Multiple sequence alignment - TraesCS3D01G339100

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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 TraesCS3D01G339100 chr3D 100.000 3104 0 0 1 3104 452242139 452239036 0.000000e+00 5733.0
1 TraesCS3D01G339100 chr3B 91.158 2771 100 56 15 2699 593923467 593920756 0.000000e+00 3626.0
2 TraesCS3D01G339100 chr3B 95.880 267 9 2 2698 2964 554905490 554905754 6.150000e-117 431.0
3 TraesCS3D01G339100 chr3B 95.849 265 9 2 2698 2962 554920320 554920582 7.950000e-116 427.0
4 TraesCS3D01G339100 chr3B 93.793 145 6 1 2960 3104 593920758 593920617 6.740000e-52 215.0
5 TraesCS3D01G339100 chr3A 89.488 2169 101 50 330 2458 594592206 594590125 0.000000e+00 2625.0
6 TraesCS3D01G339100 chr3A 93.919 148 6 2 2960 3104 594589680 594589533 1.450000e-53 220.0
7 TraesCS3D01G339100 chr4B 96.604 265 8 1 2698 2962 25394538 25394275 3.670000e-119 438.0
8 TraesCS3D01G339100 chr2A 96.604 265 8 1 2698 2962 252088724 252088987 3.670000e-119 438.0
9 TraesCS3D01G339100 chr5A 95.880 267 10 1 2698 2964 639084920 639085185 6.150000e-117 431.0
10 TraesCS3D01G339100 chrUn 95.865 266 10 1 2697 2962 32265041 32265305 2.210000e-116 429.0
11 TraesCS3D01G339100 chr7D 95.865 266 10 1 2697 2962 574768302 574768038 2.210000e-116 429.0
12 TraesCS3D01G339100 chr5B 95.849 265 10 1 2698 2962 531548138 531548401 7.950000e-116 427.0
13 TraesCS3D01G339100 chr1B 95.185 270 12 1 2697 2966 358062002 358061734 2.860000e-115 425.0
14 TraesCS3D01G339100 chr1B 81.500 200 32 5 1892 2088 533089619 533089816 3.200000e-35 159.0
15 TraesCS3D01G339100 chr1D 81.500 200 32 5 1892 2088 397631164 397631361 3.200000e-35 159.0
16 TraesCS3D01G339100 chr1A 81.500 200 32 5 1892 2088 495130435 495130632 3.200000e-35 159.0
17 TraesCS3D01G339100 chr1A 93.548 62 4 0 1012 1073 495129517 495129578 3.300000e-15 93.5


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 TraesCS3D01G339100 chr3D 452239036 452242139 3103 True 5733.0 5733 100.0000 1 3104 1 chr3D.!!$R1 3103
1 TraesCS3D01G339100 chr3B 593920617 593923467 2850 True 1920.5 3626 92.4755 15 3104 2 chr3B.!!$R1 3089
2 TraesCS3D01G339100 chr3A 594589533 594592206 2673 True 1422.5 2625 91.7035 330 3104 2 chr3A.!!$R1 2774

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
880 920 0.03601 ACACCAGCACAGACATAGCC 60.036 55.0 0.0 0.0 0.0 3.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2458 2545 0.034337 GAAGAGGCAACACGGTACCA 59.966 55.0 13.54 0.0 41.41 3.25 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
22 23 4.862447 TACGCTCGGGCTCGGCTA 62.862 66.667 5.94 0.67 36.95 3.93
28 29 1.861542 CTCGGGCTCGGCTAGATCAG 61.862 65.000 5.94 0.00 36.95 2.90
62 63 5.112686 AGGATTCATTCACTAGTCTTTCGC 58.887 41.667 0.00 0.00 0.00 4.70
72 73 4.697756 TCTTTCGCCCGCCCTGTG 62.698 66.667 0.00 0.00 0.00 3.66
117 118 1.810441 CAGCCGAGCAAGCAGAGAG 60.810 63.158 0.00 0.00 0.00 3.20
148 149 2.203070 GCTGGCCGACCGATCATT 60.203 61.111 0.00 0.00 39.70 2.57
197 198 1.301401 GCACGCTGAACCACCACTA 60.301 57.895 0.00 0.00 0.00 2.74
200 201 1.271379 CACGCTGAACCACCACTACTA 59.729 52.381 0.00 0.00 0.00 1.82
277 279 2.126734 GCTTTCAGCGCGCACAAT 60.127 55.556 35.10 9.85 0.00 2.71
281 283 2.315011 CTTTCAGCGCGCACAATTAAA 58.685 42.857 35.10 20.12 0.00 1.52
282 284 2.407521 TTCAGCGCGCACAATTAAAA 57.592 40.000 35.10 11.71 0.00 1.52
283 285 1.680668 TCAGCGCGCACAATTAAAAC 58.319 45.000 35.10 0.00 0.00 2.43
304 306 3.823304 ACAAACCTGATGAGAAAGAAGGC 59.177 43.478 0.00 0.00 0.00 4.35
305 307 2.797177 ACCTGATGAGAAAGAAGGCC 57.203 50.000 0.00 0.00 0.00 5.19
306 308 1.988107 ACCTGATGAGAAAGAAGGCCA 59.012 47.619 5.01 0.00 0.00 5.36
307 309 2.026449 ACCTGATGAGAAAGAAGGCCAG 60.026 50.000 5.01 0.00 0.00 4.85
311 313 2.847327 TGAGAAAGAAGGCCAGTCAG 57.153 50.000 5.01 0.00 0.00 3.51
338 347 1.338107 GGGAGGGGTGGAAAACAAAG 58.662 55.000 0.00 0.00 0.00 2.77
362 371 6.044754 AGAGGCCATTCATGTCAATCCTATTA 59.955 38.462 5.01 0.00 0.00 0.98
363 372 6.006449 AGGCCATTCATGTCAATCCTATTAC 58.994 40.000 5.01 0.00 0.00 1.89
395 404 2.859273 ATCCTACGTGCAGTGCAGGC 62.859 60.000 31.89 15.66 46.54 4.85
490 500 3.222514 ACGCACTCACGTCAACAAACG 62.223 52.381 0.00 0.00 44.43 3.60
491 501 0.315869 GCACTCACGTCAACAAACGG 60.316 55.000 1.28 0.00 46.72 4.44
499 509 1.070175 CGTCAACAAACGGATCACACC 60.070 52.381 0.00 0.00 38.96 4.16
501 511 0.596082 CAACAAACGGATCACACCCC 59.404 55.000 0.00 0.00 0.00 4.95
645 664 3.600388 TCTTCTTCCGATTCTTTGGAGC 58.400 45.455 0.00 0.00 36.73 4.70
692 711 1.152943 ACGGCGCATAGAGAGGAGA 60.153 57.895 10.83 0.00 0.00 3.71
786 809 4.351054 CCCGCCCACTCTGCCTTT 62.351 66.667 0.00 0.00 0.00 3.11
794 817 1.303155 ACTCTGCCTTTGCTCTGCC 60.303 57.895 0.00 0.00 38.71 4.85
796 819 2.035312 CTGCCTTTGCTCTGCCCT 59.965 61.111 0.00 0.00 38.71 5.19
798 821 3.130160 GCCTTTGCTCTGCCCTCG 61.130 66.667 0.00 0.00 33.53 4.63
864 893 1.042475 GCAAGCTAACGCGAAAACAC 58.958 50.000 15.93 0.00 42.32 3.32
870 910 0.305313 TAACGCGAAAACACCAGCAC 59.695 50.000 15.93 0.00 0.00 4.40
880 920 0.036010 ACACCAGCACAGACATAGCC 60.036 55.000 0.00 0.00 0.00 3.93
923 966 3.062763 TCTTTGCTCTTCTTCTGCTTCG 58.937 45.455 0.00 0.00 0.00 3.79
926 969 1.615883 TGCTCTTCTTCTGCTTCGTCT 59.384 47.619 0.00 0.00 0.00 4.18
927 970 2.036475 TGCTCTTCTTCTGCTTCGTCTT 59.964 45.455 0.00 0.00 0.00 3.01
952 995 3.084579 CACGCGTGCATTCCTCTC 58.915 61.111 28.16 0.00 0.00 3.20
953 996 1.446792 CACGCGTGCATTCCTCTCT 60.447 57.895 28.16 0.00 0.00 3.10
954 997 1.016130 CACGCGTGCATTCCTCTCTT 61.016 55.000 28.16 0.00 0.00 2.85
957 1003 0.179179 GCGTGCATTCCTCTCTTTGC 60.179 55.000 0.00 0.00 35.67 3.68
963 1009 1.021390 ATTCCTCTCTTTGCGTGGCG 61.021 55.000 0.00 0.00 0.00 5.69
970 1016 2.202946 TTTGCGTGGCGAGTGTGA 60.203 55.556 0.00 0.00 0.00 3.58
993 1039 1.110518 GCTAGCTAGCGGAAGGAGGT 61.111 60.000 28.89 0.00 39.82 3.85
1551 1603 1.817099 CAAGCTGATCACCTCCGCC 60.817 63.158 0.00 0.00 34.87 6.13
2107 2165 2.864097 GCGGACATCAGCATGTAGTAGG 60.864 54.545 0.00 0.00 43.79 3.18
2207 2284 6.681368 GCTCTTGTTAATGCTCCTAAATTGGG 60.681 42.308 0.00 0.00 0.00 4.12
2208 2285 5.127031 TCTTGTTAATGCTCCTAAATTGGGC 59.873 40.000 0.00 0.00 0.00 5.36
2209 2286 4.348486 TGTTAATGCTCCTAAATTGGGCA 58.652 39.130 0.00 0.00 37.56 5.36
2210 2287 4.159506 TGTTAATGCTCCTAAATTGGGCAC 59.840 41.667 0.00 0.00 36.59 5.01
2259 2338 1.068895 TGTGAAGCCAAAACCATGCTG 59.931 47.619 0.00 0.00 35.08 4.41
2319 2399 2.415512 GCTCCCGAACATCAACTGTAAC 59.584 50.000 0.00 0.00 36.98 2.50
2321 2401 3.659786 TCCCGAACATCAACTGTAACAG 58.340 45.455 0.00 0.00 36.98 3.16
2392 2477 4.497300 TGGTAGAACCGCACAAGTAATAC 58.503 43.478 0.00 0.00 42.58 1.89
2394 2479 5.114081 GGTAGAACCGCACAAGTAATACAT 58.886 41.667 0.00 0.00 0.00 2.29
2395 2480 5.583457 GGTAGAACCGCACAAGTAATACATT 59.417 40.000 0.00 0.00 0.00 2.71
2458 2545 6.183360 TGTTGTTGAGCTCGAACAGTAAAAAT 60.183 34.615 22.25 0.00 34.85 1.82
2490 2608 1.544691 GCCTCTTCCGAGTGTTACTCA 59.455 52.381 9.38 0.00 45.30 3.41
2514 2633 1.323791 GCGTAAATCCGTGTTGTTGC 58.676 50.000 0.00 0.00 0.00 4.17
2518 2637 3.059188 CGTAAATCCGTGTTGTTGCTTCT 60.059 43.478 0.00 0.00 0.00 2.85
2662 2955 0.741221 CTTGCGTGGTAGCTTCCTCC 60.741 60.000 11.05 0.60 38.13 4.30
2696 2989 0.733150 TCGACATCGTAGGCTGACTG 59.267 55.000 0.00 0.00 40.80 3.51
2697 2990 0.452184 CGACATCGTAGGCTGACTGT 59.548 55.000 0.00 0.00 34.11 3.55
2698 2991 1.669265 CGACATCGTAGGCTGACTGTA 59.331 52.381 0.00 0.00 34.11 2.74
2699 2992 2.539142 CGACATCGTAGGCTGACTGTAC 60.539 54.545 0.00 0.00 34.11 2.90
2700 2993 2.683867 GACATCGTAGGCTGACTGTACT 59.316 50.000 0.00 0.00 0.00 2.73
2701 2994 2.683867 ACATCGTAGGCTGACTGTACTC 59.316 50.000 0.00 0.00 0.00 2.59
2702 2995 1.747709 TCGTAGGCTGACTGTACTCC 58.252 55.000 0.00 0.00 0.00 3.85
2703 2996 0.739561 CGTAGGCTGACTGTACTCCC 59.260 60.000 0.00 0.00 0.00 4.30
2704 2997 1.682394 CGTAGGCTGACTGTACTCCCT 60.682 57.143 0.00 0.00 0.00 4.20
2705 2998 2.025898 GTAGGCTGACTGTACTCCCTC 58.974 57.143 0.00 0.00 0.00 4.30
2706 2999 0.324830 AGGCTGACTGTACTCCCTCC 60.325 60.000 0.00 0.00 0.00 4.30
2707 3000 1.668101 GGCTGACTGTACTCCCTCCG 61.668 65.000 0.00 0.00 0.00 4.63
2708 3001 0.966370 GCTGACTGTACTCCCTCCGT 60.966 60.000 0.00 0.00 0.00 4.69
2709 3002 1.681166 GCTGACTGTACTCCCTCCGTA 60.681 57.143 0.00 0.00 0.00 4.02
2710 3003 2.015587 CTGACTGTACTCCCTCCGTAC 58.984 57.143 0.00 0.00 38.13 3.67
2711 3004 1.632409 TGACTGTACTCCCTCCGTACT 59.368 52.381 0.00 0.00 38.39 2.73
2712 3005 2.040813 TGACTGTACTCCCTCCGTACTT 59.959 50.000 0.00 0.00 38.39 2.24
2713 3006 3.087781 GACTGTACTCCCTCCGTACTTT 58.912 50.000 0.00 0.00 38.39 2.66
2714 3007 4.263462 TGACTGTACTCCCTCCGTACTTTA 60.263 45.833 0.00 0.00 38.39 1.85
2715 3008 4.666512 ACTGTACTCCCTCCGTACTTTAA 58.333 43.478 0.00 0.00 38.39 1.52
2716 3009 5.079643 ACTGTACTCCCTCCGTACTTTAAA 58.920 41.667 0.00 0.00 38.39 1.52
2717 3010 5.184671 ACTGTACTCCCTCCGTACTTTAAAG 59.815 44.000 13.76 13.76 38.39 1.85
2718 3011 5.324409 TGTACTCCCTCCGTACTTTAAAGA 58.676 41.667 21.92 2.93 38.39 2.52
2719 3012 5.954150 TGTACTCCCTCCGTACTTTAAAGAT 59.046 40.000 21.92 8.60 38.39 2.40
2720 3013 6.438425 TGTACTCCCTCCGTACTTTAAAGATT 59.562 38.462 21.92 2.89 38.39 2.40
2721 3014 5.731591 ACTCCCTCCGTACTTTAAAGATTG 58.268 41.667 21.92 9.73 0.00 2.67
2722 3015 5.247792 ACTCCCTCCGTACTTTAAAGATTGT 59.752 40.000 21.92 2.67 0.00 2.71
2723 3016 6.438425 ACTCCCTCCGTACTTTAAAGATTGTA 59.562 38.462 21.92 1.66 0.00 2.41
2724 3017 6.633856 TCCCTCCGTACTTTAAAGATTGTAC 58.366 40.000 21.92 12.64 33.89 2.90
2725 3018 6.438425 TCCCTCCGTACTTTAAAGATTGTACT 59.562 38.462 21.92 0.00 34.75 2.73
2726 3019 7.038799 TCCCTCCGTACTTTAAAGATTGTACTT 60.039 37.037 21.92 0.00 34.75 2.24
2727 3020 7.277319 CCCTCCGTACTTTAAAGATTGTACTTC 59.723 40.741 21.92 0.00 34.75 3.01
2728 3021 7.277319 CCTCCGTACTTTAAAGATTGTACTTCC 59.723 40.741 21.92 0.00 34.75 3.46
2729 3022 7.669427 TCCGTACTTTAAAGATTGTACTTCCA 58.331 34.615 21.92 0.00 34.75 3.53
2730 3023 8.149647 TCCGTACTTTAAAGATTGTACTTCCAA 58.850 33.333 21.92 0.00 34.75 3.53
2731 3024 8.225777 CCGTACTTTAAAGATTGTACTTCCAAC 58.774 37.037 21.92 0.00 34.75 3.77
2732 3025 8.985805 CGTACTTTAAAGATTGTACTTCCAACT 58.014 33.333 21.92 0.00 34.75 3.16
2822 3115 9.322776 GCAATCAAATTAGTAGCATTAGATTCG 57.677 33.333 0.00 0.00 0.00 3.34
2825 3118 9.764363 ATCAAATTAGTAGCATTAGATTCGTGA 57.236 29.630 0.00 0.00 0.00 4.35
2826 3119 9.764363 TCAAATTAGTAGCATTAGATTCGTGAT 57.236 29.630 0.00 0.00 0.00 3.06
2870 3163 8.964420 ATACCTATTTGATTTCACAAACGTTG 57.036 30.769 0.00 0.00 41.49 4.10
2871 3164 7.033530 ACCTATTTGATTTCACAAACGTTGA 57.966 32.000 0.00 0.00 41.49 3.18
2872 3165 7.657336 ACCTATTTGATTTCACAAACGTTGAT 58.343 30.769 0.00 0.00 41.49 2.57
2873 3166 8.788806 ACCTATTTGATTTCACAAACGTTGATA 58.211 29.630 0.00 0.00 41.49 2.15
2874 3167 9.787532 CCTATTTGATTTCACAAACGTTGATAT 57.212 29.630 0.00 0.00 41.49 1.63
2883 3176 8.803201 TTCACAAACGTTGATATATTTTTGCA 57.197 26.923 0.00 0.00 0.00 4.08
2884 3177 8.221801 TCACAAACGTTGATATATTTTTGCAC 57.778 30.769 0.00 0.00 0.00 4.57
2885 3178 7.862873 TCACAAACGTTGATATATTTTTGCACA 59.137 29.630 0.00 0.00 0.00 4.57
2886 3179 8.483218 CACAAACGTTGATATATTTTTGCACAA 58.517 29.630 0.00 0.00 0.00 3.33
2887 3180 9.035607 ACAAACGTTGATATATTTTTGCACAAA 57.964 25.926 0.00 0.00 0.00 2.83
2888 3181 9.300441 CAAACGTTGATATATTTTTGCACAAAC 57.700 29.630 0.00 0.00 0.00 2.93
2889 3182 8.810652 AACGTTGATATATTTTTGCACAAACT 57.189 26.923 0.00 0.00 0.00 2.66
2890 3183 8.810652 ACGTTGATATATTTTTGCACAAACTT 57.189 26.923 0.00 0.00 0.00 2.66
2891 3184 8.698854 ACGTTGATATATTTTTGCACAAACTTG 58.301 29.630 0.00 0.00 0.00 3.16
2892 3185 8.161610 CGTTGATATATTTTTGCACAAACTTGG 58.838 33.333 0.00 0.00 0.00 3.61
2893 3186 8.987890 GTTGATATATTTTTGCACAAACTTGGT 58.012 29.630 0.00 0.00 0.00 3.67
2894 3187 8.755696 TGATATATTTTTGCACAAACTTGGTC 57.244 30.769 0.00 0.00 0.00 4.02
2895 3188 8.363390 TGATATATTTTTGCACAAACTTGGTCA 58.637 29.630 0.00 0.14 0.00 4.02
2896 3189 9.202273 GATATATTTTTGCACAAACTTGGTCAA 57.798 29.630 0.00 0.00 0.00 3.18
2897 3190 7.856145 ATATTTTTGCACAAACTTGGTCAAA 57.144 28.000 0.00 7.05 34.30 2.69
2898 3191 4.999751 TTTTGCACAAACTTGGTCAAAC 57.000 36.364 9.43 0.00 35.14 2.93
2899 3192 3.951775 TTGCACAAACTTGGTCAAACT 57.048 38.095 0.00 0.00 0.00 2.66
2900 3193 3.951775 TGCACAAACTTGGTCAAACTT 57.048 38.095 0.00 0.00 0.00 2.66
2901 3194 4.264460 TGCACAAACTTGGTCAAACTTT 57.736 36.364 0.00 0.00 0.00 2.66
2902 3195 3.993081 TGCACAAACTTGGTCAAACTTTG 59.007 39.130 0.00 0.00 0.00 2.77
2903 3196 4.241681 GCACAAACTTGGTCAAACTTTGA 58.758 39.130 14.99 0.00 37.33 2.69
2904 3197 4.327087 GCACAAACTTGGTCAAACTTTGAG 59.673 41.667 4.36 10.71 41.01 3.02
2905 3198 5.708948 CACAAACTTGGTCAAACTTTGAGA 58.291 37.500 4.36 0.00 41.01 3.27
2906 3199 6.332630 CACAAACTTGGTCAAACTTTGAGAT 58.667 36.000 4.36 0.00 41.01 2.75
2907 3200 7.479980 CACAAACTTGGTCAAACTTTGAGATA 58.520 34.615 4.36 0.00 41.01 1.98
2908 3201 7.645340 CACAAACTTGGTCAAACTTTGAGATAG 59.355 37.037 4.36 5.16 41.01 2.08
2909 3202 7.339466 ACAAACTTGGTCAAACTTTGAGATAGT 59.661 33.333 4.36 5.71 41.01 2.12
2910 3203 7.881775 AACTTGGTCAAACTTTGAGATAGTT 57.118 32.000 4.36 10.51 41.01 2.24
2911 3204 7.881775 ACTTGGTCAAACTTTGAGATAGTTT 57.118 32.000 4.36 0.00 44.38 2.66
2919 3212 7.511959 AAACTTTGAGATAGTTTGACCCTTC 57.488 36.000 0.00 0.00 42.54 3.46
2920 3213 6.187727 ACTTTGAGATAGTTTGACCCTTCA 57.812 37.500 0.00 0.00 0.00 3.02
2921 3214 6.601332 ACTTTGAGATAGTTTGACCCTTCAA 58.399 36.000 0.00 0.00 40.14 2.69
2922 3215 7.234355 ACTTTGAGATAGTTTGACCCTTCAAT 58.766 34.615 0.00 0.00 41.50 2.57
2923 3216 8.383175 ACTTTGAGATAGTTTGACCCTTCAATA 58.617 33.333 0.00 0.00 41.50 1.90
2924 3217 9.231297 CTTTGAGATAGTTTGACCCTTCAATAA 57.769 33.333 0.00 0.00 41.50 1.40
2925 3218 9.581289 TTTGAGATAGTTTGACCCTTCAATAAA 57.419 29.630 0.00 0.00 41.50 1.40
2926 3219 8.792830 TGAGATAGTTTGACCCTTCAATAAAG 57.207 34.615 0.00 0.00 41.50 1.85
2927 3220 8.383175 TGAGATAGTTTGACCCTTCAATAAAGT 58.617 33.333 0.00 0.00 41.50 2.66
2928 3221 9.232473 GAGATAGTTTGACCCTTCAATAAAGTT 57.768 33.333 0.00 0.00 41.50 2.66
2929 3222 9.014297 AGATAGTTTGACCCTTCAATAAAGTTG 57.986 33.333 0.00 0.00 41.50 3.16
2930 3223 6.405278 AGTTTGACCCTTCAATAAAGTTGG 57.595 37.500 0.00 0.00 41.50 3.77
2931 3224 6.133356 AGTTTGACCCTTCAATAAAGTTGGA 58.867 36.000 0.00 0.00 41.50 3.53
2932 3225 6.609616 AGTTTGACCCTTCAATAAAGTTGGAA 59.390 34.615 0.00 0.00 41.50 3.53
2933 3226 6.648879 TTGACCCTTCAATAAAGTTGGAAG 57.351 37.500 0.00 0.00 36.79 3.46
2934 3227 5.701224 TGACCCTTCAATAAAGTTGGAAGT 58.299 37.500 0.00 0.00 36.00 3.01
2935 3228 6.843752 TGACCCTTCAATAAAGTTGGAAGTA 58.156 36.000 0.00 0.00 36.00 2.24
2936 3229 6.713450 TGACCCTTCAATAAAGTTGGAAGTAC 59.287 38.462 0.00 0.00 36.00 2.73
2937 3230 6.607019 ACCCTTCAATAAAGTTGGAAGTACA 58.393 36.000 0.00 0.00 36.00 2.90
2938 3231 6.489022 ACCCTTCAATAAAGTTGGAAGTACAC 59.511 38.462 0.00 0.00 36.00 2.90
2939 3232 6.715264 CCCTTCAATAAAGTTGGAAGTACACT 59.285 38.462 0.00 0.00 36.00 3.55
2940 3233 7.094762 CCCTTCAATAAAGTTGGAAGTACACTC 60.095 40.741 0.00 0.00 36.00 3.51
2941 3234 7.661847 CCTTCAATAAAGTTGGAAGTACACTCT 59.338 37.037 0.00 0.00 36.00 3.24
2942 3235 8.974060 TTCAATAAAGTTGGAAGTACACTCTT 57.026 30.769 0.00 0.00 0.00 2.85
2943 3236 8.974060 TCAATAAAGTTGGAAGTACACTCTTT 57.026 30.769 0.00 0.00 33.02 2.52
2948 3241 7.803279 AAGTTGGAAGTACACTCTTTAAAGG 57.197 36.000 15.13 8.48 0.00 3.11
2949 3242 7.133133 AGTTGGAAGTACACTCTTTAAAGGA 57.867 36.000 15.13 1.82 0.00 3.36
2950 3243 6.990939 AGTTGGAAGTACACTCTTTAAAGGAC 59.009 38.462 15.13 6.27 0.00 3.85
2951 3244 5.535333 TGGAAGTACACTCTTTAAAGGACG 58.465 41.667 15.13 6.90 0.00 4.79
2952 3245 4.928020 GGAAGTACACTCTTTAAAGGACGG 59.072 45.833 15.13 5.64 0.00 4.79
2953 3246 5.279156 GGAAGTACACTCTTTAAAGGACGGA 60.279 44.000 15.13 0.00 0.00 4.69
2954 3247 5.997384 AGTACACTCTTTAAAGGACGGAT 57.003 39.130 15.13 0.10 0.00 4.18
2955 3248 5.721232 AGTACACTCTTTAAAGGACGGATG 58.279 41.667 15.13 7.35 0.00 3.51
2956 3249 3.939066 ACACTCTTTAAAGGACGGATGG 58.061 45.455 15.13 0.45 0.00 3.51
2957 3250 3.270877 CACTCTTTAAAGGACGGATGGG 58.729 50.000 15.13 0.00 0.00 4.00
2958 3251 3.055385 CACTCTTTAAAGGACGGATGGGA 60.055 47.826 15.13 0.00 0.00 4.37
2969 3262 3.323979 GGACGGATGGGAGTATACAACAT 59.676 47.826 5.50 6.19 0.00 2.71
2985 3278 1.813513 ACATTAGCACTGACCACTGC 58.186 50.000 0.00 0.00 0.00 4.40
3068 3364 1.679680 CTTGACCCTGCCATGCTTATG 59.320 52.381 0.00 0.00 0.00 1.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.872679 CGAGCCCGAGCGTAAAGAC 60.873 63.158 0.00 0.00 46.67 3.01
1 2 2.488355 CGAGCCCGAGCGTAAAGA 59.512 61.111 0.00 0.00 46.67 2.52
2 3 2.582498 CCGAGCCCGAGCGTAAAG 60.582 66.667 0.00 0.00 46.67 1.85
3 4 4.807039 GCCGAGCCCGAGCGTAAA 62.807 66.667 0.00 0.00 46.67 2.01
5 6 4.862447 TAGCCGAGCCCGAGCGTA 62.862 66.667 0.00 0.00 46.67 4.42
8 9 3.275832 GATCTAGCCGAGCCCGAGC 62.276 68.421 0.00 0.00 38.22 5.03
9 10 1.861542 CTGATCTAGCCGAGCCCGAG 61.862 65.000 0.00 0.00 38.22 4.63
10 11 1.899054 CTGATCTAGCCGAGCCCGA 60.899 63.158 0.00 0.00 38.22 5.14
11 12 2.647875 CTGATCTAGCCGAGCCCG 59.352 66.667 0.00 0.00 0.00 6.13
22 23 0.690411 CCTCTGGGTCCTGCTGATCT 60.690 60.000 0.00 0.00 0.00 2.75
28 29 0.842635 ATGAATCCTCTGGGTCCTGC 59.157 55.000 0.00 0.00 0.00 4.85
122 123 3.695606 TCGGCCAGCCAGTCAGTC 61.696 66.667 9.78 0.00 35.37 3.51
123 124 4.008933 GTCGGCCAGCCAGTCAGT 62.009 66.667 9.78 0.00 35.37 3.41
124 125 4.767255 GGTCGGCCAGCCAGTCAG 62.767 72.222 0.00 0.00 35.37 3.51
131 132 2.203070 AATGATCGGTCGGCCAGC 60.203 61.111 6.96 0.00 34.09 4.85
148 149 1.007502 GGCACATCAACTTTGCGCA 60.008 52.632 5.66 5.66 37.11 6.09
197 198 3.398694 TCGCCTGCGAGATAGTAGT 57.601 52.632 10.61 0.00 44.01 2.73
274 276 9.748708 TCTTTCTCATCAGGTTTGTTTTAATTG 57.251 29.630 0.00 0.00 0.00 2.32
277 279 8.413229 CCTTCTTTCTCATCAGGTTTGTTTTAA 58.587 33.333 0.00 0.00 0.00 1.52
281 283 4.279420 GCCTTCTTTCTCATCAGGTTTGTT 59.721 41.667 0.00 0.00 0.00 2.83
282 284 3.823304 GCCTTCTTTCTCATCAGGTTTGT 59.177 43.478 0.00 0.00 0.00 2.83
283 285 3.192212 GGCCTTCTTTCTCATCAGGTTTG 59.808 47.826 0.00 0.00 0.00 2.93
304 306 3.706373 CCCGTCCCACCTGACTGG 61.706 72.222 0.00 0.00 42.93 4.00
305 307 2.603473 TCCCGTCCCACCTGACTG 60.603 66.667 0.00 0.00 32.97 3.51
306 308 2.283966 CTCCCGTCCCACCTGACT 60.284 66.667 0.00 0.00 32.97 3.41
307 309 3.391382 CCTCCCGTCCCACCTGAC 61.391 72.222 0.00 0.00 0.00 3.51
338 347 2.941480 AGGATTGACATGAATGGCCTC 58.059 47.619 3.32 0.00 33.92 4.70
362 371 5.071370 CACGTAGGATAGGAAGATAGTGGT 58.929 45.833 0.00 0.00 0.00 4.16
363 372 4.082679 GCACGTAGGATAGGAAGATAGTGG 60.083 50.000 0.00 0.00 0.00 4.00
490 500 4.157120 CCGTCCGGGGTGTGATCC 62.157 72.222 0.00 0.00 0.00 3.36
501 511 0.173708 CTTCTTTCCTCTCCCGTCCG 59.826 60.000 0.00 0.00 0.00 4.79
502 512 0.537653 CCTTCTTTCCTCTCCCGTCC 59.462 60.000 0.00 0.00 0.00 4.79
503 513 1.478916 CTCCTTCTTTCCTCTCCCGTC 59.521 57.143 0.00 0.00 0.00 4.79
584 596 2.030457 GGTATTTGCTTCGACGATGGTG 59.970 50.000 12.12 0.00 0.00 4.17
692 711 1.153549 GAGGCGCGATTTGTCCTCT 60.154 57.895 12.10 0.00 41.35 3.69
719 738 1.541672 GAGGGAGGAGAGGAGAGGG 59.458 68.421 0.00 0.00 0.00 4.30
720 739 1.541672 GGAGGGAGGAGAGGAGAGG 59.458 68.421 0.00 0.00 0.00 3.69
721 740 1.541672 GGGAGGGAGGAGAGGAGAG 59.458 68.421 0.00 0.00 0.00 3.20
722 741 2.015726 GGGGAGGGAGGAGAGGAGA 61.016 68.421 0.00 0.00 0.00 3.71
723 742 2.612251 GGGGAGGGAGGAGAGGAG 59.388 72.222 0.00 0.00 0.00 3.69
794 817 1.521681 GGAGGAAATGGCGACGAGG 60.522 63.158 0.00 0.00 0.00 4.63
796 819 0.108329 GAAGGAGGAAATGGCGACGA 60.108 55.000 0.00 0.00 0.00 4.20
798 821 0.748367 GGGAAGGAGGAAATGGCGAC 60.748 60.000 0.00 0.00 0.00 5.19
864 893 1.536922 CGTAGGCTATGTCTGTGCTGG 60.537 57.143 5.55 0.00 0.00 4.85
870 910 1.065764 TGCGCGTAGGCTATGTCTG 59.934 57.895 14.88 6.94 36.88 3.51
941 984 1.159285 CACGCAAAGAGAGGAATGCA 58.841 50.000 0.00 0.00 38.69 3.96
952 995 2.162921 CTCACACTCGCCACGCAAAG 62.163 60.000 0.00 0.00 0.00 2.77
953 996 2.202946 TCACACTCGCCACGCAAA 60.203 55.556 0.00 0.00 0.00 3.68
954 997 2.661537 CTCACACTCGCCACGCAA 60.662 61.111 0.00 0.00 0.00 4.85
957 1003 2.126307 CCTCTCACACTCGCCACG 60.126 66.667 0.00 0.00 0.00 4.94
963 1009 1.336755 GCTAGCTAGCCTCTCACACTC 59.663 57.143 31.67 2.80 43.39 3.51
970 1016 0.825840 CCTTCCGCTAGCTAGCCTCT 60.826 60.000 34.27 0.00 46.34 3.69
999 1045 0.681243 GGAACTTGTGCCTCCCCATC 60.681 60.000 0.00 0.00 0.00 3.51
1162 1214 0.659957 GTGTAGTAGTAGGACGCCCG 59.340 60.000 0.00 0.00 37.58 6.13
1551 1603 1.067669 AGGTCGATGATGATGTCCGTG 59.932 52.381 0.00 0.00 0.00 4.94
2107 2165 1.375268 AAGACCGCTGCTCTGCTTC 60.375 57.895 0.00 0.00 0.00 3.86
2207 2284 7.011482 GGGGAATCTCATATTTATCATACGTGC 59.989 40.741 0.00 0.00 0.00 5.34
2208 2285 8.040727 TGGGGAATCTCATATTTATCATACGTG 58.959 37.037 0.00 0.00 0.00 4.49
2209 2286 8.146053 TGGGGAATCTCATATTTATCATACGT 57.854 34.615 0.00 0.00 0.00 3.57
2210 2287 9.102757 CTTGGGGAATCTCATATTTATCATACG 57.897 37.037 0.00 0.00 0.00 3.06
2259 2338 4.221924 AGCAAGGTAGAAGGAGAGAAGAAC 59.778 45.833 0.00 0.00 0.00 3.01
2319 2399 1.671054 CTTGTACGCCCACACCCTG 60.671 63.158 0.00 0.00 0.00 4.45
2321 2401 1.964373 CACTTGTACGCCCACACCC 60.964 63.158 0.00 0.00 0.00 4.61
2392 2477 4.944930 TCCTACCACCGTAATCCAAAAATG 59.055 41.667 0.00 0.00 0.00 2.32
2394 2479 4.041938 ACTCCTACCACCGTAATCCAAAAA 59.958 41.667 0.00 0.00 0.00 1.94
2395 2480 3.583966 ACTCCTACCACCGTAATCCAAAA 59.416 43.478 0.00 0.00 0.00 2.44
2458 2545 0.034337 GAAGAGGCAACACGGTACCA 59.966 55.000 13.54 0.00 41.41 3.25
2490 2608 1.079875 AACACGGATTTACGCGCGAT 61.080 50.000 39.36 20.68 37.37 4.58
2518 2637 9.661563 TCTCTTAAAAGTTTCAACTGAAGTACA 57.338 29.630 0.00 0.00 39.66 2.90
2662 2955 4.970611 CGATGTCGAGTTATGAACTACCAG 59.029 45.833 0.00 0.00 43.03 4.00
2696 2989 5.904362 TCTTTAAAGTACGGAGGGAGTAC 57.096 43.478 14.74 0.00 43.37 2.73
2697 2990 6.438425 ACAATCTTTAAAGTACGGAGGGAGTA 59.562 38.462 14.74 0.00 0.00 2.59
2698 2991 5.247792 ACAATCTTTAAAGTACGGAGGGAGT 59.752 40.000 14.74 0.00 0.00 3.85
2699 2992 5.731591 ACAATCTTTAAAGTACGGAGGGAG 58.268 41.667 14.74 0.00 0.00 4.30
2700 2993 5.750352 ACAATCTTTAAAGTACGGAGGGA 57.250 39.130 14.74 0.00 0.00 4.20
2701 2994 6.637657 AGTACAATCTTTAAAGTACGGAGGG 58.362 40.000 14.74 1.24 41.16 4.30
2702 2995 7.277319 GGAAGTACAATCTTTAAAGTACGGAGG 59.723 40.741 14.74 2.60 41.16 4.30
2703 2996 7.816031 TGGAAGTACAATCTTTAAAGTACGGAG 59.184 37.037 14.74 3.85 41.16 4.63
2704 2997 7.669427 TGGAAGTACAATCTTTAAAGTACGGA 58.331 34.615 14.74 0.00 41.16 4.69
2705 2998 7.894376 TGGAAGTACAATCTTTAAAGTACGG 57.106 36.000 14.74 6.31 41.16 4.02
2706 2999 8.985805 AGTTGGAAGTACAATCTTTAAAGTACG 58.014 33.333 14.74 6.97 41.16 3.67
2796 3089 9.322776 CGAATCTAATGCTACTAATTTGATTGC 57.677 33.333 9.47 0.00 38.62 3.56
2799 3092 9.764363 TCACGAATCTAATGCTACTAATTTGAT 57.236 29.630 0.00 0.00 33.00 2.57
2800 3093 9.764363 ATCACGAATCTAATGCTACTAATTTGA 57.236 29.630 0.00 0.00 0.00 2.69
2845 3138 8.788806 TCAACGTTTGTGAAATCAAATAGGTAT 58.211 29.630 0.00 0.00 39.09 2.73
2846 3139 8.155821 TCAACGTTTGTGAAATCAAATAGGTA 57.844 30.769 0.00 0.00 39.09 3.08
2847 3140 7.033530 TCAACGTTTGTGAAATCAAATAGGT 57.966 32.000 0.00 0.00 39.09 3.08
2848 3141 9.787532 ATATCAACGTTTGTGAAATCAAATAGG 57.212 29.630 0.00 0.00 39.09 2.57
2857 3150 9.249457 TGCAAAAATATATCAACGTTTGTGAAA 57.751 25.926 0.00 0.00 0.00 2.69
2858 3151 8.695284 GTGCAAAAATATATCAACGTTTGTGAA 58.305 29.630 0.00 0.00 0.00 3.18
2859 3152 7.862873 TGTGCAAAAATATATCAACGTTTGTGA 59.137 29.630 0.00 0.00 0.00 3.58
2860 3153 8.001358 TGTGCAAAAATATATCAACGTTTGTG 57.999 30.769 0.00 0.00 0.00 3.33
2861 3154 8.581057 TTGTGCAAAAATATATCAACGTTTGT 57.419 26.923 0.00 0.00 0.00 2.83
2862 3155 9.300441 GTTTGTGCAAAAATATATCAACGTTTG 57.700 29.630 5.11 0.00 31.33 2.93
2863 3156 9.255304 AGTTTGTGCAAAAATATATCAACGTTT 57.745 25.926 5.11 0.00 31.33 3.60
2864 3157 8.810652 AGTTTGTGCAAAAATATATCAACGTT 57.189 26.923 5.11 0.00 31.33 3.99
2865 3158 8.698854 CAAGTTTGTGCAAAAATATATCAACGT 58.301 29.630 5.11 0.00 31.33 3.99
2866 3159 8.161610 CCAAGTTTGTGCAAAAATATATCAACG 58.838 33.333 5.11 0.00 31.33 4.10
2867 3160 8.987890 ACCAAGTTTGTGCAAAAATATATCAAC 58.012 29.630 5.11 0.00 31.33 3.18
2868 3161 9.202273 GACCAAGTTTGTGCAAAAATATATCAA 57.798 29.630 5.11 0.00 31.33 2.57
2869 3162 8.363390 TGACCAAGTTTGTGCAAAAATATATCA 58.637 29.630 5.11 4.10 31.33 2.15
2870 3163 8.755696 TGACCAAGTTTGTGCAAAAATATATC 57.244 30.769 5.11 1.62 31.33 1.63
2871 3164 9.553064 TTTGACCAAGTTTGTGCAAAAATATAT 57.447 25.926 5.11 0.00 31.18 0.86
2872 3165 8.821894 GTTTGACCAAGTTTGTGCAAAAATATA 58.178 29.630 5.11 0.00 33.89 0.86
2873 3166 7.552330 AGTTTGACCAAGTTTGTGCAAAAATAT 59.448 29.630 5.11 0.00 33.89 1.28
2874 3167 6.876257 AGTTTGACCAAGTTTGTGCAAAAATA 59.124 30.769 5.11 0.00 33.89 1.40
2875 3168 5.704978 AGTTTGACCAAGTTTGTGCAAAAAT 59.295 32.000 5.11 0.00 33.89 1.82
2876 3169 5.059833 AGTTTGACCAAGTTTGTGCAAAAA 58.940 33.333 0.00 0.00 33.89 1.94
2877 3170 4.636249 AGTTTGACCAAGTTTGTGCAAAA 58.364 34.783 0.00 0.00 33.89 2.44
2878 3171 4.264460 AGTTTGACCAAGTTTGTGCAAA 57.736 36.364 0.00 0.00 31.45 3.68
2879 3172 3.951775 AGTTTGACCAAGTTTGTGCAA 57.048 38.095 0.00 0.00 0.00 4.08
2880 3173 3.951775 AAGTTTGACCAAGTTTGTGCA 57.048 38.095 0.00 0.00 0.00 4.57
2881 3174 4.582441 CAAAGTTTGACCAAGTTTGTGC 57.418 40.909 10.19 0.00 45.37 4.57
2885 3178 7.881775 ACTATCTCAAAGTTTGACCAAGTTT 57.118 32.000 14.35 1.42 38.38 2.66
2886 3179 7.881775 AACTATCTCAAAGTTTGACCAAGTT 57.118 32.000 14.35 17.60 33.39 2.66
2887 3180 7.881775 AAACTATCTCAAAGTTTGACCAAGT 57.118 32.000 14.35 13.40 43.66 3.16
2895 3188 7.060421 TGAAGGGTCAAACTATCTCAAAGTTT 58.940 34.615 0.00 0.00 45.64 2.66
2896 3189 6.601332 TGAAGGGTCAAACTATCTCAAAGTT 58.399 36.000 0.00 0.00 38.82 2.66
2897 3190 6.187727 TGAAGGGTCAAACTATCTCAAAGT 57.812 37.500 0.00 0.00 0.00 2.66
2898 3191 7.693969 ATTGAAGGGTCAAACTATCTCAAAG 57.306 36.000 0.00 0.00 46.66 2.77
2899 3192 9.581289 TTTATTGAAGGGTCAAACTATCTCAAA 57.419 29.630 0.00 0.00 46.66 2.69
2900 3193 9.231297 CTTTATTGAAGGGTCAAACTATCTCAA 57.769 33.333 0.00 0.00 46.66 3.02
2901 3194 8.383175 ACTTTATTGAAGGGTCAAACTATCTCA 58.617 33.333 0.00 0.00 46.66 3.27
2902 3195 8.794335 ACTTTATTGAAGGGTCAAACTATCTC 57.206 34.615 0.00 0.00 46.66 2.75
2903 3196 9.014297 CAACTTTATTGAAGGGTCAAACTATCT 57.986 33.333 0.00 0.00 46.66 1.98
2904 3197 8.244113 CCAACTTTATTGAAGGGTCAAACTATC 58.756 37.037 0.00 0.00 46.66 2.08
2905 3198 7.947890 TCCAACTTTATTGAAGGGTCAAACTAT 59.052 33.333 0.00 0.00 46.66 2.12
2906 3199 7.291566 TCCAACTTTATTGAAGGGTCAAACTA 58.708 34.615 0.00 0.00 46.66 2.24
2907 3200 6.133356 TCCAACTTTATTGAAGGGTCAAACT 58.867 36.000 0.00 0.00 46.66 2.66
2908 3201 6.399639 TCCAACTTTATTGAAGGGTCAAAC 57.600 37.500 0.00 0.00 46.66 2.93
2909 3202 6.609616 ACTTCCAACTTTATTGAAGGGTCAAA 59.390 34.615 0.00 0.00 46.66 2.69
2911 3204 5.701224 ACTTCCAACTTTATTGAAGGGTCA 58.299 37.500 0.00 0.00 39.79 4.02
2912 3205 6.713450 TGTACTTCCAACTTTATTGAAGGGTC 59.287 38.462 0.00 0.00 39.79 4.46
2913 3206 6.489022 GTGTACTTCCAACTTTATTGAAGGGT 59.511 38.462 0.00 0.00 39.79 4.34
2914 3207 6.715264 AGTGTACTTCCAACTTTATTGAAGGG 59.285 38.462 0.00 0.00 39.79 3.95
2915 3208 7.661847 AGAGTGTACTTCCAACTTTATTGAAGG 59.338 37.037 0.00 0.00 39.79 3.46
2916 3209 8.608844 AGAGTGTACTTCCAACTTTATTGAAG 57.391 34.615 0.00 0.00 41.32 3.02
2917 3210 8.974060 AAGAGTGTACTTCCAACTTTATTGAA 57.026 30.769 0.00 0.00 0.00 2.69
2918 3211 8.974060 AAAGAGTGTACTTCCAACTTTATTGA 57.026 30.769 0.00 0.00 0.00 2.57
2922 3215 9.333724 CCTTTAAAGAGTGTACTTCCAACTTTA 57.666 33.333 16.98 0.00 31.02 1.85
2923 3216 8.050930 TCCTTTAAAGAGTGTACTTCCAACTTT 58.949 33.333 16.98 0.00 32.26 2.66
2924 3217 7.498239 GTCCTTTAAAGAGTGTACTTCCAACTT 59.502 37.037 16.98 0.00 0.00 2.66
2925 3218 6.990939 GTCCTTTAAAGAGTGTACTTCCAACT 59.009 38.462 16.98 0.00 0.00 3.16
2926 3219 6.073927 CGTCCTTTAAAGAGTGTACTTCCAAC 60.074 42.308 16.98 0.00 0.00 3.77
2927 3220 5.987347 CGTCCTTTAAAGAGTGTACTTCCAA 59.013 40.000 16.98 0.00 0.00 3.53
2928 3221 5.510179 CCGTCCTTTAAAGAGTGTACTTCCA 60.510 44.000 16.98 0.00 0.00 3.53
2929 3222 4.928020 CCGTCCTTTAAAGAGTGTACTTCC 59.072 45.833 16.98 0.00 0.00 3.46
2930 3223 5.776744 TCCGTCCTTTAAAGAGTGTACTTC 58.223 41.667 16.98 0.00 0.00 3.01
2931 3224 5.796424 TCCGTCCTTTAAAGAGTGTACTT 57.204 39.130 16.98 0.00 0.00 2.24
2932 3225 5.337330 CCATCCGTCCTTTAAAGAGTGTACT 60.337 44.000 16.98 0.00 0.00 2.73
2933 3226 4.868734 CCATCCGTCCTTTAAAGAGTGTAC 59.131 45.833 16.98 5.84 0.00 2.90
2934 3227 4.081309 CCCATCCGTCCTTTAAAGAGTGTA 60.081 45.833 16.98 0.00 0.00 2.90
2935 3228 3.307480 CCCATCCGTCCTTTAAAGAGTGT 60.307 47.826 16.98 0.00 0.00 3.55
2936 3229 3.055385 TCCCATCCGTCCTTTAAAGAGTG 60.055 47.826 16.98 5.33 0.00 3.51
2937 3230 3.178865 TCCCATCCGTCCTTTAAAGAGT 58.821 45.455 16.98 0.00 0.00 3.24
2938 3231 3.197983 ACTCCCATCCGTCCTTTAAAGAG 59.802 47.826 16.98 7.03 0.00 2.85
2939 3232 3.178865 ACTCCCATCCGTCCTTTAAAGA 58.821 45.455 16.98 0.24 0.00 2.52
2940 3233 3.629142 ACTCCCATCCGTCCTTTAAAG 57.371 47.619 8.32 8.32 0.00 1.85
2941 3234 5.662208 TGTATACTCCCATCCGTCCTTTAAA 59.338 40.000 4.17 0.00 0.00 1.52
2942 3235 5.210430 TGTATACTCCCATCCGTCCTTTAA 58.790 41.667 4.17 0.00 0.00 1.52
2943 3236 4.806892 TGTATACTCCCATCCGTCCTTTA 58.193 43.478 4.17 0.00 0.00 1.85
2944 3237 3.649843 TGTATACTCCCATCCGTCCTTT 58.350 45.455 4.17 0.00 0.00 3.11
2945 3238 3.323774 TGTATACTCCCATCCGTCCTT 57.676 47.619 4.17 0.00 0.00 3.36
2946 3239 2.963782 GTTGTATACTCCCATCCGTCCT 59.036 50.000 4.17 0.00 0.00 3.85
2947 3240 2.696707 TGTTGTATACTCCCATCCGTCC 59.303 50.000 4.17 0.00 0.00 4.79
2948 3241 4.602340 ATGTTGTATACTCCCATCCGTC 57.398 45.455 4.17 0.00 0.00 4.79
2949 3242 5.510861 GCTAATGTTGTATACTCCCATCCGT 60.511 44.000 4.17 0.00 0.00 4.69
2950 3243 4.929808 GCTAATGTTGTATACTCCCATCCG 59.070 45.833 4.17 1.01 0.00 4.18
2951 3244 5.701290 GTGCTAATGTTGTATACTCCCATCC 59.299 44.000 4.17 0.00 0.00 3.51
2952 3245 6.425114 CAGTGCTAATGTTGTATACTCCCATC 59.575 42.308 4.17 0.00 0.00 3.51
2953 3246 6.099701 TCAGTGCTAATGTTGTATACTCCCAT 59.900 38.462 4.17 1.08 0.00 4.00
2954 3247 5.423931 TCAGTGCTAATGTTGTATACTCCCA 59.576 40.000 4.17 0.00 0.00 4.37
2955 3248 5.753921 GTCAGTGCTAATGTTGTATACTCCC 59.246 44.000 4.17 0.00 0.00 4.30
2956 3249 5.753921 GGTCAGTGCTAATGTTGTATACTCC 59.246 44.000 4.17 0.00 0.00 3.85
2957 3250 6.255887 GTGGTCAGTGCTAATGTTGTATACTC 59.744 42.308 4.17 0.00 0.00 2.59
2958 3251 6.070767 AGTGGTCAGTGCTAATGTTGTATACT 60.071 38.462 4.17 0.00 0.00 2.12
2985 3278 9.793252 CAGTGGATAAAAGACATTTATTCCAAG 57.207 33.333 12.09 7.61 42.84 3.61


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

AutoCloner maintained by Alex Coulton.