Multiple sequence alignment - TraesCS2A01G442200

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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 TraesCS2A01G442200 chr2A 100.000 3377 0 0 1 3377 692228995 692232371 0.000000e+00 6237.0
1 TraesCS2A01G442200 chr2D 92.821 2535 157 20 695 3223 551211150 551213665 0.000000e+00 3650.0
2 TraesCS2A01G442200 chr2D 93.805 113 6 1 3265 3377 551213661 551213772 5.800000e-38 169.0
3 TraesCS2A01G442200 chr2B 93.608 1940 94 21 723 2654 656511307 656513224 0.000000e+00 2868.0
4 TraesCS2A01G442200 chr2B 85.714 119 16 1 2856 2974 458620408 458620525 1.270000e-24 124.0
5 TraesCS2A01G442200 chrUn 98.626 655 9 0 1 655 317738514 317737860 0.000000e+00 1160.0
6 TraesCS2A01G442200 chr7A 98.626 655 9 0 1 655 31923120 31922466 0.000000e+00 1160.0
7 TraesCS2A01G442200 chr7A 98.626 655 9 0 1 655 31951369 31950715 0.000000e+00 1160.0
8 TraesCS2A01G442200 chr7A 98.318 654 11 0 1 654 220508871 220508218 0.000000e+00 1147.0
9 TraesCS2A01G442200 chr5B 98.760 645 8 0 1 645 600928596 600929240 0.000000e+00 1147.0
10 TraesCS2A01G442200 chr5B 77.987 159 24 7 2832 2985 493126072 493126224 4.640000e-14 89.8
11 TraesCS2A01G442200 chr1B 98.605 645 9 0 1 645 330227964 330228608 0.000000e+00 1142.0
12 TraesCS2A01G442200 chr1B 80.734 218 37 5 3162 3377 623897603 623897389 7.500000e-37 165.0
13 TraesCS2A01G442200 chr1B 77.824 239 51 2 2741 2978 55438047 55438284 2.720000e-31 147.0
14 TraesCS2A01G442200 chr1B 78.808 151 31 1 3225 3375 584134616 584134467 2.140000e-17 100.0
15 TraesCS2A01G442200 chr1B 77.852 149 32 1 2741 2888 505100950 505101098 1.290000e-14 91.6
16 TraesCS2A01G442200 chr4B 98.295 645 11 0 1 645 646222152 646222796 0.000000e+00 1131.0
17 TraesCS2A01G442200 chr4B 81.034 116 20 2 2793 2907 63457251 63457365 1.290000e-14 91.6
18 TraesCS2A01G442200 chr4B 82.418 91 10 3 2222 2306 608262012 608261922 1.300000e-09 75.0
19 TraesCS2A01G442200 chr6D 95.201 646 29 2 1 645 97142047 97141403 0.000000e+00 1020.0
20 TraesCS2A01G442200 chr7B 93.189 646 40 2 1 645 745620575 745621217 0.000000e+00 946.0
21 TraesCS2A01G442200 chr7B 87.179 78 8 2 2912 2987 731970433 731970510 1.670000e-13 87.9
22 TraesCS2A01G442200 chr4A 72.714 1323 267 71 1062 2337 572302359 572303634 1.150000e-94 357.0
23 TraesCS2A01G442200 chr1A 72.078 1232 232 73 1182 2353 10151110 10152289 2.000000e-67 267.0
24 TraesCS2A01G442200 chr1D 77.056 231 44 8 2741 2965 472186872 472187099 1.270000e-24 124.0
25 TraesCS2A01G442200 chr1D 78.534 191 29 3 2168 2346 8857595 8857785 7.660000e-22 115.0
26 TraesCS2A01G442200 chr1D 78.534 191 29 3 2168 2346 8883308 8883498 7.660000e-22 115.0
27 TraesCS2A01G442200 chr1D 78.010 191 30 3 2168 2346 8870450 8870640 3.560000e-20 110.0
28 TraesCS2A01G442200 chr1D 90.000 70 7 0 3302 3371 426584717 426584648 1.290000e-14 91.6
29 TraesCS2A01G442200 chr6A 80.263 152 29 1 3226 3377 453555365 453555215 2.750000e-21 113.0
30 TraesCS2A01G442200 chr6B 74.597 248 56 5 2743 2987 188723432 188723675 5.960000e-18 102.0
31 TraesCS2A01G442200 chr6B 74.312 218 51 4 3161 3376 664513110 664512896 1.670000e-13 87.9
32 TraesCS2A01G442200 chr5D 79.195 149 28 3 3227 3374 456729087 456729233 2.140000e-17 100.0
33 TraesCS2A01G442200 chr4D 83.784 74 12 0 3302 3375 58284534 58284461 1.680000e-08 71.3


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 TraesCS2A01G442200 chr2A 692228995 692232371 3376 False 6237.0 6237 100.000 1 3377 1 chr2A.!!$F1 3376
1 TraesCS2A01G442200 chr2D 551211150 551213772 2622 False 1909.5 3650 93.313 695 3377 2 chr2D.!!$F1 2682
2 TraesCS2A01G442200 chr2B 656511307 656513224 1917 False 2868.0 2868 93.608 723 2654 1 chr2B.!!$F2 1931
3 TraesCS2A01G442200 chrUn 317737860 317738514 654 True 1160.0 1160 98.626 1 655 1 chrUn.!!$R1 654
4 TraesCS2A01G442200 chr7A 31922466 31923120 654 True 1160.0 1160 98.626 1 655 1 chr7A.!!$R1 654
5 TraesCS2A01G442200 chr7A 31950715 31951369 654 True 1160.0 1160 98.626 1 655 1 chr7A.!!$R2 654
6 TraesCS2A01G442200 chr7A 220508218 220508871 653 True 1147.0 1147 98.318 1 654 1 chr7A.!!$R3 653
7 TraesCS2A01G442200 chr5B 600928596 600929240 644 False 1147.0 1147 98.760 1 645 1 chr5B.!!$F2 644
8 TraesCS2A01G442200 chr1B 330227964 330228608 644 False 1142.0 1142 98.605 1 645 1 chr1B.!!$F2 644
9 TraesCS2A01G442200 chr4B 646222152 646222796 644 False 1131.0 1131 98.295 1 645 1 chr4B.!!$F2 644
10 TraesCS2A01G442200 chr6D 97141403 97142047 644 True 1020.0 1020 95.201 1 645 1 chr6D.!!$R1 644
11 TraesCS2A01G442200 chr7B 745620575 745621217 642 False 946.0 946 93.189 1 645 1 chr7B.!!$F2 644
12 TraesCS2A01G442200 chr4A 572302359 572303634 1275 False 357.0 357 72.714 1062 2337 1 chr4A.!!$F1 1275
13 TraesCS2A01G442200 chr1A 10151110 10152289 1179 False 267.0 267 72.078 1182 2353 1 chr1A.!!$F1 1171

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
684 686 1.120795 AGCATAGAGAGGGAGCAGGC 61.121 60.0 0.0 0.0 0.0 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2417 2489 0.031716 TCAGACCAGGAGCTAGGCAT 60.032 55.0 0.0 0.0 0.0 4.4 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
74 75 1.737793 GCAAAGGCTACGCTACATTGT 59.262 47.619 0.00 0.00 36.96 2.71
274 275 1.126488 CTCCCTTGCTGCCTCTATGA 58.874 55.000 0.00 0.00 0.00 2.15
375 376 8.033038 TCGCTTATTGTATATATGTGAAGGTCC 58.967 37.037 0.00 0.00 0.00 4.46
542 544 5.815222 CGATCCTGTACACATTCAACCAATA 59.185 40.000 0.00 0.00 0.00 1.90
648 650 2.271800 GCAACGGGTCATCTAGTGAAG 58.728 52.381 0.00 0.00 38.90 3.02
655 657 3.935828 GGGTCATCTAGTGAAGTGAAAGC 59.064 47.826 0.00 0.00 38.90 3.51
656 658 4.563580 GGGTCATCTAGTGAAGTGAAAGCA 60.564 45.833 0.00 0.00 38.90 3.91
657 659 5.181748 GGTCATCTAGTGAAGTGAAAGCAT 58.818 41.667 0.00 0.00 38.90 3.79
658 660 5.064452 GGTCATCTAGTGAAGTGAAAGCATG 59.936 44.000 0.00 0.00 38.90 4.06
659 661 5.871524 GTCATCTAGTGAAGTGAAAGCATGA 59.128 40.000 0.00 0.00 38.90 3.07
660 662 6.369890 GTCATCTAGTGAAGTGAAAGCATGAA 59.630 38.462 0.00 0.00 38.90 2.57
661 663 7.065563 GTCATCTAGTGAAGTGAAAGCATGAAT 59.934 37.037 0.00 0.00 38.90 2.57
662 664 6.732531 TCTAGTGAAGTGAAAGCATGAATG 57.267 37.500 0.00 0.00 0.00 2.67
663 665 6.466812 TCTAGTGAAGTGAAAGCATGAATGA 58.533 36.000 0.00 0.00 0.00 2.57
664 666 6.936335 TCTAGTGAAGTGAAAGCATGAATGAA 59.064 34.615 0.00 0.00 0.00 2.57
665 667 6.395426 AGTGAAGTGAAAGCATGAATGAAA 57.605 33.333 0.00 0.00 0.00 2.69
666 668 6.444633 AGTGAAGTGAAAGCATGAATGAAAG 58.555 36.000 0.00 0.00 0.00 2.62
667 669 5.118203 GTGAAGTGAAAGCATGAATGAAAGC 59.882 40.000 0.00 0.00 0.00 3.51
668 670 4.859304 AGTGAAAGCATGAATGAAAGCA 57.141 36.364 0.00 0.00 0.00 3.91
669 671 5.401531 AGTGAAAGCATGAATGAAAGCAT 57.598 34.783 0.00 0.00 35.92 3.79
670 672 6.519679 AGTGAAAGCATGAATGAAAGCATA 57.480 33.333 0.00 0.00 33.44 3.14
671 673 6.561614 AGTGAAAGCATGAATGAAAGCATAG 58.438 36.000 0.00 0.00 33.44 2.23
672 674 6.376299 AGTGAAAGCATGAATGAAAGCATAGA 59.624 34.615 0.00 0.00 33.44 1.98
673 675 6.691818 GTGAAAGCATGAATGAAAGCATAGAG 59.308 38.462 0.00 0.00 33.44 2.43
674 676 6.600427 TGAAAGCATGAATGAAAGCATAGAGA 59.400 34.615 0.00 0.00 33.44 3.10
675 677 6.621316 AAGCATGAATGAAAGCATAGAGAG 57.379 37.500 0.00 0.00 33.44 3.20
676 678 5.064558 AGCATGAATGAAAGCATAGAGAGG 58.935 41.667 0.00 0.00 33.44 3.69
677 679 4.215827 GCATGAATGAAAGCATAGAGAGGG 59.784 45.833 0.00 0.00 33.44 4.30
678 680 5.618236 CATGAATGAAAGCATAGAGAGGGA 58.382 41.667 0.00 0.00 33.44 4.20
679 681 5.287674 TGAATGAAAGCATAGAGAGGGAG 57.712 43.478 0.00 0.00 33.44 4.30
680 682 3.767902 ATGAAAGCATAGAGAGGGAGC 57.232 47.619 0.00 0.00 31.57 4.70
681 683 2.470990 TGAAAGCATAGAGAGGGAGCA 58.529 47.619 0.00 0.00 0.00 4.26
682 684 2.433604 TGAAAGCATAGAGAGGGAGCAG 59.566 50.000 0.00 0.00 0.00 4.24
683 685 1.422531 AAGCATAGAGAGGGAGCAGG 58.577 55.000 0.00 0.00 0.00 4.85
684 686 1.120795 AGCATAGAGAGGGAGCAGGC 61.121 60.000 0.00 0.00 0.00 4.85
685 687 1.664873 CATAGAGAGGGAGCAGGCG 59.335 63.158 0.00 0.00 0.00 5.52
686 688 2.206536 ATAGAGAGGGAGCAGGCGC 61.207 63.158 0.00 0.00 38.99 6.53
692 694 4.925861 GGGAGCAGGCGCCAGATC 62.926 72.222 31.54 29.04 39.83 2.75
693 695 4.925861 GGAGCAGGCGCCAGATCC 62.926 72.222 35.70 35.70 39.83 3.36
760 762 2.418060 CCAACAACCGAACAAAGCCTTT 60.418 45.455 0.00 0.00 0.00 3.11
761 763 3.181485 CCAACAACCGAACAAAGCCTTTA 60.181 43.478 0.00 0.00 0.00 1.85
762 764 4.425520 CAACAACCGAACAAAGCCTTTAA 58.574 39.130 0.00 0.00 0.00 1.52
775 777 9.914131 AACAAAGCCTTTAATGAGAGAATTAAC 57.086 29.630 0.00 0.00 32.95 2.01
780 782 6.828785 GCCTTTAATGAGAGAATTAACTGGGA 59.171 38.462 0.00 0.00 32.95 4.37
791 793 8.386264 AGAGAATTAACTGGGAAAAATGAGAGA 58.614 33.333 0.00 0.00 0.00 3.10
815 817 3.977244 GTTGCAACGGGTGGCTGG 61.977 66.667 14.90 0.00 0.00 4.85
829 831 3.047796 GTGGCTGGTATTGATACGTACG 58.952 50.000 15.01 15.01 34.11 3.67
837 839 7.561021 TGGTATTGATACGTACGGTAGTAAA 57.439 36.000 21.06 6.53 33.84 2.01
846 848 5.445088 ACGTACGGTAGTAAACCTAGGACG 61.445 50.000 21.06 12.50 46.03 4.79
920 922 1.333619 TCCAGAAACGCAAAGCTGAAC 59.666 47.619 0.00 0.00 0.00 3.18
977 985 3.430098 CCATCTTCTTCCAAGAGAGTCGG 60.430 52.174 0.00 0.00 36.22 4.79
990 998 1.152652 AGTCGGCTCCTCCATCGAT 60.153 57.895 0.00 0.00 34.13 3.59
1056 1065 4.634133 GACACCGCCGTCGTCACA 62.634 66.667 0.00 0.00 0.00 3.58
1104 1113 2.581354 CTCCCGCTCACCTTCCTG 59.419 66.667 0.00 0.00 0.00 3.86
1404 1428 4.492160 CAGCTCGTTCCGCGCCTA 62.492 66.667 0.00 0.00 38.40 3.93
1617 1641 2.885861 GACCGGACGCTCATCACT 59.114 61.111 9.46 0.00 0.00 3.41
1620 1644 1.215382 CCGGACGCTCATCACTGAA 59.785 57.895 0.00 0.00 0.00 3.02
1719 1752 2.651361 CTCCTCGCCACGTTCACT 59.349 61.111 0.00 0.00 0.00 3.41
1941 1977 2.042831 GCAGTTGATGAAGCCGCCT 61.043 57.895 0.00 0.00 0.00 5.52
2043 2079 4.373116 GGGCTCTTCACGGCGTGA 62.373 66.667 36.29 36.29 41.09 4.35
2417 2489 0.035152 GTGAGTCACCATCCATGCCA 60.035 55.000 12.54 0.00 0.00 4.92
2418 2490 0.921166 TGAGTCACCATCCATGCCAT 59.079 50.000 0.00 0.00 0.00 4.40
2421 2493 1.456145 TCACCATCCATGCCATGCC 60.456 57.895 0.00 0.00 0.00 4.40
2422 2494 1.456892 CACCATCCATGCCATGCCT 60.457 57.895 0.00 0.00 0.00 4.75
2423 2495 0.178984 CACCATCCATGCCATGCCTA 60.179 55.000 0.00 0.00 0.00 3.93
2424 2496 0.111832 ACCATCCATGCCATGCCTAG 59.888 55.000 0.00 0.00 0.00 3.02
2425 2497 1.248785 CCATCCATGCCATGCCTAGC 61.249 60.000 0.00 0.00 0.00 3.42
2426 2498 0.251209 CATCCATGCCATGCCTAGCT 60.251 55.000 0.00 0.00 0.00 3.32
2428 2500 1.602888 CCATGCCATGCCTAGCTCC 60.603 63.158 0.00 0.00 0.00 4.70
2429 2501 1.454976 CATGCCATGCCTAGCTCCT 59.545 57.895 0.00 0.00 0.00 3.69
2430 2502 0.889638 CATGCCATGCCTAGCTCCTG 60.890 60.000 0.00 0.00 0.00 3.86
2431 2503 2.065470 ATGCCATGCCTAGCTCCTGG 62.065 60.000 0.00 0.00 0.00 4.45
2432 2504 2.750657 GCCATGCCTAGCTCCTGGT 61.751 63.158 0.00 0.00 0.00 4.00
2463 2535 1.397190 CGAAGTGATCGTGTGTTGTGC 60.397 52.381 0.00 0.00 46.52 4.57
2474 2546 2.791004 GTGTGTTGTGCTTTGATTGAGC 59.209 45.455 0.00 0.00 40.53 4.26
2485 2557 2.941453 TGATTGAGCGAGTGACTACC 57.059 50.000 0.00 0.00 0.00 3.18
2496 2568 1.628846 AGTGACTACCGAAAATGGCCT 59.371 47.619 3.32 0.00 0.00 5.19
2583 2655 6.152154 CGTGTCATATGTATATGGGTGGTCTA 59.848 42.308 10.96 0.00 40.35 2.59
2694 2767 5.753921 ACTGACAACTTTGCTAGTAAGTCAC 59.246 40.000 16.32 6.62 42.38 3.67
2723 2796 7.039882 TGGTTTAATCTTTCTGATCTACGACC 58.960 38.462 0.00 0.00 33.57 4.79
2726 2799 9.152595 GTTTAATCTTTCTGATCTACGACCTTT 57.847 33.333 0.00 0.00 33.57 3.11
2728 2801 9.720769 TTAATCTTTCTGATCTACGACCTTTTT 57.279 29.630 0.00 0.00 33.57 1.94
2729 2802 7.602517 ATCTTTCTGATCTACGACCTTTTTG 57.397 36.000 0.00 0.00 0.00 2.44
2730 2803 5.408604 TCTTTCTGATCTACGACCTTTTTGC 59.591 40.000 0.00 0.00 0.00 3.68
2731 2804 4.265904 TCTGATCTACGACCTTTTTGCA 57.734 40.909 0.00 0.00 0.00 4.08
2732 2805 4.832248 TCTGATCTACGACCTTTTTGCAT 58.168 39.130 0.00 0.00 0.00 3.96
2733 2806 5.245531 TCTGATCTACGACCTTTTTGCATT 58.754 37.500 0.00 0.00 0.00 3.56
2734 2807 5.705441 TCTGATCTACGACCTTTTTGCATTT 59.295 36.000 0.00 0.00 0.00 2.32
2735 2808 6.876789 TCTGATCTACGACCTTTTTGCATTTA 59.123 34.615 0.00 0.00 0.00 1.40
2736 2809 7.552687 TCTGATCTACGACCTTTTTGCATTTAT 59.447 33.333 0.00 0.00 0.00 1.40
2737 2810 7.693952 TGATCTACGACCTTTTTGCATTTATC 58.306 34.615 0.00 0.00 0.00 1.75
2750 2823 3.196039 TGCATTTATCATGGTTGCTGCTT 59.804 39.130 0.00 0.00 34.47 3.91
2756 2829 0.947180 CATGGTTGCTGCTTTGGTGC 60.947 55.000 0.00 0.00 0.00 5.01
2758 2831 2.412937 GTTGCTGCTTTGGTGCGT 59.587 55.556 0.00 0.00 35.36 5.24
2761 2834 2.355009 GCTGCTTTGGTGCGTTGG 60.355 61.111 0.00 0.00 35.36 3.77
2769 2842 2.552599 TTGGTGCGTTGGTTCTATGA 57.447 45.000 0.00 0.00 0.00 2.15
2770 2843 2.552599 TGGTGCGTTGGTTCTATGAA 57.447 45.000 0.00 0.00 0.00 2.57
2787 2860 3.934457 TGAAGTCTTAGCATGACGACA 57.066 42.857 0.00 0.00 39.24 4.35
2791 2864 5.700832 TGAAGTCTTAGCATGACGACATTTT 59.299 36.000 0.00 0.00 39.24 1.82
2802 2875 5.196341 TGACGACATTTTGACTGTCTACT 57.804 39.130 9.51 0.00 40.68 2.57
2803 2876 5.597806 TGACGACATTTTGACTGTCTACTT 58.402 37.500 9.51 0.00 40.68 2.24
2826 2899 2.264005 TAAAGTTTGCTCGGCTCCAA 57.736 45.000 0.00 0.00 0.00 3.53
2827 2900 1.620822 AAAGTTTGCTCGGCTCCAAT 58.379 45.000 0.00 0.00 0.00 3.16
2828 2901 2.489938 AAGTTTGCTCGGCTCCAATA 57.510 45.000 0.00 0.00 0.00 1.90
2830 2903 2.790433 AGTTTGCTCGGCTCCAATAAA 58.210 42.857 0.00 0.00 0.00 1.40
2843 2916 1.609208 CAATAAAGGAGGGGCGATGG 58.391 55.000 0.00 0.00 0.00 3.51
2879 2953 1.276421 ACTCGCTCCAATGCTTGTAGT 59.724 47.619 0.00 0.00 0.00 2.73
2889 2963 5.422012 TCCAATGCTTGTAGTCATCACTAGA 59.578 40.000 0.00 0.00 35.67 2.43
2891 2965 6.765036 CCAATGCTTGTAGTCATCACTAGATT 59.235 38.462 0.00 0.00 35.67 2.40
2896 2970 6.628175 GCTTGTAGTCATCACTAGATTGTCCA 60.628 42.308 0.00 0.00 35.67 4.02
2897 2971 7.423844 TTGTAGTCATCACTAGATTGTCCAT 57.576 36.000 0.00 0.00 35.67 3.41
2899 2973 8.171164 TGTAGTCATCACTAGATTGTCCATAG 57.829 38.462 0.00 0.00 35.67 2.23
2902 2976 7.066142 AGTCATCACTAGATTGTCCATAGACT 58.934 38.462 0.00 0.00 36.77 3.24
2908 2982 7.618117 TCACTAGATTGTCCATAGACTTGGTTA 59.382 37.037 0.00 0.00 43.91 2.85
3002 3076 5.933187 AAAAAGTCATATGTACACGCACA 57.067 34.783 0.00 0.00 0.00 4.57
3006 3080 3.132111 AGTCATATGTACACGCACATGGA 59.868 43.478 0.00 3.85 39.46 3.41
3012 3086 3.780902 TGTACACGCACATGGATAAGAG 58.219 45.455 0.00 0.00 0.00 2.85
3013 3087 1.656652 ACACGCACATGGATAAGAGC 58.343 50.000 0.00 0.00 0.00 4.09
3023 3097 5.985530 CACATGGATAAGAGCGTTATTCTCA 59.014 40.000 0.00 1.31 33.15 3.27
3029 3103 3.678056 AGAGCGTTATTCTCAACCACA 57.322 42.857 0.00 0.00 33.15 4.17
3035 3109 5.019498 GCGTTATTCTCAACCACAAATACG 58.981 41.667 0.00 0.00 0.00 3.06
3067 3141 6.978343 TGTTGCTATATCACACAAACTACC 57.022 37.500 0.00 0.00 0.00 3.18
3077 3151 4.100344 TCACACAAACTACCTACTCAGCAA 59.900 41.667 0.00 0.00 0.00 3.91
3099 3173 3.814577 GCCTTCAGCTACGTCTTCA 57.185 52.632 0.00 0.00 38.99 3.02
3100 3174 1.351153 GCCTTCAGCTACGTCTTCAC 58.649 55.000 0.00 0.00 38.99 3.18
3161 3236 5.467063 CCAACAAACAAGAGTCTACTCCTTC 59.533 44.000 6.50 0.00 43.88 3.46
3170 3245 0.252479 TCTACTCCTTCGAGACGGCT 59.748 55.000 0.00 0.00 38.52 5.52
3175 3250 2.578178 CTTCGAGACGGCTGCGAG 60.578 66.667 0.00 0.00 35.31 5.03
3184 3259 0.601558 ACGGCTGCGAGTCTCTAAAA 59.398 50.000 0.00 0.00 0.00 1.52
3187 3262 2.282820 CGGCTGCGAGTCTCTAAAAATC 59.717 50.000 0.00 0.00 0.00 2.17
3195 3270 7.255569 TGCGAGTCTCTAAAAATCGAATAAGA 58.744 34.615 0.00 0.00 35.47 2.10
3210 3285 9.638239 AATCGAATAAGATTCTTCTCATCTAGC 57.362 33.333 1.27 0.00 36.17 3.42
3213 3288 8.087750 CGAATAAGATTCTTCTCATCTAGCCTT 58.912 37.037 1.27 0.00 30.35 4.35
3218 3293 3.892284 TCTTCTCATCTAGCCTTCGTCT 58.108 45.455 0.00 0.00 0.00 4.18
3219 3294 3.880490 TCTTCTCATCTAGCCTTCGTCTC 59.120 47.826 0.00 0.00 0.00 3.36
3220 3295 2.214347 TCTCATCTAGCCTTCGTCTCG 58.786 52.381 0.00 0.00 0.00 4.04
3221 3296 2.158943 TCTCATCTAGCCTTCGTCTCGA 60.159 50.000 0.00 0.00 0.00 4.04
3222 3297 1.941294 TCATCTAGCCTTCGTCTCGAC 59.059 52.381 0.00 0.00 34.89 4.20
3223 3298 1.671328 CATCTAGCCTTCGTCTCGACA 59.329 52.381 0.00 0.00 34.89 4.35
3224 3299 1.370609 TCTAGCCTTCGTCTCGACAG 58.629 55.000 0.00 0.00 34.89 3.51
3225 3300 1.088306 CTAGCCTTCGTCTCGACAGT 58.912 55.000 0.00 0.00 34.89 3.55
3226 3301 0.803117 TAGCCTTCGTCTCGACAGTG 59.197 55.000 0.00 0.00 34.89 3.66
3227 3302 2.089349 GCCTTCGTCTCGACAGTGC 61.089 63.158 0.00 0.00 34.89 4.40
3228 3303 1.581954 CCTTCGTCTCGACAGTGCT 59.418 57.895 0.00 0.00 34.89 4.40
3229 3304 0.039074 CCTTCGTCTCGACAGTGCTT 60.039 55.000 0.00 0.00 34.89 3.91
3230 3305 1.332178 CTTCGTCTCGACAGTGCTTC 58.668 55.000 0.00 0.00 34.89 3.86
3231 3306 0.952280 TTCGTCTCGACAGTGCTTCT 59.048 50.000 0.00 0.00 34.89 2.85
3232 3307 1.804601 TCGTCTCGACAGTGCTTCTA 58.195 50.000 0.00 0.00 0.00 2.10
3233 3308 1.732809 TCGTCTCGACAGTGCTTCTAG 59.267 52.381 0.00 0.00 0.00 2.43
3234 3309 1.792273 CGTCTCGACAGTGCTTCTAGC 60.792 57.143 0.00 0.00 42.82 3.42
3246 3321 2.945278 GCTTCTAGCATCATCGGAGAG 58.055 52.381 0.00 0.00 40.39 3.20
3247 3322 2.926159 GCTTCTAGCATCATCGGAGAGC 60.926 54.545 0.00 0.00 40.39 4.09
3248 3323 1.986882 TCTAGCATCATCGGAGAGCA 58.013 50.000 0.00 0.00 43.63 4.26
3249 3324 1.611006 TCTAGCATCATCGGAGAGCAC 59.389 52.381 0.00 0.00 43.63 4.40
3250 3325 0.312102 TAGCATCATCGGAGAGCACG 59.688 55.000 0.00 0.00 43.63 5.34
3251 3326 1.227089 GCATCATCGGAGAGCACGT 60.227 57.895 0.00 0.00 43.63 4.49
3252 3327 1.485838 GCATCATCGGAGAGCACGTG 61.486 60.000 12.28 12.28 43.63 4.49
3253 3328 0.873312 CATCATCGGAGAGCACGTGG 60.873 60.000 18.88 0.00 43.63 4.94
3254 3329 1.037579 ATCATCGGAGAGCACGTGGA 61.038 55.000 18.88 4.95 43.63 4.02
3255 3330 1.226802 CATCGGAGAGCACGTGGAG 60.227 63.158 18.88 0.00 43.63 3.86
3256 3331 2.418910 ATCGGAGAGCACGTGGAGG 61.419 63.158 18.88 0.00 43.63 4.30
3257 3332 3.374402 CGGAGAGCACGTGGAGGT 61.374 66.667 18.88 0.00 0.00 3.85
3258 3333 2.262915 GGAGAGCACGTGGAGGTG 59.737 66.667 18.88 0.00 40.89 4.00
3259 3334 2.574955 GGAGAGCACGTGGAGGTGT 61.575 63.158 18.88 0.00 40.08 4.16
3260 3335 1.373497 GAGAGCACGTGGAGGTGTG 60.373 63.158 18.88 0.00 40.08 3.82
3261 3336 2.088674 GAGAGCACGTGGAGGTGTGT 62.089 60.000 18.88 0.00 40.08 3.72
3262 3337 1.956170 GAGCACGTGGAGGTGTGTG 60.956 63.158 18.88 0.00 40.08 3.82
3263 3338 2.203015 GCACGTGGAGGTGTGTGT 60.203 61.111 18.88 0.00 40.08 3.72
3277 3352 0.362512 GTGTGTTCGACGAATCTCGC 59.637 55.000 14.27 8.30 45.12 5.03
3279 3354 0.635731 GTGTTCGACGAATCTCGCAG 59.364 55.000 14.27 0.00 45.12 5.18
3284 3359 1.124462 CGACGAATCTCGCAGGATTC 58.876 55.000 14.82 14.82 45.12 2.52
3299 3374 1.534729 GATTCAGCCGGTGGTTTTCT 58.465 50.000 1.90 0.00 0.00 2.52
3315 3390 4.881273 GGTTTTCTTTTGGTGGATTTGCTT 59.119 37.500 0.00 0.00 0.00 3.91
3320 3395 6.916360 TCTTTTGGTGGATTTGCTTAGATT 57.084 33.333 0.00 0.00 0.00 2.40
3352 3427 4.233123 TCGTCTACGTTCATGTGTCTTT 57.767 40.909 0.00 0.00 40.80 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
74 75 1.468520 GGCGCTGCTCAAACTTCATAA 59.531 47.619 7.64 0.00 0.00 1.90
648 650 6.558009 TCTATGCTTTCATTCATGCTTTCAC 58.442 36.000 0.00 0.00 34.22 3.18
655 657 5.618236 TCCCTCTCTATGCTTTCATTCATG 58.382 41.667 0.00 0.00 34.22 3.07
656 658 5.745476 GCTCCCTCTCTATGCTTTCATTCAT 60.745 44.000 0.00 0.00 34.22 2.57
657 659 4.444022 GCTCCCTCTCTATGCTTTCATTCA 60.444 45.833 0.00 0.00 34.22 2.57
658 660 4.064388 GCTCCCTCTCTATGCTTTCATTC 58.936 47.826 0.00 0.00 34.22 2.67
659 661 3.457380 TGCTCCCTCTCTATGCTTTCATT 59.543 43.478 0.00 0.00 34.22 2.57
660 662 3.044156 TGCTCCCTCTCTATGCTTTCAT 58.956 45.455 0.00 0.00 36.73 2.57
661 663 2.433604 CTGCTCCCTCTCTATGCTTTCA 59.566 50.000 0.00 0.00 0.00 2.69
662 664 2.224257 CCTGCTCCCTCTCTATGCTTTC 60.224 54.545 0.00 0.00 0.00 2.62
663 665 1.767681 CCTGCTCCCTCTCTATGCTTT 59.232 52.381 0.00 0.00 0.00 3.51
664 666 1.422531 CCTGCTCCCTCTCTATGCTT 58.577 55.000 0.00 0.00 0.00 3.91
665 667 1.120795 GCCTGCTCCCTCTCTATGCT 61.121 60.000 0.00 0.00 0.00 3.79
666 668 1.370810 GCCTGCTCCCTCTCTATGC 59.629 63.158 0.00 0.00 0.00 3.14
667 669 1.664873 CGCCTGCTCCCTCTCTATG 59.335 63.158 0.00 0.00 0.00 2.23
668 670 2.206536 GCGCCTGCTCCCTCTCTAT 61.207 63.158 0.00 0.00 38.39 1.98
669 671 2.835431 GCGCCTGCTCCCTCTCTA 60.835 66.667 0.00 0.00 38.39 2.43
675 677 4.925861 GATCTGGCGCCTGCTCCC 62.926 72.222 29.70 12.42 42.25 4.30
676 678 4.925861 GGATCTGGCGCCTGCTCC 62.926 72.222 31.94 31.94 42.25 4.70
677 679 4.925861 GGGATCTGGCGCCTGCTC 62.926 72.222 29.70 26.51 42.25 4.26
679 681 4.925861 GAGGGATCTGGCGCCTGC 62.926 72.222 29.70 13.07 41.71 4.85
680 682 4.247380 GGAGGGATCTGGCGCCTG 62.247 72.222 29.70 27.77 0.00 4.85
681 683 4.488911 AGGAGGGATCTGGCGCCT 62.489 66.667 29.70 7.33 0.00 5.52
682 684 4.247380 CAGGAGGGATCTGGCGCC 62.247 72.222 22.73 22.73 0.00 6.53
683 685 2.093537 CTACAGGAGGGATCTGGCGC 62.094 65.000 0.00 0.00 36.62 6.53
684 686 1.467678 CCTACAGGAGGGATCTGGCG 61.468 65.000 0.00 0.00 42.39 5.69
685 687 2.446512 CCTACAGGAGGGATCTGGC 58.553 63.158 0.00 0.00 42.39 4.85
693 695 0.845102 AACCAACCCCCTACAGGAGG 60.845 60.000 0.00 0.00 46.25 4.30
705 707 2.671963 GCCACGGAGGAACCAACC 60.672 66.667 0.00 0.00 41.22 3.77
761 763 9.312904 TCATTTTTCCCAGTTAATTCTCTCATT 57.687 29.630 0.00 0.00 0.00 2.57
762 764 8.884124 TCATTTTTCCCAGTTAATTCTCTCAT 57.116 30.769 0.00 0.00 0.00 2.90
775 777 4.639310 CCTCACATCTCTCATTTTTCCCAG 59.361 45.833 0.00 0.00 0.00 4.45
780 782 4.828939 TGCAACCTCACATCTCTCATTTTT 59.171 37.500 0.00 0.00 0.00 1.94
791 793 1.150536 ACCCGTTGCAACCTCACAT 59.849 52.632 23.42 1.04 0.00 3.21
815 817 7.837898 GGTTTACTACCGTACGTATCAATAC 57.162 40.000 15.21 4.79 37.12 1.89
837 839 1.001376 GTCCCTTCCCGTCCTAGGT 59.999 63.158 9.08 0.00 0.00 3.08
846 848 4.091939 CGGGTTCCGTCCCTTCCC 62.092 72.222 0.00 0.00 44.95 3.97
977 985 1.373059 GGGGAATCGATGGAGGAGC 59.627 63.158 0.00 0.00 0.00 4.70
990 998 2.676121 CGTGCCATTGCTGGGGAA 60.676 61.111 0.00 0.00 43.36 3.97
1104 1113 0.257039 AATGGATCCACTGCAGGTCC 59.743 55.000 18.99 18.51 32.68 4.46
1586 1610 2.710902 CGGTCGATGACAGGAGCCA 61.711 63.158 0.00 0.00 33.68 4.75
1617 1641 2.284331 TAGAGGCCTGCCGGTTCA 60.284 61.111 12.00 0.00 41.95 3.18
1620 1644 4.753662 TCGTAGAGGCCTGCCGGT 62.754 66.667 12.00 0.00 41.95 5.28
1719 1752 2.533435 AGGTGCTCCCTGGACAGA 59.467 61.111 0.00 0.00 44.08 3.41
2025 2061 4.680237 CACGCCGTGAAGAGCCCA 62.680 66.667 12.85 0.00 35.23 5.36
2364 2436 1.398390 GCAATCCATCAACGAGTGTCC 59.602 52.381 0.00 0.00 0.00 4.02
2417 2489 0.031716 TCAGACCAGGAGCTAGGCAT 60.032 55.000 0.00 0.00 0.00 4.40
2418 2490 0.685785 CTCAGACCAGGAGCTAGGCA 60.686 60.000 0.00 0.00 0.00 4.75
2421 2493 1.476085 CACACTCAGACCAGGAGCTAG 59.524 57.143 0.00 0.00 35.79 3.42
2422 2494 1.203063 ACACACTCAGACCAGGAGCTA 60.203 52.381 0.00 0.00 35.79 3.32
2423 2495 0.470833 ACACACTCAGACCAGGAGCT 60.471 55.000 0.00 0.00 35.79 4.09
2424 2496 0.037790 GACACACTCAGACCAGGAGC 60.038 60.000 0.00 0.00 35.79 4.70
2425 2497 0.242286 CGACACACTCAGACCAGGAG 59.758 60.000 0.00 0.00 38.36 3.69
2426 2498 0.179001 TCGACACACTCAGACCAGGA 60.179 55.000 0.00 0.00 0.00 3.86
2428 2500 1.338337 ACTTCGACACACTCAGACCAG 59.662 52.381 0.00 0.00 0.00 4.00
2429 2501 1.067060 CACTTCGACACACTCAGACCA 59.933 52.381 0.00 0.00 0.00 4.02
2430 2502 1.337071 TCACTTCGACACACTCAGACC 59.663 52.381 0.00 0.00 0.00 3.85
2431 2503 2.776312 TCACTTCGACACACTCAGAC 57.224 50.000 0.00 0.00 0.00 3.51
2432 2504 3.560902 GATCACTTCGACACACTCAGA 57.439 47.619 0.00 0.00 0.00 3.27
2463 2535 3.614616 GGTAGTCACTCGCTCAATCAAAG 59.385 47.826 0.00 0.00 0.00 2.77
2474 2546 1.659098 GCCATTTTCGGTAGTCACTCG 59.341 52.381 0.00 0.00 0.00 4.18
2485 2557 2.995258 CCATTCAACAAGGCCATTTTCG 59.005 45.455 5.01 0.00 0.00 3.46
2496 2568 5.121454 GCTTTTGTCAACAACCATTCAACAA 59.879 36.000 0.00 0.00 35.28 2.83
2712 2785 5.957842 AAATGCAAAAAGGTCGTAGATCA 57.042 34.783 0.00 0.00 42.44 2.92
2713 2786 7.693952 TGATAAATGCAAAAAGGTCGTAGATC 58.306 34.615 0.00 0.00 40.67 2.75
2723 2796 6.539324 CAGCAACCATGATAAATGCAAAAAG 58.461 36.000 0.00 0.00 39.42 2.27
2726 2799 3.933955 GCAGCAACCATGATAAATGCAAA 59.066 39.130 0.00 0.00 39.42 3.68
2728 2801 2.761767 AGCAGCAACCATGATAAATGCA 59.238 40.909 12.54 0.00 39.42 3.96
2729 2802 3.447918 AGCAGCAACCATGATAAATGC 57.552 42.857 0.00 0.00 37.28 3.56
2730 2803 4.569162 CCAAAGCAGCAACCATGATAAATG 59.431 41.667 0.00 0.00 0.00 2.32
2731 2804 4.223477 ACCAAAGCAGCAACCATGATAAAT 59.777 37.500 0.00 0.00 0.00 1.40
2732 2805 3.577848 ACCAAAGCAGCAACCATGATAAA 59.422 39.130 0.00 0.00 0.00 1.40
2733 2806 3.056678 CACCAAAGCAGCAACCATGATAA 60.057 43.478 0.00 0.00 0.00 1.75
2734 2807 2.492881 CACCAAAGCAGCAACCATGATA 59.507 45.455 0.00 0.00 0.00 2.15
2735 2808 1.274167 CACCAAAGCAGCAACCATGAT 59.726 47.619 0.00 0.00 0.00 2.45
2736 2809 0.675083 CACCAAAGCAGCAACCATGA 59.325 50.000 0.00 0.00 0.00 3.07
2737 2810 0.947180 GCACCAAAGCAGCAACCATG 60.947 55.000 0.00 0.00 0.00 3.66
2750 2823 2.552599 TCATAGAACCAACGCACCAA 57.447 45.000 0.00 0.00 0.00 3.67
2756 2829 5.168569 TGCTAAGACTTCATAGAACCAACG 58.831 41.667 0.00 0.00 0.00 4.10
2758 2831 6.818644 GTCATGCTAAGACTTCATAGAACCAA 59.181 38.462 0.00 0.00 33.29 3.67
2761 2834 6.197468 GTCGTCATGCTAAGACTTCATAGAAC 59.803 42.308 0.00 0.00 33.89 3.01
2769 2842 5.700832 TCAAAATGTCGTCATGCTAAGACTT 59.299 36.000 0.00 0.00 34.19 3.01
2770 2843 5.120830 GTCAAAATGTCGTCATGCTAAGACT 59.879 40.000 0.00 0.00 34.19 3.24
2802 2875 4.762765 TGGAGCCGAGCAAACTTTATTAAA 59.237 37.500 0.00 0.00 0.00 1.52
2803 2876 4.328536 TGGAGCCGAGCAAACTTTATTAA 58.671 39.130 0.00 0.00 0.00 1.40
2826 2899 1.456287 GCCATCGCCCCTCCTTTAT 59.544 57.895 0.00 0.00 0.00 1.40
2827 2900 2.915869 GCCATCGCCCCTCCTTTA 59.084 61.111 0.00 0.00 0.00 1.85
2828 2901 4.489771 CGCCATCGCCCCTCCTTT 62.490 66.667 0.00 0.00 0.00 3.11
2849 2922 2.876645 GAGCGAGTCGAAGGCGTG 60.877 66.667 18.61 0.00 36.95 5.34
2850 2923 4.117661 GGAGCGAGTCGAAGGCGT 62.118 66.667 18.61 0.00 36.95 5.68
2879 2953 7.201947 CCAAGTCTATGGACAATCTAGTGATGA 60.202 40.741 12.16 0.00 43.54 2.92
2980 3054 5.933187 TGTGCGTGTACATATGACTTTTT 57.067 34.783 10.38 0.00 0.00 1.94
2991 3065 3.780902 CTCTTATCCATGTGCGTGTACA 58.219 45.455 0.00 0.00 34.63 2.90
2992 3066 2.540101 GCTCTTATCCATGTGCGTGTAC 59.460 50.000 0.00 0.00 0.00 2.90
2999 3073 5.985530 TGAGAATAACGCTCTTATCCATGTG 59.014 40.000 0.00 0.00 33.57 3.21
3002 3076 5.992217 GGTTGAGAATAACGCTCTTATCCAT 59.008 40.000 0.00 0.00 33.57 3.41
3006 3080 5.730550 TGTGGTTGAGAATAACGCTCTTAT 58.269 37.500 0.00 0.00 33.57 1.73
3012 3086 5.019498 CGTATTTGTGGTTGAGAATAACGC 58.981 41.667 0.00 0.00 0.00 4.84
3013 3087 5.349270 TCCGTATTTGTGGTTGAGAATAACG 59.651 40.000 0.00 0.00 0.00 3.18
3023 3097 5.741011 ACATATCAGTCCGTATTTGTGGTT 58.259 37.500 0.00 0.00 0.00 3.67
3029 3103 9.587772 GATATAGCAACATATCAGTCCGTATTT 57.412 33.333 7.66 0.00 37.68 1.40
3035 3109 7.154656 TGTGTGATATAGCAACATATCAGTCC 58.845 38.462 13.08 5.90 44.58 3.85
3067 3141 3.365767 GCTGAAGGCTTTTTGCTGAGTAG 60.366 47.826 0.00 0.00 42.39 2.57
3095 3169 1.283793 CAAGCCCGTGCAAGTGAAG 59.716 57.895 0.00 0.00 41.13 3.02
3096 3170 2.192861 CCAAGCCCGTGCAAGTGAA 61.193 57.895 0.00 0.00 41.13 3.18
3098 3172 4.347453 GCCAAGCCCGTGCAAGTG 62.347 66.667 0.00 0.00 41.13 3.16
3099 3173 4.586235 AGCCAAGCCCGTGCAAGT 62.586 61.111 0.00 0.00 41.13 3.16
3100 3174 3.741476 GAGCCAAGCCCGTGCAAG 61.741 66.667 0.00 0.00 41.13 4.01
3161 3236 3.726631 GAGACTCGCAGCCGTCTCG 62.727 68.421 18.60 0.00 41.83 4.04
3170 3245 7.255569 TCTTATTCGATTTTTAGAGACTCGCA 58.744 34.615 0.00 0.00 0.00 5.10
3184 3259 9.638239 GCTAGATGAGAAGAATCTTATTCGATT 57.362 33.333 0.00 0.00 35.54 3.34
3187 3262 7.601856 AGGCTAGATGAGAAGAATCTTATTCG 58.398 38.462 0.00 0.00 35.54 3.34
3195 3270 4.892934 AGACGAAGGCTAGATGAGAAGAAT 59.107 41.667 0.00 0.00 0.00 2.40
3201 3276 2.032377 GTCGAGACGAAGGCTAGATGAG 60.032 54.545 0.00 0.00 37.72 2.90
3202 3277 1.941294 GTCGAGACGAAGGCTAGATGA 59.059 52.381 0.00 0.00 37.72 2.92
3210 3285 0.039074 AAGCACTGTCGAGACGAAGG 60.039 55.000 0.00 0.00 37.72 3.46
3213 3288 1.732809 CTAGAAGCACTGTCGAGACGA 59.267 52.381 0.00 0.00 0.00 4.20
3226 3301 2.926159 GCTCTCCGATGATGCTAGAAGC 60.926 54.545 0.00 0.00 42.82 3.86
3227 3302 2.295629 TGCTCTCCGATGATGCTAGAAG 59.704 50.000 0.00 0.00 0.00 2.85
3228 3303 2.035193 GTGCTCTCCGATGATGCTAGAA 59.965 50.000 0.00 0.00 0.00 2.10
3229 3304 1.611006 GTGCTCTCCGATGATGCTAGA 59.389 52.381 0.00 0.00 0.00 2.43
3230 3305 1.665448 CGTGCTCTCCGATGATGCTAG 60.665 57.143 0.00 0.00 0.00 3.42
3231 3306 0.312102 CGTGCTCTCCGATGATGCTA 59.688 55.000 0.00 0.00 0.00 3.49
3232 3307 1.067084 CGTGCTCTCCGATGATGCT 59.933 57.895 0.00 0.00 0.00 3.79
3233 3308 1.227089 ACGTGCTCTCCGATGATGC 60.227 57.895 0.00 0.00 0.00 3.91
3234 3309 0.873312 CCACGTGCTCTCCGATGATG 60.873 60.000 10.91 0.00 0.00 3.07
3235 3310 1.037579 TCCACGTGCTCTCCGATGAT 61.038 55.000 10.91 0.00 0.00 2.45
3236 3311 1.657751 CTCCACGTGCTCTCCGATGA 61.658 60.000 10.91 0.00 0.00 2.92
3237 3312 1.226802 CTCCACGTGCTCTCCGATG 60.227 63.158 10.91 0.00 0.00 3.84
3238 3313 2.418910 CCTCCACGTGCTCTCCGAT 61.419 63.158 10.91 0.00 0.00 4.18
3239 3314 3.062466 CCTCCACGTGCTCTCCGA 61.062 66.667 10.91 0.00 0.00 4.55
3240 3315 3.374402 ACCTCCACGTGCTCTCCG 61.374 66.667 10.91 0.00 0.00 4.63
3241 3316 2.262915 CACCTCCACGTGCTCTCC 59.737 66.667 10.91 0.00 0.00 3.71
3242 3317 1.373497 CACACCTCCACGTGCTCTC 60.373 63.158 10.91 0.00 37.25 3.20
3243 3318 2.134287 ACACACCTCCACGTGCTCT 61.134 57.895 10.91 0.00 37.25 4.09
3244 3319 1.956170 CACACACCTCCACGTGCTC 60.956 63.158 10.91 0.00 37.25 4.26
3245 3320 2.108976 CACACACCTCCACGTGCT 59.891 61.111 10.91 0.00 37.25 4.40
3246 3321 1.772063 GAACACACACCTCCACGTGC 61.772 60.000 10.91 0.00 37.25 5.34
3247 3322 1.487452 CGAACACACACCTCCACGTG 61.487 60.000 9.08 9.08 39.75 4.49
3248 3323 1.227147 CGAACACACACCTCCACGT 60.227 57.895 0.00 0.00 0.00 4.49
3249 3324 1.066752 TCGAACACACACCTCCACG 59.933 57.895 0.00 0.00 0.00 4.94
3250 3325 1.213094 CGTCGAACACACACCTCCAC 61.213 60.000 0.00 0.00 0.00 4.02
3251 3326 1.066752 CGTCGAACACACACCTCCA 59.933 57.895 0.00 0.00 0.00 3.86
3252 3327 0.249155 TTCGTCGAACACACACCTCC 60.249 55.000 2.90 0.00 0.00 4.30
3253 3328 1.719780 GATTCGTCGAACACACACCTC 59.280 52.381 10.39 0.00 0.00 3.85
3254 3329 1.340248 AGATTCGTCGAACACACACCT 59.660 47.619 10.39 0.00 0.00 4.00
3255 3330 1.719780 GAGATTCGTCGAACACACACC 59.280 52.381 10.39 0.00 0.00 4.16
3256 3331 1.382419 CGAGATTCGTCGAACACACAC 59.618 52.381 10.39 1.10 42.85 3.82
3257 3332 1.681825 CGAGATTCGTCGAACACACA 58.318 50.000 10.39 0.00 42.85 3.72
3258 3333 0.362512 GCGAGATTCGTCGAACACAC 59.637 55.000 10.39 5.71 42.85 3.82
3259 3334 0.039888 TGCGAGATTCGTCGAACACA 60.040 50.000 10.39 1.75 42.85 3.72
3260 3335 0.635731 CTGCGAGATTCGTCGAACAC 59.364 55.000 10.39 7.78 42.85 3.32
3261 3336 0.456142 CCTGCGAGATTCGTCGAACA 60.456 55.000 10.39 2.46 42.85 3.18
3262 3337 0.179171 TCCTGCGAGATTCGTCGAAC 60.179 55.000 10.39 4.74 42.85 3.95
3263 3338 0.738975 ATCCTGCGAGATTCGTCGAA 59.261 50.000 10.61 10.61 42.85 3.71
3277 3352 0.609131 AAACCACCGGCTGAATCCTG 60.609 55.000 0.00 0.00 0.00 3.86
3279 3354 0.526211 GAAAACCACCGGCTGAATCC 59.474 55.000 0.00 0.00 0.00 3.01
3284 3359 1.537990 CCAAAAGAAAACCACCGGCTG 60.538 52.381 0.00 0.00 0.00 4.85
3299 3374 5.336372 CCGAATCTAAGCAAATCCACCAAAA 60.336 40.000 0.00 0.00 0.00 2.44
3315 3390 4.778534 AGACGAACAAAGACCGAATCTA 57.221 40.909 0.00 0.00 36.27 1.98
3320 3395 1.603802 ACGTAGACGAACAAAGACCGA 59.396 47.619 9.41 0.00 43.02 4.69


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

AutoCloner maintained by Alex Coulton.