Multiple sequence alignment - TraesCS6D01G253600

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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 TraesCS6D01G253600 chr6D 100.000 4292 0 0 1 4292 357584415 357588706 0.000000e+00 7926
1 TraesCS6D01G253600 chr6D 100.000 1571 0 0 4571 6141 357588985 357590555 0.000000e+00 2902
2 TraesCS6D01G253600 chr6D 89.633 627 35 18 1 627 331251791 331252387 0.000000e+00 771
3 TraesCS6D01G253600 chr6A 94.602 2649 100 20 1638 4270 499961615 499958994 0.000000e+00 4060
4 TraesCS6D01G253600 chr6A 88.910 1605 101 48 4577 6132 499958694 499957118 0.000000e+00 1906
5 TraesCS6D01G253600 chr6A 95.352 753 27 4 896 1647 499962381 499961636 0.000000e+00 1190
6 TraesCS6D01G253600 chr6B 95.249 1747 61 14 781 2522 539188449 539190178 0.000000e+00 2747
7 TraesCS6D01G253600 chr6B 94.841 1667 53 9 2643 4292 539190172 539191822 0.000000e+00 2571
8 TraesCS6D01G253600 chr6B 94.305 1036 41 8 4589 5607 539192067 539193101 0.000000e+00 1570
9 TraesCS6D01G253600 chr6B 90.275 545 36 10 5603 6132 539193131 539193673 0.000000e+00 697
10 TraesCS6D01G253600 chr6B 97.706 218 5 0 1 218 641025673 641025890 5.810000e-100 375
11 TraesCS6D01G253600 chr6B 92.357 157 8 3 746 898 539186234 539186390 2.880000e-53 220
12 TraesCS6D01G253600 chr2B 91.587 630 21 3 2 629 8494503 8493904 0.000000e+00 841
13 TraesCS6D01G253600 chr2B 86.585 246 29 4 4589 4832 798335021 798335264 1.010000e-67 268
14 TraesCS6D01G253600 chr2B 82.258 248 37 7 5061 5306 798335259 798335501 2.240000e-49 207
15 TraesCS6D01G253600 chr1B 90.605 628 25 16 1 627 686222425 686223019 0.000000e+00 802
16 TraesCS6D01G253600 chr1B 90.400 625 30 12 3 627 685735916 685735322 0.000000e+00 795
17 TraesCS6D01G253600 chr1B 98.165 218 4 0 1 218 478718127 478718344 1.250000e-101 381
18 TraesCS6D01G253600 chr2A 90.575 626 27 14 3 627 11778480 11777886 0.000000e+00 800
19 TraesCS6D01G253600 chr3B 90.400 625 29 11 1 625 537418832 537418239 0.000000e+00 793
20 TraesCS6D01G253600 chr5D 89.793 627 33 18 1 627 425454590 425455185 0.000000e+00 774
21 TraesCS6D01G253600 chr5D 96.833 221 7 0 1 221 367421996 367421776 2.700000e-98 370
22 TraesCS6D01G253600 chr5D 96.833 221 7 0 1 221 454020457 454020237 2.700000e-98 370
23 TraesCS6D01G253600 chr5D 87.347 245 21 6 4616 4854 54776308 54776548 7.840000e-69 272
24 TraesCS6D01G253600 chr5B 89.617 626 35 17 1 626 680717235 680716640 0.000000e+00 769
25 TraesCS6D01G253600 chr4B 88.676 627 40 19 1 626 633750697 633750101 0.000000e+00 736
26 TraesCS6D01G253600 chrUn 96.833 221 7 0 1 221 221366222 221366002 2.700000e-98 370
27 TraesCS6D01G253600 chr7D 96.833 221 7 0 1 221 605217367 605217147 2.700000e-98 370
28 TraesCS6D01G253600 chr7B 96.833 221 7 0 1 221 270265813 270265593 2.700000e-98 370
29 TraesCS6D01G253600 chr3D 96.833 221 7 0 1 221 18421728 18421508 2.700000e-98 370
30 TraesCS6D01G253600 chr3D 96.833 221 7 0 1 221 443267429 443267209 2.700000e-98 370


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 TraesCS6D01G253600 chr6D 357584415 357590555 6140 False 5414.000000 7926 100.000000 1 6141 2 chr6D.!!$F2 6140
1 TraesCS6D01G253600 chr6D 331251791 331252387 596 False 771.000000 771 89.633000 1 627 1 chr6D.!!$F1 626
2 TraesCS6D01G253600 chr6A 499957118 499962381 5263 True 2385.333333 4060 92.954667 896 6132 3 chr6A.!!$R1 5236
3 TraesCS6D01G253600 chr6B 539186234 539193673 7439 False 1561.000000 2747 93.405400 746 6132 5 chr6B.!!$F2 5386
4 TraesCS6D01G253600 chr2B 8493904 8494503 599 True 841.000000 841 91.587000 2 629 1 chr2B.!!$R1 627
5 TraesCS6D01G253600 chr1B 686222425 686223019 594 False 802.000000 802 90.605000 1 627 1 chr1B.!!$F2 626
6 TraesCS6D01G253600 chr1B 685735322 685735916 594 True 795.000000 795 90.400000 3 627 1 chr1B.!!$R1 624
7 TraesCS6D01G253600 chr2A 11777886 11778480 594 True 800.000000 800 90.575000 3 627 1 chr2A.!!$R1 624
8 TraesCS6D01G253600 chr3B 537418239 537418832 593 True 793.000000 793 90.400000 1 625 1 chr3B.!!$R1 624
9 TraesCS6D01G253600 chr5D 425454590 425455185 595 False 774.000000 774 89.793000 1 627 1 chr5D.!!$F2 626
10 TraesCS6D01G253600 chr5B 680716640 680717235 595 True 769.000000 769 89.617000 1 626 1 chr5B.!!$R1 625
11 TraesCS6D01G253600 chr4B 633750101 633750697 596 True 736.000000 736 88.676000 1 626 1 chr4B.!!$R1 625

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
367 370 0.877071 CAGCGCTGGTGTCAAGAAAT 59.123 50.000 29.88 0.0 0.00 2.17 F
967 3150 0.887387 AGTCGCCGCTTAGCCAAAAA 60.887 50.000 0.00 0.0 0.00 1.94 F
1468 3651 0.673437 TCGCTGCTTTTCCCCTTTTG 59.327 50.000 0.00 0.0 0.00 2.44 F
1647 3830 1.406539 AGCTTCCTGCAACAACAACAG 59.593 47.619 0.00 0.0 45.94 3.16 F
2202 4419 1.487482 CGTGAAGCTGAAAGACGACA 58.513 50.000 0.00 0.0 32.90 4.35 F
3158 5380 1.000993 ATCTCTGTCGGGAGGTGCT 59.999 57.895 0.00 0.0 34.39 4.40 F
3754 5992 2.054799 TGAGCCTTGTAAACCTGGACT 58.945 47.619 0.00 0.0 0.00 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1453 3636 1.000731 CGCATCAAAAGGGGAAAAGCA 59.999 47.619 0.00 0.0 0.00 3.91 R
2439 4656 0.670162 TGCAGCAAGCCACTTTTCTC 59.330 50.000 0.00 0.0 44.83 2.87 R
3101 5323 1.767759 CCTTAAGACCTGGCAATGGG 58.232 55.000 3.36 0.0 0.00 4.00 R
3137 5359 2.415010 CCTCCCGACAGAGATGCG 59.585 66.667 0.00 0.0 35.82 4.73 R
3729 5967 3.056607 CCAGGTTTACAAGGCTCATTTGG 60.057 47.826 0.00 0.0 0.00 3.28 R
4631 6874 0.819582 TGGGTACTGTTACGCCTAGC 59.180 55.000 0.00 0.0 39.81 3.42 R
5204 7447 0.034059 GTAGGTGGGAGGCGATCATG 59.966 60.000 0.00 0.0 0.00 3.07 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
69 70 3.866582 GGGTCCTCAGATGGGCGG 61.867 72.222 0.00 0.00 31.23 6.13
214 216 3.771160 GTGCTGGACCGGTCGGAT 61.771 66.667 27.68 0.00 38.96 4.18
215 217 3.770040 TGCTGGACCGGTCGGATG 61.770 66.667 27.68 17.39 38.96 3.51
216 218 3.458163 GCTGGACCGGTCGGATGA 61.458 66.667 27.68 8.42 38.96 2.92
367 370 0.877071 CAGCGCTGGTGTCAAGAAAT 59.123 50.000 29.88 0.00 0.00 2.17
377 380 3.569701 GGTGTCAAGAAATGAGGAAGCAA 59.430 43.478 0.00 0.00 39.19 3.91
379 382 4.276926 GTGTCAAGAAATGAGGAAGCAACT 59.723 41.667 0.00 0.00 39.19 3.16
558 562 1.555477 GTCCTTTGTGTTTGCGGTTG 58.445 50.000 0.00 0.00 0.00 3.77
648 653 8.967664 AAAATAATTTCCCGTAGTGTATAGCA 57.032 30.769 0.00 0.00 0.00 3.49
660 665 4.564940 GTGTATAGCACGGTAGTAGCTT 57.435 45.455 0.00 0.00 38.45 3.74
661 666 4.929781 GTGTATAGCACGGTAGTAGCTTT 58.070 43.478 0.00 0.00 38.45 3.51
662 667 5.346522 GTGTATAGCACGGTAGTAGCTTTT 58.653 41.667 0.00 0.00 38.45 2.27
663 668 5.458126 GTGTATAGCACGGTAGTAGCTTTTC 59.542 44.000 0.00 0.00 38.45 2.29
664 669 2.381725 AGCACGGTAGTAGCTTTTCC 57.618 50.000 0.00 0.00 33.26 3.13
665 670 1.066358 AGCACGGTAGTAGCTTTTCCC 60.066 52.381 0.00 0.00 33.26 3.97
666 671 2.010544 GCACGGTAGTAGCTTTTCCCC 61.011 57.143 0.00 0.00 0.00 4.81
667 672 1.553704 CACGGTAGTAGCTTTTCCCCT 59.446 52.381 0.00 0.00 0.00 4.79
668 673 1.829849 ACGGTAGTAGCTTTTCCCCTC 59.170 52.381 0.00 0.00 0.00 4.30
669 674 1.829222 CGGTAGTAGCTTTTCCCCTCA 59.171 52.381 0.00 0.00 0.00 3.86
670 675 2.235402 CGGTAGTAGCTTTTCCCCTCAA 59.765 50.000 0.00 0.00 0.00 3.02
671 676 3.679083 CGGTAGTAGCTTTTCCCCTCAAG 60.679 52.174 0.00 0.00 0.00 3.02
672 677 3.370633 GGTAGTAGCTTTTCCCCTCAAGG 60.371 52.174 0.00 0.00 0.00 3.61
673 678 2.632537 AGTAGCTTTTCCCCTCAAGGA 58.367 47.619 0.00 0.00 38.24 3.36
674 679 2.986728 AGTAGCTTTTCCCCTCAAGGAA 59.013 45.455 0.00 0.00 44.30 3.36
683 688 5.333566 TTCCCCTCAAGGAAAATAGTGTT 57.666 39.130 0.00 0.00 43.02 3.32
684 689 5.333566 TCCCCTCAAGGAAAATAGTGTTT 57.666 39.130 0.00 0.00 38.24 2.83
685 690 5.321927 TCCCCTCAAGGAAAATAGTGTTTC 58.678 41.667 0.00 0.00 38.24 2.78
695 700 6.665992 GAAAATAGTGTTTCCTTTTCCCCT 57.334 37.500 0.00 0.00 33.54 4.79
696 701 6.665992 AAAATAGTGTTTCCTTTTCCCCTC 57.334 37.500 0.00 0.00 0.00 4.30
697 702 5.333566 AATAGTGTTTCCTTTTCCCCTCA 57.666 39.130 0.00 0.00 0.00 3.86
698 703 3.680777 AGTGTTTCCTTTTCCCCTCAA 57.319 42.857 0.00 0.00 0.00 3.02
699 704 3.989056 AGTGTTTCCTTTTCCCCTCAAA 58.011 40.909 0.00 0.00 0.00 2.69
700 705 3.960755 AGTGTTTCCTTTTCCCCTCAAAG 59.039 43.478 0.00 0.00 0.00 2.77
701 706 3.958147 GTGTTTCCTTTTCCCCTCAAAGA 59.042 43.478 0.00 0.00 33.69 2.52
702 707 4.404394 GTGTTTCCTTTTCCCCTCAAAGAA 59.596 41.667 0.00 0.00 33.69 2.52
703 708 5.026790 TGTTTCCTTTTCCCCTCAAAGAAA 58.973 37.500 0.00 0.00 33.69 2.52
704 709 5.485708 TGTTTCCTTTTCCCCTCAAAGAAAA 59.514 36.000 0.00 0.00 39.12 2.29
705 710 6.013293 TGTTTCCTTTTCCCCTCAAAGAAAAA 60.013 34.615 0.00 0.00 40.44 1.94
784 789 6.204495 GCTTGAATCTTTCCTCCAGATGATAC 59.796 42.308 0.00 0.00 31.00 2.24
794 799 1.516161 CAGATGATACATGGGCCGTG 58.484 55.000 24.09 24.09 0.00 4.94
800 805 2.297701 GATACATGGGCCGTGACAAAT 58.702 47.619 31.76 17.73 0.00 2.32
829 834 4.091509 CGAATATAACCGAATGCTACCTGC 59.908 45.833 0.00 0.00 43.25 4.85
830 835 4.891992 ATATAACCGAATGCTACCTGCT 57.108 40.909 0.00 0.00 43.37 4.24
840 845 1.078143 CTACCTGCTGAGGCCCAAC 60.078 63.158 0.00 0.00 44.33 3.77
844 849 1.970114 CTGCTGAGGCCCAACACAG 60.970 63.158 0.00 3.06 37.74 3.66
967 3150 0.887387 AGTCGCCGCTTAGCCAAAAA 60.887 50.000 0.00 0.00 0.00 1.94
1280 3463 1.079819 TAAGCTGCTCGCGCTCTTT 60.080 52.632 5.56 0.00 45.59 2.52
1453 3636 1.798813 GGAAATCGTGAGTTGTTCGCT 59.201 47.619 0.00 0.00 34.06 4.93
1468 3651 0.673437 TCGCTGCTTTTCCCCTTTTG 59.327 50.000 0.00 0.00 0.00 2.44
1554 3737 2.159462 CCGCCTTTTGAGCATTCTCTTC 60.159 50.000 0.00 0.00 40.03 2.87
1557 3740 3.128415 GCCTTTTGAGCATTCTCTTCCTC 59.872 47.826 0.00 0.00 40.03 3.71
1599 3782 3.790091 TCTCTGAAATGAAGAGCATCCG 58.210 45.455 0.00 0.00 40.87 4.18
1647 3830 1.406539 AGCTTCCTGCAACAACAACAG 59.593 47.619 0.00 0.00 45.94 3.16
1722 3935 2.019984 GGATCTGACCATTCAAGTGGC 58.980 52.381 0.00 0.00 43.27 5.01
1733 3946 4.756642 CCATTCAAGTGGCATACGTCATAT 59.243 41.667 0.00 0.00 31.43 1.78
1778 3991 5.276114 CGATCTTCGTGAATAGCAAAGACTG 60.276 44.000 0.00 0.00 34.72 3.51
1802 4015 3.588955 GGATTTGGAACTTCATGGCAAC 58.411 45.455 0.00 0.00 0.00 4.17
1906 4119 2.289002 GCTGCTGCCAATACACTCATAC 59.711 50.000 3.85 0.00 0.00 2.39
1915 4128 6.072728 TGCCAATACACTCATACTTTTGTGTC 60.073 38.462 0.00 0.00 41.87 3.67
2024 4239 3.106672 GTTACGCTACGAGGATGAGTTG 58.893 50.000 0.00 0.00 0.00 3.16
2036 4251 4.593956 AGGATGAGTTGGCTAAGAAAAGG 58.406 43.478 0.00 0.00 0.00 3.11
2069 4285 6.945636 TTGAATCTTCCACCCTCTAACTAA 57.054 37.500 0.00 0.00 0.00 2.24
2165 4382 7.218228 TCAACACATGATTTAATCAAGCACT 57.782 32.000 11.88 0.00 43.50 4.40
2202 4419 1.487482 CGTGAAGCTGAAAGACGACA 58.513 50.000 0.00 0.00 32.90 4.35
2439 4656 2.749076 TGGAACTCATGAATGGCGAAAG 59.251 45.455 0.00 0.00 0.00 2.62
2443 4660 3.942829 ACTCATGAATGGCGAAAGAGAA 58.057 40.909 0.00 0.00 0.00 2.87
2580 4798 9.153721 TGGTCAATCTTGCAATTTTCAATTATC 57.846 29.630 0.00 0.00 0.00 1.75
2595 4813 9.958180 TTTTCAATTATCTGATCAGTGTCCTTA 57.042 29.630 21.92 1.39 0.00 2.69
2597 4815 9.551734 TTCAATTATCTGATCAGTGTCCTTATG 57.448 33.333 21.92 11.81 0.00 1.90
2613 4831 8.360390 GTGTCCTTATGTTGAAATTTTCTTCCT 58.640 33.333 10.33 0.66 0.00 3.36
2615 4833 9.841880 GTCCTTATGTTGAAATTTTCTTCCTAC 57.158 33.333 10.33 2.61 0.00 3.18
2668 4887 5.813672 GCGTCCTGTTTCTACATTTACCATA 59.186 40.000 0.00 0.00 32.86 2.74
2883 5105 8.709308 ACATTATTGACTGATAGGAGTAAGCTT 58.291 33.333 3.48 3.48 0.00 3.74
2955 5177 2.906354 AGGTTTGTCTGGCGATCATAC 58.094 47.619 0.00 0.00 0.00 2.39
2956 5178 2.236146 AGGTTTGTCTGGCGATCATACA 59.764 45.455 0.00 0.00 31.76 2.29
3045 5267 1.636519 CCAGGGTTACATGGGGTTACA 59.363 52.381 0.00 0.00 30.73 2.41
3101 5323 4.493350 CGTGAATCATCAATGCGAAAGTTC 59.507 41.667 0.00 0.00 37.30 3.01
3137 5359 3.916359 AAGGCTCTTAAACCTAGCTCC 57.084 47.619 0.00 0.00 34.31 4.70
3158 5380 1.000993 ATCTCTGTCGGGAGGTGCT 59.999 57.895 0.00 0.00 34.39 4.40
3499 5725 3.159213 TCATGGCCATTCAACTTCAGT 57.841 42.857 17.92 0.00 0.00 3.41
3686 5923 8.458052 TGTATTTATATGAACTTGTGGCTGTTG 58.542 33.333 0.00 0.00 0.00 3.33
3721 5959 5.619607 CGGTAAATTTGAACAAGTTGACTCG 59.380 40.000 10.54 7.81 0.00 4.18
3729 5967 5.864986 TGAACAAGTTGACTCGAGAAAAAC 58.135 37.500 21.68 18.37 0.00 2.43
3754 5992 2.054799 TGAGCCTTGTAAACCTGGACT 58.945 47.619 0.00 0.00 0.00 3.85
3789 6031 3.881688 ACCATACTGCTCATGCTTTCATC 59.118 43.478 0.00 0.00 40.48 2.92
3830 6072 6.532365 AGTTCAAAAGAGAGTGAAATCGAC 57.468 37.500 0.00 0.00 35.60 4.20
4070 6312 2.231478 GCTAAGAAGTCCCAAAAAGGCC 59.769 50.000 0.00 0.00 35.39 5.19
4268 6511 7.505585 TGATTCCAAACTCTGTTTATCAGGTTT 59.494 33.333 0.00 0.00 42.44 3.27
4843 7086 4.572389 CGGTTTCAGCTGCTCAAGTTATAT 59.428 41.667 9.47 0.00 0.00 0.86
4960 7203 1.118356 ATGATCTCCTCAGGGACGCC 61.118 60.000 0.00 0.00 37.28 5.68
5162 7405 5.086104 AGCGGTGTTGTAGATTTATCTGT 57.914 39.130 2.51 0.00 37.76 3.41
5204 7447 0.321919 TTGAGGCATGGCACTGAGAC 60.322 55.000 22.64 4.27 0.00 3.36
5211 7454 2.235845 ATGGCACTGAGACATGATCG 57.764 50.000 0.00 0.00 46.85 3.69
5273 7516 7.891183 TTACAGTAGAGACAGAAAATCTTGC 57.109 36.000 0.00 0.00 0.00 4.01
5286 7529 0.534203 ATCTTGCGTGTCACGGGTTT 60.534 50.000 25.70 0.00 42.82 3.27
5341 7584 4.142138 CCTGTGGCGAACTTAGATAGAGTT 60.142 45.833 0.00 0.00 39.90 3.01
5342 7585 4.744570 TGTGGCGAACTTAGATAGAGTTG 58.255 43.478 0.00 0.00 37.46 3.16
5343 7586 4.219944 TGTGGCGAACTTAGATAGAGTTGT 59.780 41.667 0.00 0.00 37.46 3.32
5344 7587 4.799428 GTGGCGAACTTAGATAGAGTTGTC 59.201 45.833 0.00 0.00 37.46 3.18
5346 7589 4.098196 GGCGAACTTAGATAGAGTTGTCCT 59.902 45.833 0.00 0.00 37.46 3.85
5348 7591 5.744819 GCGAACTTAGATAGAGTTGTCCTTC 59.255 44.000 0.00 0.00 37.46 3.46
5349 7592 6.404954 GCGAACTTAGATAGAGTTGTCCTTCT 60.405 42.308 0.00 0.00 37.46 2.85
5351 7594 8.675504 CGAACTTAGATAGAGTTGTCCTTCTAA 58.324 37.037 0.00 0.00 37.46 2.10
5352 7595 9.791820 GAACTTAGATAGAGTTGTCCTTCTAAC 57.208 37.037 0.00 0.00 37.46 2.34
5353 7596 8.880991 ACTTAGATAGAGTTGTCCTTCTAACA 57.119 34.615 0.00 0.00 0.00 2.41
5354 7597 8.962679 ACTTAGATAGAGTTGTCCTTCTAACAG 58.037 37.037 0.00 0.00 0.00 3.16
5355 7598 6.783708 AGATAGAGTTGTCCTTCTAACAGG 57.216 41.667 0.00 0.00 34.86 4.00
5356 7599 5.659079 AGATAGAGTTGTCCTTCTAACAGGG 59.341 44.000 0.00 0.00 34.24 4.45
5357 7600 3.588569 AGAGTTGTCCTTCTAACAGGGT 58.411 45.455 0.00 0.00 34.24 4.34
5358 7601 3.579151 AGAGTTGTCCTTCTAACAGGGTC 59.421 47.826 0.00 0.00 34.24 4.46
5372 7625 2.108425 ACAGGGTCGAGATATAGCCTCA 59.892 50.000 0.00 0.00 0.00 3.86
5377 7630 4.577283 GGGTCGAGATATAGCCTCATCTAC 59.423 50.000 0.00 0.00 31.63 2.59
5439 7692 5.507077 ACGCTTGTTTTACACACACTATTG 58.493 37.500 0.00 0.00 33.98 1.90
5474 7727 7.361799 GGGATAATATTCCGGTGCTAATTGTTC 60.362 40.741 0.00 0.00 36.58 3.18
5481 7734 4.520874 TCCGGTGCTAATTGTTCAAATTGA 59.479 37.500 0.00 0.00 0.00 2.57
5490 7743 7.148853 GCTAATTGTTCAAATTGAGCAGTTGAG 60.149 37.037 23.26 17.84 38.77 3.02
5536 7794 2.176889 CCGTTCTCTTCTCTGGGGTTA 58.823 52.381 0.00 0.00 0.00 2.85
5537 7795 2.766828 CCGTTCTCTTCTCTGGGGTTAT 59.233 50.000 0.00 0.00 0.00 1.89
5538 7796 3.181474 CCGTTCTCTTCTCTGGGGTTATC 60.181 52.174 0.00 0.00 0.00 1.75
5539 7797 3.702045 CGTTCTCTTCTCTGGGGTTATCT 59.298 47.826 0.00 0.00 0.00 1.98
5541 7799 5.360144 CGTTCTCTTCTCTGGGGTTATCTTA 59.640 44.000 0.00 0.00 0.00 2.10
5542 7800 6.041069 CGTTCTCTTCTCTGGGGTTATCTTAT 59.959 42.308 0.00 0.00 0.00 1.73
5545 7803 8.024145 TCTCTTCTCTGGGGTTATCTTATTTC 57.976 38.462 0.00 0.00 0.00 2.17
5546 7804 7.623677 TCTCTTCTCTGGGGTTATCTTATTTCA 59.376 37.037 0.00 0.00 0.00 2.69
5547 7805 8.158025 TCTTCTCTGGGGTTATCTTATTTCAA 57.842 34.615 0.00 0.00 0.00 2.69
5549 7807 8.807948 TTCTCTGGGGTTATCTTATTTCAAAG 57.192 34.615 0.00 0.00 0.00 2.77
5551 7809 7.183839 TCTCTGGGGTTATCTTATTTCAAAGGA 59.816 37.037 0.00 0.00 0.00 3.36
5552 7810 7.346471 TCTGGGGTTATCTTATTTCAAAGGAG 58.654 38.462 0.00 0.00 0.00 3.69
5553 7811 7.036863 TCTGGGGTTATCTTATTTCAAAGGAGT 60.037 37.037 0.00 0.00 0.00 3.85
5554 7812 7.116736 TGGGGTTATCTTATTTCAAAGGAGTC 58.883 38.462 0.00 0.00 0.00 3.36
5616 7910 5.182950 TCAATGCCGTTCATGATTTACAGTT 59.817 36.000 0.00 0.00 35.13 3.16
5619 7913 3.427503 GCCGTTCATGATTTACAGTTGGG 60.428 47.826 0.00 0.00 0.00 4.12
5644 7940 5.437289 ACCTGTGTGTTATCAAACATGTG 57.563 39.130 0.00 0.00 46.84 3.21
5662 7958 4.022464 TGTGATTGTGTTTGAAACGACC 57.978 40.909 3.37 0.00 0.00 4.79
5713 8009 1.196012 GGGAGGGGTACAGAAGACAG 58.804 60.000 0.00 0.00 0.00 3.51
5714 8010 0.537653 GGAGGGGTACAGAAGACAGC 59.462 60.000 0.00 0.00 0.00 4.40
5802 8101 1.079405 GTTTCCGGTCTCATCGGCA 60.079 57.895 0.00 0.00 46.43 5.69
5803 8102 0.462047 GTTTCCGGTCTCATCGGCAT 60.462 55.000 0.00 0.00 46.43 4.40
5804 8103 0.179084 TTTCCGGTCTCATCGGCATC 60.179 55.000 0.00 0.00 46.43 3.91
5805 8104 1.326951 TTCCGGTCTCATCGGCATCA 61.327 55.000 0.00 0.00 46.43 3.07
5806 8105 1.143838 CCGGTCTCATCGGCATCAA 59.856 57.895 0.00 0.00 41.07 2.57
5808 8107 0.863799 CGGTCTCATCGGCATCAATG 59.136 55.000 0.00 0.00 0.00 2.82
5809 8108 1.233019 GGTCTCATCGGCATCAATGG 58.767 55.000 0.00 0.00 0.00 3.16
5810 8109 1.475751 GGTCTCATCGGCATCAATGGT 60.476 52.381 0.00 0.00 0.00 3.55
5812 8111 1.210234 TCTCATCGGCATCAATGGTGT 59.790 47.619 0.00 0.00 0.00 4.16
5853 8159 1.273606 TCTCCTCTAGCAACAGCACAC 59.726 52.381 0.00 0.00 0.00 3.82
5854 8160 1.274728 CTCCTCTAGCAACAGCACACT 59.725 52.381 0.00 0.00 0.00 3.55
5897 8209 4.288366 TCTCATCTGTAACCCACCATCAAA 59.712 41.667 0.00 0.00 0.00 2.69
5901 8213 2.749621 CTGTAACCCACCATCAAAGCTC 59.250 50.000 0.00 0.00 0.00 4.09
5940 8252 1.299468 CGCCTGTAGATCTCGTGGC 60.299 63.158 17.69 17.69 37.24 5.01
5956 8268 2.365582 GTGGCGGTATTGAAGTTCCAT 58.634 47.619 0.00 0.00 0.00 3.41
6007 8319 1.065251 GCTTAACCTCTCCCTACGACG 59.935 57.143 0.00 0.00 0.00 5.12
6012 8329 0.536687 CCTCTCCCTACGACGCCATA 60.537 60.000 0.00 0.00 0.00 2.74
6083 8400 2.744202 GTGCAGGAATTCAACTCGTGAT 59.256 45.455 7.93 0.00 35.70 3.06
6135 8458 7.880160 TTTTTCCTCTTCTGAAATGTCTTGA 57.120 32.000 0.00 0.00 32.19 3.02
6136 8459 6.867662 TTTCCTCTTCTGAAATGTCTTGAC 57.132 37.500 0.00 0.00 0.00 3.18
6137 8460 5.551305 TCCTCTTCTGAAATGTCTTGACA 57.449 39.130 5.89 5.89 0.00 3.58
6138 8461 5.928976 TCCTCTTCTGAAATGTCTTGACAA 58.071 37.500 7.57 0.00 0.00 3.18
6139 8462 6.356556 TCCTCTTCTGAAATGTCTTGACAAA 58.643 36.000 7.57 0.00 0.00 2.83
6140 8463 6.260936 TCCTCTTCTGAAATGTCTTGACAAAC 59.739 38.462 7.57 3.56 0.00 2.93
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
69 70 0.460987 CTTCGTCTCCCTGCATCCAC 60.461 60.000 0.00 0.00 0.00 4.02
197 199 3.771160 ATCCGACCGGTCCAGCAC 61.771 66.667 28.52 3.57 36.47 4.40
198 200 3.770040 CATCCGACCGGTCCAGCA 61.770 66.667 28.52 10.30 36.47 4.41
199 201 3.458163 TCATCCGACCGGTCCAGC 61.458 66.667 28.52 4.82 36.47 4.85
200 202 2.494918 GTCATCCGACCGGTCCAG 59.505 66.667 28.52 19.86 36.02 3.86
344 346 0.601046 CTTGACACCAGCGCTGAGAA 60.601 55.000 38.06 19.67 0.00 2.87
367 370 1.600636 CCGCCAAGTTGCTTCCTCA 60.601 57.895 0.00 0.00 0.00 3.86
377 380 1.582610 CGGTACAATTGCCGCCAAGT 61.583 55.000 10.90 0.00 44.53 3.16
379 382 3.268986 CGGTACAATTGCCGCCAA 58.731 55.556 10.90 0.00 44.53 4.52
558 562 2.543777 TGACCCTTACAAGCACACTC 57.456 50.000 0.00 0.00 0.00 3.51
639 644 4.564940 AAGCTACTACCGTGCTATACAC 57.435 45.455 0.00 0.00 46.45 2.90
640 645 5.450965 GGAAAAGCTACTACCGTGCTATACA 60.451 44.000 0.00 0.00 35.85 2.29
641 646 4.981054 GGAAAAGCTACTACCGTGCTATAC 59.019 45.833 0.00 0.00 35.85 1.47
642 647 4.038402 GGGAAAAGCTACTACCGTGCTATA 59.962 45.833 0.00 0.00 35.85 1.31
643 648 3.181468 GGGAAAAGCTACTACCGTGCTAT 60.181 47.826 0.00 0.00 35.85 2.97
644 649 2.167075 GGGAAAAGCTACTACCGTGCTA 59.833 50.000 0.00 0.00 35.85 3.49
645 650 1.066358 GGGAAAAGCTACTACCGTGCT 60.066 52.381 0.00 0.00 38.87 4.40
646 651 1.366679 GGGAAAAGCTACTACCGTGC 58.633 55.000 0.00 0.00 0.00 5.34
647 652 1.553704 AGGGGAAAAGCTACTACCGTG 59.446 52.381 0.00 0.00 0.00 4.94
648 653 1.829849 GAGGGGAAAAGCTACTACCGT 59.170 52.381 0.00 0.00 0.00 4.83
649 654 1.829222 TGAGGGGAAAAGCTACTACCG 59.171 52.381 0.00 0.00 0.00 4.02
650 655 3.370633 CCTTGAGGGGAAAAGCTACTACC 60.371 52.174 0.00 0.00 0.00 3.18
651 656 3.518303 TCCTTGAGGGGAAAAGCTACTAC 59.482 47.826 0.00 0.00 35.41 2.73
652 657 3.798515 TCCTTGAGGGGAAAAGCTACTA 58.201 45.455 0.00 0.00 35.41 1.82
653 658 2.632537 TCCTTGAGGGGAAAAGCTACT 58.367 47.619 0.00 0.00 35.41 2.57
654 659 3.434940 TTCCTTGAGGGGAAAAGCTAC 57.565 47.619 0.00 0.00 41.77 3.58
661 666 5.333566 AACACTATTTTCCTTGAGGGGAA 57.666 39.130 0.00 0.00 42.86 3.97
662 667 5.321927 GAAACACTATTTTCCTTGAGGGGA 58.678 41.667 0.00 0.00 35.41 4.81
663 668 5.644977 GAAACACTATTTTCCTTGAGGGG 57.355 43.478 0.00 0.00 35.41 4.79
672 677 6.266786 TGAGGGGAAAAGGAAACACTATTTTC 59.733 38.462 0.00 0.00 39.69 2.29
673 678 6.140377 TGAGGGGAAAAGGAAACACTATTTT 58.860 36.000 0.00 0.00 0.00 1.82
674 679 5.711698 TGAGGGGAAAAGGAAACACTATTT 58.288 37.500 0.00 0.00 0.00 1.40
675 680 5.333566 TGAGGGGAAAAGGAAACACTATT 57.666 39.130 0.00 0.00 0.00 1.73
676 681 5.333566 TTGAGGGGAAAAGGAAACACTAT 57.666 39.130 0.00 0.00 0.00 2.12
677 682 4.799715 TTGAGGGGAAAAGGAAACACTA 57.200 40.909 0.00 0.00 0.00 2.74
678 683 3.680777 TTGAGGGGAAAAGGAAACACT 57.319 42.857 0.00 0.00 0.00 3.55
679 684 3.958147 TCTTTGAGGGGAAAAGGAAACAC 59.042 43.478 0.00 0.00 35.71 3.32
680 685 4.258457 TCTTTGAGGGGAAAAGGAAACA 57.742 40.909 0.00 0.00 35.71 2.83
681 686 5.607939 TTTCTTTGAGGGGAAAAGGAAAC 57.392 39.130 0.00 0.00 35.71 2.78
682 687 6.628644 TTTTTCTTTGAGGGGAAAAGGAAA 57.371 33.333 0.00 0.00 39.33 3.13
750 755 5.673514 AGGAAAGATTCAAGCAAGCAAAAA 58.326 33.333 0.00 0.00 0.00 1.94
751 756 5.280654 AGGAAAGATTCAAGCAAGCAAAA 57.719 34.783 0.00 0.00 0.00 2.44
752 757 4.262164 GGAGGAAAGATTCAAGCAAGCAAA 60.262 41.667 0.00 0.00 0.00 3.68
753 758 3.256631 GGAGGAAAGATTCAAGCAAGCAA 59.743 43.478 0.00 0.00 0.00 3.91
754 759 2.821969 GGAGGAAAGATTCAAGCAAGCA 59.178 45.455 0.00 0.00 0.00 3.91
755 760 2.821969 TGGAGGAAAGATTCAAGCAAGC 59.178 45.455 0.00 0.00 0.00 4.01
756 761 4.330250 TCTGGAGGAAAGATTCAAGCAAG 58.670 43.478 0.00 0.00 0.00 4.01
757 762 4.371624 TCTGGAGGAAAGATTCAAGCAA 57.628 40.909 0.00 0.00 0.00 3.91
784 789 0.887247 TTGATTTGTCACGGCCCATG 59.113 50.000 0.00 0.00 0.00 3.66
794 799 6.711579 TCGGTTATATTCGCTTTGATTTGTC 58.288 36.000 0.00 0.00 0.00 3.18
800 805 4.814234 AGCATTCGGTTATATTCGCTTTGA 59.186 37.500 0.00 0.00 0.00 2.69
829 834 2.674380 GCCTGTGTTGGGCCTCAG 60.674 66.667 4.53 8.22 43.49 3.35
840 845 2.753043 GTGCTGGATGGGCCTGTG 60.753 66.667 4.53 0.00 37.86 3.66
844 849 2.191641 GAGAGTGCTGGATGGGCC 59.808 66.667 0.00 0.00 37.10 5.80
922 3103 4.141018 AGAGAAATAGGAGAGGAGGAGGAC 60.141 50.000 0.00 0.00 0.00 3.85
1224 3407 2.117156 GCCATTGATCTGCCGCAGT 61.117 57.895 19.77 7.65 32.61 4.40
1280 3463 4.658063 CAATAATCCGGGTAATAAGGGCA 58.342 43.478 0.00 0.00 0.00 5.36
1453 3636 1.000731 CGCATCAAAAGGGGAAAAGCA 59.999 47.619 0.00 0.00 0.00 3.91
1468 3651 3.031812 GACATCGAGCAATTTTCGCATC 58.968 45.455 4.62 0.15 37.94 3.91
1554 3737 1.986378 CGCGAACTCAAACACTAGAGG 59.014 52.381 0.00 0.00 36.20 3.69
1557 3740 2.662700 AGTCGCGAACTCAAACACTAG 58.337 47.619 12.06 0.00 30.02 2.57
1599 3782 8.617809 TCTAAGCAAATTAATGGTTACCGAATC 58.382 33.333 0.00 0.00 41.04 2.52
1722 3935 9.533983 GTGATTTGCTATGAAATATGACGTATG 57.466 33.333 0.00 0.00 0.00 2.39
1733 3946 5.427378 TCGAGGATGTGATTTGCTATGAAA 58.573 37.500 0.00 0.00 0.00 2.69
1778 3991 2.159379 GCCATGAAGTTCCAAATCCGTC 60.159 50.000 0.00 0.00 0.00 4.79
1802 4015 8.967218 CACATAACACATTTGTTCCAGTTTTAG 58.033 33.333 0.00 0.00 42.67 1.85
1906 4119 4.389077 GTCAGATAAGGGTCGACACAAAAG 59.611 45.833 22.01 4.64 0.00 2.27
1915 4128 1.683917 CCTCCTGTCAGATAAGGGTCG 59.316 57.143 0.00 0.00 34.08 4.79
2024 4239 2.796557 ACCTGCTTCCTTTTCTTAGCC 58.203 47.619 0.00 0.00 32.73 3.93
2036 4251 4.336713 GGTGGAAGATTCAATACCTGCTTC 59.663 45.833 0.00 0.00 0.00 3.86
2102 4318 1.382522 ATGCACCACAGGAAATAGCG 58.617 50.000 0.00 0.00 0.00 4.26
2165 4382 4.637276 TCACGCTCTTCCTGTCAAAATAA 58.363 39.130 0.00 0.00 0.00 1.40
2202 4419 1.968493 TCCTTACAAGTTCAGCGTCCT 59.032 47.619 0.00 0.00 0.00 3.85
2439 4656 0.670162 TGCAGCAAGCCACTTTTCTC 59.330 50.000 0.00 0.00 44.83 2.87
2443 4660 3.749665 TTTATTGCAGCAAGCCACTTT 57.250 38.095 14.47 0.00 44.83 2.66
2535 4753 6.228258 TGACCAAAGTAGTTATGTGACTTCC 58.772 40.000 0.00 0.00 32.27 3.46
2536 4754 7.724305 TTGACCAAAGTAGTTATGTGACTTC 57.276 36.000 0.00 0.00 32.27 3.01
2580 4798 7.621428 ATTTCAACATAAGGACACTGATCAG 57.379 36.000 21.37 21.37 0.00 2.90
2615 4833 9.388506 AGTGATGTGTAATCTCCTTCATTTAAG 57.611 33.333 0.00 0.00 34.73 1.85
2625 4843 4.683832 ACGCTAAGTGATGTGTAATCTCC 58.316 43.478 0.00 0.00 0.00 3.71
2626 4844 4.740695 GGACGCTAAGTGATGTGTAATCTC 59.259 45.833 0.00 0.00 0.00 2.75
2668 4887 8.884124 TTTGATGTGAAATTAGGAAGGAAGAT 57.116 30.769 0.00 0.00 0.00 2.40
2796 5018 9.860898 GTATCAAAATTAGAGCAAAACTGGAAT 57.139 29.630 0.00 0.00 0.00 3.01
2883 5105 4.163458 GTGACTCCTCCAATACCCATTACA 59.837 45.833 0.00 0.00 0.00 2.41
2980 5202 6.319405 TCAAATAGAACCATCACATGTCCATG 59.681 38.462 0.00 5.74 44.15 3.66
3045 5267 5.522641 AGGCTGACCCAAAATTCTATTGAT 58.477 37.500 0.00 0.00 36.11 2.57
3101 5323 1.767759 CCTTAAGACCTGGCAATGGG 58.232 55.000 3.36 0.00 0.00 4.00
3137 5359 2.415010 CCTCCCGACAGAGATGCG 59.585 66.667 0.00 0.00 35.82 4.73
3158 5380 6.071952 GGTGAAGAATAACATTCTCAAAGCCA 60.072 38.462 2.06 0.00 0.00 4.75
3396 5618 7.607991 CAGGTTTTGAATATACTCAACAGTCCT 59.392 37.037 0.00 0.43 35.07 3.85
3481 5707 6.835488 ACATATAACTGAAGTTGAATGGCCAT 59.165 34.615 14.09 14.09 38.90 4.40
3526 5752 5.853282 GGTTCAATCTGAAAACATGTCTTCG 59.147 40.000 7.39 3.01 38.22 3.79
3721 5959 4.948847 ACAAGGCTCATTTGGTTTTTCTC 58.051 39.130 0.00 0.00 0.00 2.87
3729 5967 3.056607 CCAGGTTTACAAGGCTCATTTGG 60.057 47.826 0.00 0.00 0.00 3.28
3754 5992 3.534554 CAGTATGGTTGCTGCATACTCA 58.465 45.455 1.84 6.01 39.34 3.41
4070 6312 4.158025 AGCCTCATCAATGAAAAGAAGCAG 59.842 41.667 6.93 0.00 36.18 4.24
4631 6874 0.819582 TGGGTACTGTTACGCCTAGC 59.180 55.000 0.00 0.00 39.81 3.42
4843 7086 5.008613 GTCCTTGAGCATGTAGTTGTTCAAA 59.991 40.000 5.47 0.00 43.33 2.69
4960 7203 2.351548 CCATCAATCTTGCGCGCG 60.352 61.111 28.44 28.44 0.00 6.86
5162 7405 5.645056 TCAATCAGGAATAATGCCACCTA 57.355 39.130 0.00 0.00 0.00 3.08
5204 7447 0.034059 GTAGGTGGGAGGCGATCATG 59.966 60.000 0.00 0.00 0.00 3.07
5207 7450 0.389757 GAAGTAGGTGGGAGGCGATC 59.610 60.000 0.00 0.00 0.00 3.69
5211 7454 1.501582 ATCAGAAGTAGGTGGGAGGC 58.498 55.000 0.00 0.00 0.00 4.70
5273 7516 0.812412 AGAACCAAACCCGTGACACG 60.812 55.000 21.02 21.02 42.11 4.49
5286 7529 5.067153 ACATCGAACAAAATTGACAGAACCA 59.933 36.000 0.00 0.00 0.00 3.67
5334 7577 5.342866 ACCCTGTTAGAAGGACAACTCTAT 58.657 41.667 0.00 0.00 40.02 1.98
5341 7584 2.168496 CTCGACCCTGTTAGAAGGACA 58.832 52.381 0.00 0.00 40.02 4.02
5342 7585 2.444421 TCTCGACCCTGTTAGAAGGAC 58.556 52.381 0.00 0.00 40.02 3.85
5343 7586 2.893215 TCTCGACCCTGTTAGAAGGA 57.107 50.000 0.00 0.00 40.02 3.36
5344 7587 5.106078 GCTATATCTCGACCCTGTTAGAAGG 60.106 48.000 0.00 0.00 37.05 3.46
5346 7589 4.765856 GGCTATATCTCGACCCTGTTAGAA 59.234 45.833 0.00 0.00 0.00 2.10
5348 7591 4.337145 AGGCTATATCTCGACCCTGTTAG 58.663 47.826 0.00 0.00 0.00 2.34
5349 7592 4.202535 TGAGGCTATATCTCGACCCTGTTA 60.203 45.833 0.00 0.00 34.19 2.41
5351 7594 2.108425 TGAGGCTATATCTCGACCCTGT 59.892 50.000 0.00 0.00 34.19 4.00
5352 7595 2.796557 TGAGGCTATATCTCGACCCTG 58.203 52.381 0.00 0.00 34.19 4.45
5353 7596 3.268334 AGATGAGGCTATATCTCGACCCT 59.732 47.826 7.68 0.00 34.19 4.34
5354 7597 3.626930 AGATGAGGCTATATCTCGACCC 58.373 50.000 7.68 0.00 34.19 4.46
5355 7598 4.271533 CGTAGATGAGGCTATATCTCGACC 59.728 50.000 14.82 4.50 35.42 4.79
5356 7599 4.871557 ACGTAGATGAGGCTATATCTCGAC 59.128 45.833 23.35 15.33 35.42 4.20
5357 7600 5.087391 ACGTAGATGAGGCTATATCTCGA 57.913 43.478 23.35 8.64 35.42 4.04
5358 7601 5.804692 AACGTAGATGAGGCTATATCTCG 57.195 43.478 14.82 17.53 35.42 4.04
5372 7625 6.342338 ACTGAACAGGTAAGAAACGTAGAT 57.658 37.500 6.76 0.00 0.00 1.98
5377 7630 2.729882 CCGACTGAACAGGTAAGAAACG 59.270 50.000 6.76 0.00 0.00 3.60
5439 7692 5.189934 ACCGGAATATTATCCCCTCATCTTC 59.810 44.000 9.46 0.00 36.00 2.87
5459 7712 4.804108 TCAATTTGAACAATTAGCACCGG 58.196 39.130 0.00 0.00 0.00 5.28
5490 7743 2.668457 CACACAGAAACAGTATCGGAGC 59.332 50.000 0.00 0.00 0.00 4.70
5493 7746 3.313012 TCCACACAGAAACAGTATCGG 57.687 47.619 0.00 0.00 0.00 4.18
5498 7751 2.158813 ACGGAATCCACACAGAAACAGT 60.159 45.455 0.00 0.00 0.00 3.55
5536 7794 6.394345 ACTGGGACTCCTTTGAAATAAGAT 57.606 37.500 0.00 0.00 0.00 2.40
5537 7795 5.843019 ACTGGGACTCCTTTGAAATAAGA 57.157 39.130 0.00 0.00 0.00 2.10
5538 7796 6.003950 TGAACTGGGACTCCTTTGAAATAAG 58.996 40.000 0.00 0.00 0.00 1.73
5539 7797 5.947663 TGAACTGGGACTCCTTTGAAATAA 58.052 37.500 0.00 0.00 0.00 1.40
5541 7799 4.453480 TGAACTGGGACTCCTTTGAAAT 57.547 40.909 0.00 0.00 0.00 2.17
5542 7800 3.943671 TGAACTGGGACTCCTTTGAAA 57.056 42.857 0.00 0.00 0.00 2.69
5545 7803 4.911390 ACTAATGAACTGGGACTCCTTTG 58.089 43.478 0.00 0.00 0.00 2.77
5546 7804 5.584551 AACTAATGAACTGGGACTCCTTT 57.415 39.130 0.00 0.00 0.00 3.11
5547 7805 5.310857 AGAAACTAATGAACTGGGACTCCTT 59.689 40.000 0.00 0.00 0.00 3.36
5549 7807 5.167303 AGAAACTAATGAACTGGGACTCC 57.833 43.478 0.00 0.00 0.00 3.85
5551 7809 6.601332 TGAAAGAAACTAATGAACTGGGACT 58.399 36.000 0.00 0.00 0.00 3.85
5552 7810 6.877611 TGAAAGAAACTAATGAACTGGGAC 57.122 37.500 0.00 0.00 0.00 4.46
5553 7811 7.230747 TGATGAAAGAAACTAATGAACTGGGA 58.769 34.615 0.00 0.00 0.00 4.37
5554 7812 7.391554 TCTGATGAAAGAAACTAATGAACTGGG 59.608 37.037 0.00 0.00 0.00 4.45
5589 7849 4.361451 AAATCATGAACGGCATTGAGTC 57.639 40.909 0.00 0.00 34.15 3.36
5616 7910 3.866703 TGATAACACACAGGTTTCCCA 57.133 42.857 0.00 0.00 32.29 4.37
5619 7913 6.417635 CACATGTTTGATAACACACAGGTTTC 59.582 38.462 6.82 0.00 45.10 2.78
5644 7940 3.328237 ACGGTCGTTTCAAACACAATC 57.672 42.857 0.22 0.00 0.00 2.67
5662 7958 5.419542 TCATTTCCTTCTCAGTTCCATACG 58.580 41.667 0.00 0.00 0.00 3.06
5759 8058 8.342634 ACGGAAACTACATCATTTATTATGTGC 58.657 33.333 0.00 0.00 36.96 4.57
5799 8098 3.315191 GGTATGTACACACCATTGATGCC 59.685 47.826 18.59 0.00 34.77 4.40
5800 8099 3.315191 GGGTATGTACACACCATTGATGC 59.685 47.826 24.24 1.77 36.48 3.91
5802 8101 3.117663 GGGGGTATGTACACACCATTGAT 60.118 47.826 24.24 0.00 44.46 2.57
5803 8102 2.240160 GGGGGTATGTACACACCATTGA 59.760 50.000 24.24 0.00 44.46 2.57
5804 8103 2.025793 TGGGGGTATGTACACACCATTG 60.026 50.000 24.24 0.00 44.46 2.82
5805 8104 2.280103 TGGGGGTATGTACACACCATT 58.720 47.619 24.24 0.00 44.46 3.16
5806 8105 1.974028 TGGGGGTATGTACACACCAT 58.026 50.000 24.24 0.00 44.46 3.55
5808 8107 2.025699 ACAATGGGGGTATGTACACACC 60.026 50.000 15.29 15.29 41.67 4.16
5809 8108 3.359695 ACAATGGGGGTATGTACACAC 57.640 47.619 0.00 0.00 32.35 3.82
5810 8109 3.589735 AGAACAATGGGGGTATGTACACA 59.410 43.478 0.00 0.00 0.00 3.72
5812 8111 4.538490 AGAAGAACAATGGGGGTATGTACA 59.462 41.667 0.00 0.00 0.00 2.90
5853 8159 6.127703 TGAGATTTACGGAAGACTAGTTCCAG 60.128 42.308 12.97 8.50 45.70 3.86
5854 8160 5.713389 TGAGATTTACGGAAGACTAGTTCCA 59.287 40.000 12.97 0.00 45.70 3.53
5855 8161 6.205101 TGAGATTTACGGAAGACTAGTTCC 57.795 41.667 0.00 0.00 42.45 3.62
5897 8209 4.442192 GCTGTACTTGGCTATAGTTGAGCT 60.442 45.833 0.84 0.00 39.98 4.09
5901 8213 2.540101 GCGCTGTACTTGGCTATAGTTG 59.460 50.000 0.00 0.00 0.00 3.16
5940 8252 4.330074 GTGACTGATGGAACTTCAATACCG 59.670 45.833 0.00 0.00 0.00 4.02
5956 8268 1.374631 GCGCCATGACAGTGACTGA 60.375 57.895 20.97 0.00 35.18 3.41
6007 8319 7.951591 ACAGAAAATTAATATGGTGGTATGGC 58.048 34.615 0.00 0.00 0.00 4.40
6012 8329 9.185680 GAACCTACAGAAAATTAATATGGTGGT 57.814 33.333 0.00 0.00 0.00 4.16
6083 8400 7.319646 CGTATTTTGGAAGGGAAAATGATTGA 58.680 34.615 0.00 0.00 35.25 2.57


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

AutoCloner maintained by Alex Coulton.