Multiple sequence alignment - TraesCS2B01G418800

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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 TraesCS2B01G418800 chr2B 100.000 2873 0 0 1 2873 600080152 600083024 0.000000e+00 5306
1 TraesCS2B01G418800 chr2B 89.001 791 63 14 1305 2074 171100955 171101742 0.000000e+00 957
2 TraesCS2B01G418800 chr2B 96.271 295 11 0 2579 2873 356438130 356438424 4.300000e-133 484
3 TraesCS2B01G418800 chr2B 89.298 299 27 2 2579 2873 383368032 383367735 1.260000e-98 370
4 TraesCS2B01G418800 chr1B 96.546 2635 36 3 1 2580 7321354 7318720 0.000000e+00 4311
5 TraesCS2B01G418800 chr1B 97.627 295 7 0 2579 2873 505114651 505114357 9.190000e-140 507
6 TraesCS2B01G418800 chr4B 96.318 2607 65 11 1 2579 411180458 411177855 0.000000e+00 4253
7 TraesCS2B01G418800 chr4B 93.185 763 48 2 1 760 38607765 38608526 0.000000e+00 1118
8 TraesCS2B01G418800 chr4B 90.517 232 19 3 2345 2573 534718837 534719068 1.290000e-78 303
9 TraesCS2B01G418800 chr2D 96.140 2228 60 4 1 2222 621361658 621363865 0.000000e+00 3615
10 TraesCS2B01G418800 chr2D 89.495 1942 179 16 1 1932 226333100 226335026 0.000000e+00 2433
11 TraesCS2B01G418800 chr2D 92.442 516 24 10 2069 2577 621363679 621364186 0.000000e+00 723
12 TraesCS2B01G418800 chr7A 90.295 1968 169 18 1 1956 683625610 683627567 0.000000e+00 2556
13 TraesCS2B01G418800 chr7A 89.924 1965 177 16 1 1956 683510224 683508272 0.000000e+00 2512
14 TraesCS2B01G418800 chr5B 90.298 1948 164 17 1 1938 567869166 567867234 0.000000e+00 2527
15 TraesCS2B01G418800 chr5B 96.610 295 10 0 2579 2873 390733535 390733829 9.250000e-135 490
16 TraesCS2B01G418800 chr6D 90.144 1948 160 19 1 1938 61814077 61812152 0.000000e+00 2505
17 TraesCS2B01G418800 chr6D 90.508 295 28 0 2579 2873 458983884 458983590 9.650000e-105 390
18 TraesCS2B01G418800 chr3D 90.026 1945 169 16 1 1935 535143497 535145426 0.000000e+00 2494
19 TraesCS2B01G418800 chr3D 90.169 295 29 0 2579 2873 121543567 121543273 4.490000e-103 385
20 TraesCS2B01G418800 chr3D 94.715 246 13 0 2332 2577 49967053 49967298 1.620000e-102 383
21 TraesCS2B01G418800 chr3D 83.969 262 19 11 2069 2325 49964632 49964875 2.230000e-56 230
22 TraesCS2B01G418800 chr2A 92.744 634 41 3 7 637 480692626 480691995 0.000000e+00 911
23 TraesCS2B01G418800 chr2A 90.086 232 20 3 2345 2573 719359120 719359351 6.020000e-77 298
24 TraesCS2B01G418800 chr6B 95.737 563 17 3 2019 2577 127847705 127847146 0.000000e+00 900
25 TraesCS2B01G418800 chr4A 90.698 645 56 2 1 642 645736844 645736201 0.000000e+00 856
26 TraesCS2B01G418800 chr4A 90.543 645 57 2 1 642 645769385 645768742 0.000000e+00 850
27 TraesCS2B01G418800 chr3B 91.476 481 24 12 2112 2577 652789356 652788878 0.000000e+00 645
28 TraesCS2B01G418800 chr3B 93.559 295 19 0 2579 2873 820093283 820093577 9.450000e-120 440
29 TraesCS2B01G418800 chr7B 92.881 295 21 0 2579 2873 439553182 439552888 2.050000e-116 429
30 TraesCS2B01G418800 chr7D 90.203 296 28 1 2579 2873 607534624 607534919 4.490000e-103 385
31 TraesCS2B01G418800 chr3A 89.362 235 22 3 2345 2576 671024135 671023901 2.800000e-75 292


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 TraesCS2B01G418800 chr2B 600080152 600083024 2872 False 5306.0 5306 100.000 1 2873 1 chr2B.!!$F3 2872
1 TraesCS2B01G418800 chr2B 171100955 171101742 787 False 957.0 957 89.001 1305 2074 1 chr2B.!!$F1 769
2 TraesCS2B01G418800 chr1B 7318720 7321354 2634 True 4311.0 4311 96.546 1 2580 1 chr1B.!!$R1 2579
3 TraesCS2B01G418800 chr4B 411177855 411180458 2603 True 4253.0 4253 96.318 1 2579 1 chr4B.!!$R1 2578
4 TraesCS2B01G418800 chr4B 38607765 38608526 761 False 1118.0 1118 93.185 1 760 1 chr4B.!!$F1 759
5 TraesCS2B01G418800 chr2D 226333100 226335026 1926 False 2433.0 2433 89.495 1 1932 1 chr2D.!!$F1 1931
6 TraesCS2B01G418800 chr2D 621361658 621364186 2528 False 2169.0 3615 94.291 1 2577 2 chr2D.!!$F2 2576
7 TraesCS2B01G418800 chr7A 683625610 683627567 1957 False 2556.0 2556 90.295 1 1956 1 chr7A.!!$F1 1955
8 TraesCS2B01G418800 chr7A 683508272 683510224 1952 True 2512.0 2512 89.924 1 1956 1 chr7A.!!$R1 1955
9 TraesCS2B01G418800 chr5B 567867234 567869166 1932 True 2527.0 2527 90.298 1 1938 1 chr5B.!!$R1 1937
10 TraesCS2B01G418800 chr6D 61812152 61814077 1925 True 2505.0 2505 90.144 1 1938 1 chr6D.!!$R1 1937
11 TraesCS2B01G418800 chr3D 535143497 535145426 1929 False 2494.0 2494 90.026 1 1935 1 chr3D.!!$F1 1934
12 TraesCS2B01G418800 chr3D 49964632 49967298 2666 False 306.5 383 89.342 2069 2577 2 chr3D.!!$F2 508
13 TraesCS2B01G418800 chr2A 480691995 480692626 631 True 911.0 911 92.744 7 637 1 chr2A.!!$R1 630
14 TraesCS2B01G418800 chr6B 127847146 127847705 559 True 900.0 900 95.737 2019 2577 1 chr6B.!!$R1 558
15 TraesCS2B01G418800 chr4A 645736201 645736844 643 True 856.0 856 90.698 1 642 1 chr4A.!!$R1 641
16 TraesCS2B01G418800 chr4A 645768742 645769385 643 True 850.0 850 90.543 1 642 1 chr4A.!!$R2 641

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
307 311 1.547372 GGGCATCAAGTCAGCAACAAT 59.453 47.619 0.0 0.0 0.0 2.71 F
420 424 4.215613 GGTATCCTTCGCACTCAAAGTTTT 59.784 41.667 0.0 0.0 0.0 2.43 F
1162 1176 5.380043 ACACTGCTGCTATAAAGGCAATAT 58.620 37.500 0.0 0.0 39.3 1.28 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1175 1189 1.134521 TCTCCTTTGTGACGTGCAACT 60.135 47.619 0.00 0.00 31.75 3.16 R
1567 1584 1.271856 TGTGGCATTTCGGGAGAGTA 58.728 50.000 0.00 0.00 41.75 2.59 R
2778 5061 0.034670 GCAAGACTCCTGGAGGCATT 60.035 55.000 30.48 18.29 40.81 3.56 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
307 311 1.547372 GGGCATCAAGTCAGCAACAAT 59.453 47.619 0.00 0.00 0.00 2.71
346 350 6.992715 AGAGTTATATAACTTGCGCCATTCTT 59.007 34.615 25.25 2.77 45.84 2.52
420 424 4.215613 GGTATCCTTCGCACTCAAAGTTTT 59.784 41.667 0.00 0.00 0.00 2.43
796 805 7.120579 TGTGGATTAGCAAGACGATGTATTTTT 59.879 33.333 0.00 0.00 0.00 1.94
798 807 7.132863 GGATTAGCAAGACGATGTATTTTTCC 58.867 38.462 0.00 0.00 0.00 3.13
1162 1176 5.380043 ACACTGCTGCTATAAAGGCAATAT 58.620 37.500 0.00 0.00 39.30 1.28
1175 1189 8.978874 ATAAAGGCAATATGTGATAAGTGTGA 57.021 30.769 0.00 0.00 0.00 3.58
1218 1232 7.978982 AGAAAATATGTTCAAGGATGAAGACG 58.021 34.615 8.36 0.00 45.88 4.18
1452 1469 7.702348 GCTTGTTACAAGAACAAAGAAGTGAAT 59.298 33.333 26.94 0.00 39.36 2.57
1567 1584 1.266175 CCGATGTAGTAGCCGTCGAAT 59.734 52.381 0.00 0.00 42.46 3.34
1790 1810 6.681729 TGGTAAACTCATCCTTAGTGAACT 57.318 37.500 0.00 0.00 0.00 3.01
2380 4663 8.084073 ACAACAAAGTTCAGTTTGATCATATGG 58.916 33.333 13.03 0.00 39.40 2.74
2580 4863 8.385111 CAATATCAACATCCAAACAAAGCATTC 58.615 33.333 0.00 0.00 0.00 2.67
2581 4864 5.273674 TCAACATCCAAACAAAGCATTCA 57.726 34.783 0.00 0.00 0.00 2.57
2582 4865 5.856156 TCAACATCCAAACAAAGCATTCAT 58.144 33.333 0.00 0.00 0.00 2.57
2583 4866 5.697178 TCAACATCCAAACAAAGCATTCATG 59.303 36.000 0.00 0.00 0.00 3.07
2584 4867 5.471556 ACATCCAAACAAAGCATTCATGA 57.528 34.783 0.00 0.00 0.00 3.07
2585 4868 5.856156 ACATCCAAACAAAGCATTCATGAA 58.144 33.333 11.26 11.26 0.00 2.57
2586 4869 6.469410 ACATCCAAACAAAGCATTCATGAAT 58.531 32.000 15.36 15.36 0.00 2.57
2587 4870 6.938030 ACATCCAAACAAAGCATTCATGAATT 59.062 30.769 18.41 2.34 0.00 2.17
2588 4871 6.788684 TCCAAACAAAGCATTCATGAATTG 57.211 33.333 18.41 16.39 33.73 2.32
2589 4872 5.179742 TCCAAACAAAGCATTCATGAATTGC 59.820 36.000 23.82 23.82 31.95 3.56
2590 4873 5.387279 CAAACAAAGCATTCATGAATTGCC 58.613 37.500 25.83 15.98 31.95 4.52
2591 4874 4.546829 ACAAAGCATTCATGAATTGCCT 57.453 36.364 25.83 17.42 31.95 4.75
2592 4875 4.901868 ACAAAGCATTCATGAATTGCCTT 58.098 34.783 25.83 20.59 31.95 4.35
2593 4876 4.933400 ACAAAGCATTCATGAATTGCCTTC 59.067 37.500 25.83 11.59 31.95 3.46
2594 4877 3.814005 AGCATTCATGAATTGCCTTCC 57.186 42.857 25.83 9.86 32.49 3.46
2595 4878 2.100252 AGCATTCATGAATTGCCTTCCG 59.900 45.455 25.83 13.43 32.49 4.30
2596 4879 2.159198 GCATTCATGAATTGCCTTCCGT 60.159 45.455 18.41 0.00 32.49 4.69
2597 4880 3.699067 CATTCATGAATTGCCTTCCGTC 58.301 45.455 18.41 0.00 32.49 4.79
2598 4881 2.787473 TCATGAATTGCCTTCCGTCT 57.213 45.000 0.00 0.00 32.49 4.18
2599 4882 2.632377 TCATGAATTGCCTTCCGTCTC 58.368 47.619 0.00 0.00 32.49 3.36
2600 4883 1.328680 CATGAATTGCCTTCCGTCTCG 59.671 52.381 0.00 0.00 32.49 4.04
2601 4884 1.019278 TGAATTGCCTTCCGTCTCGC 61.019 55.000 0.00 0.00 32.49 5.03
2602 4885 0.741221 GAATTGCCTTCCGTCTCGCT 60.741 55.000 0.00 0.00 0.00 4.93
2603 4886 1.021390 AATTGCCTTCCGTCTCGCTG 61.021 55.000 0.00 0.00 0.00 5.18
2604 4887 4.742201 TGCCTTCCGTCTCGCTGC 62.742 66.667 0.00 0.00 0.00 5.25
2606 4889 4.821589 CCTTCCGTCTCGCTGCCC 62.822 72.222 0.00 0.00 0.00 5.36
2607 4890 4.069232 CTTCCGTCTCGCTGCCCA 62.069 66.667 0.00 0.00 0.00 5.36
2608 4891 3.997064 CTTCCGTCTCGCTGCCCAG 62.997 68.421 0.00 0.00 0.00 4.45
2610 4893 3.842923 CCGTCTCGCTGCCCAGAT 61.843 66.667 0.00 0.00 0.00 2.90
2611 4894 2.185350 CGTCTCGCTGCCCAGATT 59.815 61.111 0.00 0.00 0.00 2.40
2612 4895 2.169789 CGTCTCGCTGCCCAGATTG 61.170 63.158 0.00 0.00 0.00 2.67
2613 4896 2.124983 TCTCGCTGCCCAGATTGC 60.125 61.111 0.00 0.00 0.00 3.56
2614 4897 3.207669 CTCGCTGCCCAGATTGCC 61.208 66.667 0.00 0.00 0.00 4.52
2615 4898 4.802051 TCGCTGCCCAGATTGCCC 62.802 66.667 0.00 0.00 0.00 5.36
2617 4900 2.443390 GCTGCCCAGATTGCCCAT 60.443 61.111 0.00 0.00 0.00 4.00
2618 4901 1.152694 GCTGCCCAGATTGCCCATA 60.153 57.895 0.00 0.00 0.00 2.74
2619 4902 1.177256 GCTGCCCAGATTGCCCATAG 61.177 60.000 0.00 0.00 0.00 2.23
2620 4903 1.152694 TGCCCAGATTGCCCATAGC 60.153 57.895 0.00 0.00 44.14 2.97
2631 4914 2.141535 GCCCATAGCGTAACTGAGAG 57.858 55.000 0.00 0.00 0.00 3.20
2632 4915 1.870167 GCCCATAGCGTAACTGAGAGC 60.870 57.143 0.00 0.00 0.00 4.09
2633 4916 1.269831 CCCATAGCGTAACTGAGAGCC 60.270 57.143 0.00 0.00 0.00 4.70
2634 4917 1.683917 CCATAGCGTAACTGAGAGCCT 59.316 52.381 0.00 0.00 0.00 4.58
2635 4918 2.287909 CCATAGCGTAACTGAGAGCCTC 60.288 54.545 0.00 0.00 0.00 4.70
2636 4919 2.124277 TAGCGTAACTGAGAGCCTCA 57.876 50.000 0.00 5.03 38.25 3.86
2637 4920 0.528470 AGCGTAACTGAGAGCCTCAC 59.472 55.000 0.00 0.00 35.39 3.51
2638 4921 0.243907 GCGTAACTGAGAGCCTCACA 59.756 55.000 0.00 0.00 35.39 3.58
2639 4922 1.336887 GCGTAACTGAGAGCCTCACAA 60.337 52.381 0.00 0.00 35.39 3.33
2640 4923 2.866460 GCGTAACTGAGAGCCTCACAAA 60.866 50.000 0.00 0.00 35.39 2.83
2641 4924 3.390135 CGTAACTGAGAGCCTCACAAAA 58.610 45.455 0.00 0.00 35.39 2.44
2642 4925 3.807622 CGTAACTGAGAGCCTCACAAAAA 59.192 43.478 0.00 0.00 35.39 1.94
2643 4926 4.084328 CGTAACTGAGAGCCTCACAAAAAG 60.084 45.833 0.00 0.00 35.39 2.27
2644 4927 2.225467 ACTGAGAGCCTCACAAAAAGC 58.775 47.619 0.00 0.00 35.39 3.51
2645 4928 2.158696 ACTGAGAGCCTCACAAAAAGCT 60.159 45.455 0.00 0.00 35.39 3.74
2648 4931 1.230324 GAGCCTCACAAAAAGCTCGT 58.770 50.000 0.00 0.00 42.02 4.18
2649 4932 0.947244 AGCCTCACAAAAAGCTCGTG 59.053 50.000 0.00 0.00 0.00 4.35
2650 4933 0.663153 GCCTCACAAAAAGCTCGTGT 59.337 50.000 0.00 0.00 32.42 4.49
2651 4934 1.597937 GCCTCACAAAAAGCTCGTGTG 60.598 52.381 14.95 14.95 43.23 3.82
2653 4936 2.286418 CCTCACAAAAAGCTCGTGTGAC 60.286 50.000 18.19 0.00 45.02 3.67
2654 4937 2.351418 CTCACAAAAAGCTCGTGTGACA 59.649 45.455 18.19 4.93 45.02 3.58
2655 4938 2.942376 TCACAAAAAGCTCGTGTGACAT 59.058 40.909 18.19 0.00 45.02 3.06
2656 4939 3.002246 TCACAAAAAGCTCGTGTGACATC 59.998 43.478 18.19 0.00 45.02 3.06
2657 4940 2.032894 ACAAAAAGCTCGTGTGACATCG 60.033 45.455 0.00 0.00 0.00 3.84
2658 4941 1.865865 AAAAGCTCGTGTGACATCGT 58.134 45.000 7.27 0.00 0.00 3.73
2659 4942 1.419374 AAAGCTCGTGTGACATCGTC 58.581 50.000 7.27 0.00 0.00 4.20
2660 4943 0.598562 AAGCTCGTGTGACATCGTCT 59.401 50.000 7.27 4.37 33.15 4.18
2661 4944 0.169230 AGCTCGTGTGACATCGTCTC 59.831 55.000 7.27 0.00 33.15 3.36
2662 4945 0.798771 GCTCGTGTGACATCGTCTCC 60.799 60.000 7.27 0.00 33.15 3.71
2663 4946 0.521735 CTCGTGTGACATCGTCTCCA 59.478 55.000 7.27 0.00 33.15 3.86
2664 4947 1.133216 CTCGTGTGACATCGTCTCCAT 59.867 52.381 7.27 0.00 33.15 3.41
2665 4948 1.132453 TCGTGTGACATCGTCTCCATC 59.868 52.381 7.27 0.00 33.15 3.51
2666 4949 1.135402 CGTGTGACATCGTCTCCATCA 60.135 52.381 0.00 0.00 33.15 3.07
2667 4950 2.671070 CGTGTGACATCGTCTCCATCAA 60.671 50.000 0.00 0.00 33.15 2.57
2668 4951 3.325870 GTGTGACATCGTCTCCATCAAA 58.674 45.455 0.00 0.00 33.15 2.69
2669 4952 3.369147 GTGTGACATCGTCTCCATCAAAG 59.631 47.826 0.00 0.00 33.15 2.77
2670 4953 3.006859 TGTGACATCGTCTCCATCAAAGT 59.993 43.478 0.00 0.00 33.15 2.66
2671 4954 3.369147 GTGACATCGTCTCCATCAAAGTG 59.631 47.826 0.00 0.00 33.15 3.16
2672 4955 3.258123 TGACATCGTCTCCATCAAAGTGA 59.742 43.478 0.00 0.00 33.15 3.41
2673 4956 4.245660 GACATCGTCTCCATCAAAGTGAA 58.754 43.478 0.00 0.00 0.00 3.18
2674 4957 3.997021 ACATCGTCTCCATCAAAGTGAAC 59.003 43.478 0.00 0.00 0.00 3.18
2675 4958 3.744238 TCGTCTCCATCAAAGTGAACA 57.256 42.857 0.00 0.00 0.00 3.18
2676 4959 3.653344 TCGTCTCCATCAAAGTGAACAG 58.347 45.455 0.00 0.00 0.00 3.16
2677 4960 2.158449 CGTCTCCATCAAAGTGAACAGC 59.842 50.000 0.00 0.00 0.00 4.40
2678 4961 2.485814 GTCTCCATCAAAGTGAACAGCC 59.514 50.000 0.00 0.00 0.00 4.85
2679 4962 2.106338 TCTCCATCAAAGTGAACAGCCA 59.894 45.455 0.00 0.00 0.00 4.75
2680 4963 3.087031 CTCCATCAAAGTGAACAGCCAT 58.913 45.455 0.00 0.00 0.00 4.40
2681 4964 3.499338 TCCATCAAAGTGAACAGCCATT 58.501 40.909 0.00 0.00 0.00 3.16
2682 4965 3.256383 TCCATCAAAGTGAACAGCCATTG 59.744 43.478 0.00 0.00 0.00 2.82
2683 4966 3.006110 CCATCAAAGTGAACAGCCATTGT 59.994 43.478 0.00 0.00 43.45 2.71
2695 4978 3.677002 CCATTGTTTGGCGTTTGGT 57.323 47.368 0.00 0.00 39.09 3.67
2696 4979 1.946745 CCATTGTTTGGCGTTTGGTT 58.053 45.000 0.00 0.00 39.09 3.67
2697 4980 1.864082 CCATTGTTTGGCGTTTGGTTC 59.136 47.619 0.00 0.00 39.09 3.62
2698 4981 2.544685 CATTGTTTGGCGTTTGGTTCA 58.455 42.857 0.00 0.00 0.00 3.18
2699 4982 2.285827 TTGTTTGGCGTTTGGTTCAG 57.714 45.000 0.00 0.00 0.00 3.02
2700 4983 1.178276 TGTTTGGCGTTTGGTTCAGT 58.822 45.000 0.00 0.00 0.00 3.41
2701 4984 1.546476 TGTTTGGCGTTTGGTTCAGTT 59.454 42.857 0.00 0.00 0.00 3.16
2702 4985 2.753452 TGTTTGGCGTTTGGTTCAGTTA 59.247 40.909 0.00 0.00 0.00 2.24
2703 4986 3.381908 TGTTTGGCGTTTGGTTCAGTTAT 59.618 39.130 0.00 0.00 0.00 1.89
2704 4987 3.907894 TTGGCGTTTGGTTCAGTTATC 57.092 42.857 0.00 0.00 0.00 1.75
2705 4988 1.801771 TGGCGTTTGGTTCAGTTATCG 59.198 47.619 0.00 0.00 0.00 2.92
2706 4989 1.465187 GGCGTTTGGTTCAGTTATCGC 60.465 52.381 0.00 0.00 41.32 4.58
2707 4990 1.463444 GCGTTTGGTTCAGTTATCGCT 59.537 47.619 0.00 0.00 39.43 4.93
2708 4991 2.724839 GCGTTTGGTTCAGTTATCGCTG 60.725 50.000 0.00 0.00 39.43 5.18
2709 4992 2.724839 CGTTTGGTTCAGTTATCGCTGC 60.725 50.000 0.00 0.00 36.49 5.25
2710 4993 2.177394 TTGGTTCAGTTATCGCTGCA 57.823 45.000 0.00 0.00 36.49 4.41
2711 4994 2.177394 TGGTTCAGTTATCGCTGCAA 57.823 45.000 0.00 0.00 36.49 4.08
2712 4995 2.076100 TGGTTCAGTTATCGCTGCAAG 58.924 47.619 0.00 0.00 36.49 4.01
2713 4996 2.289382 TGGTTCAGTTATCGCTGCAAGA 60.289 45.455 0.00 0.00 36.49 3.02
2714 4997 2.939103 GGTTCAGTTATCGCTGCAAGAT 59.061 45.455 9.02 9.02 36.49 2.40
2715 4998 3.375299 GGTTCAGTTATCGCTGCAAGATT 59.625 43.478 9.27 0.00 36.49 2.40
2716 4999 4.142600 GGTTCAGTTATCGCTGCAAGATTT 60.143 41.667 9.27 0.00 36.49 2.17
2717 5000 5.393962 GTTCAGTTATCGCTGCAAGATTTT 58.606 37.500 9.27 0.00 36.49 1.82
2718 5001 5.221891 TCAGTTATCGCTGCAAGATTTTC 57.778 39.130 9.27 2.55 36.49 2.29
2719 5002 4.094887 TCAGTTATCGCTGCAAGATTTTCC 59.905 41.667 9.27 0.00 36.49 3.13
2720 5003 3.063997 AGTTATCGCTGCAAGATTTTCCG 59.936 43.478 9.27 0.00 34.07 4.30
2721 5004 1.453155 ATCGCTGCAAGATTTTCCGT 58.547 45.000 0.00 0.00 34.07 4.69
2722 5005 0.516877 TCGCTGCAAGATTTTCCGTG 59.483 50.000 0.00 0.00 34.07 4.94
2723 5006 0.516877 CGCTGCAAGATTTTCCGTGA 59.483 50.000 0.00 0.00 34.07 4.35
2724 5007 1.131126 CGCTGCAAGATTTTCCGTGAT 59.869 47.619 0.00 0.00 34.07 3.06
2725 5008 2.789092 CGCTGCAAGATTTTCCGTGATC 60.789 50.000 0.00 0.00 34.07 2.92
2726 5009 2.421424 GCTGCAAGATTTTCCGTGATCT 59.579 45.455 0.00 0.00 34.07 2.75
2727 5010 3.486542 GCTGCAAGATTTTCCGTGATCTC 60.487 47.826 0.00 0.00 34.07 2.75
2728 5011 3.009723 TGCAAGATTTTCCGTGATCTCC 58.990 45.455 0.00 0.00 31.63 3.71
2729 5012 3.009723 GCAAGATTTTCCGTGATCTCCA 58.990 45.455 0.00 0.00 31.63 3.86
2730 5013 3.181506 GCAAGATTTTCCGTGATCTCCAC 60.182 47.826 0.00 0.00 42.30 4.02
2739 5022 2.215907 GTGATCTCCACGTCCATCAG 57.784 55.000 0.00 0.00 35.86 2.90
2740 5023 1.478510 GTGATCTCCACGTCCATCAGT 59.521 52.381 0.00 0.00 35.86 3.41
2741 5024 1.478105 TGATCTCCACGTCCATCAGTG 59.522 52.381 0.00 0.00 38.05 3.66
2742 5025 1.751351 GATCTCCACGTCCATCAGTGA 59.249 52.381 0.00 0.00 40.56 3.41
2743 5026 0.888619 TCTCCACGTCCATCAGTGAC 59.111 55.000 0.00 0.00 40.56 3.67
2744 5027 0.108615 CTCCACGTCCATCAGTGACC 60.109 60.000 0.00 0.00 40.56 4.02
2745 5028 0.830023 TCCACGTCCATCAGTGACCA 60.830 55.000 0.00 0.00 40.56 4.02
2746 5029 0.250234 CCACGTCCATCAGTGACCAT 59.750 55.000 0.00 0.00 40.56 3.55
2747 5030 1.480545 CCACGTCCATCAGTGACCATA 59.519 52.381 0.00 0.00 40.56 2.74
2748 5031 2.540515 CACGTCCATCAGTGACCATAC 58.459 52.381 0.00 0.00 40.56 2.39
2749 5032 2.094234 CACGTCCATCAGTGACCATACA 60.094 50.000 0.00 0.00 40.56 2.29
2750 5033 2.094182 ACGTCCATCAGTGACCATACAC 60.094 50.000 0.00 0.00 40.60 2.90
2751 5034 2.094234 CGTCCATCAGTGACCATACACA 60.094 50.000 0.00 0.00 42.45 3.72
2752 5035 3.430790 CGTCCATCAGTGACCATACACAT 60.431 47.826 0.00 0.00 42.45 3.21
2753 5036 4.122776 GTCCATCAGTGACCATACACATC 58.877 47.826 0.00 0.00 42.45 3.06
2754 5037 4.033009 TCCATCAGTGACCATACACATCT 58.967 43.478 0.00 0.00 42.45 2.90
2755 5038 4.124970 CCATCAGTGACCATACACATCTG 58.875 47.826 0.00 0.00 42.45 2.90
2756 5039 3.893326 TCAGTGACCATACACATCTGG 57.107 47.619 0.00 0.00 42.45 3.86
2757 5040 3.440127 TCAGTGACCATACACATCTGGA 58.560 45.455 0.00 0.00 42.45 3.86
2758 5041 3.195610 TCAGTGACCATACACATCTGGAC 59.804 47.826 0.00 0.00 42.45 4.02
2759 5042 3.055891 CAGTGACCATACACATCTGGACA 60.056 47.826 0.00 0.00 42.45 4.02
2760 5043 3.776969 AGTGACCATACACATCTGGACAT 59.223 43.478 0.00 0.00 42.45 3.06
2761 5044 4.225942 AGTGACCATACACATCTGGACATT 59.774 41.667 0.00 0.00 42.45 2.71
2762 5045 4.333649 GTGACCATACACATCTGGACATTG 59.666 45.833 0.00 0.00 38.95 2.82
2763 5046 4.224818 TGACCATACACATCTGGACATTGA 59.775 41.667 0.00 0.00 33.33 2.57
2764 5047 5.178096 ACCATACACATCTGGACATTGAA 57.822 39.130 0.00 0.00 36.35 2.69
2765 5048 4.943705 ACCATACACATCTGGACATTGAAC 59.056 41.667 0.00 0.00 36.35 3.18
2766 5049 4.943093 CCATACACATCTGGACATTGAACA 59.057 41.667 0.00 0.00 34.24 3.18
2767 5050 5.163723 CCATACACATCTGGACATTGAACAC 60.164 44.000 0.00 0.00 34.24 3.32
2768 5051 4.090761 ACACATCTGGACATTGAACACT 57.909 40.909 0.00 0.00 0.00 3.55
2769 5052 4.067896 ACACATCTGGACATTGAACACTC 58.932 43.478 0.00 0.00 0.00 3.51
2770 5053 4.202398 ACACATCTGGACATTGAACACTCT 60.202 41.667 0.00 0.00 0.00 3.24
2771 5054 5.012046 ACACATCTGGACATTGAACACTCTA 59.988 40.000 0.00 0.00 0.00 2.43
2772 5055 6.111382 CACATCTGGACATTGAACACTCTAT 58.889 40.000 0.00 0.00 0.00 1.98
2773 5056 6.596888 CACATCTGGACATTGAACACTCTATT 59.403 38.462 0.00 0.00 0.00 1.73
2774 5057 7.765819 CACATCTGGACATTGAACACTCTATTA 59.234 37.037 0.00 0.00 0.00 0.98
2775 5058 7.984050 ACATCTGGACATTGAACACTCTATTAG 59.016 37.037 0.00 0.00 0.00 1.73
2776 5059 6.878317 TCTGGACATTGAACACTCTATTAGG 58.122 40.000 0.00 0.00 0.00 2.69
2777 5060 5.989477 TGGACATTGAACACTCTATTAGGG 58.011 41.667 0.00 0.00 33.39 3.53
2778 5061 5.724370 TGGACATTGAACACTCTATTAGGGA 59.276 40.000 0.00 0.00 30.77 4.20
2779 5062 6.214615 TGGACATTGAACACTCTATTAGGGAA 59.785 38.462 0.00 0.00 30.77 3.97
2780 5063 7.092444 TGGACATTGAACACTCTATTAGGGAAT 60.092 37.037 0.00 0.00 30.77 3.01
2781 5064 7.227512 GGACATTGAACACTCTATTAGGGAATG 59.772 40.741 0.00 0.00 30.77 2.67
2782 5065 6.543831 ACATTGAACACTCTATTAGGGAATGC 59.456 38.462 0.00 0.00 30.77 3.56
2783 5066 5.036117 TGAACACTCTATTAGGGAATGCC 57.964 43.478 0.00 0.00 30.77 4.40
2784 5067 4.721776 TGAACACTCTATTAGGGAATGCCT 59.278 41.667 0.00 0.00 30.77 4.75
2785 5068 4.965200 ACACTCTATTAGGGAATGCCTC 57.035 45.455 0.00 0.00 30.77 4.70
2786 5069 3.648545 ACACTCTATTAGGGAATGCCTCC 59.351 47.826 0.00 0.00 44.54 4.30
2794 5077 2.614001 GGAATGCCTCCAGGAGTCT 58.386 57.895 15.86 0.00 44.67 3.24
2795 5078 0.915364 GGAATGCCTCCAGGAGTCTT 59.085 55.000 15.86 5.49 44.67 3.01
2796 5079 1.407989 GGAATGCCTCCAGGAGTCTTG 60.408 57.143 15.86 0.80 44.67 3.02
2797 5080 0.034670 AATGCCTCCAGGAGTCTTGC 60.035 55.000 15.86 11.66 37.39 4.01
2798 5081 2.125350 GCCTCCAGGAGTCTTGCG 60.125 66.667 15.86 0.00 37.39 4.85
2799 5082 2.125350 CCTCCAGGAGTCTTGCGC 60.125 66.667 15.86 0.00 37.39 6.09
2800 5083 2.507992 CTCCAGGAGTCTTGCGCG 60.508 66.667 8.54 0.00 0.00 6.86
2801 5084 4.742201 TCCAGGAGTCTTGCGCGC 62.742 66.667 27.26 27.26 0.00 6.86
2806 5089 3.782244 GAGTCTTGCGCGCCACAG 61.782 66.667 30.77 21.30 0.00 3.66
2807 5090 4.299547 AGTCTTGCGCGCCACAGA 62.300 61.111 30.77 23.30 0.00 3.41
2808 5091 3.121030 GTCTTGCGCGCCACAGAT 61.121 61.111 30.77 0.00 0.00 2.90
2809 5092 3.120385 TCTTGCGCGCCACAGATG 61.120 61.111 30.77 11.77 0.00 2.90
2810 5093 4.824166 CTTGCGCGCCACAGATGC 62.824 66.667 30.77 0.00 0.00 3.91
2816 5099 4.170062 CGCCACAGATGCCGCAAG 62.170 66.667 0.00 0.00 0.00 4.01
2817 5100 4.487412 GCCACAGATGCCGCAAGC 62.487 66.667 0.00 0.00 44.14 4.01
2826 5109 2.558313 GCCGCAAGCACTTGAGTC 59.442 61.111 14.44 0.00 42.93 3.36
2827 5110 2.253758 GCCGCAAGCACTTGAGTCA 61.254 57.895 14.44 0.00 42.93 3.41
2828 5111 1.571460 CCGCAAGCACTTGAGTCAC 59.429 57.895 14.44 0.00 42.93 3.67
2829 5112 0.882042 CCGCAAGCACTTGAGTCACT 60.882 55.000 14.44 0.00 42.93 3.41
2830 5113 0.510359 CGCAAGCACTTGAGTCACTC 59.490 55.000 14.44 0.00 42.93 3.51
2831 5114 1.586422 GCAAGCACTTGAGTCACTCA 58.414 50.000 14.44 2.36 42.93 3.41
2832 5115 2.149578 GCAAGCACTTGAGTCACTCAT 58.850 47.619 8.74 0.00 40.39 2.90
2833 5116 2.095869 GCAAGCACTTGAGTCACTCATG 60.096 50.000 17.17 17.17 40.39 3.07
2834 5117 3.136763 CAAGCACTTGAGTCACTCATGT 58.863 45.455 18.40 18.40 45.45 3.21
2839 5122 3.987547 ACTTGAGTCACTCATGTGTCTG 58.012 45.455 22.25 4.81 43.79 3.51
2840 5123 3.386078 ACTTGAGTCACTCATGTGTCTGT 59.614 43.478 22.25 5.34 43.79 3.41
2841 5124 3.375782 TGAGTCACTCATGTGTCTGTG 57.624 47.619 2.36 0.00 41.30 3.66
2842 5125 2.695147 TGAGTCACTCATGTGTCTGTGT 59.305 45.455 2.36 0.00 41.30 3.72
2843 5126 3.055591 GAGTCACTCATGTGTCTGTGTG 58.944 50.000 0.00 0.00 41.30 3.82
2844 5127 1.528586 GTCACTCATGTGTCTGTGTGC 59.471 52.381 0.00 0.00 44.14 4.57
2845 5128 0.870393 CACTCATGTGTCTGTGTGCC 59.130 55.000 0.00 0.00 39.24 5.01
2846 5129 0.250467 ACTCATGTGTCTGTGTGCCC 60.250 55.000 0.00 0.00 0.00 5.36
2847 5130 0.035881 CTCATGTGTCTGTGTGCCCT 59.964 55.000 0.00 0.00 0.00 5.19
2848 5131 0.035317 TCATGTGTCTGTGTGCCCTC 59.965 55.000 0.00 0.00 0.00 4.30
2849 5132 0.250424 CATGTGTCTGTGTGCCCTCA 60.250 55.000 0.00 0.00 0.00 3.86
2850 5133 0.250467 ATGTGTCTGTGTGCCCTCAC 60.250 55.000 0.00 0.00 43.40 3.51
2858 5141 3.578456 GTGCCCTCACATCGTTGG 58.422 61.111 0.00 0.00 42.66 3.77
2859 5142 1.302511 GTGCCCTCACATCGTTGGT 60.303 57.895 0.00 0.00 42.66 3.67
2860 5143 0.889186 GTGCCCTCACATCGTTGGTT 60.889 55.000 0.00 0.00 42.66 3.67
2861 5144 0.888736 TGCCCTCACATCGTTGGTTG 60.889 55.000 0.00 0.00 0.00 3.77
2862 5145 1.586154 GCCCTCACATCGTTGGTTGG 61.586 60.000 0.00 0.00 0.00 3.77
2863 5146 0.960364 CCCTCACATCGTTGGTTGGG 60.960 60.000 0.00 2.55 0.00 4.12
2864 5147 0.036164 CCTCACATCGTTGGTTGGGA 59.964 55.000 0.00 0.00 0.00 4.37
2865 5148 1.340017 CCTCACATCGTTGGTTGGGAT 60.340 52.381 0.00 0.00 0.00 3.85
2866 5149 2.436417 CTCACATCGTTGGTTGGGATT 58.564 47.619 0.00 0.00 0.00 3.01
2867 5150 2.158559 TCACATCGTTGGTTGGGATTG 58.841 47.619 0.00 0.00 0.00 2.67
2868 5151 2.158559 CACATCGTTGGTTGGGATTGA 58.841 47.619 0.00 0.00 0.00 2.57
2869 5152 2.162208 CACATCGTTGGTTGGGATTGAG 59.838 50.000 0.00 0.00 0.00 3.02
2870 5153 2.224769 ACATCGTTGGTTGGGATTGAGT 60.225 45.455 0.00 0.00 0.00 3.41
2871 5154 1.890876 TCGTTGGTTGGGATTGAGTG 58.109 50.000 0.00 0.00 0.00 3.51
2872 5155 1.142060 TCGTTGGTTGGGATTGAGTGT 59.858 47.619 0.00 0.00 0.00 3.55
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
307 311 2.452600 AACTCTTTGGCAGTTTGGGA 57.547 45.000 0.00 0.00 29.29 4.37
346 350 7.612244 AGTTCTCTCTACTACATTTCTAGCACA 59.388 37.037 0.00 0.00 0.00 4.57
420 424 8.333235 ACATGTACCTGGTCCTTTATATCAAAA 58.667 33.333 0.63 0.00 0.00 2.44
796 805 4.162320 CCAACATCTAGCTAGACCAAAGGA 59.838 45.833 25.52 1.32 34.72 3.36
798 807 4.080863 ACCCAACATCTAGCTAGACCAAAG 60.081 45.833 25.52 14.62 34.72 2.77
1162 1176 2.799978 CGTGCAACTCACACTTATCACA 59.200 45.455 0.00 0.00 45.92 3.58
1175 1189 1.134521 TCTCCTTTGTGACGTGCAACT 60.135 47.619 0.00 0.00 31.75 3.16
1567 1584 1.271856 TGTGGCATTTCGGGAGAGTA 58.728 50.000 0.00 0.00 41.75 2.59
1790 1810 5.428253 ACTCCATAAGCGCTTGAAATAAGA 58.572 37.500 32.23 15.70 0.00 2.10
2380 4663 9.970395 TTATCTACATTGGAATTGATCATTTGC 57.030 29.630 13.15 13.15 0.00 3.68
2529 4812 2.092807 GCCATGGAATTGAATTGGCCTT 60.093 45.455 18.40 0.00 45.63 4.35
2580 4863 1.328680 CGAGACGGAAGGCAATTCATG 59.671 52.381 3.64 0.00 46.78 3.07
2581 4864 1.656652 CGAGACGGAAGGCAATTCAT 58.343 50.000 3.64 0.00 46.78 2.57
2582 4865 1.019278 GCGAGACGGAAGGCAATTCA 61.019 55.000 3.64 0.00 46.78 2.57
2583 4866 0.741221 AGCGAGACGGAAGGCAATTC 60.741 55.000 0.00 0.00 46.78 2.17
2584 4867 1.021390 CAGCGAGACGGAAGGCAATT 61.021 55.000 0.00 0.00 46.78 2.32
2585 4868 1.448540 CAGCGAGACGGAAGGCAAT 60.449 57.895 0.00 0.00 46.78 3.56
2586 4869 2.048222 CAGCGAGACGGAAGGCAA 60.048 61.111 0.00 0.00 46.78 4.52
2587 4870 4.742201 GCAGCGAGACGGAAGGCA 62.742 66.667 0.00 0.00 46.78 4.75
2589 4872 4.821589 GGGCAGCGAGACGGAAGG 62.822 72.222 0.00 0.00 0.00 3.46
2590 4873 3.997064 CTGGGCAGCGAGACGGAAG 62.997 68.421 0.00 0.00 0.00 3.46
2591 4874 4.069232 CTGGGCAGCGAGACGGAA 62.069 66.667 0.00 0.00 0.00 4.30
2593 4876 3.376935 AATCTGGGCAGCGAGACGG 62.377 63.158 0.00 0.00 0.00 4.79
2594 4877 2.169789 CAATCTGGGCAGCGAGACG 61.170 63.158 0.00 0.00 0.00 4.18
2595 4878 2.467826 GCAATCTGGGCAGCGAGAC 61.468 63.158 0.00 0.00 0.00 3.36
2596 4879 2.124983 GCAATCTGGGCAGCGAGA 60.125 61.111 0.00 0.00 0.00 4.04
2597 4880 3.207669 GGCAATCTGGGCAGCGAG 61.208 66.667 0.00 0.00 0.00 5.03
2598 4881 4.802051 GGGCAATCTGGGCAGCGA 62.802 66.667 0.00 0.00 34.52 4.93
2599 4882 2.963928 TATGGGCAATCTGGGCAGCG 62.964 60.000 0.00 0.00 34.52 5.18
2600 4883 1.152694 TATGGGCAATCTGGGCAGC 60.153 57.895 0.00 0.00 34.52 5.25
2601 4884 1.177256 GCTATGGGCAATCTGGGCAG 61.177 60.000 0.00 0.00 41.35 4.85
2602 4885 1.152694 GCTATGGGCAATCTGGGCA 60.153 57.895 0.00 0.00 41.35 5.36
2603 4886 2.263741 CGCTATGGGCAATCTGGGC 61.264 63.158 0.00 0.00 41.91 5.36
2604 4887 0.396435 TACGCTATGGGCAATCTGGG 59.604 55.000 0.00 0.00 41.91 4.45
2605 4888 1.873591 GTTACGCTATGGGCAATCTGG 59.126 52.381 0.00 0.00 41.91 3.86
2606 4889 2.545526 CAGTTACGCTATGGGCAATCTG 59.454 50.000 0.00 0.00 41.91 2.90
2607 4890 2.434336 TCAGTTACGCTATGGGCAATCT 59.566 45.455 0.00 0.00 41.91 2.40
2608 4891 2.802816 CTCAGTTACGCTATGGGCAATC 59.197 50.000 0.00 0.00 41.91 2.67
2609 4892 2.434336 TCTCAGTTACGCTATGGGCAAT 59.566 45.455 0.00 0.00 41.91 3.56
2610 4893 1.828595 TCTCAGTTACGCTATGGGCAA 59.171 47.619 0.00 0.00 41.91 4.52
2611 4894 1.409064 CTCTCAGTTACGCTATGGGCA 59.591 52.381 0.00 0.00 41.91 5.36
2612 4895 1.870167 GCTCTCAGTTACGCTATGGGC 60.870 57.143 0.00 0.00 37.64 5.36
2613 4896 1.269831 GGCTCTCAGTTACGCTATGGG 60.270 57.143 0.00 0.00 0.00 4.00
2614 4897 1.683917 AGGCTCTCAGTTACGCTATGG 59.316 52.381 0.00 0.00 0.00 2.74
2615 4898 2.359214 TGAGGCTCTCAGTTACGCTATG 59.641 50.000 16.72 0.00 35.39 2.23
2616 4899 2.359531 GTGAGGCTCTCAGTTACGCTAT 59.640 50.000 16.72 0.00 41.46 2.97
2617 4900 1.743958 GTGAGGCTCTCAGTTACGCTA 59.256 52.381 16.72 0.00 41.46 4.26
2618 4901 0.528470 GTGAGGCTCTCAGTTACGCT 59.472 55.000 16.72 0.00 41.46 5.07
2619 4902 0.243907 TGTGAGGCTCTCAGTTACGC 59.756 55.000 16.72 0.00 41.46 4.42
2620 4903 2.724977 TTGTGAGGCTCTCAGTTACG 57.275 50.000 17.64 0.00 41.46 3.18
2621 4904 4.319839 GCTTTTTGTGAGGCTCTCAGTTAC 60.320 45.833 17.64 6.43 41.46 2.50
2622 4905 3.815401 GCTTTTTGTGAGGCTCTCAGTTA 59.185 43.478 17.64 2.69 41.46 2.24
2623 4906 2.620585 GCTTTTTGTGAGGCTCTCAGTT 59.379 45.455 17.64 0.00 41.46 3.16
2624 4907 2.158696 AGCTTTTTGTGAGGCTCTCAGT 60.159 45.455 17.64 0.09 41.46 3.41
2625 4908 2.483491 GAGCTTTTTGTGAGGCTCTCAG 59.517 50.000 17.64 8.82 45.15 3.35
2626 4909 2.498167 GAGCTTTTTGTGAGGCTCTCA 58.502 47.619 16.72 15.72 45.15 3.27
2627 4910 1.462670 CGAGCTTTTTGTGAGGCTCTC 59.537 52.381 16.72 12.99 46.04 3.20
2628 4911 1.202698 ACGAGCTTTTTGTGAGGCTCT 60.203 47.619 16.72 0.00 46.04 4.09
2629 4912 1.069636 CACGAGCTTTTTGTGAGGCTC 60.070 52.381 7.79 7.79 42.87 4.70
2630 4913 0.947244 CACGAGCTTTTTGTGAGGCT 59.053 50.000 0.00 0.00 42.87 4.58
2631 4914 0.663153 ACACGAGCTTTTTGTGAGGC 59.337 50.000 13.89 0.00 42.87 4.70
2632 4915 1.939934 TCACACGAGCTTTTTGTGAGG 59.060 47.619 17.42 9.28 43.63 3.86
2634 4917 2.351455 TGTCACACGAGCTTTTTGTGA 58.649 42.857 17.42 17.42 45.71 3.58
2635 4918 2.823196 TGTCACACGAGCTTTTTGTG 57.177 45.000 14.15 14.15 45.26 3.33
2636 4919 2.032894 CGATGTCACACGAGCTTTTTGT 60.033 45.455 0.00 0.00 0.00 2.83
2637 4920 2.032894 ACGATGTCACACGAGCTTTTTG 60.033 45.455 6.76 0.00 0.00 2.44
2638 4921 2.210116 ACGATGTCACACGAGCTTTTT 58.790 42.857 6.76 0.00 0.00 1.94
2639 4922 1.792949 GACGATGTCACACGAGCTTTT 59.207 47.619 6.76 0.00 32.09 2.27
2640 4923 1.000163 AGACGATGTCACACGAGCTTT 60.000 47.619 6.76 0.00 34.60 3.51
2641 4924 0.598562 AGACGATGTCACACGAGCTT 59.401 50.000 6.76 0.00 34.60 3.74
2642 4925 0.169230 GAGACGATGTCACACGAGCT 59.831 55.000 6.76 0.00 34.60 4.09
2643 4926 0.798771 GGAGACGATGTCACACGAGC 60.799 60.000 6.76 0.01 34.60 5.03
2644 4927 0.521735 TGGAGACGATGTCACACGAG 59.478 55.000 6.76 0.00 34.60 4.18
2645 4928 1.132453 GATGGAGACGATGTCACACGA 59.868 52.381 6.76 0.00 34.60 4.35
2646 4929 1.135402 TGATGGAGACGATGTCACACG 60.135 52.381 0.00 0.00 34.60 4.49
2647 4930 2.654749 TGATGGAGACGATGTCACAC 57.345 50.000 0.00 0.00 34.60 3.82
2648 4931 3.006859 ACTTTGATGGAGACGATGTCACA 59.993 43.478 0.00 0.00 34.60 3.58
2649 4932 3.369147 CACTTTGATGGAGACGATGTCAC 59.631 47.826 0.00 0.00 34.60 3.67
2650 4933 3.258123 TCACTTTGATGGAGACGATGTCA 59.742 43.478 0.00 0.00 34.60 3.58
2651 4934 3.849911 TCACTTTGATGGAGACGATGTC 58.150 45.455 0.00 0.00 0.00 3.06
2652 4935 3.961480 TCACTTTGATGGAGACGATGT 57.039 42.857 0.00 0.00 0.00 3.06
2653 4936 3.996363 TGTTCACTTTGATGGAGACGATG 59.004 43.478 0.00 0.00 0.00 3.84
2654 4937 4.248859 CTGTTCACTTTGATGGAGACGAT 58.751 43.478 0.00 0.00 0.00 3.73
2655 4938 3.653344 CTGTTCACTTTGATGGAGACGA 58.347 45.455 0.00 0.00 0.00 4.20
2656 4939 2.158449 GCTGTTCACTTTGATGGAGACG 59.842 50.000 0.00 0.00 0.00 4.18
2657 4940 2.485814 GGCTGTTCACTTTGATGGAGAC 59.514 50.000 0.00 0.00 0.00 3.36
2658 4941 2.106338 TGGCTGTTCACTTTGATGGAGA 59.894 45.455 0.00 0.00 0.00 3.71
2659 4942 2.507484 TGGCTGTTCACTTTGATGGAG 58.493 47.619 0.00 0.00 0.00 3.86
2660 4943 2.655090 TGGCTGTTCACTTTGATGGA 57.345 45.000 0.00 0.00 0.00 3.41
2661 4944 3.006110 ACAATGGCTGTTCACTTTGATGG 59.994 43.478 0.00 0.00 32.99 3.51
2662 4945 4.247267 ACAATGGCTGTTCACTTTGATG 57.753 40.909 0.00 0.00 32.99 3.07
2663 4946 4.942761 AACAATGGCTGTTCACTTTGAT 57.057 36.364 0.00 0.00 45.50 2.57
2678 4961 2.539274 CTGAACCAAACGCCAAACAATG 59.461 45.455 0.00 0.00 0.00 2.82
2679 4962 2.167487 ACTGAACCAAACGCCAAACAAT 59.833 40.909 0.00 0.00 0.00 2.71
2680 4963 1.546476 ACTGAACCAAACGCCAAACAA 59.454 42.857 0.00 0.00 0.00 2.83
2681 4964 1.178276 ACTGAACCAAACGCCAAACA 58.822 45.000 0.00 0.00 0.00 2.83
2682 4965 2.287393 AACTGAACCAAACGCCAAAC 57.713 45.000 0.00 0.00 0.00 2.93
2683 4966 3.304123 CGATAACTGAACCAAACGCCAAA 60.304 43.478 0.00 0.00 0.00 3.28
2684 4967 2.224549 CGATAACTGAACCAAACGCCAA 59.775 45.455 0.00 0.00 0.00 4.52
2685 4968 1.801771 CGATAACTGAACCAAACGCCA 59.198 47.619 0.00 0.00 0.00 5.69
2686 4969 1.465187 GCGATAACTGAACCAAACGCC 60.465 52.381 0.00 0.00 39.13 5.68
2687 4970 1.463444 AGCGATAACTGAACCAAACGC 59.537 47.619 0.00 0.00 44.03 4.84
2688 4971 2.724839 GCAGCGATAACTGAACCAAACG 60.725 50.000 0.00 0.00 40.25 3.60
2689 4972 2.225491 TGCAGCGATAACTGAACCAAAC 59.775 45.455 0.00 0.00 40.25 2.93
2690 4973 2.499197 TGCAGCGATAACTGAACCAAA 58.501 42.857 0.00 0.00 40.25 3.28
2691 4974 2.177394 TGCAGCGATAACTGAACCAA 57.823 45.000 0.00 0.00 40.25 3.67
2692 4975 2.076100 CTTGCAGCGATAACTGAACCA 58.924 47.619 0.00 0.00 40.25 3.67
2693 4976 2.346803 TCTTGCAGCGATAACTGAACC 58.653 47.619 0.00 0.00 40.25 3.62
2694 4977 4.606457 AATCTTGCAGCGATAACTGAAC 57.394 40.909 1.58 0.00 40.25 3.18
2695 4978 5.391950 GGAAAATCTTGCAGCGATAACTGAA 60.392 40.000 1.58 0.00 40.25 3.02
2696 4979 4.094887 GGAAAATCTTGCAGCGATAACTGA 59.905 41.667 1.58 0.00 40.25 3.41
2697 4980 4.346129 GGAAAATCTTGCAGCGATAACTG 58.654 43.478 1.58 0.00 40.80 3.16
2698 4981 3.063997 CGGAAAATCTTGCAGCGATAACT 59.936 43.478 1.58 0.00 0.00 2.24
2699 4982 3.181510 ACGGAAAATCTTGCAGCGATAAC 60.182 43.478 1.58 0.00 0.00 1.89
2700 4983 3.006940 ACGGAAAATCTTGCAGCGATAA 58.993 40.909 1.58 0.00 0.00 1.75
2701 4984 2.351418 CACGGAAAATCTTGCAGCGATA 59.649 45.455 1.58 0.00 0.00 2.92
2702 4985 1.131126 CACGGAAAATCTTGCAGCGAT 59.869 47.619 0.00 0.00 0.00 4.58
2703 4986 0.516877 CACGGAAAATCTTGCAGCGA 59.483 50.000 0.00 0.00 0.00 4.93
2704 4987 0.516877 TCACGGAAAATCTTGCAGCG 59.483 50.000 0.00 0.00 0.00 5.18
2705 4988 2.421424 AGATCACGGAAAATCTTGCAGC 59.579 45.455 0.00 0.00 0.00 5.25
2706 4989 3.064545 GGAGATCACGGAAAATCTTGCAG 59.935 47.826 0.00 0.00 32.43 4.41
2707 4990 3.009723 GGAGATCACGGAAAATCTTGCA 58.990 45.455 0.00 0.00 32.43 4.08
2708 4991 3.009723 TGGAGATCACGGAAAATCTTGC 58.990 45.455 0.00 0.00 32.43 4.01
2709 4992 4.606457 GTGGAGATCACGGAAAATCTTG 57.394 45.455 0.00 0.00 36.56 3.02
2720 5003 1.478510 ACTGATGGACGTGGAGATCAC 59.521 52.381 0.00 0.00 42.74 3.06
2721 5004 1.478105 CACTGATGGACGTGGAGATCA 59.522 52.381 0.00 0.00 0.00 2.92
2722 5005 1.751351 TCACTGATGGACGTGGAGATC 59.249 52.381 0.00 0.00 0.00 2.75
2723 5006 1.478510 GTCACTGATGGACGTGGAGAT 59.521 52.381 0.00 0.00 0.00 2.75
2724 5007 0.888619 GTCACTGATGGACGTGGAGA 59.111 55.000 0.00 0.00 0.00 3.71
2725 5008 0.108615 GGTCACTGATGGACGTGGAG 60.109 60.000 0.00 0.00 36.12 3.86
2726 5009 0.830023 TGGTCACTGATGGACGTGGA 60.830 55.000 0.00 0.00 36.12 4.02
2727 5010 0.250234 ATGGTCACTGATGGACGTGG 59.750 55.000 0.00 0.00 36.12 4.94
2728 5011 2.094234 TGTATGGTCACTGATGGACGTG 60.094 50.000 0.00 0.00 36.12 4.49
2729 5012 2.094182 GTGTATGGTCACTGATGGACGT 60.094 50.000 0.00 0.00 36.12 4.34
2730 5013 2.094234 TGTGTATGGTCACTGATGGACG 60.094 50.000 0.00 0.00 38.90 4.79
2731 5014 3.610040 TGTGTATGGTCACTGATGGAC 57.390 47.619 0.00 0.00 38.90 4.02
2732 5015 4.033009 AGATGTGTATGGTCACTGATGGA 58.967 43.478 0.00 0.00 38.90 3.41
2733 5016 4.124970 CAGATGTGTATGGTCACTGATGG 58.875 47.826 0.00 0.00 38.90 3.51
2734 5017 4.124970 CCAGATGTGTATGGTCACTGATG 58.875 47.826 0.00 0.00 38.90 3.07
2735 5018 4.033009 TCCAGATGTGTATGGTCACTGAT 58.967 43.478 0.00 0.00 37.94 2.90
2736 5019 3.195610 GTCCAGATGTGTATGGTCACTGA 59.804 47.826 0.00 0.00 37.94 3.41
2737 5020 3.055891 TGTCCAGATGTGTATGGTCACTG 60.056 47.826 0.00 0.00 37.94 3.66
2738 5021 3.173151 TGTCCAGATGTGTATGGTCACT 58.827 45.455 0.00 0.00 37.94 3.41
2739 5022 3.610040 TGTCCAGATGTGTATGGTCAC 57.390 47.619 0.00 0.00 37.94 3.67
2740 5023 4.224818 TCAATGTCCAGATGTGTATGGTCA 59.775 41.667 0.00 0.00 38.70 4.02
2741 5024 4.769688 TCAATGTCCAGATGTGTATGGTC 58.230 43.478 0.00 0.00 37.94 4.02
2742 5025 4.842531 TCAATGTCCAGATGTGTATGGT 57.157 40.909 0.00 0.00 37.94 3.55
2743 5026 4.943093 TGTTCAATGTCCAGATGTGTATGG 59.057 41.667 0.00 0.00 38.09 2.74
2744 5027 5.645067 AGTGTTCAATGTCCAGATGTGTATG 59.355 40.000 0.00 0.00 0.00 2.39
2745 5028 5.809001 AGTGTTCAATGTCCAGATGTGTAT 58.191 37.500 0.00 0.00 0.00 2.29
2746 5029 5.012046 AGAGTGTTCAATGTCCAGATGTGTA 59.988 40.000 0.00 0.00 0.00 2.90
2747 5030 4.067896 GAGTGTTCAATGTCCAGATGTGT 58.932 43.478 0.00 0.00 0.00 3.72
2748 5031 4.321718 AGAGTGTTCAATGTCCAGATGTG 58.678 43.478 0.00 0.00 0.00 3.21
2749 5032 4.630644 AGAGTGTTCAATGTCCAGATGT 57.369 40.909 0.00 0.00 0.00 3.06
2750 5033 7.440556 CCTAATAGAGTGTTCAATGTCCAGATG 59.559 40.741 0.00 0.00 0.00 2.90
2751 5034 7.419518 CCCTAATAGAGTGTTCAATGTCCAGAT 60.420 40.741 0.00 0.00 0.00 2.90
2752 5035 6.127054 CCCTAATAGAGTGTTCAATGTCCAGA 60.127 42.308 0.00 0.00 0.00 3.86
2753 5036 6.051717 CCCTAATAGAGTGTTCAATGTCCAG 58.948 44.000 0.00 0.00 0.00 3.86
2754 5037 5.724370 TCCCTAATAGAGTGTTCAATGTCCA 59.276 40.000 0.00 0.00 0.00 4.02
2755 5038 6.235231 TCCCTAATAGAGTGTTCAATGTCC 57.765 41.667 0.00 0.00 0.00 4.02
2756 5039 7.254932 GCATTCCCTAATAGAGTGTTCAATGTC 60.255 40.741 0.00 0.00 0.00 3.06
2757 5040 6.543831 GCATTCCCTAATAGAGTGTTCAATGT 59.456 38.462 0.00 0.00 0.00 2.71
2758 5041 6.016777 GGCATTCCCTAATAGAGTGTTCAATG 60.017 42.308 0.00 0.00 0.00 2.82
2759 5042 6.064717 GGCATTCCCTAATAGAGTGTTCAAT 58.935 40.000 0.00 0.00 0.00 2.57
2760 5043 5.191722 AGGCATTCCCTAATAGAGTGTTCAA 59.808 40.000 0.00 0.00 44.08 2.69
2761 5044 4.721776 AGGCATTCCCTAATAGAGTGTTCA 59.278 41.667 0.00 0.00 44.08 3.18
2762 5045 5.297569 AGGCATTCCCTAATAGAGTGTTC 57.702 43.478 0.00 0.00 44.08 3.18
2763 5046 4.103311 GGAGGCATTCCCTAATAGAGTGTT 59.897 45.833 0.00 0.00 46.60 3.32
2764 5047 3.648545 GGAGGCATTCCCTAATAGAGTGT 59.351 47.826 0.00 0.00 46.60 3.55
2765 5048 3.648067 TGGAGGCATTCCCTAATAGAGTG 59.352 47.826 4.24 0.00 46.60 3.51
2766 5049 3.906846 CTGGAGGCATTCCCTAATAGAGT 59.093 47.826 4.24 0.00 46.60 3.24
2767 5050 3.262915 CCTGGAGGCATTCCCTAATAGAG 59.737 52.174 4.24 0.00 46.60 2.43
2768 5051 3.116356 TCCTGGAGGCATTCCCTAATAGA 60.116 47.826 0.00 0.00 46.60 1.98
2769 5052 3.251484 TCCTGGAGGCATTCCCTAATAG 58.749 50.000 0.00 0.00 46.60 1.73
2770 5053 3.251484 CTCCTGGAGGCATTCCCTAATA 58.749 50.000 16.19 0.00 46.60 0.98
2771 5054 2.061061 CTCCTGGAGGCATTCCCTAAT 58.939 52.381 16.19 0.00 46.60 1.73
2772 5055 1.274416 ACTCCTGGAGGCATTCCCTAA 60.274 52.381 26.56 0.00 46.60 2.69
2773 5056 0.343372 ACTCCTGGAGGCATTCCCTA 59.657 55.000 26.56 0.00 46.60 3.53
2775 5058 0.985490 AGACTCCTGGAGGCATTCCC 60.985 60.000 30.48 8.95 46.19 3.97
2776 5059 0.915364 AAGACTCCTGGAGGCATTCC 59.085 55.000 30.48 10.54 40.81 3.01
2777 5060 2.016096 GCAAGACTCCTGGAGGCATTC 61.016 57.143 30.48 16.83 40.81 2.67
2778 5061 0.034670 GCAAGACTCCTGGAGGCATT 60.035 55.000 30.48 18.29 40.81 3.56
2779 5062 1.606531 GCAAGACTCCTGGAGGCAT 59.393 57.895 30.48 17.45 40.81 4.40
2780 5063 2.947532 CGCAAGACTCCTGGAGGCA 61.948 63.158 30.48 0.00 40.81 4.75
2781 5064 2.125350 CGCAAGACTCCTGGAGGC 60.125 66.667 26.56 24.67 38.12 4.70
2782 5065 2.125350 GCGCAAGACTCCTGGAGG 60.125 66.667 26.56 10.63 43.02 4.30
2783 5066 2.507992 CGCGCAAGACTCCTGGAG 60.508 66.667 22.00 22.00 43.02 3.86
2784 5067 4.742201 GCGCGCAAGACTCCTGGA 62.742 66.667 29.10 0.00 43.02 3.86
2789 5072 3.782244 CTGTGGCGCGCAAGACTC 61.782 66.667 34.42 14.98 43.02 3.36
2790 5073 3.596066 ATCTGTGGCGCGCAAGACT 62.596 57.895 34.42 17.18 43.02 3.24
2791 5074 3.121030 ATCTGTGGCGCGCAAGAC 61.121 61.111 34.42 24.70 43.02 3.01
2792 5075 3.120385 CATCTGTGGCGCGCAAGA 61.120 61.111 34.42 29.37 43.02 3.02
2793 5076 4.824166 GCATCTGTGGCGCGCAAG 62.824 66.667 34.42 25.30 43.44 4.01
2800 5083 4.487412 GCTTGCGGCATCTGTGGC 62.487 66.667 2.28 0.00 46.68 5.01
2809 5092 2.253758 TGACTCAAGTGCTTGCGGC 61.254 57.895 7.03 4.08 40.24 6.53
2810 5093 0.882042 AGTGACTCAAGTGCTTGCGG 60.882 55.000 7.03 5.43 40.24 5.69
2811 5094 0.510359 GAGTGACTCAAGTGCTTGCG 59.490 55.000 7.90 3.92 40.24 4.85
2812 5095 1.586422 TGAGTGACTCAAGTGCTTGC 58.414 50.000 13.74 0.00 37.57 4.01
2813 5096 3.136763 ACATGAGTGACTCAAGTGCTTG 58.863 45.455 21.02 14.87 44.04 4.01
2814 5097 3.482156 ACATGAGTGACTCAAGTGCTT 57.518 42.857 21.02 0.37 44.04 3.91
2818 5101 3.386078 ACAGACACATGAGTGACTCAAGT 59.614 43.478 20.26 18.40 45.34 3.16
2819 5102 3.739810 CACAGACACATGAGTGACTCAAG 59.260 47.826 20.26 17.68 45.34 3.02
2820 5103 3.132824 ACACAGACACATGAGTGACTCAA 59.867 43.478 20.26 3.24 45.34 3.02
2821 5104 2.695147 ACACAGACACATGAGTGACTCA 59.305 45.455 18.64 18.64 45.34 3.41
2822 5105 3.055591 CACACAGACACATGAGTGACTC 58.944 50.000 5.47 5.47 45.34 3.36
2827 5110 0.250467 GGGCACACAGACACATGAGT 60.250 55.000 0.00 0.00 0.00 3.41
2828 5111 0.035881 AGGGCACACAGACACATGAG 59.964 55.000 0.00 0.00 0.00 2.90
2829 5112 0.035317 GAGGGCACACAGACACATGA 59.965 55.000 0.00 0.00 0.00 3.07
2830 5113 0.250424 TGAGGGCACACAGACACATG 60.250 55.000 0.00 0.00 0.00 3.21
2831 5114 0.250467 GTGAGGGCACACAGACACAT 60.250 55.000 8.72 0.00 44.51 3.21
2832 5115 1.146041 GTGAGGGCACACAGACACA 59.854 57.895 8.72 0.00 44.51 3.72
2833 5116 4.049393 GTGAGGGCACACAGACAC 57.951 61.111 8.72 0.00 44.51 3.67
2841 5124 0.889186 AACCAACGATGTGAGGGCAC 60.889 55.000 0.00 0.00 45.35 5.01
2842 5125 0.888736 CAACCAACGATGTGAGGGCA 60.889 55.000 0.00 0.00 0.00 5.36
2843 5126 1.586154 CCAACCAACGATGTGAGGGC 61.586 60.000 0.00 0.00 0.00 5.19
2844 5127 0.960364 CCCAACCAACGATGTGAGGG 60.960 60.000 0.00 0.00 0.00 4.30
2845 5128 0.036164 TCCCAACCAACGATGTGAGG 59.964 55.000 0.00 0.00 0.00 3.86
2846 5129 2.113860 ATCCCAACCAACGATGTGAG 57.886 50.000 0.00 0.00 0.00 3.51
2847 5130 2.158559 CAATCCCAACCAACGATGTGA 58.841 47.619 0.00 0.00 0.00 3.58
2848 5131 2.158559 TCAATCCCAACCAACGATGTG 58.841 47.619 0.00 0.00 0.00 3.21
2849 5132 2.224769 ACTCAATCCCAACCAACGATGT 60.225 45.455 0.00 0.00 0.00 3.06
2850 5133 2.162208 CACTCAATCCCAACCAACGATG 59.838 50.000 0.00 0.00 0.00 3.84
2851 5134 2.224769 ACACTCAATCCCAACCAACGAT 60.225 45.455 0.00 0.00 0.00 3.73
2852 5135 1.142060 ACACTCAATCCCAACCAACGA 59.858 47.619 0.00 0.00 0.00 3.85
2853 5136 1.604604 ACACTCAATCCCAACCAACG 58.395 50.000 0.00 0.00 0.00 4.10


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

AutoCloner maintained by Alex Coulton.