Multiple sequence alignment - TraesCS2A01G114500

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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 TraesCS2A01G114500 chr2A 100.000 2765 0 0 1 2765 65413739 65410975 0.000 5107.0
1 TraesCS2A01G114500 chr2A 100.000 28 0 0 727 754 276050775 276050748 0.005 52.8
2 TraesCS2A01G114500 chr3B 99.050 2001 17 1 767 2765 54309580 54311580 0.000 3589.0
3 TraesCS2A01G114500 chr5B 99.050 2001 16 2 767 2765 580378858 580380857 0.000 3587.0
4 TraesCS2A01G114500 chr7A 99.095 1989 16 1 779 2765 705595628 705597616 0.000 3572.0
5 TraesCS2A01G114500 chr7A 98.799 1998 22 1 770 2765 639765236 639767233 0.000 3555.0
6 TraesCS2A01G114500 chr3A 98.901 2001 20 1 767 2765 517103537 517101537 0.000 3572.0
7 TraesCS2A01G114500 chr3A 98.901 2001 19 2 767 2765 508181260 508179261 0.000 3570.0
8 TraesCS2A01G114500 chr2B 98.851 2001 21 1 767 2765 384098877 384100877 0.000 3567.0
9 TraesCS2A01G114500 chr2B 98.751 2001 23 1 767 2765 157368739 157366739 0.000 3555.0
10 TraesCS2A01G114500 chr5A 98.850 2000 21 1 768 2765 2081447 2079448 0.000 3565.0
11 TraesCS2A01G114500 chr2D 91.118 653 52 3 79 726 63758211 63757560 0.000 880.0


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 TraesCS2A01G114500 chr2A 65410975 65413739 2764 True 5107 5107 100.000 1 2765 1 chr2A.!!$R1 2764
1 TraesCS2A01G114500 chr3B 54309580 54311580 2000 False 3589 3589 99.050 767 2765 1 chr3B.!!$F1 1998
2 TraesCS2A01G114500 chr5B 580378858 580380857 1999 False 3587 3587 99.050 767 2765 1 chr5B.!!$F1 1998
3 TraesCS2A01G114500 chr7A 705595628 705597616 1988 False 3572 3572 99.095 779 2765 1 chr7A.!!$F2 1986
4 TraesCS2A01G114500 chr7A 639765236 639767233 1997 False 3555 3555 98.799 770 2765 1 chr7A.!!$F1 1995
5 TraesCS2A01G114500 chr3A 517101537 517103537 2000 True 3572 3572 98.901 767 2765 1 chr3A.!!$R2 1998
6 TraesCS2A01G114500 chr3A 508179261 508181260 1999 True 3570 3570 98.901 767 2765 1 chr3A.!!$R1 1998
7 TraesCS2A01G114500 chr2B 384098877 384100877 2000 False 3567 3567 98.851 767 2765 1 chr2B.!!$F1 1998
8 TraesCS2A01G114500 chr2B 157366739 157368739 2000 True 3555 3555 98.751 767 2765 1 chr2B.!!$R1 1998
9 TraesCS2A01G114500 chr5A 2079448 2081447 1999 True 3565 3565 98.850 768 2765 1 chr5A.!!$R1 1997
10 TraesCS2A01G114500 chr2D 63757560 63758211 651 True 880 880 91.118 79 726 1 chr2D.!!$R1 647

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
47 48 0.036388 TCAACCGCCATCAGTTCCTC 60.036 55.0 0.00 0.0 0.0 3.71 F
748 768 0.250234 CCGAGCTCCAGAATCCAACA 59.750 55.0 8.47 0.0 0.0 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1028 1048 1.078848 GTCGTCTCCTTGCCATGCT 60.079 57.895 0.00 0.00 0.0 3.79 R
2067 2087 1.335780 CCTTCTCCATCATCGCTCGAG 60.336 57.143 8.45 8.45 0.0 4.04 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
21 22 3.161817 GCAGCTGCAAAATTGGCG 58.838 55.556 33.36 0.00 41.59 5.69
22 23 2.385091 GCAGCTGCAAAATTGGCGG 61.385 57.895 33.36 0.00 41.59 6.13
25 26 2.810458 CTGCAAAATTGGCGGCCG 60.810 61.111 24.05 24.05 0.00 6.13
26 27 4.370066 TGCAAAATTGGCGGCCGG 62.370 61.111 29.38 8.50 0.00 6.13
28 29 3.690280 CAAAATTGGCGGCCGGGT 61.690 61.111 29.38 0.00 0.00 5.28
29 30 3.378602 AAAATTGGCGGCCGGGTC 61.379 61.111 29.38 10.40 0.00 4.46
30 31 4.669809 AAATTGGCGGCCGGGTCA 62.670 61.111 29.38 3.44 0.00 4.02
31 32 4.669809 AATTGGCGGCCGGGTCAA 62.670 61.111 29.38 14.20 35.75 3.18
42 43 2.351276 GGGTCAACCGCCATCAGT 59.649 61.111 0.00 0.00 36.71 3.41
43 44 1.303317 GGGTCAACCGCCATCAGTT 60.303 57.895 0.00 0.00 36.71 3.16
44 45 1.305930 GGGTCAACCGCCATCAGTTC 61.306 60.000 0.00 0.00 36.71 3.01
45 46 1.305930 GGTCAACCGCCATCAGTTCC 61.306 60.000 0.00 0.00 0.00 3.62
46 47 0.321653 GTCAACCGCCATCAGTTCCT 60.322 55.000 0.00 0.00 0.00 3.36
47 48 0.036388 TCAACCGCCATCAGTTCCTC 60.036 55.000 0.00 0.00 0.00 3.71
48 49 1.026718 CAACCGCCATCAGTTCCTCC 61.027 60.000 0.00 0.00 0.00 4.30
49 50 1.201429 AACCGCCATCAGTTCCTCCT 61.201 55.000 0.00 0.00 0.00 3.69
50 51 1.144936 CCGCCATCAGTTCCTCCTC 59.855 63.158 0.00 0.00 0.00 3.71
51 52 1.144936 CGCCATCAGTTCCTCCTCC 59.855 63.158 0.00 0.00 0.00 4.30
52 53 1.333636 CGCCATCAGTTCCTCCTCCT 61.334 60.000 0.00 0.00 0.00 3.69
53 54 0.467804 GCCATCAGTTCCTCCTCCTC 59.532 60.000 0.00 0.00 0.00 3.71
54 55 1.969240 GCCATCAGTTCCTCCTCCTCT 60.969 57.143 0.00 0.00 0.00 3.69
55 56 2.476199 CCATCAGTTCCTCCTCCTCTT 58.524 52.381 0.00 0.00 0.00 2.85
56 57 2.433970 CCATCAGTTCCTCCTCCTCTTC 59.566 54.545 0.00 0.00 0.00 2.87
57 58 2.239681 TCAGTTCCTCCTCCTCTTCC 57.760 55.000 0.00 0.00 0.00 3.46
58 59 1.719378 TCAGTTCCTCCTCCTCTTCCT 59.281 52.381 0.00 0.00 0.00 3.36
59 60 2.112691 TCAGTTCCTCCTCCTCTTCCTT 59.887 50.000 0.00 0.00 0.00 3.36
60 61 2.235898 CAGTTCCTCCTCCTCTTCCTTG 59.764 54.545 0.00 0.00 0.00 3.61
61 62 2.158081 AGTTCCTCCTCCTCTTCCTTGT 60.158 50.000 0.00 0.00 0.00 3.16
62 63 1.944177 TCCTCCTCCTCTTCCTTGTG 58.056 55.000 0.00 0.00 0.00 3.33
63 64 0.251634 CCTCCTCCTCTTCCTTGTGC 59.748 60.000 0.00 0.00 0.00 4.57
64 65 1.274712 CTCCTCCTCTTCCTTGTGCT 58.725 55.000 0.00 0.00 0.00 4.40
65 66 1.206849 CTCCTCCTCTTCCTTGTGCTC 59.793 57.143 0.00 0.00 0.00 4.26
66 67 0.251634 CCTCCTCTTCCTTGTGCTCC 59.748 60.000 0.00 0.00 0.00 4.70
67 68 1.274712 CTCCTCTTCCTTGTGCTCCT 58.725 55.000 0.00 0.00 0.00 3.69
68 69 1.206849 CTCCTCTTCCTTGTGCTCCTC 59.793 57.143 0.00 0.00 0.00 3.71
69 70 0.251634 CCTCTTCCTTGTGCTCCTCC 59.748 60.000 0.00 0.00 0.00 4.30
70 71 0.979665 CTCTTCCTTGTGCTCCTCCA 59.020 55.000 0.00 0.00 0.00 3.86
71 72 1.558756 CTCTTCCTTGTGCTCCTCCAT 59.441 52.381 0.00 0.00 0.00 3.41
72 73 1.280133 TCTTCCTTGTGCTCCTCCATG 59.720 52.381 0.00 0.00 0.00 3.66
73 74 0.329261 TTCCTTGTGCTCCTCCATGG 59.671 55.000 4.97 4.97 37.10 3.66
74 75 1.751927 CCTTGTGCTCCTCCATGGC 60.752 63.158 6.96 0.00 35.26 4.40
75 76 2.046023 TTGTGCTCCTCCATGGCG 60.046 61.111 6.96 0.00 35.26 5.69
76 77 2.526450 CTTGTGCTCCTCCATGGCGA 62.526 60.000 6.96 3.88 35.26 5.54
77 78 2.512515 GTGCTCCTCCATGGCGAC 60.513 66.667 6.96 0.00 35.26 5.19
111 112 2.356667 GGGTTGCCCTCCTCCTTG 59.643 66.667 0.00 0.00 41.34 3.61
131 132 1.153469 CTTCCTCCGAGCTTGCCTC 60.153 63.158 0.00 0.00 37.22 4.70
141 142 1.303155 GCTTGCCTCCACAGAGCTT 60.303 57.895 0.00 0.00 38.96 3.74
153 154 0.879765 CAGAGCTTGAAGGTTGGCTG 59.120 55.000 0.00 0.00 35.01 4.85
196 197 1.574702 GGCTTTGCGACGCTTACCTT 61.575 55.000 22.08 0.00 0.00 3.50
215 216 2.308039 GGAGACGTTTTCTGCGCGT 61.308 57.895 8.43 0.00 41.81 6.01
224 225 3.807631 TTCTGCGCGTTGCTCTGGT 62.808 57.895 8.43 0.00 46.63 4.00
225 226 4.081030 CTGCGCGTTGCTCTGGTG 62.081 66.667 8.43 0.00 46.63 4.17
256 257 8.607459 CATCTTGTAGTATGTGATCTTTTGTCC 58.393 37.037 0.00 0.00 0.00 4.02
282 283 2.698803 TGATGACATTGGACAACCTCG 58.301 47.619 0.00 0.00 37.04 4.63
326 346 1.885388 CAACGGTGGAAGTGCGTGA 60.885 57.895 0.00 0.00 0.00 4.35
327 347 1.594293 AACGGTGGAAGTGCGTGAG 60.594 57.895 0.00 0.00 0.00 3.51
328 348 2.738521 CGGTGGAAGTGCGTGAGG 60.739 66.667 0.00 0.00 0.00 3.86
329 349 2.358737 GGTGGAAGTGCGTGAGGG 60.359 66.667 0.00 0.00 0.00 4.30
330 350 2.426023 GTGGAAGTGCGTGAGGGT 59.574 61.111 0.00 0.00 0.00 4.34
331 351 1.961277 GTGGAAGTGCGTGAGGGTG 60.961 63.158 0.00 0.00 0.00 4.61
332 352 2.358737 GGAAGTGCGTGAGGGTGG 60.359 66.667 0.00 0.00 0.00 4.61
333 353 2.426023 GAAGTGCGTGAGGGTGGT 59.574 61.111 0.00 0.00 0.00 4.16
334 354 1.961277 GAAGTGCGTGAGGGTGGTG 60.961 63.158 0.00 0.00 0.00 4.17
335 355 3.476031 AAGTGCGTGAGGGTGGTGG 62.476 63.158 0.00 0.00 0.00 4.61
336 356 3.936203 GTGCGTGAGGGTGGTGGA 61.936 66.667 0.00 0.00 0.00 4.02
337 357 3.164977 TGCGTGAGGGTGGTGGAA 61.165 61.111 0.00 0.00 0.00 3.53
338 358 2.112297 GCGTGAGGGTGGTGGAAA 59.888 61.111 0.00 0.00 0.00 3.13
339 359 1.303317 GCGTGAGGGTGGTGGAAAT 60.303 57.895 0.00 0.00 0.00 2.17
340 360 1.586154 GCGTGAGGGTGGTGGAAATG 61.586 60.000 0.00 0.00 0.00 2.32
382 402 3.813724 GTCGTCAGCCTCCTTTTTAAAGT 59.186 43.478 1.91 0.00 34.20 2.66
384 404 3.813166 CGTCAGCCTCCTTTTTAAAGTCA 59.187 43.478 1.91 0.00 34.20 3.41
410 430 1.453155 CTCCTCGGGTTGTGAATTGG 58.547 55.000 0.00 0.00 0.00 3.16
412 432 1.501741 CTCGGGTTGTGAATTGGCG 59.498 57.895 0.00 0.00 0.00 5.69
434 454 3.751479 TCGCACTATGAATGCAGGTAT 57.249 42.857 0.00 0.00 43.57 2.73
449 469 3.324117 CAGGTATGCGAAGAGATGATGG 58.676 50.000 0.00 0.00 0.00 3.51
477 497 1.493772 TAAGTGTGAAACCACGAGCG 58.506 50.000 0.00 0.00 40.33 5.03
507 527 4.019771 GGGCTTTTGGATGGTTTTGGATTA 60.020 41.667 0.00 0.00 0.00 1.75
519 539 6.895782 TGGTTTTGGATTATCGGAGTCTTAT 58.104 36.000 0.00 0.00 0.00 1.73
570 590 2.030540 CCACTGATTTGAGGTTGTGCTG 60.031 50.000 0.00 0.00 0.00 4.41
573 593 1.144708 TGATTTGAGGTTGTGCTGGGA 59.855 47.619 0.00 0.00 0.00 4.37
614 634 2.111043 CGGCAATATGGACGGCCT 59.889 61.111 9.82 0.00 44.23 5.19
641 661 2.483106 GAGGCCTAAAAGTGTTCGGTTC 59.517 50.000 4.42 0.00 0.00 3.62
643 663 2.225727 GGCCTAAAAGTGTTCGGTTCAG 59.774 50.000 0.00 0.00 0.00 3.02
644 664 3.135994 GCCTAAAAGTGTTCGGTTCAGA 58.864 45.455 0.00 0.00 0.00 3.27
645 665 3.059120 GCCTAAAAGTGTTCGGTTCAGAC 60.059 47.826 0.00 0.00 0.00 3.51
646 666 4.124238 CCTAAAAGTGTTCGGTTCAGACA 58.876 43.478 0.00 0.00 0.00 3.41
647 667 4.755123 CCTAAAAGTGTTCGGTTCAGACAT 59.245 41.667 0.00 0.00 0.00 3.06
648 668 5.929992 CCTAAAAGTGTTCGGTTCAGACATA 59.070 40.000 0.00 0.00 0.00 2.29
649 669 6.594159 CCTAAAAGTGTTCGGTTCAGACATAT 59.406 38.462 0.00 0.00 0.00 1.78
650 670 7.762615 CCTAAAAGTGTTCGGTTCAGACATATA 59.237 37.037 0.00 0.00 0.00 0.86
651 671 7.596749 AAAAGTGTTCGGTTCAGACATATAG 57.403 36.000 0.00 0.00 0.00 1.31
652 672 5.263968 AGTGTTCGGTTCAGACATATAGG 57.736 43.478 0.00 0.00 0.00 2.57
653 673 4.710375 AGTGTTCGGTTCAGACATATAGGT 59.290 41.667 0.00 0.00 0.00 3.08
654 674 5.187186 AGTGTTCGGTTCAGACATATAGGTT 59.813 40.000 0.00 0.00 0.00 3.50
655 675 5.873164 GTGTTCGGTTCAGACATATAGGTTT 59.127 40.000 0.00 0.00 0.00 3.27
656 676 6.370718 GTGTTCGGTTCAGACATATAGGTTTT 59.629 38.462 0.00 0.00 0.00 2.43
657 677 7.546667 GTGTTCGGTTCAGACATATAGGTTTTA 59.453 37.037 0.00 0.00 0.00 1.52
658 678 7.762615 TGTTCGGTTCAGACATATAGGTTTTAG 59.237 37.037 0.00 0.00 0.00 1.85
659 679 7.414222 TCGGTTCAGACATATAGGTTTTAGT 57.586 36.000 0.00 0.00 0.00 2.24
660 680 7.262772 TCGGTTCAGACATATAGGTTTTAGTG 58.737 38.462 0.00 0.00 0.00 2.74
661 681 7.039882 CGGTTCAGACATATAGGTTTTAGTGT 58.960 38.462 0.00 0.00 0.00 3.55
662 682 7.548075 CGGTTCAGACATATAGGTTTTAGTGTT 59.452 37.037 0.00 0.00 0.00 3.32
663 683 8.665685 GGTTCAGACATATAGGTTTTAGTGTTG 58.334 37.037 0.00 0.00 0.00 3.33
664 684 9.216117 GTTCAGACATATAGGTTTTAGTGTTGT 57.784 33.333 0.00 0.00 0.00 3.32
665 685 9.787435 TTCAGACATATAGGTTTTAGTGTTGTT 57.213 29.630 0.00 0.00 0.00 2.83
666 686 9.431887 TCAGACATATAGGTTTTAGTGTTGTTC 57.568 33.333 0.00 0.00 0.00 3.18
667 687 8.380644 CAGACATATAGGTTTTAGTGTTGTTCG 58.619 37.037 0.00 0.00 0.00 3.95
668 688 7.548075 AGACATATAGGTTTTAGTGTTGTTCGG 59.452 37.037 0.00 0.00 0.00 4.30
669 689 7.388437 ACATATAGGTTTTAGTGTTGTTCGGA 58.612 34.615 0.00 0.00 0.00 4.55
670 690 7.332678 ACATATAGGTTTTAGTGTTGTTCGGAC 59.667 37.037 0.00 0.00 0.00 4.79
671 691 3.876341 AGGTTTTAGTGTTGTTCGGACA 58.124 40.909 0.00 0.00 0.00 4.02
672 692 4.457466 AGGTTTTAGTGTTGTTCGGACAT 58.543 39.130 0.00 0.00 35.29 3.06
673 693 5.613329 AGGTTTTAGTGTTGTTCGGACATA 58.387 37.500 0.00 0.00 35.29 2.29
674 694 6.235664 AGGTTTTAGTGTTGTTCGGACATAT 58.764 36.000 0.00 0.00 35.29 1.78
675 695 7.388437 AGGTTTTAGTGTTGTTCGGACATATA 58.612 34.615 0.00 0.00 35.29 0.86
676 696 8.044908 AGGTTTTAGTGTTGTTCGGACATATAT 58.955 33.333 0.00 0.00 35.29 0.86
677 697 8.120465 GGTTTTAGTGTTGTTCGGACATATATG 58.880 37.037 11.29 11.29 35.29 1.78
678 698 8.662141 GTTTTAGTGTTGTTCGGACATATATGT 58.338 33.333 18.31 18.31 45.16 2.29
679 699 7.764695 TTAGTGTTGTTCGGACATATATGTG 57.235 36.000 22.93 9.73 41.95 3.21
680 700 5.972935 AGTGTTGTTCGGACATATATGTGA 58.027 37.500 22.93 11.92 41.95 3.58
681 701 6.042777 AGTGTTGTTCGGACATATATGTGAG 58.957 40.000 22.93 15.29 41.95 3.51
682 702 5.234329 GTGTTGTTCGGACATATATGTGAGG 59.766 44.000 22.93 11.25 41.95 3.86
683 703 4.600692 TGTTCGGACATATATGTGAGGG 57.399 45.455 22.93 8.96 41.95 4.30
684 704 3.323691 TGTTCGGACATATATGTGAGGGG 59.676 47.826 22.93 7.34 41.95 4.79
685 705 3.536075 TCGGACATATATGTGAGGGGA 57.464 47.619 22.93 9.36 41.95 4.81
686 706 4.061131 TCGGACATATATGTGAGGGGAT 57.939 45.455 22.93 0.00 41.95 3.85
687 707 5.201363 TCGGACATATATGTGAGGGGATA 57.799 43.478 22.93 0.00 41.95 2.59
688 708 5.777449 TCGGACATATATGTGAGGGGATAT 58.223 41.667 22.93 0.00 41.95 1.63
689 709 6.202331 TCGGACATATATGTGAGGGGATATT 58.798 40.000 22.93 0.00 41.95 1.28
690 710 6.672218 TCGGACATATATGTGAGGGGATATTT 59.328 38.462 22.93 0.00 41.95 1.40
691 711 6.986817 CGGACATATATGTGAGGGGATATTTC 59.013 42.308 22.93 3.73 41.95 2.17
692 712 7.364673 CGGACATATATGTGAGGGGATATTTCA 60.365 40.741 22.93 0.00 41.95 2.69
693 713 7.989741 GGACATATATGTGAGGGGATATTTCAG 59.010 40.741 22.93 0.00 41.95 3.02
694 714 7.865820 ACATATATGTGAGGGGATATTTCAGG 58.134 38.462 17.60 0.00 40.03 3.86
695 715 7.684186 ACATATATGTGAGGGGATATTTCAGGA 59.316 37.037 17.60 0.00 40.03 3.86
696 716 8.551440 CATATATGTGAGGGGATATTTCAGGAA 58.449 37.037 4.43 0.00 0.00 3.36
697 717 4.778213 TGTGAGGGGATATTTCAGGAAG 57.222 45.455 0.00 0.00 0.00 3.46
698 718 4.370776 TGTGAGGGGATATTTCAGGAAGA 58.629 43.478 0.00 0.00 0.00 2.87
699 719 4.977739 TGTGAGGGGATATTTCAGGAAGAT 59.022 41.667 0.00 0.00 0.00 2.40
700 720 5.163163 TGTGAGGGGATATTTCAGGAAGATG 60.163 44.000 0.00 0.00 0.00 2.90
701 721 4.202503 TGAGGGGATATTTCAGGAAGATGC 60.203 45.833 0.00 0.00 0.00 3.91
702 722 3.075134 AGGGGATATTTCAGGAAGATGCC 59.925 47.826 0.00 0.00 44.16 4.40
703 723 3.075134 GGGGATATTTCAGGAAGATGCCT 59.925 47.826 6.56 0.00 44.27 4.75
704 724 4.448347 GGGGATATTTCAGGAAGATGCCTT 60.448 45.833 6.56 0.00 44.27 4.35
705 725 5.143369 GGGATATTTCAGGAAGATGCCTTT 58.857 41.667 0.00 0.00 42.31 3.11
706 726 6.306987 GGGATATTTCAGGAAGATGCCTTTA 58.693 40.000 0.00 0.00 42.31 1.85
707 727 6.950619 GGGATATTTCAGGAAGATGCCTTTAT 59.049 38.462 0.00 0.00 42.31 1.40
708 728 7.452813 GGGATATTTCAGGAAGATGCCTTTATT 59.547 37.037 0.00 0.00 42.31 1.40
709 729 9.520515 GGATATTTCAGGAAGATGCCTTTATTA 57.479 33.333 0.00 0.00 35.66 0.98
712 732 7.865706 TTTCAGGAAGATGCCTTTATTAGAC 57.134 36.000 0.00 0.00 35.66 2.59
713 733 6.814954 TCAGGAAGATGCCTTTATTAGACT 57.185 37.500 0.00 0.00 35.66 3.24
714 734 6.586344 TCAGGAAGATGCCTTTATTAGACTG 58.414 40.000 0.00 0.00 35.66 3.51
715 735 5.762218 CAGGAAGATGCCTTTATTAGACTGG 59.238 44.000 0.00 0.00 35.66 4.00
716 736 5.667626 AGGAAGATGCCTTTATTAGACTGGA 59.332 40.000 0.00 0.00 33.46 3.86
717 737 6.331307 AGGAAGATGCCTTTATTAGACTGGAT 59.669 38.462 0.00 0.00 33.46 3.41
718 738 7.001073 GGAAGATGCCTTTATTAGACTGGATT 58.999 38.462 0.00 0.00 31.62 3.01
719 739 7.503902 GGAAGATGCCTTTATTAGACTGGATTT 59.496 37.037 0.00 0.00 31.62 2.17
720 740 9.561069 GAAGATGCCTTTATTAGACTGGATTTA 57.439 33.333 0.00 0.00 31.62 1.40
722 742 9.512588 AGATGCCTTTATTAGACTGGATTTATG 57.487 33.333 0.00 0.00 0.00 1.90
723 743 9.507329 GATGCCTTTATTAGACTGGATTTATGA 57.493 33.333 0.00 0.00 0.00 2.15
725 745 9.866655 TGCCTTTATTAGACTGGATTTATGATT 57.133 29.630 0.00 0.00 0.00 2.57
733 753 9.542462 TTAGACTGGATTTATGATTAAACCGAG 57.458 33.333 0.00 0.00 30.33 4.63
734 754 6.483640 AGACTGGATTTATGATTAAACCGAGC 59.516 38.462 0.00 0.00 30.33 5.03
735 755 6.357367 ACTGGATTTATGATTAAACCGAGCT 58.643 36.000 0.00 0.00 30.33 4.09
736 756 6.483640 ACTGGATTTATGATTAAACCGAGCTC 59.516 38.462 2.73 2.73 30.33 4.09
737 757 5.763204 TGGATTTATGATTAAACCGAGCTCC 59.237 40.000 8.47 0.00 30.33 4.70
738 758 5.763204 GGATTTATGATTAAACCGAGCTCCA 59.237 40.000 8.47 0.00 30.33 3.86
739 759 6.073003 GGATTTATGATTAAACCGAGCTCCAG 60.073 42.308 8.47 2.11 30.33 3.86
740 760 5.607939 TTATGATTAAACCGAGCTCCAGA 57.392 39.130 8.47 0.00 0.00 3.86
741 761 3.973206 TGATTAAACCGAGCTCCAGAA 57.027 42.857 8.47 0.00 0.00 3.02
742 762 4.487714 TGATTAAACCGAGCTCCAGAAT 57.512 40.909 8.47 1.05 0.00 2.40
743 763 4.442706 TGATTAAACCGAGCTCCAGAATC 58.557 43.478 8.47 10.54 0.00 2.52
744 764 2.981859 TAAACCGAGCTCCAGAATCC 57.018 50.000 8.47 0.00 0.00 3.01
745 765 0.984230 AAACCGAGCTCCAGAATCCA 59.016 50.000 8.47 0.00 0.00 3.41
746 766 0.984230 AACCGAGCTCCAGAATCCAA 59.016 50.000 8.47 0.00 0.00 3.53
747 767 0.250513 ACCGAGCTCCAGAATCCAAC 59.749 55.000 8.47 0.00 0.00 3.77
748 768 0.250234 CCGAGCTCCAGAATCCAACA 59.750 55.000 8.47 0.00 0.00 3.33
749 769 1.363744 CGAGCTCCAGAATCCAACAC 58.636 55.000 8.47 0.00 0.00 3.32
750 770 1.066573 CGAGCTCCAGAATCCAACACT 60.067 52.381 8.47 0.00 0.00 3.55
751 771 2.613977 CGAGCTCCAGAATCCAACACTT 60.614 50.000 8.47 0.00 0.00 3.16
752 772 3.006247 GAGCTCCAGAATCCAACACTTC 58.994 50.000 0.87 0.00 0.00 3.01
753 773 2.087646 GCTCCAGAATCCAACACTTCC 58.912 52.381 0.00 0.00 0.00 3.46
754 774 2.350522 CTCCAGAATCCAACACTTCCG 58.649 52.381 0.00 0.00 0.00 4.30
755 775 1.003118 TCCAGAATCCAACACTTCCGG 59.997 52.381 0.00 0.00 0.00 5.14
756 776 1.003118 CCAGAATCCAACACTTCCGGA 59.997 52.381 0.00 0.00 0.00 5.14
757 777 2.350522 CAGAATCCAACACTTCCGGAG 58.649 52.381 3.34 1.34 30.84 4.63
758 778 1.087501 GAATCCAACACTTCCGGAGC 58.912 55.000 3.34 0.00 30.84 4.70
759 779 0.693049 AATCCAACACTTCCGGAGCT 59.307 50.000 3.34 0.00 30.84 4.09
760 780 0.250513 ATCCAACACTTCCGGAGCTC 59.749 55.000 3.34 4.71 30.84 4.09
761 781 1.738099 CCAACACTTCCGGAGCTCG 60.738 63.158 3.34 3.03 38.88 5.03
928 948 1.305887 CCCTCCTGACCTTACCCGT 60.306 63.158 0.00 0.00 0.00 5.28
982 1002 2.677765 TAGGGTTTTCGTTGGCGGCA 62.678 55.000 7.97 7.97 38.89 5.69
1028 1048 1.221840 GATCAAGCTCGAAGGGGCA 59.778 57.895 0.00 0.00 0.00 5.36
1048 1068 1.215382 CATGGCAAGGAGACGACGA 59.785 57.895 0.00 0.00 0.00 4.20
1752 1772 6.749118 GTGAATTTGTTCTGGCTGACAATATC 59.251 38.462 0.00 5.03 0.00 1.63
1762 1782 2.743183 GCTGACAATATCCGCTTCAGGT 60.743 50.000 0.00 0.00 34.85 4.00
1798 1818 2.042569 GGTTTTGGTAACCAGAGGGGAT 59.957 50.000 0.00 0.00 40.03 3.85
2067 2087 3.007398 AGAACCATCCAGAGACAGTTCAC 59.993 47.826 0.00 0.00 38.76 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 2.385091 CCGCCAATTTTGCAGCTGC 61.385 57.895 31.89 31.89 42.50 5.25
5 6 2.385091 GCCGCCAATTTTGCAGCTG 61.385 57.895 10.11 10.11 0.00 4.24
6 7 2.047939 GCCGCCAATTTTGCAGCT 60.048 55.556 0.00 0.00 0.00 4.24
7 8 3.120385 GGCCGCCAATTTTGCAGC 61.120 61.111 3.91 0.00 0.00 5.25
8 9 2.810458 CGGCCGCCAATTTTGCAG 60.810 61.111 14.67 0.00 0.00 4.41
9 10 4.370066 CCGGCCGCCAATTTTGCA 62.370 61.111 22.85 0.00 0.00 4.08
11 12 3.641159 GACCCGGCCGCCAATTTTG 62.641 63.158 22.85 2.64 0.00 2.44
12 13 3.378602 GACCCGGCCGCCAATTTT 61.379 61.111 22.85 0.00 0.00 1.82
13 14 4.669809 TGACCCGGCCGCCAATTT 62.670 61.111 22.85 0.00 0.00 1.82
14 15 4.669809 TTGACCCGGCCGCCAATT 62.670 61.111 22.85 0.00 0.00 2.32
25 26 1.303317 AACTGATGGCGGTTGACCC 60.303 57.895 0.00 0.00 41.92 4.46
26 27 1.305930 GGAACTGATGGCGGTTGACC 61.306 60.000 0.00 0.00 43.48 4.02
27 28 0.321653 AGGAACTGATGGCGGTTGAC 60.322 55.000 0.00 0.00 43.48 3.18
28 29 0.036388 GAGGAACTGATGGCGGTTGA 60.036 55.000 0.00 0.00 43.48 3.18
29 30 1.026718 GGAGGAACTGATGGCGGTTG 61.027 60.000 0.00 0.00 43.48 3.77
30 31 1.201429 AGGAGGAACTGATGGCGGTT 61.201 55.000 0.00 0.00 46.03 4.44
31 32 1.613630 AGGAGGAACTGATGGCGGT 60.614 57.895 0.00 0.00 41.55 5.68
32 33 1.144936 GAGGAGGAACTGATGGCGG 59.855 63.158 0.00 0.00 41.55 6.13
33 34 1.144936 GGAGGAGGAACTGATGGCG 59.855 63.158 0.00 0.00 41.55 5.69
34 35 0.467804 GAGGAGGAGGAACTGATGGC 59.532 60.000 0.00 0.00 41.55 4.40
35 36 2.173126 AGAGGAGGAGGAACTGATGG 57.827 55.000 0.00 0.00 41.55 3.51
36 37 2.433970 GGAAGAGGAGGAGGAACTGATG 59.566 54.545 0.00 0.00 41.55 3.07
37 38 2.317594 AGGAAGAGGAGGAGGAACTGAT 59.682 50.000 0.00 0.00 41.55 2.90
38 39 1.719378 AGGAAGAGGAGGAGGAACTGA 59.281 52.381 0.00 0.00 41.55 3.41
39 40 2.235898 CAAGGAAGAGGAGGAGGAACTG 59.764 54.545 0.00 0.00 41.55 3.16
41 42 2.027653 CACAAGGAAGAGGAGGAGGAAC 60.028 54.545 0.00 0.00 0.00 3.62
42 43 2.260822 CACAAGGAAGAGGAGGAGGAA 58.739 52.381 0.00 0.00 0.00 3.36
43 44 1.944177 CACAAGGAAGAGGAGGAGGA 58.056 55.000 0.00 0.00 0.00 3.71
44 45 0.251634 GCACAAGGAAGAGGAGGAGG 59.748 60.000 0.00 0.00 0.00 4.30
45 46 1.206849 GAGCACAAGGAAGAGGAGGAG 59.793 57.143 0.00 0.00 0.00 3.69
46 47 1.270907 GAGCACAAGGAAGAGGAGGA 58.729 55.000 0.00 0.00 0.00 3.71
47 48 0.251634 GGAGCACAAGGAAGAGGAGG 59.748 60.000 0.00 0.00 0.00 4.30
48 49 1.206849 GAGGAGCACAAGGAAGAGGAG 59.793 57.143 0.00 0.00 0.00 3.69
49 50 1.270907 GAGGAGCACAAGGAAGAGGA 58.729 55.000 0.00 0.00 0.00 3.71
50 51 0.251634 GGAGGAGCACAAGGAAGAGG 59.748 60.000 0.00 0.00 0.00 3.69
51 52 0.979665 TGGAGGAGCACAAGGAAGAG 59.020 55.000 0.00 0.00 0.00 2.85
52 53 1.280133 CATGGAGGAGCACAAGGAAGA 59.720 52.381 0.00 0.00 0.00 2.87
53 54 1.681166 CCATGGAGGAGCACAAGGAAG 60.681 57.143 5.56 0.00 41.22 3.46
54 55 0.329261 CCATGGAGGAGCACAAGGAA 59.671 55.000 5.56 0.00 41.22 3.36
55 56 1.993653 CCATGGAGGAGCACAAGGA 59.006 57.895 5.56 0.00 41.22 3.36
56 57 1.751927 GCCATGGAGGAGCACAAGG 60.752 63.158 18.40 0.00 41.22 3.61
57 58 2.110967 CGCCATGGAGGAGCACAAG 61.111 63.158 18.40 0.00 41.22 3.16
58 59 2.046023 CGCCATGGAGGAGCACAA 60.046 61.111 18.40 0.00 41.22 3.33
59 60 3.002583 TCGCCATGGAGGAGCACA 61.003 61.111 18.40 0.00 41.22 4.57
60 61 2.512515 GTCGCCATGGAGGAGCAC 60.513 66.667 18.40 2.13 41.22 4.40
61 62 3.785859 GGTCGCCATGGAGGAGCA 61.786 66.667 18.40 0.00 41.22 4.26
62 63 4.554036 GGGTCGCCATGGAGGAGC 62.554 72.222 18.40 19.99 41.22 4.70
63 64 3.866582 GGGGTCGCCATGGAGGAG 61.867 72.222 18.40 3.07 41.22 3.69
98 99 1.201429 GGAAGACAAGGAGGAGGGCA 61.201 60.000 0.00 0.00 0.00 5.36
99 100 0.912006 AGGAAGACAAGGAGGAGGGC 60.912 60.000 0.00 0.00 0.00 5.19
111 112 1.448717 GGCAAGCTCGGAGGAAGAC 60.449 63.158 7.20 0.00 0.00 3.01
131 132 1.242076 CCAACCTTCAAGCTCTGTGG 58.758 55.000 0.00 0.00 0.00 4.17
174 175 3.576932 TAAGCGTCGCAAAGCCCGA 62.577 57.895 21.09 0.00 0.00 5.14
184 185 0.797249 CGTCTCCAAGGTAAGCGTCG 60.797 60.000 0.00 0.00 0.00 5.12
196 197 2.307309 CGCGCAGAAAACGTCTCCA 61.307 57.895 8.75 0.00 32.70 3.86
224 225 5.659440 TCACATACTACAAGATGCTCACA 57.341 39.130 0.00 0.00 0.00 3.58
225 226 6.511416 AGATCACATACTACAAGATGCTCAC 58.489 40.000 0.00 0.00 0.00 3.51
256 257 2.371306 TGTCCAATGTCATCATGGCTG 58.629 47.619 0.00 0.00 34.19 4.85
282 283 2.807045 CATAGCCGATCTCGCCGC 60.807 66.667 0.00 0.00 38.18 6.53
326 346 1.071314 TGTCCCATTTCCACCACCCT 61.071 55.000 0.00 0.00 0.00 4.34
327 347 0.611896 CTGTCCCATTTCCACCACCC 60.612 60.000 0.00 0.00 0.00 4.61
328 348 0.112412 ACTGTCCCATTTCCACCACC 59.888 55.000 0.00 0.00 0.00 4.61
329 349 1.995376 AACTGTCCCATTTCCACCAC 58.005 50.000 0.00 0.00 0.00 4.16
330 350 2.041081 CCTAACTGTCCCATTTCCACCA 59.959 50.000 0.00 0.00 0.00 4.17
331 351 2.620627 CCCTAACTGTCCCATTTCCACC 60.621 54.545 0.00 0.00 0.00 4.61
332 352 2.041216 ACCCTAACTGTCCCATTTCCAC 59.959 50.000 0.00 0.00 0.00 4.02
333 353 2.354328 ACCCTAACTGTCCCATTTCCA 58.646 47.619 0.00 0.00 0.00 3.53
334 354 3.451402 AACCCTAACTGTCCCATTTCC 57.549 47.619 0.00 0.00 0.00 3.13
335 355 3.509967 CCAAACCCTAACTGTCCCATTTC 59.490 47.826 0.00 0.00 0.00 2.17
336 356 3.506398 CCAAACCCTAACTGTCCCATTT 58.494 45.455 0.00 0.00 0.00 2.32
337 357 2.225267 CCCAAACCCTAACTGTCCCATT 60.225 50.000 0.00 0.00 0.00 3.16
338 358 1.357761 CCCAAACCCTAACTGTCCCAT 59.642 52.381 0.00 0.00 0.00 4.00
339 359 0.774908 CCCAAACCCTAACTGTCCCA 59.225 55.000 0.00 0.00 0.00 4.37
340 360 0.039180 CCCCAAACCCTAACTGTCCC 59.961 60.000 0.00 0.00 0.00 4.46
382 402 4.465446 CCCGAGGAGCCTCCCTGA 62.465 72.222 7.26 0.00 37.19 3.86
384 404 4.012721 AACCCGAGGAGCCTCCCT 62.013 66.667 7.26 0.00 37.19 4.20
410 430 0.861185 TGCATTCATAGTGCGATCGC 59.139 50.000 32.48 32.48 45.37 4.58
412 432 2.487934 ACCTGCATTCATAGTGCGATC 58.512 47.619 0.00 0.00 45.37 3.69
434 454 0.543277 AAGCCCATCATCTCTTCGCA 59.457 50.000 0.00 0.00 0.00 5.10
449 469 3.572255 TGGTTTCACACTTAATGGAAGCC 59.428 43.478 0.00 0.00 38.92 4.35
486 506 5.519927 CGATAATCCAAAACCATCCAAAAGC 59.480 40.000 0.00 0.00 0.00 3.51
492 512 4.461198 ACTCCGATAATCCAAAACCATCC 58.539 43.478 0.00 0.00 0.00 3.51
507 527 3.065510 CGTCTGTCACATAAGACTCCGAT 59.934 47.826 0.00 0.00 40.57 4.18
570 590 3.524346 TGGACACCCAAAACTTCCC 57.476 52.632 0.00 0.00 40.09 3.97
614 634 4.698304 CGAACACTTTTAGGCCTCCAATAA 59.302 41.667 9.68 0.00 0.00 1.40
641 661 8.380644 CGAACAACACTAAAACCTATATGTCTG 58.619 37.037 0.00 0.00 0.00 3.51
643 663 7.546667 TCCGAACAACACTAAAACCTATATGTC 59.453 37.037 0.00 0.00 0.00 3.06
644 664 7.332678 GTCCGAACAACACTAAAACCTATATGT 59.667 37.037 0.00 0.00 0.00 2.29
645 665 7.332430 TGTCCGAACAACACTAAAACCTATATG 59.668 37.037 0.00 0.00 30.70 1.78
646 666 7.388437 TGTCCGAACAACACTAAAACCTATAT 58.612 34.615 0.00 0.00 30.70 0.86
647 667 6.757237 TGTCCGAACAACACTAAAACCTATA 58.243 36.000 0.00 0.00 30.70 1.31
648 668 5.613329 TGTCCGAACAACACTAAAACCTAT 58.387 37.500 0.00 0.00 30.70 2.57
649 669 5.021033 TGTCCGAACAACACTAAAACCTA 57.979 39.130 0.00 0.00 30.70 3.08
650 670 3.876341 TGTCCGAACAACACTAAAACCT 58.124 40.909 0.00 0.00 30.70 3.50
651 671 4.823790 ATGTCCGAACAACACTAAAACC 57.176 40.909 0.00 0.00 39.30 3.27
652 672 8.662141 ACATATATGTCCGAACAACACTAAAAC 58.338 33.333 12.75 0.00 39.30 2.43
653 673 8.661257 CACATATATGTCCGAACAACACTAAAA 58.339 33.333 15.60 0.00 39.39 1.52
654 674 8.035984 TCACATATATGTCCGAACAACACTAAA 58.964 33.333 15.60 0.00 39.39 1.85
655 675 7.548967 TCACATATATGTCCGAACAACACTAA 58.451 34.615 15.60 0.00 39.39 2.24
656 676 7.102847 TCACATATATGTCCGAACAACACTA 57.897 36.000 15.60 0.00 39.39 2.74
657 677 5.972935 TCACATATATGTCCGAACAACACT 58.027 37.500 15.60 0.00 39.39 3.55
658 678 5.234329 CCTCACATATATGTCCGAACAACAC 59.766 44.000 15.60 0.00 39.39 3.32
659 679 5.356426 CCTCACATATATGTCCGAACAACA 58.644 41.667 15.60 0.00 39.39 3.33
660 680 4.750098 CCCTCACATATATGTCCGAACAAC 59.250 45.833 15.60 0.00 39.39 3.32
661 681 4.202315 CCCCTCACATATATGTCCGAACAA 60.202 45.833 15.60 0.00 39.39 2.83
662 682 3.323691 CCCCTCACATATATGTCCGAACA 59.676 47.826 15.60 0.00 39.39 3.18
663 683 3.576982 TCCCCTCACATATATGTCCGAAC 59.423 47.826 15.60 0.00 39.39 3.95
664 684 3.851979 TCCCCTCACATATATGTCCGAA 58.148 45.455 15.60 1.64 39.39 4.30
665 685 3.536075 TCCCCTCACATATATGTCCGA 57.464 47.619 15.60 10.08 39.39 4.55
666 686 6.485830 AATATCCCCTCACATATATGTCCG 57.514 41.667 15.60 9.25 39.39 4.79
667 687 7.861629 TGAAATATCCCCTCACATATATGTCC 58.138 38.462 15.60 0.00 39.39 4.02
668 688 7.989741 CCTGAAATATCCCCTCACATATATGTC 59.010 40.741 15.60 0.93 39.39 3.06
669 689 7.684186 TCCTGAAATATCCCCTCACATATATGT 59.316 37.037 12.75 12.75 42.84 2.29
670 690 8.094284 TCCTGAAATATCCCCTCACATATATG 57.906 38.462 11.29 11.29 0.00 1.78
671 691 8.700145 TTCCTGAAATATCCCCTCACATATAT 57.300 34.615 0.00 0.00 0.00 0.86
672 692 7.961431 TCTTCCTGAAATATCCCCTCACATATA 59.039 37.037 0.00 0.00 0.00 0.86
673 693 6.794493 TCTTCCTGAAATATCCCCTCACATAT 59.206 38.462 0.00 0.00 0.00 1.78
674 694 6.150332 TCTTCCTGAAATATCCCCTCACATA 58.850 40.000 0.00 0.00 0.00 2.29
675 695 4.977739 TCTTCCTGAAATATCCCCTCACAT 59.022 41.667 0.00 0.00 0.00 3.21
676 696 4.370776 TCTTCCTGAAATATCCCCTCACA 58.629 43.478 0.00 0.00 0.00 3.58
677 697 5.312079 CATCTTCCTGAAATATCCCCTCAC 58.688 45.833 0.00 0.00 0.00 3.51
678 698 4.202503 GCATCTTCCTGAAATATCCCCTCA 60.203 45.833 0.00 0.00 0.00 3.86
679 699 4.331108 GCATCTTCCTGAAATATCCCCTC 58.669 47.826 0.00 0.00 0.00 4.30
680 700 3.075134 GGCATCTTCCTGAAATATCCCCT 59.925 47.826 0.00 0.00 0.00 4.79
681 701 3.075134 AGGCATCTTCCTGAAATATCCCC 59.925 47.826 0.00 0.00 34.56 4.81
682 702 4.379302 AGGCATCTTCCTGAAATATCCC 57.621 45.455 0.00 0.00 34.56 3.85
683 703 8.414629 AATAAAGGCATCTTCCTGAAATATCC 57.585 34.615 0.00 0.00 36.38 2.59
686 706 9.561069 GTCTAATAAAGGCATCTTCCTGAAATA 57.439 33.333 0.00 0.00 36.38 1.40
687 707 8.277918 AGTCTAATAAAGGCATCTTCCTGAAAT 58.722 33.333 0.00 0.00 36.38 2.17
688 708 7.554118 CAGTCTAATAAAGGCATCTTCCTGAAA 59.446 37.037 0.00 0.00 36.38 2.69
689 709 7.050377 CAGTCTAATAAAGGCATCTTCCTGAA 58.950 38.462 0.00 0.00 36.38 3.02
690 710 6.408548 CCAGTCTAATAAAGGCATCTTCCTGA 60.409 42.308 0.00 0.00 36.38 3.86
691 711 5.762218 CCAGTCTAATAAAGGCATCTTCCTG 59.238 44.000 0.00 0.00 36.38 3.86
692 712 5.667626 TCCAGTCTAATAAAGGCATCTTCCT 59.332 40.000 0.00 0.00 38.31 3.36
693 713 5.930135 TCCAGTCTAATAAAGGCATCTTCC 58.070 41.667 0.00 0.00 31.82 3.46
694 714 8.457238 AAATCCAGTCTAATAAAGGCATCTTC 57.543 34.615 0.00 0.00 31.82 2.87
696 716 9.512588 CATAAATCCAGTCTAATAAAGGCATCT 57.487 33.333 0.00 0.00 29.52 2.90
697 717 9.507329 TCATAAATCCAGTCTAATAAAGGCATC 57.493 33.333 0.00 0.00 29.52 3.91
699 719 9.866655 AATCATAAATCCAGTCTAATAAAGGCA 57.133 29.630 0.00 0.00 29.52 4.75
707 727 9.542462 CTCGGTTTAATCATAAATCCAGTCTAA 57.458 33.333 0.00 0.00 33.76 2.10
708 728 7.656137 GCTCGGTTTAATCATAAATCCAGTCTA 59.344 37.037 0.00 0.00 33.76 2.59
709 729 6.483640 GCTCGGTTTAATCATAAATCCAGTCT 59.516 38.462 0.00 0.00 33.76 3.24
710 730 6.483640 AGCTCGGTTTAATCATAAATCCAGTC 59.516 38.462 0.00 0.00 33.76 3.51
711 731 6.357367 AGCTCGGTTTAATCATAAATCCAGT 58.643 36.000 0.00 0.00 33.76 4.00
712 732 6.073003 GGAGCTCGGTTTAATCATAAATCCAG 60.073 42.308 7.83 0.00 33.76 3.86
713 733 5.763204 GGAGCTCGGTTTAATCATAAATCCA 59.237 40.000 7.83 0.00 33.76 3.41
714 734 5.763204 TGGAGCTCGGTTTAATCATAAATCC 59.237 40.000 7.83 0.00 33.76 3.01
715 735 6.706270 TCTGGAGCTCGGTTTAATCATAAATC 59.294 38.462 7.83 0.00 33.76 2.17
716 736 6.591935 TCTGGAGCTCGGTTTAATCATAAAT 58.408 36.000 7.83 0.00 33.76 1.40
717 737 5.984725 TCTGGAGCTCGGTTTAATCATAAA 58.015 37.500 7.83 0.00 0.00 1.40
718 738 5.607939 TCTGGAGCTCGGTTTAATCATAA 57.392 39.130 7.83 0.00 0.00 1.90
719 739 5.607939 TTCTGGAGCTCGGTTTAATCATA 57.392 39.130 7.83 0.00 0.00 2.15
720 740 4.487714 TTCTGGAGCTCGGTTTAATCAT 57.512 40.909 7.83 0.00 0.00 2.45
721 741 3.973206 TTCTGGAGCTCGGTTTAATCA 57.027 42.857 7.83 0.00 0.00 2.57
722 742 3.810386 GGATTCTGGAGCTCGGTTTAATC 59.190 47.826 7.83 11.42 0.00 1.75
723 743 3.199946 TGGATTCTGGAGCTCGGTTTAAT 59.800 43.478 7.83 3.08 0.00 1.40
724 744 2.569853 TGGATTCTGGAGCTCGGTTTAA 59.430 45.455 7.83 0.00 0.00 1.52
725 745 2.184533 TGGATTCTGGAGCTCGGTTTA 58.815 47.619 7.83 0.00 0.00 2.01
726 746 0.984230 TGGATTCTGGAGCTCGGTTT 59.016 50.000 7.83 0.00 0.00 3.27
727 747 0.984230 TTGGATTCTGGAGCTCGGTT 59.016 50.000 7.83 0.00 0.00 4.44
728 748 0.250513 GTTGGATTCTGGAGCTCGGT 59.749 55.000 7.83 0.00 0.00 4.69
729 749 0.250234 TGTTGGATTCTGGAGCTCGG 59.750 55.000 7.83 3.20 0.00 4.63
730 750 1.066573 AGTGTTGGATTCTGGAGCTCG 60.067 52.381 7.83 0.00 0.00 5.03
731 751 2.777832 AGTGTTGGATTCTGGAGCTC 57.222 50.000 4.71 4.71 0.00 4.09
732 752 2.290577 GGAAGTGTTGGATTCTGGAGCT 60.291 50.000 0.00 0.00 0.00 4.09
733 753 2.087646 GGAAGTGTTGGATTCTGGAGC 58.912 52.381 0.00 0.00 0.00 4.70
734 754 2.350522 CGGAAGTGTTGGATTCTGGAG 58.649 52.381 0.00 0.00 0.00 3.86
735 755 2.472695 CGGAAGTGTTGGATTCTGGA 57.527 50.000 0.00 0.00 0.00 3.86
736 756 1.453155 CCGGAAGTGTTGGATTCTGG 58.547 55.000 0.00 0.00 43.61 3.86
737 757 2.350522 CTCCGGAAGTGTTGGATTCTG 58.649 52.381 5.23 0.00 0.00 3.02
738 758 1.339151 GCTCCGGAAGTGTTGGATTCT 60.339 52.381 5.23 0.00 0.00 2.40
739 759 1.087501 GCTCCGGAAGTGTTGGATTC 58.912 55.000 5.23 0.00 0.00 2.52
740 760 0.693049 AGCTCCGGAAGTGTTGGATT 59.307 50.000 5.23 0.00 0.00 3.01
741 761 0.250513 GAGCTCCGGAAGTGTTGGAT 59.749 55.000 5.23 0.00 0.00 3.41
742 762 1.671742 GAGCTCCGGAAGTGTTGGA 59.328 57.895 5.23 0.00 0.00 3.53
743 763 1.738099 CGAGCTCCGGAAGTGTTGG 60.738 63.158 5.23 0.00 33.91 3.77
744 764 3.862124 CGAGCTCCGGAAGTGTTG 58.138 61.111 5.23 0.00 33.91 3.33
753 773 1.219522 AAACGACAAACCGAGCTCCG 61.220 55.000 8.47 4.02 38.18 4.63
754 774 0.942252 AAAACGACAAACCGAGCTCC 59.058 50.000 8.47 0.00 0.00 4.70
755 775 1.865340 AGAAAACGACAAACCGAGCTC 59.135 47.619 2.73 2.73 0.00 4.09
756 776 1.865340 GAGAAAACGACAAACCGAGCT 59.135 47.619 0.00 0.00 0.00 4.09
757 777 1.865340 AGAGAAAACGACAAACCGAGC 59.135 47.619 0.00 0.00 0.00 5.03
758 778 2.153247 CGAGAGAAAACGACAAACCGAG 59.847 50.000 0.00 0.00 0.00 4.63
759 779 2.121786 CGAGAGAAAACGACAAACCGA 58.878 47.619 0.00 0.00 0.00 4.69
760 780 1.191647 CCGAGAGAAAACGACAAACCG 59.808 52.381 0.00 0.00 0.00 4.44
761 781 1.070108 GCCGAGAGAAAACGACAAACC 60.070 52.381 0.00 0.00 0.00 3.27
762 782 1.396815 CGCCGAGAGAAAACGACAAAC 60.397 52.381 0.00 0.00 0.00 2.93
763 783 0.856641 CGCCGAGAGAAAACGACAAA 59.143 50.000 0.00 0.00 0.00 2.83
764 784 0.031043 TCGCCGAGAGAAAACGACAA 59.969 50.000 0.00 0.00 0.00 3.18
765 785 1.655885 TCGCCGAGAGAAAACGACA 59.344 52.632 0.00 0.00 0.00 4.35
915 935 0.249398 CCAAGGACGGGTAAGGTCAG 59.751 60.000 0.00 0.00 36.12 3.51
928 948 4.081309 CGGAGAAACCACTATAACCAAGGA 60.081 45.833 0.00 0.00 38.90 3.36
982 1002 2.093973 CCATGAACCGAGCAGTCTAGTT 60.094 50.000 0.00 0.00 0.00 2.24
1028 1048 1.078848 GTCGTCTCCTTGCCATGCT 60.079 57.895 0.00 0.00 0.00 3.79
1048 1068 1.204113 AACCTGGCTAGCAGCTCCTT 61.204 55.000 18.24 0.00 41.99 3.36
1629 1649 6.959639 AAGCAAAAGACAGGTAATTTCTCA 57.040 33.333 0.00 0.00 0.00 3.27
1798 1818 3.338250 ATTCCTTGGGCCGCCTCA 61.338 61.111 9.86 2.73 0.00 3.86
2067 2087 1.335780 CCTTCTCCATCATCGCTCGAG 60.336 57.143 8.45 8.45 0.00 4.04
2577 2599 9.473007 TCAATATGATAAACAGAATCACCCAAA 57.527 29.630 0.00 0.00 36.24 3.28


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

AutoCloner maintained by Alex Coulton.