Multiple sequence alignment - TraesCS2D01G113700

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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 TraesCS2D01G113700 chr2D 100.000 4164 0 0 1 4164 62962874 62958711 0.000000e+00 7690.0
1 TraesCS2D01G113700 chr2D 83.245 567 62 20 69 611 607519332 607518775 1.350000e-134 490.0
2 TraesCS2D01G113700 chr2B 90.935 1070 38 17 1778 2838 98366021 98365002 0.000000e+00 1384.0
3 TraesCS2D01G113700 chr2B 91.590 761 42 16 970 1716 98366947 98366195 0.000000e+00 1031.0
4 TraesCS2D01G113700 chr2B 94.231 624 27 5 2838 3453 98364967 98364345 0.000000e+00 944.0
5 TraesCS2D01G113700 chr2B 86.869 693 53 13 3472 4164 98364296 98363642 0.000000e+00 741.0
6 TraesCS2D01G113700 chr2B 78.266 842 115 41 58 873 161537437 161538236 2.910000e-131 479.0
7 TraesCS2D01G113700 chr2A 92.316 924 29 13 58 949 63830858 63829945 0.000000e+00 1275.0
8 TraesCS2D01G113700 chr2A 94.649 598 29 1 2161 2758 360700122 360699528 0.000000e+00 924.0
9 TraesCS2D01G113700 chr2A 93.980 598 29 3 2162 2758 359576802 359577393 0.000000e+00 898.0
10 TraesCS2D01G113700 chr2A 89.445 739 36 21 988 1716 63829859 63829153 0.000000e+00 894.0
11 TraesCS2D01G113700 chr2A 82.240 625 85 12 2844 3451 63827995 63827380 2.220000e-142 516.0
12 TraesCS2D01G113700 chr2A 89.383 405 27 5 1778 2175 63828977 63828582 2.890000e-136 496.0
13 TraesCS2D01G113700 chr2A 83.936 498 56 17 58 541 499569936 499570423 4.910000e-124 455.0
14 TraesCS2D01G113700 chr2A 77.635 778 117 34 113 871 739240644 739239905 1.790000e-113 420.0
15 TraesCS2D01G113700 chr2A 87.107 318 36 4 3849 4164 63826952 63826638 5.120000e-94 355.0
16 TraesCS2D01G113700 chr2A 96.610 59 2 0 1 59 63831097 63831039 9.530000e-17 99.0
17 TraesCS2D01G113700 chr2A 98.039 51 0 1 947 997 63829929 63829880 2.060000e-13 87.9
18 TraesCS2D01G113700 chr2A 94.545 55 3 0 2 56 499569696 499569750 7.420000e-13 86.1
19 TraesCS2D01G113700 chr7A 95.601 682 27 1 2157 2838 711881767 711881089 0.000000e+00 1090.0
20 TraesCS2D01G113700 chr7A 93.656 599 35 1 2161 2759 181360382 181359787 0.000000e+00 893.0
21 TraesCS2D01G113700 chr7A 93.645 598 34 1 2161 2758 151364825 151365418 0.000000e+00 891.0
22 TraesCS2D01G113700 chr7A 76.841 842 117 43 58 873 85232147 85232936 1.800000e-108 403.0
23 TraesCS2D01G113700 chr7A 93.333 240 11 3 2838 3074 711881054 711880817 2.380000e-92 350.0
24 TraesCS2D01G113700 chr7A 91.892 148 8 3 2926 3072 151365423 151365567 1.960000e-48 204.0
25 TraesCS2D01G113700 chr5A 94.482 598 29 2 2161 2758 36295275 36294682 0.000000e+00 918.0
26 TraesCS2D01G113700 chr5A 94.186 602 32 1 2157 2758 190850022 190849424 0.000000e+00 915.0
27 TraesCS2D01G113700 chr5A 93.813 598 34 1 2161 2758 379597065 379597659 0.000000e+00 896.0
28 TraesCS2D01G113700 chr5A 91.837 147 10 1 2926 3072 36294677 36294533 1.960000e-48 204.0
29 TraesCS2D01G113700 chr5A 91.892 148 9 2 2926 3072 379597664 379597809 1.960000e-48 204.0
30 TraesCS2D01G113700 chr5A 89.865 148 12 2 2926 3072 190849419 190849274 1.980000e-43 187.0
31 TraesCS2D01G113700 chr4A 93.792 596 34 1 2161 2756 628062653 628063245 0.000000e+00 893.0
32 TraesCS2D01G113700 chr4A 91.156 147 11 1 2926 3072 628063252 628063396 9.130000e-47 198.0
33 TraesCS2D01G113700 chr4A 96.491 57 2 0 1 57 730944622 730944678 1.230000e-15 95.3
34 TraesCS2D01G113700 chr3B 78.266 842 113 47 58 873 525007574 525006777 1.050000e-130 477.0
35 TraesCS2D01G113700 chr4D 83.636 495 57 17 58 541 467587884 467587403 1.060000e-120 444.0
36 TraesCS2D01G113700 chr1D 77.546 815 115 43 73 860 45786757 45785984 2.970000e-116 429.0
37 TraesCS2D01G113700 chr6A 91.892 148 8 3 2926 3072 95426270 95426414 1.960000e-48 204.0
38 TraesCS2D01G113700 chr5B 91.228 57 5 0 1 57 685953586 685953530 1.240000e-10 78.7


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2D01G113700 chr2D 62958711 62962874 4163 True 7690.000000 7690 100.000000 1 4164 1 chr2D.!!$R1 4163
1 TraesCS2D01G113700 chr2D 607518775 607519332 557 True 490.000000 490 83.245000 69 611 1 chr2D.!!$R2 542
2 TraesCS2D01G113700 chr2B 98363642 98366947 3305 True 1025.000000 1384 90.906250 970 4164 4 chr2B.!!$R1 3194
3 TraesCS2D01G113700 chr2B 161537437 161538236 799 False 479.000000 479 78.266000 58 873 1 chr2B.!!$F1 815
4 TraesCS2D01G113700 chr2A 360699528 360700122 594 True 924.000000 924 94.649000 2161 2758 1 chr2A.!!$R1 597
5 TraesCS2D01G113700 chr2A 359576802 359577393 591 False 898.000000 898 93.980000 2162 2758 1 chr2A.!!$F1 596
6 TraesCS2D01G113700 chr2A 63826638 63831097 4459 True 531.842857 1275 90.734286 1 4164 7 chr2A.!!$R3 4163
7 TraesCS2D01G113700 chr2A 739239905 739240644 739 True 420.000000 420 77.635000 113 871 1 chr2A.!!$R2 758
8 TraesCS2D01G113700 chr2A 499569696 499570423 727 False 270.550000 455 89.240500 2 541 2 chr2A.!!$F2 539
9 TraesCS2D01G113700 chr7A 181359787 181360382 595 True 893.000000 893 93.656000 2161 2759 1 chr7A.!!$R1 598
10 TraesCS2D01G113700 chr7A 711880817 711881767 950 True 720.000000 1090 94.467000 2157 3074 2 chr7A.!!$R2 917
11 TraesCS2D01G113700 chr7A 151364825 151365567 742 False 547.500000 891 92.768500 2161 3072 2 chr7A.!!$F2 911
12 TraesCS2D01G113700 chr7A 85232147 85232936 789 False 403.000000 403 76.841000 58 873 1 chr7A.!!$F1 815
13 TraesCS2D01G113700 chr5A 36294533 36295275 742 True 561.000000 918 93.159500 2161 3072 2 chr5A.!!$R1 911
14 TraesCS2D01G113700 chr5A 190849274 190850022 748 True 551.000000 915 92.025500 2157 3072 2 chr5A.!!$R2 915
15 TraesCS2D01G113700 chr5A 379597065 379597809 744 False 550.000000 896 92.852500 2161 3072 2 chr5A.!!$F1 911
16 TraesCS2D01G113700 chr4A 628062653 628063396 743 False 545.500000 893 92.474000 2161 3072 2 chr4A.!!$F2 911
17 TraesCS2D01G113700 chr3B 525006777 525007574 797 True 477.000000 477 78.266000 58 873 1 chr3B.!!$R1 815
18 TraesCS2D01G113700 chr1D 45785984 45786757 773 True 429.000000 429 77.546000 73 860 1 chr1D.!!$R1 787

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
899 1117 0.165079 TTTTTCACGATCGCGCCTTC 59.835 50.0 16.60 0.0 42.48 3.46 F
1307 1595 0.466739 TCTAGCGCGTATCCCTGGAA 60.467 55.0 8.43 0.0 0.00 3.53 F
2122 2534 0.182061 GGCATCTCTTCCTGGCATCA 59.818 55.0 0.00 0.0 37.82 3.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1769 2064 0.315568 TCCGGGCGTTGGAAAATTTG 59.684 50.0 0.0 0.0 30.98 2.32 R
3131 3762 0.034616 ATTCTATCCGCTGGAGCTGC 59.965 55.0 0.0 0.0 39.32 5.25 R
4084 5161 0.541863 ATCCGGTCTAACAAGGGCAG 59.458 55.0 0.0 0.0 0.00 4.85 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
227 420 8.116651 TGCATATACACATTTACAAACAACCT 57.883 30.769 0.00 0.00 0.00 3.50
236 429 9.620660 CACATTTACAAACAACCTTAGTATTCC 57.379 33.333 0.00 0.00 0.00 3.01
354 547 2.472695 ACATTTCTAAGACAGGCGCA 57.527 45.000 10.83 0.00 0.00 6.09
460 654 3.096852 GGAAAGTTGGGGGAATACCTTG 58.903 50.000 0.00 0.00 40.03 3.61
524 718 7.519488 CGATCCATACTTCTTCACCATGAATTG 60.519 40.741 0.00 0.00 35.59 2.32
553 756 1.139947 GAAGGGCGACGAGAGAAGG 59.860 63.158 0.00 0.00 0.00 3.46
560 763 1.272781 CGACGAGAGAAGGCATGAAC 58.727 55.000 0.00 0.00 0.00 3.18
562 765 2.688507 GACGAGAGAAGGCATGAACAA 58.311 47.619 0.00 0.00 0.00 2.83
598 801 1.278172 CTCGGGTATGCAGCGAATCG 61.278 60.000 0.00 0.00 0.00 3.34
610 813 3.508840 GAATCGCGTTGGCCCTGG 61.509 66.667 5.77 0.00 35.02 4.45
611 814 4.344865 AATCGCGTTGGCCCTGGT 62.345 61.111 5.77 0.00 35.02 4.00
612 815 3.860930 AATCGCGTTGGCCCTGGTT 62.861 57.895 5.77 0.00 35.02 3.67
613 816 3.860930 ATCGCGTTGGCCCTGGTTT 62.861 57.895 5.77 0.00 35.02 3.27
614 817 3.601685 CGCGTTGGCCCTGGTTTT 61.602 61.111 0.00 0.00 35.02 2.43
615 818 2.818841 GCGTTGGCCCTGGTTTTT 59.181 55.556 0.00 0.00 0.00 1.94
672 875 1.202698 GCCCAGGGTGTCATGTCTATC 60.203 57.143 7.55 0.00 0.00 2.08
730 933 2.515288 CCAACATATGGGCCCAACC 58.485 57.895 32.58 0.00 46.27 3.77
804 1007 4.067896 GGGTGTTATGATGACTAGCATGG 58.932 47.826 4.66 0.00 37.34 3.66
831 1034 4.129737 CCCGGTCGTCGTGCAGAT 62.130 66.667 0.00 0.00 37.11 2.90
899 1117 0.165079 TTTTTCACGATCGCGCCTTC 59.835 50.000 16.60 0.00 42.48 3.46
1021 1291 1.301479 GAACGCTTCCGGTTCAGGT 60.301 57.895 0.00 0.00 39.22 4.00
1307 1595 0.466739 TCTAGCGCGTATCCCTGGAA 60.467 55.000 8.43 0.00 0.00 3.53
1334 1622 1.604604 CGGAAGGTTTTGCTGGAAGA 58.395 50.000 0.00 0.00 34.07 2.87
1534 1822 0.822164 CACCGTTTAGGGTCTCGGAT 59.178 55.000 9.37 0.00 46.96 4.18
1535 1823 2.026641 CACCGTTTAGGGTCTCGGATA 58.973 52.381 9.37 0.00 46.96 2.59
1560 1848 1.133356 GGGGGAGGATGGAATTTGAGG 60.133 57.143 0.00 0.00 0.00 3.86
1563 1851 2.511637 GGGAGGATGGAATTTGAGGTCT 59.488 50.000 0.00 0.00 0.00 3.85
1564 1852 3.434310 GGGAGGATGGAATTTGAGGTCTC 60.434 52.174 0.00 0.00 0.00 3.36
1572 1860 1.961180 ATTTGAGGTCTCGAGGGGCG 61.961 60.000 13.56 0.00 42.69 6.13
1591 1879 0.737219 GCTAGAGCAGGCATTGGTTG 59.263 55.000 0.00 0.00 41.59 3.77
1592 1880 1.679944 GCTAGAGCAGGCATTGGTTGA 60.680 52.381 0.00 0.00 41.59 3.18
1593 1881 2.928334 CTAGAGCAGGCATTGGTTGAT 58.072 47.619 0.00 0.00 37.72 2.57
1595 1883 2.928334 AGAGCAGGCATTGGTTGATAG 58.072 47.619 0.00 0.00 37.72 2.08
1596 1884 1.952296 GAGCAGGCATTGGTTGATAGG 59.048 52.381 0.00 0.00 37.72 2.57
1597 1885 1.285962 AGCAGGCATTGGTTGATAGGT 59.714 47.619 0.00 0.00 32.47 3.08
1608 1896 4.535781 TGGTTGATAGGTGGGAAATGATG 58.464 43.478 0.00 0.00 0.00 3.07
1611 1899 3.824133 TGATAGGTGGGAAATGATGCAG 58.176 45.455 0.00 0.00 0.00 4.41
1650 1944 6.480524 TCAGTTTTGTTTCTACATGATCCG 57.519 37.500 0.00 0.00 33.44 4.18
1662 1956 4.705110 ACATGATCCGAATGTGGGATAA 57.295 40.909 0.00 0.00 44.23 1.75
1663 1957 4.645535 ACATGATCCGAATGTGGGATAAG 58.354 43.478 0.00 0.00 44.23 1.73
1664 1958 4.347876 ACATGATCCGAATGTGGGATAAGA 59.652 41.667 0.00 0.00 44.23 2.10
1666 1960 6.213397 ACATGATCCGAATGTGGGATAAGATA 59.787 38.462 0.00 0.00 44.23 1.98
1667 1961 6.037786 TGATCCGAATGTGGGATAAGATAC 57.962 41.667 0.00 0.00 44.23 2.24
1670 1964 4.899457 TCCGAATGTGGGATAAGATACTGT 59.101 41.667 0.00 0.00 0.00 3.55
1679 1974 6.879458 GTGGGATAAGATACTGTGTGAGTTTT 59.121 38.462 0.00 0.00 35.96 2.43
1688 1983 5.353394 ACTGTGTGAGTTTTTAGTGGAGA 57.647 39.130 0.00 0.00 0.00 3.71
1716 2011 6.778821 TCAGTTTGGTTTAGATGATCTGGAA 58.221 36.000 4.96 0.00 0.00 3.53
1718 2013 7.174946 TCAGTTTGGTTTAGATGATCTGGAAAC 59.825 37.037 4.96 8.56 28.88 2.78
1719 2014 7.004086 AGTTTGGTTTAGATGATCTGGAAACA 58.996 34.615 17.73 12.67 30.43 2.83
1743 2038 2.696526 AGGGTACTGTTCTGGAGTGA 57.303 50.000 0.00 0.00 0.00 3.41
1744 2039 2.530701 AGGGTACTGTTCTGGAGTGAG 58.469 52.381 0.00 0.00 0.00 3.51
1747 2042 3.090037 GGTACTGTTCTGGAGTGAGCTA 58.910 50.000 0.00 0.00 0.00 3.32
1748 2043 3.702045 GGTACTGTTCTGGAGTGAGCTAT 59.298 47.826 0.00 0.00 0.00 2.97
1749 2044 4.888239 GGTACTGTTCTGGAGTGAGCTATA 59.112 45.833 0.00 0.00 0.00 1.31
1750 2045 5.536916 GGTACTGTTCTGGAGTGAGCTATAT 59.463 44.000 0.00 0.00 0.00 0.86
1753 2048 7.461182 ACTGTTCTGGAGTGAGCTATATATC 57.539 40.000 0.00 0.00 0.00 1.63
1754 2049 7.007116 ACTGTTCTGGAGTGAGCTATATATCA 58.993 38.462 0.00 0.00 0.00 2.15
1755 2050 7.673504 ACTGTTCTGGAGTGAGCTATATATCAT 59.326 37.037 0.00 0.00 0.00 2.45
1756 2051 7.834803 TGTTCTGGAGTGAGCTATATATCATG 58.165 38.462 0.00 0.00 0.00 3.07
1757 2052 6.462552 TCTGGAGTGAGCTATATATCATGC 57.537 41.667 0.00 0.00 0.00 4.06
1758 2053 5.067023 TCTGGAGTGAGCTATATATCATGCG 59.933 44.000 0.00 0.00 0.00 4.73
1759 2054 4.047822 GGAGTGAGCTATATATCATGCGC 58.952 47.826 0.00 0.00 0.00 6.09
1761 2056 5.273674 AGTGAGCTATATATCATGCGCAT 57.726 39.130 19.28 19.28 37.53 4.73
1765 2060 8.242739 AGTGAGCTATATATCATGCGCATATAG 58.757 37.037 24.84 24.11 37.53 1.31
1767 2062 8.239998 TGAGCTATATATCATGCGCATATAGTC 58.760 37.037 26.34 22.57 37.47 2.59
1769 2064 6.754209 GCTATATATCATGCGCATATAGTCCC 59.246 42.308 26.34 14.00 37.47 4.46
1770 2065 6.670695 ATATATCATGCGCATATAGTCCCA 57.329 37.500 24.84 4.10 0.00 4.37
1774 2183 4.397420 TCATGCGCATATAGTCCCAAATT 58.603 39.130 24.84 0.00 0.00 1.82
1776 2185 5.301551 TCATGCGCATATAGTCCCAAATTTT 59.698 36.000 24.84 0.00 0.00 1.82
1781 2190 5.977129 CGCATATAGTCCCAAATTTTCCAAC 59.023 40.000 0.00 0.00 0.00 3.77
1787 2196 0.669012 CCAAATTTTCCAACGCCCGG 60.669 55.000 0.00 0.00 0.00 5.73
1789 2198 1.041437 AAATTTTCCAACGCCCGGAA 58.959 45.000 0.73 0.00 40.81 4.30
1844 2256 0.824109 TCCTCGTTAGGTGCCTGATG 59.176 55.000 0.12 0.00 44.09 3.07
1916 2328 0.464036 ACACTTTGCTGACGAGGTCA 59.536 50.000 0.00 0.00 40.50 4.02
1945 2357 3.003480 GCTCAAGTTCTAGCCGACATTT 58.997 45.455 0.00 0.00 32.40 2.32
1955 2367 7.444487 AGTTCTAGCCGACATTTCTTTTACTTT 59.556 33.333 0.00 0.00 0.00 2.66
1973 2385 7.493743 TTACTTTTATGTTCGGCACTGTTTA 57.506 32.000 0.00 0.00 0.00 2.01
1974 2386 5.754778 ACTTTTATGTTCGGCACTGTTTAC 58.245 37.500 0.00 0.00 0.00 2.01
1975 2387 5.297278 ACTTTTATGTTCGGCACTGTTTACA 59.703 36.000 0.00 0.00 0.00 2.41
1976 2388 5.950758 TTTATGTTCGGCACTGTTTACAT 57.049 34.783 0.00 0.00 0.00 2.29
1977 2389 3.829886 ATGTTCGGCACTGTTTACATG 57.170 42.857 0.00 0.00 0.00 3.21
1978 2390 2.566913 TGTTCGGCACTGTTTACATGT 58.433 42.857 2.69 2.69 0.00 3.21
1979 2391 2.546368 TGTTCGGCACTGTTTACATGTC 59.454 45.455 0.00 0.00 0.00 3.06
1980 2392 2.806244 GTTCGGCACTGTTTACATGTCT 59.194 45.455 0.00 0.00 0.00 3.41
1981 2393 3.120321 TCGGCACTGTTTACATGTCTT 57.880 42.857 0.00 0.00 0.00 3.01
2047 2459 4.587584 TCTGTTTGAATTGATTGCTGCA 57.412 36.364 0.00 0.00 0.00 4.41
2110 2522 6.096001 GGTATGATTTATTCCATGGGCATCTC 59.904 42.308 13.02 3.24 0.00 2.75
2122 2534 0.182061 GGCATCTCTTCCTGGCATCA 59.818 55.000 0.00 0.00 37.82 3.07
2154 2566 3.330701 AGGCTTGGGATTCTGTAAGTTCA 59.669 43.478 0.00 0.00 33.76 3.18
2327 2744 1.003696 GGAAGTTAGCTGCCTCTTGGT 59.996 52.381 0.00 0.00 37.46 3.67
2460 2878 8.236586 TCATAGGATTGTGAAAAGATTGTTTCG 58.763 33.333 0.00 0.00 39.85 3.46
3129 3760 2.420022 ACTATCTGAATGTTGCCAACGC 59.580 45.455 2.68 0.00 0.00 4.84
3130 3761 1.246649 ATCTGAATGTTGCCAACGCA 58.753 45.000 2.68 0.64 45.49 5.24
3174 3808 8.922058 ATTTTCATTTGCTGACATCTATCAAC 57.078 30.769 0.00 0.00 32.17 3.18
3323 3969 5.875359 AGTTCAGGTGTTTATTTCCGAGATC 59.125 40.000 0.00 0.00 0.00 2.75
3378 4027 8.180267 CAGATTTACTCAAGGAAGCAGTTTATG 58.820 37.037 0.00 0.00 0.00 1.90
3393 4042 1.720805 TTATGTCTCGCACGCATGTT 58.279 45.000 0.00 0.00 0.00 2.71
3394 4043 1.720805 TATGTCTCGCACGCATGTTT 58.279 45.000 0.00 0.00 0.00 2.83
3395 4044 1.720805 ATGTCTCGCACGCATGTTTA 58.279 45.000 0.00 0.00 0.00 2.01
3396 4045 1.503294 TGTCTCGCACGCATGTTTAA 58.497 45.000 0.00 0.00 0.00 1.52
3409 4058 7.273381 GCACGCATGTTTAACTTTGATAAAGAT 59.727 33.333 8.18 0.00 41.02 2.40
3411 4060 8.511321 ACGCATGTTTAACTTTGATAAAGATCA 58.489 29.630 8.18 0.00 41.02 2.92
3464 4160 1.080638 ACCAGTTTCCCATTAGGCCA 58.919 50.000 5.01 0.00 34.51 5.36
3466 4162 2.034124 CCAGTTTCCCATTAGGCCATG 58.966 52.381 5.01 0.00 34.51 3.66
3467 4163 2.624029 CCAGTTTCCCATTAGGCCATGT 60.624 50.000 5.01 0.00 34.51 3.21
3468 4164 2.689983 CAGTTTCCCATTAGGCCATGTC 59.310 50.000 5.01 0.00 34.51 3.06
3469 4165 2.582636 AGTTTCCCATTAGGCCATGTCT 59.417 45.455 5.01 0.00 34.51 3.41
3470 4166 3.785887 AGTTTCCCATTAGGCCATGTCTA 59.214 43.478 5.01 0.00 34.51 2.59
3471 4167 4.416848 AGTTTCCCATTAGGCCATGTCTAT 59.583 41.667 5.01 0.00 34.51 1.98
3472 4168 5.610982 AGTTTCCCATTAGGCCATGTCTATA 59.389 40.000 5.01 0.00 34.51 1.31
3473 4169 5.762179 TTCCCATTAGGCCATGTCTATAG 57.238 43.478 5.01 0.00 34.51 1.31
3474 4170 5.023514 TCCCATTAGGCCATGTCTATAGA 57.976 43.478 5.01 0.00 34.51 1.98
3475 4171 5.026121 TCCCATTAGGCCATGTCTATAGAG 58.974 45.833 5.01 0.00 34.51 2.43
3476 4172 4.383552 CCCATTAGGCCATGTCTATAGAGC 60.384 50.000 5.01 2.85 0.00 4.09
3477 4173 4.223700 CCATTAGGCCATGTCTATAGAGCA 59.776 45.833 5.01 5.18 0.00 4.26
3513 4209 8.482429 GCAACTTTACATTGTGAATGAAAAGAG 58.518 33.333 12.24 7.12 41.46 2.85
3524 4220 7.424803 TGTGAATGAAAAGAGTAAATGGTGTG 58.575 34.615 0.00 0.00 0.00 3.82
3577 4280 9.739276 TGCCTATATATCAAGAAGTAATTTGGG 57.261 33.333 0.00 0.00 0.00 4.12
3579 4282 9.178758 CCTATATATCAAGAAGTAATTTGGGCC 57.821 37.037 0.00 0.00 0.00 5.80
3582 4285 2.817258 TCAAGAAGTAATTTGGGCCACG 59.183 45.455 5.23 0.00 0.00 4.94
3583 4286 1.173913 AGAAGTAATTTGGGCCACGC 58.826 50.000 5.23 0.00 0.00 5.34
3608 4311 7.196331 CCTTATGGCAAAGATTTAGCTTGTAC 58.804 38.462 0.00 0.00 0.00 2.90
3610 4313 5.627499 TGGCAAAGATTTAGCTTGTACAG 57.373 39.130 0.00 0.00 0.00 2.74
3633 4337 8.932610 ACAGTGGATATATCTTGAGTGAAGAAT 58.067 33.333 12.42 0.00 44.11 2.40
3705 4503 5.397142 AACAAGATGATCCAAAAGAAGGC 57.603 39.130 0.00 0.00 0.00 4.35
3706 4504 3.441572 ACAAGATGATCCAAAAGAAGGCG 59.558 43.478 0.00 0.00 0.00 5.52
3707 4505 3.634397 AGATGATCCAAAAGAAGGCGA 57.366 42.857 0.00 0.00 0.00 5.54
3730 4580 9.628746 GCGAACTTTTATTTAAGGATTTGGTTA 57.371 29.630 0.00 0.00 0.00 2.85
3762 4612 5.534654 AGCTCAAATTGTAAAGCAGGTTACA 59.465 36.000 7.70 4.16 41.18 2.41
3770 4620 3.806949 AAAGCAGGTTACATCAAGGGA 57.193 42.857 0.00 0.00 0.00 4.20
3772 4622 1.561542 AGCAGGTTACATCAAGGGAGG 59.438 52.381 0.00 0.00 0.00 4.30
3785 4635 2.403252 AGGGAGGAAATACTGTTGCG 57.597 50.000 0.00 0.00 0.00 4.85
3796 4662 3.271706 CTGTTGCGCATGTGGGTGG 62.272 63.158 12.75 0.00 0.00 4.61
3821 4687 6.704289 TCCAAAGATAAGCATGGATTGAAG 57.296 37.500 0.00 0.00 37.05 3.02
3822 4688 5.595542 TCCAAAGATAAGCATGGATTGAAGG 59.404 40.000 0.00 0.00 37.05 3.46
3823 4689 5.287226 CAAAGATAAGCATGGATTGAAGGC 58.713 41.667 0.00 0.00 0.00 4.35
3824 4690 4.450305 AGATAAGCATGGATTGAAGGCT 57.550 40.909 0.00 0.00 36.13 4.58
3825 4691 4.396522 AGATAAGCATGGATTGAAGGCTC 58.603 43.478 0.00 0.00 32.84 4.70
3826 4692 2.519771 AAGCATGGATTGAAGGCTCA 57.480 45.000 0.00 0.00 32.84 4.26
3827 4693 1.760192 AGCATGGATTGAAGGCTCAC 58.240 50.000 0.00 0.00 0.00 3.51
3828 4694 0.379669 GCATGGATTGAAGGCTCACG 59.620 55.000 0.00 0.00 0.00 4.35
3836 4702 2.591715 AAGGCTCACGGCACACAC 60.592 61.111 0.00 0.00 44.01 3.82
3844 4710 1.202710 TCACGGCACACACCAAATACT 60.203 47.619 0.00 0.00 0.00 2.12
3845 4711 2.037381 TCACGGCACACACCAAATACTA 59.963 45.455 0.00 0.00 0.00 1.82
3846 4712 2.415168 CACGGCACACACCAAATACTAG 59.585 50.000 0.00 0.00 0.00 2.57
3847 4713 2.300723 ACGGCACACACCAAATACTAGA 59.699 45.455 0.00 0.00 0.00 2.43
3867 4733 4.679662 AGACTGCAGCATGATATTTTTGC 58.320 39.130 15.27 0.00 39.69 3.68
3869 4735 2.792674 CTGCAGCATGATATTTTTGCGG 59.207 45.455 0.00 0.00 39.69 5.69
3874 4740 5.277779 GCAGCATGATATTTTTGCGGTACTA 60.278 40.000 0.00 0.00 39.69 1.82
3890 4756 3.698040 GGTACTAGAGGATGAACCGACAA 59.302 47.826 0.00 0.00 44.74 3.18
3923 4789 7.676807 GCAAACCCGAAACGTAATATGAACATA 60.677 37.037 0.00 0.00 0.00 2.29
3993 4861 4.832266 AGCTCAGATCTTACACCAGGATAG 59.168 45.833 0.00 0.00 0.00 2.08
4084 5161 3.223157 CGAACTGCAATACCGACAAAAC 58.777 45.455 0.00 0.00 0.00 2.43
4122 5199 0.531753 TACAAACAGCGCACTCAGCA 60.532 50.000 11.47 0.00 46.13 4.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
166 359 3.200165 GGATGAGTTGGCCTAGGTACTTT 59.800 47.826 11.31 4.25 41.75 2.66
227 420 8.133024 AGCAATTTTGAACATGGGAATACTAA 57.867 30.769 0.00 0.00 0.00 2.24
435 629 1.176182 ATTCCCCCAACTTTCCCCTT 58.824 50.000 0.00 0.00 0.00 3.95
437 631 1.342674 GGTATTCCCCCAACTTTCCCC 60.343 57.143 0.00 0.00 0.00 4.81
438 632 1.644337 AGGTATTCCCCCAACTTTCCC 59.356 52.381 0.00 0.00 0.00 3.97
460 654 2.482494 TCTTCTTCCCTCCCAATCCTC 58.518 52.381 0.00 0.00 0.00 3.71
524 718 2.770475 GCCCTTCTCCTCCCTCCC 60.770 72.222 0.00 0.00 0.00 4.30
553 756 2.494870 AGGGCTCATTCTTTGTTCATGC 59.505 45.455 0.00 0.00 0.00 4.06
598 801 2.818841 AAAAACCAGGGCCAACGC 59.181 55.556 6.18 0.00 0.00 4.84
624 827 1.361793 CATGCCCCTTCGCAAAAATG 58.638 50.000 0.00 0.00 43.24 2.32
625 828 0.249955 CCATGCCCCTTCGCAAAAAT 59.750 50.000 0.00 0.00 43.24 1.82
632 835 4.883354 GGGAGCCATGCCCCTTCG 62.883 72.222 8.34 0.00 39.81 3.79
655 858 1.539065 GCCGATAGACATGACACCCTG 60.539 57.143 0.00 0.00 39.76 4.45
704 907 1.250328 CCCATATGTTGGCGCATGAT 58.750 50.000 10.83 0.00 44.97 2.45
819 1022 1.675552 TGATCCTATCTGCACGACGA 58.324 50.000 0.00 0.00 0.00 4.20
820 1023 2.713895 ATGATCCTATCTGCACGACG 57.286 50.000 0.00 0.00 0.00 5.12
822 1025 4.571984 CACAAAATGATCCTATCTGCACGA 59.428 41.667 0.00 0.00 0.00 4.35
823 1026 4.571984 TCACAAAATGATCCTATCTGCACG 59.428 41.667 0.00 0.00 29.99 5.34
824 1027 6.441093 TTCACAAAATGATCCTATCTGCAC 57.559 37.500 0.00 0.00 37.11 4.57
825 1028 7.649533 ATTTCACAAAATGATCCTATCTGCA 57.350 32.000 0.00 0.00 37.11 4.41
1021 1291 2.043852 GAGCGAGAGGGGAGGTGA 60.044 66.667 0.00 0.00 0.00 4.02
1062 1338 3.213402 GAGACGCCGAGGGAGAGG 61.213 72.222 0.00 0.00 0.00 3.69
1063 1339 3.213402 GGAGACGCCGAGGGAGAG 61.213 72.222 0.00 0.00 0.00 3.20
1064 1340 3.283812 AAGGAGACGCCGAGGGAGA 62.284 63.158 0.00 0.00 43.43 3.71
1065 1341 2.756283 AAGGAGACGCCGAGGGAG 60.756 66.667 0.00 0.00 43.43 4.30
1066 1342 2.754658 GAAGGAGACGCCGAGGGA 60.755 66.667 0.00 0.00 43.43 4.20
1067 1343 4.194720 CGAAGGAGACGCCGAGGG 62.195 72.222 0.00 0.00 43.43 4.30
1152 1428 4.549516 GCTACGGTCCGCGGAGAC 62.550 72.222 31.97 23.46 35.95 3.36
1307 1595 2.160853 AAAACCTTCCGGGAGCCCT 61.161 57.895 3.32 0.00 38.76 5.19
1324 1612 1.300971 GCATCGCAGTCTTCCAGCAA 61.301 55.000 0.00 0.00 0.00 3.91
1507 1795 3.639561 AGACCCTAAACGGTGCAAAATTT 59.360 39.130 0.00 0.00 35.79 1.82
1534 1822 2.369668 TTCCATCCTCCCCCAAACTA 57.630 50.000 0.00 0.00 0.00 2.24
1535 1823 1.698874 ATTCCATCCTCCCCCAAACT 58.301 50.000 0.00 0.00 0.00 2.66
1560 1848 2.516460 TCTAGCGCCCCTCGAGAC 60.516 66.667 15.71 1.72 41.67 3.36
1563 1851 4.815108 TGCTCTAGCGCCCCTCGA 62.815 66.667 2.29 0.00 45.83 4.04
1564 1852 4.277593 CTGCTCTAGCGCCCCTCG 62.278 72.222 2.29 0.00 45.83 4.63
1572 1860 0.737219 CAACCAATGCCTGCTCTAGC 59.263 55.000 0.00 0.00 42.50 3.42
1574 1862 3.181451 CCTATCAACCAATGCCTGCTCTA 60.181 47.826 0.00 0.00 0.00 2.43
1591 1879 3.817647 GACTGCATCATTTCCCACCTATC 59.182 47.826 0.00 0.00 0.00 2.08
1592 1880 3.461085 AGACTGCATCATTTCCCACCTAT 59.539 43.478 0.00 0.00 0.00 2.57
1593 1881 2.846206 AGACTGCATCATTTCCCACCTA 59.154 45.455 0.00 0.00 0.00 3.08
1595 1883 2.134789 AGACTGCATCATTTCCCACC 57.865 50.000 0.00 0.00 0.00 4.61
1596 1884 3.128242 CAGAAGACTGCATCATTTCCCAC 59.872 47.826 0.00 0.00 37.33 4.61
1597 1885 3.349927 CAGAAGACTGCATCATTTCCCA 58.650 45.455 0.00 0.00 37.33 4.37
1634 1922 4.875536 CCACATTCGGATCATGTAGAAACA 59.124 41.667 0.00 0.00 40.69 2.83
1639 1927 3.751479 TCCCACATTCGGATCATGTAG 57.249 47.619 0.00 0.00 32.88 2.74
1640 1928 5.542251 TCTTATCCCACATTCGGATCATGTA 59.458 40.000 0.00 0.00 40.66 2.29
1641 1929 4.347876 TCTTATCCCACATTCGGATCATGT 59.652 41.667 0.00 0.00 40.66 3.21
1642 1930 4.898320 TCTTATCCCACATTCGGATCATG 58.102 43.478 0.00 0.00 40.66 3.07
1643 1931 5.768980 ATCTTATCCCACATTCGGATCAT 57.231 39.130 0.00 0.00 40.66 2.45
1649 1943 5.463392 CACACAGTATCTTATCCCACATTCG 59.537 44.000 0.00 0.00 0.00 3.34
1650 1944 6.582636 TCACACAGTATCTTATCCCACATTC 58.417 40.000 0.00 0.00 0.00 2.67
1662 1956 7.015292 TCTCCACTAAAAACTCACACAGTATCT 59.985 37.037 0.00 0.00 32.30 1.98
1663 1957 7.152645 TCTCCACTAAAAACTCACACAGTATC 58.847 38.462 0.00 0.00 32.30 2.24
1664 1958 7.062749 TCTCCACTAAAAACTCACACAGTAT 57.937 36.000 0.00 0.00 32.30 2.12
1666 1960 5.353394 TCTCCACTAAAAACTCACACAGT 57.647 39.130 0.00 0.00 36.64 3.55
1667 1961 6.677781 TTTCTCCACTAAAAACTCACACAG 57.322 37.500 0.00 0.00 0.00 3.66
1670 1964 7.556275 ACTGAATTTCTCCACTAAAAACTCACA 59.444 33.333 0.00 0.00 0.00 3.58
1679 1974 7.654022 AAACCAAACTGAATTTCTCCACTAA 57.346 32.000 0.00 0.00 0.00 2.24
1688 1983 8.526147 CCAGATCATCTAAACCAAACTGAATTT 58.474 33.333 0.00 0.00 0.00 1.82
1718 2013 4.712337 ACTCCAGAACAGTACCCTATTCTG 59.288 45.833 14.54 14.54 45.00 3.02
1719 2014 4.712337 CACTCCAGAACAGTACCCTATTCT 59.288 45.833 0.00 0.00 31.53 2.40
1722 2017 4.282496 CTCACTCCAGAACAGTACCCTAT 58.718 47.826 0.00 0.00 0.00 2.57
1723 2018 3.698289 CTCACTCCAGAACAGTACCCTA 58.302 50.000 0.00 0.00 0.00 3.53
1724 2019 2.530701 CTCACTCCAGAACAGTACCCT 58.469 52.381 0.00 0.00 0.00 4.34
1725 2020 1.066787 GCTCACTCCAGAACAGTACCC 60.067 57.143 0.00 0.00 0.00 3.69
1727 2022 4.993029 ATAGCTCACTCCAGAACAGTAC 57.007 45.455 0.00 0.00 0.00 2.73
1729 2024 7.007116 TGATATATAGCTCACTCCAGAACAGT 58.993 38.462 0.00 0.00 0.00 3.55
1730 2025 7.459795 TGATATATAGCTCACTCCAGAACAG 57.540 40.000 0.00 0.00 0.00 3.16
1731 2026 7.578380 GCATGATATATAGCTCACTCCAGAACA 60.578 40.741 0.00 0.00 0.00 3.18
1732 2027 6.756074 GCATGATATATAGCTCACTCCAGAAC 59.244 42.308 0.00 0.00 0.00 3.01
1733 2028 6.405176 CGCATGATATATAGCTCACTCCAGAA 60.405 42.308 0.00 0.00 0.00 3.02
1736 2031 4.440663 GCGCATGATATATAGCTCACTCCA 60.441 45.833 0.30 0.00 0.00 3.86
1737 2032 4.047822 GCGCATGATATATAGCTCACTCC 58.952 47.826 0.30 0.00 0.00 3.85
1739 2034 4.725790 TGCGCATGATATATAGCTCACT 57.274 40.909 5.66 0.00 0.00 3.41
1740 2035 8.026026 ACTATATGCGCATGATATATAGCTCAC 58.974 37.037 32.48 0.00 39.38 3.51
1741 2036 8.115490 ACTATATGCGCATGATATATAGCTCA 57.885 34.615 32.48 8.18 39.38 4.26
1743 2038 7.363355 GGGACTATATGCGCATGATATATAGCT 60.363 40.741 32.48 18.42 39.38 3.32
1744 2039 6.754209 GGGACTATATGCGCATGATATATAGC 59.246 42.308 32.48 21.67 39.38 2.97
1747 2042 6.670695 TGGGACTATATGCGCATGATATAT 57.329 37.500 32.48 19.35 0.00 0.86
1748 2043 6.478512 TTGGGACTATATGCGCATGATATA 57.521 37.500 32.48 20.13 0.00 0.86
1749 2044 5.357742 TTGGGACTATATGCGCATGATAT 57.642 39.130 32.48 20.09 0.00 1.63
1750 2045 4.817318 TTGGGACTATATGCGCATGATA 57.183 40.909 32.48 21.61 0.00 2.15
1753 2048 4.771590 AATTTGGGACTATATGCGCATG 57.228 40.909 32.48 18.39 0.00 4.06
1754 2049 5.278957 GGAAAATTTGGGACTATATGCGCAT 60.279 40.000 28.23 28.23 0.00 4.73
1755 2050 4.037446 GGAAAATTTGGGACTATATGCGCA 59.963 41.667 14.96 14.96 0.00 6.09
1756 2051 4.037446 TGGAAAATTTGGGACTATATGCGC 59.963 41.667 0.00 0.00 0.00 6.09
1757 2052 5.766150 TGGAAAATTTGGGACTATATGCG 57.234 39.130 0.00 0.00 0.00 4.73
1758 2053 5.977129 CGTTGGAAAATTTGGGACTATATGC 59.023 40.000 0.00 0.00 0.00 3.14
1759 2054 5.977129 GCGTTGGAAAATTTGGGACTATATG 59.023 40.000 0.00 0.00 0.00 1.78
1761 2056 4.399934 GGCGTTGGAAAATTTGGGACTATA 59.600 41.667 0.00 0.00 0.00 1.31
1765 2060 1.606994 GGGCGTTGGAAAATTTGGGAC 60.607 52.381 0.00 0.00 0.00 4.46
1767 2062 0.669012 CGGGCGTTGGAAAATTTGGG 60.669 55.000 0.00 0.00 0.00 4.12
1769 2064 0.315568 TCCGGGCGTTGGAAAATTTG 59.684 50.000 0.00 0.00 30.98 2.32
1770 2065 1.041437 TTCCGGGCGTTGGAAAATTT 58.959 45.000 0.00 0.00 42.37 1.82
1776 2185 1.525077 GCATATTCCGGGCGTTGGA 60.525 57.895 0.00 0.00 0.00 3.53
1781 2190 1.308998 AAAAGAGCATATTCCGGGCG 58.691 50.000 0.00 0.00 0.00 6.13
1844 2256 2.070028 GCTCTTCTTCGTTCCCTCAAC 58.930 52.381 0.00 0.00 0.00 3.18
1916 2328 3.142174 GCTAGAACTTGAGCCAAACACT 58.858 45.455 0.00 0.00 32.25 3.55
1945 2357 6.261381 ACAGTGCCGAACATAAAAGTAAAAGA 59.739 34.615 0.00 0.00 0.00 2.52
1955 2367 4.757657 ACATGTAAACAGTGCCGAACATAA 59.242 37.500 0.00 0.00 0.00 1.90
1975 2387 7.446931 TGGTCATAACACAAACATGTAAGACAT 59.553 33.333 0.00 0.00 39.91 3.06
1976 2388 6.768381 TGGTCATAACACAAACATGTAAGACA 59.232 34.615 0.00 0.00 33.16 3.41
1977 2389 7.197071 TGGTCATAACACAAACATGTAAGAC 57.803 36.000 0.00 0.00 30.75 3.01
1978 2390 6.429692 CCTGGTCATAACACAAACATGTAAGA 59.570 38.462 0.00 0.00 30.75 2.10
1979 2391 6.429692 TCCTGGTCATAACACAAACATGTAAG 59.570 38.462 0.00 0.00 30.75 2.34
1980 2392 6.299922 TCCTGGTCATAACACAAACATGTAA 58.700 36.000 0.00 0.00 30.75 2.41
1981 2393 5.870706 TCCTGGTCATAACACAAACATGTA 58.129 37.500 0.00 0.00 30.75 2.29
2047 2459 2.978824 CCAACCGATGGTCCTCGT 59.021 61.111 9.08 0.00 44.85 4.18
2122 2534 2.234296 CCCAAGCCTTCCTGTCCCT 61.234 63.158 0.00 0.00 0.00 4.20
2154 2566 7.393515 AGCTCGAACCTTAACCATAAGAAATTT 59.606 33.333 0.00 0.00 40.90 1.82
2172 2589 5.765072 AGTTATCGAAAAGAAGCTCGAAC 57.235 39.130 0.00 0.00 46.26 3.95
2282 2699 8.223100 CCAGTTTAAGTTTGCAAGCAATTAATC 58.777 33.333 16.04 10.73 35.70 1.75
2327 2744 9.449719 GAAAGTCCTATCTCCATTTTACTTTCA 57.550 33.333 15.85 0.00 45.40 2.69
2382 2800 3.314080 CGACTAACAAGACCCTGCAAAAA 59.686 43.478 0.00 0.00 0.00 1.94
2460 2878 6.648725 GGCATAGTAAAGATCATCTCTCAACC 59.351 42.308 0.00 0.00 31.03 3.77
2939 3562 5.378292 AGTCGCGTATCATGTCTTGATAT 57.622 39.130 5.77 0.00 46.40 1.63
3129 3760 1.300775 CTATCCGCTGGAGCTGCTG 60.301 63.158 7.01 7.34 39.32 4.41
3130 3761 1.045350 TTCTATCCGCTGGAGCTGCT 61.045 55.000 6.82 0.00 39.32 4.24
3131 3762 0.034616 ATTCTATCCGCTGGAGCTGC 59.965 55.000 0.00 0.00 39.32 5.25
3174 3808 6.037172 CACGGTGGAGAAAATTAATAGTCCTG 59.963 42.308 0.00 0.00 0.00 3.86
3357 4003 6.769512 AGACATAAACTGCTTCCTTGAGTAA 58.230 36.000 0.00 0.00 0.00 2.24
3363 4012 3.003480 GCGAGACATAAACTGCTTCCTT 58.997 45.455 0.00 0.00 0.00 3.36
3378 4027 1.459592 AGTTAAACATGCGTGCGAGAC 59.540 47.619 5.64 0.46 0.00 3.36
3409 4058 8.417106 TGCTACAACCAAAATATTTTCTGTTGA 58.583 29.630 33.56 23.92 39.67 3.18
3411 4060 9.777297 AATGCTACAACCAAAATATTTTCTGTT 57.223 25.926 18.11 16.59 0.00 3.16
3464 4160 5.297776 GCCACAAACATTGCTCTATAGACAT 59.702 40.000 0.00 0.00 0.00 3.06
3466 4162 4.635765 TGCCACAAACATTGCTCTATAGAC 59.364 41.667 0.00 0.00 0.00 2.59
3467 4163 4.842574 TGCCACAAACATTGCTCTATAGA 58.157 39.130 1.69 1.69 0.00 1.98
3468 4164 5.124457 AGTTGCCACAAACATTGCTCTATAG 59.876 40.000 0.00 0.00 32.21 1.31
3469 4165 5.009631 AGTTGCCACAAACATTGCTCTATA 58.990 37.500 0.00 0.00 32.21 1.31
3470 4166 3.828451 AGTTGCCACAAACATTGCTCTAT 59.172 39.130 0.00 0.00 32.21 1.98
3471 4167 3.221771 AGTTGCCACAAACATTGCTCTA 58.778 40.909 0.00 0.00 32.21 2.43
3472 4168 2.034124 AGTTGCCACAAACATTGCTCT 58.966 42.857 0.00 0.00 32.21 4.09
3473 4169 2.514205 AGTTGCCACAAACATTGCTC 57.486 45.000 0.00 0.00 32.21 4.26
3474 4170 2.985957 AAGTTGCCACAAACATTGCT 57.014 40.000 0.00 0.00 32.21 3.91
3475 4171 3.868077 TGTAAAGTTGCCACAAACATTGC 59.132 39.130 0.00 0.00 32.21 3.56
3476 4172 6.036953 ACAATGTAAAGTTGCCACAAACATTG 59.963 34.615 25.04 25.04 44.75 2.82
3477 4173 6.036953 CACAATGTAAAGTTGCCACAAACATT 59.963 34.615 8.70 8.70 34.56 2.71
3583 4286 6.212888 ACAAGCTAAATCTTTGCCATAAGG 57.787 37.500 0.00 0.00 38.23 2.69
3608 4311 9.205719 CATTCTTCACTCAAGATATATCCACTG 57.794 37.037 9.18 5.13 41.02 3.66
3610 4313 9.553064 AACATTCTTCACTCAAGATATATCCAC 57.447 33.333 9.18 0.00 41.02 4.02
3730 4580 9.846248 CTGCTTTACAATTTGAGCTATAAAAGT 57.154 29.630 2.79 0.00 36.16 2.66
3762 4612 4.273318 GCAACAGTATTTCCTCCCTTGAT 58.727 43.478 0.00 0.00 0.00 2.57
3770 4620 2.162208 CACATGCGCAACAGTATTTCCT 59.838 45.455 17.11 0.00 0.00 3.36
3772 4622 2.518949 CCACATGCGCAACAGTATTTC 58.481 47.619 17.11 0.00 0.00 2.17
3785 4635 0.819582 CTTTGGATCCACCCACATGC 59.180 55.000 15.91 0.00 35.62 4.06
3796 4662 6.889301 TCAATCCATGCTTATCTTTGGATC 57.111 37.500 3.93 0.00 45.87 3.36
3817 4683 2.280797 GTGTGCCGTGAGCCTTCA 60.281 61.111 0.00 0.00 42.71 3.02
3821 4687 4.927782 TGGTGTGTGCCGTGAGCC 62.928 66.667 0.00 0.00 42.71 4.70
3822 4688 1.795170 ATTTGGTGTGTGCCGTGAGC 61.795 55.000 0.00 0.00 44.14 4.26
3823 4689 1.196808 GTATTTGGTGTGTGCCGTGAG 59.803 52.381 0.00 0.00 0.00 3.51
3824 4690 1.202710 AGTATTTGGTGTGTGCCGTGA 60.203 47.619 0.00 0.00 0.00 4.35
3825 4691 1.234821 AGTATTTGGTGTGTGCCGTG 58.765 50.000 0.00 0.00 0.00 4.94
3826 4692 2.300723 TCTAGTATTTGGTGTGTGCCGT 59.699 45.455 0.00 0.00 0.00 5.68
3827 4693 2.671396 GTCTAGTATTTGGTGTGTGCCG 59.329 50.000 0.00 0.00 0.00 5.69
3828 4694 3.684788 CAGTCTAGTATTTGGTGTGTGCC 59.315 47.826 0.00 0.00 0.00 5.01
3836 4702 4.445453 TCATGCTGCAGTCTAGTATTTGG 58.555 43.478 16.64 0.00 0.00 3.28
3844 4710 5.504501 CGCAAAAATATCATGCTGCAGTCTA 60.505 40.000 16.64 2.57 37.92 2.59
3845 4711 4.679662 GCAAAAATATCATGCTGCAGTCT 58.320 39.130 16.64 0.00 37.12 3.24
3846 4712 3.484649 CGCAAAAATATCATGCTGCAGTC 59.515 43.478 16.64 8.39 37.92 3.51
3847 4713 3.441163 CGCAAAAATATCATGCTGCAGT 58.559 40.909 16.64 0.00 37.92 4.40
3869 4735 4.978083 TTGTCGGTTCATCCTCTAGTAC 57.022 45.455 0.00 0.00 0.00 2.73
3874 4740 5.186198 CCTTATTTTGTCGGTTCATCCTCT 58.814 41.667 0.00 0.00 0.00 3.69
3887 4753 4.373527 GTTTCGGGTTTGCCTTATTTTGT 58.626 39.130 0.00 0.00 34.45 2.83
3890 4756 2.624364 ACGTTTCGGGTTTGCCTTATTT 59.376 40.909 0.00 0.00 34.45 1.40
3941 4809 2.234414 TGGCAAATCCTTGAATGGAAGC 59.766 45.455 0.00 0.00 39.85 3.86
3993 4861 4.875561 ACAGTCTTCTTCCCTTACTGAC 57.124 45.455 7.70 0.00 39.93 3.51
4073 5150 1.134037 ACAAGGGCAGTTTTGTCGGTA 60.134 47.619 0.00 0.00 32.32 4.02
4084 5161 0.541863 ATCCGGTCTAACAAGGGCAG 59.458 55.000 0.00 0.00 0.00 4.85
4122 5199 6.948309 AGCTTTGATACAATTCTGGTTAAGGT 59.052 34.615 0.00 0.00 0.00 3.50


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

AutoCloner maintained by Alex Coulton.