Multiple sequence alignment - TraesCS6B01G183900

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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 TraesCS6B01G183900 chr6B 100.000 5769 0 0 1 5769 206015429 206009661 0.000000e+00 10654.0
1 TraesCS6B01G183900 chr6B 82.321 741 85 23 1 726 452536324 452535615 8.270000e-168 601.0
2 TraesCS6B01G183900 chr6A 95.885 3864 134 13 1912 5769 144523852 144520008 0.000000e+00 6231.0
3 TraesCS6B01G183900 chr6A 90.886 790 49 13 829 1611 144525060 144524287 0.000000e+00 1038.0
4 TraesCS6B01G183900 chr6A 94.378 249 14 0 1605 1853 144524097 144523849 3.260000e-102 383.0
5 TraesCS6B01G183900 chr6D 96.362 2419 77 9 1912 4326 116340873 116338462 0.000000e+00 3969.0
6 TraesCS6B01G183900 chr6D 96.681 1416 34 6 4358 5769 116338462 116337056 0.000000e+00 2342.0
7 TraesCS6B01G183900 chr6D 91.150 1130 53 12 725 1853 116341953 116340870 0.000000e+00 1489.0
8 TraesCS6B01G183900 chr2D 86.326 724 85 9 1 718 605406235 605406950 0.000000e+00 776.0
9 TraesCS6B01G183900 chr2D 82.819 745 97 19 3 722 78535067 78534329 6.300000e-179 638.0
10 TraesCS6B01G183900 chr2D 81.602 674 111 12 1 664 346042605 346041935 3.930000e-151 545.0
11 TraesCS6B01G183900 chr4D 85.656 732 86 14 1 724 34457333 34458053 0.000000e+00 752.0
12 TraesCS6B01G183900 chr2A 84.939 737 84 19 3 725 679489776 679490499 0.000000e+00 721.0
13 TraesCS6B01G183900 chr2A 81.656 616 91 15 121 724 118490857 118491462 5.190000e-135 492.0
14 TraesCS6B01G183900 chr7A 85.027 728 85 11 3 724 734545729 734546438 0.000000e+00 719.0
15 TraesCS6B01G183900 chr1B 84.324 740 93 14 1 724 583731925 583732657 0.000000e+00 702.0
16 TraesCS6B01G183900 chr1B 82.695 757 77 25 1 724 636740999 636740264 1.770000e-174 623.0
17 TraesCS6B01G183900 chr5B 83.333 762 89 25 1 727 461049143 461048385 0.000000e+00 669.0
18 TraesCS6B01G183900 chr5B 100.000 29 0 0 1851 1879 411848067 411848095 3.000000e-03 54.7
19 TraesCS6B01G183900 chr3B 83.487 757 68 31 1 724 351985998 351986730 0.000000e+00 652.0
20 TraesCS6B01G183900 chr4A 81.845 672 103 16 33 699 120394424 120393767 1.090000e-151 547.0
21 TraesCS6B01G183900 chrUn 80.488 779 93 23 1 725 84387218 84386445 5.080000e-150 542.0
22 TraesCS6B01G183900 chr5A 87.781 401 41 6 326 724 548647228 548646834 4.070000e-126 462.0
23 TraesCS6B01G183900 chr7D 92.308 39 3 0 1852 1890 616898516 616898554 8.080000e-04 56.5
24 TraesCS6B01G183900 chr1A 100.000 29 0 0 1851 1879 532230550 532230578 3.000000e-03 54.7


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 TraesCS6B01G183900 chr6B 206009661 206015429 5768 True 10654.000000 10654 100.000000 1 5769 1 chr6B.!!$R1 5768
1 TraesCS6B01G183900 chr6B 452535615 452536324 709 True 601.000000 601 82.321000 1 726 1 chr6B.!!$R2 725
2 TraesCS6B01G183900 chr6A 144520008 144525060 5052 True 2550.666667 6231 93.716333 829 5769 3 chr6A.!!$R1 4940
3 TraesCS6B01G183900 chr6D 116337056 116341953 4897 True 2600.000000 3969 94.731000 725 5769 3 chr6D.!!$R1 5044
4 TraesCS6B01G183900 chr2D 605406235 605406950 715 False 776.000000 776 86.326000 1 718 1 chr2D.!!$F1 717
5 TraesCS6B01G183900 chr2D 78534329 78535067 738 True 638.000000 638 82.819000 3 722 1 chr2D.!!$R1 719
6 TraesCS6B01G183900 chr2D 346041935 346042605 670 True 545.000000 545 81.602000 1 664 1 chr2D.!!$R2 663
7 TraesCS6B01G183900 chr4D 34457333 34458053 720 False 752.000000 752 85.656000 1 724 1 chr4D.!!$F1 723
8 TraesCS6B01G183900 chr2A 679489776 679490499 723 False 721.000000 721 84.939000 3 725 1 chr2A.!!$F2 722
9 TraesCS6B01G183900 chr2A 118490857 118491462 605 False 492.000000 492 81.656000 121 724 1 chr2A.!!$F1 603
10 TraesCS6B01G183900 chr7A 734545729 734546438 709 False 719.000000 719 85.027000 3 724 1 chr7A.!!$F1 721
11 TraesCS6B01G183900 chr1B 583731925 583732657 732 False 702.000000 702 84.324000 1 724 1 chr1B.!!$F1 723
12 TraesCS6B01G183900 chr1B 636740264 636740999 735 True 623.000000 623 82.695000 1 724 1 chr1B.!!$R1 723
13 TraesCS6B01G183900 chr5B 461048385 461049143 758 True 669.000000 669 83.333000 1 727 1 chr5B.!!$R1 726
14 TraesCS6B01G183900 chr3B 351985998 351986730 732 False 652.000000 652 83.487000 1 724 1 chr3B.!!$F1 723
15 TraesCS6B01G183900 chr4A 120393767 120394424 657 True 547.000000 547 81.845000 33 699 1 chr4A.!!$R1 666
16 TraesCS6B01G183900 chrUn 84386445 84387218 773 True 542.000000 542 80.488000 1 725 1 chrUn.!!$R1 724

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
811 1022 0.963962 AGGCAGTGGCAGTTGATTTG 59.036 50.0 20.04 0.0 43.71 2.32 F
1856 2277 0.099082 CGCTCGACCAGAAGTACTCC 59.901 60.0 0.00 0.0 0.00 3.85 F
1857 2278 0.456628 GCTCGACCAGAAGTACTCCC 59.543 60.0 0.00 0.0 0.00 4.30 F
3058 3479 0.036164 TGGTACATGCGGTTCAGCTT 59.964 50.0 0.00 0.0 38.13 3.74 F
3915 4339 0.959553 CATCCCATGAAGCATCTGCC 59.040 55.0 0.00 0.0 43.38 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2239 2660 1.209990 AGGCTGGATCTCTGAGCAAAG 59.790 52.381 0.00 0.00 34.20 2.77 R
3039 3460 0.036164 AAGCTGAACCGCATGTACCA 59.964 50.000 0.00 0.00 0.00 3.25 R
3522 3945 0.322008 AAGGTCCACTAGCTTGCAGC 60.322 55.000 0.00 0.47 44.19 5.25 R
4491 4916 2.728007 AGAAGCTAAAAGGGCCATGAC 58.272 47.619 6.18 0.00 0.00 3.06 R
5286 5718 3.403613 TGATTTCCGCATTCAACATCG 57.596 42.857 0.00 0.00 0.00 3.84 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
67 68 2.809601 GCATTGTCTCGCCGACGT 60.810 61.111 0.00 0.00 45.87 4.34
106 111 2.855887 GGAAGAGAAAACCGAGGCC 58.144 57.895 0.00 0.00 0.00 5.19
179 247 1.226688 CATCGCCGCGAAGAAGAGA 60.227 57.895 21.02 0.00 39.99 3.10
180 248 1.226717 ATCGCCGCGAAGAAGAGAC 60.227 57.895 21.02 0.00 39.99 3.36
192 260 1.342819 AGAAGAGACACACTGACCTGC 59.657 52.381 0.00 0.00 0.00 4.85
215 292 1.149174 CCTAATGGGCGGCACAGAT 59.851 57.895 11.95 4.70 0.00 2.90
216 293 1.168407 CCTAATGGGCGGCACAGATG 61.168 60.000 11.95 2.57 0.00 2.90
375 496 2.031012 CGACTCCCAGCAGCACAA 59.969 61.111 0.00 0.00 0.00 3.33
377 498 1.845809 CGACTCCCAGCAGCACAAAC 61.846 60.000 0.00 0.00 0.00 2.93
448 608 1.446445 CCGACACCGCCGTTTGATA 60.446 57.895 0.00 0.00 0.00 2.15
730 940 5.006165 CGAGTGGAGATGCTCTTATCAAAAC 59.994 44.000 0.00 0.00 0.00 2.43
804 1015 1.376466 CCAACTAGGCAGTGGCAGT 59.624 57.895 20.04 16.19 43.71 4.40
811 1022 0.963962 AGGCAGTGGCAGTTGATTTG 59.036 50.000 20.04 0.00 43.71 2.32
823 1034 4.470462 CAGTTGATTTGTTGAGTAGCAGC 58.530 43.478 0.00 0.00 0.00 5.25
824 1035 3.187227 AGTTGATTTGTTGAGTAGCAGCG 59.813 43.478 0.00 0.00 0.00 5.18
825 1036 3.038788 TGATTTGTTGAGTAGCAGCGA 57.961 42.857 0.00 0.00 0.00 4.93
826 1037 3.599343 TGATTTGTTGAGTAGCAGCGAT 58.401 40.909 0.00 0.00 0.00 4.58
827 1038 4.002982 TGATTTGTTGAGTAGCAGCGATT 58.997 39.130 0.00 0.00 0.00 3.34
918 1138 1.002468 ACACAGATGCGCAACTTGAAC 60.002 47.619 25.02 10.01 0.00 3.18
953 1173 3.135167 TCCACAAGTCTCGGTTACCTTTT 59.865 43.478 0.00 0.00 0.00 2.27
996 1216 2.027073 CAGCGCCAACACGAGCTAA 61.027 57.895 2.29 0.00 37.94 3.09
1205 1428 3.921119 TTCTGTCGAACGGCTTTACTA 57.079 42.857 0.00 0.00 0.00 1.82
1244 1467 2.095252 GGGCTCGTTTCTGCTCGTC 61.095 63.158 0.00 0.00 0.00 4.20
1245 1468 2.095252 GGCTCGTTTCTGCTCGTCC 61.095 63.158 0.00 0.00 0.00 4.79
1246 1469 1.080434 GCTCGTTTCTGCTCGTCCT 60.080 57.895 0.00 0.00 0.00 3.85
1346 1569 2.420722 TGTTGAAACGACCAAGTGAACC 59.579 45.455 0.00 0.00 0.00 3.62
1351 1574 3.723348 GACCAAGTGAACCGCGCC 61.723 66.667 0.00 0.00 0.00 6.53
1366 1589 1.732683 CGCCATTTGTTTCCCGTGC 60.733 57.895 0.00 0.00 0.00 5.34
1385 1608 1.324736 GCTGCGTTTCGATCTGGTTAG 59.675 52.381 0.00 0.00 0.00 2.34
1409 1632 2.563942 GCCGTTTGCCAATGCGTA 59.436 55.556 2.23 0.00 41.78 4.42
1440 1663 1.202222 GCTTGGACGCTCATTGATTGG 60.202 52.381 0.00 0.00 0.00 3.16
1489 1712 8.419076 AACTGTAAATGTTTGGTCATTGTTTC 57.581 30.769 0.00 0.00 37.96 2.78
1490 1713 7.551585 ACTGTAAATGTTTGGTCATTGTTTCA 58.448 30.769 0.00 0.00 37.96 2.69
1491 1714 8.203485 ACTGTAAATGTTTGGTCATTGTTTCAT 58.797 29.630 0.00 0.00 37.96 2.57
1492 1715 8.586570 TGTAAATGTTTGGTCATTGTTTCATC 57.413 30.769 0.00 0.00 37.96 2.92
1524 1747 4.080863 CCTGGTATGAGGACCTATATTGCC 60.081 50.000 0.00 0.05 40.46 4.52
1552 1775 4.851639 ACTTGCTCATAATCCTCCAAGT 57.148 40.909 0.00 0.00 38.34 3.16
1554 1777 3.459232 TGCTCATAATCCTCCAAGTCG 57.541 47.619 0.00 0.00 0.00 4.18
1566 1789 3.981071 TCCAAGTCGGAGATTGTCAAT 57.019 42.857 0.00 0.00 39.64 2.57
1585 1808 8.974060 TGTCAATTGTTAAAAGTTCTACTCCT 57.026 30.769 5.13 0.00 0.00 3.69
1588 1811 7.664318 TCAATTGTTAAAAGTTCTACTCCTCCC 59.336 37.037 5.13 0.00 0.00 4.30
1589 1812 5.143376 TGTTAAAAGTTCTACTCCTCCCG 57.857 43.478 0.00 0.00 0.00 5.14
1591 1814 5.305128 TGTTAAAAGTTCTACTCCTCCCGAA 59.695 40.000 0.00 0.00 0.00 4.30
1628 2049 4.890088 ACAACAGCTAGAAACGATGGTAA 58.110 39.130 0.00 0.00 0.00 2.85
1646 2067 9.326413 CGATGGTAATTACAGTCTCCTAAAAAT 57.674 33.333 17.16 0.00 0.00 1.82
1655 2076 6.542821 ACAGTCTCCTAAAAATGGTTCATCA 58.457 36.000 0.00 0.00 0.00 3.07
1656 2077 6.431234 ACAGTCTCCTAAAAATGGTTCATCAC 59.569 38.462 0.00 0.00 0.00 3.06
1658 2079 6.881602 AGTCTCCTAAAAATGGTTCATCACTC 59.118 38.462 0.00 0.00 0.00 3.51
1680 2101 8.879299 CACTCGTTTAAATTAGTTTCACGAAAG 58.121 33.333 14.79 9.47 40.09 2.62
1686 2107 6.937436 AAATTAGTTTCACGAAAGAGTGGT 57.063 33.333 0.00 0.00 42.10 4.16
1726 2147 2.555732 ATGATGGGCCTTGTCCAAAT 57.444 45.000 4.53 0.00 42.14 2.32
1729 2150 2.311542 TGATGGGCCTTGTCCAAATAGT 59.688 45.455 4.53 0.00 42.14 2.12
1844 2265 2.673833 TCTTTCTTTCCTTCGCTCGAC 58.326 47.619 0.00 0.00 0.00 4.20
1846 2267 0.677288 TTCTTTCCTTCGCTCGACCA 59.323 50.000 0.00 0.00 0.00 4.02
1849 2270 0.677288 TTTCCTTCGCTCGACCAGAA 59.323 50.000 0.00 0.00 0.00 3.02
1850 2271 0.243907 TTCCTTCGCTCGACCAGAAG 59.756 55.000 10.95 10.95 40.58 2.85
1851 2272 0.894184 TCCTTCGCTCGACCAGAAGT 60.894 55.000 14.69 0.00 39.60 3.01
1852 2273 0.809385 CCTTCGCTCGACCAGAAGTA 59.191 55.000 14.69 0.00 39.60 2.24
1853 2274 1.467713 CCTTCGCTCGACCAGAAGTAC 60.468 57.143 14.69 0.00 39.60 2.73
1854 2275 1.469308 CTTCGCTCGACCAGAAGTACT 59.531 52.381 10.11 0.00 37.27 2.73
1855 2276 1.085091 TCGCTCGACCAGAAGTACTC 58.915 55.000 0.00 0.00 0.00 2.59
1856 2277 0.099082 CGCTCGACCAGAAGTACTCC 59.901 60.000 0.00 0.00 0.00 3.85
1857 2278 0.456628 GCTCGACCAGAAGTACTCCC 59.543 60.000 0.00 0.00 0.00 4.30
1858 2279 1.956159 GCTCGACCAGAAGTACTCCCT 60.956 57.143 0.00 0.00 0.00 4.20
1859 2280 2.018515 CTCGACCAGAAGTACTCCCTC 58.981 57.143 0.00 0.00 0.00 4.30
1860 2281 1.634459 TCGACCAGAAGTACTCCCTCT 59.366 52.381 0.00 0.00 0.00 3.69
1861 2282 1.746220 CGACCAGAAGTACTCCCTCTG 59.254 57.143 13.87 13.87 0.00 3.35
1862 2283 2.810164 GACCAGAAGTACTCCCTCTGT 58.190 52.381 17.70 9.02 0.00 3.41
1863 2284 2.756207 GACCAGAAGTACTCCCTCTGTC 59.244 54.545 17.70 12.71 0.00 3.51
1864 2285 2.104170 CCAGAAGTACTCCCTCTGTCC 58.896 57.143 17.70 0.00 0.00 4.02
1865 2286 2.104170 CAGAAGTACTCCCTCTGTCCC 58.896 57.143 12.94 0.00 0.00 4.46
1866 2287 1.717077 AGAAGTACTCCCTCTGTCCCA 59.283 52.381 0.00 0.00 0.00 4.37
1867 2288 2.111972 AGAAGTACTCCCTCTGTCCCAA 59.888 50.000 0.00 0.00 0.00 4.12
1868 2289 2.239681 AGTACTCCCTCTGTCCCAAG 57.760 55.000 0.00 0.00 0.00 3.61
1869 2290 1.717077 AGTACTCCCTCTGTCCCAAGA 59.283 52.381 0.00 0.00 0.00 3.02
1870 2291 2.316372 AGTACTCCCTCTGTCCCAAGAT 59.684 50.000 0.00 0.00 0.00 2.40
1871 2292 3.532232 AGTACTCCCTCTGTCCCAAGATA 59.468 47.826 0.00 0.00 0.00 1.98
1872 2293 3.491766 ACTCCCTCTGTCCCAAGATAA 57.508 47.619 0.00 0.00 0.00 1.75
1873 2294 3.379452 ACTCCCTCTGTCCCAAGATAAG 58.621 50.000 0.00 0.00 0.00 1.73
1874 2295 3.246167 ACTCCCTCTGTCCCAAGATAAGT 60.246 47.826 0.00 0.00 0.00 2.24
1875 2296 3.107601 TCCCTCTGTCCCAAGATAAGTG 58.892 50.000 0.00 0.00 0.00 3.16
1876 2297 2.840651 CCCTCTGTCCCAAGATAAGTGT 59.159 50.000 0.00 0.00 0.00 3.55
1877 2298 3.118592 CCCTCTGTCCCAAGATAAGTGTC 60.119 52.174 0.00 0.00 0.00 3.67
1878 2299 3.772025 CCTCTGTCCCAAGATAAGTGTCT 59.228 47.826 0.00 0.00 0.00 3.41
1879 2300 4.223923 CCTCTGTCCCAAGATAAGTGTCTT 59.776 45.833 0.00 0.00 38.95 3.01
1880 2301 5.280215 CCTCTGTCCCAAGATAAGTGTCTTT 60.280 44.000 0.00 0.00 36.33 2.52
1881 2302 5.551233 TCTGTCCCAAGATAAGTGTCTTTG 58.449 41.667 0.00 0.00 36.33 2.77
1882 2303 5.306937 TCTGTCCCAAGATAAGTGTCTTTGA 59.693 40.000 0.00 0.00 36.33 2.69
1883 2304 6.013379 TCTGTCCCAAGATAAGTGTCTTTGAT 60.013 38.462 0.00 0.00 36.33 2.57
1884 2305 6.542821 TGTCCCAAGATAAGTGTCTTTGATT 58.457 36.000 0.00 0.00 36.33 2.57
1885 2306 7.004086 TGTCCCAAGATAAGTGTCTTTGATTT 58.996 34.615 0.00 0.00 36.33 2.17
1886 2307 8.160765 TGTCCCAAGATAAGTGTCTTTGATTTA 58.839 33.333 0.00 0.00 36.33 1.40
1887 2308 8.669243 GTCCCAAGATAAGTGTCTTTGATTTAG 58.331 37.037 0.00 0.00 36.33 1.85
1888 2309 8.383175 TCCCAAGATAAGTGTCTTTGATTTAGT 58.617 33.333 0.00 0.00 36.33 2.24
1889 2310 9.667107 CCCAAGATAAGTGTCTTTGATTTAGTA 57.333 33.333 0.00 0.00 36.33 1.82
1902 2323 9.667107 TCTTTGATTTAGTACACTTATCTTGGG 57.333 33.333 0.00 0.00 0.00 4.12
1903 2324 9.667107 CTTTGATTTAGTACACTTATCTTGGGA 57.333 33.333 0.00 0.00 0.00 4.37
1904 2325 9.444600 TTTGATTTAGTACACTTATCTTGGGAC 57.555 33.333 0.00 0.00 0.00 4.46
1905 2326 8.141298 TGATTTAGTACACTTATCTTGGGACA 57.859 34.615 0.00 0.00 0.00 4.02
1906 2327 8.258007 TGATTTAGTACACTTATCTTGGGACAG 58.742 37.037 0.00 0.00 42.39 3.51
1907 2328 7.786046 TTTAGTACACTTATCTTGGGACAGA 57.214 36.000 0.00 0.00 42.39 3.41
1908 2329 5.923733 AGTACACTTATCTTGGGACAGAG 57.076 43.478 0.00 0.00 42.39 3.35
1909 2330 4.712337 AGTACACTTATCTTGGGACAGAGG 59.288 45.833 0.00 0.00 42.39 3.69
1910 2331 2.840651 ACACTTATCTTGGGACAGAGGG 59.159 50.000 0.00 0.00 42.39 4.30
2019 2440 1.078709 CAATGGTCTACAGTGGTGCG 58.921 55.000 0.00 0.00 41.27 5.34
2040 2461 4.062293 CGGTTGATAGAATAATTGGCCGA 58.938 43.478 0.00 0.00 37.92 5.54
2046 2467 1.143073 AGAATAATTGGCCGACCTCCC 59.857 52.381 0.00 0.00 36.63 4.30
2198 2619 7.040686 ACACAATTGTTGAGGTTCTATGGTTAC 60.041 37.037 8.77 0.00 28.43 2.50
2204 2625 6.934645 TGTTGAGGTTCTATGGTTACTGAAAG 59.065 38.462 0.00 0.00 42.29 2.62
2239 2660 5.068987 TGTGCTGAATATCCCCTATTTTTGC 59.931 40.000 0.00 0.00 29.93 3.68
2265 2686 2.210424 AGAGATCCAGCCTCTGCAC 58.790 57.895 0.00 0.00 39.36 4.57
2389 2810 5.361571 TCAATAGTGAAGGCGACAGGTATAA 59.638 40.000 0.00 0.00 0.00 0.98
2412 2833 9.686683 ATAAACTGTTCTCCATTGCTATACTTT 57.313 29.630 0.00 0.00 0.00 2.66
2458 2879 7.692172 TGATATCCATCATTGAAAGGAGCATA 58.308 34.615 14.25 5.53 36.22 3.14
2468 2889 7.334421 TCATTGAAAGGAGCATAGTTAGTTCAC 59.666 37.037 0.00 0.00 0.00 3.18
2481 2902 1.609208 AGTTCACCATTCAGCACCAC 58.391 50.000 0.00 0.00 0.00 4.16
2488 2909 4.278170 TCACCATTCAGCACCACTTTTTAG 59.722 41.667 0.00 0.00 0.00 1.85
2492 2913 4.911514 TTCAGCACCACTTTTTAGTTCC 57.088 40.909 0.00 0.00 0.00 3.62
2531 2952 9.436957 TCTCCAAATAGTTCAACTTTGTATCTC 57.563 33.333 0.00 0.00 0.00 2.75
2532 2953 9.219603 CTCCAAATAGTTCAACTTTGTATCTCA 57.780 33.333 0.00 0.00 0.00 3.27
2582 3003 9.200817 AGTTATATTGCCCTGTGTATTTTTGAT 57.799 29.630 0.00 0.00 0.00 2.57
2634 3055 8.976986 AGCATTGAATGACTTGTATTTTTCTC 57.023 30.769 9.76 0.00 0.00 2.87
2687 3108 9.338291 CATTCTTGTATTCATGCATAGTATTGC 57.662 33.333 0.00 0.00 43.07 3.56
2878 3299 9.829507 AGGTCATCAACTGATATTCTAAAAGAG 57.170 33.333 0.00 0.00 35.97 2.85
2954 3375 1.673665 GTGAAGGTGAGCCTGCTGG 60.674 63.158 5.03 5.03 46.33 4.85
2975 3396 7.770897 TGCTGGCTTAAATGTTTTTAAAGGAAA 59.229 29.630 0.00 0.00 36.97 3.13
3039 3460 9.461312 TCAATGTACCTATTTTTAGCAAGTCAT 57.539 29.630 0.00 0.00 0.00 3.06
3044 3465 7.625828 ACCTATTTTTAGCAAGTCATGGTAC 57.374 36.000 0.00 0.00 41.51 3.34
3050 3471 2.013563 AGCAAGTCATGGTACATGCGG 61.014 52.381 8.53 1.09 46.00 5.69
3052 3473 5.999941 AGCAAGTCATGGTACATGCGGTT 63.000 47.826 8.53 0.00 46.00 4.44
3056 3477 4.294523 TGGTACATGCGGTTCAGC 57.705 55.556 0.00 0.00 37.71 4.26
3058 3479 0.036164 TGGTACATGCGGTTCAGCTT 59.964 50.000 0.00 0.00 38.13 3.74
3083 3506 2.317530 AAATGCGAGGAGGTTAGCTC 57.682 50.000 2.39 2.39 0.00 4.09
3095 3518 4.039366 GGAGGTTAGCTCCAATTCGAGTAT 59.961 45.833 23.80 0.00 40.57 2.12
3097 3520 6.071278 GGAGGTTAGCTCCAATTCGAGTATAT 60.071 42.308 23.80 0.00 40.57 0.86
3214 3637 3.617735 TGCGGTTGTGCGGGACTA 61.618 61.111 0.31 0.00 37.81 2.59
3240 3663 2.095532 CAGCATTGCAGTAGCTTCACTC 59.904 50.000 11.91 0.00 42.74 3.51
3241 3664 2.079158 GCATTGCAGTAGCTTCACTCA 58.921 47.619 3.15 0.00 42.74 3.41
3242 3665 2.681848 GCATTGCAGTAGCTTCACTCAT 59.318 45.455 3.15 0.00 42.74 2.90
3292 3715 3.213506 TGTTGCATACTTGTGTTGCTCT 58.786 40.909 10.33 0.00 37.28 4.09
3305 3728 4.150897 TGTTGCTCTTAGTTCCAACACT 57.849 40.909 9.55 0.00 41.62 3.55
3477 3900 1.402259 TGTTACAGTGGTGGTTTTGCG 59.598 47.619 0.00 0.00 0.00 4.85
3522 3945 7.011109 GGTGCAACTAATGTTACTGGTATAGTG 59.989 40.741 0.00 0.00 37.30 2.74
3526 3949 6.281405 ACTAATGTTACTGGTATAGTGCTGC 58.719 40.000 0.00 0.00 40.65 5.25
3669 4093 7.119262 CACTTTATAACACTCTACAGGTTTGGG 59.881 40.741 0.00 0.00 0.00 4.12
3670 4094 2.271944 AACACTCTACAGGTTTGGGC 57.728 50.000 0.00 0.00 0.00 5.36
3743 4167 2.977914 TCTGCACTAGATCTTGCCAAC 58.022 47.619 15.20 0.00 38.00 3.77
3758 4182 5.582269 TCTTGCCAACGAGAATATTCTTCTG 59.418 40.000 18.88 14.89 37.73 3.02
3915 4339 0.959553 CATCCCATGAAGCATCTGCC 59.040 55.000 0.00 0.00 43.38 4.85
3994 4419 8.206325 AGTTCTGAAGCATGTTATACATCAAG 57.794 34.615 0.00 0.00 36.53 3.02
4004 4429 7.859377 GCATGTTATACATCAAGAAGTTCATGG 59.141 37.037 8.17 0.00 36.53 3.66
4017 4442 7.621428 AGAAGTTCATGGATCATTTGTACAG 57.379 36.000 5.50 0.00 0.00 2.74
4088 4513 3.534357 TCAGCAAAACCCTTTATCCCA 57.466 42.857 0.00 0.00 0.00 4.37
4149 4574 8.783093 CAACAATTGTTCTATGTAAGTGAAGGA 58.217 33.333 20.85 0.00 35.83 3.36
4466 4891 4.828939 TCTTCCAGCATGTCAAACTGAAAT 59.171 37.500 6.97 0.00 33.10 2.17
4491 4916 7.482654 TTCATAGAAGGTTTGCGATGAATAG 57.517 36.000 0.00 0.00 33.30 1.73
4507 4932 4.207165 TGAATAGTCATGGCCCTTTTAGC 58.793 43.478 0.00 0.00 0.00 3.09
4591 5016 8.537728 TTGTCTATATTCCATTGCAAATTCCT 57.462 30.769 1.71 0.00 0.00 3.36
4711 5136 1.315690 CAGCTTGCGATCATCCCATT 58.684 50.000 0.00 0.00 0.00 3.16
4775 5200 4.087182 ACTCCGAGTAATGTGAAGAAGGA 58.913 43.478 0.00 0.00 0.00 3.36
4777 5202 5.073311 TCCGAGTAATGTGAAGAAGGAAG 57.927 43.478 0.00 0.00 0.00 3.46
4898 5323 6.635641 GGTGTAGAAAATTTCCGAACAAGAAC 59.364 38.462 1.57 0.00 0.00 3.01
4899 5324 7.190871 GTGTAGAAAATTTCCGAACAAGAACA 58.809 34.615 1.57 0.00 0.00 3.18
4900 5325 7.698970 GTGTAGAAAATTTCCGAACAAGAACAA 59.301 33.333 1.57 0.00 0.00 2.83
5144 5573 7.692908 ATTTTCAACAAAAGAACCGTGTATG 57.307 32.000 0.00 0.00 34.92 2.39
5198 5630 3.058914 GTGTTGCTCATACACACAAGTCC 60.059 47.826 0.00 0.00 44.08 3.85
5219 5651 5.345202 GTCCACTTGATACACGTACTTTGAG 59.655 44.000 0.00 0.00 0.00 3.02
5272 5704 7.642071 TCGTACAAAGATACAAGTTAACCAC 57.358 36.000 0.88 0.00 0.00 4.16
5286 5718 6.144078 AGTTAACCACAAGACCAATTGTTC 57.856 37.500 4.43 0.00 41.41 3.18
5319 5751 3.814945 CGGAAATCAACTTTCAGAGTGC 58.185 45.455 0.71 0.00 44.29 4.40
5625 6060 7.759489 ATATGTGTTGTAATTGTTGTCCAGT 57.241 32.000 0.00 0.00 0.00 4.00
5658 6093 3.888930 TGGTGTCATTTTCTTTGAGGTCC 59.111 43.478 0.00 0.00 0.00 4.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
106 111 2.431771 TCATCAACGCCGACCACG 60.432 61.111 0.00 0.00 39.43 4.94
179 247 0.179018 GGAAAGGCAGGTCAGTGTGT 60.179 55.000 0.00 0.00 0.00 3.72
180 248 0.109342 AGGAAAGGCAGGTCAGTGTG 59.891 55.000 0.00 0.00 0.00 3.82
192 260 1.077068 TGCCGCCCATTAGGAAAGG 60.077 57.895 0.00 0.00 38.24 3.11
448 608 2.038557 AGAAAGGACACGCAGGTAATGT 59.961 45.455 0.00 0.00 0.00 2.71
568 746 1.144093 TCAAACTTGGTCCATTCCCGT 59.856 47.619 0.00 0.00 0.00 5.28
700 910 1.215647 GCATCTCCACTCGTTCGGT 59.784 57.895 0.00 0.00 0.00 4.69
796 1007 3.290710 ACTCAACAAATCAACTGCCACT 58.709 40.909 0.00 0.00 0.00 4.00
804 1015 3.398406 TCGCTGCTACTCAACAAATCAA 58.602 40.909 0.00 0.00 0.00 2.57
811 1022 1.849219 CTCGAATCGCTGCTACTCAAC 59.151 52.381 0.00 0.00 0.00 3.18
826 1037 2.564975 GCTCCCGTTCGACTCGAA 59.435 61.111 9.86 9.86 43.75 3.71
827 1038 3.796443 CGCTCCCGTTCGACTCGA 61.796 66.667 10.19 0.00 0.00 4.04
871 1090 2.190578 GTGGGGCCTTCATCGAGG 59.809 66.667 0.84 0.00 39.93 4.63
872 1091 2.202932 CGTGGGGCCTTCATCGAG 60.203 66.667 0.84 0.00 0.00 4.04
918 1138 5.256474 AGACTTGTGGATTGGTATTTCCTG 58.744 41.667 0.00 0.00 37.07 3.86
1141 1364 0.102481 GGGCGCGAGATGAGTAAAGA 59.898 55.000 12.10 0.00 0.00 2.52
1163 1386 3.124686 GGCAGAGACTAGGCGAGG 58.875 66.667 0.00 0.00 0.00 4.63
1227 1450 2.095252 GGACGAGCAGAAACGAGCC 61.095 63.158 0.00 0.00 0.00 4.70
1346 1569 2.503809 CGGGAAACAAATGGCGCG 60.504 61.111 0.00 0.00 0.00 6.86
1351 1574 1.003262 CGCAGCACGGGAAACAAATG 61.003 55.000 0.00 0.00 38.44 2.32
1366 1589 1.927174 CCTAACCAGATCGAAACGCAG 59.073 52.381 0.00 0.00 0.00 5.18
1409 1632 1.813513 CGTCCAAGCTCAGGAAATGT 58.186 50.000 9.26 0.00 36.80 2.71
1436 1659 3.585862 CACTCGCTACAACTGTACCAAT 58.414 45.455 0.00 0.00 0.00 3.16
1440 1663 2.719426 ACCACTCGCTACAACTGTAC 57.281 50.000 0.00 0.00 0.00 2.90
1486 1709 3.173953 ACCAGGCCATGAAAGATGAAA 57.826 42.857 5.01 0.00 0.00 2.69
1487 1710 2.905415 ACCAGGCCATGAAAGATGAA 57.095 45.000 5.01 0.00 0.00 2.57
1488 1711 3.459227 TCATACCAGGCCATGAAAGATGA 59.541 43.478 5.01 1.41 0.00 2.92
1489 1712 3.819337 CTCATACCAGGCCATGAAAGATG 59.181 47.826 5.01 0.00 31.04 2.90
1490 1713 3.181436 CCTCATACCAGGCCATGAAAGAT 60.181 47.826 5.01 0.00 31.04 2.40
1491 1714 2.173356 CCTCATACCAGGCCATGAAAGA 59.827 50.000 5.01 0.00 31.04 2.52
1492 1715 2.173356 TCCTCATACCAGGCCATGAAAG 59.827 50.000 5.01 0.00 32.91 2.62
1524 1747 7.999679 TGGAGGATTATGAGCAAGTAAAATTG 58.000 34.615 0.00 0.00 0.00 2.32
1552 1775 7.504924 ACTTTTAACAATTGACAATCTCCGA 57.495 32.000 13.59 0.00 0.00 4.55
1566 1789 5.305128 TCGGGAGGAGTAGAACTTTTAACAA 59.695 40.000 0.00 0.00 0.00 2.83
1588 1811 4.156922 TGTTGTTACCATAAATGCCCTTCG 59.843 41.667 0.00 0.00 0.00 3.79
1589 1812 5.650543 CTGTTGTTACCATAAATGCCCTTC 58.349 41.667 0.00 0.00 0.00 3.46
1591 1814 3.447229 GCTGTTGTTACCATAAATGCCCT 59.553 43.478 0.00 0.00 0.00 5.19
1594 1817 6.677781 TCTAGCTGTTGTTACCATAAATGC 57.322 37.500 0.00 0.00 0.00 3.56
1628 2049 9.178758 GATGAACCATTTTTAGGAGACTGTAAT 57.821 33.333 0.00 0.00 43.88 1.89
1646 2067 7.972832 ACTAATTTAAACGAGTGATGAACCA 57.027 32.000 3.59 0.00 0.00 3.67
1655 2076 8.819974 TCTTTCGTGAAACTAATTTAAACGAGT 58.180 29.630 7.01 0.00 42.87 4.18
1656 2077 9.302773 CTCTTTCGTGAAACTAATTTAAACGAG 57.697 33.333 7.01 0.00 42.87 4.18
1658 2079 8.879299 CACTCTTTCGTGAAACTAATTTAAACG 58.121 33.333 0.00 0.00 38.44 3.60
1726 2147 5.692115 TGTGGATGAAATCTAGCCAACTA 57.308 39.130 0.00 0.00 44.71 2.24
1729 2150 3.689161 CGTTGTGGATGAAATCTAGCCAA 59.311 43.478 0.00 0.00 44.71 4.52
1820 2241 3.120854 CGAGCGAAGGAAAGAAAGAAGTG 60.121 47.826 0.00 0.00 0.00 3.16
1844 2265 2.104170 GGACAGAGGGAGTACTTCTGG 58.896 57.143 21.49 8.60 33.15 3.86
1846 2267 1.717077 TGGGACAGAGGGAGTACTTCT 59.283 52.381 0.01 0.06 0.00 2.85
1849 2270 1.717077 TCTTGGGACAGAGGGAGTACT 59.283 52.381 0.00 0.00 42.39 2.73
1850 2271 2.233305 TCTTGGGACAGAGGGAGTAC 57.767 55.000 0.00 0.00 42.39 2.73
1851 2272 4.016479 ACTTATCTTGGGACAGAGGGAGTA 60.016 45.833 0.00 0.00 42.39 2.59
1852 2273 3.246167 ACTTATCTTGGGACAGAGGGAGT 60.246 47.826 0.00 0.00 42.39 3.85
1853 2274 3.133721 CACTTATCTTGGGACAGAGGGAG 59.866 52.174 0.00 0.00 42.39 4.30
1854 2275 3.107601 CACTTATCTTGGGACAGAGGGA 58.892 50.000 0.00 0.00 42.39 4.20
1855 2276 2.840651 ACACTTATCTTGGGACAGAGGG 59.159 50.000 0.00 0.00 42.39 4.30
1856 2277 3.772025 AGACACTTATCTTGGGACAGAGG 59.228 47.826 0.00 0.00 42.39 3.69
1857 2278 5.413309 AAGACACTTATCTTGGGACAGAG 57.587 43.478 0.00 0.00 42.39 3.35
1858 2279 5.306937 TCAAAGACACTTATCTTGGGACAGA 59.693 40.000 0.00 0.00 42.39 3.41
1859 2280 5.551233 TCAAAGACACTTATCTTGGGACAG 58.449 41.667 0.00 0.00 42.39 3.51
1860 2281 5.560722 TCAAAGACACTTATCTTGGGACA 57.439 39.130 0.00 0.00 38.95 4.02
1861 2282 7.454260 AAATCAAAGACACTTATCTTGGGAC 57.546 36.000 0.00 0.00 38.95 4.46
1862 2283 8.383175 ACTAAATCAAAGACACTTATCTTGGGA 58.617 33.333 0.00 0.00 38.95 4.37
1863 2284 8.567285 ACTAAATCAAAGACACTTATCTTGGG 57.433 34.615 0.00 0.00 38.95 4.12
1876 2297 9.667107 CCCAAGATAAGTGTACTAAATCAAAGA 57.333 33.333 0.00 0.00 0.00 2.52
1877 2298 9.667107 TCCCAAGATAAGTGTACTAAATCAAAG 57.333 33.333 0.00 0.00 0.00 2.77
1878 2299 9.444600 GTCCCAAGATAAGTGTACTAAATCAAA 57.555 33.333 0.00 0.00 0.00 2.69
1879 2300 8.598916 TGTCCCAAGATAAGTGTACTAAATCAA 58.401 33.333 0.00 0.00 0.00 2.57
1880 2301 8.141298 TGTCCCAAGATAAGTGTACTAAATCA 57.859 34.615 0.00 0.00 0.00 2.57
1881 2302 8.475639 TCTGTCCCAAGATAAGTGTACTAAATC 58.524 37.037 0.00 0.00 0.00 2.17
1882 2303 8.375493 TCTGTCCCAAGATAAGTGTACTAAAT 57.625 34.615 0.00 0.00 0.00 1.40
1883 2304 7.093465 CCTCTGTCCCAAGATAAGTGTACTAAA 60.093 40.741 0.00 0.00 0.00 1.85
1884 2305 6.380274 CCTCTGTCCCAAGATAAGTGTACTAA 59.620 42.308 0.00 0.00 0.00 2.24
1885 2306 5.892119 CCTCTGTCCCAAGATAAGTGTACTA 59.108 44.000 0.00 0.00 0.00 1.82
1886 2307 4.712337 CCTCTGTCCCAAGATAAGTGTACT 59.288 45.833 0.00 0.00 0.00 2.73
1887 2308 4.141914 CCCTCTGTCCCAAGATAAGTGTAC 60.142 50.000 0.00 0.00 0.00 2.90
1888 2309 4.030913 CCCTCTGTCCCAAGATAAGTGTA 58.969 47.826 0.00 0.00 0.00 2.90
1889 2310 2.840651 CCCTCTGTCCCAAGATAAGTGT 59.159 50.000 0.00 0.00 0.00 3.55
1890 2311 3.107601 TCCCTCTGTCCCAAGATAAGTG 58.892 50.000 0.00 0.00 0.00 3.16
1891 2312 3.246167 ACTCCCTCTGTCCCAAGATAAGT 60.246 47.826 0.00 0.00 0.00 2.24
1892 2313 3.379452 ACTCCCTCTGTCCCAAGATAAG 58.621 50.000 0.00 0.00 0.00 1.73
1893 2314 3.491766 ACTCCCTCTGTCCCAAGATAA 57.508 47.619 0.00 0.00 0.00 1.75
1894 2315 4.834406 ATACTCCCTCTGTCCCAAGATA 57.166 45.455 0.00 0.00 0.00 1.98
1895 2316 3.715648 ATACTCCCTCTGTCCCAAGAT 57.284 47.619 0.00 0.00 0.00 2.40
1896 2317 4.834406 ATATACTCCCTCTGTCCCAAGA 57.166 45.455 0.00 0.00 0.00 3.02
1897 2318 5.646215 AGTATATACTCCCTCTGTCCCAAG 58.354 45.833 9.71 0.00 0.00 3.61
1898 2319 5.681494 AGTATATACTCCCTCTGTCCCAA 57.319 43.478 9.71 0.00 0.00 4.12
1899 2320 6.103649 TGTTAGTATATACTCCCTCTGTCCCA 59.896 42.308 18.68 0.00 37.73 4.37
1900 2321 6.550163 TGTTAGTATATACTCCCTCTGTCCC 58.450 44.000 18.68 0.00 37.73 4.46
1901 2322 7.339976 GGATGTTAGTATATACTCCCTCTGTCC 59.660 44.444 18.68 13.41 37.73 4.02
1902 2323 7.889073 TGGATGTTAGTATATACTCCCTCTGTC 59.111 40.741 18.68 9.08 37.73 3.51
1903 2324 7.766628 TGGATGTTAGTATATACTCCCTCTGT 58.233 38.462 18.68 0.96 37.73 3.41
1904 2325 8.651589 TTGGATGTTAGTATATACTCCCTCTG 57.348 38.462 18.68 0.00 37.73 3.35
1905 2326 7.397761 GCTTGGATGTTAGTATATACTCCCTCT 59.602 40.741 18.68 2.13 37.73 3.69
1906 2327 7.178628 TGCTTGGATGTTAGTATATACTCCCTC 59.821 40.741 18.68 12.22 37.73 4.30
1907 2328 7.016914 TGCTTGGATGTTAGTATATACTCCCT 58.983 38.462 18.68 4.61 37.73 4.20
1908 2329 7.097834 GTGCTTGGATGTTAGTATATACTCCC 58.902 42.308 18.68 10.95 37.73 4.30
1909 2330 7.038941 AGGTGCTTGGATGTTAGTATATACTCC 60.039 40.741 18.68 13.67 37.73 3.85
1910 2331 7.897864 AGGTGCTTGGATGTTAGTATATACTC 58.102 38.462 18.68 6.65 37.73 2.59
1953 2374 3.008704 TCTTGCCCTTCTTTAGTACCACC 59.991 47.826 0.00 0.00 0.00 4.61
2007 2428 2.165641 TCTATCAACCGCACCACTGTAG 59.834 50.000 0.00 0.00 0.00 2.74
2019 2440 4.215613 GGTCGGCCAATTATTCTATCAACC 59.784 45.833 0.00 0.00 34.09 3.77
2049 2470 5.555966 ACCAAAACAACATCACCAGTTTTT 58.444 33.333 0.00 0.00 40.89 1.94
2198 2619 3.625938 GCACAAGCTCTCAAACTTTCAG 58.374 45.455 0.00 0.00 37.91 3.02
2239 2660 1.209990 AGGCTGGATCTCTGAGCAAAG 59.790 52.381 0.00 0.00 34.20 2.77
2265 2686 6.980978 TCTTCGAGCAGTCTTTCCATATTTAG 59.019 38.462 0.00 0.00 0.00 1.85
2389 2810 8.322091 ACTAAAGTATAGCAATGGAGAACAGTT 58.678 33.333 0.00 0.00 0.00 3.16
2412 2833 5.686753 TCAAGGTGGTTTCTTTGCTAACTA 58.313 37.500 0.00 0.00 0.00 2.24
2458 2879 3.181445 TGGTGCTGAATGGTGAACTAACT 60.181 43.478 0.00 0.00 0.00 2.24
2468 2889 4.853924 ACTAAAAAGTGGTGCTGAATGG 57.146 40.909 0.00 0.00 0.00 3.16
2488 2909 6.681729 TTGGAGACCCATATATACTGGAAC 57.318 41.667 10.91 6.31 43.12 3.62
2492 2913 9.877178 GAACTATTTGGAGACCCATATATACTG 57.123 37.037 0.00 0.00 43.12 2.74
2552 2973 8.863872 AAATACACAGGGCAATATAACTATCC 57.136 34.615 0.00 0.00 0.00 2.59
2579 3000 5.069516 TCAGTATTCTCTGCTGCACATATCA 59.930 40.000 0.00 0.00 37.49 2.15
2582 3003 5.303845 AGATCAGTATTCTCTGCTGCACATA 59.696 40.000 0.00 0.00 37.49 2.29
2634 3055 1.219393 GGCAAGGTTCCGGAGAGAG 59.781 63.158 3.34 0.00 0.00 3.20
2878 3299 8.964476 TTTGTTCTGACATATCTAATCCTTCC 57.036 34.615 0.00 0.00 35.29 3.46
3021 3442 7.624360 TGTACCATGACTTGCTAAAAATAGG 57.376 36.000 0.00 0.00 0.00 2.57
3039 3460 0.036164 AAGCTGAACCGCATGTACCA 59.964 50.000 0.00 0.00 0.00 3.25
3117 3540 2.561419 TGACAAACCCGGTTCAAAAACA 59.439 40.909 2.46 0.00 37.10 2.83
3118 3541 3.233684 TGACAAACCCGGTTCAAAAAC 57.766 42.857 2.46 0.00 34.46 2.43
3219 3642 2.082231 AGTGAAGCTACTGCAATGCTG 58.918 47.619 10.59 10.59 42.74 4.41
3229 3652 8.703604 TTGACAAATACTATGAGTGAAGCTAC 57.296 34.615 0.00 0.00 0.00 3.58
3242 3665 8.198109 GCAGGTAGAGAAGATTGACAAATACTA 58.802 37.037 0.00 0.00 0.00 1.82
3305 3728 3.271729 TGGACGTAAGAAAAGCACACAA 58.728 40.909 0.00 0.00 43.62 3.33
3447 3870 2.092646 ACCACTGTAACAGCAAAGGTCA 60.093 45.455 0.00 0.00 34.37 4.02
3477 3900 2.704808 GCCCTTGGCTGCACTAAGC 61.705 63.158 0.50 0.00 46.69 3.09
3522 3945 0.322008 AAGGTCCACTAGCTTGCAGC 60.322 55.000 0.00 0.47 44.19 5.25
3669 4093 5.344207 AGTCAGATTGTCGTTTTTACAGC 57.656 39.130 0.00 0.00 0.00 4.40
3670 4094 7.639162 ACTAGTCAGATTGTCGTTTTTACAG 57.361 36.000 0.00 0.00 0.00 2.74
3743 4167 9.254133 TCAAGCTTATTCAGAAGAATATTCTCG 57.746 33.333 18.19 10.15 44.04 4.04
3915 4339 5.627499 TCAAGCCAAATTAGCAACTACAG 57.373 39.130 3.48 0.00 0.00 2.74
3994 4419 6.678900 GCCTGTACAAATGATCCATGAACTTC 60.679 42.308 0.00 0.00 0.00 3.01
4004 4429 3.878778 ACTGAGGCCTGTACAAATGATC 58.121 45.455 12.00 0.00 0.00 2.92
4149 4574 7.106239 CACCTACAAATACAACAGAGAATCCT 58.894 38.462 0.00 0.00 33.66 3.24
4365 4790 7.569240 AGATTTGAGTAAATAGGACCCAAGAG 58.431 38.462 0.00 0.00 36.66 2.85
4466 4891 6.757897 ATTCATCGCAAACCTTCTATGAAA 57.242 33.333 0.00 0.00 37.03 2.69
4491 4916 2.728007 AGAAGCTAAAAGGGCCATGAC 58.272 47.619 6.18 0.00 0.00 3.06
4507 4932 4.675510 ACGCATGCCAATATGAAAAGAAG 58.324 39.130 13.15 0.00 0.00 2.85
4591 5016 5.697473 TCATCAACGTGGATAAGCAAAAA 57.303 34.783 4.78 0.00 0.00 1.94
4734 5159 5.921408 CGGAGTAAGTAATTGCTGAGATACC 59.079 44.000 0.00 0.00 0.00 2.73
4775 5200 6.591935 TGGTCAGTAGAATGTTTTGACTCTT 58.408 36.000 3.35 0.00 38.49 2.85
4777 5202 5.992217 ACTGGTCAGTAGAATGTTTTGACTC 59.008 40.000 1.24 0.00 40.43 3.36
4883 5308 7.214467 ACATATGTTGTTCTTGTTCGGAAAT 57.786 32.000 1.41 0.00 33.74 2.17
4898 5323 8.731275 TGAAGGGTTACAAGATACATATGTTG 57.269 34.615 14.77 8.67 41.25 3.33
4899 5324 9.747898 TTTGAAGGGTTACAAGATACATATGTT 57.252 29.630 14.77 1.88 0.00 2.71
4900 5325 9.396022 CTTTGAAGGGTTACAAGATACATATGT 57.604 33.333 13.93 13.93 0.00 2.29
5044 5473 4.013728 TGCTGTCAGTTTTAAACAGGTGT 58.986 39.130 10.60 0.00 40.57 4.16
5198 5630 6.419710 TGTTCTCAAAGTACGTGTATCAAGTG 59.580 38.462 0.00 0.00 0.00 3.16
5219 5651 5.519927 AGCAATTTTTGTGTACAAGCTGTTC 59.480 36.000 0.00 0.00 37.15 3.18
5272 5704 5.107109 TCAACATCGAACAATTGGTCTTG 57.893 39.130 20.81 18.71 0.00 3.02
5286 5718 3.403613 TGATTTCCGCATTCAACATCG 57.596 42.857 0.00 0.00 0.00 3.84
5625 6060 8.458573 AAGAAAATGACACCATTACTGTTACA 57.541 30.769 0.00 0.00 41.84 2.41


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

AutoCloner maintained by Alex Coulton.