Multiple sequence alignment - TraesCS3B01G433300

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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 TraesCS3B01G433300 chr3B 100.000 3062 0 0 1 3062 672108736 672111797 0.000000e+00 5655.0
1 TraesCS3B01G433300 chr3B 89.184 1470 100 24 400 1852 723492670 723494097 0.000000e+00 1779.0
2 TraesCS3B01G433300 chr3B 86.181 398 26 12 1859 2233 723494526 723494917 1.320000e-108 403.0
3 TraesCS3B01G433300 chr3B 87.701 187 21 2 2876 3062 672132388 672132572 1.850000e-52 217.0
4 TraesCS3B01G433300 chr3B 93.182 44 0 1 2877 2920 672111572 672111612 9.170000e-06 62.1
5 TraesCS3B01G433300 chr3B 93.182 44 0 1 2837 2877 672111612 672111655 9.170000e-06 62.1
6 TraesCS3B01G433300 chr3A 87.435 2109 154 51 1 2067 647021815 647023854 0.000000e+00 2324.0
7 TraesCS3B01G433300 chr3A 84.556 777 84 22 1611 2375 647135841 647136593 0.000000e+00 737.0
8 TraesCS3B01G433300 chr3A 87.432 183 14 7 545 721 646993750 646993929 5.180000e-48 202.0
9 TraesCS3B01G433300 chr3A 86.131 137 18 1 2900 3036 647137071 647137206 2.460000e-31 147.0
10 TraesCS3B01G433300 chr3A 92.308 91 5 2 38 127 646982104 646982193 8.910000e-26 128.0
11 TraesCS3B01G433300 chr3A 81.579 114 13 3 2511 2624 647136893 647136998 1.510000e-13 87.9
12 TraesCS3B01G433300 chr3D 88.644 590 49 11 1545 2129 509309195 509309771 0.000000e+00 702.0
13 TraesCS3B01G433300 chr3D 87.166 187 24 0 2876 3062 509310624 509310810 2.390000e-51 213.0
14 TraesCS3B01G433300 chr3D 89.286 56 5 1 2819 2873 509310607 509310662 5.480000e-08 69.4
15 TraesCS3B01G433300 chr3D 80.556 72 12 2 2249 2320 498235255 498235186 2.000000e-03 54.7
16 TraesCS3B01G433300 chr2A 94.872 39 1 1 2371 2409 500499477 500499440 3.300000e-05 60.2
17 TraesCS3B01G433300 chr2A 94.872 39 1 1 2371 2409 677083160 677083123 3.300000e-05 60.2
18 TraesCS3B01G433300 chr2A 94.872 39 1 1 2371 2409 677121770 677121733 3.300000e-05 60.2
19 TraesCS3B01G433300 chr2A 94.872 39 1 1 2371 2409 677133676 677133639 3.300000e-05 60.2
20 TraesCS3B01G433300 chr7B 96.875 32 1 0 2378 2409 741242928 741242959 2.000000e-03 54.7
21 TraesCS3B01G433300 chr7B 100.000 28 0 0 2382 2409 651190401 651190428 6.000000e-03 52.8
22 TraesCS3B01G433300 chr6D 100.000 29 0 0 2378 2406 344252847 344252875 2.000000e-03 54.7
23 TraesCS3B01G433300 chr5D 100.000 28 0 0 2249 2276 528945976 528946003 6.000000e-03 52.8


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 TraesCS3B01G433300 chr3B 672108736 672111797 3061 False 1926.400000 5655 95.454667 1 3062 3 chr3B.!!$F2 3061
1 TraesCS3B01G433300 chr3B 723492670 723494917 2247 False 1091.000000 1779 87.682500 400 2233 2 chr3B.!!$F3 1833
2 TraesCS3B01G433300 chr3A 647021815 647023854 2039 False 2324.000000 2324 87.435000 1 2067 1 chr3A.!!$F3 2066
3 TraesCS3B01G433300 chr3A 647135841 647137206 1365 False 323.966667 737 84.088667 1611 3036 3 chr3A.!!$F4 1425
4 TraesCS3B01G433300 chr3D 509309195 509310810 1615 False 328.133333 702 88.365333 1545 3062 3 chr3D.!!$F1 1517

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
890 905 0.032952 TTCGTGGGAAGGTGAAGACG 59.967 55.0 0.0 0.0 0.0 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2408 2949 0.257039 AAATTCAGCGCTCCCTCCAT 59.743 50.0 7.13 0.0 0.0 3.41 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
23 24 2.614987 CCAGCACTTTTCCTCTCCTCTG 60.615 54.545 0.00 0.00 0.00 3.35
36 37 4.420168 CTCTCCTCTGTTCTCATTCGTTC 58.580 47.826 0.00 0.00 0.00 3.95
76 77 2.857748 CGGTTTTGTGAAGCTTTTGGTC 59.142 45.455 0.00 0.00 0.00 4.02
106 107 2.721425 TCTTTCTTTCGGTTGTGGGT 57.279 45.000 0.00 0.00 0.00 4.51
130 131 6.846325 TTTTTCGAACCAGTTTTTGTTTGT 57.154 29.167 0.00 0.00 0.00 2.83
131 132 6.846325 TTTTCGAACCAGTTTTTGTTTGTT 57.154 29.167 0.00 0.00 0.00 2.83
134 135 6.846325 TCGAACCAGTTTTTGTTTGTTTTT 57.154 29.167 0.00 0.00 0.00 1.94
283 284 9.460019 TTTGTCAAATTTTGAATTTCTTTCCCT 57.540 25.926 13.21 0.00 42.15 4.20
298 299 4.277423 TCTTTCCCTCAAAATTCGTGAACC 59.723 41.667 0.00 0.00 0.00 3.62
316 322 7.280428 TCGTGAACCTAATGTTTGTGAACTTTA 59.720 33.333 0.00 0.00 37.29 1.85
327 333 9.683069 ATGTTTGTGAACTTTATCATTTCTCAC 57.317 29.630 0.00 0.00 36.70 3.51
348 354 7.227711 TCTCACGAACTATTTTCAAATTGGTGA 59.772 33.333 0.00 0.00 0.00 4.02
349 355 7.136119 TCACGAACTATTTTCAAATTGGTGAC 58.864 34.615 0.00 0.00 0.00 3.67
350 356 6.915300 CACGAACTATTTTCAAATTGGTGACA 59.085 34.615 0.00 0.00 39.83 3.58
415 422 8.798859 TTTTTCAAATTCATGAAGTTTTCCCA 57.201 26.923 17.93 1.09 40.21 4.37
420 427 9.406113 TCAAATTCATGAAGTTTTCCCATTTTT 57.594 25.926 17.93 4.20 0.00 1.94
421 428 9.453325 CAAATTCATGAAGTTTTCCCATTTTTG 57.547 29.630 17.93 12.04 0.00 2.44
422 429 6.616774 TTCATGAAGTTTTCCCATTTTTGC 57.383 33.333 3.38 0.00 0.00 3.68
423 430 5.678583 TCATGAAGTTTTCCCATTTTTGCA 58.321 33.333 0.00 0.00 0.00 4.08
424 431 6.118170 TCATGAAGTTTTCCCATTTTTGCAA 58.882 32.000 0.00 0.00 0.00 4.08
431 438 7.312154 AGTTTTCCCATTTTTGCAAAACTTTC 58.688 30.769 23.79 8.05 42.07 2.62
436 443 5.007921 CCCATTTTTGCAAAACTTTCCTCAG 59.992 40.000 23.79 5.49 0.00 3.35
505 512 8.755018 GTGAAGTGTTTTTAAATCCATGAACTG 58.245 33.333 0.00 0.00 0.00 3.16
521 529 7.925483 TCCATGAACTGTTTTAAATCCACAAAG 59.075 33.333 0.00 0.00 0.00 2.77
628 639 4.189639 ACTCGCGACTCTTAAAATTCCT 57.810 40.909 3.71 0.00 0.00 3.36
680 694 1.271597 CCAGAAACCAGCAGCTACCTT 60.272 52.381 0.00 0.00 0.00 3.50
721 735 4.670221 GCGCCAAATAAAGAGTCTCAACAG 60.670 45.833 0.00 0.00 0.00 3.16
872 887 1.409661 GGGGCAAGGGTAATCGTGATT 60.410 52.381 0.22 0.22 34.93 2.57
874 889 1.597663 GGCAAGGGTAATCGTGATTCG 59.402 52.381 0.00 0.00 41.41 3.34
887 902 2.076863 GTGATTCGTGGGAAGGTGAAG 58.923 52.381 0.00 0.00 35.19 3.02
889 904 2.289444 TGATTCGTGGGAAGGTGAAGAC 60.289 50.000 0.00 0.00 35.19 3.01
890 905 0.032952 TTCGTGGGAAGGTGAAGACG 59.967 55.000 0.00 0.00 0.00 4.18
891 906 1.111116 TCGTGGGAAGGTGAAGACGT 61.111 55.000 0.00 0.00 0.00 4.34
892 907 0.666577 CGTGGGAAGGTGAAGACGTC 60.667 60.000 7.70 7.70 0.00 4.34
894 909 0.679505 TGGGAAGGTGAAGACGTCTG 59.320 55.000 20.85 0.00 0.00 3.51
895 910 0.966920 GGGAAGGTGAAGACGTCTGA 59.033 55.000 20.85 6.10 0.00 3.27
907 925 4.657436 AGACGTCTGATCAAGGGTAATC 57.343 45.455 19.30 0.00 0.00 1.75
908 926 3.066900 AGACGTCTGATCAAGGGTAATCG 59.933 47.826 19.30 0.00 0.00 3.34
909 927 3.021695 ACGTCTGATCAAGGGTAATCGA 58.978 45.455 0.00 0.00 0.00 3.59
911 929 3.181490 CGTCTGATCAAGGGTAATCGACA 60.181 47.826 0.00 0.00 31.65 4.35
912 930 4.676986 CGTCTGATCAAGGGTAATCGACAA 60.677 45.833 0.00 0.00 31.65 3.18
913 931 5.175859 GTCTGATCAAGGGTAATCGACAAA 58.824 41.667 0.00 0.00 31.65 2.83
914 932 5.292101 GTCTGATCAAGGGTAATCGACAAAG 59.708 44.000 0.00 0.00 31.65 2.77
924 946 6.383147 AGGGTAATCGACAAAGAATTCCTCTA 59.617 38.462 0.65 0.00 32.46 2.43
936 958 8.333908 CAAAGAATTCCTCTATGAGATCAAACG 58.666 37.037 0.65 0.00 32.46 3.60
949 971 1.885388 CAAACGACCGTGGTGAGCA 60.885 57.895 0.00 0.00 0.00 4.26
959 986 3.271014 GGTGAGCACCGTCGAGTA 58.729 61.111 3.57 0.00 42.29 2.59
971 998 1.007011 CGTCGAGTAAAATCAGCAGCG 60.007 52.381 0.00 0.00 0.00 5.18
974 1001 2.159099 TCGAGTAAAATCAGCAGCGGAT 60.159 45.455 1.61 1.61 0.00 4.18
1068 1097 1.221840 CGGCCTTGAGCACCAGTAT 59.778 57.895 0.00 0.00 46.50 2.12
1069 1098 0.464036 CGGCCTTGAGCACCAGTATA 59.536 55.000 0.00 0.00 46.50 1.47
1095 1124 1.737008 GGAGGTCGACGTCAAAGGC 60.737 63.158 32.23 15.78 32.79 4.35
1159 1188 4.496336 GGGCCAGGGCTACTGCAG 62.496 72.222 13.48 13.48 46.14 4.41
1233 1277 3.620300 GACGTCCGTCGACATGCCA 62.620 63.158 17.16 0.00 42.86 4.92
1301 1345 0.823356 AGCAACGGCAACACCTTCAT 60.823 50.000 0.00 0.00 44.61 2.57
1416 1460 1.061131 CTCAACCGATTCATGCACGAC 59.939 52.381 0.00 0.00 0.00 4.34
1539 1583 2.121963 TCCCTGGACTTGGGCTGT 60.122 61.111 0.00 0.00 44.23 4.40
1622 1666 2.551270 CTGCACTTTCGACACCGC 59.449 61.111 0.00 0.00 35.37 5.68
1623 1667 2.202946 TGCACTTTCGACACCGCA 60.203 55.556 0.00 0.00 35.37 5.69
1719 1763 2.345244 CTCTGCTTCGGCCTGTGT 59.655 61.111 0.00 0.00 40.91 3.72
1896 2362 5.769484 AGTTTTGCATCTCATGGATCATC 57.231 39.130 0.00 0.00 31.27 2.92
2027 2496 1.419012 CTATGAGATGCCAAGCCAGGA 59.581 52.381 0.00 0.00 0.00 3.86
2029 2498 1.817099 GAGATGCCAAGCCAGGACG 60.817 63.158 0.00 0.00 0.00 4.79
2034 2503 2.109126 GCCAAGCCAGGACGATGTC 61.109 63.158 0.00 0.00 0.00 3.06
2071 2543 5.344933 CAGCCCGACTTTTAAAATTAACAGC 59.655 40.000 0.09 1.62 0.00 4.40
2088 2560 3.714391 ACAGCGAATTCGTCCTATTACC 58.286 45.455 27.24 8.74 42.22 2.85
2098 2570 2.357637 CGTCCTATTACCCCGTCGTTTA 59.642 50.000 0.00 0.00 0.00 2.01
2099 2571 3.181491 CGTCCTATTACCCCGTCGTTTAA 60.181 47.826 0.00 0.00 0.00 1.52
2100 2572 4.499696 CGTCCTATTACCCCGTCGTTTAAT 60.500 45.833 0.00 0.00 0.00 1.40
2101 2573 5.359756 GTCCTATTACCCCGTCGTTTAATT 58.640 41.667 0.00 0.00 0.00 1.40
2102 2574 5.817296 GTCCTATTACCCCGTCGTTTAATTT 59.183 40.000 0.00 0.00 0.00 1.82
2154 2687 2.032377 GTCGTTTGGCAATCGACTGAAA 60.032 45.455 37.33 16.45 46.54 2.69
2164 2697 5.863397 GGCAATCGACTGAAATCAAATTCAA 59.137 36.000 0.00 0.00 38.75 2.69
2243 2784 7.269316 TCACAGTTGAGTGATGTGTAACTTTA 58.731 34.615 4.65 0.00 43.18 1.85
2244 2785 7.223971 TCACAGTTGAGTGATGTGTAACTTTAC 59.776 37.037 4.65 0.00 43.18 2.01
2245 2786 6.482308 ACAGTTGAGTGATGTGTAACTTTACC 59.518 38.462 0.00 0.00 38.04 2.85
2260 2801 4.798882 ACTTTACCCCACAAACTTGATCA 58.201 39.130 0.00 0.00 0.00 2.92
2263 2804 6.155393 ACTTTACCCCACAAACTTGATCAAAA 59.845 34.615 9.88 0.00 0.00 2.44
2340 2881 2.152016 AGCTTTTTAGAACGCTGACCC 58.848 47.619 0.00 0.00 38.74 4.46
2344 2885 1.053424 TTTAGAACGCTGACCCCTGT 58.947 50.000 0.00 0.00 0.00 4.00
2388 2929 3.290948 CCAAAATGGTAATCCCTCCGA 57.709 47.619 0.00 0.00 31.35 4.55
2389 2930 3.832527 CCAAAATGGTAATCCCTCCGAT 58.167 45.455 0.00 0.00 31.35 4.18
2391 2932 3.790089 AAATGGTAATCCCTCCGATCC 57.210 47.619 0.00 0.00 0.00 3.36
2395 2936 4.074799 TGGTAATCCCTCCGATCCATAT 57.925 45.455 0.00 0.00 0.00 1.78
2396 2937 4.435137 TGGTAATCCCTCCGATCCATATT 58.565 43.478 0.00 0.00 0.00 1.28
2398 2939 5.424252 TGGTAATCCCTCCGATCCATATTAC 59.576 44.000 0.00 0.00 0.00 1.89
2399 2940 5.661759 GGTAATCCCTCCGATCCATATTACT 59.338 44.000 0.00 0.00 31.92 2.24
2400 2941 6.156429 GGTAATCCCTCCGATCCATATTACTT 59.844 42.308 0.00 0.00 31.92 2.24
2401 2942 7.343833 GGTAATCCCTCCGATCCATATTACTTA 59.656 40.741 0.00 0.00 31.92 2.24
2402 2943 7.996758 AATCCCTCCGATCCATATTACTTAT 57.003 36.000 0.00 0.00 0.00 1.73
2403 2944 7.604657 ATCCCTCCGATCCATATTACTTATC 57.395 40.000 0.00 0.00 0.00 1.75
2404 2945 5.593095 TCCCTCCGATCCATATTACTTATCG 59.407 44.000 0.00 0.00 39.23 2.92
2405 2946 5.282510 CCTCCGATCCATATTACTTATCGC 58.717 45.833 0.00 0.00 38.43 4.58
2406 2947 5.067936 CCTCCGATCCATATTACTTATCGCT 59.932 44.000 0.00 0.00 38.43 4.93
2407 2948 6.132791 TCCGATCCATATTACTTATCGCTC 57.867 41.667 0.00 0.00 38.43 5.03
2408 2949 5.650703 TCCGATCCATATTACTTATCGCTCA 59.349 40.000 0.00 0.00 38.43 4.26
2409 2950 6.321435 TCCGATCCATATTACTTATCGCTCAT 59.679 38.462 0.00 0.00 38.43 2.90
2410 2951 6.419116 CCGATCCATATTACTTATCGCTCATG 59.581 42.308 0.00 0.00 38.43 3.07
2411 2952 6.419116 CGATCCATATTACTTATCGCTCATGG 59.581 42.308 0.00 0.00 33.84 3.66
2412 2953 6.850752 TCCATATTACTTATCGCTCATGGA 57.149 37.500 0.00 0.00 38.63 3.41
2413 2954 6.867550 TCCATATTACTTATCGCTCATGGAG 58.132 40.000 0.00 0.00 36.62 3.86
2414 2955 6.045318 CCATATTACTTATCGCTCATGGAGG 58.955 44.000 0.00 0.00 34.84 4.30
2415 2956 4.543590 ATTACTTATCGCTCATGGAGGG 57.456 45.455 4.12 4.12 42.76 4.30
2422 2963 2.108566 CTCATGGAGGGAGCGCTG 59.891 66.667 18.48 0.00 0.00 5.18
2423 2964 2.364186 TCATGGAGGGAGCGCTGA 60.364 61.111 18.48 0.00 0.00 4.26
2424 2965 1.964608 CTCATGGAGGGAGCGCTGAA 61.965 60.000 18.48 0.00 0.00 3.02
2425 2966 1.147824 CATGGAGGGAGCGCTGAAT 59.852 57.895 18.48 0.00 0.00 2.57
2426 2967 0.465097 CATGGAGGGAGCGCTGAATT 60.465 55.000 18.48 0.00 0.00 2.17
2427 2968 0.257039 ATGGAGGGAGCGCTGAATTT 59.743 50.000 18.48 0.00 0.00 1.82
2428 2969 0.677731 TGGAGGGAGCGCTGAATTTG 60.678 55.000 18.48 0.00 0.00 2.32
2429 2970 0.678048 GGAGGGAGCGCTGAATTTGT 60.678 55.000 18.48 0.00 0.00 2.83
2430 2971 1.406887 GGAGGGAGCGCTGAATTTGTA 60.407 52.381 18.48 0.00 0.00 2.41
2431 2972 1.936547 GAGGGAGCGCTGAATTTGTAG 59.063 52.381 18.48 0.00 0.00 2.74
2432 2973 1.555075 AGGGAGCGCTGAATTTGTAGA 59.445 47.619 18.48 0.00 0.00 2.59
2433 2974 2.027192 AGGGAGCGCTGAATTTGTAGAA 60.027 45.455 18.48 0.00 0.00 2.10
2434 2975 2.945668 GGGAGCGCTGAATTTGTAGAAT 59.054 45.455 18.48 0.00 0.00 2.40
2435 2976 4.127171 GGGAGCGCTGAATTTGTAGAATA 58.873 43.478 18.48 0.00 0.00 1.75
2436 2977 4.574828 GGGAGCGCTGAATTTGTAGAATAA 59.425 41.667 18.48 0.00 0.00 1.40
2437 2978 5.502606 GGAGCGCTGAATTTGTAGAATAAC 58.497 41.667 18.48 0.00 0.00 1.89
2438 2979 5.064707 GGAGCGCTGAATTTGTAGAATAACA 59.935 40.000 18.48 0.00 0.00 2.41
2439 2980 6.403200 GGAGCGCTGAATTTGTAGAATAACAA 60.403 38.462 18.48 0.00 37.58 2.83
2440 2981 6.314784 AGCGCTGAATTTGTAGAATAACAAC 58.685 36.000 10.39 0.00 39.02 3.32
2441 2982 5.225129 GCGCTGAATTTGTAGAATAACAACG 59.775 40.000 0.00 0.00 39.02 4.10
2457 2998 8.944212 AATAACAACGAGGAAAATAAAGAACG 57.056 30.769 0.00 0.00 0.00 3.95
2458 2999 6.607735 AACAACGAGGAAAATAAAGAACGA 57.392 33.333 0.00 0.00 0.00 3.85
2465 3006 8.996271 ACGAGGAAAATAAAGAACGACTTAAAT 58.004 29.630 0.00 0.00 37.93 1.40
2505 3278 5.048643 ACAGTAGCTGTTATATAGTGAGCGG 60.049 44.000 0.00 0.00 42.59 5.52
2518 3299 1.271840 TGAGCGGAAGGGTATTGCCT 61.272 55.000 0.00 0.00 37.43 4.75
2525 3306 4.315803 CGGAAGGGTATTGCCTAACATAG 58.684 47.826 0.00 0.00 37.43 2.23
2530 3311 7.201794 GGAAGGGTATTGCCTAACATAGAAAAC 60.202 40.741 0.00 0.00 37.43 2.43
2628 3488 1.913778 TGCCAGCATGAACACTGAAT 58.086 45.000 0.00 0.00 39.69 2.57
2632 3492 3.495193 CCAGCATGAACACTGAATTTCG 58.505 45.455 0.00 0.00 39.69 3.46
2638 3498 7.426456 CAGCATGAACACTGAATTTCGTATAAC 59.574 37.037 0.00 0.00 39.69 1.89
2676 3536 7.489160 AGGAAAACAAGTAAAAATCTGTGGTC 58.511 34.615 0.00 0.00 0.00 4.02
2677 3537 6.700081 GGAAAACAAGTAAAAATCTGTGGTCC 59.300 38.462 0.00 0.00 0.00 4.46
2678 3538 5.784578 AACAAGTAAAAATCTGTGGTCCC 57.215 39.130 0.00 0.00 0.00 4.46
2679 3539 5.061721 ACAAGTAAAAATCTGTGGTCCCT 57.938 39.130 0.00 0.00 0.00 4.20
2680 3540 4.827284 ACAAGTAAAAATCTGTGGTCCCTG 59.173 41.667 0.00 0.00 0.00 4.45
2695 3555 0.846015 CCCTGGGGATATGTGCTTCA 59.154 55.000 4.27 0.00 37.50 3.02
2725 3587 3.123804 GGTATCATTGTTGAGCGATCGT 58.876 45.455 17.81 3.24 34.73 3.73
2728 3590 2.682836 TCATTGTTGAGCGATCGTTCA 58.317 42.857 27.77 27.77 33.65 3.18
2736 3598 4.469625 TGAGCGATCGTTCACTATCTAC 57.530 45.455 27.77 2.76 30.59 2.59
2768 3630 7.402862 AGTATTTGTTTTAGGACATGGCTAGT 58.597 34.615 0.00 0.00 0.00 2.57
2772 3634 5.876357 TGTTTTAGGACATGGCTAGTTCTT 58.124 37.500 0.00 0.00 0.00 2.52
2778 3640 4.404073 AGGACATGGCTAGTTCTTAGTCAG 59.596 45.833 0.00 0.00 46.52 3.51
2815 3677 4.240175 GTCTCAAGACTTGGTTACGTCT 57.760 45.455 15.13 0.00 41.97 4.18
2816 3678 4.228317 GTCTCAAGACTTGGTTACGTCTC 58.772 47.826 15.13 0.00 39.44 3.36
2817 3679 3.887110 TCTCAAGACTTGGTTACGTCTCA 59.113 43.478 15.13 0.00 39.44 3.27
2822 3762 3.890147 AGACTTGGTTACGTCTCAAGACT 59.110 43.478 23.23 20.19 42.66 3.24
2829 3769 4.683320 GGTTACGTCTCAAGACTTGGTTAC 59.317 45.833 15.13 8.65 42.66 2.50
2834 3774 4.228317 GTCTCAAGACTTGGTTACGTCTC 58.772 47.826 15.13 0.00 39.44 3.36
2835 3775 3.058432 TCTCAAGACTTGGTTACGTCTCG 60.058 47.826 15.13 0.00 39.44 4.04
2856 3796 5.661458 TCGGTCAACTGAGATTTAGAATCC 58.339 41.667 0.00 0.00 0.00 3.01
2857 3797 4.811557 CGGTCAACTGAGATTTAGAATCCC 59.188 45.833 0.00 0.00 0.00 3.85
2858 3798 4.811557 GGTCAACTGAGATTTAGAATCCCG 59.188 45.833 0.00 0.00 0.00 5.14
2859 3799 5.420409 GTCAACTGAGATTTAGAATCCCGT 58.580 41.667 0.00 0.00 0.00 5.28
2860 3800 5.875359 GTCAACTGAGATTTAGAATCCCGTT 59.125 40.000 0.00 0.00 0.00 4.44
2861 3801 6.371825 GTCAACTGAGATTTAGAATCCCGTTT 59.628 38.462 0.00 0.00 0.00 3.60
2862 3802 6.371548 TCAACTGAGATTTAGAATCCCGTTTG 59.628 38.462 0.00 0.00 0.00 2.93
2863 3803 5.805728 ACTGAGATTTAGAATCCCGTTTGT 58.194 37.500 0.00 0.00 0.00 2.83
2864 3804 6.238648 ACTGAGATTTAGAATCCCGTTTGTT 58.761 36.000 0.00 0.00 0.00 2.83
2865 3805 6.715264 ACTGAGATTTAGAATCCCGTTTGTTT 59.285 34.615 0.00 0.00 0.00 2.83
2866 3806 7.230712 ACTGAGATTTAGAATCCCGTTTGTTTT 59.769 33.333 0.00 0.00 0.00 2.43
2867 3807 8.624367 TGAGATTTAGAATCCCGTTTGTTTTA 57.376 30.769 0.00 0.00 0.00 1.52
2868 3808 9.069082 TGAGATTTAGAATCCCGTTTGTTTTAA 57.931 29.630 0.00 0.00 0.00 1.52
2869 3809 9.556030 GAGATTTAGAATCCCGTTTGTTTTAAG 57.444 33.333 0.00 0.00 0.00 1.85
2870 3810 9.292195 AGATTTAGAATCCCGTTTGTTTTAAGA 57.708 29.630 0.00 0.00 0.00 2.10
2871 3811 9.556030 GATTTAGAATCCCGTTTGTTTTAAGAG 57.444 33.333 0.00 0.00 0.00 2.85
2872 3812 8.680039 TTTAGAATCCCGTTTGTTTTAAGAGA 57.320 30.769 0.00 0.00 0.00 3.10
2873 3813 6.555812 AGAATCCCGTTTGTTTTAAGAGAC 57.444 37.500 0.00 0.00 0.00 3.36
2874 3814 5.472478 AGAATCCCGTTTGTTTTAAGAGACC 59.528 40.000 0.00 0.00 0.00 3.85
2875 3815 4.153673 TCCCGTTTGTTTTAAGAGACCA 57.846 40.909 0.00 0.00 0.00 4.02
2876 3816 4.131596 TCCCGTTTGTTTTAAGAGACCAG 58.868 43.478 0.00 0.00 0.00 4.00
2877 3817 3.881089 CCCGTTTGTTTTAAGAGACCAGT 59.119 43.478 0.00 0.00 0.00 4.00
2878 3818 4.024302 CCCGTTTGTTTTAAGAGACCAGTC 60.024 45.833 0.00 0.00 0.00 3.51
2879 3819 4.573201 CCGTTTGTTTTAAGAGACCAGTCA 59.427 41.667 0.00 0.00 0.00 3.41
2880 3820 5.065474 CCGTTTGTTTTAAGAGACCAGTCAA 59.935 40.000 0.00 0.00 0.00 3.18
2881 3821 5.963586 CGTTTGTTTTAAGAGACCAGTCAAC 59.036 40.000 0.00 0.00 0.00 3.18
2882 3822 6.183360 CGTTTGTTTTAAGAGACCAGTCAACT 60.183 38.462 0.00 0.00 0.00 3.16
2883 3823 6.677781 TTGTTTTAAGAGACCAGTCAACTG 57.322 37.500 3.08 3.08 43.40 3.16
2884 3824 5.984725 TGTTTTAAGAGACCAGTCAACTGA 58.015 37.500 11.70 0.00 46.59 3.41
2885 3825 6.049149 TGTTTTAAGAGACCAGTCAACTGAG 58.951 40.000 11.70 4.69 46.59 3.35
2886 3826 6.127168 TGTTTTAAGAGACCAGTCAACTGAGA 60.127 38.462 11.70 0.00 46.59 3.27
2887 3827 6.672266 TTTAAGAGACCAGTCAACTGAGAT 57.328 37.500 11.70 0.00 46.59 2.75
2888 3828 6.672266 TTAAGAGACCAGTCAACTGAGATT 57.328 37.500 11.70 2.52 46.59 2.40
2907 3847 8.624367 TGAGATTTAGAATCCCGTTTGTTTTA 57.376 30.769 0.00 0.00 0.00 1.52
2974 3914 5.200483 TCCCTTCAAAATACCATCCATCAC 58.800 41.667 0.00 0.00 0.00 3.06
2977 3917 5.300286 CCTTCAAAATACCATCCATCACCTC 59.700 44.000 0.00 0.00 0.00 3.85
2979 3919 6.078456 TCAAAATACCATCCATCACCTCTT 57.922 37.500 0.00 0.00 0.00 2.85
2991 3931 7.027874 TCCATCACCTCTTTTAAAGTATGGT 57.972 36.000 4.53 8.76 34.35 3.55
3017 3957 4.241555 GGCGGCCGATCTGGTCAT 62.242 66.667 33.48 0.00 45.31 3.06
3019 3959 2.029666 CGGCCGATCTGGTCATCC 59.970 66.667 24.07 0.31 45.31 3.51
3037 3977 0.904865 CCTGTCAGTAGCCCTCCACA 60.905 60.000 0.00 0.00 0.00 4.17
3058 3998 1.078848 GCCATGCGTTCTGAGGTCT 60.079 57.895 0.00 0.00 0.00 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 2.038295 ACAGAGGAGAGGAAAAGTGCTG 59.962 50.000 0.00 0.00 0.00 4.41
17 18 3.611766 CGTGAACGAATGAGAACAGAGGA 60.612 47.826 0.00 0.00 43.02 3.71
23 24 0.093026 CGGCGTGAACGAATGAGAAC 59.907 55.000 7.10 0.00 43.02 3.01
76 77 9.893305 ACAACCGAAAGAAAGAAATATAAACTG 57.107 29.630 0.00 0.00 0.00 3.16
111 112 6.846325 AAAAACAAACAAAAACTGGTTCGA 57.154 29.167 0.00 0.00 30.20 3.71
257 258 9.460019 AGGGAAAGAAATTCAAAATTTGACAAA 57.540 25.926 8.06 2.48 39.87 2.83
258 259 9.108284 GAGGGAAAGAAATTCAAAATTTGACAA 57.892 29.630 8.06 0.00 39.87 3.18
259 260 8.263640 TGAGGGAAAGAAATTCAAAATTTGACA 58.736 29.630 8.06 0.93 39.87 3.58
283 284 7.433719 CACAAACATTAGGTTCACGAATTTTGA 59.566 33.333 0.00 0.00 39.29 2.69
291 292 5.418310 AGTTCACAAACATTAGGTTCACG 57.582 39.130 0.00 0.00 39.29 4.35
323 329 7.323656 GTCACCAATTTGAAAATAGTTCGTGAG 59.676 37.037 0.00 0.00 0.00 3.51
327 333 8.519492 AATGTCACCAATTTGAAAATAGTTCG 57.481 30.769 0.00 0.00 0.00 3.95
412 419 4.880696 TGAGGAAAGTTTTGCAAAAATGGG 59.119 37.500 25.40 0.00 0.00 4.00
414 421 6.667007 ACTGAGGAAAGTTTTGCAAAAATG 57.333 33.333 25.40 13.02 0.00 2.32
415 422 7.686438 AAACTGAGGAAAGTTTTGCAAAAAT 57.314 28.000 25.40 21.92 45.84 1.82
457 464 4.218852 ACGGGTTCAAAAAGAAAGTTCACA 59.781 37.500 0.00 0.00 38.13 3.58
516 524 8.233190 TGTTCGCAAAATTCAAAAATTCTTTGT 58.767 25.926 10.72 0.00 33.93 2.83
599 610 5.721876 TTAAGAGTCGCGAGTTTGAAAAA 57.278 34.783 19.09 4.66 0.00 1.94
608 619 5.532025 AAAGGAATTTTAAGAGTCGCGAG 57.468 39.130 10.24 0.00 0.00 5.03
703 717 9.877178 CTACCATACTGTTGAGACTCTTTATTT 57.123 33.333 3.68 0.00 0.00 1.40
704 718 9.036980 ACTACCATACTGTTGAGACTCTTTATT 57.963 33.333 3.68 0.00 0.00 1.40
708 722 5.775701 ACACTACCATACTGTTGAGACTCTT 59.224 40.000 3.68 0.00 0.00 2.85
709 723 5.326069 ACACTACCATACTGTTGAGACTCT 58.674 41.667 3.68 0.00 0.00 3.24
721 735 5.277857 ACAAGAGGCATACACTACCATAC 57.722 43.478 0.00 0.00 0.00 2.39
761 775 4.545610 GATTTCGGATTCACAAACTGCAA 58.454 39.130 0.00 0.00 0.00 4.08
792 806 1.153086 GACCCAGCCCAGCACATAG 60.153 63.158 0.00 0.00 0.00 2.23
813 827 2.814913 CTTTCGGTTTCCCCTCCCCG 62.815 65.000 0.00 0.00 41.75 5.73
819 833 0.826256 AGCCAACTTTCGGTTTCCCC 60.826 55.000 0.00 0.00 35.74 4.81
834 848 1.202758 CCCATTTATAGCCACGAGCCA 60.203 52.381 0.00 0.00 45.47 4.75
872 887 1.111116 ACGTCTTCACCTTCCCACGA 61.111 55.000 0.00 0.00 0.00 4.35
874 889 0.680061 AGACGTCTTCACCTTCCCAC 59.320 55.000 13.58 0.00 0.00 4.61
887 902 3.066342 TCGATTACCCTTGATCAGACGTC 59.934 47.826 7.70 7.70 0.00 4.34
889 904 3.181490 TGTCGATTACCCTTGATCAGACG 60.181 47.826 0.00 0.00 33.08 4.18
890 905 4.386867 TGTCGATTACCCTTGATCAGAC 57.613 45.455 0.00 0.00 32.08 3.51
891 906 5.186992 TCTTTGTCGATTACCCTTGATCAGA 59.813 40.000 0.00 0.00 0.00 3.27
892 907 5.419542 TCTTTGTCGATTACCCTTGATCAG 58.580 41.667 0.00 0.00 0.00 2.90
894 909 6.927294 ATTCTTTGTCGATTACCCTTGATC 57.073 37.500 0.00 0.00 0.00 2.92
895 910 6.318900 GGAATTCTTTGTCGATTACCCTTGAT 59.681 38.462 5.23 0.00 0.00 2.57
907 925 7.205992 TGATCTCATAGAGGAATTCTTTGTCG 58.794 38.462 5.23 0.00 36.56 4.35
908 926 8.954950 TTGATCTCATAGAGGAATTCTTTGTC 57.045 34.615 5.23 0.00 36.56 3.18
909 927 9.171877 GTTTGATCTCATAGAGGAATTCTTTGT 57.828 33.333 5.23 0.00 36.56 2.83
911 929 8.260818 TCGTTTGATCTCATAGAGGAATTCTTT 58.739 33.333 5.23 0.00 37.36 2.52
912 930 7.708752 GTCGTTTGATCTCATAGAGGAATTCTT 59.291 37.037 5.23 0.00 37.36 2.52
913 931 7.206687 GTCGTTTGATCTCATAGAGGAATTCT 58.793 38.462 5.23 0.00 40.06 2.40
914 932 6.422400 GGTCGTTTGATCTCATAGAGGAATTC 59.578 42.308 0.00 0.00 0.00 2.17
924 946 1.275291 ACCACGGTCGTTTGATCTCAT 59.725 47.619 0.00 0.00 0.00 2.90
949 971 2.607187 CTGCTGATTTTACTCGACGGT 58.393 47.619 0.00 0.00 0.00 4.83
959 986 1.474077 GTTGGATCCGCTGCTGATTTT 59.526 47.619 7.39 0.00 0.00 1.82
971 998 0.527817 CTCGCTACACGGTTGGATCC 60.528 60.000 4.20 4.20 43.89 3.36
974 1001 2.642254 CCCTCGCTACACGGTTGGA 61.642 63.158 0.00 0.00 43.89 3.53
981 1008 2.596904 TATTCTTGCCCTCGCTACAC 57.403 50.000 0.00 0.00 35.36 2.90
982 1009 2.224281 CCATATTCTTGCCCTCGCTACA 60.224 50.000 0.00 0.00 35.36 2.74
983 1010 2.417719 CCATATTCTTGCCCTCGCTAC 58.582 52.381 0.00 0.00 35.36 3.58
984 1011 1.270839 GCCATATTCTTGCCCTCGCTA 60.271 52.381 0.00 0.00 35.36 4.26
985 1012 0.536006 GCCATATTCTTGCCCTCGCT 60.536 55.000 0.00 0.00 35.36 4.93
986 1013 1.845809 CGCCATATTCTTGCCCTCGC 61.846 60.000 0.00 0.00 0.00 5.03
1014 1043 3.518634 AGAAGAAGACGATTCTGCTCC 57.481 47.619 9.11 0.00 36.61 4.70
1068 1097 1.541147 ACGTCGACCTCCACGAAATTA 59.459 47.619 10.58 0.00 41.31 1.40
1069 1098 0.316204 ACGTCGACCTCCACGAAATT 59.684 50.000 10.58 0.00 41.31 1.82
1095 1124 1.139058 CCGGAATCAGGGTAGAACAGG 59.861 57.143 0.00 0.00 0.00 4.00
1221 1265 3.250323 CGCTCTGGCATGTCGACG 61.250 66.667 11.62 0.00 38.60 5.12
1233 1277 3.313750 GCGAAATCGATGCGCTCT 58.686 55.556 28.16 0.00 46.53 4.09
1719 1763 0.768221 ACAGGCAGTTCTCCTTGGGA 60.768 55.000 0.00 0.00 0.00 4.37
1925 2394 2.480555 CCGTCAACAAGATGGCGC 59.519 61.111 0.00 0.00 46.52 6.53
2011 2480 1.817099 CGTCCTGGCTTGGCATCTC 60.817 63.158 0.00 0.00 0.00 2.75
2029 2498 4.427241 GCTGAAGAGCATGTGCGACATC 62.427 54.545 0.00 2.24 45.46 3.06
2071 2543 2.035066 ACGGGGTAATAGGACGAATTCG 59.965 50.000 25.64 25.64 46.33 3.34
2088 2560 3.726730 CACACAACAAATTAAACGACGGG 59.273 43.478 0.00 0.00 0.00 5.28
2129 2608 2.004583 TCGATTGCCAAACGACTAGG 57.995 50.000 5.65 0.00 0.00 3.02
2135 2668 2.679355 TTTCAGTCGATTGCCAAACG 57.321 45.000 2.51 0.11 0.00 3.60
2164 2697 7.387948 GTCATTGACTGTAAATTAGAGTGGTGT 59.612 37.037 7.57 0.00 31.78 4.16
2233 2774 5.357596 TCAAGTTTGTGGGGTAAAGTTACAC 59.642 40.000 3.75 0.00 36.33 2.90
2243 2784 5.628797 AATTTTGATCAAGTTTGTGGGGT 57.371 34.783 8.41 0.00 0.00 4.95
2244 2785 5.277925 GCAAATTTTGATCAAGTTTGTGGGG 60.278 40.000 29.32 16.50 33.83 4.96
2245 2786 5.296283 TGCAAATTTTGATCAAGTTTGTGGG 59.704 36.000 29.32 16.73 33.83 4.61
2315 2856 4.684703 GTCAGCGTTCTAAAAAGCTCTACA 59.315 41.667 0.00 0.00 45.42 2.74
2317 2858 4.243270 GGTCAGCGTTCTAAAAAGCTCTA 58.757 43.478 0.00 0.00 45.42 2.43
2340 2881 9.722184 ATATTCATTGATGTAAGATCTGACAGG 57.278 33.333 18.02 5.84 0.00 4.00
2369 2910 3.821033 GGATCGGAGGGATTACCATTTTG 59.179 47.826 0.00 0.00 43.89 2.44
2376 2917 6.793505 AGTAATATGGATCGGAGGGATTAC 57.206 41.667 0.00 0.00 34.82 1.89
2379 2920 6.265649 CGATAAGTAATATGGATCGGAGGGAT 59.734 42.308 0.00 0.00 36.60 3.85
2381 2922 5.736492 GCGATAAGTAATATGGATCGGAGGG 60.736 48.000 4.92 0.00 39.74 4.30
2382 2923 5.067936 AGCGATAAGTAATATGGATCGGAGG 59.932 44.000 4.92 0.00 39.74 4.30
2383 2924 6.137794 AGCGATAAGTAATATGGATCGGAG 57.862 41.667 4.92 0.00 39.74 4.63
2385 2926 5.891451 TGAGCGATAAGTAATATGGATCGG 58.109 41.667 4.92 0.00 37.79 4.18
2386 2927 6.419116 CCATGAGCGATAAGTAATATGGATCG 59.581 42.308 0.00 0.00 37.79 3.69
2387 2928 7.492524 TCCATGAGCGATAAGTAATATGGATC 58.507 38.462 0.00 0.00 38.24 3.36
2388 2929 7.418368 CCTCCATGAGCGATAAGTAATATGGAT 60.418 40.741 0.00 0.00 41.20 3.41
2389 2930 6.127338 CCTCCATGAGCGATAAGTAATATGGA 60.127 42.308 0.00 0.00 40.17 3.41
2391 2932 6.045318 CCCTCCATGAGCGATAAGTAATATG 58.955 44.000 0.00 0.00 0.00 1.78
2395 2936 3.572642 TCCCTCCATGAGCGATAAGTAA 58.427 45.455 0.00 0.00 0.00 2.24
2396 2937 3.157881 CTCCCTCCATGAGCGATAAGTA 58.842 50.000 0.00 0.00 0.00 2.24
2398 2939 1.337635 GCTCCCTCCATGAGCGATAAG 60.338 57.143 0.00 0.00 45.05 1.73
2399 2940 0.681733 GCTCCCTCCATGAGCGATAA 59.318 55.000 0.00 0.00 45.05 1.75
2400 2941 2.355946 GCTCCCTCCATGAGCGATA 58.644 57.895 0.00 0.00 45.05 2.92
2401 2942 3.146182 GCTCCCTCCATGAGCGAT 58.854 61.111 0.00 0.00 45.05 4.58
2405 2946 1.964608 TTCAGCGCTCCCTCCATGAG 61.965 60.000 7.13 0.00 0.00 2.90
2406 2947 1.340399 ATTCAGCGCTCCCTCCATGA 61.340 55.000 7.13 0.00 0.00 3.07
2407 2948 0.465097 AATTCAGCGCTCCCTCCATG 60.465 55.000 7.13 0.00 0.00 3.66
2408 2949 0.257039 AAATTCAGCGCTCCCTCCAT 59.743 50.000 7.13 0.00 0.00 3.41
2409 2950 0.677731 CAAATTCAGCGCTCCCTCCA 60.678 55.000 7.13 0.00 0.00 3.86
2410 2951 0.678048 ACAAATTCAGCGCTCCCTCC 60.678 55.000 7.13 0.00 0.00 4.30
2411 2952 1.936547 CTACAAATTCAGCGCTCCCTC 59.063 52.381 7.13 0.00 0.00 4.30
2412 2953 1.555075 TCTACAAATTCAGCGCTCCCT 59.445 47.619 7.13 0.00 0.00 4.20
2413 2954 2.024176 TCTACAAATTCAGCGCTCCC 57.976 50.000 7.13 0.00 0.00 4.30
2414 2955 5.064707 TGTTATTCTACAAATTCAGCGCTCC 59.935 40.000 7.13 0.00 0.00 4.70
2415 2956 6.106877 TGTTATTCTACAAATTCAGCGCTC 57.893 37.500 7.13 0.00 0.00 5.03
2416 2957 6.314784 GTTGTTATTCTACAAATTCAGCGCT 58.685 36.000 2.64 2.64 39.54 5.92
2417 2958 5.225129 CGTTGTTATTCTACAAATTCAGCGC 59.775 40.000 0.00 0.00 39.54 5.92
2418 2959 6.530567 TCGTTGTTATTCTACAAATTCAGCG 58.469 36.000 0.00 0.00 39.54 5.18
2419 2960 6.961554 CCTCGTTGTTATTCTACAAATTCAGC 59.038 38.462 0.00 0.00 39.54 4.26
2420 2961 8.251750 TCCTCGTTGTTATTCTACAAATTCAG 57.748 34.615 0.00 0.00 39.54 3.02
2421 2962 8.610248 TTCCTCGTTGTTATTCTACAAATTCA 57.390 30.769 0.00 0.00 39.54 2.57
2422 2963 9.887406 TTTTCCTCGTTGTTATTCTACAAATTC 57.113 29.630 0.00 0.00 39.54 2.17
2431 2972 9.047871 CGTTCTTTATTTTCCTCGTTGTTATTC 57.952 33.333 0.00 0.00 0.00 1.75
2432 2973 8.776470 TCGTTCTTTATTTTCCTCGTTGTTATT 58.224 29.630 0.00 0.00 0.00 1.40
2433 2974 8.225777 GTCGTTCTTTATTTTCCTCGTTGTTAT 58.774 33.333 0.00 0.00 0.00 1.89
2434 2975 7.439056 AGTCGTTCTTTATTTTCCTCGTTGTTA 59.561 33.333 0.00 0.00 0.00 2.41
2435 2976 6.259387 AGTCGTTCTTTATTTTCCTCGTTGTT 59.741 34.615 0.00 0.00 0.00 2.83
2436 2977 5.756833 AGTCGTTCTTTATTTTCCTCGTTGT 59.243 36.000 0.00 0.00 0.00 3.32
2437 2978 6.224420 AGTCGTTCTTTATTTTCCTCGTTG 57.776 37.500 0.00 0.00 0.00 4.10
2438 2979 6.856135 AAGTCGTTCTTTATTTTCCTCGTT 57.144 33.333 0.00 0.00 31.57 3.85
2439 2980 7.951530 TTAAGTCGTTCTTTATTTTCCTCGT 57.048 32.000 1.70 0.00 37.56 4.18
2440 2981 9.474249 GATTTAAGTCGTTCTTTATTTTCCTCG 57.526 33.333 1.70 0.00 37.56 4.63
2441 2982 9.770503 GGATTTAAGTCGTTCTTTATTTTCCTC 57.229 33.333 1.70 0.00 37.56 3.71
2465 3006 7.954056 ACAGCTACTGTAGGTATATATTTGGGA 59.046 37.037 18.17 0.00 43.46 4.37
2488 3029 4.281182 ACCCTTCCGCTCACTATATAACAG 59.719 45.833 0.00 0.00 0.00 3.16
2505 3278 7.338449 TGTTTTCTATGTTAGGCAATACCCTTC 59.662 37.037 0.00 0.00 40.58 3.46
2530 3311 9.258826 TCATGATTTCACAAACAATTACCTTTG 57.741 29.630 0.00 0.00 34.18 2.77
2545 3326 9.132521 AGATTTTGTTCGATTTCATGATTTCAC 57.867 29.630 0.00 0.00 0.00 3.18
2597 3378 1.527034 TGCTGGCAACTTCAGATGTC 58.473 50.000 0.00 0.00 34.36 3.06
2607 3388 0.953727 TCAGTGTTCATGCTGGCAAC 59.046 50.000 0.00 0.00 33.81 4.17
2650 3510 7.847096 ACCACAGATTTTTACTTGTTTTCCTT 58.153 30.769 0.00 0.00 0.00 3.36
2652 3512 6.700081 GGACCACAGATTTTTACTTGTTTTCC 59.300 38.462 0.00 0.00 0.00 3.13
2653 3513 6.700081 GGGACCACAGATTTTTACTTGTTTTC 59.300 38.462 0.00 0.00 0.00 2.29
2676 3536 0.846015 TGAAGCACATATCCCCAGGG 59.154 55.000 0.00 0.00 0.00 4.45
2677 3537 2.965671 ATGAAGCACATATCCCCAGG 57.034 50.000 0.00 0.00 37.46 4.45
2678 3538 4.037208 GTCAAATGAAGCACATATCCCCAG 59.963 45.833 0.00 0.00 38.38 4.45
2679 3539 3.953612 GTCAAATGAAGCACATATCCCCA 59.046 43.478 0.00 0.00 38.38 4.96
2680 3540 3.003689 CGTCAAATGAAGCACATATCCCC 59.996 47.826 0.00 0.00 38.38 4.81
2687 3547 1.674359 ACCACGTCAAATGAAGCACA 58.326 45.000 0.00 0.00 0.00 4.57
2690 3550 4.882671 ATGATACCACGTCAAATGAAGC 57.117 40.909 0.00 0.00 0.00 3.86
2695 3555 5.391950 GCTCAACAATGATACCACGTCAAAT 60.392 40.000 0.00 0.00 34.37 2.32
2758 3620 3.772025 AGCTGACTAAGAACTAGCCATGT 59.228 43.478 0.00 0.00 35.05 3.21
2759 3621 4.118410 CAGCTGACTAAGAACTAGCCATG 58.882 47.826 8.42 0.00 35.05 3.66
2760 3622 4.026744 TCAGCTGACTAAGAACTAGCCAT 58.973 43.478 13.74 0.00 35.05 4.40
2768 3630 5.538813 TGGTTAAGTCTCAGCTGACTAAGAA 59.461 40.000 13.74 1.86 45.49 2.52
2772 3634 4.833380 ACTTGGTTAAGTCTCAGCTGACTA 59.167 41.667 13.74 0.37 43.53 2.59
2798 3660 4.444720 GTCTTGAGACGTAACCAAGTCTTG 59.555 45.833 17.80 5.53 46.52 3.02
2799 3661 4.618965 GTCTTGAGACGTAACCAAGTCTT 58.381 43.478 17.80 0.00 46.52 3.01
2812 3674 4.228317 GAGACGTAACCAAGTCTTGAGAC 58.772 47.826 14.42 2.93 46.52 3.36
2813 3675 3.058432 CGAGACGTAACCAAGTCTTGAGA 60.058 47.826 14.42 0.00 46.62 3.27
2815 3677 2.030540 CCGAGACGTAACCAAGTCTTGA 60.031 50.000 14.42 0.00 46.62 3.02
2816 3678 2.288030 ACCGAGACGTAACCAAGTCTTG 60.288 50.000 5.53 5.53 46.52 3.02
2817 3679 1.959282 ACCGAGACGTAACCAAGTCTT 59.041 47.619 0.00 0.00 46.52 3.01
2822 3762 1.682854 AGTTGACCGAGACGTAACCAA 59.317 47.619 0.00 0.00 0.00 3.67
2829 3769 2.638556 AATCTCAGTTGACCGAGACG 57.361 50.000 0.00 0.00 40.92 4.18
2834 3774 4.811557 GGGATTCTAAATCTCAGTTGACCG 59.188 45.833 0.18 0.00 0.00 4.79
2835 3775 4.811557 CGGGATTCTAAATCTCAGTTGACC 59.188 45.833 0.88 0.00 0.00 4.02
2849 3789 6.652062 GGTCTCTTAAAACAAACGGGATTCTA 59.348 38.462 0.00 0.00 0.00 2.10
2850 3790 5.472478 GGTCTCTTAAAACAAACGGGATTCT 59.528 40.000 0.00 0.00 0.00 2.40
2851 3791 5.239963 TGGTCTCTTAAAACAAACGGGATTC 59.760 40.000 0.00 0.00 0.00 2.52
2852 3792 5.134661 TGGTCTCTTAAAACAAACGGGATT 58.865 37.500 0.00 0.00 0.00 3.01
2853 3793 4.721132 TGGTCTCTTAAAACAAACGGGAT 58.279 39.130 0.00 0.00 0.00 3.85
2854 3794 4.131596 CTGGTCTCTTAAAACAAACGGGA 58.868 43.478 0.00 0.00 0.00 5.14
2855 3795 3.881089 ACTGGTCTCTTAAAACAAACGGG 59.119 43.478 0.00 0.00 0.00 5.28
2856 3796 4.573201 TGACTGGTCTCTTAAAACAAACGG 59.427 41.667 2.38 0.00 0.00 4.44
2857 3797 5.728351 TGACTGGTCTCTTAAAACAAACG 57.272 39.130 2.38 0.00 0.00 3.60
2858 3798 6.967199 CAGTTGACTGGTCTCTTAAAACAAAC 59.033 38.462 3.19 0.00 40.20 2.93
2859 3799 6.882140 TCAGTTGACTGGTCTCTTAAAACAAA 59.118 34.615 10.97 0.00 43.91 2.83
2860 3800 6.411376 TCAGTTGACTGGTCTCTTAAAACAA 58.589 36.000 10.97 0.00 43.91 2.83
2861 3801 5.984725 TCAGTTGACTGGTCTCTTAAAACA 58.015 37.500 10.97 0.00 43.91 2.83
2862 3802 6.281405 TCTCAGTTGACTGGTCTCTTAAAAC 58.719 40.000 10.97 0.00 43.91 2.43
2863 3803 6.479972 TCTCAGTTGACTGGTCTCTTAAAA 57.520 37.500 10.97 0.00 43.91 1.52
2864 3804 6.672266 ATCTCAGTTGACTGGTCTCTTAAA 57.328 37.500 10.97 0.00 43.91 1.52
2865 3805 6.672266 AATCTCAGTTGACTGGTCTCTTAA 57.328 37.500 10.97 0.00 43.91 1.85
2866 3806 6.672266 AAATCTCAGTTGACTGGTCTCTTA 57.328 37.500 10.97 0.00 43.91 2.10
2867 3807 5.559148 AAATCTCAGTTGACTGGTCTCTT 57.441 39.130 10.97 0.00 43.91 2.85
2868 3808 6.013379 TCTAAATCTCAGTTGACTGGTCTCT 58.987 40.000 10.97 0.00 43.91 3.10
2869 3809 6.274157 TCTAAATCTCAGTTGACTGGTCTC 57.726 41.667 10.97 0.00 43.91 3.36
2870 3810 6.672266 TTCTAAATCTCAGTTGACTGGTCT 57.328 37.500 10.97 0.00 43.91 3.85
2871 3811 6.536941 GGATTCTAAATCTCAGTTGACTGGTC 59.463 42.308 10.97 0.00 43.91 4.02
2872 3812 6.410540 GGATTCTAAATCTCAGTTGACTGGT 58.589 40.000 10.97 0.00 43.91 4.00
2873 3813 5.819901 GGGATTCTAAATCTCAGTTGACTGG 59.180 44.000 10.97 2.92 43.91 4.00
2874 3814 5.521735 CGGGATTCTAAATCTCAGTTGACTG 59.478 44.000 4.77 4.77 45.08 3.51
2875 3815 5.187967 ACGGGATTCTAAATCTCAGTTGACT 59.812 40.000 0.88 0.00 0.00 3.41
2876 3816 5.420409 ACGGGATTCTAAATCTCAGTTGAC 58.580 41.667 0.88 0.00 0.00 3.18
2877 3817 5.677319 ACGGGATTCTAAATCTCAGTTGA 57.323 39.130 0.88 0.00 0.00 3.18
2878 3818 6.149474 ACAAACGGGATTCTAAATCTCAGTTG 59.851 38.462 9.17 9.17 0.00 3.16
2879 3819 6.238648 ACAAACGGGATTCTAAATCTCAGTT 58.761 36.000 0.88 3.21 0.00 3.16
2880 3820 5.805728 ACAAACGGGATTCTAAATCTCAGT 58.194 37.500 0.88 0.00 0.00 3.41
2881 3821 6.743575 AACAAACGGGATTCTAAATCTCAG 57.256 37.500 0.88 0.00 0.00 3.35
2882 3822 7.519032 AAAACAAACGGGATTCTAAATCTCA 57.481 32.000 0.88 0.00 0.00 3.27
2883 3823 9.902196 TTTAAAACAAACGGGATTCTAAATCTC 57.098 29.630 0.18 0.00 0.00 2.75
2907 3847 8.095452 ACCACATTTATCTCTGGTCTCTATTT 57.905 34.615 0.00 0.00 30.85 1.40
2924 3864 5.523438 TCCGCTTTAAAGAAACCACATTT 57.477 34.783 19.48 0.00 0.00 2.32
2974 3914 8.774586 CCGATGAATACCATACTTTAAAAGAGG 58.225 37.037 0.00 0.00 35.17 3.69
2977 3917 7.360361 GCCCGATGAATACCATACTTTAAAAG 58.640 38.462 0.00 0.00 35.17 2.27
2979 3919 5.467399 CGCCCGATGAATACCATACTTTAAA 59.533 40.000 0.00 0.00 35.17 1.52
3010 3950 1.137872 GGCTACTGACAGGATGACCAG 59.862 57.143 7.51 0.00 42.59 4.00
3017 3957 0.614979 GTGGAGGGCTACTGACAGGA 60.615 60.000 7.51 0.00 0.00 3.86
3019 3959 0.976641 TTGTGGAGGGCTACTGACAG 59.023 55.000 0.00 0.00 0.00 3.51


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

AutoCloner maintained by Alex Coulton.