Multiple sequence alignment - TraesCS5D01G384400

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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 TraesCS5D01G384400 chr5D 100.000 2749 0 0 1 2749 453884672 453887420 0.000000e+00 5077.0
1 TraesCS5D01G384400 chr5B 92.804 1598 76 17 256 1844 554640124 554641691 0.000000e+00 2278.0
2 TraesCS5D01G384400 chr5B 91.489 188 14 1 2564 2749 554642710 554642897 9.770000e-65 257.0
3 TraesCS5D01G384400 chr5B 84.585 253 12 5 1876 2101 554641688 554641940 2.750000e-55 226.0
4 TraesCS5D01G384400 chr5B 87.857 140 11 2 130 268 554639969 554640103 2.830000e-35 159.0
5 TraesCS5D01G384400 chr5A 89.928 1817 110 35 31 1826 572991773 572993537 0.000000e+00 2274.0
6 TraesCS5D01G384400 chr5A 86.290 124 7 9 1893 2006 572993570 572993693 2.870000e-25 126.0
7 TraesCS5D01G384400 chr2D 81.503 173 20 8 290 458 18180904 18181068 6.180000e-27 132.0
8 TraesCS5D01G384400 chr4D 80.531 113 12 6 291 401 82562934 82562830 8.160000e-11 78.7


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 TraesCS5D01G384400 chr5D 453884672 453887420 2748 False 5077 5077 100.00000 1 2749 1 chr5D.!!$F1 2748
1 TraesCS5D01G384400 chr5B 554639969 554642897 2928 False 730 2278 89.18375 130 2749 4 chr5B.!!$F1 2619
2 TraesCS5D01G384400 chr5A 572991773 572993693 1920 False 1200 2274 88.10900 31 2006 2 chr5A.!!$F1 1975

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
933 998 0.246635 CCAGTCGACCGAGGAAACAT 59.753 55.0 13.01 0.0 0.0 2.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2396 3046 1.623311 TGAGCGGGATCAGTTCTTTGA 59.377 47.619 0.0 0.0 0.0 2.69 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
47 48 2.473664 AAACGCTCGTGCTACGCTCT 62.474 55.000 7.97 0.00 42.21 4.09
49 50 1.651730 CGCTCGTGCTACGCTCTAC 60.652 63.158 7.97 0.00 42.21 2.59
59 60 1.337387 CTACGCTCTACCTTAGCCACC 59.663 57.143 0.00 0.00 36.60 4.61
61 62 1.442148 GCTCTACCTTAGCCACCCG 59.558 63.158 0.00 0.00 33.73 5.28
64 65 0.252375 TCTACCTTAGCCACCCGGTT 60.252 55.000 0.00 0.00 33.28 4.44
74 75 3.828023 ACCCGGTTGCCCCTTTGT 61.828 61.111 0.00 0.00 0.00 2.83
96 98 6.646267 TGTATTACAGGGTTATCCTTCACAC 58.354 40.000 0.00 0.00 45.47 3.82
126 128 9.994432 GTGAAGAATAGTATTTTCCACAATCAG 57.006 33.333 13.16 0.00 0.00 2.90
132 134 3.559238 ATTTTCCACAATCAGCGACAC 57.441 42.857 0.00 0.00 0.00 3.67
172 174 1.203063 GGGCTCTTTTTGAGGGAAGGT 60.203 52.381 0.00 0.00 42.87 3.50
179 181 2.065899 TTTGAGGGAAGGTTGTGGTG 57.934 50.000 0.00 0.00 0.00 4.17
181 183 0.696143 TGAGGGAAGGTTGTGGTGGA 60.696 55.000 0.00 0.00 0.00 4.02
208 210 6.377146 TCTTTGGCTAACTTGTTTCTTCAACT 59.623 34.615 0.00 0.00 36.21 3.16
269 305 3.758554 GGCACCTATGTTGAATGTTGAGT 59.241 43.478 0.00 0.00 0.00 3.41
274 310 5.642063 ACCTATGTTGAATGTTGAGTTACCG 59.358 40.000 0.00 0.00 0.00 4.02
277 313 1.816074 TGAATGTTGAGTTACCGGGC 58.184 50.000 6.32 0.00 0.00 6.13
281 317 4.397832 TTGAGTTACCGGGCGGCC 62.398 66.667 20.04 20.04 39.32 6.13
393 430 3.190079 CATAGCTACGATGCACACAACT 58.810 45.455 0.00 0.00 34.99 3.16
404 441 4.972514 TGCACACAACTAACACAATCAA 57.027 36.364 0.00 0.00 0.00 2.57
409 446 6.086241 GCACACAACTAACACAATCAAATACG 59.914 38.462 0.00 0.00 0.00 3.06
425 463 6.495706 TCAAATACGCACACAAATAAACACA 58.504 32.000 0.00 0.00 0.00 3.72
428 466 2.423892 ACGCACACAAATAAACACACCA 59.576 40.909 0.00 0.00 0.00 4.17
433 471 5.685511 GCACACAAATAAACACACCAGTAAG 59.314 40.000 0.00 0.00 0.00 2.34
452 490 9.167311 CCAGTAAGTAGCAAAGTCATAAAAGAT 57.833 33.333 0.00 0.00 0.00 2.40
469 507 8.680903 CATAAAAGATCAAAGTCATGCCTAAGT 58.319 33.333 0.00 0.00 0.00 2.24
544 582 9.965902 GACCTCAAACCCTGATATATTGATATT 57.034 33.333 0.00 0.00 32.14 1.28
591 629 1.069935 GAGCTTACCTCCATCGGCC 59.930 63.158 0.00 0.00 34.35 6.13
689 742 3.449632 GACACCGAGAAAGCTAATCTCC 58.550 50.000 18.74 5.73 40.16 3.71
699 752 1.749033 CTAATCTCCGTCTGGCCCC 59.251 63.158 0.00 0.00 34.14 5.80
700 753 1.002403 TAATCTCCGTCTGGCCCCA 59.998 57.895 0.00 0.00 34.14 4.96
701 754 0.399949 TAATCTCCGTCTGGCCCCAT 60.400 55.000 0.00 0.00 34.14 4.00
702 755 1.987807 AATCTCCGTCTGGCCCCATG 61.988 60.000 0.00 0.00 34.14 3.66
829 891 1.610624 CCGAAGCAAGCTAGGGACAAA 60.611 52.381 5.63 0.00 0.00 2.83
836 898 3.550842 GCAAGCTAGGGACAAACAAACAG 60.551 47.826 0.00 0.00 0.00 3.16
933 998 0.246635 CCAGTCGACCGAGGAAACAT 59.753 55.000 13.01 0.00 0.00 2.71
965 1030 1.524008 GCGCCATAAGCCCATAACCC 61.524 60.000 0.00 0.00 38.78 4.11
1023 1089 2.042831 GGCCGTGAAGCTGCTCAAT 61.043 57.895 1.00 0.00 0.00 2.57
1305 1371 3.718210 CTTCTGGGCCGCCTACGTC 62.718 68.421 9.86 0.00 37.70 4.34
1309 1375 4.944372 GGGCCGCCTACGTCGATG 62.944 72.222 9.86 2.26 37.70 3.84
1529 1595 4.570663 CCCTACTTCGGCGGCGAG 62.571 72.222 32.72 26.77 0.00 5.03
1847 1922 1.351430 GCAATCAGCACTCGCACGTA 61.351 55.000 0.00 0.00 44.79 3.57
1848 1923 0.366871 CAATCAGCACTCGCACGTAC 59.633 55.000 0.00 0.00 42.27 3.67
1850 1925 2.196382 ATCAGCACTCGCACGTACGT 62.196 55.000 16.72 16.72 42.27 3.57
1852 1927 2.728383 GCACTCGCACGTACGTGT 60.728 61.111 39.56 23.50 46.90 4.49
1853 1928 2.704193 GCACTCGCACGTACGTGTC 61.704 63.158 39.56 31.16 46.90 3.67
1854 1929 2.127496 ACTCGCACGTACGTGTCG 60.127 61.111 39.56 37.85 46.90 4.35
1855 1930 3.521220 CTCGCACGTACGTGTCGC 61.521 66.667 37.02 28.63 46.90 5.19
1856 1931 4.310788 TCGCACGTACGTGTCGCA 62.311 61.111 37.02 28.55 46.90 5.10
1857 1932 3.169924 CGCACGTACGTGTCGCAT 61.170 61.111 39.56 8.35 46.90 4.73
1858 1933 2.390288 GCACGTACGTGTCGCATG 59.610 61.111 39.56 20.18 46.90 4.06
1859 1934 2.390288 CACGTACGTGTCGCATGC 59.610 61.111 34.48 7.91 40.91 4.06
1860 1935 3.169924 ACGTACGTGTCGCATGCG 61.170 61.111 33.61 33.61 41.35 4.73
1861 1936 3.169924 CGTACGTGTCGCATGCGT 61.170 61.111 36.50 21.37 41.86 5.24
1862 1937 2.687436 GTACGTGTCGCATGCGTC 59.313 61.111 36.50 31.52 39.64 5.19
1863 1938 2.872463 TACGTGTCGCATGCGTCG 60.872 61.111 36.50 34.40 39.64 5.12
1864 1939 3.598228 TACGTGTCGCATGCGTCGT 62.598 57.895 37.28 37.28 41.29 4.34
1865 1940 4.178255 CGTGTCGCATGCGTCGTC 62.178 66.667 36.50 25.21 40.74 4.20
1866 1941 4.178255 GTGTCGCATGCGTCGTCG 62.178 66.667 36.50 10.86 40.74 5.12
1876 1951 4.907262 CGTCGTCGCGCATGCATG 62.907 66.667 22.70 22.70 42.97 4.06
2035 2151 4.462280 CCGTCCCGCCCCTGTAAC 62.462 72.222 0.00 0.00 0.00 2.50
2042 2158 1.671054 CGCCCCTGTAACCTGTGTG 60.671 63.158 0.00 0.00 0.00 3.82
2061 2177 4.082463 GTGTGCCGGATCAAGGAATAAAAA 60.082 41.667 5.05 0.00 0.00 1.94
2088 2204 3.976942 GCATGACACATGTTGTTCTGTTC 59.023 43.478 12.27 0.00 39.17 3.18
2090 2206 4.880886 TGACACATGTTGTTCTGTTCTG 57.119 40.909 0.00 0.00 39.17 3.02
2093 2209 5.877564 TGACACATGTTGTTCTGTTCTGTTA 59.122 36.000 0.00 0.00 39.17 2.41
2101 2217 5.241403 TGTTCTGTTCTGTTACCATCCAT 57.759 39.130 0.00 0.00 0.00 3.41
2102 2218 6.367374 TGTTCTGTTCTGTTACCATCCATA 57.633 37.500 0.00 0.00 0.00 2.74
2105 2753 7.888021 TGTTCTGTTCTGTTACCATCCATATTT 59.112 33.333 0.00 0.00 0.00 1.40
2110 2758 9.747898 TGTTCTGTTACCATCCATATTTTTAGT 57.252 29.630 0.00 0.00 0.00 2.24
2142 2790 7.928908 TCAATTTCAGTTTATTTCACACTGC 57.071 32.000 0.00 0.00 38.27 4.40
2143 2791 7.487484 TCAATTTCAGTTTATTTCACACTGCA 58.513 30.769 0.00 0.00 38.27 4.41
2144 2792 7.978414 TCAATTTCAGTTTATTTCACACTGCAA 59.022 29.630 0.00 0.00 38.27 4.08
2147 2795 8.715191 TTTCAGTTTATTTCACACTGCAAAAT 57.285 26.923 0.00 0.00 38.27 1.82
2157 2805 4.157472 TCACACTGCAAAATCAGTTTCACA 59.843 37.500 0.00 0.00 44.26 3.58
2158 2806 4.501559 CACACTGCAAAATCAGTTTCACAG 59.498 41.667 0.00 0.00 44.26 3.66
2159 2807 4.398988 ACACTGCAAAATCAGTTTCACAGA 59.601 37.500 4.56 0.00 44.26 3.41
2160 2808 5.068198 ACACTGCAAAATCAGTTTCACAGAT 59.932 36.000 4.56 0.00 44.26 2.90
2161 2809 5.981315 CACTGCAAAATCAGTTTCACAGATT 59.019 36.000 4.56 0.00 44.26 2.40
2162 2810 6.477688 CACTGCAAAATCAGTTTCACAGATTT 59.522 34.615 4.56 2.38 44.26 2.17
2201 2850 6.773976 AAAAACAGACTTCACTCATTTCCA 57.226 33.333 0.00 0.00 0.00 3.53
2213 2862 5.302568 TCACTCATTTCCAAGCAGTGATTTT 59.697 36.000 0.00 0.00 38.81 1.82
2224 2873 3.445096 AGCAGTGATTTTGGCCTATTCAC 59.555 43.478 17.37 17.37 37.54 3.18
2229 2879 6.705381 CAGTGATTTTGGCCTATTCACAAAAA 59.295 34.615 23.11 12.52 44.29 1.94
2256 2906 8.807667 AATTCACTCATTTCAAAACAGATGTC 57.192 30.769 0.00 0.00 0.00 3.06
2260 2910 6.635641 CACTCATTTCAAAACAGATGTCACTG 59.364 38.462 0.00 0.00 42.78 3.66
2267 2917 7.332213 TCAAAACAGATGTCACTGATTTTGA 57.668 32.000 21.56 21.56 43.88 2.69
2273 2923 5.626543 CAGATGTCACTGATTTTGAAAACCG 59.373 40.000 0.00 0.00 39.94 4.44
2283 2933 7.038154 TGATTTTGAAAACCGAATTCACTCT 57.962 32.000 6.22 0.00 36.57 3.24
2284 2934 6.917477 TGATTTTGAAAACCGAATTCACTCTG 59.083 34.615 6.22 0.00 36.57 3.35
2289 2939 7.323049 TGAAAACCGAATTCACTCTGTTTTA 57.677 32.000 6.22 1.46 40.57 1.52
2290 2940 7.763356 TGAAAACCGAATTCACTCTGTTTTAA 58.237 30.769 6.22 3.89 40.57 1.52
2350 3000 9.082313 ACTCCTTAAAAATCAGATTTCACACAT 57.918 29.630 8.90 0.00 0.00 3.21
2351 3001 9.918630 CTCCTTAAAAATCAGATTTCACACATT 57.081 29.630 8.90 1.75 0.00 2.71
2361 3011 8.367943 TCAGATTTCACACATTTTGAAAATGG 57.632 30.769 28.12 20.47 44.14 3.16
2362 3012 8.202811 TCAGATTTCACACATTTTGAAAATGGA 58.797 29.630 28.12 16.44 44.14 3.41
2363 3013 8.995220 CAGATTTCACACATTTTGAAAATGGAT 58.005 29.630 28.12 16.29 44.14 3.41
2364 3014 9.563748 AGATTTCACACATTTTGAAAATGGATT 57.436 25.926 28.12 13.25 44.14 3.01
2367 3017 7.727331 TCACACATTTTGAAAATGGATTTCC 57.273 32.000 28.12 0.00 45.67 3.13
2368 3018 7.507829 TCACACATTTTGAAAATGGATTTCCT 58.492 30.769 28.12 8.34 45.67 3.36
2369 3019 8.646004 TCACACATTTTGAAAATGGATTTCCTA 58.354 29.630 28.12 8.10 45.67 2.94
2370 3020 9.270640 CACACATTTTGAAAATGGATTTCCTAA 57.729 29.630 28.12 0.00 45.67 2.69
2406 3056 9.956720 ATAGTTTTCACTCATTTCAAAGAACTG 57.043 29.630 0.00 0.00 34.06 3.16
2407 3057 8.055279 AGTTTTCACTCATTTCAAAGAACTGA 57.945 30.769 0.00 0.00 0.00 3.41
2408 3058 8.689972 AGTTTTCACTCATTTCAAAGAACTGAT 58.310 29.630 1.14 0.00 0.00 2.90
2409 3059 8.962111 GTTTTCACTCATTTCAAAGAACTGATC 58.038 33.333 1.14 0.00 0.00 2.92
2410 3060 6.808008 TCACTCATTTCAAAGAACTGATCC 57.192 37.500 1.14 0.00 0.00 3.36
2411 3061 5.707298 TCACTCATTTCAAAGAACTGATCCC 59.293 40.000 1.14 0.00 0.00 3.85
2412 3062 4.697352 ACTCATTTCAAAGAACTGATCCCG 59.303 41.667 1.14 0.00 0.00 5.14
2413 3063 3.440173 TCATTTCAAAGAACTGATCCCGC 59.560 43.478 0.00 0.00 0.00 6.13
2414 3064 2.859165 TTCAAAGAACTGATCCCGCT 57.141 45.000 0.00 0.00 0.00 5.52
2415 3065 2.386661 TCAAAGAACTGATCCCGCTC 57.613 50.000 0.00 0.00 0.00 5.03
2416 3066 1.623311 TCAAAGAACTGATCCCGCTCA 59.377 47.619 0.00 0.00 0.00 4.26
2417 3067 2.038426 TCAAAGAACTGATCCCGCTCAA 59.962 45.455 0.00 0.00 0.00 3.02
2418 3068 3.012518 CAAAGAACTGATCCCGCTCAAT 58.987 45.455 0.00 0.00 0.00 2.57
2419 3069 3.356529 AAGAACTGATCCCGCTCAATT 57.643 42.857 0.00 0.00 0.00 2.32
2420 3070 2.911484 AGAACTGATCCCGCTCAATTC 58.089 47.619 0.00 0.00 32.87 2.17
2421 3071 2.237143 AGAACTGATCCCGCTCAATTCA 59.763 45.455 0.00 0.00 34.64 2.57
2422 3072 2.787473 ACTGATCCCGCTCAATTCAA 57.213 45.000 0.00 0.00 0.00 2.69
2423 3073 3.071874 ACTGATCCCGCTCAATTCAAA 57.928 42.857 0.00 0.00 0.00 2.69
2424 3074 3.420893 ACTGATCCCGCTCAATTCAAAA 58.579 40.909 0.00 0.00 0.00 2.44
2425 3075 3.826157 ACTGATCCCGCTCAATTCAAAAA 59.174 39.130 0.00 0.00 0.00 1.94
2426 3076 4.082571 ACTGATCCCGCTCAATTCAAAAAG 60.083 41.667 0.00 0.00 0.00 2.27
2427 3077 3.826157 TGATCCCGCTCAATTCAAAAAGT 59.174 39.130 0.00 0.00 0.00 2.66
2428 3078 5.007034 TGATCCCGCTCAATTCAAAAAGTA 58.993 37.500 0.00 0.00 0.00 2.24
2429 3079 5.475220 TGATCCCGCTCAATTCAAAAAGTAA 59.525 36.000 0.00 0.00 0.00 2.24
2430 3080 5.975693 TCCCGCTCAATTCAAAAAGTAAT 57.024 34.783 0.00 0.00 0.00 1.89
2431 3081 6.339587 TCCCGCTCAATTCAAAAAGTAATT 57.660 33.333 0.00 0.00 0.00 1.40
2432 3082 6.754193 TCCCGCTCAATTCAAAAAGTAATTT 58.246 32.000 0.00 0.00 0.00 1.82
2433 3083 6.866248 TCCCGCTCAATTCAAAAAGTAATTTC 59.134 34.615 0.00 0.00 0.00 2.17
2434 3084 6.644592 CCCGCTCAATTCAAAAAGTAATTTCA 59.355 34.615 0.00 0.00 0.00 2.69
2435 3085 7.359181 CCCGCTCAATTCAAAAAGTAATTTCAC 60.359 37.037 0.00 0.00 0.00 3.18
2436 3086 7.382218 CCGCTCAATTCAAAAAGTAATTTCACT 59.618 33.333 0.00 0.00 0.00 3.41
2437 3087 8.420189 CGCTCAATTCAAAAAGTAATTTCACTC 58.580 33.333 0.00 0.00 0.00 3.51
2438 3088 9.248291 GCTCAATTCAAAAAGTAATTTCACTCA 57.752 29.630 0.00 0.00 0.00 3.41
2473 3123 8.937634 ATAATGATTTCACTCATTCCAAAAGC 57.062 30.769 2.78 0.00 43.16 3.51
2474 3124 6.600882 ATGATTTCACTCATTCCAAAAGCT 57.399 33.333 0.00 0.00 31.82 3.74
2475 3125 7.707624 ATGATTTCACTCATTCCAAAAGCTA 57.292 32.000 0.00 0.00 31.82 3.32
2476 3126 7.523293 TGATTTCACTCATTCCAAAAGCTAA 57.477 32.000 0.00 0.00 0.00 3.09
2477 3127 8.125978 TGATTTCACTCATTCCAAAAGCTAAT 57.874 30.769 0.00 0.00 0.00 1.73
2478 3128 8.246180 TGATTTCACTCATTCCAAAAGCTAATC 58.754 33.333 0.00 0.00 0.00 1.75
2479 3129 7.765695 TTTCACTCATTCCAAAAGCTAATCT 57.234 32.000 0.00 0.00 0.00 2.40
2480 3130 6.992063 TCACTCATTCCAAAAGCTAATCTC 57.008 37.500 0.00 0.00 0.00 2.75
2481 3131 5.582269 TCACTCATTCCAAAAGCTAATCTCG 59.418 40.000 0.00 0.00 0.00 4.04
2482 3132 5.352569 CACTCATTCCAAAAGCTAATCTCGT 59.647 40.000 0.00 0.00 0.00 4.18
2483 3133 5.940470 ACTCATTCCAAAAGCTAATCTCGTT 59.060 36.000 0.00 0.00 0.00 3.85
2484 3134 6.092807 ACTCATTCCAAAAGCTAATCTCGTTC 59.907 38.462 0.00 0.00 0.00 3.95
2485 3135 5.937540 TCATTCCAAAAGCTAATCTCGTTCA 59.062 36.000 0.00 0.00 0.00 3.18
2486 3136 6.429692 TCATTCCAAAAGCTAATCTCGTTCAA 59.570 34.615 0.00 0.00 0.00 2.69
2487 3137 6.817765 TTCCAAAAGCTAATCTCGTTCAAT 57.182 33.333 0.00 0.00 0.00 2.57
2488 3138 6.817765 TCCAAAAGCTAATCTCGTTCAATT 57.182 33.333 0.00 0.00 0.00 2.32
2489 3139 7.915293 TCCAAAAGCTAATCTCGTTCAATTA 57.085 32.000 0.00 0.00 0.00 1.40
2490 3140 8.330466 TCCAAAAGCTAATCTCGTTCAATTAA 57.670 30.769 0.00 0.00 0.00 1.40
2491 3141 8.788806 TCCAAAAGCTAATCTCGTTCAATTAAA 58.211 29.630 0.00 0.00 0.00 1.52
2492 3142 9.405587 CCAAAAGCTAATCTCGTTCAATTAAAA 57.594 29.630 0.00 0.00 0.00 1.52
2517 3167 9.829507 AAAAACAGATTTCACACATTTCCATAA 57.170 25.926 0.00 0.00 0.00 1.90
2518 3168 9.829507 AAAACAGATTTCACACATTTCCATAAA 57.170 25.926 0.00 0.00 0.00 1.40
2519 3169 9.829507 AAACAGATTTCACACATTTCCATAAAA 57.170 25.926 0.00 0.00 0.00 1.52
2520 3170 9.480053 AACAGATTTCACACATTTCCATAAAAG 57.520 29.630 0.00 0.00 0.00 2.27
2521 3171 8.641541 ACAGATTTCACACATTTCCATAAAAGT 58.358 29.630 0.00 0.00 0.00 2.66
2526 3176 8.684386 TTCACACATTTCCATAAAAGTACTCA 57.316 30.769 0.00 0.00 0.00 3.41
2527 3177 8.862325 TCACACATTTCCATAAAAGTACTCAT 57.138 30.769 0.00 0.00 0.00 2.90
2528 3178 9.295825 TCACACATTTCCATAAAAGTACTCATT 57.704 29.630 0.00 0.00 0.00 2.57
2529 3179 9.559958 CACACATTTCCATAAAAGTACTCATTC 57.440 33.333 0.00 0.00 0.00 2.67
2530 3180 8.739972 ACACATTTCCATAAAAGTACTCATTCC 58.260 33.333 0.00 0.00 0.00 3.01
2531 3181 8.190784 CACATTTCCATAAAAGTACTCATTCCC 58.809 37.037 0.00 0.00 0.00 3.97
2532 3182 7.893302 ACATTTCCATAAAAGTACTCATTCCCA 59.107 33.333 0.00 0.00 0.00 4.37
2533 3183 8.748412 CATTTCCATAAAAGTACTCATTCCCAA 58.252 33.333 0.00 0.00 0.00 4.12
2534 3184 8.713708 TTTCCATAAAAGTACTCATTCCCAAA 57.286 30.769 0.00 0.00 0.00 3.28
2535 3185 7.938140 TCCATAAAAGTACTCATTCCCAAAG 57.062 36.000 0.00 0.00 0.00 2.77
2536 3186 7.695055 TCCATAAAAGTACTCATTCCCAAAGA 58.305 34.615 0.00 0.00 0.00 2.52
2537 3187 7.610305 TCCATAAAAGTACTCATTCCCAAAGAC 59.390 37.037 0.00 0.00 0.00 3.01
2538 3188 7.611855 CCATAAAAGTACTCATTCCCAAAGACT 59.388 37.037 0.00 0.00 0.00 3.24
2539 3189 9.667107 CATAAAAGTACTCATTCCCAAAGACTA 57.333 33.333 0.00 0.00 0.00 2.59
2542 3192 8.567285 AAAGTACTCATTCCCAAAGACTAATG 57.433 34.615 0.00 0.00 0.00 1.90
2543 3193 7.259088 AGTACTCATTCCCAAAGACTAATGT 57.741 36.000 0.00 0.00 32.43 2.71
2544 3194 7.331791 AGTACTCATTCCCAAAGACTAATGTC 58.668 38.462 0.00 0.00 43.22 3.06
2545 3195 6.126863 ACTCATTCCCAAAGACTAATGTCA 57.873 37.500 0.00 0.00 45.20 3.58
2546 3196 5.940470 ACTCATTCCCAAAGACTAATGTCAC 59.060 40.000 0.00 0.00 45.20 3.67
2547 3197 6.126863 TCATTCCCAAAGACTAATGTCACT 57.873 37.500 0.00 0.00 45.20 3.41
2548 3198 7.038302 ACTCATTCCCAAAGACTAATGTCACTA 60.038 37.037 0.00 0.00 45.20 2.74
2549 3199 7.685481 TCATTCCCAAAGACTAATGTCACTAA 58.315 34.615 0.00 0.00 45.20 2.24
2550 3200 8.160765 TCATTCCCAAAGACTAATGTCACTAAA 58.839 33.333 0.00 0.00 45.20 1.85
2551 3201 8.792633 CATTCCCAAAGACTAATGTCACTAAAA 58.207 33.333 0.00 0.00 45.20 1.52
2552 3202 8.754991 TTCCCAAAGACTAATGTCACTAAAAA 57.245 30.769 0.00 0.00 45.20 1.94
2596 3246 8.442605 TTCATAAAACTAATTTTGCTGCGTAC 57.557 30.769 0.00 0.00 38.50 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 3.479006 CACGAGCGTTTCATCGATTTTT 58.521 40.909 0.00 0.00 41.40 1.94
18 19 2.724839 GCACGAGCGTTTCATCGATTTT 60.725 45.455 0.00 0.00 41.40 1.82
19 20 1.201921 GCACGAGCGTTTCATCGATTT 60.202 47.619 0.00 0.00 41.40 2.17
20 21 0.370273 GCACGAGCGTTTCATCGATT 59.630 50.000 0.00 0.00 41.40 3.34
21 22 1.999051 GCACGAGCGTTTCATCGAT 59.001 52.632 1.13 0.00 41.40 3.59
22 23 3.459027 GCACGAGCGTTTCATCGA 58.541 55.556 1.13 0.00 41.40 3.59
23 24 3.252893 CGTAGCACGAGCGTTTCATCG 62.253 57.143 0.00 0.00 46.05 3.84
24 25 0.294887 CGTAGCACGAGCGTTTCATC 59.705 55.000 0.00 0.00 46.05 2.92
25 26 2.359792 CGTAGCACGAGCGTTTCAT 58.640 52.632 0.00 0.00 46.05 2.57
26 27 3.837093 CGTAGCACGAGCGTTTCA 58.163 55.556 0.00 0.00 46.05 2.69
47 48 1.984817 CAACCGGGTGGCTAAGGTA 59.015 57.895 13.17 0.00 39.70 3.08
49 50 2.750237 GCAACCGGGTGGCTAAGG 60.750 66.667 23.69 0.00 39.70 2.69
64 65 2.818751 CCCTGTAATACAAAGGGGCA 57.181 50.000 9.26 0.00 46.05 5.36
96 98 8.777865 TGTGGAAAATACTATTCTTCACTCAG 57.222 34.615 0.00 0.00 0.00 3.35
103 105 7.552687 TCGCTGATTGTGGAAAATACTATTCTT 59.447 33.333 0.00 0.00 0.00 2.52
111 113 4.068599 TGTGTCGCTGATTGTGGAAAATA 58.931 39.130 0.00 0.00 0.00 1.40
126 128 0.314302 ACCTAGTGTGTCTGTGTCGC 59.686 55.000 0.00 0.00 0.00 5.19
132 134 2.483876 CACCACAACCTAGTGTGTCTG 58.516 52.381 11.36 4.24 46.18 3.51
172 174 0.550914 AGCCAAAGAGTCCACCACAA 59.449 50.000 0.00 0.00 0.00 3.33
179 181 4.822350 AGAAACAAGTTAGCCAAAGAGTCC 59.178 41.667 0.00 0.00 0.00 3.85
181 183 5.885912 TGAAGAAACAAGTTAGCCAAAGAGT 59.114 36.000 0.00 0.00 0.00 3.24
208 210 1.622811 GTTGGGCCAAATGTCCATTCA 59.377 47.619 22.82 0.00 0.00 2.57
234 236 2.341452 GGTGCCAAAACTCCACCTC 58.659 57.895 1.99 0.00 44.32 3.85
274 310 2.443260 AAAAATTGGAACGGCCGCCC 62.443 55.000 28.58 26.61 40.66 6.13
352 388 1.135315 GCATATGCAGGGTGTGTGTTG 60.135 52.381 22.84 0.00 41.59 3.33
380 417 3.600717 TTGTGTTAGTTGTGTGCATCG 57.399 42.857 0.00 0.00 0.00 3.84
384 421 6.086241 CGTATTTGATTGTGTTAGTTGTGTGC 59.914 38.462 0.00 0.00 0.00 4.57
393 430 5.674933 TGTGTGCGTATTTGATTGTGTTA 57.325 34.783 0.00 0.00 0.00 2.41
404 441 5.216648 GGTGTGTTTATTTGTGTGCGTATT 58.783 37.500 0.00 0.00 0.00 1.89
409 446 4.040445 ACTGGTGTGTTTATTTGTGTGC 57.960 40.909 0.00 0.00 0.00 4.57
425 463 8.154856 TCTTTTATGACTTTGCTACTTACTGGT 58.845 33.333 0.00 0.00 0.00 4.00
428 466 9.944376 TGATCTTTTATGACTTTGCTACTTACT 57.056 29.630 0.00 0.00 0.00 2.24
433 471 9.548208 GACTTTGATCTTTTATGACTTTGCTAC 57.452 33.333 0.00 0.00 0.00 3.58
452 490 3.582647 TCCTCACTTAGGCATGACTTTGA 59.417 43.478 6.27 6.72 46.10 2.69
516 554 6.591935 TCAATATATCAGGGTTTGAGGTCAC 58.408 40.000 0.00 0.00 39.68 3.67
546 584 6.242396 TGTAGGTATGCTTGCCTTTCTAAAA 58.758 36.000 14.40 0.00 39.00 1.52
547 585 5.811190 TGTAGGTATGCTTGCCTTTCTAAA 58.189 37.500 14.40 0.00 39.00 1.85
548 586 5.429681 TGTAGGTATGCTTGCCTTTCTAA 57.570 39.130 14.40 0.00 39.00 2.10
549 587 5.630415 ATGTAGGTATGCTTGCCTTTCTA 57.370 39.130 14.40 0.00 39.00 2.10
550 588 4.510167 ATGTAGGTATGCTTGCCTTTCT 57.490 40.909 14.40 0.00 39.00 2.52
551 589 4.640201 TCAATGTAGGTATGCTTGCCTTTC 59.360 41.667 14.40 9.02 39.00 2.62
552 590 4.599041 TCAATGTAGGTATGCTTGCCTTT 58.401 39.130 14.40 0.80 39.00 3.11
553 591 4.202441 CTCAATGTAGGTATGCTTGCCTT 58.798 43.478 14.40 0.00 39.00 4.35
591 629 0.035725 TGATCTTGTCCCTGCAGCTG 60.036 55.000 10.11 10.11 0.00 4.24
689 742 2.903855 GATGCATGGGGCCAGACG 60.904 66.667 2.46 0.00 43.89 4.18
699 752 8.817100 TGTACGTTAATTTCTTAGAGATGCATG 58.183 33.333 2.46 0.00 0.00 4.06
700 753 8.942338 TGTACGTTAATTTCTTAGAGATGCAT 57.058 30.769 0.00 0.00 0.00 3.96
701 754 8.766000 TTGTACGTTAATTTCTTAGAGATGCA 57.234 30.769 0.00 0.00 0.00 3.96
804 862 3.088500 CTAGCTTGCTTCGGTGCGC 62.089 63.158 0.00 0.00 35.36 6.09
805 863 2.456119 CCTAGCTTGCTTCGGTGCG 61.456 63.158 0.00 0.00 35.36 5.34
815 873 3.882888 TCTGTTTGTTTGTCCCTAGCTTG 59.117 43.478 0.00 0.00 0.00 4.01
829 891 3.349022 TCCTTTCGGTGTTTCTGTTTGT 58.651 40.909 0.00 0.00 0.00 2.83
836 898 1.861971 ACGTCTCCTTTCGGTGTTTC 58.138 50.000 0.00 0.00 0.00 2.78
927 992 1.187055 GCGTGTTTGCGTTGATGTTTC 59.813 47.619 0.00 0.00 0.00 2.78
965 1030 5.364157 AGCTAGTTAATCAGGGTCTGGTTAG 59.636 44.000 1.63 0.00 38.15 2.34
1305 1371 2.688446 TGTAGACTCTACCTTGGCATCG 59.312 50.000 12.79 0.00 0.00 3.84
1308 1374 3.031736 GGATGTAGACTCTACCTTGGCA 58.968 50.000 12.79 0.00 0.00 4.92
1309 1375 3.031736 TGGATGTAGACTCTACCTTGGC 58.968 50.000 12.79 0.00 0.00 4.52
1360 1426 5.798934 ACACGAGTCATGATTTACGAGTTAC 59.201 40.000 16.17 0.00 0.00 2.50
1788 1854 6.220930 CCGGCTAGCTTATTAATTGTACTCA 58.779 40.000 15.72 0.00 0.00 3.41
1789 1855 5.638234 CCCGGCTAGCTTATTAATTGTACTC 59.362 44.000 15.72 0.00 0.00 2.59
1792 1858 5.302360 CACCCGGCTAGCTTATTAATTGTA 58.698 41.667 15.72 0.00 0.00 2.41
1793 1859 4.134563 CACCCGGCTAGCTTATTAATTGT 58.865 43.478 15.72 0.00 0.00 2.71
1794 1860 3.502211 CCACCCGGCTAGCTTATTAATTG 59.498 47.826 15.72 1.72 0.00 2.32
1795 1861 3.751518 CCACCCGGCTAGCTTATTAATT 58.248 45.455 15.72 0.00 0.00 1.40
1796 1862 3.418684 CCACCCGGCTAGCTTATTAAT 57.581 47.619 15.72 0.00 0.00 1.40
1797 1863 2.922740 CCACCCGGCTAGCTTATTAA 57.077 50.000 15.72 0.00 0.00 1.40
1847 1922 4.994201 ACGACGCATGCGACACGT 62.994 61.111 43.72 38.84 43.83 4.49
1848 1923 4.178255 GACGACGCATGCGACACG 62.178 66.667 43.72 38.28 42.83 4.49
1859 1934 4.907262 CATGCATGCGCGACGACG 62.907 66.667 14.93 2.12 42.97 5.12
1873 1948 3.634702 TTGCGCACAGGCATGCATG 62.635 57.895 29.33 29.33 46.47 4.06
1874 1949 3.350909 CTTGCGCACAGGCATGCAT 62.351 57.895 21.36 10.32 46.47 3.96
1875 1950 4.045771 CTTGCGCACAGGCATGCA 62.046 61.111 21.36 0.00 46.47 3.96
1876 1951 4.047059 ACTTGCGCACAGGCATGC 62.047 61.111 11.12 9.90 43.52 4.06
1877 1952 2.126618 CACTTGCGCACAGGCATG 60.127 61.111 11.12 0.00 43.52 4.06
1878 1953 4.047059 GCACTTGCGCACAGGCAT 62.047 61.111 11.12 0.00 43.52 4.40
1880 1955 4.695231 CTGCACTTGCGCACAGGC 62.695 66.667 11.12 14.83 45.83 4.85
1881 1956 3.245948 GACTGCACTTGCGCACAGG 62.246 63.158 24.29 14.64 45.83 4.00
1882 1957 2.250485 GACTGCACTTGCGCACAG 59.750 61.111 20.49 20.49 45.83 3.66
1883 1958 3.639008 CGACTGCACTTGCGCACA 61.639 61.111 11.12 3.36 45.83 4.57
1884 1959 3.640000 ACGACTGCACTTGCGCAC 61.640 61.111 11.12 0.00 45.83 5.34
1885 1960 3.639008 CACGACTGCACTTGCGCA 61.639 61.111 5.66 5.66 45.83 6.09
1897 1972 2.081212 CGACAAGGAGACGCACGAC 61.081 63.158 0.00 0.00 0.00 4.34
2007 2100 4.617875 GGGACGGTCCATGAACTG 57.382 61.111 27.32 0.00 38.64 3.16
2022 2138 3.327404 ACAGGTTACAGGGGCGGG 61.327 66.667 0.00 0.00 0.00 6.13
2035 2151 1.746615 CCTTGATCCGGCACACAGG 60.747 63.158 0.00 5.71 0.00 4.00
2061 2177 2.309613 ACAACATGTGTCATGCCTGTT 58.690 42.857 0.00 0.00 34.38 3.16
2069 2185 4.260985 ACAGAACAGAACAACATGTGTCA 58.739 39.130 0.00 0.00 40.60 3.58
2116 2764 8.816144 GCAGTGTGAAATAAACTGAAATTGAAA 58.184 29.630 6.24 0.00 43.22 2.69
2120 2768 8.715191 TTTGCAGTGTGAAATAAACTGAAATT 57.285 26.923 6.24 0.00 43.22 1.82
2125 2773 7.436080 ACTGATTTTGCAGTGTGAAATAAACTG 59.564 33.333 0.00 0.00 46.72 3.16
2127 2775 7.698836 ACTGATTTTGCAGTGTGAAATAAAC 57.301 32.000 0.00 0.00 46.72 2.01
2178 2826 6.773976 TGGAAATGAGTGAAGTCTGTTTTT 57.226 33.333 0.00 0.00 0.00 1.94
2201 2850 4.082026 GTGAATAGGCCAAAATCACTGCTT 60.082 41.667 18.27 0.00 37.87 3.91
2229 2879 9.603921 ACATCTGTTTTGAAATGAGTGAATTTT 57.396 25.926 0.00 0.00 29.89 1.82
2232 2882 7.864379 GTGACATCTGTTTTGAAATGAGTGAAT 59.136 33.333 0.00 0.00 0.00 2.57
2239 2889 8.583810 AAATCAGTGACATCTGTTTTGAAATG 57.416 30.769 0.00 0.00 36.57 2.32
2241 2891 8.249638 TCAAAATCAGTGACATCTGTTTTGAAA 58.750 29.630 20.06 6.28 42.77 2.69
2252 2902 5.766150 TCGGTTTTCAAAATCAGTGACAT 57.234 34.783 0.00 0.00 0.00 3.06
2254 2904 6.695278 TGAATTCGGTTTTCAAAATCAGTGAC 59.305 34.615 0.00 0.00 30.44 3.67
2256 2906 6.697019 AGTGAATTCGGTTTTCAAAATCAGTG 59.303 34.615 0.04 0.00 35.03 3.66
2260 2910 6.918022 ACAGAGTGAATTCGGTTTTCAAAATC 59.082 34.615 0.04 0.00 35.03 2.17
2336 2986 8.202811 TCCATTTTCAAAATGTGTGAAATCTGA 58.797 29.630 19.35 4.96 42.82 3.27
2338 2988 9.563748 AATCCATTTTCAAAATGTGTGAAATCT 57.436 25.926 19.35 0.00 42.82 2.40
2342 2992 7.992033 AGGAAATCCATTTTCAAAATGTGTGAA 59.008 29.630 19.35 2.81 44.67 3.18
2344 2994 7.733402 AGGAAATCCATTTTCAAAATGTGTG 57.267 32.000 19.35 6.67 44.67 3.82
2380 3030 9.956720 CAGTTCTTTGAAATGAGTGAAAACTAT 57.043 29.630 2.12 0.00 0.00 2.12
2381 3031 9.173021 TCAGTTCTTTGAAATGAGTGAAAACTA 57.827 29.630 6.39 0.00 0.00 2.24
2382 3032 8.055279 TCAGTTCTTTGAAATGAGTGAAAACT 57.945 30.769 6.39 0.00 0.00 2.66
2383 3033 8.862550 ATCAGTTCTTTGAAATGAGTGAAAAC 57.137 30.769 14.15 0.00 0.00 2.43
2384 3034 8.137437 GGATCAGTTCTTTGAAATGAGTGAAAA 58.863 33.333 14.15 0.00 0.00 2.29
2385 3035 7.255590 GGGATCAGTTCTTTGAAATGAGTGAAA 60.256 37.037 14.15 0.00 0.00 2.69
2386 3036 6.207417 GGGATCAGTTCTTTGAAATGAGTGAA 59.793 38.462 14.15 0.00 0.00 3.18
2387 3037 5.707298 GGGATCAGTTCTTTGAAATGAGTGA 59.293 40.000 14.15 1.66 0.00 3.41
2388 3038 5.391310 CGGGATCAGTTCTTTGAAATGAGTG 60.391 44.000 14.15 3.14 0.00 3.51
2389 3039 4.697352 CGGGATCAGTTCTTTGAAATGAGT 59.303 41.667 14.15 5.09 0.00 3.41
2390 3040 4.437930 GCGGGATCAGTTCTTTGAAATGAG 60.438 45.833 14.15 4.28 0.00 2.90
2391 3041 3.440173 GCGGGATCAGTTCTTTGAAATGA 59.560 43.478 11.80 11.80 0.00 2.57
2392 3042 3.441572 AGCGGGATCAGTTCTTTGAAATG 59.558 43.478 0.00 1.91 0.00 2.32
2393 3043 3.690460 AGCGGGATCAGTTCTTTGAAAT 58.310 40.909 0.00 0.00 0.00 2.17
2394 3044 3.074412 GAGCGGGATCAGTTCTTTGAAA 58.926 45.455 0.00 0.00 0.00 2.69
2395 3045 2.038426 TGAGCGGGATCAGTTCTTTGAA 59.962 45.455 0.00 0.00 0.00 2.69
2396 3046 1.623311 TGAGCGGGATCAGTTCTTTGA 59.377 47.619 0.00 0.00 0.00 2.69
2397 3047 2.099141 TGAGCGGGATCAGTTCTTTG 57.901 50.000 0.00 0.00 0.00 2.77
2398 3048 2.859165 TTGAGCGGGATCAGTTCTTT 57.141 45.000 0.00 0.00 0.00 2.52
2399 3049 3.274288 GAATTGAGCGGGATCAGTTCTT 58.726 45.455 12.92 0.00 40.71 2.52
2400 3050 2.237143 TGAATTGAGCGGGATCAGTTCT 59.763 45.455 18.54 0.00 42.95 3.01
2401 3051 2.632377 TGAATTGAGCGGGATCAGTTC 58.368 47.619 13.20 13.20 42.87 3.01
2402 3052 2.787473 TGAATTGAGCGGGATCAGTT 57.213 45.000 0.00 0.00 32.45 3.16
2403 3053 2.787473 TTGAATTGAGCGGGATCAGT 57.213 45.000 0.00 0.00 0.00 3.41
2404 3054 4.082571 ACTTTTTGAATTGAGCGGGATCAG 60.083 41.667 0.00 0.00 0.00 2.90
2405 3055 3.826157 ACTTTTTGAATTGAGCGGGATCA 59.174 39.130 0.00 0.00 0.00 2.92
2406 3056 4.440839 ACTTTTTGAATTGAGCGGGATC 57.559 40.909 0.00 0.00 0.00 3.36
2407 3057 5.975693 TTACTTTTTGAATTGAGCGGGAT 57.024 34.783 0.00 0.00 0.00 3.85
2408 3058 5.975693 ATTACTTTTTGAATTGAGCGGGA 57.024 34.783 0.00 0.00 0.00 5.14
2409 3059 6.644592 TGAAATTACTTTTTGAATTGAGCGGG 59.355 34.615 0.00 0.00 0.00 6.13
2410 3060 7.382218 AGTGAAATTACTTTTTGAATTGAGCGG 59.618 33.333 0.00 0.00 0.00 5.52
2411 3061 8.285776 AGTGAAATTACTTTTTGAATTGAGCG 57.714 30.769 0.00 0.00 0.00 5.03
2412 3062 9.248291 TGAGTGAAATTACTTTTTGAATTGAGC 57.752 29.630 0.00 0.00 0.00 4.26
2451 3101 6.600882 AGCTTTTGGAATGAGTGAAATCAT 57.399 33.333 0.00 0.00 41.72 2.45
2452 3102 7.523293 TTAGCTTTTGGAATGAGTGAAATCA 57.477 32.000 0.00 0.00 0.00 2.57
2453 3103 8.465201 AGATTAGCTTTTGGAATGAGTGAAATC 58.535 33.333 0.00 0.00 0.00 2.17
2454 3104 8.358582 AGATTAGCTTTTGGAATGAGTGAAAT 57.641 30.769 0.00 0.00 0.00 2.17
2455 3105 7.361201 CGAGATTAGCTTTTGGAATGAGTGAAA 60.361 37.037 0.00 0.00 0.00 2.69
2456 3106 6.092670 CGAGATTAGCTTTTGGAATGAGTGAA 59.907 38.462 0.00 0.00 0.00 3.18
2457 3107 5.582269 CGAGATTAGCTTTTGGAATGAGTGA 59.418 40.000 0.00 0.00 0.00 3.41
2458 3108 5.352569 ACGAGATTAGCTTTTGGAATGAGTG 59.647 40.000 0.00 0.00 0.00 3.51
2459 3109 5.491982 ACGAGATTAGCTTTTGGAATGAGT 58.508 37.500 0.00 0.00 0.00 3.41
2460 3110 6.092670 TGAACGAGATTAGCTTTTGGAATGAG 59.907 38.462 0.00 0.00 0.00 2.90
2461 3111 5.937540 TGAACGAGATTAGCTTTTGGAATGA 59.062 36.000 0.00 0.00 0.00 2.57
2462 3112 6.182039 TGAACGAGATTAGCTTTTGGAATG 57.818 37.500 0.00 0.00 0.00 2.67
2463 3113 6.817765 TTGAACGAGATTAGCTTTTGGAAT 57.182 33.333 0.00 0.00 0.00 3.01
2464 3114 6.817765 ATTGAACGAGATTAGCTTTTGGAA 57.182 33.333 0.00 0.00 0.00 3.53
2465 3115 6.817765 AATTGAACGAGATTAGCTTTTGGA 57.182 33.333 0.00 0.00 0.00 3.53
2466 3116 8.964420 TTTAATTGAACGAGATTAGCTTTTGG 57.036 30.769 0.00 0.00 0.00 3.28
2491 3141 9.829507 TTATGGAAATGTGTGAAATCTGTTTTT 57.170 25.926 0.00 0.00 0.00 1.94
2492 3142 9.829507 TTTATGGAAATGTGTGAAATCTGTTTT 57.170 25.926 0.00 0.00 0.00 2.43
2493 3143 9.829507 TTTTATGGAAATGTGTGAAATCTGTTT 57.170 25.926 0.00 0.00 0.00 2.83
2494 3144 9.480053 CTTTTATGGAAATGTGTGAAATCTGTT 57.520 29.630 0.00 0.00 0.00 3.16
2495 3145 8.641541 ACTTTTATGGAAATGTGTGAAATCTGT 58.358 29.630 0.00 0.00 33.08 3.41
2500 3150 9.126151 TGAGTACTTTTATGGAAATGTGTGAAA 57.874 29.630 0.00 0.00 35.30 2.69
2501 3151 8.684386 TGAGTACTTTTATGGAAATGTGTGAA 57.316 30.769 0.00 0.00 35.30 3.18
2502 3152 8.862325 ATGAGTACTTTTATGGAAATGTGTGA 57.138 30.769 0.00 0.00 35.30 3.58
2503 3153 9.559958 GAATGAGTACTTTTATGGAAATGTGTG 57.440 33.333 0.00 0.00 35.30 3.82
2504 3154 8.739972 GGAATGAGTACTTTTATGGAAATGTGT 58.260 33.333 0.00 0.00 35.30 3.72
2505 3155 8.190784 GGGAATGAGTACTTTTATGGAAATGTG 58.809 37.037 0.00 0.00 35.30 3.21
2506 3156 7.893302 TGGGAATGAGTACTTTTATGGAAATGT 59.107 33.333 0.00 0.00 36.95 2.71
2507 3157 8.292444 TGGGAATGAGTACTTTTATGGAAATG 57.708 34.615 0.00 0.00 0.00 2.32
2508 3158 8.893563 TTGGGAATGAGTACTTTTATGGAAAT 57.106 30.769 0.00 0.00 0.00 2.17
2509 3159 8.713708 TTTGGGAATGAGTACTTTTATGGAAA 57.286 30.769 0.00 0.00 0.00 3.13
2510 3160 8.167392 TCTTTGGGAATGAGTACTTTTATGGAA 58.833 33.333 0.00 0.00 0.00 3.53
2511 3161 7.610305 GTCTTTGGGAATGAGTACTTTTATGGA 59.390 37.037 0.00 0.00 0.00 3.41
2512 3162 7.611855 AGTCTTTGGGAATGAGTACTTTTATGG 59.388 37.037 0.00 0.00 0.00 2.74
2513 3163 8.567285 AGTCTTTGGGAATGAGTACTTTTATG 57.433 34.615 0.00 0.00 0.00 1.90
2516 3166 9.014297 CATTAGTCTTTGGGAATGAGTACTTTT 57.986 33.333 0.00 0.00 32.16 2.27
2517 3167 8.164070 ACATTAGTCTTTGGGAATGAGTACTTT 58.836 33.333 0.00 0.00 34.18 2.66
2518 3168 7.690256 ACATTAGTCTTTGGGAATGAGTACTT 58.310 34.615 0.00 0.00 34.18 2.24
2519 3169 7.038302 TGACATTAGTCTTTGGGAATGAGTACT 60.038 37.037 0.00 0.00 45.20 2.73
2520 3170 7.064728 GTGACATTAGTCTTTGGGAATGAGTAC 59.935 40.741 0.00 0.00 45.20 2.73
2521 3171 7.038302 AGTGACATTAGTCTTTGGGAATGAGTA 60.038 37.037 0.00 0.00 45.20 2.59
2522 3172 5.940470 GTGACATTAGTCTTTGGGAATGAGT 59.060 40.000 0.00 0.00 45.20 3.41
2523 3173 6.176183 AGTGACATTAGTCTTTGGGAATGAG 58.824 40.000 0.00 0.00 45.20 2.90
2524 3174 6.126863 AGTGACATTAGTCTTTGGGAATGA 57.873 37.500 0.00 0.00 45.20 2.57
2525 3175 7.921786 TTAGTGACATTAGTCTTTGGGAATG 57.078 36.000 0.00 0.00 45.20 2.67
2526 3176 8.934023 TTTTAGTGACATTAGTCTTTGGGAAT 57.066 30.769 0.00 0.00 45.20 3.01
2527 3177 8.754991 TTTTTAGTGACATTAGTCTTTGGGAA 57.245 30.769 0.00 0.00 45.20 3.97
2587 3237 4.457603 AGTGATTTTATTTGGTACGCAGCA 59.542 37.500 0.00 0.00 0.00 4.41
2706 3358 9.796120 ATTTGAAACGAGTGAAATCTGTTTTAA 57.204 25.926 0.00 0.00 33.27 1.52
2711 3363 7.925993 TGTTATTTGAAACGAGTGAAATCTGT 58.074 30.769 0.00 0.00 31.76 3.41


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

AutoCloner maintained by Alex Coulton.