Multiple sequence alignment - TraesCS7A01G346400

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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 TraesCS7A01G346400 chr7A 100.000 2450 0 0 1 2450 509464592 509462143 0.000000e+00 4525.0
1 TraesCS7A01G346400 chr7D 83.645 1816 163 61 687 2418 423712481 423714246 0.000000e+00 1585.0
2 TraesCS7A01G346400 chr7B 84.799 1171 93 28 687 1797 440817070 440818215 0.000000e+00 1098.0
3 TraesCS7A01G346400 chr7B 89.752 644 44 12 1820 2450 440818283 440818917 0.000000e+00 804.0
4 TraesCS7A01G346400 chr6D 96.838 506 15 1 1 505 454022470 454022975 0.000000e+00 845.0
5 TraesCS7A01G346400 chr5B 94.971 517 24 2 1 516 18410772 18410257 0.000000e+00 809.0
6 TraesCS7A01G346400 chr3D 92.979 470 25 3 2 471 22680611 22681072 0.000000e+00 678.0
7 TraesCS7A01G346400 chr3D 96.970 66 2 0 440 505 40786346 40786411 7.160000e-21 111.0
8 TraesCS7A01G346400 chr3D 96.226 53 2 0 454 506 22682615 22682667 1.210000e-13 87.9
9 TraesCS7A01G346400 chr5A 97.721 351 8 0 155 505 533272715 533273065 2.690000e-169 604.0
10 TraesCS7A01G346400 chr5A 96.386 166 6 0 1 166 533270843 533271008 8.630000e-70 274.0
11 TraesCS7A01G346400 chr5A 89.091 220 23 1 287 505 316905311 316905092 3.100000e-69 272.0
12 TraesCS7A01G346400 chr2B 86.226 363 49 1 3 365 57146768 57147129 2.280000e-105 392.0
13 TraesCS7A01G346400 chr2B 88.136 236 24 3 274 505 430227325 430227090 6.670000e-71 278.0
14 TraesCS7A01G346400 chr5D 82.184 348 57 2 162 504 2533056 2533403 6.630000e-76 294.0
15 TraesCS7A01G346400 chr4B 96.875 32 0 1 524 555 602894767 602894737 4.000000e-03 52.8


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 TraesCS7A01G346400 chr7A 509462143 509464592 2449 True 4525.00 4525 100.0000 1 2450 1 chr7A.!!$R1 2449
1 TraesCS7A01G346400 chr7D 423712481 423714246 1765 False 1585.00 1585 83.6450 687 2418 1 chr7D.!!$F1 1731
2 TraesCS7A01G346400 chr7B 440817070 440818917 1847 False 951.00 1098 87.2755 687 2450 2 chr7B.!!$F1 1763
3 TraesCS7A01G346400 chr6D 454022470 454022975 505 False 845.00 845 96.8380 1 505 1 chr6D.!!$F1 504
4 TraesCS7A01G346400 chr5B 18410257 18410772 515 True 809.00 809 94.9710 1 516 1 chr5B.!!$R1 515
5 TraesCS7A01G346400 chr3D 22680611 22682667 2056 False 382.95 678 94.6025 2 506 2 chr3D.!!$F2 504
6 TraesCS7A01G346400 chr5A 533270843 533273065 2222 False 439.00 604 97.0535 1 505 2 chr5A.!!$F1 504

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
864 4173 0.033504 GAACGGTCCACTTCAGCTCA 59.966 55.0 0.0 0.0 0.0 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1959 5359 0.606096 TTGAGCTGCAGCAATGCATT 59.394 45.0 38.24 17.87 44.47 3.56 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
76 77 1.687840 AGGTGCGGGCATGGTACTA 60.688 57.895 0.00 0.00 0.00 1.82
107 108 1.338674 ACGGTGCCATCATTTTCTCGA 60.339 47.619 0.00 0.00 0.00 4.04
204 1923 1.647545 ATGCAATGGTCGCCACTTCG 61.648 55.000 0.00 0.00 35.80 3.79
315 2034 0.868406 GTGAAGTCGCTTCTTGGTGG 59.132 55.000 16.76 0.00 40.73 4.61
432 2151 2.489802 GGCTAAAATCTGGCCCTGCTAT 60.490 50.000 0.00 0.00 39.96 2.97
483 3762 4.834496 TCCTCCAGTTTGAGCAATGAAATT 59.166 37.500 0.00 0.00 36.63 1.82
520 3799 2.228138 AAAAGTTGAGCGTACACGGA 57.772 45.000 3.67 0.00 40.23 4.69
521 3800 2.228138 AAAGTTGAGCGTACACGGAA 57.772 45.000 3.67 0.00 40.23 4.30
522 3801 1.494824 AAGTTGAGCGTACACGGAAC 58.505 50.000 3.67 0.00 40.23 3.62
523 3802 0.672342 AGTTGAGCGTACACGGAACT 59.328 50.000 3.67 0.00 40.23 3.01
524 3803 1.068127 AGTTGAGCGTACACGGAACTT 59.932 47.619 3.67 0.00 40.23 2.66
525 3804 1.191647 GTTGAGCGTACACGGAACTTG 59.808 52.381 3.67 0.00 40.23 3.16
526 3805 0.669619 TGAGCGTACACGGAACTTGA 59.330 50.000 3.67 0.00 40.23 3.02
527 3806 1.271379 TGAGCGTACACGGAACTTGAT 59.729 47.619 3.67 0.00 40.23 2.57
528 3807 2.288579 TGAGCGTACACGGAACTTGATT 60.289 45.455 3.67 0.00 40.23 2.57
529 3808 3.057386 TGAGCGTACACGGAACTTGATTA 60.057 43.478 3.67 0.00 40.23 1.75
530 3809 3.916761 AGCGTACACGGAACTTGATTAA 58.083 40.909 3.67 0.00 40.23 1.40
531 3810 3.924686 AGCGTACACGGAACTTGATTAAG 59.075 43.478 3.67 0.00 40.23 1.85
532 3811 3.676646 GCGTACACGGAACTTGATTAAGT 59.323 43.478 3.67 0.00 43.40 2.24
533 3812 4.201561 GCGTACACGGAACTTGATTAAGTC 60.202 45.833 3.00 0.00 42.00 3.01
534 3813 4.919168 CGTACACGGAACTTGATTAAGTCA 59.081 41.667 3.00 0.00 39.84 3.41
535 3814 5.575606 CGTACACGGAACTTGATTAAGTCAT 59.424 40.000 3.00 0.00 39.84 3.06
536 3815 6.748658 CGTACACGGAACTTGATTAAGTCATA 59.251 38.462 3.00 0.00 39.84 2.15
537 3816 7.044249 CGTACACGGAACTTGATTAAGTCATAG 60.044 40.741 3.00 0.00 39.84 2.23
538 3817 6.698380 ACACGGAACTTGATTAAGTCATAGT 58.302 36.000 3.00 0.04 46.14 2.12
539 3818 6.812160 ACACGGAACTTGATTAAGTCATAGTC 59.188 38.462 3.00 0.00 46.14 2.59
540 3819 6.020599 CACGGAACTTGATTAAGTCATAGTCG 60.021 42.308 3.00 4.86 46.14 4.18
541 3820 6.127814 ACGGAACTTGATTAAGTCATAGTCGA 60.128 38.462 3.00 0.00 46.14 4.20
542 3821 6.196724 CGGAACTTGATTAAGTCATAGTCGAC 59.803 42.308 7.70 7.70 46.14 4.20
543 3822 7.259161 GGAACTTGATTAAGTCATAGTCGACT 58.741 38.462 23.66 23.66 46.14 4.18
544 3823 7.221067 GGAACTTGATTAAGTCATAGTCGACTG 59.779 40.741 28.12 13.36 46.14 3.51
545 3824 7.392494 ACTTGATTAAGTCATAGTCGACTGA 57.608 36.000 28.12 15.63 45.56 3.41
546 3825 7.476667 ACTTGATTAAGTCATAGTCGACTGAG 58.523 38.462 28.12 18.97 45.56 3.35
547 3826 7.337184 ACTTGATTAAGTCATAGTCGACTGAGA 59.663 37.037 28.12 20.89 45.56 3.27
548 3827 7.017498 TGATTAAGTCATAGTCGACTGAGAC 57.983 40.000 29.68 29.68 45.56 3.36
549 3828 7.337184 TTGATTAAGTCATAGTCGACTGAGACT 59.663 37.037 32.00 32.00 45.56 3.24
556 3835 2.836479 GTCGACTGAGACTTAGCCTC 57.164 55.000 8.70 0.00 38.09 4.70
557 3836 1.062880 GTCGACTGAGACTTAGCCTCG 59.937 57.143 8.70 0.00 38.09 4.63
558 3837 0.248296 CGACTGAGACTTAGCCTCGC 60.248 60.000 0.00 0.00 33.51 5.03
559 3838 0.811915 GACTGAGACTTAGCCTCGCA 59.188 55.000 0.00 0.00 33.51 5.10
560 3839 1.202582 GACTGAGACTTAGCCTCGCAA 59.797 52.381 0.00 0.00 33.51 4.85
561 3840 1.618837 ACTGAGACTTAGCCTCGCAAA 59.381 47.619 0.00 0.00 33.51 3.68
562 3841 2.234908 ACTGAGACTTAGCCTCGCAAAT 59.765 45.455 0.00 0.00 33.51 2.32
563 3842 3.265791 CTGAGACTTAGCCTCGCAAATT 58.734 45.455 0.00 0.00 33.51 1.82
564 3843 3.002791 TGAGACTTAGCCTCGCAAATTG 58.997 45.455 0.00 0.00 33.51 2.32
565 3844 1.740025 AGACTTAGCCTCGCAAATTGC 59.260 47.619 8.09 8.09 40.69 3.56
566 3845 1.740025 GACTTAGCCTCGCAAATTGCT 59.260 47.619 16.42 0.00 42.25 3.91
567 3846 1.470098 ACTTAGCCTCGCAAATTGCTG 59.530 47.619 16.42 9.63 42.25 4.41
568 3847 1.739466 CTTAGCCTCGCAAATTGCTGA 59.261 47.619 16.42 13.19 42.25 4.26
569 3848 2.042686 TAGCCTCGCAAATTGCTGAT 57.957 45.000 16.42 5.78 42.25 2.90
570 3849 0.454600 AGCCTCGCAAATTGCTGATG 59.545 50.000 16.42 12.12 42.25 3.07
571 3850 0.171903 GCCTCGCAAATTGCTGATGT 59.828 50.000 16.42 0.00 42.25 3.06
572 3851 1.904144 CCTCGCAAATTGCTGATGTG 58.096 50.000 16.42 0.00 42.25 3.21
573 3852 1.469703 CCTCGCAAATTGCTGATGTGA 59.530 47.619 16.42 3.77 42.25 3.58
574 3853 2.512885 CTCGCAAATTGCTGATGTGAC 58.487 47.619 16.42 0.00 42.25 3.67
575 3854 1.199789 TCGCAAATTGCTGATGTGACC 59.800 47.619 16.42 0.00 42.25 4.02
576 3855 1.621107 GCAAATTGCTGATGTGACCG 58.379 50.000 11.19 0.00 40.96 4.79
577 3856 1.068333 GCAAATTGCTGATGTGACCGT 60.068 47.619 11.19 0.00 40.96 4.83
578 3857 2.855180 CAAATTGCTGATGTGACCGTC 58.145 47.619 0.00 0.00 0.00 4.79
579 3858 2.479566 AATTGCTGATGTGACCGTCT 57.520 45.000 0.00 0.00 0.00 4.18
580 3859 1.730501 ATTGCTGATGTGACCGTCTG 58.269 50.000 0.00 0.00 0.00 3.51
581 3860 0.950555 TTGCTGATGTGACCGTCTGC 60.951 55.000 0.00 9.05 46.21 4.26
582 3861 2.103042 GCTGATGTGACCGTCTGCC 61.103 63.158 0.00 0.00 42.53 4.85
583 3862 1.293179 CTGATGTGACCGTCTGCCA 59.707 57.895 0.00 0.00 0.00 4.92
584 3863 0.320683 CTGATGTGACCGTCTGCCAA 60.321 55.000 0.00 0.00 0.00 4.52
585 3864 0.107643 TGATGTGACCGTCTGCCAAA 59.892 50.000 0.00 0.00 0.00 3.28
586 3865 1.271325 TGATGTGACCGTCTGCCAAAT 60.271 47.619 0.00 0.00 0.00 2.32
587 3866 2.027653 TGATGTGACCGTCTGCCAAATA 60.028 45.455 0.00 0.00 0.00 1.40
588 3867 2.779755 TGTGACCGTCTGCCAAATAT 57.220 45.000 0.00 0.00 0.00 1.28
589 3868 2.355197 TGTGACCGTCTGCCAAATATG 58.645 47.619 0.00 0.00 0.00 1.78
590 3869 2.290008 TGTGACCGTCTGCCAAATATGT 60.290 45.455 0.00 0.00 0.00 2.29
591 3870 3.055747 TGTGACCGTCTGCCAAATATGTA 60.056 43.478 0.00 0.00 0.00 2.29
592 3871 3.555956 GTGACCGTCTGCCAAATATGTAG 59.444 47.826 0.00 0.00 0.00 2.74
593 3872 2.544267 GACCGTCTGCCAAATATGTAGC 59.456 50.000 0.00 0.00 0.00 3.58
594 3873 1.873591 CCGTCTGCCAAATATGTAGCC 59.126 52.381 0.00 0.00 0.00 3.93
595 3874 1.873591 CGTCTGCCAAATATGTAGCCC 59.126 52.381 0.00 0.00 0.00 5.19
596 3875 1.873591 GTCTGCCAAATATGTAGCCCG 59.126 52.381 0.00 0.00 0.00 6.13
597 3876 1.202758 TCTGCCAAATATGTAGCCCGG 60.203 52.381 0.00 0.00 0.00 5.73
598 3877 0.821711 TGCCAAATATGTAGCCCGGC 60.822 55.000 0.00 0.00 38.56 6.13
599 3878 1.524008 GCCAAATATGTAGCCCGGCC 61.524 60.000 5.55 0.00 31.76 6.13
600 3879 0.110486 CCAAATATGTAGCCCGGCCT 59.890 55.000 5.55 0.00 0.00 5.19
601 3880 1.523758 CAAATATGTAGCCCGGCCTC 58.476 55.000 5.55 0.00 0.00 4.70
602 3881 1.072331 CAAATATGTAGCCCGGCCTCT 59.928 52.381 5.55 0.00 0.00 3.69
603 3882 0.977395 AATATGTAGCCCGGCCTCTC 59.023 55.000 5.55 0.00 0.00 3.20
604 3883 1.251527 ATATGTAGCCCGGCCTCTCG 61.252 60.000 5.55 0.00 0.00 4.04
605 3884 2.635787 TATGTAGCCCGGCCTCTCGT 62.636 60.000 5.55 0.00 0.00 4.18
606 3885 3.459063 GTAGCCCGGCCTCTCGTT 61.459 66.667 5.55 0.00 0.00 3.85
607 3886 3.145551 TAGCCCGGCCTCTCGTTC 61.146 66.667 5.55 0.00 0.00 3.95
608 3887 3.949885 TAGCCCGGCCTCTCGTTCA 62.950 63.158 5.55 0.00 0.00 3.18
609 3888 4.388499 GCCCGGCCTCTCGTTCAA 62.388 66.667 0.00 0.00 0.00 2.69
610 3889 2.584608 CCCGGCCTCTCGTTCAAT 59.415 61.111 0.00 0.00 0.00 2.57
611 3890 1.078426 CCCGGCCTCTCGTTCAATT 60.078 57.895 0.00 0.00 0.00 2.32
612 3891 1.090052 CCCGGCCTCTCGTTCAATTC 61.090 60.000 0.00 0.00 0.00 2.17
613 3892 1.090052 CCGGCCTCTCGTTCAATTCC 61.090 60.000 0.00 0.00 0.00 3.01
614 3893 1.090052 CGGCCTCTCGTTCAATTCCC 61.090 60.000 0.00 0.00 0.00 3.97
615 3894 0.253327 GGCCTCTCGTTCAATTCCCT 59.747 55.000 0.00 0.00 0.00 4.20
616 3895 1.485066 GGCCTCTCGTTCAATTCCCTA 59.515 52.381 0.00 0.00 0.00 3.53
617 3896 2.483889 GGCCTCTCGTTCAATTCCCTAG 60.484 54.545 0.00 0.00 0.00 3.02
618 3897 2.168728 GCCTCTCGTTCAATTCCCTAGT 59.831 50.000 0.00 0.00 0.00 2.57
619 3898 3.738590 GCCTCTCGTTCAATTCCCTAGTC 60.739 52.174 0.00 0.00 0.00 2.59
620 3899 3.489398 CCTCTCGTTCAATTCCCTAGTCG 60.489 52.174 0.00 0.00 0.00 4.18
621 3900 2.159282 TCTCGTTCAATTCCCTAGTCGC 60.159 50.000 0.00 0.00 0.00 5.19
622 3901 1.822990 TCGTTCAATTCCCTAGTCGCT 59.177 47.619 0.00 0.00 0.00 4.93
623 3902 1.927174 CGTTCAATTCCCTAGTCGCTG 59.073 52.381 0.00 0.00 0.00 5.18
624 3903 2.674177 CGTTCAATTCCCTAGTCGCTGT 60.674 50.000 0.00 0.00 0.00 4.40
625 3904 2.930682 GTTCAATTCCCTAGTCGCTGTC 59.069 50.000 0.00 0.00 0.00 3.51
626 3905 2.176045 TCAATTCCCTAGTCGCTGTCA 58.824 47.619 0.00 0.00 0.00 3.58
627 3906 2.565391 TCAATTCCCTAGTCGCTGTCAA 59.435 45.455 0.00 0.00 0.00 3.18
628 3907 2.673368 CAATTCCCTAGTCGCTGTCAAC 59.327 50.000 0.00 0.00 0.00 3.18
629 3908 1.334160 TTCCCTAGTCGCTGTCAACA 58.666 50.000 0.00 0.00 0.00 3.33
630 3909 1.334160 TCCCTAGTCGCTGTCAACAA 58.666 50.000 0.00 0.00 0.00 2.83
631 3910 1.899814 TCCCTAGTCGCTGTCAACAAT 59.100 47.619 0.00 0.00 0.00 2.71
632 3911 3.093814 TCCCTAGTCGCTGTCAACAATA 58.906 45.455 0.00 0.00 0.00 1.90
633 3912 3.704566 TCCCTAGTCGCTGTCAACAATAT 59.295 43.478 0.00 0.00 0.00 1.28
634 3913 4.891168 TCCCTAGTCGCTGTCAACAATATA 59.109 41.667 0.00 0.00 0.00 0.86
635 3914 4.982916 CCCTAGTCGCTGTCAACAATATAC 59.017 45.833 0.00 0.00 0.00 1.47
636 3915 5.221263 CCCTAGTCGCTGTCAACAATATACT 60.221 44.000 0.00 0.00 0.00 2.12
637 3916 6.016527 CCCTAGTCGCTGTCAACAATATACTA 60.017 42.308 0.00 0.00 0.00 1.82
638 3917 7.309255 CCCTAGTCGCTGTCAACAATATACTAT 60.309 40.741 0.00 0.00 0.00 2.12
639 3918 8.082852 CCTAGTCGCTGTCAACAATATACTATT 58.917 37.037 0.00 0.00 0.00 1.73
641 3920 8.798748 AGTCGCTGTCAACAATATACTATTAC 57.201 34.615 0.00 0.00 0.00 1.89
642 3921 8.630917 AGTCGCTGTCAACAATATACTATTACT 58.369 33.333 0.00 0.00 0.00 2.24
643 3922 8.903723 GTCGCTGTCAACAATATACTATTACTC 58.096 37.037 0.00 0.00 0.00 2.59
644 3923 8.626526 TCGCTGTCAACAATATACTATTACTCA 58.373 33.333 0.00 0.00 0.00 3.41
645 3924 9.411801 CGCTGTCAACAATATACTATTACTCAT 57.588 33.333 0.00 0.00 0.00 2.90
661 3940 9.311916 CTATTACTCATTAGCATAATCCAGAGC 57.688 37.037 0.00 0.00 0.00 4.09
662 3941 4.564041 ACTCATTAGCATAATCCAGAGCG 58.436 43.478 0.00 0.00 0.00 5.03
663 3942 4.039730 ACTCATTAGCATAATCCAGAGCGT 59.960 41.667 0.00 0.00 0.00 5.07
664 3943 5.243954 ACTCATTAGCATAATCCAGAGCGTA 59.756 40.000 0.00 0.00 0.00 4.42
665 3944 6.071108 ACTCATTAGCATAATCCAGAGCGTAT 60.071 38.462 0.00 0.00 0.00 3.06
666 3945 7.122799 ACTCATTAGCATAATCCAGAGCGTATA 59.877 37.037 0.00 0.00 0.00 1.47
667 3946 7.836842 TCATTAGCATAATCCAGAGCGTATAA 58.163 34.615 0.00 0.00 0.00 0.98
668 3947 8.478066 TCATTAGCATAATCCAGAGCGTATAAT 58.522 33.333 0.00 0.00 0.00 1.28
669 3948 8.759641 CATTAGCATAATCCAGAGCGTATAATC 58.240 37.037 0.00 0.00 0.00 1.75
670 3949 6.537453 AGCATAATCCAGAGCGTATAATCT 57.463 37.500 0.00 0.00 0.00 2.40
671 3950 6.940739 AGCATAATCCAGAGCGTATAATCTT 58.059 36.000 0.00 0.00 0.00 2.40
672 3951 7.038659 AGCATAATCCAGAGCGTATAATCTTC 58.961 38.462 0.00 0.00 0.00 2.87
673 3952 7.038659 GCATAATCCAGAGCGTATAATCTTCT 58.961 38.462 0.00 0.00 0.00 2.85
674 3953 7.009999 GCATAATCCAGAGCGTATAATCTTCTG 59.990 40.741 0.00 0.00 0.00 3.02
675 3954 6.656632 AATCCAGAGCGTATAATCTTCTGA 57.343 37.500 1.63 0.00 0.00 3.27
676 3955 6.849085 ATCCAGAGCGTATAATCTTCTGAT 57.151 37.500 1.63 0.00 33.70 2.90
677 3956 7.946381 ATCCAGAGCGTATAATCTTCTGATA 57.054 36.000 1.63 0.00 31.70 2.15
678 3957 7.761038 TCCAGAGCGTATAATCTTCTGATAA 57.239 36.000 1.63 0.00 31.70 1.75
679 3958 8.178313 TCCAGAGCGTATAATCTTCTGATAAA 57.822 34.615 1.63 0.00 31.70 1.40
680 3959 8.807118 TCCAGAGCGTATAATCTTCTGATAAAT 58.193 33.333 1.63 0.00 31.70 1.40
766 4054 2.586357 GGAATGGTCGCTCTCGCC 60.586 66.667 0.00 0.00 35.26 5.54
802 4111 1.334160 TAACCACCAGAGAAGCGTCA 58.666 50.000 1.61 0.00 0.00 4.35
819 4128 2.414481 CGTCAGTTGAGGCTTCAATCAG 59.586 50.000 14.90 7.86 44.62 2.90
830 4139 3.817647 GGCTTCAATCAGTCAGACAAACT 59.182 43.478 2.66 0.00 0.00 2.66
831 4140 4.320057 GGCTTCAATCAGTCAGACAAACTG 60.320 45.833 2.66 0.00 46.97 3.16
849 4158 6.147821 ACAAACTGAACCTAATCATCAGAACG 59.852 38.462 8.84 0.00 42.48 3.95
864 4173 0.033504 GAACGGTCCACTTCAGCTCA 59.966 55.000 0.00 0.00 0.00 4.26
875 4184 4.521943 CACTTCAGCTCAAAAACTTCGAG 58.478 43.478 0.00 0.00 0.00 4.04
877 4186 1.873591 TCAGCTCAAAAACTTCGAGGC 59.126 47.619 0.00 0.00 0.00 4.70
916 4225 3.250040 ACGCAACCACAAGAGACATAAAC 59.750 43.478 0.00 0.00 0.00 2.01
926 4236 5.065218 ACAAGAGACATAAACCGAATCATGC 59.935 40.000 0.00 0.00 0.00 4.06
927 4237 4.130118 AGAGACATAAACCGAATCATGCC 58.870 43.478 0.00 0.00 0.00 4.40
928 4238 3.876914 GAGACATAAACCGAATCATGCCA 59.123 43.478 0.00 0.00 0.00 4.92
929 4239 3.627577 AGACATAAACCGAATCATGCCAC 59.372 43.478 0.00 0.00 0.00 5.01
930 4240 3.351740 ACATAAACCGAATCATGCCACA 58.648 40.909 0.00 0.00 0.00 4.17
931 4241 3.128589 ACATAAACCGAATCATGCCACAC 59.871 43.478 0.00 0.00 0.00 3.82
932 4242 0.521291 AAACCGAATCATGCCACACG 59.479 50.000 0.00 0.00 0.00 4.49
933 4243 1.922135 AACCGAATCATGCCACACGC 61.922 55.000 0.00 0.00 38.31 5.34
968 4278 2.270205 CCTCAGCTCACGCCCATT 59.730 61.111 0.00 0.00 36.60 3.16
970 4280 1.817099 CTCAGCTCACGCCCATTCC 60.817 63.158 0.00 0.00 36.60 3.01
971 4281 2.046023 CAGCTCACGCCCATTCCA 60.046 61.111 0.00 0.00 36.60 3.53
972 4282 1.675310 CAGCTCACGCCCATTCCAA 60.675 57.895 0.00 0.00 36.60 3.53
975 4285 1.377725 CTCACGCCCATTCCAAGCT 60.378 57.895 0.00 0.00 0.00 3.74
978 4288 3.204827 CGCCCATTCCAAGCTCGG 61.205 66.667 0.00 0.00 0.00 4.63
979 4289 3.521796 GCCCATTCCAAGCTCGGC 61.522 66.667 0.00 0.00 0.00 5.54
980 4290 2.273449 CCCATTCCAAGCTCGGCT 59.727 61.111 0.00 0.00 42.56 5.52
983 4293 1.222936 CATTCCAAGCTCGGCTCCT 59.777 57.895 0.00 0.00 38.25 3.69
984 4294 0.465705 CATTCCAAGCTCGGCTCCTA 59.534 55.000 0.00 0.00 38.25 2.94
985 4295 0.755686 ATTCCAAGCTCGGCTCCTAG 59.244 55.000 0.00 0.00 38.25 3.02
990 4300 3.361174 GCTCGGCTCCTAGCTAGG 58.639 66.667 30.94 30.94 41.99 3.02
991 4301 2.926420 GCTCGGCTCCTAGCTAGGC 61.926 68.421 31.76 21.55 43.31 3.93
992 4302 1.228429 CTCGGCTCCTAGCTAGGCT 60.228 63.158 31.76 0.00 43.31 4.58
993 4303 0.037017 CTCGGCTCCTAGCTAGGCTA 59.963 60.000 31.76 16.86 43.31 3.93
1362 4672 2.103042 GTGCATCGACCTGTGGCTC 61.103 63.158 0.00 0.00 0.00 4.70
1397 4707 4.767255 CCCTCTCTGCCGGTGCAC 62.767 72.222 8.80 8.80 44.23 4.57
1434 4744 2.338785 GGCTCAGGACCTTGCTTGC 61.339 63.158 13.95 4.79 0.00 4.01
1437 4747 0.676151 CTCAGGACCTTGCTTGCCTC 60.676 60.000 0.00 0.00 0.00 4.70
1468 4778 5.063186 GCATAGATTGATCGACCATCACATC 59.937 44.000 0.00 0.00 41.56 3.06
1469 4779 4.000331 AGATTGATCGACCATCACATCC 58.000 45.455 0.00 0.00 41.56 3.51
1478 4794 1.487976 ACCATCACATCCGCAAGAGAT 59.512 47.619 0.00 0.00 43.02 2.75
1481 4797 3.931468 CCATCACATCCGCAAGAGATATC 59.069 47.826 0.00 0.00 43.02 1.63
1573 4912 4.142227 ACTGTAGACTCGTGTGTTTCACTT 60.142 41.667 0.00 0.00 44.16 3.16
1575 4914 2.550978 AGACTCGTGTGTTTCACTTGG 58.449 47.619 0.00 0.00 44.16 3.61
1576 4915 2.167693 AGACTCGTGTGTTTCACTTGGA 59.832 45.455 0.00 0.00 44.16 3.53
1577 4916 2.540101 GACTCGTGTGTTTCACTTGGAG 59.460 50.000 0.00 7.37 44.16 3.86
1579 4918 2.936498 CTCGTGTGTTTCACTTGGAGTT 59.064 45.455 1.72 0.00 44.16 3.01
1580 4919 2.675844 TCGTGTGTTTCACTTGGAGTTG 59.324 45.455 1.72 0.00 44.16 3.16
1581 4920 2.791158 CGTGTGTTTCACTTGGAGTTGC 60.791 50.000 1.72 0.00 44.16 4.17
1591 4937 0.401356 TTGGAGTTGCATCTCAGCCA 59.599 50.000 22.89 12.14 36.30 4.75
1630 4976 5.554822 GCATGAATTGATTGCCAAATTGT 57.445 34.783 0.00 0.00 38.43 2.71
1640 4986 5.069648 TGATTGCCAAATTGTACACTTCCAA 59.930 36.000 0.00 2.50 0.00 3.53
1658 5004 2.489329 CCAATGTCAACATGTGAGACCC 59.511 50.000 22.00 5.96 36.74 4.46
1660 5006 3.507162 ATGTCAACATGTGAGACCCAA 57.493 42.857 22.00 9.71 36.74 4.12
1668 5014 6.718912 TCAACATGTGAGACCCAAATATTTCA 59.281 34.615 0.00 0.00 0.00 2.69
1669 5015 7.232330 TCAACATGTGAGACCCAAATATTTCAA 59.768 33.333 0.00 0.00 0.00 2.69
1671 5017 6.721208 ACATGTGAGACCCAAATATTTCAAGT 59.279 34.615 0.00 0.00 0.00 3.16
1675 5021 5.642063 TGAGACCCAAATATTTCAAGTCGAC 59.358 40.000 7.70 7.70 0.00 4.20
1693 5039 2.124983 GCAGCATTCGAGCAGGGA 60.125 61.111 0.00 0.00 36.85 4.20
1710 5064 4.202182 GCAGGGAAATGCATGACATAATGT 60.202 41.667 0.00 0.00 45.77 2.71
1731 5085 8.991783 AATGTCAATCTAATCATCAGGAATGT 57.008 30.769 0.00 0.00 36.68 2.71
1732 5086 7.797038 TGTCAATCTAATCATCAGGAATGTG 57.203 36.000 0.00 0.00 36.68 3.21
1762 5116 9.887629 ATGAAATATAACAGATAGCAGGAGATG 57.112 33.333 0.00 0.00 0.00 2.90
1775 5129 8.854614 ATAGCAGGAGATGAATACATAAAACC 57.145 34.615 0.00 0.00 36.82 3.27
1781 5135 6.287107 AGATGAATACATAAAACCGAAGCG 57.713 37.500 0.00 0.00 36.82 4.68
1783 5137 6.537301 AGATGAATACATAAAACCGAAGCGAA 59.463 34.615 0.00 0.00 36.82 4.70
1805 5193 7.279313 GCGAACCAAATAAAATGTAGTAGGAGA 59.721 37.037 0.00 0.00 0.00 3.71
1822 5210 8.618702 AGTAGGAGATGAATGAATGCATAAAG 57.381 34.615 0.00 0.00 33.44 1.85
1841 5239 4.685169 AAGAAAATGCGTGTACATGAGG 57.315 40.909 19.38 0.75 0.00 3.86
1845 5243 0.806102 ATGCGTGTACATGAGGCGAC 60.806 55.000 19.38 5.06 0.00 5.19
1942 5342 0.904865 TTCCTCACTCCACGCTCCAT 60.905 55.000 0.00 0.00 0.00 3.41
1949 5349 2.042464 ACTCCACGCTCCATCACATAT 58.958 47.619 0.00 0.00 0.00 1.78
1950 5350 2.224137 ACTCCACGCTCCATCACATATG 60.224 50.000 0.00 0.00 0.00 1.78
1954 5354 3.205338 CACGCTCCATCACATATGGAAA 58.795 45.455 7.80 0.00 46.50 3.13
1959 5359 4.398988 GCTCCATCACATATGGAAAACACA 59.601 41.667 7.80 0.00 46.50 3.72
1960 5360 5.105797 GCTCCATCACATATGGAAAACACAA 60.106 40.000 7.80 0.00 46.50 3.33
1984 5384 4.106029 CATTGCTGCAGCTCAATAGTTT 57.894 40.909 36.61 8.03 42.66 2.66
2039 5440 0.320374 AACCCATCAGAAACGCGAGA 59.680 50.000 15.93 2.47 0.00 4.04
2049 5450 4.035017 CAGAAACGCGAGACAACAAAAAT 58.965 39.130 15.93 0.00 0.00 1.82
2065 5466 6.152932 ACAAAAATTGTTGCAGACAGAGAT 57.847 33.333 8.34 0.00 42.22 2.75
2085 5486 8.407832 CAGAGATATGCACAAAATAAATGACCA 58.592 33.333 0.00 0.00 0.00 4.02
2096 5497 6.976934 AAATAAATGACCAGGTGTTGAGTT 57.023 33.333 0.00 0.00 0.00 3.01
2131 5532 0.733150 GGCTTAAATCTGCACCGGTC 59.267 55.000 2.59 0.00 0.00 4.79
2212 5613 4.606210 ACAAGTATGGGGTTAATGGTTCC 58.394 43.478 0.00 0.00 0.00 3.62
2216 5617 0.112606 TGGGGTTAATGGTTCCGCAA 59.887 50.000 0.00 0.00 40.31 4.85
2228 5629 2.350772 GGTTCCGCAAAGACTTGACATG 60.351 50.000 0.00 0.00 34.14 3.21
2281 5687 8.884124 TTTTCCATGATCCAGTTTCTAAGAAT 57.116 30.769 0.00 0.00 0.00 2.40
2295 5701 9.914131 AGTTTCTAAGAATTGAAATAGGCAAAC 57.086 29.630 0.00 0.00 35.13 2.93
2329 5735 0.471780 TGACTCTTGGCTCAGGTGGA 60.472 55.000 0.00 0.00 0.00 4.02
2360 5766 4.108699 TCTTGTTGGTGAAGCTGTTTTG 57.891 40.909 0.00 0.00 0.00 2.44
2361 5767 2.957491 TGTTGGTGAAGCTGTTTTGG 57.043 45.000 0.00 0.00 0.00 3.28
2371 5777 4.222588 TGAAGCTGTTTTGGGATATTTGGG 59.777 41.667 0.00 0.00 0.00 4.12
2372 5778 3.790126 AGCTGTTTTGGGATATTTGGGT 58.210 40.909 0.00 0.00 0.00 4.51
2378 5784 5.221541 TGTTTTGGGATATTTGGGTGTGTTC 60.222 40.000 0.00 0.00 0.00 3.18
2418 5830 8.964476 TCTCATGACTTCAAAAAGGGATATAC 57.036 34.615 0.00 0.00 36.78 1.47
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
107 108 2.158608 AGTTAACCAGGCTTCTGCAAGT 60.159 45.455 0.88 0.00 41.91 3.16
204 1923 2.868583 CAATCCATCTCGACATCCACAC 59.131 50.000 0.00 0.00 0.00 3.82
432 2151 3.702045 CTCCAAACAAAGTTGGGGTACAA 59.298 43.478 3.60 0.00 46.89 2.41
506 3785 1.067364 TCAAGTTCCGTGTACGCTCAA 59.933 47.619 4.67 0.00 38.18 3.02
508 3787 1.992170 ATCAAGTTCCGTGTACGCTC 58.008 50.000 4.67 0.00 38.18 5.03
509 3788 2.450609 AATCAAGTTCCGTGTACGCT 57.549 45.000 4.67 0.00 38.18 5.07
511 3790 4.919168 TGACTTAATCAAGTTCCGTGTACG 59.081 41.667 0.00 0.00 45.18 3.67
516 3795 6.034591 CGACTATGACTTAATCAAGTTCCGT 58.965 40.000 0.00 0.00 45.18 4.69
517 3796 6.196724 GTCGACTATGACTTAATCAAGTTCCG 59.803 42.308 8.70 0.00 45.18 4.30
518 3797 7.221067 CAGTCGACTATGACTTAATCAAGTTCC 59.779 40.741 19.57 0.00 46.85 3.62
519 3798 7.968956 TCAGTCGACTATGACTTAATCAAGTTC 59.031 37.037 19.57 0.00 46.85 3.01
520 3799 7.827701 TCAGTCGACTATGACTTAATCAAGTT 58.172 34.615 19.57 0.00 46.85 2.66
521 3800 7.337184 TCTCAGTCGACTATGACTTAATCAAGT 59.663 37.037 19.57 0.00 46.85 3.16
522 3801 7.642194 GTCTCAGTCGACTATGACTTAATCAAG 59.358 40.741 28.17 11.43 46.85 3.02
523 3802 7.337184 AGTCTCAGTCGACTATGACTTAATCAA 59.663 37.037 30.55 6.16 46.85 2.57
524 3803 6.824196 AGTCTCAGTCGACTATGACTTAATCA 59.176 38.462 30.55 6.69 46.85 2.57
525 3804 7.254227 AGTCTCAGTCGACTATGACTTAATC 57.746 40.000 30.55 15.61 46.85 1.75
526 3805 7.633193 AAGTCTCAGTCGACTATGACTTAAT 57.367 36.000 36.91 25.67 46.85 1.40
527 3806 7.201626 GCTAAGTCTCAGTCGACTATGACTTAA 60.202 40.741 37.56 29.64 46.85 1.85
528 3807 6.258287 GCTAAGTCTCAGTCGACTATGACTTA 59.742 42.308 36.94 36.94 46.85 2.24
529 3808 5.065474 GCTAAGTCTCAGTCGACTATGACTT 59.935 44.000 37.94 37.94 46.85 3.01
531 3810 4.260866 GGCTAAGTCTCAGTCGACTATGAC 60.261 50.000 28.21 28.21 43.14 3.06
532 3811 3.878103 GGCTAAGTCTCAGTCGACTATGA 59.122 47.826 19.57 15.92 43.14 2.15
533 3812 3.880490 AGGCTAAGTCTCAGTCGACTATG 59.120 47.826 19.57 13.78 43.14 2.23
534 3813 4.131596 GAGGCTAAGTCTCAGTCGACTAT 58.868 47.826 19.57 0.00 43.14 2.12
535 3814 3.533547 GAGGCTAAGTCTCAGTCGACTA 58.466 50.000 19.57 0.00 43.14 2.59
536 3815 2.361789 GAGGCTAAGTCTCAGTCGACT 58.638 52.381 13.58 13.58 45.73 4.18
537 3816 1.062880 CGAGGCTAAGTCTCAGTCGAC 59.937 57.143 7.70 7.70 33.34 4.20
538 3817 1.370609 CGAGGCTAAGTCTCAGTCGA 58.629 55.000 0.00 0.00 33.34 4.20
539 3818 0.248296 GCGAGGCTAAGTCTCAGTCG 60.248 60.000 0.00 0.00 33.34 4.18
540 3819 0.811915 TGCGAGGCTAAGTCTCAGTC 59.188 55.000 0.00 0.00 33.34 3.51
541 3820 1.257743 TTGCGAGGCTAAGTCTCAGT 58.742 50.000 0.00 0.00 33.34 3.41
542 3821 2.370281 TTTGCGAGGCTAAGTCTCAG 57.630 50.000 0.00 0.00 33.34 3.35
543 3822 3.002791 CAATTTGCGAGGCTAAGTCTCA 58.997 45.455 0.00 0.00 33.34 3.27
544 3823 2.223135 GCAATTTGCGAGGCTAAGTCTC 60.223 50.000 5.49 0.00 31.71 3.36
545 3824 1.740025 GCAATTTGCGAGGCTAAGTCT 59.260 47.619 5.49 0.00 31.71 3.24
546 3825 2.179949 GCAATTTGCGAGGCTAAGTC 57.820 50.000 5.49 0.00 31.71 3.01
557 3836 1.068333 ACGGTCACATCAGCAATTTGC 60.068 47.619 13.55 13.55 45.46 3.68
558 3837 2.485426 AGACGGTCACATCAGCAATTTG 59.515 45.455 11.27 0.00 0.00 2.32
559 3838 2.485426 CAGACGGTCACATCAGCAATTT 59.515 45.455 11.27 0.00 0.00 1.82
560 3839 2.079158 CAGACGGTCACATCAGCAATT 58.921 47.619 11.27 0.00 0.00 2.32
561 3840 1.730501 CAGACGGTCACATCAGCAAT 58.269 50.000 11.27 0.00 0.00 3.56
562 3841 0.950555 GCAGACGGTCACATCAGCAA 60.951 55.000 11.27 0.00 0.00 3.91
563 3842 1.374631 GCAGACGGTCACATCAGCA 60.375 57.895 11.27 0.00 0.00 4.41
564 3843 2.103042 GGCAGACGGTCACATCAGC 61.103 63.158 11.27 4.35 0.00 4.26
565 3844 0.320683 TTGGCAGACGGTCACATCAG 60.321 55.000 11.27 0.00 0.00 2.90
566 3845 0.107643 TTTGGCAGACGGTCACATCA 59.892 50.000 11.27 0.53 0.00 3.07
567 3846 1.453155 ATTTGGCAGACGGTCACATC 58.547 50.000 11.27 0.00 0.00 3.06
568 3847 2.779755 TATTTGGCAGACGGTCACAT 57.220 45.000 11.27 0.00 0.00 3.21
569 3848 2.290008 ACATATTTGGCAGACGGTCACA 60.290 45.455 11.27 3.61 0.00 3.58
570 3849 2.356135 ACATATTTGGCAGACGGTCAC 58.644 47.619 11.27 1.69 0.00 3.67
571 3850 2.779755 ACATATTTGGCAGACGGTCA 57.220 45.000 11.27 0.00 0.00 4.02
572 3851 2.544267 GCTACATATTTGGCAGACGGTC 59.456 50.000 0.00 0.00 0.00 4.79
573 3852 2.561569 GCTACATATTTGGCAGACGGT 58.438 47.619 0.00 0.00 0.00 4.83
574 3853 1.873591 GGCTACATATTTGGCAGACGG 59.126 52.381 0.00 0.00 0.00 4.79
575 3854 1.873591 GGGCTACATATTTGGCAGACG 59.126 52.381 0.00 0.00 0.00 4.18
576 3855 1.873591 CGGGCTACATATTTGGCAGAC 59.126 52.381 0.00 0.00 0.00 3.51
577 3856 1.202758 CCGGGCTACATATTTGGCAGA 60.203 52.381 0.00 0.00 0.00 4.26
578 3857 1.238439 CCGGGCTACATATTTGGCAG 58.762 55.000 0.00 0.00 0.00 4.85
579 3858 0.821711 GCCGGGCTACATATTTGGCA 60.822 55.000 12.87 0.00 40.66 4.92
580 3859 1.524008 GGCCGGGCTACATATTTGGC 61.524 60.000 22.87 0.00 40.25 4.52
581 3860 0.110486 AGGCCGGGCTACATATTTGG 59.890 55.000 31.90 0.00 0.00 3.28
582 3861 1.072331 AGAGGCCGGGCTACATATTTG 59.928 52.381 32.93 0.00 0.00 2.32
583 3862 1.348036 GAGAGGCCGGGCTACATATTT 59.652 52.381 32.93 6.09 0.00 1.40
584 3863 0.977395 GAGAGGCCGGGCTACATATT 59.023 55.000 32.93 7.02 0.00 1.28
585 3864 1.251527 CGAGAGGCCGGGCTACATAT 61.252 60.000 32.93 14.54 0.00 1.78
586 3865 1.901948 CGAGAGGCCGGGCTACATA 60.902 63.158 32.93 0.00 0.00 2.29
587 3866 3.227276 CGAGAGGCCGGGCTACAT 61.227 66.667 32.93 20.04 0.00 2.29
588 3867 4.753662 ACGAGAGGCCGGGCTACA 62.754 66.667 32.93 0.00 0.00 2.74
589 3868 3.427598 GAACGAGAGGCCGGGCTAC 62.428 68.421 32.93 25.10 0.00 3.58
590 3869 3.145551 GAACGAGAGGCCGGGCTA 61.146 66.667 32.93 0.00 0.00 3.93
592 3871 3.682292 ATTGAACGAGAGGCCGGGC 62.682 63.158 22.67 22.67 0.00 6.13
593 3872 1.078426 AATTGAACGAGAGGCCGGG 60.078 57.895 2.18 0.00 0.00 5.73
594 3873 1.090052 GGAATTGAACGAGAGGCCGG 61.090 60.000 0.00 0.00 0.00 6.13
595 3874 1.090052 GGGAATTGAACGAGAGGCCG 61.090 60.000 0.00 0.00 0.00 6.13
596 3875 0.253327 AGGGAATTGAACGAGAGGCC 59.747 55.000 0.00 0.00 0.00 5.19
597 3876 2.168728 ACTAGGGAATTGAACGAGAGGC 59.831 50.000 0.00 0.00 0.00 4.70
598 3877 3.489398 CGACTAGGGAATTGAACGAGAGG 60.489 52.174 0.00 0.00 0.00 3.69
599 3878 3.696898 CGACTAGGGAATTGAACGAGAG 58.303 50.000 0.00 0.00 0.00 3.20
600 3879 2.159282 GCGACTAGGGAATTGAACGAGA 60.159 50.000 0.00 0.00 0.00 4.04
601 3880 2.159226 AGCGACTAGGGAATTGAACGAG 60.159 50.000 0.00 0.00 0.00 4.18
602 3881 1.822990 AGCGACTAGGGAATTGAACGA 59.177 47.619 0.00 0.00 0.00 3.85
603 3882 1.927174 CAGCGACTAGGGAATTGAACG 59.073 52.381 0.00 0.00 0.00 3.95
604 3883 2.930682 GACAGCGACTAGGGAATTGAAC 59.069 50.000 0.00 0.00 0.00 3.18
605 3884 2.565391 TGACAGCGACTAGGGAATTGAA 59.435 45.455 0.00 0.00 0.00 2.69
606 3885 2.176045 TGACAGCGACTAGGGAATTGA 58.824 47.619 0.00 0.00 0.00 2.57
607 3886 2.672961 TGACAGCGACTAGGGAATTG 57.327 50.000 0.00 0.00 0.00 2.32
608 3887 2.301870 TGTTGACAGCGACTAGGGAATT 59.698 45.455 0.00 0.00 0.00 2.17
609 3888 1.899814 TGTTGACAGCGACTAGGGAAT 59.100 47.619 0.00 0.00 0.00 3.01
610 3889 1.334160 TGTTGACAGCGACTAGGGAA 58.666 50.000 0.00 0.00 0.00 3.97
611 3890 1.334160 TTGTTGACAGCGACTAGGGA 58.666 50.000 0.00 0.00 0.00 4.20
612 3891 2.386661 ATTGTTGACAGCGACTAGGG 57.613 50.000 0.00 0.00 0.00 3.53
613 3892 5.833082 AGTATATTGTTGACAGCGACTAGG 58.167 41.667 0.00 0.00 0.00 3.02
615 3894 9.888878 GTAATAGTATATTGTTGACAGCGACTA 57.111 33.333 0.00 0.00 0.00 2.59
616 3895 8.630917 AGTAATAGTATATTGTTGACAGCGACT 58.369 33.333 0.00 0.00 0.00 4.18
617 3896 8.798748 AGTAATAGTATATTGTTGACAGCGAC 57.201 34.615 0.00 0.00 0.00 5.19
618 3897 8.626526 TGAGTAATAGTATATTGTTGACAGCGA 58.373 33.333 0.00 0.00 0.00 4.93
619 3898 8.797266 TGAGTAATAGTATATTGTTGACAGCG 57.203 34.615 0.00 0.00 0.00 5.18
635 3914 9.311916 GCTCTGGATTATGCTAATGAGTAATAG 57.688 37.037 0.00 0.00 0.00 1.73
636 3915 7.976175 CGCTCTGGATTATGCTAATGAGTAATA 59.024 37.037 0.00 0.00 0.00 0.98
637 3916 6.815641 CGCTCTGGATTATGCTAATGAGTAAT 59.184 38.462 0.00 0.00 0.00 1.89
638 3917 6.159293 CGCTCTGGATTATGCTAATGAGTAA 58.841 40.000 0.00 0.00 0.00 2.24
639 3918 5.243954 ACGCTCTGGATTATGCTAATGAGTA 59.756 40.000 0.00 0.00 0.00 2.59
640 3919 4.039730 ACGCTCTGGATTATGCTAATGAGT 59.960 41.667 0.00 0.00 0.00 3.41
641 3920 4.564041 ACGCTCTGGATTATGCTAATGAG 58.436 43.478 0.00 0.00 0.00 2.90
642 3921 4.607293 ACGCTCTGGATTATGCTAATGA 57.393 40.909 0.00 0.00 0.00 2.57
643 3922 8.654230 ATTATACGCTCTGGATTATGCTAATG 57.346 34.615 0.00 0.00 0.00 1.90
644 3923 8.700051 AGATTATACGCTCTGGATTATGCTAAT 58.300 33.333 0.00 0.00 0.00 1.73
645 3924 8.067751 AGATTATACGCTCTGGATTATGCTAA 57.932 34.615 0.00 0.00 0.00 3.09
646 3925 7.646548 AGATTATACGCTCTGGATTATGCTA 57.353 36.000 0.00 0.00 0.00 3.49
647 3926 6.537453 AGATTATACGCTCTGGATTATGCT 57.463 37.500 0.00 0.00 0.00 3.79
648 3927 7.009999 CAGAAGATTATACGCTCTGGATTATGC 59.990 40.741 0.00 0.00 0.00 3.14
649 3928 8.246871 TCAGAAGATTATACGCTCTGGATTATG 58.753 37.037 0.00 0.00 0.00 1.90
650 3929 8.354711 TCAGAAGATTATACGCTCTGGATTAT 57.645 34.615 0.00 0.00 0.00 1.28
651 3930 7.761038 TCAGAAGATTATACGCTCTGGATTA 57.239 36.000 0.00 0.00 0.00 1.75
652 3931 6.656632 TCAGAAGATTATACGCTCTGGATT 57.343 37.500 0.00 0.00 0.00 3.01
653 3932 6.849085 ATCAGAAGATTATACGCTCTGGAT 57.151 37.500 0.00 0.00 0.00 3.41
654 3933 7.761038 TTATCAGAAGATTATACGCTCTGGA 57.239 36.000 0.00 0.00 35.67 3.86
655 3934 8.994429 ATTTATCAGAAGATTATACGCTCTGG 57.006 34.615 0.00 0.00 35.67 3.86
667 3946 8.877779 GCGTGCATATCTTATTTATCAGAAGAT 58.122 33.333 0.00 0.00 41.60 2.40
668 3947 7.872483 TGCGTGCATATCTTATTTATCAGAAGA 59.128 33.333 0.00 0.00 33.90 2.87
669 3948 8.021955 TGCGTGCATATCTTATTTATCAGAAG 57.978 34.615 0.00 0.00 0.00 2.85
670 3949 7.961325 TGCGTGCATATCTTATTTATCAGAA 57.039 32.000 0.00 0.00 0.00 3.02
671 3950 7.118245 CCTTGCGTGCATATCTTATTTATCAGA 59.882 37.037 0.00 0.00 0.00 3.27
672 3951 7.118245 TCCTTGCGTGCATATCTTATTTATCAG 59.882 37.037 0.00 0.00 0.00 2.90
673 3952 6.934083 TCCTTGCGTGCATATCTTATTTATCA 59.066 34.615 0.00 0.00 0.00 2.15
674 3953 7.364522 TCCTTGCGTGCATATCTTATTTATC 57.635 36.000 0.00 0.00 0.00 1.75
675 3954 7.826252 AGATCCTTGCGTGCATATCTTATTTAT 59.174 33.333 0.00 0.00 0.00 1.40
676 3955 7.161404 AGATCCTTGCGTGCATATCTTATTTA 58.839 34.615 0.00 0.00 0.00 1.40
677 3956 6.000219 AGATCCTTGCGTGCATATCTTATTT 59.000 36.000 0.00 0.00 0.00 1.40
678 3957 5.555017 AGATCCTTGCGTGCATATCTTATT 58.445 37.500 0.00 0.00 0.00 1.40
679 3958 5.046735 AGAGATCCTTGCGTGCATATCTTAT 60.047 40.000 12.97 6.08 0.00 1.73
680 3959 4.281941 AGAGATCCTTGCGTGCATATCTTA 59.718 41.667 12.97 0.00 0.00 2.10
681 3960 3.070734 AGAGATCCTTGCGTGCATATCTT 59.929 43.478 12.97 4.87 0.00 2.40
682 3961 2.632028 AGAGATCCTTGCGTGCATATCT 59.368 45.455 12.08 12.08 0.00 1.98
683 3962 3.037431 AGAGATCCTTGCGTGCATATC 57.963 47.619 0.00 0.17 0.00 1.63
684 3963 3.181462 TGAAGAGATCCTTGCGTGCATAT 60.181 43.478 0.00 0.00 34.68 1.78
685 3964 2.168313 TGAAGAGATCCTTGCGTGCATA 59.832 45.455 0.00 0.00 34.68 3.14
692 3971 5.351465 TCGTAACAAATGAAGAGATCCTTGC 59.649 40.000 1.70 0.00 34.68 4.01
726 4005 2.236395 CTGATTTGAAGGGGTCGGTAGT 59.764 50.000 0.00 0.00 0.00 2.73
730 4009 1.453155 CACTGATTTGAAGGGGTCGG 58.547 55.000 0.00 0.00 0.00 4.79
731 4010 1.003118 TCCACTGATTTGAAGGGGTCG 59.997 52.381 0.00 0.00 39.44 4.79
802 4111 3.326006 TCTGACTGATTGAAGCCTCAACT 59.674 43.478 0.00 0.00 44.28 3.16
830 4139 4.382685 GGACCGTTCTGATGATTAGGTTCA 60.383 45.833 0.00 0.00 0.00 3.18
831 4140 4.120589 GGACCGTTCTGATGATTAGGTTC 58.879 47.826 0.00 0.00 0.00 3.62
849 4158 2.952310 AGTTTTTGAGCTGAAGTGGACC 59.048 45.455 0.00 0.00 0.00 4.46
864 4173 1.235281 GCCTCCGCCTCGAAGTTTTT 61.235 55.000 0.00 0.00 0.00 1.94
875 4184 2.125512 CACAGTACTGCCTCCGCC 60.126 66.667 22.90 0.00 0.00 6.13
877 4186 1.738099 GTGCACAGTACTGCCTCCG 60.738 63.158 22.90 7.53 36.21 4.63
886 4195 0.744771 TTGTGGTTGCGTGCACAGTA 60.745 50.000 18.64 6.52 0.00 2.74
916 4225 2.404789 GCGTGTGGCATGATTCGG 59.595 61.111 0.00 0.00 42.87 4.30
926 4236 2.740055 GAGTGGAGCTGCGTGTGG 60.740 66.667 0.00 0.00 0.00 4.17
927 4237 2.740055 GGAGTGGAGCTGCGTGTG 60.740 66.667 0.00 0.00 0.00 3.82
928 4238 3.231889 CTGGAGTGGAGCTGCGTGT 62.232 63.158 0.00 0.00 38.50 4.49
929 4239 2.433838 CTGGAGTGGAGCTGCGTG 60.434 66.667 0.00 0.00 38.50 5.34
930 4240 4.385405 GCTGGAGTGGAGCTGCGT 62.385 66.667 0.00 0.00 38.50 5.24
939 4249 4.463879 CTGAGGGGCGCTGGAGTG 62.464 72.222 9.52 0.00 0.00 3.51
958 4268 1.377202 GAGCTTGGAATGGGCGTGA 60.377 57.895 0.00 0.00 0.00 4.35
959 4269 2.753966 CGAGCTTGGAATGGGCGTG 61.754 63.158 0.00 0.00 0.00 5.34
962 4272 3.521796 GCCGAGCTTGGAATGGGC 61.522 66.667 25.25 0.71 0.00 5.36
964 4274 1.821332 GGAGCCGAGCTTGGAATGG 60.821 63.158 25.25 3.00 39.88 3.16
965 4275 0.465705 TAGGAGCCGAGCTTGGAATG 59.534 55.000 25.25 0.00 39.88 2.67
966 4276 0.755686 CTAGGAGCCGAGCTTGGAAT 59.244 55.000 25.25 11.17 39.88 3.01
968 4278 2.427245 GCTAGGAGCCGAGCTTGGA 61.427 63.158 25.25 0.64 39.88 3.53
975 4285 0.477204 TTAGCCTAGCTAGGAGCCGA 59.523 55.000 38.74 17.55 46.63 5.54
978 4288 0.242555 CGCTTAGCCTAGCTAGGAGC 59.757 60.000 38.74 33.49 46.63 4.70
979 4289 0.885196 CCGCTTAGCCTAGCTAGGAG 59.115 60.000 38.74 27.89 46.63 3.69
980 4290 1.179814 GCCGCTTAGCCTAGCTAGGA 61.180 60.000 38.74 19.61 46.63 2.94
983 4293 0.318441 CATGCCGCTTAGCCTAGCTA 59.682 55.000 0.00 0.00 40.44 3.32
984 4294 1.070445 CATGCCGCTTAGCCTAGCT 59.930 57.895 0.00 0.00 43.41 3.32
985 4295 2.611630 GCATGCCGCTTAGCCTAGC 61.612 63.158 6.36 0.00 37.77 3.42
988 4298 3.976701 AACGCATGCCGCTTAGCCT 62.977 57.895 13.15 0.00 41.76 4.58
990 4300 1.583709 GAAACGCATGCCGCTTAGC 60.584 57.895 13.15 0.00 41.76 3.09
991 4301 1.296867 CGAAACGCATGCCGCTTAG 60.297 57.895 13.15 0.00 41.76 2.18
992 4302 2.781957 CGAAACGCATGCCGCTTA 59.218 55.556 13.15 0.00 41.76 3.09
1004 4314 4.160635 CGGGCGACATGGCGAAAC 62.161 66.667 28.68 13.92 46.04 2.78
1134 4444 4.707768 TCCATGTCCCCGTCCGGT 62.708 66.667 0.00 0.00 0.00 5.28
1188 4498 2.436646 AACGGCGGGAGAATGCTG 60.437 61.111 13.24 0.00 43.17 4.41
1192 4502 0.828022 TACATGAACGGCGGGAGAAT 59.172 50.000 13.24 0.00 0.00 2.40
1406 4716 2.279120 CCTGAGCCGAGCGATCAC 60.279 66.667 0.00 0.00 0.00 3.06
1434 4744 4.567971 GATCAATCTATGCAGGTGAGAGG 58.432 47.826 0.00 0.00 0.00 3.69
1437 4747 3.986572 GTCGATCAATCTATGCAGGTGAG 59.013 47.826 0.00 0.00 0.00 3.51
1536 4875 9.993454 ACGAGTCTACAGTTCACACTATATATA 57.007 33.333 0.00 0.00 0.00 0.86
1537 4876 8.775527 CACGAGTCTACAGTTCACACTATATAT 58.224 37.037 0.00 0.00 0.00 0.86
1542 4881 4.024302 CACACGAGTCTACAGTTCACACTA 60.024 45.833 0.00 0.00 0.00 2.74
1543 4882 2.950309 ACACGAGTCTACAGTTCACACT 59.050 45.455 0.00 0.00 0.00 3.55
1573 4912 0.622136 ATGGCTGAGATGCAACTCCA 59.378 50.000 20.01 12.65 36.22 3.86
1575 4914 1.941294 CTGATGGCTGAGATGCAACTC 59.059 52.381 16.54 16.54 37.42 3.01
1576 4915 1.408405 CCTGATGGCTGAGATGCAACT 60.408 52.381 0.00 0.00 34.04 3.16
1577 4916 1.022735 CCTGATGGCTGAGATGCAAC 58.977 55.000 0.00 0.00 34.04 4.17
1579 4918 1.071857 GATCCTGATGGCTGAGATGCA 59.928 52.381 0.00 0.00 34.04 3.96
1580 4919 1.611148 GGATCCTGATGGCTGAGATGC 60.611 57.143 3.84 0.00 0.00 3.91
1581 4920 1.003349 GGGATCCTGATGGCTGAGATG 59.997 57.143 12.58 0.00 0.00 2.90
1591 4937 1.526315 TGCCTTCATGGGATCCTGAT 58.474 50.000 12.58 1.04 36.00 2.90
1629 4975 5.238432 TCACATGTTGACATTGGAAGTGTAC 59.762 40.000 0.00 0.00 33.61 2.90
1630 4976 5.372373 TCACATGTTGACATTGGAAGTGTA 58.628 37.500 0.00 0.00 33.61 2.90
1640 4986 3.507162 TTGGGTCTCACATGTTGACAT 57.493 42.857 22.54 0.00 36.96 3.06
1658 5004 3.780801 GCTGCGTCGACTTGAAATATTTG 59.219 43.478 14.70 0.00 0.00 2.32
1660 5006 3.000041 TGCTGCGTCGACTTGAAATATT 59.000 40.909 14.70 0.00 0.00 1.28
1668 5014 1.073216 CTCGAATGCTGCGTCGACTT 61.073 55.000 20.03 0.00 41.13 3.01
1669 5015 1.515088 CTCGAATGCTGCGTCGACT 60.515 57.895 20.03 0.00 41.13 4.18
1671 5017 2.880879 GCTCGAATGCTGCGTCGA 60.881 61.111 21.76 21.76 43.61 4.20
1675 5021 3.570638 CCCTGCTCGAATGCTGCG 61.571 66.667 0.00 0.00 0.00 5.18
1745 5099 6.737720 TGTATTCATCTCCTGCTATCTGTT 57.262 37.500 0.00 0.00 0.00 3.16
1749 5103 8.940952 GGTTTTATGTATTCATCTCCTGCTATC 58.059 37.037 0.00 0.00 35.70 2.08
1762 5116 5.163834 TGGTTCGCTTCGGTTTTATGTATTC 60.164 40.000 0.00 0.00 0.00 1.75
1775 5129 6.311723 ACTACATTTTATTTGGTTCGCTTCG 58.688 36.000 0.00 0.00 0.00 3.79
1805 5193 7.493320 ACGCATTTTCTTTATGCATTCATTCAT 59.507 29.630 3.54 0.00 46.77 2.57
1822 5210 2.785679 GCCTCATGTACACGCATTTTC 58.214 47.619 0.00 0.00 0.00 2.29
1830 5228 1.518572 CCCGTCGCCTCATGTACAC 60.519 63.158 0.00 0.00 0.00 2.90
1831 5229 2.717044 CCCCGTCGCCTCATGTACA 61.717 63.158 0.00 0.00 0.00 2.90
1859 5258 1.817357 TGCAACTGAGCAATCAGAGG 58.183 50.000 12.00 4.79 42.46 3.69
1942 5342 5.718724 TGCATTGTGTTTTCCATATGTGA 57.281 34.783 1.24 0.00 0.00 3.58
1949 5349 3.132160 CAGCAATGCATTGTGTTTTCCA 58.868 40.909 33.67 0.00 39.88 3.53
1950 5350 2.096119 GCAGCAATGCATTGTGTTTTCC 60.096 45.455 33.67 18.86 39.88 3.13
1954 5354 1.790755 CTGCAGCAATGCATTGTGTT 58.209 45.000 33.67 20.23 44.47 3.32
1959 5359 0.606096 TTGAGCTGCAGCAATGCATT 59.394 45.000 38.24 17.87 44.47 3.56
1960 5360 0.824109 ATTGAGCTGCAGCAATGCAT 59.176 45.000 38.24 18.66 44.47 3.96
1984 5384 8.689972 CCTGTCTGCATGTCTATGTATATGATA 58.310 37.037 0.00 0.00 36.65 2.15
1996 5396 3.618507 GCTTAACTCCTGTCTGCATGTCT 60.619 47.826 0.00 0.00 0.00 3.41
2001 5401 2.878406 GTTTGCTTAACTCCTGTCTGCA 59.122 45.455 0.00 0.00 33.79 4.41
2049 5450 3.686241 GTGCATATCTCTGTCTGCAACAA 59.314 43.478 0.00 0.00 45.34 2.83
2054 5455 4.952262 TTTTGTGCATATCTCTGTCTGC 57.048 40.909 0.00 0.00 35.21 4.26
2065 5466 6.210385 ACACCTGGTCATTTATTTTGTGCATA 59.790 34.615 0.00 0.00 0.00 3.14
2085 5486 2.158623 TCTTCATGGCAACTCAACACCT 60.159 45.455 0.00 0.00 37.61 4.00
2131 5532 4.127171 CAGGAATAACAACCTATGGTCGG 58.873 47.826 0.00 0.00 33.12 4.79
2212 5613 5.270083 TGTTTAACATGTCAAGTCTTTGCG 58.730 37.500 0.00 0.00 34.21 4.85
2281 5687 2.029110 GCAGCCAGTTTGCCTATTTCAA 60.029 45.455 0.00 0.00 35.54 2.69
2295 5701 1.863454 GAGTCACGATAATGCAGCCAG 59.137 52.381 0.00 0.00 0.00 4.85
2329 5735 8.627403 CAGCTTCACCAACAAGATTATCATAAT 58.373 33.333 0.00 0.00 0.00 1.28
2360 5766 2.021457 CCGAACACACCCAAATATCCC 58.979 52.381 0.00 0.00 0.00 3.85
2361 5767 1.404035 GCCGAACACACCCAAATATCC 59.596 52.381 0.00 0.00 0.00 2.59
2394 5801 8.970859 AGTATATCCCTTTTTGAAGTCATGAG 57.029 34.615 0.00 0.00 0.00 2.90


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

AutoCloner maintained by Alex Coulton.