Multiple sequence alignment - TraesCS7B01G155700

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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 TraesCS7B01G155700 chr7B 100.000 2636 0 0 1 2636 210805585 210808220 0 4868
1 TraesCS7B01G155700 chr7A 92.928 2404 109 22 281 2636 249580458 249582848 0 3441
2 TraesCS7B01G155700 chr7D 92.180 2404 120 32 281 2636 234793634 234796017 0 3336


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 TraesCS7B01G155700 chr7B 210805585 210808220 2635 False 4868 4868 100.000 1 2636 1 chr7B.!!$F1 2635
1 TraesCS7B01G155700 chr7A 249580458 249582848 2390 False 3441 3441 92.928 281 2636 1 chr7A.!!$F1 2355
2 TraesCS7B01G155700 chr7D 234793634 234796017 2383 False 3336 3336 92.180 281 2636 1 chr7D.!!$F1 2355

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
128 129 0.035725 CAAGCTGATCAGACTGCCCA 60.036 55.0 27.04 0.0 35.80 5.36 F
174 175 0.035739 TTTCCAGTTGGAGCCGGTAC 59.964 55.0 1.90 0.0 46.36 3.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1429 1474 0.107508 ACGAGGAACATCTGGCCATG 60.108 55.0 5.51 5.05 0.0 3.66 R
2039 2087 1.106944 TGCTGGCGTCGAGGATATCA 61.107 55.0 9.75 0.55 0.0 2.15 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 2.187163 GCAGGGTAGGGCGTTCTC 59.813 66.667 0.00 0.00 0.00 2.87
18 19 2.494918 CAGGGTAGGGCGTTCTCG 59.505 66.667 0.00 0.00 40.37 4.04
47 48 3.518998 GCATGCAGAGGCCAGCTG 61.519 66.667 14.21 18.40 40.13 4.24
48 49 2.829003 CATGCAGAGGCCAGCTGG 60.829 66.667 29.34 29.34 40.13 4.85
49 50 3.336568 ATGCAGAGGCCAGCTGGT 61.337 61.111 32.81 15.59 40.13 4.00
50 51 2.915504 ATGCAGAGGCCAGCTGGTT 61.916 57.895 32.81 21.79 40.13 3.67
51 52 3.060615 GCAGAGGCCAGCTGGTTG 61.061 66.667 32.81 24.37 37.57 3.77
52 53 2.752358 CAGAGGCCAGCTGGTTGA 59.248 61.111 32.81 0.00 37.57 3.18
53 54 1.073722 CAGAGGCCAGCTGGTTGAA 59.926 57.895 32.81 0.00 37.57 2.69
54 55 0.959372 CAGAGGCCAGCTGGTTGAAG 60.959 60.000 32.81 17.00 37.57 3.02
55 56 1.676967 GAGGCCAGCTGGTTGAAGG 60.677 63.158 32.81 7.16 37.57 3.46
56 57 3.376918 GGCCAGCTGGTTGAAGGC 61.377 66.667 32.81 17.19 44.48 4.35
57 58 3.376918 GCCAGCTGGTTGAAGGCC 61.377 66.667 32.81 10.76 39.42 5.19
58 59 2.115910 CCAGCTGGTTGAAGGCCA 59.884 61.111 25.53 0.00 34.42 5.36
63 64 4.002006 TGGTTGAAGGCCAGGACT 57.998 55.556 5.01 0.00 0.00 3.85
64 65 1.455849 TGGTTGAAGGCCAGGACTG 59.544 57.895 5.01 0.00 0.00 3.51
73 74 3.314331 CCAGGACTGGTGGCGAGT 61.314 66.667 10.22 0.00 45.53 4.18
74 75 2.743718 CAGGACTGGTGGCGAGTT 59.256 61.111 0.00 0.00 0.00 3.01
75 76 1.374758 CAGGACTGGTGGCGAGTTC 60.375 63.158 0.00 0.00 0.00 3.01
76 77 2.432628 GGACTGGTGGCGAGTTCG 60.433 66.667 0.00 0.00 43.27 3.95
86 87 4.719997 CGAGTTCGCATCCTCCTC 57.280 61.111 0.00 0.00 0.00 3.71
87 88 1.298713 CGAGTTCGCATCCTCCTCG 60.299 63.158 0.00 0.00 39.02 4.63
88 89 1.066587 GAGTTCGCATCCTCCTCGG 59.933 63.158 0.00 0.00 0.00 4.63
89 90 2.107141 GTTCGCATCCTCCTCGGG 59.893 66.667 0.00 0.00 0.00 5.14
90 91 3.849951 TTCGCATCCTCCTCGGGC 61.850 66.667 0.00 0.00 0.00 6.13
93 94 3.934962 GCATCCTCCTCGGGCCTC 61.935 72.222 0.84 0.00 0.00 4.70
94 95 3.610669 CATCCTCCTCGGGCCTCG 61.611 72.222 0.84 4.76 40.90 4.63
95 96 4.924187 ATCCTCCTCGGGCCTCGG 62.924 72.222 0.84 1.13 39.77 4.63
97 98 4.924187 CCTCCTCGGGCCTCGGAT 62.924 72.222 0.84 0.00 39.77 4.18
98 99 3.299190 CTCCTCGGGCCTCGGATC 61.299 72.222 0.84 0.00 39.77 3.36
99 100 4.916314 TCCTCGGGCCTCGGATCC 62.916 72.222 0.84 0.00 39.77 3.36
102 103 4.789173 TCGGGCCTCGGATCCCAA 62.789 66.667 6.06 0.00 42.75 4.12
103 104 4.547367 CGGGCCTCGGATCCCAAC 62.547 72.222 6.06 0.00 42.75 3.77
104 105 3.407967 GGGCCTCGGATCCCAACA 61.408 66.667 6.06 0.00 42.18 3.33
105 106 2.190578 GGCCTCGGATCCCAACAG 59.809 66.667 6.06 0.00 0.00 3.16
106 107 2.514824 GCCTCGGATCCCAACAGC 60.515 66.667 6.06 0.00 0.00 4.40
107 108 2.190578 CCTCGGATCCCAACAGCC 59.809 66.667 6.06 0.00 0.00 4.85
108 109 2.370445 CCTCGGATCCCAACAGCCT 61.370 63.158 6.06 0.00 0.00 4.58
109 110 1.144936 CTCGGATCCCAACAGCCTC 59.855 63.158 6.06 0.00 0.00 4.70
110 111 1.612146 TCGGATCCCAACAGCCTCA 60.612 57.895 6.06 0.00 0.00 3.86
111 112 1.198094 TCGGATCCCAACAGCCTCAA 61.198 55.000 6.06 0.00 0.00 3.02
112 113 0.745845 CGGATCCCAACAGCCTCAAG 60.746 60.000 6.06 0.00 0.00 3.02
113 114 1.034292 GGATCCCAACAGCCTCAAGC 61.034 60.000 0.00 0.00 44.25 4.01
124 125 1.654317 GCCTCAAGCTGATCAGACTG 58.346 55.000 27.04 20.11 38.99 3.51
125 126 1.654317 CCTCAAGCTGATCAGACTGC 58.346 55.000 27.04 11.77 35.51 4.40
126 127 1.654317 CTCAAGCTGATCAGACTGCC 58.346 55.000 27.04 8.03 35.80 4.85
127 128 0.251354 TCAAGCTGATCAGACTGCCC 59.749 55.000 27.04 7.27 35.80 5.36
128 129 0.035725 CAAGCTGATCAGACTGCCCA 60.036 55.000 27.04 0.00 35.80 5.36
129 130 0.252479 AAGCTGATCAGACTGCCCAG 59.748 55.000 27.04 15.36 35.80 4.45
130 131 1.818785 GCTGATCAGACTGCCCAGC 60.819 63.158 27.04 23.47 42.52 4.85
131 132 1.153208 CTGATCAGACTGCCCAGCC 60.153 63.158 18.34 0.00 0.00 4.85
132 133 2.191641 GATCAGACTGCCCAGCCC 59.808 66.667 0.00 0.00 0.00 5.19
133 134 3.412624 GATCAGACTGCCCAGCCCC 62.413 68.421 0.00 0.00 0.00 5.80
134 135 4.980592 TCAGACTGCCCAGCCCCA 62.981 66.667 0.00 0.00 0.00 4.96
135 136 3.736224 CAGACTGCCCAGCCCCAT 61.736 66.667 0.00 0.00 0.00 4.00
136 137 3.415087 AGACTGCCCAGCCCCATC 61.415 66.667 0.00 0.00 0.00 3.51
137 138 4.512914 GACTGCCCAGCCCCATCC 62.513 72.222 0.00 0.00 0.00 3.51
139 140 4.517934 CTGCCCAGCCCCATCCAG 62.518 72.222 0.00 0.00 0.00 3.86
143 144 3.829226 CCAGCCCCATCCAGCCAT 61.829 66.667 0.00 0.00 0.00 4.40
144 145 2.203451 CAGCCCCATCCAGCCATC 60.203 66.667 0.00 0.00 0.00 3.51
145 146 3.505773 AGCCCCATCCAGCCATCC 61.506 66.667 0.00 0.00 0.00 3.51
146 147 3.505773 GCCCCATCCAGCCATCCT 61.506 66.667 0.00 0.00 0.00 3.24
147 148 2.519441 CCCCATCCAGCCATCCTG 59.481 66.667 0.00 0.00 41.41 3.86
148 149 2.203451 CCCATCCAGCCATCCTGC 60.203 66.667 0.00 0.00 40.36 4.85
149 150 2.764737 CCCATCCAGCCATCCTGCT 61.765 63.158 0.00 0.00 44.00 4.24
150 151 1.229359 CCATCCAGCCATCCTGCTT 59.771 57.895 0.00 0.00 40.32 3.91
151 152 0.396695 CCATCCAGCCATCCTGCTTT 60.397 55.000 0.00 0.00 40.32 3.51
152 153 0.744874 CATCCAGCCATCCTGCTTTG 59.255 55.000 0.00 0.00 40.32 2.77
153 154 1.041447 ATCCAGCCATCCTGCTTTGC 61.041 55.000 0.00 0.00 40.32 3.68
154 155 1.681327 CCAGCCATCCTGCTTTGCT 60.681 57.895 0.00 0.00 40.32 3.91
155 156 1.255667 CCAGCCATCCTGCTTTGCTT 61.256 55.000 0.00 0.00 40.32 3.91
156 157 0.606604 CAGCCATCCTGCTTTGCTTT 59.393 50.000 0.00 0.00 40.32 3.51
157 158 1.001633 CAGCCATCCTGCTTTGCTTTT 59.998 47.619 0.00 0.00 40.32 2.27
158 159 1.274447 AGCCATCCTGCTTTGCTTTTC 59.726 47.619 0.00 0.00 38.85 2.29
159 160 1.673923 GCCATCCTGCTTTGCTTTTCC 60.674 52.381 0.00 0.00 0.00 3.13
160 161 1.619827 CCATCCTGCTTTGCTTTTCCA 59.380 47.619 0.00 0.00 0.00 3.53
161 162 2.353406 CCATCCTGCTTTGCTTTTCCAG 60.353 50.000 0.00 0.00 0.00 3.86
162 163 2.071778 TCCTGCTTTGCTTTTCCAGT 57.928 45.000 0.00 0.00 0.00 4.00
163 164 2.387757 TCCTGCTTTGCTTTTCCAGTT 58.612 42.857 0.00 0.00 0.00 3.16
164 165 2.101249 TCCTGCTTTGCTTTTCCAGTTG 59.899 45.455 0.00 0.00 0.00 3.16
165 166 2.476821 CTGCTTTGCTTTTCCAGTTGG 58.523 47.619 0.00 0.00 0.00 3.77
166 167 2.101249 CTGCTTTGCTTTTCCAGTTGGA 59.899 45.455 0.00 0.00 43.73 3.53
167 168 2.101249 TGCTTTGCTTTTCCAGTTGGAG 59.899 45.455 0.51 0.00 46.36 3.86
168 169 2.747436 CTTTGCTTTTCCAGTTGGAGC 58.253 47.619 0.51 2.75 46.36 4.70
169 170 1.039856 TTGCTTTTCCAGTTGGAGCC 58.960 50.000 0.51 0.00 46.36 4.70
170 171 1.172180 TGCTTTTCCAGTTGGAGCCG 61.172 55.000 0.51 0.00 46.36 5.52
171 172 1.866853 GCTTTTCCAGTTGGAGCCGG 61.867 60.000 0.00 0.00 46.36 6.13
172 173 0.537371 CTTTTCCAGTTGGAGCCGGT 60.537 55.000 1.90 0.00 46.36 5.28
173 174 0.766131 TTTTCCAGTTGGAGCCGGTA 59.234 50.000 1.90 0.00 46.36 4.02
174 175 0.035739 TTTCCAGTTGGAGCCGGTAC 59.964 55.000 1.90 0.00 46.36 3.34
175 176 0.834687 TTCCAGTTGGAGCCGGTACT 60.835 55.000 1.90 0.00 46.36 2.73
176 177 1.218316 CCAGTTGGAGCCGGTACTC 59.782 63.158 1.90 1.18 37.39 2.59
177 178 1.258445 CCAGTTGGAGCCGGTACTCT 61.258 60.000 1.90 0.00 36.87 3.24
178 179 0.608640 CAGTTGGAGCCGGTACTCTT 59.391 55.000 1.90 0.00 36.87 2.85
179 180 0.608640 AGTTGGAGCCGGTACTCTTG 59.391 55.000 1.90 0.00 36.87 3.02
180 181 1.019805 GTTGGAGCCGGTACTCTTGC 61.020 60.000 1.90 0.00 36.87 4.01
181 182 1.476845 TTGGAGCCGGTACTCTTGCA 61.477 55.000 1.90 0.00 36.87 4.08
182 183 1.264749 TGGAGCCGGTACTCTTGCAT 61.265 55.000 1.90 0.00 36.87 3.96
183 184 0.107654 GGAGCCGGTACTCTTGCATT 60.108 55.000 1.90 0.00 36.87 3.56
184 185 1.009829 GAGCCGGTACTCTTGCATTG 58.990 55.000 1.90 0.00 33.69 2.82
185 186 1.026718 AGCCGGTACTCTTGCATTGC 61.027 55.000 1.90 0.46 0.00 3.56
186 187 1.305219 GCCGGTACTCTTGCATTGCA 61.305 55.000 7.38 7.38 36.47 4.08
187 188 1.382522 CCGGTACTCTTGCATTGCAT 58.617 50.000 12.95 0.00 38.76 3.96
188 189 1.331756 CCGGTACTCTTGCATTGCATC 59.668 52.381 12.95 0.00 38.76 3.91
189 190 2.009051 CGGTACTCTTGCATTGCATCA 58.991 47.619 12.95 0.95 38.76 3.07
190 191 2.223112 CGGTACTCTTGCATTGCATCAC 60.223 50.000 12.95 6.17 38.76 3.06
191 192 2.223112 GGTACTCTTGCATTGCATCACG 60.223 50.000 12.95 4.39 38.76 4.35
192 193 1.527034 ACTCTTGCATTGCATCACGT 58.473 45.000 12.95 5.01 38.76 4.49
193 194 1.198408 ACTCTTGCATTGCATCACGTG 59.802 47.619 12.95 9.94 38.76 4.49
194 195 0.522626 TCTTGCATTGCATCACGTGG 59.477 50.000 17.00 0.92 38.76 4.94
195 196 0.522626 CTTGCATTGCATCACGTGGA 59.477 50.000 17.00 2.69 38.76 4.02
196 197 0.240678 TTGCATTGCATCACGTGGAC 59.759 50.000 17.00 6.07 38.76 4.02
197 198 1.137404 GCATTGCATCACGTGGACC 59.863 57.895 17.00 4.54 0.00 4.46
198 199 1.585267 GCATTGCATCACGTGGACCA 61.585 55.000 17.00 7.26 0.00 4.02
199 200 0.448990 CATTGCATCACGTGGACCAG 59.551 55.000 17.00 2.61 0.00 4.00
200 201 1.308069 ATTGCATCACGTGGACCAGC 61.308 55.000 17.00 12.83 0.00 4.85
201 202 3.127533 GCATCACGTGGACCAGCC 61.128 66.667 17.00 0.00 37.10 4.85
202 203 2.665000 CATCACGTGGACCAGCCT 59.335 61.111 17.00 0.00 37.63 4.58
203 204 1.003355 CATCACGTGGACCAGCCTT 60.003 57.895 17.00 0.00 37.63 4.35
204 205 1.003355 ATCACGTGGACCAGCCTTG 60.003 57.895 17.00 0.00 37.63 3.61
232 233 4.796231 CGCCAACTCCGGTCCTCG 62.796 72.222 0.00 0.00 38.88 4.63
234 235 3.382832 CCAACTCCGGTCCTCGCT 61.383 66.667 0.00 0.00 37.59 4.93
235 236 2.657237 CAACTCCGGTCCTCGCTT 59.343 61.111 0.00 0.00 37.59 4.68
236 237 1.738099 CAACTCCGGTCCTCGCTTG 60.738 63.158 0.00 0.00 37.59 4.01
237 238 2.943978 AACTCCGGTCCTCGCTTGG 61.944 63.158 0.00 0.00 37.59 3.61
238 239 3.068691 CTCCGGTCCTCGCTTGGA 61.069 66.667 0.00 0.00 37.59 3.53
244 245 3.319198 TCCTCGCTTGGACCCCAC 61.319 66.667 0.00 0.00 30.78 4.61
245 246 4.410400 CCTCGCTTGGACCCCACC 62.410 72.222 0.00 0.00 30.78 4.61
246 247 3.636231 CTCGCTTGGACCCCACCA 61.636 66.667 0.00 0.00 38.24 4.17
247 248 3.172106 TCGCTTGGACCCCACCAA 61.172 61.111 0.00 0.00 46.02 3.67
251 252 3.270944 TTGGACCCCACCAAGCAT 58.729 55.556 0.00 0.00 43.79 3.79
252 253 1.076549 TTGGACCCCACCAAGCATC 59.923 57.895 0.00 0.00 43.79 3.91
253 254 2.438434 GGACCCCACCAAGCATCG 60.438 66.667 0.00 0.00 0.00 3.84
254 255 2.351276 GACCCCACCAAGCATCGT 59.649 61.111 0.00 0.00 0.00 3.73
255 256 1.745489 GACCCCACCAAGCATCGTC 60.745 63.158 0.00 0.00 0.00 4.20
256 257 2.185310 GACCCCACCAAGCATCGTCT 62.185 60.000 0.00 0.00 0.00 4.18
257 258 1.746615 CCCCACCAAGCATCGTCTG 60.747 63.158 0.00 0.00 0.00 3.51
276 277 4.589675 GGGCCACGACCCCAACAA 62.590 66.667 4.39 0.00 45.00 2.83
277 278 2.983592 GGCCACGACCCCAACAAG 60.984 66.667 0.00 0.00 0.00 3.16
278 279 3.670377 GCCACGACCCCAACAAGC 61.670 66.667 0.00 0.00 0.00 4.01
279 280 2.983592 CCACGACCCCAACAAGCC 60.984 66.667 0.00 0.00 0.00 4.35
284 285 1.376609 CGACCCCAACAAGCCATAGC 61.377 60.000 0.00 0.00 40.32 2.97
305 306 3.322828 GCCACCATTTATCTTCCATGCAT 59.677 43.478 0.00 0.00 0.00 3.96
313 314 6.534475 TTTATCTTCCATGCATGCTTTTCT 57.466 33.333 21.69 6.20 0.00 2.52
315 316 4.445452 TCTTCCATGCATGCTTTTCTTC 57.555 40.909 21.69 0.00 0.00 2.87
319 321 4.021229 TCCATGCATGCTTTTCTTCAGAT 58.979 39.130 21.69 0.00 0.00 2.90
330 332 6.431234 TGCTTTTCTTCAGATACCTTTTCCTC 59.569 38.462 0.00 0.00 0.00 3.71
333 335 3.780850 TCTTCAGATACCTTTTCCTCCCC 59.219 47.826 0.00 0.00 0.00 4.81
351 364 2.684104 CCCTCTCCCCTCGAGACA 59.316 66.667 15.71 0.00 42.97 3.41
358 371 0.752009 TCCCCTCGAGACAATCTCCG 60.752 60.000 15.71 0.00 40.34 4.63
359 372 1.066587 CCCTCGAGACAATCTCCGC 59.933 63.158 15.71 0.00 40.34 5.54
383 396 1.517832 CGGTTCGCCTCCATTCTCT 59.482 57.895 0.00 0.00 34.30 3.10
384 397 0.807667 CGGTTCGCCTCCATTCTCTG 60.808 60.000 0.00 0.00 34.30 3.35
397 410 4.104738 TCCATTCTCTGTTTCTTCCCTTGT 59.895 41.667 0.00 0.00 0.00 3.16
401 414 2.808543 CTCTGTTTCTTCCCTTGTTCCG 59.191 50.000 0.00 0.00 0.00 4.30
402 415 2.436542 TCTGTTTCTTCCCTTGTTCCGA 59.563 45.455 0.00 0.00 0.00 4.55
464 487 3.718210 AAAGAGCGATCGGCCGTCC 62.718 63.158 27.15 16.78 45.17 4.79
475 498 3.861797 GCCGTCCCCGTGATCCAT 61.862 66.667 0.00 0.00 0.00 3.41
478 501 1.686325 CCGTCCCCGTGATCCATTCT 61.686 60.000 0.00 0.00 0.00 2.40
481 504 0.620410 TCCCCGTGATCCATTCTGGT 60.620 55.000 0.00 0.00 39.03 4.00
484 507 1.656652 CCGTGATCCATTCTGGTCAC 58.343 55.000 13.97 13.97 41.17 3.67
489 512 2.845586 TGATCCATTCTGGTCACATCCA 59.154 45.455 0.00 0.00 39.03 3.41
491 514 4.079615 TGATCCATTCTGGTCACATCCAAT 60.080 41.667 0.00 0.00 39.03 3.16
495 518 5.543405 TCCATTCTGGTCACATCCAATTTTT 59.457 36.000 0.00 0.00 39.03 1.94
502 525 5.835819 TGGTCACATCCAATTTTTCAGGTAA 59.164 36.000 0.00 0.00 34.24 2.85
503 526 6.496565 TGGTCACATCCAATTTTTCAGGTAAT 59.503 34.615 0.00 0.00 34.24 1.89
506 529 6.657117 TCACATCCAATTTTTCAGGTAATCGA 59.343 34.615 0.00 0.00 0.00 3.59
544 567 4.474113 CTCAAGCTCTTGCATCAGTTTTC 58.526 43.478 4.81 0.00 42.74 2.29
566 589 3.439129 CGACATATCTCCATGCATGCAAT 59.561 43.478 26.68 15.61 0.00 3.56
576 599 4.395080 CATGCAATGCAAGCTCGG 57.605 55.556 13.45 0.00 43.62 4.63
578 601 0.248498 CATGCAATGCAAGCTCGGAG 60.248 55.000 13.45 0.00 43.62 4.63
607 630 1.267732 CGATGTCGCAAGCAATCTTCC 60.268 52.381 0.00 0.00 37.18 3.46
609 632 1.603456 TGTCGCAAGCAATCTTCCAA 58.397 45.000 0.00 0.00 37.18 3.53
610 633 2.161855 TGTCGCAAGCAATCTTCCAAT 58.838 42.857 0.00 0.00 37.18 3.16
611 634 2.095110 TGTCGCAAGCAATCTTCCAATG 60.095 45.455 0.00 0.00 37.18 2.82
613 636 3.126858 GTCGCAAGCAATCTTCCAATGTA 59.873 43.478 0.00 0.00 37.18 2.29
614 637 3.126858 TCGCAAGCAATCTTCCAATGTAC 59.873 43.478 0.00 0.00 37.18 2.90
618 663 5.404946 CAAGCAATCTTCCAATGTACCAAG 58.595 41.667 0.00 0.00 0.00 3.61
659 704 1.539388 CATGCAGTTTAAGGTTGCCGA 59.461 47.619 0.00 0.00 37.03 5.54
717 762 6.990349 TGTTTTCTTTTAGATCTTCTGGTCGT 59.010 34.615 0.00 0.00 0.00 4.34
718 763 7.170998 TGTTTTCTTTTAGATCTTCTGGTCGTC 59.829 37.037 0.00 0.00 0.00 4.20
719 764 4.982999 TCTTTTAGATCTTCTGGTCGTCG 58.017 43.478 0.00 0.00 0.00 5.12
826 871 9.890629 CTTCTAAATATAAGCACCATGCCTATA 57.109 33.333 0.00 0.00 46.52 1.31
875 920 1.165907 TTGTTCTGTTCTGCAGGGCG 61.166 55.000 15.13 0.30 45.08 6.13
903 948 0.602638 ATTTCGCAGCACCTCGTCAA 60.603 50.000 0.00 0.00 0.00 3.18
1047 1092 1.953138 GCGGCTGACCATCATCTCG 60.953 63.158 0.00 0.00 34.57 4.04
1401 1446 2.280797 AAGCTCTGCGCCGTCAAA 60.281 55.556 4.18 0.00 40.39 2.69
1429 1474 2.820037 GCCGCTACCTGTTCCAGC 60.820 66.667 0.00 0.00 0.00 4.85
1472 1517 4.329545 GAGGCACGCCACCAAGGA 62.330 66.667 11.35 0.00 41.22 3.36
1536 1581 0.107268 TGCTCAGAGACTGCAAGCAA 59.893 50.000 0.00 0.00 38.03 3.91
1546 1591 2.100991 GCAAGCAAATCCTCGGCG 59.899 61.111 0.00 0.00 0.00 6.46
1586 1631 0.249405 TACACGAAACACGACCACCC 60.249 55.000 0.00 0.00 45.77 4.61
1832 1880 9.292751 TCCCTACTCCATACATATATCAGAGTA 57.707 37.037 0.00 0.00 34.98 2.59
1902 1950 0.105039 GATGAGGTGACGGGGCTTAG 59.895 60.000 0.00 0.00 0.00 2.18
1925 1973 4.215613 GGGAGTGTGATCTTACCAACAAAC 59.784 45.833 0.00 0.00 0.00 2.93
2054 2102 1.603172 CCTTGTGATATCCTCGACGCC 60.603 57.143 0.00 0.00 0.00 5.68
2060 2108 0.037882 ATATCCTCGACGCCAGCATG 60.038 55.000 0.00 0.00 0.00 4.06
2351 2399 3.170791 AGCCGTTGATAGACATCACAG 57.829 47.619 0.00 0.00 40.94 3.66
2376 2424 4.199804 AGCGTCACTGAAGGGAGT 57.800 55.556 0.00 0.00 0.00 3.85
2378 2426 0.034059 AGCGTCACTGAAGGGAGTTG 59.966 55.000 0.00 0.00 0.00 3.16
2379 2427 0.249911 GCGTCACTGAAGGGAGTTGT 60.250 55.000 0.00 0.00 0.00 3.32
2380 2428 1.000506 GCGTCACTGAAGGGAGTTGTA 59.999 52.381 0.00 0.00 0.00 2.41
2389 2437 7.606456 TCACTGAAGGGAGTTGTATTTATCAAC 59.394 37.037 0.00 0.00 43.51 3.18
2455 2514 7.286775 TGCAAGACTAAAAAGGGAGTTGTAAAT 59.713 33.333 0.00 0.00 0.00 1.40
2594 2653 5.125739 AGGAGTACATAACCTTGAGAAGACG 59.874 44.000 0.00 0.00 0.00 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.187163 GAGAACGCCCTACCCTGC 59.813 66.667 0.00 0.00 0.00 4.85
1 2 2.494918 CGAGAACGCCCTACCCTG 59.505 66.667 0.00 0.00 0.00 4.45
30 31 3.518998 CAGCTGGCCTCTGCATGC 61.519 66.667 11.82 11.82 39.84 4.06
31 32 2.829003 CCAGCTGGCCTCTGCATG 60.829 66.667 22.33 11.74 39.84 4.06
32 33 2.915504 AACCAGCTGGCCTCTGCAT 61.916 57.895 33.06 7.63 39.84 3.96
33 34 3.573229 AACCAGCTGGCCTCTGCA 61.573 61.111 33.06 0.00 39.84 4.41
34 35 3.060615 CAACCAGCTGGCCTCTGC 61.061 66.667 33.06 12.57 39.32 4.26
35 36 0.959372 CTTCAACCAGCTGGCCTCTG 60.959 60.000 33.06 22.72 39.32 3.35
36 37 1.377994 CTTCAACCAGCTGGCCTCT 59.622 57.895 33.06 10.62 39.32 3.69
37 38 1.676967 CCTTCAACCAGCTGGCCTC 60.677 63.158 33.06 0.00 39.32 4.70
38 39 2.437897 CCTTCAACCAGCTGGCCT 59.562 61.111 33.06 17.61 39.32 5.19
39 40 3.376918 GCCTTCAACCAGCTGGCC 61.377 66.667 33.06 8.46 39.32 5.36
40 41 3.376918 GGCCTTCAACCAGCTGGC 61.377 66.667 33.06 16.65 42.56 4.85
41 42 2.115910 TGGCCTTCAACCAGCTGG 59.884 61.111 31.60 31.60 42.17 4.85
46 47 1.455849 CAGTCCTGGCCTTCAACCA 59.544 57.895 3.32 0.00 35.40 3.67
47 48 1.303643 CCAGTCCTGGCCTTCAACC 60.304 63.158 3.32 0.00 44.73 3.77
48 49 4.404691 CCAGTCCTGGCCTTCAAC 57.595 61.111 3.32 0.00 44.73 3.18
57 58 1.374758 GAACTCGCCACCAGTCCTG 60.375 63.158 0.00 0.00 0.00 3.86
58 59 2.932234 CGAACTCGCCACCAGTCCT 61.932 63.158 0.00 0.00 0.00 3.85
59 60 2.432628 CGAACTCGCCACCAGTCC 60.433 66.667 0.00 0.00 0.00 3.85
69 70 1.298713 CGAGGAGGATGCGAACTCG 60.299 63.158 12.02 12.02 43.85 4.18
70 71 1.066587 CCGAGGAGGATGCGAACTC 59.933 63.158 0.00 0.00 45.00 3.01
71 72 2.427245 CCCGAGGAGGATGCGAACT 61.427 63.158 0.00 0.00 45.00 3.01
72 73 2.107141 CCCGAGGAGGATGCGAAC 59.893 66.667 0.00 0.00 45.00 3.95
73 74 3.849951 GCCCGAGGAGGATGCGAA 61.850 66.667 0.00 0.00 45.00 4.70
76 77 3.934962 GAGGCCCGAGGAGGATGC 61.935 72.222 0.00 0.00 45.00 3.91
77 78 3.610669 CGAGGCCCGAGGAGGATG 61.611 72.222 0.00 0.00 45.00 3.51
78 79 4.924187 CCGAGGCCCGAGGAGGAT 62.924 72.222 14.30 0.00 45.00 3.24
80 81 4.924187 ATCCGAGGCCCGAGGAGG 62.924 72.222 15.41 3.94 41.76 4.30
81 82 3.299190 GATCCGAGGCCCGAGGAG 61.299 72.222 15.41 0.65 41.76 3.69
82 83 4.916314 GGATCCGAGGCCCGAGGA 62.916 72.222 14.30 13.65 41.76 3.71
87 88 3.406595 CTGTTGGGATCCGAGGCCC 62.407 68.421 5.45 0.00 44.93 5.80
88 89 2.190578 CTGTTGGGATCCGAGGCC 59.809 66.667 5.45 0.00 0.00 5.19
89 90 2.514824 GCTGTTGGGATCCGAGGC 60.515 66.667 5.45 4.31 0.00 4.70
90 91 2.190578 GGCTGTTGGGATCCGAGG 59.809 66.667 5.45 0.00 0.00 4.63
91 92 1.144936 GAGGCTGTTGGGATCCGAG 59.855 63.158 5.45 0.00 0.00 4.63
92 93 1.198094 TTGAGGCTGTTGGGATCCGA 61.198 55.000 5.45 0.00 0.00 4.55
93 94 0.745845 CTTGAGGCTGTTGGGATCCG 60.746 60.000 5.45 0.00 0.00 4.18
94 95 1.034292 GCTTGAGGCTGTTGGGATCC 61.034 60.000 1.92 1.92 38.06 3.36
95 96 2.486796 GCTTGAGGCTGTTGGGATC 58.513 57.895 0.00 0.00 38.06 3.36
96 97 4.751431 GCTTGAGGCTGTTGGGAT 57.249 55.556 0.00 0.00 38.06 3.85
105 106 1.654317 CAGTCTGATCAGCTTGAGGC 58.346 55.000 18.36 0.00 42.19 4.70
106 107 1.654317 GCAGTCTGATCAGCTTGAGG 58.346 55.000 22.69 11.67 0.00 3.86
107 108 1.654317 GGCAGTCTGATCAGCTTGAG 58.346 55.000 22.69 11.93 0.00 3.02
108 109 0.251354 GGGCAGTCTGATCAGCTTGA 59.749 55.000 22.69 4.68 0.00 3.02
109 110 0.035725 TGGGCAGTCTGATCAGCTTG 60.036 55.000 18.36 17.64 0.00 4.01
110 111 0.252479 CTGGGCAGTCTGATCAGCTT 59.748 55.000 18.36 5.43 0.00 3.74
111 112 1.906253 CTGGGCAGTCTGATCAGCT 59.094 57.895 18.36 14.84 0.00 4.24
112 113 1.818785 GCTGGGCAGTCTGATCAGC 60.819 63.158 22.95 22.95 42.89 4.26
113 114 1.153208 GGCTGGGCAGTCTGATCAG 60.153 63.158 17.07 17.07 0.00 2.90
114 115 2.673200 GGGCTGGGCAGTCTGATCA 61.673 63.158 3.32 0.00 32.63 2.92
115 116 2.191641 GGGCTGGGCAGTCTGATC 59.808 66.667 3.32 0.00 32.63 2.92
116 117 3.415087 GGGGCTGGGCAGTCTGAT 61.415 66.667 3.32 0.00 32.63 2.90
117 118 4.980592 TGGGGCTGGGCAGTCTGA 62.981 66.667 3.32 0.00 32.63 3.27
118 119 3.711059 GATGGGGCTGGGCAGTCTG 62.711 68.421 0.00 0.00 32.63 3.51
119 120 3.415087 GATGGGGCTGGGCAGTCT 61.415 66.667 0.00 0.00 32.63 3.24
120 121 4.512914 GGATGGGGCTGGGCAGTC 62.513 72.222 0.00 0.00 0.00 3.51
122 123 4.517934 CTGGATGGGGCTGGGCAG 62.518 72.222 0.00 0.00 0.00 4.85
126 127 3.804638 GATGGCTGGATGGGGCTGG 62.805 68.421 0.00 0.00 0.00 4.85
127 128 2.203451 GATGGCTGGATGGGGCTG 60.203 66.667 0.00 0.00 0.00 4.85
128 129 3.505773 GGATGGCTGGATGGGGCT 61.506 66.667 0.00 0.00 0.00 5.19
129 130 3.505773 AGGATGGCTGGATGGGGC 61.506 66.667 0.00 0.00 0.00 5.80
130 131 2.519441 CAGGATGGCTGGATGGGG 59.481 66.667 0.00 0.00 0.00 4.96
131 132 2.203451 GCAGGATGGCTGGATGGG 60.203 66.667 0.00 0.00 35.86 4.00
132 133 0.396695 AAAGCAGGATGGCTGGATGG 60.397 55.000 0.00 0.00 45.07 3.51
133 134 0.744874 CAAAGCAGGATGGCTGGATG 59.255 55.000 0.00 0.00 45.07 3.51
134 135 1.041447 GCAAAGCAGGATGGCTGGAT 61.041 55.000 0.00 0.00 45.07 3.41
135 136 1.679977 GCAAAGCAGGATGGCTGGA 60.680 57.895 0.00 0.00 45.07 3.86
136 137 1.255667 AAGCAAAGCAGGATGGCTGG 61.256 55.000 0.00 0.00 45.07 4.85
137 138 0.606604 AAAGCAAAGCAGGATGGCTG 59.393 50.000 0.00 0.00 45.07 4.85
139 140 1.673923 GGAAAAGCAAAGCAGGATGGC 60.674 52.381 0.00 0.00 35.86 4.40
140 141 1.619827 TGGAAAAGCAAAGCAGGATGG 59.380 47.619 0.00 0.00 35.86 3.51
141 142 2.298163 ACTGGAAAAGCAAAGCAGGATG 59.702 45.455 0.00 0.00 40.87 3.51
142 143 2.601905 ACTGGAAAAGCAAAGCAGGAT 58.398 42.857 0.00 0.00 0.00 3.24
143 144 2.071778 ACTGGAAAAGCAAAGCAGGA 57.928 45.000 0.00 0.00 0.00 3.86
144 145 2.476821 CAACTGGAAAAGCAAAGCAGG 58.523 47.619 0.00 0.00 0.00 4.85
145 146 2.101249 TCCAACTGGAAAAGCAAAGCAG 59.899 45.455 0.00 0.00 42.18 4.24
146 147 2.101249 CTCCAACTGGAAAAGCAAAGCA 59.899 45.455 0.00 0.00 44.91 3.91
147 148 2.747436 CTCCAACTGGAAAAGCAAAGC 58.253 47.619 0.00 0.00 44.91 3.51
148 149 2.546584 GGCTCCAACTGGAAAAGCAAAG 60.547 50.000 9.82 0.00 44.91 2.77
149 150 1.412343 GGCTCCAACTGGAAAAGCAAA 59.588 47.619 9.82 0.00 44.91 3.68
150 151 1.039856 GGCTCCAACTGGAAAAGCAA 58.960 50.000 9.82 0.00 44.91 3.91
151 152 1.172180 CGGCTCCAACTGGAAAAGCA 61.172 55.000 9.82 0.00 44.91 3.91
152 153 1.581447 CGGCTCCAACTGGAAAAGC 59.419 57.895 0.00 0.09 44.91 3.51
153 154 0.537371 ACCGGCTCCAACTGGAAAAG 60.537 55.000 0.00 0.00 44.91 2.27
154 155 0.766131 TACCGGCTCCAACTGGAAAA 59.234 50.000 0.00 0.00 44.91 2.29
155 156 0.035739 GTACCGGCTCCAACTGGAAA 59.964 55.000 0.00 0.00 44.91 3.13
156 157 0.834687 AGTACCGGCTCCAACTGGAA 60.835 55.000 0.00 0.00 44.91 3.53
157 158 1.229082 AGTACCGGCTCCAACTGGA 60.229 57.895 0.00 0.00 43.08 3.86
158 159 1.218316 GAGTACCGGCTCCAACTGG 59.782 63.158 0.00 0.00 42.28 4.00
159 160 0.608640 AAGAGTACCGGCTCCAACTG 59.391 55.000 0.00 0.00 36.20 3.16
160 161 0.608640 CAAGAGTACCGGCTCCAACT 59.391 55.000 0.00 0.00 36.20 3.16
161 162 1.019805 GCAAGAGTACCGGCTCCAAC 61.020 60.000 0.00 0.00 36.20 3.77
162 163 1.295423 GCAAGAGTACCGGCTCCAA 59.705 57.895 0.00 0.00 36.20 3.53
163 164 1.264749 ATGCAAGAGTACCGGCTCCA 61.265 55.000 0.00 0.00 36.20 3.86
164 165 0.107654 AATGCAAGAGTACCGGCTCC 60.108 55.000 0.00 0.00 36.20 4.70
165 166 1.009829 CAATGCAAGAGTACCGGCTC 58.990 55.000 0.00 0.00 35.82 4.70
166 167 1.026718 GCAATGCAAGAGTACCGGCT 61.027 55.000 0.00 0.00 0.00 5.52
167 168 1.305219 TGCAATGCAAGAGTACCGGC 61.305 55.000 5.01 0.00 34.76 6.13
168 169 1.331756 GATGCAATGCAAGAGTACCGG 59.668 52.381 13.45 0.00 43.62 5.28
169 170 2.009051 TGATGCAATGCAAGAGTACCG 58.991 47.619 13.45 0.00 43.62 4.02
170 171 2.223112 CGTGATGCAATGCAAGAGTACC 60.223 50.000 13.45 0.00 43.62 3.34
171 172 2.416547 ACGTGATGCAATGCAAGAGTAC 59.583 45.455 13.45 6.34 43.62 2.73
172 173 2.416202 CACGTGATGCAATGCAAGAGTA 59.584 45.455 13.45 0.00 43.62 2.59
173 174 1.198408 CACGTGATGCAATGCAAGAGT 59.802 47.619 13.45 7.57 43.62 3.24
174 175 1.466866 CCACGTGATGCAATGCAAGAG 60.467 52.381 19.30 6.90 43.62 2.85
175 176 0.522626 CCACGTGATGCAATGCAAGA 59.477 50.000 19.30 0.00 43.62 3.02
176 177 0.522626 TCCACGTGATGCAATGCAAG 59.477 50.000 19.30 6.91 43.62 4.01
177 178 0.240678 GTCCACGTGATGCAATGCAA 59.759 50.000 19.30 0.00 43.62 4.08
178 179 1.585267 GGTCCACGTGATGCAATGCA 61.585 55.000 19.30 11.44 44.86 3.96
179 180 1.137404 GGTCCACGTGATGCAATGC 59.863 57.895 19.30 0.00 0.00 3.56
180 181 0.448990 CTGGTCCACGTGATGCAATG 59.551 55.000 19.30 0.00 0.00 2.82
181 182 1.308069 GCTGGTCCACGTGATGCAAT 61.308 55.000 19.30 0.00 0.00 3.56
182 183 1.965930 GCTGGTCCACGTGATGCAA 60.966 57.895 19.30 0.00 0.00 4.08
183 184 2.358615 GCTGGTCCACGTGATGCA 60.359 61.111 19.30 0.00 0.00 3.96
184 185 3.127533 GGCTGGTCCACGTGATGC 61.128 66.667 19.30 12.67 34.01 3.91
185 186 1.003355 AAGGCTGGTCCACGTGATG 60.003 57.895 19.30 0.34 37.29 3.07
186 187 1.003355 CAAGGCTGGTCCACGTGAT 60.003 57.895 19.30 0.00 37.29 3.06
187 188 2.425592 CAAGGCTGGTCCACGTGA 59.574 61.111 19.30 0.00 37.29 4.35
188 189 2.669569 CCAAGGCTGGTCCACGTG 60.670 66.667 9.08 9.08 38.00 4.49
189 190 2.847234 TCCAAGGCTGGTCCACGT 60.847 61.111 0.00 0.00 43.97 4.49
190 191 2.358737 GTCCAAGGCTGGTCCACG 60.359 66.667 0.00 0.00 43.97 4.94
191 192 1.302832 CAGTCCAAGGCTGGTCCAC 60.303 63.158 0.00 0.00 43.97 4.02
192 193 2.528818 CCAGTCCAAGGCTGGTCCA 61.529 63.158 16.59 0.00 46.22 4.02
193 194 2.352805 CCAGTCCAAGGCTGGTCC 59.647 66.667 16.59 0.00 46.22 4.46
215 216 4.796231 CGAGGACCGGAGTTGGCG 62.796 72.222 9.46 0.00 33.91 5.69
217 218 2.943978 AAGCGAGGACCGGAGTTGG 61.944 63.158 9.46 0.00 39.04 3.77
218 219 1.738099 CAAGCGAGGACCGGAGTTG 60.738 63.158 9.46 0.00 39.04 3.16
219 220 2.657237 CAAGCGAGGACCGGAGTT 59.343 61.111 9.46 0.00 39.04 3.01
220 221 3.382832 CCAAGCGAGGACCGGAGT 61.383 66.667 9.46 0.00 39.04 3.85
221 222 3.068691 TCCAAGCGAGGACCGGAG 61.069 66.667 9.46 0.00 39.04 4.63
227 228 3.319198 GTGGGGTCCAAGCGAGGA 61.319 66.667 0.00 0.00 34.18 3.71
228 229 4.410400 GGTGGGGTCCAAGCGAGG 62.410 72.222 0.00 0.00 34.18 4.63
229 230 3.190738 TTGGTGGGGTCCAAGCGAG 62.191 63.158 0.00 0.00 41.79 5.03
230 231 3.172106 TTGGTGGGGTCCAAGCGA 61.172 61.111 0.00 0.00 41.79 4.93
234 235 1.076549 GATGCTTGGTGGGGTCCAA 59.923 57.895 0.00 0.00 44.03 3.53
235 236 2.763215 GATGCTTGGTGGGGTCCA 59.237 61.111 0.00 0.00 35.49 4.02
236 237 2.438434 CGATGCTTGGTGGGGTCC 60.438 66.667 0.00 0.00 0.00 4.46
237 238 1.745489 GACGATGCTTGGTGGGGTC 60.745 63.158 0.00 0.00 0.00 4.46
238 239 2.224159 AGACGATGCTTGGTGGGGT 61.224 57.895 0.00 0.00 0.00 4.95
239 240 1.746615 CAGACGATGCTTGGTGGGG 60.747 63.158 0.00 0.00 0.00 4.96
240 241 3.895025 CAGACGATGCTTGGTGGG 58.105 61.111 0.00 0.00 0.00 4.61
260 261 2.983592 CTTGTTGGGGTCGTGGCC 60.984 66.667 0.00 0.00 0.00 5.36
261 262 3.670377 GCTTGTTGGGGTCGTGGC 61.670 66.667 0.00 0.00 0.00 5.01
262 263 2.983592 GGCTTGTTGGGGTCGTGG 60.984 66.667 0.00 0.00 0.00 4.94
263 264 0.322098 TATGGCTTGTTGGGGTCGTG 60.322 55.000 0.00 0.00 0.00 4.35
264 265 0.035439 CTATGGCTTGTTGGGGTCGT 60.035 55.000 0.00 0.00 0.00 4.34
265 266 1.376609 GCTATGGCTTGTTGGGGTCG 61.377 60.000 0.00 0.00 35.22 4.79
266 267 1.037579 GGCTATGGCTTGTTGGGGTC 61.038 60.000 0.00 0.00 38.73 4.46
267 268 1.000359 GGCTATGGCTTGTTGGGGT 60.000 57.895 0.00 0.00 38.73 4.95
268 269 1.000233 TGGCTATGGCTTGTTGGGG 60.000 57.895 0.00 0.00 38.73 4.96
269 270 1.322538 GGTGGCTATGGCTTGTTGGG 61.323 60.000 0.00 0.00 38.73 4.12
270 271 0.611618 TGGTGGCTATGGCTTGTTGG 60.612 55.000 0.00 0.00 38.73 3.77
271 272 1.477553 ATGGTGGCTATGGCTTGTTG 58.522 50.000 0.00 0.00 38.73 3.33
272 273 2.236489 AATGGTGGCTATGGCTTGTT 57.764 45.000 0.00 0.00 38.73 2.83
273 274 2.236489 AAATGGTGGCTATGGCTTGT 57.764 45.000 0.00 0.00 38.73 3.16
274 275 4.147321 AGATAAATGGTGGCTATGGCTTG 58.853 43.478 0.00 0.00 38.73 4.01
275 276 4.459852 AGATAAATGGTGGCTATGGCTT 57.540 40.909 0.00 0.00 38.73 4.35
276 277 4.401925 GAAGATAAATGGTGGCTATGGCT 58.598 43.478 0.00 0.00 38.73 4.75
277 278 3.507622 GGAAGATAAATGGTGGCTATGGC 59.492 47.826 0.00 0.00 37.82 4.40
278 279 4.728772 TGGAAGATAAATGGTGGCTATGG 58.271 43.478 0.00 0.00 0.00 2.74
279 280 5.336213 GCATGGAAGATAAATGGTGGCTATG 60.336 44.000 0.00 0.00 0.00 2.23
284 285 4.798263 GCATGCATGGAAGATAAATGGTGG 60.798 45.833 27.34 0.00 0.00 4.61
305 306 6.306987 AGGAAAAGGTATCTGAAGAAAAGCA 58.693 36.000 0.00 0.00 0.00 3.91
313 314 2.850568 GGGGGAGGAAAAGGTATCTGAA 59.149 50.000 0.00 0.00 0.00 3.02
343 345 2.189342 GAAAGCGGAGATTGTCTCGAG 58.811 52.381 5.93 5.93 44.28 4.04
344 346 1.135083 GGAAAGCGGAGATTGTCTCGA 60.135 52.381 1.26 0.00 44.28 4.04
345 347 1.281899 GGAAAGCGGAGATTGTCTCG 58.718 55.000 1.26 0.00 44.28 4.04
346 348 1.657822 GGGAAAGCGGAGATTGTCTC 58.342 55.000 0.00 0.00 42.66 3.36
348 350 1.090052 CCGGGAAAGCGGAGATTGTC 61.090 60.000 0.00 0.00 34.86 3.18
351 364 0.392595 GAACCGGGAAAGCGGAGATT 60.393 55.000 6.32 0.00 38.40 2.40
358 371 3.125573 GAGGCGAACCGGGAAAGC 61.126 66.667 6.32 5.58 42.76 3.51
359 372 2.436115 GGAGGCGAACCGGGAAAG 60.436 66.667 6.32 0.00 42.76 2.62
383 396 2.846193 CTCGGAACAAGGGAAGAAACA 58.154 47.619 0.00 0.00 0.00 2.83
384 397 1.535896 GCTCGGAACAAGGGAAGAAAC 59.464 52.381 0.00 0.00 0.00 2.78
442 458 1.480219 CGGCCGATCGCTCTTTGTAC 61.480 60.000 24.07 0.00 37.74 2.90
475 498 5.010922 CCTGAAAAATTGGATGTGACCAGAA 59.989 40.000 0.00 0.00 41.19 3.02
478 501 4.222336 ACCTGAAAAATTGGATGTGACCA 58.778 39.130 0.00 0.00 38.24 4.02
481 504 6.657117 TCGATTACCTGAAAAATTGGATGTGA 59.343 34.615 0.00 0.00 0.00 3.58
484 507 6.418819 GCATCGATTACCTGAAAAATTGGATG 59.581 38.462 0.00 0.00 33.73 3.51
495 518 9.045223 GCATATATATTTGCATCGATTACCTGA 57.955 33.333 19.52 0.00 38.72 3.86
506 529 7.117397 AGAGCTTGAGGCATATATATTTGCAT 58.883 34.615 23.86 19.35 44.79 3.96
515 538 3.843893 TGCAAGAGCTTGAGGCATATA 57.156 42.857 14.04 0.00 42.93 0.86
544 567 2.419667 TGCATGCATGGAGATATGTCG 58.580 47.619 27.34 0.00 0.00 4.35
566 589 0.901827 TTACATCCTCCGAGCTTGCA 59.098 50.000 0.00 0.00 0.00 4.08
567 590 2.139118 GATTACATCCTCCGAGCTTGC 58.861 52.381 0.00 0.00 0.00 4.01
568 591 2.034685 TCGATTACATCCTCCGAGCTTG 59.965 50.000 0.00 0.00 0.00 4.01
569 592 2.307768 TCGATTACATCCTCCGAGCTT 58.692 47.619 0.00 0.00 0.00 3.74
570 593 1.982660 TCGATTACATCCTCCGAGCT 58.017 50.000 0.00 0.00 0.00 4.09
571 594 2.029828 ACATCGATTACATCCTCCGAGC 60.030 50.000 0.00 0.00 32.60 5.03
576 599 3.013276 TGCGACATCGATTACATCCTC 57.987 47.619 5.26 0.00 43.02 3.71
578 601 2.096713 GCTTGCGACATCGATTACATCC 60.097 50.000 5.26 0.00 43.02 3.51
607 630 4.036971 TCCAAAACCGTTCTTGGTACATTG 59.963 41.667 17.47 3.59 42.89 2.82
609 632 3.822940 TCCAAAACCGTTCTTGGTACAT 58.177 40.909 17.47 0.00 42.89 2.29
610 633 3.278668 TCCAAAACCGTTCTTGGTACA 57.721 42.857 17.47 4.37 42.89 2.90
611 634 3.546616 CGTTCCAAAACCGTTCTTGGTAC 60.547 47.826 17.47 16.86 42.89 3.34
613 636 1.402613 CGTTCCAAAACCGTTCTTGGT 59.597 47.619 17.47 0.00 46.67 3.67
614 637 1.862411 GCGTTCCAAAACCGTTCTTGG 60.862 52.381 14.32 14.32 43.00 3.61
618 663 0.658897 TCTGCGTTCCAAAACCGTTC 59.341 50.000 0.00 0.00 31.27 3.95
742 787 5.923684 GTGGTTGACAAAAGTGAGTTTTTGA 59.076 36.000 15.67 0.00 46.13 2.69
826 871 2.349580 CGTGATGCATGTGTCGATCTTT 59.650 45.455 2.46 0.00 0.00 2.52
875 920 2.143925 GTGCTGCGAAATATAGGGACC 58.856 52.381 0.00 0.00 0.00 4.46
903 948 0.401738 CCTCTGGGTGATTGTGTGGT 59.598 55.000 0.00 0.00 0.00 4.16
979 1024 6.385176 TCCATCAATCAAATCAGTCTCCTAGT 59.615 38.462 0.00 0.00 0.00 2.57
1047 1092 1.349259 CCACGAACACGAACGGGATC 61.349 60.000 2.83 0.00 34.69 3.36
1357 1402 1.023513 GGCTCGCTGCTGTTGAAGAT 61.024 55.000 0.00 0.00 42.39 2.40
1429 1474 0.107508 ACGAGGAACATCTGGCCATG 60.108 55.000 5.51 5.05 0.00 3.66
1536 1581 2.732619 GGGGAAGACGCCGAGGATT 61.733 63.158 0.00 0.00 39.24 3.01
1546 1591 1.678970 GGCACATGGTGGGGAAGAC 60.679 63.158 0.00 0.00 33.64 3.01
1586 1631 1.121240 GATGATCTTGCCGACGTACG 58.879 55.000 15.01 15.01 42.18 3.67
1868 1916 5.598417 TCACCTCATCTTACTTAGCAGCATA 59.402 40.000 0.00 0.00 0.00 3.14
1902 1950 3.695830 TGTTGGTAAGATCACACTCCC 57.304 47.619 0.00 0.00 0.00 4.30
2039 2087 1.106944 TGCTGGCGTCGAGGATATCA 61.107 55.000 9.75 0.55 0.00 2.15
2223 2271 4.196193 TGCGGTATGACTTATTTCCCTTG 58.804 43.478 0.00 0.00 0.00 3.61
2317 2365 3.684305 TCAACGGCTTGATGTATGACTTG 59.316 43.478 0.00 0.00 31.00 3.16
2351 2399 0.867746 TTCAGTGACGCTGCAATGAC 59.132 50.000 11.29 0.00 41.84 3.06
2380 2428 9.135189 ACTGTGCATATACAATGGTTGATAAAT 57.865 29.630 0.00 0.00 0.00 1.40
2389 2437 3.548616 CGCCAACTGTGCATATACAATGG 60.549 47.826 0.00 0.00 39.12 3.16
2538 2597 3.418047 AGGTACATTTCCCGTCCTTTTG 58.582 45.455 0.00 0.00 0.00 2.44
2594 2653 4.965119 AGGGAAATCAACATTTAGACGC 57.035 40.909 0.00 0.00 31.94 5.19


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

AutoCloner maintained by Alex Coulton.