Multiple sequence alignment - TraesCS6B01G327000

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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 TraesCS6B01G327000 chr6B 100.000 2616 0 0 1 2616 576607718 576610333 0.000000e+00 4831
1 TraesCS6B01G327000 chr6B 82.886 298 29 7 972 1256 576441493 576441781 5.590000e-62 248
2 TraesCS6B01G327000 chr6B 85.200 250 26 9 971 1210 576452903 576453151 2.010000e-61 246
3 TraesCS6B01G327000 chr6B 100.000 62 0 0 1 62 576471535 576471596 5.920000e-22 115
4 TraesCS6B01G327000 chr6D 94.211 1762 76 16 1 1743 386085902 386087656 0.000000e+00 2665
5 TraesCS6B01G327000 chr6D 92.462 398 25 3 1981 2376 386087791 386088185 4.890000e-157 564
6 TraesCS6B01G327000 chr6D 76.265 889 117 39 790 1626 386063484 386064330 1.140000e-103 387
7 TraesCS6B01G327000 chr6D 89.655 232 21 2 548 776 386063268 386063499 2.550000e-75 292
8 TraesCS6B01G327000 chr6D 84.892 278 29 10 971 1239 386068005 386068278 4.290000e-68 268
9 TraesCS6B01G327000 chr6A 93.574 1774 76 13 1 1743 530618268 530620034 0.000000e+00 2610
10 TraesCS6B01G327000 chr6A 92.839 391 23 2 1981 2368 530620154 530620542 1.760000e-156 562
11 TraesCS6B01G327000 chr6A 85.017 287 27 5 971 1245 530597478 530597760 7.130000e-71 278
12 TraesCS6B01G327000 chr6A 83.913 230 30 6 1401 1626 530500625 530500851 2.040000e-51 213
13 TraesCS6B01G327000 chr6A 89.815 108 8 2 672 776 528215307 528215414 4.540000e-28 135
14 TraesCS6B01G327000 chr6A 88.073 109 9 4 672 776 528432398 528432506 2.730000e-25 126
15 TraesCS6B01G327000 chr3A 99.583 240 1 0 2377 2616 527898072 527898311 3.090000e-119 438
16 TraesCS6B01G327000 chr3A 91.667 168 10 3 1740 1907 238686208 238686371 2.030000e-56 230
17 TraesCS6B01G327000 chr4B 99.167 240 2 0 2377 2616 612857805 612857566 1.440000e-117 433
18 TraesCS6B01G327000 chr4B 88.710 186 14 5 1728 1912 38025103 38025282 1.220000e-53 220
19 TraesCS6B01G327000 chr5D 94.012 167 8 2 1742 1907 242368098 242367933 4.320000e-63 252
20 TraesCS6B01G327000 chr3B 92.941 170 9 2 1738 1907 716148932 716149098 7.230000e-61 244
21 TraesCS6B01G327000 chr2B 92.771 166 8 3 1741 1906 154927716 154927555 1.210000e-58 237
22 TraesCS6B01G327000 chr3D 91.667 168 10 3 1740 1907 187836471 187836308 2.030000e-56 230
23 TraesCS6B01G327000 chr7D 90.751 173 12 3 1735 1907 382733637 382733805 7.280000e-56 228
24 TraesCS6B01G327000 chr7D 91.176 170 11 3 1739 1908 397555080 397554915 7.280000e-56 228
25 TraesCS6B01G327000 chr4A 89.831 177 14 3 1735 1910 244230197 244230024 9.420000e-55 224


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 TraesCS6B01G327000 chr6B 576607718 576610333 2615 False 4831.000000 4831 100.0000 1 2616 1 chr6B.!!$F4 2615
1 TraesCS6B01G327000 chr6D 386085902 386088185 2283 False 1614.500000 2665 93.3365 1 2376 2 chr6D.!!$F2 2375
2 TraesCS6B01G327000 chr6D 386063268 386068278 5010 False 315.666667 387 83.6040 548 1626 3 chr6D.!!$F1 1078
3 TraesCS6B01G327000 chr6A 530618268 530620542 2274 False 1586.000000 2610 93.2065 1 2368 2 chr6A.!!$F5 2367

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
220 222 0.321034 TGTTGAGCGATGCTTGAGCT 60.321 50.0 4.44 0.0 39.88 4.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1994 2617 1.128692 CCGATTTCTGTCAAACTCGGC 59.871 52.381 10.96 0.0 39.16 5.54 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
44 45 4.102524 TCAACAACAGTAGGGTCAGACAAT 59.897 41.667 2.17 0.00 0.00 2.71
47 48 3.963428 ACAGTAGGGTCAGACAATGTC 57.037 47.619 5.02 5.02 0.00 3.06
55 56 0.526211 TCAGACAATGTCGTCTCCCG 59.474 55.000 7.83 0.00 44.49 5.14
61 62 0.815734 AATGTCGTCTCCCGTGTAGG 59.184 55.000 0.00 0.00 37.94 3.18
90 92 3.552604 TTGGTGCGTATTCTCAAAAGC 57.447 42.857 0.00 0.00 0.00 3.51
158 160 3.771160 GGCAGGTGTCCGTCGGAT 61.771 66.667 18.75 0.00 32.73 4.18
210 212 1.208358 CTACGACGGTGTTGAGCGA 59.792 57.895 0.00 0.00 46.19 4.93
220 222 0.321034 TGTTGAGCGATGCTTGAGCT 60.321 50.000 4.44 0.00 39.88 4.09
226 228 2.699809 GATGCTTGAGCTGCGACG 59.300 61.111 4.44 0.00 42.66 5.12
248 251 2.440627 AGGTTTTGGTAGTCGGGTTTCT 59.559 45.455 0.00 0.00 0.00 2.52
266 269 2.983592 GGTGGGTTTGCGGGTCTG 60.984 66.667 0.00 0.00 0.00 3.51
359 365 2.591915 ACCTAGTGGTGGTGATCCG 58.408 57.895 0.00 0.00 46.51 4.18
556 563 1.847328 GGGGGTCGATGGTGAAATTT 58.153 50.000 0.00 0.00 0.00 1.82
573 580 2.163818 TTTAGTGACTTGCCACGAGG 57.836 50.000 0.00 0.00 41.67 4.63
630 637 1.261619 CATATTTCTTCTCGGCGGCAC 59.738 52.381 10.53 0.00 0.00 5.01
647 654 3.951115 ACGTGTTAAGCGTGAGTCA 57.049 47.368 4.47 0.00 41.33 3.41
670 677 4.697756 CATGCCGTCCGGTGGTGT 62.698 66.667 15.34 3.83 37.65 4.16
1185 1239 0.744281 CCGCCGCCCAGATAAAATTT 59.256 50.000 0.00 0.00 0.00 1.82
1245 1299 5.104360 TCCTTCCTTGGTTGATCCTCTTATG 60.104 44.000 0.00 0.00 37.07 1.90
1342 1417 1.518929 CGCTAGTTATTCAGCTCGTGC 59.481 52.381 0.07 0.07 35.57 5.34
1743 1838 8.732746 ACAGAACCTACATTGTTCCATTATAC 57.267 34.615 0.00 0.00 42.41 1.47
1744 1839 8.548877 ACAGAACCTACATTGTTCCATTATACT 58.451 33.333 0.00 0.00 42.41 2.12
1745 1840 9.046296 CAGAACCTACATTGTTCCATTATACTC 57.954 37.037 0.00 0.00 42.41 2.59
1746 1841 8.211629 AGAACCTACATTGTTCCATTATACTCC 58.788 37.037 0.00 0.00 42.41 3.85
1747 1842 6.838382 ACCTACATTGTTCCATTATACTCCC 58.162 40.000 0.00 0.00 0.00 4.30
1748 1843 6.619852 ACCTACATTGTTCCATTATACTCCCT 59.380 38.462 0.00 0.00 0.00 4.20
1749 1844 7.162082 CCTACATTGTTCCATTATACTCCCTC 58.838 42.308 0.00 0.00 0.00 4.30
1750 1845 5.941788 ACATTGTTCCATTATACTCCCTCC 58.058 41.667 0.00 0.00 0.00 4.30
1751 1846 4.682778 TTGTTCCATTATACTCCCTCCG 57.317 45.455 0.00 0.00 0.00 4.63
1752 1847 3.649843 TGTTCCATTATACTCCCTCCGT 58.350 45.455 0.00 0.00 0.00 4.69
1753 1848 4.035112 TGTTCCATTATACTCCCTCCGTT 58.965 43.478 0.00 0.00 0.00 4.44
1754 1849 4.100498 TGTTCCATTATACTCCCTCCGTTC 59.900 45.833 0.00 0.00 0.00 3.95
1755 1850 3.236896 TCCATTATACTCCCTCCGTTCC 58.763 50.000 0.00 0.00 0.00 3.62
1756 1851 3.116862 TCCATTATACTCCCTCCGTTCCT 60.117 47.826 0.00 0.00 0.00 3.36
1757 1852 4.106825 TCCATTATACTCCCTCCGTTCCTA 59.893 45.833 0.00 0.00 0.00 2.94
1758 1853 4.836736 CCATTATACTCCCTCCGTTCCTAA 59.163 45.833 0.00 0.00 0.00 2.69
1759 1854 5.306160 CCATTATACTCCCTCCGTTCCTAAA 59.694 44.000 0.00 0.00 0.00 1.85
1760 1855 6.013639 CCATTATACTCCCTCCGTTCCTAAAT 60.014 42.308 0.00 0.00 0.00 1.40
1761 1856 7.179694 CCATTATACTCCCTCCGTTCCTAAATA 59.820 40.741 0.00 0.00 0.00 1.40
1762 1857 8.759782 CATTATACTCCCTCCGTTCCTAAATAT 58.240 37.037 0.00 0.00 0.00 1.28
1764 1859 9.827198 TTATACTCCCTCCGTTCCTAAATATAA 57.173 33.333 0.00 0.00 0.00 0.98
1765 1860 6.667558 ACTCCCTCCGTTCCTAAATATAAG 57.332 41.667 0.00 0.00 0.00 1.73
1766 1861 6.141790 ACTCCCTCCGTTCCTAAATATAAGT 58.858 40.000 0.00 0.00 0.00 2.24
1767 1862 6.267242 ACTCCCTCCGTTCCTAAATATAAGTC 59.733 42.308 0.00 0.00 0.00 3.01
1768 1863 6.379579 TCCCTCCGTTCCTAAATATAAGTCT 58.620 40.000 0.00 0.00 0.00 3.24
1769 1864 6.842807 TCCCTCCGTTCCTAAATATAAGTCTT 59.157 38.462 0.00 0.00 0.00 3.01
1770 1865 7.346436 TCCCTCCGTTCCTAAATATAAGTCTTT 59.654 37.037 0.00 0.00 0.00 2.52
1771 1866 7.656542 CCCTCCGTTCCTAAATATAAGTCTTTC 59.343 40.741 0.00 0.00 0.00 2.62
1772 1867 8.422566 CCTCCGTTCCTAAATATAAGTCTTTCT 58.577 37.037 0.00 0.00 0.00 2.52
1790 1885 9.660180 AGTCTTTCTAAAGATTTCACTATGGAC 57.340 33.333 8.31 0.00 45.83 4.02
1791 1886 9.660180 GTCTTTCTAAAGATTTCACTATGGACT 57.340 33.333 8.31 0.00 45.83 3.85
1798 1893 8.873215 AAAGATTTCACTATGGACTACATACG 57.127 34.615 0.00 0.00 41.03 3.06
1799 1894 6.982852 AGATTTCACTATGGACTACATACGG 58.017 40.000 0.00 0.00 41.03 4.02
1800 1895 6.776116 AGATTTCACTATGGACTACATACGGA 59.224 38.462 0.00 0.00 41.03 4.69
1801 1896 6.971726 TTTCACTATGGACTACATACGGAT 57.028 37.500 0.00 0.00 41.03 4.18
1802 1897 5.959618 TCACTATGGACTACATACGGATG 57.040 43.478 5.94 5.94 41.03 3.51
1804 1899 6.536447 TCACTATGGACTACATACGGATGTA 58.464 40.000 19.32 19.32 44.77 2.29
1805 1900 7.173032 TCACTATGGACTACATACGGATGTAT 58.827 38.462 20.64 9.39 45.42 2.29
1806 1901 8.323567 TCACTATGGACTACATACGGATGTATA 58.676 37.037 20.64 10.04 45.42 1.47
1807 1902 9.121658 CACTATGGACTACATACGGATGTATAT 57.878 37.037 20.64 12.15 45.42 0.86
1812 1907 8.453320 TGGACTACATACGGATGTATATAAACG 58.547 37.037 20.64 9.79 45.42 3.60
1813 1908 8.454106 GGACTACATACGGATGTATATAAACGT 58.546 37.037 20.64 12.85 45.42 3.99
1834 1929 7.684937 ACGTAGTTTAGAGTGTAGATTCACT 57.315 36.000 0.00 0.00 45.46 3.41
1844 1939 6.793492 AGTGTAGATTCACTCTTTTTGCTC 57.207 37.500 0.00 0.00 44.07 4.26
1845 1940 5.406780 AGTGTAGATTCACTCTTTTTGCTCG 59.593 40.000 0.00 0.00 44.07 5.03
1846 1941 4.690748 TGTAGATTCACTCTTTTTGCTCGG 59.309 41.667 0.00 0.00 35.28 4.63
1847 1942 3.744660 AGATTCACTCTTTTTGCTCGGT 58.255 40.909 0.00 0.00 0.00 4.69
1848 1943 4.894784 AGATTCACTCTTTTTGCTCGGTA 58.105 39.130 0.00 0.00 0.00 4.02
1849 1944 5.491982 AGATTCACTCTTTTTGCTCGGTAT 58.508 37.500 0.00 0.00 0.00 2.73
1850 1945 5.352569 AGATTCACTCTTTTTGCTCGGTATG 59.647 40.000 0.00 0.00 0.00 2.39
1851 1946 4.002906 TCACTCTTTTTGCTCGGTATGT 57.997 40.909 0.00 0.00 0.00 2.29
1852 1947 5.142061 TCACTCTTTTTGCTCGGTATGTA 57.858 39.130 0.00 0.00 0.00 2.29
1853 1948 5.168569 TCACTCTTTTTGCTCGGTATGTAG 58.831 41.667 0.00 0.00 0.00 2.74
1854 1949 4.929808 CACTCTTTTTGCTCGGTATGTAGT 59.070 41.667 0.00 0.00 0.00 2.73
1855 1950 5.062308 CACTCTTTTTGCTCGGTATGTAGTC 59.938 44.000 0.00 0.00 0.00 2.59
1856 1951 5.047235 ACTCTTTTTGCTCGGTATGTAGTCT 60.047 40.000 0.00 0.00 0.00 3.24
1857 1952 5.790593 TCTTTTTGCTCGGTATGTAGTCTT 58.209 37.500 0.00 0.00 0.00 3.01
1858 1953 6.228258 TCTTTTTGCTCGGTATGTAGTCTTT 58.772 36.000 0.00 0.00 0.00 2.52
1859 1954 6.708949 TCTTTTTGCTCGGTATGTAGTCTTTT 59.291 34.615 0.00 0.00 0.00 2.27
1860 1955 7.874016 TCTTTTTGCTCGGTATGTAGTCTTTTA 59.126 33.333 0.00 0.00 0.00 1.52
1861 1956 8.556213 TTTTTGCTCGGTATGTAGTCTTTTAT 57.444 30.769 0.00 0.00 0.00 1.40
1862 1957 8.556213 TTTTGCTCGGTATGTAGTCTTTTATT 57.444 30.769 0.00 0.00 0.00 1.40
1863 1958 7.534085 TTGCTCGGTATGTAGTCTTTTATTG 57.466 36.000 0.00 0.00 0.00 1.90
1864 1959 6.046593 TGCTCGGTATGTAGTCTTTTATTGG 58.953 40.000 0.00 0.00 0.00 3.16
1865 1960 6.127281 TGCTCGGTATGTAGTCTTTTATTGGA 60.127 38.462 0.00 0.00 0.00 3.53
1866 1961 6.421202 GCTCGGTATGTAGTCTTTTATTGGAG 59.579 42.308 0.00 0.00 0.00 3.86
1867 1962 7.414222 TCGGTATGTAGTCTTTTATTGGAGT 57.586 36.000 0.00 0.00 0.00 3.85
1868 1963 7.486647 TCGGTATGTAGTCTTTTATTGGAGTC 58.513 38.462 0.00 0.00 0.00 3.36
1869 1964 7.341256 TCGGTATGTAGTCTTTTATTGGAGTCT 59.659 37.037 0.00 0.00 0.00 3.24
1870 1965 7.648510 CGGTATGTAGTCTTTTATTGGAGTCTC 59.351 40.741 0.00 0.00 0.00 3.36
1871 1966 8.697292 GGTATGTAGTCTTTTATTGGAGTCTCT 58.303 37.037 0.00 0.00 0.00 3.10
1901 1996 8.350852 AGACATAGTATATTTAGGAACGGAGG 57.649 38.462 0.00 0.00 0.00 4.30
1902 1997 7.396623 AGACATAGTATATTTAGGAACGGAGGG 59.603 40.741 0.00 0.00 0.00 4.30
1903 1998 7.243824 ACATAGTATATTTAGGAACGGAGGGA 58.756 38.462 0.00 0.00 0.00 4.20
1904 1999 7.396623 ACATAGTATATTTAGGAACGGAGGGAG 59.603 40.741 0.00 0.00 0.00 4.30
1905 2000 5.713807 AGTATATTTAGGAACGGAGGGAGT 58.286 41.667 0.00 0.00 0.00 3.85
1906 2001 6.856757 AGTATATTTAGGAACGGAGGGAGTA 58.143 40.000 0.00 0.00 0.00 2.59
1914 2009 3.259902 GAACGGAGGGAGTATTTGTCAC 58.740 50.000 0.00 0.00 0.00 3.67
1973 2068 2.100916 TCTACTGCATTTAGACTCGGGC 59.899 50.000 1.84 0.00 0.00 6.13
1994 2617 4.051237 GCTTTTGGTAAAGGCAGTTCAAG 58.949 43.478 3.89 0.00 42.41 3.02
2143 4157 5.585844 CCAACTACATGCATCAGTATCACAA 59.414 40.000 10.20 0.00 0.00 3.33
2209 4223 4.472691 TCAAAATTGAGAAGAGCACACG 57.527 40.909 0.00 0.00 32.50 4.49
2228 4242 0.165944 GTTTGTCGTCTGATTGCCGG 59.834 55.000 0.00 0.00 0.00 6.13
2277 4292 1.831286 AGTGCCTGCTTGCTGCTTT 60.831 52.632 0.00 0.00 43.37 3.51
2287 4302 2.415224 GCTTGCTGCTTTTTCTCCTAGC 60.415 50.000 0.00 0.00 38.95 3.42
2342 4358 5.798125 TTTGACATTCATGCAAAAGGGTA 57.202 34.783 0.00 0.00 33.88 3.69
2376 4649 8.958175 TTTCGCAAATGTAAACAGTATAAAGG 57.042 30.769 0.00 0.00 0.00 3.11
2379 4652 7.604927 TCGCAAATGTAAACAGTATAAAGGAGT 59.395 33.333 0.00 0.00 0.00 3.85
2380 4653 8.234546 CGCAAATGTAAACAGTATAAAGGAGTT 58.765 33.333 0.00 0.00 0.00 3.01
2381 4654 9.341899 GCAAATGTAAACAGTATAAAGGAGTTG 57.658 33.333 0.00 0.00 0.00 3.16
2387 4660 2.351726 CAGTATAAAGGAGTTGTGGCGC 59.648 50.000 0.00 0.00 0.00 6.53
2388 4661 1.669265 GTATAAAGGAGTTGTGGCGCC 59.331 52.381 22.73 22.73 0.00 6.53
2390 4663 4.938939 TATAAAGGAGTTGTGGCGCCGG 62.939 54.545 23.90 0.00 33.40 6.13
2403 4676 4.733542 GCCGGCTGCAACCCCTTA 62.734 66.667 22.15 0.00 40.77 2.69
2404 4677 2.750237 CCGGCTGCAACCCCTTAC 60.750 66.667 0.00 0.00 0.00 2.34
2405 4678 3.124921 CGGCTGCAACCCCTTACG 61.125 66.667 0.00 0.00 0.00 3.18
2406 4679 3.440415 GGCTGCAACCCCTTACGC 61.440 66.667 0.50 0.00 0.00 4.42
2407 4680 2.359975 GCTGCAACCCCTTACGCT 60.360 61.111 0.00 0.00 0.00 5.07
2408 4681 2.399356 GCTGCAACCCCTTACGCTC 61.399 63.158 0.00 0.00 0.00 5.03
2409 4682 1.003839 CTGCAACCCCTTACGCTCA 60.004 57.895 0.00 0.00 0.00 4.26
2410 4683 0.392998 CTGCAACCCCTTACGCTCAT 60.393 55.000 0.00 0.00 0.00 2.90
2411 4684 0.392461 TGCAACCCCTTACGCTCATC 60.392 55.000 0.00 0.00 0.00 2.92
2413 4686 0.174845 CAACCCCTTACGCTCATCGA 59.825 55.000 0.00 0.00 41.67 3.59
2414 4687 1.120530 AACCCCTTACGCTCATCGAT 58.879 50.000 0.00 0.00 41.67 3.59
2416 4689 0.673985 CCCCTTACGCTCATCGATCA 59.326 55.000 0.00 0.00 41.67 2.92
2417 4690 1.336332 CCCCTTACGCTCATCGATCAG 60.336 57.143 0.00 0.00 41.67 2.90
2418 4691 1.413382 CCTTACGCTCATCGATCAGC 58.587 55.000 11.77 11.77 41.67 4.26
2420 4693 0.317854 TTACGCTCATCGATCAGCCG 60.318 55.000 16.13 12.90 41.67 5.52
2422 4695 2.730733 GCTCATCGATCAGCCGGA 59.269 61.111 10.60 0.00 0.00 5.14
2424 4697 1.006805 CTCATCGATCAGCCGGACC 60.007 63.158 5.05 0.00 0.00 4.46
2426 4699 4.286320 ATCGATCAGCCGGACCGC 62.286 66.667 5.05 4.11 0.00 5.68
2429 4702 4.162690 GATCAGCCGGACCGCCTT 62.163 66.667 5.05 0.00 0.00 4.35
2430 4703 4.162690 ATCAGCCGGACCGCCTTC 62.163 66.667 5.05 0.00 0.00 3.46
2444 4717 2.743928 CTTCTGTGGCGCTGGACC 60.744 66.667 7.64 0.00 0.00 4.46
2447 4720 4.680237 CTGTGGCGCTGGACCGAA 62.680 66.667 7.64 0.00 0.00 4.30
2449 4722 2.975799 GTGGCGCTGGACCGAAAA 60.976 61.111 7.64 0.00 0.00 2.29
2451 4724 4.084888 GGCGCTGGACCGAAAACG 62.085 66.667 7.64 0.00 0.00 3.60
2452 4725 4.084888 GCGCTGGACCGAAAACGG 62.085 66.667 0.00 7.12 0.00 4.44
2454 4727 2.975799 GCTGGACCGAAAACGGCA 60.976 61.111 8.59 0.00 36.53 5.69
2455 4728 2.943653 CTGGACCGAAAACGGCAC 59.056 61.111 8.59 2.82 0.00 5.01
2456 4729 2.592287 TGGACCGAAAACGGCACC 60.592 61.111 8.59 12.20 0.00 5.01
2457 4730 2.281276 GGACCGAAAACGGCACCT 60.281 61.111 8.59 0.00 0.00 4.00
2458 4731 1.004679 GGACCGAAAACGGCACCTA 60.005 57.895 8.59 0.00 0.00 3.08
2468 4821 2.281900 GGCACCTACACCGCCAAA 60.282 61.111 0.00 0.00 45.52 3.28
2472 4825 1.821216 CACCTACACCGCCAAATCTT 58.179 50.000 0.00 0.00 0.00 2.40
2473 4826 1.468520 CACCTACACCGCCAAATCTTG 59.531 52.381 0.00 0.00 0.00 3.02
2475 4828 1.453155 CTACACCGCCAAATCTTGCT 58.547 50.000 0.00 0.00 0.00 3.91
2476 4829 2.627945 CTACACCGCCAAATCTTGCTA 58.372 47.619 0.00 0.00 0.00 3.49
2478 4831 1.164411 CACCGCCAAATCTTGCTACA 58.836 50.000 0.00 0.00 0.00 2.74
2479 4832 1.745087 CACCGCCAAATCTTGCTACAT 59.255 47.619 0.00 0.00 0.00 2.29
2481 4834 1.066002 CCGCCAAATCTTGCTACATGG 59.934 52.381 0.00 0.00 0.00 3.66
2482 4835 2.214387 GCCAAATCTTGCTACATGGC 57.786 50.000 0.00 0.00 45.54 4.40
2484 4837 3.705043 CCAAATCTTGCTACATGGCTC 57.295 47.619 0.00 0.00 0.00 4.70
2485 4838 3.285484 CCAAATCTTGCTACATGGCTCT 58.715 45.455 0.00 0.00 0.00 4.09
2487 4840 4.197750 CAAATCTTGCTACATGGCTCTCT 58.802 43.478 0.00 0.00 0.00 3.10
2490 4843 2.159184 TCTTGCTACATGGCTCTCTTCG 60.159 50.000 0.00 0.00 0.00 3.79
2491 4844 0.179100 TGCTACATGGCTCTCTTCGC 60.179 55.000 0.00 0.00 0.00 4.70
2497 4850 4.882396 GGCTCTCTTCGCCGGCTC 62.882 72.222 26.68 0.00 37.87 4.70
2498 4851 4.882396 GCTCTCTTCGCCGGCTCC 62.882 72.222 26.68 0.00 0.00 4.70
2499 4852 4.560856 CTCTCTTCGCCGGCTCCG 62.561 72.222 26.68 9.50 39.44 4.63
2524 4877 2.343758 TCCGCACTGGAAGCTCAC 59.656 61.111 0.00 0.00 46.38 3.51
2525 4878 2.743928 CCGCACTGGAAGCTCACC 60.744 66.667 3.32 3.32 42.00 4.02
2526 4879 2.345244 CGCACTGGAAGCTCACCT 59.655 61.111 10.53 0.00 37.60 4.00
2527 4880 2.031516 CGCACTGGAAGCTCACCTG 61.032 63.158 12.73 12.73 37.60 4.00
2528 4881 1.673665 GCACTGGAAGCTCACCTGG 60.674 63.158 16.66 0.00 37.60 4.45
2529 4882 1.673665 CACTGGAAGCTCACCTGGC 60.674 63.158 16.66 0.00 37.60 4.85
2530 4883 2.435586 CTGGAAGCTCACCTGGCG 60.436 66.667 10.53 0.00 34.52 5.69
2533 4886 2.435059 GAAGCTCACCTGGCGGTC 60.435 66.667 0.00 0.00 43.24 4.79
2534 4887 3.959991 GAAGCTCACCTGGCGGTCC 62.960 68.421 0.00 0.00 43.24 4.46
2536 4889 4.767255 GCTCACCTGGCGGTCCTG 62.767 72.222 0.00 0.00 43.24 3.86
2561 4914 2.879826 CCATTGCGGGTGAAATTCTTC 58.120 47.619 0.00 0.00 0.00 2.87
2563 4916 0.239879 TTGCGGGTGAAATTCTTCGC 59.760 50.000 16.23 16.23 40.68 4.70
2565 4918 0.521735 GCGGGTGAAATTCTTCGCTT 59.478 50.000 15.97 0.00 41.10 4.68
2566 4919 1.729149 GCGGGTGAAATTCTTCGCTTG 60.729 52.381 15.97 2.82 41.10 4.01
2567 4920 1.135689 CGGGTGAAATTCTTCGCTTGG 60.136 52.381 0.00 0.00 41.10 3.61
2568 4921 1.402852 GGGTGAAATTCTTCGCTTGGC 60.403 52.381 0.00 0.00 41.10 4.52
2569 4922 1.541588 GGTGAAATTCTTCGCTTGGCT 59.458 47.619 0.00 0.00 41.10 4.75
2570 4923 2.029918 GGTGAAATTCTTCGCTTGGCTT 60.030 45.455 0.00 0.00 41.10 4.35
2571 4924 2.982470 GTGAAATTCTTCGCTTGGCTTG 59.018 45.455 0.00 0.00 38.74 4.01
2572 4925 1.988467 GAAATTCTTCGCTTGGCTTGC 59.012 47.619 0.00 0.00 0.00 4.01
2573 4926 1.251251 AATTCTTCGCTTGGCTTGCT 58.749 45.000 0.00 0.00 0.00 3.91
2574 4927 0.807496 ATTCTTCGCTTGGCTTGCTC 59.193 50.000 0.00 0.00 0.00 4.26
2575 4928 0.250467 TTCTTCGCTTGGCTTGCTCT 60.250 50.000 0.00 0.00 0.00 4.09
2576 4929 0.671781 TCTTCGCTTGGCTTGCTCTC 60.672 55.000 0.00 0.00 0.00 3.20
2577 4930 1.642952 CTTCGCTTGGCTTGCTCTCC 61.643 60.000 0.00 0.00 0.00 3.71
2579 4932 1.968017 CGCTTGGCTTGCTCTCCAA 60.968 57.895 4.54 4.54 39.81 3.53
2588 4941 0.250467 TTGCTCTCCAAGACAGGTGC 60.250 55.000 0.00 0.00 0.00 5.01
2589 4942 1.123861 TGCTCTCCAAGACAGGTGCT 61.124 55.000 0.00 0.00 0.00 4.40
2590 4943 0.673022 GCTCTCCAAGACAGGTGCTG 60.673 60.000 0.00 0.00 37.52 4.41
2591 4944 0.036577 CTCTCCAAGACAGGTGCTGG 60.037 60.000 0.00 0.00 35.51 4.85
2592 4945 0.471780 TCTCCAAGACAGGTGCTGGA 60.472 55.000 0.00 0.00 35.51 3.86
2593 4946 0.321122 CTCCAAGACAGGTGCTGGAC 60.321 60.000 0.00 0.00 35.51 4.02
2594 4947 1.669115 CCAAGACAGGTGCTGGACG 60.669 63.158 0.00 0.00 35.51 4.79
2595 4948 1.669115 CAAGACAGGTGCTGGACGG 60.669 63.158 0.00 0.00 35.51 4.79
2596 4949 3.537206 AAGACAGGTGCTGGACGGC 62.537 63.158 0.00 0.00 35.51 5.68
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 3.321111 GTCTGACCCTACTGTTGTTGAGA 59.679 47.826 0.00 0.00 0.00 3.27
55 56 0.404426 ACCAAAGGGAAGGCCTACAC 59.596 55.000 5.16 0.00 38.05 2.90
61 62 0.679960 ATACGCACCAAAGGGAAGGC 60.680 55.000 0.00 0.00 38.05 4.35
90 92 0.107703 TATGCGCAAGAAGGTCAGGG 60.108 55.000 17.11 0.00 43.02 4.45
158 160 1.302431 CCACGCCAACTCCACATCA 60.302 57.895 0.00 0.00 0.00 3.07
210 212 1.808799 CTCGTCGCAGCTCAAGCAT 60.809 57.895 4.59 0.00 45.16 3.79
220 222 0.390124 ACTACCAAAACCTCGTCGCA 59.610 50.000 0.00 0.00 0.00 5.10
226 228 2.556144 AACCCGACTACCAAAACCTC 57.444 50.000 0.00 0.00 0.00 3.85
248 251 3.494254 AGACCCGCAAACCCACCA 61.494 61.111 0.00 0.00 0.00 4.17
359 365 0.039798 CAATGCCTATGTGCCGCATC 60.040 55.000 0.00 0.00 42.26 3.91
370 376 5.199723 TGGAAGACAAATATGCAATGCCTA 58.800 37.500 1.53 0.00 0.00 3.93
373 379 5.277154 GCAATGGAAGACAAATATGCAATGC 60.277 40.000 0.00 0.00 32.34 3.56
431 437 1.453197 CAAATAGCCGGACACCCCC 60.453 63.158 5.05 0.00 0.00 5.40
461 468 1.238439 AAGCCACACAAGAATCCACG 58.762 50.000 0.00 0.00 0.00 4.94
556 563 1.913778 TACCTCGTGGCAAGTCACTA 58.086 50.000 2.76 0.00 35.63 2.74
573 580 7.254117 CGGAACAAGTGTCATCATCATACTTAC 60.254 40.741 0.00 0.00 31.01 2.34
630 637 1.452025 CACTGACTCACGCTTAACACG 59.548 52.381 0.00 0.00 0.00 4.49
639 646 2.393768 GCATGGGCACTGACTCACG 61.394 63.158 0.00 0.00 40.72 4.35
643 650 3.612247 GACGGCATGGGCACTGACT 62.612 63.158 0.00 0.00 43.71 3.41
644 651 3.127533 GACGGCATGGGCACTGAC 61.128 66.667 0.00 0.00 43.71 3.51
1105 1150 4.554036 GTCCCCCTGGATCGCTGC 62.554 72.222 0.00 0.00 44.28 5.25
1124 1169 2.513897 CCATCCCGCGGAAGGAAC 60.514 66.667 30.73 0.00 42.60 3.62
1185 1239 4.622933 CGTACCCTGATGAAGATTGACCAA 60.623 45.833 0.00 0.00 0.00 3.67
1245 1299 3.191581 TGTCAACTCTGCAGAGCTAGTAC 59.808 47.826 37.78 27.52 45.79 2.73
1342 1417 4.943093 TGCCGATTCCCATCATACATAATG 59.057 41.667 0.00 0.00 36.88 1.90
1743 1838 6.494146 AGACTTATATTTAGGAACGGAGGGAG 59.506 42.308 0.00 0.00 0.00 4.30
1744 1839 6.379579 AGACTTATATTTAGGAACGGAGGGA 58.620 40.000 0.00 0.00 0.00 4.20
1745 1840 6.667558 AGACTTATATTTAGGAACGGAGGG 57.332 41.667 0.00 0.00 0.00 4.30
1746 1841 8.422566 AGAAAGACTTATATTTAGGAACGGAGG 58.577 37.037 0.00 0.00 0.00 4.30
1764 1859 9.660180 GTCCATAGTGAAATCTTTAGAAAGACT 57.340 33.333 6.85 3.32 46.80 3.24
1765 1860 9.660180 AGTCCATAGTGAAATCTTTAGAAAGAC 57.340 33.333 6.85 0.00 46.80 3.01
1772 1867 9.961265 CGTATGTAGTCCATAGTGAAATCTTTA 57.039 33.333 0.00 0.00 36.71 1.85
1773 1868 7.926555 CCGTATGTAGTCCATAGTGAAATCTTT 59.073 37.037 0.00 0.00 36.71 2.52
1774 1869 7.287005 TCCGTATGTAGTCCATAGTGAAATCTT 59.713 37.037 0.00 0.00 36.71 2.40
1775 1870 6.776116 TCCGTATGTAGTCCATAGTGAAATCT 59.224 38.462 0.00 0.00 36.71 2.40
1776 1871 6.978338 TCCGTATGTAGTCCATAGTGAAATC 58.022 40.000 0.00 0.00 36.71 2.17
1777 1872 6.971726 TCCGTATGTAGTCCATAGTGAAAT 57.028 37.500 0.00 0.00 36.71 2.17
1778 1873 6.322969 ACATCCGTATGTAGTCCATAGTGAAA 59.677 38.462 0.00 0.00 44.66 2.69
1779 1874 5.831525 ACATCCGTATGTAGTCCATAGTGAA 59.168 40.000 0.00 0.00 44.66 3.18
1780 1875 5.382616 ACATCCGTATGTAGTCCATAGTGA 58.617 41.667 0.00 0.00 44.66 3.41
1781 1876 5.707242 ACATCCGTATGTAGTCCATAGTG 57.293 43.478 0.00 0.00 44.66 2.74
1807 1902 9.831737 GTGAATCTACACTCTAAACTACGTTTA 57.168 33.333 0.00 0.01 36.29 2.01
1808 1903 8.574737 AGTGAATCTACACTCTAAACTACGTTT 58.425 33.333 0.00 0.00 46.36 3.60
1809 1904 8.108551 AGTGAATCTACACTCTAAACTACGTT 57.891 34.615 0.00 0.00 46.36 3.99
1810 1905 7.684937 AGTGAATCTACACTCTAAACTACGT 57.315 36.000 0.00 0.00 46.36 3.57
1822 1917 5.389935 CCGAGCAAAAAGAGTGAATCTACAC 60.390 44.000 0.00 0.00 37.23 2.90
1823 1918 4.690748 CCGAGCAAAAAGAGTGAATCTACA 59.309 41.667 0.00 0.00 37.23 2.74
1824 1919 4.691216 ACCGAGCAAAAAGAGTGAATCTAC 59.309 41.667 0.00 0.00 37.23 2.59
1825 1920 4.894784 ACCGAGCAAAAAGAGTGAATCTA 58.105 39.130 0.00 0.00 37.23 1.98
1826 1921 3.744660 ACCGAGCAAAAAGAGTGAATCT 58.255 40.909 0.00 0.00 41.27 2.40
1827 1922 5.122396 ACATACCGAGCAAAAAGAGTGAATC 59.878 40.000 0.00 0.00 0.00 2.52
1828 1923 5.003804 ACATACCGAGCAAAAAGAGTGAAT 58.996 37.500 0.00 0.00 0.00 2.57
1829 1924 4.385825 ACATACCGAGCAAAAAGAGTGAA 58.614 39.130 0.00 0.00 0.00 3.18
1830 1925 4.002906 ACATACCGAGCAAAAAGAGTGA 57.997 40.909 0.00 0.00 0.00 3.41
1831 1926 4.929808 ACTACATACCGAGCAAAAAGAGTG 59.070 41.667 0.00 0.00 0.00 3.51
1832 1927 5.047235 AGACTACATACCGAGCAAAAAGAGT 60.047 40.000 0.00 0.00 0.00 3.24
1833 1928 5.411781 AGACTACATACCGAGCAAAAAGAG 58.588 41.667 0.00 0.00 0.00 2.85
1834 1929 5.401531 AGACTACATACCGAGCAAAAAGA 57.598 39.130 0.00 0.00 0.00 2.52
1835 1930 6.481954 AAAGACTACATACCGAGCAAAAAG 57.518 37.500 0.00 0.00 0.00 2.27
1836 1931 6.870971 AAAAGACTACATACCGAGCAAAAA 57.129 33.333 0.00 0.00 0.00 1.94
1837 1932 8.447833 CAATAAAAGACTACATACCGAGCAAAA 58.552 33.333 0.00 0.00 0.00 2.44
1838 1933 7.065324 CCAATAAAAGACTACATACCGAGCAAA 59.935 37.037 0.00 0.00 0.00 3.68
1839 1934 6.537301 CCAATAAAAGACTACATACCGAGCAA 59.463 38.462 0.00 0.00 0.00 3.91
1840 1935 6.046593 CCAATAAAAGACTACATACCGAGCA 58.953 40.000 0.00 0.00 0.00 4.26
1841 1936 6.278363 TCCAATAAAAGACTACATACCGAGC 58.722 40.000 0.00 0.00 0.00 5.03
1842 1937 7.490000 ACTCCAATAAAAGACTACATACCGAG 58.510 38.462 0.00 0.00 0.00 4.63
1843 1938 7.341256 AGACTCCAATAAAAGACTACATACCGA 59.659 37.037 0.00 0.00 0.00 4.69
1844 1939 7.490000 AGACTCCAATAAAAGACTACATACCG 58.510 38.462 0.00 0.00 0.00 4.02
1845 1940 8.697292 AGAGACTCCAATAAAAGACTACATACC 58.303 37.037 0.00 0.00 0.00 2.73
1875 1970 8.804204 CCTCCGTTCCTAAATATACTATGTCTT 58.196 37.037 0.00 0.00 0.00 3.01
1876 1971 7.396623 CCCTCCGTTCCTAAATATACTATGTCT 59.603 40.741 0.00 0.00 0.00 3.41
1877 1972 7.395489 TCCCTCCGTTCCTAAATATACTATGTC 59.605 40.741 0.00 0.00 0.00 3.06
1878 1973 7.243824 TCCCTCCGTTCCTAAATATACTATGT 58.756 38.462 0.00 0.00 0.00 2.29
1879 1974 7.396623 ACTCCCTCCGTTCCTAAATATACTATG 59.603 40.741 0.00 0.00 0.00 2.23
1880 1975 7.477008 ACTCCCTCCGTTCCTAAATATACTAT 58.523 38.462 0.00 0.00 0.00 2.12
1881 1976 6.856757 ACTCCCTCCGTTCCTAAATATACTA 58.143 40.000 0.00 0.00 0.00 1.82
1882 1977 5.713807 ACTCCCTCCGTTCCTAAATATACT 58.286 41.667 0.00 0.00 0.00 2.12
1883 1978 7.715266 ATACTCCCTCCGTTCCTAAATATAC 57.285 40.000 0.00 0.00 0.00 1.47
1884 1979 8.591072 CAAATACTCCCTCCGTTCCTAAATATA 58.409 37.037 0.00 0.00 0.00 0.86
1885 1980 7.072076 ACAAATACTCCCTCCGTTCCTAAATAT 59.928 37.037 0.00 0.00 0.00 1.28
1886 1981 6.384886 ACAAATACTCCCTCCGTTCCTAAATA 59.615 38.462 0.00 0.00 0.00 1.40
1887 1982 5.191124 ACAAATACTCCCTCCGTTCCTAAAT 59.809 40.000 0.00 0.00 0.00 1.40
1888 1983 4.533311 ACAAATACTCCCTCCGTTCCTAAA 59.467 41.667 0.00 0.00 0.00 1.85
1889 1984 4.098894 ACAAATACTCCCTCCGTTCCTAA 58.901 43.478 0.00 0.00 0.00 2.69
1890 1985 3.703052 GACAAATACTCCCTCCGTTCCTA 59.297 47.826 0.00 0.00 0.00 2.94
1891 1986 2.500504 GACAAATACTCCCTCCGTTCCT 59.499 50.000 0.00 0.00 0.00 3.36
1892 1987 2.235402 TGACAAATACTCCCTCCGTTCC 59.765 50.000 0.00 0.00 0.00 3.62
1893 1988 3.259902 GTGACAAATACTCCCTCCGTTC 58.740 50.000 0.00 0.00 0.00 3.95
1894 1989 2.027469 GGTGACAAATACTCCCTCCGTT 60.027 50.000 0.00 0.00 0.00 4.44
1895 1990 1.553704 GGTGACAAATACTCCCTCCGT 59.446 52.381 0.00 0.00 0.00 4.69
1896 1991 1.553248 TGGTGACAAATACTCCCTCCG 59.447 52.381 0.00 0.00 37.44 4.63
1914 2009 3.314635 GCAAACCTGAGATAGCAGAATGG 59.685 47.826 0.00 0.00 38.14 3.16
1973 2068 4.051237 GCTTGAACTGCCTTTACCAAAAG 58.949 43.478 0.00 0.00 41.57 2.27
1994 2617 1.128692 CCGATTTCTGTCAAACTCGGC 59.871 52.381 10.96 0.00 39.16 5.54
2015 2638 7.125792 AGATAATTGAAGTACATTCGGACCT 57.874 36.000 0.00 0.00 41.14 3.85
2143 4157 5.467035 TTCGGGCTTCTTTGAAATGAATT 57.533 34.783 0.00 0.00 0.00 2.17
2175 4189 2.743126 CAATTTTGAATGTGGCCGCAAT 59.257 40.909 25.33 16.41 0.00 3.56
2228 4242 3.614159 TTCATGCAAGAAGATATGCGC 57.386 42.857 0.00 0.00 45.47 6.09
2231 4245 4.976731 GCTGCTTTCATGCAAGAAGATATG 59.023 41.667 16.46 0.00 42.83 1.78
2232 4246 4.888239 AGCTGCTTTCATGCAAGAAGATAT 59.112 37.500 16.46 0.00 42.83 1.63
2277 4292 6.015010 GGTGAGATATAAGCAGCTAGGAGAAA 60.015 42.308 0.00 0.00 0.00 2.52
2287 4302 4.630644 ATGGTGGGTGAGATATAAGCAG 57.369 45.455 0.00 0.00 0.00 4.24
2342 4358 8.635877 TGTTTACATTTGCGAAATTTGTACTT 57.364 26.923 0.00 0.00 0.00 2.24
2387 4660 2.750237 GTAAGGGGTTGCAGCCGG 60.750 66.667 13.95 0.00 36.39 6.13
2388 4661 3.124921 CGTAAGGGGTTGCAGCCG 61.125 66.667 13.95 0.00 36.39 5.52
2390 4663 2.359975 AGCGTAAGGGGTTGCAGC 60.360 61.111 0.00 0.00 38.28 5.25
2391 4664 0.392998 ATGAGCGTAAGGGGTTGCAG 60.393 55.000 0.00 0.00 38.28 4.41
2392 4665 0.392461 GATGAGCGTAAGGGGTTGCA 60.392 55.000 0.00 0.00 38.28 4.08
2393 4666 1.429148 CGATGAGCGTAAGGGGTTGC 61.429 60.000 0.00 0.00 38.28 4.17
2394 4667 0.174845 TCGATGAGCGTAAGGGGTTG 59.825 55.000 0.00 0.00 41.80 3.77
2396 4669 0.674534 GATCGATGAGCGTAAGGGGT 59.325 55.000 0.54 0.00 41.80 4.95
2398 4671 1.932604 GCTGATCGATGAGCGTAAGGG 60.933 57.143 20.99 0.00 41.80 3.95
2399 4672 1.413382 GCTGATCGATGAGCGTAAGG 58.587 55.000 20.99 0.00 41.80 2.69
2400 4673 1.413382 GGCTGATCGATGAGCGTAAG 58.587 55.000 26.94 0.00 37.94 2.34
2402 4675 1.282875 CGGCTGATCGATGAGCGTA 59.717 57.895 26.94 0.00 37.94 4.42
2403 4676 2.026734 CGGCTGATCGATGAGCGT 59.973 61.111 26.94 0.00 37.94 5.07
2404 4677 2.732468 CCGGCTGATCGATGAGCG 60.732 66.667 26.94 21.44 37.94 5.03
2405 4678 1.663074 GTCCGGCTGATCGATGAGC 60.663 63.158 26.33 26.33 36.23 4.26
2406 4679 1.006805 GGTCCGGCTGATCGATGAG 60.007 63.158 7.60 7.60 0.00 2.90
2407 4680 3.129300 GGTCCGGCTGATCGATGA 58.871 61.111 0.54 0.00 0.00 2.92
2418 4691 4.760047 CCACAGAAGGCGGTCCGG 62.760 72.222 14.38 0.00 37.47 5.14
2426 4699 2.743928 GTCCAGCGCCACAGAAGG 60.744 66.667 2.29 0.00 0.00 3.46
2427 4700 2.743928 GGTCCAGCGCCACAGAAG 60.744 66.667 2.29 0.00 0.00 2.85
2428 4701 4.680237 CGGTCCAGCGCCACAGAA 62.680 66.667 2.29 0.00 0.00 3.02
2430 4703 4.680237 TTCGGTCCAGCGCCACAG 62.680 66.667 2.29 0.00 0.00 3.66
2431 4704 3.758973 TTTTCGGTCCAGCGCCACA 62.759 57.895 2.29 0.00 0.00 4.17
2433 4706 2.975799 GTTTTCGGTCCAGCGCCA 60.976 61.111 2.29 0.00 0.00 5.69
2434 4707 4.084888 CGTTTTCGGTCCAGCGCC 62.085 66.667 2.29 0.00 39.94 6.53
2444 4717 1.864176 GGTGTAGGTGCCGTTTTCG 59.136 57.895 0.00 0.00 43.67 3.46
2446 4719 4.052519 CGGTGTAGGTGCCGTTTT 57.947 55.556 0.00 0.00 42.73 2.43
2452 4725 0.676782 AGATTTGGCGGTGTAGGTGC 60.677 55.000 0.00 0.00 0.00 5.01
2454 4727 1.821216 CAAGATTTGGCGGTGTAGGT 58.179 50.000 0.00 0.00 0.00 3.08
2455 4728 0.451783 GCAAGATTTGGCGGTGTAGG 59.548 55.000 0.00 0.00 0.00 3.18
2456 4729 1.453155 AGCAAGATTTGGCGGTGTAG 58.547 50.000 0.00 0.00 34.54 2.74
2457 4730 2.289756 TGTAGCAAGATTTGGCGGTGTA 60.290 45.455 0.00 0.00 34.54 2.90
2458 4731 1.165270 GTAGCAAGATTTGGCGGTGT 58.835 50.000 0.00 0.00 34.54 4.16
2468 4821 3.492309 CGAAGAGAGCCATGTAGCAAGAT 60.492 47.826 0.00 0.00 34.23 2.40
2472 4825 0.179100 GCGAAGAGAGCCATGTAGCA 60.179 55.000 0.00 0.00 34.23 3.49
2473 4826 2.599216 GCGAAGAGAGCCATGTAGC 58.401 57.895 0.00 0.00 0.00 3.58
2481 4834 4.882396 GGAGCCGGCGAAGAGAGC 62.882 72.222 23.20 0.94 0.00 4.09
2482 4835 4.560856 CGGAGCCGGCGAAGAGAG 62.561 72.222 23.20 5.73 35.56 3.20
2507 4860 2.343758 GTGAGCTTCCAGTGCGGA 59.656 61.111 0.00 0.00 44.40 5.54
2508 4861 2.743928 GGTGAGCTTCCAGTGCGG 60.744 66.667 0.00 0.00 35.28 5.69
2509 4862 2.031516 CAGGTGAGCTTCCAGTGCG 61.032 63.158 10.72 0.00 35.28 5.34
2511 4864 1.673665 GCCAGGTGAGCTTCCAGTG 60.674 63.158 10.72 2.56 0.00 3.66
2513 4866 2.435586 CGCCAGGTGAGCTTCCAG 60.436 66.667 10.72 3.61 0.00 3.86
2540 4893 0.532115 AGAATTTCACCCGCAATGGC 59.468 50.000 0.00 0.00 35.87 4.40
2542 4895 2.518949 CGAAGAATTTCACCCGCAATG 58.481 47.619 0.00 0.00 32.67 2.82
2544 4897 0.239879 GCGAAGAATTTCACCCGCAA 59.760 50.000 18.39 0.00 41.89 4.85
2546 4899 0.521735 AAGCGAAGAATTTCACCCGC 59.478 50.000 16.70 16.70 42.52 6.13
2547 4900 1.135689 CCAAGCGAAGAATTTCACCCG 60.136 52.381 0.00 0.64 32.67 5.28
2549 4902 1.541588 AGCCAAGCGAAGAATTTCACC 59.458 47.619 0.00 0.00 32.67 4.02
2550 4903 2.982470 CAAGCCAAGCGAAGAATTTCAC 59.018 45.455 0.00 0.00 32.67 3.18
2551 4904 2.607771 GCAAGCCAAGCGAAGAATTTCA 60.608 45.455 0.00 0.00 32.67 2.69
2552 4905 1.988467 GCAAGCCAAGCGAAGAATTTC 59.012 47.619 0.00 0.00 0.00 2.17
2553 4906 1.615392 AGCAAGCCAAGCGAAGAATTT 59.385 42.857 0.00 0.00 37.01 1.82
2555 4908 0.807496 GAGCAAGCCAAGCGAAGAAT 59.193 50.000 0.00 0.00 37.01 2.40
2556 4909 0.250467 AGAGCAAGCCAAGCGAAGAA 60.250 50.000 0.00 0.00 37.01 2.52
2557 4910 0.671781 GAGAGCAAGCCAAGCGAAGA 60.672 55.000 0.00 0.00 37.01 2.87
2561 4914 1.968017 TTGGAGAGCAAGCCAAGCG 60.968 57.895 0.00 0.00 39.14 4.68
2565 4918 0.035881 CTGTCTTGGAGAGCAAGCCA 59.964 55.000 0.00 0.00 0.00 4.75
2566 4919 0.676151 CCTGTCTTGGAGAGCAAGCC 60.676 60.000 0.00 0.00 0.00 4.35
2567 4920 0.036022 ACCTGTCTTGGAGAGCAAGC 59.964 55.000 0.00 0.00 0.00 4.01
2568 4921 1.805869 CACCTGTCTTGGAGAGCAAG 58.194 55.000 0.00 0.00 0.00 4.01
2569 4922 0.250467 GCACCTGTCTTGGAGAGCAA 60.250 55.000 0.00 0.00 0.00 3.91
2570 4923 1.123861 AGCACCTGTCTTGGAGAGCA 61.124 55.000 0.00 0.00 0.00 4.26
2571 4924 0.673022 CAGCACCTGTCTTGGAGAGC 60.673 60.000 0.00 0.00 0.00 4.09
2572 4925 0.036577 CCAGCACCTGTCTTGGAGAG 60.037 60.000 0.00 0.00 0.00 3.20
2573 4926 0.471780 TCCAGCACCTGTCTTGGAGA 60.472 55.000 0.00 0.00 0.00 3.71
2574 4927 0.321122 GTCCAGCACCTGTCTTGGAG 60.321 60.000 0.74 0.00 0.00 3.86
2575 4928 1.754745 GTCCAGCACCTGTCTTGGA 59.245 57.895 0.00 0.00 0.00 3.53
2576 4929 1.669115 CGTCCAGCACCTGTCTTGG 60.669 63.158 0.00 0.00 0.00 3.61
2577 4930 1.669115 CCGTCCAGCACCTGTCTTG 60.669 63.158 0.00 0.00 0.00 3.02
2579 4932 4.008933 GCCGTCCAGCACCTGTCT 62.009 66.667 0.00 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.