Multiple sequence alignment - TraesCS5D01G150500

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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 TraesCS5D01G150500 chr5D 100.000 6208 0 0 1 6208 239282825 239276618 0.000000e+00 11465.0
1 TraesCS5D01G150500 chr5A 93.572 5383 192 67 663 5977 314663584 314668880 0.000000e+00 7882.0
2 TraesCS5D01G150500 chr5A 85.824 649 76 10 44 679 314662928 314663573 0.000000e+00 675.0
3 TraesCS5D01G150500 chr5A 94.554 202 9 2 6008 6208 314668878 314669078 1.680000e-80 311.0
4 TraesCS5D01G150500 chr5B 95.580 2398 69 19 3266 5633 264284440 264286830 0.000000e+00 3807.0
5 TraesCS5D01G150500 chr5B 87.977 524 48 9 6 523 264283929 264284443 6.880000e-169 604.0
6 TraesCS5D01G150500 chr5B 89.045 356 17 13 5632 5977 264287093 264287436 7.440000e-114 422.0
7 TraesCS5D01G150500 chr5B 94.527 201 10 1 6008 6208 264287434 264287633 6.040000e-80 309.0
8 TraesCS5D01G150500 chr5B 100.000 28 0 0 5970 5997 391810186 391810213 1.100000e-02 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 TraesCS5D01G150500 chr5D 239276618 239282825 6207 True 11465.0 11465 100.000000 1 6208 1 chr5D.!!$R1 6207
1 TraesCS5D01G150500 chr5A 314662928 314669078 6150 False 2956.0 7882 91.316667 44 6208 3 chr5A.!!$F1 6164
2 TraesCS5D01G150500 chr5B 264283929 264287633 3704 False 1285.5 3807 91.782250 6 6208 4 chr5B.!!$F2 6202

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
187 189 0.042431 AGAGGTCATGGCTCAGGAGT 59.958 55.0 0.00 0.0 0.00 3.85 F
752 792 0.391130 TAACCATGGCGAGCTGTCAC 60.391 55.0 13.04 0.0 32.94 3.67 F
1337 1381 0.458370 CTGCCCGCAAAATAACCAGC 60.458 55.0 0.00 0.0 0.00 4.85 F
2917 2979 0.109723 AGCTCCGTTTTGGTTAGCCA 59.890 50.0 0.00 0.0 44.38 4.75 F
3491 3559 0.331616 GGGTGCTGGGGAACAAGTAT 59.668 55.0 0.00 0.0 0.00 2.12 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2115 2172 0.316204 AGCCAACACAGCATCAAAGC 59.684 50.000 0.00 0.0 0.00 3.51 R
2535 2593 0.407528 TCTCTCTGCTGTCACCTCCT 59.592 55.000 0.00 0.0 0.00 3.69 R
2965 3027 0.166814 GCATGCCACGTGTCTCTTTC 59.833 55.000 15.65 0.0 0.00 2.62 R
4019 4120 2.745100 CGTGCTGCTCACATGCCT 60.745 61.111 0.00 0.0 45.92 4.75 R
5300 5427 3.372206 CACATGAATTTCTCCGACCTGAC 59.628 47.826 0.00 0.0 0.00 3.51 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
35 36 1.460305 CTCATCGACCCCCTCCCAT 60.460 63.158 0.00 0.00 0.00 4.00
52 53 1.493871 CCATGCTTTCTCCCTCCTCAT 59.506 52.381 0.00 0.00 0.00 2.90
63 64 0.467384 CCTCCTCATGATCGCCTTGT 59.533 55.000 0.00 0.00 0.00 3.16
77 78 0.958382 CCTTGTTCCCGAAATCGCCA 60.958 55.000 0.00 0.00 38.18 5.69
79 80 0.250553 TTGTTCCCGAAATCGCCACT 60.251 50.000 0.00 0.00 38.18 4.00
147 149 1.269166 GGCTCACACATAACTCGTCG 58.731 55.000 0.00 0.00 0.00 5.12
187 189 0.042431 AGAGGTCATGGCTCAGGAGT 59.958 55.000 0.00 0.00 0.00 3.85
211 216 1.038280 GTCGAAGGGTCCCACGATAT 58.962 55.000 25.37 0.00 37.09 1.63
273 278 2.725312 GGTGGCGATGAGGCTCTGA 61.725 63.158 16.72 0.00 46.88 3.27
306 311 2.386100 TGTGGGGGAGGATCATGCC 61.386 63.158 9.74 9.74 36.25 4.40
326 337 3.917760 GGCGGAGGAGGTCATCGG 61.918 72.222 0.00 0.00 0.00 4.18
362 373 2.993899 CGGGAAGACACACATAGACAAC 59.006 50.000 0.00 0.00 0.00 3.32
397 408 2.007547 GCCCCTGTCGTTTTAGAGCTC 61.008 57.143 5.27 5.27 0.00 4.09
445 456 3.566322 GTGTAGATCCTGTCGCAGTAGAT 59.434 47.826 6.19 3.26 0.00 1.98
504 515 1.760086 CCGACAGAGGCAGAGGGAT 60.760 63.158 0.00 0.00 0.00 3.85
550 562 1.077716 GGGGATGTCGGTTTGGAGG 60.078 63.158 0.00 0.00 0.00 4.30
551 563 1.683441 GGGATGTCGGTTTGGAGGT 59.317 57.895 0.00 0.00 0.00 3.85
557 569 2.853705 TGTCGGTTTGGAGGTTAAAGG 58.146 47.619 0.00 0.00 0.00 3.11
565 577 2.834113 TGGAGGTTAAAGGAGAGGGAG 58.166 52.381 0.00 0.00 0.00 4.30
619 632 2.027100 GTGGGAGTTAACTGAGGGAAGG 60.027 54.545 14.14 0.00 0.00 3.46
621 634 1.065345 GGAGTTAACTGAGGGAAGGGC 60.065 57.143 14.14 0.00 0.00 5.19
644 657 5.644644 CAAGATGCAACCAGATTTAACTCC 58.355 41.667 0.00 0.00 0.00 3.85
652 665 7.154656 GCAACCAGATTTAACTCCTCAAAATT 58.845 34.615 0.00 0.00 0.00 1.82
752 792 0.391130 TAACCATGGCGAGCTGTCAC 60.391 55.000 13.04 0.00 32.94 3.67
1026 1070 1.630333 ATCCCCTCCTCCTCCTCCA 60.630 63.158 0.00 0.00 0.00 3.86
1210 1254 3.132801 GCAGGAGCAGCAAGGAGC 61.133 66.667 0.00 0.00 46.19 4.70
1260 1304 1.575788 TCTGGGAAGAGGAGCTCCATA 59.424 52.381 33.90 10.82 38.89 2.74
1311 1355 3.251004 GCCTGTATTCCGTGGATTGATTC 59.749 47.826 0.00 0.00 0.00 2.52
1329 1373 1.745115 CCGATCTCTGCCCGCAAAA 60.745 57.895 0.00 0.00 0.00 2.44
1337 1381 0.458370 CTGCCCGCAAAATAACCAGC 60.458 55.000 0.00 0.00 0.00 4.85
1363 1407 2.967459 CGCATTGCCGCTGATTAATA 57.033 45.000 2.41 0.00 0.00 0.98
1364 1408 2.843077 CGCATTGCCGCTGATTAATAG 58.157 47.619 2.41 0.00 0.00 1.73
1406 1460 1.068055 GGCCTGCATGTCAAAAGTCTG 60.068 52.381 0.00 0.00 0.00 3.51
1480 1534 1.740025 GGAGTTCTTGAATTCGGCCAG 59.260 52.381 2.24 0.00 0.00 4.85
1515 1569 4.439974 GCCGTGCTCCATTTGAATAATTCA 60.440 41.667 0.00 0.00 38.04 2.57
1523 1577 7.699812 GCTCCATTTGAATAATTCAGTCAACTC 59.300 37.037 0.00 0.00 40.73 3.01
1684 1738 4.758674 GCTGCATCCATGTCAATATGTACT 59.241 41.667 0.00 0.00 0.00 2.73
1700 1754 0.471022 TACTCAGGCACAGGTGGACA 60.471 55.000 1.10 0.00 0.00 4.02
1870 1924 5.993748 TTTTTAAGCATCGAGGGGAAAAT 57.006 34.783 0.00 0.00 0.00 1.82
1956 2010 1.001860 GGCTGCTCTGGATCCTGATAC 59.998 57.143 20.45 15.87 0.00 2.24
1958 2012 3.161067 GCTGCTCTGGATCCTGATACTA 58.839 50.000 20.45 7.66 0.00 1.82
1960 2014 4.148079 CTGCTCTGGATCCTGATACTACA 58.852 47.826 20.45 12.80 0.00 2.74
1961 2015 4.745351 TGCTCTGGATCCTGATACTACAT 58.255 43.478 20.45 0.00 0.00 2.29
1962 2016 4.769488 TGCTCTGGATCCTGATACTACATC 59.231 45.833 20.45 5.08 0.00 3.06
1963 2017 5.016173 GCTCTGGATCCTGATACTACATCT 58.984 45.833 20.45 0.00 0.00 2.90
1964 2018 5.105797 GCTCTGGATCCTGATACTACATCTG 60.106 48.000 20.45 7.20 0.00 2.90
1971 2028 8.410141 GGATCCTGATACTACATCTGCTATTAC 58.590 40.741 3.84 0.00 0.00 1.89
2109 2166 0.651031 CTGCATGTGACTGCGATCTG 59.349 55.000 0.00 0.00 45.30 2.90
2115 2172 0.997932 GTGACTGCGATCTGCTTCTG 59.002 55.000 10.16 2.66 46.63 3.02
2148 2205 5.907207 TGTGTTGGCTCAATAGTCTATCTC 58.093 41.667 0.00 0.00 0.00 2.75
2184 2241 6.881065 ACAAGCATATTTGTAGACACACATCT 59.119 34.615 0.00 0.00 39.40 2.90
2341 2399 0.941463 CTGCCCGTGCGTATGATCTC 60.941 60.000 0.00 0.00 41.78 2.75
2386 2444 4.282068 CTGAAACCACACTGAATTTCACG 58.718 43.478 0.00 0.00 36.42 4.35
2390 2448 3.135994 ACCACACTGAATTTCACGGTAC 58.864 45.455 0.00 0.00 0.00 3.34
2419 2477 7.448469 TGTTCTCCTCTTGGAAATAGAAAAAGG 59.552 37.037 0.00 0.00 42.66 3.11
2422 2480 8.224720 TCTCCTCTTGGAAATAGAAAAAGGAAA 58.775 33.333 0.00 0.00 42.66 3.13
2423 2481 8.776061 TCCTCTTGGAAATAGAAAAAGGAAAA 57.224 30.769 0.00 0.00 39.87 2.29
2535 2593 3.576982 ACCACCATTGACTCGAGAGTTAA 59.423 43.478 21.68 11.87 42.66 2.01
2538 2596 4.082190 CACCATTGACTCGAGAGTTAAGGA 60.082 45.833 21.68 0.00 39.89 3.36
2564 2622 2.420722 ACAGCAGAGAGAGTAGTAACGC 59.579 50.000 0.00 0.00 0.00 4.84
2593 2651 1.602668 CCCATGTCGCCTTGTGTTTTG 60.603 52.381 0.00 0.00 0.00 2.44
2598 2656 1.944709 GTCGCCTTGTGTTTTGGTAGT 59.055 47.619 0.00 0.00 0.00 2.73
2603 2661 4.387862 CGCCTTGTGTTTTGGTAGTACTAG 59.612 45.833 1.87 0.00 0.00 2.57
2616 2675 6.526526 TGGTAGTACTAGACTAGATGAGCAG 58.473 44.000 16.55 0.00 41.47 4.24
2620 2679 3.625853 ACTAGACTAGATGAGCAGCACA 58.374 45.455 16.55 0.00 0.00 4.57
2789 2851 2.435693 GGAGATGGAGGGGGTGTCG 61.436 68.421 0.00 0.00 0.00 4.35
2891 2953 6.701841 CCAGGTACTACACTATTACTGCATTG 59.298 42.308 0.00 0.00 36.02 2.82
2908 2970 3.428045 GCATTGATTAGCAGCTCCGTTTT 60.428 43.478 0.00 0.00 0.00 2.43
2912 2974 1.975660 TTAGCAGCTCCGTTTTGGTT 58.024 45.000 0.00 0.00 39.52 3.67
2914 2976 1.523758 AGCAGCTCCGTTTTGGTTAG 58.476 50.000 0.00 0.00 39.52 2.34
2915 2977 0.109735 GCAGCTCCGTTTTGGTTAGC 60.110 55.000 0.00 0.00 37.76 3.09
2916 2978 0.521735 CAGCTCCGTTTTGGTTAGCC 59.478 55.000 0.00 0.00 38.14 3.93
2917 2979 0.109723 AGCTCCGTTTTGGTTAGCCA 59.890 50.000 0.00 0.00 44.38 4.75
2918 2980 0.521735 GCTCCGTTTTGGTTAGCCAG 59.478 55.000 0.00 0.00 46.91 4.85
2919 2981 1.880646 GCTCCGTTTTGGTTAGCCAGA 60.881 52.381 0.00 0.00 46.91 3.86
2920 2982 2.500229 CTCCGTTTTGGTTAGCCAGAA 58.500 47.619 0.00 0.00 46.91 3.02
2921 2983 2.882137 CTCCGTTTTGGTTAGCCAGAAA 59.118 45.455 3.00 3.10 46.91 2.52
2922 2984 3.288964 TCCGTTTTGGTTAGCCAGAAAA 58.711 40.909 3.00 0.00 46.91 2.29
2923 2985 3.067040 TCCGTTTTGGTTAGCCAGAAAAC 59.933 43.478 13.22 13.22 46.91 2.43
2924 2986 3.067601 CCGTTTTGGTTAGCCAGAAAACT 59.932 43.478 18.25 0.00 46.91 2.66
2925 2987 4.276431 CCGTTTTGGTTAGCCAGAAAACTA 59.724 41.667 18.25 0.00 46.91 2.24
2926 2988 5.048294 CCGTTTTGGTTAGCCAGAAAACTAT 60.048 40.000 18.25 0.00 46.91 2.12
2927 2989 5.856455 CGTTTTGGTTAGCCAGAAAACTATG 59.144 40.000 18.25 5.24 46.91 2.23
2928 2990 5.975693 TTTGGTTAGCCAGAAAACTATGG 57.024 39.130 0.00 0.00 46.91 2.74
2929 2991 4.650972 TGGTTAGCCAGAAAACTATGGT 57.349 40.909 0.00 0.00 40.46 3.55
2930 2992 5.765576 TGGTTAGCCAGAAAACTATGGTA 57.234 39.130 0.00 0.00 40.46 3.25
2931 2993 6.321821 TGGTTAGCCAGAAAACTATGGTAT 57.678 37.500 0.00 0.00 40.46 2.73
2940 3002 8.154856 GCCAGAAAACTATGGTATACTATTCCA 58.845 37.037 7.07 0.00 38.91 3.53
2960 3022 6.288941 TCCAAGACATGCAAAATTCATGAT 57.711 33.333 11.43 0.00 42.84 2.45
2963 3025 6.592220 CCAAGACATGCAAAATTCATGATGAA 59.408 34.615 10.65 10.65 42.84 2.57
2964 3026 7.118535 CCAAGACATGCAAAATTCATGATGAAA 59.881 33.333 12.36 0.00 42.84 2.69
2965 3027 7.827819 AGACATGCAAAATTCATGATGAAAG 57.172 32.000 12.36 4.24 42.84 2.62
2966 3028 7.608153 AGACATGCAAAATTCATGATGAAAGA 58.392 30.769 12.36 0.00 42.84 2.52
2967 3029 8.092068 AGACATGCAAAATTCATGATGAAAGAA 58.908 29.630 12.36 0.00 42.84 2.52
2968 3030 8.610248 ACATGCAAAATTCATGATGAAAGAAA 57.390 26.923 12.36 0.00 42.84 2.52
2969 3031 8.717821 ACATGCAAAATTCATGATGAAAGAAAG 58.282 29.630 12.36 3.24 42.84 2.62
2970 3032 8.931775 CATGCAAAATTCATGATGAAAGAAAGA 58.068 29.630 12.36 0.00 42.84 2.52
3012 3074 3.123804 CAAGTGTATGCTACGTGGGATC 58.876 50.000 9.64 2.81 0.00 3.36
3016 3078 1.961394 GTATGCTACGTGGGATCCAGA 59.039 52.381 15.23 0.00 32.34 3.86
3097 3159 1.608542 GCAGCTAGGATCCATCTGCAG 60.609 57.143 31.02 19.81 46.64 4.41
3275 3337 1.577421 CGCCGGTTTGGAAATTCGT 59.423 52.632 1.90 0.00 42.00 3.85
3346 3411 5.513495 TGCGACTAATTTTGACAAAACACAC 59.487 36.000 15.36 6.18 32.37 3.82
3347 3412 5.513495 GCGACTAATTTTGACAAAACACACA 59.487 36.000 15.36 0.00 32.37 3.72
3391 3456 6.624352 TTCAGAGAGAAACAGTTGGATTTG 57.376 37.500 0.00 0.00 32.05 2.32
3396 3464 6.378280 AGAGAGAAACAGTTGGATTTGTTGTT 59.622 34.615 0.00 0.00 37.57 2.83
3491 3559 0.331616 GGGTGCTGGGGAACAAGTAT 59.668 55.000 0.00 0.00 0.00 2.12
3648 3721 2.712087 TGCCCACCTAACTTTTACCAGA 59.288 45.455 0.00 0.00 0.00 3.86
3750 3823 3.142174 GGCCTTACCTTAATGCTGCTAG 58.858 50.000 0.00 0.00 34.51 3.42
4310 4413 0.031178 GCAGGTTGCCACAAGAGTTG 59.969 55.000 0.00 0.00 37.42 3.16
4545 4664 5.006261 GCCAATTTGACACAAGTTGGTAAAC 59.994 40.000 26.78 14.57 41.01 2.01
5265 5392 6.432783 TCAGGTTTTCATGTTGGGTATACTTG 59.567 38.462 2.25 0.00 33.00 3.16
5292 5419 1.082690 GCTTCTTGTAGGCTGTCTGC 58.917 55.000 0.00 0.00 41.94 4.26
5386 5514 3.815401 GGTATGGTATGAGTGCCAATGTC 59.185 47.826 0.00 0.00 43.65 3.06
5494 5623 7.364522 TCACATTGTGATAGCTTACAAGTTC 57.635 36.000 15.41 0.00 39.83 3.01
5564 5695 5.978814 ACTTGTTCCTATAGAAGTCGCATT 58.021 37.500 0.00 0.00 34.29 3.56
5565 5696 6.043411 ACTTGTTCCTATAGAAGTCGCATTC 58.957 40.000 0.00 0.00 34.29 2.67
5604 5735 7.317722 ACTACTCCCTCTGTAAAACATCTTT 57.682 36.000 0.00 0.00 0.00 2.52
5637 6032 7.578310 TGAGGACGTATTACAGTATAGCTTT 57.422 36.000 0.00 0.00 0.00 3.51
5638 6033 8.681486 TGAGGACGTATTACAGTATAGCTTTA 57.319 34.615 0.00 0.00 0.00 1.85
5679 6074 4.267690 CGCTACGAATGCAGAATGTCTTAA 59.732 41.667 0.00 0.00 39.31 1.85
5682 6077 5.786401 ACGAATGCAGAATGTCTTAAGTC 57.214 39.130 1.63 0.00 39.31 3.01
5683 6078 4.631813 ACGAATGCAGAATGTCTTAAGTCC 59.368 41.667 1.63 0.00 39.31 3.85
5685 6080 4.574674 ATGCAGAATGTCTTAAGTCCCA 57.425 40.909 1.63 0.00 39.31 4.37
5686 6081 3.942829 TGCAGAATGTCTTAAGTCCCAG 58.057 45.455 1.63 0.00 39.31 4.45
5687 6082 3.582647 TGCAGAATGTCTTAAGTCCCAGA 59.417 43.478 1.63 0.00 39.31 3.86
5688 6083 4.041567 TGCAGAATGTCTTAAGTCCCAGAA 59.958 41.667 1.63 0.00 39.31 3.02
5736 6133 6.979817 TCTTCACTTTCATTCAACACAAATGG 59.020 34.615 0.00 0.00 35.32 3.16
5814 6216 5.512788 CGAGTTTTCGCCGTAGAAATAGTTA 59.487 40.000 3.85 0.00 40.36 2.24
5819 6221 9.628983 GTTTTCGCCGTAGAAATAGTTAAATAG 57.371 33.333 3.85 0.00 39.52 1.73
5836 6238 4.574674 AATAGAAGTTCCTGTCATGGCA 57.425 40.909 0.00 0.00 0.00 4.92
5838 6242 3.446442 AGAAGTTCCTGTCATGGCATT 57.554 42.857 0.00 0.00 0.00 3.56
5900 6306 4.957327 AGGATATATAGAGCGGGTTTCCTC 59.043 45.833 0.00 0.00 0.00 3.71
5980 6386 7.264373 CAAATAGTGGAAATGACATACTCCC 57.736 40.000 12.00 5.82 0.00 4.30
5981 6387 6.831664 AATAGTGGAAATGACATACTCCCT 57.168 37.500 12.00 10.90 0.00 4.20
5982 6388 4.762289 AGTGGAAATGACATACTCCCTC 57.238 45.455 12.00 7.10 0.00 4.30
5983 6389 3.456277 AGTGGAAATGACATACTCCCTCC 59.544 47.826 12.00 3.15 0.00 4.30
5984 6390 2.434336 TGGAAATGACATACTCCCTCCG 59.566 50.000 12.00 0.00 0.00 4.63
5985 6391 2.434702 GGAAATGACATACTCCCTCCGT 59.565 50.000 5.51 0.00 0.00 4.69
5986 6392 3.118371 GGAAATGACATACTCCCTCCGTT 60.118 47.826 5.51 0.00 0.00 4.44
5987 6393 4.514401 GAAATGACATACTCCCTCCGTTT 58.486 43.478 0.00 0.00 0.00 3.60
5988 6394 3.821421 ATGACATACTCCCTCCGTTTC 57.179 47.619 0.00 0.00 0.00 2.78
5989 6395 2.531771 TGACATACTCCCTCCGTTTCA 58.468 47.619 0.00 0.00 0.00 2.69
5990 6396 2.901192 TGACATACTCCCTCCGTTTCAA 59.099 45.455 0.00 0.00 0.00 2.69
5991 6397 3.325425 TGACATACTCCCTCCGTTTCAAA 59.675 43.478 0.00 0.00 0.00 2.69
5992 6398 4.202377 TGACATACTCCCTCCGTTTCAAAA 60.202 41.667 0.00 0.00 0.00 2.44
5993 6399 4.918588 ACATACTCCCTCCGTTTCAAAAT 58.081 39.130 0.00 0.00 0.00 1.82
5994 6400 6.057321 ACATACTCCCTCCGTTTCAAAATA 57.943 37.500 0.00 0.00 0.00 1.40
5995 6401 6.113411 ACATACTCCCTCCGTTTCAAAATAG 58.887 40.000 0.00 0.00 0.00 1.73
5996 6402 4.903045 ACTCCCTCCGTTTCAAAATAGA 57.097 40.909 0.00 0.00 0.00 1.98
5997 6403 5.237236 ACTCCCTCCGTTTCAAAATAGAA 57.763 39.130 0.00 0.00 0.00 2.10
5998 6404 5.001874 ACTCCCTCCGTTTCAAAATAGAAC 58.998 41.667 0.00 0.00 0.00 3.01
5999 6405 3.998341 TCCCTCCGTTTCAAAATAGAACG 59.002 43.478 0.00 0.00 0.00 3.95
6000 6406 3.126343 CCCTCCGTTTCAAAATAGAACGG 59.874 47.826 17.91 17.91 40.37 4.44
6001 6407 3.998341 CCTCCGTTTCAAAATAGAACGGA 59.002 43.478 23.05 23.05 42.81 4.69
6003 6409 3.998341 TCCGTTTCAAAATAGAACGGAGG 59.002 43.478 21.39 1.89 41.57 4.30
6004 6410 3.126343 CCGTTTCAAAATAGAACGGAGGG 59.874 47.826 18.90 0.00 40.92 4.30
6005 6411 3.998341 CGTTTCAAAATAGAACGGAGGGA 59.002 43.478 0.00 0.00 0.00 4.20
6006 6412 4.092968 CGTTTCAAAATAGAACGGAGGGAG 59.907 45.833 0.00 0.00 0.00 4.30
6007 6413 4.903045 TTCAAAATAGAACGGAGGGAGT 57.097 40.909 0.00 0.00 0.00 3.85
6008 6414 6.168389 GTTTCAAAATAGAACGGAGGGAGTA 58.832 40.000 0.00 0.00 0.00 2.59
6009 6415 5.334724 TCAAAATAGAACGGAGGGAGTAC 57.665 43.478 0.00 0.00 0.00 2.73
6017 6423 4.578105 AGAACGGAGGGAGTACGTATTAAG 59.422 45.833 0.00 0.00 40.31 1.85
6026 6432 7.263496 AGGGAGTACGTATTAAGCTTAACAAG 58.737 38.462 20.85 14.38 0.00 3.16
6032 6438 4.035208 CGTATTAAGCTTAACAAGGGGCTG 59.965 45.833 20.85 1.10 35.08 4.85
6046 6452 1.683385 GGGGCTGCATAACATTTCCTC 59.317 52.381 0.50 0.00 0.00 3.71
6091 6497 4.696479 AATGTATAAGAGGGAGCCTGTG 57.304 45.455 0.00 0.00 31.76 3.66
6100 6506 2.660064 GGAGCCTGTGACCGATGGT 61.660 63.158 0.00 0.00 39.44 3.55
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.356553 GGCCGCACGTAGTTGACA 60.357 61.111 0.00 0.00 41.61 3.58
1 2 2.048503 AGGCCGCACGTAGTTGAC 60.049 61.111 0.00 0.00 41.61 3.18
3 4 1.421410 GATGAGGCCGCACGTAGTTG 61.421 60.000 12.85 0.00 41.61 3.16
4 5 1.153628 GATGAGGCCGCACGTAGTT 60.154 57.895 12.85 0.00 41.61 2.24
6 7 2.655364 CGATGAGGCCGCACGTAG 60.655 66.667 12.85 0.00 0.00 3.51
7 8 3.135457 TCGATGAGGCCGCACGTA 61.135 61.111 22.83 12.31 0.00 3.57
8 9 4.796231 GTCGATGAGGCCGCACGT 62.796 66.667 22.83 6.80 0.00 4.49
35 36 1.956869 TCATGAGGAGGGAGAAAGCA 58.043 50.000 0.00 0.00 0.00 3.91
52 53 0.035598 TTTCGGGAACAAGGCGATCA 59.964 50.000 0.00 0.00 0.00 2.92
63 64 0.672401 GACAGTGGCGATTTCGGGAA 60.672 55.000 1.75 0.00 40.23 3.97
77 78 1.593787 CATGGTGGAGAGCGACAGT 59.406 57.895 0.00 0.00 0.00 3.55
79 80 2.981302 CCATGGTGGAGAGCGACA 59.019 61.111 2.57 0.00 40.96 4.35
160 162 1.330655 GCCATGACCTCTCCCGAGAA 61.331 60.000 0.00 0.00 39.74 2.87
187 189 1.679944 CGTGGGACCCTTCGACTACTA 60.680 57.143 19.05 0.00 0.00 1.82
211 216 2.089201 TGAAGGAGCACGACTATCGAA 58.911 47.619 5.04 0.00 43.74 3.71
291 296 3.958860 CCGGCATGATCCTCCCCC 61.959 72.222 0.00 0.00 0.00 5.40
319 324 4.176752 GGCCTCACCCCCGATGAC 62.177 72.222 0.00 0.00 0.00 3.06
350 361 6.054941 TGACTTCATTGTGTTGTCTATGTGT 58.945 36.000 0.00 0.00 0.00 3.72
362 373 2.947652 CAGGGGCTATGACTTCATTGTG 59.052 50.000 0.00 0.00 37.76 3.33
466 477 1.752501 CTTGCGCGTCAGGGTATTCG 61.753 60.000 8.43 0.00 0.00 3.34
498 509 3.193691 CACCGAGATACACCATATCCCTC 59.806 52.174 0.00 0.00 0.00 4.30
504 515 3.254903 CGAATCCACCGAGATACACCATA 59.745 47.826 0.00 0.00 0.00 2.74
550 562 4.345854 TGTCTCTCTCCCTCTCCTTTAAC 58.654 47.826 0.00 0.00 0.00 2.01
551 563 4.676799 TGTCTCTCTCCCTCTCCTTTAA 57.323 45.455 0.00 0.00 0.00 1.52
557 569 2.071778 AGCATGTCTCTCTCCCTCTC 57.928 55.000 0.00 0.00 0.00 3.20
565 577 0.935898 CGCATGGAAGCATGTCTCTC 59.064 55.000 0.00 0.00 35.16 3.20
592 604 1.765904 TCAGTTAACTCCCACTGCACA 59.234 47.619 4.77 0.00 40.33 4.57
594 606 1.347707 CCTCAGTTAACTCCCACTGCA 59.652 52.381 4.77 0.00 40.33 4.41
595 607 1.339151 CCCTCAGTTAACTCCCACTGC 60.339 57.143 4.77 0.00 40.33 4.40
596 608 2.257207 TCCCTCAGTTAACTCCCACTG 58.743 52.381 4.77 0.00 41.65 3.66
619 632 4.082026 AGTTAAATCTGGTTGCATCTTGCC 60.082 41.667 0.00 0.00 44.23 4.52
621 634 5.416952 AGGAGTTAAATCTGGTTGCATCTTG 59.583 40.000 2.56 0.00 0.00 3.02
658 671 9.569122 TTCTCAAACAACTATAAAACCTTAGCT 57.431 29.630 0.00 0.00 0.00 3.32
692 732 3.068307 GCATCTCTAGCCGTTCCTCTAAA 59.932 47.826 0.00 0.00 0.00 1.85
695 735 1.036707 GCATCTCTAGCCGTTCCTCT 58.963 55.000 0.00 0.00 0.00 3.69
743 783 2.046892 ATGCACCGGTGACAGCTC 60.047 61.111 38.30 19.13 0.00 4.09
879 920 1.395826 GGCCTGGTACTCTGCTCGAT 61.396 60.000 0.00 0.00 0.00 3.59
1026 1070 2.093764 CGAAGAAGAAGGAGATGGCTGT 60.094 50.000 0.00 0.00 0.00 4.40
1077 1121 0.930726 AGTCGGAGGAGGAAGGAGAT 59.069 55.000 0.00 0.00 0.00 2.75
1240 1284 0.341258 ATGGAGCTCCTCTTCCCAGA 59.659 55.000 32.28 10.24 36.82 3.86
1242 1286 2.803285 ATATGGAGCTCCTCTTCCCA 57.197 50.000 32.28 12.49 36.82 4.37
1260 1304 2.344093 ACCTTGTGACCCCTCTGTAT 57.656 50.000 0.00 0.00 0.00 2.29
1311 1355 1.097547 ATTTTGCGGGCAGAGATCGG 61.098 55.000 0.00 0.00 0.00 4.18
1329 1373 1.113788 ATGCGCAATTGGCTGGTTAT 58.886 45.000 17.11 0.00 41.67 1.89
1337 1381 3.556549 GCGGCAATGCGCAATTGG 61.557 61.111 17.11 5.28 45.05 3.16
1389 1443 2.606308 GGTGCAGACTTTTGACATGCAG 60.606 50.000 0.00 0.00 46.63 4.41
1426 1480 2.738587 TAACAGGCTCTCCGAGAGAT 57.261 50.000 26.64 12.67 45.07 2.75
1480 1534 1.801512 GCACGGCAAGAAAATCCGC 60.802 57.895 0.00 0.00 46.49 5.54
1523 1577 6.351117 CCTCCTACTTCCTAACAACTAACAGG 60.351 46.154 0.00 0.00 0.00 4.00
1577 1631 1.466856 TTAAATGAGCAGGCAGGCAG 58.533 50.000 0.00 0.00 35.83 4.85
1578 1632 2.026641 GATTAAATGAGCAGGCAGGCA 58.973 47.619 0.00 0.00 35.83 4.75
1579 1633 1.339291 GGATTAAATGAGCAGGCAGGC 59.661 52.381 0.00 0.00 0.00 4.85
1580 1634 1.605710 CGGATTAAATGAGCAGGCAGG 59.394 52.381 0.00 0.00 0.00 4.85
1684 1738 2.519622 CCTGTCCACCTGTGCCTGA 61.520 63.158 0.00 0.00 0.00 3.86
1700 1754 1.078848 GTGTGCCTCGAATCTGCCT 60.079 57.895 0.00 0.00 0.00 4.75
1860 1914 6.073003 CGTATTGCATCTCTAATTTTCCCCTC 60.073 42.308 0.00 0.00 0.00 4.30
1862 1916 5.763204 TCGTATTGCATCTCTAATTTTCCCC 59.237 40.000 0.00 0.00 0.00 4.81
1863 1917 6.073003 CCTCGTATTGCATCTCTAATTTTCCC 60.073 42.308 0.00 0.00 0.00 3.97
1870 1924 4.588951 ACCATCCTCGTATTGCATCTCTAA 59.411 41.667 0.00 0.00 0.00 2.10
1935 1989 1.417288 ATCAGGATCCAGAGCAGCCC 61.417 60.000 15.82 0.00 0.00 5.19
1956 2010 5.817296 TGCTTTGTGGTAATAGCAGATGTAG 59.183 40.000 0.00 0.00 38.61 2.74
1958 2012 4.588899 TGCTTTGTGGTAATAGCAGATGT 58.411 39.130 0.00 0.00 38.61 3.06
1960 2014 8.469309 AAATATGCTTTGTGGTAATAGCAGAT 57.531 30.769 0.00 0.00 44.67 2.90
1961 2015 7.880160 AAATATGCTTTGTGGTAATAGCAGA 57.120 32.000 0.00 0.00 45.72 4.26
1962 2016 8.931385 AAAAATATGCTTTGTGGTAATAGCAG 57.069 30.769 0.00 0.00 45.72 4.24
1992 2049 1.878373 AAATTCGCTTCGCTTTACGC 58.122 45.000 0.00 0.00 43.23 4.42
2004 2061 6.634436 CAGAATGTCAGCCTTAATAAATTCGC 59.366 38.462 0.00 0.00 0.00 4.70
2109 2166 1.268899 ACACAGCATCAAAGCAGAAGC 59.731 47.619 0.00 0.00 42.56 3.86
2115 2172 0.316204 AGCCAACACAGCATCAAAGC 59.684 50.000 0.00 0.00 0.00 3.51
2148 2205 2.684001 TATGCTTGTGGGACTTACCG 57.316 50.000 0.00 0.00 40.11 4.02
2256 2314 7.429340 CCAAATCGTCAACAAGCAGATTATAAC 59.571 37.037 0.00 0.00 32.05 1.89
2332 2390 0.593618 TGAGAGCCGCGAGATCATAC 59.406 55.000 8.23 3.09 0.00 2.39
2335 2393 0.461548 ATTTGAGAGCCGCGAGATCA 59.538 50.000 8.23 3.11 0.00 2.92
2341 2399 0.588252 CCCAATATTTGAGAGCCGCG 59.412 55.000 0.00 0.00 0.00 6.46
2344 2402 1.332195 GGCCCCAATATTTGAGAGCC 58.668 55.000 0.00 0.00 34.43 4.70
2386 2444 2.298163 TCCAAGAGGAGAACAACGTACC 59.702 50.000 0.00 0.00 39.61 3.34
2390 2448 5.479306 TCTATTTCCAAGAGGAGAACAACG 58.521 41.667 0.00 0.00 46.74 4.10
2446 2504 1.128692 GACGCAGCAACTTGGATGTAC 59.871 52.381 0.00 0.00 0.00 2.90
2535 2593 0.407528 TCTCTCTGCTGTCACCTCCT 59.592 55.000 0.00 0.00 0.00 3.69
2538 2596 2.041081 ACTACTCTCTCTGCTGTCACCT 59.959 50.000 0.00 0.00 0.00 4.00
2583 2641 8.790718 TCTAGTCTAGTACTACCAAAACACAAG 58.209 37.037 6.77 0.00 39.80 3.16
2593 2651 5.410439 GCTGCTCATCTAGTCTAGTACTACC 59.590 48.000 6.77 0.00 39.80 3.18
2598 2656 4.576873 GTGTGCTGCTCATCTAGTCTAGTA 59.423 45.833 7.73 0.00 0.00 1.82
2603 2661 2.662006 TGTGTGCTGCTCATCTAGTC 57.338 50.000 7.73 0.00 0.00 2.59
2616 2675 1.539827 AGGCCGTCTTTTTATGTGTGC 59.460 47.619 0.00 0.00 0.00 4.57
2620 2679 4.522789 ACATTCAAGGCCGTCTTTTTATGT 59.477 37.500 0.00 0.00 32.41 2.29
2891 2953 2.084546 ACCAAAACGGAGCTGCTAATC 58.915 47.619 0.15 0.00 38.63 1.75
2908 2970 4.650972 ACCATAGTTTTCTGGCTAACCA 57.349 40.909 0.00 0.00 46.51 3.67
2914 2976 8.154856 TGGAATAGTATACCATAGTTTTCTGGC 58.845 37.037 0.00 0.00 35.88 4.85
2922 2984 8.314751 GCATGTCTTGGAATAGTATACCATAGT 58.685 37.037 0.00 0.00 33.56 2.12
2923 2985 8.314021 TGCATGTCTTGGAATAGTATACCATAG 58.686 37.037 0.00 0.00 33.56 2.23
2924 2986 8.201242 TGCATGTCTTGGAATAGTATACCATA 57.799 34.615 0.00 0.00 33.56 2.74
2925 2987 7.078249 TGCATGTCTTGGAATAGTATACCAT 57.922 36.000 0.00 0.00 33.56 3.55
2926 2988 6.493189 TGCATGTCTTGGAATAGTATACCA 57.507 37.500 0.00 0.00 0.00 3.25
2927 2989 7.801716 TTTGCATGTCTTGGAATAGTATACC 57.198 36.000 0.00 0.00 35.41 2.73
2930 2992 8.970020 TGAATTTTGCATGTCTTGGAATAGTAT 58.030 29.630 0.00 0.00 35.41 2.12
2931 2993 8.347004 TGAATTTTGCATGTCTTGGAATAGTA 57.653 30.769 0.00 0.00 35.41 1.82
2938 3000 6.103330 TCATCATGAATTTTGCATGTCTTGG 58.897 36.000 0.00 0.00 42.77 3.61
2940 3002 8.092068 TCTTTCATCATGAATTTTGCATGTCTT 58.908 29.630 0.00 0.00 42.77 3.01
2943 3005 8.610248 TTTCTTTCATCATGAATTTTGCATGT 57.390 26.923 0.00 0.00 42.77 3.21
2960 3022 2.210116 GCCACGTGTCTCTTTCTTTCA 58.790 47.619 15.65 0.00 0.00 2.69
2963 3025 2.146342 CATGCCACGTGTCTCTTTCTT 58.854 47.619 15.65 0.00 0.00 2.52
2964 3026 1.800805 CATGCCACGTGTCTCTTTCT 58.199 50.000 15.65 0.00 0.00 2.52
2965 3027 0.166814 GCATGCCACGTGTCTCTTTC 59.833 55.000 15.65 0.00 0.00 2.62
2966 3028 0.534877 TGCATGCCACGTGTCTCTTT 60.535 50.000 16.68 0.00 0.00 2.52
2967 3029 0.534877 TTGCATGCCACGTGTCTCTT 60.535 50.000 16.68 0.00 0.00 2.85
2968 3030 0.952497 CTTGCATGCCACGTGTCTCT 60.952 55.000 16.68 0.00 0.00 3.10
2969 3031 1.230635 ACTTGCATGCCACGTGTCTC 61.231 55.000 16.68 3.80 0.00 3.36
2970 3032 1.227943 ACTTGCATGCCACGTGTCT 60.228 52.632 16.68 0.00 0.00 3.41
3016 3078 1.305297 TCCCGAGTCAGCACCATCT 60.305 57.895 0.00 0.00 0.00 2.90
3097 3159 2.046892 ATGCCACTGACTCCACGC 60.047 61.111 0.00 0.00 0.00 5.34
3275 3337 3.485463 ACCGTTTCTGTGAATTCCAGA 57.515 42.857 17.56 17.56 37.18 3.86
3346 3411 8.592105 TGAAATTTCAGCAAAATTAGTTCCTG 57.408 30.769 16.91 0.00 44.88 3.86
3347 3412 8.822652 CTGAAATTTCAGCAAAATTAGTTCCT 57.177 30.769 29.90 0.00 46.97 3.36
3491 3559 3.521937 CACCAAAGGTTCCCAGGTATAGA 59.478 47.826 0.00 0.00 31.02 1.98
3648 3721 8.875168 TGGGTGTTAGGTTTGATCATAAAATTT 58.125 29.630 0.00 0.00 0.00 1.82
4019 4120 2.745100 CGTGCTGCTCACATGCCT 60.745 61.111 0.00 0.00 45.92 4.75
4178 4280 7.935755 GTGATTTGGATCCTGAATCTTGATCTA 59.064 37.037 27.13 13.00 36.12 1.98
4335 4438 4.449068 GTCACTAGAGTTCATTGTGGTGTG 59.551 45.833 0.00 0.00 0.00 3.82
4545 4664 5.814188 TGCACTATTGAGCTAAATCACAGAG 59.186 40.000 0.00 0.00 0.00 3.35
5265 5392 4.116238 CAGCCTACAAGAAGCTAGCTAAC 58.884 47.826 19.70 15.17 34.38 2.34
5300 5427 3.372206 CACATGAATTTCTCCGACCTGAC 59.628 47.826 0.00 0.00 0.00 3.51
5386 5514 6.471233 AACTTTCAAGGAGAAGAAAAAGGG 57.529 37.500 0.00 0.00 37.57 3.95
5560 5691 9.796120 GAGTAGTATATTAGGATCACAGAATGC 57.204 37.037 0.00 0.00 42.53 3.56
5564 5695 8.233349 AGGGAGTAGTATATTAGGATCACAGA 57.767 38.462 0.00 0.00 0.00 3.41
5565 5696 8.333235 AGAGGGAGTAGTATATTAGGATCACAG 58.667 40.741 0.00 0.00 0.00 3.66
5604 5735 8.836268 ACTGTAATACGTCCTCAAACAAATAA 57.164 30.769 0.00 0.00 0.00 1.40
5637 6032 4.340617 AGCGGGAATTTCCAAATCAAGTA 58.659 39.130 17.08 0.00 38.64 2.24
5638 6033 3.165071 AGCGGGAATTTCCAAATCAAGT 58.835 40.909 17.08 0.00 38.64 3.16
5695 6091 9.388506 GAAAGTGAAGATTCTTCCATCAAGATA 57.611 33.333 20.87 0.00 41.02 1.98
5715 6111 4.809958 TGCCATTTGTGTTGAATGAAAGTG 59.190 37.500 0.00 0.00 36.78 3.16
5791 6193 5.774878 AACTATTTCTACGGCGAAAACTC 57.225 39.130 16.62 0.00 36.57 3.01
5814 6216 4.922206 TGCCATGACAGGAACTTCTATTT 58.078 39.130 0.00 0.00 34.60 1.40
5819 6221 4.525912 AAAATGCCATGACAGGAACTTC 57.474 40.909 0.00 0.00 34.60 3.01
5873 6279 6.435292 AAACCCGCTCTATATATCCTGTTT 57.565 37.500 0.00 0.00 0.00 2.83
5874 6280 5.046520 GGAAACCCGCTCTATATATCCTGTT 60.047 44.000 0.00 0.00 0.00 3.16
5875 6281 4.466726 GGAAACCCGCTCTATATATCCTGT 59.533 45.833 0.00 0.00 0.00 4.00
5920 6326 5.874810 ACACTGTATAACATGACAATTCGCT 59.125 36.000 0.00 0.00 0.00 4.93
5977 6383 3.998341 CGTTCTATTTTGAAACGGAGGGA 59.002 43.478 0.00 0.00 0.00 4.20
5978 6384 3.126343 CCGTTCTATTTTGAAACGGAGGG 59.874 47.826 18.29 0.00 40.02 4.30
5979 6385 3.998341 TCCGTTCTATTTTGAAACGGAGG 59.002 43.478 20.88 0.96 40.71 4.30
5980 6386 5.204673 CTCCGTTCTATTTTGAAACGGAG 57.795 43.478 29.95 29.95 46.81 4.63
5981 6387 3.998341 CCTCCGTTCTATTTTGAAACGGA 59.002 43.478 22.61 22.61 41.90 4.69
5982 6388 3.126343 CCCTCCGTTCTATTTTGAAACGG 59.874 47.826 17.31 17.31 39.53 4.44
5983 6389 3.998341 TCCCTCCGTTCTATTTTGAAACG 59.002 43.478 0.00 0.00 0.00 3.60
5984 6390 5.001874 ACTCCCTCCGTTCTATTTTGAAAC 58.998 41.667 0.00 0.00 0.00 2.78
5985 6391 5.237236 ACTCCCTCCGTTCTATTTTGAAA 57.763 39.130 0.00 0.00 0.00 2.69
5986 6392 4.903045 ACTCCCTCCGTTCTATTTTGAA 57.097 40.909 0.00 0.00 0.00 2.69
5987 6393 4.142315 CGTACTCCCTCCGTTCTATTTTGA 60.142 45.833 0.00 0.00 0.00 2.69
5988 6394 4.110482 CGTACTCCCTCCGTTCTATTTTG 58.890 47.826 0.00 0.00 0.00 2.44
5989 6395 3.766051 ACGTACTCCCTCCGTTCTATTTT 59.234 43.478 0.00 0.00 0.00 1.82
5990 6396 3.359950 ACGTACTCCCTCCGTTCTATTT 58.640 45.455 0.00 0.00 0.00 1.40
5991 6397 3.010200 ACGTACTCCCTCCGTTCTATT 57.990 47.619 0.00 0.00 0.00 1.73
5992 6398 2.725221 ACGTACTCCCTCCGTTCTAT 57.275 50.000 0.00 0.00 0.00 1.98
5993 6399 3.845781 ATACGTACTCCCTCCGTTCTA 57.154 47.619 0.00 0.00 36.12 2.10
5994 6400 2.725221 ATACGTACTCCCTCCGTTCT 57.275 50.000 0.00 0.00 36.12 3.01
5995 6401 4.791088 GCTTAATACGTACTCCCTCCGTTC 60.791 50.000 0.00 0.00 36.12 3.95
5996 6402 3.067320 GCTTAATACGTACTCCCTCCGTT 59.933 47.826 0.00 0.00 36.12 4.44
5997 6403 2.620585 GCTTAATACGTACTCCCTCCGT 59.379 50.000 0.00 0.00 38.53 4.69
5998 6404 2.883386 AGCTTAATACGTACTCCCTCCG 59.117 50.000 0.00 0.00 0.00 4.63
5999 6405 4.933505 AAGCTTAATACGTACTCCCTCC 57.066 45.455 0.00 0.00 0.00 4.30
6000 6406 6.799512 TGTTAAGCTTAATACGTACTCCCTC 58.200 40.000 21.28 5.14 0.00 4.30
6001 6407 6.780457 TGTTAAGCTTAATACGTACTCCCT 57.220 37.500 21.28 0.00 0.00 4.20
6002 6408 6.478016 CCTTGTTAAGCTTAATACGTACTCCC 59.522 42.308 21.28 5.80 0.00 4.30
6003 6409 6.478016 CCCTTGTTAAGCTTAATACGTACTCC 59.522 42.308 21.28 6.48 0.00 3.85
6004 6410 6.478016 CCCCTTGTTAAGCTTAATACGTACTC 59.522 42.308 21.28 7.15 0.00 2.59
6005 6411 6.343703 CCCCTTGTTAAGCTTAATACGTACT 58.656 40.000 21.28 0.00 0.00 2.73
6006 6412 5.007039 GCCCCTTGTTAAGCTTAATACGTAC 59.993 44.000 21.28 9.22 0.00 3.67
6007 6413 5.104817 AGCCCCTTGTTAAGCTTAATACGTA 60.105 40.000 21.28 0.00 29.27 3.57
6008 6414 3.943381 GCCCCTTGTTAAGCTTAATACGT 59.057 43.478 21.28 0.00 0.00 3.57
6009 6415 4.035208 CAGCCCCTTGTTAAGCTTAATACG 59.965 45.833 21.28 15.72 31.93 3.06
6017 6423 1.762708 TATGCAGCCCCTTGTTAAGC 58.237 50.000 0.00 0.00 0.00 3.09
6026 6432 1.683385 GAGGAAATGTTATGCAGCCCC 59.317 52.381 0.00 0.00 0.00 5.80
6032 6438 7.150783 AGAAGAACAAGAGGAAATGTTATGC 57.849 36.000 0.00 0.00 39.73 3.14
6046 6452 5.405797 TCATGTCATCTCGAGAAGAACAAG 58.594 41.667 20.99 18.79 37.61 3.16
6091 6497 2.921754 CGTGTAGAGAAAACCATCGGTC 59.078 50.000 0.00 0.00 33.12 4.79
6100 6506 2.489971 CACCTTGCCGTGTAGAGAAAA 58.510 47.619 0.00 0.00 0.00 2.29
6170 6577 1.671054 CTTGTTCCCGCGTCCACAT 60.671 57.895 4.92 0.00 0.00 3.21


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

AutoCloner maintained by Alex Coulton.