Multiple sequence alignment - TraesCS2B01G278600

Loading Multiple Alignment...

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 TraesCS2B01G278600 chr2B 100.000 2425 0 0 1 2425 384399323 384401747 0.000000e+00 4479.0
1 TraesCS2B01G278600 chr2B 84.615 182 24 4 2113 2292 551953210 551953389 6.890000e-41 178.0
2 TraesCS2B01G278600 chr2B 84.746 59 9 0 1162 1220 669649031 669648973 2.600000e-05 60.2
3 TraesCS2B01G278600 chr2D 94.331 1658 45 20 350 1968 316327607 316329254 0.000000e+00 2495.0
4 TraesCS2B01G278600 chr2D 99.065 107 1 0 1968 2074 316329288 316329394 2.460000e-45 193.0
5 TraesCS2B01G278600 chr2D 84.746 59 9 0 1162 1220 560991630 560991572 2.600000e-05 60.2
6 TraesCS2B01G278600 chr2A 95.777 1113 36 5 741 1842 418795448 418794336 0.000000e+00 1784.0
7 TraesCS2B01G278600 chr2A 92.953 596 24 6 156 750 418796623 418796045 0.000000e+00 852.0
8 TraesCS2B01G278600 chr2A 96.552 145 5 0 1968 2112 418793664 418793520 8.660000e-60 241.0
9 TraesCS2B01G278600 chr2A 88.889 162 9 2 1 161 418797317 418797164 8.850000e-45 191.0
10 TraesCS2B01G278600 chr2A 81.868 182 28 5 2113 2292 9332383 9332561 5.400000e-32 148.0
11 TraesCS2B01G278600 chr2A 96.078 51 2 0 1907 1957 418793756 418793706 1.550000e-12 84.2
12 TraesCS2B01G278600 chr2A 86.441 59 8 0 1162 1220 700976012 700975954 5.600000e-07 65.8
13 TraesCS2B01G278600 chr4B 85.789 190 21 6 2113 2298 599574991 599574804 1.900000e-46 196.0
14 TraesCS2B01G278600 chr4B 84.783 184 22 6 2113 2292 493608681 493608862 1.920000e-41 180.0
15 TraesCS2B01G278600 chr4A 83.598 189 26 5 2113 2298 736582556 736582370 3.210000e-39 172.0
16 TraesCS2B01G278600 chr4A 81.481 189 30 5 2113 2298 736585134 736584948 1.500000e-32 150.0
17 TraesCS2B01G278600 chr3A 81.383 188 31 4 2113 2298 328517457 328517642 1.500000e-32 150.0
18 TraesCS2B01G278600 chr7D 81.967 183 25 6 2113 2292 28383382 28383559 5.400000e-32 148.0
19 TraesCS2B01G278600 chr7D 85.897 78 8 1 2035 2112 395220109 395220183 2.000000e-11 80.5
20 TraesCS2B01G278600 chr1B 81.622 185 28 6 2113 2295 50397667 50397487 5.400000e-32 148.0
21 TraesCS2B01G278600 chr5B 75.221 226 43 8 1012 1231 580844064 580843846 7.140000e-16 95.3
22 TraesCS2B01G278600 chr5A 74.561 228 48 6 1015 1239 593340523 593340303 9.230000e-15 91.6
23 TraesCS2B01G278600 chr5A 81.132 106 15 3 1121 1222 139083444 139083548 2.000000e-11 80.5
24 TraesCS2B01G278600 chr7B 87.500 80 7 1 2033 2112 161606391 161606467 3.320000e-14 89.8
25 TraesCS2B01G278600 chr7B 87.342 79 7 1 2034 2112 161624699 161624774 1.190000e-13 87.9
26 TraesCS2B01G278600 chr5D 88.462 52 6 0 1299 1350 473848570 473848519 2.010000e-06 63.9


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 TraesCS2B01G278600 chr2B 384399323 384401747 2424 False 4479.00 4479 100.0000 1 2425 1 chr2B.!!$F1 2424
1 TraesCS2B01G278600 chr2D 316327607 316329394 1787 False 1344.00 2495 96.6980 350 2074 2 chr2D.!!$F1 1724
2 TraesCS2B01G278600 chr2A 418793520 418797317 3797 True 630.44 1784 94.0498 1 2112 5 chr2A.!!$R2 2111

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
539 1089 0.391263 CTCCGAACAGGGCAGGTAAC 60.391 60.0 0.0 0.0 41.52 2.5 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2347 4075 0.026674 CGGCGGCATATGCATAATCG 59.973 55.0 28.07 21.49 44.36 3.34 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
32 33 5.510430 AGACATGTCTCGCTCCCATATATA 58.490 41.667 22.89 0.00 34.17 0.86
33 34 6.132658 AGACATGTCTCGCTCCCATATATAT 58.867 40.000 22.89 0.00 34.17 0.86
34 35 6.040278 AGACATGTCTCGCTCCCATATATATG 59.960 42.308 22.89 14.78 34.17 1.78
43 45 5.303078 CGCTCCCATATATATGCTAGAAGGT 59.697 44.000 16.08 0.00 32.40 3.50
56 58 5.054477 TGCTAGAAGGTGTTTGTGTACTTC 58.946 41.667 0.00 0.00 38.20 3.01
60 62 5.063880 AGAAGGTGTTTGTGTACTTCCATC 58.936 41.667 0.00 0.00 38.58 3.51
79 81 3.330192 TGTTGCCACACACCTCCT 58.670 55.556 0.00 0.00 0.00 3.69
80 82 1.152984 TGTTGCCACACACCTCCTG 60.153 57.895 0.00 0.00 0.00 3.86
106 108 2.439156 GGCTCCACCACTCCATGC 60.439 66.667 0.00 0.00 38.86 4.06
108 110 1.303561 GCTCCACCACTCCATGCAA 60.304 57.895 0.00 0.00 0.00 4.08
119 121 4.022068 CCACTCCATGCAACATGTTAACTT 60.022 41.667 11.53 2.24 0.00 2.66
136 138 4.762289 AACTTGAGGGAGGCTACAATAG 57.238 45.455 0.00 0.00 0.00 1.73
186 734 2.224670 ACAAATGTGGTGTGGACCGTAT 60.225 45.455 0.00 0.00 46.62 3.06
199 747 2.808543 GGACCGTATGATCTTCAATGGC 59.191 50.000 0.00 0.00 0.00 4.40
233 781 1.140452 CTGAGAGGGTGGATGGATGTG 59.860 57.143 0.00 0.00 0.00 3.21
241 789 6.103205 AGAGGGTGGATGGATGTGTTTTATAT 59.897 38.462 0.00 0.00 0.00 0.86
302 850 0.396435 TGTCCCTGACAGCAAATCGT 59.604 50.000 0.00 0.00 37.67 3.73
335 883 4.546674 TCTAGCAATCCTGTAGATGGACA 58.453 43.478 0.00 0.00 36.30 4.02
524 1074 4.389576 GCGGCTTTGCACACTCCG 62.390 66.667 10.44 10.44 42.68 4.63
539 1089 0.391263 CTCCGAACAGGGCAGGTAAC 60.391 60.000 0.00 0.00 41.52 2.50
540 1090 1.740296 CCGAACAGGGCAGGTAACG 60.740 63.158 0.00 0.00 37.96 3.18
572 1122 2.336667 CGATTTGGAATTGGGTGCAAC 58.663 47.619 0.00 0.00 0.00 4.17
600 1150 4.546829 TTACCTAGCTTTCACCGTCATT 57.453 40.909 0.00 0.00 0.00 2.57
704 1256 6.804783 GCGTAATTTGCCGCCTTATAATATTT 59.195 34.615 0.00 0.00 43.96 1.40
705 1257 7.201316 GCGTAATTTGCCGCCTTATAATATTTG 60.201 37.037 0.00 0.00 43.96 2.32
950 2108 0.979811 CCGTACGTGTCTTGCGTTAG 59.020 55.000 15.21 0.00 42.85 2.34
965 2126 8.601476 GTCTTGCGTTAGCTAATAAATACTTGT 58.399 33.333 9.88 0.00 45.42 3.16
1513 2682 2.815211 CACGGCCGGAGTCATGTG 60.815 66.667 31.76 12.25 0.00 3.21
1539 2713 2.138320 CCGTCGTAGCTCGGTAGATAA 58.862 52.381 3.49 0.00 39.10 1.75
1860 3301 0.659957 GCTAGCCTCAAAATCTGCGG 59.340 55.000 2.29 0.00 32.56 5.69
1886 3548 2.100989 AGGGTACTCGAGTGCTTTAGG 58.899 52.381 28.89 0.00 0.00 2.69
1899 3561 2.360801 TGCTTTAGGAAGGTTGCAACAC 59.639 45.455 29.55 18.84 33.34 3.32
1901 3563 3.005791 GCTTTAGGAAGGTTGCAACACAT 59.994 43.478 29.55 19.20 33.34 3.21
2126 3854 6.806751 TCTCTCAAGGTGTTAGAATAATCCG 58.193 40.000 0.00 0.00 0.00 4.18
2127 3855 6.605995 TCTCTCAAGGTGTTAGAATAATCCGA 59.394 38.462 0.00 0.00 0.00 4.55
2128 3856 7.123697 TCTCTCAAGGTGTTAGAATAATCCGAA 59.876 37.037 0.00 0.00 0.00 4.30
2129 3857 7.265673 TCTCAAGGTGTTAGAATAATCCGAAG 58.734 38.462 0.00 0.00 0.00 3.79
2130 3858 5.815740 TCAAGGTGTTAGAATAATCCGAAGC 59.184 40.000 0.00 0.00 0.00 3.86
2131 3859 4.369182 AGGTGTTAGAATAATCCGAAGCG 58.631 43.478 0.00 0.00 0.00 4.68
2132 3860 3.059800 GGTGTTAGAATAATCCGAAGCGC 60.060 47.826 0.00 0.00 0.00 5.92
2133 3861 3.554324 GTGTTAGAATAATCCGAAGCGCA 59.446 43.478 11.47 0.00 0.00 6.09
2134 3862 3.554324 TGTTAGAATAATCCGAAGCGCAC 59.446 43.478 11.47 1.68 0.00 5.34
2135 3863 1.209128 AGAATAATCCGAAGCGCACG 58.791 50.000 11.47 15.25 0.00 5.34
2136 3864 0.928229 GAATAATCCGAAGCGCACGT 59.072 50.000 21.23 9.25 0.00 4.49
2137 3865 0.928229 AATAATCCGAAGCGCACGTC 59.072 50.000 21.23 10.26 0.00 4.34
2138 3866 1.206745 ATAATCCGAAGCGCACGTCG 61.207 55.000 21.23 19.59 45.74 5.12
2143 3871 4.684265 GAAGCGCACGTCGATCTA 57.316 55.556 11.47 0.00 41.67 1.98
2144 3872 2.196497 GAAGCGCACGTCGATCTAC 58.804 57.895 11.47 0.00 41.67 2.59
2145 3873 1.201098 GAAGCGCACGTCGATCTACC 61.201 60.000 11.47 0.00 41.67 3.18
2146 3874 2.914797 AAGCGCACGTCGATCTACCG 62.915 60.000 11.47 0.00 41.67 4.02
2147 3875 2.705220 CGCACGTCGATCTACCGA 59.295 61.111 0.00 0.00 41.67 4.69
2148 3876 1.367782 CGCACGTCGATCTACCGAG 60.368 63.158 0.00 0.00 41.67 4.63
2149 3877 1.009900 GCACGTCGATCTACCGAGG 60.010 63.158 0.00 0.00 46.16 4.63
2150 3878 1.434622 GCACGTCGATCTACCGAGGA 61.435 60.000 11.97 0.00 44.30 3.71
2151 3879 0.304098 CACGTCGATCTACCGAGGAC 59.696 60.000 11.97 0.00 44.30 3.85
2152 3880 0.813210 ACGTCGATCTACCGAGGACC 60.813 60.000 11.97 0.00 44.30 4.46
2153 3881 0.812811 CGTCGATCTACCGAGGACCA 60.813 60.000 0.00 0.00 44.30 4.02
2154 3882 1.386533 GTCGATCTACCGAGGACCAA 58.613 55.000 0.00 0.00 39.43 3.67
2155 3883 1.334243 GTCGATCTACCGAGGACCAAG 59.666 57.143 0.00 0.00 39.43 3.61
2156 3884 1.064906 TCGATCTACCGAGGACCAAGT 60.065 52.381 0.00 0.00 34.19 3.16
2157 3885 2.171237 TCGATCTACCGAGGACCAAGTA 59.829 50.000 0.00 0.00 34.19 2.24
2158 3886 2.947652 CGATCTACCGAGGACCAAGTAA 59.052 50.000 0.00 0.00 0.00 2.24
2159 3887 3.568853 CGATCTACCGAGGACCAAGTAAT 59.431 47.826 0.00 0.00 0.00 1.89
2160 3888 4.320348 CGATCTACCGAGGACCAAGTAATC 60.320 50.000 0.00 0.00 0.00 1.75
2161 3889 3.972133 TCTACCGAGGACCAAGTAATCA 58.028 45.455 0.00 0.00 0.00 2.57
2162 3890 3.698040 TCTACCGAGGACCAAGTAATCAC 59.302 47.826 0.00 0.00 0.00 3.06
2163 3891 2.253610 ACCGAGGACCAAGTAATCACA 58.746 47.619 0.00 0.00 0.00 3.58
2164 3892 2.028385 ACCGAGGACCAAGTAATCACAC 60.028 50.000 0.00 0.00 0.00 3.82
2165 3893 2.259618 CGAGGACCAAGTAATCACACG 58.740 52.381 0.00 0.00 0.00 4.49
2166 3894 2.094906 CGAGGACCAAGTAATCACACGA 60.095 50.000 0.00 0.00 0.00 4.35
2167 3895 3.512680 GAGGACCAAGTAATCACACGAG 58.487 50.000 0.00 0.00 0.00 4.18
2168 3896 2.897969 AGGACCAAGTAATCACACGAGT 59.102 45.455 0.00 0.00 0.00 4.18
2169 3897 4.084287 AGGACCAAGTAATCACACGAGTA 58.916 43.478 0.00 0.00 0.00 2.59
2170 3898 4.710375 AGGACCAAGTAATCACACGAGTAT 59.290 41.667 0.00 0.00 0.00 2.12
2171 3899 4.804139 GGACCAAGTAATCACACGAGTATG 59.196 45.833 0.00 0.00 0.00 2.39
2172 3900 4.755411 ACCAAGTAATCACACGAGTATGG 58.245 43.478 0.00 0.00 31.23 2.74
2173 3901 4.222145 ACCAAGTAATCACACGAGTATGGT 59.778 41.667 0.00 0.00 32.73 3.55
2174 3902 5.419788 ACCAAGTAATCACACGAGTATGGTA 59.580 40.000 0.00 0.00 34.75 3.25
2175 3903 6.097839 ACCAAGTAATCACACGAGTATGGTAT 59.902 38.462 0.00 0.00 34.75 2.73
2176 3904 6.984474 CCAAGTAATCACACGAGTATGGTATT 59.016 38.462 0.00 0.00 0.00 1.89
2177 3905 7.042725 CCAAGTAATCACACGAGTATGGTATTG 60.043 40.741 0.00 0.00 0.00 1.90
2178 3906 5.983720 AGTAATCACACGAGTATGGTATTGC 59.016 40.000 0.00 0.00 0.00 3.56
2179 3907 2.804647 TCACACGAGTATGGTATTGCG 58.195 47.619 0.00 0.00 0.00 4.85
2180 3908 2.424246 TCACACGAGTATGGTATTGCGA 59.576 45.455 0.00 0.00 0.00 5.10
2181 3909 3.067601 TCACACGAGTATGGTATTGCGAT 59.932 43.478 0.00 0.00 0.00 4.58
2182 3910 3.802139 CACACGAGTATGGTATTGCGATT 59.198 43.478 0.00 0.00 0.00 3.34
2183 3911 4.270084 CACACGAGTATGGTATTGCGATTT 59.730 41.667 0.00 0.00 0.00 2.17
2184 3912 4.270084 ACACGAGTATGGTATTGCGATTTG 59.730 41.667 0.00 0.00 0.00 2.32
2185 3913 4.270084 CACGAGTATGGTATTGCGATTTGT 59.730 41.667 0.00 0.00 0.00 2.83
2186 3914 4.873827 ACGAGTATGGTATTGCGATTTGTT 59.126 37.500 0.00 0.00 0.00 2.83
2187 3915 6.019398 CACGAGTATGGTATTGCGATTTGTTA 60.019 38.462 0.00 0.00 0.00 2.41
2188 3916 6.535865 ACGAGTATGGTATTGCGATTTGTTAA 59.464 34.615 0.00 0.00 0.00 2.01
2189 3917 6.844279 CGAGTATGGTATTGCGATTTGTTAAC 59.156 38.462 0.00 0.00 0.00 2.01
2190 3918 6.711579 AGTATGGTATTGCGATTTGTTAACG 58.288 36.000 0.26 0.00 0.00 3.18
2191 3919 5.804692 ATGGTATTGCGATTTGTTAACGA 57.195 34.783 0.26 0.00 0.00 3.85
2192 3920 5.211266 TGGTATTGCGATTTGTTAACGAG 57.789 39.130 0.26 0.00 0.00 4.18
2193 3921 4.093703 TGGTATTGCGATTTGTTAACGAGG 59.906 41.667 0.26 0.00 0.00 4.63
2194 3922 4.093850 GGTATTGCGATTTGTTAACGAGGT 59.906 41.667 0.26 0.00 0.00 3.85
2195 3923 4.759516 ATTGCGATTTGTTAACGAGGTT 57.240 36.364 0.26 0.00 0.00 3.50
2196 3924 3.529634 TGCGATTTGTTAACGAGGTTG 57.470 42.857 0.26 0.00 0.00 3.77
2197 3925 3.132160 TGCGATTTGTTAACGAGGTTGA 58.868 40.909 0.26 0.00 0.00 3.18
2198 3926 3.059461 TGCGATTTGTTAACGAGGTTGAC 60.059 43.478 0.26 0.00 33.55 3.18
2199 3927 3.666111 GCGATTTGTTAACGAGGTTGACC 60.666 47.826 0.26 0.00 32.24 4.02
2200 3928 3.495377 CGATTTGTTAACGAGGTTGACCA 59.505 43.478 2.56 0.00 38.89 4.02
2201 3929 4.153475 CGATTTGTTAACGAGGTTGACCAT 59.847 41.667 2.56 0.00 38.89 3.55
2202 3930 5.622770 ATTTGTTAACGAGGTTGACCATC 57.377 39.130 2.56 0.00 38.89 3.51
2203 3931 3.755112 TGTTAACGAGGTTGACCATCA 57.245 42.857 2.56 0.00 38.89 3.07
2204 3932 4.280436 TGTTAACGAGGTTGACCATCAT 57.720 40.909 2.56 0.00 38.89 2.45
2205 3933 4.000325 TGTTAACGAGGTTGACCATCATG 59.000 43.478 2.56 0.00 38.89 3.07
2206 3934 2.113860 AACGAGGTTGACCATCATGG 57.886 50.000 0.54 0.54 45.02 3.66
2207 3935 0.392998 ACGAGGTTGACCATCATGGC 60.393 55.000 2.52 0.00 42.67 4.40
2208 3936 0.107508 CGAGGTTGACCATCATGGCT 60.108 55.000 2.52 0.00 42.67 4.75
2209 3937 1.138859 CGAGGTTGACCATCATGGCTA 59.861 52.381 2.52 0.00 42.67 3.93
2210 3938 2.419990 CGAGGTTGACCATCATGGCTAA 60.420 50.000 2.52 0.00 42.67 3.09
2211 3939 3.620488 GAGGTTGACCATCATGGCTAAA 58.380 45.455 2.52 0.00 42.67 1.85
2212 3940 4.210331 GAGGTTGACCATCATGGCTAAAT 58.790 43.478 2.52 0.00 42.67 1.40
2213 3941 4.210331 AGGTTGACCATCATGGCTAAATC 58.790 43.478 2.52 0.00 42.67 2.17
2214 3942 3.319122 GGTTGACCATCATGGCTAAATCC 59.681 47.826 2.52 0.00 42.67 3.01
2215 3943 4.210331 GTTGACCATCATGGCTAAATCCT 58.790 43.478 2.52 0.00 42.67 3.24
2216 3944 4.090761 TGACCATCATGGCTAAATCCTC 57.909 45.455 2.52 0.00 42.67 3.71
2217 3945 3.070018 GACCATCATGGCTAAATCCTCG 58.930 50.000 2.52 0.00 42.67 4.63
2218 3946 2.224621 ACCATCATGGCTAAATCCTCGG 60.225 50.000 2.52 0.00 42.67 4.63
2219 3947 2.430465 CATCATGGCTAAATCCTCGGG 58.570 52.381 0.00 0.00 0.00 5.14
2220 3948 0.764890 TCATGGCTAAATCCTCGGGG 59.235 55.000 0.00 0.00 0.00 5.73
2221 3949 0.890996 CATGGCTAAATCCTCGGGGC 60.891 60.000 0.00 0.00 0.00 5.80
2222 3950 1.352622 ATGGCTAAATCCTCGGGGCA 61.353 55.000 0.00 0.00 36.93 5.36
2223 3951 1.352622 TGGCTAAATCCTCGGGGCAT 61.353 55.000 0.00 0.00 0.00 4.40
2224 3952 0.178990 GGCTAAATCCTCGGGGCATT 60.179 55.000 0.00 0.00 0.00 3.56
2225 3953 1.073284 GGCTAAATCCTCGGGGCATTA 59.927 52.381 0.00 0.00 0.00 1.90
2226 3954 2.488347 GGCTAAATCCTCGGGGCATTAA 60.488 50.000 0.00 0.00 0.00 1.40
2227 3955 2.552743 GCTAAATCCTCGGGGCATTAAC 59.447 50.000 0.00 0.00 0.00 2.01
2228 3956 3.747708 GCTAAATCCTCGGGGCATTAACT 60.748 47.826 0.00 0.00 0.00 2.24
2229 3957 4.504340 GCTAAATCCTCGGGGCATTAACTA 60.504 45.833 0.00 0.00 0.00 2.24
2230 3958 3.487120 AATCCTCGGGGCATTAACTAC 57.513 47.619 0.00 0.00 0.00 2.73
2231 3959 0.748450 TCCTCGGGGCATTAACTACG 59.252 55.000 0.00 0.00 0.00 3.51
2232 3960 0.249741 CCTCGGGGCATTAACTACGG 60.250 60.000 0.00 0.00 0.00 4.02
2233 3961 0.748450 CTCGGGGCATTAACTACGGA 59.252 55.000 0.00 0.00 0.00 4.69
2234 3962 1.343465 CTCGGGGCATTAACTACGGAT 59.657 52.381 0.00 0.00 0.00 4.18
2235 3963 1.069513 TCGGGGCATTAACTACGGATG 59.930 52.381 0.00 0.00 0.00 3.51
2236 3964 1.235724 GGGGCATTAACTACGGATGC 58.764 55.000 0.00 0.00 44.06 3.91
2237 3965 1.202770 GGGGCATTAACTACGGATGCT 60.203 52.381 7.39 0.00 44.19 3.79
2238 3966 2.143925 GGGCATTAACTACGGATGCTC 58.856 52.381 7.39 0.00 44.19 4.26
2239 3967 2.224305 GGGCATTAACTACGGATGCTCT 60.224 50.000 7.39 0.00 42.55 4.09
2240 3968 3.467803 GGCATTAACTACGGATGCTCTT 58.532 45.455 7.39 0.00 44.19 2.85
2241 3969 3.495001 GGCATTAACTACGGATGCTCTTC 59.505 47.826 7.39 0.00 44.19 2.87
2242 3970 3.495001 GCATTAACTACGGATGCTCTTCC 59.505 47.826 0.00 0.00 42.12 3.46
2243 3971 3.814005 TTAACTACGGATGCTCTTCCC 57.186 47.619 0.00 0.00 31.61 3.97
2244 3972 0.831307 AACTACGGATGCTCTTCCCC 59.169 55.000 0.00 0.00 31.61 4.81
2245 3973 0.325296 ACTACGGATGCTCTTCCCCA 60.325 55.000 0.00 0.00 31.61 4.96
2246 3974 1.051812 CTACGGATGCTCTTCCCCAT 58.948 55.000 0.00 0.00 31.61 4.00
2247 3975 0.758734 TACGGATGCTCTTCCCCATG 59.241 55.000 0.00 0.00 31.61 3.66
2248 3976 0.982852 ACGGATGCTCTTCCCCATGA 60.983 55.000 0.00 0.00 31.61 3.07
2249 3977 0.533755 CGGATGCTCTTCCCCATGAC 60.534 60.000 0.00 0.00 31.61 3.06
2250 3978 0.548031 GGATGCTCTTCCCCATGACA 59.452 55.000 0.00 0.00 0.00 3.58
2251 3979 1.673168 GATGCTCTTCCCCATGACAC 58.327 55.000 0.00 0.00 0.00 3.67
2252 3980 0.257039 ATGCTCTTCCCCATGACACC 59.743 55.000 0.00 0.00 0.00 4.16
2253 3981 1.450312 GCTCTTCCCCATGACACCG 60.450 63.158 0.00 0.00 0.00 4.94
2254 3982 1.450312 CTCTTCCCCATGACACCGC 60.450 63.158 0.00 0.00 0.00 5.68
2255 3983 1.903877 CTCTTCCCCATGACACCGCT 61.904 60.000 0.00 0.00 0.00 5.52
2256 3984 0.616395 TCTTCCCCATGACACCGCTA 60.616 55.000 0.00 0.00 0.00 4.26
2257 3985 0.469917 CTTCCCCATGACACCGCTAT 59.530 55.000 0.00 0.00 0.00 2.97
2258 3986 1.691976 CTTCCCCATGACACCGCTATA 59.308 52.381 0.00 0.00 0.00 1.31
2259 3987 1.796017 TCCCCATGACACCGCTATAA 58.204 50.000 0.00 0.00 0.00 0.98
2260 3988 2.334977 TCCCCATGACACCGCTATAAT 58.665 47.619 0.00 0.00 0.00 1.28
2261 3989 3.512496 TCCCCATGACACCGCTATAATA 58.488 45.455 0.00 0.00 0.00 0.98
2262 3990 3.259876 TCCCCATGACACCGCTATAATAC 59.740 47.826 0.00 0.00 0.00 1.89
2263 3991 3.596214 CCCATGACACCGCTATAATACC 58.404 50.000 0.00 0.00 0.00 2.73
2264 3992 3.250744 CCATGACACCGCTATAATACCG 58.749 50.000 0.00 0.00 0.00 4.02
2265 3993 2.427232 TGACACCGCTATAATACCGC 57.573 50.000 0.00 0.00 0.00 5.68
2266 3994 1.682323 TGACACCGCTATAATACCGCA 59.318 47.619 0.00 0.00 0.00 5.69
2267 3995 2.056577 GACACCGCTATAATACCGCAC 58.943 52.381 0.00 0.00 0.00 5.34
2268 3996 1.269936 ACACCGCTATAATACCGCACC 60.270 52.381 0.00 0.00 0.00 5.01
2269 3997 0.319405 ACCGCTATAATACCGCACCC 59.681 55.000 0.00 0.00 0.00 4.61
2270 3998 0.390735 CCGCTATAATACCGCACCCC 60.391 60.000 0.00 0.00 0.00 4.95
2271 3999 0.734942 CGCTATAATACCGCACCCCG 60.735 60.000 0.00 0.00 0.00 5.73
2305 4033 3.807538 CACATGCTGCAGCCCGTC 61.808 66.667 34.64 8.86 41.18 4.79
2306 4034 4.334118 ACATGCTGCAGCCCGTCA 62.334 61.111 34.64 17.30 41.18 4.35
2307 4035 3.057548 CATGCTGCAGCCCGTCAA 61.058 61.111 34.64 16.51 41.18 3.18
2308 4036 2.044650 ATGCTGCAGCCCGTCAAT 60.045 55.556 34.64 18.12 41.18 2.57
2309 4037 2.412323 ATGCTGCAGCCCGTCAATG 61.412 57.895 34.64 0.00 41.18 2.82
2310 4038 3.818787 GCTGCAGCCCGTCAATGG 61.819 66.667 28.76 0.00 34.31 3.16
2339 4067 4.435436 CGCTGCACCTGACCGCTA 62.435 66.667 0.00 0.00 0.00 4.26
2340 4068 2.187946 GCTGCACCTGACCGCTAT 59.812 61.111 0.00 0.00 0.00 2.97
2341 4069 1.450312 GCTGCACCTGACCGCTATT 60.450 57.895 0.00 0.00 0.00 1.73
2342 4070 1.432270 GCTGCACCTGACCGCTATTC 61.432 60.000 0.00 0.00 0.00 1.75
2343 4071 1.148157 CTGCACCTGACCGCTATTCG 61.148 60.000 0.00 0.00 38.08 3.34
2344 4072 1.141019 GCACCTGACCGCTATTCGA 59.859 57.895 0.00 0.00 41.67 3.71
2345 4073 0.249489 GCACCTGACCGCTATTCGAT 60.249 55.000 0.00 0.00 41.67 3.59
2346 4074 1.772182 CACCTGACCGCTATTCGATC 58.228 55.000 0.00 0.00 41.67 3.69
2347 4075 0.674534 ACCTGACCGCTATTCGATCC 59.325 55.000 0.00 0.00 41.67 3.36
2348 4076 0.387367 CCTGACCGCTATTCGATCCG 60.387 60.000 0.00 0.00 41.67 4.18
2349 4077 0.591659 CTGACCGCTATTCGATCCGA 59.408 55.000 0.00 0.00 41.67 4.55
2350 4078 1.200252 CTGACCGCTATTCGATCCGAT 59.800 52.381 0.00 0.00 41.67 4.18
2351 4079 1.611977 TGACCGCTATTCGATCCGATT 59.388 47.619 0.00 0.00 41.67 3.34
2352 4080 2.815503 TGACCGCTATTCGATCCGATTA 59.184 45.455 0.00 0.00 41.67 1.75
2353 4081 3.442625 TGACCGCTATTCGATCCGATTAT 59.557 43.478 0.00 0.00 41.67 1.28
2354 4082 3.770666 ACCGCTATTCGATCCGATTATG 58.229 45.455 0.00 0.00 41.67 1.90
2355 4083 2.535984 CCGCTATTCGATCCGATTATGC 59.464 50.000 0.00 0.00 41.67 3.14
2356 4084 3.179048 CGCTATTCGATCCGATTATGCA 58.821 45.455 0.00 0.00 41.67 3.96
2357 4085 3.798878 CGCTATTCGATCCGATTATGCAT 59.201 43.478 3.79 3.79 41.67 3.96
2358 4086 4.976116 CGCTATTCGATCCGATTATGCATA 59.024 41.667 1.16 1.16 41.67 3.14
2359 4087 5.631096 CGCTATTCGATCCGATTATGCATAT 59.369 40.000 7.36 0.00 41.67 1.78
2360 4088 6.399354 CGCTATTCGATCCGATTATGCATATG 60.399 42.308 7.36 0.00 41.67 1.78
2361 4089 5.663795 ATTCGATCCGATTATGCATATGC 57.336 39.130 21.09 21.09 37.35 3.14
2362 4090 3.457234 TCGATCCGATTATGCATATGCC 58.543 45.455 24.54 7.97 41.18 4.40
2363 4091 2.219445 CGATCCGATTATGCATATGCCG 59.781 50.000 24.54 18.74 41.18 5.69
2364 4092 1.368641 TCCGATTATGCATATGCCGC 58.631 50.000 24.54 8.47 41.18 6.53
2365 4093 0.378257 CCGATTATGCATATGCCGCC 59.622 55.000 24.54 8.58 41.18 6.13
2366 4094 0.026674 CGATTATGCATATGCCGCCG 59.973 55.000 24.54 15.79 41.18 6.46
2367 4095 0.248215 GATTATGCATATGCCGCCGC 60.248 55.000 24.54 8.08 41.18 6.53
2368 4096 1.656818 ATTATGCATATGCCGCCGCC 61.657 55.000 24.54 0.00 41.18 6.13
2381 4109 3.554692 CCGCCGCTGTGAACGATC 61.555 66.667 0.00 0.00 0.00 3.69
2382 4110 2.507102 CGCCGCTGTGAACGATCT 60.507 61.111 0.00 0.00 0.00 2.75
2383 4111 2.792290 CGCCGCTGTGAACGATCTG 61.792 63.158 0.00 0.00 0.00 2.90
2384 4112 3.084579 CCGCTGTGAACGATCTGC 58.915 61.111 0.00 0.00 0.00 4.26
2385 4113 1.446792 CCGCTGTGAACGATCTGCT 60.447 57.895 0.00 0.00 0.00 4.24
2386 4114 1.416813 CCGCTGTGAACGATCTGCTC 61.417 60.000 0.00 0.00 0.00 4.26
2387 4115 1.416813 CGCTGTGAACGATCTGCTCC 61.417 60.000 0.00 0.00 0.00 4.70
2388 4116 1.416813 GCTGTGAACGATCTGCTCCG 61.417 60.000 0.00 0.00 0.00 4.63
2389 4117 0.171231 CTGTGAACGATCTGCTCCGA 59.829 55.000 0.00 0.00 0.00 4.55
2390 4118 0.817654 TGTGAACGATCTGCTCCGAT 59.182 50.000 0.00 0.00 0.00 4.18
2391 4119 1.204704 TGTGAACGATCTGCTCCGATT 59.795 47.619 0.00 0.00 0.00 3.34
2392 4120 1.590238 GTGAACGATCTGCTCCGATTG 59.410 52.381 0.00 0.00 0.00 2.67
2393 4121 0.579156 GAACGATCTGCTCCGATTGC 59.421 55.000 0.00 0.00 0.00 3.56
2394 4122 0.176680 AACGATCTGCTCCGATTGCT 59.823 50.000 0.00 0.00 0.00 3.91
2395 4123 0.176680 ACGATCTGCTCCGATTGCTT 59.823 50.000 0.00 0.00 0.00 3.91
2396 4124 1.293924 CGATCTGCTCCGATTGCTTT 58.706 50.000 0.00 0.00 0.00 3.51
2397 4125 1.667724 CGATCTGCTCCGATTGCTTTT 59.332 47.619 0.00 0.00 0.00 2.27
2398 4126 2.286067 CGATCTGCTCCGATTGCTTTTC 60.286 50.000 0.00 0.00 0.00 2.29
2399 4127 1.453155 TCTGCTCCGATTGCTTTTCC 58.547 50.000 0.00 0.00 0.00 3.13
2400 4128 1.003580 TCTGCTCCGATTGCTTTTCCT 59.996 47.619 0.00 0.00 0.00 3.36
2401 4129 1.131883 CTGCTCCGATTGCTTTTCCTG 59.868 52.381 0.00 0.00 0.00 3.86
2402 4130 0.179153 GCTCCGATTGCTTTTCCTGC 60.179 55.000 0.00 0.00 0.00 4.85
2403 4131 0.097674 CTCCGATTGCTTTTCCTGCG 59.902 55.000 0.00 0.00 0.00 5.18
2404 4132 0.321210 TCCGATTGCTTTTCCTGCGA 60.321 50.000 0.00 0.00 0.00 5.10
2405 4133 0.179189 CCGATTGCTTTTCCTGCGAC 60.179 55.000 0.00 0.00 0.00 5.19
2406 4134 0.516877 CGATTGCTTTTCCTGCGACA 59.483 50.000 0.00 0.00 0.00 4.35
2407 4135 1.464687 CGATTGCTTTTCCTGCGACAG 60.465 52.381 0.00 0.00 0.00 3.51
2408 4136 1.537202 GATTGCTTTTCCTGCGACAGT 59.463 47.619 6.19 0.00 0.00 3.55
2409 4137 1.388547 TTGCTTTTCCTGCGACAGTT 58.611 45.000 6.19 0.00 0.00 3.16
2410 4138 1.388547 TGCTTTTCCTGCGACAGTTT 58.611 45.000 6.19 0.00 0.00 2.66
2411 4139 1.333619 TGCTTTTCCTGCGACAGTTTC 59.666 47.619 6.19 0.00 0.00 2.78
2412 4140 1.335051 GCTTTTCCTGCGACAGTTTCC 60.335 52.381 6.19 0.00 0.00 3.13
2413 4141 1.946768 CTTTTCCTGCGACAGTTTCCA 59.053 47.619 6.19 0.00 0.00 3.53
2414 4142 1.305201 TTTCCTGCGACAGTTTCCAC 58.695 50.000 6.19 0.00 0.00 4.02
2415 4143 0.878523 TTCCTGCGACAGTTTCCACG 60.879 55.000 6.19 0.00 0.00 4.94
2416 4144 1.594293 CCTGCGACAGTTTCCACGT 60.594 57.895 6.19 0.00 0.00 4.49
2417 4145 1.557443 CCTGCGACAGTTTCCACGTC 61.557 60.000 6.19 0.00 0.00 4.34
2418 4146 1.557443 CTGCGACAGTTTCCACGTCC 61.557 60.000 0.00 0.00 0.00 4.79
2419 4147 1.593209 GCGACAGTTTCCACGTCCA 60.593 57.895 0.00 0.00 0.00 4.02
2420 4148 0.949105 GCGACAGTTTCCACGTCCAT 60.949 55.000 0.00 0.00 0.00 3.41
2421 4149 1.068474 CGACAGTTTCCACGTCCATC 58.932 55.000 0.00 0.00 0.00 3.51
2422 4150 1.068474 GACAGTTTCCACGTCCATCG 58.932 55.000 0.00 0.00 46.00 3.84
2423 4151 0.677288 ACAGTTTCCACGTCCATCGA 59.323 50.000 0.00 0.00 42.86 3.59
2424 4152 1.336887 ACAGTTTCCACGTCCATCGAG 60.337 52.381 0.00 0.00 42.86 4.04
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 33 5.228945 AGTACACAAACACCTTCTAGCAT 57.771 39.130 0.00 0.00 0.00 3.79
33 34 4.682778 AGTACACAAACACCTTCTAGCA 57.317 40.909 0.00 0.00 0.00 3.49
34 35 4.451435 GGAAGTACACAAACACCTTCTAGC 59.549 45.833 0.00 0.00 33.66 3.42
43 45 3.799366 ACACGATGGAAGTACACAAACA 58.201 40.909 0.00 0.00 0.00 2.83
73 75 2.660064 GCCATGTCGGTCAGGAGGT 61.660 63.158 0.00 0.00 36.97 3.85
74 76 2.187946 GCCATGTCGGTCAGGAGG 59.812 66.667 0.00 0.00 36.97 4.30
75 77 1.142748 GAGCCATGTCGGTCAGGAG 59.857 63.158 0.00 0.00 36.97 3.69
76 78 2.359169 GGAGCCATGTCGGTCAGGA 61.359 63.158 4.00 0.00 36.97 3.86
77 79 2.187946 GGAGCCATGTCGGTCAGG 59.812 66.667 4.00 0.00 36.97 3.86
78 80 1.448540 GTGGAGCCATGTCGGTCAG 60.449 63.158 0.00 0.00 36.97 3.51
79 81 2.662596 GTGGAGCCATGTCGGTCA 59.337 61.111 0.00 0.00 36.97 4.02
80 82 2.125106 GGTGGAGCCATGTCGGTC 60.125 66.667 0.00 0.00 36.97 4.79
106 108 3.191371 GCCTCCCTCAAGTTAACATGTTG 59.809 47.826 21.42 4.67 0.00 3.33
108 110 2.644798 AGCCTCCCTCAAGTTAACATGT 59.355 45.455 8.61 0.00 0.00 3.21
119 121 4.556697 TGATTCTATTGTAGCCTCCCTCA 58.443 43.478 0.00 0.00 0.00 3.86
170 718 1.206132 GATCATACGGTCCACACCACA 59.794 52.381 0.00 0.00 44.02 4.17
174 722 3.520290 TGAAGATCATACGGTCCACAC 57.480 47.619 0.00 0.00 0.00 3.82
186 734 4.033009 TCTAGGACAGCCATTGAAGATCA 58.967 43.478 0.00 0.00 36.29 2.92
199 747 4.714308 ACCCTCTCAGAAAATCTAGGACAG 59.286 45.833 0.00 0.00 0.00 3.51
241 789 8.852135 CAACAACCTCCCTAAATAACAGTTTTA 58.148 33.333 0.00 0.00 0.00 1.52
260 808 1.173043 TGGATGATTCCGCAACAACC 58.827 50.000 0.00 0.00 45.89 3.77
302 850 9.330063 CTACAGGATTGCTAGAATATGTTTTCA 57.670 33.333 0.00 0.00 0.00 2.69
375 923 5.221823 GGATCAATCCCTCCAAAACCAAAAA 60.222 40.000 0.00 0.00 41.20 1.94
379 927 2.381618 TGGATCAATCCCTCCAAAACCA 59.618 45.455 6.57 0.00 46.59 3.67
380 928 3.100207 TGGATCAATCCCTCCAAAACC 57.900 47.619 6.57 0.00 46.59 3.27
381 929 4.280819 TGATGGATCAATCCCTCCAAAAC 58.719 43.478 7.65 0.00 46.59 2.43
452 1002 1.057636 TCGAATGCGACGAGACAAAC 58.942 50.000 0.00 0.00 42.51 2.93
524 1074 0.676782 ATGCGTTACCTGCCCTGTTC 60.677 55.000 0.00 0.00 0.00 3.18
539 1089 1.264020 CCAAATCGGACATACCATGCG 59.736 52.381 0.00 0.00 38.90 4.73
540 1090 2.571212 TCCAAATCGGACATACCATGC 58.429 47.619 0.00 0.00 39.64 4.06
565 1115 0.178973 AGGTAAACCAGGGTTGCACC 60.179 55.000 20.03 20.03 40.98 5.01
572 1122 3.344515 GTGAAAGCTAGGTAAACCAGGG 58.655 50.000 1.26 0.00 38.89 4.45
600 1150 4.069312 TCAAGTTGGGATAGGGACACTA 57.931 45.455 2.34 0.00 35.80 2.74
728 1281 5.414454 ACGTACGTAATTAAGTCCAGTACCA 59.586 40.000 21.41 0.00 31.99 3.25
729 1282 5.880341 ACGTACGTAATTAAGTCCAGTACC 58.120 41.667 21.41 0.00 31.99 3.34
730 1283 6.905609 GGTACGTACGTAATTAAGTCCAGTAC 59.094 42.308 28.34 21.42 31.86 2.73
950 2108 6.118195 CGTACGCACACAAGTATTTATTAGC 58.882 40.000 0.52 0.00 0.00 3.09
965 2126 3.488553 CCTGATTCTCATACGTACGCACA 60.489 47.826 16.72 0.58 0.00 4.57
987 2148 0.788995 CATGCATCGATCTCTTCCGC 59.211 55.000 0.00 0.00 0.00 5.54
1343 2512 0.036952 AGCAGACCTTCATCACCGTG 60.037 55.000 0.00 0.00 0.00 4.94
1421 2590 3.148084 CTCCGGCGGGACCATTAT 58.852 61.111 27.98 0.00 37.43 1.28
1524 2693 1.262683 ACGCGTTATCTACCGAGCTAC 59.737 52.381 5.58 0.00 0.00 3.58
1886 3548 4.568152 ACAAGTATGTGTTGCAACCTTC 57.432 40.909 26.14 16.37 38.69 3.46
1899 3561 7.857389 CGTGATGGAAATGGAAATACAAGTATG 59.143 37.037 0.00 0.00 0.00 2.39
1901 3563 6.317642 CCGTGATGGAAATGGAAATACAAGTA 59.682 38.462 0.00 0.00 42.00 2.24
2112 3840 3.554324 GTGCGCTTCGGATTATTCTAACA 59.446 43.478 9.73 0.00 0.00 2.41
2113 3841 3.361724 CGTGCGCTTCGGATTATTCTAAC 60.362 47.826 9.73 0.00 0.00 2.34
2114 3842 2.792674 CGTGCGCTTCGGATTATTCTAA 59.207 45.455 9.73 0.00 0.00 2.10
2115 3843 2.223641 ACGTGCGCTTCGGATTATTCTA 60.224 45.455 23.59 0.00 0.00 2.10
2116 3844 1.209128 CGTGCGCTTCGGATTATTCT 58.791 50.000 9.73 0.00 0.00 2.40
2117 3845 0.928229 ACGTGCGCTTCGGATTATTC 59.072 50.000 23.59 0.00 0.00 1.75
2118 3846 0.928229 GACGTGCGCTTCGGATTATT 59.072 50.000 23.59 7.04 0.00 1.40
2119 3847 1.206745 CGACGTGCGCTTCGGATTAT 61.207 55.000 23.59 7.63 33.49 1.28
2120 3848 1.870458 CGACGTGCGCTTCGGATTA 60.870 57.895 23.59 0.00 33.49 1.75
2121 3849 2.884087 ATCGACGTGCGCTTCGGATT 62.884 55.000 23.52 8.47 40.61 3.01
2122 3850 3.411418 ATCGACGTGCGCTTCGGAT 62.411 57.895 23.52 13.77 40.61 4.18
2123 3851 4.111016 ATCGACGTGCGCTTCGGA 62.111 61.111 23.52 12.26 40.61 4.55
2124 3852 2.642249 TAGATCGACGTGCGCTTCGG 62.642 60.000 23.52 7.62 40.61 4.30
2125 3853 1.297378 TAGATCGACGTGCGCTTCG 60.297 57.895 18.95 18.95 40.61 3.79
2126 3854 1.201098 GGTAGATCGACGTGCGCTTC 61.201 60.000 9.73 1.10 40.61 3.86
2127 3855 1.226603 GGTAGATCGACGTGCGCTT 60.227 57.895 9.73 0.00 40.61 4.68
2128 3856 2.408022 GGTAGATCGACGTGCGCT 59.592 61.111 9.73 0.00 40.61 5.92
2129 3857 3.017314 CGGTAGATCGACGTGCGC 61.017 66.667 0.00 0.00 40.61 6.09
2130 3858 1.367782 CTCGGTAGATCGACGTGCG 60.368 63.158 0.00 0.00 42.69 5.34
2131 3859 1.009900 CCTCGGTAGATCGACGTGC 60.010 63.158 0.00 0.00 35.18 5.34
2132 3860 0.304098 GTCCTCGGTAGATCGACGTG 59.696 60.000 0.00 1.63 35.18 4.49
2133 3861 0.813210 GGTCCTCGGTAGATCGACGT 60.813 60.000 0.00 0.00 35.18 4.34
2134 3862 0.812811 TGGTCCTCGGTAGATCGACG 60.813 60.000 0.00 0.41 35.18 5.12
2135 3863 1.334243 CTTGGTCCTCGGTAGATCGAC 59.666 57.143 0.00 0.00 35.18 4.20
2136 3864 1.064906 ACTTGGTCCTCGGTAGATCGA 60.065 52.381 0.00 0.00 37.60 3.59
2137 3865 1.390565 ACTTGGTCCTCGGTAGATCG 58.609 55.000 0.00 0.00 0.00 3.69
2138 3866 4.583489 TGATTACTTGGTCCTCGGTAGATC 59.417 45.833 0.00 0.00 0.00 2.75
2139 3867 4.341520 GTGATTACTTGGTCCTCGGTAGAT 59.658 45.833 0.00 0.00 0.00 1.98
2140 3868 3.698040 GTGATTACTTGGTCCTCGGTAGA 59.302 47.826 0.00 0.00 0.00 2.59
2141 3869 3.446161 TGTGATTACTTGGTCCTCGGTAG 59.554 47.826 0.00 0.00 0.00 3.18
2142 3870 3.194116 GTGTGATTACTTGGTCCTCGGTA 59.806 47.826 0.00 0.00 0.00 4.02
2143 3871 2.028385 GTGTGATTACTTGGTCCTCGGT 60.028 50.000 0.00 0.00 0.00 4.69
2144 3872 2.618053 GTGTGATTACTTGGTCCTCGG 58.382 52.381 0.00 0.00 0.00 4.63
2145 3873 2.094906 TCGTGTGATTACTTGGTCCTCG 60.095 50.000 0.00 0.00 0.00 4.63
2146 3874 3.056749 ACTCGTGTGATTACTTGGTCCTC 60.057 47.826 0.00 0.00 0.00 3.71
2147 3875 2.897969 ACTCGTGTGATTACTTGGTCCT 59.102 45.455 0.00 0.00 0.00 3.85
2148 3876 3.314541 ACTCGTGTGATTACTTGGTCC 57.685 47.619 0.00 0.00 0.00 4.46
2149 3877 4.804139 CCATACTCGTGTGATTACTTGGTC 59.196 45.833 0.00 0.00 0.00 4.02
2150 3878 4.222145 ACCATACTCGTGTGATTACTTGGT 59.778 41.667 0.00 0.00 0.00 3.67
2151 3879 4.755411 ACCATACTCGTGTGATTACTTGG 58.245 43.478 0.00 0.00 0.00 3.61
2152 3880 7.516785 GCAATACCATACTCGTGTGATTACTTG 60.517 40.741 0.00 0.02 0.00 3.16
2153 3881 6.479001 GCAATACCATACTCGTGTGATTACTT 59.521 38.462 0.00 0.00 0.00 2.24
2154 3882 5.983720 GCAATACCATACTCGTGTGATTACT 59.016 40.000 0.00 0.00 0.00 2.24
2155 3883 5.107989 CGCAATACCATACTCGTGTGATTAC 60.108 44.000 0.00 0.00 0.00 1.89
2156 3884 4.979815 CGCAATACCATACTCGTGTGATTA 59.020 41.667 0.00 0.00 0.00 1.75
2157 3885 3.802139 CGCAATACCATACTCGTGTGATT 59.198 43.478 0.00 0.00 0.00 2.57
2158 3886 3.067601 TCGCAATACCATACTCGTGTGAT 59.932 43.478 0.00 0.00 0.00 3.06
2159 3887 2.424246 TCGCAATACCATACTCGTGTGA 59.576 45.455 0.00 0.00 0.00 3.58
2160 3888 2.804647 TCGCAATACCATACTCGTGTG 58.195 47.619 0.00 0.00 0.00 3.82
2161 3889 3.728076 ATCGCAATACCATACTCGTGT 57.272 42.857 0.00 0.00 0.00 4.49
2162 3890 4.270084 ACAAATCGCAATACCATACTCGTG 59.730 41.667 0.00 0.00 0.00 4.35
2163 3891 4.439057 ACAAATCGCAATACCATACTCGT 58.561 39.130 0.00 0.00 0.00 4.18
2164 3892 5.403897 AACAAATCGCAATACCATACTCG 57.596 39.130 0.00 0.00 0.00 4.18
2165 3893 6.844279 CGTTAACAAATCGCAATACCATACTC 59.156 38.462 6.39 0.00 0.00 2.59
2166 3894 6.535865 TCGTTAACAAATCGCAATACCATACT 59.464 34.615 6.39 0.00 0.00 2.12
2167 3895 6.707711 TCGTTAACAAATCGCAATACCATAC 58.292 36.000 6.39 0.00 0.00 2.39
2168 3896 6.018588 CCTCGTTAACAAATCGCAATACCATA 60.019 38.462 6.39 0.00 0.00 2.74
2169 3897 5.220777 CCTCGTTAACAAATCGCAATACCAT 60.221 40.000 6.39 0.00 0.00 3.55
2170 3898 4.093703 CCTCGTTAACAAATCGCAATACCA 59.906 41.667 6.39 0.00 0.00 3.25
2171 3899 4.093850 ACCTCGTTAACAAATCGCAATACC 59.906 41.667 6.39 0.00 0.00 2.73
2172 3900 5.212589 ACCTCGTTAACAAATCGCAATAC 57.787 39.130 6.39 0.00 0.00 1.89
2173 3901 5.408909 TCAACCTCGTTAACAAATCGCAATA 59.591 36.000 6.39 0.00 0.00 1.90
2174 3902 4.214545 TCAACCTCGTTAACAAATCGCAAT 59.785 37.500 6.39 0.00 0.00 3.56
2175 3903 3.560481 TCAACCTCGTTAACAAATCGCAA 59.440 39.130 6.39 0.00 0.00 4.85
2176 3904 3.059461 GTCAACCTCGTTAACAAATCGCA 60.059 43.478 6.39 0.00 0.00 5.10
2177 3905 3.476181 GTCAACCTCGTTAACAAATCGC 58.524 45.455 6.39 0.00 0.00 4.58
2178 3906 3.495377 TGGTCAACCTCGTTAACAAATCG 59.505 43.478 6.39 0.00 36.82 3.34
2179 3907 5.180492 TGATGGTCAACCTCGTTAACAAATC 59.820 40.000 6.39 0.00 36.82 2.17
2180 3908 5.067273 TGATGGTCAACCTCGTTAACAAAT 58.933 37.500 6.39 0.00 36.82 2.32
2181 3909 4.452825 TGATGGTCAACCTCGTTAACAAA 58.547 39.130 6.39 0.00 36.82 2.83
2182 3910 4.074627 TGATGGTCAACCTCGTTAACAA 57.925 40.909 6.39 0.00 36.82 2.83
2183 3911 3.755112 TGATGGTCAACCTCGTTAACA 57.245 42.857 6.39 0.00 36.82 2.41
2184 3912 3.374058 CCATGATGGTCAACCTCGTTAAC 59.626 47.826 2.54 0.00 36.82 2.01
2185 3913 3.605634 CCATGATGGTCAACCTCGTTAA 58.394 45.455 2.54 0.00 36.82 2.01
2186 3914 2.679639 GCCATGATGGTCAACCTCGTTA 60.680 50.000 13.84 0.00 40.46 3.18
2187 3915 1.950484 GCCATGATGGTCAACCTCGTT 60.950 52.381 13.84 0.00 40.46 3.85
2188 3916 0.392998 GCCATGATGGTCAACCTCGT 60.393 55.000 13.84 0.00 40.46 4.18
2189 3917 0.107508 AGCCATGATGGTCAACCTCG 60.108 55.000 13.84 0.00 40.46 4.63
2190 3918 3.281727 TTAGCCATGATGGTCAACCTC 57.718 47.619 13.84 0.00 40.46 3.85
2191 3919 3.737559 TTTAGCCATGATGGTCAACCT 57.262 42.857 13.84 3.59 40.46 3.50
2192 3920 3.319122 GGATTTAGCCATGATGGTCAACC 59.681 47.826 13.84 6.13 40.46 3.77
2193 3921 4.210331 AGGATTTAGCCATGATGGTCAAC 58.790 43.478 13.84 0.00 40.46 3.18
2194 3922 4.464008 GAGGATTTAGCCATGATGGTCAA 58.536 43.478 13.84 4.61 40.46 3.18
2195 3923 3.494924 CGAGGATTTAGCCATGATGGTCA 60.495 47.826 13.84 0.00 40.46 4.02
2196 3924 3.070018 CGAGGATTTAGCCATGATGGTC 58.930 50.000 13.84 5.58 40.46 4.02
2197 3925 2.224621 CCGAGGATTTAGCCATGATGGT 60.225 50.000 13.84 2.65 40.46 3.55
2198 3926 2.430465 CCGAGGATTTAGCCATGATGG 58.570 52.381 7.21 7.21 41.55 3.51
2199 3927 2.430465 CCCGAGGATTTAGCCATGATG 58.570 52.381 0.00 0.00 0.00 3.07
2200 3928 1.352352 CCCCGAGGATTTAGCCATGAT 59.648 52.381 0.00 0.00 33.47 2.45
2201 3929 0.764890 CCCCGAGGATTTAGCCATGA 59.235 55.000 0.00 0.00 33.47 3.07
2202 3930 0.890996 GCCCCGAGGATTTAGCCATG 60.891 60.000 0.00 0.00 33.47 3.66
2203 3931 1.352622 TGCCCCGAGGATTTAGCCAT 61.353 55.000 0.00 0.00 33.47 4.40
2204 3932 1.352622 ATGCCCCGAGGATTTAGCCA 61.353 55.000 0.00 0.00 33.47 4.75
2205 3933 0.178990 AATGCCCCGAGGATTTAGCC 60.179 55.000 0.00 0.00 33.47 3.93
2206 3934 2.552743 GTTAATGCCCCGAGGATTTAGC 59.447 50.000 0.00 0.00 33.47 3.09
2207 3935 4.086706 AGTTAATGCCCCGAGGATTTAG 57.913 45.455 0.00 0.00 33.47 1.85
2208 3936 4.501915 CGTAGTTAATGCCCCGAGGATTTA 60.502 45.833 0.00 0.00 33.47 1.40
2209 3937 3.743269 CGTAGTTAATGCCCCGAGGATTT 60.743 47.826 0.00 0.00 33.47 2.17
2210 3938 2.224209 CGTAGTTAATGCCCCGAGGATT 60.224 50.000 0.00 0.00 33.47 3.01
2211 3939 1.343465 CGTAGTTAATGCCCCGAGGAT 59.657 52.381 0.00 0.00 33.47 3.24
2212 3940 0.748450 CGTAGTTAATGCCCCGAGGA 59.252 55.000 0.00 0.00 33.47 3.71
2213 3941 0.249741 CCGTAGTTAATGCCCCGAGG 60.250 60.000 0.00 0.00 0.00 4.63
2214 3942 0.748450 TCCGTAGTTAATGCCCCGAG 59.252 55.000 0.00 0.00 0.00 4.63
2215 3943 1.069513 CATCCGTAGTTAATGCCCCGA 59.930 52.381 0.00 0.00 0.00 5.14
2216 3944 1.508632 CATCCGTAGTTAATGCCCCG 58.491 55.000 0.00 0.00 0.00 5.73
2217 3945 1.202770 AGCATCCGTAGTTAATGCCCC 60.203 52.381 3.13 0.00 45.42 5.80
2218 3946 2.143925 GAGCATCCGTAGTTAATGCCC 58.856 52.381 3.13 0.00 45.42 5.36
2219 3947 3.113260 AGAGCATCCGTAGTTAATGCC 57.887 47.619 3.13 0.00 45.42 4.40
2220 3948 3.495001 GGAAGAGCATCCGTAGTTAATGC 59.505 47.826 0.00 0.00 44.80 3.56
2221 3949 4.058817 GGGAAGAGCATCCGTAGTTAATG 58.941 47.826 0.00 0.00 40.62 1.90
2222 3950 3.071167 GGGGAAGAGCATCCGTAGTTAAT 59.929 47.826 0.00 0.00 40.62 1.40
2223 3951 2.433239 GGGGAAGAGCATCCGTAGTTAA 59.567 50.000 0.00 0.00 40.62 2.01
2224 3952 2.037144 GGGGAAGAGCATCCGTAGTTA 58.963 52.381 0.00 0.00 40.62 2.24
2225 3953 0.831307 GGGGAAGAGCATCCGTAGTT 59.169 55.000 0.00 0.00 40.62 2.24
2226 3954 0.325296 TGGGGAAGAGCATCCGTAGT 60.325 55.000 0.00 0.00 40.62 2.73
2227 3955 1.051812 ATGGGGAAGAGCATCCGTAG 58.948 55.000 0.00 0.00 40.62 3.51
2228 3956 0.758734 CATGGGGAAGAGCATCCGTA 59.241 55.000 0.00 0.00 40.62 4.02
2229 3957 0.982852 TCATGGGGAAGAGCATCCGT 60.983 55.000 0.00 0.00 40.62 4.69
2230 3958 0.533755 GTCATGGGGAAGAGCATCCG 60.534 60.000 0.00 0.00 40.62 4.18
2231 3959 0.548031 TGTCATGGGGAAGAGCATCC 59.452 55.000 0.00 0.00 38.86 3.51
2232 3960 1.673168 GTGTCATGGGGAAGAGCATC 58.327 55.000 0.00 0.00 0.00 3.91
2233 3961 0.257039 GGTGTCATGGGGAAGAGCAT 59.743 55.000 0.00 0.00 0.00 3.79
2234 3962 1.685224 GGTGTCATGGGGAAGAGCA 59.315 57.895 0.00 0.00 0.00 4.26
2235 3963 1.450312 CGGTGTCATGGGGAAGAGC 60.450 63.158 0.00 0.00 0.00 4.09
2236 3964 1.450312 GCGGTGTCATGGGGAAGAG 60.450 63.158 0.00 0.00 0.00 2.85
2237 3965 0.616395 TAGCGGTGTCATGGGGAAGA 60.616 55.000 0.00 0.00 0.00 2.87
2238 3966 0.469917 ATAGCGGTGTCATGGGGAAG 59.530 55.000 0.00 0.00 0.00 3.46
2239 3967 1.796017 TATAGCGGTGTCATGGGGAA 58.204 50.000 0.00 0.00 0.00 3.97
2240 3968 1.796017 TTATAGCGGTGTCATGGGGA 58.204 50.000 0.00 0.00 0.00 4.81
2241 3969 2.859165 ATTATAGCGGTGTCATGGGG 57.141 50.000 0.00 0.00 0.00 4.96
2242 3970 3.596214 GGTATTATAGCGGTGTCATGGG 58.404 50.000 0.00 0.00 0.00 4.00
2243 3971 3.250744 CGGTATTATAGCGGTGTCATGG 58.749 50.000 15.02 0.00 45.08 3.66
2253 3981 0.390735 CCGGGGTGCGGTATTATAGC 60.391 60.000 0.00 0.00 0.00 2.97
2254 3982 0.390735 GCCGGGGTGCGGTATTATAG 60.391 60.000 2.18 0.00 0.00 1.31
2255 3983 1.672898 GCCGGGGTGCGGTATTATA 59.327 57.895 2.18 0.00 0.00 0.98
2256 3984 2.428622 GCCGGGGTGCGGTATTAT 59.571 61.111 2.18 0.00 0.00 1.28
2257 3985 3.864186 GGCCGGGGTGCGGTATTA 61.864 66.667 2.18 0.00 0.00 0.98
2288 4016 3.807538 GACGGGCTGCAGCATGTG 61.808 66.667 37.63 25.11 44.36 3.21
2289 4017 3.848301 TTGACGGGCTGCAGCATGT 62.848 57.895 37.63 32.69 44.36 3.21
2290 4018 2.412323 ATTGACGGGCTGCAGCATG 61.412 57.895 37.63 29.87 44.36 4.06
2291 4019 2.044650 ATTGACGGGCTGCAGCAT 60.045 55.556 37.63 23.55 44.36 3.79
2292 4020 3.057548 CATTGACGGGCTGCAGCA 61.058 61.111 37.63 18.61 44.36 4.41
2293 4021 3.818787 CCATTGACGGGCTGCAGC 61.819 66.667 30.88 30.88 41.14 5.25
2322 4050 3.723235 ATAGCGGTCAGGTGCAGCG 62.723 63.158 10.78 5.84 37.80 5.18
2323 4051 1.432270 GAATAGCGGTCAGGTGCAGC 61.432 60.000 8.11 8.11 0.00 5.25
2324 4052 1.148157 CGAATAGCGGTCAGGTGCAG 61.148 60.000 0.00 0.00 36.03 4.41
2325 4053 1.153647 CGAATAGCGGTCAGGTGCA 60.154 57.895 0.00 0.00 36.03 4.57
2326 4054 0.249489 ATCGAATAGCGGTCAGGTGC 60.249 55.000 0.00 0.00 41.33 5.01
2327 4055 3.967886 ATCGAATAGCGGTCAGGTG 57.032 52.632 0.00 0.00 41.33 4.00
2333 4061 3.770666 CATAATCGGATCGAATAGCGGT 58.229 45.455 0.00 0.00 39.99 5.68
2334 4062 2.535984 GCATAATCGGATCGAATAGCGG 59.464 50.000 0.00 0.00 39.99 5.52
2335 4063 3.179048 TGCATAATCGGATCGAATAGCG 58.821 45.455 0.00 0.00 39.99 4.26
2336 4064 6.617317 GCATATGCATAATCGGATCGAATAGC 60.617 42.308 22.84 0.00 39.25 2.97
2337 4065 6.128715 GGCATATGCATAATCGGATCGAATAG 60.129 42.308 28.07 0.00 44.36 1.73
2338 4066 5.696270 GGCATATGCATAATCGGATCGAATA 59.304 40.000 28.07 0.00 44.36 1.75
2339 4067 4.512944 GGCATATGCATAATCGGATCGAAT 59.487 41.667 28.07 0.00 44.36 3.34
2340 4068 3.871006 GGCATATGCATAATCGGATCGAA 59.129 43.478 28.07 0.00 44.36 3.71
2341 4069 3.457234 GGCATATGCATAATCGGATCGA 58.543 45.455 28.07 0.00 44.36 3.59
2342 4070 2.219445 CGGCATATGCATAATCGGATCG 59.781 50.000 28.07 14.44 44.36 3.69
2343 4071 2.032549 GCGGCATATGCATAATCGGATC 60.033 50.000 28.07 6.61 44.36 3.36
2344 4072 1.942657 GCGGCATATGCATAATCGGAT 59.057 47.619 28.07 0.00 44.36 4.18
2345 4073 1.368641 GCGGCATATGCATAATCGGA 58.631 50.000 28.07 0.00 44.36 4.55
2346 4074 0.378257 GGCGGCATATGCATAATCGG 59.622 55.000 28.07 10.42 44.36 4.18
2347 4075 0.026674 CGGCGGCATATGCATAATCG 59.973 55.000 28.07 21.49 44.36 3.34
2348 4076 0.248215 GCGGCGGCATATGCATAATC 60.248 55.000 28.07 10.17 44.36 1.75
2349 4077 1.656818 GGCGGCGGCATATGCATAAT 61.657 55.000 29.41 0.00 44.36 1.28
2350 4078 2.331893 GGCGGCGGCATATGCATAA 61.332 57.895 29.41 0.00 44.36 1.90
2351 4079 2.745884 GGCGGCGGCATATGCATA 60.746 61.111 29.41 9.27 44.36 3.14
2364 4092 3.554692 GATCGTTCACAGCGGCGG 61.555 66.667 9.78 0.00 0.00 6.13
2365 4093 2.507102 AGATCGTTCACAGCGGCG 60.507 61.111 0.51 0.51 0.00 6.46
2366 4094 3.084579 CAGATCGTTCACAGCGGC 58.915 61.111 0.00 0.00 0.00 6.53
2367 4095 1.416813 GAGCAGATCGTTCACAGCGG 61.417 60.000 0.00 0.00 0.00 5.52
2368 4096 1.416813 GGAGCAGATCGTTCACAGCG 61.417 60.000 0.00 0.00 0.00 5.18
2369 4097 1.416813 CGGAGCAGATCGTTCACAGC 61.417 60.000 0.00 0.00 0.00 4.40
2370 4098 0.171231 TCGGAGCAGATCGTTCACAG 59.829 55.000 0.00 0.00 0.00 3.66
2371 4099 0.817654 ATCGGAGCAGATCGTTCACA 59.182 50.000 0.00 0.00 0.00 3.58
2372 4100 1.590238 CAATCGGAGCAGATCGTTCAC 59.410 52.381 0.00 0.00 0.00 3.18
2373 4101 1.926561 CAATCGGAGCAGATCGTTCA 58.073 50.000 0.00 0.00 0.00 3.18
2374 4102 0.579156 GCAATCGGAGCAGATCGTTC 59.421 55.000 0.00 0.00 0.00 3.95
2375 4103 0.176680 AGCAATCGGAGCAGATCGTT 59.823 50.000 0.00 0.00 0.00 3.85
2376 4104 0.176680 AAGCAATCGGAGCAGATCGT 59.823 50.000 0.00 0.00 0.00 3.73
2377 4105 1.293924 AAAGCAATCGGAGCAGATCG 58.706 50.000 0.00 0.00 0.00 3.69
2378 4106 2.032675 GGAAAAGCAATCGGAGCAGATC 59.967 50.000 0.00 0.00 0.00 2.75
2379 4107 2.019984 GGAAAAGCAATCGGAGCAGAT 58.980 47.619 0.00 0.00 0.00 2.90
2380 4108 1.003580 AGGAAAAGCAATCGGAGCAGA 59.996 47.619 0.00 0.00 0.00 4.26
2381 4109 1.131883 CAGGAAAAGCAATCGGAGCAG 59.868 52.381 0.00 0.00 0.00 4.24
2382 4110 1.167851 CAGGAAAAGCAATCGGAGCA 58.832 50.000 0.00 0.00 0.00 4.26
2383 4111 0.179153 GCAGGAAAAGCAATCGGAGC 60.179 55.000 0.00 0.00 0.00 4.70
2384 4112 0.097674 CGCAGGAAAAGCAATCGGAG 59.902 55.000 0.00 0.00 0.00 4.63
2385 4113 0.321210 TCGCAGGAAAAGCAATCGGA 60.321 50.000 0.00 0.00 0.00 4.55
2386 4114 0.179189 GTCGCAGGAAAAGCAATCGG 60.179 55.000 0.00 0.00 0.00 4.18
2387 4115 0.516877 TGTCGCAGGAAAAGCAATCG 59.483 50.000 0.00 0.00 0.00 3.34
2388 4116 1.537202 ACTGTCGCAGGAAAAGCAATC 59.463 47.619 10.80 0.00 35.51 2.67
2389 4117 1.609208 ACTGTCGCAGGAAAAGCAAT 58.391 45.000 10.80 0.00 35.51 3.56
2390 4118 1.388547 AACTGTCGCAGGAAAAGCAA 58.611 45.000 10.80 0.00 35.51 3.91
2391 4119 1.333619 GAAACTGTCGCAGGAAAAGCA 59.666 47.619 10.80 0.00 35.51 3.91
2392 4120 1.335051 GGAAACTGTCGCAGGAAAAGC 60.335 52.381 10.80 0.00 35.51 3.51
2393 4121 1.946768 TGGAAACTGTCGCAGGAAAAG 59.053 47.619 10.80 0.00 35.51 2.27
2394 4122 1.673920 GTGGAAACTGTCGCAGGAAAA 59.326 47.619 10.80 0.00 35.51 2.29
2395 4123 1.305201 GTGGAAACTGTCGCAGGAAA 58.695 50.000 10.80 0.00 35.51 3.13
2396 4124 0.878523 CGTGGAAACTGTCGCAGGAA 60.879 55.000 10.80 0.00 35.51 3.36
2397 4125 1.300620 CGTGGAAACTGTCGCAGGA 60.301 57.895 10.80 0.00 35.51 3.86
2398 4126 1.557443 GACGTGGAAACTGTCGCAGG 61.557 60.000 0.00 0.00 35.51 4.85
2399 4127 1.557443 GGACGTGGAAACTGTCGCAG 61.557 60.000 0.00 5.47 37.32 5.18
2400 4128 1.593209 GGACGTGGAAACTGTCGCA 60.593 57.895 0.00 0.00 37.32 5.10
2401 4129 0.949105 ATGGACGTGGAAACTGTCGC 60.949 55.000 0.00 0.00 37.32 5.19
2402 4130 1.068474 GATGGACGTGGAAACTGTCG 58.932 55.000 0.00 0.00 37.32 4.35
2403 4131 1.068474 CGATGGACGTGGAAACTGTC 58.932 55.000 0.00 0.00 37.22 3.51
2404 4132 0.677288 TCGATGGACGTGGAAACTGT 59.323 50.000 0.00 0.00 43.13 3.55
2405 4133 1.350193 CTCGATGGACGTGGAAACTG 58.650 55.000 0.00 0.00 43.13 3.16
2406 4134 3.814577 CTCGATGGACGTGGAAACT 57.185 52.632 0.00 0.00 43.13 2.66


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

AutoCloner maintained by Alex Coulton.