Multiple sequence alignment - TraesCS3B01G543700

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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 TraesCS3B01G543700 chr3B 100.000 2782 0 0 1 2782 781343649 781346430 0.000000e+00 5138.0
1 TraesCS3B01G543700 chr3B 90.457 1006 85 8 793 1796 781356081 781357077 0.000000e+00 1315.0
2 TraesCS3B01G543700 chr3B 86.639 1205 91 26 866 2050 781210448 781211602 0.000000e+00 1269.0
3 TraesCS3B01G543700 chr3B 89.819 717 53 8 1191 1899 781494587 781493883 0.000000e+00 902.0
4 TraesCS3B01G543700 chr3B 85.326 368 43 7 801 1160 781494948 781494584 1.220000e-98 370.0
5 TraesCS3B01G543700 chr3B 93.069 202 14 0 572 773 335120285 335120486 2.100000e-76 296.0
6 TraesCS3B01G543700 chr3B 75.845 621 122 20 2067 2672 823197204 823197811 9.750000e-75 291.0
7 TraesCS3B01G543700 chr3B 76.674 433 89 8 2070 2500 611726036 611725614 2.160000e-56 230.0
8 TraesCS3B01G543700 chr3D 89.108 1928 160 19 851 2762 584048672 584050565 0.000000e+00 2351.0
9 TraesCS3B01G543700 chr3D 84.556 1295 139 30 793 2066 584129724 584130978 0.000000e+00 1227.0
10 TraesCS3B01G543700 chr3D 88.372 989 89 11 809 1782 584457015 584456038 0.000000e+00 1166.0
11 TraesCS3B01G543700 chr3D 94.460 361 15 3 221 576 24896498 24896858 4.050000e-153 551.0
12 TraesCS3B01G543700 chr3D 95.210 167 7 1 1 167 24896315 24896480 2.120000e-66 263.0
13 TraesCS3B01G543700 chr3D 85.065 154 22 1 993 1146 584597588 584597436 3.710000e-34 156.0
14 TraesCS3B01G543700 chrUn 83.843 1275 143 43 819 2066 45483377 45482139 0.000000e+00 1155.0
15 TraesCS3B01G543700 chrUn 76.794 418 82 10 2087 2500 195612811 195613217 1.300000e-53 220.0
16 TraesCS3B01G543700 chr3A 84.179 1163 130 30 824 1957 21360416 21359279 0.000000e+00 1079.0
17 TraesCS3B01G543700 chr7D 83.574 1175 124 38 821 1967 588419712 588420845 0.000000e+00 1037.0
18 TraesCS3B01G543700 chr7D 94.845 194 10 0 576 769 58497979 58498172 1.250000e-78 303.0
19 TraesCS3B01G543700 chr2A 94.215 363 17 3 221 580 28666310 28665949 4.050000e-153 551.0
20 TraesCS3B01G543700 chr2A 96.818 220 6 1 1 220 28666578 28666360 1.570000e-97 366.0
21 TraesCS3B01G543700 chr4A 94.134 358 15 5 221 574 331126611 331126966 8.770000e-150 540.0
22 TraesCS3B01G543700 chr4A 94.012 167 9 1 1 167 331126428 331126593 4.600000e-63 252.0
23 TraesCS3B01G543700 chr4A 84.375 192 11 13 19 207 666979502 666979677 1.320000e-38 171.0
24 TraesCS3B01G543700 chr4A 91.304 92 4 3 19 108 667037953 667038042 3.760000e-24 122.0
25 TraesCS3B01G543700 chr4A 89.231 65 6 1 246 310 666979758 666979821 2.300000e-11 80.5
26 TraesCS3B01G543700 chr6A 93.532 201 13 0 572 772 310189140 310189340 1.620000e-77 300.0
27 TraesCS3B01G543700 chr2D 94.330 194 11 0 576 769 170628069 170627876 5.830000e-77 298.0
28 TraesCS3B01G543700 chr2D 81.858 226 21 10 4 220 120100410 120100196 3.680000e-39 172.0
29 TraesCS3B01G543700 chr2B 93.909 197 12 0 575 771 121377775 121377579 5.830000e-77 298.0
30 TraesCS3B01G543700 chr2B 93.035 201 14 0 572 772 704875142 704875342 7.540000e-76 294.0
31 TraesCS3B01G543700 chr2B 73.582 564 105 24 2115 2674 40339903 40340426 2.850000e-40 176.0
32 TraesCS3B01G543700 chr4B 93.846 195 12 0 575 769 641406642 641406448 7.540000e-76 294.0
33 TraesCS3B01G543700 chr4B 93.000 200 14 0 572 771 233235787 233235986 2.710000e-75 292.0
34 TraesCS3B01G543700 chr4B 74.171 422 74 15 2087 2503 666289499 666289108 2.890000e-30 143.0
35 TraesCS3B01G543700 chr1A 93.434 198 13 0 575 772 208911559 208911362 7.540000e-76 294.0
36 TraesCS3B01G543700 chr1A 83.688 141 18 2 2070 2210 564082270 564082135 8.090000e-26 128.0
37 TraesCS3B01G543700 chr5D 75.645 620 128 14 2066 2674 352218160 352217553 1.260000e-73 287.0
38 TraesCS3B01G543700 chr7B 80.800 250 39 6 2066 2315 271253756 271253516 1.320000e-43 187.0
39 TraesCS3B01G543700 chr1B 78.238 193 21 15 26 204 2921404 2921219 1.360000e-18 104.0


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 TraesCS3B01G543700 chr3B 781343649 781346430 2781 False 5138.0 5138 100.0000 1 2782 1 chr3B.!!$F3 2781
1 TraesCS3B01G543700 chr3B 781356081 781357077 996 False 1315.0 1315 90.4570 793 1796 1 chr3B.!!$F4 1003
2 TraesCS3B01G543700 chr3B 781210448 781211602 1154 False 1269.0 1269 86.6390 866 2050 1 chr3B.!!$F2 1184
3 TraesCS3B01G543700 chr3B 781493883 781494948 1065 True 636.0 902 87.5725 801 1899 2 chr3B.!!$R2 1098
4 TraesCS3B01G543700 chr3B 823197204 823197811 607 False 291.0 291 75.8450 2067 2672 1 chr3B.!!$F5 605
5 TraesCS3B01G543700 chr3D 584048672 584050565 1893 False 2351.0 2351 89.1080 851 2762 1 chr3D.!!$F1 1911
6 TraesCS3B01G543700 chr3D 584129724 584130978 1254 False 1227.0 1227 84.5560 793 2066 1 chr3D.!!$F2 1273
7 TraesCS3B01G543700 chr3D 584456038 584457015 977 True 1166.0 1166 88.3720 809 1782 1 chr3D.!!$R1 973
8 TraesCS3B01G543700 chr3D 24896315 24896858 543 False 407.0 551 94.8350 1 576 2 chr3D.!!$F3 575
9 TraesCS3B01G543700 chrUn 45482139 45483377 1238 True 1155.0 1155 83.8430 819 2066 1 chrUn.!!$R1 1247
10 TraesCS3B01G543700 chr3A 21359279 21360416 1137 True 1079.0 1079 84.1790 824 1957 1 chr3A.!!$R1 1133
11 TraesCS3B01G543700 chr7D 588419712 588420845 1133 False 1037.0 1037 83.5740 821 1967 1 chr7D.!!$F2 1146
12 TraesCS3B01G543700 chr2A 28665949 28666578 629 True 458.5 551 95.5165 1 580 2 chr2A.!!$R1 579
13 TraesCS3B01G543700 chr4A 331126428 331126966 538 False 396.0 540 94.0730 1 574 2 chr4A.!!$F2 573
14 TraesCS3B01G543700 chr5D 352217553 352218160 607 True 287.0 287 75.6450 2066 2674 1 chr5D.!!$R1 608

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
717 775 0.041982 GGGTTCTCTCTCCTCCACCT 59.958 60.0 0.0 0.0 0.0 4.0 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2213 2350 0.031721 CCGGTATAGGAGCAACGACC 59.968 60.0 0.0 0.0 0.0 4.79 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
146 147 6.410540 TGCTCTTTTCTTCTAGATCCTTTCC 58.589 40.000 0.00 0.00 0.00 3.13
161 162 4.735369 TCCTTTCCCAAATCAAGCAGTAA 58.265 39.130 0.00 0.00 0.00 2.24
211 212 2.246993 TACCTGCAAAATTCGCGCGG 62.247 55.000 31.69 13.92 0.00 6.46
247 299 5.357257 AGCGACGACTCCATTTATGTTATT 58.643 37.500 0.00 0.00 0.00 1.40
265 317 7.049799 TGTTATTTGGCTTTAAGTTTCTGCT 57.950 32.000 0.00 0.00 0.00 4.24
362 417 8.695456 ACTTCAAGTAAAAGAACAAATGTGGAT 58.305 29.630 0.00 0.00 0.00 3.41
443 498 5.221048 GGCACAAACAGAGAAACAACTATGT 60.221 40.000 0.00 0.00 42.85 2.29
512 568 3.490896 GCACTTTCTTGCTTTTACTTGCC 59.509 43.478 0.00 0.00 39.59 4.52
577 635 4.704833 ACGCTCCGCCACTGCAAT 62.705 61.111 0.00 0.00 37.32 3.56
578 636 2.511373 CGCTCCGCCACTGCAATA 60.511 61.111 0.00 0.00 37.32 1.90
579 637 2.528743 CGCTCCGCCACTGCAATAG 61.529 63.158 0.00 0.00 37.32 1.73
581 639 1.221840 CTCCGCCACTGCAATAGGT 59.778 57.895 0.00 0.00 37.32 3.08
582 640 0.811616 CTCCGCCACTGCAATAGGTC 60.812 60.000 0.00 0.00 37.32 3.85
583 641 1.078497 CCGCCACTGCAATAGGTCA 60.078 57.895 0.00 0.00 37.32 4.02
584 642 0.464373 CCGCCACTGCAATAGGTCAT 60.464 55.000 0.00 0.00 37.32 3.06
585 643 0.940126 CGCCACTGCAATAGGTCATC 59.060 55.000 0.00 0.00 37.32 2.92
586 644 1.473965 CGCCACTGCAATAGGTCATCT 60.474 52.381 0.00 0.00 37.32 2.90
587 645 2.648059 GCCACTGCAATAGGTCATCTT 58.352 47.619 0.00 0.00 37.47 2.40
588 646 3.019564 GCCACTGCAATAGGTCATCTTT 58.980 45.455 0.00 0.00 37.47 2.52
589 647 3.445096 GCCACTGCAATAGGTCATCTTTT 59.555 43.478 0.00 0.00 37.47 2.27
590 648 4.640201 GCCACTGCAATAGGTCATCTTTTA 59.360 41.667 0.00 0.00 37.47 1.52
591 649 5.220931 GCCACTGCAATAGGTCATCTTTTAG 60.221 44.000 0.00 0.00 37.47 1.85
592 650 5.220931 CCACTGCAATAGGTCATCTTTTAGC 60.221 44.000 0.00 0.00 0.00 3.09
593 651 4.884164 ACTGCAATAGGTCATCTTTTAGCC 59.116 41.667 0.00 0.00 0.00 3.93
594 652 5.116084 TGCAATAGGTCATCTTTTAGCCT 57.884 39.130 0.00 0.00 0.00 4.58
595 653 5.509498 TGCAATAGGTCATCTTTTAGCCTT 58.491 37.500 0.00 0.00 0.00 4.35
596 654 6.658849 TGCAATAGGTCATCTTTTAGCCTTA 58.341 36.000 0.00 0.00 0.00 2.69
597 655 7.290061 TGCAATAGGTCATCTTTTAGCCTTAT 58.710 34.615 0.00 0.00 0.00 1.73
598 656 7.445402 TGCAATAGGTCATCTTTTAGCCTTATC 59.555 37.037 0.00 0.00 0.00 1.75
599 657 7.663493 GCAATAGGTCATCTTTTAGCCTTATCT 59.337 37.037 0.00 0.00 0.00 1.98
600 658 9.566432 CAATAGGTCATCTTTTAGCCTTATCTT 57.434 33.333 0.00 0.00 0.00 2.40
601 659 9.785982 AATAGGTCATCTTTTAGCCTTATCTTC 57.214 33.333 0.00 0.00 0.00 2.87
602 660 7.200434 AGGTCATCTTTTAGCCTTATCTTCA 57.800 36.000 0.00 0.00 0.00 3.02
603 661 7.633789 AGGTCATCTTTTAGCCTTATCTTCAA 58.366 34.615 0.00 0.00 0.00 2.69
604 662 8.277918 AGGTCATCTTTTAGCCTTATCTTCAAT 58.722 33.333 0.00 0.00 0.00 2.57
605 663 9.561069 GGTCATCTTTTAGCCTTATCTTCAATA 57.439 33.333 0.00 0.00 0.00 1.90
631 689 9.802039 AACTAGTTATTCCTAAAAACATGGTGA 57.198 29.630 6.26 0.00 0.00 4.02
632 690 9.449719 ACTAGTTATTCCTAAAAACATGGTGAG 57.550 33.333 0.00 0.00 0.00 3.51
633 691 9.667107 CTAGTTATTCCTAAAAACATGGTGAGA 57.333 33.333 0.00 0.00 0.00 3.27
634 692 8.336801 AGTTATTCCTAAAAACATGGTGAGAC 57.663 34.615 0.00 0.00 0.00 3.36
635 693 7.942341 AGTTATTCCTAAAAACATGGTGAGACA 59.058 33.333 0.00 0.00 0.00 3.41
636 694 8.739972 GTTATTCCTAAAAACATGGTGAGACAT 58.260 33.333 0.00 0.00 0.00 3.06
637 695 9.967451 TTATTCCTAAAAACATGGTGAGACATA 57.033 29.630 0.00 0.00 0.00 2.29
639 697 8.877864 TTCCTAAAAACATGGTGAGACATATT 57.122 30.769 0.00 0.00 0.00 1.28
640 698 8.279970 TCCTAAAAACATGGTGAGACATATTG 57.720 34.615 0.00 0.00 0.00 1.90
641 699 7.888021 TCCTAAAAACATGGTGAGACATATTGT 59.112 33.333 0.00 0.00 0.00 2.71
642 700 7.970061 CCTAAAAACATGGTGAGACATATTGTG 59.030 37.037 0.00 0.00 0.00 3.33
643 701 4.970662 AACATGGTGAGACATATTGTGC 57.029 40.909 0.00 0.00 0.00 4.57
644 702 4.226427 ACATGGTGAGACATATTGTGCT 57.774 40.909 0.00 0.00 0.00 4.40
645 703 5.357742 ACATGGTGAGACATATTGTGCTA 57.642 39.130 0.00 0.00 0.00 3.49
646 704 5.744171 ACATGGTGAGACATATTGTGCTAA 58.256 37.500 0.00 0.00 0.00 3.09
647 705 5.819379 ACATGGTGAGACATATTGTGCTAAG 59.181 40.000 0.00 0.00 0.00 2.18
648 706 5.675684 TGGTGAGACATATTGTGCTAAGA 57.324 39.130 0.00 0.00 0.00 2.10
649 707 5.664457 TGGTGAGACATATTGTGCTAAGAG 58.336 41.667 0.00 0.00 0.00 2.85
650 708 5.422012 TGGTGAGACATATTGTGCTAAGAGA 59.578 40.000 0.00 0.00 0.00 3.10
651 709 6.098838 TGGTGAGACATATTGTGCTAAGAGAT 59.901 38.462 0.00 0.00 0.00 2.75
652 710 6.644592 GGTGAGACATATTGTGCTAAGAGATC 59.355 42.308 0.00 0.00 0.00 2.75
653 711 7.205992 GTGAGACATATTGTGCTAAGAGATCA 58.794 38.462 0.00 0.00 0.00 2.92
654 712 7.871973 GTGAGACATATTGTGCTAAGAGATCAT 59.128 37.037 0.00 0.00 0.00 2.45
655 713 8.087136 TGAGACATATTGTGCTAAGAGATCATC 58.913 37.037 0.00 0.00 0.00 2.92
656 714 8.192743 AGACATATTGTGCTAAGAGATCATCT 57.807 34.615 0.00 0.00 41.27 2.90
657 715 8.306038 AGACATATTGTGCTAAGAGATCATCTC 58.694 37.037 6.55 6.55 43.70 2.75
705 763 5.175090 CAAGTCTTTTCTTGTGGGTTCTC 57.825 43.478 0.00 0.00 39.66 2.87
706 764 4.779993 AGTCTTTTCTTGTGGGTTCTCT 57.220 40.909 0.00 0.00 0.00 3.10
707 765 4.709250 AGTCTTTTCTTGTGGGTTCTCTC 58.291 43.478 0.00 0.00 0.00 3.20
708 766 4.410555 AGTCTTTTCTTGTGGGTTCTCTCT 59.589 41.667 0.00 0.00 0.00 3.10
709 767 4.752604 GTCTTTTCTTGTGGGTTCTCTCTC 59.247 45.833 0.00 0.00 0.00 3.20
710 768 3.771577 TTTCTTGTGGGTTCTCTCTCC 57.228 47.619 0.00 0.00 0.00 3.71
711 769 2.704190 TCTTGTGGGTTCTCTCTCCT 57.296 50.000 0.00 0.00 0.00 3.69
712 770 2.530701 TCTTGTGGGTTCTCTCTCCTC 58.469 52.381 0.00 0.00 0.00 3.71
713 771 1.552792 CTTGTGGGTTCTCTCTCCTCC 59.447 57.143 0.00 0.00 0.00 4.30
714 772 0.487325 TGTGGGTTCTCTCTCCTCCA 59.513 55.000 0.00 0.00 0.00 3.86
715 773 0.899019 GTGGGTTCTCTCTCCTCCAC 59.101 60.000 0.00 0.00 37.98 4.02
716 774 0.252284 TGGGTTCTCTCTCCTCCACC 60.252 60.000 0.00 0.00 0.00 4.61
717 775 0.041982 GGGTTCTCTCTCCTCCACCT 59.958 60.000 0.00 0.00 0.00 4.00
718 776 1.480789 GGTTCTCTCTCCTCCACCTC 58.519 60.000 0.00 0.00 0.00 3.85
719 777 1.272760 GGTTCTCTCTCCTCCACCTCA 60.273 57.143 0.00 0.00 0.00 3.86
720 778 2.625617 GGTTCTCTCTCCTCCACCTCAT 60.626 54.545 0.00 0.00 0.00 2.90
721 779 2.693074 GTTCTCTCTCCTCCACCTCATC 59.307 54.545 0.00 0.00 0.00 2.92
722 780 1.925959 TCTCTCTCCTCCACCTCATCA 59.074 52.381 0.00 0.00 0.00 3.07
723 781 2.517553 TCTCTCTCCTCCACCTCATCAT 59.482 50.000 0.00 0.00 0.00 2.45
724 782 3.052262 TCTCTCTCCTCCACCTCATCATT 60.052 47.826 0.00 0.00 0.00 2.57
725 783 3.710677 CTCTCTCCTCCACCTCATCATTT 59.289 47.826 0.00 0.00 0.00 2.32
726 784 4.883759 TCTCTCCTCCACCTCATCATTTA 58.116 43.478 0.00 0.00 0.00 1.40
727 785 5.471424 TCTCTCCTCCACCTCATCATTTAT 58.529 41.667 0.00 0.00 0.00 1.40
728 786 5.907662 TCTCTCCTCCACCTCATCATTTATT 59.092 40.000 0.00 0.00 0.00 1.40
729 787 6.042552 TCTCTCCTCCACCTCATCATTTATTC 59.957 42.308 0.00 0.00 0.00 1.75
730 788 5.907662 TCTCCTCCACCTCATCATTTATTCT 59.092 40.000 0.00 0.00 0.00 2.40
731 789 7.075797 TCTCCTCCACCTCATCATTTATTCTA 58.924 38.462 0.00 0.00 0.00 2.10
732 790 7.736691 TCTCCTCCACCTCATCATTTATTCTAT 59.263 37.037 0.00 0.00 0.00 1.98
733 791 8.972662 TCCTCCACCTCATCATTTATTCTATA 57.027 34.615 0.00 0.00 0.00 1.31
734 792 9.566331 TCCTCCACCTCATCATTTATTCTATAT 57.434 33.333 0.00 0.00 0.00 0.86
735 793 9.610705 CCTCCACCTCATCATTTATTCTATATG 57.389 37.037 0.00 0.00 0.00 1.78
736 794 9.610705 CTCCACCTCATCATTTATTCTATATGG 57.389 37.037 0.00 0.00 0.00 2.74
737 795 8.049117 TCCACCTCATCATTTATTCTATATGGC 58.951 37.037 0.00 0.00 0.00 4.40
738 796 7.830697 CCACCTCATCATTTATTCTATATGGCA 59.169 37.037 0.00 0.00 0.00 4.92
739 797 8.671921 CACCTCATCATTTATTCTATATGGCAC 58.328 37.037 0.00 0.00 0.00 5.01
740 798 8.609483 ACCTCATCATTTATTCTATATGGCACT 58.391 33.333 0.00 0.00 0.00 4.40
741 799 9.107177 CCTCATCATTTATTCTATATGGCACTC 57.893 37.037 0.00 0.00 0.00 3.51
742 800 9.887629 CTCATCATTTATTCTATATGGCACTCT 57.112 33.333 0.00 0.00 0.00 3.24
752 810 8.422577 TTCTATATGGCACTCTTAAGATAGCA 57.577 34.615 22.91 13.69 0.00 3.49
753 811 7.831753 TCTATATGGCACTCTTAAGATAGCAC 58.168 38.462 22.91 15.64 0.00 4.40
754 812 3.543680 TGGCACTCTTAAGATAGCACC 57.456 47.619 22.91 13.98 0.00 5.01
755 813 2.837591 TGGCACTCTTAAGATAGCACCA 59.162 45.455 22.91 15.80 0.00 4.17
756 814 3.455910 TGGCACTCTTAAGATAGCACCAT 59.544 43.478 22.91 0.00 0.00 3.55
757 815 4.080356 TGGCACTCTTAAGATAGCACCATT 60.080 41.667 22.91 0.00 0.00 3.16
758 816 4.274459 GGCACTCTTAAGATAGCACCATTG 59.726 45.833 22.91 5.79 0.00 2.82
759 817 4.878397 GCACTCTTAAGATAGCACCATTGT 59.122 41.667 18.96 3.41 0.00 2.71
760 818 6.049149 GCACTCTTAAGATAGCACCATTGTA 58.951 40.000 18.96 0.00 0.00 2.41
761 819 6.018669 GCACTCTTAAGATAGCACCATTGTAC 60.019 42.308 18.96 0.00 0.00 2.90
762 820 7.041721 CACTCTTAAGATAGCACCATTGTACA 58.958 38.462 5.44 0.00 0.00 2.90
763 821 7.712639 CACTCTTAAGATAGCACCATTGTACAT 59.287 37.037 5.44 0.00 0.00 2.29
764 822 7.712639 ACTCTTAAGATAGCACCATTGTACATG 59.287 37.037 5.44 0.00 0.00 3.21
765 823 6.483307 TCTTAAGATAGCACCATTGTACATGC 59.517 38.462 10.53 10.53 38.39 4.06
766 824 3.480470 AGATAGCACCATTGTACATGCC 58.520 45.455 14.08 1.71 38.92 4.40
767 825 2.051334 TAGCACCATTGTACATGCCC 57.949 50.000 14.08 0.00 38.92 5.36
768 826 0.332632 AGCACCATTGTACATGCCCT 59.667 50.000 14.08 0.00 38.92 5.19
769 827 1.563879 AGCACCATTGTACATGCCCTA 59.436 47.619 14.08 0.00 38.92 3.53
770 828 2.025416 AGCACCATTGTACATGCCCTAA 60.025 45.455 14.08 0.00 38.92 2.69
771 829 2.958355 GCACCATTGTACATGCCCTAAT 59.042 45.455 7.77 0.00 31.71 1.73
772 830 3.004734 GCACCATTGTACATGCCCTAATC 59.995 47.826 7.77 0.00 31.71 1.75
773 831 3.569701 CACCATTGTACATGCCCTAATCC 59.430 47.826 0.00 0.00 0.00 3.01
774 832 3.463329 ACCATTGTACATGCCCTAATCCT 59.537 43.478 0.00 0.00 0.00 3.24
775 833 4.074970 CCATTGTACATGCCCTAATCCTC 58.925 47.826 0.00 0.00 0.00 3.71
776 834 3.857157 TTGTACATGCCCTAATCCTCC 57.143 47.619 0.00 0.00 0.00 4.30
777 835 3.060479 TGTACATGCCCTAATCCTCCT 57.940 47.619 0.00 0.00 0.00 3.69
778 836 2.705658 TGTACATGCCCTAATCCTCCTG 59.294 50.000 0.00 0.00 0.00 3.86
779 837 0.475906 ACATGCCCTAATCCTCCTGC 59.524 55.000 0.00 0.00 0.00 4.85
780 838 0.769873 CATGCCCTAATCCTCCTGCT 59.230 55.000 0.00 0.00 0.00 4.24
781 839 0.769873 ATGCCCTAATCCTCCTGCTG 59.230 55.000 0.00 0.00 0.00 4.41
782 840 0.326522 TGCCCTAATCCTCCTGCTGA 60.327 55.000 0.00 0.00 0.00 4.26
783 841 0.107643 GCCCTAATCCTCCTGCTGAC 59.892 60.000 0.00 0.00 0.00 3.51
784 842 1.799933 CCCTAATCCTCCTGCTGACT 58.200 55.000 0.00 0.00 0.00 3.41
785 843 2.964209 CCCTAATCCTCCTGCTGACTA 58.036 52.381 0.00 0.00 0.00 2.59
786 844 3.515562 CCCTAATCCTCCTGCTGACTAT 58.484 50.000 0.00 0.00 0.00 2.12
787 845 4.678256 CCCTAATCCTCCTGCTGACTATA 58.322 47.826 0.00 0.00 0.00 1.31
788 846 4.464597 CCCTAATCCTCCTGCTGACTATAC 59.535 50.000 0.00 0.00 0.00 1.47
789 847 4.464597 CCTAATCCTCCTGCTGACTATACC 59.535 50.000 0.00 0.00 0.00 2.73
790 848 3.913370 ATCCTCCTGCTGACTATACCT 57.087 47.619 0.00 0.00 0.00 3.08
791 849 3.689872 TCCTCCTGCTGACTATACCTT 57.310 47.619 0.00 0.00 0.00 3.50
796 854 4.546674 TCCTGCTGACTATACCTTGATGA 58.453 43.478 0.00 0.00 0.00 2.92
799 857 6.782494 TCCTGCTGACTATACCTTGATGAATA 59.218 38.462 0.00 0.00 0.00 1.75
808 866 8.811017 ACTATACCTTGATGAATAGTCCTCATG 58.189 37.037 0.00 2.37 33.63 3.07
815 873 4.819105 TGAATAGTCCTCATGAAACCGT 57.181 40.909 0.00 0.00 0.00 4.83
839 897 5.212194 GTGCAATTAACTTCATCACGTGTT 58.788 37.500 16.51 3.97 0.00 3.32
848 906 4.566759 ACTTCATCACGTGTTTATGGATCG 59.433 41.667 16.51 0.00 0.00 3.69
849 907 3.453424 TCATCACGTGTTTATGGATCGG 58.547 45.455 16.51 0.00 0.00 4.18
883 947 0.828022 CATCCCCCTTACGCTACACA 59.172 55.000 0.00 0.00 0.00 3.72
884 948 1.416401 CATCCCCCTTACGCTACACAT 59.584 52.381 0.00 0.00 0.00 3.21
959 1040 2.163815 CACAGTGCTAACTACCTAGCGT 59.836 50.000 0.00 0.00 46.13 5.07
1165 1254 2.297315 TGCTAGCTCTTCCATCCATACG 59.703 50.000 17.23 0.00 0.00 3.06
1172 1262 3.281158 TCTTCCATCCATACGTCGTGTA 58.719 45.455 8.47 0.00 37.49 2.90
1184 1288 4.690184 ACGTCGTGTACACATGAATAGA 57.310 40.909 24.98 9.79 42.83 1.98
1185 1289 4.409570 ACGTCGTGTACACATGAATAGAC 58.590 43.478 24.98 18.92 42.83 2.59
1186 1290 4.155462 ACGTCGTGTACACATGAATAGACT 59.845 41.667 24.98 9.46 42.83 3.24
1187 1291 5.352293 ACGTCGTGTACACATGAATAGACTA 59.648 40.000 24.98 0.00 42.83 2.59
1188 1292 6.037940 ACGTCGTGTACACATGAATAGACTAT 59.962 38.462 24.98 10.18 42.83 2.12
1189 1293 7.225341 ACGTCGTGTACACATGAATAGACTATA 59.775 37.037 24.98 0.00 42.83 1.31
1190 1294 7.529854 CGTCGTGTACACATGAATAGACTATAC 59.470 40.741 24.98 1.24 42.83 1.47
1200 1304 8.039538 ACATGAATAGACTATACATCATGCCTG 58.960 37.037 23.64 11.22 44.89 4.85
1201 1305 7.781324 TGAATAGACTATACATCATGCCTGA 57.219 36.000 0.00 0.00 35.41 3.86
1262 1376 2.032071 CGGCTGAACGGTTTCCCT 59.968 61.111 0.00 0.00 0.00 4.20
1274 1388 0.540597 GTTTCCCTTGCAAGAGGCCT 60.541 55.000 28.05 3.86 43.89 5.19
1825 1944 1.170290 GGTTGGTTGGGTCGGTTCTG 61.170 60.000 0.00 0.00 0.00 3.02
1830 1949 3.096633 TTGGGTCGGTTCTGCGTGT 62.097 57.895 0.00 0.00 0.00 4.49
1832 1951 3.712881 GGTCGGTTCTGCGTGTGC 61.713 66.667 0.00 0.00 43.20 4.57
1989 2122 4.894798 TTGTTGCTTTTTGTTCACGAAC 57.105 36.364 2.89 2.89 41.50 3.95
2046 2181 3.947910 ACTGAAAATGAATGTGCCTGG 57.052 42.857 0.00 0.00 0.00 4.45
2050 2185 3.387374 TGAAAATGAATGTGCCTGGTTGT 59.613 39.130 0.00 0.00 0.00 3.32
2142 2279 9.059260 AGTACAAAACACCTCAAACGTAATAAT 57.941 29.630 0.00 0.00 0.00 1.28
2183 2320 1.024046 CCATCGAACGACCATTGCCA 61.024 55.000 0.00 0.00 0.00 4.92
2208 2345 4.838152 AATGAGCCGCCGACGCAT 62.838 61.111 0.00 0.00 38.22 4.73
2233 2370 0.031721 GTCGTTGCTCCTATACCGGG 59.968 60.000 6.32 0.00 0.00 5.73
2259 2396 0.455815 CCGACCGTGATGATGACAGA 59.544 55.000 0.00 0.00 0.00 3.41
2283 2420 0.034896 AATTCTTCGTCCACGTGCCT 59.965 50.000 10.91 0.00 40.80 4.75
2343 2480 8.175069 CCGTTGAATTCTTGAATCGATCTAAAA 58.825 33.333 7.05 0.00 0.00 1.52
2399 2536 5.645067 CACATGGCAAGAAACTCTAATCTCA 59.355 40.000 0.00 0.00 0.00 3.27
2415 2554 4.056125 CACCGCACGAGGAGCTGA 62.056 66.667 0.00 0.00 34.73 4.26
2426 2565 2.890311 CGAGGAGCTGACAGGAATCTAT 59.110 50.000 4.26 0.00 0.00 1.98
2451 2591 1.883084 GCCCGTCTAATGCGTCCTG 60.883 63.158 0.00 0.00 0.00 3.86
2457 2597 2.223595 CGTCTAATGCGTCCTGATGAGT 60.224 50.000 0.00 0.00 0.00 3.41
2458 2598 3.003378 CGTCTAATGCGTCCTGATGAGTA 59.997 47.826 0.00 0.00 0.00 2.59
2481 2621 4.880426 GGGGAGGATCGGAGCCCA 62.880 72.222 9.01 0.00 42.52 5.36
2485 2625 1.124477 GGAGGATCGGAGCCCAGAAT 61.124 60.000 9.01 0.00 34.37 2.40
2524 2667 2.762887 ACGTCATCCATCTGAGTGTCAT 59.237 45.455 0.00 0.00 0.00 3.06
2527 2670 4.441217 CGTCATCCATCTGAGTGTCATTCT 60.441 45.833 0.00 0.00 0.00 2.40
2530 2673 4.897509 TCCATCTGAGTGTCATTCTTGT 57.102 40.909 0.00 0.00 0.00 3.16
2533 2676 6.768483 TCCATCTGAGTGTCATTCTTGTAAA 58.232 36.000 0.00 0.00 0.00 2.01
2574 2720 4.463879 CAGAGCCGAGGCACCAGG 62.464 72.222 17.18 0.00 44.88 4.45
2579 2725 1.678970 GCCGAGGCACCAGGAAATT 60.679 57.895 9.58 0.00 41.49 1.82
2590 2736 2.516225 GGAAATTCCTCCCCGCCG 60.516 66.667 4.46 0.00 32.53 6.46
2624 2770 3.322466 CAGGCGGAAGGGAGGTGT 61.322 66.667 0.00 0.00 0.00 4.16
2628 2774 1.335132 GGCGGAAGGGAGGTGTATCA 61.335 60.000 0.00 0.00 0.00 2.15
2664 2811 2.121832 TTCGAGGGGAGGAAGGCA 59.878 61.111 0.00 0.00 0.00 4.75
2699 2846 9.154847 TGATGTACAAGTCACATGATAAAGAAG 57.845 33.333 0.00 0.00 36.76 2.85
2701 2848 9.725019 ATGTACAAGTCACATGATAAAGAAGAA 57.275 29.630 0.00 0.00 35.33 2.52
2703 2850 9.813080 GTACAAGTCACATGATAAAGAAGAAAC 57.187 33.333 0.00 0.00 0.00 2.78
2764 2911 9.608617 CTCTGACATTGATGTATAATTGAATGC 57.391 33.333 0.00 0.00 41.95 3.56
2765 2912 8.284693 TCTGACATTGATGTATAATTGAATGCG 58.715 33.333 0.00 0.00 41.95 4.73
2766 2913 7.929159 TGACATTGATGTATAATTGAATGCGT 58.071 30.769 0.00 0.00 41.95 5.24
2767 2914 7.856894 TGACATTGATGTATAATTGAATGCGTG 59.143 33.333 0.00 0.00 41.95 5.34
2768 2915 7.929159 ACATTGATGTATAATTGAATGCGTGA 58.071 30.769 0.00 0.00 39.68 4.35
2769 2916 8.570488 ACATTGATGTATAATTGAATGCGTGAT 58.430 29.630 0.00 0.00 39.68 3.06
2772 2919 8.831715 TGATGTATAATTGAATGCGTGATAGT 57.168 30.769 0.00 0.00 0.00 2.12
2773 2920 9.271828 TGATGTATAATTGAATGCGTGATAGTT 57.728 29.630 0.00 0.00 0.00 2.24
2775 2922 9.882996 ATGTATAATTGAATGCGTGATAGTTTG 57.117 29.630 0.00 0.00 0.00 2.93
2776 2923 7.855409 TGTATAATTGAATGCGTGATAGTTTGC 59.145 33.333 0.00 0.00 0.00 3.68
2777 2924 4.700268 ATTGAATGCGTGATAGTTTGCA 57.300 36.364 0.00 0.00 42.22 4.08
2779 2926 5.809719 TTGAATGCGTGATAGTTTGCATA 57.190 34.783 0.00 0.00 46.60 3.14
2780 2927 5.408204 TGAATGCGTGATAGTTTGCATAG 57.592 39.130 0.00 0.00 46.60 2.23
2781 2928 5.115480 TGAATGCGTGATAGTTTGCATAGA 58.885 37.500 0.00 0.00 46.60 1.98
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 0.267054 ATGGAGATGAGGAGGAGCCA 59.733 55.000 0.00 0.00 40.02 4.75
146 147 5.009010 ACTCACTTGTTACTGCTTGATTTGG 59.991 40.000 0.00 0.00 0.00 3.28
161 162 4.382040 CGGATCCACTTGATACTCACTTGT 60.382 45.833 13.41 0.00 31.41 3.16
191 192 1.125847 CGCGCGAATTTTGCAGGTAC 61.126 55.000 28.94 0.00 0.00 3.34
247 299 8.807948 ATAGAATAGCAGAAACTTAAAGCCAA 57.192 30.769 0.00 0.00 0.00 4.52
450 506 7.934855 ATGATTCACTAAAGACTCAGCAAAT 57.065 32.000 0.00 0.00 31.87 2.32
459 515 7.550551 TCATGGACTGAATGATTCACTAAAGAC 59.449 37.037 3.29 0.00 35.46 3.01
527 585 2.200092 GGGGGCCAACAGGTTCAA 59.800 61.111 4.39 0.00 0.00 2.69
576 634 8.938883 TGAAGATAAGGCTAAAAGATGACCTAT 58.061 33.333 0.00 0.00 0.00 2.57
577 635 8.319057 TGAAGATAAGGCTAAAAGATGACCTA 57.681 34.615 0.00 0.00 0.00 3.08
578 636 7.200434 TGAAGATAAGGCTAAAAGATGACCT 57.800 36.000 0.00 0.00 0.00 3.85
579 637 7.865706 TTGAAGATAAGGCTAAAAGATGACC 57.134 36.000 0.00 0.00 0.00 4.02
605 663 9.802039 TCACCATGTTTTTAGGAATAACTAGTT 57.198 29.630 13.68 13.68 0.00 2.24
606 664 9.449719 CTCACCATGTTTTTAGGAATAACTAGT 57.550 33.333 0.00 0.00 0.00 2.57
607 665 9.667107 TCTCACCATGTTTTTAGGAATAACTAG 57.333 33.333 0.00 0.00 0.00 2.57
608 666 9.444600 GTCTCACCATGTTTTTAGGAATAACTA 57.555 33.333 0.00 0.00 0.00 2.24
609 667 7.942341 TGTCTCACCATGTTTTTAGGAATAACT 59.058 33.333 0.00 0.00 0.00 2.24
610 668 8.106247 TGTCTCACCATGTTTTTAGGAATAAC 57.894 34.615 0.00 0.00 0.00 1.89
611 669 8.877864 ATGTCTCACCATGTTTTTAGGAATAA 57.122 30.769 0.00 0.00 0.00 1.40
613 671 9.479549 AATATGTCTCACCATGTTTTTAGGAAT 57.520 29.630 0.00 0.00 0.00 3.01
614 672 8.739039 CAATATGTCTCACCATGTTTTTAGGAA 58.261 33.333 0.00 0.00 0.00 3.36
615 673 7.888021 ACAATATGTCTCACCATGTTTTTAGGA 59.112 33.333 0.00 0.00 0.00 2.94
616 674 7.970061 CACAATATGTCTCACCATGTTTTTAGG 59.030 37.037 0.00 0.00 0.00 2.69
617 675 7.485913 GCACAATATGTCTCACCATGTTTTTAG 59.514 37.037 0.00 0.00 0.00 1.85
618 676 7.176515 AGCACAATATGTCTCACCATGTTTTTA 59.823 33.333 0.00 0.00 0.00 1.52
619 677 6.015180 AGCACAATATGTCTCACCATGTTTTT 60.015 34.615 0.00 0.00 0.00 1.94
620 678 5.477984 AGCACAATATGTCTCACCATGTTTT 59.522 36.000 0.00 0.00 0.00 2.43
621 679 5.012239 AGCACAATATGTCTCACCATGTTT 58.988 37.500 0.00 0.00 0.00 2.83
622 680 4.592942 AGCACAATATGTCTCACCATGTT 58.407 39.130 0.00 0.00 0.00 2.71
623 681 4.226427 AGCACAATATGTCTCACCATGT 57.774 40.909 0.00 0.00 0.00 3.21
624 682 6.051074 TCTTAGCACAATATGTCTCACCATG 58.949 40.000 0.00 0.00 0.00 3.66
625 683 6.098838 TCTCTTAGCACAATATGTCTCACCAT 59.901 38.462 0.00 0.00 0.00 3.55
626 684 5.422012 TCTCTTAGCACAATATGTCTCACCA 59.578 40.000 0.00 0.00 0.00 4.17
627 685 5.907207 TCTCTTAGCACAATATGTCTCACC 58.093 41.667 0.00 0.00 0.00 4.02
628 686 7.205992 TGATCTCTTAGCACAATATGTCTCAC 58.794 38.462 0.00 0.00 0.00 3.51
629 687 7.352079 TGATCTCTTAGCACAATATGTCTCA 57.648 36.000 0.00 0.00 0.00 3.27
630 688 8.306038 AGATGATCTCTTAGCACAATATGTCTC 58.694 37.037 0.00 0.00 0.00 3.36
631 689 8.192743 AGATGATCTCTTAGCACAATATGTCT 57.807 34.615 0.00 0.00 0.00 3.41
632 690 8.464770 GAGATGATCTCTTAGCACAATATGTC 57.535 38.462 14.98 0.00 40.30 3.06
684 742 5.104318 AGAGAGAACCCACAAGAAAAGACTT 60.104 40.000 0.00 0.00 0.00 3.01
685 743 4.410555 AGAGAGAACCCACAAGAAAAGACT 59.589 41.667 0.00 0.00 0.00 3.24
686 744 4.709250 AGAGAGAACCCACAAGAAAAGAC 58.291 43.478 0.00 0.00 0.00 3.01
687 745 4.202367 GGAGAGAGAACCCACAAGAAAAGA 60.202 45.833 0.00 0.00 0.00 2.52
688 746 4.068599 GGAGAGAGAACCCACAAGAAAAG 58.931 47.826 0.00 0.00 0.00 2.27
689 747 3.716872 AGGAGAGAGAACCCACAAGAAAA 59.283 43.478 0.00 0.00 0.00 2.29
690 748 3.318313 AGGAGAGAGAACCCACAAGAAA 58.682 45.455 0.00 0.00 0.00 2.52
691 749 2.900546 GAGGAGAGAGAACCCACAAGAA 59.099 50.000 0.00 0.00 0.00 2.52
692 750 2.530701 GAGGAGAGAGAACCCACAAGA 58.469 52.381 0.00 0.00 0.00 3.02
693 751 1.552792 GGAGGAGAGAGAACCCACAAG 59.447 57.143 0.00 0.00 0.00 3.16
694 752 1.132849 TGGAGGAGAGAGAACCCACAA 60.133 52.381 0.00 0.00 0.00 3.33
695 753 0.487325 TGGAGGAGAGAGAACCCACA 59.513 55.000 0.00 0.00 0.00 4.17
696 754 0.899019 GTGGAGGAGAGAGAACCCAC 59.101 60.000 0.00 0.00 37.50 4.61
697 755 0.252284 GGTGGAGGAGAGAGAACCCA 60.252 60.000 0.00 0.00 0.00 4.51
698 756 0.041982 AGGTGGAGGAGAGAGAACCC 59.958 60.000 0.00 0.00 0.00 4.11
699 757 1.272760 TGAGGTGGAGGAGAGAGAACC 60.273 57.143 0.00 0.00 0.00 3.62
700 758 2.223803 TGAGGTGGAGGAGAGAGAAC 57.776 55.000 0.00 0.00 0.00 3.01
701 759 2.313041 TGATGAGGTGGAGGAGAGAGAA 59.687 50.000 0.00 0.00 0.00 2.87
702 760 1.925959 TGATGAGGTGGAGGAGAGAGA 59.074 52.381 0.00 0.00 0.00 3.10
703 761 2.450867 TGATGAGGTGGAGGAGAGAG 57.549 55.000 0.00 0.00 0.00 3.20
704 762 3.411454 AATGATGAGGTGGAGGAGAGA 57.589 47.619 0.00 0.00 0.00 3.10
705 763 5.822132 ATAAATGATGAGGTGGAGGAGAG 57.178 43.478 0.00 0.00 0.00 3.20
706 764 5.907662 AGAATAAATGATGAGGTGGAGGAGA 59.092 40.000 0.00 0.00 0.00 3.71
707 765 6.185114 AGAATAAATGATGAGGTGGAGGAG 57.815 41.667 0.00 0.00 0.00 3.69
708 766 7.878621 ATAGAATAAATGATGAGGTGGAGGA 57.121 36.000 0.00 0.00 0.00 3.71
709 767 9.610705 CATATAGAATAAATGATGAGGTGGAGG 57.389 37.037 0.00 0.00 0.00 4.30
710 768 9.610705 CCATATAGAATAAATGATGAGGTGGAG 57.389 37.037 0.00 0.00 0.00 3.86
711 769 8.049117 GCCATATAGAATAAATGATGAGGTGGA 58.951 37.037 0.00 0.00 0.00 4.02
712 770 7.830697 TGCCATATAGAATAAATGATGAGGTGG 59.169 37.037 0.00 0.00 0.00 4.61
713 771 8.671921 GTGCCATATAGAATAAATGATGAGGTG 58.328 37.037 0.00 0.00 0.00 4.00
714 772 8.609483 AGTGCCATATAGAATAAATGATGAGGT 58.391 33.333 0.00 0.00 0.00 3.85
715 773 9.107177 GAGTGCCATATAGAATAAATGATGAGG 57.893 37.037 0.00 0.00 0.00 3.86
716 774 9.887629 AGAGTGCCATATAGAATAAATGATGAG 57.112 33.333 0.00 0.00 0.00 2.90
726 784 9.040259 TGCTATCTTAAGAGTGCCATATAGAAT 57.960 33.333 21.91 1.60 0.00 2.40
727 785 8.307483 GTGCTATCTTAAGAGTGCCATATAGAA 58.693 37.037 21.91 6.18 0.00 2.10
728 786 7.093727 GGTGCTATCTTAAGAGTGCCATATAGA 60.094 40.741 21.91 6.31 0.00 1.98
729 787 7.038659 GGTGCTATCTTAAGAGTGCCATATAG 58.961 42.308 21.91 12.89 0.00 1.31
730 788 6.496911 TGGTGCTATCTTAAGAGTGCCATATA 59.503 38.462 21.91 7.37 0.00 0.86
731 789 5.307976 TGGTGCTATCTTAAGAGTGCCATAT 59.692 40.000 21.91 3.78 0.00 1.78
732 790 4.653801 TGGTGCTATCTTAAGAGTGCCATA 59.346 41.667 21.91 10.59 0.00 2.74
733 791 3.455910 TGGTGCTATCTTAAGAGTGCCAT 59.544 43.478 21.91 5.01 0.00 4.40
734 792 2.837591 TGGTGCTATCTTAAGAGTGCCA 59.162 45.455 21.91 16.44 0.00 4.92
735 793 3.543680 TGGTGCTATCTTAAGAGTGCC 57.456 47.619 21.91 14.67 0.00 5.01
736 794 4.878397 ACAATGGTGCTATCTTAAGAGTGC 59.122 41.667 19.50 19.50 0.00 4.40
737 795 7.041721 TGTACAATGGTGCTATCTTAAGAGTG 58.958 38.462 11.53 7.17 0.00 3.51
738 796 7.182817 TGTACAATGGTGCTATCTTAAGAGT 57.817 36.000 11.53 2.01 0.00 3.24
739 797 7.307632 GCATGTACAATGGTGCTATCTTAAGAG 60.308 40.741 11.53 0.00 34.85 2.85
740 798 6.483307 GCATGTACAATGGTGCTATCTTAAGA 59.517 38.462 7.82 7.82 34.85 2.10
741 799 6.293626 GGCATGTACAATGGTGCTATCTTAAG 60.294 42.308 16.47 0.00 37.70 1.85
742 800 5.530915 GGCATGTACAATGGTGCTATCTTAA 59.469 40.000 16.47 0.00 37.70 1.85
743 801 5.063204 GGCATGTACAATGGTGCTATCTTA 58.937 41.667 16.47 0.00 37.70 2.10
744 802 3.885297 GGCATGTACAATGGTGCTATCTT 59.115 43.478 16.47 0.00 37.70 2.40
745 803 3.480470 GGCATGTACAATGGTGCTATCT 58.520 45.455 16.47 0.00 37.70 1.98
746 804 2.554032 GGGCATGTACAATGGTGCTATC 59.446 50.000 16.47 3.12 37.70 2.08
747 805 2.175499 AGGGCATGTACAATGGTGCTAT 59.825 45.455 16.47 5.35 37.70 2.97
748 806 1.563879 AGGGCATGTACAATGGTGCTA 59.436 47.619 16.47 0.00 37.70 3.49
749 807 0.332632 AGGGCATGTACAATGGTGCT 59.667 50.000 16.47 0.00 37.70 4.40
750 808 2.051334 TAGGGCATGTACAATGGTGC 57.949 50.000 10.12 10.12 36.88 5.01
751 809 3.569701 GGATTAGGGCATGTACAATGGTG 59.430 47.826 0.00 0.00 0.00 4.17
752 810 3.463329 AGGATTAGGGCATGTACAATGGT 59.537 43.478 0.00 0.00 0.00 3.55
753 811 4.074970 GAGGATTAGGGCATGTACAATGG 58.925 47.826 0.00 0.00 0.00 3.16
754 812 4.074970 GGAGGATTAGGGCATGTACAATG 58.925 47.826 0.00 0.12 0.00 2.82
755 813 3.983410 AGGAGGATTAGGGCATGTACAAT 59.017 43.478 0.00 0.00 0.00 2.71
756 814 3.136443 CAGGAGGATTAGGGCATGTACAA 59.864 47.826 0.00 0.00 0.00 2.41
757 815 2.705658 CAGGAGGATTAGGGCATGTACA 59.294 50.000 0.00 0.00 0.00 2.90
758 816 2.551071 GCAGGAGGATTAGGGCATGTAC 60.551 54.545 0.00 0.00 0.00 2.90
759 817 1.699634 GCAGGAGGATTAGGGCATGTA 59.300 52.381 0.00 0.00 0.00 2.29
760 818 0.475906 GCAGGAGGATTAGGGCATGT 59.524 55.000 0.00 0.00 0.00 3.21
761 819 0.769873 AGCAGGAGGATTAGGGCATG 59.230 55.000 0.00 0.00 0.00 4.06
762 820 0.769873 CAGCAGGAGGATTAGGGCAT 59.230 55.000 0.00 0.00 0.00 4.40
763 821 0.326522 TCAGCAGGAGGATTAGGGCA 60.327 55.000 0.00 0.00 0.00 5.36
764 822 0.107643 GTCAGCAGGAGGATTAGGGC 59.892 60.000 0.00 0.00 0.00 5.19
765 823 1.799933 AGTCAGCAGGAGGATTAGGG 58.200 55.000 0.00 0.00 0.00 3.53
766 824 4.464597 GGTATAGTCAGCAGGAGGATTAGG 59.535 50.000 0.00 0.00 0.00 2.69
767 825 5.329399 AGGTATAGTCAGCAGGAGGATTAG 58.671 45.833 0.00 0.00 0.00 1.73
768 826 5.340891 AGGTATAGTCAGCAGGAGGATTA 57.659 43.478 0.00 0.00 0.00 1.75
769 827 4.206244 AGGTATAGTCAGCAGGAGGATT 57.794 45.455 0.00 0.00 0.00 3.01
770 828 3.900601 CAAGGTATAGTCAGCAGGAGGAT 59.099 47.826 0.00 0.00 0.00 3.24
771 829 3.052869 TCAAGGTATAGTCAGCAGGAGGA 60.053 47.826 0.00 0.00 0.00 3.71
772 830 3.300388 TCAAGGTATAGTCAGCAGGAGG 58.700 50.000 0.00 0.00 0.00 4.30
773 831 4.586421 TCATCAAGGTATAGTCAGCAGGAG 59.414 45.833 0.00 0.00 0.00 3.69
774 832 4.546674 TCATCAAGGTATAGTCAGCAGGA 58.453 43.478 0.00 0.00 0.00 3.86
775 833 4.944619 TCATCAAGGTATAGTCAGCAGG 57.055 45.455 0.00 0.00 0.00 4.85
776 834 7.665690 ACTATTCATCAAGGTATAGTCAGCAG 58.334 38.462 0.00 0.00 30.11 4.24
777 835 7.255977 GGACTATTCATCAAGGTATAGTCAGCA 60.256 40.741 17.39 0.00 45.69 4.41
778 836 7.039363 AGGACTATTCATCAAGGTATAGTCAGC 60.039 40.741 17.39 6.66 45.69 4.26
779 837 8.415950 AGGACTATTCATCAAGGTATAGTCAG 57.584 38.462 17.39 0.00 45.69 3.51
780 838 8.004801 TGAGGACTATTCATCAAGGTATAGTCA 58.995 37.037 17.39 2.44 45.69 3.41
781 839 8.410673 TGAGGACTATTCATCAAGGTATAGTC 57.589 38.462 10.94 10.94 44.29 2.59
782 840 8.811017 CATGAGGACTATTCATCAAGGTATAGT 58.189 37.037 1.38 0.00 45.29 2.12
783 841 9.029368 TCATGAGGACTATTCATCAAGGTATAG 57.971 37.037 1.38 0.00 45.29 1.31
784 842 8.956446 TCATGAGGACTATTCATCAAGGTATA 57.044 34.615 1.38 0.00 45.29 1.47
785 843 7.862274 TCATGAGGACTATTCATCAAGGTAT 57.138 36.000 1.38 0.00 45.29 2.73
786 844 7.675161 TTCATGAGGACTATTCATCAAGGTA 57.325 36.000 1.38 0.00 45.29 3.08
787 845 6.566079 TTCATGAGGACTATTCATCAAGGT 57.434 37.500 1.38 0.00 45.29 3.50
788 846 6.261826 GGTTTCATGAGGACTATTCATCAAGG 59.738 42.308 1.38 0.00 45.29 3.61
789 847 6.018425 CGGTTTCATGAGGACTATTCATCAAG 60.018 42.308 1.38 0.00 45.29 3.02
790 848 5.817296 CGGTTTCATGAGGACTATTCATCAA 59.183 40.000 1.38 0.00 45.29 2.57
791 849 5.104941 ACGGTTTCATGAGGACTATTCATCA 60.105 40.000 0.00 0.00 46.16 3.07
796 854 4.253685 CACACGGTTTCATGAGGACTATT 58.746 43.478 10.10 0.00 0.00 1.73
799 857 1.878102 GCACACGGTTTCATGAGGACT 60.878 52.381 10.10 0.00 0.00 3.85
808 866 4.602995 TGAAGTTAATTGCACACGGTTTC 58.397 39.130 0.00 0.00 0.00 2.78
815 873 4.274705 ACACGTGATGAAGTTAATTGCACA 59.725 37.500 25.01 0.00 0.00 4.57
848 906 0.318784 GATGTGGTCGATCGGTAGCC 60.319 60.000 16.41 12.76 0.00 3.93
849 907 0.318784 GGATGTGGTCGATCGGTAGC 60.319 60.000 16.41 7.18 0.00 3.58
861 919 0.106149 GTAGCGTAAGGGGGATGTGG 59.894 60.000 0.00 0.00 38.28 4.17
883 947 4.996758 TGCAGCGCATGTATTTATAGTGAT 59.003 37.500 11.47 0.00 31.71 3.06
884 948 4.376146 TGCAGCGCATGTATTTATAGTGA 58.624 39.130 11.47 0.00 31.71 3.41
959 1040 2.449031 CTACTGGCTGGTTGGTGCGA 62.449 60.000 0.00 0.00 0.00 5.10
1165 1254 8.340443 TGTATAGTCTATTCATGTGTACACGAC 58.660 37.037 20.61 17.84 0.00 4.34
1172 1262 7.821359 GGCATGATGTATAGTCTATTCATGTGT 59.179 37.037 22.57 7.76 36.89 3.72
1184 1288 7.892771 TCTCTATTCTCAGGCATGATGTATAGT 59.107 37.037 0.00 0.00 34.12 2.12
1185 1289 8.291191 TCTCTATTCTCAGGCATGATGTATAG 57.709 38.462 0.00 9.40 34.12 1.31
1186 1290 7.892771 ACTCTCTATTCTCAGGCATGATGTATA 59.107 37.037 0.00 0.00 34.12 1.47
1187 1291 6.725369 ACTCTCTATTCTCAGGCATGATGTAT 59.275 38.462 0.00 0.00 34.12 2.29
1188 1292 6.073981 ACTCTCTATTCTCAGGCATGATGTA 58.926 40.000 0.00 0.00 34.12 2.29
1189 1293 4.900652 ACTCTCTATTCTCAGGCATGATGT 59.099 41.667 0.00 0.00 34.12 3.06
1190 1294 5.471556 ACTCTCTATTCTCAGGCATGATG 57.528 43.478 0.00 0.00 34.12 3.07
1200 1304 7.062906 CATGCATGCATTACTCTCTATTCTC 57.937 40.000 30.32 0.00 33.90 2.87
1262 1376 0.603707 CGTTCTCAGGCCTCTTGCAA 60.604 55.000 0.00 0.00 43.89 4.08
1274 1388 3.289062 TCCGCCGTCACGTTCTCA 61.289 61.111 0.00 0.00 0.00 3.27
1613 1727 3.928779 GAGATCGCCATGGCCGGA 61.929 66.667 30.79 22.75 37.98 5.14
1631 1745 0.886563 GAAGCTGGCTGTTGAATGCT 59.113 50.000 0.00 0.00 0.00 3.79
1721 1835 3.893763 CCGTCGATCTGGAGCGCT 61.894 66.667 11.27 11.27 40.42 5.92
1832 1951 2.857748 TCGTCATTATTAGCAGCACGTG 59.142 45.455 12.28 12.28 0.00 4.49
2025 2158 3.642848 ACCAGGCACATTCATTTTCAGTT 59.357 39.130 0.00 0.00 0.00 3.16
2026 2159 3.233507 ACCAGGCACATTCATTTTCAGT 58.766 40.909 0.00 0.00 0.00 3.41
2030 2163 4.420522 AACAACCAGGCACATTCATTTT 57.579 36.364 0.00 0.00 0.00 1.82
2031 2164 4.420522 AAACAACCAGGCACATTCATTT 57.579 36.364 0.00 0.00 0.00 2.32
2109 2246 5.766150 TGAGGTGTTTTGTACTTCCAATG 57.234 39.130 0.00 0.00 0.00 2.82
2110 2247 6.569780 GTTTGAGGTGTTTTGTACTTCCAAT 58.430 36.000 0.00 0.00 0.00 3.16
2111 2248 5.392165 CGTTTGAGGTGTTTTGTACTTCCAA 60.392 40.000 0.00 0.00 0.00 3.53
2112 2249 4.095185 CGTTTGAGGTGTTTTGTACTTCCA 59.905 41.667 0.00 0.00 0.00 3.53
2183 2320 2.437359 GCGGCTCATTCTGGCAGT 60.437 61.111 15.27 0.00 0.00 4.40
2207 2344 1.568504 TAGGAGCAACGACCAAGGAT 58.431 50.000 0.00 0.00 0.00 3.24
2208 2345 1.568504 ATAGGAGCAACGACCAAGGA 58.431 50.000 0.00 0.00 0.00 3.36
2211 2348 1.135527 CGGTATAGGAGCAACGACCAA 59.864 52.381 0.00 0.00 0.00 3.67
2213 2350 0.031721 CCGGTATAGGAGCAACGACC 59.968 60.000 0.00 0.00 0.00 4.79
2241 2378 1.550065 GTCTGTCATCATCACGGTCG 58.450 55.000 0.00 0.00 0.00 4.79
2249 2386 4.446371 GAAGAATTCCCGTCTGTCATCAT 58.554 43.478 0.65 0.00 39.83 2.45
2259 2396 0.389426 CGTGGACGAAGAATTCCCGT 60.389 55.000 19.28 19.28 43.81 5.28
2283 2420 3.081409 GGGGCGCTGGTCCTTAGA 61.081 66.667 7.64 0.00 38.30 2.10
2378 2515 5.189180 GGTGAGATTAGAGTTTCTTGCCAT 58.811 41.667 0.00 0.00 0.00 4.40
2379 2516 4.579869 GGTGAGATTAGAGTTTCTTGCCA 58.420 43.478 0.00 0.00 0.00 4.92
2390 2527 0.738975 CCTCGTGCGGTGAGATTAGA 59.261 55.000 1.61 0.00 35.43 2.10
2399 2536 4.057428 GTCAGCTCCTCGTGCGGT 62.057 66.667 0.00 0.00 35.28 5.68
2426 2565 0.389391 GCATTAGACGGGCTCTAGCA 59.611 55.000 4.07 0.00 44.36 3.49
2451 2591 4.709250 GATCCTCCCCAAGTTTACTCATC 58.291 47.826 0.00 0.00 0.00 2.92
2457 2597 2.116238 CTCCGATCCTCCCCAAGTTTA 58.884 52.381 0.00 0.00 0.00 2.01
2458 2598 0.912486 CTCCGATCCTCCCCAAGTTT 59.088 55.000 0.00 0.00 0.00 2.66
2503 2643 2.171003 TGACACTCAGATGGATGACGT 58.829 47.619 0.00 0.00 0.00 4.34
2519 2662 9.534565 GATAGCATAGTCTTTACAAGAATGACA 57.465 33.333 0.00 0.00 39.67 3.58
2533 2676 8.096621 TGGCTAGTAGATAGATAGCATAGTCT 57.903 38.462 0.00 0.00 42.97 3.24
2539 2682 5.189928 GCTCTGGCTAGTAGATAGATAGCA 58.810 45.833 0.00 0.00 42.97 3.49
2540 2683 4.578928 GGCTCTGGCTAGTAGATAGATAGC 59.421 50.000 0.00 4.50 40.95 2.97
2544 2690 2.638363 TCGGCTCTGGCTAGTAGATAGA 59.362 50.000 0.00 2.74 38.73 1.98
2574 2720 3.209812 GCGGCGGGGAGGAATTTC 61.210 66.667 9.78 0.00 0.00 2.17
2615 2761 0.846693 GCCCATTGATACACCTCCCT 59.153 55.000 0.00 0.00 0.00 4.20
2624 2770 2.425592 CCGGCGAGCCCATTGATA 59.574 61.111 9.30 0.00 0.00 2.15
2664 2811 5.483937 TGTGACTTGTACATCACTAGGGAAT 59.516 40.000 23.39 0.00 44.59 3.01
2699 2846 1.536766 TGTACAGCTGCATGCAGTTTC 59.463 47.619 39.95 27.24 45.24 2.78
2701 2848 1.608055 TTGTACAGCTGCATGCAGTT 58.392 45.000 39.95 34.88 45.24 3.16
2703 2850 2.933495 AATTGTACAGCTGCATGCAG 57.067 45.000 37.81 37.81 45.94 4.41
2751 2898 7.855409 TGCAAACTATCACGCATTCAATTATAC 59.145 33.333 0.00 0.00 0.00 1.47
2757 2904 4.700268 ATGCAAACTATCACGCATTCAA 57.300 36.364 0.00 0.00 42.23 2.69
2759 2906 5.657470 TCTATGCAAACTATCACGCATTC 57.343 39.130 0.57 0.00 42.23 2.67


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

AutoCloner maintained by Alex Coulton.