Multiple sequence alignment - TraesCS2A01G363400

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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 TraesCS2A01G363400 chr2A 100.000 3224 0 0 1 3224 607603449 607600226 0.000000e+00 5954
1 TraesCS2A01G363400 chr2A 94.059 606 31 3 1 601 720377679 720377074 0.000000e+00 915
2 TraesCS2A01G363400 chr2B 94.039 1275 54 7 937 2206 545231476 545230219 0.000000e+00 1914
3 TraesCS2A01G363400 chr2B 87.230 1065 77 32 2202 3223 545230173 545229125 0.000000e+00 1158
4 TraesCS2A01G363400 chr2D 94.340 1219 49 10 995 2206 462790585 462789380 0.000000e+00 1851
5 TraesCS2A01G363400 chr2D 86.961 1066 72 32 2202 3224 462787752 462786711 0.000000e+00 1136
6 TraesCS2A01G363400 chr2D 91.304 138 8 2 2362 2495 462787986 462787849 5.490000e-43 185
7 TraesCS2A01G363400 chr7B 94.182 550 28 2 56 601 44619115 44619664 0.000000e+00 835
8 TraesCS2A01G363400 chr1D 92.294 571 37 5 1 566 160878189 160878757 0.000000e+00 804
9 TraesCS2A01G363400 chr4A 89.529 573 52 5 1 566 372412409 372412980 0.000000e+00 719
10 TraesCS2A01G363400 chr1B 92.769 484 29 2 1189 1672 630578372 630577895 0.000000e+00 695
11 TraesCS2A01G363400 chr5D 76.538 699 121 38 1331 2010 356189271 356189945 3.080000e-90 342
12 TraesCS2A01G363400 chr5A 72.737 983 201 56 1124 2074 70483001 70482054 5.300000e-68 268
13 TraesCS2A01G363400 chr5A 89.017 173 19 0 740 912 154444360 154444188 7.010000e-52 215
14 TraesCS2A01G363400 chr6A 89.080 174 19 0 739 912 359067223 359067050 1.950000e-52 217
15 TraesCS2A01G363400 chr6A 89.080 174 19 0 739 912 416301366 416301539 1.950000e-52 217
16 TraesCS2A01G363400 chr6A 89.080 174 19 0 739 912 416305037 416305210 1.950000e-52 217
17 TraesCS2A01G363400 chr6A 89.017 173 19 0 740 912 524543393 524543565 7.010000e-52 215
18 TraesCS2A01G363400 chr3A 89.017 173 19 0 740 912 32827344 32827172 7.010000e-52 215
19 TraesCS2A01G363400 chr3A 86.070 201 22 1 739 939 12841749 12841555 9.060000e-51 211
20 TraesCS2A01G363400 chr3D 88.439 173 20 0 740 912 117997037 117996865 3.260000e-50 209
21 TraesCS2A01G363400 chr1A 88.439 173 20 0 740 912 33962325 33962497 3.260000e-50 209


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 TraesCS2A01G363400 chr2A 607600226 607603449 3223 True 5954.000000 5954 100.000000 1 3224 1 chr2A.!!$R1 3223
1 TraesCS2A01G363400 chr2A 720377074 720377679 605 True 915.000000 915 94.059000 1 601 1 chr2A.!!$R2 600
2 TraesCS2A01G363400 chr2B 545229125 545231476 2351 True 1536.000000 1914 90.634500 937 3223 2 chr2B.!!$R1 2286
3 TraesCS2A01G363400 chr2D 462786711 462790585 3874 True 1057.333333 1851 90.868333 995 3224 3 chr2D.!!$R1 2229
4 TraesCS2A01G363400 chr7B 44619115 44619664 549 False 835.000000 835 94.182000 56 601 1 chr7B.!!$F1 545
5 TraesCS2A01G363400 chr1D 160878189 160878757 568 False 804.000000 804 92.294000 1 566 1 chr1D.!!$F1 565
6 TraesCS2A01G363400 chr4A 372412409 372412980 571 False 719.000000 719 89.529000 1 566 1 chr4A.!!$F1 565
7 TraesCS2A01G363400 chr5D 356189271 356189945 674 False 342.000000 342 76.538000 1331 2010 1 chr5D.!!$F1 679
8 TraesCS2A01G363400 chr5A 70482054 70483001 947 True 268.000000 268 72.737000 1124 2074 1 chr5A.!!$R1 950
9 TraesCS2A01G363400 chr6A 416301366 416305210 3844 False 217.000000 217 89.080000 739 912 2 chr6A.!!$F2 173

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
695 703 0.174389 CTACAGGAGCAGTGTCGCAT 59.826 55.0 0.0 0.0 0.00 4.73 F
1793 3734 0.598680 ATATGGAGCTTCGTCTGCGC 60.599 55.0 0.0 0.0 38.14 6.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2090 4056 0.667792 GAACGCTCTGGCTTCGAGTT 60.668 55.000 0.00 0.0 36.09 3.01 R
2686 6363 1.066573 AGCGCTTCAAGCAGTGATACT 60.067 47.619 10.73 0.0 42.58 2.12 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
54 56 2.725203 TACTGCACAACCCGCTCACC 62.725 60.000 0.00 0.00 0.00 4.02
105 111 2.267006 CGATGGAGTGCTGGCTGT 59.733 61.111 0.00 0.00 0.00 4.40
253 259 7.228507 TGAGCTGTGTGTGATAAAGTTTGTTAT 59.771 33.333 0.00 0.00 0.00 1.89
256 262 7.113404 GCTGTGTGTGATAAAGTTTGTTATGTG 59.887 37.037 0.00 0.00 0.00 3.21
286 293 3.802948 ATGACAATACAGACGGACCTC 57.197 47.619 0.00 0.00 0.00 3.85
399 407 4.099266 GTGTAGCAGAGTGATGGAGAGAAT 59.901 45.833 0.00 0.00 0.00 2.40
462 470 1.800586 ACTACAAACGAGTAGACGCGA 59.199 47.619 15.93 0.00 43.24 5.87
528 536 1.094785 CTGTTTAATGGGGGCAGACG 58.905 55.000 0.00 0.00 0.00 4.18
601 609 1.004277 TGGTAGTTGGGAAGATGGTGC 59.996 52.381 0.00 0.00 0.00 5.01
602 610 1.004277 GGTAGTTGGGAAGATGGTGCA 59.996 52.381 0.00 0.00 0.00 4.57
603 611 2.357154 GGTAGTTGGGAAGATGGTGCAT 60.357 50.000 0.00 0.00 0.00 3.96
604 612 1.843368 AGTTGGGAAGATGGTGCATG 58.157 50.000 0.00 0.00 0.00 4.06
605 613 1.076024 AGTTGGGAAGATGGTGCATGT 59.924 47.619 0.00 0.00 0.00 3.21
606 614 2.308570 AGTTGGGAAGATGGTGCATGTA 59.691 45.455 0.00 0.00 0.00 2.29
607 615 2.684881 GTTGGGAAGATGGTGCATGTAG 59.315 50.000 0.00 0.00 0.00 2.74
608 616 1.212688 TGGGAAGATGGTGCATGTAGG 59.787 52.381 0.00 0.00 0.00 3.18
609 617 1.312815 GGAAGATGGTGCATGTAGGC 58.687 55.000 0.00 0.00 0.00 3.93
610 618 1.408683 GGAAGATGGTGCATGTAGGCA 60.409 52.381 0.00 0.00 42.53 4.75
611 619 1.945394 GAAGATGGTGCATGTAGGCAG 59.055 52.381 0.00 0.00 45.96 4.85
612 620 0.914644 AGATGGTGCATGTAGGCAGT 59.085 50.000 0.00 0.00 45.96 4.40
613 621 1.134280 AGATGGTGCATGTAGGCAGTC 60.134 52.381 0.00 0.00 45.96 3.51
614 622 0.914644 ATGGTGCATGTAGGCAGTCT 59.085 50.000 0.00 0.00 45.96 3.24
615 623 0.250234 TGGTGCATGTAGGCAGTCTC 59.750 55.000 0.00 0.00 45.96 3.36
616 624 0.807667 GGTGCATGTAGGCAGTCTCG 60.808 60.000 0.00 0.00 45.96 4.04
617 625 1.153568 TGCATGTAGGCAGTCTCGC 60.154 57.895 0.00 0.00 39.25 5.03
618 626 2.233654 GCATGTAGGCAGTCTCGCG 61.234 63.158 0.00 0.00 0.00 5.87
619 627 1.139734 CATGTAGGCAGTCTCGCGT 59.860 57.895 5.77 0.00 0.00 6.01
620 628 0.458543 CATGTAGGCAGTCTCGCGTT 60.459 55.000 5.77 0.00 0.00 4.84
621 629 0.246635 ATGTAGGCAGTCTCGCGTTT 59.753 50.000 5.77 0.00 0.00 3.60
622 630 0.666274 TGTAGGCAGTCTCGCGTTTG 60.666 55.000 5.77 1.66 0.00 2.93
623 631 1.080093 TAGGCAGTCTCGCGTTTGG 60.080 57.895 5.77 0.00 0.00 3.28
624 632 1.529152 TAGGCAGTCTCGCGTTTGGA 61.529 55.000 5.77 0.00 0.00 3.53
625 633 2.668280 GGCAGTCTCGCGTTTGGAC 61.668 63.158 5.77 10.69 0.00 4.02
626 634 1.954146 GCAGTCTCGCGTTTGGACA 60.954 57.895 5.77 0.00 32.98 4.02
627 635 1.891060 GCAGTCTCGCGTTTGGACAG 61.891 60.000 5.77 8.82 32.98 3.51
628 636 0.318699 CAGTCTCGCGTTTGGACAGA 60.319 55.000 5.77 0.00 32.98 3.41
629 637 0.387929 AGTCTCGCGTTTGGACAGAA 59.612 50.000 5.77 0.00 32.98 3.02
630 638 0.784778 GTCTCGCGTTTGGACAGAAG 59.215 55.000 5.77 0.00 0.00 2.85
631 639 0.387929 TCTCGCGTTTGGACAGAAGT 59.612 50.000 5.77 0.00 0.00 3.01
632 640 0.508641 CTCGCGTTTGGACAGAAGTG 59.491 55.000 5.77 0.00 0.00 3.16
633 641 0.179094 TCGCGTTTGGACAGAAGTGT 60.179 50.000 5.77 0.00 40.71 3.55
634 642 1.067364 TCGCGTTTGGACAGAAGTGTA 59.933 47.619 5.77 0.00 36.88 2.90
635 643 2.066262 CGCGTTTGGACAGAAGTGTAT 58.934 47.619 0.00 0.00 36.88 2.29
636 644 2.159841 CGCGTTTGGACAGAAGTGTATG 60.160 50.000 0.00 0.00 36.88 2.39
637 645 2.159627 GCGTTTGGACAGAAGTGTATGG 59.840 50.000 0.00 0.00 36.88 2.74
638 646 3.399330 CGTTTGGACAGAAGTGTATGGT 58.601 45.455 0.00 0.00 36.88 3.55
639 647 4.562082 CGTTTGGACAGAAGTGTATGGTA 58.438 43.478 0.00 0.00 36.88 3.25
640 648 5.175859 CGTTTGGACAGAAGTGTATGGTAT 58.824 41.667 0.00 0.00 36.88 2.73
641 649 5.642063 CGTTTGGACAGAAGTGTATGGTATT 59.358 40.000 0.00 0.00 36.88 1.89
642 650 6.402118 CGTTTGGACAGAAGTGTATGGTATTG 60.402 42.308 0.00 0.00 36.88 1.90
643 651 4.513442 TGGACAGAAGTGTATGGTATTGC 58.487 43.478 0.00 0.00 36.88 3.56
644 652 4.225042 TGGACAGAAGTGTATGGTATTGCT 59.775 41.667 0.00 0.00 36.88 3.91
645 653 5.423931 TGGACAGAAGTGTATGGTATTGCTA 59.576 40.000 0.00 0.00 36.88 3.49
646 654 5.753921 GGACAGAAGTGTATGGTATTGCTAC 59.246 44.000 0.00 0.00 36.88 3.58
647 655 5.348986 ACAGAAGTGTATGGTATTGCTACG 58.651 41.667 0.00 0.00 34.05 3.51
648 656 4.745125 CAGAAGTGTATGGTATTGCTACGG 59.255 45.833 0.00 0.00 0.00 4.02
649 657 4.404715 AGAAGTGTATGGTATTGCTACGGT 59.595 41.667 0.00 0.00 0.00 4.83
650 658 4.748277 AGTGTATGGTATTGCTACGGTT 57.252 40.909 0.00 0.00 0.00 4.44
651 659 4.690122 AGTGTATGGTATTGCTACGGTTC 58.310 43.478 0.00 0.00 0.00 3.62
652 660 3.805971 GTGTATGGTATTGCTACGGTTCC 59.194 47.826 0.00 0.00 0.00 3.62
653 661 2.632987 ATGGTATTGCTACGGTTCCC 57.367 50.000 0.00 0.00 0.00 3.97
654 662 0.542805 TGGTATTGCTACGGTTCCCC 59.457 55.000 0.00 0.00 0.00 4.81
678 686 2.829003 CCAGCCGGAGCGAGTCTA 60.829 66.667 5.05 0.00 46.67 2.59
679 687 2.409651 CAGCCGGAGCGAGTCTAC 59.590 66.667 5.05 0.00 46.67 2.59
680 688 2.045242 AGCCGGAGCGAGTCTACA 60.045 61.111 5.05 0.00 46.67 2.74
681 689 2.115911 AGCCGGAGCGAGTCTACAG 61.116 63.158 5.05 0.00 46.67 2.74
682 690 3.111939 CCGGAGCGAGTCTACAGG 58.888 66.667 0.00 0.00 0.00 4.00
683 691 1.451567 CCGGAGCGAGTCTACAGGA 60.452 63.158 0.00 0.00 0.00 3.86
684 692 1.440938 CCGGAGCGAGTCTACAGGAG 61.441 65.000 0.00 0.00 0.00 3.69
685 693 1.731093 GGAGCGAGTCTACAGGAGC 59.269 63.158 0.00 0.00 0.00 4.70
686 694 1.032657 GGAGCGAGTCTACAGGAGCA 61.033 60.000 0.00 0.00 0.00 4.26
687 695 0.380378 GAGCGAGTCTACAGGAGCAG 59.620 60.000 0.00 0.00 0.00 4.24
688 696 0.322997 AGCGAGTCTACAGGAGCAGT 60.323 55.000 0.00 0.00 0.00 4.40
689 697 0.179150 GCGAGTCTACAGGAGCAGTG 60.179 60.000 0.00 0.00 0.00 3.66
690 698 1.169577 CGAGTCTACAGGAGCAGTGT 58.830 55.000 0.00 0.00 0.00 3.55
691 699 1.131504 CGAGTCTACAGGAGCAGTGTC 59.868 57.143 0.00 0.00 0.00 3.67
692 700 1.131504 GAGTCTACAGGAGCAGTGTCG 59.868 57.143 0.00 0.00 0.00 4.35
693 701 0.456995 GTCTACAGGAGCAGTGTCGC 60.457 60.000 0.00 0.00 0.00 5.19
694 702 0.893727 TCTACAGGAGCAGTGTCGCA 60.894 55.000 0.00 0.00 0.00 5.10
695 703 0.174389 CTACAGGAGCAGTGTCGCAT 59.826 55.000 0.00 0.00 0.00 4.73
696 704 1.405463 CTACAGGAGCAGTGTCGCATA 59.595 52.381 0.00 0.00 0.00 3.14
697 705 0.608130 ACAGGAGCAGTGTCGCATAA 59.392 50.000 0.00 0.00 0.00 1.90
698 706 1.001974 ACAGGAGCAGTGTCGCATAAA 59.998 47.619 0.00 0.00 0.00 1.40
699 707 2.076100 CAGGAGCAGTGTCGCATAAAA 58.924 47.619 0.00 0.00 0.00 1.52
700 708 2.094894 CAGGAGCAGTGTCGCATAAAAG 59.905 50.000 0.00 0.00 0.00 2.27
701 709 1.398390 GGAGCAGTGTCGCATAAAAGG 59.602 52.381 0.00 0.00 0.00 3.11
702 710 1.398390 GAGCAGTGTCGCATAAAAGGG 59.602 52.381 0.00 0.00 0.00 3.95
703 711 1.165270 GCAGTGTCGCATAAAAGGGT 58.835 50.000 0.00 0.00 0.00 4.34
704 712 1.539827 GCAGTGTCGCATAAAAGGGTT 59.460 47.619 0.00 0.00 0.00 4.11
705 713 2.745281 GCAGTGTCGCATAAAAGGGTTA 59.255 45.455 0.00 0.00 0.00 2.85
706 714 3.377172 GCAGTGTCGCATAAAAGGGTTAT 59.623 43.478 0.00 0.00 0.00 1.89
707 715 4.142469 GCAGTGTCGCATAAAAGGGTTATT 60.142 41.667 0.00 0.00 0.00 1.40
708 716 5.621329 GCAGTGTCGCATAAAAGGGTTATTT 60.621 40.000 0.00 0.00 0.00 1.40
709 717 6.027749 CAGTGTCGCATAAAAGGGTTATTTC 58.972 40.000 0.00 0.00 0.00 2.17
710 718 5.124936 AGTGTCGCATAAAAGGGTTATTTCC 59.875 40.000 0.00 0.00 0.00 3.13
711 719 5.124936 GTGTCGCATAAAAGGGTTATTTCCT 59.875 40.000 0.00 0.00 35.88 3.36
712 720 5.355910 TGTCGCATAAAAGGGTTATTTCCTC 59.644 40.000 0.00 0.00 32.59 3.71
713 721 4.885325 TCGCATAAAAGGGTTATTTCCTCC 59.115 41.667 0.00 0.00 32.59 4.30
714 722 4.887655 CGCATAAAAGGGTTATTTCCTCCT 59.112 41.667 0.00 0.00 32.59 3.69
715 723 5.359860 CGCATAAAAGGGTTATTTCCTCCTT 59.640 40.000 0.00 0.00 40.94 3.36
717 725 7.265673 GCATAAAAGGGTTATTTCCTCCTTTC 58.734 38.462 6.66 0.00 45.59 2.62
718 726 7.093509 GCATAAAAGGGTTATTTCCTCCTTTCA 60.094 37.037 6.66 0.00 45.59 2.69
719 727 8.981659 CATAAAAGGGTTATTTCCTCCTTTCAT 58.018 33.333 6.66 0.00 45.59 2.57
720 728 7.482169 AAAAGGGTTATTTCCTCCTTTCATC 57.518 36.000 6.66 0.00 45.59 2.92
721 729 6.408770 AAGGGTTATTTCCTCCTTTCATCT 57.591 37.500 0.00 0.00 36.30 2.90
722 730 5.760131 AGGGTTATTTCCTCCTTTCATCTG 58.240 41.667 0.00 0.00 0.00 2.90
723 731 4.339530 GGGTTATTTCCTCCTTTCATCTGC 59.660 45.833 0.00 0.00 0.00 4.26
724 732 4.339530 GGTTATTTCCTCCTTTCATCTGCC 59.660 45.833 0.00 0.00 0.00 4.85
725 733 5.196695 GTTATTTCCTCCTTTCATCTGCCT 58.803 41.667 0.00 0.00 0.00 4.75
726 734 6.357367 GTTATTTCCTCCTTTCATCTGCCTA 58.643 40.000 0.00 0.00 0.00 3.93
727 735 4.927267 TTTCCTCCTTTCATCTGCCTAA 57.073 40.909 0.00 0.00 0.00 2.69
728 736 5.456921 TTTCCTCCTTTCATCTGCCTAAT 57.543 39.130 0.00 0.00 0.00 1.73
729 737 6.575244 TTTCCTCCTTTCATCTGCCTAATA 57.425 37.500 0.00 0.00 0.00 0.98
730 738 6.770286 TTCCTCCTTTCATCTGCCTAATAT 57.230 37.500 0.00 0.00 0.00 1.28
731 739 7.872061 TTCCTCCTTTCATCTGCCTAATATA 57.128 36.000 0.00 0.00 0.00 0.86
732 740 8.454859 TTCCTCCTTTCATCTGCCTAATATAT 57.545 34.615 0.00 0.00 0.00 0.86
733 741 8.454859 TCCTCCTTTCATCTGCCTAATATATT 57.545 34.615 2.97 2.97 0.00 1.28
734 742 9.560860 TCCTCCTTTCATCTGCCTAATATATTA 57.439 33.333 5.10 5.10 0.00 0.98
835 843 4.272991 ACACGAATTTAACGGTGTGCTTTA 59.727 37.500 0.00 0.00 34.93 1.85
862 870 9.830975 TGTAAGTTGCATGTCATATATTACTGT 57.169 29.630 0.00 0.00 0.00 3.55
896 1808 9.915629 TTTGCTTAAAGTTAGTCTTGAAAAACA 57.084 25.926 0.00 0.00 36.40 2.83
898 1810 7.694784 TGCTTAAAGTTAGTCTTGAAAAACACG 59.305 33.333 0.00 0.00 36.40 4.49
912 1824 5.818857 TGAAAAACACGTTAGGCCCTATATC 59.181 40.000 0.00 0.00 0.00 1.63
913 1825 5.625568 AAAACACGTTAGGCCCTATATCT 57.374 39.130 0.00 0.00 0.00 1.98
948 2774 4.796225 GTGAGTAGCTCGCTGGAC 57.204 61.111 0.85 0.00 37.92 4.02
957 2783 1.817099 CTCGCTGGACCATCTTGGC 60.817 63.158 0.00 0.00 42.67 4.52
979 2805 3.400928 CTGCCCTGCTCTGCCTCT 61.401 66.667 0.00 0.00 0.00 3.69
1050 2876 2.774799 CCTGCTTAACATGGCGGGC 61.775 63.158 6.60 0.00 46.14 6.13
1082 2908 3.775654 CTCTCCCCGCGCTCCTTT 61.776 66.667 5.56 0.00 0.00 3.11
1083 2909 3.316573 CTCTCCCCGCGCTCCTTTT 62.317 63.158 5.56 0.00 0.00 2.27
1084 2910 1.956629 CTCTCCCCGCGCTCCTTTTA 61.957 60.000 5.56 0.00 0.00 1.52
1100 2926 0.979187 TTTACCCAGAGCCTACCGGG 60.979 60.000 6.32 0.00 44.88 5.73
1377 3209 2.260743 GGGTTCGTCACGGAGTCC 59.739 66.667 0.00 0.00 41.61 3.85
1793 3734 0.598680 ATATGGAGCTTCGTCTGCGC 60.599 55.000 0.00 0.00 38.14 6.09
2006 3969 1.153881 GGCGAGAACCACGTCTACC 60.154 63.158 0.00 0.00 32.48 3.18
2194 4213 7.951530 ATGAAAATCCAGTTGCAAGTAAAAG 57.048 32.000 6.43 0.00 0.00 2.27
2195 4214 6.279882 TGAAAATCCAGTTGCAAGTAAAAGG 58.720 36.000 6.43 4.22 0.00 3.11
2217 4288 5.805994 AGGAACAAATCTATCGTTCTCGTTC 59.194 40.000 0.00 0.00 39.18 3.95
2222 4293 6.183360 ACAAATCTATCGTTCTCGTTCCCATA 60.183 38.462 0.00 0.00 38.33 2.74
2224 4295 3.819337 TCTATCGTTCTCGTTCCCATAGG 59.181 47.826 0.00 0.00 38.33 2.57
2227 4298 1.749634 CGTTCTCGTTCCCATAGGAGT 59.250 52.381 0.00 0.00 45.19 3.85
2229 4300 3.568853 CGTTCTCGTTCCCATAGGAGTAT 59.431 47.826 0.00 0.00 45.19 2.12
2230 4301 4.320348 CGTTCTCGTTCCCATAGGAGTATC 60.320 50.000 0.00 0.00 45.19 2.24
2232 4303 4.399219 TCTCGTTCCCATAGGAGTATCAG 58.601 47.826 0.00 0.00 45.19 2.90
2234 4305 4.543689 TCGTTCCCATAGGAGTATCAGTT 58.456 43.478 0.00 0.00 45.19 3.16
2235 4306 4.960469 TCGTTCCCATAGGAGTATCAGTTT 59.040 41.667 0.00 0.00 45.19 2.66
2236 4307 5.068723 TCGTTCCCATAGGAGTATCAGTTTC 59.931 44.000 0.00 0.00 45.19 2.78
2241 4313 8.618240 TCCCATAGGAGTATCAGTTTCTTTTA 57.382 34.615 0.00 0.00 37.19 1.52
2243 4315 9.277783 CCCATAGGAGTATCAGTTTCTTTTATG 57.722 37.037 0.00 0.00 36.25 1.90
2261 5914 2.436646 ATGAAAGGCACTCCCGCG 60.437 61.111 0.00 0.00 38.49 6.46
2343 5999 1.127567 TAAGCACACCAGTGGCTCCT 61.128 55.000 9.78 0.00 45.98 3.69
2369 6025 3.105937 GGCAAGAAGAACAAACGACAAC 58.894 45.455 0.00 0.00 0.00 3.32
2370 6026 2.776225 GCAAGAAGAACAAACGACAACG 59.224 45.455 0.00 0.00 45.75 4.10
2428 6084 5.645497 GCCAGAGTTATATAGATTTGCCAGG 59.355 44.000 0.00 0.00 0.00 4.45
2506 6165 6.783892 TCAAGCATAGAAATTTGCAAAACC 57.216 33.333 17.19 8.22 41.35 3.27
2543 6202 5.607119 GAGAGTCTCTCCGCTAGAATTAG 57.393 47.826 17.83 0.00 37.55 1.73
2548 6207 3.890147 TCTCTCCGCTAGAATTAGTTCCC 59.110 47.826 0.00 0.00 34.81 3.97
2557 6216 2.919602 AGAATTAGTTCCCTTGGGCAGA 59.080 45.455 0.00 0.00 34.81 4.26
2564 6235 3.076032 AGTTCCCTTGGGCAGACTTAATT 59.924 43.478 0.00 0.00 0.00 1.40
2662 6339 2.325082 CCGAACCAGGGCAAGAACG 61.325 63.158 0.00 0.00 0.00 3.95
2669 6346 1.026718 CAGGGCAAGAACGGATGACC 61.027 60.000 0.00 0.00 45.69 4.02
2688 6365 1.675641 GGGAACGCTGATGGCAAGT 60.676 57.895 0.00 0.00 41.91 3.16
2712 6389 4.034258 GCTTGAAGCGCTGCAGCA 62.034 61.111 36.03 15.66 42.21 4.41
2729 6406 6.330004 TGCAGCAACAAAGATTTATTCAGA 57.670 33.333 0.00 0.00 0.00 3.27
2730 6407 6.927416 TGCAGCAACAAAGATTTATTCAGAT 58.073 32.000 0.00 0.00 0.00 2.90
2732 6409 7.970061 TGCAGCAACAAAGATTTATTCAGATAC 59.030 33.333 0.00 0.00 0.00 2.24
2805 6483 2.113860 AACTCACATCATTGGGTCCG 57.886 50.000 0.00 0.00 0.00 4.79
2915 6594 8.716909 ACAAATAAGGCATTAAAATTGAAACCG 58.283 29.630 16.45 0.00 0.00 4.44
2962 6641 7.287229 ACAATAAAAACACAATGCGCATAAAC 58.713 30.769 25.61 0.00 0.00 2.01
3033 6712 9.502091 AACTAAGACTCAATTACATAAACTGCA 57.498 29.630 0.00 0.00 0.00 4.41
3034 6713 9.502091 ACTAAGACTCAATTACATAAACTGCAA 57.498 29.630 0.00 0.00 0.00 4.08
3094 6773 8.919145 TCCTACCACAAACAAAATGATTTTACT 58.081 29.630 2.42 0.00 0.00 2.24
3152 7392 8.568676 TTCTCAAACCAATATTCACCGAAATA 57.431 30.769 0.00 0.00 0.00 1.40
3176 7416 5.415701 AGGTGAAACATTAAATGAGCGACAT 59.584 36.000 0.00 0.00 39.98 3.06
3177 7417 6.597672 AGGTGAAACATTAAATGAGCGACATA 59.402 34.615 0.00 0.00 39.98 2.29
3182 7422 6.363577 ACATTAAATGAGCGACATACAAGG 57.636 37.500 0.00 3.04 38.38 3.61
3184 7424 6.258727 ACATTAAATGAGCGACATACAAGGAG 59.741 38.462 0.00 0.00 38.38 3.69
3189 7429 3.117046 GAGCGACATACAAGGAGTAAGC 58.883 50.000 0.00 0.00 36.05 3.09
3194 7434 4.207224 CGACATACAAGGAGTAAGCAATCG 59.793 45.833 0.00 0.00 36.05 3.34
3204 7444 5.775701 AGGAGTAAGCAATCGGTATAGTGAT 59.224 40.000 0.00 0.00 0.00 3.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
54 56 8.016801 ACAAAAGCAGTTTCAACAATCTTTTTG 58.983 29.630 10.93 11.40 34.72 2.44
105 111 0.323633 CCATGTCCCACCATGCTGAA 60.324 55.000 0.00 0.00 40.72 3.02
209 215 5.757320 CAGCTCAAATATCTCATTTCGTCCT 59.243 40.000 0.00 0.00 0.00 3.85
272 279 6.150396 CTCAAATTAGAGGTCCGTCTGTAT 57.850 41.667 0.00 0.00 31.94 2.29
372 380 2.106566 CCATCACTCTGCTACACTCCT 58.893 52.381 0.00 0.00 0.00 3.69
434 442 7.580882 GCGTCTACTCGTTTGTAGTACTAATAC 59.419 40.741 3.61 2.57 40.39 1.89
443 451 2.515641 TCGCGTCTACTCGTTTGTAG 57.484 50.000 5.77 0.00 40.75 2.74
445 453 1.783140 GTTTCGCGTCTACTCGTTTGT 59.217 47.619 5.77 0.00 0.00 2.83
510 518 0.322997 CCGTCTGCCCCCATTAAACA 60.323 55.000 0.00 0.00 0.00 2.83
513 521 1.301623 CACCGTCTGCCCCCATTAA 59.698 57.895 0.00 0.00 0.00 1.40
528 536 9.736023 CAAGTAATCATTAAATCCTAAAGCACC 57.264 33.333 0.00 0.00 0.00 5.01
601 609 0.458543 AACGCGAGACTGCCTACATG 60.459 55.000 15.93 0.00 0.00 3.21
602 610 0.246635 AAACGCGAGACTGCCTACAT 59.753 50.000 15.93 0.00 0.00 2.29
603 611 0.666274 CAAACGCGAGACTGCCTACA 60.666 55.000 15.93 0.00 0.00 2.74
604 612 1.352156 CCAAACGCGAGACTGCCTAC 61.352 60.000 15.93 0.00 0.00 3.18
605 613 1.080093 CCAAACGCGAGACTGCCTA 60.080 57.895 15.93 0.00 0.00 3.93
606 614 2.357517 CCAAACGCGAGACTGCCT 60.358 61.111 15.93 0.00 0.00 4.75
607 615 2.357034 TCCAAACGCGAGACTGCC 60.357 61.111 15.93 0.00 0.00 4.85
608 616 1.891060 CTGTCCAAACGCGAGACTGC 61.891 60.000 15.93 0.00 0.00 4.40
609 617 0.318699 TCTGTCCAAACGCGAGACTG 60.319 55.000 15.93 16.72 0.00 3.51
610 618 0.387929 TTCTGTCCAAACGCGAGACT 59.612 50.000 15.93 0.00 0.00 3.24
611 619 0.784778 CTTCTGTCCAAACGCGAGAC 59.215 55.000 15.93 14.35 0.00 3.36
612 620 0.387929 ACTTCTGTCCAAACGCGAGA 59.612 50.000 15.93 0.00 0.00 4.04
613 621 0.508641 CACTTCTGTCCAAACGCGAG 59.491 55.000 15.93 1.33 0.00 5.03
614 622 0.179094 ACACTTCTGTCCAAACGCGA 60.179 50.000 15.93 0.00 0.00 5.87
615 623 1.493772 TACACTTCTGTCCAAACGCG 58.506 50.000 3.53 3.53 0.00 6.01
616 624 2.159627 CCATACACTTCTGTCCAAACGC 59.840 50.000 0.00 0.00 0.00 4.84
617 625 3.399330 ACCATACACTTCTGTCCAAACG 58.601 45.455 0.00 0.00 0.00 3.60
618 626 6.622896 GCAATACCATACACTTCTGTCCAAAC 60.623 42.308 0.00 0.00 0.00 2.93
619 627 5.414454 GCAATACCATACACTTCTGTCCAAA 59.586 40.000 0.00 0.00 0.00 3.28
620 628 4.941263 GCAATACCATACACTTCTGTCCAA 59.059 41.667 0.00 0.00 0.00 3.53
621 629 4.225042 AGCAATACCATACACTTCTGTCCA 59.775 41.667 0.00 0.00 0.00 4.02
622 630 4.770795 AGCAATACCATACACTTCTGTCC 58.229 43.478 0.00 0.00 0.00 4.02
623 631 5.459107 CGTAGCAATACCATACACTTCTGTC 59.541 44.000 0.00 0.00 0.00 3.51
624 632 5.348986 CGTAGCAATACCATACACTTCTGT 58.651 41.667 0.00 0.00 0.00 3.41
625 633 4.745125 CCGTAGCAATACCATACACTTCTG 59.255 45.833 0.00 0.00 0.00 3.02
626 634 4.404715 ACCGTAGCAATACCATACACTTCT 59.595 41.667 0.00 0.00 0.00 2.85
627 635 4.690122 ACCGTAGCAATACCATACACTTC 58.310 43.478 0.00 0.00 0.00 3.01
628 636 4.748277 ACCGTAGCAATACCATACACTT 57.252 40.909 0.00 0.00 0.00 3.16
629 637 4.442472 GGAACCGTAGCAATACCATACACT 60.442 45.833 0.00 0.00 0.00 3.55
630 638 3.805971 GGAACCGTAGCAATACCATACAC 59.194 47.826 0.00 0.00 0.00 2.90
631 639 3.181463 GGGAACCGTAGCAATACCATACA 60.181 47.826 0.00 0.00 40.86 2.29
632 640 3.396560 GGGAACCGTAGCAATACCATAC 58.603 50.000 0.00 0.00 40.86 2.39
633 641 3.756933 GGGAACCGTAGCAATACCATA 57.243 47.619 0.00 0.00 40.86 2.74
634 642 2.632987 GGGAACCGTAGCAATACCAT 57.367 50.000 0.00 0.00 40.86 3.55
661 669 2.829003 TAGACTCGCTCCGGCTGG 60.829 66.667 4.71 4.71 36.09 4.85
662 670 2.329678 CTGTAGACTCGCTCCGGCTG 62.330 65.000 0.00 0.00 36.09 4.85
663 671 2.045242 TGTAGACTCGCTCCGGCT 60.045 61.111 0.00 0.00 36.09 5.52
664 672 2.409651 CTGTAGACTCGCTCCGGC 59.590 66.667 0.00 0.00 0.00 6.13
665 673 1.440938 CTCCTGTAGACTCGCTCCGG 61.441 65.000 0.00 0.00 0.00 5.14
666 674 2.018544 CTCCTGTAGACTCGCTCCG 58.981 63.158 0.00 0.00 0.00 4.63
667 675 1.032657 TGCTCCTGTAGACTCGCTCC 61.033 60.000 0.00 0.00 0.00 4.70
668 676 0.380378 CTGCTCCTGTAGACTCGCTC 59.620 60.000 0.00 0.00 0.00 5.03
669 677 0.322997 ACTGCTCCTGTAGACTCGCT 60.323 55.000 0.00 0.00 0.00 4.93
670 678 0.179150 CACTGCTCCTGTAGACTCGC 60.179 60.000 0.00 0.00 0.00 5.03
671 679 1.131504 GACACTGCTCCTGTAGACTCG 59.868 57.143 0.00 0.00 0.00 4.18
672 680 1.131504 CGACACTGCTCCTGTAGACTC 59.868 57.143 0.00 0.00 0.00 3.36
673 681 1.169577 CGACACTGCTCCTGTAGACT 58.830 55.000 0.00 0.00 0.00 3.24
674 682 0.456995 GCGACACTGCTCCTGTAGAC 60.457 60.000 0.00 0.00 0.00 2.59
675 683 0.893727 TGCGACACTGCTCCTGTAGA 60.894 55.000 0.00 0.00 35.36 2.59
676 684 0.174389 ATGCGACACTGCTCCTGTAG 59.826 55.000 0.00 0.00 35.36 2.74
677 685 1.470051 TATGCGACACTGCTCCTGTA 58.530 50.000 0.00 0.00 35.36 2.74
678 686 0.608130 TTATGCGACACTGCTCCTGT 59.392 50.000 0.00 0.00 35.36 4.00
679 687 1.725641 TTTATGCGACACTGCTCCTG 58.274 50.000 0.00 0.00 35.36 3.86
680 688 2.350522 CTTTTATGCGACACTGCTCCT 58.649 47.619 0.00 0.00 35.36 3.69
681 689 1.398390 CCTTTTATGCGACACTGCTCC 59.602 52.381 0.00 0.00 35.36 4.70
682 690 1.398390 CCCTTTTATGCGACACTGCTC 59.602 52.381 0.00 0.00 35.36 4.26
683 691 1.271379 ACCCTTTTATGCGACACTGCT 60.271 47.619 0.00 0.00 35.36 4.24
684 692 1.165270 ACCCTTTTATGCGACACTGC 58.835 50.000 0.00 0.00 0.00 4.40
685 693 5.560966 AATAACCCTTTTATGCGACACTG 57.439 39.130 0.00 0.00 0.00 3.66
686 694 5.124936 GGAAATAACCCTTTTATGCGACACT 59.875 40.000 0.00 0.00 0.00 3.55
687 695 5.124936 AGGAAATAACCCTTTTATGCGACAC 59.875 40.000 0.00 0.00 0.00 3.67
688 696 5.258051 AGGAAATAACCCTTTTATGCGACA 58.742 37.500 0.00 0.00 0.00 4.35
689 697 5.220989 GGAGGAAATAACCCTTTTATGCGAC 60.221 44.000 0.00 0.00 33.36 5.19
690 698 4.885325 GGAGGAAATAACCCTTTTATGCGA 59.115 41.667 0.00 0.00 33.36 5.10
691 699 4.887655 AGGAGGAAATAACCCTTTTATGCG 59.112 41.667 0.00 0.00 33.36 4.73
692 700 6.791867 AAGGAGGAAATAACCCTTTTATGC 57.208 37.500 0.00 0.00 35.64 3.14
693 701 8.361169 TGAAAGGAGGAAATAACCCTTTTATG 57.639 34.615 0.00 0.00 45.83 1.90
694 702 9.201989 GATGAAAGGAGGAAATAACCCTTTTAT 57.798 33.333 0.00 0.00 45.83 1.40
695 703 8.398743 AGATGAAAGGAGGAAATAACCCTTTTA 58.601 33.333 0.00 0.00 45.83 1.52
696 704 7.179160 CAGATGAAAGGAGGAAATAACCCTTTT 59.821 37.037 0.00 0.00 45.83 2.27
698 706 6.190587 CAGATGAAAGGAGGAAATAACCCTT 58.809 40.000 0.00 0.00 40.46 3.95
699 707 5.760131 CAGATGAAAGGAGGAAATAACCCT 58.240 41.667 0.00 0.00 36.57 4.34
700 708 4.339530 GCAGATGAAAGGAGGAAATAACCC 59.660 45.833 0.00 0.00 0.00 4.11
701 709 4.339530 GGCAGATGAAAGGAGGAAATAACC 59.660 45.833 0.00 0.00 0.00 2.85
702 710 5.196695 AGGCAGATGAAAGGAGGAAATAAC 58.803 41.667 0.00 0.00 0.00 1.89
703 711 5.456921 AGGCAGATGAAAGGAGGAAATAA 57.543 39.130 0.00 0.00 0.00 1.40
704 712 6.575244 TTAGGCAGATGAAAGGAGGAAATA 57.425 37.500 0.00 0.00 0.00 1.40
705 713 5.456921 TTAGGCAGATGAAAGGAGGAAAT 57.543 39.130 0.00 0.00 0.00 2.17
706 714 4.927267 TTAGGCAGATGAAAGGAGGAAA 57.073 40.909 0.00 0.00 0.00 3.13
707 715 6.770286 ATATTAGGCAGATGAAAGGAGGAA 57.230 37.500 0.00 0.00 0.00 3.36
708 716 8.454859 AATATATTAGGCAGATGAAAGGAGGA 57.545 34.615 0.00 0.00 0.00 3.71
801 809 5.277154 CGTTAAATTCGTGTGTGAAAGGAGT 60.277 40.000 0.00 0.00 0.00 3.85
874 882 9.550811 AACGTGTTTTTCAAGACTAACTTTAAG 57.449 29.630 0.00 0.00 36.61 1.85
885 1797 2.619646 GGGCCTAACGTGTTTTTCAAGA 59.380 45.455 0.84 0.00 0.00 3.02
888 1800 2.351706 AGGGCCTAACGTGTTTTTCA 57.648 45.000 2.82 0.00 0.00 2.69
913 1825 9.854668 GCTACTCACTCCTTCCATCTATATATA 57.145 37.037 0.00 0.00 0.00 0.86
932 2758 0.684479 ATGGTCCAGCGAGCTACTCA 60.684 55.000 0.00 0.00 37.40 3.41
945 2771 2.043953 GGGGTGCCAAGATGGTCC 60.044 66.667 0.00 1.87 40.46 4.46
948 2774 2.757099 GCAGGGGTGCCAAGATGG 60.757 66.667 0.00 0.00 41.55 3.51
957 2783 4.421515 CAGAGCAGGGCAGGGGTG 62.422 72.222 0.00 0.00 0.00 4.61
966 2792 4.834453 CGGCAGAGGCAGAGCAGG 62.834 72.222 0.00 0.00 43.71 4.85
970 2796 3.719883 CTCAGCGGCAGAGGCAGAG 62.720 68.421 13.97 0.47 43.71 3.35
979 2805 2.580815 CAGATCACCTCAGCGGCA 59.419 61.111 1.45 0.00 35.61 5.69
1069 2895 2.822701 GGTAAAAGGAGCGCGGGG 60.823 66.667 8.83 0.00 0.00 5.73
1080 2906 0.906775 CCGGTAGGCTCTGGGTAAAA 59.093 55.000 0.00 0.00 0.00 1.52
1081 2907 0.979187 CCCGGTAGGCTCTGGGTAAA 60.979 60.000 17.83 0.00 46.12 2.01
1082 2908 1.382146 CCCGGTAGGCTCTGGGTAA 60.382 63.158 17.83 0.00 46.12 2.85
1083 2909 2.281091 CCCGGTAGGCTCTGGGTA 59.719 66.667 17.83 0.00 46.12 3.69
1894 3835 2.433838 CTCAGCACGTCCAGCCTG 60.434 66.667 0.00 0.00 0.00 4.85
1895 3836 4.385405 GCTCAGCACGTCCAGCCT 62.385 66.667 0.00 0.00 0.00 4.58
2006 3969 2.097038 CGTCCGGCTGCAAGAGAAG 61.097 63.158 0.50 0.00 34.07 2.85
2084 4050 1.183030 TCTGGCTTCGAGTTCCCGAA 61.183 55.000 0.00 0.00 45.01 4.30
2085 4051 1.595993 CTCTGGCTTCGAGTTCCCGA 61.596 60.000 0.00 0.00 36.70 5.14
2090 4056 0.667792 GAACGCTCTGGCTTCGAGTT 60.668 55.000 0.00 0.00 36.09 3.01
2091 4057 1.080434 GAACGCTCTGGCTTCGAGT 60.080 57.895 0.00 0.00 36.09 4.18
2194 4213 5.005490 GGAACGAGAACGATAGATTTGTTCC 59.995 44.000 4.74 4.74 46.19 3.62
2195 4214 5.005490 GGGAACGAGAACGATAGATTTGTTC 59.995 44.000 0.00 0.00 45.61 3.18
2217 4288 9.277783 CATAAAAGAAACTGATACTCCTATGGG 57.722 37.037 0.00 0.00 0.00 4.00
2227 4298 9.241919 TGCCTTTCATCATAAAAGAAACTGATA 57.758 29.630 0.00 0.00 36.09 2.15
2229 4300 7.231317 AGTGCCTTTCATCATAAAAGAAACTGA 59.769 33.333 0.00 0.00 36.09 3.41
2230 4301 7.373493 AGTGCCTTTCATCATAAAAGAAACTG 58.627 34.615 0.00 0.00 36.09 3.16
2232 4303 6.808704 GGAGTGCCTTTCATCATAAAAGAAAC 59.191 38.462 0.00 0.00 36.09 2.78
2234 4305 5.418840 GGGAGTGCCTTTCATCATAAAAGAA 59.581 40.000 0.00 0.00 36.09 2.52
2235 4306 4.949856 GGGAGTGCCTTTCATCATAAAAGA 59.050 41.667 0.00 0.00 36.09 2.52
2236 4307 4.201950 CGGGAGTGCCTTTCATCATAAAAG 60.202 45.833 0.00 0.00 34.25 2.27
2241 4313 0.749454 GCGGGAGTGCCTTTCATCAT 60.749 55.000 0.00 0.00 0.00 2.45
2243 4315 2.464459 CGCGGGAGTGCCTTTCATC 61.464 63.158 0.00 0.00 0.00 2.92
2261 5914 2.682856 TCCAGTGTTCAGTGAAAGCAAC 59.317 45.455 7.25 4.34 0.00 4.17
2343 5999 1.754226 GTTTGTTCTTCTTGCCACCCA 59.246 47.619 0.00 0.00 0.00 4.51
2348 6004 3.105937 GTTGTCGTTTGTTCTTCTTGCC 58.894 45.455 0.00 0.00 0.00 4.52
2370 6026 3.058224 CCTGGAAAGATTTTGACGGTCAC 60.058 47.826 10.97 0.00 0.00 3.67
2374 6030 5.414454 TGATAACCTGGAAAGATTTTGACGG 59.586 40.000 0.00 0.00 0.00 4.79
2377 6033 6.569610 GCGTTGATAACCTGGAAAGATTTTGA 60.570 38.462 0.00 0.00 0.00 2.69
2428 6084 5.297776 AGTCTATCTGTTGTTATGCCATTGC 59.702 40.000 0.00 0.00 38.26 3.56
2432 6088 4.191544 GCAGTCTATCTGTTGTTATGCCA 58.808 43.478 0.00 0.00 45.23 4.92
2484 6143 5.404968 TCGGTTTTGCAAATTTCTATGCTTG 59.595 36.000 13.65 0.00 42.97 4.01
2506 6165 1.954362 CTCTCCTTGGCTGGACCTCG 61.954 65.000 0.00 0.00 40.22 4.63
2533 6192 3.215151 GCCCAAGGGAACTAATTCTAGC 58.785 50.000 9.92 0.00 42.68 3.42
2536 6195 2.919602 TCTGCCCAAGGGAACTAATTCT 59.080 45.455 9.92 0.00 42.68 2.40
2543 6202 2.579410 TTAAGTCTGCCCAAGGGAAC 57.421 50.000 9.92 3.55 37.50 3.62
2548 6207 3.119708 GCAGTGAATTAAGTCTGCCCAAG 60.120 47.826 4.35 0.00 44.84 3.61
2564 6235 8.683615 TTCTATTTAGAAATCTAGACGCAGTGA 58.316 33.333 0.00 0.00 39.38 3.41
2600 6277 9.612620 GCCATTGTATAAAATCCGAATCTAAAG 57.387 33.333 0.00 0.00 0.00 1.85
2662 6339 2.311688 ATCAGCGTTCCCGGTCATCC 62.312 60.000 0.00 0.00 44.18 3.51
2678 6355 3.011818 CAAGCAGTGATACTTGCCATCA 58.988 45.455 0.00 0.00 37.11 3.07
2682 6359 2.159462 GCTTCAAGCAGTGATACTTGCC 60.159 50.000 3.89 0.00 42.41 4.52
2684 6361 2.475187 GCGCTTCAAGCAGTGATACTTG 60.475 50.000 10.73 0.00 42.58 3.16
2686 6363 1.066573 AGCGCTTCAAGCAGTGATACT 60.067 47.619 10.73 0.00 42.58 2.12
2688 6365 1.362768 CAGCGCTTCAAGCAGTGATA 58.637 50.000 7.50 0.00 42.58 2.15
2712 6389 8.960591 CCACAGGTATCTGAATAAATCTTTGTT 58.039 33.333 10.76 0.00 43.49 2.83
2729 6406 4.832266 TCTTGTTTGAAATGCCACAGGTAT 59.168 37.500 0.00 0.00 0.00 2.73
2730 6407 4.211125 TCTTGTTTGAAATGCCACAGGTA 58.789 39.130 0.00 0.00 0.00 3.08
2732 6409 3.645884 CTCTTGTTTGAAATGCCACAGG 58.354 45.455 0.00 0.00 0.00 4.00
2942 6621 5.725110 TTGTTTATGCGCATTGTGTTTTT 57.275 30.435 30.42 3.47 0.00 1.94
2946 6625 6.135290 AGATATTGTTTATGCGCATTGTGT 57.865 33.333 30.42 7.00 0.00 3.72
2947 6626 6.692249 TGAAGATATTGTTTATGCGCATTGTG 59.308 34.615 30.42 0.00 0.00 3.33
2948 6627 6.794374 TGAAGATATTGTTTATGCGCATTGT 58.206 32.000 30.42 7.91 0.00 2.71
2949 6628 7.862741 ATGAAGATATTGTTTATGCGCATTG 57.137 32.000 30.42 0.00 0.00 2.82
2981 6660 9.905713 TTATTTTCCTGTTATGAAGATGCTACT 57.094 29.630 0.00 0.00 0.00 2.57
3012 6691 7.744087 TGTTGCAGTTTATGTAATTGAGTCT 57.256 32.000 0.00 0.00 35.84 3.24
3013 6692 8.076178 ACTTGTTGCAGTTTATGTAATTGAGTC 58.924 33.333 0.00 0.00 35.84 3.36
3015 6694 7.326789 CCACTTGTTGCAGTTTATGTAATTGAG 59.673 37.037 0.00 0.00 35.84 3.02
3016 6695 7.144661 CCACTTGTTGCAGTTTATGTAATTGA 58.855 34.615 0.00 0.00 35.84 2.57
3017 6696 6.922957 ACCACTTGTTGCAGTTTATGTAATTG 59.077 34.615 0.00 0.00 35.84 2.32
3019 6698 6.040391 ACACCACTTGTTGCAGTTTATGTAAT 59.960 34.615 0.00 0.00 35.84 1.89
3020 6699 5.358442 ACACCACTTGTTGCAGTTTATGTAA 59.642 36.000 0.00 0.00 33.09 2.41
3061 6740 6.531503 TTTTGTTTGTGGTAGGAAATGTGA 57.468 33.333 0.00 0.00 0.00 3.58
3123 7363 8.746052 TCGGTGAATATTGGTTTGAGAATATT 57.254 30.769 0.00 0.00 37.42 1.28
3152 7392 4.759693 TGTCGCTCATTTAATGTTTCACCT 59.240 37.500 4.77 0.00 0.00 4.00
3176 7416 5.864418 ATACCGATTGCTTACTCCTTGTA 57.136 39.130 0.00 0.00 0.00 2.41
3177 7417 4.755266 ATACCGATTGCTTACTCCTTGT 57.245 40.909 0.00 0.00 0.00 3.16
3182 7422 5.346281 GCATCACTATACCGATTGCTTACTC 59.654 44.000 0.00 0.00 0.00 2.59
3184 7424 5.230942 AGCATCACTATACCGATTGCTTAC 58.769 41.667 0.00 0.00 0.00 2.34
3189 7429 5.392767 AGGTAGCATCACTATACCGATTG 57.607 43.478 0.00 0.00 43.12 2.67
3194 7434 8.123639 TCATCTAAAGGTAGCATCACTATACC 57.876 38.462 0.00 0.00 39.44 2.73


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

AutoCloner maintained by Alex Coulton.