Multiple sequence alignment - TraesCS3D01G107400

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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 TraesCS3D01G107400 chr3D 100.000 2363 0 0 1 2363 60007950 60005588 0 4364
1 TraesCS3D01G107400 chr3B 94.578 1457 48 16 659 2110 96070545 96071975 0 2224
2 TraesCS3D01G107400 chr3B 89.308 636 26 21 1 621 96066188 96066796 0 760
3 TraesCS3D01G107400 chr3A 87.656 1199 77 34 1 1177 69097110 69098259 0 1328
4 TraesCS3D01G107400 chr3A 92.012 964 40 17 1173 2110 69100100 69101052 0 1319


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 TraesCS3D01G107400 chr3D 60005588 60007950 2362 True 4364.0 4364 100.000 1 2363 1 chr3D.!!$R1 2362
1 TraesCS3D01G107400 chr3B 96066188 96071975 5787 False 1492.0 2224 91.943 1 2110 2 chr3B.!!$F1 2109
2 TraesCS3D01G107400 chr3A 69097110 69101052 3942 False 1323.5 1328 89.834 1 2110 2 chr3A.!!$F1 2109

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
472 497 0.179062 CAGAAGAATCTCCCCTGCCG 60.179 60.0 0.0 0.0 32.03 5.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2266 7883 0.036952 AATGCGAGACACTGGGACTG 60.037 55.0 0.0 0.0 0.0 3.51 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
246 258 2.275380 GGGGGCATGTTTCACGCTT 61.275 57.895 0.00 0.00 0.00 4.68
407 422 0.804544 ACAATCGACGGTACCATGCG 60.805 55.000 13.54 11.90 0.00 4.73
458 483 3.782244 GCCTCACGCACGCAGAAG 61.782 66.667 0.00 0.00 37.47 2.85
459 484 2.049156 CCTCACGCACGCAGAAGA 60.049 61.111 0.00 0.00 0.00 2.87
460 485 1.664649 CCTCACGCACGCAGAAGAA 60.665 57.895 0.00 0.00 0.00 2.52
472 497 0.179062 CAGAAGAATCTCCCCTGCCG 60.179 60.000 0.00 0.00 32.03 5.69
473 498 0.325671 AGAAGAATCTCCCCTGCCGA 60.326 55.000 0.00 0.00 0.00 5.54
474 499 0.761802 GAAGAATCTCCCCTGCCGAT 59.238 55.000 0.00 0.00 0.00 4.18
475 500 0.471617 AAGAATCTCCCCTGCCGATG 59.528 55.000 0.00 0.00 0.00 3.84
555 580 1.373748 AAAAATGCCGCTGCTGCTG 60.374 52.632 16.81 8.34 38.71 4.41
627 4357 1.935933 ATGGAGTGCGTAATTCGTCC 58.064 50.000 0.00 0.00 42.13 4.79
635 4365 0.737219 CGTAATTCGTCCCTCTCCGT 59.263 55.000 0.00 0.00 34.52 4.69
639 4369 4.790962 TCGTCCCTCTCCGTCCGG 62.791 72.222 0.00 0.00 0.00 5.14
641 4371 3.450115 GTCCCTCTCCGTCCGGTG 61.450 72.222 0.00 3.41 36.47 4.94
642 4372 4.753662 TCCCTCTCCGTCCGGTGG 62.754 72.222 0.00 5.07 36.47 4.61
645 4375 2.119655 CCTCTCCGTCCGGTGGTAG 61.120 68.421 13.89 12.19 36.47 3.18
646 4376 2.044650 TCTCCGTCCGGTGGTAGG 60.045 66.667 13.89 6.30 36.47 3.18
647 4377 3.145551 CTCCGTCCGGTGGTAGGG 61.146 72.222 13.89 4.53 36.47 3.53
650 4380 3.766691 CGTCCGGTGGTAGGGGTG 61.767 72.222 0.00 0.00 0.00 4.61
651 4381 3.396570 GTCCGGTGGTAGGGGTGG 61.397 72.222 0.00 0.00 0.00 4.61
653 4383 4.726254 CCGGTGGTAGGGGTGGGA 62.726 72.222 0.00 0.00 0.00 4.37
654 4384 3.396570 CGGTGGTAGGGGTGGGAC 61.397 72.222 0.00 0.00 0.00 4.46
655 4385 3.013327 GGTGGTAGGGGTGGGACC 61.013 72.222 0.00 0.00 37.60 4.46
658 4388 3.396570 GGTAGGGGTGGGACCGTG 61.397 72.222 0.00 0.00 39.83 4.94
660 4390 4.726254 TAGGGGTGGGACCGTGGG 62.726 72.222 0.00 0.00 39.83 4.61
718 4454 2.552315 ACGTGGTGGTGCTGAATTTTAG 59.448 45.455 0.00 0.00 0.00 1.85
910 4647 1.511850 TTCATTCACGGTGAGCACTG 58.488 50.000 11.14 7.86 43.20 3.66
911 4648 0.678950 TCATTCACGGTGAGCACTGA 59.321 50.000 15.83 10.03 40.06 3.41
913 4650 0.671781 ATTCACGGTGAGCACTGAGC 60.672 55.000 15.83 0.00 46.19 4.26
935 4672 1.956620 GCGTCGTCTGCCAGTTTAGC 61.957 60.000 0.00 0.00 0.00 3.09
970 4707 4.719369 GCGAGCGACCTCACCGTT 62.719 66.667 0.00 0.00 38.00 4.44
975 4712 1.593209 GCGACCTCACCGTTTCACA 60.593 57.895 0.00 0.00 0.00 3.58
1119 4866 3.554692 GTGGTCATCTTCGCGCGG 61.555 66.667 31.69 15.50 0.00 6.46
1373 6965 4.654412 CGCCTAGCTAGCAGCCGG 62.654 72.222 18.83 11.91 43.77 6.13
1374 6966 3.227276 GCCTAGCTAGCAGCCGGA 61.227 66.667 18.83 0.00 43.77 5.14
1375 6967 2.578714 GCCTAGCTAGCAGCCGGAT 61.579 63.158 18.83 0.00 43.77 4.18
1376 6968 1.589113 CCTAGCTAGCAGCCGGATC 59.411 63.158 18.83 0.00 43.77 3.36
1377 6969 1.589113 CTAGCTAGCAGCCGGATCC 59.411 63.158 18.83 0.00 43.77 3.36
1378 6970 1.882989 CTAGCTAGCAGCCGGATCCC 61.883 65.000 18.83 0.00 43.77 3.85
1380 6972 2.525381 CTAGCAGCCGGATCCCCT 60.525 66.667 5.05 0.00 0.00 4.79
1381 6973 2.844362 TAGCAGCCGGATCCCCTG 60.844 66.667 18.37 18.37 0.00 4.45
1556 7160 4.308458 CGCACGGGTGGGAAGACA 62.308 66.667 10.01 0.00 45.10 3.41
1558 7162 1.303317 GCACGGGTGGGAAGACAAT 60.303 57.895 0.43 0.00 0.00 2.71
1560 7164 0.676782 CACGGGTGGGAAGACAATCC 60.677 60.000 0.00 0.00 38.86 3.01
1561 7165 1.449601 CGGGTGGGAAGACAATCCG 60.450 63.158 0.00 0.00 40.62 4.18
1562 7166 1.683441 GGGTGGGAAGACAATCCGT 59.317 57.895 0.00 0.00 40.62 4.69
1564 7168 1.134491 GGGTGGGAAGACAATCCGTAG 60.134 57.143 0.00 0.00 40.62 3.51
1648 7257 6.649041 TTACTTAGGACCTACTACTCCAGT 57.351 41.667 0.00 2.95 41.62 4.00
1775 7387 2.097791 ACGTTCTTTGTTTGGCGCTAAA 59.902 40.909 15.51 15.51 0.00 1.85
2096 7713 7.100409 GTCAAATCCTTTCTAAGAGTAGCACT 58.900 38.462 0.00 0.00 0.00 4.40
2110 7727 6.357367 AGAGTAGCACTTCCTTTTTCTGAAA 58.643 36.000 0.00 0.00 0.00 2.69
2111 7728 6.484977 AGAGTAGCACTTCCTTTTTCTGAAAG 59.515 38.462 2.75 0.00 0.00 2.62
2112 7729 6.122964 AGTAGCACTTCCTTTTTCTGAAAGT 58.877 36.000 2.75 0.00 33.76 2.66
2113 7730 5.921962 AGCACTTCCTTTTTCTGAAAGTT 57.078 34.783 2.75 0.00 33.76 2.66
2114 7731 5.895928 AGCACTTCCTTTTTCTGAAAGTTC 58.104 37.500 2.75 0.00 33.76 3.01
2115 7732 5.418840 AGCACTTCCTTTTTCTGAAAGTTCA 59.581 36.000 2.75 0.00 35.57 3.18
2130 7747 5.877012 TGAAAGTTCAGATGATCCTGTAAGC 59.123 40.000 0.00 0.00 35.71 3.09
2131 7748 4.414337 AGTTCAGATGATCCTGTAAGCC 57.586 45.455 0.00 0.00 35.71 4.35
2132 7749 3.776969 AGTTCAGATGATCCTGTAAGCCA 59.223 43.478 0.00 0.00 35.71 4.75
2133 7750 4.411540 AGTTCAGATGATCCTGTAAGCCAT 59.588 41.667 0.00 0.00 35.71 4.40
2134 7751 4.347360 TCAGATGATCCTGTAAGCCATG 57.653 45.455 0.00 0.00 35.71 3.66
2135 7752 3.969312 TCAGATGATCCTGTAAGCCATGA 59.031 43.478 0.00 0.00 35.71 3.07
2136 7753 4.409901 TCAGATGATCCTGTAAGCCATGAA 59.590 41.667 0.00 0.00 35.71 2.57
2137 7754 4.755629 CAGATGATCCTGTAAGCCATGAAG 59.244 45.833 0.00 0.00 0.00 3.02
2138 7755 2.923121 TGATCCTGTAAGCCATGAAGC 58.077 47.619 0.00 0.00 0.00 3.86
2140 7757 2.408271 TCCTGTAAGCCATGAAGCTG 57.592 50.000 0.00 0.00 44.11 4.24
2141 7758 1.908619 TCCTGTAAGCCATGAAGCTGA 59.091 47.619 0.00 0.00 44.11 4.26
2142 7759 2.012673 CCTGTAAGCCATGAAGCTGAC 58.987 52.381 4.85 4.85 44.11 3.51
2143 7760 2.012673 CTGTAAGCCATGAAGCTGACC 58.987 52.381 8.51 0.00 42.81 4.02
2144 7761 1.340017 TGTAAGCCATGAAGCTGACCC 60.340 52.381 8.51 0.00 42.81 4.46
2145 7762 0.991146 TAAGCCATGAAGCTGACCCA 59.009 50.000 0.00 0.00 44.11 4.51
2146 7763 0.323178 AAGCCATGAAGCTGACCCAG 60.323 55.000 0.00 0.00 44.11 4.45
2147 7764 1.203441 AGCCATGAAGCTGACCCAGA 61.203 55.000 0.00 0.00 42.95 3.86
2148 7765 0.747283 GCCATGAAGCTGACCCAGAG 60.747 60.000 0.00 0.00 32.44 3.35
2149 7766 0.107312 CCATGAAGCTGACCCAGAGG 60.107 60.000 0.00 0.00 40.04 3.69
2161 7778 2.498644 CCCAGAGGGTCTTCTTTTCC 57.501 55.000 0.00 0.00 38.25 3.13
2162 7779 1.988846 CCCAGAGGGTCTTCTTTTCCT 59.011 52.381 0.00 0.00 38.25 3.36
2163 7780 2.376855 CCCAGAGGGTCTTCTTTTCCTT 59.623 50.000 0.00 0.00 38.25 3.36
2164 7781 3.181428 CCCAGAGGGTCTTCTTTTCCTTT 60.181 47.826 0.00 0.00 38.25 3.11
2165 7782 4.474394 CCAGAGGGTCTTCTTTTCCTTTT 58.526 43.478 0.00 0.00 0.00 2.27
2166 7783 4.520874 CCAGAGGGTCTTCTTTTCCTTTTC 59.479 45.833 0.00 0.00 0.00 2.29
2167 7784 5.380900 CAGAGGGTCTTCTTTTCCTTTTCT 58.619 41.667 0.00 0.00 0.00 2.52
2168 7785 5.240403 CAGAGGGTCTTCTTTTCCTTTTCTG 59.760 44.000 0.00 0.00 0.00 3.02
2169 7786 5.103898 AGAGGGTCTTCTTTTCCTTTTCTGT 60.104 40.000 0.00 0.00 0.00 3.41
2170 7787 5.519808 AGGGTCTTCTTTTCCTTTTCTGTT 58.480 37.500 0.00 0.00 0.00 3.16
2171 7788 5.958380 AGGGTCTTCTTTTCCTTTTCTGTTT 59.042 36.000 0.00 0.00 0.00 2.83
2172 7789 6.096987 AGGGTCTTCTTTTCCTTTTCTGTTTC 59.903 38.462 0.00 0.00 0.00 2.78
2173 7790 6.096987 GGGTCTTCTTTTCCTTTTCTGTTTCT 59.903 38.462 0.00 0.00 0.00 2.52
2174 7791 6.975197 GGTCTTCTTTTCCTTTTCTGTTTCTG 59.025 38.462 0.00 0.00 0.00 3.02
2175 7792 6.473778 GTCTTCTTTTCCTTTTCTGTTTCTGC 59.526 38.462 0.00 0.00 0.00 4.26
2176 7793 5.913137 TCTTTTCCTTTTCTGTTTCTGCA 57.087 34.783 0.00 0.00 0.00 4.41
2177 7794 6.279513 TCTTTTCCTTTTCTGTTTCTGCAA 57.720 33.333 0.00 0.00 0.00 4.08
2178 7795 6.696411 TCTTTTCCTTTTCTGTTTCTGCAAA 58.304 32.000 0.00 0.00 0.00 3.68
2179 7796 7.330262 TCTTTTCCTTTTCTGTTTCTGCAAAT 58.670 30.769 0.00 0.00 0.00 2.32
2180 7797 6.907206 TTTCCTTTTCTGTTTCTGCAAATG 57.093 33.333 0.00 0.00 0.00 2.32
2181 7798 5.850557 TCCTTTTCTGTTTCTGCAAATGA 57.149 34.783 0.00 0.00 0.00 2.57
2182 7799 6.409524 TCCTTTTCTGTTTCTGCAAATGAT 57.590 33.333 0.00 0.00 0.00 2.45
2183 7800 6.819284 TCCTTTTCTGTTTCTGCAAATGATT 58.181 32.000 0.00 0.00 0.00 2.57
2184 7801 7.274447 TCCTTTTCTGTTTCTGCAAATGATTT 58.726 30.769 0.00 0.00 0.00 2.17
2185 7802 7.225145 TCCTTTTCTGTTTCTGCAAATGATTTG 59.775 33.333 13.32 13.32 43.44 2.32
2186 7803 7.011669 CCTTTTCTGTTTCTGCAAATGATTTGT 59.988 33.333 18.12 0.00 42.56 2.83
2187 7804 8.939201 TTTTCTGTTTCTGCAAATGATTTGTA 57.061 26.923 18.12 13.36 42.56 2.41
2193 7810 4.376340 CTGCAAATGATTTGTAGTCCCC 57.624 45.455 22.54 5.44 44.87 4.81
2194 7811 3.096092 TGCAAATGATTTGTAGTCCCCC 58.904 45.455 18.12 1.14 42.56 5.40
2195 7812 3.245586 TGCAAATGATTTGTAGTCCCCCT 60.246 43.478 18.12 0.00 42.56 4.79
2196 7813 3.131046 GCAAATGATTTGTAGTCCCCCTG 59.869 47.826 18.12 0.00 42.56 4.45
2197 7814 2.736670 ATGATTTGTAGTCCCCCTGC 57.263 50.000 0.00 0.00 0.00 4.85
2198 7815 0.623723 TGATTTGTAGTCCCCCTGCC 59.376 55.000 0.00 0.00 0.00 4.85
2199 7816 0.919710 GATTTGTAGTCCCCCTGCCT 59.080 55.000 0.00 0.00 0.00 4.75
2200 7817 1.285078 GATTTGTAGTCCCCCTGCCTT 59.715 52.381 0.00 0.00 0.00 4.35
2201 7818 2.047769 TTTGTAGTCCCCCTGCCTTA 57.952 50.000 0.00 0.00 0.00 2.69
2202 7819 2.047769 TTGTAGTCCCCCTGCCTTAA 57.952 50.000 0.00 0.00 0.00 1.85
2203 7820 1.282382 TGTAGTCCCCCTGCCTTAAC 58.718 55.000 0.00 0.00 0.00 2.01
2204 7821 0.545171 GTAGTCCCCCTGCCTTAACC 59.455 60.000 0.00 0.00 0.00 2.85
2205 7822 0.979187 TAGTCCCCCTGCCTTAACCG 60.979 60.000 0.00 0.00 0.00 4.44
2206 7823 2.204029 TCCCCCTGCCTTAACCGT 60.204 61.111 0.00 0.00 0.00 4.83
2207 7824 2.271173 CCCCCTGCCTTAACCGTC 59.729 66.667 0.00 0.00 0.00 4.79
2208 7825 2.125269 CCCCTGCCTTAACCGTCG 60.125 66.667 0.00 0.00 0.00 5.12
2209 7826 2.125269 CCCTGCCTTAACCGTCGG 60.125 66.667 10.48 10.48 0.00 4.79
2210 7827 2.652095 CCCTGCCTTAACCGTCGGA 61.652 63.158 20.51 0.00 0.00 4.55
2211 7828 1.294138 CCTGCCTTAACCGTCGGAA 59.706 57.895 20.51 1.13 0.00 4.30
2212 7829 0.320946 CCTGCCTTAACCGTCGGAAA 60.321 55.000 20.51 10.77 0.00 3.13
2213 7830 1.677820 CCTGCCTTAACCGTCGGAAAT 60.678 52.381 20.51 6.25 0.00 2.17
2214 7831 1.396996 CTGCCTTAACCGTCGGAAATG 59.603 52.381 20.51 9.76 0.00 2.32
2215 7832 0.098200 GCCTTAACCGTCGGAAATGC 59.902 55.000 20.51 15.42 0.00 3.56
2216 7833 0.372334 CCTTAACCGTCGGAAATGCG 59.628 55.000 20.51 0.80 0.00 4.73
2217 7834 1.352114 CTTAACCGTCGGAAATGCGA 58.648 50.000 20.51 0.00 0.00 5.10
2218 7835 1.323534 CTTAACCGTCGGAAATGCGAG 59.676 52.381 20.51 2.02 0.00 5.03
2219 7836 0.527113 TAACCGTCGGAAATGCGAGA 59.473 50.000 20.51 0.00 0.00 4.04
2220 7837 0.108329 AACCGTCGGAAATGCGAGAT 60.108 50.000 20.51 0.00 0.00 2.75
2221 7838 0.742505 ACCGTCGGAAATGCGAGATA 59.257 50.000 20.51 0.00 0.00 1.98
2222 7839 1.269102 ACCGTCGGAAATGCGAGATAG 60.269 52.381 20.51 0.00 0.00 2.08
2223 7840 1.001706 CCGTCGGAAATGCGAGATAGA 60.002 52.381 4.91 0.00 0.00 1.98
2224 7841 2.311462 CGTCGGAAATGCGAGATAGAG 58.689 52.381 0.00 0.00 0.00 2.43
2225 7842 2.287069 CGTCGGAAATGCGAGATAGAGT 60.287 50.000 0.00 0.00 0.00 3.24
2226 7843 3.059120 CGTCGGAAATGCGAGATAGAGTA 60.059 47.826 0.00 0.00 0.00 2.59
2227 7844 4.554134 CGTCGGAAATGCGAGATAGAGTAA 60.554 45.833 0.00 0.00 0.00 2.24
2228 7845 5.462405 GTCGGAAATGCGAGATAGAGTAAT 58.538 41.667 0.00 0.00 0.00 1.89
2229 7846 5.921408 GTCGGAAATGCGAGATAGAGTAATT 59.079 40.000 0.00 0.00 0.00 1.40
2230 7847 7.082602 GTCGGAAATGCGAGATAGAGTAATTA 58.917 38.462 0.00 0.00 0.00 1.40
2231 7848 7.594015 GTCGGAAATGCGAGATAGAGTAATTAA 59.406 37.037 0.00 0.00 0.00 1.40
2232 7849 8.304596 TCGGAAATGCGAGATAGAGTAATTAAT 58.695 33.333 0.00 0.00 0.00 1.40
2233 7850 8.587950 CGGAAATGCGAGATAGAGTAATTAATC 58.412 37.037 4.76 4.76 0.00 1.75
2234 7851 9.424319 GGAAATGCGAGATAGAGTAATTAATCA 57.576 33.333 14.80 2.27 0.00 2.57
2239 7856 9.764363 TGCGAGATAGAGTAATTAATCATTTGT 57.236 29.630 14.80 0.00 0.00 2.83
2273 7890 9.369672 ACTGTTTAAATTTTTATACCAGTCCCA 57.630 29.630 0.00 0.00 0.00 4.37
2274 7891 9.855021 CTGTTTAAATTTTTATACCAGTCCCAG 57.145 33.333 0.00 0.00 0.00 4.45
2275 7892 9.369672 TGTTTAAATTTTTATACCAGTCCCAGT 57.630 29.630 0.00 0.00 0.00 4.00
2276 7893 9.634163 GTTTAAATTTTTATACCAGTCCCAGTG 57.366 33.333 0.00 0.00 0.00 3.66
2277 7894 8.943594 TTAAATTTTTATACCAGTCCCAGTGT 57.056 30.769 0.00 0.00 0.00 3.55
2278 7895 7.462571 AAATTTTTATACCAGTCCCAGTGTC 57.537 36.000 0.00 0.00 0.00 3.67
2279 7896 5.836024 TTTTTATACCAGTCCCAGTGTCT 57.164 39.130 0.00 0.00 0.00 3.41
2280 7897 5.416271 TTTTATACCAGTCCCAGTGTCTC 57.584 43.478 0.00 0.00 0.00 3.36
2281 7898 1.475403 ATACCAGTCCCAGTGTCTCG 58.525 55.000 0.00 0.00 0.00 4.04
2282 7899 1.248785 TACCAGTCCCAGTGTCTCGC 61.249 60.000 0.00 0.00 0.00 5.03
2283 7900 2.574018 CCAGTCCCAGTGTCTCGCA 61.574 63.158 0.00 0.00 0.00 5.10
2284 7901 1.593787 CAGTCCCAGTGTCTCGCAT 59.406 57.895 0.00 0.00 0.00 4.73
2285 7902 0.036952 CAGTCCCAGTGTCTCGCATT 60.037 55.000 0.00 0.00 0.00 3.56
2286 7903 0.687354 AGTCCCAGTGTCTCGCATTT 59.313 50.000 0.00 0.00 0.00 2.32
2287 7904 0.798776 GTCCCAGTGTCTCGCATTTG 59.201 55.000 0.00 0.00 0.00 2.32
2288 7905 0.321564 TCCCAGTGTCTCGCATTTGG 60.322 55.000 0.00 0.00 35.64 3.28
2289 7906 0.606401 CCCAGTGTCTCGCATTTGGT 60.606 55.000 0.00 0.00 34.71 3.67
2290 7907 1.338674 CCCAGTGTCTCGCATTTGGTA 60.339 52.381 0.00 0.00 34.71 3.25
2291 7908 1.732259 CCAGTGTCTCGCATTTGGTAC 59.268 52.381 0.00 0.00 33.02 3.34
2292 7909 1.390123 CAGTGTCTCGCATTTGGTACG 59.610 52.381 0.00 0.00 0.00 3.67
2293 7910 1.271379 AGTGTCTCGCATTTGGTACGA 59.729 47.619 0.00 0.00 0.00 3.43
2294 7911 2.063266 GTGTCTCGCATTTGGTACGAA 58.937 47.619 0.00 0.00 35.07 3.85
2295 7912 2.092211 GTGTCTCGCATTTGGTACGAAG 59.908 50.000 0.00 0.00 35.07 3.79
2297 7914 2.735134 GTCTCGCATTTGGTACGAAGTT 59.265 45.455 0.00 0.00 37.78 2.66
2298 7915 3.922240 GTCTCGCATTTGGTACGAAGTTA 59.078 43.478 0.00 0.00 37.78 2.24
2299 7916 4.031426 GTCTCGCATTTGGTACGAAGTTAG 59.969 45.833 0.00 0.00 37.78 2.34
2300 7917 3.916761 TCGCATTTGGTACGAAGTTAGT 58.083 40.909 0.00 0.00 37.78 2.24
2301 7918 5.058149 TCGCATTTGGTACGAAGTTAGTA 57.942 39.130 0.00 0.00 37.78 1.82
2302 7919 4.858692 TCGCATTTGGTACGAAGTTAGTAC 59.141 41.667 15.62 15.62 37.78 2.73
2303 7920 4.622313 CGCATTTGGTACGAAGTTAGTACA 59.378 41.667 22.61 10.12 44.45 2.90
2304 7921 5.220154 CGCATTTGGTACGAAGTTAGTACAG 60.220 44.000 22.61 10.97 44.45 2.74
2305 7922 5.445540 GCATTTGGTACGAAGTTAGTACAGC 60.446 44.000 22.61 15.28 44.45 4.40
2306 7923 5.458041 TTTGGTACGAAGTTAGTACAGCT 57.542 39.130 22.61 0.00 44.45 4.24
2307 7924 5.458041 TTGGTACGAAGTTAGTACAGCTT 57.542 39.130 22.61 0.00 44.45 3.74
2308 7925 6.573664 TTGGTACGAAGTTAGTACAGCTTA 57.426 37.500 22.61 5.79 44.45 3.09
2309 7926 6.573664 TGGTACGAAGTTAGTACAGCTTAA 57.426 37.500 22.61 3.83 44.45 1.85
2310 7927 7.161773 TGGTACGAAGTTAGTACAGCTTAAT 57.838 36.000 22.61 0.00 44.45 1.40
2311 7928 8.279970 TGGTACGAAGTTAGTACAGCTTAATA 57.720 34.615 22.61 2.02 44.45 0.98
2312 7929 8.184192 TGGTACGAAGTTAGTACAGCTTAATAC 58.816 37.037 22.61 7.28 44.45 1.89
2313 7930 8.401709 GGTACGAAGTTAGTACAGCTTAATACT 58.598 37.037 22.61 7.14 44.45 2.12
2321 7938 9.235537 GTTAGTACAGCTTAATACTAAGTCTGC 57.764 37.037 16.81 6.66 41.99 4.26
2322 7939 6.496571 AGTACAGCTTAATACTAAGTCTGCG 58.503 40.000 12.30 0.00 39.89 5.18
2323 7940 5.578005 ACAGCTTAATACTAAGTCTGCGA 57.422 39.130 12.30 0.00 39.89 5.10
2324 7941 5.341617 ACAGCTTAATACTAAGTCTGCGAC 58.658 41.667 12.30 1.15 39.89 5.19
2325 7942 5.105877 ACAGCTTAATACTAAGTCTGCGACA 60.106 40.000 12.30 0.00 39.89 4.35
2326 7943 5.805486 CAGCTTAATACTAAGTCTGCGACAA 59.195 40.000 10.52 0.00 37.44 3.18
2327 7944 6.477033 CAGCTTAATACTAAGTCTGCGACAAT 59.523 38.462 10.52 2.99 37.44 2.71
2328 7945 7.010552 CAGCTTAATACTAAGTCTGCGACAATT 59.989 37.037 10.52 1.46 37.44 2.32
2329 7946 8.195436 AGCTTAATACTAAGTCTGCGACAATTA 58.805 33.333 10.52 2.37 37.44 1.40
2330 7947 8.979574 GCTTAATACTAAGTCTGCGACAATTAT 58.020 33.333 10.52 1.85 37.44 1.28
2336 7953 8.997621 ACTAAGTCTGCGACAATTATTCTAAA 57.002 30.769 10.52 0.00 34.60 1.85
2337 7954 9.431887 ACTAAGTCTGCGACAATTATTCTAAAA 57.568 29.630 10.52 0.00 34.60 1.52
2338 7955 9.690434 CTAAGTCTGCGACAATTATTCTAAAAC 57.310 33.333 10.52 0.00 34.60 2.43
2339 7956 6.762108 AGTCTGCGACAATTATTCTAAAACG 58.238 36.000 10.52 0.00 34.60 3.60
2340 7957 5.957796 GTCTGCGACAATTATTCTAAAACGG 59.042 40.000 4.20 0.00 32.09 4.44
2341 7958 5.870433 TCTGCGACAATTATTCTAAAACGGA 59.130 36.000 0.00 0.00 0.00 4.69
2342 7959 6.537301 TCTGCGACAATTATTCTAAAACGGAT 59.463 34.615 0.00 0.00 0.00 4.18
2343 7960 6.482835 TGCGACAATTATTCTAAAACGGATG 58.517 36.000 0.00 0.00 0.00 3.51
2344 7961 6.314152 TGCGACAATTATTCTAAAACGGATGA 59.686 34.615 0.00 0.00 0.00 2.92
2345 7962 7.148390 TGCGACAATTATTCTAAAACGGATGAA 60.148 33.333 0.00 0.00 0.00 2.57
2346 7963 7.373441 GCGACAATTATTCTAAAACGGATGAAG 59.627 37.037 0.00 0.00 0.00 3.02
2347 7964 8.388103 CGACAATTATTCTAAAACGGATGAAGT 58.612 33.333 0.00 0.00 0.00 3.01
2357 7974 9.793252 TCTAAAACGGATGAAGTACTATGTAAC 57.207 33.333 0.00 0.00 0.00 2.50
2358 7975 9.577110 CTAAAACGGATGAAGTACTATGTAACA 57.423 33.333 0.00 0.00 0.00 2.41
2359 7976 7.823149 AAACGGATGAAGTACTATGTAACAC 57.177 36.000 0.00 0.00 0.00 3.32
2360 7977 5.575957 ACGGATGAAGTACTATGTAACACG 58.424 41.667 0.00 0.00 0.00 4.49
2361 7978 4.974275 CGGATGAAGTACTATGTAACACGG 59.026 45.833 0.00 0.00 0.00 4.94
2362 7979 4.743644 GGATGAAGTACTATGTAACACGGC 59.256 45.833 0.00 0.00 0.00 5.68
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
272 284 1.611977 ACGAGCTGCTAGTACAACACA 59.388 47.619 13.88 0.00 0.00 3.72
273 285 2.349297 ACGAGCTGCTAGTACAACAC 57.651 50.000 13.88 0.00 0.00 3.32
274 286 3.057019 CAAACGAGCTGCTAGTACAACA 58.943 45.455 15.73 0.00 0.00 3.33
275 287 3.121445 GTCAAACGAGCTGCTAGTACAAC 59.879 47.826 15.73 9.99 0.00 3.32
276 288 3.314553 GTCAAACGAGCTGCTAGTACAA 58.685 45.455 15.73 1.88 0.00 2.41
277 289 2.667448 CGTCAAACGAGCTGCTAGTACA 60.667 50.000 15.73 0.53 46.05 2.90
407 422 3.564027 CATCGAAACTCGCCGGGC 61.564 66.667 9.54 9.54 40.21 6.13
458 483 1.072159 CCATCGGCAGGGGAGATTC 59.928 63.158 0.00 0.00 0.00 2.52
459 484 1.384502 TCCATCGGCAGGGGAGATT 60.385 57.895 0.00 0.00 0.00 2.40
460 485 2.143419 GTCCATCGGCAGGGGAGAT 61.143 63.158 0.00 0.00 0.00 2.75
472 497 2.818274 GCGAACCACCCGTCCATC 60.818 66.667 0.00 0.00 0.00 3.51
473 498 4.752879 CGCGAACCACCCGTCCAT 62.753 66.667 0.00 0.00 0.00 3.41
475 500 4.974989 AACGCGAACCACCCGTCC 62.975 66.667 15.93 0.00 33.59 4.79
555 580 1.443802 CCTTTTCTTCTCGGAGTGGC 58.556 55.000 4.69 0.00 0.00 5.01
559 584 2.289694 TGCTTCCCTTTTCTTCTCGGAG 60.290 50.000 0.00 0.00 0.00 4.63
560 585 1.697432 TGCTTCCCTTTTCTTCTCGGA 59.303 47.619 0.00 0.00 0.00 4.55
627 4357 2.044650 TACCACCGGACGGAGAGG 60.045 66.667 18.80 17.00 38.96 3.69
635 4365 4.726254 CCCACCCCTACCACCGGA 62.726 72.222 9.46 0.00 0.00 5.14
639 4369 3.396570 CGGTCCCACCCCTACCAC 61.397 72.222 0.00 0.00 33.75 4.16
640 4370 3.931375 ACGGTCCCACCCCTACCA 61.931 66.667 0.00 0.00 33.75 3.25
641 4371 3.396570 CACGGTCCCACCCCTACC 61.397 72.222 0.00 0.00 33.75 3.18
642 4372 3.396570 CCACGGTCCCACCCCTAC 61.397 72.222 0.00 0.00 33.75 3.18
643 4373 4.726254 CCCACGGTCCCACCCCTA 62.726 72.222 0.00 0.00 33.75 3.53
653 4383 4.400251 CTCCCTCCCTCCCACGGT 62.400 72.222 0.00 0.00 0.00 4.83
658 4388 4.179599 CCTCCCTCCCTCCCTCCC 62.180 77.778 0.00 0.00 0.00 4.30
660 4390 0.115547 GTATCCTCCCTCCCTCCCTC 59.884 65.000 0.00 0.00 0.00 4.30
661 4391 0.331036 AGTATCCTCCCTCCCTCCCT 60.331 60.000 0.00 0.00 0.00 4.20
718 4454 4.043200 GGACAGCAAAGCGGGCAC 62.043 66.667 0.00 0.00 32.25 5.01
827 4563 3.065786 CGGCGAGGCGTTTATATATAGGA 59.934 47.826 0.00 0.00 0.00 2.94
957 4694 0.949105 ATGTGAAACGGTGAGGTCGC 60.949 55.000 0.00 0.00 42.39 5.19
959 4696 2.457366 AGATGTGAAACGGTGAGGTC 57.543 50.000 0.00 0.00 42.39 3.85
970 4707 2.032634 GCCGCCGTGAAGATGTGAA 61.033 57.895 0.00 0.00 0.00 3.18
1182 6774 2.430610 GCCCTCCAGCTCGATGACT 61.431 63.158 0.00 0.00 0.00 3.41
1373 6965 3.551407 GACGGGGAGCAGGGGATC 61.551 72.222 0.00 0.00 0.00 3.36
1378 6970 3.827898 GAGACGACGGGGAGCAGG 61.828 72.222 0.00 0.00 0.00 4.85
1553 7157 3.385111 AGAGTTCCATCCTACGGATTGTC 59.615 47.826 0.00 0.00 39.79 3.18
1554 7158 3.375699 AGAGTTCCATCCTACGGATTGT 58.624 45.455 0.00 0.00 39.79 2.71
1555 7159 4.559704 GCTAGAGTTCCATCCTACGGATTG 60.560 50.000 0.00 0.00 39.79 2.67
1556 7160 3.574826 GCTAGAGTTCCATCCTACGGATT 59.425 47.826 0.00 0.00 39.79 3.01
1558 7162 2.584236 GCTAGAGTTCCATCCTACGGA 58.416 52.381 0.00 0.00 35.55 4.69
1560 7164 1.267261 CCGCTAGAGTTCCATCCTACG 59.733 57.143 0.00 0.00 0.00 3.51
1561 7165 1.614413 CCCGCTAGAGTTCCATCCTAC 59.386 57.143 0.00 0.00 0.00 3.18
1562 7166 1.480683 CCCCGCTAGAGTTCCATCCTA 60.481 57.143 0.00 0.00 0.00 2.94
1564 7168 1.749033 CCCCGCTAGAGTTCCATCC 59.251 63.158 0.00 0.00 0.00 3.51
1565 7169 1.049289 ACCCCCGCTAGAGTTCCATC 61.049 60.000 0.00 0.00 0.00 3.51
1566 7170 1.003051 ACCCCCGCTAGAGTTCCAT 59.997 57.895 0.00 0.00 0.00 3.41
1567 7171 1.987855 CACCCCCGCTAGAGTTCCA 60.988 63.158 0.00 0.00 0.00 3.53
1568 7172 1.551019 AACACCCCCGCTAGAGTTCC 61.551 60.000 0.00 0.00 0.00 3.62
1636 7245 5.455056 ACTCAACACAACTGGAGTAGTAG 57.545 43.478 0.00 0.00 39.18 2.57
1637 7246 5.864418 AACTCAACACAACTGGAGTAGTA 57.136 39.130 0.00 0.00 39.55 1.82
1638 7247 4.755266 AACTCAACACAACTGGAGTAGT 57.245 40.909 0.00 0.00 39.55 2.73
1639 7248 5.006746 GTGAAACTCAACACAACTGGAGTAG 59.993 44.000 0.00 0.00 39.55 2.57
1648 7257 4.940654 TGATGTCTGTGAAACTCAACACAA 59.059 37.500 0.00 0.00 44.50 3.33
1775 7387 7.446106 TCATGTGGGGTAATCACTAGTTAAT 57.554 36.000 0.00 0.00 36.21 1.40
2110 7727 3.776969 TGGCTTACAGGATCATCTGAACT 59.223 43.478 6.04 0.00 38.11 3.01
2111 7728 4.142609 TGGCTTACAGGATCATCTGAAC 57.857 45.455 6.04 0.00 38.11 3.18
2112 7729 4.409901 TCATGGCTTACAGGATCATCTGAA 59.590 41.667 6.04 0.00 34.49 3.02
2113 7730 3.969312 TCATGGCTTACAGGATCATCTGA 59.031 43.478 6.04 0.00 34.49 3.27
2114 7731 4.347360 TCATGGCTTACAGGATCATCTG 57.653 45.455 0.00 0.00 34.49 2.90
2115 7732 4.746089 GCTTCATGGCTTACAGGATCATCT 60.746 45.833 0.00 0.00 39.96 2.90
2116 7733 3.501445 GCTTCATGGCTTACAGGATCATC 59.499 47.826 0.00 0.00 39.96 2.92
2117 7734 3.137913 AGCTTCATGGCTTACAGGATCAT 59.862 43.478 0.00 0.00 39.96 2.45
2118 7735 2.507058 AGCTTCATGGCTTACAGGATCA 59.493 45.455 0.00 0.00 39.96 2.92
2119 7736 2.877168 CAGCTTCATGGCTTACAGGATC 59.123 50.000 0.00 0.00 39.96 3.36
2120 7737 2.507058 TCAGCTTCATGGCTTACAGGAT 59.493 45.455 0.00 0.00 39.96 3.24
2121 7738 1.908619 TCAGCTTCATGGCTTACAGGA 59.091 47.619 0.00 0.00 41.00 3.86
2122 7739 2.012673 GTCAGCTTCATGGCTTACAGG 58.987 52.381 4.10 0.00 41.00 4.00
2123 7740 2.012673 GGTCAGCTTCATGGCTTACAG 58.987 52.381 9.54 0.00 41.00 2.74
2124 7741 1.340017 GGGTCAGCTTCATGGCTTACA 60.340 52.381 9.54 0.00 41.00 2.41
2125 7742 1.340017 TGGGTCAGCTTCATGGCTTAC 60.340 52.381 0.00 0.00 41.00 2.34
2126 7743 0.991146 TGGGTCAGCTTCATGGCTTA 59.009 50.000 0.00 0.00 41.00 3.09
2127 7744 0.323178 CTGGGTCAGCTTCATGGCTT 60.323 55.000 0.00 0.00 41.00 4.35
2128 7745 1.203441 TCTGGGTCAGCTTCATGGCT 61.203 55.000 0.00 0.00 44.10 4.75
2129 7746 0.747283 CTCTGGGTCAGCTTCATGGC 60.747 60.000 0.00 0.00 0.00 4.40
2130 7747 0.107312 CCTCTGGGTCAGCTTCATGG 60.107 60.000 0.00 0.00 0.00 3.66
2131 7748 0.107312 CCCTCTGGGTCAGCTTCATG 60.107 60.000 0.00 0.00 38.25 3.07
2132 7749 2.305095 CCCTCTGGGTCAGCTTCAT 58.695 57.895 0.00 0.00 38.25 2.57
2133 7750 3.811702 CCCTCTGGGTCAGCTTCA 58.188 61.111 0.00 0.00 38.25 3.02
2143 7760 3.797559 AAGGAAAAGAAGACCCTCTGG 57.202 47.619 0.00 0.00 37.80 3.86
2144 7761 5.240403 CAGAAAAGGAAAAGAAGACCCTCTG 59.760 44.000 0.00 0.00 0.00 3.35
2145 7762 5.103898 ACAGAAAAGGAAAAGAAGACCCTCT 60.104 40.000 0.00 0.00 0.00 3.69
2146 7763 5.133941 ACAGAAAAGGAAAAGAAGACCCTC 58.866 41.667 0.00 0.00 0.00 4.30
2147 7764 5.130705 ACAGAAAAGGAAAAGAAGACCCT 57.869 39.130 0.00 0.00 0.00 4.34
2148 7765 5.854010 AACAGAAAAGGAAAAGAAGACCC 57.146 39.130 0.00 0.00 0.00 4.46
2149 7766 6.975197 CAGAAACAGAAAAGGAAAAGAAGACC 59.025 38.462 0.00 0.00 0.00 3.85
2150 7767 6.473778 GCAGAAACAGAAAAGGAAAAGAAGAC 59.526 38.462 0.00 0.00 0.00 3.01
2151 7768 6.152661 TGCAGAAACAGAAAAGGAAAAGAAGA 59.847 34.615 0.00 0.00 0.00 2.87
2152 7769 6.332630 TGCAGAAACAGAAAAGGAAAAGAAG 58.667 36.000 0.00 0.00 0.00 2.85
2153 7770 6.279513 TGCAGAAACAGAAAAGGAAAAGAA 57.720 33.333 0.00 0.00 0.00 2.52
2154 7771 5.913137 TGCAGAAACAGAAAAGGAAAAGA 57.087 34.783 0.00 0.00 0.00 2.52
2155 7772 6.966435 TTTGCAGAAACAGAAAAGGAAAAG 57.034 33.333 0.00 0.00 0.00 2.27
2156 7773 7.102346 TCATTTGCAGAAACAGAAAAGGAAAA 58.898 30.769 0.00 0.00 0.00 2.29
2157 7774 6.638610 TCATTTGCAGAAACAGAAAAGGAAA 58.361 32.000 0.00 0.00 0.00 3.13
2158 7775 6.219417 TCATTTGCAGAAACAGAAAAGGAA 57.781 33.333 0.00 0.00 0.00 3.36
2159 7776 5.850557 TCATTTGCAGAAACAGAAAAGGA 57.149 34.783 0.00 0.00 0.00 3.36
2160 7777 7.011669 ACAAATCATTTGCAGAAACAGAAAAGG 59.988 33.333 10.21 0.00 44.39 3.11
2161 7778 7.912383 ACAAATCATTTGCAGAAACAGAAAAG 58.088 30.769 10.21 0.00 44.39 2.27
2162 7779 7.846644 ACAAATCATTTGCAGAAACAGAAAA 57.153 28.000 10.21 0.00 44.39 2.29
2163 7780 8.196771 ACTACAAATCATTTGCAGAAACAGAAA 58.803 29.630 16.06 0.00 44.39 2.52
2164 7781 7.715657 ACTACAAATCATTTGCAGAAACAGAA 58.284 30.769 16.06 0.00 44.39 3.02
2165 7782 7.275888 ACTACAAATCATTTGCAGAAACAGA 57.724 32.000 16.06 0.00 44.39 3.41
2166 7783 6.583806 GGACTACAAATCATTTGCAGAAACAG 59.416 38.462 16.06 3.19 44.39 3.16
2167 7784 6.446318 GGACTACAAATCATTTGCAGAAACA 58.554 36.000 16.06 0.00 44.39 2.83
2168 7785 5.863935 GGGACTACAAATCATTTGCAGAAAC 59.136 40.000 16.06 7.55 44.39 2.78
2169 7786 5.047377 GGGGACTACAAATCATTTGCAGAAA 60.047 40.000 16.06 0.00 44.39 2.52
2170 7787 4.462483 GGGGACTACAAATCATTTGCAGAA 59.538 41.667 16.06 0.00 44.39 3.02
2171 7788 4.016444 GGGGACTACAAATCATTTGCAGA 58.984 43.478 16.06 0.00 44.39 4.26
2172 7789 3.131046 GGGGGACTACAAATCATTTGCAG 59.869 47.826 10.21 9.34 44.39 4.41
2173 7790 3.096092 GGGGGACTACAAATCATTTGCA 58.904 45.455 10.21 0.00 44.39 4.08
2174 7791 3.131046 CAGGGGGACTACAAATCATTTGC 59.869 47.826 10.21 0.00 44.39 3.68
2175 7792 3.131046 GCAGGGGGACTACAAATCATTTG 59.869 47.826 8.67 8.67 45.95 2.32
2176 7793 3.365472 GCAGGGGGACTACAAATCATTT 58.635 45.455 0.00 0.00 0.00 2.32
2177 7794 2.358195 GGCAGGGGGACTACAAATCATT 60.358 50.000 0.00 0.00 0.00 2.57
2178 7795 1.215423 GGCAGGGGGACTACAAATCAT 59.785 52.381 0.00 0.00 0.00 2.45
2179 7796 0.623723 GGCAGGGGGACTACAAATCA 59.376 55.000 0.00 0.00 0.00 2.57
2180 7797 0.919710 AGGCAGGGGGACTACAAATC 59.080 55.000 0.00 0.00 27.39 2.17
2181 7798 1.382914 AAGGCAGGGGGACTACAAAT 58.617 50.000 0.00 0.00 28.41 2.32
2182 7799 2.040679 GTTAAGGCAGGGGGACTACAAA 59.959 50.000 0.00 0.00 28.41 2.83
2183 7800 1.631898 GTTAAGGCAGGGGGACTACAA 59.368 52.381 0.00 0.00 28.41 2.41
2184 7801 1.282382 GTTAAGGCAGGGGGACTACA 58.718 55.000 0.00 0.00 28.41 2.74
2185 7802 0.545171 GGTTAAGGCAGGGGGACTAC 59.455 60.000 0.00 0.00 28.41 2.73
2186 7803 0.979187 CGGTTAAGGCAGGGGGACTA 60.979 60.000 0.00 0.00 28.41 2.59
2187 7804 2.298661 CGGTTAAGGCAGGGGGACT 61.299 63.158 0.00 0.00 34.99 3.85
2188 7805 2.271173 CGGTTAAGGCAGGGGGAC 59.729 66.667 0.00 0.00 0.00 4.46
2189 7806 2.204029 ACGGTTAAGGCAGGGGGA 60.204 61.111 0.00 0.00 0.00 4.81
2190 7807 2.271173 GACGGTTAAGGCAGGGGG 59.729 66.667 0.00 0.00 0.00 5.40
2191 7808 2.125269 CGACGGTTAAGGCAGGGG 60.125 66.667 0.00 0.00 0.00 4.79
2192 7809 2.125269 CCGACGGTTAAGGCAGGG 60.125 66.667 5.48 0.00 0.00 4.45
2193 7810 0.320946 TTTCCGACGGTTAAGGCAGG 60.321 55.000 14.79 0.00 0.00 4.85
2194 7811 1.396996 CATTTCCGACGGTTAAGGCAG 59.603 52.381 14.79 0.00 0.00 4.85
2195 7812 1.444836 CATTTCCGACGGTTAAGGCA 58.555 50.000 14.79 0.00 0.00 4.75
2196 7813 0.098200 GCATTTCCGACGGTTAAGGC 59.902 55.000 19.29 19.29 0.00 4.35
2197 7814 0.372334 CGCATTTCCGACGGTTAAGG 59.628 55.000 14.79 12.07 0.00 2.69
2198 7815 1.323534 CTCGCATTTCCGACGGTTAAG 59.676 52.381 14.79 4.37 33.12 1.85
2199 7816 1.067706 TCTCGCATTTCCGACGGTTAA 60.068 47.619 14.79 10.04 33.12 2.01
2200 7817 0.527113 TCTCGCATTTCCGACGGTTA 59.473 50.000 14.79 3.33 33.12 2.85
2201 7818 0.108329 ATCTCGCATTTCCGACGGTT 60.108 50.000 14.79 0.00 33.12 4.44
2202 7819 0.742505 TATCTCGCATTTCCGACGGT 59.257 50.000 14.79 0.00 33.12 4.83
2203 7820 1.001706 TCTATCTCGCATTTCCGACGG 60.002 52.381 7.84 7.84 33.12 4.79
2204 7821 2.287069 ACTCTATCTCGCATTTCCGACG 60.287 50.000 0.00 0.00 33.12 5.12
2205 7822 3.357166 ACTCTATCTCGCATTTCCGAC 57.643 47.619 0.00 0.00 33.12 4.79
2206 7823 5.707242 ATTACTCTATCTCGCATTTCCGA 57.293 39.130 0.00 0.00 35.68 4.55
2207 7824 7.869016 TTAATTACTCTATCTCGCATTTCCG 57.131 36.000 0.00 0.00 0.00 4.30
2208 7825 9.424319 TGATTAATTACTCTATCTCGCATTTCC 57.576 33.333 4.66 0.00 0.00 3.13
2213 7830 9.764363 ACAAATGATTAATTACTCTATCTCGCA 57.236 29.630 4.66 0.00 0.00 5.10
2247 7864 9.369672 TGGGACTGGTATAAAAATTTAAACAGT 57.630 29.630 11.18 11.18 37.49 3.55
2248 7865 9.855021 CTGGGACTGGTATAAAAATTTAAACAG 57.145 33.333 0.00 0.00 32.68 3.16
2249 7866 9.369672 ACTGGGACTGGTATAAAAATTTAAACA 57.630 29.630 0.00 0.00 0.00 2.83
2250 7867 9.634163 CACTGGGACTGGTATAAAAATTTAAAC 57.366 33.333 0.00 0.00 0.00 2.01
2251 7868 9.369672 ACACTGGGACTGGTATAAAAATTTAAA 57.630 29.630 0.00 0.00 0.00 1.52
2252 7869 8.943594 ACACTGGGACTGGTATAAAAATTTAA 57.056 30.769 0.00 0.00 0.00 1.52
2253 7870 8.387813 AGACACTGGGACTGGTATAAAAATTTA 58.612 33.333 0.00 0.00 0.00 1.40
2254 7871 7.238710 AGACACTGGGACTGGTATAAAAATTT 58.761 34.615 0.00 0.00 0.00 1.82
2255 7872 6.790319 AGACACTGGGACTGGTATAAAAATT 58.210 36.000 0.00 0.00 0.00 1.82
2256 7873 6.388619 AGACACTGGGACTGGTATAAAAAT 57.611 37.500 0.00 0.00 0.00 1.82
2257 7874 5.568023 CGAGACACTGGGACTGGTATAAAAA 60.568 44.000 0.00 0.00 0.00 1.94
2258 7875 4.081862 CGAGACACTGGGACTGGTATAAAA 60.082 45.833 0.00 0.00 0.00 1.52
2259 7876 3.446161 CGAGACACTGGGACTGGTATAAA 59.554 47.826 0.00 0.00 0.00 1.40
2260 7877 3.021695 CGAGACACTGGGACTGGTATAA 58.978 50.000 0.00 0.00 0.00 0.98
2261 7878 2.651455 CGAGACACTGGGACTGGTATA 58.349 52.381 0.00 0.00 0.00 1.47
2262 7879 1.475403 CGAGACACTGGGACTGGTAT 58.525 55.000 0.00 0.00 0.00 2.73
2263 7880 1.248785 GCGAGACACTGGGACTGGTA 61.249 60.000 0.00 0.00 0.00 3.25
2264 7881 2.574955 GCGAGACACTGGGACTGGT 61.575 63.158 0.00 0.00 0.00 4.00
2265 7882 1.892819 ATGCGAGACACTGGGACTGG 61.893 60.000 0.00 0.00 0.00 4.00
2266 7883 0.036952 AATGCGAGACACTGGGACTG 60.037 55.000 0.00 0.00 0.00 3.51
2267 7884 0.687354 AAATGCGAGACACTGGGACT 59.313 50.000 0.00 0.00 0.00 3.85
2268 7885 0.798776 CAAATGCGAGACACTGGGAC 59.201 55.000 0.00 0.00 0.00 4.46
2269 7886 0.321564 CCAAATGCGAGACACTGGGA 60.322 55.000 0.00 0.00 32.94 4.37
2270 7887 0.606401 ACCAAATGCGAGACACTGGG 60.606 55.000 0.00 0.00 38.44 4.45
2271 7888 1.732259 GTACCAAATGCGAGACACTGG 59.268 52.381 0.00 0.00 39.52 4.00
2272 7889 1.390123 CGTACCAAATGCGAGACACTG 59.610 52.381 0.00 0.00 38.98 3.66
2273 7890 1.271379 TCGTACCAAATGCGAGACACT 59.729 47.619 0.00 0.00 40.82 3.55
2274 7891 1.705256 TCGTACCAAATGCGAGACAC 58.295 50.000 0.00 0.00 40.82 3.67
2275 7892 2.288579 ACTTCGTACCAAATGCGAGACA 60.289 45.455 0.00 0.00 46.56 3.41
2276 7893 2.334838 ACTTCGTACCAAATGCGAGAC 58.665 47.619 0.00 0.00 46.56 3.36
2277 7894 2.736144 ACTTCGTACCAAATGCGAGA 57.264 45.000 0.00 0.00 46.56 4.04
2278 7895 3.924686 ACTAACTTCGTACCAAATGCGAG 59.075 43.478 0.00 0.00 46.56 5.03
2279 7896 3.916761 ACTAACTTCGTACCAAATGCGA 58.083 40.909 0.00 0.00 44.28 5.10
2280 7897 4.622313 TGTACTAACTTCGTACCAAATGCG 59.378 41.667 0.00 0.00 37.11 4.73
2281 7898 5.445540 GCTGTACTAACTTCGTACCAAATGC 60.446 44.000 0.00 0.00 37.11 3.56
2282 7899 5.867716 AGCTGTACTAACTTCGTACCAAATG 59.132 40.000 0.00 0.00 37.11 2.32
2283 7900 6.034161 AGCTGTACTAACTTCGTACCAAAT 57.966 37.500 0.00 0.00 37.11 2.32
2284 7901 5.458041 AGCTGTACTAACTTCGTACCAAA 57.542 39.130 0.00 0.00 37.11 3.28
2285 7902 5.458041 AAGCTGTACTAACTTCGTACCAA 57.542 39.130 0.00 0.00 37.11 3.67
2286 7903 6.573664 TTAAGCTGTACTAACTTCGTACCA 57.426 37.500 0.00 0.00 37.11 3.25
2287 7904 8.401709 AGTATTAAGCTGTACTAACTTCGTACC 58.598 37.037 5.23 0.00 37.11 3.34
2295 7912 9.235537 GCAGACTTAGTATTAAGCTGTACTAAC 57.764 37.037 20.07 11.29 39.95 2.34
2296 7913 8.127327 CGCAGACTTAGTATTAAGCTGTACTAA 58.873 37.037 20.07 18.21 39.95 2.24
2297 7914 7.496920 TCGCAGACTTAGTATTAAGCTGTACTA 59.503 37.037 20.07 8.88 39.95 1.82
2298 7915 6.318144 TCGCAGACTTAGTATTAAGCTGTACT 59.682 38.462 20.07 10.43 39.95 2.73
2299 7916 6.493116 TCGCAGACTTAGTATTAAGCTGTAC 58.507 40.000 20.07 10.77 39.95 2.90
2300 7917 6.688637 TCGCAGACTTAGTATTAAGCTGTA 57.311 37.500 20.07 12.22 39.95 2.74
2301 7918 5.578005 TCGCAGACTTAGTATTAAGCTGT 57.422 39.130 20.07 1.55 39.95 4.40
2317 7934 5.870433 TCCGTTTTAGAATAATTGTCGCAGA 59.130 36.000 0.00 0.00 0.00 4.26
2318 7935 6.102006 TCCGTTTTAGAATAATTGTCGCAG 57.898 37.500 0.00 0.00 0.00 5.18
2319 7936 6.314152 TCATCCGTTTTAGAATAATTGTCGCA 59.686 34.615 0.00 0.00 0.00 5.10
2320 7937 6.711579 TCATCCGTTTTAGAATAATTGTCGC 58.288 36.000 0.00 0.00 0.00 5.19
2321 7938 8.388103 ACTTCATCCGTTTTAGAATAATTGTCG 58.612 33.333 0.00 0.00 0.00 4.35
2331 7948 9.793252 GTTACATAGTACTTCATCCGTTTTAGA 57.207 33.333 0.00 0.00 0.00 2.10
2332 7949 9.577110 TGTTACATAGTACTTCATCCGTTTTAG 57.423 33.333 0.00 0.00 0.00 1.85
2333 7950 9.357652 GTGTTACATAGTACTTCATCCGTTTTA 57.642 33.333 0.00 0.00 0.00 1.52
2334 7951 7.062605 CGTGTTACATAGTACTTCATCCGTTTT 59.937 37.037 0.00 0.00 0.00 2.43
2335 7952 6.529125 CGTGTTACATAGTACTTCATCCGTTT 59.471 38.462 0.00 0.00 0.00 3.60
2336 7953 6.032094 CGTGTTACATAGTACTTCATCCGTT 58.968 40.000 0.00 0.00 0.00 4.44
2337 7954 5.449588 CCGTGTTACATAGTACTTCATCCGT 60.450 44.000 0.00 0.00 0.00 4.69
2338 7955 4.974275 CCGTGTTACATAGTACTTCATCCG 59.026 45.833 0.00 0.00 0.00 4.18
2339 7956 4.743644 GCCGTGTTACATAGTACTTCATCC 59.256 45.833 0.00 0.00 0.00 3.51
2340 7957 5.885020 GCCGTGTTACATAGTACTTCATC 57.115 43.478 0.00 0.00 0.00 2.92


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

AutoCloner maintained by Alex Coulton.