Multiple sequence alignment - TraesCS1D01G277700

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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 TraesCS1D01G277700 chr1D 100.000 2414 0 0 1 2414 374485498 374483085 0.000000e+00 4458
1 TraesCS1D01G277700 chr1D 93.478 322 19 1 200 521 374584158 374583839 6.040000e-131 477
2 TraesCS1D01G277700 chr1D 90.301 299 17 8 535 831 374577418 374577130 4.870000e-102 381
3 TraesCS1D01G277700 chr1D 86.147 231 28 2 370 596 366857641 366857411 1.850000e-61 246
4 TraesCS1D01G277700 chr1D 86.344 227 28 1 372 595 486683969 486683743 6.670000e-61 244
5 TraesCS1D01G277700 chr1B 91.135 1613 92 17 827 2414 499546952 499545366 0.000000e+00 2139
6 TraesCS1D01G277700 chr1B 90.207 531 42 7 199 726 499548957 499548434 0.000000e+00 684
7 TraesCS1D01G277700 chr1B 95.876 291 11 1 2016 2306 683722870 683723159 1.010000e-128 470
8 TraesCS1D01G277700 chr1B 95.533 291 12 1 2016 2306 583525497 583525786 4.700000e-127 464
9 TraesCS1D01G277700 chr1A 89.263 950 64 19 885 1806 474260757 474259818 0.000000e+00 1155
10 TraesCS1D01G277700 chr1A 87.990 408 38 6 376 777 474285635 474285233 2.810000e-129 472
11 TraesCS1D01G277700 chr1A 91.346 208 14 2 1 204 474420436 474420229 5.080000e-72 281
12 TraesCS1D01G277700 chr1A 92.308 78 6 0 301 378 474286242 474286165 7.050000e-21 111
13 TraesCS1D01G277700 chr2A 95.876 291 11 1 2016 2306 755502311 755502600 1.010000e-128 470
14 TraesCS1D01G277700 chr2A 94.966 298 12 3 2016 2311 563267913 563267617 4.700000e-127 464
15 TraesCS1D01G277700 chr2A 92.118 203 10 4 1 199 733930426 733930226 5.080000e-72 281
16 TraesCS1D01G277700 chr2A 92.079 202 11 4 1 198 136058331 136058531 1.830000e-71 279
17 TraesCS1D01G277700 chr2A 91.228 171 15 0 991 1161 718572272 718572102 1.440000e-57 233
18 TraesCS1D01G277700 chr7A 95.533 291 12 1 2016 2306 671984945 671985234 4.700000e-127 464
19 TraesCS1D01G277700 chr7A 80.800 250 40 7 366 613 65054548 65054791 3.170000e-44 189
20 TraesCS1D01G277700 chr5A 95.533 291 12 1 2016 2306 31590694 31590983 4.700000e-127 464
21 TraesCS1D01G277700 chr5A 95.533 291 12 1 2016 2306 31655840 31656129 4.700000e-127 464
22 TraesCS1D01G277700 chr5A 95.533 291 12 1 2016 2306 559083214 559083503 4.700000e-127 464
23 TraesCS1D01G277700 chr7D 93.069 202 10 3 1 198 164631604 164631805 2.350000e-75 292
24 TraesCS1D01G277700 chr2B 80.000 450 46 32 991 1415 703978219 703977789 2.350000e-75 292
25 TraesCS1D01G277700 chr2B 87.264 212 26 1 371 581 449826846 449827057 8.620000e-60 241
26 TraesCS1D01G277700 chr6B 92.157 204 12 2 1 200 65159953 65160156 3.930000e-73 285
27 TraesCS1D01G277700 chrUn 92.118 203 12 3 1 199 50799045 50799247 1.410000e-72 283
28 TraesCS1D01G277700 chr4B 87.654 243 25 4 372 613 183525224 183524986 6.570000e-71 278
29 TraesCS1D01G277700 chr2D 91.667 204 11 4 1 198 3954389 3954186 6.570000e-71 278
30 TraesCS1D01G277700 chr2D 91.667 204 11 4 1 198 4016583 4016380 6.570000e-71 278
31 TraesCS1D01G277700 chr2D 77.682 466 46 31 995 1421 584527350 584526904 5.190000e-57 231
32 TraesCS1D01G277700 chr6A 91.626 203 11 3 1 199 557141677 557141877 2.360000e-70 276
33 TraesCS1D01G277700 chr3B 87.225 227 25 2 372 595 30984565 30984340 3.080000e-64 255
34 TraesCS1D01G277700 chr5B 84.426 244 33 4 372 614 91204344 91204583 4.010000e-58 235


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 TraesCS1D01G277700 chr1D 374483085 374485498 2413 True 4458.0 4458 100.000 1 2414 1 chr1D.!!$R2 2413
1 TraesCS1D01G277700 chr1B 499545366 499548957 3591 True 1411.5 2139 90.671 199 2414 2 chr1B.!!$R1 2215
2 TraesCS1D01G277700 chr1A 474259818 474260757 939 True 1155.0 1155 89.263 885 1806 1 chr1A.!!$R1 921
3 TraesCS1D01G277700 chr1A 474285233 474286242 1009 True 291.5 472 90.149 301 777 2 chr1A.!!$R3 476

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
777 2673 0.032952 ACGGAGTAACAGCGAGCAAA 59.967 50.0 0.0 0.0 41.94 3.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2142 4112 0.447801 GACGTAACTAGACCGCGGAA 59.552 55.0 35.9 15.87 0.0 4.3 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
50 51 8.442632 TTTATTTCACCATCAATTTGTTTGCA 57.557 26.923 0.00 0.00 35.16 4.08
51 52 8.618702 TTATTTCACCATCAATTTGTTTGCAT 57.381 26.923 0.00 0.00 35.16 3.96
52 53 5.926214 TTCACCATCAATTTGTTTGCATG 57.074 34.783 0.00 0.00 35.16 4.06
53 54 4.958509 TCACCATCAATTTGTTTGCATGT 58.041 34.783 0.00 0.00 35.16 3.21
54 55 6.094193 TCACCATCAATTTGTTTGCATGTA 57.906 33.333 0.00 0.00 35.16 2.29
55 56 6.519382 TCACCATCAATTTGTTTGCATGTAA 58.481 32.000 0.00 0.00 35.16 2.41
56 57 7.160049 TCACCATCAATTTGTTTGCATGTAAT 58.840 30.769 0.00 0.00 35.16 1.89
57 58 7.660617 TCACCATCAATTTGTTTGCATGTAATT 59.339 29.630 0.00 0.00 35.16 1.40
58 59 8.933807 CACCATCAATTTGTTTGCATGTAATTA 58.066 29.630 0.00 0.00 35.16 1.40
59 60 8.934825 ACCATCAATTTGTTTGCATGTAATTAC 58.065 29.630 8.75 8.75 35.16 1.89
60 61 9.153721 CCATCAATTTGTTTGCATGTAATTACT 57.846 29.630 16.33 0.00 35.16 2.24
84 85 9.074576 ACTATAAATGTACACGGTAGATCATCA 57.925 33.333 0.00 0.00 0.00 3.07
85 86 9.908152 CTATAAATGTACACGGTAGATCATCAA 57.092 33.333 0.00 0.00 0.00 2.57
87 88 9.778741 ATAAATGTACACGGTAGATCATCAATT 57.221 29.630 0.00 0.00 0.00 2.32
88 89 8.506168 AAATGTACACGGTAGATCATCAATTT 57.494 30.769 0.00 0.00 0.00 1.82
89 90 8.506168 AATGTACACGGTAGATCATCAATTTT 57.494 30.769 0.00 0.00 0.00 1.82
90 91 7.534085 TGTACACGGTAGATCATCAATTTTC 57.466 36.000 0.00 0.00 0.00 2.29
91 92 7.100409 TGTACACGGTAGATCATCAATTTTCA 58.900 34.615 0.00 0.00 0.00 2.69
92 93 7.604545 TGTACACGGTAGATCATCAATTTTCAA 59.395 33.333 0.00 0.00 0.00 2.69
93 94 7.447374 ACACGGTAGATCATCAATTTTCAAA 57.553 32.000 0.00 0.00 0.00 2.69
94 95 8.055279 ACACGGTAGATCATCAATTTTCAAAT 57.945 30.769 0.00 0.00 0.00 2.32
95 96 8.522830 ACACGGTAGATCATCAATTTTCAAATT 58.477 29.630 0.00 0.00 39.07 1.82
127 128 8.640063 AGTCATTTTAGCCATAATCATATGCA 57.360 30.769 0.00 0.00 38.06 3.96
128 129 9.251440 AGTCATTTTAGCCATAATCATATGCAT 57.749 29.630 3.79 3.79 38.06 3.96
137 138 9.175312 AGCCATAATCATATGCATAGAAAGAAG 57.825 33.333 12.79 0.63 38.06 2.85
138 139 8.404000 GCCATAATCATATGCATAGAAAGAAGG 58.596 37.037 12.79 10.13 38.06 3.46
139 140 9.676861 CCATAATCATATGCATAGAAAGAAGGA 57.323 33.333 12.79 0.00 38.06 3.36
143 144 9.638176 AATCATATGCATAGAAAGAAGGAAAGT 57.362 29.630 12.79 0.00 0.00 2.66
144 145 9.638176 ATCATATGCATAGAAAGAAGGAAAGTT 57.362 29.630 12.79 0.00 0.00 2.66
147 148 7.872113 ATGCATAGAAAGAAGGAAAGTTAGG 57.128 36.000 0.00 0.00 0.00 2.69
148 149 6.180472 TGCATAGAAAGAAGGAAAGTTAGGG 58.820 40.000 0.00 0.00 0.00 3.53
149 150 6.181190 GCATAGAAAGAAGGAAAGTTAGGGT 58.819 40.000 0.00 0.00 0.00 4.34
150 151 7.037873 TGCATAGAAAGAAGGAAAGTTAGGGTA 60.038 37.037 0.00 0.00 0.00 3.69
151 152 7.993758 GCATAGAAAGAAGGAAAGTTAGGGTAT 59.006 37.037 0.00 0.00 0.00 2.73
152 153 9.549078 CATAGAAAGAAGGAAAGTTAGGGTATC 57.451 37.037 0.00 0.00 0.00 2.24
153 154 6.641474 AGAAAGAAGGAAAGTTAGGGTATCG 58.359 40.000 0.00 0.00 0.00 2.92
154 155 6.212993 AGAAAGAAGGAAAGTTAGGGTATCGT 59.787 38.462 0.00 0.00 0.00 3.73
155 156 7.398332 AGAAAGAAGGAAAGTTAGGGTATCGTA 59.602 37.037 0.00 0.00 0.00 3.43
156 157 6.712179 AGAAGGAAAGTTAGGGTATCGTAG 57.288 41.667 0.00 0.00 0.00 3.51
157 158 4.933505 AGGAAAGTTAGGGTATCGTAGC 57.066 45.455 0.00 0.00 0.00 3.58
158 159 4.544683 AGGAAAGTTAGGGTATCGTAGCT 58.455 43.478 0.00 0.00 0.00 3.32
159 160 4.961099 AGGAAAGTTAGGGTATCGTAGCTT 59.039 41.667 0.00 0.00 36.72 3.74
160 161 5.068855 AGGAAAGTTAGGGTATCGTAGCTTC 59.931 44.000 5.44 0.00 35.03 3.86
161 162 5.068855 GGAAAGTTAGGGTATCGTAGCTTCT 59.931 44.000 5.44 0.00 35.03 2.85
162 163 5.771153 AAGTTAGGGTATCGTAGCTTCTC 57.229 43.478 0.00 0.00 32.13 2.87
163 164 5.051409 AGTTAGGGTATCGTAGCTTCTCT 57.949 43.478 0.00 0.00 0.00 3.10
164 165 6.185114 AGTTAGGGTATCGTAGCTTCTCTA 57.815 41.667 0.00 0.00 0.00 2.43
165 166 6.599445 AGTTAGGGTATCGTAGCTTCTCTAA 58.401 40.000 0.00 0.00 0.00 2.10
166 167 6.486320 AGTTAGGGTATCGTAGCTTCTCTAAC 59.514 42.308 0.00 0.00 36.20 2.34
167 168 4.789807 AGGGTATCGTAGCTTCTCTAACA 58.210 43.478 0.00 0.00 0.00 2.41
168 169 5.386924 AGGGTATCGTAGCTTCTCTAACAT 58.613 41.667 0.00 0.00 0.00 2.71
169 170 5.834204 AGGGTATCGTAGCTTCTCTAACATT 59.166 40.000 0.00 0.00 0.00 2.71
170 171 6.016108 AGGGTATCGTAGCTTCTCTAACATTC 60.016 42.308 0.00 0.00 0.00 2.67
171 172 6.151004 GGTATCGTAGCTTCTCTAACATTCC 58.849 44.000 0.00 0.00 0.00 3.01
172 173 6.016108 GGTATCGTAGCTTCTCTAACATTCCT 60.016 42.308 0.00 0.00 0.00 3.36
173 174 5.916661 TCGTAGCTTCTCTAACATTCCTT 57.083 39.130 0.00 0.00 0.00 3.36
174 175 5.892568 TCGTAGCTTCTCTAACATTCCTTC 58.107 41.667 0.00 0.00 0.00 3.46
175 176 5.652891 TCGTAGCTTCTCTAACATTCCTTCT 59.347 40.000 0.00 0.00 0.00 2.85
176 177 5.974751 CGTAGCTTCTCTAACATTCCTTCTC 59.025 44.000 0.00 0.00 0.00 2.87
177 178 6.404844 CGTAGCTTCTCTAACATTCCTTCTCA 60.405 42.308 0.00 0.00 0.00 3.27
178 179 6.365970 AGCTTCTCTAACATTCCTTCTCAA 57.634 37.500 0.00 0.00 0.00 3.02
179 180 6.956497 AGCTTCTCTAACATTCCTTCTCAAT 58.044 36.000 0.00 0.00 0.00 2.57
180 181 6.822676 AGCTTCTCTAACATTCCTTCTCAATG 59.177 38.462 0.00 0.00 37.29 2.82
181 182 6.597280 GCTTCTCTAACATTCCTTCTCAATGT 59.403 38.462 0.00 0.00 44.67 2.71
188 189 6.627087 ACATTCCTTCTCAATGTTAGAGGA 57.373 37.500 0.00 0.00 40.83 3.71
189 190 7.205515 ACATTCCTTCTCAATGTTAGAGGAT 57.794 36.000 0.00 0.00 40.83 3.24
190 191 7.278875 ACATTCCTTCTCAATGTTAGAGGATC 58.721 38.462 0.00 0.00 40.83 3.36
191 192 5.878406 TCCTTCTCAATGTTAGAGGATCC 57.122 43.478 2.48 2.48 33.66 3.36
192 193 4.342378 TCCTTCTCAATGTTAGAGGATCCG 59.658 45.833 5.98 0.00 33.66 4.18
193 194 4.502259 CCTTCTCAATGTTAGAGGATCCGG 60.502 50.000 5.98 0.00 33.66 5.14
194 195 3.643237 TCTCAATGTTAGAGGATCCGGT 58.357 45.455 5.98 0.00 33.66 5.28
195 196 4.030913 TCTCAATGTTAGAGGATCCGGTT 58.969 43.478 5.98 0.00 33.66 4.44
196 197 4.099573 TCTCAATGTTAGAGGATCCGGTTC 59.900 45.833 5.98 1.67 33.66 3.62
197 198 3.134081 TCAATGTTAGAGGATCCGGTTCC 59.866 47.826 22.05 22.05 33.66 3.62
210 211 2.183555 GTTCCGGTCTAGCCCACG 59.816 66.667 0.00 0.00 0.00 4.94
236 237 2.094854 GGCTTGGTGCAATCTTCTTCTG 60.095 50.000 0.00 0.00 45.15 3.02
290 291 5.028375 GCTCATCGCCTATTTTACAACAAC 58.972 41.667 0.00 0.00 0.00 3.32
296 297 4.616802 CGCCTATTTTACAACAACTGCAAG 59.383 41.667 0.00 0.00 42.29 4.01
316 317 1.849219 GTTGTGCAATTTTCAACGCGA 59.151 42.857 15.93 0.00 33.53 5.87
336 337 4.684703 GCGACTCATTTAGTTACTGTGTGT 59.315 41.667 0.00 0.00 39.07 3.72
380 913 4.160626 GCAGGACAATGAAGTACTACCTCT 59.839 45.833 0.00 0.00 29.56 3.69
401 934 1.149782 TCTGGGTTTATTGGCCCCCA 61.150 55.000 13.88 13.88 44.84 4.96
403 936 0.419459 TGGGTTTATTGGCCCCCATT 59.581 50.000 10.89 0.00 42.21 3.16
430 963 1.039856 GTGCCCAACTTTGACCACAT 58.960 50.000 6.93 0.00 32.79 3.21
441 974 8.356657 CCAACTTTGACCACATATTTGACTAAA 58.643 33.333 0.00 0.00 0.00 1.85
497 1034 8.937634 ATTGTTGGATTCATATTTGAAAGAGC 57.062 30.769 2.59 0.00 44.70 4.09
595 1136 7.682787 ACTACAAGGACTAATGAATCAGGAT 57.317 36.000 0.00 0.00 0.00 3.24
596 1137 8.095452 ACTACAAGGACTAATGAATCAGGATT 57.905 34.615 0.00 0.00 0.00 3.01
597 1138 8.207545 ACTACAAGGACTAATGAATCAGGATTC 58.792 37.037 13.73 13.73 45.55 2.52
619 1160 2.042162 AGGACGGAGGTAGTAACAAGGA 59.958 50.000 0.00 0.00 0.00 3.36
643 1184 9.688592 GGAATTAGATGATTTGCCTCATTTTAG 57.311 33.333 0.00 0.00 36.01 1.85
660 1202 6.612456 TCATTTTAGAGGGGATGCATGATTTT 59.388 34.615 2.46 0.00 0.00 1.82
670 1212 4.405358 GGATGCATGATTTTCCCAAGGTTA 59.595 41.667 2.46 0.00 0.00 2.85
707 1249 3.101209 CGGCCACATCCGTCAATG 58.899 61.111 2.24 0.00 44.18 2.82
708 1250 2.472059 CGGCCACATCCGTCAATGG 61.472 63.158 2.24 0.00 44.18 3.16
709 1251 1.378514 GGCCACATCCGTCAATGGT 60.379 57.895 0.00 0.00 34.50 3.55
712 1256 0.322456 CCACATCCGTCAATGGTGGT 60.322 55.000 0.00 0.00 0.00 4.16
777 2673 0.032952 ACGGAGTAACAGCGAGCAAA 59.967 50.000 0.00 0.00 41.94 3.68
836 2761 2.941720 CTCTTTACATGAGCCCAGAAGC 59.058 50.000 0.00 0.00 0.00 3.86
846 2771 1.168714 GCCCAGAAGCAAAGACGAAT 58.831 50.000 0.00 0.00 0.00 3.34
849 2774 2.417933 CCCAGAAGCAAAGACGAATCTG 59.582 50.000 0.00 0.00 34.48 2.90
870 2795 2.359850 GCAACCATCTCACGGCCA 60.360 61.111 2.24 0.00 0.00 5.36
871 2796 1.750399 GCAACCATCTCACGGCCAT 60.750 57.895 2.24 0.00 0.00 4.40
872 2797 0.463654 GCAACCATCTCACGGCCATA 60.464 55.000 2.24 0.00 0.00 2.74
873 2798 1.815408 GCAACCATCTCACGGCCATAT 60.815 52.381 2.24 0.00 0.00 1.78
874 2799 2.549992 GCAACCATCTCACGGCCATATA 60.550 50.000 2.24 0.00 0.00 0.86
875 2800 3.067106 CAACCATCTCACGGCCATATAC 58.933 50.000 2.24 0.00 0.00 1.47
877 2802 2.703536 ACCATCTCACGGCCATATACAA 59.296 45.455 2.24 0.00 0.00 2.41
909 2834 4.641645 CAGCACGGTTCCAGCCCA 62.642 66.667 0.00 0.00 0.00 5.36
913 2838 3.953775 ACGGTTCCAGCCCACCAG 61.954 66.667 0.00 0.00 31.84 4.00
947 2872 3.334751 CGCCAGCGTTCGTTCACA 61.335 61.111 3.35 0.00 34.35 3.58
950 2875 2.604174 CCAGCGTTCGTTCACACCC 61.604 63.158 0.00 0.00 0.00 4.61
960 2885 1.538876 TTCACACCCCTCTCCCCTG 60.539 63.158 0.00 0.00 0.00 4.45
1005 2942 3.053455 GGAAAGTGGATCGACGATGATC 58.947 50.000 16.49 1.22 43.26 2.92
1011 2948 0.244994 GATCGACGATGATCTGGGGG 59.755 60.000 16.49 0.00 41.26 5.40
1171 3114 4.468689 GGGTACGTGCTGGGCCTC 62.469 72.222 4.53 0.00 0.00 4.70
1228 3171 0.033109 CCCAATCTTCCCCTCCCAAC 60.033 60.000 0.00 0.00 0.00 3.77
1232 3175 0.618981 ATCTTCCCCTCCCAACGAAC 59.381 55.000 0.00 0.00 0.00 3.95
1254 3198 3.432890 CCTCCTCCTTCCTTGATAGCAAC 60.433 52.174 0.00 0.00 0.00 4.17
1301 3252 1.597937 GGCGTCTTGAGCTGTTTTGTG 60.598 52.381 0.00 0.00 34.52 3.33
1305 3256 3.111098 GTCTTGAGCTGTTTTGTGCTTG 58.889 45.455 0.00 0.00 39.91 4.01
1387 3341 4.778143 ACGGGCTGCGGTTCATCC 62.778 66.667 0.00 0.00 0.00 3.51
1466 3420 4.410400 CCCAGCCGACCCTGTTCC 62.410 72.222 0.00 0.00 0.00 3.62
1484 3438 2.200081 TCCTCAGGGGATTCTTTCCTG 58.800 52.381 12.05 12.05 46.91 3.86
1489 3443 1.378514 GGGATTCTTTCCTGCCGCA 60.379 57.895 0.00 0.00 44.75 5.69
1547 3501 0.316689 CGGTTAATTCGGCGATTGGC 60.317 55.000 11.76 0.00 42.51 4.52
1558 3512 2.939022 GATTGGCGGCGACTATGC 59.061 61.111 15.75 2.69 0.00 3.14
1565 3520 1.793581 CGGCGACTATGCTGCAAAA 59.206 52.632 6.36 0.00 33.87 2.44
1638 3598 5.985530 TGATGATGATCGTCCTATTGTTGAC 59.014 40.000 12.42 0.00 31.51 3.18
1645 3605 2.609459 CGTCCTATTGTTGACTGATGCC 59.391 50.000 0.00 0.00 0.00 4.40
1655 3615 2.777094 TGACTGATGCCGTTGAATTGA 58.223 42.857 0.00 0.00 0.00 2.57
1679 3639 4.321718 ACCTTCAAGTGACATGTGATGAG 58.678 43.478 1.15 0.00 0.00 2.90
1754 3724 1.398692 TTCACCTCCAAACTTGCCAC 58.601 50.000 0.00 0.00 0.00 5.01
1766 3736 2.154462 ACTTGCCACTCTATGTGTTGC 58.846 47.619 0.00 0.00 44.81 4.17
1851 3821 4.449131 CTCATATCACATGGCTCAGTGTT 58.551 43.478 0.00 0.00 37.07 3.32
1852 3822 4.847198 TCATATCACATGGCTCAGTGTTT 58.153 39.130 0.00 0.00 37.07 2.83
1853 3823 4.637091 TCATATCACATGGCTCAGTGTTTG 59.363 41.667 0.00 0.00 37.07 2.93
1854 3824 1.608055 TCACATGGCTCAGTGTTTGG 58.392 50.000 0.00 0.00 37.07 3.28
1855 3825 1.142667 TCACATGGCTCAGTGTTTGGA 59.857 47.619 0.00 0.00 37.07 3.53
1856 3826 1.267806 CACATGGCTCAGTGTTTGGAC 59.732 52.381 0.00 0.00 0.00 4.02
1857 3827 1.143684 ACATGGCTCAGTGTTTGGACT 59.856 47.619 0.00 0.00 0.00 3.85
1858 3828 2.233271 CATGGCTCAGTGTTTGGACTT 58.767 47.619 0.00 0.00 0.00 3.01
1880 3850 1.486310 GGAGTGCATCCTGTCCATGTA 59.514 52.381 7.65 0.00 45.64 2.29
1883 3853 2.507058 AGTGCATCCTGTCCATGTATGT 59.493 45.455 0.00 0.00 0.00 2.29
1918 3888 5.373812 ACTAACATTATTCCCTGGACTGG 57.626 43.478 0.00 0.00 0.00 4.00
1919 3889 5.036916 ACTAACATTATTCCCTGGACTGGA 58.963 41.667 0.00 0.00 0.00 3.86
1920 3890 5.672194 ACTAACATTATTCCCTGGACTGGAT 59.328 40.000 0.00 0.00 0.00 3.41
1921 3891 4.443978 ACATTATTCCCTGGACTGGATG 57.556 45.455 0.00 0.00 0.00 3.51
1960 3930 3.428589 GGCTGAATGCTGAAATGGACTTC 60.429 47.826 0.00 0.00 42.39 3.01
1988 3958 5.486526 GTTGAGACATGATCTTTCAGTCCT 58.513 41.667 0.00 0.00 38.00 3.85
1999 3969 0.116342 TTCAGTCCTGACAGGGCCTA 59.884 55.000 22.67 8.20 42.20 3.93
2020 3990 6.459923 CCTATAGATCAAGCTTAACCACTCC 58.540 44.000 0.00 0.00 0.00 3.85
2069 4039 7.497909 TCGGGAATATCCAAATTAGTCTTCAAC 59.502 37.037 0.00 0.00 38.64 3.18
2108 4078 5.956068 ATCTCCTTTGCTGAGTTTTCTTC 57.044 39.130 0.00 0.00 0.00 2.87
2135 4105 1.527311 GGATGTAGCGGCGAAAGATTC 59.473 52.381 12.98 0.00 0.00 2.52
2142 4112 3.798202 AGCGGCGAAAGATTCTATTCTT 58.202 40.909 12.98 0.00 37.56 2.52
2207 4177 8.706521 AGAGTTCTATTAACATAGACCCTTTCC 58.293 37.037 0.00 0.00 41.05 3.13
2251 4221 6.658391 ACAAAGCAGCAAATCTTTCTCTCTAT 59.342 34.615 0.00 0.00 30.79 1.98
2268 4238 6.876789 TCTCTCTATTCTACTAGCCGATCTTG 59.123 42.308 0.00 0.00 0.00 3.02
2342 4312 5.382618 AATTGTGGAGTTGAAGAATGAGC 57.617 39.130 0.00 0.00 0.00 4.26
2346 4316 2.816087 TGGAGTTGAAGAATGAGCTTGC 59.184 45.455 0.00 0.00 0.00 4.01
2375 4345 3.059884 GTCGACACATCAGACACAACAT 58.940 45.455 11.55 0.00 35.19 2.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 9.064706 TGCAAACAAATTGATGGTGAAATAAAT 57.935 25.926 0.00 0.00 41.85 1.40
25 26 8.442632 TGCAAACAAATTGATGGTGAAATAAA 57.557 26.923 0.00 0.00 41.85 1.40
26 27 8.504815 CATGCAAACAAATTGATGGTGAAATAA 58.495 29.630 0.00 0.00 41.85 1.40
27 28 7.660617 ACATGCAAACAAATTGATGGTGAAATA 59.339 29.630 0.00 0.00 41.85 1.40
28 29 6.487331 ACATGCAAACAAATTGATGGTGAAAT 59.513 30.769 0.00 0.00 41.85 2.17
29 30 5.821470 ACATGCAAACAAATTGATGGTGAAA 59.179 32.000 0.00 0.00 41.85 2.69
30 31 5.366460 ACATGCAAACAAATTGATGGTGAA 58.634 33.333 0.00 0.00 41.85 3.18
31 32 4.958509 ACATGCAAACAAATTGATGGTGA 58.041 34.783 0.00 0.00 41.85 4.02
32 33 6.782298 TTACATGCAAACAAATTGATGGTG 57.218 33.333 0.00 0.00 41.85 4.17
33 34 7.982761 AATTACATGCAAACAAATTGATGGT 57.017 28.000 0.00 0.00 41.85 3.55
34 35 9.153721 AGTAATTACATGCAAACAAATTGATGG 57.846 29.630 17.65 0.00 41.85 3.51
58 59 9.074576 TGATGATCTACCGTGTACATTTATAGT 57.925 33.333 0.00 0.00 0.00 2.12
59 60 9.908152 TTGATGATCTACCGTGTACATTTATAG 57.092 33.333 0.00 0.00 0.00 1.31
61 62 9.778741 AATTGATGATCTACCGTGTACATTTAT 57.221 29.630 0.00 0.00 0.00 1.40
62 63 9.607988 AAATTGATGATCTACCGTGTACATTTA 57.392 29.630 0.00 0.00 0.00 1.40
63 64 8.506168 AAATTGATGATCTACCGTGTACATTT 57.494 30.769 0.00 0.00 0.00 2.32
64 65 8.506168 AAAATTGATGATCTACCGTGTACATT 57.494 30.769 0.00 0.00 0.00 2.71
65 66 7.768582 TGAAAATTGATGATCTACCGTGTACAT 59.231 33.333 0.00 0.00 0.00 2.29
66 67 7.100409 TGAAAATTGATGATCTACCGTGTACA 58.900 34.615 0.00 0.00 0.00 2.90
67 68 7.534085 TGAAAATTGATGATCTACCGTGTAC 57.466 36.000 0.00 0.00 0.00 2.90
68 69 8.554835 TTTGAAAATTGATGATCTACCGTGTA 57.445 30.769 0.00 0.00 0.00 2.90
69 70 7.447374 TTTGAAAATTGATGATCTACCGTGT 57.553 32.000 0.00 0.00 0.00 4.49
70 71 8.915871 AATTTGAAAATTGATGATCTACCGTG 57.084 30.769 0.28 0.00 37.24 4.94
101 102 9.081204 TGCATATGATTATGGCTAAAATGACTT 57.919 29.630 6.97 0.00 36.49 3.01
102 103 8.640063 TGCATATGATTATGGCTAAAATGACT 57.360 30.769 6.97 0.00 36.49 3.41
111 112 9.175312 CTTCTTTCTATGCATATGATTATGGCT 57.825 33.333 6.92 0.00 36.49 4.75
112 113 8.404000 CCTTCTTTCTATGCATATGATTATGGC 58.596 37.037 6.92 0.00 36.49 4.40
113 114 9.676861 TCCTTCTTTCTATGCATATGATTATGG 57.323 33.333 6.92 6.03 36.49 2.74
117 118 9.638176 ACTTTCCTTCTTTCTATGCATATGATT 57.362 29.630 6.92 0.00 0.00 2.57
118 119 9.638176 AACTTTCCTTCTTTCTATGCATATGAT 57.362 29.630 6.92 0.02 0.00 2.45
121 122 9.566432 CCTAACTTTCCTTCTTTCTATGCATAT 57.434 33.333 6.92 0.00 0.00 1.78
122 123 7.993183 CCCTAACTTTCCTTCTTTCTATGCATA 59.007 37.037 6.20 6.20 0.00 3.14
123 124 6.830838 CCCTAACTTTCCTTCTTTCTATGCAT 59.169 38.462 3.79 3.79 0.00 3.96
124 125 6.180472 CCCTAACTTTCCTTCTTTCTATGCA 58.820 40.000 0.00 0.00 0.00 3.96
125 126 6.181190 ACCCTAACTTTCCTTCTTTCTATGC 58.819 40.000 0.00 0.00 0.00 3.14
126 127 9.549078 GATACCCTAACTTTCCTTCTTTCTATG 57.451 37.037 0.00 0.00 0.00 2.23
127 128 8.422566 CGATACCCTAACTTTCCTTCTTTCTAT 58.577 37.037 0.00 0.00 0.00 1.98
128 129 7.398332 ACGATACCCTAACTTTCCTTCTTTCTA 59.602 37.037 0.00 0.00 0.00 2.10
129 130 6.212993 ACGATACCCTAACTTTCCTTCTTTCT 59.787 38.462 0.00 0.00 0.00 2.52
130 131 6.404708 ACGATACCCTAACTTTCCTTCTTTC 58.595 40.000 0.00 0.00 0.00 2.62
131 132 6.370186 ACGATACCCTAACTTTCCTTCTTT 57.630 37.500 0.00 0.00 0.00 2.52
132 133 6.406737 GCTACGATACCCTAACTTTCCTTCTT 60.407 42.308 0.00 0.00 0.00 2.52
133 134 5.068855 GCTACGATACCCTAACTTTCCTTCT 59.931 44.000 0.00 0.00 0.00 2.85
134 135 5.068855 AGCTACGATACCCTAACTTTCCTTC 59.931 44.000 0.00 0.00 0.00 3.46
135 136 4.961099 AGCTACGATACCCTAACTTTCCTT 59.039 41.667 0.00 0.00 0.00 3.36
136 137 4.544683 AGCTACGATACCCTAACTTTCCT 58.455 43.478 0.00 0.00 0.00 3.36
137 138 4.933505 AGCTACGATACCCTAACTTTCC 57.066 45.455 0.00 0.00 0.00 3.13
138 139 6.039605 AGAGAAGCTACGATACCCTAACTTTC 59.960 42.308 0.00 0.00 0.00 2.62
139 140 5.892686 AGAGAAGCTACGATACCCTAACTTT 59.107 40.000 0.00 0.00 0.00 2.66
140 141 5.447757 AGAGAAGCTACGATACCCTAACTT 58.552 41.667 0.00 0.00 0.00 2.66
141 142 5.051409 AGAGAAGCTACGATACCCTAACT 57.949 43.478 0.00 0.00 0.00 2.24
142 143 6.261826 TGTTAGAGAAGCTACGATACCCTAAC 59.738 42.308 0.00 0.00 36.00 2.34
143 144 6.359804 TGTTAGAGAAGCTACGATACCCTAA 58.640 40.000 0.00 0.00 0.00 2.69
144 145 5.933617 TGTTAGAGAAGCTACGATACCCTA 58.066 41.667 0.00 0.00 0.00 3.53
145 146 4.789807 TGTTAGAGAAGCTACGATACCCT 58.210 43.478 0.00 0.00 0.00 4.34
146 147 5.708877 ATGTTAGAGAAGCTACGATACCC 57.291 43.478 0.00 0.00 0.00 3.69
147 148 6.016108 AGGAATGTTAGAGAAGCTACGATACC 60.016 42.308 0.00 0.00 0.00 2.73
148 149 6.972722 AGGAATGTTAGAGAAGCTACGATAC 58.027 40.000 0.00 0.00 0.00 2.24
149 150 7.502895 AGAAGGAATGTTAGAGAAGCTACGATA 59.497 37.037 0.00 0.00 0.00 2.92
150 151 6.322712 AGAAGGAATGTTAGAGAAGCTACGAT 59.677 38.462 0.00 0.00 0.00 3.73
151 152 5.652891 AGAAGGAATGTTAGAGAAGCTACGA 59.347 40.000 0.00 0.00 0.00 3.43
152 153 5.897050 AGAAGGAATGTTAGAGAAGCTACG 58.103 41.667 0.00 0.00 0.00 3.51
153 154 6.868622 TGAGAAGGAATGTTAGAGAAGCTAC 58.131 40.000 0.00 0.00 0.00 3.58
154 155 7.482169 TTGAGAAGGAATGTTAGAGAAGCTA 57.518 36.000 0.00 0.00 0.00 3.32
155 156 6.365970 TTGAGAAGGAATGTTAGAGAAGCT 57.634 37.500 0.00 0.00 0.00 3.74
156 157 6.597280 ACATTGAGAAGGAATGTTAGAGAAGC 59.403 38.462 0.00 0.00 40.39 3.86
165 166 6.627087 TCCTCTAACATTGAGAAGGAATGT 57.373 37.500 0.00 0.00 44.21 2.71
166 167 6.709846 GGATCCTCTAACATTGAGAAGGAATG 59.290 42.308 3.84 0.00 36.94 2.67
167 168 6.463614 CGGATCCTCTAACATTGAGAAGGAAT 60.464 42.308 10.75 0.00 33.68 3.01
168 169 5.163405 CGGATCCTCTAACATTGAGAAGGAA 60.163 44.000 10.75 0.00 33.68 3.36
169 170 4.342378 CGGATCCTCTAACATTGAGAAGGA 59.658 45.833 10.75 0.00 33.68 3.36
170 171 4.502259 CCGGATCCTCTAACATTGAGAAGG 60.502 50.000 10.75 0.00 33.68 3.46
171 172 4.100189 ACCGGATCCTCTAACATTGAGAAG 59.900 45.833 9.46 0.00 33.68 2.85
172 173 4.030913 ACCGGATCCTCTAACATTGAGAA 58.969 43.478 9.46 0.00 33.68 2.87
173 174 3.643237 ACCGGATCCTCTAACATTGAGA 58.357 45.455 9.46 0.00 33.68 3.27
174 175 4.372656 GAACCGGATCCTCTAACATTGAG 58.627 47.826 9.46 0.00 0.00 3.02
175 176 3.134081 GGAACCGGATCCTCTAACATTGA 59.866 47.826 22.87 0.00 36.50 2.57
176 177 3.467803 GGAACCGGATCCTCTAACATTG 58.532 50.000 22.87 0.00 36.50 2.82
177 178 2.102588 CGGAACCGGATCCTCTAACATT 59.897 50.000 26.42 0.00 37.34 2.71
178 179 1.687123 CGGAACCGGATCCTCTAACAT 59.313 52.381 26.42 0.00 37.34 2.71
179 180 1.108776 CGGAACCGGATCCTCTAACA 58.891 55.000 26.42 0.00 37.34 2.41
180 181 3.961576 CGGAACCGGATCCTCTAAC 57.038 57.895 26.42 1.47 37.34 2.34
191 192 3.072468 TGGGCTAGACCGGAACCG 61.072 66.667 9.46 6.25 40.62 4.44
192 193 2.582978 GTGGGCTAGACCGGAACC 59.417 66.667 9.46 0.84 40.62 3.62
193 194 2.163601 AACGTGGGCTAGACCGGAAC 62.164 60.000 9.46 1.18 40.62 3.62
194 195 1.909781 AACGTGGGCTAGACCGGAA 60.910 57.895 9.46 0.00 40.62 4.30
195 196 2.283388 AACGTGGGCTAGACCGGA 60.283 61.111 9.46 0.00 40.62 5.14
196 197 2.125673 CAACGTGGGCTAGACCGG 60.126 66.667 10.91 7.08 40.62 5.28
197 198 1.153823 CTCAACGTGGGCTAGACCG 60.154 63.158 10.91 0.60 40.62 4.79
210 211 1.251251 AGATTGCACCAAGCCTCAAC 58.749 50.000 0.00 0.00 44.83 3.18
236 237 1.167851 TGCTGCTAATTGTGTGGCTC 58.832 50.000 0.00 0.00 0.00 4.70
296 297 1.849219 TCGCGTTGAAAATTGCACAAC 59.151 42.857 5.77 6.98 39.96 3.32
316 317 7.309867 CCCTCTACACACAGTAACTAAATGAGT 60.310 40.741 0.00 0.00 41.56 3.41
336 337 4.042809 TGCCTTTTGTCATCTTTCCCTCTA 59.957 41.667 0.00 0.00 0.00 2.43
380 913 3.681909 GGGCCAATAAACCCAGACA 57.318 52.632 4.39 0.00 46.22 3.41
401 934 5.757808 GTCAAAGTTGGGCACAAAATACAAT 59.242 36.000 1.02 0.00 38.54 2.71
403 936 4.442192 GGTCAAAGTTGGGCACAAAATACA 60.442 41.667 1.02 0.00 38.54 2.29
595 1136 3.159213 TGTTACTACCTCCGTCCTGAA 57.841 47.619 0.00 0.00 0.00 3.02
596 1137 2.885135 TGTTACTACCTCCGTCCTGA 57.115 50.000 0.00 0.00 0.00 3.86
597 1138 2.165845 CCTTGTTACTACCTCCGTCCTG 59.834 54.545 0.00 0.00 0.00 3.86
598 1139 2.042162 TCCTTGTTACTACCTCCGTCCT 59.958 50.000 0.00 0.00 0.00 3.85
599 1140 2.450476 TCCTTGTTACTACCTCCGTCC 58.550 52.381 0.00 0.00 0.00 4.79
600 1141 4.732672 ATTCCTTGTTACTACCTCCGTC 57.267 45.455 0.00 0.00 0.00 4.79
601 1142 5.954150 TCTAATTCCTTGTTACTACCTCCGT 59.046 40.000 0.00 0.00 0.00 4.69
602 1143 6.461110 TCTAATTCCTTGTTACTACCTCCG 57.539 41.667 0.00 0.00 0.00 4.63
603 1144 8.019656 TCATCTAATTCCTTGTTACTACCTCC 57.980 38.462 0.00 0.00 0.00 4.30
643 1184 1.966354 GGGAAAATCATGCATCCCCTC 59.034 52.381 9.35 0.00 44.84 4.30
660 1202 7.832187 CCACTAGTCATTAAAATAACCTTGGGA 59.168 37.037 0.00 0.00 0.00 4.37
670 1212 4.451900 CCGAGGCCACTAGTCATTAAAAT 58.548 43.478 5.01 0.00 0.00 1.82
695 1237 3.426787 TTTACCACCATTGACGGATGT 57.573 42.857 0.00 0.00 0.00 3.06
803 2702 7.175119 GGCTCATGTAAAGAGGACTTTTTACTT 59.825 37.037 19.67 13.77 42.79 2.24
818 2717 2.877097 TGCTTCTGGGCTCATGTAAA 57.123 45.000 0.00 0.00 0.00 2.01
827 2726 1.131315 GATTCGTCTTTGCTTCTGGGC 59.869 52.381 0.00 0.00 0.00 5.36
836 2761 1.298157 TGCGGGCAGATTCGTCTTTG 61.298 55.000 0.00 0.00 0.00 2.77
846 2771 2.268920 GAGATGGTTGCGGGCAGA 59.731 61.111 0.00 0.00 0.00 4.26
849 2774 3.499737 CGTGAGATGGTTGCGGGC 61.500 66.667 0.00 0.00 0.00 6.13
870 2795 0.661020 GGCAAGCCGCGTTTGTATAT 59.339 50.000 18.08 0.00 43.84 0.86
871 2796 2.091533 GGCAAGCCGCGTTTGTATA 58.908 52.632 18.08 0.00 43.84 1.47
872 2797 2.874751 GGCAAGCCGCGTTTGTAT 59.125 55.556 18.08 0.00 43.84 2.29
893 2818 4.643387 GTGGGCTGGAACCGTGCT 62.643 66.667 8.09 0.00 0.00 4.40
909 2834 0.534412 CACGCTGGAATCTCTCTGGT 59.466 55.000 0.00 0.00 0.00 4.00
913 2838 4.116878 GGCACGCTGGAATCTCTC 57.883 61.111 0.00 0.00 0.00 3.20
941 2866 1.539124 AGGGGAGAGGGGTGTGAAC 60.539 63.158 0.00 0.00 0.00 3.18
942 2867 1.538876 CAGGGGAGAGGGGTGTGAA 60.539 63.158 0.00 0.00 0.00 3.18
943 2868 2.122729 CAGGGGAGAGGGGTGTGA 59.877 66.667 0.00 0.00 0.00 3.58
944 2869 3.721706 GCAGGGGAGAGGGGTGTG 61.722 72.222 0.00 0.00 0.00 3.82
950 2875 3.795041 CTGGCTGCAGGGGAGAGG 61.795 72.222 17.12 0.00 0.00 3.69
980 2914 0.460284 CGTCGATCCACTTTCCCCTG 60.460 60.000 0.00 0.00 0.00 4.45
1113 3056 2.944557 CATCTGCCGACGACGACG 60.945 66.667 12.66 12.66 42.66 5.12
1114 3057 3.248171 GCATCTGCCGACGACGAC 61.248 66.667 9.28 0.00 42.66 4.34
1115 3058 4.829518 CGCATCTGCCGACGACGA 62.830 66.667 9.28 0.00 39.66 4.20
1116 3059 4.829518 TCGCATCTGCCGACGACG 62.830 66.667 0.00 0.00 37.91 5.12
1117 3060 3.248171 GTCGCATCTGCCGACGAC 61.248 66.667 5.73 5.73 46.64 4.34
1185 3128 1.842381 AAGGCAGGGGAGGAAACGAG 61.842 60.000 0.00 0.00 0.00 4.18
1228 3171 1.267121 TCAAGGAAGGAGGAGGTTCG 58.733 55.000 0.00 0.00 0.00 3.95
1232 3175 2.402564 TGCTATCAAGGAAGGAGGAGG 58.597 52.381 0.00 0.00 0.00 4.30
1254 3198 2.512974 CCGAATCGAAACCGGGGG 60.513 66.667 6.32 0.00 39.59 5.40
1291 3242 1.929376 GCAGCAAGCACAAAACAGC 59.071 52.632 0.00 0.00 44.79 4.40
1519 3473 2.480759 GCCGAATTAACCGTCTAGCAGA 60.481 50.000 0.00 0.00 0.00 4.26
1547 3501 0.378257 ATTTTGCAGCATAGTCGCCG 59.622 50.000 0.00 0.00 0.00 6.46
1592 3549 5.949354 TCACCAGGAAAAGAAGAAAGAAACA 59.051 36.000 0.00 0.00 0.00 2.83
1638 3598 3.057315 AGGTTTCAATTCAACGGCATCAG 60.057 43.478 0.00 0.00 0.00 2.90
1655 3615 5.132502 TCATCACATGTCACTTGAAGGTTT 58.867 37.500 0.00 0.00 0.00 3.27
1668 3628 3.054875 AGGCACATACACTCATCACATGT 60.055 43.478 0.00 0.00 0.00 3.21
1679 3639 1.009829 GCTAGCACAGGCACATACAC 58.990 55.000 10.63 0.00 44.61 2.90
1754 3724 4.067896 AGACAACAAGGCAACACATAGAG 58.932 43.478 0.00 0.00 41.41 2.43
1766 3736 2.355756 CCACACACAGAAGACAACAAGG 59.644 50.000 0.00 0.00 0.00 3.61
1851 3821 1.909700 GGATGCACTCCAAAGTCCAA 58.090 50.000 9.50 0.00 44.26 3.53
1852 3822 3.650647 GGATGCACTCCAAAGTCCA 57.349 52.632 9.50 0.00 44.26 4.02
1868 3838 1.563879 CCCCAACATACATGGACAGGA 59.436 52.381 0.00 0.00 40.56 3.86
1880 3850 4.805744 TGTTAGTTTTACCACCCCAACAT 58.194 39.130 0.00 0.00 0.00 2.71
1883 3853 7.178805 GGAATAATGTTAGTTTTACCACCCCAA 59.821 37.037 0.00 0.00 0.00 4.12
1918 3888 5.410746 CAGCCAGTGATCATTACCATACATC 59.589 44.000 0.00 0.00 0.00 3.06
1919 3889 5.072193 TCAGCCAGTGATCATTACCATACAT 59.928 40.000 0.00 0.00 0.00 2.29
1920 3890 4.408596 TCAGCCAGTGATCATTACCATACA 59.591 41.667 0.00 0.00 0.00 2.29
1921 3891 4.960938 TCAGCCAGTGATCATTACCATAC 58.039 43.478 0.00 0.00 0.00 2.39
1960 3930 4.800471 TGAAAGATCATGTCTCAACGATCG 59.200 41.667 14.88 14.88 39.39 3.69
1988 3958 2.634940 GCTTGATCTATAGGCCCTGTCA 59.365 50.000 0.00 0.00 0.00 3.58
1999 3969 5.957771 TGGAGTGGTTAAGCTTGATCTAT 57.042 39.130 9.86 0.00 0.00 1.98
2020 3990 3.993081 AGATGCTTGACTTCGAGTTCTTG 59.007 43.478 0.00 0.00 0.00 3.02
2083 4053 5.629125 AGAAAACTCAGCAAAGGAGATTCT 58.371 37.500 0.00 0.00 37.31 2.40
2088 4058 4.556302 GCAGAAGAAAACTCAGCAAAGGAG 60.556 45.833 0.00 0.00 38.36 3.69
2108 4078 2.963854 CCGCTACATCCGCTGCAG 60.964 66.667 10.11 10.11 0.00 4.41
2135 4105 3.712091 ACTAGACCGCGGAAAGAATAG 57.288 47.619 35.90 22.84 0.00 1.73
2142 4112 0.447801 GACGTAACTAGACCGCGGAA 59.552 55.000 35.90 15.87 0.00 4.30
2149 4119 4.096231 GGGAGAGGAAAGACGTAACTAGAC 59.904 50.000 0.00 0.00 0.00 2.59
2207 4177 8.939929 TGCTTTGTTAAAATGATAGAGAGTCAG 58.060 33.333 0.00 0.00 0.00 3.51
2251 4221 4.270834 ACAGACAAGATCGGCTAGTAGAA 58.729 43.478 0.00 0.00 0.00 2.10
2268 4238 9.430838 CATATTTCAGATCGATTTTCAACAGAC 57.569 33.333 0.00 0.00 0.00 3.51
2329 4299 3.911661 ACAGCAAGCTCATTCTTCAAC 57.088 42.857 0.00 0.00 0.00 3.18
2342 4312 2.469826 TGTGTCGACAGTTACAGCAAG 58.530 47.619 20.73 0.00 0.00 4.01
2346 4316 3.914966 GTCTGATGTGTCGACAGTTACAG 59.085 47.826 20.73 22.67 34.87 2.74
2375 4345 1.928868 TGACTGCTCTGGTCTGATGA 58.071 50.000 0.00 0.00 35.04 2.92


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

AutoCloner maintained by Alex Coulton.