Multiple sequence alignment - TraesCS2A01G448400

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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 TraesCS2A01G448400 chr2A 100.000 4119 0 0 1 4119 697299277 697303395 0.000000e+00 7607.0
1 TraesCS2A01G448400 chr2A 96.747 707 20 3 1 706 719209576 719208872 0.000000e+00 1175.0
2 TraesCS2A01G448400 chr2A 95.089 224 9 2 3897 4119 672789217 672789439 6.550000e-93 351.0
3 TraesCS2A01G448400 chr2A 94.144 222 11 2 3900 4119 373501897 373501676 1.830000e-88 337.0
4 TraesCS2A01G448400 chr2D 91.450 3275 158 40 705 3880 557265795 557269046 0.000000e+00 4385.0
5 TraesCS2A01G448400 chr2D 84.211 76 11 1 2055 2129 35004082 35004157 5.710000e-09 73.1
6 TraesCS2A01G448400 chr2B 92.727 2035 76 24 734 2710 665186989 665189009 0.000000e+00 2872.0
7 TraesCS2A01G448400 chr2B 90.997 722 52 6 2761 3473 665189006 665189723 0.000000e+00 961.0
8 TraesCS2A01G448400 chr2B 85.225 467 29 12 3469 3903 665189802 665190260 1.050000e-120 444.0
9 TraesCS2A01G448400 chr2B 92.000 75 4 2 2062 2134 72821296 72821370 2.030000e-18 104.0
10 TraesCS2A01G448400 chr2B 95.833 48 2 0 2055 2102 556680304 556680351 1.230000e-10 78.7
11 TraesCS2A01G448400 chr7A 95.075 670 30 3 1 669 493636009 493635342 0.000000e+00 1051.0
12 TraesCS2A01G448400 chr7A 87.815 714 81 6 1 713 701691196 701690488 0.000000e+00 832.0
13 TraesCS2A01G448400 chr1A 89.124 708 74 3 1 706 462267013 462267719 0.000000e+00 878.0
14 TraesCS2A01G448400 chr1A 94.323 229 11 2 3893 4119 496849372 496849600 2.360000e-92 350.0
15 TraesCS2A01G448400 chr3A 96.868 447 11 3 912 1356 58039191 58039636 0.000000e+00 745.0
16 TraesCS2A01G448400 chr3A 98.122 213 4 0 463 675 732784618 732784830 5.030000e-99 372.0
17 TraesCS2A01G448400 chr3A 94.118 221 12 1 3900 4119 52456997 52456777 6.600000e-88 335.0
18 TraesCS2A01G448400 chr3A 94.118 221 12 1 3900 4119 89664941 89665161 6.600000e-88 335.0
19 TraesCS2A01G448400 chr7B 89.342 441 37 7 9 446 730704931 730705364 2.800000e-151 545.0
20 TraesCS2A01G448400 chr7B 88.889 441 40 6 9 446 730678290 730678724 6.060000e-148 534.0
21 TraesCS2A01G448400 chr7B 89.346 413 34 7 9 418 730651418 730651823 1.020000e-140 510.0
22 TraesCS2A01G448400 chr7B 87.755 441 44 7 9 446 730624790 730625223 1.320000e-139 507.0
23 TraesCS2A01G448400 chr7B 81.319 91 16 1 2054 2143 46885645 46885555 5.710000e-09 73.1
24 TraesCS2A01G448400 chr4A 88.564 411 42 5 1 408 22752758 22753166 1.030000e-135 494.0
25 TraesCS2A01G448400 chr4A 94.977 219 10 1 3902 4119 216015314 216015532 3.940000e-90 342.0
26 TraesCS2A01G448400 chr4A 94.118 221 11 2 3901 4119 640211508 640211728 6.600000e-88 335.0
27 TraesCS2A01G448400 chr5A 94.570 221 10 2 3901 4119 4982776 4982556 1.420000e-89 340.0
28 TraesCS2A01G448400 chr6A 92.373 236 15 3 3885 4119 592447592 592447825 2.370000e-87 333.0
29 TraesCS2A01G448400 chr4B 87.097 93 10 2 2056 2147 40868949 40869040 2.030000e-18 104.0
30 TraesCS2A01G448400 chr4B 84.615 78 10 2 2055 2131 634605291 634605215 4.420000e-10 76.8
31 TraesCS2A01G448400 chr4B 84.000 75 9 3 2055 2128 634774825 634774897 7.390000e-08 69.4
32 TraesCS2A01G448400 chr6B 90.000 80 5 3 2052 2129 142132654 142132576 2.620000e-17 100.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2A01G448400 chr2A 697299277 697303395 4118 False 7607.000000 7607 100.000000 1 4119 1 chr2A.!!$F2 4118
1 TraesCS2A01G448400 chr2A 719208872 719209576 704 True 1175.000000 1175 96.747000 1 706 1 chr2A.!!$R2 705
2 TraesCS2A01G448400 chr2D 557265795 557269046 3251 False 4385.000000 4385 91.450000 705 3880 1 chr2D.!!$F2 3175
3 TraesCS2A01G448400 chr2B 665186989 665190260 3271 False 1425.666667 2872 89.649667 734 3903 3 chr2B.!!$F3 3169
4 TraesCS2A01G448400 chr7A 493635342 493636009 667 True 1051.000000 1051 95.075000 1 669 1 chr7A.!!$R1 668
5 TraesCS2A01G448400 chr7A 701690488 701691196 708 True 832.000000 832 87.815000 1 713 1 chr7A.!!$R2 712
6 TraesCS2A01G448400 chr1A 462267013 462267719 706 False 878.000000 878 89.124000 1 706 1 chr1A.!!$F1 705

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
59 60 2.345991 GCGGCTTGGTACCTGTGA 59.654 61.111 14.36 0.0 0.0 3.58 F
1351 1371 1.841663 GACACACACACGATGCCACC 61.842 60.000 0.00 0.0 0.0 4.61 F
1680 1735 0.253044 ATCACACATCCTTGGACCGG 59.747 55.000 0.00 0.0 0.0 5.28 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1459 1483 1.129809 CATGGTGACGAACGCGAAC 59.870 57.895 15.93 5.01 41.64 3.95 R
2912 2996 3.433274 CACCATACTGTGTGCTTGTAGTG 59.567 47.826 0.00 0.00 0.00 2.74 R
3524 3698 2.887151 ACTGGGTCCAAAATCAGGAG 57.113 50.000 0.00 0.00 35.42 3.69 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
54 55 4.382320 TCACCGCGGCTTGGTACC 62.382 66.667 28.58 4.43 37.72 3.34
59 60 2.345991 GCGGCTTGGTACCTGTGA 59.654 61.111 14.36 0.00 0.00 3.58
109 110 6.239008 GGTGAAGAAATTCAAACATCCACTCA 60.239 38.462 0.00 0.00 32.04 3.41
115 116 3.961480 TCAAACATCCACTCAGATCGT 57.039 42.857 0.00 0.00 0.00 3.73
168 169 4.517075 TCAGTATCGCATGTTCACCAAAAA 59.483 37.500 0.00 0.00 0.00 1.94
736 739 2.766970 TTTGAACGGCGAAAGAAAGG 57.233 45.000 16.62 0.00 0.00 3.11
748 751 4.736464 GCGAAAGAAAGGCCAAAGAAAAGA 60.736 41.667 5.01 0.00 0.00 2.52
749 752 5.348164 CGAAAGAAAGGCCAAAGAAAAGAA 58.652 37.500 5.01 0.00 0.00 2.52
873 880 3.168528 TCCCTTATCCCGCCAGCC 61.169 66.667 0.00 0.00 0.00 4.85
1351 1371 1.841663 GACACACACACGATGCCACC 61.842 60.000 0.00 0.00 0.00 4.61
1415 1439 3.018149 TGACACGGGCTAGTTTTGTTTT 58.982 40.909 0.00 0.00 0.00 2.43
1459 1483 2.764547 GACGGGAGGAAGAGGGGG 60.765 72.222 0.00 0.00 0.00 5.40
1525 1549 1.218316 GGAGAAGTTCGACGGCCAT 59.782 57.895 2.24 0.00 0.00 4.40
1593 1637 6.506147 TGCTGCCTTATATAAAAATGTGCTG 58.494 36.000 0.00 0.00 0.00 4.41
1615 1659 6.219417 TGAATGTTGTTTTGACCTGTGAAT 57.781 33.333 0.00 0.00 0.00 2.57
1634 1682 9.270576 CTGTGAATTGAAATTAAGATGACTTCG 57.729 33.333 0.00 0.00 37.53 3.79
1680 1735 0.253044 ATCACACATCCTTGGACCGG 59.747 55.000 0.00 0.00 0.00 5.28
1695 1750 4.069304 TGGACCGGAAAAATCACTGTAAG 58.931 43.478 9.46 0.00 42.29 2.34
1730 1785 2.503356 AGGGTGATGAGGCTAGAACTTG 59.497 50.000 0.00 0.00 0.00 3.16
1732 1787 1.929836 GTGATGAGGCTAGAACTTGCG 59.070 52.381 0.00 0.00 32.19 4.85
1818 1881 7.798596 ATGTTCTTACTGAATAGATGCCTTG 57.201 36.000 0.00 0.00 36.99 3.61
1890 1954 9.715121 TTTCATACGGACAGAAAAGTTTACTAT 57.285 29.630 0.00 0.00 0.00 2.12
1958 2023 8.296799 TCATGTTTGAATTCAGCACAAAATAC 57.703 30.769 20.46 6.68 35.74 1.89
2051 2126 1.899617 CTGGCATTCCCGGCAAAAT 59.100 52.632 0.00 0.00 41.44 1.82
2059 2134 5.356426 GCATTCCCGGCAAAATTAATACTT 58.644 37.500 0.00 0.00 0.00 2.24
2103 2178 5.245531 ACGTATTTTGACACTGTCATGGAT 58.754 37.500 12.71 9.41 42.40 3.41
2154 2229 5.046231 GGAGGGAGTATATCTTAGCTTTGGG 60.046 48.000 0.00 0.00 0.00 4.12
2156 2231 6.335115 AGGGAGTATATCTTAGCTTTGGGAT 58.665 40.000 0.00 0.00 0.00 3.85
2425 2501 4.584638 ATCAGCTGGGTATGGTTTTGTA 57.415 40.909 15.13 0.00 0.00 2.41
2533 2609 1.173913 ACAATTTAGCCAAGGACCGC 58.826 50.000 0.00 0.00 0.00 5.68
2535 2611 1.029947 AATTTAGCCAAGGACCGCGG 61.030 55.000 26.86 26.86 0.00 6.46
2600 2679 2.658285 GCTTGATGCACAGACTTGTTG 58.342 47.619 0.00 0.00 42.31 3.33
2601 2680 2.033801 GCTTGATGCACAGACTTGTTGT 59.966 45.455 0.00 0.00 42.31 3.32
2602 2681 3.489738 GCTTGATGCACAGACTTGTTGTT 60.490 43.478 0.00 0.00 42.31 2.83
2721 2802 8.774890 TTTCCATATTGTGATTCATTTGTTGG 57.225 30.769 0.00 0.00 0.00 3.77
2728 2809 6.951062 TGTGATTCATTTGTTGGAGTTGTA 57.049 33.333 0.00 0.00 0.00 2.41
2797 2878 9.337396 TGCCAGATATCTATTTACGAAAAACAT 57.663 29.630 4.54 0.00 0.00 2.71
2828 2909 4.516698 TCTCTTGCTTGAGTGACCAATTTC 59.483 41.667 6.46 0.00 35.68 2.17
2834 2915 7.106439 TGCTTGAGTGACCAATTTCTTTTTA 57.894 32.000 0.00 0.00 0.00 1.52
2835 2916 6.978080 TGCTTGAGTGACCAATTTCTTTTTAC 59.022 34.615 0.00 0.00 0.00 2.01
2878 2959 3.868077 CGAGTCTTCTGGCTTATTTCCTG 59.132 47.826 0.00 0.00 0.00 3.86
2879 2960 4.621747 CGAGTCTTCTGGCTTATTTCCTGT 60.622 45.833 0.00 0.00 0.00 4.00
3041 3130 2.787994 CTGATGGTGAAGTTGAAGGCT 58.212 47.619 0.00 0.00 0.00 4.58
3090 3179 0.468226 ACGGTTGATGACAGTGGTGT 59.532 50.000 0.00 0.00 40.71 4.16
3201 3292 5.875359 GGAAACTCATTGTACAGGTAGAAGG 59.125 44.000 0.00 0.00 0.00 3.46
3420 3511 3.698040 GGTGAAACATCATCCTTGAGCAT 59.302 43.478 0.00 0.00 39.98 3.79
3524 3698 4.093998 TGTCGTTCCGAGATACTTGTAGTC 59.906 45.833 0.00 0.00 36.23 2.59
3689 3881 1.822425 TTGAACCAGTTCCCCAGGTA 58.178 50.000 8.01 0.00 38.77 3.08
3690 3882 1.822425 TGAACCAGTTCCCCAGGTAA 58.178 50.000 8.01 0.00 38.77 2.85
3699 3897 3.154710 GTTCCCCAGGTAAGGAAAACAG 58.845 50.000 0.00 0.00 43.62 3.16
3722 3920 2.449031 TAGGCAACCTCGGCTGTGTG 62.449 60.000 0.00 0.00 42.62 3.82
3724 3922 3.716006 CAACCTCGGCTGTGTGCG 61.716 66.667 0.00 0.00 44.05 5.34
3770 3990 7.067496 TCCATTGTCTAGAAAGAGAAACACT 57.933 36.000 0.00 0.00 38.39 3.55
3782 4002 2.622942 GAGAAACACTGGCAACCAATGA 59.377 45.455 1.52 0.00 31.81 2.57
3799 4020 5.113383 CCAATGACATCAACATGGAATTGG 58.887 41.667 12.70 12.70 43.54 3.16
3801 4022 5.587388 ATGACATCAACATGGAATTGGAC 57.413 39.130 0.00 0.00 33.82 4.02
3867 4089 7.048512 AGTAACTACTGGATCATGCTTTTACC 58.951 38.462 0.00 0.00 34.72 2.85
3897 4119 4.397417 ACAGCTGATATTGTTCTTTCTGCC 59.603 41.667 23.35 0.00 34.68 4.85
3903 4125 6.349300 TGATATTGTTCTTTCTGCCTCCTAC 58.651 40.000 0.00 0.00 0.00 3.18
3904 4126 4.640771 ATTGTTCTTTCTGCCTCCTACA 57.359 40.909 0.00 0.00 0.00 2.74
3905 4127 3.685139 TGTTCTTTCTGCCTCCTACAG 57.315 47.619 0.00 0.00 36.44 2.74
3906 4128 2.289694 TGTTCTTTCTGCCTCCTACAGC 60.290 50.000 0.00 0.00 35.04 4.40
3907 4129 0.532573 TCTTTCTGCCTCCTACAGCG 59.467 55.000 0.00 0.00 35.04 5.18
3908 4130 0.247736 CTTTCTGCCTCCTACAGCGT 59.752 55.000 0.00 0.00 35.04 5.07
3909 4131 0.037326 TTTCTGCCTCCTACAGCGTG 60.037 55.000 0.00 0.00 35.04 5.34
3910 4132 1.185618 TTCTGCCTCCTACAGCGTGT 61.186 55.000 0.00 0.00 35.04 4.49
3911 4133 1.185618 TCTGCCTCCTACAGCGTGTT 61.186 55.000 0.00 0.00 35.04 3.32
3912 4134 0.320771 CTGCCTCCTACAGCGTGTTT 60.321 55.000 0.00 0.00 0.00 2.83
3913 4135 0.602638 TGCCTCCTACAGCGTGTTTG 60.603 55.000 0.00 0.00 0.00 2.93
3914 4136 1.298859 GCCTCCTACAGCGTGTTTGG 61.299 60.000 0.00 1.32 0.00 3.28
3915 4137 0.034896 CCTCCTACAGCGTGTTTGGT 59.965 55.000 0.00 0.00 0.00 3.67
3916 4138 1.542547 CCTCCTACAGCGTGTTTGGTT 60.543 52.381 0.00 0.00 0.00 3.67
3917 4139 2.218603 CTCCTACAGCGTGTTTGGTTT 58.781 47.619 0.00 0.00 0.00 3.27
3918 4140 3.395639 CTCCTACAGCGTGTTTGGTTTA 58.604 45.455 0.00 0.00 0.00 2.01
3919 4141 3.395639 TCCTACAGCGTGTTTGGTTTAG 58.604 45.455 0.00 0.00 0.00 1.85
3920 4142 2.482721 CCTACAGCGTGTTTGGTTTAGG 59.517 50.000 0.00 0.00 34.54 2.69
3921 4143 1.314730 ACAGCGTGTTTGGTTTAGGG 58.685 50.000 0.00 0.00 0.00 3.53
3922 4144 0.596082 CAGCGTGTTTGGTTTAGGGG 59.404 55.000 0.00 0.00 0.00 4.79
3923 4145 0.475044 AGCGTGTTTGGTTTAGGGGA 59.525 50.000 0.00 0.00 0.00 4.81
3924 4146 1.133730 AGCGTGTTTGGTTTAGGGGAA 60.134 47.619 0.00 0.00 0.00 3.97
3925 4147 1.890489 GCGTGTTTGGTTTAGGGGAAT 59.110 47.619 0.00 0.00 0.00 3.01
3926 4148 2.297880 GCGTGTTTGGTTTAGGGGAATT 59.702 45.455 0.00 0.00 0.00 2.17
3927 4149 3.506844 GCGTGTTTGGTTTAGGGGAATTA 59.493 43.478 0.00 0.00 0.00 1.40
3928 4150 4.380128 GCGTGTTTGGTTTAGGGGAATTAG 60.380 45.833 0.00 0.00 0.00 1.73
3929 4151 5.005094 CGTGTTTGGTTTAGGGGAATTAGA 58.995 41.667 0.00 0.00 0.00 2.10
3930 4152 5.123344 CGTGTTTGGTTTAGGGGAATTAGAG 59.877 44.000 0.00 0.00 0.00 2.43
3931 4153 6.243148 GTGTTTGGTTTAGGGGAATTAGAGA 58.757 40.000 0.00 0.00 0.00 3.10
3932 4154 6.890268 GTGTTTGGTTTAGGGGAATTAGAGAT 59.110 38.462 0.00 0.00 0.00 2.75
3933 4155 6.889722 TGTTTGGTTTAGGGGAATTAGAGATG 59.110 38.462 0.00 0.00 0.00 2.90
3934 4156 5.646692 TGGTTTAGGGGAATTAGAGATGG 57.353 43.478 0.00 0.00 0.00 3.51
3935 4157 4.415512 TGGTTTAGGGGAATTAGAGATGGG 59.584 45.833 0.00 0.00 0.00 4.00
3936 4158 4.202577 GGTTTAGGGGAATTAGAGATGGGG 60.203 50.000 0.00 0.00 0.00 4.96
3937 4159 4.586675 TTAGGGGAATTAGAGATGGGGA 57.413 45.455 0.00 0.00 0.00 4.81
3938 4160 3.455085 AGGGGAATTAGAGATGGGGAA 57.545 47.619 0.00 0.00 0.00 3.97
3939 4161 3.973179 AGGGGAATTAGAGATGGGGAAT 58.027 45.455 0.00 0.00 0.00 3.01
3940 4162 3.659686 AGGGGAATTAGAGATGGGGAATG 59.340 47.826 0.00 0.00 0.00 2.67
3941 4163 3.245407 GGGGAATTAGAGATGGGGAATGG 60.245 52.174 0.00 0.00 0.00 3.16
3942 4164 3.245407 GGGAATTAGAGATGGGGAATGGG 60.245 52.174 0.00 0.00 0.00 4.00
3943 4165 3.657727 GGAATTAGAGATGGGGAATGGGA 59.342 47.826 0.00 0.00 0.00 4.37
3944 4166 4.263683 GGAATTAGAGATGGGGAATGGGAG 60.264 50.000 0.00 0.00 0.00 4.30
3945 4167 3.438131 TTAGAGATGGGGAATGGGAGT 57.562 47.619 0.00 0.00 0.00 3.85
3946 4168 2.293598 AGAGATGGGGAATGGGAGTT 57.706 50.000 0.00 0.00 0.00 3.01
3947 4169 1.849039 AGAGATGGGGAATGGGAGTTG 59.151 52.381 0.00 0.00 0.00 3.16
3948 4170 1.846439 GAGATGGGGAATGGGAGTTGA 59.154 52.381 0.00 0.00 0.00 3.18
3949 4171 1.849039 AGATGGGGAATGGGAGTTGAG 59.151 52.381 0.00 0.00 0.00 3.02
3950 4172 0.929244 ATGGGGAATGGGAGTTGAGG 59.071 55.000 0.00 0.00 0.00 3.86
3951 4173 1.214305 TGGGGAATGGGAGTTGAGGG 61.214 60.000 0.00 0.00 0.00 4.30
3952 4174 1.615262 GGGAATGGGAGTTGAGGGG 59.385 63.158 0.00 0.00 0.00 4.79
3953 4175 1.214992 GGGAATGGGAGTTGAGGGGT 61.215 60.000 0.00 0.00 0.00 4.95
3954 4176 1.591768 GGAATGGGAGTTGAGGGGTA 58.408 55.000 0.00 0.00 0.00 3.69
3955 4177 1.920351 GGAATGGGAGTTGAGGGGTAA 59.080 52.381 0.00 0.00 0.00 2.85
3956 4178 2.092375 GGAATGGGAGTTGAGGGGTAAG 60.092 54.545 0.00 0.00 0.00 2.34
3957 4179 1.596496 ATGGGAGTTGAGGGGTAAGG 58.404 55.000 0.00 0.00 0.00 2.69
3958 4180 0.494551 TGGGAGTTGAGGGGTAAGGA 59.505 55.000 0.00 0.00 0.00 3.36
3959 4181 1.205055 GGGAGTTGAGGGGTAAGGAG 58.795 60.000 0.00 0.00 0.00 3.69
3960 4182 1.273666 GGGAGTTGAGGGGTAAGGAGA 60.274 57.143 0.00 0.00 0.00 3.71
3961 4183 2.629909 GGGAGTTGAGGGGTAAGGAGAT 60.630 54.545 0.00 0.00 0.00 2.75
3962 4184 3.116174 GGAGTTGAGGGGTAAGGAGATT 58.884 50.000 0.00 0.00 0.00 2.40
3963 4185 4.296056 GGAGTTGAGGGGTAAGGAGATTA 58.704 47.826 0.00 0.00 0.00 1.75
3964 4186 4.720273 GGAGTTGAGGGGTAAGGAGATTAA 59.280 45.833 0.00 0.00 0.00 1.40
3965 4187 5.191124 GGAGTTGAGGGGTAAGGAGATTAAA 59.809 44.000 0.00 0.00 0.00 1.52
3966 4188 6.296836 GGAGTTGAGGGGTAAGGAGATTAAAA 60.297 42.308 0.00 0.00 0.00 1.52
3967 4189 7.098845 AGTTGAGGGGTAAGGAGATTAAAAA 57.901 36.000 0.00 0.00 0.00 1.94
3968 4190 7.709601 AGTTGAGGGGTAAGGAGATTAAAAAT 58.290 34.615 0.00 0.00 0.00 1.82
3969 4191 7.834681 AGTTGAGGGGTAAGGAGATTAAAAATC 59.165 37.037 0.00 0.00 0.00 2.17
3970 4192 7.525158 TGAGGGGTAAGGAGATTAAAAATCT 57.475 36.000 1.85 1.85 0.00 2.40
3971 4193 8.632731 TGAGGGGTAAGGAGATTAAAAATCTA 57.367 34.615 2.25 0.00 0.00 1.98
3972 4194 8.491958 TGAGGGGTAAGGAGATTAAAAATCTAC 58.508 37.037 4.02 4.02 0.00 2.59
3973 4195 8.640033 AGGGGTAAGGAGATTAAAAATCTACT 57.360 34.615 8.32 8.32 40.92 2.57
3974 4196 8.495260 AGGGGTAAGGAGATTAAAAATCTACTG 58.505 37.037 13.79 0.00 38.34 2.74
3975 4197 8.272889 GGGGTAAGGAGATTAAAAATCTACTGT 58.727 37.037 13.79 7.94 38.34 3.55
3976 4198 9.682465 GGGTAAGGAGATTAAAAATCTACTGTT 57.318 33.333 13.79 3.87 38.34 3.16
3989 4211 9.807921 AAAAATCTACTGTTTGATTAGAGGGAA 57.192 29.630 8.44 0.00 33.17 3.97
3990 4212 9.981460 AAAATCTACTGTTTGATTAGAGGGAAT 57.019 29.630 8.44 0.00 33.17 3.01
3991 4213 8.970859 AATCTACTGTTTGATTAGAGGGAATG 57.029 34.615 6.85 0.00 31.91 2.67
3992 4214 6.889198 TCTACTGTTTGATTAGAGGGAATGG 58.111 40.000 0.00 0.00 0.00 3.16
3993 4215 4.860022 ACTGTTTGATTAGAGGGAATGGG 58.140 43.478 0.00 0.00 0.00 4.00
3994 4216 4.540099 ACTGTTTGATTAGAGGGAATGGGA 59.460 41.667 0.00 0.00 0.00 4.37
3995 4217 5.116084 TGTTTGATTAGAGGGAATGGGAG 57.884 43.478 0.00 0.00 0.00 4.30
3996 4218 4.540099 TGTTTGATTAGAGGGAATGGGAGT 59.460 41.667 0.00 0.00 0.00 3.85
3997 4219 5.015178 TGTTTGATTAGAGGGAATGGGAGTT 59.985 40.000 0.00 0.00 0.00 3.01
3998 4220 5.796502 TTGATTAGAGGGAATGGGAGTTT 57.203 39.130 0.00 0.00 0.00 2.66
3999 4221 6.901615 TTGATTAGAGGGAATGGGAGTTTA 57.098 37.500 0.00 0.00 0.00 2.01
4000 4222 6.901615 TGATTAGAGGGAATGGGAGTTTAA 57.098 37.500 0.00 0.00 0.00 1.52
4001 4223 6.900194 TGATTAGAGGGAATGGGAGTTTAAG 58.100 40.000 0.00 0.00 0.00 1.85
4002 4224 6.447084 TGATTAGAGGGAATGGGAGTTTAAGT 59.553 38.462 0.00 0.00 0.00 2.24
4003 4225 4.576330 AGAGGGAATGGGAGTTTAAGTG 57.424 45.455 0.00 0.00 0.00 3.16
4004 4226 3.267031 AGAGGGAATGGGAGTTTAAGTGG 59.733 47.826 0.00 0.00 0.00 4.00
4005 4227 2.311841 AGGGAATGGGAGTTTAAGTGGG 59.688 50.000 0.00 0.00 0.00 4.61
4006 4228 2.310647 GGGAATGGGAGTTTAAGTGGGA 59.689 50.000 0.00 0.00 0.00 4.37
4007 4229 3.245479 GGGAATGGGAGTTTAAGTGGGAA 60.245 47.826 0.00 0.00 0.00 3.97
4008 4230 4.412843 GGAATGGGAGTTTAAGTGGGAAA 58.587 43.478 0.00 0.00 0.00 3.13
4009 4231 4.462834 GGAATGGGAGTTTAAGTGGGAAAG 59.537 45.833 0.00 0.00 0.00 2.62
4010 4232 3.518992 TGGGAGTTTAAGTGGGAAAGG 57.481 47.619 0.00 0.00 0.00 3.11
4011 4233 2.109304 TGGGAGTTTAAGTGGGAAAGGG 59.891 50.000 0.00 0.00 0.00 3.95
4012 4234 2.377531 GGGAGTTTAAGTGGGAAAGGGA 59.622 50.000 0.00 0.00 0.00 4.20
4013 4235 3.418995 GGAGTTTAAGTGGGAAAGGGAC 58.581 50.000 0.00 0.00 0.00 4.46
4015 4237 4.072839 GAGTTTAAGTGGGAAAGGGACTG 58.927 47.826 0.00 0.00 40.86 3.51
4016 4238 3.154710 GTTTAAGTGGGAAAGGGACTGG 58.845 50.000 0.00 0.00 40.86 4.00
4017 4239 1.368374 TAAGTGGGAAAGGGACTGGG 58.632 55.000 0.00 0.00 40.86 4.45
4018 4240 0.402861 AAGTGGGAAAGGGACTGGGA 60.403 55.000 0.00 0.00 40.86 4.37
4019 4241 0.842467 AGTGGGAAAGGGACTGGGAG 60.842 60.000 0.00 0.00 40.86 4.30
4020 4242 1.134438 GTGGGAAAGGGACTGGGAGT 61.134 60.000 0.00 0.00 40.86 3.85
4021 4243 0.402861 TGGGAAAGGGACTGGGAGTT 60.403 55.000 0.00 0.00 40.86 3.01
4022 4244 0.038310 GGGAAAGGGACTGGGAGTTG 59.962 60.000 0.00 0.00 40.86 3.16
4023 4245 0.038310 GGAAAGGGACTGGGAGTTGG 59.962 60.000 0.00 0.00 40.86 3.77
4024 4246 0.038310 GAAAGGGACTGGGAGTTGGG 59.962 60.000 0.00 0.00 40.86 4.12
4025 4247 0.402861 AAAGGGACTGGGAGTTGGGA 60.403 55.000 0.00 0.00 40.86 4.37
4026 4248 0.402861 AAGGGACTGGGAGTTGGGAA 60.403 55.000 0.00 0.00 40.86 3.97
4027 4249 0.402861 AGGGACTGGGAGTTGGGAAA 60.403 55.000 0.00 0.00 37.18 3.13
4028 4250 0.038310 GGGACTGGGAGTTGGGAAAG 59.962 60.000 0.00 0.00 0.00 2.62
4029 4251 0.609406 GGACTGGGAGTTGGGAAAGC 60.609 60.000 0.00 0.00 0.00 3.51
4030 4252 0.609406 GACTGGGAGTTGGGAAAGCC 60.609 60.000 0.00 0.00 0.00 4.35
4031 4253 1.360393 ACTGGGAGTTGGGAAAGCCA 61.360 55.000 0.00 0.00 35.15 4.75
4032 4254 0.178964 CTGGGAGTTGGGAAAGCCAA 60.179 55.000 0.00 0.00 35.15 4.52
4033 4255 0.486879 TGGGAGTTGGGAAAGCCAAT 59.513 50.000 0.00 0.00 35.15 3.16
4034 4256 1.132881 TGGGAGTTGGGAAAGCCAATT 60.133 47.619 0.00 0.00 35.15 2.32
4035 4257 1.550524 GGGAGTTGGGAAAGCCAATTC 59.449 52.381 0.00 0.00 34.58 2.17
4036 4258 1.550524 GGAGTTGGGAAAGCCAATTCC 59.449 52.381 1.46 1.46 46.74 3.01
4041 4263 1.890174 GGAAAGCCAATTCCCACCG 59.110 57.895 2.82 0.00 42.57 4.94
4042 4264 0.610785 GGAAAGCCAATTCCCACCGA 60.611 55.000 2.82 0.00 42.57 4.69
4043 4265 1.474330 GAAAGCCAATTCCCACCGAT 58.526 50.000 0.00 0.00 0.00 4.18
4044 4266 1.824852 GAAAGCCAATTCCCACCGATT 59.175 47.619 0.00 0.00 0.00 3.34
4045 4267 1.937191 AAGCCAATTCCCACCGATTT 58.063 45.000 0.00 0.00 0.00 2.17
4046 4268 1.474330 AGCCAATTCCCACCGATTTC 58.526 50.000 0.00 0.00 0.00 2.17
4047 4269 1.005924 AGCCAATTCCCACCGATTTCT 59.994 47.619 0.00 0.00 0.00 2.52
4048 4270 1.824852 GCCAATTCCCACCGATTTCTT 59.175 47.619 0.00 0.00 0.00 2.52
4049 4271 2.159240 GCCAATTCCCACCGATTTCTTC 60.159 50.000 0.00 0.00 0.00 2.87
4050 4272 2.427095 CCAATTCCCACCGATTTCTTCC 59.573 50.000 0.00 0.00 0.00 3.46
4051 4273 2.427095 CAATTCCCACCGATTTCTTCCC 59.573 50.000 0.00 0.00 0.00 3.97
4052 4274 1.068948 TTCCCACCGATTTCTTCCCA 58.931 50.000 0.00 0.00 0.00 4.37
4053 4275 1.068948 TCCCACCGATTTCTTCCCAA 58.931 50.000 0.00 0.00 0.00 4.12
4054 4276 1.004277 TCCCACCGATTTCTTCCCAAG 59.996 52.381 0.00 0.00 0.00 3.61
4055 4277 1.463674 CCACCGATTTCTTCCCAAGG 58.536 55.000 0.00 0.00 0.00 3.61
4056 4278 1.463674 CACCGATTTCTTCCCAAGGG 58.536 55.000 0.00 0.00 0.00 3.95
4057 4279 1.073098 ACCGATTTCTTCCCAAGGGT 58.927 50.000 4.80 0.00 36.47 4.34
4058 4280 2.026636 CACCGATTTCTTCCCAAGGGTA 60.027 50.000 4.80 0.00 36.47 3.69
4059 4281 2.850568 ACCGATTTCTTCCCAAGGGTAT 59.149 45.455 4.80 0.00 36.47 2.73
4060 4282 3.118000 ACCGATTTCTTCCCAAGGGTATC 60.118 47.826 4.80 1.95 36.47 2.24
4061 4283 3.136626 CCGATTTCTTCCCAAGGGTATCT 59.863 47.826 4.80 0.00 36.47 1.98
4062 4284 4.385310 CCGATTTCTTCCCAAGGGTATCTT 60.385 45.833 4.80 0.00 36.47 2.40
4076 4298 7.934457 CAAGGGTATCTTGTTAATTCATGAGG 58.066 38.462 0.00 0.00 45.81 3.86
4077 4299 7.451731 AGGGTATCTTGTTAATTCATGAGGA 57.548 36.000 0.00 0.00 0.00 3.71
4078 4300 7.512992 AGGGTATCTTGTTAATTCATGAGGAG 58.487 38.462 0.00 0.00 0.00 3.69
4079 4301 7.348274 AGGGTATCTTGTTAATTCATGAGGAGA 59.652 37.037 0.00 0.00 0.00 3.71
4080 4302 7.659390 GGGTATCTTGTTAATTCATGAGGAGAG 59.341 40.741 0.00 0.00 0.00 3.20
4081 4303 8.207545 GGTATCTTGTTAATTCATGAGGAGAGT 58.792 37.037 0.00 0.00 0.00 3.24
4082 4304 9.606631 GTATCTTGTTAATTCATGAGGAGAGTT 57.393 33.333 0.00 0.00 0.00 3.01
4084 4306 8.924511 TCTTGTTAATTCATGAGGAGAGTTTT 57.075 30.769 0.00 0.00 0.00 2.43
4088 4310 9.396022 TGTTAATTCATGAGGAGAGTTTTATCC 57.604 33.333 0.00 0.00 34.80 2.59
4089 4311 8.841300 GTTAATTCATGAGGAGAGTTTTATCCC 58.159 37.037 0.00 0.00 35.18 3.85
4090 4312 6.581388 ATTCATGAGGAGAGTTTTATCCCA 57.419 37.500 0.00 0.00 35.18 4.37
4091 4313 5.359194 TCATGAGGAGAGTTTTATCCCAC 57.641 43.478 0.00 0.00 35.18 4.61
4092 4314 3.887621 TGAGGAGAGTTTTATCCCACG 57.112 47.619 0.00 0.00 35.18 4.94
4093 4315 2.093658 TGAGGAGAGTTTTATCCCACGC 60.094 50.000 0.00 0.00 35.18 5.34
4094 4316 1.209747 AGGAGAGTTTTATCCCACGCC 59.790 52.381 0.00 0.00 35.18 5.68
4095 4317 1.065709 GGAGAGTTTTATCCCACGCCA 60.066 52.381 0.00 0.00 0.00 5.69
4096 4318 2.617021 GGAGAGTTTTATCCCACGCCAA 60.617 50.000 0.00 0.00 0.00 4.52
4097 4319 3.279434 GAGAGTTTTATCCCACGCCAAT 58.721 45.455 0.00 0.00 0.00 3.16
4098 4320 3.694566 GAGAGTTTTATCCCACGCCAATT 59.305 43.478 0.00 0.00 0.00 2.32
4099 4321 4.850680 AGAGTTTTATCCCACGCCAATTA 58.149 39.130 0.00 0.00 0.00 1.40
4100 4322 4.638865 AGAGTTTTATCCCACGCCAATTAC 59.361 41.667 0.00 0.00 0.00 1.89
4101 4323 3.697542 AGTTTTATCCCACGCCAATTACC 59.302 43.478 0.00 0.00 0.00 2.85
4102 4324 3.367646 TTTATCCCACGCCAATTACCA 57.632 42.857 0.00 0.00 0.00 3.25
4103 4325 3.586470 TTATCCCACGCCAATTACCAT 57.414 42.857 0.00 0.00 0.00 3.55
4104 4326 1.981256 ATCCCACGCCAATTACCATC 58.019 50.000 0.00 0.00 0.00 3.51
4105 4327 0.621082 TCCCACGCCAATTACCATCA 59.379 50.000 0.00 0.00 0.00 3.07
4106 4328 1.214175 TCCCACGCCAATTACCATCAT 59.786 47.619 0.00 0.00 0.00 2.45
4107 4329 2.439880 TCCCACGCCAATTACCATCATA 59.560 45.455 0.00 0.00 0.00 2.15
4108 4330 3.073798 TCCCACGCCAATTACCATCATAT 59.926 43.478 0.00 0.00 0.00 1.78
4109 4331 3.191162 CCCACGCCAATTACCATCATATG 59.809 47.826 0.00 0.00 0.00 1.78
4110 4332 3.366273 CCACGCCAATTACCATCATATGC 60.366 47.826 0.00 0.00 0.00 3.14
4111 4333 2.819608 ACGCCAATTACCATCATATGCC 59.180 45.455 0.00 0.00 0.00 4.40
4112 4334 2.819019 CGCCAATTACCATCATATGCCA 59.181 45.455 0.00 0.00 0.00 4.92
4113 4335 3.255395 CGCCAATTACCATCATATGCCAA 59.745 43.478 0.00 0.00 0.00 4.52
4114 4336 4.261952 CGCCAATTACCATCATATGCCAAA 60.262 41.667 0.00 0.00 0.00 3.28
4115 4337 4.990426 GCCAATTACCATCATATGCCAAAC 59.010 41.667 0.00 0.00 0.00 2.93
4116 4338 5.453057 GCCAATTACCATCATATGCCAAACA 60.453 40.000 0.00 0.00 0.00 2.83
4117 4339 6.580788 CCAATTACCATCATATGCCAAACAA 58.419 36.000 0.00 0.00 0.00 2.83
4118 4340 6.702723 CCAATTACCATCATATGCCAAACAAG 59.297 38.462 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 6.410540 GGTGACTACCATCTCTCTCATTTTT 58.589 40.000 0.00 0.00 46.71 1.94
44 45 1.066430 TCGAATCACAGGTACCAAGCC 60.066 52.381 15.94 0.00 0.00 4.35
54 55 5.763444 ACTTTACGATGTTCGAATCACAG 57.237 39.130 0.00 2.54 43.74 3.66
59 60 7.384115 CCATGGTATACTTTACGATGTTCGAAT 59.616 37.037 2.57 0.00 43.74 3.34
109 110 0.945813 GCGTACAGCTAGGACGATCT 59.054 55.000 20.51 0.00 44.04 2.75
115 116 0.178767 TAGTCCGCGTACAGCTAGGA 59.821 55.000 4.17 5.54 45.59 2.94
228 229 2.214376 TCTTGATCAAACCCCGCATT 57.786 45.000 9.88 0.00 0.00 3.56
544 547 9.646427 CATGGGCTACTTTATTATTCTCTCTAC 57.354 37.037 0.00 0.00 0.00 2.59
553 556 7.062957 AGCAAGTTCATGGGCTACTTTATTAT 58.937 34.615 0.00 0.00 34.25 1.28
706 709 5.527511 TCGCCGTTCAAAATCGTTTTATA 57.472 34.783 0.00 0.00 0.00 0.98
708 711 3.874400 TCGCCGTTCAAAATCGTTTTA 57.126 38.095 0.00 0.00 0.00 1.52
711 714 2.288458 TCTTTCGCCGTTCAAAATCGTT 59.712 40.909 0.00 0.00 0.00 3.85
712 715 1.868498 TCTTTCGCCGTTCAAAATCGT 59.132 42.857 0.00 0.00 0.00 3.73
713 716 2.587612 TCTTTCGCCGTTCAAAATCG 57.412 45.000 0.00 0.00 0.00 3.34
714 717 3.668656 CCTTTCTTTCGCCGTTCAAAATC 59.331 43.478 0.00 0.00 0.00 2.17
715 718 3.638484 CCTTTCTTTCGCCGTTCAAAAT 58.362 40.909 0.00 0.00 0.00 1.82
1351 1371 3.498397 AGGATTGAACAACTAAGCGTGTG 59.502 43.478 0.00 0.00 0.00 3.82
1415 1439 2.028839 TCTTGATAACCTTCGCGGAACA 60.029 45.455 6.13 0.00 36.31 3.18
1459 1483 1.129809 CATGGTGACGAACGCGAAC 59.870 57.895 15.93 5.01 41.64 3.95
1525 1549 6.594788 TGATATGCAGCATATAGACTCACA 57.405 37.500 25.10 15.09 37.20 3.58
1593 1637 6.756074 TCAATTCACAGGTCAAAACAACATTC 59.244 34.615 0.00 0.00 0.00 2.67
1615 1659 7.979444 AAGGTCGAAGTCATCTTAATTTCAA 57.021 32.000 0.00 0.00 33.64 2.69
1680 1735 8.406297 ACCTTGAGAAACTTACAGTGATTTTTC 58.594 33.333 0.00 0.47 0.00 2.29
1695 1750 3.208747 TCACCCTTGACCTTGAGAAAC 57.791 47.619 0.00 0.00 0.00 2.78
1698 1753 2.568956 CTCATCACCCTTGACCTTGAGA 59.431 50.000 0.00 0.00 38.12 3.27
1730 1785 2.413239 CCATGCATATTCCACGAATCGC 60.413 50.000 1.15 0.00 33.95 4.58
1732 1787 3.814842 TGTCCATGCATATTCCACGAATC 59.185 43.478 0.00 0.00 33.95 2.52
1792 1855 9.330063 CAAGGCATCTATTCAGTAAGAACATTA 57.670 33.333 0.00 0.00 39.49 1.90
1802 1865 7.230108 CCATGTATTTCAAGGCATCTATTCAGT 59.770 37.037 0.00 0.00 0.00 3.41
1846 1909 8.910666 CGTATGAAACAATATTCAAAAGTTGCA 58.089 29.630 0.18 0.18 42.22 4.08
1901 1966 6.427150 TCGCAGTAAACTCTTTTCATTCAAC 58.573 36.000 0.00 0.00 0.00 3.18
1913 1978 6.531948 ACATGAAGTAAGATCGCAGTAAACTC 59.468 38.462 0.00 0.00 0.00 3.01
2166 2241 6.810182 GTGATGCACAATTTAGCAAAGAGATT 59.190 34.615 5.74 0.00 44.88 2.40
2425 2501 5.363580 TGCTTCCTCTTTTGTTCCAAAAGAT 59.636 36.000 24.44 0.00 43.04 2.40
2533 2609 8.217115 CAGAGTTAATTTATGAATGATCGACCG 58.783 37.037 0.00 0.00 0.00 4.79
2535 2611 7.737744 CGCAGAGTTAATTTATGAATGATCGAC 59.262 37.037 0.00 0.00 0.00 4.20
2706 2787 6.636850 GTGTACAACTCCAACAAATGAATCAC 59.363 38.462 0.00 0.00 0.00 3.06
2711 2792 4.578516 CCAGTGTACAACTCCAACAAATGA 59.421 41.667 0.00 0.00 36.83 2.57
2721 2802 7.626452 GCAATTTTATCCTCCAGTGTACAACTC 60.626 40.741 0.00 0.00 36.83 3.01
2728 2809 4.946157 CAGAGCAATTTTATCCTCCAGTGT 59.054 41.667 0.00 0.00 0.00 3.55
2771 2852 8.725405 TGTTTTTCGTAAATAGATATCTGGCA 57.275 30.769 15.79 0.00 0.00 4.92
2834 2915 6.452242 TCGTCTTATCATATAACATTGCGGT 58.548 36.000 0.00 0.00 0.00 5.68
2835 2916 6.586463 ACTCGTCTTATCATATAACATTGCGG 59.414 38.462 0.00 0.00 0.00 5.69
2854 2935 3.866327 GGAAATAAGCCAGAAGACTCGTC 59.134 47.826 0.00 0.00 0.00 4.20
2912 2996 3.433274 CACCATACTGTGTGCTTGTAGTG 59.567 47.826 0.00 0.00 0.00 2.74
3041 3130 5.178096 TCTGCCTGATCATTAACCTTCAA 57.822 39.130 0.00 0.00 0.00 2.69
3090 3179 5.070001 CCTGTTTATCTTCACCTTCAACCA 58.930 41.667 0.00 0.00 0.00 3.67
3420 3511 7.108841 ACTCGTATTAAATACTGAAGCCAGA 57.891 36.000 0.00 0.00 43.02 3.86
3524 3698 2.887151 ACTGGGTCCAAAATCAGGAG 57.113 50.000 0.00 0.00 35.42 3.69
3689 3881 5.147767 AGGTTGCCTATTTCTGTTTTCCTT 58.852 37.500 0.00 0.00 28.47 3.36
3690 3882 4.740902 AGGTTGCCTATTTCTGTTTTCCT 58.259 39.130 0.00 0.00 28.47 3.36
3699 3897 1.017387 CAGCCGAGGTTGCCTATTTC 58.983 55.000 0.00 0.00 31.76 2.17
3722 3920 1.031571 TTCCAATGCATCAGGGACGC 61.032 55.000 15.79 0.00 0.00 5.19
3724 3922 3.294214 AGAATTCCAATGCATCAGGGAC 58.706 45.455 15.79 5.89 0.00 4.46
3770 3990 2.314246 TGTTGATGTCATTGGTTGCCA 58.686 42.857 0.00 0.00 0.00 4.92
3782 4002 4.588106 TGTTGTCCAATTCCATGTTGATGT 59.412 37.500 0.00 0.00 0.00 3.06
3799 4020 3.921119 TTGACATGCCTTGATGTTGTC 57.079 42.857 0.00 0.00 36.67 3.18
3801 4022 4.443913 TCATTGACATGCCTTGATGTTG 57.556 40.909 0.00 0.00 36.67 3.33
3882 4104 5.734720 CTGTAGGAGGCAGAAAGAACAATA 58.265 41.667 0.00 0.00 36.12 1.90
3897 4119 1.878953 AACCAAACACGCTGTAGGAG 58.121 50.000 12.85 0.00 32.18 3.69
3903 4125 0.596082 CCCCTAAACCAAACACGCTG 59.404 55.000 0.00 0.00 0.00 5.18
3904 4126 0.475044 TCCCCTAAACCAAACACGCT 59.525 50.000 0.00 0.00 0.00 5.07
3905 4127 1.320507 TTCCCCTAAACCAAACACGC 58.679 50.000 0.00 0.00 0.00 5.34
3906 4128 5.005094 TCTAATTCCCCTAAACCAAACACG 58.995 41.667 0.00 0.00 0.00 4.49
3907 4129 6.243148 TCTCTAATTCCCCTAAACCAAACAC 58.757 40.000 0.00 0.00 0.00 3.32
3908 4130 6.457159 TCTCTAATTCCCCTAAACCAAACA 57.543 37.500 0.00 0.00 0.00 2.83
3909 4131 6.321435 CCATCTCTAATTCCCCTAAACCAAAC 59.679 42.308 0.00 0.00 0.00 2.93
3910 4132 6.431722 CCATCTCTAATTCCCCTAAACCAAA 58.568 40.000 0.00 0.00 0.00 3.28
3911 4133 5.103686 CCCATCTCTAATTCCCCTAAACCAA 60.104 44.000 0.00 0.00 0.00 3.67
3912 4134 4.415512 CCCATCTCTAATTCCCCTAAACCA 59.584 45.833 0.00 0.00 0.00 3.67
3913 4135 4.202577 CCCCATCTCTAATTCCCCTAAACC 60.203 50.000 0.00 0.00 0.00 3.27
3914 4136 4.663592 TCCCCATCTCTAATTCCCCTAAAC 59.336 45.833 0.00 0.00 0.00 2.01
3915 4137 4.915454 TCCCCATCTCTAATTCCCCTAAA 58.085 43.478 0.00 0.00 0.00 1.85
3916 4138 4.586675 TCCCCATCTCTAATTCCCCTAA 57.413 45.455 0.00 0.00 0.00 2.69
3917 4139 4.586675 TTCCCCATCTCTAATTCCCCTA 57.413 45.455 0.00 0.00 0.00 3.53
3918 4140 3.455085 TTCCCCATCTCTAATTCCCCT 57.545 47.619 0.00 0.00 0.00 4.79
3919 4141 3.245407 CCATTCCCCATCTCTAATTCCCC 60.245 52.174 0.00 0.00 0.00 4.81
3920 4142 3.245407 CCCATTCCCCATCTCTAATTCCC 60.245 52.174 0.00 0.00 0.00 3.97
3921 4143 3.657727 TCCCATTCCCCATCTCTAATTCC 59.342 47.826 0.00 0.00 0.00 3.01
3922 4144 4.352298 ACTCCCATTCCCCATCTCTAATTC 59.648 45.833 0.00 0.00 0.00 2.17
3923 4145 4.319515 ACTCCCATTCCCCATCTCTAATT 58.680 43.478 0.00 0.00 0.00 1.40
3924 4146 3.959920 ACTCCCATTCCCCATCTCTAAT 58.040 45.455 0.00 0.00 0.00 1.73
3925 4147 3.438131 ACTCCCATTCCCCATCTCTAA 57.562 47.619 0.00 0.00 0.00 2.10
3926 4148 3.048600 CAACTCCCATTCCCCATCTCTA 58.951 50.000 0.00 0.00 0.00 2.43
3927 4149 1.849039 CAACTCCCATTCCCCATCTCT 59.151 52.381 0.00 0.00 0.00 3.10
3928 4150 1.846439 TCAACTCCCATTCCCCATCTC 59.154 52.381 0.00 0.00 0.00 2.75
3929 4151 1.849039 CTCAACTCCCATTCCCCATCT 59.151 52.381 0.00 0.00 0.00 2.90
3930 4152 1.133668 CCTCAACTCCCATTCCCCATC 60.134 57.143 0.00 0.00 0.00 3.51
3931 4153 0.929244 CCTCAACTCCCATTCCCCAT 59.071 55.000 0.00 0.00 0.00 4.00
3932 4154 1.214305 CCCTCAACTCCCATTCCCCA 61.214 60.000 0.00 0.00 0.00 4.96
3933 4155 1.615262 CCCTCAACTCCCATTCCCC 59.385 63.158 0.00 0.00 0.00 4.81
3934 4156 1.214992 ACCCCTCAACTCCCATTCCC 61.215 60.000 0.00 0.00 0.00 3.97
3935 4157 1.591768 TACCCCTCAACTCCCATTCC 58.408 55.000 0.00 0.00 0.00 3.01
3936 4158 2.092375 CCTTACCCCTCAACTCCCATTC 60.092 54.545 0.00 0.00 0.00 2.67
3937 4159 1.923148 CCTTACCCCTCAACTCCCATT 59.077 52.381 0.00 0.00 0.00 3.16
3938 4160 1.082194 TCCTTACCCCTCAACTCCCAT 59.918 52.381 0.00 0.00 0.00 4.00
3939 4161 0.494551 TCCTTACCCCTCAACTCCCA 59.505 55.000 0.00 0.00 0.00 4.37
3940 4162 1.205055 CTCCTTACCCCTCAACTCCC 58.795 60.000 0.00 0.00 0.00 4.30
3941 4163 2.249309 TCTCCTTACCCCTCAACTCC 57.751 55.000 0.00 0.00 0.00 3.85
3942 4164 5.952347 TTAATCTCCTTACCCCTCAACTC 57.048 43.478 0.00 0.00 0.00 3.01
3943 4165 6.713731 TTTTAATCTCCTTACCCCTCAACT 57.286 37.500 0.00 0.00 0.00 3.16
3944 4166 7.834681 AGATTTTTAATCTCCTTACCCCTCAAC 59.165 37.037 0.00 0.00 0.00 3.18
3945 4167 7.939781 AGATTTTTAATCTCCTTACCCCTCAA 58.060 34.615 0.00 0.00 0.00 3.02
3946 4168 7.525158 AGATTTTTAATCTCCTTACCCCTCA 57.475 36.000 0.00 0.00 0.00 3.86
3947 4169 8.715842 AGTAGATTTTTAATCTCCTTACCCCTC 58.284 37.037 5.26 0.00 0.00 4.30
3948 4170 8.495260 CAGTAGATTTTTAATCTCCTTACCCCT 58.505 37.037 5.26 0.00 0.00 4.79
3949 4171 8.272889 ACAGTAGATTTTTAATCTCCTTACCCC 58.727 37.037 5.26 0.00 0.00 4.95
3950 4172 9.682465 AACAGTAGATTTTTAATCTCCTTACCC 57.318 33.333 5.26 0.00 0.00 3.69
3963 4185 9.807921 TTCCCTCTAATCAAACAGTAGATTTTT 57.192 29.630 6.50 0.00 36.07 1.94
3964 4186 9.981460 ATTCCCTCTAATCAAACAGTAGATTTT 57.019 29.630 6.50 0.00 36.07 1.82
3965 4187 9.401058 CATTCCCTCTAATCAAACAGTAGATTT 57.599 33.333 6.50 0.00 36.07 2.17
3966 4188 7.995488 CCATTCCCTCTAATCAAACAGTAGATT 59.005 37.037 6.45 6.45 38.05 2.40
3967 4189 7.420680 CCCATTCCCTCTAATCAAACAGTAGAT 60.421 40.741 0.00 0.00 31.29 1.98
3968 4190 6.126768 CCCATTCCCTCTAATCAAACAGTAGA 60.127 42.308 0.00 0.00 30.88 2.59
3969 4191 6.058183 CCCATTCCCTCTAATCAAACAGTAG 58.942 44.000 0.00 0.00 0.00 2.57
3970 4192 5.729229 TCCCATTCCCTCTAATCAAACAGTA 59.271 40.000 0.00 0.00 0.00 2.74
3971 4193 4.540099 TCCCATTCCCTCTAATCAAACAGT 59.460 41.667 0.00 0.00 0.00 3.55
3972 4194 5.116084 TCCCATTCCCTCTAATCAAACAG 57.884 43.478 0.00 0.00 0.00 3.16
3973 4195 4.540099 ACTCCCATTCCCTCTAATCAAACA 59.460 41.667 0.00 0.00 0.00 2.83
3974 4196 5.117406 ACTCCCATTCCCTCTAATCAAAC 57.883 43.478 0.00 0.00 0.00 2.93
3975 4197 5.796502 AACTCCCATTCCCTCTAATCAAA 57.203 39.130 0.00 0.00 0.00 2.69
3976 4198 5.796502 AAACTCCCATTCCCTCTAATCAA 57.203 39.130 0.00 0.00 0.00 2.57
3977 4199 6.447084 ACTTAAACTCCCATTCCCTCTAATCA 59.553 38.462 0.00 0.00 0.00 2.57
3978 4200 6.768381 CACTTAAACTCCCATTCCCTCTAATC 59.232 42.308 0.00 0.00 0.00 1.75
3979 4201 6.353951 CCACTTAAACTCCCATTCCCTCTAAT 60.354 42.308 0.00 0.00 0.00 1.73
3980 4202 5.045140 CCACTTAAACTCCCATTCCCTCTAA 60.045 44.000 0.00 0.00 0.00 2.10
3981 4203 4.473559 CCACTTAAACTCCCATTCCCTCTA 59.526 45.833 0.00 0.00 0.00 2.43
3982 4204 3.267031 CCACTTAAACTCCCATTCCCTCT 59.733 47.826 0.00 0.00 0.00 3.69
3983 4205 3.621558 CCACTTAAACTCCCATTCCCTC 58.378 50.000 0.00 0.00 0.00 4.30
3984 4206 2.311841 CCCACTTAAACTCCCATTCCCT 59.688 50.000 0.00 0.00 0.00 4.20
3985 4207 2.310647 TCCCACTTAAACTCCCATTCCC 59.689 50.000 0.00 0.00 0.00 3.97
3986 4208 3.732048 TCCCACTTAAACTCCCATTCC 57.268 47.619 0.00 0.00 0.00 3.01
3987 4209 4.462834 CCTTTCCCACTTAAACTCCCATTC 59.537 45.833 0.00 0.00 0.00 2.67
3988 4210 4.416516 CCTTTCCCACTTAAACTCCCATT 58.583 43.478 0.00 0.00 0.00 3.16
3989 4211 3.245622 CCCTTTCCCACTTAAACTCCCAT 60.246 47.826 0.00 0.00 0.00 4.00
3990 4212 2.109304 CCCTTTCCCACTTAAACTCCCA 59.891 50.000 0.00 0.00 0.00 4.37
3991 4213 2.377531 TCCCTTTCCCACTTAAACTCCC 59.622 50.000 0.00 0.00 0.00 4.30
3992 4214 3.074094 AGTCCCTTTCCCACTTAAACTCC 59.926 47.826 0.00 0.00 0.00 3.85
3993 4215 4.072839 CAGTCCCTTTCCCACTTAAACTC 58.927 47.826 0.00 0.00 0.00 3.01
3994 4216 3.181433 CCAGTCCCTTTCCCACTTAAACT 60.181 47.826 0.00 0.00 0.00 2.66
3995 4217 3.154710 CCAGTCCCTTTCCCACTTAAAC 58.845 50.000 0.00 0.00 0.00 2.01
3996 4218 2.109304 CCCAGTCCCTTTCCCACTTAAA 59.891 50.000 0.00 0.00 0.00 1.52
3997 4219 1.708551 CCCAGTCCCTTTCCCACTTAA 59.291 52.381 0.00 0.00 0.00 1.85
3998 4220 1.132332 TCCCAGTCCCTTTCCCACTTA 60.132 52.381 0.00 0.00 0.00 2.24
3999 4221 0.402861 TCCCAGTCCCTTTCCCACTT 60.403 55.000 0.00 0.00 0.00 3.16
4000 4222 0.842467 CTCCCAGTCCCTTTCCCACT 60.842 60.000 0.00 0.00 0.00 4.00
4001 4223 1.134438 ACTCCCAGTCCCTTTCCCAC 61.134 60.000 0.00 0.00 0.00 4.61
4002 4224 0.402861 AACTCCCAGTCCCTTTCCCA 60.403 55.000 0.00 0.00 0.00 4.37
4003 4225 0.038310 CAACTCCCAGTCCCTTTCCC 59.962 60.000 0.00 0.00 0.00 3.97
4004 4226 0.038310 CCAACTCCCAGTCCCTTTCC 59.962 60.000 0.00 0.00 0.00 3.13
4005 4227 0.038310 CCCAACTCCCAGTCCCTTTC 59.962 60.000 0.00 0.00 0.00 2.62
4006 4228 0.402861 TCCCAACTCCCAGTCCCTTT 60.403 55.000 0.00 0.00 0.00 3.11
4007 4229 0.402861 TTCCCAACTCCCAGTCCCTT 60.403 55.000 0.00 0.00 0.00 3.95
4008 4230 0.402861 TTTCCCAACTCCCAGTCCCT 60.403 55.000 0.00 0.00 0.00 4.20
4009 4231 0.038310 CTTTCCCAACTCCCAGTCCC 59.962 60.000 0.00 0.00 0.00 4.46
4010 4232 0.609406 GCTTTCCCAACTCCCAGTCC 60.609 60.000 0.00 0.00 0.00 3.85
4011 4233 0.609406 GGCTTTCCCAACTCCCAGTC 60.609 60.000 0.00 0.00 0.00 3.51
4012 4234 1.360393 TGGCTTTCCCAACTCCCAGT 61.360 55.000 0.00 0.00 41.82 4.00
4013 4235 1.460255 TGGCTTTCCCAACTCCCAG 59.540 57.895 0.00 0.00 41.82 4.45
4014 4236 3.681129 TGGCTTTCCCAACTCCCA 58.319 55.556 0.00 0.00 41.82 4.37
4023 4245 0.610785 TCGGTGGGAATTGGCTTTCC 60.611 55.000 10.27 10.27 43.78 3.13
4024 4246 1.474330 ATCGGTGGGAATTGGCTTTC 58.526 50.000 0.00 0.00 0.00 2.62
4025 4247 1.937191 AATCGGTGGGAATTGGCTTT 58.063 45.000 0.00 0.00 0.00 3.51
4026 4248 1.824852 GAAATCGGTGGGAATTGGCTT 59.175 47.619 0.00 0.00 0.00 4.35
4027 4249 1.005924 AGAAATCGGTGGGAATTGGCT 59.994 47.619 0.00 0.00 0.00 4.75
4028 4250 1.474330 AGAAATCGGTGGGAATTGGC 58.526 50.000 0.00 0.00 0.00 4.52
4029 4251 2.427095 GGAAGAAATCGGTGGGAATTGG 59.573 50.000 0.00 0.00 0.00 3.16
4030 4252 2.427095 GGGAAGAAATCGGTGGGAATTG 59.573 50.000 0.00 0.00 0.00 2.32
4031 4253 2.042433 TGGGAAGAAATCGGTGGGAATT 59.958 45.455 0.00 0.00 0.00 2.17
4032 4254 1.638589 TGGGAAGAAATCGGTGGGAAT 59.361 47.619 0.00 0.00 0.00 3.01
4033 4255 1.068948 TGGGAAGAAATCGGTGGGAA 58.931 50.000 0.00 0.00 0.00 3.97
4034 4256 1.004277 CTTGGGAAGAAATCGGTGGGA 59.996 52.381 0.00 0.00 0.00 4.37
4035 4257 1.463674 CTTGGGAAGAAATCGGTGGG 58.536 55.000 0.00 0.00 0.00 4.61
4036 4258 1.463674 CCTTGGGAAGAAATCGGTGG 58.536 55.000 0.00 0.00 0.00 4.61
4037 4259 1.271926 ACCCTTGGGAAGAAATCGGTG 60.272 52.381 13.39 0.00 0.00 4.94
4038 4260 1.073098 ACCCTTGGGAAGAAATCGGT 58.927 50.000 13.39 0.00 0.00 4.69
4039 4261 3.136626 AGATACCCTTGGGAAGAAATCGG 59.863 47.826 13.39 0.00 0.00 4.18
4040 4262 4.423625 AGATACCCTTGGGAAGAAATCG 57.576 45.455 13.39 0.00 0.00 3.34
4052 4274 7.872138 TCCTCATGAATTAACAAGATACCCTT 58.128 34.615 0.00 0.00 34.91 3.95
4053 4275 7.348274 TCTCCTCATGAATTAACAAGATACCCT 59.652 37.037 0.00 0.00 0.00 4.34
4054 4276 7.509546 TCTCCTCATGAATTAACAAGATACCC 58.490 38.462 0.00 0.00 0.00 3.69
4055 4277 8.207545 ACTCTCCTCATGAATTAACAAGATACC 58.792 37.037 0.00 0.00 0.00 2.73
4056 4278 9.606631 AACTCTCCTCATGAATTAACAAGATAC 57.393 33.333 0.00 0.00 0.00 2.24
4058 4280 9.525826 AAAACTCTCCTCATGAATTAACAAGAT 57.474 29.630 0.00 0.00 0.00 2.40
4059 4281 8.924511 AAAACTCTCCTCATGAATTAACAAGA 57.075 30.769 0.00 0.00 0.00 3.02
4062 4284 9.396022 GGATAAAACTCTCCTCATGAATTAACA 57.604 33.333 0.00 0.00 0.00 2.41
4063 4285 8.841300 GGGATAAAACTCTCCTCATGAATTAAC 58.159 37.037 0.00 0.00 0.00 2.01
4064 4286 8.556589 TGGGATAAAACTCTCCTCATGAATTAA 58.443 33.333 0.00 0.00 0.00 1.40
4065 4287 7.993183 GTGGGATAAAACTCTCCTCATGAATTA 59.007 37.037 0.00 0.00 0.00 1.40
4066 4288 6.830838 GTGGGATAAAACTCTCCTCATGAATT 59.169 38.462 0.00 0.00 0.00 2.17
4067 4289 6.360618 GTGGGATAAAACTCTCCTCATGAAT 58.639 40.000 0.00 0.00 0.00 2.57
4068 4290 5.626809 CGTGGGATAAAACTCTCCTCATGAA 60.627 44.000 0.00 0.00 0.00 2.57
4069 4291 4.141937 CGTGGGATAAAACTCTCCTCATGA 60.142 45.833 0.00 0.00 0.00 3.07
4070 4292 4.122776 CGTGGGATAAAACTCTCCTCATG 58.877 47.826 0.00 0.00 0.00 3.07
4071 4293 3.432326 GCGTGGGATAAAACTCTCCTCAT 60.432 47.826 0.00 0.00 0.00 2.90
4072 4294 2.093658 GCGTGGGATAAAACTCTCCTCA 60.094 50.000 0.00 0.00 0.00 3.86
4073 4295 2.552031 GCGTGGGATAAAACTCTCCTC 58.448 52.381 0.00 0.00 0.00 3.71
4074 4296 1.209747 GGCGTGGGATAAAACTCTCCT 59.790 52.381 0.00 0.00 0.00 3.69
4075 4297 1.065709 TGGCGTGGGATAAAACTCTCC 60.066 52.381 0.00 0.00 0.00 3.71
4076 4298 2.396590 TGGCGTGGGATAAAACTCTC 57.603 50.000 0.00 0.00 0.00 3.20
4077 4299 2.871096 TTGGCGTGGGATAAAACTCT 57.129 45.000 0.00 0.00 0.00 3.24
4078 4300 4.201980 GGTAATTGGCGTGGGATAAAACTC 60.202 45.833 0.00 0.00 0.00 3.01
4079 4301 3.697542 GGTAATTGGCGTGGGATAAAACT 59.302 43.478 0.00 0.00 0.00 2.66
4080 4302 3.444388 TGGTAATTGGCGTGGGATAAAAC 59.556 43.478 0.00 0.00 0.00 2.43
4081 4303 3.698289 TGGTAATTGGCGTGGGATAAAA 58.302 40.909 0.00 0.00 0.00 1.52
4082 4304 3.367646 TGGTAATTGGCGTGGGATAAA 57.632 42.857 0.00 0.00 0.00 1.40
4083 4305 3.117851 TGATGGTAATTGGCGTGGGATAA 60.118 43.478 0.00 0.00 0.00 1.75
4084 4306 2.439880 TGATGGTAATTGGCGTGGGATA 59.560 45.455 0.00 0.00 0.00 2.59
4085 4307 1.214175 TGATGGTAATTGGCGTGGGAT 59.786 47.619 0.00 0.00 0.00 3.85
4086 4308 0.621082 TGATGGTAATTGGCGTGGGA 59.379 50.000 0.00 0.00 0.00 4.37
4087 4309 1.691196 ATGATGGTAATTGGCGTGGG 58.309 50.000 0.00 0.00 0.00 4.61
4088 4310 3.366273 GCATATGATGGTAATTGGCGTGG 60.366 47.826 6.97 0.00 0.00 4.94
4089 4311 3.366273 GGCATATGATGGTAATTGGCGTG 60.366 47.826 6.97 0.00 0.00 5.34
4090 4312 2.819608 GGCATATGATGGTAATTGGCGT 59.180 45.455 6.97 0.00 0.00 5.68
4091 4313 2.819019 TGGCATATGATGGTAATTGGCG 59.181 45.455 6.97 0.00 32.86 5.69
4092 4314 4.870123 TTGGCATATGATGGTAATTGGC 57.130 40.909 6.97 0.00 0.00 4.52
4093 4315 6.159299 TGTTTGGCATATGATGGTAATTGG 57.841 37.500 6.97 0.00 0.00 3.16
4094 4316 7.703298 CTTGTTTGGCATATGATGGTAATTG 57.297 36.000 6.97 0.00 0.00 2.32


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

AutoCloner maintained by Alex Coulton.