Multiple sequence alignment - TraesCS2A01G495400

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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 TraesCS2A01G495400 chr2A 100.000 2718 0 0 1 2718 726985083 726987800 0.000000e+00 5020.0
1 TraesCS2A01G495400 chr2A 77.662 864 96 50 993 1829 749904449 749903656 1.160000e-118 436.0
2 TraesCS2A01G495400 chr2A 79.839 496 47 21 993 1487 749915308 749914865 2.030000e-81 313.0
3 TraesCS2A01G495400 chr2A 76.768 198 30 13 216 401 48864790 48864597 2.230000e-16 97.1
4 TraesCS2A01G495400 chr2A 88.462 78 5 4 873 949 749904539 749904465 1.040000e-14 91.6
5 TraesCS2A01G495400 chr2D 92.433 1903 77 25 1 1876 592409974 592411836 0.000000e+00 2654.0
6 TraesCS2A01G495400 chr2D 79.654 752 79 38 767 1494 619058659 619057958 8.810000e-130 473.0
7 TraesCS2A01G495400 chr2D 76.693 1004 120 63 873 1839 619046812 619045886 1.150000e-123 453.0
8 TraesCS2A01G495400 chr2D 90.446 314 12 8 2013 2308 592411845 592412158 5.450000e-107 398.0
9 TraesCS2A01G495400 chr2D 86.688 308 30 6 2412 2718 592412192 592412489 5.610000e-87 331.0
10 TraesCS2A01G495400 chr2B 89.513 801 40 13 445 1229 718395812 718396584 0.000000e+00 974.0
11 TraesCS2A01G495400 chr2B 93.137 612 20 6 1276 1876 718396583 718397183 0.000000e+00 878.0
12 TraesCS2A01G495400 chr2B 76.522 1035 136 63 748 1745 756571480 756570516 1.470000e-127 466.0
13 TraesCS2A01G495400 chr2B 80.452 619 60 25 888 1487 756553505 756552929 1.510000e-112 416.0
14 TraesCS2A01G495400 chr2B 91.489 188 12 1 2013 2196 718397192 718397379 3.470000e-64 255.0
15 TraesCS2A01G495400 chr2B 78.014 282 46 13 127 401 361427611 361427339 2.170000e-36 163.0
16 TraesCS2A01G495400 chr4B 91.358 162 13 1 1325 1485 631608690 631608529 1.270000e-53 220.0
17 TraesCS2A01G495400 chr5B 96.063 127 4 1 1891 2016 308567063 308567189 3.550000e-49 206.0
18 TraesCS2A01G495400 chr7B 93.750 128 7 1 1890 2016 85814035 85813908 9.930000e-45 191.0
19 TraesCS2A01G495400 chr7B 90.647 139 10 3 1880 2016 704468347 704468210 5.980000e-42 182.0
20 TraesCS2A01G495400 chr5A 91.429 140 10 2 1877 2015 332786302 332786440 9.930000e-45 191.0
21 TraesCS2A01G495400 chr5D 92.481 133 8 2 1885 2016 10397063 10396932 3.570000e-44 189.0
22 TraesCS2A01G495400 chr1D 92.481 133 9 1 1885 2016 116238513 116238381 3.570000e-44 189.0
23 TraesCS2A01G495400 chr1B 90.714 140 11 2 1878 2016 409879797 409879935 4.620000e-43 185.0
24 TraesCS2A01G495400 chr7A 87.975 158 13 6 1865 2018 736384117 736383962 5.980000e-42 182.0
25 TraesCS2A01G495400 chr3A 90.580 138 11 2 1881 2016 469077422 469077559 5.980000e-42 182.0


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 TraesCS2A01G495400 chr2A 726985083 726987800 2717 False 5020.000000 5020 100.000000 1 2718 1 chr2A.!!$F1 2717
1 TraesCS2A01G495400 chr2A 749903656 749904539 883 True 263.800000 436 83.062000 873 1829 2 chr2A.!!$R3 956
2 TraesCS2A01G495400 chr2D 592409974 592412489 2515 False 1127.666667 2654 89.855667 1 2718 3 chr2D.!!$F1 2717
3 TraesCS2A01G495400 chr2D 619057958 619058659 701 True 473.000000 473 79.654000 767 1494 1 chr2D.!!$R2 727
4 TraesCS2A01G495400 chr2D 619045886 619046812 926 True 453.000000 453 76.693000 873 1839 1 chr2D.!!$R1 966
5 TraesCS2A01G495400 chr2B 718395812 718397379 1567 False 702.333333 974 91.379667 445 2196 3 chr2B.!!$F1 1751
6 TraesCS2A01G495400 chr2B 756570516 756571480 964 True 466.000000 466 76.522000 748 1745 1 chr2B.!!$R3 997
7 TraesCS2A01G495400 chr2B 756552929 756553505 576 True 416.000000 416 80.452000 888 1487 1 chr2B.!!$R2 599

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
653 677 1.302913 TACCAACGGTGTGCATGGG 60.303 57.895 0.0 0.0 36.19 4.0 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2495 2639 0.030603 ACCCTCCTCCTCATCCCTTC 60.031 60.0 0.0 0.0 0.0 3.46 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
35 36 6.777580 ACTGTGGAGAATCTTTTATTTGTGGT 59.222 34.615 0.00 0.00 33.73 4.16
37 38 6.015519 TGTGGAGAATCTTTTATTTGTGGTGG 60.016 38.462 0.00 0.00 33.73 4.61
53 54 1.571919 GTGGAGTGTGAGTGTGACAC 58.428 55.000 7.83 7.83 43.45 3.67
235 237 8.682128 TGTGTGTAAACTTTCATGAGAAAAAC 57.318 30.769 0.00 0.00 42.78 2.43
239 241 8.968242 GTGTAAACTTTCATGAGAAAAACCATC 58.032 33.333 0.00 0.00 42.78 3.51
331 335 6.758886 ACTGTTTTCAAAACCGCAATTTATCA 59.241 30.769 10.56 0.00 0.00 2.15
351 355 3.501828 TCATTTTTGTGTAGCTCGCATGT 59.498 39.130 0.00 0.00 36.40 3.21
490 503 1.549170 ACCAATGGTGACTACTCGGTC 59.451 52.381 3.09 0.00 32.98 4.79
493 506 3.021695 CAATGGTGACTACTCGGTCCTA 58.978 50.000 0.00 0.00 35.54 2.94
506 520 5.994250 ACTCGGTCCTACTGTACTACATAA 58.006 41.667 0.00 0.00 0.00 1.90
526 540 3.906720 ATAGTGTACAAGCGTGGGATT 57.093 42.857 4.26 0.00 0.00 3.01
527 541 2.561478 AGTGTACAAGCGTGGGATTT 57.439 45.000 4.26 0.00 0.00 2.17
528 542 3.688694 AGTGTACAAGCGTGGGATTTA 57.311 42.857 4.26 0.00 0.00 1.40
629 652 1.402984 GCTGTCGAGGAACAGTGTAGG 60.403 57.143 0.00 0.00 46.77 3.18
653 677 1.302913 TACCAACGGTGTGCATGGG 60.303 57.895 0.00 0.00 36.19 4.00
845 892 5.144692 ACATCATCTATCCATCGACCAAG 57.855 43.478 0.00 0.00 0.00 3.61
953 1006 4.425772 TCAAGGAGGATCTACTGTTCCAA 58.574 43.478 0.26 0.00 35.14 3.53
975 1033 2.820728 TACCAGACTAGGTAGCAGCA 57.179 50.000 0.00 0.00 43.08 4.41
1254 1333 1.080705 CGACGACCCTGTCCACTTC 60.081 63.158 0.00 0.00 35.40 3.01
1684 1787 2.046864 CCAGCAGAAGCAGCAGCAT 61.047 57.895 3.17 0.00 45.49 3.79
1685 1788 1.137614 CAGCAGAAGCAGCAGCATG 59.862 57.895 3.17 0.06 45.49 4.06
1766 1885 2.286872 CAGCAGCTCCATTCCACTTAG 58.713 52.381 0.00 0.00 0.00 2.18
1767 1886 1.912043 AGCAGCTCCATTCCACTTAGT 59.088 47.619 0.00 0.00 0.00 2.24
1768 1887 3.107601 AGCAGCTCCATTCCACTTAGTA 58.892 45.455 0.00 0.00 0.00 1.82
1841 1966 7.015584 TGACTAGCATTGGAGCTCTCATTATTA 59.984 37.037 14.64 0.00 45.26 0.98
1850 1975 8.405418 TGGAGCTCTCATTATTAACTACGTAT 57.595 34.615 14.64 0.00 0.00 3.06
1851 1976 8.297426 TGGAGCTCTCATTATTAACTACGTATG 58.703 37.037 14.64 0.00 0.00 2.39
1852 1977 8.298140 GGAGCTCTCATTATTAACTACGTATGT 58.702 37.037 14.64 0.00 0.00 2.29
1876 2001 8.418662 TGTACTGTACTGTGTAAGATTTCTTGT 58.581 33.333 17.98 0.00 37.40 3.16
1877 2002 9.903682 GTACTGTACTGTGTAAGATTTCTTGTA 57.096 33.333 15.01 0.00 37.40 2.41
1900 2025 8.879759 TGTAAAATTAAGCAAGTATTCTCTCCG 58.120 33.333 0.00 0.00 0.00 4.63
1901 2026 7.923414 AAAATTAAGCAAGTATTCTCTCCGT 57.077 32.000 0.00 0.00 0.00 4.69
1902 2027 7.541122 AAATTAAGCAAGTATTCTCTCCGTC 57.459 36.000 0.00 0.00 0.00 4.79
1903 2028 3.528597 AAGCAAGTATTCTCTCCGTCC 57.471 47.619 0.00 0.00 0.00 4.79
1904 2029 1.405821 AGCAAGTATTCTCTCCGTCCG 59.594 52.381 0.00 0.00 0.00 4.79
1905 2030 1.536284 GCAAGTATTCTCTCCGTCCGG 60.536 57.143 0.00 0.00 0.00 5.14
1906 2031 2.022195 CAAGTATTCTCTCCGTCCGGA 58.978 52.381 0.00 0.00 42.90 5.14
1907 2032 2.426024 CAAGTATTCTCTCCGTCCGGAA 59.574 50.000 5.23 0.00 44.66 4.30
1908 2033 2.731572 AGTATTCTCTCCGTCCGGAAA 58.268 47.619 5.23 1.92 44.66 3.13
1909 2034 3.297736 AGTATTCTCTCCGTCCGGAAAT 58.702 45.455 5.23 9.21 44.66 2.17
1910 2035 4.467769 AGTATTCTCTCCGTCCGGAAATA 58.532 43.478 5.23 8.29 44.66 1.40
1911 2036 3.729862 ATTCTCTCCGTCCGGAAATAC 57.270 47.619 5.23 0.00 44.66 1.89
1912 2037 2.431954 TCTCTCCGTCCGGAAATACT 57.568 50.000 5.23 0.00 44.66 2.12
1913 2038 2.731572 TCTCTCCGTCCGGAAATACTT 58.268 47.619 5.23 0.00 44.66 2.24
1914 2039 2.426024 TCTCTCCGTCCGGAAATACTTG 59.574 50.000 5.23 0.00 44.66 3.16
1915 2040 2.165845 CTCTCCGTCCGGAAATACTTGT 59.834 50.000 5.23 0.00 44.66 3.16
1916 2041 2.165030 TCTCCGTCCGGAAATACTTGTC 59.835 50.000 5.23 0.00 44.66 3.18
1917 2042 1.894466 TCCGTCCGGAAATACTTGTCA 59.106 47.619 5.23 0.00 42.05 3.58
1918 2043 2.498481 TCCGTCCGGAAATACTTGTCAT 59.502 45.455 5.23 0.00 42.05 3.06
1919 2044 2.864343 CCGTCCGGAAATACTTGTCATC 59.136 50.000 5.23 0.00 37.50 2.92
1920 2045 3.517602 CGTCCGGAAATACTTGTCATCA 58.482 45.455 5.23 0.00 0.00 3.07
1921 2046 3.930229 CGTCCGGAAATACTTGTCATCAA 59.070 43.478 5.23 0.00 0.00 2.57
1922 2047 4.390603 CGTCCGGAAATACTTGTCATCAAA 59.609 41.667 5.23 0.00 32.87 2.69
1923 2048 5.106869 CGTCCGGAAATACTTGTCATCAAAA 60.107 40.000 5.23 0.00 32.87 2.44
1924 2049 6.403200 CGTCCGGAAATACTTGTCATCAAAAT 60.403 38.462 5.23 0.00 32.87 1.82
1925 2050 6.747280 GTCCGGAAATACTTGTCATCAAAATG 59.253 38.462 5.23 0.00 32.87 2.32
1926 2051 6.035843 CCGGAAATACTTGTCATCAAAATGG 58.964 40.000 0.00 0.00 33.42 3.16
1927 2052 6.127758 CCGGAAATACTTGTCATCAAAATGGA 60.128 38.462 0.00 0.00 33.42 3.41
1928 2053 7.416664 CCGGAAATACTTGTCATCAAAATGGAT 60.417 37.037 0.00 0.00 33.42 3.41
1929 2054 8.620416 CGGAAATACTTGTCATCAAAATGGATA 58.380 33.333 0.00 0.00 33.42 2.59
1992 2117 9.829507 ACATTTCCTTTTATTGTTTTGATGACA 57.170 25.926 0.00 0.00 0.00 3.58
1995 2120 9.883142 TTTCCTTTTATTGTTTTGATGACAAGT 57.117 25.926 0.00 0.00 40.04 3.16
2003 2128 7.922505 TTGTTTTGATGACAAGTATTTTCGG 57.077 32.000 0.00 0.00 37.32 4.30
2004 2129 7.265647 TGTTTTGATGACAAGTATTTTCGGA 57.734 32.000 0.00 0.00 37.32 4.55
2005 2130 7.136119 TGTTTTGATGACAAGTATTTTCGGAC 58.864 34.615 0.00 0.00 37.32 4.79
2006 2131 5.524511 TTGATGACAAGTATTTTCGGACG 57.475 39.130 0.00 0.00 0.00 4.79
2007 2132 3.930229 TGATGACAAGTATTTTCGGACGG 59.070 43.478 0.00 0.00 0.00 4.79
2008 2133 3.663995 TGACAAGTATTTTCGGACGGA 57.336 42.857 0.00 0.00 0.00 4.69
2009 2134 3.581755 TGACAAGTATTTTCGGACGGAG 58.418 45.455 0.00 0.00 0.00 4.63
2010 2135 2.928116 GACAAGTATTTTCGGACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
2011 2136 2.301009 ACAAGTATTTTCGGACGGAGGT 59.699 45.455 0.00 0.00 0.00 3.85
2017 2142 2.787473 TTTCGGACGGAGGTAGTAGA 57.213 50.000 0.00 0.00 0.00 2.59
2075 2204 9.810870 AGTCTCTCTCCGTAATAATATTAAGGT 57.189 33.333 19.43 1.43 0.00 3.50
2107 2236 3.333804 TGAATCAATTGAGCTACGTGCA 58.666 40.909 14.54 0.00 45.94 4.57
2266 2402 2.666862 CGTTTGGTGGCCTGCGTA 60.667 61.111 3.32 0.00 0.00 4.42
2267 2403 2.038269 CGTTTGGTGGCCTGCGTAT 61.038 57.895 3.32 0.00 0.00 3.06
2268 2404 0.741574 CGTTTGGTGGCCTGCGTATA 60.742 55.000 3.32 0.00 0.00 1.47
2269 2405 1.675552 GTTTGGTGGCCTGCGTATAT 58.324 50.000 3.32 0.00 0.00 0.86
2270 2406 1.333619 GTTTGGTGGCCTGCGTATATG 59.666 52.381 3.32 0.00 0.00 1.78
2271 2407 0.817634 TTGGTGGCCTGCGTATATGC 60.818 55.000 10.13 10.13 0.00 3.14
2277 2420 2.357637 TGGCCTGCGTATATGCTTTTTC 59.642 45.455 17.56 5.06 35.36 2.29
2297 2440 2.760650 TCTCTCGCATACACTGGACATT 59.239 45.455 0.00 0.00 0.00 2.71
2308 2451 7.068226 GCATACACTGGACATTATTAAGGGTTT 59.932 37.037 0.00 0.00 0.00 3.27
2309 2452 8.966868 CATACACTGGACATTATTAAGGGTTTT 58.033 33.333 0.00 0.00 0.00 2.43
2310 2453 7.849322 ACACTGGACATTATTAAGGGTTTTT 57.151 32.000 0.00 0.00 0.00 1.94
2331 2474 4.582701 TTTTTGCAAGTCGGACATGATT 57.417 36.364 16.78 0.00 0.00 2.57
2332 2475 5.697473 TTTTTGCAAGTCGGACATGATTA 57.303 34.783 16.78 0.21 0.00 1.75
2333 2476 5.697473 TTTTGCAAGTCGGACATGATTAA 57.303 34.783 16.78 5.94 0.00 1.40
2334 2477 4.944962 TTGCAAGTCGGACATGATTAAG 57.055 40.909 16.78 0.00 0.00 1.85
2335 2478 3.270027 TGCAAGTCGGACATGATTAAGG 58.730 45.455 16.78 0.00 0.00 2.69
2336 2479 2.614057 GCAAGTCGGACATGATTAAGGG 59.386 50.000 16.78 0.00 0.00 3.95
2337 2480 3.873910 CAAGTCGGACATGATTAAGGGT 58.126 45.455 11.27 0.00 0.00 4.34
2338 2481 4.261801 CAAGTCGGACATGATTAAGGGTT 58.738 43.478 11.27 0.00 0.00 4.11
2339 2482 5.424757 CAAGTCGGACATGATTAAGGGTTA 58.575 41.667 11.27 0.00 0.00 2.85
2340 2483 5.687166 AGTCGGACATGATTAAGGGTTAA 57.313 39.130 11.27 0.00 0.00 2.01
2341 2484 5.671493 AGTCGGACATGATTAAGGGTTAAG 58.329 41.667 11.27 0.00 0.00 1.85
2342 2485 5.424252 AGTCGGACATGATTAAGGGTTAAGA 59.576 40.000 11.27 0.00 0.00 2.10
2343 2486 5.753921 GTCGGACATGATTAAGGGTTAAGAG 59.246 44.000 0.00 0.00 0.00 2.85
2348 2491 7.195374 ACATGATTAAGGGTTAAGAGCTACA 57.805 36.000 0.00 0.00 0.00 2.74
2358 2501 5.753921 GGGTTAAGAGCTACATATGACACAC 59.246 44.000 10.38 0.00 0.00 3.82
2374 2517 2.210116 CACACAAAGTACTCGGCAACT 58.790 47.619 0.00 0.00 0.00 3.16
2375 2518 2.032894 CACACAAAGTACTCGGCAACTG 60.033 50.000 0.00 0.00 0.00 3.16
2376 2519 1.531149 CACAAAGTACTCGGCAACTGG 59.469 52.381 0.00 0.00 0.00 4.00
2377 2520 1.156736 CAAAGTACTCGGCAACTGGG 58.843 55.000 0.00 0.00 0.00 4.45
2378 2521 0.763035 AAAGTACTCGGCAACTGGGT 59.237 50.000 0.00 0.00 0.00 4.51
2379 2522 0.763035 AAGTACTCGGCAACTGGGTT 59.237 50.000 0.00 0.00 0.00 4.11
2380 2523 0.034896 AGTACTCGGCAACTGGGTTG 59.965 55.000 6.10 6.10 45.24 3.77
2381 2524 0.953960 GTACTCGGCAACTGGGTTGG 60.954 60.000 11.55 0.00 42.99 3.77
2382 2525 1.122632 TACTCGGCAACTGGGTTGGA 61.123 55.000 11.55 2.04 42.99 3.53
2383 2526 1.966451 CTCGGCAACTGGGTTGGAC 60.966 63.158 11.55 0.00 42.99 4.02
2384 2527 3.353836 CGGCAACTGGGTTGGACG 61.354 66.667 11.55 3.84 42.99 4.79
2385 2528 2.983592 GGCAACTGGGTTGGACGG 60.984 66.667 11.55 0.00 42.99 4.79
2386 2529 2.203294 GCAACTGGGTTGGACGGT 60.203 61.111 11.55 0.00 42.99 4.83
2387 2530 2.551912 GCAACTGGGTTGGACGGTG 61.552 63.158 11.55 0.00 42.99 4.94
2388 2531 1.896660 CAACTGGGTTGGACGGTGG 60.897 63.158 2.82 0.00 39.56 4.61
2389 2532 2.380285 AACTGGGTTGGACGGTGGT 61.380 57.895 0.00 0.00 0.00 4.16
2390 2533 1.928714 AACTGGGTTGGACGGTGGTT 61.929 55.000 0.00 0.00 0.00 3.67
2391 2534 1.896660 CTGGGTTGGACGGTGGTTG 60.897 63.158 0.00 0.00 0.00 3.77
2392 2535 3.292159 GGGTTGGACGGTGGTTGC 61.292 66.667 0.00 0.00 0.00 4.17
2393 2536 3.656045 GGTTGGACGGTGGTTGCG 61.656 66.667 0.00 0.00 0.00 4.85
2394 2537 3.656045 GTTGGACGGTGGTTGCGG 61.656 66.667 0.00 0.00 0.00 5.69
2403 2546 4.555709 TGGTTGCGGCTCCACGTT 62.556 61.111 11.98 0.00 35.98 3.99
2404 2547 3.723348 GGTTGCGGCTCCACGTTC 61.723 66.667 0.00 0.00 35.98 3.95
2405 2548 2.970324 GTTGCGGCTCCACGTTCA 60.970 61.111 0.00 0.00 35.98 3.18
2406 2549 2.664851 TTGCGGCTCCACGTTCAG 60.665 61.111 0.00 0.00 35.98 3.02
2409 2552 2.357517 CGGCTCCACGTTCAGCTT 60.358 61.111 13.79 0.00 35.82 3.74
2410 2553 2.671177 CGGCTCCACGTTCAGCTTG 61.671 63.158 13.79 5.11 35.82 4.01
2411 2554 1.301716 GGCTCCACGTTCAGCTTGA 60.302 57.895 13.79 0.00 35.82 3.02
2412 2555 1.569479 GGCTCCACGTTCAGCTTGAC 61.569 60.000 13.79 0.00 35.82 3.18
2413 2556 1.891060 GCTCCACGTTCAGCTTGACG 61.891 60.000 15.05 15.05 32.48 4.35
2440 2583 2.203167 TCGTAGGCGAGCGATCCT 60.203 61.111 0.00 0.00 42.81 3.24
2468 2612 2.191908 TGGCGAACCAGTTGCAGT 59.808 55.556 0.00 0.00 42.67 4.40
2470 2614 2.050985 GCGAACCAGTTGCAGTGC 60.051 61.111 8.58 8.58 0.00 4.40
2472 2616 1.227999 GCGAACCAGTTGCAGTGCTA 61.228 55.000 17.60 5.78 0.00 3.49
2476 2620 0.401738 ACCAGTTGCAGTGCTATGGT 59.598 50.000 24.67 24.67 35.64 3.55
2478 2622 1.611410 CCAGTTGCAGTGCTATGGTCA 60.611 52.381 17.60 0.00 0.00 4.02
2481 2625 1.879380 GTTGCAGTGCTATGGTCACAA 59.121 47.619 17.60 0.00 36.93 3.33
2491 2635 0.478072 ATGGTCACAAGGGAAGTGCA 59.522 50.000 0.00 0.00 36.93 4.57
2495 2639 2.972505 ACAAGGGAAGTGCACGCG 60.973 61.111 12.01 3.53 0.00 6.01
2502 2646 1.741770 GAAGTGCACGCGAAGGGAT 60.742 57.895 15.93 0.00 46.37 3.85
2503 2647 1.970917 GAAGTGCACGCGAAGGGATG 61.971 60.000 15.93 0.00 46.37 3.51
2504 2648 2.434185 GTGCACGCGAAGGGATGA 60.434 61.111 15.93 0.00 46.37 2.92
2505 2649 2.125552 TGCACGCGAAGGGATGAG 60.126 61.111 15.93 0.00 46.37 2.90
2519 2663 0.395862 GATGAGGAGGAGGGTGTCGA 60.396 60.000 0.00 0.00 0.00 4.20
2524 2668 2.039624 AGGAGGGTGTCGAGGCAT 59.960 61.111 0.00 0.00 0.00 4.40
2531 2675 1.688772 GGTGTCGAGGCATAGGACTA 58.311 55.000 4.06 0.00 26.47 2.59
2535 2679 2.156098 GTCGAGGCATAGGACTAGGAG 58.844 57.143 0.00 0.00 26.47 3.69
2551 2695 3.107402 AGGAGGAGAAGTGCAGTATGA 57.893 47.619 0.00 0.00 39.69 2.15
2562 2706 0.933097 GCAGTATGAGTGTGATGGCG 59.067 55.000 0.00 0.00 39.69 5.69
2564 2708 2.804572 GCAGTATGAGTGTGATGGCGAT 60.805 50.000 0.00 0.00 39.69 4.58
2565 2709 2.798847 CAGTATGAGTGTGATGGCGATG 59.201 50.000 0.00 0.00 39.69 3.84
2572 2716 2.497675 AGTGTGATGGCGATGTTAGTCT 59.502 45.455 0.00 0.00 0.00 3.24
2582 2726 3.550436 GCGATGTTAGTCTAGTAGGCCAC 60.550 52.174 5.01 0.54 0.00 5.01
2583 2727 3.303857 CGATGTTAGTCTAGTAGGCCACG 60.304 52.174 5.01 0.00 0.00 4.94
2584 2728 3.077484 TGTTAGTCTAGTAGGCCACGT 57.923 47.619 5.01 0.00 0.00 4.49
2646 2790 2.317609 CGTTGCTAGCGTTGTGGCT 61.318 57.895 10.77 0.00 46.88 4.75
2660 2804 3.741476 GGCTGCAAGGGAAGTGCG 61.741 66.667 0.50 0.00 45.27 5.34
2661 2805 2.980233 GCTGCAAGGGAAGTGCGT 60.980 61.111 0.00 0.00 45.27 5.24
2700 2844 0.680280 GGTGTCGAGGCAGAGGACTA 60.680 60.000 0.00 0.00 26.47 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 6.863126 CACACTCCACCACAAATAAAAGATTC 59.137 38.462 0.00 0.00 0.00 2.52
35 36 1.190643 TGTGTCACACTCACACTCCA 58.809 50.000 9.90 0.00 43.93 3.86
37 38 4.882671 AATTTGTGTCACACTCACACTC 57.117 40.909 9.90 0.00 43.95 3.51
89 90 9.547753 TCTGCCATTTGATAGACTTTTATACTC 57.452 33.333 0.00 0.00 0.00 2.59
90 91 9.905713 TTCTGCCATTTGATAGACTTTTATACT 57.094 29.630 0.00 0.00 0.00 2.12
93 94 9.860898 GTTTTCTGCCATTTGATAGACTTTTAT 57.139 29.630 0.00 0.00 0.00 1.40
215 217 8.073768 TCGATGGTTTTTCTCATGAAAGTTTAC 58.926 33.333 0.00 0.00 42.34 2.01
216 218 8.073768 GTCGATGGTTTTTCTCATGAAAGTTTA 58.926 33.333 0.00 0.00 42.34 2.01
219 221 5.530915 TGTCGATGGTTTTTCTCATGAAAGT 59.469 36.000 0.00 0.00 42.34 2.66
220 222 5.853282 GTGTCGATGGTTTTTCTCATGAAAG 59.147 40.000 0.00 0.00 42.34 2.62
225 227 2.159627 GCGTGTCGATGGTTTTTCTCAT 59.840 45.455 0.00 0.00 0.00 2.90
239 241 0.505231 TTTTTGTAGCTCGCGTGTCG 59.495 50.000 5.77 0.00 40.15 4.35
273 276 8.946085 TGCATATACTGTTTTCTAAAAGACCAG 58.054 33.333 0.00 3.89 0.00 4.00
278 281 8.730680 ACCAGTGCATATACTGTTTTCTAAAAG 58.269 33.333 5.19 0.00 45.12 2.27
331 335 3.501828 TGACATGCGAGCTACACAAAAAT 59.498 39.130 0.00 0.00 0.00 1.82
377 381 9.382275 TGACATATGGATGTGTATTATATGTGC 57.618 33.333 7.80 5.89 46.64 4.57
487 500 8.688747 ACACTATTATGTAGTACAGTAGGACC 57.311 38.462 9.25 0.00 0.00 4.46
493 506 8.127327 CGCTTGTACACTATTATGTAGTACAGT 58.873 37.037 9.25 2.08 43.82 3.55
506 520 3.906720 AATCCCACGCTTGTACACTAT 57.093 42.857 0.00 0.00 0.00 2.12
518 532 5.522460 CCGGCTATACATAATAAATCCCACG 59.478 44.000 0.00 0.00 0.00 4.94
526 540 4.638421 GCAATGGCCGGCTATACATAATAA 59.362 41.667 26.87 0.00 0.00 1.40
527 541 4.196193 GCAATGGCCGGCTATACATAATA 58.804 43.478 26.87 0.14 0.00 0.98
528 542 3.016736 GCAATGGCCGGCTATACATAAT 58.983 45.455 26.87 6.11 0.00 1.28
629 652 1.145803 GCACACCGTTGGTACTCTTC 58.854 55.000 0.00 0.00 32.11 2.87
653 677 1.069935 GAGGAATCGGGCCTACTGC 59.930 63.158 0.84 0.00 35.44 4.40
710 741 4.268884 TGTTTATGCAAACGCAAGGAAAAC 59.731 37.500 0.00 0.00 45.87 2.43
845 892 1.891150 AGCAATAGCAATGGCATAGCC 59.109 47.619 0.00 0.00 46.80 3.93
974 1032 2.107292 CCTACTGCTGCTGCTGCTG 61.107 63.158 27.75 27.75 41.07 4.41
975 1033 1.624479 ATCCTACTGCTGCTGCTGCT 61.624 55.000 27.67 14.24 41.07 4.24
1161 1222 1.606601 CGTGTGAGGAGGTGGAGGA 60.607 63.158 0.00 0.00 0.00 3.71
1164 1225 3.311110 GCCGTGTGAGGAGGTGGA 61.311 66.667 0.00 0.00 0.00 4.02
1254 1333 1.444119 CTCCGGAGAGAGAGAAGCCG 61.444 65.000 28.21 0.00 43.39 5.52
1659 1762 0.179078 CTGCTTCTGCTGGAGGCTAG 60.179 60.000 13.25 7.31 45.67 3.42
1684 1787 2.343758 GAGCGGCACCTCTGTTCA 59.656 61.111 1.45 0.00 32.26 3.18
1685 1788 2.811317 CGAGCGGCACCTCTGTTC 60.811 66.667 1.45 0.00 0.00 3.18
1841 1966 6.808008 ACACAGTACAGTACATACGTAGTT 57.192 37.500 13.37 0.00 37.78 2.24
1850 1975 8.418662 ACAAGAAATCTTACACAGTACAGTACA 58.581 33.333 13.37 0.00 34.28 2.90
1851 1976 8.813643 ACAAGAAATCTTACACAGTACAGTAC 57.186 34.615 2.05 2.05 34.28 2.73
1853 1978 9.826574 TTTACAAGAAATCTTACACAGTACAGT 57.173 29.630 0.00 0.00 34.28 3.55
1876 2001 9.095065 GACGGAGAGAATACTTGCTTAATTTTA 57.905 33.333 0.00 0.00 0.00 1.52
1877 2002 7.065923 GGACGGAGAGAATACTTGCTTAATTTT 59.934 37.037 0.00 0.00 0.00 1.82
1878 2003 6.539103 GGACGGAGAGAATACTTGCTTAATTT 59.461 38.462 0.00 0.00 0.00 1.82
1881 2006 4.439700 CGGACGGAGAGAATACTTGCTTAA 60.440 45.833 0.00 0.00 0.00 1.85
1882 2007 3.066342 CGGACGGAGAGAATACTTGCTTA 59.934 47.826 0.00 0.00 0.00 3.09
1884 2009 1.405821 CGGACGGAGAGAATACTTGCT 59.594 52.381 0.00 0.00 0.00 3.91
1885 2010 1.536284 CCGGACGGAGAGAATACTTGC 60.536 57.143 4.40 0.00 37.50 4.01
1886 2011 2.022195 TCCGGACGGAGAGAATACTTG 58.978 52.381 9.76 0.00 39.76 3.16
1887 2012 2.431954 TCCGGACGGAGAGAATACTT 57.568 50.000 9.76 0.00 39.76 2.24
1888 2013 2.431954 TTCCGGACGGAGAGAATACT 57.568 50.000 13.64 0.00 46.06 2.12
1889 2014 3.729862 ATTTCCGGACGGAGAGAATAC 57.270 47.619 13.64 0.00 46.06 1.89
1890 2015 4.467769 AGTATTTCCGGACGGAGAGAATA 58.532 43.478 13.64 11.88 46.06 1.75
1891 2016 3.297736 AGTATTTCCGGACGGAGAGAAT 58.702 45.455 13.64 12.81 46.06 2.40
1892 2017 2.731572 AGTATTTCCGGACGGAGAGAA 58.268 47.619 13.64 6.20 46.06 2.87
1893 2018 2.426024 CAAGTATTTCCGGACGGAGAGA 59.574 50.000 13.64 3.93 46.06 3.10
1894 2019 2.165845 ACAAGTATTTCCGGACGGAGAG 59.834 50.000 13.64 0.20 46.06 3.20
1895 2020 2.165030 GACAAGTATTTCCGGACGGAGA 59.835 50.000 13.64 10.06 46.06 3.71
1896 2021 2.094390 TGACAAGTATTTCCGGACGGAG 60.094 50.000 13.64 3.15 46.06 4.63
1897 2022 1.894466 TGACAAGTATTTCCGGACGGA 59.106 47.619 1.83 9.76 43.52 4.69
1898 2023 2.373540 TGACAAGTATTTCCGGACGG 57.626 50.000 1.83 3.96 0.00 4.79
1899 2024 3.517602 TGATGACAAGTATTTCCGGACG 58.482 45.455 1.83 0.00 0.00 4.79
1900 2025 5.873179 TTTGATGACAAGTATTTCCGGAC 57.127 39.130 1.83 0.00 37.32 4.79
1901 2026 6.127758 CCATTTTGATGACAAGTATTTCCGGA 60.128 38.462 0.00 0.00 37.32 5.14
1902 2027 6.035843 CCATTTTGATGACAAGTATTTCCGG 58.964 40.000 0.00 0.00 37.32 5.14
1903 2028 6.851609 TCCATTTTGATGACAAGTATTTCCG 58.148 36.000 0.00 0.00 37.32 4.30
1966 2091 9.829507 TGTCATCAAAACAATAAAAGGAAATGT 57.170 25.926 0.00 0.00 0.00 2.71
1969 2094 9.883142 ACTTGTCATCAAAACAATAAAAGGAAA 57.117 25.926 0.00 0.00 36.14 3.13
1977 2102 9.619316 CCGAAAATACTTGTCATCAAAACAATA 57.381 29.630 0.00 0.00 36.14 1.90
1978 2103 8.356657 TCCGAAAATACTTGTCATCAAAACAAT 58.643 29.630 0.00 0.00 36.14 2.71
1979 2104 7.646130 GTCCGAAAATACTTGTCATCAAAACAA 59.354 33.333 0.00 0.00 35.44 2.83
1980 2105 7.136119 GTCCGAAAATACTTGTCATCAAAACA 58.864 34.615 0.00 0.00 32.87 2.83
1981 2106 6.302313 CGTCCGAAAATACTTGTCATCAAAAC 59.698 38.462 0.00 0.00 32.87 2.43
1982 2107 6.367421 CGTCCGAAAATACTTGTCATCAAAA 58.633 36.000 0.00 0.00 32.87 2.44
1983 2108 5.106869 CCGTCCGAAAATACTTGTCATCAAA 60.107 40.000 0.00 0.00 32.87 2.69
1984 2109 4.390603 CCGTCCGAAAATACTTGTCATCAA 59.609 41.667 0.00 0.00 0.00 2.57
1985 2110 3.930229 CCGTCCGAAAATACTTGTCATCA 59.070 43.478 0.00 0.00 0.00 3.07
1986 2111 4.178540 TCCGTCCGAAAATACTTGTCATC 58.821 43.478 0.00 0.00 0.00 2.92
1987 2112 4.181578 CTCCGTCCGAAAATACTTGTCAT 58.818 43.478 0.00 0.00 0.00 3.06
1988 2113 3.581755 CTCCGTCCGAAAATACTTGTCA 58.418 45.455 0.00 0.00 0.00 3.58
1989 2114 2.928116 CCTCCGTCCGAAAATACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
1990 2115 2.301009 ACCTCCGTCCGAAAATACTTGT 59.699 45.455 0.00 0.00 0.00 3.16
1991 2116 2.968675 ACCTCCGTCCGAAAATACTTG 58.031 47.619 0.00 0.00 0.00 3.16
1992 2117 3.766051 ACTACCTCCGTCCGAAAATACTT 59.234 43.478 0.00 0.00 0.00 2.24
1993 2118 3.359950 ACTACCTCCGTCCGAAAATACT 58.640 45.455 0.00 0.00 0.00 2.12
1994 2119 3.790152 ACTACCTCCGTCCGAAAATAC 57.210 47.619 0.00 0.00 0.00 1.89
1995 2120 4.780815 TCTACTACCTCCGTCCGAAAATA 58.219 43.478 0.00 0.00 0.00 1.40
1996 2121 3.624777 TCTACTACCTCCGTCCGAAAAT 58.375 45.455 0.00 0.00 0.00 1.82
1997 2122 3.071874 TCTACTACCTCCGTCCGAAAA 57.928 47.619 0.00 0.00 0.00 2.29
1998 2123 2.787473 TCTACTACCTCCGTCCGAAA 57.213 50.000 0.00 0.00 0.00 3.46
1999 2124 4.130118 GTTATCTACTACCTCCGTCCGAA 58.870 47.826 0.00 0.00 0.00 4.30
2000 2125 3.389329 AGTTATCTACTACCTCCGTCCGA 59.611 47.826 0.00 0.00 34.56 4.55
2001 2126 3.737850 AGTTATCTACTACCTCCGTCCG 58.262 50.000 0.00 0.00 34.56 4.79
2010 2135 7.990994 GCAAGTGCTACGGTAGTTATCTACTAC 60.991 44.444 16.05 6.55 46.06 2.73
2011 2136 6.017605 GCAAGTGCTACGGTAGTTATCTACTA 60.018 42.308 16.05 0.00 40.85 1.82
2075 2204 7.515586 AGCTCAATTGATTCATTCATCTCCTA 58.484 34.615 8.96 0.00 33.34 2.94
2107 2236 5.848406 TGGAAAGAAATGCCGTAAATTTGT 58.152 33.333 0.00 0.00 0.00 2.83
2237 2373 3.868661 GCCACCAAACGTCAAAGAAAATT 59.131 39.130 0.00 0.00 0.00 1.82
2267 2403 5.291858 CAGTGTATGCGAGAGAAAAAGCATA 59.708 40.000 5.06 5.06 46.93 3.14
2269 2405 3.433274 CAGTGTATGCGAGAGAAAAAGCA 59.567 43.478 0.00 0.00 44.13 3.91
2270 2406 3.181516 CCAGTGTATGCGAGAGAAAAAGC 60.182 47.826 0.00 0.00 0.00 3.51
2271 2407 4.092091 GTCCAGTGTATGCGAGAGAAAAAG 59.908 45.833 0.00 0.00 0.00 2.27
2277 2420 2.879002 ATGTCCAGTGTATGCGAGAG 57.121 50.000 0.00 0.00 0.00 3.20
2310 2453 4.582701 AATCATGTCCGACTTGCAAAAA 57.417 36.364 0.00 0.00 0.00 1.94
2311 2454 5.335583 CCTTAATCATGTCCGACTTGCAAAA 60.336 40.000 0.00 3.47 0.00 2.44
2313 2456 3.689161 CCTTAATCATGTCCGACTTGCAA 59.311 43.478 9.11 0.00 0.00 4.08
2314 2457 3.270027 CCTTAATCATGTCCGACTTGCA 58.730 45.455 9.11 0.00 0.00 4.08
2315 2458 2.614057 CCCTTAATCATGTCCGACTTGC 59.386 50.000 9.11 0.00 0.00 4.01
2316 2459 3.873910 ACCCTTAATCATGTCCGACTTG 58.126 45.455 7.88 7.88 0.00 3.16
2317 2460 4.569719 AACCCTTAATCATGTCCGACTT 57.430 40.909 0.00 0.00 0.00 3.01
2318 2461 5.424252 TCTTAACCCTTAATCATGTCCGACT 59.576 40.000 0.00 0.00 0.00 4.18
2319 2462 5.667466 TCTTAACCCTTAATCATGTCCGAC 58.333 41.667 0.00 0.00 0.00 4.79
2320 2463 5.684030 GCTCTTAACCCTTAATCATGTCCGA 60.684 44.000 0.00 0.00 0.00 4.55
2321 2464 4.511826 GCTCTTAACCCTTAATCATGTCCG 59.488 45.833 0.00 0.00 0.00 4.79
2322 2465 5.685728 AGCTCTTAACCCTTAATCATGTCC 58.314 41.667 0.00 0.00 0.00 4.02
2323 2466 7.272978 TGTAGCTCTTAACCCTTAATCATGTC 58.727 38.462 0.00 0.00 0.00 3.06
2324 2467 7.195374 TGTAGCTCTTAACCCTTAATCATGT 57.805 36.000 0.00 0.00 0.00 3.21
2325 2468 9.950496 ATATGTAGCTCTTAACCCTTAATCATG 57.050 33.333 0.00 0.00 0.00 3.07
2326 2469 9.950496 CATATGTAGCTCTTAACCCTTAATCAT 57.050 33.333 0.00 0.00 0.00 2.45
2327 2470 9.154632 TCATATGTAGCTCTTAACCCTTAATCA 57.845 33.333 1.90 0.00 0.00 2.57
2328 2471 9.425577 GTCATATGTAGCTCTTAACCCTTAATC 57.574 37.037 1.90 0.00 0.00 1.75
2329 2472 8.934697 TGTCATATGTAGCTCTTAACCCTTAAT 58.065 33.333 1.90 0.00 0.00 1.40
2330 2473 8.202137 GTGTCATATGTAGCTCTTAACCCTTAA 58.798 37.037 1.90 0.00 0.00 1.85
2331 2474 7.343574 TGTGTCATATGTAGCTCTTAACCCTTA 59.656 37.037 1.90 0.00 0.00 2.69
2332 2475 6.156256 TGTGTCATATGTAGCTCTTAACCCTT 59.844 38.462 1.90 0.00 0.00 3.95
2333 2476 5.661312 TGTGTCATATGTAGCTCTTAACCCT 59.339 40.000 1.90 0.00 0.00 4.34
2334 2477 5.753921 GTGTGTCATATGTAGCTCTTAACCC 59.246 44.000 1.90 0.00 0.00 4.11
2335 2478 6.338146 TGTGTGTCATATGTAGCTCTTAACC 58.662 40.000 1.90 0.00 0.00 2.85
2336 2479 7.827819 TTGTGTGTCATATGTAGCTCTTAAC 57.172 36.000 1.90 0.00 0.00 2.01
2337 2480 8.094548 ACTTTGTGTGTCATATGTAGCTCTTAA 58.905 33.333 1.90 0.00 0.00 1.85
2338 2481 7.611770 ACTTTGTGTGTCATATGTAGCTCTTA 58.388 34.615 1.90 0.00 0.00 2.10
2339 2482 6.467677 ACTTTGTGTGTCATATGTAGCTCTT 58.532 36.000 1.90 0.00 0.00 2.85
2340 2483 6.042638 ACTTTGTGTGTCATATGTAGCTCT 57.957 37.500 1.90 0.00 0.00 4.09
2341 2484 7.036220 AGTACTTTGTGTGTCATATGTAGCTC 58.964 38.462 1.90 0.00 0.00 4.09
2342 2485 6.936279 AGTACTTTGTGTGTCATATGTAGCT 58.064 36.000 1.90 0.00 0.00 3.32
2343 2486 6.020599 CGAGTACTTTGTGTGTCATATGTAGC 60.021 42.308 1.90 0.00 0.00 3.58
2348 2491 4.181578 GCCGAGTACTTTGTGTGTCATAT 58.818 43.478 0.00 0.00 0.00 1.78
2358 2501 1.156736 CCCAGTTGCCGAGTACTTTG 58.843 55.000 0.00 0.00 0.00 2.77
2374 2517 2.193517 CAACCACCGTCCAACCCA 59.806 61.111 0.00 0.00 0.00 4.51
2375 2518 3.292159 GCAACCACCGTCCAACCC 61.292 66.667 0.00 0.00 0.00 4.11
2376 2519 3.656045 CGCAACCACCGTCCAACC 61.656 66.667 0.00 0.00 0.00 3.77
2377 2520 3.656045 CCGCAACCACCGTCCAAC 61.656 66.667 0.00 0.00 0.00 3.77
2386 2529 4.555709 AACGTGGAGCCGCAACCA 62.556 61.111 5.40 5.40 0.00 3.67
2387 2530 3.723348 GAACGTGGAGCCGCAACC 61.723 66.667 0.00 0.00 0.00 3.77
2388 2531 2.954753 CTGAACGTGGAGCCGCAAC 61.955 63.158 0.00 0.00 0.00 4.17
2389 2532 2.664851 CTGAACGTGGAGCCGCAA 60.665 61.111 0.00 0.00 0.00 4.85
2392 2535 2.357517 AAGCTGAACGTGGAGCCG 60.358 61.111 13.91 0.00 35.69 5.52
2393 2536 1.301716 TCAAGCTGAACGTGGAGCC 60.302 57.895 13.91 0.00 35.69 4.70
2394 2537 1.862806 GTCAAGCTGAACGTGGAGC 59.137 57.895 10.40 10.40 35.28 4.70
2395 2538 0.318699 TCGTCAAGCTGAACGTGGAG 60.319 55.000 17.58 0.00 0.00 3.86
2396 2539 0.318699 CTCGTCAAGCTGAACGTGGA 60.319 55.000 17.58 2.09 0.00 4.02
2397 2540 2.145225 CTCGTCAAGCTGAACGTGG 58.855 57.895 17.58 10.20 0.00 4.94
2407 2550 1.010935 ACGACTGCATGCTCGTCAAG 61.011 55.000 24.37 16.95 38.80 3.02
2408 2551 0.242555 TACGACTGCATGCTCGTCAA 59.757 50.000 30.71 16.76 42.07 3.18
2409 2552 0.179163 CTACGACTGCATGCTCGTCA 60.179 55.000 30.71 18.82 42.07 4.35
2410 2553 0.867753 CCTACGACTGCATGCTCGTC 60.868 60.000 30.71 26.39 42.07 4.20
2411 2554 1.139734 CCTACGACTGCATGCTCGT 59.860 57.895 29.96 29.96 44.97 4.18
2412 2555 2.233654 GCCTACGACTGCATGCTCG 61.234 63.158 23.19 23.19 35.96 5.03
2413 2556 2.233654 CGCCTACGACTGCATGCTC 61.234 63.158 20.33 8.12 43.93 4.26
2440 2583 4.893601 TTCGCCACGCCGTCAACA 62.894 61.111 0.00 0.00 0.00 3.33
2468 2612 1.985159 ACTTCCCTTGTGACCATAGCA 59.015 47.619 0.00 0.00 0.00 3.49
2470 2614 2.290260 TGCACTTCCCTTGTGACCATAG 60.290 50.000 0.00 0.00 37.60 2.23
2472 2616 0.478072 TGCACTTCCCTTGTGACCAT 59.522 50.000 0.00 0.00 37.60 3.55
2476 2620 1.891919 GCGTGCACTTCCCTTGTGA 60.892 57.895 16.19 0.00 37.60 3.58
2478 2622 2.933878 TTCGCGTGCACTTCCCTTGT 62.934 55.000 16.19 0.00 0.00 3.16
2481 2625 2.357517 CTTCGCGTGCACTTCCCT 60.358 61.111 16.19 0.00 0.00 4.20
2491 2635 2.427245 CCTCCTCATCCCTTCGCGT 61.427 63.158 5.77 0.00 0.00 6.01
2495 2639 0.030603 ACCCTCCTCCTCATCCCTTC 60.031 60.000 0.00 0.00 0.00 3.46
2502 2646 1.000771 CTCGACACCCTCCTCCTCA 60.001 63.158 0.00 0.00 0.00 3.86
2503 2647 1.755008 CCTCGACACCCTCCTCCTC 60.755 68.421 0.00 0.00 0.00 3.71
2504 2648 2.360980 CCTCGACACCCTCCTCCT 59.639 66.667 0.00 0.00 0.00 3.69
2505 2649 3.462678 GCCTCGACACCCTCCTCC 61.463 72.222 0.00 0.00 0.00 4.30
2519 2663 2.434067 TCTCCTCCTAGTCCTATGCCT 58.566 52.381 0.00 0.00 0.00 4.75
2524 2668 2.581246 TGCACTTCTCCTCCTAGTCCTA 59.419 50.000 0.00 0.00 0.00 2.94
2531 2675 3.030291 CTCATACTGCACTTCTCCTCCT 58.970 50.000 0.00 0.00 0.00 3.69
2535 2679 3.056536 TCACACTCATACTGCACTTCTCC 60.057 47.826 0.00 0.00 0.00 3.71
2551 2695 2.497675 AGACTAACATCGCCATCACACT 59.502 45.455 0.00 0.00 0.00 3.55
2562 2706 3.631227 ACGTGGCCTACTAGACTAACATC 59.369 47.826 3.32 0.00 0.00 3.06
2564 2708 2.751259 CACGTGGCCTACTAGACTAACA 59.249 50.000 7.95 0.00 0.00 2.41
2565 2709 2.479219 GCACGTGGCCTACTAGACTAAC 60.479 54.545 18.88 0.00 36.11 2.34
2572 2716 2.412323 CCTCGCACGTGGCCTACTA 61.412 63.158 18.88 0.00 40.31 1.82
2602 2746 3.834799 ATCGGCGTCGTTCCTCCC 61.835 66.667 10.18 0.00 37.69 4.30
2646 2790 3.286751 GCACGCACTTCCCTTGCA 61.287 61.111 0.00 0.00 40.20 4.08
2660 2804 2.182030 CTCCTCGTCCCTTCGCAC 59.818 66.667 0.00 0.00 0.00 5.34
2661 2805 3.068691 CCTCCTCGTCCCTTCGCA 61.069 66.667 0.00 0.00 0.00 5.10


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

AutoCloner maintained by Alex Coulton.