Multiple sequence alignment - TraesCS5D01G072100

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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 TraesCS5D01G072100 chr5D 100.000 6278 0 0 1 6278 71892711 71886434 0.000000e+00 11594.0
1 TraesCS5D01G072100 chr5D 89.655 203 16 5 6079 6278 25300500 25300300 2.900000e-63 254.0
2 TraesCS5D01G072100 chr5D 87.500 104 3 5 5716 5819 56448554 56448461 1.850000e-20 111.0
3 TraesCS5D01G072100 chr5D 98.276 58 1 0 3791 3848 71888892 71888835 1.110000e-17 102.0
4 TraesCS5D01G072100 chr5D 98.276 58 1 0 3820 3877 71888921 71888864 1.110000e-17 102.0
5 TraesCS5D01G072100 chr5A 93.443 3889 132 58 1 3819 64371545 64367710 0.000000e+00 5655.0
6 TraesCS5D01G072100 chr5A 94.232 2167 79 18 3849 6003 64367738 64365606 0.000000e+00 3267.0
7 TraesCS5D01G072100 chr5A 96.053 76 3 0 6004 6079 64365553 64365478 2.380000e-24 124.0
8 TraesCS5D01G072100 chr5B 95.839 2259 74 13 3820 6070 82475779 82478025 0.000000e+00 3633.0
9 TraesCS5D01G072100 chr5B 98.112 1589 25 3 2263 3847 82474248 82475835 0.000000e+00 2763.0
10 TraesCS5D01G072100 chr5B 95.096 1570 45 10 706 2271 82472376 82473917 0.000000e+00 2444.0
11 TraesCS5D01G072100 chr5B 91.028 613 25 11 63 664 82471338 82471931 0.000000e+00 800.0
12 TraesCS5D01G072100 chr5B 94.366 71 3 1 5726 5796 659458893 659458962 2.390000e-19 108.0
13 TraesCS5D01G072100 chr5B 87.000 100 3 5 5720 5819 665560027 665559938 3.100000e-18 104.0
14 TraesCS5D01G072100 chr5B 91.667 72 1 3 3849 3919 69137758 69137691 1.860000e-15 95.3
15 TraesCS5D01G072100 chr7D 91.089 202 14 4 6080 6278 598733552 598733752 2.880000e-68 270.0
16 TraesCS5D01G072100 chr7D 89.952 209 12 3 6079 6278 71634646 71634438 1.740000e-65 261.0
17 TraesCS5D01G072100 chr7D 85.714 112 14 2 5890 6001 175307657 175307766 3.980000e-22 117.0
18 TraesCS5D01G072100 chr3A 89.855 207 13 4 6080 6278 712135625 712135831 6.240000e-65 259.0
19 TraesCS5D01G072100 chr3A 85.586 111 16 0 5891 6001 472506740 472506850 3.980000e-22 117.0
20 TraesCS5D01G072100 chr3A 92.000 50 4 0 3770 3819 507310490 507310441 3.140000e-08 71.3
21 TraesCS5D01G072100 chr2A 89.756 205 17 4 6077 6278 570723070 570722867 6.240000e-65 259.0
22 TraesCS5D01G072100 chr2A 87.168 226 25 4 6057 6278 570722109 570722334 2.900000e-63 254.0
23 TraesCS5D01G072100 chr1D 89.573 211 11 6 6079 6278 379130634 379130424 2.250000e-64 257.0
24 TraesCS5D01G072100 chr1D 93.056 72 4 1 3849 3919 303314766 303314695 3.100000e-18 104.0
25 TraesCS5D01G072100 chr1B 89.163 203 20 2 6077 6278 15385830 15386031 1.040000e-62 252.0
26 TraesCS5D01G072100 chr1B 89.163 203 20 2 6077 6278 15391821 15392022 1.040000e-62 252.0
27 TraesCS5D01G072100 chr1B 92.857 70 4 1 3849 3917 70183455 70183386 4.000000e-17 100.0
28 TraesCS5D01G072100 chr1B 78.125 160 22 8 2026 2184 552965389 552965242 8.670000e-14 89.8
29 TraesCS5D01G072100 chr2D 87.156 109 14 0 5893 6001 381205027 381205135 2.380000e-24 124.0
30 TraesCS5D01G072100 chr2D 84.375 64 8 2 3758 3819 51086675 51086738 1.890000e-05 62.1
31 TraesCS5D01G072100 chr7B 84.348 115 17 1 5888 6001 739977845 739977731 1.850000e-20 111.0
32 TraesCS5D01G072100 chr7B 84.259 108 8 4 5714 5821 289427300 289427202 5.180000e-16 97.1
33 TraesCS5D01G072100 chr7B 95.238 42 2 0 3778 3819 152492843 152492802 4.060000e-07 67.6
34 TraesCS5D01G072100 chr3D 84.821 112 16 1 5890 6001 22770406 22770296 1.850000e-20 111.0
35 TraesCS5D01G072100 chr3D 94.444 72 2 2 3850 3919 50074575 50074646 6.650000e-20 110.0
36 TraesCS5D01G072100 chr7A 84.211 114 17 1 5888 6000 11577282 11577395 6.650000e-20 110.0
37 TraesCS5D01G072100 chr7A 93.056 72 5 0 5725 5796 34742915 34742844 8.610000e-19 106.0
38 TraesCS5D01G072100 chr6D 84.348 115 15 2 5888 6001 31116422 31116310 6.650000e-20 110.0
39 TraesCS5D01G072100 chr6D 91.667 72 5 1 3849 3919 380727810 380727739 1.440000e-16 99.0
40 TraesCS5D01G072100 chr4B 93.243 74 5 0 5723 5796 378768588 378768661 6.650000e-20 110.0
41 TraesCS5D01G072100 chr4B 97.561 41 1 0 3779 3819 564902342 564902382 3.140000e-08 71.3
42 TraesCS5D01G072100 chr4D 85.981 107 4 6 5722 5827 24455797 24455893 3.100000e-18 104.0
43 TraesCS5D01G072100 chr4D 90.789 76 5 2 3849 3923 486185354 486185428 4.000000e-17 100.0
44 TraesCS5D01G072100 chr4D 97.619 42 1 0 3778 3819 486185341 486185382 8.730000e-09 73.1
45 TraesCS5D01G072100 chr1A 86.869 99 4 8 5721 5819 193040114 193040025 1.110000e-17 102.0
46 TraesCS5D01G072100 chr1A 91.549 71 5 1 3850 3919 380947146 380947076 5.180000e-16 97.1
47 TraesCS5D01G072100 chr2B 97.619 42 1 0 3778 3819 678069282 678069241 8.730000e-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 TraesCS5D01G072100 chr5D 71886434 71892711 6277 True 3932.666667 11594 98.850667 1 6278 3 chr5D.!!$R3 6277
1 TraesCS5D01G072100 chr5A 64365478 64371545 6067 True 3015.333333 5655 94.576000 1 6079 3 chr5A.!!$R1 6078
2 TraesCS5D01G072100 chr5B 82471338 82478025 6687 False 2410.000000 3633 95.018750 63 6070 4 chr5B.!!$F2 6007

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
841 1276 0.391395 CTTGCTGCTCCAGAGTCCAG 60.391 60.000 0.0 0.0 32.44 3.86 F
842 1277 0.833409 TTGCTGCTCCAGAGTCCAGA 60.833 55.000 0.0 0.0 32.44 3.86 F
1184 1641 0.974010 TCGTAGCGGGGGAACTGAAT 60.974 55.000 0.0 0.0 0.00 2.57 F
1444 1926 1.130561 GGTGCTGCGGTTCTGATTTAC 59.869 52.381 0.0 0.0 0.00 2.01 F
3792 4627 0.105607 ATTCCTACTCCCTCCGTCCC 60.106 60.000 0.0 0.0 0.00 4.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2370 3194 1.061262 CATGCAATGCACGTCACACG 61.061 55.000 11.23 0.00 43.04 4.49 R
2838 3663 6.028146 ACTATTTGTCAATTCATGCAGCAA 57.972 33.333 0.00 0.00 0.00 3.91 R
3523 4355 5.362717 TGGTCACCATACCATAACTACTCAG 59.637 44.000 0.00 0.00 44.68 3.35 R
3800 4635 8.934023 TTTTGGGTAGTGTAAAAGATGATCTT 57.066 30.769 0.97 0.97 38.59 2.40 R
6146 7073 0.371301 CGACACATGACGAATGGCTG 59.629 55.000 0.00 0.00 40.94 4.85 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
45 46 7.412563 ATCAAATGATGTAAACGTTAGACGTGG 60.413 37.037 0.00 0.00 43.13 4.94
61 63 3.326747 ACGTGGCTTTGTAACTCTCATC 58.673 45.455 0.00 0.00 0.00 2.92
88 90 5.764487 TGAGAGCTAGTCACACTCATATG 57.236 43.478 0.00 0.00 33.57 1.78
92 94 6.361433 AGAGCTAGTCACACTCATATGTACT 58.639 40.000 1.90 1.68 32.71 2.73
230 240 9.579932 ACTCTATCTCTTTTCAAAAGTTTCCAT 57.420 29.630 9.74 0.00 0.00 3.41
396 415 3.024356 TCGCTCTCCCCCTCCTCT 61.024 66.667 0.00 0.00 0.00 3.69
544 563 0.471211 AACGAACCTCCCACTCCTGA 60.471 55.000 0.00 0.00 0.00 3.86
556 579 2.692368 TCCTGATCCCACCCCAGC 60.692 66.667 0.00 0.00 0.00 4.85
694 723 2.849646 CCCCTCCTCGAATCCCCC 60.850 72.222 0.00 0.00 0.00 5.40
835 1270 3.333219 CCCCCTTGCTGCTCCAGA 61.333 66.667 0.00 0.00 32.44 3.86
836 1271 2.271497 CCCCTTGCTGCTCCAGAG 59.729 66.667 0.00 0.00 32.44 3.35
837 1272 2.600729 CCCCTTGCTGCTCCAGAGT 61.601 63.158 0.00 0.00 32.44 3.24
838 1273 1.078567 CCCTTGCTGCTCCAGAGTC 60.079 63.158 0.00 0.00 32.44 3.36
839 1274 1.078567 CCTTGCTGCTCCAGAGTCC 60.079 63.158 0.00 0.00 32.44 3.85
840 1275 1.675801 CTTGCTGCTCCAGAGTCCA 59.324 57.895 0.00 0.00 32.44 4.02
841 1276 0.391395 CTTGCTGCTCCAGAGTCCAG 60.391 60.000 0.00 0.00 32.44 3.86
842 1277 0.833409 TTGCTGCTCCAGAGTCCAGA 60.833 55.000 0.00 0.00 32.44 3.86
843 1278 1.217779 GCTGCTCCAGAGTCCAGAC 59.782 63.158 6.51 0.00 32.44 3.51
844 1279 1.896694 CTGCTCCAGAGTCCAGACC 59.103 63.158 0.00 0.00 32.44 3.85
845 1280 1.610673 TGCTCCAGAGTCCAGACCC 60.611 63.158 0.00 0.00 0.00 4.46
848 1283 2.997315 CCAGAGTCCAGACCCGCA 60.997 66.667 0.00 0.00 0.00 5.69
888 1340 2.986979 TACGGCGCTGTCTGACCA 60.987 61.111 28.15 3.65 0.00 4.02
1184 1641 0.974010 TCGTAGCGGGGGAACTGAAT 60.974 55.000 0.00 0.00 0.00 2.57
1193 1650 3.509575 CGGGGGAACTGAATTGAATTGAA 59.490 43.478 0.00 0.00 0.00 2.69
1340 1809 3.551485 GTGCTTGTTTCGCAACTCAATTT 59.449 39.130 0.00 0.00 39.39 1.82
1348 1817 7.418408 TGTTTCGCAACTCAATTTTGTGTATA 58.582 30.769 0.00 0.00 36.16 1.47
1349 1818 7.589587 TGTTTCGCAACTCAATTTTGTGTATAG 59.410 33.333 0.00 0.00 36.16 1.31
1367 1838 6.366332 GTGTATAGGCACTGTAGATTGCATAC 59.634 42.308 4.59 5.44 37.78 2.39
1375 1849 5.520288 CACTGTAGATTGCATACCACTGTAC 59.480 44.000 0.00 0.00 0.00 2.90
1376 1850 5.422331 ACTGTAGATTGCATACCACTGTACT 59.578 40.000 0.00 0.00 0.00 2.73
1377 1851 6.605995 ACTGTAGATTGCATACCACTGTACTA 59.394 38.462 0.00 0.00 0.00 1.82
1385 1859 4.989168 GCATACCACTGTACTAGGTTATGC 59.011 45.833 18.18 18.18 36.38 3.14
1444 1926 1.130561 GGTGCTGCGGTTCTGATTTAC 59.869 52.381 0.00 0.00 0.00 2.01
1450 1932 1.933853 GCGGTTCTGATTTACTCGCAT 59.066 47.619 0.00 0.00 41.10 4.73
1539 2021 4.060205 TGTAAGTCCGCTTTAGTTCAACC 58.940 43.478 0.00 0.00 36.22 3.77
1663 2145 2.695666 TCGATGAGATTCAGGGGTTCTC 59.304 50.000 0.00 0.00 37.10 2.87
1664 2146 6.631531 AATCGATGAGATTCAGGGGTTCTCA 61.632 44.000 0.00 4.51 45.95 3.27
1673 2155 2.040278 TCAGGGGTTCTCAGATTGTTGG 59.960 50.000 0.00 0.00 0.00 3.77
1960 2443 8.227731 TCACGAGCATTACTATATGATTTTCG 57.772 34.615 0.00 0.00 0.00 3.46
2140 2625 2.036256 ACCTTCTGTGGCCCATGC 59.964 61.111 0.00 0.00 0.00 4.06
2259 2744 9.520204 GTGTTATCATACATGCTTGCTTTAAAT 57.480 29.630 0.00 0.00 0.00 1.40
2446 3270 9.142515 CATGTTCATGCAGTATTGTGTTATTTT 57.857 29.630 0.00 0.00 0.00 1.82
2717 3541 5.762179 AGGTCATCAACTTACCAAGATGA 57.238 39.130 0.00 0.00 43.20 2.92
3195 4026 5.178809 GGATACTGTACTTGTGTTTGTGGTC 59.821 44.000 0.00 0.00 0.00 4.02
3523 4355 3.281727 TGATGGCCTTGTCAGTTATCC 57.718 47.619 3.32 0.00 0.00 2.59
3790 4625 4.442612 GGTTTAATTCCTACTCCCTCCGTC 60.443 50.000 0.00 0.00 0.00 4.79
3791 4626 1.790818 AATTCCTACTCCCTCCGTCC 58.209 55.000 0.00 0.00 0.00 4.79
3792 4627 0.105607 ATTCCTACTCCCTCCGTCCC 60.106 60.000 0.00 0.00 0.00 4.46
3793 4628 1.512201 TTCCTACTCCCTCCGTCCCA 61.512 60.000 0.00 0.00 0.00 4.37
3794 4629 1.001248 CCTACTCCCTCCGTCCCAA 59.999 63.158 0.00 0.00 0.00 4.12
3795 4630 0.616679 CCTACTCCCTCCGTCCCAAA 60.617 60.000 0.00 0.00 0.00 3.28
3796 4631 1.272807 CTACTCCCTCCGTCCCAAAA 58.727 55.000 0.00 0.00 0.00 2.44
3797 4632 1.838077 CTACTCCCTCCGTCCCAAAAT 59.162 52.381 0.00 0.00 0.00 1.82
3798 4633 1.961133 ACTCCCTCCGTCCCAAAATA 58.039 50.000 0.00 0.00 0.00 1.40
3799 4634 2.488836 ACTCCCTCCGTCCCAAAATAT 58.511 47.619 0.00 0.00 0.00 1.28
3800 4635 3.660959 ACTCCCTCCGTCCCAAAATATA 58.339 45.455 0.00 0.00 0.00 0.86
3801 4636 4.042174 ACTCCCTCCGTCCCAAAATATAA 58.958 43.478 0.00 0.00 0.00 0.98
3802 4637 4.102681 ACTCCCTCCGTCCCAAAATATAAG 59.897 45.833 0.00 0.00 0.00 1.73
3803 4638 4.300345 TCCCTCCGTCCCAAAATATAAGA 58.700 43.478 0.00 0.00 0.00 2.10
3804 4639 4.911522 TCCCTCCGTCCCAAAATATAAGAT 59.088 41.667 0.00 0.00 0.00 2.40
3805 4640 5.012768 TCCCTCCGTCCCAAAATATAAGATC 59.987 44.000 0.00 0.00 0.00 2.75
3806 4641 5.221843 CCCTCCGTCCCAAAATATAAGATCA 60.222 44.000 0.00 0.00 0.00 2.92
3807 4642 6.476378 CCTCCGTCCCAAAATATAAGATCAT 58.524 40.000 0.00 0.00 0.00 2.45
3808 4643 6.595716 CCTCCGTCCCAAAATATAAGATCATC 59.404 42.308 0.00 0.00 0.00 2.92
3809 4644 7.316393 TCCGTCCCAAAATATAAGATCATCT 57.684 36.000 0.00 0.00 0.00 2.90
3810 4645 7.745717 TCCGTCCCAAAATATAAGATCATCTT 58.254 34.615 4.98 4.98 40.35 2.40
3811 4646 8.217799 TCCGTCCCAAAATATAAGATCATCTTT 58.782 33.333 4.90 0.00 37.89 2.52
3812 4647 8.850156 CCGTCCCAAAATATAAGATCATCTTTT 58.150 33.333 4.90 0.00 37.89 2.27
3825 4660 8.934023 AAGATCATCTTTTACACTACCCAAAA 57.066 30.769 0.00 0.00 31.57 2.44
3826 4661 9.533831 AAGATCATCTTTTACACTACCCAAAAT 57.466 29.630 0.00 0.00 31.57 1.82
4066 4931 5.627172 TGTTTGCTTCATCTTAACGCATAC 58.373 37.500 0.00 0.00 34.57 2.39
4249 5114 9.765795 ATTCTCTAACTTGTATTATGTAGTGCC 57.234 33.333 0.00 0.00 0.00 5.01
4272 5137 9.337396 TGCCGTAATTCTCAATTCTTGTATATT 57.663 29.630 0.00 0.00 32.38 1.28
4281 5146 9.529325 TCTCAATTCTTGTATATTACAGTTCCG 57.471 33.333 0.00 0.00 40.24 4.30
4287 5152 7.948357 TCTTGTATATTACAGTTCCGCATAGT 58.052 34.615 0.00 0.00 40.24 2.12
4389 5254 3.204306 TCCTCCTGTTGCATGATGATC 57.796 47.619 0.00 0.00 0.00 2.92
4551 5417 5.654650 ACTCTCCAGTACCTCAAGTAAGATG 59.345 44.000 0.00 0.00 31.05 2.90
4555 5421 7.672660 TCTCCAGTACCTCAAGTAAGATGTTTA 59.327 37.037 0.00 0.00 31.05 2.01
4652 5519 6.703607 ACTGATGCTCGTGGATAAGAATTTAG 59.296 38.462 10.03 0.00 0.00 1.85
4747 5614 8.934023 TGTTGGTTCTTTTTATGTATCTTCCT 57.066 30.769 0.00 0.00 0.00 3.36
4829 5697 9.727627 AAAGATTGATAGAAATTTCATTCTCGC 57.272 29.630 19.99 4.97 40.13 5.03
4932 5800 6.639632 AATCAAACTTCAGCTGTGTACATT 57.360 33.333 14.67 9.69 0.00 2.71
5015 5883 4.095410 TGAGCTGCACCAAATTATTTCG 57.905 40.909 1.02 0.00 0.00 3.46
5068 5936 1.795170 GCAAACCACTGCATGTCGGT 61.795 55.000 0.00 0.00 42.17 4.69
5163 6034 6.635030 AGACGTGAGCAGTATATGACATAA 57.365 37.500 0.00 0.00 0.00 1.90
5232 6104 0.837691 TGAGCAGGGACATCACCACT 60.838 55.000 0.00 0.00 0.00 4.00
5409 6281 0.824109 CGGTGCTCTGGAGGATGTTA 59.176 55.000 0.00 0.00 0.00 2.41
5450 6322 7.985634 TTGTTGTCAAATAACTTTGCTTCTC 57.014 32.000 0.00 0.00 41.29 2.87
5584 6457 3.434310 GGTCCAATCCTCTGGGAATTCTC 60.434 52.174 5.23 0.82 45.78 2.87
5669 6542 4.751600 TCCATCGCTTTGCAATCTATAGTG 59.248 41.667 0.00 0.56 0.00 2.74
5733 6606 5.544176 TCCCTCACATGATAAATACTCCCTC 59.456 44.000 0.00 0.00 0.00 4.30
5736 6609 3.997021 CACATGATAAATACTCCCTCCGC 59.003 47.826 0.00 0.00 0.00 5.54
5738 6611 1.975680 TGATAAATACTCCCTCCGCCC 59.024 52.381 0.00 0.00 0.00 6.13
5744 6617 0.761702 TACTCCCTCCGCCCCATAAC 60.762 60.000 0.00 0.00 0.00 1.89
5824 6697 1.344763 GGGACGGAGGGAGTATTGATG 59.655 57.143 0.00 0.00 0.00 3.07
5831 6704 3.181450 GGAGGGAGTATTGATGAACCCTG 60.181 52.174 0.00 0.00 46.25 4.45
5902 6775 5.761726 TCGAGTCGCATCTTATCTTTACCTA 59.238 40.000 7.92 0.00 0.00 3.08
5904 6777 7.040617 TCGAGTCGCATCTTATCTTTACCTAAT 60.041 37.037 7.92 0.00 0.00 1.73
5906 6779 9.344309 GAGTCGCATCTTATCTTTACCTAATAC 57.656 37.037 0.00 0.00 0.00 1.89
5916 6789 7.607615 ATCTTTACCTAATACTAAAGGGCGA 57.392 36.000 0.00 0.00 37.18 5.54
5937 6810 6.843208 GCGAAGGCTTTTATAGTTCTCTTTT 58.157 36.000 0.00 0.00 35.83 2.27
5938 6811 6.962116 GCGAAGGCTTTTATAGTTCTCTTTTC 59.038 38.462 0.00 0.00 35.83 2.29
5945 6818 7.117956 GCTTTTATAGTTCTCTTTTCGTCACCT 59.882 37.037 0.00 0.00 0.00 4.00
6071 6998 8.697292 GGACACTTGAGGTAATATTCTTACTCT 58.303 37.037 0.00 0.00 0.00 3.24
6084 7011 8.966069 ATATTCTTACTCTTAACTTTGGGAGC 57.034 34.615 0.00 0.00 0.00 4.70
6085 7012 5.818678 TCTTACTCTTAACTTTGGGAGCA 57.181 39.130 0.00 0.00 0.00 4.26
6086 7013 6.182507 TCTTACTCTTAACTTTGGGAGCAA 57.817 37.500 0.00 0.00 0.00 3.91
6087 7014 5.995897 TCTTACTCTTAACTTTGGGAGCAAC 59.004 40.000 0.00 0.00 0.00 4.17
6088 7015 4.439253 ACTCTTAACTTTGGGAGCAACT 57.561 40.909 0.00 0.00 0.00 3.16
6089 7016 5.562298 ACTCTTAACTTTGGGAGCAACTA 57.438 39.130 0.00 0.00 0.00 2.24
6090 7017 5.552178 ACTCTTAACTTTGGGAGCAACTAG 58.448 41.667 0.00 0.00 0.00 2.57
6091 7018 5.071923 ACTCTTAACTTTGGGAGCAACTAGT 59.928 40.000 0.00 0.00 0.00 2.57
6092 7019 5.937111 TCTTAACTTTGGGAGCAACTAGTT 58.063 37.500 1.12 1.12 0.00 2.24
6093 7020 7.069877 TCTTAACTTTGGGAGCAACTAGTTA 57.930 36.000 8.04 0.00 0.00 2.24
6094 7021 7.511268 TCTTAACTTTGGGAGCAACTAGTTAA 58.489 34.615 8.04 0.00 36.36 2.01
6095 7022 7.443272 TCTTAACTTTGGGAGCAACTAGTTAAC 59.557 37.037 8.04 3.72 34.78 2.01
6096 7023 4.062991 ACTTTGGGAGCAACTAGTTAACG 58.937 43.478 8.04 0.00 0.00 3.18
6097 7024 4.202284 ACTTTGGGAGCAACTAGTTAACGA 60.202 41.667 8.04 0.00 0.00 3.85
6098 7025 3.587797 TGGGAGCAACTAGTTAACGAG 57.412 47.619 13.50 13.50 0.00 4.18
6099 7026 2.269172 GGGAGCAACTAGTTAACGAGC 58.731 52.381 14.82 7.28 0.00 5.03
6100 7027 1.918609 GGAGCAACTAGTTAACGAGCG 59.081 52.381 14.82 8.20 0.00 5.03
6101 7028 1.320852 GAGCAACTAGTTAACGAGCGC 59.679 52.381 14.82 16.38 0.00 5.92
6102 7029 1.067776 AGCAACTAGTTAACGAGCGCT 60.068 47.619 20.45 20.45 0.00 5.92
6103 7030 1.320852 GCAACTAGTTAACGAGCGCTC 59.679 52.381 27.64 27.64 0.00 5.03
6104 7031 1.918609 CAACTAGTTAACGAGCGCTCC 59.081 52.381 30.66 16.60 0.00 4.70
6105 7032 1.461559 ACTAGTTAACGAGCGCTCCT 58.538 50.000 30.66 22.52 0.00 3.69
6106 7033 1.817447 ACTAGTTAACGAGCGCTCCTT 59.183 47.619 30.66 26.03 0.00 3.36
6107 7034 2.159407 ACTAGTTAACGAGCGCTCCTTC 60.159 50.000 30.66 14.44 0.00 3.46
6108 7035 0.456312 AGTTAACGAGCGCTCCTTCG 60.456 55.000 30.66 22.24 0.00 3.79
6109 7036 1.153901 TTAACGAGCGCTCCTTCGG 60.154 57.895 30.66 18.71 0.00 4.30
6110 7037 2.552585 TTAACGAGCGCTCCTTCGGG 62.553 60.000 30.66 17.99 0.00 5.14
6120 7047 4.082523 CCTTCGGGAGCCTCGCAA 62.083 66.667 9.61 2.18 37.25 4.85
6121 7048 2.815647 CTTCGGGAGCCTCGCAAC 60.816 66.667 9.61 0.00 0.00 4.17
6122 7049 4.735132 TTCGGGAGCCTCGCAACG 62.735 66.667 9.61 0.36 0.00 4.10
6124 7051 4.514577 CGGGAGCCTCGCAACGAT 62.515 66.667 9.61 0.00 34.61 3.73
6125 7052 2.586357 GGGAGCCTCGCAACGATC 60.586 66.667 3.57 0.00 34.61 3.69
6126 7053 2.184322 GGAGCCTCGCAACGATCA 59.816 61.111 0.00 0.00 34.61 2.92
6127 7054 1.880340 GGAGCCTCGCAACGATCAG 60.880 63.158 0.00 0.00 34.61 2.90
6128 7055 2.510238 AGCCTCGCAACGATCAGC 60.510 61.111 0.00 0.00 34.61 4.26
6134 7061 3.121030 GCAACGATCAGCGCCACT 61.121 61.111 2.29 0.00 46.04 4.00
6135 7062 2.680913 GCAACGATCAGCGCCACTT 61.681 57.895 2.29 0.00 46.04 3.16
6136 7063 1.133253 CAACGATCAGCGCCACTTG 59.867 57.895 2.29 0.00 46.04 3.16
6137 7064 2.034879 AACGATCAGCGCCACTTGG 61.035 57.895 2.29 0.00 46.04 3.61
6148 7075 3.485431 CACTTGGCGCGCTCTCAG 61.485 66.667 32.29 21.96 0.00 3.35
6154 7081 3.934684 GCGCGCTCTCAGCCATTC 61.935 66.667 26.67 0.00 38.18 2.67
6155 7082 3.624300 CGCGCTCTCAGCCATTCG 61.624 66.667 5.56 0.00 38.18 3.34
6156 7083 2.510238 GCGCTCTCAGCCATTCGT 60.510 61.111 0.00 0.00 38.18 3.85
6157 7084 2.520904 GCGCTCTCAGCCATTCGTC 61.521 63.158 0.00 0.00 38.18 4.20
6158 7085 1.153765 CGCTCTCAGCCATTCGTCA 60.154 57.895 0.00 0.00 38.18 4.35
6159 7086 0.529337 CGCTCTCAGCCATTCGTCAT 60.529 55.000 0.00 0.00 38.18 3.06
6160 7087 0.935898 GCTCTCAGCCATTCGTCATG 59.064 55.000 0.00 0.00 34.48 3.07
6161 7088 1.741732 GCTCTCAGCCATTCGTCATGT 60.742 52.381 0.00 0.00 34.48 3.21
6162 7089 1.931841 CTCTCAGCCATTCGTCATGTG 59.068 52.381 0.00 0.00 0.00 3.21
6163 7090 1.276138 TCTCAGCCATTCGTCATGTGT 59.724 47.619 0.00 0.00 0.00 3.72
6164 7091 1.662629 CTCAGCCATTCGTCATGTGTC 59.337 52.381 0.00 0.00 0.00 3.67
6165 7092 0.371301 CAGCCATTCGTCATGTGTCG 59.629 55.000 0.00 0.00 0.00 4.35
6166 7093 1.060937 GCCATTCGTCATGTGTCGC 59.939 57.895 0.00 0.00 0.00 5.19
6167 7094 1.344837 CCATTCGTCATGTGTCGCG 59.655 57.895 0.00 0.00 0.00 5.87
6168 7095 1.296145 CATTCGTCATGTGTCGCGC 60.296 57.895 0.00 0.00 0.00 6.86
6169 7096 1.446099 ATTCGTCATGTGTCGCGCT 60.446 52.632 5.56 0.00 0.00 5.92
6170 7097 1.413767 ATTCGTCATGTGTCGCGCTC 61.414 55.000 5.56 0.00 0.00 5.03
6171 7098 2.472232 TTCGTCATGTGTCGCGCTCT 62.472 55.000 5.56 0.00 0.00 4.09
6172 7099 2.782045 CGTCATGTGTCGCGCTCTG 61.782 63.158 5.56 0.00 0.00 3.35
6173 7100 2.125952 TCATGTGTCGCGCTCTGG 60.126 61.111 5.56 0.00 0.00 3.86
6174 7101 2.125952 CATGTGTCGCGCTCTGGA 60.126 61.111 5.56 0.00 0.00 3.86
6175 7102 2.125912 ATGTGTCGCGCTCTGGAC 60.126 61.111 5.56 5.97 0.00 4.02
6176 7103 3.971453 ATGTGTCGCGCTCTGGACG 62.971 63.158 5.56 0.00 35.95 4.79
6177 7104 4.702081 GTGTCGCGCTCTGGACGT 62.702 66.667 5.56 0.00 35.95 4.34
6178 7105 3.973516 TGTCGCGCTCTGGACGTT 61.974 61.111 5.56 0.00 35.95 3.99
6179 7106 2.733593 GTCGCGCTCTGGACGTTT 60.734 61.111 5.56 0.00 0.00 3.60
6180 7107 2.430244 TCGCGCTCTGGACGTTTC 60.430 61.111 5.56 0.00 0.00 2.78
6181 7108 3.479269 CGCGCTCTGGACGTTTCC 61.479 66.667 5.56 0.00 43.19 3.13
6182 7109 2.048127 GCGCTCTGGACGTTTCCT 60.048 61.111 0.00 0.00 43.31 3.36
6183 7110 1.668151 GCGCTCTGGACGTTTCCTT 60.668 57.895 0.00 0.00 43.31 3.36
6184 7111 1.228657 GCGCTCTGGACGTTTCCTTT 61.229 55.000 0.00 0.00 43.31 3.11
6185 7112 0.512952 CGCTCTGGACGTTTCCTTTG 59.487 55.000 0.00 0.00 43.31 2.77
6186 7113 0.875059 GCTCTGGACGTTTCCTTTGG 59.125 55.000 0.00 0.00 43.31 3.28
6187 7114 1.542547 GCTCTGGACGTTTCCTTTGGA 60.543 52.381 0.00 0.00 43.31 3.53
6188 7115 2.876079 GCTCTGGACGTTTCCTTTGGAT 60.876 50.000 0.00 0.00 43.31 3.41
6189 7116 3.412386 CTCTGGACGTTTCCTTTGGATT 58.588 45.455 0.00 0.00 43.31 3.01
6190 7117 3.821033 CTCTGGACGTTTCCTTTGGATTT 59.179 43.478 0.00 0.00 43.31 2.17
6191 7118 4.211920 TCTGGACGTTTCCTTTGGATTTT 58.788 39.130 0.00 0.00 43.31 1.82
6192 7119 4.647399 TCTGGACGTTTCCTTTGGATTTTT 59.353 37.500 0.00 0.00 43.31 1.94
6225 7152 4.741845 CGTTTTCGGCTTTTTAAACGTT 57.258 36.364 0.00 0.00 44.47 3.99
6226 7153 5.116055 CGTTTTCGGCTTTTTAAACGTTT 57.884 34.783 18.90 18.90 44.47 3.60
6227 7154 5.540107 CGTTTTCGGCTTTTTAAACGTTTT 58.460 33.333 20.19 3.53 44.47 2.43
6228 7155 6.008275 CGTTTTCGGCTTTTTAAACGTTTTT 58.992 32.000 20.19 0.00 44.47 1.94
6247 7174 2.097680 TTTCGACGTTATGTTCCCCC 57.902 50.000 0.00 0.00 0.00 5.40
6261 7188 4.957164 CCCCCGGTCTTTCTTAGC 57.043 61.111 0.00 0.00 0.00 3.09
6262 7189 2.297937 CCCCCGGTCTTTCTTAGCT 58.702 57.895 0.00 0.00 0.00 3.32
6263 7190 0.618981 CCCCCGGTCTTTCTTAGCTT 59.381 55.000 0.00 0.00 0.00 3.74
6264 7191 1.004394 CCCCCGGTCTTTCTTAGCTTT 59.996 52.381 0.00 0.00 0.00 3.51
6265 7192 2.554564 CCCCCGGTCTTTCTTAGCTTTT 60.555 50.000 0.00 0.00 0.00 2.27
6266 7193 2.747989 CCCCGGTCTTTCTTAGCTTTTC 59.252 50.000 0.00 0.00 0.00 2.29
6267 7194 2.415512 CCCGGTCTTTCTTAGCTTTTCG 59.584 50.000 0.00 0.00 0.00 3.46
6268 7195 3.323243 CCGGTCTTTCTTAGCTTTTCGA 58.677 45.455 0.00 0.00 0.00 3.71
6269 7196 3.933332 CCGGTCTTTCTTAGCTTTTCGAT 59.067 43.478 0.00 0.00 0.00 3.59
6270 7197 4.033014 CCGGTCTTTCTTAGCTTTTCGATC 59.967 45.833 0.00 0.00 0.00 3.69
6271 7198 4.625742 CGGTCTTTCTTAGCTTTTCGATCA 59.374 41.667 0.00 0.00 0.00 2.92
6272 7199 5.120208 CGGTCTTTCTTAGCTTTTCGATCAA 59.880 40.000 0.00 0.00 0.00 2.57
6273 7200 6.347402 CGGTCTTTCTTAGCTTTTCGATCAAA 60.347 38.462 0.00 0.00 0.00 2.69
6274 7201 7.360361 GGTCTTTCTTAGCTTTTCGATCAAAA 58.640 34.615 0.00 0.00 32.77 2.44
6275 7202 7.860872 GGTCTTTCTTAGCTTTTCGATCAAAAA 59.139 33.333 0.00 0.00 33.40 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
41 42 3.589988 AGATGAGAGTTACAAAGCCACG 58.410 45.455 0.00 0.00 0.00 4.94
61 63 5.122519 TGAGTGTGACTAGCTCTCATCTAG 58.877 45.833 0.00 0.00 39.43 2.43
230 240 5.010922 ACAGCTGATTTTGTTGATAAGGCAA 59.989 36.000 23.35 0.00 0.00 4.52
327 337 1.539712 CCCCGGGATACTTTACGCTTC 60.540 57.143 26.32 0.00 0.00 3.86
381 400 1.764454 GGAAGAGGAGGGGGAGAGC 60.764 68.421 0.00 0.00 0.00 4.09
382 401 0.341609 AAGGAAGAGGAGGGGGAGAG 59.658 60.000 0.00 0.00 0.00 3.20
383 402 0.340208 GAAGGAAGAGGAGGGGGAGA 59.660 60.000 0.00 0.00 0.00 3.71
384 403 0.692756 GGAAGGAAGAGGAGGGGGAG 60.693 65.000 0.00 0.00 0.00 4.30
544 563 2.075355 TTGTTTCGCTGGGGTGGGAT 62.075 55.000 0.00 0.00 0.00 3.85
556 579 1.369568 GCCCCGTCGTTTTGTTTCG 60.370 57.895 0.00 0.00 0.00 3.46
672 701 1.839296 GATTCGAGGAGGGGGAGGG 60.839 68.421 0.00 0.00 0.00 4.30
673 702 1.839296 GGATTCGAGGAGGGGGAGG 60.839 68.421 0.00 0.00 0.00 4.30
832 1267 2.262915 GTGCGGGTCTGGACTCTG 59.737 66.667 0.00 0.00 0.00 3.35
833 1268 3.374402 CGTGCGGGTCTGGACTCT 61.374 66.667 0.00 0.00 0.00 3.24
834 1269 3.343788 CTCGTGCGGGTCTGGACTC 62.344 68.421 0.67 0.00 0.00 3.36
835 1270 3.374402 CTCGTGCGGGTCTGGACT 61.374 66.667 0.67 0.00 0.00 3.85
848 1283 1.280142 CGAAGATCCGATCGCTCGT 59.720 57.895 19.71 6.82 43.49 4.18
888 1340 4.586235 GCACCAGCACCACCACCT 62.586 66.667 0.00 0.00 41.58 4.00
1184 1641 5.531634 GCACAGAAATCCAGTTCAATTCAA 58.468 37.500 0.00 0.00 0.00 2.69
1193 1650 1.237285 GCCACGCACAGAAATCCAGT 61.237 55.000 0.00 0.00 0.00 4.00
1340 1809 5.116180 GCAATCTACAGTGCCTATACACAA 58.884 41.667 0.00 0.00 43.23 3.33
1348 1817 2.505407 TGGTATGCAATCTACAGTGCCT 59.495 45.455 0.00 0.00 40.14 4.75
1349 1818 2.614057 GTGGTATGCAATCTACAGTGCC 59.386 50.000 0.00 0.00 40.14 5.01
1367 1838 4.645136 TCAGAGCATAACCTAGTACAGTGG 59.355 45.833 0.00 0.00 0.00 4.00
1375 1849 5.543507 ACAATCCTCAGAGCATAACCTAG 57.456 43.478 0.00 0.00 0.00 3.02
1376 1850 7.618019 AATACAATCCTCAGAGCATAACCTA 57.382 36.000 0.00 0.00 0.00 3.08
1377 1851 6.506538 AATACAATCCTCAGAGCATAACCT 57.493 37.500 0.00 0.00 0.00 3.50
1385 1859 9.265901 CACAATACCTAAATACAATCCTCAGAG 57.734 37.037 0.00 0.00 0.00 3.35
1450 1932 0.843309 TTGGAACTCCTCCTGCACAA 59.157 50.000 0.00 0.00 45.64 3.33
1539 2021 2.095567 GCAGTACACAGCAATCAACTGG 60.096 50.000 0.00 0.00 39.55 4.00
1663 2145 2.669113 CGGATGCAACACCAACAATCTG 60.669 50.000 0.00 0.00 0.00 2.90
1664 2146 1.541147 CGGATGCAACACCAACAATCT 59.459 47.619 0.00 0.00 0.00 2.40
1960 2443 7.376335 AGGGTAAATCCTATTTCAGACTACC 57.624 40.000 0.00 0.00 34.92 3.18
2370 3194 1.061262 CATGCAATGCACGTCACACG 61.061 55.000 11.23 0.00 43.04 4.49
2717 3541 6.831976 ACTCTCCGGCTAAAATTGATAGATT 58.168 36.000 0.00 0.00 0.00 2.40
2838 3663 6.028146 ACTATTTGTCAATTCATGCAGCAA 57.972 33.333 0.00 0.00 0.00 3.91
3523 4355 5.362717 TGGTCACCATACCATAACTACTCAG 59.637 44.000 0.00 0.00 44.68 3.35
3800 4635 8.934023 TTTTGGGTAGTGTAAAAGATGATCTT 57.066 30.769 0.97 0.97 38.59 2.40
3829 4664 8.934023 TTTTGGGTAGTGTAAAAGATGATCTT 57.066 30.769 0.97 0.97 38.59 2.40
3907 4772 4.406326 TGCAATATGTTAACTCCCTCCGTA 59.594 41.667 7.22 0.00 0.00 4.02
4066 4931 6.757897 TCTGCTTAACCTGATAACCAAATG 57.242 37.500 0.00 0.00 0.00 2.32
4389 5254 7.701809 AACAACAAATTTAACATGGGTTACG 57.298 32.000 0.00 0.00 39.14 3.18
4652 5519 5.522460 TGTAACTTGACACTAACTGCAGAAC 59.478 40.000 23.35 3.89 0.00 3.01
4747 5614 1.123077 AGAGCACTGTGTTGAGGTGA 58.877 50.000 9.86 0.00 33.32 4.02
4829 5697 8.776376 ATTTCAATGGTAATTTGGCACTAAAG 57.224 30.769 0.00 0.00 0.00 1.85
4877 5745 5.417266 TCTCAAGTATGTGACTCTCCAGAAG 59.583 44.000 0.00 0.00 37.44 2.85
4878 5746 5.325239 TCTCAAGTATGTGACTCTCCAGAA 58.675 41.667 0.00 0.00 37.44 3.02
4932 5800 6.816640 ACGCTTTACTCAATAGCACTATTTGA 59.183 34.615 0.06 2.45 33.79 2.69
5015 5883 3.364366 GCACTAACTGAGCACACATGTTC 60.364 47.826 0.00 0.00 36.64 3.18
5118 5986 7.412346 CGTCTAGGAATCTGTCTGACAAAAATG 60.412 40.741 12.16 0.00 0.00 2.32
5119 5987 6.591834 CGTCTAGGAATCTGTCTGACAAAAAT 59.408 38.462 12.16 3.38 0.00 1.82
5121 5989 5.010719 ACGTCTAGGAATCTGTCTGACAAAA 59.989 40.000 12.16 3.57 0.00 2.44
5125 5993 3.690139 TCACGTCTAGGAATCTGTCTGAC 59.310 47.826 0.00 0.00 0.00 3.51
5127 5995 3.488384 GCTCACGTCTAGGAATCTGTCTG 60.488 52.174 0.00 0.00 0.00 3.51
5232 6104 4.000988 GGAAGACGAAGCTTGGAAATGTA 58.999 43.478 16.00 0.00 0.00 2.29
5584 6457 5.655488 TGTTTCCATTTTTGTACACACAGG 58.345 37.500 0.00 0.00 35.67 4.00
5614 6487 5.106987 CCCAGCAAAAGATAACAAACAATGC 60.107 40.000 0.00 0.00 0.00 3.56
5669 6542 4.381292 CCAATCCATTTTCTGCTCCACTTC 60.381 45.833 0.00 0.00 0.00 3.01
5733 6606 1.202604 ACATCTTACGTTATGGGGCGG 60.203 52.381 0.00 0.00 0.00 6.13
5782 6655 9.197694 GTCCCATAATATGATAATATGAGACGC 57.802 37.037 8.69 0.00 29.25 5.19
5787 6660 8.870116 CCTCCGTCCCATAATATGATAATATGA 58.130 37.037 8.69 0.00 30.32 2.15
5788 6661 8.097038 CCCTCCGTCCCATAATATGATAATATG 58.903 40.741 1.10 1.39 0.00 1.78
5789 6662 8.016652 TCCCTCCGTCCCATAATATGATAATAT 58.983 37.037 1.10 0.00 0.00 1.28
5790 6663 7.367027 TCCCTCCGTCCCATAATATGATAATA 58.633 38.462 1.10 0.00 0.00 0.98
5791 6664 6.209774 TCCCTCCGTCCCATAATATGATAAT 58.790 40.000 1.10 0.00 0.00 1.28
5792 6665 5.595770 TCCCTCCGTCCCATAATATGATAA 58.404 41.667 1.10 0.00 0.00 1.75
5793 6666 5.208890 CTCCCTCCGTCCCATAATATGATA 58.791 45.833 1.10 0.00 0.00 2.15
5794 6667 4.033709 CTCCCTCCGTCCCATAATATGAT 58.966 47.826 1.10 0.00 0.00 2.45
5798 6671 4.687262 ATACTCCCTCCGTCCCATAATA 57.313 45.455 0.00 0.00 0.00 0.98
5824 6697 5.305585 TTCTGTAAGATGAACACAGGGTTC 58.694 41.667 8.78 8.78 46.36 3.62
5831 6704 7.923414 ACCCTAATTTCTGTAAGATGAACAC 57.077 36.000 0.00 0.00 46.36 3.32
5902 6775 3.646736 AAGCCTTCGCCCTTTAGTATT 57.353 42.857 0.00 0.00 34.57 1.89
5904 6777 3.428413 AAAAGCCTTCGCCCTTTAGTA 57.572 42.857 0.00 0.00 34.57 1.82
5906 6779 5.123936 ACTATAAAAGCCTTCGCCCTTTAG 58.876 41.667 0.00 0.00 34.57 1.85
5909 6782 3.646736 ACTATAAAAGCCTTCGCCCTT 57.353 42.857 0.00 0.00 34.57 3.95
5913 6786 6.424176 AAAGAGAACTATAAAAGCCTTCGC 57.576 37.500 0.00 0.00 0.00 4.70
5916 6789 7.660208 TGACGAAAAGAGAACTATAAAAGCCTT 59.340 33.333 0.00 0.00 0.00 4.35
5934 6807 9.015367 TCAATGGATATAAAAAGGTGACGAAAA 57.985 29.630 0.00 0.00 0.00 2.29
5937 6810 8.746052 AATCAATGGATATAAAAAGGTGACGA 57.254 30.769 0.00 0.00 32.09 4.20
5938 6811 9.801873 AAAATCAATGGATATAAAAAGGTGACG 57.198 29.630 0.00 0.00 32.09 4.35
6007 6934 6.894828 ACGCGTAATAAAACAACTCAATCTT 58.105 32.000 11.67 0.00 0.00 2.40
6071 6998 6.203338 CGTTAACTAGTTGCTCCCAAAGTTAA 59.797 38.462 18.56 8.34 39.52 2.01
6079 7006 2.269172 GCTCGTTAACTAGTTGCTCCC 58.731 52.381 18.56 0.76 0.00 4.30
6080 7007 1.918609 CGCTCGTTAACTAGTTGCTCC 59.081 52.381 18.56 2.45 0.00 4.70
6081 7008 1.320852 GCGCTCGTTAACTAGTTGCTC 59.679 52.381 18.56 3.86 0.00 4.26
6082 7009 1.067776 AGCGCTCGTTAACTAGTTGCT 60.068 47.619 18.56 17.34 0.00 3.91
6083 7010 1.320852 GAGCGCTCGTTAACTAGTTGC 59.679 52.381 23.61 11.18 0.00 4.17
6084 7011 1.918609 GGAGCGCTCGTTAACTAGTTG 59.081 52.381 29.81 1.62 0.00 3.16
6085 7012 1.817447 AGGAGCGCTCGTTAACTAGTT 59.183 47.619 29.81 13.68 0.00 2.24
6086 7013 1.461559 AGGAGCGCTCGTTAACTAGT 58.538 50.000 29.81 3.95 0.00 2.57
6087 7014 2.452105 GAAGGAGCGCTCGTTAACTAG 58.548 52.381 36.96 3.24 37.75 2.57
6088 7015 1.202110 CGAAGGAGCGCTCGTTAACTA 60.202 52.381 36.96 0.00 37.75 2.24
6089 7016 0.456312 CGAAGGAGCGCTCGTTAACT 60.456 55.000 36.96 23.16 37.75 2.24
6090 7017 1.989163 CGAAGGAGCGCTCGTTAAC 59.011 57.895 36.96 26.47 37.75 2.01
6091 7018 4.470876 CGAAGGAGCGCTCGTTAA 57.529 55.556 36.96 0.00 37.75 2.01
6104 7031 2.815647 GTTGCGAGGCTCCCGAAG 60.816 66.667 9.32 0.00 0.00 3.79
6105 7032 4.735132 CGTTGCGAGGCTCCCGAA 62.735 66.667 9.32 0.00 0.00 4.30
6107 7034 4.514577 ATCGTTGCGAGGCTCCCG 62.515 66.667 9.32 6.56 39.91 5.14
6108 7035 2.586357 GATCGTTGCGAGGCTCCC 60.586 66.667 9.32 0.00 39.91 4.30
6109 7036 1.880340 CTGATCGTTGCGAGGCTCC 60.880 63.158 9.32 2.37 39.91 4.70
6110 7037 2.520904 GCTGATCGTTGCGAGGCTC 61.521 63.158 3.87 3.87 39.91 4.70
6111 7038 2.510238 GCTGATCGTTGCGAGGCT 60.510 61.111 0.00 0.00 39.91 4.58
6117 7044 2.680913 AAGTGGCGCTGATCGTTGC 61.681 57.895 7.64 0.00 41.07 4.17
6118 7045 1.133253 CAAGTGGCGCTGATCGTTG 59.867 57.895 7.64 0.00 41.07 4.10
6119 7046 2.034879 CCAAGTGGCGCTGATCGTT 61.035 57.895 7.64 0.00 41.07 3.85
6120 7047 2.434884 CCAAGTGGCGCTGATCGT 60.435 61.111 7.64 0.00 41.07 3.73
6131 7058 3.485431 CTGAGAGCGCGCCAAGTG 61.485 66.667 30.33 12.20 0.00 3.16
6137 7064 3.934684 GAATGGCTGAGAGCGCGC 61.935 66.667 26.66 26.66 43.62 6.86
6138 7065 3.624300 CGAATGGCTGAGAGCGCG 61.624 66.667 0.00 0.00 43.62 6.86
6139 7066 2.510238 ACGAATGGCTGAGAGCGC 60.510 61.111 0.00 0.00 43.62 5.92
6140 7067 0.529337 ATGACGAATGGCTGAGAGCG 60.529 55.000 0.00 0.00 43.62 5.03
6141 7068 0.935898 CATGACGAATGGCTGAGAGC 59.064 55.000 0.00 0.00 41.46 4.09
6142 7069 1.931841 CACATGACGAATGGCTGAGAG 59.068 52.381 0.00 0.00 40.94 3.20
6143 7070 1.276138 ACACATGACGAATGGCTGAGA 59.724 47.619 0.00 0.00 40.94 3.27
6144 7071 1.662629 GACACATGACGAATGGCTGAG 59.337 52.381 0.00 0.00 40.94 3.35
6145 7072 1.725641 GACACATGACGAATGGCTGA 58.274 50.000 0.00 0.00 40.94 4.26
6146 7073 0.371301 CGACACATGACGAATGGCTG 59.629 55.000 0.00 0.00 40.94 4.85
6147 7074 1.361668 GCGACACATGACGAATGGCT 61.362 55.000 7.91 0.00 40.94 4.75
6148 7075 1.060937 GCGACACATGACGAATGGC 59.939 57.895 7.91 0.00 40.94 4.40
6149 7076 1.344837 CGCGACACATGACGAATGG 59.655 57.895 0.00 0.00 40.94 3.16
6150 7077 1.296145 GCGCGACACATGACGAATG 60.296 57.895 12.10 0.00 42.48 2.67
6151 7078 1.413767 GAGCGCGACACATGACGAAT 61.414 55.000 12.10 0.00 35.37 3.34
6152 7079 2.049526 AGCGCGACACATGACGAA 60.050 55.556 12.10 0.00 35.37 3.85
6153 7080 2.504026 GAGCGCGACACATGACGA 60.504 61.111 12.10 0.00 35.37 4.20
6154 7081 2.504899 AGAGCGCGACACATGACG 60.505 61.111 12.10 3.47 36.38 4.35
6155 7082 2.447887 CCAGAGCGCGACACATGAC 61.448 63.158 12.10 0.00 0.00 3.06
6156 7083 2.125952 CCAGAGCGCGACACATGA 60.126 61.111 12.10 0.00 0.00 3.07
6157 7084 2.125952 TCCAGAGCGCGACACATG 60.126 61.111 12.10 0.00 0.00 3.21
6158 7085 2.125912 GTCCAGAGCGCGACACAT 60.126 61.111 12.10 0.00 0.00 3.21
6159 7086 4.700365 CGTCCAGAGCGCGACACA 62.700 66.667 12.10 0.00 0.00 3.72
6160 7087 4.702081 ACGTCCAGAGCGCGACAC 62.702 66.667 12.10 0.00 0.00 3.67
6161 7088 3.493830 AAACGTCCAGAGCGCGACA 62.494 57.895 12.10 0.00 0.00 4.35
6162 7089 2.717809 GAAACGTCCAGAGCGCGAC 61.718 63.158 12.10 2.22 0.00 5.19
6163 7090 2.430244 GAAACGTCCAGAGCGCGA 60.430 61.111 12.10 0.00 0.00 5.87
6164 7091 3.479269 GGAAACGTCCAGAGCGCG 61.479 66.667 0.00 0.00 44.26 6.86
6192 7119 1.536149 CGAAAACGTGTGCGGAAAAA 58.464 45.000 0.00 0.00 43.45 1.94
6193 7120 0.248134 CCGAAAACGTGTGCGGAAAA 60.248 50.000 21.58 0.00 46.29 2.29
6194 7121 1.352404 CCGAAAACGTGTGCGGAAA 59.648 52.632 21.58 0.00 46.29 3.13
6195 7122 3.015677 CCGAAAACGTGTGCGGAA 58.984 55.556 21.58 0.00 46.29 4.30
6196 7123 3.641986 GCCGAAAACGTGTGCGGA 61.642 61.111 30.11 0.00 46.29 5.54
6197 7124 2.655952 AAAGCCGAAAACGTGTGCGG 62.656 55.000 21.79 21.79 46.14 5.69
6198 7125 0.863957 AAAAGCCGAAAACGTGTGCG 60.864 50.000 0.00 0.00 44.93 5.34
6199 7126 1.273688 AAAAAGCCGAAAACGTGTGC 58.726 45.000 0.00 0.00 0.00 4.57
6200 7127 4.544772 CGTTTAAAAAGCCGAAAACGTGTG 60.545 41.667 10.16 0.00 45.43 3.82
6201 7128 3.543099 CGTTTAAAAAGCCGAAAACGTGT 59.457 39.130 10.16 0.00 45.43 4.49
6202 7129 4.079369 CGTTTAAAAAGCCGAAAACGTG 57.921 40.909 10.16 0.00 45.43 4.49
6226 7153 2.813172 GGGGGAACATAACGTCGAAAAA 59.187 45.455 0.00 0.00 0.00 1.94
6227 7154 2.425539 GGGGGAACATAACGTCGAAAA 58.574 47.619 0.00 0.00 0.00 2.29
6228 7155 2.097680 GGGGGAACATAACGTCGAAA 57.902 50.000 0.00 0.00 0.00 3.46
6229 7156 3.838795 GGGGGAACATAACGTCGAA 57.161 52.632 0.00 0.00 0.00 3.71
6244 7171 0.618981 AAGCTAAGAAAGACCGGGGG 59.381 55.000 6.32 0.00 0.00 5.40
6245 7172 2.491675 AAAGCTAAGAAAGACCGGGG 57.508 50.000 6.32 0.00 0.00 5.73
6246 7173 2.415512 CGAAAAGCTAAGAAAGACCGGG 59.584 50.000 6.32 0.00 0.00 5.73
6247 7174 3.323243 TCGAAAAGCTAAGAAAGACCGG 58.677 45.455 0.00 0.00 0.00 5.28
6248 7175 4.625742 TGATCGAAAAGCTAAGAAAGACCG 59.374 41.667 0.00 0.00 0.00 4.79
6249 7176 6.481954 TTGATCGAAAAGCTAAGAAAGACC 57.518 37.500 0.00 0.00 0.00 3.85
6250 7177 8.782533 TTTTTGATCGAAAAGCTAAGAAAGAC 57.217 30.769 15.57 0.00 34.96 3.01


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

AutoCloner maintained by Alex Coulton.