Multiple sequence alignment - TraesCS4D01G222200

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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 TraesCS4D01G222200 chr4D 100.000 3058 0 0 500 3557 379260895 379257838 0.000000e+00 5648.0
1 TraesCS4D01G222200 chr4D 100.000 107 0 0 1 107 379261394 379261288 7.790000e-47 198.0
2 TraesCS4D01G222200 chr4B 95.164 2316 80 15 500 2795 466060448 466058145 0.000000e+00 3627.0
3 TraesCS4D01G222200 chr4B 88.095 462 26 15 2901 3342 466058111 466057659 4.070000e-144 521.0
4 TraesCS4D01G222200 chr4B 93.671 79 5 0 3479 3557 466057377 466057299 6.240000e-23 119.0
5 TraesCS4D01G222200 chr4A 95.557 1958 59 8 873 2805 85568682 85570636 0.000000e+00 3109.0
6 TraesCS4D01G222200 chr6B 86.872 358 22 16 501 840 602204408 602204758 9.320000e-101 377.0
7 TraesCS4D01G222200 chr5B 81.690 284 39 9 1504 1779 554808832 554808554 1.290000e-54 224.0
8 TraesCS4D01G222200 chr5A 80.756 291 43 9 1504 1786 573086443 573086158 7.730000e-52 215.0
9 TraesCS4D01G222200 chr2D 77.273 308 43 15 1240 1547 26327151 26326871 4.750000e-34 156.0
10 TraesCS4D01G222200 chr2D 78.673 211 22 11 1244 1454 26470410 26470597 6.240000e-23 119.0
11 TraesCS4D01G222200 chr2D 77.626 219 26 15 1237 1455 26035952 26036147 1.040000e-20 111.0
12 TraesCS4D01G222200 chr7D 77.992 259 39 9 1291 1547 29934882 29934640 2.860000e-31 147.0
13 TraesCS4D01G222200 chr2B 86.131 137 10 2 1415 1547 41435975 41435844 4.790000e-29 139.0
14 TraesCS4D01G222200 chr2B 92.157 51 4 0 1497 1547 41476195 41476145 4.930000e-09 73.1
15 TraesCS4D01G222200 chr2A 78.531 177 21 10 1323 1494 28212859 28213023 2.260000e-17 100.0
16 TraesCS4D01G222200 chr1D 87.500 80 5 2 2831 2905 208240413 208240334 1.760000e-13 87.9
17 TraesCS4D01G222200 chr6D 89.796 49 5 0 681 729 313280716 313280668 2.960000e-06 63.9


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4D01G222200 chr4D 379257838 379261394 3556 True 2923.000000 5648 100.000 1 3557 2 chr4D.!!$R1 3556
1 TraesCS4D01G222200 chr4B 466057299 466060448 3149 True 1422.333333 3627 92.310 500 3557 3 chr4B.!!$R1 3057
2 TraesCS4D01G222200 chr4A 85568682 85570636 1954 False 3109.000000 3109 95.557 873 2805 1 chr4A.!!$F1 1932


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
32 33 0.032130 TCACCGGCTGAAGCGATATC 59.968 55.0 0.0 0.0 43.26 1.63 F
556 557 0.178767 TCATCATCTCGGCTTGGTGG 59.821 55.0 0.0 0.0 0.00 4.61 F
558 559 0.179000 ATCATCTCGGCTTGGTGGTC 59.821 55.0 0.0 0.0 0.00 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1500 1526 1.519455 GAATGGGTGGTCGAGCGAG 60.519 63.158 10.46 0.0 0.00 5.03 R
2484 2513 1.741706 CAACTCATCAGCTTGCGGAAT 59.258 47.619 0.00 0.0 0.00 3.01 R
2626 2665 2.946785 CGACCCCTTCCACTCTATAGT 58.053 52.381 0.00 0.0 35.91 2.12 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
28 29 4.717629 CGTCACCGGCTGAAGCGA 62.718 66.667 0.00 0.00 43.26 4.93
29 30 2.125512 GTCACCGGCTGAAGCGAT 60.126 61.111 0.00 0.00 43.26 4.58
30 31 1.141019 GTCACCGGCTGAAGCGATA 59.859 57.895 0.00 0.00 43.26 2.92
31 32 0.249489 GTCACCGGCTGAAGCGATAT 60.249 55.000 0.00 0.00 43.26 1.63
32 33 0.032130 TCACCGGCTGAAGCGATATC 59.968 55.000 0.00 0.00 43.26 1.63
33 34 1.007271 ACCGGCTGAAGCGATATCG 60.007 57.895 20.79 20.79 43.26 2.92
43 44 2.030562 CGATATCGCCCACCACCC 59.969 66.667 12.95 0.00 0.00 4.61
44 45 2.030562 GATATCGCCCACCACCCG 59.969 66.667 0.00 0.00 0.00 5.28
45 46 4.250305 ATATCGCCCACCACCCGC 62.250 66.667 0.00 0.00 0.00 6.13
51 52 4.904590 CCCACCACCCGCAACCAA 62.905 66.667 0.00 0.00 0.00 3.67
52 53 3.601685 CCACCACCCGCAACCAAC 61.602 66.667 0.00 0.00 0.00 3.77
53 54 2.830827 CACCACCCGCAACCAACA 60.831 61.111 0.00 0.00 0.00 3.33
54 55 2.197324 ACCACCCGCAACCAACAT 59.803 55.556 0.00 0.00 0.00 2.71
55 56 0.891449 CACCACCCGCAACCAACATA 60.891 55.000 0.00 0.00 0.00 2.29
56 57 0.608035 ACCACCCGCAACCAACATAG 60.608 55.000 0.00 0.00 0.00 2.23
57 58 1.506262 CACCCGCAACCAACATAGC 59.494 57.895 0.00 0.00 0.00 2.97
58 59 1.677633 ACCCGCAACCAACATAGCC 60.678 57.895 0.00 0.00 0.00 3.93
59 60 1.677300 CCCGCAACCAACATAGCCA 60.677 57.895 0.00 0.00 0.00 4.75
60 61 1.037030 CCCGCAACCAACATAGCCAT 61.037 55.000 0.00 0.00 0.00 4.40
61 62 0.381801 CCGCAACCAACATAGCCATC 59.618 55.000 0.00 0.00 0.00 3.51
62 63 1.093972 CGCAACCAACATAGCCATCA 58.906 50.000 0.00 0.00 0.00 3.07
63 64 1.202177 CGCAACCAACATAGCCATCAC 60.202 52.381 0.00 0.00 0.00 3.06
64 65 1.818060 GCAACCAACATAGCCATCACA 59.182 47.619 0.00 0.00 0.00 3.58
65 66 2.428171 GCAACCAACATAGCCATCACAT 59.572 45.455 0.00 0.00 0.00 3.21
66 67 3.119029 GCAACCAACATAGCCATCACATT 60.119 43.478 0.00 0.00 0.00 2.71
67 68 4.426416 CAACCAACATAGCCATCACATTG 58.574 43.478 0.00 0.00 0.00 2.82
68 69 3.025978 ACCAACATAGCCATCACATTGG 58.974 45.455 0.00 0.00 40.76 3.16
74 75 4.230603 CCATCACATTGGCTCGCT 57.769 55.556 0.00 0.00 0.00 4.93
75 76 1.725665 CCATCACATTGGCTCGCTG 59.274 57.895 0.00 0.00 0.00 5.18
76 77 1.063649 CATCACATTGGCTCGCTGC 59.936 57.895 0.00 0.00 41.94 5.25
88 89 4.632974 CGCTGCCCCTGCCCTATC 62.633 72.222 0.00 0.00 36.33 2.08
89 90 4.277009 GCTGCCCCTGCCCTATCC 62.277 72.222 0.00 0.00 36.33 2.59
90 91 2.449322 CTGCCCCTGCCCTATCCT 60.449 66.667 0.00 0.00 36.33 3.24
91 92 2.448542 TGCCCCTGCCCTATCCTC 60.449 66.667 0.00 0.00 36.33 3.71
92 93 3.631046 GCCCCTGCCCTATCCTCG 61.631 72.222 0.00 0.00 0.00 4.63
93 94 3.631046 CCCCTGCCCTATCCTCGC 61.631 72.222 0.00 0.00 0.00 5.03
94 95 3.996124 CCCTGCCCTATCCTCGCG 61.996 72.222 0.00 0.00 0.00 5.87
95 96 3.227276 CCTGCCCTATCCTCGCGT 61.227 66.667 5.77 0.00 0.00 6.01
96 97 2.797278 CCTGCCCTATCCTCGCGTT 61.797 63.158 5.77 0.00 0.00 4.84
97 98 1.300233 CTGCCCTATCCTCGCGTTC 60.300 63.158 5.77 0.00 0.00 3.95
98 99 1.739338 CTGCCCTATCCTCGCGTTCT 61.739 60.000 5.77 0.00 0.00 3.01
99 100 1.007154 GCCCTATCCTCGCGTTCTC 60.007 63.158 5.77 0.00 0.00 2.87
100 101 1.457009 GCCCTATCCTCGCGTTCTCT 61.457 60.000 5.77 0.00 0.00 3.10
101 102 1.033574 CCCTATCCTCGCGTTCTCTT 58.966 55.000 5.77 0.00 0.00 2.85
102 103 1.001158 CCCTATCCTCGCGTTCTCTTC 60.001 57.143 5.77 0.00 0.00 2.87
103 104 1.001158 CCTATCCTCGCGTTCTCTTCC 60.001 57.143 5.77 0.00 0.00 3.46
104 105 0.661552 TATCCTCGCGTTCTCTTCCG 59.338 55.000 5.77 0.00 0.00 4.30
105 106 2.615262 ATCCTCGCGTTCTCTTCCGC 62.615 60.000 5.77 0.00 46.10 5.54
106 107 2.881352 CTCGCGTTCTCTTCCGCC 60.881 66.667 5.77 0.00 46.83 6.13
519 520 1.968540 GTCAACCCTCCTGCACTGC 60.969 63.158 0.00 0.00 0.00 4.40
527 528 4.624364 CCTGCACTGCCGGTGTCA 62.624 66.667 1.90 3.31 46.86 3.58
536 537 2.125512 CCGGTGTCACAGCTAGCC 60.126 66.667 12.13 0.00 0.00 3.93
556 557 0.178767 TCATCATCTCGGCTTGGTGG 59.821 55.000 0.00 0.00 0.00 4.61
558 559 0.179000 ATCATCTCGGCTTGGTGGTC 59.821 55.000 0.00 0.00 0.00 4.02
652 654 6.524101 AAATACAGACAATTTACGCCCATT 57.476 33.333 0.00 0.00 0.00 3.16
688 690 7.387397 CCATTTCTTATTGGCAGATACTCTCTC 59.613 40.741 0.00 0.00 29.16 3.20
689 691 6.412362 TTCTTATTGGCAGATACTCTCTCC 57.588 41.667 0.00 0.00 29.16 3.71
694 696 3.413327 TGGCAGATACTCTCTCCGTATC 58.587 50.000 0.00 0.00 42.11 2.24
700 702 6.419413 GCAGATACTCTCTCCGTATCAAAAAG 59.581 42.308 11.41 0.34 43.48 2.27
701 703 7.484975 CAGATACTCTCTCCGTATCAAAAAGT 58.515 38.462 11.41 0.00 43.48 2.66
825 840 1.173913 GGTCCATTTACAGTGGCCAC 58.826 55.000 29.22 29.22 36.66 5.01
826 841 1.173913 GTCCATTTACAGTGGCCACC 58.826 55.000 32.29 14.56 36.66 4.61
904 926 2.575262 GCTTCATTCTGCGCGCAC 60.575 61.111 33.09 14.58 0.00 5.34
964 986 3.876914 TCACACACAGACTCCAAACAATC 59.123 43.478 0.00 0.00 0.00 2.67
1500 1526 2.815298 CGAGTCTCGCGTCCTCTCC 61.815 68.421 9.74 0.00 31.14 3.71
1530 1556 2.751436 CCATTCGTGCCCACCCTG 60.751 66.667 0.00 0.00 0.00 4.45
2481 2510 4.753662 TACGAGGAGCGGCAGGGT 62.754 66.667 1.45 0.00 46.49 4.34
2484 2513 3.075005 GAGGAGCGGCAGGGTGTA 61.075 66.667 1.45 0.00 0.00 2.90
2624 2663 1.068127 GGGTTCGTGGCGTGTATAGAT 59.932 52.381 0.00 0.00 0.00 1.98
2625 2664 2.391879 GGTTCGTGGCGTGTATAGATC 58.608 52.381 0.00 0.00 0.00 2.75
2626 2665 2.223641 GGTTCGTGGCGTGTATAGATCA 60.224 50.000 0.00 0.00 0.00 2.92
2669 2709 4.803426 GACCGGCGAGGCTGTGAG 62.803 72.222 9.30 0.00 46.52 3.51
2799 2854 7.420002 TGTTCACTGAGATTTGTTTTCTCATG 58.580 34.615 4.03 5.66 46.26 3.07
2805 2860 5.049474 TGAGATTTGTTTTCTCATGACGGTG 60.049 40.000 0.00 0.00 43.49 4.94
2807 2862 1.234821 TGTTTTCTCATGACGGTGCC 58.765 50.000 0.00 0.00 0.00 5.01
2812 2867 0.530744 TCTCATGACGGTGCCAGTAC 59.469 55.000 0.00 0.00 0.00 2.73
2815 2870 1.346395 TCATGACGGTGCCAGTACTTT 59.654 47.619 0.00 0.00 0.00 2.66
2816 2871 2.563620 TCATGACGGTGCCAGTACTTTA 59.436 45.455 0.00 0.00 0.00 1.85
2817 2872 2.736144 TGACGGTGCCAGTACTTTAG 57.264 50.000 0.00 0.00 0.00 1.85
2818 2873 1.274167 TGACGGTGCCAGTACTTTAGG 59.726 52.381 0.00 0.00 0.00 2.69
2819 2874 0.611714 ACGGTGCCAGTACTTTAGGG 59.388 55.000 0.00 0.00 0.00 3.53
2820 2875 0.611714 CGGTGCCAGTACTTTAGGGT 59.388 55.000 0.00 0.00 0.00 4.34
2821 2876 1.826720 CGGTGCCAGTACTTTAGGGTA 59.173 52.381 0.00 0.00 0.00 3.69
2823 2878 2.836372 GGTGCCAGTACTTTAGGGTAGT 59.164 50.000 0.00 0.00 0.00 2.73
2824 2879 4.026052 GGTGCCAGTACTTTAGGGTAGTA 58.974 47.826 0.00 0.00 0.00 1.82
2825 2880 4.142071 GGTGCCAGTACTTTAGGGTAGTAC 60.142 50.000 0.00 0.00 45.27 2.73
2833 2888 7.818493 GTACTTTAGGGTAGTACTTTTTCCG 57.182 40.000 0.00 0.00 42.88 4.30
2834 2889 6.425210 ACTTTAGGGTAGTACTTTTTCCGT 57.575 37.500 0.00 3.91 0.00 4.69
2835 2890 6.459066 ACTTTAGGGTAGTACTTTTTCCGTC 58.541 40.000 0.00 0.00 0.00 4.79
2836 2891 3.969287 AGGGTAGTACTTTTTCCGTCC 57.031 47.619 0.00 0.00 0.00 4.79
2837 2892 2.568956 AGGGTAGTACTTTTTCCGTCCC 59.431 50.000 0.00 1.38 0.00 4.46
2838 2893 2.302733 GGGTAGTACTTTTTCCGTCCCA 59.697 50.000 0.00 0.00 33.33 4.37
2839 2894 3.054875 GGGTAGTACTTTTTCCGTCCCAT 60.055 47.826 0.00 0.00 33.33 4.00
2840 2895 3.937079 GGTAGTACTTTTTCCGTCCCATG 59.063 47.826 0.00 0.00 0.00 3.66
2841 2896 4.322953 GGTAGTACTTTTTCCGTCCCATGA 60.323 45.833 0.00 0.00 0.00 3.07
2842 2897 4.569719 AGTACTTTTTCCGTCCCATGAT 57.430 40.909 0.00 0.00 0.00 2.45
2843 2898 5.687166 AGTACTTTTTCCGTCCCATGATA 57.313 39.130 0.00 0.00 0.00 2.15
2844 2899 6.248569 AGTACTTTTTCCGTCCCATGATAT 57.751 37.500 0.00 0.00 0.00 1.63
2845 2900 7.369551 AGTACTTTTTCCGTCCCATGATATA 57.630 36.000 0.00 0.00 0.00 0.86
2846 2901 7.798071 AGTACTTTTTCCGTCCCATGATATAA 58.202 34.615 0.00 0.00 0.00 0.98
2847 2902 8.269317 AGTACTTTTTCCGTCCCATGATATAAA 58.731 33.333 0.00 0.00 0.00 1.40
2848 2903 7.948034 ACTTTTTCCGTCCCATGATATAAAA 57.052 32.000 0.00 0.00 0.00 1.52
2849 2904 7.996385 ACTTTTTCCGTCCCATGATATAAAAG 58.004 34.615 0.00 0.00 36.59 2.27
2850 2905 6.385649 TTTTCCGTCCCATGATATAAAAGC 57.614 37.500 0.00 0.00 0.00 3.51
2851 2906 3.659786 TCCGTCCCATGATATAAAAGCG 58.340 45.455 0.00 0.00 0.00 4.68
2852 2907 3.070446 TCCGTCCCATGATATAAAAGCGT 59.930 43.478 0.00 0.00 0.00 5.07
2853 2908 3.813166 CCGTCCCATGATATAAAAGCGTT 59.187 43.478 0.00 0.00 0.00 4.84
2854 2909 4.274950 CCGTCCCATGATATAAAAGCGTTT 59.725 41.667 2.53 2.53 0.00 3.60
2855 2910 5.220970 CCGTCCCATGATATAAAAGCGTTTT 60.221 40.000 2.19 1.29 36.67 2.43
2856 2911 6.262601 CGTCCCATGATATAAAAGCGTTTTT 58.737 36.000 14.50 14.50 39.69 1.94
2897 2952 8.976986 AACGCTTTTATATTATAGTACGGAGG 57.023 34.615 0.00 0.00 0.00 4.30
2898 2953 7.542025 ACGCTTTTATATTATAGTACGGAGGG 58.458 38.462 0.00 0.00 0.00 4.30
2899 2954 7.394359 ACGCTTTTATATTATAGTACGGAGGGA 59.606 37.037 0.00 0.00 0.00 4.20
2945 3003 0.518636 CAGATTGACCAGTTGCCGTG 59.481 55.000 0.00 0.00 0.00 4.94
2971 3029 2.749621 GTTAAATGTCAGCAGTCCAGGG 59.250 50.000 0.00 0.00 0.00 4.45
2972 3030 0.038744 AAATGTCAGCAGTCCAGGGG 59.961 55.000 0.00 0.00 0.00 4.79
3002 3065 5.585047 GTCTTTGACCAACAACAAGTAGAGT 59.415 40.000 0.00 0.00 38.29 3.24
3023 3086 6.773200 AGAGTATCCGATATCTTGAACACTGA 59.227 38.462 0.34 0.00 33.66 3.41
3024 3087 7.450014 AGAGTATCCGATATCTTGAACACTGAT 59.550 37.037 0.34 0.00 33.66 2.90
3025 3088 7.957002 AGTATCCGATATCTTGAACACTGATT 58.043 34.615 0.34 0.00 0.00 2.57
3026 3089 8.085296 AGTATCCGATATCTTGAACACTGATTC 58.915 37.037 0.34 0.00 0.00 2.52
3049 3112 6.841119 TCGTATTGAATTTGAACATCTGTGG 58.159 36.000 0.00 0.00 0.00 4.17
3141 3210 1.619807 GCCCATGCCATGCCTTTCTT 61.620 55.000 0.00 0.00 0.00 2.52
3168 3237 0.682292 TGCACTGTACGGGTTGATCA 59.318 50.000 6.65 0.00 0.00 2.92
3176 3245 4.562082 TGTACGGGTTGATCACTACTTTG 58.438 43.478 0.00 0.00 0.00 2.77
3182 3251 4.505039 GGGTTGATCACTACTTTGGTCTGT 60.505 45.833 0.00 0.00 0.00 3.41
3183 3252 4.691216 GGTTGATCACTACTTTGGTCTGTC 59.309 45.833 0.00 0.00 0.00 3.51
3184 3253 5.511545 GGTTGATCACTACTTTGGTCTGTCT 60.512 44.000 0.00 0.00 0.00 3.41
3185 3254 6.295123 GGTTGATCACTACTTTGGTCTGTCTA 60.295 42.308 0.00 0.00 0.00 2.59
3186 3255 6.516739 TGATCACTACTTTGGTCTGTCTAG 57.483 41.667 0.00 0.00 0.00 2.43
3187 3256 6.010850 TGATCACTACTTTGGTCTGTCTAGT 58.989 40.000 0.00 0.00 0.00 2.57
3188 3257 7.173032 TGATCACTACTTTGGTCTGTCTAGTA 58.827 38.462 0.00 0.00 0.00 1.82
3219 3291 3.931468 CCAGAGCATTAACAGTGTCTCAG 59.069 47.826 10.54 3.79 0.00 3.35
3221 3293 3.260380 AGAGCATTAACAGTGTCTCAGCT 59.740 43.478 11.51 11.51 0.00 4.24
3222 3294 4.464244 AGAGCATTAACAGTGTCTCAGCTA 59.536 41.667 11.62 0.00 0.00 3.32
3223 3295 5.047021 AGAGCATTAACAGTGTCTCAGCTAA 60.047 40.000 11.62 0.33 0.00 3.09
3224 3296 4.932200 AGCATTAACAGTGTCTCAGCTAAC 59.068 41.667 10.37 0.00 0.00 2.34
3225 3297 4.932200 GCATTAACAGTGTCTCAGCTAACT 59.068 41.667 0.00 0.00 0.00 2.24
3226 3298 5.409826 GCATTAACAGTGTCTCAGCTAACTT 59.590 40.000 0.00 0.00 0.00 2.66
3227 3299 6.590292 GCATTAACAGTGTCTCAGCTAACTTA 59.410 38.462 0.00 0.00 0.00 2.24
3231 3306 5.403246 ACAGTGTCTCAGCTAACTTATTCG 58.597 41.667 0.00 0.00 0.00 3.34
3236 3311 6.365247 GTGTCTCAGCTAACTTATTCGACAAA 59.635 38.462 0.00 0.00 31.63 2.83
3238 3313 7.063426 TGTCTCAGCTAACTTATTCGACAAATG 59.937 37.037 0.00 0.00 0.00 2.32
3250 3325 9.536558 CTTATTCGACAAATGATTTTACACGAA 57.463 29.630 14.95 14.95 37.29 3.85
3266 3341 7.962964 TTACACGAAGATTCTTCATGAAACT 57.037 32.000 24.72 8.54 39.09 2.66
3267 3342 6.473397 ACACGAAGATTCTTCATGAAACTC 57.527 37.500 24.72 6.54 36.89 3.01
3269 3344 5.409520 CACGAAGATTCTTCATGAAACTCCA 59.590 40.000 22.75 0.00 36.89 3.86
3281 3356 2.953648 TGAAACTCCACACGTCAGTAGA 59.046 45.455 0.00 0.00 0.00 2.59
3288 3363 3.108881 CCACACGTCAGTAGAATGATCG 58.891 50.000 0.00 0.00 33.16 3.69
3290 3365 4.498177 CCACACGTCAGTAGAATGATCGAT 60.498 45.833 0.00 0.00 32.12 3.59
3305 3380 5.806654 TGATCGATCAGATTTGATACCCA 57.193 39.130 23.99 0.00 44.01 4.51
3308 3383 7.906327 TGATCGATCAGATTTGATACCCAATA 58.094 34.615 23.99 0.00 44.01 1.90
3310 3385 9.388506 GATCGATCAGATTTGATACCCAATATT 57.611 33.333 20.52 0.00 44.01 1.28
3311 3386 9.745018 ATCGATCAGATTTGATACCCAATATTT 57.255 29.630 0.00 0.00 44.01 1.40
3312 3387 9.573166 TCGATCAGATTTGATACCCAATATTTT 57.427 29.630 0.00 0.00 44.01 1.82
3386 3651 1.142465 CACCCAAGAGCTCCTATGCAT 59.858 52.381 10.93 3.79 34.99 3.96
3422 3689 4.772886 AAAGAATAACCTCGGCCTATGT 57.227 40.909 0.00 0.00 0.00 2.29
3425 3692 6.435292 AAGAATAACCTCGGCCTATGTATT 57.565 37.500 0.00 0.00 0.00 1.89
3431 3698 6.675413 AACCTCGGCCTATGTATTATACAA 57.325 37.500 9.24 0.00 42.76 2.41
3432 3699 6.869206 ACCTCGGCCTATGTATTATACAAT 57.131 37.500 9.24 1.63 42.76 2.71
3433 3700 6.640518 ACCTCGGCCTATGTATTATACAATG 58.359 40.000 9.24 5.29 42.76 2.82
3434 3701 5.523916 CCTCGGCCTATGTATTATACAATGC 59.476 44.000 9.24 11.25 42.76 3.56
3435 3702 6.043854 TCGGCCTATGTATTATACAATGCA 57.956 37.500 9.24 0.00 42.76 3.96
3436 3703 5.872617 TCGGCCTATGTATTATACAATGCAC 59.127 40.000 9.24 6.06 42.76 4.57
3437 3704 5.641636 CGGCCTATGTATTATACAATGCACA 59.358 40.000 9.24 0.00 42.76 4.57
3438 3705 6.402118 CGGCCTATGTATTATACAATGCACAC 60.402 42.308 9.24 0.69 42.76 3.82
3439 3706 6.429692 GGCCTATGTATTATACAATGCACACA 59.570 38.462 9.24 0.00 42.76 3.72
3440 3707 7.040755 GGCCTATGTATTATACAATGCACACAA 60.041 37.037 9.24 0.00 42.76 3.33
3441 3708 7.803189 GCCTATGTATTATACAATGCACACAAC 59.197 37.037 9.24 0.00 42.76 3.32
3442 3709 8.289618 CCTATGTATTATACAATGCACACAACC 58.710 37.037 9.24 0.00 42.76 3.77
3443 3710 7.637631 ATGTATTATACAATGCACACAACCA 57.362 32.000 9.24 0.00 42.76 3.67
3444 3711 7.637631 TGTATTATACAATGCACACAACCAT 57.362 32.000 2.16 0.00 35.38 3.55
3445 3712 8.060931 TGTATTATACAATGCACACAACCATT 57.939 30.769 2.16 0.00 35.38 3.16
3446 3713 8.526978 TGTATTATACAATGCACACAACCATTT 58.473 29.630 2.16 0.00 35.38 2.32
3447 3714 9.364989 GTATTATACAATGCACACAACCATTTT 57.635 29.630 0.00 0.00 29.71 1.82
3448 3715 8.845413 ATTATACAATGCACACAACCATTTTT 57.155 26.923 0.00 0.00 29.71 1.94
3468 3735 2.065899 TTTTTGTGTGTGAGAGGGGG 57.934 50.000 0.00 0.00 0.00 5.40
3469 3736 0.923358 TTTTGTGTGTGAGAGGGGGT 59.077 50.000 0.00 0.00 0.00 4.95
3470 3737 0.923358 TTTGTGTGTGAGAGGGGGTT 59.077 50.000 0.00 0.00 0.00 4.11
3471 3738 0.923358 TTGTGTGTGAGAGGGGGTTT 59.077 50.000 0.00 0.00 0.00 3.27
3472 3739 0.182537 TGTGTGTGAGAGGGGGTTTG 59.817 55.000 0.00 0.00 0.00 2.93
3473 3740 1.150536 TGTGTGAGAGGGGGTTTGC 59.849 57.895 0.00 0.00 0.00 3.68
3474 3741 1.150536 GTGTGAGAGGGGGTTTGCA 59.849 57.895 0.00 0.00 0.00 4.08
3475 3742 0.467290 GTGTGAGAGGGGGTTTGCAA 60.467 55.000 0.00 0.00 0.00 4.08
3476 3743 0.178992 TGTGAGAGGGGGTTTGCAAG 60.179 55.000 0.00 0.00 0.00 4.01
3477 3744 0.895559 GTGAGAGGGGGTTTGCAAGG 60.896 60.000 0.00 0.00 0.00 3.61
3501 3768 8.320617 AGGATGCACACAACCATTTTATTAAAT 58.679 29.630 0.00 0.00 41.12 1.40
3502 3769 8.945057 GGATGCACACAACCATTTTATTAAATT 58.055 29.630 0.00 0.00 38.58 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 0.249489 ATATCGCTTCAGCCGGTGAC 60.249 55.000 1.90 0.00 37.91 3.67
13 14 0.032130 GATATCGCTTCAGCCGGTGA 59.968 55.000 1.90 2.59 37.91 4.02
14 15 1.278172 CGATATCGCTTCAGCCGGTG 61.278 60.000 12.95 0.00 37.91 4.94
15 16 1.007271 CGATATCGCTTCAGCCGGT 60.007 57.895 12.95 0.00 37.91 5.28
16 17 3.848142 CGATATCGCTTCAGCCGG 58.152 61.111 12.95 0.00 37.91 6.13
26 27 2.030562 GGGTGGTGGGCGATATCG 59.969 66.667 20.79 20.79 43.27 2.92
27 28 2.030562 CGGGTGGTGGGCGATATC 59.969 66.667 0.00 0.00 0.00 1.63
28 29 4.250305 GCGGGTGGTGGGCGATAT 62.250 66.667 0.00 0.00 0.00 1.63
34 35 4.904590 TTGGTTGCGGGTGGTGGG 62.905 66.667 0.00 0.00 0.00 4.61
35 36 3.601685 GTTGGTTGCGGGTGGTGG 61.602 66.667 0.00 0.00 0.00 4.61
36 37 0.891449 TATGTTGGTTGCGGGTGGTG 60.891 55.000 0.00 0.00 0.00 4.17
37 38 0.608035 CTATGTTGGTTGCGGGTGGT 60.608 55.000 0.00 0.00 0.00 4.16
38 39 1.933115 GCTATGTTGGTTGCGGGTGG 61.933 60.000 0.00 0.00 0.00 4.61
39 40 1.506262 GCTATGTTGGTTGCGGGTG 59.494 57.895 0.00 0.00 0.00 4.61
40 41 1.677633 GGCTATGTTGGTTGCGGGT 60.678 57.895 0.00 0.00 0.00 5.28
41 42 1.037030 ATGGCTATGTTGGTTGCGGG 61.037 55.000 0.00 0.00 0.00 6.13
42 43 0.381801 GATGGCTATGTTGGTTGCGG 59.618 55.000 0.00 0.00 0.00 5.69
43 44 1.093972 TGATGGCTATGTTGGTTGCG 58.906 50.000 0.00 0.00 0.00 4.85
44 45 1.818060 TGTGATGGCTATGTTGGTTGC 59.182 47.619 0.00 0.00 0.00 4.17
45 46 4.426416 CAATGTGATGGCTATGTTGGTTG 58.574 43.478 0.00 0.00 0.00 3.77
46 47 3.448301 CCAATGTGATGGCTATGTTGGTT 59.552 43.478 0.00 0.00 32.78 3.67
47 48 3.025978 CCAATGTGATGGCTATGTTGGT 58.974 45.455 0.00 0.00 32.78 3.67
48 49 3.720949 CCAATGTGATGGCTATGTTGG 57.279 47.619 0.00 0.00 32.78 3.77
57 58 1.725665 CAGCGAGCCAATGTGATGG 59.274 57.895 0.00 0.00 43.70 3.51
58 59 1.063649 GCAGCGAGCCAATGTGATG 59.936 57.895 0.00 0.00 37.23 3.07
59 60 3.506108 GCAGCGAGCCAATGTGAT 58.494 55.556 0.00 0.00 37.23 3.06
71 72 4.632974 GATAGGGCAGGGGCAGCG 62.633 72.222 0.00 0.00 43.71 5.18
72 73 4.277009 GGATAGGGCAGGGGCAGC 62.277 72.222 0.00 0.00 43.71 5.25
73 74 2.449322 AGGATAGGGCAGGGGCAG 60.449 66.667 0.00 0.00 43.71 4.85
74 75 2.448542 GAGGATAGGGCAGGGGCA 60.449 66.667 0.00 0.00 43.71 5.36
75 76 3.631046 CGAGGATAGGGCAGGGGC 61.631 72.222 0.00 0.00 40.13 5.80
76 77 3.631046 GCGAGGATAGGGCAGGGG 61.631 72.222 0.00 0.00 0.00 4.79
77 78 3.996124 CGCGAGGATAGGGCAGGG 61.996 72.222 0.00 0.00 0.00 4.45
78 79 2.701163 GAACGCGAGGATAGGGCAGG 62.701 65.000 15.93 0.00 0.00 4.85
79 80 1.300233 GAACGCGAGGATAGGGCAG 60.300 63.158 15.93 0.00 0.00 4.85
80 81 1.735376 GAGAACGCGAGGATAGGGCA 61.735 60.000 15.93 0.00 0.00 5.36
81 82 1.007154 GAGAACGCGAGGATAGGGC 60.007 63.158 15.93 0.00 0.00 5.19
82 83 1.001158 GAAGAGAACGCGAGGATAGGG 60.001 57.143 15.93 0.00 0.00 3.53
83 84 1.001158 GGAAGAGAACGCGAGGATAGG 60.001 57.143 15.93 0.00 0.00 2.57
84 85 1.334239 CGGAAGAGAACGCGAGGATAG 60.334 57.143 15.93 0.00 0.00 2.08
85 86 0.661552 CGGAAGAGAACGCGAGGATA 59.338 55.000 15.93 0.00 0.00 2.59
86 87 1.433879 CGGAAGAGAACGCGAGGAT 59.566 57.895 15.93 0.00 0.00 3.24
87 88 2.875485 CGGAAGAGAACGCGAGGA 59.125 61.111 15.93 0.00 0.00 3.71
88 89 2.881352 GCGGAAGAGAACGCGAGG 60.881 66.667 15.93 0.00 46.58 4.63
515 516 2.159819 CTAGCTGTGACACCGGCAGT 62.160 60.000 18.44 0.00 33.18 4.40
519 520 2.125512 GGCTAGCTGTGACACCGG 60.126 66.667 15.72 0.00 0.00 5.28
527 528 1.612950 CGAGATGATGAGGCTAGCTGT 59.387 52.381 15.72 1.74 0.00 4.40
536 537 1.579698 CACCAAGCCGAGATGATGAG 58.420 55.000 0.00 0.00 0.00 2.90
556 557 1.040646 TATGGGACTGAGATGCGGAC 58.959 55.000 0.00 0.00 0.00 4.79
558 559 1.541233 GGTTATGGGACTGAGATGCGG 60.541 57.143 0.00 0.00 0.00 5.69
652 654 0.326595 TAAGAAATGGCGCCAGGTGA 59.673 50.000 35.36 11.21 0.00 4.02
682 684 6.787085 ACAAACTTTTTGATACGGAGAGAG 57.213 37.500 5.67 0.00 0.00 3.20
728 730 8.671384 TCCGAATGTATCTAATACCAAAAAGG 57.329 34.615 0.00 0.00 45.67 3.11
780 795 4.800023 TCCGATCTATTACCTCTGTCCAA 58.200 43.478 0.00 0.00 0.00 3.53
782 797 4.095185 CGATCCGATCTATTACCTCTGTCC 59.905 50.000 6.81 0.00 0.00 4.02
825 840 0.745845 CAGCTGGAGGGTTCATTCGG 60.746 60.000 5.57 0.00 0.00 4.30
826 841 0.745845 CCAGCTGGAGGGTTCATTCG 60.746 60.000 29.88 0.00 37.39 3.34
964 986 2.360585 GGGCAAAGGAAGGGAGGG 59.639 66.667 0.00 0.00 0.00 4.30
1206 1232 1.682684 GGAGGAGAAGGACGGCAGA 60.683 63.158 0.00 0.00 0.00 4.26
1500 1526 1.519455 GAATGGGTGGTCGAGCGAG 60.519 63.158 10.46 0.00 0.00 5.03
2481 2510 2.093500 ACTCATCAGCTTGCGGAATACA 60.093 45.455 0.00 0.00 0.00 2.29
2484 2513 1.741706 CAACTCATCAGCTTGCGGAAT 59.258 47.619 0.00 0.00 0.00 3.01
2626 2665 2.946785 CGACCCCTTCCACTCTATAGT 58.053 52.381 0.00 0.00 35.91 2.12
2669 2709 0.912006 AAAGCTCCTCCTCCTCCACC 60.912 60.000 0.00 0.00 0.00 4.61
2670 2710 0.251634 CAAAGCTCCTCCTCCTCCAC 59.748 60.000 0.00 0.00 0.00 4.02
2671 2711 0.178891 ACAAAGCTCCTCCTCCTCCA 60.179 55.000 0.00 0.00 0.00 3.86
2799 2854 1.405121 CCCTAAAGTACTGGCACCGTC 60.405 57.143 0.00 0.00 0.00 4.79
2812 2867 5.871524 GGACGGAAAAAGTACTACCCTAAAG 59.128 44.000 0.00 0.00 0.00 1.85
2815 2870 3.769300 GGGACGGAAAAAGTACTACCCTA 59.231 47.826 0.00 0.00 32.93 3.53
2816 2871 2.568956 GGGACGGAAAAAGTACTACCCT 59.431 50.000 0.00 0.00 32.93 4.34
2817 2872 2.302733 TGGGACGGAAAAAGTACTACCC 59.697 50.000 0.00 0.00 35.82 3.69
2818 2873 3.683365 TGGGACGGAAAAAGTACTACC 57.317 47.619 0.00 0.00 0.00 3.18
2819 2874 4.824289 TCATGGGACGGAAAAAGTACTAC 58.176 43.478 0.00 0.00 0.00 2.73
2820 2875 5.687166 ATCATGGGACGGAAAAAGTACTA 57.313 39.130 0.00 0.00 0.00 1.82
2821 2876 4.569719 ATCATGGGACGGAAAAAGTACT 57.430 40.909 0.00 0.00 0.00 2.73
2823 2878 9.116067 CTTTTATATCATGGGACGGAAAAAGTA 57.884 33.333 0.00 0.00 0.00 2.24
2824 2879 7.416326 GCTTTTATATCATGGGACGGAAAAAGT 60.416 37.037 0.00 0.00 0.00 2.66
2825 2880 6.918022 GCTTTTATATCATGGGACGGAAAAAG 59.082 38.462 0.00 0.00 0.00 2.27
2826 2881 6.459024 CGCTTTTATATCATGGGACGGAAAAA 60.459 38.462 0.00 0.00 0.00 1.94
2827 2882 5.008217 CGCTTTTATATCATGGGACGGAAAA 59.992 40.000 0.00 0.00 0.00 2.29
2828 2883 4.513692 CGCTTTTATATCATGGGACGGAAA 59.486 41.667 0.00 0.00 0.00 3.13
2829 2884 4.062293 CGCTTTTATATCATGGGACGGAA 58.938 43.478 0.00 0.00 0.00 4.30
2830 2885 3.070446 ACGCTTTTATATCATGGGACGGA 59.930 43.478 0.00 0.00 0.00 4.69
2831 2886 3.399330 ACGCTTTTATATCATGGGACGG 58.601 45.455 0.00 0.00 0.00 4.79
2832 2887 5.418310 AAACGCTTTTATATCATGGGACG 57.582 39.130 0.00 0.00 0.00 4.79
2871 2926 9.415544 CCTCCGTACTATAATATAAAAGCGTTT 57.584 33.333 2.53 2.53 0.00 3.60
2872 2927 8.031277 CCCTCCGTACTATAATATAAAAGCGTT 58.969 37.037 0.00 0.00 0.00 4.84
2873 2928 7.394359 TCCCTCCGTACTATAATATAAAAGCGT 59.606 37.037 0.00 0.00 0.00 5.07
2874 2929 7.765307 TCCCTCCGTACTATAATATAAAAGCG 58.235 38.462 0.00 0.00 0.00 4.68
2875 2930 8.747471 ACTCCCTCCGTACTATAATATAAAAGC 58.253 37.037 0.00 0.00 0.00 3.51
2886 2941 9.051259 TGTAATATACTACTCCCTCCGTACTAT 57.949 37.037 0.00 0.00 0.00 2.12
2887 2942 8.435931 TGTAATATACTACTCCCTCCGTACTA 57.564 38.462 0.00 0.00 0.00 1.82
2888 2943 7.017056 ACTGTAATATACTACTCCCTCCGTACT 59.983 40.741 0.00 0.00 0.00 2.73
2889 2944 7.118971 CACTGTAATATACTACTCCCTCCGTAC 59.881 44.444 0.00 0.00 0.00 3.67
2890 2945 7.164122 CACTGTAATATACTACTCCCTCCGTA 58.836 42.308 0.00 0.00 0.00 4.02
2891 2946 6.002704 CACTGTAATATACTACTCCCTCCGT 58.997 44.000 0.00 0.00 0.00 4.69
2892 2947 5.415077 CCACTGTAATATACTACTCCCTCCG 59.585 48.000 0.00 0.00 0.00 4.63
2893 2948 5.715753 CCCACTGTAATATACTACTCCCTCC 59.284 48.000 0.00 0.00 0.00 4.30
2894 2949 6.313324 ACCCACTGTAATATACTACTCCCTC 58.687 44.000 0.00 0.00 0.00 4.30
2895 2950 6.290870 ACCCACTGTAATATACTACTCCCT 57.709 41.667 0.00 0.00 0.00 4.20
2896 2951 6.781507 AGAACCCACTGTAATATACTACTCCC 59.218 42.308 0.00 0.00 0.00 4.30
2897 2952 7.724951 AGAGAACCCACTGTAATATACTACTCC 59.275 40.741 0.00 0.00 0.00 3.85
2898 2953 8.569641 CAGAGAACCCACTGTAATATACTACTC 58.430 40.741 0.00 0.00 0.00 2.59
2899 2954 8.280084 TCAGAGAACCCACTGTAATATACTACT 58.720 37.037 0.00 0.00 35.84 2.57
2945 3003 3.366374 GGACTGCTGACATTTAACTTGCC 60.366 47.826 0.00 0.00 0.00 4.52
2971 3029 2.489971 TGTTGGTCAAAGACGTGATCC 58.510 47.619 0.00 0.00 32.65 3.36
2972 3030 3.311322 TGTTGTTGGTCAAAGACGTGATC 59.689 43.478 0.00 0.00 37.81 2.92
3002 3065 7.084486 CGAATCAGTGTTCAAGATATCGGATA 58.916 38.462 0.00 0.00 0.00 2.59
3023 3086 7.970061 CCACAGATGTTCAAATTCAATACGAAT 59.030 33.333 0.00 0.00 46.70 3.34
3024 3087 7.174080 TCCACAGATGTTCAAATTCAATACGAA 59.826 33.333 0.00 0.00 38.22 3.85
3025 3088 6.652900 TCCACAGATGTTCAAATTCAATACGA 59.347 34.615 0.00 0.00 0.00 3.43
3026 3089 6.841119 TCCACAGATGTTCAAATTCAATACG 58.159 36.000 0.00 0.00 0.00 3.06
3062 3131 8.924511 TGTTCAGAAGAGGAAATGTTAGAAAT 57.075 30.769 0.00 0.00 0.00 2.17
3063 3132 8.924511 ATGTTCAGAAGAGGAAATGTTAGAAA 57.075 30.769 0.00 0.00 0.00 2.52
3141 3210 1.670730 CGTACAGTGCATGTGGGCA 60.671 57.895 10.77 0.00 43.80 5.36
3203 3275 8.709386 ATAAGTTAGCTGAGACACTGTTAATG 57.291 34.615 0.00 0.00 0.00 1.90
3222 3294 9.325150 CGTGTAAAATCATTTGTCGAATAAGTT 57.675 29.630 0.00 0.00 0.00 2.66
3223 3295 8.714179 TCGTGTAAAATCATTTGTCGAATAAGT 58.286 29.630 0.00 0.00 0.00 2.24
3224 3296 9.536558 TTCGTGTAAAATCATTTGTCGAATAAG 57.463 29.630 0.00 0.00 34.62 1.73
3225 3297 9.536558 CTTCGTGTAAAATCATTTGTCGAATAA 57.463 29.630 10.23 0.00 36.58 1.40
3226 3298 8.927721 TCTTCGTGTAAAATCATTTGTCGAATA 58.072 29.630 10.23 4.23 36.58 1.75
3227 3299 7.802738 TCTTCGTGTAAAATCATTTGTCGAAT 58.197 30.769 10.23 0.00 36.58 3.34
3231 3306 9.612620 AAGAATCTTCGTGTAAAATCATTTGTC 57.387 29.630 0.00 0.00 0.00 3.18
3236 3311 9.166173 TCATGAAGAATCTTCGTGTAAAATCAT 57.834 29.630 32.15 11.60 36.92 2.45
3238 3313 9.825972 TTTCATGAAGAATCTTCGTGTAAAATC 57.174 29.630 32.15 5.00 36.92 2.17
3245 3320 5.409520 TGGAGTTTCATGAAGAATCTTCGTG 59.590 40.000 29.72 29.72 36.62 4.35
3250 3325 4.692625 CGTGTGGAGTTTCATGAAGAATCT 59.307 41.667 8.41 6.29 38.63 2.40
3266 3341 3.181500 CGATCATTCTACTGACGTGTGGA 60.181 47.826 0.00 0.00 0.00 4.02
3267 3342 3.108881 CGATCATTCTACTGACGTGTGG 58.891 50.000 0.00 0.00 0.00 4.17
3269 3344 4.335594 TGATCGATCATTCTACTGACGTGT 59.664 41.667 23.99 0.00 0.00 4.49
3281 3356 6.772605 TGGGTATCAAATCTGATCGATCATT 58.227 36.000 27.43 17.33 41.57 2.57
3342 3417 7.001674 TGCCCGTGAAACCTATATGAATATTT 58.998 34.615 0.00 0.00 0.00 1.40
3343 3418 6.430000 GTGCCCGTGAAACCTATATGAATATT 59.570 38.462 0.00 0.00 0.00 1.28
3344 3419 5.938125 GTGCCCGTGAAACCTATATGAATAT 59.062 40.000 0.00 0.00 0.00 1.28
3357 3622 1.228124 CTCTTGGGTGCCCGTGAAA 60.228 57.895 2.44 0.00 39.42 2.69
3401 3668 4.772886 ACATAGGCCGAGGTTATTCTTT 57.227 40.909 0.00 0.00 0.00 2.52
3403 3670 7.735326 ATAATACATAGGCCGAGGTTATTCT 57.265 36.000 8.85 0.00 0.00 2.40
3405 3672 8.370266 TGTATAATACATAGGCCGAGGTTATT 57.630 34.615 8.85 9.02 32.89 1.40
3406 3673 7.966339 TGTATAATACATAGGCCGAGGTTAT 57.034 36.000 8.85 4.38 32.89 1.89
3407 3674 7.779754 TTGTATAATACATAGGCCGAGGTTA 57.220 36.000 8.85 0.00 38.68 2.85
3408 3675 6.675413 TTGTATAATACATAGGCCGAGGTT 57.325 37.500 8.85 0.00 38.68 3.50
3410 3677 5.523916 GCATTGTATAATACATAGGCCGAGG 59.476 44.000 0.00 0.00 38.68 4.63
3412 3679 5.872617 GTGCATTGTATAATACATAGGCCGA 59.127 40.000 0.00 0.00 38.68 5.54
3414 3681 6.429692 TGTGTGCATTGTATAATACATAGGCC 59.570 38.462 0.00 0.00 38.68 5.19
3419 3686 7.637631 TGGTTGTGTGCATTGTATAATACAT 57.362 32.000 0.00 0.00 38.68 2.29
3422 3689 9.935241 AAAAATGGTTGTGTGCATTGTATAATA 57.065 25.926 0.00 0.00 0.00 0.98
3449 3716 1.286553 ACCCCCTCTCACACACAAAAA 59.713 47.619 0.00 0.00 0.00 1.94
3450 3717 0.923358 ACCCCCTCTCACACACAAAA 59.077 50.000 0.00 0.00 0.00 2.44
3451 3718 0.923358 AACCCCCTCTCACACACAAA 59.077 50.000 0.00 0.00 0.00 2.83
3452 3719 0.923358 AAACCCCCTCTCACACACAA 59.077 50.000 0.00 0.00 0.00 3.33
3453 3720 0.182537 CAAACCCCCTCTCACACACA 59.817 55.000 0.00 0.00 0.00 3.72
3454 3721 1.172812 GCAAACCCCCTCTCACACAC 61.173 60.000 0.00 0.00 0.00 3.82
3455 3722 1.150536 GCAAACCCCCTCTCACACA 59.849 57.895 0.00 0.00 0.00 3.72
3456 3723 0.467290 TTGCAAACCCCCTCTCACAC 60.467 55.000 0.00 0.00 0.00 3.82
3457 3724 0.178992 CTTGCAAACCCCCTCTCACA 60.179 55.000 0.00 0.00 0.00 3.58
3458 3725 0.895559 CCTTGCAAACCCCCTCTCAC 60.896 60.000 0.00 0.00 0.00 3.51
3459 3726 1.065410 TCCTTGCAAACCCCCTCTCA 61.065 55.000 0.00 0.00 0.00 3.27
3460 3727 0.332972 ATCCTTGCAAACCCCCTCTC 59.667 55.000 0.00 0.00 0.00 3.20
3461 3728 0.040204 CATCCTTGCAAACCCCCTCT 59.960 55.000 0.00 0.00 0.00 3.69
3462 3729 2.583472 CATCCTTGCAAACCCCCTC 58.417 57.895 0.00 0.00 0.00 4.30
3463 3730 4.872293 CATCCTTGCAAACCCCCT 57.128 55.556 0.00 0.00 0.00 4.79
3473 3740 3.389925 AAATGGTTGTGTGCATCCTTG 57.610 42.857 0.00 0.00 35.89 3.61
3474 3741 5.743636 ATAAAATGGTTGTGTGCATCCTT 57.256 34.783 0.00 0.00 35.89 3.36
3475 3742 5.743636 AATAAAATGGTTGTGTGCATCCT 57.256 34.783 0.00 0.00 35.89 3.24
3476 3743 7.897575 TTTAATAAAATGGTTGTGTGCATCC 57.102 32.000 0.00 0.00 35.54 3.51
3501 3768 7.957002 TCAACAAGGAAAATGCATAGGTTAAA 58.043 30.769 0.00 0.00 0.00 1.52
3502 3769 7.531857 TCAACAAGGAAAATGCATAGGTTAA 57.468 32.000 0.00 0.00 0.00 2.01
3506 3773 8.253113 AGTATTTCAACAAGGAAAATGCATAGG 58.747 33.333 0.00 0.00 39.94 2.57



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

AutoCloner maintained by Alex Coulton.