Multiple sequence alignment - TraesCS7B01G194300

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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 TraesCS7B01G194300 chr7B 100.000 2579 0 0 1 2579 334199380 334201958 0.000000e+00 4763
1 TraesCS7B01G194300 chr7B 95.759 1674 64 4 217 1885 531995146 531996817 0.000000e+00 2691
2 TraesCS7B01G194300 chr6B 96.537 1675 50 4 217 1885 388358829 388357157 0.000000e+00 2765
3 TraesCS7B01G194300 chr6B 95.522 1675 67 3 217 1885 388166777 388165105 0.000000e+00 2671
4 TraesCS7B01G194300 chr6B 95.549 1640 60 5 217 1846 588904323 588905959 0.000000e+00 2612
5 TraesCS7B01G194300 chr2B 96.356 1674 53 4 217 1885 751961594 751959924 0.000000e+00 2747
6 TraesCS7B01G194300 chr2B 96.350 137 4 1 1 137 291093544 291093409 9.290000e-55 224
7 TraesCS7B01G194300 chr2B 96.350 137 4 1 1 137 554993583 554993448 9.290000e-55 224
8 TraesCS7B01G194300 chr6A 95.329 1670 69 5 220 1885 272161620 272159956 0.000000e+00 2643
9 TraesCS7B01G194300 chr3A 95.215 1672 72 4 219 1885 718993959 718992291 0.000000e+00 2638
10 TraesCS7B01G194300 chr3B 94.507 1675 84 5 217 1885 575745911 575744239 0.000000e+00 2577
11 TraesCS7B01G194300 chr3B 96.350 137 4 1 1 137 183940234 183940099 9.290000e-55 224
12 TraesCS7B01G194300 chr3B 96.350 137 4 1 1 137 481559590 481559455 9.290000e-55 224
13 TraesCS7B01G194300 chr3B 96.350 137 4 1 1 137 717050738 717050873 9.290000e-55 224
14 TraesCS7B01G194300 chr5D 94.090 1675 87 7 217 1885 79846105 79844437 0.000000e+00 2534
15 TraesCS7B01G194300 chr5A 97.615 671 16 0 1909 2579 16548926 16549596 0.000000e+00 1151
16 TraesCS7B01G194300 chr5A 97.466 671 17 0 1909 2579 16623471 16624141 0.000000e+00 1146
17 TraesCS7B01G194300 chr5A 97.317 671 18 0 1909 2579 300048369 300047699 0.000000e+00 1140
18 TraesCS7B01G194300 chrUn 97.466 671 17 0 1909 2579 273238601 273237931 0.000000e+00 1146
19 TraesCS7B01G194300 chrUn 97.466 671 17 0 1909 2579 422109722 422109052 0.000000e+00 1146
20 TraesCS7B01G194300 chr5B 97.466 671 17 0 1909 2579 713046407 713047077 0.000000e+00 1146
21 TraesCS7B01G194300 chr5B 97.080 137 4 0 1 137 671618591 671618727 5.550000e-57 231
22 TraesCS7B01G194300 chr5B 96.350 137 5 0 1 137 396273692 396273556 2.580000e-55 226
23 TraesCS7B01G194300 chr4A 97.466 671 17 0 1909 2579 73803629 73804299 0.000000e+00 1146
24 TraesCS7B01G194300 chr1B 97.466 671 17 0 1909 2579 461452026 461451356 0.000000e+00 1146
25 TraesCS7B01G194300 chr1A 97.466 671 17 0 1909 2579 334077118 334077788 0.000000e+00 1146
26 TraesCS7B01G194300 chr4B 96.296 135 5 0 3 137 564842193 564842327 3.340000e-54 222
27 TraesCS7B01G194300 chr3D 96.296 135 5 0 3 137 108180061 108180195 3.340000e-54 222


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 TraesCS7B01G194300 chr7B 334199380 334201958 2578 False 4763 4763 100.000 1 2579 1 chr7B.!!$F1 2578
1 TraesCS7B01G194300 chr7B 531995146 531996817 1671 False 2691 2691 95.759 217 1885 1 chr7B.!!$F2 1668
2 TraesCS7B01G194300 chr6B 388357157 388358829 1672 True 2765 2765 96.537 217 1885 1 chr6B.!!$R2 1668
3 TraesCS7B01G194300 chr6B 388165105 388166777 1672 True 2671 2671 95.522 217 1885 1 chr6B.!!$R1 1668
4 TraesCS7B01G194300 chr6B 588904323 588905959 1636 False 2612 2612 95.549 217 1846 1 chr6B.!!$F1 1629
5 TraesCS7B01G194300 chr2B 751959924 751961594 1670 True 2747 2747 96.356 217 1885 1 chr2B.!!$R3 1668
6 TraesCS7B01G194300 chr6A 272159956 272161620 1664 True 2643 2643 95.329 220 1885 1 chr6A.!!$R1 1665
7 TraesCS7B01G194300 chr3A 718992291 718993959 1668 True 2638 2638 95.215 219 1885 1 chr3A.!!$R1 1666
8 TraesCS7B01G194300 chr3B 575744239 575745911 1672 True 2577 2577 94.507 217 1885 1 chr3B.!!$R3 1668
9 TraesCS7B01G194300 chr5D 79844437 79846105 1668 True 2534 2534 94.090 217 1885 1 chr5D.!!$R1 1668
10 TraesCS7B01G194300 chr5A 16548926 16549596 670 False 1151 1151 97.615 1909 2579 1 chr5A.!!$F1 670
11 TraesCS7B01G194300 chr5A 16623471 16624141 670 False 1146 1146 97.466 1909 2579 1 chr5A.!!$F2 670
12 TraesCS7B01G194300 chr5A 300047699 300048369 670 True 1140 1140 97.317 1909 2579 1 chr5A.!!$R1 670
13 TraesCS7B01G194300 chrUn 273237931 273238601 670 True 1146 1146 97.466 1909 2579 1 chrUn.!!$R1 670
14 TraesCS7B01G194300 chrUn 422109052 422109722 670 True 1146 1146 97.466 1909 2579 1 chrUn.!!$R2 670
15 TraesCS7B01G194300 chr5B 713046407 713047077 670 False 1146 1146 97.466 1909 2579 1 chr5B.!!$F2 670
16 TraesCS7B01G194300 chr4A 73803629 73804299 670 False 1146 1146 97.466 1909 2579 1 chr4A.!!$F1 670
17 TraesCS7B01G194300 chr1B 461451356 461452026 670 True 1146 1146 97.466 1909 2579 1 chr1B.!!$R1 670
18 TraesCS7B01G194300 chr1A 334077118 334077788 670 False 1146 1146 97.466 1909 2579 1 chr1A.!!$F1 670

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
853 855 0.107456 CGGTATCATTGCTGCTCCCT 59.893 55.0 0.0 0.0 0.0 4.2 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2122 2138 1.630148 CGCACCTAGAAAAGACGGAG 58.37 55.0 0.0 0.0 0.0 4.63 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
22 23 5.551760 CACATCAAAAGTATCAGGTCACC 57.448 43.478 0.00 0.00 0.00 4.02
23 24 5.003160 CACATCAAAAGTATCAGGTCACCA 58.997 41.667 0.00 0.00 0.00 4.17
24 25 5.649395 CACATCAAAAGTATCAGGTCACCAT 59.351 40.000 0.00 0.00 0.00 3.55
25 26 6.823182 CACATCAAAAGTATCAGGTCACCATA 59.177 38.462 0.00 0.00 0.00 2.74
26 27 7.011763 CACATCAAAAGTATCAGGTCACCATAG 59.988 40.741 0.00 0.00 0.00 2.23
27 28 6.867519 TCAAAAGTATCAGGTCACCATAGA 57.132 37.500 0.00 0.00 0.00 1.98
28 29 6.878317 TCAAAAGTATCAGGTCACCATAGAG 58.122 40.000 0.00 0.00 0.00 2.43
29 30 6.440647 TCAAAAGTATCAGGTCACCATAGAGT 59.559 38.462 0.00 0.00 0.00 3.24
30 31 6.875972 AAAGTATCAGGTCACCATAGAGTT 57.124 37.500 0.00 0.00 0.00 3.01
31 32 6.875972 AAGTATCAGGTCACCATAGAGTTT 57.124 37.500 0.00 0.00 0.00 2.66
32 33 7.973048 AAGTATCAGGTCACCATAGAGTTTA 57.027 36.000 0.00 0.00 0.00 2.01
33 34 7.973048 AGTATCAGGTCACCATAGAGTTTAA 57.027 36.000 0.00 0.00 0.00 1.52
34 35 8.012957 AGTATCAGGTCACCATAGAGTTTAAG 57.987 38.462 0.00 0.00 0.00 1.85
35 36 7.839705 AGTATCAGGTCACCATAGAGTTTAAGA 59.160 37.037 0.00 0.00 0.00 2.10
36 37 7.682787 ATCAGGTCACCATAGAGTTTAAGAT 57.317 36.000 0.00 0.00 0.00 2.40
37 38 7.496346 TCAGGTCACCATAGAGTTTAAGATT 57.504 36.000 0.00 0.00 0.00 2.40
38 39 8.603898 TCAGGTCACCATAGAGTTTAAGATTA 57.396 34.615 0.00 0.00 0.00 1.75
39 40 8.475639 TCAGGTCACCATAGAGTTTAAGATTAC 58.524 37.037 0.00 0.00 0.00 1.89
40 41 8.258007 CAGGTCACCATAGAGTTTAAGATTACA 58.742 37.037 0.00 0.00 0.00 2.41
41 42 8.822805 AGGTCACCATAGAGTTTAAGATTACAA 58.177 33.333 0.00 0.00 0.00 2.41
42 43 8.880750 GGTCACCATAGAGTTTAAGATTACAAC 58.119 37.037 0.00 0.00 0.00 3.32
43 44 9.654663 GTCACCATAGAGTTTAAGATTACAACT 57.345 33.333 0.00 0.00 33.32 3.16
44 45 9.871238 TCACCATAGAGTTTAAGATTACAACTC 57.129 33.333 13.75 13.75 44.61 3.01
51 52 8.121167 GAGTTTAAGATTACAACTCGATCCAG 57.879 38.462 0.00 0.00 37.69 3.86
52 53 6.535508 AGTTTAAGATTACAACTCGATCCAGC 59.464 38.462 0.00 0.00 0.00 4.85
53 54 4.471904 AAGATTACAACTCGATCCAGCA 57.528 40.909 0.00 0.00 0.00 4.41
54 55 4.471904 AGATTACAACTCGATCCAGCAA 57.528 40.909 0.00 0.00 0.00 3.91
55 56 4.832248 AGATTACAACTCGATCCAGCAAA 58.168 39.130 0.00 0.00 0.00 3.68
56 57 4.872691 AGATTACAACTCGATCCAGCAAAG 59.127 41.667 0.00 0.00 0.00 2.77
57 58 2.550830 ACAACTCGATCCAGCAAAGT 57.449 45.000 0.00 0.00 0.00 2.66
58 59 2.417719 ACAACTCGATCCAGCAAAGTC 58.582 47.619 0.00 0.00 0.00 3.01
59 60 2.224281 ACAACTCGATCCAGCAAAGTCA 60.224 45.455 0.00 0.00 0.00 3.41
60 61 3.005554 CAACTCGATCCAGCAAAGTCAT 58.994 45.455 0.00 0.00 0.00 3.06
61 62 2.898705 ACTCGATCCAGCAAAGTCATC 58.101 47.619 0.00 0.00 0.00 2.92
62 63 2.234661 ACTCGATCCAGCAAAGTCATCA 59.765 45.455 0.00 0.00 0.00 3.07
63 64 2.864946 CTCGATCCAGCAAAGTCATCAG 59.135 50.000 0.00 0.00 0.00 2.90
64 65 2.497273 TCGATCCAGCAAAGTCATCAGA 59.503 45.455 0.00 0.00 0.00 3.27
65 66 3.055891 TCGATCCAGCAAAGTCATCAGAA 60.056 43.478 0.00 0.00 0.00 3.02
66 67 3.309138 CGATCCAGCAAAGTCATCAGAAG 59.691 47.826 0.00 0.00 0.00 2.85
67 68 4.511527 GATCCAGCAAAGTCATCAGAAGA 58.488 43.478 0.00 0.00 0.00 2.87
68 69 4.356405 TCCAGCAAAGTCATCAGAAGAA 57.644 40.909 0.00 0.00 0.00 2.52
69 70 4.914983 TCCAGCAAAGTCATCAGAAGAAT 58.085 39.130 0.00 0.00 0.00 2.40
70 71 4.698780 TCCAGCAAAGTCATCAGAAGAATG 59.301 41.667 0.00 0.00 0.00 2.67
71 72 4.698780 CCAGCAAAGTCATCAGAAGAATGA 59.301 41.667 0.00 0.00 0.00 2.57
72 73 5.163744 CCAGCAAAGTCATCAGAAGAATGAG 60.164 44.000 0.00 0.00 31.44 2.90
73 74 5.642491 CAGCAAAGTCATCAGAAGAATGAGA 59.358 40.000 0.00 0.00 31.44 3.27
74 75 5.642919 AGCAAAGTCATCAGAAGAATGAGAC 59.357 40.000 0.00 0.00 31.44 3.36
75 76 5.642919 GCAAAGTCATCAGAAGAATGAGACT 59.357 40.000 0.00 0.00 38.34 3.24
76 77 6.149142 GCAAAGTCATCAGAAGAATGAGACTT 59.851 38.462 0.00 0.00 42.66 3.01
77 78 7.519843 CAAAGTCATCAGAAGAATGAGACTTG 58.480 38.462 15.63 10.09 41.49 3.16
78 79 6.357579 AGTCATCAGAAGAATGAGACTTGT 57.642 37.500 0.00 0.00 35.78 3.16
79 80 7.473735 AGTCATCAGAAGAATGAGACTTGTA 57.526 36.000 0.00 0.00 35.78 2.41
80 81 7.901029 AGTCATCAGAAGAATGAGACTTGTAA 58.099 34.615 0.00 0.00 35.78 2.41
81 82 7.816995 AGTCATCAGAAGAATGAGACTTGTAAC 59.183 37.037 0.00 0.00 35.78 2.50
82 83 7.816995 GTCATCAGAAGAATGAGACTTGTAACT 59.183 37.037 0.00 0.00 31.44 2.24
83 84 8.370940 TCATCAGAAGAATGAGACTTGTAACTT 58.629 33.333 0.00 0.00 31.44 2.66
84 85 8.997323 CATCAGAAGAATGAGACTTGTAACTTT 58.003 33.333 0.00 0.00 31.44 2.66
85 86 8.370493 TCAGAAGAATGAGACTTGTAACTTTG 57.630 34.615 0.00 0.00 0.00 2.77
86 87 7.041780 TCAGAAGAATGAGACTTGTAACTTTGC 60.042 37.037 0.00 0.00 0.00 3.68
87 88 6.767902 AGAAGAATGAGACTTGTAACTTTGCA 59.232 34.615 0.00 0.00 0.00 4.08
88 89 6.942532 AGAATGAGACTTGTAACTTTGCAA 57.057 33.333 0.00 0.00 0.00 4.08
89 90 7.333528 AGAATGAGACTTGTAACTTTGCAAA 57.666 32.000 12.14 12.14 32.49 3.68
90 91 7.771183 AGAATGAGACTTGTAACTTTGCAAAA 58.229 30.769 13.84 0.00 32.49 2.44
91 92 8.250332 AGAATGAGACTTGTAACTTTGCAAAAA 58.750 29.630 13.84 3.24 32.49 1.94
115 116 5.359194 AATGCCCATATAAGATAGACCCG 57.641 43.478 0.00 0.00 0.00 5.28
116 117 2.500098 TGCCCATATAAGATAGACCCGC 59.500 50.000 0.00 0.00 0.00 6.13
117 118 2.766828 GCCCATATAAGATAGACCCGCT 59.233 50.000 0.00 0.00 0.00 5.52
118 119 3.197983 GCCCATATAAGATAGACCCGCTT 59.802 47.826 0.00 0.00 0.00 4.68
119 120 4.759782 CCCATATAAGATAGACCCGCTTG 58.240 47.826 0.00 0.00 0.00 4.01
120 121 4.466370 CCCATATAAGATAGACCCGCTTGA 59.534 45.833 0.00 0.00 0.00 3.02
121 122 5.046591 CCCATATAAGATAGACCCGCTTGAA 60.047 44.000 0.00 0.00 0.00 2.69
122 123 6.102663 CCATATAAGATAGACCCGCTTGAAG 58.897 44.000 0.00 0.00 0.00 3.02
123 124 6.071334 CCATATAAGATAGACCCGCTTGAAGA 60.071 42.308 0.00 0.00 0.00 2.87
124 125 3.528597 AAGATAGACCCGCTTGAAGAC 57.471 47.619 0.00 0.00 0.00 3.01
125 126 2.741145 AGATAGACCCGCTTGAAGACT 58.259 47.619 0.00 0.00 0.00 3.24
126 127 3.899726 AGATAGACCCGCTTGAAGACTA 58.100 45.455 0.00 0.00 0.00 2.59
127 128 4.279145 AGATAGACCCGCTTGAAGACTAA 58.721 43.478 0.00 0.00 0.00 2.24
128 129 2.745515 AGACCCGCTTGAAGACTAAC 57.254 50.000 0.00 0.00 0.00 2.34
129 130 2.249139 AGACCCGCTTGAAGACTAACT 58.751 47.619 0.00 0.00 0.00 2.24
130 131 2.231721 AGACCCGCTTGAAGACTAACTC 59.768 50.000 0.00 0.00 0.00 3.01
131 132 1.968493 ACCCGCTTGAAGACTAACTCA 59.032 47.619 0.00 0.00 0.00 3.41
132 133 2.367567 ACCCGCTTGAAGACTAACTCAA 59.632 45.455 0.00 0.00 0.00 3.02
133 134 3.181458 ACCCGCTTGAAGACTAACTCAAA 60.181 43.478 0.00 0.00 0.00 2.69
134 135 4.003648 CCCGCTTGAAGACTAACTCAAAT 58.996 43.478 0.00 0.00 0.00 2.32
135 136 4.455877 CCCGCTTGAAGACTAACTCAAATT 59.544 41.667 0.00 0.00 0.00 1.82
136 137 5.048713 CCCGCTTGAAGACTAACTCAAATTT 60.049 40.000 0.00 0.00 0.00 1.82
137 138 6.148811 CCCGCTTGAAGACTAACTCAAATTTA 59.851 38.462 0.00 0.00 0.00 1.40
138 139 7.308348 CCCGCTTGAAGACTAACTCAAATTTAA 60.308 37.037 0.00 0.00 0.00 1.52
139 140 7.746475 CCGCTTGAAGACTAACTCAAATTTAAG 59.254 37.037 0.00 0.00 0.00 1.85
140 141 8.495949 CGCTTGAAGACTAACTCAAATTTAAGA 58.504 33.333 0.00 0.00 0.00 2.10
141 142 9.818796 GCTTGAAGACTAACTCAAATTTAAGAG 57.181 33.333 0.00 0.00 37.87 2.85
142 143 9.818796 CTTGAAGACTAACTCAAATTTAAGAGC 57.181 33.333 0.00 0.00 35.28 4.09
143 144 8.902540 TGAAGACTAACTCAAATTTAAGAGCA 57.097 30.769 0.00 0.00 35.28 4.26
144 145 9.337396 TGAAGACTAACTCAAATTTAAGAGCAA 57.663 29.630 0.00 0.00 35.28 3.91
145 146 9.818796 GAAGACTAACTCAAATTTAAGAGCAAG 57.181 33.333 0.00 1.71 35.28 4.01
146 147 8.329203 AGACTAACTCAAATTTAAGAGCAAGG 57.671 34.615 0.00 0.00 35.28 3.61
147 148 8.157476 AGACTAACTCAAATTTAAGAGCAAGGA 58.843 33.333 0.00 0.00 35.28 3.36
148 149 8.100508 ACTAACTCAAATTTAAGAGCAAGGAC 57.899 34.615 0.00 0.00 35.28 3.85
149 150 5.613358 ACTCAAATTTAAGAGCAAGGACG 57.387 39.130 0.00 0.00 35.28 4.79
150 151 5.063880 ACTCAAATTTAAGAGCAAGGACGT 58.936 37.500 0.00 0.00 35.28 4.34
151 152 5.049405 ACTCAAATTTAAGAGCAAGGACGTG 60.049 40.000 0.00 0.00 35.28 4.49
152 153 3.831715 AATTTAAGAGCAAGGACGTGC 57.168 42.857 0.00 0.00 45.28 5.34
158 159 4.049393 GCAAGGACGTGCTTCAGT 57.951 55.556 20.31 0.00 41.51 3.41
159 160 3.210857 GCAAGGACGTGCTTCAGTA 57.789 52.632 20.31 0.00 41.51 2.74
160 161 1.508632 GCAAGGACGTGCTTCAGTAA 58.491 50.000 20.31 0.00 41.51 2.24
161 162 2.076863 GCAAGGACGTGCTTCAGTAAT 58.923 47.619 20.31 0.00 41.51 1.89
162 163 3.259064 GCAAGGACGTGCTTCAGTAATA 58.741 45.455 20.31 0.00 41.51 0.98
163 164 3.871594 GCAAGGACGTGCTTCAGTAATAT 59.128 43.478 20.31 0.00 41.51 1.28
164 165 4.025647 GCAAGGACGTGCTTCAGTAATATC 60.026 45.833 20.31 0.00 41.51 1.63
165 166 5.109210 CAAGGACGTGCTTCAGTAATATCA 58.891 41.667 20.31 0.00 0.00 2.15
166 167 4.683832 AGGACGTGCTTCAGTAATATCAC 58.316 43.478 2.68 0.00 0.00 3.06
167 168 4.159693 AGGACGTGCTTCAGTAATATCACA 59.840 41.667 2.68 0.00 0.00 3.58
168 169 5.050490 GGACGTGCTTCAGTAATATCACAT 58.950 41.667 0.00 0.00 0.00 3.21
169 170 5.523916 GGACGTGCTTCAGTAATATCACATT 59.476 40.000 0.00 0.00 0.00 2.71
170 171 6.292381 GGACGTGCTTCAGTAATATCACATTC 60.292 42.308 0.00 0.00 0.00 2.67
171 172 6.341316 ACGTGCTTCAGTAATATCACATTCT 58.659 36.000 0.00 0.00 0.00 2.40
172 173 6.256539 ACGTGCTTCAGTAATATCACATTCTG 59.743 38.462 0.00 0.00 0.00 3.02
173 174 6.425504 GTGCTTCAGTAATATCACATTCTGC 58.574 40.000 0.00 0.00 0.00 4.26
174 175 6.037500 GTGCTTCAGTAATATCACATTCTGCA 59.962 38.462 0.00 0.00 0.00 4.41
175 176 6.598850 TGCTTCAGTAATATCACATTCTGCAA 59.401 34.615 0.00 0.00 0.00 4.08
176 177 7.283807 TGCTTCAGTAATATCACATTCTGCAAT 59.716 33.333 0.00 0.00 0.00 3.56
177 178 7.802251 GCTTCAGTAATATCACATTCTGCAATC 59.198 37.037 0.00 0.00 0.00 2.67
178 179 7.412137 TCAGTAATATCACATTCTGCAATCG 57.588 36.000 0.00 0.00 0.00 3.34
179 180 7.209475 TCAGTAATATCACATTCTGCAATCGA 58.791 34.615 0.00 0.00 0.00 3.59
180 181 7.383300 TCAGTAATATCACATTCTGCAATCGAG 59.617 37.037 0.00 0.00 0.00 4.04
181 182 5.354054 AATATCACATTCTGCAATCGAGC 57.646 39.130 0.00 0.00 0.00 5.03
182 183 2.097680 TCACATTCTGCAATCGAGCA 57.902 45.000 0.00 0.00 43.35 4.26
183 184 2.425539 TCACATTCTGCAATCGAGCAA 58.574 42.857 0.72 0.00 45.13 3.91
184 185 2.813172 TCACATTCTGCAATCGAGCAAA 59.187 40.909 0.72 0.11 45.13 3.68
185 186 3.441222 TCACATTCTGCAATCGAGCAAAT 59.559 39.130 0.72 2.19 45.13 2.32
186 187 4.082625 TCACATTCTGCAATCGAGCAAATT 60.083 37.500 0.72 0.00 45.13 1.82
187 188 4.624024 CACATTCTGCAATCGAGCAAATTT 59.376 37.500 0.72 0.00 45.13 1.82
188 189 5.801444 CACATTCTGCAATCGAGCAAATTTA 59.199 36.000 0.72 0.00 45.13 1.40
189 190 6.308524 CACATTCTGCAATCGAGCAAATTTAA 59.691 34.615 0.72 0.00 45.13 1.52
190 191 6.529125 ACATTCTGCAATCGAGCAAATTTAAG 59.471 34.615 0.72 0.00 45.13 1.85
191 192 5.878332 TCTGCAATCGAGCAAATTTAAGA 57.122 34.783 0.72 0.00 45.13 2.10
192 193 5.872635 TCTGCAATCGAGCAAATTTAAGAG 58.127 37.500 0.72 0.00 45.13 2.85
193 194 4.414852 TGCAATCGAGCAAATTTAAGAGC 58.585 39.130 0.00 0.00 42.46 4.09
194 195 4.082841 TGCAATCGAGCAAATTTAAGAGCA 60.083 37.500 0.00 0.00 42.46 4.26
195 196 4.858692 GCAATCGAGCAAATTTAAGAGCAA 59.141 37.500 0.00 0.00 0.00 3.91
196 197 5.004156 GCAATCGAGCAAATTTAAGAGCAAG 59.996 40.000 0.00 0.00 0.00 4.01
197 198 4.685169 TCGAGCAAATTTAAGAGCAAGG 57.315 40.909 0.00 0.00 0.00 3.61
198 199 4.323417 TCGAGCAAATTTAAGAGCAAGGA 58.677 39.130 0.00 0.00 0.00 3.36
199 200 4.943705 TCGAGCAAATTTAAGAGCAAGGAT 59.056 37.500 0.00 0.00 0.00 3.24
200 201 5.032863 CGAGCAAATTTAAGAGCAAGGATG 58.967 41.667 0.00 0.00 0.00 3.51
201 202 5.392380 CGAGCAAATTTAAGAGCAAGGATGT 60.392 40.000 0.00 0.00 0.00 3.06
202 203 5.717119 AGCAAATTTAAGAGCAAGGATGTG 58.283 37.500 0.00 0.00 0.00 3.21
203 204 4.328169 GCAAATTTAAGAGCAAGGATGTGC 59.672 41.667 0.00 0.00 45.28 4.57
213 214 4.025015 GCAAGGATGTGCTATTCTGTTG 57.975 45.455 0.00 0.00 41.51 3.33
214 215 3.441572 GCAAGGATGTGCTATTCTGTTGT 59.558 43.478 0.00 0.00 41.51 3.32
215 216 4.082571 GCAAGGATGTGCTATTCTGTTGTT 60.083 41.667 0.00 0.00 41.51 2.83
444 445 6.549364 TGCTTTTCCTGGTTCAGAAGAATAAA 59.451 34.615 0.00 0.00 35.92 1.40
478 479 5.929058 TTGGCTTACATATGGAAAATGCA 57.071 34.783 7.80 0.00 0.00 3.96
510 511 0.378257 CTACCAATGCACATCACGGC 59.622 55.000 0.00 0.00 0.00 5.68
571 573 3.519107 CCCATAGCCACCCAAATCTTTTT 59.481 43.478 0.00 0.00 0.00 1.94
631 633 5.609533 AAGTGTACTTACTCAGGTTGTGT 57.390 39.130 0.00 0.00 33.79 3.72
704 706 6.432936 CGCTAACGTAACTAATACAGATGGA 58.567 40.000 0.00 0.00 33.89 3.41
715 717 8.012957 ACTAATACAGATGGAGGAAGTTAGTG 57.987 38.462 0.00 0.00 31.03 2.74
853 855 0.107456 CGGTATCATTGCTGCTCCCT 59.893 55.000 0.00 0.00 0.00 4.20
859 861 0.818445 CATTGCTGCTCCCTGCCTAG 60.818 60.000 0.00 0.00 42.00 3.02
911 917 8.140628 TGAAATCTCAATCCAAAATTCGTTTCA 58.859 29.630 0.00 0.00 0.00 2.69
952 958 3.367910 GCGTCAAGATCAGTCTCCTTTCT 60.368 47.826 0.00 0.00 32.15 2.52
1017 1024 6.441924 ACCTGGAGATGAGATTTCTTTCTACA 59.558 38.462 0.00 6.35 32.17 2.74
1330 1337 6.650807 CGTAGTAGAATCATTACCAATGGCAT 59.349 38.462 0.00 0.00 39.38 4.40
1394 1401 6.584185 ATGCCGAAACCTAAATGTAAAGTT 57.416 33.333 0.00 0.00 0.00 2.66
1499 1506 6.099845 AGTGAAAGATTTGTATCCGGGTCTAT 59.900 38.462 0.00 0.00 0.00 1.98
1755 1768 7.551585 CAGTCTACCACAAGATAGAGTTTGAT 58.448 38.462 0.00 0.00 30.20 2.57
1891 1907 3.854666 TCTTTCAGAAGAAGCATCCTCG 58.145 45.455 0.00 0.00 38.91 4.63
1892 1908 3.511540 TCTTTCAGAAGAAGCATCCTCGA 59.488 43.478 0.00 0.00 38.91 4.04
1893 1909 3.516981 TTCAGAAGAAGCATCCTCGAG 57.483 47.619 5.13 5.13 0.00 4.04
1894 1910 1.753649 TCAGAAGAAGCATCCTCGAGG 59.246 52.381 26.32 26.32 0.00 4.63
1895 1911 5.597133 TTTCAGAAGAAGCATCCTCGAGGA 61.597 45.833 35.29 35.29 40.98 3.71
1896 1912 6.857029 TTTCAGAAGAAGCATCCTCGAGGAT 61.857 44.000 36.36 36.36 44.33 3.24
1897 1913 7.589356 TTTCAGAAGAAGCATCCTCGAGGATA 61.589 42.308 39.67 21.57 42.94 2.59
1898 1914 8.988930 TTTCAGAAGAAGCATCCTCGAGGATAA 61.989 40.741 39.67 25.39 42.94 1.75
1906 1922 3.887621 TCCTCGAGGATAAACCAACAG 57.112 47.619 30.49 0.00 39.78 3.16
1907 1923 3.437213 TCCTCGAGGATAAACCAACAGA 58.563 45.455 30.49 3.03 39.78 3.41
1938 1954 7.132694 TCAACATACAACAACAGAATAGCAG 57.867 36.000 0.00 0.00 0.00 4.24
1943 1959 3.181445 ACAACAACAGAATAGCAGGTCCA 60.181 43.478 0.00 0.00 0.00 4.02
1969 1985 6.235231 AGGATAAACTGATACGAACATGGT 57.765 37.500 0.00 0.00 0.00 3.55
2033 2049 2.423538 ACCACTGTGCTGAACTTCAAAC 59.576 45.455 1.29 0.00 0.00 2.93
2075 2091 4.184629 GTTGAGACCATAGATCGCTTTGT 58.815 43.478 0.00 0.00 0.00 2.83
2085 2101 2.993899 AGATCGCTTTGTGTAAAGGACG 59.006 45.455 0.00 0.00 42.81 4.79
2122 2138 1.352687 AGAAGGGCAGGTTCTCTTTCC 59.647 52.381 0.00 0.00 27.32 3.13
2172 2188 6.296836 CCATCTACTAAAAGTAGGGGTGGTTT 60.297 42.308 12.83 0.00 46.25 3.27
2211 2227 5.527582 GGTCATTCGTAACCTGAGCAATAAT 59.472 40.000 0.00 0.00 37.36 1.28
2242 2258 8.415192 CTACTACAGCAATAACGGAAATAACA 57.585 34.615 0.00 0.00 0.00 2.41
2330 2346 5.896678 TCACCCTTCCTTTCTTTTCAAATGA 59.103 36.000 0.00 0.00 0.00 2.57
2331 2347 5.985530 CACCCTTCCTTTCTTTTCAAATGAC 59.014 40.000 0.00 0.00 0.00 3.06
2338 2354 6.833416 TCCTTTCTTTTCAAATGACTCCTCAA 59.167 34.615 0.00 0.00 0.00 3.02
2538 2554 6.072397 CGCTCTAAGGCAATCATAGTACTACT 60.072 42.308 4.31 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.003160 TGGTGACCTGATACTTTTGATGTG 58.997 41.667 2.11 0.00 0.00 3.21
1 2 5.241403 TGGTGACCTGATACTTTTGATGT 57.759 39.130 2.11 0.00 0.00 3.06
2 3 7.275183 TCTATGGTGACCTGATACTTTTGATG 58.725 38.462 2.11 0.00 0.00 3.07
3 4 7.126421 ACTCTATGGTGACCTGATACTTTTGAT 59.874 37.037 2.11 0.00 0.00 2.57
4 5 6.440647 ACTCTATGGTGACCTGATACTTTTGA 59.559 38.462 2.11 0.00 0.00 2.69
5 6 6.644347 ACTCTATGGTGACCTGATACTTTTG 58.356 40.000 2.11 0.00 0.00 2.44
6 7 6.875972 ACTCTATGGTGACCTGATACTTTT 57.124 37.500 2.11 0.00 0.00 2.27
7 8 6.875972 AACTCTATGGTGACCTGATACTTT 57.124 37.500 2.11 0.00 0.00 2.66
8 9 6.875972 AAACTCTATGGTGACCTGATACTT 57.124 37.500 2.11 0.00 0.00 2.24
9 10 7.839705 TCTTAAACTCTATGGTGACCTGATACT 59.160 37.037 2.11 0.00 0.00 2.12
10 11 8.008513 TCTTAAACTCTATGGTGACCTGATAC 57.991 38.462 2.11 0.00 0.00 2.24
11 12 8.783660 ATCTTAAACTCTATGGTGACCTGATA 57.216 34.615 2.11 0.00 0.00 2.15
12 13 7.682787 ATCTTAAACTCTATGGTGACCTGAT 57.317 36.000 2.11 0.00 0.00 2.90
13 14 7.496346 AATCTTAAACTCTATGGTGACCTGA 57.504 36.000 2.11 0.00 0.00 3.86
14 15 8.258007 TGTAATCTTAAACTCTATGGTGACCTG 58.742 37.037 2.11 0.00 0.00 4.00
15 16 8.375493 TGTAATCTTAAACTCTATGGTGACCT 57.625 34.615 2.11 0.00 0.00 3.85
16 17 8.880750 GTTGTAATCTTAAACTCTATGGTGACC 58.119 37.037 0.00 0.00 0.00 4.02
17 18 9.654663 AGTTGTAATCTTAAACTCTATGGTGAC 57.345 33.333 0.00 0.00 27.92 3.67
18 19 9.871238 GAGTTGTAATCTTAAACTCTATGGTGA 57.129 33.333 7.38 0.00 44.11 4.02
19 20 8.808529 CGAGTTGTAATCTTAAACTCTATGGTG 58.191 37.037 11.68 0.00 44.91 4.17
20 21 8.746530 TCGAGTTGTAATCTTAAACTCTATGGT 58.253 33.333 11.68 0.00 44.91 3.55
21 22 9.751542 ATCGAGTTGTAATCTTAAACTCTATGG 57.248 33.333 11.68 0.00 44.91 2.74
23 24 9.968870 GGATCGAGTTGTAATCTTAAACTCTAT 57.031 33.333 11.68 7.20 44.91 1.98
24 25 8.963725 TGGATCGAGTTGTAATCTTAAACTCTA 58.036 33.333 11.68 3.10 44.91 2.43
25 26 7.837863 TGGATCGAGTTGTAATCTTAAACTCT 58.162 34.615 11.68 0.00 44.91 3.24
26 27 7.254151 GCTGGATCGAGTTGTAATCTTAAACTC 60.254 40.741 6.60 5.00 44.07 3.01
27 28 6.535508 GCTGGATCGAGTTGTAATCTTAAACT 59.464 38.462 6.60 0.00 36.87 2.66
28 29 6.312918 TGCTGGATCGAGTTGTAATCTTAAAC 59.687 38.462 6.60 0.00 0.00 2.01
29 30 6.403049 TGCTGGATCGAGTTGTAATCTTAAA 58.597 36.000 6.60 0.00 0.00 1.52
30 31 5.972935 TGCTGGATCGAGTTGTAATCTTAA 58.027 37.500 6.60 0.00 0.00 1.85
31 32 5.592104 TGCTGGATCGAGTTGTAATCTTA 57.408 39.130 6.60 0.00 0.00 2.10
32 33 4.471904 TGCTGGATCGAGTTGTAATCTT 57.528 40.909 6.60 0.00 0.00 2.40
33 34 4.471904 TTGCTGGATCGAGTTGTAATCT 57.528 40.909 6.60 0.00 0.00 2.40
34 35 4.631813 ACTTTGCTGGATCGAGTTGTAATC 59.368 41.667 6.60 0.00 0.00 1.75
35 36 4.579869 ACTTTGCTGGATCGAGTTGTAAT 58.420 39.130 6.60 0.00 0.00 1.89
36 37 3.994392 GACTTTGCTGGATCGAGTTGTAA 59.006 43.478 6.60 0.00 0.00 2.41
37 38 3.006430 TGACTTTGCTGGATCGAGTTGTA 59.994 43.478 6.60 0.00 0.00 2.41
38 39 2.224281 TGACTTTGCTGGATCGAGTTGT 60.224 45.455 6.60 1.02 0.00 3.32
39 40 2.416747 TGACTTTGCTGGATCGAGTTG 58.583 47.619 6.60 0.00 0.00 3.16
40 41 2.839486 TGACTTTGCTGGATCGAGTT 57.161 45.000 6.60 0.00 0.00 3.01
41 42 2.234661 TGATGACTTTGCTGGATCGAGT 59.765 45.455 6.60 0.00 0.00 4.18
42 43 2.864946 CTGATGACTTTGCTGGATCGAG 59.135 50.000 0.00 0.00 0.00 4.04
43 44 2.497273 TCTGATGACTTTGCTGGATCGA 59.503 45.455 0.00 0.00 0.00 3.59
44 45 2.897436 TCTGATGACTTTGCTGGATCG 58.103 47.619 0.00 0.00 0.00 3.69
45 46 4.511527 TCTTCTGATGACTTTGCTGGATC 58.488 43.478 0.00 0.00 0.00 3.36
46 47 4.564782 TCTTCTGATGACTTTGCTGGAT 57.435 40.909 0.00 0.00 0.00 3.41
47 48 4.356405 TTCTTCTGATGACTTTGCTGGA 57.644 40.909 0.00 0.00 0.00 3.86
48 49 4.698780 TCATTCTTCTGATGACTTTGCTGG 59.301 41.667 0.00 0.00 0.00 4.85
49 50 5.642491 TCTCATTCTTCTGATGACTTTGCTG 59.358 40.000 0.00 0.00 0.00 4.41
50 51 5.642919 GTCTCATTCTTCTGATGACTTTGCT 59.357 40.000 0.00 0.00 0.00 3.91
51 52 5.642919 AGTCTCATTCTTCTGATGACTTTGC 59.357 40.000 0.00 0.00 33.62 3.68
52 53 7.172875 ACAAGTCTCATTCTTCTGATGACTTTG 59.827 37.037 0.00 0.00 39.21 2.77
53 54 7.222872 ACAAGTCTCATTCTTCTGATGACTTT 58.777 34.615 0.00 0.00 39.21 2.66
54 55 6.767456 ACAAGTCTCATTCTTCTGATGACTT 58.233 36.000 0.00 0.00 40.37 3.01
55 56 6.357579 ACAAGTCTCATTCTTCTGATGACT 57.642 37.500 0.00 0.00 36.28 3.41
56 57 7.816995 AGTTACAAGTCTCATTCTTCTGATGAC 59.183 37.037 0.00 0.00 0.00 3.06
57 58 7.901029 AGTTACAAGTCTCATTCTTCTGATGA 58.099 34.615 0.00 0.00 0.00 2.92
58 59 8.545229 AAGTTACAAGTCTCATTCTTCTGATG 57.455 34.615 0.00 0.00 0.00 3.07
59 60 8.997323 CAAAGTTACAAGTCTCATTCTTCTGAT 58.003 33.333 0.00 0.00 0.00 2.90
60 61 7.041780 GCAAAGTTACAAGTCTCATTCTTCTGA 60.042 37.037 0.00 0.00 0.00 3.27
61 62 7.074502 GCAAAGTTACAAGTCTCATTCTTCTG 58.925 38.462 0.00 0.00 0.00 3.02
62 63 6.767902 TGCAAAGTTACAAGTCTCATTCTTCT 59.232 34.615 0.00 0.00 0.00 2.85
63 64 6.959361 TGCAAAGTTACAAGTCTCATTCTTC 58.041 36.000 0.00 0.00 0.00 2.87
64 65 6.942532 TGCAAAGTTACAAGTCTCATTCTT 57.057 33.333 0.00 0.00 0.00 2.52
65 66 6.942532 TTGCAAAGTTACAAGTCTCATTCT 57.057 33.333 0.00 0.00 0.00 2.40
66 67 7.985634 TTTTGCAAAGTTACAAGTCTCATTC 57.014 32.000 12.41 0.00 0.00 2.67
90 91 6.659242 CGGGTCTATCTTATATGGGCATTTTT 59.341 38.462 0.00 0.00 0.00 1.94
91 92 6.180472 CGGGTCTATCTTATATGGGCATTTT 58.820 40.000 0.00 0.00 0.00 1.82
92 93 5.745227 CGGGTCTATCTTATATGGGCATTT 58.255 41.667 0.00 0.00 0.00 2.32
93 94 4.384208 GCGGGTCTATCTTATATGGGCATT 60.384 45.833 0.00 0.00 0.00 3.56
94 95 3.134804 GCGGGTCTATCTTATATGGGCAT 59.865 47.826 0.00 0.00 0.00 4.40
95 96 2.500098 GCGGGTCTATCTTATATGGGCA 59.500 50.000 0.00 0.00 0.00 5.36
96 97 2.766828 AGCGGGTCTATCTTATATGGGC 59.233 50.000 0.00 0.00 0.00 5.36
97 98 4.466370 TCAAGCGGGTCTATCTTATATGGG 59.534 45.833 0.00 0.00 0.00 4.00
98 99 5.661056 TCAAGCGGGTCTATCTTATATGG 57.339 43.478 0.00 0.00 0.00 2.74
99 100 6.809196 GTCTTCAAGCGGGTCTATCTTATATG 59.191 42.308 0.00 0.00 0.00 1.78
100 101 6.722129 AGTCTTCAAGCGGGTCTATCTTATAT 59.278 38.462 0.00 0.00 0.00 0.86
101 102 6.069331 AGTCTTCAAGCGGGTCTATCTTATA 58.931 40.000 0.00 0.00 0.00 0.98
102 103 4.896482 AGTCTTCAAGCGGGTCTATCTTAT 59.104 41.667 0.00 0.00 0.00 1.73
103 104 4.279145 AGTCTTCAAGCGGGTCTATCTTA 58.721 43.478 0.00 0.00 0.00 2.10
104 105 3.100671 AGTCTTCAAGCGGGTCTATCTT 58.899 45.455 0.00 0.00 0.00 2.40
105 106 2.741145 AGTCTTCAAGCGGGTCTATCT 58.259 47.619 0.00 0.00 0.00 1.98
106 107 4.098196 AGTTAGTCTTCAAGCGGGTCTATC 59.902 45.833 0.00 0.00 0.00 2.08
107 108 4.024670 AGTTAGTCTTCAAGCGGGTCTAT 58.975 43.478 0.00 0.00 0.00 1.98
108 109 3.428532 AGTTAGTCTTCAAGCGGGTCTA 58.571 45.455 0.00 0.00 0.00 2.59
109 110 2.231721 GAGTTAGTCTTCAAGCGGGTCT 59.768 50.000 0.00 0.00 0.00 3.85
110 111 2.029290 TGAGTTAGTCTTCAAGCGGGTC 60.029 50.000 0.00 0.00 0.00 4.46
111 112 1.968493 TGAGTTAGTCTTCAAGCGGGT 59.032 47.619 0.00 0.00 0.00 5.28
112 113 2.743636 TGAGTTAGTCTTCAAGCGGG 57.256 50.000 0.00 0.00 0.00 6.13
113 114 5.613358 AATTTGAGTTAGTCTTCAAGCGG 57.387 39.130 0.00 0.00 0.00 5.52
114 115 8.495949 TCTTAAATTTGAGTTAGTCTTCAAGCG 58.504 33.333 9.55 0.00 0.00 4.68
115 116 9.818796 CTCTTAAATTTGAGTTAGTCTTCAAGC 57.181 33.333 9.55 0.00 0.00 4.01
116 117 9.818796 GCTCTTAAATTTGAGTTAGTCTTCAAG 57.181 33.333 9.55 0.00 33.22 3.02
117 118 9.337396 TGCTCTTAAATTTGAGTTAGTCTTCAA 57.663 29.630 9.55 0.00 33.22 2.69
118 119 8.902540 TGCTCTTAAATTTGAGTTAGTCTTCA 57.097 30.769 9.55 0.00 33.22 3.02
119 120 9.818796 CTTGCTCTTAAATTTGAGTTAGTCTTC 57.181 33.333 9.55 0.00 33.22 2.87
120 121 8.787852 CCTTGCTCTTAAATTTGAGTTAGTCTT 58.212 33.333 9.55 0.00 33.22 3.01
121 122 8.157476 TCCTTGCTCTTAAATTTGAGTTAGTCT 58.843 33.333 9.55 0.00 33.22 3.24
122 123 8.231161 GTCCTTGCTCTTAAATTTGAGTTAGTC 58.769 37.037 9.55 0.14 33.22 2.59
123 124 7.095187 CGTCCTTGCTCTTAAATTTGAGTTAGT 60.095 37.037 9.55 0.00 33.22 2.24
124 125 7.095187 ACGTCCTTGCTCTTAAATTTGAGTTAG 60.095 37.037 9.55 2.74 33.22 2.34
125 126 6.708949 ACGTCCTTGCTCTTAAATTTGAGTTA 59.291 34.615 9.55 0.00 33.22 2.24
126 127 5.531287 ACGTCCTTGCTCTTAAATTTGAGTT 59.469 36.000 9.55 0.00 33.22 3.01
127 128 5.049405 CACGTCCTTGCTCTTAAATTTGAGT 60.049 40.000 9.55 0.00 33.22 3.41
128 129 5.385617 CACGTCCTTGCTCTTAAATTTGAG 58.614 41.667 3.62 3.62 0.00 3.02
129 130 4.320202 GCACGTCCTTGCTCTTAAATTTGA 60.320 41.667 0.00 0.00 39.59 2.69
130 131 3.914364 GCACGTCCTTGCTCTTAAATTTG 59.086 43.478 0.00 0.00 39.59 2.32
131 132 4.160736 GCACGTCCTTGCTCTTAAATTT 57.839 40.909 0.00 0.00 39.59 1.82
132 133 3.831715 GCACGTCCTTGCTCTTAAATT 57.168 42.857 0.00 0.00 39.59 1.82
141 142 1.508632 TTACTGAAGCACGTCCTTGC 58.491 50.000 0.00 0.00 43.34 4.01
142 143 5.005779 GTGATATTACTGAAGCACGTCCTTG 59.994 44.000 0.00 0.00 0.00 3.61
143 144 5.109903 GTGATATTACTGAAGCACGTCCTT 58.890 41.667 0.00 0.00 0.00 3.36
144 145 4.159693 TGTGATATTACTGAAGCACGTCCT 59.840 41.667 0.00 0.00 0.00 3.85
145 146 4.430007 TGTGATATTACTGAAGCACGTCC 58.570 43.478 0.00 0.00 0.00 4.79
146 147 6.477033 AGAATGTGATATTACTGAAGCACGTC 59.523 38.462 0.00 0.00 0.00 4.34
147 148 6.256539 CAGAATGTGATATTACTGAAGCACGT 59.743 38.462 0.00 0.00 0.00 4.49
148 149 6.643845 CAGAATGTGATATTACTGAAGCACG 58.356 40.000 0.00 0.00 0.00 5.34
149 150 6.037500 TGCAGAATGTGATATTACTGAAGCAC 59.962 38.462 0.00 0.00 39.31 4.40
150 151 6.114767 TGCAGAATGTGATATTACTGAAGCA 58.885 36.000 0.00 1.27 39.31 3.91
151 152 6.609237 TGCAGAATGTGATATTACTGAAGC 57.391 37.500 0.00 0.00 39.31 3.86
152 153 8.008279 CGATTGCAGAATGTGATATTACTGAAG 58.992 37.037 0.00 0.00 39.31 3.02
153 154 7.710475 TCGATTGCAGAATGTGATATTACTGAA 59.290 33.333 0.00 0.00 39.31 3.02
154 155 7.209475 TCGATTGCAGAATGTGATATTACTGA 58.791 34.615 0.00 0.00 39.31 3.41
155 156 7.412137 TCGATTGCAGAATGTGATATTACTG 57.588 36.000 0.00 0.00 39.31 2.74
156 157 6.146837 GCTCGATTGCAGAATGTGATATTACT 59.853 38.462 0.00 0.00 39.31 2.24
157 158 6.073602 TGCTCGATTGCAGAATGTGATATTAC 60.074 38.462 0.00 0.00 39.31 1.89
158 159 5.990996 TGCTCGATTGCAGAATGTGATATTA 59.009 36.000 0.00 0.00 39.31 0.98
159 160 4.818005 TGCTCGATTGCAGAATGTGATATT 59.182 37.500 0.00 0.00 39.31 1.28
160 161 4.383173 TGCTCGATTGCAGAATGTGATAT 58.617 39.130 0.00 0.00 39.31 1.63
161 162 3.795877 TGCTCGATTGCAGAATGTGATA 58.204 40.909 0.00 0.00 39.31 2.15
162 163 2.635714 TGCTCGATTGCAGAATGTGAT 58.364 42.857 0.00 0.00 39.31 3.06
163 164 2.097680 TGCTCGATTGCAGAATGTGA 57.902 45.000 0.00 0.00 39.31 3.58
164 165 2.905959 TTGCTCGATTGCAGAATGTG 57.094 45.000 0.00 0.00 44.27 3.21
165 166 4.445452 AATTTGCTCGATTGCAGAATGT 57.555 36.364 0.00 0.00 44.27 2.71
166 167 6.748658 TCTTAAATTTGCTCGATTGCAGAATG 59.251 34.615 0.00 0.00 44.27 2.67
167 168 6.855836 TCTTAAATTTGCTCGATTGCAGAAT 58.144 32.000 0.00 1.65 44.27 2.40
168 169 6.252967 TCTTAAATTTGCTCGATTGCAGAA 57.747 33.333 0.00 0.00 44.27 3.02
169 170 5.674569 GCTCTTAAATTTGCTCGATTGCAGA 60.675 40.000 0.00 0.00 44.27 4.26
170 171 4.498323 GCTCTTAAATTTGCTCGATTGCAG 59.502 41.667 0.00 0.00 44.27 4.41
171 172 4.082841 TGCTCTTAAATTTGCTCGATTGCA 60.083 37.500 0.00 0.00 41.65 4.08
172 173 4.414852 TGCTCTTAAATTTGCTCGATTGC 58.585 39.130 0.00 0.00 0.00 3.56
173 174 5.514204 CCTTGCTCTTAAATTTGCTCGATTG 59.486 40.000 0.00 0.00 0.00 2.67
174 175 5.415701 TCCTTGCTCTTAAATTTGCTCGATT 59.584 36.000 0.00 0.00 0.00 3.34
175 176 4.943705 TCCTTGCTCTTAAATTTGCTCGAT 59.056 37.500 0.00 0.00 0.00 3.59
176 177 4.323417 TCCTTGCTCTTAAATTTGCTCGA 58.677 39.130 0.00 0.00 0.00 4.04
177 178 4.685169 TCCTTGCTCTTAAATTTGCTCG 57.315 40.909 0.00 0.00 0.00 5.03
178 179 5.803967 CACATCCTTGCTCTTAAATTTGCTC 59.196 40.000 0.00 0.00 0.00 4.26
179 180 5.717119 CACATCCTTGCTCTTAAATTTGCT 58.283 37.500 0.00 0.00 0.00 3.91
180 181 4.328169 GCACATCCTTGCTCTTAAATTTGC 59.672 41.667 0.00 0.00 39.59 3.68
192 193 3.441572 ACAACAGAATAGCACATCCTTGC 59.558 43.478 0.00 0.00 43.34 4.01
193 194 5.633830 AACAACAGAATAGCACATCCTTG 57.366 39.130 0.00 0.00 0.00 3.61
194 195 4.393062 CGAACAACAGAATAGCACATCCTT 59.607 41.667 0.00 0.00 0.00 3.36
195 196 3.935203 CGAACAACAGAATAGCACATCCT 59.065 43.478 0.00 0.00 0.00 3.24
196 197 3.684788 ACGAACAACAGAATAGCACATCC 59.315 43.478 0.00 0.00 0.00 3.51
197 198 4.928661 ACGAACAACAGAATAGCACATC 57.071 40.909 0.00 0.00 0.00 3.06
198 199 5.479306 ACTACGAACAACAGAATAGCACAT 58.521 37.500 0.00 0.00 0.00 3.21
199 200 4.878439 ACTACGAACAACAGAATAGCACA 58.122 39.130 0.00 0.00 0.00 4.57
200 201 4.326548 GGACTACGAACAACAGAATAGCAC 59.673 45.833 0.00 0.00 0.00 4.40
201 202 4.021807 TGGACTACGAACAACAGAATAGCA 60.022 41.667 0.00 0.00 0.00 3.49
202 203 4.491676 TGGACTACGAACAACAGAATAGC 58.508 43.478 0.00 0.00 0.00 2.97
203 204 6.255887 GGAATGGACTACGAACAACAGAATAG 59.744 42.308 0.00 0.00 0.00 1.73
204 205 6.103997 GGAATGGACTACGAACAACAGAATA 58.896 40.000 0.00 0.00 0.00 1.75
205 206 4.935808 GGAATGGACTACGAACAACAGAAT 59.064 41.667 0.00 0.00 0.00 2.40
206 207 4.202274 TGGAATGGACTACGAACAACAGAA 60.202 41.667 0.00 0.00 0.00 3.02
207 208 3.322541 TGGAATGGACTACGAACAACAGA 59.677 43.478 0.00 0.00 0.00 3.41
208 209 3.432252 GTGGAATGGACTACGAACAACAG 59.568 47.826 0.00 0.00 0.00 3.16
209 210 3.395639 GTGGAATGGACTACGAACAACA 58.604 45.455 0.00 0.00 0.00 3.33
210 211 2.740447 GGTGGAATGGACTACGAACAAC 59.260 50.000 0.00 0.00 0.00 3.32
211 212 2.635915 AGGTGGAATGGACTACGAACAA 59.364 45.455 0.00 0.00 0.00 2.83
212 213 2.253610 AGGTGGAATGGACTACGAACA 58.746 47.619 0.00 0.00 0.00 3.18
213 214 3.329929 AAGGTGGAATGGACTACGAAC 57.670 47.619 0.00 0.00 0.00 3.95
214 215 5.424252 AGATAAAGGTGGAATGGACTACGAA 59.576 40.000 0.00 0.00 0.00 3.85
215 216 4.960469 AGATAAAGGTGGAATGGACTACGA 59.040 41.667 0.00 0.00 0.00 3.43
254 255 8.579006 TCATCACATTCTGCTTTGTTAAGAAAT 58.421 29.630 0.00 0.00 33.86 2.17
456 457 5.929058 TGCATTTTCCATATGTAAGCCAA 57.071 34.783 1.24 0.00 0.00 4.52
478 479 4.951715 TGCATTGGTAGCTTCAAGATGAAT 59.048 37.500 0.00 0.00 35.59 2.57
571 573 2.481795 GCAGCAGAGTTTGAGGCAAAAA 60.482 45.455 0.00 0.00 35.03 1.94
572 574 1.067516 GCAGCAGAGTTTGAGGCAAAA 59.932 47.619 0.00 0.00 35.03 2.44
631 633 1.769026 AGATCTCGCTCAGCCAAGTA 58.231 50.000 0.00 0.00 0.00 2.24
696 698 3.521727 ACCACTAACTTCCTCCATCTGT 58.478 45.455 0.00 0.00 0.00 3.41
704 706 4.162509 GCATAGGAGAACCACTAACTTCCT 59.837 45.833 0.00 0.00 38.94 3.36
715 717 3.281727 TCATGTTGGCATAGGAGAACC 57.718 47.619 0.00 0.00 33.30 3.62
853 855 0.541392 ACAATGATCCGCACTAGGCA 59.459 50.000 0.00 0.00 45.17 4.75
859 861 6.734337 TAAGCATTGCACAATGATCCGCAC 62.734 45.833 23.92 7.06 45.49 5.34
930 936 2.663826 AAGGAGACTGATCTTGACGC 57.336 50.000 0.00 0.00 42.68 5.19
952 958 2.942376 TCTGCTCGCTCACTTTTGAAAA 59.058 40.909 0.00 0.00 0.00 2.29
1107 1114 6.924060 AGCCTATAAAACAACGAGCTACTATG 59.076 38.462 0.00 0.00 0.00 2.23
1304 1311 6.183360 TGCCATTGGTAATGATTCTACTACGA 60.183 38.462 4.26 0.00 41.46 3.43
1330 1337 3.339731 GCACTTAGGCGCACAACA 58.660 55.556 10.83 0.00 0.00 3.33
1394 1401 4.651778 AGTGGCATTTAGAAGTGTTGCTA 58.348 39.130 0.00 0.00 33.86 3.49
1499 1506 5.248477 AGGTCTATGGTAGAAGCTTTGAACA 59.752 40.000 0.00 0.37 36.40 3.18
1673 1685 4.384427 GGGGCATGACATCCAAAATTCATT 60.384 41.667 0.00 0.00 0.00 2.57
1842 1858 3.966665 GGGGAAAAATCAATATGGAGCCA 59.033 43.478 0.00 0.00 0.00 4.75
1887 1903 3.887621 TCTGTTGGTTTATCCTCGAGG 57.112 47.619 26.32 26.32 37.07 4.63
1888 1904 7.210174 TGATATTCTGTTGGTTTATCCTCGAG 58.790 38.462 5.13 5.13 37.07 4.04
1889 1905 7.119709 TGATATTCTGTTGGTTTATCCTCGA 57.880 36.000 0.00 0.00 37.07 4.04
1890 1906 7.657354 TGATGATATTCTGTTGGTTTATCCTCG 59.343 37.037 0.00 0.00 37.07 4.63
1891 1907 8.908786 TGATGATATTCTGTTGGTTTATCCTC 57.091 34.615 0.00 0.00 37.07 3.71
1892 1908 9.125026 GTTGATGATATTCTGTTGGTTTATCCT 57.875 33.333 0.00 0.00 37.07 3.24
1893 1909 8.902806 TGTTGATGATATTCTGTTGGTTTATCC 58.097 33.333 0.00 0.00 0.00 2.59
1897 1913 9.241919 TGTATGTTGATGATATTCTGTTGGTTT 57.758 29.630 0.00 0.00 0.00 3.27
1898 1914 8.806429 TGTATGTTGATGATATTCTGTTGGTT 57.194 30.769 0.00 0.00 0.00 3.67
1899 1915 8.677300 GTTGTATGTTGATGATATTCTGTTGGT 58.323 33.333 0.00 0.00 0.00 3.67
1900 1916 8.676401 TGTTGTATGTTGATGATATTCTGTTGG 58.324 33.333 0.00 0.00 0.00 3.77
1903 1919 9.230122 TGTTGTTGTATGTTGATGATATTCTGT 57.770 29.630 0.00 0.00 0.00 3.41
1904 1920 9.712359 CTGTTGTTGTATGTTGATGATATTCTG 57.288 33.333 0.00 0.00 0.00 3.02
1905 1921 9.671279 TCTGTTGTTGTATGTTGATGATATTCT 57.329 29.630 0.00 0.00 0.00 2.40
1938 1954 3.821421 ATCAGTTTATCCTCGTGGACC 57.179 47.619 8.68 0.00 46.51 4.46
1943 1959 5.571784 TGTTCGTATCAGTTTATCCTCGT 57.428 39.130 0.00 0.00 0.00 4.18
1969 1985 2.287849 GCTCGGAGTGATCATGATTCGA 60.288 50.000 10.14 12.59 0.00 3.71
2075 2091 3.893200 TCTTCTCTTGTCCGTCCTTTACA 59.107 43.478 0.00 0.00 0.00 2.41
2085 2101 4.562552 CCCTTCTGACTTCTTCTCTTGTCC 60.563 50.000 0.00 0.00 0.00 4.02
2122 2138 1.630148 CGCACCTAGAAAAGACGGAG 58.370 55.000 0.00 0.00 0.00 4.63
2172 2188 5.780282 ACGAATGACCCAATCTATCTATGGA 59.220 40.000 0.00 0.00 36.27 3.41
2330 2346 2.239150 AGCTGCTGATTGATTGAGGAGT 59.761 45.455 0.00 0.00 0.00 3.85
2331 2347 2.920524 AGCTGCTGATTGATTGAGGAG 58.079 47.619 0.00 0.00 0.00 3.69
2338 2354 5.180868 GGAATCGAATAAGCTGCTGATTGAT 59.819 40.000 16.92 15.15 0.00 2.57
2538 2554 3.809279 CGCAGAATGATGTAACCATGCTA 59.191 43.478 0.00 0.00 39.69 3.49


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

AutoCloner maintained by Alex Coulton.