Multiple sequence alignment - TraesCS2A01G359400

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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 TraesCS2A01G359400 chr2A 100.000 2750 0 0 1 2750 603522693 603525442 0.000000e+00 5079.0
1 TraesCS2A01G359400 chr2A 83.871 434 50 15 2161 2593 603516525 603516939 1.980000e-106 396.0
2 TraesCS2A01G359400 chr2A 88.013 317 36 2 1087 1402 131682859 131683174 9.300000e-100 374.0
3 TraesCS2A01G359400 chr2A 91.204 216 16 3 1927 2141 744688006 744688219 9.630000e-75 291.0
4 TraesCS2A01G359400 chr2A 88.940 217 22 2 1928 2144 776157065 776157279 1.620000e-67 267.0
5 TraesCS2A01G359400 chr2A 96.732 153 5 0 1992 2144 562090994 562091146 3.510000e-64 255.0
6 TraesCS2A01G359400 chr2A 92.857 168 9 3 1989 2155 581966640 581966475 9.840000e-60 241.0
7 TraesCS2A01G359400 chr2D 95.151 1753 73 7 185 1928 460648074 460649823 0.000000e+00 2756.0
8 TraesCS2A01G359400 chr2D 91.561 628 20 12 2143 2750 460649807 460650421 0.000000e+00 835.0
9 TraesCS2A01G359400 chr2D 88.959 317 33 2 1087 1402 125324464 125324779 9.230000e-105 390.0
10 TraesCS2A01G359400 chr2D 82.022 445 53 18 2161 2593 460643414 460643843 1.210000e-93 353.0
11 TraesCS2A01G359400 chr2B 94.705 1341 52 10 591 1928 541686592 541687916 0.000000e+00 2065.0
12 TraesCS2A01G359400 chr2B 94.156 616 22 6 2143 2750 541687900 541688509 0.000000e+00 926.0
13 TraesCS2A01G359400 chr2B 92.505 547 40 1 1 547 541685789 541686334 0.000000e+00 782.0
14 TraesCS2A01G359400 chr2B 89.557 316 33 0 1087 1402 178338363 178338678 4.270000e-108 401.0
15 TraesCS2A01G359400 chr2B 90.977 133 12 0 1 133 541670435 541670567 2.180000e-41 180.0
16 TraesCS2A01G359400 chr3D 89.761 293 30 0 1099 1391 6337870 6338162 2.590000e-100 375.0
17 TraesCS2A01G359400 chr3D 84.192 291 34 10 1096 1380 558292451 558292167 3.490000e-69 272.0
18 TraesCS2A01G359400 chr3B 89.078 293 32 0 1099 1391 7186981 7186689 5.600000e-97 364.0
19 TraesCS2A01G359400 chr3A 89.078 293 32 0 1099 1391 14044671 14044379 5.600000e-97 364.0
20 TraesCS2A01G359400 chr3A 88.785 214 16 6 1930 2143 102271251 102271456 3.510000e-64 255.0
21 TraesCS2A01G359400 chr7D 87.558 217 22 4 1929 2143 8593447 8593234 2.120000e-61 246.0
22 TraesCS2A01G359400 chr6B 86.111 216 26 3 1928 2143 650933478 650933689 2.130000e-56 230.0
23 TraesCS2A01G359400 chr7A 84.615 221 25 7 1928 2144 680825116 680825331 7.720000e-51 211.0
24 TraesCS2A01G359400 chr1B 83.857 223 32 3 1928 2149 424081115 424080896 2.780000e-50 209.0
25 TraesCS2A01G359400 chr5A 92.593 81 5 1 1912 1991 60444065 60443985 6.220000e-22 115.0
26 TraesCS2A01G359400 chr1A 92.593 81 4 2 1912 1991 582296140 582296219 6.220000e-22 115.0
27 TraesCS2A01G359400 chr4A 87.209 86 9 2 66 151 552457605 552457522 2.250000e-16 97.1
28 TraesCS2A01G359400 chr4B 87.500 64 7 1 66 129 67914518 67914456 3.800000e-09 73.1
29 TraesCS2A01G359400 chr6D 100.000 29 0 0 663 691 362262354 362262326 1.000000e-03 54.7


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 TraesCS2A01G359400 chr2A 603522693 603525442 2749 False 5079.000000 5079 100.000000 1 2750 1 chr2A.!!$F4 2749
1 TraesCS2A01G359400 chr2D 460648074 460650421 2347 False 1795.500000 2756 93.356000 185 2750 2 chr2D.!!$F3 2565
2 TraesCS2A01G359400 chr2B 541685789 541688509 2720 False 1257.666667 2065 93.788667 1 2750 3 chr2B.!!$F3 2749

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
947 1176 0.108424 GTACTACTGCTGCTGCTGCT 60.108 55.0 27.67 14.24 41.07 4.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2035 2269 0.033601 ATGAGCACCTCCGAGAGACT 60.034 55.0 0.0 0.0 0.0 3.24 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 3.374058 CACGATTGTCTTATCCCACCAAC 59.626 47.826 0.00 0.00 0.00 3.77
30 31 1.750778 CTTATCCCACCAACCATGCAC 59.249 52.381 0.00 0.00 0.00 4.57
36 37 0.109179 CACCAACCATGCACAATCGG 60.109 55.000 0.00 0.00 0.00 4.18
49 50 0.443869 CAATCGGAGAGCAACAACGG 59.556 55.000 0.00 0.00 43.63 4.44
81 82 3.879892 GGCCTTAAAAGACTAGCCTGATG 59.120 47.826 0.00 0.00 37.42 3.07
97 98 0.397114 GATGGGATCCAAACACCCCC 60.397 60.000 15.23 0.00 42.65 5.40
126 127 0.325484 AGTCATGCTCTGCCTCCTCT 60.325 55.000 0.00 0.00 0.00 3.69
133 134 2.038659 GCTCTGCCTCCTCTCATAACT 58.961 52.381 0.00 0.00 0.00 2.24
134 135 2.035832 GCTCTGCCTCCTCTCATAACTC 59.964 54.545 0.00 0.00 0.00 3.01
154 155 5.880901 ACTCATGTGAGATTAAACCCAACT 58.119 37.500 16.41 0.00 44.74 3.16
164 165 6.527423 AGATTAAACCCAACTTGAACGACTA 58.473 36.000 0.00 0.00 0.00 2.59
172 173 4.322499 CCAACTTGAACGACTATGGGTACT 60.322 45.833 0.00 0.00 0.00 2.73
188 189 4.456911 TGGGTACTAAGTCGTCAGTAACAG 59.543 45.833 0.00 0.00 36.80 3.16
217 218 7.501844 AGGAGATTGGTTAGTAGATTACTTGC 58.498 38.462 0.00 0.00 40.14 4.01
219 220 7.654116 GGAGATTGGTTAGTAGATTACTTGCTC 59.346 40.741 0.00 0.00 40.14 4.26
224 225 6.183360 TGGTTAGTAGATTACTTGCTCATCCC 60.183 42.308 0.00 0.00 40.14 3.85
311 312 8.203485 AGATTTCTTTTGTATGTGAAGCCAAAA 58.797 29.630 0.00 0.00 35.95 2.44
312 313 8.907222 ATTTCTTTTGTATGTGAAGCCAAAAT 57.093 26.923 0.00 0.00 36.52 1.82
404 405 4.259952 GCCATTGGCCTAGGAACC 57.740 61.111 17.28 5.61 44.06 3.62
462 463 2.964978 GGTGGCACAACCTCATGC 59.035 61.111 20.82 0.00 42.55 4.06
505 506 1.822990 TCGGAATTTCGGAGCACTAGT 59.177 47.619 6.24 0.00 0.00 2.57
508 509 3.596214 GGAATTTCGGAGCACTAGTTGA 58.404 45.455 0.00 0.00 0.00 3.18
550 551 5.449107 TCTGCCTATTTACGACTATGGTC 57.551 43.478 0.00 0.00 38.97 4.02
589 590 6.139671 GGGAAGGAGCTATGAGGATATATGA 58.860 44.000 0.00 0.00 0.00 2.15
625 840 2.357323 TGCACAAATCTCAAAGCGAACA 59.643 40.909 0.00 0.00 0.00 3.18
633 849 7.591426 ACAAATCTCAAAGCGAACATAGTTTTC 59.409 33.333 0.00 0.00 0.00 2.29
660 876 3.132289 CCAGAAAGCAGTATTACCTCCGA 59.868 47.826 0.00 0.00 0.00 4.55
668 884 3.130516 CAGTATTACCTCCGAACTCTGCA 59.869 47.826 0.00 0.00 0.00 4.41
905 1123 2.025155 GCTCGATACCTCCTCAACTCA 58.975 52.381 0.00 0.00 0.00 3.41
906 1124 2.223618 GCTCGATACCTCCTCAACTCAC 60.224 54.545 0.00 0.00 0.00 3.51
917 1135 1.201181 CTCAACTCACCCTCTCACTCG 59.799 57.143 0.00 0.00 0.00 4.18
927 1145 2.103143 CTCACTCGCCTACTGCCG 59.897 66.667 0.00 0.00 36.24 5.69
947 1176 0.108424 GTACTACTGCTGCTGCTGCT 60.108 55.000 27.67 14.24 41.07 4.24
948 1177 0.108472 TACTACTGCTGCTGCTGCTG 60.108 55.000 27.75 27.75 41.07 4.41
954 1183 2.125065 CTGCTGCTGCTGCTAGCT 60.125 61.111 27.67 0.00 42.97 3.32
955 1184 1.143401 CTGCTGCTGCTGCTAGCTA 59.857 57.895 27.67 17.98 42.97 3.32
1565 1794 1.175983 GGCGTCAACATGGGGTTCAA 61.176 55.000 0.00 0.00 37.72 2.69
1754 1983 0.179156 GCGGTGCAATGGTGAAGATG 60.179 55.000 0.00 0.00 0.00 2.90
1760 1989 3.947196 GTGCAATGGTGAAGATGGATGTA 59.053 43.478 0.00 0.00 0.00 2.29
1827 2056 5.980715 GCTGCTACTCTTCTTAATCACCTAC 59.019 44.000 0.00 0.00 0.00 3.18
1870 2100 9.632807 CATGATTCCCTTTTTACACGAAAAATA 57.367 29.630 0.00 0.00 44.17 1.40
1928 2162 6.192360 ACACTTTAATGAAATATTCGAGCGC 58.808 36.000 0.00 0.00 0.00 5.92
1929 2163 5.334395 CACTTTAATGAAATATTCGAGCGCG 59.666 40.000 2.41 2.41 39.35 6.86
1930 2164 5.233476 ACTTTAATGAAATATTCGAGCGCGA 59.767 36.000 12.10 8.97 46.33 5.87
1938 2172 2.571757 TCGAGCGCGAATCAACCT 59.428 55.556 12.10 0.00 44.78 3.50
1939 2173 1.805539 TCGAGCGCGAATCAACCTG 60.806 57.895 12.10 0.00 44.78 4.00
1940 2174 2.094659 CGAGCGCGAATCAACCTGT 61.095 57.895 12.10 0.00 40.82 4.00
1941 2175 1.421485 GAGCGCGAATCAACCTGTG 59.579 57.895 12.10 0.00 0.00 3.66
1942 2176 1.970917 GAGCGCGAATCAACCTGTGG 61.971 60.000 12.10 0.00 0.00 4.17
1943 2177 2.325082 GCGCGAATCAACCTGTGGT 61.325 57.895 12.10 0.00 37.65 4.16
1953 2187 2.525105 AACCTGTGGTTGAGTTGGTT 57.475 45.000 0.71 0.00 45.07 3.67
1954 2188 3.655615 AACCTGTGGTTGAGTTGGTTA 57.344 42.857 0.71 0.00 45.07 2.85
1955 2189 3.208747 ACCTGTGGTTGAGTTGGTTAG 57.791 47.619 0.00 0.00 27.29 2.34
1956 2190 2.158667 ACCTGTGGTTGAGTTGGTTAGG 60.159 50.000 0.00 0.00 27.29 2.69
1957 2191 2.158667 CCTGTGGTTGAGTTGGTTAGGT 60.159 50.000 0.00 0.00 0.00 3.08
1958 2192 2.878406 CTGTGGTTGAGTTGGTTAGGTG 59.122 50.000 0.00 0.00 0.00 4.00
1959 2193 2.227194 GTGGTTGAGTTGGTTAGGTGG 58.773 52.381 0.00 0.00 0.00 4.61
1960 2194 2.128535 TGGTTGAGTTGGTTAGGTGGA 58.871 47.619 0.00 0.00 0.00 4.02
1961 2195 2.158726 TGGTTGAGTTGGTTAGGTGGAC 60.159 50.000 0.00 0.00 0.00 4.02
1962 2196 2.158726 GGTTGAGTTGGTTAGGTGGACA 60.159 50.000 0.00 0.00 0.00 4.02
1963 2197 3.139077 GTTGAGTTGGTTAGGTGGACAG 58.861 50.000 0.00 0.00 0.00 3.51
1964 2198 2.404559 TGAGTTGGTTAGGTGGACAGT 58.595 47.619 0.00 0.00 0.00 3.55
1965 2199 2.104111 TGAGTTGGTTAGGTGGACAGTG 59.896 50.000 0.00 0.00 0.00 3.66
1966 2200 1.420138 AGTTGGTTAGGTGGACAGTGG 59.580 52.381 0.00 0.00 0.00 4.00
1967 2201 1.142262 GTTGGTTAGGTGGACAGTGGT 59.858 52.381 0.00 0.00 0.00 4.16
1968 2202 2.369532 GTTGGTTAGGTGGACAGTGGTA 59.630 50.000 0.00 0.00 0.00 3.25
1969 2203 2.910544 TGGTTAGGTGGACAGTGGTAT 58.089 47.619 0.00 0.00 0.00 2.73
1970 2204 2.835764 TGGTTAGGTGGACAGTGGTATC 59.164 50.000 0.00 0.00 0.00 2.24
1971 2205 2.169978 GGTTAGGTGGACAGTGGTATCC 59.830 54.545 0.00 0.00 35.37 2.59
1972 2206 2.169978 GTTAGGTGGACAGTGGTATCCC 59.830 54.545 0.00 0.00 33.69 3.85
1973 2207 0.620700 AGGTGGACAGTGGTATCCCC 60.621 60.000 0.00 0.00 33.69 4.81
1974 2208 0.912487 GGTGGACAGTGGTATCCCCA 60.912 60.000 0.00 0.00 42.51 4.96
1981 2215 3.844063 TGGTATCCCCAACCCACC 58.156 61.111 0.00 0.00 41.50 4.61
1982 2216 1.151565 TGGTATCCCCAACCCACCA 60.152 57.895 0.00 0.00 41.50 4.17
1983 2217 1.211567 TGGTATCCCCAACCCACCAG 61.212 60.000 0.00 0.00 41.50 4.00
1984 2218 0.917333 GGTATCCCCAACCCACCAGA 60.917 60.000 0.00 0.00 0.00 3.86
1985 2219 0.546598 GTATCCCCAACCCACCAGAG 59.453 60.000 0.00 0.00 0.00 3.35
1986 2220 0.120377 TATCCCCAACCCACCAGAGT 59.880 55.000 0.00 0.00 0.00 3.24
1987 2221 0.776080 ATCCCCAACCCACCAGAGTT 60.776 55.000 0.00 0.00 0.00 3.01
1988 2222 1.074951 CCCCAACCCACCAGAGTTC 59.925 63.158 0.00 0.00 0.00 3.01
1989 2223 1.715019 CCCCAACCCACCAGAGTTCA 61.715 60.000 0.00 0.00 0.00 3.18
1990 2224 0.184933 CCCAACCCACCAGAGTTCAA 59.815 55.000 0.00 0.00 0.00 2.69
1991 2225 1.609208 CCAACCCACCAGAGTTCAAG 58.391 55.000 0.00 0.00 0.00 3.02
1992 2226 0.954452 CAACCCACCAGAGTTCAAGC 59.046 55.000 0.00 0.00 0.00 4.01
1993 2227 0.535102 AACCCACCAGAGTTCAAGCG 60.535 55.000 0.00 0.00 0.00 4.68
1994 2228 2.328099 CCCACCAGAGTTCAAGCGC 61.328 63.158 0.00 0.00 0.00 5.92
1995 2229 2.328099 CCACCAGAGTTCAAGCGCC 61.328 63.158 2.29 0.00 0.00 6.53
1996 2230 1.302033 CACCAGAGTTCAAGCGCCT 60.302 57.895 2.29 0.00 0.00 5.52
1997 2231 0.037326 CACCAGAGTTCAAGCGCCTA 60.037 55.000 2.29 0.00 0.00 3.93
1998 2232 0.037232 ACCAGAGTTCAAGCGCCTAC 60.037 55.000 2.29 0.00 0.00 3.18
1999 2233 1.078759 CCAGAGTTCAAGCGCCTACG 61.079 60.000 2.29 0.00 44.07 3.51
2000 2234 1.078759 CAGAGTTCAAGCGCCTACGG 61.079 60.000 2.29 0.00 40.57 4.02
2008 2242 2.879462 GCGCCTACGGTGACTTCG 60.879 66.667 0.00 0.00 40.57 3.79
2009 2243 2.564975 CGCCTACGGTGACTTCGT 59.435 61.111 0.00 0.00 43.64 3.85
2010 2244 1.796151 CGCCTACGGTGACTTCGTA 59.204 57.895 0.00 0.00 41.38 3.43
2011 2245 0.168788 CGCCTACGGTGACTTCGTAA 59.831 55.000 0.00 0.00 41.62 3.18
2012 2246 1.401409 CGCCTACGGTGACTTCGTAAA 60.401 52.381 0.00 0.00 41.62 2.01
2013 2247 2.733227 CGCCTACGGTGACTTCGTAAAT 60.733 50.000 0.00 0.00 41.62 1.40
2014 2248 2.856557 GCCTACGGTGACTTCGTAAATC 59.143 50.000 0.00 0.00 41.62 2.17
2015 2249 3.428589 GCCTACGGTGACTTCGTAAATCT 60.429 47.826 0.00 0.00 41.62 2.40
2016 2250 4.349501 CCTACGGTGACTTCGTAAATCTC 58.650 47.826 0.00 0.00 41.62 2.75
2017 2251 3.928727 ACGGTGACTTCGTAAATCTCA 57.071 42.857 0.00 0.00 39.22 3.27
2018 2252 4.247267 ACGGTGACTTCGTAAATCTCAA 57.753 40.909 0.00 0.00 39.22 3.02
2019 2253 4.235360 ACGGTGACTTCGTAAATCTCAAG 58.765 43.478 0.00 0.00 39.22 3.02
2020 2254 4.022589 ACGGTGACTTCGTAAATCTCAAGA 60.023 41.667 0.00 0.00 39.22 3.02
2021 2255 5.103000 CGGTGACTTCGTAAATCTCAAGAT 58.897 41.667 0.00 0.00 36.07 2.40
2022 2256 5.004821 CGGTGACTTCGTAAATCTCAAGATG 59.995 44.000 0.00 0.00 34.49 2.90
2023 2257 6.100004 GGTGACTTCGTAAATCTCAAGATGA 58.900 40.000 0.00 0.00 34.49 2.92
2024 2258 6.758886 GGTGACTTCGTAAATCTCAAGATGAT 59.241 38.462 0.00 0.00 34.49 2.45
2025 2259 7.921214 GGTGACTTCGTAAATCTCAAGATGATA 59.079 37.037 0.00 0.00 34.49 2.15
2026 2260 9.469807 GTGACTTCGTAAATCTCAAGATGATAT 57.530 33.333 0.00 0.00 34.49 1.63
2027 2261 9.468532 TGACTTCGTAAATCTCAAGATGATATG 57.531 33.333 0.00 0.00 34.49 1.78
2028 2262 8.304202 ACTTCGTAAATCTCAAGATGATATGC 57.696 34.615 0.00 0.00 34.49 3.14
2029 2263 7.386299 ACTTCGTAAATCTCAAGATGATATGCC 59.614 37.037 0.00 0.00 34.49 4.40
2030 2264 5.863935 TCGTAAATCTCAAGATGATATGCCG 59.136 40.000 0.00 0.00 34.49 5.69
2031 2265 5.062683 CGTAAATCTCAAGATGATATGCCGG 59.937 44.000 0.00 0.00 34.49 6.13
2032 2266 2.462456 TCTCAAGATGATATGCCGGC 57.538 50.000 22.73 22.73 0.00 6.13
2033 2267 1.973515 TCTCAAGATGATATGCCGGCT 59.026 47.619 29.70 15.76 0.00 5.52
2034 2268 2.028658 TCTCAAGATGATATGCCGGCTC 60.029 50.000 29.70 17.89 0.00 4.70
2035 2269 1.693606 TCAAGATGATATGCCGGCTCA 59.306 47.619 29.70 23.34 0.00 4.26
2036 2270 2.074576 CAAGATGATATGCCGGCTCAG 58.925 52.381 29.70 7.35 0.00 3.35
2037 2271 1.346062 AGATGATATGCCGGCTCAGT 58.654 50.000 29.70 13.44 0.00 3.41
2038 2272 1.274728 AGATGATATGCCGGCTCAGTC 59.725 52.381 29.70 19.55 0.00 3.51
2039 2273 1.274728 GATGATATGCCGGCTCAGTCT 59.725 52.381 29.70 8.26 0.00 3.24
2040 2274 0.676184 TGATATGCCGGCTCAGTCTC 59.324 55.000 29.70 15.31 0.00 3.36
2041 2275 0.965439 GATATGCCGGCTCAGTCTCT 59.035 55.000 29.70 3.16 0.00 3.10
2042 2276 0.965439 ATATGCCGGCTCAGTCTCTC 59.035 55.000 29.70 0.00 0.00 3.20
2043 2277 1.448119 TATGCCGGCTCAGTCTCTCG 61.448 60.000 29.70 0.00 0.00 4.04
2044 2278 4.200283 GCCGGCTCAGTCTCTCGG 62.200 72.222 22.15 0.00 43.13 4.63
2045 2279 2.438614 CCGGCTCAGTCTCTCGGA 60.439 66.667 0.00 0.00 42.94 4.55
2046 2280 2.477176 CCGGCTCAGTCTCTCGGAG 61.477 68.421 0.00 0.00 42.94 4.63
2047 2281 2.477176 CGGCTCAGTCTCTCGGAGG 61.477 68.421 4.96 0.00 38.48 4.30
2048 2282 1.379309 GGCTCAGTCTCTCGGAGGT 60.379 63.158 4.96 0.00 38.48 3.85
2049 2283 1.662438 GGCTCAGTCTCTCGGAGGTG 61.662 65.000 4.96 0.00 38.48 4.00
2050 2284 1.806568 CTCAGTCTCTCGGAGGTGC 59.193 63.158 4.96 0.00 35.32 5.01
2051 2285 0.679640 CTCAGTCTCTCGGAGGTGCT 60.680 60.000 4.96 0.00 35.32 4.40
2052 2286 0.678366 TCAGTCTCTCGGAGGTGCTC 60.678 60.000 4.96 0.00 0.00 4.26
2053 2287 0.962855 CAGTCTCTCGGAGGTGCTCA 60.963 60.000 4.96 0.00 31.08 4.26
2054 2288 0.033601 AGTCTCTCGGAGGTGCTCAT 60.034 55.000 4.96 0.00 31.08 2.90
2055 2289 1.213182 AGTCTCTCGGAGGTGCTCATA 59.787 52.381 4.96 0.00 31.08 2.15
2056 2290 1.606668 GTCTCTCGGAGGTGCTCATAG 59.393 57.143 4.96 0.00 31.08 2.23
2057 2291 0.958091 CTCTCGGAGGTGCTCATAGG 59.042 60.000 4.96 0.00 31.08 2.57
2058 2292 0.468214 TCTCGGAGGTGCTCATAGGG 60.468 60.000 4.96 0.00 31.08 3.53
2059 2293 1.457643 TCGGAGGTGCTCATAGGGG 60.458 63.158 0.00 0.00 31.08 4.79
2060 2294 1.762460 CGGAGGTGCTCATAGGGGT 60.762 63.158 0.00 0.00 31.08 4.95
2061 2295 0.469331 CGGAGGTGCTCATAGGGGTA 60.469 60.000 0.00 0.00 31.08 3.69
2062 2296 1.343069 GGAGGTGCTCATAGGGGTAG 58.657 60.000 0.00 0.00 31.08 3.18
2063 2297 1.343069 GAGGTGCTCATAGGGGTAGG 58.657 60.000 0.00 0.00 0.00 3.18
2064 2298 0.104934 AGGTGCTCATAGGGGTAGGG 60.105 60.000 0.00 0.00 0.00 3.53
2065 2299 0.400093 GGTGCTCATAGGGGTAGGGT 60.400 60.000 0.00 0.00 0.00 4.34
2066 2300 0.759346 GTGCTCATAGGGGTAGGGTG 59.241 60.000 0.00 0.00 0.00 4.61
2067 2301 0.341961 TGCTCATAGGGGTAGGGTGT 59.658 55.000 0.00 0.00 0.00 4.16
2068 2302 0.759346 GCTCATAGGGGTAGGGTGTG 59.241 60.000 0.00 0.00 0.00 3.82
2069 2303 1.970226 GCTCATAGGGGTAGGGTGTGT 60.970 57.143 0.00 0.00 0.00 3.72
2070 2304 1.762957 CTCATAGGGGTAGGGTGTGTG 59.237 57.143 0.00 0.00 0.00 3.82
2071 2305 0.837272 CATAGGGGTAGGGTGTGTGG 59.163 60.000 0.00 0.00 0.00 4.17
2072 2306 0.327191 ATAGGGGTAGGGTGTGTGGG 60.327 60.000 0.00 0.00 0.00 4.61
2073 2307 1.753259 TAGGGGTAGGGTGTGTGGGT 61.753 60.000 0.00 0.00 0.00 4.51
2074 2308 2.754375 GGGTAGGGTGTGTGGGTG 59.246 66.667 0.00 0.00 0.00 4.61
2075 2309 2.033602 GGTAGGGTGTGTGGGTGC 59.966 66.667 0.00 0.00 0.00 5.01
2076 2310 2.358247 GTAGGGTGTGTGGGTGCG 60.358 66.667 0.00 0.00 0.00 5.34
2077 2311 4.323477 TAGGGTGTGTGGGTGCGC 62.323 66.667 0.00 0.00 0.00 6.09
2081 2315 4.307908 GTGTGTGGGTGCGCGTTC 62.308 66.667 8.43 0.37 0.00 3.95
2082 2316 4.840005 TGTGTGGGTGCGCGTTCA 62.840 61.111 8.43 0.00 0.00 3.18
2083 2317 3.353836 GTGTGGGTGCGCGTTCAT 61.354 61.111 8.43 0.00 0.00 2.57
2084 2318 2.030401 GTGTGGGTGCGCGTTCATA 61.030 57.895 8.43 0.00 0.00 2.15
2085 2319 1.739929 TGTGGGTGCGCGTTCATAG 60.740 57.895 8.43 0.00 0.00 2.23
2086 2320 2.125310 TGGGTGCGCGTTCATAGG 60.125 61.111 8.43 0.00 0.00 2.57
2087 2321 2.185867 GGGTGCGCGTTCATAGGA 59.814 61.111 8.43 0.00 0.00 2.94
2088 2322 1.448893 GGGTGCGCGTTCATAGGAA 60.449 57.895 8.43 0.00 0.00 3.36
2089 2323 0.814010 GGGTGCGCGTTCATAGGAAT 60.814 55.000 8.43 0.00 35.05 3.01
2090 2324 0.304705 GGTGCGCGTTCATAGGAATG 59.695 55.000 8.43 4.97 41.92 2.67
2091 2325 1.286501 GTGCGCGTTCATAGGAATGA 58.713 50.000 13.33 0.00 41.62 2.57
2092 2326 1.258982 GTGCGCGTTCATAGGAATGAG 59.741 52.381 13.33 10.80 42.97 2.90
2093 2327 1.134818 TGCGCGTTCATAGGAATGAGT 60.135 47.619 13.33 0.00 42.97 3.41
2094 2328 1.258982 GCGCGTTCATAGGAATGAGTG 59.741 52.381 13.33 6.49 42.97 3.51
2095 2329 2.540515 CGCGTTCATAGGAATGAGTGT 58.459 47.619 13.33 0.00 42.97 3.55
2096 2330 3.702330 CGCGTTCATAGGAATGAGTGTA 58.298 45.455 13.33 0.00 42.97 2.90
2097 2331 4.299155 CGCGTTCATAGGAATGAGTGTAT 58.701 43.478 13.33 0.00 42.97 2.29
2098 2332 4.148871 CGCGTTCATAGGAATGAGTGTATG 59.851 45.833 13.33 0.00 42.97 2.39
2099 2333 4.084328 GCGTTCATAGGAATGAGTGTATGC 60.084 45.833 13.33 0.00 42.97 3.14
2100 2334 4.148871 CGTTCATAGGAATGAGTGTATGCG 59.851 45.833 3.19 0.00 42.97 4.73
2101 2335 3.653344 TCATAGGAATGAGTGTATGCGC 58.347 45.455 0.00 0.00 37.20 6.09
2102 2336 2.134201 TAGGAATGAGTGTATGCGCG 57.866 50.000 0.00 0.00 0.00 6.86
2103 2337 0.175760 AGGAATGAGTGTATGCGCGT 59.824 50.000 8.43 7.55 0.00 6.01
2104 2338 0.301687 GGAATGAGTGTATGCGCGTG 59.698 55.000 13.61 0.00 0.00 5.34
2105 2339 0.999406 GAATGAGTGTATGCGCGTGT 59.001 50.000 13.61 0.00 0.00 4.49
2106 2340 2.190161 GAATGAGTGTATGCGCGTGTA 58.810 47.619 13.61 0.00 0.00 2.90
2107 2341 2.509052 ATGAGTGTATGCGCGTGTAT 57.491 45.000 13.61 4.63 0.00 2.29
2108 2342 3.636282 ATGAGTGTATGCGCGTGTATA 57.364 42.857 13.61 2.40 0.00 1.47
2109 2343 3.636282 TGAGTGTATGCGCGTGTATAT 57.364 42.857 13.61 0.00 0.00 0.86
2110 2344 3.305110 TGAGTGTATGCGCGTGTATATG 58.695 45.455 13.61 0.00 0.00 1.78
2111 2345 2.661675 GAGTGTATGCGCGTGTATATGG 59.338 50.000 13.61 0.00 0.00 2.74
2112 2346 1.724623 GTGTATGCGCGTGTATATGGG 59.275 52.381 13.61 0.00 0.00 4.00
2116 2350 4.750460 CGCGTGTATATGGGCACT 57.250 55.556 0.00 0.00 33.78 4.40
2117 2351 2.986311 CGCGTGTATATGGGCACTT 58.014 52.632 0.00 0.00 33.78 3.16
2118 2352 0.581529 CGCGTGTATATGGGCACTTG 59.418 55.000 0.00 0.00 33.78 3.16
2119 2353 1.663695 GCGTGTATATGGGCACTTGT 58.336 50.000 0.00 0.00 33.78 3.16
2120 2354 1.330521 GCGTGTATATGGGCACTTGTG 59.669 52.381 0.00 0.00 33.78 3.33
2121 2355 2.627945 CGTGTATATGGGCACTTGTGT 58.372 47.619 2.61 0.00 33.78 3.72
2122 2356 2.607635 CGTGTATATGGGCACTTGTGTC 59.392 50.000 2.61 0.00 33.78 3.67
2123 2357 3.678806 CGTGTATATGGGCACTTGTGTCT 60.679 47.826 5.33 0.00 33.78 3.41
2124 2358 3.623060 GTGTATATGGGCACTTGTGTCTG 59.377 47.826 5.33 0.00 33.22 3.51
2125 2359 3.263170 TGTATATGGGCACTTGTGTCTGT 59.737 43.478 5.33 0.00 0.00 3.41
2126 2360 4.468153 TGTATATGGGCACTTGTGTCTGTA 59.532 41.667 5.33 0.09 0.00 2.74
2127 2361 2.185004 ATGGGCACTTGTGTCTGTAC 57.815 50.000 5.33 0.00 0.00 2.90
2128 2362 1.128200 TGGGCACTTGTGTCTGTACT 58.872 50.000 5.33 0.00 0.00 2.73
2129 2363 1.202639 TGGGCACTTGTGTCTGTACTG 60.203 52.381 5.33 0.00 0.00 2.74
2130 2364 1.070134 GGGCACTTGTGTCTGTACTGA 59.930 52.381 5.33 0.00 0.00 3.41
2131 2365 2.289694 GGGCACTTGTGTCTGTACTGAT 60.290 50.000 5.69 0.00 0.00 2.90
2132 2366 2.738846 GGCACTTGTGTCTGTACTGATG 59.261 50.000 5.69 0.63 0.00 3.07
2133 2367 2.158449 GCACTTGTGTCTGTACTGATGC 59.842 50.000 5.69 6.84 0.00 3.91
2134 2368 3.657634 CACTTGTGTCTGTACTGATGCT 58.342 45.455 5.69 0.00 0.00 3.79
2135 2369 4.060900 CACTTGTGTCTGTACTGATGCTT 58.939 43.478 5.69 0.00 0.00 3.91
2136 2370 5.230182 CACTTGTGTCTGTACTGATGCTTA 58.770 41.667 5.69 0.00 0.00 3.09
2137 2371 5.696270 CACTTGTGTCTGTACTGATGCTTAA 59.304 40.000 5.69 0.00 0.00 1.85
2138 2372 6.202762 CACTTGTGTCTGTACTGATGCTTAAA 59.797 38.462 5.69 0.00 0.00 1.52
2139 2373 6.765989 ACTTGTGTCTGTACTGATGCTTAAAA 59.234 34.615 5.69 0.00 0.00 1.52
2140 2374 7.282224 ACTTGTGTCTGTACTGATGCTTAAAAA 59.718 33.333 5.69 0.00 0.00 1.94
2241 2475 9.360093 CGGTTAACAAAATTAATTAATCAGCCA 57.640 29.630 11.08 0.00 0.00 4.75
2464 2706 4.825085 TGAACCCGAAAAAGCATAAGAAGT 59.175 37.500 0.00 0.00 0.00 3.01
2465 2707 5.998981 TGAACCCGAAAAAGCATAAGAAGTA 59.001 36.000 0.00 0.00 0.00 2.24
2503 2745 3.826157 CTGTGAGAGAGCTAGGGATAAGG 59.174 52.174 0.00 0.00 0.00 2.69
2538 2792 2.030363 CACAATGACCCTTTGCGCTTTA 60.030 45.455 9.73 0.00 0.00 1.85
2552 2806 2.033424 GCGCTTTATCCTGCCCTTTTAG 59.967 50.000 0.00 0.00 0.00 1.85
2720 2981 4.507916 TCCTCCCTCCGCTCTCCG 62.508 72.222 0.00 0.00 0.00 4.63
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 3.696045 CATGGTTGGTGGGATAAGACAA 58.304 45.455 0.00 0.00 0.00 3.18
23 24 0.745486 TGCTCTCCGATTGTGCATGG 60.745 55.000 0.00 0.00 0.00 3.66
30 31 0.443869 CCGTTGTTGCTCTCCGATTG 59.556 55.000 0.00 0.00 0.00 2.67
36 37 1.009829 CATAGGCCGTTGTTGCTCTC 58.990 55.000 0.00 0.00 0.00 3.20
81 82 2.044352 CGGGGGTGTTTGGATCCC 60.044 66.667 9.90 0.00 40.41 3.85
97 98 3.062763 CAGAGCATGACTTATAAGGGCG 58.937 50.000 16.73 3.70 0.00 6.13
126 127 7.629157 TGGGTTTAATCTCACATGAGTTATGA 58.371 34.615 8.70 0.00 42.60 2.15
133 134 6.303054 TCAAGTTGGGTTTAATCTCACATGA 58.697 36.000 0.00 0.00 0.00 3.07
134 135 6.573664 TCAAGTTGGGTTTAATCTCACATG 57.426 37.500 2.34 0.00 0.00 3.21
143 144 5.470777 CCATAGTCGTTCAAGTTGGGTTTAA 59.529 40.000 2.34 0.00 0.00 1.52
154 155 6.199937 GACTTAGTACCCATAGTCGTTCAA 57.800 41.667 0.00 0.00 0.00 2.69
164 165 5.012239 TGTTACTGACGACTTAGTACCCAT 58.988 41.667 0.00 0.00 0.00 4.00
172 173 6.712095 TCTCCTTTACTGTTACTGACGACTTA 59.288 38.462 0.00 0.00 0.00 2.24
181 182 8.203681 ACTAACCAATCTCCTTTACTGTTACT 57.796 34.615 0.00 0.00 0.00 2.24
217 218 6.037610 GCTATATTTTATTCTGCCGGGATGAG 59.962 42.308 2.18 0.00 0.00 2.90
219 220 5.647658 TGCTATATTTTATTCTGCCGGGATG 59.352 40.000 2.18 0.00 0.00 3.51
362 363 6.260700 AGGCATAATACATTAGTGGAACCA 57.739 37.500 0.00 0.00 37.80 3.67
462 463 6.086241 CGAAAAACATTCCATTACACAGTTCG 59.914 38.462 0.00 0.00 0.00 3.95
535 536 2.945008 TCGTCGGACCATAGTCGTAAAT 59.055 45.455 1.91 0.00 44.54 1.40
633 849 6.094186 GGAGGTAATACTGCTTTCTGGAAAAG 59.906 42.308 0.00 0.00 0.00 2.27
646 862 3.130516 TGCAGAGTTCGGAGGTAATACTG 59.869 47.826 0.00 0.00 0.00 2.74
649 865 3.321111 GGATGCAGAGTTCGGAGGTAATA 59.679 47.826 0.00 0.00 0.00 0.98
660 876 3.076104 CATCGCTGGATGCAGAGTT 57.924 52.632 19.59 7.09 43.26 3.01
668 884 2.110967 GCTGTGTGCATCGCTGGAT 61.111 57.895 0.00 0.00 42.31 3.41
798 1014 5.098211 GCAATTCTGGCTTTAGCTTACAAG 58.902 41.667 0.00 0.00 41.70 3.16
880 1098 3.992317 GGAGGTATCGAGCGGGGC 61.992 72.222 0.00 0.00 0.00 5.80
905 1123 0.681564 CAGTAGGCGAGTGAGAGGGT 60.682 60.000 0.00 0.00 0.00 4.34
906 1124 2.010582 GCAGTAGGCGAGTGAGAGGG 62.011 65.000 6.62 0.00 0.00 4.30
917 1135 0.384669 CAGTAGTACCGGCAGTAGGC 59.615 60.000 0.00 0.00 43.74 3.93
927 1145 1.086634 GCAGCAGCAGCAGTAGTACC 61.087 60.000 4.63 0.00 45.49 3.34
972 1201 0.032117 TAGCTGCCCCTCTTCTGCTA 60.032 55.000 0.00 0.00 38.26 3.49
977 1206 1.392710 TACGCTAGCTGCCCCTCTTC 61.393 60.000 13.93 0.00 38.78 2.87
996 1225 2.093553 GCTCTTCCTGCTCTTCATGTCT 60.094 50.000 0.00 0.00 0.00 3.41
1754 1983 1.955080 ACTCCCGTCGAGAATACATCC 59.045 52.381 3.92 0.00 41.63 3.51
1760 1989 1.830279 TGTGTACTCCCGTCGAGAAT 58.170 50.000 3.92 0.00 41.63 2.40
1870 2100 0.606604 ACTGGAACCGCTCGTACAAT 59.393 50.000 0.00 0.00 0.00 2.71
1935 2169 2.158667 CCTAACCAACTCAACCACAGGT 60.159 50.000 0.00 0.00 37.65 4.00
1936 2170 2.158667 ACCTAACCAACTCAACCACAGG 60.159 50.000 0.00 0.00 0.00 4.00
1937 2171 2.878406 CACCTAACCAACTCAACCACAG 59.122 50.000 0.00 0.00 0.00 3.66
1938 2172 2.422235 CCACCTAACCAACTCAACCACA 60.422 50.000 0.00 0.00 0.00 4.17
1939 2173 2.158726 TCCACCTAACCAACTCAACCAC 60.159 50.000 0.00 0.00 0.00 4.16
1940 2174 2.128535 TCCACCTAACCAACTCAACCA 58.871 47.619 0.00 0.00 0.00 3.67
1941 2175 2.158726 TGTCCACCTAACCAACTCAACC 60.159 50.000 0.00 0.00 0.00 3.77
1942 2176 3.139077 CTGTCCACCTAACCAACTCAAC 58.861 50.000 0.00 0.00 0.00 3.18
1943 2177 2.775384 ACTGTCCACCTAACCAACTCAA 59.225 45.455 0.00 0.00 0.00 3.02
1944 2178 2.104111 CACTGTCCACCTAACCAACTCA 59.896 50.000 0.00 0.00 0.00 3.41
1945 2179 2.550208 CCACTGTCCACCTAACCAACTC 60.550 54.545 0.00 0.00 0.00 3.01
1946 2180 1.420138 CCACTGTCCACCTAACCAACT 59.580 52.381 0.00 0.00 0.00 3.16
1947 2181 1.142262 ACCACTGTCCACCTAACCAAC 59.858 52.381 0.00 0.00 0.00 3.77
1948 2182 1.513858 ACCACTGTCCACCTAACCAA 58.486 50.000 0.00 0.00 0.00 3.67
1949 2183 2.402182 TACCACTGTCCACCTAACCA 57.598 50.000 0.00 0.00 0.00 3.67
1950 2184 2.169978 GGATACCACTGTCCACCTAACC 59.830 54.545 0.00 0.00 34.57 2.85
1951 2185 3.538634 GGATACCACTGTCCACCTAAC 57.461 52.381 0.00 0.00 34.57 2.34
1966 2200 0.546598 CTCTGGTGGGTTGGGGATAC 59.453 60.000 0.00 0.00 0.00 2.24
1967 2201 0.120377 ACTCTGGTGGGTTGGGGATA 59.880 55.000 0.00 0.00 0.00 2.59
1968 2202 0.776080 AACTCTGGTGGGTTGGGGAT 60.776 55.000 0.00 0.00 0.00 3.85
1969 2203 1.386772 AACTCTGGTGGGTTGGGGA 60.387 57.895 0.00 0.00 0.00 4.81
1970 2204 1.074951 GAACTCTGGTGGGTTGGGG 59.925 63.158 0.00 0.00 0.00 4.96
1971 2205 0.184933 TTGAACTCTGGTGGGTTGGG 59.815 55.000 0.00 0.00 0.00 4.12
1972 2206 1.609208 CTTGAACTCTGGTGGGTTGG 58.391 55.000 0.00 0.00 0.00 3.77
1973 2207 0.954452 GCTTGAACTCTGGTGGGTTG 59.046 55.000 0.00 0.00 0.00 3.77
1974 2208 0.535102 CGCTTGAACTCTGGTGGGTT 60.535 55.000 0.00 0.00 0.00 4.11
1975 2209 1.071471 CGCTTGAACTCTGGTGGGT 59.929 57.895 0.00 0.00 0.00 4.51
1976 2210 2.328099 GCGCTTGAACTCTGGTGGG 61.328 63.158 0.00 0.00 0.00 4.61
1977 2211 2.328099 GGCGCTTGAACTCTGGTGG 61.328 63.158 7.64 0.00 0.00 4.61
1978 2212 0.037326 TAGGCGCTTGAACTCTGGTG 60.037 55.000 7.64 0.00 0.00 4.17
1979 2213 0.037232 GTAGGCGCTTGAACTCTGGT 60.037 55.000 7.64 0.00 0.00 4.00
1980 2214 1.078759 CGTAGGCGCTTGAACTCTGG 61.079 60.000 7.64 0.00 0.00 3.86
1981 2215 1.078759 CCGTAGGCGCTTGAACTCTG 61.079 60.000 7.64 0.00 46.14 3.35
1982 2216 1.215647 CCGTAGGCGCTTGAACTCT 59.784 57.895 7.64 0.00 46.14 3.24
1983 2217 3.782042 CCGTAGGCGCTTGAACTC 58.218 61.111 7.64 0.00 46.14 3.01
1995 2229 4.978186 TGAGATTTACGAAGTCACCGTAG 58.022 43.478 0.00 0.00 43.93 3.51
1996 2230 5.181811 TCTTGAGATTTACGAAGTCACCGTA 59.818 40.000 0.00 0.00 43.93 4.02
1997 2231 3.928727 TGAGATTTACGAAGTCACCGT 57.071 42.857 0.00 0.00 43.93 4.83
1998 2232 4.482386 TCTTGAGATTTACGAAGTCACCG 58.518 43.478 0.00 0.00 43.93 4.94
1999 2233 6.100004 TCATCTTGAGATTTACGAAGTCACC 58.900 40.000 0.00 0.00 35.39 4.02
2000 2234 7.763172 ATCATCTTGAGATTTACGAAGTCAC 57.237 36.000 0.00 0.00 35.39 3.67
2001 2235 9.468532 CATATCATCTTGAGATTTACGAAGTCA 57.531 33.333 0.00 0.00 35.39 3.41
2002 2236 8.431593 GCATATCATCTTGAGATTTACGAAGTC 58.568 37.037 0.00 0.00 35.39 3.01
2003 2237 7.386299 GGCATATCATCTTGAGATTTACGAAGT 59.614 37.037 0.00 0.00 37.29 3.01
2004 2238 7.411264 CGGCATATCATCTTGAGATTTACGAAG 60.411 40.741 0.00 0.00 31.21 3.79
2005 2239 6.366061 CGGCATATCATCTTGAGATTTACGAA 59.634 38.462 0.00 0.00 31.21 3.85
2006 2240 5.863935 CGGCATATCATCTTGAGATTTACGA 59.136 40.000 0.00 0.00 31.21 3.43
2007 2241 5.062683 CCGGCATATCATCTTGAGATTTACG 59.937 44.000 0.00 0.00 31.21 3.18
2008 2242 5.163814 GCCGGCATATCATCTTGAGATTTAC 60.164 44.000 24.80 0.00 31.21 2.01
2009 2243 4.937620 GCCGGCATATCATCTTGAGATTTA 59.062 41.667 24.80 0.00 31.21 1.40
2010 2244 3.755378 GCCGGCATATCATCTTGAGATTT 59.245 43.478 24.80 0.00 31.21 2.17
2011 2245 3.008813 AGCCGGCATATCATCTTGAGATT 59.991 43.478 31.54 0.00 31.21 2.40
2012 2246 2.570752 AGCCGGCATATCATCTTGAGAT 59.429 45.455 31.54 0.00 34.56 2.75
2013 2247 1.973515 AGCCGGCATATCATCTTGAGA 59.026 47.619 31.54 0.00 0.00 3.27
2014 2248 2.289257 TGAGCCGGCATATCATCTTGAG 60.289 50.000 31.54 0.00 0.00 3.02
2015 2249 1.693606 TGAGCCGGCATATCATCTTGA 59.306 47.619 31.54 0.00 0.00 3.02
2016 2250 2.074576 CTGAGCCGGCATATCATCTTG 58.925 52.381 31.54 7.95 0.00 3.02
2017 2251 1.696336 ACTGAGCCGGCATATCATCTT 59.304 47.619 31.54 3.33 0.00 2.40
2018 2252 1.274728 GACTGAGCCGGCATATCATCT 59.725 52.381 31.54 11.40 0.00 2.90
2019 2253 1.274728 AGACTGAGCCGGCATATCATC 59.725 52.381 31.54 19.98 0.00 2.92
2020 2254 1.274728 GAGACTGAGCCGGCATATCAT 59.725 52.381 31.54 13.17 0.00 2.45
2021 2255 0.676184 GAGACTGAGCCGGCATATCA 59.324 55.000 31.54 22.44 0.00 2.15
2022 2256 0.965439 AGAGACTGAGCCGGCATATC 59.035 55.000 31.54 18.63 0.00 1.63
2023 2257 0.965439 GAGAGACTGAGCCGGCATAT 59.035 55.000 31.54 8.11 0.00 1.78
2024 2258 1.448119 CGAGAGACTGAGCCGGCATA 61.448 60.000 31.54 16.21 0.00 3.14
2025 2259 2.780094 CGAGAGACTGAGCCGGCAT 61.780 63.158 31.54 14.28 0.00 4.40
2026 2260 3.443925 CGAGAGACTGAGCCGGCA 61.444 66.667 31.54 7.98 0.00 5.69
2027 2261 4.200283 CCGAGAGACTGAGCCGGC 62.200 72.222 21.89 21.89 33.47 6.13
2028 2262 2.438614 TCCGAGAGACTGAGCCGG 60.439 66.667 0.00 0.00 41.36 6.13
2029 2263 2.477176 CCTCCGAGAGACTGAGCCG 61.477 68.421 0.00 0.00 0.00 5.52
2030 2264 1.379309 ACCTCCGAGAGACTGAGCC 60.379 63.158 0.00 0.00 0.00 4.70
2031 2265 1.806568 CACCTCCGAGAGACTGAGC 59.193 63.158 0.00 0.00 0.00 4.26
2032 2266 0.679640 AGCACCTCCGAGAGACTGAG 60.680 60.000 0.00 0.00 0.00 3.35
2033 2267 0.678366 GAGCACCTCCGAGAGACTGA 60.678 60.000 0.00 0.00 0.00 3.41
2034 2268 0.962855 TGAGCACCTCCGAGAGACTG 60.963 60.000 0.00 0.22 0.00 3.51
2035 2269 0.033601 ATGAGCACCTCCGAGAGACT 60.034 55.000 0.00 0.00 0.00 3.24
2036 2270 1.606668 CTATGAGCACCTCCGAGAGAC 59.393 57.143 0.00 0.00 0.00 3.36
2037 2271 1.477740 CCTATGAGCACCTCCGAGAGA 60.478 57.143 0.00 0.00 0.00 3.10
2038 2272 0.958091 CCTATGAGCACCTCCGAGAG 59.042 60.000 0.00 0.00 0.00 3.20
2039 2273 0.468214 CCCTATGAGCACCTCCGAGA 60.468 60.000 0.00 0.00 0.00 4.04
2040 2274 1.467678 CCCCTATGAGCACCTCCGAG 61.468 65.000 0.00 0.00 0.00 4.63
2041 2275 1.457643 CCCCTATGAGCACCTCCGA 60.458 63.158 0.00 0.00 0.00 4.55
2042 2276 0.469331 TACCCCTATGAGCACCTCCG 60.469 60.000 0.00 0.00 0.00 4.63
2043 2277 1.343069 CTACCCCTATGAGCACCTCC 58.657 60.000 0.00 0.00 0.00 4.30
2044 2278 1.343069 CCTACCCCTATGAGCACCTC 58.657 60.000 0.00 0.00 0.00 3.85
2045 2279 0.104934 CCCTACCCCTATGAGCACCT 60.105 60.000 0.00 0.00 0.00 4.00
2046 2280 0.400093 ACCCTACCCCTATGAGCACC 60.400 60.000 0.00 0.00 0.00 5.01
2047 2281 0.759346 CACCCTACCCCTATGAGCAC 59.241 60.000 0.00 0.00 0.00 4.40
2048 2282 0.341961 ACACCCTACCCCTATGAGCA 59.658 55.000 0.00 0.00 0.00 4.26
2049 2283 0.759346 CACACCCTACCCCTATGAGC 59.241 60.000 0.00 0.00 0.00 4.26
2050 2284 1.762957 CACACACCCTACCCCTATGAG 59.237 57.143 0.00 0.00 0.00 2.90
2051 2285 1.624113 CCACACACCCTACCCCTATGA 60.624 57.143 0.00 0.00 0.00 2.15
2052 2286 0.837272 CCACACACCCTACCCCTATG 59.163 60.000 0.00 0.00 0.00 2.23
2053 2287 0.327191 CCCACACACCCTACCCCTAT 60.327 60.000 0.00 0.00 0.00 2.57
2054 2288 1.081462 CCCACACACCCTACCCCTA 59.919 63.158 0.00 0.00 0.00 3.53
2055 2289 2.204090 CCCACACACCCTACCCCT 60.204 66.667 0.00 0.00 0.00 4.79
2056 2290 2.530916 ACCCACACACCCTACCCC 60.531 66.667 0.00 0.00 0.00 4.95
2057 2291 2.754375 CACCCACACACCCTACCC 59.246 66.667 0.00 0.00 0.00 3.69
2058 2292 2.033602 GCACCCACACACCCTACC 59.966 66.667 0.00 0.00 0.00 3.18
2059 2293 2.358247 CGCACCCACACACCCTAC 60.358 66.667 0.00 0.00 0.00 3.18
2060 2294 4.323477 GCGCACCCACACACCCTA 62.323 66.667 0.30 0.00 0.00 3.53
2064 2298 4.307908 GAACGCGCACCCACACAC 62.308 66.667 5.73 0.00 0.00 3.82
2065 2299 2.717139 TATGAACGCGCACCCACACA 62.717 55.000 5.73 0.00 0.00 3.72
2066 2300 1.966493 CTATGAACGCGCACCCACAC 61.966 60.000 5.73 0.00 0.00 3.82
2067 2301 1.739929 CTATGAACGCGCACCCACA 60.740 57.895 5.73 0.00 0.00 4.17
2068 2302 2.461110 CCTATGAACGCGCACCCAC 61.461 63.158 5.73 0.00 0.00 4.61
2069 2303 2.125310 CCTATGAACGCGCACCCA 60.125 61.111 5.73 0.93 0.00 4.51
2070 2304 0.814010 ATTCCTATGAACGCGCACCC 60.814 55.000 5.73 0.00 32.13 4.61
2071 2305 0.304705 CATTCCTATGAACGCGCACC 59.695 55.000 5.73 0.00 33.37 5.01
2072 2306 1.258982 CTCATTCCTATGAACGCGCAC 59.741 52.381 5.73 0.00 40.17 5.34
2073 2307 1.134818 ACTCATTCCTATGAACGCGCA 60.135 47.619 5.73 0.00 40.17 6.09
2074 2308 1.258982 CACTCATTCCTATGAACGCGC 59.741 52.381 5.73 0.00 40.17 6.86
2075 2309 2.540515 ACACTCATTCCTATGAACGCG 58.459 47.619 3.53 3.53 40.17 6.01
2076 2310 4.084328 GCATACACTCATTCCTATGAACGC 60.084 45.833 0.00 0.00 40.17 4.84
2077 2311 4.148871 CGCATACACTCATTCCTATGAACG 59.851 45.833 0.00 0.00 40.17 3.95
2078 2312 4.084328 GCGCATACACTCATTCCTATGAAC 60.084 45.833 0.30 0.00 40.17 3.18
2079 2313 4.058124 GCGCATACACTCATTCCTATGAA 58.942 43.478 0.30 0.00 40.17 2.57
2080 2314 3.653344 GCGCATACACTCATTCCTATGA 58.347 45.455 0.30 0.00 38.45 2.15
2081 2315 2.409715 CGCGCATACACTCATTCCTATG 59.590 50.000 8.75 0.00 0.00 2.23
2082 2316 2.035961 ACGCGCATACACTCATTCCTAT 59.964 45.455 5.73 0.00 0.00 2.57
2083 2317 1.407618 ACGCGCATACACTCATTCCTA 59.592 47.619 5.73 0.00 0.00 2.94
2084 2318 0.175760 ACGCGCATACACTCATTCCT 59.824 50.000 5.73 0.00 0.00 3.36
2085 2319 0.301687 CACGCGCATACACTCATTCC 59.698 55.000 5.73 0.00 0.00 3.01
2086 2320 0.999406 ACACGCGCATACACTCATTC 59.001 50.000 5.73 0.00 0.00 2.67
2087 2321 2.287393 TACACGCGCATACACTCATT 57.713 45.000 5.73 0.00 0.00 2.57
2088 2322 2.509052 ATACACGCGCATACACTCAT 57.491 45.000 5.73 0.00 0.00 2.90
2089 2323 3.305110 CATATACACGCGCATACACTCA 58.695 45.455 5.73 0.00 0.00 3.41
2090 2324 2.661675 CCATATACACGCGCATACACTC 59.338 50.000 5.73 0.00 0.00 3.51
2091 2325 2.609491 CCCATATACACGCGCATACACT 60.609 50.000 5.73 0.00 0.00 3.55
2092 2326 1.724623 CCCATATACACGCGCATACAC 59.275 52.381 5.73 0.00 0.00 2.90
2093 2327 1.937562 GCCCATATACACGCGCATACA 60.938 52.381 5.73 0.00 0.00 2.29
2094 2328 0.719465 GCCCATATACACGCGCATAC 59.281 55.000 5.73 0.00 0.00 2.39
2095 2329 0.318762 TGCCCATATACACGCGCATA 59.681 50.000 5.73 1.53 0.00 3.14
2096 2330 1.070615 TGCCCATATACACGCGCAT 59.929 52.632 5.73 0.00 0.00 4.73
2097 2331 1.885388 GTGCCCATATACACGCGCA 60.885 57.895 5.73 0.00 0.00 6.09
2098 2332 1.157870 AAGTGCCCATATACACGCGC 61.158 55.000 5.73 0.00 41.72 6.86
2099 2333 0.581529 CAAGTGCCCATATACACGCG 59.418 55.000 3.53 3.53 41.72 6.01
2100 2334 1.330521 CACAAGTGCCCATATACACGC 59.669 52.381 0.00 0.00 41.72 5.34
2101 2335 2.607635 GACACAAGTGCCCATATACACG 59.392 50.000 0.00 0.00 41.72 4.49
2102 2336 3.623060 CAGACACAAGTGCCCATATACAC 59.377 47.826 0.00 0.00 37.05 2.90
2103 2337 3.263170 ACAGACACAAGTGCCCATATACA 59.737 43.478 0.00 0.00 0.00 2.29
2104 2338 3.873910 ACAGACACAAGTGCCCATATAC 58.126 45.455 0.00 0.00 0.00 1.47
2105 2339 4.714802 AGTACAGACACAAGTGCCCATATA 59.285 41.667 0.00 0.00 0.00 0.86
2106 2340 3.519510 AGTACAGACACAAGTGCCCATAT 59.480 43.478 0.00 0.00 0.00 1.78
2107 2341 2.903784 AGTACAGACACAAGTGCCCATA 59.096 45.455 0.00 0.00 0.00 2.74
2108 2342 1.699634 AGTACAGACACAAGTGCCCAT 59.300 47.619 0.00 0.00 0.00 4.00
2109 2343 1.128200 AGTACAGACACAAGTGCCCA 58.872 50.000 0.00 0.00 0.00 5.36
2110 2344 1.070134 TCAGTACAGACACAAGTGCCC 59.930 52.381 0.00 0.00 0.00 5.36
2111 2345 2.526304 TCAGTACAGACACAAGTGCC 57.474 50.000 0.00 0.00 0.00 5.01
2112 2346 2.158449 GCATCAGTACAGACACAAGTGC 59.842 50.000 0.00 0.00 0.00 4.40
2113 2347 3.657634 AGCATCAGTACAGACACAAGTG 58.342 45.455 0.00 0.00 0.00 3.16
2114 2348 4.342862 AAGCATCAGTACAGACACAAGT 57.657 40.909 0.00 0.00 0.00 3.16
2115 2349 6.785488 TTTAAGCATCAGTACAGACACAAG 57.215 37.500 0.00 0.00 0.00 3.16
2116 2350 7.561021 TTTTTAAGCATCAGTACAGACACAA 57.439 32.000 0.00 0.00 0.00 3.33
2139 2373 7.009174 GGCACATCGTTCGAATATTTCATTTTT 59.991 33.333 0.00 0.00 0.00 1.94
2140 2374 6.472163 GGCACATCGTTCGAATATTTCATTTT 59.528 34.615 0.00 0.00 0.00 1.82
2141 2375 5.971202 GGCACATCGTTCGAATATTTCATTT 59.029 36.000 0.00 0.00 0.00 2.32
2142 2376 5.505654 GGGCACATCGTTCGAATATTTCATT 60.506 40.000 0.00 0.00 0.00 2.57
2143 2377 4.024048 GGGCACATCGTTCGAATATTTCAT 60.024 41.667 0.00 0.00 0.00 2.57
2144 2378 3.311322 GGGCACATCGTTCGAATATTTCA 59.689 43.478 0.00 0.00 0.00 2.69
2145 2379 3.311322 TGGGCACATCGTTCGAATATTTC 59.689 43.478 0.00 0.00 0.00 2.17
2146 2380 3.064820 GTGGGCACATCGTTCGAATATTT 59.935 43.478 0.00 0.00 0.00 1.40
2147 2381 2.612212 GTGGGCACATCGTTCGAATATT 59.388 45.455 0.00 0.00 0.00 1.28
2148 2382 2.210116 GTGGGCACATCGTTCGAATAT 58.790 47.619 0.00 0.00 0.00 1.28
2149 2383 1.647346 GTGGGCACATCGTTCGAATA 58.353 50.000 0.00 0.00 0.00 1.75
2150 2384 1.358725 CGTGGGCACATCGTTCGAAT 61.359 55.000 0.00 0.00 0.00 3.34
2151 2385 2.024868 CGTGGGCACATCGTTCGAA 61.025 57.895 0.00 0.00 0.00 3.71
2152 2386 2.431771 CGTGGGCACATCGTTCGA 60.432 61.111 0.00 0.00 0.00 3.71
2153 2387 2.431771 TCGTGGGCACATCGTTCG 60.432 61.111 10.06 0.42 0.00 3.95
2154 2388 1.374252 ACTCGTGGGCACATCGTTC 60.374 57.895 10.06 0.00 0.00 3.95
2155 2389 1.667830 CACTCGTGGGCACATCGTT 60.668 57.895 10.06 0.00 0.00 3.85
2156 2390 2.048222 CACTCGTGGGCACATCGT 60.048 61.111 10.06 0.00 0.00 3.73
2157 2391 2.048222 ACACTCGTGGGCACATCG 60.048 61.111 0.00 0.00 34.19 3.84
2158 2392 1.005037 TCACACTCGTGGGCACATC 60.005 57.895 0.00 0.00 43.79 3.06
2201 2435 3.055458 TGTTAACCGGAGATCTGATTGCA 60.055 43.478 9.46 0.00 0.00 4.08
2202 2436 3.531538 TGTTAACCGGAGATCTGATTGC 58.468 45.455 9.46 0.00 0.00 3.56
2241 2475 8.470002 GGAGGTTTGAATAGTTTTGATTGCTAT 58.530 33.333 0.00 0.00 0.00 2.97
2317 2551 6.073711 GGTCTGACTAAGTTACTTGTTTCAGC 60.074 42.308 19.07 15.53 31.25 4.26
2413 2655 1.717791 CGCCCATCACATCGCACAAT 61.718 55.000 0.00 0.00 0.00 2.71
2414 2656 2.397754 CGCCCATCACATCGCACAA 61.398 57.895 0.00 0.00 0.00 3.33
2415 2657 2.819154 CGCCCATCACATCGCACA 60.819 61.111 0.00 0.00 0.00 4.57
2503 2745 0.326264 ATTGTGAGAGAGGTGCCACC 59.674 55.000 5.50 5.50 38.99 4.61
2538 2792 3.448660 GTGCATTTCTAAAAGGGCAGGAT 59.551 43.478 0.00 0.00 31.10 3.24
2552 2806 7.189693 TCGAATATGGTATCTTGTGCATTTC 57.810 36.000 0.00 0.00 0.00 2.17


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

AutoCloner maintained by Alex Coulton.