Multiple sequence alignment - TraesCS5A01G377800

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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 TraesCS5A01G377800 chr5A 100.000 3563 0 0 1 3563 575525200 575528762 0.000000e+00 6580
1 TraesCS5A01G377800 chr5A 85.030 334 44 6 2688 3017 44284872 44285203 5.700000e-88 335
2 TraesCS5A01G377800 chr5B 92.921 2670 123 24 1 2643 559681844 559684474 0.000000e+00 3823
3 TraesCS5A01G377800 chr5D 94.824 1932 76 8 782 2706 457628142 457630056 0.000000e+00 2992
4 TraesCS5A01G377800 chr5D 91.975 810 41 7 2 795 457627325 457628126 0.000000e+00 1114
5 TraesCS5A01G377800 chr5D 91.031 446 27 6 3104 3549 457630125 457630557 1.100000e-164 590
6 TraesCS5A01G377800 chr5D 88.699 292 32 1 2693 2983 451067130 451067421 4.380000e-94 355
7 TraesCS5A01G377800 chr5D 88.732 284 28 3 2704 2983 283351584 283351867 9.470000e-91 344
8 TraesCS5A01G377800 chr2D 89.362 282 29 1 2706 2986 325807605 325807324 1.570000e-93 353
9 TraesCS5A01G377800 chr3B 88.772 285 30 2 2697 2980 663084082 663084365 7.320000e-92 348
10 TraesCS5A01G377800 chr2A 89.007 282 30 1 2706 2986 675390253 675390534 7.320000e-92 348
11 TraesCS5A01G377800 chr2A 89.209 278 28 2 2708 2983 9333801 9334078 2.630000e-91 346
12 TraesCS5A01G377800 chr7A 87.755 294 34 2 2696 2987 359054669 359054376 3.410000e-90 342
13 TraesCS5A01G377800 chr6D 86.452 310 32 8 2705 3008 461413007 461412702 7.370000e-87 331
14 TraesCS5A01G377800 chr1D 76.301 346 61 16 3048 3378 50974412 50974073 7.910000e-37 165
15 TraesCS5A01G377800 chr1D 76.149 348 59 17 3048 3378 52117481 52117141 1.020000e-35 161
16 TraesCS5A01G377800 chr1D 75.145 346 65 16 3048 3378 51564405 51564066 3.710000e-30 143


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5A01G377800 chr5A 575525200 575528762 3562 False 6580.000000 6580 100.000 1 3563 1 chr5A.!!$F2 3562
1 TraesCS5A01G377800 chr5B 559681844 559684474 2630 False 3823.000000 3823 92.921 1 2643 1 chr5B.!!$F1 2642
2 TraesCS5A01G377800 chr5D 457627325 457630557 3232 False 1565.333333 2992 92.610 2 3549 3 chr5D.!!$F3 3547

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
922 991 0.179048 TATCCGAAGCCATGGCAGTG 60.179 55.0 37.18 24.41 44.88 3.66 F
1578 1653 0.601046 CGCTCTTCAGGCAGTGTCAA 60.601 55.0 0.00 0.00 0.00 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2046 2121 0.250338 AGAACAAGGTGACCGCTTCC 60.250 55.0 0.0 0.0 0.0 3.46 R
2928 3003 0.037232 CTTCCCACCACTCCTTCGTC 60.037 60.0 0.0 0.0 0.0 4.20 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
30 32 7.743104 ACTCGATCAATTCACATTTTACTGTC 58.257 34.615 0.00 0.00 0.00 3.51
34 36 6.012658 TCAATTCACATTTTACTGTCTGGC 57.987 37.500 0.00 0.00 0.00 4.85
82 87 3.847184 TGTGTATTATTGGTGACTGGGGA 59.153 43.478 0.00 0.00 0.00 4.81
96 101 2.092753 ACTGGGGACTGACTGCATTATG 60.093 50.000 0.00 0.00 0.00 1.90
371 395 2.912624 AAGAACGCAAGCAGCAGCC 61.913 57.895 0.00 0.00 46.13 4.85
652 676 7.447374 TGTTGGATATTCTGAAATCAACGTT 57.553 32.000 0.00 0.00 33.23 3.99
671 695 4.206200 ACGTTGAACAATGAAAATTGACGC 59.794 37.500 12.75 0.00 33.91 5.19
680 704 8.816640 ACAATGAAAATTGACGCTTATTTCTT 57.183 26.923 5.49 0.00 35.60 2.52
731 761 5.771469 TGGATGTATTTTTGTTGCTGTGAG 58.229 37.500 0.00 0.00 0.00 3.51
756 794 7.422399 GTGGAACTTTTGCTATTTTGTGAGTA 58.578 34.615 0.00 0.00 0.00 2.59
798 866 3.826524 TGCAACCTACCATTTGACTTGA 58.173 40.909 0.00 0.00 0.00 3.02
842 910 5.777850 TGAGTAAAAAGCCCAAACCTAAC 57.222 39.130 0.00 0.00 0.00 2.34
900 969 0.326264 GCCACAAGTGAGGAGGTGAT 59.674 55.000 0.94 0.00 33.16 3.06
912 981 2.630580 AGGAGGTGATCTTATCCGAAGC 59.369 50.000 0.00 0.00 36.91 3.86
913 982 2.289133 GGAGGTGATCTTATCCGAAGCC 60.289 54.545 0.00 0.00 0.00 4.35
915 984 2.975489 AGGTGATCTTATCCGAAGCCAT 59.025 45.455 0.00 0.00 0.00 4.40
916 985 3.070018 GGTGATCTTATCCGAAGCCATG 58.930 50.000 0.00 0.00 0.00 3.66
917 986 3.070018 GTGATCTTATCCGAAGCCATGG 58.930 50.000 7.63 7.63 0.00 3.66
918 987 2.079925 GATCTTATCCGAAGCCATGGC 58.920 52.381 30.12 30.12 42.33 4.40
919 988 0.836606 TCTTATCCGAAGCCATGGCA 59.163 50.000 37.18 18.00 44.88 4.92
920 989 1.202687 TCTTATCCGAAGCCATGGCAG 60.203 52.381 37.18 26.04 44.88 4.85
921 990 0.546122 TTATCCGAAGCCATGGCAGT 59.454 50.000 37.18 25.05 44.88 4.40
922 991 0.179048 TATCCGAAGCCATGGCAGTG 60.179 55.000 37.18 24.41 44.88 3.66
923 992 2.898920 ATCCGAAGCCATGGCAGTGG 62.899 60.000 37.18 31.18 44.88 4.00
956 1025 4.000557 GCGCACACACTCACCACG 62.001 66.667 0.30 0.00 0.00 4.94
1005 1074 0.755686 CCAGAGTACAGAGGATGGCC 59.244 60.000 0.00 0.00 0.00 5.36
1056 1131 1.992277 CACCACCTCCCCTCTCCTG 60.992 68.421 0.00 0.00 0.00 3.86
1369 1444 1.719600 GCTGTTTCTCGACATGCTCT 58.280 50.000 0.00 0.00 0.00 4.09
1416 1491 1.737008 GTTCCCGTCTCTGTTCGCC 60.737 63.158 0.00 0.00 0.00 5.54
1567 1642 2.999648 AGGCTCTGGCGCTCTTCA 61.000 61.111 7.64 0.00 39.81 3.02
1575 1650 2.358003 GCGCTCTTCAGGCAGTGT 60.358 61.111 0.00 0.00 0.00 3.55
1578 1653 0.601046 CGCTCTTCAGGCAGTGTCAA 60.601 55.000 0.00 0.00 0.00 3.18
1580 1655 1.270518 GCTCTTCAGGCAGTGTCAAGA 60.271 52.381 0.00 0.00 0.00 3.02
1590 1665 2.460918 CAGTGTCAAGAGTTCGACGTT 58.539 47.619 0.00 0.00 34.78 3.99
2056 2131 1.675310 CAATGCCAGGAAGCGGTCA 60.675 57.895 0.00 0.00 34.65 4.02
2127 2202 2.667536 ATCGCGATGCTGATGGCC 60.668 61.111 23.04 0.00 40.92 5.36
2597 2672 7.564793 TCAGCAGTTCAAGGTACAATACATAT 58.435 34.615 0.00 0.00 0.00 1.78
2598 2673 8.700973 TCAGCAGTTCAAGGTACAATACATATA 58.299 33.333 0.00 0.00 0.00 0.86
2599 2674 9.494271 CAGCAGTTCAAGGTACAATACATATAT 57.506 33.333 0.00 0.00 0.00 0.86
2651 2726 5.624159 TGGAGATTCAGTTTGATGACACTT 58.376 37.500 0.00 0.00 0.00 3.16
2722 2797 8.761575 TTTTACTAACTAGAACAATACCCGTG 57.238 34.615 0.00 0.00 0.00 4.94
2723 2798 4.752146 ACTAACTAGAACAATACCCGTGC 58.248 43.478 0.00 0.00 0.00 5.34
2724 2799 2.288961 ACTAGAACAATACCCGTGCG 57.711 50.000 0.00 0.00 0.00 5.34
2725 2800 1.547372 ACTAGAACAATACCCGTGCGT 59.453 47.619 0.00 0.00 0.00 5.24
2726 2801 2.028748 ACTAGAACAATACCCGTGCGTT 60.029 45.455 0.00 0.00 0.00 4.84
2727 2802 1.153353 AGAACAATACCCGTGCGTTG 58.847 50.000 0.00 0.00 0.00 4.10
2728 2803 0.453782 GAACAATACCCGTGCGTTGC 60.454 55.000 0.00 0.00 0.00 4.17
2729 2804 1.167155 AACAATACCCGTGCGTTGCA 61.167 50.000 0.00 0.00 35.60 4.08
2730 2805 1.167155 ACAATACCCGTGCGTTGCAA 61.167 50.000 0.00 0.00 41.47 4.08
2731 2806 0.727793 CAATACCCGTGCGTTGCAAC 60.728 55.000 19.89 19.89 41.47 4.17
2753 2828 9.093970 GCAACGGCATATACATATTCTAATACA 57.906 33.333 0.00 0.00 40.72 2.29
2822 2897 9.787532 ATAAATGTTCATCAAATTCTAACCGTG 57.212 29.630 0.00 0.00 0.00 4.94
2823 2898 7.447374 AATGTTCATCAAATTCTAACCGTGA 57.553 32.000 0.00 0.00 0.00 4.35
2824 2899 6.869315 TGTTCATCAAATTCTAACCGTGAA 57.131 33.333 0.00 0.00 0.00 3.18
2825 2900 6.664515 TGTTCATCAAATTCTAACCGTGAAC 58.335 36.000 7.69 7.69 42.55 3.18
2826 2901 6.485313 TGTTCATCAAATTCTAACCGTGAACT 59.515 34.615 13.79 0.00 42.63 3.01
2827 2902 7.658167 TGTTCATCAAATTCTAACCGTGAACTA 59.342 33.333 13.79 1.59 42.63 2.24
2828 2903 8.500773 GTTCATCAAATTCTAACCGTGAACTAA 58.499 33.333 0.00 0.00 40.38 2.24
2829 2904 8.025243 TCATCAAATTCTAACCGTGAACTAAC 57.975 34.615 0.00 0.00 0.00 2.34
2830 2905 7.876068 TCATCAAATTCTAACCGTGAACTAACT 59.124 33.333 0.00 0.00 0.00 2.24
2831 2906 8.504005 CATCAAATTCTAACCGTGAACTAACTT 58.496 33.333 0.00 0.00 0.00 2.66
2832 2907 9.715121 ATCAAATTCTAACCGTGAACTAACTTA 57.285 29.630 0.00 0.00 0.00 2.24
2833 2908 9.715121 TCAAATTCTAACCGTGAACTAACTTAT 57.285 29.630 0.00 0.00 0.00 1.73
2885 2960 8.870075 ATTAAAGTGAAATTAGCTCAGAAGGT 57.130 30.769 0.00 0.00 37.01 3.50
2886 2961 9.959721 ATTAAAGTGAAATTAGCTCAGAAGGTA 57.040 29.630 0.00 0.00 34.40 3.08
2887 2962 9.787435 TTAAAGTGAAATTAGCTCAGAAGGTAA 57.213 29.630 0.00 0.15 46.41 2.85
2888 2963 7.913674 AAGTGAAATTAGCTCAGAAGGTAAG 57.086 36.000 0.00 0.00 45.78 2.34
2889 2964 7.010339 AGTGAAATTAGCTCAGAAGGTAAGT 57.990 36.000 0.00 0.00 45.78 2.24
2890 2965 8.135382 AGTGAAATTAGCTCAGAAGGTAAGTA 57.865 34.615 0.00 0.00 45.78 2.24
2891 2966 8.594550 AGTGAAATTAGCTCAGAAGGTAAGTAA 58.405 33.333 0.00 0.00 45.78 2.24
2892 2967 9.216117 GTGAAATTAGCTCAGAAGGTAAGTAAA 57.784 33.333 0.00 0.00 45.78 2.01
2893 2968 9.959721 TGAAATTAGCTCAGAAGGTAAGTAAAT 57.040 29.630 0.00 0.00 45.78 1.40
2898 2973 9.886132 TTAGCTCAGAAGGTAAGTAAATTAAGG 57.114 33.333 0.00 0.00 39.82 2.69
2899 2974 7.919151 AGCTCAGAAGGTAAGTAAATTAAGGT 58.081 34.615 0.00 0.00 0.00 3.50
2900 2975 7.824779 AGCTCAGAAGGTAAGTAAATTAAGGTG 59.175 37.037 0.00 0.00 0.00 4.00
2901 2976 7.822822 GCTCAGAAGGTAAGTAAATTAAGGTGA 59.177 37.037 0.00 0.00 0.00 4.02
2902 2977 9.892130 CTCAGAAGGTAAGTAAATTAAGGTGAT 57.108 33.333 0.00 0.00 0.00 3.06
2903 2978 9.886132 TCAGAAGGTAAGTAAATTAAGGTGATC 57.114 33.333 0.00 0.00 0.00 2.92
2904 2979 8.818057 CAGAAGGTAAGTAAATTAAGGTGATCG 58.182 37.037 0.00 0.00 0.00 3.69
2905 2980 8.755977 AGAAGGTAAGTAAATTAAGGTGATCGA 58.244 33.333 0.00 0.00 0.00 3.59
2906 2981 9.543783 GAAGGTAAGTAAATTAAGGTGATCGAT 57.456 33.333 0.00 0.00 0.00 3.59
2907 2982 9.901172 AAGGTAAGTAAATTAAGGTGATCGATT 57.099 29.630 0.00 0.00 0.00 3.34
2932 3007 7.733773 ATCATATATATGGAAGGTTGGACGA 57.266 36.000 20.18 0.00 34.50 4.20
2933 3008 7.547697 TCATATATATGGAAGGTTGGACGAA 57.452 36.000 20.18 0.00 34.50 3.85
2934 3009 7.611770 TCATATATATGGAAGGTTGGACGAAG 58.388 38.462 20.18 0.00 34.50 3.79
2935 3010 3.560636 ATATGGAAGGTTGGACGAAGG 57.439 47.619 0.00 0.00 0.00 3.46
2936 3011 1.358152 ATGGAAGGTTGGACGAAGGA 58.642 50.000 0.00 0.00 0.00 3.36
2937 3012 0.685097 TGGAAGGTTGGACGAAGGAG 59.315 55.000 0.00 0.00 0.00 3.69
2938 3013 0.685660 GGAAGGTTGGACGAAGGAGT 59.314 55.000 0.00 0.00 0.00 3.85
2939 3014 1.608283 GGAAGGTTGGACGAAGGAGTG 60.608 57.143 0.00 0.00 0.00 3.51
2940 3015 0.396811 AAGGTTGGACGAAGGAGTGG 59.603 55.000 0.00 0.00 0.00 4.00
2941 3016 0.763223 AGGTTGGACGAAGGAGTGGT 60.763 55.000 0.00 0.00 0.00 4.16
2942 3017 0.602905 GGTTGGACGAAGGAGTGGTG 60.603 60.000 0.00 0.00 0.00 4.17
2943 3018 0.602905 GTTGGACGAAGGAGTGGTGG 60.603 60.000 0.00 0.00 0.00 4.61
2944 3019 1.764571 TTGGACGAAGGAGTGGTGGG 61.765 60.000 0.00 0.00 0.00 4.61
2945 3020 1.911766 GGACGAAGGAGTGGTGGGA 60.912 63.158 0.00 0.00 0.00 4.37
2946 3021 1.477685 GGACGAAGGAGTGGTGGGAA 61.478 60.000 0.00 0.00 0.00 3.97
2947 3022 0.037232 GACGAAGGAGTGGTGGGAAG 60.037 60.000 0.00 0.00 0.00 3.46
2948 3023 0.471211 ACGAAGGAGTGGTGGGAAGA 60.471 55.000 0.00 0.00 0.00 2.87
2949 3024 0.685097 CGAAGGAGTGGTGGGAAGAA 59.315 55.000 0.00 0.00 0.00 2.52
2950 3025 1.071699 CGAAGGAGTGGTGGGAAGAAA 59.928 52.381 0.00 0.00 0.00 2.52
2951 3026 2.784347 GAAGGAGTGGTGGGAAGAAAG 58.216 52.381 0.00 0.00 0.00 2.62
2952 3027 1.068121 AGGAGTGGTGGGAAGAAAGG 58.932 55.000 0.00 0.00 0.00 3.11
2953 3028 0.609406 GGAGTGGTGGGAAGAAAGGC 60.609 60.000 0.00 0.00 0.00 4.35
2954 3029 0.955919 GAGTGGTGGGAAGAAAGGCG 60.956 60.000 0.00 0.00 0.00 5.52
2955 3030 1.072505 GTGGTGGGAAGAAAGGCGA 59.927 57.895 0.00 0.00 0.00 5.54
2956 3031 0.536460 GTGGTGGGAAGAAAGGCGAA 60.536 55.000 0.00 0.00 0.00 4.70
2957 3032 0.183971 TGGTGGGAAGAAAGGCGAAA 59.816 50.000 0.00 0.00 0.00 3.46
2958 3033 1.203001 TGGTGGGAAGAAAGGCGAAAT 60.203 47.619 0.00 0.00 0.00 2.17
2959 3034 1.202348 GGTGGGAAGAAAGGCGAAATG 59.798 52.381 0.00 0.00 0.00 2.32
2960 3035 2.159382 GTGGGAAGAAAGGCGAAATGA 58.841 47.619 0.00 0.00 0.00 2.57
2961 3036 2.556622 GTGGGAAGAAAGGCGAAATGAA 59.443 45.455 0.00 0.00 0.00 2.57
2962 3037 3.005367 GTGGGAAGAAAGGCGAAATGAAA 59.995 43.478 0.00 0.00 0.00 2.69
2963 3038 3.639094 TGGGAAGAAAGGCGAAATGAAAA 59.361 39.130 0.00 0.00 0.00 2.29
2964 3039 3.987868 GGGAAGAAAGGCGAAATGAAAAC 59.012 43.478 0.00 0.00 0.00 2.43
2965 3040 3.987868 GGAAGAAAGGCGAAATGAAAACC 59.012 43.478 0.00 0.00 0.00 3.27
2966 3041 4.262036 GGAAGAAAGGCGAAATGAAAACCT 60.262 41.667 0.00 0.00 0.00 3.50
2967 3042 4.937201 AGAAAGGCGAAATGAAAACCTT 57.063 36.364 0.00 0.00 42.48 3.50
2968 3043 6.399639 AAGAAAGGCGAAATGAAAACCTTA 57.600 33.333 0.00 0.00 39.80 2.69
2969 3044 5.769367 AGAAAGGCGAAATGAAAACCTTAC 58.231 37.500 0.00 0.00 39.80 2.34
2970 3045 3.824414 AGGCGAAATGAAAACCTTACG 57.176 42.857 0.00 0.00 0.00 3.18
2971 3046 3.143728 AGGCGAAATGAAAACCTTACGT 58.856 40.909 0.00 0.00 0.00 3.57
2972 3047 3.566742 AGGCGAAATGAAAACCTTACGTT 59.433 39.130 0.00 0.00 35.70 3.99
2973 3048 4.037089 AGGCGAAATGAAAACCTTACGTTT 59.963 37.500 0.00 0.00 46.92 3.60
3029 3104 9.206690 AGAGAAGATATATATGTACCCATGTGG 57.793 37.037 0.00 0.00 41.37 4.17
3031 3106 6.161855 AGATATATATGTACCCATGTGGCG 57.838 41.667 0.00 0.00 37.83 5.69
3045 3120 1.070914 TGTGGCGTGTCAAATACTCCA 59.929 47.619 0.00 0.00 0.00 3.86
3072 3147 6.419980 TTTTGAAACAGAGGCAAACATTTG 57.580 33.333 0.00 0.00 41.03 2.32
3087 3162 7.481275 CAAACATTTGCCTTGTTGATTAGTT 57.519 32.000 0.00 0.00 37.38 2.24
3088 3163 8.586570 CAAACATTTGCCTTGTTGATTAGTTA 57.413 30.769 0.00 0.00 37.38 2.24
3089 3164 9.039870 CAAACATTTGCCTTGTTGATTAGTTAA 57.960 29.630 0.00 0.00 37.38 2.01
3090 3165 9.606631 AAACATTTGCCTTGTTGATTAGTTAAA 57.393 25.926 0.00 0.00 37.38 1.52
3091 3166 9.606631 AACATTTGCCTTGTTGATTAGTTAAAA 57.393 25.926 0.00 0.00 36.02 1.52
3092 3167 9.606631 ACATTTGCCTTGTTGATTAGTTAAAAA 57.393 25.926 0.00 0.00 0.00 1.94
3095 3170 9.877178 TTTGCCTTGTTGATTAGTTAAAAAGAA 57.123 25.926 0.00 0.00 0.00 2.52
3096 3171 9.528018 TTGCCTTGTTGATTAGTTAAAAAGAAG 57.472 29.630 0.00 0.00 0.00 2.85
3097 3172 8.908903 TGCCTTGTTGATTAGTTAAAAAGAAGA 58.091 29.630 0.00 0.00 0.00 2.87
3098 3173 9.399403 GCCTTGTTGATTAGTTAAAAAGAAGAG 57.601 33.333 0.00 0.00 0.00 2.85
3184 3259 5.184892 ACTACTCCCAAAGCATGAATCTT 57.815 39.130 0.00 0.00 0.00 2.40
3206 3281 4.995058 ACCACCCCACGTCCCCAT 62.995 66.667 0.00 0.00 0.00 4.00
3232 3307 0.107831 AGCAAACGCCTACAACCTCA 59.892 50.000 0.00 0.00 0.00 3.86
3241 3316 0.911769 CTACAACCTCAGGCCCATGA 59.088 55.000 0.00 0.00 0.00 3.07
3253 3328 2.431782 AGGCCCATGAATTACAACATGC 59.568 45.455 0.00 0.00 41.43 4.06
3262 3337 8.389603 CCATGAATTACAACATGCCAAAATAAC 58.610 33.333 0.00 0.00 41.43 1.89
3307 3382 2.972625 ACATCACATACGACAACCCAG 58.027 47.619 0.00 0.00 0.00 4.45
3314 3389 4.513692 CACATACGACAACCCAGAAAGAAA 59.486 41.667 0.00 0.00 0.00 2.52
3333 3408 6.409524 AGAAAAGAACAATCCATCAAGCAA 57.590 33.333 0.00 0.00 0.00 3.91
3339 3414 4.713824 ACAATCCATCAAGCAATCACAG 57.286 40.909 0.00 0.00 0.00 3.66
3342 3417 3.421919 TCCATCAAGCAATCACAGACA 57.578 42.857 0.00 0.00 0.00 3.41
3343 3418 3.076621 TCCATCAAGCAATCACAGACAC 58.923 45.455 0.00 0.00 0.00 3.67
3347 3422 4.350368 TCAAGCAATCACAGACACCTTA 57.650 40.909 0.00 0.00 0.00 2.69
3350 3425 2.084546 GCAATCACAGACACCTTACCC 58.915 52.381 0.00 0.00 0.00 3.69
3351 3426 2.552155 GCAATCACAGACACCTTACCCA 60.552 50.000 0.00 0.00 0.00 4.51
3352 3427 3.873801 GCAATCACAGACACCTTACCCAT 60.874 47.826 0.00 0.00 0.00 4.00
3353 3428 3.634397 ATCACAGACACCTTACCCATG 57.366 47.619 0.00 0.00 0.00 3.66
3354 3429 1.628340 TCACAGACACCTTACCCATGG 59.372 52.381 4.14 4.14 0.00 3.66
3355 3430 0.328258 ACAGACACCTTACCCATGGC 59.672 55.000 6.09 0.00 0.00 4.40
3356 3431 0.744414 CAGACACCTTACCCATGGCG 60.744 60.000 6.09 2.02 0.00 5.69
3357 3432 1.198759 AGACACCTTACCCATGGCGT 61.199 55.000 6.09 8.69 0.00 5.68
3389 3464 4.298744 GCTTTTGCTCAAGAGTGACTTT 57.701 40.909 0.00 0.00 43.35 2.66
3417 3492 8.531146 GGGGAAGTTTAAATTTTGATGAGATCA 58.469 33.333 0.00 0.00 37.55 2.92
3439 3514 6.071984 TCATTTTGTTACCAAAGGCTAAGGA 58.928 36.000 11.66 0.00 41.37 3.36
3443 3518 3.396611 TGTTACCAAAGGCTAAGGAGGTT 59.603 43.478 11.66 0.00 0.00 3.50
3444 3519 2.586648 ACCAAAGGCTAAGGAGGTTG 57.413 50.000 11.66 0.00 0.00 3.77
3447 3522 3.591977 ACCAAAGGCTAAGGAGGTTGTAT 59.408 43.478 11.66 0.00 0.00 2.29
3489 3564 7.143340 TGTGGATCTATGTACGTAATGTAAGC 58.857 38.462 0.00 0.00 34.07 3.09
3495 3570 9.982651 ATCTATGTACGTAATGTAAGCTTCAAT 57.017 29.630 0.00 0.00 34.07 2.57
3540 3615 1.875963 CTCAATGCGGTGGTTGACC 59.124 57.895 0.00 0.00 42.07 4.02
3549 3624 4.377370 TGGTTGACCATGTGCTCG 57.623 55.556 0.00 0.00 42.01 5.03
3550 3625 1.965930 TGGTTGACCATGTGCTCGC 60.966 57.895 0.00 0.00 42.01 5.03
3551 3626 1.965930 GGTTGACCATGTGCTCGCA 60.966 57.895 0.00 0.00 35.64 5.10
3552 3627 1.514678 GGTTGACCATGTGCTCGCAA 61.515 55.000 0.00 0.00 35.64 4.85
3553 3628 0.523072 GTTGACCATGTGCTCGCAAT 59.477 50.000 0.00 0.00 0.00 3.56
3554 3629 0.522626 TTGACCATGTGCTCGCAATG 59.477 50.000 0.00 0.78 0.00 2.82
3555 3630 0.321475 TGACCATGTGCTCGCAATGA 60.321 50.000 12.44 0.00 0.00 2.57
3556 3631 1.019673 GACCATGTGCTCGCAATGAT 58.980 50.000 12.44 0.27 0.00 2.45
3557 3632 2.212652 GACCATGTGCTCGCAATGATA 58.787 47.619 12.44 0.00 0.00 2.15
3558 3633 2.216046 ACCATGTGCTCGCAATGATAG 58.784 47.619 12.44 0.00 0.00 2.08
3559 3634 2.216046 CCATGTGCTCGCAATGATAGT 58.784 47.619 12.44 0.00 0.00 2.12
3560 3635 2.615447 CCATGTGCTCGCAATGATAGTT 59.385 45.455 12.44 0.00 0.00 2.24
3561 3636 3.809279 CCATGTGCTCGCAATGATAGTTA 59.191 43.478 12.44 0.00 0.00 2.24
3562 3637 4.453478 CCATGTGCTCGCAATGATAGTTAT 59.547 41.667 12.44 0.00 0.00 1.89
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
53 58 5.001232 GTCACCAATAATACACACTGTGGT 58.999 41.667 13.77 9.59 37.94 4.16
82 87 5.536161 ACAAAAGGTTCATAATGCAGTCAGT 59.464 36.000 0.00 0.00 0.00 3.41
204 210 8.110860 ACTATGAGTGGACAAAAATGTTTAGG 57.889 34.615 0.00 0.00 0.00 2.69
251 260 0.815734 GCTCCGGTAGTTCTGCAGTA 59.184 55.000 14.67 0.00 0.00 2.74
371 395 2.418368 TGGGAAATGAATCGGTCCTG 57.582 50.000 0.00 0.00 0.00 3.86
607 631 8.522830 CCAACAACATGATAACTAAGTGGAAAT 58.477 33.333 0.00 0.00 0.00 2.17
652 676 8.586570 AAATAAGCGTCAATTTTCATTGTTCA 57.413 26.923 0.00 0.00 40.78 3.18
705 729 6.015603 TCACAGCAACAAAAATACATCCATGA 60.016 34.615 0.00 0.00 0.00 3.07
717 747 3.088532 AGTTCCACTCACAGCAACAAAA 58.911 40.909 0.00 0.00 0.00 2.44
731 761 6.273071 ACTCACAAAATAGCAAAAGTTCCAC 58.727 36.000 0.00 0.00 0.00 4.02
756 794 9.740239 GTTGCATATTCTTCATGTTGTAATCAT 57.260 29.630 0.00 0.00 0.00 2.45
798 866 3.644606 CTGGGCAGGCTCCAGTGT 61.645 66.667 12.89 0.00 44.97 3.55
868 936 2.108250 ACTTGTGGCCTATCTTGTGGTT 59.892 45.455 3.32 0.00 0.00 3.67
870 938 2.086869 CACTTGTGGCCTATCTTGTGG 58.913 52.381 3.32 0.00 0.00 4.17
900 969 0.836606 TGCCATGGCTTCGGATAAGA 59.163 50.000 35.53 10.21 42.51 2.10
948 1017 3.041940 GGCGGTGAACGTGGTGAG 61.042 66.667 0.00 0.00 46.52 3.51
956 1025 0.591659 GGTTCTTTCTGGCGGTGAAC 59.408 55.000 15.62 15.62 37.04 3.18
1056 1131 2.451294 ATGGATGGGGAGGAGGGC 60.451 66.667 0.00 0.00 0.00 5.19
1554 1629 3.306595 CTGCCTGAAGAGCGCCAGA 62.307 63.158 12.27 0.00 32.37 3.86
1567 1642 1.040646 TCGAACTCTTGACACTGCCT 58.959 50.000 0.00 0.00 0.00 4.75
1575 1650 1.847818 CCACAACGTCGAACTCTTGA 58.152 50.000 0.00 0.00 0.00 3.02
1578 1653 1.660575 CGCCACAACGTCGAACTCT 60.661 57.895 0.00 0.00 0.00 3.24
1580 1655 2.105528 ACGCCACAACGTCGAACT 59.894 55.556 0.00 0.00 44.43 3.01
1608 1683 2.543802 CCTCGAGAGCGCCACGATA 61.544 63.158 15.71 1.82 37.46 2.92
1730 1805 4.047059 GGTCGACGGCGTCTTGGA 62.047 66.667 33.90 22.59 38.98 3.53
1938 2013 0.392998 CCTGGCGAGCCTTGTGTATT 60.393 55.000 15.75 0.00 36.94 1.89
1969 2044 2.107750 CATGCCCTGCGATCTCGT 59.892 61.111 1.14 0.00 42.22 4.18
2046 2121 0.250338 AGAACAAGGTGACCGCTTCC 60.250 55.000 0.00 0.00 0.00 3.46
2053 2128 0.318762 AGCTCGGAGAACAAGGTGAC 59.681 55.000 9.69 0.00 34.09 3.67
2056 2131 0.832135 TCCAGCTCGGAGAACAAGGT 60.832 55.000 9.69 0.00 39.64 3.50
2146 2221 2.362632 AGCCTTCGCCTCGTAGGT 60.363 61.111 12.25 0.00 44.32 3.08
2149 2224 1.248785 AACAGAGCCTTCGCCTCGTA 61.249 55.000 0.00 0.00 34.57 3.43
2280 2355 2.345880 CTGGCTTCATCGGCATTGCC 62.346 60.000 18.10 18.10 46.75 4.52
2376 2451 3.700970 TCGCATTCCACGGCTCCA 61.701 61.111 0.00 0.00 0.00 3.86
2427 2502 0.730155 CGTCGCATGCAAGCACATTT 60.730 50.000 19.57 0.00 0.00 2.32
2429 2504 2.481919 CGTCGCATGCAAGCACAT 59.518 55.556 19.57 0.00 0.00 3.21
2479 2554 2.123251 TCCCTCCTCCCGCATCTC 60.123 66.667 0.00 0.00 0.00 2.75
2554 2629 4.021104 TGCTGAACACTTGTACTAGCTCAT 60.021 41.667 4.10 0.00 32.90 2.90
2597 2672 9.938280 ACAAGTCTGTATTTTACTGTTGCTATA 57.062 29.630 0.00 0.00 32.54 1.31
2598 2673 8.848474 ACAAGTCTGTATTTTACTGTTGCTAT 57.152 30.769 0.00 0.00 32.54 2.97
2599 2674 8.671384 AACAAGTCTGTATTTTACTGTTGCTA 57.329 30.769 0.00 0.00 33.45 3.49
2600 2675 7.568199 AACAAGTCTGTATTTTACTGTTGCT 57.432 32.000 0.00 0.00 33.45 3.91
2651 2726 5.509501 GCCCAAACATGAGAAAAATCTGTCA 60.510 40.000 0.00 0.00 0.00 3.58
2706 2781 2.288961 ACGCACGGGTATTGTTCTAG 57.711 50.000 0.00 0.00 0.00 2.43
2707 2782 2.339418 CAACGCACGGGTATTGTTCTA 58.661 47.619 0.00 0.00 0.00 2.10
2708 2783 1.153353 CAACGCACGGGTATTGTTCT 58.847 50.000 0.00 0.00 0.00 3.01
2709 2784 0.453782 GCAACGCACGGGTATTGTTC 60.454 55.000 5.17 0.00 0.00 3.18
2710 2785 1.167155 TGCAACGCACGGGTATTGTT 61.167 50.000 5.17 0.00 31.71 2.83
2711 2786 1.167155 TTGCAACGCACGGGTATTGT 61.167 50.000 0.00 0.00 38.71 2.71
2712 2787 0.727793 GTTGCAACGCACGGGTATTG 60.728 55.000 14.90 0.00 38.71 1.90
2713 2788 1.577421 GTTGCAACGCACGGGTATT 59.423 52.632 14.90 0.00 38.71 1.89
2714 2789 2.673114 CGTTGCAACGCACGGGTAT 61.673 57.895 35.89 0.00 46.06 2.73
2715 2790 3.339464 CGTTGCAACGCACGGGTA 61.339 61.111 35.89 0.00 46.06 3.69
2727 2802 9.093970 TGTATTAGAATATGTATATGCCGTTGC 57.906 33.333 0.00 0.00 38.26 4.17
2796 2871 9.787532 CACGGTTAGAATTTGATGAACATTTAT 57.212 29.630 0.00 0.00 0.00 1.40
2797 2872 9.004717 TCACGGTTAGAATTTGATGAACATTTA 57.995 29.630 0.00 0.00 0.00 1.40
2798 2873 7.881142 TCACGGTTAGAATTTGATGAACATTT 58.119 30.769 0.00 0.00 0.00 2.32
2799 2874 7.447374 TCACGGTTAGAATTTGATGAACATT 57.553 32.000 0.00 0.00 0.00 2.71
2800 2875 7.174946 AGTTCACGGTTAGAATTTGATGAACAT 59.825 33.333 14.22 0.00 44.47 2.71
2801 2876 6.485313 AGTTCACGGTTAGAATTTGATGAACA 59.515 34.615 14.22 0.00 44.47 3.18
2802 2877 6.899114 AGTTCACGGTTAGAATTTGATGAAC 58.101 36.000 5.81 5.81 43.11 3.18
2803 2878 8.500773 GTTAGTTCACGGTTAGAATTTGATGAA 58.499 33.333 0.00 0.00 0.00 2.57
2804 2879 7.876068 AGTTAGTTCACGGTTAGAATTTGATGA 59.124 33.333 0.00 0.00 0.00 2.92
2805 2880 8.029642 AGTTAGTTCACGGTTAGAATTTGATG 57.970 34.615 0.00 0.00 0.00 3.07
2806 2881 8.617290 AAGTTAGTTCACGGTTAGAATTTGAT 57.383 30.769 0.00 0.00 0.00 2.57
2807 2882 9.715121 ATAAGTTAGTTCACGGTTAGAATTTGA 57.285 29.630 0.00 0.00 0.00 2.69
2859 2934 9.301897 ACCTTCTGAGCTAATTTCACTTTAATT 57.698 29.630 0.00 0.00 0.00 1.40
2860 2935 8.870075 ACCTTCTGAGCTAATTTCACTTTAAT 57.130 30.769 0.00 0.00 0.00 1.40
2861 2936 9.787435 TTACCTTCTGAGCTAATTTCACTTTAA 57.213 29.630 0.00 0.00 0.00 1.52
2862 2937 9.436957 CTTACCTTCTGAGCTAATTTCACTTTA 57.563 33.333 0.00 0.00 0.00 1.85
2863 2938 7.939588 ACTTACCTTCTGAGCTAATTTCACTTT 59.060 33.333 0.00 0.00 0.00 2.66
2864 2939 7.454225 ACTTACCTTCTGAGCTAATTTCACTT 58.546 34.615 0.00 0.00 0.00 3.16
2865 2940 7.010339 ACTTACCTTCTGAGCTAATTTCACT 57.990 36.000 0.00 0.00 0.00 3.41
2866 2941 8.773404 TTACTTACCTTCTGAGCTAATTTCAC 57.227 34.615 0.00 0.00 0.00 3.18
2867 2942 9.959721 ATTTACTTACCTTCTGAGCTAATTTCA 57.040 29.630 0.00 0.00 0.00 2.69
2872 2947 9.886132 CCTTAATTTACTTACCTTCTGAGCTAA 57.114 33.333 0.00 0.00 0.00 3.09
2873 2948 9.043548 ACCTTAATTTACTTACCTTCTGAGCTA 57.956 33.333 0.00 0.00 0.00 3.32
2874 2949 7.824779 CACCTTAATTTACTTACCTTCTGAGCT 59.175 37.037 0.00 0.00 0.00 4.09
2875 2950 7.822822 TCACCTTAATTTACTTACCTTCTGAGC 59.177 37.037 0.00 0.00 0.00 4.26
2876 2951 9.892130 ATCACCTTAATTTACTTACCTTCTGAG 57.108 33.333 0.00 0.00 0.00 3.35
2877 2952 9.886132 GATCACCTTAATTTACTTACCTTCTGA 57.114 33.333 0.00 0.00 0.00 3.27
2878 2953 8.818057 CGATCACCTTAATTTACTTACCTTCTG 58.182 37.037 0.00 0.00 0.00 3.02
2879 2954 8.755977 TCGATCACCTTAATTTACTTACCTTCT 58.244 33.333 0.00 0.00 0.00 2.85
2880 2955 8.937634 TCGATCACCTTAATTTACTTACCTTC 57.062 34.615 0.00 0.00 0.00 3.46
2881 2956 9.901172 AATCGATCACCTTAATTTACTTACCTT 57.099 29.630 0.00 0.00 0.00 3.50
2906 2981 9.262240 TCGTCCAACCTTCCATATATATGATAA 57.738 33.333 21.97 14.59 35.75 1.75
2907 2982 8.832458 TCGTCCAACCTTCCATATATATGATA 57.168 34.615 21.97 8.59 35.75 2.15
2908 2983 7.733773 TCGTCCAACCTTCCATATATATGAT 57.266 36.000 21.97 1.91 35.75 2.45
2909 2984 7.310423 CCTTCGTCCAACCTTCCATATATATGA 60.310 40.741 21.97 7.38 35.75 2.15
2910 2985 6.818644 CCTTCGTCCAACCTTCCATATATATG 59.181 42.308 14.78 14.78 0.00 1.78
2911 2986 6.729100 TCCTTCGTCCAACCTTCCATATATAT 59.271 38.462 0.00 0.00 0.00 0.86
2912 2987 6.079336 TCCTTCGTCCAACCTTCCATATATA 58.921 40.000 0.00 0.00 0.00 0.86
2913 2988 4.905456 TCCTTCGTCCAACCTTCCATATAT 59.095 41.667 0.00 0.00 0.00 0.86
2914 2989 4.291792 TCCTTCGTCCAACCTTCCATATA 58.708 43.478 0.00 0.00 0.00 0.86
2915 2990 3.112263 TCCTTCGTCCAACCTTCCATAT 58.888 45.455 0.00 0.00 0.00 1.78
2916 2991 2.500098 CTCCTTCGTCCAACCTTCCATA 59.500 50.000 0.00 0.00 0.00 2.74
2917 2992 1.279271 CTCCTTCGTCCAACCTTCCAT 59.721 52.381 0.00 0.00 0.00 3.41
2918 2993 0.685097 CTCCTTCGTCCAACCTTCCA 59.315 55.000 0.00 0.00 0.00 3.53
2919 2994 0.685660 ACTCCTTCGTCCAACCTTCC 59.314 55.000 0.00 0.00 0.00 3.46
2920 2995 1.608283 CCACTCCTTCGTCCAACCTTC 60.608 57.143 0.00 0.00 0.00 3.46
2921 2996 0.396811 CCACTCCTTCGTCCAACCTT 59.603 55.000 0.00 0.00 0.00 3.50
2922 2997 0.763223 ACCACTCCTTCGTCCAACCT 60.763 55.000 0.00 0.00 0.00 3.50
2923 2998 0.602905 CACCACTCCTTCGTCCAACC 60.603 60.000 0.00 0.00 0.00 3.77
2924 2999 0.602905 CCACCACTCCTTCGTCCAAC 60.603 60.000 0.00 0.00 0.00 3.77
2925 3000 1.752198 CCACCACTCCTTCGTCCAA 59.248 57.895 0.00 0.00 0.00 3.53
2926 3001 2.214216 CCCACCACTCCTTCGTCCA 61.214 63.158 0.00 0.00 0.00 4.02
2927 3002 1.477685 TTCCCACCACTCCTTCGTCC 61.478 60.000 0.00 0.00 0.00 4.79
2928 3003 0.037232 CTTCCCACCACTCCTTCGTC 60.037 60.000 0.00 0.00 0.00 4.20
2929 3004 0.471211 TCTTCCCACCACTCCTTCGT 60.471 55.000 0.00 0.00 0.00 3.85
2930 3005 0.685097 TTCTTCCCACCACTCCTTCG 59.315 55.000 0.00 0.00 0.00 3.79
2931 3006 2.553247 CCTTTCTTCCCACCACTCCTTC 60.553 54.545 0.00 0.00 0.00 3.46
2932 3007 1.425448 CCTTTCTTCCCACCACTCCTT 59.575 52.381 0.00 0.00 0.00 3.36
2933 3008 1.068121 CCTTTCTTCCCACCACTCCT 58.932 55.000 0.00 0.00 0.00 3.69
2934 3009 0.609406 GCCTTTCTTCCCACCACTCC 60.609 60.000 0.00 0.00 0.00 3.85
2935 3010 0.955919 CGCCTTTCTTCCCACCACTC 60.956 60.000 0.00 0.00 0.00 3.51
2936 3011 1.073199 CGCCTTTCTTCCCACCACT 59.927 57.895 0.00 0.00 0.00 4.00
2937 3012 0.536460 TTCGCCTTTCTTCCCACCAC 60.536 55.000 0.00 0.00 0.00 4.16
2938 3013 0.183971 TTTCGCCTTTCTTCCCACCA 59.816 50.000 0.00 0.00 0.00 4.17
2939 3014 1.202348 CATTTCGCCTTTCTTCCCACC 59.798 52.381 0.00 0.00 0.00 4.61
2940 3015 2.159382 TCATTTCGCCTTTCTTCCCAC 58.841 47.619 0.00 0.00 0.00 4.61
2941 3016 2.577606 TCATTTCGCCTTTCTTCCCA 57.422 45.000 0.00 0.00 0.00 4.37
2942 3017 3.934457 TTTCATTTCGCCTTTCTTCCC 57.066 42.857 0.00 0.00 0.00 3.97
2943 3018 3.987868 GGTTTTCATTTCGCCTTTCTTCC 59.012 43.478 0.00 0.00 0.00 3.46
2944 3019 4.871513 AGGTTTTCATTTCGCCTTTCTTC 58.128 39.130 0.00 0.00 0.00 2.87
2945 3020 4.937201 AGGTTTTCATTTCGCCTTTCTT 57.063 36.364 0.00 0.00 0.00 2.52
2946 3021 4.937201 AAGGTTTTCATTTCGCCTTTCT 57.063 36.364 0.00 0.00 36.24 2.52
2947 3022 4.615541 CGTAAGGTTTTCATTTCGCCTTTC 59.384 41.667 0.00 0.00 39.84 2.62
2948 3023 4.037089 ACGTAAGGTTTTCATTTCGCCTTT 59.963 37.500 0.00 0.00 46.39 3.11
2949 3024 3.566742 ACGTAAGGTTTTCATTTCGCCTT 59.433 39.130 0.00 0.00 46.39 4.35
2950 3025 3.143728 ACGTAAGGTTTTCATTTCGCCT 58.856 40.909 0.00 0.00 46.39 5.52
2951 3026 3.547649 ACGTAAGGTTTTCATTTCGCC 57.452 42.857 0.00 0.00 46.39 5.54
3003 3078 9.206690 CCACATGGGTACATATATATCTTCTCT 57.793 37.037 0.00 0.00 34.99 3.10
3004 3079 7.928706 GCCACATGGGTACATATATATCTTCTC 59.071 40.741 0.00 0.00 39.65 2.87
3005 3080 7.417911 CGCCACATGGGTACATATATATCTTCT 60.418 40.741 0.00 0.00 39.65 2.85
3006 3081 6.701841 CGCCACATGGGTACATATATATCTTC 59.298 42.308 0.00 0.00 39.65 2.87
3007 3082 6.156256 ACGCCACATGGGTACATATATATCTT 59.844 38.462 0.00 0.00 38.56 2.40
3008 3083 5.661312 ACGCCACATGGGTACATATATATCT 59.339 40.000 0.00 0.00 38.56 1.98
3009 3084 5.753438 CACGCCACATGGGTACATATATATC 59.247 44.000 0.00 0.00 38.21 1.63
3010 3085 5.188948 ACACGCCACATGGGTACATATATAT 59.811 40.000 0.00 0.00 38.21 0.86
3029 3104 4.483476 AAAACTGGAGTATTTGACACGC 57.517 40.909 0.00 0.00 0.00 5.34
3064 3139 9.606631 TTTAACTAATCAACAAGGCAAATGTTT 57.393 25.926 1.29 0.00 38.90 2.83
3066 3141 9.606631 TTTTTAACTAATCAACAAGGCAAATGT 57.393 25.926 0.00 0.00 0.00 2.71
3069 3144 9.877178 TTCTTTTTAACTAATCAACAAGGCAAA 57.123 25.926 0.00 0.00 0.00 3.68
3072 3147 9.399403 CTCTTCTTTTTAACTAATCAACAAGGC 57.601 33.333 0.00 0.00 0.00 4.35
3140 3215 4.355543 CCACATGTGGCTATGTTGTAAC 57.644 45.455 31.13 0.00 44.73 2.50
3184 3259 2.589157 GGACGTGGGGTGGTGATGA 61.589 63.158 0.00 0.00 0.00 2.92
3206 3281 0.388134 GTAGGCGTTTGCTCGTCTCA 60.388 55.000 6.87 0.00 44.66 3.27
3232 3307 2.431782 GCATGTTGTAATTCATGGGCCT 59.568 45.455 4.53 0.00 40.91 5.19
3241 3316 6.652900 GGTGGTTATTTTGGCATGTTGTAATT 59.347 34.615 0.00 0.00 0.00 1.40
3253 3328 6.051717 TGTGTTTTGATGGTGGTTATTTTGG 58.948 36.000 0.00 0.00 0.00 3.28
3262 3337 4.319139 TGTTGATGTGTTTTGATGGTGG 57.681 40.909 0.00 0.00 0.00 4.61
3307 3382 6.925165 TGCTTGATGGATTGTTCTTTTCTTTC 59.075 34.615 0.00 0.00 0.00 2.62
3314 3389 5.244402 TGTGATTGCTTGATGGATTGTTCTT 59.756 36.000 0.00 0.00 0.00 2.52
3333 3408 2.239654 CCATGGGTAAGGTGTCTGTGAT 59.760 50.000 2.85 0.00 0.00 3.06
3339 3414 1.298667 ACGCCATGGGTAAGGTGTC 59.701 57.895 15.13 0.00 44.90 3.67
3342 3417 1.198759 AGTGACGCCATGGGTAAGGT 61.199 55.000 15.13 0.00 0.00 3.50
3343 3418 0.462047 GAGTGACGCCATGGGTAAGG 60.462 60.000 15.13 0.00 0.00 2.69
3347 3422 1.194781 AGAAGAGTGACGCCATGGGT 61.195 55.000 15.13 9.85 0.00 4.51
3350 3425 0.445436 GCAAGAAGAGTGACGCCATG 59.555 55.000 0.00 0.00 0.00 3.66
3351 3426 0.322975 AGCAAGAAGAGTGACGCCAT 59.677 50.000 0.00 0.00 0.00 4.40
3352 3427 0.106708 AAGCAAGAAGAGTGACGCCA 59.893 50.000 0.00 0.00 0.00 5.69
3353 3428 1.230324 AAAGCAAGAAGAGTGACGCC 58.770 50.000 0.00 0.00 0.00 5.68
3354 3429 2.644078 CAAAAGCAAGAAGAGTGACGC 58.356 47.619 0.00 0.00 0.00 5.19
3355 3430 2.289002 AGCAAAAGCAAGAAGAGTGACG 59.711 45.455 0.00 0.00 0.00 4.35
3356 3431 3.313526 TGAGCAAAAGCAAGAAGAGTGAC 59.686 43.478 0.00 0.00 0.00 3.67
3357 3432 3.544684 TGAGCAAAAGCAAGAAGAGTGA 58.455 40.909 0.00 0.00 0.00 3.41
3389 3464 8.256356 TCTCATCAAAATTTAAACTTCCCCAA 57.744 30.769 0.00 0.00 0.00 4.12
3439 3514 3.586470 TTTGGTGGACACATACAACCT 57.414 42.857 4.69 0.00 0.00 3.50
3444 3519 5.879237 CACATGTATTTGGTGGACACATAC 58.121 41.667 0.00 4.94 41.15 2.39
3475 3550 9.601971 TGAAAAATTGAAGCTTACATTACGTAC 57.398 29.630 0.00 0.00 0.00 3.67
3511 3586 3.002656 CACCGCATTGAGCCTATTTGTAG 59.997 47.826 0.00 0.00 41.38 2.74
3540 3615 3.957671 AACTATCATTGCGAGCACATG 57.042 42.857 0.00 5.71 0.00 3.21


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

AutoCloner maintained by Alex Coulton.