Multiple sequence alignment - TraesCS7A01G271000

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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 TraesCS7A01G271000 chr7A 100.000 1489 0 0 1 1489 283139518 283141006 0.000000e+00 2750.0
1 TraesCS7A01G271000 chr7A 95.503 1490 65 2 1 1489 611515462 611516950 0.000000e+00 2379.0
2 TraesCS7A01G271000 chr7A 100.000 1252 0 0 1798 3049 283141315 283142566 0.000000e+00 2313.0
3 TraesCS7A01G271000 chr7A 96.044 455 18 0 1798 2252 611517196 611517650 0.000000e+00 741.0
4 TraesCS7A01G271000 chr3A 95.777 1492 57 3 1 1489 66049526 66051014 0.000000e+00 2401.0
5 TraesCS7A01G271000 chr3A 96.053 456 17 1 1798 2252 66053918 66054373 0.000000e+00 741.0
6 TraesCS7A01G271000 chr2A 95.579 1493 56 6 1 1486 6085201 6086690 0.000000e+00 2383.0
7 TraesCS7A01G271000 chr2A 95.676 1480 59 5 1 1477 6189030 6190507 0.000000e+00 2374.0
8 TraesCS7A01G271000 chr2A 95.315 1494 62 6 1 1489 6089547 6091037 0.000000e+00 2364.0
9 TraesCS7A01G271000 chr2A 100.000 28 0 0 2498 2525 44431056 44431083 5.000000e-03 52.8
10 TraesCS7A01G271000 chr4A 95.871 1453 58 2 1 1452 147281104 147282555 0.000000e+00 2350.0
11 TraesCS7A01G271000 chr4A 95.887 462 19 0 1798 2259 641505981 641505520 0.000000e+00 749.0
12 TraesCS7A01G271000 chr4A 96.026 453 18 0 1798 2250 147283116 147283568 0.000000e+00 737.0
13 TraesCS7A01G271000 chr4A 100.000 30 0 0 2498 2527 158671979 158671950 4.250000e-04 56.5
14 TraesCS7A01G271000 chr1D 87.970 1488 176 3 1 1487 371259066 371257581 0.000000e+00 1753.0
15 TraesCS7A01G271000 chr7B 87.828 1487 177 4 3 1487 468846522 468848006 0.000000e+00 1740.0
16 TraesCS7A01G271000 chr7B 84.565 460 64 6 1798 2254 468848256 468848711 1.670000e-122 449.0
17 TraesCS7A01G271000 chr7B 85.211 426 55 7 1829 2251 57177900 57178320 6.040000e-117 431.0
18 TraesCS7A01G271000 chr7B 87.200 250 27 4 2251 2499 239981559 239981804 2.310000e-71 279.0
19 TraesCS7A01G271000 chr1A 94.923 1103 53 1 387 1489 535737619 535736520 0.000000e+00 1724.0
20 TraesCS7A01G271000 chr1A 96.732 459 14 1 1798 2255 535736273 535735815 0.000000e+00 763.0
21 TraesCS7A01G271000 chr6A 96.280 457 17 0 1798 2254 560751738 560752194 0.000000e+00 750.0
22 TraesCS7A01G271000 chr5A 92.375 459 15 6 1798 2256 425491019 425490581 1.190000e-178 636.0
23 TraesCS7A01G271000 chr7D 83.029 548 61 19 2507 3049 126021730 126021210 4.600000e-128 468.0
24 TraesCS7A01G271000 chr7D 90.351 228 20 2 2251 2477 260011633 260011859 6.390000e-77 298.0
25 TraesCS7A01G271000 chr6B 84.434 212 17 6 2840 3049 41736660 41736857 8.630000e-46 195.0
26 TraesCS7A01G271000 chr3D 86.154 130 13 4 2923 3049 26279034 26278907 5.300000e-28 135.0
27 TraesCS7A01G271000 chr5B 88.889 54 6 0 2498 2551 625093063 625093010 1.960000e-07 67.6
28 TraesCS7A01G271000 chr5B 87.037 54 7 0 2498 2551 628672612 628672559 9.130000e-06 62.1
29 TraesCS7A01G271000 chr1B 83.871 62 10 0 2494 2555 647174481 647174542 3.280000e-05 60.2
30 TraesCS7A01G271000 chr2B 96.875 32 1 0 2498 2529 16222135 16222166 2.000000e-03 54.7


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7A01G271000 chr7A 283139518 283142566 3048 False 2531.5 2750 100.0000 1 3049 2 chr7A.!!$F1 3048
1 TraesCS7A01G271000 chr7A 611515462 611517650 2188 False 1560.0 2379 95.7735 1 2252 2 chr7A.!!$F2 2251
2 TraesCS7A01G271000 chr3A 66049526 66054373 4847 False 1571.0 2401 95.9150 1 2252 2 chr3A.!!$F1 2251
3 TraesCS7A01G271000 chr2A 6189030 6190507 1477 False 2374.0 2374 95.6760 1 1477 1 chr2A.!!$F1 1476
4 TraesCS7A01G271000 chr2A 6085201 6091037 5836 False 2373.5 2383 95.4470 1 1489 2 chr2A.!!$F3 1488
5 TraesCS7A01G271000 chr4A 147281104 147283568 2464 False 1543.5 2350 95.9485 1 2250 2 chr4A.!!$F1 2249
6 TraesCS7A01G271000 chr1D 371257581 371259066 1485 True 1753.0 1753 87.9700 1 1487 1 chr1D.!!$R1 1486
7 TraesCS7A01G271000 chr7B 468846522 468848711 2189 False 1094.5 1740 86.1965 3 2254 2 chr7B.!!$F3 2251
8 TraesCS7A01G271000 chr1A 535735815 535737619 1804 True 1243.5 1724 95.8275 387 2255 2 chr1A.!!$R1 1868
9 TraesCS7A01G271000 chr7D 126021210 126021730 520 True 468.0 468 83.0290 2507 3049 1 chr7D.!!$R1 542

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
304 305 0.536006 GGATTTGCGGGCTGCTATCT 60.536 55.0 20.66 2.37 46.63 1.98 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2270 9222 0.107831 TGGTCTTGGGTCCTGTTTCG 59.892 55.0 0.0 0.0 0.0 3.46 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
67 68 2.415608 CCGTCTGGCTCCGCTTCTA 61.416 63.158 0.00 0.00 0.00 2.10
169 170 1.032794 CTAGGTGGCTGCATAGACGA 58.967 55.000 0.50 0.00 33.27 4.20
270 271 2.920912 TGCTCGGGGTTTCGGTCT 60.921 61.111 0.00 0.00 0.00 3.85
304 305 0.536006 GGATTTGCGGGCTGCTATCT 60.536 55.000 20.66 2.37 46.63 1.98
430 435 1.956629 CTATGGACGCCCTTCACGGT 61.957 60.000 0.00 0.00 34.00 4.83
475 480 2.961741 CCATCTTCTCTCCGATCTTGGA 59.038 50.000 0.00 0.00 36.37 3.53
491 496 2.359169 GGATGCGACAGAGGGGTGA 61.359 63.158 0.00 0.00 0.00 4.02
548 553 1.343142 TCTTCAAGCCAGAGCGTAACA 59.657 47.619 0.00 0.00 46.67 2.41
556 561 2.100916 GCCAGAGCGTAACAATCTCCTA 59.899 50.000 0.00 0.00 0.00 2.94
796 801 2.093973 GCTCTCGAACAAGATGAAGGGA 60.094 50.000 0.00 0.00 0.00 4.20
858 864 0.978146 ACCTCTTCGGTCCTCATGGG 60.978 60.000 0.00 0.00 44.93 4.00
968 975 1.285373 GGAGGAGGAGACTAGTGGTGA 59.715 57.143 0.00 0.00 44.43 4.02
969 976 2.091555 GGAGGAGGAGACTAGTGGTGAT 60.092 54.545 0.00 0.00 44.43 3.06
1081 1088 1.838112 CTGCAGATGGCCTTGGTTAA 58.162 50.000 8.42 0.00 43.89 2.01
1138 1145 3.822940 CCTGATACTACGGAGAAGGAGT 58.177 50.000 0.00 0.00 0.00 3.85
1154 1161 1.734465 GGAGTTCCACGCAATCTTCAG 59.266 52.381 0.00 0.00 35.64 3.02
1269 5620 2.104281 ACCGCAACTCTACTCCTTTGTT 59.896 45.455 0.00 0.00 0.00 2.83
1311 5664 4.148825 GAGGCGCTGACCGGACAT 62.149 66.667 9.46 0.00 37.44 3.06
1375 5728 0.680280 TGCTCAGTACCTCTCGGTCC 60.680 60.000 0.00 0.00 44.21 4.46
1477 5830 0.036164 TGTCCAAAGTGCATACCGCT 59.964 50.000 0.00 0.00 43.06 5.52
1874 8823 1.318158 GGGCTGTCATTCCCAAGCAG 61.318 60.000 5.63 0.00 42.18 4.24
1942 8891 7.470192 AGGATATGGAAAGAAAGAAACTCCAA 58.530 34.615 0.00 0.00 39.54 3.53
2223 9175 8.429641 TGTCCTTGTTGTACTCTCTTTTCTATT 58.570 33.333 0.00 0.00 0.00 1.73
2255 9207 1.106285 GCCAATGGCCTTTCGAGAAT 58.894 50.000 14.47 0.00 44.06 2.40
2256 9208 1.202336 GCCAATGGCCTTTCGAGAATG 60.202 52.381 14.47 0.00 44.06 2.67
2257 9209 2.368439 CCAATGGCCTTTCGAGAATGA 58.632 47.619 3.32 0.00 0.00 2.57
2258 9210 2.357009 CCAATGGCCTTTCGAGAATGAG 59.643 50.000 3.32 0.00 0.00 2.90
2259 9211 1.673168 ATGGCCTTTCGAGAATGAGC 58.327 50.000 3.32 3.15 0.00 4.26
2260 9212 0.324614 TGGCCTTTCGAGAATGAGCA 59.675 50.000 3.32 0.00 0.00 4.26
2261 9213 1.271325 TGGCCTTTCGAGAATGAGCAA 60.271 47.619 3.32 0.00 0.00 3.91
2262 9214 1.812571 GGCCTTTCGAGAATGAGCAAA 59.187 47.619 0.00 0.00 0.00 3.68
2263 9215 2.228822 GGCCTTTCGAGAATGAGCAAAA 59.771 45.455 0.00 0.00 0.00 2.44
2264 9216 3.305335 GGCCTTTCGAGAATGAGCAAAAA 60.305 43.478 0.00 0.00 0.00 1.94
2265 9217 3.670523 GCCTTTCGAGAATGAGCAAAAAC 59.329 43.478 0.97 0.00 0.00 2.43
2266 9218 4.792704 GCCTTTCGAGAATGAGCAAAAACA 60.793 41.667 0.97 0.00 0.00 2.83
2267 9219 5.280945 CCTTTCGAGAATGAGCAAAAACAA 58.719 37.500 0.97 0.00 0.00 2.83
2268 9220 5.922544 CCTTTCGAGAATGAGCAAAAACAAT 59.077 36.000 0.97 0.00 0.00 2.71
2269 9221 6.088616 CCTTTCGAGAATGAGCAAAAACAATC 59.911 38.462 0.97 0.00 0.00 2.67
2270 9222 5.046910 TCGAGAATGAGCAAAAACAATCC 57.953 39.130 0.00 0.00 0.00 3.01
2271 9223 3.848019 CGAGAATGAGCAAAAACAATCCG 59.152 43.478 0.00 0.00 0.00 4.18
2272 9224 4.378356 CGAGAATGAGCAAAAACAATCCGA 60.378 41.667 0.00 0.00 0.00 4.55
2273 9225 5.452078 AGAATGAGCAAAAACAATCCGAA 57.548 34.783 0.00 0.00 0.00 4.30
2274 9226 5.841810 AGAATGAGCAAAAACAATCCGAAA 58.158 33.333 0.00 0.00 0.00 3.46
2275 9227 5.691754 AGAATGAGCAAAAACAATCCGAAAC 59.308 36.000 0.00 0.00 0.00 2.78
2276 9228 4.377839 TGAGCAAAAACAATCCGAAACA 57.622 36.364 0.00 0.00 0.00 2.83
2277 9229 4.358851 TGAGCAAAAACAATCCGAAACAG 58.641 39.130 0.00 0.00 0.00 3.16
2278 9230 3.716601 AGCAAAAACAATCCGAAACAGG 58.283 40.909 0.00 0.00 0.00 4.00
2279 9231 3.383185 AGCAAAAACAATCCGAAACAGGA 59.617 39.130 0.00 0.00 45.54 3.86
2280 9232 3.489416 GCAAAAACAATCCGAAACAGGAC 59.511 43.478 0.00 0.00 44.07 3.85
2281 9233 4.048504 CAAAAACAATCCGAAACAGGACC 58.951 43.478 0.00 0.00 44.07 4.46
2282 9234 1.905637 AACAATCCGAAACAGGACCC 58.094 50.000 0.00 0.00 44.07 4.46
2283 9235 0.768622 ACAATCCGAAACAGGACCCA 59.231 50.000 0.00 0.00 44.07 4.51
2284 9236 1.144093 ACAATCCGAAACAGGACCCAA 59.856 47.619 0.00 0.00 44.07 4.12
2285 9237 1.812571 CAATCCGAAACAGGACCCAAG 59.187 52.381 0.00 0.00 44.07 3.61
2286 9238 1.358152 ATCCGAAACAGGACCCAAGA 58.642 50.000 0.00 0.00 44.07 3.02
2287 9239 0.395312 TCCGAAACAGGACCCAAGAC 59.605 55.000 0.00 0.00 34.92 3.01
2288 9240 0.605589 CCGAAACAGGACCCAAGACC 60.606 60.000 0.00 0.00 0.00 3.85
2289 9241 0.107831 CGAAACAGGACCCAAGACCA 59.892 55.000 0.00 0.00 0.00 4.02
2290 9242 1.271379 CGAAACAGGACCCAAGACCAT 60.271 52.381 0.00 0.00 0.00 3.55
2291 9243 2.162681 GAAACAGGACCCAAGACCATG 58.837 52.381 0.00 0.00 0.00 3.66
2292 9244 0.251341 AACAGGACCCAAGACCATGC 60.251 55.000 0.00 0.00 0.00 4.06
2293 9245 1.136329 ACAGGACCCAAGACCATGCT 61.136 55.000 0.00 0.00 0.00 3.79
2294 9246 0.679002 CAGGACCCAAGACCATGCTG 60.679 60.000 0.00 0.00 0.00 4.41
2295 9247 2.048603 GGACCCAAGACCATGCTGC 61.049 63.158 0.00 0.00 0.00 5.25
2296 9248 2.360350 ACCCAAGACCATGCTGCG 60.360 61.111 0.00 0.00 0.00 5.18
2297 9249 2.046023 CCCAAGACCATGCTGCGA 60.046 61.111 0.00 0.00 0.00 5.10
2298 9250 1.675310 CCCAAGACCATGCTGCGAA 60.675 57.895 0.00 0.00 0.00 4.70
2299 9251 1.243342 CCCAAGACCATGCTGCGAAA 61.243 55.000 0.00 0.00 0.00 3.46
2300 9252 0.597568 CCAAGACCATGCTGCGAAAA 59.402 50.000 0.00 0.00 0.00 2.29
2301 9253 1.203052 CCAAGACCATGCTGCGAAAAT 59.797 47.619 0.00 0.00 0.00 1.82
2302 9254 2.256174 CAAGACCATGCTGCGAAAATG 58.744 47.619 0.00 0.00 0.00 2.32
2303 9255 0.813184 AGACCATGCTGCGAAAATGG 59.187 50.000 13.43 13.43 45.34 3.16
2304 9256 0.803380 GACCATGCTGCGAAAATGGC 60.803 55.000 14.58 6.17 43.96 4.40
2305 9257 1.519898 CCATGCTGCGAAAATGGCC 60.520 57.895 0.00 0.00 34.82 5.36
2306 9258 1.519898 CATGCTGCGAAAATGGCCC 60.520 57.895 0.00 0.00 0.00 5.80
2307 9259 1.983481 ATGCTGCGAAAATGGCCCA 60.983 52.632 0.00 0.00 0.00 5.36
2308 9260 1.543065 ATGCTGCGAAAATGGCCCAA 61.543 50.000 0.00 0.00 0.00 4.12
2309 9261 1.218854 GCTGCGAAAATGGCCCAAT 59.781 52.632 0.00 0.00 0.00 3.16
2310 9262 0.459489 GCTGCGAAAATGGCCCAATA 59.541 50.000 0.00 0.00 0.00 1.90
2311 9263 1.134848 GCTGCGAAAATGGCCCAATAA 60.135 47.619 0.00 0.00 0.00 1.40
2312 9264 2.676463 GCTGCGAAAATGGCCCAATAAA 60.676 45.455 0.00 0.00 0.00 1.40
2313 9265 3.594134 CTGCGAAAATGGCCCAATAAAA 58.406 40.909 0.00 0.00 0.00 1.52
2314 9266 3.594134 TGCGAAAATGGCCCAATAAAAG 58.406 40.909 0.00 0.00 0.00 2.27
2315 9267 3.259374 TGCGAAAATGGCCCAATAAAAGA 59.741 39.130 0.00 0.00 0.00 2.52
2316 9268 4.081198 TGCGAAAATGGCCCAATAAAAGAT 60.081 37.500 0.00 0.00 0.00 2.40
2317 9269 4.270808 GCGAAAATGGCCCAATAAAAGATG 59.729 41.667 0.00 0.00 0.00 2.90
2318 9270 4.270808 CGAAAATGGCCCAATAAAAGATGC 59.729 41.667 0.00 0.00 0.00 3.91
2319 9271 4.840716 AAATGGCCCAATAAAAGATGCA 57.159 36.364 0.00 0.00 0.00 3.96
2320 9272 3.825143 ATGGCCCAATAAAAGATGCAC 57.175 42.857 0.00 0.00 0.00 4.57
2321 9273 1.476085 TGGCCCAATAAAAGATGCACG 59.524 47.619 0.00 0.00 0.00 5.34
2322 9274 1.202405 GGCCCAATAAAAGATGCACGG 60.202 52.381 0.00 0.00 0.00 4.94
2323 9275 1.202405 GCCCAATAAAAGATGCACGGG 60.202 52.381 0.00 0.00 35.42 5.28
2324 9276 1.202405 CCCAATAAAAGATGCACGGGC 60.202 52.381 0.34 0.34 41.68 6.13
2325 9277 1.533756 CCAATAAAAGATGCACGGGCG 60.534 52.381 4.58 0.00 45.35 6.13
2326 9278 1.400142 CAATAAAAGATGCACGGGCGA 59.600 47.619 4.58 0.00 45.35 5.54
2327 9279 1.745232 ATAAAAGATGCACGGGCGAA 58.255 45.000 4.58 0.00 45.35 4.70
2328 9280 0.800012 TAAAAGATGCACGGGCGAAC 59.200 50.000 4.58 0.00 45.35 3.95
2329 9281 2.182614 AAAAGATGCACGGGCGAACG 62.183 55.000 4.58 0.00 45.35 3.95
2340 9292 3.284449 GCGAACGGGCCAACAAGT 61.284 61.111 4.39 0.00 0.00 3.16
2341 9293 1.962306 GCGAACGGGCCAACAAGTA 60.962 57.895 4.39 0.00 0.00 2.24
2342 9294 1.908066 GCGAACGGGCCAACAAGTAG 61.908 60.000 4.39 0.00 0.00 2.57
2343 9295 0.320073 CGAACGGGCCAACAAGTAGA 60.320 55.000 4.39 0.00 0.00 2.59
2344 9296 1.154197 GAACGGGCCAACAAGTAGAC 58.846 55.000 4.39 0.00 0.00 2.59
2345 9297 0.470766 AACGGGCCAACAAGTAGACA 59.529 50.000 4.39 0.00 0.00 3.41
2346 9298 0.250166 ACGGGCCAACAAGTAGACAC 60.250 55.000 4.39 0.00 0.00 3.67
2347 9299 0.953960 CGGGCCAACAAGTAGACACC 60.954 60.000 4.39 0.00 0.00 4.16
2348 9300 0.109723 GGGCCAACAAGTAGACACCA 59.890 55.000 4.39 0.00 0.00 4.17
2349 9301 1.235724 GGCCAACAAGTAGACACCAC 58.764 55.000 0.00 0.00 0.00 4.16
2350 9302 0.865769 GCCAACAAGTAGACACCACG 59.134 55.000 0.00 0.00 0.00 4.94
2351 9303 0.865769 CCAACAAGTAGACACCACGC 59.134 55.000 0.00 0.00 0.00 5.34
2352 9304 1.577468 CAACAAGTAGACACCACGCA 58.423 50.000 0.00 0.00 0.00 5.24
2353 9305 1.260561 CAACAAGTAGACACCACGCAC 59.739 52.381 0.00 0.00 0.00 5.34
2354 9306 0.462375 ACAAGTAGACACCACGCACA 59.538 50.000 0.00 0.00 0.00 4.57
2355 9307 1.139989 CAAGTAGACACCACGCACAG 58.860 55.000 0.00 0.00 0.00 3.66
2356 9308 1.037493 AAGTAGACACCACGCACAGA 58.963 50.000 0.00 0.00 0.00 3.41
2357 9309 0.598562 AGTAGACACCACGCACAGAG 59.401 55.000 0.00 0.00 0.00 3.35
2358 9310 0.596577 GTAGACACCACGCACAGAGA 59.403 55.000 0.00 0.00 0.00 3.10
2359 9311 1.202582 GTAGACACCACGCACAGAGAT 59.797 52.381 0.00 0.00 0.00 2.75
2360 9312 0.244994 AGACACCACGCACAGAGATC 59.755 55.000 0.00 0.00 0.00 2.75
2361 9313 1.073216 GACACCACGCACAGAGATCG 61.073 60.000 0.00 0.00 0.00 3.69
2362 9314 1.080501 CACCACGCACAGAGATCGT 60.081 57.895 0.00 0.00 36.84 3.73
2364 9316 3.772636 CACGCACAGAGATCGTGG 58.227 61.111 6.15 0.00 46.68 4.94
2365 9317 1.807165 CACGCACAGAGATCGTGGG 60.807 63.158 12.60 12.60 46.68 4.61
2366 9318 1.977009 ACGCACAGAGATCGTGGGA 60.977 57.895 18.60 0.00 46.93 4.37
2367 9319 1.517257 CGCACAGAGATCGTGGGAC 60.517 63.158 9.69 0.00 46.93 4.46
2368 9320 1.591703 GCACAGAGATCGTGGGACA 59.408 57.895 4.66 0.00 34.85 4.02
2369 9321 0.037326 GCACAGAGATCGTGGGACAA 60.037 55.000 4.66 0.00 44.16 3.18
2370 9322 1.608025 GCACAGAGATCGTGGGACAAA 60.608 52.381 4.66 0.00 44.16 2.83
2371 9323 2.766313 CACAGAGATCGTGGGACAAAA 58.234 47.619 3.52 0.00 44.16 2.44
2372 9324 2.480419 CACAGAGATCGTGGGACAAAAC 59.520 50.000 3.52 0.00 44.16 2.43
2373 9325 2.104111 ACAGAGATCGTGGGACAAAACA 59.896 45.455 3.52 0.00 44.16 2.83
2374 9326 3.138304 CAGAGATCGTGGGACAAAACAA 58.862 45.455 0.00 0.00 44.16 2.83
2375 9327 3.058914 CAGAGATCGTGGGACAAAACAAC 60.059 47.826 0.00 0.00 44.16 3.32
2376 9328 1.871039 AGATCGTGGGACAAAACAACG 59.129 47.619 0.00 0.00 44.16 4.10
2377 9329 0.309612 ATCGTGGGACAAAACAACGC 59.690 50.000 0.00 0.00 44.16 4.84
2378 9330 1.652930 CGTGGGACAAAACAACGCG 60.653 57.895 3.53 3.53 44.16 6.01
2379 9331 1.942223 GTGGGACAAAACAACGCGC 60.942 57.895 5.73 0.00 44.16 6.86
2380 9332 2.407428 TGGGACAAAACAACGCGCA 61.407 52.632 5.73 0.00 31.92 6.09
2381 9333 1.226717 GGGACAAAACAACGCGCAA 60.227 52.632 5.73 0.00 0.00 4.85
2382 9334 0.596341 GGGACAAAACAACGCGCAAT 60.596 50.000 5.73 0.00 0.00 3.56
2383 9335 0.775861 GGACAAAACAACGCGCAATC 59.224 50.000 5.73 0.00 0.00 2.67
2384 9336 1.471964 GACAAAACAACGCGCAATCA 58.528 45.000 5.73 0.00 0.00 2.57
2385 9337 1.849219 GACAAAACAACGCGCAATCAA 59.151 42.857 5.73 0.00 0.00 2.57
2386 9338 2.263077 ACAAAACAACGCGCAATCAAA 58.737 38.095 5.73 0.00 0.00 2.69
2387 9339 2.863137 ACAAAACAACGCGCAATCAAAT 59.137 36.364 5.73 0.00 0.00 2.32
2388 9340 3.308323 ACAAAACAACGCGCAATCAAATT 59.692 34.783 5.73 0.00 0.00 1.82
2389 9341 4.201763 ACAAAACAACGCGCAATCAAATTT 60.202 33.333 5.73 0.00 0.00 1.82
2390 9342 4.528531 AAACAACGCGCAATCAAATTTT 57.471 31.818 5.73 0.00 0.00 1.82
2391 9343 5.643339 AAACAACGCGCAATCAAATTTTA 57.357 30.435 5.73 0.00 0.00 1.52
2392 9344 4.623122 ACAACGCGCAATCAAATTTTAC 57.377 36.364 5.73 0.00 0.00 2.01
2393 9345 4.045104 ACAACGCGCAATCAAATTTTACA 58.955 34.783 5.73 0.00 0.00 2.41
2394 9346 4.683781 ACAACGCGCAATCAAATTTTACAT 59.316 33.333 5.73 0.00 0.00 2.29
2395 9347 4.821414 ACGCGCAATCAAATTTTACATG 57.179 36.364 5.73 0.00 0.00 3.21
2396 9348 4.480541 ACGCGCAATCAAATTTTACATGA 58.519 34.783 5.73 0.00 0.00 3.07
2397 9349 5.101628 ACGCGCAATCAAATTTTACATGAT 58.898 33.333 5.73 0.00 35.39 2.45
2398 9350 6.261859 ACGCGCAATCAAATTTTACATGATA 58.738 32.000 5.73 0.00 33.60 2.15
2399 9351 6.917477 ACGCGCAATCAAATTTTACATGATAT 59.083 30.769 5.73 0.00 33.60 1.63
2400 9352 7.434897 ACGCGCAATCAAATTTTACATGATATT 59.565 29.630 5.73 0.00 33.60 1.28
2401 9353 8.268052 CGCGCAATCAAATTTTACATGATATTT 58.732 29.630 8.75 0.00 33.60 1.40
2416 9368 8.162878 ACATGATATTTAAAGCTGACAGATGG 57.837 34.615 6.65 0.00 0.00 3.51
2417 9369 6.624352 TGATATTTAAAGCTGACAGATGGC 57.376 37.500 6.65 0.00 0.00 4.40
2418 9370 6.121590 TGATATTTAAAGCTGACAGATGGCA 58.878 36.000 6.65 0.00 0.00 4.92
2419 9371 6.774170 TGATATTTAAAGCTGACAGATGGCAT 59.226 34.615 6.65 0.00 29.25 4.40
2420 9372 7.938490 TGATATTTAAAGCTGACAGATGGCATA 59.062 33.333 6.65 0.00 29.25 3.14
2421 9373 8.696043 ATATTTAAAGCTGACAGATGGCATAA 57.304 30.769 6.65 0.00 29.25 1.90
2422 9374 7.592885 ATTTAAAGCTGACAGATGGCATAAT 57.407 32.000 6.65 0.00 29.25 1.28
2423 9375 4.913335 AAAGCTGACAGATGGCATAATG 57.087 40.909 6.65 5.22 29.25 1.90
2424 9376 3.851458 AGCTGACAGATGGCATAATGA 57.149 42.857 16.60 0.00 29.25 2.57
2425 9377 4.160642 AGCTGACAGATGGCATAATGAA 57.839 40.909 16.60 5.91 29.25 2.57
2426 9378 4.529897 AGCTGACAGATGGCATAATGAAA 58.470 39.130 16.60 5.63 29.25 2.69
2427 9379 4.951715 AGCTGACAGATGGCATAATGAAAA 59.048 37.500 16.60 3.69 29.25 2.29
2428 9380 5.419788 AGCTGACAGATGGCATAATGAAAAA 59.580 36.000 16.60 1.78 29.25 1.94
2454 9406 8.502161 AGTTCATGAATTTAAAACAAGTACGC 57.498 30.769 12.12 0.00 0.00 4.42
2455 9407 8.132362 AGTTCATGAATTTAAAACAAGTACGCA 58.868 29.630 12.12 0.00 0.00 5.24
2456 9408 8.747666 GTTCATGAATTTAAAACAAGTACGCAA 58.252 29.630 12.12 0.00 0.00 4.85
2457 9409 8.858003 TCATGAATTTAAAACAAGTACGCAAA 57.142 26.923 0.00 0.00 0.00 3.68
2458 9410 8.963130 TCATGAATTTAAAACAAGTACGCAAAG 58.037 29.630 0.00 0.00 0.00 2.77
2459 9411 8.963130 CATGAATTTAAAACAAGTACGCAAAGA 58.037 29.630 0.00 0.00 0.00 2.52
2460 9412 8.912787 TGAATTTAAAACAAGTACGCAAAGAA 57.087 26.923 0.00 0.00 0.00 2.52
2461 9413 9.015577 TGAATTTAAAACAAGTACGCAAAGAAG 57.984 29.630 0.00 0.00 0.00 2.85
2462 9414 9.228636 GAATTTAAAACAAGTACGCAAAGAAGA 57.771 29.630 0.00 0.00 0.00 2.87
2463 9415 9.575783 AATTTAAAACAAGTACGCAAAGAAGAA 57.424 25.926 0.00 0.00 0.00 2.52
2464 9416 8.967552 TTTAAAACAAGTACGCAAAGAAGAAA 57.032 26.923 0.00 0.00 0.00 2.52
2465 9417 8.967552 TTAAAACAAGTACGCAAAGAAGAAAA 57.032 26.923 0.00 0.00 0.00 2.29
2466 9418 7.876896 AAAACAAGTACGCAAAGAAGAAAAA 57.123 28.000 0.00 0.00 0.00 1.94
2541 9493 2.723273 AGGACGGATCATTTTTCCACC 58.277 47.619 0.00 0.00 32.45 4.61
2565 9518 4.561735 TTTTCGTCCATCAGGTGTTTTC 57.438 40.909 0.00 0.00 35.89 2.29
2568 9521 1.876416 CGTCCATCAGGTGTTTTCCGT 60.876 52.381 0.00 0.00 35.89 4.69
2626 9579 3.253677 TCTGTCCGTTGTTTTTGTGTTGT 59.746 39.130 0.00 0.00 0.00 3.32
2628 9581 4.724303 TGTCCGTTGTTTTTGTGTTGTAG 58.276 39.130 0.00 0.00 0.00 2.74
2700 9653 1.374252 CTGCCCGCGTAGTTCAAGT 60.374 57.895 4.92 0.00 0.00 3.16
2720 9673 2.335011 GCTCGCACAAACCAACCC 59.665 61.111 0.00 0.00 0.00 4.11
2730 9683 1.339929 CAAACCAACCCACCTAGCAAC 59.660 52.381 0.00 0.00 0.00 4.17
2732 9685 1.357272 ACCAACCCACCTAGCAACCA 61.357 55.000 0.00 0.00 0.00 3.67
2733 9686 0.893727 CCAACCCACCTAGCAACCAC 60.894 60.000 0.00 0.00 0.00 4.16
2734 9687 0.110486 CAACCCACCTAGCAACCACT 59.890 55.000 0.00 0.00 0.00 4.00
2741 9694 3.214328 CACCTAGCAACCACTCTTTGTT 58.786 45.455 0.00 0.00 0.00 2.83
2743 9696 2.554032 CCTAGCAACCACTCTTTGTTGG 59.446 50.000 4.74 0.00 41.62 3.77
2796 9749 2.251040 GCCTCGCGGAAAATCTTTTTC 58.749 47.619 6.13 4.51 0.00 2.29
2802 9755 5.768317 TCGCGGAAAATCTTTTTCTTTCAT 58.232 33.333 6.13 0.00 31.93 2.57
2803 9756 5.629020 TCGCGGAAAATCTTTTTCTTTCATG 59.371 36.000 6.13 0.00 31.93 3.07
2808 9761 6.366061 GGAAAATCTTTTTCTTTCATGGTCCG 59.634 38.462 11.31 0.00 31.93 4.79
2810 9763 3.218453 TCTTTTTCTTTCATGGTCCGCA 58.782 40.909 0.00 0.00 0.00 5.69
2815 9768 1.071542 TCTTTCATGGTCCGCACTTCA 59.928 47.619 0.00 0.00 0.00 3.02
2826 9779 1.021390 CGCACTTCACCAGATCCCAC 61.021 60.000 0.00 0.00 0.00 4.61
2827 9780 0.326264 GCACTTCACCAGATCCCACT 59.674 55.000 0.00 0.00 0.00 4.00
2833 9786 2.224159 ACCAGATCCCACTGCGGTT 61.224 57.895 0.00 0.00 36.67 4.44
2834 9787 1.746615 CCAGATCCCACTGCGGTTG 60.747 63.158 0.00 0.00 36.67 3.77
2838 9791 3.210012 ATCCCACTGCGGTTGCCTT 62.210 57.895 0.00 0.00 41.78 4.35
2839 9792 3.673484 CCCACTGCGGTTGCCTTG 61.673 66.667 0.00 0.00 41.78 3.61
2869 9829 4.461119 TCAGCCCGTTCTGAGGAT 57.539 55.556 0.36 0.00 38.11 3.24
2870 9830 2.683916 TCAGCCCGTTCTGAGGATT 58.316 52.632 0.36 0.00 38.11 3.01
2871 9831 0.537188 TCAGCCCGTTCTGAGGATTC 59.463 55.000 0.36 0.00 38.11 2.52
2872 9832 0.807667 CAGCCCGTTCTGAGGATTCG 60.808 60.000 0.00 0.00 36.19 3.34
2873 9833 0.970937 AGCCCGTTCTGAGGATTCGA 60.971 55.000 0.00 0.00 0.00 3.71
2874 9834 0.108329 GCCCGTTCTGAGGATTCGAA 60.108 55.000 0.00 0.00 0.00 3.71
2875 9835 1.641577 CCCGTTCTGAGGATTCGAAC 58.358 55.000 0.00 0.00 35.47 3.95
2876 9836 1.641577 CCGTTCTGAGGATTCGAACC 58.358 55.000 0.00 4.22 35.42 3.62
2877 9837 1.641577 CGTTCTGAGGATTCGAACCC 58.358 55.000 0.00 0.00 35.42 4.11
2878 9838 1.204941 CGTTCTGAGGATTCGAACCCT 59.795 52.381 12.11 12.11 35.42 4.34
2879 9839 2.622436 GTTCTGAGGATTCGAACCCTG 58.378 52.381 18.27 2.01 34.11 4.45
2880 9840 0.537188 TCTGAGGATTCGAACCCTGC 59.463 55.000 18.27 8.42 31.84 4.85
2881 9841 0.462759 CTGAGGATTCGAACCCTGCC 60.463 60.000 18.27 2.51 31.84 4.85
2882 9842 1.198094 TGAGGATTCGAACCCTGCCA 61.198 55.000 18.27 5.72 31.84 4.92
2883 9843 0.462759 GAGGATTCGAACCCTGCCAG 60.463 60.000 18.27 0.00 31.84 4.85
2884 9844 1.201429 AGGATTCGAACCCTGCCAGT 61.201 55.000 11.34 0.00 0.00 4.00
2889 9849 1.375523 CGAACCCTGCCAGTGTACC 60.376 63.158 0.00 0.00 0.00 3.34
2899 9859 2.038329 AGTGTACCCAGCCCGCTA 59.962 61.111 0.00 0.00 0.00 4.26
3006 9968 0.106419 AAAAGGAAACGCAGTGGGGA 60.106 50.000 12.33 0.00 45.00 4.81
3007 9969 0.112412 AAAGGAAACGCAGTGGGGAT 59.888 50.000 12.33 0.00 45.00 3.85
3008 9970 0.322546 AAGGAAACGCAGTGGGGATC 60.323 55.000 12.33 8.77 45.00 3.36
3009 9971 1.002624 GGAAACGCAGTGGGGATCA 60.003 57.895 12.33 0.00 45.00 2.92
3012 9975 1.818674 GAAACGCAGTGGGGATCAAAT 59.181 47.619 12.33 0.00 45.00 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
67 68 3.744660 AGCTTTCGAAATCAGACTTGGT 58.255 40.909 11.70 0.00 0.00 3.67
270 271 1.488705 AATCCAGGAACGCCACCTCA 61.489 55.000 0.00 0.00 35.35 3.86
304 305 1.681327 GACGGAGGTGGAGGCAGTA 60.681 63.158 0.00 0.00 0.00 2.74
430 435 1.272928 TGCCTTGCCCATTCCAACATA 60.273 47.619 0.00 0.00 0.00 2.29
475 480 2.982130 GTCACCCCTCTGTCGCAT 59.018 61.111 0.00 0.00 0.00 4.73
491 496 0.934436 GCAAAAACAGATGCACGCGT 60.934 50.000 5.58 5.58 42.12 6.01
548 553 8.875168 CAGAAGGGTTGATATAAGTAGGAGATT 58.125 37.037 0.00 0.00 0.00 2.40
556 561 4.164988 AGCTGCAGAAGGGTTGATATAAGT 59.835 41.667 20.43 0.00 0.00 2.24
796 801 1.818674 GCCAACATCTTCGGTTTCCAT 59.181 47.619 0.00 0.00 0.00 3.41
869 875 1.227645 GGAGCGCTGCCATGATGTA 60.228 57.895 18.48 0.00 0.00 2.29
1081 1088 1.676384 GCTCCTCTGCACTCCAACT 59.324 57.895 0.00 0.00 0.00 3.16
1138 1145 0.874390 GCACTGAAGATTGCGTGGAA 59.126 50.000 0.00 0.00 0.00 3.53
1174 1181 0.683504 GCTACCTCTCCTGACCCGAA 60.684 60.000 0.00 0.00 0.00 4.30
1269 5620 1.651770 ACAGATCTCCCCCTGTCCTTA 59.348 52.381 0.00 0.00 39.19 2.69
1308 5660 2.877097 TGTCATGTACCCAAGCATGT 57.123 45.000 0.00 0.00 42.09 3.21
1311 5664 1.818060 GCAATGTCATGTACCCAAGCA 59.182 47.619 0.00 0.00 0.00 3.91
1375 5728 1.817520 TGGCGTGTGCAATATCCCG 60.818 57.895 0.00 0.00 45.35 5.14
1802 8751 2.471815 AGGTGTCATCGGGGATAAGA 57.528 50.000 0.00 0.00 0.00 2.10
1815 8764 0.951040 CGAGTGGAGGCAAAGGTGTC 60.951 60.000 0.00 0.00 0.00 3.67
1874 8823 3.181510 CCGTGTCAAAATTCCTTCGGATC 60.182 47.826 0.00 0.00 39.17 3.36
1942 8891 1.004044 CTGCCACCTGGTCAAAGATCT 59.996 52.381 0.00 0.00 37.57 2.75
2148 9099 3.515901 AGTTTACAAACAACCCTGCCAAA 59.484 39.130 7.53 0.00 41.30 3.28
2158 9109 5.258051 ACTGAACCCAGAGTTTACAAACAA 58.742 37.500 7.53 0.00 43.02 2.83
2223 9175 4.379339 GCCATTGGCCGAACTTTATTAA 57.621 40.909 17.28 0.00 44.06 1.40
2255 9207 4.358851 CTGTTTCGGATTGTTTTTGCTCA 58.641 39.130 0.00 0.00 0.00 4.26
2256 9208 3.735746 CCTGTTTCGGATTGTTTTTGCTC 59.264 43.478 0.00 0.00 0.00 4.26
2257 9209 3.383185 TCCTGTTTCGGATTGTTTTTGCT 59.617 39.130 0.00 0.00 0.00 3.91
2258 9210 3.489416 GTCCTGTTTCGGATTGTTTTTGC 59.511 43.478 0.00 0.00 35.11 3.68
2259 9211 4.048504 GGTCCTGTTTCGGATTGTTTTTG 58.951 43.478 0.00 0.00 35.11 2.44
2260 9212 3.069016 GGGTCCTGTTTCGGATTGTTTTT 59.931 43.478 0.00 0.00 35.11 1.94
2261 9213 2.626266 GGGTCCTGTTTCGGATTGTTTT 59.374 45.455 0.00 0.00 35.11 2.43
2262 9214 2.235891 GGGTCCTGTTTCGGATTGTTT 58.764 47.619 0.00 0.00 35.11 2.83
2263 9215 1.144093 TGGGTCCTGTTTCGGATTGTT 59.856 47.619 0.00 0.00 35.11 2.83
2264 9216 0.768622 TGGGTCCTGTTTCGGATTGT 59.231 50.000 0.00 0.00 35.11 2.71
2265 9217 1.812571 CTTGGGTCCTGTTTCGGATTG 59.187 52.381 0.00 0.00 35.11 2.67
2266 9218 1.702957 TCTTGGGTCCTGTTTCGGATT 59.297 47.619 0.00 0.00 35.11 3.01
2267 9219 1.003233 GTCTTGGGTCCTGTTTCGGAT 59.997 52.381 0.00 0.00 35.11 4.18
2268 9220 0.395312 GTCTTGGGTCCTGTTTCGGA 59.605 55.000 0.00 0.00 0.00 4.55
2269 9221 0.605589 GGTCTTGGGTCCTGTTTCGG 60.606 60.000 0.00 0.00 0.00 4.30
2270 9222 0.107831 TGGTCTTGGGTCCTGTTTCG 59.892 55.000 0.00 0.00 0.00 3.46
2271 9223 2.162681 CATGGTCTTGGGTCCTGTTTC 58.837 52.381 0.00 0.00 0.00 2.78
2272 9224 1.823250 GCATGGTCTTGGGTCCTGTTT 60.823 52.381 0.00 0.00 0.00 2.83
2273 9225 0.251341 GCATGGTCTTGGGTCCTGTT 60.251 55.000 0.00 0.00 0.00 3.16
2274 9226 1.136329 AGCATGGTCTTGGGTCCTGT 61.136 55.000 0.00 0.00 0.00 4.00
2275 9227 0.679002 CAGCATGGTCTTGGGTCCTG 60.679 60.000 0.00 0.00 0.00 3.86
2276 9228 1.687612 CAGCATGGTCTTGGGTCCT 59.312 57.895 0.00 0.00 0.00 3.85
2277 9229 2.048603 GCAGCATGGTCTTGGGTCC 61.049 63.158 0.00 0.00 35.86 4.46
2278 9230 2.401766 CGCAGCATGGTCTTGGGTC 61.402 63.158 0.00 0.00 35.86 4.46
2279 9231 2.360350 CGCAGCATGGTCTTGGGT 60.360 61.111 0.00 0.00 35.86 4.51
2280 9232 1.243342 TTTCGCAGCATGGTCTTGGG 61.243 55.000 0.00 0.00 35.86 4.12
2281 9233 0.597568 TTTTCGCAGCATGGTCTTGG 59.402 50.000 0.00 0.00 35.86 3.61
2282 9234 2.256174 CATTTTCGCAGCATGGTCTTG 58.744 47.619 0.00 0.00 35.86 3.02
2283 9235 1.203052 CCATTTTCGCAGCATGGTCTT 59.797 47.619 0.00 0.00 35.86 3.01
2284 9236 0.813184 CCATTTTCGCAGCATGGTCT 59.187 50.000 0.00 0.00 35.86 3.85
2285 9237 0.803380 GCCATTTTCGCAGCATGGTC 60.803 55.000 10.42 1.29 39.88 4.02
2286 9238 1.216178 GCCATTTTCGCAGCATGGT 59.784 52.632 10.42 0.00 39.88 3.55
2287 9239 1.519898 GGCCATTTTCGCAGCATGG 60.520 57.895 0.00 5.29 40.58 3.66
2288 9240 1.519898 GGGCCATTTTCGCAGCATG 60.520 57.895 4.39 0.00 40.87 4.06
2289 9241 1.543065 TTGGGCCATTTTCGCAGCAT 61.543 50.000 7.26 0.00 0.00 3.79
2290 9242 1.543065 ATTGGGCCATTTTCGCAGCA 61.543 50.000 7.26 0.00 0.00 4.41
2291 9243 0.459489 TATTGGGCCATTTTCGCAGC 59.541 50.000 7.26 0.00 0.00 5.25
2292 9244 2.957491 TTATTGGGCCATTTTCGCAG 57.043 45.000 7.26 0.00 0.00 5.18
2293 9245 3.259374 TCTTTTATTGGGCCATTTTCGCA 59.741 39.130 7.26 0.00 0.00 5.10
2294 9246 3.855858 TCTTTTATTGGGCCATTTTCGC 58.144 40.909 7.26 0.00 0.00 4.70
2295 9247 4.270808 GCATCTTTTATTGGGCCATTTTCG 59.729 41.667 7.26 0.00 0.00 3.46
2296 9248 5.065090 GTGCATCTTTTATTGGGCCATTTTC 59.935 40.000 7.26 0.00 0.00 2.29
2297 9249 4.943093 GTGCATCTTTTATTGGGCCATTTT 59.057 37.500 7.26 0.00 0.00 1.82
2298 9250 4.516323 GTGCATCTTTTATTGGGCCATTT 58.484 39.130 7.26 0.00 0.00 2.32
2299 9251 3.430651 CGTGCATCTTTTATTGGGCCATT 60.431 43.478 7.26 6.61 0.00 3.16
2300 9252 2.101249 CGTGCATCTTTTATTGGGCCAT 59.899 45.455 7.26 0.00 0.00 4.40
2301 9253 1.476085 CGTGCATCTTTTATTGGGCCA 59.524 47.619 0.00 0.00 0.00 5.36
2302 9254 1.202405 CCGTGCATCTTTTATTGGGCC 60.202 52.381 0.00 0.00 0.00 5.80
2303 9255 1.202405 CCCGTGCATCTTTTATTGGGC 60.202 52.381 0.00 0.00 0.00 5.36
2304 9256 1.202405 GCCCGTGCATCTTTTATTGGG 60.202 52.381 0.00 0.00 38.47 4.12
2305 9257 1.533756 CGCCCGTGCATCTTTTATTGG 60.534 52.381 0.00 0.00 37.32 3.16
2306 9258 1.400142 TCGCCCGTGCATCTTTTATTG 59.600 47.619 0.00 0.00 37.32 1.90
2307 9259 1.745232 TCGCCCGTGCATCTTTTATT 58.255 45.000 0.00 0.00 37.32 1.40
2308 9260 1.400494 GTTCGCCCGTGCATCTTTTAT 59.600 47.619 0.00 0.00 37.32 1.40
2309 9261 0.800012 GTTCGCCCGTGCATCTTTTA 59.200 50.000 0.00 0.00 37.32 1.52
2310 9262 1.579429 GTTCGCCCGTGCATCTTTT 59.421 52.632 0.00 0.00 37.32 2.27
2311 9263 2.677003 CGTTCGCCCGTGCATCTTT 61.677 57.895 0.00 0.00 37.32 2.52
2312 9264 3.118454 CGTTCGCCCGTGCATCTT 61.118 61.111 0.00 0.00 37.32 2.40
2323 9275 1.908066 CTACTTGTTGGCCCGTTCGC 61.908 60.000 0.00 0.00 0.00 4.70
2324 9276 0.320073 TCTACTTGTTGGCCCGTTCG 60.320 55.000 0.00 0.00 0.00 3.95
2325 9277 1.154197 GTCTACTTGTTGGCCCGTTC 58.846 55.000 0.00 0.00 0.00 3.95
2326 9278 0.470766 TGTCTACTTGTTGGCCCGTT 59.529 50.000 0.00 0.00 0.00 4.44
2327 9279 0.250166 GTGTCTACTTGTTGGCCCGT 60.250 55.000 0.00 0.00 0.00 5.28
2328 9280 0.953960 GGTGTCTACTTGTTGGCCCG 60.954 60.000 0.00 0.00 0.00 6.13
2329 9281 0.109723 TGGTGTCTACTTGTTGGCCC 59.890 55.000 0.00 0.00 0.00 5.80
2330 9282 1.235724 GTGGTGTCTACTTGTTGGCC 58.764 55.000 0.00 0.00 0.00 5.36
2331 9283 0.865769 CGTGGTGTCTACTTGTTGGC 59.134 55.000 0.00 0.00 0.00 4.52
2332 9284 0.865769 GCGTGGTGTCTACTTGTTGG 59.134 55.000 0.00 0.00 0.00 3.77
2333 9285 1.260561 GTGCGTGGTGTCTACTTGTTG 59.739 52.381 0.00 0.00 0.00 3.33
2334 9286 1.134640 TGTGCGTGGTGTCTACTTGTT 60.135 47.619 0.00 0.00 0.00 2.83
2335 9287 0.462375 TGTGCGTGGTGTCTACTTGT 59.538 50.000 0.00 0.00 0.00 3.16
2336 9288 1.139989 CTGTGCGTGGTGTCTACTTG 58.860 55.000 0.00 0.00 0.00 3.16
2337 9289 1.000163 CTCTGTGCGTGGTGTCTACTT 60.000 52.381 0.00 0.00 0.00 2.24
2338 9290 0.598562 CTCTGTGCGTGGTGTCTACT 59.401 55.000 0.00 0.00 0.00 2.57
2339 9291 0.596577 TCTCTGTGCGTGGTGTCTAC 59.403 55.000 0.00 0.00 0.00 2.59
2340 9292 1.472878 GATCTCTGTGCGTGGTGTCTA 59.527 52.381 0.00 0.00 0.00 2.59
2341 9293 0.244994 GATCTCTGTGCGTGGTGTCT 59.755 55.000 0.00 0.00 0.00 3.41
2342 9294 1.073216 CGATCTCTGTGCGTGGTGTC 61.073 60.000 0.00 0.00 0.00 3.67
2343 9295 1.080501 CGATCTCTGTGCGTGGTGT 60.081 57.895 0.00 0.00 0.00 4.16
2344 9296 1.080501 ACGATCTCTGTGCGTGGTG 60.081 57.895 0.00 0.00 36.83 4.17
2345 9297 3.366629 ACGATCTCTGTGCGTGGT 58.633 55.556 0.00 0.00 36.83 4.16
2348 9300 1.977009 TCCCACGATCTCTGTGCGT 60.977 57.895 0.00 0.00 39.04 5.24
2349 9301 1.517257 GTCCCACGATCTCTGTGCG 60.517 63.158 0.00 0.00 36.01 5.34
2350 9302 0.037326 TTGTCCCACGATCTCTGTGC 60.037 55.000 0.00 0.00 36.01 4.57
2351 9303 2.455674 TTTGTCCCACGATCTCTGTG 57.544 50.000 0.00 0.00 37.09 3.66
2352 9304 2.104111 TGTTTTGTCCCACGATCTCTGT 59.896 45.455 0.00 0.00 0.00 3.41
2353 9305 2.766313 TGTTTTGTCCCACGATCTCTG 58.234 47.619 0.00 0.00 0.00 3.35
2354 9306 3.139077 GTTGTTTTGTCCCACGATCTCT 58.861 45.455 0.00 0.00 0.00 3.10
2355 9307 2.096417 CGTTGTTTTGTCCCACGATCTC 60.096 50.000 0.00 0.00 0.00 2.75
2356 9308 1.871039 CGTTGTTTTGTCCCACGATCT 59.129 47.619 0.00 0.00 0.00 2.75
2357 9309 1.662026 GCGTTGTTTTGTCCCACGATC 60.662 52.381 0.00 0.00 0.00 3.69
2358 9310 0.309612 GCGTTGTTTTGTCCCACGAT 59.690 50.000 0.00 0.00 0.00 3.73
2359 9311 1.722677 GCGTTGTTTTGTCCCACGA 59.277 52.632 0.00 0.00 0.00 4.35
2360 9312 1.652930 CGCGTTGTTTTGTCCCACG 60.653 57.895 0.00 0.00 0.00 4.94
2361 9313 1.942223 GCGCGTTGTTTTGTCCCAC 60.942 57.895 8.43 0.00 0.00 4.61
2362 9314 1.934220 TTGCGCGTTGTTTTGTCCCA 61.934 50.000 8.43 0.00 0.00 4.37
2363 9315 0.596341 ATTGCGCGTTGTTTTGTCCC 60.596 50.000 8.43 0.00 0.00 4.46
2364 9316 0.775861 GATTGCGCGTTGTTTTGTCC 59.224 50.000 8.43 0.00 0.00 4.02
2365 9317 1.471964 TGATTGCGCGTTGTTTTGTC 58.528 45.000 8.43 0.00 0.00 3.18
2366 9318 1.914634 TTGATTGCGCGTTGTTTTGT 58.085 40.000 8.43 0.00 0.00 2.83
2367 9319 2.986842 TTTGATTGCGCGTTGTTTTG 57.013 40.000 8.43 0.00 0.00 2.44
2368 9320 4.528531 AAATTTGATTGCGCGTTGTTTT 57.471 31.818 8.43 0.00 0.00 2.43
2369 9321 4.528531 AAAATTTGATTGCGCGTTGTTT 57.471 31.818 8.43 0.00 0.00 2.83
2370 9322 4.504461 TGTAAAATTTGATTGCGCGTTGTT 59.496 33.333 8.43 0.00 0.00 2.83
2371 9323 4.045104 TGTAAAATTTGATTGCGCGTTGT 58.955 34.783 8.43 0.00 0.00 3.32
2372 9324 4.621526 TGTAAAATTTGATTGCGCGTTG 57.378 36.364 8.43 0.00 0.00 4.10
2373 9325 4.920340 TCATGTAAAATTTGATTGCGCGTT 59.080 33.333 8.43 0.00 0.00 4.84
2374 9326 4.480541 TCATGTAAAATTTGATTGCGCGT 58.519 34.783 8.43 0.00 0.00 6.01
2375 9327 5.624715 ATCATGTAAAATTTGATTGCGCG 57.375 34.783 0.00 0.00 0.00 6.86
2390 9342 9.276590 CCATCTGTCAGCTTTAAATATCATGTA 57.723 33.333 0.00 0.00 0.00 2.29
2391 9343 7.255381 GCCATCTGTCAGCTTTAAATATCATGT 60.255 37.037 0.00 0.00 0.00 3.21
2392 9344 7.082602 GCCATCTGTCAGCTTTAAATATCATG 58.917 38.462 0.00 0.00 0.00 3.07
2393 9345 6.774170 TGCCATCTGTCAGCTTTAAATATCAT 59.226 34.615 0.00 0.00 0.00 2.45
2394 9346 6.121590 TGCCATCTGTCAGCTTTAAATATCA 58.878 36.000 0.00 0.00 0.00 2.15
2395 9347 6.624352 TGCCATCTGTCAGCTTTAAATATC 57.376 37.500 0.00 0.00 0.00 1.63
2396 9348 8.696043 TTATGCCATCTGTCAGCTTTAAATAT 57.304 30.769 0.00 0.00 0.00 1.28
2397 9349 8.570488 CATTATGCCATCTGTCAGCTTTAAATA 58.430 33.333 0.00 0.00 0.00 1.40
2398 9350 7.286087 TCATTATGCCATCTGTCAGCTTTAAAT 59.714 33.333 0.00 0.00 0.00 1.40
2399 9351 6.602803 TCATTATGCCATCTGTCAGCTTTAAA 59.397 34.615 0.00 0.00 0.00 1.52
2400 9352 6.121590 TCATTATGCCATCTGTCAGCTTTAA 58.878 36.000 0.00 0.00 0.00 1.52
2401 9353 5.683681 TCATTATGCCATCTGTCAGCTTTA 58.316 37.500 0.00 0.00 0.00 1.85
2402 9354 4.529897 TCATTATGCCATCTGTCAGCTTT 58.470 39.130 0.00 0.00 0.00 3.51
2403 9355 4.160642 TCATTATGCCATCTGTCAGCTT 57.839 40.909 0.00 0.00 0.00 3.74
2404 9356 3.851458 TCATTATGCCATCTGTCAGCT 57.149 42.857 0.00 0.00 0.00 4.24
2405 9357 4.906065 TTTCATTATGCCATCTGTCAGC 57.094 40.909 0.00 0.00 0.00 4.26
2428 9380 8.964150 GCGTACTTGTTTTAAATTCATGAACTT 58.036 29.630 11.07 9.05 0.00 2.66
2429 9381 8.132362 TGCGTACTTGTTTTAAATTCATGAACT 58.868 29.630 11.07 0.00 0.00 3.01
2430 9382 8.276060 TGCGTACTTGTTTTAAATTCATGAAC 57.724 30.769 11.07 0.00 0.00 3.18
2431 9383 8.858003 TTGCGTACTTGTTTTAAATTCATGAA 57.142 26.923 11.26 11.26 0.00 2.57
2432 9384 8.858003 TTTGCGTACTTGTTTTAAATTCATGA 57.142 26.923 0.00 0.00 0.00 3.07
2433 9385 8.963130 TCTTTGCGTACTTGTTTTAAATTCATG 58.037 29.630 0.00 0.00 0.00 3.07
2434 9386 9.522804 TTCTTTGCGTACTTGTTTTAAATTCAT 57.477 25.926 0.00 0.00 0.00 2.57
2435 9387 8.912787 TTCTTTGCGTACTTGTTTTAAATTCA 57.087 26.923 0.00 0.00 0.00 2.57
2436 9388 9.228636 TCTTCTTTGCGTACTTGTTTTAAATTC 57.771 29.630 0.00 0.00 0.00 2.17
2437 9389 9.575783 TTCTTCTTTGCGTACTTGTTTTAAATT 57.424 25.926 0.00 0.00 0.00 1.82
2438 9390 9.575783 TTTCTTCTTTGCGTACTTGTTTTAAAT 57.424 25.926 0.00 0.00 0.00 1.40
2439 9391 8.967552 TTTCTTCTTTGCGTACTTGTTTTAAA 57.032 26.923 0.00 0.00 0.00 1.52
2440 9392 8.967552 TTTTCTTCTTTGCGTACTTGTTTTAA 57.032 26.923 0.00 0.00 0.00 1.52
2441 9393 8.967552 TTTTTCTTCTTTGCGTACTTGTTTTA 57.032 26.923 0.00 0.00 0.00 1.52
2442 9394 7.876896 TTTTTCTTCTTTGCGTACTTGTTTT 57.123 28.000 0.00 0.00 0.00 2.43
2513 9465 9.196139 TGGAAAAATGATCCGTCCTTTAATATT 57.804 29.630 0.00 0.00 39.98 1.28
2514 9466 8.630037 GTGGAAAAATGATCCGTCCTTTAATAT 58.370 33.333 0.00 0.00 39.98 1.28
2515 9467 7.067737 GGTGGAAAAATGATCCGTCCTTTAATA 59.932 37.037 0.00 0.00 39.98 0.98
2516 9468 6.127451 GGTGGAAAAATGATCCGTCCTTTAAT 60.127 38.462 0.00 0.00 39.98 1.40
2517 9469 5.184287 GGTGGAAAAATGATCCGTCCTTTAA 59.816 40.000 0.00 0.00 39.98 1.52
2518 9470 4.703093 GGTGGAAAAATGATCCGTCCTTTA 59.297 41.667 0.00 0.00 39.98 1.85
2519 9471 3.509967 GGTGGAAAAATGATCCGTCCTTT 59.490 43.478 0.00 0.00 39.98 3.11
2549 9501 1.892209 ACGGAAAACACCTGATGGAC 58.108 50.000 0.00 0.00 37.04 4.02
2553 9505 2.409975 CACGTACGGAAAACACCTGAT 58.590 47.619 21.06 0.00 0.00 2.90
2555 9507 0.233848 GCACGTACGGAAAACACCTG 59.766 55.000 21.06 6.29 0.00 4.00
2583 9536 3.947910 AAAAAGAGGACGTACGGATGA 57.052 42.857 21.06 0.00 0.00 2.92
2606 9559 3.644884 ACAACACAAAAACAACGGACA 57.355 38.095 0.00 0.00 0.00 4.02
2608 9561 5.624344 TTCTACAACACAAAAACAACGGA 57.376 34.783 0.00 0.00 0.00 4.69
2635 9588 9.905171 ATTTTAATTTTAATTTTGGCACGCAAT 57.095 22.222 0.00 0.00 0.00 3.56
2639 9592 8.719478 TGCATTTTAATTTTAATTTTGGCACG 57.281 26.923 0.00 0.00 0.00 5.34
2651 9604 9.520204 CGAGTCCTCATAATGCATTTTAATTTT 57.480 29.630 18.75 0.00 0.00 1.82
2668 9621 2.283529 GGCAGGGTTCGAGTCCTCA 61.284 63.158 5.76 0.00 0.00 3.86
2709 9662 0.553819 TGCTAGGTGGGTTGGTTTGT 59.446 50.000 0.00 0.00 0.00 2.83
2717 9670 0.473886 AGAGTGGTTGCTAGGTGGGT 60.474 55.000 0.00 0.00 0.00 4.51
2720 9673 2.851195 ACAAAGAGTGGTTGCTAGGTG 58.149 47.619 0.00 0.00 0.00 4.00
2741 9694 7.659652 AAAATGAGTTTTTCGTTGTTTTCCA 57.340 28.000 0.00 0.00 35.23 3.53
2751 9704 7.007099 GCCGTACAGAATAAAATGAGTTTTTCG 59.993 37.037 0.00 0.00 38.47 3.46
2759 9712 4.116961 CGAGGCCGTACAGAATAAAATGA 58.883 43.478 0.00 0.00 0.00 2.57
2761 9714 2.870411 GCGAGGCCGTACAGAATAAAAT 59.130 45.455 0.00 0.00 38.24 1.82
2796 9749 1.197721 GTGAAGTGCGGACCATGAAAG 59.802 52.381 2.38 0.00 0.00 2.62
2802 9755 1.480212 ATCTGGTGAAGTGCGGACCA 61.480 55.000 2.38 0.00 37.43 4.02
2803 9756 0.741221 GATCTGGTGAAGTGCGGACC 60.741 60.000 2.38 0.00 0.00 4.46
2808 9761 0.326264 AGTGGGATCTGGTGAAGTGC 59.674 55.000 0.00 0.00 0.00 4.40
2810 9763 0.326264 GCAGTGGGATCTGGTGAAGT 59.674 55.000 0.00 0.00 36.12 3.01
2815 9768 2.224159 AACCGCAGTGGGATCTGGT 61.224 57.895 9.09 0.00 44.64 4.00
2861 9821 0.537188 GCAGGGTTCGAATCCTCAGA 59.463 55.000 27.39 0.00 37.45 3.27
2862 9822 0.462759 GGCAGGGTTCGAATCCTCAG 60.463 60.000 27.39 17.84 37.45 3.35
2863 9823 1.198094 TGGCAGGGTTCGAATCCTCA 61.198 55.000 27.39 19.72 37.45 3.86
2864 9824 0.462759 CTGGCAGGGTTCGAATCCTC 60.463 60.000 27.39 19.97 37.45 3.71
2865 9825 1.201429 ACTGGCAGGGTTCGAATCCT 61.201 55.000 24.69 24.69 41.23 3.24
2866 9826 1.026718 CACTGGCAGGGTTCGAATCC 61.027 60.000 20.31 20.31 0.00 3.01
2867 9827 0.321653 ACACTGGCAGGGTTCGAATC 60.322 55.000 18.61 0.00 0.00 2.52
2868 9828 0.981183 TACACTGGCAGGGTTCGAAT 59.019 50.000 29.75 3.78 31.80 3.34
2869 9829 0.034337 GTACACTGGCAGGGTTCGAA 59.966 55.000 29.75 6.89 31.80 3.71
2870 9830 1.669440 GTACACTGGCAGGGTTCGA 59.331 57.895 29.75 7.33 31.80 3.71
2871 9831 1.375523 GGTACACTGGCAGGGTTCG 60.376 63.158 29.75 8.11 31.80 3.95
2872 9832 1.002502 GGGTACACTGGCAGGGTTC 60.003 63.158 29.75 22.98 31.80 3.62
2873 9833 1.772567 TGGGTACACTGGCAGGGTT 60.773 57.895 29.75 12.33 31.80 4.11
2874 9834 2.122144 TGGGTACACTGGCAGGGT 60.122 61.111 27.63 27.63 35.11 4.34
2875 9835 2.671070 CTGGGTACACTGGCAGGG 59.329 66.667 16.86 16.86 0.00 4.45
2876 9836 2.045926 GCTGGGTACACTGGCAGG 60.046 66.667 20.34 10.34 0.00 4.85
2877 9837 2.045926 GGCTGGGTACACTGGCAG 60.046 66.667 21.45 14.16 35.43 4.85
2878 9838 3.646715 GGGCTGGGTACACTGGCA 61.647 66.667 26.15 0.00 36.74 4.92
2879 9839 4.778143 CGGGCTGGGTACACTGGC 62.778 72.222 18.76 18.76 0.00 4.85
2880 9840 4.778143 GCGGGCTGGGTACACTGG 62.778 72.222 4.01 0.00 0.00 4.00
2881 9841 2.355986 TAGCGGGCTGGGTACACTG 61.356 63.158 2.86 0.00 0.00 3.66
2882 9842 2.038329 TAGCGGGCTGGGTACACT 59.962 61.111 2.86 0.00 0.00 3.55
2883 9843 2.186125 GTAGCGGGCTGGGTACAC 59.814 66.667 2.86 0.00 39.90 2.90
2884 9844 2.038329 AGTAGCGGGCTGGGTACA 59.962 61.111 16.48 0.00 41.97 2.90
2889 9849 0.528470 GCTATAGAGTAGCGGGCTGG 59.472 60.000 3.21 0.00 0.00 4.85
2899 9859 7.806180 ACATGAAATTACTTGGGCTATAGAGT 58.194 34.615 3.21 0.33 0.00 3.24
2991 9953 0.608035 TTGATCCCCACTGCGTTTCC 60.608 55.000 0.00 0.00 0.00 3.13
2993 9955 1.818674 GATTTGATCCCCACTGCGTTT 59.181 47.619 0.00 0.00 0.00 3.60
2995 9957 0.394352 GGATTTGATCCCCACTGCGT 60.394 55.000 0.00 0.00 43.88 5.24
2996 9958 2.408333 GGATTTGATCCCCACTGCG 58.592 57.895 0.00 0.00 43.88 5.18
3006 9968 2.173519 CCTGCAGGTGTTGGATTTGAT 58.826 47.619 25.53 0.00 0.00 2.57
3007 9969 1.619654 CCTGCAGGTGTTGGATTTGA 58.380 50.000 25.53 0.00 0.00 2.69


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

AutoCloner maintained by Alex Coulton.