Multiple sequence alignment - TraesCS5A01G007900

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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 TraesCS5A01G007900 chr5A 100.000 5457 0 0 1 5457 4960906 4955450 0.000000e+00 10078.0
1 TraesCS5A01G007900 chr5A 91.369 869 55 4 4577 5440 60206204 60207057 0.000000e+00 1171.0
2 TraesCS5A01G007900 chr5A 91.304 46 0 4 1948 1991 502501119 502501162 5.900000e-05 60.2
3 TraesCS5A01G007900 chr5D 95.637 2521 64 20 1948 4433 7503940 7501431 0.000000e+00 4004.0
4 TraesCS5A01G007900 chr5D 92.473 1953 87 23 2 1947 7505874 7503975 0.000000e+00 2737.0
5 TraesCS5A01G007900 chr5B 92.122 1993 100 28 1 1960 7710819 7708851 0.000000e+00 2758.0
6 TraesCS5A01G007900 chr5B 95.747 1599 62 3 2835 4433 7707837 7706245 0.000000e+00 2571.0
7 TraesCS5A01G007900 chr5B 91.744 860 41 15 1982 2811 7708765 7707906 0.000000e+00 1168.0
8 TraesCS5A01G007900 chr5B 100.000 29 0 0 1569 1597 371894219 371894247 3.000000e-03 54.7
9 TraesCS5A01G007900 chr7D 90.162 1606 122 17 2835 4433 14783918 14782342 0.000000e+00 2058.0
10 TraesCS5A01G007900 chr7D 84.989 453 47 7 2343 2775 14784474 14784023 1.800000e-119 440.0
11 TraesCS5A01G007900 chr7D 90.385 208 20 0 1735 1942 14794832 14794625 1.940000e-69 274.0
12 TraesCS5A01G007900 chr4A 94.558 882 21 2 4576 5457 456753059 456752205 0.000000e+00 1338.0
13 TraesCS5A01G007900 chr4A 94.451 883 21 4 4576 5457 456847742 456846887 0.000000e+00 1334.0
14 TraesCS5A01G007900 chr4A 94.331 882 22 3 4576 5457 456940574 456939721 0.000000e+00 1327.0
15 TraesCS5A01G007900 chr4A 100.000 29 0 0 1954 1982 227091255 227091283 3.000000e-03 54.7
16 TraesCS5A01G007900 chr1A 93.574 887 49 4 4576 5457 521624582 521625465 0.000000e+00 1315.0
17 TraesCS5A01G007900 chr1A 90.548 730 42 5 4573 5295 497245208 497244499 0.000000e+00 941.0
18 TraesCS5A01G007900 chr6A 93.021 874 53 4 4574 5440 202507581 202508453 0.000000e+00 1269.0
19 TraesCS5A01G007900 chr6A 79.388 980 176 23 3012 3981 168116986 168117949 0.000000e+00 667.0
20 TraesCS5A01G007900 chr7A 90.177 906 65 12 4573 5457 685092672 685093574 0.000000e+00 1158.0
21 TraesCS5A01G007900 chr7A 92.954 738 35 7 4733 5457 678157665 678158398 0.000000e+00 1059.0
22 TraesCS5A01G007900 chr7A 83.917 771 118 3 3601 4368 15524692 15523925 0.000000e+00 732.0
23 TraesCS5A01G007900 chr7A 95.977 174 7 0 4575 4748 678157479 678157652 3.220000e-72 283.0
24 TraesCS5A01G007900 chr7A 93.939 66 4 0 4510 4575 569189772 569189707 3.480000e-17 100.0
25 TraesCS5A01G007900 chr7A 91.429 70 6 0 4506 4575 485901426 485901357 4.500000e-16 97.1
26 TraesCS5A01G007900 chr6D 81.825 1414 226 23 2974 4369 3854279 3855679 0.000000e+00 1158.0
27 TraesCS5A01G007900 chr6D 79.082 980 179 23 3012 3981 129782860 129783823 0.000000e+00 651.0
28 TraesCS5A01G007900 chr6D 82.018 228 38 2 2027 2254 3852811 3853035 2.010000e-44 191.0
29 TraesCS5A01G007900 chr6D 90.722 97 9 0 2714 2810 3853640 3853736 4.440000e-26 130.0
30 TraesCS5A01G007900 chr6D 100.000 33 0 0 1563 1595 306429251 306429219 1.640000e-05 62.1
31 TraesCS5A01G007900 chr6D 100.000 32 0 0 1951 1982 32665337 32665306 5.900000e-05 60.2
32 TraesCS5A01G007900 chr3A 88.841 923 57 18 4576 5457 701634766 701635683 0.000000e+00 1092.0
33 TraesCS5A01G007900 chr3A 93.939 66 4 0 4510 4575 571783332 571783397 3.480000e-17 100.0
34 TraesCS5A01G007900 chr3A 97.222 36 1 0 1951 1986 661983567 661983602 1.640000e-05 62.1
35 TraesCS5A01G007900 chr6B 80.633 1358 244 13 3026 4369 8787603 8786251 0.000000e+00 1033.0
36 TraesCS5A01G007900 chr6B 79.367 979 176 23 3013 3981 228241323 228242285 0.000000e+00 665.0
37 TraesCS5A01G007900 chr6B 86.598 97 13 0 2714 2810 8789728 8789632 2.080000e-19 108.0
38 TraesCS5A01G007900 chrUn 93.276 580 33 3 4866 5440 312405967 312405389 0.000000e+00 850.0
39 TraesCS5A01G007900 chrUn 93.276 580 33 3 4866 5440 351212911 351212333 0.000000e+00 850.0
40 TraesCS5A01G007900 chrUn 93.640 283 17 1 4575 4857 83906148 83905867 6.540000e-114 422.0
41 TraesCS5A01G007900 chr3B 93.333 75 3 2 4503 4575 540177334 540177408 5.780000e-20 110.0
42 TraesCS5A01G007900 chr3B 87.500 80 7 3 4498 4575 533030942 533031020 7.530000e-14 89.8
43 TraesCS5A01G007900 chr2D 76.339 224 34 15 3121 3336 403211937 403212149 9.670000e-18 102.0
44 TraesCS5A01G007900 chr2A 76.339 224 34 15 3121 3336 540454323 540454535 9.670000e-18 102.0
45 TraesCS5A01G007900 chr2A 93.939 66 4 0 4510 4575 601317666 601317731 3.480000e-17 100.0
46 TraesCS5A01G007900 chr2A 93.939 66 4 0 4510 4575 754847824 754847759 3.480000e-17 100.0
47 TraesCS5A01G007900 chr3D 92.647 68 3 2 4509 4575 216890368 216890434 4.500000e-16 97.1
48 TraesCS5A01G007900 chr4D 92.424 66 5 0 4510 4575 309655754 309655819 1.620000e-15 95.3
49 TraesCS5A01G007900 chr2B 89.333 75 4 3 3264 3336 477330808 477330880 2.090000e-14 91.6
50 TraesCS5A01G007900 chr7B 96.970 33 1 0 1563 1595 716493480 716493448 7.640000e-04 56.5


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 TraesCS5A01G007900 chr5A 4955450 4960906 5456 True 10078.000000 10078 100.000000 1 5457 1 chr5A.!!$R1 5456
1 TraesCS5A01G007900 chr5A 60206204 60207057 853 False 1171.000000 1171 91.369000 4577 5440 1 chr5A.!!$F1 863
2 TraesCS5A01G007900 chr5D 7501431 7505874 4443 True 3370.500000 4004 94.055000 2 4433 2 chr5D.!!$R1 4431
3 TraesCS5A01G007900 chr5B 7706245 7710819 4574 True 2165.666667 2758 93.204333 1 4433 3 chr5B.!!$R1 4432
4 TraesCS5A01G007900 chr7D 14782342 14784474 2132 True 1249.000000 2058 87.575500 2343 4433 2 chr7D.!!$R2 2090
5 TraesCS5A01G007900 chr4A 456752205 456753059 854 True 1338.000000 1338 94.558000 4576 5457 1 chr4A.!!$R1 881
6 TraesCS5A01G007900 chr4A 456846887 456847742 855 True 1334.000000 1334 94.451000 4576 5457 1 chr4A.!!$R2 881
7 TraesCS5A01G007900 chr4A 456939721 456940574 853 True 1327.000000 1327 94.331000 4576 5457 1 chr4A.!!$R3 881
8 TraesCS5A01G007900 chr1A 521624582 521625465 883 False 1315.000000 1315 93.574000 4576 5457 1 chr1A.!!$F1 881
9 TraesCS5A01G007900 chr1A 497244499 497245208 709 True 941.000000 941 90.548000 4573 5295 1 chr1A.!!$R1 722
10 TraesCS5A01G007900 chr6A 202507581 202508453 872 False 1269.000000 1269 93.021000 4574 5440 1 chr6A.!!$F2 866
11 TraesCS5A01G007900 chr6A 168116986 168117949 963 False 667.000000 667 79.388000 3012 3981 1 chr6A.!!$F1 969
12 TraesCS5A01G007900 chr7A 685092672 685093574 902 False 1158.000000 1158 90.177000 4573 5457 1 chr7A.!!$F1 884
13 TraesCS5A01G007900 chr7A 15523925 15524692 767 True 732.000000 732 83.917000 3601 4368 1 chr7A.!!$R1 767
14 TraesCS5A01G007900 chr7A 678157479 678158398 919 False 671.000000 1059 94.465500 4575 5457 2 chr7A.!!$F2 882
15 TraesCS5A01G007900 chr6D 129782860 129783823 963 False 651.000000 651 79.082000 3012 3981 1 chr6D.!!$F1 969
16 TraesCS5A01G007900 chr6D 3852811 3855679 2868 False 493.000000 1158 84.855000 2027 4369 3 chr6D.!!$F2 2342
17 TraesCS5A01G007900 chr3A 701634766 701635683 917 False 1092.000000 1092 88.841000 4576 5457 1 chr3A.!!$F3 881
18 TraesCS5A01G007900 chr6B 228241323 228242285 962 False 665.000000 665 79.367000 3013 3981 1 chr6B.!!$F1 968
19 TraesCS5A01G007900 chr6B 8786251 8789728 3477 True 570.500000 1033 83.615500 2714 4369 2 chr6B.!!$R1 1655
20 TraesCS5A01G007900 chrUn 312405389 312405967 578 True 850.000000 850 93.276000 4866 5440 1 chrUn.!!$R2 574
21 TraesCS5A01G007900 chrUn 351212333 351212911 578 True 850.000000 850 93.276000 4866 5440 1 chrUn.!!$R3 574

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
162 169 0.324943 ATTCTATCGGAATGCGGGGG 59.675 55.000 0.0 0.0 42.46 5.40 F
1041 1061 0.667993 TTTCCTTTGCCAGAGTTGCG 59.332 50.000 0.0 0.0 0.00 4.85 F
2416 2612 0.035820 TGACCACGGGCATAAAGACC 60.036 55.000 0.0 0.0 44.64 3.85 F
2670 2867 2.668457 GAGCTTCGTTCATCGTCATGTT 59.332 45.455 0.0 0.0 40.80 2.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1411 1435 0.037697 TACTCATGTGCACCGTCACC 60.038 55.000 15.69 0.0 36.17 4.02 R
2662 2859 0.780002 GCAAGCAAGCAAACATGACG 59.220 50.000 0.00 0.0 0.00 4.35 R
4373 6481 0.179166 GCCACACACACACACACAAG 60.179 55.000 0.00 0.0 0.00 3.16 R
4504 6614 3.477530 TCGACGGAGACATATCATGACT 58.522 45.455 0.00 0.0 37.96 3.41 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
53 54 5.652452 AGCAATTATGTGGTTAGAAGGGAAC 59.348 40.000 0.00 0.00 0.00 3.62
76 83 8.842358 AACTATTGATATAACCCAACATACGG 57.158 34.615 0.00 0.00 0.00 4.02
115 122 1.705337 AAGCCGAAATGACATCGCCG 61.705 55.000 0.00 0.00 38.93 6.46
147 154 4.113354 GCGATCCAACGTCTAGAAATTCT 58.887 43.478 0.00 0.00 35.59 2.40
161 168 2.185004 AATTCTATCGGAATGCGGGG 57.815 50.000 0.00 0.00 43.17 5.73
162 169 0.324943 ATTCTATCGGAATGCGGGGG 59.675 55.000 0.00 0.00 42.46 5.40
225 232 1.804372 GCGAGATCAGCGACCAGAAAT 60.804 52.381 11.52 0.00 0.00 2.17
244 251 9.044150 CCAGAAATTTCAAATGAAAGCAAACTA 57.956 29.630 19.99 0.00 45.87 2.24
283 290 9.818796 TGAAAAGCAGTTTTAAATGTTTGAAAC 57.181 25.926 14.41 14.41 43.09 2.78
332 339 7.218228 TGCATGCATTCCCATTATTAGTAAG 57.782 36.000 18.46 0.00 0.00 2.34
373 380 1.304796 TTTCGCAATGGGGATGCCA 60.305 52.632 5.30 0.00 40.72 4.92
401 408 2.435059 GCAGCTGGGAGGTCGTTC 60.435 66.667 17.12 0.00 0.00 3.95
587 597 2.897972 GGGGTACACGCCAGGTAG 59.102 66.667 10.37 0.00 46.98 3.18
747 760 7.375280 CAGATCTAGATGCGCATGTTTAAAAAG 59.625 37.037 30.76 16.66 0.00 2.27
750 763 7.021196 TCTAGATGCGCATGTTTAAAAAGAAC 58.979 34.615 30.76 8.27 0.00 3.01
752 765 6.158598 AGATGCGCATGTTTAAAAAGAACAT 58.841 32.000 30.76 0.00 45.80 2.71
753 766 5.820926 TGCGCATGTTTAAAAAGAACATC 57.179 34.783 5.66 0.00 43.75 3.06
755 768 6.673106 TGCGCATGTTTAAAAAGAACATCTA 58.327 32.000 5.66 0.00 43.75 1.98
756 769 6.801377 TGCGCATGTTTAAAAAGAACATCTAG 59.199 34.615 5.66 0.00 43.75 2.43
805 820 9.178758 ACAATGACTAAAATACTTCTTCCATCC 57.821 33.333 0.00 0.00 0.00 3.51
806 821 9.177608 CAATGACTAAAATACTTCTTCCATCCA 57.822 33.333 0.00 0.00 0.00 3.41
807 822 9.927081 AATGACTAAAATACTTCTTCCATCCAT 57.073 29.630 0.00 0.00 0.00 3.41
808 823 8.964476 TGACTAAAATACTTCTTCCATCCATC 57.036 34.615 0.00 0.00 0.00 3.51
809 824 8.772250 TGACTAAAATACTTCTTCCATCCATCT 58.228 33.333 0.00 0.00 0.00 2.90
810 825 9.267084 GACTAAAATACTTCTTCCATCCATCTC 57.733 37.037 0.00 0.00 0.00 2.75
816 831 4.650588 ACTTCTTCCATCCATCTCTCTCTG 59.349 45.833 0.00 0.00 0.00 3.35
837 852 6.873997 TCTGTCTCTCTCTCTTGAGTAGTAG 58.126 44.000 0.00 0.00 40.98 2.57
838 853 6.439375 TCTGTCTCTCTCTCTTGAGTAGTAGT 59.561 42.308 0.00 0.00 40.98 2.73
839 854 7.616542 TCTGTCTCTCTCTCTTGAGTAGTAGTA 59.383 40.741 0.00 0.00 40.98 1.82
840 855 7.549839 TGTCTCTCTCTCTTGAGTAGTAGTAC 58.450 42.308 0.00 0.00 40.98 2.73
841 856 6.694411 GTCTCTCTCTCTTGAGTAGTAGTACG 59.306 46.154 2.04 0.00 40.98 3.67
842 857 6.377996 TCTCTCTCTCTTGAGTAGTAGTACGT 59.622 42.308 2.04 0.00 40.98 3.57
843 858 6.331845 TCTCTCTCTTGAGTAGTAGTACGTG 58.668 44.000 0.00 0.00 40.98 4.49
844 859 4.869297 TCTCTCTTGAGTAGTAGTACGTGC 59.131 45.833 0.00 0.00 40.98 5.34
845 860 4.829968 TCTCTTGAGTAGTAGTACGTGCT 58.170 43.478 11.87 11.87 33.97 4.40
846 861 5.970592 TCTCTTGAGTAGTAGTACGTGCTA 58.029 41.667 9.49 9.49 33.97 3.49
907 925 6.506147 TCAGTGAAAATGACATGTCTTTTGG 58.494 36.000 29.76 19.88 35.16 3.28
918 936 7.271511 TGACATGTCTTTTGGCTTGTTTATTT 58.728 30.769 25.55 0.00 41.55 1.40
919 937 8.417106 TGACATGTCTTTTGGCTTGTTTATTTA 58.583 29.630 25.55 0.00 41.55 1.40
920 938 9.423061 GACATGTCTTTTGGCTTGTTTATTTAT 57.577 29.630 18.83 0.00 41.55 1.40
921 939 9.777297 ACATGTCTTTTGGCTTGTTTATTTATT 57.223 25.926 0.00 0.00 38.98 1.40
991 1011 1.406860 GGATCCAGGGCTCACTCTCC 61.407 65.000 6.95 0.00 0.00 3.71
1016 1036 3.117745 ACATCAGATCCTTCCATCACCA 58.882 45.455 0.00 0.00 0.00 4.17
1041 1061 0.667993 TTTCCTTTGCCAGAGTTGCG 59.332 50.000 0.00 0.00 0.00 4.85
1073 1093 3.560636 ACTAACACTGTGCACCTTTCT 57.439 42.857 15.69 0.00 0.00 2.52
1279 1303 0.751643 GCACCAGTGTGTCCAAGGTT 60.752 55.000 0.00 0.00 44.65 3.50
1411 1435 1.811266 CACCGAGATGAAGGCCACG 60.811 63.158 5.01 0.00 0.00 4.94
1486 1510 3.896888 TCATCCTCAAAACTTGGTTGCAT 59.103 39.130 0.00 0.00 0.00 3.96
1507 1531 1.176619 TTGACCTCGTCAGCTCCGAA 61.177 55.000 6.48 0.00 43.69 4.30
1584 1612 7.721286 ATGTGCTAGATACATCTGTTTAAGC 57.279 36.000 7.11 3.46 37.76 3.09
1890 1924 1.899437 GCAACTCCTGGATCGACCCA 61.899 60.000 0.00 0.00 38.00 4.51
1893 1927 0.263172 ACTCCTGGATCGACCCATCT 59.737 55.000 0.00 0.00 38.00 2.90
1989 2091 5.606348 AAGACAGAGGGAGTACATCATTC 57.394 43.478 0.00 0.00 0.00 2.67
1998 2100 4.103153 GGGAGTACATCATTCTTGATCCCA 59.897 45.833 0.00 0.00 40.70 4.37
2368 2564 1.153349 GATGGGAGCCTTCGACACC 60.153 63.158 0.00 0.00 0.00 4.16
2416 2612 0.035820 TGACCACGGGCATAAAGACC 60.036 55.000 0.00 0.00 44.64 3.85
2652 2849 5.817988 TCATGACAGTACGTACAATAGAGC 58.182 41.667 26.55 9.50 0.00 4.09
2662 2859 5.035443 ACGTACAATAGAGCTTCGTTCATC 58.965 41.667 0.00 0.00 0.00 2.92
2670 2867 2.668457 GAGCTTCGTTCATCGTCATGTT 59.332 45.455 0.00 0.00 40.80 2.71
2701 2910 6.798959 GCTTGCTTGATTAATGGATCGATAAC 59.201 38.462 0.00 0.00 0.00 1.89
2812 3061 4.037684 AGCATCCAACTAGTCACGGTATAC 59.962 45.833 0.00 0.00 0.00 1.47
2814 3063 5.680408 GCATCCAACTAGTCACGGTATACAA 60.680 44.000 5.01 0.00 0.00 2.41
2815 3064 6.513180 CATCCAACTAGTCACGGTATACAAT 58.487 40.000 5.01 0.00 0.00 2.71
2830 4003 7.499563 ACGGTATACAATTATGTTGCCATTGTA 59.500 33.333 5.01 6.46 43.88 2.41
2833 4670 5.991933 ACAATTATGTTGCCATTGTACCA 57.008 34.783 0.00 0.00 38.97 3.25
2850 4687 6.985653 TGTACCATTTTCCCTTCATTTTCA 57.014 33.333 0.00 0.00 0.00 2.69
2912 4923 8.806177 TTCAATATGAAAACTATGCATGCATC 57.194 30.769 35.35 21.56 34.29 3.91
4208 6316 2.761767 GTTCAAGGAGAGGACTAGGGAC 59.238 54.545 0.00 0.00 0.00 4.46
4389 6499 2.177394 TGACTTGTGTGTGTGTGTGT 57.823 45.000 0.00 0.00 0.00 3.72
4390 6500 1.803555 TGACTTGTGTGTGTGTGTGTG 59.196 47.619 0.00 0.00 0.00 3.82
4433 6543 2.490115 CGTGTCTTCTAGTCTCTTGGCT 59.510 50.000 0.00 0.00 0.00 4.75
4434 6544 3.671971 CGTGTCTTCTAGTCTCTTGGCTG 60.672 52.174 0.00 0.00 0.00 4.85
4435 6545 3.257127 GTGTCTTCTAGTCTCTTGGCTGT 59.743 47.826 0.00 0.00 0.00 4.40
4436 6546 3.256879 TGTCTTCTAGTCTCTTGGCTGTG 59.743 47.826 0.00 0.00 0.00 3.66
4437 6547 3.257127 GTCTTCTAGTCTCTTGGCTGTGT 59.743 47.826 0.00 0.00 0.00 3.72
4438 6548 3.508012 TCTTCTAGTCTCTTGGCTGTGTC 59.492 47.826 0.00 0.00 0.00 3.67
4439 6549 2.876581 TCTAGTCTCTTGGCTGTGTCA 58.123 47.619 0.00 0.00 0.00 3.58
4440 6550 3.230976 TCTAGTCTCTTGGCTGTGTCAA 58.769 45.455 0.00 0.00 0.00 3.18
4441 6551 2.246719 AGTCTCTTGGCTGTGTCAAC 57.753 50.000 0.00 0.00 0.00 3.18
4442 6552 0.861837 GTCTCTTGGCTGTGTCAACG 59.138 55.000 0.00 0.00 0.00 4.10
4443 6553 0.249868 TCTCTTGGCTGTGTCAACGG 60.250 55.000 0.00 0.00 35.60 4.44
4444 6554 0.249868 CTCTTGGCTGTGTCAACGGA 60.250 55.000 0.00 0.00 34.25 4.69
4445 6555 0.179234 TCTTGGCTGTGTCAACGGAA 59.821 50.000 0.00 0.00 34.25 4.30
4446 6556 1.021202 CTTGGCTGTGTCAACGGAAA 58.979 50.000 0.00 0.00 34.25 3.13
4447 6557 1.608590 CTTGGCTGTGTCAACGGAAAT 59.391 47.619 0.00 0.00 34.25 2.17
4448 6558 0.950836 TGGCTGTGTCAACGGAAATG 59.049 50.000 0.00 0.00 34.25 2.32
4449 6559 0.387239 GGCTGTGTCAACGGAAATGC 60.387 55.000 0.00 0.00 34.25 3.56
4450 6560 0.593128 GCTGTGTCAACGGAAATGCT 59.407 50.000 0.00 0.00 34.25 3.79
4451 6561 1.804151 GCTGTGTCAACGGAAATGCTA 59.196 47.619 0.00 0.00 34.25 3.49
4452 6562 2.225491 GCTGTGTCAACGGAAATGCTAA 59.775 45.455 0.00 0.00 34.25 3.09
4453 6563 3.119849 GCTGTGTCAACGGAAATGCTAAT 60.120 43.478 0.00 0.00 34.25 1.73
4454 6564 4.094294 GCTGTGTCAACGGAAATGCTAATA 59.906 41.667 0.00 0.00 34.25 0.98
4455 6565 5.391523 GCTGTGTCAACGGAAATGCTAATAA 60.392 40.000 0.00 0.00 34.25 1.40
4456 6566 6.561737 TGTGTCAACGGAAATGCTAATAAA 57.438 33.333 0.00 0.00 0.00 1.40
4457 6567 6.971602 TGTGTCAACGGAAATGCTAATAAAA 58.028 32.000 0.00 0.00 0.00 1.52
4458 6568 7.081349 TGTGTCAACGGAAATGCTAATAAAAG 58.919 34.615 0.00 0.00 0.00 2.27
4459 6569 6.526674 GTGTCAACGGAAATGCTAATAAAAGG 59.473 38.462 0.00 0.00 0.00 3.11
4460 6570 6.431543 TGTCAACGGAAATGCTAATAAAAGGA 59.568 34.615 0.00 0.00 0.00 3.36
4461 6571 6.745907 GTCAACGGAAATGCTAATAAAAGGAC 59.254 38.462 0.00 0.00 0.00 3.85
4462 6572 6.431543 TCAACGGAAATGCTAATAAAAGGACA 59.568 34.615 0.00 0.00 0.00 4.02
4463 6573 7.122055 TCAACGGAAATGCTAATAAAAGGACAT 59.878 33.333 0.00 0.00 0.00 3.06
4464 6574 6.795399 ACGGAAATGCTAATAAAAGGACATG 58.205 36.000 0.00 0.00 0.00 3.21
4465 6575 6.601613 ACGGAAATGCTAATAAAAGGACATGA 59.398 34.615 0.00 0.00 0.00 3.07
4466 6576 7.134815 CGGAAATGCTAATAAAAGGACATGAG 58.865 38.462 0.00 0.00 0.00 2.90
4467 6577 7.428826 GGAAATGCTAATAAAAGGACATGAGG 58.571 38.462 0.00 0.00 0.00 3.86
4468 6578 7.285401 GGAAATGCTAATAAAAGGACATGAGGA 59.715 37.037 0.00 0.00 0.00 3.71
4469 6579 8.773033 AAATGCTAATAAAAGGACATGAGGAT 57.227 30.769 0.00 0.00 0.00 3.24
4470 6580 9.866655 AAATGCTAATAAAAGGACATGAGGATA 57.133 29.630 0.00 0.00 0.00 2.59
4471 6581 8.854614 ATGCTAATAAAAGGACATGAGGATAC 57.145 34.615 0.00 0.00 0.00 2.24
4472 6582 7.801104 TGCTAATAAAAGGACATGAGGATACA 58.199 34.615 0.00 0.00 41.41 2.29
4473 6583 8.439971 TGCTAATAAAAGGACATGAGGATACAT 58.560 33.333 0.00 0.00 41.41 2.29
4474 6584 9.289782 GCTAATAAAAGGACATGAGGATACATT 57.710 33.333 0.00 0.00 41.41 2.71
4479 6589 7.516198 AAAGGACATGAGGATACATTATTGC 57.484 36.000 0.00 0.00 41.41 3.56
4480 6590 6.191657 AGGACATGAGGATACATTATTGCA 57.808 37.500 0.00 0.00 41.41 4.08
4481 6591 6.000219 AGGACATGAGGATACATTATTGCAC 59.000 40.000 0.00 0.00 41.41 4.57
4482 6592 5.106948 GGACATGAGGATACATTATTGCACG 60.107 44.000 0.00 0.00 41.41 5.34
4483 6593 5.610398 ACATGAGGATACATTATTGCACGA 58.390 37.500 0.00 0.00 41.41 4.35
4484 6594 5.698089 ACATGAGGATACATTATTGCACGAG 59.302 40.000 0.00 0.00 41.41 4.18
4485 6595 4.631131 TGAGGATACATTATTGCACGAGG 58.369 43.478 0.00 0.00 41.41 4.63
4486 6596 3.997021 GAGGATACATTATTGCACGAGGG 59.003 47.826 0.00 0.00 41.41 4.30
4487 6597 3.646162 AGGATACATTATTGCACGAGGGA 59.354 43.478 0.00 0.00 41.41 4.20
4488 6598 4.102524 AGGATACATTATTGCACGAGGGAA 59.897 41.667 0.00 0.00 41.41 3.97
4489 6599 4.819630 GGATACATTATTGCACGAGGGAAA 59.180 41.667 0.00 0.00 0.00 3.13
4490 6600 5.473504 GGATACATTATTGCACGAGGGAAAT 59.526 40.000 0.00 0.00 0.00 2.17
4491 6601 6.653320 GGATACATTATTGCACGAGGGAAATA 59.347 38.462 0.00 0.00 0.00 1.40
4492 6602 7.174253 GGATACATTATTGCACGAGGGAAATAA 59.826 37.037 1.33 1.33 0.00 1.40
4493 6603 6.959639 ACATTATTGCACGAGGGAAATAAT 57.040 33.333 5.66 5.66 36.23 1.28
4494 6604 6.970484 ACATTATTGCACGAGGGAAATAATC 58.030 36.000 8.05 0.00 34.52 1.75
4495 6605 6.772716 ACATTATTGCACGAGGGAAATAATCT 59.227 34.615 8.05 0.00 34.52 2.40
4496 6606 6.861065 TTATTGCACGAGGGAAATAATCTC 57.139 37.500 0.00 0.00 0.00 2.75
4497 6607 4.487714 TTGCACGAGGGAAATAATCTCT 57.512 40.909 0.00 0.00 43.47 3.10
4498 6608 4.487714 TGCACGAGGGAAATAATCTCTT 57.512 40.909 0.00 0.00 39.70 2.85
4499 6609 4.843728 TGCACGAGGGAAATAATCTCTTT 58.156 39.130 0.00 0.00 39.70 2.52
4500 6610 4.876107 TGCACGAGGGAAATAATCTCTTTC 59.124 41.667 0.00 0.00 39.70 2.62
4501 6611 5.119694 GCACGAGGGAAATAATCTCTTTCT 58.880 41.667 0.00 0.00 39.70 2.52
4502 6612 6.127168 TGCACGAGGGAAATAATCTCTTTCTA 60.127 38.462 0.00 0.00 39.70 2.10
4503 6613 6.422400 GCACGAGGGAAATAATCTCTTTCTAG 59.578 42.308 0.00 0.00 39.70 2.43
4504 6614 7.684670 GCACGAGGGAAATAATCTCTTTCTAGA 60.685 40.741 0.00 0.00 39.70 2.43
4506 6616 7.562088 ACGAGGGAAATAATCTCTTTCTAGAGT 59.438 37.037 0.00 0.00 46.62 3.24
4507 6617 8.079809 CGAGGGAAATAATCTCTTTCTAGAGTC 58.920 40.741 0.00 0.00 46.62 3.36
4508 6618 8.846423 AGGGAAATAATCTCTTTCTAGAGTCA 57.154 34.615 0.00 0.00 46.62 3.41
4509 6619 9.445973 AGGGAAATAATCTCTTTCTAGAGTCAT 57.554 33.333 0.00 0.00 46.62 3.06
4510 6620 9.487790 GGGAAATAATCTCTTTCTAGAGTCATG 57.512 37.037 0.00 0.00 46.62 3.07
4518 6628 9.812347 ATCTCTTTCTAGAGTCATGATATGTCT 57.188 33.333 0.00 2.03 46.62 3.41
4519 6629 9.283768 TCTCTTTCTAGAGTCATGATATGTCTC 57.716 37.037 0.00 0.00 46.62 3.36
4520 6630 8.402798 TCTTTCTAGAGTCATGATATGTCTCC 57.597 38.462 0.00 0.00 43.45 3.71
4521 6631 6.809630 TTCTAGAGTCATGATATGTCTCCG 57.190 41.667 0.00 0.00 43.45 4.63
4522 6632 5.870706 TCTAGAGTCATGATATGTCTCCGT 58.129 41.667 0.00 0.00 43.45 4.69
4523 6633 5.935206 TCTAGAGTCATGATATGTCTCCGTC 59.065 44.000 0.00 0.00 43.45 4.79
4524 6634 3.500299 AGAGTCATGATATGTCTCCGTCG 59.500 47.826 0.00 0.00 43.45 5.12
4525 6635 3.477530 AGTCATGATATGTCTCCGTCGA 58.522 45.455 0.00 0.00 0.00 4.20
4526 6636 3.883489 AGTCATGATATGTCTCCGTCGAA 59.117 43.478 0.00 0.00 0.00 3.71
4527 6637 4.338400 AGTCATGATATGTCTCCGTCGAAA 59.662 41.667 0.00 0.00 0.00 3.46
4528 6638 5.010112 AGTCATGATATGTCTCCGTCGAAAT 59.990 40.000 0.00 0.00 0.00 2.17
4529 6639 5.692204 GTCATGATATGTCTCCGTCGAAATT 59.308 40.000 0.00 0.00 0.00 1.82
4530 6640 6.861572 GTCATGATATGTCTCCGTCGAAATTA 59.138 38.462 0.00 0.00 0.00 1.40
4531 6641 7.542477 GTCATGATATGTCTCCGTCGAAATTAT 59.458 37.037 0.00 0.00 0.00 1.28
4532 6642 8.736244 TCATGATATGTCTCCGTCGAAATTATA 58.264 33.333 0.00 0.00 0.00 0.98
4533 6643 9.353999 CATGATATGTCTCCGTCGAAATTATAA 57.646 33.333 0.00 0.00 0.00 0.98
4535 6645 9.923143 TGATATGTCTCCGTCGAAATTATAATT 57.077 29.630 4.81 4.81 0.00 1.40
4566 6676 8.862325 TTGTTCCATGTCAATATTCTACAACT 57.138 30.769 4.67 0.00 0.00 3.16
4567 6677 8.862325 TGTTCCATGTCAATATTCTACAACTT 57.138 30.769 4.67 0.00 0.00 2.66
4568 6678 9.295825 TGTTCCATGTCAATATTCTACAACTTT 57.704 29.630 4.67 0.00 0.00 2.66
4636 6746 4.214545 CGGTCAGTTTGGTGCATAAACTTA 59.785 41.667 22.06 15.31 43.71 2.24
4777 6945 1.623542 GCCGAGGAGGTGGGTAATGT 61.624 60.000 0.00 0.00 43.70 2.71
4944 7132 5.581085 GGCTAACTGATGTTTGACGTCTAAT 59.419 40.000 17.92 1.00 37.59 1.73
4953 7141 4.095036 TGTTTGACGTCTAATGTGCACAAA 59.905 37.500 25.72 14.21 0.00 2.83
5018 7210 5.907866 AAGAAAAGGGTTCGTGAAAAGAA 57.092 34.783 0.00 0.00 30.03 2.52
5028 7221 1.817740 CGTGAAAAGAAGGAAGCCCCA 60.818 52.381 0.00 0.00 37.41 4.96
5038 7231 2.032071 AAGCCCCAGTTCGAACCG 59.968 61.111 24.22 14.65 0.00 4.44
5065 7258 5.537188 GGCCACAATGACACATAAAAAGAA 58.463 37.500 0.00 0.00 0.00 2.52
5164 7385 6.857437 TGGACAGATTGACTAGATTTCTCA 57.143 37.500 0.00 0.00 0.00 3.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
53 54 9.151471 CTTCCGTATGTTGGGTTATATCAATAG 57.849 37.037 0.00 0.00 0.00 1.73
76 83 5.220567 GGCTTCATTCGAGATTCAGAACTTC 60.221 44.000 0.00 0.00 0.00 3.01
173 180 2.618241 GTGCTGAATATTTCATCCGGCA 59.382 45.455 0.00 4.03 39.30 5.69
175 182 3.059597 GTCGTGCTGAATATTTCATCCGG 60.060 47.826 0.00 0.00 39.30 5.14
180 187 3.612423 CGTGAGTCGTGCTGAATATTTCA 59.388 43.478 0.00 0.00 35.00 2.69
244 251 2.562298 TGCTTTTCATCCGGCTGATTTT 59.438 40.909 9.15 0.00 0.00 1.82
283 290 1.883275 TGGTGAATGTTTACCGGCTTG 59.117 47.619 0.00 0.00 39.87 4.01
285 292 2.091541 CATGGTGAATGTTTACCGGCT 58.908 47.619 0.00 0.00 39.87 5.52
384 391 2.435059 GAACGACCTCCCAGCTGC 60.435 66.667 8.66 0.00 0.00 5.25
385 392 1.216710 GAGAACGACCTCCCAGCTG 59.783 63.158 6.78 6.78 0.00 4.24
587 597 1.005748 GGCTCTTGGTTTTGGCTGC 60.006 57.895 0.00 0.00 0.00 5.25
711 724 1.407936 TCTAGATCTGAGGTGCAGGC 58.592 55.000 5.18 0.00 44.98 4.85
715 728 1.934399 GCGCATCTAGATCTGAGGTGC 60.934 57.143 20.88 20.88 45.79 5.01
784 799 9.267084 GAGATGGATGGAAGAAGTATTTTAGTC 57.733 37.037 0.00 0.00 0.00 2.59
803 818 4.040047 AGAGAGAGACAGAGAGAGATGGA 58.960 47.826 0.00 0.00 0.00 3.41
804 819 4.102210 AGAGAGAGAGACAGAGAGAGATGG 59.898 50.000 0.00 0.00 0.00 3.51
805 820 5.287674 AGAGAGAGAGACAGAGAGAGATG 57.712 47.826 0.00 0.00 0.00 2.90
806 821 5.426509 TCAAGAGAGAGAGACAGAGAGAGAT 59.573 44.000 0.00 0.00 0.00 2.75
807 822 4.777366 TCAAGAGAGAGAGACAGAGAGAGA 59.223 45.833 0.00 0.00 0.00 3.10
808 823 5.089970 TCAAGAGAGAGAGACAGAGAGAG 57.910 47.826 0.00 0.00 0.00 3.20
809 824 4.532126 ACTCAAGAGAGAGAGACAGAGAGA 59.468 45.833 3.73 0.00 44.98 3.10
810 825 4.836825 ACTCAAGAGAGAGAGACAGAGAG 58.163 47.826 3.73 0.00 44.98 3.20
816 831 6.694411 CGTACTACTACTCAAGAGAGAGAGAC 59.306 46.154 3.73 0.00 44.98 3.36
837 852 8.689069 GCTACTCAAAATAATACTAGCACGTAC 58.311 37.037 0.00 0.00 0.00 3.67
838 853 8.627403 AGCTACTCAAAATAATACTAGCACGTA 58.373 33.333 0.00 0.00 0.00 3.57
839 854 7.490000 AGCTACTCAAAATAATACTAGCACGT 58.510 34.615 0.00 0.00 0.00 4.49
840 855 7.863375 AGAGCTACTCAAAATAATACTAGCACG 59.137 37.037 0.00 0.00 32.06 5.34
932 950 8.932791 CGTAGTCCATGTACTCAAAATAGTTTT 58.067 33.333 0.00 0.00 0.00 2.43
936 954 8.353684 AGATCGTAGTCCATGTACTCAAAATAG 58.646 37.037 0.00 0.00 0.00 1.73
948 966 9.397280 TCCTATTTATAGAGATCGTAGTCCATG 57.603 37.037 0.00 0.00 32.05 3.66
991 1011 1.123077 TGGAAGGATCTGATGTCGGG 58.877 55.000 0.00 0.00 0.00 5.14
1016 1036 2.175715 ACTCTGGCAAAGGAAAGGAAGT 59.824 45.455 0.00 0.00 0.00 3.01
1073 1093 2.039624 GGAGGAGTGAGAGGGCCA 59.960 66.667 6.18 0.00 0.00 5.36
1411 1435 0.037697 TACTCATGTGCACCGTCACC 60.038 55.000 15.69 0.00 36.17 4.02
1486 1510 1.666011 GGAGCTGACGAGGTCAACA 59.334 57.895 0.00 0.00 46.80 3.33
1507 1531 1.623311 TGTCACTCACGTGGATCCAAT 59.377 47.619 18.20 4.76 41.53 3.16
1567 1595 6.398918 ACTTGTCGCTTAAACAGATGTATCT 58.601 36.000 0.00 0.00 37.72 1.98
1576 1604 7.061441 CGTCTAGAATTACTTGTCGCTTAAACA 59.939 37.037 0.00 0.00 0.00 2.83
1890 1924 2.284625 TCGGGGGTGCAGTGAGAT 60.285 61.111 0.00 0.00 0.00 2.75
1893 1927 3.164977 TTGTCGGGGGTGCAGTGA 61.165 61.111 0.00 0.00 0.00 3.41
1942 1976 9.796062 TTAAAATGTAAGACGTTTTGACGATAC 57.204 29.630 16.21 6.65 44.37 2.24
1967 2035 5.276440 AGAATGATGTACTCCCTCTGTCTT 58.724 41.667 0.00 0.00 0.00 3.01
1989 2091 7.230108 ACATGCTAAATCAGTAATGGGATCAAG 59.770 37.037 0.00 0.00 0.00 3.02
2086 2190 2.190170 GCGGAGGATCTCGAGCTCA 61.190 63.158 17.41 0.00 34.03 4.26
2209 2313 4.641645 TCCTTGCCACCCAGCACG 62.642 66.667 0.00 0.00 43.97 5.34
2368 2564 1.802960 AGCTGCGACATGAACTTCTTG 59.197 47.619 0.00 3.65 0.00 3.02
2396 2592 1.369625 GTCTTTATGCCCGTGGTCAG 58.630 55.000 0.00 0.00 0.00 3.51
2416 2612 0.817634 TCTGGTCCTTGTGTTTGGCG 60.818 55.000 0.00 0.00 0.00 5.69
2652 2849 3.120546 AGCAAACATGACGATGAACGAAG 60.121 43.478 0.00 0.00 45.77 3.79
2662 2859 0.780002 GCAAGCAAGCAAACATGACG 59.220 50.000 0.00 0.00 0.00 4.35
2670 2867 4.021280 TCCATTAATCAAGCAAGCAAGCAA 60.021 37.500 3.19 0.00 36.85 3.91
2830 4003 5.488262 CCTGAAAATGAAGGGAAAATGGT 57.512 39.130 0.00 0.00 0.00 3.55
2850 4687 9.895138 CAATCAATGAATAATTTTCCTTTCCCT 57.105 29.630 0.00 0.00 0.00 4.20
2890 4835 7.292713 TGGATGCATGCATAGTTTTCATATT 57.707 32.000 32.27 7.27 36.70 1.28
3185 5284 1.604593 CTTGGACTTGGGCCTGGTG 60.605 63.158 4.53 0.00 0.00 4.17
4165 6270 1.272037 TGTCAAATGCCTGCCTGATCA 60.272 47.619 0.00 0.00 0.00 2.92
4208 6316 1.448540 GTCCACCTGCTCCACGATG 60.449 63.158 0.00 0.00 0.00 3.84
4369 6477 2.419673 CACACACACACACACAAGTCAT 59.580 45.455 0.00 0.00 0.00 3.06
4373 6481 0.179166 GCCACACACACACACACAAG 60.179 55.000 0.00 0.00 0.00 3.16
4433 6543 6.561737 TTTATTAGCATTTCCGTTGACACA 57.438 33.333 0.00 0.00 0.00 3.72
4434 6544 6.526674 CCTTTTATTAGCATTTCCGTTGACAC 59.473 38.462 0.00 0.00 0.00 3.67
4435 6545 6.431543 TCCTTTTATTAGCATTTCCGTTGACA 59.568 34.615 0.00 0.00 0.00 3.58
4436 6546 6.745907 GTCCTTTTATTAGCATTTCCGTTGAC 59.254 38.462 0.00 0.00 0.00 3.18
4437 6547 6.431543 TGTCCTTTTATTAGCATTTCCGTTGA 59.568 34.615 0.00 0.00 0.00 3.18
4438 6548 6.616947 TGTCCTTTTATTAGCATTTCCGTTG 58.383 36.000 0.00 0.00 0.00 4.10
4439 6549 6.827586 TGTCCTTTTATTAGCATTTCCGTT 57.172 33.333 0.00 0.00 0.00 4.44
4440 6550 6.601613 TCATGTCCTTTTATTAGCATTTCCGT 59.398 34.615 0.00 0.00 0.00 4.69
4441 6551 7.026631 TCATGTCCTTTTATTAGCATTTCCG 57.973 36.000 0.00 0.00 0.00 4.30
4442 6552 7.285401 TCCTCATGTCCTTTTATTAGCATTTCC 59.715 37.037 0.00 0.00 0.00 3.13
4443 6553 8.225603 TCCTCATGTCCTTTTATTAGCATTTC 57.774 34.615 0.00 0.00 0.00 2.17
4444 6554 8.773033 ATCCTCATGTCCTTTTATTAGCATTT 57.227 30.769 0.00 0.00 0.00 2.32
4445 6555 9.289782 GTATCCTCATGTCCTTTTATTAGCATT 57.710 33.333 0.00 0.00 0.00 3.56
4446 6556 8.439971 TGTATCCTCATGTCCTTTTATTAGCAT 58.560 33.333 0.00 0.00 0.00 3.79
4447 6557 7.801104 TGTATCCTCATGTCCTTTTATTAGCA 58.199 34.615 0.00 0.00 0.00 3.49
4448 6558 8.854614 ATGTATCCTCATGTCCTTTTATTAGC 57.145 34.615 0.00 0.00 0.00 3.09
4453 6563 9.066892 GCAATAATGTATCCTCATGTCCTTTTA 57.933 33.333 0.00 0.00 0.00 1.52
4454 6564 7.560991 TGCAATAATGTATCCTCATGTCCTTTT 59.439 33.333 0.00 0.00 0.00 2.27
4455 6565 7.013655 GTGCAATAATGTATCCTCATGTCCTTT 59.986 37.037 0.00 0.00 0.00 3.11
4456 6566 6.488006 GTGCAATAATGTATCCTCATGTCCTT 59.512 38.462 0.00 0.00 0.00 3.36
4457 6567 6.000219 GTGCAATAATGTATCCTCATGTCCT 59.000 40.000 0.00 0.00 0.00 3.85
4458 6568 5.106948 CGTGCAATAATGTATCCTCATGTCC 60.107 44.000 0.00 0.00 0.00 4.02
4459 6569 5.696270 TCGTGCAATAATGTATCCTCATGTC 59.304 40.000 0.00 0.00 0.00 3.06
4460 6570 5.610398 TCGTGCAATAATGTATCCTCATGT 58.390 37.500 0.00 0.00 0.00 3.21
4461 6571 5.121298 CCTCGTGCAATAATGTATCCTCATG 59.879 44.000 0.00 0.00 0.00 3.07
4462 6572 5.240891 CCTCGTGCAATAATGTATCCTCAT 58.759 41.667 0.00 0.00 0.00 2.90
4463 6573 4.503123 CCCTCGTGCAATAATGTATCCTCA 60.503 45.833 0.00 0.00 0.00 3.86
4464 6574 3.997021 CCCTCGTGCAATAATGTATCCTC 59.003 47.826 0.00 0.00 0.00 3.71
4465 6575 3.646162 TCCCTCGTGCAATAATGTATCCT 59.354 43.478 0.00 0.00 0.00 3.24
4466 6576 4.002906 TCCCTCGTGCAATAATGTATCC 57.997 45.455 0.00 0.00 0.00 2.59
4467 6577 6.560253 ATTTCCCTCGTGCAATAATGTATC 57.440 37.500 0.00 0.00 0.00 2.24
4468 6578 8.635765 ATTATTTCCCTCGTGCAATAATGTAT 57.364 30.769 0.00 0.00 32.83 2.29
4469 6579 7.936847 AGATTATTTCCCTCGTGCAATAATGTA 59.063 33.333 0.00 0.00 33.76 2.29
4470 6580 6.772716 AGATTATTTCCCTCGTGCAATAATGT 59.227 34.615 0.00 0.00 33.76 2.71
4471 6581 7.173907 AGAGATTATTTCCCTCGTGCAATAATG 59.826 37.037 0.00 0.00 33.76 1.90
4472 6582 7.227156 AGAGATTATTTCCCTCGTGCAATAAT 58.773 34.615 0.00 0.00 35.46 1.28
4473 6583 6.591935 AGAGATTATTTCCCTCGTGCAATAA 58.408 36.000 0.00 0.00 32.52 1.40
4474 6584 6.174720 AGAGATTATTTCCCTCGTGCAATA 57.825 37.500 0.00 0.00 32.52 1.90
4475 6585 5.041191 AGAGATTATTTCCCTCGTGCAAT 57.959 39.130 0.00 0.00 32.52 3.56
4476 6586 4.487714 AGAGATTATTTCCCTCGTGCAA 57.512 40.909 0.00 0.00 32.52 4.08
4477 6587 4.487714 AAGAGATTATTTCCCTCGTGCA 57.512 40.909 0.00 0.00 32.52 4.57
4478 6588 5.119694 AGAAAGAGATTATTTCCCTCGTGC 58.880 41.667 0.00 0.00 37.37 5.34
4479 6589 7.717568 TCTAGAAAGAGATTATTTCCCTCGTG 58.282 38.462 0.00 0.00 37.37 4.35
4480 6590 7.899648 TCTAGAAAGAGATTATTTCCCTCGT 57.100 36.000 0.00 0.00 37.37 4.18
4495 6605 7.174080 CGGAGACATATCATGACTCTAGAAAGA 59.826 40.741 14.96 0.00 46.45 2.52
4496 6606 7.040755 ACGGAGACATATCATGACTCTAGAAAG 60.041 40.741 14.96 0.00 46.45 2.62
4497 6607 6.773200 ACGGAGACATATCATGACTCTAGAAA 59.227 38.462 14.96 0.00 46.45 2.52
4498 6608 6.299922 ACGGAGACATATCATGACTCTAGAA 58.700 40.000 14.96 0.00 46.45 2.10
4499 6609 5.870706 ACGGAGACATATCATGACTCTAGA 58.129 41.667 14.96 0.00 46.45 2.43
4500 6610 5.163903 CGACGGAGACATATCATGACTCTAG 60.164 48.000 14.96 12.41 46.45 2.43
4501 6611 4.691216 CGACGGAGACATATCATGACTCTA 59.309 45.833 14.96 0.00 46.45 2.43
4502 6612 3.500299 CGACGGAGACATATCATGACTCT 59.500 47.826 14.96 0.00 46.45 3.24
4503 6613 3.498777 TCGACGGAGACATATCATGACTC 59.501 47.826 0.00 9.27 46.49 3.36
4504 6614 3.477530 TCGACGGAGACATATCATGACT 58.522 45.455 0.00 0.00 37.96 3.41
4505 6615 3.898517 TCGACGGAGACATATCATGAC 57.101 47.619 0.00 0.00 0.00 3.06
4506 6616 4.911514 TTTCGACGGAGACATATCATGA 57.088 40.909 0.00 0.00 0.00 3.07
4507 6617 7.818493 ATAATTTCGACGGAGACATATCATG 57.182 36.000 0.00 0.00 0.00 3.07
4509 6619 9.923143 AATTATAATTTCGACGGAGACATATCA 57.077 29.630 4.81 0.00 0.00 2.15
4565 6675 9.148104 GCCCGTGTATTTACCTCTATATAAAAG 57.852 37.037 0.00 0.00 0.00 2.27
4566 6676 8.649591 TGCCCGTGTATTTACCTCTATATAAAA 58.350 33.333 0.00 0.00 0.00 1.52
4567 6677 8.192743 TGCCCGTGTATTTACCTCTATATAAA 57.807 34.615 0.00 0.00 0.00 1.40
4568 6678 7.452501 ACTGCCCGTGTATTTACCTCTATATAA 59.547 37.037 0.00 0.00 0.00 0.98
4569 6679 6.950041 ACTGCCCGTGTATTTACCTCTATATA 59.050 38.462 0.00 0.00 0.00 0.86
4570 6680 5.778750 ACTGCCCGTGTATTTACCTCTATAT 59.221 40.000 0.00 0.00 0.00 0.86
4571 6681 5.142639 ACTGCCCGTGTATTTACCTCTATA 58.857 41.667 0.00 0.00 0.00 1.31
4944 7132 7.170828 CCTCGTATATAAAGCTATTTGTGCACA 59.829 37.037 17.42 17.42 0.00 4.57
4953 7141 8.638629 AGAACAGTCCTCGTATATAAAGCTAT 57.361 34.615 0.00 0.00 0.00 2.97
5018 7210 1.375326 GTTCGAACTGGGGCTTCCT 59.625 57.895 20.97 0.00 36.20 3.36
5028 7221 4.368543 GGCCGGACGGTTCGAACT 62.369 66.667 26.32 9.06 37.65 3.01
5038 7231 0.960364 ATGTGTCATTGTGGCCGGAC 60.960 55.000 5.05 0.56 0.00 4.79


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

AutoCloner maintained by Alex Coulton.