Multiple sequence alignment - TraesCS6B01G116100

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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 TraesCS6B01G116100 chr6B 100.000 2393 0 0 1 2393 101555682 101553290 0.000000e+00 4420.0
1 TraesCS6B01G116100 chr6A 89.251 1935 128 43 496 2384 54479305 54481205 0.000000e+00 2348.0
2 TraesCS6B01G116100 chrUn 86.659 1799 152 29 249 2004 69888257 69886504 0.000000e+00 1912.0
3 TraesCS6B01G116100 chrUn 96.560 407 10 1 1988 2390 69886488 69886082 0.000000e+00 671.0
4 TraesCS6B01G116100 chr5A 74.030 335 43 33 684 983 608659371 608659046 1.960000e-16 97.1


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 TraesCS6B01G116100 chr6B 101553290 101555682 2392 True 4420.0 4420 100.0000 1 2393 1 chr6B.!!$R1 2392
1 TraesCS6B01G116100 chr6A 54479305 54481205 1900 False 2348.0 2348 89.2510 496 2384 1 chr6A.!!$F1 1888
2 TraesCS6B01G116100 chrUn 69886082 69888257 2175 True 1291.5 1912 91.6095 249 2390 2 chrUn.!!$R1 2141

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
212 213 0.030235 TTCTACGTGGCGATGATCCG 59.97 55.0 0.0 0.0 0.0 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1431 1474 0.809385 TCCTCTTCATCCGTCGTGTC 59.191 55.0 0.0 0.0 0.0 3.67 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 2.592574 ATGTGCGGCGGATGGATG 60.593 61.111 9.78 0.00 0.00 3.51
18 19 3.105686 ATGTGCGGCGGATGGATGA 62.106 57.895 9.78 0.00 0.00 2.92
19 20 2.969238 GTGCGGCGGATGGATGAG 60.969 66.667 9.78 0.00 0.00 2.90
20 21 3.153781 TGCGGCGGATGGATGAGA 61.154 61.111 9.78 0.00 0.00 3.27
21 22 2.356793 GCGGCGGATGGATGAGAG 60.357 66.667 9.78 0.00 0.00 3.20
22 23 2.341543 CGGCGGATGGATGAGAGG 59.658 66.667 0.00 0.00 0.00 3.69
23 24 2.502492 CGGCGGATGGATGAGAGGT 61.502 63.158 0.00 0.00 0.00 3.85
24 25 1.179174 CGGCGGATGGATGAGAGGTA 61.179 60.000 0.00 0.00 0.00 3.08
25 26 1.270907 GGCGGATGGATGAGAGGTAT 58.729 55.000 0.00 0.00 0.00 2.73
26 27 1.066573 GGCGGATGGATGAGAGGTATG 60.067 57.143 0.00 0.00 0.00 2.39
27 28 1.066573 GCGGATGGATGAGAGGTATGG 60.067 57.143 0.00 0.00 0.00 2.74
28 29 2.529632 CGGATGGATGAGAGGTATGGA 58.470 52.381 0.00 0.00 0.00 3.41
29 30 2.232452 CGGATGGATGAGAGGTATGGAC 59.768 54.545 0.00 0.00 0.00 4.02
38 39 2.672295 GGTATGGACCGGTGGCAA 59.328 61.111 14.63 0.00 35.52 4.52
39 40 1.451387 GGTATGGACCGGTGGCAAG 60.451 63.158 14.63 0.00 35.52 4.01
40 41 2.112815 GTATGGACCGGTGGCAAGC 61.113 63.158 14.63 0.00 0.00 4.01
41 42 3.673956 TATGGACCGGTGGCAAGCG 62.674 63.158 14.63 5.50 46.72 4.68
48 49 4.643387 GGTGGCAAGCGGAGTGGT 62.643 66.667 0.00 0.00 0.00 4.16
49 50 3.357079 GTGGCAAGCGGAGTGGTG 61.357 66.667 0.00 0.00 0.00 4.17
50 51 3.555324 TGGCAAGCGGAGTGGTGA 61.555 61.111 0.00 0.00 0.00 4.02
51 52 3.050275 GGCAAGCGGAGTGGTGAC 61.050 66.667 0.00 0.00 0.00 3.67
52 53 2.031163 GCAAGCGGAGTGGTGACT 59.969 61.111 0.00 0.00 33.98 3.41
53 54 2.320587 GCAAGCGGAGTGGTGACTG 61.321 63.158 0.00 0.00 30.16 3.51
54 55 1.367471 CAAGCGGAGTGGTGACTGA 59.633 57.895 0.00 0.00 30.16 3.41
55 56 0.668706 CAAGCGGAGTGGTGACTGAG 60.669 60.000 0.00 0.00 30.16 3.35
56 57 1.115930 AAGCGGAGTGGTGACTGAGT 61.116 55.000 0.00 0.00 30.16 3.41
57 58 1.373497 GCGGAGTGGTGACTGAGTG 60.373 63.158 0.00 0.00 30.16 3.51
58 59 2.041976 CGGAGTGGTGACTGAGTGT 58.958 57.895 0.00 0.00 30.16 3.55
59 60 1.244816 CGGAGTGGTGACTGAGTGTA 58.755 55.000 0.00 0.00 30.16 2.90
60 61 1.200252 CGGAGTGGTGACTGAGTGTAG 59.800 57.143 0.00 0.00 30.16 2.74
61 62 1.067495 GGAGTGGTGACTGAGTGTAGC 60.067 57.143 0.00 0.00 30.16 3.58
62 63 0.598562 AGTGGTGACTGAGTGTAGCG 59.401 55.000 0.00 0.00 0.00 4.26
63 64 0.596577 GTGGTGACTGAGTGTAGCGA 59.403 55.000 0.00 0.00 0.00 4.93
64 65 1.000607 GTGGTGACTGAGTGTAGCGAA 60.001 52.381 0.00 0.00 0.00 4.70
65 66 1.893137 TGGTGACTGAGTGTAGCGAAT 59.107 47.619 0.00 0.00 0.00 3.34
66 67 3.086282 TGGTGACTGAGTGTAGCGAATA 58.914 45.455 0.00 0.00 0.00 1.75
67 68 3.128764 TGGTGACTGAGTGTAGCGAATAG 59.871 47.826 0.00 0.00 0.00 1.73
77 78 3.245084 GCGAATAGCTTAGCGGGC 58.755 61.111 0.00 0.00 44.04 6.13
78 79 2.658707 GCGAATAGCTTAGCGGGCG 61.659 63.158 0.00 3.13 44.04 6.13
79 80 2.022129 CGAATAGCTTAGCGGGCGG 61.022 63.158 0.00 0.00 34.52 6.13
80 81 2.280865 AATAGCTTAGCGGGCGGC 60.281 61.111 9.26 9.26 44.05 6.53
81 82 3.826926 AATAGCTTAGCGGGCGGCC 62.827 63.158 20.04 20.04 45.17 6.13
103 104 3.823330 CGGTAGAGCGGCGGAGTT 61.823 66.667 9.78 0.00 0.00 3.01
104 105 2.202756 GGTAGAGCGGCGGAGTTG 60.203 66.667 9.78 0.00 0.00 3.16
105 106 2.202756 GTAGAGCGGCGGAGTTGG 60.203 66.667 9.78 0.00 0.00 3.77
106 107 4.143333 TAGAGCGGCGGAGTTGGC 62.143 66.667 9.78 0.00 0.00 4.52
112 113 2.435938 GGCGGAGTTGGCGATGAA 60.436 61.111 0.00 0.00 0.00 2.57
113 114 2.464459 GGCGGAGTTGGCGATGAAG 61.464 63.158 0.00 0.00 0.00 3.02
114 115 2.464459 GCGGAGTTGGCGATGAAGG 61.464 63.158 0.00 0.00 0.00 3.46
115 116 1.218047 CGGAGTTGGCGATGAAGGA 59.782 57.895 0.00 0.00 0.00 3.36
116 117 0.391130 CGGAGTTGGCGATGAAGGAA 60.391 55.000 0.00 0.00 0.00 3.36
117 118 1.373570 GGAGTTGGCGATGAAGGAAG 58.626 55.000 0.00 0.00 0.00 3.46
118 119 1.339151 GGAGTTGGCGATGAAGGAAGT 60.339 52.381 0.00 0.00 0.00 3.01
119 120 1.734465 GAGTTGGCGATGAAGGAAGTG 59.266 52.381 0.00 0.00 0.00 3.16
120 121 0.804989 GTTGGCGATGAAGGAAGTGG 59.195 55.000 0.00 0.00 0.00 4.00
121 122 0.690192 TTGGCGATGAAGGAAGTGGA 59.310 50.000 0.00 0.00 0.00 4.02
122 123 0.911769 TGGCGATGAAGGAAGTGGAT 59.088 50.000 0.00 0.00 0.00 3.41
123 124 1.303309 GGCGATGAAGGAAGTGGATG 58.697 55.000 0.00 0.00 0.00 3.51
124 125 0.659957 GCGATGAAGGAAGTGGATGC 59.340 55.000 0.00 0.00 0.00 3.91
125 126 2.013563 GCGATGAAGGAAGTGGATGCA 61.014 52.381 0.00 0.00 0.00 3.96
126 127 1.938577 CGATGAAGGAAGTGGATGCAG 59.061 52.381 0.00 0.00 0.00 4.41
127 128 2.419159 CGATGAAGGAAGTGGATGCAGA 60.419 50.000 0.00 0.00 0.00 4.26
128 129 2.775911 TGAAGGAAGTGGATGCAGAG 57.224 50.000 0.00 0.00 0.00 3.35
129 130 2.259917 TGAAGGAAGTGGATGCAGAGA 58.740 47.619 0.00 0.00 0.00 3.10
130 131 2.639347 TGAAGGAAGTGGATGCAGAGAA 59.361 45.455 0.00 0.00 0.00 2.87
131 132 3.072915 TGAAGGAAGTGGATGCAGAGAAA 59.927 43.478 0.00 0.00 0.00 2.52
132 133 3.347077 AGGAAGTGGATGCAGAGAAAG 57.653 47.619 0.00 0.00 0.00 2.62
133 134 2.909006 AGGAAGTGGATGCAGAGAAAGA 59.091 45.455 0.00 0.00 0.00 2.52
134 135 3.055240 AGGAAGTGGATGCAGAGAAAGAG 60.055 47.826 0.00 0.00 0.00 2.85
135 136 3.269178 GAAGTGGATGCAGAGAAAGAGG 58.731 50.000 0.00 0.00 0.00 3.69
136 137 2.544721 AGTGGATGCAGAGAAAGAGGA 58.455 47.619 0.00 0.00 0.00 3.71
137 138 2.909006 AGTGGATGCAGAGAAAGAGGAA 59.091 45.455 0.00 0.00 0.00 3.36
138 139 3.328931 AGTGGATGCAGAGAAAGAGGAAA 59.671 43.478 0.00 0.00 0.00 3.13
139 140 3.688673 GTGGATGCAGAGAAAGAGGAAAG 59.311 47.826 0.00 0.00 0.00 2.62
140 141 3.584406 TGGATGCAGAGAAAGAGGAAAGA 59.416 43.478 0.00 0.00 0.00 2.52
141 142 4.042062 TGGATGCAGAGAAAGAGGAAAGAA 59.958 41.667 0.00 0.00 0.00 2.52
142 143 5.192176 GGATGCAGAGAAAGAGGAAAGAAT 58.808 41.667 0.00 0.00 0.00 2.40
143 144 5.066246 GGATGCAGAGAAAGAGGAAAGAATG 59.934 44.000 0.00 0.00 0.00 2.67
144 145 4.330250 TGCAGAGAAAGAGGAAAGAATGG 58.670 43.478 0.00 0.00 0.00 3.16
145 146 4.042062 TGCAGAGAAAGAGGAAAGAATGGA 59.958 41.667 0.00 0.00 0.00 3.41
146 147 4.635324 GCAGAGAAAGAGGAAAGAATGGAG 59.365 45.833 0.00 0.00 0.00 3.86
147 148 5.570439 GCAGAGAAAGAGGAAAGAATGGAGA 60.570 44.000 0.00 0.00 0.00 3.71
148 149 6.471146 CAGAGAAAGAGGAAAGAATGGAGAA 58.529 40.000 0.00 0.00 0.00 2.87
149 150 6.594937 CAGAGAAAGAGGAAAGAATGGAGAAG 59.405 42.308 0.00 0.00 0.00 2.85
150 151 5.252547 AGAAAGAGGAAAGAATGGAGAAGC 58.747 41.667 0.00 0.00 0.00 3.86
151 152 3.258971 AGAGGAAAGAATGGAGAAGCG 57.741 47.619 0.00 0.00 0.00 4.68
152 153 2.093235 AGAGGAAAGAATGGAGAAGCGG 60.093 50.000 0.00 0.00 0.00 5.52
153 154 1.065126 AGGAAAGAATGGAGAAGCGGG 60.065 52.381 0.00 0.00 0.00 6.13
154 155 1.383523 GAAAGAATGGAGAAGCGGGG 58.616 55.000 0.00 0.00 0.00 5.73
155 156 0.698818 AAAGAATGGAGAAGCGGGGT 59.301 50.000 0.00 0.00 0.00 4.95
156 157 0.698818 AAGAATGGAGAAGCGGGGTT 59.301 50.000 0.00 0.00 0.00 4.11
157 158 0.698818 AGAATGGAGAAGCGGGGTTT 59.301 50.000 0.00 0.00 0.00 3.27
158 159 1.075536 AGAATGGAGAAGCGGGGTTTT 59.924 47.619 0.00 0.00 0.00 2.43
159 160 1.202348 GAATGGAGAAGCGGGGTTTTG 59.798 52.381 0.00 0.00 0.00 2.44
160 161 0.611896 ATGGAGAAGCGGGGTTTTGG 60.612 55.000 0.00 0.00 0.00 3.28
161 162 1.074248 GGAGAAGCGGGGTTTTGGA 59.926 57.895 0.00 0.00 0.00 3.53
162 163 0.323451 GGAGAAGCGGGGTTTTGGAT 60.323 55.000 0.00 0.00 0.00 3.41
163 164 0.811281 GAGAAGCGGGGTTTTGGATG 59.189 55.000 0.00 0.00 0.00 3.51
164 165 0.404040 AGAAGCGGGGTTTTGGATGA 59.596 50.000 0.00 0.00 0.00 2.92
165 166 0.811281 GAAGCGGGGTTTTGGATGAG 59.189 55.000 0.00 0.00 0.00 2.90
166 167 0.404040 AAGCGGGGTTTTGGATGAGA 59.596 50.000 0.00 0.00 0.00 3.27
167 168 0.625849 AGCGGGGTTTTGGATGAGAT 59.374 50.000 0.00 0.00 0.00 2.75
168 169 1.005924 AGCGGGGTTTTGGATGAGATT 59.994 47.619 0.00 0.00 0.00 2.40
169 170 1.824852 GCGGGGTTTTGGATGAGATTT 59.175 47.619 0.00 0.00 0.00 2.17
170 171 2.233676 GCGGGGTTTTGGATGAGATTTT 59.766 45.455 0.00 0.00 0.00 1.82
171 172 3.445805 GCGGGGTTTTGGATGAGATTTTA 59.554 43.478 0.00 0.00 0.00 1.52
172 173 4.440112 GCGGGGTTTTGGATGAGATTTTAG 60.440 45.833 0.00 0.00 0.00 1.85
173 174 4.097892 CGGGGTTTTGGATGAGATTTTAGG 59.902 45.833 0.00 0.00 0.00 2.69
174 175 5.023452 GGGGTTTTGGATGAGATTTTAGGT 58.977 41.667 0.00 0.00 0.00 3.08
175 176 5.105351 GGGGTTTTGGATGAGATTTTAGGTG 60.105 44.000 0.00 0.00 0.00 4.00
176 177 5.105351 GGGTTTTGGATGAGATTTTAGGTGG 60.105 44.000 0.00 0.00 0.00 4.61
177 178 5.105351 GGTTTTGGATGAGATTTTAGGTGGG 60.105 44.000 0.00 0.00 0.00 4.61
178 179 3.297134 TGGATGAGATTTTAGGTGGGC 57.703 47.619 0.00 0.00 0.00 5.36
179 180 2.222027 GGATGAGATTTTAGGTGGGCG 58.778 52.381 0.00 0.00 0.00 6.13
180 181 2.222027 GATGAGATTTTAGGTGGGCGG 58.778 52.381 0.00 0.00 0.00 6.13
181 182 0.254747 TGAGATTTTAGGTGGGCGGG 59.745 55.000 0.00 0.00 0.00 6.13
182 183 0.465642 GAGATTTTAGGTGGGCGGGG 60.466 60.000 0.00 0.00 0.00 5.73
183 184 1.455032 GATTTTAGGTGGGCGGGGG 60.455 63.158 0.00 0.00 0.00 5.40
198 199 3.950869 GGGGGTGTCAAGGTTCTAC 57.049 57.895 0.00 0.00 0.00 2.59
199 200 0.036671 GGGGGTGTCAAGGTTCTACG 60.037 60.000 0.00 0.00 0.00 3.51
200 201 0.683412 GGGGTGTCAAGGTTCTACGT 59.317 55.000 0.00 0.00 0.00 3.57
201 202 1.607251 GGGGTGTCAAGGTTCTACGTG 60.607 57.143 0.00 0.00 0.00 4.49
202 203 1.607251 GGGTGTCAAGGTTCTACGTGG 60.607 57.143 0.00 0.00 0.00 4.94
203 204 1.145803 GTGTCAAGGTTCTACGTGGC 58.854 55.000 0.00 0.00 0.00 5.01
204 205 0.319211 TGTCAAGGTTCTACGTGGCG 60.319 55.000 0.00 0.00 0.00 5.69
205 206 0.038892 GTCAAGGTTCTACGTGGCGA 60.039 55.000 0.00 0.00 0.00 5.54
206 207 0.892755 TCAAGGTTCTACGTGGCGAT 59.107 50.000 0.00 0.00 0.00 4.58
207 208 0.999406 CAAGGTTCTACGTGGCGATG 59.001 55.000 0.00 0.00 0.00 3.84
208 209 0.892755 AAGGTTCTACGTGGCGATGA 59.107 50.000 0.00 0.00 0.00 2.92
209 210 1.112113 AGGTTCTACGTGGCGATGAT 58.888 50.000 0.00 0.00 0.00 2.45
210 211 1.067212 AGGTTCTACGTGGCGATGATC 59.933 52.381 0.00 0.00 0.00 2.92
211 212 1.488527 GTTCTACGTGGCGATGATCC 58.511 55.000 0.00 0.00 0.00 3.36
212 213 0.030235 TTCTACGTGGCGATGATCCG 59.970 55.000 0.00 0.00 0.00 4.18
213 214 1.371758 CTACGTGGCGATGATCCGG 60.372 63.158 0.00 0.00 0.00 5.14
214 215 1.792118 CTACGTGGCGATGATCCGGA 61.792 60.000 6.61 6.61 0.00 5.14
215 216 2.067091 TACGTGGCGATGATCCGGAC 62.067 60.000 6.12 0.90 0.00 4.79
216 217 2.815308 GTGGCGATGATCCGGACT 59.185 61.111 6.12 0.00 0.00 3.85
217 218 1.300233 GTGGCGATGATCCGGACTC 60.300 63.158 6.12 6.62 0.00 3.36
218 219 2.340443 GGCGATGATCCGGACTCC 59.660 66.667 6.12 0.00 0.00 3.85
219 220 2.340443 GCGATGATCCGGACTCCC 59.660 66.667 6.12 0.00 0.00 4.30
246 247 2.285368 CCTGCCACCCACCTCCTA 60.285 66.667 0.00 0.00 0.00 2.94
247 248 2.370445 CCTGCCACCCACCTCCTAG 61.370 68.421 0.00 0.00 0.00 3.02
257 258 2.224769 CCCACCTCCTAGTTTGCTTTCA 60.225 50.000 0.00 0.00 0.00 2.69
258 259 3.562176 CCCACCTCCTAGTTTGCTTTCAT 60.562 47.826 0.00 0.00 0.00 2.57
265 266 4.277174 TCCTAGTTTGCTTTCATTTTGCGA 59.723 37.500 0.00 0.00 0.00 5.10
271 272 5.388225 TTGCTTTCATTTTGCGAGAAAAC 57.612 34.783 0.00 0.00 31.59 2.43
275 276 6.036953 TGCTTTCATTTTGCGAGAAAACAAAT 59.963 30.769 0.00 0.00 35.81 2.32
284 285 3.668757 GCGAGAAAACAAATAACCGGACC 60.669 47.826 9.46 0.00 0.00 4.46
326 327 6.538742 CGGGATAGTGTTAGATGACAAATTGT 59.461 38.462 0.00 0.00 0.00 2.71
332 333 8.498054 AGTGTTAGATGACAAATTGTATCTGG 57.502 34.615 19.06 0.00 32.54 3.86
338 339 8.768957 AGATGACAAATTGTATCTGGATATCG 57.231 34.615 13.39 0.00 0.00 2.92
370 371 2.883386 GGATGCAGATGATTTGAGGGTC 59.117 50.000 0.00 0.00 0.00 4.46
371 372 2.425143 TGCAGATGATTTGAGGGTCC 57.575 50.000 0.00 0.00 0.00 4.46
372 373 1.634973 TGCAGATGATTTGAGGGTCCA 59.365 47.619 0.00 0.00 0.00 4.02
373 374 2.242965 TGCAGATGATTTGAGGGTCCAT 59.757 45.455 0.00 0.00 0.00 3.41
375 376 4.079844 TGCAGATGATTTGAGGGTCCATTA 60.080 41.667 0.00 0.00 0.00 1.90
378 379 5.475909 CAGATGATTTGAGGGTCCATTATGG 59.524 44.000 4.57 4.57 39.43 2.74
379 380 5.373555 AGATGATTTGAGGGTCCATTATGGA 59.626 40.000 10.29 10.29 45.98 3.41
393 394 2.768253 TATGGAGATGCCCTAATGCG 57.232 50.000 0.00 0.00 34.97 4.73
394 395 1.059098 ATGGAGATGCCCTAATGCGA 58.941 50.000 0.00 0.00 34.97 5.10
399 400 4.849310 TGCCCTAATGCGACGCCC 62.849 66.667 18.69 0.00 0.00 6.13
400 401 4.547367 GCCCTAATGCGACGCCCT 62.547 66.667 18.69 6.69 0.00 5.19
402 403 1.444250 CCCTAATGCGACGCCCTAA 59.556 57.895 18.69 0.00 0.00 2.69
431 432 1.475403 CTCTCATACGTGGGTCCAGT 58.525 55.000 0.00 0.00 0.00 4.00
436 437 2.569853 TCATACGTGGGTCCAGTTCAAT 59.430 45.455 0.00 0.00 0.00 2.57
437 438 3.770388 TCATACGTGGGTCCAGTTCAATA 59.230 43.478 0.00 0.00 0.00 1.90
438 439 4.407621 TCATACGTGGGTCCAGTTCAATAT 59.592 41.667 0.00 0.00 0.00 1.28
439 440 5.599242 TCATACGTGGGTCCAGTTCAATATA 59.401 40.000 0.00 0.00 0.00 0.86
443 444 2.441750 TGGGTCCAGTTCAATATAGGGC 59.558 50.000 0.00 0.00 0.00 5.19
446 447 4.327680 GGTCCAGTTCAATATAGGGCATC 58.672 47.826 0.00 0.00 0.00 3.91
447 448 4.202461 GGTCCAGTTCAATATAGGGCATCA 60.202 45.833 0.00 0.00 0.00 3.07
451 452 6.005823 CCAGTTCAATATAGGGCATCAATCA 58.994 40.000 0.00 0.00 0.00 2.57
455 456 6.558771 TCAATATAGGGCATCAATCAAACG 57.441 37.500 0.00 0.00 0.00 3.60
467 468 5.193663 TCAATCAAACGGAATTGCTTTCA 57.806 34.783 0.00 0.00 35.94 2.69
468 469 5.595885 TCAATCAAACGGAATTGCTTTCAA 58.404 33.333 0.00 0.00 35.94 2.69
469 470 5.461737 TCAATCAAACGGAATTGCTTTCAAC 59.538 36.000 0.00 0.00 35.94 3.18
470 471 4.377839 TCAAACGGAATTGCTTTCAACA 57.622 36.364 0.00 0.00 35.94 3.33
471 472 4.748892 TCAAACGGAATTGCTTTCAACAA 58.251 34.783 0.00 0.00 35.94 2.83
472 473 4.803088 TCAAACGGAATTGCTTTCAACAAG 59.197 37.500 0.00 0.00 35.94 3.16
473 474 4.647424 AACGGAATTGCTTTCAACAAGA 57.353 36.364 0.00 0.00 35.94 3.02
474 475 3.964909 ACGGAATTGCTTTCAACAAGAC 58.035 40.909 0.00 0.00 35.94 3.01
475 476 3.243401 ACGGAATTGCTTTCAACAAGACC 60.243 43.478 0.00 0.00 35.94 3.85
476 477 3.243367 CGGAATTGCTTTCAACAAGACCA 60.243 43.478 0.00 0.00 35.94 4.02
477 478 4.559300 CGGAATTGCTTTCAACAAGACCAT 60.559 41.667 0.00 0.00 35.94 3.55
478 479 5.335583 CGGAATTGCTTTCAACAAGACCATA 60.336 40.000 0.00 0.00 35.94 2.74
479 480 6.625740 CGGAATTGCTTTCAACAAGACCATAT 60.626 38.462 0.00 0.00 35.94 1.78
480 481 7.415095 CGGAATTGCTTTCAACAAGACCATATA 60.415 37.037 0.00 0.00 35.94 0.86
481 482 7.702348 GGAATTGCTTTCAACAAGACCATATAC 59.298 37.037 0.00 0.00 35.94 1.47
482 483 7.701539 ATTGCTTTCAACAAGACCATATACA 57.298 32.000 0.00 0.00 34.60 2.29
483 484 7.701539 TTGCTTTCAACAAGACCATATACAT 57.298 32.000 0.00 0.00 0.00 2.29
484 485 7.701539 TGCTTTCAACAAGACCATATACATT 57.298 32.000 0.00 0.00 0.00 2.71
485 486 7.761409 TGCTTTCAACAAGACCATATACATTC 58.239 34.615 0.00 0.00 0.00 2.67
486 487 7.148086 TGCTTTCAACAAGACCATATACATTCC 60.148 37.037 0.00 0.00 0.00 3.01
487 488 7.639113 TTTCAACAAGACCATATACATTCCC 57.361 36.000 0.00 0.00 0.00 3.97
488 489 6.575244 TCAACAAGACCATATACATTCCCT 57.425 37.500 0.00 0.00 0.00 4.20
489 490 7.684317 TCAACAAGACCATATACATTCCCTA 57.316 36.000 0.00 0.00 0.00 3.53
490 491 8.096621 TCAACAAGACCATATACATTCCCTAA 57.903 34.615 0.00 0.00 0.00 2.69
491 492 8.553153 TCAACAAGACCATATACATTCCCTAAA 58.447 33.333 0.00 0.00 0.00 1.85
492 493 9.184523 CAACAAGACCATATACATTCCCTAAAA 57.815 33.333 0.00 0.00 0.00 1.52
493 494 9.762381 AACAAGACCATATACATTCCCTAAAAA 57.238 29.630 0.00 0.00 0.00 1.94
530 531 1.004745 TCCAGGCCCATTCTCTTTGTC 59.995 52.381 0.00 0.00 0.00 3.18
536 540 2.029918 GCCCATTCTCTTTGTCAACCAC 60.030 50.000 0.00 0.00 0.00 4.16
555 588 1.004745 ACTTAATGGGTCCAGGCAGTG 59.995 52.381 0.00 0.00 0.00 3.66
556 589 1.281867 CTTAATGGGTCCAGGCAGTGA 59.718 52.381 0.00 0.00 0.00 3.41
579 613 0.603172 GCATGTGCATTTTGTGGGCA 60.603 50.000 0.00 0.00 41.59 5.36
595 629 1.638467 GCACTTCAGCTAATCGCCG 59.362 57.895 0.00 0.00 40.39 6.46
606 640 3.555956 AGCTAATCGCCGTTGACTAATTG 59.444 43.478 0.00 0.00 40.39 2.32
607 641 2.825086 AATCGCCGTTGACTAATTGC 57.175 45.000 0.00 0.00 0.00 3.56
608 642 1.014352 ATCGCCGTTGACTAATTGCC 58.986 50.000 0.00 0.00 0.00 4.52
609 643 0.320858 TCGCCGTTGACTAATTGCCA 60.321 50.000 0.00 0.00 0.00 4.92
610 644 0.096976 CGCCGTTGACTAATTGCCAG 59.903 55.000 0.00 0.00 0.00 4.85
611 645 0.179163 GCCGTTGACTAATTGCCAGC 60.179 55.000 0.00 0.00 0.00 4.85
612 646 1.164411 CCGTTGACTAATTGCCAGCA 58.836 50.000 0.00 0.00 0.00 4.41
613 647 1.131126 CCGTTGACTAATTGCCAGCAG 59.869 52.381 0.00 0.00 0.00 4.24
614 648 2.076100 CGTTGACTAATTGCCAGCAGA 58.924 47.619 0.00 0.00 0.00 4.26
615 649 2.094894 CGTTGACTAATTGCCAGCAGAG 59.905 50.000 0.00 0.00 0.00 3.35
616 650 1.742761 TGACTAATTGCCAGCAGAGC 58.257 50.000 0.00 0.00 0.00 4.09
617 651 1.020437 GACTAATTGCCAGCAGAGCC 58.980 55.000 0.00 0.00 0.00 4.70
618 652 0.745845 ACTAATTGCCAGCAGAGCCG 60.746 55.000 0.00 0.00 0.00 5.52
619 653 2.056481 CTAATTGCCAGCAGAGCCGC 62.056 60.000 0.00 0.00 0.00 6.53
641 675 2.809601 AGACGAACGCATCCACGC 60.810 61.111 0.00 0.00 36.19 5.34
760 794 2.281208 TTTTGGTGGCTCGGACCG 60.281 61.111 7.84 7.84 36.12 4.79
834 868 0.179048 CGGCACCCATGAATAGAGCA 60.179 55.000 0.00 0.00 0.00 4.26
845 879 1.949847 AATAGAGCACGTCAGCGGCT 61.950 55.000 0.00 0.00 43.53 5.52
915 949 4.901197 AAGGGAGAAAGAAGAGAAGACC 57.099 45.455 0.00 0.00 0.00 3.85
921 955 5.471797 GGAGAAAGAAGAGAAGACCCTTTTG 59.528 44.000 0.00 0.00 0.00 2.44
922 956 4.824537 AGAAAGAAGAGAAGACCCTTTTGC 59.175 41.667 0.00 0.00 0.00 3.68
923 957 2.772287 AGAAGAGAAGACCCTTTTGCG 58.228 47.619 0.00 0.00 0.00 4.85
924 958 1.197949 GAAGAGAAGACCCTTTTGCGC 59.802 52.381 0.00 0.00 0.00 6.09
925 959 0.108585 AGAGAAGACCCTTTTGCGCA 59.891 50.000 5.66 5.66 0.00 6.09
926 960 0.519077 GAGAAGACCCTTTTGCGCAG 59.481 55.000 11.31 0.00 0.00 5.18
927 961 0.179018 AGAAGACCCTTTTGCGCAGT 60.179 50.000 11.31 4.14 0.00 4.40
928 962 0.668535 GAAGACCCTTTTGCGCAGTT 59.331 50.000 11.31 0.00 0.00 3.16
929 963 0.385390 AAGACCCTTTTGCGCAGTTG 59.615 50.000 11.31 4.31 0.00 3.16
938 972 4.250431 GCGCAGTTGCACCGTTGT 62.250 61.111 0.30 0.00 42.21 3.32
982 1025 0.951040 CTTGTGCTCGTCCCACCTTC 60.951 60.000 0.00 0.00 32.30 3.46
986 1029 3.744719 CTCGTCCCACCTTCGCGA 61.745 66.667 3.71 3.71 0.00 5.87
997 1040 1.209275 CCTTCGCGACAGCTAATCGG 61.209 60.000 9.15 10.31 42.32 4.18
1143 1186 1.065928 GATCCGTCCGTCATTCGCT 59.934 57.895 0.00 0.00 38.35 4.93
1240 1283 1.448119 CGTCCCGCTAGAGCTGATGA 61.448 60.000 0.00 0.00 39.32 2.92
1241 1284 0.313672 GTCCCGCTAGAGCTGATGAG 59.686 60.000 0.00 0.00 39.32 2.90
1244 1287 0.597118 CCGCTAGAGCTGATGAGTGC 60.597 60.000 0.00 0.00 39.32 4.40
1297 1340 3.443045 GCGGCAACAGGACCCATG 61.443 66.667 0.00 0.00 0.00 3.66
1401 1444 2.641305 GCTTCCTCTTGATCAGCACAT 58.359 47.619 0.00 0.00 0.00 3.21
1402 1445 2.613133 GCTTCCTCTTGATCAGCACATC 59.387 50.000 0.00 0.00 0.00 3.06
1403 1446 3.682155 GCTTCCTCTTGATCAGCACATCT 60.682 47.826 0.00 0.00 0.00 2.90
1404 1447 3.538634 TCCTCTTGATCAGCACATCTG 57.461 47.619 0.00 0.00 44.21 2.90
1421 1464 1.302752 TGAGGTCAGGTGCATGCAC 60.303 57.895 37.29 37.29 45.49 4.57
1431 1474 0.179156 GTGCATGCACTTTCGGGATG 60.179 55.000 37.48 0.00 43.12 3.51
1448 1491 2.455032 GATGACACGACGGATGAAGAG 58.545 52.381 0.00 0.00 0.00 2.85
1472 1515 8.622948 AGGAACAAGAAAATCGAGATTAGTTT 57.377 30.769 0.00 0.00 0.00 2.66
1591 1636 1.421410 CTGAATTTCGCCGGGAGTCG 61.421 60.000 2.18 0.00 38.88 4.18
1671 1740 4.096732 AGACATAAATTGGCGTTGAAGC 57.903 40.909 0.00 0.00 38.94 3.86
1814 1894 6.917533 AGATGATGTTCCACAAAGATGAAAC 58.082 36.000 0.00 0.00 0.00 2.78
1819 1899 4.142049 TGTTCCACAAAGATGAAACCAACC 60.142 41.667 0.00 0.00 0.00 3.77
1894 2002 6.768381 TGCGATGAATATTTACCAACCATACA 59.232 34.615 0.00 0.00 0.00 2.29
1906 2014 4.830600 ACCAACCATACAAACTAAACCCAG 59.169 41.667 0.00 0.00 0.00 4.45
1910 2018 4.086457 CCATACAAACTAAACCCAGGCTT 58.914 43.478 0.00 0.00 0.00 4.35
1975 2083 6.215121 ACTCGATGATGATGCTTAAGAGAAG 58.785 40.000 6.67 0.00 0.00 2.85
1980 2088 5.423015 TGATGATGCTTAAGAGAAGTGACC 58.577 41.667 6.67 0.00 0.00 4.02
2117 2257 7.565789 GCAAAAGAAGTAAAAATGAAGTGCTCG 60.566 37.037 0.00 0.00 0.00 5.03
2131 2271 7.015226 TGAAGTGCTCGGAAAACAATATATG 57.985 36.000 0.00 0.00 0.00 1.78
2385 2529 9.819267 GGGTCCTAATATGCATATAGAAAGTAC 57.181 37.037 19.39 11.09 0.00 2.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.592574 CATCCATCCGCCGCACAT 60.593 61.111 0.00 0.00 0.00 3.21
1 2 3.738429 CTCATCCATCCGCCGCACA 62.738 63.158 0.00 0.00 0.00 4.57
2 3 2.969238 CTCATCCATCCGCCGCAC 60.969 66.667 0.00 0.00 0.00 5.34
3 4 3.153781 TCTCATCCATCCGCCGCA 61.154 61.111 0.00 0.00 0.00 5.69
4 5 2.356793 CTCTCATCCATCCGCCGC 60.357 66.667 0.00 0.00 0.00 6.53
5 6 1.179174 TACCTCTCATCCATCCGCCG 61.179 60.000 0.00 0.00 0.00 6.46
6 7 1.066573 CATACCTCTCATCCATCCGCC 60.067 57.143 0.00 0.00 0.00 6.13
7 8 1.066573 CCATACCTCTCATCCATCCGC 60.067 57.143 0.00 0.00 0.00 5.54
8 9 2.232452 GTCCATACCTCTCATCCATCCG 59.768 54.545 0.00 0.00 0.00 4.18
9 10 2.569404 GGTCCATACCTCTCATCCATCC 59.431 54.545 0.00 0.00 43.08 3.51
10 11 2.232452 CGGTCCATACCTCTCATCCATC 59.768 54.545 0.00 0.00 44.35 3.51
11 12 2.251818 CGGTCCATACCTCTCATCCAT 58.748 52.381 0.00 0.00 44.35 3.41
12 13 1.704641 CGGTCCATACCTCTCATCCA 58.295 55.000 0.00 0.00 44.35 3.41
13 14 0.969894 CCGGTCCATACCTCTCATCC 59.030 60.000 0.00 0.00 44.35 3.51
14 15 1.341531 CACCGGTCCATACCTCTCATC 59.658 57.143 2.59 0.00 44.35 2.92
15 16 1.414158 CACCGGTCCATACCTCTCAT 58.586 55.000 2.59 0.00 44.35 2.90
16 17 0.686441 CCACCGGTCCATACCTCTCA 60.686 60.000 2.59 0.00 44.35 3.27
17 18 2.029307 GCCACCGGTCCATACCTCTC 62.029 65.000 2.59 0.00 44.35 3.20
18 19 2.064581 GCCACCGGTCCATACCTCT 61.065 63.158 2.59 0.00 44.35 3.69
19 20 1.906105 TTGCCACCGGTCCATACCTC 61.906 60.000 2.59 0.00 44.35 3.85
20 21 1.910580 CTTGCCACCGGTCCATACCT 61.911 60.000 2.59 0.00 44.35 3.08
21 22 1.451387 CTTGCCACCGGTCCATACC 60.451 63.158 2.59 0.00 42.95 2.73
22 23 2.112815 GCTTGCCACCGGTCCATAC 61.113 63.158 2.59 0.00 0.00 2.39
23 24 2.270850 GCTTGCCACCGGTCCATA 59.729 61.111 2.59 0.00 0.00 2.74
31 32 4.643387 ACCACTCCGCTTGCCACC 62.643 66.667 0.00 0.00 0.00 4.61
32 33 3.357079 CACCACTCCGCTTGCCAC 61.357 66.667 0.00 0.00 0.00 5.01
33 34 3.555324 TCACCACTCCGCTTGCCA 61.555 61.111 0.00 0.00 0.00 4.92
34 35 3.050275 GTCACCACTCCGCTTGCC 61.050 66.667 0.00 0.00 0.00 4.52
35 36 2.031163 AGTCACCACTCCGCTTGC 59.969 61.111 0.00 0.00 0.00 4.01
36 37 0.668706 CTCAGTCACCACTCCGCTTG 60.669 60.000 0.00 0.00 0.00 4.01
37 38 1.115930 ACTCAGTCACCACTCCGCTT 61.116 55.000 0.00 0.00 0.00 4.68
38 39 1.531840 ACTCAGTCACCACTCCGCT 60.532 57.895 0.00 0.00 0.00 5.52
39 40 1.373497 CACTCAGTCACCACTCCGC 60.373 63.158 0.00 0.00 0.00 5.54
40 41 1.200252 CTACACTCAGTCACCACTCCG 59.800 57.143 0.00 0.00 0.00 4.63
41 42 1.067495 GCTACACTCAGTCACCACTCC 60.067 57.143 0.00 0.00 0.00 3.85
42 43 1.401670 CGCTACACTCAGTCACCACTC 60.402 57.143 0.00 0.00 0.00 3.51
43 44 0.598562 CGCTACACTCAGTCACCACT 59.401 55.000 0.00 0.00 0.00 4.00
44 45 0.596577 TCGCTACACTCAGTCACCAC 59.403 55.000 0.00 0.00 0.00 4.16
45 46 1.324383 TTCGCTACACTCAGTCACCA 58.676 50.000 0.00 0.00 0.00 4.17
46 47 2.656560 ATTCGCTACACTCAGTCACC 57.343 50.000 0.00 0.00 0.00 4.02
47 48 3.109619 GCTATTCGCTACACTCAGTCAC 58.890 50.000 0.00 0.00 35.14 3.67
48 49 3.422417 GCTATTCGCTACACTCAGTCA 57.578 47.619 0.00 0.00 35.14 3.41
60 61 2.658707 CGCCCGCTAAGCTATTCGC 61.659 63.158 0.00 0.00 39.57 4.70
61 62 2.022129 CCGCCCGCTAAGCTATTCG 61.022 63.158 0.00 0.00 0.00 3.34
62 63 2.318352 GCCGCCCGCTAAGCTATTC 61.318 63.158 0.00 0.00 0.00 1.75
63 64 2.280865 GCCGCCCGCTAAGCTATT 60.281 61.111 0.00 0.00 0.00 1.73
64 65 4.315941 GGCCGCCCGCTAAGCTAT 62.316 66.667 0.00 0.00 37.74 2.97
86 87 3.823330 AACTCCGCCGCTCTACCG 61.823 66.667 0.00 0.00 0.00 4.02
87 88 2.202756 CAACTCCGCCGCTCTACC 60.203 66.667 0.00 0.00 0.00 3.18
88 89 2.202756 CCAACTCCGCCGCTCTAC 60.203 66.667 0.00 0.00 0.00 2.59
89 90 4.143333 GCCAACTCCGCCGCTCTA 62.143 66.667 0.00 0.00 0.00 2.43
94 95 4.812476 TCATCGCCAACTCCGCCG 62.812 66.667 0.00 0.00 0.00 6.46
95 96 2.435938 TTCATCGCCAACTCCGCC 60.436 61.111 0.00 0.00 0.00 6.13
96 97 2.464459 CCTTCATCGCCAACTCCGC 61.464 63.158 0.00 0.00 0.00 5.54
97 98 0.391130 TTCCTTCATCGCCAACTCCG 60.391 55.000 0.00 0.00 0.00 4.63
98 99 1.339151 ACTTCCTTCATCGCCAACTCC 60.339 52.381 0.00 0.00 0.00 3.85
99 100 1.734465 CACTTCCTTCATCGCCAACTC 59.266 52.381 0.00 0.00 0.00 3.01
100 101 1.611673 CCACTTCCTTCATCGCCAACT 60.612 52.381 0.00 0.00 0.00 3.16
101 102 0.804989 CCACTTCCTTCATCGCCAAC 59.195 55.000 0.00 0.00 0.00 3.77
102 103 0.690192 TCCACTTCCTTCATCGCCAA 59.310 50.000 0.00 0.00 0.00 4.52
103 104 0.911769 ATCCACTTCCTTCATCGCCA 59.088 50.000 0.00 0.00 0.00 5.69
104 105 1.303309 CATCCACTTCCTTCATCGCC 58.697 55.000 0.00 0.00 0.00 5.54
105 106 0.659957 GCATCCACTTCCTTCATCGC 59.340 55.000 0.00 0.00 0.00 4.58
106 107 1.938577 CTGCATCCACTTCCTTCATCG 59.061 52.381 0.00 0.00 0.00 3.84
107 108 3.118482 TCTCTGCATCCACTTCCTTCATC 60.118 47.826 0.00 0.00 0.00 2.92
108 109 2.842496 TCTCTGCATCCACTTCCTTCAT 59.158 45.455 0.00 0.00 0.00 2.57
109 110 2.259917 TCTCTGCATCCACTTCCTTCA 58.740 47.619 0.00 0.00 0.00 3.02
110 111 3.340814 TTCTCTGCATCCACTTCCTTC 57.659 47.619 0.00 0.00 0.00 3.46
111 112 3.328931 TCTTTCTCTGCATCCACTTCCTT 59.671 43.478 0.00 0.00 0.00 3.36
112 113 2.909006 TCTTTCTCTGCATCCACTTCCT 59.091 45.455 0.00 0.00 0.00 3.36
113 114 3.269178 CTCTTTCTCTGCATCCACTTCC 58.731 50.000 0.00 0.00 0.00 3.46
114 115 3.055530 TCCTCTTTCTCTGCATCCACTTC 60.056 47.826 0.00 0.00 0.00 3.01
115 116 2.909006 TCCTCTTTCTCTGCATCCACTT 59.091 45.455 0.00 0.00 0.00 3.16
116 117 2.544721 TCCTCTTTCTCTGCATCCACT 58.455 47.619 0.00 0.00 0.00 4.00
117 118 3.340814 TTCCTCTTTCTCTGCATCCAC 57.659 47.619 0.00 0.00 0.00 4.02
118 119 3.584406 TCTTTCCTCTTTCTCTGCATCCA 59.416 43.478 0.00 0.00 0.00 3.41
119 120 4.213564 TCTTTCCTCTTTCTCTGCATCC 57.786 45.455 0.00 0.00 0.00 3.51
120 121 5.066246 CCATTCTTTCCTCTTTCTCTGCATC 59.934 44.000 0.00 0.00 0.00 3.91
121 122 4.948621 CCATTCTTTCCTCTTTCTCTGCAT 59.051 41.667 0.00 0.00 0.00 3.96
122 123 4.042062 TCCATTCTTTCCTCTTTCTCTGCA 59.958 41.667 0.00 0.00 0.00 4.41
123 124 4.583871 TCCATTCTTTCCTCTTTCTCTGC 58.416 43.478 0.00 0.00 0.00 4.26
124 125 6.047511 TCTCCATTCTTTCCTCTTTCTCTG 57.952 41.667 0.00 0.00 0.00 3.35
125 126 6.694445 TTCTCCATTCTTTCCTCTTTCTCT 57.306 37.500 0.00 0.00 0.00 3.10
126 127 5.353956 GCTTCTCCATTCTTTCCTCTTTCTC 59.646 44.000 0.00 0.00 0.00 2.87
127 128 5.252547 GCTTCTCCATTCTTTCCTCTTTCT 58.747 41.667 0.00 0.00 0.00 2.52
128 129 4.094146 CGCTTCTCCATTCTTTCCTCTTTC 59.906 45.833 0.00 0.00 0.00 2.62
129 130 4.006319 CGCTTCTCCATTCTTTCCTCTTT 58.994 43.478 0.00 0.00 0.00 2.52
130 131 3.604582 CGCTTCTCCATTCTTTCCTCTT 58.395 45.455 0.00 0.00 0.00 2.85
131 132 2.093235 CCGCTTCTCCATTCTTTCCTCT 60.093 50.000 0.00 0.00 0.00 3.69
132 133 2.284190 CCGCTTCTCCATTCTTTCCTC 58.716 52.381 0.00 0.00 0.00 3.71
133 134 1.065126 CCCGCTTCTCCATTCTTTCCT 60.065 52.381 0.00 0.00 0.00 3.36
134 135 1.383523 CCCGCTTCTCCATTCTTTCC 58.616 55.000 0.00 0.00 0.00 3.13
135 136 1.340114 ACCCCGCTTCTCCATTCTTTC 60.340 52.381 0.00 0.00 0.00 2.62
136 137 0.698818 ACCCCGCTTCTCCATTCTTT 59.301 50.000 0.00 0.00 0.00 2.52
137 138 0.698818 AACCCCGCTTCTCCATTCTT 59.301 50.000 0.00 0.00 0.00 2.52
138 139 0.698818 AAACCCCGCTTCTCCATTCT 59.301 50.000 0.00 0.00 0.00 2.40
139 140 1.202348 CAAAACCCCGCTTCTCCATTC 59.798 52.381 0.00 0.00 0.00 2.67
140 141 1.256812 CAAAACCCCGCTTCTCCATT 58.743 50.000 0.00 0.00 0.00 3.16
141 142 0.611896 CCAAAACCCCGCTTCTCCAT 60.612 55.000 0.00 0.00 0.00 3.41
142 143 1.228429 CCAAAACCCCGCTTCTCCA 60.228 57.895 0.00 0.00 0.00 3.86
143 144 0.323451 ATCCAAAACCCCGCTTCTCC 60.323 55.000 0.00 0.00 0.00 3.71
144 145 0.811281 CATCCAAAACCCCGCTTCTC 59.189 55.000 0.00 0.00 0.00 2.87
145 146 0.404040 TCATCCAAAACCCCGCTTCT 59.596 50.000 0.00 0.00 0.00 2.85
146 147 0.811281 CTCATCCAAAACCCCGCTTC 59.189 55.000 0.00 0.00 0.00 3.86
147 148 0.404040 TCTCATCCAAAACCCCGCTT 59.596 50.000 0.00 0.00 0.00 4.68
148 149 0.625849 ATCTCATCCAAAACCCCGCT 59.374 50.000 0.00 0.00 0.00 5.52
149 150 1.474330 AATCTCATCCAAAACCCCGC 58.526 50.000 0.00 0.00 0.00 6.13
150 151 4.097892 CCTAAAATCTCATCCAAAACCCCG 59.902 45.833 0.00 0.00 0.00 5.73
151 152 5.023452 ACCTAAAATCTCATCCAAAACCCC 58.977 41.667 0.00 0.00 0.00 4.95
152 153 5.105351 CCACCTAAAATCTCATCCAAAACCC 60.105 44.000 0.00 0.00 0.00 4.11
153 154 5.105351 CCCACCTAAAATCTCATCCAAAACC 60.105 44.000 0.00 0.00 0.00 3.27
154 155 5.624509 GCCCACCTAAAATCTCATCCAAAAC 60.625 44.000 0.00 0.00 0.00 2.43
155 156 4.466015 GCCCACCTAAAATCTCATCCAAAA 59.534 41.667 0.00 0.00 0.00 2.44
156 157 4.023291 GCCCACCTAAAATCTCATCCAAA 58.977 43.478 0.00 0.00 0.00 3.28
157 158 3.631250 GCCCACCTAAAATCTCATCCAA 58.369 45.455 0.00 0.00 0.00 3.53
158 159 2.421388 CGCCCACCTAAAATCTCATCCA 60.421 50.000 0.00 0.00 0.00 3.41
159 160 2.222027 CGCCCACCTAAAATCTCATCC 58.778 52.381 0.00 0.00 0.00 3.51
160 161 2.222027 CCGCCCACCTAAAATCTCATC 58.778 52.381 0.00 0.00 0.00 2.92
161 162 1.133792 CCCGCCCACCTAAAATCTCAT 60.134 52.381 0.00 0.00 0.00 2.90
162 163 0.254747 CCCGCCCACCTAAAATCTCA 59.745 55.000 0.00 0.00 0.00 3.27
163 164 0.465642 CCCCGCCCACCTAAAATCTC 60.466 60.000 0.00 0.00 0.00 2.75
164 165 1.613061 CCCCGCCCACCTAAAATCT 59.387 57.895 0.00 0.00 0.00 2.40
165 166 1.455032 CCCCCGCCCACCTAAAATC 60.455 63.158 0.00 0.00 0.00 2.17
166 167 2.687266 CCCCCGCCCACCTAAAAT 59.313 61.111 0.00 0.00 0.00 1.82
180 181 0.036671 CGTAGAACCTTGACACCCCC 60.037 60.000 0.00 0.00 0.00 5.40
181 182 0.683412 ACGTAGAACCTTGACACCCC 59.317 55.000 0.00 0.00 0.00 4.95
182 183 1.607251 CCACGTAGAACCTTGACACCC 60.607 57.143 0.00 0.00 0.00 4.61
183 184 1.792006 CCACGTAGAACCTTGACACC 58.208 55.000 0.00 0.00 0.00 4.16
184 185 1.145803 GCCACGTAGAACCTTGACAC 58.854 55.000 0.00 0.00 0.00 3.67
185 186 0.319211 CGCCACGTAGAACCTTGACA 60.319 55.000 0.00 0.00 0.00 3.58
186 187 0.038892 TCGCCACGTAGAACCTTGAC 60.039 55.000 0.00 0.00 0.00 3.18
187 188 0.892755 ATCGCCACGTAGAACCTTGA 59.107 50.000 0.00 0.00 0.00 3.02
188 189 0.999406 CATCGCCACGTAGAACCTTG 59.001 55.000 0.00 0.00 0.00 3.61
189 190 0.892755 TCATCGCCACGTAGAACCTT 59.107 50.000 0.00 0.00 0.00 3.50
190 191 1.067212 GATCATCGCCACGTAGAACCT 59.933 52.381 0.00 0.00 0.00 3.50
191 192 1.488527 GATCATCGCCACGTAGAACC 58.511 55.000 0.00 0.00 0.00 3.62
192 193 1.488527 GGATCATCGCCACGTAGAAC 58.511 55.000 0.00 0.00 0.00 3.01
193 194 0.030235 CGGATCATCGCCACGTAGAA 59.970 55.000 0.00 0.00 0.00 2.10
194 195 1.652563 CGGATCATCGCCACGTAGA 59.347 57.895 0.00 0.00 0.00 2.59
195 196 1.371758 CCGGATCATCGCCACGTAG 60.372 63.158 0.00 0.00 0.00 3.51
196 197 1.824760 TCCGGATCATCGCCACGTA 60.825 57.895 0.00 0.00 0.00 3.57
197 198 3.144871 TCCGGATCATCGCCACGT 61.145 61.111 0.00 0.00 0.00 4.49
198 199 2.658593 GTCCGGATCATCGCCACG 60.659 66.667 7.81 0.00 0.00 4.94
199 200 1.300233 GAGTCCGGATCATCGCCAC 60.300 63.158 7.81 0.00 0.00 5.01
200 201 2.498941 GGAGTCCGGATCATCGCCA 61.499 63.158 7.81 0.00 0.00 5.69
201 202 2.340443 GGAGTCCGGATCATCGCC 59.660 66.667 7.81 1.27 0.00 5.54
202 203 2.340443 GGGAGTCCGGATCATCGC 59.660 66.667 7.81 11.36 0.00 4.58
228 229 3.943137 TAGGAGGTGGGTGGCAGGG 62.943 68.421 0.00 0.00 0.00 4.45
229 230 2.285368 TAGGAGGTGGGTGGCAGG 60.285 66.667 0.00 0.00 0.00 4.85
230 231 1.201429 AACTAGGAGGTGGGTGGCAG 61.201 60.000 0.00 0.00 0.00 4.85
231 232 0.770557 AAACTAGGAGGTGGGTGGCA 60.771 55.000 0.00 0.00 0.00 4.92
232 233 0.322546 CAAACTAGGAGGTGGGTGGC 60.323 60.000 0.00 0.00 0.00 5.01
233 234 0.322546 GCAAACTAGGAGGTGGGTGG 60.323 60.000 0.00 0.00 0.00 4.61
234 235 0.693049 AGCAAACTAGGAGGTGGGTG 59.307 55.000 0.00 0.00 0.00 4.61
235 236 1.446016 AAGCAAACTAGGAGGTGGGT 58.554 50.000 0.00 0.00 0.00 4.51
236 237 2.224769 TGAAAGCAAACTAGGAGGTGGG 60.225 50.000 0.00 0.00 0.00 4.61
237 238 3.140325 TGAAAGCAAACTAGGAGGTGG 57.860 47.619 0.00 0.00 0.00 4.61
238 239 5.712152 AAATGAAAGCAAACTAGGAGGTG 57.288 39.130 0.00 0.00 0.00 4.00
239 240 5.509670 GCAAAATGAAAGCAAACTAGGAGGT 60.510 40.000 0.00 0.00 0.00 3.85
240 241 4.925646 GCAAAATGAAAGCAAACTAGGAGG 59.074 41.667 0.00 0.00 0.00 4.30
241 242 4.618489 CGCAAAATGAAAGCAAACTAGGAG 59.382 41.667 0.00 0.00 0.00 3.69
242 243 4.277174 TCGCAAAATGAAAGCAAACTAGGA 59.723 37.500 0.00 0.00 0.00 2.94
243 244 4.545610 TCGCAAAATGAAAGCAAACTAGG 58.454 39.130 0.00 0.00 0.00 3.02
244 245 5.451908 TCTCGCAAAATGAAAGCAAACTAG 58.548 37.500 0.00 0.00 0.00 2.57
245 246 5.431420 TCTCGCAAAATGAAAGCAAACTA 57.569 34.783 0.00 0.00 0.00 2.24
246 247 4.305989 TCTCGCAAAATGAAAGCAAACT 57.694 36.364 0.00 0.00 0.00 2.66
247 248 5.388225 TTTCTCGCAAAATGAAAGCAAAC 57.612 34.783 0.00 0.00 0.00 2.93
257 258 5.404066 CCGGTTATTTGTTTTCTCGCAAAAT 59.596 36.000 0.00 0.00 37.98 1.82
258 259 4.740695 CCGGTTATTTGTTTTCTCGCAAAA 59.259 37.500 0.00 0.00 37.98 2.44
265 266 2.815503 CCGGTCCGGTTATTTGTTTTCT 59.184 45.455 23.02 0.00 42.73 2.52
288 289 2.363711 TATCCCGCATCGGTGAGTGC 62.364 60.000 0.00 0.00 46.80 4.40
292 293 1.040893 ACACTATCCCGCATCGGTGA 61.041 55.000 0.00 2.21 46.80 4.02
293 294 0.179084 AACACTATCCCGCATCGGTG 60.179 55.000 4.47 0.00 46.80 4.94
301 302 6.538742 ACAATTTGTCATCTAACACTATCCCG 59.461 38.462 0.00 0.00 0.00 5.14
302 303 7.865706 ACAATTTGTCATCTAACACTATCCC 57.134 36.000 0.00 0.00 0.00 3.85
306 307 9.599866 CCAGATACAATTTGTCATCTAACACTA 57.400 33.333 5.07 0.00 0.00 2.74
307 308 8.321353 TCCAGATACAATTTGTCATCTAACACT 58.679 33.333 5.07 0.00 0.00 3.55
354 355 5.475909 CCATAATGGACCCTCAAATCATCTG 59.524 44.000 0.00 0.00 40.96 2.90
355 356 5.373555 TCCATAATGGACCCTCAAATCATCT 59.626 40.000 0.00 0.00 42.67 2.90
357 358 5.373555 TCTCCATAATGGACCCTCAAATCAT 59.626 40.000 0.00 0.00 42.67 2.45
358 359 4.726317 TCTCCATAATGGACCCTCAAATCA 59.274 41.667 0.00 0.00 42.67 2.57
373 374 2.637382 TCGCATTAGGGCATCTCCATAA 59.363 45.455 0.00 0.00 44.24 1.90
375 376 1.059098 TCGCATTAGGGCATCTCCAT 58.941 50.000 0.00 0.00 36.21 3.41
378 379 1.560860 GCGTCGCATTAGGGCATCTC 61.561 60.000 13.44 0.00 0.00 2.75
379 380 1.595382 GCGTCGCATTAGGGCATCT 60.595 57.895 13.44 0.00 0.00 2.90
399 400 3.607310 CGTATGAGAGCTACGCCAGTTAG 60.607 52.174 0.00 0.00 35.99 2.34
400 401 2.289820 CGTATGAGAGCTACGCCAGTTA 59.710 50.000 0.00 0.00 35.99 2.24
402 403 0.663688 CGTATGAGAGCTACGCCAGT 59.336 55.000 0.00 0.00 35.99 4.00
431 432 6.016360 CCGTTTGATTGATGCCCTATATTGAA 60.016 38.462 0.00 0.00 0.00 2.69
436 437 4.698201 TCCGTTTGATTGATGCCCTATA 57.302 40.909 0.00 0.00 0.00 1.31
437 438 3.576078 TCCGTTTGATTGATGCCCTAT 57.424 42.857 0.00 0.00 0.00 2.57
438 439 3.358111 TTCCGTTTGATTGATGCCCTA 57.642 42.857 0.00 0.00 0.00 3.53
439 440 2.214376 TTCCGTTTGATTGATGCCCT 57.786 45.000 0.00 0.00 0.00 5.19
443 444 5.634439 TGAAAGCAATTCCGTTTGATTGATG 59.366 36.000 0.62 0.00 35.54 3.07
446 447 5.233902 TGTTGAAAGCAATTCCGTTTGATTG 59.766 36.000 0.47 0.00 35.54 2.67
447 448 5.355596 TGTTGAAAGCAATTCCGTTTGATT 58.644 33.333 0.47 0.00 36.83 2.57
451 452 4.803613 GTCTTGTTGAAAGCAATTCCGTTT 59.196 37.500 0.47 0.00 37.22 3.60
455 456 4.320608 TGGTCTTGTTGAAAGCAATTCC 57.679 40.909 0.47 0.00 37.22 3.01
467 468 9.762381 TTTTTAGGGAATGTATATGGTCTTGTT 57.238 29.630 0.00 0.00 0.00 2.83
492 493 6.098266 GGCCTGGAATATATGGTCTTGTTTTT 59.902 38.462 0.00 0.00 0.00 1.94
493 494 5.598417 GGCCTGGAATATATGGTCTTGTTTT 59.402 40.000 0.00 0.00 0.00 2.43
494 495 5.140454 GGCCTGGAATATATGGTCTTGTTT 58.860 41.667 0.00 0.00 0.00 2.83
499 500 3.004126 TGGGCCTGGAATATATGGTCT 57.996 47.619 4.53 0.00 0.00 3.85
506 507 4.078980 ACAAAGAGAATGGGCCTGGAATAT 60.079 41.667 4.53 0.00 0.00 1.28
507 508 3.269381 ACAAAGAGAATGGGCCTGGAATA 59.731 43.478 4.53 0.00 0.00 1.75
508 509 2.043526 ACAAAGAGAATGGGCCTGGAAT 59.956 45.455 4.53 0.00 0.00 3.01
513 514 2.519013 GTTGACAAAGAGAATGGGCCT 58.481 47.619 4.53 0.00 0.00 5.19
515 516 2.029918 GTGGTTGACAAAGAGAATGGGC 60.030 50.000 0.00 0.00 0.00 5.36
536 540 1.281867 TCACTGCCTGGACCCATTAAG 59.718 52.381 0.00 0.00 0.00 1.85
547 580 0.240145 CACATGCACTTCACTGCCTG 59.760 55.000 0.00 0.00 38.39 4.85
595 629 2.159462 GCTCTGCTGGCAATTAGTCAAC 60.159 50.000 0.00 0.00 0.00 3.18
620 654 1.080093 TGGATGCGTTCGTCTGGAC 60.080 57.895 0.00 0.00 0.00 4.02
621 655 1.080093 GTGGATGCGTTCGTCTGGA 60.080 57.895 0.00 0.00 0.00 3.86
622 656 2.444624 CGTGGATGCGTTCGTCTGG 61.445 63.158 0.00 0.00 0.00 3.86
625 659 3.849953 GGCGTGGATGCGTTCGTC 61.850 66.667 0.00 0.00 35.06 4.20
641 675 0.780002 CGTACGGTTCAGTTCAACGG 59.220 55.000 7.57 0.00 33.84 4.44
672 706 5.215252 AGAACTCCGAGACTTTGAATGAA 57.785 39.130 1.33 0.00 0.00 2.57
675 709 3.748568 GCAAGAACTCCGAGACTTTGAAT 59.251 43.478 1.33 0.00 0.00 2.57
760 794 1.202891 ACCCAAGTTAGCCACTGAACC 60.203 52.381 0.00 0.00 35.12 3.62
819 853 1.831106 TGACGTGCTCTATTCATGGGT 59.169 47.619 0.00 0.00 0.00 4.51
834 868 2.434884 CATGGAAGCCGCTGACGT 60.435 61.111 0.00 0.00 37.70 4.34
845 879 3.132646 AGCTGTGTTTCTTTTGCATGGAA 59.867 39.130 0.00 0.00 0.00 3.53
974 1017 2.501223 TTAGCTGTCGCGAAGGTGGG 62.501 60.000 23.68 9.11 42.32 4.61
982 1025 1.490693 ATTGCCGATTAGCTGTCGCG 61.491 55.000 15.41 0.00 42.32 5.87
985 1028 0.308993 GCCATTGCCGATTAGCTGTC 59.691 55.000 0.00 0.00 0.00 3.51
986 1029 1.439353 CGCCATTGCCGATTAGCTGT 61.439 55.000 0.00 0.00 0.00 4.40
1401 1444 1.297689 GCATGCACCTGACCTCAGA 59.702 57.895 14.21 0.00 46.59 3.27
1402 1445 1.002990 TGCATGCACCTGACCTCAG 60.003 57.895 18.46 0.00 43.40 3.35
1403 1446 1.302752 GTGCATGCACCTGACCTCA 60.303 57.895 35.69 0.70 40.79 3.86
1404 1447 3.583383 GTGCATGCACCTGACCTC 58.417 61.111 35.69 12.07 40.79 3.85
1421 1464 1.076533 CCGTCGTGTCATCCCGAAAG 61.077 60.000 0.00 0.00 34.47 2.62
1431 1474 0.809385 TCCTCTTCATCCGTCGTGTC 59.191 55.000 0.00 0.00 0.00 3.67
1438 1481 5.446473 CGATTTTCTTGTTCCTCTTCATCCG 60.446 44.000 0.00 0.00 0.00 4.18
1441 1484 6.467677 TCTCGATTTTCTTGTTCCTCTTCAT 58.532 36.000 0.00 0.00 0.00 2.57
1490 1535 4.805192 GTGCGTACCCGAATCAGTAAATTA 59.195 41.667 0.00 0.00 35.63 1.40
1491 1536 3.619929 GTGCGTACCCGAATCAGTAAATT 59.380 43.478 0.00 0.00 35.63 1.82
1591 1636 6.256686 AGTGACGTCGATTTGTAGATTCTAC 58.743 40.000 15.57 15.57 0.00 2.59
1671 1740 5.596836 AACACCACATTATTTGGCATAGG 57.403 39.130 0.00 0.00 37.69 2.57
1759 1839 5.748670 TTACACCAGCCTAACTATGACAA 57.251 39.130 0.00 0.00 0.00 3.18
1814 1894 5.937975 AATTCCATGTCTTTATGGGTTGG 57.062 39.130 5.06 0.00 46.16 3.77
1845 1925 8.206867 GCATCTGGACCTATGCTTAATCATATA 58.793 37.037 19.37 0.00 44.08 0.86
1846 1926 7.052873 GCATCTGGACCTATGCTTAATCATAT 58.947 38.462 19.37 0.00 44.08 1.78
1910 2018 5.546499 CCTATCATTAGGGTTAAGGCTACCA 59.454 44.000 8.65 0.00 41.31 3.25
1955 2063 6.202570 GGTCACTTCTCTTAAGCATCATCATC 59.797 42.308 0.00 0.00 0.00 2.92
1988 2096 7.057894 TCTAGTTCTTAAAAGAAACAAGCCCA 58.942 34.615 6.72 0.00 45.77 5.36
2131 2271 9.109533 GAAATGTTTGAAATGTCATTTGCATTC 57.890 29.630 15.52 9.24 39.52 2.67
2170 2314 3.056607 GCTGCAAAACATCCAGGTAATGT 60.057 43.478 0.00 0.00 38.98 2.71


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

AutoCloner maintained by Alex Coulton.