Multiple sequence alignment - TraesCS5D01G099600

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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 TraesCS5D01G099600 chr5D 100.000 3428 0 0 1 3428 111996725 111993298 0.000000e+00 6331
1 TraesCS5D01G099600 chr5B 94.782 2204 79 11 1103 3300 121183485 121181312 0.000000e+00 3400
2 TraesCS5D01G099600 chr5B 96.027 881 17 6 229 1109 121198709 121197847 0.000000e+00 1417
3 TraesCS5D01G099600 chr5A 96.084 1864 58 8 620 2470 115015357 115013496 0.000000e+00 3024
4 TraesCS5D01G099600 chr5A 90.523 918 71 10 2467 3376 115013214 115012305 0.000000e+00 1199
5 TraesCS5D01G099600 chr3A 79.562 822 131 33 759 1557 586791524 586792331 1.390000e-153 553
6 TraesCS5D01G099600 chr3D 79.197 822 134 32 759 1557 445105115 445105922 1.400000e-148 536
7 TraesCS5D01G099600 chr3B 78.589 822 139 31 759 1557 583824684 583825491 3.050000e-140 508
8 TraesCS5D01G099600 chr3B 93.534 232 13 2 1 231 401237344 401237574 9.110000e-91 344
9 TraesCS5D01G099600 chr4D 81.271 598 87 22 750 1337 131041125 131041707 8.670000e-126 460
10 TraesCS5D01G099600 chr4A 81.104 598 88 22 750 1337 435443126 435442544 4.030000e-124 455
11 TraesCS5D01G099600 chrUn 80.667 600 88 23 750 1337 59599861 59600444 1.130000e-119 440
12 TraesCS5D01G099600 chrUn 80.978 552 78 23 751 1291 383554859 383555394 2.460000e-111 412
13 TraesCS5D01G099600 chr1D 96.957 230 7 0 1 230 10350962 10350733 1.490000e-103 387
14 TraesCS5D01G099600 chr2D 96.522 230 8 0 1 230 189383120 189382891 6.940000e-102 381
15 TraesCS5D01G099600 chr2D 96.018 226 9 0 5 230 189382528 189382753 5.400000e-98 368
16 TraesCS5D01G099600 chr6D 94.805 231 11 1 1 230 248263643 248263413 3.250000e-95 359
17 TraesCS5D01G099600 chr2B 83.333 234 26 10 6 230 178771061 178770832 1.610000e-48 204
18 TraesCS5D01G099600 chr7B 82.773 238 29 9 1 230 244642842 244643075 5.800000e-48 202
19 TraesCS5D01G099600 chr7B 79.921 254 24 9 1 230 374718626 374718876 9.850000e-36 161
20 TraesCS5D01G099600 chr7B 79.767 257 25 9 1 233 705710430 705710177 9.850000e-36 161


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 TraesCS5D01G099600 chr5D 111993298 111996725 3427 True 6331.0 6331 100.0000 1 3428 1 chr5D.!!$R1 3427
1 TraesCS5D01G099600 chr5B 121181312 121183485 2173 True 3400.0 3400 94.7820 1103 3300 1 chr5B.!!$R1 2197
2 TraesCS5D01G099600 chr5B 121197847 121198709 862 True 1417.0 1417 96.0270 229 1109 1 chr5B.!!$R2 880
3 TraesCS5D01G099600 chr5A 115012305 115015357 3052 True 2111.5 3024 93.3035 620 3376 2 chr5A.!!$R1 2756
4 TraesCS5D01G099600 chr3A 586791524 586792331 807 False 553.0 553 79.5620 759 1557 1 chr3A.!!$F1 798
5 TraesCS5D01G099600 chr3D 445105115 445105922 807 False 536.0 536 79.1970 759 1557 1 chr3D.!!$F1 798
6 TraesCS5D01G099600 chr3B 583824684 583825491 807 False 508.0 508 78.5890 759 1557 1 chr3B.!!$F2 798
7 TraesCS5D01G099600 chr4D 131041125 131041707 582 False 460.0 460 81.2710 750 1337 1 chr4D.!!$F1 587
8 TraesCS5D01G099600 chr4A 435442544 435443126 582 True 455.0 455 81.1040 750 1337 1 chr4A.!!$R1 587
9 TraesCS5D01G099600 chrUn 59599861 59600444 583 False 440.0 440 80.6670 750 1337 1 chrUn.!!$F1 587
10 TraesCS5D01G099600 chrUn 383554859 383555394 535 False 412.0 412 80.9780 751 1291 1 chrUn.!!$F2 540

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
422 423 0.035056 AGGGAGAACAATTGGAGGCG 60.035 55.0 10.83 0.0 0.00 5.52 F
440 441 0.719465 CGCCCTTTGCAGTACGTAAG 59.281 55.0 0.00 0.0 41.33 2.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1759 1796 1.367840 GCTGTGGGGGCTCTATACG 59.632 63.158 0.0 0.0 0.00 3.06 R
2548 2884 5.694458 GCCAAAATGGAATTAACGAACAGTT 59.306 36.000 0.0 0.0 40.96 3.16 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
64 65 3.155167 GGGAAGGACGCCGGAGAT 61.155 66.667 13.83 0.00 0.00 2.75
65 66 2.107141 GGAAGGACGCCGGAGATG 59.893 66.667 13.83 0.00 0.00 2.90
66 67 2.586357 GAAGGACGCCGGAGATGC 60.586 66.667 13.83 1.34 0.00 3.91
94 95 4.610714 GGAGCCCGGCGGAGAATC 62.611 72.222 30.79 18.23 0.00 2.52
105 106 2.825264 GAGAATCCTGGCGGAGGG 59.175 66.667 0.00 0.00 44.06 4.30
106 107 2.770048 AGAATCCTGGCGGAGGGG 60.770 66.667 0.00 0.00 44.06 4.79
107 108 2.768344 GAATCCTGGCGGAGGGGA 60.768 66.667 0.00 0.00 44.06 4.81
108 109 2.770048 AATCCTGGCGGAGGGGAG 60.770 66.667 0.00 0.00 44.06 4.30
109 110 4.888325 ATCCTGGCGGAGGGGAGG 62.888 72.222 0.00 0.00 44.06 4.30
122 123 3.379445 GGAGGTGCGACGGAGGAA 61.379 66.667 0.00 0.00 0.00 3.36
123 124 2.182030 GAGGTGCGACGGAGGAAG 59.818 66.667 0.00 0.00 0.00 3.46
124 125 2.282958 AGGTGCGACGGAGGAAGA 60.283 61.111 0.00 0.00 0.00 2.87
125 126 2.126031 GGTGCGACGGAGGAAGAC 60.126 66.667 0.00 0.00 0.00 3.01
126 127 2.504244 GTGCGACGGAGGAAGACG 60.504 66.667 0.00 0.00 0.00 4.18
129 130 3.441290 CGACGGAGGAAGACGCCT 61.441 66.667 0.00 0.00 42.17 5.52
135 136 4.796408 AGGAAGACGCCTCCTGAT 57.204 55.556 0.00 0.00 30.76 2.90
136 137 2.510664 AGGAAGACGCCTCCTGATC 58.489 57.895 0.00 0.00 30.76 2.92
137 138 0.324738 AGGAAGACGCCTCCTGATCA 60.325 55.000 0.00 0.00 30.76 2.92
138 139 0.537188 GGAAGACGCCTCCTGATCAA 59.463 55.000 0.00 0.00 0.00 2.57
139 140 1.139853 GGAAGACGCCTCCTGATCAAT 59.860 52.381 0.00 0.00 0.00 2.57
140 141 2.420687 GGAAGACGCCTCCTGATCAATT 60.421 50.000 0.00 0.00 0.00 2.32
141 142 3.274288 GAAGACGCCTCCTGATCAATTT 58.726 45.455 0.00 0.00 0.00 1.82
142 143 2.911484 AGACGCCTCCTGATCAATTTC 58.089 47.619 0.00 0.00 0.00 2.17
143 144 2.237143 AGACGCCTCCTGATCAATTTCA 59.763 45.455 0.00 0.00 0.00 2.69
144 145 3.009723 GACGCCTCCTGATCAATTTCAA 58.990 45.455 0.00 0.00 0.00 2.69
145 146 3.420893 ACGCCTCCTGATCAATTTCAAA 58.579 40.909 0.00 0.00 0.00 2.69
146 147 4.019174 ACGCCTCCTGATCAATTTCAAAT 58.981 39.130 0.00 0.00 0.00 2.32
147 148 4.096984 ACGCCTCCTGATCAATTTCAAATC 59.903 41.667 0.00 0.00 0.00 2.17
148 149 4.096833 CGCCTCCTGATCAATTTCAAATCA 59.903 41.667 0.00 0.00 0.00 2.57
149 150 5.589192 GCCTCCTGATCAATTTCAAATCAG 58.411 41.667 0.00 4.91 43.85 2.90
153 154 5.927281 CTGATCAATTTCAAATCAGGGGT 57.073 39.130 0.00 0.00 41.65 4.95
155 156 7.592885 CTGATCAATTTCAAATCAGGGGTAT 57.407 36.000 0.00 0.00 41.65 2.73
156 157 7.976414 TGATCAATTTCAAATCAGGGGTATT 57.024 32.000 0.00 0.00 0.00 1.89
157 158 8.378115 TGATCAATTTCAAATCAGGGGTATTT 57.622 30.769 0.00 0.00 0.00 1.40
158 159 8.477256 TGATCAATTTCAAATCAGGGGTATTTC 58.523 33.333 0.00 0.00 0.00 2.17
159 160 7.181569 TCAATTTCAAATCAGGGGTATTTCC 57.818 36.000 0.00 0.00 0.00 3.13
160 161 5.852282 ATTTCAAATCAGGGGTATTTCCG 57.148 39.130 0.00 0.00 37.00 4.30
161 162 4.310022 TTCAAATCAGGGGTATTTCCGT 57.690 40.909 0.00 0.00 37.00 4.69
162 163 5.438698 TTCAAATCAGGGGTATTTCCGTA 57.561 39.130 0.00 0.00 37.00 4.02
163 164 4.773013 TCAAATCAGGGGTATTTCCGTAC 58.227 43.478 0.00 0.00 37.00 3.67
164 165 4.472108 TCAAATCAGGGGTATTTCCGTACT 59.528 41.667 0.00 0.00 37.00 2.73
165 166 5.045432 TCAAATCAGGGGTATTTCCGTACTT 60.045 40.000 0.00 0.00 37.00 2.24
166 167 5.446260 AATCAGGGGTATTTCCGTACTTT 57.554 39.130 0.00 0.00 37.00 2.66
167 168 4.476628 TCAGGGGTATTTCCGTACTTTC 57.523 45.455 0.00 0.00 37.00 2.62
168 169 3.839490 TCAGGGGTATTTCCGTACTTTCA 59.161 43.478 0.00 0.00 37.00 2.69
169 170 3.937079 CAGGGGTATTTCCGTACTTTCAC 59.063 47.826 0.00 0.00 37.00 3.18
170 171 2.931969 GGGGTATTTCCGTACTTTCACG 59.068 50.000 0.00 0.00 41.59 4.35
171 172 2.349580 GGGTATTTCCGTACTTTCACGC 59.650 50.000 0.00 0.00 40.59 5.34
172 173 2.349580 GGTATTTCCGTACTTTCACGCC 59.650 50.000 0.00 0.00 40.59 5.68
173 174 2.172851 ATTTCCGTACTTTCACGCCA 57.827 45.000 0.00 0.00 40.59 5.69
174 175 2.172851 TTTCCGTACTTTCACGCCAT 57.827 45.000 0.00 0.00 40.59 4.40
175 176 2.172851 TTCCGTACTTTCACGCCATT 57.827 45.000 0.00 0.00 40.59 3.16
176 177 2.172851 TCCGTACTTTCACGCCATTT 57.827 45.000 0.00 0.00 40.59 2.32
177 178 2.070783 TCCGTACTTTCACGCCATTTC 58.929 47.619 0.00 0.00 40.59 2.17
178 179 1.801771 CCGTACTTTCACGCCATTTCA 59.198 47.619 0.00 0.00 40.59 2.69
179 180 2.418628 CCGTACTTTCACGCCATTTCAT 59.581 45.455 0.00 0.00 40.59 2.57
180 181 3.485216 CCGTACTTTCACGCCATTTCATC 60.485 47.826 0.00 0.00 40.59 2.92
181 182 3.370978 CGTACTTTCACGCCATTTCATCT 59.629 43.478 0.00 0.00 34.78 2.90
182 183 3.837213 ACTTTCACGCCATTTCATCTG 57.163 42.857 0.00 0.00 0.00 2.90
183 184 2.489329 ACTTTCACGCCATTTCATCTGG 59.511 45.455 0.00 0.00 36.81 3.86
184 185 2.198827 TTCACGCCATTTCATCTGGT 57.801 45.000 0.00 0.00 36.10 4.00
185 186 1.737838 TCACGCCATTTCATCTGGTC 58.262 50.000 0.00 0.00 36.10 4.02
186 187 0.374758 CACGCCATTTCATCTGGTCG 59.625 55.000 0.00 0.00 38.44 4.79
187 188 0.744414 ACGCCATTTCATCTGGTCGG 60.744 55.000 9.66 0.00 37.50 4.79
188 189 0.461870 CGCCATTTCATCTGGTCGGA 60.462 55.000 0.00 0.00 36.10 4.55
189 190 1.750193 GCCATTTCATCTGGTCGGAA 58.250 50.000 0.00 0.00 36.10 4.30
190 191 1.401905 GCCATTTCATCTGGTCGGAAC 59.598 52.381 0.00 0.00 36.10 3.62
191 192 4.130349 GCCATTTCATCTGGTCGGAACG 62.130 54.545 0.00 0.00 43.71 3.95
203 204 4.583086 GGAACGAAACCCCCAACA 57.417 55.556 0.00 0.00 0.00 3.33
204 205 2.809952 GGAACGAAACCCCCAACAA 58.190 52.632 0.00 0.00 0.00 2.83
205 206 1.334160 GGAACGAAACCCCCAACAAT 58.666 50.000 0.00 0.00 0.00 2.71
206 207 2.516906 GGAACGAAACCCCCAACAATA 58.483 47.619 0.00 0.00 0.00 1.90
207 208 2.892215 GGAACGAAACCCCCAACAATAA 59.108 45.455 0.00 0.00 0.00 1.40
208 209 3.321396 GGAACGAAACCCCCAACAATAAA 59.679 43.478 0.00 0.00 0.00 1.40
209 210 4.020928 GGAACGAAACCCCCAACAATAAAT 60.021 41.667 0.00 0.00 0.00 1.40
210 211 5.185442 GGAACGAAACCCCCAACAATAAATA 59.815 40.000 0.00 0.00 0.00 1.40
211 212 6.295180 GGAACGAAACCCCCAACAATAAATAA 60.295 38.462 0.00 0.00 0.00 1.40
212 213 6.667558 ACGAAACCCCCAACAATAAATAAA 57.332 33.333 0.00 0.00 0.00 1.40
213 214 7.247456 ACGAAACCCCCAACAATAAATAAAT 57.753 32.000 0.00 0.00 0.00 1.40
214 215 7.324935 ACGAAACCCCCAACAATAAATAAATC 58.675 34.615 0.00 0.00 0.00 2.17
215 216 6.474102 CGAAACCCCCAACAATAAATAAATCG 59.526 38.462 0.00 0.00 0.00 3.34
216 217 5.862678 ACCCCCAACAATAAATAAATCGG 57.137 39.130 0.00 0.00 0.00 4.18
217 218 5.520751 ACCCCCAACAATAAATAAATCGGA 58.479 37.500 0.00 0.00 0.00 4.55
218 219 5.958987 ACCCCCAACAATAAATAAATCGGAA 59.041 36.000 0.00 0.00 0.00 4.30
219 220 6.127281 ACCCCCAACAATAAATAAATCGGAAC 60.127 38.462 0.00 0.00 0.00 3.62
220 221 6.127310 CCCCCAACAATAAATAAATCGGAACA 60.127 38.462 0.00 0.00 0.00 3.18
221 222 6.978080 CCCCAACAATAAATAAATCGGAACAG 59.022 38.462 0.00 0.00 0.00 3.16
222 223 7.147983 CCCCAACAATAAATAAATCGGAACAGA 60.148 37.037 0.00 0.00 0.00 3.41
223 224 7.915397 CCCAACAATAAATAAATCGGAACAGAG 59.085 37.037 0.00 0.00 0.00 3.35
224 225 7.915397 CCAACAATAAATAAATCGGAACAGAGG 59.085 37.037 0.00 0.00 0.00 3.69
225 226 7.568199 ACAATAAATAAATCGGAACAGAGGG 57.432 36.000 0.00 0.00 0.00 4.30
226 227 7.343357 ACAATAAATAAATCGGAACAGAGGGA 58.657 34.615 0.00 0.00 0.00 4.20
227 228 7.499232 ACAATAAATAAATCGGAACAGAGGGAG 59.501 37.037 0.00 0.00 0.00 4.30
281 282 3.727726 GGTCAATTTGGGTCCAACTTTG 58.272 45.455 13.96 13.96 35.46 2.77
418 419 5.222233 TGGACAATTAGGGAGAACAATTGGA 60.222 40.000 10.83 0.00 41.70 3.53
419 420 5.358160 GGACAATTAGGGAGAACAATTGGAG 59.642 44.000 10.83 0.00 41.70 3.86
420 421 5.264395 ACAATTAGGGAGAACAATTGGAGG 58.736 41.667 10.83 0.00 41.70 4.30
421 422 3.366052 TTAGGGAGAACAATTGGAGGC 57.634 47.619 10.83 0.00 0.00 4.70
422 423 0.035056 AGGGAGAACAATTGGAGGCG 60.035 55.000 10.83 0.00 0.00 5.52
423 424 1.657751 GGGAGAACAATTGGAGGCGC 61.658 60.000 10.83 0.00 0.00 6.53
424 425 1.657751 GGAGAACAATTGGAGGCGCC 61.658 60.000 21.89 21.89 37.10 6.53
425 426 1.657751 GAGAACAATTGGAGGCGCCC 61.658 60.000 26.15 15.07 34.97 6.13
426 427 1.678970 GAACAATTGGAGGCGCCCT 60.679 57.895 26.15 10.99 36.03 5.19
430 431 2.649129 AATTGGAGGCGCCCTTTGC 61.649 57.895 26.15 11.32 31.76 3.68
440 441 0.719465 CGCCCTTTGCAGTACGTAAG 59.281 55.000 0.00 0.00 41.33 2.34
443 444 2.612221 GCCCTTTGCAGTACGTAAGACT 60.612 50.000 0.00 0.00 40.77 3.24
465 466 8.580720 AGACTACCTACTGAACATTATATGCAG 58.419 37.037 0.00 0.00 0.00 4.41
660 661 3.406764 AGCAAGCTCTCGTTCTCAAATT 58.593 40.909 0.00 0.00 0.00 1.82
682 688 9.579932 AAATTTGTCCTGTCTCTCTCTATTTTT 57.420 29.630 0.00 0.00 0.00 1.94
1759 1796 1.348775 CCCCTTCCTCCATGAGTCCC 61.349 65.000 0.00 0.00 0.00 4.46
2327 2367 2.084546 GGAAGTTGGGGAAGATGAACG 58.915 52.381 0.00 0.00 0.00 3.95
2382 2422 2.451132 CTAGATGTAGTTGTCGCCGTG 58.549 52.381 0.00 0.00 0.00 4.94
2391 2431 5.916320 TGTAGTTGTCGCCGTGTTATATATG 59.084 40.000 0.00 0.00 0.00 1.78
2506 2834 5.177511 CGAATTTTGCTAACAGACAGACAGA 59.822 40.000 0.00 0.00 0.00 3.41
2507 2835 5.931441 ATTTTGCTAACAGACAGACAGAC 57.069 39.130 0.00 0.00 0.00 3.51
2508 2836 4.400529 TTTGCTAACAGACAGACAGACA 57.599 40.909 0.00 0.00 0.00 3.41
2509 2837 3.650070 TGCTAACAGACAGACAGACAG 57.350 47.619 0.00 0.00 0.00 3.51
2510 2838 2.959030 TGCTAACAGACAGACAGACAGT 59.041 45.455 0.00 0.00 0.00 3.55
2555 2891 1.314730 TTTTGGCGAGGGAACTGTTC 58.685 50.000 12.05 12.05 44.43 3.18
2574 2910 5.226396 TGTTCGTTAATTCCATTTTGGCAG 58.774 37.500 0.00 0.00 37.47 4.85
2601 2937 3.072330 TGTCACTTTGAGGCCATAAGTCA 59.928 43.478 5.01 0.00 30.08 3.41
2630 2966 8.997323 ACTATCAAAAAGAGATCTTTGACACTG 58.003 33.333 9.24 4.22 44.69 3.66
2631 2967 9.212641 CTATCAAAAAGAGATCTTTGACACTGA 57.787 33.333 9.24 7.40 44.69 3.41
2634 2970 7.770433 TCAAAAAGAGATCTTTGACACTGAGAA 59.230 33.333 8.53 0.00 44.69 2.87
2649 2987 8.999431 TGACACTGAGAAGAAATATTTGTTACC 58.001 33.333 10.31 6.44 0.00 2.85
2680 3018 5.423610 TCAAAGATCAAACTCCAAAAACCCA 59.576 36.000 0.00 0.00 0.00 4.51
2820 3158 2.847234 AACCCTGTGGCACTCCGA 60.847 61.111 19.83 0.00 33.59 4.55
2835 3173 2.093075 ACTCCGAGACTAGTTCGATGGA 60.093 50.000 21.34 13.12 40.36 3.41
2913 3252 2.409064 TGTTGGGACTCAAGTAGGGA 57.591 50.000 0.00 0.00 35.80 4.20
2997 3336 2.030027 TCCAGGGAGAGTGTGATGTT 57.970 50.000 0.00 0.00 0.00 2.71
3006 3345 0.036732 AGTGTGATGTTGGCCGTCAT 59.963 50.000 11.46 11.46 41.07 3.06
3080 3420 5.932883 GGCCTCGAAGGTATATTTTCTAAGG 59.067 44.000 0.00 10.17 37.80 2.69
3155 3495 2.301346 ACTTGTTGAAAGTGGCCTCAG 58.699 47.619 3.32 0.00 0.00 3.35
3233 3573 2.358737 GGCACAGGAGTTGGACCG 60.359 66.667 0.00 0.00 0.00 4.79
3241 3581 1.675219 GAGTTGGACCGGGCTGTTA 59.325 57.895 7.57 0.00 0.00 2.41
3269 3609 4.452733 CGTGACGAAGAGGGGCCC 62.453 72.222 17.12 17.12 0.00 5.80
3286 3626 0.591659 CCCGATTCATACTCGAGCGA 59.408 55.000 13.61 3.82 38.38 4.93
3327 3667 2.719979 GCCATGGCTTCTGATGCG 59.280 61.111 29.98 0.00 38.26 4.73
3346 3686 1.794714 GAACCATGCTAGGGAGGAGA 58.205 55.000 0.00 0.00 0.00 3.71
3354 3694 1.783071 CTAGGGAGGAGACTGGTTCC 58.217 60.000 0.00 0.00 44.43 3.62
3357 3697 1.605971 GGGAGGAGACTGGTTCCGAC 61.606 65.000 0.00 0.00 44.43 4.79
3358 3698 1.605971 GGAGGAGACTGGTTCCGACC 61.606 65.000 0.00 0.00 44.43 4.79
3376 3716 0.036875 CCAGGAGGTGGTTTCTGGTC 59.963 60.000 0.00 0.00 42.17 4.02
3377 3717 0.320771 CAGGAGGTGGTTTCTGGTCG 60.321 60.000 0.00 0.00 0.00 4.79
3378 3718 0.763223 AGGAGGTGGTTTCTGGTCGT 60.763 55.000 0.00 0.00 0.00 4.34
3379 3719 0.602905 GGAGGTGGTTTCTGGTCGTG 60.603 60.000 0.00 0.00 0.00 4.35
3380 3720 1.227853 AGGTGGTTTCTGGTCGTGC 60.228 57.895 0.00 0.00 0.00 5.34
3381 3721 2.258726 GGTGGTTTCTGGTCGTGCC 61.259 63.158 0.00 0.00 37.90 5.01
3382 3722 1.227853 GTGGTTTCTGGTCGTGCCT 60.228 57.895 1.06 0.00 38.35 4.75
3383 3723 1.070786 TGGTTTCTGGTCGTGCCTC 59.929 57.895 1.06 0.00 38.35 4.70
3384 3724 2.027625 GGTTTCTGGTCGTGCCTCG 61.028 63.158 1.06 0.00 38.35 4.63
3385 3725 1.300697 GTTTCTGGTCGTGCCTCGT 60.301 57.895 1.06 0.00 40.80 4.18
3386 3726 1.006571 TTTCTGGTCGTGCCTCGTC 60.007 57.895 1.06 0.00 40.80 4.20
3387 3727 2.430382 TTTCTGGTCGTGCCTCGTCC 62.430 60.000 7.47 7.47 45.24 4.79
3390 3730 2.509336 GGTCGTGCCTCGTCCATG 60.509 66.667 9.01 0.00 44.61 3.66
3391 3731 2.509336 GTCGTGCCTCGTCCATGG 60.509 66.667 4.97 4.97 40.80 3.66
3392 3732 3.770040 TCGTGCCTCGTCCATGGG 61.770 66.667 13.02 0.00 40.80 4.00
3393 3733 3.770040 CGTGCCTCGTCCATGGGA 61.770 66.667 13.02 0.60 34.52 4.37
3394 3734 2.187946 GTGCCTCGTCCATGGGAG 59.812 66.667 13.02 11.39 29.39 4.30
3402 3742 3.708210 TCCATGGGAGGACGTGAC 58.292 61.111 13.02 0.00 31.23 3.67
3403 3743 1.078528 TCCATGGGAGGACGTGACT 59.921 57.895 13.02 0.00 31.23 3.41
3404 3744 1.219124 CCATGGGAGGACGTGACTG 59.781 63.158 2.85 0.00 0.00 3.51
3405 3745 1.544825 CCATGGGAGGACGTGACTGT 61.545 60.000 2.85 0.00 0.00 3.55
3406 3746 0.390340 CATGGGAGGACGTGACTGTG 60.390 60.000 0.00 0.00 0.00 3.66
3407 3747 1.544825 ATGGGAGGACGTGACTGTGG 61.545 60.000 0.00 0.00 0.00 4.17
3408 3748 2.657237 GGAGGACGTGACTGTGGG 59.343 66.667 0.00 0.00 0.00 4.61
3409 3749 2.048127 GAGGACGTGACTGTGGGC 60.048 66.667 0.00 0.00 0.00 5.36
3410 3750 3.916392 GAGGACGTGACTGTGGGCG 62.916 68.421 0.00 0.00 0.00 6.13
3415 3755 2.970324 GTGACTGTGGGCGCGAAA 60.970 61.111 12.10 0.00 0.00 3.46
3416 3756 2.664851 TGACTGTGGGCGCGAAAG 60.665 61.111 12.10 0.00 0.00 2.62
3417 3757 2.357034 GACTGTGGGCGCGAAAGA 60.357 61.111 12.10 0.00 0.00 2.52
3418 3758 2.357517 ACTGTGGGCGCGAAAGAG 60.358 61.111 12.10 4.33 0.00 2.85
3419 3759 3.121030 CTGTGGGCGCGAAAGAGG 61.121 66.667 12.10 0.00 0.00 3.69
3420 3760 3.883744 CTGTGGGCGCGAAAGAGGT 62.884 63.158 12.10 0.00 0.00 3.85
3421 3761 3.119096 GTGGGCGCGAAAGAGGTC 61.119 66.667 12.10 0.00 0.00 3.85
3422 3762 4.735132 TGGGCGCGAAAGAGGTCG 62.735 66.667 12.10 0.00 43.98 4.79
3423 3763 4.430765 GGGCGCGAAAGAGGTCGA 62.431 66.667 12.10 0.00 43.86 4.20
3424 3764 2.881352 GGCGCGAAAGAGGTCGAG 60.881 66.667 12.10 0.00 43.86 4.04
3426 3766 2.881352 CGCGAAAGAGGTCGAGCC 60.881 66.667 11.73 3.31 43.86 4.70
3427 3767 2.881352 GCGAAAGAGGTCGAGCCG 60.881 66.667 11.73 8.41 43.86 5.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
47 48 3.155167 ATCTCCGGCGTCCTTCCC 61.155 66.667 6.01 0.00 0.00 3.97
48 49 2.107141 CATCTCCGGCGTCCTTCC 59.893 66.667 6.01 0.00 0.00 3.46
49 50 2.586357 GCATCTCCGGCGTCCTTC 60.586 66.667 6.01 0.00 0.00 3.46
60 61 4.933064 CTCCGCCGTCCGCATCTC 62.933 72.222 0.00 0.00 37.30 2.75
77 78 4.610714 GATTCTCCGCCGGGCTCC 62.611 72.222 18.34 0.00 0.00 4.70
78 79 4.610714 GGATTCTCCGCCGGGCTC 62.611 72.222 18.34 6.29 0.00 4.70
80 81 4.918201 CAGGATTCTCCGCCGGGC 62.918 72.222 9.54 9.54 42.75 6.13
81 82 4.241555 CCAGGATTCTCCGCCGGG 62.242 72.222 1.90 0.00 42.75 5.73
82 83 4.918201 GCCAGGATTCTCCGCCGG 62.918 72.222 0.00 0.00 42.75 6.13
84 85 4.918201 CCGCCAGGATTCTCCGCC 62.918 72.222 0.00 0.00 42.75 6.13
85 86 3.849951 TCCGCCAGGATTCTCCGC 61.850 66.667 0.00 0.00 42.75 5.54
105 106 3.358076 CTTCCTCCGTCGCACCTCC 62.358 68.421 0.00 0.00 0.00 4.30
106 107 2.182030 CTTCCTCCGTCGCACCTC 59.818 66.667 0.00 0.00 0.00 3.85
107 108 2.282958 TCTTCCTCCGTCGCACCT 60.283 61.111 0.00 0.00 0.00 4.00
108 109 2.126031 GTCTTCCTCCGTCGCACC 60.126 66.667 0.00 0.00 0.00 5.01
109 110 2.504244 CGTCTTCCTCCGTCGCAC 60.504 66.667 0.00 0.00 0.00 5.34
110 111 4.415332 GCGTCTTCCTCCGTCGCA 62.415 66.667 0.00 0.00 45.01 5.10
112 113 3.398353 GAGGCGTCTTCCTCCGTCG 62.398 68.421 0.00 0.00 45.40 5.12
113 114 2.490685 GAGGCGTCTTCCTCCGTC 59.509 66.667 0.00 0.00 45.40 4.79
118 119 0.324738 TGATCAGGAGGCGTCTTCCT 60.325 55.000 6.34 0.00 39.67 3.36
119 120 0.537188 TTGATCAGGAGGCGTCTTCC 59.463 55.000 6.34 0.00 0.00 3.46
120 121 2.611225 ATTGATCAGGAGGCGTCTTC 57.389 50.000 6.34 0.00 0.00 2.87
121 122 3.274288 GAAATTGATCAGGAGGCGTCTT 58.726 45.455 6.34 0.00 0.00 3.01
122 123 2.237143 TGAAATTGATCAGGAGGCGTCT 59.763 45.455 6.34 0.00 0.00 4.18
123 124 2.632377 TGAAATTGATCAGGAGGCGTC 58.368 47.619 0.00 0.00 0.00 5.19
124 125 2.787473 TGAAATTGATCAGGAGGCGT 57.213 45.000 0.00 0.00 0.00 5.68
125 126 4.096833 TGATTTGAAATTGATCAGGAGGCG 59.903 41.667 0.00 0.00 0.00 5.52
126 127 5.587388 TGATTTGAAATTGATCAGGAGGC 57.413 39.130 0.00 0.00 0.00 4.70
131 132 5.927281 ACCCCTGATTTGAAATTGATCAG 57.073 39.130 0.00 11.50 43.95 2.90
132 133 7.976414 AATACCCCTGATTTGAAATTGATCA 57.024 32.000 0.00 0.00 0.00 2.92
133 134 7.928167 GGAAATACCCCTGATTTGAAATTGATC 59.072 37.037 0.00 0.00 0.00 2.92
134 135 7.417797 CGGAAATACCCCTGATTTGAAATTGAT 60.418 37.037 0.00 0.00 34.64 2.57
135 136 6.127479 CGGAAATACCCCTGATTTGAAATTGA 60.127 38.462 0.00 0.00 34.64 2.57
136 137 6.042143 CGGAAATACCCCTGATTTGAAATTG 58.958 40.000 0.00 0.00 34.64 2.32
137 138 5.719563 ACGGAAATACCCCTGATTTGAAATT 59.280 36.000 0.00 0.00 34.64 1.82
138 139 5.269189 ACGGAAATACCCCTGATTTGAAAT 58.731 37.500 0.00 0.00 34.64 2.17
139 140 4.668636 ACGGAAATACCCCTGATTTGAAA 58.331 39.130 0.00 0.00 34.64 2.69
140 141 4.310022 ACGGAAATACCCCTGATTTGAA 57.690 40.909 0.00 0.00 34.64 2.69
141 142 4.472108 AGTACGGAAATACCCCTGATTTGA 59.528 41.667 0.00 0.00 34.64 2.69
142 143 4.777463 AGTACGGAAATACCCCTGATTTG 58.223 43.478 0.00 0.00 34.64 2.32
143 144 5.446260 AAGTACGGAAATACCCCTGATTT 57.554 39.130 0.00 0.00 34.64 2.17
144 145 5.045432 TGAAAGTACGGAAATACCCCTGATT 60.045 40.000 0.00 0.00 34.64 2.57
145 146 4.472108 TGAAAGTACGGAAATACCCCTGAT 59.528 41.667 0.00 0.00 34.64 2.90
146 147 3.839490 TGAAAGTACGGAAATACCCCTGA 59.161 43.478 0.00 0.00 34.64 3.86
147 148 3.937079 GTGAAAGTACGGAAATACCCCTG 59.063 47.826 0.00 0.00 34.64 4.45
148 149 3.368739 CGTGAAAGTACGGAAATACCCCT 60.369 47.826 0.00 0.00 40.22 4.79
149 150 2.931969 CGTGAAAGTACGGAAATACCCC 59.068 50.000 0.00 0.00 40.22 4.95
150 151 2.349580 GCGTGAAAGTACGGAAATACCC 59.650 50.000 0.00 0.00 43.87 3.69
151 152 2.349580 GGCGTGAAAGTACGGAAATACC 59.650 50.000 0.00 0.00 43.87 2.73
152 153 2.995258 TGGCGTGAAAGTACGGAAATAC 59.005 45.455 0.00 0.00 43.87 1.89
153 154 3.316071 TGGCGTGAAAGTACGGAAATA 57.684 42.857 0.00 0.00 43.87 1.40
154 155 2.172851 TGGCGTGAAAGTACGGAAAT 57.827 45.000 0.00 0.00 43.87 2.17
155 156 2.172851 ATGGCGTGAAAGTACGGAAA 57.827 45.000 0.00 0.00 43.87 3.13
156 157 2.172851 AATGGCGTGAAAGTACGGAA 57.827 45.000 0.00 0.00 43.87 4.30
157 158 2.070783 GAAATGGCGTGAAAGTACGGA 58.929 47.619 0.00 0.00 43.87 4.69
158 159 1.801771 TGAAATGGCGTGAAAGTACGG 59.198 47.619 0.00 0.00 43.87 4.02
159 160 3.370978 AGATGAAATGGCGTGAAAGTACG 59.629 43.478 0.00 0.00 46.28 3.67
160 161 4.437390 CCAGATGAAATGGCGTGAAAGTAC 60.437 45.833 0.00 0.00 0.00 2.73
161 162 3.689161 CCAGATGAAATGGCGTGAAAGTA 59.311 43.478 0.00 0.00 0.00 2.24
162 163 2.489329 CCAGATGAAATGGCGTGAAAGT 59.511 45.455 0.00 0.00 0.00 2.66
163 164 2.489329 ACCAGATGAAATGGCGTGAAAG 59.511 45.455 0.00 0.00 41.87 2.62
164 165 2.487762 GACCAGATGAAATGGCGTGAAA 59.512 45.455 0.00 0.00 41.87 2.69
165 166 2.083774 GACCAGATGAAATGGCGTGAA 58.916 47.619 0.00 0.00 41.87 3.18
166 167 1.737838 GACCAGATGAAATGGCGTGA 58.262 50.000 0.00 0.00 41.87 4.35
167 168 0.374758 CGACCAGATGAAATGGCGTG 59.625 55.000 0.00 0.00 41.87 5.34
168 169 0.744414 CCGACCAGATGAAATGGCGT 60.744 55.000 0.00 0.00 41.87 5.68
169 170 0.461870 TCCGACCAGATGAAATGGCG 60.462 55.000 0.00 0.00 41.87 5.69
170 171 1.401905 GTTCCGACCAGATGAAATGGC 59.598 52.381 0.00 0.00 41.87 4.40
171 172 1.665679 CGTTCCGACCAGATGAAATGG 59.334 52.381 0.00 0.00 43.87 3.16
172 173 2.616960 TCGTTCCGACCAGATGAAATG 58.383 47.619 0.00 0.00 0.00 2.32
173 174 3.328382 TTCGTTCCGACCAGATGAAAT 57.672 42.857 0.00 0.00 34.89 2.17
174 175 2.803956 GTTTCGTTCCGACCAGATGAAA 59.196 45.455 0.00 0.00 34.89 2.69
175 176 2.409975 GTTTCGTTCCGACCAGATGAA 58.590 47.619 0.00 0.00 34.89 2.57
176 177 1.337447 GGTTTCGTTCCGACCAGATGA 60.337 52.381 0.00 0.00 34.89 2.92
177 178 1.076332 GGTTTCGTTCCGACCAGATG 58.924 55.000 0.00 0.00 34.89 2.90
178 179 0.036671 GGGTTTCGTTCCGACCAGAT 60.037 55.000 0.00 0.00 34.89 2.90
179 180 1.368579 GGGTTTCGTTCCGACCAGA 59.631 57.895 0.00 0.00 34.89 3.86
180 181 1.670083 GGGGTTTCGTTCCGACCAG 60.670 63.158 0.00 0.00 34.89 4.00
181 182 2.426887 GGGGTTTCGTTCCGACCA 59.573 61.111 0.00 0.00 34.89 4.02
182 183 2.359107 GGGGGTTTCGTTCCGACC 60.359 66.667 0.00 0.00 34.89 4.79
183 184 1.227913 TTGGGGGTTTCGTTCCGAC 60.228 57.895 0.00 0.00 34.89 4.79
184 185 1.227913 GTTGGGGGTTTCGTTCCGA 60.228 57.895 0.00 0.00 0.00 4.55
185 186 1.102222 TTGTTGGGGGTTTCGTTCCG 61.102 55.000 0.00 0.00 0.00 4.30
186 187 1.334160 ATTGTTGGGGGTTTCGTTCC 58.666 50.000 0.00 0.00 0.00 3.62
187 188 4.587584 TTTATTGTTGGGGGTTTCGTTC 57.412 40.909 0.00 0.00 0.00 3.95
188 189 6.667558 TTATTTATTGTTGGGGGTTTCGTT 57.332 33.333 0.00 0.00 0.00 3.85
189 190 6.667558 TTTATTTATTGTTGGGGGTTTCGT 57.332 33.333 0.00 0.00 0.00 3.85
190 191 6.474102 CGATTTATTTATTGTTGGGGGTTTCG 59.526 38.462 0.00 0.00 0.00 3.46
191 192 6.759356 CCGATTTATTTATTGTTGGGGGTTTC 59.241 38.462 0.00 0.00 0.00 2.78
192 193 6.440965 TCCGATTTATTTATTGTTGGGGGTTT 59.559 34.615 0.00 0.00 0.00 3.27
193 194 5.958987 TCCGATTTATTTATTGTTGGGGGTT 59.041 36.000 0.00 0.00 0.00 4.11
194 195 5.520751 TCCGATTTATTTATTGTTGGGGGT 58.479 37.500 0.00 0.00 0.00 4.95
195 196 6.127310 TGTTCCGATTTATTTATTGTTGGGGG 60.127 38.462 0.00 0.00 0.00 5.40
196 197 6.868622 TGTTCCGATTTATTTATTGTTGGGG 58.131 36.000 0.00 0.00 0.00 4.96
197 198 7.767261 TCTGTTCCGATTTATTTATTGTTGGG 58.233 34.615 0.00 0.00 0.00 4.12
198 199 7.915397 CCTCTGTTCCGATTTATTTATTGTTGG 59.085 37.037 0.00 0.00 0.00 3.77
199 200 7.915397 CCCTCTGTTCCGATTTATTTATTGTTG 59.085 37.037 0.00 0.00 0.00 3.33
200 201 7.832187 TCCCTCTGTTCCGATTTATTTATTGTT 59.168 33.333 0.00 0.00 0.00 2.83
201 202 7.343357 TCCCTCTGTTCCGATTTATTTATTGT 58.657 34.615 0.00 0.00 0.00 2.71
202 203 7.499232 ACTCCCTCTGTTCCGATTTATTTATTG 59.501 37.037 0.00 0.00 0.00 1.90
203 204 7.574607 ACTCCCTCTGTTCCGATTTATTTATT 58.425 34.615 0.00 0.00 0.00 1.40
204 205 7.138054 ACTCCCTCTGTTCCGATTTATTTAT 57.862 36.000 0.00 0.00 0.00 1.40
205 206 6.555463 ACTCCCTCTGTTCCGATTTATTTA 57.445 37.500 0.00 0.00 0.00 1.40
206 207 5.437191 ACTCCCTCTGTTCCGATTTATTT 57.563 39.130 0.00 0.00 0.00 1.40
207 208 6.749036 ATACTCCCTCTGTTCCGATTTATT 57.251 37.500 0.00 0.00 0.00 1.40
208 209 6.749036 AATACTCCCTCTGTTCCGATTTAT 57.251 37.500 0.00 0.00 0.00 1.40
209 210 6.070424 ACAAATACTCCCTCTGTTCCGATTTA 60.070 38.462 0.00 0.00 0.00 1.40
210 211 5.186198 CAAATACTCCCTCTGTTCCGATTT 58.814 41.667 0.00 0.00 0.00 2.17
211 212 4.225267 ACAAATACTCCCTCTGTTCCGATT 59.775 41.667 0.00 0.00 0.00 3.34
212 213 3.775316 ACAAATACTCCCTCTGTTCCGAT 59.225 43.478 0.00 0.00 0.00 4.18
213 214 3.170717 ACAAATACTCCCTCTGTTCCGA 58.829 45.455 0.00 0.00 0.00 4.55
214 215 3.195825 AGACAAATACTCCCTCTGTTCCG 59.804 47.826 0.00 0.00 0.00 4.30
215 216 4.508662 CAGACAAATACTCCCTCTGTTCC 58.491 47.826 0.00 0.00 0.00 3.62
216 217 4.020128 ACCAGACAAATACTCCCTCTGTTC 60.020 45.833 0.00 0.00 0.00 3.18
217 218 3.910627 ACCAGACAAATACTCCCTCTGTT 59.089 43.478 0.00 0.00 0.00 3.16
218 219 3.521727 ACCAGACAAATACTCCCTCTGT 58.478 45.455 0.00 0.00 0.00 3.41
219 220 4.442192 GCTACCAGACAAATACTCCCTCTG 60.442 50.000 0.00 0.00 0.00 3.35
220 221 3.707102 GCTACCAGACAAATACTCCCTCT 59.293 47.826 0.00 0.00 0.00 3.69
221 222 3.707102 AGCTACCAGACAAATACTCCCTC 59.293 47.826 0.00 0.00 0.00 4.30
222 223 3.452627 CAGCTACCAGACAAATACTCCCT 59.547 47.826 0.00 0.00 0.00 4.20
223 224 3.432326 CCAGCTACCAGACAAATACTCCC 60.432 52.174 0.00 0.00 0.00 4.30
224 225 3.432326 CCCAGCTACCAGACAAATACTCC 60.432 52.174 0.00 0.00 0.00 3.85
225 226 3.798202 CCCAGCTACCAGACAAATACTC 58.202 50.000 0.00 0.00 0.00 2.59
226 227 2.092914 GCCCAGCTACCAGACAAATACT 60.093 50.000 0.00 0.00 0.00 2.12
227 228 2.092914 AGCCCAGCTACCAGACAAATAC 60.093 50.000 0.00 0.00 36.99 1.89
281 282 1.760192 AGAGCTGCCAATTCATCACC 58.240 50.000 0.00 0.00 0.00 4.02
400 401 3.685550 CGCCTCCAATTGTTCTCCCTAAT 60.686 47.826 4.43 0.00 0.00 1.73
422 423 1.730612 GTCTTACGTACTGCAAAGGGC 59.269 52.381 0.00 0.00 45.13 5.19
423 424 3.314541 AGTCTTACGTACTGCAAAGGG 57.685 47.619 0.00 0.00 0.00 3.95
424 425 4.082354 AGGTAGTCTTACGTACTGCAAAGG 60.082 45.833 7.25 0.00 31.90 3.11
425 426 5.056894 AGGTAGTCTTACGTACTGCAAAG 57.943 43.478 7.25 0.00 31.90 2.77
426 427 5.942872 GTAGGTAGTCTTACGTACTGCAAA 58.057 41.667 7.25 0.00 43.11 3.68
440 441 8.577296 TCTGCATATAATGTTCAGTAGGTAGTC 58.423 37.037 0.00 0.00 0.00 2.59
443 444 8.245195 TGTCTGCATATAATGTTCAGTAGGTA 57.755 34.615 0.00 0.00 0.00 3.08
465 466 9.683069 AGTGAAAGAAATGACACAAATAATGTC 57.317 29.630 0.00 0.00 45.58 3.06
586 587 5.342866 ACTACCAGTCCCTCTGTTAAAGAT 58.657 41.667 0.00 0.00 42.19 2.40
587 588 4.748701 ACTACCAGTCCCTCTGTTAAAGA 58.251 43.478 0.00 0.00 42.19 2.52
644 645 3.748568 AGGACAAATTTGAGAACGAGAGC 59.251 43.478 24.64 1.27 0.00 4.09
696 702 3.165058 AGAATTAGATGCAAGCGTCGA 57.835 42.857 8.48 0.88 37.08 4.20
784 794 3.515502 TCACCAGGAAGGACAAGTATCTG 59.484 47.826 0.00 0.00 41.22 2.90
1627 1664 2.351418 TCTTTGCAACAACACTCTGTCG 59.649 45.455 0.00 0.00 0.00 4.35
1692 1729 2.329539 GAAGATCATGGAGGGCGCCA 62.330 60.000 30.85 7.96 43.23 5.69
1759 1796 1.367840 GCTGTGGGGGCTCTATACG 59.632 63.158 0.00 0.00 0.00 3.06
2548 2884 5.694458 GCCAAAATGGAATTAACGAACAGTT 59.306 36.000 0.00 0.00 40.96 3.16
2555 2891 6.307800 CACTTACTGCCAAAATGGAATTAACG 59.692 38.462 0.00 0.00 40.96 3.18
2574 2910 2.846193 TGGCCTCAAAGTGACACTTAC 58.154 47.619 20.85 8.56 37.47 2.34
2623 2959 8.999431 GGTAACAAATATTTCTTCTCAGTGTCA 58.001 33.333 0.00 0.00 0.00 3.58
2649 2987 3.364366 GGAGTTTGATCTTTGAGCACGTG 60.364 47.826 12.28 12.28 0.00 4.49
2820 3158 3.201266 AGGTCTCTCCATCGAACTAGTCT 59.799 47.826 0.00 0.00 39.02 3.24
2835 3173 3.318017 CACATTTTCGACGAAGGTCTCT 58.682 45.455 10.61 0.00 41.16 3.10
2845 3183 1.133025 CATGGGGAGCACATTTTCGAC 59.867 52.381 0.00 0.00 0.00 4.20
2913 3252 1.134551 GCCGCCTTCTCATTCTTCTCT 60.135 52.381 0.00 0.00 0.00 3.10
3006 3345 0.104120 CATCATACCCGAAGCCGACA 59.896 55.000 0.00 0.00 38.22 4.35
3012 3351 1.620819 CCCTCTCCATCATACCCGAAG 59.379 57.143 0.00 0.00 0.00 3.79
3080 3420 2.766313 TGGCATAGATCACGTAATGGC 58.234 47.619 0.00 11.22 43.18 4.40
3155 3495 5.696724 CGGGACTCCAAATAACATGACTATC 59.303 44.000 0.00 0.00 0.00 2.08
3190 3530 2.175715 AGCTTTCCAACCTCTCCAAAGT 59.824 45.455 0.00 0.00 0.00 2.66
3233 3573 1.300233 CTCTCCGCGATAACAGCCC 60.300 63.158 8.23 0.00 0.00 5.19
3269 3609 2.032808 TCAGTCGCTCGAGTATGAATCG 60.033 50.000 15.13 7.15 41.50 3.34
3304 3644 0.554305 TCAGAAGCCATGGCCATCAT 59.446 50.000 33.14 11.80 43.17 2.45
3327 3667 1.414550 GTCTCCTCCCTAGCATGGTTC 59.585 57.143 1.12 0.00 0.00 3.62
3358 3698 0.320771 CGACCAGAAACCACCTCCTG 60.321 60.000 0.00 0.00 0.00 3.86
3367 3707 1.282930 GACGAGGCACGACCAGAAAC 61.283 60.000 12.15 0.00 45.77 2.78
3377 3717 2.187946 CTCCCATGGACGAGGCAC 59.812 66.667 15.22 0.00 0.00 5.01
3378 3718 3.083349 CCTCCCATGGACGAGGCA 61.083 66.667 20.33 0.00 39.36 4.75
3379 3719 2.764128 TCCTCCCATGGACGAGGC 60.764 66.667 25.01 0.00 44.61 4.70
3380 3720 3.221222 GTCCTCCCATGGACGAGG 58.779 66.667 24.23 24.23 45.69 4.63
3385 3725 1.078528 AGTCACGTCCTCCCATGGA 59.921 57.895 15.22 0.00 0.00 3.41
3386 3726 1.219124 CAGTCACGTCCTCCCATGG 59.781 63.158 4.14 4.14 0.00 3.66
3387 3727 0.390340 CACAGTCACGTCCTCCCATG 60.390 60.000 0.00 0.00 0.00 3.66
3388 3728 1.544825 CCACAGTCACGTCCTCCCAT 61.545 60.000 0.00 0.00 0.00 4.00
3389 3729 2.207229 CCACAGTCACGTCCTCCCA 61.207 63.158 0.00 0.00 0.00 4.37
3390 3730 2.657237 CCACAGTCACGTCCTCCC 59.343 66.667 0.00 0.00 0.00 4.30
3391 3731 2.657237 CCCACAGTCACGTCCTCC 59.343 66.667 0.00 0.00 0.00 4.30
3392 3732 2.048127 GCCCACAGTCACGTCCTC 60.048 66.667 0.00 0.00 0.00 3.71
3393 3733 3.991051 CGCCCACAGTCACGTCCT 61.991 66.667 0.00 0.00 0.00 3.85
3398 3738 2.954753 CTTTCGCGCCCACAGTCAC 61.955 63.158 0.00 0.00 0.00 3.67
3399 3739 2.664851 CTTTCGCGCCCACAGTCA 60.665 61.111 0.00 0.00 0.00 3.41
3400 3740 2.357034 TCTTTCGCGCCCACAGTC 60.357 61.111 0.00 0.00 0.00 3.51
3401 3741 2.357517 CTCTTTCGCGCCCACAGT 60.358 61.111 0.00 0.00 0.00 3.55
3402 3742 3.121030 CCTCTTTCGCGCCCACAG 61.121 66.667 0.00 0.00 0.00 3.66
3403 3743 3.876589 GACCTCTTTCGCGCCCACA 62.877 63.158 0.00 0.00 0.00 4.17
3404 3744 3.119096 GACCTCTTTCGCGCCCAC 61.119 66.667 0.00 0.00 0.00 4.61
3405 3745 4.735132 CGACCTCTTTCGCGCCCA 62.735 66.667 0.00 0.00 31.03 5.36
3406 3746 4.430765 TCGACCTCTTTCGCGCCC 62.431 66.667 0.00 0.00 38.95 6.13
3407 3747 2.881352 CTCGACCTCTTTCGCGCC 60.881 66.667 0.00 0.00 38.95 6.53
3408 3748 3.546397 GCTCGACCTCTTTCGCGC 61.546 66.667 0.00 0.00 41.93 6.86
3409 3749 2.881352 GGCTCGACCTCTTTCGCG 60.881 66.667 0.00 0.00 38.95 5.87
3410 3750 2.881352 CGGCTCGACCTCTTTCGC 60.881 66.667 3.15 0.00 38.95 4.70


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

AutoCloner maintained by Alex Coulton.