Multiple sequence alignment - TraesCS1B01G149300

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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 TraesCS1B01G149300 chr1B 100.000 2449 0 0 1 2449 222287286 222284838 0.000000e+00 4523.0
1 TraesCS1B01G149300 chr2A 97.967 2115 37 4 1 2114 509973528 509971419 0.000000e+00 3663.0
2 TraesCS1B01G149300 chr2A 98.878 2050 21 2 1 2049 682560615 682558567 0.000000e+00 3657.0
3 TraesCS1B01G149300 chr3B 98.871 2037 23 0 1 2037 689987807 689985771 0.000000e+00 3635.0
4 TraesCS1B01G149300 chr3B 85.523 373 52 2 1255 1626 131567592 131567963 2.950000e-104 388.0
5 TraesCS1B01G149300 chr7B 98.010 2060 41 0 1 2060 204459304 204461363 0.000000e+00 3578.0
6 TraesCS1B01G149300 chr7B 98.933 1499 16 0 1 1499 13054141 13052643 0.000000e+00 2680.0
7 TraesCS1B01G149300 chr7B 97.988 497 9 1 1479 1974 13052579 13052083 0.000000e+00 861.0
8 TraesCS1B01G149300 chr7B 82.709 347 53 6 2107 2449 23789194 23788851 3.960000e-78 302.0
9 TraesCS1B01G149300 chr7B 100.000 57 0 0 2047 2103 204461392 204461448 3.330000e-19 106.0
10 TraesCS1B01G149300 chr3A 99.201 1501 10 1 1 1499 210126907 210125407 0.000000e+00 2704.0
11 TraesCS1B01G149300 chr3A 97.942 583 11 1 1479 2060 210125343 210124761 0.000000e+00 1009.0
12 TraesCS1B01G149300 chr3A 100.000 56 0 0 2047 2102 210124736 210124681 1.200000e-18 104.0
13 TraesCS1B01G149300 chr1A 79.729 1253 184 51 865 2084 537147174 537145959 0.000000e+00 843.0
14 TraesCS1B01G149300 chr1A 82.581 310 30 15 1804 2100 323703540 323703242 4.040000e-63 252.0
15 TraesCS1B01G149300 chr1D 84.518 788 101 13 865 1643 440875019 440875794 0.000000e+00 760.0
16 TraesCS1B01G149300 chr4D 84.000 725 95 12 841 1557 278289227 278289938 0.000000e+00 676.0
17 TraesCS1B01G149300 chr4D 84.770 348 45 5 2106 2449 18214939 18215282 2.330000e-90 342.0
18 TraesCS1B01G149300 chr6A 86.402 353 38 7 2099 2449 208111900 208111556 6.390000e-101 377.0
19 TraesCS1B01G149300 chr6A 91.589 107 8 1 380 485 601004505 601004611 1.960000e-31 147.0
20 TraesCS1B01G149300 chr3D 84.270 356 48 6 2097 2449 312933657 312934007 8.390000e-90 340.0
21 TraesCS1B01G149300 chrUn 82.421 347 54 6 2107 2449 84605546 84605889 1.840000e-76 296.0
22 TraesCS1B01G149300 chrUn 82.133 347 55 6 2107 2449 313175024 313174681 8.570000e-75 291.0
23 TraesCS1B01G149300 chr7D 82.336 351 50 7 2107 2448 390842462 390842809 6.620000e-76 294.0
24 TraesCS1B01G149300 chr4A 82.029 345 58 3 2107 2449 347902961 347902619 8.570000e-75 291.0
25 TraesCS1B01G149300 chr4A 93.269 104 6 1 379 481 146663888 146663785 4.220000e-33 152.0
26 TraesCS1B01G149300 chr2B 82.799 343 39 13 2106 2444 679854115 679853789 3.080000e-74 289.0
27 TraesCS1B01G149300 chr2B 91.803 61 2 3 2054 2113 106014374 106014316 5.610000e-12 82.4
28 TraesCS1B01G149300 chr5A 93.269 104 6 1 379 481 460411016 460410913 4.220000e-33 152.0
29 TraesCS1B01G149300 chr4B 74.702 336 34 27 1771 2099 639446665 639446956 4.310000e-18 102.0
30 TraesCS1B01G149300 chr6D 87.654 81 4 6 2052 2129 366997786 366997709 3.350000e-14 89.8
31 TraesCS1B01G149300 chr6B 98.000 50 1 0 2054 2103 460917422 460917373 1.210000e-13 87.9
32 TraesCS1B01G149300 chr7A 94.545 55 3 0 2052 2106 576916678 576916624 4.340000e-13 86.1


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 TraesCS1B01G149300 chr1B 222284838 222287286 2448 True 4523.000000 4523 100.000000 1 2449 1 chr1B.!!$R1 2448
1 TraesCS1B01G149300 chr2A 509971419 509973528 2109 True 3663.000000 3663 97.967000 1 2114 1 chr2A.!!$R1 2113
2 TraesCS1B01G149300 chr2A 682558567 682560615 2048 True 3657.000000 3657 98.878000 1 2049 1 chr2A.!!$R2 2048
3 TraesCS1B01G149300 chr3B 689985771 689987807 2036 True 3635.000000 3635 98.871000 1 2037 1 chr3B.!!$R1 2036
4 TraesCS1B01G149300 chr7B 204459304 204461448 2144 False 1842.000000 3578 99.005000 1 2103 2 chr7B.!!$F1 2102
5 TraesCS1B01G149300 chr7B 13052083 13054141 2058 True 1770.500000 2680 98.460500 1 1974 2 chr7B.!!$R2 1973
6 TraesCS1B01G149300 chr3A 210124681 210126907 2226 True 1272.333333 2704 99.047667 1 2102 3 chr3A.!!$R1 2101
7 TraesCS1B01G149300 chr1A 537145959 537147174 1215 True 843.000000 843 79.729000 865 2084 1 chr1A.!!$R2 1219
8 TraesCS1B01G149300 chr1D 440875019 440875794 775 False 760.000000 760 84.518000 865 1643 1 chr1D.!!$F1 778
9 TraesCS1B01G149300 chr4D 278289227 278289938 711 False 676.000000 676 84.000000 841 1557 1 chr4D.!!$F2 716

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
918 922 0.250467 ACACGAGCCACATTGAAGCT 60.25 50.0 5.14 5.14 40.24 3.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2254 2437 2.024176 ACTCTCGTTGTTGCTGTTGT 57.976 45.0 0.0 0.0 0.0 3.32 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
33 34 2.104572 GAGGACTGTGGTCAGCAGCA 62.105 60.000 0.00 0.00 44.77 4.41
265 266 9.807921 AGAAGAATTGTACCCTGAGAAAATTTA 57.192 29.630 0.00 0.00 0.00 1.40
423 424 3.204526 TGCATGTTATGTGATGATGCGA 58.795 40.909 0.00 0.00 41.92 5.10
918 922 0.250467 ACACGAGCCACATTGAAGCT 60.250 50.000 5.14 5.14 40.24 3.74
977 981 2.280119 AGCAGCGCACGAAGAACA 60.280 55.556 11.47 0.00 0.00 3.18
1372 1384 5.067283 GCGGGTATCATGTCTTTTATTTGGT 59.933 40.000 0.00 0.00 0.00 3.67
1596 1694 8.035394 AGTCACGATGTTTAGTTTATGTCTGAT 58.965 33.333 0.00 0.00 0.00 2.90
1664 1762 2.359107 CAGTCGCAGGTGCATGGT 60.359 61.111 2.33 0.00 42.21 3.55
2044 2181 6.017109 ACATGACATTGTTGTTGAGTTACTCC 60.017 38.462 10.10 0.00 35.79 3.85
2107 2290 5.390673 CGGGCGTTCTACTAGTATATGTGAG 60.391 48.000 2.33 0.00 0.00 3.51
2108 2291 5.472820 GGGCGTTCTACTAGTATATGTGAGT 59.527 44.000 2.33 0.00 0.00 3.41
2109 2292 6.652481 GGGCGTTCTACTAGTATATGTGAGTA 59.348 42.308 2.33 0.00 0.00 2.59
2110 2293 7.336427 GGGCGTTCTACTAGTATATGTGAGTAT 59.664 40.741 2.33 0.00 0.00 2.12
2122 2305 9.137459 AGTATATGTGAGTATTAGCAGTTGAGT 57.863 33.333 0.00 0.00 0.00 3.41
2123 2306 9.751542 GTATATGTGAGTATTAGCAGTTGAGTT 57.248 33.333 0.00 0.00 0.00 3.01
2124 2307 6.974932 ATGTGAGTATTAGCAGTTGAGTTG 57.025 37.500 0.00 0.00 0.00 3.16
2125 2308 5.853936 TGTGAGTATTAGCAGTTGAGTTGT 58.146 37.500 0.00 0.00 0.00 3.32
2126 2309 5.926542 TGTGAGTATTAGCAGTTGAGTTGTC 59.073 40.000 0.00 0.00 0.00 3.18
2127 2310 5.926542 GTGAGTATTAGCAGTTGAGTTGTCA 59.073 40.000 0.00 0.00 0.00 3.58
2128 2311 6.423905 GTGAGTATTAGCAGTTGAGTTGTCAA 59.576 38.462 0.00 0.00 40.55 3.18
2129 2312 7.118390 GTGAGTATTAGCAGTTGAGTTGTCAAT 59.882 37.037 0.00 0.00 44.58 2.57
2130 2313 7.661437 TGAGTATTAGCAGTTGAGTTGTCAATT 59.339 33.333 0.00 0.00 44.58 2.32
2131 2314 8.396272 AGTATTAGCAGTTGAGTTGTCAATTT 57.604 30.769 0.00 0.00 44.58 1.82
2132 2315 9.502091 AGTATTAGCAGTTGAGTTGTCAATTTA 57.498 29.630 0.00 0.00 44.58 1.40
2135 2318 5.831997 AGCAGTTGAGTTGTCAATTTAACC 58.168 37.500 10.80 0.10 44.58 2.85
2136 2319 5.359576 AGCAGTTGAGTTGTCAATTTAACCA 59.640 36.000 10.80 0.00 44.58 3.67
2137 2320 5.458779 GCAGTTGAGTTGTCAATTTAACCAC 59.541 40.000 10.80 2.42 44.58 4.16
2138 2321 5.977129 CAGTTGAGTTGTCAATTTAACCACC 59.023 40.000 10.80 0.00 44.58 4.61
2139 2322 5.068591 AGTTGAGTTGTCAATTTAACCACCC 59.931 40.000 10.80 0.00 44.58 4.61
2140 2323 4.537751 TGAGTTGTCAATTTAACCACCCA 58.462 39.130 0.00 0.00 0.00 4.51
2141 2324 5.144100 TGAGTTGTCAATTTAACCACCCAT 58.856 37.500 0.00 0.00 0.00 4.00
2142 2325 6.307776 TGAGTTGTCAATTTAACCACCCATA 58.692 36.000 0.00 0.00 0.00 2.74
2143 2326 6.432783 TGAGTTGTCAATTTAACCACCCATAG 59.567 38.462 0.00 0.00 0.00 2.23
2144 2327 6.548321 AGTTGTCAATTTAACCACCCATAGA 58.452 36.000 0.00 0.00 0.00 1.98
2145 2328 6.659242 AGTTGTCAATTTAACCACCCATAGAG 59.341 38.462 0.00 0.00 0.00 2.43
2146 2329 6.381498 TGTCAATTTAACCACCCATAGAGA 57.619 37.500 0.00 0.00 0.00 3.10
2147 2330 6.785076 TGTCAATTTAACCACCCATAGAGAA 58.215 36.000 0.00 0.00 0.00 2.87
2148 2331 6.657541 TGTCAATTTAACCACCCATAGAGAAC 59.342 38.462 0.00 0.00 0.00 3.01
2149 2332 6.884836 GTCAATTTAACCACCCATAGAGAACT 59.115 38.462 0.00 0.00 0.00 3.01
2150 2333 8.044908 GTCAATTTAACCACCCATAGAGAACTA 58.955 37.037 0.00 0.00 0.00 2.24
2151 2334 8.607713 TCAATTTAACCACCCATAGAGAACTAA 58.392 33.333 0.00 0.00 32.04 2.24
2152 2335 9.238368 CAATTTAACCACCCATAGAGAACTAAA 57.762 33.333 0.00 0.00 32.04 1.85
2153 2336 9.990868 AATTTAACCACCCATAGAGAACTAAAT 57.009 29.630 0.00 0.00 32.04 1.40
2157 2340 8.568617 AACCACCCATAGAGAACTAAATATCT 57.431 34.615 0.00 0.00 32.04 1.98
2158 2341 7.967908 ACCACCCATAGAGAACTAAATATCTG 58.032 38.462 0.00 0.00 32.04 2.90
2159 2342 6.876257 CCACCCATAGAGAACTAAATATCTGC 59.124 42.308 0.00 0.00 32.04 4.26
2160 2343 7.445121 CACCCATAGAGAACTAAATATCTGCA 58.555 38.462 0.00 0.00 32.04 4.41
2161 2344 7.601886 CACCCATAGAGAACTAAATATCTGCAG 59.398 40.741 7.63 7.63 32.04 4.41
2162 2345 6.593382 CCCATAGAGAACTAAATATCTGCAGC 59.407 42.308 9.47 0.00 32.04 5.25
2163 2346 7.385267 CCATAGAGAACTAAATATCTGCAGCT 58.615 38.462 9.47 0.82 32.04 4.24
2164 2347 8.526978 CCATAGAGAACTAAATATCTGCAGCTA 58.473 37.037 9.47 3.80 32.04 3.32
2165 2348 9.920133 CATAGAGAACTAAATATCTGCAGCTAA 57.080 33.333 9.47 0.00 32.04 3.09
2167 2350 8.017418 AGAGAACTAAATATCTGCAGCTAAGT 57.983 34.615 9.47 1.56 0.00 2.24
2168 2351 7.925483 AGAGAACTAAATATCTGCAGCTAAGTG 59.075 37.037 9.47 0.00 0.00 3.16
2169 2352 7.560368 AGAACTAAATATCTGCAGCTAAGTGT 58.440 34.615 9.47 0.00 0.00 3.55
2170 2353 8.043710 AGAACTAAATATCTGCAGCTAAGTGTT 58.956 33.333 9.47 8.44 0.00 3.32
2171 2354 8.567285 AACTAAATATCTGCAGCTAAGTGTTT 57.433 30.769 9.47 4.13 0.00 2.83
2172 2355 9.667107 AACTAAATATCTGCAGCTAAGTGTTTA 57.333 29.630 9.47 5.07 0.00 2.01
2173 2356 9.319143 ACTAAATATCTGCAGCTAAGTGTTTAG 57.681 33.333 18.24 18.24 39.44 1.85
2174 2357 9.319143 CTAAATATCTGCAGCTAAGTGTTTAGT 57.681 33.333 9.47 0.00 38.81 2.24
2176 2359 8.879342 AATATCTGCAGCTAAGTGTTTAGTAG 57.121 34.615 9.47 0.00 38.81 2.57
2177 2360 4.495422 TCTGCAGCTAAGTGTTTAGTAGC 58.505 43.478 9.47 0.00 38.81 3.58
2178 2361 4.021456 TCTGCAGCTAAGTGTTTAGTAGCA 60.021 41.667 9.47 12.00 41.74 3.49
2179 2362 3.994392 TGCAGCTAAGTGTTTAGTAGCAC 59.006 43.478 4.86 0.00 40.48 4.40
2180 2363 3.994392 GCAGCTAAGTGTTTAGTAGCACA 59.006 43.478 4.86 0.00 38.81 4.57
2181 2364 4.092091 GCAGCTAAGTGTTTAGTAGCACAG 59.908 45.833 4.86 1.85 38.81 3.66
2182 2365 5.230942 CAGCTAAGTGTTTAGTAGCACAGT 58.769 41.667 4.86 0.00 38.81 3.55
2183 2366 6.387465 CAGCTAAGTGTTTAGTAGCACAGTA 58.613 40.000 4.86 2.16 38.81 2.74
2184 2367 6.528423 CAGCTAAGTGTTTAGTAGCACAGTAG 59.472 42.308 4.86 9.63 38.81 2.57
2185 2368 6.208994 AGCTAAGTGTTTAGTAGCACAGTAGT 59.791 38.462 4.86 0.00 38.81 2.73
2186 2369 7.392673 AGCTAAGTGTTTAGTAGCACAGTAGTA 59.607 37.037 4.86 0.00 38.81 1.82
2187 2370 8.189460 GCTAAGTGTTTAGTAGCACAGTAGTAT 58.811 37.037 8.86 0.00 38.81 2.12
2188 2371 9.504710 CTAAGTGTTTAGTAGCACAGTAGTATG 57.495 37.037 8.86 0.00 38.02 2.39
2189 2372 6.864342 AGTGTTTAGTAGCACAGTAGTATGG 58.136 40.000 8.86 0.00 38.02 2.74
2190 2373 6.436532 AGTGTTTAGTAGCACAGTAGTATGGT 59.563 38.462 8.86 0.00 38.02 3.55
2191 2374 7.613022 AGTGTTTAGTAGCACAGTAGTATGGTA 59.387 37.037 8.86 0.00 38.02 3.25
2192 2375 8.246180 GTGTTTAGTAGCACAGTAGTATGGTAA 58.754 37.037 0.00 0.00 35.81 2.85
2193 2376 8.246180 TGTTTAGTAGCACAGTAGTATGGTAAC 58.754 37.037 0.00 0.00 31.05 2.50
2219 2402 9.504710 CAATAGTAATAGTAGCAATAGTAGCGG 57.495 37.037 0.00 0.00 37.01 5.52
2220 2403 8.804912 ATAGTAATAGTAGCAATAGTAGCGGT 57.195 34.615 0.00 0.00 37.01 5.68
2221 2404 9.896645 ATAGTAATAGTAGCAATAGTAGCGGTA 57.103 33.333 0.00 0.00 37.01 4.02
2222 2405 8.627208 AGTAATAGTAGCAATAGTAGCGGTAA 57.373 34.615 0.00 0.00 37.01 2.85
2223 2406 8.510505 AGTAATAGTAGCAATAGTAGCGGTAAC 58.489 37.037 0.00 0.00 37.01 2.50
2224 2407 6.889301 ATAGTAGCAATAGTAGCGGTAACA 57.111 37.500 0.00 0.00 37.01 2.41
2225 2408 5.184340 AGTAGCAATAGTAGCGGTAACAG 57.816 43.478 0.00 0.00 37.01 3.16
2226 2409 4.643784 AGTAGCAATAGTAGCGGTAACAGT 59.356 41.667 0.00 0.00 37.01 3.55
2227 2410 5.824624 AGTAGCAATAGTAGCGGTAACAGTA 59.175 40.000 0.00 0.00 37.01 2.74
2228 2411 5.587388 AGCAATAGTAGCGGTAACAGTAA 57.413 39.130 0.00 0.00 37.01 2.24
2229 2412 5.346522 AGCAATAGTAGCGGTAACAGTAAC 58.653 41.667 0.00 0.00 37.01 2.50
2230 2413 5.104374 GCAATAGTAGCGGTAACAGTAACA 58.896 41.667 0.00 0.00 0.00 2.41
2231 2414 5.231568 GCAATAGTAGCGGTAACAGTAACAG 59.768 44.000 0.00 0.00 0.00 3.16
2232 2415 6.327934 CAATAGTAGCGGTAACAGTAACAGT 58.672 40.000 0.00 0.00 0.00 3.55
2233 2416 7.475015 CAATAGTAGCGGTAACAGTAACAGTA 58.525 38.462 0.00 0.00 0.00 2.74
2234 2417 5.557891 AGTAGCGGTAACAGTAACAGTAG 57.442 43.478 0.00 0.00 0.00 2.57
2235 2418 3.227810 AGCGGTAACAGTAACAGTAGC 57.772 47.619 0.00 0.00 0.00 3.58
2236 2419 2.559668 AGCGGTAACAGTAACAGTAGCA 59.440 45.455 0.00 0.00 0.00 3.49
2237 2420 3.006110 AGCGGTAACAGTAACAGTAGCAA 59.994 43.478 0.00 0.00 0.00 3.91
2238 2421 3.930848 GCGGTAACAGTAACAGTAGCAAT 59.069 43.478 0.00 0.00 0.00 3.56
2239 2422 4.390909 GCGGTAACAGTAACAGTAGCAATT 59.609 41.667 0.00 0.00 0.00 2.32
2240 2423 5.106830 GCGGTAACAGTAACAGTAGCAATTT 60.107 40.000 0.00 0.00 0.00 1.82
2241 2424 6.567132 GCGGTAACAGTAACAGTAGCAATTTT 60.567 38.462 0.00 0.00 0.00 1.82
2242 2425 6.795114 CGGTAACAGTAACAGTAGCAATTTTG 59.205 38.462 0.00 0.00 0.00 2.44
2243 2426 7.519328 CGGTAACAGTAACAGTAGCAATTTTGT 60.519 37.037 0.00 0.00 0.00 2.83
2244 2427 8.776470 GGTAACAGTAACAGTAGCAATTTTGTA 58.224 33.333 0.00 0.00 0.00 2.41
2245 2428 9.807386 GTAACAGTAACAGTAGCAATTTTGTAG 57.193 33.333 0.00 0.00 0.00 2.74
2246 2429 8.446599 AACAGTAACAGTAGCAATTTTGTAGT 57.553 30.769 0.00 0.00 0.00 2.73
2247 2430 7.861630 ACAGTAACAGTAGCAATTTTGTAGTG 58.138 34.615 0.00 0.85 0.00 2.74
2248 2431 7.713507 ACAGTAACAGTAGCAATTTTGTAGTGA 59.286 33.333 11.36 0.00 0.00 3.41
2249 2432 8.721478 CAGTAACAGTAGCAATTTTGTAGTGAT 58.279 33.333 11.36 5.81 0.00 3.06
2250 2433 9.284968 AGTAACAGTAGCAATTTTGTAGTGATT 57.715 29.630 11.36 7.21 0.00 2.57
2251 2434 9.329913 GTAACAGTAGCAATTTTGTAGTGATTG 57.670 33.333 11.36 0.00 34.67 2.67
2252 2435 7.510549 ACAGTAGCAATTTTGTAGTGATTGT 57.489 32.000 11.36 0.00 34.19 2.71
2253 2436 8.615878 ACAGTAGCAATTTTGTAGTGATTGTA 57.384 30.769 11.36 0.00 34.19 2.41
2254 2437 9.062524 ACAGTAGCAATTTTGTAGTGATTGTAA 57.937 29.630 11.36 0.00 34.19 2.41
2255 2438 9.329913 CAGTAGCAATTTTGTAGTGATTGTAAC 57.670 33.333 0.00 0.00 34.19 2.50
2256 2439 9.062524 AGTAGCAATTTTGTAGTGATTGTAACA 57.937 29.630 0.00 0.00 34.19 2.41
2257 2440 9.672086 GTAGCAATTTTGTAGTGATTGTAACAA 57.328 29.630 0.00 0.00 34.19 2.83
2258 2441 8.574196 AGCAATTTTGTAGTGATTGTAACAAC 57.426 30.769 0.00 0.00 34.19 3.32
2259 2442 8.194104 AGCAATTTTGTAGTGATTGTAACAACA 58.806 29.630 0.00 0.00 34.19 3.33
2260 2443 8.479280 GCAATTTTGTAGTGATTGTAACAACAG 58.521 33.333 0.00 0.00 34.19 3.16
2261 2444 8.479280 CAATTTTGTAGTGATTGTAACAACAGC 58.521 33.333 0.00 0.00 31.92 4.40
2262 2445 6.685527 TTTGTAGTGATTGTAACAACAGCA 57.314 33.333 0.00 0.00 31.92 4.41
2263 2446 6.685527 TTGTAGTGATTGTAACAACAGCAA 57.314 33.333 0.00 0.00 0.00 3.91
2264 2447 6.055231 TGTAGTGATTGTAACAACAGCAAC 57.945 37.500 0.00 0.00 0.00 4.17
2265 2448 5.586643 TGTAGTGATTGTAACAACAGCAACA 59.413 36.000 0.00 0.00 0.00 3.33
2266 2449 5.574891 AGTGATTGTAACAACAGCAACAA 57.425 34.783 0.00 0.00 36.37 2.83
2267 2450 5.339990 AGTGATTGTAACAACAGCAACAAC 58.660 37.500 0.00 0.00 34.89 3.32
2268 2451 4.204168 GTGATTGTAACAACAGCAACAACG 59.796 41.667 0.00 0.00 34.89 4.10
2269 2452 4.095036 TGATTGTAACAACAGCAACAACGA 59.905 37.500 0.00 0.00 34.89 3.85
2270 2453 3.666883 TGTAACAACAGCAACAACGAG 57.333 42.857 0.00 0.00 0.00 4.18
2271 2454 3.263261 TGTAACAACAGCAACAACGAGA 58.737 40.909 0.00 0.00 0.00 4.04
2272 2455 3.308595 TGTAACAACAGCAACAACGAGAG 59.691 43.478 0.00 0.00 0.00 3.20
2322 2505 4.558538 AAGCTTAGGCATTGAATTAGCG 57.441 40.909 0.00 0.00 41.70 4.26
2323 2506 3.808728 AGCTTAGGCATTGAATTAGCGA 58.191 40.909 0.00 0.00 41.70 4.93
2324 2507 4.392940 AGCTTAGGCATTGAATTAGCGAT 58.607 39.130 0.00 0.00 41.70 4.58
2325 2508 4.214971 AGCTTAGGCATTGAATTAGCGATG 59.785 41.667 0.00 0.00 41.70 3.84
2326 2509 4.214119 GCTTAGGCATTGAATTAGCGATGA 59.786 41.667 0.00 0.00 38.54 2.92
2327 2510 5.277974 GCTTAGGCATTGAATTAGCGATGAA 60.278 40.000 0.00 0.00 38.54 2.57
2328 2511 6.569226 GCTTAGGCATTGAATTAGCGATGAAT 60.569 38.462 0.00 0.00 38.54 2.57
2329 2512 7.361201 GCTTAGGCATTGAATTAGCGATGAATA 60.361 37.037 0.00 0.00 38.54 1.75
2330 2513 6.246420 AGGCATTGAATTAGCGATGAATAC 57.754 37.500 0.00 0.00 32.45 1.89
2331 2514 6.000219 AGGCATTGAATTAGCGATGAATACT 59.000 36.000 0.00 0.00 32.45 2.12
2332 2515 6.488006 AGGCATTGAATTAGCGATGAATACTT 59.512 34.615 0.00 0.00 32.45 2.24
2333 2516 6.580041 GGCATTGAATTAGCGATGAATACTTG 59.420 38.462 0.00 0.00 32.45 3.16
2334 2517 7.134815 GCATTGAATTAGCGATGAATACTTGT 58.865 34.615 0.00 0.00 32.45 3.16
2335 2518 7.112565 GCATTGAATTAGCGATGAATACTTGTG 59.887 37.037 0.00 0.00 32.45 3.33
2336 2519 7.609760 TTGAATTAGCGATGAATACTTGTGT 57.390 32.000 0.00 0.00 0.00 3.72
2337 2520 7.609760 TGAATTAGCGATGAATACTTGTGTT 57.390 32.000 0.00 0.00 0.00 3.32
2338 2521 7.463544 TGAATTAGCGATGAATACTTGTGTTG 58.536 34.615 0.00 0.00 0.00 3.33
2339 2522 5.794687 TTAGCGATGAATACTTGTGTTGG 57.205 39.130 0.00 0.00 0.00 3.77
2340 2523 3.009723 AGCGATGAATACTTGTGTTGGG 58.990 45.455 0.00 0.00 0.00 4.12
2341 2524 2.747446 GCGATGAATACTTGTGTTGGGT 59.253 45.455 0.00 0.00 0.00 4.51
2342 2525 3.426159 GCGATGAATACTTGTGTTGGGTG 60.426 47.826 0.00 0.00 0.00 4.61
2343 2526 4.000325 CGATGAATACTTGTGTTGGGTGA 59.000 43.478 0.00 0.00 0.00 4.02
2344 2527 4.142902 CGATGAATACTTGTGTTGGGTGAC 60.143 45.833 0.00 0.00 0.00 3.67
2345 2528 4.157849 TGAATACTTGTGTTGGGTGACA 57.842 40.909 0.00 0.00 0.00 3.58
2346 2529 4.724399 TGAATACTTGTGTTGGGTGACAT 58.276 39.130 0.00 0.00 0.00 3.06
2347 2530 5.136828 TGAATACTTGTGTTGGGTGACATT 58.863 37.500 0.00 0.00 0.00 2.71
2348 2531 5.240623 TGAATACTTGTGTTGGGTGACATTC 59.759 40.000 0.00 0.00 0.00 2.67
2349 2532 3.011566 ACTTGTGTTGGGTGACATTCA 57.988 42.857 0.00 0.00 0.00 2.57
2350 2533 3.565307 ACTTGTGTTGGGTGACATTCAT 58.435 40.909 0.00 0.00 0.00 2.57
2351 2534 3.569701 ACTTGTGTTGGGTGACATTCATC 59.430 43.478 0.00 0.00 0.00 2.92
2352 2535 3.220674 TGTGTTGGGTGACATTCATCA 57.779 42.857 0.00 0.00 0.00 3.07
2353 2536 3.765381 TGTGTTGGGTGACATTCATCAT 58.235 40.909 0.00 0.00 0.00 2.45
2354 2537 4.916183 TGTGTTGGGTGACATTCATCATA 58.084 39.130 0.00 0.00 0.00 2.15
2355 2538 5.508567 TGTGTTGGGTGACATTCATCATAT 58.491 37.500 0.00 0.00 0.00 1.78
2356 2539 6.657875 TGTGTTGGGTGACATTCATCATATA 58.342 36.000 0.00 0.00 0.00 0.86
2357 2540 7.115414 TGTGTTGGGTGACATTCATCATATAA 58.885 34.615 0.00 0.00 0.00 0.98
2358 2541 7.066887 TGTGTTGGGTGACATTCATCATATAAC 59.933 37.037 0.00 0.00 0.00 1.89
2359 2542 7.066887 GTGTTGGGTGACATTCATCATATAACA 59.933 37.037 0.00 0.00 31.12 2.41
2360 2543 7.282901 TGTTGGGTGACATTCATCATATAACAG 59.717 37.037 0.00 0.00 30.61 3.16
2361 2544 6.899089 TGGGTGACATTCATCATATAACAGT 58.101 36.000 0.00 0.00 0.00 3.55
2362 2545 6.992123 TGGGTGACATTCATCATATAACAGTC 59.008 38.462 0.00 0.00 0.00 3.51
2363 2546 6.992123 GGGTGACATTCATCATATAACAGTCA 59.008 38.462 0.00 0.00 0.00 3.41
2364 2547 7.663081 GGGTGACATTCATCATATAACAGTCAT 59.337 37.037 0.00 0.00 36.12 3.06
2365 2548 9.710900 GGTGACATTCATCATATAACAGTCATA 57.289 33.333 0.00 0.00 36.12 2.15
2375 2558 8.651589 TCATATAACAGTCATAACCTAGAGGG 57.348 38.462 0.00 0.00 40.27 4.30
2376 2559 8.453681 TCATATAACAGTCATAACCTAGAGGGA 58.546 37.037 0.00 0.00 40.27 4.20
2377 2560 9.261035 CATATAACAGTCATAACCTAGAGGGAT 57.739 37.037 0.00 0.00 40.27 3.85
2379 2562 6.980416 AACAGTCATAACCTAGAGGGATAC 57.020 41.667 0.00 0.00 40.27 2.24
2380 2563 6.027025 ACAGTCATAACCTAGAGGGATACA 57.973 41.667 0.00 0.00 40.27 2.29
2381 2564 6.071984 ACAGTCATAACCTAGAGGGATACAG 58.928 44.000 0.00 0.00 40.27 2.74
2382 2565 6.126156 ACAGTCATAACCTAGAGGGATACAGA 60.126 42.308 0.00 0.00 40.27 3.41
2383 2566 6.778069 CAGTCATAACCTAGAGGGATACAGAA 59.222 42.308 0.00 0.00 40.27 3.02
2384 2567 7.453126 CAGTCATAACCTAGAGGGATACAGAAT 59.547 40.741 0.00 0.00 40.27 2.40
2385 2568 8.679725 AGTCATAACCTAGAGGGATACAGAATA 58.320 37.037 0.00 0.00 40.27 1.75
2386 2569 9.310449 GTCATAACCTAGAGGGATACAGAATAA 57.690 37.037 0.00 0.00 40.27 1.40
2387 2570 9.310449 TCATAACCTAGAGGGATACAGAATAAC 57.690 37.037 0.00 0.00 40.27 1.89
2388 2571 9.315363 CATAACCTAGAGGGATACAGAATAACT 57.685 37.037 0.00 0.00 40.27 2.24
2389 2572 7.842887 AACCTAGAGGGATACAGAATAACTC 57.157 40.000 0.00 0.00 40.27 3.01
2390 2573 6.316513 ACCTAGAGGGATACAGAATAACTCC 58.683 44.000 0.00 0.00 40.27 3.85
2391 2574 6.125860 ACCTAGAGGGATACAGAATAACTCCA 60.126 42.308 0.00 0.00 40.27 3.86
2392 2575 6.782988 CCTAGAGGGATACAGAATAACTCCAA 59.217 42.308 0.00 0.00 37.23 3.53
2393 2576 7.456269 CCTAGAGGGATACAGAATAACTCCAAT 59.544 40.741 0.00 0.00 37.23 3.16
2394 2577 7.698163 AGAGGGATACAGAATAACTCCAATT 57.302 36.000 0.00 0.00 39.74 2.32
2395 2578 7.740805 AGAGGGATACAGAATAACTCCAATTC 58.259 38.462 0.00 0.00 39.74 2.17
2396 2579 7.348274 AGAGGGATACAGAATAACTCCAATTCA 59.652 37.037 0.00 0.00 36.09 2.57
2397 2580 8.050316 AGGGATACAGAATAACTCCAATTCAT 57.950 34.615 0.00 0.00 36.09 2.57
2398 2581 8.160106 AGGGATACAGAATAACTCCAATTCATC 58.840 37.037 0.00 0.00 36.09 2.92
2399 2582 7.939039 GGGATACAGAATAACTCCAATTCATCA 59.061 37.037 0.00 0.00 36.09 3.07
2400 2583 9.342308 GGATACAGAATAACTCCAATTCATCAA 57.658 33.333 0.00 0.00 36.09 2.57
2412 2595 9.236006 ACTCCAATTCATCAATATAATGTAGGC 57.764 33.333 0.00 0.00 0.00 3.93
2413 2596 9.234827 CTCCAATTCATCAATATAATGTAGGCA 57.765 33.333 0.00 0.00 0.00 4.75
2414 2597 9.758021 TCCAATTCATCAATATAATGTAGGCAT 57.242 29.630 0.00 0.00 36.80 4.40
2415 2598 9.797556 CCAATTCATCAATATAATGTAGGCATG 57.202 33.333 0.00 0.00 35.15 4.06
2439 2622 8.628882 TGTATTGCATATATAGTCATACGTGC 57.371 34.615 0.00 0.00 33.83 5.34
2440 2623 8.466798 TGTATTGCATATATAGTCATACGTGCT 58.533 33.333 0.00 0.00 34.12 4.40
2441 2624 9.302345 GTATTGCATATATAGTCATACGTGCTT 57.698 33.333 0.00 0.00 34.12 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
33 34 2.831685 TCATCAACGTGGTAAGCAGT 57.168 45.000 0.00 0.00 0.00 4.40
265 266 9.226606 TCCGAAGTTACATACAATTGATTTCTT 57.773 29.630 13.59 6.99 0.00 2.52
335 336 2.668212 ATCAACGTGCGGGGTGTG 60.668 61.111 0.00 0.00 0.00 3.82
676 679 8.964476 AACTAAGTTCACCAAGGATGTATATG 57.036 34.615 0.00 0.00 0.00 1.78
977 981 1.460504 TGCTCATCGAAGTCGGTAGT 58.539 50.000 0.11 0.00 40.29 2.73
1372 1384 6.869695 TCGTCTTCAACATAAATGCTACCTA 58.130 36.000 0.00 0.00 0.00 3.08
1596 1694 8.829612 CAATGCTATTATGTGTTCACAGTATGA 58.170 33.333 11.24 0.00 39.69 2.15
1657 1755 1.117994 CTGCCTCTCTCTACCATGCA 58.882 55.000 0.00 0.00 0.00 3.96
1664 1762 2.139382 TCCCATCTCTGCCTCTCTCTA 58.861 52.381 0.00 0.00 0.00 2.43
2054 2191 6.419484 TGCTACGGGCTATAATGCATATAT 57.581 37.500 0.00 3.28 42.39 0.86
2055 2192 5.862678 TGCTACGGGCTATAATGCATATA 57.137 39.130 0.00 0.00 42.39 0.86
2056 2193 4.753516 TGCTACGGGCTATAATGCATAT 57.246 40.909 0.00 0.00 42.39 1.78
2057 2194 4.250464 GTTGCTACGGGCTATAATGCATA 58.750 43.478 0.00 0.00 42.39 3.14
2109 2292 8.082242 GGTTAAATTGACAACTCAACTGCTAAT 58.918 33.333 0.00 0.00 39.28 1.73
2110 2293 7.067615 TGGTTAAATTGACAACTCAACTGCTAA 59.932 33.333 0.00 0.00 39.28 3.09
2112 2295 5.359576 TGGTTAAATTGACAACTCAACTGCT 59.640 36.000 0.00 0.00 39.28 4.24
2113 2296 5.458779 GTGGTTAAATTGACAACTCAACTGC 59.541 40.000 0.00 0.00 39.28 4.40
2114 2297 5.977129 GGTGGTTAAATTGACAACTCAACTG 59.023 40.000 0.00 0.00 39.28 3.16
2115 2298 5.068591 GGGTGGTTAAATTGACAACTCAACT 59.931 40.000 0.00 0.00 39.28 3.16
2116 2299 5.163499 TGGGTGGTTAAATTGACAACTCAAC 60.163 40.000 0.00 0.00 39.28 3.18
2117 2300 4.956700 TGGGTGGTTAAATTGACAACTCAA 59.043 37.500 0.00 0.00 40.77 3.02
2118 2301 4.537751 TGGGTGGTTAAATTGACAACTCA 58.462 39.130 0.00 0.00 28.99 3.41
2119 2302 5.722021 ATGGGTGGTTAAATTGACAACTC 57.278 39.130 0.00 0.00 0.00 3.01
2120 2303 6.548321 TCTATGGGTGGTTAAATTGACAACT 58.452 36.000 0.00 0.00 0.00 3.16
2121 2304 6.657541 TCTCTATGGGTGGTTAAATTGACAAC 59.342 38.462 0.00 0.00 0.00 3.32
2122 2305 6.785076 TCTCTATGGGTGGTTAAATTGACAA 58.215 36.000 0.00 0.00 0.00 3.18
2123 2306 6.381498 TCTCTATGGGTGGTTAAATTGACA 57.619 37.500 0.00 0.00 0.00 3.58
2124 2307 6.884836 AGTTCTCTATGGGTGGTTAAATTGAC 59.115 38.462 0.00 0.00 0.00 3.18
2125 2308 7.027874 AGTTCTCTATGGGTGGTTAAATTGA 57.972 36.000 0.00 0.00 0.00 2.57
2126 2309 8.801882 TTAGTTCTCTATGGGTGGTTAAATTG 57.198 34.615 0.00 0.00 0.00 2.32
2127 2310 9.990868 ATTTAGTTCTCTATGGGTGGTTAAATT 57.009 29.630 0.00 0.00 0.00 1.82
2131 2314 9.670442 AGATATTTAGTTCTCTATGGGTGGTTA 57.330 33.333 0.00 0.00 0.00 2.85
2132 2315 8.432805 CAGATATTTAGTTCTCTATGGGTGGTT 58.567 37.037 0.00 0.00 0.00 3.67
2133 2316 7.473511 GCAGATATTTAGTTCTCTATGGGTGGT 60.474 40.741 0.00 0.00 0.00 4.16
2134 2317 6.876257 GCAGATATTTAGTTCTCTATGGGTGG 59.124 42.308 0.00 0.00 0.00 4.61
2135 2318 7.445121 TGCAGATATTTAGTTCTCTATGGGTG 58.555 38.462 0.00 0.00 0.00 4.61
2136 2319 7.618019 TGCAGATATTTAGTTCTCTATGGGT 57.382 36.000 0.00 0.00 0.00 4.51
2137 2320 6.593382 GCTGCAGATATTTAGTTCTCTATGGG 59.407 42.308 20.43 0.00 0.00 4.00
2138 2321 7.385267 AGCTGCAGATATTTAGTTCTCTATGG 58.615 38.462 20.43 0.00 0.00 2.74
2139 2322 9.920133 TTAGCTGCAGATATTTAGTTCTCTATG 57.080 33.333 20.43 0.00 0.00 2.23
2141 2324 9.137459 ACTTAGCTGCAGATATTTAGTTCTCTA 57.863 33.333 20.43 1.12 0.00 2.43
2142 2325 7.925483 CACTTAGCTGCAGATATTTAGTTCTCT 59.075 37.037 20.43 2.18 0.00 3.10
2143 2326 7.708752 ACACTTAGCTGCAGATATTTAGTTCTC 59.291 37.037 20.43 0.00 0.00 2.87
2144 2327 7.560368 ACACTTAGCTGCAGATATTTAGTTCT 58.440 34.615 20.43 2.97 0.00 3.01
2145 2328 7.778470 ACACTTAGCTGCAGATATTTAGTTC 57.222 36.000 20.43 0.00 0.00 3.01
2146 2329 8.567285 AAACACTTAGCTGCAGATATTTAGTT 57.433 30.769 20.43 14.58 0.00 2.24
2147 2330 9.319143 CTAAACACTTAGCTGCAGATATTTAGT 57.681 33.333 22.83 17.08 0.00 2.24
2148 2331 9.319143 ACTAAACACTTAGCTGCAGATATTTAG 57.681 33.333 26.28 26.28 38.52 1.85
2150 2333 9.319143 CTACTAAACACTTAGCTGCAGATATTT 57.681 33.333 20.43 14.98 38.52 1.40
2151 2334 7.439655 GCTACTAAACACTTAGCTGCAGATATT 59.560 37.037 20.43 8.98 38.52 1.28
2152 2335 6.926272 GCTACTAAACACTTAGCTGCAGATAT 59.074 38.462 20.43 4.69 38.52 1.63
2153 2336 6.127451 TGCTACTAAACACTTAGCTGCAGATA 60.127 38.462 20.43 14.08 39.56 1.98
2154 2337 5.112686 GCTACTAAACACTTAGCTGCAGAT 58.887 41.667 20.43 15.46 38.52 2.90
2155 2338 4.021456 TGCTACTAAACACTTAGCTGCAGA 60.021 41.667 20.43 0.00 39.56 4.26
2156 2339 4.092091 GTGCTACTAAACACTTAGCTGCAG 59.908 45.833 10.11 10.11 42.30 4.41
2157 2340 3.994392 GTGCTACTAAACACTTAGCTGCA 59.006 43.478 1.02 7.74 40.87 4.41
2158 2341 3.994392 TGTGCTACTAAACACTTAGCTGC 59.006 43.478 0.00 0.00 38.52 5.25
2159 2342 5.230942 ACTGTGCTACTAAACACTTAGCTG 58.769 41.667 0.00 0.00 38.52 4.24
2160 2343 5.470047 ACTGTGCTACTAAACACTTAGCT 57.530 39.130 0.00 0.00 38.52 3.32
2161 2344 6.388278 ACTACTGTGCTACTAAACACTTAGC 58.612 40.000 0.00 0.00 38.52 3.09
2162 2345 9.504710 CATACTACTGTGCTACTAAACACTTAG 57.495 37.037 0.00 0.00 40.46 2.18
2163 2346 8.464404 CCATACTACTGTGCTACTAAACACTTA 58.536 37.037 0.00 0.00 37.68 2.24
2164 2347 7.039223 ACCATACTACTGTGCTACTAAACACTT 60.039 37.037 0.00 0.00 37.68 3.16
2165 2348 6.436532 ACCATACTACTGTGCTACTAAACACT 59.563 38.462 0.00 0.00 37.68 3.55
2166 2349 6.628185 ACCATACTACTGTGCTACTAAACAC 58.372 40.000 0.00 0.00 37.31 3.32
2167 2350 6.845758 ACCATACTACTGTGCTACTAAACA 57.154 37.500 0.00 0.00 0.00 2.83
2168 2351 8.246180 TGTTACCATACTACTGTGCTACTAAAC 58.754 37.037 0.00 0.00 0.00 2.01
2169 2352 8.352137 TGTTACCATACTACTGTGCTACTAAA 57.648 34.615 0.00 0.00 0.00 1.85
2170 2353 7.943079 TGTTACCATACTACTGTGCTACTAA 57.057 36.000 0.00 0.00 0.00 2.24
2171 2354 7.943079 TTGTTACCATACTACTGTGCTACTA 57.057 36.000 0.00 0.00 0.00 1.82
2172 2355 6.845758 TTGTTACCATACTACTGTGCTACT 57.154 37.500 0.00 0.00 0.00 2.57
2173 2356 8.411683 ACTATTGTTACCATACTACTGTGCTAC 58.588 37.037 0.00 0.00 0.00 3.58
2174 2357 8.529424 ACTATTGTTACCATACTACTGTGCTA 57.471 34.615 0.00 0.00 0.00 3.49
2175 2358 7.419711 ACTATTGTTACCATACTACTGTGCT 57.580 36.000 0.00 0.00 0.00 4.40
2176 2359 9.760077 ATTACTATTGTTACCATACTACTGTGC 57.240 33.333 0.00 0.00 0.00 4.57
2193 2376 9.504710 CCGCTACTATTGCTACTATTACTATTG 57.495 37.037 0.00 0.00 0.00 1.90
2194 2377 9.240734 ACCGCTACTATTGCTACTATTACTATT 57.759 33.333 0.00 0.00 0.00 1.73
2195 2378 8.804912 ACCGCTACTATTGCTACTATTACTAT 57.195 34.615 0.00 0.00 0.00 2.12
2196 2379 9.725019 TTACCGCTACTATTGCTACTATTACTA 57.275 33.333 0.00 0.00 0.00 1.82
2197 2380 8.510505 GTTACCGCTACTATTGCTACTATTACT 58.489 37.037 0.00 0.00 0.00 2.24
2198 2381 8.292448 TGTTACCGCTACTATTGCTACTATTAC 58.708 37.037 0.00 0.00 0.00 1.89
2199 2382 8.394971 TGTTACCGCTACTATTGCTACTATTA 57.605 34.615 0.00 0.00 0.00 0.98
2200 2383 7.014038 ACTGTTACCGCTACTATTGCTACTATT 59.986 37.037 0.00 0.00 0.00 1.73
2201 2384 6.489361 ACTGTTACCGCTACTATTGCTACTAT 59.511 38.462 0.00 0.00 0.00 2.12
2202 2385 5.824624 ACTGTTACCGCTACTATTGCTACTA 59.175 40.000 0.00 0.00 0.00 1.82
2203 2386 4.643784 ACTGTTACCGCTACTATTGCTACT 59.356 41.667 0.00 0.00 0.00 2.57
2204 2387 4.929781 ACTGTTACCGCTACTATTGCTAC 58.070 43.478 0.00 0.00 0.00 3.58
2205 2388 6.095300 TGTTACTGTTACCGCTACTATTGCTA 59.905 38.462 0.00 0.00 0.00 3.49
2206 2389 5.105635 TGTTACTGTTACCGCTACTATTGCT 60.106 40.000 0.00 0.00 0.00 3.91
2207 2390 5.104374 TGTTACTGTTACCGCTACTATTGC 58.896 41.667 0.00 0.00 0.00 3.56
2208 2391 6.327934 ACTGTTACTGTTACCGCTACTATTG 58.672 40.000 0.00 0.00 0.00 1.90
2209 2392 6.521151 ACTGTTACTGTTACCGCTACTATT 57.479 37.500 0.00 0.00 0.00 1.73
2210 2393 6.238593 GCTACTGTTACTGTTACCGCTACTAT 60.239 42.308 0.00 0.00 0.00 2.12
2211 2394 5.065218 GCTACTGTTACTGTTACCGCTACTA 59.935 44.000 0.00 0.00 0.00 1.82
2212 2395 4.142513 GCTACTGTTACTGTTACCGCTACT 60.143 45.833 0.00 0.00 0.00 2.57
2213 2396 4.101235 GCTACTGTTACTGTTACCGCTAC 58.899 47.826 0.00 0.00 0.00 3.58
2214 2397 3.758023 TGCTACTGTTACTGTTACCGCTA 59.242 43.478 0.00 0.00 0.00 4.26
2215 2398 2.559668 TGCTACTGTTACTGTTACCGCT 59.440 45.455 0.00 0.00 0.00 5.52
2216 2399 2.950433 TGCTACTGTTACTGTTACCGC 58.050 47.619 0.00 0.57 0.00 5.68
2217 2400 6.476243 AAATTGCTACTGTTACTGTTACCG 57.524 37.500 0.00 0.00 0.00 4.02
2218 2401 7.645402 ACAAAATTGCTACTGTTACTGTTACC 58.355 34.615 0.00 0.00 0.00 2.85
2219 2402 9.807386 CTACAAAATTGCTACTGTTACTGTTAC 57.193 33.333 0.00 0.00 0.00 2.50
2220 2403 9.550406 ACTACAAAATTGCTACTGTTACTGTTA 57.450 29.630 0.00 0.00 0.00 2.41
2221 2404 8.342634 CACTACAAAATTGCTACTGTTACTGTT 58.657 33.333 0.00 0.00 0.00 3.16
2222 2405 7.713507 TCACTACAAAATTGCTACTGTTACTGT 59.286 33.333 0.00 0.00 0.00 3.55
2223 2406 8.083462 TCACTACAAAATTGCTACTGTTACTG 57.917 34.615 0.00 0.00 0.00 2.74
2224 2407 8.848474 ATCACTACAAAATTGCTACTGTTACT 57.152 30.769 0.00 0.00 0.00 2.24
2225 2408 9.329913 CAATCACTACAAAATTGCTACTGTTAC 57.670 33.333 0.00 0.00 0.00 2.50
2226 2409 9.062524 ACAATCACTACAAAATTGCTACTGTTA 57.937 29.630 0.00 0.00 34.47 2.41
2227 2410 7.940850 ACAATCACTACAAAATTGCTACTGTT 58.059 30.769 0.00 0.00 34.47 3.16
2228 2411 7.510549 ACAATCACTACAAAATTGCTACTGT 57.489 32.000 0.00 0.00 34.47 3.55
2229 2412 9.329913 GTTACAATCACTACAAAATTGCTACTG 57.670 33.333 0.00 0.00 34.47 2.74
2230 2413 9.062524 TGTTACAATCACTACAAAATTGCTACT 57.937 29.630 0.00 0.00 34.47 2.57
2231 2414 9.672086 TTGTTACAATCACTACAAAATTGCTAC 57.328 29.630 0.00 0.00 34.47 3.58
2232 2415 9.672086 GTTGTTACAATCACTACAAAATTGCTA 57.328 29.630 0.00 0.00 34.47 3.49
2233 2416 8.194104 TGTTGTTACAATCACTACAAAATTGCT 58.806 29.630 0.00 0.00 34.47 3.91
2234 2417 8.346476 TGTTGTTACAATCACTACAAAATTGC 57.654 30.769 0.00 0.00 34.47 3.56
2235 2418 8.479280 GCTGTTGTTACAATCACTACAAAATTG 58.521 33.333 0.00 0.00 36.64 2.32
2236 2419 8.194104 TGCTGTTGTTACAATCACTACAAAATT 58.806 29.630 0.00 0.00 32.84 1.82
2237 2420 7.711846 TGCTGTTGTTACAATCACTACAAAAT 58.288 30.769 0.00 0.00 32.84 1.82
2238 2421 7.089770 TGCTGTTGTTACAATCACTACAAAA 57.910 32.000 0.00 0.00 32.84 2.44
2239 2422 6.685527 TGCTGTTGTTACAATCACTACAAA 57.314 33.333 0.00 0.00 32.84 2.83
2240 2423 6.094186 TGTTGCTGTTGTTACAATCACTACAA 59.906 34.615 0.00 0.00 32.92 2.41
2241 2424 5.586643 TGTTGCTGTTGTTACAATCACTACA 59.413 36.000 0.00 4.56 32.92 2.74
2242 2425 6.055231 TGTTGCTGTTGTTACAATCACTAC 57.945 37.500 0.00 2.14 32.92 2.73
2243 2426 6.491394 GTTGTTGCTGTTGTTACAATCACTA 58.509 36.000 0.00 0.00 33.57 2.74
2244 2427 5.339990 GTTGTTGCTGTTGTTACAATCACT 58.660 37.500 0.00 0.00 33.57 3.41
2245 2428 4.204168 CGTTGTTGCTGTTGTTACAATCAC 59.796 41.667 0.00 0.00 33.57 3.06
2246 2429 4.095036 TCGTTGTTGCTGTTGTTACAATCA 59.905 37.500 0.00 1.01 33.57 2.57
2247 2430 4.593157 TCGTTGTTGCTGTTGTTACAATC 58.407 39.130 0.00 0.00 33.57 2.67
2248 2431 4.334203 TCTCGTTGTTGCTGTTGTTACAAT 59.666 37.500 0.00 0.00 33.57 2.71
2249 2432 3.685272 TCTCGTTGTTGCTGTTGTTACAA 59.315 39.130 0.00 0.00 32.92 2.41
2250 2433 3.263261 TCTCGTTGTTGCTGTTGTTACA 58.737 40.909 0.00 0.00 0.00 2.41
2251 2434 3.308866 ACTCTCGTTGTTGCTGTTGTTAC 59.691 43.478 0.00 0.00 0.00 2.50
2252 2435 3.527533 ACTCTCGTTGTTGCTGTTGTTA 58.472 40.909 0.00 0.00 0.00 2.41
2253 2436 2.356135 ACTCTCGTTGTTGCTGTTGTT 58.644 42.857 0.00 0.00 0.00 2.83
2254 2437 2.024176 ACTCTCGTTGTTGCTGTTGT 57.976 45.000 0.00 0.00 0.00 3.32
2255 2438 3.555956 AGTTACTCTCGTTGTTGCTGTTG 59.444 43.478 0.00 0.00 0.00 3.33
2256 2439 3.793559 AGTTACTCTCGTTGTTGCTGTT 58.206 40.909 0.00 0.00 0.00 3.16
2257 2440 3.454371 AGTTACTCTCGTTGTTGCTGT 57.546 42.857 0.00 0.00 0.00 4.40
2258 2441 5.233476 TGTTAAGTTACTCTCGTTGTTGCTG 59.767 40.000 0.00 0.00 0.00 4.41
2259 2442 5.353938 TGTTAAGTTACTCTCGTTGTTGCT 58.646 37.500 0.00 0.00 0.00 3.91
2260 2443 5.646467 TGTTAAGTTACTCTCGTTGTTGC 57.354 39.130 0.00 0.00 0.00 4.17
2261 2444 8.883789 TTTTTGTTAAGTTACTCTCGTTGTTG 57.116 30.769 0.00 0.00 0.00 3.33
2298 2481 5.807011 CGCTAATTCAATGCCTAAGCTTTTT 59.193 36.000 3.20 0.00 40.80 1.94
2299 2482 5.125417 TCGCTAATTCAATGCCTAAGCTTTT 59.875 36.000 3.20 0.00 40.80 2.27
2300 2483 4.640201 TCGCTAATTCAATGCCTAAGCTTT 59.360 37.500 3.20 0.00 40.80 3.51
2301 2484 4.199310 TCGCTAATTCAATGCCTAAGCTT 58.801 39.130 3.48 3.48 40.80 3.74
2302 2485 3.808728 TCGCTAATTCAATGCCTAAGCT 58.191 40.909 0.00 0.00 40.80 3.74
2303 2486 4.214119 TCATCGCTAATTCAATGCCTAAGC 59.786 41.667 0.00 0.00 40.48 3.09
2304 2487 5.929697 TCATCGCTAATTCAATGCCTAAG 57.070 39.130 0.00 0.00 0.00 2.18
2305 2488 6.882610 ATTCATCGCTAATTCAATGCCTAA 57.117 33.333 0.00 0.00 0.00 2.69
2306 2489 7.161404 AGTATTCATCGCTAATTCAATGCCTA 58.839 34.615 0.00 0.00 0.00 3.93
2307 2490 6.000219 AGTATTCATCGCTAATTCAATGCCT 59.000 36.000 0.00 0.00 0.00 4.75
2308 2491 6.246420 AGTATTCATCGCTAATTCAATGCC 57.754 37.500 0.00 0.00 0.00 4.40
2309 2492 7.112565 CACAAGTATTCATCGCTAATTCAATGC 59.887 37.037 0.00 0.00 0.00 3.56
2310 2493 8.124823 ACACAAGTATTCATCGCTAATTCAATG 58.875 33.333 0.00 0.00 0.00 2.82
2311 2494 8.213518 ACACAAGTATTCATCGCTAATTCAAT 57.786 30.769 0.00 0.00 0.00 2.57
2312 2495 7.609760 ACACAAGTATTCATCGCTAATTCAA 57.390 32.000 0.00 0.00 0.00 2.69
2313 2496 7.413988 CCAACACAAGTATTCATCGCTAATTCA 60.414 37.037 0.00 0.00 0.00 2.57
2314 2497 6.907212 CCAACACAAGTATTCATCGCTAATTC 59.093 38.462 0.00 0.00 0.00 2.17
2315 2498 6.183360 CCCAACACAAGTATTCATCGCTAATT 60.183 38.462 0.00 0.00 0.00 1.40
2316 2499 5.296780 CCCAACACAAGTATTCATCGCTAAT 59.703 40.000 0.00 0.00 0.00 1.73
2317 2500 4.634004 CCCAACACAAGTATTCATCGCTAA 59.366 41.667 0.00 0.00 0.00 3.09
2318 2501 4.188462 CCCAACACAAGTATTCATCGCTA 58.812 43.478 0.00 0.00 0.00 4.26
2319 2502 3.009723 CCCAACACAAGTATTCATCGCT 58.990 45.455 0.00 0.00 0.00 4.93
2320 2503 2.747446 ACCCAACACAAGTATTCATCGC 59.253 45.455 0.00 0.00 0.00 4.58
2321 2504 4.000325 TCACCCAACACAAGTATTCATCG 59.000 43.478 0.00 0.00 0.00 3.84
2322 2505 4.759693 TGTCACCCAACACAAGTATTCATC 59.240 41.667 0.00 0.00 0.00 2.92
2323 2506 4.724399 TGTCACCCAACACAAGTATTCAT 58.276 39.130 0.00 0.00 0.00 2.57
2324 2507 4.157849 TGTCACCCAACACAAGTATTCA 57.842 40.909 0.00 0.00 0.00 2.57
2325 2508 5.240623 TGAATGTCACCCAACACAAGTATTC 59.759 40.000 0.00 0.00 30.55 1.75
2326 2509 5.136828 TGAATGTCACCCAACACAAGTATT 58.863 37.500 0.00 0.00 30.55 1.89
2327 2510 4.724399 TGAATGTCACCCAACACAAGTAT 58.276 39.130 0.00 0.00 30.55 2.12
2328 2511 4.157849 TGAATGTCACCCAACACAAGTA 57.842 40.909 0.00 0.00 30.55 2.24
2329 2512 3.011566 TGAATGTCACCCAACACAAGT 57.988 42.857 0.00 0.00 30.55 3.16
2330 2513 3.569277 TGATGAATGTCACCCAACACAAG 59.431 43.478 0.00 0.00 30.55 3.16
2331 2514 3.560105 TGATGAATGTCACCCAACACAA 58.440 40.909 0.00 0.00 30.55 3.33
2332 2515 3.220674 TGATGAATGTCACCCAACACA 57.779 42.857 0.00 0.00 30.55 3.72
2333 2516 7.066887 TGTTATATGATGAATGTCACCCAACAC 59.933 37.037 0.00 0.00 30.55 3.32
2334 2517 7.115414 TGTTATATGATGAATGTCACCCAACA 58.885 34.615 0.00 0.00 0.00 3.33
2335 2518 7.283127 ACTGTTATATGATGAATGTCACCCAAC 59.717 37.037 0.00 0.00 0.00 3.77
2336 2519 7.345691 ACTGTTATATGATGAATGTCACCCAA 58.654 34.615 0.00 0.00 0.00 4.12
2337 2520 6.899089 ACTGTTATATGATGAATGTCACCCA 58.101 36.000 0.00 0.00 0.00 4.51
2338 2521 6.992123 TGACTGTTATATGATGAATGTCACCC 59.008 38.462 0.00 0.00 0.00 4.61
2339 2522 8.613060 ATGACTGTTATATGATGAATGTCACC 57.387 34.615 0.00 0.00 35.26 4.02
2349 2532 9.261035 CCCTCTAGGTTATGACTGTTATATGAT 57.739 37.037 0.00 0.00 0.00 2.45
2350 2533 8.453681 TCCCTCTAGGTTATGACTGTTATATGA 58.546 37.037 0.00 0.00 36.75 2.15
2351 2534 8.651589 TCCCTCTAGGTTATGACTGTTATATG 57.348 38.462 0.00 0.00 36.75 1.78
2353 2536 9.750783 GTATCCCTCTAGGTTATGACTGTTATA 57.249 37.037 0.00 0.00 36.75 0.98
2354 2537 8.232412 TGTATCCCTCTAGGTTATGACTGTTAT 58.768 37.037 0.00 0.00 36.75 1.89
2355 2538 7.589081 TGTATCCCTCTAGGTTATGACTGTTA 58.411 38.462 0.00 0.00 36.75 2.41
2356 2539 6.441222 TGTATCCCTCTAGGTTATGACTGTT 58.559 40.000 0.00 0.00 36.75 3.16
2357 2540 6.027025 TGTATCCCTCTAGGTTATGACTGT 57.973 41.667 0.00 0.00 36.75 3.55
2358 2541 6.307776 TCTGTATCCCTCTAGGTTATGACTG 58.692 44.000 0.00 0.00 36.75 3.51
2359 2542 6.532119 TCTGTATCCCTCTAGGTTATGACT 57.468 41.667 0.00 0.00 36.75 3.41
2360 2543 7.784470 ATTCTGTATCCCTCTAGGTTATGAC 57.216 40.000 0.00 0.00 36.75 3.06
2361 2544 9.310449 GTTATTCTGTATCCCTCTAGGTTATGA 57.690 37.037 0.00 0.00 36.75 2.15
2362 2545 9.315363 AGTTATTCTGTATCCCTCTAGGTTATG 57.685 37.037 0.00 0.00 36.75 1.90
2363 2546 9.536510 GAGTTATTCTGTATCCCTCTAGGTTAT 57.463 37.037 0.00 0.00 36.75 1.89
2364 2547 7.949006 GGAGTTATTCTGTATCCCTCTAGGTTA 59.051 40.741 0.00 0.00 36.75 2.85
2365 2548 6.783482 GGAGTTATTCTGTATCCCTCTAGGTT 59.217 42.308 0.00 0.00 36.75 3.50
2366 2549 6.125860 TGGAGTTATTCTGTATCCCTCTAGGT 60.126 42.308 0.00 0.00 36.75 3.08
2367 2550 6.315714 TGGAGTTATTCTGTATCCCTCTAGG 58.684 44.000 0.00 0.00 0.00 3.02
2368 2551 7.841282 TTGGAGTTATTCTGTATCCCTCTAG 57.159 40.000 0.00 0.00 0.00 2.43
2369 2552 8.798975 AATTGGAGTTATTCTGTATCCCTCTA 57.201 34.615 0.00 0.00 0.00 2.43
2370 2553 7.348274 TGAATTGGAGTTATTCTGTATCCCTCT 59.652 37.037 0.00 0.00 34.00 3.69
2371 2554 7.509546 TGAATTGGAGTTATTCTGTATCCCTC 58.490 38.462 0.00 0.00 34.00 4.30
2372 2555 7.451731 TGAATTGGAGTTATTCTGTATCCCT 57.548 36.000 0.00 0.00 34.00 4.20
2373 2556 7.939039 TGATGAATTGGAGTTATTCTGTATCCC 59.061 37.037 0.00 0.00 34.00 3.85
2374 2557 8.908786 TGATGAATTGGAGTTATTCTGTATCC 57.091 34.615 0.00 0.00 34.00 2.59
2386 2569 9.236006 GCCTACATTATATTGATGAATTGGAGT 57.764 33.333 1.71 0.00 0.00 3.85
2387 2570 9.234827 TGCCTACATTATATTGATGAATTGGAG 57.765 33.333 1.71 0.00 0.00 3.86
2388 2571 9.758021 ATGCCTACATTATATTGATGAATTGGA 57.242 29.630 1.71 0.00 30.07 3.53
2389 2572 9.797556 CATGCCTACATTATATTGATGAATTGG 57.202 33.333 1.71 0.00 32.87 3.16
2413 2596 9.249457 GCACGTATGACTATATATGCAATACAT 57.751 33.333 0.00 0.00 43.18 2.29
2414 2597 8.466798 AGCACGTATGACTATATATGCAATACA 58.533 33.333 0.00 0.00 36.07 2.29
2415 2598 8.858003 AGCACGTATGACTATATATGCAATAC 57.142 34.615 0.00 0.00 36.07 1.89


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

AutoCloner maintained by Alex Coulton.