Multiple sequence alignment - TraesCS1A01G329900

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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 TraesCS1A01G329900 chr1A 100.000 5401 0 0 1 5401 518813042 518807642 0.000000e+00 9974.0
1 TraesCS1A01G329900 chr1D 93.947 3040 123 34 793 3800 422873478 422870468 0.000000e+00 4538.0
2 TraesCS1A01G329900 chr1D 91.756 1031 26 15 3804 4786 422869804 422868785 0.000000e+00 1378.0
3 TraesCS1A01G329900 chr1D 85.145 552 63 13 112 659 422888101 422887565 1.020000e-151 547.0
4 TraesCS1A01G329900 chr1D 84.130 523 59 12 4786 5304 467603482 467603984 8.130000e-133 484.0
5 TraesCS1A01G329900 chr1D 93.538 325 19 1 54 378 422873947 422873625 2.930000e-132 483.0
6 TraesCS1A01G329900 chr1D 95.082 122 5 1 548 668 422873627 422873506 1.990000e-44 191.0
7 TraesCS1A01G329900 chr1B 89.314 2012 142 19 2845 4786 571709080 571707072 0.000000e+00 2457.0
8 TraesCS1A01G329900 chr1B 91.968 1382 61 15 889 2243 571711400 571710042 0.000000e+00 1892.0
9 TraesCS1A01G329900 chr1B 92.042 666 40 10 54 710 571712192 571711531 0.000000e+00 924.0
10 TraesCS1A01G329900 chr1B 92.218 514 30 4 2321 2833 571709630 571709126 0.000000e+00 719.0
11 TraesCS1A01G329900 chr1B 84.153 549 67 17 107 648 571716858 571716323 1.040000e-141 514.0
12 TraesCS1A01G329900 chr1B 93.103 87 6 0 2230 2316 571710027 571709941 1.580000e-25 128.0
13 TraesCS1A01G329900 chr1B 92.308 91 6 1 792 881 571711528 571711438 1.580000e-25 128.0
14 TraesCS1A01G329900 chr1B 83.721 86 11 3 709 792 600594011 600593927 1.610000e-10 78.7
15 TraesCS1A01G329900 chr3A 96.591 616 19 2 4787 5401 12829891 12830505 0.000000e+00 1020.0
16 TraesCS1A01G329900 chr3A 82.143 84 14 1 709 792 174623291 174623373 2.700000e-08 71.3
17 TraesCS1A01G329900 chr2D 84.526 517 66 11 4788 5300 574430190 574430696 2.900000e-137 499.0
18 TraesCS1A01G329900 chr2D 86.364 88 7 2 710 792 427445968 427445881 2.070000e-14 91.6
19 TraesCS1A01G329900 chr2D 94.340 53 2 1 710 761 631795082 631795030 4.480000e-11 80.5
20 TraesCS1A01G329900 chr3B 90.323 93 8 1 704 796 734140739 734140648 2.640000e-23 121.0
21 TraesCS1A01G329900 chr3B 89.286 84 4 4 710 793 67913281 67913359 3.440000e-17 100.0
22 TraesCS1A01G329900 chr3B 88.235 85 7 3 710 793 734140652 734140734 1.240000e-16 99.0
23 TraesCS1A01G329900 chr3B 90.164 61 3 2 753 810 727744891 727744831 5.800000e-10 76.8
24 TraesCS1A01G329900 chr3B 95.349 43 1 1 750 792 465671831 465671872 3.490000e-07 67.6
25 TraesCS1A01G329900 chr6A 82.308 130 20 3 5002 5129 14162666 14162794 5.720000e-20 110.0
26 TraesCS1A01G329900 chr6B 85.870 92 8 2 709 795 501129620 501129529 5.760000e-15 93.5
27 TraesCS1A01G329900 chr6B 96.154 52 2 0 702 753 12006591 12006642 9.640000e-13 86.1
28 TraesCS1A01G329900 chr4D 94.340 53 2 1 701 753 50987724 50987673 4.480000e-11 80.5


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 TraesCS1A01G329900 chr1A 518807642 518813042 5400 True 9974.000000 9974 100.00000 1 5401 1 chr1A.!!$R1 5400
1 TraesCS1A01G329900 chr1D 422868785 422873947 5162 True 1647.500000 4538 93.58075 54 4786 4 chr1D.!!$R2 4732
2 TraesCS1A01G329900 chr1D 422887565 422888101 536 True 547.000000 547 85.14500 112 659 1 chr1D.!!$R1 547
3 TraesCS1A01G329900 chr1D 467603482 467603984 502 False 484.000000 484 84.13000 4786 5304 1 chr1D.!!$F1 518
4 TraesCS1A01G329900 chr1B 571707072 571712192 5120 True 1041.333333 2457 91.82550 54 4786 6 chr1B.!!$R3 4732
5 TraesCS1A01G329900 chr1B 571716323 571716858 535 True 514.000000 514 84.15300 107 648 1 chr1B.!!$R1 541
6 TraesCS1A01G329900 chr3A 12829891 12830505 614 False 1020.000000 1020 96.59100 4787 5401 1 chr3A.!!$F1 614
7 TraesCS1A01G329900 chr2D 574430190 574430696 506 False 499.000000 499 84.52600 4788 5300 1 chr2D.!!$F1 512

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
793 811 0.038744 TTCCGAACGGAGGGAGTAGT 59.961 55.0 15.34 0.00 46.06 2.73 F
1435 1485 0.179084 CGTCGCCATGTTGAGGGTAT 60.179 55.0 0.00 0.00 0.00 2.73 F
1839 1910 0.883833 CACGAGCTGGAAAAGGCATT 59.116 50.0 1.44 0.00 0.00 3.56 F
1862 1933 1.122632 TAGGAGGGTTGTGGCGACAA 61.123 55.0 10.51 10.51 46.06 3.18 F
3782 4240 1.009829 GGTGCGAAGATGGTGATGTC 58.990 55.0 0.00 0.00 0.00 3.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2318 2732 0.179051 TGCACACTGACATCTGCACA 60.179 50.000 0.00 0.0 34.73 4.57 R
2319 2733 1.129998 GATGCACACTGACATCTGCAC 59.870 52.381 0.00 0.0 42.22 4.57 R
3765 4223 0.530288 TCGACATCACCATCTTCGCA 59.470 50.000 0.00 0.0 0.00 5.10 R
3800 4258 1.952296 GGATGCATGGAATCACCTGAC 59.048 52.381 2.46 0.0 39.86 3.51 R
4799 5987 1.764422 CCCGGGCCCCAAAAATTTT 59.236 52.632 18.66 0.0 0.00 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
23 24 6.422776 GGGTATAATAATGCATCCAACTCG 57.577 41.667 0.00 0.00 0.00 4.18
24 25 5.163754 GGGTATAATAATGCATCCAACTCGC 60.164 44.000 0.00 0.00 0.00 5.03
25 26 5.411361 GGTATAATAATGCATCCAACTCGCA 59.589 40.000 0.00 0.00 40.50 5.10
26 27 6.072728 GGTATAATAATGCATCCAACTCGCAA 60.073 38.462 0.00 0.00 39.48 4.85
27 28 3.976793 ATAATGCATCCAACTCGCAAG 57.023 42.857 0.00 0.00 39.48 4.01
28 29 0.813184 AATGCATCCAACTCGCAAGG 59.187 50.000 0.00 0.00 39.48 3.61
29 30 0.322816 ATGCATCCAACTCGCAAGGT 60.323 50.000 0.00 0.00 39.48 3.50
30 31 0.323302 TGCATCCAACTCGCAAGGTA 59.677 50.000 0.00 0.00 38.47 3.08
31 32 0.727398 GCATCCAACTCGCAAGGTAC 59.273 55.000 0.00 0.00 38.47 3.34
32 33 0.999406 CATCCAACTCGCAAGGTACG 59.001 55.000 0.00 0.00 38.47 3.67
33 34 0.606604 ATCCAACTCGCAAGGTACGT 59.393 50.000 0.00 0.00 38.47 3.57
34 35 0.038892 TCCAACTCGCAAGGTACGTC 60.039 55.000 0.00 0.00 38.47 4.34
35 36 0.319211 CCAACTCGCAAGGTACGTCA 60.319 55.000 0.00 0.00 38.47 4.35
36 37 0.782384 CAACTCGCAAGGTACGTCAC 59.218 55.000 0.00 0.00 38.47 3.67
48 49 4.416505 GGTACGTCACCTATATTCGGAG 57.583 50.000 0.00 0.00 44.79 4.63
49 50 4.067896 GGTACGTCACCTATATTCGGAGA 58.932 47.826 0.00 0.00 44.79 3.71
50 51 4.516698 GGTACGTCACCTATATTCGGAGAA 59.483 45.833 0.00 0.00 43.36 2.87
51 52 4.564940 ACGTCACCTATATTCGGAGAAC 57.435 45.455 0.00 0.00 45.90 3.01
52 53 3.949754 ACGTCACCTATATTCGGAGAACA 59.050 43.478 0.00 0.00 45.90 3.18
60 61 8.141909 CACCTATATTCGGAGAACATAAAGTCA 58.858 37.037 0.00 0.00 45.90 3.41
61 62 8.142551 ACCTATATTCGGAGAACATAAAGTCAC 58.857 37.037 0.00 0.00 45.90 3.67
62 63 8.141909 CCTATATTCGGAGAACATAAAGTCACA 58.858 37.037 0.00 0.00 45.90 3.58
81 82 8.503458 AGTCACATTATCATTCTCAAAAGAGG 57.497 34.615 0.00 0.00 31.75 3.69
192 193 6.996879 AGAAGTTAAGTGTTTCCCTTACCTTC 59.003 38.462 8.53 8.53 40.97 3.46
253 258 2.835156 TCACATGGAAACGTAGGGATCA 59.165 45.455 0.00 0.00 0.00 2.92
263 268 1.531264 CGTAGGGATCACAACGAGTCG 60.531 57.143 11.85 11.85 37.53 4.18
290 295 8.766000 AATAAACATGTCGTATTAGTGACACA 57.234 30.769 8.59 0.00 46.87 3.72
439 449 9.219603 CAAGACATGAACACCTAAATAAAGAGA 57.780 33.333 0.00 0.00 0.00 3.10
451 461 7.333672 ACCTAAATAAAGAGAACATGGACGAAC 59.666 37.037 0.00 0.00 0.00 3.95
464 474 2.030007 TGGACGAACAGGTTAACCGTAG 60.030 50.000 18.91 14.78 42.08 3.51
477 487 1.726853 ACCGTAGAAGCTCATGCAAC 58.273 50.000 0.00 0.00 42.74 4.17
490 503 3.370276 TCATGCAACATGACAAACAACG 58.630 40.909 6.17 0.00 0.00 4.10
493 506 2.919859 TGCAACATGACAAACAACGTTG 59.080 40.909 26.20 26.20 43.03 4.10
497 510 3.114809 ACATGACAAACAACGTTGCATG 58.885 40.909 28.80 28.80 42.40 4.06
556 569 4.331717 TCTCAAGAACGAAAACACTTGTCC 59.668 41.667 0.00 0.00 40.07 4.02
558 571 4.638421 TCAAGAACGAAAACACTTGTCCAT 59.362 37.500 0.00 0.00 40.07 3.41
561 574 5.120399 AGAACGAAAACACTTGTCCATACA 58.880 37.500 0.00 0.00 0.00 2.29
624 637 2.416431 GGAAGTATGACTAACGTGGCGT 60.416 50.000 0.00 0.00 43.97 5.68
704 717 6.982852 TCTCGAGTACTCAAGACAGAAAAAT 58.017 36.000 22.37 0.00 0.00 1.82
715 733 6.903419 CAAGACAGAAAAATCTTGTACTCCC 58.097 40.000 5.93 0.00 44.49 4.30
716 734 6.441088 AGACAGAAAAATCTTGTACTCCCT 57.559 37.500 0.00 0.00 0.00 4.20
718 736 5.561679 ACAGAAAAATCTTGTACTCCCTCC 58.438 41.667 0.00 0.00 0.00 4.30
719 737 4.631813 CAGAAAAATCTTGTACTCCCTCCG 59.368 45.833 0.00 0.00 0.00 4.63
720 738 4.286291 AGAAAAATCTTGTACTCCCTCCGT 59.714 41.667 0.00 0.00 0.00 4.69
721 739 4.635699 AAAATCTTGTACTCCCTCCGTT 57.364 40.909 0.00 0.00 0.00 4.44
722 740 3.889520 AATCTTGTACTCCCTCCGTTC 57.110 47.619 0.00 0.00 0.00 3.95
723 741 1.171308 TCTTGTACTCCCTCCGTTCG 58.829 55.000 0.00 0.00 0.00 3.95
724 742 0.172803 CTTGTACTCCCTCCGTTCGG 59.827 60.000 4.74 4.74 0.00 4.30
725 743 0.251297 TTGTACTCCCTCCGTTCGGA 60.251 55.000 13.34 13.34 0.00 4.55
726 744 0.251297 TGTACTCCCTCCGTTCGGAA 60.251 55.000 14.79 0.04 33.41 4.30
727 745 1.109609 GTACTCCCTCCGTTCGGAAT 58.890 55.000 14.79 2.09 33.41 3.01
728 746 1.479730 GTACTCCCTCCGTTCGGAATT 59.520 52.381 14.79 0.00 33.41 2.17
729 747 1.856629 ACTCCCTCCGTTCGGAATTA 58.143 50.000 14.79 2.82 33.41 1.40
730 748 1.479730 ACTCCCTCCGTTCGGAATTAC 59.520 52.381 14.79 0.00 33.41 1.89
731 749 1.755380 CTCCCTCCGTTCGGAATTACT 59.245 52.381 14.79 0.00 33.41 2.24
732 750 2.167900 CTCCCTCCGTTCGGAATTACTT 59.832 50.000 14.79 0.00 33.41 2.24
733 751 2.093869 TCCCTCCGTTCGGAATTACTTG 60.094 50.000 14.79 1.97 33.41 3.16
734 752 2.354403 CCCTCCGTTCGGAATTACTTGT 60.354 50.000 14.79 0.00 33.41 3.16
735 753 2.928116 CCTCCGTTCGGAATTACTTGTC 59.072 50.000 14.79 0.00 33.41 3.18
736 754 2.597305 CTCCGTTCGGAATTACTTGTCG 59.403 50.000 14.79 0.00 33.41 4.35
737 755 2.030007 TCCGTTCGGAATTACTTGTCGT 60.030 45.455 11.66 0.00 0.00 4.34
738 756 3.190327 TCCGTTCGGAATTACTTGTCGTA 59.810 43.478 11.66 0.00 0.00 3.43
739 757 4.107622 CCGTTCGGAATTACTTGTCGTAT 58.892 43.478 5.19 0.00 0.00 3.06
740 758 5.065859 TCCGTTCGGAATTACTTGTCGTATA 59.934 40.000 11.66 0.00 0.00 1.47
741 759 5.743398 CCGTTCGGAATTACTTGTCGTATAA 59.257 40.000 5.19 0.00 0.00 0.98
742 760 6.253298 CCGTTCGGAATTACTTGTCGTATAAA 59.747 38.462 5.19 0.00 0.00 1.40
743 761 7.043192 CCGTTCGGAATTACTTGTCGTATAAAT 60.043 37.037 5.19 0.00 0.00 1.40
744 762 7.786118 CGTTCGGAATTACTTGTCGTATAAATG 59.214 37.037 0.00 0.00 0.00 2.32
745 763 7.703298 TCGGAATTACTTGTCGTATAAATGG 57.297 36.000 0.00 0.00 0.00 3.16
746 764 7.490840 TCGGAATTACTTGTCGTATAAATGGA 58.509 34.615 0.00 0.00 0.00 3.41
747 765 8.145767 TCGGAATTACTTGTCGTATAAATGGAT 58.854 33.333 0.00 0.00 0.00 3.41
748 766 8.221100 CGGAATTACTTGTCGTATAAATGGATG 58.779 37.037 0.00 0.00 0.00 3.51
749 767 9.052759 GGAATTACTTGTCGTATAAATGGATGT 57.947 33.333 0.00 0.00 0.00 3.06
755 773 9.424319 ACTTGTCGTATAAATGGATGTATCATC 57.576 33.333 1.60 1.60 0.00 2.92
756 774 8.771920 TTGTCGTATAAATGGATGTATCATCC 57.228 34.615 18.48 18.48 38.66 3.51
766 784 6.264771 TGGATGTATCATCCATTTCCAAGA 57.735 37.500 22.53 2.44 42.81 3.02
767 785 6.064060 TGGATGTATCATCCATTTCCAAGAC 58.936 40.000 22.53 0.00 42.81 3.01
768 786 6.064060 GGATGTATCATCCATTTCCAAGACA 58.936 40.000 19.87 0.00 38.09 3.41
769 787 6.547141 GGATGTATCATCCATTTCCAAGACAA 59.453 38.462 19.87 0.00 38.09 3.18
770 788 7.068593 GGATGTATCATCCATTTCCAAGACAAA 59.931 37.037 19.87 0.00 38.09 2.83
771 789 7.959658 TGTATCATCCATTTCCAAGACAAAT 57.040 32.000 0.00 0.00 0.00 2.32
772 790 9.645128 ATGTATCATCCATTTCCAAGACAAATA 57.355 29.630 0.00 0.00 0.00 1.40
773 791 9.473007 TGTATCATCCATTTCCAAGACAAATAA 57.527 29.630 0.00 0.00 0.00 1.40
777 795 8.477256 TCATCCATTTCCAAGACAAATAATTCC 58.523 33.333 0.00 0.00 0.00 3.01
778 796 6.862209 TCCATTTCCAAGACAAATAATTCCG 58.138 36.000 0.00 0.00 0.00 4.30
779 797 6.661377 TCCATTTCCAAGACAAATAATTCCGA 59.339 34.615 0.00 0.00 0.00 4.55
780 798 7.177568 TCCATTTCCAAGACAAATAATTCCGAA 59.822 33.333 0.00 0.00 0.00 4.30
781 799 7.275560 CCATTTCCAAGACAAATAATTCCGAAC 59.724 37.037 0.00 0.00 0.00 3.95
782 800 5.539582 TCCAAGACAAATAATTCCGAACG 57.460 39.130 0.00 0.00 0.00 3.95
783 801 4.393680 TCCAAGACAAATAATTCCGAACGG 59.606 41.667 6.94 6.94 0.00 4.44
784 802 4.393680 CCAAGACAAATAATTCCGAACGGA 59.606 41.667 12.04 12.04 43.52 4.69
785 803 5.447279 CCAAGACAAATAATTCCGAACGGAG 60.447 44.000 15.34 5.60 46.06 4.63
786 804 4.189231 AGACAAATAATTCCGAACGGAGG 58.811 43.478 15.34 4.52 46.06 4.30
787 805 3.275999 ACAAATAATTCCGAACGGAGGG 58.724 45.455 15.34 5.11 46.06 4.30
788 806 3.054948 ACAAATAATTCCGAACGGAGGGA 60.055 43.478 15.34 2.49 46.06 4.20
789 807 3.470645 AATAATTCCGAACGGAGGGAG 57.529 47.619 15.34 0.00 46.06 4.30
790 808 1.856629 TAATTCCGAACGGAGGGAGT 58.143 50.000 15.34 4.12 46.06 3.85
791 809 1.856629 AATTCCGAACGGAGGGAGTA 58.143 50.000 15.34 1.05 46.06 2.59
792 810 1.400737 ATTCCGAACGGAGGGAGTAG 58.599 55.000 15.34 0.00 46.06 2.57
793 811 0.038744 TTCCGAACGGAGGGAGTAGT 59.961 55.000 15.34 0.00 46.06 2.73
794 812 0.911769 TCCGAACGGAGGGAGTAGTA 59.088 55.000 12.04 0.00 39.76 1.82
795 813 1.492176 TCCGAACGGAGGGAGTAGTAT 59.508 52.381 12.04 0.00 39.76 2.12
796 814 2.705658 TCCGAACGGAGGGAGTAGTATA 59.294 50.000 12.04 0.00 39.76 1.47
797 815 3.072944 CCGAACGGAGGGAGTAGTATAG 58.927 54.545 7.53 0.00 37.50 1.31
798 816 3.495806 CCGAACGGAGGGAGTAGTATAGT 60.496 52.174 7.53 0.00 37.50 2.12
799 817 4.262635 CCGAACGGAGGGAGTAGTATAGTA 60.263 50.000 7.53 0.00 37.50 1.82
800 818 5.486526 CGAACGGAGGGAGTAGTATAGTAT 58.513 45.833 0.00 0.00 0.00 2.12
801 819 5.580297 CGAACGGAGGGAGTAGTATAGTATC 59.420 48.000 0.00 0.00 0.00 2.24
802 820 6.445451 AACGGAGGGAGTAGTATAGTATCA 57.555 41.667 0.00 0.00 0.00 2.15
803 821 6.052405 ACGGAGGGAGTAGTATAGTATCAG 57.948 45.833 0.00 0.00 0.00 2.90
848 866 1.450312 GCACCCTCAACCCATCTCG 60.450 63.158 0.00 0.00 0.00 4.04
881 899 0.773644 CCATGGGTTAGCCATAGCCT 59.226 55.000 16.05 0.00 41.25 4.58
882 900 1.271597 CCATGGGTTAGCCATAGCCTC 60.272 57.143 16.05 0.00 41.25 4.70
883 901 1.701847 CATGGGTTAGCCATAGCCTCT 59.298 52.381 16.05 0.00 41.25 3.69
884 902 1.424638 TGGGTTAGCCATAGCCTCTC 58.575 55.000 0.00 0.00 41.25 3.20
886 904 0.318762 GGTTAGCCATAGCCTCTCCG 59.681 60.000 0.00 0.00 41.25 4.63
887 905 0.318762 GTTAGCCATAGCCTCTCCGG 59.681 60.000 0.00 0.00 41.25 5.14
913 962 3.234630 CTCTTCGCCGGTTCCCACA 62.235 63.158 1.90 0.00 0.00 4.17
1066 1116 4.157120 CTAACCCCTGCCGGACCG 62.157 72.222 5.05 6.99 0.00 4.79
1435 1485 0.179084 CGTCGCCATGTTGAGGGTAT 60.179 55.000 0.00 0.00 0.00 2.73
1595 1664 7.438160 TCGAACTTGATCAGCGAATTAATATGT 59.562 33.333 8.82 0.00 0.00 2.29
1621 1690 8.882415 ATGCAATATTTCAAGATTTGCTAAGG 57.118 30.769 7.37 0.00 0.00 2.69
1649 1718 4.022329 CACCGCCTTTTCTGGAAATAAGTT 60.022 41.667 0.00 0.00 0.00 2.66
1685 1754 4.415596 TGTGAACCAGCCTATCCATTTTT 58.584 39.130 0.00 0.00 0.00 1.94
1839 1910 0.883833 CACGAGCTGGAAAAGGCATT 59.116 50.000 1.44 0.00 0.00 3.56
1862 1933 1.122632 TAGGAGGGTTGTGGCGACAA 61.123 55.000 10.51 10.51 46.06 3.18
1908 1983 6.345096 AGGGTTAAGATGTGTGGAATTTTG 57.655 37.500 0.00 0.00 0.00 2.44
1918 1993 3.438781 GTGTGGAATTTTGCATACGGAGA 59.561 43.478 0.00 0.00 31.89 3.71
1934 2009 9.296400 GCATACGGAGAGAAGAGATATAATTTC 57.704 37.037 0.00 0.00 0.00 2.17
2060 2135 2.617788 GCATGTCCACCCATGTACAGAA 60.618 50.000 0.33 0.00 43.33 3.02
2066 2141 2.038426 CCACCCATGTACAGAACACTCA 59.962 50.000 0.33 0.00 42.09 3.41
2133 2208 1.590932 CAGATTCCATCCAAGGCTCG 58.409 55.000 0.00 0.00 0.00 5.03
2262 2370 9.767684 TTGTTTTCATATATAGTTGTTTCGCTG 57.232 29.630 0.00 0.00 0.00 5.18
2313 2727 4.820284 TTCACGTGCAACAAATGTCATA 57.180 36.364 11.67 0.00 35.74 2.15
2318 2732 4.022416 ACGTGCAACAAATGTCATATGGTT 60.022 37.500 2.13 0.00 35.74 3.67
2319 2733 4.324135 CGTGCAACAAATGTCATATGGTTG 59.676 41.667 13.00 13.00 38.80 3.77
2499 2913 8.467598 GGTCCTTCCATAAAATCCTACTTTTTC 58.532 37.037 0.00 0.00 35.97 2.29
2585 3002 9.981114 CTTTAGTTTTCCCTACATCAATTTTGT 57.019 29.630 0.00 0.00 0.00 2.83
2761 3179 2.330231 ACATTTCCACGCAATCAACG 57.670 45.000 0.00 0.00 0.00 4.10
2842 3260 6.516739 TTTGTTGTTGTTGGTGTCTTCATA 57.483 33.333 0.00 0.00 0.00 2.15
2870 3322 6.374333 GTGAAACCTGATTTAGCATGGTTAGA 59.626 38.462 1.12 0.00 39.74 2.10
2979 3432 4.661993 TGTCTCATGCACGTTAATGAAC 57.338 40.909 10.32 11.01 32.60 3.18
2987 3440 6.521477 TCATGCACGTTAATGAACATTTTACG 59.479 34.615 21.30 21.30 40.35 3.18
3050 3506 7.837202 ATCATATTTGGCAAACATTTGTGAG 57.163 32.000 16.00 0.00 40.24 3.51
3054 3510 4.597404 TTGGCAAACATTTGTGAGCATA 57.403 36.364 0.00 0.00 40.24 3.14
3083 3539 2.876550 GTTGTCGTTTAGCCCTCAAGTT 59.123 45.455 0.00 0.00 0.00 2.66
3098 3554 2.552315 TCAAGTTCCGCCTTTTAAGCAG 59.448 45.455 0.00 0.00 0.00 4.24
3285 3741 4.006989 TGACCGCTGCTAAAACAATACAT 58.993 39.130 0.00 0.00 0.00 2.29
3352 3808 6.378280 TCTTGCAGATGTAAGTCAGAGATACA 59.622 38.462 9.95 0.00 38.60 2.29
3484 3942 4.456911 CCTCTAGCAAACATGTGTCAATGT 59.543 41.667 0.00 0.00 42.62 2.71
3493 3951 4.516323 ACATGTGTCAATGTGCATAGCTA 58.484 39.130 0.00 0.00 39.32 3.32
3525 3983 7.507616 AGTTTCAGTACCCCAATTAAATGTTGA 59.492 33.333 0.00 0.00 0.00 3.18
3765 4223 8.706322 AAATTAATATGCCCGAGAAAATAGGT 57.294 30.769 0.00 0.00 0.00 3.08
3782 4240 1.009829 GGTGCGAAGATGGTGATGTC 58.990 55.000 0.00 0.00 0.00 3.06
3800 4258 3.057019 TGTCGACCTGAAGTTCAAATCG 58.943 45.455 23.17 23.17 36.02 3.34
3880 5000 8.306038 CACAAATGTTTATCCTTCTTCCATCAA 58.694 33.333 0.00 0.00 0.00 2.57
4086 5233 7.277098 CCAACAATTTTCCTCAAGCAATATCTG 59.723 37.037 0.00 0.00 0.00 2.90
4089 5239 3.650281 TTCCTCAAGCAATATCTGGCA 57.350 42.857 0.00 0.00 0.00 4.92
4098 5248 3.390311 AGCAATATCTGGCACATCTCTCA 59.610 43.478 0.00 0.00 38.20 3.27
4194 5344 1.420138 ACCTCCCCACTACAACAACAG 59.580 52.381 0.00 0.00 0.00 3.16
4201 5351 4.298332 CCCACTACAACAACAGATTTTGC 58.702 43.478 0.00 0.00 0.00 3.68
4309 5459 1.683943 CTGGATCATCACCCGCAAAT 58.316 50.000 0.00 0.00 0.00 2.32
4492 5652 6.256643 TGGGGGTATTTATAGTGGTTTCTC 57.743 41.667 0.00 0.00 0.00 2.87
4727 5913 8.925161 TTATGGCAAGTTTTACTTTGCATATC 57.075 30.769 10.83 0.00 36.03 1.63
4807 5995 2.565391 CAGGGCCGGTCCTAAAATTTTT 59.435 45.455 31.20 0.00 34.92 1.94
5009 6198 2.266055 GACAGGGCCGAGGTCAAG 59.734 66.667 17.39 0.00 0.00 3.02
5013 6202 4.821589 GGGCCGAGGTCAAGCTCG 62.822 72.222 21.28 21.28 42.10 5.03
5025 6214 6.575162 AGGTCAAGCTCGTCAAATAATTTT 57.425 33.333 0.00 0.00 0.00 1.82
5074 6264 8.836268 ACCATTTAAACTTCGTAGTGTCATTA 57.164 30.769 0.00 0.00 34.01 1.90
5216 6406 5.280945 ACTTCACATGTTTGAAAATCACCG 58.719 37.500 0.00 0.00 35.07 4.94
5320 6512 1.671261 GCAGTTTGTGTTTGTGCACCA 60.671 47.619 15.69 0.00 38.52 4.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.163754 GCGAGTTGGATGCATTATTATACCC 60.164 44.000 0.00 0.00 0.00 3.69
1 2 5.411361 TGCGAGTTGGATGCATTATTATACC 59.589 40.000 0.00 0.00 32.86 2.73
2 3 6.480524 TGCGAGTTGGATGCATTATTATAC 57.519 37.500 0.00 0.00 32.86 1.47
3 4 6.149308 CCTTGCGAGTTGGATGCATTATTATA 59.851 38.462 0.00 0.00 38.60 0.98
4 5 5.048504 CCTTGCGAGTTGGATGCATTATTAT 60.049 40.000 0.00 0.00 38.60 1.28
6 7 3.067180 CCTTGCGAGTTGGATGCATTATT 59.933 43.478 0.00 0.00 38.60 1.40
8 9 2.016318 CCTTGCGAGTTGGATGCATTA 58.984 47.619 0.00 0.00 38.60 1.90
10 11 0.322816 ACCTTGCGAGTTGGATGCAT 60.323 50.000 0.00 0.00 38.60 3.96
11 12 0.323302 TACCTTGCGAGTTGGATGCA 59.677 50.000 0.00 0.00 36.72 3.96
12 13 0.727398 GTACCTTGCGAGTTGGATGC 59.273 55.000 0.00 0.00 0.00 3.91
13 14 0.999406 CGTACCTTGCGAGTTGGATG 59.001 55.000 0.00 0.00 0.00 3.51
14 15 0.606604 ACGTACCTTGCGAGTTGGAT 59.393 50.000 0.00 0.00 0.00 3.41
15 16 0.038892 GACGTACCTTGCGAGTTGGA 60.039 55.000 0.00 0.00 0.00 3.53
16 17 0.319211 TGACGTACCTTGCGAGTTGG 60.319 55.000 0.00 0.00 0.00 3.77
17 18 0.782384 GTGACGTACCTTGCGAGTTG 59.218 55.000 0.00 0.00 0.00 3.16
18 19 0.319297 GGTGACGTACCTTGCGAGTT 60.319 55.000 0.00 0.00 46.51 3.01
19 20 1.288127 GGTGACGTACCTTGCGAGT 59.712 57.895 0.00 0.00 46.51 4.18
20 21 4.164252 GGTGACGTACCTTGCGAG 57.836 61.111 0.00 0.00 46.51 5.03
28 29 5.008019 TGTTCTCCGAATATAGGTGACGTAC 59.992 44.000 0.00 0.00 31.83 3.67
29 30 5.125356 TGTTCTCCGAATATAGGTGACGTA 58.875 41.667 0.00 0.00 31.83 3.57
30 31 3.949754 TGTTCTCCGAATATAGGTGACGT 59.050 43.478 0.00 0.00 31.83 4.34
31 32 4.563337 TGTTCTCCGAATATAGGTGACG 57.437 45.455 2.52 0.00 31.83 4.35
32 33 8.142551 ACTTTATGTTCTCCGAATATAGGTGAC 58.857 37.037 2.52 0.00 31.83 3.67
33 34 8.246430 ACTTTATGTTCTCCGAATATAGGTGA 57.754 34.615 0.00 0.00 0.00 4.02
34 35 8.141909 TGACTTTATGTTCTCCGAATATAGGTG 58.858 37.037 0.00 0.00 0.00 4.00
35 36 8.142551 GTGACTTTATGTTCTCCGAATATAGGT 58.857 37.037 0.00 0.00 0.00 3.08
36 37 8.141909 TGTGACTTTATGTTCTCCGAATATAGG 58.858 37.037 0.00 0.00 0.00 2.57
37 38 9.698309 ATGTGACTTTATGTTCTCCGAATATAG 57.302 33.333 0.00 0.00 0.00 1.31
39 40 8.964476 AATGTGACTTTATGTTCTCCGAATAT 57.036 30.769 0.00 0.00 0.00 1.28
41 42 8.964476 ATAATGTGACTTTATGTTCTCCGAAT 57.036 30.769 3.28 0.00 0.00 3.34
42 43 8.038351 TGATAATGTGACTTTATGTTCTCCGAA 58.962 33.333 8.26 0.00 0.00 4.30
43 44 7.552459 TGATAATGTGACTTTATGTTCTCCGA 58.448 34.615 8.26 0.00 0.00 4.55
44 45 7.770801 TGATAATGTGACTTTATGTTCTCCG 57.229 36.000 8.26 0.00 0.00 4.63
103 104 1.005340 CTCGTCTTTGCTCAGGATGC 58.995 55.000 0.00 0.00 34.76 3.91
253 258 5.388061 CGACATGTTTATTTCGACTCGTTGT 60.388 40.000 0.00 0.00 38.44 3.32
263 268 9.685005 GTGTCACTAATACGACATGTTTATTTC 57.315 33.333 15.20 0.00 43.59 2.17
383 390 6.279882 AGAAACCACAACAAACACATAATGG 58.720 36.000 0.00 0.00 0.00 3.16
439 449 3.143728 GGTTAACCTGTTCGTCCATGTT 58.856 45.455 17.83 4.08 0.00 2.71
451 461 3.587797 TGAGCTTCTACGGTTAACCTG 57.412 47.619 22.12 17.00 0.00 4.00
464 474 3.564235 TTGTCATGTTGCATGAGCTTC 57.436 42.857 11.54 2.17 42.74 3.86
477 487 2.472115 CCATGCAACGTTGTTTGTCATG 59.528 45.455 27.78 26.74 38.88 3.07
490 503 1.670811 CGGAACCTCATACCATGCAAC 59.329 52.381 0.00 0.00 0.00 4.17
493 506 1.299541 CACGGAACCTCATACCATGC 58.700 55.000 0.00 0.00 0.00 4.06
497 510 1.760613 TGATCCACGGAACCTCATACC 59.239 52.381 0.00 0.00 0.00 2.73
556 569 4.649088 TCTGACGGTCTACCATTGTATG 57.351 45.455 9.88 0.00 35.14 2.39
558 571 5.471556 TTTTCTGACGGTCTACCATTGTA 57.528 39.130 9.88 0.00 35.14 2.41
561 574 3.326880 ACCTTTTCTGACGGTCTACCATT 59.673 43.478 9.88 0.00 35.14 3.16
624 637 0.388778 TAATGCAGTTTCGTCCGCGA 60.389 50.000 8.23 0.00 46.36 5.87
704 717 1.171308 CGAACGGAGGGAGTACAAGA 58.829 55.000 0.00 0.00 0.00 3.02
711 729 1.755380 AGTAATTCCGAACGGAGGGAG 59.245 52.381 15.34 0.00 46.06 4.30
713 731 2.277084 CAAGTAATTCCGAACGGAGGG 58.723 52.381 15.34 0.00 46.06 4.30
714 732 2.928116 GACAAGTAATTCCGAACGGAGG 59.072 50.000 15.34 4.52 46.06 4.30
715 733 2.597305 CGACAAGTAATTCCGAACGGAG 59.403 50.000 15.34 5.60 46.06 4.63
716 734 2.030007 ACGACAAGTAATTCCGAACGGA 60.030 45.455 12.04 12.04 43.52 4.69
718 736 6.795053 TTATACGACAAGTAATTCCGAACG 57.205 37.500 0.00 0.00 39.04 3.95
719 737 8.060090 CCATTTATACGACAAGTAATTCCGAAC 58.940 37.037 0.00 0.00 39.04 3.95
720 738 7.980662 TCCATTTATACGACAAGTAATTCCGAA 59.019 33.333 0.00 0.00 39.04 4.30
721 739 7.490840 TCCATTTATACGACAAGTAATTCCGA 58.509 34.615 0.00 0.00 39.04 4.55
722 740 7.703298 TCCATTTATACGACAAGTAATTCCG 57.297 36.000 0.00 0.00 39.04 4.30
723 741 9.052759 ACATCCATTTATACGACAAGTAATTCC 57.947 33.333 0.00 0.00 39.04 3.01
729 747 9.424319 GATGATACATCCATTTATACGACAAGT 57.576 33.333 0.00 0.00 0.00 3.16
730 748 8.873830 GGATGATACATCCATTTATACGACAAG 58.126 37.037 21.28 0.00 38.09 3.16
731 749 8.371699 TGGATGATACATCCATTTATACGACAA 58.628 33.333 23.92 2.87 42.81 3.18
732 750 7.902087 TGGATGATACATCCATTTATACGACA 58.098 34.615 23.92 3.04 42.81 4.35
744 762 6.064060 TGTCTTGGAAATGGATGATACATCC 58.936 40.000 19.93 19.93 38.66 3.51
745 763 7.572523 TTGTCTTGGAAATGGATGATACATC 57.427 36.000 0.00 0.00 0.00 3.06
746 764 7.959658 TTTGTCTTGGAAATGGATGATACAT 57.040 32.000 0.00 0.00 0.00 2.29
747 765 7.959658 ATTTGTCTTGGAAATGGATGATACA 57.040 32.000 0.00 0.00 0.00 2.29
751 769 8.477256 GGAATTATTTGTCTTGGAAATGGATGA 58.523 33.333 0.00 0.00 0.00 2.92
752 770 7.436080 CGGAATTATTTGTCTTGGAAATGGATG 59.564 37.037 0.00 0.00 0.00 3.51
753 771 7.341769 TCGGAATTATTTGTCTTGGAAATGGAT 59.658 33.333 0.00 0.00 0.00 3.41
754 772 6.661377 TCGGAATTATTTGTCTTGGAAATGGA 59.339 34.615 0.00 0.00 0.00 3.41
755 773 6.862209 TCGGAATTATTTGTCTTGGAAATGG 58.138 36.000 0.00 0.00 0.00 3.16
756 774 7.008266 CGTTCGGAATTATTTGTCTTGGAAATG 59.992 37.037 0.00 0.00 0.00 2.32
757 775 7.027161 CGTTCGGAATTATTTGTCTTGGAAAT 58.973 34.615 0.00 0.00 0.00 2.17
758 776 6.375377 CGTTCGGAATTATTTGTCTTGGAAA 58.625 36.000 0.00 0.00 0.00 3.13
759 777 5.106475 CCGTTCGGAATTATTTGTCTTGGAA 60.106 40.000 5.19 0.00 0.00 3.53
760 778 4.393680 CCGTTCGGAATTATTTGTCTTGGA 59.606 41.667 5.19 0.00 0.00 3.53
761 779 4.393680 TCCGTTCGGAATTATTTGTCTTGG 59.606 41.667 11.66 0.00 0.00 3.61
762 780 5.447279 CCTCCGTTCGGAATTATTTGTCTTG 60.447 44.000 14.79 0.00 33.41 3.02
763 781 4.634443 CCTCCGTTCGGAATTATTTGTCTT 59.366 41.667 14.79 0.00 33.41 3.01
764 782 4.189231 CCTCCGTTCGGAATTATTTGTCT 58.811 43.478 14.79 0.00 33.41 3.41
765 783 3.311596 CCCTCCGTTCGGAATTATTTGTC 59.688 47.826 14.79 0.00 33.41 3.18
766 784 3.054948 TCCCTCCGTTCGGAATTATTTGT 60.055 43.478 14.79 0.00 33.41 2.83
767 785 3.537580 TCCCTCCGTTCGGAATTATTTG 58.462 45.455 14.79 1.97 33.41 2.32
768 786 3.199289 ACTCCCTCCGTTCGGAATTATTT 59.801 43.478 14.79 0.00 33.41 1.40
769 787 2.770232 ACTCCCTCCGTTCGGAATTATT 59.230 45.455 14.79 0.00 33.41 1.40
770 788 2.395619 ACTCCCTCCGTTCGGAATTAT 58.604 47.619 14.79 0.00 33.41 1.28
771 789 1.856629 ACTCCCTCCGTTCGGAATTA 58.143 50.000 14.79 2.82 33.41 1.40
772 790 1.755380 CTACTCCCTCCGTTCGGAATT 59.245 52.381 14.79 0.00 33.41 2.17
773 791 1.341778 ACTACTCCCTCCGTTCGGAAT 60.342 52.381 14.79 2.09 33.41 3.01
774 792 0.038744 ACTACTCCCTCCGTTCGGAA 59.961 55.000 14.79 0.04 33.41 4.30
775 793 0.911769 TACTACTCCCTCCGTTCGGA 59.088 55.000 13.34 13.34 0.00 4.55
776 794 1.978454 ATACTACTCCCTCCGTTCGG 58.022 55.000 4.74 4.74 0.00 4.30
777 795 3.737850 ACTATACTACTCCCTCCGTTCG 58.262 50.000 0.00 0.00 0.00 3.95
778 796 6.471146 TGATACTATACTACTCCCTCCGTTC 58.529 44.000 0.00 0.00 0.00 3.95
779 797 6.044171 ACTGATACTATACTACTCCCTCCGTT 59.956 42.308 0.00 0.00 0.00 4.44
780 798 5.547276 ACTGATACTATACTACTCCCTCCGT 59.453 44.000 0.00 0.00 0.00 4.69
781 799 5.875910 CACTGATACTATACTACTCCCTCCG 59.124 48.000 0.00 0.00 0.00 4.63
782 800 7.018487 TCACTGATACTATACTACTCCCTCC 57.982 44.000 0.00 0.00 0.00 4.30
783 801 8.921353 TTTCACTGATACTATACTACTCCCTC 57.079 38.462 0.00 0.00 0.00 4.30
812 830 4.262463 GGGTGCGATCCTCTCATGTTTATA 60.262 45.833 0.00 0.00 0.00 0.98
848 866 0.314935 CCATGGGTTGTGTGCTGAAC 59.685 55.000 2.85 0.00 0.00 3.18
881 899 3.283812 AAGAGAGGACGGCCGGAGA 62.284 63.158 31.76 0.00 39.96 3.71
882 900 2.756283 AAGAGAGGACGGCCGGAG 60.756 66.667 31.76 1.36 39.96 4.63
883 901 2.754658 GAAGAGAGGACGGCCGGA 60.755 66.667 31.76 0.00 39.96 5.14
884 902 4.194720 CGAAGAGAGGACGGCCGG 62.195 72.222 31.76 11.88 39.96 6.13
886 904 4.516195 GGCGAAGAGAGGACGGCC 62.516 72.222 0.00 0.00 44.46 6.13
887 905 4.856607 CGGCGAAGAGAGGACGGC 62.857 72.222 0.00 0.00 46.14 5.68
913 962 6.183361 TGGTAAGGCTTAAACTTTCTAACCCT 60.183 38.462 8.86 0.00 0.00 4.34
933 982 2.818751 AATTGGGCGAGGAATGGTAA 57.181 45.000 0.00 0.00 0.00 2.85
993 1043 4.115199 ACGGGCTCCATGGAAGGC 62.115 66.667 17.00 19.98 0.00 4.35
1435 1485 6.204301 AGCGATTAGTACTTCGATTAGTAGCA 59.796 38.462 18.74 0.00 37.55 3.49
1567 1636 2.432206 TTCGCTGATCAAGTTCGACA 57.568 45.000 0.00 0.00 0.00 4.35
1574 1643 8.445493 TGCATACATATTAATTCGCTGATCAAG 58.555 33.333 0.00 0.00 0.00 3.02
1595 1664 9.970395 CCTTAGCAAATCTTGAAATATTGCATA 57.030 29.630 10.89 0.00 46.59 3.14
1621 1690 1.515521 CCAGAAAAGGCGGTGTCACC 61.516 60.000 12.40 12.40 34.05 4.02
1649 1718 5.357878 GCTGGTTCACATATGAGGAAATTCA 59.642 40.000 10.38 10.27 35.83 2.57
1685 1754 1.293179 CAGAGCACCGATGGACACA 59.707 57.895 0.00 0.00 0.00 3.72
1839 1910 0.251916 CGCCACAACCCTCCTAATCA 59.748 55.000 0.00 0.00 0.00 2.57
1862 1933 7.366011 CCCTAACTCCAATATCTTTCTCCTTGT 60.366 40.741 0.00 0.00 0.00 3.16
1865 1936 6.213525 ACCCTAACTCCAATATCTTTCTCCT 58.786 40.000 0.00 0.00 0.00 3.69
1908 1983 9.296400 GAAATTATATCTCTTCTCTCCGTATGC 57.704 37.037 0.00 0.00 0.00 3.14
1934 2009 9.423061 CTTGAGGGAAATATTTAAACAAAGTGG 57.577 33.333 0.00 0.00 0.00 4.00
2006 2081 7.978414 TGAAAGTTAAACATGAAAGATGCACAA 59.022 29.630 0.00 0.00 0.00 3.33
2060 2135 0.400213 TCGGCAAATTCCCTGAGTGT 59.600 50.000 0.00 0.00 0.00 3.55
2066 2141 0.603065 GCTTTGTCGGCAAATTCCCT 59.397 50.000 16.67 0.00 42.88 4.20
2133 2208 1.875514 GTACCTTCGGTGTGGTTTTCC 59.124 52.381 0.00 0.00 36.19 3.13
2147 2222 4.910458 ACTAGGCACAATTGAGTACCTT 57.090 40.909 13.59 0.00 36.64 3.50
2262 2370 7.795482 TTACCCATATGCACACAAATAGTAC 57.205 36.000 0.00 0.00 0.00 2.73
2313 2727 2.156917 CACTGACATCTGCACAACCAT 58.843 47.619 0.00 0.00 0.00 3.55
2318 2732 0.179051 TGCACACTGACATCTGCACA 60.179 50.000 0.00 0.00 34.73 4.57
2319 2733 1.129998 GATGCACACTGACATCTGCAC 59.870 52.381 0.00 0.00 42.22 4.57
2499 2913 7.364522 ACATTGCACACACAAGTTATAGTAG 57.635 36.000 0.00 0.00 31.96 2.57
2585 3002 5.758296 CAGTACAAAGCCACAAAGAGACTAA 59.242 40.000 0.00 0.00 0.00 2.24
2761 3179 3.953612 TCAATTCACCCTCCATATGCAAC 59.046 43.478 0.00 0.00 0.00 4.17
2842 3260 4.460382 CCATGCTAAATCAGGTTTCACACT 59.540 41.667 0.00 0.00 0.00 3.55
2870 3322 2.693074 ACGACAAGCTCCACCAAAAATT 59.307 40.909 0.00 0.00 0.00 1.82
2999 3452 5.510430 TGGTATTGGTGTATTTGGCATACA 58.490 37.500 0.00 0.00 32.63 2.29
3000 3453 6.458232 TTGGTATTGGTGTATTTGGCATAC 57.542 37.500 0.00 0.00 0.00 2.39
3050 3506 7.043656 GGGCTAAACGACAACAAAAATATATGC 60.044 37.037 0.00 0.00 0.00 3.14
3054 3510 6.207810 TGAGGGCTAAACGACAACAAAAATAT 59.792 34.615 0.00 0.00 0.00 1.28
3098 3554 8.915057 TCTTTCCTGAAATCATATGAGGAATC 57.085 34.615 18.86 11.48 34.47 2.52
3285 3741 5.638596 TTGCGACTCTTAATAGTGAGACA 57.361 39.130 0.00 0.00 34.65 3.41
3484 3942 5.491070 ACTGAAACTCATTGTAGCTATGCA 58.509 37.500 0.00 0.00 0.00 3.96
3493 3951 4.447138 TTGGGGTACTGAAACTCATTGT 57.553 40.909 0.00 0.00 0.00 2.71
3525 3983 8.954350 CAACACTATTGATCCTTCAAATTCTCT 58.046 33.333 0.00 0.00 44.70 3.10
3765 4223 0.530288 TCGACATCACCATCTTCGCA 59.470 50.000 0.00 0.00 0.00 5.10
3782 4240 3.057019 TGACGATTTGAACTTCAGGTCG 58.943 45.455 18.68 18.68 39.39 4.79
3800 4258 1.952296 GGATGCATGGAATCACCTGAC 59.048 52.381 2.46 0.00 39.86 3.51
4086 5233 1.767681 AGGAATCCTGAGAGATGTGCC 59.232 52.381 0.00 0.00 29.57 5.01
4089 5239 4.782156 ACTGAAAGGAATCCTGAGAGATGT 59.218 41.667 0.90 0.00 39.30 3.06
4098 5248 1.283321 GGAGCCACTGAAAGGAATCCT 59.717 52.381 0.00 0.00 39.30 3.24
4194 5344 7.518731 TGTAGTTGTTTTTCACAGCAAAATC 57.481 32.000 0.00 0.00 39.05 2.17
4201 5351 4.320202 CGGGGATGTAGTTGTTTTTCACAG 60.320 45.833 0.00 0.00 36.48 3.66
4441 5591 8.547069 CGGTCAACAACAACAATGAAAATAATT 58.453 29.630 0.00 0.00 0.00 1.40
4442 5592 7.708752 ACGGTCAACAACAACAATGAAAATAAT 59.291 29.630 0.00 0.00 0.00 1.28
4447 5597 4.442375 ACGGTCAACAACAACAATGAAA 57.558 36.364 0.00 0.00 0.00 2.69
4492 5652 3.502211 AGAAATGTCCACTTAACAAGCCG 59.498 43.478 0.00 0.00 0.00 5.52
4593 5779 4.152647 AGTCTGACTCAACCACATCACTA 58.847 43.478 4.06 0.00 0.00 2.74
4799 5987 1.764422 CCCGGGCCCCAAAAATTTT 59.236 52.632 18.66 0.00 0.00 1.82
4972 6161 6.238293 CCTGTCGTTAGTGACTATACATCGAA 60.238 42.308 0.00 0.00 39.64 3.71
4989 6178 3.692406 GACCTCGGCCCTGTCGTT 61.692 66.667 0.00 0.00 30.45 3.85
5009 6198 7.044445 GCATCAAGAGAAAATTATTTGACGAGC 60.044 37.037 0.00 0.00 31.34 5.03
5025 6214 9.206870 GGTTTTGAAAAATTATGCATCAAGAGA 57.793 29.630 0.19 0.00 32.21 3.10
5102 6292 7.530861 CGGTCGAAAGAAGTTTTTCAAAGATAG 59.469 37.037 0.00 0.00 45.01 2.08


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

AutoCloner maintained by Alex Coulton.