Multiple sequence alignment - TraesCS4B01G149300

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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 TraesCS4B01G149300 chr4B 100.000 1933 0 0 1 1933 221200521 221198589 0.000000e+00 3570
1 TraesCS4B01G149300 chr4B 100.000 207 0 0 2199 2405 221198323 221198117 1.350000e-102 383
2 TraesCS4B01G149300 chr4B 90.763 249 21 2 1 248 52411174 52410927 4.960000e-87 331
3 TraesCS4B01G149300 chr4A 91.977 1720 53 33 246 1933 253446678 253445012 0.000000e+00 2333
4 TraesCS4B01G149300 chr4A 91.429 245 20 1 3 246 583200552 583200796 3.830000e-88 335
5 TraesCS4B01G149300 chr4A 91.981 212 9 3 2199 2405 253444962 253444754 8.410000e-75 291
6 TraesCS4B01G149300 chr4D 93.878 1323 28 14 646 1933 151983895 151982591 0.000000e+00 1945
7 TraesCS4B01G149300 chr4D 92.500 280 1 5 246 505 151984590 151984311 1.350000e-102 383
8 TraesCS4B01G149300 chr4D 94.660 206 5 2 2199 2403 151982540 151982340 4.990000e-82 315
9 TraesCS4B01G149300 chr5D 92.339 248 18 1 1 248 413055242 413054996 3.800000e-93 351
10 TraesCS4B01G149300 chr3B 90.763 249 23 0 1 249 420924572 420924324 1.380000e-87 333
11 TraesCS4B01G149300 chr1B 91.250 240 21 0 2 241 487937561 487937322 6.410000e-86 327
12 TraesCS4B01G149300 chr5A 89.837 246 25 0 1 246 75543301 75543056 1.390000e-82 316
13 TraesCS4B01G149300 chr5A 89.431 246 24 2 1 246 494450907 494450664 2.320000e-80 309
14 TraesCS4B01G149300 chr5A 88.211 246 29 0 1 246 546509061 546508816 6.500000e-76 294
15 TraesCS4B01G149300 chr2A 88.306 248 29 0 1 248 589758271 589758024 5.030000e-77 298


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 TraesCS4B01G149300 chr4B 221198117 221200521 2404 True 1976.5 3570 100.000000 1 2405 2 chr4B.!!$R2 2404
1 TraesCS4B01G149300 chr4A 253444754 253446678 1924 True 1312.0 2333 91.979000 246 2405 2 chr4A.!!$R1 2159
2 TraesCS4B01G149300 chr4D 151982340 151984590 2250 True 881.0 1945 93.679333 246 2403 3 chr4D.!!$R1 2157

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
126 127 0.044092 TTGGGCTAGAGATGGGGTGA 59.956 55.0 0.0 0.0 0.0 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1911 2267 0.673437 GCAGCAGGTTGGTAAAAGCA 59.327 50.0 0.0 0.0 0.0 3.91 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
21 22 3.850752 AGAAAAGAGAGAGAGGGTGACA 58.149 45.455 0.00 0.00 0.00 3.58
22 23 4.424842 AGAAAAGAGAGAGAGGGTGACAT 58.575 43.478 0.00 0.00 0.00 3.06
23 24 4.222588 AGAAAAGAGAGAGAGGGTGACATG 59.777 45.833 0.00 0.00 0.00 3.21
24 25 2.917713 AGAGAGAGAGGGTGACATGT 57.082 50.000 0.00 0.00 0.00 3.21
25 26 2.455557 AGAGAGAGAGGGTGACATGTG 58.544 52.381 1.15 0.00 0.00 3.21
26 27 1.480137 GAGAGAGAGGGTGACATGTGG 59.520 57.143 1.15 0.00 0.00 4.17
27 28 0.539051 GAGAGAGGGTGACATGTGGG 59.461 60.000 1.15 0.00 0.00 4.61
28 29 0.911525 AGAGAGGGTGACATGTGGGG 60.912 60.000 1.15 0.00 0.00 4.96
29 30 2.044946 GAGGGTGACATGTGGGGC 60.045 66.667 1.15 0.00 0.00 5.80
30 31 2.858476 AGGGTGACATGTGGGGCA 60.858 61.111 1.15 0.00 0.00 5.36
31 32 2.676471 GGGTGACATGTGGGGCAC 60.676 66.667 1.15 4.81 34.56 5.01
32 33 3.055719 GGTGACATGTGGGGCACG 61.056 66.667 1.15 0.00 37.14 5.34
33 34 3.737172 GTGACATGTGGGGCACGC 61.737 66.667 1.15 0.00 43.69 5.34
51 52 4.351938 CCGGACACAGCGGACGAA 62.352 66.667 0.00 0.00 0.00 3.85
52 53 2.355363 CGGACACAGCGGACGAAA 60.355 61.111 0.00 0.00 0.00 3.46
53 54 1.952133 CGGACACAGCGGACGAAAA 60.952 57.895 0.00 0.00 0.00 2.29
54 55 1.860078 GGACACAGCGGACGAAAAG 59.140 57.895 0.00 0.00 0.00 2.27
55 56 1.566018 GGACACAGCGGACGAAAAGG 61.566 60.000 0.00 0.00 0.00 3.11
56 57 0.599204 GACACAGCGGACGAAAAGGA 60.599 55.000 0.00 0.00 0.00 3.36
57 58 0.878961 ACACAGCGGACGAAAAGGAC 60.879 55.000 0.00 0.00 0.00 3.85
58 59 1.663702 ACAGCGGACGAAAAGGACG 60.664 57.895 0.00 0.00 0.00 4.79
59 60 2.737376 AGCGGACGAAAAGGACGC 60.737 61.111 0.00 0.00 45.14 5.19
60 61 4.130281 GCGGACGAAAAGGACGCG 62.130 66.667 3.53 3.53 38.76 6.01
61 62 3.475774 CGGACGAAAAGGACGCGG 61.476 66.667 12.47 0.00 0.00 6.46
62 63 2.048877 GGACGAAAAGGACGCGGA 60.049 61.111 12.47 0.00 0.00 5.54
63 64 2.092882 GGACGAAAAGGACGCGGAG 61.093 63.158 12.47 0.00 0.00 4.63
64 65 2.048503 ACGAAAAGGACGCGGAGG 60.049 61.111 12.47 0.00 0.00 4.30
65 66 3.488090 CGAAAAGGACGCGGAGGC 61.488 66.667 12.47 0.00 0.00 4.70
77 78 3.562635 GGAGGCGTCCGTTTTCTG 58.437 61.111 10.16 0.00 31.37 3.02
78 79 1.301479 GGAGGCGTCCGTTTTCTGT 60.301 57.895 10.16 0.00 31.37 3.41
79 80 1.289800 GGAGGCGTCCGTTTTCTGTC 61.290 60.000 10.16 0.00 31.37 3.51
80 81 1.289800 GAGGCGTCCGTTTTCTGTCC 61.290 60.000 0.00 0.00 0.00 4.02
81 82 2.664436 GGCGTCCGTTTTCTGTCCG 61.664 63.158 0.00 0.00 0.00 4.79
82 83 2.851104 CGTCCGTTTTCTGTCCGC 59.149 61.111 0.00 0.00 0.00 5.54
83 84 1.663702 CGTCCGTTTTCTGTCCGCT 60.664 57.895 0.00 0.00 0.00 5.52
84 85 1.219522 CGTCCGTTTTCTGTCCGCTT 61.220 55.000 0.00 0.00 0.00 4.68
85 86 0.942252 GTCCGTTTTCTGTCCGCTTT 59.058 50.000 0.00 0.00 0.00 3.51
86 87 1.332686 GTCCGTTTTCTGTCCGCTTTT 59.667 47.619 0.00 0.00 0.00 2.27
87 88 1.332375 TCCGTTTTCTGTCCGCTTTTG 59.668 47.619 0.00 0.00 0.00 2.44
88 89 1.120437 CGTTTTCTGTCCGCTTTTGC 58.880 50.000 0.00 0.00 43.23 3.68
89 90 1.487482 GTTTTCTGTCCGCTTTTGCC 58.513 50.000 0.00 0.00 43.93 4.52
90 91 1.067060 GTTTTCTGTCCGCTTTTGCCT 59.933 47.619 0.00 0.00 43.93 4.75
91 92 0.951558 TTTCTGTCCGCTTTTGCCTC 59.048 50.000 0.00 0.00 43.93 4.70
92 93 0.179032 TTCTGTCCGCTTTTGCCTCA 60.179 50.000 0.00 0.00 43.93 3.86
93 94 0.179032 TCTGTCCGCTTTTGCCTCAA 60.179 50.000 0.00 0.00 43.93 3.02
94 95 0.667993 CTGTCCGCTTTTGCCTCAAA 59.332 50.000 0.00 0.00 43.93 2.69
95 96 1.270550 CTGTCCGCTTTTGCCTCAAAT 59.729 47.619 0.00 0.00 43.93 2.32
96 97 1.269448 TGTCCGCTTTTGCCTCAAATC 59.731 47.619 0.00 0.00 43.93 2.17
97 98 0.887933 TCCGCTTTTGCCTCAAATCC 59.112 50.000 0.00 0.00 43.93 3.01
98 99 0.602562 CCGCTTTTGCCTCAAATCCA 59.397 50.000 0.00 0.00 43.93 3.41
99 100 1.403249 CCGCTTTTGCCTCAAATCCAG 60.403 52.381 0.00 0.00 43.93 3.86
100 101 1.541147 CGCTTTTGCCTCAAATCCAGA 59.459 47.619 0.00 0.00 43.93 3.86
101 102 2.669391 CGCTTTTGCCTCAAATCCAGAC 60.669 50.000 0.00 0.00 43.93 3.51
102 103 2.353109 GCTTTTGCCTCAAATCCAGACC 60.353 50.000 0.00 0.00 40.15 3.85
103 104 2.673775 TTTGCCTCAAATCCAGACCA 57.326 45.000 0.00 0.00 0.00 4.02
104 105 2.673775 TTGCCTCAAATCCAGACCAA 57.326 45.000 0.00 0.00 0.00 3.67
105 106 1.909700 TGCCTCAAATCCAGACCAAC 58.090 50.000 0.00 0.00 0.00 3.77
106 107 1.425066 TGCCTCAAATCCAGACCAACT 59.575 47.619 0.00 0.00 0.00 3.16
107 108 2.158475 TGCCTCAAATCCAGACCAACTT 60.158 45.455 0.00 0.00 0.00 2.66
108 109 2.893489 GCCTCAAATCCAGACCAACTTT 59.107 45.455 0.00 0.00 0.00 2.66
109 110 3.305608 GCCTCAAATCCAGACCAACTTTG 60.306 47.826 0.00 0.00 0.00 2.77
121 122 2.648059 CCAACTTTGGGCTAGAGATGG 58.352 52.381 3.54 3.54 44.70 3.51
122 123 2.648059 CAACTTTGGGCTAGAGATGGG 58.352 52.381 0.00 0.00 0.00 4.00
123 124 1.216990 ACTTTGGGCTAGAGATGGGG 58.783 55.000 0.00 0.00 0.00 4.96
124 125 1.216990 CTTTGGGCTAGAGATGGGGT 58.783 55.000 0.00 0.00 0.00 4.95
125 126 0.918983 TTTGGGCTAGAGATGGGGTG 59.081 55.000 0.00 0.00 0.00 4.61
126 127 0.044092 TTGGGCTAGAGATGGGGTGA 59.956 55.000 0.00 0.00 0.00 4.02
127 128 0.044092 TGGGCTAGAGATGGGGTGAA 59.956 55.000 0.00 0.00 0.00 3.18
128 129 1.213296 GGGCTAGAGATGGGGTGAAA 58.787 55.000 0.00 0.00 0.00 2.69
129 130 1.134068 GGGCTAGAGATGGGGTGAAAC 60.134 57.143 0.00 0.00 0.00 2.78
130 131 1.559682 GGCTAGAGATGGGGTGAAACA 59.440 52.381 0.00 0.00 39.98 2.83
131 132 2.420687 GGCTAGAGATGGGGTGAAACAG 60.421 54.545 0.00 0.00 39.98 3.16
132 133 2.501723 GCTAGAGATGGGGTGAAACAGA 59.498 50.000 0.00 0.00 39.98 3.41
133 134 3.680196 GCTAGAGATGGGGTGAAACAGAC 60.680 52.174 0.00 0.00 39.98 3.51
134 135 2.338809 AGAGATGGGGTGAAACAGACA 58.661 47.619 0.00 0.00 39.98 3.41
135 136 2.039084 AGAGATGGGGTGAAACAGACAC 59.961 50.000 0.00 0.00 39.98 3.67
136 137 1.156736 GATGGGGTGAAACAGACACG 58.843 55.000 0.00 0.00 39.98 4.49
137 138 0.762418 ATGGGGTGAAACAGACACGA 59.238 50.000 0.00 0.00 39.98 4.35
138 139 0.542333 TGGGGTGAAACAGACACGAA 59.458 50.000 0.00 0.00 39.98 3.85
139 140 1.065345 TGGGGTGAAACAGACACGAAA 60.065 47.619 0.00 0.00 39.98 3.46
140 141 1.332686 GGGGTGAAACAGACACGAAAC 59.667 52.381 0.00 0.00 39.98 2.78
141 142 1.004292 GGGTGAAACAGACACGAAACG 60.004 52.381 0.00 0.00 39.98 3.60
142 143 1.928503 GGTGAAACAGACACGAAACGA 59.071 47.619 0.00 0.00 39.98 3.85
143 144 2.349275 GGTGAAACAGACACGAAACGAA 59.651 45.455 0.00 0.00 39.98 3.85
144 145 3.339695 GTGAAACAGACACGAAACGAAC 58.660 45.455 0.00 0.00 36.32 3.95
145 146 2.028284 TGAAACAGACACGAAACGAACG 59.972 45.455 0.00 0.00 0.00 3.95
146 147 1.912001 AACAGACACGAAACGAACGA 58.088 45.000 0.14 0.00 34.70 3.85
147 148 1.912001 ACAGACACGAAACGAACGAA 58.088 45.000 0.14 0.00 34.70 3.85
148 149 2.261345 ACAGACACGAAACGAACGAAA 58.739 42.857 0.14 0.00 34.70 3.46
149 150 2.667481 ACAGACACGAAACGAACGAAAA 59.333 40.909 0.14 0.00 34.70 2.29
150 151 3.123284 ACAGACACGAAACGAACGAAAAA 59.877 39.130 0.14 0.00 34.70 1.94
151 152 3.712572 CAGACACGAAACGAACGAAAAAG 59.287 43.478 0.14 0.00 34.70 2.27
152 153 3.368843 AGACACGAAACGAACGAAAAAGT 59.631 39.130 0.14 0.00 34.70 2.66
153 154 4.562394 AGACACGAAACGAACGAAAAAGTA 59.438 37.500 0.14 0.00 34.70 2.24
154 155 5.062058 AGACACGAAACGAACGAAAAAGTAA 59.938 36.000 0.14 0.00 34.70 2.24
155 156 5.798910 ACACGAAACGAACGAAAAAGTAAT 58.201 33.333 0.14 0.00 34.70 1.89
156 157 6.932051 ACACGAAACGAACGAAAAAGTAATA 58.068 32.000 0.14 0.00 34.70 0.98
157 158 7.566709 ACACGAAACGAACGAAAAAGTAATAT 58.433 30.769 0.14 0.00 34.70 1.28
158 159 7.528182 ACACGAAACGAACGAAAAAGTAATATG 59.472 33.333 0.14 0.00 34.70 1.78
159 160 7.736880 CACGAAACGAACGAAAAAGTAATATGA 59.263 33.333 0.14 0.00 34.70 2.15
160 161 7.948363 ACGAAACGAACGAAAAAGTAATATGAG 59.052 33.333 0.14 0.00 34.70 2.90
161 162 7.421613 CGAAACGAACGAAAAAGTAATATGAGG 59.578 37.037 0.14 0.00 0.00 3.86
162 163 7.662604 AACGAACGAAAAAGTAATATGAGGT 57.337 32.000 0.14 0.00 0.00 3.85
163 164 7.287050 ACGAACGAAAAAGTAATATGAGGTC 57.713 36.000 0.14 0.00 0.00 3.85
164 165 6.869913 ACGAACGAAAAAGTAATATGAGGTCA 59.130 34.615 0.14 0.00 0.00 4.02
165 166 7.063074 ACGAACGAAAAAGTAATATGAGGTCAG 59.937 37.037 0.14 0.00 0.00 3.51
166 167 6.663944 ACGAAAAAGTAATATGAGGTCAGC 57.336 37.500 0.00 0.00 0.00 4.26
167 168 5.585047 ACGAAAAAGTAATATGAGGTCAGCC 59.415 40.000 0.00 0.00 0.00 4.85
168 169 5.276868 CGAAAAAGTAATATGAGGTCAGCCG 60.277 44.000 0.00 0.00 40.50 5.52
169 170 2.821991 AGTAATATGAGGTCAGCCGC 57.178 50.000 0.00 0.00 40.50 6.53
170 171 2.320781 AGTAATATGAGGTCAGCCGCT 58.679 47.619 0.00 0.00 40.50 5.52
171 172 2.036475 AGTAATATGAGGTCAGCCGCTG 59.964 50.000 14.62 14.62 40.50 5.18
172 173 0.107456 AATATGAGGTCAGCCGCTGG 59.893 55.000 20.23 2.15 40.50 4.85
173 174 1.762522 ATATGAGGTCAGCCGCTGGG 61.763 60.000 20.23 0.00 40.50 4.45
175 176 4.459089 GAGGTCAGCCGCTGGGTC 62.459 72.222 20.23 10.52 40.50 4.46
178 179 4.681978 GTCAGCCGCTGGGTCGTT 62.682 66.667 20.23 0.00 34.97 3.85
179 180 4.680237 TCAGCCGCTGGGTCGTTG 62.680 66.667 20.23 0.00 34.97 4.10
183 184 3.803082 CCGCTGGGTCGTTGCATG 61.803 66.667 0.00 0.00 0.00 4.06
184 185 3.049674 CGCTGGGTCGTTGCATGT 61.050 61.111 0.00 0.00 0.00 3.21
185 186 1.739929 CGCTGGGTCGTTGCATGTA 60.740 57.895 0.00 0.00 0.00 2.29
186 187 1.089481 CGCTGGGTCGTTGCATGTAT 61.089 55.000 0.00 0.00 0.00 2.29
187 188 0.657840 GCTGGGTCGTTGCATGTATC 59.342 55.000 0.00 0.00 0.00 2.24
188 189 1.299541 CTGGGTCGTTGCATGTATCC 58.700 55.000 0.00 0.00 0.00 2.59
189 190 0.461163 TGGGTCGTTGCATGTATCCG 60.461 55.000 0.00 0.00 0.00 4.18
190 191 1.641677 GGTCGTTGCATGTATCCGC 59.358 57.895 0.00 0.00 0.00 5.54
191 192 0.810031 GGTCGTTGCATGTATCCGCT 60.810 55.000 0.00 0.00 0.00 5.52
192 193 1.006832 GTCGTTGCATGTATCCGCTT 58.993 50.000 0.00 0.00 0.00 4.68
193 194 1.396996 GTCGTTGCATGTATCCGCTTT 59.603 47.619 0.00 0.00 0.00 3.51
194 195 2.080693 TCGTTGCATGTATCCGCTTTT 58.919 42.857 0.00 0.00 0.00 2.27
195 196 3.062909 GTCGTTGCATGTATCCGCTTTTA 59.937 43.478 0.00 0.00 0.00 1.52
196 197 3.874543 TCGTTGCATGTATCCGCTTTTAT 59.125 39.130 0.00 0.00 0.00 1.40
197 198 4.334203 TCGTTGCATGTATCCGCTTTTATT 59.666 37.500 0.00 0.00 0.00 1.40
198 199 4.670621 CGTTGCATGTATCCGCTTTTATTC 59.329 41.667 0.00 0.00 0.00 1.75
199 200 5.577835 GTTGCATGTATCCGCTTTTATTCA 58.422 37.500 0.00 0.00 0.00 2.57
200 201 5.826601 TGCATGTATCCGCTTTTATTCAA 57.173 34.783 0.00 0.00 0.00 2.69
201 202 6.201226 TGCATGTATCCGCTTTTATTCAAA 57.799 33.333 0.00 0.00 0.00 2.69
202 203 6.033341 TGCATGTATCCGCTTTTATTCAAAC 58.967 36.000 0.00 0.00 0.00 2.93
203 204 6.127758 TGCATGTATCCGCTTTTATTCAAACT 60.128 34.615 0.00 0.00 0.00 2.66
204 205 7.066404 TGCATGTATCCGCTTTTATTCAAACTA 59.934 33.333 0.00 0.00 0.00 2.24
205 206 7.376072 GCATGTATCCGCTTTTATTCAAACTAC 59.624 37.037 0.00 0.00 0.00 2.73
206 207 6.996106 TGTATCCGCTTTTATTCAAACTACG 58.004 36.000 0.00 0.00 0.00 3.51
207 208 6.591062 TGTATCCGCTTTTATTCAAACTACGT 59.409 34.615 0.00 0.00 0.00 3.57
208 209 5.520022 TCCGCTTTTATTCAAACTACGTC 57.480 39.130 0.00 0.00 0.00 4.34
209 210 4.389687 TCCGCTTTTATTCAAACTACGTCC 59.610 41.667 0.00 0.00 0.00 4.79
210 211 4.320491 CGCTTTTATTCAAACTACGTCCG 58.680 43.478 0.00 0.00 0.00 4.79
211 212 4.644954 GCTTTTATTCAAACTACGTCCGG 58.355 43.478 0.00 0.00 0.00 5.14
212 213 4.644954 CTTTTATTCAAACTACGTCCGGC 58.355 43.478 0.00 0.00 0.00 6.13
214 215 0.738412 ATTCAAACTACGTCCGGCGG 60.738 55.000 22.51 22.51 46.52 6.13
215 216 1.804396 TTCAAACTACGTCCGGCGGA 61.804 55.000 27.46 27.46 46.52 5.54
224 225 3.533720 TCCGGCGGACAAGATAGG 58.466 61.111 27.46 0.00 0.00 2.57
225 226 2.131709 TCCGGCGGACAAGATAGGG 61.132 63.158 27.46 0.00 0.00 3.53
226 227 2.432300 CCGGCGGACAAGATAGGGT 61.432 63.158 24.41 0.00 0.00 4.34
227 228 1.067582 CGGCGGACAAGATAGGGTC 59.932 63.158 0.00 0.00 0.00 4.46
228 229 1.392710 CGGCGGACAAGATAGGGTCT 61.393 60.000 0.00 0.00 39.43 3.85
236 237 0.541863 AAGATAGGGTCTTGCGGTGG 59.458 55.000 0.00 0.00 45.38 4.61
237 238 0.325296 AGATAGGGTCTTGCGGTGGA 60.325 55.000 0.00 0.00 31.47 4.02
238 239 0.105039 GATAGGGTCTTGCGGTGGAG 59.895 60.000 0.00 0.00 0.00 3.86
239 240 0.325296 ATAGGGTCTTGCGGTGGAGA 60.325 55.000 0.00 0.00 0.00 3.71
240 241 0.325296 TAGGGTCTTGCGGTGGAGAT 60.325 55.000 0.00 0.00 0.00 2.75
241 242 0.325296 AGGGTCTTGCGGTGGAGATA 60.325 55.000 0.00 0.00 0.00 1.98
242 243 0.105039 GGGTCTTGCGGTGGAGATAG 59.895 60.000 0.00 0.00 0.00 2.08
243 244 0.530870 GGTCTTGCGGTGGAGATAGC 60.531 60.000 0.00 0.00 0.00 2.97
244 245 0.530870 GTCTTGCGGTGGAGATAGCC 60.531 60.000 0.00 0.00 0.00 3.93
317 318 3.490348 CCATCTCTTCCTCTCTCTCTCC 58.510 54.545 0.00 0.00 0.00 3.71
325 345 1.818060 CCTCTCTCTCTCCTGTGTGTG 59.182 57.143 0.00 0.00 0.00 3.82
473 495 3.969976 CTCTCTATCATCCTGGGTTTCCA 59.030 47.826 0.00 0.00 41.58 3.53
540 563 7.687941 ACATTTGTTTTGGTGAGTCCTATAG 57.312 36.000 0.00 0.00 37.07 1.31
565 588 9.147732 AGAATCTTTCCCTTCTTTTTATGTTGT 57.852 29.630 0.00 0.00 0.00 3.32
627 650 1.029408 TCCCATGCGCACAATGGTAC 61.029 55.000 23.28 0.00 33.75 3.34
628 651 1.031571 CCCATGCGCACAATGGTACT 61.032 55.000 23.28 0.00 33.75 2.73
629 652 1.662517 CCATGCGCACAATGGTACTA 58.337 50.000 14.90 0.00 0.00 1.82
649 947 2.112998 AGTACCTACTTGCGGCCATTA 58.887 47.619 2.24 0.00 31.13 1.90
691 991 1.687368 GCTCCCCTGATGCTTGGATTT 60.687 52.381 0.00 0.00 0.00 2.17
692 992 2.743553 CTCCCCTGATGCTTGGATTTT 58.256 47.619 0.00 0.00 0.00 1.82
693 993 3.902218 CTCCCCTGATGCTTGGATTTTA 58.098 45.455 0.00 0.00 0.00 1.52
694 994 4.477249 CTCCCCTGATGCTTGGATTTTAT 58.523 43.478 0.00 0.00 0.00 1.40
695 995 4.882559 TCCCCTGATGCTTGGATTTTATT 58.117 39.130 0.00 0.00 0.00 1.40
753 1053 3.138304 TGTCTTGGGTTTCATCTTCACG 58.862 45.455 0.00 0.00 0.00 4.35
777 1088 1.268352 GTTTTCACATGCAACCCGCTA 59.732 47.619 0.00 0.00 43.06 4.26
796 1107 0.246635 ACCTCGATTGCGTGCTAGTT 59.753 50.000 0.00 0.00 38.98 2.24
804 1115 0.310543 TGCGTGCTAGTTTTGCCTTG 59.689 50.000 0.00 0.00 0.00 3.61
805 1116 0.310854 GCGTGCTAGTTTTGCCTTGT 59.689 50.000 0.00 0.00 0.00 3.16
806 1117 1.533731 GCGTGCTAGTTTTGCCTTGTA 59.466 47.619 0.00 0.00 0.00 2.41
816 1133 6.476243 AGTTTTGCCTTGTAGTACAATACG 57.524 37.500 15.91 8.07 37.48 3.06
823 1140 2.252747 TGTAGTACAATACGCGCACAC 58.747 47.619 5.73 0.00 0.00 3.82
867 1192 8.482128 TGTTCTTGATGGGTCTTTATTTGTTTT 58.518 29.630 0.00 0.00 0.00 2.43
971 1296 3.056179 AGCTAGCTCTGGTGAAGAAGAAC 60.056 47.826 12.68 0.00 33.37 3.01
1137 1475 1.300963 GCAGAGCATCCTGGACCAA 59.699 57.895 0.00 0.00 33.66 3.67
1236 1574 0.400213 TCCGGGAGCTCAACAACAAT 59.600 50.000 17.19 0.00 0.00 2.71
1260 1598 3.950254 CGCGTCGTCGGCCTCTAT 61.950 66.667 0.00 0.00 37.56 1.98
1540 1881 8.322905 ACTACTAGTACTAGGCTAGTTCTTCT 57.677 38.462 30.55 23.49 44.62 2.85
1586 1933 0.940991 CTTTGCCGCAAAGTGCTTCC 60.941 55.000 29.91 0.00 43.85 3.46
1597 1947 0.398318 AGTGCTTCCTCAACCCTGAC 59.602 55.000 0.00 0.00 0.00 3.51
2237 2593 2.480419 CCAAACGACTTGCTTCTACTGG 59.520 50.000 0.00 0.00 33.27 4.00
2254 2610 3.023119 ACTGGTAGATCAGCTCACTCAG 58.977 50.000 0.00 0.00 38.26 3.35
2274 2630 2.306805 AGCATCTGATGAGTTGGTGGAA 59.693 45.455 21.30 0.00 30.17 3.53
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.850752 TGTCACCCTCTCTCTCTTTTCT 58.149 45.455 0.00 0.00 0.00 2.52
1 2 4.020662 ACATGTCACCCTCTCTCTCTTTTC 60.021 45.833 0.00 0.00 0.00 2.29
2 3 3.906846 ACATGTCACCCTCTCTCTCTTTT 59.093 43.478 0.00 0.00 0.00 2.27
3 4 3.260380 CACATGTCACCCTCTCTCTCTTT 59.740 47.826 0.00 0.00 0.00 2.52
4 5 2.830923 CACATGTCACCCTCTCTCTCTT 59.169 50.000 0.00 0.00 0.00 2.85
5 6 2.455557 CACATGTCACCCTCTCTCTCT 58.544 52.381 0.00 0.00 0.00 3.10
6 7 1.480137 CCACATGTCACCCTCTCTCTC 59.520 57.143 0.00 0.00 0.00 3.20
7 8 1.566211 CCACATGTCACCCTCTCTCT 58.434 55.000 0.00 0.00 0.00 3.10
8 9 0.539051 CCCACATGTCACCCTCTCTC 59.461 60.000 0.00 0.00 0.00 3.20
9 10 0.911525 CCCCACATGTCACCCTCTCT 60.912 60.000 0.00 0.00 0.00 3.10
10 11 1.604378 CCCCACATGTCACCCTCTC 59.396 63.158 0.00 0.00 0.00 3.20
11 12 2.606587 GCCCCACATGTCACCCTCT 61.607 63.158 0.00 0.00 0.00 3.69
12 13 2.044946 GCCCCACATGTCACCCTC 60.045 66.667 0.00 0.00 0.00 4.30
13 14 2.858476 TGCCCCACATGTCACCCT 60.858 61.111 0.00 0.00 0.00 4.34
14 15 2.676471 GTGCCCCACATGTCACCC 60.676 66.667 0.00 0.00 34.08 4.61
15 16 3.055719 CGTGCCCCACATGTCACC 61.056 66.667 9.17 0.00 33.40 4.02
16 17 3.737172 GCGTGCCCCACATGTCAC 61.737 66.667 0.00 0.00 37.62 3.67
34 35 3.851845 TTTCGTCCGCTGTGTCCGG 62.852 63.158 0.00 0.00 46.88 5.14
35 36 1.886861 CTTTTCGTCCGCTGTGTCCG 61.887 60.000 0.00 0.00 0.00 4.79
36 37 1.566018 CCTTTTCGTCCGCTGTGTCC 61.566 60.000 0.00 0.00 0.00 4.02
37 38 0.599204 TCCTTTTCGTCCGCTGTGTC 60.599 55.000 0.00 0.00 0.00 3.67
38 39 0.878961 GTCCTTTTCGTCCGCTGTGT 60.879 55.000 0.00 0.00 0.00 3.72
39 40 1.860078 GTCCTTTTCGTCCGCTGTG 59.140 57.895 0.00 0.00 0.00 3.66
40 41 1.663702 CGTCCTTTTCGTCCGCTGT 60.664 57.895 0.00 0.00 0.00 4.40
41 42 3.011760 GCGTCCTTTTCGTCCGCTG 62.012 63.158 0.00 0.00 41.06 5.18
42 43 2.737376 GCGTCCTTTTCGTCCGCT 60.737 61.111 0.00 0.00 41.06 5.52
43 44 4.130281 CGCGTCCTTTTCGTCCGC 62.130 66.667 0.00 0.00 40.87 5.54
44 45 3.475774 CCGCGTCCTTTTCGTCCG 61.476 66.667 4.92 0.00 0.00 4.79
45 46 2.048877 TCCGCGTCCTTTTCGTCC 60.049 61.111 4.92 0.00 0.00 4.79
46 47 2.092882 CCTCCGCGTCCTTTTCGTC 61.093 63.158 4.92 0.00 0.00 4.20
47 48 2.048503 CCTCCGCGTCCTTTTCGT 60.049 61.111 4.92 0.00 0.00 3.85
48 49 3.488090 GCCTCCGCGTCCTTTTCG 61.488 66.667 4.92 0.00 0.00 3.46
60 61 1.289800 GACAGAAAACGGACGCCTCC 61.290 60.000 0.00 0.00 0.00 4.30
61 62 1.289800 GGACAGAAAACGGACGCCTC 61.290 60.000 0.00 0.00 0.00 4.70
62 63 1.301479 GGACAGAAAACGGACGCCT 60.301 57.895 0.00 0.00 0.00 5.52
63 64 2.664436 CGGACAGAAAACGGACGCC 61.664 63.158 0.00 0.00 0.00 5.68
64 65 2.851104 CGGACAGAAAACGGACGC 59.149 61.111 0.00 0.00 0.00 5.19
65 66 1.219522 AAGCGGACAGAAAACGGACG 61.220 55.000 0.00 0.00 0.00 4.79
66 67 0.942252 AAAGCGGACAGAAAACGGAC 59.058 50.000 0.00 0.00 0.00 4.79
67 68 1.332375 CAAAAGCGGACAGAAAACGGA 59.668 47.619 0.00 0.00 0.00 4.69
68 69 1.753956 CAAAAGCGGACAGAAAACGG 58.246 50.000 0.00 0.00 0.00 4.44
69 70 1.120437 GCAAAAGCGGACAGAAAACG 58.880 50.000 0.00 0.00 0.00 3.60
70 71 1.067060 AGGCAAAAGCGGACAGAAAAC 59.933 47.619 0.00 0.00 0.00 2.43
71 72 1.336755 GAGGCAAAAGCGGACAGAAAA 59.663 47.619 0.00 0.00 0.00 2.29
72 73 0.951558 GAGGCAAAAGCGGACAGAAA 59.048 50.000 0.00 0.00 0.00 2.52
73 74 0.179032 TGAGGCAAAAGCGGACAGAA 60.179 50.000 0.00 0.00 0.00 3.02
74 75 0.179032 TTGAGGCAAAAGCGGACAGA 60.179 50.000 0.00 0.00 0.00 3.41
75 76 0.667993 TTTGAGGCAAAAGCGGACAG 59.332 50.000 0.00 0.00 29.89 3.51
76 77 1.269448 GATTTGAGGCAAAAGCGGACA 59.731 47.619 0.00 0.00 36.90 4.02
77 78 1.402852 GGATTTGAGGCAAAAGCGGAC 60.403 52.381 0.00 0.00 36.90 4.79
78 79 0.887933 GGATTTGAGGCAAAAGCGGA 59.112 50.000 0.00 0.00 36.90 5.54
79 80 0.602562 TGGATTTGAGGCAAAAGCGG 59.397 50.000 0.00 0.00 36.90 5.52
80 81 1.541147 TCTGGATTTGAGGCAAAAGCG 59.459 47.619 0.00 0.00 36.90 4.68
81 82 2.353109 GGTCTGGATTTGAGGCAAAAGC 60.353 50.000 0.00 0.00 36.90 3.51
82 83 2.892852 TGGTCTGGATTTGAGGCAAAAG 59.107 45.455 0.00 0.00 36.90 2.27
83 84 2.956132 TGGTCTGGATTTGAGGCAAAA 58.044 42.857 0.00 0.00 36.90 2.44
84 85 2.627699 GTTGGTCTGGATTTGAGGCAAA 59.372 45.455 0.00 0.00 37.75 3.68
85 86 2.158475 AGTTGGTCTGGATTTGAGGCAA 60.158 45.455 0.00 0.00 0.00 4.52
86 87 1.425066 AGTTGGTCTGGATTTGAGGCA 59.575 47.619 0.00 0.00 0.00 4.75
87 88 2.206576 AGTTGGTCTGGATTTGAGGC 57.793 50.000 0.00 0.00 0.00 4.70
88 89 3.256631 CCAAAGTTGGTCTGGATTTGAGG 59.743 47.826 1.63 0.00 43.43 3.86
89 90 4.510038 CCAAAGTTGGTCTGGATTTGAG 57.490 45.455 1.63 0.00 43.43 3.02
92 93 8.939111 CTCTAGCCCAAAGTTGGTCTGGATTT 62.939 46.154 7.52 0.00 41.81 2.17
93 94 7.561631 CTCTAGCCCAAAGTTGGTCTGGATT 62.562 48.000 7.52 0.00 41.81 3.01
94 95 6.152589 CTCTAGCCCAAAGTTGGTCTGGAT 62.153 50.000 7.52 0.00 41.81 3.41
102 103 2.648059 CCCATCTCTAGCCCAAAGTTG 58.352 52.381 0.00 0.00 0.00 3.16
103 104 1.566231 CCCCATCTCTAGCCCAAAGTT 59.434 52.381 0.00 0.00 0.00 2.66
104 105 1.216990 CCCCATCTCTAGCCCAAAGT 58.783 55.000 0.00 0.00 0.00 2.66
105 106 1.133976 CACCCCATCTCTAGCCCAAAG 60.134 57.143 0.00 0.00 0.00 2.77
106 107 0.918983 CACCCCATCTCTAGCCCAAA 59.081 55.000 0.00 0.00 0.00 3.28
107 108 0.044092 TCACCCCATCTCTAGCCCAA 59.956 55.000 0.00 0.00 0.00 4.12
108 109 0.044092 TTCACCCCATCTCTAGCCCA 59.956 55.000 0.00 0.00 0.00 5.36
109 110 1.134068 GTTTCACCCCATCTCTAGCCC 60.134 57.143 0.00 0.00 0.00 5.19
110 111 1.559682 TGTTTCACCCCATCTCTAGCC 59.440 52.381 0.00 0.00 0.00 3.93
111 112 2.501723 TCTGTTTCACCCCATCTCTAGC 59.498 50.000 0.00 0.00 0.00 3.42
112 113 3.515502 TGTCTGTTTCACCCCATCTCTAG 59.484 47.826 0.00 0.00 0.00 2.43
113 114 3.260884 GTGTCTGTTTCACCCCATCTCTA 59.739 47.826 0.00 0.00 0.00 2.43
114 115 2.039084 GTGTCTGTTTCACCCCATCTCT 59.961 50.000 0.00 0.00 0.00 3.10
115 116 2.427506 GTGTCTGTTTCACCCCATCTC 58.572 52.381 0.00 0.00 0.00 2.75
116 117 1.270839 CGTGTCTGTTTCACCCCATCT 60.271 52.381 0.00 0.00 32.86 2.90
117 118 1.156736 CGTGTCTGTTTCACCCCATC 58.843 55.000 0.00 0.00 32.86 3.51
118 119 0.762418 TCGTGTCTGTTTCACCCCAT 59.238 50.000 0.00 0.00 32.86 4.00
119 120 0.542333 TTCGTGTCTGTTTCACCCCA 59.458 50.000 0.00 0.00 32.86 4.96
120 121 1.332686 GTTTCGTGTCTGTTTCACCCC 59.667 52.381 0.00 0.00 32.86 4.95
121 122 1.004292 CGTTTCGTGTCTGTTTCACCC 60.004 52.381 0.00 0.00 32.86 4.61
122 123 1.928503 TCGTTTCGTGTCTGTTTCACC 59.071 47.619 0.00 0.00 32.86 4.02
123 124 3.339695 GTTCGTTTCGTGTCTGTTTCAC 58.660 45.455 0.00 0.00 0.00 3.18
124 125 2.028284 CGTTCGTTTCGTGTCTGTTTCA 59.972 45.455 0.00 0.00 0.00 2.69
125 126 2.279659 TCGTTCGTTTCGTGTCTGTTTC 59.720 45.455 0.00 0.00 0.00 2.78
126 127 2.261345 TCGTTCGTTTCGTGTCTGTTT 58.739 42.857 0.00 0.00 0.00 2.83
127 128 1.912001 TCGTTCGTTTCGTGTCTGTT 58.088 45.000 0.00 0.00 0.00 3.16
128 129 1.912001 TTCGTTCGTTTCGTGTCTGT 58.088 45.000 0.00 0.00 0.00 3.41
129 130 2.982919 TTTCGTTCGTTTCGTGTCTG 57.017 45.000 0.00 0.00 0.00 3.51
130 131 3.368843 ACTTTTTCGTTCGTTTCGTGTCT 59.631 39.130 0.00 0.00 0.00 3.41
131 132 3.662863 ACTTTTTCGTTCGTTTCGTGTC 58.337 40.909 0.00 0.00 0.00 3.67
132 133 3.727780 ACTTTTTCGTTCGTTTCGTGT 57.272 38.095 0.00 0.00 0.00 4.49
133 134 7.736880 TCATATTACTTTTTCGTTCGTTTCGTG 59.263 33.333 0.00 0.00 0.00 4.35
134 135 7.786114 TCATATTACTTTTTCGTTCGTTTCGT 58.214 30.769 0.00 0.00 0.00 3.85
135 136 7.421613 CCTCATATTACTTTTTCGTTCGTTTCG 59.578 37.037 0.00 0.00 0.00 3.46
136 137 8.225777 ACCTCATATTACTTTTTCGTTCGTTTC 58.774 33.333 0.00 0.00 0.00 2.78
137 138 8.091385 ACCTCATATTACTTTTTCGTTCGTTT 57.909 30.769 0.00 0.00 0.00 3.60
138 139 7.385752 TGACCTCATATTACTTTTTCGTTCGTT 59.614 33.333 0.00 0.00 0.00 3.85
139 140 6.869913 TGACCTCATATTACTTTTTCGTTCGT 59.130 34.615 0.00 0.00 0.00 3.85
140 141 7.285783 TGACCTCATATTACTTTTTCGTTCG 57.714 36.000 0.00 0.00 0.00 3.95
141 142 7.180748 GCTGACCTCATATTACTTTTTCGTTC 58.819 38.462 0.00 0.00 0.00 3.95
142 143 6.093633 GGCTGACCTCATATTACTTTTTCGTT 59.906 38.462 0.00 0.00 0.00 3.85
143 144 5.585047 GGCTGACCTCATATTACTTTTTCGT 59.415 40.000 0.00 0.00 0.00 3.85
144 145 5.276868 CGGCTGACCTCATATTACTTTTTCG 60.277 44.000 0.00 0.00 0.00 3.46
145 146 5.504173 GCGGCTGACCTCATATTACTTTTTC 60.504 44.000 0.00 0.00 0.00 2.29
146 147 4.335594 GCGGCTGACCTCATATTACTTTTT 59.664 41.667 0.00 0.00 0.00 1.94
147 148 3.877508 GCGGCTGACCTCATATTACTTTT 59.122 43.478 0.00 0.00 0.00 2.27
148 149 3.134804 AGCGGCTGACCTCATATTACTTT 59.865 43.478 0.00 0.00 0.00 2.66
149 150 2.700897 AGCGGCTGACCTCATATTACTT 59.299 45.455 0.00 0.00 0.00 2.24
150 151 2.036475 CAGCGGCTGACCTCATATTACT 59.964 50.000 25.33 0.00 32.44 2.24
151 152 2.408050 CAGCGGCTGACCTCATATTAC 58.592 52.381 25.33 0.00 32.44 1.89
152 153 1.344438 CCAGCGGCTGACCTCATATTA 59.656 52.381 30.52 0.00 32.44 0.98
153 154 0.107456 CCAGCGGCTGACCTCATATT 59.893 55.000 30.52 0.00 32.44 1.28
154 155 1.750930 CCAGCGGCTGACCTCATAT 59.249 57.895 30.52 0.00 32.44 1.78
155 156 2.434843 CCCAGCGGCTGACCTCATA 61.435 63.158 30.52 0.00 32.44 2.15
156 157 3.790437 CCCAGCGGCTGACCTCAT 61.790 66.667 30.52 0.00 32.44 2.90
158 159 4.459089 GACCCAGCGGCTGACCTC 62.459 72.222 30.52 16.72 32.44 3.85
161 162 4.681978 AACGACCCAGCGGCTGAC 62.682 66.667 30.52 18.75 32.44 3.51
162 163 4.680237 CAACGACCCAGCGGCTGA 62.680 66.667 30.52 0.00 32.44 4.26
166 167 3.803082 CATGCAACGACCCAGCGG 61.803 66.667 0.00 0.00 35.12 5.52
167 168 1.089481 ATACATGCAACGACCCAGCG 61.089 55.000 0.00 0.00 37.29 5.18
168 169 0.657840 GATACATGCAACGACCCAGC 59.342 55.000 0.00 0.00 0.00 4.85
169 170 1.299541 GGATACATGCAACGACCCAG 58.700 55.000 0.00 0.00 0.00 4.45
170 171 0.461163 CGGATACATGCAACGACCCA 60.461 55.000 0.00 0.00 0.00 4.51
171 172 1.772063 GCGGATACATGCAACGACCC 61.772 60.000 0.00 0.00 0.00 4.46
172 173 0.810031 AGCGGATACATGCAACGACC 60.810 55.000 0.00 0.00 0.00 4.79
173 174 1.006832 AAGCGGATACATGCAACGAC 58.993 50.000 0.00 0.00 0.00 4.34
174 175 1.732941 AAAGCGGATACATGCAACGA 58.267 45.000 0.00 0.00 0.00 3.85
175 176 2.542766 AAAAGCGGATACATGCAACG 57.457 45.000 0.00 0.00 0.00 4.10
176 177 5.577835 TGAATAAAAGCGGATACATGCAAC 58.422 37.500 0.00 0.00 0.00 4.17
177 178 5.826601 TGAATAAAAGCGGATACATGCAA 57.173 34.783 0.00 0.00 0.00 4.08
178 179 5.826601 TTGAATAAAAGCGGATACATGCA 57.173 34.783 0.00 0.00 0.00 3.96
179 180 6.265577 AGTTTGAATAAAAGCGGATACATGC 58.734 36.000 0.00 0.00 0.00 4.06
180 181 7.582679 CGTAGTTTGAATAAAAGCGGATACATG 59.417 37.037 0.00 0.00 0.00 3.21
181 182 7.279313 ACGTAGTTTGAATAAAAGCGGATACAT 59.721 33.333 0.00 0.00 37.78 2.29
182 183 6.591062 ACGTAGTTTGAATAAAAGCGGATACA 59.409 34.615 0.00 0.00 37.78 2.29
183 184 6.997222 ACGTAGTTTGAATAAAAGCGGATAC 58.003 36.000 0.00 0.00 37.78 2.24
207 208 2.131709 CCCTATCTTGTCCGCCGGA 61.132 63.158 5.05 0.00 0.00 5.14
208 209 2.365095 GACCCTATCTTGTCCGCCGG 62.365 65.000 0.00 0.00 0.00 6.13
209 210 1.067582 GACCCTATCTTGTCCGCCG 59.932 63.158 0.00 0.00 0.00 6.46
210 211 0.831307 AAGACCCTATCTTGTCCGCC 59.169 55.000 0.00 0.00 46.44 6.13
218 219 0.325296 TCCACCGCAAGACCCTATCT 60.325 55.000 0.00 0.00 40.46 1.98
219 220 0.105039 CTCCACCGCAAGACCCTATC 59.895 60.000 0.00 0.00 43.02 2.08
220 221 0.325296 TCTCCACCGCAAGACCCTAT 60.325 55.000 0.00 0.00 43.02 2.57
221 222 0.325296 ATCTCCACCGCAAGACCCTA 60.325 55.000 0.00 0.00 43.02 3.53
222 223 0.325296 TATCTCCACCGCAAGACCCT 60.325 55.000 0.00 0.00 43.02 4.34
223 224 0.105039 CTATCTCCACCGCAAGACCC 59.895 60.000 0.00 0.00 43.02 4.46
224 225 0.530870 GCTATCTCCACCGCAAGACC 60.531 60.000 0.00 0.00 43.02 3.85
225 226 0.530870 GGCTATCTCCACCGCAAGAC 60.531 60.000 0.00 0.00 43.02 3.01
226 227 0.687757 AGGCTATCTCCACCGCAAGA 60.688 55.000 0.00 0.00 43.02 3.02
227 228 0.179000 AAGGCTATCTCCACCGCAAG 59.821 55.000 0.00 0.00 0.00 4.01
228 229 1.491668 TAAGGCTATCTCCACCGCAA 58.508 50.000 0.00 0.00 0.00 4.85
229 230 1.344438 CATAAGGCTATCTCCACCGCA 59.656 52.381 0.00 0.00 0.00 5.69
230 231 1.941668 GCATAAGGCTATCTCCACCGC 60.942 57.143 0.00 0.00 40.25 5.68
231 232 1.670087 CGCATAAGGCTATCTCCACCG 60.670 57.143 0.00 0.00 41.67 4.94
232 233 1.618837 TCGCATAAGGCTATCTCCACC 59.381 52.381 0.00 0.00 41.67 4.61
233 234 3.601443 ATCGCATAAGGCTATCTCCAC 57.399 47.619 0.00 0.00 41.67 4.02
234 235 3.306989 CCAATCGCATAAGGCTATCTCCA 60.307 47.826 0.00 0.00 41.67 3.86
235 236 3.265791 CCAATCGCATAAGGCTATCTCC 58.734 50.000 0.00 0.00 41.67 3.71
236 237 3.265791 CCCAATCGCATAAGGCTATCTC 58.734 50.000 0.00 0.00 41.67 2.75
237 238 2.026822 CCCCAATCGCATAAGGCTATCT 60.027 50.000 0.00 0.00 41.67 1.98
238 239 2.359900 CCCCAATCGCATAAGGCTATC 58.640 52.381 0.00 0.00 41.67 2.08
239 240 1.614317 GCCCCAATCGCATAAGGCTAT 60.614 52.381 0.00 0.00 41.67 2.97
240 241 0.250727 GCCCCAATCGCATAAGGCTA 60.251 55.000 0.00 0.00 41.67 3.93
241 242 1.529244 GCCCCAATCGCATAAGGCT 60.529 57.895 0.00 0.00 41.67 4.58
242 243 2.564721 GGCCCCAATCGCATAAGGC 61.565 63.158 0.00 0.00 39.73 4.35
243 244 1.152777 TGGCCCCAATCGCATAAGG 60.153 57.895 0.00 0.00 0.00 2.69
244 245 1.799258 GCTGGCCCCAATCGCATAAG 61.799 60.000 0.00 0.00 0.00 1.73
317 318 1.942657 CTCCCAGAAACACACACACAG 59.057 52.381 0.00 0.00 0.00 3.66
325 345 4.068599 CCTCTTTCTTCTCCCAGAAACAC 58.931 47.826 0.00 0.00 37.77 3.32
473 495 5.185828 GCAATTAAGATGAGAAAAGGTGGGT 59.814 40.000 0.00 0.00 0.00 4.51
540 563 9.764363 AACAACATAAAAAGAAGGGAAAGATTC 57.236 29.630 0.00 0.00 0.00 2.52
582 605 5.045578 TCAAGAAGTTGAAATAGGAGGGGAG 60.046 44.000 0.00 0.00 39.85 4.30
583 606 4.849810 TCAAGAAGTTGAAATAGGAGGGGA 59.150 41.667 0.00 0.00 39.85 4.81
627 650 1.108776 TGGCCGCAAGTAGGTACTAG 58.891 55.000 0.00 0.00 44.14 2.57
628 651 1.784358 ATGGCCGCAAGTAGGTACTA 58.216 50.000 0.00 0.00 41.75 1.82
629 652 0.909623 AATGGCCGCAAGTAGGTACT 59.090 50.000 0.00 0.00 46.37 2.73
649 947 1.001406 GGCGCTGGCTCTATCAACTAT 59.999 52.381 7.64 0.00 39.81 2.12
753 1053 1.501169 GGTTGCATGTGAAAACCAGC 58.499 50.000 13.48 0.00 42.44 4.85
777 1088 0.246635 AACTAGCACGCAATCGAGGT 59.753 50.000 0.00 0.00 39.97 3.85
796 1107 3.368539 CGCGTATTGTACTACAAGGCAAA 59.631 43.478 16.41 0.00 41.94 3.68
804 1115 2.523015 AGTGTGCGCGTATTGTACTAC 58.477 47.619 8.43 0.00 0.00 2.73
805 1116 2.925578 AGTGTGCGCGTATTGTACTA 57.074 45.000 8.43 0.00 0.00 1.82
806 1117 2.074547 AAGTGTGCGCGTATTGTACT 57.925 45.000 8.43 4.29 0.00 2.73
823 1140 8.939929 TCAAGAACATCTAGCACAAAGAATAAG 58.060 33.333 0.00 0.00 0.00 1.73
867 1192 1.760875 GGGGATCGGGCTGTACTGA 60.761 63.158 3.61 0.00 0.00 3.41
927 1252 3.525862 AGAGTCTCCCCTGAAATTGACT 58.474 45.455 0.00 0.00 37.46 3.41
971 1296 2.106511 TCCCTCTCCAAACTCTTGTTGG 59.893 50.000 0.00 0.00 36.39 3.77
1137 1475 3.788672 GGAGATGAGCATCCGGTTT 57.211 52.632 0.00 0.00 38.58 3.27
1260 1598 3.071206 GAGGCAGAGAGGTCGGCA 61.071 66.667 0.00 0.00 44.96 5.69
1540 1881 3.056304 GCACGGCAAGAAATTAAGCAAA 58.944 40.909 0.00 0.00 0.00 3.68
1812 2166 9.378551 GTATTTTAATTTTCCCCTCACAAATCC 57.621 33.333 0.00 0.00 0.00 3.01
1856 2211 2.787473 TTCAGGATCACATGGTCCAC 57.213 50.000 13.67 0.00 36.96 4.02
1911 2267 0.673437 GCAGCAGGTTGGTAAAAGCA 59.327 50.000 0.00 0.00 0.00 3.91
2213 2569 1.217882 AGAAGCAAGTCGTTTGGTCG 58.782 50.000 7.38 0.00 46.27 4.79
2254 2610 2.408271 TCCACCAACTCATCAGATGC 57.592 50.000 5.41 0.00 0.00 3.91
2325 2681 4.072839 CACTAGAAAGAAAGAACACCCCC 58.927 47.826 0.00 0.00 0.00 5.40
2330 2686 4.431416 TGCCCACTAGAAAGAAAGAACA 57.569 40.909 0.00 0.00 0.00 3.18
2331 2687 5.123027 CAGATGCCCACTAGAAAGAAAGAAC 59.877 44.000 0.00 0.00 0.00 3.01


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

AutoCloner maintained by Alex Coulton.