Multiple sequence alignment - TraesCS7A01G361200

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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 TraesCS7A01G361200 chr7A 100.000 2726 0 0 1 2726 535271836 535274561 0.000000e+00 5035.0
1 TraesCS7A01G361200 chr7A 80.531 1017 114 49 758 1720 534766041 534767027 0.000000e+00 704.0
2 TraesCS7A01G361200 chr7A 96.552 58 1 1 554 610 535272329 535272386 8.040000e-16 95.3
3 TraesCS7A01G361200 chr7A 96.552 58 1 1 494 551 535272389 535272445 8.040000e-16 95.3
4 TraesCS7A01G361200 chr7A 97.222 36 1 0 2388 2423 535274142 535274177 8.150000e-06 62.1
5 TraesCS7A01G361200 chr7A 97.222 36 1 0 2307 2342 535274223 535274258 8.150000e-06 62.1
6 TraesCS7A01G361200 chr7D 92.207 2528 94 29 3 2500 464362347 464359893 0.000000e+00 3482.0
7 TraesCS7A01G361200 chr7D 79.447 1158 141 63 782 1875 464948052 464946928 0.000000e+00 730.0
8 TraesCS7A01G361200 chr7D 92.754 207 13 2 2503 2707 544839170 544839376 5.710000e-77 298.0
9 TraesCS7A01G361200 chr7D 92.308 208 13 3 2503 2707 206720906 206721113 2.650000e-75 292.0
10 TraesCS7A01G361200 chr7D 96.667 60 1 1 494 553 464361803 464361745 6.210000e-17 99.0
11 TraesCS7A01G361200 chr7B 91.551 1586 52 21 941 2500 489781332 489779803 0.000000e+00 2111.0
12 TraesCS7A01G361200 chr7B 92.062 844 48 7 1 841 489782585 489781758 0.000000e+00 1170.0
13 TraesCS7A01G361200 chr3D 90.789 228 18 2 2502 2726 410678514 410678287 4.410000e-78 302.0
14 TraesCS7A01G361200 chr6B 92.788 208 11 3 2503 2707 172155490 172155696 5.710000e-77 298.0
15 TraesCS7A01G361200 chr6A 92.754 207 13 2 2503 2707 456789537 456789743 5.710000e-77 298.0
16 TraesCS7A01G361200 chr2A 91.827 208 14 2 2503 2707 669895260 669895053 1.240000e-73 287.0
17 TraesCS7A01G361200 chr3A 91.304 207 16 2 2503 2707 450694487 450694693 5.750000e-72 281.0
18 TraesCS7A01G361200 chr1D 91.304 207 16 2 2503 2707 228157361 228157155 5.750000e-72 281.0
19 TraesCS7A01G361200 chr1A 91.667 204 15 2 2506 2707 362243449 362243246 5.750000e-72 281.0
20 TraesCS7A01G361200 chr3B 89.116 147 12 3 2355 2500 49098353 49098496 2.160000e-41 180.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7A01G361200 chr7A 535271836 535274561 2725 False 1069.96 5035 97.5096 1 2726 5 chr7A.!!$F2 2725
1 TraesCS7A01G361200 chr7A 534766041 534767027 986 False 704.00 704 80.5310 758 1720 1 chr7A.!!$F1 962
2 TraesCS7A01G361200 chr7D 464359893 464362347 2454 True 1790.50 3482 94.4370 3 2500 2 chr7D.!!$R2 2497
3 TraesCS7A01G361200 chr7D 464946928 464948052 1124 True 730.00 730 79.4470 782 1875 1 chr7D.!!$R1 1093
4 TraesCS7A01G361200 chr7B 489779803 489782585 2782 True 1640.50 2111 91.8065 1 2500 2 chr7B.!!$R1 2499

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
364 367 0.979665 CTGCCCATCCATCCGTCTAT 59.02 55.0 0.0 0.0 0.0 1.98 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2237 2641 0.182299 TGGGCACGCCATCAATGATA 59.818 50.0 10.83 0.0 37.98 2.15 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
223 224 8.417176 GCAACAGTATACAACTTTTCATTTTCG 58.583 33.333 5.50 0.00 35.76 3.46
270 271 2.093181 TCCATCATTTCCTACACCGTGG 60.093 50.000 3.03 0.00 0.00 4.94
351 354 2.426738 CTCACAACAAAAGTTCTGCCCA 59.573 45.455 0.00 0.00 0.00 5.36
364 367 0.979665 CTGCCCATCCATCCGTCTAT 59.020 55.000 0.00 0.00 0.00 1.98
369 372 1.276421 CCATCCATCCGTCTATCCACC 59.724 57.143 0.00 0.00 0.00 4.61
400 405 3.356267 GCACCAGCATGCACGTGA 61.356 61.111 30.40 4.80 45.39 4.35
401 406 2.693762 GCACCAGCATGCACGTGAT 61.694 57.895 30.40 7.22 45.39 3.06
610 615 1.377366 TTTTTGCGTCCGTCCAAGCA 61.377 50.000 0.00 0.00 37.89 3.91
632 637 3.181443 ACCGAAAGAACACTTCCTGGATT 60.181 43.478 0.00 0.00 0.00 3.01
808 814 3.635373 AGATGGGAACTGCAATGCTTATG 59.365 43.478 6.82 0.00 0.00 1.90
821 827 6.039717 TGCAATGCTTATGATAAAACCCTCTC 59.960 38.462 6.82 0.00 0.00 3.20
847 860 7.532682 TTTTTCAGCCAAAAGAAATACACAC 57.467 32.000 0.00 0.00 35.34 3.82
850 863 4.642437 TCAGCCAAAAGAAATACACACACA 59.358 37.500 0.00 0.00 0.00 3.72
851 864 4.739716 CAGCCAAAAGAAATACACACACAC 59.260 41.667 0.00 0.00 0.00 3.82
852 865 4.400884 AGCCAAAAGAAATACACACACACA 59.599 37.500 0.00 0.00 0.00 3.72
853 866 5.105554 AGCCAAAAGAAATACACACACACAA 60.106 36.000 0.00 0.00 0.00 3.33
854 867 5.578727 GCCAAAAGAAATACACACACACAAA 59.421 36.000 0.00 0.00 0.00 2.83
855 868 6.091441 GCCAAAAGAAATACACACACACAAAA 59.909 34.615 0.00 0.00 0.00 2.44
856 869 7.360438 GCCAAAAGAAATACACACACACAAAAA 60.360 33.333 0.00 0.00 0.00 1.94
1072 1416 2.440147 CCCCATGGGTGCTGTTCA 59.560 61.111 29.33 0.00 38.25 3.18
1383 1760 4.479993 AGCATGTCTGAGGCGGCC 62.480 66.667 12.11 12.11 36.12 6.13
1483 1860 1.550524 CCAAGAAGGACATCGAGGTGA 59.449 52.381 7.79 0.00 41.22 4.02
1681 2058 3.680620 TTCAGGCGCTCCCGGAATG 62.681 63.158 7.64 0.00 41.92 2.67
1783 2170 3.501458 CTTCCCGCGCTAGTAGCCC 62.501 68.421 16.51 6.66 38.18 5.19
1857 2260 0.608856 AAATGACATGGTGGCGAGCA 60.609 50.000 2.25 2.25 0.00 4.26
1972 2375 2.170397 TCTTCTGCACCTTTCTGTCACA 59.830 45.455 0.00 0.00 0.00 3.58
1973 2376 2.245159 TCTGCACCTTTCTGTCACAG 57.755 50.000 0.00 0.00 0.00 3.66
1974 2377 1.486310 TCTGCACCTTTCTGTCACAGT 59.514 47.619 4.28 0.00 32.61 3.55
1975 2378 1.600957 CTGCACCTTTCTGTCACAGTG 59.399 52.381 4.28 0.00 32.61 3.66
1976 2379 1.065491 TGCACCTTTCTGTCACAGTGT 60.065 47.619 4.28 0.00 32.61 3.55
1978 2381 2.905075 CACCTTTCTGTCACAGTGTCA 58.095 47.619 4.28 0.00 32.61 3.58
1979 2382 2.609459 CACCTTTCTGTCACAGTGTCAC 59.391 50.000 4.28 0.00 32.61 3.67
1980 2383 2.213499 CCTTTCTGTCACAGTGTCACC 58.787 52.381 4.28 0.00 32.61 4.02
1981 2384 2.158900 CCTTTCTGTCACAGTGTCACCT 60.159 50.000 4.28 0.00 32.61 4.00
1982 2385 3.535561 CTTTCTGTCACAGTGTCACCTT 58.464 45.455 4.28 0.00 32.61 3.50
1983 2386 3.627395 TTCTGTCACAGTGTCACCTTT 57.373 42.857 4.28 0.00 32.61 3.11
1984 2387 3.627395 TCTGTCACAGTGTCACCTTTT 57.373 42.857 4.28 0.00 32.61 2.27
1985 2388 3.270027 TCTGTCACAGTGTCACCTTTTG 58.730 45.455 4.28 0.00 32.61 2.44
1986 2389 3.009723 CTGTCACAGTGTCACCTTTTGT 58.990 45.455 0.00 0.00 0.00 2.83
1987 2390 3.417101 TGTCACAGTGTCACCTTTTGTT 58.583 40.909 0.00 0.00 0.00 2.83
1988 2391 3.438781 TGTCACAGTGTCACCTTTTGTTC 59.561 43.478 0.00 0.00 0.00 3.18
1989 2392 3.689649 GTCACAGTGTCACCTTTTGTTCT 59.310 43.478 0.00 0.00 0.00 3.01
1990 2393 3.689161 TCACAGTGTCACCTTTTGTTCTG 59.311 43.478 0.00 0.00 0.00 3.02
1991 2394 2.423538 ACAGTGTCACCTTTTGTTCTGC 59.576 45.455 0.00 0.00 0.00 4.26
1992 2395 2.423185 CAGTGTCACCTTTTGTTCTGCA 59.577 45.455 0.00 0.00 0.00 4.41
1993 2396 2.423538 AGTGTCACCTTTTGTTCTGCAC 59.576 45.455 0.00 0.00 0.00 4.57
1994 2397 2.163412 GTGTCACCTTTTGTTCTGCACA 59.837 45.455 0.00 0.00 0.00 4.57
1995 2398 3.023119 TGTCACCTTTTGTTCTGCACAT 58.977 40.909 0.00 0.00 34.43 3.21
1996 2399 3.446873 TGTCACCTTTTGTTCTGCACATT 59.553 39.130 0.00 0.00 34.43 2.71
2002 2405 2.957402 TTGTTCTGCACATTCCTCCT 57.043 45.000 0.00 0.00 34.43 3.69
2016 2419 6.918022 CACATTCCTCCTAACAAAAACAGTTC 59.082 38.462 0.00 0.00 0.00 3.01
2177 2580 4.022589 CCACTGTTTCAGTCATTTGCTCAT 60.023 41.667 0.00 0.00 43.43 2.90
2220 2623 2.537143 ACAGGGGTAGGTAGTTCAGTG 58.463 52.381 0.00 0.00 0.00 3.66
2237 2641 7.390027 AGTTCAGTGCTAATTCAGTTCACTAT 58.610 34.615 0.00 0.00 36.37 2.12
2251 2655 5.698089 CAGTTCACTATATCATTGATGGCGT 59.302 40.000 9.46 0.83 0.00 5.68
2311 2725 9.180678 GTACAAATACAAGACAAATTGAGTTGG 57.819 33.333 0.00 0.00 34.20 3.77
2312 2726 6.701400 ACAAATACAAGACAAATTGAGTTGGC 59.299 34.615 0.00 0.00 36.72 4.52
2313 2727 3.354089 ACAAGACAAATTGAGTTGGCG 57.646 42.857 0.00 0.00 41.74 5.69
2316 2730 2.297701 AGACAAATTGAGTTGGCGTGT 58.702 42.857 0.00 0.00 41.74 4.49
2317 2731 3.472652 AGACAAATTGAGTTGGCGTGTA 58.527 40.909 0.00 0.00 41.74 2.90
2318 2732 3.880490 AGACAAATTGAGTTGGCGTGTAA 59.120 39.130 0.00 0.00 41.74 2.41
2319 2733 3.959943 ACAAATTGAGTTGGCGTGTAAC 58.040 40.909 0.00 0.00 32.50 2.50
2320 2734 3.630312 ACAAATTGAGTTGGCGTGTAACT 59.370 39.130 0.00 0.00 40.84 2.24
2321 2735 3.896648 AATTGAGTTGGCGTGTAACTG 57.103 42.857 5.95 0.00 38.42 3.16
2322 2736 0.941542 TTGAGTTGGCGTGTAACTGC 59.058 50.000 5.95 0.00 38.42 4.40
2323 2737 0.179070 TGAGTTGGCGTGTAACTGCA 60.179 50.000 5.95 0.00 38.42 4.41
2324 2738 1.156736 GAGTTGGCGTGTAACTGCAT 58.843 50.000 5.95 0.00 38.42 3.96
2325 2739 2.289133 TGAGTTGGCGTGTAACTGCATA 60.289 45.455 5.95 0.00 38.42 3.14
2326 2740 2.739913 GAGTTGGCGTGTAACTGCATAA 59.260 45.455 5.95 0.00 38.42 1.90
2327 2741 3.142951 AGTTGGCGTGTAACTGCATAAA 58.857 40.909 0.00 0.00 37.03 1.40
2328 2742 3.756434 AGTTGGCGTGTAACTGCATAAAT 59.244 39.130 0.00 0.00 37.03 1.40
2329 2743 3.755965 TGGCGTGTAACTGCATAAATG 57.244 42.857 0.00 0.00 37.93 2.32
2330 2744 2.421775 TGGCGTGTAACTGCATAAATGG 59.578 45.455 0.00 0.00 37.93 3.16
2331 2745 2.680841 GGCGTGTAACTGCATAAATGGA 59.319 45.455 0.00 0.00 37.93 3.41
2332 2746 3.486875 GGCGTGTAACTGCATAAATGGAC 60.487 47.826 0.00 0.00 37.93 4.02
2333 2747 3.126171 GCGTGTAACTGCATAAATGGACA 59.874 43.478 0.00 0.00 36.60 4.02
2334 2748 4.647964 CGTGTAACTGCATAAATGGACAC 58.352 43.478 0.00 0.00 31.75 3.67
2335 2749 4.391830 CGTGTAACTGCATAAATGGACACT 59.608 41.667 0.00 0.00 31.75 3.55
2336 2750 5.631026 GTGTAACTGCATAAATGGACACTG 58.369 41.667 0.00 0.00 0.00 3.66
2337 2751 3.855689 AACTGCATAAATGGACACTGC 57.144 42.857 0.00 0.00 0.00 4.40
2338 2752 2.794103 ACTGCATAAATGGACACTGCA 58.206 42.857 0.00 0.00 40.29 4.41
2391 2805 9.621629 TCAAAATTCTAGTCTTGGTCAAAGTTA 57.378 29.630 0.00 0.00 37.18 2.24
2394 2808 4.806330 TCTAGTCTTGGTCAAAGTTAGCG 58.194 43.478 0.00 0.00 37.18 4.26
2410 2824 6.106877 AGTTAGCGTGTAACTGCATAAATG 57.893 37.500 10.45 0.00 38.49 2.32
2439 2853 3.853671 GCATATTCGTGCAAGAACAAAGG 59.146 43.478 17.44 8.95 44.43 3.11
2508 2924 2.228925 TGACATGTCATGTGTGTTGGG 58.771 47.619 24.56 0.00 45.03 4.12
2509 2925 1.541147 GACATGTCATGTGTGTTGGGG 59.459 52.381 23.08 0.00 45.03 4.96
2510 2926 1.144708 ACATGTCATGTGTGTTGGGGA 59.855 47.619 17.74 0.00 43.01 4.81
2511 2927 2.237643 CATGTCATGTGTGTTGGGGAA 58.762 47.619 4.53 0.00 0.00 3.97
2512 2928 1.686355 TGTCATGTGTGTTGGGGAAC 58.314 50.000 0.00 0.00 0.00 3.62
2513 2929 0.591170 GTCATGTGTGTTGGGGAACG 59.409 55.000 0.00 0.00 0.00 3.95
2514 2930 0.470341 TCATGTGTGTTGGGGAACGA 59.530 50.000 0.00 0.00 0.00 3.85
2515 2931 1.134068 TCATGTGTGTTGGGGAACGAA 60.134 47.619 0.00 0.00 0.00 3.85
2516 2932 1.266718 CATGTGTGTTGGGGAACGAAG 59.733 52.381 0.00 0.00 0.00 3.79
2517 2933 1.098712 TGTGTGTTGGGGAACGAAGC 61.099 55.000 0.00 0.00 0.00 3.86
2518 2934 1.098712 GTGTGTTGGGGAACGAAGCA 61.099 55.000 0.00 0.00 0.00 3.91
2519 2935 0.179004 TGTGTTGGGGAACGAAGCAT 60.179 50.000 0.00 0.00 0.00 3.79
2520 2936 0.240945 GTGTTGGGGAACGAAGCATG 59.759 55.000 0.00 0.00 0.00 4.06
2521 2937 1.212751 GTTGGGGAACGAAGCATGC 59.787 57.895 10.51 10.51 0.00 4.06
2522 2938 1.228398 TTGGGGAACGAAGCATGCA 60.228 52.632 21.98 0.00 0.00 3.96
2523 2939 0.825425 TTGGGGAACGAAGCATGCAA 60.825 50.000 21.98 0.00 0.00 4.08
2524 2940 0.611618 TGGGGAACGAAGCATGCAAT 60.612 50.000 21.98 8.26 0.00 3.56
2525 2941 0.532115 GGGGAACGAAGCATGCAATT 59.468 50.000 21.98 6.12 0.00 2.32
2526 2942 1.066929 GGGGAACGAAGCATGCAATTT 60.067 47.619 21.98 5.25 0.00 1.82
2527 2943 2.262211 GGGAACGAAGCATGCAATTTC 58.738 47.619 21.98 13.92 0.00 2.17
2528 2944 2.352617 GGGAACGAAGCATGCAATTTCA 60.353 45.455 21.98 0.00 0.00 2.69
2529 2945 3.316283 GGAACGAAGCATGCAATTTCAA 58.684 40.909 21.98 0.00 0.00 2.69
2530 2946 3.740321 GGAACGAAGCATGCAATTTCAAA 59.260 39.130 21.98 0.00 0.00 2.69
2531 2947 4.210955 GGAACGAAGCATGCAATTTCAAAA 59.789 37.500 21.98 0.00 0.00 2.44
2532 2948 5.106987 GGAACGAAGCATGCAATTTCAAAAT 60.107 36.000 21.98 1.61 0.00 1.82
2533 2949 5.927954 ACGAAGCATGCAATTTCAAAATT 57.072 30.435 21.98 0.16 39.07 1.82
2534 2950 6.303021 ACGAAGCATGCAATTTCAAAATTT 57.697 29.167 21.98 0.00 36.52 1.82
2535 2951 6.365050 ACGAAGCATGCAATTTCAAAATTTC 58.635 32.000 21.98 8.98 36.52 2.17
2536 2952 5.791480 CGAAGCATGCAATTTCAAAATTTCC 59.209 36.000 21.98 0.00 36.52 3.13
2537 2953 6.566187 CGAAGCATGCAATTTCAAAATTTCCA 60.566 34.615 21.98 0.71 36.52 3.53
2538 2954 6.636562 AGCATGCAATTTCAAAATTTCCAA 57.363 29.167 21.98 0.00 36.52 3.53
2539 2955 6.440436 AGCATGCAATTTCAAAATTTCCAAC 58.560 32.000 21.98 0.00 36.52 3.77
2540 2956 5.340138 GCATGCAATTTCAAAATTTCCAACG 59.660 36.000 14.21 0.00 36.52 4.10
2541 2957 4.842029 TGCAATTTCAAAATTTCCAACGC 58.158 34.783 0.00 0.00 36.52 4.84
2542 2958 4.574013 TGCAATTTCAAAATTTCCAACGCT 59.426 33.333 0.00 0.00 36.52 5.07
2543 2959 5.139482 GCAATTTCAAAATTTCCAACGCTC 58.861 37.500 0.00 0.00 36.52 5.03
2544 2960 5.277250 GCAATTTCAAAATTTCCAACGCTCA 60.277 36.000 0.00 0.00 36.52 4.26
2545 2961 5.905480 ATTTCAAAATTTCCAACGCTCAC 57.095 34.783 0.00 0.00 0.00 3.51
2546 2962 5.051106 AATTTCAAAATTTCCAACGCTCACG 60.051 36.000 0.00 0.00 39.30 4.35
2547 2963 1.451651 CAAAATTTCCAACGCTCACGC 59.548 47.619 0.00 0.00 45.53 5.34
2548 2964 0.665835 AAATTTCCAACGCTCACGCA 59.334 45.000 0.00 0.00 45.53 5.24
2549 2965 0.665835 AATTTCCAACGCTCACGCAA 59.334 45.000 0.00 0.00 45.53 4.85
2550 2966 0.238289 ATTTCCAACGCTCACGCAAG 59.762 50.000 0.00 0.00 45.53 4.01
2551 2967 0.812014 TTTCCAACGCTCACGCAAGA 60.812 50.000 0.00 0.00 45.53 3.02
2552 2968 0.602638 TTCCAACGCTCACGCAAGAT 60.603 50.000 0.00 0.00 45.53 2.40
2553 2969 1.014044 TCCAACGCTCACGCAAGATC 61.014 55.000 0.00 0.00 45.53 2.75
2554 2970 1.016130 CCAACGCTCACGCAAGATCT 61.016 55.000 0.00 0.00 45.53 2.75
2555 2971 1.629013 CAACGCTCACGCAAGATCTA 58.371 50.000 0.00 0.00 45.53 1.98
2556 2972 2.196749 CAACGCTCACGCAAGATCTAT 58.803 47.619 0.00 0.00 45.53 1.98
2557 2973 2.126914 ACGCTCACGCAAGATCTATC 57.873 50.000 0.00 0.00 45.53 2.08
2558 2974 1.678627 ACGCTCACGCAAGATCTATCT 59.321 47.619 0.00 0.00 45.53 1.98
2559 2975 2.879026 ACGCTCACGCAAGATCTATCTA 59.121 45.455 0.00 0.00 45.53 1.98
2560 2976 3.058570 ACGCTCACGCAAGATCTATCTAG 60.059 47.826 0.00 0.00 45.53 2.43
2561 2977 3.187432 CGCTCACGCAAGATCTATCTAGA 59.813 47.826 0.00 0.00 43.62 2.43
2562 2978 4.319839 CGCTCACGCAAGATCTATCTAGAA 60.320 45.833 0.00 0.00 43.62 2.10
2563 2979 5.153513 GCTCACGCAAGATCTATCTAGAAG 58.846 45.833 0.00 0.00 43.62 2.85
2564 2980 5.049060 GCTCACGCAAGATCTATCTAGAAGA 60.049 44.000 0.00 1.80 43.62 2.87
2565 2981 6.349280 GCTCACGCAAGATCTATCTAGAAGAT 60.349 42.308 13.81 13.81 38.77 2.40
2566 2982 6.907741 TCACGCAAGATCTATCTAGAAGATG 58.092 40.000 17.03 9.37 36.70 2.90
2567 2983 6.488344 TCACGCAAGATCTATCTAGAAGATGT 59.512 38.462 17.03 12.51 36.70 3.06
2568 2984 7.661847 TCACGCAAGATCTATCTAGAAGATGTA 59.338 37.037 17.03 0.00 36.70 2.29
2569 2985 8.458052 CACGCAAGATCTATCTAGAAGATGTAT 58.542 37.037 17.03 5.65 36.70 2.29
2570 2986 9.674068 ACGCAAGATCTATCTAGAAGATGTATA 57.326 33.333 17.03 0.00 36.70 1.47
2572 2988 9.950680 GCAAGATCTATCTAGAAGATGTATAGC 57.049 37.037 17.03 14.33 35.37 2.97
2576 2992 9.929722 GATCTATCTAGAAGATGTATAGCAACG 57.070 37.037 17.03 0.00 35.37 4.10
2577 2993 9.674068 ATCTATCTAGAAGATGTATAGCAACGA 57.326 33.333 13.39 0.00 35.37 3.85
2578 2994 9.157104 TCTATCTAGAAGATGTATAGCAACGAG 57.843 37.037 0.00 0.00 35.37 4.18
2579 2995 7.987750 ATCTAGAAGATGTATAGCAACGAGA 57.012 36.000 0.00 0.00 32.80 4.04
2580 2996 7.803279 TCTAGAAGATGTATAGCAACGAGAA 57.197 36.000 0.00 0.00 0.00 2.87
2581 2997 7.866729 TCTAGAAGATGTATAGCAACGAGAAG 58.133 38.462 0.00 0.00 0.00 2.85
2582 2998 5.837437 AGAAGATGTATAGCAACGAGAAGG 58.163 41.667 0.00 0.00 0.00 3.46
2583 2999 4.592485 AGATGTATAGCAACGAGAAGGG 57.408 45.455 0.00 0.00 0.00 3.95
2584 3000 4.215908 AGATGTATAGCAACGAGAAGGGA 58.784 43.478 0.00 0.00 0.00 4.20
2585 3001 4.279671 AGATGTATAGCAACGAGAAGGGAG 59.720 45.833 0.00 0.00 0.00 4.30
2586 3002 3.628008 TGTATAGCAACGAGAAGGGAGA 58.372 45.455 0.00 0.00 0.00 3.71
2587 3003 3.632604 TGTATAGCAACGAGAAGGGAGAG 59.367 47.826 0.00 0.00 0.00 3.20
2588 3004 0.818296 TAGCAACGAGAAGGGAGAGC 59.182 55.000 0.00 0.00 0.00 4.09
2589 3005 1.188219 AGCAACGAGAAGGGAGAGCA 61.188 55.000 0.00 0.00 0.00 4.26
2590 3006 0.107945 GCAACGAGAAGGGAGAGCAT 60.108 55.000 0.00 0.00 0.00 3.79
2591 3007 1.933247 CAACGAGAAGGGAGAGCATC 58.067 55.000 0.00 0.00 0.00 3.91
2605 3021 3.845781 GAGCATCTCCATACCCTTGAA 57.154 47.619 0.00 0.00 0.00 2.69
2606 3022 3.737850 GAGCATCTCCATACCCTTGAAG 58.262 50.000 0.00 0.00 0.00 3.02
2607 3023 3.387962 AGCATCTCCATACCCTTGAAGA 58.612 45.455 0.00 0.00 0.00 2.87
2608 3024 3.979347 AGCATCTCCATACCCTTGAAGAT 59.021 43.478 0.00 0.00 0.00 2.40
2609 3025 4.041444 AGCATCTCCATACCCTTGAAGATC 59.959 45.833 0.00 0.00 0.00 2.75
2610 3026 4.564041 CATCTCCATACCCTTGAAGATCG 58.436 47.826 0.00 0.00 0.00 3.69
2611 3027 2.365617 TCTCCATACCCTTGAAGATCGC 59.634 50.000 0.00 0.00 0.00 4.58
2612 3028 2.103094 CTCCATACCCTTGAAGATCGCA 59.897 50.000 0.00 0.00 0.00 5.10
2613 3029 2.503765 TCCATACCCTTGAAGATCGCAA 59.496 45.455 0.00 4.39 0.00 4.85
2614 3030 3.054728 TCCATACCCTTGAAGATCGCAAA 60.055 43.478 0.00 0.00 0.00 3.68
2615 3031 3.313526 CCATACCCTTGAAGATCGCAAAG 59.686 47.826 0.00 2.44 0.00 2.77
2616 3032 1.168714 ACCCTTGAAGATCGCAAAGC 58.831 50.000 0.00 0.00 0.00 3.51
2629 3045 1.891178 GCAAAGCGGAACCGTTTATC 58.109 50.000 14.77 7.02 41.66 1.75
2630 3046 1.198178 GCAAAGCGGAACCGTTTATCA 59.802 47.619 14.77 0.00 41.66 2.15
2631 3047 2.350964 GCAAAGCGGAACCGTTTATCAA 60.351 45.455 14.77 0.00 41.66 2.57
2632 3048 3.231160 CAAAGCGGAACCGTTTATCAAC 58.769 45.455 14.77 0.00 41.66 3.18
2646 3062 3.898380 TCAACGCGGTTGATGTACT 57.102 47.368 12.47 0.00 45.88 2.73
2647 3063 1.705256 TCAACGCGGTTGATGTACTC 58.295 50.000 12.47 0.00 45.88 2.59
2648 3064 0.365523 CAACGCGGTTGATGTACTCG 59.634 55.000 12.47 0.00 45.28 4.18
2649 3065 0.038892 AACGCGGTTGATGTACTCGT 60.039 50.000 12.47 0.00 0.00 4.18
2650 3066 0.804364 ACGCGGTTGATGTACTCGTA 59.196 50.000 12.47 0.00 0.00 3.43
2651 3067 1.186030 CGCGGTTGATGTACTCGTAC 58.814 55.000 0.00 0.35 36.63 3.67
2660 3076 2.975410 TGTACTCGTACACCTTCACG 57.025 50.000 5.84 0.00 40.77 4.35
2661 3077 2.493035 TGTACTCGTACACCTTCACGA 58.507 47.619 5.84 0.00 44.32 4.35
2662 3078 3.076621 TGTACTCGTACACCTTCACGAT 58.923 45.455 5.84 0.00 45.28 3.73
2663 3079 2.915738 ACTCGTACACCTTCACGATC 57.084 50.000 0.00 0.00 45.28 3.69
2664 3080 1.471684 ACTCGTACACCTTCACGATCC 59.528 52.381 0.00 0.00 45.28 3.36
2665 3081 1.471287 CTCGTACACCTTCACGATCCA 59.529 52.381 0.00 0.00 45.28 3.41
2666 3082 2.097036 TCGTACACCTTCACGATCCAT 58.903 47.619 0.00 0.00 41.89 3.41
2667 3083 2.098607 TCGTACACCTTCACGATCCATC 59.901 50.000 0.00 0.00 41.89 3.51
2668 3084 2.798499 CGTACACCTTCACGATCCATCC 60.798 54.545 0.00 0.00 40.56 3.51
2669 3085 0.541863 ACACCTTCACGATCCATCCC 59.458 55.000 0.00 0.00 0.00 3.85
2670 3086 0.530650 CACCTTCACGATCCATCCCG 60.531 60.000 0.00 0.00 0.00 5.14
2671 3087 0.686441 ACCTTCACGATCCATCCCGA 60.686 55.000 0.00 0.00 0.00 5.14
2672 3088 0.681733 CCTTCACGATCCATCCCGAT 59.318 55.000 0.00 0.00 0.00 4.18
2673 3089 1.337260 CCTTCACGATCCATCCCGATC 60.337 57.143 0.00 0.00 36.16 3.69
2674 3090 1.341209 CTTCACGATCCATCCCGATCA 59.659 52.381 0.00 0.00 38.91 2.92
2675 3091 1.408969 TCACGATCCATCCCGATCAA 58.591 50.000 0.00 0.00 38.91 2.57
2676 3092 1.341209 TCACGATCCATCCCGATCAAG 59.659 52.381 0.00 0.00 38.91 3.02
2677 3093 1.069204 CACGATCCATCCCGATCAAGT 59.931 52.381 0.00 0.00 38.91 3.16
2678 3094 2.296190 CACGATCCATCCCGATCAAGTA 59.704 50.000 0.00 0.00 38.91 2.24
2679 3095 2.296471 ACGATCCATCCCGATCAAGTAC 59.704 50.000 0.00 0.00 38.91 2.73
2680 3096 2.352814 CGATCCATCCCGATCAAGTACC 60.353 54.545 0.00 0.00 38.91 3.34
2681 3097 2.168458 TCCATCCCGATCAAGTACCA 57.832 50.000 0.00 0.00 0.00 3.25
2682 3098 2.473070 TCCATCCCGATCAAGTACCAA 58.527 47.619 0.00 0.00 0.00 3.67
2683 3099 2.841266 TCCATCCCGATCAAGTACCAAA 59.159 45.455 0.00 0.00 0.00 3.28
2684 3100 2.943033 CCATCCCGATCAAGTACCAAAC 59.057 50.000 0.00 0.00 0.00 2.93
2685 3101 2.373540 TCCCGATCAAGTACCAAACG 57.626 50.000 0.00 0.00 0.00 3.60
2686 3102 1.619827 TCCCGATCAAGTACCAAACGT 59.380 47.619 0.00 0.00 0.00 3.99
2687 3103 2.824936 TCCCGATCAAGTACCAAACGTA 59.175 45.455 0.00 0.00 0.00 3.57
2688 3104 3.448301 TCCCGATCAAGTACCAAACGTAT 59.552 43.478 0.00 0.00 0.00 3.06
2689 3105 3.554324 CCCGATCAAGTACCAAACGTATG 59.446 47.826 0.00 0.00 0.00 2.39
2690 3106 3.554324 CCGATCAAGTACCAAACGTATGG 59.446 47.826 0.00 0.00 46.38 2.74
2691 3107 3.000925 CGATCAAGTACCAAACGTATGGC 59.999 47.826 0.00 0.00 44.75 4.40
2692 3108 3.404224 TCAAGTACCAAACGTATGGCA 57.596 42.857 0.00 0.00 44.75 4.92
2693 3109 3.068560 TCAAGTACCAAACGTATGGCAC 58.931 45.455 0.00 0.00 44.75 5.01
2694 3110 2.103537 AGTACCAAACGTATGGCACC 57.896 50.000 0.00 0.00 44.75 5.01
2695 3111 1.626825 AGTACCAAACGTATGGCACCT 59.373 47.619 0.00 0.00 44.75 4.00
2696 3112 2.004733 GTACCAAACGTATGGCACCTC 58.995 52.381 0.00 0.00 44.75 3.85
2697 3113 0.322187 ACCAAACGTATGGCACCTCC 60.322 55.000 0.00 0.00 44.75 4.30
2698 3114 1.366111 CCAAACGTATGGCACCTCCG 61.366 60.000 0.00 0.00 37.80 4.63
2699 3115 1.743995 AAACGTATGGCACCTCCGC 60.744 57.895 0.00 0.00 37.80 5.54
2700 3116 4.508128 ACGTATGGCACCTCCGCG 62.508 66.667 0.00 0.00 37.80 6.46
2701 3117 4.508128 CGTATGGCACCTCCGCGT 62.508 66.667 4.92 0.00 37.80 6.01
2702 3118 2.125269 GTATGGCACCTCCGCGTT 60.125 61.111 4.92 0.00 37.80 4.84
2703 3119 2.171725 GTATGGCACCTCCGCGTTC 61.172 63.158 4.92 0.00 37.80 3.95
2704 3120 2.651105 TATGGCACCTCCGCGTTCA 61.651 57.895 4.92 0.00 37.80 3.18
2705 3121 2.572095 TATGGCACCTCCGCGTTCAG 62.572 60.000 4.92 0.00 37.80 3.02
2708 3124 2.357517 CACCTCCGCGTTCAGCTT 60.358 61.111 4.92 0.00 45.59 3.74
2709 3125 2.357517 ACCTCCGCGTTCAGCTTG 60.358 61.111 4.92 0.00 45.59 4.01
2710 3126 2.048222 CCTCCGCGTTCAGCTTGA 60.048 61.111 4.92 0.00 45.59 3.02
2711 3127 1.448540 CCTCCGCGTTCAGCTTGAT 60.449 57.895 4.92 0.00 45.59 2.57
2712 3128 1.699656 CCTCCGCGTTCAGCTTGATG 61.700 60.000 4.92 0.00 45.59 3.07
2713 3129 0.737367 CTCCGCGTTCAGCTTGATGA 60.737 55.000 4.92 0.00 45.59 2.92
2714 3130 1.014044 TCCGCGTTCAGCTTGATGAC 61.014 55.000 4.92 0.00 45.59 3.06
2715 3131 1.057822 CGCGTTCAGCTTGATGACG 59.942 57.895 0.00 0.00 45.59 4.35
2716 3132 1.617755 CGCGTTCAGCTTGATGACGT 61.618 55.000 0.00 0.00 45.59 4.34
2717 3133 0.093705 GCGTTCAGCTTGATGACGTC 59.906 55.000 9.11 9.11 44.04 4.34
2718 3134 0.716108 CGTTCAGCTTGATGACGTCC 59.284 55.000 14.12 0.00 0.00 4.79
2719 3135 1.670087 CGTTCAGCTTGATGACGTCCT 60.670 52.381 14.12 2.19 0.00 3.85
2720 3136 1.996191 GTTCAGCTTGATGACGTCCTC 59.004 52.381 14.12 13.65 0.00 3.71
2721 3137 0.171231 TCAGCTTGATGACGTCCTCG 59.829 55.000 14.12 2.33 43.34 4.63
2722 3138 1.153745 AGCTTGATGACGTCCTCGC 60.154 57.895 14.12 12.23 41.18 5.03
2723 3139 2.167861 GCTTGATGACGTCCTCGCC 61.168 63.158 14.12 1.59 41.18 5.54
2724 3140 1.513158 CTTGATGACGTCCTCGCCT 59.487 57.895 14.12 0.00 41.18 5.52
2725 3141 0.108615 CTTGATGACGTCCTCGCCTT 60.109 55.000 14.12 0.00 41.18 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
105 106 5.620011 GCGTTGTAAAAGTTACTTTCTCTGC 59.380 40.000 10.98 7.26 31.99 4.26
157 158 3.895656 ACTACGGCCTGAATGATTAGCTA 59.104 43.478 0.00 0.00 0.00 3.32
169 170 3.520290 TGTGAGAAATACTACGGCCTG 57.480 47.619 0.00 0.00 0.00 4.85
171 172 4.439057 TCAATGTGAGAAATACTACGGCC 58.561 43.478 0.00 0.00 0.00 6.13
270 271 8.810652 TGTTTGTATTTTGTAGATGAAAAGGC 57.189 30.769 0.00 0.00 0.00 4.35
319 320 5.068591 ACTTTTGTTGTGAGTTATTCCACCC 59.931 40.000 0.00 0.00 32.61 4.61
320 321 6.144078 ACTTTTGTTGTGAGTTATTCCACC 57.856 37.500 0.00 0.00 32.61 4.61
322 323 7.639113 AGAACTTTTGTTGTGAGTTATTCCA 57.361 32.000 0.00 0.00 43.66 3.53
351 354 1.203013 TCGGTGGATAGACGGATGGAT 60.203 52.381 0.00 0.00 0.00 3.41
364 367 3.057174 GTGCCAAATGTTATTTCGGTGGA 60.057 43.478 0.00 0.00 0.00 4.02
369 372 2.923020 GCTGGTGCCAAATGTTATTTCG 59.077 45.455 0.00 0.00 0.00 3.46
400 405 3.454371 ACGTTCTTTAGGATAGCGCAT 57.546 42.857 11.47 0.06 0.00 4.73
401 406 2.953466 ACGTTCTTTAGGATAGCGCA 57.047 45.000 11.47 0.00 0.00 6.09
427 432 2.232298 GAGAGAGGGTTCCGCACTGG 62.232 65.000 0.00 0.00 40.09 4.00
610 615 1.766496 TCCAGGAAGTGTTCTTTCGGT 59.234 47.619 0.00 0.00 34.54 4.69
1072 1416 1.154016 CGACGAGGTTGAGCACGAT 60.154 57.895 7.00 0.00 0.00 3.73
1355 1732 0.469070 AGACATGCTCCTCTCCATGC 59.531 55.000 0.00 0.00 41.88 4.06
1475 1852 2.710902 CGCACCTCCATCACCTCGA 61.711 63.158 0.00 0.00 0.00 4.04
1814 2216 1.003580 AGCAAAGATTCGGAAGCCAGA 59.996 47.619 1.78 0.00 0.00 3.86
1857 2260 2.846193 TGGTTTAACGCTTGAGAGCTT 58.154 42.857 0.00 0.00 46.96 3.74
1947 2350 1.882623 CAGAAAGGTGCAGAAGAACCC 59.117 52.381 0.00 0.00 45.63 4.11
1972 2375 2.423538 GTGCAGAACAAAAGGTGACACT 59.576 45.455 5.39 0.00 0.00 3.55
1973 2376 2.163412 TGTGCAGAACAAAAGGTGACAC 59.837 45.455 0.00 0.00 35.24 3.67
1974 2377 2.441410 TGTGCAGAACAAAAGGTGACA 58.559 42.857 0.00 0.00 35.24 3.58
1975 2378 3.715628 ATGTGCAGAACAAAAGGTGAC 57.284 42.857 0.00 0.00 43.61 3.67
1976 2379 3.068024 GGAATGTGCAGAACAAAAGGTGA 59.932 43.478 0.00 0.00 43.61 4.02
1978 2381 3.299503 AGGAATGTGCAGAACAAAAGGT 58.700 40.909 0.00 0.00 43.61 3.50
1979 2382 3.305608 GGAGGAATGTGCAGAACAAAAGG 60.306 47.826 0.00 0.00 43.61 3.11
1980 2383 3.571401 AGGAGGAATGTGCAGAACAAAAG 59.429 43.478 0.00 0.00 43.61 2.27
1981 2384 3.565307 AGGAGGAATGTGCAGAACAAAA 58.435 40.909 0.00 0.00 43.61 2.44
1982 2385 3.228188 AGGAGGAATGTGCAGAACAAA 57.772 42.857 0.00 0.00 43.61 2.83
1983 2386 2.957402 AGGAGGAATGTGCAGAACAA 57.043 45.000 0.00 0.00 43.61 2.83
1984 2387 3.072330 TGTTAGGAGGAATGTGCAGAACA 59.928 43.478 0.00 0.00 44.79 3.18
1985 2388 3.674997 TGTTAGGAGGAATGTGCAGAAC 58.325 45.455 0.00 0.00 0.00 3.01
1986 2389 4.365514 TTGTTAGGAGGAATGTGCAGAA 57.634 40.909 0.00 0.00 0.00 3.02
1987 2390 4.365514 TTTGTTAGGAGGAATGTGCAGA 57.634 40.909 0.00 0.00 0.00 4.26
1988 2391 5.221224 TGTTTTTGTTAGGAGGAATGTGCAG 60.221 40.000 0.00 0.00 0.00 4.41
1989 2392 4.646945 TGTTTTTGTTAGGAGGAATGTGCA 59.353 37.500 0.00 0.00 0.00 4.57
1990 2393 5.195001 TGTTTTTGTTAGGAGGAATGTGC 57.805 39.130 0.00 0.00 0.00 4.57
1991 2394 6.391227 ACTGTTTTTGTTAGGAGGAATGTG 57.609 37.500 0.00 0.00 0.00 3.21
1992 2395 6.833933 AGAACTGTTTTTGTTAGGAGGAATGT 59.166 34.615 0.00 0.00 0.00 2.71
1993 2396 7.277174 AGAACTGTTTTTGTTAGGAGGAATG 57.723 36.000 0.00 0.00 0.00 2.67
1994 2397 7.780271 AGAAGAACTGTTTTTGTTAGGAGGAAT 59.220 33.333 0.59 0.00 0.00 3.01
1995 2398 7.116736 AGAAGAACTGTTTTTGTTAGGAGGAA 58.883 34.615 0.59 0.00 0.00 3.36
1996 2399 6.659824 AGAAGAACTGTTTTTGTTAGGAGGA 58.340 36.000 0.59 0.00 0.00 3.71
2002 2405 6.151480 ACGGGAAAGAAGAACTGTTTTTGTTA 59.849 34.615 6.62 0.00 0.00 2.41
2016 2419 2.311124 ATAGCCGAACGGGAAAGAAG 57.689 50.000 15.01 0.00 38.47 2.85
2122 2525 1.072666 GCATGTGCTTACTTTGCGGC 61.073 55.000 0.00 0.00 38.21 6.53
2177 2580 2.761767 ACCATGCTCTGCAATGCATTTA 59.238 40.909 19.45 0.83 46.29 1.40
2237 2641 0.182299 TGGGCACGCCATCAATGATA 59.818 50.000 10.83 0.00 37.98 2.15
2311 2725 3.126171 TGTCCATTTATGCAGTTACACGC 59.874 43.478 0.00 0.00 0.00 5.34
2312 2726 4.391830 AGTGTCCATTTATGCAGTTACACG 59.608 41.667 0.00 0.00 40.58 4.49
2313 2727 5.631026 CAGTGTCCATTTATGCAGTTACAC 58.369 41.667 0.00 0.00 36.98 2.90
2316 2730 4.331108 TGCAGTGTCCATTTATGCAGTTA 58.669 39.130 0.00 0.00 41.65 2.24
2317 2731 3.156293 TGCAGTGTCCATTTATGCAGTT 58.844 40.909 0.00 0.00 41.65 3.16
2318 2732 2.794103 TGCAGTGTCCATTTATGCAGT 58.206 42.857 0.00 0.00 41.65 4.40
2321 2735 5.694231 TGATATGCAGTGTCCATTTATGC 57.306 39.130 0.00 0.00 37.40 3.14
2325 2739 9.224267 GTCTATATTGATATGCAGTGTCCATTT 57.776 33.333 0.00 0.00 0.00 2.32
2326 2740 8.600668 AGTCTATATTGATATGCAGTGTCCATT 58.399 33.333 0.00 0.00 0.00 3.16
2327 2741 8.039538 CAGTCTATATTGATATGCAGTGTCCAT 58.960 37.037 0.00 0.00 0.00 3.41
2328 2742 7.233348 TCAGTCTATATTGATATGCAGTGTCCA 59.767 37.037 0.00 0.00 0.00 4.02
2329 2743 7.606349 TCAGTCTATATTGATATGCAGTGTCC 58.394 38.462 0.00 0.00 0.00 4.02
2330 2744 8.920665 GTTCAGTCTATATTGATATGCAGTGTC 58.079 37.037 0.00 0.00 0.00 3.67
2331 2745 8.424133 TGTTCAGTCTATATTGATATGCAGTGT 58.576 33.333 0.00 0.00 0.00 3.55
2332 2746 8.822652 TGTTCAGTCTATATTGATATGCAGTG 57.177 34.615 0.00 0.00 0.00 3.66
2391 2805 3.374058 GTCCATTTATGCAGTTACACGCT 59.626 43.478 0.00 0.00 0.00 5.07
2394 2808 5.631026 CAGTGTCCATTTATGCAGTTACAC 58.369 41.667 0.00 0.00 36.98 2.90
2500 2916 0.179004 ATGCTTCGTTCCCCAACACA 60.179 50.000 0.00 0.00 32.14 3.72
2501 2917 0.240945 CATGCTTCGTTCCCCAACAC 59.759 55.000 0.00 0.00 32.14 3.32
2502 2918 1.523154 GCATGCTTCGTTCCCCAACA 61.523 55.000 11.37 0.00 32.14 3.33
2503 2919 1.212751 GCATGCTTCGTTCCCCAAC 59.787 57.895 11.37 0.00 0.00 3.77
2504 2920 0.825425 TTGCATGCTTCGTTCCCCAA 60.825 50.000 20.33 0.00 0.00 4.12
2505 2921 0.611618 ATTGCATGCTTCGTTCCCCA 60.612 50.000 20.33 0.00 0.00 4.96
2506 2922 0.532115 AATTGCATGCTTCGTTCCCC 59.468 50.000 20.33 0.00 0.00 4.81
2507 2923 2.262211 GAAATTGCATGCTTCGTTCCC 58.738 47.619 20.33 0.00 0.00 3.97
2508 2924 2.945278 TGAAATTGCATGCTTCGTTCC 58.055 42.857 20.33 2.94 0.00 3.62
2509 2925 4.970472 TTTGAAATTGCATGCTTCGTTC 57.030 36.364 20.33 16.13 0.00 3.95
2510 2926 5.927954 ATTTTGAAATTGCATGCTTCGTT 57.072 30.435 20.33 7.68 0.00 3.85
2511 2927 5.927954 AATTTTGAAATTGCATGCTTCGT 57.072 30.435 20.33 1.40 37.24 3.85
2512 2928 5.791480 GGAAATTTTGAAATTGCATGCTTCG 59.209 36.000 20.33 0.00 38.53 3.79
2513 2929 6.670233 TGGAAATTTTGAAATTGCATGCTTC 58.330 32.000 20.33 14.69 38.53 3.86
2514 2930 6.636562 TGGAAATTTTGAAATTGCATGCTT 57.363 29.167 20.33 4.59 38.53 3.91
2515 2931 6.440436 GTTGGAAATTTTGAAATTGCATGCT 58.560 32.000 20.33 0.00 38.53 3.79
2516 2932 5.340138 CGTTGGAAATTTTGAAATTGCATGC 59.660 36.000 11.82 11.82 38.53 4.06
2517 2933 5.340138 GCGTTGGAAATTTTGAAATTGCATG 59.660 36.000 8.92 0.00 38.53 4.06
2518 2934 5.239087 AGCGTTGGAAATTTTGAAATTGCAT 59.761 32.000 8.92 0.00 38.53 3.96
2519 2935 4.574013 AGCGTTGGAAATTTTGAAATTGCA 59.426 33.333 8.92 0.00 38.53 4.08
2520 2936 5.094429 AGCGTTGGAAATTTTGAAATTGC 57.906 34.783 2.71 1.04 38.53 3.56
2521 2937 6.128729 GTGAGCGTTGGAAATTTTGAAATTG 58.871 36.000 2.71 0.00 38.53 2.32
2522 2938 5.051106 CGTGAGCGTTGGAAATTTTGAAATT 60.051 36.000 0.00 0.00 40.15 1.82
2523 2939 4.444056 CGTGAGCGTTGGAAATTTTGAAAT 59.556 37.500 0.00 0.00 0.00 2.17
2524 2940 3.794028 CGTGAGCGTTGGAAATTTTGAAA 59.206 39.130 0.00 0.00 0.00 2.69
2525 2941 3.367607 CGTGAGCGTTGGAAATTTTGAA 58.632 40.909 0.00 0.00 0.00 2.69
2526 2942 2.993545 CGTGAGCGTTGGAAATTTTGA 58.006 42.857 0.00 0.00 0.00 2.69
2541 2957 6.552859 TCTTCTAGATAGATCTTGCGTGAG 57.447 41.667 0.00 0.00 38.32 3.51
2542 2958 6.488344 ACATCTTCTAGATAGATCTTGCGTGA 59.512 38.462 0.00 0.00 38.32 4.35
2543 2959 6.676950 ACATCTTCTAGATAGATCTTGCGTG 58.323 40.000 0.00 6.33 38.32 5.34
2544 2960 6.892658 ACATCTTCTAGATAGATCTTGCGT 57.107 37.500 0.00 6.69 38.32 5.24
2546 2962 9.950680 GCTATACATCTTCTAGATAGATCTTGC 57.049 37.037 0.00 0.00 38.32 4.01
2550 2966 9.929722 CGTTGCTATACATCTTCTAGATAGATC 57.070 37.037 11.99 0.00 32.12 2.75
2551 2967 9.674068 TCGTTGCTATACATCTTCTAGATAGAT 57.326 33.333 10.06 10.06 32.12 1.98
2552 2968 9.157104 CTCGTTGCTATACATCTTCTAGATAGA 57.843 37.037 0.00 0.11 32.12 1.98
2553 2969 9.157104 TCTCGTTGCTATACATCTTCTAGATAG 57.843 37.037 0.00 0.00 32.12 2.08
2554 2970 9.503399 TTCTCGTTGCTATACATCTTCTAGATA 57.497 33.333 0.00 0.00 32.12 1.98
2555 2971 7.987750 TCTCGTTGCTATACATCTTCTAGAT 57.012 36.000 0.00 0.00 34.74 1.98
2556 2972 7.041030 CCTTCTCGTTGCTATACATCTTCTAGA 60.041 40.741 0.00 0.00 0.00 2.43
2557 2973 7.081349 CCTTCTCGTTGCTATACATCTTCTAG 58.919 42.308 0.00 0.00 0.00 2.43
2558 2974 6.016192 CCCTTCTCGTTGCTATACATCTTCTA 60.016 42.308 0.00 0.00 0.00 2.10
2559 2975 5.221342 CCCTTCTCGTTGCTATACATCTTCT 60.221 44.000 0.00 0.00 0.00 2.85
2560 2976 4.985409 CCCTTCTCGTTGCTATACATCTTC 59.015 45.833 0.00 0.00 0.00 2.87
2561 2977 4.649674 TCCCTTCTCGTTGCTATACATCTT 59.350 41.667 0.00 0.00 0.00 2.40
2562 2978 4.215908 TCCCTTCTCGTTGCTATACATCT 58.784 43.478 0.00 0.00 0.00 2.90
2563 2979 4.278669 TCTCCCTTCTCGTTGCTATACATC 59.721 45.833 0.00 0.00 0.00 3.06
2564 2980 4.215908 TCTCCCTTCTCGTTGCTATACAT 58.784 43.478 0.00 0.00 0.00 2.29
2565 2981 3.628008 TCTCCCTTCTCGTTGCTATACA 58.372 45.455 0.00 0.00 0.00 2.29
2566 2982 3.551250 GCTCTCCCTTCTCGTTGCTATAC 60.551 52.174 0.00 0.00 0.00 1.47
2567 2983 2.623889 GCTCTCCCTTCTCGTTGCTATA 59.376 50.000 0.00 0.00 0.00 1.31
2568 2984 1.410882 GCTCTCCCTTCTCGTTGCTAT 59.589 52.381 0.00 0.00 0.00 2.97
2569 2985 0.818296 GCTCTCCCTTCTCGTTGCTA 59.182 55.000 0.00 0.00 0.00 3.49
2570 2986 1.188219 TGCTCTCCCTTCTCGTTGCT 61.188 55.000 0.00 0.00 0.00 3.91
2571 2987 0.107945 ATGCTCTCCCTTCTCGTTGC 60.108 55.000 0.00 0.00 0.00 4.17
2572 2988 1.480137 AGATGCTCTCCCTTCTCGTTG 59.520 52.381 0.00 0.00 0.00 4.10
2573 2989 1.754226 GAGATGCTCTCCCTTCTCGTT 59.246 52.381 2.73 0.00 37.55 3.85
2574 2990 1.398692 GAGATGCTCTCCCTTCTCGT 58.601 55.000 2.73 0.00 37.55 4.18
2583 2999 2.968574 TCAAGGGTATGGAGATGCTCTC 59.031 50.000 5.01 5.01 42.66 3.20
2584 3000 3.051940 TCAAGGGTATGGAGATGCTCT 57.948 47.619 0.00 0.00 0.00 4.09
2585 3001 3.389329 TCTTCAAGGGTATGGAGATGCTC 59.611 47.826 0.00 0.00 29.75 4.26
2586 3002 3.387962 TCTTCAAGGGTATGGAGATGCT 58.612 45.455 0.00 0.00 29.75 3.79
2587 3003 3.845781 TCTTCAAGGGTATGGAGATGC 57.154 47.619 0.00 0.00 29.75 3.91
2588 3004 4.564041 CGATCTTCAAGGGTATGGAGATG 58.436 47.826 2.89 0.00 44.11 2.90
2589 3005 3.007398 GCGATCTTCAAGGGTATGGAGAT 59.993 47.826 0.00 0.00 46.24 2.75
2590 3006 2.365617 GCGATCTTCAAGGGTATGGAGA 59.634 50.000 0.00 0.00 39.25 3.71
2591 3007 2.103094 TGCGATCTTCAAGGGTATGGAG 59.897 50.000 0.00 0.00 0.00 3.86
2592 3008 2.115427 TGCGATCTTCAAGGGTATGGA 58.885 47.619 0.00 0.00 0.00 3.41
2593 3009 2.620251 TGCGATCTTCAAGGGTATGG 57.380 50.000 0.00 0.00 0.00 2.74
2594 3010 3.242870 GCTTTGCGATCTTCAAGGGTATG 60.243 47.826 8.15 0.00 0.00 2.39
2595 3011 2.945668 GCTTTGCGATCTTCAAGGGTAT 59.054 45.455 8.15 0.00 0.00 2.73
2596 3012 2.356135 GCTTTGCGATCTTCAAGGGTA 58.644 47.619 8.15 0.00 0.00 3.69
2597 3013 1.168714 GCTTTGCGATCTTCAAGGGT 58.831 50.000 8.15 0.00 0.00 4.34
2610 3026 1.198178 TGATAAACGGTTCCGCTTTGC 59.802 47.619 11.32 8.34 0.00 3.68
2611 3027 3.231160 GTTGATAAACGGTTCCGCTTTG 58.769 45.455 11.32 0.00 0.00 2.77
2612 3028 2.096119 CGTTGATAAACGGTTCCGCTTT 60.096 45.455 7.52 12.40 42.03 3.51
2613 3029 1.461897 CGTTGATAAACGGTTCCGCTT 59.538 47.619 7.52 8.08 42.03 4.68
2614 3030 1.073177 CGTTGATAAACGGTTCCGCT 58.927 50.000 7.52 0.00 42.03 5.52
2615 3031 0.519792 GCGTTGATAAACGGTTCCGC 60.520 55.000 17.03 0.00 45.51 5.54
2616 3032 0.246989 CGCGTTGATAAACGGTTCCG 60.247 55.000 17.03 9.81 45.51 4.30
2617 3033 0.095762 CCGCGTTGATAAACGGTTCC 59.904 55.000 17.03 0.00 45.51 3.62
2618 3034 3.573515 CCGCGTTGATAAACGGTTC 57.426 52.632 17.03 0.00 45.51 3.62
2621 3037 0.791422 TCAACCGCGTTGATAAACGG 59.209 50.000 17.03 3.92 45.88 4.44
2629 3045 0.365523 CGAGTACATCAACCGCGTTG 59.634 55.000 4.92 10.14 43.99 4.10
2630 3046 0.038892 ACGAGTACATCAACCGCGTT 60.039 50.000 4.92 0.00 29.91 4.84
2631 3047 0.804364 TACGAGTACATCAACCGCGT 59.196 50.000 4.92 0.00 35.77 6.01
2632 3048 1.186030 GTACGAGTACATCAACCGCG 58.814 55.000 0.00 0.00 36.15 6.46
2633 3049 1.916000 GTGTACGAGTACATCAACCGC 59.084 52.381 17.64 1.61 46.36 5.68
2634 3050 2.163010 AGGTGTACGAGTACATCAACCG 59.837 50.000 23.53 0.00 46.72 4.44
2635 3051 3.863142 AGGTGTACGAGTACATCAACC 57.137 47.619 23.53 17.00 46.72 3.77
2636 3052 4.620184 GTGAAGGTGTACGAGTACATCAAC 59.380 45.833 23.53 17.49 46.72 3.18
2637 3053 4.614306 CGTGAAGGTGTACGAGTACATCAA 60.614 45.833 23.53 9.91 46.72 2.57
2638 3054 3.120095 CGTGAAGGTGTACGAGTACATCA 60.120 47.826 23.53 17.46 46.72 3.07
2639 3055 3.125829 TCGTGAAGGTGTACGAGTACATC 59.874 47.826 17.64 17.05 46.36 3.06
2640 3056 3.076621 TCGTGAAGGTGTACGAGTACAT 58.923 45.455 17.64 3.83 46.36 2.29
2641 3057 2.493035 TCGTGAAGGTGTACGAGTACA 58.507 47.619 11.61 11.61 43.54 2.90
2647 3063 2.460918 GATGGATCGTGAAGGTGTACG 58.539 52.381 0.00 0.00 41.38 3.67
2648 3064 2.483188 GGGATGGATCGTGAAGGTGTAC 60.483 54.545 0.00 0.00 0.00 2.90
2649 3065 1.760613 GGGATGGATCGTGAAGGTGTA 59.239 52.381 0.00 0.00 0.00 2.90
2650 3066 0.541863 GGGATGGATCGTGAAGGTGT 59.458 55.000 0.00 0.00 0.00 4.16
2651 3067 0.530650 CGGGATGGATCGTGAAGGTG 60.531 60.000 0.00 0.00 0.00 4.00
2652 3068 0.686441 TCGGGATGGATCGTGAAGGT 60.686 55.000 0.00 0.00 0.00 3.50
2653 3069 0.681733 ATCGGGATGGATCGTGAAGG 59.318 55.000 0.00 0.00 0.00 3.46
2654 3070 1.341209 TGATCGGGATGGATCGTGAAG 59.659 52.381 0.00 0.00 44.61 3.02
2655 3071 1.408969 TGATCGGGATGGATCGTGAA 58.591 50.000 0.00 0.00 44.61 3.18
2656 3072 1.341209 CTTGATCGGGATGGATCGTGA 59.659 52.381 0.00 0.00 44.61 4.35
2657 3073 1.069204 ACTTGATCGGGATGGATCGTG 59.931 52.381 0.00 0.00 44.61 4.35
2658 3074 1.414158 ACTTGATCGGGATGGATCGT 58.586 50.000 0.00 0.00 44.61 3.73
2659 3075 2.352814 GGTACTTGATCGGGATGGATCG 60.353 54.545 0.00 0.00 44.61 3.69
2660 3076 2.632996 TGGTACTTGATCGGGATGGATC 59.367 50.000 0.00 0.00 42.52 3.36
2661 3077 2.689658 TGGTACTTGATCGGGATGGAT 58.310 47.619 0.00 0.00 0.00 3.41
2662 3078 2.168458 TGGTACTTGATCGGGATGGA 57.832 50.000 0.00 0.00 0.00 3.41
2663 3079 2.943033 GTTTGGTACTTGATCGGGATGG 59.057 50.000 0.00 0.00 0.00 3.51
2664 3080 2.607635 CGTTTGGTACTTGATCGGGATG 59.392 50.000 0.00 0.00 0.00 3.51
2665 3081 2.235402 ACGTTTGGTACTTGATCGGGAT 59.765 45.455 0.00 0.00 0.00 3.85
2666 3082 1.619827 ACGTTTGGTACTTGATCGGGA 59.380 47.619 0.00 0.00 0.00 5.14
2667 3083 2.088950 ACGTTTGGTACTTGATCGGG 57.911 50.000 0.00 0.00 0.00 5.14
2668 3084 3.554324 CCATACGTTTGGTACTTGATCGG 59.446 47.826 16.08 0.00 32.95 4.18
2669 3085 3.000925 GCCATACGTTTGGTACTTGATCG 59.999 47.826 23.48 0.00 39.11 3.69
2670 3086 3.936453 TGCCATACGTTTGGTACTTGATC 59.064 43.478 23.48 7.34 39.11 2.92
2671 3087 3.687698 GTGCCATACGTTTGGTACTTGAT 59.312 43.478 29.43 0.00 45.67 2.57
2672 3088 3.068560 GTGCCATACGTTTGGTACTTGA 58.931 45.455 29.43 6.87 45.67 3.02
2673 3089 3.465122 GTGCCATACGTTTGGTACTTG 57.535 47.619 29.43 6.25 45.67 3.16
2677 3093 1.065998 GGAGGTGCCATACGTTTGGTA 60.066 52.381 23.48 17.94 39.11 3.25
2678 3094 0.322187 GGAGGTGCCATACGTTTGGT 60.322 55.000 23.48 6.27 39.11 3.67
2679 3095 1.366111 CGGAGGTGCCATACGTTTGG 61.366 60.000 19.49 19.49 39.94 3.28
2680 3096 1.977594 GCGGAGGTGCCATACGTTTG 61.978 60.000 0.00 0.00 35.94 2.93
2681 3097 1.743995 GCGGAGGTGCCATACGTTT 60.744 57.895 0.00 0.00 35.94 3.60
2682 3098 2.125269 GCGGAGGTGCCATACGTT 60.125 61.111 0.00 0.00 35.94 3.99
2683 3099 4.508128 CGCGGAGGTGCCATACGT 62.508 66.667 0.00 0.00 35.94 3.57
2684 3100 4.508128 ACGCGGAGGTGCCATACG 62.508 66.667 12.47 0.00 35.94 3.06
2685 3101 2.125269 AACGCGGAGGTGCCATAC 60.125 61.111 12.47 0.00 35.94 2.39
2686 3102 2.185867 GAACGCGGAGGTGCCATA 59.814 61.111 12.47 0.00 35.94 2.74
2687 3103 3.958147 CTGAACGCGGAGGTGCCAT 62.958 63.158 12.47 0.00 35.94 4.40
2688 3104 4.680237 CTGAACGCGGAGGTGCCA 62.680 66.667 12.47 0.00 35.94 4.92
2691 3107 2.357517 AAGCTGAACGCGGAGGTG 60.358 61.111 12.47 0.00 45.59 4.00
2692 3108 2.172483 ATCAAGCTGAACGCGGAGGT 62.172 55.000 12.47 5.95 45.59 3.85
2693 3109 1.448540 ATCAAGCTGAACGCGGAGG 60.449 57.895 12.47 0.00 45.59 4.30
2694 3110 0.737367 TCATCAAGCTGAACGCGGAG 60.737 55.000 12.47 4.16 45.59 4.63
2695 3111 1.014044 GTCATCAAGCTGAACGCGGA 61.014 55.000 12.47 0.00 45.59 5.54
2696 3112 1.421485 GTCATCAAGCTGAACGCGG 59.579 57.895 12.47 0.00 45.59 6.46
2697 3113 1.057822 CGTCATCAAGCTGAACGCG 59.942 57.895 3.53 3.53 45.59 6.01
2698 3114 0.093705 GACGTCATCAAGCTGAACGC 59.906 55.000 11.55 0.00 39.57 4.84
2699 3115 0.716108 GGACGTCATCAAGCTGAACG 59.284 55.000 18.91 0.00 0.00 3.95
2700 3116 1.996191 GAGGACGTCATCAAGCTGAAC 59.004 52.381 24.24 0.00 0.00 3.18
2701 3117 1.402852 CGAGGACGTCATCAAGCTGAA 60.403 52.381 27.59 0.00 34.56 3.02
2702 3118 0.171231 CGAGGACGTCATCAAGCTGA 59.829 55.000 27.59 0.00 34.56 4.26
2703 3119 1.416813 GCGAGGACGTCATCAAGCTG 61.417 60.000 27.59 13.34 41.98 4.24
2704 3120 1.153745 GCGAGGACGTCATCAAGCT 60.154 57.895 27.59 10.09 41.98 3.74
2705 3121 2.167861 GGCGAGGACGTCATCAAGC 61.168 63.158 27.59 22.50 44.03 4.01
2706 3122 4.094684 GGCGAGGACGTCATCAAG 57.905 61.111 27.59 14.71 44.03 3.02


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

AutoCloner maintained by Alex Coulton.