Multiple sequence alignment - TraesCS6D01G151900

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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 TraesCS6D01G151900 chr6D 100.000 3356 0 0 1 3356 125084760 125088115 0.000000e+00 6198.0
1 TraesCS6D01G151900 chr6D 94.118 51 3 0 2891 2941 1590430 1590380 9.980000e-11 78.7
2 TraesCS6D01G151900 chr6D 95.745 47 1 1 2959 3005 125087682 125087727 1.290000e-09 75.0
3 TraesCS6D01G151900 chr6D 95.745 47 1 1 2923 2968 125087718 125087764 1.290000e-09 75.0
4 TraesCS6D01G151900 chr6A 92.945 3019 115 37 2 2941 155574563 155571564 0.000000e+00 4305.0
5 TraesCS6D01G151900 chr6B 91.907 2879 129 41 1 2825 223415062 223417890 0.000000e+00 3930.0
6 TraesCS6D01G151900 chr6B 89.914 347 19 9 1 339 223413409 223413747 1.850000e-117 433.0
7 TraesCS6D01G151900 chr6B 96.721 61 1 1 2770 2829 223417889 223417949 2.130000e-17 100.0
8 TraesCS6D01G151900 chr5A 86.458 192 20 4 3006 3193 206501657 206501846 4.390000e-49 206.0
9 TraesCS6D01G151900 chr5A 86.667 150 20 0 3043 3192 18817951 18818100 2.070000e-37 167.0
10 TraesCS6D01G151900 chr5A 89.655 58 4 2 2883 2938 678587209 678587266 4.640000e-09 73.1
11 TraesCS6D01G151900 chr5B 84.848 198 21 6 3004 3192 20633350 20633153 1.230000e-44 191.0
12 TraesCS6D01G151900 chr5B 96.078 51 2 0 2891 2941 321980095 321980145 2.150000e-12 84.2
13 TraesCS6D01G151900 chr7B 81.250 176 16 6 3010 3181 399550458 399550296 3.520000e-25 126.0
14 TraesCS6D01G151900 chr7B 78.443 167 32 3 3028 3192 150612412 150612248 4.580000e-19 106.0
15 TraesCS6D01G151900 chr3A 80.263 152 30 0 3043 3194 749421132 749421283 7.610000e-22 115.0
16 TraesCS6D01G151900 chr3A 95.833 48 2 0 2891 2938 950610 950563 9.980000e-11 78.7
17 TraesCS6D01G151900 chr1B 78.443 167 36 0 3028 3194 564495359 564495525 3.540000e-20 110.0
18 TraesCS6D01G151900 chr5D 77.576 165 37 0 3028 3192 545235848 545235684 2.130000e-17 100.0
19 TraesCS6D01G151900 chr4B 77.844 167 33 3 3028 3192 423114934 423114770 2.130000e-17 100.0
20 TraesCS6D01G151900 chr1A 97.917 48 1 0 2891 2938 528667160 528667207 2.150000e-12 84.2
21 TraesCS6D01G151900 chr2D 94.118 51 3 0 2891 2941 448643642 448643592 9.980000e-11 78.7
22 TraesCS6D01G151900 chr2B 94.118 51 3 0 2891 2941 116043651 116043601 9.980000e-11 78.7
23 TraesCS6D01G151900 chr7D 95.745 47 2 0 2891 2937 578716596 578716550 3.590000e-10 76.8


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 TraesCS6D01G151900 chr6D 125084760 125088115 3355 False 2116.000000 6198 97.163333 1 3356 3 chr6D.!!$F1 3355
1 TraesCS6D01G151900 chr6A 155571564 155574563 2999 True 4305.000000 4305 92.945000 2 2941 1 chr6A.!!$R1 2939
2 TraesCS6D01G151900 chr6B 223413409 223417949 4540 False 1487.666667 3930 92.847333 1 2829 3 chr6B.!!$F1 2828

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
692 2393 0.835941 CTCCCCCTGTTCTCATCCAG 59.164 60.0 0.0 0.0 0.00 3.86 F
2015 3758 0.962356 AAAGGCAGCATCAGGTTCCG 60.962 55.0 0.0 0.0 33.56 4.30 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2077 3820 0.179145 GCAATGGCACTAGCAAGCTG 60.179 55.0 4.53 0.0 44.61 4.24 R
3297 5114 0.035458 CACGAGAGCCCACTTTCCTT 59.965 55.0 0.00 0.0 0.00 3.36 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
110 1763 2.033141 AGCAGCCATGTCGCAACT 59.967 55.556 0.00 0.00 0.00 3.16
160 1813 1.517475 GTCGCGGCTTTCTCTCTCC 60.517 63.158 1.90 0.00 0.00 3.71
318 1983 0.896940 GCTGGGATATGTGGCCATGG 60.897 60.000 9.72 7.63 32.29 3.66
385 2050 2.068519 GTCTGCATCGTCACATTCACA 58.931 47.619 0.00 0.00 0.00 3.58
395 2060 2.814336 GTCACATTCACACTCCCCTTTC 59.186 50.000 0.00 0.00 0.00 2.62
692 2393 0.835941 CTCCCCCTGTTCTCATCCAG 59.164 60.000 0.00 0.00 0.00 3.86
698 2406 1.134461 CCTGTTCTCATCCAGCCTCAG 60.134 57.143 0.00 0.00 0.00 3.35
775 2483 4.806339 CCCTCCGCTCCCTCCCTT 62.806 72.222 0.00 0.00 0.00 3.95
938 2672 1.686110 TCCCCTCTCGCTTTCTCCC 60.686 63.158 0.00 0.00 0.00 4.30
982 2716 2.572290 CTTCTTCTTGTTCCCAACCGT 58.428 47.619 0.00 0.00 0.00 4.83
1214 2948 9.528018 GTTTACTGTTTCTTTGATTTTGATCCA 57.472 29.630 0.00 0.00 0.00 3.41
1258 2993 4.201970 GGGTTTTCTTGTGTCGATGTCAAA 60.202 41.667 0.00 0.00 0.00 2.69
1363 3102 4.383226 GCCTTTTGTTTCTTGGGGTGTTTA 60.383 41.667 0.00 0.00 0.00 2.01
1376 3115 3.118775 GGGGTGTTTATTTTGGATCTGGC 60.119 47.826 0.00 0.00 0.00 4.85
1489 3229 4.546829 TGAGGCGTACTAGTCCATTTTT 57.453 40.909 0.00 0.00 0.00 1.94
1596 3339 2.355197 TCTGTTGGGTTATCATGTGCG 58.645 47.619 0.00 0.00 0.00 5.34
1642 3385 5.403466 GTCTGATGATTTGCTTTTGTTGACC 59.597 40.000 0.00 0.00 0.00 4.02
1750 3493 6.483974 TCACCAAATGCTTAACTCTTCGTTAA 59.516 34.615 0.00 0.00 43.79 2.01
1771 3514 9.739786 CGTTAAATTTTCTTATTGGCAATCAAC 57.260 29.630 17.41 5.78 38.31 3.18
1794 3537 1.600957 GCTCCGATGATGAACACCATG 59.399 52.381 0.00 0.00 35.17 3.66
1847 3590 6.206498 GTTTTTGCGAAGAAGGTACAAATCT 58.794 36.000 0.00 0.00 30.95 2.40
1853 3596 5.810587 GCGAAGAAGGTACAAATCTATGTCA 59.189 40.000 0.00 0.00 34.75 3.58
1922 3665 4.203076 CCTACTTCCCGGACCGCG 62.203 72.222 8.86 0.00 0.00 6.46
1988 3731 2.436646 AAAGGTCATCAGCCCGCG 60.437 61.111 0.00 0.00 0.00 6.46
2015 3758 0.962356 AAAGGCAGCATCAGGTTCCG 60.962 55.000 0.00 0.00 33.56 4.30
2019 3762 3.706373 AGCATCAGGTTCCGCGGT 61.706 61.111 27.15 1.49 0.00 5.68
2077 3820 4.542735 CTGGTAACGGTTTTGGAAATGTC 58.457 43.478 0.00 0.00 42.51 3.06
2117 3861 5.683681 TGCTGTTTAGATATGCCATCTGAA 58.316 37.500 7.92 3.96 0.00 3.02
2120 3864 6.261826 GCTGTTTAGATATGCCATCTGAACTT 59.738 38.462 22.56 0.00 41.97 2.66
2130 3874 5.748402 TGCCATCTGAACTTATCTGAATGT 58.252 37.500 0.00 0.00 39.17 2.71
2396 4140 3.127425 AGTGTGGTTTTAGCAGGAGTC 57.873 47.619 0.00 0.00 0.00 3.36
2641 4391 9.903682 ATTTCATATAAATCAAGCTCATTTCCG 57.096 29.630 6.83 0.00 0.00 4.30
2729 4479 4.127171 TCTGAACTGAAAACTGTAGGCAC 58.873 43.478 0.00 0.00 0.00 5.01
2849 4654 8.940397 ATATATTTGGTAACCTGGAAATGAGG 57.060 34.615 0.00 0.00 36.57 3.86
2890 4695 2.029649 AGCTGTTATTTGCAAGCACTGG 60.030 45.455 8.43 2.62 0.00 4.00
2891 4696 2.030007 GCTGTTATTTGCAAGCACTGGA 60.030 45.455 0.00 0.00 0.00 3.86
2892 4697 3.829948 CTGTTATTTGCAAGCACTGGAG 58.170 45.455 0.00 0.00 0.00 3.86
2893 4698 2.030007 TGTTATTTGCAAGCACTGGAGC 60.030 45.455 0.00 0.00 0.00 4.70
2894 4699 1.908344 TATTTGCAAGCACTGGAGCA 58.092 45.000 0.00 0.00 36.85 4.26
2896 4701 0.386476 TTTGCAAGCACTGGAGCAAG 59.614 50.000 0.00 0.00 46.24 4.01
2898 4703 0.108396 TGCAAGCACTGGAGCAAGTA 59.892 50.000 0.00 0.00 36.85 2.24
2941 4758 5.512788 CCGCTTACATGACAATTTTGCTTAG 59.487 40.000 0.00 0.00 0.00 2.18
2942 4759 6.314018 CGCTTACATGACAATTTTGCTTAGA 58.686 36.000 0.00 0.00 0.00 2.10
2943 4760 6.467047 CGCTTACATGACAATTTTGCTTAGAG 59.533 38.462 0.00 0.00 0.00 2.43
2944 4761 6.252228 GCTTACATGACAATTTTGCTTAGAGC 59.748 38.462 0.00 0.00 42.82 4.09
2961 4778 8.475331 GCTTAGAGCAAGTACAATAAAGTACA 57.525 34.615 6.97 0.00 42.68 2.90
2962 4779 8.596380 GCTTAGAGCAAGTACAATAAAGTACAG 58.404 37.037 6.97 0.99 42.68 2.74
2963 4780 9.640963 CTTAGAGCAAGTACAATAAAGTACAGT 57.359 33.333 6.97 0.00 45.25 3.55
2964 4781 9.635520 TTAGAGCAAGTACAATAAAGTACAGTC 57.364 33.333 6.97 0.00 45.25 3.51
2965 4782 7.667557 AGAGCAAGTACAATAAAGTACAGTCA 58.332 34.615 6.97 0.00 45.25 3.41
2966 4783 7.599245 AGAGCAAGTACAATAAAGTACAGTCAC 59.401 37.037 6.97 0.00 45.25 3.67
2967 4784 7.214381 AGCAAGTACAATAAAGTACAGTCACA 58.786 34.615 6.97 0.00 45.25 3.58
2968 4785 7.713507 AGCAAGTACAATAAAGTACAGTCACAA 59.286 33.333 6.97 0.00 45.25 3.33
2969 4786 8.504005 GCAAGTACAATAAAGTACAGTCACAAT 58.496 33.333 6.97 0.00 45.25 2.71
2974 4791 8.574196 ACAATAAAGTACAGTCACAATTTTGC 57.426 30.769 0.00 0.00 0.00 3.68
2975 4792 8.413229 ACAATAAAGTACAGTCACAATTTTGCT 58.587 29.630 0.00 0.00 0.00 3.91
2976 4793 9.248291 CAATAAAGTACAGTCACAATTTTGCTT 57.752 29.630 0.00 0.00 0.00 3.91
2979 4796 7.801716 AAGTACAGTCACAATTTTGCTTAGA 57.198 32.000 0.00 0.00 0.00 2.10
2980 4797 7.426929 AGTACAGTCACAATTTTGCTTAGAG 57.573 36.000 0.00 0.00 0.00 2.43
2981 4798 5.113502 ACAGTCACAATTTTGCTTAGAGC 57.886 39.130 0.00 0.00 42.82 4.09
2998 4815 8.475331 GCTTAGAGCAAGTACAATAAAGTACA 57.525 34.615 6.97 0.00 42.68 2.90
2999 4816 8.596380 GCTTAGAGCAAGTACAATAAAGTACAG 58.404 37.037 6.97 0.99 42.68 2.74
3000 4817 9.640963 CTTAGAGCAAGTACAATAAAGTACAGT 57.359 33.333 6.97 0.00 45.25 3.55
3001 4818 9.635520 TTAGAGCAAGTACAATAAAGTACAGTC 57.364 33.333 6.97 0.00 45.25 3.51
3002 4819 7.667557 AGAGCAAGTACAATAAAGTACAGTCA 58.332 34.615 6.97 0.00 45.25 3.41
3003 4820 7.599245 AGAGCAAGTACAATAAAGTACAGTCAC 59.401 37.037 6.97 0.00 45.25 3.67
3004 4821 7.214381 AGCAAGTACAATAAAGTACAGTCACA 58.786 34.615 6.97 0.00 45.25 3.58
3005 4822 7.385205 AGCAAGTACAATAAAGTACAGTCACAG 59.615 37.037 6.97 0.00 45.25 3.66
3006 4823 7.360101 GCAAGTACAATAAAGTACAGTCACAGG 60.360 40.741 6.97 0.00 45.25 4.00
3007 4824 6.164176 AGTACAATAAAGTACAGTCACAGGC 58.836 40.000 6.97 0.00 45.25 4.85
3008 4825 5.228945 ACAATAAAGTACAGTCACAGGCT 57.771 39.130 0.00 0.00 0.00 4.58
3009 4826 5.238583 ACAATAAAGTACAGTCACAGGCTC 58.761 41.667 0.00 0.00 0.00 4.70
3010 4827 5.012148 ACAATAAAGTACAGTCACAGGCTCT 59.988 40.000 0.00 0.00 0.00 4.09
3011 4828 3.669251 AAAGTACAGTCACAGGCTCTC 57.331 47.619 0.00 0.00 0.00 3.20
3012 4829 2.294449 AGTACAGTCACAGGCTCTCA 57.706 50.000 0.00 0.00 0.00 3.27
3013 4830 2.813907 AGTACAGTCACAGGCTCTCAT 58.186 47.619 0.00 0.00 0.00 2.90
3014 4831 2.495270 AGTACAGTCACAGGCTCTCATG 59.505 50.000 0.00 0.00 0.00 3.07
3015 4832 0.036577 ACAGTCACAGGCTCTCATGC 60.037 55.000 0.00 0.00 0.00 4.06
3016 4833 0.036671 CAGTCACAGGCTCTCATGCA 60.037 55.000 0.00 0.00 34.04 3.96
3017 4834 0.689055 AGTCACAGGCTCTCATGCAA 59.311 50.000 0.00 0.00 34.04 4.08
3018 4835 1.085091 GTCACAGGCTCTCATGCAAG 58.915 55.000 0.00 0.00 34.04 4.01
3019 4836 0.978907 TCACAGGCTCTCATGCAAGA 59.021 50.000 0.00 0.00 34.04 3.02
3020 4837 1.066358 TCACAGGCTCTCATGCAAGAG 60.066 52.381 12.75 12.75 44.69 2.85
3026 4843 2.110901 CTCTCATGCAAGAGCCAACT 57.889 50.000 14.07 0.00 41.13 3.16
3027 4844 1.738350 CTCTCATGCAAGAGCCAACTG 59.262 52.381 14.07 0.00 41.13 3.16
3028 4845 0.170561 CTCATGCAAGAGCCAACTGC 59.829 55.000 5.94 0.00 41.13 4.40
3029 4846 0.537828 TCATGCAAGAGCCAACTGCA 60.538 50.000 0.00 0.00 44.83 4.41
3030 4847 0.530744 CATGCAAGAGCCAACTGCAT 59.469 50.000 3.02 3.02 45.66 3.96
3031 4848 0.530744 ATGCAAGAGCCAACTGCATG 59.469 50.000 7.90 0.00 43.49 4.06
3032 4849 0.824595 TGCAAGAGCCAACTGCATGT 60.825 50.000 0.00 0.00 44.83 3.21
3033 4850 0.388134 GCAAGAGCCAACTGCATGTG 60.388 55.000 0.00 0.00 44.83 3.21
3034 4851 0.388134 CAAGAGCCAACTGCATGTGC 60.388 55.000 0.00 0.00 44.83 4.57
3035 4852 0.538977 AAGAGCCAACTGCATGTGCT 60.539 50.000 6.55 3.79 44.83 4.40
3036 4853 0.959372 AGAGCCAACTGCATGTGCTC 60.959 55.000 16.62 16.62 46.74 4.26
3037 4854 0.959372 GAGCCAACTGCATGTGCTCT 60.959 55.000 16.88 6.54 43.85 4.09
3038 4855 0.538977 AGCCAACTGCATGTGCTCTT 60.539 50.000 6.55 0.00 44.83 2.85
3039 4856 1.167851 GCCAACTGCATGTGCTCTTA 58.832 50.000 6.55 0.00 42.66 2.10
3040 4857 1.131883 GCCAACTGCATGTGCTCTTAG 59.868 52.381 6.55 0.00 42.66 2.18
3041 4858 2.703416 CCAACTGCATGTGCTCTTAGA 58.297 47.619 6.55 0.00 42.66 2.10
3042 4859 3.276857 CCAACTGCATGTGCTCTTAGAT 58.723 45.455 6.55 0.00 42.66 1.98
3043 4860 4.445453 CCAACTGCATGTGCTCTTAGATA 58.555 43.478 6.55 0.00 42.66 1.98
3044 4861 5.061853 CCAACTGCATGTGCTCTTAGATAT 58.938 41.667 6.55 0.00 42.66 1.63
3045 4862 5.530171 CCAACTGCATGTGCTCTTAGATATT 59.470 40.000 6.55 0.00 42.66 1.28
3046 4863 6.707608 CCAACTGCATGTGCTCTTAGATATTA 59.292 38.462 6.55 0.00 42.66 0.98
3047 4864 7.389884 CCAACTGCATGTGCTCTTAGATATTAT 59.610 37.037 6.55 0.00 42.66 1.28
3048 4865 7.902387 ACTGCATGTGCTCTTAGATATTATG 57.098 36.000 6.55 0.00 42.66 1.90
3049 4866 7.448420 ACTGCATGTGCTCTTAGATATTATGT 58.552 34.615 6.55 0.00 42.66 2.29
3050 4867 7.387122 ACTGCATGTGCTCTTAGATATTATGTG 59.613 37.037 6.55 0.00 42.66 3.21
3051 4868 7.444299 TGCATGTGCTCTTAGATATTATGTGA 58.556 34.615 6.55 0.00 42.66 3.58
3052 4869 7.601508 TGCATGTGCTCTTAGATATTATGTGAG 59.398 37.037 6.55 0.00 42.66 3.51
3053 4870 7.816513 GCATGTGCTCTTAGATATTATGTGAGA 59.183 37.037 0.00 0.00 38.21 3.27
3054 4871 9.356433 CATGTGCTCTTAGATATTATGTGAGAG 57.644 37.037 14.72 14.72 38.71 3.20
3055 4872 8.470657 TGTGCTCTTAGATATTATGTGAGAGT 57.529 34.615 18.16 0.00 38.19 3.24
3056 4873 8.355913 TGTGCTCTTAGATATTATGTGAGAGTG 58.644 37.037 18.16 2.63 38.19 3.51
3057 4874 8.572185 GTGCTCTTAGATATTATGTGAGAGTGA 58.428 37.037 18.16 7.80 38.19 3.41
3058 4875 9.136323 TGCTCTTAGATATTATGTGAGAGTGAA 57.864 33.333 18.16 7.24 38.19 3.18
3059 4876 9.973450 GCTCTTAGATATTATGTGAGAGTGAAA 57.027 33.333 18.16 0.00 38.19 2.69
3065 4882 8.373981 AGATATTATGTGAGAGTGAAAGATGGG 58.626 37.037 0.00 0.00 0.00 4.00
3066 4883 5.762179 TTATGTGAGAGTGAAAGATGGGT 57.238 39.130 0.00 0.00 0.00 4.51
3067 4884 3.685139 TGTGAGAGTGAAAGATGGGTC 57.315 47.619 0.00 0.00 0.00 4.46
3068 4885 2.972021 TGTGAGAGTGAAAGATGGGTCA 59.028 45.455 0.00 0.00 0.00 4.02
3069 4886 3.584406 TGTGAGAGTGAAAGATGGGTCAT 59.416 43.478 0.00 0.00 0.00 3.06
3070 4887 3.937706 GTGAGAGTGAAAGATGGGTCATG 59.062 47.826 0.00 0.00 0.00 3.07
3071 4888 3.584406 TGAGAGTGAAAGATGGGTCATGT 59.416 43.478 0.00 0.00 0.00 3.21
3072 4889 4.777366 TGAGAGTGAAAGATGGGTCATGTA 59.223 41.667 0.00 0.00 0.00 2.29
3073 4890 5.426509 TGAGAGTGAAAGATGGGTCATGTAT 59.573 40.000 0.00 0.00 0.00 2.29
3074 4891 6.070021 TGAGAGTGAAAGATGGGTCATGTATT 60.070 38.462 0.00 0.00 0.00 1.89
3075 4892 7.125659 TGAGAGTGAAAGATGGGTCATGTATTA 59.874 37.037 0.00 0.00 0.00 0.98
3076 4893 7.861629 AGAGTGAAAGATGGGTCATGTATTAA 58.138 34.615 0.00 0.00 0.00 1.40
3077 4894 8.497745 AGAGTGAAAGATGGGTCATGTATTAAT 58.502 33.333 0.00 0.00 0.00 1.40
3078 4895 9.778741 GAGTGAAAGATGGGTCATGTATTAATA 57.221 33.333 0.00 0.00 0.00 0.98
3088 4905 9.634021 TGGGTCATGTATTAATAAAATAGCACA 57.366 29.630 0.00 0.00 0.00 4.57
3165 4982 9.959721 ACATGACACTTTCTTATAACCAATAGT 57.040 29.630 0.00 0.00 0.00 2.12
3188 5005 8.567285 AGTTGGCTATATTATTAACCATGCTC 57.433 34.615 0.00 0.00 0.00 4.26
3189 5006 8.386264 AGTTGGCTATATTATTAACCATGCTCT 58.614 33.333 0.00 0.00 0.00 4.09
3190 5007 9.014297 GTTGGCTATATTATTAACCATGCTCTT 57.986 33.333 0.00 0.00 0.00 2.85
3198 5015 8.995027 ATTATTAACCATGCTCTTATGTGGAA 57.005 30.769 0.00 0.00 35.69 3.53
3199 5016 6.949352 ATTAACCATGCTCTTATGTGGAAG 57.051 37.500 0.00 0.00 35.69 3.46
3200 5017 4.574674 AACCATGCTCTTATGTGGAAGA 57.425 40.909 0.00 0.00 35.69 2.87
3229 5046 3.503800 AAAAAGTAAGGGAAGTCGGCT 57.496 42.857 0.00 0.00 0.00 5.52
3230 5047 2.764439 AAAGTAAGGGAAGTCGGCTC 57.236 50.000 0.00 0.00 0.00 4.70
3231 5048 1.939980 AAGTAAGGGAAGTCGGCTCT 58.060 50.000 0.00 0.00 0.00 4.09
3232 5049 1.939980 AGTAAGGGAAGTCGGCTCTT 58.060 50.000 0.00 0.00 0.00 2.85
3233 5050 1.550976 AGTAAGGGAAGTCGGCTCTTG 59.449 52.381 0.00 0.00 0.00 3.02
3234 5051 0.249398 TAAGGGAAGTCGGCTCTTGC 59.751 55.000 0.00 0.00 35.54 4.01
3235 5052 1.768684 AAGGGAAGTCGGCTCTTGCA 61.769 55.000 0.00 0.00 41.91 4.08
3236 5053 1.078143 GGGAAGTCGGCTCTTGCAT 60.078 57.895 0.00 0.00 41.91 3.96
3237 5054 0.178068 GGGAAGTCGGCTCTTGCATA 59.822 55.000 0.00 0.00 41.91 3.14
3238 5055 1.576356 GGAAGTCGGCTCTTGCATAG 58.424 55.000 0.00 0.00 41.91 2.23
3239 5056 1.576356 GAAGTCGGCTCTTGCATAGG 58.424 55.000 0.00 0.00 41.91 2.57
3240 5057 0.462759 AAGTCGGCTCTTGCATAGGC 60.463 55.000 11.78 11.78 41.91 3.93
3241 5058 1.144936 GTCGGCTCTTGCATAGGCT 59.855 57.895 17.48 0.00 41.91 4.58
3242 5059 0.462759 GTCGGCTCTTGCATAGGCTT 60.463 55.000 17.48 0.00 41.91 4.35
3243 5060 0.462581 TCGGCTCTTGCATAGGCTTG 60.463 55.000 17.48 6.63 41.91 4.01
3244 5061 0.745845 CGGCTCTTGCATAGGCTTGT 60.746 55.000 17.48 0.00 41.91 3.16
3245 5062 1.473257 CGGCTCTTGCATAGGCTTGTA 60.473 52.381 17.48 0.00 41.91 2.41
3246 5063 2.216898 GGCTCTTGCATAGGCTTGTAG 58.783 52.381 13.89 0.00 41.91 2.74
3247 5064 1.601430 GCTCTTGCATAGGCTTGTAGC 59.399 52.381 0.00 0.96 41.91 3.58
3261 5078 5.215252 GCTTGTAGCCTCCTTATATGACA 57.785 43.478 0.00 0.00 34.48 3.58
3262 5079 5.611374 GCTTGTAGCCTCCTTATATGACAA 58.389 41.667 0.00 0.00 34.48 3.18
3263 5080 6.234177 GCTTGTAGCCTCCTTATATGACAAT 58.766 40.000 0.00 0.00 34.48 2.71
3264 5081 6.712547 GCTTGTAGCCTCCTTATATGACAATT 59.287 38.462 0.00 0.00 34.48 2.32
3265 5082 7.229506 GCTTGTAGCCTCCTTATATGACAATTT 59.770 37.037 0.00 0.00 34.48 1.82
3266 5083 9.125026 CTTGTAGCCTCCTTATATGACAATTTT 57.875 33.333 0.00 0.00 0.00 1.82
3267 5084 8.450578 TGTAGCCTCCTTATATGACAATTTTG 57.549 34.615 0.00 0.00 0.00 2.44
3268 5085 6.396829 AGCCTCCTTATATGACAATTTTGC 57.603 37.500 0.00 0.00 0.00 3.68
3269 5086 6.131961 AGCCTCCTTATATGACAATTTTGCT 58.868 36.000 0.00 0.00 0.00 3.91
3270 5087 6.608808 AGCCTCCTTATATGACAATTTTGCTT 59.391 34.615 0.00 0.00 0.00 3.91
3271 5088 7.779798 AGCCTCCTTATATGACAATTTTGCTTA 59.220 33.333 0.00 0.00 0.00 3.09
3272 5089 8.579863 GCCTCCTTATATGACAATTTTGCTTAT 58.420 33.333 0.00 0.00 0.00 1.73
3273 5090 9.903682 CCTCCTTATATGACAATTTTGCTTATG 57.096 33.333 0.00 0.00 0.00 1.90
3276 5093 9.467258 CCTTATATGACAATTTTGCTTATGTGG 57.533 33.333 0.00 0.00 0.00 4.17
3280 5097 6.647334 TGACAATTTTGCTTATGTGGAAGA 57.353 33.333 0.00 0.00 0.00 2.87
3281 5098 6.446318 TGACAATTTTGCTTATGTGGAAGAC 58.554 36.000 0.00 0.00 0.00 3.01
3282 5099 6.040278 TGACAATTTTGCTTATGTGGAAGACA 59.960 34.615 0.00 0.00 39.53 3.41
3284 5101 6.869913 ACAATTTTGCTTATGTGGAAGACATG 59.130 34.615 0.00 0.00 45.43 3.21
3285 5102 4.439305 TTTGCTTATGTGGAAGACATGC 57.561 40.909 0.00 0.00 45.43 4.06
3286 5103 3.070476 TGCTTATGTGGAAGACATGCA 57.930 42.857 0.00 0.00 45.43 3.96
3287 5104 3.623703 TGCTTATGTGGAAGACATGCAT 58.376 40.909 0.00 0.00 45.43 3.96
3288 5105 3.379057 TGCTTATGTGGAAGACATGCATG 59.621 43.478 25.09 25.09 45.43 4.06
3289 5106 3.628942 GCTTATGTGGAAGACATGCATGA 59.371 43.478 32.75 8.34 45.43 3.07
3290 5107 4.096833 GCTTATGTGGAAGACATGCATGAA 59.903 41.667 32.75 11.34 45.43 2.57
3291 5108 5.393352 GCTTATGTGGAAGACATGCATGAAA 60.393 40.000 32.75 4.83 45.43 2.69
3292 5109 6.587206 TTATGTGGAAGACATGCATGAAAA 57.413 33.333 32.75 9.13 45.43 2.29
3293 5110 4.933505 TGTGGAAGACATGCATGAAAAA 57.066 36.364 32.75 10.16 0.00 1.94
3313 5130 5.984695 AAAAATAAGGAAAGTGGGCTCTC 57.015 39.130 0.00 0.00 0.00 3.20
3314 5131 2.990066 ATAAGGAAAGTGGGCTCTCG 57.010 50.000 0.00 0.00 0.00 4.04
3315 5132 1.640917 TAAGGAAAGTGGGCTCTCGT 58.359 50.000 0.00 0.00 0.00 4.18
3316 5133 0.035458 AAGGAAAGTGGGCTCTCGTG 59.965 55.000 0.00 0.00 0.00 4.35
3317 5134 2.035442 GGAAAGTGGGCTCTCGTGC 61.035 63.158 0.00 0.00 0.00 5.34
3318 5135 1.301716 GAAAGTGGGCTCTCGTGCA 60.302 57.895 0.00 0.00 34.04 4.57
3319 5136 0.884704 GAAAGTGGGCTCTCGTGCAA 60.885 55.000 0.00 0.00 34.04 4.08
3320 5137 0.465460 AAAGTGGGCTCTCGTGCAAA 60.465 50.000 0.00 0.00 34.04 3.68
3321 5138 0.250901 AAGTGGGCTCTCGTGCAAAT 60.251 50.000 0.00 0.00 34.04 2.32
3322 5139 0.957395 AGTGGGCTCTCGTGCAAATG 60.957 55.000 0.00 0.00 34.04 2.32
3323 5140 2.334946 TGGGCTCTCGTGCAAATGC 61.335 57.895 0.00 0.00 42.50 3.56
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
110 1763 1.004320 GTGGGTGTGCGTGATGGTA 60.004 57.895 0.00 0.00 0.00 3.25
160 1813 4.463879 CCGGCAGCCTGTCCTCTG 62.464 72.222 10.54 0.00 0.00 3.35
279 1933 2.379005 CCCTGGGAAAAAGCAGGTATC 58.621 52.381 7.01 0.00 33.17 2.24
304 1958 2.895404 AGAAATGCCATGGCCACATATC 59.105 45.455 33.44 20.84 41.09 1.63
305 1959 2.966915 AGAAATGCCATGGCCACATAT 58.033 42.857 33.44 17.26 41.09 1.78
306 1960 2.457813 AGAAATGCCATGGCCACATA 57.542 45.000 33.44 15.55 41.09 2.29
307 1961 2.091720 TCTAGAAATGCCATGGCCACAT 60.092 45.455 33.44 18.05 41.09 3.21
308 1962 1.284491 TCTAGAAATGCCATGGCCACA 59.716 47.619 33.44 16.38 41.09 4.17
309 1963 1.952296 CTCTAGAAATGCCATGGCCAC 59.048 52.381 33.44 20.33 41.09 5.01
318 1983 3.619038 CGTGTTTCTCCCTCTAGAAATGC 59.381 47.826 2.67 0.00 44.84 3.56
385 2050 1.705745 GGAGACAAAGGAAAGGGGAGT 59.294 52.381 0.00 0.00 0.00 3.85
395 2060 1.541368 TGGGGGAGGGAGACAAAGG 60.541 63.158 0.00 0.00 0.00 3.11
692 2393 2.439156 GCCCATGGTGACTGAGGC 60.439 66.667 11.73 0.00 0.00 4.70
698 2406 0.321346 CCAAAAAGGCCCATGGTGAC 59.679 55.000 11.73 4.31 0.00 3.67
795 2503 1.771255 GCCCTCTCTCTCTCTCTCTCT 59.229 57.143 0.00 0.00 0.00 3.10
796 2504 1.541233 CGCCCTCTCTCTCTCTCTCTC 60.541 61.905 0.00 0.00 0.00 3.20
938 2672 2.835705 CGGATCGTGGAGAGACGGG 61.836 68.421 0.00 0.00 39.88 5.28
1107 2841 3.764466 CTCGCCCTGAACGCCTCT 61.764 66.667 0.00 0.00 0.00 3.69
1214 2948 2.169352 CCCAAACCTGAGATCAGATCGT 59.831 50.000 11.44 0.00 46.59 3.73
1258 2993 3.694566 AGGCGAAGAACAAGAAAACAAGT 59.305 39.130 0.00 0.00 0.00 3.16
1363 3102 3.947834 CCTAAGAACGCCAGATCCAAAAT 59.052 43.478 0.00 0.00 0.00 1.82
1376 3115 5.602458 GGTTGAGTTTAACCCTAAGAACG 57.398 43.478 0.00 0.00 43.44 3.95
1489 3229 5.824624 GCTAAAAGGATCATGAATGGAGTGA 59.175 40.000 0.00 0.00 0.00 3.41
1596 3339 0.307760 CAACGGCCTGAGTGTTGTTC 59.692 55.000 11.15 0.00 38.47 3.18
1642 3385 0.674581 TGCGGCAGTTTCCTGATGAG 60.675 55.000 0.00 0.00 41.50 2.90
1658 3401 3.272439 TGCAATCTGTTCTTCTTTGCG 57.728 42.857 0.00 0.00 44.23 4.85
1750 3493 5.062058 CGCGTTGATTGCCAATAAGAAAATT 59.938 36.000 0.00 0.00 37.08 1.82
1758 3501 0.376852 GAGCGCGTTGATTGCCAATA 59.623 50.000 8.43 0.00 37.08 1.90
1763 3506 2.813179 ATCGGAGCGCGTTGATTGC 61.813 57.895 8.43 0.00 0.00 3.56
1771 3514 1.878069 TGTTCATCATCGGAGCGCG 60.878 57.895 0.00 0.00 0.00 6.86
1794 3537 8.078596 GCAATATCATAGGGTTCAAATGAGAAC 58.921 37.037 0.00 0.00 45.50 3.01
1847 3590 7.270779 CAGTCTGAGATGGATTTTCTGACATA 58.729 38.462 11.49 0.00 40.27 2.29
1853 3596 4.019501 ACAGCAGTCTGAGATGGATTTTCT 60.020 41.667 3.32 0.00 42.95 2.52
2008 3751 3.745803 GAGACGACCGCGGAACCT 61.746 66.667 35.90 21.83 43.17 3.50
2062 3805 3.052036 CAAGCTGACATTTCCAAAACCG 58.948 45.455 0.00 0.00 0.00 4.44
2075 3818 1.131883 CAATGGCACTAGCAAGCTGAC 59.868 52.381 4.53 0.00 44.61 3.51
2077 3820 0.179145 GCAATGGCACTAGCAAGCTG 60.179 55.000 4.53 0.00 44.61 4.24
2117 3861 7.516198 AAGAGCAAAACACATTCAGATAAGT 57.484 32.000 0.00 0.00 0.00 2.24
2120 3864 7.445096 TCTGAAAGAGCAAAACACATTCAGATA 59.555 33.333 10.33 0.00 43.58 1.98
2304 4048 1.068250 GATCTTCCTCTTCCCGGCG 59.932 63.158 0.00 0.00 0.00 6.46
2305 4049 0.391228 GAGATCTTCCTCTTCCCGGC 59.609 60.000 0.00 0.00 0.00 6.13
2306 4050 1.781786 TGAGATCTTCCTCTTCCCGG 58.218 55.000 0.00 0.00 34.38 5.73
2307 4051 2.036992 CCATGAGATCTTCCTCTTCCCG 59.963 54.545 0.00 0.00 34.38 5.14
2396 4140 1.070445 GAGGACCAGAGATGAGGCATG 59.930 57.143 0.00 0.00 0.00 4.06
2641 4391 2.040178 TCTTATCCTCCCTTCTTCGCC 58.960 52.381 0.00 0.00 0.00 5.54
2676 4426 1.471119 AGGTCGCCGTTGAGATCTTA 58.529 50.000 0.00 0.00 25.47 2.10
2729 4479 4.761975 TGTAGAAAATAACTGTAGGGGCG 58.238 43.478 0.00 0.00 0.00 6.13
2849 4654 9.463443 AACAGCTTGTTTACTTCACATTATTTC 57.537 29.630 0.00 0.00 37.26 2.17
2876 4681 1.000506 CTTGCTCCAGTGCTTGCAAAT 59.999 47.619 0.00 0.00 43.45 2.32
2877 4682 0.386476 CTTGCTCCAGTGCTTGCAAA 59.614 50.000 0.00 0.00 43.45 3.68
2890 4695 7.223777 GCTATAAGCCTGCTATTATACTTGCTC 59.776 40.741 0.00 0.00 34.48 4.26
2891 4696 7.044798 GCTATAAGCCTGCTATTATACTTGCT 58.955 38.462 0.00 0.00 34.48 3.91
2892 4697 7.240414 GCTATAAGCCTGCTATTATACTTGC 57.760 40.000 0.00 0.00 34.48 4.01
2941 4758 7.384115 TGTGACTGTACTTTATTGTACTTGCTC 59.616 37.037 6.41 0.00 42.22 4.26
2942 4759 7.214381 TGTGACTGTACTTTATTGTACTTGCT 58.786 34.615 6.41 0.00 42.22 3.91
2943 4760 7.416154 TGTGACTGTACTTTATTGTACTTGC 57.584 36.000 6.41 0.00 42.22 4.01
2948 4765 9.672086 GCAAAATTGTGACTGTACTTTATTGTA 57.328 29.630 0.00 0.00 0.00 2.41
2949 4766 8.413229 AGCAAAATTGTGACTGTACTTTATTGT 58.587 29.630 0.00 0.00 0.00 2.71
2950 4767 8.801715 AGCAAAATTGTGACTGTACTTTATTG 57.198 30.769 0.00 0.00 0.00 1.90
2953 4770 9.332502 TCTAAGCAAAATTGTGACTGTACTTTA 57.667 29.630 0.00 0.00 0.00 1.85
2954 4771 8.220755 TCTAAGCAAAATTGTGACTGTACTTT 57.779 30.769 0.00 0.00 0.00 2.66
2955 4772 7.520614 GCTCTAAGCAAAATTGTGACTGTACTT 60.521 37.037 0.00 0.00 41.89 2.24
2956 4773 6.073003 GCTCTAAGCAAAATTGTGACTGTACT 60.073 38.462 0.00 0.00 41.89 2.73
2957 4774 6.080406 GCTCTAAGCAAAATTGTGACTGTAC 58.920 40.000 0.00 0.00 41.89 2.90
2958 4775 6.241207 GCTCTAAGCAAAATTGTGACTGTA 57.759 37.500 0.00 0.00 41.89 2.74
2959 4776 5.113502 GCTCTAAGCAAAATTGTGACTGT 57.886 39.130 0.00 0.00 41.89 3.55
2972 4789 8.092068 TGTACTTTATTGTACTTGCTCTAAGCA 58.908 33.333 0.00 0.00 44.35 3.91
2973 4790 8.475331 TGTACTTTATTGTACTTGCTCTAAGC 57.525 34.615 6.41 0.00 42.22 3.09
2974 4791 9.640963 ACTGTACTTTATTGTACTTGCTCTAAG 57.359 33.333 6.41 0.00 42.22 2.18
2975 4792 9.635520 GACTGTACTTTATTGTACTTGCTCTAA 57.364 33.333 6.41 0.00 42.22 2.10
2976 4793 8.799367 TGACTGTACTTTATTGTACTTGCTCTA 58.201 33.333 6.41 0.00 42.22 2.43
2977 4794 7.599245 GTGACTGTACTTTATTGTACTTGCTCT 59.401 37.037 6.41 0.00 42.22 4.09
2978 4795 7.384115 TGTGACTGTACTTTATTGTACTTGCTC 59.616 37.037 6.41 0.00 42.22 4.26
2979 4796 7.214381 TGTGACTGTACTTTATTGTACTTGCT 58.786 34.615 6.41 0.00 42.22 3.91
2980 4797 7.360101 CCTGTGACTGTACTTTATTGTACTTGC 60.360 40.741 6.41 0.00 42.22 4.01
2981 4798 7.360101 GCCTGTGACTGTACTTTATTGTACTTG 60.360 40.741 6.41 2.93 42.22 3.16
2982 4799 6.649557 GCCTGTGACTGTACTTTATTGTACTT 59.350 38.462 6.41 0.00 42.22 2.24
2983 4800 6.014499 AGCCTGTGACTGTACTTTATTGTACT 60.014 38.462 6.41 0.00 42.22 2.73
2984 4801 6.164176 AGCCTGTGACTGTACTTTATTGTAC 58.836 40.000 0.00 0.00 42.10 2.90
2985 4802 6.210784 AGAGCCTGTGACTGTACTTTATTGTA 59.789 38.462 0.00 0.00 0.00 2.41
2986 4803 5.012148 AGAGCCTGTGACTGTACTTTATTGT 59.988 40.000 0.00 0.00 0.00 2.71
2987 4804 5.482908 AGAGCCTGTGACTGTACTTTATTG 58.517 41.667 0.00 0.00 0.00 1.90
2988 4805 5.246203 TGAGAGCCTGTGACTGTACTTTATT 59.754 40.000 0.00 0.00 0.00 1.40
2989 4806 4.772624 TGAGAGCCTGTGACTGTACTTTAT 59.227 41.667 0.00 0.00 0.00 1.40
2990 4807 4.149598 TGAGAGCCTGTGACTGTACTTTA 58.850 43.478 0.00 0.00 0.00 1.85
2991 4808 2.965831 TGAGAGCCTGTGACTGTACTTT 59.034 45.455 0.00 0.00 0.00 2.66
2992 4809 2.598565 TGAGAGCCTGTGACTGTACTT 58.401 47.619 0.00 0.00 0.00 2.24
2993 4810 2.294449 TGAGAGCCTGTGACTGTACT 57.706 50.000 0.00 0.00 0.00 2.73
2994 4811 2.886081 CATGAGAGCCTGTGACTGTAC 58.114 52.381 0.00 0.00 0.00 2.90
2995 4812 1.205655 GCATGAGAGCCTGTGACTGTA 59.794 52.381 0.00 0.00 0.00 2.74
2996 4813 0.036577 GCATGAGAGCCTGTGACTGT 60.037 55.000 0.00 0.00 0.00 3.55
2997 4814 0.036671 TGCATGAGAGCCTGTGACTG 60.037 55.000 0.00 0.00 0.00 3.51
2998 4815 0.689055 TTGCATGAGAGCCTGTGACT 59.311 50.000 0.00 0.00 0.00 3.41
2999 4816 1.085091 CTTGCATGAGAGCCTGTGAC 58.915 55.000 0.00 0.00 0.00 3.67
3000 4817 0.978907 TCTTGCATGAGAGCCTGTGA 59.021 50.000 0.00 0.00 0.00 3.58
3001 4818 1.370609 CTCTTGCATGAGAGCCTGTG 58.629 55.000 21.89 0.00 37.01 3.66
3002 4819 3.857217 CTCTTGCATGAGAGCCTGT 57.143 52.632 21.89 0.00 37.01 4.00
3007 4824 1.738350 CAGTTGGCTCTTGCATGAGAG 59.262 52.381 28.50 19.95 44.79 3.20
3008 4825 1.817357 CAGTTGGCTCTTGCATGAGA 58.183 50.000 28.50 10.62 41.91 3.27
3009 4826 0.170561 GCAGTTGGCTCTTGCATGAG 59.829 55.000 22.03 22.03 41.91 2.90
3010 4827 0.537828 TGCAGTTGGCTCTTGCATGA 60.538 50.000 0.00 1.92 45.15 3.07
3011 4828 0.530744 ATGCAGTTGGCTCTTGCATG 59.469 50.000 17.74 0.00 43.49 4.06
3012 4829 0.530744 CATGCAGTTGGCTCTTGCAT 59.469 50.000 14.36 14.36 45.66 3.96
3013 4830 0.824595 ACATGCAGTTGGCTCTTGCA 60.825 50.000 11.50 11.50 45.15 4.08
3014 4831 0.388134 CACATGCAGTTGGCTCTTGC 60.388 55.000 0.00 1.64 45.15 4.01
3015 4832 0.388134 GCACATGCAGTTGGCTCTTG 60.388 55.000 0.00 0.00 45.15 3.02
3016 4833 0.538977 AGCACATGCAGTTGGCTCTT 60.539 50.000 6.64 0.00 45.15 2.85
3017 4834 0.959372 GAGCACATGCAGTTGGCTCT 60.959 55.000 19.26 2.71 45.61 4.09
3018 4835 1.505353 GAGCACATGCAGTTGGCTC 59.495 57.895 14.12 14.12 45.15 4.70
3019 4836 0.538977 AAGAGCACATGCAGTTGGCT 60.539 50.000 6.64 4.83 45.15 4.75
3020 4837 1.131883 CTAAGAGCACATGCAGTTGGC 59.868 52.381 6.64 0.00 45.16 4.52
3021 4838 2.703416 TCTAAGAGCACATGCAGTTGG 58.297 47.619 6.64 1.34 45.16 3.77
3022 4839 6.615264 AATATCTAAGAGCACATGCAGTTG 57.385 37.500 6.64 0.00 45.16 3.16
3023 4840 7.935755 ACATAATATCTAAGAGCACATGCAGTT 59.064 33.333 6.64 1.51 45.16 3.16
3024 4841 7.387122 CACATAATATCTAAGAGCACATGCAGT 59.613 37.037 6.64 0.00 45.16 4.40
3025 4842 7.601508 TCACATAATATCTAAGAGCACATGCAG 59.398 37.037 6.64 0.00 45.16 4.41
3026 4843 7.444299 TCACATAATATCTAAGAGCACATGCA 58.556 34.615 6.64 0.00 45.16 3.96
3027 4844 7.816513 TCTCACATAATATCTAAGAGCACATGC 59.183 37.037 0.00 0.00 42.49 4.06
3028 4845 9.356433 CTCTCACATAATATCTAAGAGCACATG 57.644 37.037 0.00 0.00 0.00 3.21
3029 4846 9.087871 ACTCTCACATAATATCTAAGAGCACAT 57.912 33.333 0.00 0.00 33.68 3.21
3030 4847 8.355913 CACTCTCACATAATATCTAAGAGCACA 58.644 37.037 0.00 0.00 33.68 4.57
3031 4848 8.572185 TCACTCTCACATAATATCTAAGAGCAC 58.428 37.037 0.00 0.00 33.68 4.40
3032 4849 8.697507 TCACTCTCACATAATATCTAAGAGCA 57.302 34.615 0.00 0.00 33.68 4.26
3033 4850 9.973450 TTTCACTCTCACATAATATCTAAGAGC 57.027 33.333 0.00 0.00 33.68 4.09
3039 4856 8.373981 CCCATCTTTCACTCTCACATAATATCT 58.626 37.037 0.00 0.00 0.00 1.98
3040 4857 8.153550 ACCCATCTTTCACTCTCACATAATATC 58.846 37.037 0.00 0.00 0.00 1.63
3041 4858 8.038862 ACCCATCTTTCACTCTCACATAATAT 57.961 34.615 0.00 0.00 0.00 1.28
3042 4859 7.125659 TGACCCATCTTTCACTCTCACATAATA 59.874 37.037 0.00 0.00 0.00 0.98
3043 4860 6.070021 TGACCCATCTTTCACTCTCACATAAT 60.070 38.462 0.00 0.00 0.00 1.28
3044 4861 5.248248 TGACCCATCTTTCACTCTCACATAA 59.752 40.000 0.00 0.00 0.00 1.90
3045 4862 4.777366 TGACCCATCTTTCACTCTCACATA 59.223 41.667 0.00 0.00 0.00 2.29
3046 4863 3.584406 TGACCCATCTTTCACTCTCACAT 59.416 43.478 0.00 0.00 0.00 3.21
3047 4864 2.972021 TGACCCATCTTTCACTCTCACA 59.028 45.455 0.00 0.00 0.00 3.58
3048 4865 3.685139 TGACCCATCTTTCACTCTCAC 57.315 47.619 0.00 0.00 0.00 3.51
3049 4866 3.584406 ACATGACCCATCTTTCACTCTCA 59.416 43.478 0.00 0.00 0.00 3.27
3050 4867 4.213564 ACATGACCCATCTTTCACTCTC 57.786 45.455 0.00 0.00 0.00 3.20
3051 4868 5.965033 ATACATGACCCATCTTTCACTCT 57.035 39.130 0.00 0.00 0.00 3.24
3052 4869 8.682936 ATTAATACATGACCCATCTTTCACTC 57.317 34.615 0.00 0.00 0.00 3.51
3062 4879 9.634021 TGTGCTATTTTATTAATACATGACCCA 57.366 29.630 0.00 0.00 0.00 4.51
3139 4956 9.959721 ACTATTGGTTATAAGAAAGTGTCATGT 57.040 29.630 0.00 0.00 0.00 3.21
3142 4959 9.226606 CCAACTATTGGTTATAAGAAAGTGTCA 57.773 33.333 0.00 0.00 45.93 3.58
3162 4979 9.667107 GAGCATGGTTAATAATATAGCCAACTA 57.333 33.333 0.00 0.00 39.25 2.24
3163 4980 8.386264 AGAGCATGGTTAATAATATAGCCAACT 58.614 33.333 0.00 0.00 39.25 3.16
3164 4981 8.567285 AGAGCATGGTTAATAATATAGCCAAC 57.433 34.615 0.00 0.00 39.25 3.77
3173 4990 8.995027 TTCCACATAAGAGCATGGTTAATAAT 57.005 30.769 0.00 0.00 33.67 1.28
3174 4991 8.271458 TCTTCCACATAAGAGCATGGTTAATAA 58.729 33.333 0.00 0.00 33.67 1.40
3175 4992 7.801104 TCTTCCACATAAGAGCATGGTTAATA 58.199 34.615 0.00 0.00 33.67 0.98
3176 4993 6.662755 TCTTCCACATAAGAGCATGGTTAAT 58.337 36.000 0.00 0.00 33.67 1.40
3177 4994 6.061022 TCTTCCACATAAGAGCATGGTTAA 57.939 37.500 0.00 0.00 33.67 2.01
3178 4995 5.674525 CTCTTCCACATAAGAGCATGGTTA 58.325 41.667 0.00 0.00 44.33 2.85
3179 4996 4.521146 CTCTTCCACATAAGAGCATGGTT 58.479 43.478 0.00 0.00 44.33 3.67
3180 4997 4.148128 CTCTTCCACATAAGAGCATGGT 57.852 45.455 0.00 0.00 44.33 3.55
3209 5026 3.072622 AGAGCCGACTTCCCTTACTTTTT 59.927 43.478 0.00 0.00 0.00 1.94
3210 5027 2.638363 AGAGCCGACTTCCCTTACTTTT 59.362 45.455 0.00 0.00 0.00 2.27
3211 5028 2.258109 AGAGCCGACTTCCCTTACTTT 58.742 47.619 0.00 0.00 0.00 2.66
3212 5029 1.939980 AGAGCCGACTTCCCTTACTT 58.060 50.000 0.00 0.00 0.00 2.24
3213 5030 1.550976 CAAGAGCCGACTTCCCTTACT 59.449 52.381 0.00 0.00 0.00 2.24
3214 5031 2.007547 GCAAGAGCCGACTTCCCTTAC 61.008 57.143 0.00 0.00 33.58 2.34
3215 5032 0.249398 GCAAGAGCCGACTTCCCTTA 59.751 55.000 0.00 0.00 33.58 2.69
3216 5033 1.003233 GCAAGAGCCGACTTCCCTT 60.003 57.895 0.00 0.00 33.58 3.95
3217 5034 1.557269 ATGCAAGAGCCGACTTCCCT 61.557 55.000 0.00 0.00 41.13 4.20
3218 5035 0.178068 TATGCAAGAGCCGACTTCCC 59.822 55.000 0.00 0.00 41.13 3.97
3219 5036 1.576356 CTATGCAAGAGCCGACTTCC 58.424 55.000 0.00 0.00 41.13 3.46
3220 5037 1.576356 CCTATGCAAGAGCCGACTTC 58.424 55.000 0.00 0.00 41.13 3.01
3221 5038 0.462759 GCCTATGCAAGAGCCGACTT 60.463 55.000 0.00 0.00 41.13 3.01
3222 5039 1.144936 GCCTATGCAAGAGCCGACT 59.855 57.895 0.00 0.00 41.13 4.18
3223 5040 0.462759 AAGCCTATGCAAGAGCCGAC 60.463 55.000 0.00 0.00 41.13 4.79
3224 5041 0.462581 CAAGCCTATGCAAGAGCCGA 60.463 55.000 0.00 0.00 41.13 5.54
3225 5042 0.745845 ACAAGCCTATGCAAGAGCCG 60.746 55.000 0.00 0.00 41.13 5.52
3226 5043 2.216898 CTACAAGCCTATGCAAGAGCC 58.783 52.381 0.00 0.00 41.13 4.70
3227 5044 1.601430 GCTACAAGCCTATGCAAGAGC 59.399 52.381 0.00 0.00 41.13 4.09
3239 5056 5.215252 TGTCATATAAGGAGGCTACAAGC 57.785 43.478 0.00 0.00 41.46 4.01
3240 5057 8.682936 AAATTGTCATATAAGGAGGCTACAAG 57.317 34.615 0.00 0.00 0.00 3.16
3241 5058 8.902806 CAAAATTGTCATATAAGGAGGCTACAA 58.097 33.333 0.00 0.00 0.00 2.41
3242 5059 7.013274 GCAAAATTGTCATATAAGGAGGCTACA 59.987 37.037 0.00 0.00 0.00 2.74
3243 5060 7.229506 AGCAAAATTGTCATATAAGGAGGCTAC 59.770 37.037 0.00 0.00 0.00 3.58
3244 5061 7.290061 AGCAAAATTGTCATATAAGGAGGCTA 58.710 34.615 0.00 0.00 0.00 3.93
3245 5062 6.131961 AGCAAAATTGTCATATAAGGAGGCT 58.868 36.000 0.00 0.00 0.00 4.58
3246 5063 6.396829 AGCAAAATTGTCATATAAGGAGGC 57.603 37.500 0.00 0.00 0.00 4.70
3247 5064 9.903682 CATAAGCAAAATTGTCATATAAGGAGG 57.096 33.333 0.00 0.00 0.00 4.30
3250 5067 9.467258 CCACATAAGCAAAATTGTCATATAAGG 57.533 33.333 0.00 0.00 0.00 2.69
3254 5071 8.970020 TCTTCCACATAAGCAAAATTGTCATAT 58.030 29.630 0.00 0.00 0.00 1.78
3255 5072 8.243426 GTCTTCCACATAAGCAAAATTGTCATA 58.757 33.333 0.00 0.00 0.00 2.15
3256 5073 7.092716 GTCTTCCACATAAGCAAAATTGTCAT 58.907 34.615 0.00 0.00 0.00 3.06
3257 5074 6.040278 TGTCTTCCACATAAGCAAAATTGTCA 59.960 34.615 0.00 0.00 0.00 3.58
3258 5075 6.446318 TGTCTTCCACATAAGCAAAATTGTC 58.554 36.000 0.00 0.00 0.00 3.18
3259 5076 6.403866 TGTCTTCCACATAAGCAAAATTGT 57.596 33.333 0.00 0.00 0.00 2.71
3260 5077 6.183360 GCATGTCTTCCACATAAGCAAAATTG 60.183 38.462 0.00 0.00 44.60 2.32
3261 5078 5.870978 GCATGTCTTCCACATAAGCAAAATT 59.129 36.000 0.00 0.00 44.60 1.82
3262 5079 5.047164 TGCATGTCTTCCACATAAGCAAAAT 60.047 36.000 0.00 0.00 44.60 1.82
3263 5080 4.280425 TGCATGTCTTCCACATAAGCAAAA 59.720 37.500 0.00 0.00 44.60 2.44
3264 5081 3.825585 TGCATGTCTTCCACATAAGCAAA 59.174 39.130 0.00 0.00 44.60 3.68
3265 5082 3.419943 TGCATGTCTTCCACATAAGCAA 58.580 40.909 0.00 0.00 44.60 3.91
3266 5083 3.070476 TGCATGTCTTCCACATAAGCA 57.930 42.857 0.00 0.00 44.60 3.91
3267 5084 3.628942 TCATGCATGTCTTCCACATAAGC 59.371 43.478 25.43 0.00 44.60 3.09
3268 5085 5.823209 TTCATGCATGTCTTCCACATAAG 57.177 39.130 25.43 0.00 44.60 1.73
3269 5086 6.587206 TTTTCATGCATGTCTTCCACATAA 57.413 33.333 25.43 6.32 44.60 1.90
3270 5087 6.587206 TTTTTCATGCATGTCTTCCACATA 57.413 33.333 25.43 0.00 44.60 2.29
3272 5089 4.933505 TTTTTCATGCATGTCTTCCACA 57.066 36.364 25.43 1.24 40.18 4.17
3291 5108 4.459337 CGAGAGCCCACTTTCCTTATTTTT 59.541 41.667 0.00 0.00 0.00 1.94
3292 5109 4.010349 CGAGAGCCCACTTTCCTTATTTT 58.990 43.478 0.00 0.00 0.00 1.82
3293 5110 3.009143 ACGAGAGCCCACTTTCCTTATTT 59.991 43.478 0.00 0.00 0.00 1.40
3294 5111 2.572104 ACGAGAGCCCACTTTCCTTATT 59.428 45.455 0.00 0.00 0.00 1.40
3295 5112 2.093447 CACGAGAGCCCACTTTCCTTAT 60.093 50.000 0.00 0.00 0.00 1.73
3296 5113 1.275291 CACGAGAGCCCACTTTCCTTA 59.725 52.381 0.00 0.00 0.00 2.69
3297 5114 0.035458 CACGAGAGCCCACTTTCCTT 59.965 55.000 0.00 0.00 0.00 3.36
3298 5115 1.674057 CACGAGAGCCCACTTTCCT 59.326 57.895 0.00 0.00 0.00 3.36
3299 5116 2.035442 GCACGAGAGCCCACTTTCC 61.035 63.158 0.00 0.00 0.00 3.13
3300 5117 0.884704 TTGCACGAGAGCCCACTTTC 60.885 55.000 0.00 0.00 0.00 2.62
3301 5118 0.465460 TTTGCACGAGAGCCCACTTT 60.465 50.000 0.00 0.00 0.00 2.66
3302 5119 0.250901 ATTTGCACGAGAGCCCACTT 60.251 50.000 0.00 0.00 0.00 3.16
3303 5120 0.957395 CATTTGCACGAGAGCCCACT 60.957 55.000 0.00 0.00 0.00 4.00
3304 5121 1.503542 CATTTGCACGAGAGCCCAC 59.496 57.895 0.00 0.00 0.00 4.61
3305 5122 2.334946 GCATTTGCACGAGAGCCCA 61.335 57.895 0.00 0.00 41.59 5.36
3306 5123 2.486966 GCATTTGCACGAGAGCCC 59.513 61.111 0.00 0.00 41.59 5.19


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

AutoCloner maintained by Alex Coulton.