Multiple sequence alignment - TraesCS2A01G268500

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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 TraesCS2A01G268500 chr2A 100.000 2969 0 0 1 2969 431080670 431077702 0.000000e+00 5483.0
1 TraesCS2A01G268500 chr2D 95.627 2378 48 13 596 2936 326787403 326785045 0.000000e+00 3764.0
2 TraesCS2A01G268500 chr2D 90.559 286 14 4 314 594 326788060 326787783 1.680000e-97 366.0
3 TraesCS2A01G268500 chr2B 93.245 2413 72 36 568 2923 396405875 396403497 0.000000e+00 3469.0
4 TraesCS2A01G268500 chr2B 92.991 214 15 0 348 561 396406454 396406241 2.220000e-81 313.0
5 TraesCS2A01G268500 chr7D 86.452 310 33 6 2529 2833 553007085 553006780 6.130000e-87 331.0
6 TraesCS2A01G268500 chr5D 85.621 306 36 5 2529 2830 214422573 214422272 6.180000e-82 315.0
7 TraesCS2A01G268500 chr5B 84.536 97 12 2 85 178 681219123 681219027 3.150000e-15 93.5
8 TraesCS2A01G268500 chr5B 83.505 97 13 2 85 178 681219395 681219299 1.470000e-13 87.9
9 TraesCS2A01G268500 chr5A 81.308 107 16 4 89 193 593477245 593477141 1.900000e-12 84.2


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 TraesCS2A01G268500 chr2A 431077702 431080670 2968 True 5483 5483 100.000 1 2969 1 chr2A.!!$R1 2968
1 TraesCS2A01G268500 chr2D 326785045 326788060 3015 True 2065 3764 93.093 314 2936 2 chr2D.!!$R1 2622
2 TraesCS2A01G268500 chr2B 396403497 396406454 2957 True 1891 3469 93.118 348 2923 2 chr2B.!!$R1 2575

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
177 178 0.037419 CCAAACTTGGGCCGGAAATG 60.037 55.0 5.05 0.0 44.7 2.32 F
183 184 0.111446 TTGGGCCGGAAATGAGTCAA 59.889 50.0 5.05 0.0 0.0 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1225 2010 1.275573 GAAGTAGGTTGAGAAGCCGGT 59.724 52.381 1.90 0.00 0.0 5.28 R
2038 2847 2.088178 GCATTTTCCACCGCGCTTG 61.088 57.895 5.56 1.77 0.0 4.01 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
17 18 2.264480 CAAGATGGACGACGGGCA 59.736 61.111 0.00 0.00 0.00 5.36
18 19 1.153369 CAAGATGGACGACGGGCAT 60.153 57.895 0.00 0.00 0.00 4.40
19 20 1.153369 AAGATGGACGACGGGCATG 60.153 57.895 0.00 0.00 0.00 4.06
20 21 2.588877 GATGGACGACGGGCATGG 60.589 66.667 0.00 0.00 0.00 3.66
21 22 4.856801 ATGGACGACGGGCATGGC 62.857 66.667 11.56 11.56 0.00 4.40
64 65 3.075005 CGGAGCGAGGAAAGGGGA 61.075 66.667 0.00 0.00 0.00 4.81
65 66 2.656069 CGGAGCGAGGAAAGGGGAA 61.656 63.158 0.00 0.00 0.00 3.97
66 67 1.222113 GGAGCGAGGAAAGGGGAAG 59.778 63.158 0.00 0.00 0.00 3.46
67 68 1.265454 GGAGCGAGGAAAGGGGAAGA 61.265 60.000 0.00 0.00 0.00 2.87
68 69 0.613777 GAGCGAGGAAAGGGGAAGAA 59.386 55.000 0.00 0.00 0.00 2.52
69 70 1.003233 GAGCGAGGAAAGGGGAAGAAA 59.997 52.381 0.00 0.00 0.00 2.52
70 71 1.423921 AGCGAGGAAAGGGGAAGAAAA 59.576 47.619 0.00 0.00 0.00 2.29
71 72 1.813178 GCGAGGAAAGGGGAAGAAAAG 59.187 52.381 0.00 0.00 0.00 2.27
72 73 2.437413 CGAGGAAAGGGGAAGAAAAGG 58.563 52.381 0.00 0.00 0.00 3.11
73 74 2.808919 GAGGAAAGGGGAAGAAAAGGG 58.191 52.381 0.00 0.00 0.00 3.95
74 75 1.433199 AGGAAAGGGGAAGAAAAGGGG 59.567 52.381 0.00 0.00 0.00 4.79
75 76 1.149288 GGAAAGGGGAAGAAAAGGGGT 59.851 52.381 0.00 0.00 0.00 4.95
76 77 2.427297 GGAAAGGGGAAGAAAAGGGGTT 60.427 50.000 0.00 0.00 0.00 4.11
77 78 3.181415 GGAAAGGGGAAGAAAAGGGGTTA 60.181 47.826 0.00 0.00 0.00 2.85
78 79 4.512207 GGAAAGGGGAAGAAAAGGGGTTAT 60.512 45.833 0.00 0.00 0.00 1.89
79 80 3.757947 AGGGGAAGAAAAGGGGTTATG 57.242 47.619 0.00 0.00 0.00 1.90
80 81 3.001086 AGGGGAAGAAAAGGGGTTATGT 58.999 45.455 0.00 0.00 0.00 2.29
81 82 3.011369 AGGGGAAGAAAAGGGGTTATGTC 59.989 47.826 0.00 0.00 0.00 3.06
82 83 3.245479 GGGGAAGAAAAGGGGTTATGTCA 60.245 47.826 0.00 0.00 0.00 3.58
83 84 4.412843 GGGAAGAAAAGGGGTTATGTCAA 58.587 43.478 0.00 0.00 0.00 3.18
84 85 4.219944 GGGAAGAAAAGGGGTTATGTCAAC 59.780 45.833 0.00 0.00 0.00 3.18
85 86 4.082949 GGAAGAAAAGGGGTTATGTCAACG 60.083 45.833 0.00 0.00 0.00 4.10
86 87 4.360951 AGAAAAGGGGTTATGTCAACGA 57.639 40.909 0.00 0.00 0.00 3.85
87 88 4.070009 AGAAAAGGGGTTATGTCAACGAC 58.930 43.478 0.00 0.00 0.00 4.34
88 89 2.088950 AAGGGGTTATGTCAACGACG 57.911 50.000 0.00 0.00 34.95 5.12
89 90 0.248289 AGGGGTTATGTCAACGACGG 59.752 55.000 0.00 0.00 34.95 4.79
90 91 1.363885 GGGGTTATGTCAACGACGGC 61.364 60.000 0.00 0.00 34.95 5.68
91 92 1.689352 GGGTTATGTCAACGACGGCG 61.689 60.000 10.39 10.39 44.79 6.46
92 93 1.689352 GGTTATGTCAACGACGGCGG 61.689 60.000 18.49 0.00 43.17 6.13
93 94 1.446445 TTATGTCAACGACGGCGGG 60.446 57.895 18.49 7.01 43.17 6.13
94 95 3.993376 TATGTCAACGACGGCGGGC 62.993 63.158 18.49 0.00 43.17 6.13
111 112 4.748144 CCAGGGGCAGACAAGGGC 62.748 72.222 0.00 0.00 0.00 5.19
112 113 3.970410 CAGGGGCAGACAAGGGCA 61.970 66.667 0.00 0.00 0.00 5.36
113 114 2.943265 AGGGGCAGACAAGGGCAT 60.943 61.111 0.00 0.00 0.00 4.40
114 115 2.757099 GGGGCAGACAAGGGCATG 60.757 66.667 0.00 0.00 0.00 4.06
115 116 3.455469 GGGCAGACAAGGGCATGC 61.455 66.667 9.90 9.90 37.95 4.06
116 117 3.818787 GGCAGACAAGGGCATGCG 61.819 66.667 12.44 0.00 39.58 4.73
117 118 3.058160 GCAGACAAGGGCATGCGT 61.058 61.111 12.44 3.26 0.00 5.24
118 119 3.044059 GCAGACAAGGGCATGCGTC 62.044 63.158 12.44 13.14 0.00 5.19
119 120 2.434884 AGACAAGGGCATGCGTCG 60.435 61.111 12.44 2.44 33.56 5.12
120 121 4.166011 GACAAGGGCATGCGTCGC 62.166 66.667 12.44 11.10 0.00 5.19
140 141 4.640855 CTGTCCACGCGTGTCCGT 62.641 66.667 34.81 0.00 43.11 4.69
141 142 4.210093 TGTCCACGCGTGTCCGTT 62.210 61.111 34.81 0.00 39.83 4.44
142 143 3.400590 GTCCACGCGTGTCCGTTC 61.401 66.667 34.81 15.59 39.83 3.95
143 144 4.986587 TCCACGCGTGTCCGTTCG 62.987 66.667 34.81 19.25 39.83 3.95
151 152 4.912485 TGTCCGTTCGGCCGCAAA 62.912 61.111 23.51 7.95 0.00 3.68
152 153 4.379143 GTCCGTTCGGCCGCAAAC 62.379 66.667 23.51 19.84 0.00 2.93
156 157 3.641986 GTTCGGCCGCAAACGTGA 61.642 61.111 23.51 0.00 37.70 4.35
157 158 3.641986 TTCGGCCGCAAACGTGAC 61.642 61.111 23.51 0.00 37.70 3.67
161 162 3.587933 GCCGCAAACGTGACCCAA 61.588 61.111 0.00 0.00 37.70 4.12
162 163 3.111939 CCGCAAACGTGACCCAAA 58.888 55.556 0.00 0.00 37.70 3.28
163 164 1.298788 CCGCAAACGTGACCCAAAC 60.299 57.895 0.00 0.00 37.70 2.93
164 165 1.720694 CCGCAAACGTGACCCAAACT 61.721 55.000 0.00 0.00 37.70 2.66
165 166 0.099791 CGCAAACGTGACCCAAACTT 59.900 50.000 0.00 0.00 33.53 2.66
166 167 1.555477 GCAAACGTGACCCAAACTTG 58.445 50.000 0.00 0.00 0.00 3.16
175 176 3.863606 CCAAACTTGGGCCGGAAA 58.136 55.556 5.05 0.00 44.70 3.13
176 177 2.361189 CCAAACTTGGGCCGGAAAT 58.639 52.632 5.05 0.00 44.70 2.17
177 178 0.037419 CCAAACTTGGGCCGGAAATG 60.037 55.000 5.05 0.00 44.70 2.32
178 179 0.965439 CAAACTTGGGCCGGAAATGA 59.035 50.000 5.05 0.00 0.00 2.57
179 180 1.067635 CAAACTTGGGCCGGAAATGAG 60.068 52.381 5.05 0.00 0.00 2.90
180 181 0.112412 AACTTGGGCCGGAAATGAGT 59.888 50.000 5.05 0.00 0.00 3.41
181 182 0.322546 ACTTGGGCCGGAAATGAGTC 60.323 55.000 5.05 0.00 0.00 3.36
182 183 0.322456 CTTGGGCCGGAAATGAGTCA 60.322 55.000 5.05 0.00 0.00 3.41
183 184 0.111446 TTGGGCCGGAAATGAGTCAA 59.889 50.000 5.05 0.00 0.00 3.18
184 185 0.111446 TGGGCCGGAAATGAGTCAAA 59.889 50.000 5.05 0.00 0.00 2.69
185 186 1.253100 GGGCCGGAAATGAGTCAAAA 58.747 50.000 5.05 0.00 0.00 2.44
186 187 1.616374 GGGCCGGAAATGAGTCAAAAA 59.384 47.619 5.05 0.00 0.00 1.94
187 188 2.609491 GGGCCGGAAATGAGTCAAAAAC 60.609 50.000 5.05 0.00 0.00 2.43
188 189 2.315901 GCCGGAAATGAGTCAAAAACG 58.684 47.619 5.05 0.18 0.00 3.60
189 190 2.031508 GCCGGAAATGAGTCAAAAACGA 60.032 45.455 5.05 0.00 0.00 3.85
190 191 3.549221 GCCGGAAATGAGTCAAAAACGAA 60.549 43.478 5.05 0.00 0.00 3.85
191 192 3.972502 CCGGAAATGAGTCAAAAACGAAC 59.027 43.478 0.00 0.00 0.00 3.95
192 193 4.496673 CCGGAAATGAGTCAAAAACGAACA 60.497 41.667 0.00 0.00 0.00 3.18
193 194 5.212194 CGGAAATGAGTCAAAAACGAACAT 58.788 37.500 0.00 0.00 0.00 2.71
194 195 5.685511 CGGAAATGAGTCAAAAACGAACATT 59.314 36.000 0.00 0.00 34.82 2.71
195 196 6.198216 CGGAAATGAGTCAAAAACGAACATTT 59.802 34.615 0.00 0.00 40.23 2.32
196 197 7.336975 GGAAATGAGTCAAAAACGAACATTTG 58.663 34.615 0.00 0.00 39.05 2.32
197 198 7.010091 GGAAATGAGTCAAAAACGAACATTTGT 59.990 33.333 0.00 0.00 39.05 2.83
198 199 7.449934 AATGAGTCAAAAACGAACATTTGTC 57.550 32.000 0.00 0.00 37.68 3.18
199 200 6.189677 TGAGTCAAAAACGAACATTTGTCT 57.810 33.333 0.00 0.00 37.53 3.41
200 201 7.310072 TGAGTCAAAAACGAACATTTGTCTA 57.690 32.000 0.00 0.00 35.87 2.59
201 202 7.925993 TGAGTCAAAAACGAACATTTGTCTAT 58.074 30.769 0.00 0.00 35.87 1.98
202 203 8.402472 TGAGTCAAAAACGAACATTTGTCTATT 58.598 29.630 0.00 0.00 35.87 1.73
203 204 9.233232 GAGTCAAAAACGAACATTTGTCTATTT 57.767 29.630 0.00 0.00 35.87 1.40
204 205 9.019764 AGTCAAAAACGAACATTTGTCTATTTG 57.980 29.630 0.00 9.46 37.68 2.32
205 206 7.787480 GTCAAAAACGAACATTTGTCTATTTGC 59.213 33.333 0.00 0.00 37.68 3.68
206 207 7.704472 TCAAAAACGAACATTTGTCTATTTGCT 59.296 29.630 0.00 0.00 37.68 3.91
207 208 8.327429 CAAAAACGAACATTTGTCTATTTGCTT 58.673 29.630 0.00 0.00 33.04 3.91
208 209 7.623268 AAACGAACATTTGTCTATTTGCTTC 57.377 32.000 0.00 0.00 0.00 3.86
209 210 5.699839 ACGAACATTTGTCTATTTGCTTCC 58.300 37.500 0.00 0.00 0.00 3.46
210 211 5.240623 ACGAACATTTGTCTATTTGCTTCCA 59.759 36.000 0.00 0.00 0.00 3.53
211 212 5.569059 CGAACATTTGTCTATTTGCTTCCAC 59.431 40.000 0.00 0.00 0.00 4.02
212 213 5.046910 ACATTTGTCTATTTGCTTCCACG 57.953 39.130 0.00 0.00 0.00 4.94
213 214 3.552604 TTTGTCTATTTGCTTCCACGC 57.447 42.857 0.00 0.00 0.00 5.34
214 215 1.075542 TGTCTATTTGCTTCCACGCG 58.924 50.000 3.53 3.53 0.00 6.01
215 216 1.076332 GTCTATTTGCTTCCACGCGT 58.924 50.000 5.58 5.58 0.00 6.01
216 217 1.463444 GTCTATTTGCTTCCACGCGTT 59.537 47.619 10.22 0.00 0.00 4.84
217 218 1.463056 TCTATTTGCTTCCACGCGTTG 59.537 47.619 10.22 6.47 0.00 4.10
219 220 2.141122 ATTTGCTTCCACGCGTTGGG 62.141 55.000 21.98 16.62 46.92 4.12
220 221 4.555709 TGCTTCCACGCGTTGGGT 62.556 61.111 21.98 0.00 46.92 4.51
221 222 3.723348 GCTTCCACGCGTTGGGTC 61.723 66.667 21.98 11.25 46.92 4.46
222 223 2.280524 CTTCCACGCGTTGGGTCA 60.281 61.111 21.98 8.41 46.92 4.02
223 224 2.589442 TTCCACGCGTTGGGTCAC 60.589 61.111 21.98 0.00 46.92 3.67
224 225 4.953868 TCCACGCGTTGGGTCACG 62.954 66.667 21.98 5.12 46.92 4.35
227 228 4.534141 ACGCGTTGGGTCACGGTT 62.534 61.111 5.58 0.00 40.69 4.44
228 229 4.007940 CGCGTTGGGTCACGGTTG 62.008 66.667 0.00 0.00 40.69 3.77
229 230 3.656045 GCGTTGGGTCACGGTTGG 61.656 66.667 0.00 0.00 40.69 3.77
230 231 2.203098 CGTTGGGTCACGGTTGGT 60.203 61.111 0.00 0.00 36.47 3.67
240 241 2.867456 CACGGTTGGTGTTCGATTAC 57.133 50.000 0.00 0.00 41.89 1.89
241 242 2.136728 CACGGTTGGTGTTCGATTACA 58.863 47.619 0.00 0.00 41.89 2.41
242 243 2.739913 CACGGTTGGTGTTCGATTACAT 59.260 45.455 0.00 0.00 41.89 2.29
243 244 3.187637 CACGGTTGGTGTTCGATTACATT 59.812 43.478 0.00 0.00 41.89 2.71
244 245 4.389382 CACGGTTGGTGTTCGATTACATTA 59.611 41.667 0.00 0.00 41.89 1.90
245 246 4.996122 ACGGTTGGTGTTCGATTACATTAA 59.004 37.500 0.00 0.00 0.00 1.40
246 247 5.469421 ACGGTTGGTGTTCGATTACATTAAA 59.531 36.000 0.00 0.00 0.00 1.52
247 248 5.791480 CGGTTGGTGTTCGATTACATTAAAC 59.209 40.000 0.00 0.14 0.00 2.01
248 249 5.791480 GGTTGGTGTTCGATTACATTAAACG 59.209 40.000 0.00 0.00 35.61 3.60
249 250 5.533533 TGGTGTTCGATTACATTAAACGG 57.466 39.130 0.00 0.00 35.12 4.44
250 251 5.236282 TGGTGTTCGATTACATTAAACGGA 58.764 37.500 0.00 0.00 35.12 4.69
251 252 5.120519 TGGTGTTCGATTACATTAAACGGAC 59.879 40.000 0.00 0.00 41.23 4.79
252 253 5.242877 GTGTTCGATTACATTAAACGGACG 58.757 41.667 0.00 0.00 43.01 4.79
253 254 4.201608 TGTTCGATTACATTAAACGGACGC 60.202 41.667 0.00 0.00 43.01 5.19
254 255 2.531103 TCGATTACATTAAACGGACGCG 59.469 45.455 3.53 3.53 35.12 6.01
255 256 2.531103 CGATTACATTAAACGGACGCGA 59.469 45.455 15.93 0.00 31.44 5.87
256 257 3.360384 CGATTACATTAAACGGACGCGAG 60.360 47.826 15.93 6.25 31.44 5.03
257 258 1.270971 TACATTAAACGGACGCGAGC 58.729 50.000 15.93 3.71 0.00 5.03
258 259 1.347221 CATTAAACGGACGCGAGCC 59.653 57.895 15.93 13.31 0.00 4.70
265 266 4.849329 GGACGCGAGCCGACGATT 62.849 66.667 15.93 0.00 41.02 3.34
266 267 2.879462 GACGCGAGCCGACGATTT 60.879 61.111 15.93 0.00 41.02 2.17
267 268 3.126722 GACGCGAGCCGACGATTTG 62.127 63.158 15.93 0.00 41.02 2.32
268 269 3.913573 CGCGAGCCGACGATTTGG 61.914 66.667 0.00 0.00 40.02 3.28
269 270 3.564027 GCGAGCCGACGATTTGGG 61.564 66.667 0.00 0.00 35.09 4.12
270 271 2.890474 CGAGCCGACGATTTGGGG 60.890 66.667 0.00 0.00 35.09 4.96
271 272 2.267961 GAGCCGACGATTTGGGGT 59.732 61.111 0.00 0.00 0.00 4.95
272 273 1.376812 GAGCCGACGATTTGGGGTT 60.377 57.895 0.00 0.00 0.00 4.11
273 274 1.644786 GAGCCGACGATTTGGGGTTG 61.645 60.000 0.00 0.00 0.00 3.77
274 275 1.969589 GCCGACGATTTGGGGTTGT 60.970 57.895 0.00 0.00 0.00 3.32
275 276 1.873165 CCGACGATTTGGGGTTGTG 59.127 57.895 0.00 0.00 0.00 3.33
276 277 1.209127 CGACGATTTGGGGTTGTGC 59.791 57.895 0.00 0.00 0.00 4.57
277 278 1.234615 CGACGATTTGGGGTTGTGCT 61.235 55.000 0.00 0.00 0.00 4.40
278 279 0.958822 GACGATTTGGGGTTGTGCTT 59.041 50.000 0.00 0.00 0.00 3.91
279 280 1.339929 GACGATTTGGGGTTGTGCTTT 59.660 47.619 0.00 0.00 0.00 3.51
280 281 1.068434 ACGATTTGGGGTTGTGCTTTG 59.932 47.619 0.00 0.00 0.00 2.77
281 282 1.605202 CGATTTGGGGTTGTGCTTTGG 60.605 52.381 0.00 0.00 0.00 3.28
282 283 1.691434 GATTTGGGGTTGTGCTTTGGA 59.309 47.619 0.00 0.00 0.00 3.53
283 284 1.573108 TTTGGGGTTGTGCTTTGGAA 58.427 45.000 0.00 0.00 0.00 3.53
284 285 1.799933 TTGGGGTTGTGCTTTGGAAT 58.200 45.000 0.00 0.00 0.00 3.01
285 286 2.685106 TGGGGTTGTGCTTTGGAATA 57.315 45.000 0.00 0.00 0.00 1.75
286 287 2.964209 TGGGGTTGTGCTTTGGAATAA 58.036 42.857 0.00 0.00 0.00 1.40
287 288 2.896685 TGGGGTTGTGCTTTGGAATAAG 59.103 45.455 0.00 0.00 0.00 1.73
288 289 3.161866 GGGGTTGTGCTTTGGAATAAGA 58.838 45.455 0.00 0.00 0.00 2.10
289 290 3.769300 GGGGTTGTGCTTTGGAATAAGAT 59.231 43.478 0.00 0.00 0.00 2.40
290 291 4.142160 GGGGTTGTGCTTTGGAATAAGATC 60.142 45.833 0.00 0.00 0.00 2.75
291 292 4.438744 GGGTTGTGCTTTGGAATAAGATCG 60.439 45.833 0.00 0.00 0.00 3.69
292 293 4.156008 GGTTGTGCTTTGGAATAAGATCGT 59.844 41.667 0.00 0.00 0.00 3.73
293 294 4.944962 TGTGCTTTGGAATAAGATCGTG 57.055 40.909 0.00 0.00 0.00 4.35
294 295 4.323417 TGTGCTTTGGAATAAGATCGTGT 58.677 39.130 0.00 0.00 0.00 4.49
295 296 5.483811 TGTGCTTTGGAATAAGATCGTGTA 58.516 37.500 0.00 0.00 0.00 2.90
296 297 5.935206 TGTGCTTTGGAATAAGATCGTGTAA 59.065 36.000 0.00 0.00 0.00 2.41
297 298 6.128391 TGTGCTTTGGAATAAGATCGTGTAAC 60.128 38.462 0.00 0.00 0.00 2.50
298 299 5.353123 TGCTTTGGAATAAGATCGTGTAACC 59.647 40.000 0.00 0.00 0.00 2.85
299 300 5.585047 GCTTTGGAATAAGATCGTGTAACCT 59.415 40.000 0.00 0.00 0.00 3.50
300 301 6.759827 GCTTTGGAATAAGATCGTGTAACCTA 59.240 38.462 0.00 0.00 0.00 3.08
301 302 7.441458 GCTTTGGAATAAGATCGTGTAACCTAT 59.559 37.037 0.00 0.00 0.00 2.57
302 303 8.882415 TTTGGAATAAGATCGTGTAACCTATC 57.118 34.615 0.00 0.00 0.00 2.08
303 304 6.675026 TGGAATAAGATCGTGTAACCTATCG 58.325 40.000 0.00 0.00 32.60 2.92
304 305 5.572126 GGAATAAGATCGTGTAACCTATCGC 59.428 44.000 0.00 0.00 32.60 4.58
305 306 5.961396 ATAAGATCGTGTAACCTATCGCT 57.039 39.130 0.00 0.00 32.60 4.93
306 307 4.650754 AAGATCGTGTAACCTATCGCTT 57.349 40.909 0.00 0.00 32.60 4.68
307 308 4.650754 AGATCGTGTAACCTATCGCTTT 57.349 40.909 0.00 0.00 32.60 3.51
308 309 4.360563 AGATCGTGTAACCTATCGCTTTG 58.639 43.478 0.00 0.00 32.60 2.77
309 310 2.883574 TCGTGTAACCTATCGCTTTGG 58.116 47.619 0.00 0.00 0.00 3.28
310 311 1.931172 CGTGTAACCTATCGCTTTGGG 59.069 52.381 0.00 0.00 0.00 4.12
311 312 2.285977 GTGTAACCTATCGCTTTGGGG 58.714 52.381 0.00 0.00 0.00 4.96
312 313 1.210967 TGTAACCTATCGCTTTGGGGG 59.789 52.381 0.00 0.00 0.00 5.40
313 314 1.211212 GTAACCTATCGCTTTGGGGGT 59.789 52.381 0.00 0.00 0.00 4.95
314 315 1.587066 AACCTATCGCTTTGGGGGTA 58.413 50.000 0.00 0.00 0.00 3.69
315 316 1.129058 ACCTATCGCTTTGGGGGTAG 58.871 55.000 0.00 0.00 38.39 3.18
316 317 1.343681 ACCTATCGCTTTGGGGGTAGA 60.344 52.381 2.61 0.00 40.27 2.59
384 385 1.540118 TCCATGGTGCTGGGTGGTA 60.540 57.895 12.58 0.00 36.89 3.25
389 390 2.354729 GTGCTGGGTGGTATGGCA 59.645 61.111 0.00 0.00 0.00 4.92
416 418 6.672266 TTTTCTCTCTTTTGAGGAGCTAGA 57.328 37.500 0.00 0.00 46.22 2.43
430 432 4.098196 AGGAGCTAGAGGTGATTAAACGAC 59.902 45.833 0.00 0.00 0.00 4.34
484 490 4.723862 CGCATGCGTACAGTATTTCTTTTC 59.276 41.667 31.33 0.00 34.35 2.29
485 491 4.723862 GCATGCGTACAGTATTTCTTTTCG 59.276 41.667 0.00 0.00 0.00 3.46
486 492 4.914312 TGCGTACAGTATTTCTTTTCGG 57.086 40.909 0.00 0.00 0.00 4.30
487 493 4.558178 TGCGTACAGTATTTCTTTTCGGA 58.442 39.130 0.00 0.00 0.00 4.55
600 966 0.459489 TGTGTTTGTGCTTTGCCCTC 59.541 50.000 0.00 0.00 0.00 4.30
646 1391 2.561885 GCTGCTGCTTCTGCACTG 59.438 61.111 8.53 0.00 45.31 3.66
647 1392 2.561885 CTGCTGCTTCTGCACTGC 59.438 61.111 0.00 0.00 45.31 4.40
648 1393 1.966972 CTGCTGCTTCTGCACTGCT 60.967 57.895 1.98 0.00 45.31 4.24
764 1509 1.377333 GAGGGGAAAGCAACGGGAG 60.377 63.158 0.00 0.00 0.00 4.30
772 1517 4.410400 GCAACGGGAGGACAGGGG 62.410 72.222 0.00 0.00 0.00 4.79
779 1536 1.501654 GGGAGGACAGGGGAAAAGCT 61.502 60.000 0.00 0.00 0.00 3.74
983 1765 4.394712 CACCACTCTCCCCGTGCC 62.395 72.222 0.00 0.00 0.00 5.01
1220 2005 4.047125 CATCCACTTGGCCCCCGT 62.047 66.667 0.00 0.00 34.44 5.28
1577 2386 4.154347 CCTCCTCCTCCGCAGCAC 62.154 72.222 0.00 0.00 0.00 4.40
1602 2411 4.529219 ATGCTCGCCGGATTCGCA 62.529 61.111 5.05 8.26 34.56 5.10
2038 2847 6.737254 TGTAAGTAGGAAATTGTTGCTAGC 57.263 37.500 8.10 8.10 38.23 3.42
2155 2964 9.598517 AAATTGTAACTTGTCAATTGTCATGTT 57.401 25.926 27.11 27.11 41.44 2.71
2173 2982 2.640332 TGTTATCCACCACTGCTACCAA 59.360 45.455 0.00 0.00 0.00 3.67
2405 3226 2.146342 GATACTGAATGCATCCACCGG 58.854 52.381 0.00 0.00 0.00 5.28
2519 3340 2.108700 CTTTTCAAACGCACTTCACCG 58.891 47.619 0.00 0.00 0.00 4.94
2555 3376 3.983741 ACTCCTGCATTAGTAGATTCGC 58.016 45.455 0.00 0.00 0.00 4.70
2609 3430 2.423538 GACTCTTGTTGCAGTTTGGTGT 59.576 45.455 0.00 0.00 0.00 4.16
2689 3511 6.594937 CCAAAGCCACTTTGCATTAATATTGT 59.405 34.615 13.35 0.00 46.44 2.71
2732 3554 7.310921 GCTGAAATCATTATGGGAGATCTAGGA 60.311 40.741 0.00 0.00 0.00 2.94
2847 3669 3.653164 TGTATCCTGGAACCTGATGCTA 58.347 45.455 0.00 0.00 0.00 3.49
2888 3710 6.148948 TGCATCTTGAAAAATGTAAAGACGG 58.851 36.000 0.00 0.00 31.82 4.79
2960 3784 2.715737 TTTCAGGGTACGCAAATTGC 57.284 45.000 12.95 8.09 40.69 3.56
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.153369 ATGCCCGTCGTCCATCTTG 60.153 57.895 0.00 0.00 0.00 3.02
2 3 2.501128 CATGCCCGTCGTCCATCT 59.499 61.111 0.00 0.00 0.00 2.90
4 5 4.856801 GCCATGCCCGTCGTCCAT 62.857 66.667 0.00 0.00 0.00 3.41
41 42 3.605749 TTTCCTCGCTCCGCCCTTG 62.606 63.158 0.00 0.00 0.00 3.61
42 43 3.316573 CTTTCCTCGCTCCGCCCTT 62.317 63.158 0.00 0.00 0.00 3.95
43 44 3.775654 CTTTCCTCGCTCCGCCCT 61.776 66.667 0.00 0.00 0.00 5.19
44 45 4.840005 CCTTTCCTCGCTCCGCCC 62.840 72.222 0.00 0.00 0.00 6.13
45 46 4.840005 CCCTTTCCTCGCTCCGCC 62.840 72.222 0.00 0.00 0.00 6.13
46 47 4.840005 CCCCTTTCCTCGCTCCGC 62.840 72.222 0.00 0.00 0.00 5.54
47 48 2.579684 CTTCCCCTTTCCTCGCTCCG 62.580 65.000 0.00 0.00 0.00 4.63
48 49 1.222113 CTTCCCCTTTCCTCGCTCC 59.778 63.158 0.00 0.00 0.00 4.70
49 50 0.613777 TTCTTCCCCTTTCCTCGCTC 59.386 55.000 0.00 0.00 0.00 5.03
50 51 1.064825 TTTCTTCCCCTTTCCTCGCT 58.935 50.000 0.00 0.00 0.00 4.93
51 52 1.813178 CTTTTCTTCCCCTTTCCTCGC 59.187 52.381 0.00 0.00 0.00 5.03
52 53 2.437413 CCTTTTCTTCCCCTTTCCTCG 58.563 52.381 0.00 0.00 0.00 4.63
53 54 2.557676 CCCCTTTTCTTCCCCTTTCCTC 60.558 54.545 0.00 0.00 0.00 3.71
54 55 1.433199 CCCCTTTTCTTCCCCTTTCCT 59.567 52.381 0.00 0.00 0.00 3.36
55 56 1.149288 ACCCCTTTTCTTCCCCTTTCC 59.851 52.381 0.00 0.00 0.00 3.13
56 57 2.696526 ACCCCTTTTCTTCCCCTTTC 57.303 50.000 0.00 0.00 0.00 2.62
57 58 4.140543 ACATAACCCCTTTTCTTCCCCTTT 60.141 41.667 0.00 0.00 0.00 3.11
58 59 3.404769 ACATAACCCCTTTTCTTCCCCTT 59.595 43.478 0.00 0.00 0.00 3.95
59 60 3.001086 ACATAACCCCTTTTCTTCCCCT 58.999 45.455 0.00 0.00 0.00 4.79
60 61 3.245479 TGACATAACCCCTTTTCTTCCCC 60.245 47.826 0.00 0.00 0.00 4.81
61 62 4.042271 TGACATAACCCCTTTTCTTCCC 57.958 45.455 0.00 0.00 0.00 3.97
62 63 4.082949 CGTTGACATAACCCCTTTTCTTCC 60.083 45.833 0.00 0.00 0.00 3.46
63 64 4.758165 TCGTTGACATAACCCCTTTTCTTC 59.242 41.667 0.00 0.00 0.00 2.87
64 65 4.517832 GTCGTTGACATAACCCCTTTTCTT 59.482 41.667 0.00 0.00 32.09 2.52
65 66 4.070009 GTCGTTGACATAACCCCTTTTCT 58.930 43.478 0.00 0.00 32.09 2.52
66 67 3.120442 CGTCGTTGACATAACCCCTTTTC 60.120 47.826 0.00 0.00 32.09 2.29
67 68 2.809696 CGTCGTTGACATAACCCCTTTT 59.190 45.455 0.00 0.00 32.09 2.27
68 69 2.419667 CGTCGTTGACATAACCCCTTT 58.580 47.619 0.00 0.00 32.09 3.11
69 70 1.338389 CCGTCGTTGACATAACCCCTT 60.338 52.381 0.00 0.00 32.09 3.95
70 71 0.248289 CCGTCGTTGACATAACCCCT 59.752 55.000 0.00 0.00 32.09 4.79
71 72 1.363885 GCCGTCGTTGACATAACCCC 61.364 60.000 0.00 0.00 32.09 4.95
72 73 1.689352 CGCCGTCGTTGACATAACCC 61.689 60.000 0.00 0.00 32.09 4.11
73 74 1.689352 CCGCCGTCGTTGACATAACC 61.689 60.000 0.00 0.00 32.09 2.85
74 75 1.689352 CCCGCCGTCGTTGACATAAC 61.689 60.000 0.00 0.00 32.09 1.89
75 76 1.446445 CCCGCCGTCGTTGACATAA 60.446 57.895 0.00 0.00 32.09 1.90
76 77 2.182284 CCCGCCGTCGTTGACATA 59.818 61.111 0.00 0.00 32.09 2.29
94 95 4.748144 GCCCTTGTCTGCCCCTGG 62.748 72.222 0.00 0.00 0.00 4.45
95 96 3.292481 ATGCCCTTGTCTGCCCCTG 62.292 63.158 0.00 0.00 0.00 4.45
96 97 2.943265 ATGCCCTTGTCTGCCCCT 60.943 61.111 0.00 0.00 0.00 4.79
97 98 2.757099 CATGCCCTTGTCTGCCCC 60.757 66.667 0.00 0.00 0.00 5.80
98 99 3.455469 GCATGCCCTTGTCTGCCC 61.455 66.667 6.36 0.00 0.00 5.36
99 100 3.818787 CGCATGCCCTTGTCTGCC 61.819 66.667 13.15 0.00 0.00 4.85
100 101 3.044059 GACGCATGCCCTTGTCTGC 62.044 63.158 13.15 0.00 0.00 4.26
101 102 2.743752 CGACGCATGCCCTTGTCTG 61.744 63.158 13.15 6.52 0.00 3.51
102 103 2.434884 CGACGCATGCCCTTGTCT 60.435 61.111 13.15 0.00 0.00 3.41
103 104 4.166011 GCGACGCATGCCCTTGTC 62.166 66.667 16.42 12.45 0.00 3.18
123 124 4.640855 ACGGACACGCGTGGACAG 62.641 66.667 39.21 31.56 46.04 3.51
124 125 4.210093 AACGGACACGCGTGGACA 62.210 61.111 39.21 0.00 46.04 4.02
125 126 3.400590 GAACGGACACGCGTGGAC 61.401 66.667 39.21 30.61 46.04 4.02
126 127 4.986587 CGAACGGACACGCGTGGA 62.987 66.667 39.21 0.00 46.04 4.02
134 135 4.912485 TTTGCGGCCGAACGGACA 62.912 61.111 33.48 13.85 45.70 4.02
135 136 4.379143 GTTTGCGGCCGAACGGAC 62.379 66.667 33.48 13.87 40.76 4.79
139 140 3.641986 TCACGTTTGCGGCCGAAC 61.642 61.111 33.48 24.00 43.45 3.95
140 141 3.641986 GTCACGTTTGCGGCCGAA 61.642 61.111 33.48 19.06 43.45 4.30
144 145 3.127352 TTTGGGTCACGTTTGCGGC 62.127 57.895 0.00 0.00 43.45 6.53
145 146 1.298788 GTTTGGGTCACGTTTGCGG 60.299 57.895 0.00 0.00 43.45 5.69
146 147 0.099791 AAGTTTGGGTCACGTTTGCG 59.900 50.000 0.00 0.00 44.93 4.85
147 148 1.555477 CAAGTTTGGGTCACGTTTGC 58.445 50.000 0.00 0.00 0.00 3.68
148 149 2.202295 CCAAGTTTGGGTCACGTTTG 57.798 50.000 2.87 0.00 44.70 2.93
159 160 0.965439 TCATTTCCGGCCCAAGTTTG 59.035 50.000 0.00 0.00 0.00 2.93
160 161 1.256812 CTCATTTCCGGCCCAAGTTT 58.743 50.000 0.00 0.00 0.00 2.66
161 162 0.112412 ACTCATTTCCGGCCCAAGTT 59.888 50.000 0.00 0.00 0.00 2.66
162 163 0.322546 GACTCATTTCCGGCCCAAGT 60.323 55.000 0.00 0.00 0.00 3.16
163 164 0.322456 TGACTCATTTCCGGCCCAAG 60.322 55.000 0.00 0.00 0.00 3.61
164 165 0.111446 TTGACTCATTTCCGGCCCAA 59.889 50.000 0.00 0.00 0.00 4.12
165 166 0.111446 TTTGACTCATTTCCGGCCCA 59.889 50.000 0.00 0.00 0.00 5.36
166 167 1.253100 TTTTGACTCATTTCCGGCCC 58.747 50.000 0.00 0.00 0.00 5.80
167 168 2.672714 GTTTTTGACTCATTTCCGGCC 58.327 47.619 0.00 0.00 0.00 6.13
168 169 2.031508 TCGTTTTTGACTCATTTCCGGC 60.032 45.455 0.00 0.00 0.00 6.13
169 170 3.889196 TCGTTTTTGACTCATTTCCGG 57.111 42.857 0.00 0.00 0.00 5.14
170 171 4.593157 TGTTCGTTTTTGACTCATTTCCG 58.407 39.130 0.00 0.00 0.00 4.30
171 172 7.010091 ACAAATGTTCGTTTTTGACTCATTTCC 59.990 33.333 2.69 0.00 36.54 3.13
172 173 7.894847 ACAAATGTTCGTTTTTGACTCATTTC 58.105 30.769 2.69 0.00 36.54 2.17
173 174 7.759433 AGACAAATGTTCGTTTTTGACTCATTT 59.241 29.630 2.69 0.00 34.36 2.32
174 175 7.257722 AGACAAATGTTCGTTTTTGACTCATT 58.742 30.769 2.69 0.00 34.36 2.57
175 176 6.795399 AGACAAATGTTCGTTTTTGACTCAT 58.205 32.000 2.69 0.00 34.36 2.90
176 177 6.189677 AGACAAATGTTCGTTTTTGACTCA 57.810 33.333 2.69 0.00 34.36 3.41
177 178 8.782533 AATAGACAAATGTTCGTTTTTGACTC 57.217 30.769 2.69 0.00 38.29 3.36
178 179 9.019764 CAAATAGACAAATGTTCGTTTTTGACT 57.980 29.630 2.69 4.47 39.74 3.41
179 180 7.787480 GCAAATAGACAAATGTTCGTTTTTGAC 59.213 33.333 2.69 0.00 36.54 3.18
180 181 7.704472 AGCAAATAGACAAATGTTCGTTTTTGA 59.296 29.630 2.69 0.00 36.54 2.69
181 182 7.840489 AGCAAATAGACAAATGTTCGTTTTTG 58.160 30.769 0.00 0.00 38.49 2.44
182 183 8.419076 AAGCAAATAGACAAATGTTCGTTTTT 57.581 26.923 0.00 0.00 0.00 1.94
183 184 7.169140 GGAAGCAAATAGACAAATGTTCGTTTT 59.831 33.333 0.00 0.00 0.00 2.43
184 185 6.640907 GGAAGCAAATAGACAAATGTTCGTTT 59.359 34.615 0.00 0.00 0.00 3.60
185 186 6.149633 GGAAGCAAATAGACAAATGTTCGTT 58.850 36.000 0.00 0.00 0.00 3.85
186 187 5.240623 TGGAAGCAAATAGACAAATGTTCGT 59.759 36.000 0.00 0.00 0.00 3.85
187 188 5.569059 GTGGAAGCAAATAGACAAATGTTCG 59.431 40.000 0.00 0.00 0.00 3.95
188 189 5.569059 CGTGGAAGCAAATAGACAAATGTTC 59.431 40.000 0.00 0.00 0.00 3.18
189 190 5.460646 CGTGGAAGCAAATAGACAAATGTT 58.539 37.500 0.00 0.00 0.00 2.71
190 191 4.615912 GCGTGGAAGCAAATAGACAAATGT 60.616 41.667 0.00 0.00 37.05 2.71
191 192 3.853671 GCGTGGAAGCAAATAGACAAATG 59.146 43.478 0.00 0.00 37.05 2.32
192 193 3.426159 CGCGTGGAAGCAAATAGACAAAT 60.426 43.478 0.00 0.00 36.85 2.32
193 194 2.095969 CGCGTGGAAGCAAATAGACAAA 60.096 45.455 0.00 0.00 36.85 2.83
194 195 1.463056 CGCGTGGAAGCAAATAGACAA 59.537 47.619 0.00 0.00 36.85 3.18
195 196 1.075542 CGCGTGGAAGCAAATAGACA 58.924 50.000 0.00 0.00 36.85 3.41
196 197 1.076332 ACGCGTGGAAGCAAATAGAC 58.924 50.000 12.93 0.00 36.85 2.59
197 198 1.463056 CAACGCGTGGAAGCAAATAGA 59.537 47.619 14.98 0.00 36.85 1.98
198 199 1.882198 CAACGCGTGGAAGCAAATAG 58.118 50.000 14.98 0.00 36.85 1.73
200 201 4.942090 CAACGCGTGGAAGCAAAT 57.058 50.000 14.98 0.00 36.85 2.32
210 211 4.534141 AACCGTGACCCAACGCGT 62.534 61.111 5.58 5.58 42.23 6.01
211 212 4.007940 CAACCGTGACCCAACGCG 62.008 66.667 3.53 3.53 42.23 6.01
212 213 3.656045 CCAACCGTGACCCAACGC 61.656 66.667 0.00 0.00 42.23 4.84
213 214 2.203098 ACCAACCGTGACCCAACG 60.203 61.111 0.00 0.00 43.20 4.10
214 215 1.033202 AACACCAACCGTGACCCAAC 61.033 55.000 0.00 0.00 46.20 3.77
215 216 0.748729 GAACACCAACCGTGACCCAA 60.749 55.000 0.00 0.00 46.20 4.12
216 217 1.153127 GAACACCAACCGTGACCCA 60.153 57.895 0.00 0.00 46.20 4.51
217 218 2.248835 CGAACACCAACCGTGACCC 61.249 63.158 0.00 0.00 46.20 4.46
218 219 0.601841 ATCGAACACCAACCGTGACC 60.602 55.000 0.00 0.00 46.20 4.02
219 220 1.223187 AATCGAACACCAACCGTGAC 58.777 50.000 0.00 0.00 46.20 3.67
220 221 2.223994 TGTAATCGAACACCAACCGTGA 60.224 45.455 0.00 0.00 46.20 4.35
222 223 2.529780 TGTAATCGAACACCAACCGT 57.470 45.000 0.00 0.00 0.00 4.83
223 224 5.533533 TTAATGTAATCGAACACCAACCG 57.466 39.130 0.00 0.00 30.75 4.44
224 225 5.791480 CGTTTAATGTAATCGAACACCAACC 59.209 40.000 0.00 0.00 33.89 3.77
225 226 5.791480 CCGTTTAATGTAATCGAACACCAAC 59.209 40.000 0.00 0.00 33.89 3.77
226 227 5.699915 TCCGTTTAATGTAATCGAACACCAA 59.300 36.000 0.00 0.00 33.89 3.67
227 228 5.120519 GTCCGTTTAATGTAATCGAACACCA 59.879 40.000 0.00 0.00 33.89 4.17
228 229 5.553721 GTCCGTTTAATGTAATCGAACACC 58.446 41.667 0.00 0.00 33.89 4.16
229 230 5.242877 CGTCCGTTTAATGTAATCGAACAC 58.757 41.667 0.00 0.00 33.89 3.32
230 231 4.201608 GCGTCCGTTTAATGTAATCGAACA 60.202 41.667 0.00 0.00 33.89 3.18
231 232 4.258331 GCGTCCGTTTAATGTAATCGAAC 58.742 43.478 0.00 0.00 33.89 3.95
232 233 3.000872 CGCGTCCGTTTAATGTAATCGAA 60.001 43.478 0.00 0.00 33.89 3.71
233 234 2.531103 CGCGTCCGTTTAATGTAATCGA 59.469 45.455 0.00 0.00 33.89 3.59
234 235 2.531103 TCGCGTCCGTTTAATGTAATCG 59.469 45.455 5.77 0.00 35.54 3.34
235 236 3.600909 GCTCGCGTCCGTTTAATGTAATC 60.601 47.826 5.77 0.00 35.54 1.75
236 237 2.283351 GCTCGCGTCCGTTTAATGTAAT 59.717 45.455 5.77 0.00 35.54 1.89
237 238 1.655099 GCTCGCGTCCGTTTAATGTAA 59.345 47.619 5.77 0.00 35.54 2.41
238 239 1.270971 GCTCGCGTCCGTTTAATGTA 58.729 50.000 5.77 0.00 35.54 2.29
239 240 1.356527 GGCTCGCGTCCGTTTAATGT 61.357 55.000 5.77 0.00 35.54 2.71
240 241 1.347221 GGCTCGCGTCCGTTTAATG 59.653 57.895 5.77 0.00 35.54 1.90
241 242 2.162754 CGGCTCGCGTCCGTTTAAT 61.163 57.895 25.96 0.00 41.85 1.40
242 243 2.806198 CGGCTCGCGTCCGTTTAA 60.806 61.111 25.96 0.00 41.85 1.52
243 244 3.736100 TCGGCTCGCGTCCGTTTA 61.736 61.111 30.06 16.36 46.49 2.01
248 249 4.849329 AATCGTCGGCTCGCGTCC 62.849 66.667 5.77 8.11 0.00 4.79
249 250 2.879462 AAATCGTCGGCTCGCGTC 60.879 61.111 5.77 0.00 0.00 5.19
250 251 3.179265 CAAATCGTCGGCTCGCGT 61.179 61.111 5.77 0.00 0.00 6.01
251 252 3.913573 CCAAATCGTCGGCTCGCG 61.914 66.667 0.00 0.00 0.00 5.87
252 253 3.564027 CCCAAATCGTCGGCTCGC 61.564 66.667 0.00 0.00 0.00 5.03
253 254 2.890474 CCCCAAATCGTCGGCTCG 60.890 66.667 0.00 0.00 0.00 5.03
254 255 1.376812 AACCCCAAATCGTCGGCTC 60.377 57.895 0.00 0.00 0.00 4.70
255 256 1.674322 CAACCCCAAATCGTCGGCT 60.674 57.895 0.00 0.00 0.00 5.52
256 257 1.969589 ACAACCCCAAATCGTCGGC 60.970 57.895 0.00 0.00 0.00 5.54
257 258 1.873165 CACAACCCCAAATCGTCGG 59.127 57.895 0.00 0.00 0.00 4.79
258 259 1.209127 GCACAACCCCAAATCGTCG 59.791 57.895 0.00 0.00 0.00 5.12
259 260 0.958822 AAGCACAACCCCAAATCGTC 59.041 50.000 0.00 0.00 0.00 4.20
260 261 1.068434 CAAAGCACAACCCCAAATCGT 59.932 47.619 0.00 0.00 0.00 3.73
261 262 1.605202 CCAAAGCACAACCCCAAATCG 60.605 52.381 0.00 0.00 0.00 3.34
262 263 1.691434 TCCAAAGCACAACCCCAAATC 59.309 47.619 0.00 0.00 0.00 2.17
263 264 1.799933 TCCAAAGCACAACCCCAAAT 58.200 45.000 0.00 0.00 0.00 2.32
264 265 1.573108 TTCCAAAGCACAACCCCAAA 58.427 45.000 0.00 0.00 0.00 3.28
265 266 1.799933 ATTCCAAAGCACAACCCCAA 58.200 45.000 0.00 0.00 0.00 4.12
266 267 2.685106 TATTCCAAAGCACAACCCCA 57.315 45.000 0.00 0.00 0.00 4.96
267 268 3.161866 TCTTATTCCAAAGCACAACCCC 58.838 45.455 0.00 0.00 0.00 4.95
268 269 4.438744 CGATCTTATTCCAAAGCACAACCC 60.439 45.833 0.00 0.00 0.00 4.11
269 270 4.156008 ACGATCTTATTCCAAAGCACAACC 59.844 41.667 0.00 0.00 0.00 3.77
270 271 5.088739 CACGATCTTATTCCAAAGCACAAC 58.911 41.667 0.00 0.00 0.00 3.32
271 272 4.759693 ACACGATCTTATTCCAAAGCACAA 59.240 37.500 0.00 0.00 0.00 3.33
272 273 4.323417 ACACGATCTTATTCCAAAGCACA 58.677 39.130 0.00 0.00 0.00 4.57
273 274 4.946784 ACACGATCTTATTCCAAAGCAC 57.053 40.909 0.00 0.00 0.00 4.40
274 275 5.353123 GGTTACACGATCTTATTCCAAAGCA 59.647 40.000 0.00 0.00 0.00 3.91
275 276 5.585047 AGGTTACACGATCTTATTCCAAAGC 59.415 40.000 0.00 0.00 0.00 3.51
276 277 8.888579 ATAGGTTACACGATCTTATTCCAAAG 57.111 34.615 0.00 0.00 0.00 2.77
277 278 7.650504 CGATAGGTTACACGATCTTATTCCAAA 59.349 37.037 0.00 0.00 0.00 3.28
278 279 7.143340 CGATAGGTTACACGATCTTATTCCAA 58.857 38.462 0.00 0.00 0.00 3.53
279 280 6.675026 CGATAGGTTACACGATCTTATTCCA 58.325 40.000 0.00 0.00 0.00 3.53
280 281 5.572126 GCGATAGGTTACACGATCTTATTCC 59.428 44.000 0.00 0.00 0.00 3.01
281 282 6.614331 GCGATAGGTTACACGATCTTATTC 57.386 41.667 0.00 0.00 0.00 1.75
297 298 1.344763 CTCTACCCCCAAAGCGATAGG 59.655 57.143 0.00 0.00 0.00 2.57
298 299 2.297597 CTCTCTACCCCCAAAGCGATAG 59.702 54.545 0.00 0.00 0.00 2.08
299 300 2.091499 TCTCTCTACCCCCAAAGCGATA 60.091 50.000 0.00 0.00 0.00 2.92
300 301 1.123928 CTCTCTACCCCCAAAGCGAT 58.876 55.000 0.00 0.00 0.00 4.58
301 302 0.040646 TCTCTCTACCCCCAAAGCGA 59.959 55.000 0.00 0.00 0.00 4.93
302 303 0.461961 CTCTCTCTACCCCCAAAGCG 59.538 60.000 0.00 0.00 0.00 4.68
303 304 1.208293 CACTCTCTCTACCCCCAAAGC 59.792 57.143 0.00 0.00 0.00 3.51
304 305 2.821437 TCACTCTCTCTACCCCCAAAG 58.179 52.381 0.00 0.00 0.00 2.77
305 306 3.107601 CATCACTCTCTCTACCCCCAAA 58.892 50.000 0.00 0.00 0.00 3.28
306 307 2.626950 CCATCACTCTCTCTACCCCCAA 60.627 54.545 0.00 0.00 0.00 4.12
307 308 1.062886 CCATCACTCTCTCTACCCCCA 60.063 57.143 0.00 0.00 0.00 4.96
308 309 1.062810 ACCATCACTCTCTCTACCCCC 60.063 57.143 0.00 0.00 0.00 5.40
309 310 2.463047 ACCATCACTCTCTCTACCCC 57.537 55.000 0.00 0.00 0.00 4.95
310 311 2.888414 GCTACCATCACTCTCTCTACCC 59.112 54.545 0.00 0.00 0.00 3.69
311 312 3.556999 TGCTACCATCACTCTCTCTACC 58.443 50.000 0.00 0.00 0.00 3.18
312 313 3.568007 CCTGCTACCATCACTCTCTCTAC 59.432 52.174 0.00 0.00 0.00 2.59
313 314 3.826524 CCTGCTACCATCACTCTCTCTA 58.173 50.000 0.00 0.00 0.00 2.43
314 315 2.665165 CCTGCTACCATCACTCTCTCT 58.335 52.381 0.00 0.00 0.00 3.10
315 316 1.068434 GCCTGCTACCATCACTCTCTC 59.932 57.143 0.00 0.00 0.00 3.20
316 317 1.118838 GCCTGCTACCATCACTCTCT 58.881 55.000 0.00 0.00 0.00 3.10
384 385 6.409524 TCAAAAGAGAGAAAAATGTGCCAT 57.590 33.333 0.00 0.00 0.00 4.40
389 390 6.067350 AGCTCCTCAAAAGAGAGAAAAATGT 58.933 36.000 0.00 0.00 37.87 2.71
392 393 7.067496 TCTAGCTCCTCAAAAGAGAGAAAAA 57.933 36.000 0.00 0.00 37.87 1.94
399 400 3.766591 TCACCTCTAGCTCCTCAAAAGAG 59.233 47.826 0.00 0.00 34.71 2.85
416 418 2.036217 TCACCACGTCGTTTAATCACCT 59.964 45.455 0.00 0.00 0.00 4.00
484 490 4.918201 GCATCCGGCCTTCCTCCG 62.918 72.222 0.00 0.00 46.05 4.63
485 491 4.918201 CGCATCCGGCCTTCCTCC 62.918 72.222 0.00 0.00 40.31 4.30
486 492 4.162690 ACGCATCCGGCCTTCCTC 62.163 66.667 0.00 0.00 40.31 3.71
487 493 4.473520 CACGCATCCGGCCTTCCT 62.474 66.667 0.00 0.00 40.31 3.36
600 966 3.557228 AATTAAGCTGCAGGAGAGGAG 57.443 47.619 17.12 0.00 0.00 3.69
646 1391 3.488090 GGCGCGTGTTCCACTAGC 61.488 66.667 8.43 0.00 35.12 3.42
647 1392 2.813908 GGGCGCGTGTTCCACTAG 60.814 66.667 8.43 0.00 31.34 2.57
648 1393 4.382320 GGGGCGCGTGTTCCACTA 62.382 66.667 8.43 0.00 31.34 2.74
671 1416 6.409524 TTCATTCATTCATTAATGGGGAGC 57.590 37.500 15.36 0.00 42.40 4.70
764 1509 0.744771 CGCTAGCTTTTCCCCTGTCC 60.745 60.000 13.93 0.00 0.00 4.02
779 1536 0.665068 TTTTGTTCGCTCGCTCGCTA 60.665 50.000 0.00 0.00 0.00 4.26
983 1765 1.323412 CATCGTCCCTCCTAGTCCTG 58.677 60.000 0.00 0.00 0.00 3.86
1225 2010 1.275573 GAAGTAGGTTGAGAAGCCGGT 59.724 52.381 1.90 0.00 0.00 5.28
1571 2374 4.446413 GCATGGGCTTGGTGCTGC 62.446 66.667 0.00 0.00 42.39 5.25
1602 2411 2.671070 CAGTTGGCGTGGGAGGAT 59.329 61.111 0.00 0.00 0.00 3.24
2038 2847 2.088178 GCATTTTCCACCGCGCTTG 61.088 57.895 5.56 1.77 0.00 4.01
2155 2964 3.780294 AGAATTGGTAGCAGTGGTGGATA 59.220 43.478 4.76 0.00 0.00 2.59
2173 2982 9.905713 TGGACTAATAAGCATACAAAGAAGAAT 57.094 29.630 0.00 0.00 0.00 2.40
2197 3006 6.266558 AGCTCTTGAATAGTACTAGGACATGG 59.733 42.308 8.10 5.32 0.00 3.66
2405 3226 3.591023 GAGGAGCAGTCACTAAAGAACC 58.409 50.000 0.00 0.00 0.00 3.62
2519 3340 4.082787 TGCAGGAGTAAATTAAACAGCAGC 60.083 41.667 0.00 0.00 0.00 5.25
2555 3376 1.517242 AGCTGCCGAAGAAGAAACTG 58.483 50.000 0.00 0.00 0.00 3.16
2609 3430 0.478072 AACTTGGCACAGACCCATGA 59.522 50.000 0.00 0.00 42.39 3.07
2847 3669 1.761784 TGCAACTGGTCAGCCAAAAAT 59.238 42.857 0.00 0.00 45.51 1.82
2939 3763 3.385577 GCAATTTGCGTACCCTGAAAAA 58.614 40.909 5.49 0.00 31.71 1.94
2940 3764 3.019933 GCAATTTGCGTACCCTGAAAA 57.980 42.857 5.49 0.00 31.71 2.29
2941 3765 2.715737 GCAATTTGCGTACCCTGAAA 57.284 45.000 5.49 0.00 31.71 2.69


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

AutoCloner maintained by Alex Coulton.