Multiple sequence alignment - TraesCS3A01G293000

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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 TraesCS3A01G293000 chr3A 100.000 2602 0 0 1 2602 523728819 523726218 0.000000e+00 4806.0
1 TraesCS3A01G293000 chr3A 100.000 28 0 0 1 28 53213207 53213234 5.000000e-03 52.8
2 TraesCS3A01G293000 chr3D 92.663 1990 75 30 67 2016 402776184 402774226 0.000000e+00 2800.0
3 TraesCS3A01G293000 chr3D 90.291 103 10 0 2094 2196 402758917 402758815 4.520000e-28 135.0
4 TraesCS3A01G293000 chr3D 89.041 73 4 1 2 70 402776281 402776209 1.280000e-13 87.9
5 TraesCS3A01G293000 chr3B 93.876 1388 51 15 67 1428 528494216 528492837 0.000000e+00 2061.0
6 TraesCS3A01G293000 chr3B 89.014 710 34 17 1494 2196 528492687 528492015 0.000000e+00 839.0
7 TraesCS3A01G293000 chr1A 87.772 368 34 3 2240 2598 514052294 514052659 1.110000e-113 420.0
8 TraesCS3A01G293000 chr7B 86.933 375 38 3 2237 2602 135031043 135031415 6.700000e-111 411.0
9 TraesCS3A01G293000 chr6D 86.933 375 38 3 2237 2602 103039396 103039024 6.700000e-111 411.0
10 TraesCS3A01G293000 chr6D 86.072 359 41 1 2248 2597 45814190 45814548 6.800000e-101 377.0
11 TraesCS3A01G293000 chr5B 88.344 326 37 1 2277 2602 250543476 250543800 8.730000e-105 390.0
12 TraesCS3A01G293000 chr5B 86.857 350 43 2 2241 2588 710810787 710811135 3.140000e-104 388.0
13 TraesCS3A01G293000 chr1B 86.059 373 39 7 2241 2602 48993425 48993055 3.140000e-104 388.0
14 TraesCS3A01G293000 chr7D 85.714 364 43 1 2248 2602 184907334 184906971 2.440000e-100 375.0
15 TraesCS3A01G293000 chr5D 85.128 390 30 17 2231 2602 232406229 232405850 8.790000e-100 374.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS3A01G293000 chr3A 523726218 523728819 2601 True 4806.00 4806 100.000 1 2602 1 chr3A.!!$R1 2601
1 TraesCS3A01G293000 chr3D 402774226 402776281 2055 True 1443.95 2800 90.852 2 2016 2 chr3D.!!$R2 2014
2 TraesCS3A01G293000 chr3B 528492015 528494216 2201 True 1450.00 2061 91.445 67 2196 2 chr3B.!!$R1 2129

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
985 1042 0.603065 TGCCGGTATGATCCATCTCG 59.397 55.0 1.9 0.0 0.0 4.04 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2519 2704 0.10852 CATCAAAGCCACCCATGCAC 60.109 55.0 0.0 0.0 0.0 4.57 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
60 65 3.315142 CTGCGGGTGCTGCTTAGGA 62.315 63.158 0.00 0.00 43.34 2.94
145 178 9.831737 ATTGATTTCAGACGTTATCAAGAAAAG 57.168 29.630 12.84 0.00 39.54 2.27
321 355 3.435327 GCCACAAATGTATGAAGACACGA 59.565 43.478 0.00 0.00 30.52 4.35
338 377 5.066117 AGACACGATATATATGCTACCCACG 59.934 44.000 0.00 0.00 0.00 4.94
366 405 3.312421 GCATATCTGCGGTCAAAAGCTTA 59.688 43.478 0.00 0.00 38.92 3.09
367 406 4.023707 GCATATCTGCGGTCAAAAGCTTAT 60.024 41.667 0.00 0.00 38.92 1.73
449 493 3.614092 TCATGGAAATTCTCAGGAGCAC 58.386 45.455 0.00 0.00 0.00 4.40
479 523 2.486191 CCAGTTTCCAGAAGCAGACAGT 60.486 50.000 0.00 0.00 0.00 3.55
481 525 1.795286 GTTTCCAGAAGCAGACAGTCG 59.205 52.381 0.00 0.00 0.00 4.18
693 743 4.458397 ACATAGGAGATGAACATTGGCTG 58.542 43.478 0.00 0.00 0.00 4.85
747 797 3.594453 TGCTAATGCAGAAAGGGGG 57.406 52.632 0.00 0.00 45.31 5.40
824 877 1.888436 GCCACTCGGACAGGATCACA 61.888 60.000 0.00 0.00 0.00 3.58
841 894 1.608590 CACACCAGGTTCATCCAACAC 59.391 52.381 0.00 0.00 36.61 3.32
976 1033 1.273048 ACGTTGTAACTGCCGGTATGA 59.727 47.619 1.90 0.00 0.00 2.15
985 1042 0.603065 TGCCGGTATGATCCATCTCG 59.397 55.000 1.90 0.00 0.00 4.04
1035 1093 2.409870 CGCCTGGCCAATGAAGGAC 61.410 63.158 14.12 0.00 37.13 3.85
1042 1100 2.295885 GGCCAATGAAGGACATCTCTG 58.704 52.381 0.00 0.00 38.38 3.35
1045 1103 2.681848 CCAATGAAGGACATCTCTGCAC 59.318 50.000 0.00 0.00 38.38 4.57
1074 1132 2.963101 TCAGCACACACCTTGTACTACT 59.037 45.455 0.00 0.00 35.67 2.57
1147 1209 4.618489 GTCTCGCAGTTTAACGTTAGCTAA 59.382 41.667 8.23 0.86 0.00 3.09
1199 1261 2.783275 CTGTCGTGCTCTGCATGC 59.217 61.111 11.82 11.82 44.29 4.06
1470 1551 3.701604 ATTCTCGTGGAGCGTCGGC 62.702 63.158 0.00 0.00 42.13 5.54
1480 1561 3.938112 GCGTCGGCTGGATCATAC 58.062 61.111 0.00 0.00 35.83 2.39
1481 1562 1.364171 GCGTCGGCTGGATCATACT 59.636 57.895 0.00 0.00 35.83 2.12
1482 1563 0.941463 GCGTCGGCTGGATCATACTG 60.941 60.000 0.00 0.00 35.83 2.74
1585 1763 9.607988 TTGGTTTAAGTATAGTCCACACATATG 57.392 33.333 0.00 0.00 0.00 1.78
1587 1765 8.208903 GGTTTAAGTATAGTCCACACATATGGT 58.791 37.037 7.80 0.00 40.95 3.55
1667 1846 5.654497 TCTGTGTAGCAATGATCTACTGTG 58.346 41.667 0.00 0.00 37.78 3.66
1668 1847 5.185828 TCTGTGTAGCAATGATCTACTGTGT 59.814 40.000 0.00 0.00 37.78 3.72
1672 1851 6.642950 GTGTAGCAATGATCTACTGTGTATCC 59.357 42.308 0.00 0.00 37.78 2.59
1695 1874 4.275936 CGTGAAGACTGGATTGTCCTTTTT 59.724 41.667 0.00 0.00 37.46 1.94
1706 1885 5.185828 GGATTGTCCTTTTTAGCTTGGTCAT 59.814 40.000 0.00 0.00 32.53 3.06
1707 1886 5.705609 TTGTCCTTTTTAGCTTGGTCATC 57.294 39.130 0.00 0.00 0.00 2.92
1737 1916 6.425721 ACGTGGTGTTGGGATAATATTATTCG 59.574 38.462 9.33 5.30 0.00 3.34
1738 1917 6.425721 CGTGGTGTTGGGATAATATTATTCGT 59.574 38.462 9.33 0.00 0.00 3.85
1739 1918 7.041644 CGTGGTGTTGGGATAATATTATTCGTT 60.042 37.037 9.33 0.00 0.00 3.85
1740 1919 9.275398 GTGGTGTTGGGATAATATTATTCGTTA 57.725 33.333 9.33 0.00 0.00 3.18
1789 1968 3.058450 CACTTGAGAGATCGATCATGGC 58.942 50.000 26.47 13.14 0.00 4.40
1791 1970 2.808523 TGAGAGATCGATCATGGCAC 57.191 50.000 26.47 11.80 0.00 5.01
1836 2016 0.400213 TGCGGATCTCCTTTTGTGGT 59.600 50.000 0.00 0.00 0.00 4.16
1862 2043 5.003402 GGTCGACGCACATTATTTCATTTTG 59.997 40.000 9.92 0.00 0.00 2.44
1863 2044 5.567534 GTCGACGCACATTATTTCATTTTGT 59.432 36.000 0.00 0.00 0.00 2.83
1864 2045 6.087555 GTCGACGCACATTATTTCATTTTGTT 59.912 34.615 0.00 0.00 0.00 2.83
1865 2046 6.638873 TCGACGCACATTATTTCATTTTGTTT 59.361 30.769 0.00 0.00 0.00 2.83
1866 2047 7.803659 TCGACGCACATTATTTCATTTTGTTTA 59.196 29.630 0.00 0.00 0.00 2.01
1867 2048 8.582930 CGACGCACATTATTTCATTTTGTTTAT 58.417 29.630 0.00 0.00 0.00 1.40
1897 2082 5.804692 TCAAAAAGTGCGTCTAACTTTCA 57.195 34.783 2.32 0.00 44.93 2.69
1933 2118 4.560035 CGTAAACCGACTGTAATCACGAAT 59.440 41.667 0.00 0.00 39.56 3.34
1991 2176 1.902508 TGGTAGGCTCAGAAAGACCAG 59.097 52.381 0.00 0.00 30.70 4.00
1992 2177 1.406205 GGTAGGCTCAGAAAGACCAGC 60.406 57.143 0.00 0.00 30.70 4.85
1993 2178 1.276421 GTAGGCTCAGAAAGACCAGCA 59.724 52.381 0.00 0.00 30.70 4.41
2024 2209 7.565323 AATGGAGAGATACTTTTCATCAAGC 57.435 36.000 0.00 0.00 0.00 4.01
2027 2212 5.461737 GGAGAGATACTTTTCATCAAGCTCG 59.538 44.000 0.00 0.00 0.00 5.03
2028 2213 6.214191 AGAGATACTTTTCATCAAGCTCGA 57.786 37.500 0.00 0.00 0.00 4.04
2034 2219 2.724977 TTCATCAAGCTCGACGAACT 57.275 45.000 0.00 0.00 0.00 3.01
2035 2220 1.982612 TCATCAAGCTCGACGAACTG 58.017 50.000 0.75 0.00 0.00 3.16
2036 2221 0.994995 CATCAAGCTCGACGAACTGG 59.005 55.000 0.75 0.00 0.00 4.00
2037 2222 0.737715 ATCAAGCTCGACGAACTGGC 60.738 55.000 0.75 0.00 0.00 4.85
2038 2223 2.430921 AAGCTCGACGAACTGGCG 60.431 61.111 0.75 0.00 37.29 5.69
2068 2253 3.692406 GCGAACCTGGGACCGACT 61.692 66.667 0.00 0.00 0.00 4.18
2069 2254 2.345760 GCGAACCTGGGACCGACTA 61.346 63.158 0.00 0.00 0.00 2.59
2070 2255 1.509923 CGAACCTGGGACCGACTAC 59.490 63.158 0.00 0.00 0.00 2.73
2071 2256 1.895966 GAACCTGGGACCGACTACC 59.104 63.158 0.00 0.00 0.00 3.18
2072 2257 1.941999 GAACCTGGGACCGACTACCG 61.942 65.000 0.00 0.00 38.18 4.02
2073 2258 2.044650 CCTGGGACCGACTACCGA 60.045 66.667 0.00 0.00 41.76 4.69
2074 2259 2.413142 CCTGGGACCGACTACCGAC 61.413 68.421 0.00 0.00 41.76 4.79
2075 2260 2.747460 TGGGACCGACTACCGACG 60.747 66.667 0.00 0.00 41.76 5.12
2076 2261 4.185059 GGGACCGACTACCGACGC 62.185 72.222 0.00 0.00 41.76 5.19
2077 2262 4.185059 GGACCGACTACCGACGCC 62.185 72.222 0.00 0.00 41.76 5.68
2078 2263 3.434319 GACCGACTACCGACGCCA 61.434 66.667 0.00 0.00 41.76 5.69
2079 2264 2.753043 ACCGACTACCGACGCCAT 60.753 61.111 0.00 0.00 41.76 4.40
2080 2265 2.278596 CCGACTACCGACGCCATG 60.279 66.667 0.00 0.00 41.76 3.66
2081 2266 2.954868 CGACTACCGACGCCATGC 60.955 66.667 0.00 0.00 41.76 4.06
2104 2289 2.486663 ATGGTGCGGATCGAGCGTA 61.487 57.895 0.00 0.00 37.44 4.42
2196 2381 1.295357 TGGCGTTCATGCGTGGTTAG 61.295 55.000 5.98 0.00 35.06 2.34
2197 2382 1.017177 GGCGTTCATGCGTGGTTAGA 61.017 55.000 5.98 0.00 35.06 2.10
2198 2383 0.370273 GCGTTCATGCGTGGTTAGAG 59.630 55.000 5.98 0.00 0.00 2.43
2199 2384 0.370273 CGTTCATGCGTGGTTAGAGC 59.630 55.000 5.98 0.00 0.00 4.09
2200 2385 1.438651 GTTCATGCGTGGTTAGAGCA 58.561 50.000 5.98 0.00 45.46 4.26
2203 2388 4.932789 TGCGTGGTTAGAGCATCC 57.067 55.556 0.00 0.00 35.81 3.51
2204 2389 1.979262 TGCGTGGTTAGAGCATCCA 59.021 52.632 0.00 0.00 35.81 3.41
2205 2390 0.391130 TGCGTGGTTAGAGCATCCAC 60.391 55.000 0.00 0.00 45.46 4.02
2208 2393 3.861341 TGGTTAGAGCATCCACAGC 57.139 52.632 0.00 0.00 33.66 4.40
2209 2394 0.253044 TGGTTAGAGCATCCACAGCC 59.747 55.000 0.00 0.00 33.66 4.85
2210 2395 0.811616 GGTTAGAGCATCCACAGCCG 60.812 60.000 0.00 0.00 33.66 5.52
2211 2396 0.811616 GTTAGAGCATCCACAGCCGG 60.812 60.000 0.00 0.00 33.66 6.13
2212 2397 0.975556 TTAGAGCATCCACAGCCGGA 60.976 55.000 5.05 0.00 40.07 5.14
2213 2398 1.676678 TAGAGCATCCACAGCCGGAC 61.677 60.000 5.05 0.00 38.07 4.79
2214 2399 3.315142 GAGCATCCACAGCCGGACA 62.315 63.158 5.05 0.00 38.07 4.02
2215 2400 2.124570 GCATCCACAGCCGGACAT 60.125 61.111 5.05 0.00 38.07 3.06
2216 2401 2.475466 GCATCCACAGCCGGACATG 61.475 63.158 5.05 2.26 38.07 3.21
2217 2402 1.221566 CATCCACAGCCGGACATGA 59.778 57.895 5.05 0.00 38.07 3.07
2218 2403 0.812811 CATCCACAGCCGGACATGAG 60.813 60.000 5.05 0.00 38.07 2.90
2219 2404 1.267574 ATCCACAGCCGGACATGAGT 61.268 55.000 5.05 0.00 38.07 3.41
2220 2405 1.003355 CCACAGCCGGACATGAGTT 60.003 57.895 5.05 0.00 0.00 3.01
2221 2406 1.021390 CCACAGCCGGACATGAGTTC 61.021 60.000 5.05 0.00 0.00 3.01
2222 2407 1.021390 CACAGCCGGACATGAGTTCC 61.021 60.000 5.05 0.00 0.00 3.62
2223 2408 1.194781 ACAGCCGGACATGAGTTCCT 61.195 55.000 5.05 0.00 0.00 3.36
2224 2409 0.460987 CAGCCGGACATGAGTTCCTC 60.461 60.000 5.05 0.00 0.00 3.71
2225 2410 0.616111 AGCCGGACATGAGTTCCTCT 60.616 55.000 5.05 0.00 0.00 3.69
2226 2411 0.250513 GCCGGACATGAGTTCCTCTT 59.749 55.000 5.05 0.00 0.00 2.85
2227 2412 1.339151 GCCGGACATGAGTTCCTCTTT 60.339 52.381 5.05 0.00 0.00 2.52
2228 2413 2.876079 GCCGGACATGAGTTCCTCTTTT 60.876 50.000 5.05 0.00 0.00 2.27
2229 2414 3.412386 CCGGACATGAGTTCCTCTTTTT 58.588 45.455 0.00 0.00 0.00 1.94
2230 2415 3.189287 CCGGACATGAGTTCCTCTTTTTG 59.811 47.826 0.00 0.00 0.00 2.44
2231 2416 3.365364 CGGACATGAGTTCCTCTTTTTGC 60.365 47.826 0.00 0.00 0.00 3.68
2232 2417 3.823304 GGACATGAGTTCCTCTTTTTGCT 59.177 43.478 0.00 0.00 0.00 3.91
2233 2418 4.083057 GGACATGAGTTCCTCTTTTTGCTC 60.083 45.833 0.00 0.00 0.00 4.26
2234 2419 3.823304 ACATGAGTTCCTCTTTTTGCTCC 59.177 43.478 0.00 0.00 0.00 4.70
2235 2420 2.863809 TGAGTTCCTCTTTTTGCTCCC 58.136 47.619 0.00 0.00 0.00 4.30
2236 2421 2.163509 GAGTTCCTCTTTTTGCTCCCC 58.836 52.381 0.00 0.00 0.00 4.81
2237 2422 1.203063 AGTTCCTCTTTTTGCTCCCCC 60.203 52.381 0.00 0.00 0.00 5.40
2238 2423 1.158007 TTCCTCTTTTTGCTCCCCCT 58.842 50.000 0.00 0.00 0.00 4.79
2239 2424 0.698818 TCCTCTTTTTGCTCCCCCTC 59.301 55.000 0.00 0.00 0.00 4.30
2240 2425 0.323816 CCTCTTTTTGCTCCCCCTCC 60.324 60.000 0.00 0.00 0.00 4.30
2241 2426 0.323816 CTCTTTTTGCTCCCCCTCCC 60.324 60.000 0.00 0.00 0.00 4.30
2242 2427 1.305297 CTTTTTGCTCCCCCTCCCC 60.305 63.158 0.00 0.00 0.00 4.81
2243 2428 2.805313 CTTTTTGCTCCCCCTCCCCC 62.805 65.000 0.00 0.00 0.00 5.40
2244 2429 3.848200 TTTTGCTCCCCCTCCCCCT 62.848 63.158 0.00 0.00 0.00 4.79
2245 2430 4.760220 TTGCTCCCCCTCCCCCTC 62.760 72.222 0.00 0.00 0.00 4.30
2317 2502 4.888325 CCCTCCCCGCTCCTCCAT 62.888 72.222 0.00 0.00 0.00 3.41
2318 2503 3.237741 CCTCCCCGCTCCTCCATC 61.238 72.222 0.00 0.00 0.00 3.51
2319 2504 2.123077 CTCCCCGCTCCTCCATCT 60.123 66.667 0.00 0.00 0.00 2.90
2320 2505 2.123251 TCCCCGCTCCTCCATCTC 60.123 66.667 0.00 0.00 0.00 2.75
2321 2506 3.237741 CCCCGCTCCTCCATCTCC 61.238 72.222 0.00 0.00 0.00 3.71
2322 2507 2.444706 CCCGCTCCTCCATCTCCA 60.445 66.667 0.00 0.00 0.00 3.86
2323 2508 2.506061 CCCGCTCCTCCATCTCCAG 61.506 68.421 0.00 0.00 0.00 3.86
2324 2509 2.420890 CGCTCCTCCATCTCCAGC 59.579 66.667 0.00 0.00 0.00 4.85
2325 2510 2.828145 GCTCCTCCATCTCCAGCC 59.172 66.667 0.00 0.00 0.00 4.85
2326 2511 3.136750 CTCCTCCATCTCCAGCCG 58.863 66.667 0.00 0.00 0.00 5.52
2327 2512 3.157252 TCCTCCATCTCCAGCCGC 61.157 66.667 0.00 0.00 0.00 6.53
2328 2513 3.160047 CCTCCATCTCCAGCCGCT 61.160 66.667 0.00 0.00 0.00 5.52
2329 2514 2.108566 CTCCATCTCCAGCCGCTG 59.891 66.667 13.82 13.82 0.00 5.18
2330 2515 2.685017 TCCATCTCCAGCCGCTGT 60.685 61.111 18.98 0.00 0.00 4.40
2331 2516 2.249413 CTCCATCTCCAGCCGCTGTT 62.249 60.000 18.98 0.00 0.00 3.16
2332 2517 2.110967 CCATCTCCAGCCGCTGTTG 61.111 63.158 18.98 10.94 0.00 3.33
2333 2518 2.437359 ATCTCCAGCCGCTGTTGC 60.437 61.111 18.98 0.00 0.00 4.17
2334 2519 2.964310 ATCTCCAGCCGCTGTTGCT 61.964 57.895 18.98 0.49 40.41 3.91
2382 2567 4.545929 TGCATCGCAGATTCTGGG 57.454 55.556 21.33 21.33 45.12 4.45
2383 2568 1.820906 TGCATCGCAGATTCTGGGC 60.821 57.895 22.25 11.51 45.12 5.36
2387 2572 4.473520 CGCAGATTCTGGGCGGGT 62.474 66.667 16.62 0.00 46.46 5.28
2388 2573 2.825836 GCAGATTCTGGGCGGGTG 60.826 66.667 15.28 0.00 31.21 4.61
2389 2574 2.124570 CAGATTCTGGGCGGGTGG 60.125 66.667 5.73 0.00 0.00 4.61
2390 2575 2.610859 AGATTCTGGGCGGGTGGT 60.611 61.111 0.00 0.00 0.00 4.16
2391 2576 2.124695 GATTCTGGGCGGGTGGTC 60.125 66.667 0.00 0.00 0.00 4.02
2392 2577 4.096003 ATTCTGGGCGGGTGGTCG 62.096 66.667 0.00 0.00 0.00 4.79
2403 2588 4.980805 GTGGTCGCCGTGGCAGAA 62.981 66.667 12.06 0.00 42.06 3.02
2404 2589 4.980805 TGGTCGCCGTGGCAGAAC 62.981 66.667 12.06 12.00 42.06 3.01
2406 2591 4.681978 GTCGCCGTGGCAGAACCT 62.682 66.667 12.06 0.00 42.06 3.50
2407 2592 4.680237 TCGCCGTGGCAGAACCTG 62.680 66.667 12.06 0.00 42.06 4.00
2408 2593 4.988598 CGCCGTGGCAGAACCTGT 62.989 66.667 12.06 0.00 42.06 4.00
2409 2594 3.357079 GCCGTGGCAGAACCTGTG 61.357 66.667 5.89 0.00 41.49 3.66
2410 2595 2.425592 CCGTGGCAGAACCTGTGA 59.574 61.111 0.00 0.00 40.22 3.58
2411 2596 1.669115 CCGTGGCAGAACCTGTGAG 60.669 63.158 0.00 0.00 40.22 3.51
2412 2597 1.669115 CGTGGCAGAACCTGTGAGG 60.669 63.158 0.00 0.00 42.49 3.86
2413 2598 1.968540 GTGGCAGAACCTGTGAGGC 60.969 63.158 0.00 0.00 39.63 4.70
2414 2599 2.743928 GGCAGAACCTGTGAGGCG 60.744 66.667 0.00 0.00 39.63 5.52
2415 2600 2.743928 GCAGAACCTGTGAGGCGG 60.744 66.667 0.00 0.00 39.63 6.13
2416 2601 2.743928 CAGAACCTGTGAGGCGGC 60.744 66.667 0.00 0.00 39.63 6.53
2417 2602 4.379243 AGAACCTGTGAGGCGGCG 62.379 66.667 0.51 0.51 39.63 6.46
2436 2621 4.812476 CGGCATCTCACGCGGGAA 62.812 66.667 14.25 3.82 0.00 3.97
2437 2622 2.892425 GGCATCTCACGCGGGAAG 60.892 66.667 14.25 7.02 0.00 3.46
2438 2623 2.892425 GCATCTCACGCGGGAAGG 60.892 66.667 14.25 6.68 0.00 3.46
2439 2624 2.579201 CATCTCACGCGGGAAGGT 59.421 61.111 14.25 0.00 0.00 3.50
2440 2625 1.519455 CATCTCACGCGGGAAGGTC 60.519 63.158 14.25 0.00 0.00 3.85
2441 2626 3.064987 ATCTCACGCGGGAAGGTCG 62.065 63.158 14.25 0.00 0.00 4.79
2442 2627 4.796231 CTCACGCGGGAAGGTCGG 62.796 72.222 14.25 0.00 0.00 4.79
2451 2636 4.785453 GAAGGTCGGGGGCAGCAG 62.785 72.222 0.00 0.00 0.00 4.24
2455 2640 4.767255 GTCGGGGGCAGCAGTCAG 62.767 72.222 0.00 0.00 0.00 3.51
2459 2644 4.729918 GGGGCAGCAGTCAGGGTG 62.730 72.222 0.00 0.00 39.22 4.61
2460 2645 4.729918 GGGCAGCAGTCAGGGTGG 62.730 72.222 0.00 0.00 36.80 4.61
2502 2687 2.516225 GGAACCTACATGGCCGGC 60.516 66.667 21.18 21.18 40.22 6.13
2503 2688 2.895372 GAACCTACATGGCCGGCG 60.895 66.667 22.54 9.65 40.22 6.46
2504 2689 4.483243 AACCTACATGGCCGGCGG 62.483 66.667 24.35 24.35 40.22 6.13
2507 2692 4.467084 CTACATGGCCGGCGGTGT 62.467 66.667 30.02 30.02 0.00 4.16
2508 2693 4.769063 TACATGGCCGGCGGTGTG 62.769 66.667 32.93 24.35 0.00 3.82
2534 2719 2.604382 GGGTGCATGGGTGGCTTT 60.604 61.111 0.00 0.00 0.00 3.51
2535 2720 2.658422 GGTGCATGGGTGGCTTTG 59.342 61.111 0.00 0.00 0.00 2.77
2536 2721 1.907807 GGTGCATGGGTGGCTTTGA 60.908 57.895 0.00 0.00 0.00 2.69
2537 2722 1.259840 GGTGCATGGGTGGCTTTGAT 61.260 55.000 0.00 0.00 0.00 2.57
2538 2723 0.108520 GTGCATGGGTGGCTTTGATG 60.109 55.000 0.00 0.00 0.00 3.07
2539 2724 1.259142 TGCATGGGTGGCTTTGATGG 61.259 55.000 0.00 0.00 0.00 3.51
2540 2725 1.518774 CATGGGTGGCTTTGATGGC 59.481 57.895 0.00 0.00 0.00 4.40
2541 2726 0.974010 CATGGGTGGCTTTGATGGCT 60.974 55.000 0.00 0.00 0.00 4.75
2542 2727 0.974010 ATGGGTGGCTTTGATGGCTG 60.974 55.000 0.00 0.00 0.00 4.85
2543 2728 2.575461 GGTGGCTTTGATGGCTGC 59.425 61.111 0.00 0.00 0.00 5.25
2544 2729 2.180017 GTGGCTTTGATGGCTGCG 59.820 61.111 0.00 0.00 0.00 5.18
2545 2730 3.063704 TGGCTTTGATGGCTGCGG 61.064 61.111 0.00 0.00 0.00 5.69
2546 2731 2.751436 GGCTTTGATGGCTGCGGA 60.751 61.111 0.00 0.00 0.00 5.54
2547 2732 2.123428 GGCTTTGATGGCTGCGGAT 61.123 57.895 0.00 0.00 0.00 4.18
2548 2733 1.358046 GCTTTGATGGCTGCGGATC 59.642 57.895 0.00 0.00 0.00 3.36
2549 2734 1.099879 GCTTTGATGGCTGCGGATCT 61.100 55.000 0.00 0.00 0.00 2.75
2550 2735 0.661552 CTTTGATGGCTGCGGATCTG 59.338 55.000 0.00 0.00 0.00 2.90
2551 2736 0.749091 TTTGATGGCTGCGGATCTGG 60.749 55.000 3.14 0.00 0.00 3.86
2552 2737 2.976903 GATGGCTGCGGATCTGGC 60.977 66.667 3.14 2.97 39.21 4.85
2553 2738 4.923942 ATGGCTGCGGATCTGGCG 62.924 66.667 3.14 0.00 41.17 5.69
2557 2742 3.842923 CTGCGGATCTGGCGTCCT 61.843 66.667 3.14 0.00 33.46 3.85
2558 2743 2.441348 TGCGGATCTGGCGTCCTA 60.441 61.111 3.14 0.00 33.46 2.94
2559 2744 1.810606 CTGCGGATCTGGCGTCCTAT 61.811 60.000 3.14 0.00 33.46 2.57
2560 2745 1.080434 GCGGATCTGGCGTCCTATC 60.080 63.158 3.14 0.00 33.46 2.08
2561 2746 1.587054 CGGATCTGGCGTCCTATCC 59.413 63.158 7.49 7.49 35.15 2.59
2562 2747 1.179174 CGGATCTGGCGTCCTATCCA 61.179 60.000 15.58 0.00 36.93 3.41
2567 2752 2.746697 TGGCGTCCTATCCAGATCC 58.253 57.895 0.00 0.00 0.00 3.36
2568 2753 1.179174 TGGCGTCCTATCCAGATCCG 61.179 60.000 0.00 0.00 0.00 4.18
2569 2754 1.179814 GGCGTCCTATCCAGATCCGT 61.180 60.000 0.00 0.00 0.00 4.69
2570 2755 0.241481 GCGTCCTATCCAGATCCGTC 59.759 60.000 0.00 0.00 0.00 4.79
2571 2756 1.898902 CGTCCTATCCAGATCCGTCT 58.101 55.000 0.00 0.00 34.14 4.18
2572 2757 1.807742 CGTCCTATCCAGATCCGTCTC 59.192 57.143 0.00 0.00 30.42 3.36
2573 2758 1.807742 GTCCTATCCAGATCCGTCTCG 59.192 57.143 0.00 0.00 30.42 4.04
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 9.531942 TGTTCACTTTTATAAGACGTTGTAGAA 57.468 29.630 0.00 0.00 35.30 2.10
7 8 5.861727 ACCCTGTTCACTTTTATAAGACGT 58.138 37.500 0.00 0.00 35.30 4.34
25 26 3.181397 CGCAGCATTTTGATTTACCCTG 58.819 45.455 0.00 0.00 0.00 4.45
60 65 6.327626 AGGCAGAATATGTACATACAGAACCT 59.672 38.462 17.69 17.25 39.92 3.50
248 282 1.202927 CCAAAGCCAGTCAAAGGAGGA 60.203 52.381 0.00 0.00 0.00 3.71
321 355 7.617225 TGCTTAAACGTGGGTAGCATATATAT 58.383 34.615 9.86 0.00 36.96 0.86
338 377 4.875544 TTGACCGCAGATATGCTTAAAC 57.124 40.909 11.09 0.00 0.00 2.01
398 442 0.325272 TGTATGGTGCCCAGCGTTTA 59.675 50.000 0.00 0.00 36.75 2.01
449 493 4.731773 GCTTCTGGAAACTGGAATAATGCG 60.732 45.833 0.00 0.00 0.00 4.73
479 523 0.725686 GTAGCTAGCTGACGTGTCGA 59.274 55.000 27.68 0.01 0.00 4.20
481 525 2.923605 AAGTAGCTAGCTGACGTGTC 57.076 50.000 27.68 8.38 0.00 3.67
582 632 1.133699 CAATAAGCAGGGAGGGATGCA 60.134 52.381 0.00 0.00 45.01 3.96
746 796 8.521176 CATCATAATTGATCCTCCATCTTTTCC 58.479 37.037 0.00 0.00 40.70 3.13
747 797 8.521176 CCATCATAATTGATCCTCCATCTTTTC 58.479 37.037 0.00 0.00 40.70 2.29
824 877 2.979678 AGTAGTGTTGGATGAACCTGGT 59.020 45.455 0.00 0.00 39.86 4.00
841 894 1.553704 GTAGGGGTGGTGTTGGAGTAG 59.446 57.143 0.00 0.00 0.00 2.57
950 1006 2.622962 GCAGTTACAACGTGGGCCC 61.623 63.158 17.59 17.59 0.00 5.80
976 1033 0.179004 AGGAGCTCGACGAGATGGAT 60.179 55.000 28.43 7.25 0.00 3.41
1027 1085 1.911357 TGGTGCAGAGATGTCCTTCAT 59.089 47.619 0.00 0.00 39.77 2.57
1042 1100 2.188829 TGTGCTGAACTGCTGGTGC 61.189 57.895 5.42 0.00 40.20 5.01
1045 1103 1.650912 GTGTGTGCTGAACTGCTGG 59.349 57.895 5.42 0.00 0.00 4.85
1074 1132 2.812591 GTGCGTATCTAGCTAGGCAGTA 59.187 50.000 20.58 6.96 41.58 2.74
1199 1261 2.226896 CCGCGCTGACGATCAAGAG 61.227 63.158 5.56 0.00 43.93 2.85
1470 1551 3.965292 ACGTCGTACAGTATGATCCAG 57.035 47.619 5.76 1.93 39.69 3.86
1583 1761 5.680594 TTATTACAACTGGGTCGTACCAT 57.319 39.130 6.41 0.00 41.02 3.55
1584 1762 5.221601 TGTTTATTACAACTGGGTCGTACCA 60.222 40.000 6.41 3.92 35.00 3.25
1585 1763 5.237048 TGTTTATTACAACTGGGTCGTACC 58.763 41.667 0.00 0.00 33.36 3.34
1587 1765 5.409214 GCTTGTTTATTACAACTGGGTCGTA 59.591 40.000 0.00 0.00 41.73 3.43
1627 1806 6.771188 ACACAGAAGTATTATTATCTGCGC 57.229 37.500 0.00 0.00 42.34 6.09
1667 1846 4.113354 GACAATCCAGTCTTCACGGATAC 58.887 47.826 0.00 0.00 35.89 2.24
1668 1847 3.132289 GGACAATCCAGTCTTCACGGATA 59.868 47.826 0.00 0.00 35.89 2.59
1672 1851 2.751166 AGGACAATCCAGTCTTCACG 57.249 50.000 0.00 0.00 39.61 4.35
1695 1874 2.688446 CACGTAGGAGATGACCAAGCTA 59.312 50.000 0.00 0.00 0.00 3.32
1706 1885 0.178955 TCCCAACACCACGTAGGAGA 60.179 55.000 10.46 0.00 41.22 3.71
1707 1886 0.902531 ATCCCAACACCACGTAGGAG 59.097 55.000 10.46 5.66 41.22 3.69
1737 1916 3.780801 CAGTCGACACCGTACGTAATAAC 59.219 47.826 19.50 5.29 37.05 1.89
1738 1917 3.727673 GCAGTCGACACCGTACGTAATAA 60.728 47.826 19.50 0.00 37.05 1.40
1739 1918 2.223021 GCAGTCGACACCGTACGTAATA 60.223 50.000 19.50 0.00 37.05 0.98
1740 1919 1.466360 GCAGTCGACACCGTACGTAAT 60.466 52.381 19.50 0.00 37.05 1.89
1789 1968 0.452585 TTCATCGTGCATGCATGGTG 59.547 50.000 36.88 36.88 43.40 4.17
1791 1970 0.452585 TGTTCATCGTGCATGCATGG 59.547 50.000 33.64 23.73 33.99 3.66
1836 2016 1.921887 GAAATAATGTGCGTCGACCGA 59.078 47.619 10.58 0.00 39.56 4.69
1876 2057 6.021468 CACTTGAAAGTTAGACGCACTTTTTG 60.021 38.462 6.53 4.04 43.16 2.44
1884 2069 3.802685 ACACTCACTTGAAAGTTAGACGC 59.197 43.478 10.57 0.00 37.08 5.19
1888 2073 4.209288 CGGTCACACTCACTTGAAAGTTAG 59.791 45.833 3.40 3.40 37.08 2.34
1889 2074 4.116961 CGGTCACACTCACTTGAAAGTTA 58.883 43.478 0.00 0.00 37.08 2.24
1897 2082 2.800629 CGGTTTACGGTCACACTCACTT 60.801 50.000 0.00 0.00 39.42 3.16
1991 2176 5.782893 AGTATCTCTCCATTACTCACTGC 57.217 43.478 0.00 0.00 0.00 4.40
1992 2177 8.253810 TGAAAAGTATCTCTCCATTACTCACTG 58.746 37.037 0.00 0.00 0.00 3.66
1993 2178 8.367660 TGAAAAGTATCTCTCCATTACTCACT 57.632 34.615 0.00 0.00 0.00 3.41
2024 2209 2.087009 GTTCCGCCAGTTCGTCGAG 61.087 63.158 0.00 0.00 0.00 4.04
2027 2212 1.568025 GTTGTTCCGCCAGTTCGTC 59.432 57.895 0.00 0.00 0.00 4.20
2028 2213 2.241880 CGTTGTTCCGCCAGTTCGT 61.242 57.895 0.00 0.00 0.00 3.85
2034 2219 2.968156 CGTTCCGTTGTTCCGCCA 60.968 61.111 0.00 0.00 0.00 5.69
2035 2220 4.379143 GCGTTCCGTTGTTCCGCC 62.379 66.667 0.00 0.00 38.52 6.13
2036 2221 4.712873 CGCGTTCCGTTGTTCCGC 62.713 66.667 0.00 0.00 40.87 5.54
2037 2222 2.587679 TTCGCGTTCCGTTGTTCCG 61.588 57.895 5.77 0.00 38.35 4.30
2038 2223 1.083209 GTTCGCGTTCCGTTGTTCC 60.083 57.895 5.77 0.00 38.35 3.62
2055 2240 2.362120 CGGTAGTCGGTCCCAGGT 60.362 66.667 0.00 0.00 34.75 4.00
2082 2267 4.545706 TCGATCCGCACCATGGCC 62.546 66.667 13.04 0.00 0.00 5.36
2104 2289 2.280552 TGTAGGAAAGACGGCCGCT 61.281 57.895 28.58 20.80 0.00 5.52
2137 2322 2.587473 GCAGGAAGCGAGCTAGGC 60.587 66.667 0.00 1.05 0.00 3.93
2186 2371 0.391130 GTGGATGCTCTAACCACGCA 60.391 55.000 0.00 0.00 43.21 5.24
2190 2375 0.253044 GGCTGTGGATGCTCTAACCA 59.747 55.000 0.00 0.00 0.00 3.67
2196 2381 2.512515 GTCCGGCTGTGGATGCTC 60.513 66.667 0.00 0.00 40.91 4.26
2197 2382 2.673200 ATGTCCGGCTGTGGATGCT 61.673 57.895 0.00 0.00 40.91 3.79
2198 2383 2.124570 ATGTCCGGCTGTGGATGC 60.125 61.111 0.00 0.00 40.91 3.91
2199 2384 0.812811 CTCATGTCCGGCTGTGGATG 60.813 60.000 0.00 0.00 40.91 3.51
2200 2385 1.267574 ACTCATGTCCGGCTGTGGAT 61.268 55.000 0.00 0.00 40.91 3.41
2201 2386 1.480212 AACTCATGTCCGGCTGTGGA 61.480 55.000 0.00 0.00 35.04 4.02
2202 2387 1.003355 AACTCATGTCCGGCTGTGG 60.003 57.895 0.00 0.00 0.00 4.17
2203 2388 1.021390 GGAACTCATGTCCGGCTGTG 61.021 60.000 0.00 0.00 0.00 3.66
2204 2389 1.194781 AGGAACTCATGTCCGGCTGT 61.195 55.000 0.00 0.00 0.00 4.40
2205 2390 1.599047 AGGAACTCATGTCCGGCTG 59.401 57.895 0.00 0.00 0.00 4.85
2206 2391 4.136978 AGGAACTCATGTCCGGCT 57.863 55.556 0.00 0.00 0.00 5.52
2218 2403 1.203063 AGGGGGAGCAAAAAGAGGAAC 60.203 52.381 0.00 0.00 0.00 3.62
2219 2404 1.075536 GAGGGGGAGCAAAAAGAGGAA 59.924 52.381 0.00 0.00 0.00 3.36
2220 2405 0.698818 GAGGGGGAGCAAAAAGAGGA 59.301 55.000 0.00 0.00 0.00 3.71
2221 2406 0.323816 GGAGGGGGAGCAAAAAGAGG 60.324 60.000 0.00 0.00 0.00 3.69
2222 2407 0.323816 GGGAGGGGGAGCAAAAAGAG 60.324 60.000 0.00 0.00 0.00 2.85
2223 2408 1.774300 GGGAGGGGGAGCAAAAAGA 59.226 57.895 0.00 0.00 0.00 2.52
2224 2409 1.305297 GGGGAGGGGGAGCAAAAAG 60.305 63.158 0.00 0.00 0.00 2.27
2225 2410 2.858655 GGGGAGGGGGAGCAAAAA 59.141 61.111 0.00 0.00 0.00 1.94
2226 2411 3.272847 GGGGGAGGGGGAGCAAAA 61.273 66.667 0.00 0.00 0.00 2.44
2227 2412 4.301662 AGGGGGAGGGGGAGCAAA 62.302 66.667 0.00 0.00 0.00 3.68
2228 2413 4.760220 GAGGGGGAGGGGGAGCAA 62.760 72.222 0.00 0.00 0.00 3.91
2300 2485 4.888325 ATGGAGGAGCGGGGAGGG 62.888 72.222 0.00 0.00 0.00 4.30
2301 2486 3.237741 GATGGAGGAGCGGGGAGG 61.238 72.222 0.00 0.00 0.00 4.30
2302 2487 2.123077 AGATGGAGGAGCGGGGAG 60.123 66.667 0.00 0.00 0.00 4.30
2303 2488 2.123251 GAGATGGAGGAGCGGGGA 60.123 66.667 0.00 0.00 0.00 4.81
2304 2489 3.237741 GGAGATGGAGGAGCGGGG 61.238 72.222 0.00 0.00 0.00 5.73
2305 2490 2.444706 TGGAGATGGAGGAGCGGG 60.445 66.667 0.00 0.00 0.00 6.13
2306 2491 3.136750 CTGGAGATGGAGGAGCGG 58.863 66.667 0.00 0.00 0.00 5.52
2307 2492 2.420890 GCTGGAGATGGAGGAGCG 59.579 66.667 0.00 0.00 0.00 5.03
2308 2493 2.828145 GGCTGGAGATGGAGGAGC 59.172 66.667 0.00 0.00 0.00 4.70
2309 2494 3.136750 CGGCTGGAGATGGAGGAG 58.863 66.667 0.00 0.00 0.00 3.69
2310 2495 3.157252 GCGGCTGGAGATGGAGGA 61.157 66.667 0.00 0.00 0.00 3.71
2311 2496 3.160047 AGCGGCTGGAGATGGAGG 61.160 66.667 0.00 0.00 0.00 4.30
2312 2497 2.108566 CAGCGGCTGGAGATGGAG 59.891 66.667 22.11 0.00 0.00 3.86
2313 2498 2.293318 AACAGCGGCTGGAGATGGA 61.293 57.895 31.38 0.00 35.51 3.41
2314 2499 2.110967 CAACAGCGGCTGGAGATGG 61.111 63.158 31.38 6.63 35.51 3.51
2315 2500 2.758089 GCAACAGCGGCTGGAGATG 61.758 63.158 31.38 23.37 35.51 2.90
2316 2501 2.437359 GCAACAGCGGCTGGAGAT 60.437 61.111 31.38 13.48 35.51 2.75
2317 2502 3.630013 AGCAACAGCGGCTGGAGA 61.630 61.111 31.38 0.00 40.80 3.71
2365 2550 1.820906 GCCCAGAATCTGCGATGCA 60.821 57.895 4.40 0.00 36.92 3.96
2366 2551 3.028969 GCCCAGAATCTGCGATGC 58.971 61.111 4.40 0.92 0.00 3.91
2371 2556 2.825836 CACCCGCCCAGAATCTGC 60.826 66.667 4.40 0.00 0.00 4.26
2372 2557 2.124570 CCACCCGCCCAGAATCTG 60.125 66.667 2.68 2.68 0.00 2.90
2373 2558 2.610859 ACCACCCGCCCAGAATCT 60.611 61.111 0.00 0.00 0.00 2.40
2374 2559 2.124695 GACCACCCGCCCAGAATC 60.125 66.667 0.00 0.00 0.00 2.52
2375 2560 4.096003 CGACCACCCGCCCAGAAT 62.096 66.667 0.00 0.00 0.00 2.40
2386 2571 4.980805 TTCTGCCACGGCGACCAC 62.981 66.667 16.62 0.00 45.51 4.16
2387 2572 4.980805 GTTCTGCCACGGCGACCA 62.981 66.667 16.62 6.30 45.51 4.02
2389 2574 4.681978 AGGTTCTGCCACGGCGAC 62.682 66.667 16.62 2.68 45.51 5.19
2390 2575 4.680237 CAGGTTCTGCCACGGCGA 62.680 66.667 16.62 1.09 45.51 5.54
2391 2576 4.988598 ACAGGTTCTGCCACGGCG 62.989 66.667 4.80 4.80 45.51 6.46
2392 2577 3.357079 CACAGGTTCTGCCACGGC 61.357 66.667 0.00 0.00 40.61 5.68
2393 2578 1.669115 CTCACAGGTTCTGCCACGG 60.669 63.158 0.00 0.00 40.61 4.94
2394 2579 1.669115 CCTCACAGGTTCTGCCACG 60.669 63.158 0.00 0.00 40.61 4.94
2395 2580 1.968540 GCCTCACAGGTTCTGCCAC 60.969 63.158 0.00 0.00 37.80 5.01
2396 2581 2.431683 GCCTCACAGGTTCTGCCA 59.568 61.111 0.00 0.00 37.80 4.92
2397 2582 2.743928 CGCCTCACAGGTTCTGCC 60.744 66.667 0.00 0.00 37.80 4.85
2398 2583 2.743928 CCGCCTCACAGGTTCTGC 60.744 66.667 0.00 0.00 37.80 4.26
2399 2584 2.743928 GCCGCCTCACAGGTTCTG 60.744 66.667 0.00 0.00 37.80 3.02
2400 2585 4.379243 CGCCGCCTCACAGGTTCT 62.379 66.667 0.00 0.00 37.80 3.01
2419 2604 4.812476 TTCCCGCGTGAGATGCCG 62.812 66.667 4.92 0.00 0.00 5.69
2420 2605 2.892425 CTTCCCGCGTGAGATGCC 60.892 66.667 4.92 0.00 0.00 4.40
2421 2606 2.892425 CCTTCCCGCGTGAGATGC 60.892 66.667 4.92 0.00 0.00 3.91
2422 2607 1.519455 GACCTTCCCGCGTGAGATG 60.519 63.158 4.92 1.22 0.00 2.90
2423 2608 2.893398 GACCTTCCCGCGTGAGAT 59.107 61.111 4.92 0.00 0.00 2.75
2424 2609 3.744719 CGACCTTCCCGCGTGAGA 61.745 66.667 4.92 0.00 0.00 3.27
2425 2610 4.796231 CCGACCTTCCCGCGTGAG 62.796 72.222 4.92 0.00 0.00 3.51
2434 2619 4.785453 CTGCTGCCCCCGACCTTC 62.785 72.222 0.00 0.00 0.00 3.46
2438 2623 4.767255 CTGACTGCTGCCCCCGAC 62.767 72.222 0.00 0.00 0.00 4.79
2442 2627 4.729918 CACCCTGACTGCTGCCCC 62.730 72.222 0.00 0.00 0.00 5.80
2443 2628 4.729918 CCACCCTGACTGCTGCCC 62.730 72.222 0.00 0.00 0.00 5.36
2475 2660 3.857038 TAGGTTCCCATCGCCGCC 61.857 66.667 0.00 0.00 0.00 6.13
2476 2661 2.588034 GTAGGTTCCCATCGCCGC 60.588 66.667 0.00 0.00 0.00 6.53
2477 2662 0.880278 CATGTAGGTTCCCATCGCCG 60.880 60.000 0.00 0.00 0.00 6.46
2478 2663 0.535102 CCATGTAGGTTCCCATCGCC 60.535 60.000 0.00 0.00 0.00 5.54
2479 2664 1.166531 GCCATGTAGGTTCCCATCGC 61.167 60.000 0.00 0.00 40.61 4.58
2480 2665 0.535102 GGCCATGTAGGTTCCCATCG 60.535 60.000 0.00 0.00 40.61 3.84
2481 2666 0.535102 CGGCCATGTAGGTTCCCATC 60.535 60.000 2.24 0.00 40.61 3.51
2482 2667 1.531748 CGGCCATGTAGGTTCCCAT 59.468 57.895 2.24 0.00 40.61 4.00
2483 2668 2.675242 CCGGCCATGTAGGTTCCCA 61.675 63.158 2.24 0.00 40.61 4.37
2484 2669 2.192175 CCGGCCATGTAGGTTCCC 59.808 66.667 2.24 0.00 40.61 3.97
2485 2670 2.516225 GCCGGCCATGTAGGTTCC 60.516 66.667 18.11 0.00 40.61 3.62
2486 2671 2.895372 CGCCGGCCATGTAGGTTC 60.895 66.667 23.46 0.00 40.61 3.62
2487 2672 4.483243 CCGCCGGCCATGTAGGTT 62.483 66.667 23.46 0.00 40.61 3.50
2490 2675 4.467084 ACACCGCCGGCCATGTAG 62.467 66.667 24.75 9.00 0.00 2.74
2491 2676 4.769063 CACACCGCCGGCCATGTA 62.769 66.667 25.30 0.00 0.00 2.29
2517 2702 2.604382 AAAGCCACCCATGCACCC 60.604 61.111 0.00 0.00 0.00 4.61
2518 2703 1.259840 ATCAAAGCCACCCATGCACC 61.260 55.000 0.00 0.00 0.00 5.01
2519 2704 0.108520 CATCAAAGCCACCCATGCAC 60.109 55.000 0.00 0.00 0.00 4.57
2520 2705 1.259142 CCATCAAAGCCACCCATGCA 61.259 55.000 0.00 0.00 0.00 3.96
2521 2706 1.518774 CCATCAAAGCCACCCATGC 59.481 57.895 0.00 0.00 0.00 4.06
2522 2707 0.974010 AGCCATCAAAGCCACCCATG 60.974 55.000 0.00 0.00 0.00 3.66
2523 2708 0.974010 CAGCCATCAAAGCCACCCAT 60.974 55.000 0.00 0.00 0.00 4.00
2524 2709 1.607178 CAGCCATCAAAGCCACCCA 60.607 57.895 0.00 0.00 0.00 4.51
2525 2710 3.010413 GCAGCCATCAAAGCCACCC 62.010 63.158 0.00 0.00 0.00 4.61
2526 2711 2.575461 GCAGCCATCAAAGCCACC 59.425 61.111 0.00 0.00 0.00 4.61
2527 2712 2.180017 CGCAGCCATCAAAGCCAC 59.820 61.111 0.00 0.00 0.00 5.01
2528 2713 2.842188 ATCCGCAGCCATCAAAGCCA 62.842 55.000 0.00 0.00 0.00 4.75
2529 2714 2.068277 GATCCGCAGCCATCAAAGCC 62.068 60.000 0.00 0.00 0.00 4.35
2530 2715 1.099879 AGATCCGCAGCCATCAAAGC 61.100 55.000 2.51 0.00 0.00 3.51
2531 2716 0.661552 CAGATCCGCAGCCATCAAAG 59.338 55.000 2.51 0.00 0.00 2.77
2532 2717 0.749091 CCAGATCCGCAGCCATCAAA 60.749 55.000 2.51 0.00 0.00 2.69
2533 2718 1.153107 CCAGATCCGCAGCCATCAA 60.153 57.895 2.51 0.00 0.00 2.57
2534 2719 2.507452 CCAGATCCGCAGCCATCA 59.493 61.111 2.51 0.00 0.00 3.07
2535 2720 2.976903 GCCAGATCCGCAGCCATC 60.977 66.667 0.00 0.00 0.00 3.51
2536 2721 4.923942 CGCCAGATCCGCAGCCAT 62.924 66.667 3.53 0.00 0.00 4.40
2540 2725 1.810606 ATAGGACGCCAGATCCGCAG 61.811 60.000 3.53 0.00 41.52 5.18
2541 2726 1.806461 GATAGGACGCCAGATCCGCA 61.806 60.000 3.53 0.00 41.52 5.69
2542 2727 1.080434 GATAGGACGCCAGATCCGC 60.080 63.158 0.00 0.00 41.52 5.54
2543 2728 1.179174 TGGATAGGACGCCAGATCCG 61.179 60.000 17.17 0.00 39.62 4.18
2544 2729 2.746697 TGGATAGGACGCCAGATCC 58.253 57.895 16.26 16.26 38.21 3.36
2549 2734 1.179174 CGGATCTGGATAGGACGCCA 61.179 60.000 0.00 0.00 0.00 5.69
2550 2735 1.179814 ACGGATCTGGATAGGACGCC 61.180 60.000 6.47 0.00 0.00 5.68
2551 2736 0.241481 GACGGATCTGGATAGGACGC 59.759 60.000 6.47 0.00 0.00 5.19
2552 2737 1.807742 GAGACGGATCTGGATAGGACG 59.192 57.143 6.47 0.00 34.34 4.79
2553 2738 1.807742 CGAGACGGATCTGGATAGGAC 59.192 57.143 6.47 0.00 34.34 3.85
2554 2739 2.186532 CGAGACGGATCTGGATAGGA 57.813 55.000 6.47 0.00 34.34 2.94
2567 2752 2.202570 CAAGGCCGTACCGAGACG 60.203 66.667 0.00 2.48 46.52 4.18
2568 2753 2.183555 CCAAGGCCGTACCGAGAC 59.816 66.667 0.00 0.00 46.52 3.36
2569 2754 3.766691 GCCAAGGCCGTACCGAGA 61.767 66.667 0.00 0.00 46.52 4.04


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

AutoCloner maintained by Alex Coulton.