Multiple sequence alignment - TraesCS7D01G170400

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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 TraesCS7D01G170400 chr7D 100.000 3630 0 0 788 4417 123046818 123050447 0.000000e+00 6704
1 TraesCS7D01G170400 chr7D 100.000 634 0 0 1 634 123046031 123046664 0.000000e+00 1171
2 TraesCS7D01G170400 chr7A 90.800 2924 123 52 788 3673 126051708 126048893 0.000000e+00 3775
3 TraesCS7D01G170400 chr7A 96.129 465 17 1 3954 4417 126046625 126046161 0.000000e+00 758
4 TraesCS7D01G170400 chr7A 85.276 326 40 4 266 589 126052041 126051722 3.290000e-86 329
5 TraesCS7D01G170400 chr7B 92.393 2077 114 17 788 2847 84183445 84185494 0.000000e+00 2920
6 TraesCS7D01G170400 chr7B 97.297 481 11 2 3938 4417 84209201 84209680 0.000000e+00 815
7 TraesCS7D01G170400 chr7B 85.654 711 45 32 2949 3634 84185832 84186510 0.000000e+00 695
8 TraesCS7D01G170400 chr7B 88.796 357 23 10 288 634 84183100 84183449 5.280000e-114 422
9 TraesCS7D01G170400 chr7B 92.395 263 20 0 1 263 84181312 84181574 4.170000e-100 375


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 TraesCS7D01G170400 chr7D 123046031 123050447 4416 False 3937.500000 6704 100.0000 1 4417 2 chr7D.!!$F1 4416
1 TraesCS7D01G170400 chr7A 126046161 126052041 5880 True 1620.666667 3775 90.7350 266 4417 3 chr7A.!!$R1 4151
2 TraesCS7D01G170400 chr7B 84181312 84186510 5198 False 1103.000000 2920 89.8095 1 3634 4 chr7B.!!$F2 3633

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
544 2050 2.798283 CTGCGAAAACAGTAGAAACCGA 59.202 45.455 0.00 0.00 32.78 4.69 F
1279 2796 0.453782 GTACGCGAATTTGTGGGCAC 60.454 55.000 15.93 2.39 0.00 5.01 F
3115 4961 0.817229 GGGCTGTAGATTGAGCTGCC 60.817 60.000 0.00 0.00 43.53 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1748 3287 0.038166 GTGCCCAAAGAGATGGTGGA 59.962 55.0 0.00 0.0 38.91 4.02 R
3217 5063 1.822581 GCATTGCCCGTTCGAAATAC 58.177 50.0 0.00 0.0 0.00 1.89 R
3946 6585 0.523072 CTGCTTGTTTGACCGGATGG 59.477 55.0 9.46 0.0 42.84 3.51 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
42 43 8.078596 ACTTTTGAATTCTTTCAGTATCAGTGC 58.921 33.333 7.05 0.00 42.60 4.40
73 74 7.093068 TGGTATCAGTGTGATAACACCATAGTT 60.093 37.037 9.92 0.00 46.69 2.24
129 130 3.221771 TGTTCTAGCAAGGCAAACATGT 58.778 40.909 0.00 0.00 0.00 3.21
132 133 3.076621 TCTAGCAAGGCAAACATGTCAG 58.923 45.455 0.00 0.00 0.00 3.51
147 148 5.813383 ACATGTCAGTCTTGATGATTTCCT 58.187 37.500 0.00 0.00 35.39 3.36
157 158 9.612066 AGTCTTGATGATTTCCTAGAATTTCTC 57.388 33.333 1.27 0.00 0.00 2.87
186 187 4.323569 TCAATATTAAACCCACCTGGCA 57.676 40.909 0.00 0.00 37.83 4.92
189 190 6.068010 TCAATATTAAACCCACCTGGCATAG 58.932 40.000 0.00 0.00 37.83 2.23
190 191 5.663158 ATATTAAACCCACCTGGCATAGT 57.337 39.130 0.00 0.00 37.83 2.12
223 224 9.691362 GTTAGATTCCATGCTAAAAACTTTTGA 57.309 29.630 0.00 0.00 0.00 2.69
224 225 9.912634 TTAGATTCCATGCTAAAAACTTTTGAG 57.087 29.630 0.00 0.00 0.00 3.02
281 1775 8.973835 AAAAAGCCGACGAATTCAAAAATATA 57.026 26.923 6.22 0.00 0.00 0.86
339 1842 8.410141 ACGAATTTGGAAAAGTTCACTGATTTA 58.590 29.630 0.00 0.00 0.00 1.40
429 1932 3.473923 AATGAACAAAACCTGCCCAAG 57.526 42.857 0.00 0.00 0.00 3.61
478 1981 3.144193 AGAGCGAGCCTTCCGAGG 61.144 66.667 0.00 0.00 46.50 4.63
544 2050 2.798283 CTGCGAAAACAGTAGAAACCGA 59.202 45.455 0.00 0.00 32.78 4.69
1188 2704 2.184579 CCTCCCTTCGTCTTCGCC 59.815 66.667 0.00 0.00 36.96 5.54
1205 2722 1.202405 CGCCTGTTTGCTTTCTGGTTT 60.202 47.619 0.00 0.00 0.00 3.27
1217 2734 4.672409 CTTTCTGGTTTCAGTGGTTTGAC 58.328 43.478 0.00 0.00 41.59 3.18
1263 2780 0.743345 GTGTTGGGATCCAGGCGTAC 60.743 60.000 15.23 0.78 33.81 3.67
1273 2790 1.632046 CCAGGCGTACGCGAATTTGT 61.632 55.000 31.78 8.92 43.06 2.83
1278 2795 1.870383 GTACGCGAATTTGTGGGCA 59.130 52.632 15.93 0.00 0.00 5.36
1279 2796 0.453782 GTACGCGAATTTGTGGGCAC 60.454 55.000 15.93 2.39 0.00 5.01
1299 2816 5.823045 GGCACCAAATACTAGCTTGTTCTAT 59.177 40.000 6.03 0.00 0.00 1.98
1357 2877 7.503902 ACTTTTTGAGTCAAAATTAGAGCCTCT 59.496 33.333 27.14 0.00 41.89 3.69
1387 2907 8.245491 GCAATTGAATTTGGGCATTTTTAGAAT 58.755 29.630 10.34 0.00 0.00 2.40
1418 2938 6.777580 AGAGAATAAAAGAGAAAACAGGCCAA 59.222 34.615 5.01 0.00 0.00 4.52
1469 2989 8.874816 GTCAACAGGCAAAAGTTTTACATTTAA 58.125 29.630 0.00 0.00 0.00 1.52
1657 3185 2.703536 TGACTCAAAGTGCCACTTCCTA 59.296 45.455 11.11 0.00 37.47 2.94
1658 3186 3.135712 TGACTCAAAGTGCCACTTCCTAA 59.864 43.478 11.11 0.00 37.47 2.69
1659 3187 4.202461 TGACTCAAAGTGCCACTTCCTAAT 60.202 41.667 11.11 0.00 37.47 1.73
1660 3188 4.729868 ACTCAAAGTGCCACTTCCTAATT 58.270 39.130 11.11 0.00 37.47 1.40
1661 3189 4.520492 ACTCAAAGTGCCACTTCCTAATTG 59.480 41.667 11.11 4.48 37.47 2.32
1662 3190 3.255642 TCAAAGTGCCACTTCCTAATTGC 59.744 43.478 11.11 0.00 37.47 3.56
1663 3191 2.887151 AGTGCCACTTCCTAATTGCT 57.113 45.000 0.00 0.00 0.00 3.91
1664 3192 2.440409 AGTGCCACTTCCTAATTGCTG 58.560 47.619 0.00 0.00 0.00 4.41
1665 3193 1.135286 GTGCCACTTCCTAATTGCTGC 60.135 52.381 0.00 0.00 0.00 5.25
1666 3194 1.176527 GCCACTTCCTAATTGCTGCA 58.823 50.000 0.00 0.00 0.00 4.41
1667 3195 1.135286 GCCACTTCCTAATTGCTGCAC 60.135 52.381 0.00 0.00 0.00 4.57
1708 3247 8.694581 TGTGGATTGATAATTTCTATGCATGA 57.305 30.769 10.16 1.87 39.33 3.07
1754 3293 2.527624 AGCTGCAGGACTCCACCA 60.528 61.111 17.12 0.00 0.00 4.17
1806 3345 3.573110 AGAATAGCATGGTCGTAGGTACC 59.427 47.826 2.73 2.73 37.53 3.34
1831 3370 7.217200 CGAGACTAATAAAAGATGATTGGGGA 58.783 38.462 0.00 0.00 0.00 4.81
1884 3423 8.517878 GGGATGGATTGTTATTCATTATCACTG 58.482 37.037 0.00 0.00 29.71 3.66
1885 3424 8.025445 GGATGGATTGTTATTCATTATCACTGC 58.975 37.037 0.00 0.00 29.71 4.40
1886 3425 8.701908 ATGGATTGTTATTCATTATCACTGCT 57.298 30.769 0.00 0.00 0.00 4.24
1887 3426 9.797642 ATGGATTGTTATTCATTATCACTGCTA 57.202 29.630 0.00 0.00 0.00 3.49
1888 3427 9.797642 TGGATTGTTATTCATTATCACTGCTAT 57.202 29.630 0.00 0.00 0.00 2.97
1930 3469 7.738847 TGATGAGATTCTGGTAAGATGCAATA 58.261 34.615 0.00 0.00 30.72 1.90
1964 3503 1.359848 GCAGACGGGTGAACATACAG 58.640 55.000 0.00 0.00 0.00 2.74
2044 3584 8.201554 TCAGATTTTAGACTAATGATGTGTGC 57.798 34.615 12.21 0.00 0.00 4.57
2097 3637 7.951530 TGATACATGTGTATTGTAGCTCATG 57.048 36.000 9.11 0.00 40.99 3.07
2134 3681 3.055094 CAGTAACTGGGATTAGCCACACT 60.055 47.826 0.00 0.00 38.95 3.55
2270 3817 1.959085 CTTTGGCATGCGGAGTGTT 59.041 52.632 12.44 0.00 0.00 3.32
2280 3827 5.278463 GGCATGCGGAGTGTTTATGAATATT 60.278 40.000 12.44 0.00 0.00 1.28
2318 3865 7.336679 TGCTAATGTTCACACACATAATTAGCT 59.663 33.333 19.45 0.00 42.23 3.32
2346 3893 8.093307 AGCATGTCCATATATCAGTTAGTCTTG 58.907 37.037 0.00 0.00 0.00 3.02
2448 4000 3.389925 TTTGTGTAGGTTACCTCACCG 57.610 47.619 21.97 0.00 42.33 4.94
2654 4206 3.403038 AGGAGAAAATTGAGGTGTGTCG 58.597 45.455 0.00 0.00 0.00 4.35
2688 4244 9.914834 AAATACACCTTAATCTAAATGGCACTA 57.085 29.630 0.00 0.00 0.00 2.74
2807 4365 7.423199 CAGTGGAATCCATTCATCATAACTTG 58.577 38.462 4.81 0.00 38.53 3.16
2868 4704 4.085357 TGTGTGTTTCAATAGCCAGACT 57.915 40.909 0.00 0.00 0.00 3.24
2876 4712 6.818644 TGTTTCAATAGCCAGACTACAGATTC 59.181 38.462 0.00 0.00 32.32 2.52
2906 4742 1.630244 GCTACGCTGCACCAGTCTTG 61.630 60.000 0.00 0.00 33.43 3.02
2918 4754 2.636830 CCAGTCTTGGGCTGTAGATTG 58.363 52.381 0.00 0.00 41.05 2.67
2919 4755 2.026822 CCAGTCTTGGGCTGTAGATTGT 60.027 50.000 0.00 0.00 41.05 2.71
2920 4756 3.197766 CCAGTCTTGGGCTGTAGATTGTA 59.802 47.826 0.00 0.00 41.05 2.41
2921 4757 4.141620 CCAGTCTTGGGCTGTAGATTGTAT 60.142 45.833 0.00 0.00 41.05 2.29
2922 4758 5.053145 CAGTCTTGGGCTGTAGATTGTATC 58.947 45.833 0.00 0.00 0.00 2.24
2923 4759 4.716784 AGTCTTGGGCTGTAGATTGTATCA 59.283 41.667 0.00 0.00 0.00 2.15
2924 4760 5.053145 GTCTTGGGCTGTAGATTGTATCAG 58.947 45.833 0.00 0.00 0.00 2.90
2925 4761 4.716784 TCTTGGGCTGTAGATTGTATCAGT 59.283 41.667 0.00 0.00 0.00 3.41
2926 4762 5.189736 TCTTGGGCTGTAGATTGTATCAGTT 59.810 40.000 0.00 0.00 0.00 3.16
2927 4763 6.382859 TCTTGGGCTGTAGATTGTATCAGTTA 59.617 38.462 0.00 0.00 0.00 2.24
2928 4764 6.161855 TGGGCTGTAGATTGTATCAGTTAG 57.838 41.667 0.00 0.00 0.00 2.34
2929 4765 5.661312 TGGGCTGTAGATTGTATCAGTTAGT 59.339 40.000 0.00 0.00 0.00 2.24
2930 4766 6.183360 TGGGCTGTAGATTGTATCAGTTAGTC 60.183 42.308 0.00 0.00 0.00 2.59
2931 4767 6.041069 GGGCTGTAGATTGTATCAGTTAGTCT 59.959 42.308 0.00 0.00 0.00 3.24
2932 4768 7.418025 GGGCTGTAGATTGTATCAGTTAGTCTT 60.418 40.741 0.00 0.00 0.00 3.01
2981 4817 7.606456 TCTGTACTATTTCCAGTTGGATGTTTC 59.394 37.037 0.93 0.00 44.98 2.78
3115 4961 0.817229 GGGCTGTAGATTGAGCTGCC 60.817 60.000 0.00 0.00 43.53 4.85
3133 4979 5.951747 AGCTGCCATTTGAAATTCTTAGGTA 59.048 36.000 0.00 0.00 0.00 3.08
3161 5007 7.555195 TCTTACTGTTTCGTACTGGATGAGATA 59.445 37.037 0.00 0.00 0.00 1.98
3187 5033 3.191371 GGGACATGGACAAGCAAAACTAG 59.809 47.826 0.00 0.00 0.00 2.57
3188 5034 3.366374 GGACATGGACAAGCAAAACTAGC 60.366 47.826 0.00 0.00 0.00 3.42
3200 5046 6.877611 AGCAAAACTAGCAGCTTTACTTAA 57.122 33.333 0.00 0.00 32.52 1.85
3212 5058 8.989980 AGCAGCTTTACTTAACTTTACTAACAG 58.010 33.333 0.00 0.00 0.00 3.16
3213 5059 8.771766 GCAGCTTTACTTAACTTTACTAACAGT 58.228 33.333 0.00 0.00 0.00 3.55
3215 5061 9.828039 AGCTTTACTTAACTTTACTAACAGTGT 57.172 29.630 0.00 0.00 0.00 3.55
3237 5083 0.375454 TATTTCGAACGGGCAATGCG 59.625 50.000 0.00 0.00 0.00 4.73
3311 5157 6.183360 GGGAAGTGAGTGAGAAAACAAATTCA 60.183 38.462 0.00 0.00 0.00 2.57
3389 5235 1.752498 CAGCTATGGCATTTGCAAGGA 59.248 47.619 21.34 0.00 44.36 3.36
3534 5380 1.553704 ACGGTTCCCTGGTACAAGATC 59.446 52.381 0.00 0.00 38.70 2.75
3560 5406 4.158394 TGATTTCAATAGCAAGCAGTTCCC 59.842 41.667 0.00 0.00 0.00 3.97
3616 5478 5.028549 TCAAATCTGCTACTTCTGGGATC 57.971 43.478 0.00 0.00 0.00 3.36
3620 5482 4.679373 TCTGCTACTTCTGGGATCATTC 57.321 45.455 0.00 0.00 0.00 2.67
3634 5496 4.385825 GGATCATTCGGCCTTTGTGTATA 58.614 43.478 0.00 0.00 0.00 1.47
3638 5502 7.174253 GGATCATTCGGCCTTTGTGTATAATAA 59.826 37.037 0.00 0.00 0.00 1.40
3639 5503 7.254227 TCATTCGGCCTTTGTGTATAATAAC 57.746 36.000 0.00 0.00 0.00 1.89
3673 5537 6.861065 TGTGAAACTTTATCCTTGTCTCAC 57.139 37.500 0.00 0.00 38.04 3.51
3674 5538 6.353323 TGTGAAACTTTATCCTTGTCTCACA 58.647 36.000 0.00 0.00 38.56 3.58
3675 5539 6.260050 TGTGAAACTTTATCCTTGTCTCACAC 59.740 38.462 0.00 0.00 36.61 3.82
3676 5540 6.260050 GTGAAACTTTATCCTTGTCTCACACA 59.740 38.462 0.00 0.00 32.76 3.72
3677 5541 6.998074 TGAAACTTTATCCTTGTCTCACACAT 59.002 34.615 0.00 0.00 33.90 3.21
3678 5542 7.173218 TGAAACTTTATCCTTGTCTCACACATC 59.827 37.037 0.00 0.00 33.90 3.06
3679 5543 6.365970 ACTTTATCCTTGTCTCACACATCT 57.634 37.500 0.00 0.00 33.90 2.90
3680 5544 6.169094 ACTTTATCCTTGTCTCACACATCTG 58.831 40.000 0.00 0.00 33.90 2.90
3681 5545 6.014242 ACTTTATCCTTGTCTCACACATCTGA 60.014 38.462 0.00 0.00 33.90 3.27
3682 5546 6.550938 TTATCCTTGTCTCACACATCTGAT 57.449 37.500 0.00 0.00 33.90 2.90
3683 5547 4.897509 TCCTTGTCTCACACATCTGATT 57.102 40.909 0.00 0.00 33.90 2.57
3684 5548 5.233083 TCCTTGTCTCACACATCTGATTT 57.767 39.130 0.00 0.00 33.90 2.17
3685 5549 5.624159 TCCTTGTCTCACACATCTGATTTT 58.376 37.500 0.00 0.00 33.90 1.82
3686 5550 6.064060 TCCTTGTCTCACACATCTGATTTTT 58.936 36.000 0.00 0.00 33.90 1.94
3715 5579 0.106669 GGTACCAGGGGAATGGAAGC 60.107 60.000 7.15 0.00 43.57 3.86
3716 5580 0.623723 GTACCAGGGGAATGGAAGCA 59.376 55.000 0.00 0.00 43.57 3.91
3718 5582 0.712380 ACCAGGGGAATGGAAGCATT 59.288 50.000 0.00 0.00 43.57 3.56
3719 5583 1.929494 ACCAGGGGAATGGAAGCATTA 59.071 47.619 0.00 0.00 43.57 1.90
3720 5584 2.314549 ACCAGGGGAATGGAAGCATTAA 59.685 45.455 0.00 0.00 43.57 1.40
3722 5586 3.132824 CCAGGGGAATGGAAGCATTAAAC 59.867 47.826 0.00 0.00 43.57 2.01
3725 5589 5.656416 CAGGGGAATGGAAGCATTAAACTAA 59.344 40.000 0.00 0.00 0.00 2.24
3726 5590 6.154363 CAGGGGAATGGAAGCATTAAACTAAA 59.846 38.462 0.00 0.00 0.00 1.85
3727 5591 6.154534 AGGGGAATGGAAGCATTAAACTAAAC 59.845 38.462 0.00 0.00 0.00 2.01
3728 5592 6.338146 GGGAATGGAAGCATTAAACTAAACC 58.662 40.000 0.00 0.00 0.00 3.27
3731 5595 7.875554 GGAATGGAAGCATTAAACTAAACCAAA 59.124 33.333 0.00 0.00 0.00 3.28
3733 5597 8.776376 ATGGAAGCATTAAACTAAACCAAATG 57.224 30.769 0.00 0.00 0.00 2.32
3734 5598 7.731054 TGGAAGCATTAAACTAAACCAAATGT 58.269 30.769 0.00 0.00 31.65 2.71
3735 5599 8.861086 TGGAAGCATTAAACTAAACCAAATGTA 58.139 29.630 0.00 0.00 31.65 2.29
3769 5633 8.970691 TTTTTCTAGAGCACATATTTTTGAGC 57.029 30.769 0.00 0.00 33.97 4.26
3770 5634 7.686438 TTTCTAGAGCACATATTTTTGAGCA 57.314 32.000 0.00 0.00 35.91 4.26
3771 5635 7.686438 TTCTAGAGCACATATTTTTGAGCAA 57.314 32.000 0.00 0.00 35.91 3.91
3774 5638 9.394767 TCTAGAGCACATATTTTTGAGCAATTA 57.605 29.630 0.00 0.00 35.91 1.40
3778 5642 9.090692 GAGCACATATTTTTGAGCAATTATTGT 57.909 29.630 6.81 0.00 35.91 2.71
3793 6425 8.673711 AGCAATTATTGTTAGAACGCTTGATTA 58.326 29.630 6.81 0.00 0.00 1.75
3797 6429 8.725405 TTATTGTTAGAACGCTTGATTATGGA 57.275 30.769 0.00 0.00 0.00 3.41
3798 6430 7.624360 ATTGTTAGAACGCTTGATTATGGAA 57.376 32.000 0.00 0.00 0.00 3.53
3815 6447 1.555533 GGAACTGTACTAGGCTTGGCT 59.444 52.381 0.00 1.64 0.00 4.75
3816 6448 2.622436 GAACTGTACTAGGCTTGGCTG 58.378 52.381 6.97 0.00 0.00 4.85
3817 6449 1.645710 ACTGTACTAGGCTTGGCTGT 58.354 50.000 6.97 5.88 0.00 4.40
3818 6450 1.276421 ACTGTACTAGGCTTGGCTGTG 59.724 52.381 6.97 2.75 0.00 3.66
3819 6451 0.036388 TGTACTAGGCTTGGCTGTGC 60.036 55.000 6.97 7.26 0.00 4.57
3820 6452 1.084370 GTACTAGGCTTGGCTGTGCG 61.084 60.000 6.97 0.00 0.00 5.34
3821 6453 2.238847 TACTAGGCTTGGCTGTGCGG 62.239 60.000 6.97 0.00 0.00 5.69
3826 6458 4.034258 CTTGGCTGTGCGGCTGTG 62.034 66.667 0.00 0.00 39.32 3.66
3844 6476 6.817270 GCTGTGCCACATAATTTTCATTAG 57.183 37.500 0.00 0.00 0.00 1.73
3845 6477 6.563422 GCTGTGCCACATAATTTTCATTAGA 58.437 36.000 0.00 0.00 0.00 2.10
3846 6478 7.035004 GCTGTGCCACATAATTTTCATTAGAA 58.965 34.615 0.00 0.00 0.00 2.10
3847 6479 7.009540 GCTGTGCCACATAATTTTCATTAGAAC 59.990 37.037 0.00 0.00 32.39 3.01
3848 6480 7.890515 TGTGCCACATAATTTTCATTAGAACA 58.109 30.769 0.00 0.00 32.39 3.18
3849 6481 8.363390 TGTGCCACATAATTTTCATTAGAACAA 58.637 29.630 0.00 0.00 32.39 2.83
3850 6482 9.202273 GTGCCACATAATTTTCATTAGAACAAA 57.798 29.630 0.00 0.00 32.39 2.83
3851 6483 9.202273 TGCCACATAATTTTCATTAGAACAAAC 57.798 29.630 0.00 0.00 32.39 2.93
3854 6486 9.405587 CACATAATTTTCATTAGAACAAACCGT 57.594 29.630 0.00 0.00 32.39 4.83
3866 6498 0.518636 CAAACCGTGCCATGTCAGAG 59.481 55.000 0.00 0.00 0.00 3.35
3870 6502 1.016130 CCGTGCCATGTCAGAGACAC 61.016 60.000 1.43 0.00 45.65 3.67
3872 6504 1.436600 GTGCCATGTCAGAGACACAG 58.563 55.000 1.43 0.00 45.65 3.66
3874 6506 1.001293 TGCCATGTCAGAGACACAGAC 59.999 52.381 1.43 0.00 45.65 3.51
3876 6508 2.930023 GCCATGTCAGAGACACAGACTG 60.930 54.545 0.00 0.00 45.65 3.51
3877 6509 2.298446 CCATGTCAGAGACACAGACTGT 59.702 50.000 1.07 1.07 45.65 3.55
3915 6554 2.525629 TCGGACAGTGGGGCTTCA 60.526 61.111 0.00 0.00 0.00 3.02
3926 6565 1.049289 GGGGCTTCACCGGATAGACT 61.049 60.000 9.46 0.00 40.62 3.24
3927 6566 0.389757 GGGCTTCACCGGATAGACTC 59.610 60.000 9.46 0.00 40.62 3.36
3928 6567 0.030908 GGCTTCACCGGATAGACTCG 59.969 60.000 9.46 0.00 0.00 4.18
3930 6569 1.945394 GCTTCACCGGATAGACTCGTA 59.055 52.381 9.46 0.00 0.00 3.43
3931 6570 2.031857 GCTTCACCGGATAGACTCGTAG 60.032 54.545 9.46 0.00 0.00 3.51
3932 6571 2.996249 TCACCGGATAGACTCGTAGT 57.004 50.000 9.46 0.00 0.00 2.73
3933 6572 2.831333 TCACCGGATAGACTCGTAGTC 58.169 52.381 9.46 6.85 45.38 2.59
3988 7904 3.865929 AACACTCCGCAGCGTCAGG 62.866 63.158 15.05 3.10 0.00 3.86
4006 7922 2.830827 CCGCACCACAACCAACCA 60.831 61.111 0.00 0.00 0.00 3.67
4025 7941 2.432456 GCACCATGCGTCGTCTCA 60.432 61.111 0.00 0.00 31.71 3.27
4255 8171 2.278330 CCCCTGCAAGTCAAAGCCC 61.278 63.158 0.00 0.00 0.00 5.19
4264 8180 1.204113 AGTCAAAGCCCCTCCTCCTG 61.204 60.000 0.00 0.00 0.00 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
33 34 4.130118 CTGATACCAAAGGGCACTGATAC 58.870 47.826 0.00 0.00 37.90 2.24
39 40 1.812571 CACACTGATACCAAAGGGCAC 59.187 52.381 0.00 0.00 37.90 5.01
40 41 1.702401 TCACACTGATACCAAAGGGCA 59.298 47.619 0.00 0.00 37.90 5.36
42 43 5.496556 TGTTATCACACTGATACCAAAGGG 58.503 41.667 0.00 0.00 38.92 3.95
91 92 9.920133 TGCTAGAACATCTCTATGATAATGAAC 57.080 33.333 0.00 0.00 36.02 3.18
115 116 1.610522 AGACTGACATGTTTGCCTTGC 59.389 47.619 0.00 0.00 0.00 4.01
129 130 9.388506 GAAATTCTAGGAAATCATCAAGACTGA 57.611 33.333 0.00 0.00 35.56 3.41
132 133 8.547069 CGAGAAATTCTAGGAAATCATCAAGAC 58.453 37.037 0.00 0.00 0.00 3.01
157 158 9.296400 CAGGTGGGTTTAATATTGAATTTTACG 57.704 33.333 0.00 0.00 0.00 3.18
164 165 4.678256 TGCCAGGTGGGTTTAATATTGAA 58.322 39.130 0.00 0.00 39.65 2.69
180 181 4.331968 TCTAACAAACCAACTATGCCAGG 58.668 43.478 0.00 0.00 0.00 4.45
186 187 6.891908 AGCATGGAATCTAACAAACCAACTAT 59.108 34.615 0.00 0.00 34.28 2.12
189 190 5.391312 AGCATGGAATCTAACAAACCAAC 57.609 39.130 0.00 0.00 34.28 3.77
190 191 7.531857 TTTAGCATGGAATCTAACAAACCAA 57.468 32.000 0.00 0.00 34.28 3.67
223 224 6.319141 GTTTTTCTATGGAAGAACTGCACT 57.681 37.500 15.34 0.00 44.02 4.40
297 1799 7.801315 TCCAAATTCGTTTCTTCTAATTCGTTG 59.199 33.333 0.00 0.00 0.00 4.10
298 1800 7.867752 TCCAAATTCGTTTCTTCTAATTCGTT 58.132 30.769 0.00 0.00 0.00 3.85
310 1812 6.750039 TCAGTGAACTTTTCCAAATTCGTTTC 59.250 34.615 0.00 0.00 0.00 2.78
410 1913 2.676748 TCTTGGGCAGGTTTTGTTCAT 58.323 42.857 0.00 0.00 0.00 2.57
454 1957 1.687123 GGAAGGCTCGCTCTGGTATTA 59.313 52.381 0.00 0.00 0.00 0.98
457 1960 2.415608 CGGAAGGCTCGCTCTGGTA 61.416 63.158 0.00 0.00 0.00 3.25
561 2067 3.188786 GCGACGTGCTGCCTTAGG 61.189 66.667 0.00 0.00 41.73 2.69
562 2068 3.545481 CGCGACGTGCTGCCTTAG 61.545 66.667 0.00 0.00 43.27 2.18
563 2069 4.351938 ACGCGACGTGCTGCCTTA 62.352 61.111 15.93 0.00 43.27 2.69
606 2122 2.676342 CGAAGAAATTCCTTACCCACGG 59.324 50.000 0.00 0.00 0.00 4.94
787 2303 1.529865 GTAGTTTCTGTTCGGGTGCAC 59.470 52.381 8.80 8.80 0.00 4.57
788 2304 1.139256 TGTAGTTTCTGTTCGGGTGCA 59.861 47.619 0.00 0.00 0.00 4.57
789 2305 1.873698 TGTAGTTTCTGTTCGGGTGC 58.126 50.000 0.00 0.00 0.00 5.01
790 2306 6.183360 GGAATTATGTAGTTTCTGTTCGGGTG 60.183 42.308 0.00 0.00 0.00 4.61
791 2307 5.878669 GGAATTATGTAGTTTCTGTTCGGGT 59.121 40.000 0.00 0.00 0.00 5.28
792 2308 5.878116 TGGAATTATGTAGTTTCTGTTCGGG 59.122 40.000 0.00 0.00 0.00 5.14
793 2309 6.978343 TGGAATTATGTAGTTTCTGTTCGG 57.022 37.500 0.00 0.00 0.00 4.30
794 2310 9.672086 TTTTTGGAATTATGTAGTTTCTGTTCG 57.328 29.630 0.00 0.00 0.00 3.95
798 2314 9.626045 GGTCTTTTTGGAATTATGTAGTTTCTG 57.374 33.333 0.00 0.00 0.00 3.02
799 2315 8.803235 GGGTCTTTTTGGAATTATGTAGTTTCT 58.197 33.333 0.00 0.00 0.00 2.52
800 2316 8.803235 AGGGTCTTTTTGGAATTATGTAGTTTC 58.197 33.333 0.00 0.00 0.00 2.78
801 2317 8.721133 AGGGTCTTTTTGGAATTATGTAGTTT 57.279 30.769 0.00 0.00 0.00 2.66
802 2318 7.396339 GGAGGGTCTTTTTGGAATTATGTAGTT 59.604 37.037 0.00 0.00 0.00 2.24
803 2319 6.890268 GGAGGGTCTTTTTGGAATTATGTAGT 59.110 38.462 0.00 0.00 0.00 2.73
804 2320 6.321435 GGGAGGGTCTTTTTGGAATTATGTAG 59.679 42.308 0.00 0.00 0.00 2.74
920 2436 1.960250 GCCATCTGCTCCGATCTGC 60.960 63.158 0.00 0.00 36.87 4.26
1038 2554 2.282180 CACTTGGTTCCCGTGGGG 60.282 66.667 4.81 0.00 46.11 4.96
1188 2704 4.107622 CACTGAAACCAGAAAGCAAACAG 58.892 43.478 0.00 0.00 35.67 3.16
1205 2722 3.496692 CCAGATCAAGGTCAAACCACTGA 60.497 47.826 0.00 1.61 41.95 3.41
1217 2734 0.613260 TTCACCGGTCCAGATCAAGG 59.387 55.000 2.59 0.00 0.00 3.61
1263 2780 2.126502 GGTGCCCACAAATTCGCG 60.127 61.111 0.00 0.00 0.00 5.87
1273 2790 2.041081 ACAAGCTAGTATTTGGTGCCCA 59.959 45.455 0.00 0.00 0.00 5.36
1299 2816 7.446013 CCACCAACTAAACCTAACACAGATAAA 59.554 37.037 0.00 0.00 0.00 1.40
1304 2821 4.710324 TCCACCAACTAAACCTAACACAG 58.290 43.478 0.00 0.00 0.00 3.66
1312 2832 5.784578 AAGTTCAATCCACCAACTAAACC 57.215 39.130 0.00 0.00 30.00 3.27
1357 2877 1.419012 TGCCCAAATTCAATTGCCACA 59.581 42.857 0.00 0.00 0.00 4.17
1401 2921 7.124573 ACTTAAATTGGCCTGTTTTCTCTTT 57.875 32.000 3.32 0.00 0.00 2.52
1412 2932 6.494059 AGGAGATGTTAACTTAAATTGGCCT 58.506 36.000 3.32 0.00 0.00 5.19
1414 2934 8.732746 TCTAGGAGATGTTAACTTAAATTGGC 57.267 34.615 7.22 0.00 0.00 4.52
1469 2989 3.523564 AGACCCTATGCACCAAACTACAT 59.476 43.478 0.00 0.00 0.00 2.29
1474 2994 1.812571 CACAGACCCTATGCACCAAAC 59.187 52.381 0.00 0.00 0.00 2.93
1605 3133 0.533032 GTCCACCCAGTCTAGCTCAC 59.467 60.000 0.00 0.00 0.00 3.51
1657 3185 2.713967 GCCCCGATGTGCAGCAATT 61.714 57.895 0.00 0.00 0.00 2.32
1658 3186 3.142838 GCCCCGATGTGCAGCAAT 61.143 61.111 0.00 0.00 0.00 3.56
1659 3187 4.657408 TGCCCCGATGTGCAGCAA 62.657 61.111 0.00 0.00 32.77 3.91
1660 3188 4.657408 TTGCCCCGATGTGCAGCA 62.657 61.111 0.00 0.00 38.95 4.41
1661 3189 4.120331 GTTGCCCCGATGTGCAGC 62.120 66.667 0.00 0.00 38.95 5.25
1662 3190 2.048023 ATGTTGCCCCGATGTGCAG 61.048 57.895 0.00 0.00 38.95 4.41
1663 3191 2.035469 ATGTTGCCCCGATGTGCA 59.965 55.556 0.00 0.00 35.27 4.57
1664 3192 2.491152 CATGTTGCCCCGATGTGC 59.509 61.111 0.00 0.00 0.00 4.57
1665 3193 2.048023 AGCATGTTGCCCCGATGTG 61.048 57.895 0.00 0.00 46.52 3.21
1666 3194 2.048023 CAGCATGTTGCCCCGATGT 61.048 57.895 0.00 0.00 46.52 3.06
1667 3195 2.802792 CAGCATGTTGCCCCGATG 59.197 61.111 0.00 0.00 46.52 3.84
1708 3247 7.232941 AGGTCACGTTACTTAGGATATTGCTAT 59.767 37.037 0.00 0.00 0.00 2.97
1748 3287 0.038166 GTGCCCAAAGAGATGGTGGA 59.962 55.000 0.00 0.00 38.91 4.02
1749 3288 0.967380 GGTGCCCAAAGAGATGGTGG 60.967 60.000 0.00 0.00 38.91 4.61
1750 3289 0.038744 AGGTGCCCAAAGAGATGGTG 59.961 55.000 0.00 0.00 38.91 4.17
1754 3293 1.000396 GCCAGGTGCCCAAAGAGAT 60.000 57.895 0.00 0.00 0.00 2.75
1806 3345 7.217200 TCCCCAATCATCTTTTATTAGTCTCG 58.783 38.462 0.00 0.00 0.00 4.04
1831 3370 7.174253 TCGCTTGTTTTCTCTTGTTATGGTTAT 59.826 33.333 0.00 0.00 0.00 1.89
1884 3423 2.503356 AGCCCATCCATAGCACTATAGC 59.497 50.000 0.00 0.00 0.00 2.97
1885 3424 3.771479 TCAGCCCATCCATAGCACTATAG 59.229 47.826 0.00 0.00 0.00 1.31
1886 3425 3.790126 TCAGCCCATCCATAGCACTATA 58.210 45.455 0.00 0.00 0.00 1.31
1887 3426 2.624495 TCAGCCCATCCATAGCACTAT 58.376 47.619 0.00 0.00 0.00 2.12
1888 3427 2.101640 TCAGCCCATCCATAGCACTA 57.898 50.000 0.00 0.00 0.00 2.74
1889 3428 1.073444 CATCAGCCCATCCATAGCACT 59.927 52.381 0.00 0.00 0.00 4.40
1890 3429 1.072806 TCATCAGCCCATCCATAGCAC 59.927 52.381 0.00 0.00 0.00 4.40
1891 3430 1.350019 CTCATCAGCCCATCCATAGCA 59.650 52.381 0.00 0.00 0.00 3.49
1930 3469 1.001181 GTCTGCCCACATGCAAACATT 59.999 47.619 0.00 0.00 41.51 2.71
1964 3503 0.680061 GGGACCGTATGTCATCTCCC 59.320 60.000 0.00 0.00 46.38 4.30
2027 3567 3.447742 CGCAGCACACATCATTAGTCTA 58.552 45.455 0.00 0.00 0.00 2.59
2044 3584 2.409870 GGTTCCCTGGATTGCGCAG 61.410 63.158 11.31 0.00 0.00 5.18
2134 3681 5.989168 ACATATGAACGACAGAGTTGTGAAA 59.011 36.000 10.38 0.00 37.76 2.69
2318 3865 9.314133 AGACTAACTGATATATGGACATGCTAA 57.686 33.333 0.00 0.00 0.00 3.09
2448 4000 6.918892 TTGTGATGTACAGTATTGCCATAC 57.081 37.500 0.33 0.00 41.10 2.39
2674 4226 7.285172 TGCATTACATTGTAGTGCCATTTAGAT 59.715 33.333 29.95 3.41 35.03 1.98
2675 4227 6.601217 TGCATTACATTGTAGTGCCATTTAGA 59.399 34.615 29.95 14.66 35.03 2.10
2677 4229 6.765915 TGCATTACATTGTAGTGCCATTTA 57.234 33.333 29.95 15.77 35.03 1.40
2723 4279 6.652481 CCTGAACACAGAAATGTCAGACTAAT 59.348 38.462 1.31 0.00 33.33 1.73
2724 4280 5.991606 CCTGAACACAGAAATGTCAGACTAA 59.008 40.000 1.31 0.00 33.33 2.24
2727 4283 3.499918 CCCTGAACACAGAAATGTCAGAC 59.500 47.826 0.00 0.00 33.33 3.51
2733 4289 3.631686 TCAACACCCTGAACACAGAAATG 59.368 43.478 0.00 0.00 33.94 2.32
2807 4365 6.442513 ACTTGCCTTGCTTTGAGATATAAC 57.557 37.500 0.00 0.00 0.00 1.89
2868 4704 2.299013 AGCACAACGACCAGAATCTGTA 59.701 45.455 9.63 0.00 0.00 2.74
2906 4742 6.041069 AGACTAACTGATACAATCTACAGCCC 59.959 42.308 0.00 0.00 34.25 5.19
2907 4743 7.045126 AGACTAACTGATACAATCTACAGCC 57.955 40.000 0.00 0.00 34.25 4.85
2919 4755 9.597681 CCCCTACCTAAATAAGACTAACTGATA 57.402 37.037 0.00 0.00 0.00 2.15
2920 4756 8.294690 TCCCCTACCTAAATAAGACTAACTGAT 58.705 37.037 0.00 0.00 0.00 2.90
2921 4757 7.655403 TCCCCTACCTAAATAAGACTAACTGA 58.345 38.462 0.00 0.00 0.00 3.41
2922 4758 7.564292 ACTCCCCTACCTAAATAAGACTAACTG 59.436 40.741 0.00 0.00 0.00 3.16
2923 4759 7.660169 ACTCCCCTACCTAAATAAGACTAACT 58.340 38.462 0.00 0.00 0.00 2.24
2924 4760 7.784073 AGACTCCCCTACCTAAATAAGACTAAC 59.216 40.741 0.00 0.00 0.00 2.34
2925 4761 7.783596 CAGACTCCCCTACCTAAATAAGACTAA 59.216 40.741 0.00 0.00 0.00 2.24
2926 4762 7.091628 ACAGACTCCCCTACCTAAATAAGACTA 60.092 40.741 0.00 0.00 0.00 2.59
2927 4763 6.137559 CAGACTCCCCTACCTAAATAAGACT 58.862 44.000 0.00 0.00 0.00 3.24
2928 4764 5.898397 ACAGACTCCCCTACCTAAATAAGAC 59.102 44.000 0.00 0.00 0.00 3.01
2929 4765 6.101274 ACAGACTCCCCTACCTAAATAAGA 57.899 41.667 0.00 0.00 0.00 2.10
2930 4766 7.068061 ACTACAGACTCCCCTACCTAAATAAG 58.932 42.308 0.00 0.00 0.00 1.73
2931 4767 6.989894 ACTACAGACTCCCCTACCTAAATAA 58.010 40.000 0.00 0.00 0.00 1.40
2932 4768 6.392245 AGACTACAGACTCCCCTACCTAAATA 59.608 42.308 0.00 0.00 0.00 1.40
3133 4979 5.475909 TCATCCAGTACGAAACAGTAAGACT 59.524 40.000 0.00 0.00 0.00 3.24
3146 4992 5.221441 TGTCCCAAATATCTCATCCAGTACG 60.221 44.000 0.00 0.00 0.00 3.67
3161 5007 2.307496 TGCTTGTCCATGTCCCAAAT 57.693 45.000 0.00 0.00 0.00 2.32
3187 5033 8.771766 ACTGTTAGTAAAGTTAAGTAAAGCTGC 58.228 33.333 0.00 0.00 0.00 5.25
3209 5055 3.841643 CCCGTTCGAAATACTACACTGT 58.158 45.455 0.00 0.00 0.00 3.55
3210 5056 2.601763 GCCCGTTCGAAATACTACACTG 59.398 50.000 0.00 0.00 0.00 3.66
3212 5058 2.609350 TGCCCGTTCGAAATACTACAC 58.391 47.619 0.00 0.00 0.00 2.90
3213 5059 3.316071 TTGCCCGTTCGAAATACTACA 57.684 42.857 0.00 0.00 0.00 2.74
3214 5060 3.545426 GCATTGCCCGTTCGAAATACTAC 60.545 47.826 0.00 0.00 0.00 2.73
3215 5061 2.610374 GCATTGCCCGTTCGAAATACTA 59.390 45.455 0.00 0.00 0.00 1.82
3217 5063 1.822581 GCATTGCCCGTTCGAAATAC 58.177 50.000 0.00 0.00 0.00 1.89
3223 5069 2.701006 CTACGCATTGCCCGTTCG 59.299 61.111 2.41 0.00 39.88 3.95
3237 5083 5.852738 ATCAAGATCACGCATTATGCTAC 57.147 39.130 15.54 2.39 42.25 3.58
3311 5157 1.531602 GCTGAACCAGGCAACCCTT 60.532 57.895 0.00 0.00 40.33 3.95
3534 5380 5.258456 ACTGCTTGCTATTGAAATCATGG 57.742 39.130 0.00 0.00 0.00 3.66
3616 5478 7.022055 TGTTATTATACACAAAGGCCGAATG 57.978 36.000 0.00 0.00 0.00 2.67
3647 5511 8.352942 GTGAGACAAGGATAAAGTTTCACAATT 58.647 33.333 9.63 0.00 43.10 2.32
3657 5521 6.401394 TCAGATGTGTGAGACAAGGATAAAG 58.599 40.000 0.00 0.00 38.36 1.85
3691 5555 1.077993 CCATTCCCCTGGTACCCAAAA 59.922 52.381 10.07 0.00 30.80 2.44
3695 5559 0.551396 CTTCCATTCCCCTGGTACCC 59.449 60.000 10.07 0.00 37.57 3.69
3706 5570 8.825667 TTTGGTTTAGTTTAATGCTTCCATTC 57.174 30.769 0.00 0.00 41.68 2.67
3708 5572 8.374743 ACATTTGGTTTAGTTTAATGCTTCCAT 58.625 29.630 0.00 0.00 31.15 3.41
3744 5608 8.575589 TGCTCAAAAATATGTGCTCTAGAAAAA 58.424 29.630 0.00 0.00 39.78 1.94
3745 5609 8.109705 TGCTCAAAAATATGTGCTCTAGAAAA 57.890 30.769 0.00 0.00 39.78 2.29
3747 5611 7.686438 TTGCTCAAAAATATGTGCTCTAGAA 57.314 32.000 0.00 0.00 39.78 2.10
3748 5612 7.870509 ATTGCTCAAAAATATGTGCTCTAGA 57.129 32.000 0.00 0.00 39.78 2.43
3751 5615 9.309516 CAATAATTGCTCAAAAATATGTGCTCT 57.690 29.630 3.47 0.00 39.78 4.09
3752 5616 9.090692 ACAATAATTGCTCAAAAATATGTGCTC 57.909 29.630 3.47 0.00 39.78 4.26
3753 5617 9.439500 AACAATAATTGCTCAAAAATATGTGCT 57.561 25.926 3.47 0.00 39.78 4.40
3761 5625 7.865385 AGCGTTCTAACAATAATTGCTCAAAAA 59.135 29.630 0.00 0.00 0.00 1.94
3763 5627 6.908825 AGCGTTCTAACAATAATTGCTCAAA 58.091 32.000 0.00 0.00 0.00 2.69
3765 5629 6.148645 TCAAGCGTTCTAACAATAATTGCTCA 59.851 34.615 0.00 0.00 0.00 4.26
3768 5632 7.740519 AATCAAGCGTTCTAACAATAATTGC 57.259 32.000 0.00 0.00 0.00 3.56
3770 5634 9.950680 CCATAATCAAGCGTTCTAACAATAATT 57.049 29.630 0.00 0.00 0.00 1.40
3771 5635 9.337396 TCCATAATCAAGCGTTCTAACAATAAT 57.663 29.630 0.00 0.00 0.00 1.28
3774 5638 7.336931 AGTTCCATAATCAAGCGTTCTAACAAT 59.663 33.333 0.00 0.00 0.00 2.71
3778 5642 6.170506 ACAGTTCCATAATCAAGCGTTCTAA 58.829 36.000 0.00 0.00 0.00 2.10
3781 5645 4.946784 ACAGTTCCATAATCAAGCGTTC 57.053 40.909 0.00 0.00 0.00 3.95
3782 5646 5.488341 AGTACAGTTCCATAATCAAGCGTT 58.512 37.500 0.00 0.00 0.00 4.84
3793 6425 2.092914 GCCAAGCCTAGTACAGTTCCAT 60.093 50.000 0.00 0.00 0.00 3.41
3797 6429 1.978580 ACAGCCAAGCCTAGTACAGTT 59.021 47.619 0.00 0.00 0.00 3.16
3798 6430 1.276421 CACAGCCAAGCCTAGTACAGT 59.724 52.381 0.00 0.00 0.00 3.55
3821 6453 6.563422 TCTAATGAAAATTATGTGGCACAGC 58.437 36.000 26.04 9.09 41.80 4.40
3822 6454 8.028354 TGTTCTAATGAAAATTATGTGGCACAG 58.972 33.333 26.04 7.37 33.95 3.66
3823 6455 7.890515 TGTTCTAATGAAAATTATGTGGCACA 58.109 30.769 24.36 24.36 33.52 4.57
3824 6456 8.755696 TTGTTCTAATGAAAATTATGTGGCAC 57.244 30.769 11.55 11.55 33.52 5.01
3825 6457 9.202273 GTTTGTTCTAATGAAAATTATGTGGCA 57.798 29.630 0.00 0.00 33.52 4.92
3826 6458 8.655970 GGTTTGTTCTAATGAAAATTATGTGGC 58.344 33.333 0.00 0.00 33.52 5.01
3827 6459 8.859156 CGGTTTGTTCTAATGAAAATTATGTGG 58.141 33.333 0.00 0.00 33.52 4.17
3828 6460 9.405587 ACGGTTTGTTCTAATGAAAATTATGTG 57.594 29.630 0.00 0.00 33.52 3.21
3829 6461 9.405587 CACGGTTTGTTCTAATGAAAATTATGT 57.594 29.630 0.00 0.00 33.52 2.29
3830 6462 8.372521 GCACGGTTTGTTCTAATGAAAATTATG 58.627 33.333 0.00 0.00 33.52 1.90
3831 6463 7.544217 GGCACGGTTTGTTCTAATGAAAATTAT 59.456 33.333 0.00 0.00 33.52 1.28
3832 6464 6.864165 GGCACGGTTTGTTCTAATGAAAATTA 59.136 34.615 0.00 0.00 33.52 1.40
3833 6465 5.694458 GGCACGGTTTGTTCTAATGAAAATT 59.306 36.000 0.00 0.00 33.52 1.82
3834 6466 5.221342 TGGCACGGTTTGTTCTAATGAAAAT 60.221 36.000 0.00 0.00 33.52 1.82
3835 6467 4.098044 TGGCACGGTTTGTTCTAATGAAAA 59.902 37.500 0.00 0.00 33.52 2.29
3836 6468 3.632604 TGGCACGGTTTGTTCTAATGAAA 59.367 39.130 0.00 0.00 33.52 2.69
3837 6469 3.215151 TGGCACGGTTTGTTCTAATGAA 58.785 40.909 0.00 0.00 0.00 2.57
3838 6470 2.852449 TGGCACGGTTTGTTCTAATGA 58.148 42.857 0.00 0.00 0.00 2.57
3839 6471 3.057596 ACATGGCACGGTTTGTTCTAATG 60.058 43.478 0.00 0.00 0.00 1.90
3840 6472 3.153919 ACATGGCACGGTTTGTTCTAAT 58.846 40.909 0.00 0.00 0.00 1.73
3841 6473 2.550606 GACATGGCACGGTTTGTTCTAA 59.449 45.455 0.00 0.00 0.00 2.10
3842 6474 2.147958 GACATGGCACGGTTTGTTCTA 58.852 47.619 0.00 0.00 0.00 2.10
3843 6475 0.951558 GACATGGCACGGTTTGTTCT 59.048 50.000 0.00 0.00 0.00 3.01
3844 6476 0.665835 TGACATGGCACGGTTTGTTC 59.334 50.000 0.00 0.00 0.00 3.18
3845 6477 0.667993 CTGACATGGCACGGTTTGTT 59.332 50.000 0.00 0.00 0.00 2.83
3846 6478 0.179032 TCTGACATGGCACGGTTTGT 60.179 50.000 0.00 0.00 0.00 2.83
3847 6479 0.518636 CTCTGACATGGCACGGTTTG 59.481 55.000 0.00 0.00 0.00 2.93
3848 6480 0.396435 TCTCTGACATGGCACGGTTT 59.604 50.000 0.00 0.00 0.00 3.27
3849 6481 0.320771 GTCTCTGACATGGCACGGTT 60.321 55.000 0.00 0.00 32.09 4.44
3850 6482 1.293498 GTCTCTGACATGGCACGGT 59.707 57.895 0.00 0.00 32.09 4.83
3851 6483 1.016130 GTGTCTCTGACATGGCACGG 61.016 60.000 0.00 0.00 44.63 4.94
3854 6486 1.001293 GTCTGTGTCTCTGACATGGCA 59.999 52.381 0.00 0.00 44.63 4.92
3866 6498 0.603975 GAAGCCCCACAGTCTGTGTC 60.604 60.000 27.20 16.12 46.45 3.67
3894 6526 1.779061 AAGCCCCACTGTCCGACATT 61.779 55.000 0.62 0.00 0.00 2.71
3895 6527 2.185310 GAAGCCCCACTGTCCGACAT 62.185 60.000 0.62 0.00 0.00 3.06
3896 6528 2.847234 AAGCCCCACTGTCCGACA 60.847 61.111 0.29 0.29 0.00 4.35
3899 6531 2.358737 GTGAAGCCCCACTGTCCG 60.359 66.667 0.00 0.00 34.38 4.79
3900 6532 2.034221 GGTGAAGCCCCACTGTCC 59.966 66.667 6.12 0.00 37.24 4.02
3915 6554 1.137872 ACGACTACGAGTCTATCCGGT 59.862 52.381 0.00 0.00 42.92 5.28
3933 6572 1.599667 CCGGATGGTGATTCGTCTACG 60.600 57.143 0.00 0.00 41.45 3.51
3946 6585 0.523072 CTGCTTGTTTGACCGGATGG 59.477 55.000 9.46 0.00 42.84 3.51
3947 6586 1.197721 GACTGCTTGTTTGACCGGATG 59.802 52.381 9.46 0.00 0.00 3.51
3948 6587 1.523758 GACTGCTTGTTTGACCGGAT 58.476 50.000 9.46 0.00 0.00 4.18
3949 6588 0.534203 GGACTGCTTGTTTGACCGGA 60.534 55.000 9.46 0.00 0.00 5.14
3950 6589 0.817634 TGGACTGCTTGTTTGACCGG 60.818 55.000 0.00 0.00 0.00 5.28
3988 7904 4.279043 GGTTGGTTGTGGTGCGGC 62.279 66.667 0.00 0.00 0.00 6.53
4025 7941 2.285743 GAGGAGGGGGAAGTGGCT 60.286 66.667 0.00 0.00 0.00 4.75
4084 8000 2.766400 GGTCTCGAGCTCGGTGAGG 61.766 68.421 33.98 18.76 40.29 3.86
4217 8133 4.681978 GAAGTGGAGCGTGGCGGT 62.682 66.667 0.00 0.00 41.33 5.68
4220 8136 3.426568 GCTGAAGTGGAGCGTGGC 61.427 66.667 0.00 0.00 0.00 5.01
4221 8137 2.743928 GGCTGAAGTGGAGCGTGG 60.744 66.667 0.00 0.00 37.32 4.94
4222 8138 2.743928 GGGCTGAAGTGGAGCGTG 60.744 66.667 0.00 0.00 37.32 5.34
4255 8171 2.365586 CCAGGTGAGCAGGAGGAGG 61.366 68.421 0.00 0.00 0.00 4.30
4288 8204 2.123077 AGGATGGAGGGGAGCGAG 60.123 66.667 0.00 0.00 0.00 5.03


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

AutoCloner maintained by Alex Coulton.