Multiple sequence alignment - TraesCS1A01G266900

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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 TraesCS1A01G266900 chr1A 100.000 3175 0 0 1 3175 462334071 462337245 0.000000e+00 5864
1 TraesCS1A01G266900 chr1A 82.043 323 41 9 1050 1362 558125547 558125862 3.140000e-65 259
2 TraesCS1A01G266900 chr1B 92.155 2677 119 41 1 2641 486344670 486347291 0.000000e+00 3696
3 TraesCS1A01G266900 chr1B 82.440 336 27 8 2640 2945 486347347 486347680 6.750000e-67 265
4 TraesCS1A01G266900 chr1D 94.657 1591 45 14 786 2342 363107945 363109529 0.000000e+00 2431
5 TraesCS1A01G266900 chr1D 90.483 746 32 17 1 745 363107228 363107935 0.000000e+00 948
6 TraesCS1A01G266900 chr1D 89.399 283 7 9 2378 2641 363109528 363109806 5.070000e-88 335
7 TraesCS1A01G266900 chr2D 88.177 203 18 4 1229 1426 643265506 643265305 1.470000e-58 237


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 TraesCS1A01G266900 chr1A 462334071 462337245 3174 False 5864.0 5864 100.0000 1 3175 1 chr1A.!!$F1 3174
1 TraesCS1A01G266900 chr1B 486344670 486347680 3010 False 1980.5 3696 87.2975 1 2945 2 chr1B.!!$F1 2944
2 TraesCS1A01G266900 chr1D 363107228 363109806 2578 False 1238.0 2431 91.5130 1 2641 3 chr1D.!!$F1 2640

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
278 280 0.174845 CTGCCCCGTCTTACGATTGA 59.825 55.0 0.15 0.00 46.05 2.57 F
909 919 0.661552 CATCTGCTAAAGCGCTGCAT 59.338 50.0 19.68 8.45 45.83 3.96 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1274 1295 0.523335 GCCGCGACATTAAAAGCAGG 60.523 55.0 8.23 0.0 0.00 4.85 R
2412 2461 0.111089 GACGAGCAAAGCAGACGTTG 60.111 55.0 0.00 0.0 38.18 4.10 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
73 74 7.934354 ATCCAATCCAATCCAATCCAATAAA 57.066 32.000 0.00 0.00 0.00 1.40
76 77 8.780003 TCCAATCCAATCCAATCCAATAAATTT 58.220 29.630 0.00 0.00 0.00 1.82
81 82 9.673283 TCCAATCCAATCCAATAAATTTATCCT 57.327 29.630 11.08 0.00 0.00 3.24
123 124 3.546397 GCCGTCTTCGCTTCGCTC 61.546 66.667 0.00 0.00 35.54 5.03
129 130 4.430765 TTCGCTTCGCTCGGACCC 62.431 66.667 0.00 0.00 0.00 4.46
162 163 6.704493 GGTTGGTTGGATTTTAGAAAGTTTCC 59.296 38.462 12.05 0.00 0.00 3.13
175 176 1.071987 GTTTCCCCCGTTCGTTCCT 59.928 57.895 0.00 0.00 0.00 3.36
213 214 3.937079 CCTTACCATTCGGTTACTTGTCC 59.063 47.826 0.00 0.00 46.31 4.02
214 215 4.563993 CCTTACCATTCGGTTACTTGTCCA 60.564 45.833 0.00 0.00 46.31 4.02
215 216 3.053831 ACCATTCGGTTACTTGTCCAG 57.946 47.619 0.00 0.00 46.31 3.86
216 217 2.370849 ACCATTCGGTTACTTGTCCAGT 59.629 45.455 0.00 0.00 46.31 4.00
217 218 3.181448 ACCATTCGGTTACTTGTCCAGTT 60.181 43.478 0.00 0.00 46.31 3.16
218 219 3.818773 CCATTCGGTTACTTGTCCAGTTT 59.181 43.478 0.00 0.00 36.88 2.66
219 220 4.277423 CCATTCGGTTACTTGTCCAGTTTT 59.723 41.667 0.00 0.00 36.88 2.43
220 221 4.886247 TTCGGTTACTTGTCCAGTTTTG 57.114 40.909 0.00 0.00 36.88 2.44
221 222 2.614983 TCGGTTACTTGTCCAGTTTTGC 59.385 45.455 0.00 0.00 36.88 3.68
222 223 2.616842 CGGTTACTTGTCCAGTTTTGCT 59.383 45.455 0.00 0.00 36.88 3.91
223 224 3.066203 CGGTTACTTGTCCAGTTTTGCTT 59.934 43.478 0.00 0.00 36.88 3.91
224 225 4.359706 GGTTACTTGTCCAGTTTTGCTTG 58.640 43.478 0.00 0.00 36.88 4.01
225 226 4.142249 GGTTACTTGTCCAGTTTTGCTTGT 60.142 41.667 0.00 0.00 36.88 3.16
226 227 3.782889 ACTTGTCCAGTTTTGCTTGTC 57.217 42.857 0.00 0.00 27.32 3.18
276 278 0.460311 CTCTGCCCCGTCTTACGATT 59.540 55.000 0.15 0.00 46.05 3.34
278 280 0.174845 CTGCCCCGTCTTACGATTGA 59.825 55.000 0.15 0.00 46.05 2.57
288 290 5.347635 CCGTCTTACGATTGATTGTTTCTCA 59.652 40.000 0.15 0.00 46.05 3.27
312 314 3.181496 GGCAGTTTCGATTTGGGATCTTC 60.181 47.826 0.00 0.00 0.00 2.87
418 420 9.201989 TCTGATTCCTTTGCTCTAGAGTAATAA 57.798 33.333 21.88 16.47 33.20 1.40
419 421 9.995003 CTGATTCCTTTGCTCTAGAGTAATAAT 57.005 33.333 21.88 19.56 33.20 1.28
574 576 7.114247 GTCTCTAACTAATGACTGCGATTGATC 59.886 40.741 0.00 0.00 0.00 2.92
604 606 2.932614 CCAGGCTAAACATCTCTGTTCG 59.067 50.000 0.00 0.00 44.83 3.95
646 648 2.722094 TGCCCGCTAGTTTGATTTGAT 58.278 42.857 0.00 0.00 0.00 2.57
647 649 3.879998 TGCCCGCTAGTTTGATTTGATA 58.120 40.909 0.00 0.00 0.00 2.15
648 650 3.625764 TGCCCGCTAGTTTGATTTGATAC 59.374 43.478 0.00 0.00 0.00 2.24
659 665 7.106239 AGTTTGATTTGATACTACCAGAGTGG 58.894 38.462 0.00 0.00 45.02 4.00
677 683 1.888512 TGGCAGTTGCTTTCAGAATCC 59.111 47.619 3.88 0.00 41.70 3.01
678 684 1.203287 GGCAGTTGCTTTCAGAATCCC 59.797 52.381 3.88 0.00 41.70 3.85
679 685 1.203287 GCAGTTGCTTTCAGAATCCCC 59.797 52.381 0.00 0.00 38.21 4.81
751 758 2.442272 TCCGGCTACTCTGCTCCC 60.442 66.667 0.00 0.00 0.00 4.30
758 765 1.406205 GCTACTCTGCTCCCAAGAACC 60.406 57.143 0.00 0.00 0.00 3.62
780 787 4.766891 CCAAGAAATGGGTTCACATACTGT 59.233 41.667 0.00 0.00 46.27 3.55
781 788 5.106157 CCAAGAAATGGGTTCACATACTGTC 60.106 44.000 0.00 0.00 46.27 3.51
782 789 4.253685 AGAAATGGGTTCACATACTGTCG 58.746 43.478 0.00 0.00 38.86 4.35
783 790 3.973206 AATGGGTTCACATACTGTCGA 57.027 42.857 0.00 0.00 0.00 4.20
784 791 4.487714 AATGGGTTCACATACTGTCGAT 57.512 40.909 0.00 0.00 0.00 3.59
903 913 1.003116 GATGTGGCATCTGCTAAAGCG 60.003 52.381 1.70 0.00 45.83 4.68
909 919 0.661552 CATCTGCTAAAGCGCTGCAT 59.338 50.000 19.68 8.45 45.83 3.96
957 967 2.016318 CAGCATATCCGTTTGCCTTCA 58.984 47.619 0.00 0.00 39.72 3.02
984 997 2.222819 GCAAGAATATATACGCAGCCGC 60.223 50.000 0.00 0.00 38.22 6.53
985 998 2.295253 AGAATATATACGCAGCCGCC 57.705 50.000 0.00 0.00 38.22 6.13
986 999 0.921347 GAATATATACGCAGCCGCCG 59.079 55.000 0.00 0.00 38.22 6.46
1005 1018 1.139734 GCTCGTGCGAGAGATGGAA 59.860 57.895 23.57 0.00 44.53 3.53
1008 1021 1.202348 CTCGTGCGAGAGATGGAACAT 60.202 52.381 15.65 0.00 44.15 2.71
1110 1126 2.766229 GGTGGAGGAGGAGGAGGC 60.766 72.222 0.00 0.00 0.00 4.70
1274 1295 0.517316 GTCGTGTCCATGCCTTGTTC 59.483 55.000 0.00 0.00 0.00 3.18
2154 2191 3.315142 ATGCAGGCGCCGAAGAAGA 62.315 57.895 23.20 1.99 37.32 2.87
2192 2229 3.050275 GGTGGTTCTGCAGCGGTC 61.050 66.667 9.47 0.00 0.00 4.79
2193 2230 3.414700 GTGGTTCTGCAGCGGTCG 61.415 66.667 9.47 0.00 0.00 4.79
2195 2232 4.681978 GGTTCTGCAGCGGTCGGT 62.682 66.667 9.47 0.00 0.00 4.69
2197 2234 2.357034 TTCTGCAGCGGTCGGTTC 60.357 61.111 9.47 0.00 0.00 3.62
2198 2235 4.717629 TCTGCAGCGGTCGGTTCG 62.718 66.667 9.47 0.00 0.00 3.95
2232 2269 0.517316 GTTGGAGGCAGTAACTTGCG 59.483 55.000 0.00 0.00 45.00 4.85
2288 2331 3.374745 CTTGTTAGCAGGCTGTTTTGTG 58.625 45.455 17.16 0.00 0.00 3.33
2343 2386 5.189180 AGTTTTCTTCACATATCAGGGCTC 58.811 41.667 0.00 0.00 0.00 4.70
2344 2387 5.045286 AGTTTTCTTCACATATCAGGGCTCT 60.045 40.000 0.00 0.00 0.00 4.09
2366 2414 2.187073 GCTGGAATGCCTGAACTGG 58.813 57.895 0.00 0.00 35.28 4.00
2412 2461 4.779523 CGATCGTTTTATGTTGAACGTTCC 59.220 41.667 24.78 11.39 46.26 3.62
2483 2538 2.743938 CAACAACTGTAGCAGAGTCGT 58.256 47.619 2.91 0.00 35.18 4.34
2485 2540 1.069159 ACAACTGTAGCAGAGTCGTCG 60.069 52.381 2.91 0.00 35.18 5.12
2577 2632 8.847196 TCTCTTAATAAGCAATAACTCTAGCGA 58.153 33.333 0.00 0.00 0.00 4.93
2587 2642 3.851976 AACTCTAGCGAAGTCGTCATT 57.148 42.857 2.25 0.00 42.22 2.57
2588 2643 4.959596 AACTCTAGCGAAGTCGTCATTA 57.040 40.909 2.25 0.00 42.22 1.90
2589 2644 5.502153 AACTCTAGCGAAGTCGTCATTAT 57.498 39.130 2.25 0.00 42.22 1.28
2590 2645 5.098218 ACTCTAGCGAAGTCGTCATTATC 57.902 43.478 2.25 0.00 42.22 1.75
2592 2647 5.066117 ACTCTAGCGAAGTCGTCATTATCAA 59.934 40.000 2.25 0.00 42.22 2.57
2649 2779 3.138468 AGAGTGGTAATCTATTTGGGGGC 59.862 47.826 0.00 0.00 0.00 5.80
2655 2785 5.016831 GGTAATCTATTTGGGGGCTATTGG 58.983 45.833 0.00 0.00 0.00 3.16
2656 2786 3.833559 ATCTATTTGGGGGCTATTGGG 57.166 47.619 0.00 0.00 0.00 4.12
2678 2810 0.387239 GTTTGGAGCGCGCTTCATTT 60.387 50.000 40.46 16.41 30.62 2.32
2679 2811 0.313672 TTTGGAGCGCGCTTCATTTT 59.686 45.000 40.46 15.55 30.62 1.82
2685 2817 1.786579 AGCGCGCTTCATTTTGAAAAC 59.213 42.857 31.32 0.00 35.73 2.43
2692 2824 4.270894 GCTTCATTTTGAAAACGGTTTGC 58.729 39.130 1.45 5.69 35.73 3.68
2693 2825 4.504385 CTTCATTTTGAAAACGGTTTGCG 58.496 39.130 1.45 0.00 35.73 4.85
2708 2840 4.364860 GGTTTGCGGTGAGTAACATTTTT 58.635 39.130 0.00 0.00 0.00 1.94
2714 2846 4.069304 CGGTGAGTAACATTTTTCCCTCA 58.931 43.478 0.00 0.00 0.00 3.86
2754 2906 2.854522 GGTAGCACCGCATTTGACT 58.145 52.632 0.00 0.00 0.00 3.41
2758 2910 1.174712 AGCACCGCATTTGACTGCTT 61.175 50.000 0.00 0.00 40.06 3.91
2760 2912 0.109597 CACCGCATTTGACTGCTTCC 60.110 55.000 0.00 0.00 40.06 3.46
2762 2914 0.169672 CCGCATTTGACTGCTTCCAG 59.830 55.000 0.00 0.00 44.80 3.86
2765 2917 0.169672 CATTTGACTGCTTCCAGCCG 59.830 55.000 0.00 0.00 43.02 5.52
2820 2979 1.956629 CTCGACCCCCGCATGTTAGT 61.957 60.000 0.00 0.00 38.37 2.24
2831 2990 3.057104 CCGCATGTTAGTCCATCGGTATA 60.057 47.826 0.00 0.00 34.10 1.47
2843 3002 7.232188 AGTCCATCGGTATAGAGTCAAATCTA 58.768 38.462 0.00 0.00 36.27 1.98
2858 3017 9.303537 GAGTCAAATCTAGCGACTTTAATAGTT 57.696 33.333 0.00 0.00 40.04 2.24
2869 3028 5.811100 CGACTTTAATAGTTCCTTCACCTCC 59.189 44.000 0.00 0.00 37.17 4.30
2872 3031 3.889520 AATAGTTCCTTCACCTCCGAC 57.110 47.619 0.00 0.00 0.00 4.79
2876 3035 1.530013 TTCCTTCACCTCCGACGACC 61.530 60.000 0.00 0.00 0.00 4.79
2901 3060 4.029809 ACCGCCTAGGCCAACACC 62.030 66.667 28.09 0.00 46.52 4.16
2903 3062 2.125106 CGCCTAGGCCAACACCTC 60.125 66.667 28.09 0.00 41.50 3.85
2908 3067 2.558554 CTAGGCCAACACCTCGTCCG 62.559 65.000 5.01 0.00 41.50 4.79
2945 3104 0.396435 TGGCAATCCCTATGCTACCG 59.604 55.000 0.00 0.00 43.34 4.02
2946 3105 0.396811 GGCAATCCCTATGCTACCGT 59.603 55.000 0.00 0.00 43.34 4.83
2947 3106 1.512926 GCAATCCCTATGCTACCGTG 58.487 55.000 0.00 0.00 40.64 4.94
2948 3107 1.878102 GCAATCCCTATGCTACCGTGG 60.878 57.143 0.00 0.00 40.64 4.94
2949 3108 0.396811 AATCCCTATGCTACCGTGGC 59.603 55.000 0.00 0.00 0.00 5.01
2950 3109 0.471971 ATCCCTATGCTACCGTGGCT 60.472 55.000 8.47 0.00 0.00 4.75
2951 3110 0.689745 TCCCTATGCTACCGTGGCTT 60.690 55.000 8.47 4.53 0.00 4.35
2952 3111 0.532862 CCCTATGCTACCGTGGCTTG 60.533 60.000 8.47 0.00 0.00 4.01
2953 3112 0.532862 CCTATGCTACCGTGGCTTGG 60.533 60.000 8.47 3.98 0.00 3.61
2954 3113 1.153249 TATGCTACCGTGGCTTGGC 60.153 57.895 8.47 0.00 0.00 4.52
2955 3114 1.904990 TATGCTACCGTGGCTTGGCA 61.905 55.000 8.47 0.00 0.00 4.92
2956 3115 3.127533 GCTACCGTGGCTTGGCAG 61.128 66.667 0.00 0.00 0.00 4.85
2957 3116 3.127533 CTACCGTGGCTTGGCAGC 61.128 66.667 0.00 1.00 46.52 5.25
2982 3141 3.771160 CCCTCCCGAACCGGTCTG 61.771 72.222 8.04 2.67 46.80 3.51
2983 3142 3.771160 CCTCCCGAACCGGTCTGG 61.771 72.222 8.04 13.32 46.80 3.86
2992 3151 2.494918 CCGGTCTGGTCCTTAGCG 59.505 66.667 0.00 8.19 0.00 4.26
2993 3152 2.050350 CCGGTCTGGTCCTTAGCGA 61.050 63.158 14.62 0.00 36.28 4.93
2994 3153 1.601419 CCGGTCTGGTCCTTAGCGAA 61.601 60.000 14.62 0.00 36.28 4.70
2995 3154 0.179134 CGGTCTGGTCCTTAGCGAAG 60.179 60.000 9.22 0.00 36.28 3.79
2996 3155 1.183549 GGTCTGGTCCTTAGCGAAGA 58.816 55.000 8.29 0.00 34.25 2.87
2997 3156 1.135333 GGTCTGGTCCTTAGCGAAGAG 59.865 57.143 8.29 0.00 34.25 2.85
2998 3157 2.093106 GTCTGGTCCTTAGCGAAGAGA 58.907 52.381 8.29 0.00 34.25 3.10
2999 3158 2.093106 TCTGGTCCTTAGCGAAGAGAC 58.907 52.381 8.29 12.56 34.25 3.36
3000 3159 1.135333 CTGGTCCTTAGCGAAGAGACC 59.865 57.143 26.00 26.00 44.83 3.85
3001 3160 0.100861 GGTCCTTAGCGAAGAGACCG 59.899 60.000 21.96 3.39 40.32 4.79
3002 3161 1.093159 GTCCTTAGCGAAGAGACCGA 58.907 55.000 8.29 0.00 34.25 4.69
3003 3162 1.471684 GTCCTTAGCGAAGAGACCGAA 59.528 52.381 8.29 0.00 34.25 4.30
3004 3163 1.743958 TCCTTAGCGAAGAGACCGAAG 59.256 52.381 8.29 0.00 34.25 3.79
3005 3164 1.743958 CCTTAGCGAAGAGACCGAAGA 59.256 52.381 8.29 0.00 34.25 2.87
3006 3165 2.163815 CCTTAGCGAAGAGACCGAAGAA 59.836 50.000 8.29 0.00 34.25 2.52
3007 3166 3.430931 CTTAGCGAAGAGACCGAAGAAG 58.569 50.000 0.00 0.00 34.25 2.85
3008 3167 1.535833 AGCGAAGAGACCGAAGAAGA 58.464 50.000 0.00 0.00 0.00 2.87
3009 3168 1.887198 AGCGAAGAGACCGAAGAAGAA 59.113 47.619 0.00 0.00 0.00 2.52
3010 3169 2.494073 AGCGAAGAGACCGAAGAAGAAT 59.506 45.455 0.00 0.00 0.00 2.40
3011 3170 2.600867 GCGAAGAGACCGAAGAAGAATG 59.399 50.000 0.00 0.00 0.00 2.67
3012 3171 2.600867 CGAAGAGACCGAAGAAGAATGC 59.399 50.000 0.00 0.00 0.00 3.56
3013 3172 2.285827 AGAGACCGAAGAAGAATGCG 57.714 50.000 0.00 0.00 0.00 4.73
3016 3175 3.813596 CCGAAGAAGAATGCGGGG 58.186 61.111 0.00 0.00 40.08 5.73
3017 3176 1.220749 CCGAAGAAGAATGCGGGGA 59.779 57.895 0.00 0.00 40.08 4.81
3018 3177 0.392461 CCGAAGAAGAATGCGGGGAA 60.392 55.000 0.00 0.00 40.08 3.97
3019 3178 1.009829 CGAAGAAGAATGCGGGGAAG 58.990 55.000 0.00 0.00 0.00 3.46
3020 3179 1.383523 GAAGAAGAATGCGGGGAAGG 58.616 55.000 0.00 0.00 0.00 3.46
3021 3180 0.681243 AAGAAGAATGCGGGGAAGGC 60.681 55.000 0.00 0.00 0.00 4.35
3022 3181 2.043953 AAGAATGCGGGGAAGGCC 60.044 61.111 0.00 0.00 0.00 5.19
3023 3182 3.995506 AAGAATGCGGGGAAGGCCG 62.996 63.158 0.00 0.00 33.83 6.13
3029 3188 3.861797 CGGGGAAGGCCGCACTAT 61.862 66.667 0.00 0.00 46.90 2.12
3030 3189 2.595655 GGGGAAGGCCGCACTATT 59.404 61.111 0.00 0.00 45.89 1.73
3031 3190 1.823899 GGGGAAGGCCGCACTATTG 60.824 63.158 0.00 0.00 45.89 1.90
3032 3191 2.481471 GGGAAGGCCGCACTATTGC 61.481 63.158 0.00 0.00 46.21 3.56
3044 3203 4.298744 GCACTATTGCCCTTGATTCTTC 57.701 45.455 0.00 0.00 43.66 2.87
3045 3204 3.067320 GCACTATTGCCCTTGATTCTTCC 59.933 47.826 0.00 0.00 43.66 3.46
3046 3205 4.272489 CACTATTGCCCTTGATTCTTCCA 58.728 43.478 0.00 0.00 0.00 3.53
3047 3206 4.706476 CACTATTGCCCTTGATTCTTCCAA 59.294 41.667 0.00 0.00 0.00 3.53
3048 3207 4.706962 ACTATTGCCCTTGATTCTTCCAAC 59.293 41.667 0.00 0.00 0.00 3.77
3049 3208 1.533625 TGCCCTTGATTCTTCCAACG 58.466 50.000 0.00 0.00 0.00 4.10
3050 3209 1.202879 TGCCCTTGATTCTTCCAACGT 60.203 47.619 0.00 0.00 0.00 3.99
3051 3210 1.468914 GCCCTTGATTCTTCCAACGTC 59.531 52.381 0.00 0.00 0.00 4.34
3052 3211 1.732259 CCCTTGATTCTTCCAACGTCG 59.268 52.381 0.00 0.00 0.00 5.12
3053 3212 1.732259 CCTTGATTCTTCCAACGTCGG 59.268 52.381 0.00 0.00 0.00 4.79
3054 3213 1.128692 CTTGATTCTTCCAACGTCGGC 59.871 52.381 0.00 0.00 0.00 5.54
3055 3214 1.011968 TGATTCTTCCAACGTCGGCG 61.012 55.000 8.42 8.42 44.93 6.46
3056 3215 0.734942 GATTCTTCCAACGTCGGCGA 60.735 55.000 20.03 4.99 42.00 5.54
3057 3216 0.320073 ATTCTTCCAACGTCGGCGAA 60.320 50.000 20.03 0.00 42.00 4.70
3058 3217 0.530211 TTCTTCCAACGTCGGCGAAA 60.530 50.000 20.03 3.65 42.00 3.46
3059 3218 1.203313 CTTCCAACGTCGGCGAAAC 59.797 57.895 20.03 0.00 42.00 2.78
3060 3219 2.474842 CTTCCAACGTCGGCGAAACG 62.475 60.000 20.03 15.96 45.37 3.60
3061 3220 4.067016 CCAACGTCGGCGAAACGG 62.067 66.667 20.03 12.61 44.21 4.44
3062 3221 4.067016 CAACGTCGGCGAAACGGG 62.067 66.667 20.03 11.95 44.21 5.28
3066 3225 4.668118 GTCGGCGAAACGGGGACA 62.668 66.667 12.92 0.00 0.00 4.02
3067 3226 4.668118 TCGGCGAAACGGGGACAC 62.668 66.667 7.35 0.00 0.00 3.67
3069 3228 4.324991 GGCGAAACGGGGACACCT 62.325 66.667 0.00 0.00 36.97 4.00
3070 3229 2.281276 GCGAAACGGGGACACCTT 60.281 61.111 0.00 0.00 36.97 3.50
3071 3230 2.322830 GCGAAACGGGGACACCTTC 61.323 63.158 0.00 0.00 36.97 3.46
3072 3231 1.670083 CGAAACGGGGACACCTTCC 60.670 63.158 0.00 0.00 45.00 3.46
3073 3232 1.759236 GAAACGGGGACACCTTCCT 59.241 57.895 0.00 0.00 45.09 3.36
3074 3233 0.978907 GAAACGGGGACACCTTCCTA 59.021 55.000 0.00 0.00 45.09 2.94
3075 3234 0.981943 AAACGGGGACACCTTCCTAG 59.018 55.000 0.00 0.00 45.09 3.02
3076 3235 0.178912 AACGGGGACACCTTCCTAGT 60.179 55.000 0.00 0.00 45.09 2.57
3077 3236 0.178912 ACGGGGACACCTTCCTAGTT 60.179 55.000 0.00 0.00 45.09 2.24
3078 3237 0.249398 CGGGGACACCTTCCTAGTTG 59.751 60.000 0.00 0.00 45.09 3.16
3079 3238 1.359168 GGGGACACCTTCCTAGTTGT 58.641 55.000 0.00 0.00 45.09 3.32
3080 3239 2.543635 GGGGACACCTTCCTAGTTGTA 58.456 52.381 0.00 0.00 45.09 2.41
3081 3240 2.235650 GGGGACACCTTCCTAGTTGTAC 59.764 54.545 0.00 0.00 45.09 2.90
3082 3241 2.094338 GGGACACCTTCCTAGTTGTACG 60.094 54.545 0.00 0.00 45.09 3.67
3083 3242 2.603953 GACACCTTCCTAGTTGTACGC 58.396 52.381 0.00 0.00 0.00 4.42
3084 3243 2.230750 GACACCTTCCTAGTTGTACGCT 59.769 50.000 0.00 0.00 0.00 5.07
3085 3244 3.424703 ACACCTTCCTAGTTGTACGCTA 58.575 45.455 0.00 0.00 0.00 4.26
3086 3245 3.442977 ACACCTTCCTAGTTGTACGCTAG 59.557 47.826 14.04 14.04 36.57 3.42
3087 3246 3.693085 CACCTTCCTAGTTGTACGCTAGA 59.307 47.826 19.68 8.24 38.47 2.43
3088 3247 3.693578 ACCTTCCTAGTTGTACGCTAGAC 59.306 47.826 19.68 1.75 38.47 2.59
3089 3248 3.066481 CCTTCCTAGTTGTACGCTAGACC 59.934 52.174 19.68 0.00 38.47 3.85
3090 3249 3.354948 TCCTAGTTGTACGCTAGACCA 57.645 47.619 19.68 6.31 38.47 4.02
3091 3250 3.276857 TCCTAGTTGTACGCTAGACCAG 58.723 50.000 19.68 8.14 38.47 4.00
3092 3251 3.054875 TCCTAGTTGTACGCTAGACCAGA 60.055 47.826 19.68 9.75 38.47 3.86
3093 3252 3.693085 CCTAGTTGTACGCTAGACCAGAA 59.307 47.826 19.68 0.00 38.47 3.02
3094 3253 4.157289 CCTAGTTGTACGCTAGACCAGAAA 59.843 45.833 19.68 0.00 38.47 2.52
3095 3254 3.910648 AGTTGTACGCTAGACCAGAAAC 58.089 45.455 0.00 0.00 0.00 2.78
3096 3255 2.624316 TGTACGCTAGACCAGAAACG 57.376 50.000 0.00 0.00 0.00 3.60
3097 3256 1.200716 TGTACGCTAGACCAGAAACGG 59.799 52.381 0.00 0.00 0.00 4.44
3098 3257 0.813184 TACGCTAGACCAGAAACGGG 59.187 55.000 0.00 0.00 0.00 5.28
3099 3258 1.810030 CGCTAGACCAGAAACGGGC 60.810 63.158 0.00 0.00 0.00 6.13
3100 3259 1.295423 GCTAGACCAGAAACGGGCA 59.705 57.895 0.00 0.00 35.99 5.36
3101 3260 0.107654 GCTAGACCAGAAACGGGCAT 60.108 55.000 0.00 0.00 35.99 4.40
3102 3261 1.656652 CTAGACCAGAAACGGGCATG 58.343 55.000 0.00 0.00 35.99 4.06
3103 3262 1.207089 CTAGACCAGAAACGGGCATGA 59.793 52.381 0.00 0.00 35.99 3.07
3104 3263 0.620556 AGACCAGAAACGGGCATGAT 59.379 50.000 0.00 0.00 35.99 2.45
3105 3264 0.734889 GACCAGAAACGGGCATGATG 59.265 55.000 0.00 0.00 32.44 3.07
3106 3265 0.038166 ACCAGAAACGGGCATGATGT 59.962 50.000 0.00 0.00 0.00 3.06
3107 3266 1.280710 ACCAGAAACGGGCATGATGTA 59.719 47.619 0.00 0.00 0.00 2.29
3108 3267 2.290641 ACCAGAAACGGGCATGATGTAA 60.291 45.455 0.00 0.00 0.00 2.41
3109 3268 2.752354 CCAGAAACGGGCATGATGTAAA 59.248 45.455 0.00 0.00 0.00 2.01
3110 3269 3.192422 CCAGAAACGGGCATGATGTAAAA 59.808 43.478 0.00 0.00 0.00 1.52
3111 3270 4.321601 CCAGAAACGGGCATGATGTAAAAA 60.322 41.667 0.00 0.00 0.00 1.94
3158 3317 3.624326 TTTTGTTGGACTGAATGCGAG 57.376 42.857 0.00 0.00 0.00 5.03
3159 3318 1.522668 TTGTTGGACTGAATGCGAGG 58.477 50.000 0.00 0.00 0.00 4.63
3160 3319 0.396435 TGTTGGACTGAATGCGAGGT 59.604 50.000 0.00 0.00 0.00 3.85
3161 3320 0.798776 GTTGGACTGAATGCGAGGTG 59.201 55.000 0.00 0.00 0.00 4.00
3162 3321 0.684535 TTGGACTGAATGCGAGGTGA 59.315 50.000 0.00 0.00 0.00 4.02
3163 3322 0.037326 TGGACTGAATGCGAGGTGAC 60.037 55.000 0.00 0.00 0.00 3.67
3164 3323 0.741221 GGACTGAATGCGAGGTGACC 60.741 60.000 0.00 0.00 0.00 4.02
3165 3324 1.078759 GACTGAATGCGAGGTGACCG 61.079 60.000 0.00 0.00 0.00 4.79
3166 3325 1.079819 CTGAATGCGAGGTGACCGT 60.080 57.895 0.00 0.00 0.00 4.83
3167 3326 1.354337 CTGAATGCGAGGTGACCGTG 61.354 60.000 0.00 0.00 0.00 4.94
3168 3327 2.740714 GAATGCGAGGTGACCGTGC 61.741 63.158 13.13 13.13 0.00 5.34
3169 3328 3.529341 AATGCGAGGTGACCGTGCA 62.529 57.895 22.38 22.38 41.17 4.57
3170 3329 3.529341 ATGCGAGGTGACCGTGCAA 62.529 57.895 23.56 10.60 40.56 4.08
3171 3330 2.970324 GCGAGGTGACCGTGCAAA 60.970 61.111 14.76 0.00 0.00 3.68
3172 3331 2.539338 GCGAGGTGACCGTGCAAAA 61.539 57.895 14.76 0.00 0.00 2.44
3173 3332 1.852067 GCGAGGTGACCGTGCAAAAT 61.852 55.000 14.76 0.00 0.00 1.82
3174 3333 0.591170 CGAGGTGACCGTGCAAAATT 59.409 50.000 0.00 0.00 0.00 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
73 74 3.166679 GGCGAGGAGGAGTAGGATAAAT 58.833 50.000 0.00 0.00 0.00 1.40
76 77 0.036448 CGGCGAGGAGGAGTAGGATA 59.964 60.000 0.00 0.00 0.00 2.59
77 78 1.228306 CGGCGAGGAGGAGTAGGAT 60.228 63.158 0.00 0.00 0.00 3.24
80 81 3.597728 GCCGGCGAGGAGGAGTAG 61.598 72.222 12.58 0.00 45.00 2.57
162 163 0.672711 GAAGGAAGGAACGAACGGGG 60.673 60.000 0.00 0.00 0.00 5.73
213 214 0.961753 GGGGGAGACAAGCAAAACTG 59.038 55.000 0.00 0.00 0.00 3.16
214 215 3.439440 GGGGGAGACAAGCAAAACT 57.561 52.632 0.00 0.00 0.00 2.66
276 278 4.320421 CGAAACTGCCATGAGAAACAATCA 60.320 41.667 0.00 0.00 0.00 2.57
278 280 3.820467 TCGAAACTGCCATGAGAAACAAT 59.180 39.130 0.00 0.00 0.00 2.71
288 290 2.214376 TCCCAAATCGAAACTGCCAT 57.786 45.000 0.00 0.00 0.00 4.40
312 314 3.197790 CGGGCAGCCGATGAACTG 61.198 66.667 5.00 0.00 36.96 3.16
335 337 3.524095 TCAAATGGGGCTGAAGAAGAA 57.476 42.857 0.00 0.00 0.00 2.52
336 338 3.744940 ATCAAATGGGGCTGAAGAAGA 57.255 42.857 0.00 0.00 0.00 2.87
337 339 4.221262 TGAAATCAAATGGGGCTGAAGAAG 59.779 41.667 0.00 0.00 0.00 2.85
426 428 7.213678 TCGGTTTTCCTTCTTTTGCAAATTAT 58.786 30.769 13.65 0.00 37.95 1.28
467 469 2.320587 GCCATTATCCTCAGCGCGG 61.321 63.158 8.83 0.00 0.00 6.46
499 501 3.994931 AGTTACGGCCTTCCTTGTAAT 57.005 42.857 0.00 0.00 0.00 1.89
574 576 0.523335 GTTTAGCCTGGCAAATCGCG 60.523 55.000 22.65 0.00 43.84 5.87
576 578 2.684881 AGATGTTTAGCCTGGCAAATCG 59.315 45.455 22.65 0.00 0.00 3.34
604 606 5.391310 GCATGATACGTCCCATGAATGAATC 60.391 44.000 25.16 6.87 41.88 2.52
659 665 1.203287 GGGGATTCTGAAAGCAACTGC 59.797 52.381 0.00 0.00 42.49 4.40
677 683 6.471233 AGAAAAGTTTCAAGAAAAGGAGGG 57.529 37.500 6.56 0.00 39.61 4.30
678 684 7.776107 AGAAGAAAAGTTTCAAGAAAAGGAGG 58.224 34.615 6.56 0.00 39.61 4.30
679 685 9.645059 AAAGAAGAAAAGTTTCAAGAAAAGGAG 57.355 29.630 6.56 0.00 39.61 3.69
773 780 6.442513 TGCCATCTATCTATCGACAGTATG 57.557 41.667 0.00 0.00 46.00 2.39
775 782 4.944317 CCTGCCATCTATCTATCGACAGTA 59.056 45.833 0.00 0.00 0.00 2.74
780 787 3.956848 CCATCCTGCCATCTATCTATCGA 59.043 47.826 0.00 0.00 0.00 3.59
781 788 3.069300 CCCATCCTGCCATCTATCTATCG 59.931 52.174 0.00 0.00 0.00 2.92
782 789 4.293494 TCCCATCCTGCCATCTATCTATC 58.707 47.826 0.00 0.00 0.00 2.08
783 790 4.358868 TCCCATCCTGCCATCTATCTAT 57.641 45.455 0.00 0.00 0.00 1.98
784 791 3.852858 TCCCATCCTGCCATCTATCTA 57.147 47.619 0.00 0.00 0.00 1.98
820 827 3.366679 CCGAATTATCCAAGCATGATGCC 60.367 47.826 14.72 0.00 46.52 4.40
895 905 2.599659 AGAAAAATGCAGCGCTTTAGC 58.400 42.857 7.50 9.69 37.78 3.09
903 913 0.437295 CTGCGCAAGAAAAATGCAGC 59.563 50.000 13.05 4.29 45.41 5.25
909 919 1.327303 ATGGACCTGCGCAAGAAAAA 58.673 45.000 14.09 0.00 43.02 1.94
957 967 5.289675 GCTGCGTATATATTCTTGCTCGATT 59.710 40.000 0.00 0.00 0.00 3.34
984 997 3.893763 ATCTCTCGCACGAGCCGG 61.894 66.667 15.04 0.00 41.71 6.13
985 998 2.653448 CATCTCTCGCACGAGCCG 60.653 66.667 15.04 8.68 41.71 5.52
986 999 2.279120 CCATCTCTCGCACGAGCC 60.279 66.667 15.04 0.00 41.71 4.70
995 1008 1.530293 GCATCGCATGTTCCATCTCTC 59.470 52.381 0.00 0.00 0.00 3.20
999 1012 1.102809 TGGGCATCGCATGTTCCATC 61.103 55.000 0.00 0.00 33.27 3.51
1005 1018 2.182181 CATCGTGGGCATCGCATGT 61.182 57.895 0.00 0.00 35.32 3.21
1274 1295 0.523335 GCCGCGACATTAAAAGCAGG 60.523 55.000 8.23 0.00 0.00 4.85
1529 1566 3.827898 GACGAGGCGGAGACCTGG 61.828 72.222 0.00 0.00 41.32 4.45
1834 1871 0.618458 GTGGTCATGGAAGGGTAGCA 59.382 55.000 0.00 0.00 0.00 3.49
1915 1952 1.835483 CTGCGAGAATATGTGGCCGC 61.835 60.000 10.11 10.11 42.52 6.53
1925 1962 1.144936 GTAGCTGCCCTGCGAGAAT 59.855 57.895 0.00 0.00 38.13 2.40
2154 2191 1.826921 AGTCCCATATCGTCGCCGT 60.827 57.895 0.00 0.00 35.01 5.68
2198 2235 4.324991 AACTCCAACGCCCGACCC 62.325 66.667 0.00 0.00 0.00 4.46
2199 2236 3.047877 CAACTCCAACGCCCGACC 61.048 66.667 0.00 0.00 0.00 4.79
2200 2237 3.047877 CCAACTCCAACGCCCGAC 61.048 66.667 0.00 0.00 0.00 4.79
2201 2238 3.234630 CTCCAACTCCAACGCCCGA 62.235 63.158 0.00 0.00 0.00 5.14
2202 2239 2.742372 CTCCAACTCCAACGCCCG 60.742 66.667 0.00 0.00 0.00 6.13
2207 2244 2.152016 GTTACTGCCTCCAACTCCAAC 58.848 52.381 0.00 0.00 0.00 3.77
2232 2269 6.520272 AGTATCCATGTATCTCAAGCAAGTC 58.480 40.000 0.00 0.00 0.00 3.01
2288 2331 4.016444 TCAGCCTGGATAACATTTCAACC 58.984 43.478 0.00 0.00 0.00 3.77
2360 2408 3.123050 GGTGCACAATGAAAACCAGTTC 58.877 45.455 20.43 0.00 0.00 3.01
2366 2414 3.932089 ACAGTTTGGTGCACAATGAAAAC 59.068 39.130 20.43 18.08 39.21 2.43
2412 2461 0.111089 GACGAGCAAAGCAGACGTTG 60.111 55.000 0.00 0.00 38.18 4.10
2483 2538 1.063649 GGCGATCGAACTGCTACGA 59.936 57.895 21.57 0.00 42.49 3.43
2485 2540 2.417339 TATGGCGATCGAACTGCTAC 57.583 50.000 21.57 0.00 0.00 3.58
2559 2614 5.163683 ACGACTTCGCTAGAGTTATTGCTTA 60.164 40.000 0.00 0.00 44.43 3.09
2560 2615 4.106197 CGACTTCGCTAGAGTTATTGCTT 58.894 43.478 0.00 0.00 0.00 3.91
2561 2616 3.128938 ACGACTTCGCTAGAGTTATTGCT 59.871 43.478 0.00 0.00 44.43 3.91
2566 2621 4.959596 AATGACGACTTCGCTAGAGTTA 57.040 40.909 0.00 0.00 44.43 2.24
2577 2632 9.436957 AATCACTAAAGTTGATAATGACGACTT 57.563 29.630 0.00 0.00 41.83 3.01
2588 2643 9.796120 TTTTCGACAAAAATCACTAAAGTTGAT 57.204 25.926 0.00 0.00 31.88 2.57
2589 2644 9.627395 TTTTTCGACAAAAATCACTAAAGTTGA 57.373 25.926 0.00 0.00 36.70 3.18
2590 2645 9.885743 CTTTTTCGACAAAAATCACTAAAGTTG 57.114 29.630 0.00 0.00 40.07 3.16
2592 2647 7.973944 AGCTTTTTCGACAAAAATCACTAAAGT 59.026 29.630 0.00 0.00 40.07 2.66
2649 2779 1.094785 CGCTCCAAACACCCCAATAG 58.905 55.000 0.00 0.00 0.00 1.73
2656 2786 3.595108 GAAGCGCGCTCCAAACACC 62.595 63.158 36.57 11.96 0.00 4.16
2678 2810 0.809385 TCACCGCAAACCGTTTTCAA 59.191 45.000 0.00 0.00 34.38 2.69
2679 2811 0.378962 CTCACCGCAAACCGTTTTCA 59.621 50.000 0.00 0.00 34.38 2.69
2685 2817 1.153353 ATGTTACTCACCGCAAACCG 58.847 50.000 0.00 0.00 0.00 4.44
2692 2824 4.069304 TGAGGGAAAAATGTTACTCACCG 58.931 43.478 0.00 0.00 30.75 4.94
2693 2825 5.372547 GTGAGGGAAAAATGTTACTCACC 57.627 43.478 13.27 0.00 45.40 4.02
2708 2840 2.621929 GCAGGAAGAGTAGAGTGAGGGA 60.622 54.545 0.00 0.00 0.00 4.20
2714 2846 1.683629 CGAGGGCAGGAAGAGTAGAGT 60.684 57.143 0.00 0.00 0.00 3.24
2811 2970 5.047943 ACTCTATACCGATGGACTAACATGC 60.048 44.000 0.00 0.00 0.00 4.06
2820 2979 6.151312 GCTAGATTTGACTCTATACCGATGGA 59.849 42.308 0.00 0.00 0.00 3.41
2831 2990 8.688151 ACTATTAAAGTCGCTAGATTTGACTCT 58.312 33.333 0.00 0.00 41.88 3.24
2843 3002 5.046520 AGGTGAAGGAACTATTAAAGTCGCT 60.047 40.000 0.00 0.00 38.49 4.93
2858 3017 1.975407 GGTCGTCGGAGGTGAAGGA 60.975 63.158 0.00 0.00 0.00 3.36
2932 3091 0.689745 AAGCCACGGTAGCATAGGGA 60.690 55.000 0.64 0.00 0.00 4.20
2975 3134 1.601419 TTCGCTAAGGACCAGACCGG 61.601 60.000 0.00 0.00 42.50 5.28
2976 3135 0.179134 CTTCGCTAAGGACCAGACCG 60.179 60.000 0.00 0.00 34.73 4.79
2977 3136 1.135333 CTCTTCGCTAAGGACCAGACC 59.865 57.143 0.00 0.00 33.22 3.85
2978 3137 2.093106 TCTCTTCGCTAAGGACCAGAC 58.907 52.381 0.00 0.00 33.22 3.51
2979 3138 2.093106 GTCTCTTCGCTAAGGACCAGA 58.907 52.381 0.00 0.00 31.76 3.86
2980 3139 1.135333 GGTCTCTTCGCTAAGGACCAG 59.865 57.143 22.59 6.10 44.38 4.00
2981 3140 1.183549 GGTCTCTTCGCTAAGGACCA 58.816 55.000 22.59 0.00 44.38 4.02
2982 3141 0.100861 CGGTCTCTTCGCTAAGGACC 59.899 60.000 19.84 19.84 43.07 4.46
2983 3142 1.093159 TCGGTCTCTTCGCTAAGGAC 58.907 55.000 9.62 9.62 34.63 3.85
2984 3143 1.743958 CTTCGGTCTCTTCGCTAAGGA 59.256 52.381 0.00 0.00 33.22 3.36
2985 3144 1.743958 TCTTCGGTCTCTTCGCTAAGG 59.256 52.381 0.00 0.00 33.22 2.69
2986 3145 3.127203 TCTTCTTCGGTCTCTTCGCTAAG 59.873 47.826 0.00 0.00 0.00 2.18
2987 3146 3.079578 TCTTCTTCGGTCTCTTCGCTAA 58.920 45.455 0.00 0.00 0.00 3.09
2988 3147 2.708051 TCTTCTTCGGTCTCTTCGCTA 58.292 47.619 0.00 0.00 0.00 4.26
2989 3148 1.535833 TCTTCTTCGGTCTCTTCGCT 58.464 50.000 0.00 0.00 0.00 4.93
2990 3149 2.349297 TTCTTCTTCGGTCTCTTCGC 57.651 50.000 0.00 0.00 0.00 4.70
2991 3150 2.600867 GCATTCTTCTTCGGTCTCTTCG 59.399 50.000 0.00 0.00 0.00 3.79
2992 3151 2.600867 CGCATTCTTCTTCGGTCTCTTC 59.399 50.000 0.00 0.00 0.00 2.87
2993 3152 2.611518 CGCATTCTTCTTCGGTCTCTT 58.388 47.619 0.00 0.00 0.00 2.85
2994 3153 1.134965 CCGCATTCTTCTTCGGTCTCT 60.135 52.381 0.00 0.00 37.33 3.10
2995 3154 1.281899 CCGCATTCTTCTTCGGTCTC 58.718 55.000 0.00 0.00 37.33 3.36
2996 3155 0.108138 CCCGCATTCTTCTTCGGTCT 60.108 55.000 0.00 0.00 40.23 3.85
2997 3156 1.090052 CCCCGCATTCTTCTTCGGTC 61.090 60.000 0.00 0.00 40.23 4.79
2998 3157 1.078426 CCCCGCATTCTTCTTCGGT 60.078 57.895 0.00 0.00 40.23 4.69
2999 3158 0.392461 TTCCCCGCATTCTTCTTCGG 60.392 55.000 0.00 0.00 41.41 4.30
3000 3159 1.009829 CTTCCCCGCATTCTTCTTCG 58.990 55.000 0.00 0.00 0.00 3.79
3001 3160 1.383523 CCTTCCCCGCATTCTTCTTC 58.616 55.000 0.00 0.00 0.00 2.87
3002 3161 0.681243 GCCTTCCCCGCATTCTTCTT 60.681 55.000 0.00 0.00 0.00 2.52
3003 3162 1.077429 GCCTTCCCCGCATTCTTCT 60.077 57.895 0.00 0.00 0.00 2.85
3004 3163 2.121538 GGCCTTCCCCGCATTCTTC 61.122 63.158 0.00 0.00 0.00 2.87
3005 3164 2.043953 GGCCTTCCCCGCATTCTT 60.044 61.111 0.00 0.00 0.00 2.52
3006 3165 4.489771 CGGCCTTCCCCGCATTCT 62.490 66.667 0.00 0.00 42.03 2.40
3013 3172 1.823899 CAATAGTGCGGCCTTCCCC 60.824 63.158 0.00 0.00 0.00 4.81
3014 3173 2.481471 GCAATAGTGCGGCCTTCCC 61.481 63.158 0.00 0.00 41.93 3.97
3015 3174 3.111038 GCAATAGTGCGGCCTTCC 58.889 61.111 0.00 0.00 41.93 3.46
3024 3183 4.272489 TGGAAGAATCAAGGGCAATAGTG 58.728 43.478 0.00 0.00 0.00 2.74
3025 3184 4.591321 TGGAAGAATCAAGGGCAATAGT 57.409 40.909 0.00 0.00 0.00 2.12
3026 3185 4.201950 CGTTGGAAGAATCAAGGGCAATAG 60.202 45.833 0.00 0.00 0.00 1.73
3027 3186 3.694072 CGTTGGAAGAATCAAGGGCAATA 59.306 43.478 0.00 0.00 0.00 1.90
3028 3187 2.493278 CGTTGGAAGAATCAAGGGCAAT 59.507 45.455 0.00 0.00 0.00 3.56
3029 3188 1.885887 CGTTGGAAGAATCAAGGGCAA 59.114 47.619 0.00 0.00 0.00 4.52
3030 3189 1.202879 ACGTTGGAAGAATCAAGGGCA 60.203 47.619 0.00 0.00 35.19 5.36
3031 3190 1.468914 GACGTTGGAAGAATCAAGGGC 59.531 52.381 0.00 0.00 35.19 5.19
3032 3191 1.732259 CGACGTTGGAAGAATCAAGGG 59.268 52.381 0.00 0.00 35.19 3.95
3033 3192 1.732259 CCGACGTTGGAAGAATCAAGG 59.268 52.381 17.67 0.00 36.45 3.61
3034 3193 1.128692 GCCGACGTTGGAAGAATCAAG 59.871 52.381 26.69 0.00 0.00 3.02
3035 3194 1.153353 GCCGACGTTGGAAGAATCAA 58.847 50.000 26.69 0.00 0.00 2.57
3036 3195 1.011968 CGCCGACGTTGGAAGAATCA 61.012 55.000 26.69 0.00 33.53 2.57
3037 3196 0.734942 TCGCCGACGTTGGAAGAATC 60.735 55.000 26.69 5.40 41.18 2.52
3038 3197 0.320073 TTCGCCGACGTTGGAAGAAT 60.320 50.000 26.69 0.00 41.18 2.40
3039 3198 0.530211 TTTCGCCGACGTTGGAAGAA 60.530 50.000 26.69 23.79 41.18 2.52
3040 3199 1.067749 TTTCGCCGACGTTGGAAGA 59.932 52.632 26.69 19.60 41.18 2.87
3041 3200 1.203313 GTTTCGCCGACGTTGGAAG 59.797 57.895 26.69 17.61 41.18 3.46
3042 3201 2.587679 CGTTTCGCCGACGTTGGAA 61.588 57.895 26.69 9.01 41.18 3.53
3043 3202 3.031457 CGTTTCGCCGACGTTGGA 61.031 61.111 26.69 1.99 41.18 3.53
3044 3203 4.067016 CCGTTTCGCCGACGTTGG 62.067 66.667 18.24 18.24 41.18 3.77
3045 3204 4.067016 CCCGTTTCGCCGACGTTG 62.067 66.667 0.00 0.00 41.18 4.10
3049 3208 4.668118 TGTCCCCGTTTCGCCGAC 62.668 66.667 0.00 0.00 0.00 4.79
3050 3209 4.668118 GTGTCCCCGTTTCGCCGA 62.668 66.667 0.00 0.00 0.00 5.54
3052 3211 3.837570 AAGGTGTCCCCGTTTCGCC 62.838 63.158 0.00 0.00 38.74 5.54
3053 3212 2.281276 AAGGTGTCCCCGTTTCGC 60.281 61.111 0.00 0.00 38.74 4.70
3054 3213 1.670083 GGAAGGTGTCCCCGTTTCG 60.670 63.158 0.00 0.00 41.10 3.46
3055 3214 4.391869 GGAAGGTGTCCCCGTTTC 57.608 61.111 0.00 0.00 41.10 2.78
3065 3224 3.693085 TCTAGCGTACAACTAGGAAGGTG 59.307 47.826 16.12 0.00 46.60 4.00
3066 3225 3.693578 GTCTAGCGTACAACTAGGAAGGT 59.306 47.826 16.12 0.00 38.13 3.50
3067 3226 3.066481 GGTCTAGCGTACAACTAGGAAGG 59.934 52.174 16.12 0.00 38.13 3.46
3068 3227 3.693085 TGGTCTAGCGTACAACTAGGAAG 59.307 47.826 16.12 0.00 38.13 3.46
3069 3228 3.689347 TGGTCTAGCGTACAACTAGGAA 58.311 45.455 16.12 4.15 38.13 3.36
3070 3229 3.054875 TCTGGTCTAGCGTACAACTAGGA 60.055 47.826 16.12 6.39 38.13 2.94
3071 3230 3.276857 TCTGGTCTAGCGTACAACTAGG 58.723 50.000 16.12 4.65 38.13 3.02
3072 3231 4.959596 TTCTGGTCTAGCGTACAACTAG 57.040 45.455 11.89 11.89 38.79 2.57
3073 3232 4.378770 CGTTTCTGGTCTAGCGTACAACTA 60.379 45.833 0.00 0.00 0.00 2.24
3074 3233 3.611057 CGTTTCTGGTCTAGCGTACAACT 60.611 47.826 0.00 0.00 0.00 3.16
3075 3234 2.660236 CGTTTCTGGTCTAGCGTACAAC 59.340 50.000 0.00 0.00 0.00 3.32
3076 3235 2.352030 CCGTTTCTGGTCTAGCGTACAA 60.352 50.000 0.00 0.00 0.00 2.41
3077 3236 1.200716 CCGTTTCTGGTCTAGCGTACA 59.799 52.381 0.00 0.00 0.00 2.90
3078 3237 1.468736 CCCGTTTCTGGTCTAGCGTAC 60.469 57.143 0.00 0.00 0.00 3.67
3079 3238 0.813184 CCCGTTTCTGGTCTAGCGTA 59.187 55.000 0.00 0.00 0.00 4.42
3080 3239 1.590147 CCCGTTTCTGGTCTAGCGT 59.410 57.895 0.00 0.00 0.00 5.07
3081 3240 1.810030 GCCCGTTTCTGGTCTAGCG 60.810 63.158 0.00 0.00 0.00 4.26
3082 3241 0.107654 ATGCCCGTTTCTGGTCTAGC 60.108 55.000 0.00 0.00 0.00 3.42
3083 3242 1.207089 TCATGCCCGTTTCTGGTCTAG 59.793 52.381 0.00 0.00 0.00 2.43
3084 3243 1.271856 TCATGCCCGTTTCTGGTCTA 58.728 50.000 0.00 0.00 0.00 2.59
3085 3244 0.620556 ATCATGCCCGTTTCTGGTCT 59.379 50.000 0.00 0.00 0.00 3.85
3086 3245 0.734889 CATCATGCCCGTTTCTGGTC 59.265 55.000 0.00 0.00 0.00 4.02
3087 3246 0.038166 ACATCATGCCCGTTTCTGGT 59.962 50.000 0.00 0.00 0.00 4.00
3088 3247 2.036958 TACATCATGCCCGTTTCTGG 57.963 50.000 0.00 0.00 0.00 3.86
3089 3248 4.433186 TTTTACATCATGCCCGTTTCTG 57.567 40.909 0.00 0.00 0.00 3.02
3137 3296 3.243367 CCTCGCATTCAGTCCAACAAAAA 60.243 43.478 0.00 0.00 0.00 1.94
3138 3297 2.293122 CCTCGCATTCAGTCCAACAAAA 59.707 45.455 0.00 0.00 0.00 2.44
3139 3298 1.879380 CCTCGCATTCAGTCCAACAAA 59.121 47.619 0.00 0.00 0.00 2.83
3140 3299 1.202758 ACCTCGCATTCAGTCCAACAA 60.203 47.619 0.00 0.00 0.00 2.83
3141 3300 0.396435 ACCTCGCATTCAGTCCAACA 59.604 50.000 0.00 0.00 0.00 3.33
3142 3301 0.798776 CACCTCGCATTCAGTCCAAC 59.201 55.000 0.00 0.00 0.00 3.77
3143 3302 0.684535 TCACCTCGCATTCAGTCCAA 59.315 50.000 0.00 0.00 0.00 3.53
3144 3303 0.037326 GTCACCTCGCATTCAGTCCA 60.037 55.000 0.00 0.00 0.00 4.02
3145 3304 0.741221 GGTCACCTCGCATTCAGTCC 60.741 60.000 0.00 0.00 0.00 3.85
3146 3305 1.078759 CGGTCACCTCGCATTCAGTC 61.079 60.000 0.00 0.00 0.00 3.51
3147 3306 1.079819 CGGTCACCTCGCATTCAGT 60.080 57.895 0.00 0.00 0.00 3.41
3148 3307 1.079819 ACGGTCACCTCGCATTCAG 60.080 57.895 0.00 0.00 0.00 3.02
3149 3308 1.374125 CACGGTCACCTCGCATTCA 60.374 57.895 0.00 0.00 0.00 2.57
3150 3309 2.740714 GCACGGTCACCTCGCATTC 61.741 63.158 0.00 0.00 0.00 2.67
3151 3310 2.742372 GCACGGTCACCTCGCATT 60.742 61.111 0.00 0.00 0.00 3.56
3152 3311 3.529341 TTGCACGGTCACCTCGCAT 62.529 57.895 7.79 0.00 30.60 4.73
3153 3312 3.741830 TTTGCACGGTCACCTCGCA 62.742 57.895 2.96 2.96 0.00 5.10
3154 3313 1.852067 ATTTTGCACGGTCACCTCGC 61.852 55.000 0.00 0.00 0.00 5.03
3155 3314 0.591170 AATTTTGCACGGTCACCTCG 59.409 50.000 0.00 0.00 0.00 4.63


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

AutoCloner maintained by Alex Coulton.