Multiple sequence alignment - TraesCS5A01G107400

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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 TraesCS5A01G107400 chr5A 100.000 3568 0 0 1 3568 183437919 183434352 0.000000e+00 6589.0
1 TraesCS5A01G107400 chr5A 85.124 121 16 2 587 705 635494694 635494814 4.840000e-24 122.0
2 TraesCS5A01G107400 chr5A 82.443 131 15 4 2934 3056 452434648 452434778 1.350000e-19 108.0
3 TraesCS5A01G107400 chr5B 95.876 2158 66 10 848 2991 155279883 155282031 0.000000e+00 3470.0
4 TraesCS5A01G107400 chr5B 84.426 122 13 5 588 705 604866635 604866516 8.090000e-22 115.0
5 TraesCS5A01G107400 chr5B 85.714 105 10 5 2904 3007 405561961 405561861 4.870000e-19 106.0
6 TraesCS5A01G107400 chr5D 95.915 1787 55 6 590 2364 173095631 173093851 0.000000e+00 2880.0
7 TraesCS5A01G107400 chr5D 97.440 586 14 1 2367 2952 173091560 173090976 0.000000e+00 998.0
8 TraesCS5A01G107400 chr5D 88.702 593 45 15 1 587 173096263 173095687 0.000000e+00 704.0
9 TraesCS5A01G107400 chr5D 94.697 264 14 0 3257 3520 173089635 173089372 9.220000e-111 411.0
10 TraesCS5A01G107400 chr5D 85.345 116 13 3 592 705 377311767 377311880 2.250000e-22 117.0
11 TraesCS5A01G107400 chr5D 100.000 47 0 0 3522 3568 173089330 173089284 1.760000e-13 87.9
12 TraesCS5A01G107400 chr1D 88.718 390 35 7 96 477 39864703 39864315 5.390000e-128 468.0
13 TraesCS5A01G107400 chr2D 87.532 385 45 3 96 477 430224880 430225264 3.270000e-120 442.0
14 TraesCS5A01G107400 chr2D 87.147 389 40 10 96 477 627039149 627038764 1.970000e-117 433.0
15 TraesCS5A01G107400 chr3B 86.634 404 34 15 94 483 606379563 606379166 2.550000e-116 429.0
16 TraesCS5A01G107400 chr3B 82.993 147 16 8 2914 3056 475993837 475993696 1.340000e-24 124.0
17 TraesCS5A01G107400 chr3D 86.445 391 42 8 96 482 58397539 58397922 5.510000e-113 418.0
18 TraesCS5A01G107400 chr2A 86.445 391 42 9 96 477 44757376 44757764 5.510000e-113 418.0
19 TraesCS5A01G107400 chr2A 85.345 116 12 3 475 589 696313695 696313584 8.090000e-22 115.0
20 TraesCS5A01G107400 chr3A 85.714 385 45 8 96 477 175363189 175363566 7.180000e-107 398.0
21 TraesCS5A01G107400 chr3A 86.179 123 14 2 587 706 69171556 69171434 2.890000e-26 130.0
22 TraesCS5A01G107400 chr3A 82.308 130 14 5 2925 3045 686140844 686140973 1.750000e-18 104.0
23 TraesCS5A01G107400 chr1B 84.872 390 41 11 93 477 550923039 550923415 9.350000e-101 377.0
24 TraesCS5A01G107400 chr6A 86.777 121 14 2 587 705 521859548 521859668 2.230000e-27 134.0
25 TraesCS5A01G107400 chr6A 79.021 143 28 2 2914 3056 243958290 243958430 2.930000e-16 97.1
26 TraesCS5A01G107400 chr7D 86.325 117 14 2 592 706 139303306 139303422 3.740000e-25 126.0
27 TraesCS5A01G107400 chr7D 85.185 108 14 2 601 706 602823821 602823714 3.770000e-20 110.0
28 TraesCS5A01G107400 chr4B 84.746 118 15 3 592 706 498442897 498443014 8.090000e-22 115.0
29 TraesCS5A01G107400 chr4B 79.592 147 18 6 2914 3056 423773450 423773312 1.050000e-15 95.3
30 TraesCS5A01G107400 chr7B 80.921 152 19 3 2914 3056 211374196 211374046 1.050000e-20 111.0
31 TraesCS5A01G107400 chr4A 83.065 124 18 3 2934 3056 543368315 543368436 3.770000e-20 110.0
32 TraesCS5A01G107400 chr4D 82.258 124 19 3 2934 3056 53760116 53759995 1.750000e-18 104.0
33 TraesCS5A01G107400 chr6D 80.576 139 19 5 2914 3051 153810792 153810661 2.270000e-17 100.0


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 TraesCS5A01G107400 chr5A 183434352 183437919 3567 True 6589.00 6589 100.0000 1 3568 1 chr5A.!!$R1 3567
1 TraesCS5A01G107400 chr5B 155279883 155282031 2148 False 3470.00 3470 95.8760 848 2991 1 chr5B.!!$F1 2143
2 TraesCS5A01G107400 chr5D 173089284 173096263 6979 True 1016.18 2880 95.3508 1 3568 5 chr5D.!!$R1 3567

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
833 902 0.107268 GGTTTGGTGTGGTCCTACGT 59.893 55.0 0.0 0.0 0.0 3.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2578 4950 0.903942 GAATGCCCAAATGCTCCCAA 59.096 50.0 0.0 0.0 0.0 4.12 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
55 56 7.649715 AGGTGATCCTAATATAATAGGGACGA 58.350 38.462 13.00 0.00 43.12 4.20
68 69 2.913060 GACGATCGGAGGGAGGGG 60.913 72.222 20.98 0.00 0.00 4.79
92 93 1.395608 TCCGAATTGGATTTCGCGAAC 59.604 47.619 23.33 11.23 45.42 3.95
94 95 1.129624 CGAATTGGATTTCGCGAACCA 59.870 47.619 23.33 23.15 41.61 3.67
101 102 3.894547 TTTCGCGAACCAGGAGGGC 62.895 63.158 23.33 0.00 42.05 5.19
136 137 3.423539 GGTGCATATGCTCCCTAATGA 57.576 47.619 30.27 6.05 46.01 2.57
241 242 4.661402 GCTTGTCAAATTTCATGCGAAACG 60.661 41.667 0.00 0.00 43.75 3.60
242 243 4.216366 TGTCAAATTTCATGCGAAACGA 57.784 36.364 0.00 0.00 43.75 3.85
257 258 2.086054 AACGAGATGACTGTGCTTCC 57.914 50.000 0.00 0.00 0.00 3.46
377 378 5.351948 AAAATTGCAGGTAGTGTTTTGGT 57.648 34.783 0.00 0.00 0.00 3.67
391 392 5.302568 AGTGTTTTGGTGTGACAATGATCAT 59.697 36.000 1.18 1.18 0.00 2.45
399 402 8.352137 TGGTGTGACAATGATCATATCTTTTT 57.648 30.769 9.04 0.00 0.00 1.94
492 497 1.872388 TTTCGCGAATCAACCTGTGA 58.128 45.000 24.05 0.00 41.67 3.58
519 524 4.713321 GGTTAGATGGTTACAGGGACAGTA 59.287 45.833 0.00 0.00 0.00 2.74
520 525 5.163437 GGTTAGATGGTTACAGGGACAGTAG 60.163 48.000 0.00 0.00 30.53 2.57
537 543 3.711704 CAGTAGTATCCCAACCCATCAGT 59.288 47.826 0.00 0.00 0.00 3.41
544 550 2.091610 TCCCAACCCATCAGTGTTCAAA 60.092 45.455 0.00 0.00 0.00 2.69
549 555 5.165676 CAACCCATCAGTGTTCAAATCATG 58.834 41.667 0.00 0.00 0.00 3.07
564 570 6.376177 TCAAATCATGATGCTCGCATTATTC 58.624 36.000 9.46 0.00 36.70 1.75
565 571 4.959596 ATCATGATGCTCGCATTATTCC 57.040 40.909 7.59 0.00 36.70 3.01
568 574 2.497138 TGATGCTCGCATTATTCCTGG 58.503 47.619 5.79 0.00 36.70 4.45
587 593 6.291377 TCCTGGATTTATCTCAGGATTTTCG 58.709 40.000 18.26 0.00 43.26 3.46
588 594 5.471456 CCTGGATTTATCTCAGGATTTTCGG 59.529 44.000 16.16 0.00 42.71 4.30
630 689 0.461961 GTATGCCGGCTCAGTCTCTT 59.538 55.000 29.70 3.51 0.00 2.85
631 690 1.681793 GTATGCCGGCTCAGTCTCTTA 59.318 52.381 29.70 2.45 0.00 2.10
638 697 4.003648 CCGGCTCAGTCTCTTAAAAATGT 58.996 43.478 0.00 0.00 0.00 2.71
640 699 5.048713 CCGGCTCAGTCTCTTAAAAATGTTT 60.049 40.000 0.00 0.00 0.00 2.83
657 717 9.449719 AAAAATGTTTATAGGGTAGAGTGTGAG 57.550 33.333 0.00 0.00 0.00 3.51
673 733 3.001838 GTGTGAGTGTGTGCGTTCATAAA 59.998 43.478 0.00 0.00 0.00 1.40
677 737 3.462982 AGTGTGTGCGTTCATAAAGTGA 58.537 40.909 0.00 0.00 34.25 3.41
685 745 5.120208 GTGCGTTCATAAAGTGAGTGTATGT 59.880 40.000 0.00 0.00 38.29 2.29
687 747 5.550981 CGTTCATAAAGTGAGTGTATGTGC 58.449 41.667 0.00 0.00 38.29 4.57
706 766 1.933181 GCGTATGTATGAGCACTTGCA 59.067 47.619 3.62 0.00 45.16 4.08
717 777 6.774354 ATGAGCACTTGCATTGTTAAAAAG 57.226 33.333 3.62 0.00 45.16 2.27
720 780 6.476380 TGAGCACTTGCATTGTTAAAAAGAAG 59.524 34.615 3.62 0.00 45.16 2.85
721 781 6.572519 AGCACTTGCATTGTTAAAAAGAAGA 58.427 32.000 3.62 0.00 45.16 2.87
740 800 2.239654 AGAGGCTGAATTGGATTTCCGA 59.760 45.455 0.00 0.00 39.43 4.55
820 889 2.942641 GGAAACGGGAGAGGTTTGG 58.057 57.895 0.00 0.00 37.70 3.28
832 901 0.395312 AGGTTTGGTGTGGTCCTACG 59.605 55.000 0.00 0.00 0.00 3.51
833 902 0.107268 GGTTTGGTGTGGTCCTACGT 59.893 55.000 0.00 0.00 0.00 3.57
834 903 1.344114 GGTTTGGTGTGGTCCTACGTA 59.656 52.381 0.00 0.00 0.00 3.57
835 904 2.407090 GTTTGGTGTGGTCCTACGTAC 58.593 52.381 0.00 0.00 0.00 3.67
849 918 0.893447 ACGTACCTGTTAGTGGGAGC 59.107 55.000 0.00 0.00 0.00 4.70
854 923 1.592400 CCTGTTAGTGGGAGCGTCGA 61.592 60.000 0.00 0.00 0.00 4.20
863 932 1.102222 GGGAGCGTCGATACCTGACT 61.102 60.000 3.96 0.00 34.17 3.41
866 935 1.938577 GAGCGTCGATACCTGACTGTA 59.061 52.381 0.00 0.00 34.17 2.74
896 965 1.003718 GTCAGCGGGCCTAGTGTTT 60.004 57.895 0.84 0.00 0.00 2.83
1020 1090 1.884926 GGCGCAGAGGGAGAAATCG 60.885 63.158 10.83 0.00 0.00 3.34
1050 1120 3.827898 GCCTCCCTGTCGTCCTCG 61.828 72.222 0.00 0.00 38.55 4.63
1287 1357 1.132721 TGGGCCTGTAGATAGATGCCT 60.133 52.381 4.53 0.00 38.89 4.75
1350 1420 5.371526 GCAGAATCCCTGTTCATATCAAGA 58.628 41.667 0.00 0.00 44.71 3.02
1456 1526 1.740025 GCCAGCTCCAGTCAAATGTAC 59.260 52.381 0.00 0.00 0.00 2.90
1458 1528 3.679389 CCAGCTCCAGTCAAATGTACTT 58.321 45.455 0.00 0.00 0.00 2.24
1791 1862 4.706842 AATGGGTGTCAAGAGTAAGTGT 57.293 40.909 0.00 0.00 0.00 3.55
1859 1930 9.994432 GAATTTATAGTCATCAAACAGGTTCAG 57.006 33.333 0.00 0.00 0.00 3.02
1917 1988 8.901793 TCTACATGATTGCATATTAAGTTTGCA 58.098 29.630 0.00 5.84 44.12 4.08
2100 2184 3.879998 TGGCACTTTATTGGCTCGAATA 58.120 40.909 0.00 0.00 42.50 1.75
2385 4757 0.242017 GCACCAGCATTTGACTCACC 59.758 55.000 0.00 0.00 41.58 4.02
2578 4950 5.801531 TCCAGCGAGTAATAACCATACAT 57.198 39.130 0.00 0.00 0.00 2.29
2628 5000 2.488204 TTCATGTTCAAGCATCCCGA 57.512 45.000 0.00 0.00 0.00 5.14
2712 5084 5.416013 ACAAGATCGAACACTCAGATAGTCA 59.584 40.000 0.00 0.00 35.76 3.41
2783 5155 4.500375 GGCCATGAATATCAAGCAGAAACC 60.500 45.833 0.00 0.00 33.10 3.27
2814 5186 7.598278 CACTAATCTGACTGTTGAGTAGAAGT 58.402 38.462 18.70 4.37 35.32 3.01
2878 5250 6.236409 AGTATGATTCCTAGGTATTCGACGA 58.764 40.000 9.08 0.00 0.00 4.20
2899 5271 7.544217 CGACGACAAATTCATGATGGGTATATA 59.456 37.037 0.00 0.00 0.00 0.86
2969 5364 9.758021 TTGGATATTTCAATATGGACTGCATAT 57.242 29.630 0.00 0.00 31.96 1.78
2999 5407 6.818644 GGAATGAGTGAACTAAAGTGCATCTA 59.181 38.462 0.00 0.00 35.73 1.98
3000 5408 7.497249 GGAATGAGTGAACTAAAGTGCATCTAT 59.503 37.037 0.00 0.00 35.73 1.98
3001 5409 9.534565 GAATGAGTGAACTAAAGTGCATCTATA 57.465 33.333 0.00 0.00 35.73 1.31
3004 5412 9.967346 TGAGTGAACTAAAGTGCATCTATATAC 57.033 33.333 0.00 0.00 35.73 1.47
3005 5413 9.967346 GAGTGAACTAAAGTGCATCTATATACA 57.033 33.333 0.00 0.00 35.73 2.29
3006 5414 9.751542 AGTGAACTAAAGTGCATCTATATACAC 57.248 33.333 0.00 0.00 35.73 2.90
3007 5415 8.979574 GTGAACTAAAGTGCATCTATATACACC 58.020 37.037 0.00 0.00 35.73 4.16
3009 5417 7.612065 ACTAAAGTGCATCTATATACACCCA 57.388 36.000 0.00 0.00 30.70 4.51
3011 5419 8.660435 ACTAAAGTGCATCTATATACACCCAAT 58.340 33.333 0.00 0.00 30.70 3.16
3012 5420 9.507329 CTAAAGTGCATCTATATACACCCAATT 57.493 33.333 0.00 0.00 30.70 2.32
3014 5422 7.750229 AGTGCATCTATATACACCCAATTTG 57.250 36.000 0.00 0.00 30.70 2.32
3016 5424 6.714810 GTGCATCTATATACACCCAATTTGGA 59.285 38.462 17.24 0.00 40.96 3.53
3017 5425 7.230510 GTGCATCTATATACACCCAATTTGGAA 59.769 37.037 17.24 0.03 40.96 3.53
3018 5426 7.782168 TGCATCTATATACACCCAATTTGGAAA 59.218 33.333 17.24 0.00 40.96 3.13
3047 5455 9.314321 AGTTGGAACATCTTATAATAGTGAACG 57.686 33.333 0.00 0.00 39.30 3.95
3048 5456 8.548721 GTTGGAACATCTTATAATAGTGAACGG 58.451 37.037 0.00 0.00 39.30 4.44
3049 5457 8.014070 TGGAACATCTTATAATAGTGAACGGA 57.986 34.615 0.00 0.00 0.00 4.69
3050 5458 8.141909 TGGAACATCTTATAATAGTGAACGGAG 58.858 37.037 0.00 0.00 0.00 4.63
3052 5460 9.400638 GAACATCTTATAATAGTGAACGGAGAG 57.599 37.037 0.00 0.00 0.00 3.20
3053 5461 8.693120 ACATCTTATAATAGTGAACGGAGAGA 57.307 34.615 0.00 0.00 0.00 3.10
3054 5462 8.788806 ACATCTTATAATAGTGAACGGAGAGAG 58.211 37.037 0.00 0.00 0.00 3.20
3056 5464 8.155821 TCTTATAATAGTGAACGGAGAGAGTG 57.844 38.462 0.00 0.00 0.00 3.51
3058 5466 4.705337 AATAGTGAACGGAGAGAGTGAC 57.295 45.455 0.00 0.00 0.00 3.67
3060 5468 1.883275 AGTGAACGGAGAGAGTGACAG 59.117 52.381 0.00 0.00 0.00 3.51
3061 5469 1.609555 GTGAACGGAGAGAGTGACAGT 59.390 52.381 0.00 0.00 0.00 3.55
3062 5470 2.034812 GTGAACGGAGAGAGTGACAGTT 59.965 50.000 0.00 0.00 0.00 3.16
3063 5471 2.693591 TGAACGGAGAGAGTGACAGTTT 59.306 45.455 0.00 0.00 0.00 2.66
3064 5472 3.887110 TGAACGGAGAGAGTGACAGTTTA 59.113 43.478 0.00 0.00 0.00 2.01
3066 5474 4.240175 ACGGAGAGAGTGACAGTTTAAC 57.760 45.455 0.00 0.00 0.00 2.01
3069 5477 4.499188 CGGAGAGAGTGACAGTTTAACACA 60.499 45.833 0.00 0.00 37.05 3.72
3070 5478 5.357257 GGAGAGAGTGACAGTTTAACACAA 58.643 41.667 0.00 0.00 37.05 3.33
3071 5479 5.992217 GGAGAGAGTGACAGTTTAACACAAT 59.008 40.000 0.00 0.00 37.05 2.71
3073 5481 5.237344 AGAGAGTGACAGTTTAACACAATGC 59.763 40.000 0.00 0.00 37.05 3.56
3074 5482 4.275936 AGAGTGACAGTTTAACACAATGCC 59.724 41.667 0.00 0.00 37.05 4.40
3075 5483 3.317993 AGTGACAGTTTAACACAATGCCC 59.682 43.478 0.00 0.00 37.05 5.36
3076 5484 3.317993 GTGACAGTTTAACACAATGCCCT 59.682 43.478 0.00 0.00 35.06 5.19
3079 5487 5.772672 TGACAGTTTAACACAATGCCCTAAT 59.227 36.000 0.00 0.00 0.00 1.73
3080 5488 6.943146 TGACAGTTTAACACAATGCCCTAATA 59.057 34.615 0.00 0.00 0.00 0.98
3082 5490 9.116067 GACAGTTTAACACAATGCCCTAATATA 57.884 33.333 0.00 0.00 0.00 0.86
3083 5491 9.120538 ACAGTTTAACACAATGCCCTAATATAG 57.879 33.333 0.00 0.00 0.00 1.31
3084 5492 8.076178 CAGTTTAACACAATGCCCTAATATAGC 58.924 37.037 0.00 0.00 0.00 2.97
3085 5493 7.777910 AGTTTAACACAATGCCCTAATATAGCA 59.222 33.333 0.00 0.00 41.50 3.49
3086 5494 7.744087 TTAACACAATGCCCTAATATAGCAG 57.256 36.000 0.00 0.00 40.40 4.24
3087 5495 4.074970 ACACAATGCCCTAATATAGCAGC 58.925 43.478 0.00 0.00 40.40 5.25
3088 5496 3.125829 CACAATGCCCTAATATAGCAGCG 59.874 47.826 0.00 0.00 40.40 5.18
3089 5497 2.679837 CAATGCCCTAATATAGCAGCGG 59.320 50.000 0.00 0.00 40.40 5.52
3091 5499 1.697432 TGCCCTAATATAGCAGCGGTT 59.303 47.619 0.00 0.00 31.65 4.44
3092 5500 2.105821 TGCCCTAATATAGCAGCGGTTT 59.894 45.455 0.00 0.00 31.65 3.27
3093 5501 3.146847 GCCCTAATATAGCAGCGGTTTT 58.853 45.455 0.00 0.00 0.00 2.43
3094 5502 4.202377 TGCCCTAATATAGCAGCGGTTTTA 60.202 41.667 0.00 0.00 31.65 1.52
3096 5504 5.548406 CCCTAATATAGCAGCGGTTTTACT 58.452 41.667 0.00 0.00 0.00 2.24
3097 5505 5.995897 CCCTAATATAGCAGCGGTTTTACTT 59.004 40.000 0.00 0.00 0.00 2.24
3098 5506 7.156673 CCCTAATATAGCAGCGGTTTTACTTA 58.843 38.462 0.00 0.00 0.00 2.24
3099 5507 7.658575 CCCTAATATAGCAGCGGTTTTACTTAA 59.341 37.037 0.00 0.00 0.00 1.85
3100 5508 9.216117 CCTAATATAGCAGCGGTTTTACTTAAT 57.784 33.333 0.00 0.00 0.00 1.40
3103 5511 4.696899 AGCAGCGGTTTTACTTAATTCC 57.303 40.909 0.00 0.00 0.00 3.01
3104 5512 3.442625 AGCAGCGGTTTTACTTAATTCCC 59.557 43.478 0.00 0.00 0.00 3.97
3105 5513 3.191791 GCAGCGGTTTTACTTAATTCCCA 59.808 43.478 0.00 0.00 0.00 4.37
3107 5515 5.399013 CAGCGGTTTTACTTAATTCCCAAG 58.601 41.667 0.00 0.00 0.00 3.61
3110 5518 5.623596 GCGGTTTTACTTAATTCCCAAGCAT 60.624 40.000 0.00 0.00 0.00 3.79
3111 5519 6.404954 GCGGTTTTACTTAATTCCCAAGCATA 60.405 38.462 0.00 0.00 0.00 3.14
3113 5521 8.194769 CGGTTTTACTTAATTCCCAAGCATATT 58.805 33.333 0.00 0.00 0.00 1.28
3114 5522 9.313118 GGTTTTACTTAATTCCCAAGCATATTG 57.687 33.333 0.00 0.00 0.00 1.90
3116 5524 9.868277 TTTTACTTAATTCCCAAGCATATTGTG 57.132 29.630 0.00 0.00 0.00 3.33
3117 5525 6.469782 ACTTAATTCCCAAGCATATTGTGG 57.530 37.500 0.00 0.00 0.00 4.17
3118 5526 6.194235 ACTTAATTCCCAAGCATATTGTGGA 58.806 36.000 0.00 0.00 34.05 4.02
3119 5527 6.667414 ACTTAATTCCCAAGCATATTGTGGAA 59.333 34.615 10.77 10.77 35.12 3.53
3121 5529 2.364632 TCCCAAGCATATTGTGGAACG 58.635 47.619 0.00 0.00 42.39 3.95
3123 5531 2.491693 CCCAAGCATATTGTGGAACGTT 59.508 45.455 0.00 0.00 42.39 3.99
3124 5532 3.056891 CCCAAGCATATTGTGGAACGTTT 60.057 43.478 0.46 0.00 42.39 3.60
3125 5533 4.555262 CCAAGCATATTGTGGAACGTTTT 58.445 39.130 0.46 0.00 42.39 2.43
3126 5534 5.336055 CCCAAGCATATTGTGGAACGTTTTA 60.336 40.000 0.46 0.00 42.39 1.52
3127 5535 5.571357 CCAAGCATATTGTGGAACGTTTTAC 59.429 40.000 0.46 5.58 42.39 2.01
3128 5536 5.305139 AGCATATTGTGGAACGTTTTACC 57.695 39.130 0.46 0.00 42.39 2.85
3129 5537 4.157105 AGCATATTGTGGAACGTTTTACCC 59.843 41.667 0.46 0.00 42.39 3.69
3130 5538 4.157105 GCATATTGTGGAACGTTTTACCCT 59.843 41.667 0.46 0.00 42.39 4.34
3131 5539 5.675323 GCATATTGTGGAACGTTTTACCCTC 60.675 44.000 0.46 0.34 42.39 4.30
3132 5540 3.564053 TTGTGGAACGTTTTACCCTCT 57.436 42.857 0.46 0.00 42.39 3.69
3134 5542 3.207778 TGTGGAACGTTTTACCCTCTTG 58.792 45.455 0.46 0.00 42.39 3.02
3135 5543 3.208594 GTGGAACGTTTTACCCTCTTGT 58.791 45.455 0.46 0.00 0.00 3.16
3136 5544 3.249320 GTGGAACGTTTTACCCTCTTGTC 59.751 47.826 0.46 0.00 0.00 3.18
3137 5545 3.118334 TGGAACGTTTTACCCTCTTGTCA 60.118 43.478 0.46 0.00 0.00 3.58
3141 5549 4.710324 ACGTTTTACCCTCTTGTCAATCA 58.290 39.130 0.00 0.00 0.00 2.57
3143 5551 4.378459 CGTTTTACCCTCTTGTCAATCAGC 60.378 45.833 0.00 0.00 0.00 4.26
3144 5552 3.350219 TTACCCTCTTGTCAATCAGCC 57.650 47.619 0.00 0.00 0.00 4.85
3145 5553 1.067295 ACCCTCTTGTCAATCAGCCA 58.933 50.000 0.00 0.00 0.00 4.75
3147 5555 2.089980 CCCTCTTGTCAATCAGCCAAG 58.910 52.381 0.00 0.00 37.51 3.61
3148 5556 1.471684 CCTCTTGTCAATCAGCCAAGC 59.528 52.381 0.00 0.00 36.41 4.01
3149 5557 1.471684 CTCTTGTCAATCAGCCAAGCC 59.528 52.381 0.00 0.00 36.41 4.35
3150 5558 1.202915 TCTTGTCAATCAGCCAAGCCA 60.203 47.619 0.00 0.00 36.41 4.75
3152 5560 1.250328 TGTCAATCAGCCAAGCCAAG 58.750 50.000 0.00 0.00 0.00 3.61
3154 5562 2.224744 TGTCAATCAGCCAAGCCAAGTA 60.225 45.455 0.00 0.00 0.00 2.24
3155 5563 3.019564 GTCAATCAGCCAAGCCAAGTAT 58.980 45.455 0.00 0.00 0.00 2.12
3157 5565 4.640201 GTCAATCAGCCAAGCCAAGTATTA 59.360 41.667 0.00 0.00 0.00 0.98
3159 5567 5.532406 TCAATCAGCCAAGCCAAGTATTATC 59.468 40.000 0.00 0.00 0.00 1.75
3162 5570 3.567164 CAGCCAAGCCAAGTATTATCTGG 59.433 47.826 0.00 0.00 0.00 3.86
3163 5571 3.459598 AGCCAAGCCAAGTATTATCTGGA 59.540 43.478 0.00 0.00 0.00 3.86
3164 5572 4.079787 AGCCAAGCCAAGTATTATCTGGAA 60.080 41.667 0.00 0.00 0.00 3.53
3165 5573 4.276926 GCCAAGCCAAGTATTATCTGGAAG 59.723 45.833 0.00 0.00 0.00 3.46
3166 5574 4.823989 CCAAGCCAAGTATTATCTGGAAGG 59.176 45.833 0.00 0.00 0.00 3.46
3168 5576 3.149981 GCCAAGTATTATCTGGAAGGGC 58.850 50.000 0.00 0.00 0.00 5.19
3169 5577 3.181439 GCCAAGTATTATCTGGAAGGGCT 60.181 47.826 0.00 0.00 34.94 5.19
3170 5578 4.646572 CCAAGTATTATCTGGAAGGGCTC 58.353 47.826 0.00 0.00 0.00 4.70
3171 5579 4.310769 CAAGTATTATCTGGAAGGGCTCG 58.689 47.826 0.00 0.00 0.00 5.03
3172 5580 3.577919 AGTATTATCTGGAAGGGCTCGT 58.422 45.455 0.00 0.00 0.00 4.18
3174 5582 4.767928 AGTATTATCTGGAAGGGCTCGTAG 59.232 45.833 0.00 0.00 0.00 3.51
3176 5584 1.404843 ATCTGGAAGGGCTCGTAGAC 58.595 55.000 0.00 0.00 0.00 2.59
3181 5589 2.628178 TGGAAGGGCTCGTAGACATATG 59.372 50.000 0.00 0.00 0.00 1.78
3182 5590 2.610727 GGAAGGGCTCGTAGACATATGC 60.611 54.545 1.58 0.00 0.00 3.14
3183 5591 1.704641 AGGGCTCGTAGACATATGCA 58.295 50.000 1.58 0.00 0.00 3.96
3184 5592 1.341531 AGGGCTCGTAGACATATGCAC 59.658 52.381 1.58 0.00 0.00 4.57
3185 5593 1.068588 GGGCTCGTAGACATATGCACA 59.931 52.381 1.58 0.00 0.00 4.57
3186 5594 2.128035 GGCTCGTAGACATATGCACAC 58.872 52.381 1.58 0.00 0.00 3.82
3187 5595 2.481276 GGCTCGTAGACATATGCACACA 60.481 50.000 1.58 0.00 0.00 3.72
3189 5597 2.783832 CTCGTAGACATATGCACACACG 59.216 50.000 1.58 10.81 0.00 4.49
3190 5598 1.255342 CGTAGACATATGCACACACGC 59.745 52.381 1.58 0.00 0.00 5.34
3193 5601 0.795698 GACATATGCACACACGCACA 59.204 50.000 1.58 0.00 46.56 4.57
3195 5603 0.516439 CATATGCACACACGCACACA 59.484 50.000 0.00 0.00 46.56 3.72
3196 5604 0.516877 ATATGCACACACGCACACAC 59.483 50.000 0.00 0.00 46.56 3.82
3198 5606 2.277247 GCACACACGCACACACAC 60.277 61.111 0.00 0.00 0.00 3.82
3200 5608 1.225991 CACACACGCACACACACAC 60.226 57.895 0.00 0.00 0.00 3.82
3201 5609 2.021243 CACACGCACACACACACG 59.979 61.111 0.00 0.00 0.00 4.49
3202 5610 3.860125 ACACGCACACACACACGC 61.860 61.111 0.00 0.00 0.00 5.34
3204 5612 3.860125 ACGCACACACACACGCAC 61.860 61.111 0.00 0.00 0.00 5.34
3206 5614 2.277247 GCACACACACACGCACAC 60.277 61.111 0.00 0.00 0.00 3.82
3207 5615 3.033166 GCACACACACACGCACACA 62.033 57.895 0.00 0.00 0.00 3.72
3208 5616 1.225991 CACACACACACGCACACAC 60.226 57.895 0.00 0.00 0.00 3.82
3209 5617 1.669437 ACACACACACGCACACACA 60.669 52.632 0.00 0.00 0.00 3.72
3210 5618 1.225991 CACACACACGCACACACAC 60.226 57.895 0.00 0.00 0.00 3.82
3211 5619 1.669437 ACACACACGCACACACACA 60.669 52.632 0.00 0.00 0.00 3.72
3214 5622 1.225991 CACACGCACACACACACAC 60.226 57.895 0.00 0.00 0.00 3.82
3215 5623 2.021243 CACGCACACACACACACG 59.979 61.111 0.00 0.00 0.00 4.49
3216 5624 3.860125 ACGCACACACACACACGC 61.860 61.111 0.00 0.00 0.00 5.34
3217 5625 3.858989 CGCACACACACACACGCA 61.859 61.111 0.00 0.00 0.00 5.24
3218 5626 2.277247 GCACACACACACACGCAC 60.277 61.111 0.00 0.00 0.00 5.34
3219 5627 3.033166 GCACACACACACACGCACA 62.033 57.895 0.00 0.00 0.00 4.57
3220 5628 1.225991 CACACACACACACGCACAC 60.226 57.895 0.00 0.00 0.00 3.82
3221 5629 1.669437 ACACACACACACGCACACA 60.669 52.632 0.00 0.00 0.00 3.72
3223 5631 1.669437 ACACACACACGCACACACA 60.669 52.632 0.00 0.00 0.00 3.72
3224 5632 1.225991 CACACACACGCACACACAC 60.226 57.895 0.00 0.00 0.00 3.82
3225 5633 1.669437 ACACACACGCACACACACA 60.669 52.632 0.00 0.00 0.00 3.72
3226 5634 1.225991 CACACACGCACACACACAC 60.226 57.895 0.00 0.00 0.00 3.82
3227 5635 1.669437 ACACACGCACACACACACA 60.669 52.632 0.00 0.00 0.00 3.72
3228 5636 1.225991 CACACGCACACACACACAC 60.226 57.895 0.00 0.00 0.00 3.82
3229 5637 1.669437 ACACGCACACACACACACA 60.669 52.632 0.00 0.00 0.00 3.72
3230 5638 1.225991 CACGCACACACACACACAC 60.226 57.895 0.00 0.00 0.00 3.82
3231 5639 2.021243 CGCACACACACACACACG 59.979 61.111 0.00 0.00 0.00 4.49
3232 5640 2.277247 GCACACACACACACACGC 60.277 61.111 0.00 0.00 0.00 5.34
3233 5641 2.403186 CACACACACACACACGCC 59.597 61.111 0.00 0.00 0.00 5.68
3235 5643 3.935872 CACACACACACACGCCCG 61.936 66.667 0.00 0.00 0.00 6.13
3253 5661 4.918060 CACACGCACACGCACACG 62.918 66.667 0.00 0.00 45.53 4.49
3266 6674 0.110823 GCACACGCAAGGTTAACTCG 60.111 55.000 5.42 7.00 46.39 4.18
3284 6692 4.020543 ACTCGCTCCTTAGTGAATCTTCT 58.979 43.478 0.00 0.00 41.60 2.85
3292 6700 6.402222 TCCTTAGTGAATCTTCTTCTTCTGC 58.598 40.000 0.00 0.00 0.00 4.26
3319 6727 4.319177 GAGACATGGTTGCTACTTCAAGT 58.681 43.478 0.00 0.00 0.00 3.16
3339 6747 3.118775 AGTGGATGTGCTATGCGTTCTTA 60.119 43.478 0.00 0.00 0.00 2.10
3446 6854 1.771073 CGCAAAGCAACAGTGTCCGA 61.771 55.000 0.00 0.00 0.00 4.55
3470 6878 2.026822 ACCCGATCAAGGCATGGATATC 60.027 50.000 0.00 0.00 0.00 1.63
3484 6892 0.663153 GATATCCGGTGCCAGCAAAC 59.337 55.000 0.00 0.00 0.00 2.93
3485 6893 0.034574 ATATCCGGTGCCAGCAAACA 60.035 50.000 0.00 0.00 0.00 2.83
3496 6904 2.472488 GCCAGCAAACAAAGAACATTCG 59.528 45.455 0.00 0.00 0.00 3.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 39 6.207025 CCCTCCGATCGTCCCTATTATATTAG 59.793 46.154 15.09 0.00 0.00 1.73
46 47 0.038455 CTCCCTCCGATCGTCCCTAT 59.962 60.000 15.09 0.00 0.00 2.57
55 56 4.798682 AACGCCCCTCCCTCCGAT 62.799 66.667 0.00 0.00 0.00 4.18
88 89 3.546714 AAACGGCCCTCCTGGTTCG 62.547 63.158 0.00 0.00 38.35 3.95
92 93 2.676471 CCAAAACGGCCCTCCTGG 60.676 66.667 0.00 0.00 37.09 4.45
101 102 1.659794 CACCCAAGAGCCAAAACGG 59.340 57.895 0.00 0.00 38.11 4.44
188 189 7.862741 TGTTACACTAACAAGAACATCTACG 57.137 36.000 0.00 0.00 44.95 3.51
200 201 5.478233 CAAGCACACTTGTTACACTAACA 57.522 39.130 0.00 0.00 46.84 2.41
223 224 4.740741 TCTCGTTTCGCATGAAATTTGA 57.259 36.364 0.00 0.00 45.31 2.69
241 242 1.470632 CCGAGGAAGCACAGTCATCTC 60.471 57.143 0.00 0.00 0.00 2.75
242 243 0.534412 CCGAGGAAGCACAGTCATCT 59.466 55.000 0.00 0.00 0.00 2.90
285 286 9.491675 TCGAACTACAAATGTTACCTCAAAATA 57.508 29.630 0.00 0.00 0.00 1.40
358 359 3.068024 CACACCAAAACACTACCTGCAAT 59.932 43.478 0.00 0.00 0.00 3.56
364 365 4.336993 TCATTGTCACACCAAAACACTACC 59.663 41.667 0.00 0.00 0.00 3.18
369 370 5.787953 ATGATCATTGTCACACCAAAACA 57.212 34.783 1.18 0.00 0.00 2.83
421 424 7.041167 GCTCTGCCCATTAAAAATGTTTTTCTT 60.041 33.333 6.73 0.00 40.53 2.52
423 426 6.204495 TGCTCTGCCCATTAAAAATGTTTTTC 59.796 34.615 6.73 0.00 40.53 2.29
430 433 5.544650 GCATATGCTCTGCCCATTAAAAAT 58.455 37.500 20.64 0.00 38.21 1.82
431 434 4.947645 GCATATGCTCTGCCCATTAAAAA 58.052 39.130 20.64 0.00 38.21 1.94
456 461 3.367292 GCGAAATCCAATTTGGCTCTTGA 60.367 43.478 10.76 0.00 46.29 3.02
492 497 5.968167 TGTCCCTGTAACCATCTAACCTAAT 59.032 40.000 0.00 0.00 0.00 1.73
493 498 5.343715 TGTCCCTGTAACCATCTAACCTAA 58.656 41.667 0.00 0.00 0.00 2.69
494 499 4.950361 TGTCCCTGTAACCATCTAACCTA 58.050 43.478 0.00 0.00 0.00 3.08
495 500 3.775316 CTGTCCCTGTAACCATCTAACCT 59.225 47.826 0.00 0.00 0.00 3.50
496 501 3.518303 ACTGTCCCTGTAACCATCTAACC 59.482 47.826 0.00 0.00 0.00 2.85
504 509 4.933505 GGATACTACTGTCCCTGTAACC 57.066 50.000 0.00 0.00 0.00 2.85
519 524 2.562296 ACACTGATGGGTTGGGATACT 58.438 47.619 0.00 0.00 0.00 2.12
520 525 3.279434 GAACACTGATGGGTTGGGATAC 58.721 50.000 0.00 0.00 0.00 2.24
528 534 4.665451 TCATGATTTGAACACTGATGGGT 58.335 39.130 0.00 0.00 0.00 4.51
537 543 2.748532 TGCGAGCATCATGATTTGAACA 59.251 40.909 5.16 0.00 38.03 3.18
544 550 4.395231 CAGGAATAATGCGAGCATCATGAT 59.605 41.667 11.26 1.18 35.31 2.45
549 555 2.771089 TCCAGGAATAATGCGAGCATC 58.229 47.619 11.26 0.00 35.31 3.91
564 570 5.471456 CCGAAAATCCTGAGATAAATCCAGG 59.529 44.000 15.77 15.77 42.07 4.45
565 571 6.058183 ACCGAAAATCCTGAGATAAATCCAG 58.942 40.000 0.00 0.00 30.42 3.86
568 574 8.664211 AGTTACCGAAAATCCTGAGATAAATC 57.336 34.615 0.00 0.00 30.42 2.17
587 593 6.817140 ACCATCTTGAGATTTACGAAGTTACC 59.183 38.462 0.00 0.00 35.39 2.85
588 594 7.829378 ACCATCTTGAGATTTACGAAGTTAC 57.171 36.000 0.00 0.00 35.39 2.50
631 690 9.449719 CTCACACTCTACCCTATAAACATTTTT 57.550 33.333 0.00 0.00 0.00 1.94
638 697 6.014647 ACACACTCACACTCTACCCTATAAA 58.985 40.000 0.00 0.00 0.00 1.40
640 699 4.948004 CACACACTCACACTCTACCCTATA 59.052 45.833 0.00 0.00 0.00 1.31
656 716 3.462982 TCACTTTATGAACGCACACACT 58.537 40.909 0.00 0.00 33.02 3.55
657 717 3.247648 ACTCACTTTATGAACGCACACAC 59.752 43.478 0.00 0.00 36.69 3.82
673 733 3.868757 ACATACGCACATACACTCACT 57.131 42.857 0.00 0.00 0.00 3.41
677 737 4.202111 TGCTCATACATACGCACATACACT 60.202 41.667 0.00 0.00 0.00 3.55
685 745 1.933181 GCAAGTGCTCATACATACGCA 59.067 47.619 0.00 0.00 38.21 5.24
687 747 4.034394 ACAATGCAAGTGCTCATACATACG 59.966 41.667 4.69 0.00 42.66 3.06
706 766 7.874528 CCAATTCAGCCTCTTCTTTTTAACAAT 59.125 33.333 0.00 0.00 0.00 2.71
717 777 3.065925 CGGAAATCCAATTCAGCCTCTTC 59.934 47.826 0.00 0.00 35.14 2.87
720 780 2.615912 CTCGGAAATCCAATTCAGCCTC 59.384 50.000 0.00 0.00 35.14 4.70
721 781 2.648059 CTCGGAAATCCAATTCAGCCT 58.352 47.619 0.00 0.00 35.14 4.58
771 831 2.896801 CGTGCAGCAACCACTCCAC 61.897 63.158 0.00 0.00 0.00 4.02
774 834 2.280797 TCCGTGCAGCAACCACTC 60.281 61.111 0.00 0.00 0.00 3.51
820 889 1.251251 ACAGGTACGTAGGACCACAC 58.749 55.000 8.64 0.00 39.65 3.82
832 901 0.893447 ACGCTCCCACTAACAGGTAC 59.107 55.000 0.00 0.00 0.00 3.34
833 902 1.180029 GACGCTCCCACTAACAGGTA 58.820 55.000 0.00 0.00 0.00 3.08
834 903 1.874345 CGACGCTCCCACTAACAGGT 61.874 60.000 0.00 0.00 0.00 4.00
835 904 1.153823 CGACGCTCCCACTAACAGG 60.154 63.158 0.00 0.00 0.00 4.00
849 918 2.617308 ACCATACAGTCAGGTATCGACG 59.383 50.000 0.00 0.00 38.46 5.12
854 923 4.140900 AGCTAGGACCATACAGTCAGGTAT 60.141 45.833 0.00 0.00 38.59 2.73
863 932 1.757118 GCTGACAGCTAGGACCATACA 59.243 52.381 20.41 0.00 38.45 2.29
866 935 1.680522 CCGCTGACAGCTAGGACCAT 61.681 60.000 24.36 0.00 39.60 3.55
896 965 2.523412 CGGGGAGGAGGCGGAATA 60.523 66.667 0.00 0.00 0.00 1.75
1350 1420 5.129980 TGAACCTCTGTCATCTAAGATGCAT 59.870 40.000 0.00 0.00 0.00 3.96
1401 1471 3.879892 GCCTAGCTCTATCAAAACCCAAG 59.120 47.826 0.00 0.00 0.00 3.61
1481 1551 3.007940 AGAAATCGTTGTCAGGACCATCA 59.992 43.478 0.00 0.00 0.00 3.07
1791 1862 6.036735 GCAACCGAGCTTAAGTATTTGACATA 59.963 38.462 4.02 0.00 0.00 2.29
1859 1930 8.019669 CAGATATAAAAATAGGCATCTGTGTGC 58.980 37.037 0.00 0.00 44.31 4.57
1991 2075 9.736023 CTAAAAGGTATCATGTTGCTTAAATCC 57.264 33.333 0.00 0.00 0.00 3.01
1999 2083 7.023575 CACAAGACTAAAAGGTATCATGTTGC 58.976 38.462 0.00 0.00 0.00 4.17
2100 2184 5.925509 ACGGTTAACTAGATGCCAACATAT 58.074 37.500 5.42 0.00 36.35 1.78
2305 2389 1.609061 CCTTCGTGACTTCCTGTGCAT 60.609 52.381 0.00 0.00 0.00 3.96
2385 4757 1.819288 TGAAGCTCCAGACTAACCTCG 59.181 52.381 0.00 0.00 0.00 4.63
2578 4950 0.903942 GAATGCCCAAATGCTCCCAA 59.096 50.000 0.00 0.00 0.00 4.12
2628 5000 7.385205 GCTTACATGGAGTCGATAAATATGTGT 59.615 37.037 12.49 4.21 0.00 3.72
2712 5084 2.794103 TGACAGCATACCATTGCAAGT 58.206 42.857 4.94 0.30 45.23 3.16
2783 5155 2.688507 ACAGTCAGATTAGTGCCAACG 58.311 47.619 0.00 0.00 0.00 4.10
2834 5206 0.611062 CCCGGGACAGGCGATATCTA 60.611 60.000 18.48 0.00 0.00 1.98
2837 5209 1.908793 CTCCCGGGACAGGCGATAT 60.909 63.158 22.63 0.00 0.00 1.63
2964 5359 6.630444 AGTTCACTCATTCCAATCATATGC 57.370 37.500 0.00 0.00 0.00 3.14
2969 5364 6.072508 GCACTTTAGTTCACTCATTCCAATCA 60.073 38.462 0.00 0.00 0.00 2.57
3021 5429 9.314321 CGTTCACTATTATAAGATGTTCCAACT 57.686 33.333 0.00 0.00 0.00 3.16
3023 5431 8.479689 TCCGTTCACTATTATAAGATGTTCCAA 58.520 33.333 0.00 0.00 0.00 3.53
3026 5434 9.400638 CTCTCCGTTCACTATTATAAGATGTTC 57.599 37.037 0.00 0.00 0.00 3.18
3028 5436 8.693120 TCTCTCCGTTCACTATTATAAGATGT 57.307 34.615 0.00 0.00 0.00 3.06
3029 5437 8.788806 ACTCTCTCCGTTCACTATTATAAGATG 58.211 37.037 0.00 0.00 0.00 2.90
3030 5438 8.788806 CACTCTCTCCGTTCACTATTATAAGAT 58.211 37.037 0.00 0.00 0.00 2.40
3031 5439 7.991460 TCACTCTCTCCGTTCACTATTATAAGA 59.009 37.037 0.00 0.00 0.00 2.10
3032 5440 8.071368 GTCACTCTCTCCGTTCACTATTATAAG 58.929 40.741 0.00 0.00 0.00 1.73
3033 5441 7.555195 TGTCACTCTCTCCGTTCACTATTATAA 59.445 37.037 0.00 0.00 0.00 0.98
3034 5442 7.052248 TGTCACTCTCTCCGTTCACTATTATA 58.948 38.462 0.00 0.00 0.00 0.98
3035 5443 5.886474 TGTCACTCTCTCCGTTCACTATTAT 59.114 40.000 0.00 0.00 0.00 1.28
3036 5444 5.250982 TGTCACTCTCTCCGTTCACTATTA 58.749 41.667 0.00 0.00 0.00 0.98
3038 5446 3.687125 TGTCACTCTCTCCGTTCACTAT 58.313 45.455 0.00 0.00 0.00 2.12
3039 5447 3.075148 CTGTCACTCTCTCCGTTCACTA 58.925 50.000 0.00 0.00 0.00 2.74
3040 5448 1.883275 CTGTCACTCTCTCCGTTCACT 59.117 52.381 0.00 0.00 0.00 3.41
3041 5449 1.609555 ACTGTCACTCTCTCCGTTCAC 59.390 52.381 0.00 0.00 0.00 3.18
3042 5450 1.982660 ACTGTCACTCTCTCCGTTCA 58.017 50.000 0.00 0.00 0.00 3.18
3043 5451 3.372660 AAACTGTCACTCTCTCCGTTC 57.627 47.619 0.00 0.00 0.00 3.95
3044 5452 4.098960 TGTTAAACTGTCACTCTCTCCGTT 59.901 41.667 0.00 0.00 0.00 4.44
3045 5453 3.635373 TGTTAAACTGTCACTCTCTCCGT 59.365 43.478 0.00 0.00 0.00 4.69
3046 5454 3.982058 GTGTTAAACTGTCACTCTCTCCG 59.018 47.826 0.00 0.00 0.00 4.63
3047 5455 4.945246 TGTGTTAAACTGTCACTCTCTCC 58.055 43.478 0.00 0.00 33.82 3.71
3048 5456 6.564873 GCATTGTGTTAAACTGTCACTCTCTC 60.565 42.308 0.00 0.00 33.82 3.20
3049 5457 5.237344 GCATTGTGTTAAACTGTCACTCTCT 59.763 40.000 0.00 0.00 33.82 3.10
3050 5458 5.444122 GCATTGTGTTAAACTGTCACTCTC 58.556 41.667 0.00 0.00 33.82 3.20
3052 5460 4.537015 GGCATTGTGTTAAACTGTCACTC 58.463 43.478 0.00 0.00 33.82 3.51
3053 5461 3.317993 GGGCATTGTGTTAAACTGTCACT 59.682 43.478 0.00 0.00 33.82 3.41
3054 5462 3.317993 AGGGCATTGTGTTAAACTGTCAC 59.682 43.478 0.00 0.00 0.00 3.67
3056 5464 5.699097 TTAGGGCATTGTGTTAAACTGTC 57.301 39.130 0.00 0.00 0.00 3.51
3058 5466 8.076178 GCTATATTAGGGCATTGTGTTAAACTG 58.924 37.037 0.00 0.00 0.00 3.16
3060 5468 7.936584 TGCTATATTAGGGCATTGTGTTAAAC 58.063 34.615 0.00 0.00 0.00 2.01
3061 5469 7.255451 GCTGCTATATTAGGGCATTGTGTTAAA 60.255 37.037 0.00 0.00 35.37 1.52
3062 5470 6.206634 GCTGCTATATTAGGGCATTGTGTTAA 59.793 38.462 0.00 0.00 35.37 2.01
3063 5471 5.705441 GCTGCTATATTAGGGCATTGTGTTA 59.295 40.000 0.00 0.00 35.37 2.41
3064 5472 4.520492 GCTGCTATATTAGGGCATTGTGTT 59.480 41.667 0.00 0.00 35.37 3.32
3066 5474 3.125829 CGCTGCTATATTAGGGCATTGTG 59.874 47.826 0.00 0.00 35.37 3.33
3069 5477 2.305927 ACCGCTGCTATATTAGGGCATT 59.694 45.455 0.00 0.00 35.37 3.56
3070 5478 1.909302 ACCGCTGCTATATTAGGGCAT 59.091 47.619 0.00 0.00 35.37 4.40
3071 5479 1.348064 ACCGCTGCTATATTAGGGCA 58.652 50.000 0.00 0.00 34.66 5.36
3073 5481 5.548406 AGTAAAACCGCTGCTATATTAGGG 58.452 41.667 0.00 0.00 0.00 3.53
3074 5482 8.597662 TTAAGTAAAACCGCTGCTATATTAGG 57.402 34.615 0.00 0.00 0.00 2.69
3079 5487 6.484308 GGGAATTAAGTAAAACCGCTGCTATA 59.516 38.462 0.00 0.00 0.00 1.31
3080 5488 5.298527 GGGAATTAAGTAAAACCGCTGCTAT 59.701 40.000 0.00 0.00 0.00 2.97
3082 5490 3.442625 GGGAATTAAGTAAAACCGCTGCT 59.557 43.478 0.00 0.00 0.00 4.24
3083 5491 3.191791 TGGGAATTAAGTAAAACCGCTGC 59.808 43.478 0.00 0.00 0.00 5.25
3084 5492 5.379732 TTGGGAATTAAGTAAAACCGCTG 57.620 39.130 0.00 0.00 0.00 5.18
3085 5493 4.082408 GCTTGGGAATTAAGTAAAACCGCT 60.082 41.667 0.00 0.00 0.00 5.52
3086 5494 4.171005 GCTTGGGAATTAAGTAAAACCGC 58.829 43.478 0.00 0.00 0.00 5.68
3087 5495 5.379732 TGCTTGGGAATTAAGTAAAACCG 57.620 39.130 0.00 0.00 0.00 4.44
3088 5496 9.313118 CAATATGCTTGGGAATTAAGTAAAACC 57.687 33.333 0.00 0.00 0.00 3.27
3089 5497 9.869757 ACAATATGCTTGGGAATTAAGTAAAAC 57.130 29.630 0.00 0.00 0.00 2.43
3091 5499 8.474025 CCACAATATGCTTGGGAATTAAGTAAA 58.526 33.333 0.00 0.00 0.00 2.01
3092 5500 7.836685 TCCACAATATGCTTGGGAATTAAGTAA 59.163 33.333 0.00 0.00 0.00 2.24
3093 5501 7.350382 TCCACAATATGCTTGGGAATTAAGTA 58.650 34.615 0.00 0.00 0.00 2.24
3094 5502 6.194235 TCCACAATATGCTTGGGAATTAAGT 58.806 36.000 0.00 0.00 0.00 2.24
3096 5504 6.405286 CGTTCCACAATATGCTTGGGAATTAA 60.405 38.462 0.00 0.00 36.85 1.40
3097 5505 5.067153 CGTTCCACAATATGCTTGGGAATTA 59.933 40.000 0.00 0.00 36.85 1.40
3098 5506 4.142182 CGTTCCACAATATGCTTGGGAATT 60.142 41.667 0.00 0.00 36.85 2.17
3099 5507 3.381272 CGTTCCACAATATGCTTGGGAAT 59.619 43.478 0.00 0.00 36.85 3.01
3100 5508 2.752354 CGTTCCACAATATGCTTGGGAA 59.248 45.455 0.00 0.00 32.35 3.97
3103 5511 3.848272 AACGTTCCACAATATGCTTGG 57.152 42.857 0.00 0.00 0.00 3.61
3104 5512 5.571357 GGTAAAACGTTCCACAATATGCTTG 59.429 40.000 0.00 0.00 0.00 4.01
3105 5513 5.336134 GGGTAAAACGTTCCACAATATGCTT 60.336 40.000 0.00 0.00 0.00 3.91
3107 5515 4.157105 AGGGTAAAACGTTCCACAATATGC 59.843 41.667 0.00 0.00 0.00 3.14
3110 5518 5.231702 AGAGGGTAAAACGTTCCACAATA 57.768 39.130 0.00 0.00 0.00 1.90
3111 5519 4.094830 AGAGGGTAAAACGTTCCACAAT 57.905 40.909 0.00 0.00 0.00 2.71
3113 5521 3.207778 CAAGAGGGTAAAACGTTCCACA 58.792 45.455 0.00 0.00 0.00 4.17
3114 5522 3.208594 ACAAGAGGGTAAAACGTTCCAC 58.791 45.455 0.00 2.19 0.00 4.02
3116 5524 3.469739 TGACAAGAGGGTAAAACGTTCC 58.530 45.455 0.00 0.00 0.00 3.62
3117 5525 5.237779 TGATTGACAAGAGGGTAAAACGTTC 59.762 40.000 0.00 0.00 0.00 3.95
3118 5526 5.127491 TGATTGACAAGAGGGTAAAACGTT 58.873 37.500 0.00 0.00 0.00 3.99
3119 5527 4.710324 TGATTGACAAGAGGGTAAAACGT 58.290 39.130 0.00 0.00 0.00 3.99
3121 5529 4.082733 GGCTGATTGACAAGAGGGTAAAAC 60.083 45.833 0.00 0.00 0.00 2.43
3123 5531 3.073798 TGGCTGATTGACAAGAGGGTAAA 59.926 43.478 0.00 0.00 0.00 2.01
3124 5532 2.642311 TGGCTGATTGACAAGAGGGTAA 59.358 45.455 0.00 0.00 0.00 2.85
3125 5533 2.265367 TGGCTGATTGACAAGAGGGTA 58.735 47.619 0.00 0.00 0.00 3.69
3126 5534 1.067295 TGGCTGATTGACAAGAGGGT 58.933 50.000 0.00 0.00 0.00 4.34
3127 5535 2.205022 TTGGCTGATTGACAAGAGGG 57.795 50.000 0.00 0.00 39.08 4.30
3132 5540 1.614903 CTTGGCTTGGCTGATTGACAA 59.385 47.619 0.00 0.00 42.29 3.18
3134 5542 1.251251 ACTTGGCTTGGCTGATTGAC 58.749 50.000 0.00 0.00 0.00 3.18
3135 5543 2.877097 TACTTGGCTTGGCTGATTGA 57.123 45.000 0.00 0.00 0.00 2.57
3136 5544 5.533903 AGATAATACTTGGCTTGGCTGATTG 59.466 40.000 0.00 0.00 0.00 2.67
3137 5545 5.533903 CAGATAATACTTGGCTTGGCTGATT 59.466 40.000 0.00 0.00 0.00 2.57
3141 5549 3.459598 TCCAGATAATACTTGGCTTGGCT 59.540 43.478 0.00 0.00 0.00 4.75
3143 5551 4.823989 CCTTCCAGATAATACTTGGCTTGG 59.176 45.833 0.00 0.00 0.00 3.61
3144 5552 4.823989 CCCTTCCAGATAATACTTGGCTTG 59.176 45.833 0.00 0.00 0.00 4.01
3145 5553 4.689983 GCCCTTCCAGATAATACTTGGCTT 60.690 45.833 0.00 0.00 32.53 4.35
3147 5555 3.149981 GCCCTTCCAGATAATACTTGGC 58.850 50.000 0.00 0.00 0.00 4.52
3148 5556 4.646572 GAGCCCTTCCAGATAATACTTGG 58.353 47.826 0.00 0.00 0.00 3.61
3149 5557 4.202264 ACGAGCCCTTCCAGATAATACTTG 60.202 45.833 0.00 0.00 0.00 3.16
3150 5558 3.967987 ACGAGCCCTTCCAGATAATACTT 59.032 43.478 0.00 0.00 0.00 2.24
3152 5560 4.765856 TCTACGAGCCCTTCCAGATAATAC 59.234 45.833 0.00 0.00 0.00 1.89
3154 5562 3.574826 GTCTACGAGCCCTTCCAGATAAT 59.425 47.826 0.00 0.00 0.00 1.28
3155 5563 2.957006 GTCTACGAGCCCTTCCAGATAA 59.043 50.000 0.00 0.00 0.00 1.75
3157 5565 1.342076 TGTCTACGAGCCCTTCCAGAT 60.342 52.381 0.00 0.00 0.00 2.90
3159 5567 1.115467 ATGTCTACGAGCCCTTCCAG 58.885 55.000 0.00 0.00 0.00 3.86
3162 5570 2.035961 TGCATATGTCTACGAGCCCTTC 59.964 50.000 4.29 0.00 0.00 3.46
3163 5571 2.039418 TGCATATGTCTACGAGCCCTT 58.961 47.619 4.29 0.00 0.00 3.95
3164 5572 1.341531 GTGCATATGTCTACGAGCCCT 59.658 52.381 4.29 0.00 0.00 5.19
3165 5573 1.068588 TGTGCATATGTCTACGAGCCC 59.931 52.381 4.29 0.00 0.00 5.19
3166 5574 2.128035 GTGTGCATATGTCTACGAGCC 58.872 52.381 4.29 0.00 0.00 4.70
3168 5576 2.783832 CGTGTGTGCATATGTCTACGAG 59.216 50.000 4.29 0.00 32.58 4.18
3169 5577 2.792749 CGTGTGTGCATATGTCTACGA 58.207 47.619 4.29 0.00 32.58 3.43
3170 5578 1.255342 GCGTGTGTGCATATGTCTACG 59.745 52.381 4.29 12.77 34.15 3.51
3171 5579 2.267426 TGCGTGTGTGCATATGTCTAC 58.733 47.619 4.29 2.62 40.62 2.59
3172 5580 2.663826 TGCGTGTGTGCATATGTCTA 57.336 45.000 4.29 0.00 40.62 2.59
3181 5589 2.277247 GTGTGTGTGCGTGTGTGC 60.277 61.111 0.00 0.00 0.00 4.57
3182 5590 1.225991 GTGTGTGTGTGCGTGTGTG 60.226 57.895 0.00 0.00 0.00 3.82
3183 5591 2.735677 CGTGTGTGTGTGCGTGTGT 61.736 57.895 0.00 0.00 0.00 3.72
3184 5592 2.021243 CGTGTGTGTGTGCGTGTG 59.979 61.111 0.00 0.00 0.00 3.82
3185 5593 3.860125 GCGTGTGTGTGTGCGTGT 61.860 61.111 0.00 0.00 0.00 4.49
3186 5594 3.858989 TGCGTGTGTGTGTGCGTG 61.859 61.111 0.00 0.00 0.00 5.34
3187 5595 3.860125 GTGCGTGTGTGTGTGCGT 61.860 61.111 0.00 0.00 0.00 5.24
3189 5597 2.277247 GTGTGCGTGTGTGTGTGC 60.277 61.111 0.00 0.00 0.00 4.57
3190 5598 1.225991 GTGTGTGCGTGTGTGTGTG 60.226 57.895 0.00 0.00 0.00 3.82
3193 5601 1.669437 TGTGTGTGTGCGTGTGTGT 60.669 52.632 0.00 0.00 0.00 3.72
3195 5603 1.669437 TGTGTGTGTGTGCGTGTGT 60.669 52.632 0.00 0.00 0.00 3.72
3196 5604 1.225991 GTGTGTGTGTGTGCGTGTG 60.226 57.895 0.00 0.00 0.00 3.82
3198 5606 2.021243 CGTGTGTGTGTGTGCGTG 59.979 61.111 0.00 0.00 0.00 5.34
3200 5608 3.858989 TGCGTGTGTGTGTGTGCG 61.859 61.111 0.00 0.00 0.00 5.34
3201 5609 2.277247 GTGCGTGTGTGTGTGTGC 60.277 61.111 0.00 0.00 0.00 4.57
3202 5610 1.225991 GTGTGCGTGTGTGTGTGTG 60.226 57.895 0.00 0.00 0.00 3.82
3204 5612 1.225991 GTGTGTGCGTGTGTGTGTG 60.226 57.895 0.00 0.00 0.00 3.82
3206 5614 1.225991 GTGTGTGTGCGTGTGTGTG 60.226 57.895 0.00 0.00 0.00 3.82
3207 5615 1.669437 TGTGTGTGTGCGTGTGTGT 60.669 52.632 0.00 0.00 0.00 3.72
3208 5616 1.225991 GTGTGTGTGTGCGTGTGTG 60.226 57.895 0.00 0.00 0.00 3.82
3209 5617 1.669437 TGTGTGTGTGTGCGTGTGT 60.669 52.632 0.00 0.00 0.00 3.72
3210 5618 1.225991 GTGTGTGTGTGTGCGTGTG 60.226 57.895 0.00 0.00 0.00 3.82
3211 5619 1.669437 TGTGTGTGTGTGTGCGTGT 60.669 52.632 0.00 0.00 0.00 4.49
3214 5622 2.021243 CGTGTGTGTGTGTGTGCG 59.979 61.111 0.00 0.00 0.00 5.34
3215 5623 2.277247 GCGTGTGTGTGTGTGTGC 60.277 61.111 0.00 0.00 0.00 4.57
3216 5624 2.403186 GGCGTGTGTGTGTGTGTG 59.597 61.111 0.00 0.00 0.00 3.82
3217 5625 2.822255 GGGCGTGTGTGTGTGTGT 60.822 61.111 0.00 0.00 0.00 3.72
3218 5626 3.935872 CGGGCGTGTGTGTGTGTG 61.936 66.667 0.00 0.00 0.00 3.82
3247 5655 0.110823 CGAGTTAACCTTGCGTGTGC 60.111 55.000 0.88 0.00 43.20 4.57
3248 5656 0.110823 GCGAGTTAACCTTGCGTGTG 60.111 55.000 0.88 0.00 40.72 3.82
3249 5657 2.231820 GCGAGTTAACCTTGCGTGT 58.768 52.632 0.88 0.00 40.72 4.49
3254 5662 3.927142 CACTAAGGAGCGAGTTAACCTTG 59.073 47.826 0.88 0.00 41.86 3.61
3255 5663 3.830755 TCACTAAGGAGCGAGTTAACCTT 59.169 43.478 0.88 0.00 43.75 3.50
3266 6674 6.534793 CAGAAGAAGAAGATTCACTAAGGAGC 59.465 42.308 0.00 0.00 0.00 4.70
3284 6692 2.391616 ATGTCTCGCATGCAGAAGAA 57.608 45.000 19.57 9.09 36.26 2.52
3319 6727 2.401583 AAGAACGCATAGCACATCCA 57.598 45.000 0.00 0.00 0.00 3.41
3429 6837 1.400142 TGTTCGGACACTGTTGCTTTG 59.600 47.619 0.00 0.00 0.00 2.77
3446 6854 0.680921 CCATGCCTTGATCGGGTGTT 60.681 55.000 6.44 0.00 0.00 3.32
3451 6859 2.636830 GGATATCCATGCCTTGATCGG 58.363 52.381 17.34 0.00 35.64 4.18
3454 6862 1.988107 ACCGGATATCCATGCCTTGAT 59.012 47.619 21.70 0.00 35.14 2.57
3470 6878 1.300080 CTTTGTTTGCTGGCACCGG 60.300 57.895 0.00 0.00 0.00 5.28
3484 6892 5.215160 CCTGTTTCTTCCGAATGTTCTTTG 58.785 41.667 0.00 0.00 0.00 2.77
3485 6893 4.261614 GCCTGTTTCTTCCGAATGTTCTTT 60.262 41.667 0.00 0.00 0.00 2.52
3496 6904 3.431725 CGGGCGCCTGTTTCTTCC 61.432 66.667 27.83 5.19 0.00 3.46
3520 6928 0.175760 ATGTCTGGTCGTTCGATGGG 59.824 55.000 0.00 0.00 0.00 4.00


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

AutoCloner maintained by Alex Coulton.