Multiple sequence alignment - TraesCS4A01G016000

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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 TraesCS4A01G016000 chr4A 100.000 2465 0 0 1 2465 10166067 10163603 0.000000e+00 4553.0
1 TraesCS4A01G016000 chr4A 92.742 248 18 0 2153 2400 446594038 446594285 2.330000e-95 359.0
2 TraesCS4A01G016000 chr4A 90.840 262 21 3 2153 2413 17725104 17724845 5.050000e-92 348.0
3 TraesCS4A01G016000 chr4A 75.429 175 27 15 319 490 693364193 693364032 1.220000e-08 71.3
4 TraesCS4A01G016000 chr4B 92.359 1806 78 27 379 2159 573090939 573092709 0.000000e+00 2516.0
5 TraesCS4A01G016000 chr4B 85.799 338 34 7 53 386 573090344 573090671 1.810000e-91 346.0
6 TraesCS4A01G016000 chr4D 90.970 1484 61 28 642 2073 458993339 458994801 0.000000e+00 1930.0
7 TraesCS4A01G016000 chr4D 91.651 539 36 5 39 576 458992425 458992955 0.000000e+00 737.0
8 TraesCS4A01G016000 chr4D 94.366 71 0 1 2399 2465 458995173 458995243 3.350000e-19 106.0
9 TraesCS4A01G016000 chr7A 93.361 241 14 1 2160 2400 103105367 103105129 3.020000e-94 355.0
10 TraesCS4A01G016000 chr7A 90.625 256 22 2 2146 2400 515976876 515976622 3.040000e-89 339.0
11 TraesCS4A01G016000 chr6A 93.004 243 13 3 2160 2400 98181088 98181328 3.900000e-93 351.0
12 TraesCS4A01G016000 chr3A 92.063 252 17 3 2153 2402 293558627 293558377 3.900000e-93 351.0
13 TraesCS4A01G016000 chr2A 90.769 260 19 4 2146 2401 738992461 738992203 2.350000e-90 342.0
14 TraesCS4A01G016000 chr2A 91.566 249 20 1 2159 2407 753083404 753083157 2.350000e-90 342.0
15 TraesCS4A01G016000 chr1A 90.038 261 23 3 2148 2406 70214738 70214997 3.930000e-88 335.0
16 TraesCS4A01G016000 chr2D 77.887 407 82 7 87 490 561213036 561212635 1.890000e-61 246.0
17 TraesCS4A01G016000 chr2B 76.852 432 77 17 79 505 9142266 9141853 3.190000e-54 222.0
18 TraesCS4A01G016000 chr5A 84.252 127 16 4 383 508 130150437 130150314 1.200000e-23 121.0
19 TraesCS4A01G016000 chr7B 91.111 45 3 1 461 504 661429206 661429162 2.650000e-05 60.2
20 TraesCS4A01G016000 chr7D 92.308 39 2 1 464 501 588153606 588153568 1.000000e-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 TraesCS4A01G016000 chr4A 10163603 10166067 2464 True 4553.000000 4553 100.000 1 2465 1 chr4A.!!$R1 2464
1 TraesCS4A01G016000 chr4B 573090344 573092709 2365 False 1431.000000 2516 89.079 53 2159 2 chr4B.!!$F1 2106
2 TraesCS4A01G016000 chr4D 458992425 458995243 2818 False 924.333333 1930 92.329 39 2465 3 chr4D.!!$F1 2426

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
859 1476 0.180171 CCCACTCACACACTCACCAA 59.82 55.0 0.0 0.0 0.0 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2237 3198 0.109781 TTTTTGCTCTCGCCGCAATC 60.11 50.0 6.66 0.0 45.67 2.67 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
25 26 8.290663 GGGCTGTAATATAAAAGTACACTACG 57.709 38.462 0.00 0.00 0.00 3.51
26 27 7.922811 GGGCTGTAATATAAAAGTACACTACGT 59.077 37.037 0.00 0.00 0.00 3.57
27 28 9.950680 GGCTGTAATATAAAAGTACACTACGTA 57.049 33.333 0.00 0.00 0.00 3.57
40 41 5.814764 ACACTACGTACATAGAGAACCAG 57.185 43.478 2.40 0.00 0.00 4.00
41 42 5.251764 ACACTACGTACATAGAGAACCAGT 58.748 41.667 2.40 0.00 0.00 4.00
42 43 5.709164 ACACTACGTACATAGAGAACCAGTT 59.291 40.000 2.40 0.00 0.00 3.16
45 46 8.239314 CACTACGTACATAGAGAACCAGTTTTA 58.761 37.037 2.40 0.00 0.00 1.52
48 49 6.210185 ACGTACATAGAGAACCAGTTTTAGGT 59.790 38.462 0.00 0.00 42.34 3.08
71 72 1.827969 AGCGCCTGTCAGAGATACTTT 59.172 47.619 2.29 0.00 0.00 2.66
79 80 6.040391 GCCTGTCAGAGATACTTTGAGATACT 59.960 42.308 0.00 0.00 0.00 2.12
137 139 2.433604 TCTCTTGCAGAGATGCCTTAGG 59.566 50.000 10.62 0.00 45.77 2.69
189 191 6.754675 GTCTATCTTTAGCAGTTCAGAGAACC 59.245 42.308 6.29 0.00 0.00 3.62
199 201 0.974383 TCAGAGAACCGAACTTCCCC 59.026 55.000 0.00 0.00 0.00 4.81
207 211 1.633945 ACCGAACTTCCCCTTGCTATT 59.366 47.619 0.00 0.00 0.00 1.73
219 223 4.650588 CCCCTTGCTATTGAAATGGATTCA 59.349 41.667 0.00 0.00 46.22 2.57
295 299 5.418840 GCCTCCTTGGTGAATGAAATAAGAA 59.581 40.000 0.00 0.00 38.35 2.52
308 312 6.060028 TGAAATAAGAATGCTATTGCGTCC 57.940 37.500 0.00 0.00 43.34 4.79
325 329 4.186159 GCGTCCTAGGCAAACTTGTATTA 58.814 43.478 2.96 0.00 0.00 0.98
330 334 6.535508 GTCCTAGGCAAACTTGTATTACTCAG 59.464 42.308 2.96 0.00 0.00 3.35
331 335 6.439375 TCCTAGGCAAACTTGTATTACTCAGA 59.561 38.462 2.96 0.00 0.00 3.27
337 341 8.178313 GGCAAACTTGTATTACTCAGATTTCTC 58.822 37.037 0.00 0.00 0.00 2.87
344 348 7.187480 TGTATTACTCAGATTTCTCGTTCTCG 58.813 38.462 0.00 0.00 38.55 4.04
399 679 5.821470 TGTTAGAGTAGAAGGACGGACTATG 59.179 44.000 0.00 0.00 0.00 2.23
405 685 2.166664 AGAAGGACGGACTATGACTTGC 59.833 50.000 0.00 0.00 0.00 4.01
410 690 3.380637 GGACGGACTATGACTTGCTTAGA 59.619 47.826 0.00 0.00 0.00 2.10
452 732 5.512942 TTGGGAATTGTCCTTGATGACTA 57.487 39.130 0.00 0.00 44.28 2.59
453 733 5.715439 TGGGAATTGTCCTTGATGACTAT 57.285 39.130 0.00 0.00 44.28 2.12
454 734 6.823286 TGGGAATTGTCCTTGATGACTATA 57.177 37.500 0.00 0.00 44.28 1.31
455 735 7.206789 TGGGAATTGTCCTTGATGACTATAA 57.793 36.000 0.00 0.00 44.28 0.98
588 877 1.002888 ACAGAGGACAGTGGAGCAATG 59.997 52.381 0.00 0.00 35.46 2.82
621 913 4.083862 GGTCCTGGCACGACTCCC 62.084 72.222 14.76 0.00 0.00 4.30
665 1272 2.239654 GTCATCATTCTGGGTCCTCCAA 59.760 50.000 0.00 0.00 46.51 3.53
666 1273 2.918934 TCATCATTCTGGGTCCTCCAAA 59.081 45.455 0.00 0.00 46.51 3.28
796 1410 1.933853 CCGTTCTCCTTCAAATAGCCG 59.066 52.381 0.00 0.00 0.00 5.52
841 1458 0.738389 CGTTCTCTCTGCTCTCCTCC 59.262 60.000 0.00 0.00 0.00 4.30
848 1465 0.613292 TCTGCTCTCCTCCCACTCAC 60.613 60.000 0.00 0.00 0.00 3.51
859 1476 0.180171 CCCACTCACACACTCACCAA 59.820 55.000 0.00 0.00 0.00 3.67
888 1507 3.567797 GCAGACGCTTCATCGGCC 61.568 66.667 0.00 0.00 38.49 6.13
896 1515 1.089481 GCTTCATCGGCCGAATCACA 61.089 55.000 34.66 13.57 0.00 3.58
897 1516 0.933097 CTTCATCGGCCGAATCACAG 59.067 55.000 34.66 19.09 0.00 3.66
918 1537 4.641989 CAGGCTAAGGTAAAGCATCAACAT 59.358 41.667 0.00 0.00 41.93 2.71
992 1611 2.489275 GGCCGCAGAGAGAGAGAGG 61.489 68.421 0.00 0.00 0.00 3.69
1146 1765 0.693049 ATTGGTCCTCCTGCGAGTTT 59.307 50.000 0.00 0.00 33.93 2.66
1147 1766 0.472471 TTGGTCCTCCTGCGAGTTTT 59.528 50.000 0.00 0.00 33.93 2.43
1148 1767 0.472471 TGGTCCTCCTGCGAGTTTTT 59.528 50.000 0.00 0.00 33.93 1.94
1262 1885 3.937706 CCTGAGAAGGATTAGCACTGTTG 59.062 47.826 0.00 0.00 0.00 3.33
1275 1898 3.065371 AGCACTGTTGTTTTTCTTCCTCG 59.935 43.478 0.00 0.00 0.00 4.63
1307 1930 0.736636 TGAATGCTATGCTGTGCTGC 59.263 50.000 0.00 0.00 0.00 5.25
1450 2073 2.919856 AGGCCGAGATCATCCGGG 60.920 66.667 18.46 2.50 45.42 5.73
1537 2160 1.268234 GCTTGAATTCATCGGCCGAAG 60.268 52.381 34.66 29.00 0.00 3.79
1622 2245 3.378339 CTGCTGCTTGTTTCTTTTCCTG 58.622 45.455 0.00 0.00 0.00 3.86
1670 2299 2.583868 TCCGTGTGCGTGTGTGTC 60.584 61.111 0.00 0.00 36.15 3.67
1773 2408 1.138266 TGGTGCTTCTACCGATTAGCC 59.862 52.381 0.00 0.00 43.87 3.93
1857 2523 2.694109 TCAGACTGAGATGCATCCTCTG 59.306 50.000 23.06 23.10 36.21 3.35
1949 2619 2.613133 AGCTAGCTAGGTTAACGACGAG 59.387 50.000 17.69 0.00 0.00 4.18
2024 2700 5.642686 ACGTCTTCTCTGCATAACTTACTC 58.357 41.667 0.00 0.00 0.00 2.59
2025 2701 5.416326 ACGTCTTCTCTGCATAACTTACTCT 59.584 40.000 0.00 0.00 0.00 3.24
2026 2702 6.598457 ACGTCTTCTCTGCATAACTTACTCTA 59.402 38.462 0.00 0.00 0.00 2.43
2027 2703 6.908284 CGTCTTCTCTGCATAACTTACTCTAC 59.092 42.308 0.00 0.00 0.00 2.59
2028 2704 7.197703 GTCTTCTCTGCATAACTTACTCTACC 58.802 42.308 0.00 0.00 0.00 3.18
2161 3122 8.175716 GGTGCACTTGTAAATGTAAGAAGATAC 58.824 37.037 17.98 0.00 0.00 2.24
2162 3123 8.936864 GTGCACTTGTAAATGTAAGAAGATACT 58.063 33.333 10.32 0.00 0.00 2.12
2163 3124 9.151471 TGCACTTGTAAATGTAAGAAGATACTC 57.849 33.333 0.00 0.00 0.00 2.59
2164 3125 8.604890 GCACTTGTAAATGTAAGAAGATACTCC 58.395 37.037 0.00 0.00 0.00 3.85
2165 3126 9.099454 CACTTGTAAATGTAAGAAGATACTCCC 57.901 37.037 0.00 0.00 0.00 4.30
2166 3127 9.047947 ACTTGTAAATGTAAGAAGATACTCCCT 57.952 33.333 0.00 0.00 0.00 4.20
2167 3128 9.535878 CTTGTAAATGTAAGAAGATACTCCCTC 57.464 37.037 0.00 0.00 0.00 4.30
2168 3129 8.019656 TGTAAATGTAAGAAGATACTCCCTCC 57.980 38.462 0.00 0.00 0.00 4.30
2169 3130 7.622081 TGTAAATGTAAGAAGATACTCCCTCCA 59.378 37.037 0.00 0.00 0.00 3.86
2170 3131 7.698163 AAATGTAAGAAGATACTCCCTCCAT 57.302 36.000 0.00 0.00 0.00 3.41
2171 3132 7.698163 AATGTAAGAAGATACTCCCTCCATT 57.302 36.000 0.00 0.00 0.00 3.16
2172 3133 6.732896 TGTAAGAAGATACTCCCTCCATTC 57.267 41.667 0.00 0.00 0.00 2.67
2173 3134 5.602978 TGTAAGAAGATACTCCCTCCATTCC 59.397 44.000 0.00 0.00 0.00 3.01
2174 3135 4.286813 AGAAGATACTCCCTCCATTCCA 57.713 45.455 0.00 0.00 0.00 3.53
2175 3136 3.970640 AGAAGATACTCCCTCCATTCCAC 59.029 47.826 0.00 0.00 0.00 4.02
2176 3137 3.421394 AGATACTCCCTCCATTCCACA 57.579 47.619 0.00 0.00 0.00 4.17
2177 3138 3.736094 AGATACTCCCTCCATTCCACAA 58.264 45.455 0.00 0.00 0.00 3.33
2178 3139 4.310740 AGATACTCCCTCCATTCCACAAT 58.689 43.478 0.00 0.00 0.00 2.71
2179 3140 2.814805 ACTCCCTCCATTCCACAATG 57.185 50.000 0.00 0.00 39.45 2.82
2180 3141 1.995542 ACTCCCTCCATTCCACAATGT 59.004 47.619 0.00 0.00 38.22 2.71
2181 3142 3.189606 ACTCCCTCCATTCCACAATGTA 58.810 45.455 0.00 0.00 38.22 2.29
2182 3143 3.200825 ACTCCCTCCATTCCACAATGTAG 59.799 47.826 0.00 0.00 38.22 2.74
2183 3144 3.189606 TCCCTCCATTCCACAATGTAGT 58.810 45.455 0.00 0.00 38.22 2.73
2184 3145 3.054434 TCCCTCCATTCCACAATGTAGTG 60.054 47.826 0.00 0.00 38.22 2.74
2185 3146 2.684881 CCTCCATTCCACAATGTAGTGC 59.315 50.000 0.00 0.00 38.22 4.40
2186 3147 3.614092 CTCCATTCCACAATGTAGTGCT 58.386 45.455 0.00 0.00 38.22 4.40
2187 3148 4.012374 CTCCATTCCACAATGTAGTGCTT 58.988 43.478 0.00 0.00 38.22 3.91
2188 3149 4.009675 TCCATTCCACAATGTAGTGCTTC 58.990 43.478 0.00 0.00 38.22 3.86
2189 3150 3.129287 CCATTCCACAATGTAGTGCTTCC 59.871 47.826 0.00 0.00 38.22 3.46
2190 3151 3.788227 TTCCACAATGTAGTGCTTCCT 57.212 42.857 0.00 0.00 38.18 3.36
2191 3152 3.334583 TCCACAATGTAGTGCTTCCTC 57.665 47.619 0.00 0.00 38.18 3.71
2192 3153 2.906389 TCCACAATGTAGTGCTTCCTCT 59.094 45.455 0.00 0.00 38.18 3.69
2193 3154 4.093743 TCCACAATGTAGTGCTTCCTCTA 58.906 43.478 0.00 0.00 38.18 2.43
2194 3155 4.716784 TCCACAATGTAGTGCTTCCTCTAT 59.283 41.667 0.00 0.00 38.18 1.98
2195 3156 5.053145 CCACAATGTAGTGCTTCCTCTATC 58.947 45.833 0.00 0.00 38.18 2.08
2196 3157 5.163364 CCACAATGTAGTGCTTCCTCTATCT 60.163 44.000 0.00 0.00 38.18 1.98
2197 3158 6.344500 CACAATGTAGTGCTTCCTCTATCTT 58.656 40.000 0.00 0.00 32.04 2.40
2198 3159 6.478344 CACAATGTAGTGCTTCCTCTATCTTC 59.522 42.308 0.00 0.00 32.04 2.87
2199 3160 6.155221 ACAATGTAGTGCTTCCTCTATCTTCA 59.845 38.462 0.00 0.00 0.00 3.02
2200 3161 6.992664 ATGTAGTGCTTCCTCTATCTTCAT 57.007 37.500 0.00 0.00 0.00 2.57
2201 3162 6.154203 TGTAGTGCTTCCTCTATCTTCATG 57.846 41.667 0.00 0.00 0.00 3.07
2202 3163 5.658634 TGTAGTGCTTCCTCTATCTTCATGT 59.341 40.000 0.00 0.00 0.00 3.21
2203 3164 5.690464 AGTGCTTCCTCTATCTTCATGTT 57.310 39.130 0.00 0.00 0.00 2.71
2204 3165 6.059787 AGTGCTTCCTCTATCTTCATGTTT 57.940 37.500 0.00 0.00 0.00 2.83
2205 3166 6.479884 AGTGCTTCCTCTATCTTCATGTTTT 58.520 36.000 0.00 0.00 0.00 2.43
2206 3167 7.624549 AGTGCTTCCTCTATCTTCATGTTTTA 58.375 34.615 0.00 0.00 0.00 1.52
2207 3168 8.103305 AGTGCTTCCTCTATCTTCATGTTTTAA 58.897 33.333 0.00 0.00 0.00 1.52
2208 3169 8.897752 GTGCTTCCTCTATCTTCATGTTTTAAT 58.102 33.333 0.00 0.00 0.00 1.40
2209 3170 9.466497 TGCTTCCTCTATCTTCATGTTTTAATT 57.534 29.630 0.00 0.00 0.00 1.40
2217 3178 9.840427 CTATCTTCATGTTTTAATTTTGACCGT 57.160 29.630 0.00 0.00 0.00 4.83
2237 3198 9.086336 TGACCGTAAATTTAACTATTAAGACCG 57.914 33.333 0.00 0.00 0.00 4.79
2238 3199 9.301153 GACCGTAAATTTAACTATTAAGACCGA 57.699 33.333 0.00 0.00 0.00 4.69
2239 3200 9.822185 ACCGTAAATTTAACTATTAAGACCGAT 57.178 29.630 0.00 0.00 0.00 4.18
2271 3232 9.941664 CGAGAGCAAAAATTATATCAGTGAATT 57.058 29.630 0.00 0.00 0.00 2.17
2273 3234 9.941664 AGAGCAAAAATTATATCAGTGAATTCG 57.058 29.630 0.00 0.00 0.00 3.34
2274 3235 9.722056 GAGCAAAAATTATATCAGTGAATTCGT 57.278 29.630 0.00 0.00 0.00 3.85
2320 3281 2.112297 TTTTTCTCCCGCCGCAGT 59.888 55.556 0.00 0.00 0.00 4.40
2321 3282 1.527380 TTTTTCTCCCGCCGCAGTT 60.527 52.632 0.00 0.00 0.00 3.16
2322 3283 1.791103 TTTTTCTCCCGCCGCAGTTG 61.791 55.000 0.00 0.00 0.00 3.16
2323 3284 4.697756 TTCTCCCGCCGCAGTTGG 62.698 66.667 0.00 0.00 0.00 3.77
2330 3291 2.665185 GCCGCAGTTGGTCTCGTT 60.665 61.111 0.00 0.00 0.00 3.85
2331 3292 2.954753 GCCGCAGTTGGTCTCGTTG 61.955 63.158 0.00 0.00 0.00 4.10
2332 3293 1.300620 CCGCAGTTGGTCTCGTTGA 60.301 57.895 0.00 0.00 0.00 3.18
2333 3294 0.670546 CCGCAGTTGGTCTCGTTGAT 60.671 55.000 0.00 0.00 0.00 2.57
2334 3295 1.148310 CGCAGTTGGTCTCGTTGATT 58.852 50.000 0.00 0.00 0.00 2.57
2335 3296 2.333926 CGCAGTTGGTCTCGTTGATTA 58.666 47.619 0.00 0.00 0.00 1.75
2336 3297 2.734606 CGCAGTTGGTCTCGTTGATTAA 59.265 45.455 0.00 0.00 0.00 1.40
2337 3298 3.185594 CGCAGTTGGTCTCGTTGATTAAA 59.814 43.478 0.00 0.00 0.00 1.52
2338 3299 4.142902 CGCAGTTGGTCTCGTTGATTAAAT 60.143 41.667 0.00 0.00 0.00 1.40
2339 3300 5.616866 CGCAGTTGGTCTCGTTGATTAAATT 60.617 40.000 0.00 0.00 0.00 1.82
2340 3301 6.149633 GCAGTTGGTCTCGTTGATTAAATTT 58.850 36.000 0.00 0.00 0.00 1.82
2341 3302 7.302524 GCAGTTGGTCTCGTTGATTAAATTTA 58.697 34.615 0.00 0.00 0.00 1.40
2342 3303 7.968405 GCAGTTGGTCTCGTTGATTAAATTTAT 59.032 33.333 0.00 0.00 0.00 1.40
2343 3304 9.277565 CAGTTGGTCTCGTTGATTAAATTTATG 57.722 33.333 0.00 0.00 0.00 1.90
2344 3305 8.458843 AGTTGGTCTCGTTGATTAAATTTATGG 58.541 33.333 0.00 0.00 0.00 2.74
2345 3306 7.931578 TGGTCTCGTTGATTAAATTTATGGT 57.068 32.000 0.00 0.00 0.00 3.55
2346 3307 7.981142 TGGTCTCGTTGATTAAATTTATGGTC 58.019 34.615 0.00 0.00 0.00 4.02
2347 3308 7.608376 TGGTCTCGTTGATTAAATTTATGGTCA 59.392 33.333 0.00 2.14 0.00 4.02
2348 3309 8.455682 GGTCTCGTTGATTAAATTTATGGTCAA 58.544 33.333 13.07 13.07 0.00 3.18
2349 3310 9.834628 GTCTCGTTGATTAAATTTATGGTCAAA 57.165 29.630 16.35 7.28 0.00 2.69
2366 3327 5.883328 GTCAAAATTGGACCTCGAAAAAC 57.117 39.130 0.00 0.00 0.00 2.43
2367 3328 4.439776 GTCAAAATTGGACCTCGAAAAACG 59.560 41.667 0.00 0.00 44.09 3.60
2368 3329 4.096682 TCAAAATTGGACCTCGAAAAACGT 59.903 37.500 0.00 0.00 43.13 3.99
2369 3330 3.619233 AATTGGACCTCGAAAAACGTG 57.381 42.857 0.00 0.00 43.13 4.49
2374 3335 4.792125 CTCGAAAAACGTGGACGC 57.208 55.556 0.00 0.00 44.43 5.19
2375 3336 1.928653 CTCGAAAAACGTGGACGCA 59.071 52.632 0.00 0.00 44.43 5.24
2376 3337 0.382636 CTCGAAAAACGTGGACGCAC 60.383 55.000 0.00 0.00 44.43 5.34
2377 3338 0.806884 TCGAAAAACGTGGACGCACT 60.807 50.000 0.00 0.00 44.43 4.40
2378 3339 0.854062 CGAAAAACGTGGACGCACTA 59.146 50.000 0.00 0.00 44.43 2.74
2379 3340 1.458064 CGAAAAACGTGGACGCACTAT 59.542 47.619 0.00 0.00 44.43 2.12
2380 3341 2.662637 CGAAAAACGTGGACGCACTATA 59.337 45.455 0.00 0.00 44.43 1.31
2381 3342 3.305094 CGAAAAACGTGGACGCACTATAT 59.695 43.478 0.00 0.00 44.43 0.86
2382 3343 4.201647 CGAAAAACGTGGACGCACTATATT 60.202 41.667 0.00 0.00 44.43 1.28
2383 3344 5.616488 AAAAACGTGGACGCACTATATTT 57.384 34.783 0.00 0.00 44.43 1.40
2384 3345 5.616488 AAAACGTGGACGCACTATATTTT 57.384 34.783 0.00 0.00 44.43 1.82
2385 3346 4.593597 AACGTGGACGCACTATATTTTG 57.406 40.909 0.00 0.00 44.43 2.44
2386 3347 2.933906 ACGTGGACGCACTATATTTTGG 59.066 45.455 0.00 0.00 44.43 3.28
2387 3348 3.191669 CGTGGACGCACTATATTTTGGA 58.808 45.455 0.00 0.00 0.00 3.53
2388 3349 3.619483 CGTGGACGCACTATATTTTGGAA 59.381 43.478 0.00 0.00 0.00 3.53
2389 3350 4.272504 CGTGGACGCACTATATTTTGGAAT 59.727 41.667 0.00 0.00 0.00 3.01
2390 3351 5.510671 GTGGACGCACTATATTTTGGAATG 58.489 41.667 0.00 0.00 0.00 2.67
2391 3352 4.578516 TGGACGCACTATATTTTGGAATGG 59.421 41.667 0.00 0.00 0.00 3.16
2392 3353 4.819630 GGACGCACTATATTTTGGAATGGA 59.180 41.667 0.00 0.00 0.00 3.41
2393 3354 5.049405 GGACGCACTATATTTTGGAATGGAG 60.049 44.000 0.00 0.00 0.00 3.86
2394 3355 4.821805 ACGCACTATATTTTGGAATGGAGG 59.178 41.667 0.00 0.00 0.00 4.30
2395 3356 4.216257 CGCACTATATTTTGGAATGGAGGG 59.784 45.833 0.00 0.00 0.00 4.30
2396 3357 5.385198 GCACTATATTTTGGAATGGAGGGA 58.615 41.667 0.00 0.00 0.00 4.20
2397 3358 5.474876 GCACTATATTTTGGAATGGAGGGAG 59.525 44.000 0.00 0.00 0.00 4.30
2398 3359 6.605119 CACTATATTTTGGAATGGAGGGAGT 58.395 40.000 0.00 0.00 0.00 3.85
2399 3360 7.691791 GCACTATATTTTGGAATGGAGGGAGTA 60.692 40.741 0.00 0.00 0.00 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.922811 ACGTAGTGTACTTTTATATTACAGCCC 59.077 37.037 0.00 0.00 42.51 5.19
1 2 8.862550 ACGTAGTGTACTTTTATATTACAGCC 57.137 34.615 0.00 0.00 42.51 4.85
17 18 6.409704 ACTGGTTCTCTATGTACGTAGTGTA 58.590 40.000 19.29 9.93 45.73 2.90
18 19 5.251764 ACTGGTTCTCTATGTACGTAGTGT 58.748 41.667 19.29 7.58 45.73 3.55
19 20 5.814764 ACTGGTTCTCTATGTACGTAGTG 57.185 43.478 19.29 17.14 45.73 2.74
21 22 7.914346 CCTAAAACTGGTTCTCTATGTACGTAG 59.086 40.741 14.92 14.92 0.00 3.51
22 23 7.394359 ACCTAAAACTGGTTCTCTATGTACGTA 59.606 37.037 0.00 0.00 33.34 3.57
23 24 6.210185 ACCTAAAACTGGTTCTCTATGTACGT 59.790 38.462 0.00 0.00 33.34 3.57
24 25 6.530534 CACCTAAAACTGGTTCTCTATGTACG 59.469 42.308 0.00 0.00 35.28 3.67
25 26 7.384477 ACACCTAAAACTGGTTCTCTATGTAC 58.616 38.462 0.00 0.00 35.28 2.90
26 27 7.549147 ACACCTAAAACTGGTTCTCTATGTA 57.451 36.000 0.00 0.00 35.28 2.29
27 28 6.435292 ACACCTAAAACTGGTTCTCTATGT 57.565 37.500 0.00 0.00 35.28 2.29
28 29 6.535508 GCTACACCTAAAACTGGTTCTCTATG 59.464 42.308 0.00 0.00 35.28 2.23
29 30 6.627508 CGCTACACCTAAAACTGGTTCTCTAT 60.628 42.308 0.00 0.00 35.28 1.98
30 31 5.336213 CGCTACACCTAAAACTGGTTCTCTA 60.336 44.000 0.00 0.00 35.28 2.43
31 32 4.560919 CGCTACACCTAAAACTGGTTCTCT 60.561 45.833 0.00 0.00 35.28 3.10
32 33 3.678548 CGCTACACCTAAAACTGGTTCTC 59.321 47.826 0.00 0.00 35.28 2.87
33 34 3.660865 CGCTACACCTAAAACTGGTTCT 58.339 45.455 0.00 0.00 35.28 3.01
34 35 2.159037 GCGCTACACCTAAAACTGGTTC 59.841 50.000 0.00 0.00 35.28 3.62
35 36 2.148768 GCGCTACACCTAAAACTGGTT 58.851 47.619 0.00 0.00 35.28 3.67
36 37 1.609841 GGCGCTACACCTAAAACTGGT 60.610 52.381 7.64 0.00 38.53 4.00
37 38 1.084289 GGCGCTACACCTAAAACTGG 58.916 55.000 7.64 0.00 0.00 4.00
38 39 1.732259 CAGGCGCTACACCTAAAACTG 59.268 52.381 7.64 0.00 35.10 3.16
39 40 1.346722 ACAGGCGCTACACCTAAAACT 59.653 47.619 7.64 0.00 35.10 2.66
40 41 1.730612 GACAGGCGCTACACCTAAAAC 59.269 52.381 7.64 0.00 35.10 2.43
41 42 1.345089 TGACAGGCGCTACACCTAAAA 59.655 47.619 7.64 0.00 35.10 1.52
42 43 0.970640 TGACAGGCGCTACACCTAAA 59.029 50.000 7.64 0.00 35.10 1.85
45 46 1.599606 CTCTGACAGGCGCTACACCT 61.600 60.000 7.64 0.00 38.35 4.00
48 49 1.676529 GTATCTCTGACAGGCGCTACA 59.323 52.381 7.64 1.72 0.00 2.74
71 72 3.790089 TGATCTCGCCCTAGTATCTCA 57.210 47.619 0.00 0.00 0.00 3.27
79 80 4.284490 AGCAGAAAATATGATCTCGCCCTA 59.716 41.667 0.00 0.00 0.00 3.53
137 139 6.068473 TCATGATTGCACATAATTCAGCTC 57.932 37.500 0.00 0.00 0.00 4.09
189 191 2.985896 TCAATAGCAAGGGGAAGTTCG 58.014 47.619 0.00 0.00 0.00 3.95
207 211 3.631686 CCGCCATACTTGAATCCATTTCA 59.368 43.478 0.00 0.00 42.62 2.69
219 223 2.102588 GACCATAGACACCGCCATACTT 59.897 50.000 0.00 0.00 0.00 2.24
265 269 4.870636 TCATTCACCAAGGAGGCATAAAT 58.129 39.130 0.00 0.00 43.14 1.40
295 299 0.758734 TGCCTAGGACGCAATAGCAT 59.241 50.000 14.75 0.00 42.27 3.79
308 312 8.723942 AATCTGAGTAATACAAGTTTGCCTAG 57.276 34.615 0.00 0.00 0.00 3.02
325 329 3.082548 TCCGAGAACGAGAAATCTGAGT 58.917 45.455 0.00 0.00 42.66 3.41
330 334 4.209495 GCCTTATTCCGAGAACGAGAAATC 59.791 45.833 0.00 0.00 42.66 2.17
331 335 4.120589 GCCTTATTCCGAGAACGAGAAAT 58.879 43.478 0.00 0.00 42.66 2.17
337 341 3.372954 CACTAGCCTTATTCCGAGAACG 58.627 50.000 0.00 0.00 39.43 3.95
344 348 5.990386 GCTAAACTACCACTAGCCTTATTCC 59.010 44.000 0.00 0.00 33.41 3.01
399 679 1.135053 GGACCGGACTCTAAGCAAGTC 60.135 57.143 9.46 0.00 41.98 3.01
405 685 2.656002 TCATCAGGACCGGACTCTAAG 58.344 52.381 9.46 0.00 0.00 2.18
410 690 1.645710 AACTTCATCAGGACCGGACT 58.354 50.000 9.46 2.22 0.00 3.85
497 782 5.560953 GCAAGTATGAGCGTCTTCTTGTTTT 60.561 40.000 12.62 0.00 35.96 2.43
498 783 4.083802 GCAAGTATGAGCGTCTTCTTGTTT 60.084 41.667 12.62 0.00 35.96 2.83
499 784 3.433615 GCAAGTATGAGCGTCTTCTTGTT 59.566 43.478 12.62 0.00 35.96 2.83
500 785 2.996621 GCAAGTATGAGCGTCTTCTTGT 59.003 45.455 12.62 0.00 35.96 3.16
501 786 2.995939 TGCAAGTATGAGCGTCTTCTTG 59.004 45.455 8.72 8.72 36.42 3.02
553 842 6.276091 TGTCCTCTGTGATTATGATTTCGAG 58.724 40.000 0.00 0.00 0.00 4.04
665 1272 4.115199 GCCCGGGCTCCAGACATT 62.115 66.667 38.76 0.00 38.26 2.71
841 1458 1.299541 GTTGGTGAGTGTGTGAGTGG 58.700 55.000 0.00 0.00 0.00 4.00
848 1465 1.665679 GTGACTGTGTTGGTGAGTGTG 59.334 52.381 0.00 0.00 0.00 3.82
859 1476 1.588932 CGTCTGCGTGTGACTGTGT 60.589 57.895 0.00 0.00 32.70 3.72
888 1507 3.309954 GCTTTACCTTAGCCTGTGATTCG 59.690 47.826 0.00 0.00 32.45 3.34
896 1515 4.301072 TGTTGATGCTTTACCTTAGCCT 57.699 40.909 0.00 0.00 37.85 4.58
897 1516 6.884280 ATATGTTGATGCTTTACCTTAGCC 57.116 37.500 0.00 0.00 37.85 3.93
900 1519 8.198778 TCGTGTATATGTTGATGCTTTACCTTA 58.801 33.333 0.00 0.00 0.00 2.69
918 1537 3.603158 TTCCTTGCTTGCTCGTGTATA 57.397 42.857 0.00 0.00 0.00 1.47
980 1599 1.010793 TCTCCCTCCCTCTCTCTCTCT 59.989 57.143 0.00 0.00 0.00 3.10
981 1600 1.518367 TCTCCCTCCCTCTCTCTCTC 58.482 60.000 0.00 0.00 0.00 3.20
982 1601 1.782752 CATCTCCCTCCCTCTCTCTCT 59.217 57.143 0.00 0.00 0.00 3.10
983 1602 1.499007 ACATCTCCCTCCCTCTCTCTC 59.501 57.143 0.00 0.00 0.00 3.20
992 1611 2.851071 CGGCTCGACATCTCCCTCC 61.851 68.421 0.00 0.00 0.00 4.30
1069 1688 2.280865 GCGGGATGATTCCGGGAC 60.281 66.667 15.01 0.00 46.86 4.46
1176 1795 2.734723 CCTGTCAGTGTCGGTGCG 60.735 66.667 0.00 0.00 0.00 5.34
1262 1885 2.879026 AGGAACAGCGAGGAAGAAAAAC 59.121 45.455 0.00 0.00 0.00 2.43
1275 1898 2.089980 AGCATTCATGTCAGGAACAGC 58.910 47.619 15.01 15.01 42.37 4.40
1329 1952 2.564553 ATCCGCACGTCTCCTTCAGC 62.565 60.000 0.00 0.00 0.00 4.26
1374 1997 2.115911 CCTGTCGGAGAGGTCCTCG 61.116 68.421 13.41 2.57 42.89 4.63
1377 2000 2.363147 AGCCTGTCGGAGAGGTCC 60.363 66.667 20.95 6.85 36.95 4.46
1380 2003 2.477176 CGAGAGCCTGTCGGAGAGG 61.477 68.421 16.48 16.48 36.95 3.69
1450 2073 4.593864 CGGCTAGCGGAGAAGGCC 62.594 72.222 16.80 0.00 39.43 5.19
1537 2160 2.835895 GCCTCCTCGTCTCCCTCC 60.836 72.222 0.00 0.00 0.00 4.30
1656 2279 0.446222 ACAAAGACACACACGCACAC 59.554 50.000 0.00 0.00 0.00 3.82
1657 2280 0.445829 CACAAAGACACACACGCACA 59.554 50.000 0.00 0.00 0.00 4.57
1658 2281 0.724549 TCACAAAGACACACACGCAC 59.275 50.000 0.00 0.00 0.00 5.34
1659 2282 1.006086 CTCACAAAGACACACACGCA 58.994 50.000 0.00 0.00 0.00 5.24
1660 2283 0.304705 CCTCACAAAGACACACACGC 59.695 55.000 0.00 0.00 0.00 5.34
1661 2284 0.304705 GCCTCACAAAGACACACACG 59.695 55.000 0.00 0.00 0.00 4.49
1662 2285 0.663153 GGCCTCACAAAGACACACAC 59.337 55.000 0.00 0.00 0.00 3.82
1670 2299 2.424956 GCTAAATGAGGGCCTCACAAAG 59.575 50.000 37.24 30.19 43.63 2.77
1757 2392 1.337387 ACTCGGCTAATCGGTAGAAGC 59.663 52.381 0.00 0.00 31.24 3.86
1773 2408 8.274939 GTCTACAAGCTAGTAGTAATACACTCG 58.725 40.741 2.81 0.00 41.68 4.18
1903 2573 2.480587 CCGTTGGAAAACAGGGACAAAC 60.481 50.000 0.00 0.00 0.00 2.93
2000 2670 6.598457 AGAGTAAGTTATGCAGAGAAGACGTA 59.402 38.462 0.00 0.00 0.00 3.57
2024 2700 2.712057 AACTTGACCGTACGTGGTAG 57.288 50.000 15.21 8.61 44.01 3.18
2025 2701 4.782019 AATAACTTGACCGTACGTGGTA 57.218 40.909 15.21 2.47 44.01 3.25
2027 2703 3.123959 CCAAATAACTTGACCGTACGTGG 59.876 47.826 15.21 6.63 37.17 4.94
2028 2704 3.989167 TCCAAATAACTTGACCGTACGTG 59.011 43.478 15.21 8.32 37.17 4.49
2139 3100 9.099454 GGGAGTATCTTCTTACATTTACAAGTG 57.901 37.037 0.00 0.00 33.73 3.16
2161 3122 2.814805 ACATTGTGGAATGGAGGGAG 57.185 50.000 0.00 0.00 43.00 4.30
2162 3123 3.931907 CTACATTGTGGAATGGAGGGA 57.068 47.619 0.00 0.00 44.23 4.20
2166 3127 3.719268 AGCACTACATTGTGGAATGGA 57.281 42.857 7.20 0.00 43.00 3.41
2167 3128 3.129287 GGAAGCACTACATTGTGGAATGG 59.871 47.826 7.20 0.00 43.00 3.16
2168 3129 4.012374 AGGAAGCACTACATTGTGGAATG 58.988 43.478 7.20 0.00 44.11 2.67
2169 3130 4.018960 AGAGGAAGCACTACATTGTGGAAT 60.019 41.667 7.20 0.00 38.31 3.01
2170 3131 3.327757 AGAGGAAGCACTACATTGTGGAA 59.672 43.478 7.20 0.00 38.31 3.53
2171 3132 2.906389 AGAGGAAGCACTACATTGTGGA 59.094 45.455 7.20 0.00 38.31 4.02
2172 3133 3.340814 AGAGGAAGCACTACATTGTGG 57.659 47.619 0.00 0.00 38.31 4.17
2173 3134 5.911752 AGATAGAGGAAGCACTACATTGTG 58.088 41.667 0.00 0.00 40.62 3.33
2174 3135 6.155221 TGAAGATAGAGGAAGCACTACATTGT 59.845 38.462 0.00 0.00 0.00 2.71
2175 3136 6.577103 TGAAGATAGAGGAAGCACTACATTG 58.423 40.000 0.00 0.00 0.00 2.82
2176 3137 6.798427 TGAAGATAGAGGAAGCACTACATT 57.202 37.500 0.00 0.00 0.00 2.71
2177 3138 6.326064 ACATGAAGATAGAGGAAGCACTACAT 59.674 38.462 0.00 0.00 0.00 2.29
2178 3139 5.658634 ACATGAAGATAGAGGAAGCACTACA 59.341 40.000 0.00 0.00 0.00 2.74
2179 3140 6.155475 ACATGAAGATAGAGGAAGCACTAC 57.845 41.667 0.00 0.00 0.00 2.73
2180 3141 6.798427 AACATGAAGATAGAGGAAGCACTA 57.202 37.500 0.00 0.00 0.00 2.74
2181 3142 5.690464 AACATGAAGATAGAGGAAGCACT 57.310 39.130 0.00 0.00 0.00 4.40
2182 3143 6.749923 AAAACATGAAGATAGAGGAAGCAC 57.250 37.500 0.00 0.00 0.00 4.40
2183 3144 9.466497 AATTAAAACATGAAGATAGAGGAAGCA 57.534 29.630 0.00 0.00 0.00 3.91
2191 3152 9.840427 ACGGTCAAAATTAAAACATGAAGATAG 57.160 29.630 0.00 0.00 0.00 2.08
2211 3172 9.086336 CGGTCTTAATAGTTAAATTTACGGTCA 57.914 33.333 0.00 0.00 0.00 4.02
2212 3173 9.301153 TCGGTCTTAATAGTTAAATTTACGGTC 57.699 33.333 0.00 0.00 0.00 4.79
2213 3174 9.822185 ATCGGTCTTAATAGTTAAATTTACGGT 57.178 29.630 0.00 0.00 0.00 4.83
2236 3197 2.239341 TTTTGCTCTCGCCGCAATCG 62.239 55.000 6.66 0.00 45.67 3.34
2237 3198 0.109781 TTTTTGCTCTCGCCGCAATC 60.110 50.000 6.66 0.00 45.67 2.67
2238 3199 0.527565 ATTTTTGCTCTCGCCGCAAT 59.472 45.000 6.66 0.00 45.67 3.56
2239 3200 0.313672 AATTTTTGCTCTCGCCGCAA 59.686 45.000 2.44 2.44 44.83 4.85
2240 3201 1.160989 TAATTTTTGCTCTCGCCGCA 58.839 45.000 0.00 0.00 35.22 5.69
2241 3202 2.475200 ATAATTTTTGCTCTCGCCGC 57.525 45.000 0.00 0.00 34.43 6.53
2242 3203 5.050091 ACTGATATAATTTTTGCTCTCGCCG 60.050 40.000 0.00 0.00 34.43 6.46
2243 3204 6.017934 TCACTGATATAATTTTTGCTCTCGCC 60.018 38.462 0.00 0.00 34.43 5.54
2244 3205 6.948353 TCACTGATATAATTTTTGCTCTCGC 58.052 36.000 0.00 0.00 0.00 5.03
2245 3206 9.941664 AATTCACTGATATAATTTTTGCTCTCG 57.058 29.630 0.00 0.00 0.00 4.04
2247 3208 9.941664 CGAATTCACTGATATAATTTTTGCTCT 57.058 29.630 6.22 0.00 0.00 4.09
2248 3209 9.722056 ACGAATTCACTGATATAATTTTTGCTC 57.278 29.630 6.22 0.00 0.00 4.26
2303 3264 1.527380 AACTGCGGCGGGAGAAAAA 60.527 52.632 19.55 0.00 35.29 1.94
2304 3265 2.112297 AACTGCGGCGGGAGAAAA 59.888 55.556 19.55 0.00 35.29 2.29
2305 3266 2.668212 CAACTGCGGCGGGAGAAA 60.668 61.111 19.55 0.00 35.29 2.52
2306 3267 4.697756 CCAACTGCGGCGGGAGAA 62.698 66.667 19.55 0.00 35.29 2.87
2313 3274 2.665185 AACGAGACCAACTGCGGC 60.665 61.111 0.00 0.00 0.00 6.53
2314 3275 0.670546 ATCAACGAGACCAACTGCGG 60.671 55.000 0.00 0.00 0.00 5.69
2315 3276 1.148310 AATCAACGAGACCAACTGCG 58.852 50.000 0.00 0.00 0.00 5.18
2316 3277 4.742438 TTTAATCAACGAGACCAACTGC 57.258 40.909 0.00 0.00 0.00 4.40
2317 3278 9.277565 CATAAATTTAATCAACGAGACCAACTG 57.722 33.333 1.21 0.00 0.00 3.16
2318 3279 8.458843 CCATAAATTTAATCAACGAGACCAACT 58.541 33.333 1.21 0.00 0.00 3.16
2319 3280 8.241367 ACCATAAATTTAATCAACGAGACCAAC 58.759 33.333 1.21 0.00 0.00 3.77
2320 3281 8.343168 ACCATAAATTTAATCAACGAGACCAA 57.657 30.769 1.21 0.00 0.00 3.67
2321 3282 7.608376 TGACCATAAATTTAATCAACGAGACCA 59.392 33.333 1.21 0.00 0.00 4.02
2322 3283 7.981142 TGACCATAAATTTAATCAACGAGACC 58.019 34.615 1.21 0.00 0.00 3.85
2323 3284 9.834628 TTTGACCATAAATTTAATCAACGAGAC 57.165 29.630 16.49 0.00 0.00 3.36
2333 3294 9.936759 GAGGTCCAATTTTGACCATAAATTTAA 57.063 29.630 20.67 0.00 41.22 1.52
2334 3295 8.247562 CGAGGTCCAATTTTGACCATAAATTTA 58.752 33.333 20.67 0.00 41.22 1.40
2335 3296 7.039363 TCGAGGTCCAATTTTGACCATAAATTT 60.039 33.333 20.67 0.00 41.22 1.82
2336 3297 6.435904 TCGAGGTCCAATTTTGACCATAAATT 59.564 34.615 20.67 4.43 41.22 1.82
2337 3298 5.949354 TCGAGGTCCAATTTTGACCATAAAT 59.051 36.000 20.67 5.00 41.22 1.40
2338 3299 5.317808 TCGAGGTCCAATTTTGACCATAAA 58.682 37.500 20.67 5.79 41.22 1.40
2339 3300 4.912586 TCGAGGTCCAATTTTGACCATAA 58.087 39.130 20.67 7.14 41.22 1.90
2340 3301 4.561500 TCGAGGTCCAATTTTGACCATA 57.438 40.909 20.67 7.40 41.22 2.74
2341 3302 3.433306 TCGAGGTCCAATTTTGACCAT 57.567 42.857 20.67 9.75 41.22 3.55
2342 3303 2.940994 TCGAGGTCCAATTTTGACCA 57.059 45.000 20.67 3.46 41.22 4.02
2343 3304 4.577834 TTTTCGAGGTCCAATTTTGACC 57.422 40.909 13.75 13.75 39.18 4.02
2344 3305 4.439776 CGTTTTTCGAGGTCCAATTTTGAC 59.560 41.667 0.00 0.00 42.86 3.18
2345 3306 4.096682 ACGTTTTTCGAGGTCCAATTTTGA 59.903 37.500 0.00 0.00 42.86 2.69
2346 3307 4.206200 CACGTTTTTCGAGGTCCAATTTTG 59.794 41.667 0.00 0.00 42.86 2.44
2347 3308 4.356289 CACGTTTTTCGAGGTCCAATTTT 58.644 39.130 0.00 0.00 42.86 1.82
2348 3309 3.243267 CCACGTTTTTCGAGGTCCAATTT 60.243 43.478 0.00 0.00 43.41 1.82
2349 3310 2.292292 CCACGTTTTTCGAGGTCCAATT 59.708 45.455 0.00 0.00 43.41 2.32
2350 3311 1.877443 CCACGTTTTTCGAGGTCCAAT 59.123 47.619 0.00 0.00 43.41 3.16
2351 3312 1.301423 CCACGTTTTTCGAGGTCCAA 58.699 50.000 0.00 0.00 43.41 3.53
2352 3313 2.994990 CCACGTTTTTCGAGGTCCA 58.005 52.632 0.00 0.00 43.41 4.02
2357 3318 0.382636 GTGCGTCCACGTTTTTCGAG 60.383 55.000 0.36 0.00 42.86 4.04
2358 3319 0.806884 AGTGCGTCCACGTTTTTCGA 60.807 50.000 0.36 0.00 46.62 3.71
2359 3320 0.854062 TAGTGCGTCCACGTTTTTCG 59.146 50.000 0.36 0.00 46.62 3.46
2360 3321 4.852609 ATATAGTGCGTCCACGTTTTTC 57.147 40.909 0.36 0.00 46.62 2.29
2361 3322 5.616488 AAATATAGTGCGTCCACGTTTTT 57.384 34.783 0.36 0.00 46.62 1.94
2362 3323 5.387279 CAAAATATAGTGCGTCCACGTTTT 58.613 37.500 0.36 0.00 46.62 2.43
2363 3324 4.142773 CCAAAATATAGTGCGTCCACGTTT 60.143 41.667 0.36 0.00 46.62 3.60
2364 3325 3.372822 CCAAAATATAGTGCGTCCACGTT 59.627 43.478 0.36 0.00 46.62 3.99
2365 3326 2.933906 CCAAAATATAGTGCGTCCACGT 59.066 45.455 0.36 0.00 46.62 4.49
2366 3327 3.191669 TCCAAAATATAGTGCGTCCACG 58.808 45.455 0.00 0.00 46.62 4.94
2367 3328 5.505654 CCATTCCAAAATATAGTGCGTCCAC 60.506 44.000 0.00 0.00 42.39 4.02
2368 3329 4.578516 CCATTCCAAAATATAGTGCGTCCA 59.421 41.667 0.00 0.00 0.00 4.02
2369 3330 4.819630 TCCATTCCAAAATATAGTGCGTCC 59.180 41.667 0.00 0.00 0.00 4.79
2370 3331 5.049405 CCTCCATTCCAAAATATAGTGCGTC 60.049 44.000 0.00 0.00 0.00 5.19
2371 3332 4.821805 CCTCCATTCCAAAATATAGTGCGT 59.178 41.667 0.00 0.00 0.00 5.24
2372 3333 4.216257 CCCTCCATTCCAAAATATAGTGCG 59.784 45.833 0.00 0.00 0.00 5.34
2373 3334 5.385198 TCCCTCCATTCCAAAATATAGTGC 58.615 41.667 0.00 0.00 0.00 4.40
2374 3335 6.605119 ACTCCCTCCATTCCAAAATATAGTG 58.395 40.000 0.00 0.00 0.00 2.74
2375 3336 6.848562 ACTCCCTCCATTCCAAAATATAGT 57.151 37.500 0.00 0.00 0.00 2.12
2379 3340 9.998752 TTTTTATACTCCCTCCATTCCAAAATA 57.001 29.630 0.00 0.00 0.00 1.40
2380 3341 8.909423 TTTTTATACTCCCTCCATTCCAAAAT 57.091 30.769 0.00 0.00 0.00 1.82
2381 3342 8.757877 CATTTTTATACTCCCTCCATTCCAAAA 58.242 33.333 0.00 0.00 0.00 2.44
2382 3343 8.119246 TCATTTTTATACTCCCTCCATTCCAAA 58.881 33.333 0.00 0.00 0.00 3.28
2383 3344 7.647827 TCATTTTTATACTCCCTCCATTCCAA 58.352 34.615 0.00 0.00 0.00 3.53
2384 3345 7.219601 TCATTTTTATACTCCCTCCATTCCA 57.780 36.000 0.00 0.00 0.00 3.53
2385 3346 6.207614 GCTCATTTTTATACTCCCTCCATTCC 59.792 42.308 0.00 0.00 0.00 3.01
2386 3347 6.073003 CGCTCATTTTTATACTCCCTCCATTC 60.073 42.308 0.00 0.00 0.00 2.67
2387 3348 5.765182 CGCTCATTTTTATACTCCCTCCATT 59.235 40.000 0.00 0.00 0.00 3.16
2388 3349 5.071788 TCGCTCATTTTTATACTCCCTCCAT 59.928 40.000 0.00 0.00 0.00 3.41
2389 3350 4.407621 TCGCTCATTTTTATACTCCCTCCA 59.592 41.667 0.00 0.00 0.00 3.86
2390 3351 4.957296 TCGCTCATTTTTATACTCCCTCC 58.043 43.478 0.00 0.00 0.00 4.30
2391 3352 5.692654 GTCTCGCTCATTTTTATACTCCCTC 59.307 44.000 0.00 0.00 0.00 4.30
2392 3353 5.602628 GTCTCGCTCATTTTTATACTCCCT 58.397 41.667 0.00 0.00 0.00 4.20
2393 3354 4.444720 CGTCTCGCTCATTTTTATACTCCC 59.555 45.833 0.00 0.00 0.00 4.30
2394 3355 5.041940 ACGTCTCGCTCATTTTTATACTCC 58.958 41.667 0.00 0.00 0.00 3.85
2395 3356 6.291690 GGAACGTCTCGCTCATTTTTATACTC 60.292 42.308 0.00 0.00 0.00 2.59
2396 3357 5.519206 GGAACGTCTCGCTCATTTTTATACT 59.481 40.000 0.00 0.00 0.00 2.12
2397 3358 5.290158 TGGAACGTCTCGCTCATTTTTATAC 59.710 40.000 0.00 0.00 0.00 1.47
2398 3359 5.412640 TGGAACGTCTCGCTCATTTTTATA 58.587 37.500 0.00 0.00 0.00 0.98
2399 3360 4.250464 TGGAACGTCTCGCTCATTTTTAT 58.750 39.130 0.00 0.00 0.00 1.40


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

AutoCloner maintained by Alex Coulton.