Multiple sequence alignment - TraesCS6A01G198900

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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 TraesCS6A01G198900 chr6A 100.000 2204 0 0 1 2204 309862589 309864792 0.000000e+00 4071
1 TraesCS6A01G198900 chr6A 88.987 227 24 1 578 803 81261677 81261451 1.670000e-71 279
2 TraesCS6A01G198900 chr6D 95.634 1397 24 5 837 2204 202265969 202264581 0.000000e+00 2207
3 TraesCS6A01G198900 chr6B 94.976 836 23 9 813 1638 319525145 319525971 0.000000e+00 1293
4 TraesCS6A01G198900 chr6B 84.123 781 72 29 836 1583 100895186 100895947 0.000000e+00 708
5 TraesCS6A01G198900 chr6B 92.857 392 19 6 1615 1997 319526254 319526645 5.310000e-156 560
6 TraesCS6A01G198900 chr6B 95.045 222 8 3 1983 2204 319528152 319528370 1.620000e-91 346
7 TraesCS6A01G198900 chr5A 91.252 583 44 5 1 578 547584882 547585462 0.000000e+00 787
8 TraesCS6A01G198900 chr5A 90.051 583 51 5 1 578 547577379 547577959 0.000000e+00 749
9 TraesCS6A01G198900 chr5A 88.428 579 61 6 1 578 223983800 223983227 0.000000e+00 693
10 TraesCS6A01G198900 chr5A 88.428 579 61 6 1 578 223991723 223991150 0.000000e+00 693
11 TraesCS6A01G198900 chr5A 88.496 226 24 2 578 802 250557749 250557973 2.790000e-69 272
12 TraesCS6A01G198900 chr5A 87.826 230 24 4 578 803 601260201 601260430 1.300000e-67 267
13 TraesCS6A01G198900 chr2A 87.737 579 67 3 1 578 205402104 205401529 0.000000e+00 673
14 TraesCS6A01G198900 chr4A 87.348 577 72 1 3 578 250624914 250625490 0.000000e+00 660
15 TraesCS6A01G198900 chr4A 87.285 582 65 8 1 578 363053394 363053970 0.000000e+00 656
16 TraesCS6A01G198900 chr4A 86.897 580 73 3 3 580 348496439 348497017 0.000000e+00 647
17 TraesCS6A01G198900 chr4A 88.938 226 23 2 578 801 621409369 621409144 5.990000e-71 278
18 TraesCS6A01G198900 chr4A 88.646 229 23 3 578 803 29001866 29001638 2.160000e-70 276
19 TraesCS6A01G198900 chr4A 88.393 224 25 1 581 803 38816692 38816469 3.610000e-68 268
20 TraesCS6A01G198900 chr1A 87.047 579 69 6 1 578 146598727 146599300 0.000000e+00 649
21 TraesCS6A01G198900 chr7A 88.210 229 24 3 578 803 191749514 191749742 1.000000e-68 270
22 TraesCS6A01G198900 chr3A 88.210 229 24 3 578 803 691659020 691658792 1.000000e-68 270
23 TraesCS6A01G198900 chr3A 88.158 228 24 3 578 802 15487642 15487869 3.610000e-68 268


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 TraesCS6A01G198900 chr6A 309862589 309864792 2203 False 4071 4071 100.000000 1 2204 1 chr6A.!!$F1 2203
1 TraesCS6A01G198900 chr6D 202264581 202265969 1388 True 2207 2207 95.634000 837 2204 1 chr6D.!!$R1 1367
2 TraesCS6A01G198900 chr6B 319525145 319528370 3225 False 733 1293 94.292667 813 2204 3 chr6B.!!$F2 1391
3 TraesCS6A01G198900 chr6B 100895186 100895947 761 False 708 708 84.123000 836 1583 1 chr6B.!!$F1 747
4 TraesCS6A01G198900 chr5A 547584882 547585462 580 False 787 787 91.252000 1 578 1 chr5A.!!$F3 577
5 TraesCS6A01G198900 chr5A 547577379 547577959 580 False 749 749 90.051000 1 578 1 chr5A.!!$F2 577
6 TraesCS6A01G198900 chr5A 223983227 223983800 573 True 693 693 88.428000 1 578 1 chr5A.!!$R1 577
7 TraesCS6A01G198900 chr5A 223991150 223991723 573 True 693 693 88.428000 1 578 1 chr5A.!!$R2 577
8 TraesCS6A01G198900 chr2A 205401529 205402104 575 True 673 673 87.737000 1 578 1 chr2A.!!$R1 577
9 TraesCS6A01G198900 chr4A 250624914 250625490 576 False 660 660 87.348000 3 578 1 chr4A.!!$F1 575
10 TraesCS6A01G198900 chr4A 363053394 363053970 576 False 656 656 87.285000 1 578 1 chr4A.!!$F3 577
11 TraesCS6A01G198900 chr4A 348496439 348497017 578 False 647 647 86.897000 3 580 1 chr4A.!!$F2 577
12 TraesCS6A01G198900 chr1A 146598727 146599300 573 False 649 649 87.047000 1 578 1 chr1A.!!$F1 577

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
778 789 0.038067 AACCCAATTTTTACGCCGGC 60.038 50.0 19.07 19.07 0.0 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1641 2004 0.611896 GTGGGCTTGGGTGTTGCTAT 60.612 55.0 0.0 0.0 0.0 2.97 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
49 50 2.596338 TGACGACTGCTCGGGTCA 60.596 61.111 0.18 0.00 44.80 4.02
131 136 2.746269 CGAACGAGGTTAAGTGTGGAA 58.254 47.619 0.00 0.00 0.00 3.53
353 359 1.530323 AACCGAGAACATTTTCCGGG 58.470 50.000 19.13 10.28 43.96 5.73
405 411 0.878523 GGCGTGTGCAAGTGTGTCTA 60.879 55.000 0.00 0.00 45.35 2.59
438 444 1.344763 ACAACGGAGAGAACAAGGAGG 59.655 52.381 0.00 0.00 0.00 4.30
530 541 3.756933 AGCAAATGACAAGGCAACAAT 57.243 38.095 0.00 0.00 41.41 2.71
536 547 1.804151 TGACAAGGCAACAATAGCGAC 59.196 47.619 0.00 0.00 41.41 5.19
580 591 1.291272 GTCTCGGGGCGTTACAGTT 59.709 57.895 0.00 0.00 0.00 3.16
581 592 0.527565 GTCTCGGGGCGTTACAGTTA 59.472 55.000 0.00 0.00 0.00 2.24
582 593 1.135721 GTCTCGGGGCGTTACAGTTAT 59.864 52.381 0.00 0.00 0.00 1.89
583 594 1.406539 TCTCGGGGCGTTACAGTTATC 59.593 52.381 0.00 0.00 0.00 1.75
584 595 1.407979 CTCGGGGCGTTACAGTTATCT 59.592 52.381 0.00 0.00 0.00 1.98
585 596 2.620115 CTCGGGGCGTTACAGTTATCTA 59.380 50.000 0.00 0.00 0.00 1.98
586 597 3.225104 TCGGGGCGTTACAGTTATCTAT 58.775 45.455 0.00 0.00 0.00 1.98
587 598 3.638160 TCGGGGCGTTACAGTTATCTATT 59.362 43.478 0.00 0.00 0.00 1.73
588 599 4.099881 TCGGGGCGTTACAGTTATCTATTT 59.900 41.667 0.00 0.00 0.00 1.40
589 600 4.812626 CGGGGCGTTACAGTTATCTATTTT 59.187 41.667 0.00 0.00 0.00 1.82
590 601 5.277154 CGGGGCGTTACAGTTATCTATTTTG 60.277 44.000 0.00 0.00 0.00 2.44
591 602 5.505159 GGGGCGTTACAGTTATCTATTTTGC 60.505 44.000 0.00 0.00 0.00 3.68
592 603 5.296035 GGGCGTTACAGTTATCTATTTTGCT 59.704 40.000 0.00 0.00 0.00 3.91
593 604 6.480981 GGGCGTTACAGTTATCTATTTTGCTA 59.519 38.462 0.00 0.00 0.00 3.49
594 605 7.172703 GGGCGTTACAGTTATCTATTTTGCTAT 59.827 37.037 0.00 0.00 0.00 2.97
595 606 8.009974 GGCGTTACAGTTATCTATTTTGCTATG 58.990 37.037 0.00 0.00 0.00 2.23
596 607 8.548721 GCGTTACAGTTATCTATTTTGCTATGT 58.451 33.333 0.00 0.00 0.00 2.29
609 620 7.698836 ATTTTGCTATGTAATGAAAATCCGC 57.301 32.000 0.00 0.00 0.00 5.54
610 621 4.466567 TGCTATGTAATGAAAATCCGCG 57.533 40.909 0.00 0.00 0.00 6.46
611 622 4.123506 TGCTATGTAATGAAAATCCGCGA 58.876 39.130 8.23 0.00 0.00 5.87
612 623 4.572795 TGCTATGTAATGAAAATCCGCGAA 59.427 37.500 8.23 0.00 0.00 4.70
613 624 4.904154 GCTATGTAATGAAAATCCGCGAAC 59.096 41.667 8.23 0.00 0.00 3.95
614 625 4.955925 ATGTAATGAAAATCCGCGAACA 57.044 36.364 8.23 0.00 0.00 3.18
615 626 4.955925 TGTAATGAAAATCCGCGAACAT 57.044 36.364 8.23 0.68 0.00 2.71
616 627 4.657055 TGTAATGAAAATCCGCGAACATG 58.343 39.130 8.23 0.00 0.00 3.21
617 628 3.848272 AATGAAAATCCGCGAACATGT 57.152 38.095 8.23 0.00 0.00 3.21
618 629 2.892373 TGAAAATCCGCGAACATGTC 57.108 45.000 8.23 0.00 0.00 3.06
619 630 2.422597 TGAAAATCCGCGAACATGTCT 58.577 42.857 8.23 0.00 0.00 3.41
620 631 3.591023 TGAAAATCCGCGAACATGTCTA 58.409 40.909 8.23 0.00 0.00 2.59
621 632 3.997681 TGAAAATCCGCGAACATGTCTAA 59.002 39.130 8.23 0.00 0.00 2.10
622 633 4.634004 TGAAAATCCGCGAACATGTCTAAT 59.366 37.500 8.23 0.00 0.00 1.73
623 634 5.813157 TGAAAATCCGCGAACATGTCTAATA 59.187 36.000 8.23 0.00 0.00 0.98
624 635 6.481976 TGAAAATCCGCGAACATGTCTAATAT 59.518 34.615 8.23 0.00 0.00 1.28
625 636 7.654116 TGAAAATCCGCGAACATGTCTAATATA 59.346 33.333 8.23 0.00 0.00 0.86
626 637 8.547967 AAAATCCGCGAACATGTCTAATATAT 57.452 30.769 8.23 0.00 0.00 0.86
627 638 7.525688 AATCCGCGAACATGTCTAATATATG 57.474 36.000 8.23 0.00 33.16 1.78
628 639 4.862574 TCCGCGAACATGTCTAATATATGC 59.137 41.667 8.23 0.00 30.12 3.14
629 640 4.032900 CCGCGAACATGTCTAATATATGCC 59.967 45.833 8.23 0.00 30.12 4.40
630 641 4.032900 CGCGAACATGTCTAATATATGCCC 59.967 45.833 0.00 0.00 30.12 5.36
631 642 4.935205 GCGAACATGTCTAATATATGCCCA 59.065 41.667 0.00 0.00 30.12 5.36
632 643 5.411361 GCGAACATGTCTAATATATGCCCAA 59.589 40.000 0.00 0.00 30.12 4.12
633 644 6.072728 GCGAACATGTCTAATATATGCCCAAA 60.073 38.462 0.00 0.00 30.12 3.28
634 645 7.362056 GCGAACATGTCTAATATATGCCCAAAT 60.362 37.037 0.00 0.00 30.12 2.32
635 646 8.514594 CGAACATGTCTAATATATGCCCAAATT 58.485 33.333 0.00 0.00 30.12 1.82
637 648 9.985730 AACATGTCTAATATATGCCCAAATTTG 57.014 29.630 11.40 11.40 30.12 2.32
638 649 8.090214 ACATGTCTAATATATGCCCAAATTTGC 58.910 33.333 12.92 3.05 30.12 3.68
639 650 6.991938 TGTCTAATATATGCCCAAATTTGCC 58.008 36.000 12.92 6.41 0.00 4.52
640 651 6.092748 GTCTAATATATGCCCAAATTTGCCG 58.907 40.000 12.92 5.95 0.00 5.69
641 652 6.007076 TCTAATATATGCCCAAATTTGCCGA 58.993 36.000 12.92 0.00 0.00 5.54
642 653 5.543507 AATATATGCCCAAATTTGCCGAA 57.456 34.783 12.92 0.00 0.00 4.30
643 654 3.902881 ATATGCCCAAATTTGCCGAAA 57.097 38.095 12.92 0.00 0.00 3.46
644 655 2.785540 ATGCCCAAATTTGCCGAAAT 57.214 40.000 12.92 0.00 32.87 2.17
645 656 2.557920 TGCCCAAATTTGCCGAAATT 57.442 40.000 12.92 0.00 42.49 1.82
647 658 4.008074 TGCCCAAATTTGCCGAAATTTA 57.992 36.364 12.92 0.00 45.83 1.40
648 659 4.583871 TGCCCAAATTTGCCGAAATTTAT 58.416 34.783 12.92 0.00 45.83 1.40
649 660 5.006386 TGCCCAAATTTGCCGAAATTTATT 58.994 33.333 12.92 0.00 45.83 1.40
650 661 5.106396 TGCCCAAATTTGCCGAAATTTATTG 60.106 36.000 12.92 0.00 45.83 1.90
651 662 5.106357 GCCCAAATTTGCCGAAATTTATTGT 60.106 36.000 12.92 0.00 45.83 2.71
652 663 6.313252 CCCAAATTTGCCGAAATTTATTGTG 58.687 36.000 12.92 0.00 45.83 3.33
653 664 6.072783 CCCAAATTTGCCGAAATTTATTGTGT 60.073 34.615 12.92 0.00 45.83 3.72
654 665 7.358830 CCAAATTTGCCGAAATTTATTGTGTT 58.641 30.769 12.92 0.00 45.83 3.32
655 666 7.859875 CCAAATTTGCCGAAATTTATTGTGTTT 59.140 29.630 12.92 0.00 45.83 2.83
656 667 9.869844 CAAATTTGCCGAAATTTATTGTGTTTA 57.130 25.926 5.01 0.00 45.83 2.01
658 669 9.482627 AATTTGCCGAAATTTATTGTGTTTAGA 57.517 25.926 0.00 0.00 38.40 2.10
659 670 7.861176 TTGCCGAAATTTATTGTGTTTAGAC 57.139 32.000 0.00 0.00 0.00 2.59
660 671 6.081049 TGCCGAAATTTATTGTGTTTAGACG 58.919 36.000 0.00 0.00 0.00 4.18
661 672 6.073167 TGCCGAAATTTATTGTGTTTAGACGA 60.073 34.615 0.00 0.00 0.00 4.20
662 673 6.797995 GCCGAAATTTATTGTGTTTAGACGAA 59.202 34.615 0.00 0.00 0.00 3.85
663 674 7.201207 GCCGAAATTTATTGTGTTTAGACGAAC 60.201 37.037 0.00 0.00 0.00 3.95
664 675 8.013378 CCGAAATTTATTGTGTTTAGACGAACT 58.987 33.333 0.00 0.00 0.00 3.01
665 676 9.377383 CGAAATTTATTGTGTTTAGACGAACTT 57.623 29.630 0.00 0.00 0.00 2.66
668 679 9.659830 AATTTATTGTGTTTAGACGAACTTCAC 57.340 29.630 0.00 0.00 0.00 3.18
669 680 5.668558 ATTGTGTTTAGACGAACTTCACC 57.331 39.130 0.00 0.00 0.00 4.02
670 681 3.117794 TGTGTTTAGACGAACTTCACCG 58.882 45.455 0.00 0.00 0.00 4.94
671 682 3.181488 TGTGTTTAGACGAACTTCACCGA 60.181 43.478 0.00 0.00 0.00 4.69
672 683 3.798337 GTGTTTAGACGAACTTCACCGAA 59.202 43.478 0.00 0.00 0.00 4.30
673 684 3.798337 TGTTTAGACGAACTTCACCGAAC 59.202 43.478 0.00 0.00 0.00 3.95
674 685 3.996150 TTAGACGAACTTCACCGAACT 57.004 42.857 0.00 0.00 0.00 3.01
675 686 2.135664 AGACGAACTTCACCGAACTG 57.864 50.000 0.00 0.00 0.00 3.16
676 687 1.407979 AGACGAACTTCACCGAACTGT 59.592 47.619 0.00 0.00 0.00 3.55
677 688 1.521423 GACGAACTTCACCGAACTGTG 59.479 52.381 0.00 0.00 37.59 3.66
678 689 0.232303 CGAACTTCACCGAACTGTGC 59.768 55.000 0.00 0.00 36.17 4.57
679 690 0.586802 GAACTTCACCGAACTGTGCC 59.413 55.000 0.00 0.00 36.17 5.01
680 691 1.157870 AACTTCACCGAACTGTGCCG 61.158 55.000 0.00 0.00 36.17 5.69
681 692 1.300620 CTTCACCGAACTGTGCCGA 60.301 57.895 4.71 0.00 36.17 5.54
682 693 0.878523 CTTCACCGAACTGTGCCGAA 60.879 55.000 4.71 0.00 36.17 4.30
683 694 0.462225 TTCACCGAACTGTGCCGAAA 60.462 50.000 4.71 0.00 36.17 3.46
684 695 0.250124 TCACCGAACTGTGCCGAAAT 60.250 50.000 4.71 0.00 36.17 2.17
685 696 0.591170 CACCGAACTGTGCCGAAATT 59.409 50.000 4.71 0.00 0.00 1.82
686 697 1.001815 CACCGAACTGTGCCGAAATTT 60.002 47.619 0.00 0.00 0.00 1.82
687 698 1.001815 ACCGAACTGTGCCGAAATTTG 60.002 47.619 0.00 0.00 0.00 2.32
688 699 1.052287 CGAACTGTGCCGAAATTTGC 58.948 50.000 0.00 0.00 0.00 3.68
689 700 1.334960 CGAACTGTGCCGAAATTTGCT 60.335 47.619 0.00 0.00 0.00 3.91
690 701 2.095969 CGAACTGTGCCGAAATTTGCTA 60.096 45.455 0.00 0.00 0.00 3.49
691 702 3.426159 CGAACTGTGCCGAAATTTGCTAT 60.426 43.478 0.00 0.00 0.00 2.97
692 703 4.201773 CGAACTGTGCCGAAATTTGCTATA 60.202 41.667 0.00 0.00 0.00 1.31
693 704 4.616181 ACTGTGCCGAAATTTGCTATAC 57.384 40.909 0.00 0.00 0.00 1.47
694 705 4.006989 ACTGTGCCGAAATTTGCTATACA 58.993 39.130 0.00 0.00 0.00 2.29
695 706 4.457603 ACTGTGCCGAAATTTGCTATACAA 59.542 37.500 0.00 0.00 36.13 2.41
722 733 8.429739 TTTTATTTTTAAACGCATCTGAGACG 57.570 30.769 0.00 1.13 0.00 4.18
723 734 5.856126 ATTTTTAAACGCATCTGAGACGA 57.144 34.783 8.81 0.00 0.00 4.20
724 735 5.856126 TTTTTAAACGCATCTGAGACGAT 57.144 34.783 8.81 0.00 0.00 3.73
725 736 5.856126 TTTTAAACGCATCTGAGACGATT 57.144 34.783 8.81 6.10 0.00 3.34
726 737 5.450376 TTTAAACGCATCTGAGACGATTC 57.550 39.130 8.81 0.00 0.00 2.52
727 738 2.949451 AACGCATCTGAGACGATTCT 57.051 45.000 8.81 0.00 33.37 2.40
728 739 2.200792 ACGCATCTGAGACGATTCTG 57.799 50.000 8.81 0.00 29.47 3.02
729 740 1.202348 ACGCATCTGAGACGATTCTGG 60.202 52.381 8.81 0.00 29.47 3.86
730 741 1.066152 CGCATCTGAGACGATTCTGGA 59.934 52.381 0.00 0.00 29.47 3.86
731 742 2.741612 GCATCTGAGACGATTCTGGAG 58.258 52.381 0.00 0.00 29.47 3.86
732 743 2.360483 GCATCTGAGACGATTCTGGAGA 59.640 50.000 0.00 0.00 29.47 3.71
733 744 3.795150 GCATCTGAGACGATTCTGGAGAC 60.795 52.174 0.00 0.00 29.47 3.36
734 745 2.010497 TCTGAGACGATTCTGGAGACG 58.990 52.381 0.00 0.00 29.47 4.18
735 746 1.064803 CTGAGACGATTCTGGAGACGG 59.935 57.143 0.00 0.00 38.41 4.79
736 747 0.248702 GAGACGATTCTGGAGACGGC 60.249 60.000 0.00 0.00 36.33 5.68
737 748 1.227002 GACGATTCTGGAGACGGCC 60.227 63.158 0.00 0.00 36.33 6.13
738 749 2.278857 CGATTCTGGAGACGGCCG 60.279 66.667 26.86 26.86 36.33 6.13
739 750 2.586357 GATTCTGGAGACGGCCGC 60.586 66.667 28.58 18.62 36.33 6.53
740 751 3.077556 ATTCTGGAGACGGCCGCT 61.078 61.111 28.58 23.48 36.33 5.52
741 752 3.376935 ATTCTGGAGACGGCCGCTG 62.377 63.158 28.58 13.07 36.33 5.18
762 773 2.437413 GGGACCAACTCATCTCAAACC 58.563 52.381 0.00 0.00 0.00 3.27
763 774 2.437413 GGACCAACTCATCTCAAACCC 58.563 52.381 0.00 0.00 0.00 4.11
764 775 2.224769 GGACCAACTCATCTCAAACCCA 60.225 50.000 0.00 0.00 0.00 4.51
765 776 3.486383 GACCAACTCATCTCAAACCCAA 58.514 45.455 0.00 0.00 0.00 4.12
766 777 4.082125 GACCAACTCATCTCAAACCCAAT 58.918 43.478 0.00 0.00 0.00 3.16
767 778 4.482990 ACCAACTCATCTCAAACCCAATT 58.517 39.130 0.00 0.00 0.00 2.32
768 779 4.901250 ACCAACTCATCTCAAACCCAATTT 59.099 37.500 0.00 0.00 0.00 1.82
769 780 5.366477 ACCAACTCATCTCAAACCCAATTTT 59.634 36.000 0.00 0.00 0.00 1.82
770 781 6.126796 ACCAACTCATCTCAAACCCAATTTTT 60.127 34.615 0.00 0.00 0.00 1.94
771 782 7.070571 ACCAACTCATCTCAAACCCAATTTTTA 59.929 33.333 0.00 0.00 0.00 1.52
772 783 7.384932 CCAACTCATCTCAAACCCAATTTTTAC 59.615 37.037 0.00 0.00 0.00 2.01
773 784 6.677913 ACTCATCTCAAACCCAATTTTTACG 58.322 36.000 0.00 0.00 0.00 3.18
774 785 5.465935 TCATCTCAAACCCAATTTTTACGC 58.534 37.500 0.00 0.00 0.00 4.42
775 786 4.245845 TCTCAAACCCAATTTTTACGCC 57.754 40.909 0.00 0.00 0.00 5.68
776 787 2.983803 CTCAAACCCAATTTTTACGCCG 59.016 45.455 0.00 0.00 0.00 6.46
777 788 2.062519 CAAACCCAATTTTTACGCCGG 58.937 47.619 0.00 0.00 0.00 6.13
778 789 0.038067 AACCCAATTTTTACGCCGGC 60.038 50.000 19.07 19.07 0.00 6.13
779 790 0.896479 ACCCAATTTTTACGCCGGCT 60.896 50.000 26.68 14.27 0.00 5.52
780 791 0.179148 CCCAATTTTTACGCCGGCTC 60.179 55.000 26.68 0.00 0.00 4.70
781 792 0.523966 CCAATTTTTACGCCGGCTCA 59.476 50.000 26.68 9.08 0.00 4.26
782 793 1.613270 CAATTTTTACGCCGGCTCAC 58.387 50.000 26.68 0.00 0.00 3.51
783 794 0.524414 AATTTTTACGCCGGCTCACC 59.476 50.000 26.68 0.00 0.00 4.02
784 795 1.310216 ATTTTTACGCCGGCTCACCC 61.310 55.000 26.68 0.00 0.00 4.61
785 796 3.905437 TTTTACGCCGGCTCACCCC 62.905 63.158 26.68 0.00 0.00 4.95
795 806 4.552365 CTCACCCCATGCGGCGAT 62.552 66.667 12.98 0.00 0.00 4.58
796 807 4.108299 TCACCCCATGCGGCGATT 62.108 61.111 12.98 0.00 0.00 3.34
797 808 3.140141 CACCCCATGCGGCGATTT 61.140 61.111 12.98 0.00 0.00 2.17
798 809 2.362375 ACCCCATGCGGCGATTTT 60.362 55.556 12.98 0.00 0.00 1.82
799 810 1.077357 ACCCCATGCGGCGATTTTA 60.077 52.632 12.98 0.00 0.00 1.52
800 811 1.101049 ACCCCATGCGGCGATTTTAG 61.101 55.000 12.98 0.00 0.00 1.85
801 812 1.654220 CCCATGCGGCGATTTTAGG 59.346 57.895 12.98 2.42 0.00 2.69
802 813 1.008538 CCATGCGGCGATTTTAGGC 60.009 57.895 12.98 0.00 0.00 3.93
803 814 1.447317 CCATGCGGCGATTTTAGGCT 61.447 55.000 12.98 0.00 0.00 4.58
804 815 0.040958 CATGCGGCGATTTTAGGCTC 60.041 55.000 12.98 0.00 0.00 4.70
805 816 0.179045 ATGCGGCGATTTTAGGCTCT 60.179 50.000 12.98 0.00 0.00 4.09
806 817 0.462375 TGCGGCGATTTTAGGCTCTA 59.538 50.000 12.98 0.00 0.00 2.43
807 818 1.134640 TGCGGCGATTTTAGGCTCTAA 60.135 47.619 12.98 0.00 0.00 2.10
808 819 1.260825 GCGGCGATTTTAGGCTCTAAC 59.739 52.381 12.98 0.00 0.00 2.34
809 820 2.822764 CGGCGATTTTAGGCTCTAACT 58.177 47.619 0.00 0.00 0.00 2.24
810 821 3.797865 GCGGCGATTTTAGGCTCTAACTA 60.798 47.826 12.98 0.00 0.00 2.24
811 822 3.982058 CGGCGATTTTAGGCTCTAACTAG 59.018 47.826 0.00 0.00 0.00 2.57
814 825 4.983538 GCGATTTTAGGCTCTAACTAGTCC 59.016 45.833 0.00 0.00 0.00 3.85
819 830 0.102663 GGCTCTAACTAGTCCGTGGC 59.897 60.000 0.00 0.16 0.00 5.01
832 843 0.317103 CCGTGGCTCGAACTCTATCG 60.317 60.000 10.96 0.00 44.04 2.92
933 949 0.105453 TGGCTGTCCTATCCTCCTCC 60.105 60.000 0.00 0.00 0.00 4.30
934 950 0.189822 GGCTGTCCTATCCTCCTCCT 59.810 60.000 0.00 0.00 0.00 3.69
935 951 1.627864 GCTGTCCTATCCTCCTCCTC 58.372 60.000 0.00 0.00 0.00 3.71
974 1000 5.523588 AGAGAAGAGAGAGAGAGAGAGAGA 58.476 45.833 0.00 0.00 0.00 3.10
976 1002 5.523588 AGAAGAGAGAGAGAGAGAGAGAGA 58.476 45.833 0.00 0.00 0.00 3.10
987 1013 6.013725 AGAGAGAGAGAGAGAAAGAGTACACA 60.014 42.308 0.00 0.00 0.00 3.72
1234 1266 2.319841 GGTAAACGCCCCGTGTGAC 61.320 63.158 0.00 0.00 39.99 3.67
1403 1441 2.030274 ACGTTGGAAATTTACTGCAGCC 60.030 45.455 15.27 5.40 0.00 4.85
1555 1607 2.159184 TGATTCTGATCACCAGTCGAGC 60.159 50.000 0.00 0.00 43.38 5.03
1641 2004 0.535335 AAATCTCAAGGCGCTCCGTA 59.465 50.000 7.64 0.00 37.47 4.02
1648 2011 0.529992 AAGGCGCTCCGTATAGCAAC 60.530 55.000 7.64 0.00 42.91 4.17
1706 2069 5.477510 CATAATAGATCACTCAGACAGGGC 58.522 45.833 0.00 0.00 0.00 5.19
1729 2092 4.023707 CAGTGCGATTCTTTTGGTTCTTCT 60.024 41.667 0.00 0.00 0.00 2.85
1754 2117 3.023119 TGACACAGAAACAATTGCCAGT 58.977 40.909 5.05 0.00 0.00 4.00
1774 2137 4.079253 AGTCCGGCAACAAAGTAATCATT 58.921 39.130 0.00 0.00 0.00 2.57
2150 4039 7.092757 ACTGAATTCCTTAATGGCCAATTTCAT 60.093 33.333 10.96 0.00 35.26 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
49 50 1.702957 TCCGAAAATTGTCCCAGACCT 59.297 47.619 0.00 0.00 0.00 3.85
131 136 1.701847 AGACCAAACTGCTCTCCACAT 59.298 47.619 0.00 0.00 0.00 3.21
233 239 4.506758 TGATAGCCCAACCGTTAAACTAC 58.493 43.478 0.00 0.00 0.00 2.73
313 319 1.435515 GGTTGAAAGTTGGCGTGCA 59.564 52.632 0.00 0.00 0.00 4.57
383 389 4.539083 ACACTTGCACACGCCCGA 62.539 61.111 0.00 0.00 37.32 5.14
405 411 1.006102 CGTTGTCCGTTCTGAGCCT 60.006 57.895 0.00 0.00 0.00 4.58
432 438 2.610859 ATGTGTCCCGGCCTCCTT 60.611 61.111 0.00 0.00 0.00 3.36
438 444 1.805428 AAACTTGCATGTGTCCCGGC 61.805 55.000 5.94 0.00 0.00 6.13
530 541 2.095567 GGTGTCGTTCAGTTAGTCGCTA 60.096 50.000 0.00 0.00 0.00 4.26
536 547 1.270094 TGCCAGGTGTCGTTCAGTTAG 60.270 52.381 0.00 0.00 0.00 2.34
583 594 8.905702 GCGGATTTTCATTACATAGCAAAATAG 58.094 33.333 0.00 0.00 28.97 1.73
584 595 7.589587 CGCGGATTTTCATTACATAGCAAAATA 59.410 33.333 0.00 0.00 28.97 1.40
585 596 6.417635 CGCGGATTTTCATTACATAGCAAAAT 59.582 34.615 0.00 0.00 30.98 1.82
586 597 5.741510 CGCGGATTTTCATTACATAGCAAAA 59.258 36.000 0.00 0.00 0.00 2.44
587 598 5.065346 TCGCGGATTTTCATTACATAGCAAA 59.935 36.000 6.13 0.00 0.00 3.68
588 599 4.572795 TCGCGGATTTTCATTACATAGCAA 59.427 37.500 6.13 0.00 0.00 3.91
589 600 4.123506 TCGCGGATTTTCATTACATAGCA 58.876 39.130 6.13 0.00 0.00 3.49
590 601 4.725556 TCGCGGATTTTCATTACATAGC 57.274 40.909 6.13 0.00 0.00 2.97
591 602 6.043327 TGTTCGCGGATTTTCATTACATAG 57.957 37.500 6.13 0.00 0.00 2.23
592 603 6.037720 ACATGTTCGCGGATTTTCATTACATA 59.962 34.615 6.13 0.00 0.00 2.29
593 604 4.955925 TGTTCGCGGATTTTCATTACAT 57.044 36.364 6.13 0.00 0.00 2.29
594 605 4.155099 ACATGTTCGCGGATTTTCATTACA 59.845 37.500 6.13 0.00 0.00 2.41
595 606 4.658071 ACATGTTCGCGGATTTTCATTAC 58.342 39.130 6.13 0.00 0.00 1.89
596 607 4.634004 AGACATGTTCGCGGATTTTCATTA 59.366 37.500 6.13 0.00 0.00 1.90
597 608 3.440173 AGACATGTTCGCGGATTTTCATT 59.560 39.130 6.13 0.00 0.00 2.57
598 609 3.009723 AGACATGTTCGCGGATTTTCAT 58.990 40.909 6.13 0.00 0.00 2.57
599 610 2.422597 AGACATGTTCGCGGATTTTCA 58.577 42.857 6.13 0.00 0.00 2.69
600 611 4.593597 TTAGACATGTTCGCGGATTTTC 57.406 40.909 6.13 0.00 0.00 2.29
601 612 6.861065 ATATTAGACATGTTCGCGGATTTT 57.139 33.333 6.13 0.00 0.00 1.82
602 613 7.413000 GCATATATTAGACATGTTCGCGGATTT 60.413 37.037 6.13 0.00 0.00 2.17
603 614 6.036083 GCATATATTAGACATGTTCGCGGATT 59.964 38.462 6.13 0.00 0.00 3.01
604 615 5.520288 GCATATATTAGACATGTTCGCGGAT 59.480 40.000 6.13 0.00 0.00 4.18
605 616 4.862574 GCATATATTAGACATGTTCGCGGA 59.137 41.667 6.13 0.00 0.00 5.54
606 617 4.032900 GGCATATATTAGACATGTTCGCGG 59.967 45.833 6.13 0.00 0.00 6.46
607 618 4.032900 GGGCATATATTAGACATGTTCGCG 59.967 45.833 0.00 0.00 0.00 5.87
608 619 4.935205 TGGGCATATATTAGACATGTTCGC 59.065 41.667 0.00 0.00 0.00 4.70
609 620 7.433708 TTTGGGCATATATTAGACATGTTCG 57.566 36.000 0.00 0.00 0.00 3.95
611 622 9.985730 CAAATTTGGGCATATATTAGACATGTT 57.014 29.630 10.49 0.00 0.00 2.71
612 623 8.090214 GCAAATTTGGGCATATATTAGACATGT 58.910 33.333 19.47 0.00 0.00 3.21
613 624 7.546667 GGCAAATTTGGGCATATATTAGACATG 59.453 37.037 19.47 0.00 0.00 3.21
614 625 7.577426 CGGCAAATTTGGGCATATATTAGACAT 60.577 37.037 19.47 0.00 0.00 3.06
615 626 6.294453 CGGCAAATTTGGGCATATATTAGACA 60.294 38.462 19.47 0.00 0.00 3.41
616 627 6.072175 TCGGCAAATTTGGGCATATATTAGAC 60.072 38.462 19.47 0.00 0.00 2.59
617 628 6.007076 TCGGCAAATTTGGGCATATATTAGA 58.993 36.000 19.47 1.56 0.00 2.10
618 629 6.266168 TCGGCAAATTTGGGCATATATTAG 57.734 37.500 19.47 0.00 0.00 1.73
619 630 6.656632 TTCGGCAAATTTGGGCATATATTA 57.343 33.333 19.47 0.00 0.00 0.98
620 631 5.543507 TTCGGCAAATTTGGGCATATATT 57.456 34.783 19.47 0.00 0.00 1.28
621 632 5.543507 TTTCGGCAAATTTGGGCATATAT 57.456 34.783 19.47 0.00 0.00 0.86
622 633 5.543507 ATTTCGGCAAATTTGGGCATATA 57.456 34.783 19.47 1.35 0.00 0.86
623 634 3.902881 TTTCGGCAAATTTGGGCATAT 57.097 38.095 19.47 0.00 0.00 1.78
624 635 3.902881 ATTTCGGCAAATTTGGGCATA 57.097 38.095 19.47 2.20 0.00 3.14
625 636 2.785540 ATTTCGGCAAATTTGGGCAT 57.214 40.000 19.47 1.21 0.00 4.40
626 637 2.557920 AATTTCGGCAAATTTGGGCA 57.442 40.000 19.47 2.42 38.83 5.36
627 638 5.106357 ACAATAAATTTCGGCAAATTTGGGC 60.106 36.000 19.47 11.28 46.95 5.36
628 639 6.072783 ACACAATAAATTTCGGCAAATTTGGG 60.073 34.615 19.47 13.47 46.95 4.12
629 640 6.896969 ACACAATAAATTTCGGCAAATTTGG 58.103 32.000 19.47 4.32 46.95 3.28
630 641 8.779603 AAACACAATAAATTTCGGCAAATTTG 57.220 26.923 14.03 14.03 46.95 2.32
632 643 9.482627 TCTAAACACAATAAATTTCGGCAAATT 57.517 25.926 0.00 2.99 42.95 1.82
633 644 8.921670 GTCTAAACACAATAAATTTCGGCAAAT 58.078 29.630 0.00 0.00 33.27 2.32
634 645 7.113684 CGTCTAAACACAATAAATTTCGGCAAA 59.886 33.333 0.00 0.00 0.00 3.68
635 646 6.579292 CGTCTAAACACAATAAATTTCGGCAA 59.421 34.615 0.00 0.00 0.00 4.52
636 647 6.073167 TCGTCTAAACACAATAAATTTCGGCA 60.073 34.615 0.00 0.00 0.00 5.69
637 648 6.308675 TCGTCTAAACACAATAAATTTCGGC 58.691 36.000 0.00 0.00 0.00 5.54
638 649 8.013378 AGTTCGTCTAAACACAATAAATTTCGG 58.987 33.333 0.00 0.00 0.00 4.30
639 650 8.928844 AGTTCGTCTAAACACAATAAATTTCG 57.071 30.769 0.00 0.00 0.00 3.46
642 653 9.659830 GTGAAGTTCGTCTAAACACAATAAATT 57.340 29.630 0.00 0.00 0.00 1.82
643 654 8.287503 GGTGAAGTTCGTCTAAACACAATAAAT 58.712 33.333 0.00 0.00 31.69 1.40
644 655 7.517101 CGGTGAAGTTCGTCTAAACACAATAAA 60.517 37.037 0.00 0.00 31.69 1.40
645 656 6.074195 CGGTGAAGTTCGTCTAAACACAATAA 60.074 38.462 0.00 0.00 31.69 1.40
646 657 5.403166 CGGTGAAGTTCGTCTAAACACAATA 59.597 40.000 0.00 0.00 31.69 1.90
647 658 4.210537 CGGTGAAGTTCGTCTAAACACAAT 59.789 41.667 0.00 0.00 31.69 2.71
648 659 3.552699 CGGTGAAGTTCGTCTAAACACAA 59.447 43.478 0.00 0.00 31.69 3.33
649 660 3.117794 CGGTGAAGTTCGTCTAAACACA 58.882 45.455 0.00 0.00 31.69 3.72
650 661 3.374745 TCGGTGAAGTTCGTCTAAACAC 58.625 45.455 0.00 0.00 0.00 3.32
651 662 3.713858 TCGGTGAAGTTCGTCTAAACA 57.286 42.857 0.00 0.00 0.00 2.83
652 663 4.047142 AGTTCGGTGAAGTTCGTCTAAAC 58.953 43.478 0.00 0.00 0.00 2.01
653 664 4.046462 CAGTTCGGTGAAGTTCGTCTAAA 58.954 43.478 0.00 0.00 0.00 1.85
654 665 3.067180 ACAGTTCGGTGAAGTTCGTCTAA 59.933 43.478 0.00 0.00 0.00 2.10
655 666 2.620115 ACAGTTCGGTGAAGTTCGTCTA 59.380 45.455 0.00 0.00 0.00 2.59
656 667 1.407979 ACAGTTCGGTGAAGTTCGTCT 59.592 47.619 0.00 0.00 0.00 4.18
657 668 1.521423 CACAGTTCGGTGAAGTTCGTC 59.479 52.381 0.00 0.00 41.32 4.20
658 669 1.567504 CACAGTTCGGTGAAGTTCGT 58.432 50.000 0.00 0.00 41.32 3.85
659 670 0.232303 GCACAGTTCGGTGAAGTTCG 59.768 55.000 7.21 0.00 41.32 3.95
660 671 0.586802 GGCACAGTTCGGTGAAGTTC 59.413 55.000 7.21 0.00 41.32 3.01
661 672 1.157870 CGGCACAGTTCGGTGAAGTT 61.158 55.000 7.21 0.00 41.32 2.66
662 673 1.594293 CGGCACAGTTCGGTGAAGT 60.594 57.895 7.21 0.00 41.32 3.01
663 674 0.878523 TTCGGCACAGTTCGGTGAAG 60.879 55.000 7.21 0.88 41.32 3.02
664 675 0.462225 TTTCGGCACAGTTCGGTGAA 60.462 50.000 7.21 0.00 41.32 3.18
665 676 0.250124 ATTTCGGCACAGTTCGGTGA 60.250 50.000 7.21 0.00 41.32 4.02
666 677 0.591170 AATTTCGGCACAGTTCGGTG 59.409 50.000 0.00 0.00 41.72 4.94
667 678 1.001815 CAAATTTCGGCACAGTTCGGT 60.002 47.619 0.00 0.00 0.00 4.69
668 679 1.685302 CAAATTTCGGCACAGTTCGG 58.315 50.000 0.00 0.00 0.00 4.30
669 680 1.052287 GCAAATTTCGGCACAGTTCG 58.948 50.000 0.00 0.00 0.00 3.95
670 681 2.422276 AGCAAATTTCGGCACAGTTC 57.578 45.000 3.62 0.00 0.00 3.01
671 682 4.457603 TGTATAGCAAATTTCGGCACAGTT 59.542 37.500 3.62 0.00 0.00 3.16
672 683 4.006989 TGTATAGCAAATTTCGGCACAGT 58.993 39.130 3.62 0.00 0.00 3.55
673 684 4.614555 TGTATAGCAAATTTCGGCACAG 57.385 40.909 3.62 0.00 0.00 3.66
674 685 5.378292 TTTGTATAGCAAATTTCGGCACA 57.622 34.783 3.62 0.00 41.68 4.57
696 707 9.061610 CGTCTCAGATGCGTTTAAAAATAAAAT 57.938 29.630 0.00 0.00 0.00 1.82
697 708 8.283992 TCGTCTCAGATGCGTTTAAAAATAAAA 58.716 29.630 0.00 0.00 0.00 1.52
698 709 7.798801 TCGTCTCAGATGCGTTTAAAAATAAA 58.201 30.769 0.00 0.00 0.00 1.40
699 710 7.354025 TCGTCTCAGATGCGTTTAAAAATAA 57.646 32.000 0.00 0.00 0.00 1.40
700 711 6.954616 TCGTCTCAGATGCGTTTAAAAATA 57.045 33.333 0.00 0.00 0.00 1.40
701 712 5.856126 TCGTCTCAGATGCGTTTAAAAAT 57.144 34.783 0.00 0.00 0.00 1.82
702 713 5.856126 ATCGTCTCAGATGCGTTTAAAAA 57.144 34.783 0.00 0.00 0.00 1.94
703 714 5.637810 AGAATCGTCTCAGATGCGTTTAAAA 59.362 36.000 0.00 0.00 31.41 1.52
704 715 5.062183 CAGAATCGTCTCAGATGCGTTTAAA 59.938 40.000 0.00 0.00 31.41 1.52
705 716 4.562789 CAGAATCGTCTCAGATGCGTTTAA 59.437 41.667 0.00 0.00 31.41 1.52
706 717 4.105486 CAGAATCGTCTCAGATGCGTTTA 58.895 43.478 0.00 0.00 31.41 2.01
707 718 2.926200 CAGAATCGTCTCAGATGCGTTT 59.074 45.455 0.00 0.00 31.41 3.60
708 719 2.534298 CAGAATCGTCTCAGATGCGTT 58.466 47.619 0.00 0.00 31.41 4.84
709 720 1.202348 CCAGAATCGTCTCAGATGCGT 60.202 52.381 0.00 0.00 31.41 5.24
710 721 1.066152 TCCAGAATCGTCTCAGATGCG 59.934 52.381 0.00 0.00 31.41 4.73
711 722 2.360483 TCTCCAGAATCGTCTCAGATGC 59.640 50.000 0.00 0.00 28.78 3.91
712 723 3.547813 CGTCTCCAGAATCGTCTCAGATG 60.548 52.174 0.00 0.00 28.78 2.90
713 724 2.616376 CGTCTCCAGAATCGTCTCAGAT 59.384 50.000 0.00 0.00 28.78 2.90
714 725 2.010497 CGTCTCCAGAATCGTCTCAGA 58.990 52.381 0.00 0.00 28.78 3.27
715 726 1.064803 CCGTCTCCAGAATCGTCTCAG 59.935 57.143 0.00 0.00 28.78 3.35
716 727 1.095600 CCGTCTCCAGAATCGTCTCA 58.904 55.000 0.00 0.00 28.78 3.27
717 728 0.248702 GCCGTCTCCAGAATCGTCTC 60.249 60.000 0.00 0.00 28.78 3.36
718 729 1.668101 GGCCGTCTCCAGAATCGTCT 61.668 60.000 0.00 0.00 32.85 4.18
719 730 1.227002 GGCCGTCTCCAGAATCGTC 60.227 63.158 0.00 0.00 0.00 4.20
720 731 2.893398 GGCCGTCTCCAGAATCGT 59.107 61.111 0.00 0.00 0.00 3.73
721 732 2.278857 CGGCCGTCTCCAGAATCG 60.279 66.667 19.50 0.00 0.00 3.34
722 733 2.586357 GCGGCCGTCTCCAGAATC 60.586 66.667 28.70 0.93 0.00 2.52
723 734 3.077556 AGCGGCCGTCTCCAGAAT 61.078 61.111 28.70 0.00 0.00 2.40
724 735 4.069232 CAGCGGCCGTCTCCAGAA 62.069 66.667 28.70 0.00 0.00 3.02
736 747 2.876368 GATGAGTTGGTCCCCAGCGG 62.876 65.000 0.00 0.00 39.74 5.52
737 748 1.450312 GATGAGTTGGTCCCCAGCG 60.450 63.158 0.00 0.00 39.74 5.18
738 749 0.107459 GAGATGAGTTGGTCCCCAGC 60.107 60.000 0.00 0.00 33.81 4.85
739 750 1.279496 TGAGATGAGTTGGTCCCCAG 58.721 55.000 0.00 0.00 33.81 4.45
740 751 1.741028 TTGAGATGAGTTGGTCCCCA 58.259 50.000 0.00 0.00 0.00 4.96
741 752 2.437413 GTTTGAGATGAGTTGGTCCCC 58.563 52.381 0.00 0.00 0.00 4.81
742 753 2.437413 GGTTTGAGATGAGTTGGTCCC 58.563 52.381 0.00 0.00 0.00 4.46
743 754 2.224769 TGGGTTTGAGATGAGTTGGTCC 60.225 50.000 0.00 0.00 0.00 4.46
744 755 3.140325 TGGGTTTGAGATGAGTTGGTC 57.860 47.619 0.00 0.00 0.00 4.02
745 756 3.593442 TTGGGTTTGAGATGAGTTGGT 57.407 42.857 0.00 0.00 0.00 3.67
746 757 5.473066 AAATTGGGTTTGAGATGAGTTGG 57.527 39.130 0.00 0.00 0.00 3.77
747 758 7.114811 CGTAAAAATTGGGTTTGAGATGAGTTG 59.885 37.037 0.00 0.00 0.00 3.16
748 759 7.145323 CGTAAAAATTGGGTTTGAGATGAGTT 58.855 34.615 0.00 0.00 0.00 3.01
749 760 6.677913 CGTAAAAATTGGGTTTGAGATGAGT 58.322 36.000 0.00 0.00 0.00 3.41
750 761 5.572896 GCGTAAAAATTGGGTTTGAGATGAG 59.427 40.000 0.00 0.00 0.00 2.90
751 762 5.465935 GCGTAAAAATTGGGTTTGAGATGA 58.534 37.500 0.00 0.00 0.00 2.92
752 763 4.625311 GGCGTAAAAATTGGGTTTGAGATG 59.375 41.667 0.00 0.00 0.00 2.90
753 764 4.617298 CGGCGTAAAAATTGGGTTTGAGAT 60.617 41.667 0.00 0.00 0.00 2.75
754 765 3.304794 CGGCGTAAAAATTGGGTTTGAGA 60.305 43.478 0.00 0.00 0.00 3.27
755 766 2.983803 CGGCGTAAAAATTGGGTTTGAG 59.016 45.455 0.00 0.00 0.00 3.02
756 767 2.288273 CCGGCGTAAAAATTGGGTTTGA 60.288 45.455 6.01 0.00 0.00 2.69
757 768 2.062519 CCGGCGTAAAAATTGGGTTTG 58.937 47.619 6.01 0.00 0.00 2.93
758 769 1.605968 GCCGGCGTAAAAATTGGGTTT 60.606 47.619 12.58 0.00 0.00 3.27
759 770 0.038067 GCCGGCGTAAAAATTGGGTT 60.038 50.000 12.58 0.00 0.00 4.11
760 771 0.896479 AGCCGGCGTAAAAATTGGGT 60.896 50.000 23.20 0.00 0.00 4.51
761 772 0.179148 GAGCCGGCGTAAAAATTGGG 60.179 55.000 23.20 0.00 0.00 4.12
762 773 0.523966 TGAGCCGGCGTAAAAATTGG 59.476 50.000 23.20 0.00 0.00 3.16
763 774 1.613270 GTGAGCCGGCGTAAAAATTG 58.387 50.000 23.20 0.00 0.00 2.32
764 775 0.524414 GGTGAGCCGGCGTAAAAATT 59.476 50.000 23.20 0.00 0.00 1.82
765 776 1.310216 GGGTGAGCCGGCGTAAAAAT 61.310 55.000 23.20 0.00 34.97 1.82
766 777 1.967494 GGGTGAGCCGGCGTAAAAA 60.967 57.895 23.20 0.72 34.97 1.94
767 778 2.358984 GGGTGAGCCGGCGTAAAA 60.359 61.111 23.20 2.78 34.97 1.52
768 779 4.397832 GGGGTGAGCCGGCGTAAA 62.398 66.667 23.20 4.88 34.97 2.01
783 794 1.654220 CCTAAAATCGCCGCATGGG 59.346 57.895 2.06 2.06 39.58 4.00
784 795 1.008538 GCCTAAAATCGCCGCATGG 60.009 57.895 0.00 0.00 38.77 3.66
785 796 0.040958 GAGCCTAAAATCGCCGCATG 60.041 55.000 0.00 0.00 0.00 4.06
786 797 0.179045 AGAGCCTAAAATCGCCGCAT 60.179 50.000 0.00 0.00 0.00 4.73
787 798 0.462375 TAGAGCCTAAAATCGCCGCA 59.538 50.000 0.00 0.00 0.00 5.69
788 799 1.260825 GTTAGAGCCTAAAATCGCCGC 59.739 52.381 0.00 0.00 0.00 6.53
789 800 2.822764 AGTTAGAGCCTAAAATCGCCG 58.177 47.619 0.00 0.00 0.00 6.46
790 801 4.946445 ACTAGTTAGAGCCTAAAATCGCC 58.054 43.478 0.00 0.00 0.00 5.54
791 802 4.983538 GGACTAGTTAGAGCCTAAAATCGC 59.016 45.833 0.00 0.00 0.00 4.58
792 803 5.213675 CGGACTAGTTAGAGCCTAAAATCG 58.786 45.833 0.00 0.00 0.00 3.34
793 804 5.978322 CACGGACTAGTTAGAGCCTAAAATC 59.022 44.000 0.00 0.00 0.00 2.17
794 805 5.163437 CCACGGACTAGTTAGAGCCTAAAAT 60.163 44.000 0.00 0.00 0.00 1.82
795 806 4.159135 CCACGGACTAGTTAGAGCCTAAAA 59.841 45.833 0.00 0.00 0.00 1.52
796 807 3.698040 CCACGGACTAGTTAGAGCCTAAA 59.302 47.826 0.00 0.00 0.00 1.85
797 808 3.285484 CCACGGACTAGTTAGAGCCTAA 58.715 50.000 0.00 0.00 0.00 2.69
798 809 2.928334 CCACGGACTAGTTAGAGCCTA 58.072 52.381 0.00 0.00 0.00 3.93
799 810 1.765230 CCACGGACTAGTTAGAGCCT 58.235 55.000 0.00 0.00 0.00 4.58
800 811 0.102663 GCCACGGACTAGTTAGAGCC 59.897 60.000 0.00 0.00 0.00 4.70
801 812 1.065851 GAGCCACGGACTAGTTAGAGC 59.934 57.143 0.00 3.90 0.00 4.09
802 813 1.331138 CGAGCCACGGACTAGTTAGAG 59.669 57.143 0.00 0.00 38.46 2.43
803 814 1.065926 TCGAGCCACGGACTAGTTAGA 60.066 52.381 0.00 0.00 42.82 2.10
804 815 1.376543 TCGAGCCACGGACTAGTTAG 58.623 55.000 0.00 0.00 42.82 2.34
805 816 1.470098 GTTCGAGCCACGGACTAGTTA 59.530 52.381 0.00 0.00 45.96 2.24
806 817 0.243095 GTTCGAGCCACGGACTAGTT 59.757 55.000 0.00 0.00 45.96 2.24
807 818 1.881602 GTTCGAGCCACGGACTAGT 59.118 57.895 0.00 0.00 45.96 2.57
808 819 4.787999 GTTCGAGCCACGGACTAG 57.212 61.111 5.28 0.00 45.96 2.57
814 825 0.930742 GCGATAGAGTTCGAGCCACG 60.931 60.000 0.00 0.00 41.62 4.94
819 830 4.806247 AGAAAATTGGCGATAGAGTTCGAG 59.194 41.667 0.00 0.00 41.62 4.04
933 949 3.191581 TCTCTTTCTCTACAGTTGGCGAG 59.808 47.826 0.00 0.00 0.00 5.03
934 950 3.154710 TCTCTTTCTCTACAGTTGGCGA 58.845 45.455 0.00 0.00 0.00 5.54
935 951 3.577649 TCTCTTTCTCTACAGTTGGCG 57.422 47.619 0.00 0.00 0.00 5.69
974 1000 0.388649 CGCCGCTGTGTACTCTTTCT 60.389 55.000 0.00 0.00 0.00 2.52
976 1002 1.374252 CCGCCGCTGTGTACTCTTT 60.374 57.895 0.00 0.00 0.00 2.52
1188 1220 3.100671 GGAGATCTAGTGGTGGTTGTCT 58.899 50.000 0.00 0.00 0.00 3.41
1234 1266 6.017026 GGTTAGACTGGAAAGAAAAGTGAAGG 60.017 42.308 0.00 0.00 0.00 3.46
1403 1441 4.511454 TCTCAAACAACTTGACGAATCAGG 59.489 41.667 0.00 0.00 39.20 3.86
1450 1489 3.319122 GGTCCACTCTTTTGCAAACATCT 59.681 43.478 12.39 0.00 0.00 2.90
1555 1607 1.064621 GCGGTTGCCATACATGCAG 59.935 57.895 0.00 0.00 40.35 4.41
1641 2004 0.611896 GTGGGCTTGGGTGTTGCTAT 60.612 55.000 0.00 0.00 0.00 2.97
1648 2011 1.002134 CTACTGGTGGGCTTGGGTG 60.002 63.158 0.00 0.00 0.00 4.61
1678 2041 6.519382 TGTCTGAGTGATCTATTATGCTTGG 58.481 40.000 0.00 0.00 0.00 3.61
1706 2069 3.904136 AGAACCAAAAGAATCGCACTG 57.096 42.857 0.00 0.00 0.00 3.66
1729 2092 4.099113 TGGCAATTGTTTCTGTGTCATCAA 59.901 37.500 7.40 0.00 0.00 2.57
1754 2117 4.764823 AGAAATGATTACTTTGTTGCCGGA 59.235 37.500 5.05 0.00 0.00 5.14


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

AutoCloner maintained by Alex Coulton.