Multiple sequence alignment - TraesCS6B01G371200

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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 TraesCS6B01G371200 chr6B 100.000 5307 0 0 1 5307 645349888 645355194 0.000000e+00 9801.0
1 TraesCS6B01G371200 chr6D 90.617 5361 322 84 46 5306 428640121 428645400 0.000000e+00 6946.0
2 TraesCS6B01G371200 chr6A 93.128 2372 113 21 738 3071 573405265 573407624 0.000000e+00 3432.0
3 TraesCS6B01G371200 chr6A 91.176 2108 102 43 3123 5203 573407742 573409792 0.000000e+00 2785.0
4 TraesCS6B01G371200 chr6A 84.469 631 71 13 3 615 573403265 573403886 9.840000e-167 597.0
5 TraesCS6B01G371200 chr6A 89.899 99 4 3 5202 5298 573409886 573409980 7.220000e-24 122.0
6 TraesCS6B01G371200 chr5B 82.857 105 13 3 1493 1596 65034148 65034048 7.320000e-14 89.8


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 TraesCS6B01G371200 chr6B 645349888 645355194 5306 False 9801 9801 100.000 1 5307 1 chr6B.!!$F1 5306
1 TraesCS6B01G371200 chr6D 428640121 428645400 5279 False 6946 6946 90.617 46 5306 1 chr6D.!!$F1 5260
2 TraesCS6B01G371200 chr6A 573403265 573409980 6715 False 1734 3432 89.668 3 5298 4 chr6A.!!$F1 5295

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
419 435 0.101219 GGCGAAATGATCCACCTTGC 59.899 55.0 0.0 0.0 0.0 4.01 F
1961 3300 0.113385 TTGGGTGGGTTGTGGTATGG 59.887 55.0 0.0 0.0 0.0 2.74 F
3027 4366 0.515127 TGCAATGTTCAGGCGTTACG 59.485 50.0 0.0 0.0 0.0 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2116 3455 0.815615 CTTTGCGCTCCCTCCCATAC 60.816 60.0 9.73 0.0 0.0 2.39 R
3896 5300 0.389426 ACACTGACCCGATAACACGC 60.389 55.0 0.00 0.0 0.0 5.34 R
4501 5927 0.107703 TTGCGGCTTCCACTATCCAG 60.108 55.0 0.00 0.0 0.0 3.86 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
40 41 1.073923 TGAGTCCCTTTGGCTCCTTTC 59.926 52.381 0.00 0.00 35.29 2.62
48 49 1.281419 TTGGCTCCTTTCCCGTCATA 58.719 50.000 0.00 0.00 0.00 2.15
53 54 2.421529 GCTCCTTTCCCGTCATAATGGT 60.422 50.000 0.00 0.00 0.00 3.55
60 61 2.569853 TCCCGTCATAATGGTGTGTCTT 59.430 45.455 0.00 0.00 0.00 3.01
65 66 2.746904 TCATAATGGTGTGTCTTTGGCG 59.253 45.455 0.00 0.00 0.00 5.69
129 138 5.123502 GTCGACTAGATCTTGTGTGTTCCTA 59.876 44.000 14.73 0.00 0.00 2.94
136 145 4.252971 TCTTGTGTGTTCCTACTACAGC 57.747 45.455 0.00 0.00 0.00 4.40
138 147 2.321719 TGTGTGTTCCTACTACAGCCA 58.678 47.619 0.00 0.00 0.00 4.75
139 148 2.036733 TGTGTGTTCCTACTACAGCCAC 59.963 50.000 0.00 0.00 0.00 5.01
143 152 0.902531 TTCCTACTACAGCCACCTGC 59.097 55.000 0.00 0.00 43.02 4.85
170 179 0.107456 ATCATGCCTACCAAGCTCGG 59.893 55.000 0.00 0.00 0.00 4.63
198 207 2.159028 TCACTGGTCGATGTGTCAACAA 60.159 45.455 13.22 0.00 40.46 2.83
211 220 4.642437 TGTGTCAACAATGAAGCCTTTGTA 59.358 37.500 0.00 0.00 39.01 2.41
263 279 0.537188 TCTTGGAGGCGATTCAGACC 59.463 55.000 0.00 0.00 0.00 3.85
277 293 2.179427 TCAGACCTGTGTGGACTATGG 58.821 52.381 0.00 0.00 38.74 2.74
303 319 6.987404 CCTAAGATAAAGGTAGCTTGGTTCTC 59.013 42.308 8.16 1.67 36.62 2.87
325 341 6.419710 TCTCGTTTGTATTATGCCTGTATTCG 59.580 38.462 0.00 0.00 0.00 3.34
335 351 5.947228 ATGCCTGTATTCGATTGTTATGG 57.053 39.130 0.00 0.00 0.00 2.74
385 401 6.540189 ACATATGTTCCTGAAAAAGAGATCCG 59.460 38.462 1.41 0.00 0.00 4.18
419 435 0.101219 GGCGAAATGATCCACCTTGC 59.899 55.000 0.00 0.00 0.00 4.01
432 448 3.391296 TCCACCTTGCTATATCCAAGACC 59.609 47.826 14.42 0.00 41.64 3.85
457 473 7.272037 CTTGAGTTAAGGGCTAAAAGTTTGA 57.728 36.000 0.00 0.00 32.56 2.69
460 476 8.245195 TGAGTTAAGGGCTAAAAGTTTGAAAT 57.755 30.769 0.00 0.00 0.00 2.17
463 479 9.582648 AGTTAAGGGCTAAAAGTTTGAAATAGA 57.417 29.630 0.00 0.00 0.00 1.98
471 487 8.141909 GCTAAAAGTTTGAAATAGAGGGTTGTT 58.858 33.333 0.00 0.00 0.00 2.83
478 494 6.433847 TGAAATAGAGGGTTGTTGAGAAGA 57.566 37.500 0.00 0.00 0.00 2.87
486 502 5.983540 AGGGTTGTTGAGAAGATAGACATC 58.016 41.667 0.00 0.00 0.00 3.06
488 504 6.897966 AGGGTTGTTGAGAAGATAGACATCTA 59.102 38.462 0.00 0.00 40.81 1.98
591 608 9.225682 AGTATATTCTAATTCCTCCAACTTCCA 57.774 33.333 0.00 0.00 0.00 3.53
602 619 4.372656 CTCCAACTTCCATCCTATTCGAC 58.627 47.826 0.00 0.00 0.00 4.20
604 621 5.205821 TCCAACTTCCATCCTATTCGACTA 58.794 41.667 0.00 0.00 0.00 2.59
618 922 2.567985 TCGACTAGCATGTGTCCGATA 58.432 47.619 0.00 0.00 0.00 2.92
631 935 3.130516 GTGTCCGATATCTTCACTCCACA 59.869 47.826 0.34 0.00 0.00 4.17
633 937 2.357952 TCCGATATCTTCACTCCACACG 59.642 50.000 0.34 0.00 0.00 4.49
645 949 5.845103 TCACTCCACACGTTACTTTCATAA 58.155 37.500 0.00 0.00 0.00 1.90
656 962 8.889717 CACGTTACTTTCATAAATTATCACCCT 58.110 33.333 0.00 0.00 0.00 4.34
657 963 8.889717 ACGTTACTTTCATAAATTATCACCCTG 58.110 33.333 0.00 0.00 0.00 4.45
677 983 4.328440 CCTGAAGAGCGAACAAATAGTCTG 59.672 45.833 0.00 0.00 0.00 3.51
743 2016 9.905171 CTAACTATCCCCTAAACGTATAAACTC 57.095 37.037 0.00 0.00 0.00 3.01
779 2060 6.989759 CCAATTTACCTTTAACCAAACAAGCT 59.010 34.615 0.00 0.00 0.00 3.74
781 2062 3.452755 ACCTTTAACCAAACAAGCTGC 57.547 42.857 0.00 0.00 0.00 5.25
847 2145 3.455543 AGACTAAGCTACGAGTCCCTACT 59.544 47.826 15.97 0.05 42.62 2.57
850 2148 5.550290 ACTAAGCTACGAGTCCCTACTATC 58.450 45.833 0.00 0.00 35.56 2.08
976 2274 5.309806 GCTTCTTCCCTCCTATAAACCCATA 59.690 44.000 0.00 0.00 0.00 2.74
1635 2936 0.402504 TTACAACCGGAGCAATGGGT 59.597 50.000 9.46 0.00 34.99 4.51
1677 2979 0.752743 ATTGTGGCGTGGATCATGGG 60.753 55.000 0.00 0.00 0.00 4.00
1686 2988 0.180171 TGGATCATGGGTGGCTAACG 59.820 55.000 0.00 0.00 0.00 3.18
1688 2990 0.179045 GATCATGGGTGGCTAACGCT 60.179 55.000 0.00 0.00 42.15 5.07
1689 2991 0.255890 ATCATGGGTGGCTAACGCTT 59.744 50.000 0.00 0.76 42.15 4.68
1690 2992 0.906066 TCATGGGTGGCTAACGCTTA 59.094 50.000 0.00 0.00 42.15 3.09
1703 3005 8.557029 GTGGCTAACGCTTATAGTTGAATTAAT 58.443 33.333 0.00 0.00 36.09 1.40
1780 3114 4.867608 GCTAGGACTGAAGATTGAAGTGAC 59.132 45.833 0.00 0.00 0.00 3.67
1785 3119 4.384056 ACTGAAGATTGAAGTGACACCAG 58.616 43.478 0.84 1.81 0.00 4.00
1794 3128 2.898729 AGTGACACCAGTGTTCAGAG 57.101 50.000 4.68 0.00 45.05 3.35
1836 3170 4.161189 TGGGTGGGTAATAATTGCACAATG 59.839 41.667 0.00 0.00 28.01 2.82
1838 3172 5.108517 GGTGGGTAATAATTGCACAATGTG 58.891 41.667 9.36 9.36 36.51 3.21
1886 3224 5.642063 CCAACTTCCGCACTATCTTTCTTTA 59.358 40.000 0.00 0.00 0.00 1.85
1950 3289 0.182537 TGTGTTCAGAGTTGGGTGGG 59.817 55.000 0.00 0.00 0.00 4.61
1951 3290 0.182775 GTGTTCAGAGTTGGGTGGGT 59.817 55.000 0.00 0.00 0.00 4.51
1961 3300 0.113385 TTGGGTGGGTTGTGGTATGG 59.887 55.000 0.00 0.00 0.00 2.74
1970 3309 4.141228 TGGGTTGTGGTATGGTTTGAACTA 60.141 41.667 0.00 0.00 0.00 2.24
1994 3333 5.754782 TCACTCTTAGCTCTCTGAATCTCT 58.245 41.667 0.00 0.00 0.00 3.10
2004 3343 5.371526 CTCTCTGAATCTCTGACTCTAGCT 58.628 45.833 0.00 0.00 0.00 3.32
2024 3363 4.097437 AGCTTGGTATCATGCACAGATTTG 59.903 41.667 15.52 0.00 43.82 2.32
2041 3380 7.928167 CACAGATTTGAGATTAGCAGGTGTATA 59.072 37.037 0.00 0.00 0.00 1.47
2080 3419 3.830744 TTTTCTGGACAGGACGAGAAA 57.169 42.857 5.25 5.25 40.70 2.52
2082 3421 1.996798 TCTGGACAGGACGAGAAAGT 58.003 50.000 0.00 0.00 0.00 2.66
2090 3429 0.883370 GGACGAGAAAGTTTGGCCGT 60.883 55.000 0.00 0.00 0.00 5.68
2269 3608 7.684317 TCTACAACACCCTATCATGGATTTA 57.316 36.000 0.00 0.00 0.00 1.40
2374 3713 4.406069 CATGCCTGACTGTTTGAATAACG 58.594 43.478 0.00 0.00 0.00 3.18
2437 3776 3.698029 ACTTGATTTCGGTATGCATGC 57.302 42.857 11.82 11.82 0.00 4.06
2456 3795 3.088532 TGCTTTCATGTCCCGCTTATTT 58.911 40.909 0.00 0.00 0.00 1.40
2459 3798 4.662145 CTTTCATGTCCCGCTTATTTGTC 58.338 43.478 0.00 0.00 0.00 3.18
2577 3916 1.688197 CCTGCAGTTTGGTGGTTTCAT 59.312 47.619 13.81 0.00 0.00 2.57
2588 3927 4.829968 TGGTGGTTTCATTATGCATTTGG 58.170 39.130 3.54 0.00 0.00 3.28
2595 3934 6.532657 GGTTTCATTATGCATTTGGTTCTCAG 59.467 38.462 3.54 0.00 0.00 3.35
2656 3995 4.368315 CATGTTCATGCTTCATTGGATGG 58.632 43.478 0.00 0.00 36.60 3.51
2677 4016 8.251721 GGATGGTAGCTATTTAACTATCACGAT 58.748 37.037 10.84 0.00 32.52 3.73
2692 4031 6.814146 ACTATCACGATCTTCCTTCTTTTCAC 59.186 38.462 0.00 0.00 0.00 3.18
2694 4033 4.991056 TCACGATCTTCCTTCTTTTCACTG 59.009 41.667 0.00 0.00 0.00 3.66
2696 4035 4.991687 ACGATCTTCCTTCTTTTCACTGTC 59.008 41.667 0.00 0.00 0.00 3.51
2781 4120 4.518211 AGAAGAATGCTGAAGAACACAAGG 59.482 41.667 0.00 0.00 0.00 3.61
2808 4147 4.380531 CACTTGTACAACTGATGTGGTCT 58.619 43.478 14.14 0.00 43.77 3.85
2810 4149 6.166279 CACTTGTACAACTGATGTGGTCTAT 58.834 40.000 14.14 0.00 43.77 1.98
2874 4213 1.064758 TGGCACTTCCACCCATATGAC 60.065 52.381 3.65 0.00 40.72 3.06
2895 4234 3.874543 ACTGCACGAATGTTACTGTTTCA 59.125 39.130 0.00 0.00 0.00 2.69
2931 4270 1.210478 GCTCCTATTTCTGGTGCTCCA 59.790 52.381 7.39 7.39 39.95 3.86
2982 4321 9.807649 ATTCATCCTGCAACTATTTTTAATGAC 57.192 29.630 0.00 0.00 0.00 3.06
3027 4366 0.515127 TGCAATGTTCAGGCGTTACG 59.485 50.000 0.00 0.00 0.00 3.18
3050 4389 5.210715 GTCAAGCATCTGCATATTTGTAGC 58.789 41.667 4.79 0.00 45.16 3.58
3055 4394 7.514784 AGCATCTGCATATTTGTAGCATTAA 57.485 32.000 4.79 0.00 45.16 1.40
3116 4455 8.948631 TCTTATCTTAATAACAGACCTTGCTG 57.051 34.615 0.00 0.00 41.63 4.41
3117 4456 8.758829 TCTTATCTTAATAACAGACCTTGCTGA 58.241 33.333 0.00 0.00 39.20 4.26
3119 4458 9.547753 TTATCTTAATAACAGACCTTGCTGATC 57.452 33.333 0.00 0.00 39.20 2.92
3120 4459 6.946340 TCTTAATAACAGACCTTGCTGATCA 58.054 36.000 0.00 0.00 39.20 2.92
3121 4460 7.568349 TCTTAATAACAGACCTTGCTGATCAT 58.432 34.615 0.00 0.00 39.20 2.45
3123 4462 9.330063 CTTAATAACAGACCTTGCTGATCATAA 57.670 33.333 0.00 0.00 39.20 1.90
3124 4463 9.679661 TTAATAACAGACCTTGCTGATCATAAA 57.320 29.630 0.00 0.00 39.20 1.40
3125 4464 5.886960 AACAGACCTTGCTGATCATAAAC 57.113 39.130 0.00 0.00 39.20 2.01
3126 4465 4.265073 ACAGACCTTGCTGATCATAAACC 58.735 43.478 0.00 0.00 39.20 3.27
3127 4466 4.263462 ACAGACCTTGCTGATCATAAACCA 60.263 41.667 0.00 0.00 39.20 3.67
3128 4467 4.885907 CAGACCTTGCTGATCATAAACCAT 59.114 41.667 0.00 0.00 38.14 3.55
3129 4468 6.057533 CAGACCTTGCTGATCATAAACCATA 58.942 40.000 0.00 0.00 38.14 2.74
3130 4469 6.713903 CAGACCTTGCTGATCATAAACCATAT 59.286 38.462 0.00 0.00 38.14 1.78
3136 4540 7.078249 TGCTGATCATAAACCATATGTAGGT 57.922 36.000 0.00 0.00 42.34 3.08
3161 4565 9.481340 GTATCTTCAGCTGACATATGTTTATGA 57.519 33.333 18.03 9.41 37.94 2.15
3162 4566 8.604640 ATCTTCAGCTGACATATGTTTATGAG 57.395 34.615 18.03 6.39 37.94 2.90
3167 4571 7.064966 TCAGCTGACATATGTTTATGAGTTGTG 59.935 37.037 13.74 0.00 37.94 3.33
3376 4780 9.669887 TTATTTGCATGAGCCTTTTATTTCAAT 57.330 25.926 0.00 0.00 41.13 2.57
3416 4820 5.649782 AGCAATTGTTTTAGACCAGGATG 57.350 39.130 7.40 0.00 0.00 3.51
3417 4821 4.082026 AGCAATTGTTTTAGACCAGGATGC 60.082 41.667 7.40 0.00 31.97 3.91
3430 4834 1.098050 AGGATGCGCTTTCACATTCC 58.902 50.000 9.73 0.00 0.00 3.01
3464 4868 8.940952 AGAATGTGAAGTATAAAAGTGAAGCTC 58.059 33.333 0.00 0.00 0.00 4.09
3596 5000 1.324736 GGCGTGAGAATAAAGACTGCG 59.675 52.381 0.00 0.00 0.00 5.18
3644 5048 6.483307 GCAATATCTCCTACAGCAACATAACA 59.517 38.462 0.00 0.00 0.00 2.41
3734 5138 5.134725 ACAGAAATGCCTTCCCAGATATT 57.865 39.130 0.00 0.00 34.21 1.28
3751 5155 7.498239 CCCAGATATTACAGGCATATCATTCAG 59.502 40.741 5.63 0.00 36.45 3.02
3833 5237 5.448654 CCCATCAAGGATATCACCTTTCAA 58.551 41.667 4.83 0.00 46.61 2.69
3896 5300 3.648067 TCCAATGCTCCTACATAGAAGGG 59.352 47.826 0.00 0.00 34.66 3.95
3914 5318 1.082117 GGCGTGTTATCGGGTCAGTG 61.082 60.000 0.00 0.00 0.00 3.66
3938 5342 6.538021 TGTTTCCAAAACCATGTGAGAATTTG 59.462 34.615 0.48 0.00 0.00 2.32
3941 5345 4.990426 CCAAAACCATGTGAGAATTTGGAC 59.010 41.667 8.95 0.00 46.05 4.02
3944 5348 2.813754 ACCATGTGAGAATTTGGACGTG 59.186 45.455 0.00 0.00 33.36 4.49
3966 5370 1.807886 GATGAGCAAGGGCAGCTTG 59.192 57.895 0.00 0.00 43.58 4.01
4148 5557 6.118852 AGATTCTCTTCTTCATAGGTTTGCC 58.881 40.000 0.00 0.00 0.00 4.52
4198 5607 7.769970 CCAATTATTTGGCTACCATTGACATTT 59.230 33.333 3.53 0.00 45.71 2.32
4217 5626 2.977772 TTGTTCTTGCAAAAGGTGGG 57.022 45.000 0.00 0.00 0.00 4.61
4251 5663 5.226194 TCTTGCAATGTTTTGGCCTTAAT 57.774 34.783 3.32 0.00 33.22 1.40
4267 5679 5.532779 GGCCTTAATTTCTGGTCTCTATTGG 59.467 44.000 0.00 0.00 0.00 3.16
4304 5716 9.477484 GACTTCTTTGATAAAGTCTACTTCACA 57.523 33.333 7.76 0.00 45.08 3.58
4305 5717 9.482627 ACTTCTTTGATAAAGTCTACTTCACAG 57.517 33.333 0.00 0.00 39.52 3.66
4306 5718 9.482627 CTTCTTTGATAAAGTCTACTTCACAGT 57.517 33.333 0.00 0.00 39.52 3.55
4307 5719 9.477484 TTCTTTGATAAAGTCTACTTCACAGTC 57.523 33.333 0.00 0.00 39.52 3.51
4308 5720 8.638873 TCTTTGATAAAGTCTACTTCACAGTCA 58.361 33.333 0.00 0.00 39.52 3.41
4311 5723 7.371159 TGATAAAGTCTACTTCACAGTCACAG 58.629 38.462 0.00 0.00 34.61 3.66
4312 5724 4.592485 AAGTCTACTTCACAGTCACAGG 57.408 45.455 0.00 0.00 34.06 4.00
4313 5725 3.833732 AGTCTACTTCACAGTCACAGGA 58.166 45.455 0.00 0.00 34.06 3.86
4314 5726 4.215908 AGTCTACTTCACAGTCACAGGAA 58.784 43.478 0.00 0.00 34.06 3.36
4315 5727 4.038162 AGTCTACTTCACAGTCACAGGAAC 59.962 45.833 0.00 0.00 34.06 3.62
4317 5729 3.627395 ACTTCACAGTCACAGGAACAA 57.373 42.857 0.00 0.00 0.00 2.83
4318 5730 3.270877 ACTTCACAGTCACAGGAACAAC 58.729 45.455 0.00 0.00 0.00 3.32
4319 5731 2.325583 TCACAGTCACAGGAACAACC 57.674 50.000 0.00 0.00 39.35 3.77
4320 5732 0.937304 CACAGTCACAGGAACAACCG 59.063 55.000 0.00 0.00 44.74 4.44
4323 5735 0.180406 AGTCACAGGAACAACCGCTT 59.820 50.000 0.00 0.00 44.74 4.68
4324 5736 1.414919 AGTCACAGGAACAACCGCTTA 59.585 47.619 0.00 0.00 44.74 3.09
4325 5737 2.158871 AGTCACAGGAACAACCGCTTAA 60.159 45.455 0.00 0.00 44.74 1.85
4326 5738 2.812011 GTCACAGGAACAACCGCTTAAT 59.188 45.455 0.00 0.00 44.74 1.40
4327 5739 3.071479 TCACAGGAACAACCGCTTAATC 58.929 45.455 0.00 0.00 44.74 1.75
4370 5782 7.702348 GGTGCCAATTTTTCTTATAGCAACTAG 59.298 37.037 0.00 0.00 33.96 2.57
4389 5801 0.804989 GTTCGGACCTTCCTTGCATG 59.195 55.000 0.00 0.00 33.30 4.06
4403 5815 5.076182 TCCTTGCATGTCCATTTTCAACTA 58.924 37.500 0.00 0.00 0.00 2.24
4404 5816 5.183713 TCCTTGCATGTCCATTTTCAACTAG 59.816 40.000 0.00 0.00 0.00 2.57
4405 5817 5.389859 TTGCATGTCCATTTTCAACTAGG 57.610 39.130 0.00 0.00 0.00 3.02
4406 5818 4.661222 TGCATGTCCATTTTCAACTAGGA 58.339 39.130 0.00 0.00 0.00 2.94
4407 5819 4.701651 TGCATGTCCATTTTCAACTAGGAG 59.298 41.667 0.00 0.00 0.00 3.69
4408 5820 4.096984 GCATGTCCATTTTCAACTAGGAGG 59.903 45.833 0.00 0.00 0.00 4.30
4462 5888 4.710865 TGCATTTTGGGATCTCATTGCTAA 59.289 37.500 20.10 0.73 0.00 3.09
4465 5891 5.857471 TTTTGGGATCTCATTGCTAATGG 57.143 39.130 0.00 2.04 39.38 3.16
4493 5919 6.889177 TGGTCATTTCATAAACTTATCTGCCA 59.111 34.615 0.00 0.00 0.00 4.92
4538 5964 2.224018 GCAAGGCAACATGACAGGAAAA 60.224 45.455 0.00 0.00 37.52 2.29
4539 5965 3.555586 GCAAGGCAACATGACAGGAAAAT 60.556 43.478 0.00 0.00 37.52 1.82
4540 5966 4.240096 CAAGGCAACATGACAGGAAAATC 58.760 43.478 0.00 0.00 37.52 2.17
4541 5967 3.499338 AGGCAACATGACAGGAAAATCA 58.501 40.909 0.00 0.00 41.41 2.57
4542 5968 3.508793 AGGCAACATGACAGGAAAATCAG 59.491 43.478 0.00 0.00 41.41 2.90
4660 6088 3.639672 TCACTCATTCCATCATGTGCT 57.360 42.857 0.00 0.00 0.00 4.40
4661 6089 3.959293 TCACTCATTCCATCATGTGCTT 58.041 40.909 0.00 0.00 0.00 3.91
4662 6090 4.338012 TCACTCATTCCATCATGTGCTTT 58.662 39.130 0.00 0.00 0.00 3.51
4663 6091 4.768448 TCACTCATTCCATCATGTGCTTTT 59.232 37.500 0.00 0.00 0.00 2.27
4664 6092 5.100259 CACTCATTCCATCATGTGCTTTTC 58.900 41.667 0.00 0.00 0.00 2.29
4665 6093 5.014858 ACTCATTCCATCATGTGCTTTTCT 58.985 37.500 0.00 0.00 0.00 2.52
4666 6094 6.094464 CACTCATTCCATCATGTGCTTTTCTA 59.906 38.462 0.00 0.00 0.00 2.10
4667 6095 6.660521 ACTCATTCCATCATGTGCTTTTCTAA 59.339 34.615 0.00 0.00 0.00 2.10
4668 6096 7.341256 ACTCATTCCATCATGTGCTTTTCTAAT 59.659 33.333 0.00 0.00 0.00 1.73
4669 6097 7.709947 TCATTCCATCATGTGCTTTTCTAATC 58.290 34.615 0.00 0.00 0.00 1.75
4670 6098 7.339976 TCATTCCATCATGTGCTTTTCTAATCA 59.660 33.333 0.00 0.00 0.00 2.57
4671 6099 6.688637 TCCATCATGTGCTTTTCTAATCAG 57.311 37.500 0.00 0.00 0.00 2.90
4672 6100 6.417258 TCCATCATGTGCTTTTCTAATCAGA 58.583 36.000 0.00 0.00 0.00 3.27
4673 6101 6.541278 TCCATCATGTGCTTTTCTAATCAGAG 59.459 38.462 0.00 0.00 30.73 3.35
4674 6102 6.238676 CCATCATGTGCTTTTCTAATCAGAGG 60.239 42.308 0.00 0.00 30.73 3.69
4677 6105 7.394016 TCATGTGCTTTTCTAATCAGAGGTTA 58.606 34.615 0.00 0.00 30.73 2.85
4697 6125 2.173758 TAACCATTCCGTCAGCCGCA 62.174 55.000 0.00 0.00 34.38 5.69
4707 6135 1.418373 GTCAGCCGCAAATTTGTTCC 58.582 50.000 19.03 7.80 0.00 3.62
4737 6165 5.276161 CCACAAATGCACGTTTTTACTGTTC 60.276 40.000 0.00 0.00 0.00 3.18
4756 6184 1.071605 CCACGGAAGAGAAAAGAGCG 58.928 55.000 0.00 0.00 0.00 5.03
4821 6250 2.338577 GCATTCTGTAGCCAGTGGAT 57.661 50.000 15.20 10.00 39.82 3.41
4822 6251 1.945394 GCATTCTGTAGCCAGTGGATG 59.055 52.381 15.20 6.88 39.82 3.51
4857 6286 1.047801 GGGGCTTTTCTTCTTTGCCA 58.952 50.000 0.00 0.00 44.85 4.92
4934 6363 2.006888 ACAACCACTTGACGTTCACAG 58.993 47.619 0.00 0.00 0.00 3.66
4973 6407 8.795786 TTTTTCTATTGTGTTGTCACTATTGC 57.204 30.769 1.49 0.00 44.14 3.56
4983 6417 5.297527 TGTTGTCACTATTGCCATGATGATC 59.702 40.000 0.00 0.00 0.00 2.92
5085 6519 5.978814 AGTAAGTGCGAAGTGGAATCTAAT 58.021 37.500 0.00 0.00 0.00 1.73
5115 6549 5.117287 GTGTGTTCTTGATCGACACTTACTC 59.883 44.000 16.92 0.00 43.03 2.59
5116 6550 5.009710 TGTGTTCTTGATCGACACTTACTCT 59.990 40.000 16.92 0.00 43.03 3.24
5193 6631 5.522824 AGAAGTAAAAGAGTCCACGACAAAC 59.477 40.000 0.00 0.00 34.60 2.93
5306 6841 3.885297 AGTTTCATGGTCCACAGTTTCTG 59.115 43.478 0.00 0.00 37.52 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.645710 ACGATATCTCCACCCCCATC 58.354 55.000 0.34 0.00 0.00 3.51
1 2 1.699634 CAACGATATCTCCACCCCCAT 59.300 52.381 0.34 0.00 0.00 4.00
16 17 0.034896 GAGCCAAAGGGACTCAACGA 59.965 55.000 0.00 0.00 38.49 3.85
40 41 2.691409 AGACACACCATTATGACGGG 57.309 50.000 0.00 0.00 0.00 5.28
48 49 0.951558 GACGCCAAAGACACACCATT 59.048 50.000 0.00 0.00 0.00 3.16
53 54 2.970324 GCCGACGCCAAAGACACA 60.970 61.111 0.00 0.00 0.00 3.72
77 78 4.160252 CCCATCAGAACAAACCCTTAATGG 59.840 45.833 0.00 0.00 0.00 3.16
84 85 2.162681 CAGACCCATCAGAACAAACCC 58.837 52.381 0.00 0.00 0.00 4.11
136 145 2.812591 GCATGATGAAGATAGCAGGTGG 59.187 50.000 0.00 0.00 0.00 4.61
138 147 2.709934 AGGCATGATGAAGATAGCAGGT 59.290 45.455 0.00 0.00 0.00 4.00
139 148 3.420300 AGGCATGATGAAGATAGCAGG 57.580 47.619 0.00 0.00 0.00 4.85
143 152 4.694509 GCTTGGTAGGCATGATGAAGATAG 59.305 45.833 0.00 0.00 0.00 2.08
144 153 4.349048 AGCTTGGTAGGCATGATGAAGATA 59.651 41.667 0.00 0.00 0.00 1.98
170 179 1.284657 CATCGACCAGTGACATGCTC 58.715 55.000 0.00 0.00 0.00 4.26
211 220 3.317993 AGAAACTTGCTTACAACGCCAAT 59.682 39.130 0.00 0.00 0.00 3.16
263 279 2.766263 TCTTAGGCCATAGTCCACACAG 59.234 50.000 5.01 0.00 0.00 3.66
277 293 5.037383 ACCAAGCTACCTTTATCTTAGGC 57.963 43.478 0.00 0.00 36.17 3.93
303 319 6.519353 TCGAATACAGGCATAATACAAACG 57.481 37.500 0.00 0.00 0.00 3.60
457 473 8.261522 GTCTATCTTCTCAACAACCCTCTATTT 58.738 37.037 0.00 0.00 0.00 1.40
460 476 6.253758 TGTCTATCTTCTCAACAACCCTCTA 58.746 40.000 0.00 0.00 0.00 2.43
463 479 5.723887 AGATGTCTATCTTCTCAACAACCCT 59.276 40.000 0.00 0.00 40.79 4.34
478 494 8.654997 AGATTGCCTAACATGTTAGATGTCTAT 58.345 33.333 36.37 24.42 43.90 1.98
486 502 6.662414 TTCGAAGATTGCCTAACATGTTAG 57.338 37.500 30.69 30.69 38.50 2.34
488 504 5.957842 TTTCGAAGATTGCCTAACATGTT 57.042 34.783 16.68 16.68 35.04 2.71
565 581 9.225682 TGGAAGTTGGAGGAATTAGAATATACT 57.774 33.333 0.00 0.00 0.00 2.12
574 590 7.465900 AATAGGATGGAAGTTGGAGGAATTA 57.534 36.000 0.00 0.00 0.00 1.40
587 604 5.139435 CATGCTAGTCGAATAGGATGGAA 57.861 43.478 33.49 3.20 43.84 3.53
591 608 4.021894 GGACACATGCTAGTCGAATAGGAT 60.022 45.833 19.39 19.39 34.50 3.24
602 619 4.920340 GTGAAGATATCGGACACATGCTAG 59.080 45.833 18.02 0.00 0.00 3.42
604 621 3.386078 AGTGAAGATATCGGACACATGCT 59.614 43.478 21.93 7.61 34.47 3.79
618 922 4.602340 AAGTAACGTGTGGAGTGAAGAT 57.398 40.909 0.00 0.00 0.00 2.40
631 935 8.889717 CAGGGTGATAATTTATGAAAGTAACGT 58.110 33.333 0.00 0.00 0.00 3.99
645 949 4.192317 GTTCGCTCTTCAGGGTGATAATT 58.808 43.478 0.00 0.00 34.15 1.40
656 962 4.883083 ACAGACTATTTGTTCGCTCTTCA 58.117 39.130 0.00 0.00 0.00 3.02
657 963 5.847670 AACAGACTATTTGTTCGCTCTTC 57.152 39.130 0.00 0.00 33.72 2.87
677 983 9.609950 TGTTTATACGTTTATGGCTTAACAAAC 57.390 29.630 0.00 0.00 0.00 2.93
682 988 9.602568 TCATCTGTTTATACGTTTATGGCTTAA 57.397 29.630 0.00 0.00 0.00 1.85
717 1023 9.905171 GAGTTTATACGTTTAGGGGATAGTTAG 57.095 37.037 0.00 0.00 0.00 2.34
722 1028 8.424133 GGAAAGAGTTTATACGTTTAGGGGATA 58.576 37.037 0.00 0.00 0.00 2.59
733 1039 5.962433 TGGAGAGTGGAAAGAGTTTATACG 58.038 41.667 0.00 0.00 0.00 3.06
734 1040 8.794335 AATTGGAGAGTGGAAAGAGTTTATAC 57.206 34.615 0.00 0.00 0.00 1.47
743 2016 6.901081 AAAGGTAAATTGGAGAGTGGAAAG 57.099 37.500 0.00 0.00 0.00 2.62
779 2060 1.770294 GGGATCCAATTAAACCCGCA 58.230 50.000 15.23 0.00 0.00 5.69
826 2124 3.807553 AGTAGGGACTCGTAGCTTAGTC 58.192 50.000 12.69 12.69 41.75 2.59
834 2132 3.072184 GGTGAGGATAGTAGGGACTCGTA 59.928 52.174 0.00 0.00 41.75 3.43
847 2145 2.385803 GGGAAGAAGACGGTGAGGATA 58.614 52.381 0.00 0.00 0.00 2.59
850 2148 0.905337 AGGGGAAGAAGACGGTGAGG 60.905 60.000 0.00 0.00 0.00 3.86
976 2274 2.045926 GGAGCGGTTGGTGCTGAT 60.046 61.111 0.00 0.00 44.18 2.90
1062 2360 2.597510 GGTTGGGTCAGTGGGTGC 60.598 66.667 0.00 0.00 0.00 5.01
1066 2364 2.281484 CGTGGGTTGGGTCAGTGG 60.281 66.667 0.00 0.00 0.00 4.00
1473 2772 4.849329 GTCCGCGAACGCCGAGAT 62.849 66.667 8.23 0.00 40.62 2.75
1677 2979 5.986004 ATTCAACTATAAGCGTTAGCCAC 57.014 39.130 0.00 0.00 46.67 5.01
1689 2991 9.893634 TCGTCAAAGGGAATTAATTCAACTATA 57.106 29.630 25.55 11.46 38.53 1.31
1690 2992 8.674607 GTCGTCAAAGGGAATTAATTCAACTAT 58.325 33.333 25.55 12.71 38.53 2.12
1703 3005 1.144093 ACCATTGGTCGTCAAAGGGAA 59.856 47.619 7.48 0.00 45.66 3.97
1780 3114 2.618709 GGGAAAACTCTGAACACTGGTG 59.381 50.000 0.00 0.00 0.00 4.17
1785 3119 5.049828 CCAAAATGGGAAAACTCTGAACAC 58.950 41.667 0.00 0.00 32.67 3.32
1836 3170 9.341899 GAATTAAACAGACAATGTGGTAATCAC 57.658 33.333 0.00 0.00 43.00 3.06
1838 3172 8.519526 TGGAATTAAACAGACAATGTGGTAATC 58.480 33.333 0.00 0.00 43.00 1.75
1886 3224 1.210155 GCAATGTTTCGCCGAGCTT 59.790 52.632 0.00 0.00 0.00 3.74
1914 3252 7.648908 TCTGAACACATTCTAAATGTTTGCTTG 59.351 33.333 2.65 0.00 36.70 4.01
1950 3289 6.430000 AGTGATAGTTCAAACCATACCACAAC 59.570 38.462 0.00 0.00 32.48 3.32
1951 3290 6.539173 AGTGATAGTTCAAACCATACCACAA 58.461 36.000 0.00 0.00 32.48 3.33
1961 3300 7.487829 CAGAGAGCTAAGAGTGATAGTTCAAAC 59.512 40.741 0.00 0.00 34.26 2.93
1970 3309 6.263842 CAGAGATTCAGAGAGCTAAGAGTGAT 59.736 42.308 0.00 0.00 0.00 3.06
1994 3333 3.706086 TGCATGATACCAAGCTAGAGTCA 59.294 43.478 0.00 0.00 37.82 3.41
2004 3343 5.499313 TCTCAAATCTGTGCATGATACCAA 58.501 37.500 0.00 0.00 0.00 3.67
2024 3363 6.406400 CCCAGCTATATACACCTGCTAATCTC 60.406 46.154 0.00 0.00 32.29 2.75
2041 3380 6.774656 CAGAAAAATATCAGAACCCCAGCTAT 59.225 38.462 0.00 0.00 0.00 2.97
2116 3455 0.815615 CTTTGCGCTCCCTCCCATAC 60.816 60.000 9.73 0.00 0.00 2.39
2437 3776 4.155826 TGACAAATAAGCGGGACATGAAAG 59.844 41.667 0.00 0.00 0.00 2.62
2577 3916 7.701539 ATACAACTGAGAACCAAATGCATAA 57.298 32.000 0.00 0.00 0.00 1.90
2626 3965 3.130869 TGAAGCATGAACATGGCAATACC 59.869 43.478 15.15 0.00 39.16 2.73
2628 3967 5.353111 CAATGAAGCATGAACATGGCAATA 58.647 37.500 15.15 1.49 39.16 1.90
2629 3968 4.188462 CAATGAAGCATGAACATGGCAAT 58.812 39.130 15.15 3.30 39.16 3.56
2630 3969 3.591023 CAATGAAGCATGAACATGGCAA 58.409 40.909 15.15 1.39 39.16 4.52
2656 3995 9.344309 GGAAGATCGTGATAGTTAAATAGCTAC 57.656 37.037 0.00 0.00 0.00 3.58
2677 4016 6.494666 TTAGGACAGTGAAAAGAAGGAAGA 57.505 37.500 0.00 0.00 0.00 2.87
2707 4046 4.797743 TGGCCATTTATGCTACCATTGTA 58.202 39.130 0.00 0.00 32.85 2.41
2781 4120 2.543777 TCAGTTGTACAAGTGGAGGC 57.456 50.000 32.85 11.77 41.02 4.70
2874 4213 4.211164 TCTGAAACAGTAACATTCGTGCAG 59.789 41.667 0.00 0.00 32.61 4.41
2895 4234 9.771534 GAAATAGGAGCTAAGATTGTAACATCT 57.228 33.333 0.00 0.00 0.00 2.90
2931 4270 4.458397 CTGGATCTATGCCATCTGTGTTT 58.542 43.478 0.00 0.00 34.33 2.83
3027 4366 5.210715 GCTACAAATATGCAGATGCTTGAC 58.789 41.667 11.65 0.00 42.66 3.18
3095 4434 7.568349 TGATCAGCAAGGTCTGTTATTAAGAT 58.432 34.615 0.00 0.00 35.63 2.40
3097 4436 7.798596 ATGATCAGCAAGGTCTGTTATTAAG 57.201 36.000 0.09 0.00 35.63 1.85
3098 4437 9.679661 TTTATGATCAGCAAGGTCTGTTATTAA 57.320 29.630 0.09 0.00 35.63 1.40
3100 4439 7.067494 GGTTTATGATCAGCAAGGTCTGTTATT 59.933 37.037 0.09 0.00 35.63 1.40
3101 4440 6.543831 GGTTTATGATCAGCAAGGTCTGTTAT 59.456 38.462 0.09 0.00 35.63 1.89
3102 4441 5.880332 GGTTTATGATCAGCAAGGTCTGTTA 59.120 40.000 0.09 0.00 35.63 2.41
3103 4442 4.702131 GGTTTATGATCAGCAAGGTCTGTT 59.298 41.667 0.09 0.00 35.63 3.16
3104 4443 4.263462 TGGTTTATGATCAGCAAGGTCTGT 60.263 41.667 0.09 0.00 35.63 3.41
3105 4444 4.264253 TGGTTTATGATCAGCAAGGTCTG 58.736 43.478 0.09 0.00 35.46 3.51
3107 4446 6.488006 ACATATGGTTTATGATCAGCAAGGTC 59.512 38.462 7.80 0.00 0.00 3.85
3108 4447 6.367983 ACATATGGTTTATGATCAGCAAGGT 58.632 36.000 7.80 0.00 0.00 3.50
3109 4448 6.889301 ACATATGGTTTATGATCAGCAAGG 57.111 37.500 7.80 0.00 0.00 3.61
3110 4449 7.663081 ACCTACATATGGTTTATGATCAGCAAG 59.337 37.037 7.80 0.00 33.34 4.01
3111 4450 7.517320 ACCTACATATGGTTTATGATCAGCAA 58.483 34.615 7.80 0.00 33.34 3.91
3119 4458 9.155975 GCTGAAGATACCTACATATGGTTTATG 57.844 37.037 7.80 0.00 38.88 1.90
3120 4459 9.105844 AGCTGAAGATACCTACATATGGTTTAT 57.894 33.333 7.80 0.00 38.88 1.40
3121 4460 8.367911 CAGCTGAAGATACCTACATATGGTTTA 58.632 37.037 8.42 0.00 38.88 2.01
3123 4462 6.554982 TCAGCTGAAGATACCTACATATGGTT 59.445 38.462 15.67 0.00 38.88 3.67
3124 4463 6.015010 GTCAGCTGAAGATACCTACATATGGT 60.015 42.308 20.19 0.00 41.28 3.55
3125 4464 6.015095 TGTCAGCTGAAGATACCTACATATGG 60.015 42.308 20.19 0.00 0.00 2.74
3126 4465 6.986250 TGTCAGCTGAAGATACCTACATATG 58.014 40.000 20.19 0.00 0.00 1.78
3127 4466 7.789202 ATGTCAGCTGAAGATACCTACATAT 57.211 36.000 20.19 0.00 0.00 1.78
3128 4467 8.743714 CATATGTCAGCTGAAGATACCTACATA 58.256 37.037 20.19 17.93 33.33 2.29
3129 4468 7.234371 ACATATGTCAGCTGAAGATACCTACAT 59.766 37.037 20.19 16.36 0.00 2.29
3130 4469 6.551227 ACATATGTCAGCTGAAGATACCTACA 59.449 38.462 20.19 9.83 0.00 2.74
3136 4540 9.702494 CTCATAAACATATGTCAGCTGAAGATA 57.298 33.333 20.19 17.35 0.00 1.98
3161 4565 3.144506 CCTCACAAGAATCTGCACAACT 58.855 45.455 0.00 0.00 0.00 3.16
3162 4566 3.141398 TCCTCACAAGAATCTGCACAAC 58.859 45.455 0.00 0.00 0.00 3.32
3167 4571 2.941720 GGACATCCTCACAAGAATCTGC 59.058 50.000 0.00 0.00 0.00 4.26
3376 4780 1.593196 CTTTGTCTTGAGCACCGGAA 58.407 50.000 9.46 0.00 0.00 4.30
3398 4802 2.423538 GCGCATCCTGGTCTAAAACAAT 59.576 45.455 0.30 0.00 0.00 2.71
3400 4804 1.003118 AGCGCATCCTGGTCTAAAACA 59.997 47.619 11.47 0.00 0.00 2.83
3416 4820 1.063031 GCAAAGGAATGTGAAAGCGC 58.937 50.000 0.00 0.00 0.00 5.92
3417 4821 2.420628 TGCAAAGGAATGTGAAAGCG 57.579 45.000 0.00 0.00 0.00 4.68
3596 5000 3.767131 GGATGTAGCCTCCTCTTCCTATC 59.233 52.174 0.00 0.00 0.00 2.08
3644 5048 1.135972 GCAGCACGAACATTGTCGAAT 60.136 47.619 13.15 0.00 43.86 3.34
3734 5138 9.625747 TGTATTTTTCTGAATGATATGCCTGTA 57.374 29.630 0.00 0.00 0.00 2.74
3751 5155 3.169908 ACACCCCACCCATGTATTTTTC 58.830 45.455 0.00 0.00 0.00 2.29
3806 5210 5.041695 AGGTGATATCCTTGATGGGGATA 57.958 43.478 0.00 5.14 46.04 2.59
3833 5237 2.158986 GCTGATGCCTACTGACATGTCT 60.159 50.000 25.55 9.97 0.00 3.41
3890 5294 1.262640 ACCCGATAACACGCCCTTCT 61.263 55.000 0.00 0.00 0.00 2.85
3896 5300 0.389426 ACACTGACCCGATAACACGC 60.389 55.000 0.00 0.00 0.00 5.34
3914 5318 6.018016 CCAAATTCTCACATGGTTTTGGAAAC 60.018 38.462 13.49 0.00 43.59 2.78
3938 5342 1.269166 CTTGCTCATCGTACACGTCC 58.731 55.000 1.19 0.00 40.80 4.79
3941 5345 1.421410 GCCCTTGCTCATCGTACACG 61.421 60.000 0.00 0.00 36.03 4.49
3944 5348 1.432270 GCTGCCCTTGCTCATCGTAC 61.432 60.000 0.00 0.00 38.71 3.67
3966 5370 3.357079 CACTGCCCCACGCTTGAC 61.357 66.667 0.00 0.00 38.78 3.18
3972 5376 3.357079 GTTGAGCACTGCCCCACG 61.357 66.667 0.00 0.00 0.00 4.94
3986 5390 6.245115 TCATAATCAACTTCTGTGCTGTTG 57.755 37.500 0.00 0.00 41.46 3.33
4092 5501 9.177304 GTATTTACAGTTCTACAACAAAAAGGC 57.823 33.333 0.00 0.00 34.60 4.35
4148 5557 5.005779 GTGAGATACAAACGAGCCAATGTAG 59.994 44.000 0.00 0.00 32.31 2.74
4185 5594 6.154203 TGCAAGAACAAAATGTCAATGGTA 57.846 33.333 0.00 0.00 0.00 3.25
4198 5607 2.461695 TCCCACCTTTTGCAAGAACAA 58.538 42.857 0.00 0.00 30.57 2.83
4217 5626 4.874970 ACATTGCAAGATCACAAGGTTTC 58.125 39.130 4.94 0.00 37.50 2.78
4227 5639 3.323751 AGGCCAAAACATTGCAAGATC 57.676 42.857 5.01 0.00 0.00 2.75
4251 5663 4.406003 GTCTAGCCCAATAGAGACCAGAAA 59.594 45.833 0.00 0.00 32.49 2.52
4267 5679 9.308318 CTTTATCAAAGAAGTCTAAGTCTAGCC 57.692 37.037 0.00 0.00 41.02 3.93
4299 5711 2.639065 GGTTGTTCCTGTGACTGTGAA 58.361 47.619 0.00 0.00 0.00 3.18
4301 5713 0.937304 CGGTTGTTCCTGTGACTGTG 59.063 55.000 0.00 0.00 0.00 3.66
4302 5714 0.814010 GCGGTTGTTCCTGTGACTGT 60.814 55.000 0.00 0.00 0.00 3.55
4303 5715 0.532862 AGCGGTTGTTCCTGTGACTG 60.533 55.000 0.00 0.00 0.00 3.51
4304 5716 0.180406 AAGCGGTTGTTCCTGTGACT 59.820 50.000 0.00 0.00 0.00 3.41
4305 5717 1.873698 TAAGCGGTTGTTCCTGTGAC 58.126 50.000 10.73 0.00 0.00 3.67
4306 5718 2.623878 TTAAGCGGTTGTTCCTGTGA 57.376 45.000 10.73 0.00 0.00 3.58
4307 5719 3.074412 AGATTAAGCGGTTGTTCCTGTG 58.926 45.455 10.73 0.00 0.00 3.66
4308 5720 3.418684 AGATTAAGCGGTTGTTCCTGT 57.581 42.857 10.73 0.00 0.00 4.00
4311 5723 2.863739 GCAAGATTAAGCGGTTGTTCC 58.136 47.619 10.73 0.00 0.00 3.62
4320 5732 1.448985 TGACACCCGCAAGATTAAGC 58.551 50.000 0.00 0.00 43.02 3.09
4323 5735 2.746904 CACATTGACACCCGCAAGATTA 59.253 45.455 0.00 0.00 43.02 1.75
4324 5736 1.541147 CACATTGACACCCGCAAGATT 59.459 47.619 0.00 0.00 43.02 2.40
4325 5737 1.167851 CACATTGACACCCGCAAGAT 58.832 50.000 0.00 0.00 43.02 2.40
4326 5738 0.888736 CCACATTGACACCCGCAAGA 60.889 55.000 0.00 0.00 43.02 3.02
4327 5739 1.172180 ACCACATTGACACCCGCAAG 61.172 55.000 0.00 0.00 0.00 4.01
4370 5782 0.804989 CATGCAAGGAAGGTCCGAAC 59.195 55.000 0.00 0.00 42.75 3.95
4389 5801 5.561679 ACTTCCTCCTAGTTGAAAATGGAC 58.438 41.667 0.00 0.00 0.00 4.02
4403 5815 1.439543 ACCTTCTGCAACTTCCTCCT 58.560 50.000 0.00 0.00 0.00 3.69
4404 5816 3.636153 ATACCTTCTGCAACTTCCTCC 57.364 47.619 0.00 0.00 0.00 4.30
4405 5817 8.910351 ATAATTATACCTTCTGCAACTTCCTC 57.090 34.615 0.00 0.00 0.00 3.71
4406 5818 9.343539 GAATAATTATACCTTCTGCAACTTCCT 57.656 33.333 0.00 0.00 0.00 3.36
4407 5819 9.120538 TGAATAATTATACCTTCTGCAACTTCC 57.879 33.333 0.00 0.00 0.00 3.46
4462 5888 6.549433 AAGTTTATGAAATGACCATGCCAT 57.451 33.333 0.00 0.00 0.00 4.40
4465 5891 7.380602 GCAGATAAGTTTATGAAATGACCATGC 59.619 37.037 0.00 0.00 0.00 4.06
4493 5919 5.625150 GGCTTCCACTATCCAGAATATGTT 58.375 41.667 0.00 0.00 0.00 2.71
4501 5927 0.107703 TTGCGGCTTCCACTATCCAG 60.108 55.000 0.00 0.00 0.00 3.86
4538 5964 2.486191 CGCTTTATCTGCCTTCCCTGAT 60.486 50.000 0.00 0.00 0.00 2.90
4539 5965 1.134401 CGCTTTATCTGCCTTCCCTGA 60.134 52.381 0.00 0.00 0.00 3.86
4540 5966 1.134401 TCGCTTTATCTGCCTTCCCTG 60.134 52.381 0.00 0.00 0.00 4.45
4541 5967 1.204146 TCGCTTTATCTGCCTTCCCT 58.796 50.000 0.00 0.00 0.00 4.20
4542 5968 2.038387 TTCGCTTTATCTGCCTTCCC 57.962 50.000 0.00 0.00 0.00 3.97
4571 5998 4.978099 TGCTTCAGATTGACTTCCTCTTT 58.022 39.130 0.00 0.00 0.00 2.52
4672 6100 6.772769 CGGCTGACGGAATGGTTATAACCT 62.773 50.000 30.09 15.06 43.68 3.50
4673 6101 4.593926 CGGCTGACGGAATGGTTATAACC 61.594 52.174 25.22 25.22 43.63 2.85
4674 6102 2.542595 CGGCTGACGGAATGGTTATAAC 59.457 50.000 7.09 7.09 39.42 1.89
4677 6105 0.814010 GCGGCTGACGGAATGGTTAT 60.814 55.000 4.52 0.00 44.51 1.89
4697 6125 5.782893 TTTGTGGAGATCGGAACAAATTT 57.217 34.783 14.78 0.00 37.64 1.82
4707 6135 1.078709 ACGTGCATTTGTGGAGATCG 58.921 50.000 0.00 0.00 0.00 3.69
4737 6165 1.071605 CGCTCTTTTCTCTTCCGTGG 58.928 55.000 0.00 0.00 0.00 4.94
4756 6184 0.951040 CCGGATTTCTCGCTATGGGC 60.951 60.000 0.00 0.00 37.64 5.36
4815 6244 2.173569 GCTATCTGAAACCCCATCCACT 59.826 50.000 0.00 0.00 0.00 4.00
4821 6250 0.918983 CCCAGCTATCTGAAACCCCA 59.081 55.000 0.00 0.00 42.95 4.96
4822 6251 0.183731 CCCCAGCTATCTGAAACCCC 59.816 60.000 0.00 0.00 42.95 4.95
4857 6286 6.868826 TGGAGGAGGATCTTATCTGTTCTAT 58.131 40.000 0.00 0.00 33.73 1.98
4934 6363 9.282247 CACAATAGAAAAATAAGAGCACATGTC 57.718 33.333 0.00 0.00 0.00 3.06
4973 6407 2.483106 GAGGACGCAATGATCATCATGG 59.517 50.000 9.06 0.00 37.15 3.66
4983 6417 4.024048 ACAAGTAAACAAGAGGACGCAATG 60.024 41.667 0.00 0.00 0.00 2.82
5070 6504 6.035005 CACACACTGTATTAGATTCCACTTCG 59.965 42.308 0.00 0.00 0.00 3.79
5085 6519 4.202070 TGTCGATCAAGAACACACACTGTA 60.202 41.667 0.00 0.00 30.51 2.74


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

AutoCloner maintained by Alex Coulton.