Multiple sequence alignment - TraesCS4D01G288600

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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 TraesCS4D01G288600 chr4D 100.000 6601 0 0 1 6601 459553331 459559931 0.000000e+00 12190.0
1 TraesCS4D01G288600 chr4D 95.918 49 2 0 1 49 108628985 108629033 5.490000e-11 80.5
2 TraesCS4D01G288600 chr4B 96.933 4206 85 22 1713 5881 574443134 574447332 0.000000e+00 7012.0
3 TraesCS4D01G288600 chr4B 91.749 812 32 13 919 1716 574442205 574442995 0.000000e+00 1096.0
4 TraesCS4D01G288600 chr4B 87.500 664 52 13 255 917 574441176 574441809 0.000000e+00 737.0
5 TraesCS4D01G288600 chr4B 92.748 262 17 2 1 261 574432063 574432323 1.740000e-100 377.0
6 TraesCS4D01G288600 chr4B 90.210 286 12 7 5921 6198 574447338 574447615 6.290000e-95 359.0
7 TraesCS4D01G288600 chr4B 86.957 299 30 6 6248 6541 574449365 574449659 1.770000e-85 327.0
8 TraesCS4D01G288600 chr4B 92.169 166 11 2 5146 5310 406389458 406389294 3.980000e-57 233.0
9 TraesCS4D01G288600 chr4A 95.292 4333 121 33 1713 6005 8596986 8592697 0.000000e+00 6794.0
10 TraesCS4D01G288600 chr4A 93.702 921 49 6 1 917 8599229 8598314 0.000000e+00 1371.0
11 TraesCS4D01G288600 chr4A 93.317 808 40 9 915 1711 8597935 8597131 0.000000e+00 1181.0
12 TraesCS4D01G288600 chr4A 92.727 55 4 0 1 55 467683897 467683843 5.490000e-11 80.5
13 TraesCS4D01G288600 chr3D 93.023 172 8 4 5140 5308 87925991 87926161 1.420000e-61 248.0
14 TraesCS4D01G288600 chr3D 95.745 47 2 0 1 47 483190944 483190898 7.100000e-10 76.8
15 TraesCS4D01G288600 chr3D 92.308 52 4 0 1 52 611747707 611747656 2.550000e-09 75.0
16 TraesCS4D01G288600 chr3D 89.655 58 5 1 1 58 582105014 582105070 9.180000e-09 73.1
17 TraesCS4D01G288600 chr2D 92.814 167 10 2 5147 5312 299891715 299891550 2.380000e-59 241.0
18 TraesCS4D01G288600 chr5A 92.683 164 10 2 5146 5308 320214243 320214405 1.110000e-57 235.0
19 TraesCS4D01G288600 chr2A 91.716 169 12 2 5147 5314 184561315 184561148 3.980000e-57 233.0
20 TraesCS4D01G288600 chr2A 91.566 166 12 2 5146 5310 135473390 135473226 1.850000e-55 228.0
21 TraesCS4D01G288600 chr6A 90.805 174 14 2 5137 5308 408051094 408050921 1.430000e-56 231.0
22 TraesCS4D01G288600 chr5D 91.150 113 10 0 5890 6002 23724699 23724811 3.190000e-33 154.0
23 TraesCS4D01G288600 chr5D 97.778 45 1 0 1 45 421314609 421314565 1.970000e-10 78.7
24 TraesCS4D01G288600 chr5D 95.556 45 2 0 1 45 486836392 486836348 9.180000e-09 73.1


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 TraesCS4D01G288600 chr4D 459553331 459559931 6600 False 12190.000000 12190 100.000000 1 6601 1 chr4D.!!$F2 6600
1 TraesCS4D01G288600 chr4B 574441176 574449659 8483 False 1906.200000 7012 90.669800 255 6541 5 chr4B.!!$F2 6286
2 TraesCS4D01G288600 chr4A 8592697 8599229 6532 True 3115.333333 6794 94.103667 1 6005 3 chr4A.!!$R2 6004

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
964 1439 0.035439 GAGGCCCGTCATCCAAGAAA 60.035 55.000 0.00 0.0 0.00 2.52 F
1274 1755 0.106708 TTCCATCCCACGAGCTATGC 59.893 55.000 0.00 0.0 0.00 3.14 F
1330 1811 1.078143 AGTGATTTCCCGCTGCTCC 60.078 57.895 0.00 0.0 0.00 4.70 F
1881 2515 1.202663 TGCATGCCATGTTTGCAACTT 60.203 42.857 16.68 0.0 42.95 2.66 F
2813 3449 1.227556 GTAGCCATGTACCCCGCAG 60.228 63.158 0.00 0.0 0.00 5.18 F
2994 3630 2.500229 GACCCAAATGTGACGGAAGAA 58.500 47.619 0.00 0.0 0.00 2.52 F
4414 5062 1.202521 TGTGCGGCATGTCACTATAGG 60.203 52.381 5.72 0.0 34.49 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1939 2575 1.398390 GAAGAACAACGCTGGCCATAG 59.602 52.381 5.51 5.88 0.00 2.23 R
2994 3630 0.743701 CGCAAATCTGCCTCAGCTCT 60.744 55.000 0.00 0.00 46.56 4.09 R
3566 4205 7.545615 ACATTATAGGCATATACACACATGACG 59.454 37.037 11.86 0.00 35.20 4.35 R
3991 4634 5.750067 TCAGACCGTTATCTATTTAAACCGC 59.250 40.000 0.00 0.00 0.00 5.68 R
4256 4902 1.153168 CTGTTGGGGATACTGGGCG 60.153 63.158 0.00 0.00 0.00 6.13 R
4980 5653 2.573915 CAGGAAGGTTAAGAGGAAGCCT 59.426 50.000 0.00 0.00 36.03 4.58 R
6207 6904 0.248825 CTCTCTTCGCCGTCAGGATG 60.249 60.000 0.00 0.00 41.02 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
23 24 6.603237 TTGACACAAATCTAATATGCGGAG 57.397 37.500 0.00 0.00 0.00 4.63
34 35 8.828688 ATCTAATATGCGGAGTAAAAAGTACC 57.171 34.615 0.00 0.00 0.00 3.34
36 37 3.598019 ATGCGGAGTAAAAAGTACCGA 57.402 42.857 0.00 0.00 45.31 4.69
211 212 5.048504 GCCAATGTTCTCAGTCAGATTTTCA 60.049 40.000 0.00 0.00 0.00 2.69
221 222 4.152402 CAGTCAGATTTTCAACTACACCCG 59.848 45.833 0.00 0.00 0.00 5.28
597 601 0.390860 CCAACCGCACCCAAAAATCA 59.609 50.000 0.00 0.00 0.00 2.57
599 603 2.067766 CAACCGCACCCAAAAATCATG 58.932 47.619 0.00 0.00 0.00 3.07
629 633 6.946009 AGGTATGTACTACAAAAATTGTGGCT 59.054 34.615 6.01 0.00 44.90 4.75
631 635 8.395633 GGTATGTACTACAAAAATTGTGGCTAG 58.604 37.037 6.01 0.00 44.90 3.42
705 709 7.970614 CACTTAATAAGAGATCAAAAAGGGCAC 59.029 37.037 7.06 0.00 0.00 5.01
717 721 1.990160 AAGGGCACACCAAAGGTCGA 61.990 55.000 0.00 0.00 43.89 4.20
721 725 0.531974 GCACACCAAAGGTCGAGACA 60.532 55.000 5.55 0.00 31.02 3.41
722 726 1.217882 CACACCAAAGGTCGAGACAC 58.782 55.000 5.55 0.00 31.02 3.67
744 749 4.612412 TTTCGTCGGGCTTGCGGT 62.612 61.111 0.00 0.00 0.00 5.68
765 770 1.007734 GGTGCGAGAGTGACGTCAA 60.008 57.895 21.95 0.00 0.00 3.18
793 798 2.280389 CGCCGGTGATGGAGATGG 60.280 66.667 10.20 0.00 0.00 3.51
797 802 1.890979 CGGTGATGGAGATGGCTGC 60.891 63.158 0.00 0.00 0.00 5.25
820 825 3.329889 ACCTGAATCTGCCCCGCA 61.330 61.111 0.00 0.00 36.92 5.69
872 877 1.087501 ATTTTCGCTTTCGCCTCCTC 58.912 50.000 0.00 0.00 35.26 3.71
875 880 2.430382 TTCGCTTTCGCCTCCTCGTT 62.430 55.000 0.00 0.00 35.26 3.85
907 912 2.076100 TGAGCACCAAATCGACATGAC 58.924 47.619 0.00 0.00 0.00 3.06
943 1418 0.850100 TTCTTGAAGGCCCAGTCCAA 59.150 50.000 0.00 0.00 0.00 3.53
959 1434 1.299648 CAAAGAGGCCCGTCATCCA 59.700 57.895 0.00 0.00 0.00 3.41
964 1439 0.035439 GAGGCCCGTCATCCAAGAAA 60.035 55.000 0.00 0.00 0.00 2.52
1038 1514 4.726254 CAGGACCCCGTACCCCCA 62.726 72.222 0.00 0.00 0.00 4.96
1039 1515 4.728118 AGGACCCCGTACCCCCAC 62.728 72.222 0.00 0.00 0.00 4.61
1274 1755 0.106708 TTCCATCCCACGAGCTATGC 59.893 55.000 0.00 0.00 0.00 3.14
1277 1758 2.134287 ATCCCACGAGCTATGCCGT 61.134 57.895 0.00 0.00 36.32 5.68
1312 1793 4.357947 GTGCTCGTGCCCGACTCA 62.358 66.667 7.05 0.00 38.40 3.41
1320 1801 1.079503 GTGCCCGACTCAGTGATTTC 58.920 55.000 0.00 0.00 0.00 2.17
1330 1811 1.078143 AGTGATTTCCCGCTGCTCC 60.078 57.895 0.00 0.00 0.00 4.70
1389 1870 3.258228 GAATTTGGGCGTATTTGGTTGG 58.742 45.455 0.00 0.00 0.00 3.77
1439 1923 2.332117 AGGTTTAGGGTTCCGAAGTGA 58.668 47.619 0.00 0.00 0.00 3.41
1442 1926 1.719529 TTAGGGTTCCGAAGTGACCA 58.280 50.000 0.00 0.00 35.11 4.02
1468 1952 7.124298 AGTGTTCTGGAATTGACTGTAGCTATA 59.876 37.037 0.00 0.00 0.00 1.31
1474 1958 8.034313 TGGAATTGACTGTAGCTATAATTCCT 57.966 34.615 27.16 6.00 46.85 3.36
1476 1960 8.994170 GGAATTGACTGTAGCTATAATTCCTTC 58.006 37.037 24.02 14.85 44.93 3.46
1521 2005 8.748380 ACTAGAATTAGCAAATTTGTTTGAGC 57.252 30.769 19.03 4.03 35.41 4.26
1662 2151 6.580041 GTGAACAGCATAGATTTGTTGAACTG 59.420 38.462 0.00 0.00 35.35 3.16
1664 2153 6.639632 ACAGCATAGATTTGTTGAACTGTT 57.360 33.333 0.00 0.00 32.21 3.16
1670 2159 7.007725 GCATAGATTTGTTGAACTGTTTCATCG 59.992 37.037 0.00 0.00 41.50 3.84
1704 2194 5.535753 AAGTTGCTTGTTTTCCTTGCTAT 57.464 34.783 0.00 0.00 0.00 2.97
1716 2349 3.869065 TCCTTGCTATGGTAACCTTTCG 58.131 45.455 0.00 0.00 0.00 3.46
1829 2463 4.260170 CCTCTTCTGGACTTCATTTGGAG 58.740 47.826 0.00 0.00 0.00 3.86
1881 2515 1.202663 TGCATGCCATGTTTGCAACTT 60.203 42.857 16.68 0.00 42.95 2.66
1926 2562 6.798482 TCAGTTGACTAGTCTTTCAAACGTA 58.202 36.000 23.01 9.50 33.58 3.57
2162 2798 4.994744 GCACAAATGCCTGGAACC 57.005 55.556 0.00 0.00 46.97 3.62
2258 2894 4.522789 TCAATTTTTGTAGGAGACTTGGCC 59.477 41.667 0.00 0.00 43.67 5.36
2321 2957 5.726793 AGTGAACTATTCATCTGTTAGGGGT 59.273 40.000 0.00 0.00 42.47 4.95
2813 3449 1.227556 GTAGCCATGTACCCCGCAG 60.228 63.158 0.00 0.00 0.00 5.18
2994 3630 2.500229 GACCCAAATGTGACGGAAGAA 58.500 47.619 0.00 0.00 0.00 2.52
3566 4205 6.548993 AGGGAGGAGCAAAATTGATCTTTATC 59.451 38.462 10.80 5.14 42.83 1.75
3691 4330 4.129380 TCTAATGTCCGAATGATGCAAGG 58.871 43.478 0.00 0.00 0.00 3.61
3866 4509 7.226325 TGCCACAAACCTTCATTTAAATTTCTG 59.774 33.333 0.00 0.00 0.00 3.02
4409 5057 1.819928 TATTTGTGCGGCATGTCACT 58.180 45.000 5.72 0.00 34.49 3.41
4414 5062 1.202521 TGTGCGGCATGTCACTATAGG 60.203 52.381 5.72 0.00 34.49 2.57
4469 5117 5.930569 GGTTTGTTTCTACCAATAGAGACGT 59.069 40.000 0.00 0.00 42.75 4.34
4996 5669 6.787957 TGCTATATTAGGCTTCCTCTTAACCT 59.212 38.462 0.00 0.00 34.61 3.50
5001 5674 2.573915 AGGCTTCCTCTTAACCTTCCTG 59.426 50.000 0.00 0.00 0.00 3.86
5275 5950 8.088365 CGTATGTGGTCCATATTGAAATCTCTA 58.912 37.037 6.41 0.00 38.29 2.43
5428 6111 3.384467 TGGAAGGTTCAGCAAAAGGAAAG 59.616 43.478 0.00 0.00 0.00 2.62
5458 6141 3.454812 ACCTCAGCCCTGACGTTTTATAT 59.545 43.478 0.00 0.00 35.46 0.86
5464 6147 3.243068 GCCCTGACGTTTTATATTGCTGG 60.243 47.826 0.00 0.00 0.00 4.85
5511 6194 5.551977 ACCTTTTCTTCCTTCCAATCTAGGA 59.448 40.000 0.00 0.00 38.76 2.94
5522 6205 2.797156 CCAATCTAGGATGAACGCTTCG 59.203 50.000 0.00 0.00 0.00 3.79
5542 6225 1.937899 GTACATGGCGGTTCATGGTAC 59.062 52.381 14.50 11.16 46.33 3.34
5544 6227 0.393673 CATGGCGGTTCATGGTACCA 60.394 55.000 18.99 18.99 40.43 3.25
5684 6371 2.622452 CCCCCTCCGAGAAGTAACTACA 60.622 54.545 0.00 0.00 0.00 2.74
5695 6382 6.350277 CGAGAAGTAACTACAGGGTTGAGATT 60.350 42.308 0.00 0.00 0.00 2.40
5705 6392 2.173569 AGGGTTGAGATTATGACAGGCC 59.826 50.000 0.00 0.00 0.00 5.19
5716 6403 3.226429 GACAGGCCGACAGACAGCA 62.226 63.158 0.00 0.00 0.00 4.41
5720 6407 0.972983 AGGCCGACAGACAGCATAGT 60.973 55.000 0.00 0.00 0.00 2.12
5770 6457 9.656323 ATGTACTATGATGTAGGAAACCTCTTA 57.344 33.333 0.00 0.00 34.61 2.10
5904 6594 5.684550 AAAGGATTAGTTTGGTTCGTGTC 57.315 39.130 0.00 0.00 0.00 3.67
5943 6633 2.512692 AATATTGCTGCCTGGTGTGA 57.487 45.000 0.00 0.00 0.00 3.58
6042 6739 5.955959 AGTTTCCTGGTGGTTTAAACTTTCT 59.044 36.000 17.50 1.17 35.61 2.52
6043 6740 6.439375 AGTTTCCTGGTGGTTTAAACTTTCTT 59.561 34.615 17.50 0.00 35.61 2.52
6044 6741 6.459670 TTCCTGGTGGTTTAAACTTTCTTC 57.540 37.500 17.50 1.09 34.23 2.87
6045 6742 5.762279 TCCTGGTGGTTTAAACTTTCTTCT 58.238 37.500 17.50 0.00 34.23 2.85
6052 6749 7.705325 GGTGGTTTAAACTTTCTTCTTCCTTTC 59.295 37.037 17.50 0.00 0.00 2.62
6102 6799 3.338249 AGTGGTTCTGTGCATCATGTAC 58.662 45.455 0.00 0.00 33.42 2.90
6103 6800 2.094258 GTGGTTCTGTGCATCATGTACG 59.906 50.000 1.07 0.00 35.67 3.67
6104 6801 2.289382 TGGTTCTGTGCATCATGTACGT 60.289 45.455 1.07 0.00 35.67 3.57
6106 6803 3.551890 GGTTCTGTGCATCATGTACGTAG 59.448 47.826 1.07 0.00 35.67 3.51
6108 6805 5.337554 GTTCTGTGCATCATGTACGTAGTA 58.662 41.667 1.07 0.00 45.11 1.82
6154 6851 1.133513 TCAAATGTCTGGGTGGTTGCT 60.134 47.619 0.00 0.00 0.00 3.91
6168 6865 2.488937 TGGTTGCTGTGCATCATGTAAG 59.511 45.455 0.00 0.00 38.76 2.34
6187 6884 0.035820 GTATGTGCGGTTTCTCCCCA 60.036 55.000 0.00 0.00 0.00 4.96
6198 6895 1.358152 TTCTCCCCATCCTGAAACGT 58.642 50.000 0.00 0.00 0.00 3.99
6199 6896 0.902531 TCTCCCCATCCTGAAACGTC 59.097 55.000 0.00 0.00 0.00 4.34
6200 6897 0.460284 CTCCCCATCCTGAAACGTCG 60.460 60.000 0.00 0.00 0.00 5.12
6201 6898 1.189524 TCCCCATCCTGAAACGTCGT 61.190 55.000 0.00 0.00 0.00 4.34
6202 6899 1.019278 CCCCATCCTGAAACGTCGTG 61.019 60.000 0.00 0.00 0.00 4.35
6203 6900 1.635663 CCCATCCTGAAACGTCGTGC 61.636 60.000 0.00 0.00 0.00 5.34
6204 6901 0.670546 CCATCCTGAAACGTCGTGCT 60.671 55.000 0.00 0.00 0.00 4.40
6206 6903 1.291877 ATCCTGAAACGTCGTGCTGC 61.292 55.000 0.00 0.00 0.00 5.25
6207 6904 2.551270 CTGAAACGTCGTGCTGCC 59.449 61.111 0.00 0.00 0.00 4.85
6208 6905 2.202946 TGAAACGTCGTGCTGCCA 60.203 55.556 0.00 0.00 0.00 4.92
6209 6906 1.568612 CTGAAACGTCGTGCTGCCAT 61.569 55.000 0.00 0.00 0.00 4.40
6223 8638 2.892640 CCATCCTGACGGCGAAGA 59.107 61.111 16.62 4.50 0.00 2.87
6231 8646 1.139947 GACGGCGAAGAGAGAAGGG 59.860 63.158 16.62 0.00 0.00 3.95
6232 8647 1.304217 ACGGCGAAGAGAGAAGGGA 60.304 57.895 16.62 0.00 0.00 4.20
6233 8648 1.316706 ACGGCGAAGAGAGAAGGGAG 61.317 60.000 16.62 0.00 0.00 4.30
6234 8649 1.819905 GGCGAAGAGAGAAGGGAGG 59.180 63.158 0.00 0.00 0.00 4.30
6235 8650 0.684805 GGCGAAGAGAGAAGGGAGGA 60.685 60.000 0.00 0.00 0.00 3.71
6236 8651 1.187087 GCGAAGAGAGAAGGGAGGAA 58.813 55.000 0.00 0.00 0.00 3.36
6237 8652 1.136110 GCGAAGAGAGAAGGGAGGAAG 59.864 57.143 0.00 0.00 0.00 3.46
6238 8653 1.136110 CGAAGAGAGAAGGGAGGAAGC 59.864 57.143 0.00 0.00 0.00 3.86
6239 8654 2.183679 GAAGAGAGAAGGGAGGAAGCA 58.816 52.381 0.00 0.00 0.00 3.91
6240 8655 2.566708 AGAGAGAAGGGAGGAAGCAT 57.433 50.000 0.00 0.00 0.00 3.79
6241 8656 2.117865 AGAGAGAAGGGAGGAAGCATG 58.882 52.381 0.00 0.00 0.00 4.06
6242 8657 1.140652 GAGAGAAGGGAGGAAGCATGG 59.859 57.143 0.00 0.00 0.00 3.66
6243 8658 0.465278 GAGAAGGGAGGAAGCATGGC 60.465 60.000 0.00 0.00 0.00 4.40
6244 8659 0.918310 AGAAGGGAGGAAGCATGGCT 60.918 55.000 0.00 0.00 42.56 4.75
6245 8660 0.465278 GAAGGGAGGAAGCATGGCTC 60.465 60.000 0.00 0.00 38.25 4.70
6246 8661 0.918310 AAGGGAGGAAGCATGGCTCT 60.918 55.000 0.00 0.00 38.25 4.09
6247 8662 1.153005 GGGAGGAAGCATGGCTCTG 60.153 63.158 0.00 0.00 38.25 3.35
6248 8663 1.153005 GGAGGAAGCATGGCTCTGG 60.153 63.158 0.00 0.00 38.25 3.86
6252 8667 1.287146 AGGAAGCATGGCTCTGGAAAT 59.713 47.619 0.00 0.00 38.25 2.17
6258 8673 1.747355 CATGGCTCTGGAAATCACCAC 59.253 52.381 0.00 0.00 35.91 4.16
6269 8684 1.453155 AATCACCACATCTCGCAACC 58.547 50.000 0.00 0.00 0.00 3.77
6270 8685 0.740868 ATCACCACATCTCGCAACCG 60.741 55.000 0.00 0.00 0.00 4.44
6271 8686 2.742372 ACCACATCTCGCAACCGC 60.742 61.111 0.00 0.00 0.00 5.68
6272 8687 2.434884 CCACATCTCGCAACCGCT 60.435 61.111 0.00 0.00 35.30 5.52
6273 8688 2.456119 CCACATCTCGCAACCGCTC 61.456 63.158 0.00 0.00 35.30 5.03
6275 8690 1.005037 ACATCTCGCAACCGCTCAA 60.005 52.632 0.00 0.00 35.30 3.02
6276 8691 1.016130 ACATCTCGCAACCGCTCAAG 61.016 55.000 0.00 0.00 35.30 3.02
6277 8692 2.103042 ATCTCGCAACCGCTCAAGC 61.103 57.895 0.00 0.00 35.30 4.01
6279 8694 2.280797 TCGCAACCGCTCAAGCTT 60.281 55.556 0.00 0.00 39.32 3.74
6280 8695 2.127118 CGCAACCGCTCAAGCTTG 60.127 61.111 20.81 20.81 39.32 4.01
6281 8696 2.429739 GCAACCGCTCAAGCTTGC 60.430 61.111 21.99 10.19 42.24 4.01
6282 8697 2.912624 GCAACCGCTCAAGCTTGCT 61.913 57.895 21.99 0.00 44.07 3.91
6283 8698 1.081641 CAACCGCTCAAGCTTGCTG 60.082 57.895 21.99 16.69 39.32 4.41
6284 8699 2.263741 AACCGCTCAAGCTTGCTGG 61.264 57.895 21.99 22.13 39.32 4.85
6298 8715 4.227134 CTGGATCCACCTCCGGCG 62.227 72.222 11.44 0.00 38.21 6.46
6302 8719 2.838225 ATCCACCTCCGGCGGTAG 60.838 66.667 27.32 20.42 34.94 3.18
6315 8732 3.782443 GGTAGCCGTCCACCAGGG 61.782 72.222 0.00 0.00 34.77 4.45
6344 8761 4.270008 GCCAAAAGAAGTAGAAGGCCATA 58.730 43.478 5.01 0.00 34.71 2.74
6352 8769 2.368875 AGTAGAAGGCCATAATCGTGGG 59.631 50.000 5.01 0.00 39.73 4.61
6356 8773 0.916086 AGGCCATAATCGTGGGACAA 59.084 50.000 5.01 0.00 44.16 3.18
6359 8776 1.531149 GCCATAATCGTGGGACAATCG 59.469 52.381 0.00 0.00 44.16 3.34
6364 8781 2.515926 ATCGTGGGACAATCGATGAG 57.484 50.000 0.00 0.00 44.00 2.90
6373 8790 3.935203 GGACAATCGATGAGTGTGACAAT 59.065 43.478 5.96 0.00 40.97 2.71
6381 8798 4.671766 CGATGAGTGTGACAATCGTCTGTA 60.672 45.833 26.25 2.72 40.77 2.74
6394 8811 1.135257 CGTCTGTACCAAGCTCCTCAG 60.135 57.143 0.00 0.00 0.00 3.35
6410 8828 3.007831 TCCTCAGCACATAATGTCACACA 59.992 43.478 0.00 0.00 0.00 3.72
6415 8833 3.008375 AGCACATAATGTCACACACCTCT 59.992 43.478 0.00 0.00 0.00 3.69
6418 8836 5.411361 GCACATAATGTCACACACCTCTAAA 59.589 40.000 0.00 0.00 0.00 1.85
6423 8841 4.746535 TGTCACACACCTCTAAAGTCAA 57.253 40.909 0.00 0.00 0.00 3.18
6431 8849 3.055312 CACCTCTAAAGTCAACCCTACCC 60.055 52.174 0.00 0.00 0.00 3.69
6437 8855 1.948391 AGTCAACCCTACCCTACACC 58.052 55.000 0.00 0.00 0.00 4.16
6456 8874 4.035324 ACACCTGATATCTACAACGACGAG 59.965 45.833 0.00 0.00 0.00 4.18
6502 8920 4.261801 GCTAGTCTATGGCACCAAAGAAA 58.738 43.478 0.00 0.00 35.01 2.52
6503 8921 4.700213 GCTAGTCTATGGCACCAAAGAAAA 59.300 41.667 0.00 0.00 35.01 2.29
6504 8922 5.163713 GCTAGTCTATGGCACCAAAGAAAAG 60.164 44.000 0.00 0.00 35.01 2.27
6505 8923 4.985538 AGTCTATGGCACCAAAGAAAAGA 58.014 39.130 0.00 0.00 0.00 2.52
6507 8925 6.012745 AGTCTATGGCACCAAAGAAAAGAAT 58.987 36.000 0.00 0.00 0.00 2.40
6508 8926 6.071728 AGTCTATGGCACCAAAGAAAAGAATG 60.072 38.462 0.00 0.00 0.00 2.67
6509 8927 3.110447 TGGCACCAAAGAAAAGAATGC 57.890 42.857 0.00 0.00 0.00 3.56
6510 8928 2.061028 GGCACCAAAGAAAAGAATGCG 58.939 47.619 0.00 0.00 32.35 4.73
6511 8929 2.288152 GGCACCAAAGAAAAGAATGCGA 60.288 45.455 0.00 0.00 32.35 5.10
6516 8934 5.006386 ACCAAAGAAAAGAATGCGAGAGAT 58.994 37.500 0.00 0.00 0.00 2.75
6543 8961 3.028130 GGAGAACTCCTGAGGACTTAGG 58.972 54.545 12.98 3.88 46.16 2.69
6544 8962 3.028130 GAGAACTCCTGAGGACTTAGGG 58.972 54.545 9.91 4.26 37.01 3.53
6545 8963 2.655407 AGAACTCCTGAGGACTTAGGGA 59.345 50.000 9.91 0.72 37.01 4.20
6546 8964 2.838637 ACTCCTGAGGACTTAGGGAG 57.161 55.000 9.91 10.97 46.27 4.30
6547 8965 2.289467 ACTCCTGAGGACTTAGGGAGA 58.711 52.381 13.30 0.00 44.37 3.71
6548 8966 2.655407 ACTCCTGAGGACTTAGGGAGAA 59.345 50.000 13.30 0.00 44.37 2.87
6549 8967 3.077695 ACTCCTGAGGACTTAGGGAGAAA 59.922 47.826 13.30 0.00 44.37 2.52
6550 8968 3.442076 TCCTGAGGACTTAGGGAGAAAC 58.558 50.000 9.91 0.00 37.01 2.78
6551 8969 2.166664 CCTGAGGACTTAGGGAGAAACG 59.833 54.545 0.00 0.00 33.14 3.60
6552 8970 3.090037 CTGAGGACTTAGGGAGAAACGA 58.910 50.000 0.00 0.00 0.00 3.85
6553 8971 3.090037 TGAGGACTTAGGGAGAAACGAG 58.910 50.000 0.00 0.00 0.00 4.18
6554 8972 2.427812 GAGGACTTAGGGAGAAACGAGG 59.572 54.545 0.00 0.00 0.00 4.63
6555 8973 1.481363 GGACTTAGGGAGAAACGAGGG 59.519 57.143 0.00 0.00 0.00 4.30
6556 8974 2.454538 GACTTAGGGAGAAACGAGGGA 58.545 52.381 0.00 0.00 0.00 4.20
6557 8975 2.830321 GACTTAGGGAGAAACGAGGGAA 59.170 50.000 0.00 0.00 0.00 3.97
6558 8976 3.245441 ACTTAGGGAGAAACGAGGGAAA 58.755 45.455 0.00 0.00 0.00 3.13
6559 8977 3.261137 ACTTAGGGAGAAACGAGGGAAAG 59.739 47.826 0.00 0.00 0.00 2.62
6560 8978 2.025636 AGGGAGAAACGAGGGAAAGA 57.974 50.000 0.00 0.00 0.00 2.52
6561 8979 1.903183 AGGGAGAAACGAGGGAAAGAG 59.097 52.381 0.00 0.00 0.00 2.85
6562 8980 1.900486 GGGAGAAACGAGGGAAAGAGA 59.100 52.381 0.00 0.00 0.00 3.10
6563 8981 2.302157 GGGAGAAACGAGGGAAAGAGAA 59.698 50.000 0.00 0.00 0.00 2.87
6564 8982 3.244457 GGGAGAAACGAGGGAAAGAGAAA 60.244 47.826 0.00 0.00 0.00 2.52
6565 8983 3.747010 GGAGAAACGAGGGAAAGAGAAAC 59.253 47.826 0.00 0.00 0.00 2.78
6566 8984 3.741249 AGAAACGAGGGAAAGAGAAACC 58.259 45.455 0.00 0.00 0.00 3.27
6567 8985 3.391626 AGAAACGAGGGAAAGAGAAACCT 59.608 43.478 0.00 0.00 35.67 3.50
6568 8986 3.404224 AACGAGGGAAAGAGAAACCTC 57.596 47.619 0.00 0.00 44.71 3.85
6569 8987 1.624312 ACGAGGGAAAGAGAAACCTCC 59.376 52.381 0.00 0.00 45.23 4.30
6570 8988 1.623811 CGAGGGAAAGAGAAACCTCCA 59.376 52.381 0.00 0.00 45.23 3.86
6571 8989 2.038557 CGAGGGAAAGAGAAACCTCCAA 59.961 50.000 0.00 0.00 45.23 3.53
6572 8990 3.413327 GAGGGAAAGAGAAACCTCCAAC 58.587 50.000 0.00 0.00 42.87 3.77
6573 8991 3.056832 AGGGAAAGAGAAACCTCCAACT 58.943 45.455 0.00 0.00 0.00 3.16
6574 8992 4.240323 AGGGAAAGAGAAACCTCCAACTA 58.760 43.478 0.00 0.00 0.00 2.24
6575 8993 4.663592 AGGGAAAGAGAAACCTCCAACTAA 59.336 41.667 0.00 0.00 0.00 2.24
6576 8994 5.133830 AGGGAAAGAGAAACCTCCAACTAAA 59.866 40.000 0.00 0.00 0.00 1.85
6577 8995 5.473846 GGGAAAGAGAAACCTCCAACTAAAG 59.526 44.000 0.00 0.00 0.00 1.85
6578 8996 6.062749 GGAAAGAGAAACCTCCAACTAAAGT 58.937 40.000 0.00 0.00 0.00 2.66
6579 8997 6.546403 GGAAAGAGAAACCTCCAACTAAAGTT 59.454 38.462 0.00 0.00 39.12 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 6.755607 CAGATACTCCCTTCGGTACTTTTTAC 59.244 42.308 0.00 0.00 0.00 2.01
33 34 2.691409 TTTGCAGATACTCCCTTCGG 57.309 50.000 0.00 0.00 0.00 4.30
34 35 5.991606 TCATTATTTGCAGATACTCCCTTCG 59.008 40.000 0.00 0.00 0.00 3.79
36 37 7.446625 GTCATCATTATTTGCAGATACTCCCTT 59.553 37.037 0.00 0.00 0.00 3.95
56 57 6.402456 TTCAAATGTCACATTTGGTCATCA 57.598 33.333 33.16 16.79 38.97 3.07
113 114 4.383010 GGACAATGAAAAATGGGCTTAGGG 60.383 45.833 0.00 0.00 0.00 3.53
211 212 2.299326 ACTAGTCACCGGGTGTAGTT 57.701 50.000 25.53 12.51 34.79 2.24
253 254 5.653769 AGACATATGTTGAGGTTGGATTTGG 59.346 40.000 10.30 0.00 0.00 3.28
261 262 6.543831 GGAGCAATAAGACATATGTTGAGGTT 59.456 38.462 10.30 2.29 0.00 3.50
597 601 9.541884 AATTTTTGTAGTACATACCTTTCCCAT 57.458 29.630 3.28 0.00 33.01 4.00
599 603 8.799367 ACAATTTTTGTAGTACATACCTTTCCC 58.201 33.333 3.28 0.00 43.27 3.97
601 605 9.620660 CCACAATTTTTGTAGTACATACCTTTC 57.379 33.333 3.28 0.00 43.23 2.62
607 611 9.378551 CTCTAGCCACAATTTTTGTAGTACATA 57.621 33.333 3.28 0.00 43.23 2.29
609 613 7.446769 TCTCTAGCCACAATTTTTGTAGTACA 58.553 34.615 0.00 0.00 43.23 2.90
629 633 6.920817 TCTACGTCAGCATTCTTTTTCTCTA 58.079 36.000 0.00 0.00 0.00 2.43
631 635 6.467723 TTCTACGTCAGCATTCTTTTTCTC 57.532 37.500 0.00 0.00 0.00 2.87
683 687 6.377146 GGTGTGCCCTTTTTGATCTCTTATTA 59.623 38.462 0.00 0.00 0.00 0.98
684 688 5.185828 GGTGTGCCCTTTTTGATCTCTTATT 59.814 40.000 0.00 0.00 0.00 1.40
685 689 4.706962 GGTGTGCCCTTTTTGATCTCTTAT 59.293 41.667 0.00 0.00 0.00 1.73
705 709 0.249322 ACGTGTCTCGACCTTTGGTG 60.249 55.000 0.56 0.00 42.86 4.17
729 734 3.636313 CTTACCGCAAGCCCGACGA 62.636 63.158 0.00 0.00 0.00 4.20
744 749 0.520404 GACGTCACTCTCGCACCTTA 59.480 55.000 11.55 0.00 0.00 2.69
797 802 2.401766 GGCAGATTCAGGTGGTGCG 61.402 63.158 0.00 0.00 34.86 5.34
820 825 3.752747 TGTCGATGATCAAAGCATTGTGT 59.247 39.130 0.00 0.00 37.79 3.72
872 877 1.804151 TGCTCAAAATCGAGGGAAACG 59.196 47.619 0.00 0.00 33.36 3.60
875 880 1.073125 TGGTGCTCAAAATCGAGGGAA 59.927 47.619 0.00 0.00 33.36 3.97
907 912 6.446781 TCAAGAATTAGTAGTACCCTCACG 57.553 41.667 0.00 0.00 0.00 4.35
943 1418 0.909610 TCTTGGATGACGGGCCTCTT 60.910 55.000 0.84 0.00 0.00 2.85
959 1434 0.411058 ATGAGCCCTTGGGCTTTCTT 59.589 50.000 31.17 16.31 46.05 2.52
1121 1602 2.113774 GCCCCGCCATCATCATCA 59.886 61.111 0.00 0.00 0.00 3.07
1312 1793 1.078143 GGAGCAGCGGGAAATCACT 60.078 57.895 0.00 0.00 0.00 3.41
1352 1833 5.221048 CCCAAATTCACCTAAATAGCGAAGG 60.221 44.000 0.00 0.00 36.42 3.46
1389 1870 5.903810 ACTCGAAAACAGGATAGATACCAC 58.096 41.667 0.00 0.00 0.00 4.16
1442 1926 4.040952 AGCTACAGTCAATTCCAGAACACT 59.959 41.667 0.00 0.00 0.00 3.55
1457 1941 5.604650 AGCCAGAAGGAATTATAGCTACAGT 59.395 40.000 0.00 0.00 36.89 3.55
1468 1952 2.317530 GCGTCTAGCCAGAAGGAATT 57.682 50.000 0.00 0.00 40.81 2.17
1520 2004 2.874701 AGAATATCAACCATGTCGCTGC 59.125 45.455 0.00 0.00 0.00 5.25
1521 2005 4.122046 TCAGAATATCAACCATGTCGCTG 58.878 43.478 0.00 0.00 0.00 5.18
1678 2168 7.232118 AGCAAGGAAAACAAGCAACTTATAT 57.768 32.000 0.00 0.00 0.00 0.86
1679 2169 6.648879 AGCAAGGAAAACAAGCAACTTATA 57.351 33.333 0.00 0.00 0.00 0.98
1680 2170 5.535753 AGCAAGGAAAACAAGCAACTTAT 57.464 34.783 0.00 0.00 0.00 1.73
1716 2349 5.781223 CAAAACTTTGTTGCGACTTTTACC 58.219 37.500 5.50 0.00 33.59 2.85
1881 2515 6.993786 TGAAATCAGTGTGACACAGTAAAA 57.006 33.333 18.95 5.36 36.74 1.52
1926 2562 5.470098 CGCTGGCCATAGAAGTATAAAACAT 59.530 40.000 5.51 0.00 0.00 2.71
1939 2575 1.398390 GAAGAACAACGCTGGCCATAG 59.602 52.381 5.51 5.88 0.00 2.23
2162 2798 5.277202 CCAGTTCAATCTGAATGTATGCTCG 60.277 44.000 0.00 0.00 38.79 5.03
2258 2894 6.227298 AGTAAGTAATCTGTGACATCAGGG 57.773 41.667 0.00 0.00 36.25 4.45
2321 2957 1.545428 GGATCTGTGACAACCTTGGCA 60.545 52.381 0.00 0.00 45.70 4.92
2994 3630 0.743701 CGCAAATCTGCCTCAGCTCT 60.744 55.000 0.00 0.00 46.56 4.09
3566 4205 7.545615 ACATTATAGGCATATACACACATGACG 59.454 37.037 11.86 0.00 35.20 4.35
3691 4330 7.864307 ACGATTATCTTAGTGGTAAATACGC 57.136 36.000 0.00 0.00 0.00 4.42
3991 4634 5.750067 TCAGACCGTTATCTATTTAAACCGC 59.250 40.000 0.00 0.00 0.00 5.68
4256 4902 1.153168 CTGTTGGGGATACTGGGCG 60.153 63.158 0.00 0.00 0.00 6.13
4383 5031 4.671377 ACATGCCGCACAAATAAATACAG 58.329 39.130 0.00 0.00 0.00 2.74
4652 5303 5.009631 ACAACTAAATGCAAGAGCCATGTA 58.990 37.500 0.00 0.00 41.13 2.29
4980 5653 2.573915 CAGGAAGGTTAAGAGGAAGCCT 59.426 50.000 0.00 0.00 36.03 4.58
5001 5674 3.682999 GCTCCCTCAACCTGGAAGATTAC 60.683 52.174 0.00 0.00 34.07 1.89
5362 6045 7.807433 TCAAAACTGGAATGATTTGTGTTATCG 59.193 33.333 0.00 0.00 35.01 2.92
5401 6084 4.363138 CTTTTGCTGAACCTTCCAGTTTC 58.637 43.478 0.00 0.00 34.29 2.78
5428 6111 0.961753 CAGGGCTGAGGTTGTTTTCC 59.038 55.000 0.00 0.00 0.00 3.13
5458 6141 5.244851 CAGTTAGATAGATAGAGGCCAGCAA 59.755 44.000 5.01 0.00 0.00 3.91
5464 6147 6.329496 GTGCATCAGTTAGATAGATAGAGGC 58.671 44.000 0.00 0.00 34.43 4.70
5511 6194 1.006832 GCCATGTACGAAGCGTTCAT 58.993 50.000 6.31 6.31 45.63 2.57
5522 6205 1.937899 GTACCATGAACCGCCATGTAC 59.062 52.381 0.00 0.00 41.65 2.90
5542 6225 2.279517 GGCGTCCTAGCATCGTGG 60.280 66.667 0.00 0.00 39.27 4.94
5544 6227 2.494918 GTGGCGTCCTAGCATCGT 59.505 61.111 0.00 0.00 39.27 3.73
5684 6371 2.173569 GGCCTGTCATAATCTCAACCCT 59.826 50.000 0.00 0.00 0.00 4.34
5695 6382 0.817654 CTGTCTGTCGGCCTGTCATA 59.182 55.000 0.00 0.00 0.00 2.15
5705 6392 3.428746 AGCTAACTATGCTGTCTGTCG 57.571 47.619 0.00 0.00 39.56 4.35
5716 6403 7.273598 CGACGCAACATATATGAAGCTAACTAT 59.726 37.037 19.63 4.41 0.00 2.12
5720 6407 4.149922 GCGACGCAACATATATGAAGCTAA 59.850 41.667 19.63 0.00 0.00 3.09
5770 6457 5.726793 AGATAAACCAGGACAGGACTAACAT 59.273 40.000 0.00 0.00 0.00 2.71
5848 6535 5.181245 ACAAGATGGTCAGGATACAAAAACG 59.819 40.000 0.00 0.00 41.41 3.60
5904 6594 0.839277 TCCCAGGCATACATCTGTGG 59.161 55.000 0.00 0.00 0.00 4.17
5943 6633 6.626623 GCAGCAAAACAACCTGAGATTATGAT 60.627 38.462 0.00 0.00 0.00 2.45
6081 6778 2.574006 ACATGATGCACAGAACCACT 57.426 45.000 0.00 0.00 0.00 4.00
6102 6799 1.203052 ACACCCGGACACATTACTACG 59.797 52.381 0.73 0.00 0.00 3.51
6103 6800 2.494870 AGACACCCGGACACATTACTAC 59.505 50.000 0.73 0.00 0.00 2.73
6104 6801 2.756760 GAGACACCCGGACACATTACTA 59.243 50.000 0.73 0.00 0.00 1.82
6106 6803 1.405121 GGAGACACCCGGACACATTAC 60.405 57.143 0.73 0.00 0.00 1.89
6107 6804 0.899720 GGAGACACCCGGACACATTA 59.100 55.000 0.73 0.00 0.00 1.90
6108 6805 1.677552 GGAGACACCCGGACACATT 59.322 57.895 0.73 0.00 0.00 2.71
6109 6806 3.388841 GGAGACACCCGGACACAT 58.611 61.111 0.73 0.00 0.00 3.21
6129 6826 2.224867 ACCACCCAGACATTTGAGAAGG 60.225 50.000 0.00 0.00 0.00 3.46
6136 6833 1.331214 CAGCAACCACCCAGACATTT 58.669 50.000 0.00 0.00 0.00 2.32
6154 6851 3.309410 CGCACATACTTACATGATGCACA 59.691 43.478 0.00 0.00 34.98 4.57
6187 6884 1.291877 GCAGCACGACGTTTCAGGAT 61.292 55.000 0.00 0.00 0.00 3.24
6198 6895 2.265739 GTCAGGATGGCAGCACGA 59.734 61.111 4.64 0.00 43.01 4.35
6199 6896 3.190849 CGTCAGGATGGCAGCACG 61.191 66.667 4.64 1.89 44.43 5.34
6200 6897 2.821366 CCGTCAGGATGGCAGCAC 60.821 66.667 4.64 0.00 44.43 4.40
6206 6903 1.227089 CTCTTCGCCGTCAGGATGG 60.227 63.158 3.08 3.08 41.02 3.51
6207 6904 0.248825 CTCTCTTCGCCGTCAGGATG 60.249 60.000 0.00 0.00 41.02 3.51
6208 6905 0.394488 TCTCTCTTCGCCGTCAGGAT 60.394 55.000 0.00 0.00 41.02 3.24
6209 6906 0.608308 TTCTCTCTTCGCCGTCAGGA 60.608 55.000 0.00 0.00 41.02 3.86
6223 8638 1.211456 CCATGCTTCCTCCCTTCTCT 58.789 55.000 0.00 0.00 0.00 3.10
6231 8646 0.254178 TTCCAGAGCCATGCTTCCTC 59.746 55.000 0.00 0.00 39.88 3.71
6232 8647 0.700564 TTTCCAGAGCCATGCTTCCT 59.299 50.000 0.00 0.00 39.88 3.36
6233 8648 1.680207 GATTTCCAGAGCCATGCTTCC 59.320 52.381 0.00 0.00 39.88 3.46
6234 8649 2.098770 GTGATTTCCAGAGCCATGCTTC 59.901 50.000 0.00 0.00 39.88 3.86
6235 8650 2.097825 GTGATTTCCAGAGCCATGCTT 58.902 47.619 0.00 0.00 39.88 3.91
6236 8651 1.684248 GGTGATTTCCAGAGCCATGCT 60.684 52.381 0.00 0.00 43.88 3.79
6237 8652 0.743097 GGTGATTTCCAGAGCCATGC 59.257 55.000 0.00 0.00 0.00 4.06
6238 8653 1.747355 GTGGTGATTTCCAGAGCCATG 59.253 52.381 0.00 0.00 38.23 3.66
6239 8654 1.355381 TGTGGTGATTTCCAGAGCCAT 59.645 47.619 0.00 0.00 38.23 4.40
6240 8655 0.770499 TGTGGTGATTTCCAGAGCCA 59.230 50.000 0.00 0.00 38.23 4.75
6241 8656 2.019984 GATGTGGTGATTTCCAGAGCC 58.980 52.381 0.00 0.00 38.23 4.70
6242 8657 2.941720 GAGATGTGGTGATTTCCAGAGC 59.058 50.000 0.00 0.00 38.23 4.09
6243 8658 3.193263 CGAGATGTGGTGATTTCCAGAG 58.807 50.000 0.00 0.00 38.23 3.35
6244 8659 2.677902 GCGAGATGTGGTGATTTCCAGA 60.678 50.000 0.00 0.00 38.23 3.86
6245 8660 1.667724 GCGAGATGTGGTGATTTCCAG 59.332 52.381 0.00 0.00 38.23 3.86
6246 8661 1.003003 TGCGAGATGTGGTGATTTCCA 59.997 47.619 0.00 0.00 34.85 3.53
6247 8662 1.737838 TGCGAGATGTGGTGATTTCC 58.262 50.000 0.00 0.00 0.00 3.13
6248 8663 2.159517 GGTTGCGAGATGTGGTGATTTC 60.160 50.000 0.00 0.00 0.00 2.17
6252 8667 1.374125 CGGTTGCGAGATGTGGTGA 60.374 57.895 0.00 0.00 0.00 4.02
6270 8685 0.679002 TGGATCCAGCAAGCTTGAGC 60.679 55.000 30.39 15.67 42.49 4.26
6271 8686 1.093159 GTGGATCCAGCAAGCTTGAG 58.907 55.000 30.39 19.77 0.00 3.02
6272 8687 0.322816 GGTGGATCCAGCAAGCTTGA 60.323 55.000 33.83 9.46 43.20 3.02
6273 8688 0.323178 AGGTGGATCCAGCAAGCTTG 60.323 55.000 38.01 22.44 45.79 4.01
6275 8690 1.606531 GAGGTGGATCCAGCAAGCT 59.393 57.895 38.01 22.40 45.79 3.74
6276 8691 1.452833 GGAGGTGGATCCAGCAAGC 60.453 63.158 38.01 27.30 45.79 4.01
6277 8692 1.153289 CGGAGGTGGATCCAGCAAG 60.153 63.158 38.01 26.21 45.79 4.01
6298 8715 3.782443 CCCTGGTGGACGGCTACC 61.782 72.222 18.56 18.56 45.25 3.18
6309 8726 1.943730 TTTTGGCCACTGTCCCTGGT 61.944 55.000 3.88 0.00 0.00 4.00
6313 8730 0.961753 CTTCTTTTGGCCACTGTCCC 59.038 55.000 3.88 0.00 0.00 4.46
6315 8732 3.740115 TCTACTTCTTTTGGCCACTGTC 58.260 45.455 3.88 0.00 0.00 3.51
6344 8761 2.168521 ACTCATCGATTGTCCCACGATT 59.831 45.455 0.00 0.00 43.29 3.34
6352 8769 4.259570 CGATTGTCACACTCATCGATTGTC 60.260 45.833 4.61 0.00 33.90 3.18
6356 8773 3.439293 GACGATTGTCACACTCATCGAT 58.561 45.455 15.61 0.00 44.82 3.59
6373 8790 1.174783 GAGGAGCTTGGTACAGACGA 58.825 55.000 0.00 0.00 42.39 4.20
6381 8798 1.279496 TATGTGCTGAGGAGCTTGGT 58.721 50.000 0.00 0.00 46.39 3.67
6394 8811 3.338249 AGAGGTGTGTGACATTATGTGC 58.662 45.455 1.24 0.00 0.00 4.57
6410 8828 3.179685 GGGTAGGGTTGACTTTAGAGGT 58.820 50.000 0.00 0.00 0.00 3.85
6415 8833 3.840078 GGTGTAGGGTAGGGTTGACTTTA 59.160 47.826 0.00 0.00 0.00 1.85
6418 8836 1.435959 AGGTGTAGGGTAGGGTTGACT 59.564 52.381 0.00 0.00 0.00 3.41
6423 8841 3.733281 AGATATCAGGTGTAGGGTAGGGT 59.267 47.826 5.32 0.00 0.00 4.34
6431 8849 5.235831 TCGTCGTTGTAGATATCAGGTGTAG 59.764 44.000 5.32 0.00 0.00 2.74
6437 8855 3.556513 GGCTCGTCGTTGTAGATATCAG 58.443 50.000 5.32 0.00 0.00 2.90
6497 8915 6.642950 CGGTATATCTCTCGCATTCTTTTCTT 59.357 38.462 0.00 0.00 0.00 2.52
6498 8916 6.153067 CGGTATATCTCTCGCATTCTTTTCT 58.847 40.000 0.00 0.00 0.00 2.52
6502 8920 4.079970 TCCGGTATATCTCTCGCATTCTT 58.920 43.478 0.00 0.00 0.00 2.52
6503 8921 3.687125 TCCGGTATATCTCTCGCATTCT 58.313 45.455 0.00 0.00 0.00 2.40
6504 8922 3.690139 TCTCCGGTATATCTCTCGCATTC 59.310 47.826 0.00 0.00 0.00 2.67
6505 8923 3.687125 TCTCCGGTATATCTCTCGCATT 58.313 45.455 0.00 0.00 0.00 3.56
6507 8925 2.812591 GTTCTCCGGTATATCTCTCGCA 59.187 50.000 0.00 0.00 0.00 5.10
6508 8926 3.075884 AGTTCTCCGGTATATCTCTCGC 58.924 50.000 0.00 0.00 0.00 5.03
6509 8927 3.685756 GGAGTTCTCCGGTATATCTCTCG 59.314 52.174 0.00 0.00 0.00 4.04
6510 8928 4.698304 CAGGAGTTCTCCGGTATATCTCTC 59.302 50.000 12.43 2.08 34.28 3.20
6511 8929 4.351407 TCAGGAGTTCTCCGGTATATCTCT 59.649 45.833 16.05 0.00 34.28 3.10
6516 8934 2.781757 TCCTCAGGAGTTCTCCGGTATA 59.218 50.000 16.05 3.46 34.28 1.47
6532 8950 3.090037 CTCGTTTCTCCCTAAGTCCTCA 58.910 50.000 0.00 0.00 0.00 3.86
6534 8952 2.458620 CCTCGTTTCTCCCTAAGTCCT 58.541 52.381 0.00 0.00 0.00 3.85
6541 8959 1.903183 CTCTTTCCCTCGTTTCTCCCT 59.097 52.381 0.00 0.00 0.00 4.20
6542 8960 1.900486 TCTCTTTCCCTCGTTTCTCCC 59.100 52.381 0.00 0.00 0.00 4.30
6543 8961 3.679824 TTCTCTTTCCCTCGTTTCTCC 57.320 47.619 0.00 0.00 0.00 3.71
6544 8962 3.747010 GGTTTCTCTTTCCCTCGTTTCTC 59.253 47.826 0.00 0.00 0.00 2.87
6545 8963 3.391626 AGGTTTCTCTTTCCCTCGTTTCT 59.608 43.478 0.00 0.00 0.00 2.52
6546 8964 3.741249 AGGTTTCTCTTTCCCTCGTTTC 58.259 45.455 0.00 0.00 0.00 2.78
6547 8965 3.496337 GGAGGTTTCTCTTTCCCTCGTTT 60.496 47.826 0.00 0.00 43.63 3.60
6548 8966 2.038689 GGAGGTTTCTCTTTCCCTCGTT 59.961 50.000 0.00 0.00 43.63 3.85
6549 8967 1.624312 GGAGGTTTCTCTTTCCCTCGT 59.376 52.381 0.00 0.00 43.63 4.18
6550 8968 1.623811 TGGAGGTTTCTCTTTCCCTCG 59.376 52.381 0.00 0.00 43.63 4.63
6551 8969 3.073209 AGTTGGAGGTTTCTCTTTCCCTC 59.927 47.826 0.00 0.00 42.28 4.30
6552 8970 3.056832 AGTTGGAGGTTTCTCTTTCCCT 58.943 45.455 0.00 0.00 39.86 4.20
6553 8971 3.510531 AGTTGGAGGTTTCTCTTTCCC 57.489 47.619 0.00 0.00 39.86 3.97
6554 8972 6.062749 ACTTTAGTTGGAGGTTTCTCTTTCC 58.937 40.000 0.00 0.00 39.86 3.13
6555 8973 7.569639 AACTTTAGTTGGAGGTTTCTCTTTC 57.430 36.000 0.00 0.00 39.86 2.62


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

AutoCloner maintained by Alex Coulton.