Multiple sequence alignment - TraesCS7A01G362400

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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 TraesCS7A01G362400 chr7A 100.000 2318 0 0 1 2318 536954514 536952197 0.000000e+00 4281.0
1 TraesCS7A01G362400 chr6A 93.294 1342 90 0 1 1342 560582766 560584107 0.000000e+00 1980.0
2 TraesCS7A01G362400 chr6A 92.063 63 5 0 1345 1407 158073879 158073817 3.170000e-14 89.8
3 TraesCS7A01G362400 chr6A 92.063 63 5 0 1345 1407 342118065 342118003 3.170000e-14 89.8
4 TraesCS7A01G362400 chr1A 92.325 1342 100 3 2 1342 12014065 12012726 0.000000e+00 1905.0
5 TraesCS7A01G362400 chr1A 81.514 1347 245 4 2 1346 510530854 510532198 0.000000e+00 1105.0
6 TraesCS7A01G362400 chr3A 93.223 1092 71 1 251 1342 143471801 143470713 0.000000e+00 1604.0
7 TraesCS7A01G362400 chr3A 82.418 1348 229 8 2 1344 403633219 403631875 0.000000e+00 1170.0
8 TraesCS7A01G362400 chr3A 92.969 256 18 0 1 256 143481108 143480853 7.820000e-100 374.0
9 TraesCS7A01G362400 chr5B 87.360 1337 169 0 2 1338 700272850 700274186 0.000000e+00 1533.0
10 TraesCS7A01G362400 chr5B 87.061 1337 173 0 2 1338 700304804 700306140 0.000000e+00 1511.0
11 TraesCS7A01G362400 chrUn 87.294 1338 168 2 2 1338 212368501 212367165 0.000000e+00 1528.0
12 TraesCS7A01G362400 chrUn 92.063 63 5 0 1345 1407 13405797 13405735 3.170000e-14 89.8
13 TraesCS7A01G362400 chrUn 92.063 63 5 0 1345 1407 87095999 87095937 3.170000e-14 89.8
14 TraesCS7A01G362400 chrUn 92.063 63 5 0 1345 1407 378591442 378591380 3.170000e-14 89.8
15 TraesCS7A01G362400 chrUn 92.063 63 5 0 1345 1407 378632972 378633034 3.170000e-14 89.8
16 TraesCS7A01G362400 chrUn 92.063 63 5 0 1345 1407 378661429 378661367 3.170000e-14 89.8
17 TraesCS7A01G362400 chr6B 84.113 1347 210 4 2 1346 560185093 560186437 0.000000e+00 1299.0
18 TraesCS7A01G362400 chr7D 92.841 447 29 3 1832 2278 15468076 15468519 0.000000e+00 645.0
19 TraesCS7A01G362400 chr7D 92.063 63 5 0 1345 1407 72319079 72319017 3.170000e-14 89.8
20 TraesCS7A01G362400 chr3B 90.357 280 22 5 1459 1734 576655978 576655700 1.690000e-96 363.0
21 TraesCS7A01G362400 chr3B 83.463 387 49 11 1937 2318 576655425 576655049 1.700000e-91 346.0
22 TraesCS7A01G362400 chr5D 92.063 63 5 0 1345 1407 448079214 448079276 3.170000e-14 89.8


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 TraesCS7A01G362400 chr7A 536952197 536954514 2317 True 4281.0 4281 100.000 1 2318 1 chr7A.!!$R1 2317
1 TraesCS7A01G362400 chr6A 560582766 560584107 1341 False 1980.0 1980 93.294 1 1342 1 chr6A.!!$F1 1341
2 TraesCS7A01G362400 chr1A 12012726 12014065 1339 True 1905.0 1905 92.325 2 1342 1 chr1A.!!$R1 1340
3 TraesCS7A01G362400 chr1A 510530854 510532198 1344 False 1105.0 1105 81.514 2 1346 1 chr1A.!!$F1 1344
4 TraesCS7A01G362400 chr3A 143470713 143471801 1088 True 1604.0 1604 93.223 251 1342 1 chr3A.!!$R1 1091
5 TraesCS7A01G362400 chr3A 403631875 403633219 1344 True 1170.0 1170 82.418 2 1344 1 chr3A.!!$R3 1342
6 TraesCS7A01G362400 chr5B 700272850 700274186 1336 False 1533.0 1533 87.360 2 1338 1 chr5B.!!$F1 1336
7 TraesCS7A01G362400 chr5B 700304804 700306140 1336 False 1511.0 1511 87.061 2 1338 1 chr5B.!!$F2 1336
8 TraesCS7A01G362400 chrUn 212367165 212368501 1336 True 1528.0 1528 87.294 2 1338 1 chrUn.!!$R3 1336
9 TraesCS7A01G362400 chr6B 560185093 560186437 1344 False 1299.0 1299 84.113 2 1346 1 chr6B.!!$F1 1344
10 TraesCS7A01G362400 chr3B 576655049 576655978 929 True 354.5 363 86.910 1459 2318 2 chr3B.!!$R1 859

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
372 374 0.037605 AGGTAGTTTCGAGGGCGTTG 60.038 55.0 0.0 0.0 38.98 4.1 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1914 1924 0.108186 TTCGTGCATCTCGCCAAGAT 60.108 50.0 0.0 0.0 46.04 2.4 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
69 70 2.678336 GGTGGCGGATTTCTTAACTGAG 59.322 50.000 0.00 0.00 0.00 3.35
88 90 2.747396 GCATGGTGCTTGGAATGAAA 57.253 45.000 0.00 0.00 40.96 2.69
185 187 2.513753 AGATTTCATTGCGTGGTTCCA 58.486 42.857 0.00 0.00 0.00 3.53
372 374 0.037605 AGGTAGTTTCGAGGGCGTTG 60.038 55.000 0.00 0.00 38.98 4.10
455 457 3.090037 CAAAGGAGAAGGAGTCCTCGTA 58.910 50.000 13.43 0.00 44.17 3.43
461 463 2.100989 GAAGGAGTCCTCGTACCATGT 58.899 52.381 13.43 0.00 30.89 3.21
502 504 0.737219 GCAGCAGCTATGGAAACAGG 59.263 55.000 0.00 0.00 40.52 4.00
513 515 2.229792 TGGAAACAGGTGCAGATGTTC 58.770 47.619 14.92 9.59 38.66 3.18
671 673 1.073763 TGTACATGGCAAGGAAGTGCT 59.926 47.619 0.00 0.00 44.31 4.40
875 877 2.099141 TCTGTTGATGGAGCCTTTCG 57.901 50.000 0.00 0.00 0.00 3.46
941 943 6.100859 AGACATGATGGGAGTGTGATATTCTT 59.899 38.462 0.00 0.00 0.00 2.52
997 999 2.358615 AAGCGGAGTTGCATGCGA 60.359 55.556 14.09 8.74 35.89 5.10
1188 1190 5.242838 TCCCTTGAAAATTAGTCGTTTGCAT 59.757 36.000 0.00 0.00 0.00 3.96
1283 1285 1.625818 ACCATGTGTTGAGGACCTCTC 59.374 52.381 22.14 14.96 42.74 3.20
1388 1391 9.770097 TTAAAAATCCACTTCAAAATACATGCA 57.230 25.926 0.00 0.00 0.00 3.96
1389 1392 8.851541 AAAAATCCACTTCAAAATACATGCAT 57.148 26.923 0.00 0.00 0.00 3.96
1390 1393 7.837202 AAATCCACTTCAAAATACATGCATG 57.163 32.000 25.09 25.09 0.00 4.06
1391 1394 5.981088 TCCACTTCAAAATACATGCATGT 57.019 34.783 33.20 33.20 44.48 3.21
1392 1395 7.643569 ATCCACTTCAAAATACATGCATGTA 57.356 32.000 35.03 35.03 46.21 2.29
1393 1396 7.459795 TCCACTTCAAAATACATGCATGTAA 57.540 32.000 36.12 22.65 45.40 2.41
1394 1397 7.537715 TCCACTTCAAAATACATGCATGTAAG 58.462 34.615 36.12 30.29 45.40 2.34
1395 1398 7.392953 TCCACTTCAAAATACATGCATGTAAGA 59.607 33.333 36.12 27.45 45.40 2.10
1396 1399 8.192774 CCACTTCAAAATACATGCATGTAAGAT 58.807 33.333 36.12 24.37 45.40 2.40
1397 1400 9.577110 CACTTCAAAATACATGCATGTAAGATT 57.423 29.630 36.12 27.60 45.40 2.40
1398 1401 9.793252 ACTTCAAAATACATGCATGTAAGATTC 57.207 29.630 36.12 0.00 45.40 2.52
1399 1402 9.241317 CTTCAAAATACATGCATGTAAGATTCC 57.759 33.333 36.12 0.00 45.40 3.01
1400 1403 8.291191 TCAAAATACATGCATGTAAGATTCCA 57.709 30.769 36.12 18.53 45.40 3.53
1401 1404 8.916062 TCAAAATACATGCATGTAAGATTCCAT 58.084 29.630 36.12 19.84 45.40 3.41
1402 1405 9.537192 CAAAATACATGCATGTAAGATTCCATT 57.463 29.630 36.12 23.72 45.40 3.16
1403 1406 9.754382 AAAATACATGCATGTAAGATTCCATTC 57.246 29.630 36.12 0.00 45.40 2.67
1404 1407 8.701908 AATACATGCATGTAAGATTCCATTCT 57.298 30.769 36.12 17.15 45.40 2.40
1405 1408 9.797642 AATACATGCATGTAAGATTCCATTCTA 57.202 29.630 36.12 16.07 45.40 2.10
1406 1409 9.970553 ATACATGCATGTAAGATTCCATTCTAT 57.029 29.630 36.12 17.48 45.40 1.98
1407 1410 8.332996 ACATGCATGTAAGATTCCATTCTATC 57.667 34.615 30.50 0.00 39.68 2.08
1408 1411 8.162085 ACATGCATGTAAGATTCCATTCTATCT 58.838 33.333 30.50 0.00 39.68 1.98
1409 1412 8.666573 CATGCATGTAAGATTCCATTCTATCTC 58.333 37.037 18.91 0.00 30.95 2.75
1410 1413 7.738847 TGCATGTAAGATTCCATTCTATCTCA 58.261 34.615 0.00 0.00 30.95 3.27
1411 1414 8.380867 TGCATGTAAGATTCCATTCTATCTCAT 58.619 33.333 0.00 0.00 30.95 2.90
1412 1415 9.228949 GCATGTAAGATTCCATTCTATCTCATT 57.771 33.333 0.00 0.00 30.95 2.57
1414 1417 8.613060 TGTAAGATTCCATTCTATCTCATTGC 57.387 34.615 0.00 0.00 30.95 3.56
1415 1418 7.663081 TGTAAGATTCCATTCTATCTCATTGCC 59.337 37.037 0.00 0.00 30.95 4.52
1416 1419 6.451292 AGATTCCATTCTATCTCATTGCCT 57.549 37.500 0.00 0.00 0.00 4.75
1417 1420 6.474630 AGATTCCATTCTATCTCATTGCCTC 58.525 40.000 0.00 0.00 0.00 4.70
1418 1421 5.901413 TTCCATTCTATCTCATTGCCTCT 57.099 39.130 0.00 0.00 0.00 3.69
1419 1422 5.224821 TCCATTCTATCTCATTGCCTCTG 57.775 43.478 0.00 0.00 0.00 3.35
1420 1423 4.903649 TCCATTCTATCTCATTGCCTCTGA 59.096 41.667 0.00 0.00 0.00 3.27
1421 1424 5.011840 TCCATTCTATCTCATTGCCTCTGAG 59.988 44.000 0.00 0.00 41.23 3.35
1422 1425 5.221682 CCATTCTATCTCATTGCCTCTGAGT 60.222 44.000 3.66 0.08 40.79 3.41
1423 1426 5.528043 TTCTATCTCATTGCCTCTGAGTC 57.472 43.478 3.66 0.00 40.79 3.36
1424 1427 3.894427 TCTATCTCATTGCCTCTGAGTCC 59.106 47.826 3.66 0.00 40.79 3.85
1425 1428 2.244486 TCTCATTGCCTCTGAGTCCT 57.756 50.000 3.66 0.00 40.79 3.85
1426 1429 2.106566 TCTCATTGCCTCTGAGTCCTC 58.893 52.381 3.66 0.00 40.79 3.71
1427 1430 2.109774 CTCATTGCCTCTGAGTCCTCT 58.890 52.381 3.66 0.00 36.26 3.69
1428 1431 2.101249 CTCATTGCCTCTGAGTCCTCTC 59.899 54.545 3.66 0.00 40.79 3.20
1429 1432 1.138661 CATTGCCTCTGAGTCCTCTCC 59.861 57.143 3.66 0.00 39.75 3.71
1430 1433 0.967887 TTGCCTCTGAGTCCTCTCCG 60.968 60.000 3.66 0.00 39.75 4.63
1431 1434 2.781158 GCCTCTGAGTCCTCTCCGC 61.781 68.421 3.66 0.00 39.75 5.54
1432 1435 1.077068 CCTCTGAGTCCTCTCCGCT 60.077 63.158 3.66 0.00 39.75 5.52
1433 1436 1.101049 CCTCTGAGTCCTCTCCGCTC 61.101 65.000 3.66 0.00 39.75 5.03
1434 1437 1.077357 TCTGAGTCCTCTCCGCTCC 60.077 63.158 0.00 0.00 39.75 4.70
1435 1438 1.077068 CTGAGTCCTCTCCGCTCCT 60.077 63.158 0.00 0.00 39.75 3.69
1436 1439 1.077357 TGAGTCCTCTCCGCTCCTC 60.077 63.158 0.00 0.00 39.75 3.71
1437 1440 1.226262 GAGTCCTCTCCGCTCCTCT 59.774 63.158 0.00 0.00 34.87 3.69
1438 1441 1.077068 AGTCCTCTCCGCTCCTCTG 60.077 63.158 0.00 0.00 0.00 3.35
1439 1442 1.077357 GTCCTCTCCGCTCCTCTGA 60.077 63.158 0.00 0.00 0.00 3.27
1440 1443 1.101049 GTCCTCTCCGCTCCTCTGAG 61.101 65.000 0.00 0.00 41.84 3.35
1448 1451 4.567385 CTCCTCTGAGCTCGCGCC 62.567 72.222 9.64 0.00 36.60 6.53
1536 1545 2.041405 CACCCCTCCCTCCCTCTC 60.041 72.222 0.00 0.00 0.00 3.20
1537 1546 3.369388 ACCCCTCCCTCCCTCTCC 61.369 72.222 0.00 0.00 0.00 3.71
1538 1547 3.039526 CCCCTCCCTCCCTCTCCT 61.040 72.222 0.00 0.00 0.00 3.69
1539 1548 2.612251 CCCTCCCTCCCTCTCCTC 59.388 72.222 0.00 0.00 0.00 3.71
1547 1556 1.550374 TCCCTCTCCTCTCCCCCTT 60.550 63.158 0.00 0.00 0.00 3.95
1587 1596 0.323542 TCTCCCTCTCGGTGTCTTCC 60.324 60.000 0.00 0.00 0.00 3.46
1594 1603 0.677098 CTCGGTGTCTTCCTCCTCGA 60.677 60.000 0.00 0.00 0.00 4.04
1727 1737 4.096003 CCGCTGGTTCGTGGGGAT 62.096 66.667 0.00 0.00 38.38 3.85
1729 1739 3.134127 GCTGGTTCGTGGGGATGC 61.134 66.667 0.00 0.00 0.00 3.91
1734 1744 3.687102 TTCGTGGGGATGCGTCGT 61.687 61.111 0.00 0.00 0.00 4.34
1735 1745 3.925362 TTCGTGGGGATGCGTCGTG 62.925 63.158 0.00 0.00 0.00 4.35
1770 1780 4.247380 GCCAGGATCGGAGCCCTG 62.247 72.222 9.01 14.33 43.90 4.45
1772 1782 4.247380 CAGGATCGGAGCCCTGGC 62.247 72.222 9.01 0.00 41.80 4.85
1815 1825 4.570663 GCTGGCGCTATCCGTCGT 62.571 66.667 7.64 0.00 46.61 4.34
1816 1826 2.353607 CTGGCGCTATCCGTCGTC 60.354 66.667 7.64 0.00 46.61 4.20
1817 1827 2.827190 TGGCGCTATCCGTCGTCT 60.827 61.111 7.64 0.00 46.61 4.18
1818 1828 2.353607 GGCGCTATCCGTCGTCTG 60.354 66.667 7.64 0.00 39.71 3.51
1819 1829 2.713770 GCGCTATCCGTCGTCTGA 59.286 61.111 0.00 0.00 39.71 3.27
1820 1830 1.283181 GCGCTATCCGTCGTCTGAT 59.717 57.895 0.00 0.00 39.71 2.90
1821 1831 0.726452 GCGCTATCCGTCGTCTGATC 60.726 60.000 0.00 0.00 39.71 2.92
1822 1832 0.451299 CGCTATCCGTCGTCTGATCG 60.451 60.000 0.00 0.00 0.00 3.69
1823 1833 0.726452 GCTATCCGTCGTCTGATCGC 60.726 60.000 0.00 0.00 0.00 4.58
1824 1834 0.110147 CTATCCGTCGTCTGATCGCC 60.110 60.000 0.00 0.00 0.00 5.54
1825 1835 0.816421 TATCCGTCGTCTGATCGCCA 60.816 55.000 0.00 0.00 0.00 5.69
1826 1836 2.337749 ATCCGTCGTCTGATCGCCAC 62.338 60.000 0.00 0.00 0.00 5.01
1827 1837 2.579787 CGTCGTCTGATCGCCACC 60.580 66.667 0.00 0.00 0.00 4.61
1828 1838 2.885861 GTCGTCTGATCGCCACCT 59.114 61.111 0.00 0.00 0.00 4.00
1829 1839 1.215647 GTCGTCTGATCGCCACCTT 59.784 57.895 0.00 0.00 0.00 3.50
1830 1840 0.802607 GTCGTCTGATCGCCACCTTC 60.803 60.000 0.00 0.00 0.00 3.46
1831 1841 0.965866 TCGTCTGATCGCCACCTTCT 60.966 55.000 0.00 0.00 0.00 2.85
1832 1842 0.526524 CGTCTGATCGCCACCTTCTC 60.527 60.000 0.00 0.00 0.00 2.87
1833 1843 0.179097 GTCTGATCGCCACCTTCTCC 60.179 60.000 0.00 0.00 0.00 3.71
1834 1844 1.144936 CTGATCGCCACCTTCTCCC 59.855 63.158 0.00 0.00 0.00 4.30
1835 1845 2.317149 CTGATCGCCACCTTCTCCCC 62.317 65.000 0.00 0.00 0.00 4.81
1836 1846 3.447025 GATCGCCACCTTCTCCCCG 62.447 68.421 0.00 0.00 0.00 5.73
1840 1850 4.101448 CCACCTTCTCCCCGCCAG 62.101 72.222 0.00 0.00 0.00 4.85
1841 1851 4.785453 CACCTTCTCCCCGCCAGC 62.785 72.222 0.00 0.00 0.00 4.85
1879 1889 4.115199 GATCCCGGCTGCCCTGTT 62.115 66.667 14.12 0.00 0.00 3.16
1880 1890 3.645268 GATCCCGGCTGCCCTGTTT 62.645 63.158 14.12 0.00 0.00 2.83
1881 1891 3.944250 ATCCCGGCTGCCCTGTTTG 62.944 63.158 14.12 0.00 0.00 2.93
1883 1893 4.659172 CCGGCTGCCCTGTTTGGA 62.659 66.667 14.12 0.00 38.35 3.53
1884 1894 2.361610 CGGCTGCCCTGTTTGGAT 60.362 61.111 14.12 0.00 38.35 3.41
1885 1895 2.703798 CGGCTGCCCTGTTTGGATG 61.704 63.158 14.12 0.00 38.35 3.51
1886 1896 2.575461 GCTGCCCTGTTTGGATGC 59.425 61.111 0.00 0.00 38.35 3.91
1887 1897 1.980772 GCTGCCCTGTTTGGATGCT 60.981 57.895 0.00 0.00 38.35 3.79
1888 1898 1.888018 CTGCCCTGTTTGGATGCTG 59.112 57.895 0.00 0.00 38.35 4.41
1889 1899 2.221906 CTGCCCTGTTTGGATGCTGC 62.222 60.000 0.00 0.00 38.35 5.25
1890 1900 1.980772 GCCCTGTTTGGATGCTGCT 60.981 57.895 0.00 0.00 38.35 4.24
1891 1901 0.680921 GCCCTGTTTGGATGCTGCTA 60.681 55.000 0.00 0.00 38.35 3.49
1892 1902 2.025863 GCCCTGTTTGGATGCTGCTAT 61.026 52.381 0.00 0.00 38.35 2.97
1893 1903 2.749466 GCCCTGTTTGGATGCTGCTATA 60.749 50.000 0.00 0.00 38.35 1.31
1894 1904 3.554934 CCCTGTTTGGATGCTGCTATAA 58.445 45.455 0.00 0.00 38.35 0.98
1895 1905 3.316308 CCCTGTTTGGATGCTGCTATAAC 59.684 47.826 0.00 0.00 38.35 1.89
1896 1906 4.202441 CCTGTTTGGATGCTGCTATAACT 58.798 43.478 0.00 0.00 38.35 2.24
1897 1907 5.368145 CCTGTTTGGATGCTGCTATAACTA 58.632 41.667 0.00 0.00 38.35 2.24
1898 1908 6.000219 CCTGTTTGGATGCTGCTATAACTAT 59.000 40.000 0.00 0.00 38.35 2.12
1899 1909 6.072838 CCTGTTTGGATGCTGCTATAACTATG 60.073 42.308 0.00 0.00 38.35 2.23
1900 1910 5.764686 TGTTTGGATGCTGCTATAACTATGG 59.235 40.000 0.00 0.00 0.00 2.74
1901 1911 5.567037 TTGGATGCTGCTATAACTATGGT 57.433 39.130 0.00 0.00 0.00 3.55
1902 1912 4.898320 TGGATGCTGCTATAACTATGGTG 58.102 43.478 0.00 0.00 0.00 4.17
1903 1913 4.592778 TGGATGCTGCTATAACTATGGTGA 59.407 41.667 0.00 0.00 0.00 4.02
1904 1914 4.932200 GGATGCTGCTATAACTATGGTGAC 59.068 45.833 0.00 0.00 0.00 3.67
1905 1915 4.336889 TGCTGCTATAACTATGGTGACC 57.663 45.455 0.00 0.00 0.00 4.02
1906 1916 3.071023 TGCTGCTATAACTATGGTGACCC 59.929 47.826 0.00 0.00 0.00 4.46
1907 1917 3.557264 GCTGCTATAACTATGGTGACCCC 60.557 52.174 0.00 0.00 0.00 4.95
1908 1918 2.631062 TGCTATAACTATGGTGACCCCG 59.369 50.000 0.00 0.00 35.15 5.73
1909 1919 2.028385 GCTATAACTATGGTGACCCCGG 60.028 54.545 0.00 0.00 35.15 5.73
1910 1920 0.763035 ATAACTATGGTGACCCCGGC 59.237 55.000 0.00 0.00 35.15 6.13
1911 1921 1.339644 TAACTATGGTGACCCCGGCC 61.340 60.000 0.00 0.00 35.15 6.13
1912 1922 3.087253 CTATGGTGACCCCGGCCA 61.087 66.667 2.24 0.00 35.15 5.36
1913 1923 3.400599 CTATGGTGACCCCGGCCAC 62.401 68.421 2.24 3.40 34.84 5.01
1916 1926 4.796495 GGTGACCCCGGCCACATC 62.796 72.222 17.57 5.19 35.13 3.06
1917 1927 3.717294 GTGACCCCGGCCACATCT 61.717 66.667 2.24 0.00 33.72 2.90
1918 1928 2.933287 TGACCCCGGCCACATCTT 60.933 61.111 2.24 0.00 0.00 2.40
1919 1929 2.438434 GACCCCGGCCACATCTTG 60.438 66.667 2.24 0.00 0.00 3.02
1942 2024 3.027170 GATGCACGAACGCCACCAG 62.027 63.158 0.00 0.00 0.00 4.00
1954 2036 1.077930 CCACCAGGTGCCTCAGATG 60.078 63.158 14.98 0.00 31.34 2.90
1958 2040 1.077930 CAGGTGCCTCAGATGTGGG 60.078 63.158 3.31 0.00 0.00 4.61
1959 2041 1.229625 AGGTGCCTCAGATGTGGGA 60.230 57.895 0.00 0.00 0.00 4.37
1961 2043 1.557269 GGTGCCTCAGATGTGGGAGT 61.557 60.000 0.00 0.00 29.78 3.85
2073 2155 2.685380 CGGCTCCTTCCTCACCCT 60.685 66.667 0.00 0.00 0.00 4.34
2079 2166 1.381327 CCTTCCTCACCCTCGCCTA 60.381 63.158 0.00 0.00 0.00 3.93
2157 2244 2.836154 GGTCTTGGTGCCAGGTCA 59.164 61.111 0.28 0.00 0.00 4.02
2159 2246 0.962356 GGTCTTGGTGCCAGGTCATG 60.962 60.000 0.28 0.00 0.00 3.07
2171 2258 0.900182 AGGTCATGCGTGAGGAGTCA 60.900 55.000 9.39 0.00 34.36 3.41
2177 2264 0.900182 TGCGTGAGGAGTCAGTGGAT 60.900 55.000 0.00 0.00 31.53 3.41
2180 2267 2.370349 CGTGAGGAGTCAGTGGATAGT 58.630 52.381 0.00 0.00 31.53 2.12
2189 2276 0.036388 CAGTGGATAGTGTTGCCGGT 60.036 55.000 1.90 0.00 0.00 5.28
2211 2298 1.486145 GGGGTTCTCCGTCCCTTTCA 61.486 60.000 0.00 0.00 43.00 2.69
2212 2299 0.321387 GGGTTCTCCGTCCCTTTCAC 60.321 60.000 0.00 0.00 40.48 3.18
2213 2300 0.321387 GGTTCTCCGTCCCTTTCACC 60.321 60.000 0.00 0.00 0.00 4.02
2214 2301 0.669625 GTTCTCCGTCCCTTTCACCG 60.670 60.000 0.00 0.00 0.00 4.94
2215 2302 2.434359 CTCCGTCCCTTTCACCGC 60.434 66.667 0.00 0.00 0.00 5.68
2244 2331 4.307908 GTGTTGCGCGCGTTCCTT 62.308 61.111 32.35 0.00 0.00 3.36
2253 2340 1.006102 CGCGTTCCTTCTGTGGAGT 60.006 57.895 0.00 0.00 37.43 3.85
2254 2341 1.009389 CGCGTTCCTTCTGTGGAGTC 61.009 60.000 0.00 0.00 37.43 3.36
2255 2342 1.009389 GCGTTCCTTCTGTGGAGTCG 61.009 60.000 0.00 0.00 37.43 4.18
2269 2356 1.688735 GGAGTCGGTGGATGATGATGA 59.311 52.381 0.00 0.00 0.00 2.92
2279 2366 2.492012 GATGATGATGAGGTGGAGTGC 58.508 52.381 0.00 0.00 0.00 4.40
2308 2395 1.183549 GAGGAAGGCGAGGACTTGTA 58.816 55.000 0.00 0.00 26.99 2.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
69 70 2.747396 TTTCATTCCAAGCACCATGC 57.253 45.000 0.00 0.00 45.46 4.06
88 90 4.094146 CCAAAAATGTTCACGCAACCTTTT 59.906 37.500 7.56 7.56 41.77 2.27
99 101 4.592351 ACATCCATGTCCCAAAAATGTTCA 59.408 37.500 0.00 0.00 35.87 3.18
185 187 0.107459 GAATTGCCCGCTCTTCTCCT 60.107 55.000 0.00 0.00 0.00 3.69
496 498 2.158623 TCCAGAACATCTGCACCTGTTT 60.159 45.455 9.78 0.33 42.98 2.83
502 504 2.351157 GCAAGTTCCAGAACATCTGCAC 60.351 50.000 19.15 1.70 42.98 4.57
513 515 3.121030 CGGCTCGGCAAGTTCCAG 61.121 66.667 0.00 0.00 0.00 3.86
997 999 2.490351 CCAGAGCCATCCCTTGCATTAT 60.490 50.000 0.00 0.00 0.00 1.28
1188 1190 4.502604 GCCAAACGATCTGCTACCCTATTA 60.503 45.833 0.00 0.00 0.00 0.98
1283 1285 2.009774 CAGGGTTACAATCAAGAGGCG 58.990 52.381 0.00 0.00 0.00 5.52
1362 1365 9.770097 TGCATGTATTTTGAAGTGGATTTTTAA 57.230 25.926 0.00 0.00 0.00 1.52
1363 1366 9.941325 ATGCATGTATTTTGAAGTGGATTTTTA 57.059 25.926 0.00 0.00 0.00 1.52
1364 1367 8.723311 CATGCATGTATTTTGAAGTGGATTTTT 58.277 29.630 18.91 0.00 0.00 1.94
1365 1368 7.879160 ACATGCATGTATTTTGAAGTGGATTTT 59.121 29.630 30.50 0.00 39.68 1.82
1366 1369 7.388437 ACATGCATGTATTTTGAAGTGGATTT 58.612 30.769 30.50 0.00 39.68 2.17
1367 1370 6.938507 ACATGCATGTATTTTGAAGTGGATT 58.061 32.000 30.50 0.00 39.68 3.01
1368 1371 6.534475 ACATGCATGTATTTTGAAGTGGAT 57.466 33.333 30.50 0.00 39.68 3.41
1369 1372 5.981088 ACATGCATGTATTTTGAAGTGGA 57.019 34.783 30.50 0.00 39.68 4.02
1370 1373 7.537715 TCTTACATGCATGTATTTTGAAGTGG 58.462 34.615 33.93 12.90 42.32 4.00
1371 1374 9.577110 AATCTTACATGCATGTATTTTGAAGTG 57.423 29.630 33.93 17.43 42.32 3.16
1372 1375 9.793252 GAATCTTACATGCATGTATTTTGAAGT 57.207 29.630 33.93 21.16 42.32 3.01
1373 1376 9.241317 GGAATCTTACATGCATGTATTTTGAAG 57.759 33.333 33.93 27.97 42.32 3.02
1374 1377 8.747471 TGGAATCTTACATGCATGTATTTTGAA 58.253 29.630 33.93 21.47 42.32 2.69
1375 1378 8.291191 TGGAATCTTACATGCATGTATTTTGA 57.709 30.769 33.93 27.18 42.32 2.69
1376 1379 9.537192 AATGGAATCTTACATGCATGTATTTTG 57.463 29.630 33.93 23.98 42.32 2.44
1377 1380 9.754382 GAATGGAATCTTACATGCATGTATTTT 57.246 29.630 33.93 26.31 42.32 1.82
1378 1381 9.139734 AGAATGGAATCTTACATGCATGTATTT 57.860 29.630 33.93 26.60 42.32 1.40
1379 1382 8.701908 AGAATGGAATCTTACATGCATGTATT 57.298 30.769 33.93 27.14 42.32 1.89
1380 1383 9.970553 ATAGAATGGAATCTTACATGCATGTAT 57.029 29.630 33.93 22.21 42.32 2.29
1381 1384 9.440773 GATAGAATGGAATCTTACATGCATGTA 57.559 33.333 31.03 31.03 41.97 2.29
1382 1385 8.162085 AGATAGAATGGAATCTTACATGCATGT 58.838 33.333 33.20 33.20 44.48 3.21
1383 1386 8.563123 AGATAGAATGGAATCTTACATGCATG 57.437 34.615 25.09 25.09 28.50 4.06
1384 1387 8.380867 TGAGATAGAATGGAATCTTACATGCAT 58.619 33.333 0.00 0.00 32.60 3.96
1385 1388 7.738847 TGAGATAGAATGGAATCTTACATGCA 58.261 34.615 0.00 0.00 32.60 3.96
1386 1389 8.789825 ATGAGATAGAATGGAATCTTACATGC 57.210 34.615 0.00 0.00 32.60 4.06
1388 1391 9.228949 GCAATGAGATAGAATGGAATCTTACAT 57.771 33.333 0.00 0.00 32.60 2.29
1389 1392 7.663081 GGCAATGAGATAGAATGGAATCTTACA 59.337 37.037 0.00 0.00 32.60 2.41
1390 1393 7.882271 AGGCAATGAGATAGAATGGAATCTTAC 59.118 37.037 0.00 0.00 32.60 2.34
1391 1394 7.982252 AGGCAATGAGATAGAATGGAATCTTA 58.018 34.615 0.00 0.00 32.60 2.10
1392 1395 6.850234 AGGCAATGAGATAGAATGGAATCTT 58.150 36.000 0.00 0.00 32.60 2.40
1393 1396 6.272792 AGAGGCAATGAGATAGAATGGAATCT 59.727 38.462 0.00 0.00 35.15 2.40
1394 1397 6.372103 CAGAGGCAATGAGATAGAATGGAATC 59.628 42.308 0.00 0.00 0.00 2.52
1395 1398 6.044054 TCAGAGGCAATGAGATAGAATGGAAT 59.956 38.462 0.00 0.00 0.00 3.01
1396 1399 5.367644 TCAGAGGCAATGAGATAGAATGGAA 59.632 40.000 0.00 0.00 0.00 3.53
1397 1400 4.903649 TCAGAGGCAATGAGATAGAATGGA 59.096 41.667 0.00 0.00 0.00 3.41
1398 1401 5.221682 ACTCAGAGGCAATGAGATAGAATGG 60.222 44.000 21.37 0.00 45.80 3.16
1399 1402 5.856156 ACTCAGAGGCAATGAGATAGAATG 58.144 41.667 21.37 0.00 45.80 2.67
1400 1403 5.011943 GGACTCAGAGGCAATGAGATAGAAT 59.988 44.000 21.37 2.51 45.80 2.40
1401 1404 4.343526 GGACTCAGAGGCAATGAGATAGAA 59.656 45.833 21.37 0.00 45.80 2.10
1402 1405 3.894427 GGACTCAGAGGCAATGAGATAGA 59.106 47.826 21.37 0.00 45.80 1.98
1403 1406 3.896888 AGGACTCAGAGGCAATGAGATAG 59.103 47.826 21.37 1.35 45.80 2.08
1404 1407 3.894427 GAGGACTCAGAGGCAATGAGATA 59.106 47.826 21.37 0.00 45.80 1.98
1405 1408 2.699846 GAGGACTCAGAGGCAATGAGAT 59.300 50.000 21.37 9.71 45.80 2.75
1406 1409 2.106566 GAGGACTCAGAGGCAATGAGA 58.893 52.381 21.37 0.00 45.80 3.27
1408 1411 2.106566 GAGAGGACTCAGAGGCAATGA 58.893 52.381 5.38 0.00 42.21 2.57
1409 1412 1.138661 GGAGAGGACTCAGAGGCAATG 59.861 57.143 5.38 0.00 44.22 2.82
1410 1413 1.494960 GGAGAGGACTCAGAGGCAAT 58.505 55.000 5.38 0.00 44.22 3.56
1411 1414 0.967887 CGGAGAGGACTCAGAGGCAA 60.968 60.000 5.38 0.00 44.22 4.52
1412 1415 1.379176 CGGAGAGGACTCAGAGGCA 60.379 63.158 5.38 0.00 44.22 4.75
1413 1416 2.781158 GCGGAGAGGACTCAGAGGC 61.781 68.421 1.53 0.00 44.22 4.70
1414 1417 1.077068 AGCGGAGAGGACTCAGAGG 60.077 63.158 1.53 0.00 44.22 3.69
1415 1418 1.101049 GGAGCGGAGAGGACTCAGAG 61.101 65.000 1.75 0.00 44.22 3.35
1416 1419 1.077357 GGAGCGGAGAGGACTCAGA 60.077 63.158 1.75 0.00 44.22 3.27
1417 1420 1.077068 AGGAGCGGAGAGGACTCAG 60.077 63.158 1.75 0.00 44.22 3.35
1418 1421 1.077357 GAGGAGCGGAGAGGACTCA 60.077 63.158 1.75 0.00 44.22 3.41
1419 1422 1.101049 CAGAGGAGCGGAGAGGACTC 61.101 65.000 0.00 0.00 41.94 3.36
1420 1423 1.077068 CAGAGGAGCGGAGAGGACT 60.077 63.158 0.00 0.00 0.00 3.85
1421 1424 1.077357 TCAGAGGAGCGGAGAGGAC 60.077 63.158 0.00 0.00 0.00 3.85
1422 1425 1.225983 CTCAGAGGAGCGGAGAGGA 59.774 63.158 0.00 0.00 40.74 3.71
1423 1426 3.840437 CTCAGAGGAGCGGAGAGG 58.160 66.667 0.00 0.00 40.74 3.69
1526 1535 2.612251 GGGAGAGGAGAGGGAGGG 59.388 72.222 0.00 0.00 0.00 4.30
1531 1540 1.456705 CGAAGGGGGAGAGGAGAGG 60.457 68.421 0.00 0.00 0.00 3.69
1537 1546 3.532155 CGCCTCGAAGGGGGAGAG 61.532 72.222 1.88 0.00 43.90 3.20
1718 1728 4.429212 CACGACGCATCCCCACGA 62.429 66.667 0.00 0.00 0.00 4.35
1753 1763 4.247380 CAGGGCTCCGATCCTGGC 62.247 72.222 9.10 0.00 44.99 4.85
1798 1808 4.570663 ACGACGGATAGCGCCAGC 62.571 66.667 2.29 0.00 45.58 4.85
1799 1809 2.353607 GACGACGGATAGCGCCAG 60.354 66.667 2.29 0.00 0.00 4.85
1800 1810 2.827190 AGACGACGGATAGCGCCA 60.827 61.111 2.29 0.00 0.00 5.69
1801 1811 2.131294 ATCAGACGACGGATAGCGCC 62.131 60.000 2.29 0.00 0.00 6.53
1802 1812 0.726452 GATCAGACGACGGATAGCGC 60.726 60.000 0.00 0.00 31.67 5.92
1803 1813 0.451299 CGATCAGACGACGGATAGCG 60.451 60.000 0.00 0.00 31.67 4.26
1804 1814 0.726452 GCGATCAGACGACGGATAGC 60.726 60.000 14.88 14.88 40.29 2.97
1805 1815 0.110147 GGCGATCAGACGACGGATAG 60.110 60.000 0.00 2.48 31.67 2.08
1806 1816 0.816421 TGGCGATCAGACGACGGATA 60.816 55.000 0.00 0.00 45.00 2.59
1807 1817 2.119029 TGGCGATCAGACGACGGAT 61.119 57.895 0.00 0.00 45.00 4.18
1808 1818 2.748647 TGGCGATCAGACGACGGA 60.749 61.111 0.00 0.00 45.00 4.69
1809 1819 2.579787 GTGGCGATCAGACGACGG 60.580 66.667 0.00 0.00 45.00 4.79
1810 1820 2.543687 AAGGTGGCGATCAGACGACG 62.544 60.000 0.00 0.00 45.00 5.12
1811 1821 0.802607 GAAGGTGGCGATCAGACGAC 60.803 60.000 0.00 0.00 42.12 4.34
1812 1822 0.965866 AGAAGGTGGCGATCAGACGA 60.966 55.000 0.00 0.00 35.09 4.20
1813 1823 0.526524 GAGAAGGTGGCGATCAGACG 60.527 60.000 0.00 0.00 0.00 4.18
1814 1824 0.179097 GGAGAAGGTGGCGATCAGAC 60.179 60.000 0.00 0.00 0.00 3.51
1815 1825 1.330655 GGGAGAAGGTGGCGATCAGA 61.331 60.000 0.00 0.00 0.00 3.27
1816 1826 1.144936 GGGAGAAGGTGGCGATCAG 59.855 63.158 0.00 0.00 0.00 2.90
1817 1827 2.367202 GGGGAGAAGGTGGCGATCA 61.367 63.158 0.00 0.00 0.00 2.92
1818 1828 2.506472 GGGGAGAAGGTGGCGATC 59.494 66.667 0.00 0.00 0.00 3.69
1819 1829 3.470888 CGGGGAGAAGGTGGCGAT 61.471 66.667 0.00 0.00 0.00 4.58
1823 1833 4.101448 CTGGCGGGGAGAAGGTGG 62.101 72.222 0.00 0.00 0.00 4.61
1824 1834 4.785453 GCTGGCGGGGAGAAGGTG 62.785 72.222 0.00 0.00 0.00 4.00
1862 1872 3.645268 AAACAGGGCAGCCGGGATC 62.645 63.158 5.00 0.00 0.00 3.36
1863 1873 3.661648 AAACAGGGCAGCCGGGAT 61.662 61.111 5.00 0.00 0.00 3.85
1864 1874 4.659172 CAAACAGGGCAGCCGGGA 62.659 66.667 5.00 0.00 0.00 5.14
1866 1876 3.944250 ATCCAAACAGGGCAGCCGG 62.944 63.158 5.00 0.00 38.24 6.13
1867 1877 2.361610 ATCCAAACAGGGCAGCCG 60.362 61.111 5.00 0.00 38.24 5.52
1868 1878 3.010413 GCATCCAAACAGGGCAGCC 62.010 63.158 1.26 1.26 38.24 4.85
1869 1879 1.980772 AGCATCCAAACAGGGCAGC 60.981 57.895 0.00 0.00 38.24 5.25
1870 1880 1.888018 CAGCATCCAAACAGGGCAG 59.112 57.895 0.00 0.00 38.24 4.85
1871 1881 2.277591 GCAGCATCCAAACAGGGCA 61.278 57.895 0.00 0.00 38.24 5.36
1872 1882 0.680921 TAGCAGCATCCAAACAGGGC 60.681 55.000 0.00 0.00 38.24 5.19
1873 1883 2.062971 ATAGCAGCATCCAAACAGGG 57.937 50.000 0.00 0.00 38.24 4.45
1874 1884 4.202441 AGTTATAGCAGCATCCAAACAGG 58.798 43.478 0.00 0.00 39.47 4.00
1875 1885 6.072838 CCATAGTTATAGCAGCATCCAAACAG 60.073 42.308 0.00 0.00 0.00 3.16
1876 1886 5.764686 CCATAGTTATAGCAGCATCCAAACA 59.235 40.000 0.00 0.00 0.00 2.83
1877 1887 5.765182 ACCATAGTTATAGCAGCATCCAAAC 59.235 40.000 0.00 0.00 0.00 2.93
1878 1888 5.764686 CACCATAGTTATAGCAGCATCCAAA 59.235 40.000 0.00 0.00 0.00 3.28
1879 1889 5.071653 TCACCATAGTTATAGCAGCATCCAA 59.928 40.000 0.00 0.00 0.00 3.53
1880 1890 4.592778 TCACCATAGTTATAGCAGCATCCA 59.407 41.667 0.00 0.00 0.00 3.41
1881 1891 4.932200 GTCACCATAGTTATAGCAGCATCC 59.068 45.833 0.00 0.00 0.00 3.51
1882 1892 4.932200 GGTCACCATAGTTATAGCAGCATC 59.068 45.833 0.00 0.00 0.00 3.91
1883 1893 4.263068 GGGTCACCATAGTTATAGCAGCAT 60.263 45.833 0.00 0.00 36.50 3.79
1884 1894 3.071023 GGGTCACCATAGTTATAGCAGCA 59.929 47.826 0.00 0.00 36.50 4.41
1885 1895 3.557264 GGGGTCACCATAGTTATAGCAGC 60.557 52.174 0.00 0.00 39.85 5.25
1886 1896 3.306088 CGGGGTCACCATAGTTATAGCAG 60.306 52.174 0.00 0.00 40.22 4.24
1887 1897 2.631062 CGGGGTCACCATAGTTATAGCA 59.369 50.000 0.00 0.00 40.22 3.49
1888 1898 2.028385 CCGGGGTCACCATAGTTATAGC 60.028 54.545 0.00 0.00 40.22 2.97
1889 1899 2.028385 GCCGGGGTCACCATAGTTATAG 60.028 54.545 2.18 0.00 40.22 1.31
1890 1900 1.972795 GCCGGGGTCACCATAGTTATA 59.027 52.381 2.18 0.00 40.22 0.98
1891 1901 0.763035 GCCGGGGTCACCATAGTTAT 59.237 55.000 2.18 0.00 40.22 1.89
1892 1902 1.339644 GGCCGGGGTCACCATAGTTA 61.340 60.000 2.18 0.00 40.22 2.24
1893 1903 2.676265 GGCCGGGGTCACCATAGTT 61.676 63.158 2.18 0.00 40.22 2.24
1894 1904 3.087906 GGCCGGGGTCACCATAGT 61.088 66.667 2.18 0.00 40.22 2.12
1895 1905 3.087253 TGGCCGGGGTCACCATAG 61.087 66.667 2.18 0.00 40.22 2.23
1896 1906 3.404438 GTGGCCGGGGTCACCATA 61.404 66.667 11.36 0.00 44.18 2.74
1901 1911 2.933287 AAGATGTGGCCGGGGTCA 60.933 61.111 2.18 0.00 0.00 4.02
1902 1912 2.438434 CAAGATGTGGCCGGGGTC 60.438 66.667 2.18 0.00 0.00 4.46
1903 1913 4.047125 CCAAGATGTGGCCGGGGT 62.047 66.667 2.18 0.00 41.72 4.95
1914 1924 0.108186 TTCGTGCATCTCGCCAAGAT 60.108 50.000 0.00 0.00 46.04 2.40
1915 1925 1.014044 GTTCGTGCATCTCGCCAAGA 61.014 55.000 0.00 0.00 41.33 3.02
1916 1926 1.421485 GTTCGTGCATCTCGCCAAG 59.579 57.895 0.00 0.00 41.33 3.61
1917 1927 2.379634 CGTTCGTGCATCTCGCCAA 61.380 57.895 0.00 0.00 41.33 4.52
1918 1928 2.809174 CGTTCGTGCATCTCGCCA 60.809 61.111 0.00 0.00 41.33 5.69
1919 1929 4.210304 GCGTTCGTGCATCTCGCC 62.210 66.667 14.26 0.00 41.33 5.54
1920 1930 4.210304 GGCGTTCGTGCATCTCGC 62.210 66.667 16.02 16.02 44.95 5.03
1921 1931 2.809174 TGGCGTTCGTGCATCTCG 60.809 61.111 0.00 0.00 36.28 4.04
1922 1932 2.740714 GGTGGCGTTCGTGCATCTC 61.741 63.158 0.00 0.00 36.28 2.75
1923 1933 2.742372 GGTGGCGTTCGTGCATCT 60.742 61.111 0.00 0.00 36.28 2.90
1924 1934 3.027170 CTGGTGGCGTTCGTGCATC 62.027 63.158 0.00 0.00 36.28 3.91
1925 1935 3.049674 CTGGTGGCGTTCGTGCAT 61.050 61.111 0.00 0.00 36.28 3.96
1928 1938 3.345808 CACCTGGTGGCGTTCGTG 61.346 66.667 19.23 0.00 36.63 4.35
1942 2024 1.222936 CTCCCACATCTGAGGCACC 59.777 63.158 0.00 0.00 0.00 5.01
1946 2028 1.140452 CCATCACTCCCACATCTGAGG 59.860 57.143 0.00 0.00 32.80 3.86
1954 2036 2.436646 CGTGGCCATCACTCCCAC 60.437 66.667 9.72 0.00 43.94 4.61
1958 2040 3.188786 GCGACGTGGCCATCACTC 61.189 66.667 9.72 0.00 43.94 3.51
2064 2146 2.043248 GGTAGGCGAGGGTGAGGA 60.043 66.667 0.00 0.00 0.00 3.71
2067 2149 2.439701 CGAGGTAGGCGAGGGTGA 60.440 66.667 0.00 0.00 0.00 4.02
2068 2150 3.528370 CCGAGGTAGGCGAGGGTG 61.528 72.222 0.00 0.00 0.00 4.61
2069 2151 4.057943 ACCGAGGTAGGCGAGGGT 62.058 66.667 0.00 0.00 33.69 4.34
2073 2155 2.678934 AAGCACCGAGGTAGGCGA 60.679 61.111 0.00 0.00 33.69 5.54
2157 2244 0.900182 TCCACTGACTCCTCACGCAT 60.900 55.000 0.00 0.00 0.00 4.73
2159 2246 1.066303 CTATCCACTGACTCCTCACGC 59.934 57.143 0.00 0.00 0.00 5.34
2171 2258 0.249398 GACCGGCAACACTATCCACT 59.751 55.000 0.00 0.00 0.00 4.00
2177 2264 3.697747 CCCGGACCGGCAACACTA 61.698 66.667 28.37 0.00 46.86 2.74
2193 2280 0.321387 GTGAAAGGGACGGAGAACCC 60.321 60.000 0.00 0.00 44.49 4.11
2227 2314 4.307908 AAGGAACGCGCGCAACAC 62.308 61.111 32.58 17.91 0.00 3.32
2228 2315 4.007940 GAAGGAACGCGCGCAACA 62.008 61.111 32.58 0.00 0.00 3.33
2229 2316 3.712881 AGAAGGAACGCGCGCAAC 61.713 61.111 32.58 19.90 0.00 4.17
2230 2317 3.711842 CAGAAGGAACGCGCGCAA 61.712 61.111 32.58 0.00 0.00 4.85
2231 2318 4.961511 ACAGAAGGAACGCGCGCA 62.962 61.111 32.58 0.00 0.00 6.09
2232 2319 4.430423 CACAGAAGGAACGCGCGC 62.430 66.667 32.58 23.91 0.00 6.86
2233 2320 3.777925 CCACAGAAGGAACGCGCG 61.778 66.667 30.96 30.96 0.00 6.86
2234 2321 2.357034 TCCACAGAAGGAACGCGC 60.357 61.111 5.73 0.00 33.93 6.86
2235 2322 1.006102 ACTCCACAGAAGGAACGCG 60.006 57.895 3.53 3.53 37.20 6.01
2236 2323 1.009389 CGACTCCACAGAAGGAACGC 61.009 60.000 0.00 0.00 37.20 4.84
2237 2324 0.388649 CCGACTCCACAGAAGGAACG 60.389 60.000 0.00 0.00 37.20 3.95
2238 2325 0.680061 ACCGACTCCACAGAAGGAAC 59.320 55.000 0.00 0.00 37.20 3.62
2244 2331 0.251608 TCATCCACCGACTCCACAGA 60.252 55.000 0.00 0.00 0.00 3.41
2253 2340 1.413812 CACCTCATCATCATCCACCGA 59.586 52.381 0.00 0.00 0.00 4.69
2254 2341 1.541889 CCACCTCATCATCATCCACCG 60.542 57.143 0.00 0.00 0.00 4.94
2255 2342 1.770658 TCCACCTCATCATCATCCACC 59.229 52.381 0.00 0.00 0.00 4.61
2269 2356 0.250640 CAAGAAGCAGCACTCCACCT 60.251 55.000 0.00 0.00 0.00 4.00
2279 2366 1.023513 CGCCTTCCTCCAAGAAGCAG 61.024 60.000 0.00 0.00 41.65 4.24


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

AutoCloner maintained by Alex Coulton.