Multiple sequence alignment - TraesCS5D01G443400

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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 TraesCS5D01G443400 chr5D 100.000 5700 0 0 1 5700 494809546 494815245 0.000000e+00 10527.0
1 TraesCS5D01G443400 chr5B 92.962 4234 177 51 1 4164 611380380 611384562 0.000000e+00 6056.0
2 TraesCS5D01G443400 chr5B 92.041 1068 62 7 4167 5231 611384690 611385737 0.000000e+00 1480.0
3 TraesCS5D01G443400 chr5B 85.944 498 37 19 5231 5700 611385844 611386336 8.530000e-138 501.0
4 TraesCS5D01G443400 chr5A 90.076 3295 205 56 427 3656 618960799 618964036 0.000000e+00 4161.0
5 TraesCS5D01G443400 chr5A 93.144 846 46 6 4380 5215 618964034 618964877 0.000000e+00 1230.0
6 TraesCS5D01G443400 chr5A 93.662 284 11 3 5416 5698 618965096 618965373 8.830000e-113 418.0
7 TraesCS5D01G443400 chr5A 86.250 80 9 2 5291 5370 536709658 536709581 1.020000e-12 86.1
8 TraesCS5D01G443400 chr6A 87.013 77 10 0 5295 5371 108179057 108178981 2.830000e-13 87.9
9 TraesCS5D01G443400 chr6A 85.714 70 10 0 5299 5368 596741216 596741285 2.200000e-09 75.0
10 TraesCS5D01G443400 chr6D 87.671 73 9 0 5299 5371 358361381 358361309 1.020000e-12 86.1
11 TraesCS5D01G443400 chr2B 81.132 106 16 4 301 406 791140506 791140607 1.320000e-11 82.4


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 TraesCS5D01G443400 chr5D 494809546 494815245 5699 False 10527.000000 10527 100.000000 1 5700 1 chr5D.!!$F1 5699
1 TraesCS5D01G443400 chr5B 611380380 611386336 5956 False 2679.000000 6056 90.315667 1 5700 3 chr5B.!!$F1 5699
2 TraesCS5D01G443400 chr5A 618960799 618965373 4574 False 1936.333333 4161 92.294000 427 5698 3 chr5A.!!$F1 5271


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
296 313 0.608640 CCCGCCCCTGTATCTGTATC 59.391 60.000 0.00 0.00 0.00 2.24 F
1035 1055 0.238289 CAAAAGTGTGCGCTAGTGGG 59.762 55.000 9.73 0.00 0.00 4.61 F
1206 1226 0.825840 GCCCAACCCACTTGTAAGCA 60.826 55.000 0.00 0.00 0.00 3.91 F
2618 2678 1.227674 GCCCGCTTACCTCTCCATG 60.228 63.158 0.00 0.00 0.00 3.66 F
3171 3284 0.603975 GTCTTCCAGGTGCCTGTGAC 60.604 60.000 16.15 15.52 42.15 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1271 1292 0.991920 CCAGGAGGGAGGTTTTAGCA 59.008 55.000 0.00 0.00 40.01 3.49 R
2713 2807 0.740737 GTCAGCCAAGCAACTTGTGT 59.259 50.000 6.58 0.00 39.58 3.72 R
2716 2810 2.498167 AGTAGTCAGCCAAGCAACTTG 58.502 47.619 0.24 0.24 40.75 3.16 R
3631 3756 0.252467 CCCTCCAAGACCTCCTCTGT 60.252 60.000 0.00 0.00 0.00 3.41 R
5060 5318 0.034186 TCATGCTCTCCCCGCAAAAT 60.034 50.000 0.00 0.00 41.26 1.82 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
32 33 2.246874 TCCTCCTCCTCTTCCCCGT 61.247 63.158 0.00 0.00 0.00 5.28
42 43 1.677966 CTTCCCCGTCTCGACCAGA 60.678 63.158 0.00 0.00 0.00 3.86
124 129 1.220749 CGCCCTTGGATTCTTCCGA 59.779 57.895 0.00 0.00 45.89 4.55
161 166 2.574006 ATCTGCTCTGCTTTGACCAA 57.426 45.000 0.00 0.00 0.00 3.67
173 182 7.541162 TCTGCTTTGACCAATCTATTTCATTG 58.459 34.615 0.00 0.00 0.00 2.82
233 242 8.576442 AGAACCATACAAGTTTATTTTCCAGTG 58.424 33.333 0.00 0.00 0.00 3.66
280 289 3.124921 CACAGTTAAGGCCGCCCG 61.125 66.667 5.55 0.00 35.76 6.13
296 313 0.608640 CCCGCCCCTGTATCTGTATC 59.391 60.000 0.00 0.00 0.00 2.24
391 408 2.988684 GCACCCCCAAACATGCGA 60.989 61.111 0.00 0.00 0.00 5.10
396 413 1.283613 ACCCCCAAACATGCGATTCTA 59.716 47.619 0.00 0.00 0.00 2.10
399 416 2.643551 CCCAAACATGCGATTCTAGGT 58.356 47.619 0.00 0.00 0.00 3.08
509 526 7.011389 CCATATGTTTGCTAGAATGAGTTTCGA 59.989 37.037 1.24 0.00 39.46 3.71
510 527 6.992063 ATGTTTGCTAGAATGAGTTTCGAT 57.008 33.333 0.00 0.00 39.46 3.59
511 528 6.801539 TGTTTGCTAGAATGAGTTTCGATT 57.198 33.333 0.00 0.00 39.46 3.34
512 529 6.831769 TGTTTGCTAGAATGAGTTTCGATTC 58.168 36.000 0.00 0.00 39.46 2.52
513 530 6.426633 TGTTTGCTAGAATGAGTTTCGATTCA 59.573 34.615 0.00 0.00 39.46 2.57
598 618 1.663911 TGCTTCCTTACAGGCCCTTA 58.336 50.000 0.00 0.00 34.61 2.69
617 637 6.493802 GCCCTTAGCCTTAATTAAGCCTTTAT 59.506 38.462 18.18 4.19 34.35 1.40
618 638 7.668469 GCCCTTAGCCTTAATTAAGCCTTTATA 59.332 37.037 18.18 0.00 34.35 0.98
635 655 6.659776 CCTTTATAACTAGCAAATTCTCCGC 58.340 40.000 0.00 0.00 0.00 5.54
647 667 2.768253 TTCTCCGCAAGACATCATGT 57.232 45.000 0.00 0.00 43.02 3.21
662 682 3.077519 ATGTCGGGCGTAGGAGCAC 62.078 63.158 0.00 0.00 39.27 4.40
669 689 1.741770 GCGTAGGAGCACACTTGGG 60.742 63.158 0.00 0.00 37.05 4.12
670 690 1.741770 CGTAGGAGCACACTTGGGC 60.742 63.158 0.00 0.00 46.94 5.36
711 731 2.224549 TGGAACAGATTTTGTAACGCGG 59.775 45.455 12.47 0.00 39.73 6.46
737 757 2.802719 TGTCTGTTTGATTAAGGGGCC 58.197 47.619 0.00 0.00 0.00 5.80
738 758 2.100197 GTCTGTTTGATTAAGGGGCCC 58.900 52.381 17.12 17.12 0.00 5.80
739 759 1.102978 CTGTTTGATTAAGGGGCCCG 58.897 55.000 18.95 0.00 0.00 6.13
740 760 0.968393 TGTTTGATTAAGGGGCCCGC 60.968 55.000 18.95 9.16 0.00 6.13
755 775 1.267186 GCCCGCGTGTCTAAATAAACG 60.267 52.381 4.92 0.00 39.00 3.60
833 853 5.547465 TGTCACTTTGTTATACTGACCAGG 58.453 41.667 1.82 0.00 31.94 4.45
845 865 1.827344 CTGACCAGGCTGATGTCAGTA 59.173 52.381 30.15 11.67 46.85 2.74
929 949 6.265196 AGAAGAGTAGCACAGATCAAGGATAG 59.735 42.308 0.00 0.00 0.00 2.08
967 987 2.707902 GCACCTAGCAGGGCAATAC 58.292 57.895 7.06 0.00 44.79 1.89
1035 1055 0.238289 CAAAAGTGTGCGCTAGTGGG 59.762 55.000 9.73 0.00 0.00 4.61
1206 1226 0.825840 GCCCAACCCACTTGTAAGCA 60.826 55.000 0.00 0.00 0.00 3.91
1217 1237 2.939353 GTAAGCACCCCACCCCCT 60.939 66.667 0.00 0.00 0.00 4.79
1218 1238 2.612746 TAAGCACCCCACCCCCTC 60.613 66.667 0.00 0.00 0.00 4.30
1262 1283 7.489113 GGCCATGTATTCTGTTTGACAAAATAG 59.511 37.037 1.27 4.81 36.22 1.73
1271 1292 7.715657 TCTGTTTGACAAAATAGCATCAAAGT 58.284 30.769 1.27 0.00 40.67 2.66
1283 1304 3.838120 GCATCAAAGTGCTAAAACCTCC 58.162 45.455 0.00 0.00 41.82 4.30
1750 1783 1.726853 GAACACTACGCTGGCTTGAT 58.273 50.000 0.00 0.00 0.00 2.57
1896 1952 4.471904 TGGATGCCTAACTGACACTTAG 57.528 45.455 0.00 0.00 0.00 2.18
1903 1959 9.162764 GATGCCTAACTGACACTTAGAAATAAA 57.837 33.333 4.06 0.00 0.00 1.40
1904 1960 8.911918 TGCCTAACTGACACTTAGAAATAAAA 57.088 30.769 4.06 0.00 0.00 1.52
1952 2008 5.163447 TGACACTTGACTGCACTACTAGTTT 60.163 40.000 0.00 0.00 0.00 2.66
1953 2009 5.671493 ACACTTGACTGCACTACTAGTTTT 58.329 37.500 0.00 0.00 0.00 2.43
1954 2010 6.812998 ACACTTGACTGCACTACTAGTTTTA 58.187 36.000 0.00 0.00 0.00 1.52
1956 2012 7.931948 ACACTTGACTGCACTACTAGTTTTATT 59.068 33.333 0.00 0.00 0.00 1.40
1958 2014 9.991906 ACTTGACTGCACTACTAGTTTTATTTA 57.008 29.630 0.00 0.00 0.00 1.40
1977 2033 5.512753 TTTATTGCAAGCTTCACAACAGA 57.487 34.783 12.42 0.00 0.00 3.41
1998 2054 7.257006 CAGAAAAACTGCGAAATTAGATGTG 57.743 36.000 0.00 0.00 39.86 3.21
2132 2188 1.283029 TGATTTCAGGCTTCTGGGAGG 59.717 52.381 0.00 0.00 38.96 4.30
2159 2215 2.419457 TAGGTGTAGTTGTTGGGGGA 57.581 50.000 0.00 0.00 0.00 4.81
2303 2360 4.782156 CCCTTAGATGAGGATGAAGCCTAT 59.218 45.833 0.00 0.00 38.73 2.57
2564 2624 7.823745 ATGCCCTTATGTAATTAGTGAAAGG 57.176 36.000 8.08 8.08 33.37 3.11
2566 2626 6.635030 CCCTTATGTAATTAGTGAAAGGGC 57.365 41.667 16.28 0.00 43.72 5.19
2567 2627 6.126409 CCCTTATGTAATTAGTGAAAGGGCA 58.874 40.000 16.28 0.00 43.72 5.36
2568 2628 6.777580 CCCTTATGTAATTAGTGAAAGGGCAT 59.222 38.462 16.28 4.22 43.72 4.40
2569 2629 7.040409 CCCTTATGTAATTAGTGAAAGGGCATC 60.040 40.741 16.28 0.00 43.72 3.91
2570 2630 7.502226 CCTTATGTAATTAGTGAAAGGGCATCA 59.498 37.037 7.48 0.00 0.00 3.07
2571 2631 8.815565 TTATGTAATTAGTGAAAGGGCATCAA 57.184 30.769 0.00 0.00 0.00 2.57
2572 2632 6.509418 TGTAATTAGTGAAAGGGCATCAAC 57.491 37.500 0.00 0.00 0.00 3.18
2573 2633 6.245408 TGTAATTAGTGAAAGGGCATCAACT 58.755 36.000 0.00 0.00 0.00 3.16
2574 2634 5.649782 AATTAGTGAAAGGGCATCAACTG 57.350 39.130 0.00 0.00 0.00 3.16
2575 2635 2.664402 AGTGAAAGGGCATCAACTGT 57.336 45.000 0.00 0.00 0.00 3.55
2576 2636 3.788227 AGTGAAAGGGCATCAACTGTA 57.212 42.857 0.00 0.00 0.00 2.74
2577 2637 3.679389 AGTGAAAGGGCATCAACTGTAG 58.321 45.455 0.00 0.00 0.00 2.74
2578 2638 3.327757 AGTGAAAGGGCATCAACTGTAGA 59.672 43.478 0.00 0.00 0.00 2.59
2579 2639 4.018960 AGTGAAAGGGCATCAACTGTAGAT 60.019 41.667 0.00 0.00 0.00 1.98
2580 2640 4.095483 GTGAAAGGGCATCAACTGTAGATG 59.905 45.833 0.00 0.00 44.38 2.90
2581 2641 4.019411 TGAAAGGGCATCAACTGTAGATGA 60.019 41.667 7.31 0.00 44.34 2.92
2582 2642 4.785346 AAGGGCATCAACTGTAGATGAT 57.215 40.909 7.31 0.00 44.34 2.45
2583 2643 4.348863 AGGGCATCAACTGTAGATGATC 57.651 45.455 7.31 0.00 44.34 2.92
2584 2644 3.972638 AGGGCATCAACTGTAGATGATCT 59.027 43.478 0.00 0.00 44.34 2.75
2585 2645 4.411540 AGGGCATCAACTGTAGATGATCTT 59.588 41.667 0.00 0.00 44.34 2.40
2586 2646 5.104193 AGGGCATCAACTGTAGATGATCTTT 60.104 40.000 0.00 0.00 44.34 2.52
2587 2647 5.008415 GGGCATCAACTGTAGATGATCTTTG 59.992 44.000 0.00 0.00 44.34 2.77
2588 2648 5.587844 GGCATCAACTGTAGATGATCTTTGT 59.412 40.000 0.00 0.00 44.34 2.83
2589 2649 6.457934 GGCATCAACTGTAGATGATCTTTGTG 60.458 42.308 0.00 2.42 44.34 3.33
2590 2650 6.484540 CATCAACTGTAGATGATCTTTGTGC 58.515 40.000 0.00 0.00 44.34 4.57
2591 2651 5.550290 TCAACTGTAGATGATCTTTGTGCA 58.450 37.500 0.00 0.00 0.00 4.57
2592 2652 5.997129 TCAACTGTAGATGATCTTTGTGCAA 59.003 36.000 0.00 0.00 0.00 4.08
2616 2676 2.284331 TGCCCGCTTACCTCTCCA 60.284 61.111 0.00 0.00 0.00 3.86
2617 2677 1.689233 TGCCCGCTTACCTCTCCAT 60.689 57.895 0.00 0.00 0.00 3.41
2618 2678 1.227674 GCCCGCTTACCTCTCCATG 60.228 63.158 0.00 0.00 0.00 3.66
2660 2747 7.856145 AACATGTTTAAAATGAAAACCTGCA 57.144 28.000 4.92 0.00 36.50 4.41
2661 2748 7.856145 ACATGTTTAAAATGAAAACCTGCAA 57.144 28.000 1.64 0.00 36.50 4.08
2662 2749 8.273780 ACATGTTTAAAATGAAAACCTGCAAA 57.726 26.923 1.64 0.00 36.50 3.68
2663 2750 8.734386 ACATGTTTAAAATGAAAACCTGCAAAA 58.266 25.926 1.64 0.00 36.50 2.44
2664 2751 9.008289 CATGTTTAAAATGAAAACCTGCAAAAC 57.992 29.630 0.00 0.00 36.26 2.43
2665 2752 8.329203 TGTTTAAAATGAAAACCTGCAAAACT 57.671 26.923 0.00 0.00 36.26 2.66
2666 2753 8.233190 TGTTTAAAATGAAAACCTGCAAAACTG 58.767 29.630 0.00 0.00 36.26 3.16
2716 2810 6.774354 AATGCATTTCAAATCTGTCAACAC 57.226 33.333 5.99 0.00 0.00 3.32
2734 2828 2.221169 CACAAGTTGCTTGGCTGACTA 58.779 47.619 12.66 0.00 44.81 2.59
2735 2829 2.031682 CACAAGTTGCTTGGCTGACTAC 60.032 50.000 12.66 0.00 44.81 2.73
2836 2948 9.638176 ATCAGGCTATTTTATGAGTTCTGATTT 57.362 29.630 0.00 0.00 34.88 2.17
2837 2949 9.466497 TCAGGCTATTTTATGAGTTCTGATTTT 57.534 29.630 0.00 0.00 0.00 1.82
2884 2997 2.586425 ACTTTCATGTGGGGACAGTTG 58.414 47.619 0.00 0.00 44.46 3.16
2910 3023 8.405531 GCATCAACCTGTATTGTGTTATAATGT 58.594 33.333 0.00 0.00 0.00 2.71
2935 3048 2.744202 AGCACCATGAAGACTTAAAGCG 59.256 45.455 0.00 0.00 0.00 4.68
2981 3094 2.607750 TCCTGTGGCCCACCTCTC 60.608 66.667 12.25 0.00 36.63 3.20
3171 3284 0.603975 GTCTTCCAGGTGCCTGTGAC 60.604 60.000 16.15 15.52 42.15 3.67
3297 3412 1.270518 TGTCTTCTCTGCTCAACTGGC 60.271 52.381 0.00 0.00 0.00 4.85
3405 3522 4.781775 AAGCTAGAGACTAGAGCTGGTA 57.218 45.455 10.56 0.00 45.74 3.25
3553 3677 3.243535 CCAGCCCTTTCTGAGTTTTGTTC 60.244 47.826 0.00 0.00 36.19 3.18
3557 3681 4.215613 GCCCTTTCTGAGTTTTGTTCGTAT 59.784 41.667 0.00 0.00 0.00 3.06
3558 3682 5.278315 GCCCTTTCTGAGTTTTGTTCGTATT 60.278 40.000 0.00 0.00 0.00 1.89
3559 3683 6.142817 CCCTTTCTGAGTTTTGTTCGTATTG 58.857 40.000 0.00 0.00 0.00 1.90
3560 3684 6.017440 CCCTTTCTGAGTTTTGTTCGTATTGA 60.017 38.462 0.00 0.00 0.00 2.57
3561 3685 7.414436 CCTTTCTGAGTTTTGTTCGTATTGAA 58.586 34.615 0.00 0.00 0.00 2.69
3562 3686 7.913297 CCTTTCTGAGTTTTGTTCGTATTGAAA 59.087 33.333 0.00 0.00 38.60 2.69
3563 3687 8.835467 TTTCTGAGTTTTGTTCGTATTGAAAG 57.165 30.769 0.00 0.00 38.60 2.62
3564 3688 7.548196 TCTGAGTTTTGTTCGTATTGAAAGT 57.452 32.000 0.00 0.00 38.60 2.66
3590 3715 6.960468 TGAAACACTATTGTTGCATCGTTTA 58.040 32.000 2.55 0.00 45.10 2.01
3630 3755 8.635328 TGACAGTTTCAGTACTTTGTATGTCTA 58.365 33.333 19.84 9.87 0.00 2.59
3631 3756 9.472361 GACAGTTTCAGTACTTTGTATGTCTAA 57.528 33.333 15.20 0.00 0.00 2.10
3675 3800 1.541588 GCTTCTGGCATCGACCTTTTT 59.458 47.619 0.00 0.00 41.35 1.94
3690 3815 2.811431 CCTTTTTGACTCCACGTATGCA 59.189 45.455 0.00 0.00 0.00 3.96
3704 3829 5.030295 CACGTATGCAAATTCATCTTGTCC 58.970 41.667 0.00 0.00 0.00 4.02
3709 3834 5.885230 TGCAAATTCATCTTGTCCTGTAG 57.115 39.130 0.00 0.00 0.00 2.74
3710 3835 4.156556 TGCAAATTCATCTTGTCCTGTAGC 59.843 41.667 0.00 0.00 0.00 3.58
3715 3840 8.461222 CAAATTCATCTTGTCCTGTAGCATTTA 58.539 33.333 0.00 0.00 0.00 1.40
3725 3850 7.217200 TGTCCTGTAGCATTTATAGTTCCATC 58.783 38.462 0.00 0.00 0.00 3.51
3735 3860 7.415541 GCATTTATAGTTCCATCAGCTTGTTGA 60.416 37.037 0.00 0.00 0.00 3.18
3736 3861 8.627403 CATTTATAGTTCCATCAGCTTGTTGAT 58.373 33.333 0.00 0.00 38.30 2.57
3738 3863 3.005554 AGTTCCATCAGCTTGTTGATCG 58.994 45.455 0.00 0.00 35.67 3.69
3739 3864 2.028420 TCCATCAGCTTGTTGATCGG 57.972 50.000 0.00 4.08 35.67 4.18
3844 3969 4.008330 ACATGGTTGAAAGAGAGATGCAG 58.992 43.478 0.00 0.00 0.00 4.41
3852 3977 3.996921 AAGAGAGATGCAGAATGGTGT 57.003 42.857 0.00 0.00 35.86 4.16
3856 3981 5.609423 AGAGAGATGCAGAATGGTGTATTC 58.391 41.667 0.00 0.00 44.52 1.75
3903 4028 2.031157 AGATTAACCTGCGTGCAACAAC 60.031 45.455 0.00 0.00 35.74 3.32
3934 4059 4.579869 AGGTACCTGTTGTGCTGAAATAG 58.420 43.478 15.42 0.00 0.00 1.73
4035 4160 7.267857 TCATGGATGTTGACTAATGACTACTG 58.732 38.462 0.00 0.00 0.00 2.74
4042 4167 6.888088 TGTTGACTAATGACTACTGTAGCCTA 59.112 38.462 14.55 2.14 0.00 3.93
4044 4169 6.420638 TGACTAATGACTACTGTAGCCTACA 58.579 40.000 14.55 4.20 37.13 2.74
4128 4253 3.003793 GCTCAGACAAGGTTCAGAAAACC 59.996 47.826 0.00 0.00 40.58 3.27
4260 4511 2.629617 GCAGGGGTATTGATCCCAATTG 59.370 50.000 0.00 0.00 46.26 2.32
4267 4518 6.782494 GGGGTATTGATCCCAATTGTAATTCT 59.218 38.462 4.43 0.00 46.26 2.40
4287 4538 2.483106 CTCAGTGCTTCACAGATGTTGG 59.517 50.000 0.00 0.00 36.74 3.77
4289 4540 3.079578 CAGTGCTTCACAGATGTTGGAT 58.920 45.455 0.00 0.00 36.74 3.41
4290 4541 4.020307 TCAGTGCTTCACAGATGTTGGATA 60.020 41.667 0.00 0.00 36.74 2.59
4291 4542 4.696877 CAGTGCTTCACAGATGTTGGATAA 59.303 41.667 0.00 0.00 36.74 1.75
4292 4543 5.181811 CAGTGCTTCACAGATGTTGGATAAA 59.818 40.000 0.00 0.00 36.74 1.40
4293 4544 5.182001 AGTGCTTCACAGATGTTGGATAAAC 59.818 40.000 0.00 0.00 36.74 2.01
4294 4545 5.182001 GTGCTTCACAGATGTTGGATAAACT 59.818 40.000 0.00 0.00 35.64 2.66
4295 4546 5.769662 TGCTTCACAGATGTTGGATAAACTT 59.230 36.000 0.00 0.00 39.70 2.66
4302 4553 7.117812 CACAGATGTTGGATAAACTTTACGTCT 59.882 37.037 0.00 0.00 39.70 4.18
4431 4682 0.036388 ATCACACCCGTGCTTACCTG 60.036 55.000 0.00 0.00 43.28 4.00
4497 4748 2.034812 GGAGATGTAAGCCGAGTCGAAT 59.965 50.000 15.64 1.87 0.00 3.34
4502 4753 1.134907 GTAAGCCGAGTCGAATCCCAA 60.135 52.381 15.64 0.00 0.00 4.12
4509 4760 2.804572 CGAGTCGAATCCCAATCATGCT 60.805 50.000 6.73 0.00 0.00 3.79
4514 4765 4.096984 GTCGAATCCCAATCATGCTTTTCT 59.903 41.667 0.00 0.00 0.00 2.52
4516 4767 4.142315 CGAATCCCAATCATGCTTTTCTGT 60.142 41.667 0.00 0.00 0.00 3.41
4529 4780 6.974932 TGCTTTTCTGTAGAGCAATAAGAG 57.025 37.500 0.00 0.00 42.89 2.85
4530 4781 5.352569 TGCTTTTCTGTAGAGCAATAAGAGC 59.647 40.000 0.00 0.00 42.89 4.09
4531 4782 5.501574 GCTTTTCTGTAGAGCAATAAGAGCG 60.502 44.000 0.00 0.00 36.45 5.03
4636 4888 0.108138 CGATCAAGGCCGGAGAGTTT 60.108 55.000 5.05 0.00 0.00 2.66
4725 4977 2.027653 TGTCCGTGCAAGATATGTCCAA 60.028 45.455 0.00 0.00 0.00 3.53
4726 4978 3.206150 GTCCGTGCAAGATATGTCCAAT 58.794 45.455 0.00 0.00 0.00 3.16
4913 5165 6.073058 ACAGTTGTTAGTTCACTGTATGCATG 60.073 38.462 10.16 0.00 39.53 4.06
5048 5306 2.280079 GATGGGCTGGAAAGGGGG 59.720 66.667 0.00 0.00 0.00 5.40
5060 5318 3.311327 TGGAAAGGGGGTGATCTCTGATA 60.311 47.826 0.00 0.00 0.00 2.15
5065 5323 5.316158 AGGGGGTGATCTCTGATATTTTG 57.684 43.478 0.00 0.00 0.00 2.44
5066 5324 3.823304 GGGGGTGATCTCTGATATTTTGC 59.177 47.826 0.00 0.00 0.00 3.68
5091 5349 4.536316 GCATGAGGCTCTGGAGTG 57.464 61.111 16.72 7.86 40.25 3.51
5118 5376 5.532557 AGCATTTGTTCTTTGCCTTTCTAC 58.467 37.500 0.00 0.00 37.07 2.59
5171 5429 3.076916 GTGGAAAGGGCATGGGGC 61.077 66.667 0.00 0.00 43.74 5.80
5251 5618 3.096852 GGCTACTTTTGGGGCTTTATGT 58.903 45.455 0.00 0.00 0.00 2.29
5257 5624 6.487299 ACTTTTGGGGCTTTATGTAAAACA 57.513 33.333 0.00 0.00 0.00 2.83
5264 5631 6.106003 GGGGCTTTATGTAAAACAAGGAATG 58.894 40.000 0.00 0.00 0.00 2.67
5265 5632 6.295632 GGGGCTTTATGTAAAACAAGGAATGT 60.296 38.462 0.00 0.00 46.82 2.71
5293 5665 4.766891 TGTTTTCAGGATAGAAGGCCTTTG 59.233 41.667 21.54 12.95 30.41 2.77
5337 5719 0.673985 CGTTCGCTGGATAGGATGGA 59.326 55.000 0.00 0.00 0.00 3.41
5341 5723 3.407424 TCGCTGGATAGGATGGAATTG 57.593 47.619 0.00 0.00 0.00 2.32
5350 5732 1.029947 GGATGGAATTGGCGAACGGT 61.030 55.000 0.00 0.00 0.00 4.83
5371 5753 1.577328 CGGCTGGCAGGTTTAGTGTG 61.577 60.000 17.64 0.00 0.00 3.82
5379 5761 2.751816 GCAGGTTTAGTGTGTTTCCCCT 60.752 50.000 0.00 0.00 0.00 4.79
5386 5768 1.493022 AGTGTGTTTCCCCTGCTGTAA 59.507 47.619 0.00 0.00 0.00 2.41
5387 5769 2.108250 AGTGTGTTTCCCCTGCTGTAAT 59.892 45.455 0.00 0.00 0.00 1.89
5388 5770 3.329520 AGTGTGTTTCCCCTGCTGTAATA 59.670 43.478 0.00 0.00 0.00 0.98
5423 5810 1.213182 TGTTTCAGTGCTGGGTGGTTA 59.787 47.619 0.00 0.00 0.00 2.85
5494 5887 1.040339 TTTGGGCCAAAGTTCGCACT 61.040 50.000 27.28 0.00 33.11 4.40
5546 5939 5.106515 GGATAAGGTTCTGCTTTTCTGTCAC 60.107 44.000 0.00 0.00 0.00 3.67
5603 5997 1.964552 CAAGGTTGGCATGGCAAAAA 58.035 45.000 33.36 12.26 0.00 1.94
5622 6016 3.853355 AATTTGCCAACCATCCAAACA 57.147 38.095 0.00 0.00 32.02 2.83
5623 6017 3.853355 ATTTGCCAACCATCCAAACAA 57.147 38.095 0.00 0.00 32.02 2.83
5624 6018 2.906691 TTGCCAACCATCCAAACAAG 57.093 45.000 0.00 0.00 0.00 3.16
5625 6019 1.047002 TGCCAACCATCCAAACAAGG 58.953 50.000 0.00 0.00 0.00 3.61
5688 6083 9.549078 TTCCCATACAAAATGGAACTTTTAAAC 57.451 29.630 5.59 0.00 41.64 2.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 33 4.710167 TCGCCGGTCTGGTCGAGA 62.710 66.667 1.90 0.00 39.98 4.04
124 129 6.538263 AGCAGATAACAGGAAAAAGAAGTCT 58.462 36.000 0.00 0.00 0.00 3.24
161 166 8.814038 AGAAACTAGGCAACAATGAAATAGAT 57.186 30.769 0.00 0.00 41.41 1.98
173 182 0.389426 TCCGCGAGAAACTAGGCAAC 60.389 55.000 8.23 0.00 0.00 4.17
233 242 2.511659 GGTTTAGTTGAACCCAGACCC 58.488 52.381 0.00 0.00 42.63 4.46
244 253 2.560981 GTGTGGAATGGGGGTTTAGTTG 59.439 50.000 0.00 0.00 0.00 3.16
322 339 9.342308 TCACCATAATCTCCTCAACAAATAATC 57.658 33.333 0.00 0.00 0.00 1.75
365 382 0.618968 TTTGGGGGTGCCACAGTTTT 60.619 50.000 0.00 0.00 38.60 2.43
366 383 1.002274 TTTGGGGGTGCCACAGTTT 59.998 52.632 0.00 0.00 38.60 2.66
391 408 0.824759 GACAGTGGCGGACCTAGAAT 59.175 55.000 0.00 0.00 36.63 2.40
396 413 4.008933 GCAGACAGTGGCGGACCT 62.009 66.667 0.00 0.00 36.63 3.85
399 416 2.031012 CTTGCAGACAGTGGCGGA 59.969 61.111 0.00 0.00 0.00 5.54
509 526 5.988310 TCTCATCATTTGCTTGGTTGAAT 57.012 34.783 0.00 0.00 0.00 2.57
510 527 5.775686 CTTCTCATCATTTGCTTGGTTGAA 58.224 37.500 0.00 0.00 0.00 2.69
511 528 4.321452 GCTTCTCATCATTTGCTTGGTTGA 60.321 41.667 0.00 0.00 0.00 3.18
512 529 3.924686 GCTTCTCATCATTTGCTTGGTTG 59.075 43.478 0.00 0.00 0.00 3.77
513 530 3.830755 AGCTTCTCATCATTTGCTTGGTT 59.169 39.130 0.00 0.00 0.00 3.67
551 568 5.357878 TGTGCAAGAGAGACTTTCAAAACAT 59.642 36.000 0.00 0.00 34.04 2.71
617 637 4.630069 GTCTTGCGGAGAATTTGCTAGTTA 59.370 41.667 0.00 0.00 35.79 2.24
618 638 3.437049 GTCTTGCGGAGAATTTGCTAGTT 59.563 43.478 0.00 0.00 35.79 2.24
635 655 0.740868 ACGCCCGACATGATGTCTTG 60.741 55.000 21.83 13.84 44.85 3.02
647 667 3.755628 GTGTGCTCCTACGCCCGA 61.756 66.667 0.00 0.00 0.00 5.14
648 668 3.296709 AAGTGTGCTCCTACGCCCG 62.297 63.158 0.00 0.00 0.00 6.13
711 731 6.447162 CCCCTTAATCAAACAGACAACTTTC 58.553 40.000 0.00 0.00 0.00 2.62
737 757 1.994779 ACCGTTTATTTAGACACGCGG 59.005 47.619 12.47 1.27 43.05 6.46
738 758 2.662637 TCACCGTTTATTTAGACACGCG 59.337 45.455 3.53 3.53 0.00 6.01
739 759 4.852609 ATCACCGTTTATTTAGACACGC 57.147 40.909 0.00 0.00 0.00 5.34
740 760 7.274033 TGACTTATCACCGTTTATTTAGACACG 59.726 37.037 0.00 0.00 0.00 4.49
967 987 2.238942 TCACTACACAACCTGCAGTG 57.761 50.000 13.81 7.93 41.40 3.66
1206 1226 4.932605 AAACGGAGGGGGTGGGGT 62.933 66.667 0.00 0.00 0.00 4.95
1217 1237 1.946768 CCAGCACAGAAAAGAAACGGA 59.053 47.619 0.00 0.00 0.00 4.69
1218 1238 1.600413 GCCAGCACAGAAAAGAAACGG 60.600 52.381 0.00 0.00 0.00 4.44
1219 1239 1.600413 GGCCAGCACAGAAAAGAAACG 60.600 52.381 0.00 0.00 0.00 3.60
1262 1283 3.367395 GGGAGGTTTTAGCACTTTGATGC 60.367 47.826 0.00 0.00 46.50 3.91
1271 1292 0.991920 CCAGGAGGGAGGTTTTAGCA 59.008 55.000 0.00 0.00 40.01 3.49
1571 1604 6.872628 ATGAATTCAGATGCACGTATCAAT 57.127 33.333 14.54 0.00 0.00 2.57
1615 1648 8.547481 TCAACTCCATATAGTCTGATGGTTTA 57.453 34.615 12.87 0.00 42.82 2.01
1808 1841 9.727627 GAAACATATAAGCAAAATTCTGGAGAG 57.272 33.333 0.00 0.00 0.00 3.20
1844 1900 7.435068 TTTACCTGTGCTCTAAAGAATTCAC 57.565 36.000 8.44 0.00 0.00 3.18
1952 2008 7.656412 TCTGTTGTGAAGCTTGCAATAAATAA 58.344 30.769 2.10 0.00 0.00 1.40
1953 2009 7.213216 TCTGTTGTGAAGCTTGCAATAAATA 57.787 32.000 2.10 0.00 0.00 1.40
1954 2010 6.088016 TCTGTTGTGAAGCTTGCAATAAAT 57.912 33.333 2.10 0.00 0.00 1.40
1956 2012 5.512753 TTCTGTTGTGAAGCTTGCAATAA 57.487 34.783 2.10 3.25 0.00 1.40
1958 2014 4.389890 TTTCTGTTGTGAAGCTTGCAAT 57.610 36.364 2.10 0.00 0.00 3.56
1977 2033 8.816640 AAATCACATCTAATTTCGCAGTTTTT 57.183 26.923 0.00 0.00 0.00 1.94
2017 2073 2.375174 AGCAACACATGGGTCCTAAAGA 59.625 45.455 0.00 0.00 0.00 2.52
2102 2158 3.350833 AGCCTGAAATCATGAGGAACAC 58.649 45.455 0.09 0.00 0.00 3.32
2132 2188 5.469084 CCCAACAACTACACCTAAAGAGTTC 59.531 44.000 0.00 0.00 29.73 3.01
2159 2215 9.355215 CACAGTTTTCGTTGTTCTATACTAGAT 57.645 33.333 0.00 0.00 34.22 1.98
2263 2320 8.997323 CATCTAAGGGAATGAGTAAATAAGCAG 58.003 37.037 0.00 0.00 0.00 4.24
2556 2616 2.664402 ACAGTTGATGCCCTTTCACT 57.336 45.000 0.00 0.00 0.00 3.41
2560 2620 4.574674 TCATCTACAGTTGATGCCCTTT 57.425 40.909 17.43 0.00 40.59 3.11
2563 2623 4.348863 AGATCATCTACAGTTGATGCCC 57.651 45.455 17.43 12.05 40.59 5.36
2564 2624 5.587844 ACAAAGATCATCTACAGTTGATGCC 59.412 40.000 17.43 12.32 40.59 4.40
2565 2625 6.484540 CACAAAGATCATCTACAGTTGATGC 58.515 40.000 17.43 7.16 40.59 3.91
2566 2626 6.093082 TGCACAAAGATCATCTACAGTTGATG 59.907 38.462 16.43 16.43 41.75 3.07
2567 2627 6.175471 TGCACAAAGATCATCTACAGTTGAT 58.825 36.000 4.16 3.06 37.23 2.57
2568 2628 5.550290 TGCACAAAGATCATCTACAGTTGA 58.450 37.500 4.16 0.00 0.00 3.18
2569 2629 5.868043 TGCACAAAGATCATCTACAGTTG 57.132 39.130 0.00 0.00 0.00 3.16
2570 2630 6.882610 TTTGCACAAAGATCATCTACAGTT 57.117 33.333 0.00 0.00 0.00 3.16
2645 2732 6.878389 TCTTCAGTTTTGCAGGTTTTCATTTT 59.122 30.769 0.00 0.00 0.00 1.82
2713 2807 0.740737 GTCAGCCAAGCAACTTGTGT 59.259 50.000 6.58 0.00 39.58 3.72
2716 2810 2.498167 AGTAGTCAGCCAAGCAACTTG 58.502 47.619 0.24 0.24 40.75 3.16
2884 2997 8.405531 ACATTATAACACAATACAGGTTGATGC 58.594 33.333 0.00 0.00 33.37 3.91
2910 3023 6.257849 CGCTTTAAGTCTTCATGGTGCTATAA 59.742 38.462 0.00 0.00 0.00 0.98
2930 3043 4.875536 ACCAAATTCTTGCTTTTTCGCTTT 59.124 33.333 0.00 0.00 0.00 3.51
2935 3048 6.512297 TCCTACACCAAATTCTTGCTTTTTC 58.488 36.000 0.00 0.00 0.00 2.29
2981 3094 4.517832 GGTAACCACAACCAAAGGTTAGAG 59.482 45.833 0.40 0.00 45.01 2.43
3297 3412 4.843220 AAAGCAGAACTTTCAGACATGG 57.157 40.909 0.00 0.00 45.78 3.66
3359 3475 6.613755 TGAATTGTGATGCTGTCATGATAG 57.386 37.500 14.69 14.69 39.48 2.08
3525 3649 2.919602 ACTCAGAAAGGGCTGGGATAAA 59.080 45.455 0.00 0.00 38.70 1.40
3532 3656 3.548818 CGAACAAAACTCAGAAAGGGCTG 60.549 47.826 0.00 0.00 37.24 4.85
3553 3677 9.445786 ACAATAGTGTTTCAAACTTTCAATACG 57.554 29.630 1.10 0.00 32.58 3.06
3557 3681 7.600375 TGCAACAATAGTGTTTCAAACTTTCAA 59.400 29.630 5.68 0.00 46.01 2.69
3558 3682 7.093354 TGCAACAATAGTGTTTCAAACTTTCA 58.907 30.769 5.68 0.00 46.01 2.69
3559 3683 7.518731 TGCAACAATAGTGTTTCAAACTTTC 57.481 32.000 5.68 0.00 46.01 2.62
3560 3684 7.043458 CGATGCAACAATAGTGTTTCAAACTTT 60.043 33.333 12.09 0.00 46.01 2.66
3561 3685 6.417635 CGATGCAACAATAGTGTTTCAAACTT 59.582 34.615 12.09 0.00 46.01 2.66
3562 3686 5.914635 CGATGCAACAATAGTGTTTCAAACT 59.085 36.000 12.09 0.00 46.01 2.66
3563 3687 5.685511 ACGATGCAACAATAGTGTTTCAAAC 59.314 36.000 12.09 8.71 46.01 2.93
3564 3688 5.826586 ACGATGCAACAATAGTGTTTCAAA 58.173 33.333 12.09 0.00 46.01 2.69
3590 3715 7.336931 ACTGAAACTGTCAAACTTGTTACAGAT 59.663 33.333 17.93 7.88 41.47 2.90
3630 3755 1.650528 CCTCCAAGACCTCCTCTGTT 58.349 55.000 0.00 0.00 0.00 3.16
3631 3756 0.252467 CCCTCCAAGACCTCCTCTGT 60.252 60.000 0.00 0.00 0.00 3.41
3675 3800 3.669536 TGAATTTGCATACGTGGAGTCA 58.330 40.909 0.00 0.00 0.00 3.41
3690 3815 7.472334 AAATGCTACAGGACAAGATGAATTT 57.528 32.000 0.00 0.00 0.00 1.82
3704 3829 6.933521 AGCTGATGGAACTATAAATGCTACAG 59.066 38.462 0.00 0.00 0.00 2.74
3709 3834 6.382869 ACAAGCTGATGGAACTATAAATGC 57.617 37.500 0.00 0.00 0.00 3.56
3710 3835 7.988737 TCAACAAGCTGATGGAACTATAAATG 58.011 34.615 0.00 0.00 0.00 2.32
3715 3840 4.813161 CGATCAACAAGCTGATGGAACTAT 59.187 41.667 0.00 0.00 36.15 2.12
3725 3850 3.837213 AAACATCCGATCAACAAGCTG 57.163 42.857 0.00 0.00 0.00 4.24
3748 3873 7.453393 ACCTGTCATTTCAGAAGTATGAGAAA 58.547 34.615 0.00 0.00 37.61 2.52
3751 3876 7.323420 TGTACCTGTCATTTCAGAAGTATGAG 58.677 38.462 0.00 0.00 37.61 2.90
3844 3969 4.267928 GCACTACTGTCGAATACACCATTC 59.732 45.833 0.00 0.00 39.84 2.67
3852 3977 3.617284 TCTCCAGCACTACTGTCGAATA 58.383 45.455 0.00 0.00 45.68 1.75
3856 3981 2.425312 AGAATCTCCAGCACTACTGTCG 59.575 50.000 0.00 0.00 45.68 4.35
3934 4059 3.788333 AATGACCATAACATGCTGTGC 57.212 42.857 0.00 0.00 0.00 4.57
3948 4073 9.816354 AGGTGCACAAAATATAATTAAATGACC 57.184 29.630 20.43 0.00 0.00 4.02
3955 4080 9.853555 CAAGTGAAGGTGCACAAAATATAATTA 57.146 29.630 20.43 0.00 41.19 1.40
4100 4225 4.774726 TCTGAACCTTGTCTGAGCTTCTAT 59.225 41.667 0.00 0.00 0.00 1.98
4128 4253 4.196626 TGTGTAATAGGAGAAACCGGTG 57.803 45.455 8.52 0.00 44.74 4.94
4202 4452 3.056607 AGGGCACATCAATAGTTGTTTGC 60.057 43.478 0.00 0.00 33.27 3.68
4203 4453 4.218200 TCAGGGCACATCAATAGTTGTTTG 59.782 41.667 0.00 0.00 0.00 2.93
4208 4458 4.012374 CACTTCAGGGCACATCAATAGTT 58.988 43.478 0.00 0.00 0.00 2.24
4260 4511 5.641209 ACATCTGTGAAGCACTGAGAATTAC 59.359 40.000 11.70 0.00 43.37 1.89
4267 4518 2.104622 TCCAACATCTGTGAAGCACTGA 59.895 45.455 9.10 9.10 44.01 3.41
4290 4541 9.878599 CAGATTTTACATTCAGACGTAAAGTTT 57.121 29.630 0.00 0.00 38.45 2.66
4291 4542 9.052759 ACAGATTTTACATTCAGACGTAAAGTT 57.947 29.630 0.00 0.00 38.45 2.66
4292 4543 8.603242 ACAGATTTTACATTCAGACGTAAAGT 57.397 30.769 0.00 3.22 38.45 2.66
4293 4544 9.318041 CAACAGATTTTACATTCAGACGTAAAG 57.682 33.333 0.00 0.00 38.45 1.85
4294 4545 9.047371 TCAACAGATTTTACATTCAGACGTAAA 57.953 29.630 0.00 1.67 36.16 2.01
4295 4546 8.596271 TCAACAGATTTTACATTCAGACGTAA 57.404 30.769 0.00 0.00 0.00 3.18
4302 4553 8.408043 ACAAGGATCAACAGATTTTACATTCA 57.592 30.769 0.00 0.00 0.00 2.57
4370 4621 0.384309 GCCATCGACTATCCGTGACA 59.616 55.000 0.00 0.00 0.00 3.58
4431 4682 5.052481 TCATGGACGTTGATCAGATGATTC 58.948 41.667 0.00 0.00 34.37 2.52
4497 4748 5.178096 TCTACAGAAAAGCATGATTGGGA 57.822 39.130 0.00 0.00 0.00 4.37
4502 4753 7.772292 TCTTATTGCTCTACAGAAAAGCATGAT 59.228 33.333 0.00 0.00 44.84 2.45
4509 4760 5.479306 ACGCTCTTATTGCTCTACAGAAAA 58.521 37.500 0.00 0.00 0.00 2.29
4514 4765 2.681344 TCGACGCTCTTATTGCTCTACA 59.319 45.455 0.00 0.00 0.00 2.74
4516 4767 2.943690 ACTCGACGCTCTTATTGCTCTA 59.056 45.455 0.00 0.00 0.00 2.43
4524 4775 2.486592 TGTCATTCACTCGACGCTCTTA 59.513 45.455 0.00 0.00 34.78 2.10
4529 4780 1.585668 CAGATGTCATTCACTCGACGC 59.414 52.381 0.00 0.00 34.78 5.19
4530 4781 2.868662 ACAGATGTCATTCACTCGACG 58.131 47.619 0.00 0.00 34.78 5.12
4531 4782 5.597813 AAAACAGATGTCATTCACTCGAC 57.402 39.130 0.00 0.00 0.00 4.20
4573 4825 2.483714 CCGGAGATAGTGATGGGTGTTG 60.484 54.545 0.00 0.00 0.00 3.33
4603 4855 0.608308 TGATCGCCTCCCGTATCGAT 60.608 55.000 2.16 2.16 43.33 3.59
4636 4888 3.777106 AACTGCTTCCAGAAGATGTCA 57.223 42.857 11.57 0.00 41.77 3.58
4725 4977 8.041323 ACGTGGAGAGTATTTCTTATCACAAAT 58.959 33.333 0.00 0.00 35.87 2.32
4726 4978 7.330946 CACGTGGAGAGTATTTCTTATCACAAA 59.669 37.037 7.95 0.00 35.87 2.83
4790 5042 3.313012 TCAGGTTCTACCACATTGTCG 57.687 47.619 0.00 0.00 41.95 4.35
4913 5165 4.545610 CTTAATCCTGAGACTGATCGAGC 58.454 47.826 0.00 0.00 0.00 5.03
4963 5215 5.056553 AGCCAACAGAAAACCTTAACCTA 57.943 39.130 0.00 0.00 0.00 3.08
5048 5306 3.499918 CCCCGCAAAATATCAGAGATCAC 59.500 47.826 0.00 0.00 0.00 3.06
5060 5318 0.034186 TCATGCTCTCCCCGCAAAAT 60.034 50.000 0.00 0.00 41.26 1.82
5065 5323 4.925861 GCCTCATGCTCTCCCCGC 62.926 72.222 0.00 0.00 36.87 6.13
5086 5344 5.693814 CAAAGAACAAATGCTCTACACTCC 58.306 41.667 0.00 0.00 0.00 3.85
5091 5349 4.773323 AGGCAAAGAACAAATGCTCTAC 57.227 40.909 0.00 0.00 39.94 2.59
5118 5376 3.507233 ACACTCCACACATATTTTGCCAG 59.493 43.478 0.00 0.00 0.00 4.85
5287 5659 0.463620 TTGCAGTCCCAAACAAAGGC 59.536 50.000 0.00 0.00 0.00 4.35
5293 5665 1.474077 CTGGCTATTGCAGTCCCAAAC 59.526 52.381 0.66 0.00 41.91 2.93
5328 5710 2.494059 CGTTCGCCAATTCCATCCTAT 58.506 47.619 0.00 0.00 0.00 2.57
5337 5719 3.732892 CCGCACCGTTCGCCAATT 61.733 61.111 0.00 0.00 0.00 2.32
5357 5739 1.611977 GGGAAACACACTAAACCTGCC 59.388 52.381 0.00 0.00 0.00 4.85
5360 5742 2.751816 GCAGGGGAAACACACTAAACCT 60.752 50.000 0.00 0.00 34.58 3.50
5362 5744 2.293399 CAGCAGGGGAAACACACTAAAC 59.707 50.000 0.00 0.00 34.58 2.01
5367 5749 1.975660 TTACAGCAGGGGAAACACAC 58.024 50.000 0.00 0.00 34.58 3.82
5371 5753 4.781934 ACTCATATTACAGCAGGGGAAAC 58.218 43.478 0.00 0.00 0.00 2.78
5388 5770 8.850156 AGCACTGAAACAAAACTTATTACTCAT 58.150 29.630 0.00 0.00 0.00 2.90
5408 5793 0.687354 AGAGTAACCACCCAGCACTG 59.313 55.000 0.00 0.00 0.00 3.66
5409 5794 1.072331 CAAGAGTAACCACCCAGCACT 59.928 52.381 0.00 0.00 0.00 4.40
5411 5796 1.136828 ACAAGAGTAACCACCCAGCA 58.863 50.000 0.00 0.00 0.00 4.41
5412 5797 2.614734 GGTACAAGAGTAACCACCCAGC 60.615 54.545 0.00 0.00 31.53 4.85
5413 5798 2.904434 AGGTACAAGAGTAACCACCCAG 59.096 50.000 0.00 0.00 38.76 4.45
5423 5810 1.958288 ATCAGGCCAGGTACAAGAGT 58.042 50.000 5.01 0.00 0.00 3.24
5467 5860 3.092851 TTTGGCCCAAAGCAAAAGC 57.907 47.368 4.38 0.00 39.59 3.51
5479 5872 0.887387 TGGTAGTGCGAACTTTGGCC 60.887 55.000 0.00 0.00 0.00 5.36
5494 5887 1.493022 AGGCCAGCCGAATATTTGGTA 59.507 47.619 20.81 0.00 41.95 3.25
5546 5939 2.110967 CCTGCAGACATTGGCCGAG 61.111 63.158 17.39 0.00 0.00 4.63
5603 5997 3.496515 CCTTGTTTGGATGGTTGGCAAAT 60.497 43.478 0.00 0.00 0.00 2.32
5622 6016 8.655901 TGGTTTATAGCCAAAATTTTCTTCCTT 58.344 29.630 0.00 0.00 32.29 3.36
5623 6017 8.201242 TGGTTTATAGCCAAAATTTTCTTCCT 57.799 30.769 0.00 0.00 32.29 3.36
5624 6018 8.840833 TTGGTTTATAGCCAAAATTTTCTTCC 57.159 30.769 0.00 0.00 42.39 3.46



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

AutoCloner maintained by Alex Coulton.