Multiple sequence alignment - TraesCS3D01G428700

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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 TraesCS3D01G428700 chr3D 100.000 3011 0 0 1 3011 543007414 543010424 0.000000e+00 5561.0
1 TraesCS3D01G428700 chr3B 91.858 2653 81 54 198 2758 718849208 718851817 0.000000e+00 3578.0
2 TraesCS3D01G428700 chr3B 83.704 270 14 13 1 240 718848954 718849223 8.400000e-56 228.0
3 TraesCS3D01G428700 chr3A 92.649 2299 80 29 528 2758 679694273 679696550 0.000000e+00 3227.0
4 TraesCS3D01G428700 chr3A 88.119 404 31 8 139 525 679692098 679692501 5.880000e-127 464.0
5 TraesCS3D01G428700 chr3A 94.737 76 3 1 68 143 679692002 679692076 1.900000e-22 117.0
6 TraesCS3D01G428700 chr3A 95.556 45 2 0 2819 2863 655539819 655539775 4.160000e-09 73.1
7 TraesCS3D01G428700 chr3A 95.122 41 2 0 2819 2859 658755097 658755137 6.970000e-07 65.8
8 TraesCS3D01G428700 chr1D 85.333 75 3 4 2787 2861 141705970 141706036 1.500000e-08 71.3
9 TraesCS3D01G428700 chr4D 95.349 43 2 0 2819 2861 234413500 234413542 5.390000e-08 69.4
10 TraesCS3D01G428700 chr4B 95.349 43 2 0 2819 2861 270831689 270831731 5.390000e-08 69.4
11 TraesCS3D01G428700 chr2D 95.349 43 2 0 2819 2861 506776615 506776573 5.390000e-08 69.4
12 TraesCS3D01G428700 chr2A 93.617 47 2 1 2819 2865 651599211 651599166 5.390000e-08 69.4
13 TraesCS3D01G428700 chr5A 93.182 44 3 0 2818 2861 328932017 328931974 6.970000e-07 65.8
14 TraesCS3D01G428700 chr1A 95.000 40 2 0 2819 2858 236718414 236718453 2.510000e-06 63.9


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 TraesCS3D01G428700 chr3D 543007414 543010424 3010 False 5561.000000 5561 100.000 1 3011 1 chr3D.!!$F1 3010
1 TraesCS3D01G428700 chr3B 718848954 718851817 2863 False 1903.000000 3578 87.781 1 2758 2 chr3B.!!$F1 2757
2 TraesCS3D01G428700 chr3A 679692002 679696550 4548 False 1269.333333 3227 91.835 68 2758 3 chr3A.!!$F2 2690

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
804 2648 0.322636 TCGGCGTCCTCTTCTCTTCT 60.323 55.0 6.85 0.0 0.0 2.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2432 4376 0.324943 TAAGGCACTCACTCAAGGGC 59.675 55.0 0.0 0.0 45.3 5.19 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
62 63 9.297037 AGAATATGGTGGGTTTAAAGTATATGC 57.703 33.333 0.00 0.00 0.00 3.14
63 64 8.417273 AATATGGTGGGTTTAAAGTATATGCC 57.583 34.615 0.00 0.00 0.00 4.40
132 133 1.167851 GCACAGACAATTAGCCAGCA 58.832 50.000 0.00 0.00 0.00 4.41
242 305 5.350633 CAGTGAGCAATCCAAAACTTTGAA 58.649 37.500 3.72 0.00 40.55 2.69
264 327 7.259882 TGAAATACAAAAATCATAGGCTGCAG 58.740 34.615 10.11 10.11 0.00 4.41
266 329 6.780457 ATACAAAAATCATAGGCTGCAGTT 57.220 33.333 16.64 6.84 0.00 3.16
295 358 1.271762 ACCAGCTACTACGTGTCAGGA 60.272 52.381 0.00 0.00 0.00 3.86
296 359 1.132643 CCAGCTACTACGTGTCAGGAC 59.867 57.143 0.00 0.00 0.00 3.85
305 368 0.525668 CGTGTCAGGACCGTCATAGC 60.526 60.000 0.00 0.00 0.00 2.97
311 374 1.754803 CAGGACCGTCATAGCCTGTAA 59.245 52.381 0.00 0.00 42.26 2.41
348 411 4.216687 GCATAGTAGCTACTCCAGGTGTAG 59.783 50.000 29.28 20.40 40.05 2.74
404 467 3.624861 CAGTTGTTGTCTGACAGCTTTCT 59.375 43.478 22.31 15.10 38.77 2.52
407 470 4.142609 TGTTGTCTGACAGCTTTCTTCT 57.857 40.909 22.31 0.00 30.20 2.85
536 2370 6.415573 AGGGCAGTAAAAATTACTACTCCAG 58.584 40.000 2.68 0.00 0.00 3.86
553 2387 1.068055 CCAGCAAAGCACTTCATCACC 60.068 52.381 0.00 0.00 0.00 4.02
554 2388 1.884579 CAGCAAAGCACTTCATCACCT 59.115 47.619 0.00 0.00 0.00 4.00
670 2513 1.519719 CGGAGGAGGAGCAGGAAAG 59.480 63.158 0.00 0.00 0.00 2.62
738 2581 6.773685 GGGCGTGGTATCTATCTATCTATCTT 59.226 42.308 0.00 0.00 0.00 2.40
804 2648 0.322636 TCGGCGTCCTCTTCTCTTCT 60.323 55.000 6.85 0.00 0.00 2.85
919 2764 1.546476 GCAGGAGGAAGACGAAGAAGA 59.454 52.381 0.00 0.00 0.00 2.87
1947 3853 3.362797 CACCACCAGCAGCAGCAG 61.363 66.667 3.17 0.00 45.49 4.24
2040 3946 3.738982 TGTCCACTTGTTATCACCACAG 58.261 45.455 0.00 0.00 0.00 3.66
2045 3951 3.187227 CACTTGTTATCACCACAGCTGTC 59.813 47.826 18.64 3.43 0.00 3.51
2280 4212 3.881688 CCTTTGATCATCGCCAGAATTCT 59.118 43.478 0.88 0.88 0.00 2.40
2282 4214 3.117491 TGATCATCGCCAGAATTCTCC 57.883 47.619 4.57 0.00 0.00 3.71
2283 4215 2.064762 GATCATCGCCAGAATTCTCCG 58.935 52.381 4.57 11.46 0.00 4.63
2284 4216 0.530650 TCATCGCCAGAATTCTCCGC 60.531 55.000 16.36 14.37 0.00 5.54
2285 4217 0.811219 CATCGCCAGAATTCTCCGCA 60.811 55.000 19.23 10.08 0.00 5.69
2286 4218 0.107456 ATCGCCAGAATTCTCCGCAT 59.893 50.000 19.23 11.42 0.00 4.73
2302 4234 2.014128 CGCATTCCGGTTCAGGTAAAT 58.986 47.619 0.00 0.00 0.00 1.40
2305 4237 4.095185 CGCATTCCGGTTCAGGTAAATAAA 59.905 41.667 0.00 0.00 0.00 1.40
2313 4245 5.107607 CGGTTCAGGTAAATAAATCGATCCG 60.108 44.000 0.00 0.00 0.00 4.18
2314 4246 5.333875 GGTTCAGGTAAATAAATCGATCCGC 60.334 44.000 0.00 0.00 0.00 5.54
2713 4661 6.867662 ATTTGTATCGGACCAATGATTCTC 57.132 37.500 0.00 0.00 0.00 2.87
2716 4664 5.601662 TGTATCGGACCAATGATTCTCTTC 58.398 41.667 0.00 0.00 0.00 2.87
2758 4710 3.561725 GCAGTTGCACTACTTTCTCTTGT 59.438 43.478 0.00 0.00 41.59 3.16
2759 4711 4.035675 GCAGTTGCACTACTTTCTCTTGTT 59.964 41.667 0.00 0.00 41.59 2.83
2760 4712 5.505286 CAGTTGCACTACTTTCTCTTGTTG 58.495 41.667 0.00 0.00 0.00 3.33
2761 4713 5.294306 CAGTTGCACTACTTTCTCTTGTTGA 59.706 40.000 0.00 0.00 0.00 3.18
2762 4714 6.017605 CAGTTGCACTACTTTCTCTTGTTGAT 60.018 38.462 0.00 0.00 0.00 2.57
2763 4715 6.543831 AGTTGCACTACTTTCTCTTGTTGATT 59.456 34.615 0.00 0.00 0.00 2.57
2764 4716 6.942532 TGCACTACTTTCTCTTGTTGATTT 57.057 33.333 0.00 0.00 0.00 2.17
2765 4717 8.342634 GTTGCACTACTTTCTCTTGTTGATTTA 58.657 33.333 0.00 0.00 0.00 1.40
2766 4718 8.621532 TGCACTACTTTCTCTTGTTGATTTAT 57.378 30.769 0.00 0.00 0.00 1.40
2767 4719 8.506437 TGCACTACTTTCTCTTGTTGATTTATG 58.494 33.333 0.00 0.00 0.00 1.90
2768 4720 8.507249 GCACTACTTTCTCTTGTTGATTTATGT 58.493 33.333 0.00 0.00 0.00 2.29
2804 4756 7.811117 CTAGTAATCTAGTACAGCCTCTGTT 57.189 40.000 4.70 0.00 39.03 3.16
2805 4757 6.702716 AGTAATCTAGTACAGCCTCTGTTC 57.297 41.667 4.70 0.32 42.59 3.18
2806 4758 6.188407 AGTAATCTAGTACAGCCTCTGTTCA 58.812 40.000 4.70 0.00 42.59 3.18
2807 4759 4.993029 ATCTAGTACAGCCTCTGTTCAC 57.007 45.455 4.70 0.00 42.59 3.18
2808 4760 4.035612 TCTAGTACAGCCTCTGTTCACT 57.964 45.455 4.70 6.27 42.59 3.41
2809 4761 5.175388 TCTAGTACAGCCTCTGTTCACTA 57.825 43.478 4.70 7.01 42.59 2.74
2810 4762 5.567430 TCTAGTACAGCCTCTGTTCACTAA 58.433 41.667 4.70 0.00 42.59 2.24
2811 4763 6.188407 TCTAGTACAGCCTCTGTTCACTAAT 58.812 40.000 4.70 0.00 42.59 1.73
2812 4764 5.078411 AGTACAGCCTCTGTTCACTAATG 57.922 43.478 4.70 0.00 42.59 1.90
2813 4765 4.528596 AGTACAGCCTCTGTTCACTAATGT 59.471 41.667 4.70 0.00 42.59 2.71
2814 4766 5.715279 AGTACAGCCTCTGTTCACTAATGTA 59.285 40.000 4.70 0.00 42.59 2.29
2815 4767 5.078411 ACAGCCTCTGTTCACTAATGTAG 57.922 43.478 0.00 0.00 42.59 2.74
2816 4768 4.528596 ACAGCCTCTGTTCACTAATGTAGT 59.471 41.667 0.00 0.00 42.59 2.73
2817 4769 5.012148 ACAGCCTCTGTTCACTAATGTAGTT 59.988 40.000 0.00 0.00 42.59 2.24
2818 4770 6.210784 ACAGCCTCTGTTCACTAATGTAGTTA 59.789 38.462 0.00 0.00 42.59 2.24
2819 4771 7.093289 ACAGCCTCTGTTCACTAATGTAGTTAT 60.093 37.037 0.00 0.00 42.59 1.89
2820 4772 7.223582 CAGCCTCTGTTCACTAATGTAGTTATG 59.776 40.741 0.00 0.00 36.76 1.90
2821 4773 7.042335 GCCTCTGTTCACTAATGTAGTTATGT 58.958 38.462 0.00 0.00 36.76 2.29
2822 4774 8.195436 GCCTCTGTTCACTAATGTAGTTATGTA 58.805 37.037 0.00 0.00 36.76 2.29
2823 4775 9.737427 CCTCTGTTCACTAATGTAGTTATGTAG 57.263 37.037 0.00 0.00 36.76 2.74
2824 4776 9.737427 CTCTGTTCACTAATGTAGTTATGTAGG 57.263 37.037 0.00 0.00 36.76 3.18
2825 4777 9.470399 TCTGTTCACTAATGTAGTTATGTAGGA 57.530 33.333 0.00 0.00 36.76 2.94
2826 4778 9.517609 CTGTTCACTAATGTAGTTATGTAGGAC 57.482 37.037 0.00 0.00 36.76 3.85
2827 4779 8.472413 TGTTCACTAATGTAGTTATGTAGGACC 58.528 37.037 0.00 0.00 36.76 4.46
2828 4780 8.693625 GTTCACTAATGTAGTTATGTAGGACCT 58.306 37.037 0.00 0.00 36.76 3.85
2829 4781 8.834004 TCACTAATGTAGTTATGTAGGACCTT 57.166 34.615 0.00 0.00 36.76 3.50
2830 4782 9.263446 TCACTAATGTAGTTATGTAGGACCTTT 57.737 33.333 0.00 0.00 36.76 3.11
2831 4783 9.886132 CACTAATGTAGTTATGTAGGACCTTTT 57.114 33.333 0.00 0.00 36.76 2.27
2832 4784 9.886132 ACTAATGTAGTTATGTAGGACCTTTTG 57.114 33.333 0.00 0.00 34.86 2.44
2834 4786 5.493809 TGTAGTTATGTAGGACCTTTTGGC 58.506 41.667 0.00 0.00 45.59 4.52
2835 4787 4.650972 AGTTATGTAGGACCTTTTGGCA 57.349 40.909 0.00 0.00 45.59 4.92
2836 4788 4.589908 AGTTATGTAGGACCTTTTGGCAG 58.410 43.478 0.00 0.00 45.59 4.85
2837 4789 4.042934 AGTTATGTAGGACCTTTTGGCAGT 59.957 41.667 0.00 0.00 45.59 4.40
2838 4790 3.525800 ATGTAGGACCTTTTGGCAGTT 57.474 42.857 0.00 0.00 45.59 3.16
2839 4791 3.306472 TGTAGGACCTTTTGGCAGTTT 57.694 42.857 0.00 0.00 45.59 2.66
2840 4792 4.440826 TGTAGGACCTTTTGGCAGTTTA 57.559 40.909 0.00 0.00 45.59 2.01
2841 4793 4.794334 TGTAGGACCTTTTGGCAGTTTAA 58.206 39.130 0.00 0.00 45.59 1.52
2842 4794 5.202004 TGTAGGACCTTTTGGCAGTTTAAA 58.798 37.500 0.00 0.00 45.59 1.52
2843 4795 5.836358 TGTAGGACCTTTTGGCAGTTTAAAT 59.164 36.000 0.00 0.00 45.59 1.40
2844 4796 5.887214 AGGACCTTTTGGCAGTTTAAATT 57.113 34.783 0.00 0.00 45.59 1.82
2845 4797 5.610398 AGGACCTTTTGGCAGTTTAAATTG 58.390 37.500 6.35 6.35 45.59 2.32
2846 4798 5.365314 AGGACCTTTTGGCAGTTTAAATTGA 59.635 36.000 14.30 0.00 45.59 2.57
2847 4799 6.052360 GGACCTTTTGGCAGTTTAAATTGAA 58.948 36.000 14.30 0.00 45.59 2.69
2848 4800 6.018262 GGACCTTTTGGCAGTTTAAATTGAAC 60.018 38.462 14.30 6.84 45.59 3.18
2849 4801 6.649155 ACCTTTTGGCAGTTTAAATTGAACT 58.351 32.000 14.30 0.00 45.59 3.01
2858 4810 7.301068 CAGTTTAAATTGAACTGCCAAAACA 57.699 32.000 15.89 0.00 45.02 2.83
2859 4811 7.918643 CAGTTTAAATTGAACTGCCAAAACAT 58.081 30.769 15.89 0.00 45.02 2.71
2860 4812 8.063630 CAGTTTAAATTGAACTGCCAAAACATC 58.936 33.333 15.89 0.00 45.02 3.06
2861 4813 7.226523 AGTTTAAATTGAACTGCCAAAACATCC 59.773 33.333 2.22 0.00 36.08 3.51
2862 4814 4.961438 AATTGAACTGCCAAAACATCCT 57.039 36.364 0.00 0.00 0.00 3.24
2863 4815 4.961438 ATTGAACTGCCAAAACATCCTT 57.039 36.364 0.00 0.00 0.00 3.36
2864 4816 3.731652 TGAACTGCCAAAACATCCTTG 57.268 42.857 0.00 0.00 0.00 3.61
2865 4817 2.364970 TGAACTGCCAAAACATCCTTGG 59.635 45.455 0.00 0.00 45.26 3.61
2866 4818 2.086610 ACTGCCAAAACATCCTTGGT 57.913 45.000 3.70 0.00 44.46 3.67
2867 4819 1.963515 ACTGCCAAAACATCCTTGGTC 59.036 47.619 3.70 0.00 44.46 4.02
2868 4820 1.273327 CTGCCAAAACATCCTTGGTCC 59.727 52.381 3.70 0.00 44.46 4.46
2869 4821 1.337118 GCCAAAACATCCTTGGTCCA 58.663 50.000 3.70 0.00 44.46 4.02
2870 4822 1.691434 GCCAAAACATCCTTGGTCCAA 59.309 47.619 3.76 3.76 44.46 3.53
2871 4823 2.103941 GCCAAAACATCCTTGGTCCAAA 59.896 45.455 5.64 0.00 44.46 3.28
2872 4824 3.432890 GCCAAAACATCCTTGGTCCAAAA 60.433 43.478 5.64 0.00 44.46 2.44
2873 4825 4.126437 CCAAAACATCCTTGGTCCAAAAC 58.874 43.478 5.64 0.00 38.85 2.43
2874 4826 4.383552 CCAAAACATCCTTGGTCCAAAACA 60.384 41.667 5.64 0.00 38.85 2.83
2875 4827 5.367302 CAAAACATCCTTGGTCCAAAACAT 58.633 37.500 5.64 0.00 0.00 2.71
2876 4828 4.871933 AACATCCTTGGTCCAAAACATC 57.128 40.909 5.64 0.00 0.00 3.06
2877 4829 3.165071 ACATCCTTGGTCCAAAACATCC 58.835 45.455 5.64 0.00 0.00 3.51
2878 4830 3.181418 ACATCCTTGGTCCAAAACATCCT 60.181 43.478 5.64 0.00 0.00 3.24
2879 4831 3.611025 TCCTTGGTCCAAAACATCCTT 57.389 42.857 5.64 0.00 0.00 3.36
2880 4832 3.230134 TCCTTGGTCCAAAACATCCTTG 58.770 45.455 5.64 0.00 0.00 3.61
2881 4833 3.117322 TCCTTGGTCCAAAACATCCTTGA 60.117 43.478 5.64 0.00 0.00 3.02
2882 4834 3.640967 CCTTGGTCCAAAACATCCTTGAA 59.359 43.478 5.64 0.00 0.00 2.69
2883 4835 4.501400 CCTTGGTCCAAAACATCCTTGAAC 60.501 45.833 5.64 0.00 0.00 3.18
2884 4836 3.636679 TGGTCCAAAACATCCTTGAACA 58.363 40.909 0.00 0.00 0.00 3.18
2885 4837 3.636300 TGGTCCAAAACATCCTTGAACAG 59.364 43.478 0.00 0.00 0.00 3.16
2886 4838 3.888930 GGTCCAAAACATCCTTGAACAGA 59.111 43.478 0.00 0.00 0.00 3.41
2887 4839 4.022849 GGTCCAAAACATCCTTGAACAGAG 60.023 45.833 0.00 0.00 0.00 3.35
2888 4840 4.022849 GTCCAAAACATCCTTGAACAGAGG 60.023 45.833 0.00 0.00 35.53 3.69
2889 4841 3.305608 CCAAAACATCCTTGAACAGAGGC 60.306 47.826 0.00 0.00 34.17 4.70
2890 4842 2.957402 AACATCCTTGAACAGAGGCA 57.043 45.000 0.00 0.00 34.17 4.75
2891 4843 2.486472 ACATCCTTGAACAGAGGCAG 57.514 50.000 0.00 0.00 34.17 4.85
2892 4844 1.701847 ACATCCTTGAACAGAGGCAGT 59.298 47.619 0.00 0.00 34.17 4.40
2893 4845 2.906389 ACATCCTTGAACAGAGGCAGTA 59.094 45.455 0.00 0.00 34.17 2.74
2894 4846 3.265791 CATCCTTGAACAGAGGCAGTAC 58.734 50.000 0.00 0.00 34.17 2.73
2895 4847 1.272490 TCCTTGAACAGAGGCAGTACG 59.728 52.381 0.00 0.00 34.17 3.67
2896 4848 1.272490 CCTTGAACAGAGGCAGTACGA 59.728 52.381 0.00 0.00 0.00 3.43
2897 4849 2.093973 CCTTGAACAGAGGCAGTACGAT 60.094 50.000 0.00 0.00 0.00 3.73
2898 4850 3.130516 CCTTGAACAGAGGCAGTACGATA 59.869 47.826 0.00 0.00 0.00 2.92
2899 4851 4.202161 CCTTGAACAGAGGCAGTACGATAT 60.202 45.833 0.00 0.00 0.00 1.63
2900 4852 5.339008 TTGAACAGAGGCAGTACGATATT 57.661 39.130 0.00 0.00 0.00 1.28
2901 4853 5.339008 TGAACAGAGGCAGTACGATATTT 57.661 39.130 0.00 0.00 0.00 1.40
2902 4854 5.109210 TGAACAGAGGCAGTACGATATTTG 58.891 41.667 0.00 0.00 0.00 2.32
2903 4855 4.737855 ACAGAGGCAGTACGATATTTGT 57.262 40.909 0.00 0.00 0.00 2.83
2904 4856 5.086104 ACAGAGGCAGTACGATATTTGTT 57.914 39.130 0.00 0.00 0.00 2.83
2905 4857 6.216801 ACAGAGGCAGTACGATATTTGTTA 57.783 37.500 0.00 0.00 0.00 2.41
2906 4858 6.636705 ACAGAGGCAGTACGATATTTGTTAA 58.363 36.000 0.00 0.00 0.00 2.01
2907 4859 6.534079 ACAGAGGCAGTACGATATTTGTTAAC 59.466 38.462 0.00 0.00 0.00 2.01
2908 4860 6.757010 CAGAGGCAGTACGATATTTGTTAACT 59.243 38.462 7.22 0.00 0.00 2.24
2909 4861 7.919091 CAGAGGCAGTACGATATTTGTTAACTA 59.081 37.037 7.22 0.00 0.00 2.24
2910 4862 8.136165 AGAGGCAGTACGATATTTGTTAACTAG 58.864 37.037 7.22 0.00 0.00 2.57
2911 4863 7.208080 AGGCAGTACGATATTTGTTAACTAGG 58.792 38.462 7.22 0.00 0.00 3.02
2912 4864 6.982724 GGCAGTACGATATTTGTTAACTAGGT 59.017 38.462 7.22 0.00 0.00 3.08
2913 4865 7.042925 GGCAGTACGATATTTGTTAACTAGGTG 60.043 40.741 7.22 0.00 0.00 4.00
2914 4866 7.042925 GCAGTACGATATTTGTTAACTAGGTGG 60.043 40.741 7.22 0.00 0.00 4.61
2915 4867 8.192774 CAGTACGATATTTGTTAACTAGGTGGA 58.807 37.037 7.22 0.00 0.00 4.02
2916 4868 8.752187 AGTACGATATTTGTTAACTAGGTGGAA 58.248 33.333 7.22 0.00 0.00 3.53
2917 4869 7.838771 ACGATATTTGTTAACTAGGTGGAAC 57.161 36.000 7.22 0.00 0.00 3.62
2918 4870 7.618137 ACGATATTTGTTAACTAGGTGGAACT 58.382 34.615 7.22 0.00 36.74 3.01
2919 4871 7.548075 ACGATATTTGTTAACTAGGTGGAACTG 59.452 37.037 7.22 0.00 36.74 3.16
2920 4872 7.548075 CGATATTTGTTAACTAGGTGGAACTGT 59.452 37.037 7.22 0.00 36.74 3.55
2921 4873 8.788325 ATATTTGTTAACTAGGTGGAACTGTC 57.212 34.615 7.22 0.00 36.74 3.51
2922 4874 5.881923 TTGTTAACTAGGTGGAACTGTCT 57.118 39.130 7.22 0.00 36.74 3.41
2923 4875 6.982160 TTGTTAACTAGGTGGAACTGTCTA 57.018 37.500 7.22 0.00 36.74 2.59
2924 4876 7.549147 TTGTTAACTAGGTGGAACTGTCTAT 57.451 36.000 7.22 0.00 36.74 1.98
2925 4877 8.654485 TTGTTAACTAGGTGGAACTGTCTATA 57.346 34.615 7.22 0.00 36.74 1.31
2926 4878 8.654485 TGTTAACTAGGTGGAACTGTCTATAA 57.346 34.615 7.22 0.00 36.74 0.98
2927 4879 9.092338 TGTTAACTAGGTGGAACTGTCTATAAA 57.908 33.333 7.22 0.00 36.74 1.40
2931 4883 9.490083 AACTAGGTGGAACTGTCTATAAATAGT 57.510 33.333 0.00 0.00 36.74 2.12
2935 4887 8.915036 AGGTGGAACTGTCTATAAATAGTACTG 58.085 37.037 5.39 0.00 36.74 2.74
2936 4888 8.693625 GGTGGAACTGTCTATAAATAGTACTGT 58.306 37.037 5.39 0.00 36.74 3.55
2964 4916 8.611051 AAGGTAGTAGAATGTTTAGGAGATGT 57.389 34.615 0.00 0.00 0.00 3.06
2965 4917 8.012957 AGGTAGTAGAATGTTTAGGAGATGTG 57.987 38.462 0.00 0.00 0.00 3.21
2966 4918 7.620094 AGGTAGTAGAATGTTTAGGAGATGTGT 59.380 37.037 0.00 0.00 0.00 3.72
2967 4919 8.910944 GGTAGTAGAATGTTTAGGAGATGTGTA 58.089 37.037 0.00 0.00 0.00 2.90
2976 4928 9.975218 ATGTTTAGGAGATGTGTAATTTTAGGT 57.025 29.630 0.00 0.00 0.00 3.08
2977 4929 9.802039 TGTTTAGGAGATGTGTAATTTTAGGTT 57.198 29.630 0.00 0.00 0.00 3.50
2980 4932 9.667107 TTAGGAGATGTGTAATTTTAGGTTCAG 57.333 33.333 0.00 0.00 0.00 3.02
2981 4933 7.918076 AGGAGATGTGTAATTTTAGGTTCAGA 58.082 34.615 0.00 0.00 0.00 3.27
2982 4934 8.043710 AGGAGATGTGTAATTTTAGGTTCAGAG 58.956 37.037 0.00 0.00 0.00 3.35
2983 4935 7.281100 GGAGATGTGTAATTTTAGGTTCAGAGG 59.719 40.741 0.00 0.00 0.00 3.69
2984 4936 6.599638 AGATGTGTAATTTTAGGTTCAGAGGC 59.400 38.462 0.00 0.00 0.00 4.70
2985 4937 5.626142 TGTGTAATTTTAGGTTCAGAGGCA 58.374 37.500 0.00 0.00 0.00 4.75
2986 4938 6.065374 TGTGTAATTTTAGGTTCAGAGGCAA 58.935 36.000 0.00 0.00 0.00 4.52
2987 4939 6.547880 TGTGTAATTTTAGGTTCAGAGGCAAA 59.452 34.615 0.00 0.00 0.00 3.68
2988 4940 7.068839 TGTGTAATTTTAGGTTCAGAGGCAAAA 59.931 33.333 0.00 0.00 0.00 2.44
2989 4941 7.381408 GTGTAATTTTAGGTTCAGAGGCAAAAC 59.619 37.037 0.00 0.00 0.00 2.43
2990 4942 6.731292 AATTTTAGGTTCAGAGGCAAAACT 57.269 33.333 0.00 0.00 0.00 2.66
2991 4943 5.514274 TTTTAGGTTCAGAGGCAAAACTG 57.486 39.130 0.00 0.00 35.72 3.16
2992 4944 4.431416 TTAGGTTCAGAGGCAAAACTGA 57.569 40.909 0.00 0.00 40.66 3.41
2993 4945 3.297134 AGGTTCAGAGGCAAAACTGAA 57.703 42.857 0.00 0.00 46.36 3.02
2997 4949 3.715628 TCAGAGGCAAAACTGAAAAGC 57.284 42.857 0.00 0.00 39.68 3.51
2998 4950 3.290710 TCAGAGGCAAAACTGAAAAGCT 58.709 40.909 0.00 0.00 39.68 3.74
2999 4951 3.701040 TCAGAGGCAAAACTGAAAAGCTT 59.299 39.130 0.00 0.00 39.68 3.74
3000 4952 4.160252 TCAGAGGCAAAACTGAAAAGCTTT 59.840 37.500 5.69 5.69 39.68 3.51
3001 4953 4.269363 CAGAGGCAAAACTGAAAAGCTTTG 59.731 41.667 13.54 2.72 36.38 2.77
3002 4954 4.160252 AGAGGCAAAACTGAAAAGCTTTGA 59.840 37.500 13.54 1.54 31.77 2.69
3003 4955 4.831107 AGGCAAAACTGAAAAGCTTTGAA 58.169 34.783 13.54 3.10 31.77 2.69
3004 4956 4.631377 AGGCAAAACTGAAAAGCTTTGAAC 59.369 37.500 13.54 8.26 31.77 3.18
3005 4957 4.631377 GGCAAAACTGAAAAGCTTTGAACT 59.369 37.500 13.54 0.00 31.77 3.01
3006 4958 5.122239 GGCAAAACTGAAAAGCTTTGAACTT 59.878 36.000 13.54 0.00 31.77 2.66
3007 4959 6.017325 GCAAAACTGAAAAGCTTTGAACTTG 58.983 36.000 13.54 12.27 31.77 3.16
3008 4960 6.536688 CAAAACTGAAAAGCTTTGAACTTGG 58.463 36.000 13.54 2.23 31.77 3.61
3009 4961 5.405935 AACTGAAAAGCTTTGAACTTGGT 57.594 34.783 13.54 2.83 0.00 3.67
3010 4962 4.998788 ACTGAAAAGCTTTGAACTTGGTC 58.001 39.130 13.54 4.39 0.00 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
62 63 3.160545 GTTCAACATTAATCGTGTGCGG 58.839 45.455 0.00 0.00 38.89 5.69
63 64 3.120338 AGGTTCAACATTAATCGTGTGCG 60.120 43.478 0.00 0.00 39.92 5.34
132 133 3.888930 CCTCAAAATACAACACAGGTGGT 59.111 43.478 4.24 0.00 34.80 4.16
242 305 6.780457 ACTGCAGCCTATGATTTTTGTATT 57.220 33.333 15.27 0.00 0.00 1.89
264 327 6.856938 CACGTAGTAGCTGGTTATATCTGAAC 59.143 42.308 0.00 0.00 41.61 3.18
266 329 6.060136 ACACGTAGTAGCTGGTTATATCTGA 58.940 40.000 0.00 0.00 41.61 3.27
295 358 4.591498 TGGAATATTACAGGCTATGACGGT 59.409 41.667 0.00 0.00 0.00 4.83
296 359 5.047306 TCTGGAATATTACAGGCTATGACGG 60.047 44.000 24.54 0.00 39.66 4.79
336 399 0.784495 TGGACCTCTACACCTGGAGT 59.216 55.000 0.00 0.00 0.00 3.85
404 467 2.308866 GAGGAATGGTGGAAAGGGAGAA 59.691 50.000 0.00 0.00 0.00 2.87
407 470 0.999712 GGAGGAATGGTGGAAAGGGA 59.000 55.000 0.00 0.00 0.00 4.20
536 2370 3.503748 ACTTAGGTGATGAAGTGCTTTGC 59.496 43.478 0.00 0.00 34.61 3.68
553 2387 7.394077 GGGTTAGGATCTAGGCTAGTAACTTAG 59.606 44.444 20.45 0.00 0.00 2.18
554 2388 7.074751 AGGGTTAGGATCTAGGCTAGTAACTTA 59.925 40.741 20.45 10.93 0.00 2.24
632 2472 2.982470 CGCTGTCATTTCTTGGCTTTTC 59.018 45.455 0.00 0.00 0.00 2.29
670 2513 2.317149 CTTCCTCCCCTGCGATGTCC 62.317 65.000 0.00 0.00 0.00 4.02
782 2626 2.756283 AGAAGAGGACGCCGAGGG 60.756 66.667 0.00 0.00 0.00 4.30
793 2637 2.622942 CGATGGGGAGAGAAGAGAAGAG 59.377 54.545 0.00 0.00 0.00 2.85
804 2648 2.811514 GCAGATGGCGATGGGGAGA 61.812 63.158 0.00 0.00 0.00 3.71
919 2764 4.379302 AATCAACAGCTTTCCTCCTCTT 57.621 40.909 0.00 0.00 0.00 2.85
1948 3854 3.465403 CTCCCCGTCCTCCTGCTG 61.465 72.222 0.00 0.00 0.00 4.41
1949 3855 4.787280 CCTCCCCGTCCTCCTGCT 62.787 72.222 0.00 0.00 0.00 4.24
2040 3946 4.692625 TCTGCAGAAATTAACAGAGACAGC 59.307 41.667 15.67 0.00 34.35 4.40
2045 3951 6.169094 TCTCCTTCTGCAGAAATTAACAGAG 58.831 40.000 28.16 21.58 40.08 3.35
2073 3979 5.707764 GCATACAGTTTTCTCTCCTTCCTTT 59.292 40.000 0.00 0.00 0.00 3.11
2175 4098 3.217626 AGCCTCTTTTGAGTTTGGACAG 58.782 45.455 0.00 0.00 44.82 3.51
2280 4212 1.259142 TACCTGAACCGGAATGCGGA 61.259 55.000 22.35 0.00 0.00 5.54
2282 4214 1.444836 TTTACCTGAACCGGAATGCG 58.555 50.000 9.46 0.00 0.00 4.73
2283 4215 5.570234 TTTATTTACCTGAACCGGAATGC 57.430 39.130 9.46 0.00 0.00 3.56
2284 4216 6.259167 TCGATTTATTTACCTGAACCGGAATG 59.741 38.462 9.46 0.00 0.00 2.67
2285 4217 6.350906 TCGATTTATTTACCTGAACCGGAAT 58.649 36.000 9.46 0.00 0.00 3.01
2286 4218 5.732633 TCGATTTATTTACCTGAACCGGAA 58.267 37.500 9.46 0.00 0.00 4.30
2327 4260 2.292267 CCTGCTCAAATAAGTCGGCAT 58.708 47.619 0.00 0.00 0.00 4.40
2330 4263 2.555199 CTCCCTGCTCAAATAAGTCGG 58.445 52.381 0.00 0.00 0.00 4.79
2432 4376 0.324943 TAAGGCACTCACTCAAGGGC 59.675 55.000 0.00 0.00 45.30 5.19
2678 4626 6.864165 GGTCCGATACAAATTAAGCAAACAAA 59.136 34.615 0.00 0.00 0.00 2.83
2689 4637 7.056635 AGAGAATCATTGGTCCGATACAAATT 58.943 34.615 0.00 0.00 37.82 1.82
2692 4640 5.614324 AGAGAATCATTGGTCCGATACAA 57.386 39.130 0.00 0.00 37.82 2.41
2696 4644 4.760530 TGAAGAGAATCATTGGTCCGAT 57.239 40.909 0.00 0.00 37.82 4.18
2777 4729 7.365742 ACAGAGGCTGTACTAGATTACTAGTCA 60.366 40.741 12.23 9.82 44.46 3.41
2778 4730 6.993902 ACAGAGGCTGTACTAGATTACTAGTC 59.006 42.308 12.23 6.56 44.46 2.59
2779 4731 6.902408 ACAGAGGCTGTACTAGATTACTAGT 58.098 40.000 13.20 13.20 43.46 2.57
2780 4732 7.499563 TGAACAGAGGCTGTACTAGATTACTAG 59.500 40.741 0.00 0.00 44.62 2.57
2781 4733 7.282675 GTGAACAGAGGCTGTACTAGATTACTA 59.717 40.741 0.00 0.00 44.62 1.82
2782 4734 6.095720 GTGAACAGAGGCTGTACTAGATTACT 59.904 42.308 0.00 0.00 44.62 2.24
2783 4735 6.095720 AGTGAACAGAGGCTGTACTAGATTAC 59.904 42.308 0.00 0.00 44.62 1.89
2784 4736 6.188407 AGTGAACAGAGGCTGTACTAGATTA 58.812 40.000 0.00 0.00 44.62 1.75
2785 4737 5.020132 AGTGAACAGAGGCTGTACTAGATT 58.980 41.667 0.00 0.00 44.62 2.40
2786 4738 4.605183 AGTGAACAGAGGCTGTACTAGAT 58.395 43.478 0.00 0.00 44.62 1.98
2787 4739 4.035612 AGTGAACAGAGGCTGTACTAGA 57.964 45.455 0.00 0.00 44.62 2.43
2788 4740 5.899120 TTAGTGAACAGAGGCTGTACTAG 57.101 43.478 0.00 0.00 44.62 2.57
2789 4741 5.715279 ACATTAGTGAACAGAGGCTGTACTA 59.285 40.000 0.00 3.73 44.62 1.82
2790 4742 4.528596 ACATTAGTGAACAGAGGCTGTACT 59.471 41.667 0.00 4.64 44.62 2.73
2791 4743 4.822026 ACATTAGTGAACAGAGGCTGTAC 58.178 43.478 0.00 0.00 44.62 2.90
2792 4744 5.715279 ACTACATTAGTGAACAGAGGCTGTA 59.285 40.000 0.00 0.00 39.73 2.74
2793 4745 4.528596 ACTACATTAGTGAACAGAGGCTGT 59.471 41.667 0.00 0.00 41.25 4.40
2794 4746 5.078411 ACTACATTAGTGAACAGAGGCTG 57.922 43.478 0.00 0.00 37.69 4.85
2795 4747 5.746990 AACTACATTAGTGAACAGAGGCT 57.253 39.130 0.00 0.00 39.39 4.58
2796 4748 7.042335 ACATAACTACATTAGTGAACAGAGGC 58.958 38.462 0.00 0.00 39.39 4.70
2797 4749 9.737427 CTACATAACTACATTAGTGAACAGAGG 57.263 37.037 0.00 0.00 39.39 3.69
2798 4750 9.737427 CCTACATAACTACATTAGTGAACAGAG 57.263 37.037 0.00 0.00 39.39 3.35
2799 4751 9.470399 TCCTACATAACTACATTAGTGAACAGA 57.530 33.333 0.00 0.00 39.39 3.41
2800 4752 9.517609 GTCCTACATAACTACATTAGTGAACAG 57.482 37.037 0.00 0.00 39.39 3.16
2801 4753 8.472413 GGTCCTACATAACTACATTAGTGAACA 58.528 37.037 0.00 0.00 39.39 3.18
2802 4754 8.693625 AGGTCCTACATAACTACATTAGTGAAC 58.306 37.037 0.00 0.00 39.39 3.18
2803 4755 8.834004 AGGTCCTACATAACTACATTAGTGAA 57.166 34.615 0.00 0.00 39.39 3.18
2804 4756 8.834004 AAGGTCCTACATAACTACATTAGTGA 57.166 34.615 0.00 0.00 39.39 3.41
2805 4757 9.886132 AAAAGGTCCTACATAACTACATTAGTG 57.114 33.333 0.00 0.00 39.39 2.74
2806 4758 9.886132 CAAAAGGTCCTACATAACTACATTAGT 57.114 33.333 0.00 0.00 41.73 2.24
2807 4759 9.326413 CCAAAAGGTCCTACATAACTACATTAG 57.674 37.037 0.00 0.00 0.00 1.73
2808 4760 7.771826 GCCAAAAGGTCCTACATAACTACATTA 59.228 37.037 0.00 0.00 0.00 1.90
2809 4761 6.602009 GCCAAAAGGTCCTACATAACTACATT 59.398 38.462 0.00 0.00 0.00 2.71
2810 4762 6.120220 GCCAAAAGGTCCTACATAACTACAT 58.880 40.000 0.00 0.00 0.00 2.29
2811 4763 5.013287 TGCCAAAAGGTCCTACATAACTACA 59.987 40.000 0.00 0.00 0.00 2.74
2812 4764 5.493809 TGCCAAAAGGTCCTACATAACTAC 58.506 41.667 0.00 0.00 0.00 2.73
2813 4765 5.249852 ACTGCCAAAAGGTCCTACATAACTA 59.750 40.000 0.00 0.00 0.00 2.24
2814 4766 4.042934 ACTGCCAAAAGGTCCTACATAACT 59.957 41.667 0.00 0.00 0.00 2.24
2815 4767 4.332828 ACTGCCAAAAGGTCCTACATAAC 58.667 43.478 0.00 0.00 0.00 1.89
2816 4768 4.650972 ACTGCCAAAAGGTCCTACATAA 57.349 40.909 0.00 0.00 0.00 1.90
2817 4769 4.650972 AACTGCCAAAAGGTCCTACATA 57.349 40.909 0.00 0.00 0.00 2.29
2818 4770 3.525800 AACTGCCAAAAGGTCCTACAT 57.474 42.857 0.00 0.00 0.00 2.29
2819 4771 3.306472 AAACTGCCAAAAGGTCCTACA 57.694 42.857 0.00 0.00 0.00 2.74
2820 4772 5.777850 TTTAAACTGCCAAAAGGTCCTAC 57.222 39.130 0.00 0.00 0.00 3.18
2821 4773 6.551601 TCAATTTAAACTGCCAAAAGGTCCTA 59.448 34.615 0.00 0.00 0.00 2.94
2822 4774 5.365314 TCAATTTAAACTGCCAAAAGGTCCT 59.635 36.000 0.00 0.00 0.00 3.85
2823 4775 5.606505 TCAATTTAAACTGCCAAAAGGTCC 58.393 37.500 0.00 0.00 0.00 4.46
2824 4776 6.761242 AGTTCAATTTAAACTGCCAAAAGGTC 59.239 34.615 2.85 0.00 35.68 3.85
2825 4777 6.538381 CAGTTCAATTTAAACTGCCAAAAGGT 59.462 34.615 14.40 0.00 44.94 3.50
2826 4778 6.947258 CAGTTCAATTTAAACTGCCAAAAGG 58.053 36.000 14.40 0.00 44.94 3.11
2835 4787 7.226523 GGATGTTTTGGCAGTTCAATTTAAACT 59.773 33.333 7.05 0.00 37.44 2.66
2836 4788 7.226523 AGGATGTTTTGGCAGTTCAATTTAAAC 59.773 33.333 0.00 0.00 0.00 2.01
2837 4789 7.278875 AGGATGTTTTGGCAGTTCAATTTAAA 58.721 30.769 0.00 0.00 0.00 1.52
2838 4790 6.825610 AGGATGTTTTGGCAGTTCAATTTAA 58.174 32.000 0.00 0.00 0.00 1.52
2839 4791 6.418057 AGGATGTTTTGGCAGTTCAATTTA 57.582 33.333 0.00 0.00 0.00 1.40
2840 4792 5.294734 AGGATGTTTTGGCAGTTCAATTT 57.705 34.783 0.00 0.00 0.00 1.82
2841 4793 4.961438 AGGATGTTTTGGCAGTTCAATT 57.039 36.364 0.00 0.00 0.00 2.32
2842 4794 4.503643 CCAAGGATGTTTTGGCAGTTCAAT 60.504 41.667 0.00 0.00 38.73 2.57
2843 4795 3.181467 CCAAGGATGTTTTGGCAGTTCAA 60.181 43.478 0.00 0.00 38.73 2.69
2844 4796 2.364970 CCAAGGATGTTTTGGCAGTTCA 59.635 45.455 0.00 0.00 38.73 3.18
2845 4797 3.030668 CCAAGGATGTTTTGGCAGTTC 57.969 47.619 0.00 0.00 38.73 3.01
2852 4804 4.764172 TGTTTTGGACCAAGGATGTTTTG 58.236 39.130 7.07 0.00 0.00 2.44
2853 4805 5.454613 GGATGTTTTGGACCAAGGATGTTTT 60.455 40.000 7.07 0.00 0.00 2.43
2854 4806 4.040339 GGATGTTTTGGACCAAGGATGTTT 59.960 41.667 7.07 0.00 0.00 2.83
2855 4807 3.578282 GGATGTTTTGGACCAAGGATGTT 59.422 43.478 7.07 0.00 0.00 2.71
2856 4808 3.165071 GGATGTTTTGGACCAAGGATGT 58.835 45.455 7.07 0.00 0.00 3.06
2857 4809 3.434309 AGGATGTTTTGGACCAAGGATG 58.566 45.455 7.07 0.00 0.00 3.51
2858 4810 3.833559 AGGATGTTTTGGACCAAGGAT 57.166 42.857 7.07 0.91 0.00 3.24
2859 4811 3.117322 TCAAGGATGTTTTGGACCAAGGA 60.117 43.478 7.07 0.00 0.00 3.36
2860 4812 3.230134 TCAAGGATGTTTTGGACCAAGG 58.770 45.455 7.07 0.00 0.00 3.61
2861 4813 4.099266 TGTTCAAGGATGTTTTGGACCAAG 59.901 41.667 7.07 0.00 33.89 3.61
2862 4814 4.026744 TGTTCAAGGATGTTTTGGACCAA 58.973 39.130 1.69 1.69 33.89 3.67
2863 4815 3.636300 CTGTTCAAGGATGTTTTGGACCA 59.364 43.478 0.00 0.00 33.89 4.02
2864 4816 3.888930 TCTGTTCAAGGATGTTTTGGACC 59.111 43.478 0.00 0.00 33.89 4.46
2865 4817 4.022849 CCTCTGTTCAAGGATGTTTTGGAC 60.023 45.833 0.00 0.00 35.83 4.02
2866 4818 4.144297 CCTCTGTTCAAGGATGTTTTGGA 58.856 43.478 0.00 0.00 35.83 3.53
2867 4819 3.305608 GCCTCTGTTCAAGGATGTTTTGG 60.306 47.826 0.00 0.00 35.83 3.28
2868 4820 3.318839 TGCCTCTGTTCAAGGATGTTTTG 59.681 43.478 0.00 0.00 35.83 2.44
2869 4821 3.565307 TGCCTCTGTTCAAGGATGTTTT 58.435 40.909 0.00 0.00 35.83 2.43
2870 4822 3.152341 CTGCCTCTGTTCAAGGATGTTT 58.848 45.455 0.00 0.00 35.83 2.83
2871 4823 2.107204 ACTGCCTCTGTTCAAGGATGTT 59.893 45.455 0.00 0.00 35.83 2.71
2872 4824 1.701847 ACTGCCTCTGTTCAAGGATGT 59.298 47.619 0.00 0.00 35.83 3.06
2873 4825 2.486472 ACTGCCTCTGTTCAAGGATG 57.514 50.000 0.00 0.00 35.83 3.51
2874 4826 2.093973 CGTACTGCCTCTGTTCAAGGAT 60.094 50.000 0.00 0.00 35.83 3.24
2875 4827 1.272490 CGTACTGCCTCTGTTCAAGGA 59.728 52.381 0.00 0.00 35.83 3.36
2876 4828 1.272490 TCGTACTGCCTCTGTTCAAGG 59.728 52.381 0.00 0.00 36.95 3.61
2877 4829 2.724977 TCGTACTGCCTCTGTTCAAG 57.275 50.000 0.00 0.00 0.00 3.02
2878 4830 5.339008 AATATCGTACTGCCTCTGTTCAA 57.661 39.130 0.00 0.00 0.00 2.69
2879 4831 5.109210 CAAATATCGTACTGCCTCTGTTCA 58.891 41.667 0.00 0.00 0.00 3.18
2880 4832 5.109903 ACAAATATCGTACTGCCTCTGTTC 58.890 41.667 0.00 0.00 0.00 3.18
2881 4833 5.086104 ACAAATATCGTACTGCCTCTGTT 57.914 39.130 0.00 0.00 0.00 3.16
2882 4834 4.737855 ACAAATATCGTACTGCCTCTGT 57.262 40.909 0.00 0.00 0.00 3.41
2883 4835 6.757010 AGTTAACAAATATCGTACTGCCTCTG 59.243 38.462 8.61 0.00 0.00 3.35
2884 4836 6.875076 AGTTAACAAATATCGTACTGCCTCT 58.125 36.000 8.61 0.00 0.00 3.69
2885 4837 7.381678 CCTAGTTAACAAATATCGTACTGCCTC 59.618 40.741 8.61 0.00 0.00 4.70
2886 4838 7.147776 ACCTAGTTAACAAATATCGTACTGCCT 60.148 37.037 8.61 0.00 0.00 4.75
2887 4839 6.982724 ACCTAGTTAACAAATATCGTACTGCC 59.017 38.462 8.61 0.00 0.00 4.85
2888 4840 7.042925 CCACCTAGTTAACAAATATCGTACTGC 60.043 40.741 8.61 0.00 0.00 4.40
2889 4841 8.192774 TCCACCTAGTTAACAAATATCGTACTG 58.807 37.037 8.61 0.00 0.00 2.74
2890 4842 8.297470 TCCACCTAGTTAACAAATATCGTACT 57.703 34.615 8.61 0.00 0.00 2.73
2891 4843 8.811378 GTTCCACCTAGTTAACAAATATCGTAC 58.189 37.037 8.61 0.00 0.00 3.67
2892 4844 8.752187 AGTTCCACCTAGTTAACAAATATCGTA 58.248 33.333 8.61 0.00 0.00 3.43
2893 4845 7.548075 CAGTTCCACCTAGTTAACAAATATCGT 59.452 37.037 8.61 0.00 0.00 3.73
2894 4846 7.548075 ACAGTTCCACCTAGTTAACAAATATCG 59.452 37.037 8.61 0.00 0.00 2.92
2895 4847 8.788325 ACAGTTCCACCTAGTTAACAAATATC 57.212 34.615 8.61 0.00 0.00 1.63
2896 4848 8.603304 AGACAGTTCCACCTAGTTAACAAATAT 58.397 33.333 8.61 0.00 0.00 1.28
2897 4849 7.970102 AGACAGTTCCACCTAGTTAACAAATA 58.030 34.615 8.61 0.00 0.00 1.40
2898 4850 6.838382 AGACAGTTCCACCTAGTTAACAAAT 58.162 36.000 8.61 0.00 0.00 2.32
2899 4851 6.243216 AGACAGTTCCACCTAGTTAACAAA 57.757 37.500 8.61 0.00 0.00 2.83
2900 4852 5.881923 AGACAGTTCCACCTAGTTAACAA 57.118 39.130 8.61 0.00 0.00 2.83
2901 4853 8.654485 TTATAGACAGTTCCACCTAGTTAACA 57.346 34.615 8.61 0.00 0.00 2.41
2905 4857 9.490083 ACTATTTATAGACAGTTCCACCTAGTT 57.510 33.333 3.85 0.00 34.50 2.24
2909 4861 8.915036 CAGTACTATTTATAGACAGTTCCACCT 58.085 37.037 0.00 0.00 34.50 4.00
2910 4862 8.693625 ACAGTACTATTTATAGACAGTTCCACC 58.306 37.037 0.00 0.00 34.50 4.61
2938 4890 9.710818 ACATCTCCTAAACATTCTACTACCTTA 57.289 33.333 0.00 0.00 0.00 2.69
2939 4891 8.478877 CACATCTCCTAAACATTCTACTACCTT 58.521 37.037 0.00 0.00 0.00 3.50
2940 4892 7.620094 ACACATCTCCTAAACATTCTACTACCT 59.380 37.037 0.00 0.00 0.00 3.08
2941 4893 7.783042 ACACATCTCCTAAACATTCTACTACC 58.217 38.462 0.00 0.00 0.00 3.18
2950 4902 9.975218 ACCTAAAATTACACATCTCCTAAACAT 57.025 29.630 0.00 0.00 0.00 2.71
2951 4903 9.802039 AACCTAAAATTACACATCTCCTAAACA 57.198 29.630 0.00 0.00 0.00 2.83
2954 4906 9.667107 CTGAACCTAAAATTACACATCTCCTAA 57.333 33.333 0.00 0.00 0.00 2.69
2955 4907 9.042450 TCTGAACCTAAAATTACACATCTCCTA 57.958 33.333 0.00 0.00 0.00 2.94
2956 4908 7.918076 TCTGAACCTAAAATTACACATCTCCT 58.082 34.615 0.00 0.00 0.00 3.69
2957 4909 7.281100 CCTCTGAACCTAAAATTACACATCTCC 59.719 40.741 0.00 0.00 0.00 3.71
2958 4910 7.201652 GCCTCTGAACCTAAAATTACACATCTC 60.202 40.741 0.00 0.00 0.00 2.75
2959 4911 6.599638 GCCTCTGAACCTAAAATTACACATCT 59.400 38.462 0.00 0.00 0.00 2.90
2960 4912 6.374333 TGCCTCTGAACCTAAAATTACACATC 59.626 38.462 0.00 0.00 0.00 3.06
2961 4913 6.245408 TGCCTCTGAACCTAAAATTACACAT 58.755 36.000 0.00 0.00 0.00 3.21
2962 4914 5.626142 TGCCTCTGAACCTAAAATTACACA 58.374 37.500 0.00 0.00 0.00 3.72
2963 4915 6.569179 TTGCCTCTGAACCTAAAATTACAC 57.431 37.500 0.00 0.00 0.00 2.90
2964 4916 7.286775 AGTTTTGCCTCTGAACCTAAAATTACA 59.713 33.333 0.00 0.00 0.00 2.41
2965 4917 7.595130 CAGTTTTGCCTCTGAACCTAAAATTAC 59.405 37.037 0.00 0.00 34.02 1.89
2966 4918 7.504238 TCAGTTTTGCCTCTGAACCTAAAATTA 59.496 33.333 0.00 0.00 37.69 1.40
2967 4919 6.323739 TCAGTTTTGCCTCTGAACCTAAAATT 59.676 34.615 0.00 0.00 37.69 1.82
2968 4920 5.833131 TCAGTTTTGCCTCTGAACCTAAAAT 59.167 36.000 0.00 0.00 37.69 1.82
2969 4921 5.197451 TCAGTTTTGCCTCTGAACCTAAAA 58.803 37.500 0.00 0.00 37.69 1.52
2970 4922 4.787551 TCAGTTTTGCCTCTGAACCTAAA 58.212 39.130 0.00 0.00 37.69 1.85
2971 4923 4.431416 TCAGTTTTGCCTCTGAACCTAA 57.569 40.909 0.00 0.00 37.69 2.69
2972 4924 4.431416 TTCAGTTTTGCCTCTGAACCTA 57.569 40.909 3.91 0.00 43.02 3.08
2973 4925 3.297134 TTCAGTTTTGCCTCTGAACCT 57.703 42.857 3.91 0.00 43.02 3.50
2974 4926 4.363138 CTTTTCAGTTTTGCCTCTGAACC 58.637 43.478 7.04 0.00 46.03 3.62
2975 4927 3.798878 GCTTTTCAGTTTTGCCTCTGAAC 59.201 43.478 7.04 0.00 46.03 3.18
2976 4928 3.701040 AGCTTTTCAGTTTTGCCTCTGAA 59.299 39.130 3.91 3.91 45.15 3.02
2977 4929 3.290710 AGCTTTTCAGTTTTGCCTCTGA 58.709 40.909 0.00 0.00 38.66 3.27
2978 4930 3.722728 AGCTTTTCAGTTTTGCCTCTG 57.277 42.857 0.00 0.00 0.00 3.35
2979 4931 4.160252 TCAAAGCTTTTCAGTTTTGCCTCT 59.840 37.500 9.53 0.00 45.93 3.69
2980 4932 4.432712 TCAAAGCTTTTCAGTTTTGCCTC 58.567 39.130 9.53 0.00 45.93 4.70
2981 4933 4.470334 TCAAAGCTTTTCAGTTTTGCCT 57.530 36.364 9.53 0.00 45.93 4.75
2982 4934 4.631377 AGTTCAAAGCTTTTCAGTTTTGCC 59.369 37.500 9.53 1.64 45.93 4.52
2983 4935 5.784750 AGTTCAAAGCTTTTCAGTTTTGC 57.215 34.783 9.53 0.00 45.93 3.68
2985 4937 6.230472 ACCAAGTTCAAAGCTTTTCAGTTTT 58.770 32.000 9.53 0.00 33.97 2.43
2986 4938 5.793817 ACCAAGTTCAAAGCTTTTCAGTTT 58.206 33.333 9.53 0.00 0.00 2.66
2987 4939 5.405935 ACCAAGTTCAAAGCTTTTCAGTT 57.594 34.783 9.53 5.35 0.00 3.16
2988 4940 4.998788 GACCAAGTTCAAAGCTTTTCAGT 58.001 39.130 9.53 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.