Multiple sequence alignment - TraesCS4A01G479500

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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 TraesCS4A01G479500 chr4A 100.000 3690 0 0 1 3690 736255870 736259559 0.000000e+00 6815.0
1 TraesCS4A01G479500 chr4A 93.389 2027 91 5 703 2727 735951561 735949576 0.000000e+00 2961.0
2 TraesCS4A01G479500 chr4A 92.480 2008 127 10 740 2727 736693814 736691811 0.000000e+00 2850.0
3 TraesCS4A01G479500 chr4A 92.131 1563 104 9 1288 2834 734446798 734445239 0.000000e+00 2187.0
4 TraesCS4A01G479500 chr4A 93.694 1443 88 1 1288 2727 735161037 735159595 0.000000e+00 2158.0
5 TraesCS4A01G479500 chr4A 92.071 1526 87 13 1287 2794 734349447 734347938 0.000000e+00 2117.0
6 TraesCS4A01G479500 chr4A 94.276 1223 64 5 1473 2689 734949092 734947870 0.000000e+00 1866.0
7 TraesCS4A01G479500 chr4A 95.423 852 31 4 450 1295 734350321 734349472 0.000000e+00 1351.0
8 TraesCS4A01G479500 chr4A 95.201 646 27 3 653 1295 735161703 735161059 0.000000e+00 1018.0
9 TraesCS4A01G479500 chr4A 98.459 519 7 1 1 519 734449208 734448691 0.000000e+00 913.0
10 TraesCS4A01G479500 chr4A 96.289 512 15 3 786 1295 734447329 734446820 0.000000e+00 837.0
11 TraesCS4A01G479500 chr4A 92.816 515 18 7 131 637 734890979 734890476 0.000000e+00 728.0
12 TraesCS4A01G479500 chr4A 96.368 413 14 1 1062 1473 734953808 734953396 0.000000e+00 678.0
13 TraesCS4A01G479500 chr4A 96.654 269 6 2 450 716 735953530 735953263 9.400000e-121 444.0
14 TraesCS4A01G479500 chr4A 92.114 317 20 2 131 447 735168121 735167810 3.380000e-120 442.0
15 TraesCS4A01G479500 chr4A 96.983 232 7 0 562 793 734448691 734448460 1.240000e-104 390.0
16 TraesCS4A01G479500 chr4A 98.947 190 1 1 443 632 735161943 735161755 4.560000e-89 339.0
17 TraesCS4A01G479500 chr4A 82.877 292 24 15 653 937 734890427 734890155 4.760000e-59 239.0
18 TraesCS4A01G479500 chr4A 96.250 80 3 0 2866 2945 734347452 734347531 8.320000e-27 132.0
19 TraesCS4A01G479500 chr4A 93.182 88 5 1 2866 2952 734444776 734444863 1.080000e-25 128.0
20 TraesCS4A01G479500 chr4A 100.000 30 0 0 2698 2727 734947872 734947843 5.150000e-04 56.5
21 TraesCS4A01G479500 chr7D 92.810 1502 89 8 1346 2834 5926743 5928238 0.000000e+00 2158.0
22 TraesCS4A01G479500 chr7D 90.194 1030 67 15 1811 2834 5819435 5820436 0.000000e+00 1312.0
23 TraesCS4A01G479500 chr7D 90.603 564 42 7 793 1349 5920615 5921174 0.000000e+00 737.0
24 TraesCS4A01G479500 chr7D 88.571 245 21 3 740 977 5840656 5840900 1.300000e-74 291.0
25 TraesCS4A01G479500 chr7D 95.238 84 4 0 2866 2949 5820915 5820832 2.310000e-27 134.0
26 TraesCS4A01G479500 chr7A 97.519 645 16 0 2943 3587 735929371 735928727 0.000000e+00 1103.0
27 TraesCS4A01G479500 chr7A 99.083 109 1 0 3582 3690 735912085 735911977 2.910000e-46 196.0
28 TraesCS4A01G479500 chr7A 94.444 126 5 2 1 124 111593496 111593371 3.760000e-45 193.0
29 TraesCS4A01G479500 chr3A 88.930 271 27 2 2944 3214 738760148 738759881 7.640000e-87 331.0
30 TraesCS4A01G479500 chr6D 87.958 191 14 4 2943 3125 15164463 15164274 2.230000e-52 217.0
31 TraesCS4A01G479500 chr6B 96.639 119 4 0 1 119 470796773 470796891 8.080000e-47 198.0
32 TraesCS4A01G479500 chr1B 94.444 126 5 2 1 124 671512386 671512511 3.760000e-45 193.0
33 TraesCS4A01G479500 chr7B 93.701 127 5 2 1 124 122782605 122782479 1.750000e-43 187.0
34 TraesCS4A01G479500 chr6A 93.651 126 6 2 1 124 574749418 574749543 1.750000e-43 187.0
35 TraesCS4A01G479500 chr5B 93.651 126 6 2 1 124 281148325 281148450 1.750000e-43 187.0
36 TraesCS4A01G479500 chr1D 93.651 126 6 2 1 124 30590569 30590444 1.750000e-43 187.0
37 TraesCS4A01G479500 chr1D 92.857 126 7 2 1 124 95873826 95873951 8.140000e-42 182.0
38 TraesCS4A01G479500 chr2A 90.099 101 10 0 1604 1704 19893336 19893436 8.320000e-27 132.0
39 TraesCS4A01G479500 chr2A 80.769 130 25 0 1374 1503 19892208 19892337 6.520000e-18 102.0
40 TraesCS4A01G479500 chr2A 86.420 81 9 2 314 392 89961619 89961699 1.830000e-13 87.9


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4A01G479500 chr4A 736255870 736259559 3689 False 6815.000000 6815 100.000000 1 3690 1 chr4A.!!$F3 3689
1 TraesCS4A01G479500 chr4A 736691811 736693814 2003 True 2850.000000 2850 92.480000 740 2727 1 chr4A.!!$R3 1987
2 TraesCS4A01G479500 chr4A 734347938 734350321 2383 True 1734.000000 2117 93.747000 450 2794 2 chr4A.!!$R4 2344
3 TraesCS4A01G479500 chr4A 735949576 735953530 3954 True 1702.500000 2961 95.021500 450 2727 2 chr4A.!!$R9 2277
4 TraesCS4A01G479500 chr4A 735159595 735161943 2348 True 1171.666667 2158 95.947333 443 2727 3 chr4A.!!$R8 2284
5 TraesCS4A01G479500 chr4A 734445239 734449208 3969 True 1081.750000 2187 95.965500 1 2834 4 chr4A.!!$R5 2833
6 TraesCS4A01G479500 chr4A 734947843 734949092 1249 True 961.250000 1866 97.138000 1473 2727 2 chr4A.!!$R7 1254
7 TraesCS4A01G479500 chr4A 734890155 734890979 824 True 483.500000 728 87.846500 131 937 2 chr4A.!!$R6 806
8 TraesCS4A01G479500 chr7D 5926743 5928238 1495 False 2158.000000 2158 92.810000 1346 2834 1 chr7D.!!$F4 1488
9 TraesCS4A01G479500 chr7D 5819435 5820436 1001 False 1312.000000 1312 90.194000 1811 2834 1 chr7D.!!$F1 1023
10 TraesCS4A01G479500 chr7D 5920615 5921174 559 False 737.000000 737 90.603000 793 1349 1 chr7D.!!$F3 556
11 TraesCS4A01G479500 chr7A 735928727 735929371 644 True 1103.000000 1103 97.519000 2943 3587 1 chr7A.!!$R3 644

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
153 154 0.320697 ACAGTAGCACCGAACCTTCC 59.679 55.0 0.0 0.0 0.0 3.46 F
1533 4556 0.329261 CCTGAAGAAGATGCCCACCA 59.671 55.0 0.0 0.0 0.0 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1900 4924 0.686789 GAGGGCTGCAATTTTTGGGT 59.313 50.0 0.5 0.0 0.0 4.51 R
2883 5935 0.037447 AGCCTTGTTCCTCTCCTTGC 59.963 55.0 0.0 0.0 0.0 4.01 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
24 25 1.220749 CATTCATCCCGACGGTGGT 59.779 57.895 13.94 0.00 0.00 4.16
153 154 0.320697 ACAGTAGCACCGAACCTTCC 59.679 55.000 0.00 0.00 0.00 3.46
214 215 3.563512 ACCTTTGGGTGCGTCTCT 58.436 55.556 0.00 0.00 45.43 3.10
651 693 3.610677 CGTCATTGTTGTGCTCGTGTATA 59.389 43.478 0.00 0.00 0.00 1.47
968 3889 2.790585 TCCATCCCATCCATTGATTCCA 59.209 45.455 0.00 0.00 0.00 3.53
977 3898 2.851821 TCCATTGATTCCACCCATCTCA 59.148 45.455 0.00 0.00 0.00 3.27
1207 4132 1.923395 ACGGGCCAGGATTTCTCCA 60.923 57.895 8.08 0.00 44.79 3.86
1533 4556 0.329261 CCTGAAGAAGATGCCCACCA 59.671 55.000 0.00 0.00 0.00 4.17
1636 4659 4.156455 TCTCATCAAGGGCCTTATTGAC 57.844 45.455 20.44 0.00 38.19 3.18
1656 4679 3.177228 ACACTCCTCTAGATGCCAAAGT 58.823 45.455 0.00 0.00 0.00 2.66
1890 4914 6.006449 GTGATCTGGGGCTATTTCATATTGT 58.994 40.000 0.00 0.00 0.00 2.71
2088 5112 5.395768 CCCTCCGAAAGATGTTCTACTTGAT 60.396 44.000 0.00 0.00 0.00 2.57
2094 5118 9.543018 CCGAAAGATGTTCTACTTGATTAAAAC 57.457 33.333 0.00 0.00 0.00 2.43
2191 5216 0.606130 TCGATGTGCATGTTGCCAGT 60.606 50.000 0.00 0.00 44.23 4.00
2261 5286 1.610673 GCTGTCAGGGAGGAGGTGA 60.611 63.158 1.14 0.00 0.00 4.02
2346 5371 9.474313 ACTTAATGAAATAAAGGACTTATGGCA 57.526 29.630 0.00 0.00 30.24 4.92
2368 5393 3.077359 GGTGGCACTTGCTATATCCATC 58.923 50.000 18.45 0.00 41.70 3.51
2451 5476 3.299340 TCGGAGAAAAGAGCAGTACAC 57.701 47.619 0.00 0.00 0.00 2.90
2462 5487 2.226912 GAGCAGTACACGAGAGTTGAGT 59.773 50.000 0.00 0.00 46.40 3.41
2500 5536 1.416401 GGTCTCAGTGAGGTGTGGAAA 59.584 52.381 19.99 0.00 0.00 3.13
2580 5617 3.624861 CCACTGATCGGAGAATGGAAAAG 59.375 47.826 9.00 0.00 43.58 2.27
2794 5846 9.478768 TCGTTCAGTGTACATTTCAAACTATTA 57.521 29.630 0.00 0.00 0.00 0.98
2834 5886 6.857964 CCTAAATATTTGTAATTGCTGCTCCG 59.142 38.462 11.05 0.00 0.00 4.63
2835 5887 5.835113 AATATTTGTAATTGCTGCTCCGT 57.165 34.783 0.00 0.00 0.00 4.69
2836 5888 6.935741 AATATTTGTAATTGCTGCTCCGTA 57.064 33.333 0.00 0.00 0.00 4.02
2837 5889 6.935741 ATATTTGTAATTGCTGCTCCGTAA 57.064 33.333 0.00 0.00 0.00 3.18
2838 5890 4.678509 TTTGTAATTGCTGCTCCGTAAG 57.321 40.909 0.00 0.00 0.00 2.34
2850 5902 2.584608 CGTAAGGTCCCCTGCTGG 59.415 66.667 1.89 1.89 32.13 4.85
2851 5903 2.291043 CGTAAGGTCCCCTGCTGGT 61.291 63.158 9.00 0.00 32.13 4.00
2852 5904 1.602771 GTAAGGTCCCCTGCTGGTC 59.397 63.158 9.00 0.00 32.13 4.02
2853 5905 1.615424 TAAGGTCCCCTGCTGGTCC 60.615 63.158 9.00 8.04 32.13 4.46
2864 5916 4.047125 CTGGTCCCCGTGGCCATT 62.047 66.667 9.72 0.00 37.25 3.16
2865 5917 4.358841 TGGTCCCCGTGGCCATTG 62.359 66.667 9.72 4.53 34.25 2.82
2867 5919 4.360405 GTCCCCGTGGCCATTGGT 62.360 66.667 21.65 0.00 0.00 3.67
2868 5920 4.041762 TCCCCGTGGCCATTGGTC 62.042 66.667 21.65 0.00 0.00 4.02
2869 5921 4.358841 CCCCGTGGCCATTGGTCA 62.359 66.667 21.65 5.72 33.55 4.02
2877 5929 2.364632 TGGCCATTGGTCACTATTTCG 58.635 47.619 5.72 0.00 29.54 3.46
2878 5930 2.026729 TGGCCATTGGTCACTATTTCGA 60.027 45.455 5.72 0.00 29.54 3.71
2879 5931 3.214328 GGCCATTGGTCACTATTTCGAT 58.786 45.455 1.41 0.00 0.00 3.59
2880 5932 4.141597 TGGCCATTGGTCACTATTTCGATA 60.142 41.667 5.72 0.00 29.54 2.92
2881 5933 4.819630 GGCCATTGGTCACTATTTCGATAA 59.180 41.667 1.41 0.00 0.00 1.75
2882 5934 5.049405 GGCCATTGGTCACTATTTCGATAAG 60.049 44.000 1.41 0.00 0.00 1.73
2883 5935 5.049405 GCCATTGGTCACTATTTCGATAAGG 60.049 44.000 4.26 0.00 0.00 2.69
2884 5936 5.049405 CCATTGGTCACTATTTCGATAAGGC 60.049 44.000 0.00 0.00 0.00 4.35
2885 5937 4.746535 TGGTCACTATTTCGATAAGGCA 57.253 40.909 0.00 0.00 0.00 4.75
2886 5938 5.092554 TGGTCACTATTTCGATAAGGCAA 57.907 39.130 0.00 0.00 0.00 4.52
2887 5939 5.116180 TGGTCACTATTTCGATAAGGCAAG 58.884 41.667 0.00 0.00 0.00 4.01
2888 5940 4.511826 GGTCACTATTTCGATAAGGCAAGG 59.488 45.833 0.00 0.00 0.00 3.61
2889 5941 5.357257 GTCACTATTTCGATAAGGCAAGGA 58.643 41.667 0.00 0.00 0.00 3.36
2890 5942 5.463724 GTCACTATTTCGATAAGGCAAGGAG 59.536 44.000 0.00 0.00 0.00 3.69
2891 5943 5.362717 TCACTATTTCGATAAGGCAAGGAGA 59.637 40.000 0.00 0.00 0.00 3.71
2892 5944 5.694006 CACTATTTCGATAAGGCAAGGAGAG 59.306 44.000 0.00 0.00 0.00 3.20
2893 5945 3.543680 TTTCGATAAGGCAAGGAGAGG 57.456 47.619 0.00 0.00 0.00 3.69
2894 5946 2.454336 TCGATAAGGCAAGGAGAGGA 57.546 50.000 0.00 0.00 0.00 3.71
2895 5947 2.747177 TCGATAAGGCAAGGAGAGGAA 58.253 47.619 0.00 0.00 0.00 3.36
2896 5948 2.431057 TCGATAAGGCAAGGAGAGGAAC 59.569 50.000 0.00 0.00 0.00 3.62
2897 5949 2.168521 CGATAAGGCAAGGAGAGGAACA 59.831 50.000 0.00 0.00 0.00 3.18
2898 5950 3.369471 CGATAAGGCAAGGAGAGGAACAA 60.369 47.826 0.00 0.00 0.00 2.83
2899 5951 2.575805 AAGGCAAGGAGAGGAACAAG 57.424 50.000 0.00 0.00 0.00 3.16
2900 5952 0.695347 AGGCAAGGAGAGGAACAAGG 59.305 55.000 0.00 0.00 0.00 3.61
2901 5953 0.962855 GGCAAGGAGAGGAACAAGGC 60.963 60.000 0.00 0.00 0.00 4.35
2902 5954 0.037447 GCAAGGAGAGGAACAAGGCT 59.963 55.000 0.00 0.00 0.00 4.58
2903 5955 1.948144 GCAAGGAGAGGAACAAGGCTC 60.948 57.143 0.00 0.00 0.00 4.70
2904 5956 0.610687 AAGGAGAGGAACAAGGCTCG 59.389 55.000 0.00 0.00 0.00 5.03
2905 5957 0.251832 AGGAGAGGAACAAGGCTCGA 60.252 55.000 0.00 0.00 0.00 4.04
2906 5958 0.108567 GGAGAGGAACAAGGCTCGAC 60.109 60.000 0.00 0.00 0.00 4.20
2907 5959 0.108567 GAGAGGAACAAGGCTCGACC 60.109 60.000 0.00 0.00 39.61 4.79
2908 5960 1.446272 GAGGAACAAGGCTCGACCG 60.446 63.158 0.00 0.00 46.52 4.79
2909 5961 2.434359 GGAACAAGGCTCGACCGG 60.434 66.667 0.00 0.00 46.52 5.28
2910 5962 3.119096 GAACAAGGCTCGACCGGC 61.119 66.667 0.00 0.00 46.52 6.13
2911 5963 3.876589 GAACAAGGCTCGACCGGCA 62.877 63.158 0.00 0.00 46.52 5.69
2912 5964 3.883744 AACAAGGCTCGACCGGCAG 62.884 63.158 0.00 0.00 46.52 4.85
2913 5965 4.069232 CAAGGCTCGACCGGCAGA 62.069 66.667 0.00 0.00 46.52 4.26
2914 5966 3.764466 AAGGCTCGACCGGCAGAG 61.764 66.667 19.14 19.14 46.52 3.35
2917 5969 4.200283 GCTCGACCGGCAGAGGAG 62.200 72.222 23.05 13.92 35.19 3.69
2918 5970 2.438614 CTCGACCGGCAGAGGAGA 60.439 66.667 16.52 0.00 34.73 3.71
2919 5971 2.750637 TCGACCGGCAGAGGAGAC 60.751 66.667 0.00 0.00 34.73 3.36
2920 5972 3.827898 CGACCGGCAGAGGAGACC 61.828 72.222 0.00 0.00 34.73 3.85
2921 5973 2.680352 GACCGGCAGAGGAGACCA 60.680 66.667 0.00 0.00 34.73 4.02
2922 5974 2.681778 ACCGGCAGAGGAGACCAG 60.682 66.667 0.00 0.00 34.73 4.00
2923 5975 3.465403 CCGGCAGAGGAGACCAGG 61.465 72.222 0.00 0.00 0.00 4.45
2924 5976 2.681778 CGGCAGAGGAGACCAGGT 60.682 66.667 0.00 0.00 0.00 4.00
2925 5977 2.985456 GGCAGAGGAGACCAGGTG 59.015 66.667 0.00 0.00 0.00 4.00
2926 5978 1.610673 GGCAGAGGAGACCAGGTGA 60.611 63.158 0.00 0.00 0.00 4.02
2927 5979 1.194781 GGCAGAGGAGACCAGGTGAA 61.195 60.000 0.00 0.00 0.00 3.18
2928 5980 0.687354 GCAGAGGAGACCAGGTGAAA 59.313 55.000 0.00 0.00 0.00 2.69
2929 5981 1.338579 GCAGAGGAGACCAGGTGAAAG 60.339 57.143 0.00 0.00 0.00 2.62
2930 5982 0.980423 AGAGGAGACCAGGTGAAAGC 59.020 55.000 0.00 0.00 0.00 3.51
2931 5983 0.687354 GAGGAGACCAGGTGAAAGCA 59.313 55.000 0.00 0.00 36.26 3.91
2932 5984 1.072331 GAGGAGACCAGGTGAAAGCAA 59.928 52.381 0.00 0.00 36.26 3.91
2933 5985 1.494721 AGGAGACCAGGTGAAAGCAAA 59.505 47.619 0.00 0.00 36.26 3.68
2934 5986 2.091885 AGGAGACCAGGTGAAAGCAAAA 60.092 45.455 0.00 0.00 36.26 2.44
2935 5987 2.034685 GGAGACCAGGTGAAAGCAAAAC 59.965 50.000 0.00 0.00 36.26 2.43
2936 5988 2.687935 GAGACCAGGTGAAAGCAAAACA 59.312 45.455 0.00 0.00 36.26 2.83
2937 5989 3.299503 AGACCAGGTGAAAGCAAAACAT 58.700 40.909 0.00 0.00 36.26 2.71
2938 5990 4.469657 AGACCAGGTGAAAGCAAAACATA 58.530 39.130 0.00 0.00 36.26 2.29
2939 5991 5.079643 AGACCAGGTGAAAGCAAAACATAT 58.920 37.500 0.00 0.00 36.26 1.78
2940 5992 5.047802 AGACCAGGTGAAAGCAAAACATATG 60.048 40.000 0.00 0.00 36.26 1.78
2941 5993 4.832266 ACCAGGTGAAAGCAAAACATATGA 59.168 37.500 10.38 0.00 36.26 2.15
2968 6020 2.305607 TGGATTTCCTGGTCCCGGG 61.306 63.158 16.85 16.85 43.69 5.73
2999 6051 1.535833 CCGCTATCTAGTCCGTCCAT 58.464 55.000 0.00 0.00 0.00 3.41
3038 6090 3.460672 ATATGTGCCCCGGACAGCG 62.461 63.158 0.73 0.00 0.00 5.18
3043 6095 4.699522 GCCCCGGACAGCGAAAGT 62.700 66.667 0.73 0.00 0.00 2.66
3127 6179 1.002403 TGGGCCTATTCGGTCAGGA 59.998 57.895 4.53 0.00 39.98 3.86
3173 6225 1.153745 CCAGTCGCTGTCTACAGGC 60.154 63.158 11.86 3.85 43.94 4.85
3191 6243 3.986006 GTGCCGACCCGTGACTCA 61.986 66.667 0.00 0.00 0.00 3.41
3193 6245 3.986006 GCCGACCCGTGACTCACA 61.986 66.667 9.84 0.00 33.40 3.58
3216 6268 5.957910 ACTTGAAATCGAATCTAGAAGCG 57.042 39.130 16.00 10.37 0.00 4.68
3219 6271 5.250235 TGAAATCGAATCTAGAAGCGTCT 57.750 39.130 7.47 7.47 37.95 4.18
3343 6395 0.523966 CTCCTCCTCTCGACACACAC 59.476 60.000 0.00 0.00 0.00 3.82
3352 6404 2.626266 TCTCGACACACACCATAACAGT 59.374 45.455 0.00 0.00 0.00 3.55
3360 6412 2.094258 CACACCATAACAGTGACGATGC 59.906 50.000 0.00 0.00 38.63 3.91
3536 6588 1.988834 CTCACCCGCGCCCAATTTAC 61.989 60.000 0.00 0.00 0.00 2.01
3541 6593 1.427819 CGCGCCCAATTTACTGACC 59.572 57.895 0.00 0.00 0.00 4.02
3587 6639 4.803426 GAGGAGCGCTCGTGGTGG 62.803 72.222 34.90 0.00 0.00 4.61
3589 6641 4.148825 GGAGCGCTCGTGGTGGAT 62.149 66.667 29.81 0.00 0.00 3.41
3590 6642 2.887568 GAGCGCTCGTGGTGGATG 60.888 66.667 23.61 0.00 0.00 3.51
3591 6643 3.356639 GAGCGCTCGTGGTGGATGA 62.357 63.158 23.61 0.00 0.00 2.92
3592 6644 2.434185 GCGCTCGTGGTGGATGAA 60.434 61.111 0.00 0.00 0.00 2.57
3593 6645 2.740714 GCGCTCGTGGTGGATGAAC 61.741 63.158 0.00 0.00 0.00 3.18
3594 6646 2.444624 CGCTCGTGGTGGATGAACG 61.445 63.158 0.00 0.00 38.64 3.95
3595 6647 2.740714 GCTCGTGGTGGATGAACGC 61.741 63.158 0.00 0.00 37.24 4.84
3596 6648 2.431771 TCGTGGTGGATGAACGCG 60.432 61.111 3.53 3.53 37.24 6.01
3597 6649 3.487202 CGTGGTGGATGAACGCGG 61.487 66.667 12.47 0.00 0.00 6.46
3598 6650 3.124921 GTGGTGGATGAACGCGGG 61.125 66.667 12.47 0.00 0.00 6.13
3600 6652 4.778143 GGTGGATGAACGCGGGCT 62.778 66.667 12.47 0.00 0.00 5.19
3601 6653 3.195698 GTGGATGAACGCGGGCTC 61.196 66.667 12.47 4.44 0.00 4.70
3602 6654 3.700970 TGGATGAACGCGGGCTCA 61.701 61.111 12.47 8.09 0.00 4.26
3603 6655 3.195698 GGATGAACGCGGGCTCAC 61.196 66.667 12.47 2.84 0.00 3.51
3604 6656 2.125512 GATGAACGCGGGCTCACT 60.126 61.111 12.47 0.00 0.00 3.41
3605 6657 2.434884 ATGAACGCGGGCTCACTG 60.435 61.111 12.47 0.00 0.00 3.66
3606 6658 2.835701 GATGAACGCGGGCTCACTGA 62.836 60.000 12.47 0.00 0.00 3.41
3607 6659 2.125512 GAACGCGGGCTCACTGAT 60.126 61.111 12.47 0.00 0.00 2.90
3608 6660 2.434884 AACGCGGGCTCACTGATG 60.435 61.111 12.47 0.00 0.00 3.07
3609 6661 3.240134 AACGCGGGCTCACTGATGT 62.240 57.895 12.47 0.00 0.00 3.06
3610 6662 1.884075 AACGCGGGCTCACTGATGTA 61.884 55.000 12.47 0.00 0.00 2.29
3611 6663 1.878522 CGCGGGCTCACTGATGTAC 60.879 63.158 0.00 0.00 0.00 2.90
3612 6664 1.218047 GCGGGCTCACTGATGTACA 59.782 57.895 0.00 0.00 0.00 2.90
3623 6675 2.534298 CTGATGTACAGGCAGAAGACG 58.466 52.381 18.75 0.00 42.39 4.18
3624 6676 1.281899 GATGTACAGGCAGAAGACGC 58.718 55.000 0.33 0.00 0.00 5.19
3625 6677 0.608130 ATGTACAGGCAGAAGACGCA 59.392 50.000 0.33 0.00 0.00 5.24
3626 6678 0.038251 TGTACAGGCAGAAGACGCAG 60.038 55.000 0.00 0.00 0.00 5.18
3627 6679 1.079819 TACAGGCAGAAGACGCAGC 60.080 57.895 0.00 0.00 0.00 5.25
3628 6680 1.815817 TACAGGCAGAAGACGCAGCA 61.816 55.000 0.00 0.00 0.00 4.41
3629 6681 2.358003 AGGCAGAAGACGCAGCAC 60.358 61.111 0.00 0.00 0.00 4.40
3630 6682 2.666190 GGCAGAAGACGCAGCACA 60.666 61.111 0.00 0.00 0.00 4.57
3631 6683 2.253758 GGCAGAAGACGCAGCACAA 61.254 57.895 0.00 0.00 0.00 3.33
3632 6684 1.206072 GCAGAAGACGCAGCACAAG 59.794 57.895 0.00 0.00 0.00 3.16
3633 6685 1.502163 GCAGAAGACGCAGCACAAGT 61.502 55.000 0.00 0.00 0.00 3.16
3634 6686 0.234106 CAGAAGACGCAGCACAAGTG 59.766 55.000 0.00 0.00 0.00 3.16
3647 6699 3.263489 CACAAGTGCATCCAGAGATCT 57.737 47.619 0.00 0.00 0.00 2.75
3648 6700 2.937149 CACAAGTGCATCCAGAGATCTG 59.063 50.000 0.00 2.72 43.40 2.90
3649 6701 1.941294 CAAGTGCATCCAGAGATCTGC 59.059 52.381 0.00 0.00 42.47 4.26
3650 6702 0.469070 AGTGCATCCAGAGATCTGCC 59.531 55.000 0.00 0.00 42.47 4.85
3651 6703 0.179702 GTGCATCCAGAGATCTGCCA 59.820 55.000 0.00 0.00 42.47 4.92
3652 6704 1.137697 TGCATCCAGAGATCTGCCAT 58.862 50.000 0.00 0.00 42.47 4.40
3653 6705 2.038164 GTGCATCCAGAGATCTGCCATA 59.962 50.000 0.00 0.00 42.47 2.74
3654 6706 2.038164 TGCATCCAGAGATCTGCCATAC 59.962 50.000 0.00 0.00 42.47 2.39
3655 6707 2.614987 GCATCCAGAGATCTGCCATACC 60.615 54.545 0.00 0.00 42.47 2.73
3656 6708 1.722034 TCCAGAGATCTGCCATACCC 58.278 55.000 0.00 0.00 42.47 3.69
3657 6709 0.689623 CCAGAGATCTGCCATACCCC 59.310 60.000 0.00 0.00 42.47 4.95
3658 6710 0.319728 CAGAGATCTGCCATACCCCG 59.680 60.000 0.00 0.00 37.15 5.73
3659 6711 0.188587 AGAGATCTGCCATACCCCGA 59.811 55.000 0.00 0.00 0.00 5.14
3660 6712 1.048601 GAGATCTGCCATACCCCGAA 58.951 55.000 0.00 0.00 0.00 4.30
3661 6713 1.625818 GAGATCTGCCATACCCCGAAT 59.374 52.381 0.00 0.00 0.00 3.34
3662 6714 1.625818 AGATCTGCCATACCCCGAATC 59.374 52.381 0.00 0.00 0.00 2.52
3663 6715 0.693049 ATCTGCCATACCCCGAATCC 59.307 55.000 0.00 0.00 0.00 3.01
3664 6716 0.692756 TCTGCCATACCCCGAATCCA 60.693 55.000 0.00 0.00 0.00 3.41
3665 6717 0.250467 CTGCCATACCCCGAATCCAG 60.250 60.000 0.00 0.00 0.00 3.86
3666 6718 1.073199 GCCATACCCCGAATCCAGG 59.927 63.158 0.00 0.00 0.00 4.45
3667 6719 1.415672 GCCATACCCCGAATCCAGGA 61.416 60.000 0.00 0.00 0.00 3.86
3668 6720 0.687354 CCATACCCCGAATCCAGGAG 59.313 60.000 0.00 0.00 0.00 3.69
3669 6721 0.687354 CATACCCCGAATCCAGGAGG 59.313 60.000 0.00 0.00 0.00 4.30
3670 6722 0.473886 ATACCCCGAATCCAGGAGGG 60.474 60.000 9.62 9.62 43.88 4.30
3671 6723 2.366972 CCCCGAATCCAGGAGGGT 60.367 66.667 10.76 0.00 42.26 4.34
3672 6724 2.746375 CCCCGAATCCAGGAGGGTG 61.746 68.421 10.76 0.29 42.26 4.61
3673 6725 2.746375 CCCGAATCCAGGAGGGTGG 61.746 68.421 4.27 0.00 39.05 4.61
3678 6730 3.478780 TCCAGGAGGGTGGAAACG 58.521 61.111 0.00 0.00 44.01 3.60
3679 6731 2.359975 CCAGGAGGGTGGAAACGC 60.360 66.667 0.00 0.00 40.44 4.84
3680 6732 2.429930 CAGGAGGGTGGAAACGCA 59.570 61.111 0.00 0.00 44.70 5.24
3681 6733 1.672356 CAGGAGGGTGGAAACGCAG 60.672 63.158 0.00 0.00 44.70 5.18
3682 6734 2.359975 GGAGGGTGGAAACGCAGG 60.360 66.667 0.00 0.00 44.70 4.85
3683 6735 2.430367 GAGGGTGGAAACGCAGGT 59.570 61.111 0.00 0.00 44.70 4.00
3684 6736 1.966451 GAGGGTGGAAACGCAGGTG 60.966 63.158 0.00 0.00 44.70 4.00
3685 6737 2.112297 GGGTGGAAACGCAGGTGA 59.888 61.111 0.00 0.00 44.70 4.02
3686 6738 1.966451 GGGTGGAAACGCAGGTGAG 60.966 63.158 0.00 0.00 44.70 3.51
3687 6739 1.070786 GGTGGAAACGCAGGTGAGA 59.929 57.895 0.00 0.00 44.70 3.27
3688 6740 1.228657 GGTGGAAACGCAGGTGAGAC 61.229 60.000 0.00 0.00 44.70 3.36
3689 6741 1.070786 TGGAAACGCAGGTGAGACC 59.929 57.895 0.00 0.00 38.99 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
41 42 1.362406 GCGCCTGCAAGTAGGAGAAC 61.362 60.000 11.72 0.00 39.69 3.01
73 74 4.791069 GGGTCGGGGTAGAGGGCA 62.791 72.222 0.00 0.00 0.00 5.36
168 169 2.029918 CGATGAGCTCCATCCGAATACA 60.030 50.000 12.15 0.00 46.98 2.29
214 215 2.959030 AGATGGCGAGCAGTAATCAGTA 59.041 45.455 0.00 0.00 0.00 2.74
725 2485 1.623311 TGGAGCGAGTTTGATCTGGAA 59.377 47.619 0.00 0.00 0.00 3.53
968 3889 0.744414 CGCACGGAATTGAGATGGGT 60.744 55.000 0.00 0.00 0.00 4.51
977 3898 1.601914 GCAAAAACCTCGCACGGAATT 60.602 47.619 0.00 0.00 0.00 2.17
1207 4132 6.157123 AGCTTTAGGTAGGCATCTACTTTCTT 59.843 38.462 3.95 0.00 43.97 2.52
1636 4659 3.902881 ACTTTGGCATCTAGAGGAGTG 57.097 47.619 8.95 0.00 0.00 3.51
1890 4914 6.072783 GCTGCAATTTTTGGGTAAAGCAAATA 60.073 34.615 0.00 0.00 0.00 1.40
1900 4924 0.686789 GAGGGCTGCAATTTTTGGGT 59.313 50.000 0.50 0.00 0.00 4.51
2063 5087 3.709587 AGTAGAACATCTTTCGGAGGGA 58.290 45.455 0.00 0.00 0.00 4.20
2088 5112 7.931407 TGACAGCACTCTTCTTAGATGTTTTAA 59.069 33.333 0.00 0.00 0.00 1.52
2191 5216 3.753272 GCACTAGATCAGCAAACTTTCCA 59.247 43.478 0.00 0.00 0.00 3.53
2292 5317 2.942376 CCTGCATAAACACGCTTCCATA 59.058 45.455 0.00 0.00 0.00 2.74
2346 5371 2.126882 TGGATATAGCAAGTGCCACCT 58.873 47.619 0.00 0.00 43.38 4.00
2368 5393 8.440833 GCATTTTCAATTTCTGGAGAAAAGATG 58.559 33.333 5.94 6.34 45.81 2.90
2384 5409 4.917474 GCCGCCAGCATTTTCAAT 57.083 50.000 0.00 0.00 42.97 2.57
2437 5462 4.051922 CAACTCTCGTGTACTGCTCTTTT 58.948 43.478 0.00 0.00 0.00 2.27
2462 5487 6.322456 CTGAGACCTAGATCAGTTATGGAACA 59.678 42.308 9.98 0.00 39.85 3.18
2500 5536 1.176527 CATTGACCAACGGCTCCAAT 58.823 50.000 0.00 0.00 0.00 3.16
2580 5617 2.331451 GCCACTTGAACACACGCC 59.669 61.111 0.00 0.00 0.00 5.68
2850 5902 4.360405 ACCAATGGCCACGGGGAC 62.360 66.667 24.36 4.32 45.44 4.46
2851 5903 4.041762 GACCAATGGCCACGGGGA 62.042 66.667 24.36 0.00 35.59 4.81
2852 5904 4.358841 TGACCAATGGCCACGGGG 62.359 66.667 24.36 20.16 37.18 5.73
2853 5905 2.191786 TAGTGACCAATGGCCACGGG 62.192 60.000 23.66 22.04 36.06 5.28
2854 5906 0.107214 ATAGTGACCAATGGCCACGG 60.107 55.000 19.45 19.45 36.06 4.94
2855 5907 1.750193 AATAGTGACCAATGGCCACG 58.250 50.000 8.16 1.14 36.06 4.94
2856 5908 2.097466 CGAAATAGTGACCAATGGCCAC 59.903 50.000 8.16 10.90 0.00 5.01
2857 5909 2.026729 TCGAAATAGTGACCAATGGCCA 60.027 45.455 8.56 8.56 0.00 5.36
2858 5910 2.639065 TCGAAATAGTGACCAATGGCC 58.361 47.619 0.00 0.00 0.00 5.36
2859 5911 5.049405 CCTTATCGAAATAGTGACCAATGGC 60.049 44.000 0.00 0.00 0.00 4.40
2860 5912 5.049405 GCCTTATCGAAATAGTGACCAATGG 60.049 44.000 0.00 0.00 0.00 3.16
2861 5913 5.527214 TGCCTTATCGAAATAGTGACCAATG 59.473 40.000 0.00 0.00 0.00 2.82
2862 5914 5.680619 TGCCTTATCGAAATAGTGACCAAT 58.319 37.500 0.00 0.00 0.00 3.16
2863 5915 5.092554 TGCCTTATCGAAATAGTGACCAA 57.907 39.130 0.00 0.00 0.00 3.67
2864 5916 4.746535 TGCCTTATCGAAATAGTGACCA 57.253 40.909 0.00 0.00 0.00 4.02
2865 5917 4.511826 CCTTGCCTTATCGAAATAGTGACC 59.488 45.833 0.00 0.00 0.00 4.02
2866 5918 5.357257 TCCTTGCCTTATCGAAATAGTGAC 58.643 41.667 0.00 0.00 0.00 3.67
2867 5919 5.362717 TCTCCTTGCCTTATCGAAATAGTGA 59.637 40.000 0.00 0.00 0.00 3.41
2868 5920 5.601662 TCTCCTTGCCTTATCGAAATAGTG 58.398 41.667 0.00 0.00 0.00 2.74
2869 5921 5.221541 CCTCTCCTTGCCTTATCGAAATAGT 60.222 44.000 0.00 0.00 0.00 2.12
2870 5922 5.011125 TCCTCTCCTTGCCTTATCGAAATAG 59.989 44.000 0.00 0.00 0.00 1.73
2871 5923 4.899457 TCCTCTCCTTGCCTTATCGAAATA 59.101 41.667 0.00 0.00 0.00 1.40
2872 5924 3.711704 TCCTCTCCTTGCCTTATCGAAAT 59.288 43.478 0.00 0.00 0.00 2.17
2873 5925 3.104512 TCCTCTCCTTGCCTTATCGAAA 58.895 45.455 0.00 0.00 0.00 3.46
2874 5926 2.747177 TCCTCTCCTTGCCTTATCGAA 58.253 47.619 0.00 0.00 0.00 3.71
2875 5927 2.431057 GTTCCTCTCCTTGCCTTATCGA 59.569 50.000 0.00 0.00 0.00 3.59
2876 5928 2.168521 TGTTCCTCTCCTTGCCTTATCG 59.831 50.000 0.00 0.00 0.00 2.92
2877 5929 3.914426 TGTTCCTCTCCTTGCCTTATC 57.086 47.619 0.00 0.00 0.00 1.75
2878 5930 3.054065 CCTTGTTCCTCTCCTTGCCTTAT 60.054 47.826 0.00 0.00 0.00 1.73
2879 5931 2.305927 CCTTGTTCCTCTCCTTGCCTTA 59.694 50.000 0.00 0.00 0.00 2.69
2880 5932 1.074566 CCTTGTTCCTCTCCTTGCCTT 59.925 52.381 0.00 0.00 0.00 4.35
2881 5933 0.695347 CCTTGTTCCTCTCCTTGCCT 59.305 55.000 0.00 0.00 0.00 4.75
2882 5934 0.962855 GCCTTGTTCCTCTCCTTGCC 60.963 60.000 0.00 0.00 0.00 4.52
2883 5935 0.037447 AGCCTTGTTCCTCTCCTTGC 59.963 55.000 0.00 0.00 0.00 4.01
2884 5936 1.674221 CGAGCCTTGTTCCTCTCCTTG 60.674 57.143 0.00 0.00 0.00 3.61
2885 5937 0.610687 CGAGCCTTGTTCCTCTCCTT 59.389 55.000 0.00 0.00 0.00 3.36
2886 5938 0.251832 TCGAGCCTTGTTCCTCTCCT 60.252 55.000 0.00 0.00 0.00 3.69
2887 5939 0.108567 GTCGAGCCTTGTTCCTCTCC 60.109 60.000 0.00 0.00 0.00 3.71
2888 5940 0.108567 GGTCGAGCCTTGTTCCTCTC 60.109 60.000 2.39 0.00 0.00 3.20
2889 5941 1.878656 CGGTCGAGCCTTGTTCCTCT 61.879 60.000 9.39 0.00 34.25 3.69
2890 5942 1.446272 CGGTCGAGCCTTGTTCCTC 60.446 63.158 9.39 0.00 34.25 3.71
2891 5943 2.657237 CGGTCGAGCCTTGTTCCT 59.343 61.111 9.39 0.00 34.25 3.36
2892 5944 2.434359 CCGGTCGAGCCTTGTTCC 60.434 66.667 9.39 0.00 34.25 3.62
2893 5945 3.119096 GCCGGTCGAGCCTTGTTC 61.119 66.667 9.39 0.00 34.25 3.18
2894 5946 3.883744 CTGCCGGTCGAGCCTTGTT 62.884 63.158 9.39 0.00 34.25 2.83
2895 5947 4.379243 CTGCCGGTCGAGCCTTGT 62.379 66.667 9.39 0.00 34.25 3.16
2896 5948 3.997064 CTCTGCCGGTCGAGCCTTG 62.997 68.421 9.39 0.00 34.25 3.61
2897 5949 3.764466 CTCTGCCGGTCGAGCCTT 61.764 66.667 9.39 0.00 34.25 4.35
2900 5952 4.200283 CTCCTCTGCCGGTCGAGC 62.200 72.222 14.40 4.06 0.00 5.03
2901 5953 2.438614 TCTCCTCTGCCGGTCGAG 60.439 66.667 1.90 9.26 0.00 4.04
2902 5954 2.750637 GTCTCCTCTGCCGGTCGA 60.751 66.667 1.90 0.00 0.00 4.20
2903 5955 3.827898 GGTCTCCTCTGCCGGTCG 61.828 72.222 1.90 0.00 0.00 4.79
2904 5956 2.680352 TGGTCTCCTCTGCCGGTC 60.680 66.667 1.90 0.00 0.00 4.79
2905 5957 2.681778 CTGGTCTCCTCTGCCGGT 60.682 66.667 1.90 0.00 0.00 5.28
2906 5958 3.465403 CCTGGTCTCCTCTGCCGG 61.465 72.222 0.00 0.00 0.00 6.13
2907 5959 2.681778 ACCTGGTCTCCTCTGCCG 60.682 66.667 0.00 0.00 0.00 5.69
2908 5960 1.194781 TTCACCTGGTCTCCTCTGCC 61.195 60.000 0.00 0.00 0.00 4.85
2909 5961 0.687354 TTTCACCTGGTCTCCTCTGC 59.313 55.000 0.00 0.00 0.00 4.26
2910 5962 1.338579 GCTTTCACCTGGTCTCCTCTG 60.339 57.143 0.00 0.00 0.00 3.35
2911 5963 0.980423 GCTTTCACCTGGTCTCCTCT 59.020 55.000 0.00 0.00 0.00 3.69
2912 5964 0.687354 TGCTTTCACCTGGTCTCCTC 59.313 55.000 0.00 0.00 0.00 3.71
2913 5965 1.140312 TTGCTTTCACCTGGTCTCCT 58.860 50.000 0.00 0.00 0.00 3.69
2914 5966 1.981256 TTTGCTTTCACCTGGTCTCC 58.019 50.000 0.00 0.00 0.00 3.71
2915 5967 2.687935 TGTTTTGCTTTCACCTGGTCTC 59.312 45.455 0.00 0.00 0.00 3.36
2916 5968 2.733956 TGTTTTGCTTTCACCTGGTCT 58.266 42.857 0.00 0.00 0.00 3.85
2917 5969 3.733443 ATGTTTTGCTTTCACCTGGTC 57.267 42.857 0.00 0.00 0.00 4.02
2918 5970 4.832266 TCATATGTTTTGCTTTCACCTGGT 59.168 37.500 1.90 0.00 0.00 4.00
2919 5971 5.389859 TCATATGTTTTGCTTTCACCTGG 57.610 39.130 1.90 0.00 0.00 4.45
2920 5972 7.652909 TCTTTTCATATGTTTTGCTTTCACCTG 59.347 33.333 1.90 0.00 0.00 4.00
2921 5973 7.725251 TCTTTTCATATGTTTTGCTTTCACCT 58.275 30.769 1.90 0.00 0.00 4.00
2922 5974 7.867403 TCTCTTTTCATATGTTTTGCTTTCACC 59.133 33.333 1.90 0.00 0.00 4.02
2923 5975 8.801715 TCTCTTTTCATATGTTTTGCTTTCAC 57.198 30.769 1.90 0.00 0.00 3.18
2924 5976 8.632679 ACTCTCTTTTCATATGTTTTGCTTTCA 58.367 29.630 1.90 0.00 0.00 2.69
2925 5977 8.909671 CACTCTCTTTTCATATGTTTTGCTTTC 58.090 33.333 1.90 0.00 0.00 2.62
2926 5978 7.869429 CCACTCTCTTTTCATATGTTTTGCTTT 59.131 33.333 1.90 0.00 0.00 3.51
2927 5979 7.231317 TCCACTCTCTTTTCATATGTTTTGCTT 59.769 33.333 1.90 0.00 0.00 3.91
2928 5980 6.716628 TCCACTCTCTTTTCATATGTTTTGCT 59.283 34.615 1.90 0.00 0.00 3.91
2929 5981 6.913170 TCCACTCTCTTTTCATATGTTTTGC 58.087 36.000 1.90 0.00 0.00 3.68
2930 5982 9.918630 AAATCCACTCTCTTTTCATATGTTTTG 57.081 29.630 1.90 0.00 0.00 2.44
2932 5984 8.743714 GGAAATCCACTCTCTTTTCATATGTTT 58.256 33.333 1.90 0.00 35.64 2.83
2933 5985 8.112183 AGGAAATCCACTCTCTTTTCATATGTT 58.888 33.333 1.90 0.00 38.89 2.71
2934 5986 7.555554 CAGGAAATCCACTCTCTTTTCATATGT 59.444 37.037 1.90 0.00 38.89 2.29
2935 5987 7.013083 CCAGGAAATCCACTCTCTTTTCATATG 59.987 40.741 1.67 0.00 38.89 1.78
2936 5988 7.059156 CCAGGAAATCCACTCTCTTTTCATAT 58.941 38.462 1.67 0.00 38.89 1.78
2937 5989 6.012508 ACCAGGAAATCCACTCTCTTTTCATA 60.013 38.462 1.67 0.00 38.89 2.15
2938 5990 5.222213 ACCAGGAAATCCACTCTCTTTTCAT 60.222 40.000 1.67 0.00 38.89 2.57
2939 5991 4.104738 ACCAGGAAATCCACTCTCTTTTCA 59.895 41.667 1.67 0.00 38.89 2.69
2940 5992 4.657013 ACCAGGAAATCCACTCTCTTTTC 58.343 43.478 1.67 0.00 38.89 2.29
2941 5993 4.507512 GGACCAGGAAATCCACTCTCTTTT 60.508 45.833 1.67 0.00 38.89 2.27
2968 6020 0.529992 GATAGCGGGGTGTACAGCAC 60.530 60.000 25.23 21.58 46.97 4.40
2999 6051 3.680490 TCCCATCGTAGCACATTTGAAA 58.320 40.909 0.00 0.00 0.00 2.69
3038 6090 3.367395 GGCCTGCTAATCCAAACACTTTC 60.367 47.826 0.00 0.00 0.00 2.62
3043 6095 3.053693 ACATAGGCCTGCTAATCCAAACA 60.054 43.478 17.99 0.00 0.00 2.83
3127 6179 0.389948 GTGTCCGCCGAATCTTGTCT 60.390 55.000 0.00 0.00 0.00 3.41
3191 6243 6.183360 CGCTTCTAGATTCGATTTCAAGTTGT 60.183 38.462 2.11 0.00 0.00 3.32
3193 6245 5.869888 ACGCTTCTAGATTCGATTTCAAGTT 59.130 36.000 17.50 0.00 0.00 2.66
3216 6268 1.096416 AGGATGAAGACGACCGAGAC 58.904 55.000 0.00 0.00 0.00 3.36
3219 6271 0.815734 GGAAGGATGAAGACGACCGA 59.184 55.000 0.00 0.00 0.00 4.69
3343 6395 2.022764 TGGCATCGTCACTGTTATGG 57.977 50.000 0.00 0.00 0.00 2.74
3352 6404 2.597455 TCTAGATCCATGGCATCGTCA 58.403 47.619 6.96 2.34 0.00 4.35
3360 6412 2.905085 ACTCCAGCATCTAGATCCATGG 59.095 50.000 16.40 16.40 0.00 3.66
3536 6588 1.485838 GATCTGATGCGTGCGGTCAG 61.486 60.000 16.39 16.39 40.48 3.51
3541 6593 0.575859 CTTCAGATCTGATGCGTGCG 59.424 55.000 25.64 5.56 39.64 5.34
3587 6639 2.125512 AGTGAGCCCGCGTTCATC 60.126 61.111 4.92 0.00 31.34 2.92
3588 6640 2.244117 ATCAGTGAGCCCGCGTTCAT 62.244 55.000 4.92 0.00 31.34 2.57
3589 6641 2.942796 ATCAGTGAGCCCGCGTTCA 61.943 57.895 4.92 2.96 0.00 3.18
3590 6642 2.125512 ATCAGTGAGCCCGCGTTC 60.126 61.111 4.92 0.00 0.00 3.95
3591 6643 1.884075 TACATCAGTGAGCCCGCGTT 61.884 55.000 4.92 0.00 0.00 4.84
3592 6644 2.348104 TACATCAGTGAGCCCGCGT 61.348 57.895 4.92 0.00 0.00 6.01
3593 6645 1.878522 GTACATCAGTGAGCCCGCG 60.879 63.158 0.00 0.00 0.00 6.46
3594 6646 0.807667 CTGTACATCAGTGAGCCCGC 60.808 60.000 0.00 0.00 39.17 6.13
3595 6647 0.179100 CCTGTACATCAGTGAGCCCG 60.179 60.000 0.00 0.00 42.19 6.13
3596 6648 0.462759 GCCTGTACATCAGTGAGCCC 60.463 60.000 0.00 0.00 42.19 5.19
3597 6649 0.250234 TGCCTGTACATCAGTGAGCC 59.750 55.000 0.00 0.00 42.19 4.70
3598 6650 1.205655 TCTGCCTGTACATCAGTGAGC 59.794 52.381 18.83 0.00 42.19 4.26
3599 6651 3.194329 TCTTCTGCCTGTACATCAGTGAG 59.806 47.826 18.83 17.27 42.19 3.51
3600 6652 3.056536 GTCTTCTGCCTGTACATCAGTGA 60.057 47.826 18.83 15.92 42.19 3.41
3601 6653 3.257393 GTCTTCTGCCTGTACATCAGTG 58.743 50.000 18.83 14.57 42.19 3.66
3602 6654 2.094494 CGTCTTCTGCCTGTACATCAGT 60.094 50.000 18.83 0.00 42.19 3.41
3603 6655 2.534298 CGTCTTCTGCCTGTACATCAG 58.466 52.381 15.37 15.37 43.27 2.90
3604 6656 1.404181 GCGTCTTCTGCCTGTACATCA 60.404 52.381 0.00 0.00 0.00 3.07
3605 6657 1.281899 GCGTCTTCTGCCTGTACATC 58.718 55.000 0.00 0.00 0.00 3.06
3606 6658 0.608130 TGCGTCTTCTGCCTGTACAT 59.392 50.000 0.00 0.00 0.00 2.29
3607 6659 0.038251 CTGCGTCTTCTGCCTGTACA 60.038 55.000 0.00 0.00 0.00 2.90
3608 6660 1.355066 GCTGCGTCTTCTGCCTGTAC 61.355 60.000 0.00 0.00 0.00 2.90
3609 6661 1.079819 GCTGCGTCTTCTGCCTGTA 60.080 57.895 0.00 0.00 0.00 2.74
3610 6662 2.358003 GCTGCGTCTTCTGCCTGT 60.358 61.111 0.00 0.00 0.00 4.00
3611 6663 2.357881 TGCTGCGTCTTCTGCCTG 60.358 61.111 0.00 0.00 0.00 4.85
3612 6664 2.358003 GTGCTGCGTCTTCTGCCT 60.358 61.111 0.00 0.00 0.00 4.75
3613 6665 2.180131 CTTGTGCTGCGTCTTCTGCC 62.180 60.000 0.00 0.00 0.00 4.85
3614 6666 1.206072 CTTGTGCTGCGTCTTCTGC 59.794 57.895 0.00 0.00 0.00 4.26
3615 6667 0.234106 CACTTGTGCTGCGTCTTCTG 59.766 55.000 0.00 0.00 0.00 3.02
3616 6668 1.502163 GCACTTGTGCTGCGTCTTCT 61.502 55.000 17.36 0.00 0.00 2.85
3617 6669 1.082496 GCACTTGTGCTGCGTCTTC 60.082 57.895 17.36 0.00 0.00 2.87
3618 6670 1.168407 ATGCACTTGTGCTGCGTCTT 61.168 50.000 23.53 1.20 37.46 3.01
3619 6671 1.572085 GATGCACTTGTGCTGCGTCT 61.572 55.000 23.53 4.75 44.20 4.18
3620 6672 1.154338 GATGCACTTGTGCTGCGTC 60.154 57.895 23.53 13.62 42.03 5.19
3621 6673 2.620112 GGATGCACTTGTGCTGCGT 61.620 57.895 23.53 9.51 37.46 5.24
3622 6674 2.177531 GGATGCACTTGTGCTGCG 59.822 61.111 23.53 0.00 37.46 5.18
3623 6675 1.211969 CTGGATGCACTTGTGCTGC 59.788 57.895 23.53 15.70 35.49 5.25
3624 6676 0.803117 CTCTGGATGCACTTGTGCTG 59.197 55.000 23.53 10.63 35.49 4.41
3625 6677 0.689055 TCTCTGGATGCACTTGTGCT 59.311 50.000 23.53 11.30 35.49 4.40
3626 6678 1.669779 GATCTCTGGATGCACTTGTGC 59.330 52.381 17.73 17.73 31.46 4.57
3627 6679 2.937149 CAGATCTCTGGATGCACTTGTG 59.063 50.000 0.00 0.00 40.20 3.33
3628 6680 2.680221 GCAGATCTCTGGATGCACTTGT 60.680 50.000 9.15 0.00 43.94 3.16
3629 6681 1.941294 GCAGATCTCTGGATGCACTTG 59.059 52.381 9.15 0.00 43.94 3.16
3630 6682 1.134159 GGCAGATCTCTGGATGCACTT 60.134 52.381 9.15 0.00 43.94 3.16
3631 6683 0.469070 GGCAGATCTCTGGATGCACT 59.531 55.000 9.15 0.00 43.94 4.40
3632 6684 0.179702 TGGCAGATCTCTGGATGCAC 59.820 55.000 9.15 0.00 43.94 4.57
3633 6685 1.137697 ATGGCAGATCTCTGGATGCA 58.862 50.000 9.15 0.00 43.94 3.96
3634 6686 2.614987 GGTATGGCAGATCTCTGGATGC 60.615 54.545 9.15 0.00 43.94 3.91
3635 6687 2.027377 GGGTATGGCAGATCTCTGGATG 60.027 54.545 9.15 0.00 43.94 3.51
3636 6688 2.264455 GGGTATGGCAGATCTCTGGAT 58.736 52.381 9.15 0.00 43.94 3.41
3637 6689 1.722034 GGGTATGGCAGATCTCTGGA 58.278 55.000 9.15 0.00 43.94 3.86
3638 6690 0.689623 GGGGTATGGCAGATCTCTGG 59.310 60.000 9.15 0.00 43.94 3.86
3639 6691 0.319728 CGGGGTATGGCAGATCTCTG 59.680 60.000 2.75 2.75 46.40 3.35
3640 6692 0.188587 TCGGGGTATGGCAGATCTCT 59.811 55.000 0.00 0.00 0.00 3.10
3641 6693 1.048601 TTCGGGGTATGGCAGATCTC 58.951 55.000 0.00 0.00 0.00 2.75
3642 6694 1.625818 GATTCGGGGTATGGCAGATCT 59.374 52.381 0.00 0.00 0.00 2.75
3643 6695 1.339151 GGATTCGGGGTATGGCAGATC 60.339 57.143 0.00 0.00 0.00 2.75
3644 6696 0.693049 GGATTCGGGGTATGGCAGAT 59.307 55.000 0.00 0.00 0.00 2.90
3645 6697 0.692756 TGGATTCGGGGTATGGCAGA 60.693 55.000 0.00 0.00 0.00 4.26
3646 6698 0.250467 CTGGATTCGGGGTATGGCAG 60.250 60.000 0.00 0.00 0.00 4.85
3647 6699 1.705002 CCTGGATTCGGGGTATGGCA 61.705 60.000 0.00 0.00 35.76 4.92
3648 6700 1.073199 CCTGGATTCGGGGTATGGC 59.927 63.158 0.00 0.00 35.76 4.40
3649 6701 0.687354 CTCCTGGATTCGGGGTATGG 59.313 60.000 0.00 0.00 39.90 2.74
3650 6702 0.687354 CCTCCTGGATTCGGGGTATG 59.313 60.000 0.00 0.00 39.90 2.39
3651 6703 0.473886 CCCTCCTGGATTCGGGGTAT 60.474 60.000 10.93 0.00 39.90 2.73
3652 6704 1.074775 CCCTCCTGGATTCGGGGTA 60.075 63.158 10.93 0.00 39.90 3.69
3653 6705 2.366972 CCCTCCTGGATTCGGGGT 60.367 66.667 10.93 0.00 39.90 4.95
3654 6706 2.366972 ACCCTCCTGGATTCGGGG 60.367 66.667 20.31 17.93 41.11 5.73
3655 6707 2.746375 CCACCCTCCTGGATTCGGG 61.746 68.421 16.01 16.01 42.53 5.14
3656 6708 1.271840 TTCCACCCTCCTGGATTCGG 61.272 60.000 0.00 0.00 40.18 4.30
3657 6709 0.618458 TTTCCACCCTCCTGGATTCG 59.382 55.000 0.00 0.00 40.18 3.34
3658 6710 1.679032 CGTTTCCACCCTCCTGGATTC 60.679 57.143 0.00 0.00 40.18 2.52
3659 6711 0.328258 CGTTTCCACCCTCCTGGATT 59.672 55.000 0.00 0.00 40.18 3.01
3660 6712 1.991230 CGTTTCCACCCTCCTGGAT 59.009 57.895 0.00 0.00 40.18 3.41
3661 6713 2.890766 GCGTTTCCACCCTCCTGGA 61.891 63.158 0.00 0.00 38.66 3.86
3662 6714 2.359975 GCGTTTCCACCCTCCTGG 60.360 66.667 0.00 0.00 41.37 4.45
3663 6715 1.672356 CTGCGTTTCCACCCTCCTG 60.672 63.158 0.00 0.00 0.00 3.86
3664 6716 2.750350 CTGCGTTTCCACCCTCCT 59.250 61.111 0.00 0.00 0.00 3.69
3665 6717 2.359975 CCTGCGTTTCCACCCTCC 60.360 66.667 0.00 0.00 0.00 4.30
3666 6718 1.966451 CACCTGCGTTTCCACCCTC 60.966 63.158 0.00 0.00 0.00 4.30
3667 6719 2.113139 CACCTGCGTTTCCACCCT 59.887 61.111 0.00 0.00 0.00 4.34
3668 6720 1.966451 CTCACCTGCGTTTCCACCC 60.966 63.158 0.00 0.00 0.00 4.61
3669 6721 1.070786 TCTCACCTGCGTTTCCACC 59.929 57.895 0.00 0.00 0.00 4.61
3670 6722 1.228657 GGTCTCACCTGCGTTTCCAC 61.229 60.000 0.00 0.00 34.73 4.02
3671 6723 1.070786 GGTCTCACCTGCGTTTCCA 59.929 57.895 0.00 0.00 34.73 3.53
3672 6724 3.967715 GGTCTCACCTGCGTTTCC 58.032 61.111 0.00 0.00 34.73 3.13


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

AutoCloner maintained by Alex Coulton.