Multiple sequence alignment - TraesCS1B01G184800

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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 TraesCS1B01G184800 chr1B 100.000 2837 0 0 1 2837 332074384 332071548 0.000000e+00 5240.0
1 TraesCS1B01G184800 chr1A 93.211 1797 79 17 269 2041 307060126 307061903 0.000000e+00 2603.0
2 TraesCS1B01G184800 chr1D 92.156 1517 81 16 441 1929 246105738 246107244 0.000000e+00 2108.0
3 TraesCS1B01G184800 chr1D 94.475 181 8 2 271 450 246105383 246105562 7.740000e-71 278.0
4 TraesCS1B01G184800 chr1D 94.030 67 4 0 1970 2036 246107353 246107419 5.000000e-18 102.0
5 TraesCS1B01G184800 chr6B 95.766 803 34 0 2035 2837 304152050 304151248 0.000000e+00 1295.0
6 TraesCS1B01G184800 chr5B 95.143 803 37 2 2036 2837 425187605 425188406 0.000000e+00 1266.0
7 TraesCS1B01G184800 chr5A 94.451 811 43 2 2029 2837 275074082 275074892 0.000000e+00 1247.0
8 TraesCS1B01G184800 chr6A 94.271 803 46 0 2035 2837 297519929 297520731 0.000000e+00 1229.0
9 TraesCS1B01G184800 chr6A 94.132 801 47 0 2037 2837 307990181 307989381 0.000000e+00 1219.0
10 TraesCS1B01G184800 chr5D 95.681 764 23 3 2035 2789 527429880 527430642 0.000000e+00 1219.0
11 TraesCS1B01G184800 chr7D 92.030 803 57 5 2035 2837 58053003 58052208 0.000000e+00 1122.0
12 TraesCS1B01G184800 chr2B 94.585 554 29 1 2102 2655 753947916 753948468 0.000000e+00 856.0
13 TraesCS1B01G184800 chr2B 83.002 806 128 9 2037 2837 331247613 331248414 0.000000e+00 721.0
14 TraesCS1B01G184800 chr3B 94.186 86 5 0 190 275 144254332 144254417 6.380000e-27 132.0
15 TraesCS1B01G184800 chr3B 92.473 93 6 1 190 282 735387287 735387196 6.380000e-27 132.0
16 TraesCS1B01G184800 chr3B 94.118 85 5 0 190 274 144254144 144254228 2.290000e-26 130.0
17 TraesCS1B01G184800 chr3B 90.769 65 4 2 2035 2099 486383533 486383595 5.040000e-13 86.1


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 TraesCS1B01G184800 chr1B 332071548 332074384 2836 True 5240.000000 5240 100.000000 1 2837 1 chr1B.!!$R1 2836
1 TraesCS1B01G184800 chr1A 307060126 307061903 1777 False 2603.000000 2603 93.211000 269 2041 1 chr1A.!!$F1 1772
2 TraesCS1B01G184800 chr1D 246105383 246107419 2036 False 829.333333 2108 93.553667 271 2036 3 chr1D.!!$F1 1765
3 TraesCS1B01G184800 chr6B 304151248 304152050 802 True 1295.000000 1295 95.766000 2035 2837 1 chr6B.!!$R1 802
4 TraesCS1B01G184800 chr5B 425187605 425188406 801 False 1266.000000 1266 95.143000 2036 2837 1 chr5B.!!$F1 801
5 TraesCS1B01G184800 chr5A 275074082 275074892 810 False 1247.000000 1247 94.451000 2029 2837 1 chr5A.!!$F1 808
6 TraesCS1B01G184800 chr6A 297519929 297520731 802 False 1229.000000 1229 94.271000 2035 2837 1 chr6A.!!$F1 802
7 TraesCS1B01G184800 chr6A 307989381 307990181 800 True 1219.000000 1219 94.132000 2037 2837 1 chr6A.!!$R1 800
8 TraesCS1B01G184800 chr5D 527429880 527430642 762 False 1219.000000 1219 95.681000 2035 2789 1 chr5D.!!$F1 754
9 TraesCS1B01G184800 chr7D 58052208 58053003 795 True 1122.000000 1122 92.030000 2035 2837 1 chr7D.!!$R1 802
10 TraesCS1B01G184800 chr2B 753947916 753948468 552 False 856.000000 856 94.585000 2102 2655 1 chr2B.!!$F2 553
11 TraesCS1B01G184800 chr2B 331247613 331248414 801 False 721.000000 721 83.002000 2037 2837 1 chr2B.!!$F1 800

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
236 237 0.036732 CCACCTCAGCTTTGCCTGTA 59.963 55.0 0.00 0.0 34.47 2.74 F
1019 1233 0.102481 ATGTCCGACATCAGGTACGC 59.898 55.0 8.28 0.0 32.38 4.42 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1748 1968 0.309922 CATCTTGCCGTCATGCATCC 59.69 55.000 0.0 0.0 41.7 3.51 R
1999 2305 1.339929 ACCAAAACCGAATTGCAGTCC 59.66 47.619 0.0 0.0 0.0 3.85 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
23 24 4.802051 GGCTGGGCCGCTGAATGA 62.802 66.667 17.44 0.00 39.62 2.57
24 25 2.751436 GCTGGGCCGCTGAATGAA 60.751 61.111 12.15 0.00 0.00 2.57
25 26 3.056313 GCTGGGCCGCTGAATGAAC 62.056 63.158 12.15 0.00 0.00 3.18
26 27 2.361104 TGGGCCGCTGAATGAACC 60.361 61.111 0.00 0.00 0.00 3.62
27 28 3.140814 GGGCCGCTGAATGAACCC 61.141 66.667 0.00 0.00 0.00 4.11
28 29 3.508840 GGCCGCTGAATGAACCCG 61.509 66.667 0.00 0.00 0.00 5.28
29 30 2.435938 GCCGCTGAATGAACCCGA 60.436 61.111 0.00 0.00 0.00 5.14
30 31 1.819632 GCCGCTGAATGAACCCGAT 60.820 57.895 0.00 0.00 0.00 4.18
31 32 1.776034 GCCGCTGAATGAACCCGATC 61.776 60.000 0.00 0.00 0.00 3.69
32 33 0.179073 CCGCTGAATGAACCCGATCT 60.179 55.000 0.00 0.00 0.00 2.75
33 34 1.068588 CCGCTGAATGAACCCGATCTA 59.931 52.381 0.00 0.00 0.00 1.98
34 35 2.483013 CCGCTGAATGAACCCGATCTAA 60.483 50.000 0.00 0.00 0.00 2.10
35 36 2.540101 CGCTGAATGAACCCGATCTAAC 59.460 50.000 0.00 0.00 0.00 2.34
36 37 2.540101 GCTGAATGAACCCGATCTAACG 59.460 50.000 0.00 0.00 0.00 3.18
46 47 3.925688 CCGATCTAACGGTTGTTGATG 57.074 47.619 3.07 1.47 46.70 3.07
47 48 2.030457 CCGATCTAACGGTTGTTGATGC 59.970 50.000 3.07 0.29 46.70 3.91
48 49 2.030457 CGATCTAACGGTTGTTGATGCC 59.970 50.000 3.07 0.00 39.12 4.40
53 54 4.036804 GGTTGTTGATGCCGCGCA 62.037 61.111 8.75 2.46 44.86 6.09
54 55 2.050533 GTTGTTGATGCCGCGCAA 60.051 55.556 8.75 0.00 43.62 4.85
55 56 2.050533 TTGTTGATGCCGCGCAAC 60.051 55.556 17.06 17.06 43.62 4.17
56 57 3.550339 TTGTTGATGCCGCGCAACC 62.550 57.895 19.84 10.51 43.62 3.77
57 58 3.737172 GTTGATGCCGCGCAACCT 61.737 61.111 8.75 0.00 43.62 3.50
58 59 2.983030 TTGATGCCGCGCAACCTT 60.983 55.556 8.75 0.00 43.62 3.50
59 60 1.672682 TTGATGCCGCGCAACCTTA 60.673 52.632 8.75 0.00 43.62 2.69
60 61 1.029408 TTGATGCCGCGCAACCTTAT 61.029 50.000 8.75 0.00 43.62 1.73
61 62 1.279840 GATGCCGCGCAACCTTATC 59.720 57.895 8.75 0.00 43.62 1.75
62 63 1.153168 ATGCCGCGCAACCTTATCT 60.153 52.632 8.75 0.00 43.62 1.98
63 64 0.105964 ATGCCGCGCAACCTTATCTA 59.894 50.000 8.75 0.00 43.62 1.98
64 65 0.105964 TGCCGCGCAACCTTATCTAT 59.894 50.000 8.75 0.00 34.76 1.98
65 66 0.512952 GCCGCGCAACCTTATCTATG 59.487 55.000 8.75 0.00 0.00 2.23
66 67 1.865865 CCGCGCAACCTTATCTATGT 58.134 50.000 8.75 0.00 0.00 2.29
67 68 2.210116 CCGCGCAACCTTATCTATGTT 58.790 47.619 8.75 0.00 0.00 2.71
68 69 2.032894 CCGCGCAACCTTATCTATGTTG 60.033 50.000 8.75 0.00 41.69 3.33
127 128 9.807649 AACACAATCTCCATTAAATATTTCTGC 57.192 29.630 3.39 0.00 0.00 4.26
128 129 8.970020 ACACAATCTCCATTAAATATTTCTGCA 58.030 29.630 3.39 0.00 0.00 4.41
129 130 9.806203 CACAATCTCCATTAAATATTTCTGCAA 57.194 29.630 3.39 0.00 0.00 4.08
130 131 9.807649 ACAATCTCCATTAAATATTTCTGCAAC 57.192 29.630 3.39 0.00 0.00 4.17
131 132 9.806203 CAATCTCCATTAAATATTTCTGCAACA 57.194 29.630 3.39 0.00 0.00 3.33
132 133 9.807649 AATCTCCATTAAATATTTCTGCAACAC 57.192 29.630 3.39 0.00 0.00 3.32
133 134 7.471721 TCTCCATTAAATATTTCTGCAACACG 58.528 34.615 3.39 0.00 0.00 4.49
134 135 7.335673 TCTCCATTAAATATTTCTGCAACACGA 59.664 33.333 3.39 0.00 0.00 4.35
135 136 7.471721 TCCATTAAATATTTCTGCAACACGAG 58.528 34.615 3.39 0.00 0.00 4.18
136 137 6.197096 CCATTAAATATTTCTGCAACACGAGC 59.803 38.462 3.39 0.00 0.00 5.03
137 138 6.494893 TTAAATATTTCTGCAACACGAGCT 57.505 33.333 3.39 0.00 0.00 4.09
138 139 4.606457 AATATTTCTGCAACACGAGCTC 57.394 40.909 2.73 2.73 0.00 4.09
139 140 2.175878 ATTTCTGCAACACGAGCTCT 57.824 45.000 12.85 0.00 0.00 4.09
140 141 1.220529 TTTCTGCAACACGAGCTCTG 58.779 50.000 12.85 11.44 0.00 3.35
141 142 0.104855 TTCTGCAACACGAGCTCTGT 59.895 50.000 12.85 12.09 0.00 3.41
142 143 0.104855 TCTGCAACACGAGCTCTGTT 59.895 50.000 19.51 19.51 31.80 3.16
143 144 0.940126 CTGCAACACGAGCTCTGTTT 59.060 50.000 21.49 9.32 29.02 2.83
144 145 1.331756 CTGCAACACGAGCTCTGTTTT 59.668 47.619 21.49 13.64 29.02 2.43
145 146 2.543848 CTGCAACACGAGCTCTGTTTTA 59.456 45.455 21.49 14.95 29.02 1.52
146 147 2.543848 TGCAACACGAGCTCTGTTTTAG 59.456 45.455 21.49 14.81 29.02 1.85
147 148 2.544267 GCAACACGAGCTCTGTTTTAGT 59.456 45.455 21.49 9.81 29.02 2.24
148 149 3.739300 GCAACACGAGCTCTGTTTTAGTA 59.261 43.478 21.49 0.00 29.02 1.82
149 150 4.143305 GCAACACGAGCTCTGTTTTAGTAG 60.143 45.833 21.49 13.82 29.02 2.57
150 151 4.175787 ACACGAGCTCTGTTTTAGTAGG 57.824 45.455 12.85 0.40 0.00 3.18
151 152 3.573110 ACACGAGCTCTGTTTTAGTAGGT 59.427 43.478 12.85 0.98 0.00 3.08
152 153 4.038883 ACACGAGCTCTGTTTTAGTAGGTT 59.961 41.667 12.85 0.00 0.00 3.50
153 154 4.621886 CACGAGCTCTGTTTTAGTAGGTTC 59.378 45.833 12.85 0.00 0.00 3.62
154 155 4.523558 ACGAGCTCTGTTTTAGTAGGTTCT 59.476 41.667 12.85 0.00 0.00 3.01
155 156 4.859798 CGAGCTCTGTTTTAGTAGGTTCTG 59.140 45.833 12.85 0.00 0.00 3.02
156 157 4.570930 AGCTCTGTTTTAGTAGGTTCTGC 58.429 43.478 0.00 0.00 0.00 4.26
157 158 4.040461 AGCTCTGTTTTAGTAGGTTCTGCA 59.960 41.667 0.00 0.00 0.00 4.41
158 159 4.755123 GCTCTGTTTTAGTAGGTTCTGCAA 59.245 41.667 0.00 0.00 0.00 4.08
159 160 5.334182 GCTCTGTTTTAGTAGGTTCTGCAAC 60.334 44.000 0.00 0.00 0.00 4.17
160 161 5.676552 TCTGTTTTAGTAGGTTCTGCAACA 58.323 37.500 0.00 0.00 33.70 3.33
161 162 5.526111 TCTGTTTTAGTAGGTTCTGCAACAC 59.474 40.000 0.00 0.00 33.70 3.32
162 163 5.433526 TGTTTTAGTAGGTTCTGCAACACT 58.566 37.500 0.00 0.00 33.70 3.55
163 164 6.584488 TGTTTTAGTAGGTTCTGCAACACTA 58.416 36.000 0.00 0.00 33.70 2.74
164 165 7.049133 TGTTTTAGTAGGTTCTGCAACACTAA 58.951 34.615 0.00 0.00 32.84 2.24
165 166 7.011669 TGTTTTAGTAGGTTCTGCAACACTAAC 59.988 37.037 0.00 0.00 33.72 2.34
166 167 4.957684 AGTAGGTTCTGCAACACTAACT 57.042 40.909 0.00 0.00 33.70 2.24
167 168 5.291905 AGTAGGTTCTGCAACACTAACTT 57.708 39.130 0.00 0.00 33.70 2.66
168 169 5.681639 AGTAGGTTCTGCAACACTAACTTT 58.318 37.500 0.00 0.00 33.70 2.66
169 170 4.900635 AGGTTCTGCAACACTAACTTTG 57.099 40.909 0.00 0.00 33.70 2.77
170 171 4.270008 AGGTTCTGCAACACTAACTTTGT 58.730 39.130 0.00 0.00 33.70 2.83
171 172 4.705023 AGGTTCTGCAACACTAACTTTGTT 59.295 37.500 0.00 0.00 37.69 2.83
187 188 9.769093 CTAACTTTGTTGAAATAATAAGGACGG 57.231 33.333 0.00 0.00 0.00 4.79
188 189 7.153217 ACTTTGTTGAAATAATAAGGACGGG 57.847 36.000 0.00 0.00 0.00 5.28
189 190 6.152154 ACTTTGTTGAAATAATAAGGACGGGG 59.848 38.462 0.00 0.00 0.00 5.73
190 191 3.949113 TGTTGAAATAATAAGGACGGGGC 59.051 43.478 0.00 0.00 0.00 5.80
191 192 3.217681 TGAAATAATAAGGACGGGGCC 57.782 47.619 0.00 0.00 0.00 5.80
192 193 2.781174 TGAAATAATAAGGACGGGGCCT 59.219 45.455 0.84 0.00 40.93 5.19
193 194 3.181448 TGAAATAATAAGGACGGGGCCTC 60.181 47.826 0.84 0.00 37.26 4.70
194 195 2.112279 ATAATAAGGACGGGGCCTCA 57.888 50.000 1.96 0.00 37.26 3.86
195 196 2.112279 TAATAAGGACGGGGCCTCAT 57.888 50.000 1.96 0.00 37.26 2.90
196 197 0.765510 AATAAGGACGGGGCCTCATC 59.234 55.000 1.96 0.00 37.26 2.92
197 198 0.104934 ATAAGGACGGGGCCTCATCT 60.105 55.000 1.96 0.00 37.26 2.90
198 199 0.559205 TAAGGACGGGGCCTCATCTA 59.441 55.000 1.96 0.00 37.26 1.98
199 200 0.326238 AAGGACGGGGCCTCATCTAA 60.326 55.000 1.96 0.00 37.26 2.10
200 201 0.104934 AGGACGGGGCCTCATCTAAT 60.105 55.000 1.96 0.00 30.76 1.73
201 202 0.765510 GGACGGGGCCTCATCTAATT 59.234 55.000 1.96 0.00 0.00 1.40
202 203 1.975680 GGACGGGGCCTCATCTAATTA 59.024 52.381 1.96 0.00 0.00 1.40
203 204 2.289506 GGACGGGGCCTCATCTAATTAC 60.290 54.545 1.96 0.00 0.00 1.89
204 205 1.697982 ACGGGGCCTCATCTAATTACC 59.302 52.381 1.96 0.00 0.00 2.85
205 206 1.697432 CGGGGCCTCATCTAATTACCA 59.303 52.381 1.96 0.00 0.00 3.25
206 207 2.105821 CGGGGCCTCATCTAATTACCAA 59.894 50.000 1.96 0.00 0.00 3.67
207 208 3.244911 CGGGGCCTCATCTAATTACCAAT 60.245 47.826 1.96 0.00 0.00 3.16
208 209 4.740902 GGGGCCTCATCTAATTACCAATT 58.259 43.478 0.84 0.00 34.90 2.32
209 210 4.524328 GGGGCCTCATCTAATTACCAATTG 59.476 45.833 0.84 0.00 32.38 2.32
210 211 5.385198 GGGCCTCATCTAATTACCAATTGA 58.615 41.667 7.12 0.00 32.38 2.57
211 212 5.833131 GGGCCTCATCTAATTACCAATTGAA 59.167 40.000 7.12 0.00 32.38 2.69
212 213 6.323739 GGGCCTCATCTAATTACCAATTGAAA 59.676 38.462 7.12 1.14 32.38 2.69
213 214 7.203218 GGCCTCATCTAATTACCAATTGAAAC 58.797 38.462 7.12 0.00 32.38 2.78
214 215 7.147915 GGCCTCATCTAATTACCAATTGAAACA 60.148 37.037 7.12 0.00 32.38 2.83
215 216 7.917505 GCCTCATCTAATTACCAATTGAAACAG 59.082 37.037 7.12 3.00 32.38 3.16
216 217 7.917505 CCTCATCTAATTACCAATTGAAACAGC 59.082 37.037 7.12 0.00 32.38 4.40
217 218 7.771183 TCATCTAATTACCAATTGAAACAGCC 58.229 34.615 7.12 0.00 32.38 4.85
218 219 6.524101 TCTAATTACCAATTGAAACAGCCC 57.476 37.500 7.12 0.00 32.38 5.19
219 220 6.013379 TCTAATTACCAATTGAAACAGCCCA 58.987 36.000 7.12 0.00 32.38 5.36
220 221 4.535526 ATTACCAATTGAAACAGCCCAC 57.464 40.909 7.12 0.00 0.00 4.61
221 222 1.047801 ACCAATTGAAACAGCCCACC 58.952 50.000 7.12 0.00 0.00 4.61
222 223 1.341080 CCAATTGAAACAGCCCACCT 58.659 50.000 7.12 0.00 0.00 4.00
223 224 1.273327 CCAATTGAAACAGCCCACCTC 59.727 52.381 7.12 0.00 0.00 3.85
224 225 1.962807 CAATTGAAACAGCCCACCTCA 59.037 47.619 0.00 0.00 0.00 3.86
225 226 1.915141 ATTGAAACAGCCCACCTCAG 58.085 50.000 0.00 0.00 0.00 3.35
226 227 0.823356 TTGAAACAGCCCACCTCAGC 60.823 55.000 0.00 0.00 0.00 4.26
227 228 1.073897 GAAACAGCCCACCTCAGCT 59.926 57.895 0.00 0.00 40.89 4.24
228 229 0.538287 GAAACAGCCCACCTCAGCTT 60.538 55.000 0.00 0.00 37.18 3.74
229 230 0.106015 AAACAGCCCACCTCAGCTTT 60.106 50.000 0.00 0.00 37.18 3.51
230 231 0.825010 AACAGCCCACCTCAGCTTTG 60.825 55.000 0.00 0.00 37.18 2.77
231 232 2.282745 AGCCCACCTCAGCTTTGC 60.283 61.111 0.00 0.00 35.22 3.68
232 233 3.376918 GCCCACCTCAGCTTTGCC 61.377 66.667 0.00 0.00 0.00 4.52
233 234 2.437897 CCCACCTCAGCTTTGCCT 59.562 61.111 0.00 0.00 0.00 4.75
234 235 1.975407 CCCACCTCAGCTTTGCCTG 60.975 63.158 0.00 0.00 0.00 4.85
235 236 1.228367 CCACCTCAGCTTTGCCTGT 60.228 57.895 0.00 0.00 34.47 4.00
236 237 0.036732 CCACCTCAGCTTTGCCTGTA 59.963 55.000 0.00 0.00 34.47 2.74
237 238 1.545428 CCACCTCAGCTTTGCCTGTAA 60.545 52.381 0.00 0.00 34.47 2.41
238 239 2.229792 CACCTCAGCTTTGCCTGTAAA 58.770 47.619 0.00 0.00 34.47 2.01
239 240 2.030805 CACCTCAGCTTTGCCTGTAAAC 60.031 50.000 0.00 0.00 34.47 2.01
240 241 2.229792 CCTCAGCTTTGCCTGTAAACA 58.770 47.619 0.00 0.00 34.47 2.83
241 242 2.821969 CCTCAGCTTTGCCTGTAAACAT 59.178 45.455 0.00 0.00 34.47 2.71
242 243 3.119708 CCTCAGCTTTGCCTGTAAACATC 60.120 47.826 0.00 0.00 34.47 3.06
243 244 2.819608 TCAGCTTTGCCTGTAAACATCC 59.180 45.455 0.00 0.00 34.47 3.51
244 245 2.821969 CAGCTTTGCCTGTAAACATCCT 59.178 45.455 0.00 0.00 0.00 3.24
245 246 2.821969 AGCTTTGCCTGTAAACATCCTG 59.178 45.455 0.00 0.00 0.00 3.86
246 247 2.558359 GCTTTGCCTGTAAACATCCTGT 59.442 45.455 0.00 0.00 0.00 4.00
247 248 3.756434 GCTTTGCCTGTAAACATCCTGTA 59.244 43.478 0.00 0.00 0.00 2.74
248 249 4.142600 GCTTTGCCTGTAAACATCCTGTAG 60.143 45.833 0.00 0.00 0.00 2.74
249 250 3.627395 TGCCTGTAAACATCCTGTAGG 57.373 47.619 0.00 0.00 0.00 3.18
250 251 2.238646 TGCCTGTAAACATCCTGTAGGG 59.761 50.000 0.00 0.00 35.41 3.53
251 252 2.919228 CCTGTAAACATCCTGTAGGGC 58.081 52.381 0.00 0.00 35.41 5.19
252 253 2.505819 CCTGTAAACATCCTGTAGGGCT 59.494 50.000 0.00 0.00 35.41 5.19
253 254 3.054361 CCTGTAAACATCCTGTAGGGCTT 60.054 47.826 0.00 0.00 35.41 4.35
254 255 4.192317 CTGTAAACATCCTGTAGGGCTTC 58.808 47.826 0.00 0.00 35.41 3.86
255 256 2.808906 AAACATCCTGTAGGGCTTCC 57.191 50.000 0.00 0.00 35.41 3.46
256 257 0.541863 AACATCCTGTAGGGCTTCCG 59.458 55.000 0.00 0.00 35.41 4.30
257 258 0.617820 ACATCCTGTAGGGCTTCCGT 60.618 55.000 0.00 0.00 35.41 4.69
258 259 1.342674 ACATCCTGTAGGGCTTCCGTA 60.343 52.381 0.00 0.00 35.41 4.02
259 260 1.971357 CATCCTGTAGGGCTTCCGTAT 59.029 52.381 0.00 0.00 35.41 3.06
260 261 1.410004 TCCTGTAGGGCTTCCGTATG 58.590 55.000 0.00 0.00 35.41 2.39
261 262 1.120530 CCTGTAGGGCTTCCGTATGT 58.879 55.000 0.00 0.00 35.17 2.29
262 263 1.068741 CCTGTAGGGCTTCCGTATGTC 59.931 57.143 0.00 0.00 35.17 3.06
263 264 2.032620 CTGTAGGGCTTCCGTATGTCT 58.967 52.381 0.00 0.00 35.17 3.41
264 265 3.220110 CTGTAGGGCTTCCGTATGTCTA 58.780 50.000 0.00 0.00 35.17 2.59
265 266 3.220110 TGTAGGGCTTCCGTATGTCTAG 58.780 50.000 0.00 0.00 35.17 2.43
266 267 1.041437 AGGGCTTCCGTATGTCTAGC 58.959 55.000 0.00 0.00 35.17 3.42
267 268 3.590127 GGCTTCCGTATGTCTAGCC 57.410 57.895 0.00 0.00 43.96 3.93
370 372 8.047310 AGGTTAATAGGAGGTTAGTGTGAATTG 58.953 37.037 0.00 0.00 0.00 2.32
431 433 2.352651 GCCCCGTAGTTTTATCGGAAAC 59.647 50.000 4.38 2.96 46.05 2.78
469 656 3.296709 CTAGCCCGTGCCTTGACGT 62.297 63.158 0.00 0.00 37.66 4.34
554 741 4.339814 AGCTAAGGAATCAGTTCGGACTAG 59.660 45.833 0.00 0.00 35.10 2.57
582 772 4.040706 TGGTTATATTACGGGCTGGTTAGG 59.959 45.833 0.00 0.00 0.00 2.69
659 855 2.003672 CGATTAACCGACGGCCAAG 58.996 57.895 15.39 0.00 0.00 3.61
980 1194 1.220206 CTCTGCCCAAGATCAGCGT 59.780 57.895 0.00 0.00 33.29 5.07
1019 1233 0.102481 ATGTCCGACATCAGGTACGC 59.898 55.000 8.28 0.00 32.38 4.42
1128 1342 0.811616 ATCACTTCCGCTTCGCCATC 60.812 55.000 0.00 0.00 0.00 3.51
1166 1380 1.159713 TTGTCAGCAAGCACAGACGG 61.160 55.000 0.00 0.00 33.83 4.79
1194 1408 0.177836 TCATCATGTACCACCGCTGG 59.822 55.000 0.00 0.00 44.26 4.85
1345 1559 3.448093 TGGAATCTAATGGTGCCACAA 57.552 42.857 0.00 0.00 0.00 3.33
1440 1660 7.170965 ACTCCATGATATATTGGCCTTACAAG 58.829 38.462 3.32 0.00 33.23 3.16
1449 1669 2.368439 TGGCCTTACAAGCATGATGAC 58.632 47.619 3.32 0.00 0.00 3.06
1490 1710 1.067706 CCATCTCGTTGCATTGCCAAA 60.068 47.619 6.12 0.00 0.00 3.28
1591 1811 4.804420 ATGGCCGGCTCTCCTGGA 62.804 66.667 28.56 0.00 0.00 3.86
1668 1888 1.076332 ATGCGACCTTTAGCGACAAC 58.924 50.000 0.00 0.00 35.87 3.32
1687 1907 1.323412 CAATGGTGTTGGAACCGGAA 58.677 50.000 9.46 0.00 43.73 4.30
1748 1968 4.585955 AAGCATCCACGTACTACTATGG 57.414 45.455 0.00 1.49 0.00 2.74
1849 2069 3.263261 GTTCCCTAGCTAGCTTGTTGAC 58.737 50.000 24.88 13.70 0.00 3.18
1867 2087 4.019792 TGACTTTCCATGTGCATAGTGT 57.980 40.909 0.00 0.00 0.00 3.55
1908 2128 9.453572 ACTATGATCTAACAATTGCTTTTCAGA 57.546 29.630 5.05 0.00 0.00 3.27
1910 2130 7.750229 TGATCTAACAATTGCTTTTCAGACT 57.250 32.000 5.05 0.00 0.00 3.24
1912 2132 8.632679 TGATCTAACAATTGCTTTTCAGACTTT 58.367 29.630 5.05 0.00 0.00 2.66
1916 2136 5.723295 ACAATTGCTTTTCAGACTTTGTGT 58.277 33.333 5.05 0.00 0.00 3.72
1926 2146 5.196341 TCAGACTTTGTGTGTACTACAGG 57.804 43.478 0.00 0.54 40.69 4.00
1927 2147 4.647853 TCAGACTTTGTGTGTACTACAGGT 59.352 41.667 0.00 3.44 40.69 4.00
1929 2149 5.234329 CAGACTTTGTGTGTACTACAGGTTG 59.766 44.000 0.00 2.52 40.69 3.77
1930 2150 5.093849 ACTTTGTGTGTACTACAGGTTGT 57.906 39.130 0.00 0.00 40.69 3.32
1931 2151 4.873827 ACTTTGTGTGTACTACAGGTTGTG 59.126 41.667 0.00 0.00 40.69 3.33
1932 2152 2.828877 TGTGTGTACTACAGGTTGTGC 58.171 47.619 0.00 0.00 40.69 4.57
1933 2153 2.432874 TGTGTGTACTACAGGTTGTGCT 59.567 45.455 0.00 0.00 40.69 4.40
1934 2154 2.800544 GTGTGTACTACAGGTTGTGCTG 59.199 50.000 0.00 0.00 40.69 4.41
1935 2155 2.696187 TGTGTACTACAGGTTGTGCTGA 59.304 45.455 0.00 0.00 33.42 4.26
1936 2156 3.057734 GTGTACTACAGGTTGTGCTGAC 58.942 50.000 0.00 0.00 0.00 3.51
1937 2157 2.963101 TGTACTACAGGTTGTGCTGACT 59.037 45.455 0.00 0.00 0.00 3.41
1938 2158 4.022589 GTGTACTACAGGTTGTGCTGACTA 60.023 45.833 0.00 0.00 0.00 2.59
1939 2159 3.944055 ACTACAGGTTGTGCTGACTAG 57.056 47.619 0.00 0.00 0.00 2.57
1940 2160 3.497332 ACTACAGGTTGTGCTGACTAGA 58.503 45.455 0.00 0.00 0.00 2.43
1941 2161 2.821991 ACAGGTTGTGCTGACTAGAC 57.178 50.000 0.00 0.00 0.00 2.59
1942 2162 2.320781 ACAGGTTGTGCTGACTAGACT 58.679 47.619 0.00 0.00 0.00 3.24
1943 2163 3.497332 ACAGGTTGTGCTGACTAGACTA 58.503 45.455 0.00 0.00 0.00 2.59
1944 2164 3.895656 ACAGGTTGTGCTGACTAGACTAA 59.104 43.478 0.00 0.00 0.00 2.24
1945 2165 4.344102 ACAGGTTGTGCTGACTAGACTAAA 59.656 41.667 0.00 0.00 0.00 1.85
1966 2186 5.431420 AATCGATGTACTGTGTGCAAAAA 57.569 34.783 0.00 0.00 31.17 1.94
1981 2287 9.979578 TGTGTGCAAAAATTAAGATATCAGTTT 57.020 25.926 5.32 0.00 0.00 2.66
2061 2367 2.021457 TCGAGAGTATGCCAATGACGA 58.979 47.619 0.00 0.00 0.00 4.20
2099 2407 7.817418 AGAAGGCAGAAGTTGTAATTACAAA 57.183 32.000 28.05 12.93 46.54 2.83
2172 2480 3.308117 CCACACCTAATCCAAAGCCTACA 60.308 47.826 0.00 0.00 0.00 2.74
2265 2573 2.571202 TGGTTGTGTAGCTCATCCATGA 59.429 45.455 0.00 0.00 35.16 3.07
2471 2781 1.784036 CGATGCACTTGTGCCACACA 61.784 55.000 21.01 4.43 43.02 3.72
2531 2841 1.203441 TGTCCTCCTCTTGCAGGCAT 61.203 55.000 0.00 0.00 43.08 4.40
2720 3038 0.322322 TGTAAACTGATCGGGCCGTT 59.678 50.000 27.32 18.90 0.00 4.44
2761 3079 1.793714 CGGCCACGCAAATGTATCAAC 60.794 52.381 2.24 0.00 0.00 3.18
2794 3112 0.248498 CGATGTGTCGTAGCGATGGT 60.248 55.000 0.00 0.00 42.78 3.55
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 2.751436 TTCATTCAGCGGCCCAGC 60.751 61.111 0.00 0.00 37.41 4.85
8 9 2.409870 GGTTCATTCAGCGGCCCAG 61.410 63.158 0.00 0.00 0.00 4.45
9 10 2.361104 GGTTCATTCAGCGGCCCA 60.361 61.111 0.00 0.00 0.00 5.36
10 11 3.140814 GGGTTCATTCAGCGGCCC 61.141 66.667 0.00 0.00 0.00 5.80
11 12 3.508840 CGGGTTCATTCAGCGGCC 61.509 66.667 0.00 0.00 0.00 6.13
12 13 1.776034 GATCGGGTTCATTCAGCGGC 61.776 60.000 0.00 0.00 0.00 6.53
13 14 0.179073 AGATCGGGTTCATTCAGCGG 60.179 55.000 0.00 0.00 0.00 5.52
14 15 2.509052 TAGATCGGGTTCATTCAGCG 57.491 50.000 0.00 0.00 0.00 5.18
15 16 2.540101 CGTTAGATCGGGTTCATTCAGC 59.460 50.000 0.00 0.00 0.00 4.26
16 17 3.123804 CCGTTAGATCGGGTTCATTCAG 58.876 50.000 0.00 0.00 45.88 3.02
17 18 3.173668 CCGTTAGATCGGGTTCATTCA 57.826 47.619 0.00 0.00 45.88 2.57
27 28 2.030457 GGCATCAACAACCGTTAGATCG 59.970 50.000 0.00 0.00 32.75 3.69
28 29 2.030457 CGGCATCAACAACCGTTAGATC 59.970 50.000 0.00 0.00 42.01 2.75
29 30 2.006888 CGGCATCAACAACCGTTAGAT 58.993 47.619 0.00 0.00 42.01 1.98
30 31 1.434555 CGGCATCAACAACCGTTAGA 58.565 50.000 0.00 0.00 42.01 2.10
31 32 3.967734 CGGCATCAACAACCGTTAG 57.032 52.632 0.00 0.00 42.01 2.34
36 37 3.550339 TTGCGCGGCATCAACAACC 62.550 57.895 8.83 0.00 38.76 3.77
37 38 2.050533 TTGCGCGGCATCAACAAC 60.051 55.556 8.83 0.00 38.76 3.32
38 39 2.050533 GTTGCGCGGCATCAACAA 60.051 55.556 22.20 5.83 41.46 2.83
39 40 4.036804 GGTTGCGCGGCATCAACA 62.037 61.111 25.79 3.28 43.06 3.33
40 41 1.917782 TAAGGTTGCGCGGCATCAAC 61.918 55.000 20.20 20.20 38.76 3.18
41 42 1.029408 ATAAGGTTGCGCGGCATCAA 61.029 50.000 8.83 0.00 38.76 2.57
42 43 1.436195 GATAAGGTTGCGCGGCATCA 61.436 55.000 8.83 0.00 38.76 3.07
43 44 1.160329 AGATAAGGTTGCGCGGCATC 61.160 55.000 8.83 5.66 38.76 3.91
44 45 0.105964 TAGATAAGGTTGCGCGGCAT 59.894 50.000 8.83 0.00 38.76 4.40
45 46 0.105964 ATAGATAAGGTTGCGCGGCA 59.894 50.000 8.83 3.20 36.47 5.69
46 47 0.512952 CATAGATAAGGTTGCGCGGC 59.487 55.000 8.83 0.00 0.00 6.53
47 48 1.865865 ACATAGATAAGGTTGCGCGG 58.134 50.000 8.83 0.00 0.00 6.46
48 49 3.238903 CAACATAGATAAGGTTGCGCG 57.761 47.619 0.00 0.00 35.95 6.86
101 102 9.807649 GCAGAAATATTTAATGGAGATTGTGTT 57.192 29.630 0.00 0.00 0.00 3.32
102 103 8.970020 TGCAGAAATATTTAATGGAGATTGTGT 58.030 29.630 0.00 0.00 0.00 3.72
103 104 9.806203 TTGCAGAAATATTTAATGGAGATTGTG 57.194 29.630 0.00 0.00 0.00 3.33
104 105 9.807649 GTTGCAGAAATATTTAATGGAGATTGT 57.192 29.630 0.00 0.00 0.00 2.71
105 106 9.806203 TGTTGCAGAAATATTTAATGGAGATTG 57.194 29.630 0.00 0.00 0.00 2.67
106 107 9.807649 GTGTTGCAGAAATATTTAATGGAGATT 57.192 29.630 0.00 0.00 0.00 2.40
107 108 8.131100 CGTGTTGCAGAAATATTTAATGGAGAT 58.869 33.333 0.00 0.00 0.00 2.75
108 109 7.335673 TCGTGTTGCAGAAATATTTAATGGAGA 59.664 33.333 0.00 0.00 0.00 3.71
109 110 7.471721 TCGTGTTGCAGAAATATTTAATGGAG 58.528 34.615 0.00 0.00 0.00 3.86
110 111 7.384439 TCGTGTTGCAGAAATATTTAATGGA 57.616 32.000 0.00 2.05 0.00 3.41
111 112 6.197096 GCTCGTGTTGCAGAAATATTTAATGG 59.803 38.462 0.00 0.00 0.00 3.16
112 113 6.968904 AGCTCGTGTTGCAGAAATATTTAATG 59.031 34.615 0.00 4.75 0.00 1.90
113 114 7.066284 AGAGCTCGTGTTGCAGAAATATTTAAT 59.934 33.333 8.37 0.00 0.00 1.40
114 115 6.371548 AGAGCTCGTGTTGCAGAAATATTTAA 59.628 34.615 8.37 0.00 0.00 1.52
115 116 5.874810 AGAGCTCGTGTTGCAGAAATATTTA 59.125 36.000 8.37 0.00 0.00 1.40
116 117 4.697352 AGAGCTCGTGTTGCAGAAATATTT 59.303 37.500 8.37 0.00 0.00 1.40
117 118 4.093998 CAGAGCTCGTGTTGCAGAAATATT 59.906 41.667 8.37 0.00 0.00 1.28
118 119 3.620374 CAGAGCTCGTGTTGCAGAAATAT 59.380 43.478 8.37 0.00 0.00 1.28
119 120 2.995939 CAGAGCTCGTGTTGCAGAAATA 59.004 45.455 8.37 0.00 0.00 1.40
120 121 1.802960 CAGAGCTCGTGTTGCAGAAAT 59.197 47.619 8.37 0.00 0.00 2.17
121 122 1.220529 CAGAGCTCGTGTTGCAGAAA 58.779 50.000 8.37 0.00 0.00 2.52
122 123 0.104855 ACAGAGCTCGTGTTGCAGAA 59.895 50.000 8.37 0.00 0.00 3.02
123 124 0.104855 AACAGAGCTCGTGTTGCAGA 59.895 50.000 22.57 0.00 36.76 4.26
124 125 0.940126 AAACAGAGCTCGTGTTGCAG 59.060 50.000 23.40 6.62 38.17 4.41
125 126 1.378531 AAAACAGAGCTCGTGTTGCA 58.621 45.000 23.40 0.00 38.17 4.08
126 127 2.544267 ACTAAAACAGAGCTCGTGTTGC 59.456 45.455 23.40 0.00 38.17 4.17
127 128 4.386049 CCTACTAAAACAGAGCTCGTGTTG 59.614 45.833 23.40 13.71 38.17 3.33
128 129 4.038883 ACCTACTAAAACAGAGCTCGTGTT 59.961 41.667 19.51 19.51 39.89 3.32
129 130 3.573110 ACCTACTAAAACAGAGCTCGTGT 59.427 43.478 8.37 10.31 0.00 4.49
130 131 4.175787 ACCTACTAAAACAGAGCTCGTG 57.824 45.455 8.37 9.65 0.00 4.35
131 132 4.523558 AGAACCTACTAAAACAGAGCTCGT 59.476 41.667 8.37 6.73 0.00 4.18
132 133 4.859798 CAGAACCTACTAAAACAGAGCTCG 59.140 45.833 8.37 6.04 0.00 5.03
133 134 4.627900 GCAGAACCTACTAAAACAGAGCTC 59.372 45.833 5.27 5.27 0.00 4.09
134 135 4.040461 TGCAGAACCTACTAAAACAGAGCT 59.960 41.667 0.00 0.00 0.00 4.09
135 136 4.315803 TGCAGAACCTACTAAAACAGAGC 58.684 43.478 0.00 0.00 0.00 4.09
136 137 5.758296 TGTTGCAGAACCTACTAAAACAGAG 59.242 40.000 0.00 0.00 0.00 3.35
137 138 5.526111 GTGTTGCAGAACCTACTAAAACAGA 59.474 40.000 0.00 0.00 30.59 3.41
138 139 5.527582 AGTGTTGCAGAACCTACTAAAACAG 59.472 40.000 0.00 0.00 30.59 3.16
139 140 5.433526 AGTGTTGCAGAACCTACTAAAACA 58.566 37.500 0.00 0.00 0.00 2.83
140 141 7.226128 AGTTAGTGTTGCAGAACCTACTAAAAC 59.774 37.037 0.00 0.00 34.67 2.43
141 142 7.277396 AGTTAGTGTTGCAGAACCTACTAAAA 58.723 34.615 0.00 0.00 34.67 1.52
142 143 6.823497 AGTTAGTGTTGCAGAACCTACTAAA 58.177 36.000 0.00 0.00 34.67 1.85
143 144 6.415206 AGTTAGTGTTGCAGAACCTACTAA 57.585 37.500 0.00 0.00 32.32 2.24
144 145 6.415206 AAGTTAGTGTTGCAGAACCTACTA 57.585 37.500 0.00 0.00 0.00 1.82
145 146 4.957684 AGTTAGTGTTGCAGAACCTACT 57.042 40.909 0.00 0.00 0.00 2.57
146 147 5.296035 ACAAAGTTAGTGTTGCAGAACCTAC 59.704 40.000 0.00 0.00 0.00 3.18
147 148 5.433526 ACAAAGTTAGTGTTGCAGAACCTA 58.566 37.500 0.00 0.00 0.00 3.08
148 149 4.270008 ACAAAGTTAGTGTTGCAGAACCT 58.730 39.130 0.00 0.00 0.00 3.50
149 150 4.632538 ACAAAGTTAGTGTTGCAGAACC 57.367 40.909 0.00 0.00 0.00 3.62
150 151 5.932021 CAACAAAGTTAGTGTTGCAGAAC 57.068 39.130 7.34 0.00 46.63 3.01
161 162 9.769093 CCGTCCTTATTATTTCAACAAAGTTAG 57.231 33.333 0.00 0.00 0.00 2.34
162 163 8.732531 CCCGTCCTTATTATTTCAACAAAGTTA 58.267 33.333 0.00 0.00 0.00 2.24
163 164 7.309560 CCCCGTCCTTATTATTTCAACAAAGTT 60.310 37.037 0.00 0.00 0.00 2.66
164 165 6.152154 CCCCGTCCTTATTATTTCAACAAAGT 59.848 38.462 0.00 0.00 0.00 2.66
165 166 6.560711 CCCCGTCCTTATTATTTCAACAAAG 58.439 40.000 0.00 0.00 0.00 2.77
166 167 5.105675 GCCCCGTCCTTATTATTTCAACAAA 60.106 40.000 0.00 0.00 0.00 2.83
167 168 4.399934 GCCCCGTCCTTATTATTTCAACAA 59.600 41.667 0.00 0.00 0.00 2.83
168 169 3.949113 GCCCCGTCCTTATTATTTCAACA 59.051 43.478 0.00 0.00 0.00 3.33
169 170 3.317149 GGCCCCGTCCTTATTATTTCAAC 59.683 47.826 0.00 0.00 0.00 3.18
170 171 3.203487 AGGCCCCGTCCTTATTATTTCAA 59.797 43.478 0.00 0.00 30.82 2.69
171 172 2.781174 AGGCCCCGTCCTTATTATTTCA 59.219 45.455 0.00 0.00 30.82 2.69
172 173 3.181448 TGAGGCCCCGTCCTTATTATTTC 60.181 47.826 0.00 0.00 36.38 2.17
173 174 2.781174 TGAGGCCCCGTCCTTATTATTT 59.219 45.455 0.00 0.00 36.38 1.40
174 175 2.414612 TGAGGCCCCGTCCTTATTATT 58.585 47.619 0.00 0.00 36.38 1.40
175 176 2.112279 TGAGGCCCCGTCCTTATTAT 57.888 50.000 0.00 0.00 36.38 1.28
176 177 1.975680 GATGAGGCCCCGTCCTTATTA 59.024 52.381 0.00 0.00 36.38 0.98
177 178 0.765510 GATGAGGCCCCGTCCTTATT 59.234 55.000 0.00 0.00 36.38 1.40
178 179 0.104934 AGATGAGGCCCCGTCCTTAT 60.105 55.000 2.27 0.00 36.38 1.73
179 180 0.559205 TAGATGAGGCCCCGTCCTTA 59.441 55.000 2.27 0.00 36.38 2.69
180 181 0.326238 TTAGATGAGGCCCCGTCCTT 60.326 55.000 2.27 0.00 36.38 3.36
181 182 0.104934 ATTAGATGAGGCCCCGTCCT 60.105 55.000 2.27 0.00 39.67 3.85
182 183 0.765510 AATTAGATGAGGCCCCGTCC 59.234 55.000 2.27 0.00 0.00 4.79
183 184 2.289506 GGTAATTAGATGAGGCCCCGTC 60.290 54.545 0.00 0.00 0.00 4.79
184 185 1.697982 GGTAATTAGATGAGGCCCCGT 59.302 52.381 0.00 0.00 0.00 5.28
185 186 1.697432 TGGTAATTAGATGAGGCCCCG 59.303 52.381 0.00 0.00 0.00 5.73
186 187 3.876309 TTGGTAATTAGATGAGGCCCC 57.124 47.619 0.00 0.00 0.00 5.80
187 188 5.385198 TCAATTGGTAATTAGATGAGGCCC 58.615 41.667 5.42 0.00 0.00 5.80
188 189 6.959639 TTCAATTGGTAATTAGATGAGGCC 57.040 37.500 5.42 0.00 0.00 5.19
189 190 7.771183 TGTTTCAATTGGTAATTAGATGAGGC 58.229 34.615 5.42 0.00 0.00 4.70
190 191 7.917505 GCTGTTTCAATTGGTAATTAGATGAGG 59.082 37.037 5.42 0.00 0.00 3.86
191 192 7.917505 GGCTGTTTCAATTGGTAATTAGATGAG 59.082 37.037 5.42 0.00 0.00 2.90
192 193 7.147915 GGGCTGTTTCAATTGGTAATTAGATGA 60.148 37.037 5.42 0.00 0.00 2.92
193 194 6.980397 GGGCTGTTTCAATTGGTAATTAGATG 59.020 38.462 5.42 0.00 0.00 2.90
194 195 6.667414 TGGGCTGTTTCAATTGGTAATTAGAT 59.333 34.615 5.42 0.00 0.00 1.98
195 196 6.013379 TGGGCTGTTTCAATTGGTAATTAGA 58.987 36.000 5.42 0.00 0.00 2.10
196 197 6.099341 GTGGGCTGTTTCAATTGGTAATTAG 58.901 40.000 5.42 5.24 0.00 1.73
197 198 5.046950 GGTGGGCTGTTTCAATTGGTAATTA 60.047 40.000 5.42 0.00 0.00 1.40
198 199 4.262851 GGTGGGCTGTTTCAATTGGTAATT 60.263 41.667 5.42 0.00 0.00 1.40
199 200 3.260632 GGTGGGCTGTTTCAATTGGTAAT 59.739 43.478 5.42 0.00 0.00 1.89
200 201 2.630580 GGTGGGCTGTTTCAATTGGTAA 59.369 45.455 5.42 0.00 0.00 2.85
201 202 2.158385 AGGTGGGCTGTTTCAATTGGTA 60.158 45.455 5.42 0.00 0.00 3.25
202 203 1.047801 GGTGGGCTGTTTCAATTGGT 58.952 50.000 5.42 0.00 0.00 3.67
203 204 1.273327 GAGGTGGGCTGTTTCAATTGG 59.727 52.381 5.42 0.00 0.00 3.16
204 205 1.962807 TGAGGTGGGCTGTTTCAATTG 59.037 47.619 0.00 0.00 0.00 2.32
205 206 2.242043 CTGAGGTGGGCTGTTTCAATT 58.758 47.619 0.00 0.00 0.00 2.32
206 207 1.915141 CTGAGGTGGGCTGTTTCAAT 58.085 50.000 0.00 0.00 0.00 2.57
207 208 0.823356 GCTGAGGTGGGCTGTTTCAA 60.823 55.000 0.00 0.00 0.00 2.69
208 209 1.228245 GCTGAGGTGGGCTGTTTCA 60.228 57.895 0.00 0.00 0.00 2.69
209 210 0.538287 AAGCTGAGGTGGGCTGTTTC 60.538 55.000 0.00 0.00 38.91 2.78
210 211 0.106015 AAAGCTGAGGTGGGCTGTTT 60.106 50.000 0.00 0.00 38.91 2.83
211 212 0.825010 CAAAGCTGAGGTGGGCTGTT 60.825 55.000 0.00 0.00 38.91 3.16
212 213 1.228367 CAAAGCTGAGGTGGGCTGT 60.228 57.895 0.00 0.00 38.91 4.40
213 214 2.633509 GCAAAGCTGAGGTGGGCTG 61.634 63.158 0.00 0.00 38.91 4.85
214 215 2.282745 GCAAAGCTGAGGTGGGCT 60.283 61.111 0.00 0.00 40.85 5.19
215 216 3.376918 GGCAAAGCTGAGGTGGGC 61.377 66.667 0.00 0.00 0.00 5.36
216 217 1.975407 CAGGCAAAGCTGAGGTGGG 60.975 63.158 0.00 0.00 0.00 4.61
217 218 0.036732 TACAGGCAAAGCTGAGGTGG 59.963 55.000 0.00 0.00 0.00 4.61
218 219 1.896220 TTACAGGCAAAGCTGAGGTG 58.104 50.000 0.00 0.00 0.00 4.00
219 220 2.230660 GTTTACAGGCAAAGCTGAGGT 58.769 47.619 0.00 0.00 0.00 3.85
220 221 2.229792 TGTTTACAGGCAAAGCTGAGG 58.770 47.619 0.00 0.00 0.00 3.86
221 222 3.119708 GGATGTTTACAGGCAAAGCTGAG 60.120 47.826 0.00 0.00 0.00 3.35
222 223 2.819608 GGATGTTTACAGGCAAAGCTGA 59.180 45.455 0.00 0.00 0.00 4.26
223 224 2.821969 AGGATGTTTACAGGCAAAGCTG 59.178 45.455 0.00 0.00 0.00 4.24
224 225 2.821969 CAGGATGTTTACAGGCAAAGCT 59.178 45.455 0.00 0.00 0.00 3.74
225 226 3.221964 CAGGATGTTTACAGGCAAAGC 57.778 47.619 0.00 0.00 0.00 3.51
239 240 1.410004 TACGGAAGCCCTACAGGATG 58.590 55.000 0.00 0.00 46.00 3.51
240 241 1.971357 CATACGGAAGCCCTACAGGAT 59.029 52.381 0.00 0.00 38.24 3.24
241 242 1.342674 ACATACGGAAGCCCTACAGGA 60.343 52.381 0.00 0.00 38.24 3.86
242 243 1.068741 GACATACGGAAGCCCTACAGG 59.931 57.143 0.00 0.00 39.47 4.00
243 244 2.032620 AGACATACGGAAGCCCTACAG 58.967 52.381 0.00 0.00 0.00 2.74
244 245 2.154567 AGACATACGGAAGCCCTACA 57.845 50.000 0.00 0.00 0.00 2.74
245 246 2.030096 GCTAGACATACGGAAGCCCTAC 60.030 54.545 0.00 0.00 0.00 3.18
246 247 2.236766 GCTAGACATACGGAAGCCCTA 58.763 52.381 0.00 0.00 0.00 3.53
247 248 1.041437 GCTAGACATACGGAAGCCCT 58.959 55.000 0.00 0.00 0.00 5.19
248 249 0.033642 GGCTAGACATACGGAAGCCC 59.966 60.000 0.00 0.00 45.69 5.19
249 250 3.590127 GGCTAGACATACGGAAGCC 57.410 57.895 0.00 0.00 45.37 4.35
250 251 2.474816 CAAGGCTAGACATACGGAAGC 58.525 52.381 0.00 0.00 0.00 3.86
251 252 2.474816 GCAAGGCTAGACATACGGAAG 58.525 52.381 0.00 0.00 0.00 3.46
252 253 1.138266 GGCAAGGCTAGACATACGGAA 59.862 52.381 0.00 0.00 0.00 4.30
253 254 0.750850 GGCAAGGCTAGACATACGGA 59.249 55.000 0.00 0.00 0.00 4.69
254 255 0.597637 CGGCAAGGCTAGACATACGG 60.598 60.000 0.00 0.00 0.00 4.02
255 256 1.215655 GCGGCAAGGCTAGACATACG 61.216 60.000 0.00 0.00 0.00 3.06
256 257 1.215655 CGCGGCAAGGCTAGACATAC 61.216 60.000 0.00 0.00 0.00 2.39
257 258 1.067416 CGCGGCAAGGCTAGACATA 59.933 57.895 0.00 0.00 0.00 2.29
258 259 2.202932 CGCGGCAAGGCTAGACAT 60.203 61.111 0.00 0.00 0.00 3.06
259 260 2.725203 AAACGCGGCAAGGCTAGACA 62.725 55.000 12.47 0.00 0.00 3.41
260 261 1.967597 GAAACGCGGCAAGGCTAGAC 61.968 60.000 12.47 0.00 0.00 2.59
261 262 1.740296 GAAACGCGGCAAGGCTAGA 60.740 57.895 12.47 0.00 0.00 2.43
262 263 2.750888 GGAAACGCGGCAAGGCTAG 61.751 63.158 12.47 0.00 0.00 3.42
263 264 1.890625 TAGGAAACGCGGCAAGGCTA 61.891 55.000 12.47 0.00 0.00 3.93
264 265 2.536997 ATAGGAAACGCGGCAAGGCT 62.537 55.000 12.47 0.00 0.00 4.58
265 266 2.048312 GATAGGAAACGCGGCAAGGC 62.048 60.000 12.47 0.00 0.00 4.35
266 267 0.742990 TGATAGGAAACGCGGCAAGG 60.743 55.000 12.47 0.00 0.00 3.61
267 268 1.261619 GATGATAGGAAACGCGGCAAG 59.738 52.381 12.47 0.00 0.00 4.01
370 372 8.484641 ACTTAATTACTTAAACGTAGGGAAGC 57.515 34.615 0.00 0.00 0.00 3.86
431 433 6.480320 GGCTAGCGTAAATATATTCCAGATGG 59.520 42.308 9.00 0.00 0.00 3.51
554 741 3.746492 CAGCCCGTAATATAACCAGCTTC 59.254 47.826 0.00 0.00 0.00 3.86
582 772 3.255642 TGTTACGTGTAGACCCCTGTAAC 59.744 47.826 0.00 10.01 41.05 2.50
659 855 3.185391 CGCTCTTGTGTTTCTCTTCTTCC 59.815 47.826 0.00 0.00 0.00 3.46
695 891 1.381056 AGATCCAGCCAGTCGAGCT 60.381 57.895 0.00 0.00 42.70 4.09
980 1194 3.228017 TCTTGCCGTCGTGGACCA 61.228 61.111 0.00 0.00 42.00 4.02
1019 1233 3.337889 CGGCATCGGTATGGTGCG 61.338 66.667 0.00 0.00 39.69 5.34
1054 1268 0.326238 TAGAAGGGGGTGCGGATCTT 60.326 55.000 0.00 0.00 0.00 2.40
1194 1408 0.319900 TGCTCTCTCGTTCCAGCAAC 60.320 55.000 0.00 0.00 38.93 4.17
1345 1559 2.800516 TGGTTGCGTCAAACACCAT 58.199 47.368 6.27 0.00 36.03 3.55
1440 1660 1.959042 AATCGACAGGGTCATCATGC 58.041 50.000 0.00 0.00 32.09 4.06
1490 1710 3.275999 ACAACGACCAAAAGTAGCTTGT 58.724 40.909 0.00 0.00 0.00 3.16
1591 1811 5.069251 CGATTCCATCTCCTGTTACCTTACT 59.931 44.000 0.00 0.00 0.00 2.24
1668 1888 1.000717 GTTCCGGTTCCAACACCATTG 60.001 52.381 0.00 0.00 36.49 2.82
1687 1907 6.516194 CGGTGAAGAACATAATATACCCGAGT 60.516 42.308 0.00 0.00 30.74 4.18
1748 1968 0.309922 CATCTTGCCGTCATGCATCC 59.690 55.000 0.00 0.00 41.70 3.51
1849 2069 4.637091 TGATCACACTATGCACATGGAAAG 59.363 41.667 0.00 0.00 0.00 2.62
1893 2113 5.577945 CACACAAAGTCTGAAAAGCAATTGT 59.422 36.000 7.40 0.00 0.00 2.71
1894 2114 5.577945 ACACACAAAGTCTGAAAAGCAATTG 59.422 36.000 0.00 0.00 0.00 2.32
1904 2124 4.647853 ACCTGTAGTACACACAAAGTCTGA 59.352 41.667 0.00 0.00 32.33 3.27
1908 2128 4.873827 CACAACCTGTAGTACACACAAAGT 59.126 41.667 0.00 0.00 32.33 2.66
1910 2130 3.623960 GCACAACCTGTAGTACACACAAA 59.376 43.478 0.00 0.00 32.33 2.83
1912 2132 2.432874 AGCACAACCTGTAGTACACACA 59.567 45.455 0.00 0.00 32.33 3.72
1916 2136 2.963101 AGTCAGCACAACCTGTAGTACA 59.037 45.455 2.36 2.36 34.47 2.90
1926 2146 5.399858 TCGATTTAGTCTAGTCAGCACAAC 58.600 41.667 0.00 0.00 0.00 3.32
1927 2147 5.638596 TCGATTTAGTCTAGTCAGCACAA 57.361 39.130 0.00 0.00 0.00 3.33
1929 2149 5.583495 ACATCGATTTAGTCTAGTCAGCAC 58.417 41.667 0.00 0.00 0.00 4.40
1930 2150 5.836821 ACATCGATTTAGTCTAGTCAGCA 57.163 39.130 0.00 0.00 0.00 4.41
1931 2151 6.853872 CAGTACATCGATTTAGTCTAGTCAGC 59.146 42.308 0.00 0.00 0.00 4.26
1932 2152 7.853437 CACAGTACATCGATTTAGTCTAGTCAG 59.147 40.741 0.00 0.00 0.00 3.51
1933 2153 7.336176 ACACAGTACATCGATTTAGTCTAGTCA 59.664 37.037 0.00 0.00 0.00 3.41
1934 2154 7.640630 CACACAGTACATCGATTTAGTCTAGTC 59.359 40.741 0.00 0.00 0.00 2.59
1935 2155 7.473366 CACACAGTACATCGATTTAGTCTAGT 58.527 38.462 0.00 0.00 0.00 2.57
1936 2156 6.415280 GCACACAGTACATCGATTTAGTCTAG 59.585 42.308 0.00 0.00 0.00 2.43
1937 2157 6.127842 TGCACACAGTACATCGATTTAGTCTA 60.128 38.462 0.00 0.00 0.00 2.59
1938 2158 5.103000 GCACACAGTACATCGATTTAGTCT 58.897 41.667 0.00 0.00 0.00 3.24
1939 2159 4.862574 TGCACACAGTACATCGATTTAGTC 59.137 41.667 0.00 0.00 0.00 2.59
1940 2160 4.816392 TGCACACAGTACATCGATTTAGT 58.184 39.130 0.00 0.00 0.00 2.24
1941 2161 5.778161 TTGCACACAGTACATCGATTTAG 57.222 39.130 0.00 0.00 0.00 1.85
1942 2162 6.546972 TTTTGCACACAGTACATCGATTTA 57.453 33.333 0.00 0.00 0.00 1.40
1943 2163 5.431420 TTTTGCACACAGTACATCGATTT 57.569 34.783 0.00 0.00 0.00 2.17
1944 2164 5.431420 TTTTTGCACACAGTACATCGATT 57.569 34.783 0.00 0.00 0.00 3.34
1945 2165 5.627499 ATTTTTGCACACAGTACATCGAT 57.373 34.783 0.00 0.00 0.00 3.59
1981 2287 5.619757 GCAGTCCATCATCATGAACGAAAAA 60.620 40.000 0.00 0.00 30.57 1.94
1986 2292 2.282407 TGCAGTCCATCATCATGAACG 58.718 47.619 0.00 0.00 30.57 3.95
1999 2305 1.339929 ACCAAAACCGAATTGCAGTCC 59.660 47.619 0.00 0.00 0.00 3.85
2000 2306 2.793278 ACCAAAACCGAATTGCAGTC 57.207 45.000 0.00 0.00 0.00 3.51
2050 2356 5.398603 AAAAATATGGTTCGTCATTGGCA 57.601 34.783 0.00 0.00 0.00 4.92
2058 2364 7.990886 TCTGCCTTCTATAAAAATATGGTTCGT 59.009 33.333 0.00 0.00 0.00 3.85
2061 2367 9.700831 ACTTCTGCCTTCTATAAAAATATGGTT 57.299 29.630 0.00 0.00 0.00 3.67
2172 2480 4.281182 AGTGTTAGACCGATTTGTGAGAGT 59.719 41.667 0.00 0.00 0.00 3.24
2471 2781 4.327982 ACAATGCTCATACGCTAGACAT 57.672 40.909 0.00 0.00 0.00 3.06
2531 2841 2.429930 CCCTCGGCCTGTTTCACA 59.570 61.111 0.00 0.00 0.00 3.58
2720 3038 1.948104 CGGATGCTTCGGGACAATAA 58.052 50.000 0.00 0.00 0.00 1.40
2761 3079 2.227626 ACACATCGAGATGATAGCTCCG 59.772 50.000 18.76 0.00 41.20 4.63
2794 3112 4.017958 TCCAATTCCTAAACCTATGCCACA 60.018 41.667 0.00 0.00 0.00 4.17


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

AutoCloner maintained by Alex Coulton.