Multiple sequence alignment - TraesCS2A01G401900

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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 TraesCS2A01G401900 chr2A 100.000 2255 0 0 1 2255 655518822 655521076 0.000000e+00 4165
1 TraesCS2A01G401900 chr2A 91.008 2013 149 12 1 2007 27645888 27643902 0.000000e+00 2686
2 TraesCS2A01G401900 chr1A 94.489 2014 102 8 1 2010 331278440 331280448 0.000000e+00 3096
3 TraesCS2A01G401900 chr1A 95.984 249 10 0 2007 2255 269495788 269496036 2.700000e-109 405
4 TraesCS2A01G401900 chr3A 96.025 1761 61 5 1 1757 466484662 466482907 0.000000e+00 2856
5 TraesCS2A01G401900 chr3A 95.984 249 10 0 2007 2255 402036998 402037246 2.700000e-109 405
6 TraesCS2A01G401900 chr5D 91.472 2017 157 9 1 2008 552350164 552348154 0.000000e+00 2758
7 TraesCS2A01G401900 chr5D 91.266 2015 166 8 2 2011 510612249 510610240 0.000000e+00 2737
8 TraesCS2A01G401900 chr3D 90.130 2006 189 7 1 2002 85243844 85245844 0.000000e+00 2599
9 TraesCS2A01G401900 chr2B 93.911 1708 96 5 1 1703 106713017 106711313 0.000000e+00 2571
10 TraesCS2A01G401900 chr2D 89.563 2012 199 10 1 2007 616450968 616452973 0.000000e+00 2542
11 TraesCS2A01G401900 chr5A 89.667 2013 178 15 1 2007 709708758 709706770 0.000000e+00 2538
12 TraesCS2A01G401900 chr5A 95.984 249 10 0 2007 2255 640784402 640784650 2.700000e-109 405
13 TraesCS2A01G401900 chr5A 95.582 249 11 0 2007 2255 645340177 645339929 1.250000e-107 399
14 TraesCS2A01G401900 chr5A 95.181 249 12 0 2007 2255 315003167 315002919 5.840000e-106 394
15 TraesCS2A01G401900 chr5A 95.181 249 12 0 2007 2255 401332136 401332384 5.840000e-106 394
16 TraesCS2A01G401900 chr4D 89.382 2006 207 5 1 2004 141598263 141600264 0.000000e+00 2519
17 TraesCS2A01G401900 chr3B 84.556 913 104 23 1108 2014 41613259 41614140 0.000000e+00 870
18 TraesCS2A01G401900 chr6A 95.951 247 10 0 2008 2254 485498314 485498068 3.490000e-108 401
19 TraesCS2A01G401900 chr6A 95.582 249 11 0 2007 2255 506117526 506117278 1.250000e-107 399
20 TraesCS2A01G401900 chr7A 95.582 249 11 0 2007 2255 113868601 113868353 1.250000e-107 399


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 TraesCS2A01G401900 chr2A 655518822 655521076 2254 False 4165 4165 100.000 1 2255 1 chr2A.!!$F1 2254
1 TraesCS2A01G401900 chr2A 27643902 27645888 1986 True 2686 2686 91.008 1 2007 1 chr2A.!!$R1 2006
2 TraesCS2A01G401900 chr1A 331278440 331280448 2008 False 3096 3096 94.489 1 2010 1 chr1A.!!$F2 2009
3 TraesCS2A01G401900 chr3A 466482907 466484662 1755 True 2856 2856 96.025 1 1757 1 chr3A.!!$R1 1756
4 TraesCS2A01G401900 chr5D 552348154 552350164 2010 True 2758 2758 91.472 1 2008 1 chr5D.!!$R2 2007
5 TraesCS2A01G401900 chr5D 510610240 510612249 2009 True 2737 2737 91.266 2 2011 1 chr5D.!!$R1 2009
6 TraesCS2A01G401900 chr3D 85243844 85245844 2000 False 2599 2599 90.130 1 2002 1 chr3D.!!$F1 2001
7 TraesCS2A01G401900 chr2B 106711313 106713017 1704 True 2571 2571 93.911 1 1703 1 chr2B.!!$R1 1702
8 TraesCS2A01G401900 chr2D 616450968 616452973 2005 False 2542 2542 89.563 1 2007 1 chr2D.!!$F1 2006
9 TraesCS2A01G401900 chr5A 709706770 709708758 1988 True 2538 2538 89.667 1 2007 1 chr5A.!!$R3 2006
10 TraesCS2A01G401900 chr4D 141598263 141600264 2001 False 2519 2519 89.382 1 2004 1 chr4D.!!$F1 2003
11 TraesCS2A01G401900 chr3B 41613259 41614140 881 False 870 870 84.556 1108 2014 1 chr3B.!!$F1 906

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
760 773 0.673644 CGACTCGCCCTGTTGGAAAT 60.674 55.0 0.0 0.0 35.39 2.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2067 2092 0.029567 GGAGAGCGTCGTGATAGGTG 59.97 60.0 0.0 0.0 0.0 4.0 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
123 128 6.942005 TGTGTTGAAGATGATGTTGATAAGGT 59.058 34.615 0.00 0.00 0.00 3.50
332 337 4.007659 TCTAAAAACTTCCGATTGGGAGC 58.992 43.478 7.28 0.00 45.98 4.70
347 352 6.349777 CGATTGGGAGCTTATTGTTGGTAAAA 60.350 38.462 0.00 0.00 0.00 1.52
348 353 6.732896 TTGGGAGCTTATTGTTGGTAAAAA 57.267 33.333 0.00 0.00 0.00 1.94
506 517 3.133003 AGGCTAGATAAACACAGACGCAT 59.867 43.478 0.00 0.00 0.00 4.73
564 577 8.540388 AGATACTATCTTGTTAAGTGGAGCAAA 58.460 33.333 0.00 0.00 35.76 3.68
736 749 3.130340 TGTTGCTGAAGTTTCTCCCAAAC 59.870 43.478 0.00 0.00 0.00 2.93
760 773 0.673644 CGACTCGCCCTGTTGGAAAT 60.674 55.000 0.00 0.00 35.39 2.17
811 826 5.569355 TGATGGGCAGAAAGATTGAAACTA 58.431 37.500 0.00 0.00 0.00 2.24
911 926 5.716228 TGTTTGAGATCTGCAATTACCCAAT 59.284 36.000 0.00 0.00 0.00 3.16
940 956 5.046231 ACCCTGGACAAAAGAGATAGACTTC 60.046 44.000 0.00 0.00 0.00 3.01
988 1004 3.814316 GCTTACCCCTGAGTTGTCCAAAT 60.814 47.826 0.00 0.00 0.00 2.32
1007 1023 4.689612 AATAGTGGGAAGATATGCGTGT 57.310 40.909 0.00 0.00 0.00 4.49
1150 1166 7.201992 GGTGCCATTATAGATGGATTTGGAAAA 60.202 37.037 9.15 0.00 41.64 2.29
1193 1209 7.707624 TCAAAATCTTTCTATGGCAGATGTT 57.292 32.000 0.00 0.00 31.77 2.71
1231 1247 6.543831 CCTTACTAGGCAAGTTATGAGCAAAT 59.456 38.462 0.00 0.00 39.80 2.32
1272 1288 4.312443 CCTGATGCTCTTTTTGCAAACAT 58.688 39.130 12.39 11.50 44.01 2.71
1304 1320 4.598062 GTGCAACACCTGTTCTTTACTTC 58.402 43.478 0.00 0.00 35.83 3.01
1573 1589 1.073284 GGACAGGGCTACAACAAGGAA 59.927 52.381 0.00 0.00 0.00 3.36
1758 1775 2.092323 CCCCGGAGAAGATTGTTTTCC 58.908 52.381 0.73 0.00 0.00 3.13
1845 1867 3.743521 TGTAATGTCATGCTATCCAGGC 58.256 45.455 0.00 0.00 0.00 4.85
1864 1886 1.475034 GCTTTCGCCCCATGATACTCA 60.475 52.381 0.00 0.00 0.00 3.41
2026 2051 5.424121 AAATCAGTTTGTTGAGAGGAACG 57.576 39.130 0.00 0.00 0.00 3.95
2027 2052 3.812156 TCAGTTTGTTGAGAGGAACGA 57.188 42.857 0.00 0.00 0.00 3.85
2028 2053 4.336889 TCAGTTTGTTGAGAGGAACGAT 57.663 40.909 0.00 0.00 0.00 3.73
2029 2054 4.307432 TCAGTTTGTTGAGAGGAACGATC 58.693 43.478 0.00 0.00 0.00 3.69
2030 2055 4.058124 CAGTTTGTTGAGAGGAACGATCA 58.942 43.478 0.00 0.00 0.00 2.92
2031 2056 4.151335 CAGTTTGTTGAGAGGAACGATCAG 59.849 45.833 0.00 0.00 0.00 2.90
2032 2057 4.058817 GTTTGTTGAGAGGAACGATCAGT 58.941 43.478 0.00 0.00 0.00 3.41
2034 2059 4.336889 TGTTGAGAGGAACGATCAGTTT 57.663 40.909 0.00 0.00 44.35 2.66
2035 2060 4.307432 TGTTGAGAGGAACGATCAGTTTC 58.693 43.478 0.00 3.27 44.35 2.78
2041 2066 4.608948 AGGAACGATCAGTTTCTCAAGT 57.391 40.909 5.68 0.00 45.36 3.16
2042 2067 5.723672 AGGAACGATCAGTTTCTCAAGTA 57.276 39.130 5.68 0.00 45.36 2.24
2043 2068 5.471257 AGGAACGATCAGTTTCTCAAGTAC 58.529 41.667 5.68 0.00 45.36 2.73
2044 2069 4.626172 GGAACGATCAGTTTCTCAAGTACC 59.374 45.833 0.00 0.00 44.35 3.34
2045 2070 3.834610 ACGATCAGTTTCTCAAGTACCG 58.165 45.455 0.00 0.00 0.00 4.02
2046 2071 3.504906 ACGATCAGTTTCTCAAGTACCGA 59.495 43.478 0.00 0.00 0.00 4.69
2047 2072 3.852536 CGATCAGTTTCTCAAGTACCGAC 59.147 47.826 0.00 0.00 0.00 4.79
2048 2073 4.379603 CGATCAGTTTCTCAAGTACCGACT 60.380 45.833 0.00 0.00 37.59 4.18
2049 2074 5.163784 CGATCAGTTTCTCAAGTACCGACTA 60.164 44.000 0.00 0.00 33.58 2.59
2050 2075 6.585695 ATCAGTTTCTCAAGTACCGACTAA 57.414 37.500 0.00 0.00 33.58 2.24
2051 2076 6.585695 TCAGTTTCTCAAGTACCGACTAAT 57.414 37.500 0.00 0.00 33.58 1.73
2052 2077 6.618811 TCAGTTTCTCAAGTACCGACTAATC 58.381 40.000 0.00 0.00 33.58 1.75
2053 2078 6.433404 TCAGTTTCTCAAGTACCGACTAATCT 59.567 38.462 0.00 0.00 33.58 2.40
2054 2079 7.039923 TCAGTTTCTCAAGTACCGACTAATCTT 60.040 37.037 0.00 0.00 33.58 2.40
2055 2080 7.599245 CAGTTTCTCAAGTACCGACTAATCTTT 59.401 37.037 0.00 0.00 33.58 2.52
2056 2081 7.599245 AGTTTCTCAAGTACCGACTAATCTTTG 59.401 37.037 0.00 0.00 33.58 2.77
2057 2082 6.829229 TCTCAAGTACCGACTAATCTTTGA 57.171 37.500 0.00 0.00 33.58 2.69
2058 2083 6.618811 TCTCAAGTACCGACTAATCTTTGAC 58.381 40.000 0.00 0.00 33.58 3.18
2059 2084 6.208007 TCTCAAGTACCGACTAATCTTTGACA 59.792 38.462 0.00 0.00 33.58 3.58
2060 2085 6.387465 TCAAGTACCGACTAATCTTTGACAG 58.613 40.000 0.00 0.00 33.58 3.51
2061 2086 6.208007 TCAAGTACCGACTAATCTTTGACAGA 59.792 38.462 0.00 0.00 33.58 3.41
2062 2087 5.952033 AGTACCGACTAATCTTTGACAGAC 58.048 41.667 0.00 0.00 30.86 3.51
2063 2088 3.834610 ACCGACTAATCTTTGACAGACG 58.165 45.455 0.00 0.00 32.83 4.18
2064 2089 3.504906 ACCGACTAATCTTTGACAGACGA 59.495 43.478 0.00 0.00 32.83 4.20
2065 2090 3.852536 CCGACTAATCTTTGACAGACGAC 59.147 47.826 0.00 0.00 32.83 4.34
2066 2091 3.538782 CGACTAATCTTTGACAGACGACG 59.461 47.826 0.00 0.00 32.83 5.12
2067 2092 3.243336 ACTAATCTTTGACAGACGACGC 58.757 45.455 0.00 0.00 32.83 5.19
2068 2093 2.148916 AATCTTTGACAGACGACGCA 57.851 45.000 0.00 0.00 32.83 5.24
2069 2094 1.419374 ATCTTTGACAGACGACGCAC 58.581 50.000 0.00 0.00 32.83 5.34
2070 2095 0.596600 TCTTTGACAGACGACGCACC 60.597 55.000 0.00 0.00 0.00 5.01
2071 2096 0.597637 CTTTGACAGACGACGCACCT 60.598 55.000 0.00 0.00 0.00 4.00
2072 2097 0.669619 TTTGACAGACGACGCACCTA 59.330 50.000 0.00 0.00 0.00 3.08
2073 2098 0.885879 TTGACAGACGACGCACCTAT 59.114 50.000 0.00 0.00 0.00 2.57
2074 2099 0.450583 TGACAGACGACGCACCTATC 59.549 55.000 0.00 0.00 0.00 2.08
2075 2100 0.450583 GACAGACGACGCACCTATCA 59.549 55.000 0.00 0.00 0.00 2.15
2076 2101 0.170561 ACAGACGACGCACCTATCAC 59.829 55.000 0.00 0.00 0.00 3.06
2077 2102 0.861866 CAGACGACGCACCTATCACG 60.862 60.000 0.00 0.00 0.00 4.35
2078 2103 1.022982 AGACGACGCACCTATCACGA 61.023 55.000 0.00 0.00 0.00 4.35
2079 2104 0.860618 GACGACGCACCTATCACGAC 60.861 60.000 0.00 0.00 0.00 4.34
2080 2105 1.933041 CGACGCACCTATCACGACG 60.933 63.158 0.00 0.00 38.41 5.12
2081 2106 2.202570 ACGCACCTATCACGACGC 60.203 61.111 0.00 0.00 0.00 5.19
2082 2107 2.102357 CGCACCTATCACGACGCT 59.898 61.111 0.00 0.00 0.00 5.07
2083 2108 1.939785 CGCACCTATCACGACGCTC 60.940 63.158 0.00 0.00 0.00 5.03
2084 2109 1.433879 GCACCTATCACGACGCTCT 59.566 57.895 0.00 0.00 0.00 4.09
2085 2110 0.592754 GCACCTATCACGACGCTCTC 60.593 60.000 0.00 0.00 0.00 3.20
2086 2111 0.029567 CACCTATCACGACGCTCTCC 59.970 60.000 0.00 0.00 0.00 3.71
2087 2112 1.102222 ACCTATCACGACGCTCTCCC 61.102 60.000 0.00 0.00 0.00 4.30
2088 2113 0.820074 CCTATCACGACGCTCTCCCT 60.820 60.000 0.00 0.00 0.00 4.20
2089 2114 0.309302 CTATCACGACGCTCTCCCTG 59.691 60.000 0.00 0.00 0.00 4.45
2090 2115 1.725557 TATCACGACGCTCTCCCTGC 61.726 60.000 0.00 0.00 0.00 4.85
2091 2116 3.753434 CACGACGCTCTCCCTGCT 61.753 66.667 0.00 0.00 0.00 4.24
2092 2117 3.444805 ACGACGCTCTCCCTGCTC 61.445 66.667 0.00 0.00 0.00 4.26
2093 2118 4.200283 CGACGCTCTCCCTGCTCC 62.200 72.222 0.00 0.00 0.00 4.70
2094 2119 2.757917 GACGCTCTCCCTGCTCCT 60.758 66.667 0.00 0.00 0.00 3.69
2095 2120 1.454111 GACGCTCTCCCTGCTCCTA 60.454 63.158 0.00 0.00 0.00 2.94
2096 2121 1.730451 GACGCTCTCCCTGCTCCTAC 61.730 65.000 0.00 0.00 0.00 3.18
2097 2122 1.454847 CGCTCTCCCTGCTCCTACT 60.455 63.158 0.00 0.00 0.00 2.57
2098 2123 1.040339 CGCTCTCCCTGCTCCTACTT 61.040 60.000 0.00 0.00 0.00 2.24
2099 2124 1.199615 GCTCTCCCTGCTCCTACTTT 58.800 55.000 0.00 0.00 0.00 2.66
2100 2125 1.557371 GCTCTCCCTGCTCCTACTTTT 59.443 52.381 0.00 0.00 0.00 2.27
2101 2126 2.026729 GCTCTCCCTGCTCCTACTTTTT 60.027 50.000 0.00 0.00 0.00 1.94
2121 2146 1.703411 TTGACTTTCAGGCAAAGGGG 58.297 50.000 2.84 0.00 40.97 4.79
2122 2147 0.850100 TGACTTTCAGGCAAAGGGGA 59.150 50.000 2.84 0.00 45.35 4.81
2123 2148 1.202927 TGACTTTCAGGCAAAGGGGAG 60.203 52.381 2.84 0.00 45.35 4.30
2124 2149 1.073923 GACTTTCAGGCAAAGGGGAGA 59.926 52.381 2.84 0.00 45.35 3.71
2125 2150 1.713078 ACTTTCAGGCAAAGGGGAGAT 59.287 47.619 2.84 0.00 45.35 2.75
2126 2151 2.919602 ACTTTCAGGCAAAGGGGAGATA 59.080 45.455 2.84 0.00 45.35 1.98
2127 2152 3.529319 ACTTTCAGGCAAAGGGGAGATAT 59.471 43.478 2.84 0.00 45.35 1.63
2128 2153 3.582998 TTCAGGCAAAGGGGAGATATG 57.417 47.619 0.00 0.00 0.00 1.78
2129 2154 2.492025 TCAGGCAAAGGGGAGATATGT 58.508 47.619 0.00 0.00 0.00 2.29
2130 2155 2.852449 TCAGGCAAAGGGGAGATATGTT 59.148 45.455 0.00 0.00 0.00 2.71
2131 2156 4.044308 TCAGGCAAAGGGGAGATATGTTA 58.956 43.478 0.00 0.00 0.00 2.41
2132 2157 4.665009 TCAGGCAAAGGGGAGATATGTTAT 59.335 41.667 0.00 0.00 0.00 1.89
2133 2158 5.849475 TCAGGCAAAGGGGAGATATGTTATA 59.151 40.000 0.00 0.00 0.00 0.98
2134 2159 6.331572 TCAGGCAAAGGGGAGATATGTTATAA 59.668 38.462 0.00 0.00 0.00 0.98
2135 2160 6.431234 CAGGCAAAGGGGAGATATGTTATAAC 59.569 42.308 8.75 8.75 0.00 1.89
2136 2161 6.332901 AGGCAAAGGGGAGATATGTTATAACT 59.667 38.462 16.33 5.22 0.00 2.24
2137 2162 7.516209 AGGCAAAGGGGAGATATGTTATAACTA 59.484 37.037 16.33 7.10 0.00 2.24
2138 2163 7.824779 GGCAAAGGGGAGATATGTTATAACTAG 59.175 40.741 16.33 0.00 0.00 2.57
2139 2164 7.824779 GCAAAGGGGAGATATGTTATAACTAGG 59.175 40.741 16.33 0.00 0.00 3.02
2140 2165 8.322091 CAAAGGGGAGATATGTTATAACTAGGG 58.678 40.741 16.33 0.00 0.00 3.53
2141 2166 7.372060 AGGGGAGATATGTTATAACTAGGGA 57.628 40.000 16.33 0.00 0.00 4.20
2142 2167 7.423341 AGGGGAGATATGTTATAACTAGGGAG 58.577 42.308 16.33 0.00 0.00 4.30
2143 2168 6.612049 GGGGAGATATGTTATAACTAGGGAGG 59.388 46.154 16.33 0.00 0.00 4.30
2144 2169 7.420029 GGGAGATATGTTATAACTAGGGAGGA 58.580 42.308 16.33 0.00 0.00 3.71
2145 2170 7.562088 GGGAGATATGTTATAACTAGGGAGGAG 59.438 44.444 16.33 0.00 0.00 3.69
2146 2171 7.562088 GGAGATATGTTATAACTAGGGAGGAGG 59.438 44.444 16.33 0.00 0.00 4.30
2147 2172 6.898521 AGATATGTTATAACTAGGGAGGAGGC 59.101 42.308 16.33 0.00 0.00 4.70
2148 2173 3.228453 TGTTATAACTAGGGAGGAGGCG 58.772 50.000 16.33 0.00 0.00 5.52
2149 2174 3.117398 TGTTATAACTAGGGAGGAGGCGA 60.117 47.826 16.33 0.00 0.00 5.54
2150 2175 1.998222 ATAACTAGGGAGGAGGCGAC 58.002 55.000 0.00 0.00 0.00 5.19
2151 2176 0.106318 TAACTAGGGAGGAGGCGACC 60.106 60.000 0.00 0.00 0.00 4.79
2152 2177 2.907917 CTAGGGAGGAGGCGACCG 60.908 72.222 0.00 0.00 34.73 4.79
2153 2178 3.414193 TAGGGAGGAGGCGACCGA 61.414 66.667 0.00 0.00 34.73 4.69
2154 2179 3.417167 TAGGGAGGAGGCGACCGAG 62.417 68.421 0.00 0.00 34.73 4.63
2156 2181 2.124403 GGAGGAGGCGACCGAGTA 60.124 66.667 0.00 0.00 34.73 2.59
2157 2182 2.479750 GGAGGAGGCGACCGAGTAC 61.480 68.421 0.00 0.00 34.73 2.73
2158 2183 2.821688 GAGGAGGCGACCGAGTACG 61.822 68.421 0.00 0.00 39.43 3.67
2159 2184 2.821366 GGAGGCGACCGAGTACGA 60.821 66.667 0.00 0.00 42.66 3.43
2160 2185 2.708255 GAGGCGACCGAGTACGAG 59.292 66.667 0.00 0.00 42.66 4.18
2161 2186 1.812922 GAGGCGACCGAGTACGAGA 60.813 63.158 0.00 0.00 42.66 4.04
2162 2187 1.764180 GAGGCGACCGAGTACGAGAG 61.764 65.000 0.00 0.00 42.66 3.20
2163 2188 2.708255 GCGACCGAGTACGAGAGG 59.292 66.667 0.00 0.00 42.66 3.69
2164 2189 1.812922 GCGACCGAGTACGAGAGGA 60.813 63.158 0.00 0.00 42.66 3.71
2165 2190 1.764180 GCGACCGAGTACGAGAGGAG 61.764 65.000 0.00 2.19 42.66 3.69
2166 2191 1.152989 CGACCGAGTACGAGAGGAGG 61.153 65.000 0.00 0.00 42.66 4.30
2167 2192 0.814812 GACCGAGTACGAGAGGAGGG 60.815 65.000 0.00 0.00 42.66 4.30
2168 2193 2.188161 CCGAGTACGAGAGGAGGGC 61.188 68.421 0.00 0.00 42.66 5.19
2169 2194 1.451567 CGAGTACGAGAGGAGGGCA 60.452 63.158 0.00 0.00 42.66 5.36
2170 2195 1.440938 CGAGTACGAGAGGAGGGCAG 61.441 65.000 0.00 0.00 42.66 4.85
2171 2196 1.076632 AGTACGAGAGGAGGGCAGG 60.077 63.158 0.00 0.00 0.00 4.85
2172 2197 2.128507 GTACGAGAGGAGGGCAGGG 61.129 68.421 0.00 0.00 0.00 4.45
2173 2198 2.314215 TACGAGAGGAGGGCAGGGA 61.314 63.158 0.00 0.00 0.00 4.20
2174 2199 2.569218 TACGAGAGGAGGGCAGGGAC 62.569 65.000 0.00 0.00 0.00 4.46
2175 2200 2.039624 GAGAGGAGGGCAGGGACA 59.960 66.667 0.00 0.00 0.00 4.02
2176 2201 2.040278 AGAGGAGGGCAGGGACAG 59.960 66.667 0.00 0.00 0.00 3.51
2177 2202 3.791586 GAGGAGGGCAGGGACAGC 61.792 72.222 0.00 0.00 41.34 4.40
2178 2203 4.345286 AGGAGGGCAGGGACAGCT 62.345 66.667 0.00 0.00 41.93 4.24
2179 2204 3.791586 GGAGGGCAGGGACAGCTC 61.792 72.222 0.00 0.00 43.76 4.09
2184 2209 4.828925 GCAGGGACAGCTCGCCTC 62.829 72.222 1.68 0.00 38.05 4.70
2185 2210 4.154347 CAGGGACAGCTCGCCTCC 62.154 72.222 1.68 0.00 0.00 4.30
2186 2211 4.704103 AGGGACAGCTCGCCTCCA 62.704 66.667 1.68 0.00 0.00 3.86
2187 2212 3.706373 GGGACAGCTCGCCTCCAA 61.706 66.667 1.68 0.00 0.00 3.53
2188 2213 2.125350 GGACAGCTCGCCTCCAAG 60.125 66.667 0.00 0.00 0.00 3.61
2189 2214 2.817396 GACAGCTCGCCTCCAAGC 60.817 66.667 0.00 0.00 38.84 4.01
2192 2217 4.774503 AGCTCGCCTCCAAGCTGC 62.775 66.667 0.00 0.00 46.78 5.25
2194 2219 2.818714 CTCGCCTCCAAGCTGCAG 60.819 66.667 10.11 10.11 0.00 4.41
2205 2230 2.437895 GCTGCAGCTCATCAGGCA 60.438 61.111 31.33 2.25 38.21 4.75
2206 2231 2.044555 GCTGCAGCTCATCAGGCAA 61.045 57.895 31.33 0.00 35.59 4.52
2207 2232 1.384989 GCTGCAGCTCATCAGGCAAT 61.385 55.000 31.33 0.00 35.59 3.56
2208 2233 1.103803 CTGCAGCTCATCAGGCAATT 58.896 50.000 0.00 0.00 35.59 2.32
2209 2234 0.815095 TGCAGCTCATCAGGCAATTG 59.185 50.000 0.00 0.00 32.54 2.32
2210 2235 0.527817 GCAGCTCATCAGGCAATTGC 60.528 55.000 22.47 22.47 41.14 3.56
2225 2250 3.297904 TGCCGCTGCATCTCAGTA 58.702 55.556 0.00 0.00 44.23 2.74
2226 2251 1.825341 TGCCGCTGCATCTCAGTAT 59.175 52.632 0.00 0.00 44.23 2.12
2227 2252 0.531311 TGCCGCTGCATCTCAGTATG 60.531 55.000 0.00 0.00 44.23 2.39
2228 2253 0.249615 GCCGCTGCATCTCAGTATGA 60.250 55.000 0.00 0.00 44.66 2.15
2229 2254 1.495878 CCGCTGCATCTCAGTATGAC 58.504 55.000 0.00 0.00 42.56 3.06
2230 2255 1.495878 CGCTGCATCTCAGTATGACC 58.504 55.000 0.00 0.00 42.56 4.02
2231 2256 1.871408 CGCTGCATCTCAGTATGACCC 60.871 57.143 0.00 0.00 42.56 4.46
2232 2257 1.542108 GCTGCATCTCAGTATGACCCC 60.542 57.143 0.00 0.00 42.56 4.95
2233 2258 1.764723 CTGCATCTCAGTATGACCCCA 59.235 52.381 0.00 0.00 42.56 4.96
2234 2259 1.764723 TGCATCTCAGTATGACCCCAG 59.235 52.381 0.00 0.00 42.56 4.45
2235 2260 1.542108 GCATCTCAGTATGACCCCAGC 60.542 57.143 0.00 0.00 42.56 4.85
2236 2261 2.045524 CATCTCAGTATGACCCCAGCT 58.954 52.381 0.00 0.00 42.56 4.24
2237 2262 3.234353 CATCTCAGTATGACCCCAGCTA 58.766 50.000 0.00 0.00 42.56 3.32
2238 2263 2.667470 TCTCAGTATGACCCCAGCTAC 58.333 52.381 0.00 0.00 42.56 3.58
2239 2264 2.024369 TCTCAGTATGACCCCAGCTACA 60.024 50.000 0.00 0.00 42.56 2.74
2240 2265 2.766263 CTCAGTATGACCCCAGCTACAA 59.234 50.000 0.00 0.00 42.56 2.41
2241 2266 2.500098 TCAGTATGACCCCAGCTACAAC 59.500 50.000 0.00 0.00 42.56 3.32
2242 2267 2.501723 CAGTATGACCCCAGCTACAACT 59.498 50.000 0.00 0.00 39.69 3.16
2243 2268 3.055094 CAGTATGACCCCAGCTACAACTT 60.055 47.826 0.00 0.00 39.69 2.66
2244 2269 3.587506 AGTATGACCCCAGCTACAACTTT 59.412 43.478 0.00 0.00 0.00 2.66
2245 2270 2.270352 TGACCCCAGCTACAACTTTG 57.730 50.000 0.00 0.00 0.00 2.77
2246 2271 1.202879 TGACCCCAGCTACAACTTTGG 60.203 52.381 0.00 0.00 0.00 3.28
2247 2272 1.073284 GACCCCAGCTACAACTTTGGA 59.927 52.381 0.00 0.00 32.34 3.53
2248 2273 1.710809 ACCCCAGCTACAACTTTGGAT 59.289 47.619 0.00 0.00 32.34 3.41
2249 2274 2.916934 ACCCCAGCTACAACTTTGGATA 59.083 45.455 0.00 0.00 32.34 2.59
2250 2275 3.527665 ACCCCAGCTACAACTTTGGATAT 59.472 43.478 0.00 0.00 32.34 1.63
2251 2276 4.137543 CCCCAGCTACAACTTTGGATATC 58.862 47.826 0.00 0.00 32.34 1.63
2252 2277 4.137543 CCCAGCTACAACTTTGGATATCC 58.862 47.826 15.39 15.39 32.34 2.59
2253 2278 3.809832 CCAGCTACAACTTTGGATATCCG 59.190 47.826 17.04 5.47 39.43 4.18
2254 2279 3.248602 CAGCTACAACTTTGGATATCCGC 59.751 47.826 17.04 10.35 39.43 5.54
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 16 6.676237 AAGCCCACAATAAGTTTGTTTTTG 57.324 33.333 0.00 0.00 0.00 2.44
101 104 7.820648 ACAACCTTATCAACATCATCTTCAAC 58.179 34.615 0.00 0.00 0.00 3.18
206 211 2.291153 CCACACTTTCATCTCCACCCAT 60.291 50.000 0.00 0.00 0.00 4.00
564 577 7.062957 CCCCTTTGTCTTTGGATCTACATATT 58.937 38.462 0.00 0.00 0.00 1.28
736 749 2.344203 AACAGGGCGAGTCGGAGAG 61.344 63.158 15.52 0.00 36.95 3.20
811 826 3.584848 AGTCTAATCAAGTTCCCAGCACT 59.415 43.478 0.00 0.00 0.00 4.40
880 895 1.069022 GCAGATCTCAAACAAGCGCAA 60.069 47.619 11.47 0.00 0.00 4.85
881 896 0.518636 GCAGATCTCAAACAAGCGCA 59.481 50.000 11.47 0.00 0.00 6.09
911 926 3.583228 TCTCTTTTGTCCAGGGTACTCA 58.417 45.455 0.00 0.00 0.00 3.41
940 956 3.739810 CGTCTGAACATAGAGGCATCATG 59.260 47.826 0.00 5.26 0.00 3.07
988 1004 3.196901 ACAACACGCATATCTTCCCACTA 59.803 43.478 0.00 0.00 0.00 2.74
1007 1023 9.627123 CATCAAGGGGAATTCTATTAACTACAA 57.373 33.333 5.23 0.00 0.00 2.41
1150 1166 8.670521 ATTTTGATTTTAAGAGGGATCTTGGT 57.329 30.769 0.81 0.00 0.00 3.67
1231 1247 1.287739 GGGATTCCCTGTCCATTTCCA 59.712 52.381 14.98 0.00 41.34 3.53
1254 1270 3.810941 CCACATGTTTGCAAAAAGAGCAT 59.189 39.130 14.67 9.81 42.33 3.79
1272 1288 1.658686 GGTGTTGCACCGTTTCCACA 61.659 55.000 2.31 0.00 44.95 4.17
1304 1320 1.004044 AGACAATTCTGGCCACAGGAG 59.996 52.381 0.00 0.00 44.99 3.69
1573 1589 1.003233 GAAGCTCCTTGGCGTCCTT 60.003 57.895 0.00 0.00 35.33 3.36
1758 1775 1.920574 CAGTCGCATTCCAAGTAGACG 59.079 52.381 0.00 0.00 34.21 4.18
1827 1849 3.589951 AAGCCTGGATAGCATGACATT 57.410 42.857 0.00 0.00 0.00 2.71
1845 1867 2.620251 TGAGTATCATGGGGCGAAAG 57.380 50.000 0.00 0.00 42.56 2.62
1880 1902 2.597578 ACCAGAAAACCCACCATACC 57.402 50.000 0.00 0.00 0.00 2.73
2008 2033 4.058124 TGATCGTTCCTCTCAACAAACTG 58.942 43.478 0.00 0.00 0.00 3.16
2010 2035 4.058817 ACTGATCGTTCCTCTCAACAAAC 58.941 43.478 0.00 0.00 0.00 2.93
2014 2039 4.561105 AGAAACTGATCGTTCCTCTCAAC 58.439 43.478 3.93 0.00 33.90 3.18
2015 2040 4.280929 TGAGAAACTGATCGTTCCTCTCAA 59.719 41.667 20.29 11.61 42.32 3.02
2016 2041 3.826729 TGAGAAACTGATCGTTCCTCTCA 59.173 43.478 19.48 19.48 42.71 3.27
2017 2042 4.442375 TGAGAAACTGATCGTTCCTCTC 57.558 45.455 14.20 15.54 37.81 3.20
2018 2043 4.282195 ACTTGAGAAACTGATCGTTCCTCT 59.718 41.667 14.20 9.70 37.81 3.69
2019 2044 4.561105 ACTTGAGAAACTGATCGTTCCTC 58.439 43.478 8.83 8.83 37.49 3.71
2020 2045 4.608948 ACTTGAGAAACTGATCGTTCCT 57.391 40.909 3.93 0.00 33.90 3.36
2021 2046 4.626172 GGTACTTGAGAAACTGATCGTTCC 59.374 45.833 3.93 0.00 33.90 3.62
2022 2047 4.323868 CGGTACTTGAGAAACTGATCGTTC 59.676 45.833 3.93 0.54 33.90 3.95
2023 2048 4.022589 TCGGTACTTGAGAAACTGATCGTT 60.023 41.667 0.00 0.00 37.47 3.85
2024 2049 3.504906 TCGGTACTTGAGAAACTGATCGT 59.495 43.478 0.00 0.00 0.00 3.73
2025 2050 3.852536 GTCGGTACTTGAGAAACTGATCG 59.147 47.826 0.00 0.00 31.55 3.69
2026 2051 5.061920 AGTCGGTACTTGAGAAACTGATC 57.938 43.478 0.00 0.00 31.55 2.92
2027 2052 6.585695 TTAGTCGGTACTTGAGAAACTGAT 57.414 37.500 0.00 0.00 37.15 2.90
2028 2053 6.433404 AGATTAGTCGGTACTTGAGAAACTGA 59.567 38.462 0.00 0.00 37.15 3.41
2029 2054 6.622549 AGATTAGTCGGTACTTGAGAAACTG 58.377 40.000 0.00 0.00 37.15 3.16
2030 2055 6.837471 AGATTAGTCGGTACTTGAGAAACT 57.163 37.500 0.00 0.00 37.15 2.66
2031 2056 7.597743 TCAAAGATTAGTCGGTACTTGAGAAAC 59.402 37.037 0.00 0.00 37.15 2.78
2032 2057 7.597743 GTCAAAGATTAGTCGGTACTTGAGAAA 59.402 37.037 0.00 0.00 37.15 2.52
2033 2058 7.088905 GTCAAAGATTAGTCGGTACTTGAGAA 58.911 38.462 0.00 0.00 37.15 2.87
2034 2059 6.208007 TGTCAAAGATTAGTCGGTACTTGAGA 59.792 38.462 0.00 0.00 37.15 3.27
2035 2060 6.387465 TGTCAAAGATTAGTCGGTACTTGAG 58.613 40.000 0.00 0.00 37.15 3.02
2036 2061 6.208007 TCTGTCAAAGATTAGTCGGTACTTGA 59.792 38.462 0.00 0.00 37.15 3.02
2037 2062 6.308282 GTCTGTCAAAGATTAGTCGGTACTTG 59.692 42.308 0.00 0.00 37.23 3.16
2038 2063 6.388278 GTCTGTCAAAGATTAGTCGGTACTT 58.612 40.000 0.00 0.00 37.23 2.24
2039 2064 5.391736 CGTCTGTCAAAGATTAGTCGGTACT 60.392 44.000 0.00 0.00 37.23 2.73
2040 2065 4.792189 CGTCTGTCAAAGATTAGTCGGTAC 59.208 45.833 0.00 0.00 37.23 3.34
2041 2066 4.696877 TCGTCTGTCAAAGATTAGTCGGTA 59.303 41.667 0.00 0.00 37.23 4.02
2042 2067 3.504906 TCGTCTGTCAAAGATTAGTCGGT 59.495 43.478 0.00 0.00 37.23 4.69
2043 2068 3.852536 GTCGTCTGTCAAAGATTAGTCGG 59.147 47.826 0.00 0.00 37.23 4.79
2044 2069 3.538782 CGTCGTCTGTCAAAGATTAGTCG 59.461 47.826 0.00 0.00 37.23 4.18
2045 2070 3.301116 GCGTCGTCTGTCAAAGATTAGTC 59.699 47.826 0.00 0.00 37.23 2.59
2046 2071 3.243336 GCGTCGTCTGTCAAAGATTAGT 58.757 45.455 0.00 0.00 37.23 2.24
2047 2072 3.059570 GTGCGTCGTCTGTCAAAGATTAG 59.940 47.826 0.00 0.00 37.23 1.73
2048 2073 2.984471 GTGCGTCGTCTGTCAAAGATTA 59.016 45.455 0.00 0.00 37.23 1.75
2049 2074 1.792949 GTGCGTCGTCTGTCAAAGATT 59.207 47.619 0.00 0.00 37.23 2.40
2050 2075 1.419374 GTGCGTCGTCTGTCAAAGAT 58.581 50.000 0.00 0.00 37.23 2.40
2051 2076 0.596600 GGTGCGTCGTCTGTCAAAGA 60.597 55.000 0.00 0.00 0.00 2.52
2052 2077 0.597637 AGGTGCGTCGTCTGTCAAAG 60.598 55.000 0.00 0.00 0.00 2.77
2053 2078 0.669619 TAGGTGCGTCGTCTGTCAAA 59.330 50.000 0.00 0.00 0.00 2.69
2054 2079 0.885879 ATAGGTGCGTCGTCTGTCAA 59.114 50.000 0.00 0.00 0.00 3.18
2055 2080 0.450583 GATAGGTGCGTCGTCTGTCA 59.549 55.000 0.00 0.00 0.00 3.58
2056 2081 0.450583 TGATAGGTGCGTCGTCTGTC 59.549 55.000 0.00 0.00 0.00 3.51
2057 2082 0.170561 GTGATAGGTGCGTCGTCTGT 59.829 55.000 0.00 0.00 0.00 3.41
2058 2083 0.861866 CGTGATAGGTGCGTCGTCTG 60.862 60.000 0.00 0.00 0.00 3.51
2059 2084 1.022982 TCGTGATAGGTGCGTCGTCT 61.023 55.000 0.00 0.00 0.00 4.18
2060 2085 0.860618 GTCGTGATAGGTGCGTCGTC 60.861 60.000 0.00 0.00 0.00 4.20
2061 2086 1.136147 GTCGTGATAGGTGCGTCGT 59.864 57.895 0.00 0.00 0.00 4.34
2062 2087 1.933041 CGTCGTGATAGGTGCGTCG 60.933 63.158 0.00 0.00 0.00 5.12
2063 2088 2.222217 GCGTCGTGATAGGTGCGTC 61.222 63.158 0.00 0.00 0.00 5.19
2064 2089 2.202570 GCGTCGTGATAGGTGCGT 60.203 61.111 0.00 0.00 0.00 5.24
2065 2090 1.939785 GAGCGTCGTGATAGGTGCG 60.940 63.158 0.00 0.00 0.00 5.34
2066 2091 0.592754 GAGAGCGTCGTGATAGGTGC 60.593 60.000 0.00 0.00 0.00 5.01
2067 2092 0.029567 GGAGAGCGTCGTGATAGGTG 59.970 60.000 0.00 0.00 0.00 4.00
2068 2093 1.102222 GGGAGAGCGTCGTGATAGGT 61.102 60.000 0.00 0.00 0.00 3.08
2069 2094 0.820074 AGGGAGAGCGTCGTGATAGG 60.820 60.000 0.00 0.00 0.00 2.57
2070 2095 0.309302 CAGGGAGAGCGTCGTGATAG 59.691 60.000 0.00 0.00 0.00 2.08
2071 2096 1.725557 GCAGGGAGAGCGTCGTGATA 61.726 60.000 0.00 0.00 0.00 2.15
2072 2097 3.069980 GCAGGGAGAGCGTCGTGAT 62.070 63.158 0.00 0.00 0.00 3.06
2073 2098 3.749064 GCAGGGAGAGCGTCGTGA 61.749 66.667 0.00 0.00 0.00 4.35
2074 2099 3.691744 GAGCAGGGAGAGCGTCGTG 62.692 68.421 0.00 0.00 37.01 4.35
2075 2100 3.444805 GAGCAGGGAGAGCGTCGT 61.445 66.667 0.00 0.00 37.01 4.34
2076 2101 4.200283 GGAGCAGGGAGAGCGTCG 62.200 72.222 0.00 0.00 37.01 5.12
2077 2102 1.454111 TAGGAGCAGGGAGAGCGTC 60.454 63.158 0.00 0.00 37.01 5.19
2078 2103 1.755008 GTAGGAGCAGGGAGAGCGT 60.755 63.158 0.00 0.00 37.01 5.07
2079 2104 1.040339 AAGTAGGAGCAGGGAGAGCG 61.040 60.000 0.00 0.00 37.01 5.03
2080 2105 1.199615 AAAGTAGGAGCAGGGAGAGC 58.800 55.000 0.00 0.00 0.00 4.09
2081 2106 3.990959 AAAAAGTAGGAGCAGGGAGAG 57.009 47.619 0.00 0.00 0.00 3.20
2099 2124 3.118445 CCCCTTTGCCTGAAAGTCAAAAA 60.118 43.478 0.00 0.00 39.71 1.94
2100 2125 2.433970 CCCCTTTGCCTGAAAGTCAAAA 59.566 45.455 0.00 0.00 39.71 2.44
2101 2126 2.038659 CCCCTTTGCCTGAAAGTCAAA 58.961 47.619 0.00 0.00 39.71 2.69
2102 2127 1.216678 TCCCCTTTGCCTGAAAGTCAA 59.783 47.619 0.00 0.00 39.71 3.18
2103 2128 0.850100 TCCCCTTTGCCTGAAAGTCA 59.150 50.000 0.00 0.00 39.71 3.41
2104 2129 1.073923 TCTCCCCTTTGCCTGAAAGTC 59.926 52.381 0.00 0.00 39.71 3.01
2105 2130 1.149101 TCTCCCCTTTGCCTGAAAGT 58.851 50.000 0.00 0.00 39.71 2.66
2106 2131 2.521547 ATCTCCCCTTTGCCTGAAAG 57.478 50.000 0.00 0.00 40.86 2.62
2107 2132 3.269381 ACATATCTCCCCTTTGCCTGAAA 59.731 43.478 0.00 0.00 0.00 2.69
2108 2133 2.852449 ACATATCTCCCCTTTGCCTGAA 59.148 45.455 0.00 0.00 0.00 3.02
2109 2134 2.492025 ACATATCTCCCCTTTGCCTGA 58.508 47.619 0.00 0.00 0.00 3.86
2110 2135 3.303351 AACATATCTCCCCTTTGCCTG 57.697 47.619 0.00 0.00 0.00 4.85
2111 2136 6.332901 AGTTATAACATATCTCCCCTTTGCCT 59.667 38.462 17.65 0.00 0.00 4.75
2112 2137 6.543735 AGTTATAACATATCTCCCCTTTGCC 58.456 40.000 17.65 0.00 0.00 4.52
2113 2138 7.824779 CCTAGTTATAACATATCTCCCCTTTGC 59.175 40.741 17.65 0.00 0.00 3.68
2114 2139 8.322091 CCCTAGTTATAACATATCTCCCCTTTG 58.678 40.741 17.65 0.00 0.00 2.77
2115 2140 8.246615 TCCCTAGTTATAACATATCTCCCCTTT 58.753 37.037 17.65 0.00 0.00 3.11
2116 2141 7.786968 TCCCTAGTTATAACATATCTCCCCTT 58.213 38.462 17.65 0.00 0.00 3.95
2117 2142 7.372060 TCCCTAGTTATAACATATCTCCCCT 57.628 40.000 17.65 0.00 0.00 4.79
2118 2143 6.612049 CCTCCCTAGTTATAACATATCTCCCC 59.388 46.154 17.65 0.00 0.00 4.81
2119 2144 7.420029 TCCTCCCTAGTTATAACATATCTCCC 58.580 42.308 17.65 0.00 0.00 4.30
2120 2145 7.562088 CCTCCTCCCTAGTTATAACATATCTCC 59.438 44.444 17.65 0.00 0.00 3.71
2121 2146 7.068962 GCCTCCTCCCTAGTTATAACATATCTC 59.931 44.444 17.65 0.00 0.00 2.75
2122 2147 6.898521 GCCTCCTCCCTAGTTATAACATATCT 59.101 42.308 17.65 0.00 0.00 1.98
2123 2148 6.183360 CGCCTCCTCCCTAGTTATAACATATC 60.183 46.154 17.65 0.00 0.00 1.63
2124 2149 5.657302 CGCCTCCTCCCTAGTTATAACATAT 59.343 44.000 17.65 0.00 0.00 1.78
2125 2150 5.014858 CGCCTCCTCCCTAGTTATAACATA 58.985 45.833 17.65 6.52 0.00 2.29
2126 2151 3.833070 CGCCTCCTCCCTAGTTATAACAT 59.167 47.826 17.65 5.73 0.00 2.71
2127 2152 3.117398 TCGCCTCCTCCCTAGTTATAACA 60.117 47.826 17.65 3.41 0.00 2.41
2128 2153 3.255395 GTCGCCTCCTCCCTAGTTATAAC 59.745 52.174 7.57 7.57 0.00 1.89
2129 2154 3.494332 GTCGCCTCCTCCCTAGTTATAA 58.506 50.000 0.00 0.00 0.00 0.98
2130 2155 2.224967 GGTCGCCTCCTCCCTAGTTATA 60.225 54.545 0.00 0.00 0.00 0.98
2131 2156 1.480869 GGTCGCCTCCTCCCTAGTTAT 60.481 57.143 0.00 0.00 0.00 1.89
2132 2157 0.106318 GGTCGCCTCCTCCCTAGTTA 60.106 60.000 0.00 0.00 0.00 2.24
2133 2158 1.381463 GGTCGCCTCCTCCCTAGTT 60.381 63.158 0.00 0.00 0.00 2.24
2134 2159 2.279408 GGTCGCCTCCTCCCTAGT 59.721 66.667 0.00 0.00 0.00 2.57
2135 2160 2.907917 CGGTCGCCTCCTCCCTAG 60.908 72.222 0.00 0.00 0.00 3.02
2136 2161 3.414193 TCGGTCGCCTCCTCCCTA 61.414 66.667 0.00 0.00 0.00 3.53
2137 2162 4.824515 CTCGGTCGCCTCCTCCCT 62.825 72.222 0.00 0.00 0.00 4.20
2138 2163 3.711059 TACTCGGTCGCCTCCTCCC 62.711 68.421 0.00 0.00 0.00 4.30
2139 2164 2.124403 TACTCGGTCGCCTCCTCC 60.124 66.667 0.00 0.00 0.00 4.30
2140 2165 2.821688 CGTACTCGGTCGCCTCCTC 61.822 68.421 0.00 0.00 0.00 3.71
2141 2166 2.823147 CGTACTCGGTCGCCTCCT 60.823 66.667 0.00 0.00 0.00 3.69
2142 2167 2.821366 TCGTACTCGGTCGCCTCC 60.821 66.667 0.00 0.00 37.69 4.30
2143 2168 1.764180 CTCTCGTACTCGGTCGCCTC 61.764 65.000 0.00 0.00 37.69 4.70
2144 2169 1.814586 CTCTCGTACTCGGTCGCCT 60.815 63.158 0.00 0.00 37.69 5.52
2145 2170 2.708255 CTCTCGTACTCGGTCGCC 59.292 66.667 0.00 0.00 37.69 5.54
2146 2171 1.764180 CTCCTCTCGTACTCGGTCGC 61.764 65.000 0.00 0.00 37.69 5.19
2147 2172 1.152989 CCTCCTCTCGTACTCGGTCG 61.153 65.000 0.00 0.00 37.69 4.79
2148 2173 0.814812 CCCTCCTCTCGTACTCGGTC 60.815 65.000 0.00 0.00 37.69 4.79
2149 2174 1.224039 CCCTCCTCTCGTACTCGGT 59.776 63.158 0.00 0.00 37.69 4.69
2150 2175 2.188161 GCCCTCCTCTCGTACTCGG 61.188 68.421 0.00 0.00 37.69 4.63
2151 2176 1.440938 CTGCCCTCCTCTCGTACTCG 61.441 65.000 0.00 0.00 38.55 4.18
2152 2177 1.104577 CCTGCCCTCCTCTCGTACTC 61.105 65.000 0.00 0.00 0.00 2.59
2153 2178 1.076632 CCTGCCCTCCTCTCGTACT 60.077 63.158 0.00 0.00 0.00 2.73
2154 2179 2.128507 CCCTGCCCTCCTCTCGTAC 61.129 68.421 0.00 0.00 0.00 3.67
2155 2180 2.279073 CCCTGCCCTCCTCTCGTA 59.721 66.667 0.00 0.00 0.00 3.43
2156 2181 3.673597 TCCCTGCCCTCCTCTCGT 61.674 66.667 0.00 0.00 0.00 4.18
2157 2182 3.151022 GTCCCTGCCCTCCTCTCG 61.151 72.222 0.00 0.00 0.00 4.04
2158 2183 2.039624 TGTCCCTGCCCTCCTCTC 59.960 66.667 0.00 0.00 0.00 3.20
2159 2184 2.040278 CTGTCCCTGCCCTCCTCT 59.960 66.667 0.00 0.00 0.00 3.69
2160 2185 3.791586 GCTGTCCCTGCCCTCCTC 61.792 72.222 0.00 0.00 0.00 3.71
2161 2186 4.345286 AGCTGTCCCTGCCCTCCT 62.345 66.667 0.00 0.00 0.00 3.69
2162 2187 3.791586 GAGCTGTCCCTGCCCTCC 61.792 72.222 0.00 0.00 0.00 4.30
2163 2188 4.154347 CGAGCTGTCCCTGCCCTC 62.154 72.222 0.00 0.00 0.00 4.30
2167 2192 4.828925 GAGGCGAGCTGTCCCTGC 62.829 72.222 0.00 0.00 0.00 4.85
2168 2193 4.154347 GGAGGCGAGCTGTCCCTG 62.154 72.222 0.00 0.00 0.00 4.45
2169 2194 4.704103 TGGAGGCGAGCTGTCCCT 62.704 66.667 12.30 0.00 0.00 4.20
2170 2195 3.672295 CTTGGAGGCGAGCTGTCCC 62.672 68.421 12.30 0.00 0.00 4.46
2171 2196 2.125350 CTTGGAGGCGAGCTGTCC 60.125 66.667 0.00 9.20 0.00 4.02
2172 2197 2.817396 GCTTGGAGGCGAGCTGTC 60.817 66.667 0.00 0.00 36.01 3.51
2173 2198 3.317571 AGCTTGGAGGCGAGCTGT 61.318 61.111 0.00 0.00 46.82 4.40
2177 2202 2.818714 CTGCAGCTTGGAGGCGAG 60.819 66.667 0.00 0.00 31.71 5.03
2188 2213 1.384989 ATTGCCTGATGAGCTGCAGC 61.385 55.000 31.53 31.53 42.49 5.25
2189 2214 1.103803 AATTGCCTGATGAGCTGCAG 58.896 50.000 10.11 10.11 34.81 4.41
2190 2215 0.815095 CAATTGCCTGATGAGCTGCA 59.185 50.000 1.02 0.00 0.00 4.41
2191 2216 0.527817 GCAATTGCCTGATGAGCTGC 60.528 55.000 20.06 0.00 34.31 5.25
2192 2217 3.642901 GCAATTGCCTGATGAGCTG 57.357 52.632 20.06 0.00 34.31 4.24
2214 2239 1.764723 CTGGGGTCATACTGAGATGCA 59.235 52.381 0.00 0.00 0.00 3.96
2215 2240 1.542108 GCTGGGGTCATACTGAGATGC 60.542 57.143 0.00 0.00 0.00 3.91
2216 2241 2.045524 AGCTGGGGTCATACTGAGATG 58.954 52.381 0.00 0.00 0.00 2.90
2217 2242 2.485966 AGCTGGGGTCATACTGAGAT 57.514 50.000 0.00 0.00 0.00 2.75
2218 2243 2.024369 TGTAGCTGGGGTCATACTGAGA 60.024 50.000 0.00 0.00 0.00 3.27
2219 2244 2.388735 TGTAGCTGGGGTCATACTGAG 58.611 52.381 0.00 0.00 0.00 3.35
2220 2245 2.500098 GTTGTAGCTGGGGTCATACTGA 59.500 50.000 0.00 0.00 0.00 3.41
2221 2246 2.501723 AGTTGTAGCTGGGGTCATACTG 59.498 50.000 0.00 0.00 0.00 2.74
2222 2247 2.834113 AGTTGTAGCTGGGGTCATACT 58.166 47.619 0.00 0.00 0.00 2.12
2223 2248 3.629142 AAGTTGTAGCTGGGGTCATAC 57.371 47.619 0.00 0.00 0.00 2.39
2224 2249 3.308117 CCAAAGTTGTAGCTGGGGTCATA 60.308 47.826 0.00 0.00 0.00 2.15
2225 2250 2.555227 CCAAAGTTGTAGCTGGGGTCAT 60.555 50.000 0.00 0.00 0.00 3.06
2226 2251 1.202879 CCAAAGTTGTAGCTGGGGTCA 60.203 52.381 0.00 0.00 0.00 4.02
2227 2252 1.073284 TCCAAAGTTGTAGCTGGGGTC 59.927 52.381 0.00 0.00 0.00 4.46
2228 2253 1.145571 TCCAAAGTTGTAGCTGGGGT 58.854 50.000 0.00 0.00 0.00 4.95
2229 2254 2.514458 ATCCAAAGTTGTAGCTGGGG 57.486 50.000 0.00 0.00 0.00 4.96
2230 2255 4.137543 GGATATCCAAAGTTGTAGCTGGG 58.862 47.826 17.34 0.00 35.64 4.45
2231 2256 3.809832 CGGATATCCAAAGTTGTAGCTGG 59.190 47.826 21.70 0.00 35.14 4.85
2232 2257 3.248602 GCGGATATCCAAAGTTGTAGCTG 59.751 47.826 21.70 1.62 35.14 4.24
2233 2258 3.467803 GCGGATATCCAAAGTTGTAGCT 58.532 45.455 21.70 0.00 35.14 3.32
2234 2259 3.879932 GCGGATATCCAAAGTTGTAGC 57.120 47.619 21.70 9.37 35.14 3.58


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

AutoCloner maintained by Alex Coulton.