Multiple sequence alignment - TraesCS5D01G414300

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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 TraesCS5D01G414300 chr5D 100.000 2863 0 0 1 2863 476783944 476786806 0.000000e+00 5288.0
1 TraesCS5D01G414300 chr5D 86.433 1172 91 36 862 1995 476749558 476750699 0.000000e+00 1221.0
2 TraesCS5D01G414300 chr5D 85.204 980 97 29 859 1798 476708262 476709233 0.000000e+00 963.0
3 TraesCS5D01G414300 chr5D 85.117 981 86 32 887 1825 476724986 476725948 0.000000e+00 948.0
4 TraesCS5D01G414300 chr5D 80.702 399 54 13 351 742 476749008 476749390 3.610000e-74 289.0
5 TraesCS5D01G414300 chr5B 87.177 1279 99 31 674 1929 584291589 584292825 0.000000e+00 1393.0
6 TraesCS5D01G414300 chr5B 88.731 843 64 18 862 1692 584245498 584246321 0.000000e+00 1002.0
7 TraesCS5D01G414300 chr5B 81.967 1098 125 43 861 1904 584126541 584127619 0.000000e+00 863.0
8 TraesCS5D01G414300 chr5B 85.732 827 83 14 887 1697 584142353 584143160 0.000000e+00 841.0
9 TraesCS5D01G414300 chr5B 90.712 323 24 4 1963 2281 584384050 584384370 2.640000e-115 425.0
10 TraesCS5D01G414300 chr5B 88.119 101 12 0 2755 2855 584384417 584384517 1.390000e-23 121.0
11 TraesCS5D01G414300 chr5A 91.374 939 55 14 865 1783 596086523 596087455 0.000000e+00 1262.0
12 TraesCS5D01G414300 chr5A 85.608 1077 103 30 882 1929 596054645 596055698 0.000000e+00 1083.0
13 TraesCS5D01G414300 chr5A 82.436 1133 108 50 859 1907 596032313 596033438 0.000000e+00 905.0
14 TraesCS5D01G414300 chr5A 83.283 993 103 35 865 1825 596044237 596045198 0.000000e+00 856.0
15 TraesCS5D01G414300 chr5A 88.443 424 36 9 411 825 596084084 596084503 1.530000e-137 499.0
16 TraesCS5D01G414300 chr5A 92.128 343 26 1 2283 2624 429174017 429173675 1.540000e-132 483.0
17 TraesCS5D01G414300 chr5A 89.632 299 20 4 1984 2282 596091910 596092197 1.250000e-98 370.0
18 TraesCS5D01G414300 chr5A 90.435 230 21 1 2627 2855 596092215 596092444 4.640000e-78 302.0
19 TraesCS5D01G414300 chr5A 92.800 125 7 2 1 124 596083748 596083871 2.270000e-41 180.0
20 TraesCS5D01G414300 chr5A 88.281 128 9 3 1812 1935 596091463 596091588 6.390000e-32 148.0
21 TraesCS5D01G414300 chr7B 91.837 343 27 1 2283 2624 516345428 516345770 7.180000e-131 477.0
22 TraesCS5D01G414300 chr7B 92.331 326 24 1 2281 2605 713503669 713503344 2.010000e-126 462.0
23 TraesCS5D01G414300 chr1B 92.285 337 23 3 2273 2607 189701173 189701508 2.580000e-130 475.0
24 TraesCS5D01G414300 chr1B 86.071 280 27 3 2283 2562 507642745 507642478 1.000000e-74 291.0
25 TraesCS5D01G414300 chr6A 91.329 346 28 2 2282 2625 270522728 270522383 3.340000e-129 472.0
26 TraesCS5D01G414300 chr3B 92.901 324 22 1 2283 2605 605453946 605453623 1.200000e-128 470.0
27 TraesCS5D01G414300 chr3B 87.921 356 31 4 2280 2625 422372771 422373124 2.660000e-110 409.0
28 TraesCS5D01G414300 chrUn 92.638 326 22 2 2283 2607 65458131 65457807 4.320000e-128 468.0
29 TraesCS5D01G414300 chrUn 92.331 326 23 2 2283 2607 65452662 65452338 2.010000e-126 462.0
30 TraesCS5D01G414300 chrUn 92.331 326 23 2 2283 2607 65455396 65455072 2.010000e-126 462.0
31 TraesCS5D01G414300 chr2B 91.579 285 20 3 2283 2566 740776568 740776849 9.620000e-105 390.0
32 TraesCS5D01G414300 chr2B 81.250 80 8 5 2574 2651 790240748 790240822 1.110000e-04 58.4
33 TraesCS5D01G414300 chr4A 84.937 239 25 7 2395 2624 608563574 608563810 6.170000e-57 231.0
34 TraesCS5D01G414300 chr7A 100.000 34 0 0 2592 2625 635037767 635037734 2.380000e-06 63.9
35 TraesCS5D01G414300 chr1A 92.308 39 2 1 751 788 78336876 78336838 1.000000e-03 54.7


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 TraesCS5D01G414300 chr5D 476783944 476786806 2862 False 5288.000000 5288 100.000000 1 2863 1 chr5D.!!$F3 2862
1 TraesCS5D01G414300 chr5D 476708262 476709233 971 False 963.000000 963 85.204000 859 1798 1 chr5D.!!$F1 939
2 TraesCS5D01G414300 chr5D 476724986 476725948 962 False 948.000000 948 85.117000 887 1825 1 chr5D.!!$F2 938
3 TraesCS5D01G414300 chr5D 476749008 476750699 1691 False 755.000000 1221 83.567500 351 1995 2 chr5D.!!$F4 1644
4 TraesCS5D01G414300 chr5B 584291589 584292825 1236 False 1393.000000 1393 87.177000 674 1929 1 chr5B.!!$F4 1255
5 TraesCS5D01G414300 chr5B 584245498 584246321 823 False 1002.000000 1002 88.731000 862 1692 1 chr5B.!!$F3 830
6 TraesCS5D01G414300 chr5B 584126541 584127619 1078 False 863.000000 863 81.967000 861 1904 1 chr5B.!!$F1 1043
7 TraesCS5D01G414300 chr5B 584142353 584143160 807 False 841.000000 841 85.732000 887 1697 1 chr5B.!!$F2 810
8 TraesCS5D01G414300 chr5A 596054645 596055698 1053 False 1083.000000 1083 85.608000 882 1929 1 chr5A.!!$F3 1047
9 TraesCS5D01G414300 chr5A 596032313 596033438 1125 False 905.000000 905 82.436000 859 1907 1 chr5A.!!$F1 1048
10 TraesCS5D01G414300 chr5A 596044237 596045198 961 False 856.000000 856 83.283000 865 1825 1 chr5A.!!$F2 960
11 TraesCS5D01G414300 chr5A 596083748 596087455 3707 False 647.000000 1262 90.872333 1 1783 3 chr5A.!!$F4 1782
12 TraesCS5D01G414300 chr5A 596091463 596092444 981 False 273.333333 370 89.449333 1812 2855 3 chr5A.!!$F5 1043
13 TraesCS5D01G414300 chrUn 65452338 65458131 5793 True 464.000000 468 92.433333 2283 2607 3 chrUn.!!$R1 324

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
230 232 0.038166 TCTTGCTGGGGGAACATCAC 59.962 55.0 0.0 0.0 0.00 3.06 F
666 735 0.110486 AACCGTTGGATGCCAGTCTT 59.890 50.0 0.0 0.0 33.81 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1748 4004 0.032678 CCGATCTAACATCAGCGGCT 59.967 55.0 0.00 0.0 31.8 5.52 R
2277 4886 0.239082 GTTTGCCCGGGTTTAGTTCG 59.761 55.0 24.63 0.0 0.0 3.95 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
27 28 4.386761 CCATTGAGGGTCATGGGTTTATCT 60.387 45.833 0.00 0.00 0.00 1.98
33 34 3.118038 GGGTCATGGGTTTATCTGCTACA 60.118 47.826 0.00 0.00 0.00 2.74
79 81 9.581099 TTCTTTTACTTTTTGGAGTTTCACATC 57.419 29.630 0.00 0.00 0.00 3.06
120 122 8.504005 AGTTGTGGAGACAATTAATCTAAAACG 58.496 33.333 0.00 0.00 43.95 3.60
124 126 8.500773 GTGGAGACAATTAATCTAAAACGTTCA 58.499 33.333 0.00 0.00 46.06 3.18
125 127 8.717821 TGGAGACAATTAATCTAAAACGTTCAG 58.282 33.333 0.00 2.07 37.44 3.02
126 128 8.932791 GGAGACAATTAATCTAAAACGTTCAGA 58.067 33.333 13.19 13.19 0.00 3.27
127 129 9.742552 GAGACAATTAATCTAAAACGTTCAGAC 57.257 33.333 13.11 1.43 0.00 3.51
142 144 5.292671 GTTCAGACGAAAAAGGGTATTCC 57.707 43.478 0.00 0.00 31.43 3.01
143 145 4.155462 GTTCAGACGAAAAAGGGTATTCCC 59.845 45.833 0.00 0.00 42.77 3.97
144 146 6.830193 GTTCAGACGAAAAAGGGTATTCCCC 61.830 48.000 3.30 0.00 43.15 4.81
161 163 9.117183 GGTATTCCCCCGCTTTATATTATAAAG 57.883 37.037 23.28 23.28 37.53 1.85
174 176 9.487790 TTTATATTATAAAGCATTGGCCAAAGC 57.512 29.630 33.00 33.00 42.56 3.51
175 177 4.815533 TTATAAAGCATTGGCCAAAGCA 57.184 36.364 38.48 23.79 42.56 3.91
176 178 2.453983 TAAAGCATTGGCCAAAGCAC 57.546 45.000 38.48 21.53 42.56 4.40
177 179 0.469070 AAAGCATTGGCCAAAGCACA 59.531 45.000 38.48 11.84 42.56 4.57
178 180 0.249996 AAGCATTGGCCAAAGCACAC 60.250 50.000 38.48 16.40 42.56 3.82
179 181 1.069427 GCATTGGCCAAAGCACACA 59.931 52.632 34.45 6.37 42.56 3.72
180 182 0.947180 GCATTGGCCAAAGCACACAG 60.947 55.000 34.45 13.58 42.56 3.66
181 183 0.390124 CATTGGCCAAAGCACACAGT 59.610 50.000 24.71 0.00 42.56 3.55
182 184 0.675633 ATTGGCCAAAGCACACAGTC 59.324 50.000 24.71 0.00 42.56 3.51
183 185 0.682532 TTGGCCAAAGCACACAGTCA 60.683 50.000 17.98 0.00 42.56 3.41
184 186 1.360192 GGCCAAAGCACACAGTCAC 59.640 57.895 0.00 0.00 42.56 3.67
185 187 1.383456 GGCCAAAGCACACAGTCACA 61.383 55.000 0.00 0.00 42.56 3.58
186 188 0.455410 GCCAAAGCACACAGTCACAA 59.545 50.000 0.00 0.00 39.53 3.33
187 189 1.534595 GCCAAAGCACACAGTCACAAG 60.535 52.381 0.00 0.00 39.53 3.16
188 190 2.016318 CCAAAGCACACAGTCACAAGA 58.984 47.619 0.00 0.00 0.00 3.02
189 191 2.620115 CCAAAGCACACAGTCACAAGAT 59.380 45.455 0.00 0.00 0.00 2.40
190 192 3.304257 CCAAAGCACACAGTCACAAGATC 60.304 47.826 0.00 0.00 0.00 2.75
191 193 2.175878 AGCACACAGTCACAAGATCC 57.824 50.000 0.00 0.00 0.00 3.36
192 194 1.417517 AGCACACAGTCACAAGATCCA 59.582 47.619 0.00 0.00 0.00 3.41
193 195 2.158769 AGCACACAGTCACAAGATCCAA 60.159 45.455 0.00 0.00 0.00 3.53
194 196 2.031682 GCACACAGTCACAAGATCCAAC 60.032 50.000 0.00 0.00 0.00 3.77
195 197 3.205338 CACACAGTCACAAGATCCAACA 58.795 45.455 0.00 0.00 0.00 3.33
196 198 3.817084 CACACAGTCACAAGATCCAACAT 59.183 43.478 0.00 0.00 0.00 2.71
197 199 4.067896 ACACAGTCACAAGATCCAACATC 58.932 43.478 0.00 0.00 0.00 3.06
198 200 4.067192 CACAGTCACAAGATCCAACATCA 58.933 43.478 0.00 0.00 0.00 3.07
199 201 4.067896 ACAGTCACAAGATCCAACATCAC 58.932 43.478 0.00 0.00 0.00 3.06
200 202 4.067192 CAGTCACAAGATCCAACATCACA 58.933 43.478 0.00 0.00 0.00 3.58
201 203 4.698780 CAGTCACAAGATCCAACATCACAT 59.301 41.667 0.00 0.00 0.00 3.21
202 204 5.876460 CAGTCACAAGATCCAACATCACATA 59.124 40.000 0.00 0.00 0.00 2.29
203 205 5.877012 AGTCACAAGATCCAACATCACATAC 59.123 40.000 0.00 0.00 0.00 2.39
204 206 5.643348 GTCACAAGATCCAACATCACATACA 59.357 40.000 0.00 0.00 0.00 2.29
205 207 6.149308 GTCACAAGATCCAACATCACATACAA 59.851 38.462 0.00 0.00 0.00 2.41
206 208 6.714356 TCACAAGATCCAACATCACATACAAA 59.286 34.615 0.00 0.00 0.00 2.83
207 209 7.394077 TCACAAGATCCAACATCACATACAAAT 59.606 33.333 0.00 0.00 0.00 2.32
208 210 8.676401 CACAAGATCCAACATCACATACAAATA 58.324 33.333 0.00 0.00 0.00 1.40
209 211 9.241919 ACAAGATCCAACATCACATACAAATAA 57.758 29.630 0.00 0.00 0.00 1.40
216 218 8.810427 CCAACATCACATACAAATAAATCTTGC 58.190 33.333 0.00 0.00 0.00 4.01
217 219 9.577110 CAACATCACATACAAATAAATCTTGCT 57.423 29.630 0.00 0.00 0.00 3.91
218 220 9.577110 AACATCACATACAAATAAATCTTGCTG 57.423 29.630 0.00 0.00 0.00 4.41
219 221 8.192774 ACATCACATACAAATAAATCTTGCTGG 58.807 33.333 0.00 0.00 0.00 4.85
220 222 7.099266 TCACATACAAATAAATCTTGCTGGG 57.901 36.000 0.00 0.00 0.00 4.45
221 223 6.096705 TCACATACAAATAAATCTTGCTGGGG 59.903 38.462 0.00 0.00 0.00 4.96
222 224 5.363580 ACATACAAATAAATCTTGCTGGGGG 59.636 40.000 0.00 0.00 0.00 5.40
223 225 4.059773 ACAAATAAATCTTGCTGGGGGA 57.940 40.909 0.00 0.00 0.00 4.81
224 226 4.424842 ACAAATAAATCTTGCTGGGGGAA 58.575 39.130 0.00 0.00 0.00 3.97
225 227 4.222810 ACAAATAAATCTTGCTGGGGGAAC 59.777 41.667 0.00 0.00 0.00 3.62
226 228 3.756082 ATAAATCTTGCTGGGGGAACA 57.244 42.857 0.00 0.00 0.00 3.18
227 229 2.629017 AAATCTTGCTGGGGGAACAT 57.371 45.000 0.00 0.00 0.00 2.71
228 230 2.149973 AATCTTGCTGGGGGAACATC 57.850 50.000 0.00 0.00 0.00 3.06
229 231 1.002069 ATCTTGCTGGGGGAACATCA 58.998 50.000 0.00 0.00 0.00 3.07
230 232 0.038166 TCTTGCTGGGGGAACATCAC 59.962 55.000 0.00 0.00 0.00 3.06
231 233 0.251297 CTTGCTGGGGGAACATCACA 60.251 55.000 0.00 0.00 0.00 3.58
232 234 0.187117 TTGCTGGGGGAACATCACAA 59.813 50.000 0.00 0.00 0.00 3.33
233 235 0.539438 TGCTGGGGGAACATCACAAC 60.539 55.000 0.00 0.00 0.00 3.32
234 236 0.539438 GCTGGGGGAACATCACAACA 60.539 55.000 0.00 0.00 0.00 3.33
235 237 1.993956 CTGGGGGAACATCACAACAA 58.006 50.000 0.00 0.00 0.00 2.83
236 238 2.528564 CTGGGGGAACATCACAACAAT 58.471 47.619 0.00 0.00 0.00 2.71
237 239 2.493278 CTGGGGGAACATCACAACAATC 59.507 50.000 0.00 0.00 0.00 2.67
238 240 1.824852 GGGGGAACATCACAACAATCC 59.175 52.381 0.00 0.00 0.00 3.01
239 241 1.824852 GGGGAACATCACAACAATCCC 59.175 52.381 0.00 0.00 44.73 3.85
240 242 1.824852 GGGAACATCACAACAATCCCC 59.175 52.381 0.00 0.00 40.54 4.81
241 243 2.524306 GGAACATCACAACAATCCCCA 58.476 47.619 0.00 0.00 0.00 4.96
242 244 2.896685 GGAACATCACAACAATCCCCAA 59.103 45.455 0.00 0.00 0.00 4.12
243 245 3.323403 GGAACATCACAACAATCCCCAAA 59.677 43.478 0.00 0.00 0.00 3.28
244 246 4.202305 GGAACATCACAACAATCCCCAAAA 60.202 41.667 0.00 0.00 0.00 2.44
245 247 4.605640 ACATCACAACAATCCCCAAAAG 57.394 40.909 0.00 0.00 0.00 2.27
246 248 4.222336 ACATCACAACAATCCCCAAAAGA 58.778 39.130 0.00 0.00 0.00 2.52
247 249 4.653341 ACATCACAACAATCCCCAAAAGAA 59.347 37.500 0.00 0.00 0.00 2.52
248 250 5.130145 ACATCACAACAATCCCCAAAAGAAA 59.870 36.000 0.00 0.00 0.00 2.52
249 251 5.885449 TCACAACAATCCCCAAAAGAAAT 57.115 34.783 0.00 0.00 0.00 2.17
250 252 6.245890 TCACAACAATCCCCAAAAGAAATT 57.754 33.333 0.00 0.00 0.00 1.82
251 253 6.054295 TCACAACAATCCCCAAAAGAAATTG 58.946 36.000 0.00 0.00 34.34 2.32
252 254 5.821995 CACAACAATCCCCAAAAGAAATTGT 59.178 36.000 0.00 0.00 41.09 2.71
276 278 8.590204 TGTAAAGACACCTCTATTGTATTCACA 58.410 33.333 0.00 0.00 28.34 3.58
379 384 3.088532 GTTTGATGGCACCCAGACAATA 58.911 45.455 0.00 0.00 39.98 1.90
425 430 4.106029 TGCGGAGTATCTAACACTTGAC 57.894 45.455 0.00 0.00 33.73 3.18
453 517 3.958018 TCCCATACAACCGCATAACTTT 58.042 40.909 0.00 0.00 0.00 2.66
454 518 4.337145 TCCCATACAACCGCATAACTTTT 58.663 39.130 0.00 0.00 0.00 2.27
455 519 5.498393 TCCCATACAACCGCATAACTTTTA 58.502 37.500 0.00 0.00 0.00 1.52
479 543 4.148838 TGGGGTTCCACTATGAAAAACAG 58.851 43.478 0.00 0.00 38.32 3.16
523 587 9.765795 GTTACTATTTAGCCACATCAGAGTTAT 57.234 33.333 0.00 0.00 0.00 1.89
666 735 0.110486 AACCGTTGGATGCCAGTCTT 59.890 50.000 0.00 0.00 33.81 3.01
703 777 5.651576 TGCATGTTAGATTGTTTGCTGGATA 59.348 36.000 0.00 0.00 0.00 2.59
812 892 2.280119 TGTGCCTCGCTGTGTGTC 60.280 61.111 0.00 0.00 0.00 3.67
849 2838 2.103432 TCGTGAGGTTTTGCTAGTTGGA 59.897 45.455 0.00 0.00 0.00 3.53
876 2991 1.826487 ACCGCAAAGAAAAGCCCGT 60.826 52.632 0.00 0.00 0.00 5.28
879 2994 1.515521 CGCAAAGAAAAGCCCGTCCT 61.516 55.000 0.00 0.00 0.00 3.85
916 3032 2.192861 CCTCGCTGGCCACAACAAA 61.193 57.895 0.00 0.00 0.00 2.83
1045 3186 1.070445 GCAGAGAGCACACCACACT 59.930 57.895 0.00 0.00 44.79 3.55
1070 3240 0.660488 TTACCACAACAACAGCGCAG 59.340 50.000 11.47 3.33 0.00 5.18
1073 3243 1.368019 CACAACAACAGCGCAGACG 60.368 57.895 11.47 0.31 44.07 4.18
1079 3249 1.069924 CAACAGCGCAGACGAGAGAG 61.070 60.000 11.47 0.00 43.93 3.20
1647 3879 1.296392 CCTGACTTGACGGCCATCA 59.704 57.895 0.00 0.00 0.00 3.07
1748 4004 4.819761 GCGAGAGATGCGTGGCCA 62.820 66.667 0.00 0.00 0.00 5.36
1772 4028 1.603172 GCTGATGTTAGATCGGACGGG 60.603 57.143 2.12 0.00 0.00 5.28
1798 4054 0.297820 GCGGAGATTAACGCGACAAG 59.702 55.000 15.93 0.00 46.58 3.16
1828 4121 3.893200 TGGAGTTAGTTTCTCGAGTTGGA 59.107 43.478 13.13 0.00 33.26 3.53
1833 4126 5.413833 AGTTAGTTTCTCGAGTTGGATCGTA 59.586 40.000 13.13 0.00 43.20 3.43
1834 4127 4.358494 AGTTTCTCGAGTTGGATCGTAG 57.642 45.455 13.13 0.00 43.20 3.51
1945 4260 7.597369 TGTATAAATGATGTGGAGTACGTATGC 59.403 37.037 0.00 0.00 0.00 3.14
1947 4262 3.710326 TGATGTGGAGTACGTATGCTC 57.290 47.619 0.00 1.26 36.87 4.26
1949 4264 3.445805 TGATGTGGAGTACGTATGCTCAA 59.554 43.478 13.41 1.61 39.21 3.02
1959 4274 1.873591 CGTATGCTCAATTACTGGCCC 59.126 52.381 0.00 0.00 0.00 5.80
1961 4276 1.767759 ATGCTCAATTACTGGCCCAC 58.232 50.000 0.00 0.00 0.00 4.61
1964 4279 1.463674 CTCAATTACTGGCCCACACC 58.536 55.000 0.00 0.00 0.00 4.16
1968 4283 1.439524 ATTACTGGCCCACACCCCAA 61.440 55.000 0.00 0.00 0.00 4.12
2023 4632 3.269520 GAGTAATCCTCCGCGTTCC 57.730 57.895 4.92 0.00 33.79 3.62
2036 4645 1.400142 CGCGTTCCAAGCCAATAATCA 59.600 47.619 0.00 0.00 0.00 2.57
2039 4648 3.859386 GCGTTCCAAGCCAATAATCAAAG 59.141 43.478 0.00 0.00 0.00 2.77
2040 4649 3.859386 CGTTCCAAGCCAATAATCAAAGC 59.141 43.478 0.00 0.00 0.00 3.51
2056 4665 5.116069 TCAAAGCGGAACCTGTAAAATTC 57.884 39.130 0.00 0.00 0.00 2.17
2057 4666 3.824414 AAGCGGAACCTGTAAAATTCG 57.176 42.857 0.00 0.00 0.00 3.34
2069 4678 1.247419 AAAATTCGGGGCATGTGCGA 61.247 50.000 0.00 0.00 43.26 5.10
2075 4684 1.665442 GGGGCATGTGCGAAACTTT 59.335 52.632 0.00 0.00 43.26 2.66
2079 4688 3.385577 GGGCATGTGCGAAACTTTAAAA 58.614 40.909 0.00 0.00 43.26 1.52
2097 4706 4.790765 AAAATGAGGCCTAACTCTTTGC 57.209 40.909 4.42 0.00 38.32 3.68
2116 4725 8.407457 TCTTTGCAAAATCTATAGTACTGTCG 57.593 34.615 13.84 0.00 0.00 4.35
2177 4786 9.565090 TCATCTTTATTTGAGAGTGGATAATGG 57.435 33.333 0.00 0.00 0.00 3.16
2181 4790 8.537728 TTTATTTGAGAGTGGATAATGGCATT 57.462 30.769 18.01 18.01 0.00 3.56
2182 4791 8.537728 TTATTTGAGAGTGGATAATGGCATTT 57.462 30.769 19.21 6.33 0.00 2.32
2192 4801 7.037438 GTGGATAATGGCATTTATAGCAATGG 58.963 38.462 19.21 0.00 35.07 3.16
2245 4854 2.898729 ATGCCGGACATAACTCTCAG 57.101 50.000 5.05 0.00 37.17 3.35
2275 4884 3.659183 ATTTGCTCCTTATCCAGCACT 57.341 42.857 0.00 0.00 45.37 4.40
2277 4886 3.543680 TTGCTCCTTATCCAGCACTAC 57.456 47.619 0.00 0.00 45.37 2.73
2288 4897 2.028748 TCCAGCACTACGAACTAAACCC 60.029 50.000 0.00 0.00 0.00 4.11
2296 4905 0.239082 CGAACTAAACCCGGGCAAAC 59.761 55.000 24.08 4.92 0.00 2.93
2297 4906 0.239082 GAACTAAACCCGGGCAAACG 59.761 55.000 24.08 8.22 0.00 3.60
2386 4995 2.379005 CCTGAAGCCCAAAATACTCCC 58.621 52.381 0.00 0.00 0.00 4.30
2397 5006 6.573434 CCCAAAATACTCCCTATTTTCAAGC 58.427 40.000 0.00 0.00 41.33 4.01
2420 5029 2.045340 CCCGGCCCGAAATCAAGT 60.045 61.111 3.71 0.00 0.00 3.16
2434 5043 0.323629 TCAAGTCCGAAGCCCGAAAT 59.676 50.000 0.00 0.00 41.76 2.17
2450 5059 4.569180 ATCCCGGCCCGAATGCTG 62.569 66.667 3.71 0.00 37.37 4.41
2506 5115 2.671619 CGAAAGCCCGGCCTGAAA 60.672 61.111 5.55 0.00 0.00 2.69
2507 5116 2.046285 CGAAAGCCCGGCCTGAAAT 61.046 57.895 5.55 0.00 0.00 2.17
2508 5117 0.746563 CGAAAGCCCGGCCTGAAATA 60.747 55.000 5.55 0.00 0.00 1.40
2509 5118 0.738975 GAAAGCCCGGCCTGAAATAC 59.261 55.000 5.55 0.00 0.00 1.89
2510 5119 0.039035 AAAGCCCGGCCTGAAATACA 59.961 50.000 5.55 0.00 0.00 2.29
2511 5120 0.039035 AAGCCCGGCCTGAAATACAA 59.961 50.000 5.55 0.00 0.00 2.41
2548 5157 1.136305 CTCGGCCCGAACTATCTTTCA 59.864 52.381 7.50 0.00 34.74 2.69
2549 5158 1.551430 TCGGCCCGAACTATCTTTCAA 59.449 47.619 1.70 0.00 31.06 2.69
2566 5175 1.481772 TCAAGCTGCAAAACAAAGCCT 59.518 42.857 1.02 0.00 37.68 4.58
2642 5275 1.290203 ACTATGAACGCATCTTGCCG 58.710 50.000 0.00 0.00 41.12 5.69
2648 5281 0.665835 AACGCATCTTGCCGAACAAA 59.334 45.000 0.00 0.00 41.12 2.83
2653 5286 2.663119 GCATCTTGCCGAACAAATCAAC 59.337 45.455 0.00 0.00 37.96 3.18
2665 5395 7.254286 GCCGAACAAATCAACAATAAAACAAGT 60.254 33.333 0.00 0.00 0.00 3.16
2666 5396 8.599774 CCGAACAAATCAACAATAAAACAAGTT 58.400 29.630 0.00 0.00 0.00 2.66
2743 7362 6.603237 TCTGAAGTACACAAATCACAACAG 57.397 37.500 0.00 0.00 0.00 3.16
2753 7372 5.630680 CACAAATCACAACAGTTTAGATGCC 59.369 40.000 0.00 0.00 0.00 4.40
2755 7374 6.714810 ACAAATCACAACAGTTTAGATGCCTA 59.285 34.615 0.00 0.00 0.00 3.93
2776 7395 6.534079 GCCTAGAATTAACTCGAGCAAACTAA 59.466 38.462 13.61 3.37 0.00 2.24
2793 7412 6.321435 GCAAACTAAATTACATAGAGGGGCTT 59.679 38.462 0.00 0.00 0.00 4.35
2800 7419 5.723672 TTACATAGAGGGGCTTAAGATCG 57.276 43.478 6.67 0.00 0.00 3.69
2809 7428 1.491505 GCTTAAGATCGCGTGGCCTC 61.492 60.000 6.67 0.00 0.00 4.70
2840 10358 1.692042 ATGCCACAGAGGGAGAGGG 60.692 63.158 0.00 0.00 43.00 4.30
2856 10374 2.250273 AGAGGGAGATACCTAGGGCAAA 59.750 50.000 14.81 0.00 42.10 3.68
2858 10376 1.420514 GGGAGATACCTAGGGCAAACC 59.579 57.143 14.81 10.51 38.98 3.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 4.581824 CAGATAAACCCATGACCCTCAATG 59.418 45.833 0.00 0.00 0.00 2.82
27 28 8.210946 AGCATTATGGTTTAGATAGTTGTAGCA 58.789 33.333 0.00 0.00 0.00 3.49
63 65 6.547141 AGATTGTCAGATGTGAAACTCCAAAA 59.453 34.615 0.00 0.00 38.04 2.44
65 67 5.624159 AGATTGTCAGATGTGAAACTCCAA 58.376 37.500 0.00 0.00 38.04 3.53
66 68 5.233083 AGATTGTCAGATGTGAAACTCCA 57.767 39.130 0.00 0.00 38.04 3.86
79 81 5.482006 TCCACAACTCACATAGATTGTCAG 58.518 41.667 0.00 0.00 36.00 3.51
120 122 5.292671 GGAATACCCTTTTTCGTCTGAAC 57.707 43.478 0.00 0.00 32.71 3.18
135 137 9.117183 CTTTATAATATAAAGCGGGGGAATACC 57.883 37.037 16.87 0.00 39.11 2.73
136 138 8.618677 GCTTTATAATATAAAGCGGGGGAATAC 58.381 37.037 30.20 10.98 46.31 1.89
137 139 8.741603 GCTTTATAATATAAAGCGGGGGAATA 57.258 34.615 30.20 0.00 46.31 1.75
138 140 7.640597 GCTTTATAATATAAAGCGGGGGAAT 57.359 36.000 30.20 0.00 46.31 3.01
148 150 9.487790 GCTTTGGCCAATGCTTTATAATATAAA 57.512 29.630 36.53 10.99 38.14 1.40
149 151 8.646004 TGCTTTGGCCAATGCTTTATAATATAA 58.354 29.630 39.98 22.52 40.72 0.98
150 152 8.087750 GTGCTTTGGCCAATGCTTTATAATATA 58.912 33.333 39.98 22.93 40.72 0.86
151 153 6.930722 GTGCTTTGGCCAATGCTTTATAATAT 59.069 34.615 39.98 0.00 40.72 1.28
152 154 6.127225 TGTGCTTTGGCCAATGCTTTATAATA 60.127 34.615 39.98 24.07 40.72 0.98
153 155 5.118286 GTGCTTTGGCCAATGCTTTATAAT 58.882 37.500 39.98 0.00 40.72 1.28
154 156 4.020751 TGTGCTTTGGCCAATGCTTTATAA 60.021 37.500 39.98 25.23 40.72 0.98
155 157 3.513119 TGTGCTTTGGCCAATGCTTTATA 59.487 39.130 39.98 25.80 40.72 0.98
156 158 2.302445 TGTGCTTTGGCCAATGCTTTAT 59.698 40.909 39.98 0.00 40.72 1.40
157 159 1.690893 TGTGCTTTGGCCAATGCTTTA 59.309 42.857 39.98 28.47 40.72 1.85
158 160 0.469070 TGTGCTTTGGCCAATGCTTT 59.531 45.000 39.98 0.00 40.72 3.51
159 161 0.249996 GTGTGCTTTGGCCAATGCTT 60.250 50.000 39.98 0.00 40.72 3.91
160 162 1.368579 GTGTGCTTTGGCCAATGCT 59.631 52.632 39.98 0.00 40.72 3.79
161 163 0.947180 CTGTGTGCTTTGGCCAATGC 60.947 55.000 36.96 36.96 40.56 3.56
162 164 0.390124 ACTGTGTGCTTTGGCCAATG 59.610 50.000 21.26 22.64 37.74 2.82
163 165 0.675633 GACTGTGTGCTTTGGCCAAT 59.324 50.000 21.26 0.00 37.74 3.16
164 166 0.682532 TGACTGTGTGCTTTGGCCAA 60.683 50.000 16.05 16.05 37.74 4.52
165 167 1.077140 TGACTGTGTGCTTTGGCCA 60.077 52.632 0.00 0.00 37.74 5.36
166 168 1.360192 GTGACTGTGTGCTTTGGCC 59.640 57.895 0.00 0.00 37.74 5.36
167 169 0.455410 TTGTGACTGTGTGCTTTGGC 59.545 50.000 0.00 0.00 39.26 4.52
168 170 2.016318 TCTTGTGACTGTGTGCTTTGG 58.984 47.619 0.00 0.00 0.00 3.28
169 171 3.304257 GGATCTTGTGACTGTGTGCTTTG 60.304 47.826 0.00 0.00 0.00 2.77
170 172 2.880890 GGATCTTGTGACTGTGTGCTTT 59.119 45.455 0.00 0.00 0.00 3.51
171 173 2.158769 TGGATCTTGTGACTGTGTGCTT 60.159 45.455 0.00 0.00 0.00 3.91
172 174 1.417517 TGGATCTTGTGACTGTGTGCT 59.582 47.619 0.00 0.00 0.00 4.40
173 175 1.882912 TGGATCTTGTGACTGTGTGC 58.117 50.000 0.00 0.00 0.00 4.57
174 176 3.205338 TGTTGGATCTTGTGACTGTGTG 58.795 45.455 0.00 0.00 0.00 3.82
175 177 3.558931 TGTTGGATCTTGTGACTGTGT 57.441 42.857 0.00 0.00 0.00 3.72
176 178 4.067192 TGATGTTGGATCTTGTGACTGTG 58.933 43.478 0.00 0.00 0.00 3.66
177 179 4.067896 GTGATGTTGGATCTTGTGACTGT 58.932 43.478 0.00 0.00 0.00 3.55
178 180 4.067192 TGTGATGTTGGATCTTGTGACTG 58.933 43.478 0.00 0.00 0.00 3.51
179 181 4.356405 TGTGATGTTGGATCTTGTGACT 57.644 40.909 0.00 0.00 0.00 3.41
180 182 5.643348 TGTATGTGATGTTGGATCTTGTGAC 59.357 40.000 0.00 0.00 0.00 3.67
181 183 5.803552 TGTATGTGATGTTGGATCTTGTGA 58.196 37.500 0.00 0.00 0.00 3.58
182 184 6.499234 TTGTATGTGATGTTGGATCTTGTG 57.501 37.500 0.00 0.00 0.00 3.33
183 185 7.707624 ATTTGTATGTGATGTTGGATCTTGT 57.292 32.000 0.00 0.00 0.00 3.16
190 192 8.810427 GCAAGATTTATTTGTATGTGATGTTGG 58.190 33.333 0.00 0.00 0.00 3.77
191 193 9.577110 AGCAAGATTTATTTGTATGTGATGTTG 57.423 29.630 0.00 0.00 0.00 3.33
192 194 9.577110 CAGCAAGATTTATTTGTATGTGATGTT 57.423 29.630 0.00 0.00 0.00 2.71
193 195 8.192774 CCAGCAAGATTTATTTGTATGTGATGT 58.807 33.333 0.00 0.00 0.00 3.06
194 196 7.650504 CCCAGCAAGATTTATTTGTATGTGATG 59.349 37.037 0.00 0.00 0.00 3.07
195 197 7.201938 CCCCAGCAAGATTTATTTGTATGTGAT 60.202 37.037 0.00 0.00 0.00 3.06
196 198 6.096705 CCCCAGCAAGATTTATTTGTATGTGA 59.903 38.462 0.00 0.00 0.00 3.58
197 199 6.275335 CCCCAGCAAGATTTATTTGTATGTG 58.725 40.000 0.00 0.00 0.00 3.21
198 200 5.363580 CCCCCAGCAAGATTTATTTGTATGT 59.636 40.000 0.00 0.00 0.00 2.29
199 201 5.598005 TCCCCCAGCAAGATTTATTTGTATG 59.402 40.000 0.00 0.00 0.00 2.39
200 202 5.776358 TCCCCCAGCAAGATTTATTTGTAT 58.224 37.500 0.00 0.00 0.00 2.29
201 203 5.199982 TCCCCCAGCAAGATTTATTTGTA 57.800 39.130 0.00 0.00 0.00 2.41
202 204 4.059773 TCCCCCAGCAAGATTTATTTGT 57.940 40.909 0.00 0.00 0.00 2.83
203 205 4.222588 TGTTCCCCCAGCAAGATTTATTTG 59.777 41.667 0.00 0.00 0.00 2.32
204 206 4.424842 TGTTCCCCCAGCAAGATTTATTT 58.575 39.130 0.00 0.00 0.00 1.40
205 207 4.059773 TGTTCCCCCAGCAAGATTTATT 57.940 40.909 0.00 0.00 0.00 1.40
206 208 3.756082 TGTTCCCCCAGCAAGATTTAT 57.244 42.857 0.00 0.00 0.00 1.40
207 209 3.011144 TGATGTTCCCCCAGCAAGATTTA 59.989 43.478 0.00 0.00 0.00 1.40
208 210 2.225343 TGATGTTCCCCCAGCAAGATTT 60.225 45.455 0.00 0.00 0.00 2.17
209 211 1.358787 TGATGTTCCCCCAGCAAGATT 59.641 47.619 0.00 0.00 0.00 2.40
210 212 1.002069 TGATGTTCCCCCAGCAAGAT 58.998 50.000 0.00 0.00 0.00 2.40
211 213 0.038166 GTGATGTTCCCCCAGCAAGA 59.962 55.000 0.00 0.00 31.70 3.02
212 214 0.251297 TGTGATGTTCCCCCAGCAAG 60.251 55.000 0.00 0.00 31.70 4.01
213 215 0.187117 TTGTGATGTTCCCCCAGCAA 59.813 50.000 0.00 0.00 31.70 3.91
214 216 0.539438 GTTGTGATGTTCCCCCAGCA 60.539 55.000 0.00 0.00 0.00 4.41
215 217 0.539438 TGTTGTGATGTTCCCCCAGC 60.539 55.000 0.00 0.00 0.00 4.85
216 218 1.993956 TTGTTGTGATGTTCCCCCAG 58.006 50.000 0.00 0.00 0.00 4.45
217 219 2.524306 GATTGTTGTGATGTTCCCCCA 58.476 47.619 0.00 0.00 0.00 4.96
218 220 1.824852 GGATTGTTGTGATGTTCCCCC 59.175 52.381 0.00 0.00 0.00 5.40
219 221 1.824852 GGGATTGTTGTGATGTTCCCC 59.175 52.381 0.00 0.00 37.43 4.81
220 222 1.824852 GGGGATTGTTGTGATGTTCCC 59.175 52.381 0.00 0.00 41.77 3.97
221 223 2.524306 TGGGGATTGTTGTGATGTTCC 58.476 47.619 0.00 0.00 0.00 3.62
222 224 4.599047 TTTGGGGATTGTTGTGATGTTC 57.401 40.909 0.00 0.00 0.00 3.18
223 225 4.653341 TCTTTTGGGGATTGTTGTGATGTT 59.347 37.500 0.00 0.00 0.00 2.71
224 226 4.222336 TCTTTTGGGGATTGTTGTGATGT 58.778 39.130 0.00 0.00 0.00 3.06
225 227 4.870123 TCTTTTGGGGATTGTTGTGATG 57.130 40.909 0.00 0.00 0.00 3.07
226 228 5.885449 TTTCTTTTGGGGATTGTTGTGAT 57.115 34.783 0.00 0.00 0.00 3.06
227 229 5.885449 ATTTCTTTTGGGGATTGTTGTGA 57.115 34.783 0.00 0.00 0.00 3.58
228 230 5.821995 ACAATTTCTTTTGGGGATTGTTGTG 59.178 36.000 0.00 0.00 37.59 3.33
229 231 6.000246 ACAATTTCTTTTGGGGATTGTTGT 58.000 33.333 0.00 0.00 37.59 3.32
230 232 8.443953 TTTACAATTTCTTTTGGGGATTGTTG 57.556 30.769 5.49 0.00 40.34 3.33
231 233 8.490311 TCTTTACAATTTCTTTTGGGGATTGTT 58.510 29.630 5.49 0.00 40.34 2.83
232 234 7.931407 GTCTTTACAATTTCTTTTGGGGATTGT 59.069 33.333 5.50 5.50 41.97 2.71
233 235 7.930865 TGTCTTTACAATTTCTTTTGGGGATTG 59.069 33.333 0.00 0.00 34.69 2.67
234 236 7.931407 GTGTCTTTACAATTTCTTTTGGGGATT 59.069 33.333 0.00 0.00 37.36 3.01
235 237 7.441836 GTGTCTTTACAATTTCTTTTGGGGAT 58.558 34.615 0.00 0.00 37.36 3.85
236 238 6.183360 GGTGTCTTTACAATTTCTTTTGGGGA 60.183 38.462 0.00 0.00 37.36 4.81
237 239 5.989168 GGTGTCTTTACAATTTCTTTTGGGG 59.011 40.000 0.00 0.00 37.36 4.96
238 240 6.816136 AGGTGTCTTTACAATTTCTTTTGGG 58.184 36.000 0.00 0.00 37.36 4.12
239 241 7.716612 AGAGGTGTCTTTACAATTTCTTTTGG 58.283 34.615 0.00 0.00 37.36 3.28
243 245 9.574516 ACAATAGAGGTGTCTTTACAATTTCTT 57.425 29.630 0.00 0.00 37.36 2.52
249 251 9.431887 GTGAATACAATAGAGGTGTCTTTACAA 57.568 33.333 0.00 0.00 37.36 2.41
250 252 8.590204 TGTGAATACAATAGAGGTGTCTTTACA 58.410 33.333 0.00 0.00 32.71 2.41
251 253 8.997621 TGTGAATACAATAGAGGTGTCTTTAC 57.002 34.615 0.00 0.00 31.87 2.01
311 315 4.652421 ACATCTTGTTCACAATGTGCAA 57.348 36.364 8.78 7.32 35.02 4.08
315 319 5.775686 CCATCAACATCTTGTTCACAATGT 58.224 37.500 0.00 0.00 38.77 2.71
316 320 4.624024 GCCATCAACATCTTGTTCACAATG 59.376 41.667 0.00 0.00 38.77 2.82
317 321 4.322198 GGCCATCAACATCTTGTTCACAAT 60.322 41.667 0.00 0.00 38.77 2.71
318 322 3.005684 GGCCATCAACATCTTGTTCACAA 59.994 43.478 0.00 0.00 38.77 3.33
319 323 2.557924 GGCCATCAACATCTTGTTCACA 59.442 45.455 0.00 0.00 38.77 3.58
320 324 2.094545 GGGCCATCAACATCTTGTTCAC 60.095 50.000 4.39 0.00 38.77 3.18
321 325 2.170166 GGGCCATCAACATCTTGTTCA 58.830 47.619 4.39 0.00 38.77 3.18
322 326 2.165030 CAGGGCCATCAACATCTTGTTC 59.835 50.000 6.18 0.00 38.77 3.18
323 327 2.173519 CAGGGCCATCAACATCTTGTT 58.826 47.619 6.18 0.00 42.08 2.83
379 384 8.246180 CAGAAAACATATGACTAAATTGGCACT 58.754 33.333 10.38 0.00 0.00 4.40
425 430 3.804036 TGCGGTTGTATGGGAAGATAAG 58.196 45.455 0.00 0.00 0.00 1.73
488 552 8.433421 TGTGGCTAAATAGTAACTTCTATTGC 57.567 34.615 0.00 0.00 39.58 3.56
703 777 5.357257 GGCAATGCATTCTTCATGAGAAAT 58.643 37.500 9.53 5.55 46.90 2.17
812 892 2.869801 TCACGAGGTTAAGTTGCACAAG 59.130 45.455 0.00 0.00 0.00 3.16
876 2991 2.680352 GGAGCCGTGGACTCAGGA 60.680 66.667 10.91 0.00 35.79 3.86
879 2994 3.680786 CGTGGAGCCGTGGACTCA 61.681 66.667 10.91 0.00 35.79 3.41
1030 3171 2.833794 TGTAAAGTGTGGTGTGCTCTC 58.166 47.619 0.00 0.00 0.00 3.20
1031 3172 3.492102 ATGTAAAGTGTGGTGTGCTCT 57.508 42.857 0.00 0.00 0.00 4.09
1032 3173 4.083484 GGTAATGTAAAGTGTGGTGTGCTC 60.083 45.833 0.00 0.00 0.00 4.26
1045 3186 4.790123 GCGCTGTTGTTGTGGTAATGTAAA 60.790 41.667 0.00 0.00 0.00 2.01
1070 3240 2.554893 ACTGTCTTGTTCCTCTCTCGTC 59.445 50.000 0.00 0.00 0.00 4.20
1073 3243 3.508012 TGCTACTGTCTTGTTCCTCTCTC 59.492 47.826 0.00 0.00 0.00 3.20
1079 3249 2.481952 CTGCTTGCTACTGTCTTGTTCC 59.518 50.000 0.00 0.00 0.00 3.62
1238 3461 3.790437 ACCTCCTCCAGCGCCATG 61.790 66.667 2.29 0.00 0.00 3.66
1647 3879 1.169661 CGGCTCTACTCGCTCTCCAT 61.170 60.000 0.00 0.00 0.00 3.41
1748 4004 0.032678 CCGATCTAACATCAGCGGCT 59.967 55.000 0.00 0.00 31.80 5.52
1772 4028 0.594284 CGTTAATCTCCGCGTCTCCC 60.594 60.000 4.92 0.00 0.00 4.30
1794 4050 7.680730 AGAAACTAACTCCACATATCACTTGT 58.319 34.615 0.00 0.00 0.00 3.16
1798 4054 6.561614 TCGAGAAACTAACTCCACATATCAC 58.438 40.000 0.00 0.00 0.00 3.06
1828 4121 1.270732 ACGCGACTATCCCTCTACGAT 60.271 52.381 15.93 0.00 0.00 3.73
1833 4126 1.134788 CCAAAACGCGACTATCCCTCT 60.135 52.381 15.93 0.00 0.00 3.69
1834 4127 1.134907 TCCAAAACGCGACTATCCCTC 60.135 52.381 15.93 0.00 0.00 4.30
1945 4260 1.463674 GGTGTGGGCCAGTAATTGAG 58.536 55.000 6.40 0.00 0.00 3.02
1947 4262 0.970427 GGGGTGTGGGCCAGTAATTG 60.970 60.000 6.40 0.00 0.00 2.32
1949 4264 1.439524 TTGGGGTGTGGGCCAGTAAT 61.440 55.000 6.40 0.00 0.00 1.89
1959 4274 2.981560 GCACGAGCATTGGGGTGTG 61.982 63.158 0.00 0.00 41.58 3.82
1961 4276 3.443045 GGCACGAGCATTGGGGTG 61.443 66.667 7.26 0.00 44.61 4.61
1964 4279 2.825836 GAGGGCACGAGCATTGGG 60.826 66.667 7.26 0.00 44.61 4.12
1968 4283 1.549203 AAAAATGAGGGCACGAGCAT 58.451 45.000 7.26 0.00 44.61 3.79
2023 4632 3.781079 TCCGCTTTGATTATTGGCTTG 57.219 42.857 0.00 0.00 0.00 4.01
2036 4645 3.057806 CCGAATTTTACAGGTTCCGCTTT 60.058 43.478 0.00 0.00 0.00 3.51
2039 4648 1.131693 CCCGAATTTTACAGGTTCCGC 59.868 52.381 0.00 0.00 0.00 5.54
2040 4649 1.741145 CCCCGAATTTTACAGGTTCCG 59.259 52.381 0.00 0.00 0.00 4.30
2056 4665 2.141122 AAAGTTTCGCACATGCCCCG 62.141 55.000 0.00 0.00 37.91 5.73
2057 4666 0.885196 TAAAGTTTCGCACATGCCCC 59.115 50.000 0.00 0.00 37.91 5.80
2069 4678 8.478775 AAGAGTTAGGCCTCATTTTAAAGTTT 57.521 30.769 9.68 0.00 33.75 2.66
2075 4684 5.321102 TGCAAAGAGTTAGGCCTCATTTTA 58.679 37.500 9.68 0.00 33.75 1.52
2079 4688 3.439857 TTGCAAAGAGTTAGGCCTCAT 57.560 42.857 9.68 0.00 33.75 2.90
2182 4791 9.987272 CGATTCTTGATATATCCCATTGCTATA 57.013 33.333 10.25 0.00 0.00 1.31
2192 4801 7.972623 CGAAGGTACGATTCTTGATATATCC 57.027 40.000 10.25 0.00 35.09 2.59
2245 4854 5.279758 GGATAAGGAGCAAATAGAGGGAGAC 60.280 48.000 0.00 0.00 0.00 3.36
2275 4884 0.683973 TTGCCCGGGTTTAGTTCGTA 59.316 50.000 24.63 0.00 0.00 3.43
2277 4886 0.239082 GTTTGCCCGGGTTTAGTTCG 59.761 55.000 24.63 0.00 0.00 3.95
2368 4977 5.466127 AATAGGGAGTATTTTGGGCTTCA 57.534 39.130 0.00 0.00 0.00 3.02
2386 4995 1.025041 GGGCTCGGGCTTGAAAATAG 58.975 55.000 7.48 0.00 38.73 1.73
2420 5029 2.587889 GGGATTTCGGGCTTCGGA 59.412 61.111 0.75 0.00 39.77 4.55
2524 5133 1.735376 GATAGTTCGGGCCGAGCTCA 61.735 60.000 41.91 28.79 43.31 4.26
2529 5138 1.187974 TGAAAGATAGTTCGGGCCGA 58.812 50.000 27.46 27.46 0.00 5.54
2548 5157 1.481772 TCAGGCTTTGTTTTGCAGCTT 59.518 42.857 0.00 0.00 0.00 3.74
2549 5158 1.068127 CTCAGGCTTTGTTTTGCAGCT 59.932 47.619 0.00 0.00 0.00 4.24
2590 5199 3.068064 CAGCCCGGCCCGAAAAAT 61.068 61.111 3.71 0.00 0.00 1.82
2624 5257 1.570813 TCGGCAAGATGCGTTCATAG 58.429 50.000 0.00 0.00 46.21 2.23
2665 5395 6.943718 ACCCTAATCGGTGAAATTCAGTTTAA 59.056 34.615 0.00 0.00 33.77 1.52
2666 5396 6.478129 ACCCTAATCGGTGAAATTCAGTTTA 58.522 36.000 0.00 0.00 33.77 2.01
2671 5401 4.837093 AGACCCTAATCGGTGAAATTCA 57.163 40.909 0.00 0.00 35.79 2.57
2678 5408 2.100916 CTGGTGTAGACCCTAATCGGTG 59.899 54.545 6.59 0.00 42.34 4.94
2721 7340 6.363577 ACTGTTGTGATTTGTGTACTTCAG 57.636 37.500 0.00 0.00 0.00 3.02
2723 7342 8.609176 TCTAAACTGTTGTGATTTGTGTACTTC 58.391 33.333 0.00 0.00 0.00 3.01
2728 7347 6.208644 GCATCTAAACTGTTGTGATTTGTGT 58.791 36.000 0.00 0.00 0.00 3.72
2730 7349 5.536161 AGGCATCTAAACTGTTGTGATTTGT 59.464 36.000 0.00 0.00 0.00 2.83
2743 7362 7.095982 GCTCGAGTTAATTCTAGGCATCTAAAC 60.096 40.741 15.13 0.00 0.00 2.01
2776 7395 6.702329 CGATCTTAAGCCCCTCTATGTAATT 58.298 40.000 0.00 0.00 0.00 1.40
2793 7412 2.116533 TCGAGGCCACGCGATCTTA 61.117 57.895 18.51 0.00 43.89 2.10
2800 7419 2.583593 GATCACTCGAGGCCACGC 60.584 66.667 18.51 0.00 0.00 5.34
2809 7428 1.064134 TGGCATCGTCGATCACTCG 59.936 57.895 4.34 0.00 46.41 4.18


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

AutoCloner maintained by Alex Coulton.