Multiple sequence alignment - TraesCS5D01G303900

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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 TraesCS5D01G303900 chr5D 100.000 4502 0 0 1 4502 399221966 399217465 0.000000e+00 8314.0
1 TraesCS5D01G303900 chr5A 96.712 3589 105 7 918 4498 504867323 504863740 0.000000e+00 5962.0
2 TraesCS5D01G303900 chr5A 85.377 636 68 18 171 799 504868014 504867397 1.770000e-178 636.0
3 TraesCS5D01G303900 chr5A 94.253 87 5 0 49 135 504868353 504868267 2.830000e-27 134.0
4 TraesCS5D01G303900 chr5B 97.213 3229 88 2 918 4144 479629689 479626461 0.000000e+00 5463.0
5 TraesCS5D01G303900 chr5B 84.722 648 74 17 158 799 479630390 479629762 3.820000e-175 625.0
6 TraesCS5D01G303900 chr5B 93.443 61 4 0 75 135 479630443 479630383 1.720000e-14 91.6
7 TraesCS5D01G303900 chr3D 90.769 455 29 8 2917 3367 480417187 480417632 3.000000e-166 595.0
8 TraesCS5D01G303900 chr3D 90.864 405 35 2 3763 4167 543810589 543810991 3.960000e-150 542.0
9 TraesCS5D01G303900 chr3D 79.921 254 26 9 3678 3929 480417660 480417890 3.600000e-36 163.0
10 TraesCS5D01G303900 chr3B 87.633 469 33 11 2912 3377 640973160 640973606 5.160000e-144 521.0
11 TraesCS5D01G303900 chr3B 81.044 364 41 12 3842 4201 640973786 640974125 9.600000e-67 265.0
12 TraesCS5D01G303900 chr3A 87.215 438 29 16 2912 3346 623529803 623530216 1.470000e-129 473.0
13 TraesCS5D01G303900 chr3A 81.250 560 63 22 3653 4201 623530317 623530845 9.010000e-112 414.0


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 TraesCS5D01G303900 chr5D 399217465 399221966 4501 True 8314.000000 8314 100.000000 1 4502 1 chr5D.!!$R1 4501
1 TraesCS5D01G303900 chr5A 504863740 504868353 4613 True 2244.000000 5962 92.114000 49 4498 3 chr5A.!!$R1 4449
2 TraesCS5D01G303900 chr5B 479626461 479630443 3982 True 2059.866667 5463 91.792667 75 4144 3 chr5B.!!$R1 4069
3 TraesCS5D01G303900 chr3D 480417187 480417890 703 False 379.000000 595 85.345000 2917 3929 2 chr3D.!!$F2 1012
4 TraesCS5D01G303900 chr3B 640973160 640974125 965 False 393.000000 521 84.338500 2912 4201 2 chr3B.!!$F1 1289
5 TraesCS5D01G303900 chr3A 623529803 623530845 1042 False 443.500000 473 84.232500 2912 4201 2 chr3A.!!$F1 1289

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
944 1208 0.582005 GACGCCGCAGTCCATTTATC 59.418 55.000 4.6 0.0 35.22 1.75 F
945 1209 1.151777 ACGCCGCAGTCCATTTATCG 61.152 55.000 0.0 0.0 0.00 2.92 F
2042 2306 1.679139 TGTGGAGCACAGGAAAACAG 58.321 50.000 0.0 0.0 39.62 3.16 F
2730 2994 1.209504 GCCTGTAGCCATGTTGGTCTA 59.790 52.381 0.0 0.0 40.46 2.59 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1825 2089 0.392193 AGTTGCTGCCCGAATCTGAG 60.392 55.0 0.0 0.0 0.00 3.35 R
2118 2382 1.035139 CAGAAAGGTTTGCACAGGCT 58.965 50.0 0.0 0.0 41.91 4.58 R
3487 3789 0.115349 ACAGCTCACCAGTACTCCCT 59.885 55.0 0.0 0.0 0.00 4.20 R
4270 4591 0.108615 ACTGCGAAGGATGGAACGAG 60.109 55.0 0.0 0.0 0.00 4.18 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
30 31 8.973835 TTGTAATTGAACGTTTCTTGAAAGTT 57.026 26.923 0.46 4.00 41.62 2.66
31 32 8.973835 TGTAATTGAACGTTTCTTGAAAGTTT 57.026 26.923 0.46 0.00 39.53 2.66
32 33 9.413048 TGTAATTGAACGTTTCTTGAAAGTTTT 57.587 25.926 0.46 0.21 39.53 2.43
37 38 8.835467 TGAACGTTTCTTGAAAGTTTTATCTG 57.165 30.769 0.46 0.00 39.53 2.90
38 39 8.455682 TGAACGTTTCTTGAAAGTTTTATCTGT 58.544 29.630 0.46 0.00 39.53 3.41
39 40 8.836959 AACGTTTCTTGAAAGTTTTATCTGTC 57.163 30.769 0.00 0.00 36.72 3.51
40 41 7.415229 ACGTTTCTTGAAAGTTTTATCTGTCC 58.585 34.615 0.00 0.00 0.00 4.02
41 42 7.066525 ACGTTTCTTGAAAGTTTTATCTGTCCA 59.933 33.333 0.00 0.00 0.00 4.02
42 43 7.587757 CGTTTCTTGAAAGTTTTATCTGTCCAG 59.412 37.037 0.00 0.00 0.00 3.86
43 44 8.621286 GTTTCTTGAAAGTTTTATCTGTCCAGA 58.379 33.333 0.00 0.00 42.37 3.86
44 45 8.746052 TTCTTGAAAGTTTTATCTGTCCAGAA 57.254 30.769 0.37 0.00 41.36 3.02
45 46 8.924511 TCTTGAAAGTTTTATCTGTCCAGAAT 57.075 30.769 0.37 0.00 41.36 2.40
64 65 6.201044 CCAGAATAATGAGTCGGTGATGTTAC 59.799 42.308 0.00 0.00 0.00 2.50
65 66 6.980978 CAGAATAATGAGTCGGTGATGTTACT 59.019 38.462 0.00 0.00 0.00 2.24
113 114 2.025037 TGGGCCAAGTTGCATAGATTCT 60.025 45.455 2.13 0.00 0.00 2.40
124 125 3.564225 TGCATAGATTCTGCTCATGCTTG 59.436 43.478 16.27 0.00 41.94 4.01
125 126 3.564644 GCATAGATTCTGCTCATGCTTGT 59.435 43.478 10.55 0.00 39.09 3.16
126 127 4.753610 GCATAGATTCTGCTCATGCTTGTA 59.246 41.667 10.55 0.00 39.09 2.41
127 128 5.237996 GCATAGATTCTGCTCATGCTTGTAA 59.762 40.000 10.55 0.00 39.09 2.41
128 129 6.238566 GCATAGATTCTGCTCATGCTTGTAAA 60.239 38.462 10.55 0.00 39.09 2.01
129 130 7.680350 GCATAGATTCTGCTCATGCTTGTAAAA 60.680 37.037 10.55 0.00 39.09 1.52
130 131 5.947443 AGATTCTGCTCATGCTTGTAAAAC 58.053 37.500 0.00 0.00 40.48 2.43
131 132 5.474532 AGATTCTGCTCATGCTTGTAAAACA 59.525 36.000 0.00 0.00 40.48 2.83
132 133 5.512753 TTCTGCTCATGCTTGTAAAACAA 57.487 34.783 0.00 0.00 40.48 2.83
254 502 9.204570 TCAAGAGTACAAGAATTAACAAGTAGC 57.795 33.333 0.00 0.00 0.00 3.58
288 536 2.668550 GGACGGTGAGTTGTGGGC 60.669 66.667 0.00 0.00 0.00 5.36
310 558 6.462067 GGGCAGGAAAGAAATAAATCATCCAG 60.462 42.308 0.00 0.00 32.79 3.86
351 599 9.883142 AAATAAAATTGTGGACTGTGAAGAAAA 57.117 25.926 0.00 0.00 0.00 2.29
355 603 9.696917 AAAATTGTGGACTGTGAAGAAAATATC 57.303 29.630 0.00 0.00 0.00 1.63
356 604 6.817765 TTGTGGACTGTGAAGAAAATATCC 57.182 37.500 0.00 0.00 0.00 2.59
357 605 5.253330 TGTGGACTGTGAAGAAAATATCCC 58.747 41.667 0.00 0.00 0.00 3.85
358 606 4.640647 GTGGACTGTGAAGAAAATATCCCC 59.359 45.833 0.00 0.00 0.00 4.81
359 607 4.290985 TGGACTGTGAAGAAAATATCCCCA 59.709 41.667 0.00 0.00 0.00 4.96
360 608 4.884164 GGACTGTGAAGAAAATATCCCCAG 59.116 45.833 0.00 0.00 0.00 4.45
361 609 5.501156 GACTGTGAAGAAAATATCCCCAGT 58.499 41.667 0.00 0.00 33.65 4.00
362 610 5.256474 ACTGTGAAGAAAATATCCCCAGTG 58.744 41.667 0.00 0.00 30.09 3.66
363 611 4.599041 TGTGAAGAAAATATCCCCAGTGG 58.401 43.478 0.63 0.63 0.00 4.00
364 612 3.381590 GTGAAGAAAATATCCCCAGTGGC 59.618 47.826 2.61 0.00 0.00 5.01
401 649 3.190874 TGTGGGTTGCGAAATGAAAAAC 58.809 40.909 0.00 0.00 0.00 2.43
405 653 2.483889 GGTTGCGAAATGAAAAACCCCA 60.484 45.455 0.00 0.00 35.31 4.96
408 656 2.432510 TGCGAAATGAAAAACCCCAGTT 59.567 40.909 0.00 0.00 38.03 3.16
409 657 2.799978 GCGAAATGAAAAACCCCAGTTG 59.200 45.455 0.00 0.00 35.97 3.16
438 687 0.609131 AAGGGAATTGTGGACTGCGG 60.609 55.000 0.00 0.00 0.00 5.69
483 732 7.236640 ACATAAATAAAGGGAATTGTGGGTTGT 59.763 33.333 0.00 0.00 0.00 3.32
498 748 3.181474 TGGGTTGTGAAACGAAAAATCCC 60.181 43.478 0.00 0.00 42.39 3.85
499 749 3.069016 GGGTTGTGAAACGAAAAATCCCT 59.931 43.478 0.00 0.00 42.39 4.20
500 750 4.278919 GGGTTGTGAAACGAAAAATCCCTA 59.721 41.667 0.00 0.00 42.39 3.53
502 752 6.452242 GGTTGTGAAACGAAAAATCCCTATT 58.548 36.000 0.00 0.00 42.39 1.73
503 753 6.926826 GGTTGTGAAACGAAAAATCCCTATTT 59.073 34.615 0.00 0.00 42.39 1.40
504 754 7.095816 GGTTGTGAAACGAAAAATCCCTATTTG 60.096 37.037 0.00 0.00 42.39 2.32
505 755 5.923684 TGTGAAACGAAAAATCCCTATTTGC 59.076 36.000 0.00 0.00 42.39 3.68
507 757 6.422400 GTGAAACGAAAAATCCCTATTTGCAA 59.578 34.615 0.00 0.00 35.46 4.08
508 758 6.422400 TGAAACGAAAAATCCCTATTTGCAAC 59.578 34.615 0.00 0.00 35.46 4.17
509 759 5.461032 ACGAAAAATCCCTATTTGCAACA 57.539 34.783 0.00 0.00 35.46 3.33
512 762 5.572896 CGAAAAATCCCTATTTGCAACAGAC 59.427 40.000 0.00 0.00 35.46 3.51
536 786 4.510711 TGTAGTATGCGAAACGAAAAACCA 59.489 37.500 0.00 0.00 0.00 3.67
541 791 2.223294 TGCGAAACGAAAAACCACGATT 60.223 40.909 0.00 0.00 0.00 3.34
575 825 7.748691 AAAAGGAATTTTGGTCCATGAAATG 57.251 32.000 2.85 0.00 46.21 2.32
595 847 8.474025 TGAAATGAAAAGTAAACAATGTCCACT 58.526 29.630 0.00 0.00 0.00 4.00
605 857 3.159353 CAATGTCCACTCATTGGCATG 57.841 47.619 10.40 0.00 46.47 4.06
616 869 7.039152 TCCACTCATTGGCATGAATAAAAAGAA 60.039 33.333 0.00 0.00 46.47 2.52
617 870 7.603404 CCACTCATTGGCATGAATAAAAAGAAA 59.397 33.333 0.00 0.00 39.04 2.52
620 873 8.537049 TCATTGGCATGAATAAAAAGAAACTG 57.463 30.769 0.00 0.00 36.41 3.16
648 901 7.648039 TGCGGTATAAATAAAAGGGATTGTT 57.352 32.000 0.00 0.00 0.00 2.83
650 903 7.122948 TGCGGTATAAATAAAAGGGATTGTTGT 59.877 33.333 0.00 0.00 0.00 3.32
664 917 4.564769 GGATTGTTGTCTGCGAAACAAAAA 59.435 37.500 5.20 6.86 46.22 1.94
665 918 4.894798 TTGTTGTCTGCGAAACAAAAAC 57.105 36.364 0.00 0.00 41.88 2.43
703 956 2.959707 TCGGTTGGCATAAACAAAAGGT 59.040 40.909 0.00 0.00 0.00 3.50
716 969 5.986501 AACAAAAGGTTTGTACTGTGGAA 57.013 34.783 6.78 0.00 35.82 3.53
717 970 5.319140 ACAAAAGGTTTGTACTGTGGAAC 57.681 39.130 4.59 0.00 37.35 3.62
736 990 8.339714 TGTGGAACGAGAAAATAAGTAAACAAG 58.660 33.333 0.00 0.00 42.39 3.16
737 991 7.801783 GTGGAACGAGAAAATAAGTAAACAAGG 59.198 37.037 0.00 0.00 0.00 3.61
738 992 7.499895 TGGAACGAGAAAATAAGTAAACAAGGT 59.500 33.333 0.00 0.00 0.00 3.50
799 1054 7.441890 TTCGTTTAAAGGCTGAATTATGTCA 57.558 32.000 2.98 0.00 0.00 3.58
800 1055 6.837992 TCGTTTAAAGGCTGAATTATGTCAC 58.162 36.000 2.98 0.00 0.00 3.67
802 1057 6.128007 CGTTTAAAGGCTGAATTATGTCACCT 60.128 38.462 0.00 0.00 33.28 4.00
803 1058 7.251281 GTTTAAAGGCTGAATTATGTCACCTC 58.749 38.462 0.00 0.00 31.74 3.85
804 1059 3.185246 AGGCTGAATTATGTCACCTCG 57.815 47.619 0.00 0.00 28.75 4.63
821 1085 2.024022 GTTTGCAACGCACGAGCA 59.976 55.556 0.00 9.96 38.71 4.26
827 1091 1.999051 CAACGCACGAGCATACTCC 59.001 57.895 5.50 0.00 40.03 3.85
840 1104 7.707035 CACGAGCATACTCCTATCTAAAGTTTT 59.293 37.037 0.00 0.00 40.03 2.43
841 1105 7.707035 ACGAGCATACTCCTATCTAAAGTTTTG 59.293 37.037 0.00 0.00 40.03 2.44
842 1106 7.169982 CGAGCATACTCCTATCTAAAGTTTTGG 59.830 40.741 0.00 0.00 40.03 3.28
843 1107 7.283329 AGCATACTCCTATCTAAAGTTTTGGG 58.717 38.462 0.00 0.00 0.00 4.12
844 1108 6.486993 GCATACTCCTATCTAAAGTTTTGGGG 59.513 42.308 0.00 0.00 0.00 4.96
845 1109 7.574607 CATACTCCTATCTAAAGTTTTGGGGT 58.425 38.462 0.00 0.00 0.00 4.95
846 1110 6.063496 ACTCCTATCTAAAGTTTTGGGGTC 57.937 41.667 0.00 0.00 0.00 4.46
847 1111 5.093849 TCCTATCTAAAGTTTTGGGGTCG 57.906 43.478 0.00 0.00 0.00 4.79
848 1112 4.533311 TCCTATCTAAAGTTTTGGGGTCGT 59.467 41.667 0.00 0.00 0.00 4.34
849 1113 5.013391 TCCTATCTAAAGTTTTGGGGTCGTT 59.987 40.000 0.00 0.00 0.00 3.85
850 1114 5.708697 CCTATCTAAAGTTTTGGGGTCGTTT 59.291 40.000 0.00 0.00 0.00 3.60
851 1115 5.700722 ATCTAAAGTTTTGGGGTCGTTTC 57.299 39.130 0.00 0.00 0.00 2.78
852 1116 4.784177 TCTAAAGTTTTGGGGTCGTTTCT 58.216 39.130 0.00 0.00 0.00 2.52
853 1117 4.818005 TCTAAAGTTTTGGGGTCGTTTCTC 59.182 41.667 0.00 0.00 0.00 2.87
854 1118 2.721425 AGTTTTGGGGTCGTTTCTCA 57.279 45.000 0.00 0.00 0.00 3.27
855 1119 3.223674 AGTTTTGGGGTCGTTTCTCAT 57.776 42.857 0.00 0.00 0.00 2.90
856 1120 3.146847 AGTTTTGGGGTCGTTTCTCATC 58.853 45.455 0.00 0.00 0.00 2.92
857 1121 2.882137 GTTTTGGGGTCGTTTCTCATCA 59.118 45.455 0.00 0.00 0.00 3.07
858 1122 2.940994 TTGGGGTCGTTTCTCATCAA 57.059 45.000 0.00 0.00 0.00 2.57
859 1123 2.940994 TGGGGTCGTTTCTCATCAAA 57.059 45.000 0.00 0.00 0.00 2.69
860 1124 3.216187 TGGGGTCGTTTCTCATCAAAA 57.784 42.857 0.00 0.00 0.00 2.44
861 1125 3.556999 TGGGGTCGTTTCTCATCAAAAA 58.443 40.909 0.00 0.00 0.00 1.94
862 1126 3.568007 TGGGGTCGTTTCTCATCAAAAAG 59.432 43.478 0.00 0.00 0.00 2.27
863 1127 3.568430 GGGGTCGTTTCTCATCAAAAAGT 59.432 43.478 0.00 0.00 0.00 2.66
864 1128 4.758165 GGGGTCGTTTCTCATCAAAAAGTA 59.242 41.667 0.00 0.00 0.00 2.24
865 1129 5.239963 GGGGTCGTTTCTCATCAAAAAGTAA 59.760 40.000 0.00 0.00 0.00 2.24
866 1130 6.238814 GGGGTCGTTTCTCATCAAAAAGTAAA 60.239 38.462 0.00 0.00 0.00 2.01
867 1131 7.197703 GGGTCGTTTCTCATCAAAAAGTAAAA 58.802 34.615 0.00 0.00 0.00 1.52
868 1132 7.703197 GGGTCGTTTCTCATCAAAAAGTAAAAA 59.297 33.333 0.00 0.00 0.00 1.94
942 1206 1.807981 CGACGCCGCAGTCCATTTA 60.808 57.895 8.95 0.00 37.85 1.40
944 1208 0.582005 GACGCCGCAGTCCATTTATC 59.418 55.000 4.60 0.00 35.22 1.75
945 1209 1.151777 ACGCCGCAGTCCATTTATCG 61.152 55.000 0.00 0.00 0.00 2.92
1087 1351 2.646175 CCACCGTCGTCACCTCCAT 61.646 63.158 0.00 0.00 0.00 3.41
1098 1362 1.995626 ACCTCCATTCCAGACCCCG 60.996 63.158 0.00 0.00 0.00 5.73
1129 1393 1.700739 TCAACCCACGGATACCAAACT 59.299 47.619 0.00 0.00 0.00 2.66
1151 1415 2.431942 GGCGCTCTCGTCCGAAAA 60.432 61.111 7.64 0.00 38.14 2.29
1284 1548 2.281484 GCCTTGGTCGCCAACTCA 60.281 61.111 7.15 0.00 38.75 3.41
1737 2001 3.741476 GCAGGCAAGGCGGTTGAG 61.741 66.667 1.74 0.00 38.60 3.02
1773 2037 3.009473 TGCTAGAAGATGGTTTTGAGCCT 59.991 43.478 0.00 0.00 0.00 4.58
1915 2179 2.436173 TGTGGACTTGTGGACATGTACA 59.564 45.455 6.68 6.68 40.99 2.90
1983 2247 3.761218 TCAAACGAATGCCCACACATAAT 59.239 39.130 0.00 0.00 0.00 1.28
2042 2306 1.679139 TGTGGAGCACAGGAAAACAG 58.321 50.000 0.00 0.00 39.62 3.16
2264 2528 2.122768 CATGGAGGAGGCTAGAAAGGT 58.877 52.381 0.00 0.00 0.00 3.50
2499 2763 9.905713 TTTGAGTCTGATAAAGGTATAAGCAAT 57.094 29.630 0.00 0.00 0.00 3.56
2730 2994 1.209504 GCCTGTAGCCATGTTGGTCTA 59.790 52.381 0.00 0.00 40.46 2.59
2748 3012 5.012148 TGGTCTAGTGAAAGAAGGAAAGGAG 59.988 44.000 0.00 0.00 0.00 3.69
2856 3120 2.376518 TCTTGTTCAAGAAGCCCTGGAT 59.623 45.455 12.08 0.00 0.00 3.41
2958 3222 4.095410 TGAGATTGGTAAAATTGCAGCG 57.905 40.909 0.00 0.00 0.00 5.18
3571 3873 3.122297 CCTAGAGATTTCTTGCTCAGCG 58.878 50.000 0.00 0.00 34.79 5.18
3674 3980 9.291664 GATGTTGTTTCTGTATAGTCAGTCTAC 57.708 37.037 0.00 0.00 36.85 2.59
3746 4052 7.533426 ACTAGCAGCATGTTTCTTATCTTTTG 58.467 34.615 0.00 0.00 39.31 2.44
3783 4090 0.249398 TTCCGGAAGTCCTTAGCTGC 59.751 55.000 14.35 0.00 0.00 5.25
3868 4175 1.786441 TCCACCCAGGAAGGAACAAAT 59.214 47.619 0.00 0.00 45.65 2.32
3872 4179 3.005791 CACCCAGGAAGGAACAAATTGAC 59.994 47.826 0.00 0.00 41.22 3.18
3882 4189 7.177744 GGAAGGAACAAATTGACCCATTTAGTA 59.822 37.037 0.00 0.00 0.00 1.82
3920 4227 5.149973 TGTTTACATGGAAAATGCTGCAT 57.850 34.783 9.81 9.81 0.00 3.96
4168 4487 8.662781 TGTACAAGCTAATTCTTCATATCACC 57.337 34.615 0.00 0.00 0.00 4.02
4218 4539 5.062809 GTGAGAGTCAAAATAGCTGCACTAC 59.937 44.000 1.02 0.00 32.32 2.73
4219 4540 4.508662 AGAGTCAAAATAGCTGCACTACC 58.491 43.478 1.02 0.00 32.32 3.18
4235 4556 3.885297 CACTACCTAATCAAATGCCCAGG 59.115 47.826 0.00 0.00 0.00 4.45
4262 4583 4.134563 AGTGCACGAGAAAAGTAAACCAT 58.865 39.130 12.01 0.00 0.00 3.55
4270 4591 7.797123 CACGAGAAAAGTAAACCATAACTTGTC 59.203 37.037 0.00 0.00 39.34 3.18
4273 4594 8.084590 AGAAAAGTAAACCATAACTTGTCTCG 57.915 34.615 2.72 0.00 43.67 4.04
4303 4624 1.228245 GCAGTTCTGGTGGAAGCCA 60.228 57.895 1.97 0.00 34.23 4.75
4317 4638 2.226330 GAAGCCACACACCATGTAACA 58.774 47.619 0.00 0.00 40.64 2.41
4338 4659 4.081198 ACACTGAAGTCTTGGATCTCCATC 60.081 45.833 0.00 0.00 46.97 3.51
4357 4678 3.627395 TCAATTCGTCCCTGCTGTATT 57.373 42.857 0.00 0.00 0.00 1.89
4428 4749 7.284261 CACTGAGATTATACTCCTTCTGACTGA 59.716 40.741 0.00 0.00 36.22 3.41
4433 4754 8.912988 AGATTATACTCCTTCTGACTGAAAGAG 58.087 37.037 15.45 15.45 44.64 2.85
4444 4765 6.763355 TCTGACTGAAAGAGAATAAAGCAGT 58.237 36.000 0.00 0.00 37.78 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 9.581099 AACTTTCAAGAAACGTTCAATTACAAT 57.419 25.926 0.00 0.00 0.00 2.71
5 6 8.973835 AACTTTCAAGAAACGTTCAATTACAA 57.026 26.923 0.00 0.00 0.00 2.41
6 7 8.973835 AAACTTTCAAGAAACGTTCAATTACA 57.026 26.923 0.00 0.00 0.00 2.41
11 12 9.284594 CAGATAAAACTTTCAAGAAACGTTCAA 57.715 29.630 0.00 0.00 0.00 2.69
12 13 8.455682 ACAGATAAAACTTTCAAGAAACGTTCA 58.544 29.630 0.00 4.31 0.00 3.18
13 14 8.836959 ACAGATAAAACTTTCAAGAAACGTTC 57.163 30.769 0.00 0.00 0.00 3.95
14 15 7.913821 GGACAGATAAAACTTTCAAGAAACGTT 59.086 33.333 0.00 0.00 0.00 3.99
15 16 7.066525 TGGACAGATAAAACTTTCAAGAAACGT 59.933 33.333 0.00 0.00 0.00 3.99
16 17 7.414436 TGGACAGATAAAACTTTCAAGAAACG 58.586 34.615 0.00 0.00 0.00 3.60
17 18 8.621286 TCTGGACAGATAAAACTTTCAAGAAAC 58.379 33.333 0.00 0.00 27.77 2.78
18 19 8.746052 TCTGGACAGATAAAACTTTCAAGAAA 57.254 30.769 0.00 0.00 27.77 2.52
19 20 8.746052 TTCTGGACAGATAAAACTTTCAAGAA 57.254 30.769 2.42 0.00 35.55 2.52
20 21 8.924511 ATTCTGGACAGATAAAACTTTCAAGA 57.075 30.769 2.42 0.00 37.29 3.02
26 27 9.965902 ACTCATTATTCTGGACAGATAAAACTT 57.034 29.630 2.42 0.00 37.29 2.66
27 28 9.606631 GACTCATTATTCTGGACAGATAAAACT 57.393 33.333 2.42 0.00 37.29 2.66
28 29 8.543774 CGACTCATTATTCTGGACAGATAAAAC 58.456 37.037 2.42 0.00 37.29 2.43
29 30 7.710907 CCGACTCATTATTCTGGACAGATAAAA 59.289 37.037 2.42 0.00 37.29 1.52
30 31 7.147724 ACCGACTCATTATTCTGGACAGATAAA 60.148 37.037 2.42 1.61 37.29 1.40
31 32 6.323996 ACCGACTCATTATTCTGGACAGATAA 59.676 38.462 2.42 5.11 37.29 1.75
32 33 5.833667 ACCGACTCATTATTCTGGACAGATA 59.166 40.000 2.42 0.00 37.29 1.98
33 34 4.651503 ACCGACTCATTATTCTGGACAGAT 59.348 41.667 2.42 0.00 37.29 2.90
34 35 4.023980 ACCGACTCATTATTCTGGACAGA 58.976 43.478 0.00 0.00 35.27 3.41
35 36 4.115516 CACCGACTCATTATTCTGGACAG 58.884 47.826 0.00 0.00 0.00 3.51
36 37 3.767131 TCACCGACTCATTATTCTGGACA 59.233 43.478 0.00 0.00 0.00 4.02
37 38 4.386867 TCACCGACTCATTATTCTGGAC 57.613 45.455 0.00 0.00 0.00 4.02
38 39 4.405680 ACATCACCGACTCATTATTCTGGA 59.594 41.667 0.00 0.00 0.00 3.86
39 40 4.697514 ACATCACCGACTCATTATTCTGG 58.302 43.478 0.00 0.00 0.00 3.86
40 41 6.980978 AGTAACATCACCGACTCATTATTCTG 59.019 38.462 0.00 0.00 0.00 3.02
41 42 6.980978 CAGTAACATCACCGACTCATTATTCT 59.019 38.462 0.00 0.00 0.00 2.40
42 43 6.201044 CCAGTAACATCACCGACTCATTATTC 59.799 42.308 0.00 0.00 0.00 1.75
43 44 6.049149 CCAGTAACATCACCGACTCATTATT 58.951 40.000 0.00 0.00 0.00 1.40
44 45 5.453339 CCCAGTAACATCACCGACTCATTAT 60.453 44.000 0.00 0.00 0.00 1.28
45 46 4.142026 CCCAGTAACATCACCGACTCATTA 60.142 45.833 0.00 0.00 0.00 1.90
46 47 3.369471 CCCAGTAACATCACCGACTCATT 60.369 47.826 0.00 0.00 0.00 2.57
47 48 2.168521 CCCAGTAACATCACCGACTCAT 59.831 50.000 0.00 0.00 0.00 2.90
140 141 7.778470 ACTTGTTTCATATTTTGCGGAAAAA 57.222 28.000 18.91 8.86 41.88 1.94
141 142 7.778470 AACTTGTTTCATATTTTGCGGAAAA 57.222 28.000 17.38 17.38 35.52 2.29
142 143 7.278868 ACAAACTTGTTTCATATTTTGCGGAAA 59.721 29.630 0.00 0.00 38.47 3.13
143 144 6.758886 ACAAACTTGTTTCATATTTTGCGGAA 59.241 30.769 0.00 0.00 38.47 4.30
144 145 6.276847 ACAAACTTGTTTCATATTTTGCGGA 58.723 32.000 0.00 0.00 38.47 5.54
145 146 6.523676 ACAAACTTGTTTCATATTTTGCGG 57.476 33.333 0.00 0.00 38.47 5.69
230 478 8.376270 AGGCTACTTGTTAATTCTTGTACTCTT 58.624 33.333 0.00 0.00 0.00 2.85
231 479 7.819900 CAGGCTACTTGTTAATTCTTGTACTCT 59.180 37.037 0.00 0.00 0.00 3.24
237 485 7.672983 TTCTCAGGCTACTTGTTAATTCTTG 57.327 36.000 0.00 0.00 0.00 3.02
238 486 8.103305 TGATTCTCAGGCTACTTGTTAATTCTT 58.897 33.333 0.00 0.00 0.00 2.52
254 502 4.122776 CCGTCCATTAGTTGATTCTCAGG 58.877 47.826 0.00 0.00 0.00 3.86
274 522 2.669569 CCTGCCCACAACTCACCG 60.670 66.667 0.00 0.00 0.00 4.94
288 536 7.977853 CCAACTGGATGATTTATTTCTTTCCTG 59.022 37.037 0.00 0.00 37.39 3.86
340 588 4.641989 CCACTGGGGATATTTTCTTCACAG 59.358 45.833 0.00 0.00 40.01 3.66
343 591 3.011144 TGCCACTGGGGATATTTTCTTCA 59.989 43.478 0.00 0.00 40.01 3.02
347 595 5.362430 TGTTTATGCCACTGGGGATATTTTC 59.638 40.000 0.00 0.00 45.60 2.29
351 599 4.534647 TTGTTTATGCCACTGGGGATAT 57.465 40.909 0.00 0.00 45.60 1.63
352 600 4.323569 TTTGTTTATGCCACTGGGGATA 57.676 40.909 0.00 0.00 44.42 2.59
354 602 2.685106 TTTGTTTATGCCACTGGGGA 57.315 45.000 0.00 0.00 40.01 4.81
355 603 2.028203 CCTTTTGTTTATGCCACTGGGG 60.028 50.000 0.00 0.00 40.85 4.96
356 604 2.028203 CCCTTTTGTTTATGCCACTGGG 60.028 50.000 0.00 0.00 37.18 4.45
357 605 2.896685 TCCCTTTTGTTTATGCCACTGG 59.103 45.455 0.00 0.00 0.00 4.00
358 606 4.806640 ATCCCTTTTGTTTATGCCACTG 57.193 40.909 0.00 0.00 0.00 3.66
359 607 4.592778 ACAATCCCTTTTGTTTATGCCACT 59.407 37.500 0.00 0.00 36.43 4.00
360 608 4.690280 CACAATCCCTTTTGTTTATGCCAC 59.310 41.667 0.00 0.00 37.73 5.01
361 609 4.262808 CCACAATCCCTTTTGTTTATGCCA 60.263 41.667 0.00 0.00 37.73 4.92
362 610 4.252878 CCACAATCCCTTTTGTTTATGCC 58.747 43.478 0.00 0.00 37.73 4.40
363 611 4.252878 CCCACAATCCCTTTTGTTTATGC 58.747 43.478 0.00 0.00 37.73 3.14
364 612 5.482163 ACCCACAATCCCTTTTGTTTATG 57.518 39.130 0.00 0.00 37.73 1.90
401 649 3.387699 CCCTTTATTTATGCCAACTGGGG 59.612 47.826 0.00 0.00 37.04 4.96
405 653 7.330262 CACAATTCCCTTTATTTATGCCAACT 58.670 34.615 0.00 0.00 0.00 3.16
408 656 5.960811 TCCACAATTCCCTTTATTTATGCCA 59.039 36.000 0.00 0.00 0.00 4.92
409 657 6.098266 AGTCCACAATTCCCTTTATTTATGCC 59.902 38.462 0.00 0.00 0.00 4.40
438 687 2.798283 TGTCAACCGAGACATTTCGTTC 59.202 45.455 0.00 0.00 43.18 3.95
447 696 6.110707 TCCCTTTATTTATGTCAACCGAGAC 58.889 40.000 0.00 0.00 38.99 3.36
452 701 7.763985 CCACAATTCCCTTTATTTATGTCAACC 59.236 37.037 0.00 0.00 0.00 3.77
467 716 2.698274 GTTTCACAACCCACAATTCCCT 59.302 45.455 0.00 0.00 0.00 4.20
483 732 6.090483 TGCAAATAGGGATTTTTCGTTTCA 57.910 33.333 0.00 0.00 32.73 2.69
498 748 6.508563 CGCATACTACAGTCTGTTGCAAATAG 60.509 42.308 21.43 10.49 36.26 1.73
499 749 5.290885 CGCATACTACAGTCTGTTGCAAATA 59.709 40.000 21.43 6.58 0.00 1.40
500 750 4.093408 CGCATACTACAGTCTGTTGCAAAT 59.907 41.667 21.43 9.00 0.00 2.32
502 752 2.993220 CGCATACTACAGTCTGTTGCAA 59.007 45.455 21.43 0.00 0.00 4.08
503 753 2.230266 TCGCATACTACAGTCTGTTGCA 59.770 45.455 21.43 8.59 0.00 4.08
504 754 2.876091 TCGCATACTACAGTCTGTTGC 58.124 47.619 11.54 13.48 0.00 4.17
505 755 4.201494 CGTTTCGCATACTACAGTCTGTTG 60.201 45.833 11.54 11.91 0.00 3.33
507 757 3.189910 TCGTTTCGCATACTACAGTCTGT 59.810 43.478 10.99 10.99 0.00 3.41
508 758 3.754955 TCGTTTCGCATACTACAGTCTG 58.245 45.455 0.00 0.00 0.00 3.51
509 759 4.430137 TTCGTTTCGCATACTACAGTCT 57.570 40.909 0.00 0.00 0.00 3.24
512 762 5.077424 GGTTTTTCGTTTCGCATACTACAG 58.923 41.667 0.00 0.00 0.00 2.74
554 804 6.684897 TTCATTTCATGGACCAAAATTCCT 57.315 33.333 0.00 0.00 33.84 3.36
557 807 9.844257 TTACTTTTCATTTCATGGACCAAAATT 57.156 25.926 0.00 0.00 0.00 1.82
574 824 7.581213 ATGAGTGGACATTGTTTACTTTTCA 57.419 32.000 7.90 3.99 0.00 2.69
575 825 8.285776 CAATGAGTGGACATTGTTTACTTTTC 57.714 34.615 11.64 0.00 46.64 2.29
592 844 8.437742 GTTTCTTTTTATTCATGCCAATGAGTG 58.562 33.333 0.00 0.00 43.64 3.51
593 845 8.370182 AGTTTCTTTTTATTCATGCCAATGAGT 58.630 29.630 0.00 0.00 43.64 3.41
595 847 8.149647 ACAGTTTCTTTTTATTCATGCCAATGA 58.850 29.630 0.00 0.00 41.16 2.57
605 857 5.746721 ACCGCAACACAGTTTCTTTTTATTC 59.253 36.000 0.00 0.00 0.00 1.75
616 869 7.309920 CCTTTTATTTATACCGCAACACAGTT 58.690 34.615 0.00 0.00 0.00 3.16
617 870 6.127842 CCCTTTTATTTATACCGCAACACAGT 60.128 38.462 0.00 0.00 0.00 3.55
620 873 6.439675 TCCCTTTTATTTATACCGCAACAC 57.560 37.500 0.00 0.00 0.00 3.32
648 901 7.763172 ATTTATTGTTTTTGTTTCGCAGACA 57.237 28.000 0.00 0.00 34.32 3.41
664 917 8.784043 GCCAACCGAGATATCTTTATTTATTGT 58.216 33.333 6.70 0.00 0.00 2.71
665 918 8.783093 TGCCAACCGAGATATCTTTATTTATTG 58.217 33.333 6.70 5.51 0.00 1.90
676 929 6.371809 TTTGTTTATGCCAACCGAGATATC 57.628 37.500 0.00 0.00 0.00 1.63
679 932 4.082245 CCTTTTGTTTATGCCAACCGAGAT 60.082 41.667 0.00 0.00 0.00 2.75
683 936 3.378911 ACCTTTTGTTTATGCCAACCG 57.621 42.857 0.00 0.00 0.00 4.44
703 956 7.496591 ACTTATTTTCTCGTTCCACAGTACAAA 59.503 33.333 0.00 0.00 0.00 2.83
708 961 7.496591 TGTTTACTTATTTTCTCGTTCCACAGT 59.503 33.333 0.00 0.00 0.00 3.55
716 969 7.255346 CCCAACCTTGTTTACTTATTTTCTCGT 60.255 37.037 0.00 0.00 0.00 4.18
717 970 7.081976 CCCAACCTTGTTTACTTATTTTCTCG 58.918 38.462 0.00 0.00 0.00 4.04
736 990 2.102252 TGCTGAAATTGTTCACCCAACC 59.898 45.455 0.00 0.00 38.88 3.77
737 991 3.451141 TGCTGAAATTGTTCACCCAAC 57.549 42.857 0.00 0.00 38.88 3.77
738 992 4.686191 AATGCTGAAATTGTTCACCCAA 57.314 36.364 0.00 0.00 38.88 4.12
804 1059 0.110419 TATGCTCGTGCGTTGCAAAC 60.110 50.000 9.76 0.00 41.47 2.93
813 1077 4.768130 TTAGATAGGAGTATGCTCGTGC 57.232 45.455 15.20 1.71 42.53 5.34
815 1079 6.963083 AACTTTAGATAGGAGTATGCTCGT 57.037 37.500 10.85 10.85 42.53 4.18
816 1080 7.169982 CCAAAACTTTAGATAGGAGTATGCTCG 59.830 40.741 4.63 0.00 42.53 5.03
818 1082 7.283329 CCCAAAACTTTAGATAGGAGTATGCT 58.717 38.462 0.00 0.00 42.36 3.79
819 1083 6.486993 CCCCAAAACTTTAGATAGGAGTATGC 59.513 42.308 0.00 0.00 0.00 3.14
820 1084 7.574607 ACCCCAAAACTTTAGATAGGAGTATG 58.425 38.462 0.00 0.00 0.00 2.39
821 1085 7.418712 CGACCCCAAAACTTTAGATAGGAGTAT 60.419 40.741 0.00 0.00 0.00 2.12
827 1091 6.653740 AGAAACGACCCCAAAACTTTAGATAG 59.346 38.462 0.00 0.00 0.00 2.08
840 1104 2.940994 TTTGATGAGAAACGACCCCA 57.059 45.000 0.00 0.00 0.00 4.96
841 1105 3.568430 ACTTTTTGATGAGAAACGACCCC 59.432 43.478 0.00 0.00 0.00 4.95
842 1106 4.830826 ACTTTTTGATGAGAAACGACCC 57.169 40.909 0.00 0.00 0.00 4.46
843 1107 8.623310 TTTTTACTTTTTGATGAGAAACGACC 57.377 30.769 0.00 0.00 0.00 4.79
865 1129 5.908831 AGGACCCCCAAAACTTTAGATTTTT 59.091 36.000 0.00 0.00 33.88 1.94
866 1130 5.473273 AGGACCCCCAAAACTTTAGATTTT 58.527 37.500 0.00 0.00 33.88 1.82
867 1131 5.087923 AGGACCCCCAAAACTTTAGATTT 57.912 39.130 0.00 0.00 33.88 2.17
868 1132 4.759793 AGGACCCCCAAAACTTTAGATT 57.240 40.909 0.00 0.00 33.88 2.40
869 1133 4.759793 AAGGACCCCCAAAACTTTAGAT 57.240 40.909 0.00 0.00 33.88 1.98
870 1134 4.219919 CAAAGGACCCCCAAAACTTTAGA 58.780 43.478 0.00 0.00 33.88 2.10
871 1135 3.323691 CCAAAGGACCCCCAAAACTTTAG 59.676 47.826 0.00 0.00 33.88 1.85
872 1136 3.310193 CCAAAGGACCCCCAAAACTTTA 58.690 45.455 0.00 0.00 33.88 1.85
873 1137 2.123589 CCAAAGGACCCCCAAAACTTT 58.876 47.619 0.00 0.00 33.88 2.66
874 1138 1.694370 CCCAAAGGACCCCCAAAACTT 60.694 52.381 0.00 0.00 33.47 2.66
875 1139 0.105194 CCCAAAGGACCCCCAAAACT 60.105 55.000 0.00 0.00 33.47 2.66
876 1140 0.105401 TCCCAAAGGACCCCCAAAAC 60.105 55.000 0.00 0.00 37.19 2.43
877 1141 2.344113 TCCCAAAGGACCCCCAAAA 58.656 52.632 0.00 0.00 37.19 2.44
878 1142 4.125590 TCCCAAAGGACCCCCAAA 57.874 55.556 0.00 0.00 37.19 3.28
908 1172 1.644780 CGTCGCGTCTTTCTCTTCTTC 59.355 52.381 5.77 0.00 0.00 2.87
909 1173 1.687628 CGTCGCGTCTTTCTCTTCTT 58.312 50.000 5.77 0.00 0.00 2.52
910 1174 0.729816 GCGTCGCGTCTTTCTCTTCT 60.730 55.000 5.77 0.00 0.00 2.85
911 1175 1.675524 GGCGTCGCGTCTTTCTCTTC 61.676 60.000 11.75 0.00 0.00 2.87
912 1176 1.733399 GGCGTCGCGTCTTTCTCTT 60.733 57.895 11.75 0.00 0.00 2.85
913 1177 2.126424 GGCGTCGCGTCTTTCTCT 60.126 61.111 11.75 0.00 0.00 3.10
914 1178 3.533691 CGGCGTCGCGTCTTTCTC 61.534 66.667 11.75 0.00 0.00 2.87
997 1261 2.123251 GGAGGGAGAGGGCATCGA 60.123 66.667 0.00 0.00 0.00 3.59
1078 1342 0.914417 GGGGTCTGGAATGGAGGTGA 60.914 60.000 0.00 0.00 0.00 4.02
1087 1351 4.467084 GCGATGCGGGGTCTGGAA 62.467 66.667 0.00 0.00 0.00 3.53
1098 1362 1.971167 TGGGTTGAAGTGGCGATGC 60.971 57.895 0.00 0.00 0.00 3.91
1129 1393 4.742201 GGACGAGAGCGCCTGCAA 62.742 66.667 2.29 0.00 46.23 4.08
1284 1548 2.623418 TGGAGTACATGGTGAGGAGT 57.377 50.000 0.00 0.00 0.00 3.85
1532 1796 2.050442 CAAAACCAAGGACCGCGC 60.050 61.111 0.00 0.00 0.00 6.86
1545 1809 0.106918 ACCCCGTCTTGAGCACAAAA 60.107 50.000 0.00 0.00 35.49 2.44
1737 2001 6.683974 TCTTCTAGCATGCCAAGAAATAAC 57.316 37.500 25.06 0.00 0.00 1.89
1773 2037 1.136891 CTGCTCATGGTGTATCCGTCA 59.863 52.381 0.00 0.00 39.52 4.35
1825 2089 0.392193 AGTTGCTGCCCGAATCTGAG 60.392 55.000 0.00 0.00 0.00 3.35
1915 2179 4.815846 GGACTGTTCCATTTGCAATTTTGT 59.184 37.500 0.00 0.00 42.30 2.83
1983 2247 1.348696 AGTGCTGTCCATGACATGACA 59.651 47.619 17.24 16.10 41.94 3.58
2042 2306 1.929836 CGCAGAGGAGTTCTATTGCAC 59.070 52.381 7.87 0.00 36.52 4.57
2118 2382 1.035139 CAGAAAGGTTTGCACAGGCT 58.965 50.000 0.00 0.00 41.91 4.58
2366 2630 3.575351 AAGGTGCTGACTCCGACGC 62.575 63.158 0.00 0.00 34.50 5.19
2730 2994 6.099845 TGAAGTACTCCTTTCCTTCTTTCACT 59.900 38.462 0.00 0.00 35.47 3.41
2748 3012 5.423015 TCCTTCTGCATTGATCTGAAGTAC 58.577 41.667 8.32 0.00 37.62 2.73
2803 3067 3.349927 CAAGAAGATCCACCATGCAAGA 58.650 45.455 0.00 0.00 0.00 3.02
2958 3222 5.101628 GGCTCGAGATCTATGACATGATTC 58.898 45.833 18.75 0.00 0.00 2.52
3126 3401 2.037772 ACCAGCTCTGAACTCGTGAATT 59.962 45.455 0.00 0.00 0.00 2.17
3487 3789 0.115349 ACAGCTCACCAGTACTCCCT 59.885 55.000 0.00 0.00 0.00 4.20
3550 3852 3.122297 CGCTGAGCAAGAAATCTCTAGG 58.878 50.000 4.88 0.00 0.00 3.02
3557 3859 1.589716 GGCCACGCTGAGCAAGAAAT 61.590 55.000 4.88 0.00 0.00 2.17
3571 3873 2.900716 TTTACCAGCAAAAAGGCCAC 57.099 45.000 5.01 0.00 0.00 5.01
3702 4008 7.584108 TGCTAGTCAAGTTTGTATTGTTCATG 58.416 34.615 0.00 0.00 0.00 3.07
3832 4139 4.399934 TGGGTGGAAAACAACTAAGTTCAC 59.600 41.667 0.00 0.00 36.85 3.18
3868 4175 5.496556 CTGGATGTGTACTAAATGGGTCAA 58.503 41.667 0.00 0.00 0.00 3.18
3872 4179 4.771114 TCCTGGATGTGTACTAAATGGG 57.229 45.455 0.00 0.00 0.00 4.00
3882 4189 5.136828 TGTAAACATTGTTCCTGGATGTGT 58.863 37.500 1.83 0.00 34.47 3.72
3920 4227 1.079490 ACCCAAGGAGAGTCCATGAGA 59.921 52.381 0.00 0.00 37.42 3.27
4218 4539 1.684983 CAGCCTGGGCATTTGATTAGG 59.315 52.381 14.39 0.00 44.88 2.69
4219 4540 2.658285 TCAGCCTGGGCATTTGATTAG 58.342 47.619 14.39 0.00 44.88 1.73
4235 4556 1.599542 ACTTTTCTCGTGCACTTCAGC 59.400 47.619 16.19 0.00 0.00 4.26
4262 4583 4.617530 CGAAGGATGGAACGAGACAAGTTA 60.618 45.833 0.00 0.00 31.14 2.24
4270 4591 0.108615 ACTGCGAAGGATGGAACGAG 60.109 55.000 0.00 0.00 0.00 4.18
4273 4594 1.734465 CAGAACTGCGAAGGATGGAAC 59.266 52.381 0.00 0.00 0.00 3.62
4303 4624 4.127171 GACTTCAGTGTTACATGGTGTGT 58.873 43.478 0.00 0.00 44.95 3.72
4338 4659 4.701956 AAAATACAGCAGGGACGAATTG 57.298 40.909 0.00 0.00 0.00 2.32
4384 4705 4.036734 TCAGTGAGCTAAGTTTGCCTTTTG 59.963 41.667 5.65 1.30 34.46 2.44
4385 4706 4.207165 TCAGTGAGCTAAGTTTGCCTTTT 58.793 39.130 5.65 0.00 34.46 2.27
4386 4707 3.817647 CTCAGTGAGCTAAGTTTGCCTTT 59.182 43.478 7.33 0.00 34.46 3.11
4387 4708 3.071602 TCTCAGTGAGCTAAGTTTGCCTT 59.928 43.478 15.72 0.00 37.17 4.35
4428 4749 6.767902 TGACTTCACACTGCTTTATTCTCTTT 59.232 34.615 0.00 0.00 0.00 2.52
4456 4777 3.247006 TCTTCTTCGTGGTAAGGATGC 57.753 47.619 0.00 0.00 0.00 3.91


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

AutoCloner maintained by Alex Coulton.