Multiple sequence alignment - TraesCS4A01G031600

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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 TraesCS4A01G031600 chr4A 100.000 4828 0 0 615 5442 24753423 24758250 0.000000e+00 8916.0
1 TraesCS4A01G031600 chr4A 100.000 71 0 0 1 71 24752809 24752879 1.230000e-26 132.0
2 TraesCS4A01G031600 chr4D 95.394 4386 95 22 644 4984 442908241 442903918 0.000000e+00 6881.0
3 TraesCS4A01G031600 chr4D 91.781 292 17 4 5149 5440 442903924 442903640 3.050000e-107 399.0
4 TraesCS4A01G031600 chr4D 98.182 55 1 0 1 55 442908838 442908784 4.490000e-16 97.1
5 TraesCS4A01G031600 chr4B 94.003 4119 154 46 902 4983 552033363 552029301 0.000000e+00 6152.0
6 TraesCS4A01G031600 chr4B 87.973 291 21 4 5150 5440 552029309 552029033 1.130000e-86 331.0
7 TraesCS4A01G031600 chr4B 89.552 268 10 4 615 865 552033631 552033365 1.890000e-84 324.0
8 TraesCS4A01G031600 chr4B 97.183 71 1 1 1 71 552033964 552033895 9.580000e-23 119.0
9 TraesCS4A01G031600 chr5A 94.146 615 34 2 3329 3942 268042021 268041408 0.000000e+00 935.0
10 TraesCS4A01G031600 chr5A 94.475 181 5 5 4978 5158 596484168 596483993 1.930000e-69 274.0
11 TraesCS4A01G031600 chr3D 94.146 615 34 2 3329 3942 546264217 546263604 0.000000e+00 935.0
12 TraesCS4A01G031600 chr1A 93.821 615 36 2 3329 3942 536684244 536684857 0.000000e+00 924.0
13 TraesCS4A01G031600 chr6B 93.821 615 35 3 3329 3942 48058367 48058979 0.000000e+00 922.0
14 TraesCS4A01G031600 chr6B 93.659 615 36 3 3329 3942 48066619 48067231 0.000000e+00 917.0
15 TraesCS4A01G031600 chr6A 93.659 615 37 2 3329 3942 545336288 545335675 0.000000e+00 918.0
16 TraesCS4A01G031600 chr2B 93.496 615 38 2 3329 3942 576572009 576572622 0.000000e+00 913.0
17 TraesCS4A01G031600 chr2B 96.591 176 4 1 4980 5155 154503545 154503718 1.920000e-74 291.0
18 TraesCS4A01G031600 chr2B 97.605 167 2 1 4982 5148 772813452 772813616 8.920000e-73 285.0
19 TraesCS4A01G031600 chrUn 96.089 179 4 2 4978 5156 36800863 36801038 6.900000e-74 289.0
20 TraesCS4A01G031600 chrUn 94.972 179 6 2 4978 5156 36763664 36763839 1.490000e-70 278.0
21 TraesCS4A01G031600 chr7A 96.512 172 4 1 4982 5153 486649175 486649344 3.210000e-72 283.0
22 TraesCS4A01G031600 chr3B 95.954 173 5 1 4983 5155 548082604 548082434 4.150000e-71 279.0
23 TraesCS4A01G031600 chr3B 94.944 178 7 1 4971 5148 703118529 703118704 1.490000e-70 278.0
24 TraesCS4A01G031600 chr2A 94.944 178 7 1 4975 5152 478761350 478761525 1.490000e-70 278.0


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 TraesCS4A01G031600 chr4A 24752809 24758250 5441 False 4524.000000 8916 100.00000 1 5442 2 chr4A.!!$F1 5441
1 TraesCS4A01G031600 chr4D 442903640 442908838 5198 True 2459.033333 6881 95.11900 1 5440 3 chr4D.!!$R1 5439
2 TraesCS4A01G031600 chr4B 552029033 552033964 4931 True 1731.500000 6152 92.17775 1 5440 4 chr4B.!!$R1 5439
3 TraesCS4A01G031600 chr5A 268041408 268042021 613 True 935.000000 935 94.14600 3329 3942 1 chr5A.!!$R1 613
4 TraesCS4A01G031600 chr3D 546263604 546264217 613 True 935.000000 935 94.14600 3329 3942 1 chr3D.!!$R1 613
5 TraesCS4A01G031600 chr1A 536684244 536684857 613 False 924.000000 924 93.82100 3329 3942 1 chr1A.!!$F1 613
6 TraesCS4A01G031600 chr6B 48058367 48058979 612 False 922.000000 922 93.82100 3329 3942 1 chr6B.!!$F1 613
7 TraesCS4A01G031600 chr6B 48066619 48067231 612 False 917.000000 917 93.65900 3329 3942 1 chr6B.!!$F2 613
8 TraesCS4A01G031600 chr6A 545335675 545336288 613 True 918.000000 918 93.65900 3329 3942 1 chr6A.!!$R1 613
9 TraesCS4A01G031600 chr2B 576572009 576572622 613 False 913.000000 913 93.49600 3329 3942 1 chr2B.!!$F2 613

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
662 663 0.390492 ACTTGCTGCCTTTGCTTTCC 59.610 50.0 0.0 0.0 38.71 3.13 F
1050 1076 0.326264 AAGATGGAACCGAGCTTGCT 59.674 50.0 0.0 0.0 0.00 3.91 F
2021 2062 0.471211 TTATCAGCCTCCTACCCCGG 60.471 60.0 0.0 0.0 0.00 5.73 F
2805 2849 1.228657 GCAACAGGAGACCAACGACC 61.229 60.0 0.0 0.0 0.00 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1737 1775 1.140589 TGGCAAACAAACAGCACGG 59.859 52.632 0.00 0.00 0.00 4.94 R
2516 2557 1.301401 GTGTGGTGCCTTAGCGTGA 60.301 57.895 0.00 0.00 44.31 4.35 R
3942 3989 4.532126 TCATAGAAGGCAAAGTCTTCCAGA 59.468 41.667 7.67 1.78 44.36 3.86 R
4447 4503 0.559205 TAGCTGGGAGGATCGGGTAA 59.441 55.000 0.00 0.00 34.37 2.85 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
662 663 0.390492 ACTTGCTGCCTTTGCTTTCC 59.610 50.000 0.00 0.00 38.71 3.13
674 675 3.430333 TTGCTTTCCGACAAGGTTTTC 57.570 42.857 0.00 0.00 41.99 2.29
686 687 3.007074 ACAAGGTTTTCGTGGTTGGTTTT 59.993 39.130 0.00 0.00 0.00 2.43
835 853 0.736325 ATTCGTACGCTGGCTGTGAC 60.736 55.000 11.24 4.99 0.00 3.67
910 929 4.479619 CTGTTTGCTTGGTGAGATTTAGC 58.520 43.478 0.00 0.00 0.00 3.09
991 1011 1.135460 GCAAAGAAGCCACAGATCTGC 60.135 52.381 22.83 9.07 0.00 4.26
1050 1076 0.326264 AAGATGGAACCGAGCTTGCT 59.674 50.000 0.00 0.00 0.00 3.91
1107 1133 5.772825 TCCTTGTTCTTCTCCAATTTGTG 57.227 39.130 0.00 0.00 0.00 3.33
1108 1134 4.037923 TCCTTGTTCTTCTCCAATTTGTGC 59.962 41.667 0.00 0.00 0.00 4.57
1109 1135 4.202141 CCTTGTTCTTCTCCAATTTGTGCA 60.202 41.667 0.00 0.00 0.00 4.57
1110 1136 4.998671 TGTTCTTCTCCAATTTGTGCAA 57.001 36.364 0.00 0.00 0.00 4.08
1138 1164 0.610232 ATGGCTTTGCTCCAGGTGAC 60.610 55.000 0.00 0.00 36.98 3.67
1153 1179 5.189539 TCCAGGTGACATGTGATTCTGATAA 59.810 40.000 1.15 0.00 0.00 1.75
1154 1180 6.060136 CCAGGTGACATGTGATTCTGATAAT 58.940 40.000 1.15 0.00 0.00 1.28
1257 1283 2.094906 GCCGGTGGTTCAAGATTTTACC 60.095 50.000 1.90 0.00 0.00 2.85
1318 1344 3.140225 GAGGGACCGGCGATCTGTC 62.140 68.421 9.30 7.01 0.00 3.51
1361 1389 5.238583 TGCTTCTTTTCAGCCTACTTACTC 58.761 41.667 0.00 0.00 36.33 2.59
1369 1397 2.099263 CAGCCTACTTACTCGCAAGCTA 59.901 50.000 0.00 0.00 37.18 3.32
1370 1398 2.758979 AGCCTACTTACTCGCAAGCTAA 59.241 45.455 0.00 0.00 37.18 3.09
1371 1399 2.858941 GCCTACTTACTCGCAAGCTAAC 59.141 50.000 0.00 0.00 37.18 2.34
1515 1543 7.566760 TCTTTTAGCTTTCATGTCTTGTTGA 57.433 32.000 0.00 0.00 0.00 3.18
1602 1633 3.891977 TGTCTACTGGAGCTATCATGTCC 59.108 47.826 0.00 0.00 0.00 4.02
1737 1775 9.921637 TCCCAATTGTTATTCAAAAGTATTGTC 57.078 29.630 4.43 0.00 39.62 3.18
1760 1798 2.857748 GTGCTGTTTGTTTGCCACTAAC 59.142 45.455 4.25 4.25 40.42 2.34
1801 1842 9.107177 AGAATGTCAACATCTTGTATCTCATTC 57.893 33.333 0.00 0.00 38.22 2.67
1808 1849 7.606858 ACATCTTGTATCTCATTCTGTTGTG 57.393 36.000 0.00 0.00 0.00 3.33
1849 1890 5.946377 ACTTCCAAGGACATCAGAATTAACC 59.054 40.000 0.00 0.00 0.00 2.85
2021 2062 0.471211 TTATCAGCCTCCTACCCCGG 60.471 60.000 0.00 0.00 0.00 5.73
2032 2073 1.483827 CCTACCCCGGTTTCTTCTACC 59.516 57.143 0.00 0.00 0.00 3.18
2121 2162 3.730362 GCCAAAACAACCACAAATGTTGC 60.730 43.478 3.23 0.00 45.42 4.17
2516 2557 1.913778 TGCTCATGCATGTTTCCTGT 58.086 45.000 25.43 0.00 45.31 4.00
2530 2571 1.741770 CCTGTCACGCTAAGGCACC 60.742 63.158 0.00 0.00 38.60 5.01
2704 2748 4.318974 GCACATTTGATTGTTTTGACCTGC 60.319 41.667 0.00 0.00 0.00 4.85
2805 2849 1.228657 GCAACAGGAGACCAACGACC 61.229 60.000 0.00 0.00 0.00 4.79
3493 3537 1.402456 CGGTAAGGACGTTCTCCACAG 60.402 57.143 0.00 0.00 42.46 3.66
3545 3590 7.181569 TGATTTCCTTGGGTTAATTGAATCC 57.818 36.000 0.00 0.00 39.03 3.01
3751 3796 1.896660 GAACAACGAGGGCAAGCCA 60.897 57.895 13.87 0.00 37.98 4.75
4067 4114 3.941483 CGTCATTTCTCATTACTGCCCTT 59.059 43.478 0.00 0.00 0.00 3.95
4267 4314 1.576421 GAAGCCAAAGTCGCCTGTG 59.424 57.895 0.00 0.00 0.00 3.66
4402 4458 0.038159 CGACCGAGAAGAAGCCTGTT 60.038 55.000 0.00 0.00 0.00 3.16
4429 4485 2.741092 GGTGCTGTCAAGACCGGA 59.259 61.111 9.46 0.00 0.00 5.14
4447 4503 1.539929 GGAGTAGCTGCTTGATCGCAT 60.540 52.381 7.79 0.00 39.52 4.73
4517 4573 4.457496 CAGGCGAGACATGCGGGT 62.457 66.667 0.00 0.00 0.00 5.28
4534 4591 2.170607 CGGGTTCCAAGGTACTGATCAT 59.829 50.000 0.00 0.00 40.86 2.45
4614 4674 2.156504 TCTTCTTCTGTCGTCGTCGTAC 59.843 50.000 1.33 0.38 38.33 3.67
4685 4748 2.160822 ATCATCGGAATCGCCAGAAG 57.839 50.000 0.00 0.00 35.94 2.85
4700 4763 4.388469 CGCCAGAAGAAGAGAAAAGAGAAG 59.612 45.833 0.00 0.00 0.00 2.85
4743 4806 4.569180 CCAGGCCGCCATACCCAG 62.569 72.222 13.15 0.00 0.00 4.45
4744 4807 3.797353 CAGGCCGCCATACCCAGT 61.797 66.667 13.15 0.00 0.00 4.00
4745 4808 3.797353 AGGCCGCCATACCCAGTG 61.797 66.667 13.15 0.00 0.00 3.66
4746 4809 4.875713 GGCCGCCATACCCAGTGG 62.876 72.222 3.91 0.63 39.80 4.00
4803 4866 2.227149 GGTCGGTATTTGGTGGTGTTTC 59.773 50.000 0.00 0.00 0.00 2.78
4833 4896 2.800544 ACTATGTGTTTGTGTCGAGTGC 59.199 45.455 0.00 0.00 0.00 4.40
4988 5061 7.581213 CACTAGATGGATGATAGATACTCCC 57.419 44.000 0.00 0.00 0.00 4.30
4989 5062 7.353525 CACTAGATGGATGATAGATACTCCCT 58.646 42.308 0.00 0.00 0.00 4.20
4990 5063 7.502226 CACTAGATGGATGATAGATACTCCCTC 59.498 44.444 0.00 0.00 0.00 4.30
4991 5064 6.672946 AGATGGATGATAGATACTCCCTCT 57.327 41.667 0.00 0.00 30.68 3.69
4992 5065 6.434302 AGATGGATGATAGATACTCCCTCTG 58.566 44.000 0.00 0.00 33.27 3.35
4993 5066 5.607168 TGGATGATAGATACTCCCTCTGT 57.393 43.478 0.00 0.00 0.00 3.41
4994 5067 5.970289 TGGATGATAGATACTCCCTCTGTT 58.030 41.667 0.00 0.00 0.00 3.16
4995 5068 6.013379 TGGATGATAGATACTCCCTCTGTTC 58.987 44.000 0.00 0.00 0.00 3.18
4996 5069 5.420739 GGATGATAGATACTCCCTCTGTTCC 59.579 48.000 0.00 0.00 0.00 3.62
4997 5070 5.671463 TGATAGATACTCCCTCTGTTCCT 57.329 43.478 0.00 0.00 0.00 3.36
4998 5071 6.781857 TGATAGATACTCCCTCTGTTCCTA 57.218 41.667 0.00 0.00 0.00 2.94
4999 5072 7.162973 TGATAGATACTCCCTCTGTTCCTAA 57.837 40.000 0.00 0.00 0.00 2.69
5000 5073 7.592736 TGATAGATACTCCCTCTGTTCCTAAA 58.407 38.462 0.00 0.00 0.00 1.85
5001 5074 8.235230 TGATAGATACTCCCTCTGTTCCTAAAT 58.765 37.037 0.00 0.00 0.00 1.40
5002 5075 9.756571 GATAGATACTCCCTCTGTTCCTAAATA 57.243 37.037 0.00 0.00 0.00 1.40
5003 5076 7.842887 AGATACTCCCTCTGTTCCTAAATAC 57.157 40.000 0.00 0.00 0.00 1.89
5004 5077 7.597327 AGATACTCCCTCTGTTCCTAAATACT 58.403 38.462 0.00 0.00 0.00 2.12
5005 5078 8.068733 AGATACTCCCTCTGTTCCTAAATACTT 58.931 37.037 0.00 0.00 0.00 2.24
5006 5079 6.301169 ACTCCCTCTGTTCCTAAATACTTG 57.699 41.667 0.00 0.00 0.00 3.16
5007 5080 5.785940 ACTCCCTCTGTTCCTAAATACTTGT 59.214 40.000 0.00 0.00 0.00 3.16
5008 5081 6.070710 ACTCCCTCTGTTCCTAAATACTTGTC 60.071 42.308 0.00 0.00 0.00 3.18
5009 5082 6.023603 TCCCTCTGTTCCTAAATACTTGTCT 58.976 40.000 0.00 0.00 0.00 3.41
5010 5083 6.500751 TCCCTCTGTTCCTAAATACTTGTCTT 59.499 38.462 0.00 0.00 0.00 3.01
5011 5084 7.017254 TCCCTCTGTTCCTAAATACTTGTCTTT 59.983 37.037 0.00 0.00 0.00 2.52
5012 5085 7.334671 CCCTCTGTTCCTAAATACTTGTCTTTC 59.665 40.741 0.00 0.00 0.00 2.62
5013 5086 8.097662 CCTCTGTTCCTAAATACTTGTCTTTCT 58.902 37.037 0.00 0.00 0.00 2.52
5032 5105 8.142994 TCTTTCTAGACATTTCAACAAGTGAC 57.857 34.615 0.00 0.00 35.39 3.67
5033 5106 7.987458 TCTTTCTAGACATTTCAACAAGTGACT 59.013 33.333 0.00 0.00 35.39 3.41
5034 5107 9.261180 CTTTCTAGACATTTCAACAAGTGACTA 57.739 33.333 0.00 0.00 35.39 2.59
5035 5108 8.589335 TTCTAGACATTTCAACAAGTGACTAC 57.411 34.615 0.00 0.00 35.39 2.73
5036 5109 7.722363 TCTAGACATTTCAACAAGTGACTACA 58.278 34.615 0.00 0.00 35.39 2.74
5037 5110 8.367911 TCTAGACATTTCAACAAGTGACTACAT 58.632 33.333 0.00 0.00 35.39 2.29
5038 5111 9.639601 CTAGACATTTCAACAAGTGACTACATA 57.360 33.333 0.00 0.00 35.39 2.29
5039 5112 8.311650 AGACATTTCAACAAGTGACTACATAC 57.688 34.615 0.00 0.00 35.39 2.39
5040 5113 7.116376 AGACATTTCAACAAGTGACTACATACG 59.884 37.037 0.00 0.00 35.39 3.06
5041 5114 6.926826 ACATTTCAACAAGTGACTACATACGA 59.073 34.615 0.00 0.00 35.39 3.43
5042 5115 7.439955 ACATTTCAACAAGTGACTACATACGAA 59.560 33.333 0.00 0.00 35.39 3.85
5043 5116 7.402811 TTTCAACAAGTGACTACATACGAAG 57.597 36.000 0.00 0.00 35.39 3.79
5044 5117 4.921515 TCAACAAGTGACTACATACGAAGC 59.078 41.667 0.00 0.00 0.00 3.86
5045 5118 4.514781 ACAAGTGACTACATACGAAGCA 57.485 40.909 0.00 0.00 0.00 3.91
5046 5119 4.878439 ACAAGTGACTACATACGAAGCAA 58.122 39.130 0.00 0.00 0.00 3.91
5047 5120 5.294356 ACAAGTGACTACATACGAAGCAAA 58.706 37.500 0.00 0.00 0.00 3.68
5048 5121 5.756347 ACAAGTGACTACATACGAAGCAAAA 59.244 36.000 0.00 0.00 0.00 2.44
5049 5122 6.426937 ACAAGTGACTACATACGAAGCAAAAT 59.573 34.615 0.00 0.00 0.00 1.82
5050 5123 6.408858 AGTGACTACATACGAAGCAAAATG 57.591 37.500 0.00 0.00 0.00 2.32
5051 5124 6.163476 AGTGACTACATACGAAGCAAAATGA 58.837 36.000 0.00 0.00 0.00 2.57
5052 5125 6.311445 AGTGACTACATACGAAGCAAAATGAG 59.689 38.462 0.00 0.00 0.00 2.90
5053 5126 6.090898 GTGACTACATACGAAGCAAAATGAGT 59.909 38.462 0.00 0.00 0.00 3.41
5054 5127 6.090763 TGACTACATACGAAGCAAAATGAGTG 59.909 38.462 0.00 0.00 0.00 3.51
5055 5128 6.163476 ACTACATACGAAGCAAAATGAGTGA 58.837 36.000 0.00 0.00 0.00 3.41
5056 5129 5.940192 ACATACGAAGCAAAATGAGTGAA 57.060 34.783 0.00 0.00 0.00 3.18
5057 5130 6.500684 ACATACGAAGCAAAATGAGTGAAT 57.499 33.333 0.00 0.00 0.00 2.57
5058 5131 6.546395 ACATACGAAGCAAAATGAGTGAATC 58.454 36.000 0.00 0.00 0.00 2.52
5059 5132 6.372659 ACATACGAAGCAAAATGAGTGAATCT 59.627 34.615 0.00 0.00 0.00 2.40
5060 5133 7.549134 ACATACGAAGCAAAATGAGTGAATCTA 59.451 33.333 0.00 0.00 0.00 1.98
5061 5134 6.170675 ACGAAGCAAAATGAGTGAATCTAC 57.829 37.500 0.00 0.00 0.00 2.59
5062 5135 5.700832 ACGAAGCAAAATGAGTGAATCTACA 59.299 36.000 0.00 0.00 0.00 2.74
5063 5136 6.017933 CGAAGCAAAATGAGTGAATCTACAC 58.982 40.000 0.00 0.00 40.60 2.90
5076 5149 8.994429 AGTGAATCTACACTCTCTAAAATGTG 57.006 34.615 0.00 0.00 46.36 3.21
5077 5150 8.589338 AGTGAATCTACACTCTCTAAAATGTGT 58.411 33.333 0.00 0.00 46.36 3.72
5078 5151 8.865001 GTGAATCTACACTCTCTAAAATGTGTC 58.135 37.037 0.00 0.00 41.87 3.67
5079 5152 8.807118 TGAATCTACACTCTCTAAAATGTGTCT 58.193 33.333 0.00 0.00 41.87 3.41
5082 5155 8.631480 TCTACACTCTCTAAAATGTGTCTACA 57.369 34.615 0.00 0.00 41.87 2.74
5086 5159 8.803235 ACACTCTCTAAAATGTGTCTACATACA 58.197 33.333 0.00 0.00 46.54 2.29
5087 5160 9.809096 CACTCTCTAAAATGTGTCTACATACAT 57.191 33.333 0.00 0.00 46.54 2.29
5089 5162 9.469807 CTCTCTAAAATGTGTCTACATACATCC 57.530 37.037 0.00 0.00 46.54 3.51
5090 5163 8.135529 TCTCTAAAATGTGTCTACATACATCCG 58.864 37.037 0.00 0.00 46.54 4.18
5091 5164 7.778083 TCTAAAATGTGTCTACATACATCCGT 58.222 34.615 0.00 0.00 46.54 4.69
5092 5165 8.905850 TCTAAAATGTGTCTACATACATCCGTA 58.094 33.333 0.00 0.00 46.54 4.02
5093 5166 9.692749 CTAAAATGTGTCTACATACATCCGTAT 57.307 33.333 0.00 0.00 46.54 3.06
5108 5181 7.342769 ACATCCGTATGTAGTAGTCATTTGA 57.657 36.000 0.00 0.00 44.66 2.69
5109 5182 7.778083 ACATCCGTATGTAGTAGTCATTTGAA 58.222 34.615 0.00 0.00 44.66 2.69
5110 5183 8.255206 ACATCCGTATGTAGTAGTCATTTGAAA 58.745 33.333 0.00 0.00 44.66 2.69
5111 5184 9.261180 CATCCGTATGTAGTAGTCATTTGAAAT 57.739 33.333 0.00 0.00 0.00 2.17
5112 5185 8.642908 TCCGTATGTAGTAGTCATTTGAAATG 57.357 34.615 11.54 11.54 0.00 2.32
5113 5186 8.255206 TCCGTATGTAGTAGTCATTTGAAATGT 58.745 33.333 16.62 2.38 0.00 2.71
5114 5187 8.540492 CCGTATGTAGTAGTCATTTGAAATGTC 58.460 37.037 16.62 11.74 0.00 3.06
5115 5188 9.302345 CGTATGTAGTAGTCATTTGAAATGTCT 57.698 33.333 18.62 18.62 0.00 3.41
5139 5212 8.248945 TCTAGAAAGACAAGTATTTAGGAACGG 58.751 37.037 0.00 0.00 0.00 4.44
5140 5213 7.001099 AGAAAGACAAGTATTTAGGAACGGA 57.999 36.000 0.00 0.00 0.00 4.69
5141 5214 7.097834 AGAAAGACAAGTATTTAGGAACGGAG 58.902 38.462 0.00 0.00 0.00 4.63
5142 5215 5.340439 AGACAAGTATTTAGGAACGGAGG 57.660 43.478 0.00 0.00 0.00 4.30
5143 5216 4.161754 AGACAAGTATTTAGGAACGGAGGG 59.838 45.833 0.00 0.00 0.00 4.30
5144 5217 4.098894 ACAAGTATTTAGGAACGGAGGGA 58.901 43.478 0.00 0.00 0.00 4.20
5145 5218 4.161754 ACAAGTATTTAGGAACGGAGGGAG 59.838 45.833 0.00 0.00 0.00 4.30
5146 5219 3.991683 AGTATTTAGGAACGGAGGGAGT 58.008 45.455 0.00 0.00 0.00 3.85
5147 5220 5.134725 AGTATTTAGGAACGGAGGGAGTA 57.865 43.478 0.00 0.00 0.00 2.59
5148 5221 5.139001 AGTATTTAGGAACGGAGGGAGTAG 58.861 45.833 0.00 0.00 0.00 2.57
5179 5252 3.121030 CGAAGCTGACCGGGCAAG 61.121 66.667 13.37 6.96 0.00 4.01
5186 5259 3.373565 GACCGGGCAAGGGCAAAG 61.374 66.667 0.00 0.00 43.71 2.77
5213 5286 1.413118 AAGGTGTGGCTTCTTTTGGG 58.587 50.000 0.00 0.00 0.00 4.12
5254 5327 0.466555 CTTGTGGTTCCGTTTGGGGA 60.467 55.000 0.00 0.00 36.01 4.81
5256 5329 0.466555 TGTGGTTCCGTTTGGGGAAG 60.467 55.000 0.00 0.00 46.33 3.46
5269 5342 0.900182 GGGGAAGGAAAAGCAGTGGG 60.900 60.000 0.00 0.00 0.00 4.61
5294 5368 1.360192 GGTTGAGTGCTGTGTTGCC 59.640 57.895 0.00 0.00 0.00 4.52
5303 5377 3.612517 CTGTGTTGCCTCACTGCTA 57.387 52.632 9.21 0.00 38.90 3.49
5304 5378 2.105006 CTGTGTTGCCTCACTGCTAT 57.895 50.000 9.21 0.00 38.90 2.97
5305 5379 2.005451 CTGTGTTGCCTCACTGCTATC 58.995 52.381 9.21 0.00 38.90 2.08
5316 5390 2.840038 TCACTGCTATCCCACTTGACAT 59.160 45.455 0.00 0.00 0.00 3.06
5317 5391 2.941064 CACTGCTATCCCACTTGACATG 59.059 50.000 0.00 0.00 0.00 3.21
5318 5392 1.945394 CTGCTATCCCACTTGACATGC 59.055 52.381 0.00 0.00 0.00 4.06
5319 5393 1.561076 TGCTATCCCACTTGACATGCT 59.439 47.619 0.00 0.00 0.00 3.79
5380 5454 6.823689 GGTGAGTGGTATGTGAATAAATGTCT 59.176 38.462 0.00 0.00 0.00 3.41
5381 5455 7.011482 GGTGAGTGGTATGTGAATAAATGTCTC 59.989 40.741 0.00 0.00 0.00 3.36
5403 5477 4.579127 AGTGGGTCACTGGTTTGC 57.421 55.556 0.00 0.00 43.63 3.68
5408 5482 0.539438 GGGTCACTGGTTTGCATCCA 60.539 55.000 10.12 10.12 0.00 3.41
5410 5484 1.686052 GGTCACTGGTTTGCATCCAAA 59.314 47.619 11.40 0.00 38.56 3.28
5423 5497 2.229784 GCATCCAAAAGAGGTGTCAAGG 59.770 50.000 0.00 0.00 0.00 3.61
5426 5500 1.873591 CCAAAAGAGGTGTCAAGGTCG 59.126 52.381 0.00 0.00 0.00 4.79
5440 5514 5.154222 GTCAAGGTCGGCTTAAAAAGAATG 58.846 41.667 0.00 0.00 0.00 2.67
5441 5515 5.048991 GTCAAGGTCGGCTTAAAAAGAATGA 60.049 40.000 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
642 643 1.202568 GGAAAGCAAAGGCAGCAAGTT 60.203 47.619 0.00 0.00 44.61 2.66
662 663 1.268335 CCAACCACGAAAACCTTGTCG 60.268 52.381 0.00 0.00 42.91 4.35
674 675 2.303537 CGAATCGAAAAACCAACCACG 58.696 47.619 0.00 0.00 0.00 4.94
910 929 6.857437 AAAATAGATCCCAAACCTTGAAGG 57.143 37.500 10.24 10.24 42.49 3.46
991 1011 0.108472 TCCAGCGACATCTTCTGCAG 60.108 55.000 7.63 7.63 0.00 4.41
1031 1057 0.326264 AGCAAGCTCGGTTCCATCTT 59.674 50.000 0.00 0.00 0.00 2.40
1057 1083 6.494666 TTACTGTTCTATCCATACCTTGGG 57.505 41.667 0.00 0.00 46.45 4.12
1107 1133 1.796459 CAAAGCCATGAACTTGCTTGC 59.204 47.619 6.87 0.00 44.11 4.01
1108 1134 1.796459 GCAAAGCCATGAACTTGCTTG 59.204 47.619 14.58 6.39 44.11 4.01
1109 1135 1.690352 AGCAAAGCCATGAACTTGCTT 59.310 42.857 17.28 10.28 46.68 3.91
1110 1136 1.271656 GAGCAAAGCCATGAACTTGCT 59.728 47.619 20.90 20.90 35.59 3.91
1138 1164 7.563888 ACACCAGAATTATCAGAATCACATG 57.436 36.000 0.00 0.00 0.00 3.21
1153 1179 3.890756 TGAATCAACAGCAACACCAGAAT 59.109 39.130 0.00 0.00 0.00 2.40
1154 1180 3.286353 TGAATCAACAGCAACACCAGAA 58.714 40.909 0.00 0.00 0.00 3.02
1257 1283 3.496130 GCAGATAGAACATGTTGGGATCG 59.504 47.826 17.58 11.78 0.00 3.69
1318 1344 4.666237 GCAGCAAGCTAAATTAACAGAGG 58.334 43.478 0.00 0.00 41.15 3.69
1351 1377 4.106029 TGTTAGCTTGCGAGTAAGTAGG 57.894 45.455 2.14 0.00 0.00 3.18
1361 1389 3.236816 CCAATTCTGTTGTTAGCTTGCG 58.763 45.455 0.00 0.00 0.00 4.85
1369 1397 3.891366 CTGGAAGACCCAATTCTGTTGTT 59.109 43.478 0.00 0.00 46.07 2.83
1370 1398 3.490348 CTGGAAGACCCAATTCTGTTGT 58.510 45.455 0.00 0.00 46.07 3.32
1371 1399 2.821969 CCTGGAAGACCCAATTCTGTTG 59.178 50.000 0.00 0.00 46.07 3.33
1515 1543 5.452255 ACTCATGGTGCAAATCCAGATAAT 58.548 37.500 0.69 0.00 38.42 1.28
1737 1775 1.140589 TGGCAAACAAACAGCACGG 59.859 52.632 0.00 0.00 0.00 4.94
1801 1842 5.627499 ACACAAATATGTAGGCACAACAG 57.373 39.130 0.00 0.00 37.82 3.16
1808 1849 6.995511 TGGAAGTAACACAAATATGTAGGC 57.004 37.500 0.00 0.00 37.82 3.93
1849 1890 8.980610 TGTGAAATTCAAAGAACAATTAGCATG 58.019 29.630 0.00 0.00 0.00 4.06
2021 2062 6.534700 GCTCACCTTGAGTGGTAGAAGAAAC 61.535 48.000 5.14 0.00 45.94 2.78
2032 2073 1.575576 GCTGCTGCTCACCTTGAGTG 61.576 60.000 8.53 0.66 45.94 3.51
2121 2162 3.957497 ACTCTGAGCAGTACCATTAGGAG 59.043 47.826 4.19 0.00 38.69 3.69
2459 2500 3.405823 AATGCCTTTGACCCACAATTG 57.594 42.857 3.24 3.24 38.36 2.32
2468 2509 3.821033 AGTGACCACTAAATGCCTTTGAC 59.179 43.478 0.03 0.00 40.43 3.18
2516 2557 1.301401 GTGTGGTGCCTTAGCGTGA 60.301 57.895 0.00 0.00 44.31 4.35
2530 2571 3.657634 ACTGTCACTATGAAGCAGTGTG 58.342 45.455 2.70 0.00 43.21 3.82
2546 2590 5.683876 ATATACATCCCCATGCTACTGTC 57.316 43.478 0.00 0.00 32.57 3.51
2805 2849 1.338200 GGAGTAGCTGACCCTGTTGTG 60.338 57.143 0.00 0.00 0.00 3.33
3493 3537 5.181245 TCAACATTCCTAAAGCAGTAGCAAC 59.819 40.000 0.00 0.00 45.49 4.17
3545 3590 5.592688 TCACCTGAAAGTTTGTAAGAAAGGG 59.407 40.000 0.00 0.00 0.00 3.95
3942 3989 4.532126 TCATAGAAGGCAAAGTCTTCCAGA 59.468 41.667 7.67 1.78 44.36 3.86
4067 4114 6.110033 TGCTACAACAAGAACAGAACAGTAA 58.890 36.000 0.00 0.00 0.00 2.24
4240 4287 1.200020 GACTTTGGCTTCCCATTGACG 59.800 52.381 0.00 0.00 41.78 4.35
4267 4314 1.650314 CCCCGTTAACACCATTCGCC 61.650 60.000 6.39 0.00 0.00 5.54
4402 4458 4.539083 ACAGCACCGTTGGCGACA 62.539 61.111 5.58 0.00 41.33 4.35
4447 4503 0.559205 TAGCTGGGAGGATCGGGTAA 59.441 55.000 0.00 0.00 34.37 2.85
4517 4573 5.014123 ACCTTTGATGATCAGTACCTTGGAA 59.986 40.000 0.09 0.00 0.00 3.53
4534 4591 2.632602 TTTCCAGCCGCCACCTTTGA 62.633 55.000 0.00 0.00 0.00 2.69
4614 4674 7.814264 AAGCAAACTGAAATAGGGATGATAG 57.186 36.000 0.00 0.00 0.00 2.08
4685 4748 3.188254 GCCACAGCTTCTCTTTTCTCTTC 59.812 47.826 0.00 0.00 35.50 2.87
4700 4763 1.537202 CTACCTTTGTCTTGCCACAGC 59.463 52.381 0.00 0.00 40.48 4.40
4736 4799 4.109675 GCCACCGCCACTGGGTAT 62.110 66.667 0.00 0.00 35.58 2.73
4803 4866 6.032146 CGACACAAACACATAGTACTTACTCG 59.968 42.308 0.00 0.00 37.73 4.18
4833 4896 2.304180 ACTTTCAGATCCACTCACCCAG 59.696 50.000 0.00 0.00 0.00 4.45
4914 4978 3.914364 CAGATACGAAACCAAAGCAAAGC 59.086 43.478 0.00 0.00 0.00 3.51
4915 4979 5.356882 TCAGATACGAAACCAAAGCAAAG 57.643 39.130 0.00 0.00 0.00 2.77
4916 4980 4.215399 CCTCAGATACGAAACCAAAGCAAA 59.785 41.667 0.00 0.00 0.00 3.68
4917 4981 3.751175 CCTCAGATACGAAACCAAAGCAA 59.249 43.478 0.00 0.00 0.00 3.91
4918 4982 3.334691 CCTCAGATACGAAACCAAAGCA 58.665 45.455 0.00 0.00 0.00 3.91
4977 5050 9.536510 GTATTTAGGAACAGAGGGAGTATCTAT 57.463 37.037 0.00 0.00 33.73 1.98
4978 5051 8.734763 AGTATTTAGGAACAGAGGGAGTATCTA 58.265 37.037 0.00 0.00 33.73 1.98
4979 5052 7.597327 AGTATTTAGGAACAGAGGGAGTATCT 58.403 38.462 0.00 0.00 33.73 1.98
4980 5053 7.842887 AGTATTTAGGAACAGAGGGAGTATC 57.157 40.000 0.00 0.00 0.00 2.24
4981 5054 7.624077 ACAAGTATTTAGGAACAGAGGGAGTAT 59.376 37.037 0.00 0.00 0.00 2.12
4982 5055 6.958192 ACAAGTATTTAGGAACAGAGGGAGTA 59.042 38.462 0.00 0.00 0.00 2.59
4983 5056 5.785940 ACAAGTATTTAGGAACAGAGGGAGT 59.214 40.000 0.00 0.00 0.00 3.85
4984 5057 6.155393 AGACAAGTATTTAGGAACAGAGGGAG 59.845 42.308 0.00 0.00 0.00 4.30
4985 5058 6.023603 AGACAAGTATTTAGGAACAGAGGGA 58.976 40.000 0.00 0.00 0.00 4.20
4986 5059 6.301169 AGACAAGTATTTAGGAACAGAGGG 57.699 41.667 0.00 0.00 0.00 4.30
4987 5060 8.097662 AGAAAGACAAGTATTTAGGAACAGAGG 58.902 37.037 0.00 0.00 0.00 3.69
5006 5079 8.064814 GTCACTTGTTGAAATGTCTAGAAAGAC 58.935 37.037 0.00 0.00 43.53 3.01
5007 5080 7.987458 AGTCACTTGTTGAAATGTCTAGAAAGA 59.013 33.333 0.00 0.00 35.39 2.52
5008 5081 8.147642 AGTCACTTGTTGAAATGTCTAGAAAG 57.852 34.615 0.00 0.00 35.39 2.62
5009 5082 9.042008 GTAGTCACTTGTTGAAATGTCTAGAAA 57.958 33.333 0.00 0.00 35.39 2.52
5010 5083 8.201464 TGTAGTCACTTGTTGAAATGTCTAGAA 58.799 33.333 0.00 0.00 35.39 2.10
5011 5084 7.722363 TGTAGTCACTTGTTGAAATGTCTAGA 58.278 34.615 0.00 0.00 35.39 2.43
5012 5085 7.946655 TGTAGTCACTTGTTGAAATGTCTAG 57.053 36.000 0.00 0.00 35.39 2.43
5013 5086 9.419297 GTATGTAGTCACTTGTTGAAATGTCTA 57.581 33.333 0.00 0.00 35.39 2.59
5014 5087 7.116376 CGTATGTAGTCACTTGTTGAAATGTCT 59.884 37.037 0.00 0.00 35.39 3.41
5015 5088 7.115805 TCGTATGTAGTCACTTGTTGAAATGTC 59.884 37.037 0.00 0.00 35.39 3.06
5016 5089 6.926826 TCGTATGTAGTCACTTGTTGAAATGT 59.073 34.615 0.00 0.00 35.39 2.71
5017 5090 7.346208 TCGTATGTAGTCACTTGTTGAAATG 57.654 36.000 0.00 0.00 35.39 2.32
5018 5091 7.360101 GCTTCGTATGTAGTCACTTGTTGAAAT 60.360 37.037 0.00 0.00 35.39 2.17
5019 5092 6.073980 GCTTCGTATGTAGTCACTTGTTGAAA 60.074 38.462 0.00 0.00 35.39 2.69
5020 5093 5.404366 GCTTCGTATGTAGTCACTTGTTGAA 59.596 40.000 0.00 0.00 35.39 2.69
5021 5094 4.921515 GCTTCGTATGTAGTCACTTGTTGA 59.078 41.667 0.00 0.00 0.00 3.18
5022 5095 4.684242 TGCTTCGTATGTAGTCACTTGTTG 59.316 41.667 0.00 0.00 0.00 3.33
5023 5096 4.878439 TGCTTCGTATGTAGTCACTTGTT 58.122 39.130 0.00 0.00 0.00 2.83
5024 5097 4.514781 TGCTTCGTATGTAGTCACTTGT 57.485 40.909 0.00 0.00 0.00 3.16
5025 5098 5.839262 TTTGCTTCGTATGTAGTCACTTG 57.161 39.130 0.00 0.00 0.00 3.16
5026 5099 6.649141 TCATTTTGCTTCGTATGTAGTCACTT 59.351 34.615 0.00 0.00 0.00 3.16
5027 5100 6.163476 TCATTTTGCTTCGTATGTAGTCACT 58.837 36.000 0.00 0.00 0.00 3.41
5028 5101 6.090898 ACTCATTTTGCTTCGTATGTAGTCAC 59.909 38.462 0.00 0.00 0.00 3.67
5029 5102 6.090763 CACTCATTTTGCTTCGTATGTAGTCA 59.909 38.462 0.00 0.00 0.00 3.41
5030 5103 6.310467 TCACTCATTTTGCTTCGTATGTAGTC 59.690 38.462 0.00 0.00 0.00 2.59
5031 5104 6.163476 TCACTCATTTTGCTTCGTATGTAGT 58.837 36.000 0.00 0.00 0.00 2.73
5032 5105 6.647212 TCACTCATTTTGCTTCGTATGTAG 57.353 37.500 0.00 0.00 0.00 2.74
5033 5106 7.549134 AGATTCACTCATTTTGCTTCGTATGTA 59.451 33.333 0.00 0.00 0.00 2.29
5034 5107 5.940192 TTCACTCATTTTGCTTCGTATGT 57.060 34.783 0.00 0.00 0.00 2.29
5035 5108 6.779117 AGATTCACTCATTTTGCTTCGTATG 58.221 36.000 0.00 0.00 0.00 2.39
5036 5109 6.992063 AGATTCACTCATTTTGCTTCGTAT 57.008 33.333 0.00 0.00 0.00 3.06
5037 5110 6.871492 TGTAGATTCACTCATTTTGCTTCGTA 59.129 34.615 0.00 0.00 0.00 3.43
5038 5111 5.700832 TGTAGATTCACTCATTTTGCTTCGT 59.299 36.000 0.00 0.00 0.00 3.85
5039 5112 6.017933 GTGTAGATTCACTCATTTTGCTTCG 58.982 40.000 0.00 0.00 35.68 3.79
5040 5113 7.138692 AGTGTAGATTCACTCATTTTGCTTC 57.861 36.000 0.00 0.00 44.07 3.86
5052 5125 8.764524 ACACATTTTAGAGAGTGTAGATTCAC 57.235 34.615 0.00 0.00 42.84 3.18
5053 5126 8.807118 AGACACATTTTAGAGAGTGTAGATTCA 58.193 33.333 0.00 0.00 44.48 2.57
5056 5129 9.244292 TGTAGACACATTTTAGAGAGTGTAGAT 57.756 33.333 0.00 0.00 44.48 1.98
5057 5130 8.631480 TGTAGACACATTTTAGAGAGTGTAGA 57.369 34.615 0.00 0.00 44.48 2.59
5060 5133 8.803235 TGTATGTAGACACATTTTAGAGAGTGT 58.197 33.333 0.00 0.00 42.98 3.55
5061 5134 9.809096 ATGTATGTAGACACATTTTAGAGAGTG 57.191 33.333 0.00 0.00 42.98 3.51
5063 5136 9.469807 GGATGTATGTAGACACATTTTAGAGAG 57.530 37.037 0.00 0.00 42.98 3.20
5064 5137 8.135529 CGGATGTATGTAGACACATTTTAGAGA 58.864 37.037 0.00 0.00 42.98 3.10
5065 5138 7.921214 ACGGATGTATGTAGACACATTTTAGAG 59.079 37.037 0.00 0.00 42.98 2.43
5066 5139 7.778083 ACGGATGTATGTAGACACATTTTAGA 58.222 34.615 0.00 0.00 42.98 2.10
5067 5140 9.692749 ATACGGATGTATGTAGACACATTTTAG 57.307 33.333 0.00 0.00 42.98 1.85
5082 5155 9.074576 TCAAATGACTACTACATACGGATGTAT 57.925 33.333 20.64 13.02 45.42 2.29
5083 5156 8.454570 TCAAATGACTACTACATACGGATGTA 57.545 34.615 19.32 19.32 44.77 2.29
5085 5158 8.642908 TTTCAAATGACTACTACATACGGATG 57.357 34.615 5.94 5.94 39.16 3.51
5086 5159 9.261180 CATTTCAAATGACTACTACATACGGAT 57.739 33.333 3.82 0.00 0.00 4.18
5087 5160 8.255206 ACATTTCAAATGACTACTACATACGGA 58.745 33.333 17.30 0.00 0.00 4.69
5088 5161 8.420374 ACATTTCAAATGACTACTACATACGG 57.580 34.615 17.30 0.00 0.00 4.02
5089 5162 9.302345 AGACATTTCAAATGACTACTACATACG 57.698 33.333 17.30 0.00 0.00 3.06
5113 5186 8.248945 CCGTTCCTAAATACTTGTCTTTCTAGA 58.751 37.037 0.00 0.00 0.00 2.43
5114 5187 8.248945 TCCGTTCCTAAATACTTGTCTTTCTAG 58.751 37.037 0.00 0.00 0.00 2.43
5115 5188 8.125978 TCCGTTCCTAAATACTTGTCTTTCTA 57.874 34.615 0.00 0.00 0.00 2.10
5116 5189 7.001099 TCCGTTCCTAAATACTTGTCTTTCT 57.999 36.000 0.00 0.00 0.00 2.52
5117 5190 6.313164 CCTCCGTTCCTAAATACTTGTCTTTC 59.687 42.308 0.00 0.00 0.00 2.62
5118 5191 6.171213 CCTCCGTTCCTAAATACTTGTCTTT 58.829 40.000 0.00 0.00 0.00 2.52
5119 5192 5.338137 CCCTCCGTTCCTAAATACTTGTCTT 60.338 44.000 0.00 0.00 0.00 3.01
5120 5193 4.161754 CCCTCCGTTCCTAAATACTTGTCT 59.838 45.833 0.00 0.00 0.00 3.41
5121 5194 4.161001 TCCCTCCGTTCCTAAATACTTGTC 59.839 45.833 0.00 0.00 0.00 3.18
5122 5195 4.098894 TCCCTCCGTTCCTAAATACTTGT 58.901 43.478 0.00 0.00 0.00 3.16
5123 5196 4.161754 ACTCCCTCCGTTCCTAAATACTTG 59.838 45.833 0.00 0.00 0.00 3.16
5124 5197 4.359996 ACTCCCTCCGTTCCTAAATACTT 58.640 43.478 0.00 0.00 0.00 2.24
5125 5198 3.991683 ACTCCCTCCGTTCCTAAATACT 58.008 45.455 0.00 0.00 0.00 2.12
5126 5199 5.136105 TCTACTCCCTCCGTTCCTAAATAC 58.864 45.833 0.00 0.00 0.00 1.89
5127 5200 5.393068 TCTACTCCCTCCGTTCCTAAATA 57.607 43.478 0.00 0.00 0.00 1.40
5128 5201 4.261411 TCTACTCCCTCCGTTCCTAAAT 57.739 45.455 0.00 0.00 0.00 1.40
5129 5202 3.744940 TCTACTCCCTCCGTTCCTAAA 57.255 47.619 0.00 0.00 0.00 1.85
5130 5203 3.203710 TCATCTACTCCCTCCGTTCCTAA 59.796 47.826 0.00 0.00 0.00 2.69
5131 5204 2.781757 TCATCTACTCCCTCCGTTCCTA 59.218 50.000 0.00 0.00 0.00 2.94
5132 5205 1.569548 TCATCTACTCCCTCCGTTCCT 59.430 52.381 0.00 0.00 0.00 3.36
5133 5206 2.068834 TCATCTACTCCCTCCGTTCC 57.931 55.000 0.00 0.00 0.00 3.62
5134 5207 4.653868 TCTATCATCTACTCCCTCCGTTC 58.346 47.826 0.00 0.00 0.00 3.95
5135 5208 4.726035 TCTATCATCTACTCCCTCCGTT 57.274 45.455 0.00 0.00 0.00 4.44
5136 5209 4.568804 CCATCTATCATCTACTCCCTCCGT 60.569 50.000 0.00 0.00 0.00 4.69
5137 5210 3.951037 CCATCTATCATCTACTCCCTCCG 59.049 52.174 0.00 0.00 0.00 4.63
5138 5211 4.709397 CACCATCTATCATCTACTCCCTCC 59.291 50.000 0.00 0.00 0.00 4.30
5139 5212 4.159506 GCACCATCTATCATCTACTCCCTC 59.840 50.000 0.00 0.00 0.00 4.30
5140 5213 4.093011 GCACCATCTATCATCTACTCCCT 58.907 47.826 0.00 0.00 0.00 4.20
5141 5214 3.119316 CGCACCATCTATCATCTACTCCC 60.119 52.174 0.00 0.00 0.00 4.30
5142 5215 3.759086 TCGCACCATCTATCATCTACTCC 59.241 47.826 0.00 0.00 0.00 3.85
5143 5216 5.378292 TTCGCACCATCTATCATCTACTC 57.622 43.478 0.00 0.00 0.00 2.59
5144 5217 4.321601 GCTTCGCACCATCTATCATCTACT 60.322 45.833 0.00 0.00 0.00 2.57
5145 5218 3.923461 GCTTCGCACCATCTATCATCTAC 59.077 47.826 0.00 0.00 0.00 2.59
5146 5219 3.829026 AGCTTCGCACCATCTATCATCTA 59.171 43.478 0.00 0.00 0.00 1.98
5147 5220 2.632028 AGCTTCGCACCATCTATCATCT 59.368 45.455 0.00 0.00 0.00 2.90
5148 5221 2.735663 CAGCTTCGCACCATCTATCATC 59.264 50.000 0.00 0.00 0.00 2.92
5179 5252 1.301953 CCTTTTGCCAGCTTTGCCC 60.302 57.895 2.68 0.00 0.00 5.36
5185 5258 2.501602 GCCACACCTTTTGCCAGCT 61.502 57.895 0.00 0.00 0.00 4.24
5186 5259 2.029518 GCCACACCTTTTGCCAGC 59.970 61.111 0.00 0.00 0.00 4.85
5187 5260 0.032540 GAAGCCACACCTTTTGCCAG 59.967 55.000 0.00 0.00 0.00 4.85
5192 5265 2.170397 CCCAAAAGAAGCCACACCTTTT 59.830 45.455 0.00 0.00 39.77 2.27
5254 5327 1.115326 GCACCCCACTGCTTTTCCTT 61.115 55.000 0.00 0.00 34.06 3.36
5256 5329 1.531602 AGCACCCCACTGCTTTTCC 60.532 57.895 0.00 0.00 45.64 3.13
5269 5342 1.103398 ACAGCACTCAACCAAGCACC 61.103 55.000 0.00 0.00 0.00 5.01
5294 5368 2.234661 TGTCAAGTGGGATAGCAGTGAG 59.765 50.000 0.00 0.00 0.00 3.51
5303 5377 1.180029 GCAAGCATGTCAAGTGGGAT 58.820 50.000 0.00 0.00 0.00 3.85
5304 5378 0.111061 AGCAAGCATGTCAAGTGGGA 59.889 50.000 0.00 0.00 0.00 4.37
5305 5379 0.963962 AAGCAAGCATGTCAAGTGGG 59.036 50.000 0.00 0.00 0.00 4.61
5316 5390 3.671433 GCATCGAAATTCTGAAGCAAGCA 60.671 43.478 9.03 0.00 0.00 3.91
5317 5391 2.850647 GCATCGAAATTCTGAAGCAAGC 59.149 45.455 9.03 0.00 0.00 4.01
5318 5392 3.128242 AGGCATCGAAATTCTGAAGCAAG 59.872 43.478 13.50 0.00 30.83 4.01
5319 5393 3.084039 AGGCATCGAAATTCTGAAGCAA 58.916 40.909 13.50 0.00 30.83 3.91
5403 5477 3.490348 ACCTTGACACCTCTTTTGGATG 58.510 45.455 0.00 0.00 0.00 3.51
5408 5482 1.814248 GCCGACCTTGACACCTCTTTT 60.814 52.381 0.00 0.00 0.00 2.27
5410 5484 1.122019 AGCCGACCTTGACACCTCTT 61.122 55.000 0.00 0.00 0.00 2.85


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

AutoCloner maintained by Alex Coulton.