Multiple sequence alignment - TraesCS4A01G422600

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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 TraesCS4A01G422600 chr4A 100.000 2267 0 0 1 2267 692682054 692679788 0.000000e+00 4187.0
1 TraesCS4A01G422600 chr4A 92.982 57 4 0 1752 1808 692680348 692680292 1.440000e-12 84.2
2 TraesCS4A01G422600 chr1D 89.011 1092 87 14 950 2013 92055206 92056292 0.000000e+00 1321.0
3 TraesCS4A01G422600 chr1D 91.575 914 71 2 1 908 92054299 92055212 0.000000e+00 1256.0
4 TraesCS4A01G422600 chr2D 87.684 1088 105 16 950 2013 314479476 314478394 0.000000e+00 1240.0
5 TraesCS4A01G422600 chr2D 88.878 1025 84 12 950 1947 50977839 50976818 0.000000e+00 1234.0
6 TraesCS4A01G422600 chr2D 89.033 848 63 18 73 911 314480293 314479467 0.000000e+00 1024.0
7 TraesCS4A01G422600 chr5B 90.889 911 80 3 3 911 586297946 586297037 0.000000e+00 1219.0
8 TraesCS4A01G422600 chr5B 80.150 534 53 22 1541 2034 595180758 595180238 1.290000e-92 350.0
9 TraesCS4A01G422600 chr3D 86.929 1117 102 20 950 2035 445803463 445804566 0.000000e+00 1214.0
10 TraesCS4A01G422600 chr6D 86.702 1128 101 23 950 2035 62860278 62861398 0.000000e+00 1206.0
11 TraesCS4A01G422600 chr6D 86.343 864 73 20 1174 2010 421611652 421612497 0.000000e+00 900.0
12 TraesCS4A01G422600 chr2B 90.461 912 83 2 1 908 747523276 747524187 0.000000e+00 1199.0
13 TraesCS4A01G422600 chr2B 88.656 908 79 12 950 1836 747524181 747525085 0.000000e+00 1085.0
14 TraesCS4A01G422600 chr7D 90.393 916 77 6 1 911 411315741 411314832 0.000000e+00 1194.0
15 TraesCS4A01G422600 chr7D 88.435 1003 71 23 950 1913 411314841 411313845 0.000000e+00 1168.0
16 TraesCS4A01G422600 chr5D 86.945 1103 94 20 950 2011 452400585 452399492 0.000000e+00 1194.0
17 TraesCS4A01G422600 chr5D 86.830 1101 100 24 950 2011 517099917 517101011 0.000000e+00 1188.0
18 TraesCS4A01G422600 chr5D 86.180 1136 96 34 950 2034 522788103 522789228 0.000000e+00 1171.0
19 TraesCS4A01G422600 chr5D 90.022 912 79 5 2 908 522787205 522788109 0.000000e+00 1170.0
20 TraesCS4A01G422600 chr5D 77.149 477 66 17 1656 2097 508239999 508240467 1.050000e-58 237.0
21 TraesCS4A01G422600 chr5A 86.185 1093 109 16 950 2013 532058835 532057756 0.000000e+00 1144.0
22 TraesCS4A01G422600 chr1B 89.485 913 85 3 1 908 425364777 425365683 0.000000e+00 1144.0
23 TraesCS4A01G422600 chr1B 77.596 183 36 4 2073 2254 425601348 425601526 3.080000e-19 106.0
24 TraesCS4A01G422600 chr3B 86.093 1093 109 28 950 2013 738418770 738419848 0.000000e+00 1136.0
25 TraesCS4A01G422600 chr3B 86.774 930 112 8 1 920 213720076 213719148 0.000000e+00 1026.0
26 TraesCS4A01G422600 chr7B 88.621 914 95 5 1 907 122756935 122757846 0.000000e+00 1103.0
27 TraesCS4A01G422600 chr7B 80.709 254 18 10 1656 1879 122758556 122758808 3.870000e-38 169.0


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 TraesCS4A01G422600 chr4A 692679788 692682054 2266 True 2135.6 4187 96.4910 1 2267 2 chr4A.!!$R1 2266
1 TraesCS4A01G422600 chr1D 92054299 92056292 1993 False 1288.5 1321 90.2930 1 2013 2 chr1D.!!$F1 2012
2 TraesCS4A01G422600 chr2D 50976818 50977839 1021 True 1234.0 1234 88.8780 950 1947 1 chr2D.!!$R1 997
3 TraesCS4A01G422600 chr2D 314478394 314480293 1899 True 1132.0 1240 88.3585 73 2013 2 chr2D.!!$R2 1940
4 TraesCS4A01G422600 chr5B 586297037 586297946 909 True 1219.0 1219 90.8890 3 911 1 chr5B.!!$R1 908
5 TraesCS4A01G422600 chr5B 595180238 595180758 520 True 350.0 350 80.1500 1541 2034 1 chr5B.!!$R2 493
6 TraesCS4A01G422600 chr3D 445803463 445804566 1103 False 1214.0 1214 86.9290 950 2035 1 chr3D.!!$F1 1085
7 TraesCS4A01G422600 chr6D 62860278 62861398 1120 False 1206.0 1206 86.7020 950 2035 1 chr6D.!!$F1 1085
8 TraesCS4A01G422600 chr6D 421611652 421612497 845 False 900.0 900 86.3430 1174 2010 1 chr6D.!!$F2 836
9 TraesCS4A01G422600 chr2B 747523276 747525085 1809 False 1142.0 1199 89.5585 1 1836 2 chr2B.!!$F1 1835
10 TraesCS4A01G422600 chr7D 411313845 411315741 1896 True 1181.0 1194 89.4140 1 1913 2 chr7D.!!$R1 1912
11 TraesCS4A01G422600 chr5D 452399492 452400585 1093 True 1194.0 1194 86.9450 950 2011 1 chr5D.!!$R1 1061
12 TraesCS4A01G422600 chr5D 517099917 517101011 1094 False 1188.0 1188 86.8300 950 2011 1 chr5D.!!$F2 1061
13 TraesCS4A01G422600 chr5D 522787205 522789228 2023 False 1170.5 1171 88.1010 2 2034 2 chr5D.!!$F3 2032
14 TraesCS4A01G422600 chr5A 532057756 532058835 1079 True 1144.0 1144 86.1850 950 2013 1 chr5A.!!$R1 1063
15 TraesCS4A01G422600 chr1B 425364777 425365683 906 False 1144.0 1144 89.4850 1 908 1 chr1B.!!$F1 907
16 TraesCS4A01G422600 chr3B 738418770 738419848 1078 False 1136.0 1136 86.0930 950 2013 1 chr3B.!!$F1 1063
17 TraesCS4A01G422600 chr3B 213719148 213720076 928 True 1026.0 1026 86.7740 1 920 1 chr3B.!!$R1 919
18 TraesCS4A01G422600 chr7B 122756935 122758808 1873 False 636.0 1103 84.6650 1 1879 2 chr7B.!!$F1 1878

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
105 106 0.672401 ATGAGCCGGGTGTTACAACG 60.672 55.0 12.94 0.0 0.0 4.1 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2065 2233 0.03582 GGCCACCCTATCGACAAACA 60.036 55.0 0.0 0.0 0.0 2.83 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
23 24 5.879763 TGAGGATTGGTTGAAGAATCAAGA 58.120 37.500 0.00 0.00 45.88 3.02
24 25 6.306199 TGAGGATTGGTTGAAGAATCAAGAA 58.694 36.000 0.00 0.00 45.88 2.52
26 27 6.070656 AGGATTGGTTGAAGAATCAAGAACA 58.929 36.000 0.00 0.00 45.88 3.18
98 99 2.283529 AAGTCGATGAGCCGGGTGT 61.284 57.895 12.94 0.00 0.00 4.16
99 100 1.827399 AAGTCGATGAGCCGGGTGTT 61.827 55.000 12.94 0.00 0.00 3.32
105 106 0.672401 ATGAGCCGGGTGTTACAACG 60.672 55.000 12.94 0.00 0.00 4.10
220 221 2.819154 CGCATGTGATGACCGCCA 60.819 61.111 0.00 0.00 0.00 5.69
222 223 3.092403 CATGTGATGACCGCCACG 58.908 61.111 0.00 0.00 36.15 4.94
235 236 0.878523 CGCCACGAGGTTCAGAAACA 60.879 55.000 0.00 0.00 37.10 2.83
290 291 6.645306 TGCATGAATTCACATTGGAATGAAT 58.355 32.000 11.07 0.00 45.36 2.57
324 325 2.242452 GGCTCCTAGGTTTCATCCCTTT 59.758 50.000 9.08 0.00 33.35 3.11
331 332 4.576330 AGGTTTCATCCCTTTCTCGATT 57.424 40.909 0.00 0.00 0.00 3.34
372 373 1.291459 ATGGGCCACACATCATCCCT 61.291 55.000 9.28 0.00 37.83 4.20
374 375 1.454479 GGCCACACATCATCCCTGG 60.454 63.158 0.00 0.00 0.00 4.45
407 411 2.378547 TGGTGCCTACAAAGGGAAGAAT 59.621 45.455 0.00 0.00 46.04 2.40
480 493 0.749649 TGAAACAATTTGGCAGCGGT 59.250 45.000 0.78 0.00 0.00 5.68
496 509 1.683943 CGGTCATTTCATGGAGGCAT 58.316 50.000 0.00 0.00 0.00 4.40
517 530 4.280436 TCGGACATCAATAGTTGTGGTT 57.720 40.909 0.00 0.00 0.00 3.67
567 580 0.749649 AATGCACCAAAAAGCCACGA 59.250 45.000 0.00 0.00 0.00 4.35
580 593 1.671054 CCACGAACCGATGCCAACT 60.671 57.895 0.00 0.00 0.00 3.16
598 611 4.404640 CAACTATCCGGATCCCACTAGTA 58.595 47.826 23.08 0.00 0.00 1.82
624 637 1.562783 GTGCCTGAAGAGGAGGTACT 58.437 55.000 0.00 0.00 42.93 2.73
679 692 3.039011 GGAGGACAAGGAGGCAGTATTA 58.961 50.000 0.00 0.00 0.00 0.98
692 705 2.634940 GCAGTATTAGAGGGCATGGAGA 59.365 50.000 0.00 0.00 0.00 3.71
989 1015 9.308318 TCTTACTTTGCTAACAACCAAATTTTC 57.692 29.630 0.00 0.00 34.87 2.29
993 1019 7.279981 ACTTTGCTAACAACCAAATTTTCCTTC 59.720 33.333 0.00 0.00 34.87 3.46
1026 1052 1.134401 TCTTCCGGTTCCATGATGAGC 60.134 52.381 0.00 0.00 0.00 4.26
1137 1164 2.305928 TGTTGGTGTGGAGATGTTTGG 58.694 47.619 0.00 0.00 0.00 3.28
1219 1246 6.126623 TGTTTGTCCCAACTATGCCTATGATA 60.127 38.462 0.00 0.00 0.00 2.15
1220 1247 6.508030 TTGTCCCAACTATGCCTATGATAA 57.492 37.500 0.00 0.00 0.00 1.75
1434 1462 9.730705 AAAGATCAACATCAAGATTGTCTAAGA 57.269 29.630 0.00 0.00 0.00 2.10
1451 1479 1.007387 GAAGGCAGCGGTTGTTTGG 60.007 57.895 0.00 0.00 0.00 3.28
1521 1549 1.442769 TGGAGCGAAAGAAGCATGAC 58.557 50.000 0.00 0.00 37.01 3.06
1536 1564 3.063084 GACGAGGAGAGGGCACGT 61.063 66.667 0.00 0.00 39.82 4.49
1539 1567 0.683504 ACGAGGAGAGGGCACGTAAT 60.684 55.000 0.00 0.00 35.49 1.89
1569 1599 2.665165 TCTCATGAAGAGGAGAGAGCC 58.335 52.381 0.00 0.00 44.81 4.70
1626 1657 0.391661 ATGAGGCACGCGACAAGAAT 60.392 50.000 15.93 0.00 0.00 2.40
1700 1763 4.118093 TGAACTATGCCTTCGATTCGAA 57.882 40.909 19.51 19.51 43.75 3.71
1725 1788 7.440523 AAACCTGTGATGAACTATGTCTTTC 57.559 36.000 0.00 0.00 0.00 2.62
1742 1805 5.576384 TGTCTTTCATTTGTGAAACTTGTGC 59.424 36.000 0.00 0.00 38.04 4.57
1747 1810 5.718146 TCATTTGTGAAACTTGTGCTGAAA 58.282 33.333 0.00 0.00 38.04 2.69
1748 1811 5.576384 TCATTTGTGAAACTTGTGCTGAAAC 59.424 36.000 0.00 0.00 38.04 2.78
1749 1812 4.782019 TTGTGAAACTTGTGCTGAAACT 57.218 36.364 0.00 0.00 38.04 2.66
1767 1849 7.278646 GCTGAAACTATGTCATGAACTATGTCA 59.721 37.037 0.00 0.00 38.77 3.58
1770 1852 9.317936 GAAACTATGTCATGAACTATGTCATCA 57.682 33.333 0.00 0.00 42.14 3.07
1787 1878 5.519566 TGTCATCAATTTGTGAAACTTGTGC 59.480 36.000 0.00 0.00 40.50 4.57
1825 1924 4.305989 ACTACATTTGTTGTGCTGTTGG 57.694 40.909 0.00 0.00 39.48 3.77
1960 2128 1.087771 CCGGTAGGGTGTCGAAATGC 61.088 60.000 0.00 0.00 0.00 3.56
1961 2129 0.390603 CGGTAGGGTGTCGAAATGCA 60.391 55.000 0.00 0.00 0.00 3.96
1964 2132 2.423577 GTAGGGTGTCGAAATGCACTT 58.576 47.619 0.00 0.00 36.03 3.16
1998 2166 0.251165 CCCTGTTTGGTGGTAGGGTG 60.251 60.000 0.00 0.00 43.96 4.61
2043 2211 3.509659 GGTAGGGTGCCGAAATGC 58.490 61.111 0.00 0.00 0.00 3.56
2044 2212 1.377987 GGTAGGGTGCCGAAATGCA 60.378 57.895 0.00 0.00 39.37 3.96
2051 2219 3.790744 TGCCGAAATGCACAATGAC 57.209 47.368 0.00 0.00 36.04 3.06
2052 2220 0.109827 TGCCGAAATGCACAATGACG 60.110 50.000 0.00 0.00 36.04 4.35
2053 2221 0.167908 GCCGAAATGCACAATGACGA 59.832 50.000 0.00 0.00 0.00 4.20
2054 2222 1.400888 GCCGAAATGCACAATGACGAA 60.401 47.619 0.00 0.00 0.00 3.85
2055 2223 2.920227 GCCGAAATGCACAATGACGAAA 60.920 45.455 0.00 0.00 0.00 3.46
2056 2224 3.304257 CCGAAATGCACAATGACGAAAA 58.696 40.909 0.00 0.00 0.00 2.29
2057 2225 3.919804 CCGAAATGCACAATGACGAAAAT 59.080 39.130 0.00 0.00 0.00 1.82
2058 2226 4.201513 CCGAAATGCACAATGACGAAAATG 60.202 41.667 0.00 0.00 0.00 2.32
2059 2227 4.631036 GAAATGCACAATGACGAAAATGC 58.369 39.130 0.00 0.00 0.00 3.56
2060 2228 3.581024 ATGCACAATGACGAAAATGCT 57.419 38.095 0.00 0.00 34.18 3.79
2061 2229 2.932498 TGCACAATGACGAAAATGCTC 58.068 42.857 0.00 0.00 34.18 4.26
2062 2230 2.253603 GCACAATGACGAAAATGCTCC 58.746 47.619 0.00 0.00 0.00 4.70
2063 2231 2.867429 CACAATGACGAAAATGCTCCC 58.133 47.619 0.00 0.00 0.00 4.30
2064 2232 1.818674 ACAATGACGAAAATGCTCCCC 59.181 47.619 0.00 0.00 0.00 4.81
2065 2233 2.094675 CAATGACGAAAATGCTCCCCT 58.905 47.619 0.00 0.00 0.00 4.79
2066 2234 1.755179 ATGACGAAAATGCTCCCCTG 58.245 50.000 0.00 0.00 0.00 4.45
2067 2235 0.400213 TGACGAAAATGCTCCCCTGT 59.600 50.000 0.00 0.00 0.00 4.00
2068 2236 1.202879 TGACGAAAATGCTCCCCTGTT 60.203 47.619 0.00 0.00 0.00 3.16
2069 2237 1.886542 GACGAAAATGCTCCCCTGTTT 59.113 47.619 0.00 0.00 0.00 2.83
2070 2238 1.613437 ACGAAAATGCTCCCCTGTTTG 59.387 47.619 0.00 0.00 0.00 2.93
2071 2239 1.613437 CGAAAATGCTCCCCTGTTTGT 59.387 47.619 0.00 0.00 0.00 2.83
2072 2240 2.351738 CGAAAATGCTCCCCTGTTTGTC 60.352 50.000 0.00 0.00 0.00 3.18
2073 2241 1.247567 AAATGCTCCCCTGTTTGTCG 58.752 50.000 0.00 0.00 0.00 4.35
2074 2242 0.400213 AATGCTCCCCTGTTTGTCGA 59.600 50.000 0.00 0.00 0.00 4.20
2075 2243 0.620556 ATGCTCCCCTGTTTGTCGAT 59.379 50.000 0.00 0.00 0.00 3.59
2076 2244 1.271856 TGCTCCCCTGTTTGTCGATA 58.728 50.000 0.00 0.00 0.00 2.92
2077 2245 1.207089 TGCTCCCCTGTTTGTCGATAG 59.793 52.381 0.00 0.00 0.00 2.08
2078 2246 1.473434 GCTCCCCTGTTTGTCGATAGG 60.473 57.143 0.00 0.00 0.00 2.57
2080 2248 0.909623 CCCCTGTTTGTCGATAGGGT 59.090 55.000 15.75 0.00 46.89 4.34
2081 2249 1.406887 CCCCTGTTTGTCGATAGGGTG 60.407 57.143 15.75 7.69 46.89 4.61
2082 2250 1.406887 CCCTGTTTGTCGATAGGGTGG 60.407 57.143 11.33 1.89 43.96 4.61
2083 2251 1.369625 CTGTTTGTCGATAGGGTGGC 58.630 55.000 0.00 0.00 0.00 5.01
2084 2252 0.035820 TGTTTGTCGATAGGGTGGCC 60.036 55.000 0.00 0.00 0.00 5.36
2085 2253 0.035820 GTTTGTCGATAGGGTGGCCA 60.036 55.000 0.00 0.00 0.00 5.36
2086 2254 0.035820 TTTGTCGATAGGGTGGCCAC 60.036 55.000 28.57 28.57 0.00 5.01
2098 2266 3.165685 GGCCACCCTACCGCCATA 61.166 66.667 0.00 0.00 42.52 2.74
2099 2267 2.426023 GCCACCCTACCGCCATAG 59.574 66.667 0.00 0.00 0.00 2.23
2100 2268 2.426023 CCACCCTACCGCCATAGC 59.574 66.667 0.00 0.00 0.00 2.97
2101 2269 2.426023 CACCCTACCGCCATAGCC 59.574 66.667 0.00 0.00 34.57 3.93
2102 2270 3.231736 ACCCTACCGCCATAGCCG 61.232 66.667 0.00 0.00 34.57 5.52
2103 2271 2.915659 CCCTACCGCCATAGCCGA 60.916 66.667 0.00 0.00 34.57 5.54
2104 2272 2.338984 CCTACCGCCATAGCCGAC 59.661 66.667 0.00 0.00 34.57 4.79
2105 2273 2.495409 CCTACCGCCATAGCCGACA 61.495 63.158 0.00 0.00 34.57 4.35
2106 2274 1.007271 CTACCGCCATAGCCGACAG 60.007 63.158 0.00 0.00 34.57 3.51
2107 2275 3.146726 TACCGCCATAGCCGACAGC 62.147 63.158 0.00 0.00 44.25 4.40
2131 2299 2.361230 GTTGGCCAGCCTACCACC 60.361 66.667 8.70 0.00 36.16 4.61
2132 2300 4.028490 TTGGCCAGCCTACCACCG 62.028 66.667 5.11 0.00 35.10 4.94
2134 2302 4.162690 GGCCAGCCTACCACCGAG 62.163 72.222 0.00 0.00 0.00 4.63
2135 2303 4.162690 GCCAGCCTACCACCGAGG 62.163 72.222 0.00 0.00 45.67 4.63
2144 2312 4.157817 CCACCGAGGTTTACGACG 57.842 61.111 0.00 0.00 0.00 5.12
2145 2313 1.444895 CCACCGAGGTTTACGACGG 60.445 63.158 0.00 0.00 44.72 4.79
2146 2314 3.763671 ACCGAGGTTTACGACGGT 58.236 55.556 13.34 13.34 46.17 4.83
2148 2316 3.611433 CCGAGGTTTACGACGGTAG 57.389 57.895 0.00 0.00 38.43 3.18
2149 2317 0.099436 CCGAGGTTTACGACGGTAGG 59.901 60.000 0.00 0.00 38.43 3.18
2150 2318 0.099436 CGAGGTTTACGACGGTAGGG 59.901 60.000 0.00 0.00 0.00 3.53
2151 2319 0.179127 GAGGTTTACGACGGTAGGGC 60.179 60.000 0.00 0.00 0.00 5.19
2152 2320 0.613012 AGGTTTACGACGGTAGGGCT 60.613 55.000 0.00 0.00 0.00 5.19
2153 2321 0.459063 GGTTTACGACGGTAGGGCTG 60.459 60.000 0.00 0.00 0.00 4.85
2154 2322 0.459063 GTTTACGACGGTAGGGCTGG 60.459 60.000 0.00 0.00 0.00 4.85
2155 2323 0.899717 TTTACGACGGTAGGGCTGGT 60.900 55.000 0.00 0.00 0.00 4.00
2156 2324 1.315257 TTACGACGGTAGGGCTGGTC 61.315 60.000 0.00 0.00 0.00 4.02
2157 2325 2.482796 TACGACGGTAGGGCTGGTCA 62.483 60.000 0.00 0.00 0.00 4.02
2158 2326 2.577593 GACGGTAGGGCTGGTCAC 59.422 66.667 0.00 0.00 0.00 3.67
2159 2327 3.001406 ACGGTAGGGCTGGTCACC 61.001 66.667 0.00 0.00 0.00 4.02
2165 2333 3.490851 GGGCTGGTCACCCTACAA 58.509 61.111 0.00 0.00 44.68 2.41
2166 2334 1.002502 GGGCTGGTCACCCTACAAC 60.003 63.158 0.00 0.00 44.68 3.32
2167 2335 1.002502 GGCTGGTCACCCTACAACC 60.003 63.158 0.00 0.00 0.00 3.77
2168 2336 1.489560 GGCTGGTCACCCTACAACCT 61.490 60.000 0.00 0.00 34.05 3.50
2169 2337 1.272807 GCTGGTCACCCTACAACCTA 58.727 55.000 0.00 0.00 34.05 3.08
2170 2338 1.838077 GCTGGTCACCCTACAACCTAT 59.162 52.381 0.00 0.00 34.05 2.57
2171 2339 2.238898 GCTGGTCACCCTACAACCTATT 59.761 50.000 0.00 0.00 34.05 1.73
2172 2340 3.681874 GCTGGTCACCCTACAACCTATTC 60.682 52.174 0.00 0.00 34.05 1.75
2173 2341 3.775316 CTGGTCACCCTACAACCTATTCT 59.225 47.826 0.00 0.00 34.05 2.40
2174 2342 3.517901 TGGTCACCCTACAACCTATTCTG 59.482 47.826 0.00 0.00 34.05 3.02
2175 2343 3.518303 GGTCACCCTACAACCTATTCTGT 59.482 47.826 0.00 0.00 0.00 3.41
2176 2344 4.019591 GGTCACCCTACAACCTATTCTGTT 60.020 45.833 0.00 0.00 0.00 3.16
2177 2345 5.176592 GTCACCCTACAACCTATTCTGTTC 58.823 45.833 0.00 0.00 0.00 3.18
2178 2346 4.224370 TCACCCTACAACCTATTCTGTTCC 59.776 45.833 0.00 0.00 0.00 3.62
2179 2347 3.522343 ACCCTACAACCTATTCTGTTCCC 59.478 47.826 0.00 0.00 0.00 3.97
2180 2348 3.780850 CCCTACAACCTATTCTGTTCCCT 59.219 47.826 0.00 0.00 0.00 4.20
2181 2349 4.141688 CCCTACAACCTATTCTGTTCCCTC 60.142 50.000 0.00 0.00 0.00 4.30
2182 2350 4.717280 CCTACAACCTATTCTGTTCCCTCT 59.283 45.833 0.00 0.00 0.00 3.69
2183 2351 4.828072 ACAACCTATTCTGTTCCCTCTC 57.172 45.455 0.00 0.00 0.00 3.20
2184 2352 4.168101 ACAACCTATTCTGTTCCCTCTCA 58.832 43.478 0.00 0.00 0.00 3.27
2185 2353 4.785376 ACAACCTATTCTGTTCCCTCTCAT 59.215 41.667 0.00 0.00 0.00 2.90
2186 2354 5.121811 CAACCTATTCTGTTCCCTCTCATG 58.878 45.833 0.00 0.00 0.00 3.07
2187 2355 4.366267 ACCTATTCTGTTCCCTCTCATGT 58.634 43.478 0.00 0.00 0.00 3.21
2188 2356 4.163078 ACCTATTCTGTTCCCTCTCATGTG 59.837 45.833 0.00 0.00 0.00 3.21
2189 2357 3.641434 ATTCTGTTCCCTCTCATGTGG 57.359 47.619 0.00 0.00 0.00 4.17
2190 2358 0.615331 TCTGTTCCCTCTCATGTGGC 59.385 55.000 0.00 0.00 0.00 5.01
2191 2359 0.393537 CTGTTCCCTCTCATGTGGCC 60.394 60.000 0.00 0.00 0.00 5.36
2192 2360 1.133181 TGTTCCCTCTCATGTGGCCA 61.133 55.000 0.00 0.00 0.00 5.36
2193 2361 0.038166 GTTCCCTCTCATGTGGCCAA 59.962 55.000 7.24 0.00 0.00 4.52
2194 2362 1.002069 TTCCCTCTCATGTGGCCAAT 58.998 50.000 7.24 0.00 0.00 3.16
2195 2363 1.002069 TCCCTCTCATGTGGCCAATT 58.998 50.000 7.24 0.00 0.00 2.32
2196 2364 1.064463 TCCCTCTCATGTGGCCAATTC 60.064 52.381 7.24 0.00 0.00 2.17
2197 2365 1.019673 CCTCTCATGTGGCCAATTCG 58.980 55.000 7.24 0.00 0.00 3.34
2198 2366 1.679944 CCTCTCATGTGGCCAATTCGT 60.680 52.381 7.24 0.00 0.00 3.85
2199 2367 1.399440 CTCTCATGTGGCCAATTCGTG 59.601 52.381 7.24 7.45 0.00 4.35
2200 2368 0.179156 CTCATGTGGCCAATTCGTGC 60.179 55.000 7.24 0.00 0.00 5.34
2201 2369 0.892814 TCATGTGGCCAATTCGTGCA 60.893 50.000 7.24 0.00 0.00 4.57
2202 2370 0.733566 CATGTGGCCAATTCGTGCAC 60.734 55.000 7.24 6.82 0.00 4.57
2203 2371 1.177895 ATGTGGCCAATTCGTGCACA 61.178 50.000 18.64 0.00 35.51 4.57
2204 2372 1.177895 TGTGGCCAATTCGTGCACAT 61.178 50.000 18.64 0.00 28.69 3.21
2205 2373 0.038343 GTGGCCAATTCGTGCACATT 60.038 50.000 18.64 7.14 0.00 2.71
2206 2374 0.678395 TGGCCAATTCGTGCACATTT 59.322 45.000 18.64 3.81 0.00 2.32
2207 2375 1.336702 TGGCCAATTCGTGCACATTTC 60.337 47.619 18.64 4.36 0.00 2.17
2208 2376 1.349234 GCCAATTCGTGCACATTTCC 58.651 50.000 18.64 0.00 0.00 3.13
2209 2377 1.067635 GCCAATTCGTGCACATTTCCT 60.068 47.619 18.64 0.00 0.00 3.36
2210 2378 2.598589 CCAATTCGTGCACATTTCCTG 58.401 47.619 18.64 5.72 0.00 3.86
2211 2379 2.030007 CCAATTCGTGCACATTTCCTGT 60.030 45.455 18.64 0.00 39.20 4.00
2224 2392 2.355115 CCTGTGGTAGGGTTGGCC 59.645 66.667 0.00 0.00 43.33 5.36
2225 2393 2.534396 CCTGTGGTAGGGTTGGCCA 61.534 63.158 0.00 0.00 43.33 5.36
2227 2395 2.035155 GTGGTAGGGTTGGCCACC 59.965 66.667 3.88 10.71 44.95 4.61
2235 2403 2.035155 GTTGGCCACCCTACCACC 59.965 66.667 3.88 0.00 35.10 4.61
2236 2404 2.450699 TTGGCCACCCTACCACCA 60.451 61.111 3.88 0.00 35.10 4.17
2237 2405 1.854979 TTGGCCACCCTACCACCAT 60.855 57.895 3.88 0.00 35.10 3.55
2238 2406 2.148723 TTGGCCACCCTACCACCATG 62.149 60.000 3.88 0.00 35.10 3.66
2239 2407 2.305607 GGCCACCCTACCACCATGA 61.306 63.158 0.00 0.00 0.00 3.07
2240 2408 1.077716 GCCACCCTACCACCATGAC 60.078 63.158 0.00 0.00 0.00 3.06
2241 2409 1.607612 CCACCCTACCACCATGACC 59.392 63.158 0.00 0.00 0.00 4.02
2242 2410 1.607612 CACCCTACCACCATGACCC 59.392 63.158 0.00 0.00 0.00 4.46
2243 2411 1.162329 ACCCTACCACCATGACCCA 59.838 57.895 0.00 0.00 0.00 4.51
2244 2412 0.253630 ACCCTACCACCATGACCCAT 60.254 55.000 0.00 0.00 0.00 4.00
2245 2413 0.183492 CCCTACCACCATGACCCATG 59.817 60.000 0.00 0.00 41.10 3.66
2246 2414 1.212375 CCTACCACCATGACCCATGA 58.788 55.000 8.38 0.00 43.81 3.07
2247 2415 1.134098 CCTACCACCATGACCCATGAC 60.134 57.143 8.38 0.00 43.81 3.06
2248 2416 0.539518 TACCACCATGACCCATGACG 59.460 55.000 8.38 0.00 43.81 4.35
2249 2417 1.451927 CCACCATGACCCATGACGG 60.452 63.158 8.38 4.77 43.81 4.79
2250 2418 1.299648 CACCATGACCCATGACGGT 59.700 57.895 8.38 0.00 43.81 4.83
2251 2419 0.539518 CACCATGACCCATGACGGTA 59.460 55.000 8.38 0.00 43.81 4.02
2252 2420 0.830648 ACCATGACCCATGACGGTAG 59.169 55.000 8.38 0.00 43.81 3.18
2253 2421 0.106708 CCATGACCCATGACGGTAGG 59.893 60.000 8.38 0.00 43.81 3.18
2254 2422 0.532862 CATGACCCATGACGGTAGGC 60.533 60.000 0.00 0.00 43.81 3.93
2255 2423 0.691078 ATGACCCATGACGGTAGGCT 60.691 55.000 0.00 0.00 35.79 4.58
2256 2424 0.907704 TGACCCATGACGGTAGGCTT 60.908 55.000 0.00 0.00 35.79 4.35
2257 2425 0.462047 GACCCATGACGGTAGGCTTG 60.462 60.000 0.00 0.00 35.79 4.01
2258 2426 4.540153 CCATGACGGTAGGCTTGG 57.460 61.111 0.00 0.00 43.21 3.61
2259 2427 1.819632 CCATGACGGTAGGCTTGGC 60.820 63.158 0.00 0.00 42.77 4.52
2260 2428 1.078497 CATGACGGTAGGCTTGGCA 60.078 57.895 0.00 0.00 0.00 4.92
2261 2429 1.078426 ATGACGGTAGGCTTGGCAC 60.078 57.895 0.00 0.00 0.00 5.01
2262 2430 1.553690 ATGACGGTAGGCTTGGCACT 61.554 55.000 0.00 0.00 0.00 4.40
2263 2431 0.901114 TGACGGTAGGCTTGGCACTA 60.901 55.000 0.00 0.00 0.00 2.74
2264 2432 0.459759 GACGGTAGGCTTGGCACTAC 60.460 60.000 0.00 5.45 39.01 2.73
2265 2433 0.903454 ACGGTAGGCTTGGCACTACT 60.903 55.000 11.96 2.28 39.53 2.57
2266 2434 1.108776 CGGTAGGCTTGGCACTACTA 58.891 55.000 11.96 1.43 39.53 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 3.059597 CGCGAAGACTTGTGTTCTTGATT 60.060 43.478 0.00 0.00 0.00 2.57
23 24 1.326548 GTTGACGCGAAGACTTGTGTT 59.673 47.619 15.93 0.00 0.00 3.32
24 25 0.928229 GTTGACGCGAAGACTTGTGT 59.072 50.000 15.93 0.00 0.00 3.72
26 27 1.647346 TTGTTGACGCGAAGACTTGT 58.353 45.000 15.93 0.00 0.00 3.16
71 72 3.917380 CGGCTCATCGACTTGATAGATTC 59.083 47.826 0.00 0.00 34.83 2.52
98 99 0.390603 CATGCCGTCCCTCGTTGTAA 60.391 55.000 0.00 0.00 37.94 2.41
99 100 1.216977 CATGCCGTCCCTCGTTGTA 59.783 57.895 0.00 0.00 37.94 2.41
105 106 1.226888 GTACGTCATGCCGTCCCTC 60.227 63.158 4.48 0.00 42.00 4.30
273 274 6.438108 TCAACCTCATTCATTCCAATGTGAAT 59.562 34.615 0.00 0.00 43.75 2.57
290 291 0.842030 AGGAGCCCATGTCAACCTCA 60.842 55.000 0.00 0.00 0.00 3.86
324 325 1.476891 GGCCACTGTGACTAATCGAGA 59.523 52.381 9.86 0.00 0.00 4.04
331 332 2.597578 TACTCAGGCCACTGTGACTA 57.402 50.000 9.86 0.00 45.14 2.59
372 373 2.933287 ACCATGAGTTCGGGGCCA 60.933 61.111 4.39 0.00 0.00 5.36
374 375 3.134127 GCACCATGAGTTCGGGGC 61.134 66.667 0.00 0.00 46.27 5.80
407 411 5.847817 TCACCCCTAAACCTCTTCTTTCTTA 59.152 40.000 0.00 0.00 0.00 2.10
496 509 3.973206 ACCACAACTATTGATGTCCGA 57.027 42.857 0.00 0.00 0.00 4.55
517 530 1.252215 TGTCCCGGCTCGTCACATTA 61.252 55.000 0.00 0.00 0.00 1.90
567 580 0.179056 CCGGATAGTTGGCATCGGTT 60.179 55.000 0.00 0.00 0.00 4.44
580 593 5.247564 CCATTTTACTAGTGGGATCCGGATA 59.752 44.000 19.15 0.00 0.00 2.59
598 611 1.428912 TCCTCTTCAGGCACCCATTTT 59.571 47.619 0.00 0.00 40.12 1.82
624 637 3.625897 CCTCCTCGTGTGCCACCA 61.626 66.667 0.00 0.00 0.00 4.17
665 678 2.050918 GCCCTCTAATACTGCCTCCTT 58.949 52.381 0.00 0.00 0.00 3.36
679 692 1.306141 TCCGTTCTCCATGCCCTCT 60.306 57.895 0.00 0.00 0.00 3.69
692 705 1.740296 CCGCCAAGATTCGTCCGTT 60.740 57.895 0.00 0.00 0.00 4.44
753 766 0.457851 CACCGGCTCCTCTAAGAGTG 59.542 60.000 0.00 0.00 36.20 3.51
777 790 1.712977 CCCTTCTCGTCCTACGACCG 61.713 65.000 0.00 0.00 46.73 4.79
956 980 9.727859 TGGTTGTTAGCAAAGTAAGATAACATA 57.272 29.630 5.08 0.00 44.31 2.29
989 1015 2.653234 AGAAGCCATGCCTATGAAGG 57.347 50.000 0.00 0.00 46.76 3.46
993 1019 1.233019 CGGAAGAAGCCATGCCTATG 58.767 55.000 0.00 0.00 0.00 2.23
1045 1072 1.610624 CCACTTGTACGGCATGTCCTT 60.611 52.381 0.00 0.00 33.82 3.36
1057 1084 1.174078 TCGGCGTCTGTCCACTTGTA 61.174 55.000 6.85 0.00 0.00 2.41
1137 1164 4.186926 GGTCGGTGGATACCTTAACTTTC 58.813 47.826 0.00 0.00 45.22 2.62
1219 1246 0.389948 GCGTGAGTTGGACGAGGATT 60.390 55.000 0.00 0.00 39.21 3.01
1220 1247 1.215647 GCGTGAGTTGGACGAGGAT 59.784 57.895 0.00 0.00 39.21 3.24
1325 1352 6.421202 GGCGACTACATAGGAATAAAGAACAG 59.579 42.308 0.00 0.00 0.00 3.16
1341 1368 3.755628 GTGGAGGCGGCGACTACA 61.756 66.667 26.98 26.98 0.00 2.74
1434 1462 1.454847 TCCAAACAACCGCTGCCTT 60.455 52.632 0.00 0.00 0.00 4.35
1451 1479 3.264998 AGCCTCTCTGAAATGCTTCTC 57.735 47.619 0.00 0.00 32.33 2.87
1489 1517 5.586243 TCTTTCGCTCCATCTTATCCTTTTG 59.414 40.000 0.00 0.00 0.00 2.44
1497 1525 3.610040 TGCTTCTTTCGCTCCATCTTA 57.390 42.857 0.00 0.00 0.00 2.10
1521 1549 0.249073 CATTACGTGCCCTCTCCTCG 60.249 60.000 0.00 0.00 0.00 4.63
1569 1599 0.243095 GAGCCCTTGCAAGCTTTCTG 59.757 55.000 21.43 6.05 40.11 3.02
1600 1631 2.490148 CGCGTGCCTCATCCTCCTA 61.490 63.158 0.00 0.00 0.00 2.94
1626 1657 0.109532 TCACACGAGGCCATTTTCCA 59.890 50.000 5.01 0.00 0.00 3.53
1700 1763 7.502226 TGAAAGACATAGTTCATCACAGGTTTT 59.498 33.333 0.00 0.00 0.00 2.43
1725 1788 5.577945 AGTTTCAGCACAAGTTTCACAAATG 59.422 36.000 0.00 0.00 0.00 2.32
1742 1805 8.707938 TGACATAGTTCATGACATAGTTTCAG 57.292 34.615 0.00 0.00 34.93 3.02
1747 1810 9.842775 AATTGATGACATAGTTCATGACATAGT 57.157 29.630 0.00 0.00 45.87 2.12
1767 1849 5.904941 TCAGCACAAGTTTCACAAATTGAT 58.095 33.333 0.00 0.00 32.84 2.57
1770 1852 6.165577 AGTTTCAGCACAAGTTTCACAAATT 58.834 32.000 0.00 0.00 0.00 1.82
1787 1878 9.764870 CAAATGTAGTTCATGACATAGTTTCAG 57.235 33.333 0.00 0.00 35.21 3.02
1825 1924 6.258230 TCATCATTTCAGGACAAATCACAC 57.742 37.500 0.00 0.00 0.00 3.82
1915 2074 0.323629 CTCTGGCGGTAGGGTTTTCA 59.676 55.000 0.00 0.00 0.00 2.69
1917 2076 1.683441 CCTCTGGCGGTAGGGTTTT 59.317 57.895 0.00 0.00 0.00 2.43
1964 2132 5.523059 AAACAGGGGAGTGTTTCCGTCAA 62.523 47.826 0.00 0.00 45.53 3.18
2013 2181 2.512515 CTACCGCCAAGGCTGCTC 60.513 66.667 9.73 0.00 46.52 4.26
2016 2184 3.717294 ACCCTACCGCCAAGGCTG 61.717 66.667 9.73 5.16 46.52 4.85
2017 2185 3.717294 CACCCTACCGCCAAGGCT 61.717 66.667 9.73 0.00 46.52 4.58
2035 2203 2.610219 TTCGTCATTGTGCATTTCGG 57.390 45.000 0.00 0.00 0.00 4.30
2036 2204 4.718998 GCATTTTCGTCATTGTGCATTTCG 60.719 41.667 0.00 0.00 33.09 3.46
2037 2205 4.386652 AGCATTTTCGTCATTGTGCATTTC 59.613 37.500 0.00 0.00 35.17 2.17
2038 2206 4.309099 AGCATTTTCGTCATTGTGCATTT 58.691 34.783 0.00 0.00 35.17 2.32
2039 2207 3.916761 AGCATTTTCGTCATTGTGCATT 58.083 36.364 0.00 0.00 35.17 3.56
2040 2208 3.504863 GAGCATTTTCGTCATTGTGCAT 58.495 40.909 0.00 0.00 35.17 3.96
2041 2209 2.351641 GGAGCATTTTCGTCATTGTGCA 60.352 45.455 0.00 0.00 35.17 4.57
2042 2210 2.253603 GGAGCATTTTCGTCATTGTGC 58.746 47.619 0.00 0.00 0.00 4.57
2043 2211 2.415893 GGGGAGCATTTTCGTCATTGTG 60.416 50.000 0.00 0.00 0.00 3.33
2044 2212 1.818674 GGGGAGCATTTTCGTCATTGT 59.181 47.619 0.00 0.00 0.00 2.71
2045 2213 2.094675 AGGGGAGCATTTTCGTCATTG 58.905 47.619 0.00 0.00 0.00 2.82
2046 2214 2.094675 CAGGGGAGCATTTTCGTCATT 58.905 47.619 0.00 0.00 0.00 2.57
2047 2215 1.004745 ACAGGGGAGCATTTTCGTCAT 59.995 47.619 0.00 0.00 0.00 3.06
2048 2216 0.400213 ACAGGGGAGCATTTTCGTCA 59.600 50.000 0.00 0.00 0.00 4.35
2049 2217 1.534729 AACAGGGGAGCATTTTCGTC 58.465 50.000 0.00 0.00 0.00 4.20
2050 2218 1.613437 CAAACAGGGGAGCATTTTCGT 59.387 47.619 0.00 0.00 0.00 3.85
2051 2219 1.613437 ACAAACAGGGGAGCATTTTCG 59.387 47.619 0.00 0.00 0.00 3.46
2052 2220 2.351738 CGACAAACAGGGGAGCATTTTC 60.352 50.000 0.00 0.00 0.00 2.29
2053 2221 1.613437 CGACAAACAGGGGAGCATTTT 59.387 47.619 0.00 0.00 0.00 1.82
2054 2222 1.202879 TCGACAAACAGGGGAGCATTT 60.203 47.619 0.00 0.00 0.00 2.32
2055 2223 0.400213 TCGACAAACAGGGGAGCATT 59.600 50.000 0.00 0.00 0.00 3.56
2056 2224 0.620556 ATCGACAAACAGGGGAGCAT 59.379 50.000 0.00 0.00 0.00 3.79
2057 2225 1.207089 CTATCGACAAACAGGGGAGCA 59.793 52.381 0.00 0.00 0.00 4.26
2058 2226 1.473434 CCTATCGACAAACAGGGGAGC 60.473 57.143 0.00 0.00 0.00 4.70
2059 2227 1.139058 CCCTATCGACAAACAGGGGAG 59.861 57.143 9.10 0.00 43.55 4.30
2060 2228 1.200519 CCCTATCGACAAACAGGGGA 58.799 55.000 9.10 0.00 43.55 4.81
2061 2229 3.780624 CCCTATCGACAAACAGGGG 57.219 57.895 9.10 0.00 43.55 4.79
2063 2231 2.012051 GCCACCCTATCGACAAACAGG 61.012 57.143 0.00 0.00 0.00 4.00
2064 2232 1.369625 GCCACCCTATCGACAAACAG 58.630 55.000 0.00 0.00 0.00 3.16
2065 2233 0.035820 GGCCACCCTATCGACAAACA 60.036 55.000 0.00 0.00 0.00 2.83
2066 2234 0.035820 TGGCCACCCTATCGACAAAC 60.036 55.000 0.00 0.00 0.00 2.93
2067 2235 0.035820 GTGGCCACCCTATCGACAAA 60.036 55.000 26.31 0.00 0.00 2.83
2068 2236 1.600107 GTGGCCACCCTATCGACAA 59.400 57.895 26.31 0.00 0.00 3.18
2069 2237 2.363975 GGTGGCCACCCTATCGACA 61.364 63.158 40.65 0.00 45.68 4.35
2070 2238 2.504519 GGTGGCCACCCTATCGAC 59.495 66.667 40.65 15.96 45.68 4.20
2082 2250 2.426023 CTATGGCGGTAGGGTGGC 59.574 66.667 0.00 0.00 0.00 5.01
2083 2251 2.426023 GCTATGGCGGTAGGGTGG 59.574 66.667 0.00 0.00 0.00 4.61
2084 2252 2.426023 GGCTATGGCGGTAGGGTG 59.574 66.667 0.00 0.00 39.81 4.61
2110 2278 2.044946 GTAGGCTGGCCAACCCTG 60.045 66.667 27.09 9.45 38.92 4.45
2111 2279 3.339093 GGTAGGCTGGCCAACCCT 61.339 66.667 21.92 23.03 38.92 4.34
2112 2280 3.657350 TGGTAGGCTGGCCAACCC 61.657 66.667 21.92 17.16 38.92 4.11
2113 2281 2.361230 GTGGTAGGCTGGCCAACC 60.361 66.667 18.06 18.06 38.92 3.77
2114 2282 2.361230 GGTGGTAGGCTGGCCAAC 60.361 66.667 7.01 12.18 38.92 3.77
2115 2283 4.028490 CGGTGGTAGGCTGGCCAA 62.028 66.667 7.01 0.00 38.92 4.52
2117 2285 4.162690 CTCGGTGGTAGGCTGGCC 62.163 72.222 3.00 3.00 0.00 5.36
2118 2286 4.162690 CCTCGGTGGTAGGCTGGC 62.163 72.222 0.00 0.00 0.00 4.85
2127 2295 1.444895 CCGTCGTAAACCTCGGTGG 60.445 63.158 0.00 0.00 42.93 4.61
2128 2296 4.157817 CCGTCGTAAACCTCGGTG 57.842 61.111 0.00 0.00 38.45 4.94
2130 2298 0.099436 CCTACCGTCGTAAACCTCGG 59.901 60.000 0.00 0.00 46.98 4.63
2131 2299 0.099436 CCCTACCGTCGTAAACCTCG 59.901 60.000 0.00 0.00 0.00 4.63
2132 2300 0.179127 GCCCTACCGTCGTAAACCTC 60.179 60.000 0.00 0.00 0.00 3.85
2133 2301 0.613012 AGCCCTACCGTCGTAAACCT 60.613 55.000 0.00 0.00 0.00 3.50
2134 2302 0.459063 CAGCCCTACCGTCGTAAACC 60.459 60.000 0.00 0.00 0.00 3.27
2135 2303 0.459063 CCAGCCCTACCGTCGTAAAC 60.459 60.000 0.00 0.00 0.00 2.01
2136 2304 0.899717 ACCAGCCCTACCGTCGTAAA 60.900 55.000 0.00 0.00 0.00 2.01
2137 2305 1.304381 ACCAGCCCTACCGTCGTAA 60.304 57.895 0.00 0.00 0.00 3.18
2138 2306 1.750399 GACCAGCCCTACCGTCGTA 60.750 63.158 0.00 0.00 0.00 3.43
2139 2307 3.066814 GACCAGCCCTACCGTCGT 61.067 66.667 0.00 0.00 0.00 4.34
2140 2308 3.066190 TGACCAGCCCTACCGTCG 61.066 66.667 0.00 0.00 0.00 5.12
2141 2309 2.577593 GTGACCAGCCCTACCGTC 59.422 66.667 0.00 0.00 0.00 4.79
2142 2310 3.001406 GGTGACCAGCCCTACCGT 61.001 66.667 0.00 0.00 0.00 4.83
2154 2322 4.820894 ACAGAATAGGTTGTAGGGTGAC 57.179 45.455 0.00 0.00 0.00 3.67
2155 2323 4.224370 GGAACAGAATAGGTTGTAGGGTGA 59.776 45.833 0.00 0.00 0.00 4.02
2156 2324 4.514401 GGAACAGAATAGGTTGTAGGGTG 58.486 47.826 0.00 0.00 0.00 4.61
2157 2325 3.522343 GGGAACAGAATAGGTTGTAGGGT 59.478 47.826 0.00 0.00 0.00 4.34
2158 2326 3.780850 AGGGAACAGAATAGGTTGTAGGG 59.219 47.826 0.00 0.00 0.00 3.53
2159 2327 4.717280 AGAGGGAACAGAATAGGTTGTAGG 59.283 45.833 0.00 0.00 0.00 3.18
2160 2328 5.422331 TGAGAGGGAACAGAATAGGTTGTAG 59.578 44.000 0.00 0.00 0.00 2.74
2161 2329 5.338632 TGAGAGGGAACAGAATAGGTTGTA 58.661 41.667 0.00 0.00 0.00 2.41
2162 2330 4.168101 TGAGAGGGAACAGAATAGGTTGT 58.832 43.478 0.00 0.00 0.00 3.32
2163 2331 4.826274 TGAGAGGGAACAGAATAGGTTG 57.174 45.455 0.00 0.00 0.00 3.77
2164 2332 4.785376 ACATGAGAGGGAACAGAATAGGTT 59.215 41.667 0.00 0.00 0.00 3.50
2165 2333 4.163078 CACATGAGAGGGAACAGAATAGGT 59.837 45.833 0.00 0.00 0.00 3.08
2166 2334 4.444022 CCACATGAGAGGGAACAGAATAGG 60.444 50.000 0.00 0.00 0.00 2.57
2167 2335 4.701765 CCACATGAGAGGGAACAGAATAG 58.298 47.826 0.00 0.00 0.00 1.73
2168 2336 3.118261 GCCACATGAGAGGGAACAGAATA 60.118 47.826 0.00 0.00 0.00 1.75
2169 2337 2.356535 GCCACATGAGAGGGAACAGAAT 60.357 50.000 0.00 0.00 0.00 2.40
2170 2338 1.003580 GCCACATGAGAGGGAACAGAA 59.996 52.381 0.00 0.00 0.00 3.02
2171 2339 0.615331 GCCACATGAGAGGGAACAGA 59.385 55.000 0.00 0.00 0.00 3.41
2172 2340 0.393537 GGCCACATGAGAGGGAACAG 60.394 60.000 0.00 0.00 0.00 3.16
2173 2341 1.133181 TGGCCACATGAGAGGGAACA 61.133 55.000 0.00 0.00 0.00 3.18
2174 2342 0.038166 TTGGCCACATGAGAGGGAAC 59.962 55.000 3.88 0.00 0.00 3.62
2175 2343 1.002069 ATTGGCCACATGAGAGGGAA 58.998 50.000 3.88 0.00 0.00 3.97
2176 2344 1.002069 AATTGGCCACATGAGAGGGA 58.998 50.000 3.88 0.00 0.00 4.20
2177 2345 1.396653 GAATTGGCCACATGAGAGGG 58.603 55.000 3.88 0.00 0.00 4.30
2178 2346 1.019673 CGAATTGGCCACATGAGAGG 58.980 55.000 3.88 0.00 0.00 3.69
2179 2347 1.399440 CACGAATTGGCCACATGAGAG 59.601 52.381 3.88 0.00 0.00 3.20
2180 2348 1.452110 CACGAATTGGCCACATGAGA 58.548 50.000 3.88 0.00 0.00 3.27
2181 2349 0.179156 GCACGAATTGGCCACATGAG 60.179 55.000 3.88 0.00 0.00 2.90
2182 2350 0.892814 TGCACGAATTGGCCACATGA 60.893 50.000 3.88 0.00 0.00 3.07
2183 2351 0.733566 GTGCACGAATTGGCCACATG 60.734 55.000 3.88 0.03 0.00 3.21
2184 2352 1.177895 TGTGCACGAATTGGCCACAT 61.178 50.000 3.88 0.00 0.00 3.21
2185 2353 1.177895 ATGTGCACGAATTGGCCACA 61.178 50.000 3.88 13.96 0.00 4.17
2186 2354 0.038343 AATGTGCACGAATTGGCCAC 60.038 50.000 3.88 0.00 0.00 5.01
2187 2355 0.678395 AAATGTGCACGAATTGGCCA 59.322 45.000 13.13 0.00 0.00 5.36
2188 2356 1.349234 GAAATGTGCACGAATTGGCC 58.651 50.000 13.13 0.00 0.00 5.36
2189 2357 1.067635 AGGAAATGTGCACGAATTGGC 60.068 47.619 13.13 3.83 0.00 4.52
2190 2358 2.030007 ACAGGAAATGTGCACGAATTGG 60.030 45.455 13.13 1.51 41.91 3.16
2191 2359 3.287312 ACAGGAAATGTGCACGAATTG 57.713 42.857 13.13 8.18 41.91 2.32
2207 2375 2.355115 GGCCAACCCTACCACAGG 59.645 66.667 0.00 0.00 45.07 4.00
2208 2376 3.166434 TGGCCAACCCTACCACAG 58.834 61.111 0.61 0.00 33.59 3.66
2218 2386 2.035155 GGTGGTAGGGTGGCCAAC 59.965 66.667 14.15 14.15 36.41 3.77
2219 2387 1.854979 ATGGTGGTAGGGTGGCCAA 60.855 57.895 7.24 0.00 36.41 4.52
2220 2388 2.204228 ATGGTGGTAGGGTGGCCA 60.204 61.111 0.00 0.00 0.00 5.36
2221 2389 2.275418 CATGGTGGTAGGGTGGCC 59.725 66.667 0.00 0.00 0.00 5.36
2222 2390 1.077716 GTCATGGTGGTAGGGTGGC 60.078 63.158 0.00 0.00 0.00 5.01
2223 2391 1.607612 GGTCATGGTGGTAGGGTGG 59.392 63.158 0.00 0.00 0.00 4.61
2224 2392 1.204786 TGGGTCATGGTGGTAGGGTG 61.205 60.000 0.00 0.00 0.00 4.61
2225 2393 0.253630 ATGGGTCATGGTGGTAGGGT 60.254 55.000 0.00 0.00 0.00 4.34
2226 2394 0.183492 CATGGGTCATGGTGGTAGGG 59.817 60.000 0.00 0.00 38.11 3.53
2227 2395 1.134098 GTCATGGGTCATGGTGGTAGG 60.134 57.143 7.88 0.00 41.66 3.18
2228 2396 1.473257 CGTCATGGGTCATGGTGGTAG 60.473 57.143 7.88 0.00 41.66 3.18
2229 2397 0.539518 CGTCATGGGTCATGGTGGTA 59.460 55.000 7.88 0.00 41.66 3.25
2230 2398 1.299648 CGTCATGGGTCATGGTGGT 59.700 57.895 7.88 0.00 41.66 4.16
2231 2399 1.451927 CCGTCATGGGTCATGGTGG 60.452 63.158 7.88 6.52 41.66 4.61
2232 2400 0.539518 TACCGTCATGGGTCATGGTG 59.460 55.000 6.33 1.88 44.64 4.17
2233 2401 0.830648 CTACCGTCATGGGTCATGGT 59.169 55.000 7.88 0.00 44.64 3.55
2234 2402 0.106708 CCTACCGTCATGGGTCATGG 59.893 60.000 7.88 0.00 44.64 3.66
2235 2403 0.532862 GCCTACCGTCATGGGTCATG 60.533 60.000 0.00 1.76 44.64 3.07
2236 2404 0.691078 AGCCTACCGTCATGGGTCAT 60.691 55.000 0.00 0.00 44.64 3.06
2237 2405 0.907704 AAGCCTACCGTCATGGGTCA 60.908 55.000 0.00 0.00 44.64 4.02
2238 2406 0.462047 CAAGCCTACCGTCATGGGTC 60.462 60.000 0.00 0.00 44.64 4.46
2239 2407 1.602237 CAAGCCTACCGTCATGGGT 59.398 57.895 0.00 0.00 44.64 4.51
2240 2408 1.153168 CCAAGCCTACCGTCATGGG 60.153 63.158 0.00 0.00 44.64 4.00
2241 2409 1.819632 GCCAAGCCTACCGTCATGG 60.820 63.158 0.00 0.00 46.41 3.66
2242 2410 1.078497 TGCCAAGCCTACCGTCATG 60.078 57.895 0.00 0.00 0.00 3.07
2243 2411 1.078426 GTGCCAAGCCTACCGTCAT 60.078 57.895 0.00 0.00 0.00 3.06
2244 2412 0.901114 TAGTGCCAAGCCTACCGTCA 60.901 55.000 0.00 0.00 0.00 4.35
2245 2413 0.459759 GTAGTGCCAAGCCTACCGTC 60.460 60.000 4.74 0.00 31.23 4.79
2246 2414 0.903454 AGTAGTGCCAAGCCTACCGT 60.903 55.000 9.95 0.00 34.92 4.83
2247 2415 1.108776 TAGTAGTGCCAAGCCTACCG 58.891 55.000 9.95 0.00 34.92 4.02


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

AutoCloner maintained by Alex Coulton.