Multiple sequence alignment - TraesCS2D01G100700

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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 TraesCS2D01G100700 chr2D 100.000 3368 0 0 1 3368 52851026 52854393 0.000000e+00 6220.0
1 TraesCS2D01G100700 chr2D 93.801 1855 83 15 947 2797 52646904 52648730 0.000000e+00 2760.0
2 TraesCS2D01G100700 chr2D 82.274 1117 102 33 1600 2685 53649644 53650695 0.000000e+00 878.0
3 TraesCS2D01G100700 chr2D 79.734 1278 159 56 833 2068 52959347 52960566 0.000000e+00 833.0
4 TraesCS2D01G100700 chr2D 90.787 597 46 4 998 1589 53649011 53649603 0.000000e+00 789.0
5 TraesCS2D01G100700 chr2D 86.929 482 44 10 412 887 52646415 52646883 1.070000e-144 523.0
6 TraesCS2D01G100700 chr2D 90.950 221 17 1 69 286 52645801 52646021 9.140000e-76 294.0
7 TraesCS2D01G100700 chr2D 81.633 98 16 2 3250 3346 59474247 59474343 2.790000e-11 80.5
8 TraesCS2D01G100700 chr2B 89.683 2772 163 38 1 2744 82850679 82853355 0.000000e+00 3421.0
9 TraesCS2D01G100700 chr2B 89.880 1502 100 25 415 1899 82360712 82362178 0.000000e+00 1884.0
10 TraesCS2D01G100700 chr2B 89.887 1503 91 24 1102 2589 82714081 82715537 0.000000e+00 1877.0
11 TraesCS2D01G100700 chr2B 83.253 1857 155 58 908 2685 83955490 83953711 0.000000e+00 1563.0
12 TraesCS2D01G100700 chr2B 87.627 889 68 22 1909 2796 82362153 82363000 0.000000e+00 994.0
13 TraesCS2D01G100700 chr2B 87.940 796 76 12 2 791 82712412 82713193 0.000000e+00 920.0
14 TraesCS2D01G100700 chr2B 80.109 1096 129 47 838 1899 83211029 83212069 0.000000e+00 734.0
15 TraesCS2D01G100700 chr2B 84.127 441 48 8 2757 3189 82853430 82853856 1.130000e-109 407.0
16 TraesCS2D01G100700 chr2B 87.678 211 22 1 2587 2797 82717655 82717861 3.360000e-60 243.0
17 TraesCS2D01G100700 chr2B 96.552 58 2 0 5 62 82360630 82360687 2.770000e-16 97.1
18 TraesCS2D01G100700 chr2A 86.687 2937 211 70 1 2889 54110918 54113722 0.000000e+00 3092.0
19 TraesCS2D01G100700 chr2A 87.036 2507 157 45 393 2860 54011746 54014123 0.000000e+00 2675.0
20 TraesCS2D01G100700 chr2A 80.431 1160 149 42 941 2068 54139877 54140990 0.000000e+00 813.0
21 TraesCS2D01G100700 chr2A 87.627 687 65 11 918 1589 54474196 54473515 0.000000e+00 780.0
22 TraesCS2D01G100700 chr2A 83.827 742 76 21 1917 2635 54473180 54472460 0.000000e+00 665.0
23 TraesCS2D01G100700 chr2A 90.263 380 33 2 1 376 54011261 54011640 8.400000e-136 494.0
24 TraesCS2D01G100700 chr3A 100.000 171 0 0 3198 3368 702965702 702965872 1.950000e-82 316.0
25 TraesCS2D01G100700 chr4D 98.246 171 3 0 3198 3368 464678146 464677976 1.960000e-77 300.0
26 TraesCS2D01G100700 chr7A 98.246 171 2 1 3198 3368 21231084 21231253 7.060000e-77 298.0
27 TraesCS2D01G100700 chr5A 95.238 105 5 0 3264 3368 631988579 631988475 2.080000e-37 167.0
28 TraesCS2D01G100700 chr5A 94.366 71 4 0 3198 3268 631998211 631998141 3.550000e-20 110.0
29 TraesCS2D01G100700 chr7D 80.612 98 17 2 3250 3346 64072066 64072162 1.300000e-09 75.0
30 TraesCS2D01G100700 chr5D 87.500 56 3 3 3250 3303 556328633 556328580 1.010000e-05 62.1
31 TraesCS2D01G100700 chr5D 92.500 40 1 2 3274 3313 556329086 556329049 4.690000e-04 56.5
32 TraesCS2D01G100700 chr5B 88.235 51 4 2 3252 3301 659782637 659782588 3.630000e-05 60.2


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 TraesCS2D01G100700 chr2D 52851026 52854393 3367 False 6220.000000 6220 100.000000 1 3368 1 chr2D.!!$F1 3367
1 TraesCS2D01G100700 chr2D 52645801 52648730 2929 False 1192.333333 2760 90.560000 69 2797 3 chr2D.!!$F4 2728
2 TraesCS2D01G100700 chr2D 53649011 53650695 1684 False 833.500000 878 86.530500 998 2685 2 chr2D.!!$F5 1687
3 TraesCS2D01G100700 chr2D 52959347 52960566 1219 False 833.000000 833 79.734000 833 2068 1 chr2D.!!$F2 1235
4 TraesCS2D01G100700 chr2B 82850679 82853856 3177 False 1914.000000 3421 86.905000 1 3189 2 chr2B.!!$F4 3188
5 TraesCS2D01G100700 chr2B 83953711 83955490 1779 True 1563.000000 1563 83.253000 908 2685 1 chr2B.!!$R1 1777
6 TraesCS2D01G100700 chr2B 82712412 82717861 5449 False 1013.333333 1877 88.501667 2 2797 3 chr2B.!!$F3 2795
7 TraesCS2D01G100700 chr2B 82360630 82363000 2370 False 991.700000 1884 91.353000 5 2796 3 chr2B.!!$F2 2791
8 TraesCS2D01G100700 chr2B 83211029 83212069 1040 False 734.000000 734 80.109000 838 1899 1 chr2B.!!$F1 1061
9 TraesCS2D01G100700 chr2A 54110918 54113722 2804 False 3092.000000 3092 86.687000 1 2889 1 chr2A.!!$F1 2888
10 TraesCS2D01G100700 chr2A 54011261 54014123 2862 False 1584.500000 2675 88.649500 1 2860 2 chr2A.!!$F3 2859
11 TraesCS2D01G100700 chr2A 54139877 54140990 1113 False 813.000000 813 80.431000 941 2068 1 chr2A.!!$F2 1127
12 TraesCS2D01G100700 chr2A 54472460 54474196 1736 True 722.500000 780 85.727000 918 2635 2 chr2A.!!$R1 1717

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
577 870 1.00461 CCGCGATTCACAATAGCACTG 60.005 52.381 8.23 0.0 39.15 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2504 3636 0.530744 TTCCTCCTCGAATCACCACG 59.469 55.0 0.0 0.0 0.0 4.94 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
26 27 6.320926 TGATTAGGCACTGCATAAAAATAGCA 59.679 34.615 11.87 0.00 38.27 3.49
131 138 2.254459 CCTCGATTCGACAACACAGAG 58.746 52.381 4.29 0.00 0.00 3.35
178 195 3.181575 GTCGGCCGTTTTTCTGAATTTTG 59.818 43.478 27.15 0.00 0.00 2.44
188 205 1.340889 TCTGAATTTTGTGTGGCAGCC 59.659 47.619 3.66 3.66 0.00 4.85
324 343 1.102154 CACACACAAACAGCAGGGAA 58.898 50.000 0.00 0.00 0.00 3.97
372 391 6.537301 ACCTAACGGTGTGTACATAATCATTG 59.463 38.462 0.00 0.00 43.51 2.82
546 839 2.762887 TGCTCCATCTCTGACGATTTCT 59.237 45.455 0.00 0.00 0.00 2.52
577 870 1.004610 CCGCGATTCACAATAGCACTG 60.005 52.381 8.23 0.00 39.15 3.66
597 890 1.118356 AAATTGCGGGGCAGTTTCCA 61.118 50.000 5.42 0.00 43.07 3.53
609 902 3.335579 GCAGTTTCCAAACGGAGATAGT 58.664 45.455 6.52 0.00 43.51 2.12
646 939 4.159857 CGGTTTCATCCGCGATTTAAAAA 58.840 39.130 8.23 0.00 43.96 1.94
715 1011 7.165485 TGTAGCAACCTATTAACACTTGATGT 58.835 34.615 0.00 0.00 46.42 3.06
748 1044 3.777106 TCCAGGATGTTATCATGAGCC 57.223 47.619 0.09 0.00 43.29 4.70
750 1046 3.144506 CCAGGATGTTATCATGAGCCAC 58.855 50.000 0.09 0.00 43.29 5.01
754 1050 3.812053 GGATGTTATCATGAGCCACTCAC 59.188 47.826 0.09 0.00 43.63 3.51
756 1052 5.221521 GGATGTTATCATGAGCCACTCACTA 60.222 44.000 0.09 0.00 43.63 2.74
818 1120 4.335594 GCCTTGGAATTACTACGAAGCAAT 59.664 41.667 0.00 0.00 0.00 3.56
821 1123 7.630924 CCTTGGAATTACTACGAAGCAATTAG 58.369 38.462 0.00 0.00 30.32 1.73
822 1124 6.598753 TGGAATTACTACGAAGCAATTAGC 57.401 37.500 0.00 0.00 46.19 3.09
841 1148 1.270305 GCAGCCATCCTGACGCTATAA 60.270 52.381 0.00 0.00 44.64 0.98
883 1582 1.336795 CCAAACCCCAAACGATTCAGC 60.337 52.381 0.00 0.00 0.00 4.26
889 1588 2.610232 CCCCAAACGATTCAGCCAAAAG 60.610 50.000 0.00 0.00 0.00 2.27
976 1686 1.821216 GTAGCAAGGCAAGCCAGTAA 58.179 50.000 14.40 0.00 38.92 2.24
1037 1753 0.471617 GTGATGGATCTGGAGGTGGG 59.528 60.000 0.00 0.00 0.00 4.61
1849 2901 2.364448 ACCCTCTCGCCTTCCTCC 60.364 66.667 0.00 0.00 0.00 4.30
1899 2975 4.719369 AACGCCGACCTGCTCGAC 62.719 66.667 0.00 0.00 46.14 4.20
1901 2977 4.717629 CGCCGACCTGCTCGACAA 62.718 66.667 0.00 0.00 46.14 3.18
1902 2978 3.112709 GCCGACCTGCTCGACAAC 61.113 66.667 0.00 0.00 46.14 3.32
1903 2979 2.805353 CCGACCTGCTCGACAACG 60.805 66.667 0.00 0.00 46.14 4.10
1904 2980 3.470567 CGACCTGCTCGACAACGC 61.471 66.667 0.00 0.00 46.14 4.84
1905 2981 3.112709 GACCTGCTCGACAACGCC 61.113 66.667 0.00 0.00 39.58 5.68
1906 2982 3.858868 GACCTGCTCGACAACGCCA 62.859 63.158 0.00 0.00 39.58 5.69
1907 2983 3.114616 CCTGCTCGACAACGCCAG 61.115 66.667 0.00 0.00 39.58 4.85
1908 2984 3.782244 CTGCTCGACAACGCCAGC 61.782 66.667 0.00 0.00 38.98 4.85
1911 2987 3.114616 CTCGACAACGCCAGCCTG 61.115 66.667 0.00 0.00 39.58 4.85
1914 2990 2.980233 GACAACGCCAGCCTGCTT 60.980 61.111 0.00 0.00 0.00 3.91
1915 2991 3.259425 GACAACGCCAGCCTGCTTG 62.259 63.158 0.00 0.00 0.00 4.01
1916 2992 2.979676 CAACGCCAGCCTGCTTGA 60.980 61.111 0.00 0.00 0.00 3.02
1995 3071 1.228894 TTCGAGCTCCACCTCCAGT 60.229 57.895 8.47 0.00 0.00 4.00
2349 3443 1.606668 GAGCCTCTCATGGACTACTCG 59.393 57.143 0.00 0.00 0.00 4.18
2423 3519 4.425520 GTCTCAGTTTGCTCGTAGCTATT 58.574 43.478 0.00 0.00 42.97 1.73
2504 3636 6.073003 CGATTAAGGATTGAGTTCATTAGGCC 60.073 42.308 0.00 0.00 0.00 5.19
2523 3655 0.530744 CGTGGTGATTCGAGGAGGAA 59.469 55.000 0.00 0.00 0.00 3.36
2527 3659 1.747355 GGTGATTCGAGGAGGAACGTA 59.253 52.381 0.00 0.00 0.00 3.57
2660 5925 8.978874 ACATAGTTACTTGATTGCCATCATAA 57.021 30.769 0.64 0.00 39.28 1.90
2663 5928 7.338800 AGTTACTTGATTGCCATCATAAAGG 57.661 36.000 0.64 0.00 39.28 3.11
2676 5943 6.129179 CCATCATAAAGGTTAGTGATTGGGT 58.871 40.000 0.00 0.00 0.00 4.51
2797 6132 2.682352 TCGTACATGCCATGGTTGATTG 59.318 45.455 19.78 10.62 33.60 2.67
2798 6133 2.423185 CGTACATGCCATGGTTGATTGT 59.577 45.455 19.78 14.83 33.60 2.71
2799 6134 3.119531 CGTACATGCCATGGTTGATTGTT 60.120 43.478 19.78 3.80 33.60 2.83
2800 6135 3.322211 ACATGCCATGGTTGATTGTTG 57.678 42.857 19.78 7.15 33.60 3.33
2801 6136 2.898612 ACATGCCATGGTTGATTGTTGA 59.101 40.909 19.78 0.00 33.60 3.18
2802 6137 3.516300 ACATGCCATGGTTGATTGTTGAT 59.484 39.130 19.78 0.00 33.60 2.57
2803 6138 4.020039 ACATGCCATGGTTGATTGTTGATT 60.020 37.500 19.78 0.00 33.60 2.57
2861 6204 1.731700 GATTCACGATCCCCGACGA 59.268 57.895 0.00 0.00 41.76 4.20
2876 6219 1.990563 CGACGACAGATGTGTTTACCC 59.009 52.381 0.00 0.00 36.88 3.69
2891 6234 4.641094 TGTTTACCCAGCAAAATATACCGG 59.359 41.667 0.00 0.00 0.00 5.28
2893 6236 3.208747 ACCCAGCAAAATATACCGGAG 57.791 47.619 9.46 0.00 0.00 4.63
2895 6238 2.571212 CCAGCAAAATATACCGGAGCA 58.429 47.619 9.46 0.00 0.00 4.26
2928 6271 1.885887 GCCAAGGTGCATTGTAGTTCA 59.114 47.619 0.00 0.00 0.00 3.18
2932 6275 3.059352 AGGTGCATTGTAGTTCAGTCC 57.941 47.619 0.00 0.00 0.00 3.85
2937 6280 4.218417 GTGCATTGTAGTTCAGTCCCATTT 59.782 41.667 0.00 0.00 0.00 2.32
2951 6294 4.020128 AGTCCCATTTCTTGTAGAGGTCAC 60.020 45.833 0.00 0.00 0.00 3.67
3010 6360 2.653087 GGCCCCGGTTTCTCTACGT 61.653 63.158 0.00 0.00 0.00 3.57
3018 6368 4.692155 CCCGGTTTCTCTACGTGTTTATTT 59.308 41.667 0.00 0.00 0.00 1.40
3021 6371 6.587608 CCGGTTTCTCTACGTGTTTATTTACT 59.412 38.462 0.00 0.00 0.00 2.24
3024 6374 6.956299 TTCTCTACGTGTTTATTTACTGGC 57.044 37.500 0.00 0.00 0.00 4.85
3031 6381 5.048991 ACGTGTTTATTTACTGGCTCCAAAG 60.049 40.000 0.00 0.00 0.00 2.77
3042 6392 1.073284 GGCTCCAAAGGTAGTGGTCAA 59.927 52.381 0.00 0.00 37.43 3.18
3043 6393 2.488347 GGCTCCAAAGGTAGTGGTCAAA 60.488 50.000 0.00 0.00 37.43 2.69
3049 6399 4.022329 CCAAAGGTAGTGGTCAAAATGGTC 60.022 45.833 0.00 0.00 0.00 4.02
3050 6400 4.724279 AAGGTAGTGGTCAAAATGGTCT 57.276 40.909 0.00 0.00 0.00 3.85
3053 6403 4.003648 GGTAGTGGTCAAAATGGTCTGAG 58.996 47.826 0.00 0.00 0.00 3.35
3057 6407 2.642311 TGGTCAAAATGGTCTGAGCCTA 59.358 45.455 4.17 0.00 38.91 3.93
3063 6413 1.853963 ATGGTCTGAGCCTACGAGTT 58.146 50.000 4.17 0.00 0.00 3.01
3074 6424 1.269413 CCTACGAGTTGTTCCACGTGT 60.269 52.381 15.65 0.00 39.28 4.49
3080 6430 3.431856 GAGTTGTTCCACGTGTTTTTCC 58.568 45.455 15.65 0.00 0.00 3.13
3090 6440 2.092592 ACGTGTTTTTCCTGGAGAGGTT 60.093 45.455 0.00 0.00 40.76 3.50
3098 6448 1.971357 TCCTGGAGAGGTTGTCTGTTC 59.029 52.381 0.00 0.00 40.76 3.18
3108 6458 7.148340 GGAGAGGTTGTCTGTTCAATTTATCTG 60.148 40.741 0.00 0.00 34.71 2.90
3112 6462 5.885230 TGTCTGTTCAATTTATCTGCCAG 57.115 39.130 0.00 0.00 0.00 4.85
3116 6466 7.446931 TGTCTGTTCAATTTATCTGCCAGTTTA 59.553 33.333 0.00 0.00 0.00 2.01
3117 6467 8.462016 GTCTGTTCAATTTATCTGCCAGTTTAT 58.538 33.333 0.00 0.00 0.00 1.40
3118 6468 9.023962 TCTGTTCAATTTATCTGCCAGTTTATT 57.976 29.630 0.00 0.00 0.00 1.40
3119 6469 9.643693 CTGTTCAATTTATCTGCCAGTTTATTT 57.356 29.630 0.00 0.00 0.00 1.40
3146 6496 9.995003 ATTGTTTCCAAATATAGCAAAAAGTGA 57.005 25.926 0.00 0.00 33.44 3.41
3147 6497 9.995003 TTGTTTCCAAATATAGCAAAAAGTGAT 57.005 25.926 0.00 0.00 0.00 3.06
3148 6498 9.638239 TGTTTCCAAATATAGCAAAAAGTGATC 57.362 29.630 0.00 0.00 0.00 2.92
3149 6499 9.860898 GTTTCCAAATATAGCAAAAAGTGATCT 57.139 29.630 0.00 0.00 0.00 2.75
3161 6512 7.173218 AGCAAAAAGTGATCTAGATGTTTCGAA 59.827 33.333 10.74 0.00 0.00 3.71
3172 6523 1.200839 GTTTCGAACGCACGACCTG 59.799 57.895 0.00 0.00 41.97 4.00
3175 6526 0.386352 TTCGAACGCACGACCTGTAG 60.386 55.000 0.00 0.00 41.97 2.74
3176 6527 1.800315 CGAACGCACGACCTGTAGG 60.800 63.158 0.00 0.00 42.17 3.18
3177 6528 1.445582 GAACGCACGACCTGTAGGG 60.446 63.158 2.53 0.00 40.27 3.53
3209 6560 7.954447 CGGAGCTACATTTATAATAGACTTGC 58.046 38.462 0.00 0.00 0.00 4.01
3210 6561 7.598869 CGGAGCTACATTTATAATAGACTTGCA 59.401 37.037 0.00 0.00 0.00 4.08
3211 6562 8.713271 GGAGCTACATTTATAATAGACTTGCAC 58.287 37.037 0.00 0.00 0.00 4.57
3212 6563 9.261180 GAGCTACATTTATAATAGACTTGCACA 57.739 33.333 0.00 0.00 0.00 4.57
3213 6564 9.784531 AGCTACATTTATAATAGACTTGCACAT 57.215 29.630 0.00 0.00 0.00 3.21
3226 6577 7.778470 AGACTTGCACATACTTTATAAGAGC 57.222 36.000 0.00 0.00 0.00 4.09
3227 6578 7.331026 AGACTTGCACATACTTTATAAGAGCA 58.669 34.615 0.00 0.00 0.00 4.26
3228 6579 7.824289 AGACTTGCACATACTTTATAAGAGCAA 59.176 33.333 0.00 0.00 37.79 3.91
3229 6580 8.335532 ACTTGCACATACTTTATAAGAGCAAA 57.664 30.769 0.00 0.00 38.74 3.68
3230 6581 8.792633 ACTTGCACATACTTTATAAGAGCAAAA 58.207 29.630 0.00 0.00 38.74 2.44
3231 6582 9.624697 CTTGCACATACTTTATAAGAGCAAAAA 57.375 29.630 0.00 0.00 38.74 1.94
3263 6614 6.799512 AGAATCCAATACTAAACTTGCATGC 58.200 36.000 11.82 11.82 0.00 4.06
3264 6615 6.604795 AGAATCCAATACTAAACTTGCATGCT 59.395 34.615 20.33 0.00 0.00 3.79
3265 6616 5.818136 TCCAATACTAAACTTGCATGCTC 57.182 39.130 20.33 0.00 0.00 4.26
3266 6617 5.252547 TCCAATACTAAACTTGCATGCTCA 58.747 37.500 20.33 4.51 0.00 4.26
3267 6618 5.887598 TCCAATACTAAACTTGCATGCTCAT 59.112 36.000 20.33 0.29 0.00 2.90
3268 6619 6.038603 TCCAATACTAAACTTGCATGCTCATC 59.961 38.462 20.33 0.00 0.00 2.92
3269 6620 6.183360 CCAATACTAAACTTGCATGCTCATCA 60.183 38.462 20.33 0.00 0.00 3.07
3270 6621 4.691860 ACTAAACTTGCATGCTCATCAC 57.308 40.909 20.33 0.00 0.00 3.06
3271 6622 4.074259 ACTAAACTTGCATGCTCATCACA 58.926 39.130 20.33 0.00 0.00 3.58
3272 6623 3.570926 AAACTTGCATGCTCATCACAG 57.429 42.857 20.33 5.84 0.00 3.66
3273 6624 2.195741 ACTTGCATGCTCATCACAGT 57.804 45.000 20.33 6.44 0.00 3.55
3274 6625 3.339253 ACTTGCATGCTCATCACAGTA 57.661 42.857 20.33 0.00 0.00 2.74
3275 6626 3.678289 ACTTGCATGCTCATCACAGTAA 58.322 40.909 20.33 0.00 0.00 2.24
3276 6627 4.074259 ACTTGCATGCTCATCACAGTAAA 58.926 39.130 20.33 0.00 0.00 2.01
3277 6628 4.083110 ACTTGCATGCTCATCACAGTAAAC 60.083 41.667 20.33 0.00 0.00 2.01
3278 6629 3.678289 TGCATGCTCATCACAGTAAACT 58.322 40.909 20.33 0.00 0.00 2.66
3279 6630 4.074259 TGCATGCTCATCACAGTAAACTT 58.926 39.130 20.33 0.00 0.00 2.66
3280 6631 4.083164 TGCATGCTCATCACAGTAAACTTG 60.083 41.667 20.33 0.00 0.00 3.16
3281 6632 4.409570 CATGCTCATCACAGTAAACTTGC 58.590 43.478 0.00 0.00 0.00 4.01
3282 6633 3.475575 TGCTCATCACAGTAAACTTGCA 58.524 40.909 0.00 0.00 0.00 4.08
3283 6634 3.250762 TGCTCATCACAGTAAACTTGCAC 59.749 43.478 0.00 0.00 0.00 4.57
3284 6635 3.250762 GCTCATCACAGTAAACTTGCACA 59.749 43.478 0.00 0.00 0.00 4.57
3285 6636 4.776743 CTCATCACAGTAAACTTGCACAC 58.223 43.478 0.00 0.00 0.00 3.82
3286 6637 3.563808 TCATCACAGTAAACTTGCACACC 59.436 43.478 0.00 0.00 0.00 4.16
3287 6638 3.275617 TCACAGTAAACTTGCACACCT 57.724 42.857 0.00 0.00 0.00 4.00
3288 6639 3.616219 TCACAGTAAACTTGCACACCTT 58.384 40.909 0.00 0.00 0.00 3.50
3289 6640 4.013728 TCACAGTAAACTTGCACACCTTT 58.986 39.130 0.00 0.00 0.00 3.11
3290 6641 4.461081 TCACAGTAAACTTGCACACCTTTT 59.539 37.500 0.00 0.00 0.00 2.27
3291 6642 5.648526 TCACAGTAAACTTGCACACCTTTTA 59.351 36.000 0.00 0.00 0.00 1.52
3292 6643 5.741982 CACAGTAAACTTGCACACCTTTTAC 59.258 40.000 0.00 0.00 34.31 2.01
3293 6644 5.416326 ACAGTAAACTTGCACACCTTTTACA 59.584 36.000 13.24 0.00 35.83 2.41
3294 6645 6.071840 ACAGTAAACTTGCACACCTTTTACAA 60.072 34.615 13.24 0.00 35.83 2.41
3295 6646 6.252655 CAGTAAACTTGCACACCTTTTACAAC 59.747 38.462 13.24 0.00 35.83 3.32
3296 6647 4.792521 AACTTGCACACCTTTTACAACA 57.207 36.364 0.00 0.00 0.00 3.33
3297 6648 4.370364 ACTTGCACACCTTTTACAACAG 57.630 40.909 0.00 0.00 0.00 3.16
3298 6649 2.861462 TGCACACCTTTTACAACAGC 57.139 45.000 0.00 0.00 0.00 4.40
3299 6650 2.095461 TGCACACCTTTTACAACAGCA 58.905 42.857 0.00 0.00 0.00 4.41
3300 6651 2.493675 TGCACACCTTTTACAACAGCAA 59.506 40.909 0.00 0.00 0.00 3.91
3301 6652 3.115554 GCACACCTTTTACAACAGCAAG 58.884 45.455 0.00 0.00 0.00 4.01
3302 6653 3.181491 GCACACCTTTTACAACAGCAAGA 60.181 43.478 0.00 0.00 0.00 3.02
3303 6654 4.351192 CACACCTTTTACAACAGCAAGAC 58.649 43.478 0.00 0.00 0.00 3.01
3304 6655 4.096382 CACACCTTTTACAACAGCAAGACT 59.904 41.667 0.00 0.00 0.00 3.24
3320 6671 7.383102 AGCAAGACTGATATTAACCTTGTTG 57.617 36.000 0.00 0.00 34.97 3.33
3321 6672 7.168219 AGCAAGACTGATATTAACCTTGTTGA 58.832 34.615 0.00 0.00 34.97 3.18
3322 6673 7.831193 AGCAAGACTGATATTAACCTTGTTGAT 59.169 33.333 0.00 0.00 34.97 2.57
3323 6674 9.109393 GCAAGACTGATATTAACCTTGTTGATA 57.891 33.333 0.00 0.00 34.97 2.15
3337 6688 8.940397 ACCTTGTTGATATCATAATTTAGGGG 57.060 34.615 6.17 4.76 0.00 4.79
3338 6689 8.511126 ACCTTGTTGATATCATAATTTAGGGGT 58.489 33.333 6.17 5.31 0.00 4.95
3339 6690 9.367160 CCTTGTTGATATCATAATTTAGGGGTT 57.633 33.333 6.17 0.00 0.00 4.11
3341 6692 8.177119 TGTTGATATCATAATTTAGGGGTTGC 57.823 34.615 6.17 0.00 0.00 4.17
3342 6693 8.004215 TGTTGATATCATAATTTAGGGGTTGCT 58.996 33.333 6.17 0.00 0.00 3.91
3343 6694 8.299570 GTTGATATCATAATTTAGGGGTTGCTG 58.700 37.037 6.17 0.00 0.00 4.41
3344 6695 6.947733 TGATATCATAATTTAGGGGTTGCTGG 59.052 38.462 0.00 0.00 0.00 4.85
3345 6696 4.871871 TCATAATTTAGGGGTTGCTGGA 57.128 40.909 0.00 0.00 0.00 3.86
3346 6697 5.402054 TCATAATTTAGGGGTTGCTGGAT 57.598 39.130 0.00 0.00 0.00 3.41
3347 6698 5.776358 TCATAATTTAGGGGTTGCTGGATT 58.224 37.500 0.00 0.00 0.00 3.01
3348 6699 6.201591 TCATAATTTAGGGGTTGCTGGATTT 58.798 36.000 0.00 0.00 0.00 2.17
3349 6700 7.358263 TCATAATTTAGGGGTTGCTGGATTTA 58.642 34.615 0.00 0.00 0.00 1.40
3350 6701 7.841729 TCATAATTTAGGGGTTGCTGGATTTAA 59.158 33.333 0.00 0.00 0.00 1.52
3351 6702 5.932619 ATTTAGGGGTTGCTGGATTTAAC 57.067 39.130 0.00 0.00 0.00 2.01
3352 6703 2.231716 AGGGGTTGCTGGATTTAACC 57.768 50.000 0.00 0.00 42.39 2.85
3353 6704 1.716503 AGGGGTTGCTGGATTTAACCT 59.283 47.619 0.00 0.00 42.65 3.50
3354 6705 2.923629 AGGGGTTGCTGGATTTAACCTA 59.076 45.455 0.00 0.00 42.65 3.08
3355 6706 3.021695 GGGGTTGCTGGATTTAACCTAC 58.978 50.000 0.00 0.00 42.65 3.18
3356 6707 3.562609 GGGGTTGCTGGATTTAACCTACA 60.563 47.826 0.00 0.00 42.65 2.74
3357 6708 4.278310 GGGTTGCTGGATTTAACCTACAT 58.722 43.478 0.00 0.00 42.65 2.29
3358 6709 4.097892 GGGTTGCTGGATTTAACCTACATG 59.902 45.833 0.00 0.00 42.65 3.21
3359 6710 4.097892 GGTTGCTGGATTTAACCTACATGG 59.902 45.833 0.00 0.00 40.47 3.66
3360 6711 4.853468 TGCTGGATTTAACCTACATGGA 57.147 40.909 0.00 0.00 39.71 3.41
3361 6712 5.387113 TGCTGGATTTAACCTACATGGAT 57.613 39.130 0.00 0.00 39.71 3.41
3362 6713 5.765510 TGCTGGATTTAACCTACATGGATT 58.234 37.500 0.00 0.00 39.71 3.01
3363 6714 6.905736 TGCTGGATTTAACCTACATGGATTA 58.094 36.000 0.00 0.00 39.71 1.75
3364 6715 6.770785 TGCTGGATTTAACCTACATGGATTAC 59.229 38.462 0.00 0.00 39.71 1.89
3365 6716 6.998673 GCTGGATTTAACCTACATGGATTACT 59.001 38.462 0.00 0.00 39.71 2.24
3366 6717 7.041098 GCTGGATTTAACCTACATGGATTACTG 60.041 40.741 0.00 0.00 39.71 2.74
3367 6718 7.287061 TGGATTTAACCTACATGGATTACTGG 58.713 38.462 0.00 0.00 39.71 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 3.122297 CACAAAATGGCACGTGAAATGT 58.878 40.909 22.23 11.43 35.61 2.71
131 138 1.429148 CGGGAGTGAAAGCATACCGC 61.429 60.000 0.00 0.00 42.91 5.68
178 195 1.815421 CGTCCATAGGCTGCCACAC 60.815 63.158 22.65 8.28 0.00 3.82
188 205 0.889638 TCTAGCGAGGCCGTCCATAG 60.890 60.000 0.00 0.00 38.24 2.23
324 343 3.323243 GTTAGTAGTGCACACATCGGTT 58.677 45.455 21.04 0.00 0.00 4.44
372 391 5.064707 ACACACATACACAGAGTTTGTTGTC 59.935 40.000 0.00 0.00 39.88 3.18
577 870 3.122150 GAAACTGCCCCGCAATTTC 57.878 52.632 4.99 4.99 44.88 2.17
609 902 3.418913 CCGACGCAATTCACGGCA 61.419 61.111 4.28 0.00 38.93 5.69
715 1011 5.435686 ACATCCTGGATAACTACTGCAAA 57.564 39.130 9.27 0.00 0.00 3.68
723 1019 6.471146 GCTCATGATAACATCCTGGATAACT 58.529 40.000 9.27 0.00 34.15 2.24
748 1044 3.452474 GCTAAGCATGTCCTAGTGAGTG 58.548 50.000 0.00 0.00 0.00 3.51
750 1046 2.544694 CGGCTAAGCATGTCCTAGTGAG 60.545 54.545 0.00 0.00 0.00 3.51
754 1050 0.390860 AGCGGCTAAGCATGTCCTAG 59.609 55.000 0.00 0.00 40.15 3.02
756 1052 0.745845 CAAGCGGCTAAGCATGTCCT 60.746 55.000 1.35 0.00 40.15 3.85
818 1120 1.153369 GCGTCAGGATGGCTGCTAA 60.153 57.895 0.00 0.00 39.72 3.09
821 1123 0.318441 TATAGCGTCAGGATGGCTGC 59.682 55.000 7.73 0.00 39.72 5.25
822 1124 2.820059 TTATAGCGTCAGGATGGCTG 57.180 50.000 7.73 0.00 39.72 4.85
823 1125 3.733337 CTTTTATAGCGTCAGGATGGCT 58.267 45.455 3.81 3.81 39.72 4.75
824 1126 2.224314 GCTTTTATAGCGTCAGGATGGC 59.776 50.000 0.00 0.00 40.71 4.40
883 1582 3.372206 CGAGATGTTAGAGGTGCTTTTGG 59.628 47.826 0.00 0.00 0.00 3.28
889 1588 4.614993 GCTAGATCGAGATGTTAGAGGTGC 60.615 50.000 7.06 0.00 0.00 5.01
1849 2901 5.093457 GTCATCATTGTTGAGCAAGTCATG 58.907 41.667 0.00 0.00 40.86 3.07
1899 2975 2.979676 TCAAGCAGGCTGGCGTTG 60.980 61.111 17.64 13.34 39.27 4.10
1900 2976 2.980233 GTCAAGCAGGCTGGCGTT 60.980 61.111 17.64 2.88 39.27 4.84
1901 2977 3.772853 TTGTCAAGCAGGCTGGCGT 62.773 57.895 17.64 4.10 39.27 5.68
1902 2978 2.979676 TTGTCAAGCAGGCTGGCG 60.980 61.111 17.64 0.00 39.27 5.69
1903 2979 2.647297 GTTGTCAAGCAGGCTGGC 59.353 61.111 17.64 8.72 0.00 4.85
1904 2980 2.949106 CGTTGTCAAGCAGGCTGG 59.051 61.111 17.64 0.00 0.00 4.85
1905 2981 2.253452 GCGTTGTCAAGCAGGCTG 59.747 61.111 10.94 10.94 0.00 4.85
1906 2982 2.111878 AGCGTTGTCAAGCAGGCT 59.888 55.556 8.92 0.00 35.02 4.58
1907 2983 2.253452 CAGCGTTGTCAAGCAGGC 59.747 61.111 8.92 1.24 35.48 4.85
1908 2984 1.571460 GTCAGCGTTGTCAAGCAGG 59.429 57.895 0.00 2.77 35.48 4.85
1909 2985 0.882042 AGGTCAGCGTTGTCAAGCAG 60.882 55.000 0.00 2.76 35.48 4.24
1910 2986 1.146041 AGGTCAGCGTTGTCAAGCA 59.854 52.632 0.00 0.00 35.48 3.91
1911 2987 1.571460 CAGGTCAGCGTTGTCAAGC 59.429 57.895 0.00 0.00 0.00 4.01
1912 2988 1.571460 GCAGGTCAGCGTTGTCAAG 59.429 57.895 0.00 0.00 0.00 3.02
1913 2989 1.891919 GGCAGGTCAGCGTTGTCAA 60.892 57.895 0.00 0.00 34.64 3.18
1914 2990 2.280797 GGCAGGTCAGCGTTGTCA 60.281 61.111 0.00 0.00 34.64 3.58
1915 2991 3.414700 CGGCAGGTCAGCGTTGTC 61.415 66.667 0.00 0.00 34.64 3.18
1916 2992 3.240134 ATCGGCAGGTCAGCGTTGT 62.240 57.895 0.00 0.00 34.64 3.32
2075 3151 1.208052 GCATGAAGTAGTCTGGGCTCA 59.792 52.381 0.00 0.00 0.00 4.26
2113 3198 4.215742 CCCGTCGCCGCCAAGATA 62.216 66.667 0.00 0.00 0.00 1.98
2190 3275 1.542187 AAGACGCTACCTCCGCCTTT 61.542 55.000 0.00 0.00 0.00 3.11
2349 3443 4.774124 TCAATCAGATCTTCCACATGTCC 58.226 43.478 0.00 0.00 0.00 4.02
2414 3510 6.861065 ACCAAATAACCATCAATAGCTACG 57.139 37.500 0.00 0.00 0.00 3.51
2423 3519 5.067674 GCTAGCATCAACCAAATAACCATCA 59.932 40.000 10.63 0.00 0.00 3.07
2504 3636 0.530744 TTCCTCCTCGAATCACCACG 59.469 55.000 0.00 0.00 0.00 4.94
2523 3655 2.033236 CGCATCAACAAACACACTACGT 60.033 45.455 0.00 0.00 0.00 3.57
2527 3659 1.533756 GCACGCATCAACAAACACACT 60.534 47.619 0.00 0.00 0.00 3.55
2645 5910 6.889177 TCACTAACCTTTATGATGGCAATCAA 59.111 34.615 8.12 0.00 45.81 2.57
2660 5925 2.354328 TCCCACCCAATCACTAACCTT 58.646 47.619 0.00 0.00 0.00 3.50
2663 5928 3.644966 TCATCCCACCCAATCACTAAC 57.355 47.619 0.00 0.00 0.00 2.34
2797 6132 2.586648 ACCAAGACCCCAGAATCAAC 57.413 50.000 0.00 0.00 0.00 3.18
2798 6133 3.655777 AGTAACCAAGACCCCAGAATCAA 59.344 43.478 0.00 0.00 0.00 2.57
2799 6134 3.009033 CAGTAACCAAGACCCCAGAATCA 59.991 47.826 0.00 0.00 0.00 2.57
2800 6135 3.263425 TCAGTAACCAAGACCCCAGAATC 59.737 47.826 0.00 0.00 0.00 2.52
2801 6136 3.009143 GTCAGTAACCAAGACCCCAGAAT 59.991 47.826 0.00 0.00 0.00 2.40
2802 6137 2.370849 GTCAGTAACCAAGACCCCAGAA 59.629 50.000 0.00 0.00 0.00 3.02
2803 6138 1.975680 GTCAGTAACCAAGACCCCAGA 59.024 52.381 0.00 0.00 0.00 3.86
2861 6204 2.949177 TGCTGGGTAAACACATCTGT 57.051 45.000 0.00 0.00 0.00 3.41
2876 6219 2.290641 GGTGCTCCGGTATATTTTGCTG 59.709 50.000 0.00 0.00 0.00 4.41
2891 6234 1.375268 GCTCAGTGAGTGGGTGCTC 60.375 63.158 21.06 0.00 36.12 4.26
2893 6236 2.359230 GGCTCAGTGAGTGGGTGC 60.359 66.667 21.06 6.62 31.39 5.01
2895 6238 1.757306 CTTGGCTCAGTGAGTGGGT 59.243 57.895 21.06 0.00 31.39 4.51
2928 6271 4.020128 GTGACCTCTACAAGAAATGGGACT 60.020 45.833 0.00 0.00 0.00 3.85
2932 6275 5.248640 ACATGTGACCTCTACAAGAAATGG 58.751 41.667 0.00 0.00 0.00 3.16
2937 6280 5.545063 TGAAACATGTGACCTCTACAAGA 57.455 39.130 0.00 0.00 0.00 3.02
2978 6321 3.226777 CCGGGGCCATTATAATTGTGAA 58.773 45.455 4.39 0.00 0.00 3.18
2979 6322 2.175931 ACCGGGGCCATTATAATTGTGA 59.824 45.455 6.32 0.00 0.00 3.58
3010 6360 5.390387 ACCTTTGGAGCCAGTAAATAAACA 58.610 37.500 0.00 0.00 0.00 2.83
3018 6368 1.906574 CCACTACCTTTGGAGCCAGTA 59.093 52.381 0.00 0.00 36.02 2.74
3021 6371 0.690762 GACCACTACCTTTGGAGCCA 59.309 55.000 0.00 0.00 37.58 4.75
3024 6374 4.218417 CCATTTTGACCACTACCTTTGGAG 59.782 45.833 0.00 0.00 37.58 3.86
3031 6381 4.003648 CTCAGACCATTTTGACCACTACC 58.996 47.826 0.00 0.00 0.00 3.18
3042 6392 2.180276 ACTCGTAGGCTCAGACCATTT 58.820 47.619 0.00 0.00 0.00 2.32
3043 6393 1.853963 ACTCGTAGGCTCAGACCATT 58.146 50.000 0.00 0.00 0.00 3.16
3049 6399 1.272490 TGGAACAACTCGTAGGCTCAG 59.728 52.381 0.00 0.00 31.92 3.35
3050 6400 1.000506 GTGGAACAACTCGTAGGCTCA 59.999 52.381 0.00 0.00 44.16 4.26
3053 6403 0.319297 ACGTGGAACAACTCGTAGGC 60.319 55.000 0.00 0.00 44.16 3.93
3057 6407 1.729284 AAACACGTGGAACAACTCGT 58.271 45.000 21.57 0.00 44.16 4.18
3063 6413 1.746220 CCAGGAAAAACACGTGGAACA 59.254 47.619 21.57 0.00 43.30 3.18
3074 6424 3.202151 ACAGACAACCTCTCCAGGAAAAA 59.798 43.478 0.00 0.00 43.65 1.94
3080 6430 3.475566 TTGAACAGACAACCTCTCCAG 57.524 47.619 0.00 0.00 0.00 3.86
3090 6440 5.316167 ACTGGCAGATAAATTGAACAGACA 58.684 37.500 23.66 0.00 0.00 3.41
3122 6472 9.638239 GATCACTTTTTGCTATATTTGGAAACA 57.362 29.630 0.00 0.00 39.83 2.83
3123 6473 9.860898 AGATCACTTTTTGCTATATTTGGAAAC 57.139 29.630 0.00 0.00 0.00 2.78
3143 6493 3.857665 TGCGTTCGAAACATCTAGATCAC 59.142 43.478 1.03 0.00 0.00 3.06
3144 6494 3.857665 GTGCGTTCGAAACATCTAGATCA 59.142 43.478 1.03 0.00 0.00 2.92
3145 6495 3.061797 CGTGCGTTCGAAACATCTAGATC 60.062 47.826 1.03 0.00 0.00 2.75
3146 6496 2.852413 CGTGCGTTCGAAACATCTAGAT 59.148 45.455 0.00 0.00 0.00 1.98
3147 6497 2.095617 TCGTGCGTTCGAAACATCTAGA 60.096 45.455 0.00 0.00 36.89 2.43
3148 6498 2.026507 GTCGTGCGTTCGAAACATCTAG 59.973 50.000 0.00 0.00 41.47 2.43
3149 6499 1.980844 GTCGTGCGTTCGAAACATCTA 59.019 47.619 0.00 0.00 41.47 1.98
3161 6512 4.065281 GCCCTACAGGTCGTGCGT 62.065 66.667 0.00 0.00 38.26 5.24
3172 6523 0.966920 TAGCTCCGCTAATGCCCTAC 59.033 55.000 0.00 0.00 38.27 3.18
3175 6526 0.035458 ATGTAGCTCCGCTAATGCCC 59.965 55.000 0.00 0.00 43.07 5.36
3176 6527 1.884235 AATGTAGCTCCGCTAATGCC 58.116 50.000 0.00 0.00 43.07 4.40
3177 6528 6.721571 TTATAAATGTAGCTCCGCTAATGC 57.278 37.500 0.00 0.00 43.07 3.56
3200 6551 9.482627 GCTCTTATAAAGTATGTGCAAGTCTAT 57.517 33.333 0.00 0.00 0.00 1.98
3201 6552 8.474831 TGCTCTTATAAAGTATGTGCAAGTCTA 58.525 33.333 0.00 0.00 0.00 2.59
3202 6553 7.331026 TGCTCTTATAAAGTATGTGCAAGTCT 58.669 34.615 0.00 0.00 0.00 3.24
3203 6554 7.539712 TGCTCTTATAAAGTATGTGCAAGTC 57.460 36.000 0.00 0.00 0.00 3.01
3204 6555 7.921786 TTGCTCTTATAAAGTATGTGCAAGT 57.078 32.000 0.00 0.00 33.78 3.16
3205 6556 9.624697 TTTTTGCTCTTATAAAGTATGTGCAAG 57.375 29.630 9.59 0.00 38.74 4.01
3237 6588 8.571336 GCATGCAAGTTTAGTATTGGATTCTAT 58.429 33.333 14.21 0.00 35.58 1.98
3238 6589 7.775093 AGCATGCAAGTTTAGTATTGGATTCTA 59.225 33.333 21.98 0.00 35.58 2.10
3239 6590 6.604795 AGCATGCAAGTTTAGTATTGGATTCT 59.395 34.615 21.98 0.00 35.58 2.40
3240 6591 6.799512 AGCATGCAAGTTTAGTATTGGATTC 58.200 36.000 21.98 0.00 35.58 2.52
3241 6592 6.377996 TGAGCATGCAAGTTTAGTATTGGATT 59.622 34.615 21.98 0.00 35.58 3.01
3242 6593 5.887598 TGAGCATGCAAGTTTAGTATTGGAT 59.112 36.000 21.98 0.00 37.89 3.41
3243 6594 5.252547 TGAGCATGCAAGTTTAGTATTGGA 58.747 37.500 21.98 0.00 0.00 3.53
3244 6595 5.565592 TGAGCATGCAAGTTTAGTATTGG 57.434 39.130 21.98 0.00 0.00 3.16
3245 6596 6.690098 GTGATGAGCATGCAAGTTTAGTATTG 59.310 38.462 21.98 0.00 0.00 1.90
3246 6597 6.375174 TGTGATGAGCATGCAAGTTTAGTATT 59.625 34.615 21.98 0.00 0.00 1.89
3247 6598 5.882000 TGTGATGAGCATGCAAGTTTAGTAT 59.118 36.000 21.98 0.00 0.00 2.12
3248 6599 5.244755 TGTGATGAGCATGCAAGTTTAGTA 58.755 37.500 21.98 0.00 0.00 1.82
3249 6600 4.074259 TGTGATGAGCATGCAAGTTTAGT 58.926 39.130 21.98 0.00 0.00 2.24
3250 6601 4.155462 ACTGTGATGAGCATGCAAGTTTAG 59.845 41.667 21.98 11.71 0.00 1.85
3251 6602 4.074259 ACTGTGATGAGCATGCAAGTTTA 58.926 39.130 21.98 0.00 0.00 2.01
3252 6603 2.889045 ACTGTGATGAGCATGCAAGTTT 59.111 40.909 21.98 0.00 0.00 2.66
3253 6604 2.511659 ACTGTGATGAGCATGCAAGTT 58.488 42.857 21.98 0.00 0.00 2.66
3254 6605 2.195741 ACTGTGATGAGCATGCAAGT 57.804 45.000 21.98 4.25 0.00 3.16
3255 6606 4.155462 AGTTTACTGTGATGAGCATGCAAG 59.845 41.667 21.98 7.69 0.00 4.01
3256 6607 4.074259 AGTTTACTGTGATGAGCATGCAA 58.926 39.130 21.98 8.14 0.00 4.08
3257 6608 3.678289 AGTTTACTGTGATGAGCATGCA 58.322 40.909 21.98 0.00 0.00 3.96
3258 6609 4.409570 CAAGTTTACTGTGATGAGCATGC 58.590 43.478 10.51 10.51 0.00 4.06
3259 6610 4.083164 TGCAAGTTTACTGTGATGAGCATG 60.083 41.667 0.00 0.00 0.00 4.06
3260 6611 4.074259 TGCAAGTTTACTGTGATGAGCAT 58.926 39.130 0.00 0.00 0.00 3.79
3261 6612 3.250762 GTGCAAGTTTACTGTGATGAGCA 59.749 43.478 0.00 0.00 0.00 4.26
3262 6613 3.250762 TGTGCAAGTTTACTGTGATGAGC 59.749 43.478 0.00 0.00 0.00 4.26
3263 6614 4.319766 GGTGTGCAAGTTTACTGTGATGAG 60.320 45.833 0.00 0.00 0.00 2.90
3264 6615 3.563808 GGTGTGCAAGTTTACTGTGATGA 59.436 43.478 0.00 0.00 0.00 2.92
3265 6616 3.565482 AGGTGTGCAAGTTTACTGTGATG 59.435 43.478 0.00 0.00 0.00 3.07
3266 6617 3.820557 AGGTGTGCAAGTTTACTGTGAT 58.179 40.909 0.00 0.00 0.00 3.06
3267 6618 3.275617 AGGTGTGCAAGTTTACTGTGA 57.724 42.857 0.00 0.00 0.00 3.58
3268 6619 4.370364 AAAGGTGTGCAAGTTTACTGTG 57.630 40.909 0.00 0.00 0.00 3.66
3269 6620 5.416326 TGTAAAAGGTGTGCAAGTTTACTGT 59.584 36.000 14.68 0.00 36.23 3.55
3270 6621 5.885881 TGTAAAAGGTGTGCAAGTTTACTG 58.114 37.500 14.68 0.00 36.23 2.74
3271 6622 6.071840 TGTTGTAAAAGGTGTGCAAGTTTACT 60.072 34.615 14.68 0.00 36.23 2.24
3272 6623 6.094061 TGTTGTAAAAGGTGTGCAAGTTTAC 58.906 36.000 0.00 0.19 35.94 2.01
3273 6624 6.268825 TGTTGTAAAAGGTGTGCAAGTTTA 57.731 33.333 0.00 0.00 0.00 2.01
3274 6625 5.140747 TGTTGTAAAAGGTGTGCAAGTTT 57.859 34.783 0.00 0.00 0.00 2.66
3275 6626 4.743493 CTGTTGTAAAAGGTGTGCAAGTT 58.257 39.130 0.00 0.00 0.00 2.66
3276 6627 3.428862 GCTGTTGTAAAAGGTGTGCAAGT 60.429 43.478 0.00 0.00 0.00 3.16
3277 6628 3.115554 GCTGTTGTAAAAGGTGTGCAAG 58.884 45.455 0.00 0.00 0.00 4.01
3278 6629 2.493675 TGCTGTTGTAAAAGGTGTGCAA 59.506 40.909 0.00 0.00 0.00 4.08
3279 6630 2.095461 TGCTGTTGTAAAAGGTGTGCA 58.905 42.857 0.00 0.00 0.00 4.57
3280 6631 2.861462 TGCTGTTGTAAAAGGTGTGC 57.139 45.000 0.00 0.00 0.00 4.57
3281 6632 4.096382 AGTCTTGCTGTTGTAAAAGGTGTG 59.904 41.667 0.00 0.00 0.00 3.82
3282 6633 4.096382 CAGTCTTGCTGTTGTAAAAGGTGT 59.904 41.667 0.00 0.00 40.27 4.16
3283 6634 4.335315 TCAGTCTTGCTGTTGTAAAAGGTG 59.665 41.667 0.00 0.00 45.23 4.00
3284 6635 4.523083 TCAGTCTTGCTGTTGTAAAAGGT 58.477 39.130 0.00 0.00 45.23 3.50
3285 6636 5.695851 ATCAGTCTTGCTGTTGTAAAAGG 57.304 39.130 0.00 0.00 45.23 3.11
3288 6639 8.726988 GGTTAATATCAGTCTTGCTGTTGTAAA 58.273 33.333 0.00 0.00 45.23 2.01
3289 6640 8.100791 AGGTTAATATCAGTCTTGCTGTTGTAA 58.899 33.333 0.00 0.00 45.23 2.41
3290 6641 7.620880 AGGTTAATATCAGTCTTGCTGTTGTA 58.379 34.615 0.00 0.00 45.23 2.41
3291 6642 6.476378 AGGTTAATATCAGTCTTGCTGTTGT 58.524 36.000 0.00 0.00 45.23 3.32
3292 6643 6.992063 AGGTTAATATCAGTCTTGCTGTTG 57.008 37.500 0.00 0.00 45.23 3.33
3293 6644 6.942576 ACAAGGTTAATATCAGTCTTGCTGTT 59.057 34.615 0.00 0.00 45.23 3.16
3294 6645 6.476378 ACAAGGTTAATATCAGTCTTGCTGT 58.524 36.000 0.00 0.00 45.23 4.40
3295 6646 6.992063 ACAAGGTTAATATCAGTCTTGCTG 57.008 37.500 0.00 0.00 46.34 4.41
3296 6647 7.168219 TCAACAAGGTTAATATCAGTCTTGCT 58.832 34.615 0.00 0.00 36.15 3.91
3297 6648 7.377766 TCAACAAGGTTAATATCAGTCTTGC 57.622 36.000 0.00 0.00 36.15 4.01
3311 6662 9.367160 CCCCTAAATTATGATATCAACAAGGTT 57.633 33.333 9.99 8.01 0.00 3.50
3312 6663 8.511126 ACCCCTAAATTATGATATCAACAAGGT 58.489 33.333 9.99 6.71 0.00 3.50
3313 6664 8.940397 ACCCCTAAATTATGATATCAACAAGG 57.060 34.615 9.99 10.38 0.00 3.61
3315 6666 8.637986 GCAACCCCTAAATTATGATATCAACAA 58.362 33.333 9.99 7.49 0.00 2.83
3316 6667 8.004215 AGCAACCCCTAAATTATGATATCAACA 58.996 33.333 9.99 0.00 0.00 3.33
3317 6668 8.299570 CAGCAACCCCTAAATTATGATATCAAC 58.700 37.037 9.99 0.00 0.00 3.18
3318 6669 7.451255 CCAGCAACCCCTAAATTATGATATCAA 59.549 37.037 9.99 0.00 0.00 2.57
3319 6670 6.947733 CCAGCAACCCCTAAATTATGATATCA 59.052 38.462 8.10 8.10 0.00 2.15
3320 6671 7.175104 TCCAGCAACCCCTAAATTATGATATC 58.825 38.462 0.00 0.00 0.00 1.63
3321 6672 7.102518 TCCAGCAACCCCTAAATTATGATAT 57.897 36.000 0.00 0.00 0.00 1.63
3322 6673 6.523035 TCCAGCAACCCCTAAATTATGATA 57.477 37.500 0.00 0.00 0.00 2.15
3323 6674 5.402054 TCCAGCAACCCCTAAATTATGAT 57.598 39.130 0.00 0.00 0.00 2.45
3324 6675 4.871871 TCCAGCAACCCCTAAATTATGA 57.128 40.909 0.00 0.00 0.00 2.15
3325 6676 6.484364 AAATCCAGCAACCCCTAAATTATG 57.516 37.500 0.00 0.00 0.00 1.90
3326 6677 7.070696 GGTTAAATCCAGCAACCCCTAAATTAT 59.929 37.037 0.00 0.00 36.51 1.28
3327 6678 6.381707 GGTTAAATCCAGCAACCCCTAAATTA 59.618 38.462 0.00 0.00 36.51 1.40
3328 6679 5.188948 GGTTAAATCCAGCAACCCCTAAATT 59.811 40.000 0.00 0.00 36.51 1.82
3329 6680 4.714802 GGTTAAATCCAGCAACCCCTAAAT 59.285 41.667 0.00 0.00 36.51 1.40
3330 6681 4.090819 GGTTAAATCCAGCAACCCCTAAA 58.909 43.478 0.00 0.00 36.51 1.85
3331 6682 3.335484 AGGTTAAATCCAGCAACCCCTAA 59.665 43.478 0.00 0.00 42.25 2.69
3332 6683 2.923629 AGGTTAAATCCAGCAACCCCTA 59.076 45.455 0.00 0.00 42.25 3.53
3333 6684 1.716503 AGGTTAAATCCAGCAACCCCT 59.283 47.619 0.00 0.00 42.25 4.79
3334 6685 2.231716 AGGTTAAATCCAGCAACCCC 57.768 50.000 0.00 0.00 42.25 4.95
3335 6686 3.692690 TGTAGGTTAAATCCAGCAACCC 58.307 45.455 0.00 0.00 42.25 4.11
3336 6687 4.097892 CCATGTAGGTTAAATCCAGCAACC 59.902 45.833 0.00 0.00 41.72 3.77
3337 6688 4.947388 TCCATGTAGGTTAAATCCAGCAAC 59.053 41.667 0.00 0.00 39.02 4.17
3338 6689 5.186256 TCCATGTAGGTTAAATCCAGCAA 57.814 39.130 0.00 0.00 39.02 3.91
3339 6690 4.853468 TCCATGTAGGTTAAATCCAGCA 57.147 40.909 0.00 0.00 39.02 4.41
3340 6691 6.998673 AGTAATCCATGTAGGTTAAATCCAGC 59.001 38.462 0.00 0.00 39.02 4.85
3341 6692 7.445402 CCAGTAATCCATGTAGGTTAAATCCAG 59.555 40.741 0.00 0.00 39.02 3.86
3342 6693 7.287061 CCAGTAATCCATGTAGGTTAAATCCA 58.713 38.462 0.00 0.00 39.02 3.41
3343 6694 7.745620 CCAGTAATCCATGTAGGTTAAATCC 57.254 40.000 0.00 0.00 39.02 3.01


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

AutoCloner maintained by Alex Coulton.