Multiple sequence alignment - TraesCS1A01G260800

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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 TraesCS1A01G260800 chr1A 100.000 2620 0 0 1 2620 454535352 454537971 0.000000e+00 4839
1 TraesCS1A01G260800 chr1D 94.652 1365 51 2 552 1900 355092553 355093911 0.000000e+00 2097
2 TraesCS1A01G260800 chr1D 90.875 537 42 3 1 537 355091967 355092496 0.000000e+00 713
3 TraesCS1A01G260800 chr1D 93.091 275 17 2 1918 2192 355093898 355094170 4.060000e-108 401
4 TraesCS1A01G260800 chr1D 90.458 262 23 1 2359 2620 355094150 355094409 6.940000e-91 344
5 TraesCS1A01G260800 chr1B 92.862 1345 45 10 535 1854 476925770 476927088 0.000000e+00 1905
6 TraesCS1A01G260800 chr1B 87.386 547 51 12 1 537 476925199 476925737 1.720000e-171 612
7 TraesCS1A01G260800 chr1B 88.172 279 31 2 1918 2196 476927108 476927384 5.400000e-87 331
8 TraesCS1A01G260800 chr1B 96.552 174 6 0 2188 2361 46086024 46085851 3.300000e-74 289
9 TraesCS1A01G260800 chr1B 95.977 174 7 0 2188 2361 46016011 46015838 1.530000e-72 283
10 TraesCS1A01G260800 chr6A 94.709 189 6 4 2189 2375 93079298 93079112 9.170000e-75 291
11 TraesCS1A01G260800 chr6A 95.506 178 6 2 2189 2364 40297740 40297563 1.530000e-72 283
12 TraesCS1A01G260800 chrUn 93.299 194 10 3 2183 2375 79329502 79329693 1.530000e-72 283
13 TraesCS1A01G260800 chr2B 94.149 188 8 3 2189 2375 706270561 706270376 1.530000e-72 283
14 TraesCS1A01G260800 chr2B 94.944 178 7 2 2189 2364 184383947 184384124 7.140000e-71 278
15 TraesCS1A01G260800 chr5B 94.475 181 7 3 2196 2375 682812393 682812571 2.570000e-70 276
16 TraesCS1A01G260800 chr3B 93.122 189 9 4 2189 2375 82343881 82343695 9.240000e-70 274


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 TraesCS1A01G260800 chr1A 454535352 454537971 2619 False 4839.000000 4839 100.000000 1 2620 1 chr1A.!!$F1 2619
1 TraesCS1A01G260800 chr1D 355091967 355094409 2442 False 888.750000 2097 92.269000 1 2620 4 chr1D.!!$F1 2619
2 TraesCS1A01G260800 chr1B 476925199 476927384 2185 False 949.333333 1905 89.473333 1 2196 3 chr1B.!!$F1 2195

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
485 492 0.599204 GAGACAAACGAGGGCGACAA 60.599 55.0 0.0 0.0 41.64 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2299 2367 0.034477 GGGCTTGCTTGGGCTAGTTA 60.034 55.0 0.0 0.0 41.9 2.24 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 1.375853 GCTGCAACCGTCATATGGCA 61.376 55.000 8.28 5.10 0.00 4.92
56 57 0.672401 ACCGACGATTTGCAACCGAT 60.672 50.000 22.36 4.72 0.00 4.18
83 84 3.621268 GGCGATGATACAACAACAAGCTA 59.379 43.478 0.00 0.00 0.00 3.32
236 238 5.302360 TCTATAACCAGCGACACAAAAAGT 58.698 37.500 0.00 0.00 0.00 2.66
311 313 2.785679 GCGATTTTCCTGGAATCAACG 58.214 47.619 10.45 13.93 34.02 4.10
316 318 2.920724 TTCCTGGAATCAACGACACA 57.079 45.000 4.68 0.00 0.00 3.72
340 342 4.497291 AAAGTTGCGATAGGGTGGATAA 57.503 40.909 0.00 0.00 0.00 1.75
347 349 3.510360 GCGATAGGGTGGATAAGAAGCTA 59.490 47.826 0.00 0.00 0.00 3.32
355 357 6.153680 AGGGTGGATAAGAAGCTATAATCGAG 59.846 42.308 0.00 0.00 0.00 4.04
359 361 8.254508 GTGGATAAGAAGCTATAATCGAGGAAT 58.745 37.037 0.00 0.00 0.00 3.01
410 414 1.076412 TGCAACCTGGAGGCACAAA 60.076 52.632 11.81 0.00 39.32 2.83
484 491 1.006571 GAGACAAACGAGGGCGACA 60.007 57.895 0.00 0.00 41.64 4.35
485 492 0.599204 GAGACAAACGAGGGCGACAA 60.599 55.000 0.00 0.00 41.64 3.18
496 503 3.998672 GCGACAACGACAGGGGGA 61.999 66.667 0.00 0.00 42.66 4.81
673 722 8.667463 CATGCGTGATCCAATGATAACAATATA 58.333 33.333 0.00 0.00 32.48 0.86
713 762 4.948621 AGCAGAGCAAAAGCTTGAAGATAT 59.051 37.500 0.00 0.00 34.37 1.63
791 840 9.837525 CTCATGATAAACTTGAGAAAAGAAAGG 57.162 33.333 0.00 0.00 46.81 3.11
829 878 7.987750 AGATATAGATTCGAGCTGTAACTGA 57.012 36.000 0.00 0.00 0.00 3.41
878 927 7.759433 TCCTCTTTTTAAAAGTTTGCAACTGAG 59.241 33.333 15.85 3.85 41.91 3.35
893 942 4.394300 GCAACTGAGTGCTATGAGACAATT 59.606 41.667 0.00 0.00 41.51 2.32
1179 1247 1.846439 CCATATGGGTCAACAGGAGGT 59.154 52.381 14.52 0.00 0.00 3.85
1203 1271 2.664568 TGATTCGTCCGTTTCAATCGAC 59.335 45.455 0.00 0.00 0.00 4.20
1242 1310 3.374988 TCGTGACTTTGATCATCATTGCC 59.625 43.478 0.00 0.00 0.00 4.52
1391 1459 5.301045 CCATTGATGTTGCTTATCCTGTGAT 59.699 40.000 0.00 0.00 34.87 3.06
1504 1572 8.082242 CCGAAGAAGGTTTTTAAGACATCAATT 58.918 33.333 0.00 0.00 0.00 2.32
1605 1673 6.554334 TGTGTTTTGTAAGCTTGATCCTAC 57.446 37.500 9.86 0.00 0.00 3.18
1730 1798 7.229907 AGTTTTAGTTCATGTATTGGTCGGTTT 59.770 33.333 0.00 0.00 0.00 3.27
1891 1959 5.351465 TGCACGTCCTTCAAAATTAGAGATC 59.649 40.000 0.00 0.00 0.00 2.75
1892 1960 5.351465 GCACGTCCTTCAAAATTAGAGATCA 59.649 40.000 0.00 0.00 0.00 2.92
1893 1961 6.037610 GCACGTCCTTCAAAATTAGAGATCAT 59.962 38.462 0.00 0.00 0.00 2.45
1894 1962 7.414540 GCACGTCCTTCAAAATTAGAGATCATT 60.415 37.037 0.00 0.00 0.00 2.57
1895 1963 8.454106 CACGTCCTTCAAAATTAGAGATCATTT 58.546 33.333 0.00 0.00 0.00 2.32
1896 1964 9.014297 ACGTCCTTCAAAATTAGAGATCATTTT 57.986 29.630 0.00 0.00 33.70 1.82
1960 2028 4.128925 TGTAAGCAACACATTTTGGCAA 57.871 36.364 0.00 0.00 31.43 4.52
1963 2031 4.816786 AAGCAACACATTTTGGCAATTC 57.183 36.364 0.00 0.00 0.00 2.17
1965 2033 2.799412 GCAACACATTTTGGCAATTCGA 59.201 40.909 0.00 0.00 0.00 3.71
1984 2052 9.986833 CAATTCGAACTCATTTGTATGTATTGA 57.013 29.630 0.00 0.00 33.34 2.57
2154 2222 9.722056 GTATGTTTTTGGCAGTTATAGATTCTG 57.278 33.333 0.00 0.00 0.00 3.02
2171 2239 2.984562 TCTGTTGTGTGTCTTCAGCAA 58.015 42.857 0.00 0.00 0.00 3.91
2172 2240 2.938451 TCTGTTGTGTGTCTTCAGCAAG 59.062 45.455 0.00 0.00 0.00 4.01
2173 2241 2.679837 CTGTTGTGTGTCTTCAGCAAGT 59.320 45.455 0.00 0.00 0.00 3.16
2174 2242 2.419673 TGTTGTGTGTCTTCAGCAAGTG 59.580 45.455 0.00 0.00 0.00 3.16
2175 2243 1.016627 TGTGTGTCTTCAGCAAGTGC 58.983 50.000 0.00 0.00 42.49 4.40
2176 2244 0.308993 GTGTGTCTTCAGCAAGTGCC 59.691 55.000 0.00 0.00 43.38 5.01
2177 2245 1.159713 TGTGTCTTCAGCAAGTGCCG 61.160 55.000 0.00 0.00 43.38 5.69
2178 2246 1.597854 TGTCTTCAGCAAGTGCCGG 60.598 57.895 0.00 0.00 43.38 6.13
2179 2247 1.598130 GTCTTCAGCAAGTGCCGGT 60.598 57.895 1.90 0.00 43.38 5.28
2180 2248 1.597854 TCTTCAGCAAGTGCCGGTG 60.598 57.895 1.90 0.00 43.38 4.94
2181 2249 3.259425 CTTCAGCAAGTGCCGGTGC 62.259 63.158 1.90 4.70 43.38 5.01
2186 2254 2.594303 CAAGTGCCGGTGCCTGAA 60.594 61.111 1.90 0.00 36.33 3.02
2187 2255 2.594592 AAGTGCCGGTGCCTGAAC 60.595 61.111 1.90 0.00 36.33 3.18
2188 2256 3.120086 AAGTGCCGGTGCCTGAACT 62.120 57.895 1.90 0.00 36.33 3.01
2189 2257 2.594592 GTGCCGGTGCCTGAACTT 60.595 61.111 1.90 0.00 36.33 2.66
2190 2258 2.193536 GTGCCGGTGCCTGAACTTT 61.194 57.895 1.90 0.00 36.33 2.66
2191 2259 1.454847 TGCCGGTGCCTGAACTTTT 60.455 52.632 1.90 0.00 36.33 2.27
2192 2260 1.040339 TGCCGGTGCCTGAACTTTTT 61.040 50.000 1.90 0.00 36.33 1.94
2219 2287 9.628746 TTTTAGATTCGGCAACCTTTATTAAAC 57.371 29.630 0.00 0.00 0.00 2.01
2220 2288 6.827586 AGATTCGGCAACCTTTATTAAACA 57.172 33.333 0.00 0.00 0.00 2.83
2221 2289 7.222000 AGATTCGGCAACCTTTATTAAACAA 57.778 32.000 0.00 0.00 0.00 2.83
2222 2290 7.836842 AGATTCGGCAACCTTTATTAAACAAT 58.163 30.769 0.00 0.00 0.00 2.71
2223 2291 8.962679 AGATTCGGCAACCTTTATTAAACAATA 58.037 29.630 0.00 0.00 0.00 1.90
2224 2292 9.575783 GATTCGGCAACCTTTATTAAACAATAA 57.424 29.630 0.00 0.00 0.00 1.40
2226 2294 9.575783 TTCGGCAACCTTTATTAAACAATAATC 57.424 29.630 0.00 0.00 0.00 1.75
2227 2295 8.740906 TCGGCAACCTTTATTAAACAATAATCA 58.259 29.630 0.00 0.00 0.00 2.57
2228 2296 9.528018 CGGCAACCTTTATTAAACAATAATCAT 57.472 29.630 0.00 0.00 0.00 2.45
2242 2310 9.461312 AAACAATAATCATAGCAGTTACAAGGA 57.539 29.630 0.00 0.00 0.00 3.36
2243 2311 9.461312 AACAATAATCATAGCAGTTACAAGGAA 57.539 29.630 0.00 0.00 0.00 3.36
2244 2312 9.113838 ACAATAATCATAGCAGTTACAAGGAAG 57.886 33.333 0.00 0.00 0.00 3.46
2245 2313 8.562892 CAATAATCATAGCAGTTACAAGGAAGG 58.437 37.037 0.00 0.00 0.00 3.46
2246 2314 4.487714 TCATAGCAGTTACAAGGAAGGG 57.512 45.455 0.00 0.00 0.00 3.95
2247 2315 3.199946 TCATAGCAGTTACAAGGAAGGGG 59.800 47.826 0.00 0.00 0.00 4.79
2248 2316 1.742308 AGCAGTTACAAGGAAGGGGA 58.258 50.000 0.00 0.00 0.00 4.81
2249 2317 1.630878 AGCAGTTACAAGGAAGGGGAG 59.369 52.381 0.00 0.00 0.00 4.30
2250 2318 1.351350 GCAGTTACAAGGAAGGGGAGT 59.649 52.381 0.00 0.00 0.00 3.85
2251 2319 2.570302 GCAGTTACAAGGAAGGGGAGTA 59.430 50.000 0.00 0.00 0.00 2.59
2252 2320 3.008704 GCAGTTACAAGGAAGGGGAGTAA 59.991 47.826 0.00 0.00 0.00 2.24
2253 2321 4.833390 CAGTTACAAGGAAGGGGAGTAAG 58.167 47.826 0.00 0.00 0.00 2.34
2254 2322 4.530946 CAGTTACAAGGAAGGGGAGTAAGA 59.469 45.833 0.00 0.00 0.00 2.10
2255 2323 5.012768 CAGTTACAAGGAAGGGGAGTAAGAA 59.987 44.000 0.00 0.00 0.00 2.52
2256 2324 5.609708 AGTTACAAGGAAGGGGAGTAAGAAA 59.390 40.000 0.00 0.00 0.00 2.52
2257 2325 6.274908 AGTTACAAGGAAGGGGAGTAAGAAAT 59.725 38.462 0.00 0.00 0.00 2.17
2258 2326 5.180810 ACAAGGAAGGGGAGTAAGAAATC 57.819 43.478 0.00 0.00 0.00 2.17
2259 2327 4.601857 ACAAGGAAGGGGAGTAAGAAATCA 59.398 41.667 0.00 0.00 0.00 2.57
2260 2328 5.189180 CAAGGAAGGGGAGTAAGAAATCAG 58.811 45.833 0.00 0.00 0.00 2.90
2261 2329 3.783082 AGGAAGGGGAGTAAGAAATCAGG 59.217 47.826 0.00 0.00 0.00 3.86
2262 2330 3.780850 GGAAGGGGAGTAAGAAATCAGGA 59.219 47.826 0.00 0.00 0.00 3.86
2263 2331 4.141597 GGAAGGGGAGTAAGAAATCAGGAG 60.142 50.000 0.00 0.00 0.00 3.69
2264 2332 3.388913 AGGGGAGTAAGAAATCAGGAGG 58.611 50.000 0.00 0.00 0.00 4.30
2265 2333 3.116174 GGGGAGTAAGAAATCAGGAGGT 58.884 50.000 0.00 0.00 0.00 3.85
2266 2334 3.523972 GGGGAGTAAGAAATCAGGAGGTT 59.476 47.826 0.00 0.00 0.00 3.50
2267 2335 4.018324 GGGGAGTAAGAAATCAGGAGGTTT 60.018 45.833 0.00 0.00 0.00 3.27
2268 2336 5.191124 GGGGAGTAAGAAATCAGGAGGTTTA 59.809 44.000 0.00 0.00 0.00 2.01
2269 2337 6.126449 GGGGAGTAAGAAATCAGGAGGTTTAT 60.126 42.308 0.00 0.00 0.00 1.40
2270 2338 6.993308 GGGAGTAAGAAATCAGGAGGTTTATC 59.007 42.308 0.00 0.00 0.00 1.75
2271 2339 7.147461 GGGAGTAAGAAATCAGGAGGTTTATCT 60.147 40.741 0.00 0.00 0.00 1.98
2272 2340 7.929245 GGAGTAAGAAATCAGGAGGTTTATCTC 59.071 40.741 0.00 0.00 0.00 2.75
2273 2341 7.493367 AGTAAGAAATCAGGAGGTTTATCTCG 58.507 38.462 0.00 0.00 34.74 4.04
2274 2342 4.698575 AGAAATCAGGAGGTTTATCTCGC 58.301 43.478 0.00 0.00 34.74 5.03
2275 2343 3.477210 AATCAGGAGGTTTATCTCGCC 57.523 47.619 0.00 0.00 34.74 5.54
2276 2344 1.860641 TCAGGAGGTTTATCTCGCCA 58.139 50.000 0.00 0.00 34.74 5.69
2277 2345 1.480954 TCAGGAGGTTTATCTCGCCAC 59.519 52.381 0.00 0.00 34.74 5.01
2278 2346 1.482593 CAGGAGGTTTATCTCGCCACT 59.517 52.381 0.00 0.00 34.74 4.00
2279 2347 1.757699 AGGAGGTTTATCTCGCCACTC 59.242 52.381 0.00 0.00 34.74 3.51
2280 2348 1.757699 GGAGGTTTATCTCGCCACTCT 59.242 52.381 0.00 0.00 34.74 3.24
2281 2349 2.223852 GGAGGTTTATCTCGCCACTCTC 60.224 54.545 0.00 0.00 34.74 3.20
2282 2350 2.691011 GAGGTTTATCTCGCCACTCTCT 59.309 50.000 0.00 0.00 0.00 3.10
2283 2351 3.884091 GAGGTTTATCTCGCCACTCTCTA 59.116 47.826 0.00 0.00 0.00 2.43
2284 2352 3.886505 AGGTTTATCTCGCCACTCTCTAG 59.113 47.826 0.00 0.00 0.00 2.43
2285 2353 3.884091 GGTTTATCTCGCCACTCTCTAGA 59.116 47.826 0.00 0.00 0.00 2.43
2286 2354 4.338682 GGTTTATCTCGCCACTCTCTAGAA 59.661 45.833 0.00 0.00 0.00 2.10
2287 2355 5.163540 GGTTTATCTCGCCACTCTCTAGAAA 60.164 44.000 0.00 0.00 0.00 2.52
2288 2356 6.331061 GTTTATCTCGCCACTCTCTAGAAAA 58.669 40.000 0.00 0.00 0.00 2.29
2289 2357 6.525578 TTATCTCGCCACTCTCTAGAAAAA 57.474 37.500 0.00 0.00 0.00 1.94
2290 2358 5.606348 ATCTCGCCACTCTCTAGAAAAAT 57.394 39.130 0.00 0.00 0.00 1.82
2291 2359 5.407407 TCTCGCCACTCTCTAGAAAAATT 57.593 39.130 0.00 0.00 0.00 1.82
2292 2360 5.794894 TCTCGCCACTCTCTAGAAAAATTT 58.205 37.500 0.00 0.00 0.00 1.82
2293 2361 5.869888 TCTCGCCACTCTCTAGAAAAATTTC 59.130 40.000 0.00 0.00 37.45 2.17
2294 2362 4.935808 TCGCCACTCTCTAGAAAAATTTCC 59.064 41.667 2.37 0.00 37.92 3.13
2295 2363 4.938226 CGCCACTCTCTAGAAAAATTTCCT 59.062 41.667 2.37 0.00 37.92 3.36
2296 2364 5.064071 CGCCACTCTCTAGAAAAATTTCCTC 59.936 44.000 2.37 0.00 37.92 3.71
2297 2365 6.176896 GCCACTCTCTAGAAAAATTTCCTCT 58.823 40.000 2.37 7.64 37.92 3.69
2298 2366 6.093357 GCCACTCTCTAGAAAAATTTCCTCTG 59.907 42.308 11.29 4.32 37.92 3.35
2299 2367 7.164803 CCACTCTCTAGAAAAATTTCCTCTGT 58.835 38.462 11.29 0.88 37.92 3.41
2300 2368 8.314751 CCACTCTCTAGAAAAATTTCCTCTGTA 58.685 37.037 11.29 1.76 37.92 2.74
2301 2369 9.712305 CACTCTCTAGAAAAATTTCCTCTGTAA 57.288 33.333 11.29 0.00 37.92 2.41
2302 2370 9.713713 ACTCTCTAGAAAAATTTCCTCTGTAAC 57.286 33.333 11.29 0.00 37.92 2.50
2303 2371 9.936759 CTCTCTAGAAAAATTTCCTCTGTAACT 57.063 33.333 11.29 0.00 37.92 2.24
2306 2374 9.654663 TCTAGAAAAATTTCCTCTGTAACTAGC 57.345 33.333 11.29 0.00 37.92 3.42
2307 2375 7.689446 AGAAAAATTTCCTCTGTAACTAGCC 57.311 36.000 2.37 0.00 37.92 3.93
2308 2376 6.659668 AGAAAAATTTCCTCTGTAACTAGCCC 59.340 38.462 2.37 0.00 37.92 5.19
2309 2377 5.514500 AAATTTCCTCTGTAACTAGCCCA 57.486 39.130 0.00 0.00 0.00 5.36
2310 2378 5.514500 AATTTCCTCTGTAACTAGCCCAA 57.486 39.130 0.00 0.00 0.00 4.12
2311 2379 4.553330 TTTCCTCTGTAACTAGCCCAAG 57.447 45.455 0.00 0.00 0.00 3.61
2312 2380 1.831736 TCCTCTGTAACTAGCCCAAGC 59.168 52.381 0.00 0.00 40.32 4.01
2313 2381 1.555075 CCTCTGTAACTAGCCCAAGCA 59.445 52.381 0.00 0.00 43.56 3.91
2314 2382 2.027192 CCTCTGTAACTAGCCCAAGCAA 60.027 50.000 0.00 0.00 43.56 3.91
2315 2383 3.265791 CTCTGTAACTAGCCCAAGCAAG 58.734 50.000 0.00 0.00 43.56 4.01
2316 2384 1.740025 CTGTAACTAGCCCAAGCAAGC 59.260 52.381 0.00 0.00 43.56 4.01
2317 2385 1.095600 GTAACTAGCCCAAGCAAGCC 58.904 55.000 0.00 0.00 43.56 4.35
2318 2386 0.034477 TAACTAGCCCAAGCAAGCCC 60.034 55.000 0.00 0.00 43.56 5.19
2319 2387 2.080336 AACTAGCCCAAGCAAGCCCA 62.080 55.000 0.00 0.00 43.56 5.36
2320 2388 1.076485 CTAGCCCAAGCAAGCCCAT 60.076 57.895 0.00 0.00 43.56 4.00
2321 2389 1.380246 TAGCCCAAGCAAGCCCATG 60.380 57.895 0.00 0.00 43.56 3.66
2322 2390 4.462280 GCCCAAGCAAGCCCATGC 62.462 66.667 0.00 0.00 46.78 4.06
2329 2397 4.492160 CAAGCCCATGCGCTGCTG 62.492 66.667 9.73 3.40 44.33 4.41
2337 2405 2.046023 TGCGCTGCTGCATTACCT 60.046 55.556 16.29 0.00 40.62 3.08
2338 2406 1.675310 TGCGCTGCTGCATTACCTT 60.675 52.632 16.29 0.00 40.62 3.50
2339 2407 1.063166 GCGCTGCTGCATTACCTTC 59.937 57.895 16.29 0.00 39.64 3.46
2340 2408 1.723870 CGCTGCTGCATTACCTTCC 59.276 57.895 16.29 0.00 39.64 3.46
2341 2409 1.718757 CGCTGCTGCATTACCTTCCC 61.719 60.000 16.29 0.00 39.64 3.97
2342 2410 1.718757 GCTGCTGCATTACCTTCCCG 61.719 60.000 11.11 0.00 39.41 5.14
2343 2411 0.107703 CTGCTGCATTACCTTCCCGA 60.108 55.000 1.31 0.00 0.00 5.14
2344 2412 0.107703 TGCTGCATTACCTTCCCGAG 60.108 55.000 0.00 0.00 0.00 4.63
2345 2413 1.440145 GCTGCATTACCTTCCCGAGC 61.440 60.000 0.00 0.00 0.00 5.03
2346 2414 0.107703 CTGCATTACCTTCCCGAGCA 60.108 55.000 0.00 0.00 0.00 4.26
2347 2415 0.392461 TGCATTACCTTCCCGAGCAC 60.392 55.000 0.00 0.00 0.00 4.40
2348 2416 0.392461 GCATTACCTTCCCGAGCACA 60.392 55.000 0.00 0.00 0.00 4.57
2349 2417 1.948611 GCATTACCTTCCCGAGCACAA 60.949 52.381 0.00 0.00 0.00 3.33
2350 2418 2.643551 CATTACCTTCCCGAGCACAAT 58.356 47.619 0.00 0.00 0.00 2.71
2351 2419 2.107950 TTACCTTCCCGAGCACAATG 57.892 50.000 0.00 0.00 0.00 2.82
2352 2420 1.271856 TACCTTCCCGAGCACAATGA 58.728 50.000 0.00 0.00 0.00 2.57
2353 2421 0.400213 ACCTTCCCGAGCACAATGAA 59.600 50.000 0.00 0.00 0.00 2.57
2354 2422 0.804989 CCTTCCCGAGCACAATGAAC 59.195 55.000 0.00 0.00 0.00 3.18
2355 2423 1.522668 CTTCCCGAGCACAATGAACA 58.477 50.000 0.00 0.00 0.00 3.18
2356 2424 1.879380 CTTCCCGAGCACAATGAACAA 59.121 47.619 0.00 0.00 0.00 2.83
2357 2425 2.198827 TCCCGAGCACAATGAACAAT 57.801 45.000 0.00 0.00 0.00 2.71
2369 2437 0.958382 TGAACAATAGTGCCGGTGCC 60.958 55.000 1.90 0.00 36.33 5.01
2386 2454 0.377203 GCCTGAACCTTTATTCGCCG 59.623 55.000 0.00 0.00 0.00 6.46
2399 2467 1.221466 TTCGCCGCTTGACACAAGAG 61.221 55.000 14.44 11.08 0.00 2.85
2409 2477 5.580691 CGCTTGACACAAGAGGAACATATAA 59.419 40.000 14.44 0.00 0.00 0.98
2419 2487 8.584157 ACAAGAGGAACATATAACATGCAAAAA 58.416 29.630 0.00 0.00 0.00 1.94
2503 2571 8.994429 ACACACAATTTTCACATAAAGAAACA 57.006 26.923 0.00 0.00 34.94 2.83
2589 2657 4.392138 GTGTCCTCAAATCCTCCTTAAACG 59.608 45.833 0.00 0.00 0.00 3.60
2593 2661 5.001232 CCTCAAATCCTCCTTAAACGTTCA 58.999 41.667 0.00 0.00 0.00 3.18
2602 2670 2.144808 TTAAACGTTCACGGACGCGC 62.145 55.000 5.73 0.00 46.47 6.86
2616 2684 2.701780 CGCGCCTAGTCAGTGACCT 61.702 63.158 19.71 9.68 32.18 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 2.339556 GCCGGTTGTAGCATTGCCA 61.340 57.895 1.90 0.00 0.00 4.92
21 22 1.743995 GGTCGCCGGTTGTAGCATT 60.744 57.895 1.90 0.00 0.00 3.56
45 46 0.742990 CGCCCTCTATCGGTTGCAAA 60.743 55.000 0.00 0.00 0.00 3.68
56 57 3.449377 TGTTGTTGTATCATCGCCCTCTA 59.551 43.478 0.00 0.00 0.00 2.43
207 209 5.242434 TGTGTCGCTGGTTATAGATTTTGT 58.758 37.500 0.00 0.00 0.00 2.83
236 238 2.384933 AATGCCCTGGCTGGTTCCAA 62.385 55.000 9.97 0.00 42.51 3.53
330 332 6.017192 TCGATTATAGCTTCTTATCCACCCT 58.983 40.000 0.00 0.00 0.00 4.34
340 342 6.622549 CCGTTATTCCTCGATTATAGCTTCT 58.377 40.000 0.00 0.00 0.00 2.85
347 349 3.005050 TGTCGCCGTTATTCCTCGATTAT 59.995 43.478 0.00 0.00 0.00 1.28
377 379 1.129624 GTTGCAGTGTTGTGTCGTTGA 59.870 47.619 0.00 0.00 0.00 3.18
390 392 2.113986 GTGCCTCCAGGTTGCAGT 59.886 61.111 5.97 0.00 35.33 4.40
410 414 3.996614 CCGGGTCGAGGCAAAAAT 58.003 55.556 0.00 0.00 0.00 1.82
566 615 4.010667 ACTGTGTAATTTTCGGCTGGTA 57.989 40.909 0.00 0.00 0.00 3.25
570 619 3.219281 ACCAACTGTGTAATTTTCGGCT 58.781 40.909 0.00 0.00 0.00 5.52
582 631 4.642885 TCCTTTTTAGTGGAACCAACTGTG 59.357 41.667 0.00 0.00 37.80 3.66
673 722 5.877564 GCTCTGCTTTAGATTGGTAGAAAGT 59.122 40.000 0.00 0.00 34.21 2.66
829 878 8.951541 AGGACACTAAGAGTTCCTATATAGAGT 58.048 37.037 11.53 1.38 35.47 3.24
878 927 7.545362 AGTGATGTAAATTGTCTCATAGCAC 57.455 36.000 0.00 0.00 0.00 4.40
893 942 3.496884 GTGCCGTTTGAGAAGTGATGTAA 59.503 43.478 0.00 0.00 0.00 2.41
922 971 1.686052 GCCATTGTCACCCACTTTTCA 59.314 47.619 0.00 0.00 0.00 2.69
1179 1247 2.242047 TTGAAACGGACGAATCACCA 57.758 45.000 0.00 0.00 0.00 4.17
1203 1271 3.120792 CACGATCAATGGTACGTAAGGG 58.879 50.000 0.00 0.00 46.39 3.95
1242 1310 2.825836 GAGGCAACCATGAGGGCG 60.826 66.667 0.00 0.00 42.05 6.13
1391 1459 4.567537 CCACATTCTCCACATTACCCTTCA 60.568 45.833 0.00 0.00 0.00 3.02
1776 1844 4.752604 GGTGTTTGTTTGGTTGTTCAAGTT 59.247 37.500 0.00 0.00 0.00 2.66
1911 1979 9.601810 AGTACCAATTAAAAAGATCTCCCTTTT 57.398 29.630 0.00 2.17 45.28 2.27
1914 1982 9.853177 CATAGTACCAATTAAAAAGATCTCCCT 57.147 33.333 0.00 0.00 0.00 4.20
1915 1983 9.628500 ACATAGTACCAATTAAAAAGATCTCCC 57.372 33.333 0.00 0.00 0.00 4.30
1934 2002 6.207614 TGCCAAAATGTGTTGCTTACATAGTA 59.792 34.615 0.00 0.00 39.39 1.82
1984 2052 4.723309 TGCTAAATGGGTGCCAAAATTTT 58.277 34.783 0.00 0.00 36.95 1.82
2131 2199 7.759489 ACAGAATCTATAACTGCCAAAAACA 57.241 32.000 0.00 0.00 35.38 2.83
2132 2200 8.082242 ACAACAGAATCTATAACTGCCAAAAAC 58.918 33.333 0.00 0.00 35.38 2.43
2154 2222 2.792542 GCACTTGCTGAAGACACACAAC 60.793 50.000 0.00 0.00 38.21 3.32
2171 2239 2.624674 AAAGTTCAGGCACCGGCACT 62.625 55.000 0.00 0.00 43.71 4.40
2172 2240 1.734388 AAAAGTTCAGGCACCGGCAC 61.734 55.000 0.00 0.00 43.71 5.01
2173 2241 1.040339 AAAAAGTTCAGGCACCGGCA 61.040 50.000 0.00 0.00 43.71 5.69
2174 2242 1.739667 AAAAAGTTCAGGCACCGGC 59.260 52.632 0.00 0.00 40.13 6.13
2193 2261 9.628746 GTTTAATAAAGGTTGCCGAATCTAAAA 57.371 29.630 0.00 0.00 0.00 1.52
2194 2262 8.794553 TGTTTAATAAAGGTTGCCGAATCTAAA 58.205 29.630 0.00 0.00 0.00 1.85
2195 2263 8.338072 TGTTTAATAAAGGTTGCCGAATCTAA 57.662 30.769 0.00 0.00 0.00 2.10
2196 2264 7.925043 TGTTTAATAAAGGTTGCCGAATCTA 57.075 32.000 0.00 0.00 0.00 1.98
2197 2265 6.827586 TGTTTAATAAAGGTTGCCGAATCT 57.172 33.333 0.00 0.00 0.00 2.40
2198 2266 9.575783 TTATTGTTTAATAAAGGTTGCCGAATC 57.424 29.630 0.00 0.00 36.18 2.52
2200 2268 9.575783 GATTATTGTTTAATAAAGGTTGCCGAA 57.424 29.630 0.00 0.00 40.91 4.30
2201 2269 8.740906 TGATTATTGTTTAATAAAGGTTGCCGA 58.259 29.630 0.00 0.00 40.91 5.54
2202 2270 8.918961 TGATTATTGTTTAATAAAGGTTGCCG 57.081 30.769 0.00 0.00 40.91 5.69
2216 2284 9.461312 TCCTTGTAACTGCTATGATTATTGTTT 57.539 29.630 0.00 0.00 0.00 2.83
2217 2285 9.461312 TTCCTTGTAACTGCTATGATTATTGTT 57.539 29.630 0.00 0.00 0.00 2.83
2218 2286 9.113838 CTTCCTTGTAACTGCTATGATTATTGT 57.886 33.333 0.00 0.00 0.00 2.71
2219 2287 8.562892 CCTTCCTTGTAACTGCTATGATTATTG 58.437 37.037 0.00 0.00 0.00 1.90
2220 2288 7.721399 CCCTTCCTTGTAACTGCTATGATTATT 59.279 37.037 0.00 0.00 0.00 1.40
2221 2289 7.227156 CCCTTCCTTGTAACTGCTATGATTAT 58.773 38.462 0.00 0.00 0.00 1.28
2222 2290 6.409234 CCCCTTCCTTGTAACTGCTATGATTA 60.409 42.308 0.00 0.00 0.00 1.75
2223 2291 5.440610 CCCTTCCTTGTAACTGCTATGATT 58.559 41.667 0.00 0.00 0.00 2.57
2224 2292 4.141390 CCCCTTCCTTGTAACTGCTATGAT 60.141 45.833 0.00 0.00 0.00 2.45
2225 2293 3.199946 CCCCTTCCTTGTAACTGCTATGA 59.800 47.826 0.00 0.00 0.00 2.15
2226 2294 3.199946 TCCCCTTCCTTGTAACTGCTATG 59.800 47.826 0.00 0.00 0.00 2.23
2227 2295 3.456277 CTCCCCTTCCTTGTAACTGCTAT 59.544 47.826 0.00 0.00 0.00 2.97
2228 2296 2.838202 CTCCCCTTCCTTGTAACTGCTA 59.162 50.000 0.00 0.00 0.00 3.49
2229 2297 1.630878 CTCCCCTTCCTTGTAACTGCT 59.369 52.381 0.00 0.00 0.00 4.24
2230 2298 1.351350 ACTCCCCTTCCTTGTAACTGC 59.649 52.381 0.00 0.00 0.00 4.40
2231 2299 4.530946 TCTTACTCCCCTTCCTTGTAACTG 59.469 45.833 0.00 0.00 0.00 3.16
2232 2300 4.759953 TCTTACTCCCCTTCCTTGTAACT 58.240 43.478 0.00 0.00 0.00 2.24
2233 2301 5.494390 TTCTTACTCCCCTTCCTTGTAAC 57.506 43.478 0.00 0.00 0.00 2.50
2234 2302 6.273730 TGATTTCTTACTCCCCTTCCTTGTAA 59.726 38.462 0.00 0.00 0.00 2.41
2235 2303 5.788533 TGATTTCTTACTCCCCTTCCTTGTA 59.211 40.000 0.00 0.00 0.00 2.41
2236 2304 4.601857 TGATTTCTTACTCCCCTTCCTTGT 59.398 41.667 0.00 0.00 0.00 3.16
2237 2305 5.179452 TGATTTCTTACTCCCCTTCCTTG 57.821 43.478 0.00 0.00 0.00 3.61
2238 2306 4.228438 CCTGATTTCTTACTCCCCTTCCTT 59.772 45.833 0.00 0.00 0.00 3.36
2239 2307 3.783082 CCTGATTTCTTACTCCCCTTCCT 59.217 47.826 0.00 0.00 0.00 3.36
2240 2308 3.780850 TCCTGATTTCTTACTCCCCTTCC 59.219 47.826 0.00 0.00 0.00 3.46
2241 2309 4.141597 CCTCCTGATTTCTTACTCCCCTTC 60.142 50.000 0.00 0.00 0.00 3.46
2242 2310 3.783082 CCTCCTGATTTCTTACTCCCCTT 59.217 47.826 0.00 0.00 0.00 3.95
2243 2311 3.246535 ACCTCCTGATTTCTTACTCCCCT 60.247 47.826 0.00 0.00 0.00 4.79
2244 2312 3.116174 ACCTCCTGATTTCTTACTCCCC 58.884 50.000 0.00 0.00 0.00 4.81
2245 2313 4.846168 AACCTCCTGATTTCTTACTCCC 57.154 45.455 0.00 0.00 0.00 4.30
2246 2314 7.797062 AGATAAACCTCCTGATTTCTTACTCC 58.203 38.462 0.00 0.00 0.00 3.85
2247 2315 7.650104 CGAGATAAACCTCCTGATTTCTTACTC 59.350 40.741 0.00 0.00 0.00 2.59
2248 2316 7.493367 CGAGATAAACCTCCTGATTTCTTACT 58.507 38.462 0.00 0.00 0.00 2.24
2249 2317 6.201234 GCGAGATAAACCTCCTGATTTCTTAC 59.799 42.308 0.00 0.00 0.00 2.34
2250 2318 6.281405 GCGAGATAAACCTCCTGATTTCTTA 58.719 40.000 0.00 0.00 0.00 2.10
2251 2319 5.119694 GCGAGATAAACCTCCTGATTTCTT 58.880 41.667 0.00 0.00 0.00 2.52
2252 2320 4.443598 GGCGAGATAAACCTCCTGATTTCT 60.444 45.833 0.00 0.00 0.00 2.52
2253 2321 3.810386 GGCGAGATAAACCTCCTGATTTC 59.190 47.826 0.00 0.00 0.00 2.17
2254 2322 3.199946 TGGCGAGATAAACCTCCTGATTT 59.800 43.478 0.00 0.00 0.00 2.17
2255 2323 2.771943 TGGCGAGATAAACCTCCTGATT 59.228 45.455 0.00 0.00 0.00 2.57
2256 2324 2.103263 GTGGCGAGATAAACCTCCTGAT 59.897 50.000 0.00 0.00 0.00 2.90
2257 2325 1.480954 GTGGCGAGATAAACCTCCTGA 59.519 52.381 0.00 0.00 0.00 3.86
2258 2326 1.482593 AGTGGCGAGATAAACCTCCTG 59.517 52.381 0.00 0.00 0.00 3.86
2259 2327 1.757699 GAGTGGCGAGATAAACCTCCT 59.242 52.381 0.00 0.00 0.00 3.69
2260 2328 1.757699 AGAGTGGCGAGATAAACCTCC 59.242 52.381 0.00 0.00 0.00 4.30
2261 2329 2.691011 AGAGAGTGGCGAGATAAACCTC 59.309 50.000 0.00 0.00 0.00 3.85
2262 2330 2.741145 AGAGAGTGGCGAGATAAACCT 58.259 47.619 0.00 0.00 0.00 3.50
2263 2331 3.884091 TCTAGAGAGTGGCGAGATAAACC 59.116 47.826 0.00 0.00 0.00 3.27
2264 2332 5.502153 TTCTAGAGAGTGGCGAGATAAAC 57.498 43.478 0.00 0.00 0.00 2.01
2265 2333 6.525578 TTTTCTAGAGAGTGGCGAGATAAA 57.474 37.500 0.00 0.00 0.00 1.40
2266 2334 6.525578 TTTTTCTAGAGAGTGGCGAGATAA 57.474 37.500 0.00 0.00 0.00 1.75
2267 2335 6.716934 ATTTTTCTAGAGAGTGGCGAGATA 57.283 37.500 0.00 0.00 0.00 1.98
2268 2336 5.606348 ATTTTTCTAGAGAGTGGCGAGAT 57.394 39.130 0.00 0.00 0.00 2.75
2269 2337 5.407407 AATTTTTCTAGAGAGTGGCGAGA 57.593 39.130 0.00 0.00 0.00 4.04
2270 2338 5.064071 GGAAATTTTTCTAGAGAGTGGCGAG 59.936 44.000 3.28 0.00 37.35 5.03
2271 2339 4.935808 GGAAATTTTTCTAGAGAGTGGCGA 59.064 41.667 3.28 0.00 37.35 5.54
2272 2340 4.938226 AGGAAATTTTTCTAGAGAGTGGCG 59.062 41.667 3.28 0.00 37.35 5.69
2273 2341 6.093357 CAGAGGAAATTTTTCTAGAGAGTGGC 59.907 42.308 6.01 0.00 37.35 5.01
2274 2342 7.164803 ACAGAGGAAATTTTTCTAGAGAGTGG 58.835 38.462 6.01 0.00 37.35 4.00
2275 2343 9.712305 TTACAGAGGAAATTTTTCTAGAGAGTG 57.288 33.333 6.01 0.00 37.35 3.51
2276 2344 9.713713 GTTACAGAGGAAATTTTTCTAGAGAGT 57.286 33.333 6.01 3.67 37.35 3.24
2277 2345 9.936759 AGTTACAGAGGAAATTTTTCTAGAGAG 57.063 33.333 6.01 0.00 37.35 3.20
2280 2348 9.654663 GCTAGTTACAGAGGAAATTTTTCTAGA 57.345 33.333 6.01 0.00 37.35 2.43
2281 2349 8.884726 GGCTAGTTACAGAGGAAATTTTTCTAG 58.115 37.037 6.01 0.00 37.35 2.43
2282 2350 7.827729 GGGCTAGTTACAGAGGAAATTTTTCTA 59.172 37.037 6.01 0.00 37.35 2.10
2283 2351 6.659668 GGGCTAGTTACAGAGGAAATTTTTCT 59.340 38.462 3.28 0.00 37.35 2.52
2284 2352 6.433093 TGGGCTAGTTACAGAGGAAATTTTTC 59.567 38.462 0.00 0.00 36.46 2.29
2285 2353 6.311735 TGGGCTAGTTACAGAGGAAATTTTT 58.688 36.000 0.00 0.00 0.00 1.94
2286 2354 5.887754 TGGGCTAGTTACAGAGGAAATTTT 58.112 37.500 0.00 0.00 0.00 1.82
2287 2355 5.514500 TGGGCTAGTTACAGAGGAAATTT 57.486 39.130 0.00 0.00 0.00 1.82
2288 2356 5.501156 CTTGGGCTAGTTACAGAGGAAATT 58.499 41.667 0.00 0.00 0.00 1.82
2289 2357 4.626529 GCTTGGGCTAGTTACAGAGGAAAT 60.627 45.833 0.00 0.00 35.22 2.17
2290 2358 3.307480 GCTTGGGCTAGTTACAGAGGAAA 60.307 47.826 0.00 0.00 35.22 3.13
2291 2359 2.236395 GCTTGGGCTAGTTACAGAGGAA 59.764 50.000 0.00 0.00 35.22 3.36
2292 2360 1.831736 GCTTGGGCTAGTTACAGAGGA 59.168 52.381 0.00 0.00 35.22 3.71
2293 2361 1.555075 TGCTTGGGCTAGTTACAGAGG 59.445 52.381 0.00 0.00 39.59 3.69
2294 2362 3.265791 CTTGCTTGGGCTAGTTACAGAG 58.734 50.000 0.00 0.00 36.75 3.35
2295 2363 2.615493 GCTTGCTTGGGCTAGTTACAGA 60.615 50.000 0.00 0.00 41.90 3.41
2296 2364 1.740025 GCTTGCTTGGGCTAGTTACAG 59.260 52.381 0.00 0.00 41.90 2.74
2297 2365 1.613255 GGCTTGCTTGGGCTAGTTACA 60.613 52.381 0.00 0.00 41.90 2.41
2298 2366 1.095600 GGCTTGCTTGGGCTAGTTAC 58.904 55.000 0.00 0.00 41.90 2.50
2299 2367 0.034477 GGGCTTGCTTGGGCTAGTTA 60.034 55.000 0.00 0.00 41.90 2.24
2300 2368 1.304464 GGGCTTGCTTGGGCTAGTT 60.304 57.895 0.00 0.00 41.90 2.24
2301 2369 1.867595 ATGGGCTTGCTTGGGCTAGT 61.868 55.000 0.00 0.00 41.90 2.57
2302 2370 1.076485 ATGGGCTTGCTTGGGCTAG 60.076 57.895 0.00 0.00 42.56 3.42
2303 2371 1.380246 CATGGGCTTGCTTGGGCTA 60.380 57.895 0.00 0.00 39.59 3.93
2304 2372 2.682494 CATGGGCTTGCTTGGGCT 60.682 61.111 0.00 0.00 39.59 5.19
2305 2373 4.462280 GCATGGGCTTGCTTGGGC 62.462 66.667 0.00 0.00 39.57 5.36
2306 2374 4.137872 CGCATGGGCTTGCTTGGG 62.138 66.667 10.39 0.00 40.54 4.12
2307 2375 4.807039 GCGCATGGGCTTGCTTGG 62.807 66.667 26.07 0.00 40.54 3.61
2308 2376 3.755628 AGCGCATGGGCTTGCTTG 61.756 61.111 29.79 0.00 41.39 4.01
2309 2377 3.755628 CAGCGCATGGGCTTGCTT 61.756 61.111 32.43 11.06 42.53 3.91
2312 2380 4.492160 CAGCAGCGCATGGGCTTG 62.492 66.667 32.43 24.85 42.53 4.01
2321 2389 1.063166 GAAGGTAATGCAGCAGCGC 59.937 57.895 0.00 0.00 46.23 5.92
2322 2390 1.718757 GGGAAGGTAATGCAGCAGCG 61.719 60.000 0.00 0.00 46.23 5.18
2323 2391 1.718757 CGGGAAGGTAATGCAGCAGC 61.719 60.000 0.00 0.00 42.57 5.25
2324 2392 0.107703 TCGGGAAGGTAATGCAGCAG 60.108 55.000 0.00 0.00 0.00 4.24
2325 2393 0.107703 CTCGGGAAGGTAATGCAGCA 60.108 55.000 0.00 0.00 0.00 4.41
2326 2394 1.440145 GCTCGGGAAGGTAATGCAGC 61.440 60.000 0.00 0.00 0.00 5.25
2327 2395 0.107703 TGCTCGGGAAGGTAATGCAG 60.108 55.000 0.00 0.00 0.00 4.41
2328 2396 0.392461 GTGCTCGGGAAGGTAATGCA 60.392 55.000 0.00 0.00 0.00 3.96
2329 2397 0.392461 TGTGCTCGGGAAGGTAATGC 60.392 55.000 0.00 0.00 0.00 3.56
2330 2398 2.107950 TTGTGCTCGGGAAGGTAATG 57.892 50.000 0.00 0.00 0.00 1.90
2331 2399 2.238646 TCATTGTGCTCGGGAAGGTAAT 59.761 45.455 0.00 0.00 0.00 1.89
2332 2400 1.626321 TCATTGTGCTCGGGAAGGTAA 59.374 47.619 0.00 0.00 0.00 2.85
2333 2401 1.271856 TCATTGTGCTCGGGAAGGTA 58.728 50.000 0.00 0.00 0.00 3.08
2334 2402 0.400213 TTCATTGTGCTCGGGAAGGT 59.600 50.000 0.00 0.00 0.00 3.50
2335 2403 0.804989 GTTCATTGTGCTCGGGAAGG 59.195 55.000 0.00 0.00 0.00 3.46
2336 2404 1.522668 TGTTCATTGTGCTCGGGAAG 58.477 50.000 0.00 0.00 0.00 3.46
2337 2405 1.974265 TTGTTCATTGTGCTCGGGAA 58.026 45.000 0.00 0.00 0.00 3.97
2338 2406 2.198827 ATTGTTCATTGTGCTCGGGA 57.801 45.000 0.00 0.00 0.00 5.14
2339 2407 3.009723 ACTATTGTTCATTGTGCTCGGG 58.990 45.455 0.00 0.00 0.00 5.14
2340 2408 4.007282 CACTATTGTTCATTGTGCTCGG 57.993 45.455 0.00 0.00 32.80 4.63
2345 2413 2.487762 ACCGGCACTATTGTTCATTGTG 59.512 45.455 0.00 0.00 40.49 3.33
2346 2414 2.487762 CACCGGCACTATTGTTCATTGT 59.512 45.455 0.00 0.00 0.00 2.71
2347 2415 2.731968 GCACCGGCACTATTGTTCATTG 60.732 50.000 0.00 0.00 40.72 2.82
2348 2416 1.472480 GCACCGGCACTATTGTTCATT 59.528 47.619 0.00 0.00 40.72 2.57
2349 2417 1.094785 GCACCGGCACTATTGTTCAT 58.905 50.000 0.00 0.00 40.72 2.57
2350 2418 0.958382 GGCACCGGCACTATTGTTCA 60.958 55.000 0.00 0.00 43.71 3.18
2351 2419 0.676782 AGGCACCGGCACTATTGTTC 60.677 55.000 0.00 0.00 43.71 3.18
2352 2420 0.960364 CAGGCACCGGCACTATTGTT 60.960 55.000 0.00 0.00 43.71 2.83
2353 2421 1.377202 CAGGCACCGGCACTATTGT 60.377 57.895 0.00 0.00 43.71 2.71
2354 2422 0.676466 TTCAGGCACCGGCACTATTG 60.676 55.000 0.00 0.00 43.71 1.90
2355 2423 0.676782 GTTCAGGCACCGGCACTATT 60.677 55.000 0.00 0.00 43.71 1.73
2356 2424 1.078426 GTTCAGGCACCGGCACTAT 60.078 57.895 0.00 0.00 43.71 2.12
2357 2425 2.345991 GTTCAGGCACCGGCACTA 59.654 61.111 0.00 0.00 43.71 2.74
2369 2437 1.369625 AGCGGCGAATAAAGGTTCAG 58.630 50.000 12.98 0.00 0.00 3.02
2386 2454 6.371548 TGTTATATGTTCCTCTTGTGTCAAGC 59.628 38.462 4.82 0.00 0.00 4.01
2419 2487 4.036380 GCGGGTTATATACTTTGCTTGCTT 59.964 41.667 0.00 0.00 0.00 3.91
2425 2493 5.929992 TGAGTATGCGGGTTATATACTTTGC 59.070 40.000 0.00 0.00 37.66 3.68
2428 2496 7.039293 TCACATGAGTATGCGGGTTATATACTT 60.039 37.037 0.00 0.00 37.66 2.24
2478 2546 8.994429 TGTTTCTTTATGTGAAAATTGTGTGT 57.006 26.923 0.00 0.00 35.54 3.72
2554 2622 3.090210 TGAGGACACCGGTTGTAGATA 57.910 47.619 2.97 0.00 39.17 1.98
2562 2630 0.613777 GAGGATTTGAGGACACCGGT 59.386 55.000 0.00 0.00 0.00 5.28
2567 2635 4.041198 ACGTTTAAGGAGGATTTGAGGACA 59.959 41.667 0.00 0.00 0.00 4.02
2568 2636 4.576879 ACGTTTAAGGAGGATTTGAGGAC 58.423 43.478 0.00 0.00 0.00 3.85
2589 2657 2.879462 CTAGGCGCGTCCGTGAAC 60.879 66.667 7.31 0.00 40.77 3.18
2593 2661 3.812019 CTGACTAGGCGCGTCCGT 61.812 66.667 7.31 4.66 40.77 4.69


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

AutoCloner maintained by Alex Coulton.