70 21.70 45.44 4.37
33 34 2.793278 AACGTGTTGAAGCATTTCCC 57.207 45.000 0.00 0.00 32.09 3.97
34 35 4.621034 CCATTAACGTGTTGAAGCATTTCC 59.379 41.667 0.00 0.00 32.09 3.13
39 40 1.268352 GCCCATTAACGTGTTGAAGCA 59.732 47.619 0.00 0.00 0.00 3.91
41 42 1.135803 CCGCCCATTAACGTGTTGAAG 60.136 52.381 0.00 0.00 0.00 3.02
60 61 0.257616 TGTAGCAATTACCTGGGCCC 59.742 55.000 17.59 17.59 0.00 5.80
73 74 1.320344 ACCCTTCGAGCGATGTAGCA 61.320 55.000 0.00 0.00 40.15 3.49
75 76 3.553597 GACCCTTCGAGCGATGTAG 57.446 57.895 0.00 0.00 0.00 2.74
87 96 1.202879 TGCCTCAAAATGTCGACCCTT 60.203 47.619 14.12 3.74 0.00 3.95
95 104 0.108992 CGCATGCTGCCTCAAAATGT 60.109 50.000 17.13 0.00 41.12 2.71
104 113 1.650912 CTATTGGACGCATGCTGCC 59.349 57.895 17.13 16.63 41.12 4.85
105 114 0.815213 TCCTATTGGACGCATGCTGC 60.815 55.000 17.13 8.81 37.46 5.25
110 119 2.878406 CGGAATTTCCTATTGGACGCAT 59.122 45.455 13.45 0.00 43.06 4.73
114 123 4.258543 TGTCACGGAATTTCCTATTGGAC 58.741 43.478 13.45 12.30 43.06 4.02
115 124 4.561500 TGTCACGGAATTTCCTATTGGA 57.438 40.909 13.45 0.00 41.36 3.53
116 125 5.637006 TTTGTCACGGAATTTCCTATTGG 57.363 39.130 13.45 0.23 33.30 3.16
117 126 6.072175 TCCTTTTGTCACGGAATTTCCTATTG 60.072 38.462 13.45 7.80 33.30 1.90
118 127 6.007703 TCCTTTTGTCACGGAATTTCCTATT 58.992 36.000 13.45 0.00 33.30 1.73
119 128 5.414765 GTCCTTTTGTCACGGAATTTCCTAT 59.585 40.000 13.45 0.00 33.30 2.57
120 129 4.758165 GTCCTTTTGTCACGGAATTTCCTA 59.242 41.667 13.45 0.00 33.30 2.94
121 130 3.568430 GTCCTTTTGTCACGGAATTTCCT 59.432 43.478 13.45 0.00 33.30 3.36
122 131 3.316868 TGTCCTTTTGTCACGGAATTTCC 59.683 43.478 5.28 5.28 0.00 3.13
123 132 4.287720 GTGTCCTTTTGTCACGGAATTTC 58.712 43.478 0.00 0.00 0.00 2.17
384 395 3.111939 CGCAACGGTTTTGTGGGA 58.888 55.556 0.00 0.00 0.00 4.37
528 539 2.997897 AGGGCGCGAGGTCTTCTT 60.998 61.111 12.10 0.00 0.00 2.52
738 785 2.027625 CGACGAACAGGAACAGGGC 61.028 63.158 0.00 0.00 0.00 5.19
744 791 1.959226 GCTTGGCGACGAACAGGAA 60.959 57.895 0.00 0.00 0.00 3.36
763 810 2.442272 ACTGATAGAGGCGGCGGT 60.442 61.111 9.78 0.00 0.00 5.68
806 896 2.818432 AGCCAAAGCAGTGAAATCTGAG 59.182 45.455 0.00 0.00 43.56 3.35
812 902 1.536766 CATCGAGCCAAAGCAGTGAAA 59.463 47.619 0.00 0.00 43.56 2.69
843 933 4.253257 CTCGCTAGGGTCGACGGC 62.253 72.222 9.92 10.01 32.08 5.68
844 934 4.253257 GCTCGCTAGGGTCGACGG 62.253 72.222 9.92 0.92 32.08 4.79
874 964 1.060698 GAAATCTACGCACGAACAGCC 59.939 52.381 0.00 0.00 0.00 4.85
894 984 7.611213 ATGTAGGACTTGATTTACGAAAAGG 57.389 36.000 0.00 0.00 0.00 3.11
958 1053 7.753659 TGCATTGCATTGGATTAAAAGAATTG 58.246 30.769 7.38 0.00 31.71 2.32
1186 1284 6.777091 TGAGAGAGATTTATGGAGAAGAGAGG 59.223 42.308 0.00 0.00 0.00 3.69
1212 1310 6.593770 TGGAATCATACTATGTGTGTTGTGAC 59.406 38.462 0.00 0.00 0.00 3.67
1254 1359 2.422127 CCACTGTTTCAGTTTGGAACGT 59.578 45.455 0.00 0.00 42.59 3.99
1280 1385 4.838152 GCGCCGGCTTGGAGATCA 62.838 66.667 26.68 0.00 40.56 2.92
1321 1426 2.357323 TGCAGAACGAACAAATGCTCAA 59.643 40.909 0.00 0.00 37.76 3.02
1372 1477 8.817100 CGGAAGGAAGCAAAATAATTATTTTCC 58.183 33.333 26.18 23.69 42.26 3.13
1377 1482 7.404671 ACACGGAAGGAAGCAAAATAATTAT 57.595 32.000 0.00 0.00 0.00 1.28
1398 1503 0.858961 GCTGCATGCGATCGAAACAC 60.859 55.000 21.57 2.58 0.00 3.32
1443 1548 3.973135 ACTGTATAATTAGCGCGAAGACG 59.027 43.478 12.10 4.18 42.93 4.18
1444 1549 4.086804 CGACTGTATAATTAGCGCGAAGAC 59.913 45.833 12.10 4.99 0.00 3.01
1521 1630 0.521291 ATGACAAAATGGGTGTCGCG 59.479 50.000 0.00 0.00 46.89 5.87
1523 1632 1.269174 TGCATGACAAAATGGGTGTCG 59.731 47.619 0.00 0.00 46.89 4.35
1633 1742 5.221803 CCATAAGCAGATCTTGACCCATACT 60.222 44.000 0.00 0.00 36.25 2.12
1735 1844 6.303370 ACGCAGATTTGTTTTTGTTGTTTTC 58.697 32.000 0.00 0.00 0.00 2.29
1736 1845 6.234723 ACGCAGATTTGTTTTTGTTGTTTT 57.765 29.167 0.00 0.00 0.00 2.43
1745 1854 6.791303 TCAGAGTTAAACGCAGATTTGTTTT 58.209 32.000 0.00 0.00 39.00 2.43
1766 1875 9.577110 ACTGCAAATCACAAATATAAACATCAG 57.423 29.630 0.00 0.00 0.00 2.90
1847 1971 2.559440 CTAGAGCCAGCAATGAGAACC 58.441 52.381 0.00 0.00 0.00 3.62
1883 2007 1.929494 ACCCCATATCTTTGAAGGCCA 59.071 47.619 5.01 0.00 0.00 5.36
1907 2031 2.176364 AGTTAGGGGATGACCGTAGCTA 59.824 50.000 0.00 0.00 45.54 3.32
1937 2067 2.624316 ACGTGCGTCTAGAAAATCGA 57.376 45.000 13.00 0.00 0.00 3.59
1938 2068 2.213575 GCTACGTGCGTCTAGAAAATCG 59.786 50.000 0.00 0.58 0.00 3.34
1947 2077 1.078759 GCTCATTGCTACGTGCGTCT 61.079 55.000 0.00 0.00 46.63 4.18
1948 2078 1.345176 GCTCATTGCTACGTGCGTC 59.655 57.895 0.00 0.00 46.63 5.19
1953 2083 0.530650 CATCGGGCTCATTGCTACGT 60.531 55.000 0.00 0.00 42.39 3.57
1969 2099 5.314923 ACACATAAGAACAACATGCCATC 57.685 39.130 0.00 0.00 0.00 3.51
1973 2103 6.007936 TGGTTACACATAAGAACAACATGC 57.992 37.500 0.00 0.00 0.00 4.06
1974 2104 6.206634 ACCTGGTTACACATAAGAACAACATG 59.793 38.462 0.00 0.00 0.00 3.21
1986 2120 2.354403 GCTTCCGTACCTGGTTACACAT 60.354 50.000 3.84 0.00 0.00 3.21
1992 2126 0.834687 TCCAGCTTCCGTACCTGGTT 60.835 55.000 3.84 0.00 45.00 3.67
2045 2179 2.839486 TCTCCACGAAGAAACATGCT 57.161 45.000 0.00 0.00 0.00 3.79
2162 2296 1.077787 CGGCATTACAAGAGCCCCA 60.078 57.895 0.00 0.00 45.56 4.96
2187 2321 6.239430 TGGCAAATGGCAGTTAAATTCTGTAA 60.239 34.615 5.46 0.00 46.12 2.41
2224 2358 4.619437 AAAATGCAACAGCCAACAAAAG 57.381 36.364 0.00 0.00 0.00 2.27
2225 2359 4.937620 TGTAAAATGCAACAGCCAACAAAA 59.062 33.333 0.00 0.00 0.00 2.44
2333 2467 3.557595 CGTTCATTCCTCTTACTGATGCC 59.442 47.826 0.00 0.00 0.00 4.40
2525 2659 4.498345 GGTCAACACATTTCGCAAACCTTA 60.498 41.667 0.00 0.00 0.00 2.69
2605 2739 8.067784 CACGTTCTAGAACACAACAACAATAAT 58.932 33.333 29.95 0.71 41.20 1.28
2709 2843 1.271817 TGCATGATATATTGCCCCGCA 60.272 47.619 0.00 0.00 38.08 5.69
2712 2846 2.381911 CCCTGCATGATATATTGCCCC 58.618 52.381 0.00 0.00 38.08 5.80
2944 3079 5.643664 TCATCTGCTTGCATGAACAATAAC 58.356 37.500 3.33 0.00 0.00 1.89
2949 3084 4.334481 CAGTATCATCTGCTTGCATGAACA 59.666 41.667 3.33 0.00 32.76 3.18
2952 3087 4.124970 GACAGTATCATCTGCTTGCATGA 58.875 43.478 3.33 0.00 38.84 3.07
2972 3107 1.060698 GCGAACGGTAGCTCAAATGAC 59.939 52.381 0.00 0.00 0.00 3.06
3203 3338 5.122512 AGTAGACGTTTATCCCGATGATG 57.877 43.478 0.00 0.00 34.76 3.07
3297 3432 0.321653 ATCAGCGGGAACAAGGTGAC 60.322 55.000 0.00 0.00 44.51 3.67
3449 3584 6.582636 TCAGTTTGATTGTACAACTCTGTCT 58.417 36.000 11.22 3.14 36.96 3.41
3486 3621 6.531503 TTCTATCTAGGATTAATGAGGGCG 57.468 41.667 0.00 0.00 0.00 6.13
3617 3754 6.916360 AAATACATCACCACAACCATTTCT 57.084 33.333 0.00 0.00 0.00 2.52
3644 3781 8.482852 AATGAAAAGAAATTGGGAGAAGAGAA 57.517 30.769 0.00 0.00 0.00 2.87
3688 3825 5.931532 TCTTAATTGAAAAAGCTGAGCTCG 58.068 37.500 7.72 5.21 38.25 5.03
3695 3832 5.745312 CCCCCTTCTTAATTGAAAAAGCT 57.255 39.130 0.00 0.00 0.00 3.74
3718 3855 1.281566 CGGCCCATTGTGCGTTTTTC 61.282 55.000 0.00 0.00 0.00 2.29
3719 3856 1.300542 CGGCCCATTGTGCGTTTTT 60.301 52.632 0.00 0.00 0.00 1.94
3723 3860 3.545124 TTCTCGGCCCATTGTGCGT 62.545 57.895 0.00 0.00 0.00 5.24
3736 3873 5.250235 TCCTCTGTAAGCTGTATTTCTCG 57.750 43.478 0.00 0.00 0.00 4.04
3744 3881 3.560068 CGTGTTTTTCCTCTGTAAGCTGT 59.440 43.478 0.00 0.00 0.00 4.40
3773 3912 2.368875 TGTGTCTCCCTCCTGTCTTTTC 59.631 50.000 0.00 0.00 0.00 2.29
3802 3941 8.851541 TTCGGGAGTAATTGTTAGTAAATGTT 57.148 30.769 0.00 0.00 0.00 2.71
3807 3946 6.372381 GGCTTTTCGGGAGTAATTGTTAGTAA 59.628 38.462 0.00 0.00 0.00 2.24
3816 3972 1.212195 GGGAGGCTTTTCGGGAGTAAT 59.788 52.381 0.00 0.00 0.00 1.89
3822 3978 0.466124 CTAGAGGGAGGCTTTTCGGG 59.534 60.000 0.00 0.00 0.00 5.14
3823 3979 1.410882 CTCTAGAGGGAGGCTTTTCGG 59.589 57.143 12.27 0.00 0.00 4.30
3845 4004 3.005554 AGCTGGTTTGTGATGATCTTCG 58.994 45.455 4.32 0.00 0.00 3.79
3846 4005 3.063180 CGAGCTGGTTTGTGATGATCTTC 59.937 47.826 0.00 1.67 0.00 2.87
3847 4006 3.005554 CGAGCTGGTTTGTGATGATCTT 58.994 45.455 0.00 0.00 0.00 2.40
3849 4008 2.350522 ACGAGCTGGTTTGTGATGATC 58.649 47.619 0.00 0.00 0.00 2.92
3851 4010 3.394674 TTACGAGCTGGTTTGTGATGA 57.605 42.857 6.71 0.00 0.00 2.92
3853 4012 3.498397 CAGTTTACGAGCTGGTTTGTGAT 59.502 43.478 6.71 0.00 31.18 3.06
3854 4013 2.869801 CAGTTTACGAGCTGGTTTGTGA 59.130 45.455 6.71 0.00 31.18 3.58
3855 4014 2.602217 GCAGTTTACGAGCTGGTTTGTG 60.602 50.000 6.71 1.53 34.95 3.33
3856 4015 1.602377 GCAGTTTACGAGCTGGTTTGT 59.398 47.619 6.71 0.00 34.95 2.83
3857 4016 1.601903 TGCAGTTTACGAGCTGGTTTG 59.398 47.619 6.71 2.66 34.95 2.93
3858 4017 1.961793 TGCAGTTTACGAGCTGGTTT 58.038 45.000 6.71 0.00 34.95 3.27
3859 4018 2.076863 GATGCAGTTTACGAGCTGGTT 58.923 47.619 6.71 0.00 34.95 3.67
3860 4019 1.276421 AGATGCAGTTTACGAGCTGGT 59.724 47.619 6.61 6.61 34.95 4.00
3861 4020 1.929836 GAGATGCAGTTTACGAGCTGG 59.070 52.381 0.00 0.00 34.95 4.85
3864 4023 3.726190 GCAAAGAGATGCAGTTTACGAGC 60.726 47.826 0.00 0.00 45.70 5.03
3865 4024 3.996032 GCAAAGAGATGCAGTTTACGAG 58.004 45.455 0.00 0.00 45.70 4.18
3875 4034 1.706443 GTTTGGCTGCAAAGAGATGC 58.294 50.000 0.50 0.00 46.58 3.91
3876 4035 1.267806 ACGTTTGGCTGCAAAGAGATG 59.732 47.619 0.50 0.00 0.00 2.90
3877 4036 1.267806 CACGTTTGGCTGCAAAGAGAT 59.732 47.619 0.50 0.00 0.00 2.75
3878 4037 0.662619 CACGTTTGGCTGCAAAGAGA 59.337 50.000 0.50 0.00 0.00 3.10
3879 4038 0.936297 GCACGTTTGGCTGCAAAGAG 60.936 55.000 0.50 0.00 33.31 2.85
3890 4049 1.780806 TGAATTGCATGGCACGTTTG 58.219 45.000 0.00 0.00 38.71 2.93
3938 4097 5.072040 ACGATTAATTTGCCAAAAGAGGG 57.928 39.130 0.00 0.00 0.00 4.30
3941 4100 5.627367 CGACAACGATTAATTTGCCAAAAGA 59.373 36.000 0.00 0.00 42.66 2.52
3942 4101 5.401079 ACGACAACGATTAATTTGCCAAAAG 59.599 36.000 0.00 0.00 42.66 2.27
3943 4102 5.174035 CACGACAACGATTAATTTGCCAAAA 59.826 36.000 0.00 0.00 42.66 2.44
3944 4103 4.677378 CACGACAACGATTAATTTGCCAAA 59.323 37.500 0.00 0.00 42.66 3.28
3945 4104 4.222886 CACGACAACGATTAATTTGCCAA 58.777 39.130 0.00 0.00 42.66 4.52
3946 4105 3.365465 CCACGACAACGATTAATTTGCCA 60.365 43.478 0.00 0.00 42.66 4.92
3947 4106 3.168193 CCACGACAACGATTAATTTGCC 58.832 45.455 0.00 0.00 42.66 4.52
3948 4107 3.817238 ACCACGACAACGATTAATTTGC 58.183 40.909 0.00 0.00 42.66 3.68
3949 4108 5.209240 ACAACCACGACAACGATTAATTTG 58.791 37.500 0.00 0.00 42.66 2.32
3950 4109 5.427036 ACAACCACGACAACGATTAATTT 57.573 34.783 0.00 0.00 42.66 1.82
3951 4110 5.427036 AACAACCACGACAACGATTAATT 57.573 34.783 0.00 0.00 42.66 1.40
3952 4111 4.083696 GGAACAACCACGACAACGATTAAT 60.084 41.667 0.00 0.00 43.06 1.40
3953 4112 3.248125 GGAACAACCACGACAACGATTAA 59.752 43.478 0.00 0.00 43.06 1.40
3954 4113 2.801679 GGAACAACCACGACAACGATTA 59.198 45.455 0.00 0.00 43.06 1.75
3955 4114 1.600485 GGAACAACCACGACAACGATT 59.400 47.619 0.00 0.00 43.06 3.34
3956 4115 1.223187 GGAACAACCACGACAACGAT 58.777 50.000 0.00 0.00 43.06 3.73
3964 4123 1.779061 CATCGTCGGAACAACCACG 59.221 57.895 0.00 0.00 38.90 4.94
3966 4125 0.669318 GAGCATCGTCGGAACAACCA 60.669 55.000 0.00 0.00 38.90 3.67
3968 4127 0.716108 CTGAGCATCGTCGGAACAAC 59.284 55.000 0.00 0.00 38.61 3.32
3983 4142 7.524698 GCTTATTCAGACCCTCTTATACCTGAG 60.525 44.444 0.00 0.00 33.02 3.35
3985 4144 6.459923 GCTTATTCAGACCCTCTTATACCTG 58.540 44.000 0.00 0.00 0.00 4.00
3986 4145 5.544562 GGCTTATTCAGACCCTCTTATACCT 59.455 44.000 0.00 0.00 0.00 3.08
4104 4836 3.006537 CGGACAGGTTACAAAAGAGAGGA 59.993 47.826 0.00 0.00 0.00 3.71
4121 4853 1.606668 GTTGAATTTGGACAGCGGACA 59.393 47.619 0.00 0.00 0.00 4.02
4167 4899 1.064003 TGCTTAGAAGGTCAAGGCCA 58.936 50.000 5.01 0.00 0.00 5.36
4181 4913 2.159382 GCCACAGCTAAACCTTGCTTA 58.841 47.619 0.00 0.00 37.44 3.09
4215 4947 6.210796 GCTGCTTATGATGTGCAATTCATTA 58.789 36.000 15.53 7.91 36.22 1.90
4257 4989 1.941294 CATGGATGCTCTCTGCTCAAC 59.059 52.381 0.00 0.00 43.37 3.18
4258 4990 1.835531 TCATGGATGCTCTCTGCTCAA 59.164 47.619 0.00 0.00 43.37 3.02
4259 4991 1.413077 CTCATGGATGCTCTCTGCTCA 59.587 52.381 0.00 0.00 43.37 4.26
4295 5027 6.323739 AGAATTCAGCAAGTTAACCTTTCCAA 59.676 34.615 8.44 0.00 0.00 3.53
4296 5028 5.833131 AGAATTCAGCAAGTTAACCTTTCCA 59.167 36.000 8.44 0.00 0.00 3.53
4327 5059 4.394920 GCTATTGGCTAGTTTGTGTTGCTA 59.605 41.667 0.00 0.00 38.06 3.49
4360 5092 4.275936 ACACTTGGACTGCACAGAATTAAC 59.724 41.667 4.31 0.00 0.00 2.01
4436 5176 2.521958 TTAGCAAGGAGGCTCACGGC 62.522 60.000 17.69 15.26 44.54 5.68
4437 5177 0.036388 TTTAGCAAGGAGGCTCACGG 60.036 55.000 17.69 5.52 44.54 4.94
4438 5178 1.079503 GTTTAGCAAGGAGGCTCACG 58.920 55.000 17.69 4.75 44.54 4.35
4439 5179 1.271379 TGGTTTAGCAAGGAGGCTCAC 60.271 52.381 17.69 5.85 44.54 3.51
4440 5180 1.003580 CTGGTTTAGCAAGGAGGCTCA 59.996 52.381 17.69 0.00 44.54 4.26
4441 5181 1.279271 TCTGGTTTAGCAAGGAGGCTC 59.721 52.381 5.78 5.78 44.54 4.70
4443 5183 1.279271 TCTCTGGTTTAGCAAGGAGGC 59.721 52.381 0.00 0.00 0.00 4.70
4444 5184 3.703001 TTCTCTGGTTTAGCAAGGAGG 57.297 47.619 0.00 0.00 0.00 4.30
4445 5185 4.646572 ACTTTCTCTGGTTTAGCAAGGAG 58.353 43.478 0.00 0.00 0.00 3.69
4446 5186 4.706842 ACTTTCTCTGGTTTAGCAAGGA 57.293 40.909 0.00 0.00 0.00 3.36
4447 5187 5.532779 AGAAACTTTCTCTGGTTTAGCAAGG 59.467 40.000 0.00 0.00 34.07 3.61
4448 5188 6.625873 AGAAACTTTCTCTGGTTTAGCAAG 57.374 37.500 0.00 0.00 34.07 4.01
4449 5189 7.027778 GAAGAAACTTTCTCTGGTTTAGCAA 57.972 36.000 4.46 0.00 39.61 3.91
4450 5190 6.619801 GAAGAAACTTTCTCTGGTTTAGCA 57.380 37.500 4.46 0.00 39.61 3.49


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

AutoCloner maintained by Alex Coulton.