Multiple sequence alignment - TraesCS7B01G231900

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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 TraesCS7B01G231900 chr7B 100.000 2528 0 0 1 2528 434841556 434839029 0.000000e+00 4669.0
1 TraesCS7B01G231900 chr7D 94.997 1639 48 10 692 2301 418969410 418967777 0.000000e+00 2542.0
2 TraesCS7B01G231900 chr7D 94.421 699 24 4 1 696 418970119 418969433 0.000000e+00 1061.0
3 TraesCS7B01G231900 chr7D 93.088 217 8 1 2312 2528 418963090 418962881 6.790000e-81 311.0
4 TraesCS7B01G231900 chr7D 91.803 61 2 2 2244 2302 225833128 225833187 5.800000e-12 82.4
5 TraesCS7B01G231900 chr7A 91.790 1693 99 18 233 1895 514661303 514662985 0.000000e+00 2320.0
6 TraesCS7B01G231900 chr7A 87.437 199 24 1 2305 2503 514670450 514670647 7.040000e-56 228.0
7 TraesCS7B01G231900 chr7A 92.208 77 6 0 1 77 514660701 514660777 2.660000e-20 110.0
8 TraesCS7B01G231900 chr7A 94.444 54 2 1 2256 2309 48103120 48103068 5.800000e-12 82.4
9 TraesCS7B01G231900 chr2D 98.077 52 1 0 2251 2302 619562394 619562343 9.630000e-15 91.6
10 TraesCS7B01G231900 chr2D 94.000 50 3 0 2246 2295 585736557 585736606 2.700000e-10 76.8
11 TraesCS7B01G231900 chr6B 100.000 48 0 0 2255 2302 622737741 622737694 3.460000e-14 89.8
12 TraesCS7B01G231900 chr3B 96.154 52 2 0 2251 2302 681562664 681562715 4.480000e-13 86.1
13 TraesCS7B01G231900 chr2B 97.959 49 1 0 2254 2302 216462856 216462808 4.480000e-13 86.1
14 TraesCS7B01G231900 chr2A 97.959 49 1 0 2254 2302 559118458 559118410 4.480000e-13 86.1


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 TraesCS7B01G231900 chr7B 434839029 434841556 2527 True 4669.0 4669 100.000 1 2528 1 chr7B.!!$R1 2527
1 TraesCS7B01G231900 chr7D 418967777 418970119 2342 True 1801.5 2542 94.709 1 2301 2 chr7D.!!$R2 2300
2 TraesCS7B01G231900 chr7A 514660701 514662985 2284 False 1215.0 2320 91.999 1 1895 2 chr7A.!!$F2 1894

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
79 80 0.605589 CTCGCACTGGAGAGGTCTTT 59.394 55.0 0.0 0.0 37.31 2.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1568 2083 0.037303 ACAGGCTTGTGATGGTCTGG 59.963 55.0 0.0 0.0 39.22 3.86 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
62 63 3.803162 GCCTTCCCCTGCCTCCTC 61.803 72.222 0.00 0.00 0.00 3.71
79 80 0.605589 CTCGCACTGGAGAGGTCTTT 59.394 55.000 0.00 0.00 37.31 2.52
81 82 1.416401 TCGCACTGGAGAGGTCTTTTT 59.584 47.619 0.00 0.00 0.00 1.94
194 195 0.958876 GTGAGGACCGGCGGAAAAAT 60.959 55.000 35.78 9.95 0.00 1.82
200 201 2.686405 GGACCGGCGGAAAAATAGAAAT 59.314 45.455 35.78 4.60 0.00 2.17
203 204 5.494632 ACCGGCGGAAAAATAGAAATAAG 57.505 39.130 35.78 0.00 0.00 1.73
206 207 5.240844 CCGGCGGAAAAATAGAAATAAGGAT 59.759 40.000 24.41 0.00 0.00 3.24
207 208 6.142817 CGGCGGAAAAATAGAAATAAGGATG 58.857 40.000 0.00 0.00 0.00 3.51
334 796 0.668401 GGGGTTCGTCGACATCGTTT 60.668 55.000 17.16 0.00 40.80 3.60
434 896 3.879998 TGCGCTCCTCCAATAATGTTTA 58.120 40.909 9.73 0.00 0.00 2.01
526 989 7.148590 GCAAGTTTGAAGTTCAAAATGTTCTGT 60.149 33.333 28.05 11.57 46.53 3.41
534 997 5.594317 AGTTCAAAATGTTCTGTAGGCAGTT 59.406 36.000 0.00 0.00 43.05 3.16
670 1135 9.801873 AAATTATGATCCAAAGTTTAATGGTCG 57.198 29.630 0.00 0.00 37.94 4.79
675 1140 3.081804 CCAAAGTTTAATGGTCGAGCCT 58.918 45.455 12.85 0.00 38.35 4.58
690 1155 5.291371 GGTCGAGCCTCTCAAGTAAATTAAC 59.709 44.000 2.39 0.00 0.00 2.01
750 1245 2.149973 ATCAATCCCCCACAAAGAGC 57.850 50.000 0.00 0.00 0.00 4.09
1011 1523 2.304180 AGCTATAAAGATGGCGAGGCAT 59.696 45.455 12.04 12.04 43.98 4.40
1030 1542 1.399714 TATCCAAGCCGATCACGAGT 58.600 50.000 0.00 0.00 42.66 4.18
1549 2061 1.754226 TGTAGCTCGTATGTGCATGGA 59.246 47.619 11.32 0.00 37.07 3.41
1568 2083 7.284034 TGCATGGAGTAGTAGTTACTTAGGTAC 59.716 40.741 0.00 0.00 42.69 3.34
1701 2219 0.034574 TAATGAAGTGCGGCCATGGT 60.035 50.000 14.67 0.00 0.00 3.55
1709 2227 2.092646 AGTGCGGCCATGGTAAAATAGA 60.093 45.455 14.67 0.00 0.00 1.98
1773 2295 4.301628 GACAAATTGGAACTTGGAAGCAG 58.698 43.478 0.00 0.00 0.00 4.24
1902 2431 4.274950 TCACCGTGTTCAATTTTCTTCTCC 59.725 41.667 0.00 0.00 0.00 3.71
1903 2432 4.036262 CACCGTGTTCAATTTTCTTCTCCA 59.964 41.667 0.00 0.00 0.00 3.86
1906 2435 5.393962 CGTGTTCAATTTTCTTCTCCATCC 58.606 41.667 0.00 0.00 0.00 3.51
1907 2436 5.048782 CGTGTTCAATTTTCTTCTCCATCCA 60.049 40.000 0.00 0.00 0.00 3.41
1908 2437 6.152379 GTGTTCAATTTTCTTCTCCATCCAC 58.848 40.000 0.00 0.00 0.00 4.02
1934 2463 7.722363 TCCAAGATACGTAAGCAAATCAGATA 58.278 34.615 0.00 0.00 45.62 1.98
1940 2469 4.941263 ACGTAAGCAAATCAGATAAGCCAA 59.059 37.500 0.00 0.00 45.62 4.52
1942 2471 5.163764 CGTAAGCAAATCAGATAAGCCAACA 60.164 40.000 3.91 0.00 0.00 3.33
1967 2496 1.381056 ACAGCTCTCCTCGCATCCT 60.381 57.895 0.00 0.00 0.00 3.24
1968 2497 1.067749 CAGCTCTCCTCGCATCCTG 59.932 63.158 0.00 0.00 0.00 3.86
1970 2499 2.420890 CTCTCCTCGCATCCTGGC 59.579 66.667 0.00 0.00 0.00 4.85
1972 2501 3.160047 CTCCTCGCATCCTGGCCT 61.160 66.667 3.32 0.00 0.00 5.19
1973 2502 3.457625 CTCCTCGCATCCTGGCCTG 62.458 68.421 3.32 2.54 0.00 4.85
1974 2503 3.473647 CCTCGCATCCTGGCCTGA 61.474 66.667 11.88 4.43 0.00 3.86
1989 2534 1.816961 GCCTGAAATGGATGCGAGGAT 60.817 52.381 0.00 0.00 0.00 3.24
2002 2547 0.601311 CGAGGATGGAAAGGATCGCC 60.601 60.000 0.00 0.00 0.00 5.54
2088 2633 6.016777 CCAGATTTATGTCATAACTTCTGGGC 60.017 42.308 30.96 10.21 43.46 5.36
2113 2658 7.495606 GCCCTATTTGATTCCCAAAATGTTAAG 59.504 37.037 0.00 0.00 46.64 1.85
2122 2667 9.366216 GATTCCCAAAATGTTAAGTTGGTATTC 57.634 33.333 0.00 0.00 40.23 1.75
2132 2677 8.506168 TGTTAAGTTGGTATTCAGATGGAATC 57.494 34.615 0.00 0.00 42.62 2.52
2194 2739 6.200097 ACGCGAAAAACAAGCTCAAATTTATT 59.800 30.769 15.93 0.00 0.00 1.40
2206 2751 9.995003 AAGCTCAAATTTATTGACATGGTTTTA 57.005 25.926 0.00 0.00 0.00 1.52
2207 2752 9.995003 AGCTCAAATTTATTGACATGGTTTTAA 57.005 25.926 0.00 0.00 0.00 1.52
2265 2810 9.469097 AATGTACTCCCTATGTCTAGATACATC 57.531 37.037 9.24 0.00 40.52 3.06
2273 2818 7.309177 CCTATGTCTAGATACATCCGTTTGAG 58.691 42.308 0.00 0.00 40.52 3.02
2302 2847 2.877975 TTCCGGACGGAGGAAGTAG 58.122 57.895 13.64 0.00 46.06 2.57
2303 2848 1.318158 TTCCGGACGGAGGAAGTAGC 61.318 60.000 13.64 0.00 46.06 3.58
2304 2849 2.408022 CGGACGGAGGAAGTAGCG 59.592 66.667 0.00 0.00 0.00 4.26
2305 2850 2.404995 CGGACGGAGGAAGTAGCGT 61.405 63.158 0.00 0.00 0.00 5.07
2306 2851 1.091771 CGGACGGAGGAAGTAGCGTA 61.092 60.000 0.00 0.00 0.00 4.42
2307 2852 0.662085 GGACGGAGGAAGTAGCGTAG 59.338 60.000 0.00 0.00 0.00 3.51
2308 2853 1.377536 GACGGAGGAAGTAGCGTAGT 58.622 55.000 0.00 0.00 0.00 2.73
2309 2854 1.742268 GACGGAGGAAGTAGCGTAGTT 59.258 52.381 0.00 0.00 0.00 2.24
2310 2855 2.163211 GACGGAGGAAGTAGCGTAGTTT 59.837 50.000 0.00 0.00 0.00 2.66
2311 2856 3.347216 ACGGAGGAAGTAGCGTAGTTTA 58.653 45.455 0.00 0.00 0.00 2.01
2312 2857 3.127721 ACGGAGGAAGTAGCGTAGTTTAC 59.872 47.826 0.00 0.00 0.00 2.01
2313 2858 3.127548 CGGAGGAAGTAGCGTAGTTTACA 59.872 47.826 0.00 0.00 0.00 2.41
2314 2859 4.670347 GGAGGAAGTAGCGTAGTTTACAG 58.330 47.826 0.00 0.00 0.00 2.74
2315 2860 4.397417 GGAGGAAGTAGCGTAGTTTACAGA 59.603 45.833 0.00 0.00 0.00 3.41
2316 2861 5.067544 GGAGGAAGTAGCGTAGTTTACAGAT 59.932 44.000 0.00 0.00 0.00 2.90
2317 2862 6.405619 GGAGGAAGTAGCGTAGTTTACAGATT 60.406 42.308 0.00 0.00 0.00 2.40
2318 2863 6.331061 AGGAAGTAGCGTAGTTTACAGATTG 58.669 40.000 0.00 0.00 0.00 2.67
2319 2864 6.071503 AGGAAGTAGCGTAGTTTACAGATTGT 60.072 38.462 0.00 0.00 0.00 2.71
2320 2865 6.589139 GGAAGTAGCGTAGTTTACAGATTGTT 59.411 38.462 0.00 0.00 0.00 2.83
2321 2866 7.201418 GGAAGTAGCGTAGTTTACAGATTGTTC 60.201 40.741 0.00 0.00 0.00 3.18
2322 2867 6.684686 AGTAGCGTAGTTTACAGATTGTTCA 58.315 36.000 0.00 0.00 0.00 3.18
2323 2868 7.149973 AGTAGCGTAGTTTACAGATTGTTCAA 58.850 34.615 0.00 0.00 0.00 2.69
2324 2869 6.467723 AGCGTAGTTTACAGATTGTTCAAG 57.532 37.500 0.00 0.00 0.00 3.02
2325 2870 5.408604 AGCGTAGTTTACAGATTGTTCAAGG 59.591 40.000 0.00 0.00 0.00 3.61
2326 2871 5.178809 GCGTAGTTTACAGATTGTTCAAGGT 59.821 40.000 0.00 0.00 0.00 3.50
2327 2872 6.590357 CGTAGTTTACAGATTGTTCAAGGTG 58.410 40.000 0.00 0.00 0.00 4.00
2328 2873 5.438761 AGTTTACAGATTGTTCAAGGTGC 57.561 39.130 0.00 0.00 0.00 5.01
2329 2874 4.887071 AGTTTACAGATTGTTCAAGGTGCA 59.113 37.500 0.00 0.00 0.00 4.57
2330 2875 5.536161 AGTTTACAGATTGTTCAAGGTGCAT 59.464 36.000 0.00 0.00 0.00 3.96
2331 2876 5.627499 TTACAGATTGTTCAAGGTGCATC 57.373 39.130 0.00 0.00 0.00 3.91
2332 2877 2.821969 ACAGATTGTTCAAGGTGCATCC 59.178 45.455 0.00 0.00 0.00 3.51
2333 2878 2.086869 AGATTGTTCAAGGTGCATCCG 58.913 47.619 0.00 0.00 41.99 4.18
2334 2879 2.083774 GATTGTTCAAGGTGCATCCGA 58.916 47.619 0.00 0.00 41.99 4.55
2335 2880 1.234821 TTGTTCAAGGTGCATCCGAC 58.765 50.000 0.00 0.00 41.99 4.79
2336 2881 0.107643 TGTTCAAGGTGCATCCGACA 59.892 50.000 0.00 0.00 41.99 4.35
2337 2882 0.798776 GTTCAAGGTGCATCCGACAG 59.201 55.000 0.00 0.00 41.99 3.51
2338 2883 0.955428 TTCAAGGTGCATCCGACAGC 60.955 55.000 0.00 0.00 41.99 4.40
2339 2884 1.672030 CAAGGTGCATCCGACAGCA 60.672 57.895 0.00 0.00 41.99 4.41
2340 2885 1.376424 AAGGTGCATCCGACAGCAG 60.376 57.895 0.00 0.00 42.14 4.24
2341 2886 2.809861 AAGGTGCATCCGACAGCAGG 62.810 60.000 0.00 0.00 42.14 4.85
2342 2887 2.265739 GTGCATCCGACAGCAGGA 59.734 61.111 0.00 0.00 42.14 3.86
2343 2888 1.375908 GTGCATCCGACAGCAGGAA 60.376 57.895 0.00 0.00 42.14 3.36
2344 2889 0.745845 GTGCATCCGACAGCAGGAAT 60.746 55.000 0.00 0.00 42.14 3.01
2345 2890 0.745486 TGCATCCGACAGCAGGAATG 60.745 55.000 0.00 0.00 41.69 2.67
2346 2891 0.745845 GCATCCGACAGCAGGAATGT 60.746 55.000 0.00 0.00 41.69 2.71
2347 2892 1.473257 GCATCCGACAGCAGGAATGTA 60.473 52.381 0.00 0.00 41.69 2.29
2348 2893 2.477825 CATCCGACAGCAGGAATGTAG 58.522 52.381 0.00 0.00 41.69 2.74
2349 2894 0.824109 TCCGACAGCAGGAATGTAGG 59.176 55.000 0.00 0.00 42.77 3.18
2350 2895 0.824109 CCGACAGCAGGAATGTAGGA 59.176 55.000 0.00 0.00 43.75 2.94
2351 2896 1.414181 CCGACAGCAGGAATGTAGGAT 59.586 52.381 0.00 0.00 43.75 3.24
2352 2897 2.477825 CGACAGCAGGAATGTAGGATG 58.522 52.381 0.00 0.00 0.00 3.51
2353 2898 2.216898 GACAGCAGGAATGTAGGATGC 58.783 52.381 0.00 0.00 37.15 3.91
2355 2900 2.634815 AGCAGGAATGTAGGATGCTG 57.365 50.000 0.00 0.00 45.08 4.41
2356 2901 1.842562 AGCAGGAATGTAGGATGCTGT 59.157 47.619 0.00 0.00 45.08 4.40
2357 2902 3.041211 AGCAGGAATGTAGGATGCTGTA 58.959 45.455 0.00 0.00 45.08 2.74
2358 2903 3.134458 GCAGGAATGTAGGATGCTGTAC 58.866 50.000 0.00 0.00 37.33 2.90
2359 2904 3.432186 GCAGGAATGTAGGATGCTGTACA 60.432 47.826 0.00 0.00 37.33 2.90
2360 2905 4.744867 GCAGGAATGTAGGATGCTGTACAT 60.745 45.833 0.00 0.00 40.80 2.29
2361 2906 4.753610 CAGGAATGTAGGATGCTGTACATG 59.246 45.833 3.66 0.00 39.34 3.21
2362 2907 3.499918 GGAATGTAGGATGCTGTACATGC 59.500 47.826 3.66 2.01 46.86 4.06
2366 2911 2.408333 GGATGCTGTACATGCCACC 58.592 57.895 12.71 11.76 41.03 4.61
2367 2912 0.107017 GGATGCTGTACATGCCACCT 60.107 55.000 12.71 0.00 41.03 4.00
2368 2913 1.683011 GGATGCTGTACATGCCACCTT 60.683 52.381 12.71 0.00 41.03 3.50
2369 2914 1.402968 GATGCTGTACATGCCACCTTG 59.597 52.381 12.71 0.00 39.84 3.61
2370 2915 0.110295 TGCTGTACATGCCACCTTGT 59.890 50.000 12.71 0.00 34.23 3.16
2371 2916 0.523072 GCTGTACATGCCACCTTGTG 59.477 55.000 0.00 0.00 32.34 3.33
2372 2917 0.523072 CTGTACATGCCACCTTGTGC 59.477 55.000 0.00 0.00 34.04 4.57
2373 2918 0.179006 TGTACATGCCACCTTGTGCA 60.179 50.000 0.00 0.00 38.65 4.57
2374 2919 0.523072 GTACATGCCACCTTGTGCAG 59.477 55.000 0.00 0.00 33.77 4.41
2375 2920 0.110295 TACATGCCACCTTGTGCAGT 59.890 50.000 0.00 0.00 32.34 4.40
2376 2921 1.174712 ACATGCCACCTTGTGCAGTC 61.175 55.000 0.00 0.00 31.34 3.51
2377 2922 1.604593 ATGCCACCTTGTGCAGTCC 60.605 57.895 0.00 0.00 31.34 3.85
2378 2923 2.203337 GCCACCTTGTGCAGTCCA 60.203 61.111 0.00 0.00 31.34 4.02
2379 2924 2.263741 GCCACCTTGTGCAGTCCAG 61.264 63.158 0.00 0.00 31.34 3.86
2380 2925 1.601759 CCACCTTGTGCAGTCCAGG 60.602 63.158 0.00 0.00 31.34 4.45
2381 2926 1.451504 CACCTTGTGCAGTCCAGGA 59.548 57.895 7.28 0.00 0.00 3.86
2382 2927 0.179020 CACCTTGTGCAGTCCAGGAA 60.179 55.000 7.28 0.00 0.00 3.36
2383 2928 0.550914 ACCTTGTGCAGTCCAGGAAA 59.449 50.000 7.28 0.00 0.00 3.13
2384 2929 1.242076 CCTTGTGCAGTCCAGGAAAG 58.758 55.000 0.00 0.00 0.00 2.62
2385 2930 1.202806 CCTTGTGCAGTCCAGGAAAGA 60.203 52.381 0.00 0.00 0.00 2.52
2386 2931 2.575532 CTTGTGCAGTCCAGGAAAGAA 58.424 47.619 0.00 0.00 0.00 2.52
2387 2932 2.260844 TGTGCAGTCCAGGAAAGAAG 57.739 50.000 0.00 0.00 0.00 2.85
2388 2933 1.768275 TGTGCAGTCCAGGAAAGAAGA 59.232 47.619 0.00 0.00 0.00 2.87
2389 2934 2.373169 TGTGCAGTCCAGGAAAGAAGAT 59.627 45.455 0.00 0.00 0.00 2.40
2390 2935 3.181440 TGTGCAGTCCAGGAAAGAAGATT 60.181 43.478 0.00 0.00 0.00 2.40
2391 2936 3.438434 GTGCAGTCCAGGAAAGAAGATTC 59.562 47.826 0.00 0.00 0.00 2.52
2392 2937 3.072915 TGCAGTCCAGGAAAGAAGATTCA 59.927 43.478 0.00 0.00 0.00 2.57
2393 2938 3.688673 GCAGTCCAGGAAAGAAGATTCAG 59.311 47.826 0.00 0.00 0.00 3.02
2394 2939 4.564406 GCAGTCCAGGAAAGAAGATTCAGA 60.564 45.833 0.00 0.00 0.00 3.27
2395 2940 5.743117 CAGTCCAGGAAAGAAGATTCAGAT 58.257 41.667 0.00 0.00 0.00 2.90
2396 2941 5.816777 CAGTCCAGGAAAGAAGATTCAGATC 59.183 44.000 0.00 0.00 0.00 2.75
2397 2942 5.486775 AGTCCAGGAAAGAAGATTCAGATCA 59.513 40.000 0.00 0.00 34.60 2.92
2398 2943 6.158344 AGTCCAGGAAAGAAGATTCAGATCAT 59.842 38.462 0.00 0.00 34.60 2.45
2399 2944 6.827762 GTCCAGGAAAGAAGATTCAGATCATT 59.172 38.462 0.00 0.00 34.60 2.57
2400 2945 7.012232 GTCCAGGAAAGAAGATTCAGATCATTC 59.988 40.741 0.00 0.00 34.60 2.67
2401 2946 6.827251 CCAGGAAAGAAGATTCAGATCATTCA 59.173 38.462 0.00 0.00 34.60 2.57
2402 2947 7.201714 CCAGGAAAGAAGATTCAGATCATTCAC 60.202 40.741 0.00 0.00 34.60 3.18
2403 2948 7.553402 CAGGAAAGAAGATTCAGATCATTCACT 59.447 37.037 0.00 0.00 34.60 3.41
2404 2949 7.769970 AGGAAAGAAGATTCAGATCATTCACTC 59.230 37.037 0.00 0.00 34.60 3.51
2405 2950 7.769970 GGAAAGAAGATTCAGATCATTCACTCT 59.230 37.037 0.00 0.00 34.60 3.24
2406 2951 9.165035 GAAAGAAGATTCAGATCATTCACTCTT 57.835 33.333 0.00 0.00 34.60 2.85
2421 2966 9.003658 TCATTCACTCTTATTTTCTCTTCAACC 57.996 33.333 0.00 0.00 0.00 3.77
2422 2967 9.007901 CATTCACTCTTATTTTCTCTTCAACCT 57.992 33.333 0.00 0.00 0.00 3.50
2433 2978 8.925161 TTTTCTCTTCAACCTATTGTTTTGTG 57.075 30.769 0.00 0.00 37.11 3.33
2434 2979 7.873719 TTCTCTTCAACCTATTGTTTTGTGA 57.126 32.000 0.00 0.00 37.11 3.58
2435 2980 8.463930 TTCTCTTCAACCTATTGTTTTGTGAT 57.536 30.769 0.00 0.00 37.11 3.06
2436 2981 8.099364 TCTCTTCAACCTATTGTTTTGTGATC 57.901 34.615 0.00 0.00 37.11 2.92
2437 2982 6.898041 TCTTCAACCTATTGTTTTGTGATCG 58.102 36.000 0.00 0.00 37.11 3.69
2438 2983 6.708502 TCTTCAACCTATTGTTTTGTGATCGA 59.291 34.615 0.00 0.00 37.11 3.59
2439 2984 7.390440 TCTTCAACCTATTGTTTTGTGATCGAT 59.610 33.333 0.00 0.00 37.11 3.59
2440 2985 8.554835 TTCAACCTATTGTTTTGTGATCGATA 57.445 30.769 0.00 0.00 37.11 2.92
2441 2986 8.554835 TCAACCTATTGTTTTGTGATCGATAA 57.445 30.769 0.00 0.00 37.11 1.75
2442 2987 9.004717 TCAACCTATTGTTTTGTGATCGATAAA 57.995 29.630 0.00 0.00 37.11 1.40
2443 2988 9.619316 CAACCTATTGTTTTGTGATCGATAAAA 57.381 29.630 0.00 0.00 34.00 1.52
2444 2989 9.840427 AACCTATTGTTTTGTGATCGATAAAAG 57.160 29.630 0.00 0.00 31.47 2.27
2445 2990 9.226606 ACCTATTGTTTTGTGATCGATAAAAGA 57.773 29.630 0.00 0.00 0.00 2.52
2446 2991 9.490663 CCTATTGTTTTGTGATCGATAAAAGAC 57.509 33.333 0.00 0.00 0.00 3.01
2447 2992 9.490663 CTATTGTTTTGTGATCGATAAAAGACC 57.509 33.333 0.00 0.00 0.00 3.85
2448 2993 6.869315 TGTTTTGTGATCGATAAAAGACCA 57.131 33.333 0.00 0.00 0.00 4.02
2449 2994 7.447374 TGTTTTGTGATCGATAAAAGACCAT 57.553 32.000 0.00 0.00 0.00 3.55
2450 2995 7.304735 TGTTTTGTGATCGATAAAAGACCATG 58.695 34.615 0.00 0.00 0.00 3.66
2451 2996 5.484173 TTGTGATCGATAAAAGACCATGC 57.516 39.130 0.00 0.00 0.00 4.06
2452 2997 4.769688 TGTGATCGATAAAAGACCATGCT 58.230 39.130 0.00 0.00 0.00 3.79
2453 2998 4.571984 TGTGATCGATAAAAGACCATGCTG 59.428 41.667 0.00 0.00 0.00 4.41
2454 2999 3.561310 TGATCGATAAAAGACCATGCTGC 59.439 43.478 0.00 0.00 0.00 5.25
2455 3000 2.288666 TCGATAAAAGACCATGCTGCC 58.711 47.619 0.00 0.00 0.00 4.85
2456 3001 2.016318 CGATAAAAGACCATGCTGCCA 58.984 47.619 0.00 0.00 0.00 4.92
2457 3002 2.423185 CGATAAAAGACCATGCTGCCAA 59.577 45.455 0.00 0.00 0.00 4.52
2458 3003 3.119531 CGATAAAAGACCATGCTGCCAAA 60.120 43.478 0.00 0.00 0.00 3.28
2459 3004 4.617995 CGATAAAAGACCATGCTGCCAAAA 60.618 41.667 0.00 0.00 0.00 2.44
2460 3005 3.557228 AAAAGACCATGCTGCCAAAAA 57.443 38.095 0.00 0.00 0.00 1.94
2481 3026 6.834168 AAAAACAGAGGTGAAGAACTTTGA 57.166 33.333 0.00 0.00 0.00 2.69
2482 3027 7.410120 AAAAACAGAGGTGAAGAACTTTGAT 57.590 32.000 0.00 0.00 0.00 2.57
2483 3028 6.625873 AAACAGAGGTGAAGAACTTTGATC 57.374 37.500 0.00 0.00 0.00 2.92
2484 3029 5.559148 ACAGAGGTGAAGAACTTTGATCT 57.441 39.130 0.00 0.00 0.00 2.75
2485 3030 5.934781 ACAGAGGTGAAGAACTTTGATCTT 58.065 37.500 0.00 0.00 39.76 2.40
2486 3031 5.762218 ACAGAGGTGAAGAACTTTGATCTTG 59.238 40.000 0.00 0.00 37.26 3.02
2487 3032 5.994054 CAGAGGTGAAGAACTTTGATCTTGA 59.006 40.000 0.00 0.00 37.26 3.02
2488 3033 6.654161 CAGAGGTGAAGAACTTTGATCTTGAT 59.346 38.462 0.00 0.00 37.26 2.57
2489 3034 7.174599 CAGAGGTGAAGAACTTTGATCTTGATT 59.825 37.037 0.00 0.00 37.26 2.57
2490 3035 7.390162 AGAGGTGAAGAACTTTGATCTTGATTC 59.610 37.037 0.00 0.00 37.26 2.52
2491 3036 6.432472 AGGTGAAGAACTTTGATCTTGATTCC 59.568 38.462 0.00 0.00 37.26 3.01
2492 3037 6.207417 GGTGAAGAACTTTGATCTTGATTCCA 59.793 38.462 0.00 0.00 37.26 3.53
2493 3038 7.303998 GTGAAGAACTTTGATCTTGATTCCAG 58.696 38.462 0.00 0.00 37.26 3.86
2494 3039 7.173907 GTGAAGAACTTTGATCTTGATTCCAGA 59.826 37.037 0.00 0.00 37.26 3.86
2495 3040 7.389884 TGAAGAACTTTGATCTTGATTCCAGAG 59.610 37.037 0.00 0.00 37.26 3.35
2496 3041 5.647225 AGAACTTTGATCTTGATTCCAGAGC 59.353 40.000 0.00 0.00 0.00 4.09
2497 3042 5.176741 ACTTTGATCTTGATTCCAGAGCT 57.823 39.130 4.85 0.00 0.00 4.09
2498 3043 6.305272 ACTTTGATCTTGATTCCAGAGCTA 57.695 37.500 4.85 0.00 0.00 3.32
2499 3044 6.112058 ACTTTGATCTTGATTCCAGAGCTAC 58.888 40.000 4.85 0.00 0.00 3.58
2500 3045 5.682234 TTGATCTTGATTCCAGAGCTACA 57.318 39.130 4.85 0.00 0.00 2.74
2501 3046 5.016051 TGATCTTGATTCCAGAGCTACAC 57.984 43.478 4.85 0.00 0.00 2.90
2502 3047 3.510388 TCTTGATTCCAGAGCTACACG 57.490 47.619 0.00 0.00 0.00 4.49
2503 3048 1.929836 CTTGATTCCAGAGCTACACGC 59.070 52.381 0.00 0.00 39.57 5.34
2515 3060 3.602390 GCTACACGCTCTTGTTTTGAA 57.398 42.857 0.00 0.00 35.14 2.69
2516 3061 3.289076 GCTACACGCTCTTGTTTTGAAC 58.711 45.455 0.00 0.00 35.14 3.18
2517 3062 2.452006 ACACGCTCTTGTTTTGAACG 57.548 45.000 0.00 0.00 0.00 3.95
2518 3063 2.004017 ACACGCTCTTGTTTTGAACGA 58.996 42.857 0.00 0.00 0.00 3.85
2519 3064 2.612212 ACACGCTCTTGTTTTGAACGAT 59.388 40.909 0.00 0.00 0.00 3.73
2520 3065 3.064820 ACACGCTCTTGTTTTGAACGATT 59.935 39.130 0.00 0.00 0.00 3.34
2521 3066 4.035017 CACGCTCTTGTTTTGAACGATTT 58.965 39.130 0.00 0.00 0.00 2.17
2522 3067 4.499040 CACGCTCTTGTTTTGAACGATTTT 59.501 37.500 0.00 0.00 0.00 1.82
2523 3068 4.499040 ACGCTCTTGTTTTGAACGATTTTG 59.501 37.500 0.00 0.00 0.00 2.44
2524 3069 4.085619 CGCTCTTGTTTTGAACGATTTTGG 60.086 41.667 0.00 0.00 0.00 3.28
2525 3070 4.209080 GCTCTTGTTTTGAACGATTTTGGG 59.791 41.667 0.00 0.00 0.00 4.12
2526 3071 4.688021 TCTTGTTTTGAACGATTTTGGGG 58.312 39.130 0.00 0.00 0.00 4.96
2527 3072 3.460857 TGTTTTGAACGATTTTGGGGG 57.539 42.857 0.00 0.00 0.00 5.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
62 63 1.884235 AAAAAGACCTCTCCAGTGCG 58.116 50.000 0.00 0.00 0.00 5.34
104 105 7.094634 CCGTTCTCAATAATGGAAATGGGATAG 60.095 40.741 0.00 0.00 37.68 2.08
121 122 4.081862 AGACCGATGTATTTCCGTTCTCAA 60.082 41.667 0.00 0.00 0.00 3.02
153 154 1.825474 TCAGGTGACCTCTCGAATTCC 59.175 52.381 0.00 0.00 0.00 3.01
159 160 4.425099 ACCTCAGGTGACCTCTCG 57.575 61.111 0.00 0.00 32.98 4.04
203 204 4.022849 CACCAAGAAAAGGAAGACACATCC 60.023 45.833 0.00 0.00 37.22 3.51
206 207 3.287222 CCACCAAGAAAAGGAAGACACA 58.713 45.455 0.00 0.00 0.00 3.72
207 208 2.623416 CCCACCAAGAAAAGGAAGACAC 59.377 50.000 0.00 0.00 0.00 3.67
526 989 0.036732 CAGAGCCCAACAACTGCCTA 59.963 55.000 0.00 0.00 0.00 3.93
534 997 2.820178 TCTGTAGATCAGAGCCCAACA 58.180 47.619 0.00 0.00 46.77 3.33
670 1135 5.877564 AGCAGTTAATTTACTTGAGAGGCTC 59.122 40.000 6.34 6.34 0.00 4.70
675 1140 8.988934 CACAGTAAGCAGTTAATTTACTTGAGA 58.011 33.333 0.00 0.00 35.93 3.27
690 1155 2.001812 ATCTGTCGCACAGTAAGCAG 57.998 50.000 13.59 0.00 46.03 4.24
901 1405 1.534729 CTTTACAAGTGGGTGGAGGC 58.465 55.000 0.00 0.00 0.00 4.70
1011 1523 1.337071 GACTCGTGATCGGCTTGGATA 59.663 52.381 0.00 0.00 37.69 2.59
1030 1542 1.293179 CACCACTGTCATCTGCGGA 59.707 57.895 0.00 0.00 0.00 5.54
1500 2012 1.665679 ACGACATCGAATTGCACCATC 59.334 47.619 8.54 0.00 43.02 3.51
1549 2061 7.342581 GGTCTGGTACCTAAGTAACTACTACT 58.657 42.308 14.36 0.00 45.75 2.57
1568 2083 0.037303 ACAGGCTTGTGATGGTCTGG 59.963 55.000 0.00 0.00 39.22 3.86
1617 2133 2.141517 CACAGAAGAACTCACTGCAGG 58.858 52.381 19.93 7.28 35.38 4.85
1729 2247 2.482721 GCAAGAGCTACTTTGCCGTTTA 59.517 45.455 15.53 0.00 36.61 2.01
1730 2248 1.266989 GCAAGAGCTACTTTGCCGTTT 59.733 47.619 15.53 0.00 36.61 3.60
1731 2249 0.875059 GCAAGAGCTACTTTGCCGTT 59.125 50.000 15.53 0.00 36.61 4.44
1773 2295 1.077429 GCATCCTCCTCAACCACCC 60.077 63.158 0.00 0.00 0.00 4.61
1902 2431 4.051922 GCTTACGTATCTTGGAGTGGATG 58.948 47.826 0.00 0.00 0.00 3.51
1903 2432 3.704566 TGCTTACGTATCTTGGAGTGGAT 59.295 43.478 0.00 0.00 0.00 3.41
1906 2435 5.580691 TGATTTGCTTACGTATCTTGGAGTG 59.419 40.000 0.00 0.00 0.00 3.51
1907 2436 5.730550 TGATTTGCTTACGTATCTTGGAGT 58.269 37.500 0.00 0.00 0.00 3.85
1908 2437 6.042777 TCTGATTTGCTTACGTATCTTGGAG 58.957 40.000 0.00 0.00 0.00 3.86
1934 2463 2.203195 TGTGCTCGCTGTTGGCTT 60.203 55.556 0.00 0.00 39.13 4.35
1949 2478 1.381056 AGGATGCGAGGAGAGCTGT 60.381 57.895 0.00 0.00 35.28 4.40
1961 2490 0.396139 TCCATTTCAGGCCAGGATGC 60.396 55.000 5.01 0.00 31.97 3.91
1967 2496 0.749091 CTCGCATCCATTTCAGGCCA 60.749 55.000 5.01 0.00 0.00 5.36
1968 2497 1.450531 CCTCGCATCCATTTCAGGCC 61.451 60.000 0.00 0.00 0.00 5.19
1970 2499 1.878088 CATCCTCGCATCCATTTCAGG 59.122 52.381 0.00 0.00 0.00 3.86
1972 2501 1.490069 TCCATCCTCGCATCCATTTCA 59.510 47.619 0.00 0.00 0.00 2.69
1973 2502 2.260844 TCCATCCTCGCATCCATTTC 57.739 50.000 0.00 0.00 0.00 2.17
1974 2503 2.734755 TTCCATCCTCGCATCCATTT 57.265 45.000 0.00 0.00 0.00 2.32
1989 2534 1.628340 TCTTTCTGGCGATCCTTTCCA 59.372 47.619 0.00 0.00 0.00 3.53
2002 2547 1.163554 GCTCCAAGGCAGTCTTTCTG 58.836 55.000 0.00 0.00 46.12 3.02
2032 2577 2.280592 ACACGGCCGTCACCTTTC 60.281 61.111 31.80 0.00 0.00 2.62
2088 2633 8.539544 ACTTAACATTTTGGGAATCAAATAGGG 58.460 33.333 0.00 0.00 43.95 3.53
2113 2658 5.440610 ACCTGATTCCATCTGAATACCAAC 58.559 41.667 0.00 0.00 43.81 3.77
2122 2667 3.494048 GGTGCTCTACCTGATTCCATCTG 60.494 52.174 0.00 0.00 46.51 2.90
2163 2708 0.223513 CTTGTTTTTCGCGTTGCACG 59.776 50.000 5.77 4.61 45.88 5.34
2170 2715 4.436365 AAATTTGAGCTTGTTTTTCGCG 57.564 36.364 0.00 0.00 0.00 5.87
2172 2717 8.538856 TGTCAATAAATTTGAGCTTGTTTTTCG 58.461 29.630 0.00 0.00 0.00 3.46
2231 2776 7.490000 AGACATAGGGAGTACATTTTAACTCG 58.510 38.462 0.00 0.00 42.51 4.18
2238 2783 9.830186 ATGTATCTAGACATAGGGAGTACATTT 57.170 33.333 0.00 0.00 38.29 2.32
2239 2784 9.469097 GATGTATCTAGACATAGGGAGTACATT 57.531 37.037 9.89 0.00 40.18 2.71
2247 2792 6.208797 TCAAACGGATGTATCTAGACATAGGG 59.791 42.308 0.00 0.00 40.18 3.53
2265 2810 3.424433 GGAATTAGTTGACGCTCAAACGG 60.424 47.826 2.65 0.00 38.22 4.44
2273 2818 0.643820 CGTCCGGAATTAGTTGACGC 59.356 55.000 5.23 0.00 41.71 5.19
2301 2846 5.408604 CCTTGAACAATCTGTAAACTACGCT 59.591 40.000 0.00 0.00 0.00 5.07
2302 2847 5.178809 ACCTTGAACAATCTGTAAACTACGC 59.821 40.000 0.00 0.00 0.00 4.42
2303 2848 6.590357 CACCTTGAACAATCTGTAAACTACG 58.410 40.000 0.00 0.00 0.00 3.51
2304 2849 6.017440 TGCACCTTGAACAATCTGTAAACTAC 60.017 38.462 0.00 0.00 0.00 2.73
2305 2850 6.058833 TGCACCTTGAACAATCTGTAAACTA 58.941 36.000 0.00 0.00 0.00 2.24
2306 2851 4.887071 TGCACCTTGAACAATCTGTAAACT 59.113 37.500 0.00 0.00 0.00 2.66
2307 2852 5.181690 TGCACCTTGAACAATCTGTAAAC 57.818 39.130 0.00 0.00 0.00 2.01
2308 2853 5.048083 GGATGCACCTTGAACAATCTGTAAA 60.048 40.000 0.00 0.00 35.41 2.01
2309 2854 4.458989 GGATGCACCTTGAACAATCTGTAA 59.541 41.667 0.00 0.00 35.41 2.41
2310 2855 4.009675 GGATGCACCTTGAACAATCTGTA 58.990 43.478 0.00 0.00 35.41 2.74
2311 2856 2.821969 GGATGCACCTTGAACAATCTGT 59.178 45.455 0.00 0.00 35.41 3.41
2312 2857 2.159476 CGGATGCACCTTGAACAATCTG 60.159 50.000 0.00 0.00 36.31 2.90
2313 2858 2.086869 CGGATGCACCTTGAACAATCT 58.913 47.619 0.00 0.00 36.31 2.40
2314 2859 2.083774 TCGGATGCACCTTGAACAATC 58.916 47.619 0.00 0.00 36.31 2.67
2315 2860 1.812571 GTCGGATGCACCTTGAACAAT 59.187 47.619 0.00 0.00 36.31 2.71
2316 2861 1.234821 GTCGGATGCACCTTGAACAA 58.765 50.000 0.00 0.00 36.31 2.83
2317 2862 0.107643 TGTCGGATGCACCTTGAACA 59.892 50.000 0.00 0.00 36.31 3.18
2318 2863 0.798776 CTGTCGGATGCACCTTGAAC 59.201 55.000 0.00 0.00 36.31 3.18
2319 2864 0.955428 GCTGTCGGATGCACCTTGAA 60.955 55.000 0.00 0.00 36.31 2.69
2320 2865 1.375908 GCTGTCGGATGCACCTTGA 60.376 57.895 0.00 0.00 36.31 3.02
2321 2866 1.642037 CTGCTGTCGGATGCACCTTG 61.642 60.000 0.00 0.00 35.20 3.61
2322 2867 1.376424 CTGCTGTCGGATGCACCTT 60.376 57.895 0.00 0.00 35.20 3.50
2323 2868 2.267006 CTGCTGTCGGATGCACCT 59.733 61.111 0.00 0.00 35.20 4.00
2324 2869 2.803155 TTCCTGCTGTCGGATGCACC 62.803 60.000 0.00 0.00 35.20 5.01
2325 2870 0.745845 ATTCCTGCTGTCGGATGCAC 60.746 55.000 0.00 0.00 35.20 4.57
2326 2871 0.745486 CATTCCTGCTGTCGGATGCA 60.745 55.000 8.05 8.05 37.63 3.96
2327 2872 0.745845 ACATTCCTGCTGTCGGATGC 60.746 55.000 0.00 0.03 0.00 3.91
2328 2873 2.477825 CTACATTCCTGCTGTCGGATG 58.522 52.381 0.00 0.00 0.00 3.51
2329 2874 1.414181 CCTACATTCCTGCTGTCGGAT 59.586 52.381 0.00 0.00 32.63 4.18
2330 2875 0.824109 CCTACATTCCTGCTGTCGGA 59.176 55.000 0.00 0.00 32.63 4.55
2331 2876 0.824109 TCCTACATTCCTGCTGTCGG 59.176 55.000 0.00 0.00 32.27 4.79
2332 2877 2.477825 CATCCTACATTCCTGCTGTCG 58.522 52.381 0.00 0.00 0.00 4.35
2333 2878 2.158842 AGCATCCTACATTCCTGCTGTC 60.159 50.000 0.00 0.00 41.38 3.51
2334 2879 1.842562 AGCATCCTACATTCCTGCTGT 59.157 47.619 0.00 0.00 41.38 4.40
2335 2880 2.634815 AGCATCCTACATTCCTGCTG 57.365 50.000 0.00 0.00 41.38 4.41
2336 2881 1.842562 ACAGCATCCTACATTCCTGCT 59.157 47.619 0.00 0.00 43.60 4.24
2337 2882 2.338577 ACAGCATCCTACATTCCTGC 57.661 50.000 0.00 0.00 0.00 4.85
2338 2883 4.406648 TGTACAGCATCCTACATTCCTG 57.593 45.455 0.00 0.00 0.00 3.86
2339 2884 4.744867 GCATGTACAGCATCCTACATTCCT 60.745 45.833 0.33 0.00 35.19 3.36
2340 2885 3.499918 GCATGTACAGCATCCTACATTCC 59.500 47.826 0.33 0.00 35.19 3.01
2341 2886 3.499918 GGCATGTACAGCATCCTACATTC 59.500 47.826 15.90 0.00 35.19 2.67
2342 2887 3.117926 TGGCATGTACAGCATCCTACATT 60.118 43.478 15.90 0.00 35.19 2.71
2343 2888 2.439135 TGGCATGTACAGCATCCTACAT 59.561 45.455 15.90 0.00 35.19 2.29
2344 2889 1.836802 TGGCATGTACAGCATCCTACA 59.163 47.619 15.90 4.47 35.19 2.74
2345 2890 2.213499 GTGGCATGTACAGCATCCTAC 58.787 52.381 15.90 6.19 35.19 3.18
2346 2891 1.140852 GGTGGCATGTACAGCATCCTA 59.859 52.381 15.90 0.00 35.19 2.94
2347 2892 0.107017 GGTGGCATGTACAGCATCCT 60.107 55.000 15.90 0.00 35.19 3.24
2348 2893 0.107017 AGGTGGCATGTACAGCATCC 60.107 55.000 19.02 15.47 38.72 3.51
2349 2894 1.402968 CAAGGTGGCATGTACAGCATC 59.597 52.381 19.02 9.53 38.72 3.91
2350 2895 1.272092 ACAAGGTGGCATGTACAGCAT 60.272 47.619 19.02 8.49 38.72 3.79
2351 2896 0.110295 ACAAGGTGGCATGTACAGCA 59.890 50.000 19.02 3.69 38.72 4.41
2352 2897 0.523072 CACAAGGTGGCATGTACAGC 59.477 55.000 0.33 12.00 36.64 4.40
2353 2898 0.523072 GCACAAGGTGGCATGTACAG 59.477 55.000 0.33 0.00 33.64 2.74
2354 2899 0.179006 TGCACAAGGTGGCATGTACA 60.179 50.000 0.00 0.00 34.58 2.90
2355 2900 0.523072 CTGCACAAGGTGGCATGTAC 59.477 55.000 0.00 0.00 39.65 2.90
2356 2901 0.110295 ACTGCACAAGGTGGCATGTA 59.890 50.000 0.00 0.00 39.65 2.29
2357 2902 1.152694 ACTGCACAAGGTGGCATGT 60.153 52.632 0.00 0.00 39.65 3.21
2358 2903 1.582968 GACTGCACAAGGTGGCATG 59.417 57.895 0.00 0.00 39.65 4.06
2359 2904 1.604593 GGACTGCACAAGGTGGCAT 60.605 57.895 0.00 0.00 39.65 4.40
2360 2905 2.203337 GGACTGCACAAGGTGGCA 60.203 61.111 0.00 0.00 38.52 4.92
2361 2906 2.203337 TGGACTGCACAAGGTGGC 60.203 61.111 0.00 0.00 33.64 5.01
2362 2907 1.601759 CCTGGACTGCACAAGGTGG 60.602 63.158 0.00 0.00 33.64 4.61
2363 2908 0.179020 TTCCTGGACTGCACAAGGTG 60.179 55.000 0.00 0.00 36.51 4.00
2364 2909 0.550914 TTTCCTGGACTGCACAAGGT 59.449 50.000 0.00 0.00 0.00 3.50
2365 2910 1.202806 TCTTTCCTGGACTGCACAAGG 60.203 52.381 0.00 0.00 0.00 3.61
2366 2911 2.260844 TCTTTCCTGGACTGCACAAG 57.739 50.000 0.00 0.00 0.00 3.16
2367 2912 2.172505 TCTTCTTTCCTGGACTGCACAA 59.827 45.455 0.00 0.00 0.00 3.33
2368 2913 1.768275 TCTTCTTTCCTGGACTGCACA 59.232 47.619 0.00 0.00 0.00 4.57
2369 2914 2.550830 TCTTCTTTCCTGGACTGCAC 57.449 50.000 0.00 0.00 0.00 4.57
2370 2915 3.072915 TGAATCTTCTTTCCTGGACTGCA 59.927 43.478 0.00 0.00 0.00 4.41
2371 2916 3.679389 TGAATCTTCTTTCCTGGACTGC 58.321 45.455 0.00 0.00 0.00 4.40
2372 2917 5.157940 TCTGAATCTTCTTTCCTGGACTG 57.842 43.478 0.00 0.00 0.00 3.51
2373 2918 5.486775 TGATCTGAATCTTCTTTCCTGGACT 59.513 40.000 0.00 0.00 32.75 3.85
2374 2919 5.738909 TGATCTGAATCTTCTTTCCTGGAC 58.261 41.667 0.00 0.00 32.75 4.02
2375 2920 6.572182 ATGATCTGAATCTTCTTTCCTGGA 57.428 37.500 0.00 0.00 32.75 3.86
2376 2921 6.827251 TGAATGATCTGAATCTTCTTTCCTGG 59.173 38.462 0.00 0.00 32.75 4.45
2377 2922 7.553402 AGTGAATGATCTGAATCTTCTTTCCTG 59.447 37.037 0.00 0.00 32.75 3.86
2378 2923 7.631933 AGTGAATGATCTGAATCTTCTTTCCT 58.368 34.615 0.00 0.00 32.75 3.36
2379 2924 7.769970 AGAGTGAATGATCTGAATCTTCTTTCC 59.230 37.037 0.00 0.00 32.75 3.13
2380 2925 8.721019 AGAGTGAATGATCTGAATCTTCTTTC 57.279 34.615 0.00 0.00 32.75 2.62
2395 2940 9.003658 GGTTGAAGAGAAAATAAGAGTGAATGA 57.996 33.333 0.00 0.00 0.00 2.57
2396 2941 9.007901 AGGTTGAAGAGAAAATAAGAGTGAATG 57.992 33.333 0.00 0.00 0.00 2.67
2407 2952 9.533253 CACAAAACAATAGGTTGAAGAGAAAAT 57.467 29.630 0.00 0.00 40.35 1.82
2408 2953 8.744652 TCACAAAACAATAGGTTGAAGAGAAAA 58.255 29.630 0.00 0.00 40.35 2.29
2409 2954 8.287439 TCACAAAACAATAGGTTGAAGAGAAA 57.713 30.769 0.00 0.00 40.35 2.52
2410 2955 7.873719 TCACAAAACAATAGGTTGAAGAGAA 57.126 32.000 0.00 0.00 40.35 2.87
2411 2956 7.095229 CGATCACAAAACAATAGGTTGAAGAGA 60.095 37.037 0.00 0.00 40.35 3.10
2412 2957 7.017645 CGATCACAAAACAATAGGTTGAAGAG 58.982 38.462 0.00 0.00 40.35 2.85
2413 2958 6.708502 TCGATCACAAAACAATAGGTTGAAGA 59.291 34.615 0.00 0.00 40.35 2.87
2414 2959 6.898041 TCGATCACAAAACAATAGGTTGAAG 58.102 36.000 0.00 0.00 40.35 3.02
2415 2960 6.869315 TCGATCACAAAACAATAGGTTGAA 57.131 33.333 0.00 0.00 40.35 2.69
2416 2961 8.554835 TTATCGATCACAAAACAATAGGTTGA 57.445 30.769 0.00 0.00 40.35 3.18
2417 2962 9.619316 TTTTATCGATCACAAAACAATAGGTTG 57.381 29.630 0.00 0.00 40.35 3.77
2418 2963 9.840427 CTTTTATCGATCACAAAACAATAGGTT 57.160 29.630 0.00 0.00 42.98 3.50
2419 2964 9.226606 TCTTTTATCGATCACAAAACAATAGGT 57.773 29.630 0.00 0.00 0.00 3.08
2420 2965 9.490663 GTCTTTTATCGATCACAAAACAATAGG 57.509 33.333 0.00 0.00 0.00 2.57
2421 2966 9.490663 GGTCTTTTATCGATCACAAAACAATAG 57.509 33.333 0.00 0.00 0.00 1.73
2422 2967 9.004717 TGGTCTTTTATCGATCACAAAACAATA 57.995 29.630 0.00 0.00 0.00 1.90
2423 2968 7.881142 TGGTCTTTTATCGATCACAAAACAAT 58.119 30.769 0.00 0.00 0.00 2.71
2424 2969 7.265647 TGGTCTTTTATCGATCACAAAACAA 57.734 32.000 0.00 0.00 0.00 2.83
2425 2970 6.869315 TGGTCTTTTATCGATCACAAAACA 57.131 33.333 0.00 0.00 0.00 2.83
2426 2971 6.251376 GCATGGTCTTTTATCGATCACAAAAC 59.749 38.462 0.00 0.00 0.00 2.43
2427 2972 6.150976 AGCATGGTCTTTTATCGATCACAAAA 59.849 34.615 0.00 2.64 0.00 2.44
2428 2973 5.647658 AGCATGGTCTTTTATCGATCACAAA 59.352 36.000 0.00 0.00 0.00 2.83
2429 2974 5.065090 CAGCATGGTCTTTTATCGATCACAA 59.935 40.000 0.00 0.00 0.00 3.33
2430 2975 4.571984 CAGCATGGTCTTTTATCGATCACA 59.428 41.667 0.00 0.00 0.00 3.58
2431 2976 4.553547 GCAGCATGGTCTTTTATCGATCAC 60.554 45.833 0.00 0.00 35.86 3.06
2432 2977 3.561310 GCAGCATGGTCTTTTATCGATCA 59.439 43.478 0.00 0.00 35.86 2.92
2433 2978 3.058639 GGCAGCATGGTCTTTTATCGATC 60.059 47.826 0.00 0.00 35.86 3.69
2434 2979 2.880890 GGCAGCATGGTCTTTTATCGAT 59.119 45.455 2.16 2.16 35.86 3.59
2435 2980 2.288666 GGCAGCATGGTCTTTTATCGA 58.711 47.619 0.00 0.00 35.86 3.59
2436 2981 2.016318 TGGCAGCATGGTCTTTTATCG 58.984 47.619 0.00 0.00 35.86 2.92
2437 2982 4.454728 TTTGGCAGCATGGTCTTTTATC 57.545 40.909 0.00 0.00 35.86 1.75
2438 2983 4.888326 TTTTGGCAGCATGGTCTTTTAT 57.112 36.364 0.00 0.00 35.86 1.40
2439 2984 4.679373 TTTTTGGCAGCATGGTCTTTTA 57.321 36.364 0.00 0.00 35.86 1.52
2440 2985 3.557228 TTTTTGGCAGCATGGTCTTTT 57.443 38.095 0.00 0.00 35.86 2.27
2458 3003 6.834168 TCAAAGTTCTTCACCTCTGTTTTT 57.166 33.333 0.00 0.00 0.00 1.94
2459 3004 6.830838 AGATCAAAGTTCTTCACCTCTGTTTT 59.169 34.615 0.00 0.00 0.00 2.43
2460 3005 6.360618 AGATCAAAGTTCTTCACCTCTGTTT 58.639 36.000 0.00 0.00 0.00 2.83
2461 3006 5.934781 AGATCAAAGTTCTTCACCTCTGTT 58.065 37.500 0.00 0.00 0.00 3.16
2462 3007 5.559148 AGATCAAAGTTCTTCACCTCTGT 57.441 39.130 0.00 0.00 0.00 3.41
2463 3008 5.994054 TCAAGATCAAAGTTCTTCACCTCTG 59.006 40.000 0.00 0.00 31.11 3.35
2464 3009 6.179906 TCAAGATCAAAGTTCTTCACCTCT 57.820 37.500 0.00 0.00 31.11 3.69
2465 3010 7.361628 GGAATCAAGATCAAAGTTCTTCACCTC 60.362 40.741 0.00 0.00 31.11 3.85
2466 3011 6.432472 GGAATCAAGATCAAAGTTCTTCACCT 59.568 38.462 0.00 0.00 31.11 4.00
2467 3012 6.207417 TGGAATCAAGATCAAAGTTCTTCACC 59.793 38.462 0.00 0.00 31.11 4.02
2468 3013 7.173907 TCTGGAATCAAGATCAAAGTTCTTCAC 59.826 37.037 0.00 0.00 31.11 3.18
2469 3014 7.226441 TCTGGAATCAAGATCAAAGTTCTTCA 58.774 34.615 0.00 0.00 31.11 3.02
2470 3015 7.626028 GCTCTGGAATCAAGATCAAAGTTCTTC 60.626 40.741 0.00 0.00 31.11 2.87
2471 3016 6.150809 GCTCTGGAATCAAGATCAAAGTTCTT 59.849 38.462 0.00 0.00 33.75 2.52
2472 3017 5.647225 GCTCTGGAATCAAGATCAAAGTTCT 59.353 40.000 0.00 0.00 0.00 3.01
2473 3018 5.647225 AGCTCTGGAATCAAGATCAAAGTTC 59.353 40.000 0.00 0.00 0.00 3.01
2474 3019 5.568392 AGCTCTGGAATCAAGATCAAAGTT 58.432 37.500 0.00 0.00 0.00 2.66
2475 3020 5.176741 AGCTCTGGAATCAAGATCAAAGT 57.823 39.130 0.00 0.00 0.00 2.66
2476 3021 6.036953 GTGTAGCTCTGGAATCAAGATCAAAG 59.963 42.308 0.00 0.00 0.00 2.77
2477 3022 5.877012 GTGTAGCTCTGGAATCAAGATCAAA 59.123 40.000 0.00 0.00 0.00 2.69
2478 3023 5.423015 GTGTAGCTCTGGAATCAAGATCAA 58.577 41.667 0.00 0.00 0.00 2.57
2479 3024 4.440663 CGTGTAGCTCTGGAATCAAGATCA 60.441 45.833 0.00 0.00 0.00 2.92
2480 3025 4.047822 CGTGTAGCTCTGGAATCAAGATC 58.952 47.826 0.00 0.00 0.00 2.75
2481 3026 3.739519 GCGTGTAGCTCTGGAATCAAGAT 60.740 47.826 0.00 0.00 44.04 2.40
2482 3027 2.417379 GCGTGTAGCTCTGGAATCAAGA 60.417 50.000 0.00 0.00 44.04 3.02
2483 3028 1.929836 GCGTGTAGCTCTGGAATCAAG 59.070 52.381 0.00 0.00 44.04 3.02
2484 3029 2.010145 GCGTGTAGCTCTGGAATCAA 57.990 50.000 0.00 0.00 44.04 2.57
2485 3030 3.741029 GCGTGTAGCTCTGGAATCA 57.259 52.632 0.00 0.00 44.04 2.57
2496 3041 3.244345 TCGTTCAAAACAAGAGCGTGTAG 59.756 43.478 0.00 0.00 40.05 2.74
2497 3042 3.188492 TCGTTCAAAACAAGAGCGTGTA 58.812 40.909 0.00 0.00 40.05 2.90
2498 3043 2.004017 TCGTTCAAAACAAGAGCGTGT 58.996 42.857 0.00 0.00 40.05 4.49
2499 3044 2.730183 TCGTTCAAAACAAGAGCGTG 57.270 45.000 0.00 0.00 40.05 5.34
2500 3045 3.963383 AATCGTTCAAAACAAGAGCGT 57.037 38.095 0.00 0.00 40.05 5.07
2501 3046 4.085619 CCAAAATCGTTCAAAACAAGAGCG 60.086 41.667 0.00 0.00 40.41 5.03
2502 3047 4.209080 CCCAAAATCGTTCAAAACAAGAGC 59.791 41.667 0.00 0.00 0.00 4.09
2503 3048 4.744631 CCCCAAAATCGTTCAAAACAAGAG 59.255 41.667 0.00 0.00 0.00 2.85
2504 3049 4.442192 CCCCCAAAATCGTTCAAAACAAGA 60.442 41.667 0.00 0.00 0.00 3.02
2505 3050 3.807071 CCCCCAAAATCGTTCAAAACAAG 59.193 43.478 0.00 0.00 0.00 3.16
2506 3051 3.798202 CCCCCAAAATCGTTCAAAACAA 58.202 40.909 0.00 0.00 0.00 2.83
2507 3052 3.460857 CCCCCAAAATCGTTCAAAACA 57.539 42.857 0.00 0.00 0.00 2.83


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

AutoCloner maintained by Alex Coulton.