Multiple sequence alignment - TraesCS7A01G233500

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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 TraesCS7A01G233500 chr7A 100.000 4457 0 0 1 4457 205453902 205458358 0.000000e+00 8231.0
1 TraesCS7A01G233500 chr7D 93.818 3219 108 21 1285 4456 195619162 195622336 0.000000e+00 4758.0
2 TraesCS7A01G233500 chr7D 92.484 479 22 5 824 1289 195615389 195615866 0.000000e+00 673.0
3 TraesCS7A01G233500 chr7D 87.923 207 21 4 624 827 629136625 629136830 1.600000e-59 241.0
4 TraesCS7A01G233500 chr7B 94.047 2822 106 18 1691 4456 159506280 159509095 0.000000e+00 4224.0
5 TraesCS7A01G233500 chr7B 94.109 679 37 3 823 1501 159505483 159506158 0.000000e+00 1029.0
6 TraesCS7A01G233500 chr7B 97.531 81 0 1 1613 1693 159506157 159506235 2.160000e-28 137.0
7 TraesCS7A01G233500 chr7B 100.000 29 0 0 1465 1493 742481562 742481534 2.000000e-03 54.7
8 TraesCS7A01G233500 chr5D 93.966 580 34 1 3 581 121186683 121187262 0.000000e+00 876.0
9 TraesCS7A01G233500 chr5D 92.388 578 44 0 3 580 30102101 30102678 0.000000e+00 824.0
10 TraesCS7A01G233500 chr5D 92.083 581 42 4 3 580 34963883 34964462 0.000000e+00 815.0
11 TraesCS7A01G233500 chr5D 86.567 201 25 1 627 825 142541195 142540995 2.090000e-53 220.0
12 TraesCS7A01G233500 chr3A 93.482 583 37 1 1 582 59849669 59849087 0.000000e+00 865.0
13 TraesCS7A01G233500 chr3A 86.893 206 24 3 627 829 297259575 297259370 1.250000e-55 228.0
14 TraesCS7A01G233500 chr6D 93.115 581 37 3 1 580 360312104 360312682 0.000000e+00 848.0
15 TraesCS7A01G233500 chr6D 87.310 197 23 2 629 823 60237783 60237979 1.610000e-54 224.0
16 TraesCS7A01G233500 chr6D 86.634 202 24 3 627 826 114787192 114786992 2.090000e-53 220.0
17 TraesCS7A01G233500 chr6D 86.802 197 24 2 629 823 269564369 269564565 7.510000e-53 219.0
18 TraesCS7A01G233500 chr6D 100.000 29 0 0 1465 1493 276910911 276910883 2.000000e-03 54.7
19 TraesCS7A01G233500 chr3D 94.824 541 26 2 43 581 89809487 89810027 0.000000e+00 843.0
20 TraesCS7A01G233500 chr3D 94.485 544 27 3 39 580 188821095 188820553 0.000000e+00 835.0
21 TraesCS7A01G233500 chr3D 91.924 582 45 2 1 580 462654619 462655200 0.000000e+00 813.0
22 TraesCS7A01G233500 chr4A 92.650 585 41 2 1 584 566302139 566301556 0.000000e+00 841.0
23 TraesCS7A01G233500 chr2B 86.634 202 23 4 627 825 50294517 50294717 2.090000e-53 220.0
24 TraesCS7A01G233500 chr2B 100.000 29 0 0 1465 1493 571714499 571714527 2.000000e-03 54.7
25 TraesCS7A01G233500 chr4D 86.432 199 24 3 629 825 118311034 118311231 9.710000e-52 215.0
26 TraesCS7A01G233500 chr1D 85.714 203 27 2 627 827 399037890 399037688 3.490000e-51 213.0
27 TraesCS7A01G233500 chr6B 100.000 29 0 0 1465 1493 460089059 460089031 2.000000e-03 54.7
28 TraesCS7A01G233500 chr5B 90.476 42 3 1 1465 1505 408983269 408983228 2.000000e-03 54.7


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 TraesCS7A01G233500 chr7A 205453902 205458358 4456 False 8231.000000 8231 100.000 1 4457 1 chr7A.!!$F1 4456
1 TraesCS7A01G233500 chr7D 195615389 195622336 6947 False 2715.500000 4758 93.151 824 4456 2 chr7D.!!$F2 3632
2 TraesCS7A01G233500 chr7B 159505483 159509095 3612 False 1796.666667 4224 95.229 823 4456 3 chr7B.!!$F1 3633
3 TraesCS7A01G233500 chr5D 121186683 121187262 579 False 876.000000 876 93.966 3 581 1 chr5D.!!$F3 578
4 TraesCS7A01G233500 chr5D 30102101 30102678 577 False 824.000000 824 92.388 3 580 1 chr5D.!!$F1 577
5 TraesCS7A01G233500 chr5D 34963883 34964462 579 False 815.000000 815 92.083 3 580 1 chr5D.!!$F2 577
6 TraesCS7A01G233500 chr3A 59849087 59849669 582 True 865.000000 865 93.482 1 582 1 chr3A.!!$R1 581
7 TraesCS7A01G233500 chr6D 360312104 360312682 578 False 848.000000 848 93.115 1 580 1 chr6D.!!$F3 579
8 TraesCS7A01G233500 chr3D 89809487 89810027 540 False 843.000000 843 94.824 43 581 1 chr3D.!!$F1 538
9 TraesCS7A01G233500 chr3D 188820553 188821095 542 True 835.000000 835 94.485 39 580 1 chr3D.!!$R1 541
10 TraesCS7A01G233500 chr3D 462654619 462655200 581 False 813.000000 813 91.924 1 580 1 chr3D.!!$F2 579
11 TraesCS7A01G233500 chr4A 566301556 566302139 583 True 841.000000 841 92.650 1 584 1 chr4A.!!$R1 583

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
973 984 0.319555 TCTCCGTTCTGTTCTTGCCG 60.320 55.000 0.00 0.00 0.00 5.69 F
1584 4909 0.179059 GCTAGAGCAAGGAGCCCTTC 60.179 60.000 3.71 1.02 42.67 3.46 F
1855 5227 1.145738 AGGAGGTGGCAAGTCAACAAT 59.854 47.619 0.00 0.00 0.00 2.71 F
3008 6389 0.179084 TAGGAATCTTTGCGGCGGAG 60.179 55.000 9.78 0.00 0.00 4.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1828 5200 0.954452 CTTGCCACCTCCTTGTGAAC 59.046 55.000 0.00 0.0 38.55 3.18 R
3008 6389 0.971386 TGTAGGTTCCCACGTCTTCC 59.029 55.000 0.00 0.0 0.00 3.46 R
3071 6452 3.780294 TGTTACTTGGTGGCCTCAGATAT 59.220 43.478 3.32 0.0 0.00 1.63 R
4404 7830 0.246360 CAAGGTTGGGGCCGAAATTC 59.754 55.000 1.31 0.0 0.00 2.17 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
97 98 1.745320 ATCCGCCCTTACTACCGCAG 61.745 60.000 0.00 0.00 0.00 5.18
276 281 6.689554 TCAGCAATCAAGACATTTTGCATAA 58.310 32.000 8.92 0.00 45.26 1.90
331 337 1.460273 GGAAAGGCGGTGCAAAGGAA 61.460 55.000 0.00 0.00 0.00 3.36
355 361 5.282055 AGACGTGTATGTGATGATTCCAT 57.718 39.130 0.00 0.00 35.29 3.41
382 388 2.014033 TTTCCAAAGCGGACCCCCTT 62.014 55.000 0.00 0.00 46.36 3.95
409 415 2.119801 TACGGCTTTCCTACGACTCT 57.880 50.000 0.00 0.00 0.00 3.24
443 452 4.445452 AGAAACATAGAGAAACGCCGTA 57.555 40.909 0.00 0.00 0.00 4.02
584 594 5.048013 GGGATAAATATGCCCTTACAACTGC 60.048 44.000 0.00 0.00 38.14 4.40
585 595 5.534654 GGATAAATATGCCCTTACAACTGCA 59.465 40.000 0.00 0.00 38.23 4.41
586 596 6.040391 GGATAAATATGCCCTTACAACTGCAA 59.960 38.462 0.00 0.00 37.27 4.08
587 597 4.718940 AATATGCCCTTACAACTGCAAC 57.281 40.909 0.00 0.00 37.27 4.17
588 598 1.993956 ATGCCCTTACAACTGCAACA 58.006 45.000 0.00 0.00 37.27 3.33
589 599 1.769026 TGCCCTTACAACTGCAACAA 58.231 45.000 0.00 0.00 0.00 2.83
590 600 2.103373 TGCCCTTACAACTGCAACAAA 58.897 42.857 0.00 0.00 0.00 2.83
591 601 2.497675 TGCCCTTACAACTGCAACAAAA 59.502 40.909 0.00 0.00 0.00 2.44
592 602 3.055819 TGCCCTTACAACTGCAACAAAAA 60.056 39.130 0.00 0.00 0.00 1.94
643 653 6.808321 AGTCTATTAGGCCTTGTACAATGA 57.192 37.500 12.58 2.13 0.00 2.57
644 654 6.821388 AGTCTATTAGGCCTTGTACAATGAG 58.179 40.000 12.58 5.70 0.00 2.90
645 655 6.611642 AGTCTATTAGGCCTTGTACAATGAGA 59.388 38.462 12.58 5.57 0.00 3.27
646 656 6.926272 GTCTATTAGGCCTTGTACAATGAGAG 59.074 42.308 12.58 0.00 0.00 3.20
647 657 5.957771 ATTAGGCCTTGTACAATGAGAGA 57.042 39.130 12.58 0.00 0.00 3.10
648 658 5.957771 TTAGGCCTTGTACAATGAGAGAT 57.042 39.130 12.58 0.00 0.00 2.75
649 659 4.148128 AGGCCTTGTACAATGAGAGATG 57.852 45.455 14.26 0.00 0.00 2.90
650 660 3.521126 AGGCCTTGTACAATGAGAGATGT 59.479 43.478 14.26 0.00 0.00 3.06
651 661 4.018960 AGGCCTTGTACAATGAGAGATGTT 60.019 41.667 14.26 0.00 0.00 2.71
652 662 4.702131 GGCCTTGTACAATGAGAGATGTTT 59.298 41.667 14.26 0.00 0.00 2.83
653 663 5.880332 GGCCTTGTACAATGAGAGATGTTTA 59.120 40.000 14.26 0.00 0.00 2.01
654 664 6.374333 GGCCTTGTACAATGAGAGATGTTTAA 59.626 38.462 14.26 0.00 0.00 1.52
655 665 7.094377 GGCCTTGTACAATGAGAGATGTTTAAA 60.094 37.037 14.26 0.00 0.00 1.52
656 666 7.965107 GCCTTGTACAATGAGAGATGTTTAAAG 59.035 37.037 14.26 0.00 0.00 1.85
657 667 8.454106 CCTTGTACAATGAGAGATGTTTAAAGG 58.546 37.037 9.13 0.00 31.65 3.11
658 668 7.921786 TGTACAATGAGAGATGTTTAAAGGG 57.078 36.000 0.00 0.00 0.00 3.95
659 669 6.884295 TGTACAATGAGAGATGTTTAAAGGGG 59.116 38.462 0.00 0.00 0.00 4.79
660 670 5.892348 ACAATGAGAGATGTTTAAAGGGGT 58.108 37.500 0.00 0.00 0.00 4.95
661 671 5.711976 ACAATGAGAGATGTTTAAAGGGGTG 59.288 40.000 0.00 0.00 0.00 4.61
662 672 3.686016 TGAGAGATGTTTAAAGGGGTGC 58.314 45.455 0.00 0.00 0.00 5.01
663 673 3.330701 TGAGAGATGTTTAAAGGGGTGCT 59.669 43.478 0.00 0.00 0.00 4.40
664 674 4.202567 TGAGAGATGTTTAAAGGGGTGCTT 60.203 41.667 0.00 0.00 0.00 3.91
665 675 5.013704 TGAGAGATGTTTAAAGGGGTGCTTA 59.986 40.000 0.00 0.00 0.00 3.09
666 676 5.501156 AGAGATGTTTAAAGGGGTGCTTAG 58.499 41.667 0.00 0.00 0.00 2.18
667 677 5.250774 AGAGATGTTTAAAGGGGTGCTTAGA 59.749 40.000 0.00 0.00 0.00 2.10
668 678 5.887754 AGATGTTTAAAGGGGTGCTTAGAA 58.112 37.500 0.00 0.00 0.00 2.10
669 679 6.311735 AGATGTTTAAAGGGGTGCTTAGAAA 58.688 36.000 0.00 0.00 0.00 2.52
670 680 6.780522 AGATGTTTAAAGGGGTGCTTAGAAAA 59.219 34.615 0.00 0.00 0.00 2.29
671 681 6.793505 TGTTTAAAGGGGTGCTTAGAAAAA 57.206 33.333 0.00 0.00 0.00 1.94
672 682 7.368198 TGTTTAAAGGGGTGCTTAGAAAAAT 57.632 32.000 0.00 0.00 0.00 1.82
673 683 8.480133 TGTTTAAAGGGGTGCTTAGAAAAATA 57.520 30.769 0.00 0.00 0.00 1.40
674 684 8.925338 TGTTTAAAGGGGTGCTTAGAAAAATAA 58.075 29.630 0.00 0.00 0.00 1.40
675 685 9.767228 GTTTAAAGGGGTGCTTAGAAAAATAAA 57.233 29.630 0.00 0.00 0.00 1.40
697 707 7.420184 AAATTAAAATTTTCTGAAGCACCGG 57.580 32.000 6.72 0.00 35.16 5.28
698 708 5.523438 TTAAAATTTTCTGAAGCACCGGT 57.477 34.783 6.72 0.00 0.00 5.28
699 709 3.369546 AAATTTTCTGAAGCACCGGTG 57.630 42.857 30.66 30.66 0.00 4.94
711 721 2.684001 CACCGGTGCCTATTTCTACA 57.316 50.000 24.02 0.00 0.00 2.74
712 722 2.550978 CACCGGTGCCTATTTCTACAG 58.449 52.381 24.02 0.00 0.00 2.74
713 723 2.167693 CACCGGTGCCTATTTCTACAGA 59.832 50.000 24.02 0.00 0.00 3.41
714 724 2.835764 ACCGGTGCCTATTTCTACAGAA 59.164 45.455 6.12 0.00 0.00 3.02
715 725 3.118738 ACCGGTGCCTATTTCTACAGAAG 60.119 47.826 6.12 0.00 35.21 2.85
716 726 3.132289 CCGGTGCCTATTTCTACAGAAGA 59.868 47.826 0.00 0.00 35.21 2.87
717 727 4.363999 CGGTGCCTATTTCTACAGAAGAG 58.636 47.826 0.00 0.00 35.05 2.85
718 728 4.098044 CGGTGCCTATTTCTACAGAAGAGA 59.902 45.833 5.12 0.00 35.05 3.10
719 729 5.221342 CGGTGCCTATTTCTACAGAAGAGAT 60.221 44.000 5.12 0.00 35.05 2.75
720 730 5.988561 GGTGCCTATTTCTACAGAAGAGATG 59.011 44.000 5.12 0.00 35.05 2.90
721 731 5.465056 GTGCCTATTTCTACAGAAGAGATGC 59.535 44.000 5.12 0.00 35.05 3.91
722 732 5.365025 TGCCTATTTCTACAGAAGAGATGCT 59.635 40.000 5.12 0.00 35.05 3.79
723 733 6.126940 TGCCTATTTCTACAGAAGAGATGCTT 60.127 38.462 5.12 0.00 40.25 3.91
724 734 7.069950 TGCCTATTTCTACAGAAGAGATGCTTA 59.930 37.037 5.12 0.00 36.83 3.09
725 735 7.383843 GCCTATTTCTACAGAAGAGATGCTTAC 59.616 40.741 5.12 0.00 36.83 2.34
726 736 8.637986 CCTATTTCTACAGAAGAGATGCTTACT 58.362 37.037 5.12 0.00 36.83 2.24
730 740 9.862371 TTTCTACAGAAGAGATGCTTACTTAAG 57.138 33.333 0.00 0.00 36.83 1.85
731 741 8.582657 TCTACAGAAGAGATGCTTACTTAAGT 57.417 34.615 13.68 13.68 36.83 2.24
732 742 8.462811 TCTACAGAAGAGATGCTTACTTAAGTG 58.537 37.037 18.56 3.44 36.83 3.16
733 743 6.998802 ACAGAAGAGATGCTTACTTAAGTGT 58.001 36.000 18.56 0.00 36.83 3.55
734 744 7.093992 ACAGAAGAGATGCTTACTTAAGTGTC 58.906 38.462 18.56 7.40 36.83 3.67
735 745 7.039363 ACAGAAGAGATGCTTACTTAAGTGTCT 60.039 37.037 18.56 12.30 36.83 3.41
736 746 8.462811 CAGAAGAGATGCTTACTTAAGTGTCTA 58.537 37.037 18.56 2.92 36.83 2.59
737 747 8.463607 AGAAGAGATGCTTACTTAAGTGTCTAC 58.536 37.037 18.56 5.58 36.83 2.59
738 748 7.948034 AGAGATGCTTACTTAAGTGTCTACT 57.052 36.000 18.56 9.91 39.32 2.57
739 749 7.992008 AGAGATGCTTACTTAAGTGTCTACTC 58.008 38.462 18.56 16.75 35.69 2.59
740 750 7.067737 AGAGATGCTTACTTAAGTGTCTACTCC 59.932 40.741 18.56 2.58 35.69 3.85
741 751 5.306532 TGCTTACTTAAGTGTCTACTCCG 57.693 43.478 18.56 0.00 35.69 4.63
742 752 4.763793 TGCTTACTTAAGTGTCTACTCCGT 59.236 41.667 18.56 0.00 35.69 4.69
743 753 5.939883 TGCTTACTTAAGTGTCTACTCCGTA 59.060 40.000 18.56 0.00 35.69 4.02
744 754 6.128172 TGCTTACTTAAGTGTCTACTCCGTAC 60.128 42.308 18.56 0.00 35.69 3.67
745 755 6.128172 GCTTACTTAAGTGTCTACTCCGTACA 60.128 42.308 18.56 0.00 35.69 2.90
746 756 7.573843 GCTTACTTAAGTGTCTACTCCGTACAA 60.574 40.741 18.56 0.00 35.69 2.41
747 757 6.639632 ACTTAAGTGTCTACTCCGTACAAA 57.360 37.500 7.48 0.00 35.69 2.83
748 758 7.224522 ACTTAAGTGTCTACTCCGTACAAAT 57.775 36.000 7.48 0.00 35.69 2.32
749 759 8.340618 ACTTAAGTGTCTACTCCGTACAAATA 57.659 34.615 7.48 0.00 35.69 1.40
750 760 8.796475 ACTTAAGTGTCTACTCCGTACAAATAA 58.204 33.333 7.48 0.00 35.69 1.40
751 761 9.286946 CTTAAGTGTCTACTCCGTACAAATAAG 57.713 37.037 0.00 0.00 35.69 1.73
752 762 5.648572 AGTGTCTACTCCGTACAAATAAGC 58.351 41.667 0.00 0.00 28.79 3.09
753 763 5.184479 AGTGTCTACTCCGTACAAATAAGCA 59.816 40.000 0.00 0.00 28.79 3.91
754 764 6.040878 GTGTCTACTCCGTACAAATAAGCAT 58.959 40.000 0.00 0.00 0.00 3.79
755 765 6.198591 GTGTCTACTCCGTACAAATAAGCATC 59.801 42.308 0.00 0.00 0.00 3.91
756 766 5.398711 GTCTACTCCGTACAAATAAGCATCG 59.601 44.000 0.00 0.00 0.00 3.84
757 767 3.454375 ACTCCGTACAAATAAGCATCGG 58.546 45.455 0.00 0.00 38.16 4.18
758 768 3.118884 ACTCCGTACAAATAAGCATCGGT 60.119 43.478 0.00 0.00 38.04 4.69
759 769 3.191669 TCCGTACAAATAAGCATCGGTG 58.808 45.455 0.00 0.00 38.04 4.94
800 810 9.720769 TTTATTTGTCTAACCACCTTCTCTAAG 57.279 33.333 0.00 0.00 0.00 2.18
801 811 4.803098 TGTCTAACCACCTTCTCTAAGC 57.197 45.455 0.00 0.00 0.00 3.09
802 812 4.157246 TGTCTAACCACCTTCTCTAAGCA 58.843 43.478 0.00 0.00 0.00 3.91
803 813 4.021368 TGTCTAACCACCTTCTCTAAGCAC 60.021 45.833 0.00 0.00 0.00 4.40
804 814 2.861147 AACCACCTTCTCTAAGCACC 57.139 50.000 0.00 0.00 0.00 5.01
805 815 2.031495 ACCACCTTCTCTAAGCACCT 57.969 50.000 0.00 0.00 0.00 4.00
806 816 1.903183 ACCACCTTCTCTAAGCACCTC 59.097 52.381 0.00 0.00 0.00 3.85
807 817 1.208293 CCACCTTCTCTAAGCACCTCC 59.792 57.143 0.00 0.00 0.00 4.30
808 818 1.902508 CACCTTCTCTAAGCACCTCCA 59.097 52.381 0.00 0.00 0.00 3.86
809 819 2.303022 CACCTTCTCTAAGCACCTCCAA 59.697 50.000 0.00 0.00 0.00 3.53
810 820 3.054802 CACCTTCTCTAAGCACCTCCAAT 60.055 47.826 0.00 0.00 0.00 3.16
811 821 3.589288 ACCTTCTCTAAGCACCTCCAATT 59.411 43.478 0.00 0.00 0.00 2.32
812 822 3.944015 CCTTCTCTAAGCACCTCCAATTG 59.056 47.826 0.00 0.00 0.00 2.32
813 823 2.991250 TCTCTAAGCACCTCCAATTGC 58.009 47.619 0.00 0.00 39.16 3.56
814 824 2.305635 TCTCTAAGCACCTCCAATTGCA 59.694 45.455 0.00 0.00 41.48 4.08
815 825 2.421424 CTCTAAGCACCTCCAATTGCAC 59.579 50.000 0.00 0.00 41.48 4.57
816 826 2.161855 CTAAGCACCTCCAATTGCACA 58.838 47.619 0.00 0.00 41.48 4.57
817 827 0.963962 AAGCACCTCCAATTGCACAG 59.036 50.000 0.00 0.00 41.48 3.66
818 828 0.896940 AGCACCTCCAATTGCACAGG 60.897 55.000 12.52 12.52 41.48 4.00
819 829 1.880819 GCACCTCCAATTGCACAGGG 61.881 60.000 16.54 9.02 38.68 4.45
820 830 1.607467 ACCTCCAATTGCACAGGGC 60.607 57.895 16.54 0.00 45.13 5.19
821 831 2.353610 CCTCCAATTGCACAGGGCC 61.354 63.158 0.00 0.00 43.89 5.80
825 835 0.819582 CCAATTGCACAGGGCCTTAG 59.180 55.000 1.32 0.00 43.89 2.18
838 848 1.452108 CCTTAGGCCGCCTTCCTTG 60.452 63.158 19.35 3.72 34.61 3.61
921 931 3.882888 CCACTTCACTGCACTTTTCCTTA 59.117 43.478 0.00 0.00 0.00 2.69
930 940 9.691362 TCACTGCACTTTTCCTTATTTATTTTC 57.309 29.630 0.00 0.00 0.00 2.29
973 984 0.319555 TCTCCGTTCTGTTCTTGCCG 60.320 55.000 0.00 0.00 0.00 5.69
1010 1021 2.125673 GCTGTACATGGCGTCGGT 60.126 61.111 0.00 0.00 0.00 4.69
1213 1224 2.273179 AAGGTCAGCAGCCGTCGTA 61.273 57.895 0.00 0.00 0.00 3.43
1234 1255 6.263392 TCGTACTCTTCTTATCCAGATCCTTG 59.737 42.308 0.00 0.00 0.00 3.61
1252 1273 6.365970 TCCTTGCTCTGTTTTTATCTCTCT 57.634 37.500 0.00 0.00 0.00 3.10
1274 1295 7.664318 TCTCTTTTTATGAAAGTTAGTGGGTCC 59.336 37.037 4.08 0.00 0.00 4.46
1307 4632 1.360852 AGGATGGTGCCATTTTGGGTA 59.639 47.619 5.08 0.00 38.19 3.69
1505 4830 8.166422 AGCCCGGTTAAAATAGATAAATTCAG 57.834 34.615 0.00 0.00 0.00 3.02
1525 4850 6.219417 TCAGCAAGACAAAAATCAAGGAAA 57.781 33.333 0.00 0.00 0.00 3.13
1584 4909 0.179059 GCTAGAGCAAGGAGCCCTTC 60.179 60.000 3.71 1.02 42.67 3.46
1601 4926 4.009675 CCCTTCCATTCTGTTCGATTCAA 58.990 43.478 0.00 0.00 0.00 2.69
1646 4971 7.159372 TGTAAGATGACTTAAAGAACACCCTC 58.841 38.462 0.00 0.00 39.81 4.30
1647 4972 6.441088 AAGATGACTTAAAGAACACCCTCT 57.559 37.500 0.00 0.00 34.28 3.69
1838 5210 7.581213 AAATACTGAAATGTGTTCACAAGGA 57.419 32.000 9.68 0.23 0.00 3.36
1841 5213 3.885297 CTGAAATGTGTTCACAAGGAGGT 59.115 43.478 9.68 0.00 0.00 3.85
1855 5227 1.145738 AGGAGGTGGCAAGTCAACAAT 59.854 47.619 0.00 0.00 0.00 2.71
1861 5233 3.300009 GTGGCAAGTCAACAATCTTTCG 58.700 45.455 0.00 0.00 0.00 3.46
1871 5243 3.837213 ACAATCTTTCGTGCCATTCAG 57.163 42.857 0.00 0.00 0.00 3.02
1883 5255 4.508124 CGTGCCATTCAGGACTAAACTATC 59.492 45.833 0.00 0.00 41.22 2.08
1975 5347 9.347240 ACCTCAAGATATAAGTTTGATTGGATG 57.653 33.333 8.34 0.00 31.11 3.51
2279 5657 9.884636 ATTGATGATTATGCAATAAATGATGGG 57.115 29.630 0.00 0.00 42.96 4.00
2321 5701 3.689649 GTGCACCCTAAACTCTTATGTGG 59.310 47.826 5.22 0.00 0.00 4.17
2699 6080 1.906574 AGTATTCGGTGGGAAAGCTCA 59.093 47.619 0.00 0.00 38.36 4.26
2814 6195 2.047179 GTCACGGAGCCTCCAACC 60.047 66.667 12.13 0.00 35.91 3.77
3008 6389 0.179084 TAGGAATCTTTGCGGCGGAG 60.179 55.000 9.78 0.00 0.00 4.63
3071 6452 4.508405 CCAAGGACCCTGAACAAAATCCTA 60.508 45.833 0.00 0.00 35.49 2.94
3089 6470 2.975489 CCTATATCTGAGGCCACCAAGT 59.025 50.000 5.01 0.00 0.00 3.16
3107 6488 6.208599 CACCAAGTAACACTTTGTCCCATAAT 59.791 38.462 0.00 0.00 36.03 1.28
3193 6574 3.839293 ACGAACTCCTGAAGAAGATTCG 58.161 45.455 0.00 0.00 39.47 3.34
3294 6675 3.427573 TCTCGGGTATGTTTCAGAGTCA 58.572 45.455 0.00 0.00 0.00 3.41
3476 6857 7.381678 CCTTTAAACTCCTAAATCCTATCGTCG 59.618 40.741 0.00 0.00 0.00 5.12
3796 7202 3.129462 TGTCACACGCCAAAAATCTGAAA 59.871 39.130 0.00 0.00 0.00 2.69
3857 7267 7.290813 GGGATCTATTTGAAACCTACTTGGAT 58.709 38.462 0.00 0.00 39.71 3.41
3881 7291 8.641498 ATTTTGGTATGAGATGAAACTTGAGT 57.359 30.769 0.00 0.00 0.00 3.41
3906 7316 4.141642 TGTCATGGTTGATCCTACATCCAG 60.142 45.833 0.00 0.00 41.12 3.86
4076 7486 6.483307 CACCAAAATTCTTAGACACTCACTGA 59.517 38.462 0.00 0.00 0.00 3.41
4162 7572 9.719355 TTTAAATTCTTTTATTTCCTGCCCTTC 57.281 29.630 0.00 0.00 0.00 3.46
4282 7700 2.641321 TCAGCCCCAAGATCATCCTATG 59.359 50.000 0.00 0.00 0.00 2.23
4287 7705 5.553162 AGCCCCAAGATCATCCTATGAAATA 59.447 40.000 0.00 0.00 43.50 1.40
4326 7744 4.329462 TCCAAATTAGCCAAAACACACC 57.671 40.909 0.00 0.00 0.00 4.16
4364 7782 9.547753 GCTTATATTTCTAGACCAGATCAAACA 57.452 33.333 0.00 0.00 31.77 2.83
4404 7830 8.244113 TCATATGCCATATAAGAACTCTGTACG 58.756 37.037 0.00 0.00 0.00 3.67
4411 7837 8.691727 CCATATAAGAACTCTGTACGAATTTCG 58.308 37.037 16.84 16.84 46.93 3.46
4416 7842 0.108041 TCTGTACGAATTTCGGCCCC 60.108 55.000 21.71 7.77 45.59 5.80
4418 7844 0.036448 TGTACGAATTTCGGCCCCAA 59.964 50.000 21.71 0.00 45.59 4.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 2.125912 CTCAGTAGCTTGCGCGGT 60.126 61.111 8.83 0.00 42.32 5.68
86 87 1.179152 TGCTGCTACTGCGGTAGTAA 58.821 50.000 28.96 18.64 46.77 2.24
97 98 2.964389 GCTAGGCGCTGCTGCTAC 60.964 66.667 14.03 6.17 36.97 3.58
231 233 2.110420 GGGGCATGCGGTAGTACC 59.890 66.667 12.44 9.50 34.05 3.34
276 281 4.670765 AGCATCCTCCATCTTTTCTTGTT 58.329 39.130 0.00 0.00 0.00 2.83
331 337 6.405278 TGGAATCATCACATACACGTCTAT 57.595 37.500 0.00 0.00 0.00 1.98
355 361 1.036707 CCGCTTTGGAAAGGTTTGGA 58.963 50.000 1.45 0.00 42.00 3.53
382 388 7.491682 AGTCGTAGGAAAGCCGTATTATTAAA 58.508 34.615 0.00 0.00 39.96 1.52
409 415 7.617225 TCTCTATGTTTCTTTTCGGTGGATTA 58.383 34.615 0.00 0.00 0.00 1.75
443 452 4.141914 GGTGTCCCTCGAAGACTATTGAAT 60.142 45.833 14.41 0.00 35.21 2.57
617 627 9.596308 TCATTGTACAAGGCCTAATAGACTATA 57.404 33.333 15.24 0.00 0.00 1.31
618 628 8.492415 TCATTGTACAAGGCCTAATAGACTAT 57.508 34.615 15.24 0.00 0.00 2.12
619 629 7.783119 TCTCATTGTACAAGGCCTAATAGACTA 59.217 37.037 15.24 0.00 0.00 2.59
620 630 6.611642 TCTCATTGTACAAGGCCTAATAGACT 59.388 38.462 15.24 0.00 0.00 3.24
621 631 6.817184 TCTCATTGTACAAGGCCTAATAGAC 58.183 40.000 15.24 0.47 0.00 2.59
622 632 6.839134 TCTCTCATTGTACAAGGCCTAATAGA 59.161 38.462 15.24 10.41 0.00 1.98
623 633 7.055667 TCTCTCATTGTACAAGGCCTAATAG 57.944 40.000 15.24 6.71 0.00 1.73
624 634 7.071196 ACATCTCTCATTGTACAAGGCCTAATA 59.929 37.037 15.24 0.00 0.00 0.98
625 635 5.957771 TCTCTCATTGTACAAGGCCTAAT 57.042 39.130 15.24 0.00 0.00 1.73
626 636 5.189736 ACATCTCTCATTGTACAAGGCCTAA 59.810 40.000 15.24 0.00 0.00 2.69
627 637 4.716784 ACATCTCTCATTGTACAAGGCCTA 59.283 41.667 15.24 2.63 0.00 3.93
628 638 3.521126 ACATCTCTCATTGTACAAGGCCT 59.479 43.478 15.24 0.00 0.00 5.19
629 639 3.878778 ACATCTCTCATTGTACAAGGCC 58.121 45.455 15.24 0.00 0.00 5.19
630 640 5.886960 AAACATCTCTCATTGTACAAGGC 57.113 39.130 15.24 0.00 0.00 4.35
631 641 8.454106 CCTTTAAACATCTCTCATTGTACAAGG 58.546 37.037 13.96 13.96 0.00 3.61
632 642 8.454106 CCCTTTAAACATCTCTCATTGTACAAG 58.546 37.037 14.65 6.58 0.00 3.16
633 643 7.393234 CCCCTTTAAACATCTCTCATTGTACAA 59.607 37.037 11.41 11.41 0.00 2.41
634 644 6.884295 CCCCTTTAAACATCTCTCATTGTACA 59.116 38.462 0.00 0.00 0.00 2.90
635 645 6.884836 ACCCCTTTAAACATCTCTCATTGTAC 59.115 38.462 0.00 0.00 0.00 2.90
636 646 6.884295 CACCCCTTTAAACATCTCTCATTGTA 59.116 38.462 0.00 0.00 0.00 2.41
637 647 5.711976 CACCCCTTTAAACATCTCTCATTGT 59.288 40.000 0.00 0.00 0.00 2.71
638 648 5.393461 GCACCCCTTTAAACATCTCTCATTG 60.393 44.000 0.00 0.00 0.00 2.82
639 649 4.706962 GCACCCCTTTAAACATCTCTCATT 59.293 41.667 0.00 0.00 0.00 2.57
640 650 4.018050 AGCACCCCTTTAAACATCTCTCAT 60.018 41.667 0.00 0.00 0.00 2.90
641 651 3.330701 AGCACCCCTTTAAACATCTCTCA 59.669 43.478 0.00 0.00 0.00 3.27
642 652 3.956744 AGCACCCCTTTAAACATCTCTC 58.043 45.455 0.00 0.00 0.00 3.20
643 653 4.388577 AAGCACCCCTTTAAACATCTCT 57.611 40.909 0.00 0.00 0.00 3.10
644 654 5.497474 TCTAAGCACCCCTTTAAACATCTC 58.503 41.667 0.00 0.00 34.95 2.75
645 655 5.514500 TCTAAGCACCCCTTTAAACATCT 57.486 39.130 0.00 0.00 34.95 2.90
646 656 6.584185 TTTCTAAGCACCCCTTTAAACATC 57.416 37.500 0.00 0.00 34.95 3.06
647 657 6.987403 TTTTCTAAGCACCCCTTTAAACAT 57.013 33.333 0.00 0.00 34.95 2.71
648 658 6.793505 TTTTTCTAAGCACCCCTTTAAACA 57.206 33.333 0.00 0.00 34.95 2.83
649 659 9.767228 TTTATTTTTCTAAGCACCCCTTTAAAC 57.233 29.630 0.00 0.00 34.95 2.01
671 681 9.150348 CCGGTGCTTCAGAAAATTTTAATTTAT 57.850 29.630 2.75 0.00 37.62 1.40
672 682 8.145122 ACCGGTGCTTCAGAAAATTTTAATTTA 58.855 29.630 6.12 0.00 37.62 1.40
673 683 6.989759 ACCGGTGCTTCAGAAAATTTTAATTT 59.010 30.769 6.12 0.00 40.15 1.82
674 684 6.423604 CACCGGTGCTTCAGAAAATTTTAATT 59.576 34.615 24.02 0.00 0.00 1.40
675 685 5.925969 CACCGGTGCTTCAGAAAATTTTAAT 59.074 36.000 24.02 0.00 0.00 1.40
676 686 5.285651 CACCGGTGCTTCAGAAAATTTTAA 58.714 37.500 24.02 0.00 0.00 1.52
677 687 4.865776 CACCGGTGCTTCAGAAAATTTTA 58.134 39.130 24.02 0.00 0.00 1.52
678 688 3.716601 CACCGGTGCTTCAGAAAATTTT 58.283 40.909 24.02 2.28 0.00 1.82
679 689 3.369546 CACCGGTGCTTCAGAAAATTT 57.630 42.857 24.02 0.00 0.00 1.82
692 702 2.167693 TCTGTAGAAATAGGCACCGGTG 59.832 50.000 30.66 30.66 0.00 4.94
693 703 2.463752 TCTGTAGAAATAGGCACCGGT 58.536 47.619 0.00 0.00 0.00 5.28
694 704 3.132289 TCTTCTGTAGAAATAGGCACCGG 59.868 47.826 0.00 0.00 33.07 5.28
695 705 4.098044 TCTCTTCTGTAGAAATAGGCACCG 59.902 45.833 0.00 0.00 33.07 4.94
696 706 5.599999 TCTCTTCTGTAGAAATAGGCACC 57.400 43.478 0.00 0.00 33.07 5.01
697 707 5.465056 GCATCTCTTCTGTAGAAATAGGCAC 59.535 44.000 0.00 0.00 33.07 5.01
698 708 5.365025 AGCATCTCTTCTGTAGAAATAGGCA 59.635 40.000 8.71 0.00 33.07 4.75
699 709 5.852827 AGCATCTCTTCTGTAGAAATAGGC 58.147 41.667 0.00 0.00 33.07 3.93
700 710 8.637986 AGTAAGCATCTCTTCTGTAGAAATAGG 58.362 37.037 0.00 0.00 36.25 2.57
704 714 9.862371 CTTAAGTAAGCATCTCTTCTGTAGAAA 57.138 33.333 0.00 0.00 36.25 2.52
705 715 9.026121 ACTTAAGTAAGCATCTCTTCTGTAGAA 57.974 33.333 6.26 0.00 36.79 2.10
706 716 8.462811 CACTTAAGTAAGCATCTCTTCTGTAGA 58.537 37.037 8.04 0.00 36.79 2.59
707 717 8.247562 ACACTTAAGTAAGCATCTCTTCTGTAG 58.752 37.037 8.04 0.00 36.79 2.74
708 718 8.123639 ACACTTAAGTAAGCATCTCTTCTGTA 57.876 34.615 8.04 0.00 36.79 2.74
709 719 6.998802 ACACTTAAGTAAGCATCTCTTCTGT 58.001 36.000 8.04 0.00 36.79 3.41
710 720 7.319646 AGACACTTAAGTAAGCATCTCTTCTG 58.680 38.462 8.04 0.00 36.79 3.02
711 721 7.475137 AGACACTTAAGTAAGCATCTCTTCT 57.525 36.000 8.04 0.00 36.79 2.85
712 722 8.463607 AGTAGACACTTAAGTAAGCATCTCTTC 58.536 37.037 8.04 0.00 36.79 2.87
713 723 8.356000 AGTAGACACTTAAGTAAGCATCTCTT 57.644 34.615 8.04 0.00 36.79 2.85
714 724 7.067737 GGAGTAGACACTTAAGTAAGCATCTCT 59.932 40.741 8.04 6.34 36.79 3.10
715 725 7.197703 GGAGTAGACACTTAAGTAAGCATCTC 58.802 42.308 8.04 11.32 36.79 2.75
716 726 6.183360 CGGAGTAGACACTTAAGTAAGCATCT 60.183 42.308 8.04 8.82 36.79 2.90
717 727 5.972382 CGGAGTAGACACTTAAGTAAGCATC 59.028 44.000 8.04 2.97 36.79 3.91
718 728 5.418209 ACGGAGTAGACACTTAAGTAAGCAT 59.582 40.000 8.04 0.00 41.94 3.79
719 729 4.763793 ACGGAGTAGACACTTAAGTAAGCA 59.236 41.667 8.04 0.00 41.94 3.91
720 730 5.307926 ACGGAGTAGACACTTAAGTAAGC 57.692 43.478 8.04 0.70 41.94 3.09
735 745 4.098349 ACCGATGCTTATTTGTACGGAGTA 59.902 41.667 0.00 0.00 45.11 2.59
737 747 3.245284 CACCGATGCTTATTTGTACGGAG 59.755 47.826 0.00 0.00 41.09 4.63
738 748 3.191669 CACCGATGCTTATTTGTACGGA 58.808 45.455 0.00 0.00 41.09 4.69
739 749 3.585748 CACCGATGCTTATTTGTACGG 57.414 47.619 0.00 0.00 43.61 4.02
774 784 9.720769 CTTAGAGAAGGTGGTTAGACAAATAAA 57.279 33.333 0.00 0.00 0.00 1.40
775 785 7.822822 GCTTAGAGAAGGTGGTTAGACAAATAA 59.177 37.037 0.00 0.00 32.84 1.40
776 786 7.038587 TGCTTAGAGAAGGTGGTTAGACAAATA 60.039 37.037 0.00 0.00 32.84 1.40
777 787 6.174049 GCTTAGAGAAGGTGGTTAGACAAAT 58.826 40.000 0.00 0.00 32.84 2.32
778 788 5.071250 TGCTTAGAGAAGGTGGTTAGACAAA 59.929 40.000 0.00 0.00 32.84 2.83
779 789 4.591498 TGCTTAGAGAAGGTGGTTAGACAA 59.409 41.667 0.00 0.00 32.84 3.18
780 790 4.021368 GTGCTTAGAGAAGGTGGTTAGACA 60.021 45.833 0.00 0.00 32.84 3.41
781 791 4.496360 GTGCTTAGAGAAGGTGGTTAGAC 58.504 47.826 0.00 0.00 32.84 2.59
782 792 3.514309 GGTGCTTAGAGAAGGTGGTTAGA 59.486 47.826 0.00 0.00 32.84 2.10
783 793 3.515901 AGGTGCTTAGAGAAGGTGGTTAG 59.484 47.826 0.00 0.00 32.84 2.34
784 794 3.514309 GAGGTGCTTAGAGAAGGTGGTTA 59.486 47.826 0.00 0.00 32.84 2.85
785 795 2.303311 GAGGTGCTTAGAGAAGGTGGTT 59.697 50.000 0.00 0.00 32.84 3.67
786 796 1.903183 GAGGTGCTTAGAGAAGGTGGT 59.097 52.381 0.00 0.00 32.84 4.16
787 797 1.208293 GGAGGTGCTTAGAGAAGGTGG 59.792 57.143 0.00 0.00 32.84 4.61
788 798 1.902508 TGGAGGTGCTTAGAGAAGGTG 59.097 52.381 0.00 0.00 32.84 4.00
789 799 2.327325 TGGAGGTGCTTAGAGAAGGT 57.673 50.000 0.00 0.00 32.84 3.50
790 800 3.922171 ATTGGAGGTGCTTAGAGAAGG 57.078 47.619 0.00 0.00 32.84 3.46
791 801 3.376546 GCAATTGGAGGTGCTTAGAGAAG 59.623 47.826 7.72 0.00 37.78 2.85
792 802 3.244875 TGCAATTGGAGGTGCTTAGAGAA 60.245 43.478 7.72 0.00 41.48 2.87
793 803 2.305635 TGCAATTGGAGGTGCTTAGAGA 59.694 45.455 7.72 0.00 41.48 3.10
794 804 2.421424 GTGCAATTGGAGGTGCTTAGAG 59.579 50.000 7.72 0.00 41.48 2.43
795 805 2.224744 TGTGCAATTGGAGGTGCTTAGA 60.225 45.455 7.72 0.00 41.48 2.10
796 806 2.161855 TGTGCAATTGGAGGTGCTTAG 58.838 47.619 7.72 0.00 41.48 2.18
797 807 2.161855 CTGTGCAATTGGAGGTGCTTA 58.838 47.619 7.72 0.00 41.48 3.09
798 808 0.963962 CTGTGCAATTGGAGGTGCTT 59.036 50.000 7.72 0.00 41.48 3.91
799 809 0.896940 CCTGTGCAATTGGAGGTGCT 60.897 55.000 7.72 0.00 41.48 4.40
800 810 1.588082 CCTGTGCAATTGGAGGTGC 59.412 57.895 7.72 0.00 41.29 5.01
801 811 1.880819 GCCCTGTGCAATTGGAGGTG 61.881 60.000 7.72 0.00 40.77 4.00
802 812 1.607467 GCCCTGTGCAATTGGAGGT 60.607 57.895 7.72 0.00 40.77 3.85
803 813 2.353610 GGCCCTGTGCAATTGGAGG 61.354 63.158 7.72 3.41 43.89 4.30
804 814 0.901580 AAGGCCCTGTGCAATTGGAG 60.902 55.000 7.72 0.00 43.89 3.86
805 815 0.407528 TAAGGCCCTGTGCAATTGGA 59.592 50.000 7.72 0.23 43.89 3.53
806 816 0.819582 CTAAGGCCCTGTGCAATTGG 59.180 55.000 7.72 0.00 43.89 3.16
807 817 0.819582 CCTAAGGCCCTGTGCAATTG 59.180 55.000 0.00 0.00 43.89 2.32
808 818 0.972471 GCCTAAGGCCCTGTGCAATT 60.972 55.000 0.00 0.00 44.06 2.32
809 819 1.380380 GCCTAAGGCCCTGTGCAAT 60.380 57.895 0.00 0.00 44.06 3.56
810 820 2.035626 GCCTAAGGCCCTGTGCAA 59.964 61.111 0.00 0.00 44.06 4.08
820 830 1.452108 CAAGGAAGGCGGCCTAAGG 60.452 63.158 24.16 6.83 33.76 2.69
821 831 2.115291 GCAAGGAAGGCGGCCTAAG 61.115 63.158 24.16 11.43 33.76 2.18
852 862 3.933332 GGGAAAAGGTGTGATTAGACGAG 59.067 47.826 0.00 0.00 0.00 4.18
930 940 5.304101 AGGCAGAATATAGTGGTCTTCTGAG 59.696 44.000 13.30 0.00 44.66 3.35
937 948 3.057174 CGGAGAGGCAGAATATAGTGGTC 60.057 52.174 0.00 0.00 0.00 4.02
945 956 2.457598 ACAGAACGGAGAGGCAGAATA 58.542 47.619 0.00 0.00 0.00 1.75
973 984 3.437049 AGCAGAGCGGAAAAATAGAACAC 59.563 43.478 0.00 0.00 0.00 3.32
1213 1224 4.968080 AGCAAGGATCTGGATAAGAAGAGT 59.032 41.667 0.00 0.00 38.79 3.24
1252 1273 7.562088 AGTTGGACCCACTAACTTTCATAAAAA 59.438 33.333 0.00 0.00 45.60 1.94
1266 1287 4.717280 CCTTAGATAGAAGTTGGACCCACT 59.283 45.833 0.00 0.00 0.00 4.00
1274 1295 5.059833 GGCACCATCCTTAGATAGAAGTTG 58.940 45.833 0.00 0.00 0.00 3.16
1505 4830 6.420604 TCGAATTTCCTTGATTTTTGTCTTGC 59.579 34.615 0.00 0.00 0.00 4.01
1513 4838 7.014230 TCTGAAACCTCGAATTTCCTTGATTTT 59.986 33.333 15.61 0.00 35.57 1.82
1601 4926 9.599866 TCTTACATGACTGTTTATTTGATCGAT 57.400 29.630 0.00 0.00 36.79 3.59
1828 5200 0.954452 CTTGCCACCTCCTTGTGAAC 59.046 55.000 0.00 0.00 38.55 3.18
1838 5210 2.664402 AGATTGTTGACTTGCCACCT 57.336 45.000 0.00 0.00 0.00 4.00
1841 5213 2.948979 ACGAAAGATTGTTGACTTGCCA 59.051 40.909 0.00 0.00 0.00 4.92
1855 5227 1.347707 AGTCCTGAATGGCACGAAAGA 59.652 47.619 0.00 0.00 35.26 2.52
1861 5233 5.428253 TGATAGTTTAGTCCTGAATGGCAC 58.572 41.667 0.00 0.00 35.26 5.01
1871 5243 5.066505 CCTTGCCAACATGATAGTTTAGTCC 59.933 44.000 0.00 0.00 0.00 3.85
1883 5255 2.295349 GGCTATCATCCTTGCCAACATG 59.705 50.000 0.00 0.00 44.34 3.21
1975 5347 9.595823 ACAGTAATGTAACAGTTATACATCACC 57.404 33.333 0.00 0.00 41.80 4.02
2260 5632 6.675413 ACAGCCCATCATTTATTGCATAAT 57.325 33.333 0.00 0.00 0.00 1.28
2279 5657 3.421888 CACAGTTCGTTGCAATTTACAGC 59.578 43.478 0.59 0.00 0.00 4.40
2459 5839 3.623060 CACAACTAATTCCCGTCCATCTG 59.377 47.826 0.00 0.00 0.00 2.90
2699 6080 2.783135 CCTCAATGGCACGCCTTATAT 58.217 47.619 9.92 0.00 36.94 0.86
3008 6389 0.971386 TGTAGGTTCCCACGTCTTCC 59.029 55.000 0.00 0.00 0.00 3.46
3071 6452 3.780294 TGTTACTTGGTGGCCTCAGATAT 59.220 43.478 3.32 0.00 0.00 1.63
3193 6574 4.009370 ACAAGGCTTTTACTCTGACCTC 57.991 45.455 0.00 0.00 0.00 3.85
3513 6894 7.551262 TCACGTGCCATTCTAGTAAAAATACAT 59.449 33.333 11.67 0.00 0.00 2.29
3524 6905 4.437858 CGTAATTCACGTGCCATTCTAG 57.562 45.455 11.67 3.54 45.82 2.43
3830 7236 5.648330 AGTAGGTTTCAAATAGATCCCCC 57.352 43.478 0.00 0.00 0.00 5.40
3831 7237 5.828328 CCAAGTAGGTTTCAAATAGATCCCC 59.172 44.000 0.00 0.00 0.00 4.81
3848 7258 8.737168 TTCATCTCATACCAAAATCCAAGTAG 57.263 34.615 0.00 0.00 0.00 2.57
3857 7267 8.463930 AACTCAAGTTTCATCTCATACCAAAA 57.536 30.769 0.00 0.00 33.93 2.44
3881 7291 5.192927 GGATGTAGGATCAACCATGACAAA 58.807 41.667 0.00 0.00 38.69 2.83
3885 7295 3.392285 CCTGGATGTAGGATCAACCATGA 59.608 47.826 0.00 0.00 39.03 3.07
3906 7316 5.405935 GGAATATGGGCAACAATATTCCC 57.594 43.478 17.48 3.45 44.43 3.97
3998 7408 7.148000 GCTCCTTTGTAATGCTAGGAAGAAAAT 60.148 37.037 0.00 0.00 36.42 1.82
4257 7667 2.027385 GATGATCTTGGGGCTGAAACC 58.973 52.381 0.00 0.00 0.00 3.27
4282 7700 8.057011 TGGAAGGTTATAAAGGAAGGGTATTTC 58.943 37.037 0.00 0.00 0.00 2.17
4287 7705 5.871324 TTGGAAGGTTATAAAGGAAGGGT 57.129 39.130 0.00 0.00 0.00 4.34
4364 7782 3.490348 GCATATGAAAGCTACCATGGGT 58.510 45.455 18.09 4.30 40.16 4.51
4404 7830 0.246360 CAAGGTTGGGGCCGAAATTC 59.754 55.000 1.31 0.00 0.00 2.17
4411 7837 2.223464 TAGGCATCAAGGTTGGGGCC 62.223 60.000 14.19 14.19 43.44 5.80


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

AutoCloner maintained by Alex Coulton.