Multiple sequence alignment - TraesCS7A01G557100

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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 TraesCS7A01G557100 chr7A 100.000 5803 0 0 1 5803 729266706 729260904 0.000000e+00 10717.0
1 TraesCS7A01G557100 chr7A 84.016 757 83 18 4434 5174 729186780 729186046 0.000000e+00 693.0
2 TraesCS7A01G557100 chr7A 93.571 140 9 0 4312 4451 729232569 729232430 5.890000e-50 209.0
3 TraesCS7A01G557100 chr7A 91.765 85 6 1 1673 1757 675076329 675076412 3.670000e-22 117.0
4 TraesCS7A01G557100 chr7B 92.875 2877 166 26 2297 5161 739385325 739382476 0.000000e+00 4141.0
5 TraesCS7A01G557100 chr7B 90.642 1838 115 19 1 1808 739387661 739385851 0.000000e+00 2388.0
6 TraesCS7A01G557100 chr7B 86.772 756 86 10 3946 4692 739359112 739358362 0.000000e+00 830.0
7 TraesCS7A01G557100 chr7B 88.776 392 27 7 4833 5217 739372035 739371654 1.140000e-126 464.0
8 TraesCS7A01G557100 chr7B 83.827 439 30 17 1844 2245 739385850 739385416 4.240000e-101 379.0
9 TraesCS7A01G557100 chr7B 89.773 176 16 2 3988 4161 739372208 739372033 2.100000e-54 224.0
10 TraesCS7A01G557100 chr7B 93.443 122 6 2 5150 5270 739371773 739371653 4.620000e-41 180.0
11 TraesCS7A01G557100 chr7D 90.968 2923 155 55 2301 5189 636855675 636858522 0.000000e+00 3834.0
12 TraesCS7A01G557100 chr7D 90.198 1061 68 18 635 1666 636854125 636855178 0.000000e+00 1351.0
13 TraesCS7A01G557100 chr7D 89.969 648 45 8 1 630 636853434 636854079 0.000000e+00 819.0
14 TraesCS7A01G557100 chr7D 89.453 512 46 4 3946 4451 636915021 636915530 1.760000e-179 640.0
15 TraesCS7A01G557100 chr7D 82.423 751 85 21 4434 5174 636917658 636918371 3.840000e-171 612.0
16 TraesCS7A01G557100 chr7D 85.470 234 26 6 2036 2263 636855323 636855554 2.700000e-58 237.0
17 TraesCS7A01G557100 chr7D 86.782 174 3 16 5100 5271 636858482 636858637 5.980000e-40 176.0
18 TraesCS7A01G557100 chr7D 87.069 116 9 5 1669 1783 531593798 531593688 6.100000e-25 126.0
19 TraesCS7A01G557100 chr5B 94.139 546 22 5 5268 5803 647469449 647468904 0.000000e+00 822.0
20 TraesCS7A01G557100 chr5B 83.186 113 13 4 1671 1783 595031188 595031294 1.330000e-16 99.0
21 TraesCS7A01G557100 chr2A 93.028 545 20 6 5266 5803 147170129 147170662 0.000000e+00 780.0
22 TraesCS7A01G557100 chr5D 90.164 244 23 1 1416 1659 23169577 23169819 3.370000e-82 316.0
23 TraesCS7A01G557100 chr2B 76.903 381 38 26 5351 5720 405278831 405278490 2.780000e-38 171.0
24 TraesCS7A01G557100 chr3D 80.000 225 36 9 1169 1393 28377633 28377418 2.160000e-34 158.0
25 TraesCS7A01G557100 chr3B 89.535 86 7 2 1672 1757 739571347 739571430 2.210000e-19 108.0
26 TraesCS7A01G557100 chr3B 89.535 86 7 2 1673 1757 827127868 827127952 2.210000e-19 108.0
27 TraesCS7A01G557100 chr3B 89.535 86 7 2 1673 1757 827672653 827672737 2.210000e-19 108.0
28 TraesCS7A01G557100 chr4A 82.645 121 16 4 1664 1783 483899608 483899724 1.030000e-17 102.0
29 TraesCS7A01G557100 chrUn 83.186 113 13 5 1671 1783 12319972 12320078 1.330000e-16 99.0
30 TraesCS7A01G557100 chr1A 97.143 35 0 1 5351 5385 394451728 394451695 2.260000e-04 58.4
31 TraesCS7A01G557100 chr1A 97.143 35 0 1 5351 5385 394540547 394540514 2.260000e-04 58.4


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 TraesCS7A01G557100 chr7A 729260904 729266706 5802 True 10717.000000 10717 100.000000 1 5803 1 chr7A.!!$R3 5802
1 TraesCS7A01G557100 chr7A 729186046 729186780 734 True 693.000000 693 84.016000 4434 5174 1 chr7A.!!$R1 740
2 TraesCS7A01G557100 chr7B 739382476 739387661 5185 True 2302.666667 4141 89.114667 1 5161 3 chr7B.!!$R3 5160
3 TraesCS7A01G557100 chr7B 739358362 739359112 750 True 830.000000 830 86.772000 3946 4692 1 chr7B.!!$R1 746
4 TraesCS7A01G557100 chr7B 739371653 739372208 555 True 289.333333 464 90.664000 3988 5270 3 chr7B.!!$R2 1282
5 TraesCS7A01G557100 chr7D 636853434 636858637 5203 False 1283.400000 3834 88.677400 1 5271 5 chr7D.!!$F1 5270
6 TraesCS7A01G557100 chr7D 636915021 636918371 3350 False 626.000000 640 85.938000 3946 5174 2 chr7D.!!$F2 1228
7 TraesCS7A01G557100 chr5B 647468904 647469449 545 True 822.000000 822 94.139000 5268 5803 1 chr5B.!!$R1 535
8 TraesCS7A01G557100 chr2A 147170129 147170662 533 False 780.000000 780 93.028000 5266 5803 1 chr2A.!!$F1 537

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
986 1095 0.029300 AGCACACACATCACAAACGC 59.971 50.000 0.00 0.00 0.00 4.84 F
2032 2183 0.179006 TGCATGTGGGTGTTGTAGCA 60.179 50.000 0.00 0.00 0.00 3.49 F
2299 2549 1.835531 TCCGGGAAGACAATTAGGACC 59.164 52.381 0.00 0.00 0.00 4.46 F
3031 3282 0.107508 AGCTGACATACCTGCGCAAT 60.108 50.000 13.05 5.12 36.33 3.56 F
4102 4377 1.368731 CAACGAAGCGCTTGCGAAA 60.369 52.632 33.07 0.00 45.69 3.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2391 2642 0.033601 AACTGGTTGCCCTCACACAA 60.034 50.000 0.00 0.0 0.00 3.33 R
2905 3156 0.747644 CATCCACAGGCAATGGCGTA 60.748 55.000 0.00 0.0 42.47 4.42 R
3823 4096 2.218603 TGAAAGTTCCCGCAGAAGTTC 58.781 47.619 6.94 0.0 45.55 3.01 R
4671 7101 1.066143 GGCAGAACGGAAATCTGGAGA 60.066 52.381 5.76 0.0 43.60 3.71 R
5641 8209 0.037160 TGAGCTGGCATGTCATGTGT 59.963 50.000 14.26 0.0 0.00 3.72 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
31 32 3.118454 CGAAGCAACCGTCGCCAT 61.118 61.111 0.00 0.00 36.27 4.40
69 70 4.218686 AAAGCCCCTGCCACCGTT 62.219 61.111 0.00 0.00 38.69 4.44
77 88 1.262640 CCTGCCACCGTTACCCTAGT 61.263 60.000 0.00 0.00 0.00 2.57
147 158 1.670406 CAGCCTGACTCAGCCACAC 60.670 63.158 0.00 0.00 0.00 3.82
178 190 7.643528 ACTTATTCTGACACATGTATATGCG 57.356 36.000 0.00 0.00 37.85 4.73
217 230 5.427378 ACCATTTTTCTTTTGTTGGACTGG 58.573 37.500 0.00 0.00 0.00 4.00
238 251 9.113876 GACTGGTAGTTTTGAAATGTTAAATCG 57.886 33.333 0.00 0.00 0.00 3.34
277 290 7.636150 AAGGAGAAATTATGTCATCCAACAG 57.364 36.000 0.00 0.00 31.50 3.16
292 305 5.762179 TCCAACAGACCATCTAATTGAGT 57.238 39.130 0.00 0.00 28.46 3.41
347 366 2.046700 CGGACGGGCCAAAGCTTA 60.047 61.111 4.39 0.00 39.73 3.09
424 447 1.067821 CCCTATGCCTCTTCGTCACTC 59.932 57.143 0.00 0.00 0.00 3.51
479 502 4.533222 CGACAAGTTCCAAAATACACCAC 58.467 43.478 0.00 0.00 0.00 4.16
507 531 2.806608 TTGTCGGGACACTTACTCAC 57.193 50.000 0.04 0.00 41.67 3.51
539 563 2.507471 AGGATCCAGAACTCCATCCAAC 59.493 50.000 15.82 0.00 37.82 3.77
558 582 1.302431 CCAGCGTTGACCACCATGA 60.302 57.895 0.00 0.00 0.00 3.07
561 585 0.324614 AGCGTTGACCACCATGATCA 59.675 50.000 0.00 0.00 0.00 2.92
567 591 3.235750 TGACCACCATGATCACCAAAA 57.764 42.857 0.00 0.00 0.00 2.44
571 595 1.894466 CACCATGATCACCAAAAGGCA 59.106 47.619 0.00 0.00 0.00 4.75
575 599 1.999648 TGATCACCAAAAGGCAAGCT 58.000 45.000 0.00 0.00 0.00 3.74
600 624 0.461961 GAGACCTGATGGGGAAGTCG 59.538 60.000 0.00 0.00 40.03 4.18
663 728 8.211629 AGTTTAGAAAGTCTGTCAAACTACCAT 58.788 33.333 14.17 0.00 35.17 3.55
668 733 4.817517 AGTCTGTCAAACTACCATTACCG 58.182 43.478 0.00 0.00 0.00 4.02
696 761 1.595311 TAGCAACCCTGTCCCATGAT 58.405 50.000 0.00 0.00 0.00 2.45
702 767 1.852309 ACCCTGTCCCATGATTATGCA 59.148 47.619 0.00 0.00 32.79 3.96
958 1067 4.192317 GCCCACTTATCCTCACTACTTTG 58.808 47.826 0.00 0.00 0.00 2.77
977 1086 4.709840 GCTCTCCAGCACACACAT 57.290 55.556 0.00 0.00 46.06 3.21
978 1087 2.464682 GCTCTCCAGCACACACATC 58.535 57.895 0.00 0.00 46.06 3.06
979 1088 0.321034 GCTCTCCAGCACACACATCA 60.321 55.000 0.00 0.00 46.06 3.07
980 1089 1.436600 CTCTCCAGCACACACATCAC 58.563 55.000 0.00 0.00 0.00 3.06
981 1090 0.758123 TCTCCAGCACACACATCACA 59.242 50.000 0.00 0.00 0.00 3.58
982 1091 1.140652 TCTCCAGCACACACATCACAA 59.859 47.619 0.00 0.00 0.00 3.33
983 1092 1.948834 CTCCAGCACACACATCACAAA 59.051 47.619 0.00 0.00 0.00 2.83
984 1093 1.675483 TCCAGCACACACATCACAAAC 59.325 47.619 0.00 0.00 0.00 2.93
985 1094 1.597690 CCAGCACACACATCACAAACG 60.598 52.381 0.00 0.00 0.00 3.60
986 1095 0.029300 AGCACACACATCACAAACGC 59.971 50.000 0.00 0.00 0.00 4.84
987 1096 1.261510 GCACACACATCACAAACGCG 61.262 55.000 3.53 3.53 0.00 6.01
996 1123 4.961511 ACAAACGCGAGCTCGGCA 62.962 61.111 35.10 0.00 40.23 5.69
1108 1235 4.974438 TGACCCCTCCGCACCCTT 62.974 66.667 0.00 0.00 0.00 3.95
1159 1286 1.609208 GCAAAGAGAAACCAGCTCCA 58.391 50.000 0.00 0.00 32.82 3.86
1162 1289 0.402121 AAGAGAAACCAGCTCCACCC 59.598 55.000 0.00 0.00 32.82 4.61
1262 1389 4.821589 GCTCTCCGACCCGCCAAG 62.822 72.222 0.00 0.00 0.00 3.61
1263 1390 4.821589 CTCTCCGACCCGCCAAGC 62.822 72.222 0.00 0.00 0.00 4.01
1641 1768 2.821366 CGGTGCATGGACAGAGCC 60.821 66.667 19.67 0.00 0.00 4.70
1745 1872 6.017109 GCAGTCACTGAAATCTTTACCTTTCA 60.017 38.462 9.70 0.00 38.64 2.69
1757 1884 9.875691 AATCTTTACCTTTCAGCCAAAATATTC 57.124 29.630 0.00 0.00 0.00 1.75
1762 1889 9.528489 TTACCTTTCAGCCAAAATATTCTAAGT 57.472 29.630 0.00 0.00 0.00 2.24
1783 1910 6.591750 AGTAGCAGTTTCAGTAGTACACAT 57.408 37.500 2.52 0.00 0.00 3.21
1795 1922 5.859114 CAGTAGTACACATCAGTCACTGAAC 59.141 44.000 12.63 4.94 44.04 3.18
1805 1932 1.141053 AGTCACTGAACACCTTGGGTC 59.859 52.381 0.00 0.00 31.02 4.46
1806 1933 1.134220 GTCACTGAACACCTTGGGTCA 60.134 52.381 0.00 0.00 31.02 4.02
1807 1934 1.140852 TCACTGAACACCTTGGGTCAG 59.859 52.381 6.67 6.67 38.68 3.51
1808 1935 1.140852 CACTGAACACCTTGGGTCAGA 59.859 52.381 14.56 0.00 37.20 3.27
1809 1936 1.417890 ACTGAACACCTTGGGTCAGAG 59.582 52.381 14.56 0.00 37.20 3.35
1810 1937 1.417890 CTGAACACCTTGGGTCAGAGT 59.582 52.381 2.10 0.00 36.39 3.24
1811 1938 1.416401 TGAACACCTTGGGTCAGAGTC 59.584 52.381 0.00 0.00 31.02 3.36
1812 1939 1.416401 GAACACCTTGGGTCAGAGTCA 59.584 52.381 0.00 0.00 31.02 3.41
1813 1940 0.759346 ACACCTTGGGTCAGAGTCAC 59.241 55.000 0.00 0.00 31.02 3.67
1814 1941 1.051812 CACCTTGGGTCAGAGTCACT 58.948 55.000 0.00 0.00 31.02 3.41
1815 1942 1.001406 CACCTTGGGTCAGAGTCACTC 59.999 57.143 0.00 0.00 31.02 3.51
1816 1943 0.610687 CCTTGGGTCAGAGTCACTCC 59.389 60.000 0.00 0.00 0.00 3.85
1817 1944 0.610687 CTTGGGTCAGAGTCACTCCC 59.389 60.000 0.00 0.00 38.68 4.30
1818 1945 1.185618 TTGGGTCAGAGTCACTCCCG 61.186 60.000 0.00 0.00 40.86 5.14
1819 1946 1.606889 GGGTCAGAGTCACTCCCGT 60.607 63.158 0.00 0.00 0.00 5.28
1820 1947 1.587054 GGTCAGAGTCACTCCCGTG 59.413 63.158 0.00 0.00 42.59 4.94
1821 1948 1.587054 GTCAGAGTCACTCCCGTGG 59.413 63.158 0.00 0.00 41.53 4.94
1822 1949 1.153061 TCAGAGTCACTCCCGTGGT 59.847 57.895 0.00 0.00 41.53 4.16
1823 1950 0.469331 TCAGAGTCACTCCCGTGGTT 60.469 55.000 0.00 0.00 41.53 3.67
1824 1951 0.319900 CAGAGTCACTCCCGTGGTTG 60.320 60.000 0.00 0.00 41.53 3.77
1825 1952 1.668151 GAGTCACTCCCGTGGTTGC 60.668 63.158 0.00 0.00 41.53 4.17
1826 1953 3.041940 GTCACTCCCGTGGTTGCG 61.042 66.667 0.00 0.00 41.53 4.85
1835 1962 2.357760 GTGGTTGCGGCTCGGTTA 60.358 61.111 0.00 0.00 0.00 2.85
1836 1963 2.357760 TGGTTGCGGCTCGGTTAC 60.358 61.111 0.00 0.00 0.00 2.50
1837 1964 3.122971 GGTTGCGGCTCGGTTACC 61.123 66.667 0.00 0.00 0.00 2.85
1838 1965 2.047560 GTTGCGGCTCGGTTACCT 60.048 61.111 0.00 0.00 0.00 3.08
1839 1966 2.098831 GTTGCGGCTCGGTTACCTC 61.099 63.158 0.00 0.00 0.00 3.85
1842 1969 2.101770 CGGCTCGGTTACCTCGAC 59.898 66.667 0.00 0.00 32.86 4.20
1852 1979 3.119029 CGGTTACCTCGACCTCCATTTTA 60.119 47.826 0.00 0.00 34.95 1.52
1899 2026 4.214758 TGAGTTTGATTGATGTGAGTGCTG 59.785 41.667 0.00 0.00 0.00 4.41
1900 2027 3.057736 AGTTTGATTGATGTGAGTGCTGC 60.058 43.478 0.00 0.00 0.00 5.25
1901 2028 2.484742 TGATTGATGTGAGTGCTGCT 57.515 45.000 0.00 0.00 0.00 4.24
1902 2029 2.786777 TGATTGATGTGAGTGCTGCTT 58.213 42.857 0.00 0.00 0.00 3.91
1935 2062 2.975410 TTTGATGCAGTTCTGCTTCG 57.025 45.000 24.73 0.00 40.49 3.79
1938 2065 1.151668 GATGCAGTTCTGCTTCGTGT 58.848 50.000 22.44 5.16 35.49 4.49
1940 2067 0.179086 TGCAGTTCTGCTTCGTGTCA 60.179 50.000 22.44 0.48 35.49 3.58
1949 2076 2.674852 CTGCTTCGTGTCAGCACATATT 59.325 45.455 0.00 0.00 45.50 1.28
1977 2104 4.833478 ATGTGAATTCTAGTGGCTCTGT 57.167 40.909 7.05 0.00 0.00 3.41
1978 2105 3.930336 TGTGAATTCTAGTGGCTCTGTG 58.070 45.455 7.05 0.00 0.00 3.66
1981 2108 3.324846 TGAATTCTAGTGGCTCTGTGTGT 59.675 43.478 7.05 0.00 0.00 3.72
1985 2112 3.497332 TCTAGTGGCTCTGTGTGTTACT 58.503 45.455 0.00 0.00 0.00 2.24
1990 2117 1.217882 GCTCTGTGTGTTACTTGCGT 58.782 50.000 0.00 0.00 0.00 5.24
1991 2118 2.400399 GCTCTGTGTGTTACTTGCGTA 58.600 47.619 0.00 0.00 0.00 4.42
1992 2119 2.993899 GCTCTGTGTGTTACTTGCGTAT 59.006 45.455 0.00 0.00 0.00 3.06
1994 2121 4.031426 GCTCTGTGTGTTACTTGCGTATAC 59.969 45.833 0.00 0.00 0.00 1.47
1995 2122 5.123805 TCTGTGTGTTACTTGCGTATACA 57.876 39.130 3.32 0.00 0.00 2.29
1996 2123 5.716094 TCTGTGTGTTACTTGCGTATACAT 58.284 37.500 3.32 0.00 30.75 2.29
2001 2128 5.522097 TGTGTTACTTGCGTATACATGATGG 59.478 40.000 0.00 0.00 0.00 3.51
2002 2129 4.509970 TGTTACTTGCGTATACATGATGGC 59.490 41.667 0.00 0.00 0.00 4.40
2003 2130 3.475566 ACTTGCGTATACATGATGGCT 57.524 42.857 0.00 0.00 0.00 4.75
2004 2131 3.393800 ACTTGCGTATACATGATGGCTC 58.606 45.455 0.00 0.00 0.00 4.70
2005 2132 3.070159 ACTTGCGTATACATGATGGCTCT 59.930 43.478 0.00 0.00 0.00 4.09
2006 2133 3.030668 TGCGTATACATGATGGCTCTG 57.969 47.619 0.00 0.00 0.00 3.35
2031 2182 1.133025 GATGCATGTGGGTGTTGTAGC 59.867 52.381 2.46 0.00 0.00 3.58
2032 2183 0.179006 TGCATGTGGGTGTTGTAGCA 60.179 50.000 0.00 0.00 0.00 3.49
2094 2246 2.885135 TGTTGACATTCTCTGGCCAT 57.115 45.000 5.51 0.00 28.32 4.40
2101 2253 3.618351 ACATTCTCTGGCCATTTCTGAG 58.382 45.455 5.51 9.52 0.00 3.35
2102 2254 3.009916 ACATTCTCTGGCCATTTCTGAGT 59.990 43.478 5.51 0.00 33.67 3.41
2103 2255 3.340814 TTCTCTGGCCATTTCTGAGTC 57.659 47.619 5.51 0.00 33.67 3.36
2108 2269 1.918262 TGGCCATTTCTGAGTCCTGAT 59.082 47.619 0.00 0.00 0.00 2.90
2163 2325 6.737254 TTTTTAGGACTTCAATTCTAGCCG 57.263 37.500 0.00 0.00 0.00 5.52
2172 2334 5.010213 ACTTCAATTCTAGCCGATAGAGGTC 59.990 44.000 0.00 0.00 41.57 3.85
2175 2337 3.758755 TTCTAGCCGATAGAGGTCGTA 57.241 47.619 0.00 0.00 41.57 3.43
2230 2397 2.878406 GCTACTTTGCACTCAGTTCCAA 59.122 45.455 0.00 0.00 0.00 3.53
2263 2430 8.328758 TGTTCCATTAAGTTGAATCTACAGGAT 58.671 33.333 0.00 0.00 35.97 3.24
2264 2431 9.178758 GTTCCATTAAGTTGAATCTACAGGATT 57.821 33.333 0.00 0.00 46.24 3.01
2270 2437 7.468141 AAGTTGAATCTACAGGATTTTTCCC 57.532 36.000 0.00 0.00 43.90 3.97
2272 2439 4.867086 TGAATCTACAGGATTTTTCCCCC 58.133 43.478 0.00 0.00 43.90 5.40
2273 2440 4.544152 TGAATCTACAGGATTTTTCCCCCT 59.456 41.667 0.00 0.00 43.90 4.79
2276 2443 5.348259 TCTACAGGATTTTTCCCCCTTTT 57.652 39.130 0.00 0.00 0.00 2.27
2277 2444 5.330233 TCTACAGGATTTTTCCCCCTTTTC 58.670 41.667 0.00 0.00 0.00 2.29
2282 2480 3.056107 GGATTTTTCCCCCTTTTCTTCCG 60.056 47.826 0.00 0.00 0.00 4.30
2294 2492 5.007682 CCTTTTCTTCCGGGAAGACAATTA 58.992 41.667 33.48 19.15 46.54 1.40
2295 2493 5.123979 CCTTTTCTTCCGGGAAGACAATTAG 59.876 44.000 33.48 22.04 46.54 1.73
2299 2549 1.835531 TCCGGGAAGACAATTAGGACC 59.164 52.381 0.00 0.00 0.00 4.46
2306 2556 2.955614 AGACAATTAGGACCGAACACG 58.044 47.619 0.00 0.00 0.00 4.49
2312 2562 2.945447 TAGGACCGAACACGTTATGG 57.055 50.000 0.00 0.40 0.00 2.74
2328 2578 4.096231 CGTTATGGCATCCAATTTCTGTCA 59.904 41.667 1.65 0.00 36.95 3.58
2548 2799 6.136541 AGTCTCAAATCTTGTTTGTTGGAC 57.863 37.500 1.05 7.66 0.00 4.02
2556 2807 5.576447 TCTTGTTTGTTGGACTTCCTTTC 57.424 39.130 0.00 0.00 36.82 2.62
2703 2954 5.454966 AGTTTCCCCTGAAAAATGTACTGT 58.545 37.500 0.00 0.00 41.92 3.55
2710 2961 4.278170 CCTGAAAAATGTACTGTGCCTGAA 59.722 41.667 0.00 0.00 0.00 3.02
2753 3004 2.306847 ACACCGAGCCTTCAACAAATT 58.693 42.857 0.00 0.00 0.00 1.82
2757 3008 5.354234 ACACCGAGCCTTCAACAAATTATAG 59.646 40.000 0.00 0.00 0.00 1.31
2766 3017 7.362920 GCCTTCAACAAATTATAGTGGTGATGT 60.363 37.037 0.00 0.00 40.99 3.06
2774 3025 9.119418 CAAATTATAGTGGTGATGTTCATGGTA 57.881 33.333 0.00 0.00 0.00 3.25
2798 3049 2.110578 TCCGAGAGATTGATCCAAGCA 58.889 47.619 0.00 0.00 31.66 3.91
2828 3079 5.101648 TCATGCATATGAAGAACCTGTCA 57.898 39.130 6.97 0.00 40.26 3.58
2905 3156 4.086457 GGTTTGTAGATTGGTGGTGGAAT 58.914 43.478 0.00 0.00 0.00 3.01
2974 3225 5.833131 AGGCTTCAAAACTCCATTTAGACAA 59.167 36.000 0.00 0.00 0.00 3.18
3010 3261 0.312416 GACCGACGCTAGCAGATGAT 59.688 55.000 16.45 0.00 0.00 2.45
3031 3282 0.107508 AGCTGACATACCTGCGCAAT 60.108 50.000 13.05 5.12 36.33 3.56
3049 3300 2.109425 ATCTTGCACGTCCTTTACCC 57.891 50.000 0.00 0.00 0.00 3.69
3061 3312 2.630580 TCCTTTACCCACACATTTTGCC 59.369 45.455 0.00 0.00 0.00 4.52
3081 3332 6.299805 TGCCCTAGGTGATTATGCTATTAG 57.700 41.667 8.29 0.00 0.00 1.73
3169 3441 4.772624 TCTGGCACTCTTACTGTCTTATGT 59.227 41.667 0.00 0.00 0.00 2.29
3179 3451 8.349568 TCTTACTGTCTTATGTGTACATCACT 57.650 34.615 0.00 0.00 46.27 3.41
3183 3455 8.988064 ACTGTCTTATGTGTACATCACTTTAG 57.012 34.615 0.00 0.00 46.27 1.85
3280 3552 9.706691 TCTTTTGTAGGTAGAAATACAAGACTG 57.293 33.333 0.00 0.00 41.50 3.51
3408 3680 4.566426 ATCTTAAGGCAAGTGCTCTTCT 57.434 40.909 1.85 0.00 41.70 2.85
3440 3712 8.498054 AATCTGTTTATGATACTTGTCCTGTG 57.502 34.615 0.00 0.00 0.00 3.66
3575 3848 8.539770 TGCTTTCTTACTTCTTTGTATCAGAG 57.460 34.615 0.00 0.00 0.00 3.35
3715 3988 4.994852 TCTTCCTCGTGGAGTTAAACAATG 59.005 41.667 6.29 0.00 44.24 2.82
3823 4096 2.571653 TCACTGGTTTACCATCTGAGGG 59.428 50.000 6.84 6.84 46.46 4.30
3955 4228 1.548269 CGAGAAGGAGCTGAAAGACCT 59.452 52.381 0.00 0.00 42.37 3.85
4102 4377 1.368731 CAACGAAGCGCTTGCGAAA 60.369 52.632 33.07 0.00 45.69 3.46
4272 4550 5.006649 TGTTTCATATGTGCTCTTATGCGTC 59.993 40.000 13.87 8.60 34.06 5.19
4661 7089 6.786967 AGGAATCCTCCAAAAATCATTCTG 57.213 37.500 0.00 0.00 45.24 3.02
4671 7101 9.933723 CTCCAAAAATCATTCTGTATTTTTCCT 57.066 29.630 0.00 0.00 41.17 3.36
4687 7117 3.611766 TTCCTCTCCAGATTTCCGTTC 57.388 47.619 0.00 0.00 0.00 3.95
4694 7124 1.885887 CCAGATTTCCGTTCTGCCAAA 59.114 47.619 0.00 0.00 39.42 3.28
4717 7155 7.727331 AATGCTGCTTTATATCTCACTTCTC 57.273 36.000 0.00 0.00 0.00 2.87
4838 7276 6.606796 TCTTAAATATGAAGCATCAAGGGCAA 59.393 34.615 0.00 0.00 39.49 4.52
4854 7292 6.543465 TCAAGGGCAACAATAGACTATCAATG 59.457 38.462 0.00 0.00 39.74 2.82
5143 7656 5.046591 TGAGCTACAGCCTGTAACAAATACT 60.047 40.000 5.98 0.00 43.38 2.12
5457 8010 6.014327 ACCACTGTGGAAGCATTGAAATAATT 60.014 34.615 32.30 1.23 40.96 1.40
5481 8034 2.957006 AGTACACTCGGTTGGCCTATAG 59.043 50.000 3.32 0.00 0.00 1.31
5536 8090 7.561237 AATGCAAATATTCAAACACGTGTAC 57.439 32.000 23.69 0.84 0.00 2.90
5556 8113 6.037830 GTGTACCAAGTCTTAAGCACTGAAAA 59.962 38.462 0.00 0.00 0.00 2.29
5606 8165 7.787904 TGGCCATCTAATAGTAGAACCTAAAGA 59.212 37.037 0.00 0.00 39.81 2.52
5607 8166 8.308207 GGCCATCTAATAGTAGAACCTAAAGAG 58.692 40.741 3.69 0.00 39.81 2.85
5641 8209 4.991153 AGTTGATAGTCTCATCAAGCGA 57.009 40.909 0.00 0.00 43.69 4.93
5642 8210 4.677584 AGTTGATAGTCTCATCAAGCGAC 58.322 43.478 0.00 0.00 43.69 5.19
5643 8211 4.158579 AGTTGATAGTCTCATCAAGCGACA 59.841 41.667 0.00 0.00 43.69 4.35
5644 8212 4.033990 TGATAGTCTCATCAAGCGACAC 57.966 45.455 0.00 0.00 34.40 3.67
5645 8213 3.443681 TGATAGTCTCATCAAGCGACACA 59.556 43.478 0.00 0.00 34.40 3.72
5646 8214 4.098501 TGATAGTCTCATCAAGCGACACAT 59.901 41.667 0.00 0.00 34.40 3.21
5647 8215 2.614779 AGTCTCATCAAGCGACACATG 58.385 47.619 0.00 0.00 34.40 3.21
5648 8216 2.232208 AGTCTCATCAAGCGACACATGA 59.768 45.455 0.00 0.00 34.40 3.07
5649 8217 2.346847 GTCTCATCAAGCGACACATGAC 59.653 50.000 0.00 0.00 32.24 3.06
5727 8295 8.895845 CGTACGTACATACATATTTTCAGGTAC 58.104 37.037 24.50 0.00 0.00 3.34
5744 8312 3.132925 GGTACGTTGTTGCCTGAAAGTA 58.867 45.455 0.00 0.00 0.00 2.24
5776 8344 7.811653 TCTACTGTGAAGTCATCATATCGATC 58.188 38.462 0.00 0.00 40.97 3.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
69 70 0.031917 TCCATTCCGCCACTAGGGTA 60.032 55.000 0.00 0.00 39.65 3.69
77 88 4.794648 CGCCCTTCCATTCCGCCA 62.795 66.667 0.00 0.00 0.00 5.69
196 209 7.264947 ACTACCAGTCCAACAAAAGAAAAATG 58.735 34.615 0.00 0.00 0.00 2.32
238 251 5.494632 TTCTCCTTTTCGTCCACTTTTTC 57.505 39.130 0.00 0.00 0.00 2.29
277 290 9.788960 GTTGGAATAAAACTCAATTAGATGGTC 57.211 33.333 0.00 0.00 0.00 4.02
347 366 0.541863 CCTTAGTCGGTTCCATGGCT 59.458 55.000 6.96 0.00 0.00 4.75
409 432 2.258591 GCGAGTGACGAAGAGGCA 59.741 61.111 0.00 0.00 45.77 4.75
479 502 3.408634 AGTGTCCCGACAAATAAAGTGG 58.591 45.455 0.00 0.00 43.77 4.00
507 531 6.154363 GGAGTTCTGGATCCTAGATCTAATGG 59.846 46.154 14.23 2.82 32.51 3.16
539 563 2.034066 ATGGTGGTCAACGCTGGG 59.966 61.111 0.00 0.00 0.00 4.45
558 582 1.999648 TCAGCTTGCCTTTTGGTGAT 58.000 45.000 0.00 0.00 42.99 3.06
561 585 1.043022 CCTTCAGCTTGCCTTTTGGT 58.957 50.000 0.00 0.00 42.99 3.67
567 591 1.682257 GTCTCCCTTCAGCTTGCCT 59.318 57.895 0.00 0.00 0.00 4.75
571 595 1.558756 CATCAGGTCTCCCTTCAGCTT 59.441 52.381 0.00 0.00 39.89 3.74
575 599 0.621571 CCCCATCAGGTCTCCCTTCA 60.622 60.000 0.00 0.00 39.89 3.02
600 624 4.141597 CCCTCTCTTAAGAATTCCACCTCC 60.142 50.000 6.63 0.00 0.00 4.30
663 728 2.293955 GGTTGCTAAAAAGCACCGGTAA 59.706 45.455 6.87 0.00 45.32 2.85
668 733 1.686587 ACAGGGTTGCTAAAAAGCACC 59.313 47.619 0.00 5.22 45.32 5.01
738 803 9.651718 CACAACAGTTAAGAGTTCATTTCTTAC 57.348 33.333 0.00 0.00 36.99 2.34
739 804 8.836413 CCACAACAGTTAAGAGTTCATTTCTTA 58.164 33.333 0.00 0.00 36.38 2.10
740 805 7.339466 ACCACAACAGTTAAGAGTTCATTTCTT 59.661 33.333 0.00 0.00 38.40 2.52
742 807 7.027778 ACCACAACAGTTAAGAGTTCATTTC 57.972 36.000 0.00 0.00 0.00 2.17
756 848 7.719633 AGTTTATGAAATGACTACCACAACAGT 59.280 33.333 0.00 0.00 0.00 3.55
917 1021 7.765622 AGTGGGCCCTACAATTAACAATATAT 58.234 34.615 25.70 0.00 0.00 0.86
918 1022 7.156694 AGTGGGCCCTACAATTAACAATATA 57.843 36.000 25.70 0.00 0.00 0.86
933 1037 0.044855 AGTGAGGATAAGTGGGCCCT 59.955 55.000 25.70 5.02 0.00 5.19
974 1083 1.617755 CGAGCTCGCGTTTGTGATGT 61.618 55.000 25.07 0.00 33.35 3.06
975 1084 1.057822 CGAGCTCGCGTTTGTGATG 59.942 57.895 25.07 0.00 33.35 3.07
976 1085 2.094659 CCGAGCTCGCGTTTGTGAT 61.095 57.895 30.49 0.00 38.18 3.06
977 1086 2.733218 CCGAGCTCGCGTTTGTGA 60.733 61.111 30.49 0.00 38.18 3.58
978 1087 4.430423 GCCGAGCTCGCGTTTGTG 62.430 66.667 30.49 15.69 38.18 3.33
979 1088 4.961511 TGCCGAGCTCGCGTTTGT 62.962 61.111 30.49 0.00 38.18 2.83
980 1089 4.139420 CTGCCGAGCTCGCGTTTG 62.139 66.667 30.49 17.17 38.18 2.93
1101 1228 4.432741 GGGGCCTCTGAAGGGTGC 62.433 72.222 0.84 0.00 43.58 5.01
1108 1235 1.229209 AACTCGAAGGGGCCTCTGA 60.229 57.895 5.46 0.00 0.00 3.27
1291 1418 2.671963 GTGGAACAAGGGGACGGC 60.672 66.667 0.00 0.00 44.16 5.68
1350 1477 4.332543 ACCGGCCTCCCCTTCTCA 62.333 66.667 0.00 0.00 0.00 3.27
1745 1872 8.581253 AAACTGCTACTTAGAATATTTTGGCT 57.419 30.769 0.00 0.00 0.00 4.75
1757 1884 7.591165 TGTGTACTACTGAAACTGCTACTTAG 58.409 38.462 0.00 0.00 0.00 2.18
1760 1887 6.208797 TGATGTGTACTACTGAAACTGCTACT 59.791 38.462 0.00 0.00 0.00 2.57
1761 1888 6.387465 TGATGTGTACTACTGAAACTGCTAC 58.613 40.000 0.00 0.00 0.00 3.58
1762 1889 6.208797 ACTGATGTGTACTACTGAAACTGCTA 59.791 38.462 0.00 0.00 0.00 3.49
1763 1890 5.011125 ACTGATGTGTACTACTGAAACTGCT 59.989 40.000 0.00 0.00 0.00 4.24
1777 1904 3.641436 AGGTGTTCAGTGACTGATGTGTA 59.359 43.478 16.98 0.00 40.39 2.90
1783 1910 1.140852 CCCAAGGTGTTCAGTGACTGA 59.859 52.381 11.93 11.93 38.87 3.41
1795 1922 1.001406 GAGTGACTCTGACCCAAGGTG 59.999 57.143 5.12 0.00 35.25 4.00
1818 1945 2.357760 TAACCGAGCCGCAACCAC 60.358 61.111 0.00 0.00 0.00 4.16
1819 1946 2.357760 GTAACCGAGCCGCAACCA 60.358 61.111 0.00 0.00 0.00 3.67
1820 1947 3.122971 GGTAACCGAGCCGCAACC 61.123 66.667 0.00 0.00 0.00 3.77
1821 1948 2.047560 AGGTAACCGAGCCGCAAC 60.048 61.111 0.00 0.00 37.17 4.17
1822 1949 2.263540 GAGGTAACCGAGCCGCAA 59.736 61.111 0.00 0.00 37.17 4.85
1823 1950 4.124351 CGAGGTAACCGAGCCGCA 62.124 66.667 0.00 0.00 32.87 5.69
1824 1951 3.818787 TCGAGGTAACCGAGCCGC 61.819 66.667 0.00 0.00 34.95 6.53
1825 1952 2.101770 GTCGAGGTAACCGAGCCG 59.898 66.667 0.00 0.00 39.39 5.52
1826 1953 2.493501 GGTCGAGGTAACCGAGCC 59.506 66.667 8.96 3.26 45.61 4.70
1828 1955 0.679002 TGGAGGTCGAGGTAACCGAG 60.679 60.000 0.00 0.00 41.89 4.63
1829 1956 0.033796 ATGGAGGTCGAGGTAACCGA 60.034 55.000 0.00 0.00 41.89 4.69
1830 1957 0.822164 AATGGAGGTCGAGGTAACCG 59.178 55.000 0.00 0.00 41.89 4.44
1831 1958 3.345508 AAAATGGAGGTCGAGGTAACC 57.654 47.619 0.00 0.00 37.03 2.85
1832 1959 4.633126 GGTTAAAATGGAGGTCGAGGTAAC 59.367 45.833 0.00 0.00 0.00 2.50
1833 1960 4.286549 TGGTTAAAATGGAGGTCGAGGTAA 59.713 41.667 0.00 0.00 0.00 2.85
1834 1961 3.839490 TGGTTAAAATGGAGGTCGAGGTA 59.161 43.478 0.00 0.00 0.00 3.08
1835 1962 2.640826 TGGTTAAAATGGAGGTCGAGGT 59.359 45.455 0.00 0.00 0.00 3.85
1836 1963 3.343941 TGGTTAAAATGGAGGTCGAGG 57.656 47.619 0.00 0.00 0.00 4.63
1837 1964 4.069304 TGTTGGTTAAAATGGAGGTCGAG 58.931 43.478 0.00 0.00 0.00 4.04
1838 1965 4.088056 TGTTGGTTAAAATGGAGGTCGA 57.912 40.909 0.00 0.00 0.00 4.20
1839 1966 5.385509 AATGTTGGTTAAAATGGAGGTCG 57.614 39.130 0.00 0.00 0.00 4.79
1842 1969 6.758254 ACAGAAATGTTGGTTAAAATGGAGG 58.242 36.000 0.00 0.00 0.00 4.30
1872 1999 6.093219 GCACTCACATCAATCAAACTCACTAT 59.907 38.462 0.00 0.00 0.00 2.12
1899 2026 5.501897 GCATCAAATTGCTGCTAATGAAAGC 60.502 40.000 13.78 7.90 36.64 3.51
1900 2027 5.579119 TGCATCAAATTGCTGCTAATGAAAG 59.421 36.000 20.29 2.40 39.94 2.62
1901 2028 5.480205 TGCATCAAATTGCTGCTAATGAAA 58.520 33.333 20.29 0.00 39.94 2.69
1902 2029 5.074584 TGCATCAAATTGCTGCTAATGAA 57.925 34.783 20.29 0.00 39.94 2.57
1938 2065 3.016031 ACATTCGCCAAATATGTGCTGA 58.984 40.909 0.00 0.00 31.66 4.26
1940 2067 3.016031 TCACATTCGCCAAATATGTGCT 58.984 40.909 9.04 0.00 45.41 4.40
1949 2076 3.689161 CCACTAGAATTCACATTCGCCAA 59.311 43.478 8.44 0.00 43.38 4.52
1985 2112 3.181466 ACAGAGCCATCATGTATACGCAA 60.181 43.478 0.00 0.00 0.00 4.85
1990 2117 3.966665 TCCACACAGAGCCATCATGTATA 59.033 43.478 0.00 0.00 0.00 1.47
1991 2118 2.773661 TCCACACAGAGCCATCATGTAT 59.226 45.455 0.00 0.00 0.00 2.29
1992 2119 2.187100 TCCACACAGAGCCATCATGTA 58.813 47.619 0.00 0.00 0.00 2.29
1994 2121 1.947456 CATCCACACAGAGCCATCATG 59.053 52.381 0.00 0.00 0.00 3.07
1995 2122 1.749635 GCATCCACACAGAGCCATCAT 60.750 52.381 0.00 0.00 0.00 2.45
1996 2123 0.393402 GCATCCACACAGAGCCATCA 60.393 55.000 0.00 0.00 0.00 3.07
2001 2128 0.450583 CACATGCATCCACACAGAGC 59.549 55.000 0.00 0.00 0.00 4.09
2002 2129 1.092348 CCACATGCATCCACACAGAG 58.908 55.000 0.00 0.00 0.00 3.35
2003 2130 0.322726 CCCACATGCATCCACACAGA 60.323 55.000 0.00 0.00 0.00 3.41
2004 2131 0.609957 ACCCACATGCATCCACACAG 60.610 55.000 0.00 0.00 0.00 3.66
2005 2132 0.894642 CACCCACATGCATCCACACA 60.895 55.000 0.00 0.00 0.00 3.72
2006 2133 0.895100 ACACCCACATGCATCCACAC 60.895 55.000 0.00 0.00 0.00 3.82
2031 2182 6.142818 ACAATAGACTGTCTAGCTAGCTTG 57.857 41.667 24.88 21.44 31.67 4.01
2032 2183 6.385649 GACAATAGACTGTCTAGCTAGCTT 57.614 41.667 24.88 2.63 42.11 3.74
2143 2304 5.871396 ATCGGCTAGAATTGAAGTCCTAA 57.129 39.130 0.00 0.00 0.00 2.69
2154 2315 3.143211 ACGACCTCTATCGGCTAGAAT 57.857 47.619 0.00 0.00 46.56 2.40
2163 2325 7.450124 TCCTACAAATCATACGACCTCTATC 57.550 40.000 0.00 0.00 0.00 2.08
2172 2334 9.712305 AGGAAATCTTATCCTACAAATCATACG 57.288 33.333 0.00 0.00 45.51 3.06
2250 2417 4.544152 AGGGGGAAAAATCCTGTAGATTCA 59.456 41.667 0.00 0.00 44.75 2.57
2251 2418 5.130705 AGGGGGAAAAATCCTGTAGATTC 57.869 43.478 0.00 0.00 44.75 2.52
2254 2421 5.075900 AGAAAAGGGGGAAAAATCCTGTAGA 59.924 40.000 0.00 0.00 0.00 2.59
2259 2426 4.168101 GGAAGAAAAGGGGGAAAAATCCT 58.832 43.478 0.00 0.00 0.00 3.24
2263 2430 2.321719 CCGGAAGAAAAGGGGGAAAAA 58.678 47.619 0.00 0.00 0.00 1.94
2264 2431 1.481615 CCCGGAAGAAAAGGGGGAAAA 60.482 52.381 0.73 0.00 40.51 2.29
2268 2435 0.323451 CTTCCCGGAAGAAAAGGGGG 60.323 60.000 21.05 0.00 45.13 5.40
2269 2436 0.696501 TCTTCCCGGAAGAAAAGGGG 59.303 55.000 24.99 0.00 44.37 4.79
2276 2443 3.197116 GTCCTAATTGTCTTCCCGGAAGA 59.803 47.826 23.70 23.70 45.01 2.87
2277 2444 3.532542 GTCCTAATTGTCTTCCCGGAAG 58.467 50.000 19.80 19.80 40.65 3.46
2282 2480 3.268330 GTTCGGTCCTAATTGTCTTCCC 58.732 50.000 0.00 0.00 0.00 3.97
2294 2492 0.390735 GCCATAACGTGTTCGGTCCT 60.391 55.000 0.00 0.00 41.85 3.85
2295 2493 0.671163 TGCCATAACGTGTTCGGTCC 60.671 55.000 0.00 0.00 41.85 4.46
2299 2549 1.364721 TGGATGCCATAACGTGTTCG 58.635 50.000 0.00 0.00 43.34 3.95
2306 2556 5.581126 TGACAGAAATTGGATGCCATAAC 57.419 39.130 0.00 0.00 31.53 1.89
2312 2562 7.381408 CACATGAATATGACAGAAATTGGATGC 59.619 37.037 0.00 0.00 37.73 3.91
2391 2642 0.033601 AACTGGTTGCCCTCACACAA 60.034 50.000 0.00 0.00 0.00 3.33
2489 2740 9.023967 GCATGGTAATTGTGTCAAAATTATCTC 57.976 33.333 16.43 8.80 33.56 2.75
2490 2741 7.981225 GGCATGGTAATTGTGTCAAAATTATCT 59.019 33.333 16.43 3.73 33.56 1.98
2491 2742 7.981225 AGGCATGGTAATTGTGTCAAAATTATC 59.019 33.333 10.71 10.71 33.35 1.75
2492 2743 7.765360 CAGGCATGGTAATTGTGTCAAAATTAT 59.235 33.333 10.71 0.00 33.35 1.28
2493 2744 7.039434 TCAGGCATGGTAATTGTGTCAAAATTA 60.039 33.333 4.33 4.33 0.00 1.40
2494 2745 5.933463 CAGGCATGGTAATTGTGTCAAAATT 59.067 36.000 6.24 6.24 0.00 1.82
2495 2746 5.245751 TCAGGCATGGTAATTGTGTCAAAAT 59.754 36.000 0.00 0.00 0.00 1.82
2498 2749 3.758023 CTCAGGCATGGTAATTGTGTCAA 59.242 43.478 0.00 0.00 0.00 3.18
2500 2751 3.347216 ACTCAGGCATGGTAATTGTGTC 58.653 45.455 0.00 0.00 0.00 3.67
2535 2786 5.582689 AGAAAGGAAGTCCAACAAACAAG 57.417 39.130 0.00 0.00 38.89 3.16
2634 2885 5.704888 TGTGACGATGTTTTGTGTTTTCTT 58.295 33.333 0.00 0.00 0.00 2.52
2684 2935 3.153919 GCACAGTACATTTTTCAGGGGA 58.846 45.455 0.00 0.00 0.00 4.81
2703 2954 0.189574 TTTCCATTGGGGTTCAGGCA 59.810 50.000 2.09 0.00 38.11 4.75
2710 2961 1.960689 CTTTCGTGTTTCCATTGGGGT 59.039 47.619 2.09 0.00 38.11 4.95
2753 3004 9.337396 GAAAATACCATGAACATCACCACTATA 57.663 33.333 0.00 0.00 0.00 1.31
2757 3008 5.650543 GGAAAATACCATGAACATCACCAC 58.349 41.667 0.00 0.00 0.00 4.16
2766 3017 6.649155 TCAATCTCTCGGAAAATACCATGAA 58.351 36.000 0.00 0.00 0.00 2.57
2774 3025 4.578105 GCTTGGATCAATCTCTCGGAAAAT 59.422 41.667 0.00 0.00 0.00 1.82
2798 3049 6.270815 GTTCTTCATATGCATGAACAGCAAT 58.729 36.000 17.43 0.00 44.44 3.56
2809 3060 4.701651 CCTTTGACAGGTTCTTCATATGCA 59.298 41.667 0.00 0.00 37.99 3.96
2905 3156 0.747644 CATCCACAGGCAATGGCGTA 60.748 55.000 0.00 0.00 42.47 4.42
2974 3225 1.229625 TCTCACACCAGGAGGGCAT 60.230 57.895 0.00 0.00 42.05 4.40
3010 3261 1.153568 GCGCAGGTATGTCAGCTCA 60.154 57.895 0.30 0.00 30.72 4.26
3031 3282 0.759959 TGGGTAAAGGACGTGCAAGA 59.240 50.000 10.52 0.00 0.00 3.02
3046 3297 1.549950 CCTAGGGCAAAATGTGTGGGT 60.550 52.381 0.00 0.00 0.00 4.51
3049 3300 2.513753 TCACCTAGGGCAAAATGTGTG 58.486 47.619 14.81 0.00 0.00 3.82
3061 3312 7.044798 GGAAGCTAATAGCATAATCACCTAGG 58.955 42.308 15.28 7.41 45.56 3.02
3081 3332 1.678101 ACAAGTGCAAAGTCTGGAAGC 59.322 47.619 0.00 0.00 0.00 3.86
3169 3441 8.590204 TCTTGTGGAATACTAAAGTGATGTACA 58.410 33.333 0.00 0.00 0.00 2.90
3245 3517 7.916914 TTCTACCTACAAAAGATTAGTTGGC 57.083 36.000 0.00 0.00 32.50 4.52
3259 3531 6.599356 TGCAGTCTTGTATTTCTACCTACA 57.401 37.500 0.00 0.00 0.00 2.74
3280 3552 2.356673 GCAGCTGCCAAACCTTGC 60.357 61.111 28.76 0.00 34.31 4.01
3440 3712 8.986477 AATGCACCAACTATTATGAACTTTTC 57.014 30.769 0.00 0.00 0.00 2.29
3575 3848 9.395707 CATATAGACGAAGGTACAACAACTATC 57.604 37.037 0.00 0.00 0.00 2.08
3823 4096 2.218603 TGAAAGTTCCCGCAGAAGTTC 58.781 47.619 6.94 0.00 45.55 3.01
4102 4377 5.073144 TGAAGGGTTCCAAGAACTATGAAGT 59.927 40.000 7.36 0.00 37.65 3.01
4272 4550 2.301346 ACCTTTCTTGGTCACTTGCAG 58.699 47.619 0.00 0.00 34.86 4.41
4661 7089 5.880887 ACGGAAATCTGGAGAGGAAAAATAC 59.119 40.000 0.00 0.00 0.00 1.89
4668 7098 2.497675 CAGAACGGAAATCTGGAGAGGA 59.502 50.000 0.00 0.00 40.48 3.71
4671 7101 1.066143 GGCAGAACGGAAATCTGGAGA 60.066 52.381 5.76 0.00 43.60 3.71
4694 7124 7.065120 AGAGAAGTGAGATATAAAGCAGCAT 57.935 36.000 0.00 0.00 0.00 3.79
4717 7155 8.975410 TTTCATTGACTGCAAATAAGATGAAG 57.025 30.769 0.00 0.00 37.59 3.02
4854 7292 9.977762 GAAGTGAATGGAATTTAATTTCATTGC 57.022 29.630 24.08 17.06 45.95 3.56
5036 7498 1.795768 TTCATCCAACGCACTGAGAC 58.204 50.000 0.00 0.00 0.00 3.36
5119 7632 3.762407 TTTGTTACAGGCTGTAGCTCA 57.238 42.857 32.22 24.87 41.70 4.26
5160 7673 1.337260 GGCCGTAGCTCCTGTATCATG 60.337 57.143 0.00 0.00 39.73 3.07
5205 7752 7.057894 GGCTGTAGCTCCTGTATCTAGTATAT 58.942 42.308 3.63 0.00 41.70 0.86
5345 7893 8.288812 TGGATATTCCATTGGATACTTTTCCTT 58.711 33.333 6.15 0.00 42.67 3.36
5457 8010 1.180029 GGCCAACCGAGTGTACTAGA 58.820 55.000 0.00 0.00 0.00 2.43
5481 8034 4.483476 AAAATGCCTACGTTGAAGTCAC 57.517 40.909 0.00 0.00 0.00 3.67
5606 8165 2.566833 TCAACTAGGTTGCATGTGCT 57.433 45.000 6.55 0.00 42.55 4.40
5607 8166 3.941483 ACTATCAACTAGGTTGCATGTGC 59.059 43.478 5.63 0.00 42.55 4.57
5641 8209 0.037160 TGAGCTGGCATGTCATGTGT 59.963 50.000 14.26 0.00 0.00 3.72
5642 8210 1.170442 TTGAGCTGGCATGTCATGTG 58.830 50.000 14.26 6.49 0.00 3.21
5643 8211 1.913778 TTTGAGCTGGCATGTCATGT 58.086 45.000 14.26 0.00 0.00 3.21
5644 8212 4.848562 ATATTTGAGCTGGCATGTCATG 57.151 40.909 0.00 8.56 0.00 3.07
5645 8213 6.008331 ACATATATTTGAGCTGGCATGTCAT 58.992 36.000 0.00 0.00 0.00 3.06
5646 8214 5.379187 ACATATATTTGAGCTGGCATGTCA 58.621 37.500 0.00 0.00 0.00 3.58
5647 8215 5.954296 ACATATATTTGAGCTGGCATGTC 57.046 39.130 0.00 0.00 0.00 3.06
5648 8216 5.242393 GGAACATATATTTGAGCTGGCATGT 59.758 40.000 0.00 0.00 0.00 3.21
5649 8217 5.242171 TGGAACATATATTTGAGCTGGCATG 59.758 40.000 0.00 0.00 0.00 4.06
5727 8295 6.903883 ATATAGTACTTTCAGGCAACAACG 57.096 37.500 0.00 0.00 41.41 4.10
5770 8338 6.012508 ACCATCTATTTGGGTATTGGATCGAT 60.013 38.462 0.00 0.00 41.35 3.59
5776 8344 6.517194 GCATGAACCATCTATTTGGGTATTGG 60.517 42.308 0.00 0.00 36.61 3.16


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

AutoCloner maintained by Alex Coulton.