Multiple sequence alignment - TraesCS5A01G224600

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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 TraesCS5A01G224600 chr5A 100.000 3175 0 0 1 3175 439808559 439811733 0 5864
1 TraesCS5A01G224600 chr5A 98.047 1587 21 3 1212 2796 22978690 22977112 0 2750
2 TraesCS5A01G224600 chr5A 96.304 974 25 5 1 972 390557179 390558143 0 1589
3 TraesCS5A01G224600 chr3A 97.231 2817 62 7 1 2809 583077388 583080196 0 4756
4 TraesCS5A01G224600 chr3A 97.382 382 8 2 2796 3175 405921224 405920843 0 649
5 TraesCS5A01G224600 chr6A 97.814 2699 43 6 1 2691 9184750 9187440 0 4643
6 TraesCS5A01G224600 chr4B 94.821 2800 122 9 1 2795 215062191 215059410 0 4346
7 TraesCS5A01G224600 chr4B 93.645 2801 128 17 1 2795 215014172 215011416 0 4141
8 TraesCS5A01G224600 chr6B 97.695 2169 37 4 635 2798 532352178 532354338 0 3716
9 TraesCS5A01G224600 chr6B 97.249 727 11 2 1 725 532351596 532352315 0 1223
10 TraesCS5A01G224600 chr7A 97.694 2168 37 4 635 2797 31808966 31811125 0 3714
11 TraesCS5A01G224600 chr7A 97.111 727 12 2 1 725 31808384 31809103 0 1218
12 TraesCS5A01G224600 chr2A 95.943 2169 65 11 635 2798 180213945 180211795 0 3496
13 TraesCS5A01G224600 chr2A 97.472 791 10 3 1 789 180214527 180213745 0 1341
14 TraesCS5A01G224600 chr2A 99.239 394 2 1 2404 2796 758963835 758964228 0 710
15 TraesCS5A01G224600 chr1B 98.045 1586 21 3 1212 2795 150371923 150370346 0 2748
16 TraesCS5A01G224600 chr1B 97.531 405 10 0 1002 1406 235843890 235844294 0 693
17 TraesCS5A01G224600 chr2B 94.000 900 42 4 105 999 124292954 124293846 0 1352
18 TraesCS5A01G224600 chr6D 97.906 382 6 2 2796 3175 270520171 270520552 0 660
19 TraesCS5A01G224600 chr4D 97.644 382 7 2 2796 3175 323172161 323172542 0 654
20 TraesCS5A01G224600 chr3D 97.644 382 7 2 2796 3175 461143843 461143462 0 654
21 TraesCS5A01G224600 chr3D 97.638 381 8 1 2796 3175 269860949 269860569 0 652
22 TraesCS5A01G224600 chr3D 97.382 382 8 2 2796 3175 394134133 394134514 0 649
23 TraesCS5A01G224600 chr4A 97.638 381 8 1 2796 3175 96979946 96980326 0 652
24 TraesCS5A01G224600 chr7D 97.382 382 8 2 2796 3175 252349726 252349345 0 649
25 TraesCS5A01G224600 chr7D 97.389 383 7 2 2796 3175 426144464 426144082 0 649


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 TraesCS5A01G224600 chr5A 439808559 439811733 3174 False 5864.0 5864 100.0000 1 3175 1 chr5A.!!$F2 3174
1 TraesCS5A01G224600 chr5A 22977112 22978690 1578 True 2750.0 2750 98.0470 1212 2796 1 chr5A.!!$R1 1584
2 TraesCS5A01G224600 chr5A 390557179 390558143 964 False 1589.0 1589 96.3040 1 972 1 chr5A.!!$F1 971
3 TraesCS5A01G224600 chr3A 583077388 583080196 2808 False 4756.0 4756 97.2310 1 2809 1 chr3A.!!$F1 2808
4 TraesCS5A01G224600 chr6A 9184750 9187440 2690 False 4643.0 4643 97.8140 1 2691 1 chr6A.!!$F1 2690
5 TraesCS5A01G224600 chr4B 215059410 215062191 2781 True 4346.0 4346 94.8210 1 2795 1 chr4B.!!$R2 2794
6 TraesCS5A01G224600 chr4B 215011416 215014172 2756 True 4141.0 4141 93.6450 1 2795 1 chr4B.!!$R1 2794
7 TraesCS5A01G224600 chr6B 532351596 532354338 2742 False 2469.5 3716 97.4720 1 2798 2 chr6B.!!$F1 2797
8 TraesCS5A01G224600 chr7A 31808384 31811125 2741 False 2466.0 3714 97.4025 1 2797 2 chr7A.!!$F1 2796
9 TraesCS5A01G224600 chr2A 180211795 180214527 2732 True 2418.5 3496 96.7075 1 2798 2 chr2A.!!$R1 2797
10 TraesCS5A01G224600 chr1B 150370346 150371923 1577 True 2748.0 2748 98.0450 1212 2795 1 chr1B.!!$R1 1583
11 TraesCS5A01G224600 chr2B 124292954 124293846 892 False 1352.0 1352 94.0000 105 999 1 chr2B.!!$F1 894

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
989 1042 3.832527 ACTAGTTTGCAATGGTGACCTT 58.167 40.909 2.11 0.0 0.0 3.5 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2882 2955 0.039074 GGGATGCTGATACGTCTCCG 60.039 60.0 0.0 0.0 40.83 4.63 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
423 426 6.060136 CAGATGATTATGTTGTGGATGAGGT 58.940 40.000 0.00 0.00 0.00 3.85
631 681 6.653320 GGAACATTTGAAGGATGTACTGTACA 59.347 38.462 21.68 21.68 43.80 2.90
632 682 7.360946 GGAACATTTGAAGGATGTACTGTACAC 60.361 40.741 21.84 15.07 42.23 2.90
633 683 6.769512 ACATTTGAAGGATGTACTGTACACT 58.230 36.000 21.84 13.05 42.23 3.55
634 684 6.650807 ACATTTGAAGGATGTACTGTACACTG 59.349 38.462 21.84 10.73 42.23 3.66
635 685 5.801531 TTGAAGGATGTACTGTACACTGT 57.198 39.130 21.84 7.49 42.23 3.55
636 686 6.904463 TTGAAGGATGTACTGTACACTGTA 57.096 37.500 21.84 6.81 42.23 2.74
637 687 6.263516 TGAAGGATGTACTGTACACTGTAC 57.736 41.667 21.84 17.70 45.57 2.90
679 729 5.888161 GTGAGGGAACATTTGAAGGATGTAT 59.112 40.000 0.00 0.00 36.76 2.29
978 1028 9.555727 ACTCACTTTCTTAATAACTAGTTTGCA 57.444 29.630 14.49 0.00 0.00 4.08
989 1042 3.832527 ACTAGTTTGCAATGGTGACCTT 58.167 40.909 2.11 0.00 0.00 3.50
1011 1064 1.281867 CTGTAGGTCATGGGGAAGCAA 59.718 52.381 0.00 0.00 0.00 3.91
1115 1168 5.163353 TGCTTGAATGGTATATCGACCTTCA 60.163 40.000 0.00 0.00 40.46 3.02
1158 1211 5.913137 TCAAGTTCAAGAAACAACACCAT 57.087 34.783 0.00 0.00 40.56 3.55
1242 1295 3.989705 CGACACTATCGTCAATGCAAA 57.010 42.857 0.00 0.00 46.25 3.68
1262 1315 4.284550 GAAGTGGGGCTGGGTGCA 62.285 66.667 0.00 0.00 45.15 4.57
1456 1511 8.043113 TGTATGCTTCATATTCACTGTCTCTTT 58.957 33.333 0.00 0.00 0.00 2.52
1621 1677 7.015098 AGAGTTATTCTCGGATCAATCTCATGT 59.985 37.037 0.00 0.00 46.86 3.21
1737 1793 2.093816 CCAGCAGACAGTGATGAAGCTA 60.094 50.000 0.00 0.00 46.14 3.32
1757 1813 4.442733 GCTAACTCTGACACTATTGATCGC 59.557 45.833 0.00 0.00 0.00 4.58
1760 1816 1.749063 TCTGACACTATTGATCGCCGT 59.251 47.619 0.00 0.00 0.00 5.68
2049 2105 3.395607 TGTTGCCTATCTATCCAAGCCAT 59.604 43.478 0.00 0.00 0.00 4.40
2587 2659 2.553172 GGCTGGCATGCAATTTTCAAAA 59.447 40.909 21.36 0.00 34.04 2.44
2800 2873 2.755103 CAATCCAAACAGCCCCTTAGTC 59.245 50.000 0.00 0.00 0.00 2.59
2801 2874 0.696501 TCCAAACAGCCCCTTAGTCC 59.303 55.000 0.00 0.00 0.00 3.85
2805 2878 1.154430 AACAGCCCCTTAGTCCCAAA 58.846 50.000 0.00 0.00 0.00 3.28
2808 2881 2.111792 ACAGCCCCTTAGTCCCAAAAAT 59.888 45.455 0.00 0.00 0.00 1.82
2809 2882 3.335484 ACAGCCCCTTAGTCCCAAAAATA 59.665 43.478 0.00 0.00 0.00 1.40
2810 2883 3.954258 CAGCCCCTTAGTCCCAAAAATAG 59.046 47.826 0.00 0.00 0.00 1.73
2811 2884 3.596500 AGCCCCTTAGTCCCAAAAATAGT 59.403 43.478 0.00 0.00 0.00 2.12
2812 2885 4.791880 AGCCCCTTAGTCCCAAAAATAGTA 59.208 41.667 0.00 0.00 0.00 1.82
2813 2886 5.435373 AGCCCCTTAGTCCCAAAAATAGTAT 59.565 40.000 0.00 0.00 0.00 2.12
2814 2887 6.622348 AGCCCCTTAGTCCCAAAAATAGTATA 59.378 38.462 0.00 0.00 0.00 1.47
2815 2888 7.129816 AGCCCCTTAGTCCCAAAAATAGTATAA 59.870 37.037 0.00 0.00 0.00 0.98
2816 2889 7.781219 GCCCCTTAGTCCCAAAAATAGTATAAA 59.219 37.037 0.00 0.00 0.00 1.40
2817 2890 9.703677 CCCCTTAGTCCCAAAAATAGTATAAAA 57.296 33.333 0.00 0.00 0.00 1.52
2823 2896 9.923143 AGTCCCAAAAATAGTATAAAAAGTTGC 57.077 29.630 0.00 0.00 0.00 4.17
2824 2897 9.146984 GTCCCAAAAATAGTATAAAAAGTTGCC 57.853 33.333 0.00 0.00 0.00 4.52
2825 2898 8.871125 TCCCAAAAATAGTATAAAAAGTTGCCA 58.129 29.630 0.00 0.00 0.00 4.92
2826 2899 9.495572 CCCAAAAATAGTATAAAAAGTTGCCAA 57.504 29.630 0.00 0.00 0.00 4.52
2842 2915 9.777297 AAAGTTGCCAAAATATATGAAAGTTGT 57.223 25.926 0.00 0.00 0.00 3.32
2857 2930 7.099266 TGAAAGTTGTAGAATATTGGCATGG 57.901 36.000 0.00 0.00 0.00 3.66
2858 2931 6.889177 TGAAAGTTGTAGAATATTGGCATGGA 59.111 34.615 0.00 0.00 0.00 3.41
2859 2932 7.395772 TGAAAGTTGTAGAATATTGGCATGGAA 59.604 33.333 0.00 0.00 0.00 3.53
2860 2933 6.699575 AGTTGTAGAATATTGGCATGGAAC 57.300 37.500 0.00 0.00 0.00 3.62
2881 2954 9.878667 TGGAACAATCAAAAAGTATAGATACGA 57.121 29.630 0.00 0.00 34.88 3.43
2883 2956 9.831054 GAACAATCAAAAAGTATAGATACGACG 57.169 33.333 0.00 0.00 38.28 5.12
2884 2957 8.348983 ACAATCAAAAAGTATAGATACGACGG 57.651 34.615 0.00 0.00 38.28 4.79
2885 2958 8.192774 ACAATCAAAAAGTATAGATACGACGGA 58.807 33.333 0.00 0.00 38.28 4.69
2886 2959 8.691727 CAATCAAAAAGTATAGATACGACGGAG 58.308 37.037 0.00 0.00 38.28 4.63
2887 2960 7.558161 TCAAAAAGTATAGATACGACGGAGA 57.442 36.000 0.00 0.00 38.28 3.71
2888 2961 7.412853 TCAAAAAGTATAGATACGACGGAGAC 58.587 38.462 0.00 0.00 38.28 3.36
2901 2974 3.896317 GGAGACGTATCAGCATCCC 57.104 57.895 12.92 0.00 0.00 3.85
2902 2975 0.318762 GGAGACGTATCAGCATCCCC 59.681 60.000 12.92 0.00 0.00 4.81
2903 2976 1.040646 GAGACGTATCAGCATCCCCA 58.959 55.000 5.07 0.00 0.00 4.96
2904 2977 1.412710 GAGACGTATCAGCATCCCCAA 59.587 52.381 5.07 0.00 0.00 4.12
2905 2978 1.414181 AGACGTATCAGCATCCCCAAG 59.586 52.381 0.00 0.00 0.00 3.61
2906 2979 0.179045 ACGTATCAGCATCCCCAAGC 60.179 55.000 0.00 0.00 0.00 4.01
2907 2980 0.107456 CGTATCAGCATCCCCAAGCT 59.893 55.000 0.00 0.00 42.94 3.74
2908 2981 1.475751 CGTATCAGCATCCCCAAGCTT 60.476 52.381 0.00 0.00 39.50 3.74
2909 2982 2.224281 CGTATCAGCATCCCCAAGCTTA 60.224 50.000 0.00 0.00 39.50 3.09
2910 2983 3.744214 CGTATCAGCATCCCCAAGCTTAA 60.744 47.826 0.00 0.00 39.50 1.85
2911 2984 3.607490 ATCAGCATCCCCAAGCTTAAT 57.393 42.857 0.00 0.00 39.50 1.40
2912 2985 3.386932 TCAGCATCCCCAAGCTTAATT 57.613 42.857 0.00 0.00 39.50 1.40
2913 2986 3.290710 TCAGCATCCCCAAGCTTAATTC 58.709 45.455 0.00 0.00 39.50 2.17
2914 2987 3.025978 CAGCATCCCCAAGCTTAATTCA 58.974 45.455 0.00 0.00 39.50 2.57
2915 2988 3.640029 CAGCATCCCCAAGCTTAATTCAT 59.360 43.478 0.00 0.00 39.50 2.57
2916 2989 3.640029 AGCATCCCCAAGCTTAATTCATG 59.360 43.478 0.00 0.00 38.01 3.07
2917 2990 3.801293 GCATCCCCAAGCTTAATTCATGC 60.801 47.826 0.00 6.24 0.00 4.06
2918 2991 3.386932 TCCCCAAGCTTAATTCATGCT 57.613 42.857 0.00 0.00 39.23 3.79
2919 2992 3.290710 TCCCCAAGCTTAATTCATGCTC 58.709 45.455 0.00 0.00 36.67 4.26
2920 2993 2.033801 CCCCAAGCTTAATTCATGCTCG 59.966 50.000 0.00 0.00 36.67 5.03
2921 2994 2.684881 CCCAAGCTTAATTCATGCTCGT 59.315 45.455 0.00 0.00 36.67 4.18
2922 2995 3.242870 CCCAAGCTTAATTCATGCTCGTC 60.243 47.826 0.00 0.00 36.67 4.20
2923 2996 3.242870 CCAAGCTTAATTCATGCTCGTCC 60.243 47.826 0.00 0.00 36.67 4.79
2924 2997 3.550437 AGCTTAATTCATGCTCGTCCT 57.450 42.857 0.00 0.00 32.36 3.85
2925 2998 3.462021 AGCTTAATTCATGCTCGTCCTC 58.538 45.455 0.00 0.00 32.36 3.71
2926 2999 2.219674 GCTTAATTCATGCTCGTCCTCG 59.780 50.000 0.00 0.00 38.55 4.63
2927 3000 3.706698 CTTAATTCATGCTCGTCCTCGA 58.293 45.455 0.00 0.00 44.12 4.04
2939 3012 3.877559 TCGTCCTCGAGTAGGTAAATGA 58.122 45.455 12.31 0.00 46.62 2.57
2940 3013 4.458397 TCGTCCTCGAGTAGGTAAATGAT 58.542 43.478 12.31 0.00 46.62 2.45
2941 3014 5.614308 TCGTCCTCGAGTAGGTAAATGATA 58.386 41.667 12.31 0.00 46.62 2.15
2942 3015 6.057533 TCGTCCTCGAGTAGGTAAATGATAA 58.942 40.000 12.31 0.00 46.62 1.75
2943 3016 6.543465 TCGTCCTCGAGTAGGTAAATGATAAA 59.457 38.462 12.31 0.00 46.62 1.40
2944 3017 7.067372 TCGTCCTCGAGTAGGTAAATGATAAAA 59.933 37.037 12.31 0.00 46.62 1.52
2945 3018 7.703621 CGTCCTCGAGTAGGTAAATGATAAAAA 59.296 37.037 12.31 0.00 46.62 1.94
2946 3019 9.032420 GTCCTCGAGTAGGTAAATGATAAAAAG 57.968 37.037 12.31 0.00 46.62 2.27
2947 3020 8.974238 TCCTCGAGTAGGTAAATGATAAAAAGA 58.026 33.333 12.31 0.00 46.62 2.52
2948 3021 9.765795 CCTCGAGTAGGTAAATGATAAAAAGAT 57.234 33.333 12.31 0.00 40.94 2.40
2971 3044 9.807649 AGATAATTTTTGATGTGAAATGCTACC 57.192 29.630 0.00 0.00 0.00 3.18
2972 3045 9.807649 GATAATTTTTGATGTGAAATGCTACCT 57.192 29.630 0.00 0.00 0.00 3.08
2995 3068 9.664332 ACCTAGCATAATCTTGATCATGTAATC 57.336 33.333 8.33 0.00 0.00 1.75
2996 3069 9.887629 CCTAGCATAATCTTGATCATGTAATCT 57.112 33.333 8.33 3.44 0.00 2.40
3005 3078 8.557592 TCTTGATCATGTAATCTAATCATGGC 57.442 34.615 8.33 0.00 39.25 4.40
3006 3079 8.158789 TCTTGATCATGTAATCTAATCATGGCA 58.841 33.333 8.33 0.00 39.25 4.92
3007 3080 8.873186 TTGATCATGTAATCTAATCATGGCAT 57.127 30.769 0.00 0.00 39.25 4.40
3008 3081 8.276252 TGATCATGTAATCTAATCATGGCATG 57.724 34.615 21.42 21.42 39.25 4.06
3009 3082 8.104566 TGATCATGTAATCTAATCATGGCATGA 58.895 33.333 30.53 30.53 43.31 3.07
3010 3083 8.873186 ATCATGTAATCTAATCATGGCATGAA 57.127 30.769 31.81 17.29 42.72 2.57
3011 3084 8.873186 TCATGTAATCTAATCATGGCATGAAT 57.127 30.769 31.81 26.16 43.50 2.57
3012 3085 9.962809 TCATGTAATCTAATCATGGCATGAATA 57.037 29.630 31.81 25.88 43.50 1.75
3023 3096 8.873186 ATCATGGCATGAATATTAAGACATGA 57.127 30.769 31.81 23.89 43.50 3.07
3024 3097 8.331730 TCATGGCATGAATATTAAGACATGAG 57.668 34.615 27.03 8.50 41.45 2.90
3025 3098 7.940688 TCATGGCATGAATATTAAGACATGAGT 59.059 33.333 27.03 5.55 41.45 3.41
3026 3099 7.500720 TGGCATGAATATTAAGACATGAGTG 57.499 36.000 15.47 0.00 41.45 3.51
3027 3100 7.281841 TGGCATGAATATTAAGACATGAGTGA 58.718 34.615 15.47 0.00 41.45 3.41
3028 3101 7.940688 TGGCATGAATATTAAGACATGAGTGAT 59.059 33.333 15.47 0.00 41.45 3.06
3029 3102 8.790718 GGCATGAATATTAAGACATGAGTGATT 58.209 33.333 15.47 0.00 41.45 2.57
3030 3103 9.823098 GCATGAATATTAAGACATGAGTGATTC 57.177 33.333 15.47 0.19 41.45 2.52
3036 3109 7.692460 ATTAAGACATGAGTGATTCAAAGCA 57.308 32.000 0.00 0.00 39.77 3.91
3037 3110 7.509141 TTAAGACATGAGTGATTCAAAGCAA 57.491 32.000 0.00 0.00 39.77 3.91
3038 3111 6.585695 AAGACATGAGTGATTCAAAGCAAT 57.414 33.333 0.00 0.00 39.77 3.56
3039 3112 7.692460 AAGACATGAGTGATTCAAAGCAATA 57.308 32.000 0.00 0.00 39.77 1.90
3040 3113 7.317842 AGACATGAGTGATTCAAAGCAATAG 57.682 36.000 0.00 0.00 39.77 1.73
3041 3114 6.883217 AGACATGAGTGATTCAAAGCAATAGT 59.117 34.615 0.00 0.00 39.77 2.12
3042 3115 7.065563 AGACATGAGTGATTCAAAGCAATAGTC 59.934 37.037 0.00 0.00 39.77 2.59
3043 3116 6.883217 ACATGAGTGATTCAAAGCAATAGTCT 59.117 34.615 0.00 0.00 39.77 3.24
3044 3117 8.043113 ACATGAGTGATTCAAAGCAATAGTCTA 58.957 33.333 0.00 0.00 39.77 2.59
3045 3118 9.053840 CATGAGTGATTCAAAGCAATAGTCTAT 57.946 33.333 0.00 0.00 39.77 1.98
3046 3119 8.654230 TGAGTGATTCAAAGCAATAGTCTATC 57.346 34.615 0.00 0.00 31.34 2.08
3047 3120 8.260114 TGAGTGATTCAAAGCAATAGTCTATCA 58.740 33.333 0.00 0.00 31.34 2.15
3048 3121 9.270640 GAGTGATTCAAAGCAATAGTCTATCAT 57.729 33.333 0.00 0.00 0.00 2.45
3049 3122 9.624373 AGTGATTCAAAGCAATAGTCTATCATT 57.376 29.630 0.00 0.00 0.00 2.57
3054 3127 8.791327 TCAAAGCAATAGTCTATCATTTCACA 57.209 30.769 0.00 0.00 0.00 3.58
3055 3128 9.399797 TCAAAGCAATAGTCTATCATTTCACAT 57.600 29.630 0.00 0.00 0.00 3.21
3094 3167 9.177608 ACTTCAAGCATACTAATAAAGCAATCA 57.822 29.630 0.00 0.00 0.00 2.57
3096 3169 9.955208 TTCAAGCATACTAATAAAGCAATCATG 57.045 29.630 0.00 0.00 0.00 3.07
3097 3170 9.123902 TCAAGCATACTAATAAAGCAATCATGT 57.876 29.630 0.00 0.00 0.00 3.21
3098 3171 9.390795 CAAGCATACTAATAAAGCAATCATGTC 57.609 33.333 0.00 0.00 0.00 3.06
3099 3172 8.915057 AGCATACTAATAAAGCAATCATGTCT 57.085 30.769 0.00 0.00 0.00 3.41
3100 3173 9.347240 AGCATACTAATAAAGCAATCATGTCTT 57.653 29.630 0.00 0.00 0.00 3.01
3101 3174 9.956720 GCATACTAATAAAGCAATCATGTCTTT 57.043 29.630 0.00 2.00 37.02 2.52
3112 3185 9.545105 AAGCAATCATGTCTTTTCAAAATAACA 57.455 25.926 0.00 1.82 0.00 2.41
3113 3186 9.715121 AGCAATCATGTCTTTTCAAAATAACAT 57.285 25.926 5.57 5.57 0.00 2.71
3114 3187 9.749490 GCAATCATGTCTTTTCAAAATAACATG 57.251 29.630 21.66 21.66 39.73 3.21
3116 3189 7.887996 TCATGTCTTTTCAAAATAACATGGC 57.112 32.000 24.49 1.86 39.33 4.40
3117 3190 6.873076 TCATGTCTTTTCAAAATAACATGGCC 59.127 34.615 24.49 0.00 39.33 5.36
3118 3191 6.166984 TGTCTTTTCAAAATAACATGGCCA 57.833 33.333 8.56 8.56 0.00 5.36
3119 3192 6.586344 TGTCTTTTCAAAATAACATGGCCAA 58.414 32.000 10.96 0.00 0.00 4.52
3120 3193 7.050377 TGTCTTTTCAAAATAACATGGCCAAA 58.950 30.769 10.96 0.00 0.00 3.28
3121 3194 7.226325 TGTCTTTTCAAAATAACATGGCCAAAG 59.774 33.333 10.96 8.53 0.00 2.77
3122 3195 7.440856 GTCTTTTCAAAATAACATGGCCAAAGA 59.559 33.333 10.96 6.54 0.00 2.52
3123 3196 7.989741 TCTTTTCAAAATAACATGGCCAAAGAA 59.010 29.630 10.96 0.00 0.00 2.52
3124 3197 8.511604 TTTTCAAAATAACATGGCCAAAGAAA 57.488 26.923 10.96 7.10 0.00 2.52
3125 3198 7.727331 TTCAAAATAACATGGCCAAAGAAAG 57.273 32.000 10.96 0.00 0.00 2.62
3126 3199 6.825610 TCAAAATAACATGGCCAAAGAAAGT 58.174 32.000 10.96 0.00 0.00 2.66
3127 3200 7.278875 TCAAAATAACATGGCCAAAGAAAGTT 58.721 30.769 10.96 10.60 0.00 2.66
3128 3201 8.424918 TCAAAATAACATGGCCAAAGAAAGTTA 58.575 29.630 10.96 12.44 0.00 2.24
3129 3202 9.218440 CAAAATAACATGGCCAAAGAAAGTTAT 57.782 29.630 10.96 14.07 33.54 1.89
3130 3203 9.435688 AAAATAACATGGCCAAAGAAAGTTATC 57.564 29.630 10.96 0.00 31.63 1.75
3131 3204 5.405935 AACATGGCCAAAGAAAGTTATCC 57.594 39.130 10.96 0.00 0.00 2.59
3132 3205 3.769300 ACATGGCCAAAGAAAGTTATCCC 59.231 43.478 10.96 0.00 0.00 3.85
3133 3206 3.825908 TGGCCAAAGAAAGTTATCCCT 57.174 42.857 0.61 0.00 0.00 4.20
3134 3207 4.938575 TGGCCAAAGAAAGTTATCCCTA 57.061 40.909 0.61 0.00 0.00 3.53
3135 3208 4.595986 TGGCCAAAGAAAGTTATCCCTAC 58.404 43.478 0.61 0.00 0.00 3.18
3136 3209 4.043561 TGGCCAAAGAAAGTTATCCCTACA 59.956 41.667 0.61 0.00 0.00 2.74
3137 3210 5.014202 GGCCAAAGAAAGTTATCCCTACAA 58.986 41.667 0.00 0.00 0.00 2.41
3138 3211 5.479027 GGCCAAAGAAAGTTATCCCTACAAA 59.521 40.000 0.00 0.00 0.00 2.83
3139 3212 6.014925 GGCCAAAGAAAGTTATCCCTACAAAA 60.015 38.462 0.00 0.00 0.00 2.44
3140 3213 7.310423 GGCCAAAGAAAGTTATCCCTACAAAAT 60.310 37.037 0.00 0.00 0.00 1.82
3141 3214 7.759886 GCCAAAGAAAGTTATCCCTACAAAATC 59.240 37.037 0.00 0.00 0.00 2.17
3142 3215 8.802267 CCAAAGAAAGTTATCCCTACAAAATCA 58.198 33.333 0.00 0.00 0.00 2.57
3148 3221 9.936329 AAAGTTATCCCTACAAAATCATATGGT 57.064 29.630 2.13 0.00 0.00 3.55
3149 3222 9.574516 AAGTTATCCCTACAAAATCATATGGTC 57.425 33.333 2.13 0.00 0.00 4.02
3150 3223 8.949421 AGTTATCCCTACAAAATCATATGGTCT 58.051 33.333 2.13 0.00 0.00 3.85
3151 3224 9.003658 GTTATCCCTACAAAATCATATGGTCTG 57.996 37.037 2.13 0.00 0.00 3.51
3152 3225 5.940617 TCCCTACAAAATCATATGGTCTGG 58.059 41.667 2.13 0.00 0.00 3.86
3153 3226 4.520492 CCCTACAAAATCATATGGTCTGGC 59.480 45.833 2.13 0.00 0.00 4.85
3154 3227 5.380043 CCTACAAAATCATATGGTCTGGCT 58.620 41.667 2.13 0.00 0.00 4.75
3155 3228 6.465751 CCCTACAAAATCATATGGTCTGGCTA 60.466 42.308 2.13 0.00 0.00 3.93
3156 3229 7.170965 CCTACAAAATCATATGGTCTGGCTAT 58.829 38.462 2.13 0.00 0.00 2.97
3157 3230 6.889301 ACAAAATCATATGGTCTGGCTATG 57.111 37.500 2.13 0.00 0.00 2.23
3158 3231 5.242393 ACAAAATCATATGGTCTGGCTATGC 59.758 40.000 2.13 0.00 0.00 3.14
3159 3232 4.923516 AATCATATGGTCTGGCTATGCT 57.076 40.909 2.13 0.00 0.00 3.79
3160 3233 3.969287 TCATATGGTCTGGCTATGCTC 57.031 47.619 2.13 0.00 0.00 4.26
3161 3234 2.568956 TCATATGGTCTGGCTATGCTCC 59.431 50.000 2.13 0.00 0.00 4.70
3162 3235 2.101640 TATGGTCTGGCTATGCTCCA 57.898 50.000 0.00 0.00 0.00 3.86
3163 3236 1.442773 ATGGTCTGGCTATGCTCCAT 58.557 50.000 0.00 0.00 32.37 3.41
3164 3237 0.761187 TGGTCTGGCTATGCTCCATC 59.239 55.000 0.00 0.00 32.37 3.51
3165 3238 1.055040 GGTCTGGCTATGCTCCATCT 58.945 55.000 0.00 0.00 32.37 2.90
3166 3239 1.419387 GGTCTGGCTATGCTCCATCTT 59.581 52.381 0.00 0.00 32.37 2.40
3167 3240 2.549778 GGTCTGGCTATGCTCCATCTTC 60.550 54.545 0.00 0.00 32.37 2.87
3168 3241 2.103771 GTCTGGCTATGCTCCATCTTCA 59.896 50.000 0.00 0.00 32.37 3.02
3169 3242 2.103771 TCTGGCTATGCTCCATCTTCAC 59.896 50.000 0.00 0.00 32.37 3.18
3170 3243 1.141657 TGGCTATGCTCCATCTTCACC 59.858 52.381 0.00 0.00 0.00 4.02
3171 3244 1.141657 GGCTATGCTCCATCTTCACCA 59.858 52.381 0.00 0.00 0.00 4.17
3172 3245 2.216898 GCTATGCTCCATCTTCACCAC 58.783 52.381 0.00 0.00 0.00 4.16
3173 3246 2.420547 GCTATGCTCCATCTTCACCACA 60.421 50.000 0.00 0.00 0.00 4.17
3174 3247 2.119801 ATGCTCCATCTTCACCACAC 57.880 50.000 0.00 0.00 0.00 3.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
631 681 7.121168 CACATGGAAATACATCAAAGGTACAGT 59.879 37.037 0.00 0.00 0.00 3.55
632 682 7.336679 TCACATGGAAATACATCAAAGGTACAG 59.663 37.037 0.00 0.00 0.00 2.74
633 683 7.171653 TCACATGGAAATACATCAAAGGTACA 58.828 34.615 0.00 0.00 0.00 2.90
634 684 7.201732 CCTCACATGGAAATACATCAAAGGTAC 60.202 40.741 0.00 0.00 0.00 3.34
635 685 6.828273 CCTCACATGGAAATACATCAAAGGTA 59.172 38.462 0.00 0.00 0.00 3.08
636 686 5.653769 CCTCACATGGAAATACATCAAAGGT 59.346 40.000 0.00 0.00 0.00 3.50
637 687 5.068198 CCCTCACATGGAAATACATCAAAGG 59.932 44.000 0.00 0.00 0.00 3.11
679 729 7.667635 TCACATGGAAATACATCAAAGGTACAA 59.332 33.333 0.00 0.00 0.00 2.41
976 1026 2.749621 CCTACAGAAAGGTCACCATTGC 59.250 50.000 0.00 0.00 31.46 3.56
989 1042 1.559682 GCTTCCCCATGACCTACAGAA 59.440 52.381 0.00 0.00 0.00 3.02
1011 1064 1.964223 TCGGTCTTCAGAGTGAGCTTT 59.036 47.619 0.00 0.00 0.00 3.51
1115 1168 4.892934 TGAAAGTTGCAGGTTTGTCCTTAT 59.107 37.500 0.40 0.00 45.67 1.73
1242 1295 2.208349 ACCCAGCCCCACTTCTCT 59.792 61.111 0.00 0.00 0.00 3.10
1262 1315 0.183492 ACTATTGGCCATGGCACGAT 59.817 50.000 36.56 28.82 44.11 3.73
1520 1576 4.131596 TCTGCACACAAGGTAAGGTAAAC 58.868 43.478 0.00 0.00 0.00 2.01
1621 1677 0.035317 AACTGCGAGTGAGCCATCAA 59.965 50.000 0.00 0.00 37.14 2.57
1737 1793 3.735208 CGGCGATCAATAGTGTCAGAGTT 60.735 47.826 0.00 0.00 0.00 3.01
1757 1813 3.427233 CCAAGTCGACTTTAGGACTACGG 60.427 52.174 27.79 17.87 42.42 4.02
1760 1816 4.401519 CCATCCAAGTCGACTTTAGGACTA 59.598 45.833 29.62 15.15 42.42 2.59
2587 2659 6.183360 GGCATGTGTTTGGTTTGGTTTAAAAT 60.183 34.615 0.00 0.00 0.00 1.82
2800 2873 9.495572 TTGGCAACTTTTTATACTATTTTTGGG 57.504 29.630 0.00 0.00 37.61 4.12
2816 2889 9.777297 ACAACTTTCATATATTTTGGCAACTTT 57.223 25.926 0.00 0.00 37.61 2.66
2831 2904 8.849168 CCATGCCAATATTCTACAACTTTCATA 58.151 33.333 0.00 0.00 0.00 2.15
2832 2905 7.560991 TCCATGCCAATATTCTACAACTTTCAT 59.439 33.333 0.00 0.00 0.00 2.57
2833 2906 6.889177 TCCATGCCAATATTCTACAACTTTCA 59.111 34.615 0.00 0.00 0.00 2.69
2834 2907 7.333528 TCCATGCCAATATTCTACAACTTTC 57.666 36.000 0.00 0.00 0.00 2.62
2835 2908 7.178274 TGTTCCATGCCAATATTCTACAACTTT 59.822 33.333 0.00 0.00 0.00 2.66
2836 2909 6.663093 TGTTCCATGCCAATATTCTACAACTT 59.337 34.615 0.00 0.00 0.00 2.66
2837 2910 6.186957 TGTTCCATGCCAATATTCTACAACT 58.813 36.000 0.00 0.00 0.00 3.16
2838 2911 6.449635 TGTTCCATGCCAATATTCTACAAC 57.550 37.500 0.00 0.00 0.00 3.32
2839 2912 7.341512 TGATTGTTCCATGCCAATATTCTACAA 59.658 33.333 4.18 0.00 31.67 2.41
2840 2913 6.832900 TGATTGTTCCATGCCAATATTCTACA 59.167 34.615 4.18 0.00 31.67 2.74
2841 2914 7.275888 TGATTGTTCCATGCCAATATTCTAC 57.724 36.000 4.18 0.00 31.67 2.59
2842 2915 7.894753 TTGATTGTTCCATGCCAATATTCTA 57.105 32.000 4.18 0.00 31.67 2.10
2843 2916 6.795144 TTGATTGTTCCATGCCAATATTCT 57.205 33.333 4.18 0.00 31.67 2.40
2844 2917 7.846644 TTTTGATTGTTCCATGCCAATATTC 57.153 32.000 4.18 0.00 31.67 1.75
2845 2918 7.884354 ACTTTTTGATTGTTCCATGCCAATATT 59.116 29.630 4.18 0.00 31.67 1.28
2846 2919 7.396418 ACTTTTTGATTGTTCCATGCCAATAT 58.604 30.769 4.18 0.00 31.67 1.28
2847 2920 6.767456 ACTTTTTGATTGTTCCATGCCAATA 58.233 32.000 4.18 0.00 31.67 1.90
2848 2921 5.623169 ACTTTTTGATTGTTCCATGCCAAT 58.377 33.333 3.91 3.91 34.11 3.16
2849 2922 5.033589 ACTTTTTGATTGTTCCATGCCAA 57.966 34.783 0.00 0.00 0.00 4.52
2850 2923 4.686191 ACTTTTTGATTGTTCCATGCCA 57.314 36.364 0.00 0.00 0.00 4.92
2851 2924 7.771183 TCTATACTTTTTGATTGTTCCATGCC 58.229 34.615 0.00 0.00 0.00 4.40
2855 2928 9.878667 TCGTATCTATACTTTTTGATTGTTCCA 57.121 29.630 0.00 0.00 0.00 3.53
2857 2930 9.831054 CGTCGTATCTATACTTTTTGATTGTTC 57.169 33.333 0.00 0.00 0.00 3.18
2858 2931 8.814235 CCGTCGTATCTATACTTTTTGATTGTT 58.186 33.333 0.00 0.00 0.00 2.83
2859 2932 8.192774 TCCGTCGTATCTATACTTTTTGATTGT 58.807 33.333 0.00 0.00 0.00 2.71
2860 2933 8.570096 TCCGTCGTATCTATACTTTTTGATTG 57.430 34.615 0.00 0.00 0.00 2.67
2861 2934 8.627403 TCTCCGTCGTATCTATACTTTTTGATT 58.373 33.333 0.00 0.00 0.00 2.57
2862 2935 8.074972 GTCTCCGTCGTATCTATACTTTTTGAT 58.925 37.037 0.00 0.00 0.00 2.57
2863 2936 7.412853 GTCTCCGTCGTATCTATACTTTTTGA 58.587 38.462 0.00 0.00 0.00 2.69
2864 2937 6.356452 CGTCTCCGTCGTATCTATACTTTTTG 59.644 42.308 0.00 0.00 0.00 2.44
2865 2938 6.037610 ACGTCTCCGTCGTATCTATACTTTTT 59.962 38.462 0.00 0.00 46.28 1.94
2866 2939 5.525378 ACGTCTCCGTCGTATCTATACTTTT 59.475 40.000 0.00 0.00 46.28 2.27
2867 2940 5.053145 ACGTCTCCGTCGTATCTATACTTT 58.947 41.667 0.00 0.00 46.28 2.66
2868 2941 4.626042 ACGTCTCCGTCGTATCTATACTT 58.374 43.478 0.00 0.00 46.28 2.24
2869 2942 4.250116 ACGTCTCCGTCGTATCTATACT 57.750 45.455 0.00 0.00 46.28 2.12
2877 2950 0.933097 GCTGATACGTCTCCGTCGTA 59.067 55.000 0.00 0.00 46.28 3.43
2878 2951 1.022982 TGCTGATACGTCTCCGTCGT 61.023 55.000 0.00 0.00 46.28 4.34
2879 2952 0.308068 ATGCTGATACGTCTCCGTCG 59.692 55.000 0.00 0.00 46.28 5.12
2880 2953 1.335142 GGATGCTGATACGTCTCCGTC 60.335 57.143 0.00 0.00 46.28 4.79
2882 2955 0.039074 GGGATGCTGATACGTCTCCG 60.039 60.000 0.00 0.00 40.83 4.63
2883 2956 0.318762 GGGGATGCTGATACGTCTCC 59.681 60.000 0.00 0.00 39.02 3.71
2884 2957 1.040646 TGGGGATGCTGATACGTCTC 58.959 55.000 0.00 0.00 0.00 3.36
2885 2958 1.414181 CTTGGGGATGCTGATACGTCT 59.586 52.381 0.00 0.00 0.00 4.18
2886 2959 1.871080 CTTGGGGATGCTGATACGTC 58.129 55.000 0.00 0.00 0.00 4.34
2887 2960 0.179045 GCTTGGGGATGCTGATACGT 60.179 55.000 0.00 0.00 0.00 3.57
2888 2961 0.107456 AGCTTGGGGATGCTGATACG 59.893 55.000 0.00 0.00 38.21 3.06
2889 2962 2.355010 AAGCTTGGGGATGCTGATAC 57.645 50.000 0.00 0.00 39.71 2.24
2890 2963 4.729552 ATTAAGCTTGGGGATGCTGATA 57.270 40.909 9.86 0.00 39.71 2.15
2891 2964 3.607490 ATTAAGCTTGGGGATGCTGAT 57.393 42.857 9.86 0.00 39.71 2.90
2892 2965 3.290710 GAATTAAGCTTGGGGATGCTGA 58.709 45.455 9.86 0.00 39.71 4.26
2893 2966 3.025978 TGAATTAAGCTTGGGGATGCTG 58.974 45.455 9.86 0.00 39.71 4.41
2894 2967 3.386932 TGAATTAAGCTTGGGGATGCT 57.613 42.857 9.86 0.00 41.82 3.79
2895 2968 3.801293 GCATGAATTAAGCTTGGGGATGC 60.801 47.826 9.86 12.03 0.00 3.91
2896 2969 3.640029 AGCATGAATTAAGCTTGGGGATG 59.360 43.478 9.86 6.13 34.37 3.51
2897 2970 3.893813 GAGCATGAATTAAGCTTGGGGAT 59.106 43.478 9.86 0.00 39.02 3.85
2898 2971 3.290710 GAGCATGAATTAAGCTTGGGGA 58.709 45.455 9.86 0.00 39.02 4.81
2899 2972 2.033801 CGAGCATGAATTAAGCTTGGGG 59.966 50.000 9.86 0.00 39.02 4.96
2900 2973 2.684881 ACGAGCATGAATTAAGCTTGGG 59.315 45.455 9.86 5.49 42.70 4.12
2901 2974 3.242870 GGACGAGCATGAATTAAGCTTGG 60.243 47.826 9.86 7.25 42.70 3.61
2902 2975 3.624861 AGGACGAGCATGAATTAAGCTTG 59.375 43.478 9.86 10.41 43.74 4.01
2903 2976 3.873952 GAGGACGAGCATGAATTAAGCTT 59.126 43.478 3.48 3.48 39.02 3.74
2904 2977 3.462021 GAGGACGAGCATGAATTAAGCT 58.538 45.455 0.00 0.00 42.17 3.74
2905 2978 2.219674 CGAGGACGAGCATGAATTAAGC 59.780 50.000 0.00 0.00 42.66 3.09
2906 2979 3.706698 TCGAGGACGAGCATGAATTAAG 58.293 45.455 0.00 0.00 43.81 1.85
2907 2980 3.793797 TCGAGGACGAGCATGAATTAA 57.206 42.857 0.00 0.00 43.81 1.40
2945 3018 9.807649 GGTAGCATTTCACATCAAAAATTATCT 57.192 29.630 0.00 0.00 0.00 1.98
2946 3019 9.807649 AGGTAGCATTTCACATCAAAAATTATC 57.192 29.630 0.00 0.00 0.00 1.75
2969 3042 9.664332 GATTACATGATCAAGATTATGCTAGGT 57.336 33.333 12.96 0.00 38.06 3.08
2970 3043 9.887629 AGATTACATGATCAAGATTATGCTAGG 57.112 33.333 12.96 0.00 38.06 3.02
2979 3052 9.175312 GCCATGATTAGATTACATGATCAAGAT 57.825 33.333 4.68 0.00 42.41 2.40
2980 3053 8.158789 TGCCATGATTAGATTACATGATCAAGA 58.841 33.333 4.68 0.00 42.41 3.02
2981 3054 8.331730 TGCCATGATTAGATTACATGATCAAG 57.668 34.615 0.00 0.00 42.41 3.02
2982 3055 8.736244 CATGCCATGATTAGATTACATGATCAA 58.264 33.333 0.00 0.00 42.41 2.57
2983 3056 8.104566 TCATGCCATGATTAGATTACATGATCA 58.895 33.333 2.53 0.00 42.41 2.92
2984 3057 8.502105 TCATGCCATGATTAGATTACATGATC 57.498 34.615 2.53 0.00 42.41 2.92
2985 3058 8.873186 TTCATGCCATGATTAGATTACATGAT 57.127 30.769 8.45 0.00 41.43 2.45
2986 3059 8.873186 ATTCATGCCATGATTAGATTACATGA 57.127 30.769 8.45 0.00 42.41 3.07
2997 3070 9.304335 TCATGTCTTAATATTCATGCCATGATT 57.696 29.630 8.45 7.74 39.39 2.57
2998 3071 8.873186 TCATGTCTTAATATTCATGCCATGAT 57.127 30.769 8.45 1.87 39.39 2.45
2999 3072 7.940688 ACTCATGTCTTAATATTCATGCCATGA 59.059 33.333 2.53 2.53 37.95 3.07
3000 3073 8.021396 CACTCATGTCTTAATATTCATGCCATG 58.979 37.037 0.00 0.00 37.95 3.66
3001 3074 7.940688 TCACTCATGTCTTAATATTCATGCCAT 59.059 33.333 9.08 0.00 37.95 4.40
3002 3075 7.281841 TCACTCATGTCTTAATATTCATGCCA 58.718 34.615 9.08 0.00 37.95 4.92
3003 3076 7.734924 TCACTCATGTCTTAATATTCATGCC 57.265 36.000 9.08 0.00 37.95 4.40
3004 3077 9.823098 GAATCACTCATGTCTTAATATTCATGC 57.177 33.333 9.08 0.00 37.95 4.06
3010 3083 9.399797 TGCTTTGAATCACTCATGTCTTAATAT 57.600 29.630 0.00 0.00 32.78 1.28
3011 3084 8.791327 TGCTTTGAATCACTCATGTCTTAATA 57.209 30.769 0.00 0.00 32.78 0.98
3012 3085 7.692460 TGCTTTGAATCACTCATGTCTTAAT 57.308 32.000 0.00 0.00 32.78 1.40
3013 3086 7.509141 TTGCTTTGAATCACTCATGTCTTAA 57.491 32.000 0.00 0.00 32.78 1.85
3014 3087 7.692460 ATTGCTTTGAATCACTCATGTCTTA 57.308 32.000 0.00 0.00 32.78 2.10
3015 3088 6.585695 ATTGCTTTGAATCACTCATGTCTT 57.414 33.333 0.00 0.00 32.78 3.01
3016 3089 6.883217 ACTATTGCTTTGAATCACTCATGTCT 59.117 34.615 0.00 0.00 32.78 3.41
3017 3090 7.065563 AGACTATTGCTTTGAATCACTCATGTC 59.934 37.037 0.00 0.00 32.78 3.06
3018 3091 6.883217 AGACTATTGCTTTGAATCACTCATGT 59.117 34.615 0.00 0.00 32.78 3.21
3019 3092 7.317842 AGACTATTGCTTTGAATCACTCATG 57.682 36.000 0.00 0.00 32.78 3.07
3020 3093 9.270640 GATAGACTATTGCTTTGAATCACTCAT 57.729 33.333 0.00 0.00 32.78 2.90
3021 3094 8.260114 TGATAGACTATTGCTTTGAATCACTCA 58.740 33.333 0.00 0.00 0.00 3.41
3022 3095 8.654230 TGATAGACTATTGCTTTGAATCACTC 57.346 34.615 0.00 0.00 0.00 3.51
3023 3096 9.624373 AATGATAGACTATTGCTTTGAATCACT 57.376 29.630 0.00 0.00 0.00 3.41
3028 3101 9.230122 TGTGAAATGATAGACTATTGCTTTGAA 57.770 29.630 0.00 0.00 0.00 2.69
3029 3102 8.791327 TGTGAAATGATAGACTATTGCTTTGA 57.209 30.769 0.00 0.00 0.00 2.69
3068 3141 9.177608 TGATTGCTTTATTAGTATGCTTGAAGT 57.822 29.630 0.00 0.00 0.00 3.01
3070 3143 9.955208 CATGATTGCTTTATTAGTATGCTTGAA 57.045 29.630 0.00 0.00 0.00 2.69
3071 3144 9.123902 ACATGATTGCTTTATTAGTATGCTTGA 57.876 29.630 0.00 0.00 0.00 3.02
3072 3145 9.390795 GACATGATTGCTTTATTAGTATGCTTG 57.609 33.333 0.00 0.00 0.00 4.01
3073 3146 9.347240 AGACATGATTGCTTTATTAGTATGCTT 57.653 29.630 0.00 0.00 0.00 3.91
3074 3147 8.915057 AGACATGATTGCTTTATTAGTATGCT 57.085 30.769 0.00 0.00 0.00 3.79
3075 3148 9.956720 AAAGACATGATTGCTTTATTAGTATGC 57.043 29.630 0.00 0.00 31.70 3.14
3086 3159 9.545105 TGTTATTTTGAAAAGACATGATTGCTT 57.455 25.926 0.00 0.00 0.00 3.91
3087 3160 9.715121 ATGTTATTTTGAAAAGACATGATTGCT 57.285 25.926 16.57 0.00 31.00 3.91
3088 3161 9.749490 CATGTTATTTTGAAAAGACATGATTGC 57.251 29.630 27.81 0.00 42.05 3.56
3090 3163 8.938906 GCCATGTTATTTTGAAAAGACATGATT 58.061 29.630 30.56 10.81 42.05 2.57
3091 3164 7.550196 GGCCATGTTATTTTGAAAAGACATGAT 59.450 33.333 30.56 11.06 42.05 2.45
3092 3165 6.873076 GGCCATGTTATTTTGAAAAGACATGA 59.127 34.615 30.56 8.63 42.05 3.07
3093 3166 6.649973 TGGCCATGTTATTTTGAAAAGACATG 59.350 34.615 26.34 26.34 40.76 3.21
3094 3167 6.767456 TGGCCATGTTATTTTGAAAAGACAT 58.233 32.000 0.00 13.38 31.75 3.06
3095 3168 6.166984 TGGCCATGTTATTTTGAAAAGACA 57.833 33.333 0.00 10.64 0.00 3.41
3096 3169 7.440856 TCTTTGGCCATGTTATTTTGAAAAGAC 59.559 33.333 6.09 0.00 0.00 3.01
3097 3170 7.504403 TCTTTGGCCATGTTATTTTGAAAAGA 58.496 30.769 6.09 4.77 0.00 2.52
3098 3171 7.727331 TCTTTGGCCATGTTATTTTGAAAAG 57.273 32.000 6.09 1.96 0.00 2.27
3099 3172 8.511604 TTTCTTTGGCCATGTTATTTTGAAAA 57.488 26.923 6.09 0.00 0.00 2.29
3100 3173 7.772757 ACTTTCTTTGGCCATGTTATTTTGAAA 59.227 29.630 6.09 6.37 0.00 2.69
3101 3174 7.278875 ACTTTCTTTGGCCATGTTATTTTGAA 58.721 30.769 6.09 0.00 0.00 2.69
3102 3175 6.825610 ACTTTCTTTGGCCATGTTATTTTGA 58.174 32.000 6.09 0.00 0.00 2.69
3103 3176 7.495135 AACTTTCTTTGGCCATGTTATTTTG 57.505 32.000 6.09 0.00 0.00 2.44
3104 3177 9.435688 GATAACTTTCTTTGGCCATGTTATTTT 57.564 29.630 6.09 0.00 31.81 1.82
3105 3178 8.040727 GGATAACTTTCTTTGGCCATGTTATTT 58.959 33.333 6.09 0.00 31.81 1.40
3106 3179 7.364673 GGGATAACTTTCTTTGGCCATGTTATT 60.365 37.037 6.09 0.00 31.81 1.40
3107 3180 6.098266 GGGATAACTTTCTTTGGCCATGTTAT 59.902 38.462 6.09 13.95 33.56 1.89
3108 3181 5.420739 GGGATAACTTTCTTTGGCCATGTTA 59.579 40.000 6.09 9.92 0.00 2.41
3109 3182 4.222810 GGGATAACTTTCTTTGGCCATGTT 59.777 41.667 6.09 8.00 0.00 2.71
3110 3183 3.769300 GGGATAACTTTCTTTGGCCATGT 59.231 43.478 6.09 0.00 0.00 3.21
3111 3184 4.026052 AGGGATAACTTTCTTTGGCCATG 58.974 43.478 6.09 2.48 0.00 3.66
3112 3185 4.337264 AGGGATAACTTTCTTTGGCCAT 57.663 40.909 6.09 0.00 0.00 4.40
3113 3186 3.825908 AGGGATAACTTTCTTTGGCCA 57.174 42.857 0.00 0.00 0.00 5.36
3114 3187 4.595986 TGTAGGGATAACTTTCTTTGGCC 58.404 43.478 0.00 0.00 0.00 5.36
3115 3188 6.584185 TTTGTAGGGATAACTTTCTTTGGC 57.416 37.500 0.00 0.00 0.00 4.52
3116 3189 8.802267 TGATTTTGTAGGGATAACTTTCTTTGG 58.198 33.333 0.00 0.00 0.00 3.28
3122 3195 9.936329 ACCATATGATTTTGTAGGGATAACTTT 57.064 29.630 3.65 0.00 0.00 2.66
3123 3196 9.574516 GACCATATGATTTTGTAGGGATAACTT 57.425 33.333 3.65 0.00 0.00 2.66
3124 3197 8.949421 AGACCATATGATTTTGTAGGGATAACT 58.051 33.333 3.65 0.00 0.00 2.24
3125 3198 9.003658 CAGACCATATGATTTTGTAGGGATAAC 57.996 37.037 3.65 0.00 0.00 1.89
3126 3199 8.163408 CCAGACCATATGATTTTGTAGGGATAA 58.837 37.037 3.65 0.00 0.00 1.75
3127 3200 7.689299 CCAGACCATATGATTTTGTAGGGATA 58.311 38.462 3.65 0.00 0.00 2.59
3128 3201 6.546484 CCAGACCATATGATTTTGTAGGGAT 58.454 40.000 3.65 0.00 0.00 3.85
3129 3202 5.690097 GCCAGACCATATGATTTTGTAGGGA 60.690 44.000 3.65 0.00 0.00 4.20
3130 3203 4.520492 GCCAGACCATATGATTTTGTAGGG 59.480 45.833 3.65 0.00 0.00 3.53
3131 3204 5.380043 AGCCAGACCATATGATTTTGTAGG 58.620 41.667 3.65 0.70 0.00 3.18
3132 3205 7.361542 GCATAGCCAGACCATATGATTTTGTAG 60.362 40.741 3.65 0.00 0.00 2.74
3133 3206 6.430925 GCATAGCCAGACCATATGATTTTGTA 59.569 38.462 3.65 0.00 0.00 2.41
3134 3207 5.242393 GCATAGCCAGACCATATGATTTTGT 59.758 40.000 3.65 0.00 0.00 2.83
3135 3208 5.475909 AGCATAGCCAGACCATATGATTTTG 59.524 40.000 3.65 0.00 0.00 2.44
3136 3209 5.638133 AGCATAGCCAGACCATATGATTTT 58.362 37.500 3.65 0.00 0.00 1.82
3137 3210 5.251764 GAGCATAGCCAGACCATATGATTT 58.748 41.667 3.65 0.00 0.00 2.17
3138 3211 4.324099 GGAGCATAGCCAGACCATATGATT 60.324 45.833 3.65 0.00 0.00 2.57
3139 3212 3.199508 GGAGCATAGCCAGACCATATGAT 59.800 47.826 3.65 0.00 0.00 2.45
3140 3213 2.568956 GGAGCATAGCCAGACCATATGA 59.431 50.000 3.65 0.00 0.00 2.15
3141 3214 2.303890 TGGAGCATAGCCAGACCATATG 59.696 50.000 0.00 0.00 0.00 1.78
3142 3215 2.624495 TGGAGCATAGCCAGACCATAT 58.376 47.619 0.00 0.00 0.00 1.78
3143 3216 2.101640 TGGAGCATAGCCAGACCATA 57.898 50.000 0.00 0.00 0.00 2.74
3144 3217 1.350351 GATGGAGCATAGCCAGACCAT 59.650 52.381 0.00 0.00 39.11 3.55
3145 3218 0.761187 GATGGAGCATAGCCAGACCA 59.239 55.000 0.00 0.00 39.11 4.02
3146 3219 1.055040 AGATGGAGCATAGCCAGACC 58.945 55.000 0.00 0.00 39.11 3.85
3147 3220 2.103771 TGAAGATGGAGCATAGCCAGAC 59.896 50.000 0.00 0.00 39.11 3.51
3148 3221 2.103771 GTGAAGATGGAGCATAGCCAGA 59.896 50.000 0.00 0.00 39.11 3.86
3149 3222 2.492012 GTGAAGATGGAGCATAGCCAG 58.508 52.381 0.00 0.00 39.11 4.85
3150 3223 1.141657 GGTGAAGATGGAGCATAGCCA 59.858 52.381 0.00 0.00 40.24 4.75
3151 3224 1.141657 TGGTGAAGATGGAGCATAGCC 59.858 52.381 0.00 0.00 0.00 3.93
3152 3225 2.216898 GTGGTGAAGATGGAGCATAGC 58.783 52.381 0.00 0.00 0.00 2.97
3153 3226 3.201290 GTGTGGTGAAGATGGAGCATAG 58.799 50.000 0.00 0.00 0.00 2.23
3154 3227 3.266510 GTGTGGTGAAGATGGAGCATA 57.733 47.619 0.00 0.00 0.00 3.14
3155 3228 2.119801 GTGTGGTGAAGATGGAGCAT 57.880 50.000 0.00 0.00 0.00 3.79
3156 3229 3.631453 GTGTGGTGAAGATGGAGCA 57.369 52.632 0.00 0.00 0.00 4.26


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

AutoCloner maintained by Alex Coulton.