Multiple sequence alignment - TraesCS2B01G587600

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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 TraesCS2B01G587600 chr2B 100.000 3016 0 0 1 3016 774837996 774841011 0.000000e+00 5570.0
1 TraesCS2B01G587600 chr2B 96.535 808 22 3 1375 2182 744318420 744317619 0.000000e+00 1332.0
2 TraesCS2B01G587600 chr2B 94.325 881 31 8 1 875 744319971 744319104 0.000000e+00 1332.0
3 TraesCS2B01G587600 chr2B 94.472 615 18 4 2177 2776 744312064 744311451 0.000000e+00 933.0
4 TraesCS2B01G587600 chr2B 97.737 486 7 3 882 1366 744319125 744318643 0.000000e+00 833.0
5 TraesCS2B01G587600 chr2B 79.919 493 66 20 1482 1950 627545184 627544701 6.230000e-87 331.0
6 TraesCS2B01G587600 chr2B 80.203 197 34 5 20 211 753840687 753840491 3.130000e-30 143.0
7 TraesCS2B01G587600 chr2D 95.039 1915 52 13 882 2776 631306767 631308658 0.000000e+00 2970.0
8 TraesCS2B01G587600 chr2D 87.680 763 80 8 1226 1984 647975082 647974330 0.000000e+00 876.0
9 TraesCS2B01G587600 chr2D 80.418 766 107 26 1227 1984 645204176 645203446 7.350000e-151 544.0
10 TraesCS2B01G587600 chr2D 85.098 255 20 13 2771 3011 635802641 635802391 8.350000e-61 244.0
11 TraesCS2B01G587600 chr2D 92.000 75 6 0 1611 1685 645455014 645455088 4.110000e-19 106.0
12 TraesCS2B01G587600 chr1D 95.609 911 37 3 1124 2032 432550851 432549942 0.000000e+00 1458.0
13 TraesCS2B01G587600 chr1D 96.414 251 8 1 890 1139 432551121 432550871 2.160000e-111 412.0
14 TraesCS2B01G587600 chr1D 88.281 128 8 4 2055 2181 285047862 285047983 2.420000e-31 147.0
15 TraesCS2B01G587600 chr1D 100.000 58 0 0 2019 2076 432548398 432548341 1.140000e-19 108.0
16 TraesCS2B01G587600 chr7D 96.110 694 24 3 19 711 185909063 185908372 0.000000e+00 1129.0
17 TraesCS2B01G587600 chr7D 94.109 696 33 5 19 711 575531628 575530938 0.000000e+00 1051.0
18 TraesCS2B01G587600 chr7D 90.469 703 53 12 15 708 578351828 578351131 0.000000e+00 915.0
19 TraesCS2B01G587600 chr7D 96.748 123 4 0 713 835 575530854 575530732 3.940000e-49 206.0
20 TraesCS2B01G587600 chr3B 94.302 702 28 6 19 711 764490446 764491144 0.000000e+00 1064.0
21 TraesCS2B01G587600 chr3B 97.727 88 1 1 713 800 764491228 764491314 1.870000e-32 150.0
22 TraesCS2B01G587600 chr3B 89.583 96 6 1 2077 2172 81302670 81302761 5.280000e-23 119.0
23 TraesCS2B01G587600 chrUn 82.811 989 95 35 1035 1981 31352530 31353485 0.000000e+00 815.0
24 TraesCS2B01G587600 chrUn 82.131 929 91 27 1078 1984 104053113 104052238 0.000000e+00 726.0
25 TraesCS2B01G587600 chrUn 81.203 931 102 29 1075 1984 76956985 76957863 0.000000e+00 682.0
26 TraesCS2B01G587600 chrUn 83.824 204 23 6 2809 3011 124684830 124685024 5.130000e-43 185.0
27 TraesCS2B01G587600 chrUn 91.228 57 4 1 1226 1281 478983915 478983859 3.220000e-10 76.8
28 TraesCS2B01G587600 chr5A 87.338 695 79 7 19 705 55155573 55156266 0.000000e+00 787.0
29 TraesCS2B01G587600 chr5A 89.209 139 10 5 715 849 55156357 55156494 5.170000e-38 169.0
30 TraesCS2B01G587600 chr5D 86.876 701 83 7 19 711 558075250 558074551 0.000000e+00 776.0
31 TraesCS2B01G587600 chr5D 89.884 346 21 2 2444 2776 388861337 388861681 1.660000e-117 433.0
32 TraesCS2B01G587600 chr5D 88.272 324 20 11 2066 2383 388860944 388861255 3.670000e-99 372.0
33 TraesCS2B01G587600 chr5D 91.954 174 13 1 2444 2617 482796638 482796810 3.000000e-60 243.0
34 TraesCS2B01G587600 chr5D 87.222 180 10 7 2606 2772 482796825 482797004 3.070000e-45 193.0
35 TraesCS2B01G587600 chr5D 91.736 121 9 1 716 836 558074464 558074345 1.860000e-37 167.0
36 TraesCS2B01G587600 chr5D 100.000 30 0 0 2564 2593 411716836 411716865 4.200000e-04 56.5
37 TraesCS2B01G587600 chr4A 86.020 701 74 14 19 711 627621498 627620814 0.000000e+00 730.0
38 TraesCS2B01G587600 chr4A 89.256 121 12 1 715 835 627620728 627620609 1.870000e-32 150.0
39 TraesCS2B01G587600 chr4A 89.474 114 11 1 715 828 627741784 627741896 3.130000e-30 143.0
40 TraesCS2B01G587600 chr7A 90.556 540 42 9 76 609 670492913 670492377 0.000000e+00 706.0
41 TraesCS2B01G587600 chr7A 89.368 348 22 9 2444 2776 94922464 94922811 1.000000e-114 424.0
42 TraesCS2B01G587600 chr7A 93.651 126 6 2 713 837 670474708 670474584 1.430000e-43 187.0
43 TraesCS2B01G587600 chr6A 82.853 764 77 20 1226 1984 31587769 31587055 1.180000e-178 636.0
44 TraesCS2B01G587600 chr6A 85.959 584 67 5 1402 1984 31635936 31636505 7.150000e-171 610.0
45 TraesCS2B01G587600 chr6A 86.713 143 18 1 1226 1367 31635790 31635932 1.120000e-34 158.0
46 TraesCS2B01G587600 chr6A 87.805 123 14 1 715 837 71114157 71114278 3.130000e-30 143.0
47 TraesCS2B01G587600 chr2A 87.172 343 26 7 2444 2772 59243672 59244010 1.020000e-99 374.0
48 TraesCS2B01G587600 chr6B 84.463 354 28 9 2444 2776 174570608 174570955 1.040000e-84 324.0
49 TraesCS2B01G587600 chr6B 81.948 349 24 18 2097 2437 174570240 174570557 2.980000e-65 259.0
50 TraesCS2B01G587600 chr7B 90.566 106 5 2 2077 2182 687432048 687432148 5.240000e-28 135.0
51 TraesCS2B01G587600 chr5B 88.889 108 7 3 2073 2180 107198511 107198409 8.780000e-26 128.0
52 TraesCS2B01G587600 chr4B 88.889 108 6 3 2066 2172 104815555 104815657 8.780000e-26 128.0


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 TraesCS2B01G587600 chr2B 774837996 774841011 3015 False 5570.000000 5570 100.0000 1 3016 1 chr2B.!!$F1 3015
1 TraesCS2B01G587600 chr2B 744317619 744319971 2352 True 1165.666667 1332 96.1990 1 2182 3 chr2B.!!$R4 2181
2 TraesCS2B01G587600 chr2B 744311451 744312064 613 True 933.000000 933 94.4720 2177 2776 1 chr2B.!!$R2 599
3 TraesCS2B01G587600 chr2D 631306767 631308658 1891 False 2970.000000 2970 95.0390 882 2776 1 chr2D.!!$F1 1894
4 TraesCS2B01G587600 chr2D 647974330 647975082 752 True 876.000000 876 87.6800 1226 1984 1 chr2D.!!$R3 758
5 TraesCS2B01G587600 chr2D 645203446 645204176 730 True 544.000000 544 80.4180 1227 1984 1 chr2D.!!$R2 757
6 TraesCS2B01G587600 chr1D 432548341 432551121 2780 True 659.333333 1458 97.3410 890 2076 3 chr1D.!!$R1 1186
7 TraesCS2B01G587600 chr7D 185908372 185909063 691 True 1129.000000 1129 96.1100 19 711 1 chr7D.!!$R1 692
8 TraesCS2B01G587600 chr7D 578351131 578351828 697 True 915.000000 915 90.4690 15 708 1 chr7D.!!$R2 693
9 TraesCS2B01G587600 chr7D 575530732 575531628 896 True 628.500000 1051 95.4285 19 835 2 chr7D.!!$R3 816
10 TraesCS2B01G587600 chr3B 764490446 764491314 868 False 607.000000 1064 96.0145 19 800 2 chr3B.!!$F2 781
11 TraesCS2B01G587600 chrUn 31352530 31353485 955 False 815.000000 815 82.8110 1035 1981 1 chrUn.!!$F1 946
12 TraesCS2B01G587600 chrUn 104052238 104053113 875 True 726.000000 726 82.1310 1078 1984 1 chrUn.!!$R1 906
13 TraesCS2B01G587600 chrUn 76956985 76957863 878 False 682.000000 682 81.2030 1075 1984 1 chrUn.!!$F2 909
14 TraesCS2B01G587600 chr5A 55155573 55156494 921 False 478.000000 787 88.2735 19 849 2 chr5A.!!$F1 830
15 TraesCS2B01G587600 chr5D 558074345 558075250 905 True 471.500000 776 89.3060 19 836 2 chr5D.!!$R1 817
16 TraesCS2B01G587600 chr5D 388860944 388861681 737 False 402.500000 433 89.0780 2066 2776 2 chr5D.!!$F2 710
17 TraesCS2B01G587600 chr4A 627620609 627621498 889 True 440.000000 730 87.6380 19 835 2 chr4A.!!$R1 816
18 TraesCS2B01G587600 chr7A 670492377 670492913 536 True 706.000000 706 90.5560 76 609 1 chr7A.!!$R2 533
19 TraesCS2B01G587600 chr6A 31587055 31587769 714 True 636.000000 636 82.8530 1226 1984 1 chr6A.!!$R1 758
20 TraesCS2B01G587600 chr6A 31635790 31636505 715 False 384.000000 610 86.3360 1226 1984 2 chr6A.!!$F2 758
21 TraesCS2B01G587600 chr6B 174570240 174570955 715 False 291.500000 324 83.2055 2097 2776 2 chr6B.!!$F1 679

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
877 994 0.392595 AAAAATCTCCGTCTCCGCCC 60.393 55.0 0.0 0.0 0.0 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2778 4872 0.108019 TCATAGCCATGCCAGCTCTG 59.892 55.0 0.0 0.55 41.83 3.35 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
32 33 3.005897 CCCGACGACAGATCCTATTTGAT 59.994 47.826 0.00 0.00 0.00 2.57
147 152 1.301677 CTCCTTCGCTGTTTCCTGCC 61.302 60.000 0.00 0.00 32.33 4.85
251 260 8.941127 TGTTTTTGTTTTGATTTCTTTTTCCG 57.059 26.923 0.00 0.00 0.00 4.30
817 934 2.453638 GGGTTTGACGCTAGCGAGC 61.454 63.158 41.33 30.23 46.00 5.03
833 950 3.927501 GCGTCAGCTAGGAGGTCT 58.072 61.111 0.00 0.00 41.01 3.85
834 951 1.731093 GCGTCAGCTAGGAGGTCTC 59.269 63.158 0.00 0.00 41.01 3.36
835 952 1.730451 GCGTCAGCTAGGAGGTCTCC 61.730 65.000 8.91 8.91 44.48 3.71
876 993 3.154589 AAAAATCTCCGTCTCCGCC 57.845 52.632 0.00 0.00 0.00 6.13
877 994 0.392595 AAAAATCTCCGTCTCCGCCC 60.393 55.000 0.00 0.00 0.00 6.13
878 995 2.253403 AAAATCTCCGTCTCCGCCCC 62.253 60.000 0.00 0.00 0.00 5.80
1208 1382 1.901159 TGATTGCCCCAACCATCAAAG 59.099 47.619 0.00 0.00 0.00 2.77
1295 1489 1.481871 TCGCCCTCCGAATTTCTACT 58.518 50.000 0.00 0.00 44.21 2.57
1432 1871 6.147821 GGCGAGTGCTTAATACATATGATTGT 59.852 38.462 10.38 0.00 42.25 2.71
1472 1911 1.675641 GATGCAGGGTGCCGAGTTT 60.676 57.895 0.00 0.00 44.23 2.66
1587 2027 2.946084 ACCCCATGGATGCCACCA 60.946 61.111 15.22 1.55 44.41 4.17
1738 2178 3.996363 TGCTAGCCACTTGAATATATGCG 59.004 43.478 13.29 0.00 0.00 4.73
2001 2441 4.154375 ACACCGTCATAGACATAGATAGCG 59.846 45.833 0.00 0.00 32.09 4.26
2261 4259 1.486726 CGAGAGCCCCTTTTCCTGTAT 59.513 52.381 0.00 0.00 0.00 2.29
2442 4515 0.746659 AGCTGGGCTGTGTTCAAAAC 59.253 50.000 0.00 0.00 37.57 2.43
2579 4654 4.393062 CGATCTAGTTGCATGTCCACTTTT 59.607 41.667 0.00 0.00 0.00 2.27
2608 4683 1.153188 TCGTGCTCGACCCGGTATA 60.153 57.895 6.80 0.00 41.35 1.47
2610 4685 0.313043 CGTGCTCGACCCGGTATATT 59.687 55.000 1.00 0.00 39.71 1.28
2644 4725 4.067972 TGTCCAACTCTAAGACACAACC 57.932 45.455 0.00 0.00 35.67 3.77
2649 4730 3.832615 ACTCTAAGACACAACCCGTTT 57.167 42.857 0.00 0.00 0.00 3.60
2772 4866 1.303888 AACTCACGCCCGACCTAGA 60.304 57.895 0.00 0.00 0.00 2.43
2776 4870 2.442272 ACGCCCGACCTAGATGCT 60.442 61.111 0.00 0.00 0.00 3.79
2778 4872 2.737830 GCCCGACCTAGATGCTCC 59.262 66.667 0.00 0.00 0.00 4.70
2779 4873 2.134287 GCCCGACCTAGATGCTCCA 61.134 63.158 0.00 0.00 0.00 3.86
2780 4874 2.045280 CCCGACCTAGATGCTCCAG 58.955 63.158 0.00 0.00 0.00 3.86
2781 4875 0.468214 CCCGACCTAGATGCTCCAGA 60.468 60.000 0.00 0.00 0.00 3.86
2782 4876 0.958091 CCGACCTAGATGCTCCAGAG 59.042 60.000 0.00 0.00 0.00 3.35
2794 4888 2.913501 CCAGAGCTGGCATGGCTA 59.086 61.111 21.08 6.05 44.73 3.93
2795 4889 1.454976 CCAGAGCTGGCATGGCTAT 59.545 57.895 21.08 5.98 44.73 2.97
2796 4890 0.889638 CCAGAGCTGGCATGGCTATG 60.890 60.000 21.08 14.38 44.73 2.23
2797 4891 2.536411 AGAGCTGGCATGGCTATGA 58.464 52.632 21.08 0.00 40.40 2.15
2798 4892 0.108207 AGAGCTGGCATGGCTATGAC 59.892 55.000 21.08 12.31 43.00 3.06
2799 4893 0.108207 GAGCTGGCATGGCTATGACT 59.892 55.000 17.69 9.94 43.12 3.41
2800 4894 0.549950 AGCTGGCATGGCTATGACTT 59.450 50.000 17.69 0.00 43.12 3.01
2801 4895 1.064166 AGCTGGCATGGCTATGACTTT 60.064 47.619 17.69 0.00 43.12 2.66
2802 4896 1.066605 GCTGGCATGGCTATGACTTTG 59.933 52.381 17.69 8.40 43.12 2.77
2803 4897 2.372264 CTGGCATGGCTATGACTTTGT 58.628 47.619 17.69 0.00 43.12 2.83
2804 4898 2.756760 CTGGCATGGCTATGACTTTGTT 59.243 45.455 17.69 0.00 43.12 2.83
2805 4899 2.754552 TGGCATGGCTATGACTTTGTTC 59.245 45.455 17.69 0.00 43.12 3.18
2806 4900 3.019564 GGCATGGCTATGACTTTGTTCT 58.980 45.455 15.09 0.00 39.36 3.01
2807 4901 3.065925 GGCATGGCTATGACTTTGTTCTC 59.934 47.826 15.09 0.00 39.36 2.87
2808 4902 3.065925 GCATGGCTATGACTTTGTTCTCC 59.934 47.826 15.09 0.00 36.36 3.71
2809 4903 4.521146 CATGGCTATGACTTTGTTCTCCT 58.479 43.478 3.54 0.00 36.36 3.69
2810 4904 4.207891 TGGCTATGACTTTGTTCTCCTC 57.792 45.455 0.00 0.00 0.00 3.71
2811 4905 3.055094 TGGCTATGACTTTGTTCTCCTCC 60.055 47.826 0.00 0.00 0.00 4.30
2812 4906 3.198853 GGCTATGACTTTGTTCTCCTCCT 59.801 47.826 0.00 0.00 0.00 3.69
2813 4907 4.438148 GCTATGACTTTGTTCTCCTCCTC 58.562 47.826 0.00 0.00 0.00 3.71
2814 4908 3.990959 ATGACTTTGTTCTCCTCCTCC 57.009 47.619 0.00 0.00 0.00 4.30
2815 4909 2.977808 TGACTTTGTTCTCCTCCTCCT 58.022 47.619 0.00 0.00 0.00 3.69
2816 4910 2.900546 TGACTTTGTTCTCCTCCTCCTC 59.099 50.000 0.00 0.00 0.00 3.71
2817 4911 2.235155 GACTTTGTTCTCCTCCTCCTCC 59.765 54.545 0.00 0.00 0.00 4.30
2818 4912 2.158081 ACTTTGTTCTCCTCCTCCTCCT 60.158 50.000 0.00 0.00 0.00 3.69
2819 4913 2.723530 TTGTTCTCCTCCTCCTCCTT 57.276 50.000 0.00 0.00 0.00 3.36
2824 4918 1.219213 TCTCCTCCTCCTCCTTCCATC 59.781 57.143 0.00 0.00 0.00 3.51
2826 4920 1.118356 CCTCCTCCTCCTTCCATCCG 61.118 65.000 0.00 0.00 0.00 4.18
2829 4923 1.403687 CCTCCTCCTTCCATCCGGAC 61.404 65.000 6.12 0.00 42.67 4.79
2833 4927 2.190578 CCTTCCATCCGGACAGCC 59.809 66.667 6.12 0.00 42.67 4.85
2835 4929 2.609299 TTCCATCCGGACAGCCCA 60.609 61.111 6.12 0.00 42.67 5.36
2839 4933 2.366837 ATCCGGACAGCCCATCCA 60.367 61.111 6.12 0.00 35.83 3.41
2840 4934 2.000701 ATCCGGACAGCCCATCCAA 61.001 57.895 6.12 0.00 35.83 3.53
2842 4936 2.350895 CGGACAGCCCATCCAACA 59.649 61.111 0.00 0.00 35.83 3.33
2844 4938 1.678970 GGACAGCCCATCCAACACC 60.679 63.158 0.00 0.00 36.15 4.16
2845 4939 1.074775 GACAGCCCATCCAACACCA 59.925 57.895 0.00 0.00 0.00 4.17
2847 4941 0.827507 ACAGCCCATCCAACACCAAC 60.828 55.000 0.00 0.00 0.00 3.77
2848 4942 1.228862 AGCCCATCCAACACCAACC 60.229 57.895 0.00 0.00 0.00 3.77
2849 4943 1.228862 GCCCATCCAACACCAACCT 60.229 57.895 0.00 0.00 0.00 3.50
2852 4946 1.203050 CCCATCCAACACCAACCTTCT 60.203 52.381 0.00 0.00 0.00 2.85
2853 4947 2.162681 CCATCCAACACCAACCTTCTC 58.837 52.381 0.00 0.00 0.00 2.87
2854 4948 2.488891 CCATCCAACACCAACCTTCTCA 60.489 50.000 0.00 0.00 0.00 3.27
2856 4950 2.123589 TCCAACACCAACCTTCTCAGA 58.876 47.619 0.00 0.00 0.00 3.27
2857 4951 2.158813 TCCAACACCAACCTTCTCAGAC 60.159 50.000 0.00 0.00 0.00 3.51
2861 4955 2.158755 ACACCAACCTTCTCAGACTTGG 60.159 50.000 4.09 4.09 35.30 3.61
2862 4956 1.421646 ACCAACCTTCTCAGACTTGGG 59.578 52.381 9.03 0.00 34.24 4.12
2863 4957 1.699634 CCAACCTTCTCAGACTTGGGA 59.300 52.381 0.00 0.00 29.93 4.37
2864 4958 2.106511 CCAACCTTCTCAGACTTGGGAA 59.893 50.000 0.00 0.00 41.48 3.97
2866 4960 3.710209 ACCTTCTCAGACTTGGGAATG 57.290 47.619 0.00 0.00 42.73 2.67
2867 4961 2.290577 ACCTTCTCAGACTTGGGAATGC 60.291 50.000 0.00 0.00 42.73 3.56
2868 4962 2.005451 CTTCTCAGACTTGGGAATGCG 58.995 52.381 0.00 0.00 42.73 4.73
2869 4963 1.266178 TCTCAGACTTGGGAATGCGA 58.734 50.000 0.00 0.00 28.50 5.10
2870 4964 1.066858 TCTCAGACTTGGGAATGCGAC 60.067 52.381 0.00 0.00 28.50 5.19
2871 4965 0.684535 TCAGACTTGGGAATGCGACA 59.315 50.000 0.00 0.00 0.00 4.35
2873 4967 0.321653 AGACTTGGGAATGCGACACC 60.322 55.000 0.00 0.00 0.00 4.16
2876 4970 1.002624 TTGGGAATGCGACACCTCC 60.003 57.895 0.00 0.00 0.00 4.30
2877 4971 1.773856 TTGGGAATGCGACACCTCCA 61.774 55.000 0.00 0.00 0.00 3.86
2878 4972 1.224592 GGGAATGCGACACCTCCAT 59.775 57.895 0.00 0.00 0.00 3.41
2879 4973 0.815615 GGGAATGCGACACCTCCATC 60.816 60.000 0.00 0.00 0.00 3.51
2880 4974 0.179000 GGAATGCGACACCTCCATCT 59.821 55.000 0.00 0.00 0.00 2.90
2881 4975 1.576356 GAATGCGACACCTCCATCTC 58.424 55.000 0.00 0.00 0.00 2.75
2882 4976 0.179000 AATGCGACACCTCCATCTCC 59.821 55.000 0.00 0.00 0.00 3.71
2883 4977 1.690219 ATGCGACACCTCCATCTCCC 61.690 60.000 0.00 0.00 0.00 4.30
2884 4978 3.095347 GCGACACCTCCATCTCCCC 62.095 68.421 0.00 0.00 0.00 4.81
2885 4979 2.435693 CGACACCTCCATCTCCCCC 61.436 68.421 0.00 0.00 0.00 5.40
2899 4993 3.533720 CCCCCTTGCTGCATCATG 58.466 61.111 1.84 0.00 0.00 3.07
2900 4994 2.131709 CCCCCTTGCTGCATCATGG 61.132 63.158 13.99 13.99 0.00 3.66
2901 4995 2.131709 CCCCTTGCTGCATCATGGG 61.132 63.158 26.87 26.87 45.87 4.00
2902 4996 2.792947 CCCTTGCTGCATCATGGGC 61.793 63.158 23.87 7.44 42.28 5.36
2904 4998 1.756950 CTTGCTGCATCATGGGCCT 60.757 57.895 1.84 0.00 0.00 5.19
2905 4999 2.016393 CTTGCTGCATCATGGGCCTG 62.016 60.000 1.84 0.24 0.00 4.85
2906 5000 3.224324 GCTGCATCATGGGCCTGG 61.224 66.667 4.53 0.00 0.00 4.45
2907 5001 2.599032 CTGCATCATGGGCCTGGA 59.401 61.111 4.53 2.06 0.00 3.86
2908 5002 1.076559 CTGCATCATGGGCCTGGAA 60.077 57.895 4.53 0.00 0.00 3.53
2909 5003 1.076559 TGCATCATGGGCCTGGAAG 60.077 57.895 4.53 0.12 0.00 3.46
2910 5004 1.076485 GCATCATGGGCCTGGAAGT 60.076 57.895 4.53 0.00 0.00 3.01
2911 5005 1.105759 GCATCATGGGCCTGGAAGTC 61.106 60.000 4.53 0.00 0.00 3.01
2912 5006 0.256752 CATCATGGGCCTGGAAGTCA 59.743 55.000 4.53 0.00 0.00 3.41
2913 5007 0.549950 ATCATGGGCCTGGAAGTCAG 59.450 55.000 4.53 0.00 43.00 3.51
2920 5014 4.404691 CTGGAAGTCAGGCCCAAC 57.595 61.111 0.00 0.00 39.76 3.77
2921 5015 1.455849 CTGGAAGTCAGGCCCAACA 59.544 57.895 0.00 0.00 39.76 3.33
2922 5016 0.038744 CTGGAAGTCAGGCCCAACAT 59.961 55.000 0.00 0.00 39.76 2.71
2923 5017 0.251297 TGGAAGTCAGGCCCAACATG 60.251 55.000 0.00 0.00 0.00 3.21
2924 5018 0.251341 GGAAGTCAGGCCCAACATGT 60.251 55.000 0.00 0.00 0.00 3.21
2925 5019 1.620822 GAAGTCAGGCCCAACATGTT 58.379 50.000 4.92 4.92 0.00 2.71
2926 5020 1.541588 GAAGTCAGGCCCAACATGTTC 59.458 52.381 8.48 0.00 0.00 3.18
2927 5021 0.606401 AGTCAGGCCCAACATGTTCG 60.606 55.000 8.48 1.37 0.00 3.95
2928 5022 0.605319 GTCAGGCCCAACATGTTCGA 60.605 55.000 8.48 0.00 0.00 3.71
2929 5023 0.327924 TCAGGCCCAACATGTTCGAT 59.672 50.000 8.48 0.00 0.00 3.59
2930 5024 1.557371 TCAGGCCCAACATGTTCGATA 59.443 47.619 8.48 0.00 0.00 2.92
2931 5025 1.942657 CAGGCCCAACATGTTCGATAG 59.057 52.381 8.48 0.00 0.00 2.08
2932 5026 0.663153 GGCCCAACATGTTCGATAGC 59.337 55.000 8.48 7.15 0.00 2.97
2933 5027 1.668419 GCCCAACATGTTCGATAGCT 58.332 50.000 8.48 0.00 0.00 3.32
2934 5028 1.331756 GCCCAACATGTTCGATAGCTG 59.668 52.381 8.48 0.00 0.00 4.24
2935 5029 1.942657 CCCAACATGTTCGATAGCTGG 59.057 52.381 8.48 4.99 0.00 4.85
2936 5030 2.419990 CCCAACATGTTCGATAGCTGGA 60.420 50.000 8.48 0.00 0.00 3.86
2937 5031 2.868583 CCAACATGTTCGATAGCTGGAG 59.131 50.000 8.48 0.00 0.00 3.86
2938 5032 2.231215 ACATGTTCGATAGCTGGAGC 57.769 50.000 0.00 0.00 42.49 4.70
2939 5033 1.482182 ACATGTTCGATAGCTGGAGCA 59.518 47.619 0.00 0.00 45.16 4.26
2940 5034 2.103771 ACATGTTCGATAGCTGGAGCAT 59.896 45.455 0.00 2.08 45.16 3.79
2941 5035 2.229675 TGTTCGATAGCTGGAGCATG 57.770 50.000 0.00 0.00 45.16 4.06
2942 5036 1.756538 TGTTCGATAGCTGGAGCATGA 59.243 47.619 0.00 0.00 45.16 3.07
2943 5037 2.131183 GTTCGATAGCTGGAGCATGAC 58.869 52.381 0.00 0.00 45.16 3.06
2944 5038 1.697284 TCGATAGCTGGAGCATGACT 58.303 50.000 0.00 0.00 45.16 3.41
2945 5039 1.339291 TCGATAGCTGGAGCATGACTG 59.661 52.381 0.00 0.00 45.16 3.51
2946 5040 1.339291 CGATAGCTGGAGCATGACTGA 59.661 52.381 0.00 0.00 45.16 3.41
2947 5041 2.029200 CGATAGCTGGAGCATGACTGAT 60.029 50.000 0.00 0.00 45.16 2.90
2948 5042 3.587923 GATAGCTGGAGCATGACTGATC 58.412 50.000 0.00 0.00 45.16 2.92
2949 5043 1.498264 AGCTGGAGCATGACTGATCT 58.502 50.000 0.00 0.00 45.16 2.75
2950 5044 1.413445 AGCTGGAGCATGACTGATCTC 59.587 52.381 0.00 0.00 45.16 2.75
2951 5045 1.413445 GCTGGAGCATGACTGATCTCT 59.587 52.381 0.00 0.00 37.92 3.10
2952 5046 2.627221 GCTGGAGCATGACTGATCTCTA 59.373 50.000 0.00 0.00 37.92 2.43
2953 5047 3.552684 GCTGGAGCATGACTGATCTCTAC 60.553 52.174 0.00 0.00 37.92 2.59
2954 5048 3.890756 CTGGAGCATGACTGATCTCTACT 59.109 47.826 0.00 0.00 37.92 2.57
2955 5049 4.285020 TGGAGCATGACTGATCTCTACTT 58.715 43.478 0.00 0.00 37.92 2.24
2956 5050 4.340666 TGGAGCATGACTGATCTCTACTTC 59.659 45.833 0.00 0.00 37.92 3.01
2957 5051 4.584325 GGAGCATGACTGATCTCTACTTCT 59.416 45.833 0.00 0.00 37.92 2.85
2958 5052 5.068987 GGAGCATGACTGATCTCTACTTCTT 59.931 44.000 0.00 0.00 37.92 2.52
2959 5053 6.147864 AGCATGACTGATCTCTACTTCTTC 57.852 41.667 0.00 0.00 0.00 2.87
2960 5054 5.068987 AGCATGACTGATCTCTACTTCTTCC 59.931 44.000 0.00 0.00 0.00 3.46
2961 5055 5.163468 GCATGACTGATCTCTACTTCTTCCA 60.163 44.000 0.00 0.00 0.00 3.53
2962 5056 6.629068 GCATGACTGATCTCTACTTCTTCCAA 60.629 42.308 0.00 0.00 0.00 3.53
2963 5057 6.918067 TGACTGATCTCTACTTCTTCCAAA 57.082 37.500 0.00 0.00 0.00 3.28
2964 5058 6.692486 TGACTGATCTCTACTTCTTCCAAAC 58.308 40.000 0.00 0.00 0.00 2.93
2965 5059 6.043854 ACTGATCTCTACTTCTTCCAAACC 57.956 41.667 0.00 0.00 0.00 3.27
2966 5060 5.073311 TGATCTCTACTTCTTCCAAACCG 57.927 43.478 0.00 0.00 0.00 4.44
2967 5061 4.770531 TGATCTCTACTTCTTCCAAACCGA 59.229 41.667 0.00 0.00 0.00 4.69
2968 5062 5.245301 TGATCTCTACTTCTTCCAAACCGAA 59.755 40.000 0.00 0.00 0.00 4.30
2969 5063 5.540400 TCTCTACTTCTTCCAAACCGAAA 57.460 39.130 0.00 0.00 0.00 3.46
2970 5064 5.920903 TCTCTACTTCTTCCAAACCGAAAA 58.079 37.500 0.00 0.00 0.00 2.29
2971 5065 6.531021 TCTCTACTTCTTCCAAACCGAAAAT 58.469 36.000 0.00 0.00 0.00 1.82
2972 5066 6.649557 TCTCTACTTCTTCCAAACCGAAAATC 59.350 38.462 0.00 0.00 0.00 2.17
2973 5067 4.848562 ACTTCTTCCAAACCGAAAATCC 57.151 40.909 0.00 0.00 0.00 3.01
2974 5068 4.470602 ACTTCTTCCAAACCGAAAATCCT 58.529 39.130 0.00 0.00 0.00 3.24
2975 5069 4.278419 ACTTCTTCCAAACCGAAAATCCTG 59.722 41.667 0.00 0.00 0.00 3.86
2976 5070 2.556622 TCTTCCAAACCGAAAATCCTGC 59.443 45.455 0.00 0.00 0.00 4.85
2977 5071 1.988293 TCCAAACCGAAAATCCTGCA 58.012 45.000 0.00 0.00 0.00 4.41
2978 5072 1.611491 TCCAAACCGAAAATCCTGCAC 59.389 47.619 0.00 0.00 0.00 4.57
2979 5073 1.339610 CCAAACCGAAAATCCTGCACA 59.660 47.619 0.00 0.00 0.00 4.57
2980 5074 2.223923 CCAAACCGAAAATCCTGCACAA 60.224 45.455 0.00 0.00 0.00 3.33
2981 5075 3.452474 CAAACCGAAAATCCTGCACAAA 58.548 40.909 0.00 0.00 0.00 2.83
2982 5076 2.793278 ACCGAAAATCCTGCACAAAC 57.207 45.000 0.00 0.00 0.00 2.93
2983 5077 1.339929 ACCGAAAATCCTGCACAAACC 59.660 47.619 0.00 0.00 0.00 3.27
2984 5078 1.339610 CCGAAAATCCTGCACAAACCA 59.660 47.619 0.00 0.00 0.00 3.67
2985 5079 2.029110 CCGAAAATCCTGCACAAACCAT 60.029 45.455 0.00 0.00 0.00 3.55
2986 5080 3.244976 CGAAAATCCTGCACAAACCATC 58.755 45.455 0.00 0.00 0.00 3.51
2987 5081 3.244976 GAAAATCCTGCACAAACCATCG 58.755 45.455 0.00 0.00 0.00 3.84
2988 5082 1.176527 AATCCTGCACAAACCATCGG 58.823 50.000 0.00 0.00 0.00 4.18
2989 5083 0.680921 ATCCTGCACAAACCATCGGG 60.681 55.000 0.00 0.00 41.29 5.14
2999 5093 2.812499 CCATCGGGTAGTCGGGTG 59.188 66.667 0.00 0.00 0.00 4.61
3000 5094 2.106332 CATCGGGTAGTCGGGTGC 59.894 66.667 0.00 0.00 0.00 5.01
3001 5095 2.363276 ATCGGGTAGTCGGGTGCA 60.363 61.111 0.00 0.00 0.00 4.57
3002 5096 2.423898 ATCGGGTAGTCGGGTGCAG 61.424 63.158 0.00 0.00 0.00 4.41
3003 5097 3.379445 CGGGTAGTCGGGTGCAGT 61.379 66.667 0.00 0.00 0.00 4.40
3004 5098 2.048023 CGGGTAGTCGGGTGCAGTA 61.048 63.158 0.00 0.00 0.00 2.74
3005 5099 1.814527 GGGTAGTCGGGTGCAGTAG 59.185 63.158 0.00 0.00 0.00 2.57
3006 5100 1.673808 GGGTAGTCGGGTGCAGTAGG 61.674 65.000 0.00 0.00 0.00 3.18
3007 5101 0.969409 GGTAGTCGGGTGCAGTAGGT 60.969 60.000 0.00 0.00 0.00 3.08
3008 5102 0.893447 GTAGTCGGGTGCAGTAGGTT 59.107 55.000 0.00 0.00 0.00 3.50
3009 5103 2.094675 GTAGTCGGGTGCAGTAGGTTA 58.905 52.381 0.00 0.00 0.00 2.85
3010 5104 1.861982 AGTCGGGTGCAGTAGGTTAT 58.138 50.000 0.00 0.00 0.00 1.89
3011 5105 3.022557 AGTCGGGTGCAGTAGGTTATA 57.977 47.619 0.00 0.00 0.00 0.98
3012 5106 3.573695 AGTCGGGTGCAGTAGGTTATAT 58.426 45.455 0.00 0.00 0.00 0.86
3013 5107 4.733165 AGTCGGGTGCAGTAGGTTATATA 58.267 43.478 0.00 0.00 0.00 0.86
3014 5108 5.331069 AGTCGGGTGCAGTAGGTTATATAT 58.669 41.667 0.00 0.00 0.00 0.86
3015 5109 5.185249 AGTCGGGTGCAGTAGGTTATATATG 59.815 44.000 0.00 0.00 0.00 1.78
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 4.679373 ACGAGCATCAAATAGGATCTGT 57.321 40.909 0.00 0.00 33.17 3.41
817 934 2.410466 GGAGACCTCCTAGCTGACG 58.590 63.158 8.76 0.00 46.16 4.35
831 948 4.437587 GAGGGGTCGGTCGGGAGA 62.438 72.222 0.00 0.00 0.00 3.71
832 949 4.753662 TGAGGGGTCGGTCGGGAG 62.754 72.222 0.00 0.00 0.00 4.30
833 950 3.831727 TTTGAGGGGTCGGTCGGGA 62.832 63.158 0.00 0.00 0.00 5.14
834 951 2.400269 TTTTTGAGGGGTCGGTCGGG 62.400 60.000 0.00 0.00 0.00 5.14
835 952 1.071814 TTTTTGAGGGGTCGGTCGG 59.928 57.895 0.00 0.00 0.00 4.79
1030 1148 1.711060 GAGACTGGGAGAGAGTCGCG 61.711 65.000 0.00 0.00 43.95 5.87
1208 1382 6.475596 AACAAATGATGGATGGATCTTTCC 57.524 37.500 7.34 7.34 42.94 3.13
1229 1407 9.767228 AAACAAGGGTACACCAAATAAATAAAC 57.233 29.630 0.00 0.00 43.89 2.01
1432 1871 3.624410 CGCAGTGATCCATCTCAAATTCA 59.376 43.478 0.00 0.00 0.00 2.57
1587 2027 0.814010 AAAAAGTGCTGCGTCTCGGT 60.814 50.000 0.00 0.00 0.00 4.69
1875 2315 5.596836 TCTTGCTTTCCACAGACAAATTT 57.403 34.783 0.00 0.00 0.00 1.82
2001 2441 2.315925 TTGAGTCATGGATCTTCGGC 57.684 50.000 0.00 0.00 0.00 5.54
2142 4139 7.406916 TGTACAAATCTTGAAGCCCCTAATTA 58.593 34.615 0.00 0.00 0.00 1.40
2143 4140 6.252995 TGTACAAATCTTGAAGCCCCTAATT 58.747 36.000 0.00 0.00 0.00 1.40
2144 4141 5.826643 TGTACAAATCTTGAAGCCCCTAAT 58.173 37.500 0.00 0.00 0.00 1.73
2145 4142 5.249780 TGTACAAATCTTGAAGCCCCTAA 57.750 39.130 0.00 0.00 0.00 2.69
2261 4259 4.365111 GCCCACATGCCAGACCCA 62.365 66.667 0.00 0.00 0.00 4.51
2390 4417 1.602323 CGTACAAAAGGCCCAGGCA 60.602 57.895 11.50 0.00 44.11 4.75
2644 4725 3.518590 GACATACACCTAGGTCAAACGG 58.481 50.000 12.84 1.77 34.41 4.44
2649 4730 4.265856 AGATGGACATACACCTAGGTCA 57.734 45.455 12.84 5.48 35.71 4.02
2778 4872 0.108019 TCATAGCCATGCCAGCTCTG 59.892 55.000 0.00 0.55 41.83 3.35
2779 4873 0.108207 GTCATAGCCATGCCAGCTCT 59.892 55.000 0.00 0.00 41.83 4.09
2780 4874 0.108207 AGTCATAGCCATGCCAGCTC 59.892 55.000 0.00 0.00 41.83 4.09
2781 4875 0.549950 AAGTCATAGCCATGCCAGCT 59.450 50.000 0.56 0.56 44.49 4.24
2782 4876 1.066605 CAAAGTCATAGCCATGCCAGC 59.933 52.381 0.00 0.00 31.73 4.85
2783 4877 2.372264 ACAAAGTCATAGCCATGCCAG 58.628 47.619 0.00 0.00 31.73 4.85
2784 4878 2.512692 ACAAAGTCATAGCCATGCCA 57.487 45.000 0.00 0.00 31.73 4.92
2785 4879 3.019564 AGAACAAAGTCATAGCCATGCC 58.980 45.455 0.00 0.00 31.73 4.40
2786 4880 3.065925 GGAGAACAAAGTCATAGCCATGC 59.934 47.826 0.00 0.00 31.73 4.06
2787 4881 4.521146 AGGAGAACAAAGTCATAGCCATG 58.479 43.478 0.00 0.00 0.00 3.66
2788 4882 4.384647 GGAGGAGAACAAAGTCATAGCCAT 60.385 45.833 0.00 0.00 0.00 4.40
2789 4883 3.055094 GGAGGAGAACAAAGTCATAGCCA 60.055 47.826 0.00 0.00 0.00 4.75
2790 4884 3.198853 AGGAGGAGAACAAAGTCATAGCC 59.801 47.826 0.00 0.00 0.00 3.93
2791 4885 4.438148 GAGGAGGAGAACAAAGTCATAGC 58.562 47.826 0.00 0.00 0.00 2.97
2792 4886 4.714308 AGGAGGAGGAGAACAAAGTCATAG 59.286 45.833 0.00 0.00 0.00 2.23
2793 4887 4.689062 AGGAGGAGGAGAACAAAGTCATA 58.311 43.478 0.00 0.00 0.00 2.15
2794 4888 3.517500 GAGGAGGAGGAGAACAAAGTCAT 59.482 47.826 0.00 0.00 0.00 3.06
2795 4889 2.900546 GAGGAGGAGGAGAACAAAGTCA 59.099 50.000 0.00 0.00 0.00 3.41
2796 4890 2.235155 GGAGGAGGAGGAGAACAAAGTC 59.765 54.545 0.00 0.00 0.00 3.01
2797 4891 2.158081 AGGAGGAGGAGGAGAACAAAGT 60.158 50.000 0.00 0.00 0.00 2.66
2798 4892 2.545810 AGGAGGAGGAGGAGAACAAAG 58.454 52.381 0.00 0.00 0.00 2.77
2799 4893 2.723530 AGGAGGAGGAGGAGAACAAA 57.276 50.000 0.00 0.00 0.00 2.83
2800 4894 2.541466 GAAGGAGGAGGAGGAGAACAA 58.459 52.381 0.00 0.00 0.00 2.83
2801 4895 1.273324 GGAAGGAGGAGGAGGAGAACA 60.273 57.143 0.00 0.00 0.00 3.18
2802 4896 1.273324 TGGAAGGAGGAGGAGGAGAAC 60.273 57.143 0.00 0.00 0.00 3.01
2803 4897 1.093408 TGGAAGGAGGAGGAGGAGAA 58.907 55.000 0.00 0.00 0.00 2.87
2804 4898 1.219213 GATGGAAGGAGGAGGAGGAGA 59.781 57.143 0.00 0.00 0.00 3.71
2805 4899 1.715785 GATGGAAGGAGGAGGAGGAG 58.284 60.000 0.00 0.00 0.00 3.69
2806 4900 0.266152 GGATGGAAGGAGGAGGAGGA 59.734 60.000 0.00 0.00 0.00 3.71
2807 4901 1.118356 CGGATGGAAGGAGGAGGAGG 61.118 65.000 0.00 0.00 0.00 4.30
2808 4902 1.118356 CCGGATGGAAGGAGGAGGAG 61.118 65.000 0.00 0.00 37.49 3.69
2809 4903 1.075226 CCGGATGGAAGGAGGAGGA 60.075 63.158 0.00 0.00 37.49 3.71
2810 4904 1.075226 TCCGGATGGAAGGAGGAGG 60.075 63.158 0.00 0.00 42.85 4.30
2811 4905 4.707584 TCCGGATGGAAGGAGGAG 57.292 61.111 0.00 0.00 42.85 3.69
2819 4913 2.366837 ATGGGCTGTCCGGATGGA 60.367 61.111 7.81 0.00 43.88 3.41
2824 4918 2.438434 GTTGGATGGGCTGTCCGG 60.438 66.667 0.00 0.00 38.64 5.14
2826 4920 1.678970 GGTGTTGGATGGGCTGTCC 60.679 63.158 0.00 0.00 36.26 4.02
2829 4923 1.535204 GGTTGGTGTTGGATGGGCTG 61.535 60.000 0.00 0.00 0.00 4.85
2833 4927 2.162681 GAGAAGGTTGGTGTTGGATGG 58.837 52.381 0.00 0.00 0.00 3.51
2835 4929 2.711009 TCTGAGAAGGTTGGTGTTGGAT 59.289 45.455 0.00 0.00 0.00 3.41
2839 4933 3.545703 CAAGTCTGAGAAGGTTGGTGTT 58.454 45.455 0.00 0.00 0.00 3.32
2840 4934 2.158755 CCAAGTCTGAGAAGGTTGGTGT 60.159 50.000 10.03 0.00 34.19 4.16
2842 4936 1.421646 CCCAAGTCTGAGAAGGTTGGT 59.578 52.381 14.78 0.00 36.68 3.67
2844 4938 3.492102 TTCCCAAGTCTGAGAAGGTTG 57.508 47.619 0.00 0.00 0.00 3.77
2845 4939 3.812167 GCATTCCCAAGTCTGAGAAGGTT 60.812 47.826 0.00 0.00 0.00 3.50
2847 4941 2.363683 GCATTCCCAAGTCTGAGAAGG 58.636 52.381 0.00 0.00 0.00 3.46
2848 4942 2.005451 CGCATTCCCAAGTCTGAGAAG 58.995 52.381 0.00 0.00 0.00 2.85
2849 4943 1.623311 TCGCATTCCCAAGTCTGAGAA 59.377 47.619 0.00 0.00 0.00 2.87
2852 4946 0.684535 TGTCGCATTCCCAAGTCTGA 59.315 50.000 0.00 0.00 0.00 3.27
2853 4947 0.798776 GTGTCGCATTCCCAAGTCTG 59.201 55.000 0.00 0.00 0.00 3.51
2854 4948 0.321653 GGTGTCGCATTCCCAAGTCT 60.322 55.000 0.00 0.00 0.00 3.24
2856 4950 0.321653 GAGGTGTCGCATTCCCAAGT 60.322 55.000 0.00 0.00 0.00 3.16
2857 4951 1.026718 GGAGGTGTCGCATTCCCAAG 61.027 60.000 0.00 0.00 0.00 3.61
2861 4955 0.179000 AGATGGAGGTGTCGCATTCC 59.821 55.000 0.47 0.47 0.00 3.01
2862 4956 1.576356 GAGATGGAGGTGTCGCATTC 58.424 55.000 0.00 0.00 0.00 2.67
2863 4957 0.179000 GGAGATGGAGGTGTCGCATT 59.821 55.000 0.00 0.00 0.00 3.56
2864 4958 1.690219 GGGAGATGGAGGTGTCGCAT 61.690 60.000 0.00 0.00 0.00 4.73
2866 4960 2.501610 GGGAGATGGAGGTGTCGC 59.498 66.667 0.00 0.00 0.00 5.19
2867 4961 2.435693 GGGGGAGATGGAGGTGTCG 61.436 68.421 0.00 0.00 0.00 4.35
2868 4962 3.648694 GGGGGAGATGGAGGTGTC 58.351 66.667 0.00 0.00 0.00 3.67
2882 4976 2.131709 CCATGATGCAGCAAGGGGG 61.132 63.158 18.22 9.38 0.00 5.40
2883 4977 2.131709 CCCATGATGCAGCAAGGGG 61.132 63.158 32.60 28.59 41.86 4.79
2884 4978 2.792947 GCCCATGATGCAGCAAGGG 61.793 63.158 35.01 35.01 46.89 3.95
2885 4979 2.792947 GGCCCATGATGCAGCAAGG 61.793 63.158 18.99 18.99 0.00 3.61
2886 4980 1.756950 AGGCCCATGATGCAGCAAG 60.757 57.895 9.54 3.90 0.00 4.01
2887 4981 2.055633 CAGGCCCATGATGCAGCAA 61.056 57.895 9.54 0.00 0.00 3.91
2889 4983 3.224324 CCAGGCCCATGATGCAGC 61.224 66.667 0.00 0.00 0.00 5.25
2891 4985 1.076559 CTTCCAGGCCCATGATGCA 60.077 57.895 0.00 0.00 0.00 3.96
2892 4986 1.076485 ACTTCCAGGCCCATGATGC 60.076 57.895 0.00 0.00 0.00 3.91
2893 4987 0.256752 TGACTTCCAGGCCCATGATG 59.743 55.000 0.00 0.00 0.00 3.07
2894 4988 0.549950 CTGACTTCCAGGCCCATGAT 59.450 55.000 0.00 0.00 39.23 2.45
2895 4989 1.993653 CTGACTTCCAGGCCCATGA 59.006 57.895 0.00 0.00 39.23 3.07
2904 4998 0.251297 CATGTTGGGCCTGACTTCCA 60.251 55.000 4.53 0.00 0.00 3.53
2905 4999 0.251341 ACATGTTGGGCCTGACTTCC 60.251 55.000 4.53 0.00 0.00 3.46
2906 5000 1.541588 GAACATGTTGGGCCTGACTTC 59.458 52.381 17.58 0.69 0.00 3.01
2907 5001 1.620822 GAACATGTTGGGCCTGACTT 58.379 50.000 17.58 0.00 0.00 3.01
2908 5002 0.606401 CGAACATGTTGGGCCTGACT 60.606 55.000 17.58 0.00 0.00 3.41
2909 5003 0.605319 TCGAACATGTTGGGCCTGAC 60.605 55.000 17.58 4.21 0.00 3.51
2910 5004 0.327924 ATCGAACATGTTGGGCCTGA 59.672 50.000 17.58 4.43 0.00 3.86
2911 5005 1.942657 CTATCGAACATGTTGGGCCTG 59.057 52.381 17.58 0.00 0.00 4.85
2912 5006 1.747206 GCTATCGAACATGTTGGGCCT 60.747 52.381 17.58 6.19 0.00 5.19
2913 5007 0.663153 GCTATCGAACATGTTGGGCC 59.337 55.000 17.58 0.00 0.00 5.80
2914 5008 1.331756 CAGCTATCGAACATGTTGGGC 59.668 52.381 17.58 13.39 0.00 5.36
2915 5009 1.942657 CCAGCTATCGAACATGTTGGG 59.057 52.381 17.58 7.86 0.00 4.12
2916 5010 2.868583 CTCCAGCTATCGAACATGTTGG 59.131 50.000 17.58 15.53 33.09 3.77
2917 5011 2.286294 GCTCCAGCTATCGAACATGTTG 59.714 50.000 17.58 8.66 38.21 3.33
2918 5012 2.093500 TGCTCCAGCTATCGAACATGTT 60.093 45.455 11.78 11.78 42.66 2.71
2919 5013 1.482182 TGCTCCAGCTATCGAACATGT 59.518 47.619 0.00 0.00 42.66 3.21
2920 5014 2.229675 TGCTCCAGCTATCGAACATG 57.770 50.000 0.00 0.00 42.66 3.21
2921 5015 2.366590 TCATGCTCCAGCTATCGAACAT 59.633 45.455 0.00 0.00 42.66 2.71
2922 5016 1.756538 TCATGCTCCAGCTATCGAACA 59.243 47.619 0.00 0.00 42.66 3.18
2923 5017 2.131183 GTCATGCTCCAGCTATCGAAC 58.869 52.381 0.00 0.00 42.66 3.95
2924 5018 2.034878 AGTCATGCTCCAGCTATCGAA 58.965 47.619 0.00 0.00 42.66 3.71
2925 5019 1.339291 CAGTCATGCTCCAGCTATCGA 59.661 52.381 0.00 0.00 42.66 3.59
2926 5020 1.339291 TCAGTCATGCTCCAGCTATCG 59.661 52.381 0.00 0.00 42.66 2.92
2927 5021 3.258872 AGATCAGTCATGCTCCAGCTATC 59.741 47.826 0.00 0.00 42.66 2.08
2928 5022 3.241156 AGATCAGTCATGCTCCAGCTAT 58.759 45.455 0.00 0.00 42.66 2.97
2929 5023 2.627221 GAGATCAGTCATGCTCCAGCTA 59.373 50.000 0.00 0.00 42.66 3.32
2930 5024 1.413445 GAGATCAGTCATGCTCCAGCT 59.587 52.381 0.00 0.00 42.66 4.24
2931 5025 1.413445 AGAGATCAGTCATGCTCCAGC 59.587 52.381 0.00 0.00 42.50 4.85
2932 5026 3.890756 AGTAGAGATCAGTCATGCTCCAG 59.109 47.826 0.00 0.00 0.00 3.86
2933 5027 3.908476 AGTAGAGATCAGTCATGCTCCA 58.092 45.455 0.00 0.00 0.00 3.86
2934 5028 4.584325 AGAAGTAGAGATCAGTCATGCTCC 59.416 45.833 0.00 0.00 0.00 4.70
2935 5029 5.772825 AGAAGTAGAGATCAGTCATGCTC 57.227 43.478 0.00 0.00 0.00 4.26
2936 5030 5.068987 GGAAGAAGTAGAGATCAGTCATGCT 59.931 44.000 0.00 0.00 0.00 3.79
2937 5031 5.163468 TGGAAGAAGTAGAGATCAGTCATGC 60.163 44.000 0.00 0.00 0.00 4.06
2938 5032 6.462552 TGGAAGAAGTAGAGATCAGTCATG 57.537 41.667 0.00 0.00 0.00 3.07
2939 5033 7.327214 GTTTGGAAGAAGTAGAGATCAGTCAT 58.673 38.462 0.00 0.00 0.00 3.06
2940 5034 6.295349 GGTTTGGAAGAAGTAGAGATCAGTCA 60.295 42.308 0.00 0.00 0.00 3.41
2941 5035 6.103330 GGTTTGGAAGAAGTAGAGATCAGTC 58.897 44.000 0.00 0.00 0.00 3.51
2942 5036 5.336849 CGGTTTGGAAGAAGTAGAGATCAGT 60.337 44.000 0.00 0.00 0.00 3.41
2943 5037 5.105716 TCGGTTTGGAAGAAGTAGAGATCAG 60.106 44.000 0.00 0.00 0.00 2.90
2944 5038 4.770531 TCGGTTTGGAAGAAGTAGAGATCA 59.229 41.667 0.00 0.00 0.00 2.92
2945 5039 5.326200 TCGGTTTGGAAGAAGTAGAGATC 57.674 43.478 0.00 0.00 0.00 2.75
2946 5040 5.740290 TTCGGTTTGGAAGAAGTAGAGAT 57.260 39.130 0.00 0.00 0.00 2.75
2947 5041 5.540400 TTTCGGTTTGGAAGAAGTAGAGA 57.460 39.130 0.00 0.00 0.00 3.10
2948 5042 6.128254 GGATTTTCGGTTTGGAAGAAGTAGAG 60.128 42.308 0.00 0.00 0.00 2.43
2949 5043 5.704053 GGATTTTCGGTTTGGAAGAAGTAGA 59.296 40.000 0.00 0.00 0.00 2.59
2950 5044 5.705905 AGGATTTTCGGTTTGGAAGAAGTAG 59.294 40.000 0.00 0.00 0.00 2.57
2951 5045 5.472137 CAGGATTTTCGGTTTGGAAGAAGTA 59.528 40.000 0.00 0.00 0.00 2.24
2952 5046 4.278419 CAGGATTTTCGGTTTGGAAGAAGT 59.722 41.667 0.00 0.00 0.00 3.01
2953 5047 4.798574 CAGGATTTTCGGTTTGGAAGAAG 58.201 43.478 0.00 0.00 0.00 2.85
2954 5048 3.005367 GCAGGATTTTCGGTTTGGAAGAA 59.995 43.478 0.00 0.00 0.00 2.52
2955 5049 2.556622 GCAGGATTTTCGGTTTGGAAGA 59.443 45.455 0.00 0.00 0.00 2.87
2956 5050 2.295909 TGCAGGATTTTCGGTTTGGAAG 59.704 45.455 0.00 0.00 0.00 3.46
2957 5051 2.035321 GTGCAGGATTTTCGGTTTGGAA 59.965 45.455 0.00 0.00 0.00 3.53
2958 5052 1.611491 GTGCAGGATTTTCGGTTTGGA 59.389 47.619 0.00 0.00 0.00 3.53
2959 5053 1.339610 TGTGCAGGATTTTCGGTTTGG 59.660 47.619 0.00 0.00 0.00 3.28
2960 5054 2.791383 TGTGCAGGATTTTCGGTTTG 57.209 45.000 0.00 0.00 0.00 2.93
2961 5055 3.453424 GTTTGTGCAGGATTTTCGGTTT 58.547 40.909 0.00 0.00 0.00 3.27
2962 5056 2.223947 GGTTTGTGCAGGATTTTCGGTT 60.224 45.455 0.00 0.00 0.00 4.44
2963 5057 1.339929 GGTTTGTGCAGGATTTTCGGT 59.660 47.619 0.00 0.00 0.00 4.69
2964 5058 1.339610 TGGTTTGTGCAGGATTTTCGG 59.660 47.619 0.00 0.00 0.00 4.30
2965 5059 2.791383 TGGTTTGTGCAGGATTTTCG 57.209 45.000 0.00 0.00 0.00 3.46
2966 5060 3.244976 CGATGGTTTGTGCAGGATTTTC 58.755 45.455 0.00 0.00 0.00 2.29
2967 5061 2.029110 CCGATGGTTTGTGCAGGATTTT 60.029 45.455 0.00 0.00 0.00 1.82
2968 5062 1.545582 CCGATGGTTTGTGCAGGATTT 59.454 47.619 0.00 0.00 0.00 2.17
2969 5063 1.176527 CCGATGGTTTGTGCAGGATT 58.823 50.000 0.00 0.00 0.00 3.01
2970 5064 0.680921 CCCGATGGTTTGTGCAGGAT 60.681 55.000 0.00 0.00 0.00 3.24
2971 5065 1.303236 CCCGATGGTTTGTGCAGGA 60.303 57.895 0.00 0.00 0.00 3.86
2972 5066 0.322098 TACCCGATGGTTTGTGCAGG 60.322 55.000 0.00 0.00 44.75 4.85
2973 5067 1.086696 CTACCCGATGGTTTGTGCAG 58.913 55.000 0.00 0.00 44.75 4.41
2974 5068 0.398696 ACTACCCGATGGTTTGTGCA 59.601 50.000 0.00 0.00 44.75 4.57
2975 5069 1.084289 GACTACCCGATGGTTTGTGC 58.916 55.000 0.00 0.00 44.75 4.57
2976 5070 1.355971 CGACTACCCGATGGTTTGTG 58.644 55.000 0.00 0.00 44.75 3.33
2977 5071 0.248289 CCGACTACCCGATGGTTTGT 59.752 55.000 0.00 0.00 44.75 2.83
2978 5072 0.461339 CCCGACTACCCGATGGTTTG 60.461 60.000 0.00 0.00 44.75 2.93
2979 5073 0.906282 ACCCGACTACCCGATGGTTT 60.906 55.000 0.00 0.00 44.75 3.27
2980 5074 1.305549 ACCCGACTACCCGATGGTT 60.306 57.895 0.00 0.00 44.75 3.67
2982 5076 2.812499 CACCCGACTACCCGATGG 59.188 66.667 0.00 0.00 37.80 3.51
2983 5077 2.106332 GCACCCGACTACCCGATG 59.894 66.667 0.00 0.00 0.00 3.84
2984 5078 2.363276 TGCACCCGACTACCCGAT 60.363 61.111 0.00 0.00 0.00 4.18
2985 5079 2.482796 TACTGCACCCGACTACCCGA 62.483 60.000 0.00 0.00 0.00 5.14
2986 5080 2.001361 CTACTGCACCCGACTACCCG 62.001 65.000 0.00 0.00 0.00 5.28
2987 5081 1.673808 CCTACTGCACCCGACTACCC 61.674 65.000 0.00 0.00 0.00 3.69
2988 5082 0.969409 ACCTACTGCACCCGACTACC 60.969 60.000 0.00 0.00 0.00 3.18
2989 5083 0.893447 AACCTACTGCACCCGACTAC 59.107 55.000 0.00 0.00 0.00 2.73
2990 5084 2.512692 TAACCTACTGCACCCGACTA 57.487 50.000 0.00 0.00 0.00 2.59
2991 5085 1.861982 ATAACCTACTGCACCCGACT 58.138 50.000 0.00 0.00 0.00 4.18
2992 5086 5.408356 CATATATAACCTACTGCACCCGAC 58.592 45.833 0.00 0.00 0.00 4.79
2993 5087 5.654603 CATATATAACCTACTGCACCCGA 57.345 43.478 0.00 0.00 0.00 5.14


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

AutoCloner maintained by Alex Coulton.