Multiple sequence alignment - TraesCS4A01G229100

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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 TraesCS4A01G229100 chr4A 100.000 2333 0 0 1 2333 537545010 537542678 0.000000e+00 4309.0
1 TraesCS4A01G229100 chr4A 98.515 202 3 0 2132 2333 438239436 438239637 7.930000e-95 357.0
2 TraesCS4A01G229100 chr4B 93.805 2147 80 22 1 2139 87682462 87684563 0.000000e+00 3179.0
3 TraesCS4A01G229100 chr4D 94.646 1513 57 11 1 1513 58269078 58270566 0.000000e+00 2324.0
4 TraesCS4A01G229100 chr4D 97.289 664 18 0 1476 2139 58270595 58271258 0.000000e+00 1127.0
5 TraesCS4A01G229100 chr4D 100.000 38 0 0 1476 1513 58270562 58270599 1.160000e-08 71.3
6 TraesCS4A01G229100 chr2A 98.522 203 3 0 2131 2333 130809102 130808900 2.200000e-95 359.0
7 TraesCS4A01G229100 chr7A 98.515 202 3 0 2132 2333 42965990 42966191 7.930000e-95 357.0
8 TraesCS4A01G229100 chr7A 98.049 205 3 1 2130 2333 196555178 196554974 2.850000e-94 355.0
9 TraesCS4A01G229100 chr7A 96.279 215 4 3 2119 2333 398458867 398459077 1.330000e-92 350.0
10 TraesCS4A01G229100 chr3A 96.744 215 5 2 2119 2333 370247618 370247830 7.930000e-95 357.0
11 TraesCS4A01G229100 chr2D 98.049 205 4 0 2129 2333 527391345 527391141 7.930000e-95 357.0
12 TraesCS4A01G229100 chr1A 97.170 212 5 1 2123 2333 341230718 341230929 7.930000e-95 357.0
13 TraesCS4A01G229100 chr1A 97.585 207 5 0 2127 2333 593290754 593290960 2.850000e-94 355.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4A01G229100 chr4A 537542678 537545010 2332 True 4309.0 4309 100.000000 1 2333 1 chr4A.!!$R1 2332
1 TraesCS4A01G229100 chr4B 87682462 87684563 2101 False 3179.0 3179 93.805000 1 2139 1 chr4B.!!$F1 2138
2 TraesCS4A01G229100 chr4D 58269078 58271258 2180 False 1174.1 2324 97.311667 1 2139 3 chr4D.!!$F1 2138

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
107 110 0.250901 GATGCAATGTATCCGCCCCT 60.251 55.0 0.0 0.0 0.00 4.79 F
428 431 0.605589 AATCCGATCCGAGAGCATCC 59.394 55.0 0.0 0.0 33.66 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1089 1094 0.393402 TTGCCCTCTGCTGCTGTATG 60.393 55.0 0.0 0.0 42.00 2.39 R
2224 2296 0.179037 TGCTATCCATGTGCCAGAGC 60.179 55.0 0.0 0.0 40.48 4.09 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
73 76 2.520260 CATAGCTTGCCTGCCCCC 60.520 66.667 0.00 0.00 0.00 5.40
107 110 0.250901 GATGCAATGTATCCGCCCCT 60.251 55.000 0.00 0.00 0.00 4.79
109 112 1.600916 GCAATGTATCCGCCCCTCC 60.601 63.158 0.00 0.00 0.00 4.30
226 229 2.034687 CCATCCCCATCCGCATCC 59.965 66.667 0.00 0.00 0.00 3.51
232 235 2.532532 CCCATCCGCATCCCCATCT 61.533 63.158 0.00 0.00 0.00 2.90
233 236 1.002868 CCATCCGCATCCCCATCTC 60.003 63.158 0.00 0.00 0.00 2.75
234 237 1.002868 CATCCGCATCCCCATCTCC 60.003 63.158 0.00 0.00 0.00 3.71
245 248 2.716244 CATCTCCGTCTCCGTCCG 59.284 66.667 0.00 0.00 0.00 4.79
253 256 1.970114 GTCTCCGTCCGTCCACAGA 60.970 63.158 0.00 0.00 0.00 3.41
358 361 1.307430 GGCCTCCTCCTTTCTCCCT 60.307 63.158 0.00 0.00 0.00 4.20
359 362 1.631071 GGCCTCCTCCTTTCTCCCTG 61.631 65.000 0.00 0.00 0.00 4.45
360 363 0.912006 GCCTCCTCCTTTCTCCCTGT 60.912 60.000 0.00 0.00 0.00 4.00
384 387 3.125658 CCACCGTAAACTAATCCCGTTTG 59.874 47.826 0.00 0.00 36.18 2.93
428 431 0.605589 AATCCGATCCGAGAGCATCC 59.394 55.000 0.00 0.00 33.66 3.51
504 508 3.449746 TGGTATCTTTCTTGGTTGGGG 57.550 47.619 0.00 0.00 0.00 4.96
565 569 1.206745 GATGCGTGGTACGGACATCG 61.207 60.000 0.00 4.68 46.47 3.84
741 746 6.472887 TGACCTTTCACCTAGTATTTCTTGG 58.527 40.000 0.00 0.00 43.06 3.61
742 747 6.271391 TGACCTTTCACCTAGTATTTCTTGGA 59.729 38.462 2.78 0.00 40.60 3.53
743 748 7.086685 ACCTTTCACCTAGTATTTCTTGGAA 57.913 36.000 2.78 0.00 40.60 3.53
744 749 7.523415 ACCTTTCACCTAGTATTTCTTGGAAA 58.477 34.615 2.78 0.00 40.60 3.13
758 763 6.811634 TTCTTGGAAATTTGGATGGCATAT 57.188 33.333 0.00 0.00 0.00 1.78
761 766 7.725251 TCTTGGAAATTTGGATGGCATATAAC 58.275 34.615 0.00 0.00 0.00 1.89
762 767 7.344093 TCTTGGAAATTTGGATGGCATATAACA 59.656 33.333 0.00 0.00 0.00 2.41
763 768 7.615039 TGGAAATTTGGATGGCATATAACAT 57.385 32.000 0.00 0.00 0.00 2.71
764 769 7.443477 TGGAAATTTGGATGGCATATAACATG 58.557 34.615 0.00 0.00 0.00 3.21
765 770 7.070946 TGGAAATTTGGATGGCATATAACATGT 59.929 33.333 0.00 0.00 0.00 3.21
766 771 7.933033 GGAAATTTGGATGGCATATAACATGTT 59.067 33.333 16.68 16.68 0.00 2.71
770 775 6.552859 TGGATGGCATATAACATGTTAACG 57.447 37.500 21.57 13.57 0.00 3.18
788 793 4.561735 AACGTACCTGAATGTTTGGTTG 57.438 40.909 0.00 0.00 35.48 3.77
793 798 5.064707 CGTACCTGAATGTTTGGTTGATAGG 59.935 44.000 0.00 0.00 35.48 2.57
1078 1083 5.338056 CCTGTGTTAGCCAGACCAAATACTA 60.338 44.000 0.00 0.00 31.38 1.82
1089 1094 5.122396 CAGACCAAATACTACAAAGAGGCAC 59.878 44.000 0.00 0.00 0.00 5.01
1092 1097 6.717289 ACCAAATACTACAAAGAGGCACATA 58.283 36.000 0.00 0.00 0.00 2.29
1147 1152 3.064207 GTTGTCATGCCGAACTACTTCA 58.936 45.455 0.00 0.00 0.00 3.02
1179 1184 2.203337 TTTGTGCTCGCCTGCCTT 60.203 55.556 0.00 0.00 0.00 4.35
1185 1190 3.072486 GCTCGCCTGCCTTACCGTA 62.072 63.158 0.00 0.00 0.00 4.02
1303 1308 1.069090 GCCTTCATGCCGACGGATA 59.931 57.895 20.50 5.82 34.93 2.59
1342 1347 6.879458 CACCTCTTACTTGTAAATAGGCTTGT 59.121 38.462 15.69 0.00 0.00 3.16
1349 1354 3.142951 TGTAAATAGGCTTGTTGCGTGT 58.857 40.909 0.00 0.00 44.05 4.49
1467 1477 3.181427 ACTTTACAGGGTATTGGTTGGCA 60.181 43.478 0.00 0.00 0.00 4.92
1468 1478 2.500392 TACAGGGTATTGGTTGGCAC 57.500 50.000 0.00 0.00 0.00 5.01
1682 1754 9.645128 ATTCATTGGTCAATGTATCCTAAATCA 57.355 29.630 19.31 0.00 46.15 2.57
1862 1934 5.009210 TGCAAGTGGTTTATTGTTAGTGACC 59.991 40.000 0.00 0.00 0.00 4.02
1883 1955 4.592778 ACCAAACATAATTGCAGGTTCCTT 59.407 37.500 0.00 0.00 0.00 3.36
1925 1997 4.219115 TCCCAAAGAATTGTGTTGCCTTA 58.781 39.130 0.00 0.00 34.60 2.69
2140 2212 9.668497 AGGGTTCACTATAAGAAATAGAACAAC 57.332 33.333 0.00 0.00 36.52 3.32
2141 2213 9.444600 GGGTTCACTATAAGAAATAGAACAACA 57.555 33.333 0.00 0.00 36.52 3.33
2152 2224 8.460831 AGAAATAGAACAACAACAACAACAAC 57.539 30.769 0.00 0.00 0.00 3.32
2153 2225 8.085296 AGAAATAGAACAACAACAACAACAACA 58.915 29.630 0.00 0.00 0.00 3.33
2154 2226 8.594881 AAATAGAACAACAACAACAACAACAA 57.405 26.923 0.00 0.00 0.00 2.83
2155 2227 5.898630 AGAACAACAACAACAACAACAAC 57.101 34.783 0.00 0.00 0.00 3.32
2156 2228 4.442733 AGAACAACAACAACAACAACAACG 59.557 37.500 0.00 0.00 0.00 4.10
2157 2229 2.473235 ACAACAACAACAACAACAACGC 59.527 40.909 0.00 0.00 0.00 4.84
2158 2230 1.704070 ACAACAACAACAACAACGCC 58.296 45.000 0.00 0.00 0.00 5.68
2159 2231 1.271102 ACAACAACAACAACAACGCCT 59.729 42.857 0.00 0.00 0.00 5.52
2160 2232 2.288518 ACAACAACAACAACAACGCCTT 60.289 40.909 0.00 0.00 0.00 4.35
2161 2233 2.734079 CAACAACAACAACAACGCCTTT 59.266 40.909 0.00 0.00 0.00 3.11
2162 2234 3.851976 ACAACAACAACAACGCCTTTA 57.148 38.095 0.00 0.00 0.00 1.85
2163 2235 3.765026 ACAACAACAACAACGCCTTTAG 58.235 40.909 0.00 0.00 0.00 1.85
2164 2236 3.191791 ACAACAACAACAACGCCTTTAGT 59.808 39.130 0.00 0.00 0.00 2.24
2165 2237 3.685836 ACAACAACAACGCCTTTAGTC 57.314 42.857 0.00 0.00 0.00 2.59
2166 2238 2.356695 ACAACAACAACGCCTTTAGTCC 59.643 45.455 0.00 0.00 0.00 3.85
2167 2239 1.601166 ACAACAACGCCTTTAGTCCC 58.399 50.000 0.00 0.00 0.00 4.46
2168 2240 1.134037 ACAACAACGCCTTTAGTCCCA 60.134 47.619 0.00 0.00 0.00 4.37
2169 2241 1.950909 CAACAACGCCTTTAGTCCCAA 59.049 47.619 0.00 0.00 0.00 4.12
2170 2242 2.351706 ACAACGCCTTTAGTCCCAAA 57.648 45.000 0.00 0.00 0.00 3.28
2171 2243 1.951602 ACAACGCCTTTAGTCCCAAAC 59.048 47.619 0.00 0.00 0.00 2.93
2172 2244 1.950909 CAACGCCTTTAGTCCCAAACA 59.049 47.619 0.00 0.00 0.00 2.83
2173 2245 2.351706 ACGCCTTTAGTCCCAAACAA 57.648 45.000 0.00 0.00 0.00 2.83
2174 2246 2.227194 ACGCCTTTAGTCCCAAACAAG 58.773 47.619 0.00 0.00 0.00 3.16
2175 2247 2.227194 CGCCTTTAGTCCCAAACAAGT 58.773 47.619 0.00 0.00 0.00 3.16
2176 2248 2.621526 CGCCTTTAGTCCCAAACAAGTT 59.378 45.455 0.00 0.00 0.00 2.66
2177 2249 3.550030 CGCCTTTAGTCCCAAACAAGTTG 60.550 47.826 0.00 0.00 36.94 3.16
2186 2258 1.995376 CAAACAAGTTGGGGTAGGCT 58.005 50.000 7.96 0.00 33.18 4.58
2187 2259 3.149005 CAAACAAGTTGGGGTAGGCTA 57.851 47.619 7.96 0.00 33.18 3.93
2188 2260 3.081804 CAAACAAGTTGGGGTAGGCTAG 58.918 50.000 7.96 0.00 33.18 3.42
2189 2261 2.337359 ACAAGTTGGGGTAGGCTAGA 57.663 50.000 7.96 0.00 0.00 2.43
2190 2262 2.188817 ACAAGTTGGGGTAGGCTAGAG 58.811 52.381 7.96 0.00 0.00 2.43
2191 2263 1.486726 CAAGTTGGGGTAGGCTAGAGG 59.513 57.143 0.00 0.00 0.00 3.69
2192 2264 0.717196 AGTTGGGGTAGGCTAGAGGT 59.283 55.000 0.00 0.00 0.00 3.85
2193 2265 0.831307 GTTGGGGTAGGCTAGAGGTG 59.169 60.000 0.00 0.00 0.00 4.00
2194 2266 0.714180 TTGGGGTAGGCTAGAGGTGA 59.286 55.000 0.00 0.00 0.00 4.02
2195 2267 0.714180 TGGGGTAGGCTAGAGGTGAA 59.286 55.000 0.00 0.00 0.00 3.18
2196 2268 1.079825 TGGGGTAGGCTAGAGGTGAAA 59.920 52.381 0.00 0.00 0.00 2.69
2197 2269 1.485480 GGGGTAGGCTAGAGGTGAAAC 59.515 57.143 0.00 0.00 0.00 2.78
2212 2284 3.531538 GTGAAACCCATAAGATCTCGCA 58.468 45.455 0.00 0.00 0.00 5.10
2213 2285 3.938963 GTGAAACCCATAAGATCTCGCAA 59.061 43.478 0.00 0.00 0.00 4.85
2214 2286 3.938963 TGAAACCCATAAGATCTCGCAAC 59.061 43.478 0.00 0.00 0.00 4.17
2215 2287 2.622064 ACCCATAAGATCTCGCAACC 57.378 50.000 0.00 0.00 0.00 3.77
2216 2288 1.837439 ACCCATAAGATCTCGCAACCA 59.163 47.619 0.00 0.00 0.00 3.67
2217 2289 2.238646 ACCCATAAGATCTCGCAACCAA 59.761 45.455 0.00 0.00 0.00 3.67
2218 2290 2.614057 CCCATAAGATCTCGCAACCAAC 59.386 50.000 0.00 0.00 0.00 3.77
2219 2291 3.535561 CCATAAGATCTCGCAACCAACT 58.464 45.455 0.00 0.00 0.00 3.16
2220 2292 3.557595 CCATAAGATCTCGCAACCAACTC 59.442 47.826 0.00 0.00 0.00 3.01
2221 2293 2.839486 AAGATCTCGCAACCAACTCA 57.161 45.000 0.00 0.00 0.00 3.41
2222 2294 3.340814 AAGATCTCGCAACCAACTCAT 57.659 42.857 0.00 0.00 0.00 2.90
2223 2295 2.625737 AGATCTCGCAACCAACTCATG 58.374 47.619 0.00 0.00 0.00 3.07
2231 2303 3.915575 CCAACTCATGGCTCTGGC 58.084 61.111 0.00 0.00 43.80 4.85
2232 2304 1.001764 CCAACTCATGGCTCTGGCA 60.002 57.895 0.00 0.00 43.80 4.92
2233 2305 1.310933 CCAACTCATGGCTCTGGCAC 61.311 60.000 0.00 0.00 43.80 5.01
2234 2306 0.607217 CAACTCATGGCTCTGGCACA 60.607 55.000 0.00 0.00 41.84 4.57
2235 2307 0.330604 AACTCATGGCTCTGGCACAT 59.669 50.000 0.00 0.00 41.84 3.21
2236 2308 0.393944 ACTCATGGCTCTGGCACATG 60.394 55.000 8.97 8.97 41.84 3.21
2237 2309 1.077285 TCATGGCTCTGGCACATGG 60.077 57.895 13.76 0.00 41.84 3.66
2238 2310 1.077285 CATGGCTCTGGCACATGGA 60.077 57.895 7.68 0.00 41.84 3.41
2239 2311 0.467474 CATGGCTCTGGCACATGGAT 60.467 55.000 7.68 0.00 41.84 3.41
2240 2312 1.142936 ATGGCTCTGGCACATGGATA 58.857 50.000 0.00 0.00 41.84 2.59
2241 2313 0.471191 TGGCTCTGGCACATGGATAG 59.529 55.000 0.00 0.00 38.20 2.08
2242 2314 0.888285 GGCTCTGGCACATGGATAGC 60.888 60.000 0.00 0.00 38.20 2.97
2243 2315 0.179037 GCTCTGGCACATGGATAGCA 60.179 55.000 0.00 0.00 38.20 3.49
2244 2316 1.748244 GCTCTGGCACATGGATAGCAA 60.748 52.381 0.00 0.00 38.20 3.91
2245 2317 2.219458 CTCTGGCACATGGATAGCAAG 58.781 52.381 0.00 0.00 38.20 4.01
2246 2318 0.666913 CTGGCACATGGATAGCAAGC 59.333 55.000 0.00 0.00 38.20 4.01
2247 2319 0.256752 TGGCACATGGATAGCAAGCT 59.743 50.000 0.00 0.00 0.00 3.74
2248 2320 1.341285 TGGCACATGGATAGCAAGCTT 60.341 47.619 0.00 0.00 0.00 3.74
2249 2321 1.336125 GGCACATGGATAGCAAGCTTC 59.664 52.381 0.00 0.00 0.00 3.86
2250 2322 1.336125 GCACATGGATAGCAAGCTTCC 59.664 52.381 0.00 7.95 0.00 3.46
2251 2323 2.646930 CACATGGATAGCAAGCTTCCA 58.353 47.619 20.33 20.33 43.37 3.53
2252 2324 2.357009 CACATGGATAGCAAGCTTCCAC 59.643 50.000 20.41 0.00 42.09 4.02
2253 2325 1.600957 CATGGATAGCAAGCTTCCACG 59.399 52.381 20.41 13.24 42.09 4.94
2254 2326 0.744414 TGGATAGCAAGCTTCCACGC 60.744 55.000 16.61 0.00 34.65 5.34
2255 2327 0.744414 GGATAGCAAGCTTCCACGCA 60.744 55.000 8.96 0.00 0.00 5.24
2256 2328 0.375106 GATAGCAAGCTTCCACGCAC 59.625 55.000 8.96 0.00 0.00 5.34
2257 2329 1.026718 ATAGCAAGCTTCCACGCACC 61.027 55.000 8.96 0.00 0.00 5.01
2258 2330 4.043200 GCAAGCTTCCACGCACCC 62.043 66.667 0.00 0.00 0.00 4.61
2259 2331 3.365265 CAAGCTTCCACGCACCCC 61.365 66.667 0.00 0.00 0.00 4.95
2260 2332 3.570212 AAGCTTCCACGCACCCCT 61.570 61.111 0.00 0.00 0.00 4.79
2261 2333 3.850098 AAGCTTCCACGCACCCCTG 62.850 63.158 0.00 0.00 0.00 4.45
2262 2334 4.643387 GCTTCCACGCACCCCTGT 62.643 66.667 0.00 0.00 0.00 4.00
2263 2335 2.358737 CTTCCACGCACCCCTGTC 60.359 66.667 0.00 0.00 0.00 3.51
2264 2336 3.901797 CTTCCACGCACCCCTGTCC 62.902 68.421 0.00 0.00 0.00 4.02
2266 2338 4.033776 CCACGCACCCCTGTCCAT 62.034 66.667 0.00 0.00 0.00 3.41
2267 2339 2.665089 CCACGCACCCCTGTCCATA 61.665 63.158 0.00 0.00 0.00 2.74
2268 2340 1.153369 CACGCACCCCTGTCCATAG 60.153 63.158 0.00 0.00 0.00 2.23
2269 2341 2.203070 CGCACCCCTGTCCATAGC 60.203 66.667 0.00 0.00 0.00 2.97
2270 2342 2.735772 CGCACCCCTGTCCATAGCT 61.736 63.158 0.00 0.00 0.00 3.32
2271 2343 1.399744 CGCACCCCTGTCCATAGCTA 61.400 60.000 0.00 0.00 0.00 3.32
2272 2344 0.394565 GCACCCCTGTCCATAGCTAG 59.605 60.000 0.00 0.00 0.00 3.42
2273 2345 0.394565 CACCCCTGTCCATAGCTAGC 59.605 60.000 6.62 6.62 0.00 3.42
2274 2346 0.266152 ACCCCTGTCCATAGCTAGCT 59.734 55.000 23.12 23.12 0.00 3.32
2275 2347 0.972883 CCCCTGTCCATAGCTAGCTC 59.027 60.000 23.26 7.00 0.00 4.09
2276 2348 1.482177 CCCCTGTCCATAGCTAGCTCT 60.482 57.143 23.26 9.05 0.00 4.09
2277 2349 2.324541 CCCTGTCCATAGCTAGCTCTT 58.675 52.381 23.26 7.47 0.00 2.85
2278 2350 2.703007 CCCTGTCCATAGCTAGCTCTTT 59.297 50.000 23.26 4.57 0.00 2.52
2279 2351 3.494048 CCCTGTCCATAGCTAGCTCTTTG 60.494 52.174 23.26 16.78 0.00 2.77
2280 2352 3.494048 CCTGTCCATAGCTAGCTCTTTGG 60.494 52.174 23.26 24.37 36.78 3.28
2281 2353 3.107601 TGTCCATAGCTAGCTCTTTGGT 58.892 45.455 27.50 8.05 36.79 3.67
2282 2354 3.118629 TGTCCATAGCTAGCTCTTTGGTG 60.119 47.826 27.50 16.61 36.79 4.17
2283 2355 3.133003 GTCCATAGCTAGCTCTTTGGTGA 59.867 47.826 27.50 15.24 36.79 4.02
2284 2356 3.969976 TCCATAGCTAGCTCTTTGGTGAT 59.030 43.478 27.50 12.14 36.79 3.06
2285 2357 5.011125 GTCCATAGCTAGCTCTTTGGTGATA 59.989 44.000 27.50 14.48 36.79 2.15
2286 2358 5.011125 TCCATAGCTAGCTCTTTGGTGATAC 59.989 44.000 27.50 0.00 36.79 2.24
2287 2359 5.011533 CCATAGCTAGCTCTTTGGTGATACT 59.988 44.000 23.26 0.00 32.65 2.12
2288 2360 4.664150 AGCTAGCTCTTTGGTGATACTC 57.336 45.455 12.68 0.00 0.00 2.59
2289 2361 3.386402 AGCTAGCTCTTTGGTGATACTCC 59.614 47.826 12.68 0.00 0.00 3.85
2290 2362 3.133003 GCTAGCTCTTTGGTGATACTCCA 59.867 47.826 7.70 0.00 0.00 3.86
2291 2363 4.383118 GCTAGCTCTTTGGTGATACTCCAA 60.383 45.833 7.70 0.00 42.29 3.53
2292 2364 4.851639 AGCTCTTTGGTGATACTCCAAT 57.148 40.909 6.20 0.00 43.25 3.16
2293 2365 4.775236 AGCTCTTTGGTGATACTCCAATC 58.225 43.478 6.20 0.00 43.25 2.67
2294 2366 3.879892 GCTCTTTGGTGATACTCCAATCC 59.120 47.826 6.20 0.00 43.25 3.01
2295 2367 4.384647 GCTCTTTGGTGATACTCCAATCCT 60.385 45.833 6.20 0.00 43.25 3.24
2296 2368 5.749462 CTCTTTGGTGATACTCCAATCCTT 58.251 41.667 6.20 0.00 43.25 3.36
2297 2369 5.745227 TCTTTGGTGATACTCCAATCCTTC 58.255 41.667 6.20 0.00 43.25 3.46
2298 2370 5.250543 TCTTTGGTGATACTCCAATCCTTCA 59.749 40.000 6.20 0.00 43.25 3.02
2299 2371 4.760530 TGGTGATACTCCAATCCTTCAG 57.239 45.455 0.00 0.00 31.50 3.02
2300 2372 3.455910 TGGTGATACTCCAATCCTTCAGG 59.544 47.826 0.00 0.00 31.50 3.86
2301 2373 3.456277 GGTGATACTCCAATCCTTCAGGT 59.544 47.826 0.00 0.00 36.34 4.00
2302 2374 4.443598 GGTGATACTCCAATCCTTCAGGTC 60.444 50.000 0.00 0.00 36.34 3.85
2303 2375 4.407296 GTGATACTCCAATCCTTCAGGTCT 59.593 45.833 0.00 0.00 36.34 3.85
2304 2376 4.651503 TGATACTCCAATCCTTCAGGTCTC 59.348 45.833 0.00 0.00 36.34 3.36
2305 2377 3.197927 ACTCCAATCCTTCAGGTCTCT 57.802 47.619 0.00 0.00 36.34 3.10
2306 2378 3.103742 ACTCCAATCCTTCAGGTCTCTC 58.896 50.000 0.00 0.00 36.34 3.20
2307 2379 3.245948 ACTCCAATCCTTCAGGTCTCTCT 60.246 47.826 0.00 0.00 36.34 3.10
2308 2380 3.774216 CTCCAATCCTTCAGGTCTCTCTT 59.226 47.826 0.00 0.00 36.34 2.85
2309 2381 4.947883 TCCAATCCTTCAGGTCTCTCTTA 58.052 43.478 0.00 0.00 36.34 2.10
2310 2382 5.342017 TCCAATCCTTCAGGTCTCTCTTAA 58.658 41.667 0.00 0.00 36.34 1.85
2311 2383 5.187967 TCCAATCCTTCAGGTCTCTCTTAAC 59.812 44.000 0.00 0.00 36.34 2.01
2312 2384 4.993029 ATCCTTCAGGTCTCTCTTAACG 57.007 45.455 0.00 0.00 36.34 3.18
2313 2385 3.090037 TCCTTCAGGTCTCTCTTAACGG 58.910 50.000 0.00 0.00 36.34 4.44
2314 2386 3.090037 CCTTCAGGTCTCTCTTAACGGA 58.910 50.000 0.00 0.00 0.00 4.69
2315 2387 3.119424 CCTTCAGGTCTCTCTTAACGGAC 60.119 52.174 0.00 0.00 0.00 4.79
2316 2388 3.436577 TCAGGTCTCTCTTAACGGACT 57.563 47.619 0.00 0.00 0.00 3.85
2317 2389 3.345414 TCAGGTCTCTCTTAACGGACTC 58.655 50.000 0.00 0.00 0.00 3.36
2318 2390 2.424246 CAGGTCTCTCTTAACGGACTCC 59.576 54.545 0.00 0.00 0.00 3.85
2319 2391 2.309458 AGGTCTCTCTTAACGGACTCCT 59.691 50.000 0.00 0.00 0.00 3.69
2320 2392 2.684374 GGTCTCTCTTAACGGACTCCTC 59.316 54.545 0.00 0.00 0.00 3.71
2321 2393 3.345414 GTCTCTCTTAACGGACTCCTCA 58.655 50.000 0.00 0.00 0.00 3.86
2322 2394 3.127376 GTCTCTCTTAACGGACTCCTCAC 59.873 52.174 0.00 0.00 0.00 3.51
2323 2395 3.082548 CTCTCTTAACGGACTCCTCACA 58.917 50.000 0.00 0.00 0.00 3.58
2324 2396 3.697045 CTCTCTTAACGGACTCCTCACAT 59.303 47.826 0.00 0.00 0.00 3.21
2325 2397 3.444034 TCTCTTAACGGACTCCTCACATG 59.556 47.826 0.00 0.00 0.00 3.21
2326 2398 3.162666 TCTTAACGGACTCCTCACATGT 58.837 45.455 0.00 0.00 0.00 3.21
2327 2399 3.192844 TCTTAACGGACTCCTCACATGTC 59.807 47.826 0.00 0.00 0.00 3.06
2328 2400 1.338107 AACGGACTCCTCACATGTCA 58.662 50.000 0.00 0.00 32.84 3.58
2329 2401 1.338107 ACGGACTCCTCACATGTCAA 58.662 50.000 0.00 0.00 32.84 3.18
2330 2402 1.691976 ACGGACTCCTCACATGTCAAA 59.308 47.619 0.00 0.00 32.84 2.69
2331 2403 2.303022 ACGGACTCCTCACATGTCAAAT 59.697 45.455 0.00 0.00 32.84 2.32
2332 2404 3.244561 ACGGACTCCTCACATGTCAAATT 60.245 43.478 0.00 0.00 32.84 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
107 110 3.984186 CTTGGAGGGGAGGCGAGGA 62.984 68.421 0.00 0.00 0.00 3.71
109 112 4.168291 GCTTGGAGGGGAGGCGAG 62.168 72.222 0.00 0.00 0.00 5.03
221 224 1.369321 GAGACGGAGATGGGGATGC 59.631 63.158 0.00 0.00 0.00 3.91
245 248 2.375766 CGACGCTGCTTCTGTGGAC 61.376 63.158 4.58 0.00 0.00 4.02
342 345 0.908198 CACAGGGAGAAAGGAGGAGG 59.092 60.000 0.00 0.00 0.00 4.30
358 361 2.616001 GGGATTAGTTTACGGTGGCACA 60.616 50.000 20.82 0.00 0.00 4.57
359 362 2.011947 GGGATTAGTTTACGGTGGCAC 58.988 52.381 9.70 9.70 0.00 5.01
360 363 1.405797 CGGGATTAGTTTACGGTGGCA 60.406 52.381 0.00 0.00 0.00 4.92
414 417 1.601663 CGAACAGGATGCTCTCGGATC 60.602 57.143 7.21 0.00 42.53 3.36
428 431 2.671396 CCAATACTTCCGTTCCGAACAG 59.329 50.000 11.74 4.12 0.00 3.16
449 453 1.206831 GACGGCAGCGGAAAGAAAC 59.793 57.895 7.02 0.00 0.00 2.78
504 508 1.545651 CCTCTCCTCCAAACCAACACC 60.546 57.143 0.00 0.00 0.00 4.16
565 569 3.110447 TCCTGAAACTTGCATTTTGGC 57.890 42.857 0.00 0.00 0.00 4.52
741 746 8.891671 AACATGTTATATGCCATCCAAATTTC 57.108 30.769 9.97 0.00 0.00 2.17
743 748 9.762933 GTTAACATGTTATATGCCATCCAAATT 57.237 29.630 18.69 0.00 0.00 1.82
744 749 8.081633 CGTTAACATGTTATATGCCATCCAAAT 58.918 33.333 18.69 0.00 0.00 2.32
758 763 7.966246 AACATTCAGGTACGTTAACATGTTA 57.034 32.000 14.35 14.35 33.02 2.41
761 766 6.083630 CCAAACATTCAGGTACGTTAACATG 58.916 40.000 6.39 0.00 32.56 3.21
762 767 5.766174 ACCAAACATTCAGGTACGTTAACAT 59.234 36.000 6.39 0.00 32.92 2.71
763 768 5.124645 ACCAAACATTCAGGTACGTTAACA 58.875 37.500 6.39 0.00 32.92 2.41
764 769 5.678132 ACCAAACATTCAGGTACGTTAAC 57.322 39.130 0.00 0.00 32.92 2.01
765 770 5.821470 TCAACCAAACATTCAGGTACGTTAA 59.179 36.000 0.00 0.00 34.63 2.01
766 771 5.366460 TCAACCAAACATTCAGGTACGTTA 58.634 37.500 0.00 0.00 34.63 3.18
770 775 5.944007 ACCTATCAACCAAACATTCAGGTAC 59.056 40.000 0.00 0.00 34.63 3.34
925 930 4.594920 AGAACTCTTGTGGATTCTGAAGGA 59.405 41.667 0.00 0.00 30.26 3.36
1078 1083 2.430465 CTGCTGTATGTGCCTCTTTGT 58.570 47.619 0.00 0.00 0.00 2.83
1089 1094 0.393402 TTGCCCTCTGCTGCTGTATG 60.393 55.000 0.00 0.00 42.00 2.39
1092 1097 1.076192 ATTTGCCCTCTGCTGCTGT 59.924 52.632 0.00 0.00 42.00 4.40
1147 1152 1.195448 CACAAAGAACGCTTCGATGCT 59.805 47.619 19.63 3.36 31.82 3.79
1179 1184 4.556233 GCAGTATGAGCAATGATACGGTA 58.444 43.478 0.00 0.00 39.69 4.02
1185 1190 3.572682 CCAATGGCAGTATGAGCAATGAT 59.427 43.478 0.00 0.00 39.69 2.45
1467 1477 3.565063 GCAATGCACCAAAATTTCCAAGT 59.435 39.130 0.00 0.00 0.00 3.16
1468 1478 3.816523 AGCAATGCACCAAAATTTCCAAG 59.183 39.130 8.35 0.00 0.00 3.61
1682 1754 9.139734 AGTGAAGCCAAATCATGATACAAATAT 57.860 29.630 9.04 0.00 0.00 1.28
1862 1934 6.924111 ACTAAGGAACCTGCAATTATGTTTG 58.076 36.000 0.00 0.00 0.00 2.93
2139 2211 1.271102 AGGCGTTGTTGTTGTTGTTGT 59.729 42.857 0.00 0.00 0.00 3.32
2140 2212 1.989430 AGGCGTTGTTGTTGTTGTTG 58.011 45.000 0.00 0.00 0.00 3.33
2141 2213 2.734276 AAGGCGTTGTTGTTGTTGTT 57.266 40.000 0.00 0.00 0.00 2.83
2142 2214 2.734276 AAAGGCGTTGTTGTTGTTGT 57.266 40.000 0.00 0.00 0.00 3.32
2143 2215 3.765026 ACTAAAGGCGTTGTTGTTGTTG 58.235 40.909 0.00 0.00 0.00 3.33
2144 2216 3.181494 GGACTAAAGGCGTTGTTGTTGTT 60.181 43.478 0.00 0.00 0.00 2.83
2145 2217 2.356695 GGACTAAAGGCGTTGTTGTTGT 59.643 45.455 0.00 0.00 0.00 3.32
2146 2218 2.287368 GGGACTAAAGGCGTTGTTGTTG 60.287 50.000 0.00 0.00 0.00 3.33
2147 2219 1.951602 GGGACTAAAGGCGTTGTTGTT 59.048 47.619 0.00 0.00 0.00 2.83
2148 2220 1.134037 TGGGACTAAAGGCGTTGTTGT 60.134 47.619 0.00 0.00 0.00 3.32
2149 2221 1.600023 TGGGACTAAAGGCGTTGTTG 58.400 50.000 0.00 0.00 0.00 3.33
2150 2222 2.351706 TTGGGACTAAAGGCGTTGTT 57.648 45.000 0.00 0.00 0.00 2.83
2151 2223 1.951602 GTTTGGGACTAAAGGCGTTGT 59.048 47.619 0.00 0.00 0.00 3.32
2152 2224 1.950909 TGTTTGGGACTAAAGGCGTTG 59.049 47.619 0.00 0.00 0.00 4.10
2153 2225 2.351706 TGTTTGGGACTAAAGGCGTT 57.648 45.000 0.00 0.00 0.00 4.84
2154 2226 2.227194 CTTGTTTGGGACTAAAGGCGT 58.773 47.619 0.00 0.00 0.00 5.68
2155 2227 2.227194 ACTTGTTTGGGACTAAAGGCG 58.773 47.619 0.00 0.00 0.00 5.52
2156 2228 3.977427 CAACTTGTTTGGGACTAAAGGC 58.023 45.455 0.00 0.00 0.00 4.35
2167 2239 1.995376 AGCCTACCCCAACTTGTTTG 58.005 50.000 0.00 0.00 34.63 2.93
2168 2240 2.983898 TCTAGCCTACCCCAACTTGTTT 59.016 45.455 0.00 0.00 0.00 2.83
2169 2241 2.572104 CTCTAGCCTACCCCAACTTGTT 59.428 50.000 0.00 0.00 0.00 2.83
2170 2242 2.188817 CTCTAGCCTACCCCAACTTGT 58.811 52.381 0.00 0.00 0.00 3.16
2171 2243 1.486726 CCTCTAGCCTACCCCAACTTG 59.513 57.143 0.00 0.00 0.00 3.16
2172 2244 1.080666 ACCTCTAGCCTACCCCAACTT 59.919 52.381 0.00 0.00 0.00 2.66
2173 2245 0.717196 ACCTCTAGCCTACCCCAACT 59.283 55.000 0.00 0.00 0.00 3.16
2174 2246 0.831307 CACCTCTAGCCTACCCCAAC 59.169 60.000 0.00 0.00 0.00 3.77
2175 2247 0.714180 TCACCTCTAGCCTACCCCAA 59.286 55.000 0.00 0.00 0.00 4.12
2176 2248 0.714180 TTCACCTCTAGCCTACCCCA 59.286 55.000 0.00 0.00 0.00 4.96
2177 2249 1.485480 GTTTCACCTCTAGCCTACCCC 59.515 57.143 0.00 0.00 0.00 4.95
2178 2250 1.485480 GGTTTCACCTCTAGCCTACCC 59.515 57.143 0.00 0.00 34.73 3.69
2179 2251 1.485480 GGGTTTCACCTCTAGCCTACC 59.515 57.143 0.00 0.00 38.64 3.18
2180 2252 2.185387 TGGGTTTCACCTCTAGCCTAC 58.815 52.381 0.00 0.00 38.64 3.18
2181 2253 2.634639 TGGGTTTCACCTCTAGCCTA 57.365 50.000 0.00 0.00 38.64 3.93
2182 2254 1.972588 ATGGGTTTCACCTCTAGCCT 58.027 50.000 0.00 0.00 38.64 4.58
2183 2255 3.454812 TCTTATGGGTTTCACCTCTAGCC 59.545 47.826 0.00 0.00 38.64 3.93
2184 2256 4.755266 TCTTATGGGTTTCACCTCTAGC 57.245 45.455 0.00 0.00 38.64 3.42
2185 2257 6.515862 CGAGATCTTATGGGTTTCACCTCTAG 60.516 46.154 0.00 0.00 38.64 2.43
2186 2258 5.302059 CGAGATCTTATGGGTTTCACCTCTA 59.698 44.000 0.00 0.00 38.64 2.43
2187 2259 4.100189 CGAGATCTTATGGGTTTCACCTCT 59.900 45.833 0.00 0.00 38.64 3.69
2188 2260 4.372656 CGAGATCTTATGGGTTTCACCTC 58.627 47.826 0.00 0.00 38.64 3.85
2189 2261 3.432326 GCGAGATCTTATGGGTTTCACCT 60.432 47.826 0.00 0.00 38.64 4.00
2190 2262 2.872858 GCGAGATCTTATGGGTTTCACC 59.127 50.000 0.00 0.00 37.60 4.02
2191 2263 3.531538 TGCGAGATCTTATGGGTTTCAC 58.468 45.455 0.00 0.00 0.00 3.18
2192 2264 3.904800 TGCGAGATCTTATGGGTTTCA 57.095 42.857 0.00 0.00 0.00 2.69
2193 2265 3.312697 GGTTGCGAGATCTTATGGGTTTC 59.687 47.826 0.00 0.00 0.00 2.78
2194 2266 3.279434 GGTTGCGAGATCTTATGGGTTT 58.721 45.455 0.00 0.00 0.00 3.27
2195 2267 2.238646 TGGTTGCGAGATCTTATGGGTT 59.761 45.455 0.00 0.00 0.00 4.11
2196 2268 1.837439 TGGTTGCGAGATCTTATGGGT 59.163 47.619 0.00 0.00 0.00 4.51
2197 2269 2.614057 GTTGGTTGCGAGATCTTATGGG 59.386 50.000 0.00 0.00 0.00 4.00
2198 2270 3.535561 AGTTGGTTGCGAGATCTTATGG 58.464 45.455 0.00 0.00 0.00 2.74
2199 2271 4.183865 TGAGTTGGTTGCGAGATCTTATG 58.816 43.478 0.00 0.00 0.00 1.90
2200 2272 4.471904 TGAGTTGGTTGCGAGATCTTAT 57.528 40.909 0.00 0.00 0.00 1.73
2201 2273 3.953712 TGAGTTGGTTGCGAGATCTTA 57.046 42.857 0.00 0.00 0.00 2.10
2202 2274 2.839486 TGAGTTGGTTGCGAGATCTT 57.161 45.000 0.00 0.00 0.00 2.40
2203 2275 2.625737 CATGAGTTGGTTGCGAGATCT 58.374 47.619 0.00 0.00 0.00 2.75
2204 2276 1.667724 CCATGAGTTGGTTGCGAGATC 59.332 52.381 0.00 0.00 40.99 2.75
2205 2277 1.742761 CCATGAGTTGGTTGCGAGAT 58.257 50.000 0.00 0.00 40.99 2.75
2206 2278 3.231734 CCATGAGTTGGTTGCGAGA 57.768 52.632 0.00 0.00 40.99 4.04
2215 2287 0.607217 TGTGCCAGAGCCATGAGTTG 60.607 55.000 0.00 0.00 38.69 3.16
2216 2288 0.330604 ATGTGCCAGAGCCATGAGTT 59.669 50.000 0.00 0.00 38.69 3.01
2217 2289 0.393944 CATGTGCCAGAGCCATGAGT 60.394 55.000 0.00 0.00 44.14 3.41
2218 2290 1.101635 CCATGTGCCAGAGCCATGAG 61.102 60.000 14.22 5.17 44.14 2.90
2219 2291 1.077285 CCATGTGCCAGAGCCATGA 60.077 57.895 14.22 0.00 44.14 3.07
2220 2292 0.467474 ATCCATGTGCCAGAGCCATG 60.467 55.000 8.59 8.59 42.54 3.66
2221 2293 1.073444 CTATCCATGTGCCAGAGCCAT 59.927 52.381 0.00 0.00 38.69 4.40
2222 2294 0.471191 CTATCCATGTGCCAGAGCCA 59.529 55.000 0.00 0.00 38.69 4.75
2223 2295 0.888285 GCTATCCATGTGCCAGAGCC 60.888 60.000 0.00 0.00 38.69 4.70
2224 2296 0.179037 TGCTATCCATGTGCCAGAGC 60.179 55.000 0.00 0.00 40.48 4.09
2225 2297 2.219458 CTTGCTATCCATGTGCCAGAG 58.781 52.381 0.00 0.00 0.00 3.35
2226 2298 1.748244 GCTTGCTATCCATGTGCCAGA 60.748 52.381 0.00 0.00 0.00 3.86
2227 2299 0.666913 GCTTGCTATCCATGTGCCAG 59.333 55.000 0.00 0.00 0.00 4.85
2228 2300 0.256752 AGCTTGCTATCCATGTGCCA 59.743 50.000 0.00 0.00 0.00 4.92
2229 2301 1.336125 GAAGCTTGCTATCCATGTGCC 59.664 52.381 2.10 0.00 0.00 5.01
2230 2302 1.336125 GGAAGCTTGCTATCCATGTGC 59.664 52.381 11.19 0.00 33.30 4.57
2231 2303 2.357009 GTGGAAGCTTGCTATCCATGTG 59.643 50.000 19.34 0.00 44.55 3.21
2232 2304 2.648059 GTGGAAGCTTGCTATCCATGT 58.352 47.619 19.34 0.00 44.55 3.21
2233 2305 1.600957 CGTGGAAGCTTGCTATCCATG 59.399 52.381 19.34 20.51 44.55 3.66
2234 2306 1.959042 CGTGGAAGCTTGCTATCCAT 58.041 50.000 19.34 0.00 44.55 3.41
2235 2307 0.744414 GCGTGGAAGCTTGCTATCCA 60.744 55.000 19.34 9.80 40.84 3.41
2236 2308 0.744414 TGCGTGGAAGCTTGCTATCC 60.744 55.000 19.34 6.99 38.13 2.59
2237 2309 0.375106 GTGCGTGGAAGCTTGCTATC 59.625 55.000 19.34 8.59 38.13 2.08
2238 2310 1.026718 GGTGCGTGGAAGCTTGCTAT 61.027 55.000 19.34 0.00 38.13 2.97
2239 2311 1.671054 GGTGCGTGGAAGCTTGCTA 60.671 57.895 19.34 2.82 38.13 3.49
2240 2312 2.980233 GGTGCGTGGAAGCTTGCT 60.980 61.111 19.34 0.00 38.13 3.91
2241 2313 4.043200 GGGTGCGTGGAAGCTTGC 62.043 66.667 11.58 11.58 38.13 4.01
2242 2314 3.365265 GGGGTGCGTGGAAGCTTG 61.365 66.667 2.10 0.00 38.13 4.01
2243 2315 3.570212 AGGGGTGCGTGGAAGCTT 61.570 61.111 0.00 0.00 38.13 3.74
2244 2316 4.335647 CAGGGGTGCGTGGAAGCT 62.336 66.667 0.00 0.00 38.13 3.74
2245 2317 4.643387 ACAGGGGTGCGTGGAAGC 62.643 66.667 0.00 0.00 37.71 3.86
2246 2318 2.358737 GACAGGGGTGCGTGGAAG 60.359 66.667 0.00 0.00 0.00 3.46
2247 2319 3.948719 GGACAGGGGTGCGTGGAA 61.949 66.667 0.00 0.00 0.00 3.53
2249 2321 2.593468 CTATGGACAGGGGTGCGTGG 62.593 65.000 0.00 0.00 38.35 4.94
2250 2322 1.153369 CTATGGACAGGGGTGCGTG 60.153 63.158 0.00 0.00 38.35 5.34
2251 2323 3.031417 GCTATGGACAGGGGTGCGT 62.031 63.158 0.00 0.00 38.35 5.24
2252 2324 1.399744 TAGCTATGGACAGGGGTGCG 61.400 60.000 0.00 0.00 38.35 5.34
2253 2325 0.394565 CTAGCTATGGACAGGGGTGC 59.605 60.000 0.00 0.00 35.66 5.01
2254 2326 0.394565 GCTAGCTATGGACAGGGGTG 59.605 60.000 7.70 0.00 0.00 4.61
2255 2327 0.266152 AGCTAGCTATGGACAGGGGT 59.734 55.000 17.69 0.00 0.00 4.95
2256 2328 0.972883 GAGCTAGCTATGGACAGGGG 59.027 60.000 19.38 0.00 0.00 4.79
2257 2329 2.008242 AGAGCTAGCTATGGACAGGG 57.992 55.000 19.38 0.00 0.00 4.45
2258 2330 3.494048 CCAAAGAGCTAGCTATGGACAGG 60.494 52.174 27.69 15.84 30.53 4.00
2259 2331 3.133721 ACCAAAGAGCTAGCTATGGACAG 59.866 47.826 33.71 17.94 32.26 3.51
2260 2332 3.107601 ACCAAAGAGCTAGCTATGGACA 58.892 45.455 33.71 0.00 32.26 4.02
2261 2333 3.133003 TCACCAAAGAGCTAGCTATGGAC 59.867 47.826 33.71 18.05 32.26 4.02
2262 2334 3.374764 TCACCAAAGAGCTAGCTATGGA 58.625 45.455 33.71 19.25 32.26 3.41
2263 2335 3.827008 TCACCAAAGAGCTAGCTATGG 57.173 47.619 28.91 28.91 33.36 2.74
2264 2336 6.095432 AGTATCACCAAAGAGCTAGCTATG 57.905 41.667 19.38 16.41 0.00 2.23
2265 2337 5.245075 GGAGTATCACCAAAGAGCTAGCTAT 59.755 44.000 19.38 12.73 36.25 2.97
2266 2338 4.585162 GGAGTATCACCAAAGAGCTAGCTA 59.415 45.833 19.38 0.00 36.25 3.32
2267 2339 3.386402 GGAGTATCACCAAAGAGCTAGCT 59.614 47.826 19.45 19.45 36.25 3.32
2268 2340 3.133003 TGGAGTATCACCAAAGAGCTAGC 59.867 47.826 6.62 6.62 36.25 3.42
2269 2341 5.344743 TTGGAGTATCACCAAAGAGCTAG 57.655 43.478 0.00 0.00 43.22 3.42
2275 2347 9.647145 ACCTGAAGGATTGGAGTATCACCAAAG 62.647 44.444 2.62 0.00 43.17 2.77
2276 2348 7.950045 ACCTGAAGGATTGGAGTATCACCAAA 61.950 42.308 2.62 0.00 43.17 3.28
2277 2349 6.527086 ACCTGAAGGATTGGAGTATCACCAA 61.527 44.000 2.62 0.00 43.61 3.67
2278 2350 3.455910 CCTGAAGGATTGGAGTATCACCA 59.544 47.826 0.00 0.00 34.60 4.17
2279 2351 3.456277 ACCTGAAGGATTGGAGTATCACC 59.544 47.826 2.62 0.00 38.94 4.02
2280 2352 4.407296 AGACCTGAAGGATTGGAGTATCAC 59.593 45.833 2.62 0.00 38.94 3.06
2281 2353 4.624913 AGACCTGAAGGATTGGAGTATCA 58.375 43.478 2.62 0.00 38.94 2.15
2282 2354 4.898861 AGAGACCTGAAGGATTGGAGTATC 59.101 45.833 2.62 0.00 38.94 2.24
2283 2355 4.889780 AGAGACCTGAAGGATTGGAGTAT 58.110 43.478 2.62 0.00 38.94 2.12
2284 2356 4.017037 AGAGAGACCTGAAGGATTGGAGTA 60.017 45.833 2.62 0.00 38.94 2.59
2285 2357 3.103742 GAGAGACCTGAAGGATTGGAGT 58.896 50.000 2.62 0.00 38.94 3.85
2286 2358 3.373830 AGAGAGACCTGAAGGATTGGAG 58.626 50.000 2.62 0.00 38.94 3.86
2287 2359 3.481559 AGAGAGACCTGAAGGATTGGA 57.518 47.619 2.62 0.00 38.94 3.53
2288 2360 5.423886 GTTAAGAGAGACCTGAAGGATTGG 58.576 45.833 2.62 0.00 38.94 3.16
2289 2361 5.105752 CGTTAAGAGAGACCTGAAGGATTG 58.894 45.833 2.62 0.00 38.94 2.67
2290 2362 4.160626 CCGTTAAGAGAGACCTGAAGGATT 59.839 45.833 2.62 0.00 38.94 3.01
2291 2363 3.702045 CCGTTAAGAGAGACCTGAAGGAT 59.298 47.826 2.62 0.00 38.94 3.24
2292 2364 3.090037 CCGTTAAGAGAGACCTGAAGGA 58.910 50.000 2.62 0.00 38.94 3.36
2293 2365 3.090037 TCCGTTAAGAGAGACCTGAAGG 58.910 50.000 0.00 0.00 42.17 3.46
2294 2366 3.759618 AGTCCGTTAAGAGAGACCTGAAG 59.240 47.826 0.00 0.00 0.00 3.02
2295 2367 3.757493 GAGTCCGTTAAGAGAGACCTGAA 59.243 47.826 0.00 0.00 0.00 3.02
2296 2368 3.345414 GAGTCCGTTAAGAGAGACCTGA 58.655 50.000 0.00 0.00 0.00 3.86
2297 2369 2.424246 GGAGTCCGTTAAGAGAGACCTG 59.576 54.545 0.00 0.00 0.00 4.00
2298 2370 2.309458 AGGAGTCCGTTAAGAGAGACCT 59.691 50.000 2.76 0.00 0.00 3.85
2299 2371 2.684374 GAGGAGTCCGTTAAGAGAGACC 59.316 54.545 2.76 0.00 0.00 3.85
2300 2372 3.127376 GTGAGGAGTCCGTTAAGAGAGAC 59.873 52.174 2.76 0.00 0.00 3.36
2301 2373 3.244805 TGTGAGGAGTCCGTTAAGAGAGA 60.245 47.826 2.76 0.00 0.00 3.10
2302 2374 3.082548 TGTGAGGAGTCCGTTAAGAGAG 58.917 50.000 2.76 0.00 0.00 3.20
2303 2375 3.150458 TGTGAGGAGTCCGTTAAGAGA 57.850 47.619 2.76 0.00 0.00 3.10
2304 2376 3.193691 ACATGTGAGGAGTCCGTTAAGAG 59.806 47.826 2.76 0.00 0.00 2.85
2305 2377 3.162666 ACATGTGAGGAGTCCGTTAAGA 58.837 45.455 2.76 0.00 0.00 2.10
2306 2378 3.056821 TGACATGTGAGGAGTCCGTTAAG 60.057 47.826 1.15 0.00 0.00 1.85
2307 2379 2.894765 TGACATGTGAGGAGTCCGTTAA 59.105 45.455 1.15 0.00 0.00 2.01
2308 2380 2.521126 TGACATGTGAGGAGTCCGTTA 58.479 47.619 1.15 0.00 0.00 3.18
2309 2381 1.338107 TGACATGTGAGGAGTCCGTT 58.662 50.000 1.15 0.00 0.00 4.44
2310 2382 1.338107 TTGACATGTGAGGAGTCCGT 58.662 50.000 1.15 0.00 0.00 4.69
2311 2383 2.455674 TTTGACATGTGAGGAGTCCG 57.544 50.000 1.15 0.00 0.00 4.79


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

AutoCloner maintained by Alex Coulton.