Multiple sequence alignment - TraesCS4D01G194400

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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 TraesCS4D01G194400 chr4D 100.000 3031 0 0 1 3031 337262678 337259648 0.000000e+00 5598
1 TraesCS4D01G194400 chr4D 90.909 110 6 3 2185 2294 480824293 480824188 8.760000e-31 145
2 TraesCS4D01G194400 chr4A 92.973 1978 75 24 851 2783 135353574 135355532 0.000000e+00 2824
3 TraesCS4D01G194400 chr4A 94.145 854 30 9 1 851 135346112 135346948 0.000000e+00 1282
4 TraesCS4D01G194400 chr4B 91.212 1593 66 29 1252 2783 416441539 416439960 0.000000e+00 2098
5 TraesCS4D01G194400 chr4B 89.326 965 60 25 180 1124 416442601 416441660 0.000000e+00 1171
6 TraesCS4D01G194400 chr4B 95.580 181 7 1 1 181 416442884 416442705 3.820000e-74 289
7 TraesCS4D01G194400 chr4B 93.069 101 5 2 2186 2286 608669008 608668910 2.440000e-31 147
8 TraesCS4D01G194400 chr4B 94.382 89 5 0 1137 1225 416441623 416441535 1.470000e-28 137
9 TraesCS4D01G194400 chr7A 89.474 133 7 5 885 1016 20999878 21000004 8.700000e-36 161
10 TraesCS4D01G194400 chr6D 100.000 82 0 0 2187 2268 82588540 82588621 5.230000e-33 152
11 TraesCS4D01G194400 chr6D 100.000 82 0 0 2187 2268 82589113 82589194 5.230000e-33 152
12 TraesCS4D01G194400 chr6D 87.692 130 7 8 2165 2292 63710359 63710481 3.150000e-30 143
13 TraesCS4D01G194400 chr6B 92.381 105 7 1 2162 2265 136804229 136804333 6.770000e-32 148
14 TraesCS4D01G194400 chr5A 96.667 90 2 1 2187 2276 395758496 395758408 6.770000e-32 148


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 TraesCS4D01G194400 chr4D 337259648 337262678 3030 True 5598.00 5598 100.000 1 3031 1 chr4D.!!$R1 3030
1 TraesCS4D01G194400 chr4A 135353574 135355532 1958 False 2824.00 2824 92.973 851 2783 1 chr4A.!!$F2 1932
2 TraesCS4D01G194400 chr4A 135346112 135346948 836 False 1282.00 1282 94.145 1 851 1 chr4A.!!$F1 850
3 TraesCS4D01G194400 chr4B 416439960 416442884 2924 True 923.75 2098 92.625 1 2783 4 chr4B.!!$R2 2782

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
923 1065 0.034896 AAAGCAGTCACCCCACTACG 59.965 55.0 0.0 0.0 0.0 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2849 3112 0.178767 CCGAATCAGATGACCCTGCA 59.821 55.0 0.0 0.0 34.28 4.41 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
111 112 1.071814 TCCGAGGTTTGTTTCCCCG 59.928 57.895 0.00 0.00 0.00 5.73
117 118 1.958579 AGGTTTGTTTCCCCGCTTAAC 59.041 47.619 0.00 0.00 0.00 2.01
122 123 1.673009 TTTCCCCGCTTAACGCCAG 60.673 57.895 0.00 0.00 41.76 4.85
158 159 3.300009 GAAGCATCAACCTGTTTGTTCG 58.700 45.455 0.00 0.00 36.49 3.95
170 171 0.685097 TTTGTTCGTCCTGCCTAGCT 59.315 50.000 0.00 0.00 0.00 3.32
199 305 5.830000 TCTAGCTTCTAACGCATGTCTTA 57.170 39.130 0.00 0.00 0.00 2.10
203 309 3.797256 GCTTCTAACGCATGTCTTATCGT 59.203 43.478 0.00 0.00 36.67 3.73
208 314 1.927174 ACGCATGTCTTATCGTCTTGC 59.073 47.619 0.00 0.00 0.00 4.01
281 387 1.970917 GCTCTGGGAACGCAATCACG 61.971 60.000 0.00 0.00 39.50 4.35
338 444 1.267261 CTGTCCTCGTTCGACAAGTCT 59.733 52.381 0.00 0.00 39.66 3.24
512 618 6.270231 AGAAGCCAGTTCTTAGGTAGAAGAAA 59.730 38.462 0.38 0.00 43.54 2.52
514 620 5.780793 AGCCAGTTCTTAGGTAGAAGAAAGA 59.219 40.000 0.38 0.00 44.83 2.52
566 672 6.744112 TCTCGAAATGGTTGCAAGTAATTTT 58.256 32.000 0.00 0.00 0.00 1.82
569 675 6.584563 TCGAAATGGTTGCAAGTAATTTTAGC 59.415 34.615 0.00 0.00 0.00 3.09
651 760 9.046296 AGACAAGAGAGTAAAATGTAAACTGTG 57.954 33.333 0.00 0.00 0.00 3.66
811 920 3.520290 TTAGTAGAACATCCTGTGGCG 57.480 47.619 0.00 0.00 0.00 5.69
818 927 2.315925 ACATCCTGTGGCGATAAGTG 57.684 50.000 0.00 0.00 0.00 3.16
839 981 1.007336 GGACCGCGTGTTCACTACAG 61.007 60.000 4.92 0.00 37.45 2.74
906 1048 2.557924 CCAACAAGCTGCCTGATGTAAA 59.442 45.455 5.06 0.00 0.00 2.01
907 1049 3.366679 CCAACAAGCTGCCTGATGTAAAG 60.367 47.826 5.06 0.00 0.00 1.85
908 1050 1.815003 ACAAGCTGCCTGATGTAAAGC 59.185 47.619 5.06 0.00 0.00 3.51
909 1051 1.814394 CAAGCTGCCTGATGTAAAGCA 59.186 47.619 0.00 0.00 36.32 3.91
913 1055 2.703416 CTGCCTGATGTAAAGCAGTCA 58.297 47.619 0.00 0.00 46.00 3.41
918 1060 1.702401 TGATGTAAAGCAGTCACCCCA 59.298 47.619 0.00 0.00 0.00 4.96
919 1061 2.084546 GATGTAAAGCAGTCACCCCAC 58.915 52.381 0.00 0.00 0.00 4.61
920 1062 1.136828 TGTAAAGCAGTCACCCCACT 58.863 50.000 0.00 0.00 0.00 4.00
921 1063 2.331166 TGTAAAGCAGTCACCCCACTA 58.669 47.619 0.00 0.00 0.00 2.74
922 1064 2.038033 TGTAAAGCAGTCACCCCACTAC 59.962 50.000 0.00 0.00 0.00 2.73
923 1065 0.034896 AAAGCAGTCACCCCACTACG 59.965 55.000 0.00 0.00 0.00 3.51
924 1066 1.827399 AAGCAGTCACCCCACTACGG 61.827 60.000 0.00 0.00 0.00 4.02
957 1099 6.118852 GGCCTCACAAATTCTATCTCTTCTT 58.881 40.000 0.00 0.00 0.00 2.52
958 1100 6.259829 GGCCTCACAAATTCTATCTCTTCTTC 59.740 42.308 0.00 0.00 0.00 2.87
1081 1223 2.310052 CCCACCCCTCTTCATCTTCTTT 59.690 50.000 0.00 0.00 0.00 2.52
1106 1259 1.698506 CCTCCTCGAGTTGCTAGGAT 58.301 55.000 12.31 0.00 37.78 3.24
1124 1277 2.160013 GGATTCGTGTCGTCGTTTGAAG 60.160 50.000 0.00 0.00 0.00 3.02
1125 1278 1.202203 TTCGTGTCGTCGTTTGAAGG 58.798 50.000 0.00 0.00 0.00 3.46
1126 1279 0.381445 TCGTGTCGTCGTTTGAAGGA 59.619 50.000 0.00 0.00 0.00 3.36
1127 1280 0.776451 CGTGTCGTCGTTTGAAGGAG 59.224 55.000 0.00 0.00 0.00 3.69
1244 1424 5.409520 TGAATGCTAACGCTATCATCCAATC 59.590 40.000 0.00 0.00 36.97 2.67
1254 1434 5.494724 GCTATCATCCAATCTAGGCATGAA 58.505 41.667 0.00 0.00 0.00 2.57
1257 1437 7.201714 GCTATCATCCAATCTAGGCATGAATTC 60.202 40.741 0.00 0.00 0.00 2.17
1301 1489 8.364142 GCTAGTTGTTGGACTATCTAGAATCAT 58.636 37.037 0.00 0.00 32.07 2.45
1302 1490 9.689976 CTAGTTGTTGGACTATCTAGAATCATG 57.310 37.037 0.00 0.00 32.07 3.07
1305 1493 5.604231 TGTTGGACTATCTAGAATCATGGCT 59.396 40.000 0.00 0.00 0.00 4.75
1357 1545 3.409026 ACTGAATCTTCGGTTCTTGCT 57.591 42.857 0.00 0.00 44.02 3.91
1378 1566 1.591158 GCAACCGGATGTGTATGTACG 59.409 52.381 9.46 0.00 0.00 3.67
1562 1753 3.435186 GCGGAGGCACAGGAAAGC 61.435 66.667 0.00 0.00 39.62 3.51
1736 1927 4.016706 CCGGCGGACAAGAAGGGT 62.017 66.667 24.41 0.00 0.00 4.34
1985 2185 1.740296 CGTCATGTTCGGGACCACC 60.740 63.158 0.00 0.00 0.00 4.61
2124 2348 6.730960 ACACCGTGATTGTACGAATTAAAT 57.269 33.333 5.28 0.00 46.46 1.40
2276 2519 3.064958 CAGCAGCCACATCTCACTATTTG 59.935 47.826 0.00 0.00 0.00 2.32
2335 2590 4.526262 GGCTCTGATTAGCTCTTATGGAGA 59.474 45.833 0.00 0.00 44.45 3.71
2522 2778 2.892640 CCGCTCCATCGACTTCCA 59.107 61.111 0.00 0.00 0.00 3.53
2567 2824 2.202566 CCTTTTCCTCGTCTAATCGGC 58.797 52.381 0.00 0.00 0.00 5.54
2609 2866 1.153429 CTAAAACCCTAGCGCGCCT 60.153 57.895 30.33 17.79 0.00 5.52
2617 2874 3.477224 CTAGCGCGCCTCTGTCTCC 62.477 68.421 30.33 0.00 0.00 3.71
2635 2892 2.676471 AACCATTCCGTGCAGGCC 60.676 61.111 0.00 0.00 40.77 5.19
2637 2894 4.738998 CCATTCCGTGCAGGCCCA 62.739 66.667 0.00 0.00 40.77 5.36
2639 2896 4.431131 ATTCCGTGCAGGCCCAGG 62.431 66.667 0.00 0.00 40.77 4.45
2788 3051 4.684134 AGGTGCGCCCCATTGCTT 62.684 61.111 12.68 0.00 34.57 3.91
2789 3052 3.694538 GGTGCGCCCCATTGCTTT 61.695 61.111 3.18 0.00 0.00 3.51
2790 3053 2.343387 GTGCGCCCCATTGCTTTT 59.657 55.556 4.18 0.00 0.00 2.27
2791 3054 1.737735 GTGCGCCCCATTGCTTTTC 60.738 57.895 4.18 0.00 0.00 2.29
2792 3055 2.506881 GCGCCCCATTGCTTTTCG 60.507 61.111 0.00 0.00 0.00 3.46
2793 3056 2.961768 CGCCCCATTGCTTTTCGT 59.038 55.556 0.00 0.00 0.00 3.85
2794 3057 1.154035 CGCCCCATTGCTTTTCGTC 60.154 57.895 0.00 0.00 0.00 4.20
2795 3058 1.586154 CGCCCCATTGCTTTTCGTCT 61.586 55.000 0.00 0.00 0.00 4.18
2796 3059 0.171231 GCCCCATTGCTTTTCGTCTC 59.829 55.000 0.00 0.00 0.00 3.36
2797 3060 0.811281 CCCCATTGCTTTTCGTCTCC 59.189 55.000 0.00 0.00 0.00 3.71
2798 3061 1.614317 CCCCATTGCTTTTCGTCTCCT 60.614 52.381 0.00 0.00 0.00 3.69
2799 3062 1.740025 CCCATTGCTTTTCGTCTCCTC 59.260 52.381 0.00 0.00 0.00 3.71
2800 3063 2.616510 CCCATTGCTTTTCGTCTCCTCT 60.617 50.000 0.00 0.00 0.00 3.69
2801 3064 2.417933 CCATTGCTTTTCGTCTCCTCTG 59.582 50.000 0.00 0.00 0.00 3.35
2802 3065 2.910688 TTGCTTTTCGTCTCCTCTGT 57.089 45.000 0.00 0.00 0.00 3.41
2803 3066 2.154854 TGCTTTTCGTCTCCTCTGTG 57.845 50.000 0.00 0.00 0.00 3.66
2804 3067 1.686587 TGCTTTTCGTCTCCTCTGTGA 59.313 47.619 0.00 0.00 0.00 3.58
2805 3068 2.102420 TGCTTTTCGTCTCCTCTGTGAA 59.898 45.455 0.00 0.00 0.00 3.18
2806 3069 3.244215 TGCTTTTCGTCTCCTCTGTGAAT 60.244 43.478 0.00 0.00 0.00 2.57
2807 3070 3.748568 GCTTTTCGTCTCCTCTGTGAATT 59.251 43.478 0.00 0.00 0.00 2.17
2808 3071 4.214332 GCTTTTCGTCTCCTCTGTGAATTT 59.786 41.667 0.00 0.00 0.00 1.82
2809 3072 5.673337 TTTTCGTCTCCTCTGTGAATTTG 57.327 39.130 0.00 0.00 0.00 2.32
2810 3073 4.600692 TTCGTCTCCTCTGTGAATTTGA 57.399 40.909 0.00 0.00 0.00 2.69
2811 3074 4.808414 TCGTCTCCTCTGTGAATTTGAT 57.192 40.909 0.00 0.00 0.00 2.57
2812 3075 4.498241 TCGTCTCCTCTGTGAATTTGATG 58.502 43.478 0.00 0.00 0.00 3.07
2813 3076 4.021104 TCGTCTCCTCTGTGAATTTGATGT 60.021 41.667 0.00 0.00 0.00 3.06
2814 3077 4.328440 CGTCTCCTCTGTGAATTTGATGTC 59.672 45.833 0.00 0.00 0.00 3.06
2815 3078 4.633565 GTCTCCTCTGTGAATTTGATGTCC 59.366 45.833 0.00 0.00 0.00 4.02
2816 3079 3.944015 CTCCTCTGTGAATTTGATGTCCC 59.056 47.826 0.00 0.00 0.00 4.46
2817 3080 3.330405 TCCTCTGTGAATTTGATGTCCCA 59.670 43.478 0.00 0.00 0.00 4.37
2818 3081 4.081406 CCTCTGTGAATTTGATGTCCCAA 58.919 43.478 0.00 0.00 0.00 4.12
2819 3082 4.082571 CCTCTGTGAATTTGATGTCCCAAC 60.083 45.833 0.00 0.00 0.00 3.77
2820 3083 4.728772 TCTGTGAATTTGATGTCCCAACT 58.271 39.130 0.00 0.00 0.00 3.16
2821 3084 4.761739 TCTGTGAATTTGATGTCCCAACTC 59.238 41.667 0.00 0.00 0.00 3.01
2822 3085 4.728772 TGTGAATTTGATGTCCCAACTCT 58.271 39.130 0.00 0.00 0.00 3.24
2823 3086 4.761739 TGTGAATTTGATGTCCCAACTCTC 59.238 41.667 0.00 0.00 0.00 3.20
2824 3087 4.761739 GTGAATTTGATGTCCCAACTCTCA 59.238 41.667 0.00 0.00 0.00 3.27
2825 3088 5.241506 GTGAATTTGATGTCCCAACTCTCAA 59.758 40.000 0.00 0.00 0.00 3.02
2826 3089 5.474532 TGAATTTGATGTCCCAACTCTCAAG 59.525 40.000 0.00 0.00 32.85 3.02
2827 3090 4.705110 TTTGATGTCCCAACTCTCAAGA 57.295 40.909 0.00 0.00 32.85 3.02
2828 3091 3.685139 TGATGTCCCAACTCTCAAGAC 57.315 47.619 0.00 0.00 0.00 3.01
2829 3092 2.972021 TGATGTCCCAACTCTCAAGACA 59.028 45.455 0.00 0.00 41.35 3.41
2830 3093 3.390967 TGATGTCCCAACTCTCAAGACAA 59.609 43.478 0.00 0.00 40.56 3.18
2831 3094 3.475566 TGTCCCAACTCTCAAGACAAG 57.524 47.619 0.00 0.00 34.68 3.16
2832 3095 2.147150 GTCCCAACTCTCAAGACAAGC 58.853 52.381 0.00 0.00 0.00 4.01
2833 3096 1.768275 TCCCAACTCTCAAGACAAGCA 59.232 47.619 0.00 0.00 0.00 3.91
2834 3097 2.373169 TCCCAACTCTCAAGACAAGCAT 59.627 45.455 0.00 0.00 0.00 3.79
2835 3098 3.152341 CCCAACTCTCAAGACAAGCATT 58.848 45.455 0.00 0.00 0.00 3.56
2836 3099 3.190118 CCCAACTCTCAAGACAAGCATTC 59.810 47.826 0.00 0.00 0.00 2.67
2837 3100 3.190118 CCAACTCTCAAGACAAGCATTCC 59.810 47.826 0.00 0.00 0.00 3.01
2838 3101 3.777106 ACTCTCAAGACAAGCATTCCA 57.223 42.857 0.00 0.00 0.00 3.53
2839 3102 4.298103 ACTCTCAAGACAAGCATTCCAT 57.702 40.909 0.00 0.00 0.00 3.41
2840 3103 5.426689 ACTCTCAAGACAAGCATTCCATA 57.573 39.130 0.00 0.00 0.00 2.74
2841 3104 5.809001 ACTCTCAAGACAAGCATTCCATAA 58.191 37.500 0.00 0.00 0.00 1.90
2842 3105 6.421485 ACTCTCAAGACAAGCATTCCATAAT 58.579 36.000 0.00 0.00 0.00 1.28
2843 3106 6.318144 ACTCTCAAGACAAGCATTCCATAATG 59.682 38.462 0.00 0.00 44.53 1.90
2862 3125 1.602311 GCCTAATGCAGGGTCATCTG 58.398 55.000 0.00 0.00 45.66 2.90
2863 3126 1.141657 GCCTAATGCAGGGTCATCTGA 59.858 52.381 0.00 0.00 45.66 3.27
2864 3127 2.224719 GCCTAATGCAGGGTCATCTGAT 60.225 50.000 0.00 0.00 45.66 2.90
2865 3128 3.749954 GCCTAATGCAGGGTCATCTGATT 60.750 47.826 0.00 0.00 45.66 2.57
2866 3129 4.070716 CCTAATGCAGGGTCATCTGATTC 58.929 47.826 0.00 0.00 41.26 2.52
2867 3130 2.251409 ATGCAGGGTCATCTGATTCG 57.749 50.000 0.00 0.00 36.93 3.34
2868 3131 0.178767 TGCAGGGTCATCTGATTCGG 59.821 55.000 0.00 0.00 36.93 4.30
2869 3132 1.162800 GCAGGGTCATCTGATTCGGC 61.163 60.000 0.00 0.00 36.93 5.54
2870 3133 0.467384 CAGGGTCATCTGATTCGGCT 59.533 55.000 0.00 0.00 36.93 5.52
2871 3134 1.134280 CAGGGTCATCTGATTCGGCTT 60.134 52.381 0.00 0.00 36.93 4.35
2872 3135 1.561542 AGGGTCATCTGATTCGGCTTT 59.438 47.619 0.00 0.00 0.00 3.51
2873 3136 1.672881 GGGTCATCTGATTCGGCTTTG 59.327 52.381 0.00 0.00 0.00 2.77
2874 3137 2.632377 GGTCATCTGATTCGGCTTTGA 58.368 47.619 0.00 0.00 0.00 2.69
2875 3138 3.009723 GGTCATCTGATTCGGCTTTGAA 58.990 45.455 0.00 0.00 0.00 2.69
2876 3139 3.440173 GGTCATCTGATTCGGCTTTGAAA 59.560 43.478 0.00 0.00 0.00 2.69
2877 3140 4.406943 GTCATCTGATTCGGCTTTGAAAC 58.593 43.478 0.00 0.00 0.00 2.78
2878 3141 4.154918 GTCATCTGATTCGGCTTTGAAACT 59.845 41.667 0.00 0.00 0.00 2.66
2879 3142 4.154737 TCATCTGATTCGGCTTTGAAACTG 59.845 41.667 0.00 0.00 0.00 3.16
2880 3143 2.226437 TCTGATTCGGCTTTGAAACTGC 59.774 45.455 0.00 0.00 0.00 4.40
2881 3144 2.227388 CTGATTCGGCTTTGAAACTGCT 59.773 45.455 0.00 0.00 0.00 4.24
2882 3145 2.622942 TGATTCGGCTTTGAAACTGCTT 59.377 40.909 0.00 0.00 0.00 3.91
2883 3146 3.818210 TGATTCGGCTTTGAAACTGCTTA 59.182 39.130 0.00 0.00 0.00 3.09
2884 3147 4.458989 TGATTCGGCTTTGAAACTGCTTAT 59.541 37.500 0.00 0.00 0.00 1.73
2885 3148 5.645929 TGATTCGGCTTTGAAACTGCTTATA 59.354 36.000 0.00 0.00 0.00 0.98
2886 3149 6.318648 TGATTCGGCTTTGAAACTGCTTATAT 59.681 34.615 0.00 0.00 0.00 0.86
2887 3150 6.509418 TTCGGCTTTGAAACTGCTTATATT 57.491 33.333 0.00 0.00 0.00 1.28
2888 3151 6.509418 TCGGCTTTGAAACTGCTTATATTT 57.491 33.333 0.00 0.00 0.00 1.40
2889 3152 6.919721 TCGGCTTTGAAACTGCTTATATTTT 58.080 32.000 0.00 0.00 0.00 1.82
2890 3153 6.806249 TCGGCTTTGAAACTGCTTATATTTTG 59.194 34.615 0.00 0.00 0.00 2.44
2891 3154 6.454186 CGGCTTTGAAACTGCTTATATTTTGC 60.454 38.462 0.00 0.00 0.00 3.68
2892 3155 6.368516 GGCTTTGAAACTGCTTATATTTTGCA 59.631 34.615 0.00 0.00 35.30 4.08
2893 3156 7.064966 GGCTTTGAAACTGCTTATATTTTGCAT 59.935 33.333 0.00 0.00 36.07 3.96
2894 3157 9.086336 GCTTTGAAACTGCTTATATTTTGCATA 57.914 29.630 0.00 0.00 36.07 3.14
2926 3189 4.717233 TTTTGCGATGGATTGCATAACT 57.283 36.364 2.32 0.00 45.92 2.24
2927 3190 5.826601 TTTTGCGATGGATTGCATAACTA 57.173 34.783 2.32 0.00 45.92 2.24
2928 3191 5.422666 TTTGCGATGGATTGCATAACTAG 57.577 39.130 2.32 0.00 45.92 2.57
2929 3192 4.071961 TGCGATGGATTGCATAACTAGT 57.928 40.909 0.00 0.00 42.04 2.57
2930 3193 4.450976 TGCGATGGATTGCATAACTAGTT 58.549 39.130 13.68 13.68 42.04 2.24
2931 3194 5.606505 TGCGATGGATTGCATAACTAGTTA 58.393 37.500 17.41 17.41 42.04 2.24
2932 3195 5.465390 TGCGATGGATTGCATAACTAGTTAC 59.535 40.000 17.45 6.87 42.04 2.50
2933 3196 5.696724 GCGATGGATTGCATAACTAGTTACT 59.303 40.000 17.45 4.85 37.15 2.24
2934 3197 6.346919 GCGATGGATTGCATAACTAGTTACTG 60.347 42.308 17.45 16.08 37.15 2.74
2935 3198 6.146184 CGATGGATTGCATAACTAGTTACTGG 59.854 42.308 17.45 11.09 0.00 4.00
2936 3199 6.553953 TGGATTGCATAACTAGTTACTGGA 57.446 37.500 17.45 14.18 0.00 3.86
2937 3200 7.136822 TGGATTGCATAACTAGTTACTGGAT 57.863 36.000 17.45 9.66 0.00 3.41
2938 3201 7.217200 TGGATTGCATAACTAGTTACTGGATC 58.783 38.462 17.45 16.29 0.00 3.36
2939 3202 7.147567 TGGATTGCATAACTAGTTACTGGATCA 60.148 37.037 17.45 12.44 0.00 2.92
2940 3203 7.171678 GGATTGCATAACTAGTTACTGGATCAC 59.828 40.741 17.45 11.10 0.00 3.06
2941 3204 6.538945 TGCATAACTAGTTACTGGATCACA 57.461 37.500 17.45 7.51 0.00 3.58
2942 3205 6.941857 TGCATAACTAGTTACTGGATCACAA 58.058 36.000 17.45 0.00 0.00 3.33
2943 3206 7.041721 TGCATAACTAGTTACTGGATCACAAG 58.958 38.462 17.45 0.00 0.00 3.16
2944 3207 7.042335 GCATAACTAGTTACTGGATCACAAGT 58.958 38.462 17.45 0.00 0.00 3.16
2945 3208 7.549488 GCATAACTAGTTACTGGATCACAAGTT 59.451 37.037 17.45 0.70 0.00 2.66
2946 3209 9.436957 CATAACTAGTTACTGGATCACAAGTTT 57.563 33.333 17.45 0.00 0.00 2.66
2947 3210 7.730364 AACTAGTTACTGGATCACAAGTTTG 57.270 36.000 6.26 0.00 0.00 2.93
2948 3211 7.062749 ACTAGTTACTGGATCACAAGTTTGA 57.937 36.000 1.98 0.00 0.00 2.69
2949 3212 7.506114 ACTAGTTACTGGATCACAAGTTTGAA 58.494 34.615 1.98 0.00 0.00 2.69
2950 3213 7.990886 ACTAGTTACTGGATCACAAGTTTGAAA 59.009 33.333 1.98 0.00 0.00 2.69
2951 3214 7.027778 AGTTACTGGATCACAAGTTTGAAAC 57.972 36.000 0.00 0.00 0.00 2.78
2952 3215 6.828785 AGTTACTGGATCACAAGTTTGAAACT 59.171 34.615 4.45 4.45 45.46 2.66
2953 3216 5.505173 ACTGGATCACAAGTTTGAAACTG 57.495 39.130 11.83 8.41 41.91 3.16
2954 3217 4.949856 ACTGGATCACAAGTTTGAAACTGT 59.050 37.500 11.83 9.01 41.91 3.55
2955 3218 6.119536 ACTGGATCACAAGTTTGAAACTGTA 58.880 36.000 11.83 0.00 41.91 2.74
2956 3219 6.260936 ACTGGATCACAAGTTTGAAACTGTAG 59.739 38.462 11.83 7.51 41.91 2.74
2957 3220 6.119536 TGGATCACAAGTTTGAAACTGTAGT 58.880 36.000 11.83 8.13 41.91 2.73
2958 3221 6.601613 TGGATCACAAGTTTGAAACTGTAGTT 59.398 34.615 11.83 0.00 41.91 2.24
2971 3234 5.552870 AACTGTAGTTTCAGTCTCATGGT 57.447 39.130 0.00 0.00 46.25 3.55
2972 3235 6.665992 AACTGTAGTTTCAGTCTCATGGTA 57.334 37.500 0.00 0.00 46.25 3.25
2973 3236 6.026947 ACTGTAGTTTCAGTCTCATGGTAC 57.973 41.667 0.00 0.00 44.07 3.34
2974 3237 5.775701 ACTGTAGTTTCAGTCTCATGGTACT 59.224 40.000 0.00 0.00 44.07 2.73
2975 3238 6.946583 ACTGTAGTTTCAGTCTCATGGTACTA 59.053 38.462 0.00 0.00 44.07 1.82
2976 3239 7.450634 ACTGTAGTTTCAGTCTCATGGTACTAA 59.549 37.037 0.00 0.00 44.07 2.24
2977 3240 8.362464 TGTAGTTTCAGTCTCATGGTACTAAT 57.638 34.615 0.00 0.00 0.00 1.73
2978 3241 9.470399 TGTAGTTTCAGTCTCATGGTACTAATA 57.530 33.333 0.00 0.00 0.00 0.98
3007 3270 3.452755 ACTTACCTTGCAAAAAGTGGC 57.547 42.857 16.48 0.00 31.20 5.01
3008 3271 2.763448 ACTTACCTTGCAAAAAGTGGCA 59.237 40.909 16.48 0.00 38.46 4.92
3009 3272 2.880963 TACCTTGCAAAAAGTGGCAC 57.119 45.000 10.29 10.29 40.23 5.01
3010 3273 0.177836 ACCTTGCAAAAAGTGGCACC 59.822 50.000 15.27 0.00 40.23 5.01
3011 3274 0.875474 CCTTGCAAAAAGTGGCACCG 60.875 55.000 15.27 0.00 40.23 4.94
3012 3275 1.489881 CTTGCAAAAAGTGGCACCGC 61.490 55.000 15.27 10.06 40.23 5.68
3013 3276 2.105930 GCAAAAAGTGGCACCGCA 59.894 55.556 15.27 0.00 0.00 5.69
3014 3277 1.300853 GCAAAAAGTGGCACCGCAT 60.301 52.632 15.27 0.00 0.00 4.73
3015 3278 1.559149 GCAAAAAGTGGCACCGCATG 61.559 55.000 15.27 10.13 0.00 4.06
3024 3287 3.850923 CACCGCATGCAAAAGCAG 58.149 55.556 19.57 0.00 0.00 4.24
3025 3288 1.286570 CACCGCATGCAAAAGCAGA 59.713 52.632 19.57 0.00 0.00 4.26
3026 3289 0.108992 CACCGCATGCAAAAGCAGAT 60.109 50.000 19.57 0.00 0.00 2.90
3027 3290 1.132834 CACCGCATGCAAAAGCAGATA 59.867 47.619 19.57 0.00 0.00 1.98
3028 3291 1.402968 ACCGCATGCAAAAGCAGATAG 59.597 47.619 19.57 0.00 0.00 2.08
3029 3292 1.474017 CGCATGCAAAAGCAGATAGC 58.526 50.000 19.57 0.00 46.19 2.97
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
111 112 0.863144 TCGTCAAACTGGCGTTAAGC 59.137 50.000 0.11 0.00 46.84 3.09
122 123 1.663643 TGCTTCCGCATATCGTCAAAC 59.336 47.619 0.00 0.00 42.25 2.93
147 148 0.535102 AGGCAGGACGAACAAACAGG 60.535 55.000 0.00 0.00 0.00 4.00
158 159 5.393678 GCTAGATAATGTAGCTAGGCAGGAC 60.394 48.000 9.06 0.00 43.22 3.85
170 171 7.658261 ACATGCGTTAGAAGCTAGATAATGTA 58.342 34.615 0.00 0.00 35.28 2.29
199 305 2.221169 TGCAGAAAACAGCAAGACGAT 58.779 42.857 0.00 0.00 37.90 3.73
203 309 2.555325 CTGGATGCAGAAAACAGCAAGA 59.445 45.455 8.85 0.00 44.88 3.02
208 314 6.053650 TGAGATATCTGGATGCAGAAAACAG 58.946 40.000 21.52 0.00 34.56 3.16
269 375 1.006832 AGGCATACGTGATTGCGTTC 58.993 50.000 0.00 0.00 43.04 3.95
338 444 3.243301 GCTTATCGGACGACTTGTATCCA 60.243 47.826 0.00 0.00 32.35 3.41
512 618 3.460648 GCGAGTTGCAACCCTATCT 57.539 52.632 25.62 6.19 45.45 1.98
566 672 3.709653 CACACTACATCCCCTAAAGGCTA 59.290 47.826 0.00 0.00 0.00 3.93
569 675 3.517901 TCACACACTACATCCCCTAAAGG 59.482 47.826 0.00 0.00 0.00 3.11
628 736 8.283291 GTCCACAGTTTACATTTTACTCTCTTG 58.717 37.037 0.00 0.00 0.00 3.02
629 737 8.211629 AGTCCACAGTTTACATTTTACTCTCTT 58.788 33.333 0.00 0.00 0.00 2.85
630 738 7.736893 AGTCCACAGTTTACATTTTACTCTCT 58.263 34.615 0.00 0.00 0.00 3.10
631 739 7.656137 TGAGTCCACAGTTTACATTTTACTCTC 59.344 37.037 0.00 0.00 32.75 3.20
632 740 7.506114 TGAGTCCACAGTTTACATTTTACTCT 58.494 34.615 0.00 0.00 32.75 3.24
651 760 2.616510 CCCAGTCCACAAATCTGAGTCC 60.617 54.545 0.00 0.00 0.00 3.85
765 874 6.183360 ACAAAGCCAGAGAATTGATTGTCAAA 60.183 34.615 4.05 0.00 40.12 2.69
766 875 5.302568 ACAAAGCCAGAGAATTGATTGTCAA 59.697 36.000 4.05 0.00 41.09 3.18
767 876 4.828939 ACAAAGCCAGAGAATTGATTGTCA 59.171 37.500 4.05 0.00 32.96 3.58
768 877 5.382618 ACAAAGCCAGAGAATTGATTGTC 57.617 39.130 0.00 0.00 0.00 3.18
769 878 5.796424 AACAAAGCCAGAGAATTGATTGT 57.204 34.783 0.00 0.00 0.00 2.71
770 879 7.373493 ACTAAACAAAGCCAGAGAATTGATTG 58.627 34.615 0.00 0.00 0.00 2.67
771 880 7.530426 ACTAAACAAAGCCAGAGAATTGATT 57.470 32.000 0.00 0.00 0.00 2.57
772 881 8.103305 TCTACTAAACAAAGCCAGAGAATTGAT 58.897 33.333 0.00 0.00 0.00 2.57
773 882 7.450074 TCTACTAAACAAAGCCAGAGAATTGA 58.550 34.615 0.00 0.00 0.00 2.57
774 883 7.672983 TCTACTAAACAAAGCCAGAGAATTG 57.327 36.000 0.00 0.00 0.00 2.32
811 920 0.389426 ACACGCGGTCCACACTTATC 60.389 55.000 12.47 0.00 0.00 1.75
818 927 1.007038 TAGTGAACACGCGGTCCAC 60.007 57.895 12.47 10.11 36.20 4.02
906 1048 2.283529 CCGTAGTGGGGTGACTGCT 61.284 63.158 0.00 0.00 0.00 4.24
907 1049 1.252904 TACCGTAGTGGGGTGACTGC 61.253 60.000 0.00 0.00 44.64 4.40
908 1050 0.529378 GTACCGTAGTGGGGTGACTG 59.471 60.000 0.00 0.00 44.64 3.51
909 1051 0.962356 CGTACCGTAGTGGGGTGACT 60.962 60.000 0.00 0.00 44.64 3.41
910 1052 1.508088 CGTACCGTAGTGGGGTGAC 59.492 63.158 0.00 0.00 44.64 3.67
911 1053 1.678635 CCGTACCGTAGTGGGGTGA 60.679 63.158 0.00 0.00 44.64 4.02
912 1054 2.713967 CCCGTACCGTAGTGGGGTG 61.714 68.421 7.63 0.00 44.64 4.61
913 1055 2.228841 ATCCCGTACCGTAGTGGGGT 62.229 60.000 13.51 5.99 44.64 4.95
918 1060 2.129785 GGCCATCCCGTACCGTAGT 61.130 63.158 0.00 0.00 0.00 2.73
919 1061 1.803366 GAGGCCATCCCGTACCGTAG 61.803 65.000 5.01 0.00 39.21 3.51
920 1062 1.829533 GAGGCCATCCCGTACCGTA 60.830 63.158 5.01 0.00 39.21 4.02
921 1063 3.152400 GAGGCCATCCCGTACCGT 61.152 66.667 5.01 0.00 39.21 4.83
922 1064 3.151710 TGAGGCCATCCCGTACCG 61.152 66.667 5.01 0.00 39.21 4.02
923 1065 1.906105 TTGTGAGGCCATCCCGTACC 61.906 60.000 5.01 0.00 39.21 3.34
924 1066 0.035820 TTTGTGAGGCCATCCCGTAC 60.036 55.000 5.01 0.00 39.21 3.67
1040 1182 0.523519 GGAGCTTACTTTGGCAGTGC 59.476 55.000 6.55 6.55 35.97 4.40
1081 1223 1.258445 GCAACTCGAGGAGGGGAAGA 61.258 60.000 18.41 0.00 33.35 2.87
1106 1259 1.202203 CCTTCAAACGACGACACGAA 58.798 50.000 0.00 0.00 37.03 3.85
1124 1277 4.421948 CGGCATATCTTCCGTTATACTCC 58.578 47.826 0.00 0.00 40.72 3.85
1125 1278 4.421948 CCGGCATATCTTCCGTTATACTC 58.578 47.826 0.00 0.00 43.87 2.59
1126 1279 3.368116 GCCGGCATATCTTCCGTTATACT 60.368 47.826 24.80 0.00 43.87 2.12
1127 1280 2.928116 GCCGGCATATCTTCCGTTATAC 59.072 50.000 24.80 0.00 43.87 1.47
1156 1336 4.959757 GTGCACTAAACTCGTTACAACAAC 59.040 41.667 10.32 0.00 0.00 3.32
1244 1424 6.318144 ACTTGTCAAGATGAATTCATGCCTAG 59.682 38.462 25.37 11.23 36.57 3.02
1254 1434 3.760684 GCTGGGAACTTGTCAAGATGAAT 59.239 43.478 19.53 0.10 0.00 2.57
1257 1437 2.787994 AGCTGGGAACTTGTCAAGATG 58.212 47.619 19.53 0.00 0.00 2.90
1301 1489 3.735237 TTTCGCCAACAATTTTAGCCA 57.265 38.095 0.00 0.00 0.00 4.75
1302 1490 4.241681 TCATTTCGCCAACAATTTTAGCC 58.758 39.130 0.00 0.00 0.00 3.93
1305 1493 9.868277 AATTATCTCATTTCGCCAACAATTTTA 57.132 25.926 0.00 0.00 0.00 1.52
1356 1544 1.737838 ACATACACATCCGGTTGCAG 58.262 50.000 12.54 8.07 0.00 4.41
1357 1545 2.623535 GTACATACACATCCGGTTGCA 58.376 47.619 12.54 0.00 0.00 4.08
1445 1633 2.093447 AGCGGTTCCTATCTTGTGGAAG 60.093 50.000 0.00 0.00 42.27 3.46
1477 1665 0.829333 GAGCTCATTCTGAGGCCTCA 59.171 55.000 33.04 33.04 44.43 3.86
1985 2185 0.179161 CGAGCTTCCACACGAGGTAG 60.179 60.000 0.00 0.00 0.00 3.18
2154 2390 9.203421 CATCACACAGACAGTTTACTTAACATA 57.797 33.333 0.00 0.00 39.30 2.29
2155 2391 7.715249 ACATCACACAGACAGTTTACTTAACAT 59.285 33.333 0.00 0.00 39.30 2.71
2166 2402 3.623060 GTGTTCAACATCACACAGACAGT 59.377 43.478 0.00 0.00 42.51 3.55
2167 2403 3.002656 GGTGTTCAACATCACACAGACAG 59.997 47.826 0.00 0.00 44.40 3.51
2295 2538 4.148871 CAGAGCCGTTAATCGTCATATGTG 59.851 45.833 1.90 0.00 37.94 3.21
2296 2539 4.037565 TCAGAGCCGTTAATCGTCATATGT 59.962 41.667 1.90 0.00 37.94 2.29
2299 2542 4.848562 ATCAGAGCCGTTAATCGTCATA 57.151 40.909 0.00 0.00 37.94 2.15
2302 2545 3.425858 GCTAATCAGAGCCGTTAATCGTC 59.574 47.826 0.00 0.00 36.38 4.20
2335 2590 2.520536 GGGGTCTGGCTGTCAGTGT 61.521 63.158 9.38 0.00 43.76 3.55
2522 2778 0.252375 AAATCACCTGGGGCTGCAAT 60.252 50.000 0.50 0.00 0.00 3.56
2609 2866 1.001974 CACGGAATGGTTGGAGACAGA 59.998 52.381 0.00 0.00 44.54 3.41
2617 2874 2.568090 GCCTGCACGGAATGGTTG 59.432 61.111 6.40 0.00 33.16 3.77
2783 3046 2.102420 TCACAGAGGAGACGAAAAGCAA 59.898 45.455 0.00 0.00 0.00 3.91
2784 3047 1.686587 TCACAGAGGAGACGAAAAGCA 59.313 47.619 0.00 0.00 0.00 3.91
2785 3048 2.440539 TCACAGAGGAGACGAAAAGC 57.559 50.000 0.00 0.00 0.00 3.51
2786 3049 5.466728 TCAAATTCACAGAGGAGACGAAAAG 59.533 40.000 0.00 0.00 0.00 2.27
2787 3050 5.364778 TCAAATTCACAGAGGAGACGAAAA 58.635 37.500 0.00 0.00 0.00 2.29
2788 3051 4.956085 TCAAATTCACAGAGGAGACGAAA 58.044 39.130 0.00 0.00 0.00 3.46
2789 3052 4.600692 TCAAATTCACAGAGGAGACGAA 57.399 40.909 0.00 0.00 0.00 3.85
2790 3053 4.021104 ACATCAAATTCACAGAGGAGACGA 60.021 41.667 0.00 0.00 0.00 4.20
2791 3054 4.248859 ACATCAAATTCACAGAGGAGACG 58.751 43.478 0.00 0.00 0.00 4.18
2792 3055 4.633565 GGACATCAAATTCACAGAGGAGAC 59.366 45.833 0.00 0.00 0.00 3.36
2793 3056 4.323792 GGGACATCAAATTCACAGAGGAGA 60.324 45.833 0.00 0.00 0.00 3.71
2794 3057 3.944015 GGGACATCAAATTCACAGAGGAG 59.056 47.826 0.00 0.00 0.00 3.69
2795 3058 3.330405 TGGGACATCAAATTCACAGAGGA 59.670 43.478 0.00 0.00 0.00 3.71
2796 3059 3.689347 TGGGACATCAAATTCACAGAGG 58.311 45.455 0.00 0.00 0.00 3.69
2797 3060 4.763793 AGTTGGGACATCAAATTCACAGAG 59.236 41.667 0.00 0.00 39.30 3.35
2798 3061 4.728772 AGTTGGGACATCAAATTCACAGA 58.271 39.130 0.00 0.00 39.30 3.41
2799 3062 4.763793 AGAGTTGGGACATCAAATTCACAG 59.236 41.667 0.00 0.00 39.30 3.66
2800 3063 4.728772 AGAGTTGGGACATCAAATTCACA 58.271 39.130 0.00 0.00 39.30 3.58
2801 3064 4.761739 TGAGAGTTGGGACATCAAATTCAC 59.238 41.667 0.00 0.00 39.30 3.18
2802 3065 4.984295 TGAGAGTTGGGACATCAAATTCA 58.016 39.130 0.00 0.00 39.30 2.57
2803 3066 5.707298 TCTTGAGAGTTGGGACATCAAATTC 59.293 40.000 0.00 0.00 39.30 2.17
2804 3067 5.474876 GTCTTGAGAGTTGGGACATCAAATT 59.525 40.000 0.00 0.00 39.30 1.82
2805 3068 5.006386 GTCTTGAGAGTTGGGACATCAAAT 58.994 41.667 0.00 0.00 39.30 2.32
2806 3069 4.141505 TGTCTTGAGAGTTGGGACATCAAA 60.142 41.667 0.00 0.00 39.30 2.69
2807 3070 3.390967 TGTCTTGAGAGTTGGGACATCAA 59.609 43.478 0.00 0.00 39.30 2.57
2808 3071 2.972021 TGTCTTGAGAGTTGGGACATCA 59.028 45.455 0.00 0.00 39.30 3.07
2809 3072 3.685139 TGTCTTGAGAGTTGGGACATC 57.315 47.619 0.00 0.00 39.30 3.06
2810 3073 3.808618 GCTTGTCTTGAGAGTTGGGACAT 60.809 47.826 0.00 0.00 39.30 3.06
2811 3074 2.485479 GCTTGTCTTGAGAGTTGGGACA 60.485 50.000 0.00 0.00 35.51 4.02
2812 3075 2.147150 GCTTGTCTTGAGAGTTGGGAC 58.853 52.381 0.00 0.00 0.00 4.46
2813 3076 1.768275 TGCTTGTCTTGAGAGTTGGGA 59.232 47.619 0.00 0.00 0.00 4.37
2814 3077 2.260844 TGCTTGTCTTGAGAGTTGGG 57.739 50.000 0.00 0.00 0.00 4.12
2815 3078 3.190118 GGAATGCTTGTCTTGAGAGTTGG 59.810 47.826 0.00 0.00 0.00 3.77
2816 3079 3.817084 TGGAATGCTTGTCTTGAGAGTTG 59.183 43.478 0.00 0.00 0.00 3.16
2817 3080 4.090761 TGGAATGCTTGTCTTGAGAGTT 57.909 40.909 0.00 0.00 0.00 3.01
2818 3081 3.777106 TGGAATGCTTGTCTTGAGAGT 57.223 42.857 0.00 0.00 0.00 3.24
2819 3082 6.726230 CATTATGGAATGCTTGTCTTGAGAG 58.274 40.000 0.00 0.00 36.29 3.20
2820 3083 6.688637 CATTATGGAATGCTTGTCTTGAGA 57.311 37.500 0.00 0.00 36.29 3.27
2843 3106 1.141657 TCAGATGACCCTGCATTAGGC 59.858 52.381 0.00 0.00 45.89 3.93
2844 3107 3.784511 ATCAGATGACCCTGCATTAGG 57.215 47.619 0.00 0.00 46.88 2.69
2845 3108 3.744942 CGAATCAGATGACCCTGCATTAG 59.255 47.826 0.00 0.00 34.28 1.73
2846 3109 3.494924 CCGAATCAGATGACCCTGCATTA 60.495 47.826 0.00 0.00 34.28 1.90
2847 3110 2.569059 CGAATCAGATGACCCTGCATT 58.431 47.619 0.00 0.00 34.28 3.56
2848 3111 1.202734 CCGAATCAGATGACCCTGCAT 60.203 52.381 0.00 0.00 34.28 3.96
2849 3112 0.178767 CCGAATCAGATGACCCTGCA 59.821 55.000 0.00 0.00 34.28 4.41
2850 3113 1.162800 GCCGAATCAGATGACCCTGC 61.163 60.000 0.00 0.00 34.28 4.85
2851 3114 0.467384 AGCCGAATCAGATGACCCTG 59.533 55.000 0.00 0.00 35.55 4.45
2852 3115 1.207791 AAGCCGAATCAGATGACCCT 58.792 50.000 0.00 0.00 0.00 4.34
2853 3116 1.672881 CAAAGCCGAATCAGATGACCC 59.327 52.381 0.00 0.00 0.00 4.46
2854 3117 2.632377 TCAAAGCCGAATCAGATGACC 58.368 47.619 0.00 0.00 0.00 4.02
2855 3118 4.154918 AGTTTCAAAGCCGAATCAGATGAC 59.845 41.667 0.00 0.00 0.00 3.06
2856 3119 4.154737 CAGTTTCAAAGCCGAATCAGATGA 59.845 41.667 0.00 0.00 0.00 2.92
2857 3120 4.409570 CAGTTTCAAAGCCGAATCAGATG 58.590 43.478 0.00 0.00 0.00 2.90
2858 3121 3.119708 GCAGTTTCAAAGCCGAATCAGAT 60.120 43.478 0.00 0.00 0.00 2.90
2859 3122 2.226437 GCAGTTTCAAAGCCGAATCAGA 59.774 45.455 0.00 0.00 0.00 3.27
2860 3123 2.227388 AGCAGTTTCAAAGCCGAATCAG 59.773 45.455 0.00 0.00 0.00 2.90
2861 3124 2.229792 AGCAGTTTCAAAGCCGAATCA 58.770 42.857 0.00 0.00 0.00 2.57
2862 3125 2.997485 AGCAGTTTCAAAGCCGAATC 57.003 45.000 0.00 0.00 0.00 2.52
2863 3126 6.699575 ATATAAGCAGTTTCAAAGCCGAAT 57.300 33.333 0.00 0.00 0.00 3.34
2864 3127 6.509418 AATATAAGCAGTTTCAAAGCCGAA 57.491 33.333 0.00 0.00 0.00 4.30
2865 3128 6.509418 AAATATAAGCAGTTTCAAAGCCGA 57.491 33.333 0.00 0.00 0.00 5.54
2866 3129 6.454186 GCAAAATATAAGCAGTTTCAAAGCCG 60.454 38.462 0.00 0.00 0.00 5.52
2867 3130 6.368516 TGCAAAATATAAGCAGTTTCAAAGCC 59.631 34.615 0.00 0.00 33.75 4.35
2868 3131 7.350110 TGCAAAATATAAGCAGTTTCAAAGC 57.650 32.000 0.00 0.00 33.75 3.51
2904 3167 5.070770 AGTTATGCAATCCATCGCAAAAA 57.929 34.783 0.00 0.00 42.37 1.94
2905 3168 4.717233 AGTTATGCAATCCATCGCAAAA 57.283 36.364 0.00 0.00 42.37 2.44
2906 3169 4.881273 ACTAGTTATGCAATCCATCGCAAA 59.119 37.500 0.00 0.00 42.37 3.68
2907 3170 4.450976 ACTAGTTATGCAATCCATCGCAA 58.549 39.130 0.00 0.00 42.37 4.85
2908 3171 4.071961 ACTAGTTATGCAATCCATCGCA 57.928 40.909 0.00 0.00 43.45 5.10
2909 3172 5.696724 AGTAACTAGTTATGCAATCCATCGC 59.303 40.000 18.03 1.38 35.34 4.58
2910 3173 6.146184 CCAGTAACTAGTTATGCAATCCATCG 59.854 42.308 18.03 0.00 35.34 3.84
2911 3174 7.217200 TCCAGTAACTAGTTATGCAATCCATC 58.783 38.462 18.03 2.05 35.34 3.51
2912 3175 7.136822 TCCAGTAACTAGTTATGCAATCCAT 57.863 36.000 18.03 0.00 37.97 3.41
2913 3176 6.553953 TCCAGTAACTAGTTATGCAATCCA 57.446 37.500 18.03 0.00 0.00 3.41
2914 3177 7.171678 GTGATCCAGTAACTAGTTATGCAATCC 59.828 40.741 18.03 4.10 0.00 3.01
2915 3178 7.710907 TGTGATCCAGTAACTAGTTATGCAATC 59.289 37.037 18.03 16.97 0.00 2.67
2916 3179 7.564793 TGTGATCCAGTAACTAGTTATGCAAT 58.435 34.615 18.03 10.08 0.00 3.56
2917 3180 6.941857 TGTGATCCAGTAACTAGTTATGCAA 58.058 36.000 18.03 6.01 0.00 4.08
2918 3181 6.538945 TGTGATCCAGTAACTAGTTATGCA 57.461 37.500 18.03 5.15 0.00 3.96
2919 3182 7.042335 ACTTGTGATCCAGTAACTAGTTATGC 58.958 38.462 18.03 6.85 0.00 3.14
2920 3183 9.436957 AAACTTGTGATCCAGTAACTAGTTATG 57.563 33.333 18.03 15.40 38.39 1.90
2921 3184 9.436957 CAAACTTGTGATCCAGTAACTAGTTAT 57.563 33.333 18.03 3.08 38.39 1.89
2922 3185 8.644216 TCAAACTTGTGATCCAGTAACTAGTTA 58.356 33.333 11.38 11.38 38.39 2.24
2923 3186 7.506114 TCAAACTTGTGATCCAGTAACTAGTT 58.494 34.615 13.68 13.68 40.13 2.24
2924 3187 7.062749 TCAAACTTGTGATCCAGTAACTAGT 57.937 36.000 0.00 0.00 32.47 2.57
2925 3188 7.962964 TTCAAACTTGTGATCCAGTAACTAG 57.037 36.000 0.00 0.00 0.00 2.57
2926 3189 7.990886 AGTTTCAAACTTGTGATCCAGTAACTA 59.009 33.333 0.00 0.00 39.04 2.24
2927 3190 6.828785 AGTTTCAAACTTGTGATCCAGTAACT 59.171 34.615 0.00 0.00 39.04 2.24
2928 3191 6.912591 CAGTTTCAAACTTGTGATCCAGTAAC 59.087 38.462 0.00 0.00 40.46 2.50
2929 3192 6.601613 ACAGTTTCAAACTTGTGATCCAGTAA 59.398 34.615 0.00 0.00 40.46 2.24
2930 3193 6.119536 ACAGTTTCAAACTTGTGATCCAGTA 58.880 36.000 0.00 0.00 40.46 2.74
2931 3194 4.949856 ACAGTTTCAAACTTGTGATCCAGT 59.050 37.500 0.00 0.00 40.46 4.00
2932 3195 5.505173 ACAGTTTCAAACTTGTGATCCAG 57.495 39.130 0.00 0.00 40.46 3.86
2933 3196 6.119536 ACTACAGTTTCAAACTTGTGATCCA 58.880 36.000 0.00 0.00 40.46 3.41
2934 3197 6.619801 ACTACAGTTTCAAACTTGTGATCC 57.380 37.500 0.00 0.00 40.46 3.36
2951 3214 6.274157 AGTACCATGAGACTGAAACTACAG 57.726 41.667 0.00 0.00 42.78 2.74
2952 3215 7.770366 TTAGTACCATGAGACTGAAACTACA 57.230 36.000 9.11 0.00 0.00 2.74
2981 3244 7.817478 GCCACTTTTTGCAAGGTAAGTATAATT 59.183 33.333 17.71 0.00 30.19 1.40
2982 3245 7.039363 TGCCACTTTTTGCAAGGTAAGTATAAT 60.039 33.333 17.71 0.35 33.87 1.28
2983 3246 6.265649 TGCCACTTTTTGCAAGGTAAGTATAA 59.734 34.615 17.71 8.14 33.87 0.98
2984 3247 5.770663 TGCCACTTTTTGCAAGGTAAGTATA 59.229 36.000 17.71 8.85 33.87 1.47
2985 3248 4.586841 TGCCACTTTTTGCAAGGTAAGTAT 59.413 37.500 17.71 1.42 33.87 2.12
2986 3249 3.954904 TGCCACTTTTTGCAAGGTAAGTA 59.045 39.130 17.71 5.99 33.87 2.24
2987 3250 2.763448 TGCCACTTTTTGCAAGGTAAGT 59.237 40.909 14.32 14.32 33.87 2.24
2988 3251 3.123050 GTGCCACTTTTTGCAAGGTAAG 58.877 45.455 13.35 13.35 39.57 2.34
2989 3252 2.159028 GGTGCCACTTTTTGCAAGGTAA 60.159 45.455 0.00 0.00 39.57 2.85
2990 3253 1.410882 GGTGCCACTTTTTGCAAGGTA 59.589 47.619 0.00 0.00 39.57 3.08
2991 3254 0.177836 GGTGCCACTTTTTGCAAGGT 59.822 50.000 0.00 0.00 39.57 3.50
2992 3255 0.875474 CGGTGCCACTTTTTGCAAGG 60.875 55.000 0.00 0.00 39.57 3.61
2993 3256 1.489881 GCGGTGCCACTTTTTGCAAG 61.490 55.000 0.00 0.00 39.57 4.01
2994 3257 1.520342 GCGGTGCCACTTTTTGCAA 60.520 52.632 0.00 0.00 39.57 4.08
2995 3258 2.025767 ATGCGGTGCCACTTTTTGCA 62.026 50.000 0.00 0.00 35.10 4.08
2996 3259 1.300853 ATGCGGTGCCACTTTTTGC 60.301 52.632 0.00 0.00 0.00 3.68
2997 3260 2.519826 CATGCGGTGCCACTTTTTG 58.480 52.632 0.00 0.00 0.00 2.44


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

AutoCloner maintained by Alex Coulton.