Multiple sequence alignment - TraesCS7D01G426700

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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 TraesCS7D01G426700 chr7D 100.000 2857 0 0 1 2857 547682449 547679593 0.000000e+00 5276
1 TraesCS7D01G426700 chr7A 91.926 2700 100 41 231 2855 630868872 630871528 0.000000e+00 3670
2 TraesCS7D01G426700 chr7B 89.284 2697 148 64 231 2857 590843546 590840921 0.000000e+00 3249
3 TraesCS7D01G426700 chr6A 81.081 407 53 20 1091 1482 103758906 103758509 1.290000e-78 303
4 TraesCS7D01G426700 chr6D 80.500 400 58 17 1099 1482 86142870 86142475 3.600000e-74 289
5 TraesCS7D01G426700 chr6B 80.597 402 54 18 1099 1482 163230041 163229646 3.600000e-74 289
6 TraesCS7D01G426700 chr4A 88.739 222 25 0 1 222 157337915 157338136 3.630000e-69 272
7 TraesCS7D01G426700 chr4D 87.665 227 27 1 1 227 441072266 441072491 2.180000e-66 263
8 TraesCS7D01G426700 chrUn 87.387 222 25 2 1 222 109055232 109055014 4.730000e-63 252
9 TraesCS7D01G426700 chrUn 83.929 224 30 2 1 219 357021714 357021936 2.880000e-50 209
10 TraesCS7D01G426700 chr5A 84.348 230 30 2 1 225 704089489 704089717 1.330000e-53 220
11 TraesCS7D01G426700 chr5A 84.348 230 30 2 1 225 704198299 704198527 1.330000e-53 220
12 TraesCS7D01G426700 chr5A 84.348 230 30 2 1 225 704241333 704241561 1.330000e-53 220
13 TraesCS7D01G426700 chr5A 83.929 224 30 2 1 219 704120034 704120256 2.880000e-50 209
14 TraesCS7D01G426700 chr5A 83.929 224 30 2 1 219 704329052 704329274 2.880000e-50 209


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 TraesCS7D01G426700 chr7D 547679593 547682449 2856 True 5276 5276 100.000 1 2857 1 chr7D.!!$R1 2856
1 TraesCS7D01G426700 chr7A 630868872 630871528 2656 False 3670 3670 91.926 231 2855 1 chr7A.!!$F1 2624
2 TraesCS7D01G426700 chr7B 590840921 590843546 2625 True 3249 3249 89.284 231 2857 1 chr7B.!!$R1 2626

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
234 235 0.108329 CCTACCGTTGCCGTGAAGAT 60.108 55.0 0.0 0.0 0.0 2.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2011 2115 1.805428 AATGGTGAAGCGGTGGCAAC 61.805 55.0 0.0 0.0 43.41 4.17 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
19 20 2.358939 GACCATACACCGAACGAACT 57.641 50.000 0.00 0.00 0.00 3.01
20 21 3.492421 GACCATACACCGAACGAACTA 57.508 47.619 0.00 0.00 0.00 2.24
21 22 3.432782 GACCATACACCGAACGAACTAG 58.567 50.000 0.00 0.00 0.00 2.57
22 23 2.821969 ACCATACACCGAACGAACTAGT 59.178 45.455 0.00 0.00 0.00 2.57
23 24 3.119708 ACCATACACCGAACGAACTAGTC 60.120 47.826 0.00 0.00 0.00 2.59
24 25 3.128242 CCATACACCGAACGAACTAGTCT 59.872 47.826 0.00 0.00 0.00 3.24
25 26 2.701073 ACACCGAACGAACTAGTCTG 57.299 50.000 0.00 0.00 0.00 3.51
26 27 1.952296 ACACCGAACGAACTAGTCTGT 59.048 47.619 0.00 0.00 0.00 3.41
27 28 2.031333 ACACCGAACGAACTAGTCTGTC 60.031 50.000 0.00 0.00 0.00 3.51
28 29 1.538950 ACCGAACGAACTAGTCTGTCC 59.461 52.381 0.00 0.00 0.00 4.02
29 30 1.135460 CCGAACGAACTAGTCTGTCCC 60.135 57.143 0.00 0.00 0.00 4.46
30 31 1.135460 CGAACGAACTAGTCTGTCCCC 60.135 57.143 0.00 0.00 0.00 4.81
31 32 2.169330 GAACGAACTAGTCTGTCCCCT 58.831 52.381 0.00 0.00 0.00 4.79
32 33 1.546961 ACGAACTAGTCTGTCCCCTG 58.453 55.000 0.00 0.00 0.00 4.45
33 34 1.075050 ACGAACTAGTCTGTCCCCTGA 59.925 52.381 0.00 0.00 0.00 3.86
34 35 2.291670 ACGAACTAGTCTGTCCCCTGAT 60.292 50.000 0.00 0.00 0.00 2.90
35 36 3.053842 ACGAACTAGTCTGTCCCCTGATA 60.054 47.826 0.00 0.00 0.00 2.15
36 37 3.566322 CGAACTAGTCTGTCCCCTGATAG 59.434 52.174 0.00 0.00 0.00 2.08
37 38 4.686396 CGAACTAGTCTGTCCCCTGATAGA 60.686 50.000 0.00 0.00 36.51 1.98
38 39 5.390387 GAACTAGTCTGTCCCCTGATAGAT 58.610 45.833 0.00 0.00 40.34 1.98
39 40 6.532119 AACTAGTCTGTCCCCTGATAGATA 57.468 41.667 0.00 0.00 40.34 1.98
40 41 6.134535 ACTAGTCTGTCCCCTGATAGATAG 57.865 45.833 0.00 0.00 40.34 2.08
41 42 4.396357 AGTCTGTCCCCTGATAGATAGG 57.604 50.000 0.00 0.00 40.34 2.57
42 43 3.990933 AGTCTGTCCCCTGATAGATAGGA 59.009 47.826 0.00 0.00 40.34 2.94
43 44 4.610256 AGTCTGTCCCCTGATAGATAGGAT 59.390 45.833 0.00 0.00 40.34 3.24
44 45 5.798518 AGTCTGTCCCCTGATAGATAGGATA 59.201 44.000 0.00 0.00 40.34 2.59
45 46 6.278239 AGTCTGTCCCCTGATAGATAGGATAA 59.722 42.308 0.00 0.00 40.34 1.75
46 47 6.954684 GTCTGTCCCCTGATAGATAGGATAAA 59.045 42.308 0.00 0.00 40.34 1.40
47 48 7.123547 GTCTGTCCCCTGATAGATAGGATAAAG 59.876 44.444 0.00 0.00 40.34 1.85
48 49 5.721960 TGTCCCCTGATAGATAGGATAAAGC 59.278 44.000 0.00 0.00 37.52 3.51
49 50 5.129650 GTCCCCTGATAGATAGGATAAAGCC 59.870 48.000 0.00 0.00 37.52 4.35
50 51 5.017866 TCCCCTGATAGATAGGATAAAGCCT 59.982 44.000 0.00 0.00 42.15 4.58
51 52 5.365314 CCCCTGATAGATAGGATAAAGCCTC 59.635 48.000 0.00 0.00 39.50 4.70
52 53 5.960811 CCCTGATAGATAGGATAAAGCCTCA 59.039 44.000 0.00 0.00 39.50 3.86
53 54 6.127196 CCCTGATAGATAGGATAAAGCCTCAC 60.127 46.154 0.00 0.00 39.50 3.51
54 55 6.667414 CCTGATAGATAGGATAAAGCCTCACT 59.333 42.308 0.00 0.00 39.50 3.41
55 56 7.180051 CCTGATAGATAGGATAAAGCCTCACTT 59.820 40.741 0.00 0.00 39.50 3.16
56 57 7.901029 TGATAGATAGGATAAAGCCTCACTTG 58.099 38.462 0.00 0.00 39.09 3.16
57 58 7.730332 TGATAGATAGGATAAAGCCTCACTTGA 59.270 37.037 0.00 0.00 39.09 3.02
58 59 6.418057 AGATAGGATAAAGCCTCACTTGAG 57.582 41.667 0.00 0.00 39.09 3.02
59 60 5.902431 AGATAGGATAAAGCCTCACTTGAGT 59.098 40.000 5.53 0.00 39.09 3.41
60 61 4.479786 AGGATAAAGCCTCACTTGAGTC 57.520 45.455 5.53 0.00 39.09 3.36
61 62 3.840666 AGGATAAAGCCTCACTTGAGTCA 59.159 43.478 5.53 0.00 39.09 3.41
62 63 4.081198 AGGATAAAGCCTCACTTGAGTCAG 60.081 45.833 5.53 0.00 39.09 3.51
63 64 4.081420 GGATAAAGCCTCACTTGAGTCAGA 60.081 45.833 5.53 0.00 39.09 3.27
64 65 5.396213 GGATAAAGCCTCACTTGAGTCAGAT 60.396 44.000 5.53 0.00 39.09 2.90
65 66 4.363991 AAAGCCTCACTTGAGTCAGATT 57.636 40.909 5.53 0.00 39.09 2.40
66 67 3.331478 AGCCTCACTTGAGTCAGATTG 57.669 47.619 5.53 0.00 40.48 2.67
67 68 2.027377 AGCCTCACTTGAGTCAGATTGG 60.027 50.000 5.53 0.00 40.48 3.16
68 69 2.027745 GCCTCACTTGAGTCAGATTGGA 60.028 50.000 5.53 0.00 40.48 3.53
69 70 3.594134 CCTCACTTGAGTCAGATTGGAC 58.406 50.000 5.53 0.00 40.48 4.02
70 71 3.007290 CCTCACTTGAGTCAGATTGGACA 59.993 47.826 5.53 0.00 40.48 4.02
71 72 4.503817 CCTCACTTGAGTCAGATTGGACAA 60.504 45.833 5.53 0.00 40.48 3.18
72 73 5.233083 TCACTTGAGTCAGATTGGACAAT 57.767 39.130 0.00 0.00 40.29 2.71
73 74 4.999311 TCACTTGAGTCAGATTGGACAATG 59.001 41.667 1.69 0.00 40.29 2.82
74 75 4.999311 CACTTGAGTCAGATTGGACAATGA 59.001 41.667 1.69 0.00 40.29 2.57
75 76 4.999950 ACTTGAGTCAGATTGGACAATGAC 59.000 41.667 1.69 6.49 40.29 3.06
76 77 4.897509 TGAGTCAGATTGGACAATGACT 57.102 40.909 16.81 16.81 40.29 3.41
77 78 4.572909 TGAGTCAGATTGGACAATGACTG 58.427 43.478 20.08 13.73 40.29 3.51
78 79 4.284234 TGAGTCAGATTGGACAATGACTGA 59.716 41.667 20.08 15.34 40.29 3.41
79 80 5.221702 TGAGTCAGATTGGACAATGACTGAA 60.222 40.000 20.08 9.76 40.29 3.02
80 81 5.624159 AGTCAGATTGGACAATGACTGAAA 58.376 37.500 16.34 0.00 40.29 2.69
81 82 5.704515 AGTCAGATTGGACAATGACTGAAAG 59.295 40.000 16.34 0.00 40.29 2.62
82 83 5.702670 GTCAGATTGGACAATGACTGAAAGA 59.297 40.000 14.33 0.00 35.09 2.52
83 84 5.702670 TCAGATTGGACAATGACTGAAAGAC 59.297 40.000 11.69 0.00 37.43 3.01
84 85 5.704515 CAGATTGGACAATGACTGAAAGACT 59.295 40.000 1.69 0.00 37.43 3.24
85 86 5.704515 AGATTGGACAATGACTGAAAGACTG 59.295 40.000 1.69 0.00 37.43 3.51
86 87 3.743521 TGGACAATGACTGAAAGACTGG 58.256 45.455 0.00 0.00 37.43 4.00
87 88 3.390967 TGGACAATGACTGAAAGACTGGA 59.609 43.478 0.00 0.00 37.43 3.86
88 89 4.141505 TGGACAATGACTGAAAGACTGGAA 60.142 41.667 0.00 0.00 37.43 3.53
89 90 5.006386 GGACAATGACTGAAAGACTGGAAT 58.994 41.667 0.00 0.00 37.43 3.01
90 91 5.106396 GGACAATGACTGAAAGACTGGAATG 60.106 44.000 0.00 0.00 37.43 2.67
91 92 5.380043 ACAATGACTGAAAGACTGGAATGT 58.620 37.500 0.00 0.00 37.43 2.71
92 93 5.829924 ACAATGACTGAAAGACTGGAATGTT 59.170 36.000 0.00 0.00 37.43 2.71
93 94 5.954296 ATGACTGAAAGACTGGAATGTTG 57.046 39.130 0.00 0.00 37.43 3.33
94 95 4.780815 TGACTGAAAGACTGGAATGTTGT 58.219 39.130 0.00 0.00 37.43 3.32
95 96 5.924356 TGACTGAAAGACTGGAATGTTGTA 58.076 37.500 0.00 0.00 37.43 2.41
96 97 6.533730 TGACTGAAAGACTGGAATGTTGTAT 58.466 36.000 0.00 0.00 37.43 2.29
97 98 7.676004 TGACTGAAAGACTGGAATGTTGTATA 58.324 34.615 0.00 0.00 37.43 1.47
98 99 7.819415 TGACTGAAAGACTGGAATGTTGTATAG 59.181 37.037 0.00 0.00 37.43 1.31
99 100 6.595716 ACTGAAAGACTGGAATGTTGTATAGC 59.404 38.462 0.00 0.00 37.43 2.97
100 101 6.472016 TGAAAGACTGGAATGTTGTATAGCA 58.528 36.000 0.00 0.00 0.00 3.49
101 102 6.939730 TGAAAGACTGGAATGTTGTATAGCAA 59.060 34.615 0.00 0.00 34.16 3.91
102 103 6.992063 AAGACTGGAATGTTGTATAGCAAG 57.008 37.500 0.00 0.00 37.83 4.01
103 104 4.878397 AGACTGGAATGTTGTATAGCAAGC 59.122 41.667 0.00 0.00 37.83 4.01
104 105 3.623060 ACTGGAATGTTGTATAGCAAGCG 59.377 43.478 0.00 0.00 37.83 4.68
105 106 3.605634 TGGAATGTTGTATAGCAAGCGT 58.394 40.909 0.00 0.00 37.83 5.07
106 107 3.621268 TGGAATGTTGTATAGCAAGCGTC 59.379 43.478 0.00 0.00 37.83 5.19
107 108 3.621268 GGAATGTTGTATAGCAAGCGTCA 59.379 43.478 0.00 0.00 37.83 4.35
108 109 4.273480 GGAATGTTGTATAGCAAGCGTCAT 59.727 41.667 0.00 0.00 37.83 3.06
109 110 5.220854 GGAATGTTGTATAGCAAGCGTCATT 60.221 40.000 0.00 0.00 37.83 2.57
110 111 4.857871 TGTTGTATAGCAAGCGTCATTC 57.142 40.909 0.00 0.00 37.83 2.67
111 112 3.621268 TGTTGTATAGCAAGCGTCATTCC 59.379 43.478 0.00 0.00 37.83 3.01
112 113 3.819564 TGTATAGCAAGCGTCATTCCT 57.180 42.857 0.00 0.00 0.00 3.36
113 114 4.137116 TGTATAGCAAGCGTCATTCCTT 57.863 40.909 0.00 0.00 0.00 3.36
114 115 3.871006 TGTATAGCAAGCGTCATTCCTTG 59.129 43.478 0.00 0.00 40.97 3.61
119 120 3.763097 CAAGCGTCATTCCTTGCATAA 57.237 42.857 0.00 0.00 32.94 1.90
120 121 4.297299 CAAGCGTCATTCCTTGCATAAT 57.703 40.909 0.00 0.00 32.94 1.28
121 122 4.675510 CAAGCGTCATTCCTTGCATAATT 58.324 39.130 0.00 0.00 32.94 1.40
122 123 4.297299 AGCGTCATTCCTTGCATAATTG 57.703 40.909 0.00 0.00 0.00 2.32
135 136 3.439932 CATAATTGCACGTATCTCCGC 57.560 47.619 0.00 0.00 0.00 5.54
136 137 2.588027 TAATTGCACGTATCTCCGCA 57.412 45.000 0.00 0.00 0.00 5.69
137 138 1.953559 AATTGCACGTATCTCCGCAT 58.046 45.000 0.00 0.00 33.71 4.73
138 139 1.502231 ATTGCACGTATCTCCGCATC 58.498 50.000 0.00 0.00 33.71 3.91
139 140 0.869880 TTGCACGTATCTCCGCATCG 60.870 55.000 0.00 0.00 33.71 3.84
140 141 1.008881 GCACGTATCTCCGCATCGA 60.009 57.895 0.00 0.00 0.00 3.59
141 142 0.999228 GCACGTATCTCCGCATCGAG 60.999 60.000 0.00 0.00 0.00 4.04
142 143 0.308068 CACGTATCTCCGCATCGAGT 59.692 55.000 0.00 0.00 0.00 4.18
143 144 0.308068 ACGTATCTCCGCATCGAGTG 59.692 55.000 0.00 0.00 0.00 3.51
156 157 4.732285 CATCGAGTGCTTTGTTACAGTT 57.268 40.909 0.00 0.00 0.00 3.16
157 158 4.457810 CATCGAGTGCTTTGTTACAGTTG 58.542 43.478 0.00 0.00 0.00 3.16
158 159 3.787785 TCGAGTGCTTTGTTACAGTTGA 58.212 40.909 0.00 0.00 0.00 3.18
159 160 4.185394 TCGAGTGCTTTGTTACAGTTGAA 58.815 39.130 0.00 0.00 28.71 2.69
160 161 4.632251 TCGAGTGCTTTGTTACAGTTGAAA 59.368 37.500 0.00 0.00 28.71 2.69
161 162 5.122554 TCGAGTGCTTTGTTACAGTTGAAAA 59.877 36.000 0.00 0.00 28.71 2.29
162 163 5.971202 CGAGTGCTTTGTTACAGTTGAAAAT 59.029 36.000 0.00 0.00 0.00 1.82
163 164 7.011576 TCGAGTGCTTTGTTACAGTTGAAAATA 59.988 33.333 0.00 0.00 28.71 1.40
164 165 7.642194 CGAGTGCTTTGTTACAGTTGAAAATAA 59.358 33.333 0.00 0.00 0.00 1.40
165 166 9.296400 GAGTGCTTTGTTACAGTTGAAAATAAA 57.704 29.630 0.00 0.00 0.00 1.40
166 167 9.083080 AGTGCTTTGTTACAGTTGAAAATAAAC 57.917 29.630 0.00 0.00 0.00 2.01
167 168 8.325282 GTGCTTTGTTACAGTTGAAAATAAACC 58.675 33.333 0.00 0.00 0.00 3.27
168 169 7.221067 TGCTTTGTTACAGTTGAAAATAAACCG 59.779 33.333 0.00 0.00 0.00 4.44
169 170 7.432838 GCTTTGTTACAGTTGAAAATAAACCGA 59.567 33.333 0.00 0.00 0.00 4.69
170 171 9.458374 CTTTGTTACAGTTGAAAATAAACCGAT 57.542 29.630 0.00 0.00 0.00 4.18
174 175 9.006215 GTTACAGTTGAAAATAAACCGATATGC 57.994 33.333 0.00 0.00 0.00 3.14
175 176 7.391148 ACAGTTGAAAATAAACCGATATGCT 57.609 32.000 0.00 0.00 0.00 3.79
176 177 7.250569 ACAGTTGAAAATAAACCGATATGCTG 58.749 34.615 0.00 0.00 0.00 4.41
177 178 6.197096 CAGTTGAAAATAAACCGATATGCTGC 59.803 38.462 0.00 0.00 0.00 5.25
178 179 5.826601 TGAAAATAAACCGATATGCTGCA 57.173 34.783 4.13 4.13 0.00 4.41
179 180 6.201226 TGAAAATAAACCGATATGCTGCAA 57.799 33.333 6.36 0.00 0.00 4.08
180 181 6.264832 TGAAAATAAACCGATATGCTGCAAG 58.735 36.000 6.36 0.00 0.00 4.01
181 182 6.094742 TGAAAATAAACCGATATGCTGCAAGA 59.905 34.615 6.36 0.00 34.07 3.02
182 183 6.449635 AAATAAACCGATATGCTGCAAGAA 57.550 33.333 6.36 0.00 34.07 2.52
183 184 6.639632 AATAAACCGATATGCTGCAAGAAT 57.360 33.333 6.36 0.30 35.34 2.40
184 185 7.744087 AATAAACCGATATGCTGCAAGAATA 57.256 32.000 6.36 0.00 39.27 1.75
185 186 7.744087 ATAAACCGATATGCTGCAAGAATAA 57.256 32.000 6.36 0.00 38.17 1.40
186 187 5.424121 AACCGATATGCTGCAAGAATAAC 57.576 39.130 6.36 0.00 38.17 1.89
187 188 4.708177 ACCGATATGCTGCAAGAATAACT 58.292 39.130 6.36 0.00 38.17 2.24
188 189 4.512944 ACCGATATGCTGCAAGAATAACTG 59.487 41.667 6.36 0.00 38.17 3.16
189 190 4.751600 CCGATATGCTGCAAGAATAACTGA 59.248 41.667 6.36 0.00 38.17 3.41
190 191 5.237127 CCGATATGCTGCAAGAATAACTGAA 59.763 40.000 6.36 0.00 38.17 3.02
191 192 6.132056 CGATATGCTGCAAGAATAACTGAAC 58.868 40.000 6.36 0.00 38.17 3.18
192 193 4.708726 ATGCTGCAAGAATAACTGAACC 57.291 40.909 6.36 0.00 34.07 3.62
193 194 3.485394 TGCTGCAAGAATAACTGAACCA 58.515 40.909 0.00 0.00 34.07 3.67
194 195 4.081406 TGCTGCAAGAATAACTGAACCAT 58.919 39.130 0.00 0.00 34.07 3.55
195 196 4.156556 TGCTGCAAGAATAACTGAACCATC 59.843 41.667 0.00 0.00 34.07 3.51
196 197 4.156556 GCTGCAAGAATAACTGAACCATCA 59.843 41.667 0.00 0.00 34.07 3.07
197 198 5.163581 GCTGCAAGAATAACTGAACCATCAT 60.164 40.000 0.00 0.00 34.07 2.45
198 199 6.198650 TGCAAGAATAACTGAACCATCATG 57.801 37.500 0.00 0.00 34.37 3.07
199 200 5.711506 TGCAAGAATAACTGAACCATCATGT 59.288 36.000 0.00 0.00 34.37 3.21
200 201 6.209192 TGCAAGAATAACTGAACCATCATGTT 59.791 34.615 0.00 0.00 34.37 2.71
201 202 6.529125 GCAAGAATAACTGAACCATCATGTTG 59.471 38.462 0.00 0.00 34.37 3.33
202 203 7.596494 CAAGAATAACTGAACCATCATGTTGT 58.404 34.615 3.19 0.00 34.37 3.32
203 204 7.383102 AGAATAACTGAACCATCATGTTGTC 57.617 36.000 3.19 0.00 34.37 3.18
204 205 5.801350 ATAACTGAACCATCATGTTGTCG 57.199 39.130 3.19 0.00 34.37 4.35
205 206 2.426522 ACTGAACCATCATGTTGTCGG 58.573 47.619 3.19 3.08 34.37 4.79
206 207 2.038426 ACTGAACCATCATGTTGTCGGA 59.962 45.455 9.18 0.00 34.37 4.55
207 208 2.674852 CTGAACCATCATGTTGTCGGAG 59.325 50.000 3.19 0.00 34.37 4.63
208 209 2.301583 TGAACCATCATGTTGTCGGAGA 59.698 45.455 3.19 0.00 0.00 3.71
209 210 3.244387 TGAACCATCATGTTGTCGGAGAA 60.244 43.478 3.19 0.00 39.69 2.87
210 211 3.634397 ACCATCATGTTGTCGGAGAAT 57.366 42.857 3.19 0.00 39.69 2.40
211 212 3.535561 ACCATCATGTTGTCGGAGAATC 58.464 45.455 3.19 0.00 39.69 2.52
212 213 3.055167 ACCATCATGTTGTCGGAGAATCA 60.055 43.478 3.19 0.00 39.69 2.57
213 214 4.132336 CCATCATGTTGTCGGAGAATCAT 58.868 43.478 3.19 0.00 39.69 2.45
214 215 4.212847 CCATCATGTTGTCGGAGAATCATC 59.787 45.833 3.19 0.00 39.69 2.92
215 216 3.797039 TCATGTTGTCGGAGAATCATCC 58.203 45.455 0.00 0.00 39.69 3.51
216 217 2.691409 TGTTGTCGGAGAATCATCCC 57.309 50.000 0.00 0.00 39.69 3.85
217 218 2.187958 TGTTGTCGGAGAATCATCCCT 58.812 47.619 0.00 0.00 39.69 4.20
218 219 3.371034 TGTTGTCGGAGAATCATCCCTA 58.629 45.455 0.00 0.00 39.69 3.53
219 220 3.132289 TGTTGTCGGAGAATCATCCCTAC 59.868 47.826 0.00 0.00 39.69 3.18
220 221 2.317040 TGTCGGAGAATCATCCCTACC 58.683 52.381 0.00 0.00 39.69 3.18
221 222 1.269998 GTCGGAGAATCATCCCTACCG 59.730 57.143 0.00 0.00 39.69 4.02
222 223 1.133575 TCGGAGAATCATCCCTACCGT 60.134 52.381 0.00 0.00 39.84 4.83
223 224 1.687123 CGGAGAATCATCCCTACCGTT 59.313 52.381 0.00 0.00 35.82 4.44
224 225 2.545952 CGGAGAATCATCCCTACCGTTG 60.546 54.545 0.00 0.00 35.82 4.10
225 226 2.484889 GAGAATCATCCCTACCGTTGC 58.515 52.381 0.00 0.00 33.17 4.17
226 227 1.141053 AGAATCATCCCTACCGTTGCC 59.859 52.381 0.00 0.00 0.00 4.52
227 228 0.179056 AATCATCCCTACCGTTGCCG 60.179 55.000 0.00 0.00 0.00 5.69
228 229 1.335132 ATCATCCCTACCGTTGCCGT 61.335 55.000 0.00 0.00 0.00 5.68
229 230 1.813753 CATCCCTACCGTTGCCGTG 60.814 63.158 0.00 0.00 0.00 4.94
230 231 1.985662 ATCCCTACCGTTGCCGTGA 60.986 57.895 0.00 0.00 0.00 4.35
231 232 1.546589 ATCCCTACCGTTGCCGTGAA 61.547 55.000 0.00 0.00 0.00 3.18
232 233 1.740296 CCCTACCGTTGCCGTGAAG 60.740 63.158 0.00 0.00 0.00 3.02
233 234 1.290955 CCTACCGTTGCCGTGAAGA 59.709 57.895 0.00 0.00 0.00 2.87
234 235 0.108329 CCTACCGTTGCCGTGAAGAT 60.108 55.000 0.00 0.00 0.00 2.40
235 236 0.999406 CTACCGTTGCCGTGAAGATG 59.001 55.000 0.00 0.00 0.00 2.90
301 303 1.008995 CGTGAAGCAACCAAACGGG 60.009 57.895 0.00 0.00 44.81 5.28
408 413 4.979815 CGTTGTTTCTTAACCCCAAATCAC 59.020 41.667 0.00 0.00 33.15 3.06
410 415 5.782893 TGTTTCTTAACCCCAAATCACTG 57.217 39.130 0.00 0.00 33.15 3.66
448 459 2.186160 CAGGGCAGAACACACGCAA 61.186 57.895 0.00 0.00 0.00 4.85
470 481 1.226717 GCTCGGGTCTCTACAAGCG 60.227 63.158 0.00 0.00 0.00 4.68
472 483 1.025812 CTCGGGTCTCTACAAGCGAT 58.974 55.000 0.00 0.00 0.00 4.58
495 506 1.000955 ACCAGAATATCGCCGCCTAAG 59.999 52.381 0.00 0.00 0.00 2.18
744 803 0.390603 CCGCAATCGTAGTGGTGGAA 60.391 55.000 0.00 0.00 32.72 3.53
820 889 4.320456 ACCACCAGACCAGCAGCG 62.320 66.667 0.00 0.00 0.00 5.18
892 969 1.452145 GAAACCAAAGCAGGCGTCCA 61.452 55.000 0.00 0.00 0.00 4.02
971 1068 0.598065 CGAGGGAGCCCAAACAAAAG 59.402 55.000 8.53 0.00 38.92 2.27
1351 1448 4.295119 ACCGTCACGTCCAGCCAC 62.295 66.667 0.00 0.00 0.00 5.01
1644 1741 3.955101 CCGCCTCTAGCTCGACGG 61.955 72.222 3.38 3.38 40.39 4.79
1873 1977 7.607607 TGTGAATAATTCAGTCATGTAAGCTGT 59.392 33.333 0.00 0.00 41.01 4.40
1920 2024 7.265673 TCCTTATCTTTCTCTGTGGTATTTCG 58.734 38.462 0.00 0.00 0.00 3.46
1921 2025 6.480320 CCTTATCTTTCTCTGTGGTATTTCGG 59.520 42.308 0.00 0.00 0.00 4.30
1926 2030 3.972133 TCTCTGTGGTATTTCGGGAGTA 58.028 45.455 0.00 0.00 0.00 2.59
2011 2115 3.740397 CACACATGCTGCCGGTGG 61.740 66.667 20.14 9.18 36.87 4.61
2067 2171 3.877874 TGCAAGTGCTGAAATGCAG 57.122 47.368 4.69 0.00 43.32 4.41
2160 2268 7.195646 TGCAAAATTTCATTATCCGATGTCTC 58.804 34.615 0.00 0.00 0.00 3.36
2255 2363 9.856488 TGTCTCATCTAAGTTTGTGTATCTAAC 57.144 33.333 0.00 0.00 33.31 2.34
2285 2393 5.176406 CGAAGAATACATAGCATGGTCACAG 59.824 44.000 0.00 0.00 33.60 3.66
2288 2396 4.778213 ATACATAGCATGGTCACAGGTT 57.222 40.909 0.00 0.00 33.60 3.50
2303 2411 6.438763 GTCACAGGTTCCTGAATTGTTAAAG 58.561 40.000 23.45 0.00 37.49 1.85
2343 2452 6.736519 GCATTGCAAGTTTGATGGATAGCATA 60.737 38.462 4.94 0.00 0.00 3.14
2352 2461 9.064706 AGTTTGATGGATAGCATAATCTGAAAG 57.935 33.333 0.00 0.00 0.00 2.62
2401 2514 3.664537 GCGTTTCTTCTTTCAAGCTACCG 60.665 47.826 0.00 0.00 0.00 4.02
2408 2521 4.546829 TCTTTCAAGCTACCGGTGTTAT 57.453 40.909 19.93 0.00 0.00 1.89
2433 2546 3.600388 AGAGAAAAGGCTACCGATGTTG 58.400 45.455 0.00 0.00 0.00 3.33
2540 2653 7.166473 GCTTGAAGCAATATCCTTTGAATAACG 59.834 37.037 13.09 0.00 41.89 3.18
2562 2675 2.106684 GGGATGGGAATGTAGACCCTTC 59.893 54.545 0.00 0.00 45.74 3.46
2567 2680 3.108376 GGGAATGTAGACCCTTCTGTCT 58.892 50.000 0.00 0.00 46.90 3.41
2623 2736 2.109126 GGCTGTCACATTCGGAGGC 61.109 63.158 0.00 0.00 0.00 4.70
2662 2775 1.142667 TCATCCTTGTGCTTGACCACA 59.857 47.619 0.00 0.00 43.48 4.17
2663 2776 1.267806 CATCCTTGTGCTTGACCACAC 59.732 52.381 0.00 0.00 44.72 3.82
2664 2777 0.465460 TCCTTGTGCTTGACCACACC 60.465 55.000 0.00 0.00 44.72 4.16
2665 2778 0.751277 CCTTGTGCTTGACCACACCA 60.751 55.000 0.00 0.00 44.72 4.17
2666 2779 1.321474 CTTGTGCTTGACCACACCAT 58.679 50.000 0.00 0.00 44.72 3.55
2811 2928 2.884012 TGTAAGGTGGATGCAACTGTTG 59.116 45.455 15.98 15.98 0.00 3.33
2831 2948 9.423061 ACTGTTGCTTTTTGGTATCATTAATTC 57.577 29.630 0.00 0.00 0.00 2.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.358939 AGTTCGTTCGGTGTATGGTC 57.641 50.000 0.00 0.00 0.00 4.02
2 3 3.128242 AGACTAGTTCGTTCGGTGTATGG 59.872 47.826 0.00 0.00 0.00 2.74
3 4 4.096311 CAGACTAGTTCGTTCGGTGTATG 58.904 47.826 0.00 0.00 0.00 2.39
4 5 3.755378 ACAGACTAGTTCGTTCGGTGTAT 59.245 43.478 0.00 0.00 0.00 2.29
5 6 3.141398 ACAGACTAGTTCGTTCGGTGTA 58.859 45.455 0.00 0.00 0.00 2.90
6 7 1.952296 ACAGACTAGTTCGTTCGGTGT 59.048 47.619 0.00 0.00 0.00 4.16
7 8 2.582687 GACAGACTAGTTCGTTCGGTG 58.417 52.381 0.00 0.00 0.00 4.94
8 9 1.538950 GGACAGACTAGTTCGTTCGGT 59.461 52.381 0.00 0.00 0.00 4.69
9 10 1.135460 GGGACAGACTAGTTCGTTCGG 60.135 57.143 0.00 0.00 0.00 4.30
10 11 1.135460 GGGGACAGACTAGTTCGTTCG 60.135 57.143 0.00 0.00 0.00 3.95
11 12 2.094649 CAGGGGACAGACTAGTTCGTTC 60.095 54.545 0.00 0.00 0.00 3.95
12 13 1.893801 CAGGGGACAGACTAGTTCGTT 59.106 52.381 0.00 0.00 0.00 3.85
13 14 1.075050 TCAGGGGACAGACTAGTTCGT 59.925 52.381 0.00 0.00 0.00 3.85
14 15 1.835494 TCAGGGGACAGACTAGTTCG 58.165 55.000 0.00 0.00 0.00 3.95
15 16 4.794334 TCTATCAGGGGACAGACTAGTTC 58.206 47.826 0.00 0.00 0.00 3.01
16 17 4.883021 TCTATCAGGGGACAGACTAGTT 57.117 45.455 0.00 0.00 0.00 2.24
17 18 5.014755 CCTATCTATCAGGGGACAGACTAGT 59.985 48.000 0.00 0.00 0.00 2.57
18 19 5.251932 TCCTATCTATCAGGGGACAGACTAG 59.748 48.000 0.00 0.00 33.66 2.57
19 20 5.170959 TCCTATCTATCAGGGGACAGACTA 58.829 45.833 0.00 0.00 33.66 2.59
20 21 3.990933 TCCTATCTATCAGGGGACAGACT 59.009 47.826 0.00 0.00 33.66 3.24
21 22 4.390129 TCCTATCTATCAGGGGACAGAC 57.610 50.000 0.00 0.00 33.66 3.51
22 23 6.736561 TTATCCTATCTATCAGGGGACAGA 57.263 41.667 0.00 0.00 33.66 3.41
23 24 6.127196 GCTTTATCCTATCTATCAGGGGACAG 60.127 46.154 0.00 0.00 33.66 3.51
24 25 5.721960 GCTTTATCCTATCTATCAGGGGACA 59.278 44.000 0.00 0.00 33.66 4.02
25 26 5.129650 GGCTTTATCCTATCTATCAGGGGAC 59.870 48.000 0.00 0.00 33.66 4.46
26 27 5.017866 AGGCTTTATCCTATCTATCAGGGGA 59.982 44.000 0.00 0.00 33.95 4.81
27 28 5.284582 AGGCTTTATCCTATCTATCAGGGG 58.715 45.833 0.00 0.00 33.95 4.79
28 29 5.960811 TGAGGCTTTATCCTATCTATCAGGG 59.039 44.000 0.00 0.00 36.38 4.45
29 30 6.667414 AGTGAGGCTTTATCCTATCTATCAGG 59.333 42.308 0.00 0.00 36.38 3.86
30 31 7.716799 AGTGAGGCTTTATCCTATCTATCAG 57.283 40.000 0.00 0.00 36.38 2.90
31 32 7.730332 TCAAGTGAGGCTTTATCCTATCTATCA 59.270 37.037 0.00 0.00 36.38 2.15
32 33 8.128322 TCAAGTGAGGCTTTATCCTATCTATC 57.872 38.462 0.00 0.00 36.38 2.08
33 34 7.732593 ACTCAAGTGAGGCTTTATCCTATCTAT 59.267 37.037 12.76 0.00 46.13 1.98
34 35 7.069986 ACTCAAGTGAGGCTTTATCCTATCTA 58.930 38.462 12.76 0.00 46.13 1.98
35 36 5.902431 ACTCAAGTGAGGCTTTATCCTATCT 59.098 40.000 12.76 0.00 46.13 1.98
36 37 6.168270 ACTCAAGTGAGGCTTTATCCTATC 57.832 41.667 12.76 0.00 46.13 2.08
37 38 6.168270 GACTCAAGTGAGGCTTTATCCTAT 57.832 41.667 12.76 0.00 46.61 2.57
38 39 5.599999 GACTCAAGTGAGGCTTTATCCTA 57.400 43.478 12.76 0.00 46.61 2.94
39 40 4.479786 GACTCAAGTGAGGCTTTATCCT 57.520 45.455 12.76 0.00 46.61 3.24
48 49 3.007290 TGTCCAATCTGACTCAAGTGAGG 59.993 47.826 12.76 0.00 46.13 3.86
50 51 4.687901 TTGTCCAATCTGACTCAAGTGA 57.312 40.909 0.00 0.00 36.21 3.41
51 52 4.999311 TCATTGTCCAATCTGACTCAAGTG 59.001 41.667 0.00 0.00 36.21 3.16
52 53 4.999950 GTCATTGTCCAATCTGACTCAAGT 59.000 41.667 6.54 0.00 36.21 3.16
53 54 5.121925 CAGTCATTGTCCAATCTGACTCAAG 59.878 44.000 11.47 1.42 34.08 3.02
54 55 4.999311 CAGTCATTGTCCAATCTGACTCAA 59.001 41.667 11.47 0.00 34.08 3.02
55 56 4.284234 TCAGTCATTGTCCAATCTGACTCA 59.716 41.667 11.47 0.00 34.08 3.41
56 57 4.825422 TCAGTCATTGTCCAATCTGACTC 58.175 43.478 11.47 0.00 34.08 3.36
57 58 4.897509 TCAGTCATTGTCCAATCTGACT 57.102 40.909 9.42 9.42 35.64 3.41
58 59 5.702670 TCTTTCAGTCATTGTCCAATCTGAC 59.297 40.000 9.63 7.83 33.87 3.51
59 60 5.702670 GTCTTTCAGTCATTGTCCAATCTGA 59.297 40.000 7.11 7.11 32.93 3.27
60 61 5.704515 AGTCTTTCAGTCATTGTCCAATCTG 59.295 40.000 3.51 3.51 0.00 2.90
61 62 5.704515 CAGTCTTTCAGTCATTGTCCAATCT 59.295 40.000 0.00 0.00 0.00 2.40
62 63 5.106396 CCAGTCTTTCAGTCATTGTCCAATC 60.106 44.000 0.00 0.00 0.00 2.67
63 64 4.763793 CCAGTCTTTCAGTCATTGTCCAAT 59.236 41.667 0.00 0.00 0.00 3.16
64 65 4.136796 CCAGTCTTTCAGTCATTGTCCAA 58.863 43.478 0.00 0.00 0.00 3.53
65 66 3.390967 TCCAGTCTTTCAGTCATTGTCCA 59.609 43.478 0.00 0.00 0.00 4.02
66 67 4.008074 TCCAGTCTTTCAGTCATTGTCC 57.992 45.455 0.00 0.00 0.00 4.02
67 68 5.471456 ACATTCCAGTCTTTCAGTCATTGTC 59.529 40.000 0.00 0.00 0.00 3.18
68 69 5.380043 ACATTCCAGTCTTTCAGTCATTGT 58.620 37.500 0.00 0.00 0.00 2.71
69 70 5.954296 ACATTCCAGTCTTTCAGTCATTG 57.046 39.130 0.00 0.00 0.00 2.82
70 71 5.829924 ACAACATTCCAGTCTTTCAGTCATT 59.170 36.000 0.00 0.00 0.00 2.57
71 72 5.380043 ACAACATTCCAGTCTTTCAGTCAT 58.620 37.500 0.00 0.00 0.00 3.06
72 73 4.780815 ACAACATTCCAGTCTTTCAGTCA 58.219 39.130 0.00 0.00 0.00 3.41
73 74 7.201565 GCTATACAACATTCCAGTCTTTCAGTC 60.202 40.741 0.00 0.00 0.00 3.51
74 75 6.595716 GCTATACAACATTCCAGTCTTTCAGT 59.404 38.462 0.00 0.00 0.00 3.41
75 76 6.595326 TGCTATACAACATTCCAGTCTTTCAG 59.405 38.462 0.00 0.00 0.00 3.02
76 77 6.472016 TGCTATACAACATTCCAGTCTTTCA 58.528 36.000 0.00 0.00 0.00 2.69
77 78 6.985188 TGCTATACAACATTCCAGTCTTTC 57.015 37.500 0.00 0.00 0.00 2.62
78 79 6.127897 GCTTGCTATACAACATTCCAGTCTTT 60.128 38.462 0.00 0.00 33.68 2.52
79 80 5.355350 GCTTGCTATACAACATTCCAGTCTT 59.645 40.000 0.00 0.00 33.68 3.01
80 81 4.878397 GCTTGCTATACAACATTCCAGTCT 59.122 41.667 0.00 0.00 33.68 3.24
81 82 4.260375 CGCTTGCTATACAACATTCCAGTC 60.260 45.833 0.00 0.00 33.68 3.51
82 83 3.623060 CGCTTGCTATACAACATTCCAGT 59.377 43.478 0.00 0.00 33.68 4.00
83 84 3.623060 ACGCTTGCTATACAACATTCCAG 59.377 43.478 0.00 0.00 33.68 3.86
84 85 3.605634 ACGCTTGCTATACAACATTCCA 58.394 40.909 0.00 0.00 33.68 3.53
85 86 3.621268 TGACGCTTGCTATACAACATTCC 59.379 43.478 0.00 0.00 33.68 3.01
86 87 4.857871 TGACGCTTGCTATACAACATTC 57.142 40.909 0.00 0.00 33.68 2.67
87 88 5.220854 GGAATGACGCTTGCTATACAACATT 60.221 40.000 0.00 0.00 35.25 2.71
88 89 4.273480 GGAATGACGCTTGCTATACAACAT 59.727 41.667 0.00 0.00 33.68 2.71
89 90 3.621268 GGAATGACGCTTGCTATACAACA 59.379 43.478 0.00 0.00 33.68 3.33
90 91 3.871594 AGGAATGACGCTTGCTATACAAC 59.128 43.478 0.00 0.00 33.68 3.32
91 92 4.137116 AGGAATGACGCTTGCTATACAA 57.863 40.909 0.00 0.00 36.62 2.41
92 93 3.819564 AGGAATGACGCTTGCTATACA 57.180 42.857 0.00 0.00 0.00 2.29
93 94 3.303395 GCAAGGAATGACGCTTGCTATAC 60.303 47.826 13.72 0.00 43.08 1.47
94 95 2.872245 GCAAGGAATGACGCTTGCTATA 59.128 45.455 13.72 0.00 43.08 1.31
95 96 1.672881 GCAAGGAATGACGCTTGCTAT 59.327 47.619 13.72 0.00 43.08 2.97
96 97 1.086696 GCAAGGAATGACGCTTGCTA 58.913 50.000 13.72 0.00 43.08 3.49
97 98 0.890542 TGCAAGGAATGACGCTTGCT 60.891 50.000 19.31 3.55 44.77 3.91
98 99 0.171903 ATGCAAGGAATGACGCTTGC 59.828 50.000 14.01 14.01 44.76 4.01
99 100 3.763097 TTATGCAAGGAATGACGCTTG 57.237 42.857 0.00 0.00 33.29 4.01
100 101 4.675510 CAATTATGCAAGGAATGACGCTT 58.324 39.130 0.00 0.00 0.00 4.68
101 102 4.297299 CAATTATGCAAGGAATGACGCT 57.703 40.909 0.00 0.00 0.00 5.07
115 116 2.799978 TGCGGAGATACGTGCAATTATG 59.200 45.455 0.00 0.00 33.80 1.90
116 117 3.106242 TGCGGAGATACGTGCAATTAT 57.894 42.857 0.00 0.00 33.80 1.28
117 118 2.588027 TGCGGAGATACGTGCAATTA 57.412 45.000 0.00 0.00 33.80 1.40
118 119 1.867233 GATGCGGAGATACGTGCAATT 59.133 47.619 0.00 0.00 41.22 2.32
119 120 1.502231 GATGCGGAGATACGTGCAAT 58.498 50.000 0.00 0.00 41.22 3.56
120 121 0.869880 CGATGCGGAGATACGTGCAA 60.870 55.000 0.00 0.00 41.22 4.08
121 122 1.299089 CGATGCGGAGATACGTGCA 60.299 57.895 0.00 0.00 42.22 4.57
122 123 0.999228 CTCGATGCGGAGATACGTGC 60.999 60.000 0.00 0.00 36.08 5.34
123 124 0.308068 ACTCGATGCGGAGATACGTG 59.692 55.000 0.00 0.00 37.49 4.49
124 125 0.308068 CACTCGATGCGGAGATACGT 59.692 55.000 6.28 0.00 37.49 3.57
125 126 0.999228 GCACTCGATGCGGAGATACG 60.999 60.000 6.28 0.00 46.55 3.06
126 127 2.802683 GCACTCGATGCGGAGATAC 58.197 57.895 6.28 0.00 46.55 2.24
135 136 4.211164 TCAACTGTAACAAAGCACTCGATG 59.789 41.667 0.00 0.00 0.00 3.84
136 137 4.377021 TCAACTGTAACAAAGCACTCGAT 58.623 39.130 0.00 0.00 0.00 3.59
137 138 3.787785 TCAACTGTAACAAAGCACTCGA 58.212 40.909 0.00 0.00 0.00 4.04
138 139 4.530094 TTCAACTGTAACAAAGCACTCG 57.470 40.909 0.00 0.00 0.00 4.18
139 140 8.850454 TTATTTTCAACTGTAACAAAGCACTC 57.150 30.769 0.00 0.00 0.00 3.51
140 141 9.083080 GTTTATTTTCAACTGTAACAAAGCACT 57.917 29.630 0.00 0.00 0.00 4.40
141 142 8.325282 GGTTTATTTTCAACTGTAACAAAGCAC 58.675 33.333 0.00 0.00 0.00 4.40
142 143 7.221067 CGGTTTATTTTCAACTGTAACAAAGCA 59.779 33.333 0.00 0.00 0.00 3.91
143 144 7.432838 TCGGTTTATTTTCAACTGTAACAAAGC 59.567 33.333 0.00 0.00 33.00 3.51
144 145 8.844441 TCGGTTTATTTTCAACTGTAACAAAG 57.156 30.769 0.00 0.00 33.00 2.77
148 149 9.006215 GCATATCGGTTTATTTTCAACTGTAAC 57.994 33.333 0.00 0.00 33.00 2.50
149 150 8.952278 AGCATATCGGTTTATTTTCAACTGTAA 58.048 29.630 0.00 0.00 33.00 2.41
150 151 8.394877 CAGCATATCGGTTTATTTTCAACTGTA 58.605 33.333 0.00 0.00 33.00 2.74
151 152 7.250569 CAGCATATCGGTTTATTTTCAACTGT 58.749 34.615 0.00 0.00 33.00 3.55
152 153 6.197096 GCAGCATATCGGTTTATTTTCAACTG 59.803 38.462 0.00 0.00 32.53 3.16
153 154 6.127758 TGCAGCATATCGGTTTATTTTCAACT 60.128 34.615 0.00 0.00 0.00 3.16
154 155 6.033341 TGCAGCATATCGGTTTATTTTCAAC 58.967 36.000 0.00 0.00 0.00 3.18
155 156 6.201226 TGCAGCATATCGGTTTATTTTCAA 57.799 33.333 0.00 0.00 0.00 2.69
156 157 5.826601 TGCAGCATATCGGTTTATTTTCA 57.173 34.783 0.00 0.00 0.00 2.69
157 158 6.494842 TCTTGCAGCATATCGGTTTATTTTC 58.505 36.000 0.00 0.00 0.00 2.29
158 159 6.449635 TCTTGCAGCATATCGGTTTATTTT 57.550 33.333 0.00 0.00 0.00 1.82
159 160 6.449635 TTCTTGCAGCATATCGGTTTATTT 57.550 33.333 0.00 0.00 0.00 1.40
160 161 6.639632 ATTCTTGCAGCATATCGGTTTATT 57.360 33.333 0.00 0.00 0.00 1.40
161 162 7.445402 AGTTATTCTTGCAGCATATCGGTTTAT 59.555 33.333 0.00 0.00 0.00 1.40
162 163 6.765989 AGTTATTCTTGCAGCATATCGGTTTA 59.234 34.615 0.00 0.00 0.00 2.01
163 164 5.590259 AGTTATTCTTGCAGCATATCGGTTT 59.410 36.000 0.00 0.00 0.00 3.27
164 165 5.008019 CAGTTATTCTTGCAGCATATCGGTT 59.992 40.000 0.00 0.00 0.00 4.44
165 166 4.512944 CAGTTATTCTTGCAGCATATCGGT 59.487 41.667 0.00 0.00 0.00 4.69
166 167 4.751600 TCAGTTATTCTTGCAGCATATCGG 59.248 41.667 0.00 0.00 0.00 4.18
167 168 5.912360 TCAGTTATTCTTGCAGCATATCG 57.088 39.130 0.00 0.00 0.00 2.92
168 169 6.038603 TGGTTCAGTTATTCTTGCAGCATATC 59.961 38.462 0.00 0.00 0.00 1.63
169 170 5.887598 TGGTTCAGTTATTCTTGCAGCATAT 59.112 36.000 0.00 0.00 0.00 1.78
170 171 5.252547 TGGTTCAGTTATTCTTGCAGCATA 58.747 37.500 0.00 0.00 0.00 3.14
171 172 4.081406 TGGTTCAGTTATTCTTGCAGCAT 58.919 39.130 0.00 0.00 0.00 3.79
172 173 3.485394 TGGTTCAGTTATTCTTGCAGCA 58.515 40.909 0.00 0.00 0.00 4.41
173 174 4.156556 TGATGGTTCAGTTATTCTTGCAGC 59.843 41.667 0.00 0.00 0.00 5.25
174 175 5.885230 TGATGGTTCAGTTATTCTTGCAG 57.115 39.130 0.00 0.00 0.00 4.41
175 176 5.711506 ACATGATGGTTCAGTTATTCTTGCA 59.288 36.000 0.00 0.00 34.73 4.08
176 177 6.199937 ACATGATGGTTCAGTTATTCTTGC 57.800 37.500 0.00 0.00 34.73 4.01
177 178 7.596494 ACAACATGATGGTTCAGTTATTCTTG 58.404 34.615 7.95 0.00 34.73 3.02
178 179 7.361201 CGACAACATGATGGTTCAGTTATTCTT 60.361 37.037 7.95 0.00 34.73 2.52
179 180 6.092670 CGACAACATGATGGTTCAGTTATTCT 59.907 38.462 7.95 0.00 34.73 2.40
180 181 6.250819 CGACAACATGATGGTTCAGTTATTC 58.749 40.000 7.95 0.00 34.73 1.75
181 182 5.123820 CCGACAACATGATGGTTCAGTTATT 59.876 40.000 7.95 0.00 34.73 1.40
182 183 4.635765 CCGACAACATGATGGTTCAGTTAT 59.364 41.667 7.95 0.00 34.73 1.89
183 184 4.000325 CCGACAACATGATGGTTCAGTTA 59.000 43.478 7.95 0.00 34.73 2.24
184 185 2.813754 CCGACAACATGATGGTTCAGTT 59.186 45.455 7.95 0.00 34.73 3.16
185 186 2.038426 TCCGACAACATGATGGTTCAGT 59.962 45.455 7.95 0.00 34.73 3.41
186 187 2.674852 CTCCGACAACATGATGGTTCAG 59.325 50.000 7.95 0.00 34.73 3.02
187 188 2.301583 TCTCCGACAACATGATGGTTCA 59.698 45.455 7.95 0.00 36.00 3.18
188 189 2.972625 TCTCCGACAACATGATGGTTC 58.027 47.619 7.95 0.00 0.00 3.62
189 190 3.417069 TTCTCCGACAACATGATGGTT 57.583 42.857 7.95 0.00 0.00 3.67
190 191 3.055167 TGATTCTCCGACAACATGATGGT 60.055 43.478 7.95 0.00 0.00 3.55
191 192 3.534554 TGATTCTCCGACAACATGATGG 58.465 45.455 7.95 0.00 0.00 3.51
192 193 4.212847 GGATGATTCTCCGACAACATGATG 59.787 45.833 0.00 0.00 0.00 3.07
193 194 4.384056 GGATGATTCTCCGACAACATGAT 58.616 43.478 0.00 0.00 0.00 2.45
194 195 3.432186 GGGATGATTCTCCGACAACATGA 60.432 47.826 0.00 0.00 36.05 3.07
195 196 2.874701 GGGATGATTCTCCGACAACATG 59.125 50.000 0.00 0.00 36.05 3.21
196 197 2.774234 AGGGATGATTCTCCGACAACAT 59.226 45.455 0.00 0.00 36.05 2.71
197 198 2.187958 AGGGATGATTCTCCGACAACA 58.812 47.619 0.00 0.00 36.05 3.33
198 199 2.990066 AGGGATGATTCTCCGACAAC 57.010 50.000 0.00 0.00 36.05 3.32
199 200 2.698797 GGTAGGGATGATTCTCCGACAA 59.301 50.000 0.00 0.00 36.05 3.18
200 201 2.317040 GGTAGGGATGATTCTCCGACA 58.683 52.381 0.00 0.00 36.05 4.35
201 202 1.269998 CGGTAGGGATGATTCTCCGAC 59.730 57.143 0.00 0.00 38.96 4.79
202 203 1.133575 ACGGTAGGGATGATTCTCCGA 60.134 52.381 7.66 0.00 39.74 4.55
203 204 1.329256 ACGGTAGGGATGATTCTCCG 58.671 55.000 0.00 0.00 41.77 4.63
204 205 2.807108 GCAACGGTAGGGATGATTCTCC 60.807 54.545 0.00 0.00 34.31 3.71
205 206 2.484889 GCAACGGTAGGGATGATTCTC 58.515 52.381 0.00 0.00 0.00 2.87
206 207 1.141053 GGCAACGGTAGGGATGATTCT 59.859 52.381 0.00 0.00 0.00 2.40
207 208 1.594331 GGCAACGGTAGGGATGATTC 58.406 55.000 0.00 0.00 0.00 2.52
208 209 3.800826 GGCAACGGTAGGGATGATT 57.199 52.632 0.00 0.00 0.00 2.57
223 224 0.810648 GGAATTGCATCTTCACGGCA 59.189 50.000 10.62 0.00 35.41 5.69
224 225 0.810648 TGGAATTGCATCTTCACGGC 59.189 50.000 0.00 0.00 0.00 5.68
225 226 3.788333 ATTGGAATTGCATCTTCACGG 57.212 42.857 0.00 0.00 0.00 4.94
226 227 4.735985 TGAATTGGAATTGCATCTTCACG 58.264 39.130 16.43 0.00 0.00 4.35
227 228 6.334989 TCATGAATTGGAATTGCATCTTCAC 58.665 36.000 20.29 4.68 0.00 3.18
228 229 6.532988 TCATGAATTGGAATTGCATCTTCA 57.467 33.333 20.20 20.20 0.00 3.02
229 230 7.837202 TTTCATGAATTGGAATTGCATCTTC 57.163 32.000 9.40 7.99 0.00 2.87
230 231 8.801882 AATTTCATGAATTGGAATTGCATCTT 57.198 26.923 9.40 0.00 41.21 2.40
231 232 7.497909 GGAATTTCATGAATTGGAATTGCATCT 59.502 33.333 9.40 0.00 45.98 2.90
232 233 7.636326 GGAATTTCATGAATTGGAATTGCATC 58.364 34.615 9.40 0.00 45.98 3.91
233 234 7.562454 GGAATTTCATGAATTGGAATTGCAT 57.438 32.000 9.40 0.00 45.98 3.96
234 235 6.988622 GGAATTTCATGAATTGGAATTGCA 57.011 33.333 9.40 0.00 45.98 4.08
235 236 6.988622 TGGAATTTCATGAATTGGAATTGC 57.011 33.333 9.40 11.05 46.56 3.56
292 294 0.402504 TCAATAGCACCCCGTTTGGT 59.597 50.000 0.00 0.00 39.96 3.67
358 360 4.832590 TTTCGGCGAACTTAATTTTCCA 57.167 36.364 23.64 0.00 0.00 3.53
360 362 7.460507 CGGTTAATTTCGGCGAACTTAATTTTC 60.461 37.037 32.94 24.12 32.36 2.29
361 363 6.306117 CGGTTAATTTCGGCGAACTTAATTTT 59.694 34.615 32.94 17.55 32.36 1.82
362 364 5.796437 CGGTTAATTTCGGCGAACTTAATTT 59.204 36.000 32.94 18.84 32.36 1.82
433 444 1.730547 GCATTGCGTGTGTTCTGCC 60.731 57.895 0.00 0.00 0.00 4.85
448 459 1.320344 TTGTAGAGACCCGAGCGCAT 61.320 55.000 11.47 0.00 0.00 4.73
470 481 1.714794 CGGCGATATTCTGGTGGATC 58.285 55.000 0.00 0.00 0.00 3.36
472 483 1.069090 GCGGCGATATTCTGGTGGA 59.931 57.895 12.98 0.00 0.00 4.02
555 580 3.845259 GCCGGCTGGATACGACCA 61.845 66.667 22.15 0.00 42.51 4.02
892 969 2.973034 AAGGGGGAGGGAGGGGAT 60.973 66.667 0.00 0.00 0.00 3.85
971 1068 0.038310 CCTTCTTCCCCTTGGTGGTC 59.962 60.000 0.00 0.00 0.00 4.02
1338 1435 3.519973 CTGCTGTGGCTGGACGTGA 62.520 63.158 0.00 0.00 39.59 4.35
1351 1448 2.807045 GACTCGACGGTGCTGCTG 60.807 66.667 0.00 0.00 0.00 4.41
1644 1741 2.141535 ATCCTTGCTATTCTCGTCGC 57.858 50.000 0.00 0.00 0.00 5.19
1873 1977 3.430042 AAGCTCAGATTTCCTTGCTCA 57.570 42.857 0.00 0.00 32.97 4.26
1920 2024 2.558359 ACAACAGCAGCAAATTACTCCC 59.442 45.455 0.00 0.00 0.00 4.30
1921 2025 3.923017 ACAACAGCAGCAAATTACTCC 57.077 42.857 0.00 0.00 0.00 3.85
1926 2030 4.252073 TGAAACAACAACAGCAGCAAATT 58.748 34.783 0.00 0.00 0.00 1.82
2011 2115 1.805428 AATGGTGAAGCGGTGGCAAC 61.805 55.000 0.00 0.00 43.41 4.17
2067 2171 4.999311 TGATGCTTGCTACATATGATGGTC 59.001 41.667 10.38 0.00 33.60 4.02
2141 2248 9.784531 ACTTATTGAGACATCGGATAATGAAAT 57.215 29.630 0.00 0.00 0.00 2.17
2143 2250 9.045223 CAACTTATTGAGACATCGGATAATGAA 57.955 33.333 0.00 0.00 38.15 2.57
2255 2363 6.706270 ACCATGCTATGTATTCTTCGTTTAGG 59.294 38.462 0.00 0.00 0.00 2.69
2285 2393 6.436218 ACATACCCTTTAACAATTCAGGAACC 59.564 38.462 0.00 0.00 0.00 3.62
2288 2396 6.432783 CACACATACCCTTTAACAATTCAGGA 59.567 38.462 0.00 0.00 0.00 3.86
2303 2411 2.542597 CAATGCAATGCACACATACCC 58.457 47.619 11.23 0.00 43.04 3.69
2343 2452 7.745620 ACATTTCGGTTAGAACTTTCAGATT 57.254 32.000 0.00 0.00 38.83 2.40
2352 2461 7.043059 TGCAAAAATCAACATTTCGGTTAGAAC 60.043 33.333 0.00 0.00 38.83 3.01
2401 2514 7.413767 CGGTAGCCTTTTCTCTAAAATAACACC 60.414 40.741 0.00 0.00 34.18 4.16
2408 2521 5.801380 ACATCGGTAGCCTTTTCTCTAAAA 58.199 37.500 0.00 0.00 33.58 1.52
2433 2546 4.447389 AGCAAAACGCAAAACCATTGATAC 59.553 37.500 0.00 0.00 46.13 2.24
2540 2653 0.771755 GGGTCTACATTCCCATCCCC 59.228 60.000 0.00 0.00 42.95 4.81
2590 2703 0.523072 CAGCCAAAACTGTATGCGCT 59.477 50.000 9.73 0.00 32.78 5.92
2598 2711 2.605338 CCGAATGTGACAGCCAAAACTG 60.605 50.000 0.00 0.00 43.59 3.16
2662 2775 7.286087 ACATGTATTTGTGCATATGAGAATGGT 59.714 33.333 6.97 0.00 0.00 3.55
2663 2776 7.654568 ACATGTATTTGTGCATATGAGAATGG 58.345 34.615 6.97 0.00 0.00 3.16
2690 2804 5.190528 AGCACAATGAGGAGAAGGAGAAATA 59.809 40.000 0.00 0.00 0.00 1.40
2811 2928 7.913297 TGTAGCGAATTAATGATACCAAAAAGC 59.087 33.333 0.00 0.00 0.00 3.51


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

AutoCloner maintained by Alex Coulton.