Multiple sequence alignment - TraesCS4D01G141300

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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 TraesCS4D01G141300 chr4D 100.000 2696 0 0 1 2696 125233208 125230513 0.000000e+00 4979.0
1 TraesCS4D01G141300 chr4D 95.745 47 2 0 11 57 488878529 488878483 2.880000e-10 76.8
2 TraesCS4D01G141300 chr4D 100.000 31 0 0 270 300 394139584 394139614 1.040000e-04 58.4
3 TraesCS4D01G141300 chr4B 96.752 1878 43 5 826 2696 189153158 189151292 0.000000e+00 3114.0
4 TraesCS4D01G141300 chr4B 84.082 245 16 11 55 299 189153704 189153483 5.850000e-52 215.0
5 TraesCS4D01G141300 chr4B 94.286 105 6 0 433 537 189153441 189153337 7.720000e-36 161.0
6 TraesCS4D01G141300 chr4B 100.000 30 0 0 269 298 526266715 526266686 3.750000e-04 56.5
7 TraesCS4D01G141300 chr4A 96.704 1881 40 7 826 2696 444862868 444864736 0.000000e+00 3110.0
8 TraesCS4D01G141300 chr4A 89.764 254 15 5 305 557 444862625 444862868 5.600000e-82 315.0
9 TraesCS4D01G141300 chr4A 87.410 278 17 6 556 815 541368110 541368387 1.210000e-78 303.0
10 TraesCS4D01G141300 chr4A 89.051 137 8 5 57 190 444862278 444862410 2.150000e-36 163.0
11 TraesCS4D01G141300 chr4A 100.000 30 0 0 269 298 37309695 37309666 3.750000e-04 56.5
12 TraesCS4D01G141300 chr1A 86.395 294 22 6 551 826 200379587 200379294 3.370000e-79 305.0
13 TraesCS4D01G141300 chr1A 86.254 291 21 6 556 827 592130692 592130402 5.640000e-77 298.0
14 TraesCS4D01G141300 chr5D 86.348 293 22 6 554 828 381723802 381723510 1.210000e-78 303.0
15 TraesCS4D01G141300 chr5D 74.747 297 56 14 1397 1679 103654432 103654141 6.100000e-22 115.0
16 TraesCS4D01G141300 chr2D 86.594 276 31 5 556 827 580393453 580393726 1.570000e-77 300.0
17 TraesCS4D01G141300 chr2D 93.220 59 2 1 2 58 621141000 621141058 4.780000e-13 86.1
18 TraesCS4D01G141300 chr2D 89.831 59 4 2 1 57 453546553 453546495 1.040000e-09 75.0
19 TraesCS4D01G141300 chr3B 86.207 290 20 9 556 827 805458663 805458376 2.030000e-76 296.0
20 TraesCS4D01G141300 chr6A 85.911 291 23 10 555 827 606850865 606851155 7.300000e-76 294.0
21 TraesCS4D01G141300 chr5A 93.750 160 7 3 555 712 396299137 396299295 1.250000e-58 237.0
22 TraesCS4D01G141300 chr5A 81.091 275 36 10 555 827 47653424 47653164 3.520000e-49 206.0
23 TraesCS4D01G141300 chr5A 94.872 39 0 2 262 300 290387387 290387351 2.900000e-05 60.2
24 TraesCS4D01G141300 chr6D 74.915 295 59 11 1397 1679 276903075 276903366 1.310000e-23 121.0
25 TraesCS4D01G141300 chr5B 74.237 295 61 11 1397 1679 112586979 112586688 2.840000e-20 110.0
26 TraesCS4D01G141300 chr1D 95.000 60 1 2 1 58 384845740 384845799 2.860000e-15 93.5
27 TraesCS4D01G141300 chr1D 89.831 59 4 2 1 57 74280127 74280185 1.040000e-09 75.0
28 TraesCS4D01G141300 chr1D 89.474 57 5 1 1 57 31419411 31419466 1.340000e-08 71.3
29 TraesCS4D01G141300 chr2B 93.220 59 1 3 1 57 770103040 770103097 1.720000e-12 84.2
30 TraesCS4D01G141300 chr7B 91.525 59 3 2 2 58 11170377 11170319 2.230000e-11 80.5
31 TraesCS4D01G141300 chr7B 100.000 31 0 0 270 300 162140767 162140797 1.040000e-04 58.4
32 TraesCS4D01G141300 chr7A 88.333 60 5 2 1 58 63718126 63718067 1.340000e-08 71.3
33 TraesCS4D01G141300 chrUn 100.000 32 0 0 270 301 84306822 84306853 2.900000e-05 60.2
34 TraesCS4D01G141300 chr7D 94.595 37 0 2 262 298 1744392 1744426 3.750000e-04 56.5
35 TraesCS4D01G141300 chr7D 100.000 30 0 0 272 301 71823217 71823246 3.750000e-04 56.5
36 TraesCS4D01G141300 chr6B 100.000 30 0 0 270 299 21036782 21036811 3.750000e-04 56.5


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4D01G141300 chr4D 125230513 125233208 2695 True 4979.000000 4979 100.000000 1 2696 1 chr4D.!!$R1 2695
1 TraesCS4D01G141300 chr4B 189151292 189153704 2412 True 1163.333333 3114 91.706667 55 2696 3 chr4B.!!$R2 2641
2 TraesCS4D01G141300 chr4A 444862278 444864736 2458 False 1196.000000 3110 91.839667 57 2696 3 chr4A.!!$F2 2639

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
622 886 0.178998 ATGCAGCCCTCCACATCATC 60.179 55.0 0.0 0.0 0.0 2.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2016 2293 0.246635 ACGATGGTTACGAAGCTGCT 59.753 50.0 0.0 0.0 34.7 4.24 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
42 43 8.888579 AGTATAAAGTCGGGTCATCTATTTTG 57.111 34.615 0.00 0.00 0.00 2.44
43 44 8.701895 AGTATAAAGTCGGGTCATCTATTTTGA 58.298 33.333 0.00 0.00 0.00 2.69
44 45 9.321562 GTATAAAGTCGGGTCATCTATTTTGAA 57.678 33.333 0.00 0.00 0.00 2.69
45 46 8.801882 ATAAAGTCGGGTCATCTATTTTGAAA 57.198 30.769 0.00 0.00 0.00 2.69
46 47 6.496338 AAGTCGGGTCATCTATTTTGAAAC 57.504 37.500 0.00 0.00 0.00 2.78
47 48 4.630069 AGTCGGGTCATCTATTTTGAAACG 59.370 41.667 0.00 0.00 0.00 3.60
48 49 3.936453 TCGGGTCATCTATTTTGAAACGG 59.064 43.478 0.00 0.00 0.00 4.44
49 50 3.936453 CGGGTCATCTATTTTGAAACGGA 59.064 43.478 0.00 0.00 0.00 4.69
50 51 4.034048 CGGGTCATCTATTTTGAAACGGAG 59.966 45.833 0.00 0.00 0.00 4.63
51 52 4.335594 GGGTCATCTATTTTGAAACGGAGG 59.664 45.833 0.00 0.00 0.00 4.30
52 53 5.183228 GGTCATCTATTTTGAAACGGAGGA 58.817 41.667 0.00 0.00 0.00 3.71
53 54 5.646360 GGTCATCTATTTTGAAACGGAGGAA 59.354 40.000 0.00 0.00 0.00 3.36
69 70 2.772515 GAGGAAGTAGGTGTTAGCCCAT 59.227 50.000 0.00 0.00 0.00 4.00
111 112 3.258872 TGCTTCTTGTATTGCTGCCATTT 59.741 39.130 0.00 0.00 0.00 2.32
112 113 4.248058 GCTTCTTGTATTGCTGCCATTTT 58.752 39.130 0.00 0.00 0.00 1.82
150 151 7.576236 TCTTCTGTTTCGTTGATGATTTCTTC 58.424 34.615 0.00 0.00 0.00 2.87
166 167 4.314522 TTCTTCTCATTGGGGTTATGCA 57.685 40.909 0.00 0.00 0.00 3.96
172 205 8.224025 TCTTCTCATTGGGGTTATGCAAATATA 58.776 33.333 0.00 0.00 0.00 0.86
194 227 4.666412 TCTCTCTCTCTCTCCTCCAAAA 57.334 45.455 0.00 0.00 0.00 2.44
267 301 7.889873 TTATAAGGTGGTGTTTCAATATGGG 57.110 36.000 0.00 0.00 0.00 4.00
315 419 9.661563 ACACTAAAATGTAATAATGAACGGAGA 57.338 29.630 0.00 0.00 0.00 3.71
343 447 1.795872 TGTTATGACAACTTGCCGTCG 59.204 47.619 0.00 0.00 34.78 5.12
398 503 1.369625 GCTATGAAGGTGAACCCACG 58.630 55.000 0.00 0.00 44.09 4.94
426 531 4.819105 TTGGCAACTAGATATATCGGGG 57.181 45.455 7.08 4.48 37.61 5.73
427 532 3.104512 TGGCAACTAGATATATCGGGGG 58.895 50.000 7.08 2.27 37.61 5.40
428 533 2.158943 GGCAACTAGATATATCGGGGGC 60.159 54.545 7.08 8.52 0.00 5.80
430 535 3.197983 GCAACTAGATATATCGGGGGCTT 59.802 47.826 7.08 0.00 0.00 4.35
431 536 4.323562 GCAACTAGATATATCGGGGGCTTT 60.324 45.833 7.08 0.00 0.00 3.51
502 607 2.796557 TGTGACAGGTTTGTGGTTGAA 58.203 42.857 0.00 0.00 37.76 2.69
556 820 4.346730 TGACCATCCAAAGCATGAGAAAT 58.653 39.130 0.00 0.00 0.00 2.17
557 821 4.400251 TGACCATCCAAAGCATGAGAAATC 59.600 41.667 0.00 0.00 0.00 2.17
558 822 4.607239 ACCATCCAAAGCATGAGAAATCT 58.393 39.130 0.00 0.00 0.00 2.40
559 823 5.021458 ACCATCCAAAGCATGAGAAATCTT 58.979 37.500 0.00 0.00 0.00 2.40
560 824 6.189859 ACCATCCAAAGCATGAGAAATCTTA 58.810 36.000 0.00 0.00 0.00 2.10
561 825 6.664816 ACCATCCAAAGCATGAGAAATCTTAA 59.335 34.615 0.00 0.00 0.00 1.85
562 826 7.343833 ACCATCCAAAGCATGAGAAATCTTAAT 59.656 33.333 0.00 0.00 0.00 1.40
563 827 8.853126 CCATCCAAAGCATGAGAAATCTTAATA 58.147 33.333 0.00 0.00 0.00 0.98
564 828 9.674824 CATCCAAAGCATGAGAAATCTTAATAC 57.325 33.333 0.00 0.00 0.00 1.89
565 829 8.806429 TCCAAAGCATGAGAAATCTTAATACA 57.194 30.769 0.00 0.00 0.00 2.29
566 830 9.412460 TCCAAAGCATGAGAAATCTTAATACAT 57.588 29.630 0.00 0.00 0.00 2.29
588 852 8.102484 ACATAAATAGTTGATCCCCACTAAGT 57.898 34.615 0.00 0.00 0.00 2.24
589 853 8.211629 ACATAAATAGTTGATCCCCACTAAGTC 58.788 37.037 0.00 0.00 0.00 3.01
590 854 6.893020 AAATAGTTGATCCCCACTAAGTCT 57.107 37.500 0.00 0.00 0.00 3.24
591 855 7.989947 AAATAGTTGATCCCCACTAAGTCTA 57.010 36.000 0.00 0.00 0.00 2.59
592 856 7.989947 AATAGTTGATCCCCACTAAGTCTAA 57.010 36.000 0.00 0.00 0.00 2.10
593 857 8.568617 AATAGTTGATCCCCACTAAGTCTAAT 57.431 34.615 0.00 0.00 0.00 1.73
594 858 6.893020 AGTTGATCCCCACTAAGTCTAATT 57.107 37.500 0.00 0.00 0.00 1.40
595 859 6.890293 AGTTGATCCCCACTAAGTCTAATTC 58.110 40.000 0.00 0.00 0.00 2.17
596 860 6.674419 AGTTGATCCCCACTAAGTCTAATTCT 59.326 38.462 0.00 0.00 0.00 2.40
597 861 6.732896 TGATCCCCACTAAGTCTAATTCTC 57.267 41.667 0.00 0.00 0.00 2.87
598 862 6.444704 TGATCCCCACTAAGTCTAATTCTCT 58.555 40.000 0.00 0.00 0.00 3.10
599 863 6.551601 TGATCCCCACTAAGTCTAATTCTCTC 59.448 42.308 0.00 0.00 0.00 3.20
600 864 5.838955 TCCCCACTAAGTCTAATTCTCTCA 58.161 41.667 0.00 0.00 0.00 3.27
601 865 6.261435 TCCCCACTAAGTCTAATTCTCTCAA 58.739 40.000 0.00 0.00 0.00 3.02
602 866 6.154706 TCCCCACTAAGTCTAATTCTCTCAAC 59.845 42.308 0.00 0.00 0.00 3.18
603 867 6.070767 CCCCACTAAGTCTAATTCTCTCAACA 60.071 42.308 0.00 0.00 0.00 3.33
604 868 7.365117 CCCCACTAAGTCTAATTCTCTCAACAT 60.365 40.741 0.00 0.00 0.00 2.71
605 869 7.493971 CCCACTAAGTCTAATTCTCTCAACATG 59.506 40.741 0.00 0.00 0.00 3.21
606 870 7.010923 CCACTAAGTCTAATTCTCTCAACATGC 59.989 40.741 0.00 0.00 0.00 4.06
607 871 7.547019 CACTAAGTCTAATTCTCTCAACATGCA 59.453 37.037 0.00 0.00 0.00 3.96
608 872 6.981762 AAGTCTAATTCTCTCAACATGCAG 57.018 37.500 0.00 0.00 0.00 4.41
609 873 4.874966 AGTCTAATTCTCTCAACATGCAGC 59.125 41.667 0.00 0.00 0.00 5.25
610 874 4.034975 GTCTAATTCTCTCAACATGCAGCC 59.965 45.833 0.00 0.00 0.00 4.85
611 875 1.760192 ATTCTCTCAACATGCAGCCC 58.240 50.000 0.00 0.00 0.00 5.19
612 876 0.694771 TTCTCTCAACATGCAGCCCT 59.305 50.000 0.00 0.00 0.00 5.19
613 877 0.251354 TCTCTCAACATGCAGCCCTC 59.749 55.000 0.00 0.00 0.00 4.30
614 878 0.747283 CTCTCAACATGCAGCCCTCC 60.747 60.000 0.00 0.00 0.00 4.30
615 879 1.001764 CTCAACATGCAGCCCTCCA 60.002 57.895 0.00 0.00 0.00 3.86
616 880 1.303561 TCAACATGCAGCCCTCCAC 60.304 57.895 0.00 0.00 0.00 4.02
617 881 1.604308 CAACATGCAGCCCTCCACA 60.604 57.895 0.00 0.00 0.00 4.17
618 882 0.968901 CAACATGCAGCCCTCCACAT 60.969 55.000 0.00 0.00 0.00 3.21
619 883 0.682209 AACATGCAGCCCTCCACATC 60.682 55.000 0.00 0.00 0.00 3.06
620 884 1.077285 CATGCAGCCCTCCACATCA 60.077 57.895 0.00 0.00 0.00 3.07
621 885 0.467474 CATGCAGCCCTCCACATCAT 60.467 55.000 0.00 0.00 0.00 2.45
622 886 0.178998 ATGCAGCCCTCCACATCATC 60.179 55.000 0.00 0.00 0.00 2.92
623 887 1.225426 GCAGCCCTCCACATCATCA 59.775 57.895 0.00 0.00 0.00 3.07
624 888 0.394762 GCAGCCCTCCACATCATCAA 60.395 55.000 0.00 0.00 0.00 2.57
625 889 1.956636 GCAGCCCTCCACATCATCAAA 60.957 52.381 0.00 0.00 0.00 2.69
626 890 2.662866 CAGCCCTCCACATCATCAAAT 58.337 47.619 0.00 0.00 0.00 2.32
627 891 2.361119 CAGCCCTCCACATCATCAAATG 59.639 50.000 0.00 0.00 0.00 2.32
628 892 2.024655 AGCCCTCCACATCATCAAATGT 60.025 45.455 0.00 0.00 40.49 2.71
634 898 2.925578 ACATCATCAAATGTGCCACG 57.074 45.000 0.00 0.00 38.43 4.94
635 899 2.161855 ACATCATCAAATGTGCCACGT 58.838 42.857 0.00 0.00 38.43 4.49
636 900 2.162208 ACATCATCAAATGTGCCACGTC 59.838 45.455 0.00 0.00 38.43 4.34
637 901 1.889545 TCATCAAATGTGCCACGTCA 58.110 45.000 0.00 0.00 0.00 4.35
638 902 2.435422 TCATCAAATGTGCCACGTCAT 58.565 42.857 0.00 0.00 0.00 3.06
639 903 2.419673 TCATCAAATGTGCCACGTCATC 59.580 45.455 0.00 0.00 0.00 2.92
640 904 1.889545 TCAAATGTGCCACGTCATCA 58.110 45.000 0.00 0.00 0.00 3.07
641 905 2.435422 TCAAATGTGCCACGTCATCAT 58.565 42.857 0.00 0.00 0.00 2.45
642 906 2.419673 TCAAATGTGCCACGTCATCATC 59.580 45.455 0.00 0.00 0.00 2.92
643 907 1.382522 AATGTGCCACGTCATCATCC 58.617 50.000 0.00 0.00 0.00 3.51
644 908 0.252761 ATGTGCCACGTCATCATCCA 59.747 50.000 0.00 0.00 0.00 3.41
645 909 0.673333 TGTGCCACGTCATCATCCAC 60.673 55.000 0.00 0.00 0.00 4.02
646 910 0.391661 GTGCCACGTCATCATCCACT 60.392 55.000 0.00 0.00 0.00 4.00
647 911 0.391528 TGCCACGTCATCATCCACTG 60.392 55.000 0.00 0.00 0.00 3.66
648 912 1.091771 GCCACGTCATCATCCACTGG 61.092 60.000 0.00 0.00 0.00 4.00
649 913 0.536724 CCACGTCATCATCCACTGGA 59.463 55.000 0.00 0.00 35.55 3.86
650 914 1.066215 CCACGTCATCATCCACTGGAA 60.066 52.381 0.66 0.00 34.34 3.53
651 915 2.002586 CACGTCATCATCCACTGGAAC 58.997 52.381 0.66 0.00 34.34 3.62
652 916 1.902508 ACGTCATCATCCACTGGAACT 59.097 47.619 0.66 0.00 34.34 3.01
653 917 3.096852 ACGTCATCATCCACTGGAACTA 58.903 45.455 0.66 0.00 34.34 2.24
654 918 3.706594 ACGTCATCATCCACTGGAACTAT 59.293 43.478 0.66 0.00 34.34 2.12
655 919 4.162320 ACGTCATCATCCACTGGAACTATT 59.838 41.667 0.66 0.00 34.34 1.73
656 920 5.118990 CGTCATCATCCACTGGAACTATTT 58.881 41.667 0.66 0.00 34.34 1.40
657 921 5.586243 CGTCATCATCCACTGGAACTATTTT 59.414 40.000 0.66 0.00 34.34 1.82
658 922 6.761242 CGTCATCATCCACTGGAACTATTTTA 59.239 38.462 0.66 0.00 34.34 1.52
659 923 7.442364 CGTCATCATCCACTGGAACTATTTTAT 59.558 37.037 0.66 0.00 34.34 1.40
660 924 9.778741 GTCATCATCCACTGGAACTATTTTATA 57.221 33.333 0.66 0.00 34.34 0.98
662 926 8.725148 CATCATCCACTGGAACTATTTTATAGC 58.275 37.037 0.66 0.00 34.34 2.97
663 927 7.801104 TCATCCACTGGAACTATTTTATAGCA 58.199 34.615 0.66 0.00 34.34 3.49
664 928 7.715249 TCATCCACTGGAACTATTTTATAGCAC 59.285 37.037 0.66 0.00 34.34 4.40
665 929 6.953101 TCCACTGGAACTATTTTATAGCACA 58.047 36.000 0.00 0.00 0.00 4.57
666 930 7.573710 TCCACTGGAACTATTTTATAGCACAT 58.426 34.615 0.00 0.00 0.00 3.21
667 931 7.498900 TCCACTGGAACTATTTTATAGCACATG 59.501 37.037 0.00 0.00 0.00 3.21
668 932 7.134815 CACTGGAACTATTTTATAGCACATGC 58.865 38.462 0.00 0.00 42.49 4.06
669 933 6.828273 ACTGGAACTATTTTATAGCACATGCA 59.172 34.615 6.64 0.00 45.16 3.96
670 934 7.503566 ACTGGAACTATTTTATAGCACATGCAT 59.496 33.333 6.64 0.00 45.16 3.96
671 935 8.916628 TGGAACTATTTTATAGCACATGCATA 57.083 30.769 6.64 0.00 45.16 3.14
672 936 8.783093 TGGAACTATTTTATAGCACATGCATAC 58.217 33.333 6.64 0.00 45.16 2.39
673 937 8.237267 GGAACTATTTTATAGCACATGCATACC 58.763 37.037 6.64 0.00 45.16 2.73
674 938 7.687941 ACTATTTTATAGCACATGCATACCC 57.312 36.000 6.64 0.00 45.16 3.69
675 939 5.982890 ATTTTATAGCACATGCATACCCC 57.017 39.130 6.64 0.00 45.16 4.95
676 940 4.445557 TTTATAGCACATGCATACCCCA 57.554 40.909 6.64 0.00 45.16 4.96
677 941 4.445557 TTATAGCACATGCATACCCCAA 57.554 40.909 6.64 0.00 45.16 4.12
678 942 3.530928 ATAGCACATGCATACCCCAAT 57.469 42.857 6.64 0.00 45.16 3.16
679 943 2.163810 AGCACATGCATACCCCAATT 57.836 45.000 6.64 0.00 45.16 2.32
680 944 2.469952 AGCACATGCATACCCCAATTT 58.530 42.857 6.64 0.00 45.16 1.82
681 945 3.641046 AGCACATGCATACCCCAATTTA 58.359 40.909 6.64 0.00 45.16 1.40
682 946 4.029520 AGCACATGCATACCCCAATTTAA 58.970 39.130 6.64 0.00 45.16 1.52
683 947 4.655186 AGCACATGCATACCCCAATTTAAT 59.345 37.500 6.64 0.00 45.16 1.40
684 948 4.990426 GCACATGCATACCCCAATTTAATC 59.010 41.667 0.00 0.00 41.59 1.75
685 949 5.540911 CACATGCATACCCCAATTTAATCC 58.459 41.667 0.00 0.00 0.00 3.01
686 950 5.305128 CACATGCATACCCCAATTTAATCCT 59.695 40.000 0.00 0.00 0.00 3.24
687 951 5.904750 ACATGCATACCCCAATTTAATCCTT 59.095 36.000 0.00 0.00 0.00 3.36
688 952 6.041979 ACATGCATACCCCAATTTAATCCTTC 59.958 38.462 0.00 0.00 0.00 3.46
689 953 4.898861 TGCATACCCCAATTTAATCCTTCC 59.101 41.667 0.00 0.00 0.00 3.46
690 954 4.898861 GCATACCCCAATTTAATCCTTCCA 59.101 41.667 0.00 0.00 0.00 3.53
691 955 5.543790 GCATACCCCAATTTAATCCTTCCAT 59.456 40.000 0.00 0.00 0.00 3.41
692 956 6.295292 GCATACCCCAATTTAATCCTTCCATC 60.295 42.308 0.00 0.00 0.00 3.51
693 957 5.487861 ACCCCAATTTAATCCTTCCATCT 57.512 39.130 0.00 0.00 0.00 2.90
694 958 5.458595 ACCCCAATTTAATCCTTCCATCTC 58.541 41.667 0.00 0.00 0.00 2.75
695 959 4.835056 CCCCAATTTAATCCTTCCATCTCC 59.165 45.833 0.00 0.00 0.00 3.71
696 960 5.457686 CCCAATTTAATCCTTCCATCTCCA 58.542 41.667 0.00 0.00 0.00 3.86
697 961 5.898972 CCCAATTTAATCCTTCCATCTCCAA 59.101 40.000 0.00 0.00 0.00 3.53
698 962 6.556116 CCCAATTTAATCCTTCCATCTCCAAT 59.444 38.462 0.00 0.00 0.00 3.16
699 963 7.729881 CCCAATTTAATCCTTCCATCTCCAATA 59.270 37.037 0.00 0.00 0.00 1.90
700 964 8.800332 CCAATTTAATCCTTCCATCTCCAATAG 58.200 37.037 0.00 0.00 0.00 1.73
701 965 9.359653 CAATTTAATCCTTCCATCTCCAATAGT 57.640 33.333 0.00 0.00 0.00 2.12
702 966 9.579932 AATTTAATCCTTCCATCTCCAATAGTC 57.420 33.333 0.00 0.00 0.00 2.59
703 967 5.574970 AATCCTTCCATCTCCAATAGTCC 57.425 43.478 0.00 0.00 0.00 3.85
704 968 4.007581 TCCTTCCATCTCCAATAGTCCA 57.992 45.455 0.00 0.00 0.00 4.02
705 969 4.370776 TCCTTCCATCTCCAATAGTCCAA 58.629 43.478 0.00 0.00 0.00 3.53
706 970 4.164221 TCCTTCCATCTCCAATAGTCCAAC 59.836 45.833 0.00 0.00 0.00 3.77
707 971 4.080356 CCTTCCATCTCCAATAGTCCAACA 60.080 45.833 0.00 0.00 0.00 3.33
708 972 5.398353 CCTTCCATCTCCAATAGTCCAACAT 60.398 44.000 0.00 0.00 0.00 2.71
709 973 6.183361 CCTTCCATCTCCAATAGTCCAACATA 60.183 42.308 0.00 0.00 0.00 2.29
710 974 6.174720 TCCATCTCCAATAGTCCAACATAC 57.825 41.667 0.00 0.00 0.00 2.39
711 975 5.665360 TCCATCTCCAATAGTCCAACATACA 59.335 40.000 0.00 0.00 0.00 2.29
712 976 5.760253 CCATCTCCAATAGTCCAACATACAC 59.240 44.000 0.00 0.00 0.00 2.90
713 977 6.348498 CATCTCCAATAGTCCAACATACACA 58.652 40.000 0.00 0.00 0.00 3.72
714 978 6.560003 TCTCCAATAGTCCAACATACACAT 57.440 37.500 0.00 0.00 0.00 3.21
715 979 7.669089 TCTCCAATAGTCCAACATACACATA 57.331 36.000 0.00 0.00 0.00 2.29
716 980 8.262601 TCTCCAATAGTCCAACATACACATAT 57.737 34.615 0.00 0.00 0.00 1.78
717 981 9.374711 TCTCCAATAGTCCAACATACACATATA 57.625 33.333 0.00 0.00 0.00 0.86
718 982 9.996554 CTCCAATAGTCCAACATACACATATAA 57.003 33.333 0.00 0.00 0.00 0.98
799 1063 6.874664 TCCAAAATTAACCTTTAAAATCCGGC 59.125 34.615 0.00 0.00 0.00 6.13
800 1064 6.651225 CCAAAATTAACCTTTAAAATCCGGCA 59.349 34.615 0.00 0.00 0.00 5.69
801 1065 7.148490 CCAAAATTAACCTTTAAAATCCGGCAG 60.148 37.037 0.00 0.00 0.00 4.85
802 1066 4.443913 TTAACCTTTAAAATCCGGCAGC 57.556 40.909 0.00 0.00 0.00 5.25
803 1067 1.917872 ACCTTTAAAATCCGGCAGCA 58.082 45.000 0.00 0.00 0.00 4.41
804 1068 2.243810 ACCTTTAAAATCCGGCAGCAA 58.756 42.857 0.00 0.00 0.00 3.91
805 1069 2.231235 ACCTTTAAAATCCGGCAGCAAG 59.769 45.455 0.00 0.00 0.00 4.01
806 1070 2.417243 CCTTTAAAATCCGGCAGCAAGG 60.417 50.000 0.00 0.00 0.00 3.61
807 1071 0.530288 TTAAAATCCGGCAGCAAGGC 59.470 50.000 0.00 0.00 39.93 4.35
818 1082 4.193334 GCAAGGCGCGGGGAAATC 62.193 66.667 8.83 0.00 0.00 2.17
819 1083 2.749839 CAAGGCGCGGGGAAATCA 60.750 61.111 8.83 0.00 0.00 2.57
820 1084 2.750237 AAGGCGCGGGGAAATCAC 60.750 61.111 8.83 0.00 0.00 3.06
821 1085 4.796495 AGGCGCGGGGAAATCACC 62.796 66.667 8.83 0.00 35.61 4.02
822 1086 4.796495 GGCGCGGGGAAATCACCT 62.796 66.667 8.83 0.00 37.25 4.00
823 1087 2.188469 GCGCGGGGAAATCACCTA 59.812 61.111 8.83 0.00 37.25 3.08
824 1088 1.887707 GCGCGGGGAAATCACCTAG 60.888 63.158 8.83 0.00 37.25 3.02
927 1191 2.029380 GCCACCTAACCACCACAATTTC 60.029 50.000 0.00 0.00 0.00 2.17
933 1197 1.995376 ACCACCACAATTTCACCTCC 58.005 50.000 0.00 0.00 0.00 4.30
986 1254 1.633945 AGTACTTGGGTTGTGATCCCC 59.366 52.381 0.00 0.00 44.00 4.81
1701 1969 4.276431 CCCGATTCTTCCTACTAGTCACTC 59.724 50.000 0.00 0.00 0.00 3.51
1712 1980 1.132643 CTAGTCACTCGCTACCACACC 59.867 57.143 0.00 0.00 0.00 4.16
1713 1981 0.826256 AGTCACTCGCTACCACACCA 60.826 55.000 0.00 0.00 0.00 4.17
1714 1982 0.666577 GTCACTCGCTACCACACCAC 60.667 60.000 0.00 0.00 0.00 4.16
1715 1983 1.110518 TCACTCGCTACCACACCACA 61.111 55.000 0.00 0.00 0.00 4.17
1716 1984 0.944311 CACTCGCTACCACACCACAC 60.944 60.000 0.00 0.00 0.00 3.82
2017 2294 3.049227 TCGACAATCGACCATGCAG 57.951 52.632 0.00 0.00 44.82 4.41
2018 2295 1.083806 TCGACAATCGACCATGCAGC 61.084 55.000 0.00 0.00 44.82 5.25
2099 2376 1.271871 TGTTCCGTCCATGGCTCATTT 60.272 47.619 6.96 0.00 0.00 2.32
2134 2411 4.103013 GCTTCCTAGCCTAGGTAGTACT 57.897 50.000 21.35 0.00 46.32 2.73
2135 2412 5.240013 GCTTCCTAGCCTAGGTAGTACTA 57.760 47.826 21.35 0.00 46.32 1.82
2136 2413 5.003160 GCTTCCTAGCCTAGGTAGTACTAC 58.997 50.000 22.53 22.53 46.32 2.73
2285 2562 3.921767 CTGCTGCAACGGCGAGAGA 62.922 63.158 16.62 0.00 45.35 3.10
2521 2798 1.292223 GCCTGCACTACTTCCACGA 59.708 57.895 0.00 0.00 0.00 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 9.976511 CAAAATAGATGACCCGACTTTATACTA 57.023 33.333 0.00 0.00 0.00 1.82
17 18 8.701895 TCAAAATAGATGACCCGACTTTATACT 58.298 33.333 0.00 0.00 0.00 2.12
18 19 8.882415 TCAAAATAGATGACCCGACTTTATAC 57.118 34.615 0.00 0.00 0.00 1.47
19 20 9.893634 TTTCAAAATAGATGACCCGACTTTATA 57.106 29.630 0.00 0.00 0.00 0.98
20 21 8.674607 GTTTCAAAATAGATGACCCGACTTTAT 58.325 33.333 0.00 0.00 0.00 1.40
21 22 7.148540 CGTTTCAAAATAGATGACCCGACTTTA 60.149 37.037 0.00 0.00 0.00 1.85
22 23 6.348213 CGTTTCAAAATAGATGACCCGACTTT 60.348 38.462 0.00 0.00 0.00 2.66
23 24 5.121768 CGTTTCAAAATAGATGACCCGACTT 59.878 40.000 0.00 0.00 0.00 3.01
24 25 4.630069 CGTTTCAAAATAGATGACCCGACT 59.370 41.667 0.00 0.00 0.00 4.18
25 26 4.201783 CCGTTTCAAAATAGATGACCCGAC 60.202 45.833 0.00 0.00 0.00 4.79
26 27 3.936453 CCGTTTCAAAATAGATGACCCGA 59.064 43.478 0.00 0.00 0.00 5.14
27 28 3.936453 TCCGTTTCAAAATAGATGACCCG 59.064 43.478 0.00 0.00 0.00 5.28
28 29 4.335594 CCTCCGTTTCAAAATAGATGACCC 59.664 45.833 0.00 0.00 0.00 4.46
29 30 5.183228 TCCTCCGTTTCAAAATAGATGACC 58.817 41.667 0.00 0.00 0.00 4.02
30 31 6.371825 ACTTCCTCCGTTTCAAAATAGATGAC 59.628 38.462 0.00 0.00 0.00 3.06
31 32 6.472887 ACTTCCTCCGTTTCAAAATAGATGA 58.527 36.000 0.00 0.00 0.00 2.92
32 33 6.743575 ACTTCCTCCGTTTCAAAATAGATG 57.256 37.500 0.00 0.00 0.00 2.90
33 34 7.048512 CCTACTTCCTCCGTTTCAAAATAGAT 58.951 38.462 0.00 0.00 0.00 1.98
34 35 6.013984 ACCTACTTCCTCCGTTTCAAAATAGA 60.014 38.462 0.00 0.00 0.00 1.98
35 36 6.092259 CACCTACTTCCTCCGTTTCAAAATAG 59.908 42.308 0.00 0.00 0.00 1.73
36 37 5.935789 CACCTACTTCCTCCGTTTCAAAATA 59.064 40.000 0.00 0.00 0.00 1.40
37 38 4.760204 CACCTACTTCCTCCGTTTCAAAAT 59.240 41.667 0.00 0.00 0.00 1.82
38 39 4.131596 CACCTACTTCCTCCGTTTCAAAA 58.868 43.478 0.00 0.00 0.00 2.44
39 40 3.135167 ACACCTACTTCCTCCGTTTCAAA 59.865 43.478 0.00 0.00 0.00 2.69
40 41 2.701951 ACACCTACTTCCTCCGTTTCAA 59.298 45.455 0.00 0.00 0.00 2.69
41 42 2.322658 ACACCTACTTCCTCCGTTTCA 58.677 47.619 0.00 0.00 0.00 2.69
42 43 3.397849 AACACCTACTTCCTCCGTTTC 57.602 47.619 0.00 0.00 0.00 2.78
43 44 3.306571 GCTAACACCTACTTCCTCCGTTT 60.307 47.826 0.00 0.00 0.00 3.60
44 45 2.233186 GCTAACACCTACTTCCTCCGTT 59.767 50.000 0.00 0.00 0.00 4.44
45 46 1.823610 GCTAACACCTACTTCCTCCGT 59.176 52.381 0.00 0.00 0.00 4.69
46 47 1.136500 GGCTAACACCTACTTCCTCCG 59.864 57.143 0.00 0.00 0.00 4.63
47 48 1.485480 GGGCTAACACCTACTTCCTCC 59.515 57.143 0.00 0.00 0.00 4.30
48 49 2.185387 TGGGCTAACACCTACTTCCTC 58.815 52.381 0.00 0.00 0.00 3.71
49 50 2.337359 TGGGCTAACACCTACTTCCT 57.663 50.000 0.00 0.00 0.00 3.36
50 51 3.646736 AATGGGCTAACACCTACTTCC 57.353 47.619 0.00 0.00 0.00 3.46
51 52 3.128764 GCAAATGGGCTAACACCTACTTC 59.871 47.826 0.00 0.00 0.00 3.01
52 53 3.089284 GCAAATGGGCTAACACCTACTT 58.911 45.455 0.00 0.00 0.00 2.24
53 54 2.041081 TGCAAATGGGCTAACACCTACT 59.959 45.455 0.00 0.00 34.04 2.57
111 112 9.849166 ACGAAACAGAAGAAATTGTAAAGAAAA 57.151 25.926 0.00 0.00 0.00 2.29
112 113 9.849166 AACGAAACAGAAGAAATTGTAAAGAAA 57.151 25.926 0.00 0.00 0.00 2.52
115 116 8.835467 TCAACGAAACAGAAGAAATTGTAAAG 57.165 30.769 0.00 0.00 0.00 1.85
130 131 6.859420 TGAGAAGAAATCATCAACGAAACA 57.141 33.333 0.00 0.00 0.00 2.83
150 151 8.585471 AGATATATTTGCATAACCCCAATGAG 57.415 34.615 0.00 0.00 0.00 2.90
166 167 8.230848 TGGAGGAGAGAGAGAGAGATATATTT 57.769 38.462 0.00 0.00 0.00 1.40
172 205 4.879295 TTTGGAGGAGAGAGAGAGAGAT 57.121 45.455 0.00 0.00 0.00 2.75
217 250 4.100498 GTGGACGGAGGGAGTATCAAATAA 59.900 45.833 0.00 0.00 36.25 1.40
266 300 5.458779 GTGTTTGTTTACTCATTTCAGTGCC 59.541 40.000 0.00 0.00 0.00 5.01
267 301 6.020678 GTGTGTTTGTTTACTCATTTCAGTGC 60.021 38.462 0.00 0.00 0.00 4.40
299 333 8.189460 ACAAGTACTCTCTCCGTTCATTATTAC 58.811 37.037 0.00 0.00 0.00 1.89
301 335 7.171630 ACAAGTACTCTCTCCGTTCATTATT 57.828 36.000 0.00 0.00 0.00 1.40
302 336 6.777213 ACAAGTACTCTCTCCGTTCATTAT 57.223 37.500 0.00 0.00 0.00 1.28
303 337 6.585695 AACAAGTACTCTCTCCGTTCATTA 57.414 37.500 0.00 0.00 0.00 1.90
306 410 5.708697 TCATAACAAGTACTCTCTCCGTTCA 59.291 40.000 0.00 0.00 0.00 3.18
315 419 5.701290 GGCAAGTTGTCATAACAAGTACTCT 59.299 40.000 1.68 0.00 46.10 3.24
343 447 7.693952 ACATAAACATCGGTGAATGTGAATAC 58.306 34.615 0.65 0.00 39.76 1.89
448 553 2.647683 TGAACACCAACTGCATACCA 57.352 45.000 0.00 0.00 0.00 3.25
450 555 4.870363 ACATTTGAACACCAACTGCATAC 58.130 39.130 0.00 0.00 38.53 2.39
454 559 6.920758 TGTATTTACATTTGAACACCAACTGC 59.079 34.615 0.00 0.00 38.53 4.40
490 595 3.502191 TGCTCTTGTTCAACCACAAAC 57.498 42.857 0.00 0.00 36.22 2.93
502 607 7.452880 TCAAACTAATTGCTTATGCTCTTGT 57.547 32.000 1.96 0.00 38.98 3.16
562 826 9.220906 ACTTAGTGGGGATCAACTATTTATGTA 57.779 33.333 0.00 0.00 0.00 2.29
563 827 8.102484 ACTTAGTGGGGATCAACTATTTATGT 57.898 34.615 0.00 0.00 0.00 2.29
564 828 8.432805 AGACTTAGTGGGGATCAACTATTTATG 58.567 37.037 0.00 0.00 0.00 1.90
565 829 8.568617 AGACTTAGTGGGGATCAACTATTTAT 57.431 34.615 0.00 0.00 0.00 1.40
566 830 7.989947 AGACTTAGTGGGGATCAACTATTTA 57.010 36.000 0.00 0.00 0.00 1.40
567 831 6.893020 AGACTTAGTGGGGATCAACTATTT 57.107 37.500 0.00 0.00 0.00 1.40
568 832 7.989947 TTAGACTTAGTGGGGATCAACTATT 57.010 36.000 0.00 0.00 0.00 1.73
569 833 8.568617 AATTAGACTTAGTGGGGATCAACTAT 57.431 34.615 0.00 0.00 0.00 2.12
570 834 7.844779 AGAATTAGACTTAGTGGGGATCAACTA 59.155 37.037 0.00 0.00 0.00 2.24
571 835 6.674419 AGAATTAGACTTAGTGGGGATCAACT 59.326 38.462 0.00 0.00 0.00 3.16
572 836 6.890293 AGAATTAGACTTAGTGGGGATCAAC 58.110 40.000 0.00 0.00 0.00 3.18
573 837 6.903534 AGAGAATTAGACTTAGTGGGGATCAA 59.096 38.462 0.00 0.00 0.00 2.57
574 838 6.444704 AGAGAATTAGACTTAGTGGGGATCA 58.555 40.000 0.00 0.00 0.00 2.92
575 839 6.551601 TGAGAGAATTAGACTTAGTGGGGATC 59.448 42.308 0.00 0.00 0.00 3.36
576 840 6.444704 TGAGAGAATTAGACTTAGTGGGGAT 58.555 40.000 0.00 0.00 0.00 3.85
577 841 5.838955 TGAGAGAATTAGACTTAGTGGGGA 58.161 41.667 0.00 0.00 0.00 4.81
578 842 6.070767 TGTTGAGAGAATTAGACTTAGTGGGG 60.071 42.308 0.00 0.00 0.00 4.96
579 843 6.936279 TGTTGAGAGAATTAGACTTAGTGGG 58.064 40.000 0.00 0.00 0.00 4.61
580 844 7.010923 GCATGTTGAGAGAATTAGACTTAGTGG 59.989 40.741 0.00 0.00 0.00 4.00
581 845 7.547019 TGCATGTTGAGAGAATTAGACTTAGTG 59.453 37.037 0.00 0.00 0.00 2.74
582 846 7.615403 TGCATGTTGAGAGAATTAGACTTAGT 58.385 34.615 0.00 0.00 0.00 2.24
583 847 7.254387 GCTGCATGTTGAGAGAATTAGACTTAG 60.254 40.741 0.00 0.00 0.00 2.18
584 848 6.536582 GCTGCATGTTGAGAGAATTAGACTTA 59.463 38.462 0.00 0.00 0.00 2.24
585 849 5.353678 GCTGCATGTTGAGAGAATTAGACTT 59.646 40.000 0.00 0.00 0.00 3.01
586 850 4.874966 GCTGCATGTTGAGAGAATTAGACT 59.125 41.667 0.00 0.00 0.00 3.24
587 851 4.034975 GGCTGCATGTTGAGAGAATTAGAC 59.965 45.833 0.50 0.00 0.00 2.59
588 852 4.194640 GGCTGCATGTTGAGAGAATTAGA 58.805 43.478 0.50 0.00 0.00 2.10
589 853 3.314635 GGGCTGCATGTTGAGAGAATTAG 59.685 47.826 0.50 0.00 0.00 1.73
590 854 3.054139 AGGGCTGCATGTTGAGAGAATTA 60.054 43.478 0.50 0.00 0.00 1.40
591 855 2.097825 GGGCTGCATGTTGAGAGAATT 58.902 47.619 0.50 0.00 0.00 2.17
592 856 1.284198 AGGGCTGCATGTTGAGAGAAT 59.716 47.619 0.50 0.00 0.00 2.40
593 857 0.694771 AGGGCTGCATGTTGAGAGAA 59.305 50.000 0.50 0.00 0.00 2.87
594 858 0.251354 GAGGGCTGCATGTTGAGAGA 59.749 55.000 0.50 0.00 0.00 3.10
595 859 0.747283 GGAGGGCTGCATGTTGAGAG 60.747 60.000 0.50 0.00 0.00 3.20
596 860 1.300963 GGAGGGCTGCATGTTGAGA 59.699 57.895 0.50 0.00 0.00 3.27
597 861 1.001764 TGGAGGGCTGCATGTTGAG 60.002 57.895 0.50 0.00 0.00 3.02
598 862 1.303561 GTGGAGGGCTGCATGTTGA 60.304 57.895 0.50 0.00 32.40 3.18
599 863 0.968901 ATGTGGAGGGCTGCATGTTG 60.969 55.000 0.50 0.00 32.40 3.33
600 864 0.682209 GATGTGGAGGGCTGCATGTT 60.682 55.000 0.50 0.00 32.40 2.71
601 865 1.077212 GATGTGGAGGGCTGCATGT 60.077 57.895 0.50 0.00 32.40 3.21
602 866 0.467474 ATGATGTGGAGGGCTGCATG 60.467 55.000 0.50 0.00 32.40 4.06
603 867 0.178998 GATGATGTGGAGGGCTGCAT 60.179 55.000 0.50 0.00 32.40 3.96
604 868 1.225426 GATGATGTGGAGGGCTGCA 59.775 57.895 0.50 0.00 0.00 4.41
605 869 0.394762 TTGATGATGTGGAGGGCTGC 60.395 55.000 0.00 0.00 0.00 5.25
606 870 2.133281 TTTGATGATGTGGAGGGCTG 57.867 50.000 0.00 0.00 0.00 4.85
607 871 2.024655 ACATTTGATGATGTGGAGGGCT 60.025 45.455 0.00 0.00 38.75 5.19
608 872 2.381911 ACATTTGATGATGTGGAGGGC 58.618 47.619 0.00 0.00 38.75 5.19
615 879 2.161855 ACGTGGCACATTTGATGATGT 58.838 42.857 19.09 0.00 44.52 3.06
616 880 2.162008 TGACGTGGCACATTTGATGATG 59.838 45.455 19.09 0.00 44.52 3.07
617 881 2.435422 TGACGTGGCACATTTGATGAT 58.565 42.857 19.09 0.00 44.52 2.45
618 882 1.889545 TGACGTGGCACATTTGATGA 58.110 45.000 19.09 0.00 44.52 2.92
619 883 2.162008 TGATGACGTGGCACATTTGATG 59.838 45.455 19.09 1.42 44.52 3.07
620 884 2.435422 TGATGACGTGGCACATTTGAT 58.565 42.857 19.09 0.23 44.52 2.57
621 885 1.889545 TGATGACGTGGCACATTTGA 58.110 45.000 19.09 0.00 44.52 2.69
622 886 2.478370 GGATGATGACGTGGCACATTTG 60.478 50.000 19.09 3.40 44.52 2.32
623 887 1.745087 GGATGATGACGTGGCACATTT 59.255 47.619 19.09 0.10 44.52 2.32
624 888 1.339920 TGGATGATGACGTGGCACATT 60.340 47.619 19.09 3.05 44.52 2.71
625 889 0.252761 TGGATGATGACGTGGCACAT 59.747 50.000 19.09 0.54 44.52 3.21
626 890 0.673333 GTGGATGATGACGTGGCACA 60.673 55.000 19.09 0.00 0.00 4.57
627 891 0.391661 AGTGGATGATGACGTGGCAC 60.392 55.000 7.79 7.79 0.00 5.01
628 892 0.391528 CAGTGGATGATGACGTGGCA 60.392 55.000 0.00 0.00 0.00 4.92
629 893 1.091771 CCAGTGGATGATGACGTGGC 61.092 60.000 1.68 0.00 0.00 5.01
630 894 0.536724 TCCAGTGGATGATGACGTGG 59.463 55.000 8.12 0.00 0.00 4.94
631 895 2.002586 GTTCCAGTGGATGATGACGTG 58.997 52.381 14.00 0.00 0.00 4.49
632 896 1.902508 AGTTCCAGTGGATGATGACGT 59.097 47.619 14.00 0.00 0.00 4.34
633 897 2.680312 AGTTCCAGTGGATGATGACG 57.320 50.000 14.00 0.00 0.00 4.35
634 898 8.682936 ATAAAATAGTTCCAGTGGATGATGAC 57.317 34.615 14.00 7.82 0.00 3.06
636 900 8.725148 GCTATAAAATAGTTCCAGTGGATGATG 58.275 37.037 14.00 0.00 0.00 3.07
637 901 8.439971 TGCTATAAAATAGTTCCAGTGGATGAT 58.560 33.333 14.00 3.91 0.00 2.45
638 902 7.715249 GTGCTATAAAATAGTTCCAGTGGATGA 59.285 37.037 14.00 1.33 0.00 2.92
639 903 7.498900 TGTGCTATAAAATAGTTCCAGTGGATG 59.501 37.037 14.00 0.00 0.00 3.51
640 904 7.573710 TGTGCTATAAAATAGTTCCAGTGGAT 58.426 34.615 14.00 0.82 0.00 3.41
641 905 6.953101 TGTGCTATAAAATAGTTCCAGTGGA 58.047 36.000 8.12 8.12 0.00 4.02
642 906 7.642669 CATGTGCTATAAAATAGTTCCAGTGG 58.357 38.462 1.40 1.40 0.00 4.00
643 907 7.134815 GCATGTGCTATAAAATAGTTCCAGTG 58.865 38.462 0.00 0.00 38.21 3.66
644 908 6.828273 TGCATGTGCTATAAAATAGTTCCAGT 59.172 34.615 6.55 0.00 42.66 4.00
645 909 7.263100 TGCATGTGCTATAAAATAGTTCCAG 57.737 36.000 6.55 0.00 42.66 3.86
646 910 7.822161 ATGCATGTGCTATAAAATAGTTCCA 57.178 32.000 0.00 0.00 42.66 3.53
647 911 8.237267 GGTATGCATGTGCTATAAAATAGTTCC 58.763 37.037 10.16 0.00 42.66 3.62
648 912 8.237267 GGGTATGCATGTGCTATAAAATAGTTC 58.763 37.037 10.16 0.00 42.66 3.01
649 913 7.176690 GGGGTATGCATGTGCTATAAAATAGTT 59.823 37.037 10.16 0.00 42.66 2.24
650 914 6.659242 GGGGTATGCATGTGCTATAAAATAGT 59.341 38.462 10.16 0.00 42.66 2.12
651 915 6.658816 TGGGGTATGCATGTGCTATAAAATAG 59.341 38.462 10.16 0.00 42.66 1.73
652 916 6.547402 TGGGGTATGCATGTGCTATAAAATA 58.453 36.000 10.16 0.00 42.66 1.40
653 917 5.392995 TGGGGTATGCATGTGCTATAAAAT 58.607 37.500 10.16 0.00 42.66 1.82
654 918 4.797743 TGGGGTATGCATGTGCTATAAAA 58.202 39.130 10.16 0.00 42.66 1.52
655 919 4.445557 TGGGGTATGCATGTGCTATAAA 57.554 40.909 10.16 0.00 42.66 1.40
656 920 4.445557 TTGGGGTATGCATGTGCTATAA 57.554 40.909 10.16 0.00 42.66 0.98
657 921 4.656100 ATTGGGGTATGCATGTGCTATA 57.344 40.909 10.16 0.67 42.66 1.31
658 922 3.530928 ATTGGGGTATGCATGTGCTAT 57.469 42.857 10.16 1.56 42.66 2.97
659 923 3.311167 AATTGGGGTATGCATGTGCTA 57.689 42.857 10.16 0.00 42.66 3.49
660 924 2.163810 AATTGGGGTATGCATGTGCT 57.836 45.000 10.16 0.00 42.66 4.40
661 925 2.985957 AAATTGGGGTATGCATGTGC 57.014 45.000 10.16 0.00 42.50 4.57
662 926 5.305128 AGGATTAAATTGGGGTATGCATGTG 59.695 40.000 10.16 0.00 0.00 3.21
663 927 5.466819 AGGATTAAATTGGGGTATGCATGT 58.533 37.500 10.16 0.00 0.00 3.21
664 928 6.423776 AAGGATTAAATTGGGGTATGCATG 57.576 37.500 10.16 0.00 0.00 4.06
665 929 5.543790 GGAAGGATTAAATTGGGGTATGCAT 59.456 40.000 3.79 3.79 0.00 3.96
666 930 4.898861 GGAAGGATTAAATTGGGGTATGCA 59.101 41.667 0.00 0.00 0.00 3.96
667 931 4.898861 TGGAAGGATTAAATTGGGGTATGC 59.101 41.667 0.00 0.00 0.00 3.14
668 932 7.012607 AGATGGAAGGATTAAATTGGGGTATG 58.987 38.462 0.00 0.00 0.00 2.39
669 933 7.179460 AGATGGAAGGATTAAATTGGGGTAT 57.821 36.000 0.00 0.00 0.00 2.73
670 934 6.411554 GGAGATGGAAGGATTAAATTGGGGTA 60.412 42.308 0.00 0.00 0.00 3.69
671 935 5.458595 GAGATGGAAGGATTAAATTGGGGT 58.541 41.667 0.00 0.00 0.00 4.95
672 936 4.835056 GGAGATGGAAGGATTAAATTGGGG 59.165 45.833 0.00 0.00 0.00 4.96
673 937 5.457686 TGGAGATGGAAGGATTAAATTGGG 58.542 41.667 0.00 0.00 0.00 4.12
674 938 7.607615 ATTGGAGATGGAAGGATTAAATTGG 57.392 36.000 0.00 0.00 0.00 3.16
675 939 9.359653 ACTATTGGAGATGGAAGGATTAAATTG 57.640 33.333 0.00 0.00 0.00 2.32
676 940 9.579932 GACTATTGGAGATGGAAGGATTAAATT 57.420 33.333 0.00 0.00 0.00 1.82
677 941 8.166726 GGACTATTGGAGATGGAAGGATTAAAT 58.833 37.037 0.00 0.00 0.00 1.40
678 942 7.128728 TGGACTATTGGAGATGGAAGGATTAAA 59.871 37.037 0.00 0.00 0.00 1.52
679 943 6.619437 TGGACTATTGGAGATGGAAGGATTAA 59.381 38.462 0.00 0.00 0.00 1.40
680 944 6.150332 TGGACTATTGGAGATGGAAGGATTA 58.850 40.000 0.00 0.00 0.00 1.75
681 945 4.977739 TGGACTATTGGAGATGGAAGGATT 59.022 41.667 0.00 0.00 0.00 3.01
682 946 4.570926 TGGACTATTGGAGATGGAAGGAT 58.429 43.478 0.00 0.00 0.00 3.24
683 947 4.007581 TGGACTATTGGAGATGGAAGGA 57.992 45.455 0.00 0.00 0.00 3.36
684 948 4.080356 TGTTGGACTATTGGAGATGGAAGG 60.080 45.833 0.00 0.00 0.00 3.46
685 949 5.102953 TGTTGGACTATTGGAGATGGAAG 57.897 43.478 0.00 0.00 0.00 3.46
686 950 5.715439 ATGTTGGACTATTGGAGATGGAA 57.285 39.130 0.00 0.00 0.00 3.53
687 951 5.665360 TGTATGTTGGACTATTGGAGATGGA 59.335 40.000 0.00 0.00 0.00 3.41
688 952 5.760253 GTGTATGTTGGACTATTGGAGATGG 59.240 44.000 0.00 0.00 0.00 3.51
689 953 6.348498 TGTGTATGTTGGACTATTGGAGATG 58.652 40.000 0.00 0.00 0.00 2.90
690 954 6.560003 TGTGTATGTTGGACTATTGGAGAT 57.440 37.500 0.00 0.00 0.00 2.75
691 955 6.560003 ATGTGTATGTTGGACTATTGGAGA 57.440 37.500 0.00 0.00 0.00 3.71
692 956 9.996554 TTATATGTGTATGTTGGACTATTGGAG 57.003 33.333 0.00 0.00 0.00 3.86
773 1037 7.551262 GCCGGATTTTAAAGGTTAATTTTGGAT 59.449 33.333 5.05 0.00 0.00 3.41
774 1038 6.874664 GCCGGATTTTAAAGGTTAATTTTGGA 59.125 34.615 5.05 0.00 0.00 3.53
775 1039 6.651225 TGCCGGATTTTAAAGGTTAATTTTGG 59.349 34.615 5.05 0.00 0.00 3.28
776 1040 7.623297 GCTGCCGGATTTTAAAGGTTAATTTTG 60.623 37.037 5.05 0.00 0.00 2.44
777 1041 6.370442 GCTGCCGGATTTTAAAGGTTAATTTT 59.630 34.615 5.05 0.00 0.00 1.82
778 1042 5.872617 GCTGCCGGATTTTAAAGGTTAATTT 59.127 36.000 5.05 0.00 0.00 1.82
779 1043 5.046950 TGCTGCCGGATTTTAAAGGTTAATT 60.047 36.000 5.05 0.00 0.00 1.40
780 1044 4.464597 TGCTGCCGGATTTTAAAGGTTAAT 59.535 37.500 5.05 0.00 0.00 1.40
781 1045 3.827302 TGCTGCCGGATTTTAAAGGTTAA 59.173 39.130 5.05 0.00 0.00 2.01
782 1046 3.422796 TGCTGCCGGATTTTAAAGGTTA 58.577 40.909 5.05 0.00 0.00 2.85
783 1047 2.243810 TGCTGCCGGATTTTAAAGGTT 58.756 42.857 5.05 0.00 0.00 3.50
784 1048 1.917872 TGCTGCCGGATTTTAAAGGT 58.082 45.000 5.05 0.00 0.00 3.50
785 1049 2.417243 CCTTGCTGCCGGATTTTAAAGG 60.417 50.000 5.05 6.15 0.00 3.11
786 1050 2.879826 CCTTGCTGCCGGATTTTAAAG 58.120 47.619 5.05 0.00 0.00 1.85
787 1051 1.067213 GCCTTGCTGCCGGATTTTAAA 60.067 47.619 5.05 0.00 0.00 1.52
788 1052 0.530288 GCCTTGCTGCCGGATTTTAA 59.470 50.000 5.05 0.00 0.00 1.52
789 1053 1.653094 CGCCTTGCTGCCGGATTTTA 61.653 55.000 5.05 0.00 0.00 1.52
790 1054 2.973082 GCCTTGCTGCCGGATTTT 59.027 55.556 5.05 0.00 0.00 1.82
791 1055 3.443045 CGCCTTGCTGCCGGATTT 61.443 61.111 5.05 0.00 0.00 2.17
800 1064 4.740822 ATTTCCCCGCGCCTTGCT 62.741 61.111 0.00 0.00 43.27 3.91
801 1065 4.193334 GATTTCCCCGCGCCTTGC 62.193 66.667 0.00 0.00 41.47 4.01
802 1066 2.749839 TGATTTCCCCGCGCCTTG 60.750 61.111 0.00 0.00 0.00 3.61
803 1067 2.750237 GTGATTTCCCCGCGCCTT 60.750 61.111 0.00 0.00 0.00 4.35
804 1068 4.796495 GGTGATTTCCCCGCGCCT 62.796 66.667 0.00 0.00 0.00 5.52
805 1069 3.394635 TAGGTGATTTCCCCGCGCC 62.395 63.158 0.00 0.00 0.00 6.53
806 1070 1.887707 CTAGGTGATTTCCCCGCGC 60.888 63.158 0.00 0.00 0.00 6.86
807 1071 0.107848 AACTAGGTGATTTCCCCGCG 60.108 55.000 0.00 0.00 0.00 6.46
808 1072 2.994186 TAACTAGGTGATTTCCCCGC 57.006 50.000 0.00 0.00 0.00 6.13
809 1073 4.482952 ACTTAACTAGGTGATTTCCCCG 57.517 45.455 0.00 0.00 0.00 5.73
810 1074 6.955364 ACTAACTTAACTAGGTGATTTCCCC 58.045 40.000 0.00 0.00 0.00 4.81
811 1075 7.336176 CCAACTAACTTAACTAGGTGATTTCCC 59.664 40.741 6.49 0.00 36.36 3.97
812 1076 8.098912 TCCAACTAACTTAACTAGGTGATTTCC 58.901 37.037 6.49 0.00 36.36 3.13
813 1077 9.152595 CTCCAACTAACTTAACTAGGTGATTTC 57.847 37.037 6.49 0.00 36.36 2.17
814 1078 8.101419 CCTCCAACTAACTTAACTAGGTGATTT 58.899 37.037 6.49 0.00 36.36 2.17
815 1079 7.621796 CCTCCAACTAACTTAACTAGGTGATT 58.378 38.462 6.49 0.00 36.36 2.57
816 1080 6.351966 GCCTCCAACTAACTTAACTAGGTGAT 60.352 42.308 6.49 0.00 36.36 3.06
817 1081 5.046807 GCCTCCAACTAACTTAACTAGGTGA 60.047 44.000 6.49 0.00 36.36 4.02
818 1082 5.176592 GCCTCCAACTAACTTAACTAGGTG 58.823 45.833 0.00 0.00 34.42 4.00
819 1083 4.081807 CGCCTCCAACTAACTTAACTAGGT 60.082 45.833 0.00 0.00 0.00 3.08
820 1084 4.430908 CGCCTCCAACTAACTTAACTAGG 58.569 47.826 0.00 0.00 0.00 3.02
821 1085 3.864003 GCGCCTCCAACTAACTTAACTAG 59.136 47.826 0.00 0.00 0.00 2.57
822 1086 3.368739 GGCGCCTCCAACTAACTTAACTA 60.369 47.826 22.15 0.00 34.01 2.24
823 1087 2.614734 GGCGCCTCCAACTAACTTAACT 60.615 50.000 22.15 0.00 34.01 2.24
824 1088 1.736126 GGCGCCTCCAACTAACTTAAC 59.264 52.381 22.15 0.00 34.01 2.01
927 1191 5.423610 CCTCATGGAGTATATAAGGGAGGTG 59.576 48.000 0.00 0.00 35.74 4.00
933 1197 7.904558 TCATAGCCTCATGGAGTATATAAGG 57.095 40.000 0.00 0.00 34.57 2.69
986 1254 3.807538 GCATGGCGCAGTGGTGAG 61.808 66.667 10.83 0.00 41.79 3.51
1701 1969 0.315886 TAGTGTGTGGTGTGGTAGCG 59.684 55.000 0.00 0.00 0.00 4.26
1712 1980 2.359531 GGTCTAGCTAGCCTAGTGTGTG 59.640 54.545 16.35 0.00 43.36 3.82
1713 1981 2.657143 GGTCTAGCTAGCCTAGTGTGT 58.343 52.381 16.35 0.00 43.36 3.72
1714 1982 1.604755 CGGTCTAGCTAGCCTAGTGTG 59.395 57.143 23.30 9.81 43.36 3.82
1715 1983 1.477195 CCGGTCTAGCTAGCCTAGTGT 60.477 57.143 23.30 0.00 43.36 3.55
1716 1984 1.240256 CCGGTCTAGCTAGCCTAGTG 58.760 60.000 23.30 12.85 43.36 2.74
1837 2107 1.627329 TGCTCAAGATCAGTCCAAGCT 59.373 47.619 0.00 0.00 0.00 3.74
2004 2281 0.679002 AAGCTGCTGCATGGTCGATT 60.679 50.000 18.42 0.00 42.74 3.34
2016 2293 0.246635 ACGATGGTTACGAAGCTGCT 59.753 50.000 0.00 0.00 34.70 4.24
2017 2294 0.645868 GACGATGGTTACGAAGCTGC 59.354 55.000 0.00 0.00 34.70 5.25
2018 2295 0.914551 CGACGATGGTTACGAAGCTG 59.085 55.000 0.00 0.00 34.70 4.24
2134 2411 4.701171 TCATGTGATGTGTGTACCTACGTA 59.299 41.667 0.00 0.00 0.00 3.57
2135 2412 3.508402 TCATGTGATGTGTGTACCTACGT 59.492 43.478 0.00 0.00 0.00 3.57
2136 2413 4.104696 TCATGTGATGTGTGTACCTACG 57.895 45.455 0.00 0.00 0.00 3.51
2334 2611 2.202864 GCTCTCTTCCGGCTGCTC 60.203 66.667 0.00 0.00 0.00 4.26
2521 2798 1.593787 CAGGTGTCGATGCAGTCCT 59.406 57.895 0.00 0.00 0.00 3.85


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

AutoCloner maintained by Alex Coulton.