Multiple sequence alignment - TraesCS3A01G186500

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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 TraesCS3A01G186500 chr3A 100.000 2753 0 0 1 2753 221279929 221277177 0.000000e+00 5084.0
1 TraesCS3A01G186500 chr3B 92.996 2056 90 30 129 2141 257103984 257101940 0.000000e+00 2950.0
2 TraesCS3A01G186500 chr3B 87.059 340 22 4 2374 2713 257101704 257101387 5.600000e-97 364.0
3 TraesCS3A01G186500 chr3B 83.594 128 21 0 1 128 316571254 316571127 1.340000e-23 121.0
4 TraesCS3A01G186500 chr3B 86.301 73 2 3 2173 2245 257101944 257101880 3.800000e-09 73.1
5 TraesCS3A01G186500 chr3B 97.619 42 0 1 2713 2753 257101219 257101178 1.370000e-08 71.3
6 TraesCS3A01G186500 chr3B 100.000 31 0 0 2289 2319 257101821 257101791 1.060000e-04 58.4
7 TraesCS3A01G186500 chr3D 91.760 2148 99 48 123 2245 178659390 178657296 0.000000e+00 2915.0
8 TraesCS3A01G186500 chr3D 95.702 349 15 0 2365 2713 178657090 178656742 1.850000e-156 562.0
9 TraesCS3A01G186500 chr3D 92.308 52 0 1 2268 2319 178657252 178657205 1.370000e-08 71.3
10 TraesCS3A01G186500 chr3D 97.297 37 1 0 2717 2753 178656572 178656536 2.290000e-06 63.9
11 TraesCS3A01G186500 chr6D 92.188 128 10 0 1 128 143974206 143974333 6.060000e-42 182.0
12 TraesCS3A01G186500 chr6B 92.188 128 10 0 1 128 256347629 256347756 6.060000e-42 182.0
13 TraesCS3A01G186500 chr6B 89.796 98 9 1 481 577 16271536 16271439 1.040000e-24 124.0
14 TraesCS3A01G186500 chr5B 87.000 100 12 1 481 579 556553886 556553985 8.060000e-21 111.0


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 TraesCS3A01G186500 chr3A 221277177 221279929 2752 True 5084.00 5084 100.00000 1 2753 1 chr3A.!!$R1 2752
1 TraesCS3A01G186500 chr3B 257101178 257103984 2806 True 703.36 2950 92.79500 129 2753 5 chr3B.!!$R2 2624
2 TraesCS3A01G186500 chr3D 178656536 178659390 2854 True 903.05 2915 94.26675 123 2753 4 chr3D.!!$R1 2630

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
50 51 0.03759 ATTTTGCGTAGGTCTGGCCA 59.962 50.0 4.71 4.71 40.61 5.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1851 1889 0.036858 TGGATCAATCGACGCCAACA 60.037 50.0 0.0 0.0 0.0 3.33 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
19 20 2.178912 TGAACCACCTTGATCGAACC 57.821 50.000 0.00 0.00 0.00 3.62
20 21 1.697432 TGAACCACCTTGATCGAACCT 59.303 47.619 0.00 0.00 0.00 3.50
21 22 2.105821 TGAACCACCTTGATCGAACCTT 59.894 45.455 0.00 0.00 0.00 3.50
22 23 2.185004 ACCACCTTGATCGAACCTTG 57.815 50.000 0.00 0.00 0.00 3.61
23 24 1.420138 ACCACCTTGATCGAACCTTGT 59.580 47.619 0.00 0.00 0.00 3.16
24 25 2.635915 ACCACCTTGATCGAACCTTGTA 59.364 45.455 0.00 0.00 0.00 2.41
25 26 3.071892 ACCACCTTGATCGAACCTTGTAA 59.928 43.478 0.00 0.00 0.00 2.41
26 27 3.435671 CCACCTTGATCGAACCTTGTAAC 59.564 47.826 0.00 0.00 0.00 2.50
27 28 3.435671 CACCTTGATCGAACCTTGTAACC 59.564 47.826 0.00 0.00 0.00 2.85
28 29 3.071892 ACCTTGATCGAACCTTGTAACCA 59.928 43.478 0.00 0.00 0.00 3.67
29 30 4.261801 CCTTGATCGAACCTTGTAACCAT 58.738 43.478 0.00 0.00 0.00 3.55
30 31 5.046159 ACCTTGATCGAACCTTGTAACCATA 60.046 40.000 0.00 0.00 0.00 2.74
31 32 5.878116 CCTTGATCGAACCTTGTAACCATAA 59.122 40.000 0.00 0.00 0.00 1.90
32 33 6.542370 CCTTGATCGAACCTTGTAACCATAAT 59.458 38.462 0.00 0.00 0.00 1.28
33 34 7.067008 CCTTGATCGAACCTTGTAACCATAATT 59.933 37.037 0.00 0.00 0.00 1.40
34 35 7.931578 TGATCGAACCTTGTAACCATAATTT 57.068 32.000 0.00 0.00 0.00 1.82
35 36 8.343168 TGATCGAACCTTGTAACCATAATTTT 57.657 30.769 0.00 0.00 0.00 1.82
36 37 8.240682 TGATCGAACCTTGTAACCATAATTTTG 58.759 33.333 0.00 0.00 0.00 2.44
37 38 6.383415 TCGAACCTTGTAACCATAATTTTGC 58.617 36.000 0.00 0.00 0.00 3.68
38 39 5.285134 CGAACCTTGTAACCATAATTTTGCG 59.715 40.000 0.00 0.00 0.00 4.85
39 40 5.715434 ACCTTGTAACCATAATTTTGCGT 57.285 34.783 0.00 0.00 0.00 5.24
40 41 6.821031 ACCTTGTAACCATAATTTTGCGTA 57.179 33.333 0.00 0.00 0.00 4.42
41 42 6.848451 ACCTTGTAACCATAATTTTGCGTAG 58.152 36.000 0.00 0.00 0.00 3.51
42 43 6.127842 ACCTTGTAACCATAATTTTGCGTAGG 60.128 38.462 0.00 0.00 0.00 3.18
43 44 6.127842 CCTTGTAACCATAATTTTGCGTAGGT 60.128 38.462 0.00 0.00 0.00 3.08
44 45 6.425577 TGTAACCATAATTTTGCGTAGGTC 57.574 37.500 0.00 0.00 0.00 3.85
45 46 6.174760 TGTAACCATAATTTTGCGTAGGTCT 58.825 36.000 0.00 0.00 0.00 3.85
46 47 5.560966 AACCATAATTTTGCGTAGGTCTG 57.439 39.130 0.00 0.00 0.00 3.51
47 48 3.945285 ACCATAATTTTGCGTAGGTCTGG 59.055 43.478 0.00 0.00 0.00 3.86
48 49 3.243068 CCATAATTTTGCGTAGGTCTGGC 60.243 47.826 0.00 0.00 0.00 4.85
49 50 1.173913 AATTTTGCGTAGGTCTGGCC 58.826 50.000 0.00 0.00 37.58 5.36
50 51 0.037590 ATTTTGCGTAGGTCTGGCCA 59.962 50.000 4.71 4.71 40.61 5.36
51 52 0.887387 TTTTGCGTAGGTCTGGCCAC 60.887 55.000 0.00 0.00 40.61 5.01
52 53 3.583276 TTGCGTAGGTCTGGCCACG 62.583 63.158 0.00 15.61 41.41 4.94
53 54 4.814294 GCGTAGGTCTGGCCACGG 62.814 72.222 19.46 0.00 40.00 4.94
54 55 4.143333 CGTAGGTCTGGCCACGGG 62.143 72.222 0.00 0.00 40.61 5.28
55 56 3.001406 GTAGGTCTGGCCACGGGT 61.001 66.667 0.00 0.00 40.61 5.28
56 57 3.000819 TAGGTCTGGCCACGGGTG 61.001 66.667 0.00 0.00 40.61 4.61
57 58 3.839046 TAGGTCTGGCCACGGGTGT 62.839 63.158 0.00 0.00 40.61 4.16
59 60 4.250305 GTCTGGCCACGGGTGTGT 62.250 66.667 0.00 0.00 44.92 3.72
60 61 3.484806 TCTGGCCACGGGTGTGTT 61.485 61.111 0.00 0.00 44.92 3.32
61 62 3.286751 CTGGCCACGGGTGTGTTG 61.287 66.667 0.00 0.00 44.92 3.33
64 65 3.660111 GCCACGGGTGTGTTGCTC 61.660 66.667 0.00 0.00 44.92 4.26
65 66 3.345808 CCACGGGTGTGTTGCTCG 61.346 66.667 0.00 0.00 44.92 5.03
66 67 2.279851 CACGGGTGTGTTGCTCGA 60.280 61.111 0.00 0.00 41.34 4.04
67 68 2.279918 ACGGGTGTGTTGCTCGAC 60.280 61.111 0.00 0.00 0.00 4.20
68 69 3.041940 CGGGTGTGTTGCTCGACC 61.042 66.667 0.00 0.00 0.00 4.79
69 70 2.110213 GGGTGTGTTGCTCGACCA 59.890 61.111 0.00 0.00 0.00 4.02
70 71 1.525077 GGGTGTGTTGCTCGACCAA 60.525 57.895 0.00 0.00 0.00 3.67
71 72 1.507141 GGGTGTGTTGCTCGACCAAG 61.507 60.000 0.00 0.00 0.00 3.61
72 73 1.279840 GTGTGTTGCTCGACCAAGC 59.720 57.895 0.00 0.00 42.82 4.01
73 74 2.243957 TGTGTTGCTCGACCAAGCG 61.244 57.895 0.00 0.00 45.54 4.68
74 75 3.345808 TGTTGCTCGACCAAGCGC 61.346 61.111 0.00 0.00 45.54 5.92
75 76 4.430423 GTTGCTCGACCAAGCGCG 62.430 66.667 0.00 0.00 45.54 6.86
76 77 4.961511 TTGCTCGACCAAGCGCGT 62.962 61.111 8.43 0.00 45.54 6.01
77 78 3.561217 TTGCTCGACCAAGCGCGTA 62.561 57.895 8.43 0.00 45.54 4.42
78 79 2.582498 GCTCGACCAAGCGCGTAT 60.582 61.111 8.43 0.00 31.56 3.06
79 80 1.298863 GCTCGACCAAGCGCGTATA 60.299 57.895 8.43 0.00 31.56 1.47
80 81 0.868602 GCTCGACCAAGCGCGTATAA 60.869 55.000 8.43 0.00 31.56 0.98
81 82 1.552226 CTCGACCAAGCGCGTATAAA 58.448 50.000 8.43 0.00 0.00 1.40
82 83 1.254570 CTCGACCAAGCGCGTATAAAC 59.745 52.381 8.43 0.00 0.00 2.01
83 84 1.135315 TCGACCAAGCGCGTATAAACT 60.135 47.619 8.43 0.00 0.00 2.66
84 85 1.254570 CGACCAAGCGCGTATAAACTC 59.745 52.381 8.43 0.00 0.00 3.01
85 86 2.537401 GACCAAGCGCGTATAAACTCT 58.463 47.619 8.43 0.00 0.00 3.24
86 87 2.928116 GACCAAGCGCGTATAAACTCTT 59.072 45.455 8.43 0.00 0.00 2.85
87 88 2.928116 ACCAAGCGCGTATAAACTCTTC 59.072 45.455 8.43 0.00 0.00 2.87
88 89 3.187700 CCAAGCGCGTATAAACTCTTCT 58.812 45.455 8.43 0.00 0.00 2.85
89 90 3.243177 CCAAGCGCGTATAAACTCTTCTC 59.757 47.826 8.43 0.00 0.00 2.87
90 91 4.106197 CAAGCGCGTATAAACTCTTCTCT 58.894 43.478 8.43 0.00 0.00 3.10
91 92 3.954999 AGCGCGTATAAACTCTTCTCTC 58.045 45.455 8.43 0.00 0.00 3.20
92 93 3.628487 AGCGCGTATAAACTCTTCTCTCT 59.372 43.478 8.43 0.00 0.00 3.10
93 94 4.815308 AGCGCGTATAAACTCTTCTCTCTA 59.185 41.667 8.43 0.00 0.00 2.43
94 95 5.470777 AGCGCGTATAAACTCTTCTCTCTAT 59.529 40.000 8.43 0.00 0.00 1.98
95 96 5.791480 GCGCGTATAAACTCTTCTCTCTATC 59.209 44.000 8.43 0.00 0.00 2.08
96 97 6.566187 GCGCGTATAAACTCTTCTCTCTATCA 60.566 42.308 8.43 0.00 0.00 2.15
97 98 7.353497 CGCGTATAAACTCTTCTCTCTATCAA 58.647 38.462 0.00 0.00 0.00 2.57
98 99 8.018520 CGCGTATAAACTCTTCTCTCTATCAAT 58.981 37.037 0.00 0.00 0.00 2.57
99 100 9.123709 GCGTATAAACTCTTCTCTCTATCAATG 57.876 37.037 0.00 0.00 0.00 2.82
118 119 7.412137 TCAATGAAATGATACACTCTATGCG 57.588 36.000 0.00 0.00 0.00 4.73
119 120 6.986231 TCAATGAAATGATACACTCTATGCGT 59.014 34.615 0.00 0.00 0.00 5.24
120 121 8.141268 TCAATGAAATGATACACTCTATGCGTA 58.859 33.333 0.00 0.00 0.00 4.42
121 122 8.929746 CAATGAAATGATACACTCTATGCGTAT 58.070 33.333 0.00 0.00 0.00 3.06
122 123 9.494271 AATGAAATGATACACTCTATGCGTATT 57.506 29.630 0.00 0.00 0.00 1.89
123 124 8.520835 TGAAATGATACACTCTATGCGTATTC 57.479 34.615 0.00 0.00 0.00 1.75
124 125 7.326063 TGAAATGATACACTCTATGCGTATTCG 59.674 37.037 0.00 0.00 40.37 3.34
125 126 5.934935 TGATACACTCTATGCGTATTCGA 57.065 39.130 0.00 0.00 39.71 3.71
126 127 5.928153 TGATACACTCTATGCGTATTCGAG 58.072 41.667 9.74 9.74 39.71 4.04
127 128 5.699458 TGATACACTCTATGCGTATTCGAGA 59.301 40.000 15.69 2.71 39.71 4.04
227 228 7.112122 TCTTAATGTCAGATTTAGCACCATGT 58.888 34.615 0.00 0.00 0.00 3.21
276 277 6.739331 AATTGATGGTCAAACTTTTACCCA 57.261 33.333 2.95 0.00 40.12 4.51
285 286 9.907229 TGGTCAAACTTTTACCCAAAAATAATT 57.093 25.926 2.95 0.00 36.49 1.40
318 319 3.611766 AACCTGGACGGAAAGAGTATG 57.388 47.619 0.00 0.00 36.31 2.39
329 330 5.066505 ACGGAAAGAGTATGATTGATTTGCC 59.933 40.000 0.00 0.00 0.00 4.52
538 543 2.657237 CCGAGCCGACCTGAGTTT 59.343 61.111 0.00 0.00 0.00 2.66
539 544 1.888018 CCGAGCCGACCTGAGTTTA 59.112 57.895 0.00 0.00 0.00 2.01
623 634 3.589288 AGAGGAGAGTAACAATTTGGCCT 59.411 43.478 3.32 0.00 0.00 5.19
625 636 4.336280 AGGAGAGTAACAATTTGGCCTTC 58.664 43.478 3.32 0.00 0.00 3.46
627 638 4.156739 GGAGAGTAACAATTTGGCCTTCAG 59.843 45.833 3.32 0.00 0.00 3.02
661 672 4.052518 AGGGTGCCCTGCATGGAC 62.053 66.667 12.80 5.84 46.22 4.02
668 679 2.815211 CCTGCATGGACGTGACCG 60.815 66.667 0.00 0.00 38.35 4.79
790 802 0.447406 CGATGAATTGCAACGGCTGA 59.553 50.000 0.00 0.00 38.89 4.26
881 893 3.054213 CGGTCCCTTCCCACCTTTAAATA 60.054 47.826 0.00 0.00 0.00 1.40
932 945 3.728373 CCCCTCCAAACCCTCCCG 61.728 72.222 0.00 0.00 0.00 5.14
949 962 2.450243 GACCTCTCCACCCTCCCA 59.550 66.667 0.00 0.00 0.00 4.37
950 963 1.990614 GACCTCTCCACCCTCCCAC 60.991 68.421 0.00 0.00 0.00 4.61
951 964 2.452114 CCTCTCCACCCTCCCACT 59.548 66.667 0.00 0.00 0.00 4.00
1362 1387 1.295423 CTTCCACCCCAACGTCGAT 59.705 57.895 0.00 0.00 0.00 3.59
1625 1657 2.422479 GGGCGAATCAAGAAGGTAAACC 59.578 50.000 0.00 0.00 0.00 3.27
1643 1675 2.577593 CCCCTCGTTCTCGGAACC 59.422 66.667 10.07 0.00 37.69 3.62
1760 1798 0.672711 AAGCCGGCGTAAAGAGGAAC 60.673 55.000 23.20 0.00 0.00 3.62
1778 1816 3.433740 GGAACAAGAAGGCGGGATCTATT 60.434 47.826 0.00 0.00 0.00 1.73
1782 1820 2.408565 AGAAGGCGGGATCTATTGGAA 58.591 47.619 0.00 0.00 0.00 3.53
1844 1882 5.013079 TGTTGGATAGATTCTGGAGTGTTGT 59.987 40.000 0.00 0.00 0.00 3.32
1848 1886 6.013379 TGGATAGATTCTGGAGTGTTGTTTCT 60.013 38.462 0.00 0.00 0.00 2.52
1849 1887 6.536941 GGATAGATTCTGGAGTGTTGTTTCTC 59.463 42.308 0.00 0.00 0.00 2.87
1850 1888 5.296151 AGATTCTGGAGTGTTGTTTCTCA 57.704 39.130 0.00 0.00 32.93 3.27
1851 1889 5.874093 AGATTCTGGAGTGTTGTTTCTCAT 58.126 37.500 0.00 0.00 32.93 2.90
1852 1890 5.704515 AGATTCTGGAGTGTTGTTTCTCATG 59.295 40.000 0.00 0.00 32.93 3.07
1857 1895 3.550842 GGAGTGTTGTTTCTCATGTTGGC 60.551 47.826 0.00 0.00 32.93 4.52
1858 1896 2.033299 AGTGTTGTTTCTCATGTTGGCG 59.967 45.455 0.00 0.00 0.00 5.69
1859 1897 2.020720 TGTTGTTTCTCATGTTGGCGT 58.979 42.857 0.00 0.00 0.00 5.68
1860 1898 2.032799 TGTTGTTTCTCATGTTGGCGTC 59.967 45.455 0.00 0.00 0.00 5.19
1862 1900 1.144969 GTTTCTCATGTTGGCGTCGA 58.855 50.000 0.00 0.00 0.00 4.20
1863 1901 1.732259 GTTTCTCATGTTGGCGTCGAT 59.268 47.619 0.00 0.00 0.00 3.59
1864 1902 2.093306 TTCTCATGTTGGCGTCGATT 57.907 45.000 0.00 0.00 0.00 3.34
1865 1903 1.358877 TCTCATGTTGGCGTCGATTG 58.641 50.000 0.00 0.00 0.00 2.67
1866 1904 1.067213 TCTCATGTTGGCGTCGATTGA 60.067 47.619 0.00 0.00 0.00 2.57
1867 1905 1.935873 CTCATGTTGGCGTCGATTGAT 59.064 47.619 0.00 0.00 0.00 2.57
1868 1906 1.933181 TCATGTTGGCGTCGATTGATC 59.067 47.619 0.00 0.00 0.00 2.92
1869 1907 1.003545 CATGTTGGCGTCGATTGATCC 60.004 52.381 0.00 0.00 0.00 3.36
1870 1908 0.036858 TGTTGGCGTCGATTGATCCA 60.037 50.000 0.00 3.49 0.00 3.41
1871 1909 1.083489 GTTGGCGTCGATTGATCCAA 58.917 50.000 12.93 12.93 37.30 3.53
1872 1910 1.083489 TTGGCGTCGATTGATCCAAC 58.917 50.000 12.93 0.00 35.80 3.77
1873 1911 0.036858 TGGCGTCGATTGATCCAACA 60.037 50.000 0.00 0.00 29.98 3.33
1962 2000 3.056536 TCGCTGAGATGGGCATATACTTC 60.057 47.826 0.00 0.00 0.00 3.01
2010 2054 6.681777 AGATTTTCAACTGTTGGATACTTGC 58.318 36.000 19.55 3.74 37.61 4.01
2033 2077 5.721510 GCGACATGTAACTGATTCGAGTTTC 60.722 44.000 0.00 0.00 37.38 2.78
2083 2132 0.387565 AACGTGGTTGGTTTCATGCC 59.612 50.000 0.00 0.00 0.00 4.40
2146 2195 8.013236 ACAACAAAACATGTAAAAACAGTCAC 57.987 30.769 0.00 0.00 42.99 3.67
2151 2200 5.499139 ACATGTAAAAACAGTCACAGTGG 57.501 39.130 0.00 0.00 0.00 4.00
2153 2202 5.417580 ACATGTAAAAACAGTCACAGTGGTT 59.582 36.000 0.00 0.00 27.63 3.67
2154 2203 6.600032 ACATGTAAAAACAGTCACAGTGGTTA 59.400 34.615 0.00 0.00 26.38 2.85
2166 2216 2.289257 ACAGTGGTTAAGTTAGGCCGTC 60.289 50.000 0.00 0.00 0.00 4.79
2202 2253 6.707161 TCTCTGCAAATTTAAGCAAAGCATTT 59.293 30.769 4.91 0.00 40.73 2.32
2245 2296 7.343574 ACCAAGGTATAAAAAGTGGAGTTTGTT 59.656 33.333 0.00 0.00 0.00 2.83
2247 2298 9.893305 CAAGGTATAAAAAGTGGAGTTTGTTAG 57.107 33.333 0.00 0.00 0.00 2.34
2249 2300 8.222637 AGGTATAAAAAGTGGAGTTTGTTAGGT 58.777 33.333 0.00 0.00 0.00 3.08
2250 2301 8.853126 GGTATAAAAAGTGGAGTTTGTTAGGTT 58.147 33.333 0.00 0.00 0.00 3.50
2252 2303 4.649088 AAAGTGGAGTTTGTTAGGTTGC 57.351 40.909 0.00 0.00 0.00 4.17
2255 2306 2.812011 GTGGAGTTTGTTAGGTTGCGAT 59.188 45.455 0.00 0.00 0.00 4.58
2257 2308 4.092968 GTGGAGTTTGTTAGGTTGCGATAG 59.907 45.833 0.00 0.00 0.00 2.08
2258 2309 3.621715 GGAGTTTGTTAGGTTGCGATAGG 59.378 47.826 0.00 0.00 0.00 2.57
2259 2310 3.007635 AGTTTGTTAGGTTGCGATAGGC 58.992 45.455 0.00 0.00 43.96 3.93
2260 2311 2.032680 TTGTTAGGTTGCGATAGGCC 57.967 50.000 0.00 0.00 42.61 5.19
2261 2312 1.200519 TGTTAGGTTGCGATAGGCCT 58.799 50.000 11.78 11.78 42.61 5.19
2262 2313 1.134521 TGTTAGGTTGCGATAGGCCTG 60.135 52.381 17.99 0.00 42.61 4.85
2263 2314 0.179056 TTAGGTTGCGATAGGCCTGC 60.179 55.000 17.99 11.60 42.61 4.85
2264 2315 2.040009 TAGGTTGCGATAGGCCTGCC 62.040 60.000 17.99 5.76 42.61 4.85
2282 2354 6.224584 GCCTGCCTAGGTATAAAAAGTAGAG 58.775 44.000 11.31 0.00 46.41 2.43
2283 2355 6.741801 GCCTGCCTAGGTATAAAAAGTAGAGG 60.742 46.154 11.31 0.00 46.41 3.69
2284 2356 6.326843 CCTGCCTAGGTATAAAAAGTAGAGGT 59.673 42.308 11.31 0.00 39.39 3.85
2285 2357 7.147532 CCTGCCTAGGTATAAAAAGTAGAGGTT 60.148 40.741 11.31 0.00 39.39 3.50
2319 2391 2.094675 CTATTCAAACCAGGGGTGCAG 58.905 52.381 0.00 0.00 35.34 4.41
2320 2392 1.187567 ATTCAAACCAGGGGTGCAGC 61.188 55.000 7.55 7.55 35.34 5.25
2321 2393 2.521465 CAAACCAGGGGTGCAGCA 60.521 61.111 19.06 0.00 35.34 4.41
2322 2394 2.132996 CAAACCAGGGGTGCAGCAA 61.133 57.895 19.06 0.00 35.34 3.91
2323 2395 1.152269 AAACCAGGGGTGCAGCAAT 60.152 52.632 19.06 1.80 35.34 3.56
2333 2428 1.664016 GGTGCAGCAATTGACACGAAG 60.664 52.381 11.86 0.00 35.80 3.79
2337 2432 0.512952 AGCAATTGACACGAAGCGAC 59.487 50.000 10.34 0.00 0.00 5.19
2419 2560 3.118075 TCCATATCCGCTGAAATTCACCA 60.118 43.478 0.00 0.00 0.00 4.17
2446 2587 6.338146 CACATTCTCATGCAATTTGATTCCT 58.662 36.000 0.00 0.00 33.05 3.36
2459 2600 3.438131 TGATTCCTTCCTCCAGGGTAT 57.562 47.619 0.00 0.00 34.24 2.73
2470 2611 2.237392 CTCCAGGGTATAATGCTAGGCC 59.763 54.545 0.00 0.00 0.00 5.19
2503 2644 1.523711 CAGTGGTGGTCAGCAACGT 60.524 57.895 4.33 0.00 40.82 3.99
2541 2682 1.000955 ACTGAACCGAGAGACGCAAAT 59.999 47.619 0.00 0.00 41.07 2.32
2547 2688 2.194271 CCGAGAGACGCAAATAGGAAC 58.806 52.381 0.00 0.00 41.07 3.62
2576 2717 2.865343 AGCGGTAGTTCGGTCATAAG 57.135 50.000 0.00 0.00 35.95 1.73
2628 2769 1.950630 GCAGGCAAAAGTTGTGGCG 60.951 57.895 13.53 9.85 45.70 5.69
2635 2776 3.059166 GCAAAAGTTGTGGCGAATGATT 58.941 40.909 0.00 0.00 0.00 2.57
2686 2827 0.385390 CAAGCGCTTGGAAACTTGGT 59.615 50.000 36.86 2.78 36.67 3.67
2713 2854 1.753073 CATCCAATCTCCCCAGCAAAC 59.247 52.381 0.00 0.00 0.00 2.93
2714 2855 1.075601 TCCAATCTCCCCAGCAAACT 58.924 50.000 0.00 0.00 0.00 2.66
2715 2856 1.004745 TCCAATCTCCCCAGCAAACTC 59.995 52.381 0.00 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 2.474410 AGGTTCGATCAAGGTGGTTC 57.526 50.000 0.00 0.00 0.00 3.62
2 3 2.158667 ACAAGGTTCGATCAAGGTGGTT 60.159 45.455 0.00 0.00 0.00 3.67
4 5 2.185004 ACAAGGTTCGATCAAGGTGG 57.815 50.000 0.00 0.00 0.00 4.61
5 6 3.435671 GGTTACAAGGTTCGATCAAGGTG 59.564 47.826 0.00 0.00 0.00 4.00
6 7 3.071892 TGGTTACAAGGTTCGATCAAGGT 59.928 43.478 0.00 0.00 0.00 3.50
7 8 3.670625 TGGTTACAAGGTTCGATCAAGG 58.329 45.455 0.00 0.00 0.00 3.61
8 9 6.978343 TTATGGTTACAAGGTTCGATCAAG 57.022 37.500 0.00 0.00 0.00 3.02
9 10 7.931578 AATTATGGTTACAAGGTTCGATCAA 57.068 32.000 0.00 0.00 0.00 2.57
10 11 7.931578 AAATTATGGTTACAAGGTTCGATCA 57.068 32.000 0.00 0.00 0.00 2.92
11 12 7.220108 GCAAAATTATGGTTACAAGGTTCGATC 59.780 37.037 0.00 0.00 0.00 3.69
12 13 7.033185 GCAAAATTATGGTTACAAGGTTCGAT 58.967 34.615 0.00 0.00 0.00 3.59
13 14 6.383415 GCAAAATTATGGTTACAAGGTTCGA 58.617 36.000 0.00 0.00 0.00 3.71
14 15 5.285134 CGCAAAATTATGGTTACAAGGTTCG 59.715 40.000 0.00 0.00 0.00 3.95
15 16 6.153756 ACGCAAAATTATGGTTACAAGGTTC 58.846 36.000 0.00 0.00 0.00 3.62
16 17 6.091718 ACGCAAAATTATGGTTACAAGGTT 57.908 33.333 0.00 0.00 0.00 3.50
17 18 5.715434 ACGCAAAATTATGGTTACAAGGT 57.285 34.783 0.00 0.00 0.00 3.50
18 19 6.127842 ACCTACGCAAAATTATGGTTACAAGG 60.128 38.462 0.00 0.00 0.00 3.61
19 20 6.848451 ACCTACGCAAAATTATGGTTACAAG 58.152 36.000 0.00 0.00 0.00 3.16
20 21 6.655848 AGACCTACGCAAAATTATGGTTACAA 59.344 34.615 0.00 0.00 0.00 2.41
21 22 6.092944 CAGACCTACGCAAAATTATGGTTACA 59.907 38.462 0.00 0.00 0.00 2.41
22 23 6.457799 CCAGACCTACGCAAAATTATGGTTAC 60.458 42.308 0.00 0.00 0.00 2.50
23 24 5.587043 CCAGACCTACGCAAAATTATGGTTA 59.413 40.000 0.00 0.00 0.00 2.85
24 25 4.398044 CCAGACCTACGCAAAATTATGGTT 59.602 41.667 0.00 0.00 0.00 3.67
25 26 3.945285 CCAGACCTACGCAAAATTATGGT 59.055 43.478 0.00 0.00 0.00 3.55
26 27 3.243068 GCCAGACCTACGCAAAATTATGG 60.243 47.826 0.00 0.00 0.00 2.74
27 28 3.243068 GGCCAGACCTACGCAAAATTATG 60.243 47.826 0.00 0.00 34.51 1.90
28 29 2.949644 GGCCAGACCTACGCAAAATTAT 59.050 45.455 0.00 0.00 34.51 1.28
29 30 2.290387 TGGCCAGACCTACGCAAAATTA 60.290 45.455 0.00 0.00 40.22 1.40
30 31 1.173913 GGCCAGACCTACGCAAAATT 58.826 50.000 0.00 0.00 34.51 1.82
31 32 0.037590 TGGCCAGACCTACGCAAAAT 59.962 50.000 0.00 0.00 40.22 1.82
32 33 0.887387 GTGGCCAGACCTACGCAAAA 60.887 55.000 5.11 0.00 40.22 2.44
33 34 1.302192 GTGGCCAGACCTACGCAAA 60.302 57.895 5.11 0.00 40.22 3.68
34 35 2.345991 GTGGCCAGACCTACGCAA 59.654 61.111 5.11 0.00 40.22 4.85
35 36 4.063967 CGTGGCCAGACCTACGCA 62.064 66.667 5.11 0.00 40.22 5.24
36 37 4.814294 CCGTGGCCAGACCTACGC 62.814 72.222 5.11 0.00 39.87 4.42
37 38 4.143333 CCCGTGGCCAGACCTACG 62.143 72.222 5.11 4.60 40.47 3.51
38 39 3.001406 ACCCGTGGCCAGACCTAC 61.001 66.667 5.11 0.00 40.22 3.18
39 40 3.000819 CACCCGTGGCCAGACCTA 61.001 66.667 5.11 0.00 40.22 3.08
50 51 2.279918 GTCGAGCAACACACCCGT 60.280 61.111 0.00 0.00 0.00 5.28
51 52 3.041940 GGTCGAGCAACACACCCG 61.042 66.667 10.30 0.00 0.00 5.28
52 53 1.507141 CTTGGTCGAGCAACACACCC 61.507 60.000 25.16 0.60 0.00 4.61
53 54 1.941812 CTTGGTCGAGCAACACACC 59.058 57.895 25.16 2.05 0.00 4.16
54 55 1.279840 GCTTGGTCGAGCAACACAC 59.720 57.895 25.16 11.68 42.25 3.82
55 56 2.243957 CGCTTGGTCGAGCAACACA 61.244 57.895 25.16 6.24 42.83 3.72
56 57 2.551270 CGCTTGGTCGAGCAACAC 59.449 61.111 25.16 18.34 42.83 3.32
57 58 3.345808 GCGCTTGGTCGAGCAACA 61.346 61.111 25.16 7.40 42.83 3.33
58 59 4.430423 CGCGCTTGGTCGAGCAAC 62.430 66.667 25.16 19.39 42.83 4.17
59 60 2.829043 ATACGCGCTTGGTCGAGCAA 62.829 55.000 26.79 26.79 42.83 3.91
60 61 1.995646 TATACGCGCTTGGTCGAGCA 61.996 55.000 14.39 14.39 42.83 4.26
61 62 0.868602 TTATACGCGCTTGGTCGAGC 60.869 55.000 5.73 7.89 39.29 5.03
62 63 1.254570 GTTTATACGCGCTTGGTCGAG 59.745 52.381 5.73 0.00 35.42 4.04
63 64 1.135315 AGTTTATACGCGCTTGGTCGA 60.135 47.619 5.73 0.00 0.00 4.20
64 65 1.254570 GAGTTTATACGCGCTTGGTCG 59.745 52.381 5.73 0.00 0.00 4.79
65 66 2.537401 AGAGTTTATACGCGCTTGGTC 58.463 47.619 5.73 0.00 0.00 4.02
66 67 2.667473 AGAGTTTATACGCGCTTGGT 57.333 45.000 5.73 0.00 0.00 3.67
67 68 3.187700 AGAAGAGTTTATACGCGCTTGG 58.812 45.455 5.73 0.00 0.00 3.61
68 69 4.106197 AGAGAAGAGTTTATACGCGCTTG 58.894 43.478 5.73 0.00 0.00 4.01
69 70 4.096682 AGAGAGAAGAGTTTATACGCGCTT 59.903 41.667 5.73 0.00 0.00 4.68
70 71 3.628487 AGAGAGAAGAGTTTATACGCGCT 59.372 43.478 5.73 0.00 0.00 5.92
71 72 3.954999 AGAGAGAAGAGTTTATACGCGC 58.045 45.455 5.73 0.00 0.00 6.86
72 73 6.889494 TGATAGAGAGAAGAGTTTATACGCG 58.111 40.000 3.53 3.53 0.00 6.01
73 74 9.123709 CATTGATAGAGAGAAGAGTTTATACGC 57.876 37.037 0.00 0.00 0.00 4.42
92 93 9.143631 CGCATAGAGTGTATCATTTCATTGATA 57.856 33.333 0.00 0.00 37.51 2.15
93 94 7.658982 ACGCATAGAGTGTATCATTTCATTGAT 59.341 33.333 0.00 0.00 39.69 2.57
94 95 6.986231 ACGCATAGAGTGTATCATTTCATTGA 59.014 34.615 0.00 0.00 39.69 2.57
95 96 7.182361 ACGCATAGAGTGTATCATTTCATTG 57.818 36.000 0.00 0.00 39.69 2.82
106 107 4.451435 CCTCTCGAATACGCATAGAGTGTA 59.549 45.833 0.00 0.00 46.38 2.90
107 108 3.251245 CCTCTCGAATACGCATAGAGTGT 59.749 47.826 0.00 0.00 44.62 3.55
108 109 3.365465 CCCTCTCGAATACGCATAGAGTG 60.365 52.174 0.00 0.70 36.75 3.51
109 110 2.814919 CCCTCTCGAATACGCATAGAGT 59.185 50.000 0.00 0.00 36.75 3.24
110 111 2.162608 CCCCTCTCGAATACGCATAGAG 59.837 54.545 0.00 0.00 37.58 2.43
111 112 2.160205 CCCCTCTCGAATACGCATAGA 58.840 52.381 0.00 0.00 39.58 1.98
112 113 2.160205 TCCCCTCTCGAATACGCATAG 58.840 52.381 0.00 0.00 39.58 2.23
113 114 2.281539 TCCCCTCTCGAATACGCATA 57.718 50.000 0.00 0.00 39.58 3.14
114 115 1.546476 GATCCCCTCTCGAATACGCAT 59.454 52.381 0.00 0.00 39.58 4.73
115 116 0.959553 GATCCCCTCTCGAATACGCA 59.040 55.000 0.00 0.00 39.58 5.24
116 117 0.244178 GGATCCCCTCTCGAATACGC 59.756 60.000 0.00 0.00 39.58 4.42
117 118 0.889306 GGGATCCCCTCTCGAATACG 59.111 60.000 21.42 0.00 41.34 3.06
118 119 2.011122 TGGGATCCCCTCTCGAATAC 57.989 55.000 28.58 0.00 45.70 1.89
119 120 2.704065 GTTTGGGATCCCCTCTCGAATA 59.296 50.000 28.58 2.54 45.70 1.75
120 121 1.490910 GTTTGGGATCCCCTCTCGAAT 59.509 52.381 28.58 0.00 45.70 3.34
121 122 0.909623 GTTTGGGATCCCCTCTCGAA 59.090 55.000 28.58 11.67 45.70 3.71
122 123 0.252513 TGTTTGGGATCCCCTCTCGA 60.253 55.000 28.58 5.07 45.70 4.04
123 124 0.107654 GTGTTTGGGATCCCCTCTCG 60.108 60.000 28.58 0.00 45.70 4.04
124 125 0.107654 CGTGTTTGGGATCCCCTCTC 60.108 60.000 28.58 15.53 45.70 3.20
125 126 0.840722 ACGTGTTTGGGATCCCCTCT 60.841 55.000 28.58 0.30 45.70 3.69
126 127 0.906775 TACGTGTTTGGGATCCCCTC 59.093 55.000 28.58 17.60 45.70 4.30
127 128 1.591768 ATACGTGTTTGGGATCCCCT 58.408 50.000 28.58 4.17 45.70 4.79
256 257 6.546428 TTTTGGGTAAAAGTTTGACCATCA 57.454 33.333 21.66 10.09 34.73 3.07
285 286 3.449737 CGTCCAGGTTTATTAGACTCCCA 59.550 47.826 0.00 0.00 0.00 4.37
291 292 5.482878 ACTCTTTCCGTCCAGGTTTATTAGA 59.517 40.000 0.00 0.00 41.99 2.10
318 319 9.754382 ATGATATACTTTTGTGGCAAATCAATC 57.246 29.630 0.00 0.00 0.00 2.67
439 444 6.099269 AGTCTCCCTTGTACTCAGTGTAAAAA 59.901 38.462 0.00 0.00 28.77 1.94
443 448 4.383931 AGTCTCCCTTGTACTCAGTGTA 57.616 45.455 0.00 0.00 0.00 2.90
451 456 5.419471 ACTCTCATGTTAGTCTCCCTTGTAC 59.581 44.000 0.00 0.00 0.00 2.90
501 506 1.065109 GAAACCACAACGCCACCAC 59.935 57.895 0.00 0.00 0.00 4.16
538 543 4.404715 CAGAATTCGACCTAAGAGGGGTTA 59.595 45.833 0.00 0.00 40.58 2.85
539 544 3.197983 CAGAATTCGACCTAAGAGGGGTT 59.802 47.826 0.00 0.00 40.58 4.11
602 613 3.956744 AGGCCAAATTGTTACTCTCCTC 58.043 45.455 5.01 0.00 0.00 3.71
623 634 2.040145 TGGAATGATCTGTGGCACTGAA 59.960 45.455 27.36 14.93 29.93 3.02
625 636 2.014857 CTGGAATGATCTGTGGCACTG 58.985 52.381 19.83 18.54 0.00 3.66
627 638 1.386533 CCTGGAATGATCTGTGGCAC 58.613 55.000 11.55 11.55 0.00 5.01
661 672 3.518998 ATCTCGCCCTCGGTCACG 61.519 66.667 0.00 0.00 42.74 4.35
668 679 2.279120 CACGCTCATCTCGCCCTC 60.279 66.667 0.00 0.00 0.00 4.30
769 781 1.154054 GCCGTTGCAATTCATCGCA 60.154 52.632 0.59 0.00 36.76 5.10
790 802 4.274459 GCTAGCTGTTCGATTGGATTGATT 59.726 41.667 7.70 0.00 0.00 2.57
932 945 1.990614 GTGGGAGGGTGGAGAGGTC 60.991 68.421 0.00 0.00 0.00 3.85
949 962 1.152652 AGGAGCGGATCGGATCAGT 60.153 57.895 18.99 6.62 0.00 3.41
950 963 0.893270 AGAGGAGCGGATCGGATCAG 60.893 60.000 18.99 15.93 0.00 2.90
951 964 0.891449 GAGAGGAGCGGATCGGATCA 60.891 60.000 18.99 0.00 0.00 2.92
1625 1657 2.577593 GTTCCGAGAACGAGGGGG 59.422 66.667 0.00 0.00 42.66 5.40
1632 1664 0.613777 ACATGGGAGGTTCCGAGAAC 59.386 55.000 0.00 7.90 37.43 3.01
1634 1666 0.613260 CAACATGGGAGGTTCCGAGA 59.387 55.000 0.00 0.00 37.43 4.04
1638 1670 3.085952 TCAATCAACATGGGAGGTTCC 57.914 47.619 0.00 0.00 35.23 3.62
1760 1798 2.104792 TCCAATAGATCCCGCCTTCTTG 59.895 50.000 0.00 0.00 0.00 3.02
1813 1851 6.962182 TCCAGAATCTATCCAACAACAGATT 58.038 36.000 0.00 0.00 39.75 2.40
1819 1857 5.762179 ACACTCCAGAATCTATCCAACAA 57.238 39.130 0.00 0.00 0.00 2.83
1844 1882 2.093306 ATCGACGCCAACATGAGAAA 57.907 45.000 0.00 0.00 0.00 2.52
1848 1886 1.933181 GATCAATCGACGCCAACATGA 59.067 47.619 0.00 0.00 0.00 3.07
1849 1887 1.003545 GGATCAATCGACGCCAACATG 60.004 52.381 0.00 0.00 0.00 3.21
1850 1888 1.299541 GGATCAATCGACGCCAACAT 58.700 50.000 0.00 0.00 0.00 2.71
1851 1889 0.036858 TGGATCAATCGACGCCAACA 60.037 50.000 0.00 0.00 0.00 3.33
1852 1890 1.083489 TTGGATCAATCGACGCCAAC 58.917 50.000 0.00 0.00 35.24 3.77
1857 1895 3.374389 CAACTGTTGGATCAATCGACG 57.626 47.619 12.66 0.00 0.00 5.12
1869 1907 2.666619 GCAATCGAAGCTCCAACTGTTG 60.667 50.000 13.50 13.50 0.00 3.33
1870 1908 1.537202 GCAATCGAAGCTCCAACTGTT 59.463 47.619 6.02 0.00 0.00 3.16
1871 1909 1.160137 GCAATCGAAGCTCCAACTGT 58.840 50.000 6.02 0.00 0.00 3.55
1872 1910 1.446907 AGCAATCGAAGCTCCAACTG 58.553 50.000 9.65 0.00 38.01 3.16
1873 1911 3.944476 AGCAATCGAAGCTCCAACT 57.056 47.368 9.65 0.00 38.01 3.16
1920 1958 2.118313 TGGGAGAACAGCATGACATG 57.882 50.000 11.27 11.27 39.69 3.21
1983 2021 9.994432 CAAGTATCCAACAGTTGAAAATCTATC 57.006 33.333 15.36 0.00 0.00 2.08
2010 2054 5.573282 AGAAACTCGAATCAGTTACATGTCG 59.427 40.000 0.00 0.00 35.45 4.35
2041 2089 3.347958 TTCAGTTTCGAACATGCCAAC 57.652 42.857 0.00 0.00 0.00 3.77
2042 2090 4.377839 TTTTCAGTTTCGAACATGCCAA 57.622 36.364 0.00 0.00 0.00 4.52
2083 2132 4.545823 TGCTCTCGGTTTAAACAGTTTG 57.454 40.909 19.57 10.44 0.00 2.93
2146 2195 2.344025 GACGGCCTAACTTAACCACTG 58.656 52.381 0.00 0.00 0.00 3.66
2166 2216 2.276732 TTGCAGAGAGTTTTGGGAGG 57.723 50.000 0.00 0.00 0.00 4.30
2202 2253 5.968167 ACCTTGGTCCTAATGTCCTATTACA 59.032 40.000 0.00 0.00 0.00 2.41
2203 2254 6.496144 ACCTTGGTCCTAATGTCCTATTAC 57.504 41.667 0.00 0.00 0.00 1.89
2204 2255 9.901651 TTATACCTTGGTCCTAATGTCCTATTA 57.098 33.333 0.00 0.00 0.00 0.98
2206 2257 8.808240 TTTATACCTTGGTCCTAATGTCCTAT 57.192 34.615 0.00 0.00 0.00 2.57
2207 2258 8.626917 TTTTATACCTTGGTCCTAATGTCCTA 57.373 34.615 0.00 0.00 0.00 2.94
2208 2259 7.519347 TTTTATACCTTGGTCCTAATGTCCT 57.481 36.000 0.00 0.00 0.00 3.85
2209 2260 7.832685 ACTTTTTATACCTTGGTCCTAATGTCC 59.167 37.037 0.00 0.00 0.00 4.02
2210 2261 8.674607 CACTTTTTATACCTTGGTCCTAATGTC 58.325 37.037 0.00 0.00 0.00 3.06
2211 2262 7.614192 CCACTTTTTATACCTTGGTCCTAATGT 59.386 37.037 0.00 0.00 0.00 2.71
2212 2263 7.832187 TCCACTTTTTATACCTTGGTCCTAATG 59.168 37.037 0.00 0.00 0.00 1.90
2213 2264 7.935405 TCCACTTTTTATACCTTGGTCCTAAT 58.065 34.615 0.00 0.00 0.00 1.73
2214 2265 7.017850 ACTCCACTTTTTATACCTTGGTCCTAA 59.982 37.037 0.00 0.00 0.00 2.69
2245 2296 1.445942 GCAGGCCTATCGCAACCTA 59.554 57.895 3.98 0.00 40.31 3.08
2247 2298 2.040009 TAGGCAGGCCTATCGCAACC 62.040 60.000 15.86 0.00 46.14 3.77
2249 2300 1.748403 CTAGGCAGGCCTATCGCAA 59.252 57.895 19.69 0.00 46.46 4.85
2250 2301 2.210013 CCTAGGCAGGCCTATCGCA 61.210 63.158 19.69 0.00 46.46 5.10
2260 2311 7.362802 ACCTCTACTTTTTATACCTAGGCAG 57.637 40.000 9.30 0.00 0.00 4.85
2261 2312 7.181485 ACAACCTCTACTTTTTATACCTAGGCA 59.819 37.037 9.30 0.00 0.00 4.75
2262 2313 7.563020 ACAACCTCTACTTTTTATACCTAGGC 58.437 38.462 9.30 0.00 0.00 3.93
2263 2314 8.755977 TGACAACCTCTACTTTTTATACCTAGG 58.244 37.037 7.41 7.41 0.00 3.02
2266 2317 8.877195 TCTTGACAACCTCTACTTTTTATACCT 58.123 33.333 0.00 0.00 0.00 3.08
2282 2354 7.730364 TTGAATAGACTCTTTCTTGACAACC 57.270 36.000 0.00 0.00 35.55 3.77
2283 2355 8.070769 GGTTTGAATAGACTCTTTCTTGACAAC 58.929 37.037 0.00 0.00 35.55 3.32
2284 2356 7.773224 TGGTTTGAATAGACTCTTTCTTGACAA 59.227 33.333 0.00 0.00 35.55 3.18
2285 2357 7.279615 TGGTTTGAATAGACTCTTTCTTGACA 58.720 34.615 0.00 0.00 35.55 3.58
2319 2391 0.234625 TGTCGCTTCGTGTCAATTGC 59.765 50.000 0.00 0.00 0.00 3.56
2320 2392 1.722751 GCTGTCGCTTCGTGTCAATTG 60.723 52.381 0.00 0.00 0.00 2.32
2321 2393 0.512952 GCTGTCGCTTCGTGTCAATT 59.487 50.000 0.00 0.00 0.00 2.32
2322 2394 0.599991 TGCTGTCGCTTCGTGTCAAT 60.600 50.000 0.00 0.00 36.97 2.57
2323 2395 0.808060 TTGCTGTCGCTTCGTGTCAA 60.808 50.000 0.00 0.00 36.97 3.18
2333 2428 0.801251 AGAAGAATGCTTGCTGTCGC 59.199 50.000 0.00 0.00 33.61 5.19
2337 2432 0.885879 TGGCAGAAGAATGCTTGCTG 59.114 50.000 0.00 0.00 45.75 4.41
2376 2517 2.026822 AGTGTCATCAGAAAGGCCGATT 60.027 45.455 0.00 0.00 0.00 3.34
2419 2560 3.512329 TCAAATTGCATGAGAATGTGCCT 59.488 39.130 0.00 0.00 40.56 4.75
2446 2587 4.168101 CCTAGCATTATACCCTGGAGGAA 58.832 47.826 0.00 0.00 39.89 3.36
2459 2600 1.833492 TACCGCCGGCCTAGCATTA 60.833 57.895 23.46 0.00 0.00 1.90
2470 2611 3.490759 CTGCAGCTTGTACCGCCG 61.491 66.667 0.00 0.00 0.00 6.46
2503 2644 0.880278 GTCGTCAGGCTTGTCTTGCA 60.880 55.000 0.00 0.00 0.00 4.08
2541 2682 4.563140 ACCGCTTTAATTCAGGTTCCTA 57.437 40.909 0.00 0.00 0.00 2.94
2547 2688 3.308866 CCGAACTACCGCTTTAATTCAGG 59.691 47.826 0.00 0.00 0.00 3.86
2600 2741 2.431782 ACTTTTGCCTGCAGTTTGATGT 59.568 40.909 13.81 1.97 0.00 3.06
2686 2827 2.024177 TGGGGAGATTGGATGATTTGCA 60.024 45.455 0.00 0.00 0.00 4.08
2713 2854 5.567138 AAATCGCTTTAAAGTGGATGGAG 57.433 39.130 24.64 0.00 37.15 3.86
2714 2855 5.710099 AGAAAATCGCTTTAAAGTGGATGGA 59.290 36.000 24.64 8.87 37.15 3.41
2715 2856 5.954335 AGAAAATCGCTTTAAAGTGGATGG 58.046 37.500 24.64 5.79 37.15 3.51


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

AutoCloner maintained by Alex Coulton.