Multiple sequence alignment - TraesCS6D01G117900

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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 TraesCS6D01G117900 chr6D 100.000 3410 0 0 1 3410 83524267 83527676 0.000000e+00 6298.0
1 TraesCS6D01G117900 chr6D 85.196 1763 252 7 1034 2790 83160399 83158640 0.000000e+00 1801.0
2 TraesCS6D01G117900 chr6D 88.535 157 14 3 3215 3371 83156191 83156039 1.620000e-43 187.0
3 TraesCS6D01G117900 chr6D 98.795 83 1 0 2859 2941 83527050 83526968 7.620000e-32 148.0
4 TraesCS6D01G117900 chr6D 95.833 48 1 1 2953 3000 83527059 83527105 3.650000e-10 76.8
5 TraesCS6D01G117900 chr6D 95.833 48 1 1 2793 2839 83527219 83527266 3.650000e-10 76.8
6 TraesCS6D01G117900 chr6A 95.489 2793 103 4 1 2790 100754427 100757199 0.000000e+00 4438.0
7 TraesCS6D01G117900 chr6A 92.724 2790 184 3 1 2787 100796531 100799304 0.000000e+00 4010.0
8 TraesCS6D01G117900 chr6A 84.184 1802 278 5 971 2767 100738200 100739999 0.000000e+00 1742.0
9 TraesCS6D01G117900 chr6A 84.602 1760 261 8 1034 2786 100228869 100227113 0.000000e+00 1740.0
10 TraesCS6D01G117900 chr6A 90.417 240 17 4 3155 3392 100758449 100758684 9.190000e-81 311.0
11 TraesCS6D01G117900 chr6A 88.750 240 20 5 3155 3392 100800531 100800765 1.550000e-73 287.0
12 TraesCS6D01G117900 chr6A 86.709 158 16 4 3215 3371 100225797 100225644 1.630000e-38 171.0
13 TraesCS6D01G117900 chr6A 95.294 85 4 0 2857 2941 100757195 100757111 5.940000e-28 135.0
14 TraesCS6D01G117900 chr6A 85.366 82 12 0 2860 2941 100799300 100799219 6.060000e-13 86.1
15 TraesCS6D01G117900 chr6A 95.122 41 1 1 3155 3195 100225879 100225840 2.840000e-06 63.9
16 TraesCS6D01G117900 chr6B 92.801 2042 142 3 753 2790 159395701 159397741 0.000000e+00 2952.0
17 TraesCS6D01G117900 chr6B 84.072 1827 281 8 971 2790 159377932 159379755 0.000000e+00 1753.0
18 TraesCS6D01G117900 chr6B 84.064 1826 271 17 971 2786 158163072 158161257 0.000000e+00 1742.0
19 TraesCS6D01G117900 chr6B 82.622 1968 297 25 853 2790 156376146 156374194 0.000000e+00 1698.0
20 TraesCS6D01G117900 chr6B 96.047 860 26 3 34 892 159394848 159395700 0.000000e+00 1393.0
21 TraesCS6D01G117900 chr6B 88.223 467 37 10 2938 3392 159398820 159399280 2.990000e-150 542.0
22 TraesCS6D01G117900 chr6B 85.827 254 9 12 3134 3371 158152751 158152509 9.450000e-61 244.0
23 TraesCS6D01G117900 chr6B 96.471 85 3 0 2857 2941 159397737 159397653 1.280000e-29 141.0
24 TraesCS6D01G117900 chr6B 82.468 154 21 5 603 750 158190099 158189946 2.760000e-26 130.0
25 TraesCS6D01G117900 chr6B 84.146 82 13 0 2857 2938 158161258 158161339 2.820000e-11 80.5
26 TraesCS6D01G117900 chrUn 99.448 181 1 0 274 454 273235949 273236129 2.540000e-86 329.0
27 TraesCS6D01G117900 chrUn 99.448 181 1 0 274 454 432306038 432306218 2.540000e-86 329.0
28 TraesCS6D01G117900 chr7D 99.448 181 1 0 274 454 382015518 382015338 2.540000e-86 329.0
29 TraesCS6D01G117900 chr7B 99.448 181 1 0 274 454 743063456 743063636 2.540000e-86 329.0
30 TraesCS6D01G117900 chr4D 99.448 181 1 0 274 454 123575739 123575919 2.540000e-86 329.0
31 TraesCS6D01G117900 chr1B 99.448 181 1 0 274 454 53342519 53342339 2.540000e-86 329.0


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 TraesCS6D01G117900 chr6D 83524267 83527676 3409 False 2150.533333 6298 97.2220 1 3410 3 chr6D.!!$F1 3409
1 TraesCS6D01G117900 chr6D 83156039 83160399 4360 True 994.000000 1801 86.8655 1034 3371 2 chr6D.!!$R2 2337
2 TraesCS6D01G117900 chr6A 100754427 100758684 4257 False 2374.500000 4438 92.9530 1 3392 2 chr6A.!!$F2 3391
3 TraesCS6D01G117900 chr6A 100796531 100800765 4234 False 2148.500000 4010 90.7370 1 3392 2 chr6A.!!$F3 3391
4 TraesCS6D01G117900 chr6A 100738200 100739999 1799 False 1742.000000 1742 84.1840 971 2767 1 chr6A.!!$F1 1796
5 TraesCS6D01G117900 chr6A 100225644 100228869 3225 True 658.300000 1740 88.8110 1034 3371 3 chr6A.!!$R3 2337
6 TraesCS6D01G117900 chr6B 159377932 159379755 1823 False 1753.000000 1753 84.0720 971 2790 1 chr6B.!!$F2 1819
7 TraesCS6D01G117900 chr6B 158161257 158163072 1815 True 1742.000000 1742 84.0640 971 2786 1 chr6B.!!$R3 1815
8 TraesCS6D01G117900 chr6B 156374194 156376146 1952 True 1698.000000 1698 82.6220 853 2790 1 chr6B.!!$R1 1937
9 TraesCS6D01G117900 chr6B 159394848 159399280 4432 False 1629.000000 2952 92.3570 34 3392 3 chr6B.!!$F3 3358

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
190 194 0.881118 GCCAGATGCCGAAAAGAACA 59.119 50.0 0.0 0.0 0.0 3.18 F
1082 1257 0.471617 GTGCTGCTGATATCCCTGGT 59.528 55.0 0.0 0.0 0.0 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1584 1765 0.251354 AAGATGGTGCGCTGAGACAT 59.749 50.0 9.73 5.76 0.00 3.06 R
2918 5338 0.026803 CAATTAAGAGCACTCGCCGC 59.973 55.0 0.00 0.00 39.83 6.53 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
58 59 9.003658 GTGTATTGCAGATAATACTAGGCAATT 57.996 33.333 13.88 5.11 46.35 2.32
190 194 0.881118 GCCAGATGCCGAAAAGAACA 59.119 50.000 0.00 0.00 0.00 3.18
191 195 1.269448 GCCAGATGCCGAAAAGAACAA 59.731 47.619 0.00 0.00 0.00 2.83
192 196 2.922335 GCCAGATGCCGAAAAGAACAAC 60.922 50.000 0.00 0.00 0.00 3.32
456 461 4.271807 TCCTATGGGAGAGTTGTGATCT 57.728 45.455 0.00 0.00 36.57 2.75
635 646 8.950210 CAGCTAATCTTTGACCAGATTTTCTTA 58.050 33.333 1.43 0.00 40.04 2.10
642 653 9.690913 TCTTTGACCAGATTTTCTTATCATCAT 57.309 29.630 0.00 0.00 0.00 2.45
742 753 1.577736 AGTACTTCAGCCTGGCAGAT 58.422 50.000 22.65 6.94 0.00 2.90
848 999 3.451402 TGTGCTACTAGTCTCCTTGGA 57.549 47.619 0.00 0.00 0.00 3.53
1028 1200 1.269012 CACCATTGCCCAAACAGGAT 58.731 50.000 0.00 0.00 41.22 3.24
1031 1203 2.112998 CCATTGCCCAAACAGGATCAT 58.887 47.619 0.00 0.00 41.22 2.45
1032 1204 2.159014 CCATTGCCCAAACAGGATCATG 60.159 50.000 5.68 5.68 41.22 3.07
1078 1253 2.492012 CTCTTGTGCTGCTGATATCCC 58.508 52.381 0.00 0.00 0.00 3.85
1082 1257 0.471617 GTGCTGCTGATATCCCTGGT 59.528 55.000 0.00 0.00 0.00 4.00
1224 1402 3.415087 GGGATCACCTGCAGCCCT 61.415 66.667 16.71 0.00 35.86 5.19
1338 1516 1.037493 ACCTGTCGTGCAACTCACTA 58.963 50.000 0.00 0.00 43.46 2.74
1446 1624 2.054453 GCTGCCATCTTCAACCCCC 61.054 63.158 0.00 0.00 0.00 5.40
1471 1649 0.737715 GCCTCTGCAGGTAGTGAACG 60.738 60.000 15.13 0.00 42.74 3.95
1547 1728 3.430862 GGTCGCGCTCAATGCCAA 61.431 61.111 5.56 0.00 38.78 4.52
1548 1729 2.099062 GTCGCGCTCAATGCCAAG 59.901 61.111 5.56 0.00 38.78 3.61
1584 1765 3.895656 CTGGGCAGCTACCAACTATACTA 59.104 47.826 5.07 0.00 37.59 1.82
1606 1787 2.289382 TGTCTCAGCGCACCATCTTTTA 60.289 45.455 11.47 0.00 0.00 1.52
1728 1909 0.244178 GTGGGACTCTTCCAGACGAC 59.756 60.000 0.00 0.00 44.98 4.34
1811 1992 3.358118 TCAATGGCATCATCAAGCTCAA 58.642 40.909 0.00 0.00 32.24 3.02
1823 2004 5.182570 TCATCAAGCTCAAAAATCTGGTCAG 59.817 40.000 0.00 0.00 0.00 3.51
1848 2030 2.142292 ATCTTGGGGGCAACGAGCTT 62.142 55.000 0.00 0.00 44.79 3.74
1959 2141 1.302366 CTCTGAGCAACTGCACACAA 58.698 50.000 4.22 0.00 45.16 3.33
2038 2220 3.634397 TCTCAAACCTGCCCAATCTAG 57.366 47.619 0.00 0.00 0.00 2.43
2096 2278 6.127619 GGCAACATTCCAGAAAGCTTATACTT 60.128 38.462 0.00 0.00 0.00 2.24
2106 2288 5.241506 AGAAAGCTTATACTTGTGCAGCAAA 59.758 36.000 0.00 0.00 36.53 3.68
2298 2480 0.323178 CCAACTTCCTGCATGAGGCT 60.323 55.000 0.00 0.00 42.47 4.58
2301 2483 2.877168 CAACTTCCTGCATGAGGCTATC 59.123 50.000 0.00 0.00 42.47 2.08
2310 2492 4.252321 GCATGAGGCTATCCCAGAGGAC 62.252 59.091 0.00 0.00 42.24 3.85
2518 2700 2.023673 CAAACAACAGCTTCACAGGGA 58.976 47.619 0.00 0.00 0.00 4.20
2595 2780 2.278332 AGGTCTTCTTTGAACTGCCC 57.722 50.000 0.00 0.00 31.99 5.36
2720 2906 1.324736 CGGTCAATTAAGAGCACTCGC 59.675 52.381 0.00 0.00 35.83 5.03
2790 2976 2.550830 TCTGCAACCTCAGAAACCTC 57.449 50.000 0.00 0.00 39.89 3.85
2791 2977 1.768275 TCTGCAACCTCAGAAACCTCA 59.232 47.619 0.00 0.00 39.89 3.86
2793 2979 3.152341 CTGCAACCTCAGAAACCTCAAT 58.848 45.455 0.00 0.00 36.19 2.57
2794 2980 3.565307 TGCAACCTCAGAAACCTCAATT 58.435 40.909 0.00 0.00 0.00 2.32
2795 2981 3.318839 TGCAACCTCAGAAACCTCAATTG 59.681 43.478 0.00 0.00 0.00 2.32
2796 2982 3.569701 GCAACCTCAGAAACCTCAATTGA 59.430 43.478 8.12 8.12 0.00 2.57
2797 2983 4.037923 GCAACCTCAGAAACCTCAATTGAA 59.962 41.667 9.88 0.00 0.00 2.69
2798 2984 5.523369 CAACCTCAGAAACCTCAATTGAAC 58.477 41.667 9.88 0.00 0.00 3.18
2799 2985 5.053978 ACCTCAGAAACCTCAATTGAACT 57.946 39.130 9.88 1.91 0.00 3.01
2800 2986 5.449553 ACCTCAGAAACCTCAATTGAACTT 58.550 37.500 9.88 3.01 0.00 2.66
2801 2987 5.300286 ACCTCAGAAACCTCAATTGAACTTG 59.700 40.000 9.88 0.00 0.00 3.16
2802 2988 5.532406 CCTCAGAAACCTCAATTGAACTTGA 59.468 40.000 9.88 6.99 34.14 3.02
2804 2990 7.403312 TCAGAAACCTCAATTGAACTTGAAA 57.597 32.000 9.88 0.00 34.86 2.69
2805 2991 7.257722 TCAGAAACCTCAATTGAACTTGAAAC 58.742 34.615 9.88 0.00 34.86 2.78
2806 2992 7.035004 CAGAAACCTCAATTGAACTTGAAACA 58.965 34.615 9.88 0.00 34.86 2.83
2807 2993 7.545265 CAGAAACCTCAATTGAACTTGAAACAA 59.455 33.333 9.88 0.00 34.86 2.83
2808 2994 7.761249 AGAAACCTCAATTGAACTTGAAACAAG 59.239 33.333 9.88 9.51 34.86 3.16
2810 2996 6.564328 ACCTCAATTGAACTTGAAACAAGAC 58.436 36.000 16.65 10.83 34.86 3.01
2813 2999 8.072567 CCTCAATTGAACTTGAAACAAGACTAG 58.927 37.037 16.65 0.00 34.86 2.57
2814 3000 7.417612 TCAATTGAACTTGAAACAAGACTAGC 58.582 34.615 16.65 3.75 32.35 3.42
2815 3001 7.283127 TCAATTGAACTTGAAACAAGACTAGCT 59.717 33.333 16.65 0.00 32.35 3.32
2816 3002 5.991328 TGAACTTGAAACAAGACTAGCTG 57.009 39.130 16.65 0.00 0.00 4.24
2817 3003 4.273480 TGAACTTGAAACAAGACTAGCTGC 59.727 41.667 16.65 0.00 0.00 5.25
2818 3004 4.078639 ACTTGAAACAAGACTAGCTGCT 57.921 40.909 16.65 7.57 0.00 4.24
2819 3005 5.215252 ACTTGAAACAAGACTAGCTGCTA 57.785 39.130 16.65 9.34 0.00 3.49
2820 3006 4.991687 ACTTGAAACAAGACTAGCTGCTAC 59.008 41.667 16.65 0.00 0.00 3.58
2822 3008 4.956085 TGAAACAAGACTAGCTGCTACAA 58.044 39.130 5.02 0.00 0.00 2.41
2823 3009 4.750098 TGAAACAAGACTAGCTGCTACAAC 59.250 41.667 5.02 0.50 0.00 3.32
2824 3010 4.336889 AACAAGACTAGCTGCTACAACA 57.663 40.909 5.02 0.00 0.00 3.33
2825 3011 4.336889 ACAAGACTAGCTGCTACAACAA 57.663 40.909 5.02 0.00 0.00 2.83
2826 3012 4.058817 ACAAGACTAGCTGCTACAACAAC 58.941 43.478 5.02 0.00 0.00 3.32
2828 3014 4.336889 AGACTAGCTGCTACAACAACAA 57.663 40.909 5.02 0.00 0.00 2.83
2829 3015 4.899502 AGACTAGCTGCTACAACAACAAT 58.100 39.130 5.02 0.00 0.00 2.71
2830 3016 5.308825 AGACTAGCTGCTACAACAACAATT 58.691 37.500 5.02 0.00 0.00 2.32
2831 3017 5.180117 AGACTAGCTGCTACAACAACAATTG 59.820 40.000 5.02 3.24 35.59 2.32
2832 3018 5.063204 ACTAGCTGCTACAACAACAATTGA 58.937 37.500 13.59 0.00 33.57 2.57
2833 3019 4.916983 AGCTGCTACAACAACAATTGAA 57.083 36.364 13.59 0.00 33.57 2.69
2836 3022 4.984161 GCTGCTACAACAACAATTGAACAT 59.016 37.500 13.59 0.00 33.57 2.71
2856 5276 2.512974 CGCCGCCGTAAAAGGGAT 60.513 61.111 0.00 0.00 0.00 3.85
2857 5277 2.531376 CGCCGCCGTAAAAGGGATC 61.531 63.158 0.00 0.00 0.00 3.36
2858 5278 2.184830 GCCGCCGTAAAAGGGATCC 61.185 63.158 1.92 1.92 0.00 3.36
2859 5279 1.525442 CCGCCGTAAAAGGGATCCT 59.475 57.895 12.58 0.00 33.87 3.24
2860 5280 0.814010 CCGCCGTAAAAGGGATCCTG 60.814 60.000 12.58 0.00 32.13 3.86
2861 5281 0.177141 CGCCGTAAAAGGGATCCTGA 59.823 55.000 12.58 0.00 32.13 3.86
2862 5282 1.806623 CGCCGTAAAAGGGATCCTGAG 60.807 57.143 12.58 0.00 32.13 3.35
2863 5283 1.475213 GCCGTAAAAGGGATCCTGAGG 60.475 57.143 12.58 7.08 32.13 3.86
2864 5284 1.838077 CCGTAAAAGGGATCCTGAGGT 59.162 52.381 12.58 0.00 32.13 3.85
2865 5285 2.238898 CCGTAAAAGGGATCCTGAGGTT 59.761 50.000 12.58 2.14 32.13 3.50
2866 5286 3.270877 CGTAAAAGGGATCCTGAGGTTG 58.729 50.000 12.58 0.00 32.13 3.77
2867 5287 2.222227 AAAAGGGATCCTGAGGTTGC 57.778 50.000 12.58 0.00 32.13 4.17
2868 5288 1.075601 AAAGGGATCCTGAGGTTGCA 58.924 50.000 12.58 0.00 32.13 4.08
2869 5289 0.622665 AAGGGATCCTGAGGTTGCAG 59.377 55.000 12.58 0.00 32.13 4.41
2870 5290 0.252881 AGGGATCCTGAGGTTGCAGA 60.253 55.000 12.58 0.00 38.14 4.26
2871 5291 0.842635 GGGATCCTGAGGTTGCAGAT 59.157 55.000 12.58 0.00 38.14 2.90
2872 5292 1.202746 GGGATCCTGAGGTTGCAGATC 60.203 57.143 12.58 2.15 38.14 2.75
2873 5293 1.539929 GGATCCTGAGGTTGCAGATCG 60.540 57.143 3.84 0.00 38.14 3.69
2874 5294 0.179062 ATCCTGAGGTTGCAGATCGC 60.179 55.000 0.00 3.07 38.14 4.58
2875 5295 1.220206 CCTGAGGTTGCAGATCGCT 59.780 57.895 10.16 0.00 43.06 4.93
2876 5296 0.392193 CCTGAGGTTGCAGATCGCTT 60.392 55.000 10.16 0.00 43.06 4.68
2877 5297 0.725686 CTGAGGTTGCAGATCGCTTG 59.274 55.000 10.16 0.00 43.06 4.01
2878 5298 0.321346 TGAGGTTGCAGATCGCTTGA 59.679 50.000 10.16 0.00 43.06 3.02
2879 5299 1.005340 GAGGTTGCAGATCGCTTGAG 58.995 55.000 10.16 0.00 43.06 3.02
2880 5300 0.392193 AGGTTGCAGATCGCTTGAGG 60.392 55.000 10.16 0.00 43.06 3.86
2881 5301 1.372087 GGTTGCAGATCGCTTGAGGG 61.372 60.000 10.16 0.00 43.06 4.30
2882 5302 0.391661 GTTGCAGATCGCTTGAGGGA 60.392 55.000 10.16 0.00 43.06 4.20
2889 5309 1.337118 ATCGCTTGAGGGATCTCTCC 58.663 55.000 20.11 3.73 43.05 3.71
2890 5310 0.260230 TCGCTTGAGGGATCTCTCCT 59.740 55.000 20.11 4.27 41.74 3.69
2891 5311 0.388659 CGCTTGAGGGATCTCTCCTG 59.611 60.000 20.11 13.03 41.74 3.86
2892 5312 1.786937 GCTTGAGGGATCTCTCCTGA 58.213 55.000 20.11 5.29 41.74 3.86
2893 5313 2.328319 GCTTGAGGGATCTCTCCTGAT 58.672 52.381 20.11 0.00 41.74 2.90
2894 5314 3.505386 GCTTGAGGGATCTCTCCTGATA 58.495 50.000 20.11 0.00 41.74 2.15
2895 5315 3.900601 GCTTGAGGGATCTCTCCTGATAA 59.099 47.826 20.11 6.16 41.74 1.75
2896 5316 4.531732 GCTTGAGGGATCTCTCCTGATAAT 59.468 45.833 20.11 0.00 41.74 1.28
2897 5317 5.012975 GCTTGAGGGATCTCTCCTGATAATT 59.987 44.000 20.11 0.00 41.74 1.40
2898 5318 6.465607 GCTTGAGGGATCTCTCCTGATAATTT 60.466 42.308 20.11 0.00 41.74 1.82
2899 5319 6.430962 TGAGGGATCTCTCCTGATAATTTG 57.569 41.667 20.11 0.00 41.74 2.32
2900 5320 5.907662 TGAGGGATCTCTCCTGATAATTTGT 59.092 40.000 20.11 0.00 41.74 2.83
2901 5321 6.388100 TGAGGGATCTCTCCTGATAATTTGTT 59.612 38.462 20.11 0.00 41.74 2.83
2902 5322 6.599445 AGGGATCTCTCCTGATAATTTGTTG 58.401 40.000 0.00 0.00 41.74 3.33
2903 5323 5.767168 GGGATCTCTCCTGATAATTTGTTGG 59.233 44.000 0.00 0.00 41.74 3.77
2904 5324 6.409695 GGGATCTCTCCTGATAATTTGTTGGA 60.410 42.308 0.00 0.00 41.74 3.53
2905 5325 6.709846 GGATCTCTCCTGATAATTTGTTGGAG 59.290 42.308 0.00 0.00 41.57 3.86
2906 5326 5.431765 TCTCTCCTGATAATTTGTTGGAGC 58.568 41.667 0.00 0.00 40.42 4.70
2907 5327 5.190528 TCTCTCCTGATAATTTGTTGGAGCT 59.809 40.000 0.00 0.00 40.42 4.09
2908 5328 5.819991 TCTCCTGATAATTTGTTGGAGCTT 58.180 37.500 0.00 0.00 40.42 3.74
2909 5329 6.957631 TCTCCTGATAATTTGTTGGAGCTTA 58.042 36.000 0.00 0.00 40.42 3.09
2910 5330 7.402054 TCTCCTGATAATTTGTTGGAGCTTAA 58.598 34.615 0.00 0.00 40.42 1.85
2911 5331 7.888021 TCTCCTGATAATTTGTTGGAGCTTAAA 59.112 33.333 0.00 0.00 40.42 1.52
2912 5332 8.593945 TCCTGATAATTTGTTGGAGCTTAAAT 57.406 30.769 0.00 0.00 0.00 1.40
2913 5333 9.034800 TCCTGATAATTTGTTGGAGCTTAAATT 57.965 29.630 0.00 0.00 36.83 1.82
2914 5334 9.090692 CCTGATAATTTGTTGGAGCTTAAATTG 57.909 33.333 0.00 0.00 35.22 2.32
2915 5335 9.859427 CTGATAATTTGTTGGAGCTTAAATTGA 57.141 29.630 0.00 0.00 35.22 2.57
2916 5336 9.859427 TGATAATTTGTTGGAGCTTAAATTGAG 57.141 29.630 0.00 0.00 35.22 3.02
2917 5337 9.860898 GATAATTTGTTGGAGCTTAAATTGAGT 57.139 29.630 0.00 0.00 35.22 3.41
2918 5338 7.951530 AATTTGTTGGAGCTTAAATTGAGTG 57.048 32.000 0.00 0.00 33.05 3.51
2919 5339 4.503741 TGTTGGAGCTTAAATTGAGTGC 57.496 40.909 0.00 0.00 0.00 4.40
2920 5340 3.058293 TGTTGGAGCTTAAATTGAGTGCG 60.058 43.478 0.00 0.00 0.00 5.34
2921 5341 2.083774 TGGAGCTTAAATTGAGTGCGG 58.916 47.619 0.00 0.00 0.00 5.69
2922 5342 1.202188 GGAGCTTAAATTGAGTGCGGC 60.202 52.381 0.00 0.00 0.00 6.53
2923 5343 0.447801 AGCTTAAATTGAGTGCGGCG 59.552 50.000 0.51 0.51 0.00 6.46
2924 5344 0.446222 GCTTAAATTGAGTGCGGCGA 59.554 50.000 12.98 0.00 0.00 5.54
2925 5345 1.529826 GCTTAAATTGAGTGCGGCGAG 60.530 52.381 12.98 0.00 0.00 5.03
2926 5346 1.732259 CTTAAATTGAGTGCGGCGAGT 59.268 47.619 12.98 0.00 0.00 4.18
2927 5347 1.075542 TAAATTGAGTGCGGCGAGTG 58.924 50.000 12.98 0.00 0.00 3.51
2928 5348 2.187599 AAATTGAGTGCGGCGAGTGC 62.188 55.000 12.98 0.00 41.71 4.40
2929 5349 3.596066 ATTGAGTGCGGCGAGTGCT 62.596 57.895 12.98 1.23 42.25 4.40
2930 5350 4.724602 TGAGTGCGGCGAGTGCTC 62.725 66.667 12.98 11.97 42.25 4.26
2931 5351 4.427661 GAGTGCGGCGAGTGCTCT 62.428 66.667 12.98 0.00 42.25 4.09
2932 5352 3.923563 GAGTGCGGCGAGTGCTCTT 62.924 63.158 12.98 0.00 42.25 2.85
2933 5353 2.126071 GTGCGGCGAGTGCTCTTA 60.126 61.111 12.98 0.00 42.25 2.10
2934 5354 1.736645 GTGCGGCGAGTGCTCTTAA 60.737 57.895 12.98 0.00 42.25 1.85
2935 5355 1.084370 GTGCGGCGAGTGCTCTTAAT 61.084 55.000 12.98 0.00 42.25 1.40
2936 5356 0.391130 TGCGGCGAGTGCTCTTAATT 60.391 50.000 12.98 0.00 42.25 1.40
2937 5357 0.026803 GCGGCGAGTGCTCTTAATTG 59.973 55.000 12.98 0.00 42.25 2.32
2938 5358 1.359848 CGGCGAGTGCTCTTAATTGT 58.640 50.000 0.00 0.00 42.25 2.71
2939 5359 1.324736 CGGCGAGTGCTCTTAATTGTC 59.675 52.381 0.00 0.00 42.25 3.18
2944 5364 1.003118 AGTGCTCTTAATTGTCCCGCA 59.997 47.619 0.00 0.00 0.00 5.69
2945 5365 1.130561 GTGCTCTTAATTGTCCCGCAC 59.869 52.381 0.00 0.00 39.31 5.34
2950 5370 3.943479 TAATTGTCCCGCACGCGCT 62.943 57.895 5.73 0.00 38.24 5.92
2967 5387 3.663233 CGCGCTGATTCGAACTTAAAACA 60.663 43.478 5.56 0.00 0.00 2.83
3008 5428 3.507233 ACAATTGAACATCAATCAGGCGT 59.493 39.130 13.59 0.00 45.57 5.68
3090 5524 0.178897 TTGTTTCCCTACCCTCCGGA 60.179 55.000 2.93 2.93 0.00 5.14
3153 5627 4.162690 CGGGGAGCTCCGGGAAAG 62.163 72.222 26.36 9.66 45.78 2.62
3163 5637 3.798511 CGGGAAAGGGGAGAGGGC 61.799 72.222 0.00 0.00 0.00 5.19
3266 5772 3.390521 TTGGGCGCAGGACTCGAT 61.391 61.111 10.83 0.00 0.00 3.59
3278 5784 0.804933 GACTCGATGTTGGGCCGTAC 60.805 60.000 0.00 0.00 0.00 3.67
3290 5796 2.803479 CCGTACGGGGAGCAGTAC 59.197 66.667 27.00 0.00 39.66 2.73
3293 5799 0.179145 CGTACGGGGAGCAGTACTTG 60.179 60.000 7.57 0.00 40.57 3.16
3403 5909 8.587952 AAAAGATAAAATTGGTTTCGGAGTTG 57.412 30.769 0.00 0.00 0.00 3.16
3404 5910 7.519032 AAGATAAAATTGGTTTCGGAGTTGA 57.481 32.000 0.00 0.00 0.00 3.18
3405 5911 7.703058 AGATAAAATTGGTTTCGGAGTTGAT 57.297 32.000 0.00 0.00 0.00 2.57
3406 5912 8.122472 AGATAAAATTGGTTTCGGAGTTGATT 57.878 30.769 0.00 0.00 0.00 2.57
3407 5913 8.028938 AGATAAAATTGGTTTCGGAGTTGATTG 58.971 33.333 0.00 0.00 0.00 2.67
3408 5914 5.782893 AAATTGGTTTCGGAGTTGATTGA 57.217 34.783 0.00 0.00 0.00 2.57
3409 5915 5.982890 AATTGGTTTCGGAGTTGATTGAT 57.017 34.783 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
58 59 3.365969 CGTGTAGTCAGTGCTGTGTCATA 60.366 47.826 0.00 0.00 0.00 2.15
151 152 1.262640 ACCCCTTCGCTCGTATTGGT 61.263 55.000 0.00 0.00 0.00 3.67
190 194 5.070001 TGTTAATGCTGCTCAAACCTAGTT 58.930 37.500 0.00 0.00 0.00 2.24
191 195 4.651778 TGTTAATGCTGCTCAAACCTAGT 58.348 39.130 0.00 0.00 0.00 2.57
192 196 5.627499 TTGTTAATGCTGCTCAAACCTAG 57.373 39.130 0.00 0.00 0.00 3.02
456 461 7.648112 GCACGTACATGATTTAGAGAAGATGTA 59.352 37.037 0.00 0.00 0.00 2.29
642 653 4.227982 TCATTTCATCCCTTCTGGTCATCA 59.772 41.667 0.00 0.00 34.77 3.07
848 999 3.307762 GGGTCTAGGATTGACTGCTGTTT 60.308 47.826 0.00 0.00 35.04 2.83
1028 1200 3.575805 AGAAAAGGCAAGGGAAACATGA 58.424 40.909 0.00 0.00 0.00 3.07
1031 1203 2.433970 CCAAGAAAAGGCAAGGGAAACA 59.566 45.455 0.00 0.00 0.00 2.83
1032 1204 2.698274 TCCAAGAAAAGGCAAGGGAAAC 59.302 45.455 0.00 0.00 0.00 2.78
1082 1257 3.673597 AGGAGCTGGTCGGAGGGA 61.674 66.667 0.00 0.00 0.00 4.20
1113 1288 1.271127 GCTGGAGGAGGGAGCTCTTT 61.271 60.000 14.64 1.52 0.00 2.52
1173 1348 0.974010 AGTCCGTATCCTTCCGCCAA 60.974 55.000 0.00 0.00 0.00 4.52
1224 1402 2.244695 ACATCACTGACCGTCCTGTTA 58.755 47.619 0.00 0.00 0.00 2.41
1264 1442 0.982852 TGCGAGATGGACCCCTCAAT 60.983 55.000 10.48 0.00 0.00 2.57
1471 1649 4.574828 TCCTGTAAACAAGTTGCTTGAGAC 59.425 41.667 14.81 9.62 43.42 3.36
1547 1728 4.459337 GCTGCCCAGTAAAACTATTGTTCT 59.541 41.667 0.00 0.00 34.96 3.01
1548 1729 4.459337 AGCTGCCCAGTAAAACTATTGTTC 59.541 41.667 0.00 0.00 34.96 3.18
1584 1765 0.251354 AAGATGGTGCGCTGAGACAT 59.749 50.000 9.73 5.76 0.00 3.06
1606 1787 5.447279 CGTTAAAACTGAGTTCAAGCACAGT 60.447 40.000 0.00 0.00 43.92 3.55
1728 1909 2.135664 ACGAGGTGACTTTGAAGACG 57.864 50.000 0.00 0.00 44.43 4.18
1811 1992 4.313020 AGATCAAGGCTGACCAGATTTT 57.687 40.909 0.47 0.00 39.06 1.82
1823 2004 1.305213 TTGCCCCCAAGATCAAGGC 60.305 57.895 0.00 0.00 44.13 4.35
1848 2030 3.072330 TGGATTCTGGAATATTGCCGCTA 59.928 43.478 4.35 0.00 0.00 4.26
1959 2141 6.889722 TGCCCTTTAAGCTAATTGTTATGAGT 59.110 34.615 0.00 0.00 0.00 3.41
2106 2288 0.896019 AGAGCCGTAGTGCAGTCAGT 60.896 55.000 0.00 0.00 0.00 3.41
2298 2480 0.033503 TGCTGTCGTCCTCTGGGATA 60.034 55.000 0.00 0.00 44.33 2.59
2301 2483 0.742281 CAATGCTGTCGTCCTCTGGG 60.742 60.000 0.00 0.00 0.00 4.45
2310 2492 3.189080 TCTCAAAACCATCAATGCTGTCG 59.811 43.478 0.00 0.00 0.00 4.35
2408 2590 5.307204 TGCTTTGCAAAAATAGCATCCTTT 58.693 33.333 17.42 0.00 42.33 3.11
2518 2700 7.301868 TCTCCATTAAGGCAGTTGAAATTTT 57.698 32.000 0.00 0.00 37.29 1.82
2595 2780 8.673711 TGGATAAATGGACTGAAAAGATAAACG 58.326 33.333 0.00 0.00 0.00 3.60
2720 2906 2.083774 TGGAGCTTAAATTGAGTGCGG 58.916 47.619 0.00 0.00 0.00 5.69
2790 2976 7.377928 CAGCTAGTCTTGTTTCAAGTTCAATTG 59.622 37.037 0.00 0.00 0.00 2.32
2791 2977 7.420800 CAGCTAGTCTTGTTTCAAGTTCAATT 58.579 34.615 8.93 0.00 0.00 2.32
2793 2979 5.220854 GCAGCTAGTCTTGTTTCAAGTTCAA 60.221 40.000 8.93 0.00 0.00 2.69
2794 2980 4.273480 GCAGCTAGTCTTGTTTCAAGTTCA 59.727 41.667 8.93 0.00 0.00 3.18
2795 2981 4.513318 AGCAGCTAGTCTTGTTTCAAGTTC 59.487 41.667 0.00 4.97 0.00 3.01
2796 2982 4.455606 AGCAGCTAGTCTTGTTTCAAGTT 58.544 39.130 0.00 3.10 0.00 2.66
2797 2983 4.078639 AGCAGCTAGTCTTGTTTCAAGT 57.921 40.909 0.00 0.00 0.00 3.16
2798 2984 4.991056 TGTAGCAGCTAGTCTTGTTTCAAG 59.009 41.667 1.02 3.44 0.00 3.02
2799 2985 4.956085 TGTAGCAGCTAGTCTTGTTTCAA 58.044 39.130 1.02 0.00 0.00 2.69
2800 2986 4.600692 TGTAGCAGCTAGTCTTGTTTCA 57.399 40.909 1.02 0.00 0.00 2.69
2801 2987 4.750098 TGTTGTAGCAGCTAGTCTTGTTTC 59.250 41.667 1.02 0.00 0.00 2.78
2802 2988 4.703897 TGTTGTAGCAGCTAGTCTTGTTT 58.296 39.130 1.02 0.00 0.00 2.83
2804 2990 4.058817 GTTGTTGTAGCAGCTAGTCTTGT 58.941 43.478 1.02 0.00 0.00 3.16
2805 2991 4.058124 TGTTGTTGTAGCAGCTAGTCTTG 58.942 43.478 1.02 0.00 0.00 3.02
2806 2992 4.336889 TGTTGTTGTAGCAGCTAGTCTT 57.663 40.909 1.02 0.00 0.00 3.01
2807 2993 4.336889 TTGTTGTTGTAGCAGCTAGTCT 57.663 40.909 1.02 0.00 0.00 3.24
2808 2994 5.179368 TCAATTGTTGTTGTAGCAGCTAGTC 59.821 40.000 1.02 0.00 0.00 2.59
2810 2996 5.611796 TCAATTGTTGTTGTAGCAGCTAG 57.388 39.130 1.02 0.00 0.00 3.42
2813 2999 4.358851 TGTTCAATTGTTGTTGTAGCAGC 58.641 39.130 5.13 0.00 0.00 5.25
2814 3000 6.142798 GTGATGTTCAATTGTTGTTGTAGCAG 59.857 38.462 5.13 0.00 0.00 4.24
2815 3001 5.976534 GTGATGTTCAATTGTTGTTGTAGCA 59.023 36.000 5.13 0.00 0.00 3.49
2816 3002 5.115472 CGTGATGTTCAATTGTTGTTGTAGC 59.885 40.000 5.13 0.00 0.00 3.58
2817 3003 5.115472 GCGTGATGTTCAATTGTTGTTGTAG 59.885 40.000 5.13 0.00 0.00 2.74
2818 3004 4.973051 GCGTGATGTTCAATTGTTGTTGTA 59.027 37.500 5.13 0.00 0.00 2.41
2819 3005 3.796178 GCGTGATGTTCAATTGTTGTTGT 59.204 39.130 5.13 0.00 0.00 3.32
2820 3006 3.182173 GGCGTGATGTTCAATTGTTGTTG 59.818 43.478 5.13 0.00 0.00 3.33
2822 3008 2.604373 CGGCGTGATGTTCAATTGTTGT 60.604 45.455 5.13 0.00 0.00 3.32
2823 3009 1.978097 CGGCGTGATGTTCAATTGTTG 59.022 47.619 5.13 0.00 0.00 3.33
2824 3010 1.665735 GCGGCGTGATGTTCAATTGTT 60.666 47.619 9.37 0.00 0.00 2.83
2825 3011 0.109781 GCGGCGTGATGTTCAATTGT 60.110 50.000 9.37 0.00 0.00 2.71
2826 3012 0.798009 GGCGGCGTGATGTTCAATTG 60.798 55.000 9.37 0.00 0.00 2.32
2828 3014 2.749865 CGGCGGCGTGATGTTCAAT 61.750 57.895 24.74 0.00 0.00 2.57
2829 3015 2.766875 TACGGCGGCGTGATGTTCAA 62.767 55.000 42.22 20.71 0.00 2.69
2830 3016 2.766875 TTACGGCGGCGTGATGTTCA 62.767 55.000 42.22 21.49 0.00 3.18
2831 3017 1.628447 TTTACGGCGGCGTGATGTTC 61.628 55.000 42.22 0.00 0.00 3.18
2832 3018 1.229315 TTTTACGGCGGCGTGATGTT 61.229 50.000 42.22 20.51 0.00 2.71
2833 3019 1.632046 CTTTTACGGCGGCGTGATGT 61.632 55.000 42.22 21.27 0.00 3.06
2836 3022 2.739287 CCTTTTACGGCGGCGTGA 60.739 61.111 42.22 34.04 0.00 4.35
2851 5271 0.252881 TCTGCAACCTCAGGATCCCT 60.253 55.000 8.55 0.00 34.91 4.20
2854 5274 1.863267 CGATCTGCAACCTCAGGATC 58.137 55.000 0.00 0.00 34.91 3.36
2855 5275 0.179062 GCGATCTGCAACCTCAGGAT 60.179 55.000 0.00 0.00 45.45 3.24
2856 5276 1.219124 GCGATCTGCAACCTCAGGA 59.781 57.895 0.00 0.00 45.45 3.86
2857 5277 3.805267 GCGATCTGCAACCTCAGG 58.195 61.111 0.00 0.00 45.45 3.86
2864 5284 5.607745 GAGATCCCTCAAGCGATCTGCAA 62.608 52.174 11.03 0.00 44.12 4.08
2865 5285 4.173622 GAGATCCCTCAAGCGATCTGCA 62.174 54.545 11.03 0.00 44.12 4.41
2866 5286 0.392336 AGATCCCTCAAGCGATCTGC 59.608 55.000 6.42 1.92 42.82 4.26
2867 5287 1.962807 AGAGATCCCTCAAGCGATCTG 59.037 52.381 11.03 0.00 44.12 2.90
2868 5288 2.238521 GAGAGATCCCTCAAGCGATCT 58.761 52.381 6.85 6.85 46.20 2.75
2869 5289 1.272212 GGAGAGATCCCTCAAGCGATC 59.728 57.143 6.57 0.00 41.87 3.69
2870 5290 1.133199 AGGAGAGATCCCTCAAGCGAT 60.133 52.381 6.57 0.00 41.87 4.58
2871 5291 0.260230 AGGAGAGATCCCTCAAGCGA 59.740 55.000 6.57 0.00 41.87 4.93
2872 5292 0.388659 CAGGAGAGATCCCTCAAGCG 59.611 60.000 6.57 0.00 41.87 4.68
2873 5293 1.786937 TCAGGAGAGATCCCTCAAGC 58.213 55.000 6.57 0.00 41.87 4.01
2874 5294 6.684897 AATTATCAGGAGAGATCCCTCAAG 57.315 41.667 6.57 0.00 41.87 3.02
2875 5295 6.388100 ACAAATTATCAGGAGAGATCCCTCAA 59.612 38.462 6.57 0.00 41.87 3.02
2876 5296 5.907662 ACAAATTATCAGGAGAGATCCCTCA 59.092 40.000 6.57 0.00 41.87 3.86
2877 5297 6.432403 ACAAATTATCAGGAGAGATCCCTC 57.568 41.667 0.00 0.00 39.72 4.30
2878 5298 6.410157 CCAACAAATTATCAGGAGAGATCCCT 60.410 42.308 0.00 0.00 0.00 4.20
2879 5299 5.767168 CCAACAAATTATCAGGAGAGATCCC 59.233 44.000 0.00 0.00 0.00 3.85
2880 5300 6.595682 TCCAACAAATTATCAGGAGAGATCC 58.404 40.000 0.00 0.00 0.00 3.36
2881 5301 6.204495 GCTCCAACAAATTATCAGGAGAGATC 59.796 42.308 16.65 0.00 44.12 2.75
2882 5302 6.060788 GCTCCAACAAATTATCAGGAGAGAT 58.939 40.000 16.65 0.00 44.12 2.75
2883 5303 5.190528 AGCTCCAACAAATTATCAGGAGAGA 59.809 40.000 16.65 0.00 44.12 3.10
2884 5304 5.435291 AGCTCCAACAAATTATCAGGAGAG 58.565 41.667 16.65 3.37 44.12 3.20
2885 5305 5.441718 AGCTCCAACAAATTATCAGGAGA 57.558 39.130 16.65 0.00 44.12 3.71
2886 5306 7.630242 TTAAGCTCCAACAAATTATCAGGAG 57.370 36.000 10.83 10.83 44.19 3.69
2887 5307 8.593945 ATTTAAGCTCCAACAAATTATCAGGA 57.406 30.769 0.00 0.00 0.00 3.86
2888 5308 9.090692 CAATTTAAGCTCCAACAAATTATCAGG 57.909 33.333 0.00 0.00 31.26 3.86
2889 5309 9.859427 TCAATTTAAGCTCCAACAAATTATCAG 57.141 29.630 0.00 0.00 31.26 2.90
2890 5310 9.859427 CTCAATTTAAGCTCCAACAAATTATCA 57.141 29.630 0.00 0.00 31.26 2.15
2891 5311 9.860898 ACTCAATTTAAGCTCCAACAAATTATC 57.139 29.630 0.00 0.00 31.26 1.75
2892 5312 9.643693 CACTCAATTTAAGCTCCAACAAATTAT 57.356 29.630 0.00 0.00 31.26 1.28
2893 5313 7.598493 GCACTCAATTTAAGCTCCAACAAATTA 59.402 33.333 0.00 0.00 31.26 1.40
2894 5314 6.424812 GCACTCAATTTAAGCTCCAACAAATT 59.575 34.615 0.00 0.00 32.29 1.82
2895 5315 5.928264 GCACTCAATTTAAGCTCCAACAAAT 59.072 36.000 0.00 0.00 0.00 2.32
2896 5316 5.288804 GCACTCAATTTAAGCTCCAACAAA 58.711 37.500 0.00 0.00 0.00 2.83
2897 5317 4.556501 CGCACTCAATTTAAGCTCCAACAA 60.557 41.667 0.00 0.00 0.00 2.83
2898 5318 3.058293 CGCACTCAATTTAAGCTCCAACA 60.058 43.478 0.00 0.00 0.00 3.33
2899 5319 3.492313 CGCACTCAATTTAAGCTCCAAC 58.508 45.455 0.00 0.00 0.00 3.77
2900 5320 2.487762 CCGCACTCAATTTAAGCTCCAA 59.512 45.455 0.00 0.00 0.00 3.53
2901 5321 2.083774 CCGCACTCAATTTAAGCTCCA 58.916 47.619 0.00 0.00 0.00 3.86
2902 5322 1.202188 GCCGCACTCAATTTAAGCTCC 60.202 52.381 0.00 0.00 0.00 4.70
2903 5323 1.529826 CGCCGCACTCAATTTAAGCTC 60.530 52.381 0.00 0.00 0.00 4.09
2904 5324 0.447801 CGCCGCACTCAATTTAAGCT 59.552 50.000 0.00 0.00 0.00 3.74
2905 5325 0.446222 TCGCCGCACTCAATTTAAGC 59.554 50.000 0.00 0.00 0.00 3.09
2906 5326 1.732259 ACTCGCCGCACTCAATTTAAG 59.268 47.619 0.00 0.00 0.00 1.85
2907 5327 1.463056 CACTCGCCGCACTCAATTTAA 59.537 47.619 0.00 0.00 0.00 1.52
2908 5328 1.075542 CACTCGCCGCACTCAATTTA 58.924 50.000 0.00 0.00 0.00 1.40
2909 5329 1.868997 CACTCGCCGCACTCAATTT 59.131 52.632 0.00 0.00 0.00 1.82
2910 5330 2.680913 GCACTCGCCGCACTCAATT 61.681 57.895 0.00 0.00 0.00 2.32
2911 5331 3.121030 GCACTCGCCGCACTCAAT 61.121 61.111 0.00 0.00 0.00 2.57
2912 5332 4.299547 AGCACTCGCCGCACTCAA 62.300 61.111 0.00 0.00 39.83 3.02
2913 5333 4.724602 GAGCACTCGCCGCACTCA 62.725 66.667 0.00 0.00 39.83 3.41
2914 5334 2.543687 TAAGAGCACTCGCCGCACTC 62.544 60.000 0.00 0.00 39.83 3.51
2915 5335 2.154798 TTAAGAGCACTCGCCGCACT 62.155 55.000 0.00 0.00 39.83 4.40
2916 5336 1.084370 ATTAAGAGCACTCGCCGCAC 61.084 55.000 0.00 0.00 39.83 5.34
2917 5337 0.391130 AATTAAGAGCACTCGCCGCA 60.391 50.000 0.00 0.00 39.83 5.69
2918 5338 0.026803 CAATTAAGAGCACTCGCCGC 59.973 55.000 0.00 0.00 39.83 6.53
2919 5339 1.324736 GACAATTAAGAGCACTCGCCG 59.675 52.381 0.00 0.00 39.83 6.46
2920 5340 1.666189 GGACAATTAAGAGCACTCGCC 59.334 52.381 0.00 0.00 39.83 5.54
2921 5341 1.666189 GGGACAATTAAGAGCACTCGC 59.334 52.381 0.00 0.00 38.99 5.03
2922 5342 1.927174 CGGGACAATTAAGAGCACTCG 59.073 52.381 0.00 0.00 34.09 4.18
2923 5343 1.666189 GCGGGACAATTAAGAGCACTC 59.334 52.381 0.00 0.00 0.00 3.51
2924 5344 1.003118 TGCGGGACAATTAAGAGCACT 59.997 47.619 0.00 0.00 0.00 4.40
2925 5345 1.130561 GTGCGGGACAATTAAGAGCAC 59.869 52.381 1.93 1.93 44.85 4.40
2926 5346 1.448985 GTGCGGGACAATTAAGAGCA 58.551 50.000 0.00 0.00 0.00 4.26
2927 5347 0.373716 CGTGCGGGACAATTAAGAGC 59.626 55.000 0.00 0.00 0.00 4.09
2928 5348 0.373716 GCGTGCGGGACAATTAAGAG 59.626 55.000 0.00 0.00 0.00 2.85
2929 5349 1.355796 CGCGTGCGGGACAATTAAGA 61.356 55.000 6.30 0.00 35.56 2.10
2930 5350 1.060308 CGCGTGCGGGACAATTAAG 59.940 57.895 6.30 0.00 35.56 1.85
2931 5351 3.029564 GCGCGTGCGGGACAATTAA 62.030 57.895 16.70 0.00 40.19 1.40
2932 5352 3.492545 GCGCGTGCGGGACAATTA 61.493 61.111 16.70 0.00 40.19 1.40
2944 5364 1.705256 TTAAGTTCGAATCAGCGCGT 58.295 45.000 8.43 0.00 0.00 6.01
2945 5365 2.780361 TTTAAGTTCGAATCAGCGCG 57.220 45.000 0.00 0.00 0.00 6.86
2950 5370 7.656137 AGCTAGTCTTGTTTTAAGTTCGAATCA 59.344 33.333 0.00 0.00 0.00 2.57
2967 5387 4.336889 TGTTGTTGTAGCAGCTAGTCTT 57.663 40.909 1.02 0.00 0.00 3.01
3062 5489 3.051210 GGGAAACAAGCCCAGTGC 58.949 61.111 0.00 0.00 45.31 4.40
3069 5496 0.392595 CGGAGGGTAGGGAAACAAGC 60.393 60.000 0.00 0.00 0.00 4.01
3153 5627 4.120755 CAAGCCTGCCCTCTCCCC 62.121 72.222 0.00 0.00 0.00 4.81
3159 5633 2.142292 AATCGAACCAAGCCTGCCCT 62.142 55.000 0.00 0.00 0.00 5.19
3163 5637 1.135575 GCAGAAATCGAACCAAGCCTG 60.136 52.381 0.00 0.00 0.00 4.85
3254 5758 1.811266 CCCAACATCGAGTCCTGCG 60.811 63.158 0.00 0.00 0.00 5.18
3255 5759 2.109126 GCCCAACATCGAGTCCTGC 61.109 63.158 0.00 0.00 0.00 4.85
3278 5784 2.584608 CCCAAGTACTGCTCCCCG 59.415 66.667 0.00 0.00 0.00 5.73
3283 5789 1.074951 GCCAACCCCAAGTACTGCT 59.925 57.895 0.00 0.00 0.00 4.24
3290 5796 2.514458 ATCTGTAAGCCAACCCCAAG 57.486 50.000 0.00 0.00 0.00 3.61
3293 5799 3.279434 CTGTTATCTGTAAGCCAACCCC 58.721 50.000 0.00 0.00 0.00 4.95
3380 5886 7.519032 TCAACTCCGAAACCAATTTTATCTT 57.481 32.000 0.00 0.00 0.00 2.40


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

AutoCloner maintained by Alex Coulton.