Multiple sequence alignment - TraesCS3D01G053300

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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 TraesCS3D01G053300 chr3D 100.000 2651 0 0 1 2651 21904335 21901685 0.000000e+00 4896.0
1 TraesCS3D01G053300 chr3D 98.864 352 3 1 2300 2651 21902572 21902222 6.230000e-176 627.0
2 TraesCS3D01G053300 chr5D 98.919 2313 21 4 1 2310 240137416 240135105 0.000000e+00 4130.0
3 TraesCS3D01G053300 chr5D 98.357 2313 31 6 1 2310 6201569 6203877 0.000000e+00 4054.0
4 TraesCS3D01G053300 chr5D 99.148 352 3 0 2300 2651 240135652 240135301 3.720000e-178 634.0
5 TraesCS3D01G053300 chr5D 98.864 352 4 0 2300 2651 6203330 6203681 1.730000e-176 628.0
6 TraesCS3D01G053300 chr3B 98.486 2312 32 3 1 2310 201512838 201510528 0.000000e+00 4072.0
7 TraesCS3D01G053300 chr3B 98.580 352 4 1 2300 2651 201511074 201510724 2.900000e-174 621.0
8 TraesCS3D01G053300 chr1D 98.270 2312 24 8 1 2310 254497707 254495410 0.000000e+00 4034.0
9 TraesCS3D01G053300 chr1D 98.154 2004 21 4 309 2310 483915214 483917203 0.000000e+00 3482.0
10 TraesCS3D01G053300 chr1D 97.669 1630 15 6 1 1610 19957743 19956117 0.000000e+00 2778.0
11 TraesCS3D01G053300 chr1D 98.394 685 7 3 1 684 206072129 206072810 0.000000e+00 1201.0
12 TraesCS3D01G053300 chr1D 98.854 349 4 0 2300 2648 483916656 483917004 8.060000e-175 623.0
13 TraesCS3D01G053300 chr1D 98.295 352 3 2 2300 2651 254495954 254495606 4.850000e-172 614.0
14 TraesCS3D01G053300 chr4D 96.629 2314 69 8 1 2310 19916207 19913899 0.000000e+00 3832.0
15 TraesCS3D01G053300 chr6B 97.757 1783 36 4 2 1782 22425653 22423873 0.000000e+00 3068.0
16 TraesCS3D01G053300 chr3A 96.734 1623 38 6 403 2012 393224903 393223283 0.000000e+00 2689.0
17 TraesCS3D01G053300 chr1A 98.430 1338 15 5 1 1334 112776323 112777658 0.000000e+00 2350.0
18 TraesCS3D01G053300 chr2D 98.127 1228 21 2 1085 2310 334231119 334229892 0.000000e+00 2139.0
19 TraesCS3D01G053300 chr2D 98.017 353 6 1 2300 2651 334230440 334230088 1.740000e-171 612.0
20 TraesCS3D01G053300 chr2B 98.364 978 13 3 1334 2310 474897223 474898198 0.000000e+00 1714.0
21 TraesCS3D01G053300 chr2B 97.443 352 7 2 2300 2651 474897653 474898002 1.360000e-167 599.0
22 TraesCS3D01G053300 chr2B 98.901 182 2 0 2129 2310 474898529 474898710 2.540000e-85 326.0
23 TraesCS3D01G053300 chr7D 99.148 352 3 0 2300 2651 231552702 231552351 3.720000e-178 634.0
24 TraesCS3D01G053300 chr7A 88.696 115 8 2 2041 2150 202748124 202748010 4.600000e-28 135.0
25 TraesCS3D01G053300 chr2A 98.148 54 1 0 1987 2040 101896509 101896456 7.810000e-16 95.3


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 TraesCS3D01G053300 chr3D 21901685 21904335 2650 True 2761.500000 4896 99.4320 1 2651 2 chr3D.!!$R1 2650
1 TraesCS3D01G053300 chr5D 240135105 240137416 2311 True 2382.000000 4130 99.0335 1 2651 2 chr5D.!!$R1 2650
2 TraesCS3D01G053300 chr5D 6201569 6203877 2308 False 2341.000000 4054 98.6105 1 2651 2 chr5D.!!$F1 2650
3 TraesCS3D01G053300 chr3B 201510528 201512838 2310 True 2346.500000 4072 98.5330 1 2651 2 chr3B.!!$R1 2650
4 TraesCS3D01G053300 chr1D 19956117 19957743 1626 True 2778.000000 2778 97.6690 1 1610 1 chr1D.!!$R1 1609
5 TraesCS3D01G053300 chr1D 254495410 254497707 2297 True 2324.000000 4034 98.2825 1 2651 2 chr1D.!!$R2 2650
6 TraesCS3D01G053300 chr1D 483915214 483917203 1989 False 2052.500000 3482 98.5040 309 2648 2 chr1D.!!$F2 2339
7 TraesCS3D01G053300 chr1D 206072129 206072810 681 False 1201.000000 1201 98.3940 1 684 1 chr1D.!!$F1 683
8 TraesCS3D01G053300 chr4D 19913899 19916207 2308 True 3832.000000 3832 96.6290 1 2310 1 chr4D.!!$R1 2309
9 TraesCS3D01G053300 chr6B 22423873 22425653 1780 True 3068.000000 3068 97.7570 2 1782 1 chr6B.!!$R1 1780
10 TraesCS3D01G053300 chr3A 393223283 393224903 1620 True 2689.000000 2689 96.7340 403 2012 1 chr3A.!!$R1 1609
11 TraesCS3D01G053300 chr1A 112776323 112777658 1335 False 2350.000000 2350 98.4300 1 1334 1 chr1A.!!$F1 1333
12 TraesCS3D01G053300 chr2D 334229892 334231119 1227 True 1375.500000 2139 98.0720 1085 2651 2 chr2D.!!$R1 1566
13 TraesCS3D01G053300 chr2B 474897223 474898710 1487 False 879.666667 1714 98.2360 1334 2651 3 chr2B.!!$F1 1317

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
62 63 2.043604 GCCCCAAAGCCAAAGCAAGT 62.044 55.0 0.0 0.0 43.56 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1846 1887 1.783031 TTAAGCGCGGCCGTTTTTCA 61.783 50.0 28.7 7.2 38.78 2.69 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
62 63 2.043604 GCCCCAAAGCCAAAGCAAGT 62.044 55.000 0.00 0.00 43.56 3.16
537 542 6.072119 ACCCCTTTAGCAAAGAAAAATAGACG 60.072 38.462 9.37 0.00 41.02 4.18
538 543 6.322491 CCCTTTAGCAAAGAAAAATAGACGG 58.678 40.000 9.37 0.00 41.02 4.79
596 601 9.696572 GACTATCCATATCCTATGTACCTAACA 57.303 37.037 0.00 0.00 43.86 2.41
690 695 7.933577 TCTGTTCATAAGAAGAAAGAGAAGCAA 59.066 33.333 0.00 0.00 33.63 3.91
807 812 5.343249 CATTCGAATCACCCATTCCTTTTC 58.657 41.667 7.92 0.00 38.17 2.29
1141 1148 5.369187 GTTGCGAGATCACGAATCATATTG 58.631 41.667 17.02 0.00 36.79 1.90
1414 1453 0.693622 TTATCGGGCAAGGACACCAA 59.306 50.000 0.00 0.00 0.00 3.67
1659 1698 3.329929 AAGGATTGGTAGTGTTCGGAC 57.670 47.619 0.00 0.00 0.00 4.79
1846 1887 3.347216 AGACAGCCAATACGAAATGCTT 58.653 40.909 0.00 0.00 0.00 3.91
2305 2859 5.808540 GTGGACTATACAAGTTCGCAATACA 59.191 40.000 0.00 0.00 42.90 2.29
2310 2864 9.769093 GACTATACAAGTTCGCAATACATTTTT 57.231 29.630 0.00 0.00 39.07 1.94
2334 2888 9.549078 TTTTTCTATATACATACAACATGCCGA 57.451 29.630 0.00 0.00 0.00 5.54
2335 2889 8.528917 TTTCTATATACATACAACATGCCGAC 57.471 34.615 0.00 0.00 0.00 4.79
2336 2890 6.319399 TCTATATACATACAACATGCCGACG 58.681 40.000 0.00 0.00 0.00 5.12
2337 2891 1.929230 TACATACAACATGCCGACGG 58.071 50.000 10.29 10.29 0.00 4.79
2338 2892 0.036765 ACATACAACATGCCGACGGT 60.037 50.000 16.73 0.00 0.00 4.83
2339 2893 1.083489 CATACAACATGCCGACGGTT 58.917 50.000 16.73 0.09 0.00 4.44
2340 2894 2.272678 CATACAACATGCCGACGGTTA 58.727 47.619 16.73 5.55 0.00 2.85
2341 2895 2.452295 TACAACATGCCGACGGTTAA 57.548 45.000 16.73 1.87 0.00 2.01
2342 2896 1.595466 ACAACATGCCGACGGTTAAA 58.405 45.000 16.73 0.00 0.00 1.52
2343 2897 1.264826 ACAACATGCCGACGGTTAAAC 59.735 47.619 16.73 0.00 0.00 2.01
2344 2898 1.264557 CAACATGCCGACGGTTAAACA 59.735 47.619 16.73 4.55 0.00 2.83
2345 2899 1.595466 ACATGCCGACGGTTAAACAA 58.405 45.000 16.73 0.00 0.00 2.83
2346 2900 1.264826 ACATGCCGACGGTTAAACAAC 59.735 47.619 16.73 0.00 0.00 3.32
2347 2901 1.533731 CATGCCGACGGTTAAACAACT 59.466 47.619 16.73 0.00 0.00 3.16
2348 2902 1.666054 TGCCGACGGTTAAACAACTT 58.334 45.000 16.73 0.00 0.00 2.66
2349 2903 2.831333 TGCCGACGGTTAAACAACTTA 58.169 42.857 16.73 0.00 0.00 2.24
2350 2904 3.401182 TGCCGACGGTTAAACAACTTAT 58.599 40.909 16.73 0.00 0.00 1.73
2351 2905 3.814283 TGCCGACGGTTAAACAACTTATT 59.186 39.130 16.73 0.00 0.00 1.40
2352 2906 4.993584 TGCCGACGGTTAAACAACTTATTA 59.006 37.500 16.73 0.00 0.00 0.98
2353 2907 5.120519 TGCCGACGGTTAAACAACTTATTAG 59.879 40.000 16.73 0.00 0.00 1.73
2354 2908 5.348451 GCCGACGGTTAAACAACTTATTAGA 59.652 40.000 16.73 0.00 0.00 2.10
2355 2909 6.128580 GCCGACGGTTAAACAACTTATTAGAA 60.129 38.462 16.73 0.00 0.00 2.10
2356 2910 7.571059 GCCGACGGTTAAACAACTTATTAGAAA 60.571 37.037 16.73 0.00 0.00 2.52
2357 2911 7.741652 CCGACGGTTAAACAACTTATTAGAAAC 59.258 37.037 5.48 0.00 0.00 2.78
2358 2912 7.472186 CGACGGTTAAACAACTTATTAGAAACG 59.528 37.037 0.00 0.00 0.00 3.60
2359 2913 7.071414 ACGGTTAAACAACTTATTAGAAACGC 58.929 34.615 0.00 0.00 0.00 4.84
2360 2914 7.070798 CGGTTAAACAACTTATTAGAAACGCA 58.929 34.615 0.00 0.00 0.00 5.24
2361 2915 7.587028 CGGTTAAACAACTTATTAGAAACGCAA 59.413 33.333 0.00 0.00 0.00 4.85
2363 2917 9.654417 GTTAAACAACTTATTAGAAACGCAAGA 57.346 29.630 0.00 0.00 43.62 3.02
2364 2918 9.654417 TTAAACAACTTATTAGAAACGCAAGAC 57.346 29.630 0.00 0.00 43.62 3.01
2365 2919 6.854496 ACAACTTATTAGAAACGCAAGACA 57.146 33.333 0.00 0.00 43.62 3.41
2366 2920 6.888430 ACAACTTATTAGAAACGCAAGACAG 58.112 36.000 0.00 0.00 43.62 3.51
2367 2921 5.532025 ACTTATTAGAAACGCAAGACAGC 57.468 39.130 0.00 0.00 43.62 4.40
2368 2922 4.392138 ACTTATTAGAAACGCAAGACAGCC 59.608 41.667 0.00 0.00 43.62 4.85
2369 2923 2.248280 TTAGAAACGCAAGACAGCCA 57.752 45.000 0.00 0.00 43.62 4.75
2370 2924 2.248280 TAGAAACGCAAGACAGCCAA 57.752 45.000 0.00 0.00 43.62 4.52
2371 2925 1.609208 AGAAACGCAAGACAGCCAAT 58.391 45.000 0.00 0.00 43.62 3.16
2372 2926 2.778299 AGAAACGCAAGACAGCCAATA 58.222 42.857 0.00 0.00 43.62 1.90
2373 2927 2.484264 AGAAACGCAAGACAGCCAATAC 59.516 45.455 0.00 0.00 43.62 1.89
2374 2928 0.796312 AACGCAAGACAGCCAATACG 59.204 50.000 0.00 0.00 43.62 3.06
2375 2929 0.037697 ACGCAAGACAGCCAATACGA 60.038 50.000 0.00 0.00 43.62 3.43
2376 2930 1.075542 CGCAAGACAGCCAATACGAA 58.924 50.000 0.00 0.00 43.02 3.85
2377 2931 1.463056 CGCAAGACAGCCAATACGAAA 59.537 47.619 0.00 0.00 43.02 3.46
2378 2932 2.095853 CGCAAGACAGCCAATACGAAAT 59.904 45.455 0.00 0.00 43.02 2.17
2379 2933 3.429085 GCAAGACAGCCAATACGAAATG 58.571 45.455 0.00 0.00 0.00 2.32
2380 2934 3.429085 CAAGACAGCCAATACGAAATGC 58.571 45.455 0.00 0.00 0.00 3.56
2381 2935 2.991250 AGACAGCCAATACGAAATGCT 58.009 42.857 0.00 0.00 0.00 3.79
2382 2936 2.939103 AGACAGCCAATACGAAATGCTC 59.061 45.455 0.00 0.00 0.00 4.26
2393 2947 1.336877 GAAATGCTCGAAAAACGGCC 58.663 50.000 0.00 0.00 42.82 6.13
2394 2948 0.386731 AAATGCTCGAAAAACGGCCG 60.387 50.000 26.86 26.86 42.82 6.13
2395 2949 2.796245 AATGCTCGAAAAACGGCCGC 62.796 55.000 28.58 7.46 42.82 6.53
2399 2953 4.676586 CGAAAAACGGCCGCGCTT 62.677 61.111 28.58 15.93 38.46 4.68
2400 2954 2.557298 GAAAAACGGCCGCGCTTA 59.443 55.556 28.58 0.00 0.00 3.09
2401 2955 1.081972 GAAAAACGGCCGCGCTTAA 60.082 52.632 28.58 0.00 0.00 1.85
2402 2956 0.660891 GAAAAACGGCCGCGCTTAAA 60.661 50.000 28.58 0.00 0.00 1.52
2403 2957 0.662077 AAAAACGGCCGCGCTTAAAG 60.662 50.000 28.58 0.00 0.00 1.85
2404 2958 2.466520 AAAACGGCCGCGCTTAAAGG 62.467 55.000 28.58 0.00 0.00 3.11
2405 2959 3.887335 AACGGCCGCGCTTAAAGGA 62.887 57.895 28.58 0.00 0.00 3.36
2406 2960 2.895372 CGGCCGCGCTTAAAGGAT 60.895 61.111 14.67 0.00 0.00 3.24
2407 2961 2.715624 GGCCGCGCTTAAAGGATG 59.284 61.111 5.56 0.00 0.00 3.51
2408 2962 2.024729 GCCGCGCTTAAAGGATGC 59.975 61.111 5.56 0.00 0.00 3.91
2409 2963 2.715624 CCGCGCTTAAAGGATGCC 59.284 61.111 5.56 0.00 0.00 4.40
2410 2964 2.715624 CGCGCTTAAAGGATGCCC 59.284 61.111 5.56 0.00 0.00 5.36
2412 2966 1.776034 CGCGCTTAAAGGATGCCCTC 61.776 60.000 5.56 0.00 43.48 4.30
2413 2967 0.748005 GCGCTTAAAGGATGCCCTCA 60.748 55.000 0.00 0.00 43.48 3.86
2414 2968 1.303309 CGCTTAAAGGATGCCCTCAG 58.697 55.000 0.00 0.00 43.48 3.35
2415 2969 1.028130 GCTTAAAGGATGCCCTCAGC 58.972 55.000 0.00 0.00 43.48 4.26
2428 2982 2.658538 CTCAGCGTCGAGGAACATG 58.341 57.895 9.75 0.00 0.00 3.21
2429 2983 0.109086 CTCAGCGTCGAGGAACATGT 60.109 55.000 9.75 0.00 0.00 3.21
2430 2984 0.388520 TCAGCGTCGAGGAACATGTG 60.389 55.000 9.75 0.00 0.00 3.21
2431 2985 1.738099 AGCGTCGAGGAACATGTGC 60.738 57.895 9.75 0.00 0.00 4.57
2432 2986 1.738099 GCGTCGAGGAACATGTGCT 60.738 57.895 9.75 0.00 0.00 4.40
2433 2987 0.457853 GCGTCGAGGAACATGTGCTA 60.458 55.000 9.75 0.00 0.00 3.49
2434 2988 1.550065 CGTCGAGGAACATGTGCTAG 58.450 55.000 3.21 0.00 0.00 3.42
2435 2989 1.799181 CGTCGAGGAACATGTGCTAGG 60.799 57.143 3.21 0.00 0.00 3.02
2436 2990 0.824109 TCGAGGAACATGTGCTAGGG 59.176 55.000 3.21 0.00 0.00 3.53
2437 2991 0.537188 CGAGGAACATGTGCTAGGGT 59.463 55.000 3.21 0.00 0.00 4.34
2438 2992 1.740380 CGAGGAACATGTGCTAGGGTG 60.740 57.143 3.21 0.00 0.00 4.61
2439 2993 1.279271 GAGGAACATGTGCTAGGGTGT 59.721 52.381 3.21 0.00 0.00 4.16
2440 2994 2.500098 GAGGAACATGTGCTAGGGTGTA 59.500 50.000 3.21 0.00 0.00 2.90
2441 2995 3.115390 AGGAACATGTGCTAGGGTGTAT 58.885 45.455 3.21 0.00 0.00 2.29
2442 2996 3.118261 AGGAACATGTGCTAGGGTGTATG 60.118 47.826 3.21 0.00 0.00 2.39
2443 2997 3.370527 GGAACATGTGCTAGGGTGTATGT 60.371 47.826 3.21 0.00 0.00 2.29
2444 2998 3.266510 ACATGTGCTAGGGTGTATGTG 57.733 47.619 0.00 0.00 0.00 3.21
2445 2999 1.942657 CATGTGCTAGGGTGTATGTGC 59.057 52.381 0.00 0.00 0.00 4.57
2446 3000 0.108377 TGTGCTAGGGTGTATGTGCG 60.108 55.000 0.00 0.00 0.00 5.34
2447 3001 0.174845 GTGCTAGGGTGTATGTGCGA 59.825 55.000 0.00 0.00 0.00 5.10
2448 3002 0.174845 TGCTAGGGTGTATGTGCGAC 59.825 55.000 0.00 0.00 0.00 5.19
2449 3003 0.460311 GCTAGGGTGTATGTGCGACT 59.540 55.000 0.00 0.00 0.00 4.18
2450 3004 1.536284 GCTAGGGTGTATGTGCGACTC 60.536 57.143 0.00 0.00 0.00 3.36
2451 3005 0.736636 TAGGGTGTATGTGCGACTCG 59.263 55.000 0.00 0.00 0.00 4.18
2452 3006 1.214589 GGGTGTATGTGCGACTCGT 59.785 57.895 0.00 0.00 0.00 4.18
2453 3007 0.389426 GGGTGTATGTGCGACTCGTT 60.389 55.000 0.00 0.00 0.00 3.85
2454 3008 0.989890 GGTGTATGTGCGACTCGTTC 59.010 55.000 0.00 0.00 0.00 3.95
2455 3009 1.667756 GGTGTATGTGCGACTCGTTCA 60.668 52.381 0.00 0.67 0.00 3.18
2456 3010 1.649171 GTGTATGTGCGACTCGTTCAG 59.351 52.381 0.00 0.00 0.00 3.02
2457 3011 1.538075 TGTATGTGCGACTCGTTCAGA 59.462 47.619 0.00 0.00 0.00 3.27
2458 3012 2.163613 TGTATGTGCGACTCGTTCAGAT 59.836 45.455 0.00 0.00 0.00 2.90
2459 3013 1.914634 ATGTGCGACTCGTTCAGATC 58.085 50.000 0.00 0.00 0.00 2.75
2460 3014 0.596082 TGTGCGACTCGTTCAGATCA 59.404 50.000 0.00 0.00 0.00 2.92
2461 3015 1.202348 TGTGCGACTCGTTCAGATCAT 59.798 47.619 0.00 0.00 0.00 2.45
2462 3016 1.585668 GTGCGACTCGTTCAGATCATG 59.414 52.381 0.00 0.00 0.00 3.07
2463 3017 1.472480 TGCGACTCGTTCAGATCATGA 59.528 47.619 0.00 0.00 35.62 3.07
2464 3018 1.849219 GCGACTCGTTCAGATCATGAC 59.151 52.381 0.00 0.00 37.77 3.06
2465 3019 2.478709 GCGACTCGTTCAGATCATGACT 60.479 50.000 0.00 0.00 37.77 3.41
2466 3020 3.763902 CGACTCGTTCAGATCATGACTT 58.236 45.455 0.00 0.00 37.77 3.01
2467 3021 3.788694 CGACTCGTTCAGATCATGACTTC 59.211 47.826 0.00 0.00 37.77 3.01
2468 3022 4.672801 CGACTCGTTCAGATCATGACTTCA 60.673 45.833 0.00 0.00 37.77 3.02
2469 3023 5.139435 ACTCGTTCAGATCATGACTTCAA 57.861 39.130 0.00 0.00 37.77 2.69
2470 3024 5.541845 ACTCGTTCAGATCATGACTTCAAA 58.458 37.500 0.00 0.00 37.77 2.69
2471 3025 5.406780 ACTCGTTCAGATCATGACTTCAAAC 59.593 40.000 0.00 1.53 37.77 2.93
2472 3026 5.296748 TCGTTCAGATCATGACTTCAAACA 58.703 37.500 0.00 0.00 37.77 2.83
2473 3027 5.757808 TCGTTCAGATCATGACTTCAAACAA 59.242 36.000 0.00 0.00 37.77 2.83
2474 3028 6.259829 TCGTTCAGATCATGACTTCAAACAAA 59.740 34.615 0.00 0.00 37.77 2.83
2475 3029 7.041167 TCGTTCAGATCATGACTTCAAACAAAT 60.041 33.333 0.00 0.00 37.77 2.32
2476 3030 8.229811 CGTTCAGATCATGACTTCAAACAAATA 58.770 33.333 0.00 0.00 37.77 1.40
2512 3066 9.559732 TTGAAGTATCCATGATTAGTACCAATG 57.440 33.333 0.00 0.00 0.00 2.82
2513 3067 8.933653 TGAAGTATCCATGATTAGTACCAATGA 58.066 33.333 0.00 0.00 0.00 2.57
2514 3068 9.778741 GAAGTATCCATGATTAGTACCAATGAA 57.221 33.333 0.00 0.00 0.00 2.57
2519 3073 8.504811 TCCATGATTAGTACCAATGAATAGGA 57.495 34.615 0.00 0.00 0.00 2.94
2520 3074 9.116080 TCCATGATTAGTACCAATGAATAGGAT 57.884 33.333 0.00 0.00 0.00 3.24
2529 3083 9.554053 AGTACCAATGAATAGGATATAGCTTCT 57.446 33.333 0.00 0.00 0.00 2.85
2530 3084 9.810545 GTACCAATGAATAGGATATAGCTTCTC 57.189 37.037 0.00 0.00 0.00 2.87
2531 3085 8.677870 ACCAATGAATAGGATATAGCTTCTCT 57.322 34.615 0.00 0.00 0.00 3.10
2532 3086 9.775539 ACCAATGAATAGGATATAGCTTCTCTA 57.224 33.333 0.00 0.00 0.00 2.43
2548 3102 8.593945 AGCTTCTCTATCCTAGATTTCTATGG 57.406 38.462 0.00 0.00 33.66 2.74
2549 3103 8.176780 AGCTTCTCTATCCTAGATTTCTATGGT 58.823 37.037 0.00 0.00 33.66 3.55
2550 3104 9.469097 GCTTCTCTATCCTAGATTTCTATGGTA 57.531 37.037 0.00 0.00 33.66 3.25
2571 3125 9.897040 ATGGTATATGGAATTTATGGTTTCCTT 57.103 29.630 3.60 0.33 41.65 3.36
2572 3126 9.722317 TGGTATATGGAATTTATGGTTTCCTTT 57.278 29.630 3.60 0.00 41.65 3.11
2573 3127 9.981114 GGTATATGGAATTTATGGTTTCCTTTG 57.019 33.333 3.60 0.00 41.65 2.77
2574 3128 9.981114 GTATATGGAATTTATGGTTTCCTTTGG 57.019 33.333 3.60 0.00 41.65 3.28
2575 3129 6.950860 ATGGAATTTATGGTTTCCTTTGGT 57.049 33.333 3.60 0.00 41.65 3.67
2576 3130 6.107901 TGGAATTTATGGTTTCCTTTGGTG 57.892 37.500 3.60 0.00 41.65 4.17
2577 3131 4.935205 GGAATTTATGGTTTCCTTTGGTGC 59.065 41.667 0.00 0.00 38.68 5.01
2578 3132 5.512232 GGAATTTATGGTTTCCTTTGGTGCA 60.512 40.000 0.00 0.00 38.68 4.57
2579 3133 5.559148 ATTTATGGTTTCCTTTGGTGCAA 57.441 34.783 0.00 0.00 0.00 4.08
2580 3134 5.359194 TTTATGGTTTCCTTTGGTGCAAA 57.641 34.783 0.00 0.00 0.00 3.68
2581 3135 5.559148 TTATGGTTTCCTTTGGTGCAAAT 57.441 34.783 0.00 0.00 32.70 2.32
2582 3136 3.467374 TGGTTTCCTTTGGTGCAAATC 57.533 42.857 0.00 0.00 32.70 2.17
2583 3137 2.103941 TGGTTTCCTTTGGTGCAAATCC 59.896 45.455 0.00 0.00 32.70 3.01
2584 3138 2.103941 GGTTTCCTTTGGTGCAAATCCA 59.896 45.455 0.00 0.00 32.70 3.41
2585 3139 3.432890 GGTTTCCTTTGGTGCAAATCCAA 60.433 43.478 3.24 3.24 42.29 3.53
2586 3140 4.388485 GTTTCCTTTGGTGCAAATCCAAT 58.612 39.130 7.99 0.00 43.25 3.16
2587 3141 4.703379 TTCCTTTGGTGCAAATCCAATT 57.297 36.364 7.99 0.00 43.25 2.32
2588 3142 5.815233 TTCCTTTGGTGCAAATCCAATTA 57.185 34.783 7.99 0.00 43.25 1.40
2589 3143 6.371595 TTCCTTTGGTGCAAATCCAATTAT 57.628 33.333 7.99 0.00 43.25 1.28
2590 3144 5.976458 TCCTTTGGTGCAAATCCAATTATC 58.024 37.500 7.99 0.00 43.25 1.75
2591 3145 5.721000 TCCTTTGGTGCAAATCCAATTATCT 59.279 36.000 7.99 0.00 43.25 1.98
2592 3146 6.894654 TCCTTTGGTGCAAATCCAATTATCTA 59.105 34.615 7.99 0.00 43.25 1.98
2593 3147 7.398618 TCCTTTGGTGCAAATCCAATTATCTAA 59.601 33.333 7.99 0.00 43.25 2.10
2594 3148 8.040132 CCTTTGGTGCAAATCCAATTATCTAAA 58.960 33.333 7.99 0.00 43.25 1.85
2595 3149 9.603921 CTTTGGTGCAAATCCAATTATCTAAAT 57.396 29.630 7.99 0.00 43.25 1.40
2596 3150 9.956640 TTTGGTGCAAATCCAATTATCTAAATT 57.043 25.926 7.99 0.00 43.25 1.82
2597 3151 8.945481 TGGTGCAAATCCAATTATCTAAATTG 57.055 30.769 0.00 3.94 37.38 2.32
2598 3152 8.538701 TGGTGCAAATCCAATTATCTAAATTGT 58.461 29.630 9.03 0.00 36.24 2.71
2618 3172 9.875691 AAATTGTAAATAAGAAGCAATTCTCCC 57.124 29.630 0.00 0.00 38.37 4.30
2619 3173 8.593945 ATTGTAAATAAGAAGCAATTCTCCCA 57.406 30.769 0.00 0.00 0.00 4.37
2620 3174 8.593945 TTGTAAATAAGAAGCAATTCTCCCAT 57.406 30.769 0.00 0.00 0.00 4.00
2621 3175 8.593945 TGTAAATAAGAAGCAATTCTCCCATT 57.406 30.769 0.00 0.00 0.00 3.16
2622 3176 8.469200 TGTAAATAAGAAGCAATTCTCCCATTG 58.531 33.333 0.00 0.00 37.23 2.82
2623 3177 6.475596 AATAAGAAGCAATTCTCCCATTGG 57.524 37.500 0.00 0.00 35.07 3.16
2624 3178 3.463048 AGAAGCAATTCTCCCATTGGT 57.537 42.857 1.20 0.00 44.84 3.67
2625 3179 4.591321 AGAAGCAATTCTCCCATTGGTA 57.409 40.909 1.20 0.00 42.68 3.25
2626 3180 4.530875 AGAAGCAATTCTCCCATTGGTAG 58.469 43.478 1.20 0.00 42.68 3.18
2627 3181 2.659428 AGCAATTCTCCCATTGGTAGC 58.341 47.619 1.20 0.00 41.90 3.58
2628 3182 2.025037 AGCAATTCTCCCATTGGTAGCA 60.025 45.455 1.20 0.00 41.90 3.49
2629 3183 2.760092 GCAATTCTCCCATTGGTAGCAA 59.240 45.455 10.22 10.22 35.07 3.91
2630 3184 3.195396 GCAATTCTCCCATTGGTAGCAAA 59.805 43.478 12.00 0.00 35.07 3.68
2631 3185 4.141869 GCAATTCTCCCATTGGTAGCAAAT 60.142 41.667 12.00 0.00 35.07 2.32
2632 3186 5.353938 CAATTCTCCCATTGGTAGCAAATG 58.646 41.667 12.00 10.12 35.26 2.32
2639 3193 5.200368 CCATTGGTAGCAAATGGTTATCC 57.800 43.478 12.00 0.00 46.05 2.59
2640 3194 4.648762 CCATTGGTAGCAAATGGTTATCCA 59.351 41.667 12.00 0.00 46.05 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 2.371179 TGTAACGGGTTTGTATGGTCCA 59.629 45.455 0.00 0.00 0.00 4.02
62 63 4.671831 TCATTTATTTCTTGCAGGGGTGA 58.328 39.130 0.00 0.00 0.00 4.02
596 601 3.772025 CTGACACAGAATCCCCTAGAAGT 59.228 47.826 0.00 0.00 32.44 3.01
690 695 9.244292 TGGCACTTATCGAGTATAGAATAGATT 57.756 33.333 0.00 0.00 36.65 2.40
807 812 9.401058 AGGAATGTAAGACAGATTGAATAAAGG 57.599 33.333 0.00 0.00 0.00 3.11
1141 1148 4.526262 ACTCAGATATACCATGAGACCTGC 59.474 45.833 14.45 0.00 42.48 4.85
1220 1228 7.104043 TCAAAAATAGCCATTCCTGAGATTG 57.896 36.000 0.00 0.00 0.00 2.67
1846 1887 1.783031 TTAAGCGCGGCCGTTTTTCA 61.783 50.000 28.70 7.20 38.78 2.69
2310 2864 7.327518 CGTCGGCATGTTGTATGTATATAGAAA 59.672 37.037 0.00 0.00 0.00 2.52
2311 2865 6.804783 CGTCGGCATGTTGTATGTATATAGAA 59.195 38.462 0.00 0.00 0.00 2.10
2312 2866 6.319399 CGTCGGCATGTTGTATGTATATAGA 58.681 40.000 0.00 0.00 0.00 1.98
2313 2867 5.515270 CCGTCGGCATGTTGTATGTATATAG 59.485 44.000 0.00 0.00 0.00 1.31
2314 2868 5.047872 ACCGTCGGCATGTTGTATGTATATA 60.048 40.000 12.28 0.00 0.00 0.86
2315 2869 4.242475 CCGTCGGCATGTTGTATGTATAT 58.758 43.478 0.00 0.00 0.00 0.86
2316 2870 3.068448 ACCGTCGGCATGTTGTATGTATA 59.932 43.478 12.28 0.00 0.00 1.47
2317 2871 2.159014 ACCGTCGGCATGTTGTATGTAT 60.159 45.455 12.28 0.00 0.00 2.29
2318 2872 1.205179 ACCGTCGGCATGTTGTATGTA 59.795 47.619 12.28 0.00 0.00 2.29
2319 2873 0.036765 ACCGTCGGCATGTTGTATGT 60.037 50.000 12.28 0.00 0.00 2.29
2320 2874 1.083489 AACCGTCGGCATGTTGTATG 58.917 50.000 12.28 0.00 0.00 2.39
2321 2875 2.676632 TAACCGTCGGCATGTTGTAT 57.323 45.000 12.28 0.00 0.00 2.29
2322 2876 2.452295 TTAACCGTCGGCATGTTGTA 57.548 45.000 12.28 0.00 0.00 2.41
2323 2877 1.264826 GTTTAACCGTCGGCATGTTGT 59.735 47.619 12.28 0.00 0.00 3.32
2324 2878 1.264557 TGTTTAACCGTCGGCATGTTG 59.735 47.619 12.28 0.00 0.00 3.33
2325 2879 1.595466 TGTTTAACCGTCGGCATGTT 58.405 45.000 12.28 0.01 0.00 2.71
2326 2880 1.264826 GTTGTTTAACCGTCGGCATGT 59.735 47.619 12.28 0.00 0.00 3.21
2327 2881 1.533731 AGTTGTTTAACCGTCGGCATG 59.466 47.619 12.28 0.00 37.52 4.06
2328 2882 1.886886 AGTTGTTTAACCGTCGGCAT 58.113 45.000 12.28 2.94 37.52 4.40
2329 2883 1.666054 AAGTTGTTTAACCGTCGGCA 58.334 45.000 12.28 0.00 37.52 5.69
2330 2884 4.408993 AATAAGTTGTTTAACCGTCGGC 57.591 40.909 12.28 0.00 37.52 5.54
2331 2885 6.949578 TCTAATAAGTTGTTTAACCGTCGG 57.050 37.500 10.48 10.48 37.52 4.79
2332 2886 7.472186 CGTTTCTAATAAGTTGTTTAACCGTCG 59.528 37.037 0.00 0.00 37.52 5.12
2333 2887 7.266966 GCGTTTCTAATAAGTTGTTTAACCGTC 59.733 37.037 0.00 0.00 37.52 4.79
2334 2888 7.071414 GCGTTTCTAATAAGTTGTTTAACCGT 58.929 34.615 0.00 0.00 37.52 4.83
2335 2889 7.070798 TGCGTTTCTAATAAGTTGTTTAACCG 58.929 34.615 0.00 0.00 37.52 4.44
2336 2890 8.785468 TTGCGTTTCTAATAAGTTGTTTAACC 57.215 30.769 0.00 0.00 37.52 2.85
2337 2891 9.654417 TCTTGCGTTTCTAATAAGTTGTTTAAC 57.346 29.630 0.00 0.00 37.06 2.01
2338 2892 9.654417 GTCTTGCGTTTCTAATAAGTTGTTTAA 57.346 29.630 0.00 0.00 0.00 1.52
2339 2893 8.828644 TGTCTTGCGTTTCTAATAAGTTGTTTA 58.171 29.630 0.00 0.00 0.00 2.01
2340 2894 7.699566 TGTCTTGCGTTTCTAATAAGTTGTTT 58.300 30.769 0.00 0.00 0.00 2.83
2341 2895 7.254227 TGTCTTGCGTTTCTAATAAGTTGTT 57.746 32.000 0.00 0.00 0.00 2.83
2342 2896 6.565999 GCTGTCTTGCGTTTCTAATAAGTTGT 60.566 38.462 0.00 0.00 0.00 3.32
2343 2897 5.790495 GCTGTCTTGCGTTTCTAATAAGTTG 59.210 40.000 0.00 0.00 0.00 3.16
2344 2898 5.106673 GGCTGTCTTGCGTTTCTAATAAGTT 60.107 40.000 0.00 0.00 0.00 2.66
2345 2899 4.392138 GGCTGTCTTGCGTTTCTAATAAGT 59.608 41.667 0.00 0.00 0.00 2.24
2346 2900 4.391830 TGGCTGTCTTGCGTTTCTAATAAG 59.608 41.667 0.00 0.00 0.00 1.73
2347 2901 4.320023 TGGCTGTCTTGCGTTTCTAATAA 58.680 39.130 0.00 0.00 0.00 1.40
2348 2902 3.932822 TGGCTGTCTTGCGTTTCTAATA 58.067 40.909 0.00 0.00 0.00 0.98
2349 2903 2.778299 TGGCTGTCTTGCGTTTCTAAT 58.222 42.857 0.00 0.00 0.00 1.73
2350 2904 2.248280 TGGCTGTCTTGCGTTTCTAA 57.752 45.000 0.00 0.00 0.00 2.10
2351 2905 2.248280 TTGGCTGTCTTGCGTTTCTA 57.752 45.000 0.00 0.00 0.00 2.10
2352 2906 1.609208 ATTGGCTGTCTTGCGTTTCT 58.391 45.000 0.00 0.00 0.00 2.52
2353 2907 2.724839 CGTATTGGCTGTCTTGCGTTTC 60.725 50.000 0.00 0.00 0.00 2.78
2354 2908 1.196808 CGTATTGGCTGTCTTGCGTTT 59.803 47.619 0.00 0.00 0.00 3.60
2355 2909 0.796312 CGTATTGGCTGTCTTGCGTT 59.204 50.000 0.00 0.00 0.00 4.84
2356 2910 0.037697 TCGTATTGGCTGTCTTGCGT 60.038 50.000 0.00 0.00 0.00 5.24
2357 2911 1.075542 TTCGTATTGGCTGTCTTGCG 58.924 50.000 0.00 0.00 0.00 4.85
2358 2912 3.429085 CATTTCGTATTGGCTGTCTTGC 58.571 45.455 0.00 0.00 0.00 4.01
2359 2913 3.127548 AGCATTTCGTATTGGCTGTCTTG 59.872 43.478 0.00 0.00 32.76 3.02
2360 2914 3.347216 AGCATTTCGTATTGGCTGTCTT 58.653 40.909 0.00 0.00 32.76 3.01
2361 2915 2.939103 GAGCATTTCGTATTGGCTGTCT 59.061 45.455 0.00 0.00 34.44 3.41
2362 2916 2.285834 CGAGCATTTCGTATTGGCTGTC 60.286 50.000 0.00 0.00 44.27 3.51
2363 2917 1.665679 CGAGCATTTCGTATTGGCTGT 59.334 47.619 0.00 0.00 44.27 4.40
2364 2918 2.373735 CGAGCATTTCGTATTGGCTG 57.626 50.000 0.00 0.00 44.27 4.85
2374 2928 1.336877 GGCCGTTTTTCGAGCATTTC 58.663 50.000 0.00 0.00 42.86 2.17
2375 2929 0.386731 CGGCCGTTTTTCGAGCATTT 60.387 50.000 19.50 0.00 42.86 2.32
2376 2930 1.209127 CGGCCGTTTTTCGAGCATT 59.791 52.632 19.50 0.00 42.86 3.56
2377 2931 2.867472 CGGCCGTTTTTCGAGCAT 59.133 55.556 19.50 0.00 42.86 3.79
2378 2932 4.020378 GCGGCCGTTTTTCGAGCA 62.020 61.111 28.70 0.00 42.86 4.26
2382 2936 2.767415 TTAAGCGCGGCCGTTTTTCG 62.767 55.000 28.70 21.86 38.78 3.46
2383 2937 0.660891 TTTAAGCGCGGCCGTTTTTC 60.661 50.000 28.70 8.50 38.78 2.29
2384 2938 0.662077 CTTTAAGCGCGGCCGTTTTT 60.662 50.000 28.70 19.53 38.78 1.94
2385 2939 1.081708 CTTTAAGCGCGGCCGTTTT 60.082 52.632 28.70 19.89 38.78 2.43
2386 2940 2.559330 CTTTAAGCGCGGCCGTTT 59.441 55.556 28.70 20.24 40.92 3.60
2387 2941 3.428282 CCTTTAAGCGCGGCCGTT 61.428 61.111 28.70 16.08 36.67 4.44
2388 2942 3.675619 ATCCTTTAAGCGCGGCCGT 62.676 57.895 28.70 9.45 36.67 5.68
2389 2943 2.895372 ATCCTTTAAGCGCGGCCG 60.895 61.111 24.05 24.05 37.57 6.13
2390 2944 2.715624 CATCCTTTAAGCGCGGCC 59.284 61.111 8.83 0.00 0.00 6.13
2391 2945 2.024729 GCATCCTTTAAGCGCGGC 59.975 61.111 8.83 0.00 0.00 6.53
2392 2946 2.715624 GGCATCCTTTAAGCGCGG 59.284 61.111 8.83 0.00 0.00 6.46
2393 2947 1.776034 GAGGGCATCCTTTAAGCGCG 61.776 60.000 0.00 0.00 45.05 6.86
2394 2948 0.748005 TGAGGGCATCCTTTAAGCGC 60.748 55.000 0.00 0.00 45.05 5.92
2395 2949 1.303309 CTGAGGGCATCCTTTAAGCG 58.697 55.000 0.00 0.00 45.05 4.68
2396 2950 1.028130 GCTGAGGGCATCCTTTAAGC 58.972 55.000 0.00 0.00 45.05 3.09
2397 2951 1.303309 CGCTGAGGGCATCCTTTAAG 58.697 55.000 0.00 0.00 45.05 1.85
2398 2952 0.618458 ACGCTGAGGGCATCCTTTAA 59.382 50.000 0.00 0.00 45.05 1.52
2399 2953 0.178068 GACGCTGAGGGCATCCTTTA 59.822 55.000 0.00 0.00 45.05 1.85
2400 2954 1.078143 GACGCTGAGGGCATCCTTT 60.078 57.895 0.00 0.00 45.05 3.11
2401 2955 2.586792 GACGCTGAGGGCATCCTT 59.413 61.111 0.00 0.00 45.05 3.36
2403 2957 3.781770 CTCGACGCTGAGGGCATCC 62.782 68.421 0.00 0.00 41.91 3.51
2404 2958 2.279120 CTCGACGCTGAGGGCATC 60.279 66.667 0.00 0.00 41.91 3.91
2410 2964 0.109086 ACATGTTCCTCGACGCTGAG 60.109 55.000 0.00 0.00 35.70 3.35
2411 2965 0.388520 CACATGTTCCTCGACGCTGA 60.389 55.000 0.00 0.00 0.00 4.26
2412 2966 1.959899 GCACATGTTCCTCGACGCTG 61.960 60.000 0.00 0.00 0.00 5.18
2413 2967 1.738099 GCACATGTTCCTCGACGCT 60.738 57.895 0.00 0.00 0.00 5.07
2414 2968 0.457853 TAGCACATGTTCCTCGACGC 60.458 55.000 0.00 0.00 0.00 5.19
2415 2969 1.550065 CTAGCACATGTTCCTCGACG 58.450 55.000 0.00 0.00 0.00 5.12
2416 2970 1.471676 CCCTAGCACATGTTCCTCGAC 60.472 57.143 0.00 0.00 0.00 4.20
2417 2971 0.824109 CCCTAGCACATGTTCCTCGA 59.176 55.000 0.00 0.00 0.00 4.04
2418 2972 0.537188 ACCCTAGCACATGTTCCTCG 59.463 55.000 0.00 0.00 0.00 4.63
2419 2973 1.279271 ACACCCTAGCACATGTTCCTC 59.721 52.381 0.00 0.00 0.00 3.71
2420 2974 1.362224 ACACCCTAGCACATGTTCCT 58.638 50.000 0.00 0.00 0.00 3.36
2421 2975 3.206150 CATACACCCTAGCACATGTTCC 58.794 50.000 0.00 0.00 0.00 3.62
2422 2976 3.623060 CACATACACCCTAGCACATGTTC 59.377 47.826 0.00 0.00 0.00 3.18
2423 2977 3.609853 CACATACACCCTAGCACATGTT 58.390 45.455 0.00 0.00 0.00 2.71
2424 2978 2.680805 GCACATACACCCTAGCACATGT 60.681 50.000 0.00 0.00 0.00 3.21
2425 2979 1.942657 GCACATACACCCTAGCACATG 59.057 52.381 0.00 0.00 0.00 3.21
2426 2980 1.473257 CGCACATACACCCTAGCACAT 60.473 52.381 0.00 0.00 0.00 3.21
2427 2981 0.108377 CGCACATACACCCTAGCACA 60.108 55.000 0.00 0.00 0.00 4.57
2428 2982 0.174845 TCGCACATACACCCTAGCAC 59.825 55.000 0.00 0.00 0.00 4.40
2429 2983 0.174845 GTCGCACATACACCCTAGCA 59.825 55.000 0.00 0.00 0.00 3.49
2430 2984 0.460311 AGTCGCACATACACCCTAGC 59.540 55.000 0.00 0.00 0.00 3.42
2431 2985 1.268589 CGAGTCGCACATACACCCTAG 60.269 57.143 0.00 0.00 0.00 3.02
2432 2986 0.736636 CGAGTCGCACATACACCCTA 59.263 55.000 0.00 0.00 0.00 3.53
2433 2987 1.248785 ACGAGTCGCACATACACCCT 61.249 55.000 13.59 0.00 0.00 4.34
2434 2988 0.389426 AACGAGTCGCACATACACCC 60.389 55.000 13.59 0.00 0.00 4.61
2435 2989 0.989890 GAACGAGTCGCACATACACC 59.010 55.000 13.59 0.00 0.00 4.16
2436 2990 1.649171 CTGAACGAGTCGCACATACAC 59.351 52.381 13.59 0.00 0.00 2.90
2437 2991 1.538075 TCTGAACGAGTCGCACATACA 59.462 47.619 13.59 3.41 0.00 2.29
2438 2992 2.257974 TCTGAACGAGTCGCACATAC 57.742 50.000 13.59 0.00 0.00 2.39
2439 2993 2.422127 TGATCTGAACGAGTCGCACATA 59.578 45.455 13.59 6.29 0.00 2.29
2440 2994 1.202348 TGATCTGAACGAGTCGCACAT 59.798 47.619 13.59 0.00 0.00 3.21
2441 2995 0.596082 TGATCTGAACGAGTCGCACA 59.404 50.000 13.59 11.91 0.00 4.57
2442 2996 1.585668 CATGATCTGAACGAGTCGCAC 59.414 52.381 13.59 7.53 0.00 5.34
2443 2997 1.472480 TCATGATCTGAACGAGTCGCA 59.528 47.619 13.59 2.26 0.00 5.10
2444 2998 1.849219 GTCATGATCTGAACGAGTCGC 59.151 52.381 13.59 0.00 35.07 5.19
2445 2999 3.412981 AGTCATGATCTGAACGAGTCG 57.587 47.619 11.85 11.85 35.07 4.18
2446 3000 4.738124 TGAAGTCATGATCTGAACGAGTC 58.262 43.478 0.00 0.00 35.07 3.36
2447 3001 4.790765 TGAAGTCATGATCTGAACGAGT 57.209 40.909 0.00 0.00 35.07 4.18
2448 3002 5.406477 TGTTTGAAGTCATGATCTGAACGAG 59.594 40.000 0.00 0.00 35.07 4.18
2449 3003 5.296748 TGTTTGAAGTCATGATCTGAACGA 58.703 37.500 0.00 0.00 35.07 3.85
2450 3004 5.596268 TGTTTGAAGTCATGATCTGAACG 57.404 39.130 0.00 0.00 35.07 3.95
2486 3040 9.559732 CATTGGTACTAATCATGGATACTTCAA 57.440 33.333 0.78 0.00 37.61 2.69
2487 3041 8.933653 TCATTGGTACTAATCATGGATACTTCA 58.066 33.333 0.78 0.00 37.61 3.02
2488 3042 9.778741 TTCATTGGTACTAATCATGGATACTTC 57.221 33.333 0.78 0.00 37.61 3.01
2493 3047 9.116080 TCCTATTCATTGGTACTAATCATGGAT 57.884 33.333 0.78 0.00 0.00 3.41
2494 3048 8.504811 TCCTATTCATTGGTACTAATCATGGA 57.495 34.615 0.78 3.66 0.00 3.41
2503 3057 9.554053 AGAAGCTATATCCTATTCATTGGTACT 57.446 33.333 0.00 0.00 0.00 2.73
2504 3058 9.810545 GAGAAGCTATATCCTATTCATTGGTAC 57.189 37.037 0.00 0.00 0.00 3.34
2505 3059 9.775539 AGAGAAGCTATATCCTATTCATTGGTA 57.224 33.333 0.00 0.00 0.00 3.25
2506 3060 8.677870 AGAGAAGCTATATCCTATTCATTGGT 57.322 34.615 0.00 0.00 0.00 3.67
2545 3099 9.897040 AAGGAAACCATAAATTCCATATACCAT 57.103 29.630 7.25 0.00 46.14 3.55
2546 3100 9.722317 AAAGGAAACCATAAATTCCATATACCA 57.278 29.630 7.25 0.00 46.14 3.25
2547 3101 9.981114 CAAAGGAAACCATAAATTCCATATACC 57.019 33.333 7.25 0.00 46.14 2.73
2548 3102 9.981114 CCAAAGGAAACCATAAATTCCATATAC 57.019 33.333 7.25 0.00 46.14 1.47
2549 3103 9.722317 ACCAAAGGAAACCATAAATTCCATATA 57.278 29.630 7.25 0.00 46.14 0.86
2550 3104 8.485392 CACCAAAGGAAACCATAAATTCCATAT 58.515 33.333 7.25 0.00 46.14 1.78
2551 3105 7.580495 GCACCAAAGGAAACCATAAATTCCATA 60.580 37.037 7.25 0.00 46.14 2.74
2552 3106 6.710278 CACCAAAGGAAACCATAAATTCCAT 58.290 36.000 7.25 0.00 46.14 3.41
2553 3107 5.512232 GCACCAAAGGAAACCATAAATTCCA 60.512 40.000 7.25 0.00 46.14 3.53
2554 3108 4.935205 GCACCAAAGGAAACCATAAATTCC 59.065 41.667 0.00 0.00 44.45 3.01
2555 3109 5.546526 TGCACCAAAGGAAACCATAAATTC 58.453 37.500 0.00 0.00 0.00 2.17
2556 3110 5.559148 TGCACCAAAGGAAACCATAAATT 57.441 34.783 0.00 0.00 0.00 1.82
2557 3111 5.559148 TTGCACCAAAGGAAACCATAAAT 57.441 34.783 0.00 0.00 0.00 1.40
2558 3112 5.359194 TTTGCACCAAAGGAAACCATAAA 57.641 34.783 0.00 0.00 0.00 1.40
2559 3113 5.512232 GGATTTGCACCAAAGGAAACCATAA 60.512 40.000 0.00 0.00 36.76 1.90
2560 3114 4.020662 GGATTTGCACCAAAGGAAACCATA 60.021 41.667 0.00 0.00 36.76 2.74
2561 3115 3.244526 GGATTTGCACCAAAGGAAACCAT 60.245 43.478 0.00 0.00 36.76 3.55
2562 3116 2.103941 GGATTTGCACCAAAGGAAACCA 59.896 45.455 0.00 0.00 36.76 3.67
2563 3117 2.103941 TGGATTTGCACCAAAGGAAACC 59.896 45.455 0.00 0.00 36.76 3.27
2564 3118 3.467374 TGGATTTGCACCAAAGGAAAC 57.533 42.857 0.00 0.00 36.76 2.78
2572 3126 8.538701 ACAATTTAGATAATTGGATTTGCACCA 58.461 29.630 13.07 0.00 40.84 4.17
2573 3127 8.947055 ACAATTTAGATAATTGGATTTGCACC 57.053 30.769 13.07 0.00 40.84 5.01
2592 3146 9.875691 GGGAGAATTGCTTCTTATTTACAATTT 57.124 29.630 0.00 0.00 41.87 1.82
2593 3147 9.034800 TGGGAGAATTGCTTCTTATTTACAATT 57.965 29.630 0.00 0.00 41.87 2.32
2594 3148 8.593945 TGGGAGAATTGCTTCTTATTTACAAT 57.406 30.769 0.00 0.00 41.87 2.71
2595 3149 8.593945 ATGGGAGAATTGCTTCTTATTTACAA 57.406 30.769 0.00 0.00 41.87 2.41
2596 3150 8.469200 CAATGGGAGAATTGCTTCTTATTTACA 58.531 33.333 0.00 0.00 41.87 2.41
2597 3151 7.922811 CCAATGGGAGAATTGCTTCTTATTTAC 59.077 37.037 0.00 0.00 41.87 2.01
2598 3152 7.619302 ACCAATGGGAGAATTGCTTCTTATTTA 59.381 33.333 3.55 0.00 41.87 1.40
2599 3153 6.441604 ACCAATGGGAGAATTGCTTCTTATTT 59.558 34.615 3.55 0.00 41.87 1.40
2600 3154 5.960202 ACCAATGGGAGAATTGCTTCTTATT 59.040 36.000 3.55 0.00 41.87 1.40
2601 3155 5.522641 ACCAATGGGAGAATTGCTTCTTAT 58.477 37.500 3.55 0.00 41.87 1.73
2602 3156 4.934356 ACCAATGGGAGAATTGCTTCTTA 58.066 39.130 3.55 0.00 41.87 2.10
2603 3157 3.782992 ACCAATGGGAGAATTGCTTCTT 58.217 40.909 3.55 0.00 41.87 2.52
2604 3158 3.463048 ACCAATGGGAGAATTGCTTCT 57.537 42.857 3.55 0.00 44.53 2.85
2605 3159 3.067320 GCTACCAATGGGAGAATTGCTTC 59.933 47.826 17.35 0.00 36.42 3.86
2606 3160 3.026694 GCTACCAATGGGAGAATTGCTT 58.973 45.455 17.35 0.00 36.42 3.91
2607 3161 2.025037 TGCTACCAATGGGAGAATTGCT 60.025 45.455 17.35 0.00 36.42 3.91
2608 3162 2.378038 TGCTACCAATGGGAGAATTGC 58.622 47.619 17.35 0.00 36.42 3.56
2609 3163 5.353938 CATTTGCTACCAATGGGAGAATTG 58.646 41.667 17.35 9.36 37.30 2.32
2610 3164 4.406649 CCATTTGCTACCAATGGGAGAATT 59.593 41.667 17.35 0.96 38.05 2.17
2611 3165 3.962718 CCATTTGCTACCAATGGGAGAAT 59.037 43.478 17.35 4.00 38.05 2.40
2612 3166 3.245586 ACCATTTGCTACCAATGGGAGAA 60.246 43.478 17.35 0.03 35.62 2.87
2613 3167 2.311542 ACCATTTGCTACCAATGGGAGA 59.688 45.455 17.35 0.00 35.62 3.71
2614 3168 2.738743 ACCATTTGCTACCAATGGGAG 58.261 47.619 7.27 7.27 35.62 4.30
2615 3169 2.917713 ACCATTTGCTACCAATGGGA 57.082 45.000 14.64 0.00 35.62 4.37
2616 3170 4.039124 GGATAACCATTTGCTACCAATGGG 59.961 45.833 14.64 4.20 35.62 4.00
2617 3171 4.648762 TGGATAACCATTTGCTACCAATGG 59.351 41.667 9.66 9.66 41.77 3.16
2618 3172 5.850557 TGGATAACCATTTGCTACCAATG 57.149 39.130 0.00 0.00 41.77 2.82


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

AutoCloner maintained by Alex Coulton.