Multiple sequence alignment - TraesCS3B01G611300

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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 TraesCS3B01G611300 chr3B 100.000 2461 0 0 1 2461 829245546 829243086 0.000000e+00 4545.0
1 TraesCS3B01G611300 chr3B 83.401 988 145 7 658 1639 829136652 829135678 0.000000e+00 898.0
2 TraesCS3B01G611300 chr3B 97.938 388 6 2 2075 2461 53909536 53909150 0.000000e+00 671.0
3 TraesCS3B01G611300 chr3B 82.399 767 116 10 392 1149 829069308 829068552 0.000000e+00 651.0
4 TraesCS3B01G611300 chr3B 78.025 942 149 33 230 1134 829067633 829066713 7.740000e-150 540.0
5 TraesCS3B01G611300 chr3B 93.711 159 9 1 230 387 829150632 829150474 1.140000e-58 237.0
6 TraesCS3B01G611300 chr3B 93.082 159 10 1 230 387 829143952 829143794 5.290000e-57 231.0
7 TraesCS3B01G611300 chr3B 91.824 159 12 1 230 387 829140388 829140230 1.150000e-53 220.0
8 TraesCS3B01G611300 chr3B 93.220 118 7 1 1639 1755 829142219 829142102 3.250000e-39 172.0
9 TraesCS3B01G611300 chr3B 93.162 117 7 1 1640 1755 829064115 829063999 1.170000e-38 171.0
10 TraesCS3B01G611300 chr3B 88.983 118 11 2 1639 1755 829071309 829071193 7.090000e-31 145.0
11 TraesCS3B01G611300 chr3B 91.667 96 8 0 1836 1931 829133732 829133637 1.540000e-27 134.0
12 TraesCS3B01G611300 chr3B 76.735 245 49 5 566 803 829110392 829110635 1.990000e-26 130.0
13 TraesCS3B01G611300 chr3B 97.222 36 1 0 1836 1871 829063621 829063586 7.350000e-06 62.1
14 TraesCS3B01G611300 chr3A 92.977 2079 117 12 1 2074 746294682 746292628 0.000000e+00 3003.0
15 TraesCS3B01G611300 chr3A 82.837 1445 207 19 230 1639 746275639 746274201 0.000000e+00 1256.0
16 TraesCS3B01G611300 chr3A 83.072 1341 174 18 448 1755 746213013 746211693 0.000000e+00 1170.0
17 TraesCS3B01G611300 chr3A 82.402 966 157 6 584 1544 746215886 746214929 0.000000e+00 830.0
18 TraesCS3B01G611300 chr3A 92.453 159 10 2 230 387 746208817 746208660 2.460000e-55 226.0
19 TraesCS3B01G611300 chr3A 91.195 159 13 1 230 387 746278973 746278815 5.330000e-52 215.0
20 TraesCS3B01G611300 chr3A 92.857 126 7 2 392 516 746216369 746216245 5.410000e-42 182.0
21 TraesCS3B01G611300 chr3A 91.000 100 9 0 1832 1931 746272288 746272189 4.270000e-28 135.0
22 TraesCS3B01G611300 chr3D 94.433 1868 94 9 210 2074 611505106 611503246 0.000000e+00 2865.0
23 TraesCS3B01G611300 chr3D 85.518 1381 177 15 392 1755 611369233 611367859 0.000000e+00 1421.0
24 TraesCS3B01G611300 chr3D 82.869 1255 168 22 392 1639 611364613 611363399 0.000000e+00 1083.0
25 TraesCS3B01G611300 chr3D 85.568 880 93 14 909 1755 611416601 611415723 0.000000e+00 891.0
26 TraesCS3B01G611300 chr3D 86.873 777 92 6 790 1564 611362218 611361450 0.000000e+00 861.0
27 TraesCS3B01G611300 chr3D 96.804 219 7 0 1 219 611526545 611526327 1.390000e-97 366.0
28 TraesCS3B01G611300 chr3D 91.195 159 10 4 230 387 611369426 611369271 1.920000e-51 213.0
29 TraesCS3B01G611300 chr3D 91.034 145 8 3 392 536 611419838 611419699 8.980000e-45 191.0
30 TraesCS3B01G611300 chr3D 89.474 152 8 7 392 540 611417248 611417102 4.180000e-43 185.0
31 TraesCS3B01G611300 chr3D 93.162 117 7 1 1640 1755 611363370 611363254 1.170000e-38 171.0
32 TraesCS3B01G611300 chr3D 94.792 96 5 0 1836 1931 611415346 611415251 1.520000e-32 150.0
33 TraesCS3B01G611300 chr3D 100.000 31 0 0 1836 1866 611370686 611370656 9.510000e-05 58.4
34 TraesCS3B01G611300 chr5A 99.483 387 1 1 2075 2461 608661572 608661957 0.000000e+00 702.0
35 TraesCS3B01G611300 chr5A 97.704 392 6 3 2071 2461 322483935 322483546 0.000000e+00 671.0
36 TraesCS3B01G611300 chr6B 98.196 388 5 2 2075 2461 137414837 137415223 0.000000e+00 676.0
37 TraesCS3B01G611300 chr6B 97.933 387 6 2 2075 2461 337867165 337867549 0.000000e+00 669.0
38 TraesCS3B01G611300 chr4A 97.243 399 9 2 2063 2461 589910150 589910546 0.000000e+00 675.0
39 TraesCS3B01G611300 chr4A 97.436 390 5 4 2074 2461 601028172 601028558 0.000000e+00 660.0
40 TraesCS3B01G611300 chr2A 97.172 389 9 1 2073 2461 43447653 43448039 0.000000e+00 656.0
41 TraesCS3B01G611300 chr1A 96.692 393 11 1 2069 2461 569328321 569328711 0.000000e+00 652.0


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 TraesCS3B01G611300 chr3B 829243086 829245546 2460 True 4545.000000 4545 100.000000 1 2461 1 chr3B.!!$R3 2460
1 TraesCS3B01G611300 chr3B 829133637 829143952 10315 True 331.000000 898 90.638800 230 1931 5 chr3B.!!$R5 1701
2 TraesCS3B01G611300 chr3B 829063586 829071309 7723 True 313.820000 651 87.958200 230 1871 5 chr3B.!!$R4 1641
3 TraesCS3B01G611300 chr3A 746292628 746294682 2054 True 3003.000000 3003 92.977000 1 2074 1 chr3A.!!$R1 2073
4 TraesCS3B01G611300 chr3A 746208660 746216369 7709 True 602.000000 1170 87.696000 230 1755 4 chr3A.!!$R2 1525
5 TraesCS3B01G611300 chr3A 746272189 746278973 6784 True 535.333333 1256 88.344000 230 1931 3 chr3A.!!$R3 1701
6 TraesCS3B01G611300 chr3D 611503246 611505106 1860 True 2865.000000 2865 94.433000 210 2074 1 chr3D.!!$R1 1864
7 TraesCS3B01G611300 chr3D 611361450 611370686 9236 True 634.566667 1421 89.936167 230 1866 6 chr3D.!!$R3 1636
8 TraesCS3B01G611300 chr3D 611415251 611419838 4587 True 354.250000 891 90.217000 392 1931 4 chr3D.!!$R4 1539

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
716 6209 0.456312 GGCGAAGACCACTAGTGACG 60.456 60.0 24.68 19.13 0.0 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2402 22471 0.247655 CGGCATTGATTCGTTCGTGG 60.248 55.0 0.0 0.0 0.0 4.94 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
43 44 6.212388 TGGCATATTGGAAAATGTAACCAAGT 59.788 34.615 0.00 0.00 44.95 3.16
91 92 1.288335 TCCCTCCTCTGAGTACCTTCC 59.712 57.143 3.66 0.00 36.86 3.46
101 102 4.082190 TCTGAGTACCTTCCATGAAGAACG 60.082 45.833 5.43 0.00 41.71 3.95
106 107 3.562182 ACCTTCCATGAAGAACGGTTTT 58.438 40.909 5.43 0.00 41.71 2.43
115 116 8.673711 TCCATGAAGAACGGTTTTATAGAATTG 58.326 33.333 0.00 0.00 0.00 2.32
116 117 7.432252 CCATGAAGAACGGTTTTATAGAATTGC 59.568 37.037 0.00 0.00 0.00 3.56
118 119 8.106247 TGAAGAACGGTTTTATAGAATTGCTT 57.894 30.769 0.00 0.00 0.00 3.91
119 120 8.020819 TGAAGAACGGTTTTATAGAATTGCTTG 58.979 33.333 0.00 0.00 0.00 4.01
122 123 8.573035 AGAACGGTTTTATAGAATTGCTTGAAA 58.427 29.630 0.00 0.00 0.00 2.69
123 124 9.187455 GAACGGTTTTATAGAATTGCTTGAAAA 57.813 29.630 0.00 0.00 0.00 2.29
139 140 3.420893 TGAAAAGCCCTGGTGAGTAATG 58.579 45.455 0.00 0.00 0.00 1.90
170 172 6.308766 GCACACATATTAGAGGCAAAAGTTTG 59.691 38.462 0.00 0.00 41.03 2.93
228 230 8.043113 GGACATCACTATTATCCTTGATATGCA 58.957 37.037 0.00 0.00 0.00 3.96
314 5472 7.993183 TCTTCATTCCTTTCTTGGTATATGGAC 59.007 37.037 0.00 0.00 0.00 4.02
378 5536 3.031736 TGTAGTCACCCCTAGATGCTTC 58.968 50.000 0.00 0.00 0.00 3.86
387 5545 6.385759 TCACCCCTAGATGCTTCTGTATTTTA 59.614 38.462 12.19 0.00 33.17 1.52
389 5547 7.556275 CACCCCTAGATGCTTCTGTATTTTAAA 59.444 37.037 12.19 0.00 33.17 1.52
501 5695 6.600388 ACAAAAAGGGATTGCCAAAAAGTAT 58.400 32.000 0.00 0.00 35.15 2.12
547 5746 3.583526 GTGAAAAAGAGTCTACCCTCCCT 59.416 47.826 0.00 0.00 31.53 4.20
549 5748 3.856747 AAAAGAGTCTACCCTCCCTCT 57.143 47.619 0.00 0.00 35.86 3.69
616 6106 6.197096 CGAAACAAAGTGAGGACAAAAGATTG 59.803 38.462 0.00 0.00 42.46 2.67
710 6203 1.180456 TCCAACGGCGAAGACCACTA 61.180 55.000 16.62 0.00 0.00 2.74
716 6209 0.456312 GGCGAAGACCACTAGTGACG 60.456 60.000 24.68 19.13 0.00 4.35
788 6281 2.022129 GTGGAGAACGCTGGTCACG 61.022 63.158 0.00 0.00 0.00 4.35
1005 15821 1.506025 GAGAAGAAGGGGAGATGGCT 58.494 55.000 0.00 0.00 0.00 4.75
1014 15830 1.064824 GGGAGATGGCTGGGAGGAAT 61.065 60.000 0.00 0.00 0.00 3.01
1337 18216 3.860605 ATCATGCCGCGCCACCTA 61.861 61.111 0.00 0.00 0.00 3.08
1564 18445 7.001099 TCTCGTACCAAGAAAAGGAGTAATT 57.999 36.000 0.00 0.00 0.00 1.40
1819 21785 0.750850 ATACCGACAGATGGTTCCCG 59.249 55.000 0.00 0.00 40.96 5.14
1910 21976 8.274259 TGACAAGATCATTGCATTCTGCACTC 62.274 42.308 0.43 0.00 42.60 3.51
1974 22040 3.194861 GCTATGTGCACGATGGTTTCTA 58.805 45.455 13.13 0.00 42.31 2.10
2011 22077 1.523258 CAGCAGATCAAGCCCTCGG 60.523 63.158 6.55 0.00 0.00 4.63
2059 22128 7.108194 TCTGTGAATAGCTGAAATCAGTCAAT 58.892 34.615 11.77 1.43 45.45 2.57
2076 22145 8.523915 TCAGTCAATGATGCCTATTATGTTTT 57.476 30.769 0.00 0.00 31.12 2.43
2077 22146 8.970020 TCAGTCAATGATGCCTATTATGTTTTT 58.030 29.630 0.00 0.00 31.12 1.94
2098 22167 4.659111 TTTTTCGAAAAGGGGGAGAAAC 57.341 40.909 21.53 0.00 31.56 2.78
2099 22168 2.281539 TTCGAAAAGGGGGAGAAACC 57.718 50.000 0.00 0.00 38.08 3.27
2108 22177 3.009714 GGAGAAACCCCGGCCTCT 61.010 66.667 0.00 0.00 0.00 3.69
2109 22178 2.269241 GAGAAACCCCGGCCTCTG 59.731 66.667 0.00 0.00 0.00 3.35
2110 22179 3.978571 GAGAAACCCCGGCCTCTGC 62.979 68.421 0.00 0.00 0.00 4.26
2111 22180 4.344865 GAAACCCCGGCCTCTGCA 62.345 66.667 0.00 0.00 40.13 4.41
2112 22181 3.645268 GAAACCCCGGCCTCTGCAT 62.645 63.158 0.00 0.00 40.13 3.96
2113 22182 3.645268 AAACCCCGGCCTCTGCATC 62.645 63.158 0.00 0.00 40.13 3.91
2115 22184 4.559063 CCCCGGCCTCTGCATCAG 62.559 72.222 0.00 0.00 40.13 2.90
2132 22201 3.649986 GCACGATGCATACGGCCC 61.650 66.667 18.34 6.56 44.26 5.80
2133 22202 2.108976 CACGATGCATACGGCCCT 59.891 61.111 18.34 0.00 43.89 5.19
2134 22203 1.956170 CACGATGCATACGGCCCTC 60.956 63.158 18.34 0.00 43.89 4.30
2135 22204 2.134287 ACGATGCATACGGCCCTCT 61.134 57.895 18.34 0.00 43.89 3.69
2136 22205 1.069765 CGATGCATACGGCCCTCTT 59.930 57.895 0.00 0.00 43.89 2.85
2137 22206 0.317160 CGATGCATACGGCCCTCTTA 59.683 55.000 0.00 0.00 43.89 2.10
2138 22207 1.066858 CGATGCATACGGCCCTCTTAT 60.067 52.381 0.00 0.00 43.89 1.73
2139 22208 2.612972 CGATGCATACGGCCCTCTTATT 60.613 50.000 0.00 0.00 43.89 1.40
2140 22209 3.368013 CGATGCATACGGCCCTCTTATTA 60.368 47.826 0.00 0.00 43.89 0.98
2141 22210 4.575885 GATGCATACGGCCCTCTTATTAA 58.424 43.478 0.00 0.00 43.89 1.40
2142 22211 4.634012 TGCATACGGCCCTCTTATTAAT 57.366 40.909 0.00 0.00 43.89 1.40
2143 22212 5.748670 TGCATACGGCCCTCTTATTAATA 57.251 39.130 0.00 0.00 43.89 0.98
2144 22213 6.116711 TGCATACGGCCCTCTTATTAATAA 57.883 37.500 7.66 7.66 43.89 1.40
2145 22214 6.535540 TGCATACGGCCCTCTTATTAATAAA 58.464 36.000 9.15 0.95 43.89 1.40
2146 22215 6.999272 TGCATACGGCCCTCTTATTAATAAAA 59.001 34.615 9.15 0.00 43.89 1.52
2147 22216 7.174253 TGCATACGGCCCTCTTATTAATAAAAG 59.826 37.037 9.15 5.57 43.89 2.27
2148 22217 7.389607 GCATACGGCCCTCTTATTAATAAAAGA 59.610 37.037 9.68 5.51 36.11 2.52
2149 22218 9.280174 CATACGGCCCTCTTATTAATAAAAGAA 57.720 33.333 9.68 0.00 31.61 2.52
2150 22219 7.803279 ACGGCCCTCTTATTAATAAAAGAAG 57.197 36.000 9.68 3.09 31.61 2.85
2151 22220 7.344134 ACGGCCCTCTTATTAATAAAAGAAGT 58.656 34.615 9.68 2.58 31.61 3.01
2152 22221 8.488668 ACGGCCCTCTTATTAATAAAAGAAGTA 58.511 33.333 9.68 0.00 31.61 2.24
2153 22222 8.989980 CGGCCCTCTTATTAATAAAAGAAGTAG 58.010 37.037 9.68 0.00 31.61 2.57
2154 22223 9.848710 GGCCCTCTTATTAATAAAAGAAGTAGT 57.151 33.333 9.68 0.00 31.61 2.73
2164 22233 4.853924 AAAAGAAGTAGTGCCAACATGG 57.146 40.909 0.00 0.00 41.55 3.66
2165 22234 3.508845 AAGAAGTAGTGCCAACATGGT 57.491 42.857 0.00 0.00 40.46 3.55
2166 22235 3.508845 AGAAGTAGTGCCAACATGGTT 57.491 42.857 0.00 0.00 40.46 3.67
2167 22236 3.412386 AGAAGTAGTGCCAACATGGTTC 58.588 45.455 0.00 0.00 40.46 3.62
2168 22237 2.200373 AGTAGTGCCAACATGGTTCC 57.800 50.000 0.00 0.00 40.46 3.62
2169 22238 1.423541 AGTAGTGCCAACATGGTTCCA 59.576 47.619 0.00 0.00 40.46 3.53
2170 22239 2.158534 AGTAGTGCCAACATGGTTCCAA 60.159 45.455 0.00 0.00 40.46 3.53
2171 22240 2.014010 AGTGCCAACATGGTTCCAAT 57.986 45.000 0.00 0.00 40.46 3.16
2172 22241 1.619827 AGTGCCAACATGGTTCCAATG 59.380 47.619 0.00 0.00 40.46 2.82
2173 22242 0.975135 TGCCAACATGGTTCCAATGG 59.025 50.000 13.63 13.63 40.46 3.16
2174 22243 0.975887 GCCAACATGGTTCCAATGGT 59.024 50.000 16.97 6.14 40.46 3.55
2175 22244 1.066929 GCCAACATGGTTCCAATGGTC 60.067 52.381 16.97 9.79 40.46 4.02
2176 22245 1.202114 CCAACATGGTTCCAATGGTCG 59.798 52.381 0.00 0.00 31.35 4.79
2177 22246 1.885887 CAACATGGTTCCAATGGTCGT 59.114 47.619 0.00 0.00 0.00 4.34
2178 22247 3.078097 CAACATGGTTCCAATGGTCGTA 58.922 45.455 0.00 0.00 0.00 3.43
2179 22248 3.426787 ACATGGTTCCAATGGTCGTAA 57.573 42.857 0.00 0.00 0.00 3.18
2180 22249 3.757270 ACATGGTTCCAATGGTCGTAAA 58.243 40.909 0.00 0.00 0.00 2.01
2181 22250 4.145807 ACATGGTTCCAATGGTCGTAAAA 58.854 39.130 0.00 0.00 0.00 1.52
2182 22251 4.585162 ACATGGTTCCAATGGTCGTAAAAA 59.415 37.500 0.00 0.00 0.00 1.94
2203 22272 7.391148 AAAAAGTAGAAAAAGCTCACACAGA 57.609 32.000 0.00 0.00 0.00 3.41
2230 22299 8.072238 CCAATAAAAAGGCTAGAAACAACAAC 57.928 34.615 0.00 0.00 0.00 3.32
2231 22300 7.926018 CCAATAAAAAGGCTAGAAACAACAACT 59.074 33.333 0.00 0.00 0.00 3.16
2241 22310 7.202016 CTAGAAACAACAACTAGCCAAATCA 57.798 36.000 0.00 0.00 0.00 2.57
2242 22311 6.463995 AGAAACAACAACTAGCCAAATCAA 57.536 33.333 0.00 0.00 0.00 2.57
2243 22312 6.507023 AGAAACAACAACTAGCCAAATCAAG 58.493 36.000 0.00 0.00 0.00 3.02
2245 22314 6.655078 AACAACAACTAGCCAAATCAAGAT 57.345 33.333 0.00 0.00 0.00 2.40
2246 22315 6.017400 ACAACAACTAGCCAAATCAAGATG 57.983 37.500 0.00 0.00 0.00 2.90
2247 22316 4.708726 ACAACTAGCCAAATCAAGATGC 57.291 40.909 0.00 0.00 0.00 3.91
2248 22317 3.445096 ACAACTAGCCAAATCAAGATGCC 59.555 43.478 0.00 0.00 0.00 4.40
2250 22319 3.019564 ACTAGCCAAATCAAGATGCCAC 58.980 45.455 0.00 0.00 0.00 5.01
2251 22320 1.927487 AGCCAAATCAAGATGCCACA 58.073 45.000 0.00 0.00 0.00 4.17
2252 22321 2.250031 AGCCAAATCAAGATGCCACAA 58.750 42.857 0.00 0.00 0.00 3.33
2253 22322 2.028748 AGCCAAATCAAGATGCCACAAC 60.029 45.455 0.00 0.00 0.00 3.32
2254 22323 2.932187 GCCAAATCAAGATGCCACAACC 60.932 50.000 0.00 0.00 0.00 3.77
2255 22324 2.598589 CAAATCAAGATGCCACAACCG 58.401 47.619 0.00 0.00 0.00 4.44
2256 22325 1.176527 AATCAAGATGCCACAACCGG 58.823 50.000 0.00 0.00 0.00 5.28
2273 22342 3.662247 CCGGCTGGGTAAAGTAGATAG 57.338 52.381 2.57 0.00 0.00 2.08
2274 22343 2.299297 CCGGCTGGGTAAAGTAGATAGG 59.701 54.545 2.57 0.00 0.00 2.57
2275 22344 3.228453 CGGCTGGGTAAAGTAGATAGGA 58.772 50.000 0.00 0.00 0.00 2.94
2276 22345 3.640029 CGGCTGGGTAAAGTAGATAGGAA 59.360 47.826 0.00 0.00 0.00 3.36
2277 22346 4.501058 CGGCTGGGTAAAGTAGATAGGAAC 60.501 50.000 0.00 0.00 0.00 3.62
2278 22347 4.407945 GGCTGGGTAAAGTAGATAGGAACA 59.592 45.833 0.00 0.00 0.00 3.18
2279 22348 5.358090 GCTGGGTAAAGTAGATAGGAACAC 58.642 45.833 0.00 0.00 0.00 3.32
2280 22349 5.128991 GCTGGGTAAAGTAGATAGGAACACT 59.871 44.000 0.00 0.00 0.00 3.55
2281 22350 6.323225 GCTGGGTAAAGTAGATAGGAACACTA 59.677 42.308 0.00 0.00 35.80 2.74
2282 22351 7.147776 GCTGGGTAAAGTAGATAGGAACACTAA 60.148 40.741 0.00 0.00 34.79 2.24
2283 22352 8.669055 TGGGTAAAGTAGATAGGAACACTAAA 57.331 34.615 0.00 0.00 34.79 1.85
2285 22354 9.543783 GGGTAAAGTAGATAGGAACACTAAATG 57.456 37.037 0.00 0.00 34.79 2.32
2287 22356 9.043079 GTAAAGTAGATAGGAACACTAAATGCC 57.957 37.037 0.00 0.00 34.79 4.40
2288 22357 7.439108 AAGTAGATAGGAACACTAAATGCCT 57.561 36.000 0.00 0.00 34.79 4.75
2289 22358 8.548880 AAGTAGATAGGAACACTAAATGCCTA 57.451 34.615 0.00 0.00 34.79 3.93
2290 22359 8.728596 AGTAGATAGGAACACTAAATGCCTAT 57.271 34.615 0.00 0.00 42.88 2.57
2293 22362 7.010339 GATAGGAACACTAAATGCCTATCCT 57.990 40.000 13.59 0.00 46.05 3.24
2294 22363 8.135382 GATAGGAACACTAAATGCCTATCCTA 57.865 38.462 13.59 0.00 46.05 2.94
2296 22365 7.394144 AGGAACACTAAATGCCTATCCTATT 57.606 36.000 0.00 0.00 34.41 1.73
2297 22366 8.506196 AGGAACACTAAATGCCTATCCTATTA 57.494 34.615 0.00 0.00 34.41 0.98
2298 22367 8.376270 AGGAACACTAAATGCCTATCCTATTAC 58.624 37.037 0.00 0.00 34.41 1.89
2300 22369 9.726438 GAACACTAAATGCCTATCCTATTACAT 57.274 33.333 0.00 0.00 0.00 2.29
2301 22370 9.507329 AACACTAAATGCCTATCCTATTACATG 57.493 33.333 0.00 0.00 0.00 3.21
2302 22371 8.880244 ACACTAAATGCCTATCCTATTACATGA 58.120 33.333 0.00 0.00 0.00 3.07
2303 22372 9.155975 CACTAAATGCCTATCCTATTACATGAC 57.844 37.037 0.00 0.00 0.00 3.06
2304 22373 8.322091 ACTAAATGCCTATCCTATTACATGACC 58.678 37.037 0.00 0.00 0.00 4.02
2307 22376 3.679083 GCCTATCCTATTACATGACCGCC 60.679 52.174 0.00 0.00 0.00 6.13
2308 22377 3.513912 CCTATCCTATTACATGACCGCCA 59.486 47.826 0.00 0.00 0.00 5.69
2309 22378 4.162320 CCTATCCTATTACATGACCGCCAT 59.838 45.833 0.00 0.00 35.44 4.40
2311 22380 2.301870 TCCTATTACATGACCGCCATCC 59.698 50.000 0.00 0.00 31.94 3.51
2312 22381 2.038426 CCTATTACATGACCGCCATCCA 59.962 50.000 0.00 0.00 31.94 3.41
2315 22384 1.745232 TACATGACCGCCATCCAAAC 58.255 50.000 0.00 0.00 31.94 2.93
2316 22385 0.965363 ACATGACCGCCATCCAAACC 60.965 55.000 0.00 0.00 31.94 3.27
2317 22386 1.748879 ATGACCGCCATCCAAACCG 60.749 57.895 0.00 0.00 0.00 4.44
2320 22389 2.675075 CCGCCATCCAAACCGGTT 60.675 61.111 15.86 15.86 36.18 4.44
2321 22390 2.566010 CGCCATCCAAACCGGTTG 59.434 61.111 23.08 14.70 36.94 3.77
2322 22391 1.969064 CGCCATCCAAACCGGTTGA 60.969 57.895 23.08 15.50 39.87 3.18
2323 22392 1.519751 CGCCATCCAAACCGGTTGAA 61.520 55.000 23.08 9.90 39.87 2.69
2324 22393 0.243636 GCCATCCAAACCGGTTGAAG 59.756 55.000 23.08 13.88 39.87 3.02
2325 22394 1.904287 CCATCCAAACCGGTTGAAGA 58.096 50.000 23.08 17.89 39.87 2.87
2326 22395 2.446435 CCATCCAAACCGGTTGAAGAT 58.554 47.619 23.08 19.33 39.87 2.40
2327 22396 3.616219 CCATCCAAACCGGTTGAAGATA 58.384 45.455 23.08 4.03 39.87 1.98
2328 22397 4.207165 CCATCCAAACCGGTTGAAGATAT 58.793 43.478 23.08 6.33 39.87 1.63
2329 22398 4.275936 CCATCCAAACCGGTTGAAGATATC 59.724 45.833 23.08 0.00 39.87 1.63
2330 22399 3.881220 TCCAAACCGGTTGAAGATATCC 58.119 45.455 23.08 0.00 39.87 2.59
2331 22400 2.949644 CCAAACCGGTTGAAGATATCCC 59.050 50.000 23.08 0.00 39.87 3.85
2332 22401 2.612212 CAAACCGGTTGAAGATATCCCG 59.388 50.000 23.08 9.61 39.87 5.14
2333 22402 1.784358 ACCGGTTGAAGATATCCCGA 58.216 50.000 16.17 0.00 41.08 5.14
2334 22403 1.687123 ACCGGTTGAAGATATCCCGAG 59.313 52.381 16.17 10.10 41.08 4.63
2335 22404 1.605712 CCGGTTGAAGATATCCCGAGC 60.606 57.143 16.17 9.53 41.08 5.03
2336 22405 1.341531 CGGTTGAAGATATCCCGAGCT 59.658 52.381 10.76 0.00 41.08 4.09
2338 22407 3.612004 CGGTTGAAGATATCCCGAGCTAC 60.612 52.174 10.76 0.00 41.08 3.58
2340 22409 3.238788 TGAAGATATCCCGAGCTACCA 57.761 47.619 0.00 0.00 0.00 3.25
2341 22410 3.779444 TGAAGATATCCCGAGCTACCAT 58.221 45.455 0.00 0.00 0.00 3.55
2342 22411 3.764434 TGAAGATATCCCGAGCTACCATC 59.236 47.826 0.00 0.00 0.00 3.51
2343 22412 3.748645 AGATATCCCGAGCTACCATCT 57.251 47.619 0.00 0.00 0.00 2.90
2344 22413 3.626930 AGATATCCCGAGCTACCATCTC 58.373 50.000 0.00 0.00 0.00 2.75
2345 22414 2.217510 TATCCCGAGCTACCATCTCC 57.782 55.000 0.00 0.00 0.00 3.71
2348 22417 1.467678 CCCGAGCTACCATCTCCCAG 61.468 65.000 0.00 0.00 0.00 4.45
2349 22418 1.365633 CGAGCTACCATCTCCCAGC 59.634 63.158 0.00 0.00 0.00 4.85
2350 22419 1.365633 GAGCTACCATCTCCCAGCG 59.634 63.158 0.00 0.00 39.04 5.18
2351 22420 2.093537 GAGCTACCATCTCCCAGCGG 62.094 65.000 0.00 0.00 39.04 5.52
2352 22421 2.134287 GCTACCATCTCCCAGCGGA 61.134 63.158 0.00 0.00 36.45 5.54
2353 22422 1.742768 CTACCATCTCCCAGCGGAC 59.257 63.158 0.00 0.00 33.32 4.79
2354 22423 1.001120 TACCATCTCCCAGCGGACA 59.999 57.895 0.00 0.00 33.32 4.02
2356 22425 2.060383 CCATCTCCCAGCGGACAGA 61.060 63.158 0.00 0.00 33.32 3.41
2357 22426 1.142748 CATCTCCCAGCGGACAGAC 59.857 63.158 0.00 0.00 33.32 3.51
2360 22429 4.631740 TCCCAGCGGACAGACCCA 62.632 66.667 0.00 0.00 31.13 4.51
2363 22432 1.982395 CCAGCGGACAGACCCAGTA 60.982 63.158 0.00 0.00 34.64 2.74
2364 22433 1.541310 CCAGCGGACAGACCCAGTAA 61.541 60.000 0.00 0.00 34.64 2.24
2365 22434 0.389948 CAGCGGACAGACCCAGTAAC 60.390 60.000 0.00 0.00 34.64 2.50
2366 22435 1.079336 GCGGACAGACCCAGTAACC 60.079 63.158 0.00 0.00 34.64 2.85
2367 22436 1.823169 GCGGACAGACCCAGTAACCA 61.823 60.000 0.00 0.00 34.64 3.67
2370 22439 2.290071 CGGACAGACCCAGTAACCAAAT 60.290 50.000 0.00 0.00 34.64 2.32
2371 22440 3.081804 GGACAGACCCAGTAACCAAATG 58.918 50.000 0.00 0.00 0.00 2.32
2372 22441 2.488153 GACAGACCCAGTAACCAAATGC 59.512 50.000 0.00 0.00 0.00 3.56
2373 22442 2.108250 ACAGACCCAGTAACCAAATGCT 59.892 45.455 0.00 0.00 0.00 3.79
2374 22443 2.749621 CAGACCCAGTAACCAAATGCTC 59.250 50.000 0.00 0.00 0.00 4.26
2375 22444 2.092323 GACCCAGTAACCAAATGCTCC 58.908 52.381 0.00 0.00 0.00 4.70
2377 22446 1.005924 CCCAGTAACCAAATGCTCCCT 59.994 52.381 0.00 0.00 0.00 4.20
2378 22447 2.094675 CCAGTAACCAAATGCTCCCTG 58.905 52.381 0.00 0.00 0.00 4.45
2379 22448 2.094675 CAGTAACCAAATGCTCCCTGG 58.905 52.381 0.00 0.00 36.24 4.45
2381 22450 0.324275 TAACCAAATGCTCCCTGGCC 60.324 55.000 0.00 0.00 33.19 5.36
2382 22451 2.097978 AACCAAATGCTCCCTGGCCT 62.098 55.000 3.32 0.00 33.19 5.19
2384 22453 1.755783 CAAATGCTCCCTGGCCTCC 60.756 63.158 3.32 0.00 0.00 4.30
2385 22454 3.350031 AAATGCTCCCTGGCCTCCG 62.350 63.158 3.32 0.00 0.00 4.63
2393 22462 4.087892 CTGGCCTCCGTCTGGGTG 62.088 72.222 3.32 0.00 37.00 4.61
2394 22463 4.631740 TGGCCTCCGTCTGGGTGA 62.632 66.667 3.32 0.00 37.00 4.02
2395 22464 3.775654 GGCCTCCGTCTGGGTGAG 61.776 72.222 0.00 0.00 37.00 3.51
2396 22465 2.997897 GCCTCCGTCTGGGTGAGT 60.998 66.667 0.00 0.00 37.00 3.41
2397 22466 2.973899 CCTCCGTCTGGGTGAGTG 59.026 66.667 0.00 0.00 37.00 3.51
2398 22467 2.650116 CCTCCGTCTGGGTGAGTGG 61.650 68.421 0.00 0.00 37.00 4.00
2401 22470 3.680786 CGTCTGGGTGAGTGGCGA 61.681 66.667 0.00 0.00 0.00 5.54
2402 22471 2.048127 GTCTGGGTGAGTGGCGAC 60.048 66.667 0.00 0.00 0.00 5.19
2403 22472 3.311110 TCTGGGTGAGTGGCGACC 61.311 66.667 0.00 0.00 0.00 4.79
2404 22473 3.625897 CTGGGTGAGTGGCGACCA 61.626 66.667 0.00 0.00 33.48 4.02
2412 22481 2.659244 GTGGCGACCACGAACGAA 60.659 61.111 12.22 0.00 44.95 3.85
2414 22483 1.735198 TGGCGACCACGAACGAATC 60.735 57.895 0.14 0.00 42.66 2.52
2415 22484 1.735198 GGCGACCACGAACGAATCA 60.735 57.895 0.14 0.00 42.66 2.57
2416 22485 1.286354 GGCGACCACGAACGAATCAA 61.286 55.000 0.14 0.00 42.66 2.57
2417 22486 0.719465 GCGACCACGAACGAATCAAT 59.281 50.000 0.14 0.00 42.66 2.57
2418 22487 1.526986 GCGACCACGAACGAATCAATG 60.527 52.381 0.14 0.00 42.66 2.82
2419 22488 1.526986 CGACCACGAACGAATCAATGC 60.527 52.381 0.14 0.00 42.66 3.56
2420 22489 0.802494 ACCACGAACGAATCAATGCC 59.198 50.000 0.14 0.00 0.00 4.40
2421 22490 0.247655 CCACGAACGAATCAATGCCG 60.248 55.000 0.14 0.00 0.00 5.69
2423 22492 1.656594 CACGAACGAATCAATGCCGTA 59.343 47.619 0.14 0.00 35.28 4.02
2424 22493 1.924524 ACGAACGAATCAATGCCGTAG 59.075 47.619 0.14 0.00 35.28 3.51
2427 22496 1.935933 ACGAATCAATGCCGTAGTCC 58.064 50.000 0.00 0.00 34.52 3.85
2428 22497 0.852777 CGAATCAATGCCGTAGTCCG 59.147 55.000 0.00 0.00 0.00 4.79
2447 22738 5.011635 AGTCCGGAATAAAACCTGCAAAAAT 59.988 36.000 5.23 0.00 0.00 1.82
2448 22739 5.699001 GTCCGGAATAAAACCTGCAAAAATT 59.301 36.000 5.23 0.00 0.00 1.82
2449 22740 5.698545 TCCGGAATAAAACCTGCAAAAATTG 59.301 36.000 0.00 0.00 0.00 2.32
2450 22741 5.468409 CCGGAATAAAACCTGCAAAAATTGT 59.532 36.000 0.00 0.00 0.00 2.71
2451 22742 6.647067 CCGGAATAAAACCTGCAAAAATTGTA 59.353 34.615 0.00 0.00 0.00 2.41
2452 22743 7.333174 CCGGAATAAAACCTGCAAAAATTGTAT 59.667 33.333 0.00 0.00 0.00 2.29
2453 22744 9.360093 CGGAATAAAACCTGCAAAAATTGTATA 57.640 29.630 0.00 0.00 0.00 1.47
2459 22750 9.723601 AAAACCTGCAAAAATTGTATACATGAT 57.276 25.926 6.36 0.00 0.00 2.45
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
43 44 5.766150 AAATTAGTGTGTTTGCTAGCACA 57.234 34.783 19.17 13.26 42.50 4.57
63 64 3.521727 ACTCAGAGGAGGGAAGCTAAAA 58.478 45.455 1.53 0.00 45.81 1.52
91 92 8.184192 AGCAATTCTATAAAACCGTTCTTCATG 58.816 33.333 0.00 0.00 0.00 3.07
116 117 1.986882 ACTCACCAGGGCTTTTCAAG 58.013 50.000 0.00 0.00 0.00 3.02
118 119 3.181434 ACATTACTCACCAGGGCTTTTCA 60.181 43.478 0.00 0.00 0.00 2.69
119 120 3.421844 ACATTACTCACCAGGGCTTTTC 58.578 45.455 0.00 0.00 0.00 2.29
122 123 3.157087 CAAACATTACTCACCAGGGCTT 58.843 45.455 0.00 0.00 0.00 4.35
123 124 2.108250 ACAAACATTACTCACCAGGGCT 59.892 45.455 0.00 0.00 0.00 5.19
124 125 2.228822 CACAAACATTACTCACCAGGGC 59.771 50.000 0.00 0.00 0.00 5.19
139 140 4.155826 TGCCTCTAATATGTGTGCACAAAC 59.844 41.667 23.59 11.09 45.41 2.93
170 172 9.356433 GGTATTTAAGAGAAGTGTGAGTAGTTC 57.644 37.037 0.00 0.00 0.00 3.01
185 187 6.708054 GTGATGTCCTCCATGGTATTTAAGAG 59.292 42.308 12.58 0.00 37.07 2.85
228 230 9.167311 GAAAGTTTATCATGAGGTGATGTAAGT 57.833 33.333 0.09 0.00 46.85 2.24
314 5472 1.079875 GTTTCCATGCGCATTGCCAG 61.080 55.000 22.81 9.09 45.60 4.85
387 5545 7.765360 TCATGAAGCACTCAACAAGAAAATTTT 59.235 29.630 2.28 2.28 37.67 1.82
389 5547 6.698766 GTCATGAAGCACTCAACAAGAAAATT 59.301 34.615 0.00 0.00 37.67 1.82
547 5746 9.513906 GGAAATTAAATTTGGAAATTGGGAAGA 57.486 29.630 0.00 0.00 38.53 2.87
549 5748 9.072375 GTGGAAATTAAATTTGGAAATTGGGAA 57.928 29.630 0.00 0.00 38.53 3.97
616 6106 0.250553 TGGACCAATCGGGACACAAC 60.251 55.000 0.00 0.00 41.15 3.32
716 6209 2.020131 CTTGGATGGTGCGATCTGC 58.980 57.895 3.07 3.07 46.70 4.26
788 6281 4.176752 GGAGGGGGTGTGATCCGC 62.177 72.222 0.00 0.00 39.30 5.54
838 6331 1.865106 GGATCTAGGAGGGAGGGCT 59.135 63.158 0.00 0.00 0.00 5.19
1005 15821 2.443203 TCGCCGCTATTCCTCCCA 60.443 61.111 0.00 0.00 0.00 4.37
1014 15830 3.411418 CTTCTTCCGCTCGCCGCTA 62.411 63.158 0.00 0.00 36.13 4.26
1045 15861 2.997897 GAGTCCAGCCCTCGTGGT 60.998 66.667 2.33 0.00 36.37 4.16
1085 15901 1.218230 GCCCTTCTTCAGATAGCGCG 61.218 60.000 0.00 0.00 0.00 6.86
1095 15911 3.737824 GCATAGCGGCCCTTCTTC 58.262 61.111 0.00 0.00 0.00 2.87
1192 18071 0.385751 GCAGGAATGGACGAGATCGA 59.614 55.000 9.58 0.00 43.02 3.59
1456 18337 4.937620 TCTGTTTGAAGTTGCTATGCTAGG 59.062 41.667 0.00 0.00 0.00 3.02
1672 18585 5.221521 TGCATTATGATCCAGTAGACCACTC 60.222 44.000 0.00 0.00 34.26 3.51
1913 21979 8.978874 TCACTGAAATGCATGTACCTTATATT 57.021 30.769 0.00 0.00 0.00 1.28
1974 22040 3.812053 GCTGGATCGTGCTAAAATCTGAT 59.188 43.478 1.91 0.00 0.00 2.90
2077 22146 3.385433 GGTTTCTCCCCCTTTTCGAAAAA 59.615 43.478 22.67 8.11 0.00 1.94
2092 22161 2.269241 CAGAGGCCGGGGTTTCTC 59.731 66.667 2.18 0.00 0.00 2.87
2093 22162 4.035102 GCAGAGGCCGGGGTTTCT 62.035 66.667 2.18 0.00 0.00 2.52
2094 22163 3.645268 ATGCAGAGGCCGGGGTTTC 62.645 63.158 2.18 0.00 40.13 2.78
2098 22167 4.559063 CTGATGCAGAGGCCGGGG 62.559 72.222 2.18 0.00 40.13 5.73
2100 22169 4.478371 TGCTGATGCAGAGGCCGG 62.478 66.667 0.00 0.00 45.31 6.13
2111 22180 1.224069 GCCGTATGCATCGTGCTGAT 61.224 55.000 0.19 1.32 45.31 2.90
2112 22181 1.882625 GCCGTATGCATCGTGCTGA 60.883 57.895 0.19 0.00 45.31 4.26
2113 22182 2.628106 GCCGTATGCATCGTGCTG 59.372 61.111 0.19 0.00 45.31 4.41
2115 22184 3.649986 GGGCCGTATGCATCGTGC 61.650 66.667 0.19 11.83 45.29 5.34
2116 22185 1.956170 GAGGGCCGTATGCATCGTG 60.956 63.158 0.19 3.01 43.89 4.35
2117 22186 1.686325 AAGAGGGCCGTATGCATCGT 61.686 55.000 0.19 0.00 43.89 3.73
2118 22187 0.317160 TAAGAGGGCCGTATGCATCG 59.683 55.000 0.19 7.03 43.89 3.84
2119 22188 2.770164 ATAAGAGGGCCGTATGCATC 57.230 50.000 0.19 0.00 43.89 3.91
2120 22189 4.634012 TTAATAAGAGGGCCGTATGCAT 57.366 40.909 3.79 3.79 43.89 3.96
2121 22190 4.634012 ATTAATAAGAGGGCCGTATGCA 57.366 40.909 0.00 0.00 43.89 3.96
2122 22191 7.389607 TCTTTTATTAATAAGAGGGCCGTATGC 59.610 37.037 20.05 0.00 40.16 3.14
2123 22192 8.842358 TCTTTTATTAATAAGAGGGCCGTATG 57.158 34.615 20.05 3.02 0.00 2.39
2125 22194 8.488668 ACTTCTTTTATTAATAAGAGGGCCGTA 58.511 33.333 20.05 3.30 33.28 4.02
2127 22196 7.803279 ACTTCTTTTATTAATAAGAGGGCCG 57.197 36.000 20.05 11.51 33.28 6.13
2128 22197 9.848710 ACTACTTCTTTTATTAATAAGAGGGCC 57.151 33.333 20.05 0.00 33.28 5.80
2138 22207 8.519526 CCATGTTGGCACTACTTCTTTTATTAA 58.480 33.333 0.00 0.00 0.00 1.40
2139 22208 7.668052 ACCATGTTGGCACTACTTCTTTTATTA 59.332 33.333 0.00 0.00 42.67 0.98
2140 22209 6.493458 ACCATGTTGGCACTACTTCTTTTATT 59.507 34.615 0.00 0.00 42.67 1.40
2141 22210 6.010219 ACCATGTTGGCACTACTTCTTTTAT 58.990 36.000 0.00 0.00 42.67 1.40
2142 22211 5.381757 ACCATGTTGGCACTACTTCTTTTA 58.618 37.500 0.00 0.00 42.67 1.52
2143 22212 4.215109 ACCATGTTGGCACTACTTCTTTT 58.785 39.130 0.00 0.00 42.67 2.27
2144 22213 3.832527 ACCATGTTGGCACTACTTCTTT 58.167 40.909 0.00 0.00 42.67 2.52
2145 22214 3.508845 ACCATGTTGGCACTACTTCTT 57.491 42.857 0.00 0.00 42.67 2.52
2146 22215 3.412386 GAACCATGTTGGCACTACTTCT 58.588 45.455 0.00 0.00 42.67 2.85
2147 22216 2.488153 GGAACCATGTTGGCACTACTTC 59.512 50.000 0.00 0.00 42.67 3.01
2148 22217 2.158534 TGGAACCATGTTGGCACTACTT 60.159 45.455 0.00 0.00 42.67 2.24
2149 22218 1.423541 TGGAACCATGTTGGCACTACT 59.576 47.619 0.00 0.00 42.67 2.57
2150 22219 1.904287 TGGAACCATGTTGGCACTAC 58.096 50.000 0.00 0.00 42.67 2.73
2151 22220 2.666272 TTGGAACCATGTTGGCACTA 57.334 45.000 0.00 0.00 42.67 2.74
2152 22221 1.619827 CATTGGAACCATGTTGGCACT 59.380 47.619 0.00 0.00 42.67 4.40
2153 22222 1.338011 CCATTGGAACCATGTTGGCAC 60.338 52.381 0.00 0.00 42.67 5.01
2154 22223 0.975135 CCATTGGAACCATGTTGGCA 59.025 50.000 0.00 0.00 42.67 4.92
2155 22224 0.975887 ACCATTGGAACCATGTTGGC 59.024 50.000 10.37 0.00 42.67 4.52
2156 22225 1.202114 CGACCATTGGAACCATGTTGG 59.798 52.381 10.37 12.99 45.02 3.77
2157 22226 1.885887 ACGACCATTGGAACCATGTTG 59.114 47.619 10.37 0.35 0.00 3.33
2158 22227 2.286365 ACGACCATTGGAACCATGTT 57.714 45.000 10.37 0.00 0.00 2.71
2159 22228 3.426787 TTACGACCATTGGAACCATGT 57.573 42.857 10.37 1.15 0.00 3.21
2160 22229 4.775058 TTTTACGACCATTGGAACCATG 57.225 40.909 10.37 0.00 0.00 3.66
2179 22248 7.391148 TCTGTGTGAGCTTTTTCTACTTTTT 57.609 32.000 0.00 0.00 0.00 1.94
2180 22249 7.020914 CTCTGTGTGAGCTTTTTCTACTTTT 57.979 36.000 0.00 0.00 35.84 2.27
2181 22250 6.610741 CTCTGTGTGAGCTTTTTCTACTTT 57.389 37.500 0.00 0.00 35.84 2.66
2194 22263 4.616835 GCCTTTTTATTGGCTCTGTGTGAG 60.617 45.833 0.00 0.00 45.26 3.51
2195 22264 3.255642 GCCTTTTTATTGGCTCTGTGTGA 59.744 43.478 0.00 0.00 45.26 3.58
2196 22265 3.578688 GCCTTTTTATTGGCTCTGTGTG 58.421 45.455 0.00 0.00 45.26 3.82
2197 22266 3.942130 GCCTTTTTATTGGCTCTGTGT 57.058 42.857 0.00 0.00 45.26 3.72
2205 22274 7.926018 AGTTGTTGTTTCTAGCCTTTTTATTGG 59.074 33.333 0.00 0.00 0.00 3.16
2209 22278 7.645402 GCTAGTTGTTGTTTCTAGCCTTTTTA 58.355 34.615 10.99 0.00 46.04 1.52
2217 22286 7.202016 TGATTTGGCTAGTTGTTGTTTCTAG 57.798 36.000 0.00 0.00 35.60 2.43
2220 22289 6.503524 TCTTGATTTGGCTAGTTGTTGTTTC 58.496 36.000 0.00 0.00 0.00 2.78
2227 22296 3.444742 TGGCATCTTGATTTGGCTAGTTG 59.555 43.478 0.00 0.00 39.04 3.16
2229 22298 3.019564 GTGGCATCTTGATTTGGCTAGT 58.980 45.455 0.00 0.00 39.04 2.57
2230 22299 3.018856 TGTGGCATCTTGATTTGGCTAG 58.981 45.455 0.00 0.00 39.04 3.42
2231 22300 3.084536 TGTGGCATCTTGATTTGGCTA 57.915 42.857 0.00 0.00 39.04 3.93
2233 22302 2.340337 GTTGTGGCATCTTGATTTGGC 58.660 47.619 0.00 0.00 38.77 4.52
2234 22303 2.671914 CGGTTGTGGCATCTTGATTTGG 60.672 50.000 0.00 0.00 0.00 3.28
2235 22304 2.598589 CGGTTGTGGCATCTTGATTTG 58.401 47.619 0.00 0.00 0.00 2.32
2236 22305 1.545582 CCGGTTGTGGCATCTTGATTT 59.454 47.619 0.00 0.00 0.00 2.17
2239 22308 4.395519 CCGGTTGTGGCATCTTGA 57.604 55.556 0.00 0.00 0.00 3.02
2247 22316 1.228306 TTTACCCAGCCGGTTGTGG 60.228 57.895 17.69 18.73 45.36 4.17
2248 22317 0.536460 ACTTTACCCAGCCGGTTGTG 60.536 55.000 17.69 8.55 45.36 3.33
2250 22319 1.276989 TCTACTTTACCCAGCCGGTTG 59.723 52.381 11.98 11.98 45.36 3.77
2251 22320 1.648116 TCTACTTTACCCAGCCGGTT 58.352 50.000 1.90 0.00 45.36 4.44
2253 22322 2.299297 CCTATCTACTTTACCCAGCCGG 59.701 54.545 0.00 0.00 37.81 6.13
2254 22323 3.228453 TCCTATCTACTTTACCCAGCCG 58.772 50.000 0.00 0.00 0.00 5.52
2255 22324 4.407945 TGTTCCTATCTACTTTACCCAGCC 59.592 45.833 0.00 0.00 0.00 4.85
2256 22325 5.128991 AGTGTTCCTATCTACTTTACCCAGC 59.871 44.000 0.00 0.00 0.00 4.85
2257 22326 6.793505 AGTGTTCCTATCTACTTTACCCAG 57.206 41.667 0.00 0.00 0.00 4.45
2258 22327 8.669055 TTTAGTGTTCCTATCTACTTTACCCA 57.331 34.615 0.00 0.00 0.00 4.51
2259 22328 9.543783 CATTTAGTGTTCCTATCTACTTTACCC 57.456 37.037 0.00 0.00 0.00 3.69
2260 22329 9.043079 GCATTTAGTGTTCCTATCTACTTTACC 57.957 37.037 0.00 0.00 0.00 2.85
2261 22330 9.043079 GGCATTTAGTGTTCCTATCTACTTTAC 57.957 37.037 0.00 0.00 0.00 2.01
2262 22331 8.989131 AGGCATTTAGTGTTCCTATCTACTTTA 58.011 33.333 0.00 0.00 0.00 1.85
2263 22332 7.862675 AGGCATTTAGTGTTCCTATCTACTTT 58.137 34.615 0.00 0.00 0.00 2.66
2264 22333 7.439108 AGGCATTTAGTGTTCCTATCTACTT 57.561 36.000 0.00 0.00 0.00 2.24
2266 22335 8.989653 GATAGGCATTTAGTGTTCCTATCTAC 57.010 38.462 15.58 0.00 46.10 2.59
2271 22340 8.506196 AATAGGATAGGCATTTAGTGTTCCTA 57.494 34.615 0.00 0.00 38.56 2.94
2273 22342 8.154856 TGTAATAGGATAGGCATTTAGTGTTCC 58.845 37.037 0.00 0.00 0.00 3.62
2274 22343 9.726438 ATGTAATAGGATAGGCATTTAGTGTTC 57.274 33.333 0.00 0.00 0.00 3.18
2275 22344 9.507329 CATGTAATAGGATAGGCATTTAGTGTT 57.493 33.333 0.00 0.00 0.00 3.32
2276 22345 8.880244 TCATGTAATAGGATAGGCATTTAGTGT 58.120 33.333 0.00 0.00 0.00 3.55
2277 22346 9.155975 GTCATGTAATAGGATAGGCATTTAGTG 57.844 37.037 0.00 0.00 0.00 2.74
2278 22347 8.322091 GGTCATGTAATAGGATAGGCATTTAGT 58.678 37.037 0.00 0.00 0.00 2.24
2279 22348 7.492669 CGGTCATGTAATAGGATAGGCATTTAG 59.507 40.741 0.00 0.00 0.00 1.85
2280 22349 7.327975 CGGTCATGTAATAGGATAGGCATTTA 58.672 38.462 0.00 0.00 0.00 1.40
2281 22350 6.173339 CGGTCATGTAATAGGATAGGCATTT 58.827 40.000 0.00 0.00 0.00 2.32
2282 22351 5.734720 CGGTCATGTAATAGGATAGGCATT 58.265 41.667 0.00 0.00 0.00 3.56
2283 22352 4.383118 GCGGTCATGTAATAGGATAGGCAT 60.383 45.833 0.00 0.00 0.00 4.40
2285 22354 3.522553 GCGGTCATGTAATAGGATAGGC 58.477 50.000 0.00 0.00 0.00 3.93
2287 22356 4.801330 TGGCGGTCATGTAATAGGATAG 57.199 45.455 0.00 0.00 0.00 2.08
2288 22357 4.161565 GGATGGCGGTCATGTAATAGGATA 59.838 45.833 0.00 0.00 35.97 2.59
2289 22358 3.055094 GGATGGCGGTCATGTAATAGGAT 60.055 47.826 0.00 0.00 35.97 3.24
2290 22359 2.301870 GGATGGCGGTCATGTAATAGGA 59.698 50.000 0.00 0.00 35.97 2.94
2292 22361 3.401033 TGGATGGCGGTCATGTAATAG 57.599 47.619 0.00 0.00 35.97 1.73
2293 22362 3.847671 TTGGATGGCGGTCATGTAATA 57.152 42.857 0.00 0.00 35.97 0.98
2294 22363 2.687935 GTTTGGATGGCGGTCATGTAAT 59.312 45.455 0.00 0.00 35.97 1.89
2296 22365 1.680555 GGTTTGGATGGCGGTCATGTA 60.681 52.381 0.00 0.00 35.97 2.29
2297 22366 0.965363 GGTTTGGATGGCGGTCATGT 60.965 55.000 0.00 0.00 35.97 3.21
2298 22367 1.809207 GGTTTGGATGGCGGTCATG 59.191 57.895 0.00 0.00 35.97 3.07
2300 22369 2.359354 CGGTTTGGATGGCGGTCA 60.359 61.111 0.00 0.00 0.00 4.02
2301 22370 3.131478 CCGGTTTGGATGGCGGTC 61.131 66.667 0.00 0.00 42.00 4.79
2302 22371 3.501040 AACCGGTTTGGATGGCGGT 62.501 57.895 15.86 0.00 42.00 5.68
2303 22372 2.675075 AACCGGTTTGGATGGCGG 60.675 61.111 15.86 0.00 42.00 6.13
2304 22373 1.519751 TTCAACCGGTTTGGATGGCG 61.520 55.000 19.55 3.62 40.78 5.69
2307 22376 4.275936 GGATATCTTCAACCGGTTTGGATG 59.724 45.833 19.55 14.79 41.73 3.51
2308 22377 4.461198 GGATATCTTCAACCGGTTTGGAT 58.539 43.478 19.55 21.16 42.00 3.41
2309 22378 3.371166 GGGATATCTTCAACCGGTTTGGA 60.371 47.826 19.55 15.86 42.00 3.53
2311 22380 2.612212 CGGGATATCTTCAACCGGTTTG 59.388 50.000 19.55 13.53 40.79 2.93
2312 22381 2.502538 TCGGGATATCTTCAACCGGTTT 59.497 45.455 19.55 5.23 44.36 3.27
2315 22384 1.605712 GCTCGGGATATCTTCAACCGG 60.606 57.143 14.77 0.00 44.36 5.28
2316 22385 1.341531 AGCTCGGGATATCTTCAACCG 59.658 52.381 10.16 10.16 45.52 4.44
2317 22386 3.306156 GGTAGCTCGGGATATCTTCAACC 60.306 52.174 2.05 0.00 0.00 3.77
2319 22388 3.572642 TGGTAGCTCGGGATATCTTCAA 58.427 45.455 2.05 0.00 0.00 2.69
2320 22389 3.238788 TGGTAGCTCGGGATATCTTCA 57.761 47.619 2.05 0.00 0.00 3.02
2321 22390 4.020543 AGATGGTAGCTCGGGATATCTTC 58.979 47.826 2.05 0.00 0.00 2.87
2322 22391 4.020543 GAGATGGTAGCTCGGGATATCTT 58.979 47.826 2.05 0.00 0.00 2.40
2323 22392 3.626222 GGAGATGGTAGCTCGGGATATCT 60.626 52.174 2.05 0.00 33.19 1.98
2324 22393 2.691011 GGAGATGGTAGCTCGGGATATC 59.309 54.545 0.00 0.00 33.19 1.63
2325 22394 2.624557 GGGAGATGGTAGCTCGGGATAT 60.625 54.545 0.00 0.00 33.19 1.63
2326 22395 1.272536 GGGAGATGGTAGCTCGGGATA 60.273 57.143 0.00 0.00 33.19 2.59
2327 22396 0.543174 GGGAGATGGTAGCTCGGGAT 60.543 60.000 0.00 0.00 33.19 3.85
2328 22397 1.152525 GGGAGATGGTAGCTCGGGA 60.153 63.158 0.00 0.00 33.19 5.14
2329 22398 1.457643 TGGGAGATGGTAGCTCGGG 60.458 63.158 0.00 0.00 33.19 5.14
2330 22399 2.045280 CTGGGAGATGGTAGCTCGG 58.955 63.158 0.00 0.00 33.19 4.63
2331 22400 1.365633 GCTGGGAGATGGTAGCTCG 59.634 63.158 0.00 0.00 33.19 5.03
2332 22401 1.365633 CGCTGGGAGATGGTAGCTC 59.634 63.158 0.00 0.00 34.13 4.09
2333 22402 2.136878 CCGCTGGGAGATGGTAGCT 61.137 63.158 0.00 0.00 34.13 3.32
2334 22403 2.134287 TCCGCTGGGAGATGGTAGC 61.134 63.158 0.00 0.00 37.43 3.58
2335 22404 1.043116 TGTCCGCTGGGAGATGGTAG 61.043 60.000 0.00 0.00 44.97 3.18
2336 22405 1.001120 TGTCCGCTGGGAGATGGTA 59.999 57.895 0.00 0.00 44.97 3.25
2338 22407 2.060383 TCTGTCCGCTGGGAGATGG 61.060 63.158 0.00 0.00 44.97 3.51
2340 22409 2.060980 GGTCTGTCCGCTGGGAGAT 61.061 63.158 0.00 0.00 44.97 2.75
2341 22410 2.680352 GGTCTGTCCGCTGGGAGA 60.680 66.667 0.00 0.00 44.97 3.71
2342 22411 3.775654 GGGTCTGTCCGCTGGGAG 61.776 72.222 0.00 0.00 44.97 4.30
2343 22412 4.631740 TGGGTCTGTCCGCTGGGA 62.632 66.667 0.00 0.00 41.08 4.37
2344 22413 4.087892 CTGGGTCTGTCCGCTGGG 62.088 72.222 0.00 0.00 37.00 4.45
2345 22414 1.541310 TTACTGGGTCTGTCCGCTGG 61.541 60.000 0.00 0.00 37.00 4.85
2348 22417 1.079336 GGTTACTGGGTCTGTCCGC 60.079 63.158 0.00 0.00 37.00 5.54
2349 22418 0.682852 TTGGTTACTGGGTCTGTCCG 59.317 55.000 0.00 0.00 37.00 4.79
2350 22419 2.943036 TTTGGTTACTGGGTCTGTCC 57.057 50.000 0.00 0.00 0.00 4.02
2351 22420 2.488153 GCATTTGGTTACTGGGTCTGTC 59.512 50.000 0.00 0.00 0.00 3.51
2352 22421 2.108250 AGCATTTGGTTACTGGGTCTGT 59.892 45.455 0.00 0.00 0.00 3.41
2353 22422 2.749621 GAGCATTTGGTTACTGGGTCTG 59.250 50.000 0.00 0.00 0.00 3.51
2354 22423 2.290960 GGAGCATTTGGTTACTGGGTCT 60.291 50.000 0.00 0.00 0.00 3.85
2356 22425 1.272480 GGGAGCATTTGGTTACTGGGT 60.272 52.381 0.00 0.00 0.00 4.51
2357 22426 1.005924 AGGGAGCATTTGGTTACTGGG 59.994 52.381 0.00 0.00 0.00 4.45
2360 22429 1.616994 GCCAGGGAGCATTTGGTTACT 60.617 52.381 0.00 0.00 34.43 2.24
2363 22432 1.610379 GGCCAGGGAGCATTTGGTT 60.610 57.895 0.00 0.00 34.43 3.67
2364 22433 2.037847 GGCCAGGGAGCATTTGGT 59.962 61.111 0.00 0.00 34.43 3.67
2365 22434 1.755783 GAGGCCAGGGAGCATTTGG 60.756 63.158 5.01 0.00 35.06 3.28
2366 22435 1.755783 GGAGGCCAGGGAGCATTTG 60.756 63.158 5.01 0.00 0.00 2.32
2367 22436 2.685999 GGAGGCCAGGGAGCATTT 59.314 61.111 5.01 0.00 0.00 2.32
2372 22441 3.465403 CAGACGGAGGCCAGGGAG 61.465 72.222 5.01 0.00 0.00 4.30
2377 22446 4.631740 TCACCCAGACGGAGGCCA 62.632 66.667 5.01 0.00 34.64 5.36
2378 22447 3.775654 CTCACCCAGACGGAGGCC 61.776 72.222 0.00 0.00 34.64 5.19
2379 22448 2.997897 ACTCACCCAGACGGAGGC 60.998 66.667 0.00 0.00 34.64 4.70
2381 22450 2.973899 CCACTCACCCAGACGGAG 59.026 66.667 0.00 0.00 34.64 4.63
2382 22451 3.311110 GCCACTCACCCAGACGGA 61.311 66.667 0.00 0.00 34.64 4.69
2384 22453 3.680786 TCGCCACTCACCCAGACG 61.681 66.667 0.00 0.00 0.00 4.18
2385 22454 2.048127 GTCGCCACTCACCCAGAC 60.048 66.667 0.00 0.00 0.00 3.51
2387 22456 3.625897 TGGTCGCCACTCACCCAG 61.626 66.667 0.00 0.00 0.00 4.45
2396 22465 1.735198 GATTCGTTCGTGGTCGCCA 60.735 57.895 0.00 0.00 36.96 5.69
2397 22466 1.286354 TTGATTCGTTCGTGGTCGCC 61.286 55.000 0.00 0.00 36.96 5.54
2398 22467 0.719465 ATTGATTCGTTCGTGGTCGC 59.281 50.000 0.00 0.00 36.96 5.19
2401 22470 0.802494 GGCATTGATTCGTTCGTGGT 59.198 50.000 0.00 0.00 0.00 4.16
2402 22471 0.247655 CGGCATTGATTCGTTCGTGG 60.248 55.000 0.00 0.00 0.00 4.94
2403 22472 0.442310 ACGGCATTGATTCGTTCGTG 59.558 50.000 0.00 0.00 32.95 4.35
2404 22473 1.924524 CTACGGCATTGATTCGTTCGT 59.075 47.619 5.70 0.00 38.19 3.85
2405 22474 1.924524 ACTACGGCATTGATTCGTTCG 59.075 47.619 5.70 0.00 38.19 3.95
2407 22476 2.277084 GGACTACGGCATTGATTCGTT 58.723 47.619 5.70 0.00 38.19 3.85
2408 22477 1.801395 CGGACTACGGCATTGATTCGT 60.801 52.381 0.00 0.00 39.42 3.85
2409 22478 0.852777 CGGACTACGGCATTGATTCG 59.147 55.000 0.00 0.00 39.42 3.34
2420 22489 2.606272 GCAGGTTTTATTCCGGACTACG 59.394 50.000 1.83 0.00 43.80 3.51
2421 22490 3.602483 TGCAGGTTTTATTCCGGACTAC 58.398 45.455 1.83 0.00 0.00 2.73
2423 22492 2.871096 TGCAGGTTTTATTCCGGACT 57.129 45.000 1.83 0.00 0.00 3.85
2424 22493 3.926821 TTTGCAGGTTTTATTCCGGAC 57.073 42.857 1.83 0.00 0.00 4.79
2427 22496 6.538189 ACAATTTTTGCAGGTTTTATTCCG 57.462 33.333 0.00 0.00 0.00 4.30
2433 22502 9.723601 ATCATGTATACAATTTTTGCAGGTTTT 57.276 25.926 10.14 0.00 0.00 2.43


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

AutoCloner maintained by Alex Coulton.