Multiple sequence alignment - TraesCS3B01G409600

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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 TraesCS3B01G409600 chr3B 100.000 2996 0 0 1 2996 646004233 646001238 0.000000e+00 5533
1 TraesCS3B01G409600 chr3A 92.029 2873 118 41 8 2796 626017648 626014803 0.000000e+00 3934
2 TraesCS3B01G409600 chr3D 93.897 2376 89 29 8 2345 483178440 483176083 0.000000e+00 3533
3 TraesCS3B01G409600 chr3D 90.816 490 27 7 2351 2830 483175962 483175481 9.060000e-180 640
4 TraesCS3B01G409600 chr3D 82.249 169 26 2 2821 2989 91102758 91102922 3.110000e-30 143
5 TraesCS3B01G409600 chr1A 84.839 310 34 10 1094 1395 469309801 469310105 1.750000e-77 300
6 TraesCS3B01G409600 chr1B 82.948 346 44 11 1072 1408 493857814 493858153 6.280000e-77 298
7 TraesCS3B01G409600 chr1D 83.483 333 40 12 1072 1395 370342098 370342424 2.260000e-76 296
8 TraesCS3B01G409600 chr1D 82.249 169 26 2 2821 2989 345944240 345944076 3.110000e-30 143
9 TraesCS3B01G409600 chr7B 91.447 152 11 2 1108 1258 140652906 140653056 1.090000e-49 207
10 TraesCS3B01G409600 chr7B 82.184 174 27 2 2817 2990 588256294 588256125 2.410000e-31 147
11 TraesCS3B01G409600 chr7B 81.609 174 28 2 2817 2990 588243740 588243571 1.120000e-29 141
12 TraesCS3B01G409600 chr7B 81.609 174 28 2 2817 2990 588281076 588280907 1.120000e-29 141
13 TraesCS3B01G409600 chr2D 90.909 154 12 2 1109 1261 32763270 32763422 3.910000e-49 206
14 TraesCS3B01G409600 chr6D 89.441 161 17 0 1101 1261 358326165 358326005 1.410000e-48 204
15 TraesCS3B01G409600 chr6A 89.441 161 17 0 1101 1261 500083784 500083624 1.410000e-48 204
16 TraesCS3B01G409600 chr2A 85.000 160 21 1 2822 2981 350732485 350732329 3.090000e-35 159
17 TraesCS3B01G409600 chr7D 82.249 169 26 2 2821 2989 415908576 415908412 3.110000e-30 143
18 TraesCS3B01G409600 chr4D 82.249 169 26 2 2821 2989 407092861 407093025 3.110000e-30 143
19 TraesCS3B01G409600 chr4D 82.249 169 26 2 2821 2989 446013746 446013910 3.110000e-30 143


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 TraesCS3B01G409600 chr3B 646001238 646004233 2995 True 5533.0 5533 100.0000 1 2996 1 chr3B.!!$R1 2995
1 TraesCS3B01G409600 chr3A 626014803 626017648 2845 True 3934.0 3934 92.0290 8 2796 1 chr3A.!!$R1 2788
2 TraesCS3B01G409600 chr3D 483175481 483178440 2959 True 2086.5 3533 92.3565 8 2830 2 chr3D.!!$R1 2822

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
902 957 0.674534 ATCTATTCTCCGGTCACCGC 59.325 55.000 12.05 0.0 46.86 5.68 F
913 968 1.430632 GTCACCGCGTTCTCCGATA 59.569 57.895 4.92 0.0 39.56 2.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1773 1832 0.039074 ACGAGTCGAAACAGCTCTGG 60.039 55.000 21.50 0.0 34.19 3.86 R
2675 2876 1.001248 AGGCAATGGCTGAATGGCT 59.999 52.632 9.02 0.0 44.13 4.75 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
71 80 4.569180 CCATAGCCAGCCCACCGG 62.569 72.222 0.00 0.00 0.00 5.28
422 447 4.899239 GCAGGCCCCGTCGATCAG 62.899 72.222 0.00 0.00 0.00 2.90
425 450 3.148279 GGCCCCGTCGATCAGTCT 61.148 66.667 0.00 0.00 0.00 3.24
426 451 2.105128 GCCCCGTCGATCAGTCTG 59.895 66.667 0.00 0.00 0.00 3.51
427 452 2.415608 GCCCCGTCGATCAGTCTGA 61.416 63.158 4.68 4.68 0.00 3.27
428 453 1.739338 GCCCCGTCGATCAGTCTGAT 61.739 60.000 15.40 15.40 40.34 2.90
429 454 1.605753 CCCCGTCGATCAGTCTGATA 58.394 55.000 15.44 0.00 37.20 2.15
431 456 1.069838 CCCGTCGATCAGTCTGATACG 60.070 57.143 22.86 22.86 37.20 3.06
432 457 1.069838 CCGTCGATCAGTCTGATACGG 60.070 57.143 29.52 29.52 46.19 4.02
434 459 1.604755 GTCGATCAGTCTGATACGGCT 59.395 52.381 21.62 2.50 37.20 5.52
435 460 2.806818 GTCGATCAGTCTGATACGGCTA 59.193 50.000 21.62 9.50 37.20 3.93
436 461 2.806818 TCGATCAGTCTGATACGGCTAC 59.193 50.000 22.91 9.03 37.20 3.58
465 505 1.181098 ACCACGCCGTAGTAACCACT 61.181 55.000 0.00 0.00 38.91 4.00
468 508 1.470098 CACGCCGTAGTAACCACTAGT 59.530 52.381 0.00 0.00 37.94 2.57
469 509 2.677836 CACGCCGTAGTAACCACTAGTA 59.322 50.000 0.00 0.00 37.94 1.82
470 510 3.126858 CACGCCGTAGTAACCACTAGTAA 59.873 47.826 0.00 0.00 37.94 2.24
471 511 3.947834 ACGCCGTAGTAACCACTAGTAAT 59.052 43.478 0.00 0.00 37.94 1.89
647 701 2.987547 GCACCACTGCACTGCCAT 60.988 61.111 0.00 0.00 43.62 4.40
662 717 1.145945 TGCCATAGTTTGTTGGGGTGA 59.854 47.619 0.00 0.00 33.40 4.02
887 942 4.215109 TCCATCGATCAAGTCACCATCTA 58.785 43.478 0.00 0.00 0.00 1.98
902 957 0.674534 ATCTATTCTCCGGTCACCGC 59.325 55.000 12.05 0.00 46.86 5.68
905 960 1.597797 TATTCTCCGGTCACCGCGTT 61.598 55.000 12.05 0.00 46.86 4.84
913 968 1.430632 GTCACCGCGTTCTCCGATA 59.569 57.895 4.92 0.00 39.56 2.92
949 1004 1.460305 ATCGCCCACATAGCTCCCT 60.460 57.895 0.00 0.00 0.00 4.20
954 1009 2.109799 CACATAGCTCCCTGGCCG 59.890 66.667 0.00 0.00 0.00 6.13
955 1010 3.866582 ACATAGCTCCCTGGCCGC 61.867 66.667 0.00 0.00 0.00 6.53
956 1011 4.632974 CATAGCTCCCTGGCCGCC 62.633 72.222 1.04 1.04 0.00 6.13
975 1034 1.437986 GGCCGTAGTCTGATCGCTT 59.562 57.895 0.00 0.00 0.00 4.68
1518 1577 3.281240 GACGGTAGCCTTGTCGGA 58.719 61.111 0.00 0.00 33.16 4.55
1581 1640 2.049063 GACACGTTCAGCGCCTCT 60.049 61.111 2.29 0.00 46.11 3.69
1682 1741 2.125673 GAGCAGCGCCGACCTAAA 60.126 61.111 2.29 0.00 0.00 1.85
1773 1832 0.674895 AGCTCAACTTCGCCATGGAC 60.675 55.000 18.40 5.97 0.00 4.02
1887 1946 0.971447 AGGAGCCCAAGTACGACTCC 60.971 60.000 12.11 12.11 45.99 3.85
1938 1997 0.107214 TCCATGACGGAATCCTTGCC 60.107 55.000 0.00 0.00 42.52 4.52
1959 2018 1.953138 CGATCATGACTGGAGCGCC 60.953 63.158 2.29 0.00 37.36 6.53
2341 2412 4.528596 TGCCTATCCAAATCTAGGAGTAGC 59.471 45.833 0.00 0.00 38.83 3.58
2345 2416 4.737855 TCCAAATCTAGGAGTAGCACAC 57.262 45.455 0.00 0.00 0.00 3.82
2347 2418 4.160439 TCCAAATCTAGGAGTAGCACACTG 59.840 45.833 0.00 0.00 37.72 3.66
2348 2419 4.160439 CCAAATCTAGGAGTAGCACACTGA 59.840 45.833 0.00 0.00 37.72 3.41
2376 2562 2.490903 GGTGAGACATTGCTTGCAAGAT 59.509 45.455 30.39 12.68 0.00 2.40
2395 2581 6.963805 GCAAGATTTGATTCTACTGCTGTAAC 59.036 38.462 4.91 0.00 30.33 2.50
2419 2605 6.001460 CCCCATCTTACCGCAAATTATTCTA 58.999 40.000 0.00 0.00 0.00 2.10
2519 2713 8.567948 CATTGTGAACAGACTTGGTTAATAAGT 58.432 33.333 7.54 7.54 40.84 2.24
2526 2720 5.643777 CAGACTTGGTTAATAAGTGGGAGTG 59.356 44.000 11.40 1.16 38.42 3.51
2663 2861 4.396166 AGCGGTCCAATTAAATTCAGAGTG 59.604 41.667 0.00 0.00 0.00 3.51
2783 2988 3.366052 TCTACTCCCTTGATTTTGGGC 57.634 47.619 0.00 0.00 43.04 5.36
2784 2989 2.017049 CTACTCCCTTGATTTTGGGCG 58.983 52.381 0.00 0.00 43.04 6.13
2792 2997 4.064388 CCTTGATTTTGGGCGAAATGTTT 58.936 39.130 0.00 0.00 29.75 2.83
2798 3003 0.461548 TGGGCGAAATGTTTTGTGCA 59.538 45.000 0.00 0.00 0.00 4.57
2820 3027 5.634859 GCACCACATTGTTAAATCAAAGAGG 59.365 40.000 0.00 0.00 34.65 3.69
2821 3028 6.516527 GCACCACATTGTTAAATCAAAGAGGA 60.517 38.462 5.10 0.00 33.47 3.71
2822 3029 7.086376 CACCACATTGTTAAATCAAAGAGGAG 58.914 38.462 5.10 0.00 33.47 3.69
2823 3030 6.095377 CCACATTGTTAAATCAAAGAGGAGC 58.905 40.000 0.00 0.00 31.86 4.70
2824 3031 6.294675 CCACATTGTTAAATCAAAGAGGAGCA 60.295 38.462 0.00 0.00 31.86 4.26
2825 3032 7.147312 CACATTGTTAAATCAAAGAGGAGCAA 58.853 34.615 0.00 0.00 0.00 3.91
2828 3035 9.211485 CATTGTTAAATCAAAGAGGAGCAATTT 57.789 29.630 0.00 0.00 0.00 1.82
2829 3036 9.783081 ATTGTTAAATCAAAGAGGAGCAATTTT 57.217 25.926 0.00 0.00 0.00 1.82
2844 3051 8.414629 GGAGCAATTTTAATATGATCCCTCTT 57.585 34.615 8.12 0.00 42.39 2.85
2845 3052 9.520515 GGAGCAATTTTAATATGATCCCTCTTA 57.479 33.333 8.12 0.00 42.39 2.10
2854 3061 9.543231 TTAATATGATCCCTCTTATTACCTCGT 57.457 33.333 0.00 0.00 35.41 4.18
2855 3062 5.986501 ATGATCCCTCTTATTACCTCGTC 57.013 43.478 0.00 0.00 0.00 4.20
2856 3063 5.063017 TGATCCCTCTTATTACCTCGTCT 57.937 43.478 0.00 0.00 0.00 4.18
2857 3064 5.455872 TGATCCCTCTTATTACCTCGTCTT 58.544 41.667 0.00 0.00 0.00 3.01
2858 3065 5.897824 TGATCCCTCTTATTACCTCGTCTTT 59.102 40.000 0.00 0.00 0.00 2.52
2859 3066 6.383147 TGATCCCTCTTATTACCTCGTCTTTT 59.617 38.462 0.00 0.00 0.00 2.27
2860 3067 6.218108 TCCCTCTTATTACCTCGTCTTTTC 57.782 41.667 0.00 0.00 0.00 2.29
2861 3068 5.718130 TCCCTCTTATTACCTCGTCTTTTCA 59.282 40.000 0.00 0.00 0.00 2.69
2862 3069 5.811100 CCCTCTTATTACCTCGTCTTTTCAC 59.189 44.000 0.00 0.00 0.00 3.18
2863 3070 6.395629 CCTCTTATTACCTCGTCTTTTCACA 58.604 40.000 0.00 0.00 0.00 3.58
2864 3071 7.042335 CCTCTTATTACCTCGTCTTTTCACAT 58.958 38.462 0.00 0.00 0.00 3.21
2865 3072 7.010552 CCTCTTATTACCTCGTCTTTTCACATG 59.989 40.741 0.00 0.00 0.00 3.21
2866 3073 6.816640 TCTTATTACCTCGTCTTTTCACATGG 59.183 38.462 0.00 0.00 0.00 3.66
2867 3074 2.185004 ACCTCGTCTTTTCACATGGG 57.815 50.000 0.00 0.00 0.00 4.00
2868 3075 1.697432 ACCTCGTCTTTTCACATGGGA 59.303 47.619 0.00 0.00 0.00 4.37
2869 3076 2.289694 ACCTCGTCTTTTCACATGGGAG 60.290 50.000 0.00 0.00 0.00 4.30
2870 3077 2.350522 CTCGTCTTTTCACATGGGAGG 58.649 52.381 0.00 0.00 0.00 4.30
2871 3078 1.697432 TCGTCTTTTCACATGGGAGGT 59.303 47.619 0.00 0.00 0.00 3.85
2872 3079 2.901192 TCGTCTTTTCACATGGGAGGTA 59.099 45.455 0.00 0.00 0.00 3.08
2873 3080 3.325425 TCGTCTTTTCACATGGGAGGTAA 59.675 43.478 0.00 0.00 0.00 2.85
2874 3081 3.684788 CGTCTTTTCACATGGGAGGTAAG 59.315 47.826 0.00 4.12 0.00 2.34
2875 3082 4.562757 CGTCTTTTCACATGGGAGGTAAGA 60.563 45.833 12.55 12.55 0.00 2.10
2876 3083 5.313712 GTCTTTTCACATGGGAGGTAAGAA 58.686 41.667 16.24 0.00 0.00 2.52
2877 3084 5.412904 GTCTTTTCACATGGGAGGTAAGAAG 59.587 44.000 16.24 8.16 0.00 2.85
2878 3085 4.301072 TTTCACATGGGAGGTAAGAAGG 57.699 45.455 0.00 0.00 0.00 3.46
2879 3086 2.915869 TCACATGGGAGGTAAGAAGGT 58.084 47.619 0.00 0.00 0.00 3.50
2880 3087 4.069312 TCACATGGGAGGTAAGAAGGTA 57.931 45.455 0.00 0.00 0.00 3.08
2881 3088 4.431378 TCACATGGGAGGTAAGAAGGTAA 58.569 43.478 0.00 0.00 0.00 2.85
2882 3089 4.847512 TCACATGGGAGGTAAGAAGGTAAA 59.152 41.667 0.00 0.00 0.00 2.01
2883 3090 5.311121 TCACATGGGAGGTAAGAAGGTAAAA 59.689 40.000 0.00 0.00 0.00 1.52
2884 3091 5.648092 CACATGGGAGGTAAGAAGGTAAAAG 59.352 44.000 0.00 0.00 0.00 2.27
2885 3092 5.312443 ACATGGGAGGTAAGAAGGTAAAAGT 59.688 40.000 0.00 0.00 0.00 2.66
2886 3093 5.917545 TGGGAGGTAAGAAGGTAAAAGTT 57.082 39.130 0.00 0.00 0.00 2.66
2887 3094 5.872963 TGGGAGGTAAGAAGGTAAAAGTTC 58.127 41.667 0.00 0.00 0.00 3.01
2888 3095 5.221986 TGGGAGGTAAGAAGGTAAAAGTTCC 60.222 44.000 0.00 0.00 0.00 3.62
2889 3096 5.013913 GGGAGGTAAGAAGGTAAAAGTTCCT 59.986 44.000 0.00 0.00 35.34 3.36
2890 3097 6.171921 GGAGGTAAGAAGGTAAAAGTTCCTC 58.828 44.000 0.00 0.00 37.56 3.71
2891 3098 6.239800 GGAGGTAAGAAGGTAAAAGTTCCTCA 60.240 42.308 0.00 0.00 39.30 3.86
2892 3099 6.770542 AGGTAAGAAGGTAAAAGTTCCTCAG 58.229 40.000 0.00 0.00 33.09 3.35
2893 3100 6.557633 AGGTAAGAAGGTAAAAGTTCCTCAGA 59.442 38.462 0.00 0.00 33.09 3.27
2894 3101 6.649973 GGTAAGAAGGTAAAAGTTCCTCAGAC 59.350 42.308 0.00 0.00 33.09 3.51
2895 3102 5.230323 AGAAGGTAAAAGTTCCTCAGACC 57.770 43.478 0.00 0.00 33.09 3.85
2896 3103 4.041815 AGAAGGTAAAAGTTCCTCAGACCC 59.958 45.833 0.00 0.00 33.09 4.46
2897 3104 3.323775 AGGTAAAAGTTCCTCAGACCCA 58.676 45.455 0.00 0.00 0.00 4.51
2898 3105 3.072622 AGGTAAAAGTTCCTCAGACCCAC 59.927 47.826 0.00 0.00 0.00 4.61
2899 3106 3.072622 GGTAAAAGTTCCTCAGACCCACT 59.927 47.826 0.00 0.00 0.00 4.00
2900 3107 2.938956 AAAGTTCCTCAGACCCACTG 57.061 50.000 0.00 0.00 46.97 3.66
2901 3108 1.807814 AAGTTCCTCAGACCCACTGT 58.192 50.000 0.00 0.00 45.86 3.55
2902 3109 1.807814 AGTTCCTCAGACCCACTGTT 58.192 50.000 0.00 0.00 45.86 3.16
2903 3110 2.127708 AGTTCCTCAGACCCACTGTTT 58.872 47.619 0.00 0.00 45.86 2.83
2904 3111 2.158755 AGTTCCTCAGACCCACTGTTTG 60.159 50.000 0.00 0.00 45.86 2.93
2905 3112 1.801242 TCCTCAGACCCACTGTTTGA 58.199 50.000 0.00 0.00 45.86 2.69
2906 3113 2.338809 TCCTCAGACCCACTGTTTGAT 58.661 47.619 0.00 0.00 45.86 2.57
2907 3114 2.038952 TCCTCAGACCCACTGTTTGATG 59.961 50.000 0.00 0.00 45.86 3.07
2908 3115 2.038952 CCTCAGACCCACTGTTTGATGA 59.961 50.000 0.00 0.00 45.86 2.92
2909 3116 3.496692 CCTCAGACCCACTGTTTGATGAA 60.497 47.826 0.00 0.00 45.86 2.57
2910 3117 4.136796 CTCAGACCCACTGTTTGATGAAA 58.863 43.478 0.00 0.00 45.86 2.69
2911 3118 4.728772 TCAGACCCACTGTTTGATGAAAT 58.271 39.130 0.00 0.00 45.86 2.17
2912 3119 5.139727 TCAGACCCACTGTTTGATGAAATT 58.860 37.500 0.00 0.00 45.86 1.82
2913 3120 6.303054 TCAGACCCACTGTTTGATGAAATTA 58.697 36.000 0.00 0.00 45.86 1.40
2914 3121 6.775142 TCAGACCCACTGTTTGATGAAATTAA 59.225 34.615 0.00 0.00 45.86 1.40
2915 3122 6.863126 CAGACCCACTGTTTGATGAAATTAAC 59.137 38.462 0.00 0.00 41.30 2.01
2916 3123 5.768317 ACCCACTGTTTGATGAAATTAACG 58.232 37.500 0.00 0.00 0.00 3.18
2917 3124 5.300792 ACCCACTGTTTGATGAAATTAACGT 59.699 36.000 0.00 0.00 0.00 3.99
2918 3125 5.856455 CCCACTGTTTGATGAAATTAACGTC 59.144 40.000 0.00 0.00 0.00 4.34
2919 3126 6.293955 CCCACTGTTTGATGAAATTAACGTCT 60.294 38.462 0.00 0.00 0.00 4.18
2920 3127 6.797033 CCACTGTTTGATGAAATTAACGTCTC 59.203 38.462 0.00 0.00 0.00 3.36
2921 3128 7.351981 CACTGTTTGATGAAATTAACGTCTCA 58.648 34.615 0.00 0.00 0.00 3.27
2922 3129 7.531871 CACTGTTTGATGAAATTAACGTCTCAG 59.468 37.037 0.00 14.56 0.00 3.35
2923 3130 7.441157 ACTGTTTGATGAAATTAACGTCTCAGA 59.559 33.333 18.36 0.00 0.00 3.27
2924 3131 8.322906 TGTTTGATGAAATTAACGTCTCAGAT 57.677 30.769 0.00 0.00 0.00 2.90
2925 3132 9.430623 TGTTTGATGAAATTAACGTCTCAGATA 57.569 29.630 0.00 0.00 0.00 1.98
2941 3148 9.929722 CGTCTCAGATATATTATCTACTCTTGC 57.070 37.037 0.00 0.00 0.00 4.01
2949 3156 4.902443 TTATCTACTCTTGCCTCTCACG 57.098 45.455 0.00 0.00 0.00 4.35
2950 3157 2.201921 TCTACTCTTGCCTCTCACGT 57.798 50.000 0.00 0.00 0.00 4.49
2951 3158 1.813178 TCTACTCTTGCCTCTCACGTG 59.187 52.381 9.94 9.94 0.00 4.49
2952 3159 1.813178 CTACTCTTGCCTCTCACGTGA 59.187 52.381 18.88 18.88 0.00 4.35
2953 3160 1.040646 ACTCTTGCCTCTCACGTGAA 58.959 50.000 20.49 9.70 0.00 3.18
2954 3161 1.412710 ACTCTTGCCTCTCACGTGAAA 59.587 47.619 20.49 5.35 0.00 2.69
2955 3162 2.158957 ACTCTTGCCTCTCACGTGAAAA 60.159 45.455 20.49 9.80 0.00 2.29
2956 3163 2.478134 CTCTTGCCTCTCACGTGAAAAG 59.522 50.000 20.49 18.35 0.00 2.27
2957 3164 2.102420 TCTTGCCTCTCACGTGAAAAGA 59.898 45.455 20.49 18.12 0.00 2.52
2958 3165 2.839486 TGCCTCTCACGTGAAAAGAT 57.161 45.000 20.49 0.00 0.00 2.40
2959 3166 2.416747 TGCCTCTCACGTGAAAAGATG 58.583 47.619 20.49 11.33 0.00 2.90
2960 3167 2.037121 TGCCTCTCACGTGAAAAGATGA 59.963 45.455 20.49 10.98 0.00 2.92
2961 3168 2.670414 GCCTCTCACGTGAAAAGATGAG 59.330 50.000 20.49 19.25 39.99 2.90
2962 3169 3.615110 GCCTCTCACGTGAAAAGATGAGA 60.615 47.826 24.08 13.58 44.05 3.27
2965 3172 5.453567 TCTCACGTGAAAAGATGAGAGAA 57.546 39.130 20.49 0.00 41.99 2.87
2966 3173 5.465051 TCTCACGTGAAAAGATGAGAGAAG 58.535 41.667 20.49 2.50 41.99 2.85
2967 3174 5.241728 TCTCACGTGAAAAGATGAGAGAAGA 59.758 40.000 20.49 5.02 41.99 2.87
2968 3175 5.465051 TCACGTGAAAAGATGAGAGAAGAG 58.535 41.667 17.62 0.00 0.00 2.85
2969 3176 4.624882 CACGTGAAAAGATGAGAGAAGAGG 59.375 45.833 10.90 0.00 0.00 3.69
2970 3177 4.180057 CGTGAAAAGATGAGAGAAGAGGG 58.820 47.826 0.00 0.00 0.00 4.30
2971 3178 4.081972 CGTGAAAAGATGAGAGAAGAGGGA 60.082 45.833 0.00 0.00 0.00 4.20
2972 3179 5.175127 GTGAAAAGATGAGAGAAGAGGGAC 58.825 45.833 0.00 0.00 0.00 4.46
2973 3180 4.223923 TGAAAAGATGAGAGAAGAGGGACC 59.776 45.833 0.00 0.00 0.00 4.46
2974 3181 3.481559 AAGATGAGAGAAGAGGGACCA 57.518 47.619 0.00 0.00 0.00 4.02
2975 3182 3.704545 AGATGAGAGAAGAGGGACCAT 57.295 47.619 0.00 0.00 0.00 3.55
2976 3183 3.307506 AGATGAGAGAAGAGGGACCATG 58.692 50.000 0.00 0.00 0.00 3.66
2977 3184 2.630889 TGAGAGAAGAGGGACCATGT 57.369 50.000 0.00 0.00 0.00 3.21
2978 3185 2.461695 TGAGAGAAGAGGGACCATGTC 58.538 52.381 0.00 0.00 0.00 3.06
2979 3186 2.225369 TGAGAGAAGAGGGACCATGTCA 60.225 50.000 0.00 0.00 33.68 3.58
2980 3187 2.834549 GAGAGAAGAGGGACCATGTCAA 59.165 50.000 0.00 0.00 33.68 3.18
2981 3188 3.251484 AGAGAAGAGGGACCATGTCAAA 58.749 45.455 0.00 0.00 33.68 2.69
2982 3189 3.652869 AGAGAAGAGGGACCATGTCAAAA 59.347 43.478 0.00 0.00 33.68 2.44
2983 3190 4.290722 AGAGAAGAGGGACCATGTCAAAAT 59.709 41.667 0.00 0.00 33.68 1.82
2984 3191 5.003096 AGAAGAGGGACCATGTCAAAATT 57.997 39.130 0.00 0.00 33.68 1.82
2985 3192 5.397360 AGAAGAGGGACCATGTCAAAATTT 58.603 37.500 0.00 0.00 33.68 1.82
2986 3193 5.244626 AGAAGAGGGACCATGTCAAAATTTG 59.755 40.000 0.00 0.00 33.68 2.32
2987 3194 3.259123 AGAGGGACCATGTCAAAATTTGC 59.741 43.478 0.00 0.00 33.68 3.68
2988 3195 2.302733 AGGGACCATGTCAAAATTTGCC 59.697 45.455 0.00 0.00 33.68 4.52
2989 3196 2.038295 GGGACCATGTCAAAATTTGCCA 59.962 45.455 0.00 0.00 33.68 4.92
2990 3197 3.307621 GGGACCATGTCAAAATTTGCCAT 60.308 43.478 0.00 0.00 33.68 4.40
2991 3198 3.934579 GGACCATGTCAAAATTTGCCATC 59.065 43.478 0.00 0.00 33.68 3.51
2992 3199 4.563168 GGACCATGTCAAAATTTGCCATCA 60.563 41.667 0.00 0.00 33.68 3.07
2993 3200 4.970711 ACCATGTCAAAATTTGCCATCAA 58.029 34.783 0.00 0.00 24.48 2.57
2994 3201 5.374921 ACCATGTCAAAATTTGCCATCAAA 58.625 33.333 0.00 0.00 45.24 2.69
2995 3202 5.470777 ACCATGTCAAAATTTGCCATCAAAG 59.529 36.000 0.00 0.00 44.47 2.77
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.759436 ATCATCCGGCCGGTAGTCTT 60.759 55.000 41.57 20.76 36.47 3.01
1 2 1.152525 ATCATCCGGCCGGTAGTCT 60.153 57.895 41.57 21.67 36.47 3.24
2 3 1.289380 GATCATCCGGCCGGTAGTC 59.711 63.158 41.57 29.01 36.47 2.59
3 4 2.561956 CGATCATCCGGCCGGTAGT 61.562 63.158 41.57 26.30 36.47 2.73
4 5 2.258591 CGATCATCCGGCCGGTAG 59.741 66.667 41.57 32.85 36.47 3.18
5 6 3.299977 CCGATCATCCGGCCGGTA 61.300 66.667 41.57 28.68 43.25 4.02
22 23 4.736896 GGGGACGTGTGCCTCGAC 62.737 72.222 10.49 0.00 41.27 4.20
71 80 1.413382 GGAGACGATGATGTGCGATC 58.587 55.000 0.00 0.00 0.00 3.69
282 295 1.227853 GCCACGTGAAACTCTGGGT 60.228 57.895 19.30 0.00 33.99 4.51
283 296 1.966451 GGCCACGTGAAACTCTGGG 60.966 63.158 19.30 0.00 33.99 4.45
286 299 2.030562 CCGGCCACGTGAAACTCT 59.969 61.111 19.30 0.00 38.78 3.24
287 300 3.723348 GCCGGCCACGTGAAACTC 61.723 66.667 18.11 0.00 38.78 3.01
421 446 0.260816 TGGGGTAGCCGTATCAGACT 59.739 55.000 4.56 0.00 0.00 3.24
422 447 0.388294 GTGGGGTAGCCGTATCAGAC 59.612 60.000 4.56 0.00 0.00 3.51
425 450 1.332144 GGTGTGGGGTAGCCGTATCA 61.332 60.000 4.56 0.00 0.00 2.15
426 451 1.444672 GGTGTGGGGTAGCCGTATC 59.555 63.158 4.56 0.00 0.00 2.24
427 452 2.428925 CGGTGTGGGGTAGCCGTAT 61.429 63.158 4.56 0.00 39.41 3.06
428 453 3.069946 CGGTGTGGGGTAGCCGTA 61.070 66.667 4.56 0.00 39.41 4.02
431 456 4.091939 GGTCGGTGTGGGGTAGCC 62.092 72.222 1.07 1.07 0.00 3.93
432 457 3.315949 TGGTCGGTGTGGGGTAGC 61.316 66.667 0.00 0.00 0.00 3.58
434 459 3.304721 CGTGGTCGGTGTGGGGTA 61.305 66.667 0.00 0.00 0.00 3.69
471 511 8.761497 CGTGAATTTCTTGTTTTAGTCTAGTGA 58.239 33.333 0.00 0.00 0.00 3.41
481 521 4.642885 TCCTCACCGTGAATTTCTTGTTTT 59.357 37.500 2.19 0.00 0.00 2.43
597 651 3.703052 GCCCTTTAGTGGCTACAGTACTA 59.297 47.826 2.02 0.00 45.70 1.82
647 701 6.272792 TCCTAGTTAATCACCCCAACAAACTA 59.727 38.462 0.00 0.00 0.00 2.24
777 832 1.959738 GGGAGCTAATTACGCGGCC 60.960 63.158 12.47 0.00 0.00 6.13
778 833 1.227438 TGGGAGCTAATTACGCGGC 60.227 57.895 12.47 2.14 0.00 6.53
865 920 3.033909 AGATGGTGACTTGATCGATGGA 58.966 45.455 0.54 0.00 0.00 3.41
869 924 5.010112 GGAGAATAGATGGTGACTTGATCGA 59.990 44.000 0.00 0.00 0.00 3.59
902 957 3.381949 GGATTGACCTTATCGGAGAACG 58.618 50.000 0.00 0.00 36.19 3.95
905 960 3.117093 AGAGGGATTGACCTTATCGGAGA 60.117 47.826 0.00 0.00 42.10 3.71
913 968 2.169352 CGATGTGAGAGGGATTGACCTT 59.831 50.000 0.00 0.00 42.10 3.50
954 1009 2.027751 GATCAGACTACGGCCGGC 59.972 66.667 31.76 21.18 0.00 6.13
955 1010 2.331805 CGATCAGACTACGGCCGG 59.668 66.667 31.76 15.62 0.00 6.13
956 1011 2.337749 AAGCGATCAGACTACGGCCG 62.338 60.000 26.86 26.86 0.00 6.13
975 1034 3.826729 TCGTTCACAGATCCTTCTTCTGA 59.173 43.478 7.63 0.00 42.63 3.27
1254 1313 4.338710 TTCCCCCGGCGGTTCTTG 62.339 66.667 26.32 8.81 0.00 3.02
1288 1347 1.584380 CCGGAGAAAGAGTCGGACGT 61.584 60.000 0.00 0.00 44.69 4.34
1581 1640 3.536917 CCGGGGCTCATGTCGCTA 61.537 66.667 0.00 0.00 0.00 4.26
1638 1697 1.559065 GGGACCATTCGAGGAACCCA 61.559 60.000 18.20 0.00 43.11 4.51
1679 1738 0.328592 TGGGCTGGCCGTACAATTTA 59.671 50.000 16.08 0.00 36.85 1.40
1682 1741 2.272146 CTGGGCTGGCCGTACAAT 59.728 61.111 16.08 0.00 36.85 2.71
1773 1832 0.039074 ACGAGTCGAAACAGCTCTGG 60.039 55.000 21.50 0.00 34.19 3.86
1887 1946 1.359848 CGTCAGGGAACGAATCAAGG 58.640 55.000 0.00 0.00 45.37 3.61
1938 1997 1.953138 GCTCCAGTCATGATCGGCG 60.953 63.158 0.00 0.00 0.00 6.46
2280 2348 1.839424 ATAGGGGAGCTTGCACAAAC 58.161 50.000 0.00 0.00 0.00 2.93
2341 2412 2.092323 TCTCACCGGAGTATCAGTGTG 58.908 52.381 9.46 0.00 40.52 3.82
2345 2416 3.711086 CAATGTCTCACCGGAGTATCAG 58.289 50.000 9.46 0.00 42.05 2.90
2347 2418 2.101582 AGCAATGTCTCACCGGAGTATC 59.898 50.000 9.46 0.00 42.05 2.24
2348 2419 2.111384 AGCAATGTCTCACCGGAGTAT 58.889 47.619 9.46 0.00 42.05 2.12
2376 2562 4.042311 TGGGGTTACAGCAGTAGAATCAAA 59.958 41.667 0.00 0.00 0.00 2.69
2395 2581 4.827284 AGAATAATTTGCGGTAAGATGGGG 59.173 41.667 0.00 0.00 0.00 4.96
2419 2605 5.048224 GCTTGCATGGTCATTGCTTCTATAT 60.048 40.000 1.34 0.00 0.00 0.86
2675 2876 1.001248 AGGCAATGGCTGAATGGCT 59.999 52.632 9.02 0.00 44.13 4.75
2712 2913 3.186817 GTCGATTCTACCGAGACGATCAT 59.813 47.826 0.00 0.00 36.66 2.45
2783 2988 2.534298 TGTGGTGCACAAAACATTTCG 58.466 42.857 20.43 0.00 41.69 3.46
2798 3003 6.294731 GCTCCTCTTTGATTTAACAATGTGGT 60.295 38.462 0.00 0.00 38.50 4.16
2828 3035 9.543231 ACGAGGTAATAAGAGGGATCATATTAA 57.457 33.333 0.00 0.00 0.00 1.40
2829 3036 9.186837 GACGAGGTAATAAGAGGGATCATATTA 57.813 37.037 0.00 0.00 0.00 0.98
2830 3037 7.896496 AGACGAGGTAATAAGAGGGATCATATT 59.104 37.037 0.00 0.00 0.00 1.28
2831 3038 7.415086 AGACGAGGTAATAAGAGGGATCATAT 58.585 38.462 0.00 0.00 0.00 1.78
2832 3039 6.791371 AGACGAGGTAATAAGAGGGATCATA 58.209 40.000 0.00 0.00 0.00 2.15
2833 3040 5.646215 AGACGAGGTAATAAGAGGGATCAT 58.354 41.667 0.00 0.00 0.00 2.45
2834 3041 5.063017 AGACGAGGTAATAAGAGGGATCA 57.937 43.478 0.00 0.00 0.00 2.92
2835 3042 6.408107 AAAGACGAGGTAATAAGAGGGATC 57.592 41.667 0.00 0.00 0.00 3.36
2836 3043 6.383147 TGAAAAGACGAGGTAATAAGAGGGAT 59.617 38.462 0.00 0.00 0.00 3.85
2837 3044 5.718130 TGAAAAGACGAGGTAATAAGAGGGA 59.282 40.000 0.00 0.00 0.00 4.20
2838 3045 5.811100 GTGAAAAGACGAGGTAATAAGAGGG 59.189 44.000 0.00 0.00 0.00 4.30
2839 3046 6.395629 TGTGAAAAGACGAGGTAATAAGAGG 58.604 40.000 0.00 0.00 0.00 3.69
2840 3047 7.010552 CCATGTGAAAAGACGAGGTAATAAGAG 59.989 40.741 0.00 0.00 0.00 2.85
2841 3048 6.816640 CCATGTGAAAAGACGAGGTAATAAGA 59.183 38.462 0.00 0.00 0.00 2.10
2842 3049 6.037172 CCCATGTGAAAAGACGAGGTAATAAG 59.963 42.308 0.00 0.00 0.00 1.73
2843 3050 5.878116 CCCATGTGAAAAGACGAGGTAATAA 59.122 40.000 0.00 0.00 0.00 1.40
2844 3051 5.188163 TCCCATGTGAAAAGACGAGGTAATA 59.812 40.000 0.00 0.00 0.00 0.98
2845 3052 4.019681 TCCCATGTGAAAAGACGAGGTAAT 60.020 41.667 0.00 0.00 0.00 1.89
2846 3053 3.325425 TCCCATGTGAAAAGACGAGGTAA 59.675 43.478 0.00 0.00 0.00 2.85
2847 3054 2.901192 TCCCATGTGAAAAGACGAGGTA 59.099 45.455 0.00 0.00 0.00 3.08
2848 3055 1.697432 TCCCATGTGAAAAGACGAGGT 59.303 47.619 0.00 0.00 0.00 3.85
2849 3056 2.350522 CTCCCATGTGAAAAGACGAGG 58.649 52.381 0.00 0.00 0.00 4.63
2850 3057 2.289694 ACCTCCCATGTGAAAAGACGAG 60.290 50.000 0.00 0.00 0.00 4.18
2851 3058 1.697432 ACCTCCCATGTGAAAAGACGA 59.303 47.619 0.00 0.00 0.00 4.20
2852 3059 2.185004 ACCTCCCATGTGAAAAGACG 57.815 50.000 0.00 0.00 0.00 4.18
2853 3060 4.906618 TCTTACCTCCCATGTGAAAAGAC 58.093 43.478 0.00 0.00 0.00 3.01
2854 3061 5.514834 CCTTCTTACCTCCCATGTGAAAAGA 60.515 44.000 0.00 0.00 0.00 2.52
2855 3062 4.702131 CCTTCTTACCTCCCATGTGAAAAG 59.298 45.833 0.00 0.00 0.00 2.27
2856 3063 4.105697 ACCTTCTTACCTCCCATGTGAAAA 59.894 41.667 0.00 0.00 0.00 2.29
2857 3064 3.655777 ACCTTCTTACCTCCCATGTGAAA 59.344 43.478 0.00 0.00 0.00 2.69
2858 3065 3.256704 ACCTTCTTACCTCCCATGTGAA 58.743 45.455 0.00 0.00 0.00 3.18
2859 3066 2.915869 ACCTTCTTACCTCCCATGTGA 58.084 47.619 0.00 0.00 0.00 3.58
2860 3067 4.837093 TTACCTTCTTACCTCCCATGTG 57.163 45.455 0.00 0.00 0.00 3.21
2861 3068 5.312443 ACTTTTACCTTCTTACCTCCCATGT 59.688 40.000 0.00 0.00 0.00 3.21
2862 3069 5.816682 ACTTTTACCTTCTTACCTCCCATG 58.183 41.667 0.00 0.00 0.00 3.66
2863 3070 6.464530 AACTTTTACCTTCTTACCTCCCAT 57.535 37.500 0.00 0.00 0.00 4.00
2864 3071 5.221986 GGAACTTTTACCTTCTTACCTCCCA 60.222 44.000 0.00 0.00 0.00 4.37
2865 3072 5.013913 AGGAACTTTTACCTTCTTACCTCCC 59.986 44.000 0.00 0.00 27.25 4.30
2866 3073 6.124316 AGGAACTTTTACCTTCTTACCTCC 57.876 41.667 0.00 0.00 27.25 4.30
2867 3074 6.766429 TGAGGAACTTTTACCTTCTTACCTC 58.234 40.000 0.00 0.00 41.55 3.85
2868 3075 6.557633 TCTGAGGAACTTTTACCTTCTTACCT 59.442 38.462 0.00 0.00 41.55 3.08
2869 3076 6.649973 GTCTGAGGAACTTTTACCTTCTTACC 59.350 42.308 0.00 0.00 41.55 2.85
2870 3077 6.649973 GGTCTGAGGAACTTTTACCTTCTTAC 59.350 42.308 0.00 0.00 41.55 2.34
2871 3078 6.239800 GGGTCTGAGGAACTTTTACCTTCTTA 60.240 42.308 0.00 0.00 41.55 2.10
2872 3079 5.456330 GGGTCTGAGGAACTTTTACCTTCTT 60.456 44.000 0.00 0.00 41.55 2.52
2873 3080 4.041815 GGGTCTGAGGAACTTTTACCTTCT 59.958 45.833 0.00 0.00 41.55 2.85
2874 3081 4.202430 TGGGTCTGAGGAACTTTTACCTTC 60.202 45.833 0.00 0.00 41.55 3.46
2875 3082 3.720002 TGGGTCTGAGGAACTTTTACCTT 59.280 43.478 0.00 0.00 41.55 3.50
2876 3083 3.072622 GTGGGTCTGAGGAACTTTTACCT 59.927 47.826 0.00 0.00 41.55 3.08
2877 3084 3.072622 AGTGGGTCTGAGGAACTTTTACC 59.927 47.826 0.00 0.00 41.55 2.85
2878 3085 4.065789 CAGTGGGTCTGAGGAACTTTTAC 58.934 47.826 0.00 0.00 46.27 2.01
2879 3086 3.714798 ACAGTGGGTCTGAGGAACTTTTA 59.285 43.478 0.00 0.00 46.27 1.52
2880 3087 2.509964 ACAGTGGGTCTGAGGAACTTTT 59.490 45.455 0.00 0.00 46.27 2.27
2881 3088 2.127708 ACAGTGGGTCTGAGGAACTTT 58.872 47.619 0.00 0.00 46.27 2.66
2882 3089 1.807814 ACAGTGGGTCTGAGGAACTT 58.192 50.000 0.00 0.00 46.27 2.66
2883 3090 1.807814 AACAGTGGGTCTGAGGAACT 58.192 50.000 0.00 0.00 46.27 3.01
2884 3091 2.158813 TCAAACAGTGGGTCTGAGGAAC 60.159 50.000 0.00 0.00 46.27 3.62
2885 3092 2.123589 TCAAACAGTGGGTCTGAGGAA 58.876 47.619 0.00 0.00 46.27 3.36
2886 3093 1.801242 TCAAACAGTGGGTCTGAGGA 58.199 50.000 0.00 0.00 46.27 3.71
2887 3094 2.038952 TCATCAAACAGTGGGTCTGAGG 59.961 50.000 0.00 0.00 46.27 3.86
2888 3095 3.407424 TCATCAAACAGTGGGTCTGAG 57.593 47.619 0.00 0.00 46.27 3.35
2889 3096 3.855255 TTCATCAAACAGTGGGTCTGA 57.145 42.857 0.00 0.00 46.27 3.27
2891 3098 6.293955 CGTTAATTTCATCAAACAGTGGGTCT 60.294 38.462 0.00 0.00 0.00 3.85
2892 3099 5.856455 CGTTAATTTCATCAAACAGTGGGTC 59.144 40.000 0.00 0.00 0.00 4.46
2893 3100 5.300792 ACGTTAATTTCATCAAACAGTGGGT 59.699 36.000 0.00 0.00 0.00 4.51
2894 3101 5.768317 ACGTTAATTTCATCAAACAGTGGG 58.232 37.500 0.00 0.00 0.00 4.61
2895 3102 6.668323 AGACGTTAATTTCATCAAACAGTGG 58.332 36.000 0.00 0.00 0.00 4.00
2896 3103 7.351981 TGAGACGTTAATTTCATCAAACAGTG 58.648 34.615 0.00 0.00 0.00 3.66
2897 3104 7.441157 TCTGAGACGTTAATTTCATCAAACAGT 59.559 33.333 0.00 0.00 0.00 3.55
2898 3105 7.796838 TCTGAGACGTTAATTTCATCAAACAG 58.203 34.615 0.00 0.00 0.00 3.16
2899 3106 7.722795 TCTGAGACGTTAATTTCATCAAACA 57.277 32.000 0.00 0.00 0.00 2.83
2915 3122 9.929722 GCAAGAGTAGATAATATATCTGAGACG 57.070 37.037 9.58 0.00 0.00 4.18
2923 3130 8.898761 CGTGAGAGGCAAGAGTAGATAATATAT 58.101 37.037 0.00 0.00 0.00 0.86
2924 3131 7.883833 ACGTGAGAGGCAAGAGTAGATAATATA 59.116 37.037 0.00 0.00 0.00 0.86
2925 3132 6.717540 ACGTGAGAGGCAAGAGTAGATAATAT 59.282 38.462 0.00 0.00 0.00 1.28
2926 3133 6.017026 CACGTGAGAGGCAAGAGTAGATAATA 60.017 42.308 10.90 0.00 0.00 0.98
2927 3134 4.890581 ACGTGAGAGGCAAGAGTAGATAAT 59.109 41.667 0.00 0.00 0.00 1.28
2928 3135 4.096532 CACGTGAGAGGCAAGAGTAGATAA 59.903 45.833 10.90 0.00 0.00 1.75
2929 3136 3.628032 CACGTGAGAGGCAAGAGTAGATA 59.372 47.826 10.90 0.00 0.00 1.98
2930 3137 2.425312 CACGTGAGAGGCAAGAGTAGAT 59.575 50.000 10.90 0.00 0.00 1.98
2931 3138 1.813178 CACGTGAGAGGCAAGAGTAGA 59.187 52.381 10.90 0.00 0.00 2.59
2932 3139 1.813178 TCACGTGAGAGGCAAGAGTAG 59.187 52.381 15.76 0.00 0.00 2.57
2933 3140 1.905637 TCACGTGAGAGGCAAGAGTA 58.094 50.000 15.76 0.00 0.00 2.59
2934 3141 1.040646 TTCACGTGAGAGGCAAGAGT 58.959 50.000 19.11 0.00 0.00 3.24
2935 3142 2.154854 TTTCACGTGAGAGGCAAGAG 57.845 50.000 19.11 0.00 0.00 2.85
2936 3143 2.102420 TCTTTTCACGTGAGAGGCAAGA 59.898 45.455 19.11 17.18 0.00 3.02
2937 3144 2.483876 TCTTTTCACGTGAGAGGCAAG 58.516 47.619 19.11 15.41 0.00 4.01
2938 3145 2.613026 TCTTTTCACGTGAGAGGCAA 57.387 45.000 19.11 6.95 0.00 4.52
2939 3146 2.037121 TCATCTTTTCACGTGAGAGGCA 59.963 45.455 19.11 0.00 0.00 4.75
2940 3147 2.670414 CTCATCTTTTCACGTGAGAGGC 59.330 50.000 19.11 0.00 40.30 4.70
2941 3148 4.179926 TCTCATCTTTTCACGTGAGAGG 57.820 45.455 22.58 17.90 41.40 3.69
2943 3150 5.241728 TCTTCTCTCATCTTTTCACGTGAGA 59.758 40.000 19.11 12.05 43.34 3.27
2944 3151 5.465051 TCTTCTCTCATCTTTTCACGTGAG 58.535 41.667 19.11 7.68 39.47 3.51
2945 3152 5.453567 TCTTCTCTCATCTTTTCACGTGA 57.546 39.130 15.76 15.76 0.00 4.35
2946 3153 4.624882 CCTCTTCTCTCATCTTTTCACGTG 59.375 45.833 9.94 9.94 0.00 4.49
2947 3154 4.322349 CCCTCTTCTCTCATCTTTTCACGT 60.322 45.833 0.00 0.00 0.00 4.49
2948 3155 4.081972 TCCCTCTTCTCTCATCTTTTCACG 60.082 45.833 0.00 0.00 0.00 4.35
2949 3156 5.175127 GTCCCTCTTCTCTCATCTTTTCAC 58.825 45.833 0.00 0.00 0.00 3.18
2950 3157 4.223923 GGTCCCTCTTCTCTCATCTTTTCA 59.776 45.833 0.00 0.00 0.00 2.69
2951 3158 4.223923 TGGTCCCTCTTCTCTCATCTTTTC 59.776 45.833 0.00 0.00 0.00 2.29
2952 3159 4.171234 TGGTCCCTCTTCTCTCATCTTTT 58.829 43.478 0.00 0.00 0.00 2.27
2953 3160 3.796111 TGGTCCCTCTTCTCTCATCTTT 58.204 45.455 0.00 0.00 0.00 2.52
2954 3161 3.481559 TGGTCCCTCTTCTCTCATCTT 57.518 47.619 0.00 0.00 0.00 2.40
2955 3162 3.307506 CATGGTCCCTCTTCTCTCATCT 58.692 50.000 0.00 0.00 0.00 2.90
2956 3163 3.037549 ACATGGTCCCTCTTCTCTCATC 58.962 50.000 0.00 0.00 0.00 2.92
2957 3164 3.037549 GACATGGTCCCTCTTCTCTCAT 58.962 50.000 0.00 0.00 0.00 2.90
2958 3165 2.225369 TGACATGGTCCCTCTTCTCTCA 60.225 50.000 0.00 0.00 0.00 3.27
2959 3166 2.461695 TGACATGGTCCCTCTTCTCTC 58.538 52.381 0.00 0.00 0.00 3.20
2960 3167 2.630889 TGACATGGTCCCTCTTCTCT 57.369 50.000 0.00 0.00 0.00 3.10
2961 3168 3.703001 TTTGACATGGTCCCTCTTCTC 57.297 47.619 0.00 0.00 0.00 2.87
2962 3169 4.664688 ATTTTGACATGGTCCCTCTTCT 57.335 40.909 0.00 0.00 0.00 2.85
2963 3170 5.473039 CAAATTTTGACATGGTCCCTCTTC 58.527 41.667 2.88 0.00 0.00 2.87
2964 3171 4.262592 GCAAATTTTGACATGGTCCCTCTT 60.263 41.667 13.26 0.00 0.00 2.85
2965 3172 3.259123 GCAAATTTTGACATGGTCCCTCT 59.741 43.478 13.26 0.00 0.00 3.69
2966 3173 3.588955 GCAAATTTTGACATGGTCCCTC 58.411 45.455 13.26 0.00 0.00 4.30
2967 3174 2.302733 GGCAAATTTTGACATGGTCCCT 59.697 45.455 13.26 0.00 38.99 4.20
2968 3175 2.038295 TGGCAAATTTTGACATGGTCCC 59.962 45.455 13.69 2.85 45.57 4.46
2969 3176 3.399440 TGGCAAATTTTGACATGGTCC 57.601 42.857 13.69 3.53 45.57 4.46


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

AutoCloner maintained by Alex Coulton.