Multiple sequence alignment - TraesCS3B01G199400

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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 TraesCS3B01G199400 chr3B 100.000 2387 0 0 1 2387 228098893 228096507 0.000000e+00 4409
1 TraesCS3B01G199400 chr3D 92.311 2120 79 30 1 2071 157041395 157039311 0.000000e+00 2935
2 TraesCS3B01G199400 chr3A 92.365 1598 74 18 508 2069 171209187 171210772 0.000000e+00 2231
3 TraesCS3B01G199400 chr3A 90.870 460 31 9 1 453 171208720 171209175 7.300000e-170 606
4 TraesCS3B01G199400 chr5A 91.016 256 22 1 2071 2326 156224259 156224513 6.320000e-91 344
5 TraesCS3B01G199400 chr5A 80.625 320 55 7 2071 2386 175839989 175839673 8.530000e-60 241
6 TraesCS3B01G199400 chr1A 84.615 299 38 7 2091 2385 290412727 290412433 8.350000e-75 291
7 TraesCS3B01G199400 chr7A 81.587 315 49 9 2077 2387 448118580 448118889 3.940000e-63 252


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 TraesCS3B01G199400 chr3B 228096507 228098893 2386 True 4409.0 4409 100.0000 1 2387 1 chr3B.!!$R1 2386
1 TraesCS3B01G199400 chr3D 157039311 157041395 2084 True 2935.0 2935 92.3110 1 2071 1 chr3D.!!$R1 2070
2 TraesCS3B01G199400 chr3A 171208720 171210772 2052 False 1418.5 2231 91.6175 1 2069 2 chr3A.!!$F1 2068

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
422 436 0.236711 CAGTTTCCTTGTGCTCGCAG 59.763 55.0 0.0 0.0 0.0 5.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2112 2176 0.036294 GTGCACCAGGGTAGGAAGTC 60.036 60.0 5.22 0.0 0.0 3.01 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
27 28 1.399791 GCTCAGAAAAGGAAGCGATGG 59.600 52.381 0.00 0.00 0.00 3.51
117 124 2.700897 AGAGTCAACCTGCAGTACAAGT 59.299 45.455 13.81 0.00 0.00 3.16
127 134 5.003804 CCTGCAGTACAAGTCATTTAAGGT 58.996 41.667 13.81 0.00 0.00 3.50
129 136 6.348540 CCTGCAGTACAAGTCATTTAAGGTTC 60.349 42.308 13.81 0.00 0.00 3.62
140 147 7.406104 AGTCATTTAAGGTTCCAGCTAATTCT 58.594 34.615 0.00 0.00 0.00 2.40
148 155 4.878971 GGTTCCAGCTAATTCTCTTTCTCC 59.121 45.833 0.00 0.00 0.00 3.71
180 190 5.313712 TGTCAAGTTGGGTTTCTTAGATCC 58.686 41.667 2.34 0.00 0.00 3.36
201 211 1.657804 ACCTGAAGGGAATCCGAAGT 58.342 50.000 0.56 0.00 40.27 3.01
236 246 4.974645 AACCTGTCTGAATGTGGACTAA 57.025 40.909 0.00 0.00 34.01 2.24
354 368 2.295253 ATTTCGTGCTTCTAGACCCG 57.705 50.000 0.00 0.00 0.00 5.28
377 391 1.785041 GCCGTGCATTGCATACCGAT 61.785 55.000 15.49 0.00 41.91 4.18
422 436 0.236711 CAGTTTCCTTGTGCTCGCAG 59.763 55.000 0.00 0.00 0.00 5.18
549 563 0.392998 ATAGTCAACCCCTGCGCAAG 60.393 55.000 13.05 4.91 43.44 4.01
555 569 4.335647 CCCCTGCGCAAGTCTGGT 62.336 66.667 13.05 0.00 41.68 4.00
572 586 4.386049 GTCTGGTAGACGTGTCAAATCTTG 59.614 45.833 0.00 0.00 35.28 3.02
649 667 1.442520 GCGGCAAGACGTACGTACA 60.443 57.895 22.87 0.00 35.98 2.90
718 736 3.864583 CGAGAGGCAGAGAAGAAATCAAG 59.135 47.826 0.00 0.00 0.00 3.02
773 791 2.974148 CCTTGCTGCGCACACTCA 60.974 61.111 5.66 0.00 38.71 3.41
858 880 1.861542 TTGACTTTCGCCATTGCCGG 61.862 55.000 0.00 0.00 0.00 6.13
885 907 1.623811 CCATAGTATAAGCACGGCCCT 59.376 52.381 0.00 0.00 0.00 5.19
1098 1120 4.416738 AGGAGCCGCTTCCTTGCC 62.417 66.667 0.00 0.00 45.35 4.52
1212 1234 3.605664 GGCACCTGCACCAACACC 61.606 66.667 0.00 0.00 44.36 4.16
1213 1235 2.519302 GCACCTGCACCAACACCT 60.519 61.111 0.00 0.00 41.59 4.00
1483 1505 1.135527 CACCCATCATGCATGACCAAC 59.864 52.381 30.92 0.00 40.03 3.77
1554 1576 9.974980 GAAGTCCAAATTGTTTAAGGTATTTCA 57.025 29.630 0.00 0.00 0.00 2.69
1761 1786 2.104281 GGTACCCGTAGCTCCATCAATT 59.896 50.000 0.00 0.00 0.00 2.32
1829 1877 9.211485 GGAAACATTTTCAATGAATTCAGATGT 57.789 29.630 14.54 12.52 0.00 3.06
1876 1929 7.444629 TTTACGGTATAGACTAGTAGGCATG 57.555 40.000 5.63 0.00 0.00 4.06
1879 1932 4.379603 CGGTATAGACTAGTAGGCATGTGC 60.380 50.000 5.63 0.00 41.14 4.57
1898 1955 2.187707 GCTGCCATTCGCTTATTTGTG 58.812 47.619 0.00 0.00 38.78 3.33
1945 2002 8.840200 TTCATAGAACTGGTCTTAGTTAGGAT 57.160 34.615 0.00 0.00 40.78 3.24
1962 2019 2.756760 AGGATCTAGGACGCGTACAAAA 59.243 45.455 25.94 8.30 0.00 2.44
1971 2028 1.600485 ACGCGTACAAAAGGGAAAGTG 59.400 47.619 11.67 0.00 0.00 3.16
2071 2135 0.817654 TCTGTCCAGTATCCACAGCG 59.182 55.000 0.00 0.00 37.95 5.18
2072 2136 0.807667 CTGTCCAGTATCCACAGCGC 60.808 60.000 0.00 0.00 31.62 5.92
2073 2137 1.257750 TGTCCAGTATCCACAGCGCT 61.258 55.000 2.64 2.64 0.00 5.92
2074 2138 0.108138 GTCCAGTATCCACAGCGCTT 60.108 55.000 7.50 0.00 0.00 4.68
2075 2139 0.108186 TCCAGTATCCACAGCGCTTG 60.108 55.000 7.50 9.99 0.00 4.01
2076 2140 1.091771 CCAGTATCCACAGCGCTTGG 61.092 60.000 24.21 24.21 35.18 3.61
2077 2141 1.091771 CAGTATCCACAGCGCTTGGG 61.092 60.000 27.32 22.62 34.56 4.12
2078 2142 1.078426 GTATCCACAGCGCTTGGGT 60.078 57.895 27.32 24.89 34.56 4.51
2108 2172 3.459063 CCCCCTCCGACCGAAGAC 61.459 72.222 0.00 0.00 0.00 3.01
2109 2173 3.823330 CCCCTCCGACCGAAGACG 61.823 72.222 0.00 0.00 39.43 4.18
2110 2174 2.749044 CCCTCCGACCGAAGACGA 60.749 66.667 0.00 0.00 42.66 4.20
2111 2175 2.338015 CCCTCCGACCGAAGACGAA 61.338 63.158 0.00 0.00 42.66 3.85
2112 2176 1.136984 CCTCCGACCGAAGACGAAG 59.863 63.158 0.00 0.00 42.66 3.79
2113 2177 1.303799 CCTCCGACCGAAGACGAAGA 61.304 60.000 0.00 0.00 42.66 2.87
2114 2178 0.179194 CTCCGACCGAAGACGAAGAC 60.179 60.000 0.00 0.00 42.66 3.01
2115 2179 0.604780 TCCGACCGAAGACGAAGACT 60.605 55.000 0.00 0.00 42.66 3.24
2116 2180 0.240411 CCGACCGAAGACGAAGACTT 59.760 55.000 0.00 0.00 46.34 3.01
2124 2188 2.903375 AGACGAAGACTTCCTACCCT 57.097 50.000 9.63 0.00 0.00 4.34
2125 2189 2.448453 AGACGAAGACTTCCTACCCTG 58.552 52.381 9.63 0.00 0.00 4.45
2126 2190 1.477295 GACGAAGACTTCCTACCCTGG 59.523 57.143 9.63 0.00 0.00 4.45
2127 2191 1.203149 ACGAAGACTTCCTACCCTGGT 60.203 52.381 9.63 0.00 0.00 4.00
2128 2192 1.204941 CGAAGACTTCCTACCCTGGTG 59.795 57.143 9.63 0.00 0.00 4.17
2129 2193 0.984995 AAGACTTCCTACCCTGGTGC 59.015 55.000 0.00 0.00 0.00 5.01
2130 2194 0.178903 AGACTTCCTACCCTGGTGCA 60.179 55.000 0.00 0.00 0.00 4.57
2131 2195 0.036294 GACTTCCTACCCTGGTGCAC 60.036 60.000 8.80 8.80 0.00 4.57
2132 2196 1.079127 CTTCCTACCCTGGTGCACG 60.079 63.158 11.45 0.00 0.00 5.34
2133 2197 2.521958 CTTCCTACCCTGGTGCACGG 62.522 65.000 11.45 9.31 0.00 4.94
2134 2198 4.778143 CCTACCCTGGTGCACGGC 62.778 72.222 11.45 0.00 0.00 5.68
2152 2216 4.851179 GACCATCGCCGGTTCCCC 62.851 72.222 1.90 0.00 40.22 4.81
2154 2218 4.547367 CCATCGCCGGTTCCCCTC 62.547 72.222 1.90 0.00 0.00 4.30
2155 2219 4.891727 CATCGCCGGTTCCCCTCG 62.892 72.222 1.90 0.00 0.00 4.63
2176 2240 4.522971 CCTTCGCAAGGGTCTAGC 57.477 61.111 6.96 0.00 45.27 3.42
2177 2241 1.153349 CCTTCGCAAGGGTCTAGCC 60.153 63.158 6.96 0.00 45.27 3.93
2178 2242 1.596934 CTTCGCAAGGGTCTAGCCA 59.403 57.895 0.36 0.00 39.65 4.75
2179 2243 0.741221 CTTCGCAAGGGTCTAGCCAC 60.741 60.000 0.36 0.00 39.65 5.01
2180 2244 1.476845 TTCGCAAGGGTCTAGCCACA 61.477 55.000 0.36 0.00 39.65 4.17
2181 2245 1.221840 CGCAAGGGTCTAGCCACAT 59.778 57.895 0.36 0.00 39.65 3.21
2182 2246 0.392998 CGCAAGGGTCTAGCCACATT 60.393 55.000 0.36 0.00 39.65 2.71
2183 2247 1.098050 GCAAGGGTCTAGCCACATTG 58.902 55.000 0.36 7.64 39.65 2.82
2184 2248 1.755179 CAAGGGTCTAGCCACATTGG 58.245 55.000 0.36 0.00 41.55 3.16
2193 2257 4.615901 CCACATTGGCTACGCTCA 57.384 55.556 0.00 0.00 0.00 4.26
2194 2258 2.089854 CCACATTGGCTACGCTCAC 58.910 57.895 0.00 0.00 0.00 3.51
2195 2259 1.369091 CCACATTGGCTACGCTCACC 61.369 60.000 0.00 0.00 0.00 4.02
2196 2260 1.447838 ACATTGGCTACGCTCACCG 60.448 57.895 0.00 0.00 44.21 4.94
2197 2261 2.511600 ATTGGCTACGCTCACCGC 60.512 61.111 0.00 0.00 41.76 5.68
2198 2262 3.019003 ATTGGCTACGCTCACCGCT 62.019 57.895 0.00 0.00 41.76 5.52
2199 2263 2.521958 ATTGGCTACGCTCACCGCTT 62.522 55.000 0.00 0.00 41.76 4.68
2200 2264 3.188786 GGCTACGCTCACCGCTTG 61.189 66.667 0.00 0.00 41.76 4.01
2201 2265 3.188786 GCTACGCTCACCGCTTGG 61.189 66.667 0.00 0.00 41.76 3.61
2210 2274 2.360350 ACCGCTTGGTGCATCTGG 60.360 61.111 0.00 0.00 46.92 3.86
2211 2275 2.046023 CCGCTTGGTGCATCTGGA 60.046 61.111 0.00 0.00 43.06 3.86
2212 2276 2.110967 CCGCTTGGTGCATCTGGAG 61.111 63.158 0.00 0.00 43.06 3.86
2213 2277 1.078918 CGCTTGGTGCATCTGGAGA 60.079 57.895 0.00 0.00 43.06 3.71
2214 2278 1.364626 CGCTTGGTGCATCTGGAGAC 61.365 60.000 0.00 0.00 43.06 3.36
2215 2279 0.321919 GCTTGGTGCATCTGGAGACA 60.322 55.000 0.00 0.00 42.31 3.41
2216 2280 1.446907 CTTGGTGCATCTGGAGACAC 58.553 55.000 0.00 0.00 35.60 3.67
2217 2281 4.625800 GGTGCATCTGGAGACACC 57.374 61.111 8.40 8.40 45.22 4.16
2218 2282 1.448540 GGTGCATCTGGAGACACCG 60.449 63.158 8.40 0.00 42.84 4.94
2219 2283 2.103042 GTGCATCTGGAGACACCGC 61.103 63.158 0.00 0.00 42.61 5.68
2220 2284 2.265739 GCATCTGGAGACACCGCA 59.734 61.111 0.00 0.00 42.61 5.69
2221 2285 1.375908 GCATCTGGAGACACCGCAA 60.376 57.895 0.00 0.00 42.61 4.85
2222 2286 1.639298 GCATCTGGAGACACCGCAAC 61.639 60.000 0.00 0.00 42.61 4.17
2223 2287 1.021390 CATCTGGAGACACCGCAACC 61.021 60.000 0.00 0.00 42.61 3.77
2224 2288 2.507110 ATCTGGAGACACCGCAACCG 62.507 60.000 0.00 0.00 42.61 4.44
2225 2289 3.515316 CTGGAGACACCGCAACCGT 62.515 63.158 0.00 0.00 42.61 4.83
2226 2290 2.280592 GGAGACACCGCAACCGTT 60.281 61.111 0.00 0.00 0.00 4.44
2227 2291 2.604174 GGAGACACCGCAACCGTTG 61.604 63.158 6.91 6.91 32.69 4.10
2236 2300 3.007516 CAACCGTTGCGTGTTCGA 58.992 55.556 0.00 0.00 39.71 3.71
2237 2301 1.567537 CAACCGTTGCGTGTTCGAT 59.432 52.632 0.00 0.00 39.71 3.59
2238 2302 0.721155 CAACCGTTGCGTGTTCGATG 60.721 55.000 0.00 0.00 39.71 3.84
2239 2303 1.837538 AACCGTTGCGTGTTCGATGG 61.838 55.000 0.00 0.00 39.71 3.51
2240 2304 2.202171 CGTTGCGTGTTCGATGGC 60.202 61.111 0.00 0.00 39.71 4.40
2241 2305 2.202171 GTTGCGTGTTCGATGGCG 60.202 61.111 0.00 0.00 39.71 5.69
2242 2306 2.356433 TTGCGTGTTCGATGGCGA 60.356 55.556 7.11 0.00 46.33 5.54
2250 2314 2.363795 TCGATGGCGACTCCCCTT 60.364 61.111 0.00 0.00 42.51 3.95
2251 2315 2.107141 CGATGGCGACTCCCCTTC 59.893 66.667 0.00 0.00 40.82 3.46
2252 2316 2.506472 GATGGCGACTCCCCTTCC 59.494 66.667 0.00 0.00 0.00 3.46
2253 2317 3.447025 GATGGCGACTCCCCTTCCG 62.447 68.421 0.00 0.00 0.00 4.30
2257 2321 3.839432 CGACTCCCCTTCCGCCTC 61.839 72.222 0.00 0.00 0.00 4.70
2258 2322 2.683933 GACTCCCCTTCCGCCTCA 60.684 66.667 0.00 0.00 0.00 3.86
2259 2323 2.203938 ACTCCCCTTCCGCCTCAA 60.204 61.111 0.00 0.00 0.00 3.02
2260 2324 2.245438 GACTCCCCTTCCGCCTCAAG 62.245 65.000 0.00 0.00 0.00 3.02
2261 2325 3.009115 TCCCCTTCCGCCTCAAGG 61.009 66.667 0.00 0.00 40.33 3.61
2272 2336 1.881602 CCTCAAGGCTTCTTGCAGC 59.118 57.895 0.00 0.00 45.52 5.25
2273 2337 0.608582 CCTCAAGGCTTCTTGCAGCT 60.609 55.000 0.00 0.00 45.52 4.24
2274 2338 1.339438 CCTCAAGGCTTCTTGCAGCTA 60.339 52.381 0.00 0.00 45.52 3.32
2275 2339 2.641305 CTCAAGGCTTCTTGCAGCTAT 58.359 47.619 0.00 0.00 45.52 2.97
2276 2340 2.613133 CTCAAGGCTTCTTGCAGCTATC 59.387 50.000 0.00 0.00 45.52 2.08
2277 2341 1.674962 CAAGGCTTCTTGCAGCTATCC 59.325 52.381 0.00 0.00 45.15 2.59
2278 2342 0.914644 AGGCTTCTTGCAGCTATCCA 59.085 50.000 0.00 0.00 45.15 3.41
2279 2343 1.134159 AGGCTTCTTGCAGCTATCCAG 60.134 52.381 0.00 0.00 45.15 3.86
2280 2344 1.307097 GCTTCTTGCAGCTATCCAGG 58.693 55.000 0.00 0.00 42.31 4.45
2281 2345 1.134280 GCTTCTTGCAGCTATCCAGGA 60.134 52.381 0.00 0.00 42.31 3.86
2282 2346 2.559440 CTTCTTGCAGCTATCCAGGAC 58.441 52.381 0.00 0.00 0.00 3.85
2283 2347 0.461548 TCTTGCAGCTATCCAGGACG 59.538 55.000 0.00 0.00 0.00 4.79
2284 2348 0.461548 CTTGCAGCTATCCAGGACGA 59.538 55.000 0.00 0.00 0.00 4.20
2285 2349 0.461548 TTGCAGCTATCCAGGACGAG 59.538 55.000 0.00 0.00 0.00 4.18
2286 2350 1.365633 GCAGCTATCCAGGACGAGG 59.634 63.158 0.00 0.00 0.00 4.63
2287 2351 1.365633 CAGCTATCCAGGACGAGGC 59.634 63.158 0.00 0.00 0.00 4.70
2288 2352 1.112315 CAGCTATCCAGGACGAGGCT 61.112 60.000 0.00 0.00 0.00 4.58
2289 2353 0.478942 AGCTATCCAGGACGAGGCTA 59.521 55.000 0.00 0.00 0.00 3.93
2290 2354 0.885196 GCTATCCAGGACGAGGCTAG 59.115 60.000 0.00 0.00 0.00 3.42
2291 2355 1.540267 CTATCCAGGACGAGGCTAGG 58.460 60.000 0.00 0.00 0.00 3.02
2292 2356 1.074084 CTATCCAGGACGAGGCTAGGA 59.926 57.143 0.00 0.00 0.00 2.94
2293 2357 0.468400 ATCCAGGACGAGGCTAGGAC 60.468 60.000 0.00 0.00 0.00 3.85
2294 2358 2.128507 CCAGGACGAGGCTAGGACC 61.129 68.421 0.00 2.51 0.00 4.46
2295 2359 1.076632 CAGGACGAGGCTAGGACCT 60.077 63.158 0.00 0.00 45.04 3.85
2296 2360 1.076632 AGGACGAGGCTAGGACCTG 60.077 63.158 3.53 0.00 41.32 4.00
2297 2361 2.128507 GGACGAGGCTAGGACCTGG 61.129 68.421 3.53 1.29 41.32 4.45
2298 2362 2.042843 ACGAGGCTAGGACCTGGG 60.043 66.667 3.53 0.00 41.32 4.45
2299 2363 3.541713 CGAGGCTAGGACCTGGGC 61.542 72.222 22.26 22.26 41.32 5.36
2301 2365 2.041405 AGGCTAGGACCTGGGCTC 60.041 66.667 26.03 12.84 43.65 4.70
2302 2366 3.541713 GGCTAGGACCTGGGCTCG 61.542 72.222 22.44 0.00 34.88 5.03
2303 2367 2.442272 GCTAGGACCTGGGCTCGA 60.442 66.667 3.53 0.00 0.00 4.04
2304 2368 2.494530 GCTAGGACCTGGGCTCGAG 61.495 68.421 8.45 8.45 0.00 4.04
2305 2369 2.442272 TAGGACCTGGGCTCGAGC 60.442 66.667 29.38 29.38 41.14 5.03
2306 2370 2.920076 CTAGGACCTGGGCTCGAGCT 62.920 65.000 34.46 16.68 41.70 4.09
2307 2371 4.154347 GGACCTGGGCTCGAGCTG 62.154 72.222 34.46 23.60 41.70 4.24
2308 2372 4.154347 GACCTGGGCTCGAGCTGG 62.154 72.222 34.46 31.24 41.70 4.85
2310 2374 4.463879 CCTGGGCTCGAGCTGGTG 62.464 72.222 34.46 21.36 41.70 4.17
2322 2386 4.056125 CTGGTGCTCGCGGACTCA 62.056 66.667 6.13 0.00 0.00 3.41
2323 2387 3.573772 CTGGTGCTCGCGGACTCAA 62.574 63.158 6.13 0.00 0.00 3.02
2324 2388 2.125512 GGTGCTCGCGGACTCAAT 60.126 61.111 6.13 0.00 0.00 2.57
2325 2389 2.167861 GGTGCTCGCGGACTCAATC 61.168 63.158 6.13 0.00 0.00 2.67
2326 2390 2.167861 GTGCTCGCGGACTCAATCC 61.168 63.158 6.13 0.00 45.20 3.01
2327 2391 2.351244 TGCTCGCGGACTCAATCCT 61.351 57.895 6.13 0.00 46.69 3.24
2328 2392 1.153549 GCTCGCGGACTCAATCCTT 60.154 57.895 6.13 0.00 46.69 3.36
2329 2393 0.741221 GCTCGCGGACTCAATCCTTT 60.741 55.000 6.13 0.00 46.69 3.11
2330 2394 1.002366 CTCGCGGACTCAATCCTTTG 58.998 55.000 6.13 0.00 46.69 2.77
2331 2395 1.019278 TCGCGGACTCAATCCTTTGC 61.019 55.000 6.13 0.00 46.69 3.68
2332 2396 1.021390 CGCGGACTCAATCCTTTGCT 61.021 55.000 0.00 0.00 46.69 3.91
2333 2397 0.449388 GCGGACTCAATCCTTTGCTG 59.551 55.000 0.00 0.00 46.69 4.41
2334 2398 1.089920 CGGACTCAATCCTTTGCTGG 58.910 55.000 0.00 0.00 46.69 4.85
2335 2399 0.813821 GGACTCAATCCTTTGCTGGC 59.186 55.000 0.00 0.00 45.22 4.85
2336 2400 1.538047 GACTCAATCCTTTGCTGGCA 58.462 50.000 0.00 0.00 32.61 4.92
2337 2401 2.097825 GACTCAATCCTTTGCTGGCAT 58.902 47.619 0.00 0.00 32.61 4.40
2338 2402 3.282021 GACTCAATCCTTTGCTGGCATA 58.718 45.455 0.00 0.00 32.61 3.14
2339 2403 3.285484 ACTCAATCCTTTGCTGGCATAG 58.715 45.455 6.15 6.15 32.61 2.23
2340 2404 2.621998 CTCAATCCTTTGCTGGCATAGG 59.378 50.000 20.69 20.69 43.49 2.57
2343 2407 0.107017 TCCTTTGCTGGCATAGGAGC 60.107 55.000 23.78 0.00 44.97 4.70
2344 2408 1.442526 CCTTTGCTGGCATAGGAGCG 61.443 60.000 21.71 0.82 44.43 5.03
2345 2409 0.745845 CTTTGCTGGCATAGGAGCGT 60.746 55.000 5.37 0.00 38.09 5.07
2346 2410 0.539518 TTTGCTGGCATAGGAGCGTA 59.460 50.000 0.00 0.00 38.09 4.42
2347 2411 0.104855 TTGCTGGCATAGGAGCGTAG 59.895 55.000 0.00 0.00 38.09 3.51
2364 2428 2.346545 CGTAGCTTTACGTTAGTTGGGC 59.653 50.000 0.00 0.00 38.52 5.36
2365 2429 2.853235 AGCTTTACGTTAGTTGGGCT 57.147 45.000 0.00 0.00 0.00 5.19
2366 2430 2.423577 AGCTTTACGTTAGTTGGGCTG 58.576 47.619 0.00 0.00 0.00 4.85
2367 2431 2.038033 AGCTTTACGTTAGTTGGGCTGA 59.962 45.455 0.00 0.00 0.00 4.26
2368 2432 2.415512 GCTTTACGTTAGTTGGGCTGAG 59.584 50.000 0.00 0.00 0.00 3.35
2369 2433 2.088950 TTACGTTAGTTGGGCTGAGC 57.911 50.000 0.00 0.00 0.00 4.26
2370 2434 0.970640 TACGTTAGTTGGGCTGAGCA 59.029 50.000 6.82 0.00 0.00 4.26
2371 2435 0.324943 ACGTTAGTTGGGCTGAGCAT 59.675 50.000 6.82 0.00 0.00 3.79
2372 2436 1.009829 CGTTAGTTGGGCTGAGCATC 58.990 55.000 6.82 0.00 0.00 3.91
2373 2437 1.383523 GTTAGTTGGGCTGAGCATCC 58.616 55.000 6.82 0.00 0.00 3.51
2374 2438 0.255890 TTAGTTGGGCTGAGCATCCC 59.744 55.000 6.82 2.45 42.93 3.85
2378 2442 4.512914 GGGCTGAGCATCCCACCC 62.513 72.222 6.82 0.00 42.18 4.61
2379 2443 4.512914 GGCTGAGCATCCCACCCC 62.513 72.222 6.82 0.00 0.00 4.95
2380 2444 3.731728 GCTGAGCATCCCACCCCA 61.732 66.667 0.00 0.00 0.00 4.96
2381 2445 3.065787 GCTGAGCATCCCACCCCAT 62.066 63.158 0.00 0.00 0.00 4.00
2382 2446 1.708993 GCTGAGCATCCCACCCCATA 61.709 60.000 0.00 0.00 0.00 2.74
2383 2447 0.846015 CTGAGCATCCCACCCCATAA 59.154 55.000 0.00 0.00 0.00 1.90
2384 2448 1.215173 CTGAGCATCCCACCCCATAAA 59.785 52.381 0.00 0.00 0.00 1.40
2385 2449 1.643286 TGAGCATCCCACCCCATAAAA 59.357 47.619 0.00 0.00 0.00 1.52
2386 2450 2.043664 TGAGCATCCCACCCCATAAAAA 59.956 45.455 0.00 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 2.948979 TCGCTTCCTTTTCTGAGCAAAA 59.051 40.909 0.00 0.00 34.90 2.44
7 8 1.399791 CCATCGCTTCCTTTTCTGAGC 59.600 52.381 0.00 0.00 0.00 4.26
19 20 0.877071 CTGCAACAGAACCATCGCTT 59.123 50.000 0.00 0.00 32.44 4.68
22 23 0.321564 TCCCTGCAACAGAACCATCG 60.322 55.000 0.00 0.00 32.44 3.84
27 28 3.883489 GGGTATAATCCCTGCAACAGAAC 59.117 47.826 0.00 0.00 43.85 3.01
117 124 7.633789 AGAGAATTAGCTGGAACCTTAAATGA 58.366 34.615 0.00 0.00 0.00 2.57
127 134 5.762179 TGGAGAAAGAGAATTAGCTGGAA 57.238 39.130 0.00 0.00 0.00 3.53
129 136 8.401709 GTTAATTGGAGAAAGAGAATTAGCTGG 58.598 37.037 0.00 0.00 0.00 4.85
140 147 8.352201 CAACTTGACATGTTAATTGGAGAAAGA 58.648 33.333 3.22 0.00 0.00 2.52
148 155 7.209475 AGAAACCCAACTTGACATGTTAATTG 58.791 34.615 3.22 9.98 0.00 2.32
180 190 2.290323 ACTTCGGATTCCCTTCAGGTTG 60.290 50.000 0.00 0.00 36.75 3.77
201 211 2.904434 GACAGGTTTAGAACTCCCCTGA 59.096 50.000 10.74 0.00 44.39 3.86
236 246 7.447594 TCAGCATGACATATGTACTGATCATT 58.552 34.615 18.90 0.00 42.56 2.57
301 315 4.150451 GCATTGTTGATTCGGTTTGAAAGG 59.850 41.667 0.00 0.00 40.71 3.11
354 368 0.991344 GTATGCAATGCACGGCAAAC 59.009 50.000 11.23 0.00 43.62 2.93
377 391 2.495155 ATGTCTGCAGGCATGTTACA 57.505 45.000 32.11 17.97 0.00 2.41
480 494 1.324736 GATTACACGTACTGCTGCTGC 59.675 52.381 8.89 8.89 40.20 5.25
549 563 4.175787 AGATTTGACACGTCTACCAGAC 57.824 45.455 0.00 0.00 41.71 3.51
555 569 5.863935 CACTCATCAAGATTTGACACGTCTA 59.136 40.000 0.00 0.00 43.48 2.59
572 586 2.012673 GCCTGGTCATTCACACTCATC 58.987 52.381 0.00 0.00 0.00 2.92
603 617 1.975680 GGCAGGGGAGGAATATTCGTA 59.024 52.381 10.51 0.00 0.00 3.43
605 619 1.059913 AGGCAGGGGAGGAATATTCG 58.940 55.000 9.32 0.00 0.00 3.34
649 667 1.442769 GATGGTGATCTTGTGCGTGT 58.557 50.000 0.00 0.00 0.00 4.49
718 736 2.707529 CTAAGCTAGCCGGCTCCTGC 62.708 65.000 36.73 32.32 42.24 4.85
773 791 1.458639 GCAAAAGCCTGGAGTGCAGT 61.459 55.000 11.04 0.00 35.28 4.40
830 852 1.067199 GCGAAAGTCAAAGGCGCATG 61.067 55.000 10.83 5.09 46.19 4.06
858 880 3.330267 GTGCTTATACTATGGGCTGAGC 58.670 50.000 0.00 0.00 0.00 4.26
861 883 2.688507 CCGTGCTTATACTATGGGCTG 58.311 52.381 0.00 0.00 0.00 4.85
885 907 1.230050 GGGGGTTGTAGGGAGGGAA 60.230 63.158 0.00 0.00 0.00 3.97
1212 1234 2.031012 TGCTCCACGCTGGACAAG 59.969 61.111 3.02 0.00 42.67 3.16
1213 1235 2.280797 GTGCTCCACGCTGGACAA 60.281 61.111 3.02 0.00 42.67 3.18
1424 1446 2.357034 GCCGATCACACCACACGT 60.357 61.111 0.00 0.00 0.00 4.49
1483 1505 9.947897 GTATATACGTACTGCCGATTTTATTTG 57.052 33.333 0.00 0.00 0.00 2.32
1592 1614 7.005296 AGAGACGTATAAATCATCTGTACCCT 58.995 38.462 0.00 0.00 0.00 4.34
1799 1824 9.820229 CTGAATTCATTGAAAATGTTTCCATTG 57.180 29.630 8.96 0.00 40.42 2.82
1824 1872 8.706322 AAGGTTCAAACTTGGTAAATACATCT 57.294 30.769 0.00 0.00 0.00 2.90
1855 1908 4.760715 CACATGCCTACTAGTCTATACCGT 59.239 45.833 0.00 0.00 0.00 4.83
1857 1910 4.767928 AGCACATGCCTACTAGTCTATACC 59.232 45.833 0.00 0.00 43.38 2.73
1898 1955 2.012948 GCAGTTTGCAAGCAGTCGC 61.013 57.895 16.04 8.41 44.26 5.19
1945 2002 1.203052 CCCTTTTGTACGCGTCCTAGA 59.797 52.381 18.63 0.00 0.00 2.43
1962 2019 4.504858 CATCTACGTTAAGCACTTTCCCT 58.495 43.478 0.00 0.00 0.00 4.20
1971 2028 1.138266 TGGGAGGCATCTACGTTAAGC 59.862 52.381 0.00 0.00 0.00 3.09
2026 2090 4.326278 CGTCACGTACTAATGCAAGAATGT 59.674 41.667 0.00 0.00 0.00 2.71
2027 2091 4.326278 ACGTCACGTACTAATGCAAGAATG 59.674 41.667 0.00 0.00 38.73 2.67
2028 2092 4.326278 CACGTCACGTACTAATGCAAGAAT 59.674 41.667 0.41 0.00 38.32 2.40
2029 2093 3.671459 CACGTCACGTACTAATGCAAGAA 59.329 43.478 0.41 0.00 38.32 2.52
2030 2094 3.239254 CACGTCACGTACTAATGCAAGA 58.761 45.455 0.41 0.00 38.32 3.02
2031 2095 2.984471 ACACGTCACGTACTAATGCAAG 59.016 45.455 0.41 0.00 38.32 4.01
2091 2155 3.459063 GTCTTCGGTCGGAGGGGG 61.459 72.222 0.00 0.00 0.00 5.40
2092 2156 3.823330 CGTCTTCGGTCGGAGGGG 61.823 72.222 0.00 0.00 0.00 4.79
2093 2157 2.267681 CTTCGTCTTCGGTCGGAGGG 62.268 65.000 0.00 0.00 37.69 4.30
2094 2158 1.136984 CTTCGTCTTCGGTCGGAGG 59.863 63.158 0.00 0.00 37.69 4.30
2095 2159 0.179194 GTCTTCGTCTTCGGTCGGAG 60.179 60.000 0.00 0.00 37.69 4.63
2096 2160 0.604780 AGTCTTCGTCTTCGGTCGGA 60.605 55.000 0.00 0.00 37.69 4.55
2097 2161 0.240411 AAGTCTTCGTCTTCGGTCGG 59.760 55.000 0.00 0.00 37.69 4.79
2098 2162 1.604396 GAAGTCTTCGTCTTCGGTCG 58.396 55.000 0.00 0.00 37.69 4.79
2099 2163 1.540707 AGGAAGTCTTCGTCTTCGGTC 59.459 52.381 6.50 0.00 41.26 4.79
2100 2164 1.618487 AGGAAGTCTTCGTCTTCGGT 58.382 50.000 6.50 0.00 41.26 4.69
2101 2165 2.159407 GGTAGGAAGTCTTCGTCTTCGG 60.159 54.545 10.96 0.00 41.26 4.30
2102 2166 2.159407 GGGTAGGAAGTCTTCGTCTTCG 60.159 54.545 10.96 0.00 41.26 3.79
2103 2167 3.090790 AGGGTAGGAAGTCTTCGTCTTC 58.909 50.000 10.96 4.35 40.10 2.87
2104 2168 2.826725 CAGGGTAGGAAGTCTTCGTCTT 59.173 50.000 10.96 0.00 0.00 3.01
2105 2169 2.448453 CAGGGTAGGAAGTCTTCGTCT 58.552 52.381 10.96 4.11 0.00 4.18
2106 2170 1.477295 CCAGGGTAGGAAGTCTTCGTC 59.523 57.143 10.96 4.18 0.00 4.20
2107 2171 1.203149 ACCAGGGTAGGAAGTCTTCGT 60.203 52.381 12.19 12.19 0.00 3.85
2108 2172 1.204941 CACCAGGGTAGGAAGTCTTCG 59.795 57.143 6.50 0.00 0.00 3.79
2109 2173 1.066071 GCACCAGGGTAGGAAGTCTTC 60.066 57.143 3.80 3.80 0.00 2.87
2110 2174 0.984995 GCACCAGGGTAGGAAGTCTT 59.015 55.000 0.00 0.00 0.00 3.01
2111 2175 0.178903 TGCACCAGGGTAGGAAGTCT 60.179 55.000 0.00 0.00 0.00 3.24
2112 2176 0.036294 GTGCACCAGGGTAGGAAGTC 60.036 60.000 5.22 0.00 0.00 3.01
2113 2177 1.827399 CGTGCACCAGGGTAGGAAGT 61.827 60.000 12.15 0.00 0.00 3.01
2114 2178 1.079127 CGTGCACCAGGGTAGGAAG 60.079 63.158 12.15 0.00 0.00 3.46
2115 2179 2.589157 CCGTGCACCAGGGTAGGAA 61.589 63.158 12.15 0.00 35.03 3.36
2116 2180 3.000819 CCGTGCACCAGGGTAGGA 61.001 66.667 12.15 0.00 35.03 2.94
2117 2181 4.778143 GCCGTGCACCAGGGTAGG 62.778 72.222 12.15 5.76 40.97 3.18
2160 2224 0.741221 GTGGCTAGACCCTTGCGAAG 60.741 60.000 0.00 0.00 37.83 3.79
2161 2225 1.295423 GTGGCTAGACCCTTGCGAA 59.705 57.895 0.00 0.00 37.83 4.70
2162 2226 1.264749 ATGTGGCTAGACCCTTGCGA 61.265 55.000 0.00 0.00 37.83 5.10
2163 2227 0.392998 AATGTGGCTAGACCCTTGCG 60.393 55.000 0.00 0.00 37.83 4.85
2164 2228 1.098050 CAATGTGGCTAGACCCTTGC 58.902 55.000 0.00 0.00 37.83 4.01
2165 2229 1.755179 CCAATGTGGCTAGACCCTTG 58.245 55.000 0.00 0.00 37.83 3.61
2196 2260 0.321919 TGTCTCCAGATGCACCAAGC 60.322 55.000 0.00 0.00 45.96 4.01
2197 2261 1.446907 GTGTCTCCAGATGCACCAAG 58.553 55.000 0.00 0.00 0.00 3.61
2198 2262 3.631453 GTGTCTCCAGATGCACCAA 57.369 52.632 0.00 0.00 0.00 3.67
2200 2264 1.448540 CGGTGTCTCCAGATGCACC 60.449 63.158 6.37 6.37 45.64 5.01
2201 2265 2.103042 GCGGTGTCTCCAGATGCAC 61.103 63.158 0.00 0.00 35.57 4.57
2202 2266 2.110757 TTGCGGTGTCTCCAGATGCA 62.111 55.000 0.00 0.00 35.57 3.96
2203 2267 1.375908 TTGCGGTGTCTCCAGATGC 60.376 57.895 0.00 0.00 35.57 3.91
2204 2268 1.021390 GGTTGCGGTGTCTCCAGATG 61.021 60.000 0.00 0.00 35.57 2.90
2205 2269 1.296715 GGTTGCGGTGTCTCCAGAT 59.703 57.895 0.00 0.00 35.57 2.90
2206 2270 2.741092 GGTTGCGGTGTCTCCAGA 59.259 61.111 0.00 0.00 35.57 3.86
2207 2271 2.738521 CGGTTGCGGTGTCTCCAG 60.739 66.667 0.00 0.00 35.57 3.86
2208 2272 3.096633 AACGGTTGCGGTGTCTCCA 62.097 57.895 0.00 0.00 35.57 3.86
2209 2273 2.280592 AACGGTTGCGGTGTCTCC 60.281 61.111 0.00 0.00 0.00 3.71
2210 2274 2.935955 CAACGGTTGCGGTGTCTC 59.064 61.111 8.09 0.00 0.00 3.36
2219 2283 0.721155 CATCGAACACGCAACGGTTG 60.721 55.000 16.35 16.35 0.00 3.77
2220 2284 1.567537 CATCGAACACGCAACGGTT 59.432 52.632 0.00 0.00 0.00 4.44
2221 2285 2.314647 CCATCGAACACGCAACGGT 61.315 57.895 0.00 0.00 0.00 4.83
2222 2286 2.474266 CCATCGAACACGCAACGG 59.526 61.111 0.00 0.00 0.00 4.44
2223 2287 2.202171 GCCATCGAACACGCAACG 60.202 61.111 0.00 0.00 0.00 4.10
2224 2288 2.202171 CGCCATCGAACACGCAAC 60.202 61.111 0.00 0.00 38.10 4.17
2225 2289 2.356433 TCGCCATCGAACACGCAA 60.356 55.556 0.00 0.00 42.44 4.85
2233 2297 2.363795 AAGGGGAGTCGCCATCGA 60.364 61.111 26.56 0.00 43.28 3.59
2234 2298 2.107141 GAAGGGGAGTCGCCATCG 59.893 66.667 26.56 0.00 39.05 3.84
2235 2299 2.506472 GGAAGGGGAGTCGCCATC 59.494 66.667 26.56 23.20 39.05 3.51
2236 2300 3.470888 CGGAAGGGGAGTCGCCAT 61.471 66.667 26.56 16.33 39.05 4.40
2240 2304 3.839432 GAGGCGGAAGGGGAGTCG 61.839 72.222 0.00 0.00 0.00 4.18
2241 2305 2.245438 CTTGAGGCGGAAGGGGAGTC 62.245 65.000 0.00 0.00 0.00 3.36
2242 2306 2.203938 TTGAGGCGGAAGGGGAGT 60.204 61.111 0.00 0.00 0.00 3.85
2243 2307 2.586792 CTTGAGGCGGAAGGGGAG 59.413 66.667 0.00 0.00 0.00 4.30
2244 2308 3.009115 CCTTGAGGCGGAAGGGGA 61.009 66.667 9.13 0.00 37.00 4.81
2258 2322 1.283029 TGGATAGCTGCAAGAAGCCTT 59.717 47.619 1.02 0.00 44.68 4.35
2259 2323 0.914644 TGGATAGCTGCAAGAAGCCT 59.085 50.000 1.02 0.00 44.68 4.58
2260 2324 1.307097 CTGGATAGCTGCAAGAAGCC 58.693 55.000 1.02 0.00 44.68 4.35
2261 2325 1.134280 TCCTGGATAGCTGCAAGAAGC 60.134 52.381 1.02 0.00 43.88 3.86
2262 2326 2.559440 GTCCTGGATAGCTGCAAGAAG 58.441 52.381 0.00 0.00 34.07 2.85
2263 2327 1.134699 CGTCCTGGATAGCTGCAAGAA 60.135 52.381 0.00 0.00 34.07 2.52
2264 2328 0.461548 CGTCCTGGATAGCTGCAAGA 59.538 55.000 0.00 0.00 34.07 3.02
2265 2329 0.461548 TCGTCCTGGATAGCTGCAAG 59.538 55.000 0.00 0.00 0.00 4.01
2266 2330 0.461548 CTCGTCCTGGATAGCTGCAA 59.538 55.000 0.00 0.00 0.00 4.08
2267 2331 1.395045 CCTCGTCCTGGATAGCTGCA 61.395 60.000 0.00 0.00 0.00 4.41
2268 2332 1.365633 CCTCGTCCTGGATAGCTGC 59.634 63.158 0.00 0.00 0.00 5.25
2269 2333 1.112315 AGCCTCGTCCTGGATAGCTG 61.112 60.000 0.00 0.00 0.00 4.24
2270 2334 0.478942 TAGCCTCGTCCTGGATAGCT 59.521 55.000 14.37 14.37 32.30 3.32
2271 2335 0.885196 CTAGCCTCGTCCTGGATAGC 59.115 60.000 0.00 0.76 36.87 2.97
2272 2336 1.074084 TCCTAGCCTCGTCCTGGATAG 59.926 57.143 0.00 0.59 41.68 2.08
2273 2337 1.146452 TCCTAGCCTCGTCCTGGATA 58.854 55.000 0.00 0.00 0.00 2.59
2274 2338 0.468400 GTCCTAGCCTCGTCCTGGAT 60.468 60.000 0.00 0.00 0.00 3.41
2275 2339 1.076923 GTCCTAGCCTCGTCCTGGA 60.077 63.158 0.00 0.00 0.00 3.86
2276 2340 2.128507 GGTCCTAGCCTCGTCCTGG 61.129 68.421 0.00 0.00 0.00 4.45
2277 2341 1.076632 AGGTCCTAGCCTCGTCCTG 60.077 63.158 0.00 0.00 32.39 3.86
2278 2342 1.076632 CAGGTCCTAGCCTCGTCCT 60.077 63.158 0.00 0.00 36.58 3.85
2279 2343 2.128507 CCAGGTCCTAGCCTCGTCC 61.129 68.421 0.00 0.00 36.58 4.79
2280 2344 2.128507 CCCAGGTCCTAGCCTCGTC 61.129 68.421 0.00 0.00 36.58 4.20
2281 2345 2.042843 CCCAGGTCCTAGCCTCGT 60.043 66.667 0.00 0.00 36.58 4.18
2282 2346 3.541713 GCCCAGGTCCTAGCCTCG 61.542 72.222 0.00 0.00 36.58 4.63
2283 2347 2.041405 AGCCCAGGTCCTAGCCTC 60.041 66.667 9.04 0.00 36.58 4.70
2284 2348 2.041405 GAGCCCAGGTCCTAGCCT 60.041 66.667 9.04 0.00 39.99 4.58
2285 2349 3.541713 CGAGCCCAGGTCCTAGCC 61.542 72.222 9.04 1.85 0.00 3.93
2286 2350 2.442272 TCGAGCCCAGGTCCTAGC 60.442 66.667 5.13 5.13 0.00 3.42
2287 2351 2.494530 GCTCGAGCCCAGGTCCTAG 61.495 68.421 27.22 0.00 34.31 3.02
2288 2352 2.442272 GCTCGAGCCCAGGTCCTA 60.442 66.667 27.22 0.00 34.31 2.94
2289 2353 4.390556 AGCTCGAGCCCAGGTCCT 62.391 66.667 32.94 9.90 43.38 3.85
2290 2354 4.154347 CAGCTCGAGCCCAGGTCC 62.154 72.222 32.94 3.92 43.38 4.46
2291 2355 4.154347 CCAGCTCGAGCCCAGGTC 62.154 72.222 32.94 4.72 43.38 3.85
2293 2357 4.463879 CACCAGCTCGAGCCCAGG 62.464 72.222 32.94 30.69 43.38 4.45
2305 2369 2.842394 ATTGAGTCCGCGAGCACCAG 62.842 60.000 8.23 0.00 0.00 4.00
2306 2370 2.835701 GATTGAGTCCGCGAGCACCA 62.836 60.000 8.23 0.00 0.00 4.17
2307 2371 2.125512 ATTGAGTCCGCGAGCACC 60.126 61.111 8.23 0.00 0.00 5.01
2308 2372 2.167861 GGATTGAGTCCGCGAGCAC 61.168 63.158 8.23 0.27 37.23 4.40
2309 2373 2.184322 GGATTGAGTCCGCGAGCA 59.816 61.111 8.23 0.00 37.23 4.26
2317 2381 1.538047 TGCCAGCAAAGGATTGAGTC 58.462 50.000 0.00 0.00 38.94 3.36
2318 2382 2.226962 ATGCCAGCAAAGGATTGAGT 57.773 45.000 0.00 0.00 38.94 3.41
2319 2383 2.621998 CCTATGCCAGCAAAGGATTGAG 59.378 50.000 0.00 0.00 38.94 3.02
2320 2384 2.241941 TCCTATGCCAGCAAAGGATTGA 59.758 45.455 0.00 0.00 38.94 2.57
2321 2385 2.621998 CTCCTATGCCAGCAAAGGATTG 59.378 50.000 0.00 0.00 37.50 2.67
2322 2386 2.941480 CTCCTATGCCAGCAAAGGATT 58.059 47.619 0.00 0.00 37.50 3.01
2323 2387 1.478288 GCTCCTATGCCAGCAAAGGAT 60.478 52.381 0.00 0.00 37.50 3.24
2324 2388 0.107017 GCTCCTATGCCAGCAAAGGA 60.107 55.000 0.00 0.00 36.69 3.36
2325 2389 1.442526 CGCTCCTATGCCAGCAAAGG 61.443 60.000 0.00 0.00 35.15 3.11
2326 2390 0.745845 ACGCTCCTATGCCAGCAAAG 60.746 55.000 0.00 0.00 35.15 2.77
2327 2391 0.539518 TACGCTCCTATGCCAGCAAA 59.460 50.000 0.00 0.00 35.15 3.68
2328 2392 0.104855 CTACGCTCCTATGCCAGCAA 59.895 55.000 0.00 0.00 35.15 3.91
2329 2393 1.742146 CTACGCTCCTATGCCAGCA 59.258 57.895 0.00 0.00 35.15 4.41
2330 2394 1.666234 GCTACGCTCCTATGCCAGC 60.666 63.158 0.00 0.00 32.83 4.85
2331 2395 0.390860 AAGCTACGCTCCTATGCCAG 59.609 55.000 0.00 0.00 38.25 4.85
2332 2396 0.830648 AAAGCTACGCTCCTATGCCA 59.169 50.000 0.00 0.00 38.25 4.92
2333 2397 2.405172 GTAAAGCTACGCTCCTATGCC 58.595 52.381 0.00 0.00 38.25 4.40
2334 2398 2.052157 CGTAAAGCTACGCTCCTATGC 58.948 52.381 0.00 0.00 44.03 3.14
2344 2408 3.370061 CAGCCCAACTAACGTAAAGCTAC 59.630 47.826 0.00 0.00 0.00 3.58
2345 2409 3.258872 TCAGCCCAACTAACGTAAAGCTA 59.741 43.478 0.00 0.00 0.00 3.32
2346 2410 2.038033 TCAGCCCAACTAACGTAAAGCT 59.962 45.455 0.00 0.00 0.00 3.74
2347 2411 2.415512 CTCAGCCCAACTAACGTAAAGC 59.584 50.000 0.00 0.00 0.00 3.51
2348 2412 2.415512 GCTCAGCCCAACTAACGTAAAG 59.584 50.000 0.00 0.00 0.00 1.85
2349 2413 2.224329 TGCTCAGCCCAACTAACGTAAA 60.224 45.455 0.00 0.00 0.00 2.01
2350 2414 1.345089 TGCTCAGCCCAACTAACGTAA 59.655 47.619 0.00 0.00 0.00 3.18
2351 2415 0.970640 TGCTCAGCCCAACTAACGTA 59.029 50.000 0.00 0.00 0.00 3.57
2352 2416 0.324943 ATGCTCAGCCCAACTAACGT 59.675 50.000 0.00 0.00 0.00 3.99
2353 2417 1.009829 GATGCTCAGCCCAACTAACG 58.990 55.000 0.00 0.00 0.00 3.18
2354 2418 1.383523 GGATGCTCAGCCCAACTAAC 58.616 55.000 0.00 0.00 0.00 2.34
2355 2419 3.882131 GGATGCTCAGCCCAACTAA 57.118 52.632 0.00 0.00 0.00 2.24
2363 2427 1.708993 TATGGGGTGGGATGCTCAGC 61.709 60.000 0.00 0.00 0.00 4.26
2364 2428 0.846015 TTATGGGGTGGGATGCTCAG 59.154 55.000 0.00 0.00 0.00 3.35
2365 2429 1.303898 TTTATGGGGTGGGATGCTCA 58.696 50.000 0.00 0.00 0.00 4.26
2366 2430 2.452600 TTTTATGGGGTGGGATGCTC 57.547 50.000 0.00 0.00 0.00 4.26
2367 2431 2.938428 TTTTTATGGGGTGGGATGCT 57.062 45.000 0.00 0.00 0.00 3.79


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

AutoCloner maintained by Alex Coulton.