Multiple sequence alignment - TraesCS7D01G433400

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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 TraesCS7D01G433400 chr7D 100.000 3439 0 0 1 3439 553368776 553372214 0.000000e+00 6351.0
1 TraesCS7D01G433400 chr7D 84.873 1256 124 29 1462 2686 553481936 553483156 0.000000e+00 1206.0
2 TraesCS7D01G433400 chr7A 89.631 2739 204 23 754 3439 639233344 639236055 0.000000e+00 3411.0
3 TraesCS7D01G433400 chr7A 84.443 1382 146 28 1095 2440 639290746 639292094 0.000000e+00 1297.0
4 TraesCS7D01G433400 chr7A 85.354 594 81 3 2588 3180 639268363 639268951 8.160000e-171 610.0
5 TraesCS7D01G433400 chr7B 85.316 2472 214 69 943 3355 599768840 599771221 0.000000e+00 2416.0
6 TraesCS7D01G433400 chr7B 84.411 1206 124 33 1510 2686 599858217 599859387 0.000000e+00 1127.0
7 TraesCS7D01G433400 chr7B 82.406 557 88 7 2648 3197 380073313 380072760 8.630000e-131 477.0
8 TraesCS7D01G433400 chr7B 82.143 560 92 5 2644 3197 648273503 648274060 1.120000e-129 473.0
9 TraesCS7D01G433400 chr7B 79.680 438 56 13 1052 1466 599857391 599857818 5.620000e-73 285.0
10 TraesCS7D01G433400 chr7B 82.201 309 48 4 1619 1922 598480173 598479867 3.400000e-65 259.0
11 TraesCS7D01G433400 chr7B 82.699 289 42 8 1639 1922 599393997 599393712 2.050000e-62 250.0
12 TraesCS7D01G433400 chr7B 81.311 305 55 2 1619 1922 599360436 599360133 2.650000e-61 246.0
13 TraesCS7D01G433400 chr7B 83.133 166 22 2 2262 2427 599869867 599870026 2.770000e-31 147.0
14 TraesCS7D01G433400 chr5A 86.223 646 64 14 1 646 673515458 673514838 0.000000e+00 676.0
15 TraesCS7D01G433400 chr2B 92.275 466 34 1 7 470 771421529 771421064 0.000000e+00 660.0
16 TraesCS7D01G433400 chr2B 81.104 598 96 13 2609 3197 134253761 134253172 2.420000e-126 462.0
17 TraesCS7D01G433400 chr2B 96.078 102 4 0 547 648 771420829 771420728 2.120000e-37 167.0
18 TraesCS7D01G433400 chr2B 73.184 358 86 10 79 431 1656602 1656954 1.680000e-23 121.0
19 TraesCS7D01G433400 chr5B 92.706 425 25 1 199 617 412283000 412283424 2.930000e-170 608.0
20 TraesCS7D01G433400 chr5B 82.353 561 89 7 2644 3197 710235621 710236178 2.400000e-131 479.0
21 TraesCS7D01G433400 chr6A 93.064 346 24 0 1 346 93504004 93504349 1.100000e-139 507.0
22 TraesCS7D01G433400 chr6A 88.688 221 21 3 431 648 93520644 93520863 2.030000e-67 267.0
23 TraesCS7D01G433400 chr6B 82.270 564 89 8 2642 3197 61212196 61211636 8.630000e-131 477.0
24 TraesCS7D01G433400 chrUn 82.226 557 89 7 2648 3197 136395339 136394786 4.020000e-129 472.0
25 TraesCS7D01G433400 chr3B 82.290 559 85 10 2648 3197 463484169 463483616 4.020000e-129 472.0
26 TraesCS7D01G433400 chr1A 78.829 666 100 25 1953 2585 85317876 85318533 8.880000e-111 411.0
27 TraesCS7D01G433400 chr1D 79.218 486 68 17 1953 2411 89230206 89230685 1.200000e-79 307.0
28 TraesCS7D01G433400 chr1D 75.862 174 33 8 1735 1902 415299722 415299892 2.850000e-11 80.5
29 TraesCS7D01G433400 chr1B 79.012 486 69 16 1953 2411 142510030 142510509 5.580000e-78 302.0
30 TraesCS7D01G433400 chr3D 90.909 44 4 0 157 200 589876025 589875982 3.710000e-05 60.2


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 TraesCS7D01G433400 chr7D 553368776 553372214 3438 False 6351.0 6351 100.0000 1 3439 1 chr7D.!!$F1 3438
1 TraesCS7D01G433400 chr7D 553481936 553483156 1220 False 1206.0 1206 84.8730 1462 2686 1 chr7D.!!$F2 1224
2 TraesCS7D01G433400 chr7A 639233344 639236055 2711 False 3411.0 3411 89.6310 754 3439 1 chr7A.!!$F1 2685
3 TraesCS7D01G433400 chr7A 639290746 639292094 1348 False 1297.0 1297 84.4430 1095 2440 1 chr7A.!!$F3 1345
4 TraesCS7D01G433400 chr7A 639268363 639268951 588 False 610.0 610 85.3540 2588 3180 1 chr7A.!!$F2 592
5 TraesCS7D01G433400 chr7B 599768840 599771221 2381 False 2416.0 2416 85.3160 943 3355 1 chr7B.!!$F1 2412
6 TraesCS7D01G433400 chr7B 599857391 599859387 1996 False 706.0 1127 82.0455 1052 2686 2 chr7B.!!$F4 1634
7 TraesCS7D01G433400 chr7B 380072760 380073313 553 True 477.0 477 82.4060 2648 3197 1 chr7B.!!$R1 549
8 TraesCS7D01G433400 chr7B 648273503 648274060 557 False 473.0 473 82.1430 2644 3197 1 chr7B.!!$F3 553
9 TraesCS7D01G433400 chr5A 673514838 673515458 620 True 676.0 676 86.2230 1 646 1 chr5A.!!$R1 645
10 TraesCS7D01G433400 chr2B 134253172 134253761 589 True 462.0 462 81.1040 2609 3197 1 chr2B.!!$R1 588
11 TraesCS7D01G433400 chr2B 771420728 771421529 801 True 413.5 660 94.1765 7 648 2 chr2B.!!$R2 641
12 TraesCS7D01G433400 chr5B 710235621 710236178 557 False 479.0 479 82.3530 2644 3197 1 chr5B.!!$F2 553
13 TraesCS7D01G433400 chr6B 61211636 61212196 560 True 477.0 477 82.2700 2642 3197 1 chr6B.!!$R1 555
14 TraesCS7D01G433400 chrUn 136394786 136395339 553 True 472.0 472 82.2260 2648 3197 1 chrUn.!!$R1 549
15 TraesCS7D01G433400 chr3B 463483616 463484169 553 True 472.0 472 82.2900 2648 3197 1 chr3B.!!$R1 549
16 TraesCS7D01G433400 chr1A 85317876 85318533 657 False 411.0 411 78.8290 1953 2585 1 chr1A.!!$F1 632

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
657 818 0.675522 TCCCGGAAAAGACAATCGCC 60.676 55.0 0.73 0.0 0.0 5.54 F
658 819 0.676782 CCCGGAAAAGACAATCGCCT 60.677 55.0 0.73 0.0 0.0 5.52 F
1528 2103 0.996762 GAGGAGGAGGAGGAGGAGGA 60.997 65.0 0.00 0.0 0.0 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1937 2527 0.901124 GCTTCCTGCTCTCCTCAAGA 59.099 55.0 0.00 0.0 38.95 3.02 R
2188 2778 0.999228 GCTATCGTCATCGTCGGCTG 60.999 60.0 0.00 0.0 38.33 4.85 R
2982 3693 0.175989 TTTGGCCGGCGTTTTTCTTT 59.824 45.0 22.54 0.0 0.00 2.52 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
29 30 3.335579 GTCGAAGTGAATTAGGGTTGCT 58.664 45.455 0.00 0.00 0.00 3.91
37 38 5.010012 AGTGAATTAGGGTTGCTTTCTTGTG 59.990 40.000 0.00 0.00 0.00 3.33
38 39 4.892934 TGAATTAGGGTTGCTTTCTTGTGT 59.107 37.500 0.00 0.00 0.00 3.72
110 111 1.561542 AGATTCACAACCCTAGCCCAG 59.438 52.381 0.00 0.00 0.00 4.45
176 177 1.895798 TCGAACTCTGCCAAGATCACT 59.104 47.619 0.00 0.00 0.00 3.41
200 201 1.317431 GCTTGCTGATGTGCCATGGA 61.317 55.000 18.40 0.00 0.00 3.41
260 263 5.018695 CGAACTCCGCCACAAATATATTC 57.981 43.478 0.00 0.00 0.00 1.75
340 343 1.686052 GGAGATTGTTTGGGTGTGCAA 59.314 47.619 0.00 0.00 0.00 4.08
344 347 5.359576 GGAGATTGTTTGGGTGTGCAATATA 59.640 40.000 0.00 0.00 32.47 0.86
348 351 6.849085 TTGTTTGGGTGTGCAATATATTCT 57.151 33.333 0.00 0.00 0.00 2.40
350 353 5.126869 TGTTTGGGTGTGCAATATATTCTGG 59.873 40.000 0.00 0.00 0.00 3.86
495 498 1.004440 GCTGACTTGGGCGAGAGTT 60.004 57.895 0.00 0.00 0.00 3.01
539 542 1.524848 GCCTGATGCATCCATCTCTG 58.475 55.000 23.67 3.55 46.43 3.35
608 769 3.118371 CCAAGATCCGCTAAACCCTAGTT 60.118 47.826 0.00 0.00 38.03 2.24
639 800 3.540367 TTTGGGAGGACCGCGGTTC 62.540 63.158 34.65 32.27 44.64 3.62
651 812 4.783667 CGGTTCCCGGAAAAGACA 57.216 55.556 0.73 0.00 44.15 3.41
652 813 3.009612 CGGTTCCCGGAAAAGACAA 57.990 52.632 0.73 0.00 44.15 3.18
653 814 1.530323 CGGTTCCCGGAAAAGACAAT 58.470 50.000 0.73 0.00 44.15 2.71
654 815 1.467342 CGGTTCCCGGAAAAGACAATC 59.533 52.381 0.73 0.00 44.15 2.67
655 816 1.467342 GGTTCCCGGAAAAGACAATCG 59.533 52.381 0.73 0.00 0.00 3.34
656 817 1.135774 GTTCCCGGAAAAGACAATCGC 60.136 52.381 0.73 0.00 0.00 4.58
657 818 0.675522 TCCCGGAAAAGACAATCGCC 60.676 55.000 0.73 0.00 0.00 5.54
658 819 0.676782 CCCGGAAAAGACAATCGCCT 60.677 55.000 0.73 0.00 0.00 5.52
659 820 1.165270 CCGGAAAAGACAATCGCCTT 58.835 50.000 0.00 0.00 0.00 4.35
660 821 1.539827 CCGGAAAAGACAATCGCCTTT 59.460 47.619 0.00 0.00 34.39 3.11
661 822 2.584791 CGGAAAAGACAATCGCCTTTG 58.415 47.619 0.00 0.00 33.37 2.77
662 823 2.668279 CGGAAAAGACAATCGCCTTTGG 60.668 50.000 0.00 0.00 33.37 3.28
663 824 2.328473 GAAAAGACAATCGCCTTTGGC 58.672 47.619 0.00 0.00 46.75 4.52
674 835 3.625745 CCTTTGGCACGACTAAGGT 57.374 52.632 5.08 0.00 33.93 3.50
675 836 1.156736 CCTTTGGCACGACTAAGGTG 58.843 55.000 5.08 0.00 38.42 4.00
676 837 1.156736 CTTTGGCACGACTAAGGTGG 58.843 55.000 0.00 0.00 35.94 4.61
679 840 2.813908 GCACGACTAAGGTGGCGG 60.814 66.667 0.00 0.00 35.94 6.13
680 841 2.967397 CACGACTAAGGTGGCGGA 59.033 61.111 0.00 0.00 0.00 5.54
681 842 1.445582 CACGACTAAGGTGGCGGAC 60.446 63.158 0.00 0.00 0.00 4.79
682 843 2.202570 CGACTAAGGTGGCGGACG 60.203 66.667 0.00 0.00 0.00 4.79
683 844 2.508663 GACTAAGGTGGCGGACGC 60.509 66.667 8.39 8.39 41.06 5.19
684 845 2.995574 ACTAAGGTGGCGGACGCT 60.996 61.111 16.72 0.00 41.60 5.07
685 846 2.509336 CTAAGGTGGCGGACGCTG 60.509 66.667 16.72 0.00 41.60 5.18
686 847 3.296709 CTAAGGTGGCGGACGCTGT 62.297 63.158 16.72 0.69 41.60 4.40
687 848 3.583276 TAAGGTGGCGGACGCTGTG 62.583 63.158 16.72 0.00 41.60 3.66
695 856 4.947147 GGACGCTGTGGGGTGCAA 62.947 66.667 0.00 0.00 43.90 4.08
696 857 3.357079 GACGCTGTGGGGTGCAAG 61.357 66.667 0.00 0.00 38.76 4.01
697 858 4.954970 ACGCTGTGGGGTGCAAGG 62.955 66.667 0.00 0.00 37.24 3.61
699 860 4.603535 GCTGTGGGGTGCAAGGGT 62.604 66.667 0.00 0.00 0.00 4.34
700 861 2.198426 CTGTGGGGTGCAAGGGTT 59.802 61.111 0.00 0.00 0.00 4.11
701 862 1.457455 CTGTGGGGTGCAAGGGTTT 60.457 57.895 0.00 0.00 0.00 3.27
702 863 1.002274 TGTGGGGTGCAAGGGTTTT 59.998 52.632 0.00 0.00 0.00 2.43
703 864 1.045911 TGTGGGGTGCAAGGGTTTTC 61.046 55.000 0.00 0.00 0.00 2.29
704 865 1.458588 TGGGGTGCAAGGGTTTTCC 60.459 57.895 0.00 0.00 39.75 3.13
718 879 5.528337 AGGGTTTTCCTTTGCCATATATGT 58.472 37.500 11.73 0.00 45.47 2.29
719 880 6.678547 AGGGTTTTCCTTTGCCATATATGTA 58.321 36.000 11.73 0.00 45.47 2.29
720 881 7.305246 AGGGTTTTCCTTTGCCATATATGTAT 58.695 34.615 11.73 0.00 45.47 2.29
721 882 7.233348 AGGGTTTTCCTTTGCCATATATGTATG 59.767 37.037 11.73 2.59 45.47 2.39
722 883 6.868339 GGTTTTCCTTTGCCATATATGTATGC 59.132 38.462 11.73 8.46 35.77 3.14
723 884 5.878332 TTCCTTTGCCATATATGTATGCG 57.122 39.130 11.73 0.00 37.06 4.73
724 885 5.159273 TCCTTTGCCATATATGTATGCGA 57.841 39.130 11.73 5.30 37.06 5.10
725 886 5.178061 TCCTTTGCCATATATGTATGCGAG 58.822 41.667 11.73 9.33 37.06 5.03
726 887 5.046663 TCCTTTGCCATATATGTATGCGAGA 60.047 40.000 11.73 1.10 37.06 4.04
727 888 5.643348 CCTTTGCCATATATGTATGCGAGAA 59.357 40.000 11.73 4.50 37.06 2.87
728 889 6.183360 CCTTTGCCATATATGTATGCGAGAAG 60.183 42.308 11.73 11.64 37.06 2.85
729 890 5.659440 TGCCATATATGTATGCGAGAAGA 57.341 39.130 11.73 0.00 37.06 2.87
730 891 6.036577 TGCCATATATGTATGCGAGAAGAA 57.963 37.500 11.73 0.00 37.06 2.52
731 892 6.463360 TGCCATATATGTATGCGAGAAGAAA 58.537 36.000 11.73 0.00 37.06 2.52
732 893 7.105588 TGCCATATATGTATGCGAGAAGAAAT 58.894 34.615 11.73 0.00 37.06 2.17
733 894 7.607607 TGCCATATATGTATGCGAGAAGAAATT 59.392 33.333 11.73 0.00 37.06 1.82
734 895 7.907045 GCCATATATGTATGCGAGAAGAAATTG 59.093 37.037 11.73 0.00 37.06 2.32
735 896 8.939929 CCATATATGTATGCGAGAAGAAATTGT 58.060 33.333 11.73 0.00 37.06 2.71
738 899 5.696260 TGTATGCGAGAAGAAATTGTACG 57.304 39.130 0.00 0.00 0.00 3.67
739 900 5.404096 TGTATGCGAGAAGAAATTGTACGA 58.596 37.500 0.00 0.00 0.00 3.43
740 901 5.515270 TGTATGCGAGAAGAAATTGTACGAG 59.485 40.000 0.00 0.00 0.00 4.18
741 902 3.250744 TGCGAGAAGAAATTGTACGAGG 58.749 45.455 0.00 0.00 0.00 4.63
742 903 3.057104 TGCGAGAAGAAATTGTACGAGGA 60.057 43.478 0.00 0.00 0.00 3.71
743 904 4.113354 GCGAGAAGAAATTGTACGAGGAT 58.887 43.478 0.00 0.00 0.00 3.24
744 905 4.026475 GCGAGAAGAAATTGTACGAGGATG 60.026 45.833 0.00 0.00 0.00 3.51
745 906 5.340803 CGAGAAGAAATTGTACGAGGATGA 58.659 41.667 0.00 0.00 0.00 2.92
746 907 5.230306 CGAGAAGAAATTGTACGAGGATGAC 59.770 44.000 0.00 0.00 0.00 3.06
747 908 6.287589 AGAAGAAATTGTACGAGGATGACT 57.712 37.500 0.00 0.00 0.00 3.41
748 909 6.102663 AGAAGAAATTGTACGAGGATGACTG 58.897 40.000 0.00 0.00 0.00 3.51
749 910 5.661056 AGAAATTGTACGAGGATGACTGA 57.339 39.130 0.00 0.00 0.00 3.41
750 911 6.037786 AGAAATTGTACGAGGATGACTGAA 57.962 37.500 0.00 0.00 0.00 3.02
751 912 6.644347 AGAAATTGTACGAGGATGACTGAAT 58.356 36.000 0.00 0.00 0.00 2.57
752 913 7.782049 AGAAATTGTACGAGGATGACTGAATA 58.218 34.615 0.00 0.00 0.00 1.75
764 925 5.293079 GGATGACTGAATAGTTGAGCACTTC 59.707 44.000 0.00 0.00 37.25 3.01
765 926 4.569943 TGACTGAATAGTTGAGCACTTCC 58.430 43.478 0.00 0.00 37.25 3.46
766 927 3.935828 GACTGAATAGTTGAGCACTTCCC 59.064 47.826 0.00 0.00 37.25 3.97
771 932 5.774690 TGAATAGTTGAGCACTTCCCATTTT 59.225 36.000 0.00 0.00 36.88 1.82
799 965 2.030007 ACCACGATCGGACGAACTAAAA 60.030 45.455 20.98 0.00 37.03 1.52
859 1025 4.492604 TTTTTCCCAGACCGCCTG 57.507 55.556 0.00 0.00 42.55 4.85
894 1065 2.953669 GCAATCTGCAGAAATGGCG 58.046 52.632 22.50 6.76 44.26 5.69
904 1078 2.125673 AAATGGCGTCCGAGTCCG 60.126 61.111 0.00 0.00 0.00 4.79
915 1089 1.162698 CCGAGTCCGAACTGTAGTCA 58.837 55.000 0.00 0.00 35.28 3.41
917 1091 1.805345 CGAGTCCGAACTGTAGTCACT 59.195 52.381 0.00 0.00 35.28 3.41
921 1095 3.752222 AGTCCGAACTGTAGTCACTAGTG 59.248 47.826 17.17 17.17 33.32 2.74
922 1096 3.750130 GTCCGAACTGTAGTCACTAGTGA 59.250 47.826 21.74 21.74 37.24 3.41
928 1102 6.743627 CGAACTGTAGTCACTAGTGAGATTTC 59.256 42.308 25.81 18.39 40.75 2.17
969 1143 1.940613 GCGGCTTAATCAATCCGACTT 59.059 47.619 0.00 0.00 44.40 3.01
970 1144 2.354821 GCGGCTTAATCAATCCGACTTT 59.645 45.455 0.00 0.00 44.40 2.66
990 1164 6.607019 ACTTTGGATTGGTAAGTAACTGGAA 58.393 36.000 0.00 0.00 30.75 3.53
992 1166 7.728532 ACTTTGGATTGGTAAGTAACTGGAATT 59.271 33.333 0.00 0.00 30.75 2.17
996 1170 9.403583 TGGATTGGTAAGTAACTGGAATTAATC 57.596 33.333 0.00 0.00 0.00 1.75
999 1173 8.483307 TTGGTAAGTAACTGGAATTAATCGAC 57.517 34.615 0.00 0.00 0.00 4.20
1308 1489 3.697439 GAGCTGCCATGCCCGGTTA 62.697 63.158 0.00 0.00 0.00 2.85
1394 1581 2.103538 GCTGTCGCCGTTCGGATA 59.896 61.111 15.69 0.00 39.05 2.59
1406 1593 3.372954 CGTTCGGATAGATGGTCACTTC 58.627 50.000 0.00 0.00 0.00 3.01
1419 1606 2.416836 GGTCACTTCAACGATCATCCGA 60.417 50.000 0.00 0.00 0.00 4.55
1431 1630 4.148825 ATCCGACGCTGTGGGAGC 62.149 66.667 15.08 0.00 43.20 4.70
1439 1638 4.268687 CTGTGGGAGCAGTTCGAC 57.731 61.111 0.00 0.00 0.00 4.20
1456 1688 2.612212 TCGACGACGAAGATGATGATGA 59.388 45.455 7.68 0.00 45.74 2.92
1521 2096 1.684049 AACAGCGAGGAGGAGGAGG 60.684 63.158 0.00 0.00 0.00 4.30
1522 2097 2.156496 AACAGCGAGGAGGAGGAGGA 62.156 60.000 0.00 0.00 0.00 3.71
1523 2098 1.827789 CAGCGAGGAGGAGGAGGAG 60.828 68.421 0.00 0.00 0.00 3.69
1524 2099 2.520741 GCGAGGAGGAGGAGGAGG 60.521 72.222 0.00 0.00 0.00 4.30
1525 2100 3.063197 GCGAGGAGGAGGAGGAGGA 62.063 68.421 0.00 0.00 0.00 3.71
1526 2101 1.150536 CGAGGAGGAGGAGGAGGAG 59.849 68.421 0.00 0.00 0.00 3.69
1527 2102 1.541672 GAGGAGGAGGAGGAGGAGG 59.458 68.421 0.00 0.00 0.00 4.30
1528 2103 0.996762 GAGGAGGAGGAGGAGGAGGA 60.997 65.000 0.00 0.00 0.00 3.71
1529 2104 0.998945 AGGAGGAGGAGGAGGAGGAG 60.999 65.000 0.00 0.00 0.00 3.69
1530 2105 1.541672 GAGGAGGAGGAGGAGGAGG 59.458 68.421 0.00 0.00 0.00 4.30
1531 2106 0.996762 GAGGAGGAGGAGGAGGAGGA 60.997 65.000 0.00 0.00 0.00 3.71
1532 2107 0.998945 AGGAGGAGGAGGAGGAGGAG 60.999 65.000 0.00 0.00 0.00 3.69
1533 2108 1.541672 GAGGAGGAGGAGGAGGAGG 59.458 68.421 0.00 0.00 0.00 4.30
1534 2109 2.018086 AGGAGGAGGAGGAGGAGGG 61.018 68.421 0.00 0.00 0.00 4.30
1535 2110 2.612251 GAGGAGGAGGAGGAGGGG 59.388 72.222 0.00 0.00 0.00 4.79
1652 2233 1.534729 GGCAATTCGTTGGAGGTTCT 58.465 50.000 0.00 0.00 0.00 3.01
1887 2471 4.271816 CCGGATCGTCTCTGGCCG 62.272 72.222 0.00 0.00 43.54 6.13
2027 2617 1.406219 CGAGACGCATCGAGGTGTTG 61.406 60.000 18.16 7.40 45.56 3.33
2352 3020 1.577468 CAAGCCGCACGTATTCCATA 58.423 50.000 0.00 0.00 0.00 2.74
2550 3247 9.683069 TTCTTCAGATTTGCTTATGTTTTTCTC 57.317 29.630 0.00 0.00 0.00 2.87
2579 3278 7.547019 GGATAGCATTCATTCGACTGATTGATA 59.453 37.037 23.71 22.05 35.19 2.15
2629 3334 7.463544 TGCTTCAGATGTATTTTGTATGAACG 58.536 34.615 0.00 0.00 0.00 3.95
2646 3351 9.980780 TGTATGAACGTATCATTGTAATTGTTG 57.019 29.630 15.21 0.00 46.85 3.33
2694 3405 7.792374 TCTATTCATCAATTGTCAAGGTAGC 57.208 36.000 5.13 0.00 0.00 3.58
2806 3517 2.285368 ATCGCCCCTCCCTTGTCA 60.285 61.111 0.00 0.00 0.00 3.58
2807 3518 1.923395 ATCGCCCCTCCCTTGTCAA 60.923 57.895 0.00 0.00 0.00 3.18
2814 3525 2.282180 TCCCTTGTCAAAGCCGGC 60.282 61.111 21.89 21.89 31.51 6.13
2815 3526 3.737172 CCCTTGTCAAAGCCGGCG 61.737 66.667 23.20 7.22 31.51 6.46
2836 3547 3.311322 CGAAACCTTGTTGCAGTAGACAA 59.689 43.478 1.96 1.96 34.80 3.18
2861 3572 1.199558 GAAGTCGTCGTGCTAAGGTCT 59.800 52.381 0.00 0.00 0.00 3.85
2918 3629 3.657634 GATGAAGGCAAGCATAGATCGA 58.342 45.455 0.00 0.00 0.00 3.59
2996 3707 1.874872 TCCACTAAAGAAAAACGCCGG 59.125 47.619 0.00 0.00 0.00 6.13
3055 3766 1.528292 GCCCTCCGATGACGCTAGAT 61.528 60.000 0.00 0.00 38.29 1.98
3067 3778 2.047844 CTAGATGCATCGCCGGGG 60.048 66.667 20.67 13.31 0.00 5.73
3133 3844 1.099879 GCTGCCTCGCATTCCTGAAT 61.100 55.000 0.00 0.00 38.13 2.57
3139 3851 3.805108 GCCTCGCATTCCTGAATAGACAT 60.805 47.826 0.00 0.00 0.00 3.06
3173 3888 7.892609 ACAAAACTCAAGAAAACACCTAAAGT 58.107 30.769 0.00 0.00 0.00 2.66
3242 3976 6.959671 TGAAAGGAAAATGTGTTTGTTCAC 57.040 33.333 0.00 0.00 38.63 3.18
3247 3981 4.808895 GGAAAATGTGTTTGTTCACTTCCC 59.191 41.667 0.00 0.00 35.76 3.97
3323 4066 3.067320 GCTTCCTTCAAGTTGTCTGCTTT 59.933 43.478 2.11 0.00 34.13 3.51
3361 4104 9.079833 CCATTGTTGTCAAGATGAATGATTTAC 57.920 33.333 9.42 0.00 36.97 2.01
3367 4121 7.397221 TGTCAAGATGAATGATTTACTCCACT 58.603 34.615 0.00 0.00 0.00 4.00
3368 4122 8.539544 TGTCAAGATGAATGATTTACTCCACTA 58.460 33.333 0.00 0.00 0.00 2.74
3375 4129 7.402054 TGAATGATTTACTCCACTACCAACAT 58.598 34.615 0.00 0.00 0.00 2.71
3376 4130 7.888021 TGAATGATTTACTCCACTACCAACATT 59.112 33.333 0.00 0.00 0.00 2.71
3379 4133 8.958119 TGATTTACTCCACTACCAACATTATC 57.042 34.615 0.00 0.00 0.00 1.75
3385 4139 7.050377 ACTCCACTACCAACATTATCTTCATG 58.950 38.462 0.00 0.00 0.00 3.07
3394 4148 9.507329 ACCAACATTATCTTCATGTATATGACC 57.493 33.333 1.03 0.00 42.79 4.02
3395 4149 9.730705 CCAACATTATCTTCATGTATATGACCT 57.269 33.333 1.03 0.00 42.79 3.85
3410 4164 8.453681 TGTATATGACCTCCAAATCCTAGAGTA 58.546 37.037 0.00 0.00 0.00 2.59
3412 4166 6.739331 ATGACCTCCAAATCCTAGAGTAAG 57.261 41.667 0.00 0.00 0.00 2.34
3434 4188 5.618561 AGATTTCATTACTTGCGTCGAAAC 58.381 37.500 0.00 0.00 0.00 2.78
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 5.843673 TTGCCAAACAGATACACAAGAAA 57.156 34.783 0.00 0.00 0.00 2.52
110 111 5.186996 TCAGGTTTGAGAAATTGCAAGTC 57.813 39.130 4.94 4.99 0.00 3.01
176 177 2.948323 CACATCAGCAAGCACGCA 59.052 55.556 0.00 0.00 0.00 5.24
301 304 3.675619 AATGCCCTACGTCCCGCAC 62.676 63.158 5.60 0.00 33.31 5.34
350 353 2.436115 GCGGGGAAGGTACTGCAC 60.436 66.667 0.00 0.00 40.86 4.57
473 476 3.965539 CTCGCCCAAGTCAGCCAGG 62.966 68.421 0.00 0.00 0.00 4.45
475 478 2.922503 TCTCGCCCAAGTCAGCCA 60.923 61.111 0.00 0.00 0.00 4.75
476 479 2.125350 CTCTCGCCCAAGTCAGCC 60.125 66.667 0.00 0.00 0.00 4.85
479 482 1.671742 GGAACTCTCGCCCAAGTCA 59.328 57.895 0.00 0.00 0.00 3.41
523 526 0.109913 GGCCAGAGATGGATGCATCA 59.890 55.000 26.58 14.20 34.19 3.07
539 542 3.564027 CGTTTGAGATCGCCGGCC 61.564 66.667 23.46 7.02 0.00 6.13
608 769 2.679642 CCAAAGGCGATTGGGGCA 60.680 61.111 14.93 0.00 45.03 5.36
639 800 0.676782 AGGCGATTGTCTTTTCCGGG 60.677 55.000 0.00 0.00 0.00 5.73
656 817 1.156736 CACCTTAGTCGTGCCAAAGG 58.843 55.000 0.00 0.00 43.42 3.11
657 818 1.156736 CCACCTTAGTCGTGCCAAAG 58.843 55.000 0.00 0.00 0.00 2.77
658 819 0.887387 GCCACCTTAGTCGTGCCAAA 60.887 55.000 0.00 0.00 0.00 3.28
659 820 1.302192 GCCACCTTAGTCGTGCCAA 60.302 57.895 0.00 0.00 0.00 4.52
660 821 2.345991 GCCACCTTAGTCGTGCCA 59.654 61.111 0.00 0.00 0.00 4.92
661 822 2.813908 CGCCACCTTAGTCGTGCC 60.814 66.667 0.00 0.00 0.00 5.01
662 823 2.813908 CCGCCACCTTAGTCGTGC 60.814 66.667 0.00 0.00 0.00 5.34
663 824 1.445582 GTCCGCCACCTTAGTCGTG 60.446 63.158 0.00 0.00 0.00 4.35
664 825 2.968206 GTCCGCCACCTTAGTCGT 59.032 61.111 0.00 0.00 0.00 4.34
665 826 2.202570 CGTCCGCCACCTTAGTCG 60.203 66.667 0.00 0.00 0.00 4.18
666 827 2.508663 GCGTCCGCCACCTTAGTC 60.509 66.667 0.00 0.00 34.56 2.59
667 828 2.995574 AGCGTCCGCCACCTTAGT 60.996 61.111 8.23 0.00 43.17 2.24
668 829 2.509336 CAGCGTCCGCCACCTTAG 60.509 66.667 8.23 0.00 43.17 2.18
669 830 3.307906 ACAGCGTCCGCCACCTTA 61.308 61.111 8.23 0.00 43.17 2.69
670 831 4.988598 CACAGCGTCCGCCACCTT 62.989 66.667 8.23 0.00 43.17 3.50
678 839 4.947147 TTGCACCCCACAGCGTCC 62.947 66.667 0.00 0.00 0.00 4.79
679 840 3.357079 CTTGCACCCCACAGCGTC 61.357 66.667 0.00 0.00 0.00 5.19
680 841 4.954970 CCTTGCACCCCACAGCGT 62.955 66.667 0.00 0.00 0.00 5.07
682 843 4.603535 ACCCTTGCACCCCACAGC 62.604 66.667 0.00 0.00 0.00 4.40
683 844 1.048160 AAAACCCTTGCACCCCACAG 61.048 55.000 0.00 0.00 0.00 3.66
684 845 1.002274 AAAACCCTTGCACCCCACA 59.998 52.632 0.00 0.00 0.00 4.17
685 846 1.745890 GAAAACCCTTGCACCCCAC 59.254 57.895 0.00 0.00 0.00 4.61
686 847 1.458588 GGAAAACCCTTGCACCCCA 60.459 57.895 0.00 0.00 0.00 4.96
687 848 1.152333 AGGAAAACCCTTGCACCCC 60.152 57.895 0.00 0.00 44.85 4.95
688 849 4.619233 AGGAAAACCCTTGCACCC 57.381 55.556 0.00 0.00 44.85 4.61
695 856 7.233348 CATACATATATGGCAAAGGAAAACCCT 59.767 37.037 16.96 0.00 39.87 4.34
696 857 5.869649 ACATATATGGCAAAGGAAAACCC 57.130 39.130 16.96 0.00 0.00 4.11
697 858 6.868339 GCATACATATATGGCAAAGGAAAACC 59.132 38.462 16.96 0.00 38.97 3.27
698 859 6.582295 CGCATACATATATGGCAAAGGAAAAC 59.418 38.462 16.96 0.00 38.97 2.43
699 860 6.488344 TCGCATACATATATGGCAAAGGAAAA 59.512 34.615 16.96 0.00 38.97 2.29
700 861 6.000840 TCGCATACATATATGGCAAAGGAAA 58.999 36.000 16.96 0.00 38.97 3.13
701 862 5.555966 TCGCATACATATATGGCAAAGGAA 58.444 37.500 16.96 0.00 38.97 3.36
702 863 5.046663 TCTCGCATACATATATGGCAAAGGA 60.047 40.000 16.96 6.17 38.97 3.36
703 864 5.178061 TCTCGCATACATATATGGCAAAGG 58.822 41.667 16.96 2.94 38.97 3.11
704 865 6.591448 TCTTCTCGCATACATATATGGCAAAG 59.409 38.462 16.96 12.59 38.97 2.77
705 866 6.463360 TCTTCTCGCATACATATATGGCAAA 58.537 36.000 16.96 5.18 38.97 3.68
706 867 6.036577 TCTTCTCGCATACATATATGGCAA 57.963 37.500 16.96 2.74 38.97 4.52
707 868 5.659440 TCTTCTCGCATACATATATGGCA 57.341 39.130 16.96 4.84 38.97 4.92
708 869 6.968131 TTTCTTCTCGCATACATATATGGC 57.032 37.500 16.96 9.57 38.97 4.40
709 870 8.939929 ACAATTTCTTCTCGCATACATATATGG 58.060 33.333 16.96 0.70 38.97 2.74
712 873 9.124807 CGTACAATTTCTTCTCGCATACATATA 57.875 33.333 0.00 0.00 0.00 0.86
713 874 7.865889 TCGTACAATTTCTTCTCGCATACATAT 59.134 33.333 0.00 0.00 0.00 1.78
714 875 7.197703 TCGTACAATTTCTTCTCGCATACATA 58.802 34.615 0.00 0.00 0.00 2.29
715 876 6.040247 TCGTACAATTTCTTCTCGCATACAT 58.960 36.000 0.00 0.00 0.00 2.29
716 877 5.404096 TCGTACAATTTCTTCTCGCATACA 58.596 37.500 0.00 0.00 0.00 2.29
717 878 5.051641 CCTCGTACAATTTCTTCTCGCATAC 60.052 44.000 0.00 0.00 0.00 2.39
718 879 5.041287 CCTCGTACAATTTCTTCTCGCATA 58.959 41.667 0.00 0.00 0.00 3.14
719 880 3.865745 CCTCGTACAATTTCTTCTCGCAT 59.134 43.478 0.00 0.00 0.00 4.73
720 881 3.057104 TCCTCGTACAATTTCTTCTCGCA 60.057 43.478 0.00 0.00 0.00 5.10
721 882 3.508762 TCCTCGTACAATTTCTTCTCGC 58.491 45.455 0.00 0.00 0.00 5.03
722 883 5.230306 GTCATCCTCGTACAATTTCTTCTCG 59.770 44.000 0.00 0.00 0.00 4.04
723 884 6.254589 CAGTCATCCTCGTACAATTTCTTCTC 59.745 42.308 0.00 0.00 0.00 2.87
724 885 6.071334 TCAGTCATCCTCGTACAATTTCTTCT 60.071 38.462 0.00 0.00 0.00 2.85
725 886 6.100004 TCAGTCATCCTCGTACAATTTCTTC 58.900 40.000 0.00 0.00 0.00 2.87
726 887 6.037786 TCAGTCATCCTCGTACAATTTCTT 57.962 37.500 0.00 0.00 0.00 2.52
727 888 5.661056 TCAGTCATCCTCGTACAATTTCT 57.339 39.130 0.00 0.00 0.00 2.52
728 889 6.910536 ATTCAGTCATCCTCGTACAATTTC 57.089 37.500 0.00 0.00 0.00 2.17
729 890 7.556844 ACTATTCAGTCATCCTCGTACAATTT 58.443 34.615 0.00 0.00 0.00 1.82
730 891 7.113658 ACTATTCAGTCATCCTCGTACAATT 57.886 36.000 0.00 0.00 0.00 2.32
731 892 6.716934 ACTATTCAGTCATCCTCGTACAAT 57.283 37.500 0.00 0.00 0.00 2.71
732 893 6.152154 TCAACTATTCAGTCATCCTCGTACAA 59.848 38.462 0.00 0.00 32.29 2.41
733 894 5.650703 TCAACTATTCAGTCATCCTCGTACA 59.349 40.000 0.00 0.00 32.29 2.90
734 895 6.132791 TCAACTATTCAGTCATCCTCGTAC 57.867 41.667 0.00 0.00 32.29 3.67
735 896 5.221067 GCTCAACTATTCAGTCATCCTCGTA 60.221 44.000 0.00 0.00 32.29 3.43
736 897 4.440802 GCTCAACTATTCAGTCATCCTCGT 60.441 45.833 0.00 0.00 32.29 4.18
737 898 4.047822 GCTCAACTATTCAGTCATCCTCG 58.952 47.826 0.00 0.00 32.29 4.63
738 899 4.808364 GTGCTCAACTATTCAGTCATCCTC 59.192 45.833 0.00 0.00 32.29 3.71
739 900 4.469227 AGTGCTCAACTATTCAGTCATCCT 59.531 41.667 0.00 0.00 37.36 3.24
740 901 4.764172 AGTGCTCAACTATTCAGTCATCC 58.236 43.478 0.00 0.00 37.36 3.51
741 902 5.293079 GGAAGTGCTCAACTATTCAGTCATC 59.707 44.000 0.00 0.00 38.56 2.92
742 903 5.181748 GGAAGTGCTCAACTATTCAGTCAT 58.818 41.667 0.00 0.00 38.56 3.06
743 904 4.563580 GGGAAGTGCTCAACTATTCAGTCA 60.564 45.833 0.00 0.00 38.56 3.41
744 905 3.935828 GGGAAGTGCTCAACTATTCAGTC 59.064 47.826 0.00 0.00 38.56 3.51
745 906 3.327757 TGGGAAGTGCTCAACTATTCAGT 59.672 43.478 0.00 0.00 38.56 3.41
746 907 3.942829 TGGGAAGTGCTCAACTATTCAG 58.057 45.455 0.00 0.00 38.56 3.02
747 908 4.574674 ATGGGAAGTGCTCAACTATTCA 57.425 40.909 0.00 0.00 38.56 2.57
748 909 5.904362 AAATGGGAAGTGCTCAACTATTC 57.096 39.130 0.00 0.00 38.56 1.75
749 910 6.494835 AGAAAAATGGGAAGTGCTCAACTATT 59.505 34.615 0.00 0.00 38.56 1.73
750 911 6.012745 AGAAAAATGGGAAGTGCTCAACTAT 58.987 36.000 0.00 0.00 38.56 2.12
751 912 5.241506 CAGAAAAATGGGAAGTGCTCAACTA 59.758 40.000 0.00 0.00 38.56 2.24
752 913 4.038402 CAGAAAAATGGGAAGTGCTCAACT 59.962 41.667 0.00 0.00 42.60 3.16
764 925 2.432444 TCGTGGTAGCAGAAAAATGGG 58.568 47.619 0.00 0.00 0.00 4.00
765 926 3.242413 CGATCGTGGTAGCAGAAAAATGG 60.242 47.826 7.03 0.00 0.00 3.16
766 927 3.242413 CCGATCGTGGTAGCAGAAAAATG 60.242 47.826 15.09 0.00 0.00 2.32
771 932 0.454600 GTCCGATCGTGGTAGCAGAA 59.545 55.000 15.09 0.00 0.00 3.02
799 965 4.501571 CGTCCGATCCCATCTAAATCAAGT 60.502 45.833 0.00 0.00 0.00 3.16
847 1013 2.997315 TCTGTCAGGCGGTCTGGG 60.997 66.667 10.12 1.12 43.53 4.45
850 1016 4.057428 GCGTCTGTCAGGCGGTCT 62.057 66.667 26.87 0.00 44.68 3.85
881 1047 1.699656 CTCGGACGCCATTTCTGCAG 61.700 60.000 7.63 7.63 0.00 4.41
882 1048 1.741401 CTCGGACGCCATTTCTGCA 60.741 57.895 0.00 0.00 0.00 4.41
894 1065 1.130186 GACTACAGTTCGGACTCGGAC 59.870 57.143 0.00 0.00 44.88 4.79
904 1078 7.594714 TGAAATCTCACTAGTGACTACAGTTC 58.405 38.462 21.74 17.93 35.46 3.01
915 1089 8.324306 TCTCCAAATCATTGAAATCTCACTAGT 58.676 33.333 0.00 0.00 38.94 2.57
917 1091 9.690913 AATCTCCAAATCATTGAAATCTCACTA 57.309 29.630 0.00 0.00 38.94 2.74
928 1102 6.147581 CCGCTAATCAATCTCCAAATCATTG 58.852 40.000 0.00 0.00 36.25 2.82
969 1143 9.762381 ATTAATTCCAGTTACTTACCAATCCAA 57.238 29.630 0.00 0.00 0.00 3.53
970 1144 9.403583 GATTAATTCCAGTTACTTACCAATCCA 57.596 33.333 0.00 0.00 0.00 3.41
978 1152 7.185318 TGGGTCGATTAATTCCAGTTACTTA 57.815 36.000 0.00 0.00 0.00 2.24
990 1164 8.609617 TCCTCTGATTATATGGGTCGATTAAT 57.390 34.615 0.00 0.00 0.00 1.40
992 1166 6.096987 GCTCCTCTGATTATATGGGTCGATTA 59.903 42.308 0.00 0.00 0.00 1.75
996 1170 3.766591 AGCTCCTCTGATTATATGGGTCG 59.233 47.826 0.00 0.00 0.00 4.79
999 1173 6.102663 CGTTTAGCTCCTCTGATTATATGGG 58.897 44.000 0.00 0.00 0.00 4.00
1308 1489 2.774234 AGAAATCGGAGTCCATCACCAT 59.226 45.455 10.49 0.00 0.00 3.55
1394 1581 3.961480 TGATCGTTGAAGTGACCATCT 57.039 42.857 0.00 0.00 0.00 2.90
1406 1593 0.802222 ACAGCGTCGGATGATCGTTG 60.802 55.000 0.33 1.35 40.46 4.10
1436 1635 2.716504 GTCATCATCATCTTCGTCGTCG 59.283 50.000 0.00 0.00 38.55 5.12
1439 1638 2.969957 CTCGTCATCATCATCTTCGTCG 59.030 50.000 0.00 0.00 0.00 5.12
1451 1683 3.253432 CCGAGTATTCATCCTCGTCATCA 59.747 47.826 8.08 0.00 46.91 3.07
1454 1686 2.357952 CACCGAGTATTCATCCTCGTCA 59.642 50.000 8.08 0.00 46.91 4.35
1456 1688 1.681793 CCACCGAGTATTCATCCTCGT 59.318 52.381 8.08 0.00 46.91 4.18
1521 2096 2.123033 GCTCCCCTCCTCCTCCTC 60.123 72.222 0.00 0.00 0.00 3.71
1522 2097 4.150454 CGCTCCCCTCCTCCTCCT 62.150 72.222 0.00 0.00 0.00 3.69
1523 2098 4.144727 TCGCTCCCCTCCTCCTCC 62.145 72.222 0.00 0.00 0.00 4.30
1524 2099 2.835895 GTCGCTCCCCTCCTCCTC 60.836 72.222 0.00 0.00 0.00 3.71
1525 2100 4.824515 CGTCGCTCCCCTCCTCCT 62.825 72.222 0.00 0.00 0.00 3.69
1594 2169 3.862124 GGTGCAGTGTCTGTAGCG 58.138 61.111 0.00 0.00 35.28 4.26
1717 2298 3.282745 TTGCTGTCGTCTCCGCCTC 62.283 63.158 0.00 0.00 0.00 4.70
1887 2471 2.104281 AGAAACCGGGGTATATCAGCAC 59.896 50.000 6.32 0.00 0.00 4.40
1937 2527 0.901124 GCTTCCTGCTCTCCTCAAGA 59.099 55.000 0.00 0.00 38.95 3.02
2009 2599 1.078759 CCAACACCTCGATGCGTCTC 61.079 60.000 4.05 0.00 0.00 3.36
2027 2617 4.309950 AGGTTGCCGACGTCCACC 62.310 66.667 10.58 10.98 0.00 4.61
2066 2656 2.893895 ATGTGCCTCATGCTCGCG 60.894 61.111 0.00 0.00 42.00 5.87
2188 2778 0.999228 GCTATCGTCATCGTCGGCTG 60.999 60.000 0.00 0.00 38.33 4.85
2412 3080 1.304381 GCTTGGGCTCCATGGACAA 60.304 57.895 11.44 12.96 31.53 3.18
2546 3243 4.278419 TCGAATGAATGCTATCCTCGAGAA 59.722 41.667 15.71 0.00 32.36 2.87
2550 3247 3.672397 CAGTCGAATGAATGCTATCCTCG 59.328 47.826 7.15 0.00 32.93 4.63
2730 3441 0.586802 CATCGCTAGGTGATCGACGA 59.413 55.000 0.00 0.00 34.92 4.20
2748 3459 3.800261 GCTCGCTCCAGTGCTTATAATCA 60.800 47.826 0.00 0.00 0.00 2.57
2751 3462 1.202533 GGCTCGCTCCAGTGCTTATAA 60.203 52.381 0.00 0.00 0.00 0.98
2754 3465 2.579201 GGCTCGCTCCAGTGCTTA 59.421 61.111 0.00 0.00 0.00 3.09
2806 3517 1.388837 AACAAGGTTTCGCCGGCTTT 61.389 50.000 26.68 6.12 43.70 3.51
2807 3518 1.826487 AACAAGGTTTCGCCGGCTT 60.826 52.632 26.68 7.84 43.70 4.35
2814 3525 2.869801 TGTCTACTGCAACAAGGTTTCG 59.130 45.455 0.00 0.00 0.00 3.46
2815 3526 4.497507 GGTTGTCTACTGCAACAAGGTTTC 60.498 45.833 1.95 0.00 45.64 2.78
2836 3547 4.353437 GCACGACGACTTCCCGGT 62.353 66.667 0.00 0.00 0.00 5.28
2861 3572 2.110213 GGTGCGTTGGTCCTGTGA 59.890 61.111 0.00 0.00 0.00 3.58
2904 3615 3.434984 GGATCCTTTCGATCTATGCTTGC 59.565 47.826 3.84 0.00 45.90 4.01
2905 3616 4.635223 TGGATCCTTTCGATCTATGCTTG 58.365 43.478 14.23 0.00 45.90 4.01
2918 3629 5.552178 GTGTCTCTACAGTTTGGATCCTTT 58.448 41.667 14.23 0.00 35.91 3.11
2982 3693 0.175989 TTTGGCCGGCGTTTTTCTTT 59.824 45.000 22.54 0.00 0.00 2.52
2996 3707 2.941720 GACAGATCTCACAGGATTTGGC 59.058 50.000 0.00 0.00 33.74 4.52
3077 3788 3.838244 TGGAATAAGATTCTCCCCACG 57.162 47.619 0.00 0.00 0.00 4.94
3124 3835 8.778059 TGTTAGGGTTTATGTCTATTCAGGAAT 58.222 33.333 0.00 0.00 34.93 3.01
3133 3844 9.280174 CTTGAGTTTTGTTAGGGTTTATGTCTA 57.720 33.333 0.00 0.00 0.00 2.59
3139 3851 8.804204 TGTTTTCTTGAGTTTTGTTAGGGTTTA 58.196 29.630 0.00 0.00 0.00 2.01
3192 3907 1.523711 ATTACATGGAGGCACGGCG 60.524 57.895 4.80 4.80 0.00 6.46
3221 3955 6.593770 GGAAGTGAACAAACACATTTTCCTTT 59.406 34.615 0.00 0.00 42.45 3.11
3242 3976 1.818674 GTAGGCACACAATTGGGGAAG 59.181 52.381 13.35 2.63 0.00 3.46
3247 3981 4.853924 AAAAGAGTAGGCACACAATTGG 57.146 40.909 10.83 1.35 0.00 3.16
3292 4029 5.127682 ACAACTTGAAGGAAGCAACTTTGAT 59.872 36.000 0.00 0.00 34.68 2.57
3323 4066 3.370104 ACAACAATGGTCACTGGGAAAA 58.630 40.909 0.00 0.00 0.00 2.29
3361 4104 7.050377 ACATGAAGATAATGTTGGTAGTGGAG 58.950 38.462 0.00 0.00 34.60 3.86
3363 4106 8.908786 ATACATGAAGATAATGTTGGTAGTGG 57.091 34.615 0.00 0.00 39.05 4.00
3368 4122 9.507329 GGTCATATACATGAAGATAATGTTGGT 57.493 33.333 0.00 0.00 42.79 3.67
3379 4133 7.456725 AGGATTTGGAGGTCATATACATGAAG 58.543 38.462 0.00 0.00 42.79 3.02
3385 4139 7.784470 ACTCTAGGATTTGGAGGTCATATAC 57.216 40.000 0.00 0.00 0.00 1.47
3394 4148 9.844257 AATGAAATCTTACTCTAGGATTTGGAG 57.156 33.333 8.18 0.00 42.32 3.86


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

AutoCloner maintained by Alex Coulton.