Multiple sequence alignment - TraesCS7A01G566600

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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 TraesCS7A01G566600 chr7A 100.000 2774 0 0 1 2774 735821910 735819137 0.000000e+00 5123
1 TraesCS7A01G566600 chr7A 79.570 1909 347 31 1 1881 736006206 736004313 0.000000e+00 1325
2 TraesCS7A01G566600 chr7A 79.507 1908 351 29 1 1881 735843911 735842017 0.000000e+00 1321
3 TraesCS7A01G566600 chr7A 85.783 626 86 2 2149 2774 736090273 736089651 0.000000e+00 660
4 TraesCS7A01G566600 chr7A 84.824 626 76 8 2149 2774 735840387 735839781 1.830000e-171 612
5 TraesCS7A01G566600 chr7D 79.833 2747 468 59 1 2687 621261472 621264192 0.000000e+00 1925
6 TraesCS7A01G566600 chr7D 80.556 1908 331 29 1 1881 632143418 632145312 0.000000e+00 1432
7 TraesCS7A01G566600 chr7D 79.443 1902 359 26 1 1881 579761273 579759383 0.000000e+00 1317
8 TraesCS7A01G566600 chr7D 79.341 1912 343 42 1 1881 632098748 632100638 0.000000e+00 1295
9 TraesCS7A01G566600 chr7D 88.831 573 61 2 2149 2721 632146936 632147505 0.000000e+00 701
10 TraesCS7A01G566600 chr7D 78.205 624 122 10 2095 2711 555053298 555053914 1.210000e-103 387
11 TraesCS7A01G566600 chr1B 78.796 2773 507 51 1 2721 577925608 577922865 0.000000e+00 1788
12 TraesCS7A01G566600 chr3B 79.045 1990 372 37 1 1957 788256420 788254443 0.000000e+00 1323
13 TraesCS7A01G566600 chr7B 79.383 1911 348 33 1 1881 743652877 743654771 0.000000e+00 1304
14 TraesCS7A01G566600 chr7B 87.107 636 78 3 2140 2774 743656454 743657086 0.000000e+00 717
15 TraesCS7A01G566600 chr7B 86.328 629 81 4 2147 2774 744157179 744157803 0.000000e+00 680
16 TraesCS7A01G566600 chr7B 87.829 304 37 0 2418 2721 743715942 743716245 9.450000e-95 357
17 TraesCS7A01G566600 chr7B 77.256 532 108 10 2153 2679 744068101 744068624 1.610000e-77 300


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 TraesCS7A01G566600 chr7A 735819137 735821910 2773 True 5123.0 5123 100.0000 1 2774 1 chr7A.!!$R1 2773
1 TraesCS7A01G566600 chr7A 736004313 736006206 1893 True 1325.0 1325 79.5700 1 1881 1 chr7A.!!$R2 1880
2 TraesCS7A01G566600 chr7A 735839781 735843911 4130 True 966.5 1321 82.1655 1 2774 2 chr7A.!!$R4 2773
3 TraesCS7A01G566600 chr7A 736089651 736090273 622 True 660.0 660 85.7830 2149 2774 1 chr7A.!!$R3 625
4 TraesCS7A01G566600 chr7D 621261472 621264192 2720 False 1925.0 1925 79.8330 1 2687 1 chr7D.!!$F2 2686
5 TraesCS7A01G566600 chr7D 579759383 579761273 1890 True 1317.0 1317 79.4430 1 1881 1 chr7D.!!$R1 1880
6 TraesCS7A01G566600 chr7D 632098748 632100638 1890 False 1295.0 1295 79.3410 1 1881 1 chr7D.!!$F3 1880
7 TraesCS7A01G566600 chr7D 632143418 632147505 4087 False 1066.5 1432 84.6935 1 2721 2 chr7D.!!$F4 2720
8 TraesCS7A01G566600 chr7D 555053298 555053914 616 False 387.0 387 78.2050 2095 2711 1 chr7D.!!$F1 616
9 TraesCS7A01G566600 chr1B 577922865 577925608 2743 True 1788.0 1788 78.7960 1 2721 1 chr1B.!!$R1 2720
10 TraesCS7A01G566600 chr3B 788254443 788256420 1977 True 1323.0 1323 79.0450 1 1957 1 chr3B.!!$R1 1956
11 TraesCS7A01G566600 chr7B 743652877 743657086 4209 False 1010.5 1304 83.2450 1 2774 2 chr7B.!!$F4 2773
12 TraesCS7A01G566600 chr7B 744157179 744157803 624 False 680.0 680 86.3280 2147 2774 1 chr7B.!!$F3 627
13 TraesCS7A01G566600 chr7B 744068101 744068624 523 False 300.0 300 77.2560 2153 2679 1 chr7B.!!$F2 526

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
942 946 0.619832 TTGATGAGCTCTGCCCTCCT 60.62 55.0 16.19 0.0 0.0 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2043 2089 0.465097 CTTAGCAGCATGAGGGGGTG 60.465 60.0 0.0 0.0 39.69 4.61 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
27 28 7.231317 TGGATTAGTGAAGGATTTATTCATGGC 59.769 37.037 0.00 0.00 38.81 4.40
50 51 6.916932 GGCAGCTTGAATGATTTAGAAGAATC 59.083 38.462 0.00 0.00 36.73 2.52
90 91 7.013220 ACAATCAGCTGATATCTAGGAACCTA 58.987 38.462 28.92 0.00 33.73 3.08
108 109 7.737149 AGGAACCTAATAGAGCCAGATAAATCT 59.263 37.037 0.00 0.00 37.72 2.40
166 167 3.371898 TGTTCGCTCATTTGCTCAGTATG 59.628 43.478 0.00 0.00 37.54 2.39
170 171 3.558829 CGCTCATTTGCTCAGTATGTGAT 59.441 43.478 0.00 0.00 37.40 3.06
171 172 4.552184 CGCTCATTTGCTCAGTATGTGATG 60.552 45.833 0.00 0.00 37.40 3.07
191 192 8.043113 TGTGATGAAAGATGAAGCACTTATAGT 58.957 33.333 0.00 0.00 0.00 2.12
200 201 8.043113 AGATGAAGCACTTATAGTTCACAATGA 58.957 33.333 0.00 0.00 31.94 2.57
206 207 7.826252 AGCACTTATAGTTCACAATGAAGACAT 59.174 33.333 0.00 0.00 37.00 3.06
208 209 9.154847 CACTTATAGTTCACAATGAAGACATCA 57.845 33.333 0.00 0.00 43.67 3.07
225 226 9.928236 GAAGACATCAATATTCTTGCTAAACTC 57.072 33.333 0.00 0.00 29.54 3.01
265 266 5.471556 TCGGTTGTCTATAGAAACCAACA 57.528 39.130 27.79 17.38 42.93 3.33
266 267 6.045072 TCGGTTGTCTATAGAAACCAACAT 57.955 37.500 27.79 0.00 42.93 2.71
267 268 5.872617 TCGGTTGTCTATAGAAACCAACATG 59.127 40.000 27.79 21.13 42.93 3.21
270 271 6.183360 GGTTGTCTATAGAAACCAACATGCTC 60.183 42.308 25.86 12.79 42.44 4.26
276 277 3.771216 AGAAACCAACATGCTCCAATCT 58.229 40.909 0.00 0.00 0.00 2.40
283 284 3.159213 ACATGCTCCAATCTGGTGAAA 57.841 42.857 0.00 0.00 39.03 2.69
286 287 4.529377 ACATGCTCCAATCTGGTGAAATTT 59.471 37.500 0.00 0.00 39.03 1.82
292 293 5.976458 TCCAATCTGGTGAAATTTATTGGC 58.024 37.500 17.73 0.00 41.92 4.52
298 299 7.953005 TCTGGTGAAATTTATTGGCAATCTA 57.047 32.000 17.41 6.32 0.00 1.98
300 301 8.415553 TCTGGTGAAATTTATTGGCAATCTATG 58.584 33.333 17.41 0.00 0.00 2.23
353 357 5.363562 ACTATCCACATCAAGATGAAGCA 57.636 39.130 16.39 0.00 41.20 3.91
373 377 3.793129 GCATGGTGATTCATTGGCTAACG 60.793 47.826 0.00 0.00 0.00 3.18
379 383 5.335661 GGTGATTCATTGGCTAACGTTTCTT 60.336 40.000 5.91 0.00 0.00 2.52
408 412 5.345202 GCGGGTTCTACATATTGAATCTACG 59.655 44.000 0.00 0.00 0.00 3.51
468 472 1.134580 CACCTGAGGTATCTGGCACTG 60.135 57.143 2.59 0.00 45.92 3.66
510 514 2.181975 CTTCCAGGGAACATTGGCAAT 58.818 47.619 6.96 6.96 35.07 3.56
517 521 5.163280 CCAGGGAACATTGGCAATATGAAAT 60.163 40.000 13.23 0.00 0.00 2.17
546 550 1.909700 TCCTCAACCTTTGTGGATGC 58.090 50.000 5.75 0.00 45.48 3.91
550 554 1.680735 TCAACCTTTGTGGATGCACAC 59.319 47.619 20.63 2.05 38.36 3.82
579 583 6.520272 AGTGAATCTACCTGATAGCATTGTC 58.480 40.000 0.00 0.00 34.45 3.18
582 586 6.763135 TGAATCTACCTGATAGCATTGTCAAC 59.237 38.462 0.00 0.00 34.45 3.18
607 611 2.764572 GGCCAGCTGAGGTTACTTAGTA 59.235 50.000 17.39 0.00 33.16 1.82
621 625 8.211629 AGGTTACTTAGTATTCCAAGCATAAGG 58.788 37.037 13.51 0.00 0.00 2.69
636 640 4.714308 AGCATAAGGATGATACCTAGAGGC 59.286 45.833 0.00 0.00 39.62 4.70
640 644 4.757997 AGGATGATACCTAGAGGCTTCT 57.242 45.455 3.00 3.00 38.65 2.85
672 676 4.100189 ACAAGTATGAGGAGACTACATGGC 59.900 45.833 0.00 0.00 44.43 4.40
690 694 1.648467 GCTTTCGAGCCCACATGGAC 61.648 60.000 0.00 0.00 37.39 4.02
720 724 1.764134 TGTAGTTTGGACGAGTTGGGT 59.236 47.619 0.00 0.00 0.00 4.51
737 741 1.423921 GGGTCCTCTTTCCCAACTCAA 59.576 52.381 0.00 0.00 42.95 3.02
748 752 7.996385 TCTTTCCCAACTCAAACTTCTTAAAG 58.004 34.615 0.00 0.00 38.54 1.85
764 768 9.495572 ACTTCTTAAAGTAATTCAACTGGAGAG 57.504 33.333 0.00 0.00 43.98 3.20
792 796 2.217750 TCTGCTTCGTTTGCTGCTAAA 58.782 42.857 0.00 0.00 0.00 1.85
835 839 4.626042 ACATCTCATCGACCTATTCTTGC 58.374 43.478 0.00 0.00 0.00 4.01
859 863 1.551883 GCACCAGCAAATTGGGAGATT 59.448 47.619 0.00 0.00 42.76 2.40
862 866 4.141869 GCACCAGCAAATTGGGAGATTATT 60.142 41.667 0.00 0.00 42.76 1.40
867 871 6.408869 CAGCAAATTGGGAGATTATTGGTTT 58.591 36.000 0.00 0.00 0.00 3.27
869 873 5.585844 GCAAATTGGGAGATTATTGGTTTGG 59.414 40.000 0.00 0.00 0.00 3.28
870 874 6.710278 CAAATTGGGAGATTATTGGTTTGGT 58.290 36.000 0.00 0.00 0.00 3.67
877 881 6.890268 GGGAGATTATTGGTTTGGTAAAGAGT 59.110 38.462 0.00 0.00 0.00 3.24
879 883 9.628500 GGAGATTATTGGTTTGGTAAAGAGTAT 57.372 33.333 0.00 0.00 0.00 2.12
885 889 5.007682 TGGTTTGGTAAAGAGTATGAAGGC 58.992 41.667 0.00 0.00 0.00 4.35
892 896 6.183360 TGGTAAAGAGTATGAAGGCATCTCTC 60.183 42.308 0.00 0.00 37.70 3.20
894 898 5.946942 AAGAGTATGAAGGCATCTCTCAA 57.053 39.130 0.00 0.00 37.70 3.02
896 900 4.057432 GAGTATGAAGGCATCTCTCAAGC 58.943 47.826 0.00 0.00 36.50 4.01
916 920 2.349886 GCAGAGTAGCAACGAATTGAGG 59.650 50.000 0.00 0.00 38.15 3.86
942 946 0.619832 TTGATGAGCTCTGCCCTCCT 60.620 55.000 16.19 0.00 0.00 3.69
969 973 9.967346 CCTAGTGTAGAAAATCTTCATATCGAA 57.033 33.333 0.00 0.00 33.64 3.71
984 988 2.818751 TCGAAGGGTATTTTGGCCAT 57.181 45.000 6.09 0.00 0.00 4.40
1013 1017 2.800985 CGAGCTGGATGATGTCGACATT 60.801 50.000 30.46 17.10 36.57 2.71
1014 1018 2.543012 GAGCTGGATGATGTCGACATTG 59.457 50.000 30.46 16.94 36.57 2.82
1027 1031 0.678048 GACATTGACAGTGCCCCTCC 60.678 60.000 0.00 0.00 0.00 4.30
1041 1045 0.764890 CCCTCCACAACCTGAAGACA 59.235 55.000 0.00 0.00 0.00 3.41
1046 1050 4.466370 CCTCCACAACCTGAAGACACTATA 59.534 45.833 0.00 0.00 0.00 1.31
1047 1051 5.129485 CCTCCACAACCTGAAGACACTATAT 59.871 44.000 0.00 0.00 0.00 0.86
1126 1130 0.599558 GCATTTGCTTCAGGTCTGCA 59.400 50.000 0.00 0.00 38.21 4.41
1127 1131 1.000060 GCATTTGCTTCAGGTCTGCAA 60.000 47.619 0.00 0.00 43.69 4.08
1200 1204 6.493189 ACACCATTTCCAAGGTTAAACAAT 57.507 33.333 0.00 0.00 35.52 2.71
1216 1220 9.719355 GGTTAAACAATTTGTCCTTAATTGGAT 57.281 29.630 1.83 4.25 43.78 3.41
1254 1258 1.298014 GGAGTGGGAGGAGCAAGTG 59.702 63.158 0.00 0.00 0.00 3.16
1260 1264 1.682257 GGAGGAGCAAGTGGAAGCT 59.318 57.895 0.00 0.00 45.25 3.74
1266 1270 0.329261 AGCAAGTGGAAGCTATGCCA 59.671 50.000 0.00 0.00 39.78 4.92
1288 1292 3.007398 ACATTTGGACGAGCTCTTTCTCT 59.993 43.478 12.85 0.00 0.00 3.10
1314 1318 1.367471 CAGACTGAGGCGTGTTCCA 59.633 57.895 0.00 0.00 0.00 3.53
1320 1324 1.966451 GAGGCGTGTTCCACTTGGG 60.966 63.158 0.00 0.00 35.41 4.12
1377 1381 9.559732 TTAATCATACAAGATATCCAACACCTG 57.440 33.333 0.00 0.00 0.00 4.00
1383 1387 5.367937 ACAAGATATCCAACACCTGAGCTAT 59.632 40.000 0.00 0.00 0.00 2.97
1399 1403 5.971763 TGAGCTATCTTGAGAACTTTCCTC 58.028 41.667 0.00 0.00 0.00 3.71
1402 1406 7.397476 TGAGCTATCTTGAGAACTTTCCTCTTA 59.603 37.037 0.00 0.00 0.00 2.10
1410 1414 8.924511 TTGAGAACTTTCCTCTTATTGTTGAT 57.075 30.769 0.00 0.00 0.00 2.57
1417 1421 9.965902 ACTTTCCTCTTATTGTTGATCTTACAT 57.034 29.630 0.00 0.00 0.00 2.29
1458 1462 2.242196 GGAGAGGATCACCAATTTCCCA 59.758 50.000 0.00 0.00 45.93 4.37
1500 1504 4.415596 TCACCTATTGCCCAAAGTTGAAT 58.584 39.130 0.00 0.00 0.00 2.57
1525 1529 1.109920 GGAGAGTATCCCTGCGCTCA 61.110 60.000 9.73 0.00 43.01 4.26
1527 1531 1.342819 GAGAGTATCCCTGCGCTCAAT 59.657 52.381 9.73 0.00 34.78 2.57
1529 1533 3.169099 AGAGTATCCCTGCGCTCAATAT 58.831 45.455 9.73 0.00 33.66 1.28
1599 1603 6.318648 TGCGAGATATAAAGCCAAGACATTTT 59.681 34.615 0.00 0.00 0.00 1.82
1602 1606 8.397906 CGAGATATAAAGCCAAGACATTTTCAA 58.602 33.333 0.00 0.00 0.00 2.69
1615 1619 7.472334 AGACATTTTCAATTATTCTGCAGGT 57.528 32.000 15.13 5.80 0.00 4.00
1627 1631 1.077501 TGCAGGTTATGGCTGCTCC 60.078 57.895 0.00 0.00 43.74 4.70
1668 1672 2.531771 TCTGGTATCGAGTGGGACAAA 58.468 47.619 0.00 0.00 44.16 2.83
1677 1681 1.541588 GAGTGGGACAAATTCAGCCAC 59.458 52.381 0.00 0.00 44.16 5.01
1710 1714 3.076621 CAAGGCATATGCGTATGATGGT 58.923 45.455 26.65 7.82 40.12 3.55
1712 1716 4.760530 AGGCATATGCGTATGATGGTAT 57.239 40.909 26.65 5.00 40.12 2.73
1713 1717 4.445453 AGGCATATGCGTATGATGGTATG 58.555 43.478 26.65 3.58 40.12 2.39
1717 1721 5.351189 GCATATGCGTATGATGGTATGAACA 59.649 40.000 26.65 0.00 40.12 3.18
1725 1729 7.409697 CGTATGATGGTATGAACAAAAGGAAG 58.590 38.462 0.00 0.00 0.00 3.46
1735 1739 5.441500 TGAACAAAAGGAAGTGGTATGTGA 58.558 37.500 0.00 0.00 0.00 3.58
1775 1784 7.093322 ACAACTTCAAGATTGATTCATAGCC 57.907 36.000 0.00 0.00 37.00 3.93
1781 1790 4.348863 AGATTGATTCATAGCCGCTCTT 57.651 40.909 0.00 0.00 0.00 2.85
1790 1799 5.738619 TCATAGCCGCTCTTCCATATTTA 57.261 39.130 0.00 0.00 0.00 1.40
1832 1850 8.419076 AAAATTACACTTTGCCTTAGTTTGTG 57.581 30.769 0.00 0.00 0.00 3.33
1833 1851 5.508200 TTACACTTTGCCTTAGTTTGTGG 57.492 39.130 0.00 0.00 0.00 4.17
1841 1861 2.290071 GCCTTAGTTTGTGGGCACTCTA 60.290 50.000 0.00 0.00 43.59 2.43
1843 1863 4.394729 CCTTAGTTTGTGGGCACTCTAAA 58.605 43.478 0.00 0.00 0.00 1.85
1848 1868 3.788227 TTGTGGGCACTCTAAATCTGT 57.212 42.857 0.00 0.00 0.00 3.41
1851 1871 3.264193 TGTGGGCACTCTAAATCTGTCAT 59.736 43.478 0.00 0.00 0.00 3.06
1881 1902 6.530019 AGTTTGTTTCATTTTGTCTCCTGT 57.470 33.333 0.00 0.00 0.00 4.00
1905 1933 6.922247 ATATATATGCTGCATGAAGACTGC 57.078 37.500 24.59 0.00 40.10 4.40
1915 1943 5.623169 TGCATGAAGACTGCATATATTCCA 58.377 37.500 0.00 0.00 44.30 3.53
1919 1947 7.551974 GCATGAAGACTGCATATATTCCATACT 59.448 37.037 0.00 0.00 39.46 2.12
1951 1979 7.294676 TGTTTCACATGATTAAGTCATCTCG 57.705 36.000 0.00 0.00 45.76 4.04
1954 1982 6.220726 TCACATGATTAAGTCATCTCGGAA 57.779 37.500 0.00 0.00 45.76 4.30
1960 1988 6.276091 TGATTAAGTCATCTCGGAAGACATG 58.724 40.000 10.45 0.00 37.79 3.21
1961 1989 5.661056 TTAAGTCATCTCGGAAGACATGT 57.339 39.130 0.00 0.00 37.69 3.21
1963 1991 4.909696 AGTCATCTCGGAAGACATGTAG 57.090 45.455 0.00 0.00 37.69 2.74
1965 1993 4.336993 AGTCATCTCGGAAGACATGTAGAC 59.663 45.833 0.00 0.00 37.69 2.59
1986 2022 4.905429 ACATGGTTGTACTAGACATGCAA 58.095 39.130 16.40 0.00 41.85 4.08
1987 2023 5.312895 ACATGGTTGTACTAGACATGCAAA 58.687 37.500 16.40 0.00 41.85 3.68
1994 2030 8.175716 GGTTGTACTAGACATGCAAATTAAGTC 58.824 37.037 0.00 0.00 38.07 3.01
2004 2040 6.015519 ACATGCAAATTAAGTCTTAGCCACAA 60.016 34.615 0.00 0.00 0.00 3.33
2006 2042 5.161358 GCAAATTAAGTCTTAGCCACAACC 58.839 41.667 0.00 0.00 0.00 3.77
2007 2043 5.390613 CAAATTAAGTCTTAGCCACAACCG 58.609 41.667 0.00 0.00 0.00 4.44
2009 2045 1.878953 AAGTCTTAGCCACAACCGTG 58.121 50.000 0.00 0.00 43.21 4.94
2010 2046 1.045407 AGTCTTAGCCACAACCGTGA 58.955 50.000 0.00 0.00 46.80 4.35
2011 2047 1.000955 AGTCTTAGCCACAACCGTGAG 59.999 52.381 0.00 0.00 46.80 3.51
2012 2048 0.320421 TCTTAGCCACAACCGTGAGC 60.320 55.000 0.00 0.00 46.80 4.26
2013 2049 0.602638 CTTAGCCACAACCGTGAGCA 60.603 55.000 8.18 0.00 46.80 4.26
2016 2052 1.081242 GCCACAACCGTGAGCATTG 60.081 57.895 0.00 0.00 46.80 2.82
2019 2065 1.066908 CCACAACCGTGAGCATTGTTT 59.933 47.619 0.00 0.00 46.80 2.83
2021 2067 3.243234 CCACAACCGTGAGCATTGTTTAA 60.243 43.478 0.00 0.00 46.80 1.52
2025 2071 1.135402 CCGTGAGCATTGTTTAAGGCC 60.135 52.381 0.00 0.00 44.22 5.19
2028 2074 1.892474 TGAGCATTGTTTAAGGCCACC 59.108 47.619 5.01 0.00 44.22 4.61
2029 2075 1.204704 GAGCATTGTTTAAGGCCACCC 59.795 52.381 5.01 0.00 44.22 4.61
2033 2079 2.286365 TTGTTTAAGGCCACCCTCTG 57.714 50.000 5.01 0.00 41.90 3.35
2038 2084 3.366052 TTAAGGCCACCCTCTGATTTC 57.634 47.619 5.01 0.00 41.90 2.17
2043 2089 0.804989 CCACCCTCTGATTTCGTTGC 59.195 55.000 0.00 0.00 0.00 4.17
2046 2092 0.804989 CCCTCTGATTTCGTTGCACC 59.195 55.000 0.00 0.00 0.00 5.01
2047 2093 0.804989 CCTCTGATTTCGTTGCACCC 59.195 55.000 0.00 0.00 0.00 4.61
2055 2105 3.443045 CGTTGCACCCCCTCATGC 61.443 66.667 0.00 0.00 42.40 4.06
2063 2113 1.150081 CCCCCTCATGCTGCTAAGG 59.850 63.158 0.00 4.95 0.00 2.69
2074 2124 6.158598 TCATGCTGCTAAGGATTTGTTTTTC 58.841 36.000 0.00 0.00 30.96 2.29
2079 2129 7.014230 TGCTGCTAAGGATTTGTTTTTCTACTT 59.986 33.333 0.00 0.00 0.00 2.24
2084 2134 9.678941 CTAAGGATTTGTTTTTCTACTTGTTCC 57.321 33.333 0.00 0.00 0.00 3.62
2086 2136 6.320418 AGGATTTGTTTTTCTACTTGTTCCGT 59.680 34.615 0.00 0.00 0.00 4.69
2087 2137 7.499895 AGGATTTGTTTTTCTACTTGTTCCGTA 59.500 33.333 0.00 0.00 0.00 4.02
2088 2138 7.801783 GGATTTGTTTTTCTACTTGTTCCGTAG 59.198 37.037 0.00 0.00 36.53 3.51
2089 2139 7.846644 TTTGTTTTTCTACTTGTTCCGTAGA 57.153 32.000 0.00 0.00 41.00 2.59
2091 2141 7.647907 TGTTTTTCTACTTGTTCCGTAGATC 57.352 36.000 0.00 0.00 41.94 2.75
2092 2142 7.211573 TGTTTTTCTACTTGTTCCGTAGATCA 58.788 34.615 0.00 0.00 41.94 2.92
2093 2143 7.711772 TGTTTTTCTACTTGTTCCGTAGATCAA 59.288 33.333 0.00 0.00 41.94 2.57
2101 2151 5.925506 TGTTCCGTAGATCAATTACCTCA 57.074 39.130 0.00 0.00 0.00 3.86
2106 2156 7.649533 TCCGTAGATCAATTACCTCAAGTTA 57.350 36.000 0.00 0.00 0.00 2.24
2141 2191 9.515226 AAGAGTAATATGTTTGTTCTTGGCTTA 57.485 29.630 0.00 0.00 0.00 3.09
2194 2253 4.439305 TGCCATGCAGAAACTTTATCAC 57.561 40.909 0.00 0.00 33.32 3.06
2205 2264 7.769044 GCAGAAACTTTATCACCTTCTATGGTA 59.231 37.037 0.00 0.00 38.45 3.25
2206 2265 9.838339 CAGAAACTTTATCACCTTCTATGGTAT 57.162 33.333 0.00 0.00 38.45 2.73
2210 2269 9.614792 AACTTTATCACCTTCTATGGTATTCAC 57.385 33.333 0.00 0.00 38.45 3.18
2211 2270 8.993424 ACTTTATCACCTTCTATGGTATTCACT 58.007 33.333 0.00 0.00 38.45 3.41
2215 2274 7.727578 TCACCTTCTATGGTATTCACTACAA 57.272 36.000 0.00 0.00 38.45 2.41
2256 2315 8.974060 TGTACAAAATGAGAAGAAGTACCTTT 57.026 30.769 0.00 0.00 31.80 3.11
2279 2338 5.102953 AGTTATATCTGCAGCTTGGTGAA 57.897 39.130 9.47 0.00 0.00 3.18
2286 2345 2.116125 AGCTTGGTGAAGGTGCCC 59.884 61.111 0.00 0.00 38.51 5.36
2287 2346 2.991540 GCTTGGTGAAGGTGCCCC 60.992 66.667 0.00 0.00 0.00 5.80
2309 4037 6.296026 CCCTTTCCGAAGATATGATGGTAAA 58.704 40.000 0.00 0.00 34.71 2.01
2322 4050 3.810941 TGATGGTAAAACGTCACACCTTC 59.189 43.478 15.61 15.61 36.35 3.46
2331 4059 3.067106 ACGTCACACCTTCATTGATGAC 58.933 45.455 7.11 7.11 36.36 3.06
2354 4082 3.755378 AGAGTGTTGTCTTTCCATGATGC 59.245 43.478 0.00 0.00 0.00 3.91
2385 4113 4.341366 TGCTCTGAGAATGTTGAACTCA 57.659 40.909 9.28 0.00 38.16 3.41
2445 4173 0.322322 ATGGGTCAACGGTTTCGCTA 59.678 50.000 0.00 0.00 40.63 4.26
2456 4184 4.813027 ACGGTTTCGCTATTAACTCAGAA 58.187 39.130 0.00 0.00 40.63 3.02
2470 4198 5.757850 AACTCAGAAGTTTGTTAAGGCTG 57.242 39.130 0.00 0.00 43.28 4.85
2567 4295 1.494721 GATCCATGGCCTCCCAAACTA 59.505 52.381 6.96 0.00 46.14 2.24
2664 4392 2.100797 CATGCCGTGGTTGATGCG 59.899 61.111 0.00 0.00 0.00 4.73
2679 4407 2.061773 GATGCGGATATGAGGTTCACG 58.938 52.381 0.00 0.00 0.00 4.35
2721 4449 4.574674 AGGTAGCATGAACCAATCAAGA 57.425 40.909 17.19 0.00 42.54 3.02
2722 4450 5.121380 AGGTAGCATGAACCAATCAAGAT 57.879 39.130 17.19 0.00 42.54 2.40
2724 4452 5.954150 AGGTAGCATGAACCAATCAAGATTT 59.046 36.000 17.19 0.00 42.54 2.17
2750 4478 1.454722 GACGCTTATGTCGTCGAGTC 58.545 55.000 0.00 0.00 45.19 3.36
2756 4484 1.022982 TATGTCGTCGAGTCCTGCGT 61.023 55.000 0.00 0.00 0.00 5.24
2758 4486 3.733960 TCGTCGAGTCCTGCGTGG 61.734 66.667 0.00 0.00 37.10 4.94
2767 4495 2.358737 CCTGCGTGGAGGGTGTTC 60.359 66.667 0.00 0.00 38.35 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 8.129840 CCAGATTCTTCTAAATCATTCAAGCTG 58.870 37.037 0.00 0.00 37.98 4.24
50 51 8.363390 TCAGCTGATTGTAGTAATATCTTCCAG 58.637 37.037 13.74 0.00 0.00 3.86
70 71 8.815565 TCTATTAGGTTCCTAGATATCAGCTG 57.184 38.462 7.63 7.63 0.00 4.24
73 74 7.836685 TGGCTCTATTAGGTTCCTAGATATCAG 59.163 40.741 5.32 0.66 0.00 2.90
112 113 7.998580 TGCATGCTACAATAAGATTGATCAAA 58.001 30.769 20.33 0.00 0.00 2.69
166 167 8.430801 ACTATAAGTGCTTCATCTTTCATCAC 57.569 34.615 0.00 0.00 0.00 3.06
170 171 7.877612 TGTGAACTATAAGTGCTTCATCTTTCA 59.122 33.333 0.00 0.00 0.00 2.69
171 172 8.256611 TGTGAACTATAAGTGCTTCATCTTTC 57.743 34.615 0.00 0.00 0.00 2.62
200 201 9.453572 TGAGTTTAGCAAGAATATTGATGTCTT 57.546 29.630 0.00 0.00 31.76 3.01
225 226 5.424121 ACCGAAGAAACTTCTGTGAATTG 57.576 39.130 7.53 0.00 37.65 2.32
234 235 8.433893 GTTTCTATAGACAACCGAAGAAACTTC 58.566 37.037 15.08 0.00 44.60 3.01
265 266 7.270047 CAATAAATTTCACCAGATTGGAGCAT 58.730 34.615 1.40 0.00 40.96 3.79
266 267 6.351202 CCAATAAATTTCACCAGATTGGAGCA 60.351 38.462 17.69 0.00 43.95 4.26
267 268 6.044682 CCAATAAATTTCACCAGATTGGAGC 58.955 40.000 17.69 0.00 43.95 4.70
270 271 5.732633 TGCCAATAAATTTCACCAGATTGG 58.267 37.500 18.04 18.04 44.02 3.16
276 277 6.985645 GCATAGATTGCCAATAAATTTCACCA 59.014 34.615 0.00 0.00 46.15 4.17
300 301 1.775039 TTCTCACGTGCTGCTTGTGC 61.775 55.000 11.67 0.00 40.20 4.57
303 304 0.870393 ATGTTCTCACGTGCTGCTTG 59.130 50.000 11.67 0.00 0.00 4.01
304 305 1.597742 AATGTTCTCACGTGCTGCTT 58.402 45.000 11.67 0.00 0.00 3.91
312 313 7.706607 TGGATAGTTGAGATTAATGTTCTCACG 59.293 37.037 6.74 0.00 46.92 4.35
339 343 5.067283 TGAATCACCATGCTTCATCTTGATG 59.933 40.000 4.35 4.35 28.79 3.07
353 357 3.620488 ACGTTAGCCAATGAATCACCAT 58.380 40.909 0.00 0.00 0.00 3.55
373 377 1.594331 AGAACCCGCAGACAAGAAAC 58.406 50.000 0.00 0.00 0.00 2.78
379 383 3.449377 TCAATATGTAGAACCCGCAGACA 59.551 43.478 0.00 0.00 0.00 3.41
510 514 7.615365 AGGTTGAGGAACTGCAATAATTTCATA 59.385 33.333 0.00 0.00 41.55 2.15
517 521 4.892934 ACAAAGGTTGAGGAACTGCAATAA 59.107 37.500 0.00 0.00 41.55 1.40
546 550 6.025749 TCAGGTAGATTCACTAGTTGTGTG 57.974 41.667 4.63 0.00 46.27 3.82
550 554 7.043961 TGCTATCAGGTAGATTCACTAGTTG 57.956 40.000 0.00 0.00 38.19 3.16
553 557 7.665690 ACAATGCTATCAGGTAGATTCACTAG 58.334 38.462 0.00 0.00 38.19 2.57
555 559 6.098838 TGACAATGCTATCAGGTAGATTCACT 59.901 38.462 0.00 0.00 38.19 3.41
564 568 4.012374 CAAGGTTGACAATGCTATCAGGT 58.988 43.478 0.00 0.00 0.00 4.00
579 583 1.975407 CCTCAGCTGGCCAAGGTTG 60.975 63.158 15.13 4.47 33.14 3.77
582 586 0.678048 GTAACCTCAGCTGGCCAAGG 60.678 60.000 18.11 18.11 34.94 3.61
607 611 6.460103 AGGTATCATCCTTATGCTTGGAAT 57.540 37.500 0.00 0.00 35.81 3.01
621 625 3.366883 CGCAGAAGCCTCTAGGTATCATC 60.367 52.174 0.00 0.00 37.52 2.92
636 640 2.724977 TACTTGTCAGACCGCAGAAG 57.275 50.000 0.00 0.00 0.00 2.85
640 644 1.204704 CCTCATACTTGTCAGACCGCA 59.795 52.381 0.00 0.00 0.00 5.69
672 676 1.361668 CGTCCATGTGGGCTCGAAAG 61.362 60.000 1.74 0.00 37.76 2.62
690 694 2.482721 GTCCAAACTACACCAATCACCG 59.517 50.000 0.00 0.00 0.00 4.94
720 724 4.166144 AGAAGTTTGAGTTGGGAAAGAGGA 59.834 41.667 0.00 0.00 0.00 3.71
737 741 9.847224 TCTCCAGTTGAATTACTTTAAGAAGTT 57.153 29.630 0.00 0.00 43.48 2.66
748 752 8.254508 AGAAGATACACTCTCCAGTTGAATTAC 58.745 37.037 0.00 0.00 31.03 1.89
764 768 3.433615 AGCAAACGAAGCAGAAGATACAC 59.566 43.478 0.00 0.00 0.00 2.90
819 823 2.286294 GCAGTGCAAGAATAGGTCGATG 59.714 50.000 11.09 0.00 0.00 3.84
850 854 7.242359 TCTTTACCAAACCAATAATCTCCCAA 58.758 34.615 0.00 0.00 0.00 4.12
859 863 7.338449 GCCTTCATACTCTTTACCAAACCAATA 59.662 37.037 0.00 0.00 0.00 1.90
862 866 5.007682 GCCTTCATACTCTTTACCAAACCA 58.992 41.667 0.00 0.00 0.00 3.67
867 871 5.663106 AGAGATGCCTTCATACTCTTTACCA 59.337 40.000 0.00 0.00 35.56 3.25
869 873 6.810911 TGAGAGATGCCTTCATACTCTTTAC 58.189 40.000 0.00 0.00 37.35 2.01
870 874 7.423844 TTGAGAGATGCCTTCATACTCTTTA 57.576 36.000 0.00 0.00 37.35 1.85
877 881 3.708121 TCTGCTTGAGAGATGCCTTCATA 59.292 43.478 0.00 0.00 31.96 2.15
879 883 1.904537 TCTGCTTGAGAGATGCCTTCA 59.095 47.619 0.00 0.00 0.00 3.02
892 896 3.433274 TCAATTCGTTGCTACTCTGCTTG 59.567 43.478 0.00 0.00 0.00 4.01
894 898 3.257393 CTCAATTCGTTGCTACTCTGCT 58.743 45.455 0.00 0.00 0.00 4.24
896 900 3.849911 TCCTCAATTCGTTGCTACTCTG 58.150 45.455 0.00 0.00 0.00 3.35
901 905 2.301870 ACACCTCCTCAATTCGTTGCTA 59.698 45.455 0.00 0.00 0.00 3.49
916 920 1.736681 GCAGAGCTCATCAAACACCTC 59.263 52.381 17.77 0.00 0.00 3.85
942 946 9.350951 TCGATATGAAGATTTTCTACACTAGGA 57.649 33.333 0.00 0.00 34.31 2.94
969 973 3.365472 GAGTTGATGGCCAAAATACCCT 58.635 45.455 10.96 0.54 36.36 4.34
984 988 0.614697 TCATCCAGCTCGGGAGTTGA 60.615 55.000 13.26 0.00 41.41 3.18
1013 1017 2.075566 TTGTGGAGGGGCACTGTCA 61.076 57.895 0.00 0.00 0.00 3.58
1014 1018 1.600916 GTTGTGGAGGGGCACTGTC 60.601 63.158 0.00 0.00 0.00 3.51
1027 1031 9.003658 AGAAAAATATAGTGTCTTCAGGTTGTG 57.996 33.333 0.00 0.00 0.00 3.33
1041 1045 6.485171 ACAAGCCAGGTCAGAAAAATATAGT 58.515 36.000 0.00 0.00 0.00 2.12
1046 1050 3.493176 GCAACAAGCCAGGTCAGAAAAAT 60.493 43.478 0.00 0.00 37.23 1.82
1047 1051 2.159114 GCAACAAGCCAGGTCAGAAAAA 60.159 45.455 0.00 0.00 37.23 1.94
1151 1155 0.694771 TGCCTGCAAGAATCCAGTCT 59.305 50.000 0.00 0.00 34.07 3.24
1179 1183 7.342581 ACAAATTGTTTAACCTTGGAAATGGT 58.657 30.769 0.00 0.00 38.35 3.55
1200 1204 5.398236 TCCACCAATCCAATTAAGGACAAA 58.602 37.500 0.00 0.00 41.30 2.83
1216 1220 0.698238 CACTCCTCCCATTCCACCAA 59.302 55.000 0.00 0.00 0.00 3.67
1254 1258 2.099756 GTCCAAATGTGGCATAGCTTCC 59.900 50.000 0.00 0.00 45.54 3.46
1260 1264 1.065491 AGCTCGTCCAAATGTGGCATA 60.065 47.619 0.00 0.00 45.54 3.14
1266 1270 3.007398 AGAGAAAGAGCTCGTCCAAATGT 59.993 43.478 8.37 0.00 39.87 2.71
1275 1279 3.928992 TGCAATTACAGAGAAAGAGCTCG 59.071 43.478 8.37 0.00 39.87 5.03
1284 1288 3.368843 GCCTCAGTCTGCAATTACAGAGA 60.369 47.826 8.70 3.43 47.00 3.10
1288 1292 1.001974 ACGCCTCAGTCTGCAATTACA 59.998 47.619 0.00 0.00 0.00 2.41
1314 1318 0.901580 CATTGGAGGCAAGCCCAAGT 60.902 55.000 7.62 0.00 44.64 3.16
1377 1381 6.220726 AGAGGAAAGTTCTCAAGATAGCTC 57.779 41.667 0.00 0.00 33.92 4.09
1383 1387 8.210946 TCAACAATAAGAGGAAAGTTCTCAAGA 58.789 33.333 0.00 0.00 33.92 3.02
1399 1403 8.461222 TCCAAGCAATGTAAGATCAACAATAAG 58.539 33.333 5.17 0.00 0.00 1.73
1402 1406 6.839124 TCCAAGCAATGTAAGATCAACAAT 57.161 33.333 5.17 0.00 0.00 2.71
1453 1457 2.592102 AGCTTCTGCAGATTTGGGAA 57.408 45.000 19.04 0.00 42.74 3.97
1458 1462 4.397417 GTGATGGTAAGCTTCTGCAGATTT 59.603 41.667 19.04 14.50 42.74 2.17
1500 1504 1.489481 CAGGGATACTCTCCAGCACA 58.511 55.000 0.00 0.00 46.98 4.57
1525 1529 9.125026 GGTGTAATCTTCAAGGATCAACATATT 57.875 33.333 0.00 0.00 30.13 1.28
1527 1531 7.629157 TGGTGTAATCTTCAAGGATCAACATA 58.371 34.615 0.00 0.00 30.13 2.29
1529 1533 5.875224 TGGTGTAATCTTCAAGGATCAACA 58.125 37.500 0.00 0.00 0.00 3.33
1599 1603 5.300034 CAGCCATAACCTGCAGAATAATTGA 59.700 40.000 17.39 0.00 0.00 2.57
1615 1619 0.613260 ACTGAACGGAGCAGCCATAA 59.387 50.000 0.00 0.00 36.86 1.90
1627 1631 3.188786 GCCTGCGGCTACTGAACG 61.189 66.667 11.61 0.00 46.69 3.95
1644 1648 2.039418 TCCCACTCGATACCAGATTGG 58.961 52.381 0.00 0.00 45.02 3.16
1668 1672 1.028330 CATGCTCCACGTGGCTGAAT 61.028 55.000 30.25 20.51 34.44 2.57
1677 1681 1.028330 ATGCCTTGACATGCTCCACG 61.028 55.000 0.00 0.00 0.00 4.94
1710 1714 7.227873 TCACATACCACTTCCTTTTGTTCATA 58.772 34.615 0.00 0.00 0.00 2.15
1712 1716 5.441500 TCACATACCACTTCCTTTTGTTCA 58.558 37.500 0.00 0.00 0.00 3.18
1713 1717 6.016276 ACATCACATACCACTTCCTTTTGTTC 60.016 38.462 0.00 0.00 0.00 3.18
1717 1721 6.430000 GTGTACATCACATACCACTTCCTTTT 59.570 38.462 0.00 0.00 45.51 2.27
1762 1766 3.181451 TGGAAGAGCGGCTATGAATCAAT 60.181 43.478 0.60 0.00 0.00 2.57
1764 1768 1.762370 TGGAAGAGCGGCTATGAATCA 59.238 47.619 0.60 0.00 0.00 2.57
1775 1784 6.984474 TCTGTACCTTTAAATATGGAAGAGCG 59.016 38.462 0.00 0.00 0.00 5.03
1809 1818 6.462347 CCCACAAACTAAGGCAAAGTGTAATT 60.462 38.462 0.00 0.00 0.00 1.40
1813 1822 2.693074 CCCACAAACTAAGGCAAAGTGT 59.307 45.455 0.00 0.00 0.00 3.55
1814 1823 2.545742 GCCCACAAACTAAGGCAAAGTG 60.546 50.000 0.00 0.00 45.07 3.16
1821 1839 2.568623 AGAGTGCCCACAAACTAAGG 57.431 50.000 0.82 0.00 0.00 2.69
1832 1850 5.904362 AAAATGACAGATTTAGAGTGCCC 57.096 39.130 0.00 0.00 0.00 5.36
1873 1894 7.720442 TCATGCAGCATATATATACAGGAGAC 58.280 38.462 7.82 0.00 0.00 3.36
1942 1970 4.336993 GTCTACATGTCTTCCGAGATGACT 59.663 45.833 0.00 0.00 41.98 3.41
1946 1974 5.193663 CATGTCTACATGTCTTCCGAGAT 57.806 43.478 13.76 0.00 46.40 2.75
1960 1988 5.749109 GCATGTCTAGTACAACCATGTCTAC 59.251 44.000 13.04 0.00 42.70 2.59
1961 1989 5.420739 TGCATGTCTAGTACAACCATGTCTA 59.579 40.000 13.04 0.00 42.70 2.59
1963 1991 4.503910 TGCATGTCTAGTACAACCATGTC 58.496 43.478 13.04 8.34 42.70 3.06
1965 1993 5.878332 TTTGCATGTCTAGTACAACCATG 57.122 39.130 0.00 3.29 42.70 3.66
1968 1996 8.040716 ACTTAATTTGCATGTCTAGTACAACC 57.959 34.615 0.00 0.00 42.70 3.77
1974 2010 7.281100 GGCTAAGACTTAATTTGCATGTCTAGT 59.719 37.037 6.53 0.00 37.05 2.57
1986 2022 4.454504 CACGGTTGTGGCTAAGACTTAATT 59.545 41.667 0.00 0.00 42.59 1.40
1987 2023 4.000988 CACGGTTGTGGCTAAGACTTAAT 58.999 43.478 0.00 0.00 42.59 1.40
1994 2030 0.602638 TGCTCACGGTTGTGGCTAAG 60.603 55.000 9.23 0.00 46.42 2.18
2004 2040 1.539827 GCCTTAAACAATGCTCACGGT 59.460 47.619 0.00 0.00 0.00 4.83
2006 2042 1.539388 TGGCCTTAAACAATGCTCACG 59.461 47.619 3.32 0.00 0.00 4.35
2007 2043 2.352715 GGTGGCCTTAAACAATGCTCAC 60.353 50.000 3.32 0.00 0.00 3.51
2009 2045 1.204704 GGGTGGCCTTAAACAATGCTC 59.795 52.381 3.32 0.00 0.00 4.26
2010 2046 1.203174 AGGGTGGCCTTAAACAATGCT 60.203 47.619 3.32 0.00 0.00 3.79
2011 2047 1.204704 GAGGGTGGCCTTAAACAATGC 59.795 52.381 3.32 0.00 0.00 3.56
2012 2048 2.493278 CAGAGGGTGGCCTTAAACAATG 59.507 50.000 3.32 0.00 0.00 2.82
2013 2049 2.378547 TCAGAGGGTGGCCTTAAACAAT 59.621 45.455 3.32 0.00 0.00 2.71
2016 2052 2.808906 ATCAGAGGGTGGCCTTAAAC 57.191 50.000 3.32 0.00 0.00 2.01
2019 2065 1.209504 CGAAATCAGAGGGTGGCCTTA 59.790 52.381 3.32 0.00 0.00 2.69
2021 2067 1.201429 ACGAAATCAGAGGGTGGCCT 61.201 55.000 3.32 0.00 0.00 5.19
2025 2071 1.197721 GTGCAACGAAATCAGAGGGTG 59.802 52.381 0.00 0.00 0.00 4.61
2028 2074 0.804989 GGGTGCAACGAAATCAGAGG 59.195 55.000 0.00 0.00 38.12 3.69
2029 2075 0.804989 GGGGTGCAACGAAATCAGAG 59.195 55.000 0.00 0.00 38.12 3.35
2033 2079 0.608035 TGAGGGGGTGCAACGAAATC 60.608 55.000 0.00 0.00 38.12 2.17
2038 2084 3.443045 GCATGAGGGGGTGCAACG 61.443 66.667 0.00 0.00 40.94 4.10
2043 2089 0.465097 CTTAGCAGCATGAGGGGGTG 60.465 60.000 0.00 0.00 39.69 4.61
2046 2092 0.769873 ATCCTTAGCAGCATGAGGGG 59.230 55.000 0.00 0.00 39.69 4.79
2047 2093 2.621998 CAAATCCTTAGCAGCATGAGGG 59.378 50.000 0.00 0.00 39.69 4.30
2055 2105 8.352942 ACAAGTAGAAAAACAAATCCTTAGCAG 58.647 33.333 0.00 0.00 0.00 4.24
2063 2113 8.553696 TCTACGGAACAAGTAGAAAAACAAATC 58.446 33.333 3.87 0.00 45.10 2.17
2074 2124 7.490000 AGGTAATTGATCTACGGAACAAGTAG 58.510 38.462 0.00 0.00 42.03 2.57
2079 2129 5.925506 TGAGGTAATTGATCTACGGAACA 57.074 39.130 0.00 0.00 0.00 3.18
2084 2134 9.146984 TGTTTAACTTGAGGTAATTGATCTACG 57.853 33.333 0.00 0.00 0.00 3.51
2115 2165 8.409358 AAGCCAAGAACAAACATATTACTCTT 57.591 30.769 0.00 0.00 0.00 2.85
2135 2185 9.914834 AAACTGGTTATACATAATCTTAAGCCA 57.085 29.630 0.00 0.00 0.00 4.75
2170 2229 2.825861 AAAGTTTCTGCATGGCAAGG 57.174 45.000 0.00 0.00 38.41 3.61
2194 2253 8.265055 TCCTTTTGTAGTGAATACCATAGAAGG 58.735 37.037 0.00 0.00 33.01 3.46
2205 2264 8.697507 AAGACTCAAATCCTTTTGTAGTGAAT 57.302 30.769 7.68 0.00 42.37 2.57
2206 2265 8.405531 CAAAGACTCAAATCCTTTTGTAGTGAA 58.594 33.333 7.68 0.00 42.37 3.18
2207 2266 7.556275 ACAAAGACTCAAATCCTTTTGTAGTGA 59.444 33.333 0.00 0.00 42.37 3.41
2209 2268 7.881775 ACAAAGACTCAAATCCTTTTGTAGT 57.118 32.000 0.00 2.16 42.37 2.73
2210 2269 8.836413 TGTACAAAGACTCAAATCCTTTTGTAG 58.164 33.333 7.60 0.00 42.37 2.74
2211 2270 8.740123 TGTACAAAGACTCAAATCCTTTTGTA 57.260 30.769 0.00 4.13 42.37 2.41
2212 2271 7.639113 TGTACAAAGACTCAAATCCTTTTGT 57.361 32.000 0.00 5.82 42.37 2.83
2215 2274 9.533253 CATTTTGTACAAAGACTCAAATCCTTT 57.467 29.630 19.72 0.00 31.45 3.11
2256 2315 5.869649 TCACCAAGCTGCAGATATAACTA 57.130 39.130 20.43 0.00 0.00 2.24
2286 2345 7.518370 CGTTTTACCATCATATCTTCGGAAAGG 60.518 40.741 0.00 0.00 33.03 3.11
2287 2346 7.011109 ACGTTTTACCATCATATCTTCGGAAAG 59.989 37.037 0.00 0.00 0.00 2.62
2309 4037 3.498397 GTCATCAATGAAGGTGTGACGTT 59.502 43.478 0.00 0.00 38.75 3.99
2322 4050 5.936686 AAGACAACACTCTGTCATCAATG 57.063 39.130 6.51 0.00 46.81 2.82
2331 4059 4.379186 GCATCATGGAAAGACAACACTCTG 60.379 45.833 0.00 0.00 0.00 3.35
2445 4173 7.502561 ACAGCCTTAACAAACTTCTGAGTTAAT 59.497 33.333 0.00 0.00 45.18 1.40
2456 4184 3.222603 CCTTCCACAGCCTTAACAAACT 58.777 45.455 0.00 0.00 0.00 2.66
2470 4198 3.056313 GCATTGCTCGCCCTTCCAC 62.056 63.158 0.16 0.00 0.00 4.02
2523 4251 3.812609 TGTCAAACTTGCGCTCAATCTTA 59.187 39.130 9.73 0.00 0.00 2.10
2529 4257 1.662517 TCTTGTCAAACTTGCGCTCA 58.337 45.000 9.73 0.00 0.00 4.26
2530 4258 2.413371 GGATCTTGTCAAACTTGCGCTC 60.413 50.000 9.73 0.00 0.00 5.03
2567 4295 0.533978 TGTATGCACAACACCGCAGT 60.534 50.000 0.00 0.00 42.37 4.40
2649 4377 2.245438 TATCCGCATCAACCACGGCA 62.245 55.000 0.00 0.00 46.49 5.69
2664 4392 0.468226 TGCCCGTGAACCTCATATCC 59.532 55.000 0.00 0.00 0.00 2.59
2679 4407 2.202919 GGCCGCAATGAAATGCCC 60.203 61.111 0.00 0.00 43.47 5.36
2734 4462 1.828832 CAGGACTCGACGACATAAGC 58.171 55.000 0.00 0.00 0.00 3.09
2740 4468 2.502080 CACGCAGGACTCGACGAC 60.502 66.667 0.00 0.00 0.00 4.34
2743 4471 2.179517 CTCCACGCAGGACTCGAC 59.820 66.667 0.00 0.00 43.07 4.20
2750 4478 2.358737 GAACACCCTCCACGCAGG 60.359 66.667 0.00 0.00 39.47 4.85
2756 4484 2.525629 TCAGCCGAACACCCTCCA 60.526 61.111 0.00 0.00 0.00 3.86


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

AutoCloner maintained by Alex Coulton.