Multiple sequence alignment - TraesCS7D01G318900

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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 TraesCS7D01G318900 chr7D 100.000 4905 0 0 1 4905 407717278 407712374 0.000000e+00 9058
1 TraesCS7D01G318900 chr7B 96.663 1738 45 8 742 2473 418859887 418858157 0.000000e+00 2876
2 TraesCS7D01G318900 chr7B 92.147 1579 97 18 2474 4032 418858124 418856553 0.000000e+00 2204
3 TraesCS7D01G318900 chr7B 98.764 647 8 0 4 650 418860530 418859884 0.000000e+00 1151
4 TraesCS7D01G318900 chr7B 94.118 476 21 3 4021 4491 418856488 418856015 0.000000e+00 717
5 TraesCS7D01G318900 chr7B 85.714 336 33 12 4574 4905 418854932 418854608 1.690000e-89 340
6 TraesCS7D01G318900 chr7B 100.000 99 0 0 647 745 159510700 159510602 3.020000e-42 183
7 TraesCS7D01G318900 chr7B 96.364 110 2 2 640 748 413721645 413721537 3.900000e-41 180
8 TraesCS7D01G318900 chr7A 90.570 1877 111 32 2469 4310 466204423 466202578 0.000000e+00 2425
9 TraesCS7D01G318900 chr7A 96.038 959 28 4 1518 2473 466205403 466204452 0.000000e+00 1552
10 TraesCS7D01G318900 chr7A 94.228 641 27 3 4 635 466207994 466207355 0.000000e+00 970
11 TraesCS7D01G318900 chr7A 95.785 261 5 2 968 1228 466207208 466206954 2.730000e-112 416
12 TraesCS7D01G318900 chr7A 88.449 303 12 3 1231 1532 466205698 466205418 1.310000e-90 344
13 TraesCS7D01G318900 chr7A 89.051 137 12 3 742 876 466207338 466207203 3.040000e-37 167
14 TraesCS7D01G318900 chr5B 100.000 99 0 0 647 745 223038242 223038340 3.020000e-42 183
15 TraesCS7D01G318900 chr2D 100.000 99 0 0 647 745 107204178 107204080 3.020000e-42 183
16 TraesCS7D01G318900 chr5A 99.010 101 1 0 648 748 386180118 386180218 1.080000e-41 182
17 TraesCS7D01G318900 chr3D 97.222 108 1 2 640 746 19269709 19269815 1.080000e-41 182
18 TraesCS7D01G318900 chr1A 98.077 104 2 0 649 752 202096704 202096807 1.080000e-41 182
19 TraesCS7D01G318900 chr1D 97.143 105 3 0 648 752 174151271 174151167 1.400000e-40 178
20 TraesCS7D01G318900 chr3A 92.683 123 8 1 624 745 64055629 64055751 5.050000e-40 176


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 TraesCS7D01G318900 chr7D 407712374 407717278 4904 True 9058.0 9058 100.0000 1 4905 1 chr7D.!!$R1 4904
1 TraesCS7D01G318900 chr7B 418854608 418860530 5922 True 1457.6 2876 93.4812 4 4905 5 chr7B.!!$R3 4901
2 TraesCS7D01G318900 chr7A 466202578 466207994 5416 True 979.0 2425 92.3535 4 4310 6 chr7A.!!$R1 4306

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
659 674 0.113776 TTGGTCAGTACTCCCTCCGT 59.886 55.000 9.06 0.0 0.00 4.69 F
660 675 0.113776 TGGTCAGTACTCCCTCCGTT 59.886 55.000 9.06 0.0 0.00 4.44 F
663 678 0.406750 TCAGTACTCCCTCCGTTCCA 59.593 55.000 0.00 0.0 0.00 3.53 F
664 679 1.203087 TCAGTACTCCCTCCGTTCCAA 60.203 52.381 0.00 0.0 0.00 3.53 F
1215 1232 1.234821 ACCACTTGTGCGGTAACATG 58.765 50.000 0.00 0.0 32.31 3.21 F
2848 4222 1.227943 GCTGGCTTGTCTGTCACCA 60.228 57.895 0.00 0.0 0.00 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1765 3066 1.885871 GGGAGCAATGCCTGTTCAC 59.114 57.895 0.00 0.00 37.01 3.18 R
2280 3583 2.046892 CTCCAAGGGTGCACTCCG 60.047 66.667 14.62 4.73 0.00 4.63 R
2443 3746 4.617959 TCAGAACTGTACTTCGTTTCAGG 58.382 43.478 1.73 0.00 32.92 3.86 R
2524 3892 6.373005 TGTTCTGGTGAGATCAAAATAGGA 57.627 37.500 0.00 0.00 0.00 2.94 R
3082 4456 0.391130 CAATCTTTCTCCCGACGGCA 60.391 55.000 8.86 0.00 0.00 5.69 R
4555 6053 0.179468 TAGGAATTGGTGCGGGCTAC 59.821 55.000 0.00 0.00 0.00 3.58 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
72 73 2.493278 CAAAGGGCAGTTATTCCAGTGG 59.507 50.000 1.40 1.40 0.00 4.00
113 114 8.483758 TGGTTTTTAGATAGGACAAGATACTCC 58.516 37.037 0.00 0.00 0.00 3.85
273 274 8.258708 AGTAACATCCTTGTTAAGAGATGTACC 58.741 37.037 17.75 13.63 46.91 3.34
612 622 8.260270 ACTTGTCGGGTTTAATAAACAGATAC 57.740 34.615 16.55 9.56 43.15 2.24
650 665 9.915629 AAATCGAGATATATCTTTGGTCAGTAC 57.084 33.333 16.37 0.00 37.25 2.73
651 666 8.871629 ATCGAGATATATCTTTGGTCAGTACT 57.128 34.615 16.37 0.00 37.25 2.73
652 667 8.325421 TCGAGATATATCTTTGGTCAGTACTC 57.675 38.462 16.37 0.00 37.25 2.59
653 668 7.390996 TCGAGATATATCTTTGGTCAGTACTCC 59.609 40.741 16.37 0.00 37.25 3.85
654 669 7.362229 CGAGATATATCTTTGGTCAGTACTCCC 60.362 44.444 16.37 0.00 37.25 4.30
655 670 7.540183 AGATATATCTTTGGTCAGTACTCCCT 58.460 38.462 9.57 0.00 31.97 4.20
656 671 7.672239 AGATATATCTTTGGTCAGTACTCCCTC 59.328 40.741 9.57 0.00 31.97 4.30
657 672 2.537143 TCTTTGGTCAGTACTCCCTCC 58.463 52.381 9.06 3.30 0.00 4.30
658 673 1.204941 CTTTGGTCAGTACTCCCTCCG 59.795 57.143 9.06 0.00 0.00 4.63
659 674 0.113776 TTGGTCAGTACTCCCTCCGT 59.886 55.000 9.06 0.00 0.00 4.69
660 675 0.113776 TGGTCAGTACTCCCTCCGTT 59.886 55.000 9.06 0.00 0.00 4.44
661 676 0.816373 GGTCAGTACTCCCTCCGTTC 59.184 60.000 0.00 0.00 0.00 3.95
662 677 0.816373 GTCAGTACTCCCTCCGTTCC 59.184 60.000 0.00 0.00 0.00 3.62
663 678 0.406750 TCAGTACTCCCTCCGTTCCA 59.593 55.000 0.00 0.00 0.00 3.53
664 679 1.203087 TCAGTACTCCCTCCGTTCCAA 60.203 52.381 0.00 0.00 0.00 3.53
665 680 1.621814 CAGTACTCCCTCCGTTCCAAA 59.378 52.381 0.00 0.00 0.00 3.28
666 681 2.038033 CAGTACTCCCTCCGTTCCAAAA 59.962 50.000 0.00 0.00 0.00 2.44
667 682 2.910977 AGTACTCCCTCCGTTCCAAAAT 59.089 45.455 0.00 0.00 0.00 1.82
668 683 4.081309 CAGTACTCCCTCCGTTCCAAAATA 60.081 45.833 0.00 0.00 0.00 1.40
669 684 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
670 685 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
671 686 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
672 687 4.130118 CTCCCTCCGTTCCAAAATAGATG 58.870 47.826 0.00 0.00 0.00 2.90
673 688 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
674 689 3.877508 CCCTCCGTTCCAAAATAGATGAC 59.122 47.826 0.00 0.00 0.00 3.06
675 690 3.877508 CCTCCGTTCCAAAATAGATGACC 59.122 47.826 0.00 0.00 0.00 4.02
676 691 3.877508 CTCCGTTCCAAAATAGATGACCC 59.122 47.826 0.00 0.00 0.00 4.46
677 692 3.264706 TCCGTTCCAAAATAGATGACCCA 59.735 43.478 0.00 0.00 0.00 4.51
678 693 4.013728 CCGTTCCAAAATAGATGACCCAA 58.986 43.478 0.00 0.00 0.00 4.12
679 694 4.142469 CCGTTCCAAAATAGATGACCCAAC 60.142 45.833 0.00 0.00 0.00 3.77
680 695 4.700213 CGTTCCAAAATAGATGACCCAACT 59.300 41.667 0.00 0.00 0.00 3.16
681 696 5.183140 CGTTCCAAAATAGATGACCCAACTT 59.817 40.000 0.00 0.00 0.00 2.66
682 697 6.294508 CGTTCCAAAATAGATGACCCAACTTT 60.295 38.462 0.00 0.00 0.00 2.66
683 698 6.588719 TCCAAAATAGATGACCCAACTTTG 57.411 37.500 0.00 0.00 0.00 2.77
684 699 6.074648 TCCAAAATAGATGACCCAACTTTGT 58.925 36.000 0.00 0.00 0.00 2.83
685 700 7.235079 TCCAAAATAGATGACCCAACTTTGTA 58.765 34.615 0.00 0.00 0.00 2.41
686 701 7.175990 TCCAAAATAGATGACCCAACTTTGTAC 59.824 37.037 0.00 0.00 0.00 2.90
687 702 7.176690 CCAAAATAGATGACCCAACTTTGTACT 59.823 37.037 0.00 0.00 0.00 2.73
688 703 9.226606 CAAAATAGATGACCCAACTTTGTACTA 57.773 33.333 0.00 0.00 0.00 1.82
689 704 9.802039 AAAATAGATGACCCAACTTTGTACTAA 57.198 29.630 0.00 0.00 0.00 2.24
690 705 8.788325 AATAGATGACCCAACTTTGTACTAAC 57.212 34.615 0.00 0.00 0.00 2.34
691 706 6.435292 AGATGACCCAACTTTGTACTAACT 57.565 37.500 0.00 0.00 0.00 2.24
692 707 6.838382 AGATGACCCAACTTTGTACTAACTT 58.162 36.000 0.00 0.00 0.00 2.66
693 708 7.287810 AGATGACCCAACTTTGTACTAACTTT 58.712 34.615 0.00 0.00 0.00 2.66
694 709 6.687081 TGACCCAACTTTGTACTAACTTTG 57.313 37.500 0.00 0.00 0.00 2.77
695 710 6.181908 TGACCCAACTTTGTACTAACTTTGT 58.818 36.000 0.00 0.00 0.00 2.83
696 711 7.337167 TGACCCAACTTTGTACTAACTTTGTA 58.663 34.615 0.00 0.00 0.00 2.41
697 712 7.280652 TGACCCAACTTTGTACTAACTTTGTAC 59.719 37.037 6.58 6.58 40.27 2.90
698 713 7.341030 ACCCAACTTTGTACTAACTTTGTACT 58.659 34.615 12.73 0.00 40.44 2.73
699 714 8.485392 ACCCAACTTTGTACTAACTTTGTACTA 58.515 33.333 12.73 4.86 40.44 1.82
700 715 9.328845 CCCAACTTTGTACTAACTTTGTACTAA 57.671 33.333 12.73 10.75 40.44 2.24
731 746 9.003658 AGTACAAAGTTGAGTCATCTATTTTGG 57.996 33.333 14.35 0.00 40.00 3.28
732 747 8.999431 GTACAAAGTTGAGTCATCTATTTTGGA 58.001 33.333 14.35 6.88 40.00 3.53
733 748 8.463930 ACAAAGTTGAGTCATCTATTTTGGAA 57.536 30.769 14.35 0.00 40.00 3.53
734 749 8.352942 ACAAAGTTGAGTCATCTATTTTGGAAC 58.647 33.333 14.35 0.00 40.00 3.62
735 750 6.727824 AGTTGAGTCATCTATTTTGGAACG 57.272 37.500 1.70 0.00 0.00 3.95
736 751 5.643777 AGTTGAGTCATCTATTTTGGAACGG 59.356 40.000 1.70 0.00 0.00 4.44
737 752 5.414789 TGAGTCATCTATTTTGGAACGGA 57.585 39.130 0.00 0.00 0.00 4.69
738 753 5.419542 TGAGTCATCTATTTTGGAACGGAG 58.580 41.667 0.00 0.00 0.00 4.63
739 754 4.770795 AGTCATCTATTTTGGAACGGAGG 58.229 43.478 0.00 0.00 0.00 4.30
740 755 3.877508 GTCATCTATTTTGGAACGGAGGG 59.122 47.826 0.00 0.00 0.00 4.30
751 766 4.870636 TGGAACGGAGGGAGTAAGTAATA 58.129 43.478 0.00 0.00 0.00 0.98
753 768 4.038522 GGAACGGAGGGAGTAAGTAATACC 59.961 50.000 0.00 0.00 34.89 2.73
1215 1232 1.234821 ACCACTTGTGCGGTAACATG 58.765 50.000 0.00 0.00 32.31 3.21
1278 2548 8.455903 TCCATCTAATTTGAAGGCTTATTCTG 57.544 34.615 0.00 0.00 0.00 3.02
1732 3032 5.366477 TCAGTGAATAGCCCAGATACATCAA 59.634 40.000 0.00 0.00 0.00 2.57
1765 3066 9.974980 ACTTTTTACTCTACTTTCTCTCTTCAG 57.025 33.333 0.00 0.00 0.00 3.02
2280 3583 1.279271 ACTACTCCATGGCTTGGTGTC 59.721 52.381 24.79 0.00 46.79 3.67
2399 3702 9.005777 TGGTTATCAGTTACCACAAACTAATTC 57.994 33.333 0.00 0.00 39.44 2.17
2443 3746 9.056005 TGTCATGAAAATAAGATGGTATGTAGC 57.944 33.333 0.00 0.00 0.00 3.58
2599 3967 4.394920 TCAACGGAACATAGAGAATTTGCC 59.605 41.667 0.00 0.00 0.00 4.52
2601 3969 5.353394 ACGGAACATAGAGAATTTGCCTA 57.647 39.130 0.00 0.00 0.00 3.93
2612 3981 7.870426 AGAGAATTTGCCTATAAGAGAGGAT 57.130 36.000 0.00 0.00 35.99 3.24
2618 3987 5.683876 TGCCTATAAGAGAGGATAATGCC 57.316 43.478 0.00 0.00 35.99 4.40
2701 4072 5.185828 CCCTCCCCAAAGAAAAGAAACATAG 59.814 44.000 0.00 0.00 0.00 2.23
2703 4074 4.217550 TCCCCAAAGAAAAGAAACATAGCG 59.782 41.667 0.00 0.00 0.00 4.26
2713 4084 6.595772 AAAGAAACATAGCGAGCTAGAATG 57.404 37.500 10.71 7.70 31.45 2.67
2764 4137 7.880195 ACTAGCATGTCTCAAGTTTATGTCTTT 59.120 33.333 0.00 0.00 0.00 2.52
2848 4222 1.227943 GCTGGCTTGTCTGTCACCA 60.228 57.895 0.00 0.00 0.00 4.17
2857 4231 2.259917 TGTCTGTCACCATCTCACCAT 58.740 47.619 0.00 0.00 0.00 3.55
2866 4240 1.667724 CCATCTCACCATGTTTCGCTC 59.332 52.381 0.00 0.00 0.00 5.03
3037 4411 7.404671 AAACATAAACACTGGAGTTTCAGTT 57.595 32.000 4.18 7.53 44.74 3.16
3044 4418 3.812053 CACTGGAGTTTCAGTTCAAGAGG 59.188 47.826 0.00 0.00 44.74 3.69
3088 4462 4.857251 CTGGAAGGGTATGCCGTC 57.143 61.111 0.00 0.00 34.97 4.79
3109 4483 3.003480 CGGGAGAAAGATTGACCTGAAC 58.997 50.000 0.00 0.00 0.00 3.18
3116 4490 1.070758 AGATTGACCTGAACGCACACT 59.929 47.619 0.00 0.00 0.00 3.55
3118 4492 0.107897 TTGACCTGAACGCACACTGT 60.108 50.000 0.00 0.00 0.00 3.55
3178 4552 2.619849 CCATGGCTTCTTGTCAGGTGAT 60.620 50.000 0.00 0.00 31.78 3.06
3188 4562 4.943705 TCTTGTCAGGTGATAATCTTTGGC 59.056 41.667 0.00 0.00 0.00 4.52
3207 4587 0.523072 CTTGCACTGCACCCATGTAC 59.477 55.000 2.26 0.00 38.71 2.90
3222 4602 4.443457 CCCATGTACGATCAAACTCCATCT 60.443 45.833 0.00 0.00 0.00 2.90
3253 4633 4.021192 TGTTCACTGACATGTATGAGCTGA 60.021 41.667 16.69 9.56 0.00 4.26
3286 4666 0.186873 GATGGCCATGGGAGGATTGT 59.813 55.000 26.56 0.00 0.00 2.71
3290 4670 1.064017 GGCCATGGGAGGATTGTAACA 60.064 52.381 15.13 0.00 0.00 2.41
3635 5029 8.417176 CAAAGTTTACTGCATTTATTTGTCGAC 58.583 33.333 9.11 9.11 0.00 4.20
3668 5062 1.398451 CGTGTTGCTTTCTGCGGTTAG 60.398 52.381 0.00 0.00 46.63 2.34
3684 5078 3.133003 CGGTTAGAGGATGATCAGGTGTT 59.867 47.826 0.09 0.00 0.00 3.32
3708 5102 1.731720 CAGTTCCTGTGCTTCTAGCC 58.268 55.000 0.00 0.00 41.51 3.93
3712 5109 1.517257 CCTGTGCTTCTAGCCGACG 60.517 63.158 0.00 0.00 41.51 5.12
4001 5417 1.201987 GCGTTTTATTGATCGGCGTGT 60.202 47.619 6.85 0.00 0.00 4.49
4148 5641 7.461918 GGATTACGACAATCCAGTTTACTTTC 58.538 38.462 21.15 0.00 44.33 2.62
4151 5644 8.752766 TTACGACAATCCAGTTTACTTTCTAG 57.247 34.615 0.00 0.00 0.00 2.43
4239 5733 0.251787 AGGGGACATTGCCAGAAACC 60.252 55.000 0.00 0.00 0.00 3.27
4255 5749 2.835431 CCGTTGGCAACCCACCAA 60.835 61.111 23.68 0.00 44.86 3.67
4344 5838 0.738389 CAGAGCGAGGAGGAAGAGAC 59.262 60.000 0.00 0.00 0.00 3.36
4345 5839 0.329931 AGAGCGAGGAGGAAGAGACA 59.670 55.000 0.00 0.00 0.00 3.41
4353 5847 0.467804 GAGGAAGAGACAGGGGATGC 59.532 60.000 0.00 0.00 0.00 3.91
4375 5869 1.155424 GGAAGTGTCGTGCCGTTTCA 61.155 55.000 0.00 0.00 0.00 2.69
4403 5897 4.444876 CCAACCGGATACTCTGGATTTGAT 60.445 45.833 9.46 0.00 45.95 2.57
4404 5898 4.608948 ACCGGATACTCTGGATTTGATC 57.391 45.455 9.46 0.00 45.95 2.92
4412 5906 7.718753 GGATACTCTGGATTTGATCACATTCTT 59.281 37.037 0.00 0.00 0.00 2.52
4442 5940 6.478344 CCTCGTAGATCTTTCTTCAATCTTGG 59.522 42.308 0.00 0.00 33.89 3.61
4491 5989 0.881118 CTGACGGTTTCATTGTGGGG 59.119 55.000 0.00 0.00 32.17 4.96
4492 5990 1.175983 TGACGGTTTCATTGTGGGGC 61.176 55.000 0.00 0.00 0.00 5.80
4493 5991 1.152652 ACGGTTTCATTGTGGGGCA 60.153 52.632 0.00 0.00 0.00 5.36
4494 5992 0.757188 ACGGTTTCATTGTGGGGCAA 60.757 50.000 0.00 0.00 41.89 4.52
4495 5993 0.319469 CGGTTTCATTGTGGGGCAAC 60.319 55.000 0.00 0.00 40.28 4.17
4508 6006 2.941480 GGGGCAACTCATGATCTTCAT 58.059 47.619 0.00 0.00 37.65 2.57
4509 6007 4.090761 GGGGCAACTCATGATCTTCATA 57.909 45.455 0.00 0.00 34.28 2.15
4510 6008 4.660168 GGGGCAACTCATGATCTTCATAT 58.340 43.478 0.00 0.00 34.28 1.78
4511 6009 4.699257 GGGGCAACTCATGATCTTCATATC 59.301 45.833 0.00 0.00 34.28 1.63
4513 6011 5.233225 GGCAACTCATGATCTTCATATCGA 58.767 41.667 0.00 0.00 34.28 3.59
4514 6012 5.873712 GGCAACTCATGATCTTCATATCGAT 59.126 40.000 2.16 2.16 34.28 3.59
4515 6013 6.035866 GGCAACTCATGATCTTCATATCGATC 59.964 42.308 0.00 0.00 34.28 3.69
4516 6014 6.812656 GCAACTCATGATCTTCATATCGATCT 59.187 38.462 0.00 0.00 34.28 2.75
4517 6015 7.972832 GCAACTCATGATCTTCATATCGATCTA 59.027 37.037 0.00 0.00 34.28 1.98
4518 6016 9.288124 CAACTCATGATCTTCATATCGATCTAC 57.712 37.037 0.00 0.00 34.28 2.59
4519 6017 8.572855 ACTCATGATCTTCATATCGATCTACA 57.427 34.615 0.00 0.00 34.28 2.74
4520 6018 8.458052 ACTCATGATCTTCATATCGATCTACAC 58.542 37.037 0.00 0.00 34.28 2.90
4521 6019 7.467623 TCATGATCTTCATATCGATCTACACG 58.532 38.462 0.00 0.00 34.28 4.49
4526 6024 4.744136 TCATATCGATCTACACGTGTCC 57.256 45.455 27.16 11.92 0.00 4.02
4527 6025 3.501062 TCATATCGATCTACACGTGTCCC 59.499 47.826 27.16 11.56 0.00 4.46
4528 6026 2.054232 ATCGATCTACACGTGTCCCT 57.946 50.000 27.16 10.61 0.00 4.20
4529 6027 1.092348 TCGATCTACACGTGTCCCTG 58.908 55.000 27.16 13.86 0.00 4.45
4530 6028 0.809385 CGATCTACACGTGTCCCTGT 59.191 55.000 27.16 8.08 0.00 4.00
4531 6029 1.201647 CGATCTACACGTGTCCCTGTT 59.798 52.381 27.16 9.07 0.00 3.16
4532 6030 2.731341 CGATCTACACGTGTCCCTGTTC 60.731 54.545 27.16 15.68 0.00 3.18
4533 6031 0.594602 TCTACACGTGTCCCTGTTCG 59.405 55.000 27.16 4.81 0.00 3.95
4534 6032 1.007038 TACACGTGTCCCTGTTCGC 60.007 57.895 27.16 0.00 0.00 4.70
4535 6033 1.457823 TACACGTGTCCCTGTTCGCT 61.458 55.000 27.16 0.00 0.00 4.93
4536 6034 2.029073 ACGTGTCCCTGTTCGCTG 59.971 61.111 0.00 0.00 0.00 5.18
4537 6035 3.414700 CGTGTCCCTGTTCGCTGC 61.415 66.667 0.00 0.00 0.00 5.25
4538 6036 3.050275 GTGTCCCTGTTCGCTGCC 61.050 66.667 0.00 0.00 0.00 4.85
4539 6037 4.329545 TGTCCCTGTTCGCTGCCC 62.330 66.667 0.00 0.00 0.00 5.36
4544 6042 4.335647 CTGTTCGCTGCCCCCTGT 62.336 66.667 0.00 0.00 0.00 4.00
4545 6043 4.641645 TGTTCGCTGCCCCCTGTG 62.642 66.667 0.00 0.00 0.00 3.66
4551 6049 3.329889 CTGCCCCCTGTGCCTGTA 61.330 66.667 0.00 0.00 0.00 2.74
4552 6050 3.628646 CTGCCCCCTGTGCCTGTAC 62.629 68.421 0.00 0.00 0.00 2.90
4553 6051 3.330720 GCCCCCTGTGCCTGTACT 61.331 66.667 0.00 0.00 0.00 2.73
4554 6052 2.907179 GCCCCCTGTGCCTGTACTT 61.907 63.158 0.00 0.00 0.00 2.24
4555 6053 1.002134 CCCCCTGTGCCTGTACTTG 60.002 63.158 0.00 0.00 0.00 3.16
4563 6061 1.814169 GCCTGTACTTGTAGCCCGC 60.814 63.158 0.00 0.00 0.00 6.13
4567 6065 1.294138 GTACTTGTAGCCCGCACCA 59.706 57.895 0.00 0.00 0.00 4.17
4589 7117 3.996150 TTCCTATTAGGAACGCCTACG 57.004 47.619 19.24 0.00 46.88 3.51
4592 7120 2.824341 CCTATTAGGAACGCCTACGGAT 59.176 50.000 3.41 0.00 46.35 4.18
4668 7196 0.806102 TCGCCTGCTCGCTATGTTTC 60.806 55.000 0.00 0.00 0.00 2.78
4671 7199 1.740025 GCCTGCTCGCTATGTTTCTTT 59.260 47.619 0.00 0.00 0.00 2.52
4697 7225 9.737427 TTTTCCTTTGGTTTTTCTTTGTTTTTC 57.263 25.926 0.00 0.00 0.00 2.29
4698 7226 7.123160 TCCTTTGGTTTTTCTTTGTTTTTCG 57.877 32.000 0.00 0.00 0.00 3.46
4699 7227 6.929606 TCCTTTGGTTTTTCTTTGTTTTTCGA 59.070 30.769 0.00 0.00 0.00 3.71
4700 7228 7.012943 CCTTTGGTTTTTCTTTGTTTTTCGAC 58.987 34.615 0.00 0.00 0.00 4.20
4701 7229 6.469139 TTGGTTTTTCTTTGTTTTTCGACC 57.531 33.333 0.00 0.00 0.00 4.79
4702 7230 4.621886 TGGTTTTTCTTTGTTTTTCGACCG 59.378 37.500 0.00 0.00 0.00 4.79
4703 7231 4.031991 GGTTTTTCTTTGTTTTTCGACCGG 59.968 41.667 0.00 0.00 0.00 5.28
4704 7232 3.423996 TTTCTTTGTTTTTCGACCGGG 57.576 42.857 6.32 0.00 0.00 5.73
4705 7233 2.041251 TCTTTGTTTTTCGACCGGGT 57.959 45.000 6.32 0.00 0.00 5.28
4706 7234 2.367486 TCTTTGTTTTTCGACCGGGTT 58.633 42.857 6.32 0.00 0.00 4.11
4707 7235 2.754002 TCTTTGTTTTTCGACCGGGTTT 59.246 40.909 6.32 0.00 0.00 3.27
4708 7236 3.193056 TCTTTGTTTTTCGACCGGGTTTT 59.807 39.130 6.32 0.00 0.00 2.43
4709 7237 2.847959 TGTTTTTCGACCGGGTTTTC 57.152 45.000 6.32 0.00 0.00 2.29
4710 7238 2.367486 TGTTTTTCGACCGGGTTTTCT 58.633 42.857 6.32 0.00 0.00 2.52
4711 7239 2.754002 TGTTTTTCGACCGGGTTTTCTT 59.246 40.909 6.32 0.00 0.00 2.52
4712 7240 3.193056 TGTTTTTCGACCGGGTTTTCTTT 59.807 39.130 6.32 0.00 0.00 2.52
4713 7241 3.423996 TTTTCGACCGGGTTTTCTTTG 57.576 42.857 6.32 0.00 0.00 2.77
4714 7242 2.041251 TTCGACCGGGTTTTCTTTGT 57.959 45.000 6.32 0.00 0.00 2.83
4715 7243 2.041251 TCGACCGGGTTTTCTTTGTT 57.959 45.000 6.32 0.00 0.00 2.83
4716 7244 2.367486 TCGACCGGGTTTTCTTTGTTT 58.633 42.857 6.32 0.00 0.00 2.83
4717 7245 2.355444 TCGACCGGGTTTTCTTTGTTTC 59.645 45.455 6.32 0.00 0.00 2.78
4718 7246 2.356695 CGACCGGGTTTTCTTTGTTTCT 59.643 45.455 6.32 0.00 0.00 2.52
4850 7393 7.330700 TGCTTTTCTTTTTGTTACTTTGTCAGG 59.669 33.333 0.00 0.00 0.00 3.86
4859 7402 5.992729 TGTTACTTTGTCAGGTTTAATCGC 58.007 37.500 0.00 0.00 0.00 4.58
4865 7408 4.015872 TGTCAGGTTTAATCGCTTTCCT 57.984 40.909 0.00 0.00 0.00 3.36
4901 7444 4.863491 TGTCTACTTTTCGTGACTACACC 58.137 43.478 0.00 0.00 43.34 4.16
4903 7446 5.163530 TGTCTACTTTTCGTGACTACACCAA 60.164 40.000 0.00 0.00 43.34 3.67
4904 7447 5.924825 GTCTACTTTTCGTGACTACACCAAT 59.075 40.000 0.00 0.00 43.34 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.106407 GCCGATGATAGGCGACGC 61.106 66.667 12.43 12.43 45.58 5.19
113 114 0.176680 ACGATTAGCTGCTCACCCAG 59.823 55.000 4.91 0.00 35.93 4.45
273 274 5.093457 CACTTGCATGCATCTTCTTTAGTG 58.907 41.667 23.37 23.21 0.00 2.74
645 660 1.263356 TTGGAACGGAGGGAGTACTG 58.737 55.000 0.00 0.00 0.00 2.74
646 661 2.019807 TTTGGAACGGAGGGAGTACT 57.980 50.000 0.00 0.00 0.00 2.73
647 662 2.845363 TTTTGGAACGGAGGGAGTAC 57.155 50.000 0.00 0.00 0.00 2.73
648 663 4.355549 TCTATTTTGGAACGGAGGGAGTA 58.644 43.478 0.00 0.00 0.00 2.59
649 664 3.178865 TCTATTTTGGAACGGAGGGAGT 58.821 45.455 0.00 0.00 0.00 3.85
650 665 3.906720 TCTATTTTGGAACGGAGGGAG 57.093 47.619 0.00 0.00 0.00 4.30
651 666 3.778075 TCATCTATTTTGGAACGGAGGGA 59.222 43.478 0.00 0.00 0.00 4.20
652 667 3.877508 GTCATCTATTTTGGAACGGAGGG 59.122 47.826 0.00 0.00 0.00 4.30
653 668 3.877508 GGTCATCTATTTTGGAACGGAGG 59.122 47.826 0.00 0.00 0.00 4.30
654 669 3.877508 GGGTCATCTATTTTGGAACGGAG 59.122 47.826 0.00 0.00 0.00 4.63
655 670 3.264706 TGGGTCATCTATTTTGGAACGGA 59.735 43.478 0.00 0.00 0.00 4.69
656 671 3.616219 TGGGTCATCTATTTTGGAACGG 58.384 45.455 0.00 0.00 0.00 4.44
657 672 4.700213 AGTTGGGTCATCTATTTTGGAACG 59.300 41.667 0.00 0.00 0.00 3.95
658 673 6.590234 AAGTTGGGTCATCTATTTTGGAAC 57.410 37.500 0.00 0.00 0.00 3.62
659 674 6.553100 ACAAAGTTGGGTCATCTATTTTGGAA 59.447 34.615 0.00 0.00 0.00 3.53
660 675 6.074648 ACAAAGTTGGGTCATCTATTTTGGA 58.925 36.000 0.00 0.00 0.00 3.53
661 676 6.345096 ACAAAGTTGGGTCATCTATTTTGG 57.655 37.500 0.00 0.00 0.00 3.28
662 677 8.110860 AGTACAAAGTTGGGTCATCTATTTTG 57.889 34.615 0.00 0.00 0.00 2.44
663 678 9.802039 TTAGTACAAAGTTGGGTCATCTATTTT 57.198 29.630 0.00 0.00 0.00 1.82
664 679 9.227777 GTTAGTACAAAGTTGGGTCATCTATTT 57.772 33.333 0.00 0.00 0.00 1.40
665 680 8.603304 AGTTAGTACAAAGTTGGGTCATCTATT 58.397 33.333 0.00 0.00 0.00 1.73
666 681 8.147244 AGTTAGTACAAAGTTGGGTCATCTAT 57.853 34.615 0.00 0.00 0.00 1.98
667 682 7.549147 AGTTAGTACAAAGTTGGGTCATCTA 57.451 36.000 0.00 0.00 0.00 1.98
668 683 6.435292 AGTTAGTACAAAGTTGGGTCATCT 57.565 37.500 0.00 0.00 0.00 2.90
669 684 7.012989 ACAAAGTTAGTACAAAGTTGGGTCATC 59.987 37.037 0.00 0.00 0.00 2.92
670 685 6.831868 ACAAAGTTAGTACAAAGTTGGGTCAT 59.168 34.615 0.00 0.00 0.00 3.06
671 686 6.181908 ACAAAGTTAGTACAAAGTTGGGTCA 58.818 36.000 0.00 0.00 0.00 4.02
672 687 6.688637 ACAAAGTTAGTACAAAGTTGGGTC 57.311 37.500 0.00 0.00 0.00 4.46
673 688 7.341030 AGTACAAAGTTAGTACAAAGTTGGGT 58.659 34.615 6.30 0.00 43.24 4.51
674 689 7.797038 AGTACAAAGTTAGTACAAAGTTGGG 57.203 36.000 6.30 0.00 43.24 4.12
705 720 9.003658 CCAAAATAGATGACTCAACTTTGTACT 57.996 33.333 0.00 0.00 0.00 2.73
706 721 8.999431 TCCAAAATAGATGACTCAACTTTGTAC 58.001 33.333 0.00 0.00 0.00 2.90
707 722 9.567776 TTCCAAAATAGATGACTCAACTTTGTA 57.432 29.630 0.00 0.00 0.00 2.41
708 723 8.352942 GTTCCAAAATAGATGACTCAACTTTGT 58.647 33.333 0.00 0.00 0.00 2.83
709 724 7.535258 CGTTCCAAAATAGATGACTCAACTTTG 59.465 37.037 0.00 0.00 0.00 2.77
710 725 7.308589 CCGTTCCAAAATAGATGACTCAACTTT 60.309 37.037 0.00 0.00 0.00 2.66
711 726 6.149474 CCGTTCCAAAATAGATGACTCAACTT 59.851 38.462 0.00 0.00 0.00 2.66
712 727 5.643777 CCGTTCCAAAATAGATGACTCAACT 59.356 40.000 0.00 0.00 0.00 3.16
713 728 5.642063 TCCGTTCCAAAATAGATGACTCAAC 59.358 40.000 0.00 0.00 0.00 3.18
714 729 5.800296 TCCGTTCCAAAATAGATGACTCAA 58.200 37.500 0.00 0.00 0.00 3.02
715 730 5.414789 TCCGTTCCAAAATAGATGACTCA 57.585 39.130 0.00 0.00 0.00 3.41
716 731 4.811557 CCTCCGTTCCAAAATAGATGACTC 59.188 45.833 0.00 0.00 0.00 3.36
717 732 4.384208 CCCTCCGTTCCAAAATAGATGACT 60.384 45.833 0.00 0.00 0.00 3.41
718 733 3.877508 CCCTCCGTTCCAAAATAGATGAC 59.122 47.826 0.00 0.00 0.00 3.06
719 734 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
720 735 4.130118 CTCCCTCCGTTCCAAAATAGATG 58.870 47.826 0.00 0.00 0.00 2.90
721 736 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
722 737 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
723 738 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
724 739 4.533311 ACTTACTCCCTCCGTTCCAAAATA 59.467 41.667 0.00 0.00 0.00 1.40
725 740 3.329814 ACTTACTCCCTCCGTTCCAAAAT 59.670 43.478 0.00 0.00 0.00 1.82
726 741 2.707257 ACTTACTCCCTCCGTTCCAAAA 59.293 45.455 0.00 0.00 0.00 2.44
727 742 2.332117 ACTTACTCCCTCCGTTCCAAA 58.668 47.619 0.00 0.00 0.00 3.28
728 743 2.019807 ACTTACTCCCTCCGTTCCAA 57.980 50.000 0.00 0.00 0.00 3.53
729 744 2.905415 TACTTACTCCCTCCGTTCCA 57.095 50.000 0.00 0.00 0.00 3.53
730 745 4.038522 GGTATTACTTACTCCCTCCGTTCC 59.961 50.000 0.00 0.00 0.00 3.62
731 746 4.261363 CGGTATTACTTACTCCCTCCGTTC 60.261 50.000 0.00 0.00 0.00 3.95
732 747 3.633986 CGGTATTACTTACTCCCTCCGTT 59.366 47.826 0.00 0.00 0.00 4.44
733 748 3.217626 CGGTATTACTTACTCCCTCCGT 58.782 50.000 0.00 0.00 0.00 4.69
734 749 2.555757 CCGGTATTACTTACTCCCTCCG 59.444 54.545 0.00 0.00 36.00 4.63
735 750 3.825585 CTCCGGTATTACTTACTCCCTCC 59.174 52.174 0.00 0.00 0.00 4.30
736 751 3.825585 CCTCCGGTATTACTTACTCCCTC 59.174 52.174 0.00 0.00 0.00 4.30
737 752 3.437637 CCCTCCGGTATTACTTACTCCCT 60.438 52.174 0.00 0.00 0.00 4.20
738 753 2.896044 CCCTCCGGTATTACTTACTCCC 59.104 54.545 0.00 0.00 0.00 4.30
739 754 2.298446 GCCCTCCGGTATTACTTACTCC 59.702 54.545 0.00 0.00 0.00 3.85
740 755 2.030451 CGCCCTCCGGTATTACTTACTC 60.030 54.545 0.00 0.00 0.00 2.59
753 768 3.846430 GGGTAGTTCCGCCCTCCG 61.846 72.222 0.00 0.00 41.63 4.63
760 775 1.856629 TAACTGGGAGGGTAGTTCCG 58.143 55.000 0.00 0.00 38.11 4.30
939 956 7.329717 CACTCCTCATTGTACTTCTTTACTGAC 59.670 40.741 0.00 0.00 0.00 3.51
1215 1232 5.246981 TGGGGGATATGAGATGAATGTTC 57.753 43.478 0.00 0.00 0.00 3.18
1278 2548 4.865365 GTGTAGTGAATGTCCTAGTCTTGC 59.135 45.833 0.00 0.00 0.00 4.01
1765 3066 1.885871 GGGAGCAATGCCTGTTCAC 59.114 57.895 0.00 0.00 37.01 3.18
1900 3201 3.282885 GGCCTAGCTAAAAGCATGAAGT 58.717 45.455 0.00 0.00 45.56 3.01
2024 3325 3.935828 GAGAGGTCTTTATGGTGTTGAGC 59.064 47.826 0.00 0.00 0.00 4.26
2280 3583 2.046892 CTCCAAGGGTGCACTCCG 60.047 66.667 14.62 4.73 0.00 4.63
2399 3702 4.786507 TGACATGATTGCGAAGAAACAAG 58.213 39.130 0.00 0.00 0.00 3.16
2443 3746 4.617959 TCAGAACTGTACTTCGTTTCAGG 58.382 43.478 1.73 0.00 32.92 3.86
2524 3892 6.373005 TGTTCTGGTGAGATCAAAATAGGA 57.627 37.500 0.00 0.00 0.00 2.94
2601 3969 9.920946 TTTACTTTTGGCATTATCCTCTCTTAT 57.079 29.630 0.00 0.00 0.00 1.73
2645 4014 9.974980 TTTTGTTTCTCATAATCTTGTTTACCC 57.025 29.630 0.00 0.00 0.00 3.69
2701 4072 2.799412 CACTCCATTCATTCTAGCTCGC 59.201 50.000 0.00 0.00 0.00 5.03
2703 4074 7.148440 GCAATATCACTCCATTCATTCTAGCTC 60.148 40.741 0.00 0.00 0.00 4.09
2713 4084 4.814234 TGTTACCGCAATATCACTCCATTC 59.186 41.667 0.00 0.00 0.00 2.67
2848 4222 2.289631 TGTGAGCGAAACATGGTGAGAT 60.290 45.455 0.00 0.00 0.00 2.75
2857 4231 4.574421 TCTCTGAAAATTGTGAGCGAAACA 59.426 37.500 0.00 0.00 0.00 2.83
2866 4240 4.437930 GGGCGATCTTCTCTGAAAATTGTG 60.438 45.833 0.00 0.00 0.00 3.33
3082 4456 0.391130 CAATCTTTCTCCCGACGGCA 60.391 55.000 8.86 0.00 0.00 5.69
3088 4462 3.003480 GTTCAGGTCAATCTTTCTCCCG 58.997 50.000 0.00 0.00 0.00 5.14
3109 4483 3.112075 CCGTAGCCACAGTGTGCG 61.112 66.667 18.21 14.87 31.34 5.34
3116 4490 4.435436 CAGCGAGCCGTAGCCACA 62.435 66.667 0.00 0.00 41.25 4.17
3118 4492 4.129737 GACAGCGAGCCGTAGCCA 62.130 66.667 0.00 0.00 41.25 4.75
3178 4552 2.030007 GTGCAGTGCAAGCCAAAGATTA 60.030 45.455 21.67 0.00 41.47 1.75
3188 4562 0.523072 GTACATGGGTGCAGTGCAAG 59.477 55.000 21.67 10.04 41.47 4.01
3207 4587 4.270178 GAGCAAAGATGGAGTTTGATCG 57.730 45.455 0.00 0.00 39.66 3.69
3243 4623 6.317140 TCTGAAATCAACCAATCAGCTCATAC 59.683 38.462 0.00 0.00 39.27 2.39
3253 4633 3.443052 TGGCCATCTGAAATCAACCAAT 58.557 40.909 0.00 0.00 0.00 3.16
3286 4666 4.382470 GCTGCTCTTCATCCTCTCTTGTTA 60.382 45.833 0.00 0.00 0.00 2.41
3290 4670 2.168936 CAGCTGCTCTTCATCCTCTCTT 59.831 50.000 0.00 0.00 0.00 2.85
3336 4716 5.800941 CGTACAGAAGGATGTAGTTCTTCAC 59.199 44.000 0.00 0.00 39.30 3.18
3449 4829 2.095853 CAGTGAACACTTCAACTTGCGT 59.904 45.455 4.63 0.00 42.15 5.24
3450 4830 2.351418 TCAGTGAACACTTCAACTTGCG 59.649 45.455 4.63 0.00 42.15 4.85
3464 4846 4.568956 TGCAAGAAAGATCGATCAGTGAA 58.431 39.130 26.47 8.91 0.00 3.18
3635 5029 2.030185 AGCAACACGGTAGTACTGTCAG 60.030 50.000 11.99 5.04 35.04 3.51
3668 5062 2.744494 GCCTCAACACCTGATCATCCTC 60.744 54.545 0.00 0.00 32.14 3.71
3701 5095 0.464036 ATGCAATCCGTCGGCTAGAA 59.536 50.000 6.34 0.00 0.00 2.10
3708 5102 0.249447 TGGAGCTATGCAATCCGTCG 60.249 55.000 0.00 0.00 35.78 5.12
3712 5109 1.952296 CAGGTTGGAGCTATGCAATCC 59.048 52.381 0.00 0.00 38.57 3.01
3847 5260 7.164230 AGCTAATCCACTATCTTCTATTCGG 57.836 40.000 0.00 0.00 0.00 4.30
3855 5268 9.499479 CATGAACATTAGCTAATCCACTATCTT 57.501 33.333 16.21 4.71 0.00 2.40
4007 5423 7.080353 TCAAACAAACTATGATGAGAGCATG 57.920 36.000 0.00 0.00 34.11 4.06
4091 5584 4.649218 ACCAGACACAAAAGGCATAAACTT 59.351 37.500 0.00 0.00 0.00 2.66
4148 5641 2.860582 GCTCCTTCGGATTTCTCGCTAG 60.861 54.545 0.00 0.00 0.00 3.42
4151 5644 1.154814 GGCTCCTTCGGATTTCTCGC 61.155 60.000 0.00 0.00 0.00 5.03
4161 5654 1.303643 AAAAGGCAGGGCTCCTTCG 60.304 57.895 0.00 0.00 42.75 3.79
4170 5663 5.256474 TCTTCTCCTTAATGAAAAGGCAGG 58.744 41.667 0.00 0.00 44.89 4.85
4255 5749 5.541845 TCGTGTTCTTGAGAAGTGAATCAT 58.458 37.500 0.00 0.00 34.27 2.45
4344 5838 1.077212 CACTTCCTGGCATCCCCTG 60.077 63.158 0.00 0.00 0.00 4.45
4345 5839 1.542375 ACACTTCCTGGCATCCCCT 60.542 57.895 0.00 0.00 0.00 4.79
4392 5886 6.544931 GGATGAAGAATGTGATCAAATCCAGA 59.455 38.462 0.00 0.00 0.00 3.86
4403 5897 4.278310 TCTACGAGGGATGAAGAATGTGA 58.722 43.478 0.00 0.00 0.00 3.58
4404 5898 4.655762 TCTACGAGGGATGAAGAATGTG 57.344 45.455 0.00 0.00 0.00 3.21
4412 5906 5.201243 TGAAGAAAGATCTACGAGGGATGA 58.799 41.667 0.00 0.00 33.77 2.92
4442 5940 7.038659 CGTGAATATCTCATCCTTCCCTAATC 58.961 42.308 0.00 0.00 36.14 1.75
4491 5989 6.812656 AGATCGATATGAAGATCATGAGTTGC 59.187 38.462 0.00 0.00 44.10 4.17
4492 5990 9.288124 GTAGATCGATATGAAGATCATGAGTTG 57.712 37.037 2.01 0.00 44.10 3.16
4493 5991 9.018582 TGTAGATCGATATGAAGATCATGAGTT 57.981 33.333 2.01 0.00 44.10 3.01
4494 5992 8.458052 GTGTAGATCGATATGAAGATCATGAGT 58.542 37.037 2.01 0.00 44.10 3.41
4495 5993 7.639461 CGTGTAGATCGATATGAAGATCATGAG 59.361 40.741 2.01 0.00 44.10 2.90
4498 5996 7.094592 ACACGTGTAGATCGATATGAAGATCAT 60.095 37.037 21.98 0.00 44.10 2.45
4499 5997 6.204882 ACACGTGTAGATCGATATGAAGATCA 59.795 38.462 21.98 0.00 44.10 2.92
4500 5998 6.604012 ACACGTGTAGATCGATATGAAGATC 58.396 40.000 21.98 4.94 42.52 2.75
4502 6000 5.049612 GGACACGTGTAGATCGATATGAAGA 60.050 44.000 23.44 0.00 0.00 2.87
4503 6001 5.147865 GGACACGTGTAGATCGATATGAAG 58.852 45.833 23.44 0.00 0.00 3.02
4505 6003 3.501062 GGGACACGTGTAGATCGATATGA 59.499 47.826 23.44 0.00 0.00 2.15
4506 6004 3.502595 AGGGACACGTGTAGATCGATATG 59.497 47.826 23.44 0.00 0.00 1.78
4508 6006 2.876550 CAGGGACACGTGTAGATCGATA 59.123 50.000 23.44 0.00 0.00 2.92
4509 6007 1.676529 CAGGGACACGTGTAGATCGAT 59.323 52.381 23.44 0.00 0.00 3.59
4510 6008 1.092348 CAGGGACACGTGTAGATCGA 58.908 55.000 23.44 0.00 0.00 3.59
4511 6009 0.809385 ACAGGGACACGTGTAGATCG 59.191 55.000 23.44 11.78 43.32 3.69
4513 6011 1.201647 CGAACAGGGACACGTGTAGAT 59.798 52.381 23.44 7.21 44.27 1.98
4514 6012 0.594602 CGAACAGGGACACGTGTAGA 59.405 55.000 23.44 0.00 44.27 2.59
4515 6013 1.007336 GCGAACAGGGACACGTGTAG 61.007 60.000 23.44 14.15 44.27 2.74
4516 6014 1.007038 GCGAACAGGGACACGTGTA 60.007 57.895 23.44 0.00 44.27 2.90
4517 6015 2.279918 GCGAACAGGGACACGTGT 60.280 61.111 23.64 23.64 46.76 4.49
4518 6016 2.029073 AGCGAACAGGGACACGTG 59.971 61.111 15.48 15.48 38.41 4.49
4519 6017 2.029073 CAGCGAACAGGGACACGT 59.971 61.111 0.00 0.00 0.00 4.49
4520 6018 3.414700 GCAGCGAACAGGGACACG 61.415 66.667 0.00 0.00 0.00 4.49
4521 6019 3.050275 GGCAGCGAACAGGGACAC 61.050 66.667 0.00 0.00 0.00 3.67
4527 6025 4.335647 ACAGGGGGCAGCGAACAG 62.336 66.667 0.00 0.00 0.00 3.16
4528 6026 4.641645 CACAGGGGGCAGCGAACA 62.642 66.667 0.00 0.00 0.00 3.18
4534 6032 3.329889 TACAGGCACAGGGGGCAG 61.330 66.667 0.00 0.00 35.46 4.85
4535 6033 3.646715 GTACAGGCACAGGGGGCA 61.647 66.667 0.00 0.00 35.46 5.36
4536 6034 2.907179 AAGTACAGGCACAGGGGGC 61.907 63.158 0.00 0.00 0.00 5.80
4537 6035 1.002134 CAAGTACAGGCACAGGGGG 60.002 63.158 0.00 0.00 0.00 5.40
4538 6036 0.981183 TACAAGTACAGGCACAGGGG 59.019 55.000 0.00 0.00 0.00 4.79
4539 6037 1.676014 GCTACAAGTACAGGCACAGGG 60.676 57.143 0.00 0.00 0.00 4.45
4540 6038 1.676014 GGCTACAAGTACAGGCACAGG 60.676 57.143 0.00 0.00 37.30 4.00
4541 6039 1.676014 GGGCTACAAGTACAGGCACAG 60.676 57.143 6.79 0.00 39.01 3.66
4542 6040 0.323629 GGGCTACAAGTACAGGCACA 59.676 55.000 6.79 0.00 39.01 4.57
4543 6041 0.739813 CGGGCTACAAGTACAGGCAC 60.740 60.000 6.79 0.00 39.01 5.01
4544 6042 1.594833 CGGGCTACAAGTACAGGCA 59.405 57.895 6.79 0.00 39.01 4.75
4545 6043 1.814169 GCGGGCTACAAGTACAGGC 60.814 63.158 0.00 0.00 36.65 4.85
4546 6044 0.739813 GTGCGGGCTACAAGTACAGG 60.740 60.000 0.00 0.00 0.00 4.00
4547 6045 0.739813 GGTGCGGGCTACAAGTACAG 60.740 60.000 0.00 0.00 0.00 2.74
4548 6046 1.294138 GGTGCGGGCTACAAGTACA 59.706 57.895 0.00 0.00 0.00 2.90
4549 6047 0.320946 TTGGTGCGGGCTACAAGTAC 60.321 55.000 0.00 0.00 0.00 2.73
4550 6048 0.616371 ATTGGTGCGGGCTACAAGTA 59.384 50.000 6.71 0.00 0.00 2.24
4551 6049 0.251165 AATTGGTGCGGGCTACAAGT 60.251 50.000 6.71 2.24 0.00 3.16
4552 6050 0.451783 GAATTGGTGCGGGCTACAAG 59.548 55.000 6.71 0.00 0.00 3.16
4553 6051 0.963355 GGAATTGGTGCGGGCTACAA 60.963 55.000 3.80 3.80 0.00 2.41
4554 6052 1.377987 GGAATTGGTGCGGGCTACA 60.378 57.895 0.00 0.00 0.00 2.74
4555 6053 0.179468 TAGGAATTGGTGCGGGCTAC 59.821 55.000 0.00 0.00 0.00 3.58
4589 7117 0.533755 CCGGCCTGATTCACTCATCC 60.534 60.000 0.00 0.00 32.10 3.51
4592 7120 2.268920 GCCGGCCTGATTCACTCA 59.731 61.111 18.11 0.00 0.00 3.41
4671 7199 9.737427 GAAAAACAAAGAAAAACCAAAGGAAAA 57.263 25.926 0.00 0.00 0.00 2.29
4678 7206 5.118817 CGGTCGAAAAACAAAGAAAAACCAA 59.881 36.000 0.00 0.00 0.00 3.67
4695 7223 2.041251 ACAAAGAAAACCCGGTCGAA 57.959 45.000 0.00 0.00 0.00 3.71
4697 7225 2.356695 AGAAACAAAGAAAACCCGGTCG 59.643 45.455 0.00 0.00 0.00 4.79
4698 7226 4.380841 AAGAAACAAAGAAAACCCGGTC 57.619 40.909 0.00 0.00 0.00 4.79
4699 7227 4.811969 AAAGAAACAAAGAAAACCCGGT 57.188 36.364 0.00 0.00 0.00 5.28
4796 7339 8.966868 AGAAAACTGAGGAATACAAAGAAAACA 58.033 29.630 0.00 0.00 0.00 2.83


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

AutoCloner maintained by Alex Coulton.