Multiple sequence alignment - TraesCS3D01G075400

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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 TraesCS3D01G075400 chr3D 100.000 3009 0 0 1663 4671 36362416 36359408 0.000000e+00 5557.0
1 TraesCS3D01G075400 chr3D 100.000 1297 0 0 1 1297 36364078 36362782 0.000000e+00 2396.0
2 TraesCS3D01G075400 chr3D 85.854 820 86 27 1 801 584342842 584342034 0.000000e+00 845.0
3 TraesCS3D01G075400 chr3A 94.397 3034 103 27 1663 4671 46872783 46869792 0.000000e+00 4599.0
4 TraesCS3D01G075400 chr3A 91.193 352 22 3 949 1297 46873221 46872876 1.970000e-128 470.0
5 TraesCS3D01G075400 chr3A 97.222 36 1 0 949 984 46873259 46873224 1.400000e-05 62.1
6 TraesCS3D01G075400 chr3B 94.705 2814 95 18 1663 4444 59069335 59066544 0.000000e+00 4322.0
7 TraesCS3D01G075400 chr3B 84.309 803 90 23 2598 3386 14237321 14236541 0.000000e+00 752.0
8 TraesCS3D01G075400 chr3B 85.096 624 73 13 2152 2762 59057263 59056647 1.850000e-173 619.0
9 TraesCS3D01G075400 chr3B 86.885 427 49 5 3362 3785 59044416 59043994 5.470000e-129 472.0
10 TraesCS3D01G075400 chr3B 91.667 336 20 5 967 1297 59069760 59069428 4.260000e-125 459.0
11 TraesCS3D01G075400 chr3B 84.507 355 46 6 4136 4489 59043405 59043059 4.480000e-90 342.0
12 TraesCS3D01G075400 chr3B 93.373 166 9 2 4507 4671 59066517 59066353 1.300000e-60 244.0
13 TraesCS3D01G075400 chr3B 87.135 171 13 5 3870 4038 59043964 59043801 7.980000e-43 185.0
14 TraesCS3D01G075400 chr5A 88.015 801 76 17 1 790 662003057 662003848 0.000000e+00 929.0
15 TraesCS3D01G075400 chr5A 86.211 805 86 20 1 790 312248738 312247944 0.000000e+00 848.0
16 TraesCS3D01G075400 chr7D 87.748 808 76 18 1 797 1604375 1605170 0.000000e+00 922.0
17 TraesCS3D01G075400 chr7D 86.842 798 85 16 1 790 1600068 1600853 0.000000e+00 874.0
18 TraesCS3D01G075400 chr7D 85.466 461 50 8 1664 2124 65639971 65639528 9.150000e-127 464.0
19 TraesCS3D01G075400 chr2D 87.698 821 62 20 3 790 489573896 489573082 0.000000e+00 920.0
20 TraesCS3D01G075400 chr2D 87.795 762 72 15 38 790 591978585 591977836 0.000000e+00 872.0
21 TraesCS3D01G075400 chr5D 87.282 802 75 24 7 790 498436752 498435960 0.000000e+00 891.0
22 TraesCS3D01G075400 chr5D 87.859 766 68 19 38 790 544788051 544788804 0.000000e+00 876.0
23 TraesCS3D01G075400 chr7B 84.769 801 78 25 2597 3386 89669307 89670074 0.000000e+00 763.0
24 TraesCS3D01G075400 chr4B 83.924 790 91 20 2619 3386 14188977 14188202 0.000000e+00 723.0
25 TraesCS3D01G075400 chr4B 86.258 473 40 11 2604 3065 109320678 109321136 1.510000e-134 490.0
26 TraesCS3D01G075400 chr4B 81.967 488 59 15 2875 3342 109321129 109321607 2.040000e-103 387.0
27 TraesCS3D01G075400 chr6B 82.353 799 98 31 2598 3386 663783551 663784316 0.000000e+00 654.0
28 TraesCS3D01G075400 chr4D 85.484 372 41 8 1664 2035 427884582 427884224 4.410000e-100 375.0
29 TraesCS3D01G075400 chr4D 86.127 173 17 3 2037 2209 427734725 427734560 3.710000e-41 180.0
30 TraesCS3D01G075400 chr2B 85.922 206 23 5 1 201 722027479 722027683 1.020000e-51 215.0
31 TraesCS3D01G075400 chr1A 91.262 103 7 2 2598 2699 465096010 465095909 6.300000e-29 139.0
32 TraesCS3D01G075400 chr7A 90.291 103 8 2 2598 2699 691621140 691621241 2.930000e-27 134.0


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 TraesCS3D01G075400 chr3D 36359408 36364078 4670 True 3976.500000 5557 100.000000 1 4671 2 chr3D.!!$R2 4670
1 TraesCS3D01G075400 chr3D 584342034 584342842 808 True 845.000000 845 85.854000 1 801 1 chr3D.!!$R1 800
2 TraesCS3D01G075400 chr3A 46869792 46873259 3467 True 1710.366667 4599 94.270667 949 4671 3 chr3A.!!$R1 3722
3 TraesCS3D01G075400 chr3B 59066353 59069760 3407 True 1675.000000 4322 93.248333 967 4671 3 chr3B.!!$R4 3704
4 TraesCS3D01G075400 chr3B 14236541 14237321 780 True 752.000000 752 84.309000 2598 3386 1 chr3B.!!$R1 788
5 TraesCS3D01G075400 chr3B 59056647 59057263 616 True 619.000000 619 85.096000 2152 2762 1 chr3B.!!$R2 610
6 TraesCS3D01G075400 chr3B 59043059 59044416 1357 True 333.000000 472 86.175667 3362 4489 3 chr3B.!!$R3 1127
7 TraesCS3D01G075400 chr5A 662003057 662003848 791 False 929.000000 929 88.015000 1 790 1 chr5A.!!$F1 789
8 TraesCS3D01G075400 chr5A 312247944 312248738 794 True 848.000000 848 86.211000 1 790 1 chr5A.!!$R1 789
9 TraesCS3D01G075400 chr7D 1600068 1605170 5102 False 898.000000 922 87.295000 1 797 2 chr7D.!!$F1 796
10 TraesCS3D01G075400 chr2D 489573082 489573896 814 True 920.000000 920 87.698000 3 790 1 chr2D.!!$R1 787
11 TraesCS3D01G075400 chr2D 591977836 591978585 749 True 872.000000 872 87.795000 38 790 1 chr2D.!!$R2 752
12 TraesCS3D01G075400 chr5D 498435960 498436752 792 True 891.000000 891 87.282000 7 790 1 chr5D.!!$R1 783
13 TraesCS3D01G075400 chr5D 544788051 544788804 753 False 876.000000 876 87.859000 38 790 1 chr5D.!!$F1 752
14 TraesCS3D01G075400 chr7B 89669307 89670074 767 False 763.000000 763 84.769000 2597 3386 1 chr7B.!!$F1 789
15 TraesCS3D01G075400 chr4B 14188202 14188977 775 True 723.000000 723 83.924000 2619 3386 1 chr4B.!!$R1 767
16 TraesCS3D01G075400 chr4B 109320678 109321607 929 False 438.500000 490 84.112500 2604 3342 2 chr4B.!!$F1 738
17 TraesCS3D01G075400 chr6B 663783551 663784316 765 False 654.000000 654 82.353000 2598 3386 1 chr6B.!!$F1 788

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
745 5074 0.249868 CACTTGTCGCAACCAGAGGA 60.250 55.0 0.00 0.00 0.0 3.71 F
1057 5389 0.039527 GTTTTCACCCACCATGCGTC 60.040 55.0 0.00 0.00 0.0 5.19 F
2292 6642 1.039233 GGGGCACATGGTTCCATCTG 61.039 60.0 0.86 2.25 0.0 2.90 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2164 6513 1.354506 CTGCCAATGCTTAGAGCGC 59.645 57.895 0.0 0.0 46.26 5.92 R
2451 6814 5.569355 TCACCACCATCATCACTAAACAAT 58.431 37.500 0.0 0.0 0.00 2.71 R
3863 8549 2.358267 GCTGCCATCATTTTCAGAGGAG 59.642 50.000 0.0 0.0 0.00 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
60 62 1.081376 CTTTCGCGAGAGTCACGGT 60.081 57.895 17.92 0.00 43.69 4.83
71 73 1.733399 GTCACGGTCGTGCCTCTTC 60.733 63.158 17.46 2.05 45.04 2.87
76 78 0.942410 CGGTCGTGCCTCTTCGAAAA 60.942 55.000 0.00 0.00 37.81 2.29
77 79 1.439679 GGTCGTGCCTCTTCGAAAAT 58.560 50.000 0.00 0.00 37.81 1.82
145 149 2.561885 CTTCCGCGAGAGTCACGT 59.438 61.111 8.23 0.00 0.00 4.49
156 160 2.143594 GAGTCACGTCCGTGCCTCTT 62.144 60.000 19.96 3.20 44.66 2.85
229 4549 4.742201 GCTTCCGCGAGAGGCACA 62.742 66.667 20.89 0.00 46.54 4.57
339 4662 2.359230 GCTTCCGCAAGAGGCACT 60.359 61.111 0.00 0.00 46.54 4.40
359 4682 2.609459 CTGTTGTGCTTTCACGAGAGTT 59.391 45.455 0.00 0.00 46.40 3.01
365 4688 1.669211 GCTTTCACGAGAGTTACGGCT 60.669 52.381 0.00 0.00 46.40 5.52
432 4755 2.372690 CCGCGAGAGTCACGGTTTG 61.373 63.158 8.23 0.00 42.01 2.93
433 4756 2.853914 GCGAGAGTCACGGTTTGC 59.146 61.111 11.95 0.00 0.00 3.68
447 4772 3.315142 TTTGCTCCGCGAGAGGCAT 62.315 57.895 21.05 0.00 43.46 4.40
449 4774 4.212913 GCTCCGCGAGAGGCATGA 62.213 66.667 21.05 2.55 43.46 3.07
490 4815 1.081442 GGCGTGCCTTTTTCGGAAG 60.081 57.895 2.98 0.00 0.00 3.46
574 4902 6.887545 TCGTTAAAACCTATCAACATGGGATT 59.112 34.615 7.35 0.00 34.16 3.01
643 4971 0.309612 GATTTGGACGCACGGTTTGT 59.690 50.000 0.00 0.00 0.00 2.83
706 5035 0.535102 AACTCCCAGGTTGCGACAAG 60.535 55.000 6.39 0.00 0.00 3.16
719 5048 3.527360 GACAAGTGGCGCACTGCAC 62.527 63.158 10.83 8.22 44.62 4.57
720 5049 4.671549 CAAGTGGCGCACTGCACG 62.672 66.667 10.83 0.00 44.62 5.34
731 5060 4.671549 CTGCACGTGCGCCACTTG 62.672 66.667 33.22 14.11 45.83 3.16
733 5062 4.666532 GCACGTGCGCCACTTGTC 62.667 66.667 26.77 0.00 36.27 3.18
734 5063 4.354212 CACGTGCGCCACTTGTCG 62.354 66.667 4.18 0.92 30.59 4.35
740 5069 3.276091 CGCCACTTGTCGCAACCA 61.276 61.111 0.00 0.00 0.00 3.67
741 5070 2.639286 GCCACTTGTCGCAACCAG 59.361 61.111 0.00 0.00 0.00 4.00
742 5071 1.891919 GCCACTTGTCGCAACCAGA 60.892 57.895 0.00 0.00 0.00 3.86
743 5072 1.845809 GCCACTTGTCGCAACCAGAG 61.846 60.000 0.00 0.00 0.00 3.35
744 5073 1.230635 CCACTTGTCGCAACCAGAGG 61.231 60.000 0.00 0.00 0.00 3.69
745 5074 0.249868 CACTTGTCGCAACCAGAGGA 60.250 55.000 0.00 0.00 0.00 3.71
746 5075 0.468226 ACTTGTCGCAACCAGAGGAA 59.532 50.000 0.00 0.00 0.00 3.36
747 5076 1.072331 ACTTGTCGCAACCAGAGGAAT 59.928 47.619 0.00 0.00 0.00 3.01
748 5077 2.154462 CTTGTCGCAACCAGAGGAATT 58.846 47.619 0.00 0.00 0.00 2.17
749 5078 1.522668 TGTCGCAACCAGAGGAATTG 58.477 50.000 0.00 0.00 0.00 2.32
750 5079 0.804989 GTCGCAACCAGAGGAATTGG 59.195 55.000 0.00 0.00 41.60 3.16
751 5080 0.690192 TCGCAACCAGAGGAATTGGA 59.310 50.000 0.00 0.00 39.08 3.53
752 5081 1.089920 CGCAACCAGAGGAATTGGAG 58.910 55.000 0.00 0.00 39.08 3.86
753 5082 1.611673 CGCAACCAGAGGAATTGGAGT 60.612 52.381 0.00 0.00 39.08 3.85
754 5083 1.815003 GCAACCAGAGGAATTGGAGTG 59.185 52.381 0.00 0.00 39.08 3.51
755 5084 2.553028 GCAACCAGAGGAATTGGAGTGA 60.553 50.000 0.00 0.00 39.08 3.41
756 5085 3.875369 GCAACCAGAGGAATTGGAGTGAT 60.875 47.826 0.00 0.00 39.08 3.06
757 5086 3.922171 ACCAGAGGAATTGGAGTGATC 57.078 47.619 0.00 0.00 39.08 2.92
758 5087 3.458831 ACCAGAGGAATTGGAGTGATCT 58.541 45.455 0.00 0.00 39.08 2.75
759 5088 3.848975 ACCAGAGGAATTGGAGTGATCTT 59.151 43.478 0.00 0.00 39.08 2.40
760 5089 4.290722 ACCAGAGGAATTGGAGTGATCTTT 59.709 41.667 0.00 0.00 39.08 2.52
761 5090 4.639310 CCAGAGGAATTGGAGTGATCTTTG 59.361 45.833 0.00 0.00 37.96 2.77
762 5091 4.096081 CAGAGGAATTGGAGTGATCTTTGC 59.904 45.833 0.00 0.00 0.00 3.68
763 5092 3.012518 AGGAATTGGAGTGATCTTTGCG 58.987 45.455 0.00 0.00 0.00 4.85
764 5093 3.009723 GGAATTGGAGTGATCTTTGCGA 58.990 45.455 0.00 0.00 0.00 5.10
765 5094 3.181506 GGAATTGGAGTGATCTTTGCGAC 60.182 47.826 0.00 0.00 0.00 5.19
766 5095 1.428448 TTGGAGTGATCTTTGCGACG 58.572 50.000 0.00 0.00 0.00 5.12
767 5096 0.601057 TGGAGTGATCTTTGCGACGA 59.399 50.000 0.00 0.00 0.00 4.20
768 5097 1.272781 GGAGTGATCTTTGCGACGAG 58.727 55.000 0.00 0.00 0.00 4.18
769 5098 1.402984 GGAGTGATCTTTGCGACGAGT 60.403 52.381 0.00 0.00 0.00 4.18
770 5099 2.159421 GGAGTGATCTTTGCGACGAGTA 60.159 50.000 0.00 0.00 0.00 2.59
771 5100 2.847133 GAGTGATCTTTGCGACGAGTAC 59.153 50.000 0.00 0.00 0.00 2.73
772 5101 2.488545 AGTGATCTTTGCGACGAGTACT 59.511 45.455 0.00 0.00 0.00 2.73
773 5102 2.847133 GTGATCTTTGCGACGAGTACTC 59.153 50.000 13.18 13.18 0.00 2.59
774 5103 2.159421 TGATCTTTGCGACGAGTACTCC 60.159 50.000 17.23 3.69 0.00 3.85
775 5104 1.531423 TCTTTGCGACGAGTACTCCT 58.469 50.000 17.23 5.65 0.00 3.69
776 5105 1.884579 TCTTTGCGACGAGTACTCCTT 59.115 47.619 17.23 4.29 0.00 3.36
777 5106 3.076621 TCTTTGCGACGAGTACTCCTTA 58.923 45.455 17.23 0.00 0.00 2.69
778 5107 3.503363 TCTTTGCGACGAGTACTCCTTAA 59.497 43.478 17.23 3.39 0.00 1.85
779 5108 4.157289 TCTTTGCGACGAGTACTCCTTAAT 59.843 41.667 17.23 0.00 0.00 1.40
780 5109 4.445452 TTGCGACGAGTACTCCTTAATT 57.555 40.909 17.23 0.00 0.00 1.40
781 5110 5.565592 TTGCGACGAGTACTCCTTAATTA 57.434 39.130 17.23 0.00 0.00 1.40
782 5111 5.565592 TGCGACGAGTACTCCTTAATTAA 57.434 39.130 17.23 0.00 0.00 1.40
783 5112 6.140303 TGCGACGAGTACTCCTTAATTAAT 57.860 37.500 17.23 0.00 0.00 1.40
784 5113 5.975344 TGCGACGAGTACTCCTTAATTAATG 59.025 40.000 17.23 1.71 0.00 1.90
785 5114 6.183360 TGCGACGAGTACTCCTTAATTAATGA 60.183 38.462 17.23 0.74 0.00 2.57
786 5115 6.862090 GCGACGAGTACTCCTTAATTAATGAT 59.138 38.462 17.23 0.00 0.00 2.45
787 5116 7.381678 GCGACGAGTACTCCTTAATTAATGATT 59.618 37.037 17.23 0.00 0.00 2.57
788 5117 9.245962 CGACGAGTACTCCTTAATTAATGATTT 57.754 33.333 17.23 0.00 0.00 2.17
807 5136 8.981724 ATGATTTCAACATTTGTCAGAGATTG 57.018 30.769 0.00 0.00 0.00 2.67
808 5137 8.168790 TGATTTCAACATTTGTCAGAGATTGA 57.831 30.769 0.00 0.00 0.00 2.57
809 5138 8.799367 TGATTTCAACATTTGTCAGAGATTGAT 58.201 29.630 0.00 0.00 38.29 2.57
810 5139 9.635520 GATTTCAACATTTGTCAGAGATTGATT 57.364 29.630 0.00 0.00 38.29 2.57
811 5140 9.991906 ATTTCAACATTTGTCAGAGATTGATTT 57.008 25.926 0.00 0.00 38.29 2.17
814 5143 9.506018 TCAACATTTGTCAGAGATTGATTTAGA 57.494 29.630 0.00 0.00 38.29 2.10
815 5144 9.552114 CAACATTTGTCAGAGATTGATTTAGAC 57.448 33.333 0.00 0.00 38.29 2.59
816 5145 8.273780 ACATTTGTCAGAGATTGATTTAGACC 57.726 34.615 0.00 0.00 38.29 3.85
817 5146 6.968131 TTTGTCAGAGATTGATTTAGACCG 57.032 37.500 0.00 0.00 38.29 4.79
818 5147 5.011090 TGTCAGAGATTGATTTAGACCGG 57.989 43.478 0.00 0.00 38.29 5.28
819 5148 4.141937 TGTCAGAGATTGATTTAGACCGGG 60.142 45.833 6.32 0.00 38.29 5.73
820 5149 4.099573 GTCAGAGATTGATTTAGACCGGGA 59.900 45.833 6.32 0.00 38.29 5.14
821 5150 4.901849 TCAGAGATTGATTTAGACCGGGAT 59.098 41.667 6.32 0.00 0.00 3.85
822 5151 5.366768 TCAGAGATTGATTTAGACCGGGATT 59.633 40.000 6.32 0.00 0.00 3.01
823 5152 5.468072 CAGAGATTGATTTAGACCGGGATTG 59.532 44.000 6.32 0.00 0.00 2.67
824 5153 4.137543 AGATTGATTTAGACCGGGATTGC 58.862 43.478 6.32 0.00 0.00 3.56
825 5154 3.358111 TTGATTTAGACCGGGATTGCA 57.642 42.857 6.32 0.00 0.00 4.08
826 5155 3.576078 TGATTTAGACCGGGATTGCAT 57.424 42.857 6.32 0.00 0.00 3.96
827 5156 4.698201 TGATTTAGACCGGGATTGCATA 57.302 40.909 6.32 0.00 0.00 3.14
828 5157 5.042463 TGATTTAGACCGGGATTGCATAA 57.958 39.130 6.32 0.00 0.00 1.90
829 5158 5.630121 TGATTTAGACCGGGATTGCATAAT 58.370 37.500 6.32 0.00 0.00 1.28
830 5159 6.068010 TGATTTAGACCGGGATTGCATAATT 58.932 36.000 6.32 0.00 0.00 1.40
831 5160 6.206634 TGATTTAGACCGGGATTGCATAATTC 59.793 38.462 6.32 1.44 0.00 2.17
832 5161 3.576078 AGACCGGGATTGCATAATTCA 57.424 42.857 6.32 0.00 0.00 2.57
833 5162 3.480470 AGACCGGGATTGCATAATTCAG 58.520 45.455 6.32 0.00 0.00 3.02
834 5163 3.136443 AGACCGGGATTGCATAATTCAGA 59.864 43.478 6.32 0.00 0.00 3.27
835 5164 3.480470 ACCGGGATTGCATAATTCAGAG 58.520 45.455 6.32 0.00 0.00 3.35
836 5165 3.117888 ACCGGGATTGCATAATTCAGAGT 60.118 43.478 6.32 0.00 0.00 3.24
837 5166 3.251729 CCGGGATTGCATAATTCAGAGTG 59.748 47.826 0.00 0.00 0.00 3.51
838 5167 3.304257 CGGGATTGCATAATTCAGAGTGC 60.304 47.826 0.00 0.00 38.05 4.40
839 5168 3.633525 GGGATTGCATAATTCAGAGTGCA 59.366 43.478 0.00 0.00 44.97 4.57
843 5172 4.541085 TGCATAATTCAGAGTGCAATCG 57.459 40.909 8.74 4.15 43.83 3.34
844 5173 4.190772 TGCATAATTCAGAGTGCAATCGA 58.809 39.130 8.74 6.56 43.83 3.59
845 5174 4.635324 TGCATAATTCAGAGTGCAATCGAA 59.365 37.500 18.46 18.46 43.83 3.71
846 5175 4.966366 GCATAATTCAGAGTGCAATCGAAC 59.034 41.667 18.51 6.92 37.52 3.95
847 5176 5.447683 GCATAATTCAGAGTGCAATCGAACA 60.448 40.000 18.51 12.38 37.52 3.18
848 5177 6.545508 CATAATTCAGAGTGCAATCGAACAA 58.454 36.000 18.51 12.36 0.00 2.83
849 5178 4.675190 ATTCAGAGTGCAATCGAACAAG 57.325 40.909 18.51 4.25 0.00 3.16
850 5179 2.416747 TCAGAGTGCAATCGAACAAGG 58.583 47.619 8.74 0.00 0.00 3.61
851 5180 2.037121 TCAGAGTGCAATCGAACAAGGA 59.963 45.455 8.74 0.00 0.00 3.36
852 5181 3.005554 CAGAGTGCAATCGAACAAGGAT 58.994 45.455 8.74 0.00 0.00 3.24
853 5182 3.438087 CAGAGTGCAATCGAACAAGGATT 59.562 43.478 8.74 0.00 34.56 3.01
854 5183 3.686726 AGAGTGCAATCGAACAAGGATTC 59.313 43.478 8.74 0.00 31.98 2.52
855 5184 2.749621 AGTGCAATCGAACAAGGATTCC 59.250 45.455 0.00 0.00 31.98 3.01
856 5185 1.737236 TGCAATCGAACAAGGATTCCG 59.263 47.619 0.00 0.00 31.98 4.30
857 5186 2.006888 GCAATCGAACAAGGATTCCGA 58.993 47.619 0.00 0.00 31.98 4.55
858 5187 2.030946 GCAATCGAACAAGGATTCCGAG 59.969 50.000 0.00 0.00 31.98 4.63
859 5188 3.262420 CAATCGAACAAGGATTCCGAGT 58.738 45.455 0.00 0.00 31.98 4.18
860 5189 3.611766 ATCGAACAAGGATTCCGAGTT 57.388 42.857 13.41 13.41 0.00 3.01
861 5190 2.683968 TCGAACAAGGATTCCGAGTTG 58.316 47.619 17.00 10.12 0.00 3.16
862 5191 2.297880 TCGAACAAGGATTCCGAGTTGA 59.702 45.455 17.00 12.56 0.00 3.18
863 5192 2.668457 CGAACAAGGATTCCGAGTTGAG 59.332 50.000 17.00 9.42 0.00 3.02
864 5193 2.770164 ACAAGGATTCCGAGTTGAGG 57.230 50.000 9.48 0.00 0.00 3.86
865 5194 1.279271 ACAAGGATTCCGAGTTGAGGG 59.721 52.381 9.48 0.00 0.00 4.30
866 5195 1.279271 CAAGGATTCCGAGTTGAGGGT 59.721 52.381 0.00 0.00 0.00 4.34
867 5196 1.657804 AGGATTCCGAGTTGAGGGTT 58.342 50.000 0.00 0.00 0.00 4.11
868 5197 1.555533 AGGATTCCGAGTTGAGGGTTC 59.444 52.381 0.00 0.00 0.00 3.62
869 5198 1.641577 GATTCCGAGTTGAGGGTTCG 58.358 55.000 0.00 0.00 0.00 3.95
870 5199 0.974383 ATTCCGAGTTGAGGGTTCGT 59.026 50.000 0.00 0.00 32.73 3.85
871 5200 0.754472 TTCCGAGTTGAGGGTTCGTT 59.246 50.000 0.00 0.00 32.73 3.85
872 5201 0.754472 TCCGAGTTGAGGGTTCGTTT 59.246 50.000 0.00 0.00 32.73 3.60
873 5202 1.145803 CCGAGTTGAGGGTTCGTTTC 58.854 55.000 0.00 0.00 32.73 2.78
874 5203 0.782384 CGAGTTGAGGGTTCGTTTCG 59.218 55.000 0.00 0.00 0.00 3.46
875 5204 1.145803 GAGTTGAGGGTTCGTTTCGG 58.854 55.000 0.00 0.00 0.00 4.30
876 5205 0.466963 AGTTGAGGGTTCGTTTCGGT 59.533 50.000 0.00 0.00 0.00 4.69
877 5206 0.863799 GTTGAGGGTTCGTTTCGGTC 59.136 55.000 0.00 0.00 0.00 4.79
878 5207 0.464870 TTGAGGGTTCGTTTCGGTCA 59.535 50.000 0.00 0.00 0.00 4.02
879 5208 0.464870 TGAGGGTTCGTTTCGGTCAA 59.535 50.000 0.00 0.00 0.00 3.18
880 5209 0.863799 GAGGGTTCGTTTCGGTCAAC 59.136 55.000 0.00 0.00 0.00 3.18
881 5210 0.533531 AGGGTTCGTTTCGGTCAACC 60.534 55.000 0.00 0.00 38.07 3.77
882 5211 0.533531 GGGTTCGTTTCGGTCAACCT 60.534 55.000 9.73 0.00 38.71 3.50
883 5212 0.863799 GGTTCGTTTCGGTCAACCTC 59.136 55.000 0.00 0.00 36.19 3.85
884 5213 1.539712 GGTTCGTTTCGGTCAACCTCT 60.540 52.381 0.00 0.00 36.19 3.69
885 5214 2.288395 GGTTCGTTTCGGTCAACCTCTA 60.288 50.000 0.00 0.00 36.19 2.43
886 5215 2.712057 TCGTTTCGGTCAACCTCTAC 57.288 50.000 0.00 0.00 0.00 2.59
887 5216 1.069022 TCGTTTCGGTCAACCTCTACG 60.069 52.381 9.24 9.24 34.26 3.51
888 5217 1.069022 CGTTTCGGTCAACCTCTACGA 60.069 52.381 9.70 0.00 34.60 3.43
889 5218 2.593257 GTTTCGGTCAACCTCTACGAG 58.407 52.381 0.00 0.00 34.85 4.18
890 5219 1.901591 TTCGGTCAACCTCTACGAGT 58.098 50.000 0.00 0.00 34.85 4.18
891 5220 1.901591 TCGGTCAACCTCTACGAGTT 58.098 50.000 0.00 0.00 0.00 3.01
892 5221 3.057969 TCGGTCAACCTCTACGAGTTA 57.942 47.619 0.00 0.00 0.00 2.24
893 5222 3.411446 TCGGTCAACCTCTACGAGTTAA 58.589 45.455 0.00 0.00 0.00 2.01
894 5223 3.820467 TCGGTCAACCTCTACGAGTTAAA 59.180 43.478 0.00 0.00 0.00 1.52
895 5224 4.083110 TCGGTCAACCTCTACGAGTTAAAG 60.083 45.833 0.00 0.00 0.00 1.85
896 5225 4.492611 GGTCAACCTCTACGAGTTAAAGG 58.507 47.826 0.00 0.00 0.00 3.11
897 5226 4.021632 GGTCAACCTCTACGAGTTAAAGGT 60.022 45.833 0.00 0.00 42.08 3.50
899 5228 5.987953 GTCAACCTCTACGAGTTAAAGGTTT 59.012 40.000 11.42 0.00 45.68 3.27
900 5229 7.147976 GTCAACCTCTACGAGTTAAAGGTTTA 58.852 38.462 11.42 4.80 45.68 2.01
901 5230 7.653311 GTCAACCTCTACGAGTTAAAGGTTTAA 59.347 37.037 11.42 0.00 45.68 1.52
902 5231 8.203485 TCAACCTCTACGAGTTAAAGGTTTAAA 58.797 33.333 11.42 0.00 45.68 1.52
903 5232 8.829612 CAACCTCTACGAGTTAAAGGTTTAAAA 58.170 33.333 11.42 0.00 45.68 1.52
904 5233 8.370493 ACCTCTACGAGTTAAAGGTTTAAAAC 57.630 34.615 0.00 0.00 37.01 2.43
905 5234 7.169813 ACCTCTACGAGTTAAAGGTTTAAAACG 59.830 37.037 14.80 14.80 37.01 3.60
906 5235 7.359514 CCTCTACGAGTTAAAGGTTTAAAACGG 60.360 40.741 17.93 8.35 37.54 4.44
907 5236 7.206687 TCTACGAGTTAAAGGTTTAAAACGGA 58.793 34.615 17.93 12.75 37.54 4.69
908 5237 6.866010 ACGAGTTAAAGGTTTAAAACGGAT 57.134 33.333 17.93 0.00 37.54 4.18
909 5238 6.891624 ACGAGTTAAAGGTTTAAAACGGATC 58.108 36.000 17.93 0.00 37.54 3.36
910 5239 6.707608 ACGAGTTAAAGGTTTAAAACGGATCT 59.292 34.615 17.93 0.00 37.54 2.75
911 5240 7.227314 ACGAGTTAAAGGTTTAAAACGGATCTT 59.773 33.333 17.93 0.00 37.54 2.40
912 5241 8.071967 CGAGTTAAAGGTTTAAAACGGATCTTT 58.928 33.333 0.00 0.00 34.71 2.52
913 5242 9.740239 GAGTTAAAGGTTTAAAACGGATCTTTT 57.260 29.630 0.00 0.00 34.71 2.27
914 5243 9.740239 AGTTAAAGGTTTAAAACGGATCTTTTC 57.260 29.630 0.00 0.00 34.71 2.29
915 5244 8.971321 GTTAAAGGTTTAAAACGGATCTTTTCC 58.029 33.333 0.00 0.00 36.49 3.13
924 5253 2.902065 GGATCTTTTCCGTCTGCAAC 57.098 50.000 0.00 0.00 33.93 4.17
933 5262 2.358737 GTCTGCAACGGGGTCCTG 60.359 66.667 0.00 0.00 0.00 3.86
934 5263 3.636231 TCTGCAACGGGGTCCTGG 61.636 66.667 0.48 0.00 0.00 4.45
982 5311 1.079681 GGATGCGTCCAACGGTACA 60.080 57.895 20.55 0.00 44.42 2.90
983 5312 0.671163 GGATGCGTCCAACGGTACAA 60.671 55.000 20.55 0.00 44.42 2.41
989 5318 1.067425 CGTCCAACGGTACAATCAGGA 60.067 52.381 0.00 0.00 38.08 3.86
1007 5336 5.788450 TCAGGAGAAGAAGAGAATGTGTTC 58.212 41.667 0.00 0.00 34.46 3.18
1057 5389 0.039527 GTTTTCACCCACCATGCGTC 60.040 55.000 0.00 0.00 0.00 5.19
1058 5390 1.175983 TTTTCACCCACCATGCGTCC 61.176 55.000 0.00 0.00 0.00 4.79
1059 5391 3.561120 TTCACCCACCATGCGTCCC 62.561 63.158 0.00 0.00 0.00 4.46
1755 6099 4.075793 TCCCCCTCCTCCTCCGTG 62.076 72.222 0.00 0.00 0.00 4.94
2125 6474 1.069765 AGTTCCTGCCTCGTGTGTG 59.930 57.895 0.00 0.00 0.00 3.82
2215 6565 3.259123 TGAATTCAGCACAGCTAGTCTGA 59.741 43.478 17.52 6.82 45.72 3.27
2249 6599 4.094590 GCCTCATTGTCTTGAGATGAACTG 59.905 45.833 3.10 0.00 44.88 3.16
2292 6642 1.039233 GGGGCACATGGTTCCATCTG 61.039 60.000 0.86 2.25 0.00 2.90
2360 6722 2.551459 GCATCCAGATATGTTCACCTGC 59.449 50.000 0.00 0.00 0.00 4.85
2444 6807 3.247173 CAGTAATTCAAGCGATGAGGAGC 59.753 47.826 0.00 0.00 39.77 4.70
2451 6814 3.636764 TCAAGCGATGAGGAGCTGTATTA 59.363 43.478 0.00 0.00 43.78 0.98
2491 6857 5.497474 GTGGTGATGGTATTGTCCTACTTT 58.503 41.667 0.00 0.00 0.00 2.66
3214 7877 9.180678 GCAATTTGTTATATTGTCGGGAAATAG 57.819 33.333 0.00 0.00 35.82 1.73
3318 7991 5.186996 ACAGCTTGTGTGGTATCAAAAAG 57.813 39.130 0.00 0.00 38.28 2.27
3387 8060 9.881649 GGATATGTTCTATATGATCTGAAAGCA 57.118 33.333 0.00 0.00 0.00 3.91
3431 8106 5.014202 ACCCTAACCATGTGGATTTTACAC 58.986 41.667 5.96 0.00 38.94 2.90
3680 8355 3.782632 CAGGCATGAGAGAGCATGT 57.217 52.632 0.00 0.00 45.70 3.21
3737 8412 2.170166 TGTCTTTTGGGACCATGATGC 58.830 47.619 0.00 0.00 35.54 3.91
3740 8415 1.753073 CTTTTGGGACCATGATGCTCC 59.247 52.381 0.00 0.00 0.00 4.70
4373 9362 6.756542 GCCCAATTTGAATTATGTTGGTCTAC 59.243 38.462 0.00 0.00 38.07 2.59
4481 9470 4.803426 CAGCCTGGAGACGACGGC 62.803 72.222 0.00 0.00 40.01 5.68
4513 9502 6.569994 GCTCGTCGAACAATAATACTAGGGAT 60.570 42.308 0.00 0.00 0.00 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
60 62 2.448926 TCATTTTCGAAGAGGCACGA 57.551 45.000 0.00 0.00 38.43 4.35
145 149 1.301401 CGTTTCCAAGAGGCACGGA 60.301 57.895 0.00 0.00 37.54 4.69
339 4662 2.309528 ACTCTCGTGAAAGCACAACA 57.690 45.000 0.00 0.00 45.41 3.33
365 4688 2.342279 CGTTTCCGAGGAGGCACA 59.658 61.111 0.00 0.00 40.77 4.57
391 4714 5.334646 GGAAGGAAAAATAAAGAGAACGCGT 60.335 40.000 5.58 5.58 0.00 6.01
392 4715 5.086727 GGAAGGAAAAATAAAGAGAACGCG 58.913 41.667 3.53 3.53 0.00 6.01
393 4716 5.086727 CGGAAGGAAAAATAAAGAGAACGC 58.913 41.667 0.00 0.00 0.00 4.84
394 4717 5.086727 GCGGAAGGAAAAATAAAGAGAACG 58.913 41.667 0.00 0.00 0.00 3.95
395 4718 5.086727 CGCGGAAGGAAAAATAAAGAGAAC 58.913 41.667 0.00 0.00 0.00 3.01
398 4721 4.630069 TCTCGCGGAAGGAAAAATAAAGAG 59.370 41.667 6.13 0.00 0.00 2.85
399 4722 4.571919 TCTCGCGGAAGGAAAAATAAAGA 58.428 39.130 6.13 0.00 0.00 2.52
400 4723 4.392138 ACTCTCGCGGAAGGAAAAATAAAG 59.608 41.667 6.13 0.00 0.00 1.85
401 4724 4.320870 ACTCTCGCGGAAGGAAAAATAAA 58.679 39.130 6.13 0.00 0.00 1.40
404 4727 2.289444 TGACTCTCGCGGAAGGAAAAAT 60.289 45.455 6.13 0.00 0.00 1.82
433 4756 1.068753 AATCATGCCTCTCGCGGAG 59.931 57.895 6.13 11.96 42.08 4.63
447 4772 3.002791 GCCTCTCACGAAATCACAATCA 58.997 45.455 0.00 0.00 0.00 2.57
449 4774 2.744202 GTGCCTCTCACGAAATCACAAT 59.256 45.455 0.00 0.00 35.76 2.71
574 4902 4.860352 TCGCGTCGAGATCTTCAAAAATAA 59.140 37.500 5.77 0.00 0.00 1.40
577 4905 2.668250 TCGCGTCGAGATCTTCAAAAA 58.332 42.857 5.77 0.00 0.00 1.94
618 4946 0.093026 CGTGCGTCCAAATCTCGAAC 59.907 55.000 0.00 0.00 0.00 3.95
621 4949 1.289109 AACCGTGCGTCCAAATCTCG 61.289 55.000 0.00 0.00 0.00 4.04
688 5017 1.071471 CTTGTCGCAACCTGGGAGT 59.929 57.895 0.00 0.00 40.09 3.85
724 5053 1.845809 CTCTGGTTGCGACAAGTGGC 61.846 60.000 8.41 0.00 34.76 5.01
725 5054 1.230635 CCTCTGGTTGCGACAAGTGG 61.231 60.000 14.01 14.01 34.93 4.00
726 5055 0.249868 TCCTCTGGTTGCGACAAGTG 60.250 55.000 8.41 5.99 0.00 3.16
727 5056 0.468226 TTCCTCTGGTTGCGACAAGT 59.532 50.000 8.41 0.00 0.00 3.16
728 5057 1.813513 ATTCCTCTGGTTGCGACAAG 58.186 50.000 6.39 3.92 0.00 3.16
729 5058 1.879380 CAATTCCTCTGGTTGCGACAA 59.121 47.619 6.39 0.00 0.00 3.18
730 5059 1.522668 CAATTCCTCTGGTTGCGACA 58.477 50.000 6.39 0.00 0.00 4.35
731 5060 0.804989 CCAATTCCTCTGGTTGCGAC 59.195 55.000 0.00 0.00 0.00 5.19
732 5061 0.690192 TCCAATTCCTCTGGTTGCGA 59.310 50.000 0.00 0.00 35.30 5.10
733 5062 1.089920 CTCCAATTCCTCTGGTTGCG 58.910 55.000 0.00 0.00 35.30 4.85
734 5063 1.815003 CACTCCAATTCCTCTGGTTGC 59.185 52.381 0.00 0.00 35.30 4.17
735 5064 3.423539 TCACTCCAATTCCTCTGGTTG 57.576 47.619 0.00 0.00 35.30 3.77
736 5065 3.848975 AGATCACTCCAATTCCTCTGGTT 59.151 43.478 0.00 0.00 35.30 3.67
737 5066 3.458831 AGATCACTCCAATTCCTCTGGT 58.541 45.455 0.00 0.00 35.30 4.00
738 5067 4.500499 AAGATCACTCCAATTCCTCTGG 57.500 45.455 0.00 0.00 35.05 3.86
739 5068 4.096081 GCAAAGATCACTCCAATTCCTCTG 59.904 45.833 0.00 0.00 0.00 3.35
740 5069 4.268359 GCAAAGATCACTCCAATTCCTCT 58.732 43.478 0.00 0.00 0.00 3.69
741 5070 3.064545 CGCAAAGATCACTCCAATTCCTC 59.935 47.826 0.00 0.00 0.00 3.71
742 5071 3.012518 CGCAAAGATCACTCCAATTCCT 58.987 45.455 0.00 0.00 0.00 3.36
743 5072 3.009723 TCGCAAAGATCACTCCAATTCC 58.990 45.455 0.00 0.00 0.00 3.01
744 5073 3.484229 CGTCGCAAAGATCACTCCAATTC 60.484 47.826 0.00 0.00 0.00 2.17
745 5074 2.416547 CGTCGCAAAGATCACTCCAATT 59.583 45.455 0.00 0.00 0.00 2.32
746 5075 2.002586 CGTCGCAAAGATCACTCCAAT 58.997 47.619 0.00 0.00 0.00 3.16
747 5076 1.000394 TCGTCGCAAAGATCACTCCAA 60.000 47.619 0.00 0.00 0.00 3.53
748 5077 0.601057 TCGTCGCAAAGATCACTCCA 59.399 50.000 0.00 0.00 0.00 3.86
749 5078 1.272781 CTCGTCGCAAAGATCACTCC 58.727 55.000 0.00 0.00 0.00 3.85
750 5079 1.983972 ACTCGTCGCAAAGATCACTC 58.016 50.000 0.00 0.00 0.00 3.51
751 5080 2.488545 AGTACTCGTCGCAAAGATCACT 59.511 45.455 0.00 0.00 0.00 3.41
752 5081 2.847133 GAGTACTCGTCGCAAAGATCAC 59.153 50.000 7.22 0.00 0.00 3.06
753 5082 2.159421 GGAGTACTCGTCGCAAAGATCA 60.159 50.000 16.56 0.00 0.00 2.92
754 5083 2.097791 AGGAGTACTCGTCGCAAAGATC 59.902 50.000 16.56 0.00 0.00 2.75
755 5084 2.093106 AGGAGTACTCGTCGCAAAGAT 58.907 47.619 16.56 0.00 0.00 2.40
756 5085 1.531423 AGGAGTACTCGTCGCAAAGA 58.469 50.000 16.56 0.00 0.00 2.52
757 5086 2.349297 AAGGAGTACTCGTCGCAAAG 57.651 50.000 17.87 0.00 0.00 2.77
758 5087 3.921119 TTAAGGAGTACTCGTCGCAAA 57.079 42.857 17.87 8.14 0.00 3.68
759 5088 4.445452 AATTAAGGAGTACTCGTCGCAA 57.555 40.909 17.87 12.50 0.00 4.85
760 5089 5.565592 TTAATTAAGGAGTACTCGTCGCA 57.434 39.130 17.87 6.22 0.00 5.10
761 5090 6.204359 TCATTAATTAAGGAGTACTCGTCGC 58.796 40.000 17.87 3.76 0.00 5.19
762 5091 8.798748 AATCATTAATTAAGGAGTACTCGTCG 57.201 34.615 17.87 0.00 28.93 5.12
781 5110 9.419297 CAATCTCTGACAAATGTTGAAATCATT 57.581 29.630 0.00 0.00 37.14 2.57
782 5111 8.799367 TCAATCTCTGACAAATGTTGAAATCAT 58.201 29.630 0.00 0.00 0.00 2.45
783 5112 8.168790 TCAATCTCTGACAAATGTTGAAATCA 57.831 30.769 0.00 0.00 0.00 2.57
784 5113 9.635520 AATCAATCTCTGACAAATGTTGAAATC 57.364 29.630 0.00 0.00 36.69 2.17
785 5114 9.991906 AAATCAATCTCTGACAAATGTTGAAAT 57.008 25.926 0.00 0.00 36.69 2.17
788 5117 9.506018 TCTAAATCAATCTCTGACAAATGTTGA 57.494 29.630 0.00 0.00 36.69 3.18
789 5118 9.552114 GTCTAAATCAATCTCTGACAAATGTTG 57.448 33.333 0.00 0.00 36.69 3.33
790 5119 8.734386 GGTCTAAATCAATCTCTGACAAATGTT 58.266 33.333 0.00 0.00 36.69 2.71
791 5120 7.065085 CGGTCTAAATCAATCTCTGACAAATGT 59.935 37.037 0.00 0.00 36.69 2.71
792 5121 7.404985 CGGTCTAAATCAATCTCTGACAAATG 58.595 38.462 0.00 0.00 36.69 2.32
793 5122 6.540189 CCGGTCTAAATCAATCTCTGACAAAT 59.460 38.462 0.00 0.00 36.69 2.32
794 5123 5.874810 CCGGTCTAAATCAATCTCTGACAAA 59.125 40.000 0.00 0.00 36.69 2.83
795 5124 5.419542 CCGGTCTAAATCAATCTCTGACAA 58.580 41.667 0.00 0.00 36.69 3.18
796 5125 4.141937 CCCGGTCTAAATCAATCTCTGACA 60.142 45.833 0.00 0.00 36.69 3.58
797 5126 4.099573 TCCCGGTCTAAATCAATCTCTGAC 59.900 45.833 0.00 0.00 36.69 3.51
798 5127 4.286707 TCCCGGTCTAAATCAATCTCTGA 58.713 43.478 0.00 0.00 38.81 3.27
799 5128 4.672587 TCCCGGTCTAAATCAATCTCTG 57.327 45.455 0.00 0.00 0.00 3.35
800 5129 5.615289 CAATCCCGGTCTAAATCAATCTCT 58.385 41.667 0.00 0.00 0.00 3.10
801 5130 4.214332 GCAATCCCGGTCTAAATCAATCTC 59.786 45.833 0.00 0.00 0.00 2.75
802 5131 4.137543 GCAATCCCGGTCTAAATCAATCT 58.862 43.478 0.00 0.00 0.00 2.40
803 5132 3.882888 TGCAATCCCGGTCTAAATCAATC 59.117 43.478 0.00 0.00 0.00 2.67
804 5133 3.897239 TGCAATCCCGGTCTAAATCAAT 58.103 40.909 0.00 0.00 0.00 2.57
805 5134 3.358111 TGCAATCCCGGTCTAAATCAA 57.642 42.857 0.00 0.00 0.00 2.57
806 5135 3.576078 ATGCAATCCCGGTCTAAATCA 57.424 42.857 0.00 0.00 0.00 2.57
807 5136 6.206634 TGAATTATGCAATCCCGGTCTAAATC 59.793 38.462 0.00 0.00 0.00 2.17
808 5137 6.068010 TGAATTATGCAATCCCGGTCTAAAT 58.932 36.000 0.00 0.00 0.00 1.40
809 5138 5.441500 TGAATTATGCAATCCCGGTCTAAA 58.558 37.500 0.00 0.00 0.00 1.85
810 5139 5.042463 TGAATTATGCAATCCCGGTCTAA 57.958 39.130 0.00 0.00 0.00 2.10
811 5140 4.346709 TCTGAATTATGCAATCCCGGTCTA 59.653 41.667 0.00 0.00 0.00 2.59
812 5141 3.136443 TCTGAATTATGCAATCCCGGTCT 59.864 43.478 0.00 0.00 0.00 3.85
813 5142 3.476552 TCTGAATTATGCAATCCCGGTC 58.523 45.455 0.00 0.00 0.00 4.79
814 5143 3.117888 ACTCTGAATTATGCAATCCCGGT 60.118 43.478 0.00 0.00 0.00 5.28
815 5144 3.251729 CACTCTGAATTATGCAATCCCGG 59.748 47.826 0.00 0.00 0.00 5.73
816 5145 3.304257 GCACTCTGAATTATGCAATCCCG 60.304 47.826 0.00 0.00 38.00 5.14
817 5146 3.633525 TGCACTCTGAATTATGCAATCCC 59.366 43.478 0.00 0.00 44.72 3.85
818 5147 4.906065 TGCACTCTGAATTATGCAATCC 57.094 40.909 0.00 0.00 44.72 3.01
822 5151 4.190772 TCGATTGCACTCTGAATTATGCA 58.809 39.130 2.32 0.00 45.94 3.96
823 5152 4.801147 TCGATTGCACTCTGAATTATGC 57.199 40.909 2.32 0.00 38.59 3.14
824 5153 6.110543 TGTTCGATTGCACTCTGAATTATG 57.889 37.500 12.00 0.00 0.00 1.90
825 5154 6.183360 CCTTGTTCGATTGCACTCTGAATTAT 60.183 38.462 12.00 0.00 0.00 1.28
826 5155 5.122239 CCTTGTTCGATTGCACTCTGAATTA 59.878 40.000 12.00 5.30 0.00 1.40
827 5156 4.083110 CCTTGTTCGATTGCACTCTGAATT 60.083 41.667 12.00 0.00 0.00 2.17
828 5157 3.438087 CCTTGTTCGATTGCACTCTGAAT 59.562 43.478 12.00 0.00 0.00 2.57
829 5158 2.807967 CCTTGTTCGATTGCACTCTGAA 59.192 45.455 2.32 5.14 0.00 3.02
830 5159 2.037121 TCCTTGTTCGATTGCACTCTGA 59.963 45.455 2.32 0.00 0.00 3.27
831 5160 2.416747 TCCTTGTTCGATTGCACTCTG 58.583 47.619 2.32 0.00 0.00 3.35
832 5161 2.839486 TCCTTGTTCGATTGCACTCT 57.161 45.000 2.32 0.00 0.00 3.24
833 5162 3.181506 GGAATCCTTGTTCGATTGCACTC 60.182 47.826 0.00 0.00 37.82 3.51
834 5163 2.749621 GGAATCCTTGTTCGATTGCACT 59.250 45.455 0.00 0.00 37.82 4.40
835 5164 2.476185 CGGAATCCTTGTTCGATTGCAC 60.476 50.000 0.00 0.00 37.78 4.57
836 5165 1.737236 CGGAATCCTTGTTCGATTGCA 59.263 47.619 0.00 0.00 37.78 4.08
837 5166 2.006888 TCGGAATCCTTGTTCGATTGC 58.993 47.619 0.00 0.00 35.42 3.56
838 5167 3.262420 ACTCGGAATCCTTGTTCGATTG 58.738 45.455 0.00 0.00 30.08 2.67
839 5168 3.611766 ACTCGGAATCCTTGTTCGATT 57.388 42.857 0.00 0.00 32.62 3.34
840 5169 3.056107 TCAACTCGGAATCCTTGTTCGAT 60.056 43.478 0.00 0.00 0.00 3.59
841 5170 2.297880 TCAACTCGGAATCCTTGTTCGA 59.702 45.455 0.00 1.26 0.00 3.71
842 5171 2.668457 CTCAACTCGGAATCCTTGTTCG 59.332 50.000 0.00 0.00 0.00 3.95
843 5172 3.003480 CCTCAACTCGGAATCCTTGTTC 58.997 50.000 0.00 0.00 0.00 3.18
844 5173 2.290323 CCCTCAACTCGGAATCCTTGTT 60.290 50.000 0.00 0.00 0.00 2.83
845 5174 1.279271 CCCTCAACTCGGAATCCTTGT 59.721 52.381 0.00 0.00 0.00 3.16
846 5175 1.279271 ACCCTCAACTCGGAATCCTTG 59.721 52.381 0.00 0.00 0.00 3.61
847 5176 1.657804 ACCCTCAACTCGGAATCCTT 58.342 50.000 0.00 0.00 0.00 3.36
848 5177 1.555533 GAACCCTCAACTCGGAATCCT 59.444 52.381 0.00 0.00 0.00 3.24
849 5178 1.739371 CGAACCCTCAACTCGGAATCC 60.739 57.143 0.00 0.00 0.00 3.01
850 5179 1.067071 ACGAACCCTCAACTCGGAATC 60.067 52.381 0.00 0.00 36.90 2.52
851 5180 0.974383 ACGAACCCTCAACTCGGAAT 59.026 50.000 0.00 0.00 36.90 3.01
852 5181 0.754472 AACGAACCCTCAACTCGGAA 59.246 50.000 0.00 0.00 36.90 4.30
853 5182 0.754472 AAACGAACCCTCAACTCGGA 59.246 50.000 0.00 0.00 36.90 4.55
854 5183 1.145803 GAAACGAACCCTCAACTCGG 58.854 55.000 0.00 0.00 36.90 4.63
855 5184 0.782384 CGAAACGAACCCTCAACTCG 59.218 55.000 0.00 0.00 38.53 4.18
856 5185 1.145803 CCGAAACGAACCCTCAACTC 58.854 55.000 0.00 0.00 0.00 3.01
857 5186 0.466963 ACCGAAACGAACCCTCAACT 59.533 50.000 0.00 0.00 0.00 3.16
858 5187 0.863799 GACCGAAACGAACCCTCAAC 59.136 55.000 0.00 0.00 0.00 3.18
859 5188 0.464870 TGACCGAAACGAACCCTCAA 59.535 50.000 0.00 0.00 0.00 3.02
860 5189 0.464870 TTGACCGAAACGAACCCTCA 59.535 50.000 0.00 0.00 0.00 3.86
861 5190 0.863799 GTTGACCGAAACGAACCCTC 59.136 55.000 0.00 0.00 0.00 4.30
862 5191 0.533531 GGTTGACCGAAACGAACCCT 60.534 55.000 0.00 0.00 33.11 4.34
863 5192 0.533531 AGGTTGACCGAAACGAACCC 60.534 55.000 0.00 0.00 38.98 4.11
864 5193 0.863799 GAGGTTGACCGAAACGAACC 59.136 55.000 0.00 0.00 42.08 3.62
865 5194 1.861971 AGAGGTTGACCGAAACGAAC 58.138 50.000 0.00 0.00 42.08 3.95
866 5195 2.605338 CGTAGAGGTTGACCGAAACGAA 60.605 50.000 14.69 0.00 39.57 3.85
867 5196 1.069022 CGTAGAGGTTGACCGAAACGA 60.069 52.381 14.69 0.00 39.57 3.85
868 5197 1.069022 TCGTAGAGGTTGACCGAAACG 60.069 52.381 14.05 14.05 42.08 3.60
869 5198 2.712057 TCGTAGAGGTTGACCGAAAC 57.288 50.000 0.00 0.00 42.08 2.78
882 5211 7.206687 TCCGTTTTAAACCTTTAACTCGTAGA 58.793 34.615 1.97 3.18 32.77 2.59
883 5212 7.406799 TCCGTTTTAAACCTTTAACTCGTAG 57.593 36.000 1.97 0.00 32.77 3.51
884 5213 7.872483 AGATCCGTTTTAAACCTTTAACTCGTA 59.128 33.333 1.97 0.58 32.77 3.43
885 5214 6.707608 AGATCCGTTTTAAACCTTTAACTCGT 59.292 34.615 1.97 0.00 32.77 4.18
886 5215 7.125536 AGATCCGTTTTAAACCTTTAACTCG 57.874 36.000 1.97 0.10 32.77 4.18
887 5216 9.740239 AAAAGATCCGTTTTAAACCTTTAACTC 57.260 29.630 1.97 0.00 32.77 3.01
888 5217 9.740239 GAAAAGATCCGTTTTAAACCTTTAACT 57.260 29.630 1.97 0.00 32.77 2.24
889 5218 8.971321 GGAAAAGATCCGTTTTAAACCTTTAAC 58.029 33.333 1.97 4.80 38.79 2.01
905 5234 2.902065 GTTGCAGACGGAAAAGATCC 57.098 50.000 0.00 0.00 45.57 3.36
916 5245 2.358737 CAGGACCCCGTTGCAGAC 60.359 66.667 0.00 0.00 0.00 3.51
917 5246 3.636231 CCAGGACCCCGTTGCAGA 61.636 66.667 0.00 0.00 0.00 4.26
949 5278 3.989698 ATCCTGTTGCTCGACGCGG 62.990 63.158 12.47 0.00 43.27 6.46
950 5279 2.507102 ATCCTGTTGCTCGACGCG 60.507 61.111 3.53 3.53 43.27 6.01
951 5280 3.084579 CATCCTGTTGCTCGACGC 58.915 61.111 0.00 0.58 39.77 5.19
952 5281 2.792290 CGCATCCTGTTGCTCGACG 61.792 63.158 0.00 0.00 40.54 5.12
982 5311 6.371595 ACACATTCTCTTCTTCTCCTGATT 57.628 37.500 0.00 0.00 0.00 2.57
983 5312 6.213195 AGAACACATTCTCTTCTTCTCCTGAT 59.787 38.462 0.00 0.00 41.63 2.90
1186 5524 1.262640 GGCTTGGGGGTCTCTACGAA 61.263 60.000 0.00 0.00 0.00 3.85
1187 5525 1.684734 GGCTTGGGGGTCTCTACGA 60.685 63.158 0.00 0.00 0.00 3.43
1194 5532 4.097361 GTCTCGGGCTTGGGGGTC 62.097 72.222 0.00 0.00 0.00 4.46
1738 6076 4.075793 CACGGAGGAGGAGGGGGA 62.076 72.222 0.00 0.00 0.00 4.81
2057 6401 4.459089 GCTCCTGCTCCGACACCC 62.459 72.222 0.00 0.00 36.03 4.61
2164 6513 1.354506 CTGCCAATGCTTAGAGCGC 59.645 57.895 0.00 0.00 46.26 5.92
2215 6565 6.265196 TCAAGACAATGAGGCTACAACAAAAT 59.735 34.615 0.00 0.00 30.53 1.82
2292 6642 7.321745 ACCTATAACTGAATTAACAGCAAGC 57.678 36.000 0.00 0.00 41.06 4.01
2360 6722 6.074356 GGATTTTCATTTCTCAACAAACACGG 60.074 38.462 0.00 0.00 0.00 4.94
2451 6814 5.569355 TCACCACCATCATCACTAAACAAT 58.431 37.500 0.00 0.00 0.00 2.71
3188 7809 9.180678 CTATTTCCCGACAATATAACAAATTGC 57.819 33.333 0.00 0.00 37.77 3.56
3318 7991 6.151144 ACTGCATCCTTAAGGTTCAAATGTAC 59.849 38.462 21.04 6.20 36.34 2.90
3431 8106 6.201517 GCAACATATATTGTGTAGCAACCTG 58.798 40.000 0.00 0.00 40.28 4.00
3432 8107 5.299279 GGCAACATATATTGTGTAGCAACCT 59.701 40.000 0.00 0.00 40.28 3.50
3737 8412 6.925165 ACACAATGCAAAAATTAGTGAAGGAG 59.075 34.615 0.00 0.00 0.00 3.69
3863 8549 2.358267 GCTGCCATCATTTTCAGAGGAG 59.642 50.000 0.00 0.00 0.00 3.69
4221 9207 9.184523 AGATATCTCTCCCATTATCTAAGAACG 57.815 37.037 0.00 0.00 31.35 3.95
4373 9362 0.035056 AATCGTTGCTTGGGAGAGGG 60.035 55.000 0.00 0.00 0.00 4.30
4481 9470 2.504244 GTTCGACGAGCTCCCACG 60.504 66.667 8.47 11.42 0.00 4.94


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

AutoCloner maintained by Alex Coulton.