Multiple sequence alignment - TraesCS3B01G289000

Loading Multiple Alignment...

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 TraesCS3B01G289000 chr3B 100.000 3507 0 0 1 3507 463459416 463455910 0.000000e+00 6477
1 TraesCS3B01G289000 chr3B 98.031 2641 20 6 868 3507 455509367 455511976 0.000000e+00 4560
2 TraesCS3B01G289000 chr1D 96.215 2061 41 9 801 2834 198167038 198169088 0.000000e+00 3339
3 TraesCS3B01G289000 chr1D 97.917 672 11 3 2837 3507 198169132 198169801 0.000000e+00 1160
4 TraesCS3B01G289000 chr1D 90.385 260 6 5 2 246 198164965 198165220 1.210000e-84 324
5 TraesCS3B01G289000 chr1D 93.548 93 4 2 237 327 198165545 198165637 1.700000e-28 137
6 TraesCS3B01G289000 chr7A 94.889 1311 25 8 800 2078 471814681 471813381 0.000000e+00 2012
7 TraesCS3B01G289000 chr7A 95.989 723 11 4 2117 2834 471813390 471812681 0.000000e+00 1158
8 TraesCS3B01G289000 chr7A 93.592 671 13 11 2837 3507 471812637 471811997 0.000000e+00 974
9 TraesCS3B01G289000 chr7A 92.179 179 2 3 248 423 471815043 471814874 3.500000e-60 243
10 TraesCS3B01G289000 chr7A 94.156 154 3 4 2 155 471816013 471815866 2.720000e-56 230
11 TraesCS3B01G289000 chr6B 80.366 1747 252 52 1041 2720 652522678 652520956 0.000000e+00 1242
12 TraesCS3B01G289000 chr6B 96.748 369 10 2 436 802 687997319 687996951 6.430000e-172 614
13 TraesCS3B01G289000 chr6B 96.467 368 11 2 436 801 687973207 687972840 1.080000e-169 606
14 TraesCS3B01G289000 chr6A 79.737 1747 256 49 975 2668 578701728 578700027 0.000000e+00 1175
15 TraesCS3B01G289000 chr6A 78.630 1708 274 51 1000 2637 578926006 578927692 0.000000e+00 1048
16 TraesCS3B01G289000 chr6D 79.677 1609 237 46 1117 2668 432672610 432671035 0.000000e+00 1077
17 TraesCS3B01G289000 chr6D 77.975 1857 277 69 1000 2788 432810541 432812333 0.000000e+00 1042
18 TraesCS3B01G289000 chr5A 97.554 368 7 2 436 801 459339179 459338812 2.300000e-176 628
19 TraesCS3B01G289000 chr1B 96.774 372 10 2 434 803 667364603 667364232 1.380000e-173 619
20 TraesCS3B01G289000 chr1A 89.873 316 9 7 458 771 366545221 366544927 5.490000e-103 385
21 TraesCS3B01G289000 chr2B 76.080 602 119 16 1195 1785 775770877 775770290 1.230000e-74 291
22 TraesCS3B01G289000 chr2B 78.632 351 72 3 1195 1543 775741666 775741317 2.720000e-56 230
23 TraesCS3B01G289000 chr3D 80.357 336 56 7 1216 1543 57392793 57392460 2.700000e-61 246
24 TraesCS3B01G289000 chr3D 78.947 342 57 6 1205 1544 57175307 57175635 5.890000e-53 219
25 TraesCS3B01G289000 chr7B 79.225 284 57 2 1995 2277 12953014 12953296 2.760000e-46 196


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 TraesCS3B01G289000 chr3B 463455910 463459416 3506 True 6477.0 6477 100.00000 1 3507 1 chr3B.!!$R1 3506
1 TraesCS3B01G289000 chr3B 455509367 455511976 2609 False 4560.0 4560 98.03100 868 3507 1 chr3B.!!$F1 2639
2 TraesCS3B01G289000 chr1D 198164965 198169801 4836 False 1240.0 3339 94.51625 2 3507 4 chr1D.!!$F1 3505
3 TraesCS3B01G289000 chr7A 471811997 471816013 4016 True 923.4 2012 94.16100 2 3507 5 chr7A.!!$R1 3505
4 TraesCS3B01G289000 chr6B 652520956 652522678 1722 True 1242.0 1242 80.36600 1041 2720 1 chr6B.!!$R1 1679
5 TraesCS3B01G289000 chr6A 578700027 578701728 1701 True 1175.0 1175 79.73700 975 2668 1 chr6A.!!$R1 1693
6 TraesCS3B01G289000 chr6A 578926006 578927692 1686 False 1048.0 1048 78.63000 1000 2637 1 chr6A.!!$F1 1637
7 TraesCS3B01G289000 chr6D 432671035 432672610 1575 True 1077.0 1077 79.67700 1117 2668 1 chr6D.!!$R1 1551
8 TraesCS3B01G289000 chr6D 432810541 432812333 1792 False 1042.0 1042 77.97500 1000 2788 1 chr6D.!!$F1 1788
9 TraesCS3B01G289000 chr2B 775770290 775770877 587 True 291.0 291 76.08000 1195 1785 1 chr2B.!!$R2 590

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
628 2963 0.034198 GGCCGAAGCTAGGAGATTCC 59.966 60.0 11.92 0.07 37.33 3.01 F
713 3048 0.038159 CAGCCGGTGTATAGCTAGCC 60.038 60.0 12.13 0.00 34.38 3.93 F
788 3123 0.039437 CCGGCTATCGACGCTGTTAT 60.039 55.0 14.21 0.00 41.42 1.89 F
1952 4383 0.629596 ATGGACTGGTCGGGACTAGA 59.370 55.0 17.57 0.00 41.75 2.43 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1620 4001 1.128188 AGAGGAACCAGACCACCACC 61.128 60.000 0.00 0.00 0.00 4.61 R
1684 4071 3.195825 ACATAAAGACCTCGGTGGAGAAG 59.804 47.826 2.59 0.00 43.27 2.85 R
2331 4822 4.370364 AAACATACATCCATTCGTTGCC 57.630 40.909 0.00 0.00 0.00 4.52 R
2835 5352 3.531538 TGCTGGTAATTACTACTGCTGC 58.468 45.455 15.05 12.79 33.86 5.25 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
80 81 7.224362 TGACTTGTGCAAAAATAAAATGACCTG 59.776 33.333 0.00 0.00 0.00 4.00
105 106 9.806203 TGAATGAATATTCACACATCATTTTCC 57.194 29.630 20.19 3.68 45.77 3.13
246 954 2.132762 GACAATGGATACGCCTAACCG 58.867 52.381 0.00 0.00 42.51 4.44
428 2763 2.701951 TCGTCAGGTTGTTCCCTACTTT 59.298 45.455 0.00 0.00 36.75 2.66
436 2771 6.595716 CAGGTTGTTCCCTACTTTCTCATAAG 59.404 42.308 0.00 0.00 36.75 1.73
438 2773 6.819146 GGTTGTTCCCTACTTTCTCATAAGAG 59.181 42.308 0.00 0.00 43.48 2.85
439 2774 5.978814 TGTTCCCTACTTTCTCATAAGAGC 58.021 41.667 0.00 0.00 41.81 4.09
441 2776 6.156949 TGTTCCCTACTTTCTCATAAGAGCAT 59.843 38.462 0.00 0.00 41.81 3.79
443 2778 5.663106 TCCCTACTTTCTCATAAGAGCATGT 59.337 40.000 0.00 0.00 41.81 3.21
444 2779 6.839134 TCCCTACTTTCTCATAAGAGCATGTA 59.161 38.462 0.00 0.00 41.81 2.29
446 2781 8.807118 CCCTACTTTCTCATAAGAGCATGTATA 58.193 37.037 0.00 0.00 41.81 1.47
452 2787 9.658799 TTTCTCATAAGAGCATGTATATAAGGC 57.341 33.333 0.00 0.00 41.81 4.35
453 2788 8.601047 TCTCATAAGAGCATGTATATAAGGCT 57.399 34.615 0.00 4.28 41.81 4.58
454 2789 9.040259 TCTCATAAGAGCATGTATATAAGGCTT 57.960 33.333 4.58 4.58 41.81 4.35
459 2794 7.782897 AGAGCATGTATATAAGGCTTACTCA 57.217 36.000 9.55 6.99 34.44 3.41
460 2795 7.835822 AGAGCATGTATATAAGGCTTACTCAG 58.164 38.462 9.55 0.00 34.44 3.35
473 2808 4.533919 CTTACTCAGCAGGCTATAGCAT 57.466 45.455 25.53 17.00 44.36 3.79
474 2809 4.892433 CTTACTCAGCAGGCTATAGCATT 58.108 43.478 25.53 10.84 44.36 3.56
475 2810 3.853355 ACTCAGCAGGCTATAGCATTT 57.147 42.857 25.53 7.17 44.36 2.32
476 2811 3.474600 ACTCAGCAGGCTATAGCATTTG 58.525 45.455 25.53 19.54 44.36 2.32
477 2812 2.224606 TCAGCAGGCTATAGCATTTGC 58.775 47.619 27.23 27.23 44.36 3.68
478 2813 1.268899 CAGCAGGCTATAGCATTTGCC 59.731 52.381 29.13 14.76 41.82 4.52
482 2817 1.613836 GGCTATAGCATTTGCCAGCT 58.386 50.000 25.53 0.00 44.34 4.24
483 2818 1.538950 GGCTATAGCATTTGCCAGCTC 59.461 52.381 25.53 0.43 44.34 4.09
484 2819 2.224606 GCTATAGCATTTGCCAGCTCA 58.775 47.619 20.01 0.00 42.05 4.26
485 2820 2.818432 GCTATAGCATTTGCCAGCTCAT 59.182 45.455 20.01 0.00 42.05 2.90
487 2822 1.683943 TAGCATTTGCCAGCTCATCC 58.316 50.000 0.00 0.00 42.05 3.51
489 2824 0.533491 GCATTTGCCAGCTCATCCAA 59.467 50.000 0.00 0.00 34.31 3.53
490 2825 1.066716 GCATTTGCCAGCTCATCCAAA 60.067 47.619 0.00 0.00 34.31 3.28
491 2826 2.419574 GCATTTGCCAGCTCATCCAAAT 60.420 45.455 0.00 0.00 38.14 2.32
492 2827 3.454375 CATTTGCCAGCTCATCCAAATC 58.546 45.455 7.18 0.00 36.17 2.17
493 2828 1.477553 TTGCCAGCTCATCCAAATCC 58.522 50.000 0.00 0.00 0.00 3.01
495 2830 1.845791 TGCCAGCTCATCCAAATCCTA 59.154 47.619 0.00 0.00 0.00 2.94
496 2831 2.225467 GCCAGCTCATCCAAATCCTAC 58.775 52.381 0.00 0.00 0.00 3.18
499 2834 3.819337 CCAGCTCATCCAAATCCTACATG 59.181 47.826 0.00 0.00 0.00 3.21
500 2835 3.819337 CAGCTCATCCAAATCCTACATGG 59.181 47.826 0.00 0.00 35.49 3.66
501 2836 2.555757 GCTCATCCAAATCCTACATGGC 59.444 50.000 0.00 0.00 34.13 4.40
503 2838 3.819337 CTCATCCAAATCCTACATGGCAG 59.181 47.826 0.00 0.00 34.13 4.85
506 2841 3.114606 TCCAAATCCTACATGGCAGAGA 58.885 45.455 0.00 0.00 34.13 3.10
507 2842 3.135348 TCCAAATCCTACATGGCAGAGAG 59.865 47.826 0.00 0.00 34.13 3.20
508 2843 3.135348 CCAAATCCTACATGGCAGAGAGA 59.865 47.826 0.00 0.00 35.26 3.10
509 2844 4.378774 CAAATCCTACATGGCAGAGAGAG 58.621 47.826 0.00 0.00 35.26 3.20
511 2846 3.388552 TCCTACATGGCAGAGAGAGAA 57.611 47.619 0.00 0.00 35.26 2.87
513 2848 3.703556 TCCTACATGGCAGAGAGAGAAAG 59.296 47.826 0.00 0.00 35.26 2.62
514 2849 2.399916 ACATGGCAGAGAGAGAAAGC 57.600 50.000 0.00 0.00 0.00 3.51
516 2851 2.281517 CATGGCAGAGAGAGAAAGCAG 58.718 52.381 0.00 0.00 0.00 4.24
517 2852 0.612229 TGGCAGAGAGAGAAAGCAGG 59.388 55.000 0.00 0.00 0.00 4.85
518 2853 0.901124 GGCAGAGAGAGAAAGCAGGA 59.099 55.000 0.00 0.00 0.00 3.86
519 2854 1.277557 GGCAGAGAGAGAAAGCAGGAA 59.722 52.381 0.00 0.00 0.00 3.36
520 2855 2.289945 GGCAGAGAGAGAAAGCAGGAAA 60.290 50.000 0.00 0.00 0.00 3.13
521 2856 3.002102 GCAGAGAGAGAAAGCAGGAAAG 58.998 50.000 0.00 0.00 0.00 2.62
522 2857 3.306641 GCAGAGAGAGAAAGCAGGAAAGA 60.307 47.826 0.00 0.00 0.00 2.52
523 2858 4.497300 CAGAGAGAGAAAGCAGGAAAGAG 58.503 47.826 0.00 0.00 0.00 2.85
524 2859 4.220382 CAGAGAGAGAAAGCAGGAAAGAGA 59.780 45.833 0.00 0.00 0.00 3.10
525 2860 4.837860 AGAGAGAGAAAGCAGGAAAGAGAA 59.162 41.667 0.00 0.00 0.00 2.87
528 2863 4.587891 AGAGAAAGCAGGAAAGAGAATGG 58.412 43.478 0.00 0.00 0.00 3.16
529 2864 4.288105 AGAGAAAGCAGGAAAGAGAATGGA 59.712 41.667 0.00 0.00 0.00 3.41
530 2865 4.587891 AGAAAGCAGGAAAGAGAATGGAG 58.412 43.478 0.00 0.00 0.00 3.86
531 2866 2.416680 AGCAGGAAAGAGAATGGAGC 57.583 50.000 0.00 0.00 0.00 4.70
532 2867 1.012841 GCAGGAAAGAGAATGGAGCG 58.987 55.000 0.00 0.00 0.00 5.03
533 2868 1.661341 CAGGAAAGAGAATGGAGCGG 58.339 55.000 0.00 0.00 0.00 5.52
535 2870 0.107459 GGAAAGAGAATGGAGCGGCT 60.107 55.000 0.00 0.00 0.00 5.52
536 2871 1.294857 GAAAGAGAATGGAGCGGCTC 58.705 55.000 21.57 21.57 0.00 4.70
537 2872 0.908198 AAAGAGAATGGAGCGGCTCT 59.092 50.000 27.47 9.94 39.27 4.09
545 2880 3.768922 GAGCGGCTCTCCTGCAGT 61.769 66.667 22.32 0.00 35.77 4.40
546 2881 3.714871 GAGCGGCTCTCCTGCAGTC 62.715 68.421 22.32 0.00 35.77 3.51
549 2884 4.828925 GGCTCTCCTGCAGTCGCC 62.829 72.222 13.81 14.13 37.32 5.54
567 2902 2.180769 CGGCTGTAGCACGCAGTA 59.819 61.111 6.18 0.00 41.61 2.74
568 2903 2.158959 CGGCTGTAGCACGCAGTAC 61.159 63.158 6.18 0.00 41.61 2.73
569 2904 2.158959 GGCTGTAGCACGCAGTACG 61.159 63.158 6.18 0.00 41.61 3.67
570 2905 2.537792 GGCTGTAGCACGCAGTACGA 62.538 60.000 6.18 0.00 41.61 3.43
579 2914 4.085302 GCAGTACGAGCAGAGCAG 57.915 61.111 8.24 0.00 0.00 4.24
580 2915 2.164026 GCAGTACGAGCAGAGCAGC 61.164 63.158 8.24 0.00 0.00 5.25
581 2916 1.518133 CAGTACGAGCAGAGCAGCC 60.518 63.158 0.00 0.00 34.23 4.85
582 2917 2.580867 GTACGAGCAGAGCAGCCG 60.581 66.667 0.00 0.00 35.37 5.52
583 2918 3.826754 TACGAGCAGAGCAGCCGG 61.827 66.667 0.00 0.00 34.16 6.13
598 2933 3.730761 CGGCTTGCAGCTCACACC 61.731 66.667 7.85 0.00 41.99 4.16
599 2934 3.730761 GGCTTGCAGCTCACACCG 61.731 66.667 7.85 0.00 41.99 4.94
601 2936 2.667536 CTTGCAGCTCACACCGCT 60.668 61.111 0.00 0.00 38.49 5.52
608 2943 4.435436 CTCACACCGCTGGCGCTA 62.435 66.667 7.64 0.00 38.24 4.26
609 2944 4.435436 TCACACCGCTGGCGCTAG 62.435 66.667 17.52 17.52 38.24 3.42
620 2955 2.355244 GCGCTAGGCCGAAGCTAG 60.355 66.667 24.86 14.73 37.85 3.42
621 2956 2.336809 CGCTAGGCCGAAGCTAGG 59.663 66.667 24.86 10.64 37.85 3.02
622 2957 2.194212 CGCTAGGCCGAAGCTAGGA 61.194 63.158 24.86 0.00 37.85 2.94
623 2958 1.663173 GCTAGGCCGAAGCTAGGAG 59.337 63.158 21.83 2.38 39.73 3.69
624 2959 0.824182 GCTAGGCCGAAGCTAGGAGA 60.824 60.000 21.83 0.00 39.73 3.71
625 2960 1.917872 CTAGGCCGAAGCTAGGAGAT 58.082 55.000 11.92 0.13 39.73 2.75
626 2961 2.243810 CTAGGCCGAAGCTAGGAGATT 58.756 52.381 11.92 0.00 39.73 2.40
627 2962 1.044611 AGGCCGAAGCTAGGAGATTC 58.955 55.000 11.92 0.00 37.28 2.52
628 2963 0.034198 GGCCGAAGCTAGGAGATTCC 59.966 60.000 11.92 0.07 37.33 3.01
629 2964 0.753262 GCCGAAGCTAGGAGATTCCA 59.247 55.000 11.92 0.00 37.33 3.53
630 2965 1.539280 GCCGAAGCTAGGAGATTCCAC 60.539 57.143 11.92 0.00 37.33 4.02
631 2966 1.069358 CCGAAGCTAGGAGATTCCACC 59.931 57.143 2.13 0.00 37.33 4.61
632 2967 1.069358 CGAAGCTAGGAGATTCCACCC 59.931 57.143 0.00 0.00 37.33 4.61
633 2968 2.119495 GAAGCTAGGAGATTCCACCCA 58.881 52.381 0.00 0.00 39.61 4.51
634 2969 2.270434 AGCTAGGAGATTCCACCCAA 57.730 50.000 0.00 0.00 39.61 4.12
635 2970 2.781667 AGCTAGGAGATTCCACCCAAT 58.218 47.619 0.00 0.00 39.61 3.16
636 2971 2.708325 AGCTAGGAGATTCCACCCAATC 59.292 50.000 0.00 0.00 39.61 2.67
637 2972 2.548920 GCTAGGAGATTCCACCCAATCG 60.549 54.545 0.00 0.00 39.61 3.34
638 2973 1.584724 AGGAGATTCCACCCAATCGT 58.415 50.000 0.00 0.00 39.61 3.73
639 2974 1.210478 AGGAGATTCCACCCAATCGTG 59.790 52.381 0.00 0.00 39.61 4.35
640 2975 1.065418 GGAGATTCCACCCAATCGTGT 60.065 52.381 0.00 0.00 37.77 4.49
641 2976 2.618045 GGAGATTCCACCCAATCGTGTT 60.618 50.000 0.00 0.00 37.77 3.32
642 2977 3.081804 GAGATTCCACCCAATCGTGTTT 58.918 45.455 0.00 0.00 37.77 2.83
643 2978 4.258543 GAGATTCCACCCAATCGTGTTTA 58.741 43.478 0.00 0.00 37.77 2.01
644 2979 4.855340 AGATTCCACCCAATCGTGTTTAT 58.145 39.130 0.00 0.00 37.77 1.40
645 2980 5.996644 AGATTCCACCCAATCGTGTTTATA 58.003 37.500 0.00 0.00 37.77 0.98
646 2981 5.820947 AGATTCCACCCAATCGTGTTTATAC 59.179 40.000 0.00 0.00 37.77 1.47
647 2982 3.876341 TCCACCCAATCGTGTTTATACC 58.124 45.455 0.00 0.00 31.47 2.73
648 2983 2.946990 CCACCCAATCGTGTTTATACCC 59.053 50.000 0.00 0.00 31.47 3.69
649 2984 3.611970 CACCCAATCGTGTTTATACCCA 58.388 45.455 0.00 0.00 0.00 4.51
650 2985 3.625764 CACCCAATCGTGTTTATACCCAG 59.374 47.826 0.00 0.00 0.00 4.45
651 2986 2.616842 CCCAATCGTGTTTATACCCAGC 59.383 50.000 0.00 0.00 0.00 4.85
652 2987 3.541632 CCAATCGTGTTTATACCCAGCT 58.458 45.455 0.00 0.00 0.00 4.24
653 2988 3.945285 CCAATCGTGTTTATACCCAGCTT 59.055 43.478 0.00 0.00 0.00 3.74
654 2989 5.120399 CCAATCGTGTTTATACCCAGCTTA 58.880 41.667 0.00 0.00 0.00 3.09
655 2990 5.587043 CCAATCGTGTTTATACCCAGCTTAA 59.413 40.000 0.00 0.00 0.00 1.85
656 2991 6.094325 CCAATCGTGTTTATACCCAGCTTAAA 59.906 38.462 0.00 0.00 0.00 1.52
657 2992 6.920569 ATCGTGTTTATACCCAGCTTAAAG 57.079 37.500 0.00 0.00 0.00 1.85
658 2993 6.040209 TCGTGTTTATACCCAGCTTAAAGA 57.960 37.500 0.00 0.00 0.00 2.52
659 2994 6.465948 TCGTGTTTATACCCAGCTTAAAGAA 58.534 36.000 0.00 0.00 0.00 2.52
660 2995 6.369615 TCGTGTTTATACCCAGCTTAAAGAAC 59.630 38.462 0.00 0.00 0.00 3.01
661 2996 6.370718 CGTGTTTATACCCAGCTTAAAGAACT 59.629 38.462 0.00 0.00 0.00 3.01
662 2997 7.546667 CGTGTTTATACCCAGCTTAAAGAACTA 59.453 37.037 0.00 0.00 0.00 2.24
663 2998 9.223099 GTGTTTATACCCAGCTTAAAGAACTAA 57.777 33.333 0.00 0.00 0.00 2.24
664 2999 9.969001 TGTTTATACCCAGCTTAAAGAACTAAT 57.031 29.630 0.00 0.00 0.00 1.73
696 3031 5.240713 CTTTAATGAAGCCCACTTAGCAG 57.759 43.478 0.00 0.00 35.82 4.24
697 3032 1.467920 AATGAAGCCCACTTAGCAGC 58.532 50.000 0.00 0.00 35.82 5.25
698 3033 0.394899 ATGAAGCCCACTTAGCAGCC 60.395 55.000 0.00 0.00 35.82 4.85
699 3034 2.045926 AAGCCCACTTAGCAGCCG 60.046 61.111 0.00 0.00 33.13 5.52
700 3035 3.628646 AAGCCCACTTAGCAGCCGG 62.629 63.158 0.00 0.00 33.13 6.13
701 3036 4.410400 GCCCACTTAGCAGCCGGT 62.410 66.667 1.90 0.00 0.00 5.28
702 3037 2.436646 CCCACTTAGCAGCCGGTG 60.437 66.667 1.90 0.89 0.00 4.94
703 3038 2.347490 CCACTTAGCAGCCGGTGT 59.653 61.111 1.90 0.00 0.00 4.16
704 3039 1.594833 CCACTTAGCAGCCGGTGTA 59.405 57.895 1.90 0.00 0.00 2.90
705 3040 0.178068 CCACTTAGCAGCCGGTGTAT 59.822 55.000 1.90 0.00 0.00 2.29
706 3041 1.411246 CCACTTAGCAGCCGGTGTATA 59.589 52.381 1.90 0.00 0.00 1.47
707 3042 2.545952 CCACTTAGCAGCCGGTGTATAG 60.546 54.545 1.90 0.00 0.00 1.31
708 3043 1.068741 ACTTAGCAGCCGGTGTATAGC 59.931 52.381 1.90 0.00 0.00 2.97
709 3044 1.341531 CTTAGCAGCCGGTGTATAGCT 59.658 52.381 1.90 6.50 37.32 3.32
710 3045 2.281539 TAGCAGCCGGTGTATAGCTA 57.718 50.000 1.90 0.00 34.38 3.32
711 3046 0.962489 AGCAGCCGGTGTATAGCTAG 59.038 55.000 1.90 0.00 34.38 3.42
712 3047 0.667792 GCAGCCGGTGTATAGCTAGC 60.668 60.000 6.62 6.62 34.38 3.42
713 3048 0.038159 CAGCCGGTGTATAGCTAGCC 60.038 60.000 12.13 0.00 34.38 3.93
714 3049 0.178958 AGCCGGTGTATAGCTAGCCT 60.179 55.000 12.13 1.34 34.38 4.58
715 3050 1.075050 AGCCGGTGTATAGCTAGCCTA 59.925 52.381 12.13 3.68 34.38 3.93
716 3051 2.100989 GCCGGTGTATAGCTAGCCTAT 58.899 52.381 12.13 10.97 39.95 2.57
717 3052 2.496470 GCCGGTGTATAGCTAGCCTATT 59.504 50.000 12.13 0.00 37.84 1.73
718 3053 3.698040 GCCGGTGTATAGCTAGCCTATTA 59.302 47.826 12.13 0.00 37.84 0.98
719 3054 4.341520 GCCGGTGTATAGCTAGCCTATTAT 59.658 45.833 12.13 5.27 37.84 1.28
720 3055 5.533903 GCCGGTGTATAGCTAGCCTATTATA 59.466 44.000 12.13 4.23 37.84 0.98
721 3056 6.208994 GCCGGTGTATAGCTAGCCTATTATAT 59.791 42.308 12.13 4.12 37.84 0.86
722 3057 7.594714 CCGGTGTATAGCTAGCCTATTATATG 58.405 42.308 12.13 0.00 37.84 1.78
723 3058 7.309255 CCGGTGTATAGCTAGCCTATTATATGG 60.309 44.444 12.13 0.49 37.84 2.74
729 3064 3.095922 GCCTATTATATGGCCCGGC 57.904 57.895 0.00 0.00 43.11 6.13
730 3065 0.546598 GCCTATTATATGGCCCGGCT 59.453 55.000 9.86 0.00 43.11 5.52
731 3066 1.064685 GCCTATTATATGGCCCGGCTT 60.065 52.381 9.86 0.00 43.11 4.35
732 3067 2.620627 GCCTATTATATGGCCCGGCTTT 60.621 50.000 9.86 0.00 43.11 3.51
733 3068 3.371166 GCCTATTATATGGCCCGGCTTTA 60.371 47.826 9.86 1.80 43.11 1.85
734 3069 4.850680 CCTATTATATGGCCCGGCTTTAA 58.149 43.478 9.86 3.22 0.00 1.52
735 3070 4.881850 CCTATTATATGGCCCGGCTTTAAG 59.118 45.833 9.86 0.00 0.00 1.85
736 3071 2.194201 TATATGGCCCGGCTTTAAGC 57.806 50.000 9.86 8.66 41.46 3.09
737 3072 0.478507 ATATGGCCCGGCTTTAAGCT 59.521 50.000 16.89 0.00 41.99 3.74
738 3073 0.465460 TATGGCCCGGCTTTAAGCTG 60.465 55.000 18.09 18.09 46.95 4.24
743 3078 4.625800 CGGCTTTAAGCTGGCTCT 57.374 55.556 17.34 0.00 43.75 4.09
744 3079 2.859992 CGGCTTTAAGCTGGCTCTT 58.140 52.632 17.34 0.00 43.75 2.85
745 3080 1.168714 CGGCTTTAAGCTGGCTCTTT 58.831 50.000 17.34 0.00 43.75 2.52
746 3081 1.135575 CGGCTTTAAGCTGGCTCTTTG 60.136 52.381 17.34 0.00 43.75 2.77
747 3082 2.162681 GGCTTTAAGCTGGCTCTTTGA 58.837 47.619 16.89 0.00 41.99 2.69
748 3083 2.757314 GGCTTTAAGCTGGCTCTTTGAT 59.243 45.455 16.89 0.00 41.99 2.57
749 3084 3.428589 GGCTTTAAGCTGGCTCTTTGATG 60.429 47.826 16.89 0.00 41.99 3.07
750 3085 3.441572 GCTTTAAGCTGGCTCTTTGATGA 59.558 43.478 10.01 0.00 38.45 2.92
751 3086 4.097589 GCTTTAAGCTGGCTCTTTGATGAT 59.902 41.667 10.01 0.00 38.45 2.45
752 3087 5.297776 GCTTTAAGCTGGCTCTTTGATGATA 59.702 40.000 10.01 0.00 38.45 2.15
753 3088 6.016443 GCTTTAAGCTGGCTCTTTGATGATAT 60.016 38.462 10.01 0.00 38.45 1.63
754 3089 6.872628 TTAAGCTGGCTCTTTGATGATATG 57.127 37.500 0.00 0.00 0.00 1.78
755 3090 3.752665 AGCTGGCTCTTTGATGATATGG 58.247 45.455 0.00 0.00 0.00 2.74
756 3091 2.228343 GCTGGCTCTTTGATGATATGGC 59.772 50.000 0.00 0.00 0.00 4.40
757 3092 3.483421 CTGGCTCTTTGATGATATGGCA 58.517 45.455 0.00 0.00 0.00 4.92
758 3093 3.216800 TGGCTCTTTGATGATATGGCAC 58.783 45.455 0.00 0.00 0.00 5.01
778 3113 3.938112 GCTTACAGCCGGCTATCG 58.062 61.111 32.30 20.37 34.48 2.92
779 3114 1.362717 GCTTACAGCCGGCTATCGA 59.637 57.895 32.30 14.53 42.43 3.59
780 3115 0.940047 GCTTACAGCCGGCTATCGAC 60.940 60.000 32.30 15.54 42.43 4.20
781 3116 0.660595 CTTACAGCCGGCTATCGACG 60.661 60.000 32.30 18.69 42.75 5.12
782 3117 2.672908 TTACAGCCGGCTATCGACGC 62.673 60.000 32.30 0.00 41.42 5.19
783 3118 4.271816 CAGCCGGCTATCGACGCT 62.272 66.667 32.30 0.00 41.42 5.07
784 3119 4.271816 AGCCGGCTATCGACGCTG 62.272 66.667 31.86 9.74 41.42 5.18
785 3120 4.570663 GCCGGCTATCGACGCTGT 62.571 66.667 22.15 0.00 41.42 4.40
786 3121 2.104331 CCGGCTATCGACGCTGTT 59.896 61.111 14.21 0.00 41.42 3.16
787 3122 1.357690 CCGGCTATCGACGCTGTTA 59.642 57.895 14.21 0.00 41.42 2.41
788 3123 0.039437 CCGGCTATCGACGCTGTTAT 60.039 55.000 14.21 0.00 41.42 1.89
789 3124 1.602165 CCGGCTATCGACGCTGTTATT 60.602 52.381 14.21 0.00 41.42 1.40
790 3125 2.351060 CCGGCTATCGACGCTGTTATTA 60.351 50.000 14.21 0.00 41.42 0.98
791 3126 3.499048 CGGCTATCGACGCTGTTATTAT 58.501 45.455 8.75 0.00 42.43 1.28
792 3127 3.542704 CGGCTATCGACGCTGTTATTATC 59.457 47.826 8.75 0.00 42.43 1.75
793 3128 3.858238 GGCTATCGACGCTGTTATTATCC 59.142 47.826 8.25 0.00 0.00 2.59
794 3129 4.380655 GGCTATCGACGCTGTTATTATCCT 60.381 45.833 8.25 0.00 0.00 3.24
795 3130 5.162075 GCTATCGACGCTGTTATTATCCTT 58.838 41.667 0.00 0.00 0.00 3.36
796 3131 5.061064 GCTATCGACGCTGTTATTATCCTTG 59.939 44.000 0.00 0.00 0.00 3.61
797 3132 3.120792 TCGACGCTGTTATTATCCTTGC 58.879 45.455 0.00 0.00 0.00 4.01
798 3133 3.123804 CGACGCTGTTATTATCCTTGCT 58.876 45.455 0.00 0.00 0.00 3.91
806 3141 7.386299 CGCTGTTATTATCCTTGCTCTAAATCT 59.614 37.037 0.00 0.00 0.00 2.40
1620 4001 4.812476 TCGGCGACCTCCATTGCG 62.812 66.667 4.99 0.00 0.00 4.85
1684 4071 1.452108 CCGGGTTCAGATTGGGAGC 60.452 63.158 0.00 0.00 0.00 4.70
1947 4378 1.381327 GGAGATGGACTGGTCGGGA 60.381 63.158 0.00 0.00 0.00 5.14
1952 4383 0.629596 ATGGACTGGTCGGGACTAGA 59.370 55.000 17.57 0.00 41.75 2.43
2331 4822 1.136891 TGCACCTCATCAGTATCCACG 59.863 52.381 0.00 0.00 0.00 4.94
2336 4827 2.205074 CTCATCAGTATCCACGGCAAC 58.795 52.381 0.00 0.00 0.00 4.17
2835 5352 7.609532 AGAACCAATTTCTTATCCACTTCTGAG 59.390 37.037 0.00 0.00 42.37 3.35
2945 5503 4.309099 GCAGCATATGGAGAAGAAGAGAG 58.691 47.826 4.56 0.00 0.00 3.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.423539 TGCACATTGCTTCTTCCTACT 57.576 42.857 0.00 0.00 45.31 2.57
205 223 9.653287 ATTGTCGAATGTCTCATTTCTTAGTTA 57.347 29.630 0.00 0.00 0.00 2.24
217 235 3.182572 GCGTATCCATTGTCGAATGTCTC 59.817 47.826 0.00 0.00 37.82 3.36
246 954 2.089349 GTGACGCCTTCGAGCTCAC 61.089 63.158 15.40 10.89 39.41 3.51
377 2712 3.486383 GTGTTGGGTGAGAAGATGGAAA 58.514 45.455 0.00 0.00 0.00 3.13
405 2740 1.891150 GTAGGGAACAACCTGACGAGA 59.109 52.381 0.00 0.00 42.02 4.04
428 2763 8.601047 AGCCTTATATACATGCTCTTATGAGA 57.399 34.615 9.72 0.00 42.73 3.27
446 2781 8.251671 GCTATAGCCTGCTGAGTAAGCCTTAT 62.252 46.154 14.13 0.00 42.76 1.73
448 2783 6.310910 GCTATAGCCTGCTGAGTAAGCCTT 62.311 50.000 14.13 0.00 42.76 4.35
449 2784 4.878285 GCTATAGCCTGCTGAGTAAGCCT 61.878 52.174 14.13 0.00 42.76 4.58
450 2785 2.611722 GCTATAGCCTGCTGAGTAAGCC 60.612 54.545 14.13 0.00 42.76 4.35
451 2786 2.036475 TGCTATAGCCTGCTGAGTAAGC 59.964 50.000 21.84 0.00 46.32 3.09
452 2787 4.533919 ATGCTATAGCCTGCTGAGTAAG 57.466 45.455 21.84 0.00 41.18 2.34
453 2788 4.963318 AATGCTATAGCCTGCTGAGTAA 57.037 40.909 21.84 0.00 41.18 2.24
454 2789 4.635223 CAAATGCTATAGCCTGCTGAGTA 58.365 43.478 21.84 0.00 41.18 2.59
455 2790 3.474600 CAAATGCTATAGCCTGCTGAGT 58.525 45.455 21.84 0.00 41.18 3.41
457 2792 2.224606 GCAAATGCTATAGCCTGCTGA 58.775 47.619 25.07 8.89 41.18 4.26
458 2793 1.268899 GGCAAATGCTATAGCCTGCTG 59.731 52.381 28.31 19.20 43.70 4.41
459 2794 1.613836 GGCAAATGCTATAGCCTGCT 58.386 50.000 28.31 10.33 43.70 4.24
464 2799 2.224606 TGAGCTGGCAAATGCTATAGC 58.775 47.619 18.18 18.18 39.91 2.97
465 2800 3.439476 GGATGAGCTGGCAAATGCTATAG 59.561 47.826 5.25 0.00 39.91 1.31
468 2803 1.064537 TGGATGAGCTGGCAAATGCTA 60.065 47.619 5.25 0.00 39.91 3.49
469 2804 0.323999 TGGATGAGCTGGCAAATGCT 60.324 50.000 5.25 0.00 42.82 3.79
470 2805 0.533491 TTGGATGAGCTGGCAAATGC 59.467 50.000 0.00 0.00 41.14 3.56
471 2806 3.454375 GATTTGGATGAGCTGGCAAATG 58.546 45.455 0.00 0.00 0.00 2.32
472 2807 2.433239 GGATTTGGATGAGCTGGCAAAT 59.567 45.455 0.00 0.00 0.00 2.32
473 2808 1.826720 GGATTTGGATGAGCTGGCAAA 59.173 47.619 0.00 0.00 0.00 3.68
474 2809 1.006281 AGGATTTGGATGAGCTGGCAA 59.994 47.619 0.00 0.00 0.00 4.52
475 2810 0.627451 AGGATTTGGATGAGCTGGCA 59.373 50.000 0.00 0.00 0.00 4.92
476 2811 2.225467 GTAGGATTTGGATGAGCTGGC 58.775 52.381 0.00 0.00 0.00 4.85
477 2812 3.565764 TGTAGGATTTGGATGAGCTGG 57.434 47.619 0.00 0.00 0.00 4.85
478 2813 3.819337 CCATGTAGGATTTGGATGAGCTG 59.181 47.826 0.00 0.00 41.22 4.24
480 2815 2.555757 GCCATGTAGGATTTGGATGAGC 59.444 50.000 0.00 0.00 41.22 4.26
481 2816 3.819337 CTGCCATGTAGGATTTGGATGAG 59.181 47.826 0.00 0.00 41.22 2.90
482 2817 3.459227 TCTGCCATGTAGGATTTGGATGA 59.541 43.478 0.00 0.00 41.22 2.92
483 2818 3.819337 CTCTGCCATGTAGGATTTGGATG 59.181 47.826 0.00 0.00 41.22 3.51
484 2819 3.718434 TCTCTGCCATGTAGGATTTGGAT 59.282 43.478 0.00 0.00 41.22 3.41
485 2820 3.114606 TCTCTGCCATGTAGGATTTGGA 58.885 45.455 0.00 0.00 41.22 3.53
487 2822 4.100653 TCTCTCTCTGCCATGTAGGATTTG 59.899 45.833 0.00 0.00 41.22 2.32
489 2824 3.921104 TCTCTCTCTGCCATGTAGGATT 58.079 45.455 0.00 0.00 41.22 3.01
490 2825 3.609256 TCTCTCTCTGCCATGTAGGAT 57.391 47.619 0.00 0.00 41.22 3.24
491 2826 3.388552 TTCTCTCTCTGCCATGTAGGA 57.611 47.619 0.00 0.00 41.22 2.94
492 2827 3.740764 GCTTTCTCTCTCTGCCATGTAGG 60.741 52.174 0.00 0.00 41.84 3.18
493 2828 3.118847 TGCTTTCTCTCTCTGCCATGTAG 60.119 47.826 0.00 0.00 0.00 2.74
495 2830 1.627329 TGCTTTCTCTCTCTGCCATGT 59.373 47.619 0.00 0.00 0.00 3.21
496 2831 2.281517 CTGCTTTCTCTCTCTGCCATG 58.718 52.381 0.00 0.00 0.00 3.66
499 2834 0.901124 TCCTGCTTTCTCTCTCTGCC 59.099 55.000 0.00 0.00 0.00 4.85
500 2835 2.758736 TTCCTGCTTTCTCTCTCTGC 57.241 50.000 0.00 0.00 0.00 4.26
501 2836 4.220382 TCTCTTTCCTGCTTTCTCTCTCTG 59.780 45.833 0.00 0.00 0.00 3.35
503 2838 4.799564 TCTCTTTCCTGCTTTCTCTCTC 57.200 45.455 0.00 0.00 0.00 3.20
506 2841 4.288105 TCCATTCTCTTTCCTGCTTTCTCT 59.712 41.667 0.00 0.00 0.00 3.10
507 2842 4.583871 TCCATTCTCTTTCCTGCTTTCTC 58.416 43.478 0.00 0.00 0.00 2.87
508 2843 4.587891 CTCCATTCTCTTTCCTGCTTTCT 58.412 43.478 0.00 0.00 0.00 2.52
509 2844 3.128415 GCTCCATTCTCTTTCCTGCTTTC 59.872 47.826 0.00 0.00 0.00 2.62
511 2846 2.720915 GCTCCATTCTCTTTCCTGCTT 58.279 47.619 0.00 0.00 0.00 3.91
513 2848 1.012841 CGCTCCATTCTCTTTCCTGC 58.987 55.000 0.00 0.00 0.00 4.85
514 2849 1.661341 CCGCTCCATTCTCTTTCCTG 58.339 55.000 0.00 0.00 0.00 3.86
516 2851 0.107459 AGCCGCTCCATTCTCTTTCC 60.107 55.000 0.00 0.00 0.00 3.13
517 2852 1.134551 AGAGCCGCTCCATTCTCTTTC 60.135 52.381 16.99 0.00 32.44 2.62
518 2853 0.908198 AGAGCCGCTCCATTCTCTTT 59.092 50.000 16.99 0.00 32.44 2.52
519 2854 0.463620 GAGAGCCGCTCCATTCTCTT 59.536 55.000 16.99 0.00 37.69 2.85
520 2855 2.123409 GAGAGCCGCTCCATTCTCT 58.877 57.895 16.99 0.00 37.69 3.10
521 2856 4.748409 GAGAGCCGCTCCATTCTC 57.252 61.111 16.99 3.85 37.69 2.87
528 2863 3.714871 GACTGCAGGAGAGCCGCTC 62.715 68.421 19.93 12.80 43.17 5.03
529 2864 3.768922 GACTGCAGGAGAGCCGCT 61.769 66.667 19.93 0.00 39.96 5.52
532 2867 4.828925 GGCGACTGCAGGAGAGCC 62.829 72.222 19.93 21.09 45.35 4.70
533 2868 4.828925 GGGCGACTGCAGGAGAGC 62.829 72.222 19.93 16.35 45.35 4.09
549 2884 3.350909 TACTGCGTGCTACAGCCGG 62.351 63.158 0.00 0.00 41.18 6.13
552 2887 1.134530 CTCGTACTGCGTGCTACAGC 61.135 60.000 0.00 0.00 42.13 4.40
559 2894 2.155194 GCTCTGCTCGTACTGCGTG 61.155 63.158 0.00 0.00 42.13 5.34
561 2896 1.871345 CTGCTCTGCTCGTACTGCG 60.871 63.158 0.00 0.00 43.01 5.18
564 2899 2.888863 GGCTGCTCTGCTCGTACT 59.111 61.111 0.00 0.00 0.00 2.73
565 2900 2.580867 CGGCTGCTCTGCTCGTAC 60.581 66.667 0.00 0.00 0.00 3.67
566 2901 3.826754 CCGGCTGCTCTGCTCGTA 61.827 66.667 0.00 0.00 0.00 3.43
584 2919 2.667536 AGCGGTGTGAGCTGCAAG 60.668 61.111 1.02 0.00 44.22 4.01
603 2938 2.355244 CTAGCTTCGGCCTAGCGC 60.355 66.667 17.80 0.00 43.37 5.92
605 2940 0.824182 TCTCCTAGCTTCGGCCTAGC 60.824 60.000 16.58 16.58 43.01 3.42
606 2941 1.917872 ATCTCCTAGCTTCGGCCTAG 58.082 55.000 0.00 0.00 43.01 3.02
607 2942 2.240279 GAATCTCCTAGCTTCGGCCTA 58.760 52.381 0.00 0.00 43.01 3.93
608 2943 1.044611 GAATCTCCTAGCTTCGGCCT 58.955 55.000 0.00 0.00 43.01 5.19
609 2944 0.034198 GGAATCTCCTAGCTTCGGCC 59.966 60.000 0.00 0.00 36.03 6.13
611 2946 1.069358 GGTGGAATCTCCTAGCTTCGG 59.931 57.143 0.00 0.00 37.46 4.30
612 2947 1.069358 GGGTGGAATCTCCTAGCTTCG 59.931 57.143 0.00 0.00 37.46 3.79
614 2949 2.270434 TGGGTGGAATCTCCTAGCTT 57.730 50.000 0.00 0.00 37.46 3.74
615 2950 2.270434 TTGGGTGGAATCTCCTAGCT 57.730 50.000 0.00 0.00 37.46 3.32
616 2951 2.548920 CGATTGGGTGGAATCTCCTAGC 60.549 54.545 0.00 0.00 37.46 3.42
617 2952 2.700897 ACGATTGGGTGGAATCTCCTAG 59.299 50.000 0.00 0.00 37.46 3.02
618 2953 2.434336 CACGATTGGGTGGAATCTCCTA 59.566 50.000 0.00 0.00 37.46 2.94
619 2954 1.210478 CACGATTGGGTGGAATCTCCT 59.790 52.381 0.00 0.00 37.46 3.69
620 2955 1.065418 ACACGATTGGGTGGAATCTCC 60.065 52.381 0.00 0.00 42.23 3.71
621 2956 2.403252 ACACGATTGGGTGGAATCTC 57.597 50.000 0.00 0.00 42.23 2.75
622 2957 2.879103 AACACGATTGGGTGGAATCT 57.121 45.000 0.00 0.00 42.23 2.40
623 2958 5.008316 GGTATAAACACGATTGGGTGGAATC 59.992 44.000 0.00 0.00 42.23 2.52
624 2959 4.885325 GGTATAAACACGATTGGGTGGAAT 59.115 41.667 0.00 0.00 42.23 3.01
625 2960 4.263435 GGTATAAACACGATTGGGTGGAA 58.737 43.478 0.00 0.00 42.23 3.53
626 2961 3.370739 GGGTATAAACACGATTGGGTGGA 60.371 47.826 0.00 0.00 42.23 4.02
627 2962 2.946990 GGGTATAAACACGATTGGGTGG 59.053 50.000 0.00 0.00 42.23 4.61
628 2963 3.611970 TGGGTATAAACACGATTGGGTG 58.388 45.455 0.00 0.00 43.54 4.61
629 2964 3.881220 CTGGGTATAAACACGATTGGGT 58.119 45.455 0.00 0.00 0.00 4.51
630 2965 2.616842 GCTGGGTATAAACACGATTGGG 59.383 50.000 0.00 0.00 0.00 4.12
631 2966 3.541632 AGCTGGGTATAAACACGATTGG 58.458 45.455 0.00 0.00 0.00 3.16
632 2967 6.671614 TTAAGCTGGGTATAAACACGATTG 57.328 37.500 0.00 0.00 0.00 2.67
633 2968 7.107542 TCTTTAAGCTGGGTATAAACACGATT 58.892 34.615 0.00 0.00 0.00 3.34
634 2969 6.646267 TCTTTAAGCTGGGTATAAACACGAT 58.354 36.000 0.00 0.00 0.00 3.73
635 2970 6.040209 TCTTTAAGCTGGGTATAAACACGA 57.960 37.500 0.00 0.00 0.00 4.35
636 2971 6.370718 AGTTCTTTAAGCTGGGTATAAACACG 59.629 38.462 0.00 0.00 0.00 4.49
637 2972 7.683437 AGTTCTTTAAGCTGGGTATAAACAC 57.317 36.000 0.00 0.00 0.00 3.32
638 2973 9.969001 ATTAGTTCTTTAAGCTGGGTATAAACA 57.031 29.630 0.00 0.00 0.00 2.83
674 3009 4.439289 GCTGCTAAGTGGGCTTCATTAAAG 60.439 45.833 0.00 0.00 36.22 1.85
675 3010 3.443681 GCTGCTAAGTGGGCTTCATTAAA 59.556 43.478 0.00 0.00 36.22 1.52
676 3011 3.016736 GCTGCTAAGTGGGCTTCATTAA 58.983 45.455 0.00 0.00 36.22 1.40
677 3012 2.643551 GCTGCTAAGTGGGCTTCATTA 58.356 47.619 0.00 0.00 36.22 1.90
678 3013 1.467920 GCTGCTAAGTGGGCTTCATT 58.532 50.000 0.00 0.00 36.22 2.57
679 3014 0.394899 GGCTGCTAAGTGGGCTTCAT 60.395 55.000 0.00 0.00 36.22 2.57
680 3015 1.002134 GGCTGCTAAGTGGGCTTCA 60.002 57.895 0.00 0.00 36.22 3.02
681 3016 2.109126 CGGCTGCTAAGTGGGCTTC 61.109 63.158 0.00 0.00 36.22 3.86
682 3017 2.045926 CGGCTGCTAAGTGGGCTT 60.046 61.111 0.00 0.00 38.66 4.35
683 3018 4.101448 CCGGCTGCTAAGTGGGCT 62.101 66.667 0.00 0.00 0.00 5.19
684 3019 4.410400 ACCGGCTGCTAAGTGGGC 62.410 66.667 0.00 0.00 0.00 5.36
685 3020 1.895020 TACACCGGCTGCTAAGTGGG 61.895 60.000 0.00 5.82 34.50 4.61
686 3021 0.178068 ATACACCGGCTGCTAAGTGG 59.822 55.000 0.00 7.65 34.50 4.00
687 3022 2.743938 CTATACACCGGCTGCTAAGTG 58.256 52.381 0.00 13.11 36.30 3.16
688 3023 1.068741 GCTATACACCGGCTGCTAAGT 59.931 52.381 0.00 0.00 0.00 2.24
689 3024 1.341531 AGCTATACACCGGCTGCTAAG 59.658 52.381 0.00 0.00 34.82 2.18
690 3025 1.410004 AGCTATACACCGGCTGCTAA 58.590 50.000 0.00 0.00 34.82 3.09
691 3026 2.160205 CTAGCTATACACCGGCTGCTA 58.840 52.381 0.00 5.95 37.50 3.49
692 3027 0.962489 CTAGCTATACACCGGCTGCT 59.038 55.000 0.00 4.99 37.50 4.24
693 3028 0.667792 GCTAGCTATACACCGGCTGC 60.668 60.000 7.70 0.00 37.50 5.25
694 3029 0.038159 GGCTAGCTATACACCGGCTG 60.038 60.000 15.72 1.20 37.50 4.85
695 3030 0.178958 AGGCTAGCTATACACCGGCT 60.179 55.000 15.72 0.00 39.74 5.52
696 3031 1.542492 TAGGCTAGCTATACACCGGC 58.458 55.000 15.72 0.00 0.00 6.13
697 3032 7.309255 CCATATAATAGGCTAGCTATACACCGG 60.309 44.444 15.72 0.00 0.00 5.28
698 3033 7.594714 CCATATAATAGGCTAGCTATACACCG 58.405 42.308 15.72 0.00 0.00 4.94
712 3047 3.366052 AAAGCCGGGCCATATAATAGG 57.634 47.619 17.02 0.00 0.00 2.57
713 3048 4.335594 GCTTAAAGCCGGGCCATATAATAG 59.664 45.833 17.02 4.77 34.48 1.73
714 3049 4.018779 AGCTTAAAGCCGGGCCATATAATA 60.019 41.667 17.02 0.00 43.77 0.98
715 3050 3.089284 GCTTAAAGCCGGGCCATATAAT 58.911 45.455 17.02 0.00 34.48 1.28
716 3051 2.107552 AGCTTAAAGCCGGGCCATATAA 59.892 45.455 17.02 9.04 43.77 0.98
717 3052 1.702957 AGCTTAAAGCCGGGCCATATA 59.297 47.619 17.02 0.77 43.77 0.86
718 3053 0.478507 AGCTTAAAGCCGGGCCATAT 59.521 50.000 17.02 1.83 43.77 1.78
719 3054 0.465460 CAGCTTAAAGCCGGGCCATA 60.465 55.000 17.02 6.32 43.77 2.74
720 3055 1.754234 CAGCTTAAAGCCGGGCCAT 60.754 57.895 17.02 7.45 43.77 4.40
721 3056 2.361104 CAGCTTAAAGCCGGGCCA 60.361 61.111 17.02 0.00 43.77 5.36
722 3057 3.140814 CCAGCTTAAAGCCGGGCC 61.141 66.667 17.02 0.00 43.77 5.80
724 3059 2.044946 AGCCAGCTTAAAGCCGGG 60.045 61.111 2.18 0.00 43.77 5.73
725 3060 0.678048 AAGAGCCAGCTTAAAGCCGG 60.678 55.000 0.00 0.00 43.77 6.13
726 3061 1.135575 CAAAGAGCCAGCTTAAAGCCG 60.136 52.381 0.00 0.00 43.77 5.52
727 3062 2.162681 TCAAAGAGCCAGCTTAAAGCC 58.837 47.619 0.00 0.00 43.77 4.35
728 3063 3.441572 TCATCAAAGAGCCAGCTTAAAGC 59.558 43.478 0.00 0.00 42.84 3.51
729 3064 5.831702 ATCATCAAAGAGCCAGCTTAAAG 57.168 39.130 0.00 0.00 0.00 1.85
730 3065 6.263842 CCATATCATCAAAGAGCCAGCTTAAA 59.736 38.462 0.00 0.00 0.00 1.52
731 3066 5.766670 CCATATCATCAAAGAGCCAGCTTAA 59.233 40.000 0.00 0.00 0.00 1.85
732 3067 5.311265 CCATATCATCAAAGAGCCAGCTTA 58.689 41.667 0.00 0.00 0.00 3.09
733 3068 4.142790 CCATATCATCAAAGAGCCAGCTT 58.857 43.478 0.00 0.00 0.00 3.74
734 3069 3.752665 CCATATCATCAAAGAGCCAGCT 58.247 45.455 0.00 0.00 0.00 4.24
735 3070 2.228343 GCCATATCATCAAAGAGCCAGC 59.772 50.000 0.00 0.00 0.00 4.85
736 3071 3.252701 GTGCCATATCATCAAAGAGCCAG 59.747 47.826 0.00 0.00 0.00 4.85
737 3072 3.216800 GTGCCATATCATCAAAGAGCCA 58.783 45.455 0.00 0.00 0.00 4.75
738 3073 3.216800 TGTGCCATATCATCAAAGAGCC 58.783 45.455 0.00 0.00 0.00 4.70
739 3074 3.252701 CCTGTGCCATATCATCAAAGAGC 59.747 47.826 0.00 0.00 0.00 4.09
740 3075 3.252701 GCCTGTGCCATATCATCAAAGAG 59.747 47.826 0.00 0.00 0.00 2.85
741 3076 3.117776 AGCCTGTGCCATATCATCAAAGA 60.118 43.478 0.00 0.00 38.69 2.52
742 3077 3.220110 AGCCTGTGCCATATCATCAAAG 58.780 45.455 0.00 0.00 38.69 2.77
743 3078 3.301794 AGCCTGTGCCATATCATCAAA 57.698 42.857 0.00 0.00 38.69 2.69
744 3079 3.301794 AAGCCTGTGCCATATCATCAA 57.698 42.857 0.00 0.00 38.69 2.57
745 3080 3.136260 TGTAAGCCTGTGCCATATCATCA 59.864 43.478 0.00 0.00 38.69 3.07
746 3081 3.743521 TGTAAGCCTGTGCCATATCATC 58.256 45.455 0.00 0.00 38.69 2.92
747 3082 3.748083 CTGTAAGCCTGTGCCATATCAT 58.252 45.455 0.00 0.00 38.69 2.45
748 3083 3.198409 CTGTAAGCCTGTGCCATATCA 57.802 47.619 0.00 0.00 38.69 2.15
762 3097 0.660595 CGTCGATAGCCGGCTGTAAG 60.661 60.000 38.98 27.14 41.49 2.34
763 3098 1.357690 CGTCGATAGCCGGCTGTAA 59.642 57.895 38.98 20.57 41.49 2.41
764 3099 3.028130 CGTCGATAGCCGGCTGTA 58.972 61.111 38.98 21.43 41.49 2.74
765 3100 4.570663 GCGTCGATAGCCGGCTGT 62.571 66.667 38.98 33.40 41.49 4.40
766 3101 4.271816 AGCGTCGATAGCCGGCTG 62.272 66.667 38.98 22.59 41.49 4.85
767 3102 4.271816 CAGCGTCGATAGCCGGCT 62.272 66.667 34.85 34.85 41.49 5.52
768 3103 2.672908 TAACAGCGTCGATAGCCGGC 62.673 60.000 21.89 21.89 39.99 6.13
769 3104 0.039437 ATAACAGCGTCGATAGCCGG 60.039 55.000 11.44 0.00 39.14 6.13
770 3105 1.767289 AATAACAGCGTCGATAGCCG 58.233 50.000 11.44 5.10 40.25 5.52
771 3106 3.858238 GGATAATAACAGCGTCGATAGCC 59.142 47.826 11.44 0.00 34.64 3.93
772 3107 4.734917 AGGATAATAACAGCGTCGATAGC 58.265 43.478 7.63 7.63 0.00 2.97
773 3108 5.061064 GCAAGGATAATAACAGCGTCGATAG 59.939 44.000 0.00 0.00 0.00 2.08
774 3109 4.921515 GCAAGGATAATAACAGCGTCGATA 59.078 41.667 0.00 0.00 0.00 2.92
775 3110 3.741344 GCAAGGATAATAACAGCGTCGAT 59.259 43.478 0.00 0.00 0.00 3.59
776 3111 3.120792 GCAAGGATAATAACAGCGTCGA 58.879 45.455 0.00 0.00 0.00 4.20
777 3112 3.123804 AGCAAGGATAATAACAGCGTCG 58.876 45.455 0.00 0.00 0.00 5.12
778 3113 4.372656 AGAGCAAGGATAATAACAGCGTC 58.627 43.478 0.00 0.00 0.00 5.19
779 3114 4.408182 AGAGCAAGGATAATAACAGCGT 57.592 40.909 0.00 0.00 0.00 5.07
780 3115 6.844696 TTTAGAGCAAGGATAATAACAGCG 57.155 37.500 0.00 0.00 0.00 5.18
781 3116 8.614469 AGATTTAGAGCAAGGATAATAACAGC 57.386 34.615 0.00 0.00 0.00 4.40
789 3124 8.598041 GGAGGATTAAGATTTAGAGCAAGGATA 58.402 37.037 0.00 0.00 0.00 2.59
790 3125 7.457561 GGAGGATTAAGATTTAGAGCAAGGAT 58.542 38.462 0.00 0.00 0.00 3.24
791 3126 6.183361 GGGAGGATTAAGATTTAGAGCAAGGA 60.183 42.308 0.00 0.00 0.00 3.36
792 3127 6.000840 GGGAGGATTAAGATTTAGAGCAAGG 58.999 44.000 0.00 0.00 0.00 3.61
793 3128 6.000840 GGGGAGGATTAAGATTTAGAGCAAG 58.999 44.000 0.00 0.00 0.00 4.01
794 3129 5.672194 AGGGGAGGATTAAGATTTAGAGCAA 59.328 40.000 0.00 0.00 0.00 3.91
795 3130 5.227593 AGGGGAGGATTAAGATTTAGAGCA 58.772 41.667 0.00 0.00 0.00 4.26
796 3131 5.546110 AGAGGGGAGGATTAAGATTTAGAGC 59.454 44.000 0.00 0.00 0.00 4.09
797 3132 7.016296 AGAGAGGGGAGGATTAAGATTTAGAG 58.984 42.308 0.00 0.00 0.00 2.43
798 3133 6.784969 CAGAGAGGGGAGGATTAAGATTTAGA 59.215 42.308 0.00 0.00 0.00 2.10
806 3141 3.508952 AACCAGAGAGGGGAGGATTAA 57.491 47.619 0.00 0.00 43.89 1.40
1620 4001 1.128188 AGAGGAACCAGACCACCACC 61.128 60.000 0.00 0.00 0.00 4.61
1684 4071 3.195825 ACATAAAGACCTCGGTGGAGAAG 59.804 47.826 2.59 0.00 43.27 2.85
1947 4378 5.761205 TCATAGAGCCTGAAGACTTCTAGT 58.239 41.667 16.02 0.00 0.00 2.57
2331 4822 4.370364 AAACATACATCCATTCGTTGCC 57.630 40.909 0.00 0.00 0.00 4.52
2835 5352 3.531538 TGCTGGTAATTACTACTGCTGC 58.468 45.455 15.05 12.79 33.86 5.25
2846 5404 8.213679 ACTCATATAGTCACATTGCTGGTAATT 58.786 33.333 0.00 0.00 30.33 1.40
3136 5694 7.395772 TCACATGGGCATTATTTTCTCAAAGTA 59.604 33.333 0.00 0.00 0.00 2.24


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

AutoCloner maintained by Alex Coulton.