Multiple sequence alignment - TraesCS6A01G350800

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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 TraesCS6A01G350800 chr6A 100.000 2545 0 0 1 2545 582632295 582629751 0.000000e+00 4700.0
1 TraesCS6A01G350800 chr6A 89.139 534 49 6 1085 1612 582511506 582512036 0.000000e+00 656.0
2 TraesCS6A01G350800 chr6A 81.371 875 88 47 860 1699 582516401 582517235 0.000000e+00 643.0
3 TraesCS6A01G350800 chr6A 89.412 255 16 2 835 1081 582511216 582511467 6.840000e-81 311.0
4 TraesCS6A01G350800 chr6A 83.200 125 14 7 853 971 582638952 582638829 9.630000e-20 108.0
5 TraesCS6A01G350800 chr2B 94.196 827 46 2 4 828 547863184 547864010 0.000000e+00 1260.0
6 TraesCS6A01G350800 chr2B 92.317 833 59 4 4 833 83656507 83657337 0.000000e+00 1179.0
7 TraesCS6A01G350800 chr2D 93.848 829 48 2 4 830 635804646 635805473 0.000000e+00 1245.0
8 TraesCS6A01G350800 chr2D 89.542 851 84 4 1694 2544 203125413 203124568 0.000000e+00 1074.0
9 TraesCS6A01G350800 chr1B 93.614 830 49 3 4 830 668063271 668064099 0.000000e+00 1236.0
10 TraesCS6A01G350800 chr1B 93.149 832 54 2 1 830 395062897 395063727 0.000000e+00 1218.0
11 TraesCS6A01G350800 chr1B 91.090 853 72 3 1694 2544 647509348 647508498 0.000000e+00 1151.0
12 TraesCS6A01G350800 chr1B 90.482 851 80 1 1694 2544 452754278 452753429 0.000000e+00 1122.0
13 TraesCS6A01G350800 chr7B 92.686 834 56 2 1 830 43761201 43762033 0.000000e+00 1197.0
14 TraesCS6A01G350800 chr7B 89.449 853 87 3 1694 2544 679539265 679538414 0.000000e+00 1074.0
15 TraesCS6A01G350800 chr7B 88.993 854 90 3 1694 2544 125688321 125689173 0.000000e+00 1053.0
16 TraesCS6A01G350800 chr5D 92.188 832 57 4 4 833 397343538 397342713 0.000000e+00 1170.0
17 TraesCS6A01G350800 chr5D 91.797 829 63 4 4 830 360902196 360903021 0.000000e+00 1149.0
18 TraesCS6A01G350800 chr6D 91.466 832 68 2 4 833 453368292 453367462 0.000000e+00 1140.0
19 TraesCS6A01G350800 chr6D 88.800 875 61 15 834 1697 435749742 435750590 0.000000e+00 1038.0
20 TraesCS6A01G350800 chr6D 88.350 618 59 9 1085 1697 435711889 435712498 0.000000e+00 730.0
21 TraesCS6A01G350800 chr6D 87.074 557 48 13 1085 1636 435963073 435962536 2.170000e-170 608.0
22 TraesCS6A01G350800 chr6D 92.258 310 16 1 854 1155 435810264 435809955 1.400000e-117 433.0
23 TraesCS6A01G350800 chr6D 76.964 751 113 39 853 1559 435832428 435831694 8.600000e-100 374.0
24 TraesCS6A01G350800 chr6D 89.516 248 22 2 834 1081 435711607 435711850 6.840000e-81 311.0
25 TraesCS6A01G350800 chr6D 84.649 228 18 5 1474 1699 435764317 435764529 7.130000e-51 211.0
26 TraesCS6A01G350800 chr6D 100.000 37 0 0 1661 1697 435809955 435809919 4.540000e-08 69.4
27 TraesCS6A01G350800 chr6B 90.845 852 74 4 1695 2544 430565222 430566071 0.000000e+00 1138.0
28 TraesCS6A01G350800 chr6B 87.765 613 56 8 1085 1697 658477574 658478167 0.000000e+00 699.0
29 TraesCS6A01G350800 chr6B 87.765 613 56 8 1085 1697 658496359 658496952 0.000000e+00 699.0
30 TraesCS6A01G350800 chr6B 87.602 613 57 8 1085 1697 658515510 658516103 0.000000e+00 693.0
31 TraesCS6A01G350800 chr6B 82.742 620 72 22 1085 1699 658578266 658577677 1.040000e-143 520.0
32 TraesCS6A01G350800 chr6B 87.109 256 21 6 834 1081 658477284 658477535 1.930000e-71 279.0
33 TraesCS6A01G350800 chr6B 87.109 256 21 6 834 1081 658496069 658496320 1.930000e-71 279.0
34 TraesCS6A01G350800 chr6B 87.109 256 21 6 834 1081 658515220 658515471 1.930000e-71 279.0
35 TraesCS6A01G350800 chr6B 82.528 269 27 9 832 1081 658530475 658530742 4.260000e-53 219.0
36 TraesCS6A01G350800 chr5B 90.152 853 81 3 1694 2544 704247218 704248069 0.000000e+00 1107.0
37 TraesCS6A01G350800 chr3A 90.058 855 73 10 1694 2544 547241391 547240545 0.000000e+00 1098.0
38 TraesCS6A01G350800 chr1A 89.307 851 89 2 1694 2544 561580607 561581455 0.000000e+00 1066.0
39 TraesCS6A01G350800 chrUn 88.122 362 29 9 1085 1446 389577593 389577246 3.920000e-113 418.0
40 TraesCS6A01G350800 chrUn 88.122 362 29 6 1085 1446 465805365 465805018 3.920000e-113 418.0
41 TraesCS6A01G350800 chrUn 87.109 256 21 6 834 1081 389577883 389577632 1.930000e-71 279.0
42 TraesCS6A01G350800 chrUn 87.109 256 21 6 834 1081 465805655 465805404 1.930000e-71 279.0


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 TraesCS6A01G350800 chr6A 582629751 582632295 2544 True 4700.0 4700 100.0000 1 2545 1 chr6A.!!$R1 2544
1 TraesCS6A01G350800 chr6A 582516401 582517235 834 False 643.0 643 81.3710 860 1699 1 chr6A.!!$F1 839
2 TraesCS6A01G350800 chr6A 582511216 582512036 820 False 483.5 656 89.2755 835 1612 2 chr6A.!!$F2 777
3 TraesCS6A01G350800 chr2B 547863184 547864010 826 False 1260.0 1260 94.1960 4 828 1 chr2B.!!$F2 824
4 TraesCS6A01G350800 chr2B 83656507 83657337 830 False 1179.0 1179 92.3170 4 833 1 chr2B.!!$F1 829
5 TraesCS6A01G350800 chr2D 635804646 635805473 827 False 1245.0 1245 93.8480 4 830 1 chr2D.!!$F1 826
6 TraesCS6A01G350800 chr2D 203124568 203125413 845 True 1074.0 1074 89.5420 1694 2544 1 chr2D.!!$R1 850
7 TraesCS6A01G350800 chr1B 668063271 668064099 828 False 1236.0 1236 93.6140 4 830 1 chr1B.!!$F2 826
8 TraesCS6A01G350800 chr1B 395062897 395063727 830 False 1218.0 1218 93.1490 1 830 1 chr1B.!!$F1 829
9 TraesCS6A01G350800 chr1B 647508498 647509348 850 True 1151.0 1151 91.0900 1694 2544 1 chr1B.!!$R2 850
10 TraesCS6A01G350800 chr1B 452753429 452754278 849 True 1122.0 1122 90.4820 1694 2544 1 chr1B.!!$R1 850
11 TraesCS6A01G350800 chr7B 43761201 43762033 832 False 1197.0 1197 92.6860 1 830 1 chr7B.!!$F1 829
12 TraesCS6A01G350800 chr7B 679538414 679539265 851 True 1074.0 1074 89.4490 1694 2544 1 chr7B.!!$R1 850
13 TraesCS6A01G350800 chr7B 125688321 125689173 852 False 1053.0 1053 88.9930 1694 2544 1 chr7B.!!$F2 850
14 TraesCS6A01G350800 chr5D 397342713 397343538 825 True 1170.0 1170 92.1880 4 833 1 chr5D.!!$R1 829
15 TraesCS6A01G350800 chr5D 360902196 360903021 825 False 1149.0 1149 91.7970 4 830 1 chr5D.!!$F1 826
16 TraesCS6A01G350800 chr6D 453367462 453368292 830 True 1140.0 1140 91.4660 4 833 1 chr6D.!!$R3 829
17 TraesCS6A01G350800 chr6D 435749742 435750590 848 False 1038.0 1038 88.8000 834 1697 1 chr6D.!!$F1 863
18 TraesCS6A01G350800 chr6D 435962536 435963073 537 True 608.0 608 87.0740 1085 1636 1 chr6D.!!$R2 551
19 TraesCS6A01G350800 chr6D 435711607 435712498 891 False 520.5 730 88.9330 834 1697 2 chr6D.!!$F3 863
20 TraesCS6A01G350800 chr6D 435831694 435832428 734 True 374.0 374 76.9640 853 1559 1 chr6D.!!$R1 706
21 TraesCS6A01G350800 chr6B 430565222 430566071 849 False 1138.0 1138 90.8450 1695 2544 1 chr6B.!!$F1 849
22 TraesCS6A01G350800 chr6B 658577677 658578266 589 True 520.0 520 82.7420 1085 1699 1 chr6B.!!$R1 614
23 TraesCS6A01G350800 chr6B 658477284 658478167 883 False 489.0 699 87.4370 834 1697 2 chr6B.!!$F3 863
24 TraesCS6A01G350800 chr6B 658496069 658496952 883 False 489.0 699 87.4370 834 1697 2 chr6B.!!$F4 863
25 TraesCS6A01G350800 chr6B 658515220 658516103 883 False 486.0 693 87.3555 834 1697 2 chr6B.!!$F5 863
26 TraesCS6A01G350800 chr5B 704247218 704248069 851 False 1107.0 1107 90.1520 1694 2544 1 chr5B.!!$F1 850
27 TraesCS6A01G350800 chr3A 547240545 547241391 846 True 1098.0 1098 90.0580 1694 2544 1 chr3A.!!$R1 850
28 TraesCS6A01G350800 chr1A 561580607 561581455 848 False 1066.0 1066 89.3070 1694 2544 1 chr1A.!!$F1 850
29 TraesCS6A01G350800 chrUn 389577246 389577883 637 True 348.5 418 87.6155 834 1446 2 chrUn.!!$R1 612
30 TraesCS6A01G350800 chrUn 465805018 465805655 637 True 348.5 418 87.6155 834 1446 2 chrUn.!!$R2 612

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
832 837 0.028902 GACTGCAACCAAACACGACC 59.971 55.0 0.0 0.0 0.0 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2258 2531 1.068954 TCTTCCGCGATGATCAGATCG 60.069 52.381 8.23 13.2 46.54 3.69 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
18 19 2.728397 ACGGTCTACTGCAGTGACA 58.272 52.632 31.85 16.40 31.98 3.58
44 45 0.251386 TGTCGAGCTCCTCTGTCCTT 60.251 55.000 8.47 0.00 0.00 3.36
64 65 6.097696 GTCCTTTACTCAGAGCTCTCCTATTT 59.902 42.308 14.96 0.00 0.00 1.40
73 74 5.029474 AGAGCTCTCCTATTTGTTCCTCTT 58.971 41.667 11.45 0.00 0.00 2.85
109 110 0.554792 CCCTTGATCTCCTTGCCCAT 59.445 55.000 0.00 0.00 0.00 4.00
128 129 5.202004 CCCATGTCCTACTACACTAGAGTT 58.798 45.833 0.00 0.00 30.75 3.01
227 228 1.423584 TCTTGTGTCCTCTGCCTTCA 58.576 50.000 0.00 0.00 0.00 3.02
287 292 3.423162 CTTGGCCTCCTCTCTCGCG 62.423 68.421 3.32 0.00 0.00 5.87
303 308 0.170561 CGCGCTACTACACTGGAGTT 59.829 55.000 5.56 0.00 0.00 3.01
550 555 2.555782 GACGCGCACTGCATTTCA 59.444 55.556 5.73 0.00 46.97 2.69
556 561 1.376543 CGCACTGCATTTCATCTCCT 58.623 50.000 1.11 0.00 0.00 3.69
631 636 0.747644 CATACCTCATGCGGGCAACA 60.748 55.000 6.69 0.00 39.74 3.33
641 646 1.943693 CGGGCAACAAAACAGCGTG 60.944 57.895 0.00 0.00 39.74 5.34
662 667 2.667874 TTGCATGCGCCGAGACAA 60.668 55.556 14.09 0.00 37.32 3.18
663 668 2.039974 TTGCATGCGCCGAGACAAT 61.040 52.632 14.09 0.00 37.32 2.71
664 669 2.023741 GCATGCGCCGAGACAATG 59.976 61.111 4.18 0.27 0.00 2.82
665 670 2.023741 CATGCGCCGAGACAATGC 59.976 61.111 4.18 0.00 0.00 3.56
666 671 2.436469 ATGCGCCGAGACAATGCA 60.436 55.556 4.18 0.00 40.23 3.96
667 672 2.466982 ATGCGCCGAGACAATGCAG 61.467 57.895 4.18 0.00 39.17 4.41
668 673 3.869272 GCGCCGAGACAATGCAGG 61.869 66.667 0.00 0.00 0.00 4.85
669 674 2.434884 CGCCGAGACAATGCAGGT 60.435 61.111 0.00 0.00 0.00 4.00
670 675 1.153647 CGCCGAGACAATGCAGGTA 60.154 57.895 0.00 0.00 0.00 3.08
671 676 0.739462 CGCCGAGACAATGCAGGTAA 60.739 55.000 0.00 0.00 0.00 2.85
672 677 0.727398 GCCGAGACAATGCAGGTAAC 59.273 55.000 0.00 0.00 0.00 2.50
673 678 1.369625 CCGAGACAATGCAGGTAACC 58.630 55.000 0.00 0.00 37.17 2.85
674 679 1.338674 CCGAGACAATGCAGGTAACCA 60.339 52.381 0.00 0.00 37.17 3.67
675 680 2.422597 CGAGACAATGCAGGTAACCAA 58.577 47.619 0.00 0.00 37.17 3.67
676 681 2.811431 CGAGACAATGCAGGTAACCAAA 59.189 45.455 0.00 0.00 37.17 3.28
677 682 3.364964 CGAGACAATGCAGGTAACCAAAC 60.365 47.826 0.00 0.00 37.17 2.93
678 683 3.561143 AGACAATGCAGGTAACCAAACA 58.439 40.909 0.00 0.00 37.17 2.83
679 684 3.957497 AGACAATGCAGGTAACCAAACAA 59.043 39.130 0.00 0.00 37.17 2.83
680 685 4.048504 GACAATGCAGGTAACCAAACAAC 58.951 43.478 0.00 0.00 37.17 3.32
681 686 3.449018 ACAATGCAGGTAACCAAACAACA 59.551 39.130 0.00 0.00 37.17 3.33
682 687 4.100808 ACAATGCAGGTAACCAAACAACAT 59.899 37.500 0.00 0.00 37.17 2.71
683 688 3.724508 TGCAGGTAACCAAACAACATG 57.275 42.857 0.00 0.00 37.17 3.21
684 689 2.403259 GCAGGTAACCAAACAACATGC 58.597 47.619 0.00 0.00 42.65 4.06
685 690 2.866065 GCAGGTAACCAAACAACATGCC 60.866 50.000 0.23 0.00 43.15 4.40
686 691 2.363680 CAGGTAACCAAACAACATGCCA 59.636 45.455 0.00 0.00 37.17 4.92
687 692 3.034635 AGGTAACCAAACAACATGCCAA 58.965 40.909 0.00 0.00 37.17 4.52
688 693 3.452627 AGGTAACCAAACAACATGCCAAA 59.547 39.130 0.00 0.00 37.17 3.28
689 694 3.807071 GGTAACCAAACAACATGCCAAAG 59.193 43.478 0.00 0.00 0.00 2.77
690 695 3.625649 AACCAAACAACATGCCAAAGT 57.374 38.095 0.00 0.00 0.00 2.66
691 696 3.625649 ACCAAACAACATGCCAAAGTT 57.374 38.095 0.00 0.00 0.00 2.66
693 698 3.055530 ACCAAACAACATGCCAAAGTTGA 60.056 39.130 17.00 0.00 46.01 3.18
694 699 4.128643 CCAAACAACATGCCAAAGTTGAT 58.871 39.130 17.00 5.61 46.01 2.57
695 700 4.575645 CCAAACAACATGCCAAAGTTGATT 59.424 37.500 17.00 10.43 46.01 2.57
696 701 5.277442 CCAAACAACATGCCAAAGTTGATTC 60.277 40.000 17.00 0.00 46.01 2.52
697 702 3.993920 ACAACATGCCAAAGTTGATTCC 58.006 40.909 17.00 0.00 46.01 3.01
698 703 3.244181 ACAACATGCCAAAGTTGATTCCC 60.244 43.478 17.00 0.00 46.01 3.97
699 704 2.893424 ACATGCCAAAGTTGATTCCCT 58.107 42.857 0.00 0.00 0.00 4.20
700 705 4.046286 ACATGCCAAAGTTGATTCCCTA 57.954 40.909 0.00 0.00 0.00 3.53
701 706 4.415596 ACATGCCAAAGTTGATTCCCTAA 58.584 39.130 0.00 0.00 0.00 2.69
702 707 5.025453 ACATGCCAAAGTTGATTCCCTAAT 58.975 37.500 0.00 0.00 0.00 1.73
703 708 5.105228 ACATGCCAAAGTTGATTCCCTAATG 60.105 40.000 0.00 0.00 0.00 1.90
704 709 3.195396 TGCCAAAGTTGATTCCCTAATGC 59.805 43.478 0.00 0.00 0.00 3.56
705 710 3.195396 GCCAAAGTTGATTCCCTAATGCA 59.805 43.478 0.00 0.00 0.00 3.96
706 711 4.678840 GCCAAAGTTGATTCCCTAATGCAG 60.679 45.833 0.00 0.00 0.00 4.41
707 712 4.142093 CCAAAGTTGATTCCCTAATGCAGG 60.142 45.833 0.00 0.00 45.07 4.85
720 725 3.370840 AATGCAGGAAGTCCATAAGCA 57.629 42.857 0.00 4.88 38.89 3.91
721 726 2.408271 TGCAGGAAGTCCATAAGCAG 57.592 50.000 0.00 0.00 38.89 4.24
722 727 1.065199 TGCAGGAAGTCCATAAGCAGG 60.065 52.381 0.00 0.00 38.89 4.85
723 728 1.673168 CAGGAAGTCCATAAGCAGGC 58.327 55.000 0.00 0.00 38.89 4.85
724 729 1.065199 CAGGAAGTCCATAAGCAGGCA 60.065 52.381 0.00 0.00 38.89 4.75
725 730 1.635487 AGGAAGTCCATAAGCAGGCAA 59.365 47.619 0.00 0.00 38.89 4.52
726 731 1.745653 GGAAGTCCATAAGCAGGCAAC 59.254 52.381 0.00 0.00 35.64 4.17
727 732 1.745653 GAAGTCCATAAGCAGGCAACC 59.254 52.381 0.00 0.00 37.17 3.77
728 733 0.698238 AGTCCATAAGCAGGCAACCA 59.302 50.000 0.00 0.00 37.17 3.67
729 734 1.075374 AGTCCATAAGCAGGCAACCAA 59.925 47.619 0.00 0.00 37.17 3.67
730 735 1.892474 GTCCATAAGCAGGCAACCAAA 59.108 47.619 0.00 0.00 37.17 3.28
731 736 1.892474 TCCATAAGCAGGCAACCAAAC 59.108 47.619 0.00 0.00 37.17 2.93
732 737 1.617850 CCATAAGCAGGCAACCAAACA 59.382 47.619 0.00 0.00 37.17 2.83
733 738 2.036992 CCATAAGCAGGCAACCAAACAA 59.963 45.455 0.00 0.00 37.17 2.83
734 739 2.880963 TAAGCAGGCAACCAAACAAC 57.119 45.000 0.00 0.00 37.17 3.32
735 740 1.194218 AAGCAGGCAACCAAACAACT 58.806 45.000 0.00 0.00 37.17 3.16
736 741 0.746659 AGCAGGCAACCAAACAACTC 59.253 50.000 0.00 0.00 37.17 3.01
737 742 0.594796 GCAGGCAACCAAACAACTCG 60.595 55.000 0.00 0.00 37.17 4.18
738 743 0.594796 CAGGCAACCAAACAACTCGC 60.595 55.000 0.00 0.00 37.17 5.03
739 744 1.034838 AGGCAACCAAACAACTCGCA 61.035 50.000 0.00 0.00 37.17 5.10
740 745 0.594796 GGCAACCAAACAACTCGCAG 60.595 55.000 0.00 0.00 0.00 5.18
741 746 0.380378 GCAACCAAACAACTCGCAGA 59.620 50.000 0.00 0.00 0.00 4.26
742 747 1.001378 GCAACCAAACAACTCGCAGAT 60.001 47.619 0.00 0.00 33.89 2.90
743 748 2.653890 CAACCAAACAACTCGCAGATG 58.346 47.619 0.00 0.00 33.89 2.90
744 749 1.967319 ACCAAACAACTCGCAGATGT 58.033 45.000 0.00 0.00 32.27 3.06
745 750 1.873591 ACCAAACAACTCGCAGATGTC 59.126 47.619 0.91 0.00 29.45 3.06
746 751 1.136252 CCAAACAACTCGCAGATGTCG 60.136 52.381 0.91 0.00 29.45 4.35
747 752 0.512952 AAACAACTCGCAGATGTCGC 59.487 50.000 0.91 0.00 29.45 5.19
748 753 0.599991 AACAACTCGCAGATGTCGCA 60.600 50.000 0.91 0.00 29.45 5.10
749 754 0.390340 ACAACTCGCAGATGTCGCAT 60.390 50.000 0.00 0.00 33.89 4.73
750 755 1.135112 ACAACTCGCAGATGTCGCATA 60.135 47.619 0.00 0.00 33.89 3.14
751 756 2.130395 CAACTCGCAGATGTCGCATAT 58.870 47.619 0.00 0.00 33.89 1.78
752 757 3.243401 ACAACTCGCAGATGTCGCATATA 60.243 43.478 0.00 0.00 33.89 0.86
753 758 3.643159 ACTCGCAGATGTCGCATATAA 57.357 42.857 0.00 0.00 33.89 0.98
754 759 3.569548 ACTCGCAGATGTCGCATATAAG 58.430 45.455 0.00 0.00 33.89 1.73
755 760 2.919859 CTCGCAGATGTCGCATATAAGG 59.080 50.000 0.00 0.00 33.89 2.69
756 761 1.391485 CGCAGATGTCGCATATAAGGC 59.609 52.381 0.00 0.00 0.00 4.35
757 762 2.693069 GCAGATGTCGCATATAAGGCT 58.307 47.619 0.00 0.00 0.00 4.58
758 763 2.414481 GCAGATGTCGCATATAAGGCTG 59.586 50.000 0.00 0.00 0.00 4.85
759 764 3.657634 CAGATGTCGCATATAAGGCTGT 58.342 45.455 0.00 0.00 0.00 4.40
760 765 4.060900 CAGATGTCGCATATAAGGCTGTT 58.939 43.478 0.00 0.00 0.00 3.16
761 766 4.512944 CAGATGTCGCATATAAGGCTGTTT 59.487 41.667 0.00 0.00 0.00 2.83
762 767 5.008019 CAGATGTCGCATATAAGGCTGTTTT 59.992 40.000 0.00 0.00 0.00 2.43
763 768 5.590259 AGATGTCGCATATAAGGCTGTTTTT 59.410 36.000 0.00 0.00 0.00 1.94
779 784 3.670105 TTTTTAGAGCCAGGCTGGG 57.330 52.632 33.43 16.27 39.88 4.45
786 791 2.679716 GCCAGGCTGGGTTGAGAT 59.320 61.111 33.43 0.00 38.19 2.75
787 792 1.751927 GCCAGGCTGGGTTGAGATG 60.752 63.158 33.43 6.46 38.19 2.90
788 793 1.687612 CCAGGCTGGGTTGAGATGT 59.312 57.895 26.34 0.00 32.67 3.06
789 794 0.679002 CCAGGCTGGGTTGAGATGTG 60.679 60.000 26.34 0.00 32.67 3.21
790 795 0.037303 CAGGCTGGGTTGAGATGTGT 59.963 55.000 6.61 0.00 0.00 3.72
791 796 1.278985 CAGGCTGGGTTGAGATGTGTA 59.721 52.381 6.61 0.00 0.00 2.90
792 797 2.092753 CAGGCTGGGTTGAGATGTGTAT 60.093 50.000 6.61 0.00 0.00 2.29
793 798 2.092753 AGGCTGGGTTGAGATGTGTATG 60.093 50.000 0.00 0.00 0.00 2.39
794 799 1.672881 GCTGGGTTGAGATGTGTATGC 59.327 52.381 0.00 0.00 0.00 3.14
795 800 2.940971 GCTGGGTTGAGATGTGTATGCA 60.941 50.000 0.00 0.00 0.00 3.96
796 801 3.346315 CTGGGTTGAGATGTGTATGCAA 58.654 45.455 0.00 0.00 0.00 4.08
797 802 3.081061 TGGGTTGAGATGTGTATGCAAC 58.919 45.455 0.00 0.00 38.40 4.17
798 803 2.095853 GGGTTGAGATGTGTATGCAACG 59.904 50.000 0.00 0.00 39.63 4.10
799 804 2.476185 GGTTGAGATGTGTATGCAACGC 60.476 50.000 0.00 0.00 39.63 4.84
803 808 4.035435 TGTGTATGCAACGCACGT 57.965 50.000 10.05 0.00 43.60 4.49
804 809 3.196613 TGTGTATGCAACGCACGTA 57.803 47.368 10.05 0.00 43.60 3.57
805 810 0.785378 TGTGTATGCAACGCACGTAC 59.215 50.000 10.05 0.00 43.60 3.67
806 811 1.065358 GTGTATGCAACGCACGTACT 58.935 50.000 0.00 0.00 43.04 2.73
807 812 1.064582 TGTATGCAACGCACGTACTG 58.935 50.000 0.00 0.00 43.04 2.74
808 813 1.065358 GTATGCAACGCACGTACTGT 58.935 50.000 0.00 0.00 43.04 3.55
809 814 1.458064 GTATGCAACGCACGTACTGTT 59.542 47.619 0.00 0.00 43.04 3.16
810 815 0.511221 ATGCAACGCACGTACTGTTC 59.489 50.000 0.00 0.00 43.04 3.18
811 816 0.806492 TGCAACGCACGTACTGTTCA 60.806 50.000 0.00 0.00 31.71 3.18
812 817 0.302288 GCAACGCACGTACTGTTCAA 59.698 50.000 0.00 0.00 0.00 2.69
813 818 1.656429 GCAACGCACGTACTGTTCAAG 60.656 52.381 0.00 0.00 0.00 3.02
814 819 1.855978 CAACGCACGTACTGTTCAAGA 59.144 47.619 0.00 0.00 0.00 3.02
815 820 1.484356 ACGCACGTACTGTTCAAGAC 58.516 50.000 0.00 0.00 0.00 3.01
816 821 1.066605 ACGCACGTACTGTTCAAGACT 59.933 47.619 0.00 0.00 0.00 3.24
817 822 1.452025 CGCACGTACTGTTCAAGACTG 59.548 52.381 0.00 0.00 0.00 3.51
818 823 1.192534 GCACGTACTGTTCAAGACTGC 59.807 52.381 0.00 0.00 0.00 4.40
819 824 2.469826 CACGTACTGTTCAAGACTGCA 58.530 47.619 0.00 0.00 0.00 4.41
820 825 2.863740 CACGTACTGTTCAAGACTGCAA 59.136 45.455 0.00 0.00 0.00 4.08
821 826 2.864343 ACGTACTGTTCAAGACTGCAAC 59.136 45.455 0.00 0.00 0.00 4.17
822 827 2.221055 CGTACTGTTCAAGACTGCAACC 59.779 50.000 0.00 0.00 0.00 3.77
823 828 2.418368 ACTGTTCAAGACTGCAACCA 57.582 45.000 0.00 0.00 0.00 3.67
824 829 2.722094 ACTGTTCAAGACTGCAACCAA 58.278 42.857 0.00 0.00 0.00 3.67
825 830 3.088532 ACTGTTCAAGACTGCAACCAAA 58.911 40.909 0.00 0.00 0.00 3.28
826 831 3.119495 ACTGTTCAAGACTGCAACCAAAC 60.119 43.478 0.00 0.00 0.00 2.93
827 832 2.822561 TGTTCAAGACTGCAACCAAACA 59.177 40.909 0.00 0.00 0.00 2.83
828 833 3.179048 GTTCAAGACTGCAACCAAACAC 58.821 45.455 0.00 0.00 0.00 3.32
829 834 1.400142 TCAAGACTGCAACCAAACACG 59.600 47.619 0.00 0.00 0.00 4.49
830 835 1.400142 CAAGACTGCAACCAAACACGA 59.600 47.619 0.00 0.00 0.00 4.35
831 836 1.014352 AGACTGCAACCAAACACGAC 58.986 50.000 0.00 0.00 0.00 4.34
832 837 0.028902 GACTGCAACCAAACACGACC 59.971 55.000 0.00 0.00 0.00 4.79
844 849 0.952280 ACACGACCGCGATCATATCT 59.048 50.000 8.23 0.00 41.64 1.98
858 863 0.464036 ATATCTCCTCGCCGCAAACA 59.536 50.000 0.00 0.00 0.00 2.83
1000 1048 2.967397 CCAGGCGACGACTAACCA 59.033 61.111 1.00 0.00 0.00 3.67
1001 1049 1.515954 CCAGGCGACGACTAACCAT 59.484 57.895 1.00 0.00 0.00 3.55
1013 1061 4.548991 GACTAACCATGTCGACGAGTAT 57.451 45.455 11.62 0.00 0.00 2.12
1046 1094 4.760047 GGACATGGCGTCGGCACT 62.760 66.667 24.87 12.12 46.42 4.40
1114 1221 4.166888 GGATCCTGCAGCGCTCCA 62.167 66.667 7.13 2.68 0.00 3.86
1115 1222 2.124983 GATCCTGCAGCGCTCCAA 60.125 61.111 7.13 0.00 0.00 3.53
1195 1312 9.762933 AACACTAGTTGTAATTTGCATTTTGAT 57.237 25.926 0.00 0.00 37.51 2.57
1241 1367 6.618287 TCAATCACTGAATTTTCTCGTTGT 57.382 33.333 0.00 0.00 0.00 3.32
1253 1379 3.482722 TCTCGTTGTTCGTGATAGTCC 57.517 47.619 0.00 0.00 37.18 3.85
1343 1469 2.591429 CACGGTGACCAGCAGCAA 60.591 61.111 0.74 0.00 45.15 3.91
1386 1518 1.373435 GGACACACCGGAATGACCA 59.627 57.895 9.46 0.00 38.90 4.02
1387 1519 0.673644 GGACACACCGGAATGACCAG 60.674 60.000 9.46 0.00 38.90 4.00
1388 1520 1.298859 GACACACCGGAATGACCAGC 61.299 60.000 9.46 0.00 38.90 4.85
1389 1521 1.302431 CACACCGGAATGACCAGCA 60.302 57.895 9.46 0.00 38.90 4.41
1456 1597 0.391661 CAGGGACACACCGGAATGAG 60.392 60.000 9.46 0.00 40.11 2.90
1462 1603 2.745884 CACCGGAATGAGCGGCAA 60.746 61.111 9.46 0.00 0.00 4.52
1465 1606 1.819208 CCGGAATGAGCGGCAATGA 60.819 57.895 0.00 0.00 0.00 2.57
1573 1835 0.591170 GCGGCAGCTACTTGTCAAAA 59.409 50.000 0.00 0.00 41.01 2.44
1636 1904 6.667414 AGATGGAGAGATACAGTTGAACTTCT 59.333 38.462 0.00 0.00 0.00 2.85
1640 1908 7.038729 TGGAGAGATACAGTTGAACTTCTTGAT 60.039 37.037 0.00 0.00 0.00 2.57
1769 2039 3.376234 CCAAGGCATGTAACTCTCATGTG 59.624 47.826 7.55 0.00 42.94 3.21
1853 2123 8.459911 TCGTTTACTTGGTATCAGATAGATCA 57.540 34.615 0.00 0.00 38.19 2.92
1861 2131 8.733092 TTGGTATCAGATAGATCAATCCTCTT 57.267 34.615 0.00 0.00 38.19 2.85
1916 2189 3.164011 GAACGTCGTCACCTCGCG 61.164 66.667 0.00 0.00 36.81 5.87
1946 2219 2.281484 GCCGCTTCCACCAACTCA 60.281 61.111 0.00 0.00 0.00 3.41
1947 2220 2.328099 GCCGCTTCCACCAACTCAG 61.328 63.158 0.00 0.00 0.00 3.35
1963 2236 1.221909 TCAGCCCTCACCTCTCCCTA 61.222 60.000 0.00 0.00 0.00 3.53
1967 2240 0.397816 CCCTCACCTCTCCCTACCTG 60.398 65.000 0.00 0.00 0.00 4.00
2141 2414 1.892862 CGTCCTCCTCGGCGAGTAT 60.893 63.158 32.41 0.00 35.30 2.12
2162 2435 1.071471 CTTGCTTCCCCACGTCACT 59.929 57.895 0.00 0.00 0.00 3.41
2172 2445 1.280746 CACGTCACTACCGTCACGT 59.719 57.895 0.00 0.00 46.05 4.49
2227 2500 0.460284 GACTACGTCGTCCGGTCCTA 60.460 60.000 8.97 0.00 42.24 2.94
2236 2509 0.032267 GTCCGGTCCTAGCTGTATGC 59.968 60.000 0.00 0.00 43.29 3.14
2280 2553 3.583806 GATCTGATCATCGCGGAAGATT 58.416 45.455 12.66 0.00 0.00 2.40
2321 2594 3.517500 GGACTCTCATCTCCAACCTCTTT 59.482 47.826 0.00 0.00 0.00 2.52
2330 2604 8.789767 TCATCTCCAACCTCTTTCTAGATAAT 57.210 34.615 0.00 0.00 0.00 1.28
2339 2613 9.432982 AACCTCTTTCTAGATAATCAGATGACT 57.567 33.333 0.00 0.00 0.00 3.41
2351 2625 1.167155 AGATGACTCGCGCGGTCTAT 61.167 55.000 34.53 28.16 35.04 1.98
2372 2646 2.932234 CGAGGCCGAGTTCTGTGGT 61.932 63.158 0.00 0.00 38.22 4.16
2376 2650 1.666011 GCCGAGTTCTGTGGTCTCA 59.334 57.895 0.00 0.00 0.00 3.27
2378 2652 2.001812 CCGAGTTCTGTGGTCTCATG 57.998 55.000 0.00 0.00 0.00 3.07
2429 2703 2.664081 CCGCTTGAAGGCCCTCTCT 61.664 63.158 0.00 0.00 0.00 3.10
2495 2769 1.118965 TCCTCAACTGCCTTCGTGGA 61.119 55.000 1.63 0.00 38.35 4.02
2511 2785 2.342648 GACTCAACCCGCGGTTCT 59.657 61.111 26.12 4.48 43.05 3.01
2544 2818 1.737029 CGATCGTGACCATGCAGAACT 60.737 52.381 7.03 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 2.071688 CAGTGTCACTGCAGTAGACC 57.928 55.000 29.85 23.97 39.62 3.85
13 14 1.630244 GCTCGACATGGCAGTGTCAC 61.630 60.000 21.52 0.00 46.89 3.67
18 19 1.954362 GAGGAGCTCGACATGGCAGT 61.954 60.000 7.83 0.00 0.00 4.40
44 45 6.127310 GGAACAAATAGGAGAGCTCTGAGTAA 60.127 42.308 23.91 1.93 0.00 2.24
64 65 0.319555 CTTCGGCGTCAAGAGGAACA 60.320 55.000 6.85 0.00 0.00 3.18
109 110 7.002879 AGAAACAACTCTAGTGTAGTAGGACA 58.997 38.462 0.00 0.00 0.00 4.02
128 129 1.005037 ATGAGCGACGCCAGAAACA 60.005 52.632 17.79 7.93 0.00 2.83
287 292 3.586892 GGAACAACTCCAGTGTAGTAGC 58.413 50.000 0.00 0.00 44.67 3.58
303 308 2.622903 GATGATCGACGCCGGGAACA 62.623 60.000 2.18 0.00 36.24 3.18
327 332 1.806568 CAGTGGACGAGAGAGGAGC 59.193 63.158 0.00 0.00 0.00 4.70
496 501 1.980232 TGGATAGTGGTCGTGGCGT 60.980 57.895 0.00 0.00 0.00 5.68
538 543 1.674962 GGAGGAGATGAAATGCAGTGC 59.325 52.381 8.58 8.58 0.00 4.40
550 555 2.756233 GCTAGCAGAGGAAGGAGGAGAT 60.756 54.545 10.63 0.00 0.00 2.75
556 561 2.541233 AAGAGCTAGCAGAGGAAGGA 57.459 50.000 18.83 0.00 0.00 3.36
631 636 2.858260 GCATGCAACTACACGCTGTTTT 60.858 45.455 14.21 0.00 0.00 2.43
641 646 1.809619 TCTCGGCGCATGCAACTAC 60.810 57.895 19.57 0.67 45.35 2.73
662 667 3.554752 GCATGTTGTTTGGTTACCTGCAT 60.555 43.478 2.07 0.00 34.76 3.96
663 668 2.223923 GCATGTTGTTTGGTTACCTGCA 60.224 45.455 2.07 0.00 34.76 4.41
664 669 2.403259 GCATGTTGTTTGGTTACCTGC 58.597 47.619 2.07 0.00 0.00 4.85
665 670 2.363680 TGGCATGTTGTTTGGTTACCTG 59.636 45.455 2.07 0.00 0.00 4.00
666 671 2.672098 TGGCATGTTGTTTGGTTACCT 58.328 42.857 2.07 0.00 0.00 3.08
667 672 3.460857 TTGGCATGTTGTTTGGTTACC 57.539 42.857 0.00 0.00 0.00 2.85
668 673 4.438148 ACTTTGGCATGTTGTTTGGTTAC 58.562 39.130 0.00 0.00 0.00 2.50
669 674 4.744795 ACTTTGGCATGTTGTTTGGTTA 57.255 36.364 0.00 0.00 0.00 2.85
670 675 3.625649 ACTTTGGCATGTTGTTTGGTT 57.374 38.095 0.00 0.00 0.00 3.67
671 676 3.055530 TCAACTTTGGCATGTTGTTTGGT 60.056 39.130 23.57 0.00 42.71 3.67
672 677 3.529533 TCAACTTTGGCATGTTGTTTGG 58.470 40.909 23.57 7.42 42.71 3.28
673 678 5.277442 GGAATCAACTTTGGCATGTTGTTTG 60.277 40.000 22.82 9.01 42.71 2.93
674 679 4.815846 GGAATCAACTTTGGCATGTTGTTT 59.184 37.500 23.57 21.82 42.71 2.83
675 680 4.379652 GGAATCAACTTTGGCATGTTGTT 58.620 39.130 23.57 18.76 42.71 2.83
676 681 3.244181 GGGAATCAACTTTGGCATGTTGT 60.244 43.478 23.57 12.40 42.71 3.32
677 682 3.007182 AGGGAATCAACTTTGGCATGTTG 59.993 43.478 20.65 20.65 43.28 3.33
678 683 3.242011 AGGGAATCAACTTTGGCATGTT 58.758 40.909 0.00 0.00 0.00 2.71
679 684 2.893424 AGGGAATCAACTTTGGCATGT 58.107 42.857 0.00 0.00 0.00 3.21
680 685 5.353938 CATTAGGGAATCAACTTTGGCATG 58.646 41.667 0.00 0.00 0.00 4.06
681 686 4.141869 GCATTAGGGAATCAACTTTGGCAT 60.142 41.667 0.00 0.00 0.00 4.40
682 687 3.195396 GCATTAGGGAATCAACTTTGGCA 59.805 43.478 0.00 0.00 0.00 4.92
683 688 3.195396 TGCATTAGGGAATCAACTTTGGC 59.805 43.478 0.00 0.00 0.00 4.52
684 689 4.142093 CCTGCATTAGGGAATCAACTTTGG 60.142 45.833 0.00 0.00 43.33 3.28
685 690 5.002464 CCTGCATTAGGGAATCAACTTTG 57.998 43.478 0.00 0.00 43.33 2.77
698 703 4.454678 TGCTTATGGACTTCCTGCATTAG 58.545 43.478 0.00 0.00 36.82 1.73
699 704 4.454678 CTGCTTATGGACTTCCTGCATTA 58.545 43.478 0.00 0.00 36.82 1.90
700 705 3.285484 CTGCTTATGGACTTCCTGCATT 58.715 45.455 0.00 0.00 36.82 3.56
701 706 2.422519 CCTGCTTATGGACTTCCTGCAT 60.423 50.000 0.00 0.00 36.82 3.96
702 707 1.065199 CCTGCTTATGGACTTCCTGCA 60.065 52.381 0.00 0.00 36.82 4.41
703 708 1.673168 CCTGCTTATGGACTTCCTGC 58.327 55.000 0.00 0.00 36.82 4.85
704 709 1.065199 TGCCTGCTTATGGACTTCCTG 60.065 52.381 0.00 0.00 36.82 3.86
705 710 1.289160 TGCCTGCTTATGGACTTCCT 58.711 50.000 0.00 0.00 36.82 3.36
706 711 1.745653 GTTGCCTGCTTATGGACTTCC 59.254 52.381 0.00 0.00 0.00 3.46
707 712 1.745653 GGTTGCCTGCTTATGGACTTC 59.254 52.381 0.00 0.00 0.00 3.01
708 713 1.075374 TGGTTGCCTGCTTATGGACTT 59.925 47.619 0.00 0.00 0.00 3.01
709 714 0.698238 TGGTTGCCTGCTTATGGACT 59.302 50.000 0.00 0.00 0.00 3.85
710 715 1.544724 TTGGTTGCCTGCTTATGGAC 58.455 50.000 0.00 0.00 0.00 4.02
711 716 1.892474 GTTTGGTTGCCTGCTTATGGA 59.108 47.619 0.00 0.00 0.00 3.41
712 717 1.617850 TGTTTGGTTGCCTGCTTATGG 59.382 47.619 0.00 0.00 0.00 2.74
713 718 3.059166 GTTGTTTGGTTGCCTGCTTATG 58.941 45.455 0.00 0.00 0.00 1.90
714 719 2.965147 AGTTGTTTGGTTGCCTGCTTAT 59.035 40.909 0.00 0.00 0.00 1.73
715 720 2.360801 GAGTTGTTTGGTTGCCTGCTTA 59.639 45.455 0.00 0.00 0.00 3.09
716 721 1.136891 GAGTTGTTTGGTTGCCTGCTT 59.863 47.619 0.00 0.00 0.00 3.91
717 722 0.746659 GAGTTGTTTGGTTGCCTGCT 59.253 50.000 0.00 0.00 0.00 4.24
718 723 0.594796 CGAGTTGTTTGGTTGCCTGC 60.595 55.000 0.00 0.00 0.00 4.85
719 724 0.594796 GCGAGTTGTTTGGTTGCCTG 60.595 55.000 0.00 0.00 0.00 4.85
720 725 1.034838 TGCGAGTTGTTTGGTTGCCT 61.035 50.000 0.00 0.00 0.00 4.75
721 726 0.594796 CTGCGAGTTGTTTGGTTGCC 60.595 55.000 0.00 0.00 0.00 4.52
722 727 0.380378 TCTGCGAGTTGTTTGGTTGC 59.620 50.000 0.00 0.00 0.00 4.17
723 728 2.033299 ACATCTGCGAGTTGTTTGGTTG 59.967 45.455 0.00 0.00 0.00 3.77
724 729 2.290641 GACATCTGCGAGTTGTTTGGTT 59.709 45.455 0.00 0.00 29.00 3.67
725 730 1.873591 GACATCTGCGAGTTGTTTGGT 59.126 47.619 0.00 0.00 29.00 3.67
726 731 1.136252 CGACATCTGCGAGTTGTTTGG 60.136 52.381 0.00 0.00 29.00 3.28
727 732 1.722751 GCGACATCTGCGAGTTGTTTG 60.723 52.381 0.00 0.00 29.00 2.93
728 733 0.512952 GCGACATCTGCGAGTTGTTT 59.487 50.000 0.00 0.00 29.00 2.83
729 734 0.599991 TGCGACATCTGCGAGTTGTT 60.600 50.000 0.00 0.00 29.00 2.83
730 735 0.390340 ATGCGACATCTGCGAGTTGT 60.390 50.000 0.00 0.00 31.33 3.32
731 736 1.559831 TATGCGACATCTGCGAGTTG 58.440 50.000 0.00 0.00 34.24 3.16
732 737 2.515926 ATATGCGACATCTGCGAGTT 57.484 45.000 0.00 0.00 34.24 3.01
733 738 3.569548 CTTATATGCGACATCTGCGAGT 58.430 45.455 0.00 0.00 34.24 4.18
734 739 2.919859 CCTTATATGCGACATCTGCGAG 59.080 50.000 0.00 0.00 34.24 5.03
735 740 2.926586 GCCTTATATGCGACATCTGCGA 60.927 50.000 0.00 0.00 34.24 5.10
736 741 1.391485 GCCTTATATGCGACATCTGCG 59.609 52.381 0.00 0.00 34.24 5.18
737 742 2.414481 CAGCCTTATATGCGACATCTGC 59.586 50.000 0.00 0.00 0.00 4.26
738 743 3.657634 ACAGCCTTATATGCGACATCTG 58.342 45.455 0.00 0.00 0.00 2.90
739 744 4.342862 AACAGCCTTATATGCGACATCT 57.657 40.909 0.00 0.00 0.00 2.90
740 745 5.424121 AAAACAGCCTTATATGCGACATC 57.576 39.130 0.00 0.00 0.00 3.06
741 746 5.835113 AAAAACAGCCTTATATGCGACAT 57.165 34.783 0.00 0.00 0.00 3.06
761 766 0.777446 ACCCAGCCTGGCTCTAAAAA 59.223 50.000 20.49 0.00 36.40 1.94
762 767 0.777446 AACCCAGCCTGGCTCTAAAA 59.223 50.000 20.49 0.00 36.40 1.52
763 768 0.038166 CAACCCAGCCTGGCTCTAAA 59.962 55.000 20.49 0.00 36.40 1.85
764 769 0.840288 TCAACCCAGCCTGGCTCTAA 60.840 55.000 20.49 0.00 36.40 2.10
765 770 1.229496 TCAACCCAGCCTGGCTCTA 60.229 57.895 20.49 0.00 36.40 2.43
766 771 2.530151 TCAACCCAGCCTGGCTCT 60.530 61.111 20.49 0.62 36.40 4.09
767 772 1.919600 ATCTCAACCCAGCCTGGCTC 61.920 60.000 20.49 0.00 36.40 4.70
768 773 1.927527 ATCTCAACCCAGCCTGGCT 60.928 57.895 17.22 17.22 40.77 4.75
769 774 1.751927 CATCTCAACCCAGCCTGGC 60.752 63.158 11.65 11.65 35.79 4.85
770 775 0.679002 CACATCTCAACCCAGCCTGG 60.679 60.000 2.91 2.91 37.25 4.45
771 776 0.037303 ACACATCTCAACCCAGCCTG 59.963 55.000 0.00 0.00 0.00 4.85
772 777 1.656587 TACACATCTCAACCCAGCCT 58.343 50.000 0.00 0.00 0.00 4.58
773 778 2.292267 CATACACATCTCAACCCAGCC 58.708 52.381 0.00 0.00 0.00 4.85
774 779 1.672881 GCATACACATCTCAACCCAGC 59.327 52.381 0.00 0.00 0.00 4.85
775 780 2.989909 TGCATACACATCTCAACCCAG 58.010 47.619 0.00 0.00 0.00 4.45
776 781 3.081061 GTTGCATACACATCTCAACCCA 58.919 45.455 0.00 0.00 33.05 4.51
777 782 2.095853 CGTTGCATACACATCTCAACCC 59.904 50.000 0.00 0.00 35.03 4.11
778 783 2.476185 GCGTTGCATACACATCTCAACC 60.476 50.000 0.00 0.00 35.03 3.77
779 784 2.159430 TGCGTTGCATACACATCTCAAC 59.841 45.455 0.00 0.00 31.71 3.18
780 785 2.159430 GTGCGTTGCATACACATCTCAA 59.841 45.455 8.83 0.00 41.91 3.02
781 786 1.731709 GTGCGTTGCATACACATCTCA 59.268 47.619 8.83 0.00 41.91 3.27
782 787 1.267038 CGTGCGTTGCATACACATCTC 60.267 52.381 12.86 0.00 41.91 2.75
783 788 0.721154 CGTGCGTTGCATACACATCT 59.279 50.000 12.86 0.00 41.91 2.90
784 789 0.442310 ACGTGCGTTGCATACACATC 59.558 50.000 12.86 0.00 41.91 3.06
785 790 1.392168 GTACGTGCGTTGCATACACAT 59.608 47.619 1.66 2.46 41.91 3.21
786 791 0.785378 GTACGTGCGTTGCATACACA 59.215 50.000 1.66 1.57 41.91 3.72
787 792 1.065358 AGTACGTGCGTTGCATACAC 58.935 50.000 1.66 0.00 41.91 2.90
788 793 1.064582 CAGTACGTGCGTTGCATACA 58.935 50.000 1.66 0.00 41.91 2.29
789 794 1.065358 ACAGTACGTGCGTTGCATAC 58.935 50.000 1.66 0.00 41.91 2.39
790 795 1.722464 GAACAGTACGTGCGTTGCATA 59.278 47.619 15.59 0.00 41.91 3.14
791 796 0.511221 GAACAGTACGTGCGTTGCAT 59.489 50.000 15.59 0.00 41.91 3.96
792 797 0.806492 TGAACAGTACGTGCGTTGCA 60.806 50.000 15.59 11.34 35.60 4.08
793 798 0.302288 TTGAACAGTACGTGCGTTGC 59.698 50.000 15.59 9.59 0.00 4.17
794 799 1.855978 TCTTGAACAGTACGTGCGTTG 59.144 47.619 15.59 5.20 0.00 4.10
795 800 1.856597 GTCTTGAACAGTACGTGCGTT 59.143 47.619 11.95 11.95 0.00 4.84
796 801 1.066605 AGTCTTGAACAGTACGTGCGT 59.933 47.619 0.00 2.05 0.00 5.24
797 802 1.452025 CAGTCTTGAACAGTACGTGCG 59.548 52.381 0.00 0.00 0.00 5.34
798 803 1.192534 GCAGTCTTGAACAGTACGTGC 59.807 52.381 0.00 0.00 0.00 5.34
799 804 2.469826 TGCAGTCTTGAACAGTACGTG 58.530 47.619 0.00 0.00 0.00 4.49
800 805 2.864343 GTTGCAGTCTTGAACAGTACGT 59.136 45.455 0.00 0.00 0.00 3.57
801 806 2.221055 GGTTGCAGTCTTGAACAGTACG 59.779 50.000 0.00 0.00 0.00 3.67
802 807 3.202906 TGGTTGCAGTCTTGAACAGTAC 58.797 45.455 0.00 0.00 0.00 2.73
803 808 3.552132 TGGTTGCAGTCTTGAACAGTA 57.448 42.857 0.00 0.00 0.00 2.74
804 809 2.418368 TGGTTGCAGTCTTGAACAGT 57.582 45.000 0.00 0.00 0.00 3.55
805 810 3.119531 TGTTTGGTTGCAGTCTTGAACAG 60.120 43.478 0.00 0.00 0.00 3.16
806 811 2.822561 TGTTTGGTTGCAGTCTTGAACA 59.177 40.909 0.00 0.00 0.00 3.18
807 812 3.179048 GTGTTTGGTTGCAGTCTTGAAC 58.821 45.455 0.00 0.00 0.00 3.18
808 813 2.159448 CGTGTTTGGTTGCAGTCTTGAA 60.159 45.455 0.00 0.00 0.00 2.69
809 814 1.400142 CGTGTTTGGTTGCAGTCTTGA 59.600 47.619 0.00 0.00 0.00 3.02
810 815 1.400142 TCGTGTTTGGTTGCAGTCTTG 59.600 47.619 0.00 0.00 0.00 3.02
811 816 1.400494 GTCGTGTTTGGTTGCAGTCTT 59.600 47.619 0.00 0.00 0.00 3.01
812 817 1.014352 GTCGTGTTTGGTTGCAGTCT 58.986 50.000 0.00 0.00 0.00 3.24
813 818 0.028902 GGTCGTGTTTGGTTGCAGTC 59.971 55.000 0.00 0.00 0.00 3.51
814 819 1.711060 CGGTCGTGTTTGGTTGCAGT 61.711 55.000 0.00 0.00 0.00 4.40
815 820 1.010125 CGGTCGTGTTTGGTTGCAG 60.010 57.895 0.00 0.00 0.00 4.41
816 821 3.102985 CGGTCGTGTTTGGTTGCA 58.897 55.556 0.00 0.00 0.00 4.08
817 822 2.353030 GCGGTCGTGTTTGGTTGC 60.353 61.111 0.00 0.00 0.00 4.17
818 823 1.837538 ATCGCGGTCGTGTTTGGTTG 61.838 55.000 6.13 0.00 36.96 3.77
819 824 1.562575 GATCGCGGTCGTGTTTGGTT 61.563 55.000 2.34 0.00 36.96 3.67
820 825 2.025418 GATCGCGGTCGTGTTTGGT 61.025 57.895 2.34 0.00 36.96 3.67
821 826 1.358725 ATGATCGCGGTCGTGTTTGG 61.359 55.000 14.49 0.00 36.96 3.28
822 827 1.273688 TATGATCGCGGTCGTGTTTG 58.726 50.000 24.04 0.00 36.96 2.93
823 828 2.124903 GATATGATCGCGGTCGTGTTT 58.875 47.619 24.04 8.67 36.96 2.83
824 829 1.337071 AGATATGATCGCGGTCGTGTT 59.663 47.619 24.04 11.24 36.96 3.32
825 830 0.952280 AGATATGATCGCGGTCGTGT 59.048 50.000 24.04 17.78 36.96 4.49
826 831 1.607713 GAGATATGATCGCGGTCGTG 58.392 55.000 24.04 0.00 36.96 4.35
827 832 0.522180 GGAGATATGATCGCGGTCGT 59.478 55.000 19.49 19.49 36.96 4.34
828 833 0.805614 AGGAGATATGATCGCGGTCG 59.194 55.000 15.74 0.00 0.00 4.79
829 834 1.202087 CGAGGAGATATGATCGCGGTC 60.202 57.143 13.72 13.72 0.00 4.79
830 835 0.805614 CGAGGAGATATGATCGCGGT 59.194 55.000 6.13 0.00 0.00 5.68
831 836 3.613265 CGAGGAGATATGATCGCGG 57.387 57.895 6.13 0.00 0.00 6.46
858 863 2.287915 CACGAGGCGCAATTTATAAGCT 59.712 45.455 10.83 0.00 0.00 3.74
992 1040 2.915738 ACTCGTCGACATGGTTAGTC 57.084 50.000 17.16 0.00 0.00 2.59
993 1041 3.066342 CCATACTCGTCGACATGGTTAGT 59.934 47.826 19.55 12.67 34.46 2.24
994 1042 3.629058 CCATACTCGTCGACATGGTTAG 58.371 50.000 19.55 8.38 34.46 2.34
1000 1048 1.470979 GGTTGCCATACTCGTCGACAT 60.471 52.381 17.16 2.63 0.00 3.06
1001 1049 0.108992 GGTTGCCATACTCGTCGACA 60.109 55.000 17.16 1.87 0.00 4.35
1131 1238 0.528924 TATGTACACGCACCGAGCTT 59.471 50.000 0.00 0.00 42.61 3.74
1195 1312 9.958234 TTGATTCGTTTCATTCAAATCTAAACA 57.042 25.926 0.00 0.00 31.85 2.83
1241 1367 2.927028 TCATCCTCGGACTATCACGAA 58.073 47.619 0.00 0.00 38.79 3.85
1253 1379 1.970114 GCCCATGCCATCATCCTCG 60.970 63.158 0.00 0.00 0.00 4.63
1483 1624 2.058675 CCCTTCTTCTCACCGGTGT 58.941 57.895 32.74 0.00 0.00 4.16
1490 1631 2.092753 GTCCATGATGCCCTTCTTCTCA 60.093 50.000 0.00 0.00 0.00 3.27
1551 1796 3.642778 GACAAGTAGCTGCCGCGGA 62.643 63.158 33.48 13.59 42.32 5.54
1573 1835 1.002134 CCAGACCGGCACCTCAAAT 60.002 57.895 0.00 0.00 0.00 2.32
1659 1929 9.219603 CCAAACTTAGAACTCAGACATTATGAA 57.780 33.333 0.00 0.00 0.00 2.57
1769 2039 7.919621 GCCCTCGTGTTACATATATATAGGAAC 59.080 40.741 11.22 9.86 0.00 3.62
1853 2123 4.969999 GGTAGGGTTTAGGAGAAGAGGATT 59.030 45.833 0.00 0.00 0.00 3.01
1861 2131 1.188863 GCGTGGTAGGGTTTAGGAGA 58.811 55.000 0.00 0.00 0.00 3.71
1897 2170 2.552768 CGAGGTGACGACGTTCGA 59.447 61.111 13.09 0.00 43.74 3.71
1901 2174 3.429141 ATCGCGAGGTGACGACGT 61.429 61.111 16.66 0.00 41.76 4.34
1930 2203 2.328099 GCTGAGTTGGTGGAAGCGG 61.328 63.158 0.00 0.00 36.92 5.52
1946 2219 1.311747 GTAGGGAGAGGTGAGGGCT 59.688 63.158 0.00 0.00 0.00 5.19
1947 2220 1.762858 GGTAGGGAGAGGTGAGGGC 60.763 68.421 0.00 0.00 0.00 5.19
2027 2300 4.704833 ACTTGCACAGCCGGCGAT 62.705 61.111 23.20 10.75 0.00 4.58
2136 2409 2.633488 GTGGGGAAGCAAGTCATACTC 58.367 52.381 0.00 0.00 0.00 2.59
2141 2414 1.070786 GACGTGGGGAAGCAAGTCA 59.929 57.895 0.00 0.00 31.76 3.41
2258 2531 1.068954 TCTTCCGCGATGATCAGATCG 60.069 52.381 8.23 13.20 46.54 3.69
2270 2543 2.293627 CGCCGTCTAATCTTCCGCG 61.294 63.158 0.00 0.00 0.00 6.46
2321 2594 4.142795 GCGCGAGTCATCTGATTATCTAGA 60.143 45.833 12.10 0.00 0.00 2.43
2330 2604 3.396911 GACCGCGCGAGTCATCTGA 62.397 63.158 34.63 0.00 34.27 3.27
2339 2613 2.586914 TCGAGATAGACCGCGCGA 60.587 61.111 34.63 12.32 0.00 5.87
2367 2641 1.672030 CGCCTTGCATGAGACCACA 60.672 57.895 0.00 0.00 0.00 4.17
2372 2646 1.219124 GAGGTCGCCTTGCATGAGA 59.781 57.895 0.00 0.00 31.76 3.27
2376 2650 2.185350 CGAGAGGTCGCCTTGCAT 59.815 61.111 0.00 0.00 39.88 3.96
2495 2769 2.342648 GAGAACCGCGGGTTGAGT 59.657 61.111 31.76 9.29 46.95 3.41
2511 2785 1.310216 ACGATCGTGGTGATGTCGGA 61.310 55.000 22.06 0.00 37.47 4.55


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

AutoCloner maintained by Alex Coulton.