Multiple sequence alignment - TraesCS1D01G095400

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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 TraesCS1D01G095400 chr1D 100.000 2839 0 0 1 2839 80816002 80818840 0.000000e+00 5243.0
1 TraesCS1D01G095400 chr1D 85.155 869 73 18 1 830 298571755 298570904 0.000000e+00 839.0
2 TraesCS1D01G095400 chr1D 83.805 778 93 23 1016 1775 80540993 80541755 0.000000e+00 708.0
3 TraesCS1D01G095400 chr1D 83.443 761 112 12 1017 1776 80448324 80449071 0.000000e+00 695.0
4 TraesCS1D01G095400 chr1D 86.667 480 57 5 1296 1773 80537403 80537877 2.510000e-145 525.0
5 TraesCS1D01G095400 chr1D 81.633 294 30 8 1999 2269 14667373 14667665 3.680000e-54 222.0
6 TraesCS1D01G095400 chr1B 93.429 1111 65 6 841 1948 133481323 133482428 0.000000e+00 1640.0
7 TraesCS1D01G095400 chr1B 88.207 831 76 8 21 830 190999807 191000636 0.000000e+00 972.0
8 TraesCS1D01G095400 chr1B 86.936 842 75 11 21 830 401622139 401621301 0.000000e+00 913.0
9 TraesCS1D01G095400 chr1B 85.346 853 81 16 17 830 623197652 623198499 0.000000e+00 843.0
10 TraesCS1D01G095400 chr1B 82.716 891 111 23 1966 2839 133483479 133484343 0.000000e+00 752.0
11 TraesCS1D01G095400 chr1B 83.420 772 111 15 1017 1776 132938250 132939016 0.000000e+00 701.0
12 TraesCS1D01G095400 chr1B 83.485 769 100 19 1016 1773 133032490 133033242 0.000000e+00 691.0
13 TraesCS1D01G095400 chr1B 80.338 946 150 25 850 1775 133075513 133076442 0.000000e+00 684.0
14 TraesCS1D01G095400 chr1B 82.581 775 84 14 85 818 606322385 606321621 1.110000e-178 636.0
15 TraesCS1D01G095400 chr1B 78.090 178 34 5 2626 2801 32419903 32420077 1.080000e-19 108.0
16 TraesCS1D01G095400 chr1B 73.165 395 61 31 2417 2801 4461975 4462334 1.800000e-17 100.0
17 TraesCS1D01G095400 chr1A 90.135 963 68 11 844 1801 99234248 99235188 0.000000e+00 1227.0
18 TraesCS1D01G095400 chr1A 83.508 764 104 16 1018 1776 99018629 99019375 0.000000e+00 693.0
19 TraesCS1D01G095400 chr1A 83.073 768 104 16 1018 1773 99048776 99049529 0.000000e+00 675.0
20 TraesCS1D01G095400 chr1A 82.558 774 106 22 1020 1775 99071116 99071878 0.000000e+00 654.0
21 TraesCS1D01G095400 chr1A 81.848 303 32 12 1996 2276 413799745 413799444 1.700000e-57 233.0
22 TraesCS1D01G095400 chr1A 81.695 295 28 14 1999 2269 127830585 127830877 3.680000e-54 222.0
23 TraesCS1D01G095400 chr1A 81.786 280 29 12 2012 2269 518798555 518798834 6.160000e-52 215.0
24 TraesCS1D01G095400 chr1A 82.692 260 23 12 2031 2269 478543709 478543967 7.970000e-51 211.0
25 TraesCS1D01G095400 chr1A 73.714 350 69 16 2481 2825 94459700 94459369 6.430000e-22 115.0
26 TraesCS1D01G095400 chr6A 87.441 844 80 13 21 845 493844719 493845555 0.000000e+00 948.0
27 TraesCS1D01G095400 chr6A 75.610 287 37 15 2001 2266 77152960 77152686 8.310000e-21 111.0
28 TraesCS1D01G095400 chr6A 74.638 138 29 4 2384 2517 16340976 16341111 3.950000e-04 56.5
29 TraesCS1D01G095400 chr4B 86.957 851 84 7 21 845 616302289 616303138 0.000000e+00 931.0
30 TraesCS1D01G095400 chr4B 87.422 644 59 5 24 646 20752823 20752181 0.000000e+00 721.0
31 TraesCS1D01G095400 chr4B 84.718 602 51 11 75 637 588612415 588611816 5.310000e-157 564.0
32 TraesCS1D01G095400 chr7D 88.831 770 63 9 82 829 566447870 566447102 0.000000e+00 924.0
33 TraesCS1D01G095400 chr7D 84.677 868 74 20 21 845 53754389 53755240 0.000000e+00 811.0
34 TraesCS1D01G095400 chr7D 84.580 869 73 16 1 830 421147704 421148550 0.000000e+00 806.0
35 TraesCS1D01G095400 chr7D 77.397 292 40 11 1999 2268 65527153 65526866 1.760000e-32 150.0
36 TraesCS1D01G095400 chr7D 74.346 382 76 18 2436 2812 603904655 603905019 2.950000e-30 143.0
37 TraesCS1D01G095400 chr7D 86.022 93 11 2 2481 2571 205145607 205145699 6.470000e-17 99.0
38 TraesCS1D01G095400 chr7B 86.104 806 99 11 983 1776 95337237 95338041 0.000000e+00 856.0
39 TraesCS1D01G095400 chr3B 85.664 851 77 15 21 830 561042613 561043459 0.000000e+00 854.0
40 TraesCS1D01G095400 chr3B 84.908 868 87 9 21 845 20556291 20557157 0.000000e+00 837.0
41 TraesCS1D01G095400 chr3B 84.606 851 93 19 24 840 246172304 246171458 0.000000e+00 811.0
42 TraesCS1D01G095400 chr6D 84.914 875 70 22 30 845 350137744 350136873 0.000000e+00 828.0
43 TraesCS1D01G095400 chr6D 88.180 643 59 6 199 825 115650161 115650802 0.000000e+00 750.0
44 TraesCS1D01G095400 chr6D 89.080 174 19 0 21 194 115649938 115650111 1.710000e-52 217.0
45 TraesCS1D01G095400 chr6D 73.995 423 80 20 2417 2827 315365757 315366161 8.200000e-31 145.0
46 TraesCS1D01G095400 chr3D 89.193 657 60 7 199 845 68467791 68468446 0.000000e+00 809.0
47 TraesCS1D01G095400 chr3D 82.993 294 25 13 1999 2269 527520252 527520543 2.830000e-60 243.0
48 TraesCS1D01G095400 chr3D 77.740 292 41 15 1999 2269 579298368 579298080 1.050000e-34 158.0
49 TraesCS1D01G095400 chr2B 82.491 851 98 16 17 827 84841911 84842750 0.000000e+00 699.0
50 TraesCS1D01G095400 chr2B 78.366 869 103 25 21 819 718216047 718215194 4.250000e-133 484.0
51 TraesCS1D01G095400 chr2B 89.362 94 9 1 1999 2091 40455723 40455630 1.790000e-22 117.0
52 TraesCS1D01G095400 chr2B 89.130 92 9 1 2001 2091 724733809 724733900 2.310000e-21 113.0
53 TraesCS1D01G095400 chr7A 80.980 857 105 33 21 830 641983028 641983873 6.680000e-176 627.0
54 TraesCS1D01G095400 chr7A 88.304 171 18 2 2104 2273 32629370 32629539 1.330000e-48 204.0
55 TraesCS1D01G095400 chr7A 75.369 203 36 13 2384 2576 78651894 78651696 5.040000e-13 86.1
56 TraesCS1D01G095400 chr7A 76.364 165 24 11 2417 2573 709574627 709574784 1.090000e-09 75.0
57 TraesCS1D01G095400 chr5D 77.273 814 113 19 1 756 443352677 443351878 2.040000e-111 412.0
58 TraesCS1D01G095400 chr2D 91.379 174 14 1 21 194 552576006 552576178 1.310000e-58 237.0
59 TraesCS1D01G095400 chr2D 100.000 34 0 0 2595 2628 21253228 21253195 2.360000e-06 63.9
60 TraesCS1D01G095400 chr2A 89.080 174 16 3 2104 2275 88988537 88988709 2.220000e-51 213.0
61 TraesCS1D01G095400 chr2A 80.822 292 34 12 2001 2270 32113093 32113384 2.870000e-50 209.0
62 TraesCS1D01G095400 chr2A 78.498 293 43 9 1999 2271 4999643 4999935 1.050000e-39 174.0
63 TraesCS1D01G095400 chr3A 80.952 294 33 14 2003 2274 597887739 597888031 7.970000e-51 211.0
64 TraesCS1D01G095400 chr6B 73.804 397 82 15 2417 2808 689518097 689517718 1.370000e-28 137.0
65 TraesCS1D01G095400 chr6B 78.986 138 17 5 2494 2628 18128361 18128233 1.810000e-12 84.2
66 TraesCS1D01G095400 chr5A 75.926 270 48 12 2000 2268 646363382 646363129 3.840000e-24 122.0
67 TraesCS1D01G095400 chr5A 78.571 98 18 3 2419 2514 575585351 575585447 8.490000e-06 62.1
68 TraesCS1D01G095400 chr4D 72.506 411 85 19 2417 2819 477906468 477906858 1.080000e-19 108.0
69 TraesCS1D01G095400 chr4A 71.304 460 104 19 2380 2830 611594848 611595288 3.010000e-15 93.5
70 TraesCS1D01G095400 chr5B 79.381 97 17 2 2669 2764 19574117 19574023 6.560000e-07 65.8


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 TraesCS1D01G095400 chr1D 80816002 80818840 2838 False 5243.0 5243 100.0000 1 2839 1 chr1D.!!$F3 2838
1 TraesCS1D01G095400 chr1D 298570904 298571755 851 True 839.0 839 85.1550 1 830 1 chr1D.!!$R1 829
2 TraesCS1D01G095400 chr1D 80448324 80449071 747 False 695.0 695 83.4430 1017 1776 1 chr1D.!!$F2 759
3 TraesCS1D01G095400 chr1D 80537403 80541755 4352 False 616.5 708 85.2360 1016 1775 2 chr1D.!!$F4 759
4 TraesCS1D01G095400 chr1B 133481323 133484343 3020 False 1196.0 1640 88.0725 841 2839 2 chr1B.!!$F8 1998
5 TraesCS1D01G095400 chr1B 190999807 191000636 829 False 972.0 972 88.2070 21 830 1 chr1B.!!$F6 809
6 TraesCS1D01G095400 chr1B 401621301 401622139 838 True 913.0 913 86.9360 21 830 1 chr1B.!!$R1 809
7 TraesCS1D01G095400 chr1B 623197652 623198499 847 False 843.0 843 85.3460 17 830 1 chr1B.!!$F7 813
8 TraesCS1D01G095400 chr1B 132938250 132939016 766 False 701.0 701 83.4200 1017 1776 1 chr1B.!!$F3 759
9 TraesCS1D01G095400 chr1B 133032490 133033242 752 False 691.0 691 83.4850 1016 1773 1 chr1B.!!$F4 757
10 TraesCS1D01G095400 chr1B 133075513 133076442 929 False 684.0 684 80.3380 850 1775 1 chr1B.!!$F5 925
11 TraesCS1D01G095400 chr1B 606321621 606322385 764 True 636.0 636 82.5810 85 818 1 chr1B.!!$R2 733
12 TraesCS1D01G095400 chr1A 99234248 99235188 940 False 1227.0 1227 90.1350 844 1801 1 chr1A.!!$F4 957
13 TraesCS1D01G095400 chr1A 99018629 99019375 746 False 693.0 693 83.5080 1018 1776 1 chr1A.!!$F1 758
14 TraesCS1D01G095400 chr1A 99048776 99049529 753 False 675.0 675 83.0730 1018 1773 1 chr1A.!!$F2 755
15 TraesCS1D01G095400 chr1A 99071116 99071878 762 False 654.0 654 82.5580 1020 1775 1 chr1A.!!$F3 755
16 TraesCS1D01G095400 chr6A 493844719 493845555 836 False 948.0 948 87.4410 21 845 1 chr6A.!!$F2 824
17 TraesCS1D01G095400 chr4B 616302289 616303138 849 False 931.0 931 86.9570 21 845 1 chr4B.!!$F1 824
18 TraesCS1D01G095400 chr4B 20752181 20752823 642 True 721.0 721 87.4220 24 646 1 chr4B.!!$R1 622
19 TraesCS1D01G095400 chr4B 588611816 588612415 599 True 564.0 564 84.7180 75 637 1 chr4B.!!$R2 562
20 TraesCS1D01G095400 chr7D 566447102 566447870 768 True 924.0 924 88.8310 82 829 1 chr7D.!!$R2 747
21 TraesCS1D01G095400 chr7D 53754389 53755240 851 False 811.0 811 84.6770 21 845 1 chr7D.!!$F1 824
22 TraesCS1D01G095400 chr7D 421147704 421148550 846 False 806.0 806 84.5800 1 830 1 chr7D.!!$F3 829
23 TraesCS1D01G095400 chr7B 95337237 95338041 804 False 856.0 856 86.1040 983 1776 1 chr7B.!!$F1 793
24 TraesCS1D01G095400 chr3B 561042613 561043459 846 False 854.0 854 85.6640 21 830 1 chr3B.!!$F2 809
25 TraesCS1D01G095400 chr3B 20556291 20557157 866 False 837.0 837 84.9080 21 845 1 chr3B.!!$F1 824
26 TraesCS1D01G095400 chr3B 246171458 246172304 846 True 811.0 811 84.6060 24 840 1 chr3B.!!$R1 816
27 TraesCS1D01G095400 chr6D 350136873 350137744 871 True 828.0 828 84.9140 30 845 1 chr6D.!!$R1 815
28 TraesCS1D01G095400 chr6D 115649938 115650802 864 False 483.5 750 88.6300 21 825 2 chr6D.!!$F2 804
29 TraesCS1D01G095400 chr3D 68467791 68468446 655 False 809.0 809 89.1930 199 845 1 chr3D.!!$F1 646
30 TraesCS1D01G095400 chr2B 84841911 84842750 839 False 699.0 699 82.4910 17 827 1 chr2B.!!$F1 810
31 TraesCS1D01G095400 chr2B 718215194 718216047 853 True 484.0 484 78.3660 21 819 1 chr2B.!!$R2 798
32 TraesCS1D01G095400 chr7A 641983028 641983873 845 False 627.0 627 80.9800 21 830 1 chr7A.!!$F2 809
33 TraesCS1D01G095400 chr5D 443351878 443352677 799 True 412.0 412 77.2730 1 756 1 chr5D.!!$R1 755

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
830 1033 0.039074 TGCAAACGCATTTTACGGGG 60.039 50.0 0.0 0.0 33.43 5.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2543 6229 0.17576 GCCTCCAATGACGCTAGACA 59.824 55.0 0.0 0.0 0.0 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
365 475 4.228567 TGATCGCGGCCGCCATTA 62.229 61.111 42.07 30.28 37.98 1.90
553 681 1.361993 CGAGGAGGATTGAGCTCCG 59.638 63.158 12.15 0.00 41.82 4.63
652 831 6.801539 ATGTAGTATGAACCAGTGTTTGTG 57.198 37.500 0.00 0.00 33.97 3.33
676 855 9.282247 GTGATGAATTTAGTGTTTGATCATGTC 57.718 33.333 0.00 0.00 0.00 3.06
782 985 2.025441 TTTGGCTGCGCACGTTTC 59.975 55.556 5.66 0.00 0.00 2.78
830 1033 0.039074 TGCAAACGCATTTTACGGGG 60.039 50.000 0.00 0.00 33.43 5.73
840 1047 0.466922 TTTTACGGGGGTTTTGCGGA 60.467 50.000 0.00 0.00 0.00 5.54
869 1076 0.753262 AGTGTGGATCGGGACTATGC 59.247 55.000 0.00 0.00 0.00 3.14
965 1175 5.390567 GCGCCTATTTAATCATTAACTCGGG 60.391 44.000 0.00 0.00 0.00 5.14
1283 3878 4.130118 CGCCAAGGAGAGCTTGTATTATT 58.870 43.478 0.00 0.00 0.00 1.40
1288 3926 7.445402 GCCAAGGAGAGCTTGTATTATTATCAA 59.555 37.037 0.00 0.00 0.00 2.57
1315 3954 4.152625 GCAGAGTCGCGCGCAATT 62.153 61.111 32.61 10.16 0.00 2.32
1570 4209 0.390735 GGTTGTCGGCGTCCAAGTAT 60.391 55.000 6.85 0.00 0.00 2.12
1801 4440 1.254313 CGTCGGCGTATATGTTGTGTG 59.746 52.381 6.85 0.00 0.00 3.82
1802 4441 2.264813 GTCGGCGTATATGTTGTGTGT 58.735 47.619 6.85 0.00 0.00 3.72
1803 4442 2.028763 GTCGGCGTATATGTTGTGTGTG 59.971 50.000 6.85 0.00 0.00 3.82
1804 4443 1.996898 CGGCGTATATGTTGTGTGTGT 59.003 47.619 0.00 0.00 0.00 3.72
1822 4461 6.359617 GTGTGTGTTTTCAGATTGTTTATCCG 59.640 38.462 0.00 0.00 33.45 4.18
1863 4502 2.289819 TGGTCCGGGTCAGTACAATTTC 60.290 50.000 0.00 0.00 0.00 2.17
1889 4528 6.189677 TCAAATACCATGTTCGAACCATTC 57.810 37.500 24.78 0.48 0.00 2.67
1958 4598 9.158364 CAAGTATATTATTTGTTGATGACACGC 57.842 33.333 0.00 0.00 38.18 5.34
1959 4599 7.564128 AGTATATTATTTGTTGATGACACGCG 58.436 34.615 3.53 3.53 38.18 6.01
1961 4601 4.937696 TTATTTGTTGATGACACGCGAT 57.062 36.364 15.93 0.00 38.18 4.58
1962 4602 3.829886 ATTTGTTGATGACACGCGATT 57.170 38.095 15.93 0.00 38.18 3.34
1963 4603 2.873170 TTGTTGATGACACGCGATTC 57.127 45.000 15.93 9.15 38.18 2.52
1974 5647 4.965158 TGACACGCGATTCAAAAACTAAAC 59.035 37.500 15.93 0.00 0.00 2.01
1975 5648 4.911053 ACACGCGATTCAAAAACTAAACA 58.089 34.783 15.93 0.00 0.00 2.83
1983 5656 6.964370 CGATTCAAAAACTAAACATATCCGCA 59.036 34.615 0.00 0.00 0.00 5.69
1985 5658 9.134734 GATTCAAAAACTAAACATATCCGCAAA 57.865 29.630 0.00 0.00 0.00 3.68
1986 5659 9.651913 ATTCAAAAACTAAACATATCCGCAAAT 57.348 25.926 0.00 0.00 0.00 2.32
1991 5664 6.751514 ACTAAACATATCCGCAAATCAACA 57.248 33.333 0.00 0.00 0.00 3.33
1996 5669 2.282701 ATCCGCAAATCAACATGTGC 57.717 45.000 0.00 0.00 39.64 4.57
2014 5687 3.317711 TGTGCTTGTGGTTGGATTGTTAG 59.682 43.478 0.00 0.00 0.00 2.34
2015 5688 3.568007 GTGCTTGTGGTTGGATTGTTAGA 59.432 43.478 0.00 0.00 0.00 2.10
2031 5704 3.709653 TGTTAGATGGACAGTGGTATCCC 59.290 47.826 0.00 0.00 33.69 3.85
2034 5707 0.839946 ATGGACAGTGGTATCCCAGC 59.160 55.000 0.00 0.00 42.94 4.85
2041 5714 0.179018 GTGGTATCCCAGCCCATCAC 60.179 60.000 0.00 0.00 42.94 3.06
2054 5727 1.745087 CCCATCACGGTTCAAATCCTG 59.255 52.381 0.00 0.00 0.00 3.86
2061 5734 0.449388 GGTTCAAATCCTGCTGCTCG 59.551 55.000 0.00 0.00 0.00 5.03
2071 5744 4.672587 TCCTGCTGCTCGTATTTATTCT 57.327 40.909 0.00 0.00 0.00 2.40
2078 5751 8.432110 TGCTGCTCGTATTTATTCTGAATTTA 57.568 30.769 8.38 0.00 0.00 1.40
2079 5752 9.056005 TGCTGCTCGTATTTATTCTGAATTTAT 57.944 29.630 8.38 5.38 0.00 1.40
2080 5753 9.884465 GCTGCTCGTATTTATTCTGAATTTATT 57.116 29.630 8.38 0.00 0.00 1.40
2101 5781 9.515020 TTTATTTCAGGATTTCAAACGATATGC 57.485 29.630 0.00 0.00 0.00 3.14
2110 5790 4.640855 ACGATATGCGCCCGTCGG 62.641 66.667 22.98 3.60 46.04 4.79
2126 5806 4.625781 GGCTACGAGGCGCCTACG 62.626 72.222 32.97 32.67 42.98 3.51
2158 5838 9.744468 TTCGTAAAATCTCAAGATGATATTCGA 57.256 29.630 0.00 0.00 34.49 3.71
2164 5845 9.993454 AAATCTCAAGATGATATTCGATTCAGA 57.007 29.630 0.00 0.00 34.49 3.27
2167 5848 8.637099 TCTCAAGATGATATTCGATTCAGACTT 58.363 33.333 0.00 0.00 0.00 3.01
2171 5852 6.865726 AGATGATATTCGATTCAGACTTTCGG 59.134 38.462 0.00 0.00 33.82 4.30
2191 5872 2.243810 GAGGTGCTCATAGAGGTAGGG 58.756 57.143 0.00 0.00 0.00 3.53
2193 5874 1.689273 GGTGCTCATAGAGGTAGGGTG 59.311 57.143 0.00 0.00 0.00 4.61
2199 5880 3.096852 TCATAGAGGTAGGGTGTGTGTG 58.903 50.000 0.00 0.00 0.00 3.82
2200 5881 1.263356 TAGAGGTAGGGTGTGTGTGC 58.737 55.000 0.00 0.00 0.00 4.57
2201 5882 1.374252 GAGGTAGGGTGTGTGTGCG 60.374 63.158 0.00 0.00 0.00 5.34
2202 5883 3.047877 GGTAGGGTGTGTGTGCGC 61.048 66.667 0.00 0.00 0.00 6.09
2214 5895 2.020016 GTGCGCGCGTTCATACAG 59.980 61.111 32.35 0.00 0.00 2.74
2221 5902 0.992072 CGCGTTCATACAGGTGAGTG 59.008 55.000 0.00 0.00 0.00 3.51
2233 5914 4.129380 ACAGGTGAGTGTATACGCGTATA 58.871 43.478 30.02 30.02 0.00 1.47
2239 5920 7.335171 AGGTGAGTGTATACGCGTATATATGAA 59.665 37.037 34.30 20.68 31.45 2.57
2241 5922 7.161578 GTGAGTGTATACGCGTATATATGAACG 59.838 40.741 34.30 4.05 41.92 3.95
2251 5932 6.128710 CGTATATATGAACGCTTGTGTCTG 57.871 41.667 0.00 0.00 31.66 3.51
2253 5934 6.854381 CGTATATATGAACGCTTGTGTCTGTA 59.146 38.462 0.00 0.00 31.66 2.74
2254 5935 7.149176 CGTATATATGAACGCTTGTGTCTGTAC 60.149 40.741 0.00 0.00 31.66 2.90
2255 5936 2.882927 TGAACGCTTGTGTCTGTACT 57.117 45.000 0.00 0.00 0.00 2.73
2256 5937 2.469826 TGAACGCTTGTGTCTGTACTG 58.530 47.619 0.00 0.00 0.00 2.74
2257 5938 2.100087 TGAACGCTTGTGTCTGTACTGA 59.900 45.455 0.00 0.00 0.00 3.41
2258 5939 3.243737 TGAACGCTTGTGTCTGTACTGAT 60.244 43.478 5.69 0.00 0.00 2.90
2259 5940 2.677199 ACGCTTGTGTCTGTACTGATG 58.323 47.619 5.69 0.00 0.00 3.07
2260 5941 2.035961 ACGCTTGTGTCTGTACTGATGT 59.964 45.455 5.69 0.00 0.00 3.06
2261 5942 3.059884 CGCTTGTGTCTGTACTGATGTT 58.940 45.455 5.69 0.00 0.00 2.71
2262 5943 4.234574 CGCTTGTGTCTGTACTGATGTTA 58.765 43.478 5.69 0.00 0.00 2.41
2263 5944 4.684242 CGCTTGTGTCTGTACTGATGTTAA 59.316 41.667 5.69 0.07 0.00 2.01
2264 5945 5.176774 CGCTTGTGTCTGTACTGATGTTAAA 59.823 40.000 5.69 0.00 0.00 1.52
2315 5996 2.763933 AGCAATGATCGCTCACTATGG 58.236 47.619 0.00 0.00 33.35 2.74
2340 6021 4.202461 GGAAATATATGTGACCCTGCCTCA 60.202 45.833 0.00 0.00 0.00 3.86
2344 6025 1.679311 TGTGACCCTGCCTCACATC 59.321 57.895 0.00 0.00 42.47 3.06
2345 6026 1.126948 TGTGACCCTGCCTCACATCA 61.127 55.000 0.00 0.00 42.47 3.07
2367 6048 3.430556 AGTGTCATCGTCGATCTATCTCG 59.569 47.826 4.34 0.00 39.99 4.04
2379 6060 3.790089 TCTATCTCGTCTCCTATGGCA 57.210 47.619 0.00 0.00 0.00 4.92
2380 6061 3.680490 TCTATCTCGTCTCCTATGGCAG 58.320 50.000 0.00 0.00 0.00 4.85
2382 6063 2.145397 TCTCGTCTCCTATGGCAGTT 57.855 50.000 0.00 0.00 0.00 3.16
2383 6064 3.292492 TCTCGTCTCCTATGGCAGTTA 57.708 47.619 0.00 0.00 0.00 2.24
2384 6065 3.833732 TCTCGTCTCCTATGGCAGTTAT 58.166 45.455 0.00 0.00 0.00 1.89
2386 6067 2.628178 TCGTCTCCTATGGCAGTTATGG 59.372 50.000 0.00 0.00 0.00 2.74
2387 6068 2.628178 CGTCTCCTATGGCAGTTATGGA 59.372 50.000 0.00 0.00 0.00 3.41
2388 6069 3.305676 CGTCTCCTATGGCAGTTATGGAG 60.306 52.174 13.97 13.97 41.57 3.86
2389 6070 3.898123 GTCTCCTATGGCAGTTATGGAGA 59.102 47.826 16.96 16.96 45.14 3.71
2390 6071 4.756564 TCTCCTATGGCAGTTATGGAGAT 58.243 43.478 16.96 0.00 43.29 2.75
2409 6095 3.186047 CGGTGGATCGCGGTTGAC 61.186 66.667 6.13 0.00 0.00 3.18
2434 6120 3.170360 GGAGGGCTCCGTTTTTAGG 57.830 57.895 0.00 0.00 40.36 2.69
2435 6121 0.327259 GGAGGGCTCCGTTTTTAGGT 59.673 55.000 0.00 0.00 40.36 3.08
2436 6122 1.450025 GAGGGCTCCGTTTTTAGGTG 58.550 55.000 0.00 0.00 0.00 4.00
2438 6124 1.144298 AGGGCTCCGTTTTTAGGTGTT 59.856 47.619 0.00 0.00 0.00 3.32
2439 6125 1.538512 GGGCTCCGTTTTTAGGTGTTC 59.461 52.381 0.00 0.00 0.00 3.18
2440 6126 1.196127 GGCTCCGTTTTTAGGTGTTCG 59.804 52.381 0.00 0.00 0.00 3.95
2470 6156 7.776500 AGTTTAGTTAGTGTTTGTACCATGGTT 59.224 33.333 25.38 7.42 0.00 3.67
2472 6158 9.624373 TTTAGTTAGTGTTTGTACCATGGTTAA 57.376 29.630 25.38 16.00 0.00 2.01
2486 6172 4.166144 CCATGGTTAAGAAGGATAGGTGGT 59.834 45.833 2.57 0.00 0.00 4.16
2487 6173 4.837093 TGGTTAAGAAGGATAGGTGGTG 57.163 45.455 0.00 0.00 0.00 4.17
2489 6175 3.542648 GTTAAGAAGGATAGGTGGTGGC 58.457 50.000 0.00 0.00 0.00 5.01
2506 6192 1.680522 GGCGGCTCTCTGAAGATGGA 61.681 60.000 0.00 0.00 0.00 3.41
2511 6197 4.305769 CGGCTCTCTGAAGATGGAATAAG 58.694 47.826 0.00 0.00 0.00 1.73
2529 6215 8.478877 TGGAATAAGATTCTTCTCACCTAACTC 58.521 37.037 1.27 0.00 0.00 3.01
2531 6217 4.993029 AGATTCTTCTCACCTAACTCCG 57.007 45.455 0.00 0.00 0.00 4.63
2533 6219 4.399934 AGATTCTTCTCACCTAACTCCGTC 59.600 45.833 0.00 0.00 0.00 4.79
2536 6222 0.679002 TCTCACCTAACTCCGTCCCG 60.679 60.000 0.00 0.00 0.00 5.14
2540 6226 0.964358 ACCTAACTCCGTCCCGACAG 60.964 60.000 0.00 0.00 0.00 3.51
2543 6229 0.538057 TAACTCCGTCCCGACAGTGT 60.538 55.000 0.00 0.00 0.00 3.55
2551 6237 1.154016 CCCGACAGTGTGTCTAGCG 60.154 63.158 0.00 0.00 44.85 4.26
2558 6244 1.995484 CAGTGTGTCTAGCGTCATTGG 59.005 52.381 0.00 0.00 0.00 3.16
2572 6259 2.224159 ATTGGAGGCGTGTGGAGGT 61.224 57.895 0.00 0.00 0.00 3.85
2576 6263 4.626081 AGGCGTGTGGAGGTGTGC 62.626 66.667 0.00 0.00 0.00 4.57
2583 6270 2.527123 TGGAGGTGTGCCCCGTAA 60.527 61.111 0.00 0.00 34.57 3.18
2584 6271 2.148052 TGGAGGTGTGCCCCGTAAA 61.148 57.895 0.00 0.00 34.57 2.01
2639 6326 4.394729 TGTCTTTAGTGTTTGGTGGATCC 58.605 43.478 4.20 4.20 0.00 3.36
2640 6327 4.104102 TGTCTTTAGTGTTTGGTGGATCCT 59.896 41.667 14.23 0.00 37.07 3.24
2645 6332 2.711009 AGTGTTTGGTGGATCCTCTTGA 59.289 45.455 14.23 0.00 37.07 3.02
2648 6335 2.424956 GTTTGGTGGATCCTCTTGATGC 59.575 50.000 14.23 0.00 41.85 3.91
2653 6340 0.181350 GGATCCTCTTGATGCCGGTT 59.819 55.000 3.84 0.00 35.89 4.44
2669 6356 2.796593 CCGGTTTTCGTTCGTCTACTTT 59.203 45.455 0.00 0.00 37.11 2.66
2671 6358 3.486841 CGGTTTTCGTTCGTCTACTTTCA 59.513 43.478 0.00 0.00 0.00 2.69
2677 6364 4.224433 TCGTTCGTCTACTTTCATGTGTC 58.776 43.478 0.00 0.00 0.00 3.67
2680 6367 5.164177 CGTTCGTCTACTTTCATGTGTCTTC 60.164 44.000 0.00 0.00 0.00 2.87
2723 6410 3.316588 TGCTCATCTCTTCATCTACGACC 59.683 47.826 0.00 0.00 0.00 4.79
2743 6430 3.938963 ACCGTTATTATTCTGGTGCACTG 59.061 43.478 17.98 10.30 0.00 3.66
2751 6438 7.612065 ATTATTCTGGTGCACTGGTACTATA 57.388 36.000 17.98 3.55 0.00 1.31
2757 6444 2.034305 GTGCACTGGTACTATAGGGTCG 59.966 54.545 10.32 0.00 0.00 4.79
2763 6450 3.480470 TGGTACTATAGGGTCGTAGCAC 58.520 50.000 4.43 0.00 36.90 4.40
2765 6452 3.251972 GGTACTATAGGGTCGTAGCACAC 59.748 52.174 4.43 0.00 33.25 3.82
2786 6473 4.789119 CACGACTTCTCGATTGTCTTCTAC 59.211 45.833 0.00 0.00 43.06 2.59
2788 6475 5.048921 ACGACTTCTCGATTGTCTTCTACAA 60.049 40.000 0.00 0.00 46.28 2.41
2802 6489 5.009610 GTCTTCTACAACAAGATTTGCCCAA 59.990 40.000 0.00 0.00 32.50 4.12
2803 6490 4.846779 TCTACAACAAGATTTGCCCAAC 57.153 40.909 0.00 0.00 0.00 3.77
2813 6500 3.449737 AGATTTGCCCAACTCCAATGATG 59.550 43.478 0.00 0.00 0.00 3.07
2829 6516 2.747177 TGATGGAGAGGTTATGACGGT 58.253 47.619 0.00 0.00 0.00 4.83
2830 6517 3.905968 TGATGGAGAGGTTATGACGGTA 58.094 45.455 0.00 0.00 0.00 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
652 831 8.177663 ACGACATGATCAAACACTAAATTCATC 58.822 33.333 0.00 0.00 0.00 2.92
782 985 1.160329 GGATCTCATTTGCGGGTCGG 61.160 60.000 0.00 0.00 0.00 4.79
830 1033 0.803117 GCCTTAGACTCCGCAAAACC 59.197 55.000 0.00 0.00 0.00 3.27
840 1047 1.478510 CGATCCACACTGCCTTAGACT 59.521 52.381 0.00 0.00 0.00 3.24
869 1076 1.978542 CGTCCAAAGTAGACTGTCGG 58.021 55.000 1.52 0.00 31.83 4.79
911 1118 2.159296 TGATCGTGGATCTGTGTTACGG 60.159 50.000 7.10 0.00 39.56 4.02
965 1175 5.805486 TCTTGAAGTTGACTGCGATACATAC 59.195 40.000 0.00 0.00 0.00 2.39
1031 3607 2.359478 GCCCACCCGTACACCTTG 60.359 66.667 0.00 0.00 0.00 3.61
1253 3847 1.309950 CTCTCCTTGGCGATCTCGTA 58.690 55.000 1.14 0.00 42.22 3.43
1256 3850 0.463620 AAGCTCTCCTTGGCGATCTC 59.536 55.000 0.00 0.00 30.99 2.75
1513 4152 0.250467 GCACCTTCCTCAGCTTGACA 60.250 55.000 0.00 0.00 0.00 3.58
1783 4422 2.263945 CACACACAACATATACGCCGA 58.736 47.619 0.00 0.00 0.00 5.54
1790 4429 7.715657 ACAATCTGAAAACACACACAACATAT 58.284 30.769 0.00 0.00 0.00 1.78
1801 4440 5.856455 CACCGGATAAACAATCTGAAAACAC 59.144 40.000 9.46 0.00 42.81 3.32
1802 4441 5.533154 ACACCGGATAAACAATCTGAAAACA 59.467 36.000 9.46 0.00 42.81 2.83
1803 4442 5.856455 CACACCGGATAAACAATCTGAAAAC 59.144 40.000 9.46 0.00 42.81 2.43
1804 4443 5.765677 TCACACCGGATAAACAATCTGAAAA 59.234 36.000 9.46 0.00 42.81 2.29
1822 4461 6.645003 GGACCACTTTTTATTTCATTCACACC 59.355 38.462 0.00 0.00 0.00 4.16
1863 4502 6.007936 TGGTTCGAACATGGTATTTGAAAG 57.992 37.500 28.24 0.00 32.48 2.62
1940 4580 4.937696 ATCGCGTGTCATCAACAAATAA 57.062 36.364 5.77 0.00 40.31 1.40
1942 4582 3.188254 TGAATCGCGTGTCATCAACAAAT 59.812 39.130 5.77 0.00 40.31 2.32
1948 4588 3.249799 AGTTTTTGAATCGCGTGTCATCA 59.750 39.130 5.77 1.93 0.00 3.07
1949 4589 3.810373 AGTTTTTGAATCGCGTGTCATC 58.190 40.909 5.77 0.00 0.00 2.92
1950 4590 3.896648 AGTTTTTGAATCGCGTGTCAT 57.103 38.095 5.77 0.00 0.00 3.06
1951 4591 4.797693 TTAGTTTTTGAATCGCGTGTCA 57.202 36.364 5.77 8.28 0.00 3.58
1952 4592 4.965158 TGTTTAGTTTTTGAATCGCGTGTC 59.035 37.500 5.77 5.34 0.00 3.67
1954 4594 7.044966 GGATATGTTTAGTTTTTGAATCGCGTG 60.045 37.037 5.77 0.00 0.00 5.34
1955 4595 6.964934 GGATATGTTTAGTTTTTGAATCGCGT 59.035 34.615 5.77 0.00 0.00 6.01
1956 4596 6.138546 CGGATATGTTTAGTTTTTGAATCGCG 59.861 38.462 0.00 0.00 0.00 5.87
1958 4598 6.964370 TGCGGATATGTTTAGTTTTTGAATCG 59.036 34.615 0.00 0.00 0.00 3.34
1959 4599 8.682128 TTGCGGATATGTTTAGTTTTTGAATC 57.318 30.769 0.00 0.00 0.00 2.52
1961 4601 9.134734 GATTTGCGGATATGTTTAGTTTTTGAA 57.865 29.630 0.00 0.00 0.00 2.69
1962 4602 8.300286 TGATTTGCGGATATGTTTAGTTTTTGA 58.700 29.630 0.00 0.00 0.00 2.69
1963 4603 8.459521 TGATTTGCGGATATGTTTAGTTTTTG 57.540 30.769 0.00 0.00 0.00 2.44
1974 5647 3.732219 GCACATGTTGATTTGCGGATATG 59.268 43.478 0.00 0.00 0.00 1.78
1975 5648 3.633525 AGCACATGTTGATTTGCGGATAT 59.366 39.130 0.00 0.00 39.78 1.63
1983 5656 4.121317 CAACCACAAGCACATGTTGATTT 58.879 39.130 0.00 0.00 38.81 2.17
1985 5658 2.036217 CCAACCACAAGCACATGTTGAT 59.964 45.455 0.00 0.00 38.81 2.57
1986 5659 1.408340 CCAACCACAAGCACATGTTGA 59.592 47.619 0.00 0.00 38.81 3.18
1991 5664 2.318908 ACAATCCAACCACAAGCACAT 58.681 42.857 0.00 0.00 0.00 3.21
1996 5669 5.009631 TCCATCTAACAATCCAACCACAAG 58.990 41.667 0.00 0.00 0.00 3.16
2031 5704 1.133025 GATTTGAACCGTGATGGGCTG 59.867 52.381 0.00 0.00 44.64 4.85
2034 5707 1.745087 CAGGATTTGAACCGTGATGGG 59.255 52.381 0.00 0.00 44.64 4.00
2041 5714 0.449388 GAGCAGCAGGATTTGAACCG 59.551 55.000 0.00 0.00 0.00 4.44
2054 5727 9.884465 AATAAATTCAGAATAAATACGAGCAGC 57.116 29.630 0.00 0.00 0.00 5.25
2078 5751 6.201517 CGCATATCGTTTGAAATCCTGAAAT 58.798 36.000 0.00 0.00 0.00 2.17
2079 5752 5.568482 CGCATATCGTTTGAAATCCTGAAA 58.432 37.500 0.00 0.00 0.00 2.69
2080 5753 4.495679 GCGCATATCGTTTGAAATCCTGAA 60.496 41.667 0.30 0.00 41.07 3.02
2081 5754 3.002246 GCGCATATCGTTTGAAATCCTGA 59.998 43.478 0.30 0.00 41.07 3.86
2083 5756 2.290641 GGCGCATATCGTTTGAAATCCT 59.709 45.455 10.83 0.00 41.07 3.24
2084 5757 2.604614 GGGCGCATATCGTTTGAAATCC 60.605 50.000 10.83 0.00 41.07 3.01
2085 5758 2.650608 GGGCGCATATCGTTTGAAATC 58.349 47.619 10.83 0.00 41.07 2.17
2088 5761 0.741574 ACGGGCGCATATCGTTTGAA 60.742 50.000 10.83 0.00 41.07 2.69
2089 5762 1.149361 GACGGGCGCATATCGTTTGA 61.149 55.000 10.83 0.00 41.07 2.69
2090 5763 1.275657 GACGGGCGCATATCGTTTG 59.724 57.895 10.83 0.00 41.07 2.93
2091 5764 2.235016 CGACGGGCGCATATCGTTT 61.235 57.895 10.83 0.00 41.07 3.60
2092 5765 2.657296 CGACGGGCGCATATCGTT 60.657 61.111 10.83 0.00 41.07 3.85
2093 5766 4.640855 CCGACGGGCGCATATCGT 62.641 66.667 20.28 17.76 41.07 3.73
2110 5790 4.625781 CCGTAGGCGCCTCGTAGC 62.626 72.222 36.73 17.61 46.14 3.58
2125 5805 4.921515 TCTTGAGATTTTACGAAGTCACCG 59.078 41.667 0.00 0.00 43.93 4.94
2126 5806 6.590292 TCATCTTGAGATTTTACGAAGTCACC 59.410 38.462 0.00 0.00 35.39 4.02
2155 5835 2.094700 CACCTCCGAAAGTCTGAATCGA 60.095 50.000 9.47 0.00 38.82 3.59
2157 5837 2.003301 GCACCTCCGAAAGTCTGAATC 58.997 52.381 0.00 0.00 0.00 2.52
2158 5838 1.625818 AGCACCTCCGAAAGTCTGAAT 59.374 47.619 0.00 0.00 0.00 2.57
2164 5845 2.428890 CTCTATGAGCACCTCCGAAAGT 59.571 50.000 0.00 0.00 0.00 2.66
2167 5848 1.342076 ACCTCTATGAGCACCTCCGAA 60.342 52.381 0.00 0.00 0.00 4.30
2171 5852 2.243810 CCCTACCTCTATGAGCACCTC 58.756 57.143 0.00 0.00 0.00 3.85
2193 5874 3.005901 TATGAACGCGCGCACACAC 62.006 57.895 32.58 16.76 0.00 3.82
2199 5880 3.186047 ACCTGTATGAACGCGCGC 61.186 61.111 32.58 23.91 0.00 6.86
2200 5881 1.742900 CTCACCTGTATGAACGCGCG 61.743 60.000 30.96 30.96 0.00 6.86
2201 5882 0.736325 ACTCACCTGTATGAACGCGC 60.736 55.000 5.73 0.00 0.00 6.86
2202 5883 0.992072 CACTCACCTGTATGAACGCG 59.008 55.000 3.53 3.53 0.00 6.01
2209 5890 2.947652 ACGCGTATACACTCACCTGTAT 59.052 45.455 11.67 0.00 39.98 2.29
2214 5895 7.008440 TCATATATACGCGTATACACTCACC 57.992 40.000 34.45 0.00 31.52 4.02
2233 5914 4.864806 CAGTACAGACACAAGCGTTCATAT 59.135 41.667 0.00 0.00 0.00 1.78
2239 5920 2.035961 ACATCAGTACAGACACAAGCGT 59.964 45.455 0.00 0.00 0.00 5.07
2241 5922 6.539649 TTTAACATCAGTACAGACACAAGC 57.460 37.500 0.00 0.00 0.00 4.01
2269 5950 9.640952 TCCTATTTTTGGGGATATCTTTAGTTG 57.359 33.333 2.05 0.00 0.00 3.16
2276 5957 5.930209 TGCTCCTATTTTTGGGGATATCT 57.070 39.130 2.05 0.00 0.00 1.98
2282 5963 4.261741 CGATCATTGCTCCTATTTTTGGGG 60.262 45.833 0.00 0.00 0.00 4.96
2284 5965 4.037208 AGCGATCATTGCTCCTATTTTTGG 59.963 41.667 0.00 0.00 38.62 3.28
2285 5966 5.179045 AGCGATCATTGCTCCTATTTTTG 57.821 39.130 0.00 0.00 38.62 2.44
2312 5993 5.634118 CAGGGTCACATATATTTCCACCAT 58.366 41.667 0.00 0.00 0.00 3.55
2314 5995 3.821033 GCAGGGTCACATATATTTCCACC 59.179 47.826 0.00 0.00 0.00 4.61
2315 5996 3.821033 GGCAGGGTCACATATATTTCCAC 59.179 47.826 0.00 0.00 0.00 4.02
2340 6021 2.685388 AGATCGACGATGACACTGATGT 59.315 45.455 16.49 0.00 43.71 3.06
2342 6023 5.000591 AGATAGATCGACGATGACACTGAT 58.999 41.667 16.49 1.47 0.00 2.90
2344 6025 4.665394 CGAGATAGATCGACGATGACACTG 60.665 50.000 16.49 0.00 45.56 3.66
2345 6026 3.430556 CGAGATAGATCGACGATGACACT 59.569 47.826 16.49 8.49 45.56 3.55
2367 6048 3.898123 TCTCCATAACTGCCATAGGAGAC 59.102 47.826 4.95 0.00 44.79 3.36
2379 6060 1.496060 TCCACCGCATCTCCATAACT 58.504 50.000 0.00 0.00 0.00 2.24
2380 6061 2.417719 GATCCACCGCATCTCCATAAC 58.582 52.381 0.00 0.00 0.00 1.89
2382 6063 0.603065 CGATCCACCGCATCTCCATA 59.397 55.000 0.00 0.00 0.00 2.74
2383 6064 1.368950 CGATCCACCGCATCTCCAT 59.631 57.895 0.00 0.00 0.00 3.41
2384 6065 2.814604 CGATCCACCGCATCTCCA 59.185 61.111 0.00 0.00 0.00 3.86
2402 6088 2.885644 CTCCATCCGCGTCAACCG 60.886 66.667 4.92 0.00 40.40 4.44
2431 6117 8.413229 ACACTAACTAAACTAAACGAACACCTA 58.587 33.333 0.00 0.00 0.00 3.08
2432 6118 7.267857 ACACTAACTAAACTAAACGAACACCT 58.732 34.615 0.00 0.00 0.00 4.00
2434 6120 9.202545 CAAACACTAACTAAACTAAACGAACAC 57.797 33.333 0.00 0.00 0.00 3.32
2435 6121 8.934825 ACAAACACTAACTAAACTAAACGAACA 58.065 29.630 0.00 0.00 0.00 3.18
2438 6124 9.030301 GGTACAAACACTAACTAAACTAAACGA 57.970 33.333 0.00 0.00 0.00 3.85
2439 6125 8.816144 TGGTACAAACACTAACTAAACTAAACG 58.184 33.333 0.00 0.00 31.92 3.60
2470 6156 1.760613 CGCCACCACCTATCCTTCTTA 59.239 52.381 0.00 0.00 0.00 2.10
2472 6158 1.338136 CCGCCACCACCTATCCTTCT 61.338 60.000 0.00 0.00 0.00 2.85
2486 6172 1.519246 CATCTTCAGAGAGCCGCCA 59.481 57.895 0.00 0.00 34.85 5.69
2487 6173 1.227497 CCATCTTCAGAGAGCCGCC 60.227 63.158 0.00 0.00 34.85 6.13
2489 6175 2.906691 ATTCCATCTTCAGAGAGCCG 57.093 50.000 0.00 0.00 34.85 5.52
2506 6192 7.124448 ACGGAGTTAGGTGAGAAGAATCTTATT 59.876 37.037 0.00 0.00 37.78 1.40
2511 6197 4.722361 ACGGAGTTAGGTGAGAAGAATC 57.278 45.455 0.00 0.00 37.78 2.52
2540 6226 2.263077 CTCCAATGACGCTAGACACAC 58.737 52.381 0.00 0.00 0.00 3.82
2543 6229 0.175760 GCCTCCAATGACGCTAGACA 59.824 55.000 0.00 0.00 0.00 3.41
2551 6237 1.003839 TCCACACGCCTCCAATGAC 60.004 57.895 0.00 0.00 0.00 3.06
2558 6244 2.357517 CACACCTCCACACGCCTC 60.358 66.667 0.00 0.00 0.00 4.70
2587 6274 4.759782 ACCGAATCTCACGAGATCATTTT 58.240 39.130 9.92 0.00 46.75 1.82
2588 6275 4.363999 GACCGAATCTCACGAGATCATTT 58.636 43.478 9.92 0.00 46.75 2.32
2589 6276 3.549019 CGACCGAATCTCACGAGATCATT 60.549 47.826 9.92 0.00 46.75 2.57
2590 6277 2.031595 CGACCGAATCTCACGAGATCAT 60.032 50.000 9.92 0.00 46.75 2.45
2591 6278 1.330829 CGACCGAATCTCACGAGATCA 59.669 52.381 9.92 0.00 46.75 2.92
2592 6279 1.334239 CCGACCGAATCTCACGAGATC 60.334 57.143 9.92 3.85 46.75 2.75
2594 6281 0.675837 ACCGACCGAATCTCACGAGA 60.676 55.000 0.00 0.00 42.37 4.04
2595 6282 0.523546 CACCGACCGAATCTCACGAG 60.524 60.000 0.00 0.00 0.00 4.18
2596 6283 1.239296 ACACCGACCGAATCTCACGA 61.239 55.000 0.00 0.00 0.00 4.35
2597 6284 0.388134 AACACCGACCGAATCTCACG 60.388 55.000 0.00 0.00 0.00 4.35
2598 6285 1.459592 CAAACACCGACCGAATCTCAC 59.540 52.381 0.00 0.00 0.00 3.51
2607 6294 3.200483 ACACTAAAGACAAACACCGACC 58.800 45.455 0.00 0.00 0.00 4.79
2639 6326 1.156736 ACGAAAACCGGCATCAAGAG 58.843 50.000 0.00 0.00 43.93 2.85
2640 6327 1.533731 GAACGAAAACCGGCATCAAGA 59.466 47.619 0.00 0.00 43.93 3.02
2645 6332 0.601841 AGACGAACGAAAACCGGCAT 60.602 50.000 0.00 0.00 43.93 4.40
2648 6335 2.056094 AGTAGACGAACGAAAACCGG 57.944 50.000 0.00 0.00 43.93 5.28
2653 6340 5.045215 ACACATGAAAGTAGACGAACGAAA 58.955 37.500 0.00 0.00 0.00 3.46
2669 6356 4.042062 AGGATCCAACTTGAAGACACATGA 59.958 41.667 15.82 0.00 0.00 3.07
2671 6358 4.647564 AGGATCCAACTTGAAGACACAT 57.352 40.909 15.82 0.00 0.00 3.21
2677 6364 7.412853 CAATATCGAAAGGATCCAACTTGAAG 58.587 38.462 15.82 0.00 36.55 3.02
2680 6367 5.297776 AGCAATATCGAAAGGATCCAACTTG 59.702 40.000 15.82 6.92 36.55 3.16
2723 6410 3.938963 ACCAGTGCACCAGAATAATAACG 59.061 43.478 14.63 0.00 0.00 3.18
2743 6430 3.251972 GTGTGCTACGACCCTATAGTACC 59.748 52.174 0.00 0.00 34.26 3.34
2757 6444 2.546195 ATCGAGAAGTCGTGTGCTAC 57.454 50.000 0.00 0.00 46.85 3.58
2763 6450 3.827625 AGAAGACAATCGAGAAGTCGTG 58.172 45.455 7.59 0.00 46.85 4.35
2765 6452 4.971008 TGTAGAAGACAATCGAGAAGTCG 58.029 43.478 8.45 0.00 40.63 4.18
2786 6473 2.364970 TGGAGTTGGGCAAATCTTGTTG 59.635 45.455 0.00 0.00 35.88 3.33
2788 6475 2.380064 TGGAGTTGGGCAAATCTTGT 57.620 45.000 0.00 0.00 35.88 3.16
2793 6480 2.502538 CCATCATTGGAGTTGGGCAAAT 59.497 45.455 0.00 0.00 46.92 2.32
2813 6500 3.391049 GCAATACCGTCATAACCTCTCC 58.609 50.000 0.00 0.00 0.00 3.71
2814 6501 3.050619 CGCAATACCGTCATAACCTCTC 58.949 50.000 0.00 0.00 0.00 3.20
2817 6504 2.973694 ACGCAATACCGTCATAACCT 57.026 45.000 0.00 0.00 36.61 3.50


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

AutoCloner maintained by Alex Coulton.