Multiple sequence alignment - TraesCS3B01G377400

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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 TraesCS3B01G377400 chr3B 100.000 3803 0 0 1 3803 594414248 594410446 0.000000e+00 7023
1 TraesCS3B01G377400 chr3B 86.194 536 59 8 282 814 594420088 594419565 1.980000e-157 566
2 TraesCS3B01G377400 chr3B 82.723 191 24 4 16 198 594420271 594420082 1.090000e-35 161
3 TraesCS3B01G377400 chr3A 91.915 3389 175 48 426 3755 594670768 594667420 0.000000e+00 4649
4 TraesCS3B01G377400 chr3D 93.780 2894 139 26 941 3803 452419802 452416919 0.000000e+00 4309
5 TraesCS3B01G377400 chr3D 88.368 533 47 7 284 813 452425448 452424928 8.970000e-176 627
6 TraesCS3B01G377400 chr3D 87.184 554 35 14 330 873 452420789 452420262 7.030000e-167 597
7 TraesCS3B01G377400 chr3D 90.057 352 26 2 1 344 452421189 452420839 7.490000e-122 448
8 TraesCS3B01G377400 chr3D 83.981 206 24 2 1 198 452425648 452425444 5.020000e-44 189


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 TraesCS3B01G377400 chr3B 594410446 594414248 3802 True 7023.0 7023 100.0000 1 3803 1 chr3B.!!$R1 3802
1 TraesCS3B01G377400 chr3B 594419565 594420271 706 True 363.5 566 84.4585 16 814 2 chr3B.!!$R2 798
2 TraesCS3B01G377400 chr3A 594667420 594670768 3348 True 4649.0 4649 91.9150 426 3755 1 chr3A.!!$R1 3329
3 TraesCS3B01G377400 chr3D 452416919 452425648 8729 True 1234.0 4309 88.6740 1 3803 5 chr3D.!!$R1 3802

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
904 5537 0.040058 TCCAACCCCGAGTAGCAGTA 59.960 55.0 0.00 0.0 0.00 2.74 F
906 5539 0.179108 CAACCCCGAGTAGCAGTAGC 60.179 60.0 0.00 0.0 42.56 3.58 F
2025 7068 0.250553 AAATCGGTTGGCTTCGACCA 60.251 50.0 3.98 0.0 43.66 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1963 7006 0.253044 GCCTGCAGGTCCATCACTAA 59.747 55.0 32.81 0.0 37.57 2.24 R
2029 7072 0.762418 TTCCTTTCCAGCTCGTCCAA 59.238 50.0 0.00 0.0 0.00 3.53 R
3600 8662 1.372501 ATGTTGAAGGTACCCTGCCT 58.627 50.0 8.74 0.0 38.11 4.75 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
54 55 1.505353 GTCGAGGACAACCGTCGAT 59.495 57.895 11.93 0.00 43.61 3.59
144 153 5.725362 AGTAGTTAAGTGATGAACTCTGGC 58.275 41.667 0.00 0.00 38.56 4.85
149 158 0.955428 GTGATGAACTCTGGCGGCAA 60.955 55.000 14.48 3.32 0.00 4.52
158 167 1.172180 TCTGGCGGCAAGACCTTTTG 61.172 55.000 14.48 0.00 35.61 2.44
162 171 1.459450 GCGGCAAGACCTTTTGGATA 58.541 50.000 0.00 0.00 44.07 2.59
163 172 2.024414 GCGGCAAGACCTTTTGGATAT 58.976 47.619 0.00 0.00 44.07 1.63
165 174 3.016736 CGGCAAGACCTTTTGGATATGT 58.983 45.455 0.00 0.00 44.07 2.29
166 175 3.443681 CGGCAAGACCTTTTGGATATGTT 59.556 43.478 0.00 0.00 44.07 2.71
167 176 4.082245 CGGCAAGACCTTTTGGATATGTTT 60.082 41.667 0.00 0.00 44.07 2.83
206 215 9.662947 TTATCTTATAATCTATGTCGTCTCGGA 57.337 33.333 0.00 0.00 0.00 4.55
207 216 7.361889 TCTTATAATCTATGTCGTCTCGGAC 57.638 40.000 0.00 0.00 37.45 4.79
208 217 7.160049 TCTTATAATCTATGTCGTCTCGGACT 58.840 38.462 3.15 0.00 37.81 3.85
209 218 3.972950 AATCTATGTCGTCTCGGACTG 57.027 47.619 3.15 0.00 37.81 3.51
210 219 2.398252 TCTATGTCGTCTCGGACTGT 57.602 50.000 3.15 0.00 37.81 3.55
211 220 2.007608 TCTATGTCGTCTCGGACTGTG 58.992 52.381 0.00 0.00 37.81 3.66
212 221 1.738350 CTATGTCGTCTCGGACTGTGT 59.262 52.381 0.00 0.00 37.81 3.72
213 222 0.959553 ATGTCGTCTCGGACTGTGTT 59.040 50.000 0.00 0.00 37.81 3.32
214 223 1.596603 TGTCGTCTCGGACTGTGTTA 58.403 50.000 0.00 0.00 37.81 2.41
215 224 2.156917 TGTCGTCTCGGACTGTGTTAT 58.843 47.619 0.00 0.00 37.81 1.89
216 225 2.095415 TGTCGTCTCGGACTGTGTTATG 60.095 50.000 0.00 0.00 37.81 1.90
217 226 2.095364 GTCGTCTCGGACTGTGTTATGT 60.095 50.000 0.00 0.00 34.09 2.29
218 227 2.555325 TCGTCTCGGACTGTGTTATGTT 59.445 45.455 0.00 0.00 0.00 2.71
219 228 3.005050 TCGTCTCGGACTGTGTTATGTTT 59.995 43.478 0.00 0.00 0.00 2.83
220 229 4.216042 TCGTCTCGGACTGTGTTATGTTTA 59.784 41.667 0.00 0.00 0.00 2.01
221 230 5.100259 CGTCTCGGACTGTGTTATGTTTAT 58.900 41.667 0.00 0.00 0.00 1.40
222 231 6.093909 TCGTCTCGGACTGTGTTATGTTTATA 59.906 38.462 0.00 0.00 0.00 0.98
223 232 6.916387 CGTCTCGGACTGTGTTATGTTTATAT 59.084 38.462 0.00 0.00 0.00 0.86
224 233 7.113124 CGTCTCGGACTGTGTTATGTTTATATC 59.887 40.741 0.00 0.00 0.00 1.63
225 234 8.136165 GTCTCGGACTGTGTTATGTTTATATCT 58.864 37.037 0.00 0.00 0.00 1.98
226 235 9.346005 TCTCGGACTGTGTTATGTTTATATCTA 57.654 33.333 0.00 0.00 0.00 1.98
228 237 9.908152 TCGGACTGTGTTATGTTTATATCTATG 57.092 33.333 0.00 0.00 0.00 2.23
229 238 8.648097 CGGACTGTGTTATGTTTATATCTATGC 58.352 37.037 0.00 0.00 0.00 3.14
230 239 8.936864 GGACTGTGTTATGTTTATATCTATGCC 58.063 37.037 0.00 0.00 0.00 4.40
231 240 8.534333 ACTGTGTTATGTTTATATCTATGCCG 57.466 34.615 0.00 0.00 0.00 5.69
232 241 7.602644 ACTGTGTTATGTTTATATCTATGCCGG 59.397 37.037 0.00 0.00 0.00 6.13
233 242 7.446769 TGTGTTATGTTTATATCTATGCCGGT 58.553 34.615 1.90 0.00 0.00 5.28
234 243 7.934665 TGTGTTATGTTTATATCTATGCCGGTT 59.065 33.333 1.90 0.00 0.00 4.44
235 244 9.426837 GTGTTATGTTTATATCTATGCCGGTTA 57.573 33.333 1.90 0.00 0.00 2.85
236 245 9.647797 TGTTATGTTTATATCTATGCCGGTTAG 57.352 33.333 1.90 5.22 0.00 2.34
237 246 8.601476 GTTATGTTTATATCTATGCCGGTTAGC 58.399 37.037 1.90 0.00 0.00 3.09
238 247 6.354794 TGTTTATATCTATGCCGGTTAGCT 57.645 37.500 1.90 0.00 0.00 3.32
239 248 7.470935 TGTTTATATCTATGCCGGTTAGCTA 57.529 36.000 1.90 1.55 0.00 3.32
240 249 8.074613 TGTTTATATCTATGCCGGTTAGCTAT 57.925 34.615 1.90 8.88 0.00 2.97
241 250 7.979537 TGTTTATATCTATGCCGGTTAGCTATG 59.020 37.037 1.90 0.00 0.00 2.23
242 251 7.655521 TTATATCTATGCCGGTTAGCTATGT 57.344 36.000 1.90 0.00 0.00 2.29
243 252 4.891992 ATCTATGCCGGTTAGCTATGTT 57.108 40.909 1.90 0.00 0.00 2.71
244 253 4.252971 TCTATGCCGGTTAGCTATGTTC 57.747 45.455 1.90 0.00 0.00 3.18
245 254 1.865865 ATGCCGGTTAGCTATGTTCG 58.134 50.000 1.90 0.00 0.00 3.95
246 255 0.533491 TGCCGGTTAGCTATGTTCGT 59.467 50.000 1.90 0.00 0.00 3.85
247 256 1.750206 TGCCGGTTAGCTATGTTCGTA 59.250 47.619 1.90 0.00 0.00 3.43
248 257 2.363038 TGCCGGTTAGCTATGTTCGTAT 59.637 45.455 1.90 0.00 0.00 3.06
249 258 3.181473 TGCCGGTTAGCTATGTTCGTATT 60.181 43.478 1.90 0.00 0.00 1.89
250 259 3.805971 GCCGGTTAGCTATGTTCGTATTT 59.194 43.478 1.90 0.00 0.00 1.40
251 260 4.984161 GCCGGTTAGCTATGTTCGTATTTA 59.016 41.667 1.90 0.00 0.00 1.40
252 261 5.463061 GCCGGTTAGCTATGTTCGTATTTAA 59.537 40.000 1.90 0.00 0.00 1.52
253 262 6.146673 GCCGGTTAGCTATGTTCGTATTTAAT 59.853 38.462 1.90 0.00 0.00 1.40
254 263 7.620806 GCCGGTTAGCTATGTTCGTATTTAATC 60.621 40.741 1.90 0.00 0.00 1.75
255 264 7.597743 CCGGTTAGCTATGTTCGTATTTAATCT 59.402 37.037 0.00 0.00 0.00 2.40
256 265 8.425491 CGGTTAGCTATGTTCGTATTTAATCTG 58.575 37.037 0.00 0.00 0.00 2.90
257 266 8.221766 GGTTAGCTATGTTCGTATTTAATCTGC 58.778 37.037 0.00 0.00 0.00 4.26
258 267 6.453643 AGCTATGTTCGTATTTAATCTGCG 57.546 37.500 0.00 0.00 0.00 5.18
259 268 5.983720 AGCTATGTTCGTATTTAATCTGCGT 59.016 36.000 0.00 0.00 0.00 5.24
260 269 7.143340 AGCTATGTTCGTATTTAATCTGCGTA 58.857 34.615 0.00 0.00 0.00 4.42
261 270 7.326305 AGCTATGTTCGTATTTAATCTGCGTAG 59.674 37.037 0.00 0.00 0.00 3.51
262 271 6.764877 ATGTTCGTATTTAATCTGCGTAGG 57.235 37.500 0.00 0.00 0.00 3.18
263 272 5.893687 TGTTCGTATTTAATCTGCGTAGGA 58.106 37.500 0.00 0.00 0.00 2.94
264 273 6.331845 TGTTCGTATTTAATCTGCGTAGGAA 58.668 36.000 0.00 0.00 0.00 3.36
265 274 6.254157 TGTTCGTATTTAATCTGCGTAGGAAC 59.746 38.462 0.00 3.90 39.08 3.62
275 284 2.508743 CGTAGGAACGTCGTTTGCA 58.491 52.632 12.67 0.00 44.21 4.08
276 285 1.065358 CGTAGGAACGTCGTTTGCAT 58.935 50.000 12.67 0.52 44.21 3.96
277 286 1.201769 CGTAGGAACGTCGTTTGCATG 60.202 52.381 12.67 2.29 44.21 4.06
278 287 1.127951 GTAGGAACGTCGTTTGCATGG 59.872 52.381 12.67 0.00 0.00 3.66
279 288 0.534203 AGGAACGTCGTTTGCATGGT 60.534 50.000 12.67 0.00 0.00 3.55
280 289 0.309612 GGAACGTCGTTTGCATGGTT 59.690 50.000 12.67 0.00 0.00 3.67
281 290 1.268845 GGAACGTCGTTTGCATGGTTT 60.269 47.619 12.67 0.00 0.00 3.27
287 296 4.632251 ACGTCGTTTGCATGGTTTATATGA 59.368 37.500 0.00 0.00 0.00 2.15
292 301 9.509855 GTCGTTTGCATGGTTTATATGAATTTA 57.490 29.630 0.00 0.00 0.00 1.40
335 344 3.911989 GCATGGAGTGCGAGAAATG 57.088 52.632 0.00 0.00 45.23 2.32
340 349 1.066858 TGGAGTGCGAGAAATGAGGTC 60.067 52.381 0.00 0.00 0.00 3.85
347 356 1.472878 CGAGAAATGAGGTCTGTCCGA 59.527 52.381 0.00 0.00 41.99 4.55
350 359 3.099905 AGAAATGAGGTCTGTCCGATCA 58.900 45.455 0.00 0.00 41.99 2.92
354 363 0.741915 GAGGTCTGTCCGATCACCTC 59.258 60.000 10.84 10.84 46.26 3.85
358 367 1.142748 CTGTCCGATCACCTCCAGC 59.857 63.158 0.00 0.00 0.00 4.85
362 371 2.502492 CCGATCACCTCCAGCGGAT 61.502 63.158 0.00 0.00 44.43 4.18
404 413 5.473273 TGGAGTATAGGAGCCCAAATTAGA 58.527 41.667 0.00 0.00 0.00 2.10
407 416 6.213600 GGAGTATAGGAGCCCAAATTAGATGA 59.786 42.308 0.00 0.00 0.00 2.92
410 419 2.158755 AGGAGCCCAAATTAGATGACCG 60.159 50.000 0.00 0.00 0.00 4.79
411 420 1.604278 GAGCCCAAATTAGATGACCGC 59.396 52.381 0.00 0.00 0.00 5.68
413 422 0.944386 CCCAAATTAGATGACCGCGG 59.056 55.000 26.86 26.86 0.00 6.46
505 517 2.093711 CGTCCTGTGGTGGTATCATTCA 60.094 50.000 0.00 0.00 0.00 2.57
568 580 4.636206 GGGTGTCATTAATGAGTGAAGACC 59.364 45.833 18.47 13.74 37.51 3.85
583 595 0.818296 AGACCGGAGACAGTATGCAC 59.182 55.000 9.46 0.00 42.53 4.57
584 596 0.530744 GACCGGAGACAGTATGCACA 59.469 55.000 9.46 0.00 42.53 4.57
629 644 4.467795 TGAGATTTCACCAACCAACCAAAA 59.532 37.500 0.00 0.00 0.00 2.44
686 708 2.706341 TATCCCCCTTCCATCCCCGG 62.706 65.000 0.00 0.00 0.00 5.73
725 747 1.219124 GCCGGAAGTCAGATCTGCA 59.781 57.895 18.36 4.35 0.00 4.41
780 5408 4.519730 ACGAGCAGTTACAGTCTTAGTCTT 59.480 41.667 0.00 0.00 0.00 3.01
781 5409 5.704515 ACGAGCAGTTACAGTCTTAGTCTTA 59.295 40.000 0.00 0.00 0.00 2.10
782 5410 6.206243 ACGAGCAGTTACAGTCTTAGTCTTAA 59.794 38.462 0.00 0.00 0.00 1.85
783 5411 6.743627 CGAGCAGTTACAGTCTTAGTCTTAAG 59.256 42.308 0.00 0.00 38.09 1.85
784 5412 7.527568 AGCAGTTACAGTCTTAGTCTTAAGT 57.472 36.000 1.63 0.00 37.97 2.24
785 5413 7.595604 AGCAGTTACAGTCTTAGTCTTAAGTC 58.404 38.462 1.63 0.00 37.97 3.01
786 5414 7.449086 AGCAGTTACAGTCTTAGTCTTAAGTCT 59.551 37.037 7.40 7.40 37.97 3.24
894 5527 4.857509 TTACAAAAGAAATCCAACCCCG 57.142 40.909 0.00 0.00 0.00 5.73
895 5528 2.952116 ACAAAAGAAATCCAACCCCGA 58.048 42.857 0.00 0.00 0.00 5.14
900 5533 1.209747 AGAAATCCAACCCCGAGTAGC 59.790 52.381 0.00 0.00 0.00 3.58
904 5537 0.040058 TCCAACCCCGAGTAGCAGTA 59.960 55.000 0.00 0.00 0.00 2.74
905 5538 0.460311 CCAACCCCGAGTAGCAGTAG 59.540 60.000 0.00 0.00 0.00 2.57
906 5539 0.179108 CAACCCCGAGTAGCAGTAGC 60.179 60.000 0.00 0.00 42.56 3.58
907 5540 0.613853 AACCCCGAGTAGCAGTAGCA 60.614 55.000 0.00 0.00 45.49 3.49
1027 6052 1.134367 CCACTCACGCGGAAGATTCTA 59.866 52.381 12.47 0.00 0.00 2.10
1074 6102 0.389166 CCGCTGCGTCTTCTTCTTCT 60.389 55.000 21.59 0.00 0.00 2.85
1075 6103 0.988439 CGCTGCGTCTTCTTCTTCTC 59.012 55.000 14.93 0.00 0.00 2.87
1098 6126 1.801178 AGGCTTTTCGCTTCTTCTTCG 59.199 47.619 0.00 0.00 39.13 3.79
1111 6142 2.742710 TTCTTCGTCCGTCCGTGCAG 62.743 60.000 0.00 0.00 0.00 4.41
1112 6143 3.263503 CTTCGTCCGTCCGTGCAGA 62.264 63.158 0.00 0.00 0.00 4.26
1113 6144 3.547249 TTCGTCCGTCCGTGCAGAC 62.547 63.158 0.00 0.00 0.00 3.51
1115 6146 2.430921 GTCCGTCCGTGCAGACAG 60.431 66.667 6.87 0.00 36.52 3.51
1118 6149 2.734723 CGTCCGTGCAGACAGGTG 60.735 66.667 6.87 0.00 36.52 4.00
1119 6150 2.421739 GTCCGTGCAGACAGGTGT 59.578 61.111 1.41 0.00 36.73 4.16
1120 6151 1.227556 GTCCGTGCAGACAGGTGTT 60.228 57.895 1.41 0.00 36.73 3.32
1122 6153 1.069765 CCGTGCAGACAGGTGTTCT 59.930 57.895 0.00 0.00 0.00 3.01
1123 6154 0.317160 CCGTGCAGACAGGTGTTCTA 59.683 55.000 0.00 0.00 0.00 2.10
1124 6155 1.670087 CCGTGCAGACAGGTGTTCTAG 60.670 57.143 0.00 0.00 0.00 2.43
1125 6156 1.269723 CGTGCAGACAGGTGTTCTAGA 59.730 52.381 0.00 0.00 0.00 2.43
1126 6157 2.288213 CGTGCAGACAGGTGTTCTAGAA 60.288 50.000 0.00 0.00 0.00 2.10
1127 6158 3.060602 GTGCAGACAGGTGTTCTAGAAC 58.939 50.000 25.73 25.73 41.50 3.01
1128 6159 2.288213 TGCAGACAGGTGTTCTAGAACG 60.288 50.000 26.35 16.38 43.94 3.95
1130 6161 1.272769 AGACAGGTGTTCTAGAACGGC 59.727 52.381 26.35 21.27 43.94 5.68
1131 6162 0.320697 ACAGGTGTTCTAGAACGGCC 59.679 55.000 27.93 27.93 43.94 6.13
1174 6206 7.895759 TGAACAAAGGTACCGTACTAATAACT 58.104 34.615 6.18 0.00 0.00 2.24
1184 6216 4.035558 CCGTACTAATAACTGACGGCTGTA 59.964 45.833 0.00 0.00 45.67 2.74
1220 6253 6.516718 TCGAGTTCTTGTTTTGATCTTCTCT 58.483 36.000 0.00 0.00 0.00 3.10
1259 6292 1.207329 GAACTCAGAACCCATACGCCT 59.793 52.381 0.00 0.00 0.00 5.52
1339 6372 8.025243 TGACAGAATTTATTACGGAACTCAAC 57.975 34.615 0.00 0.00 0.00 3.18
1598 6641 1.864711 CGTCGGTGAAAAGCTCAAGAA 59.135 47.619 0.00 0.00 35.22 2.52
1603 6646 3.181501 CGGTGAAAAGCTCAAGAACAACA 60.182 43.478 0.00 0.00 35.22 3.33
1662 6705 1.026718 CGCACCTCAAAGTCCATCCC 61.027 60.000 0.00 0.00 0.00 3.85
1721 6764 2.123683 CCAGAGCTCCTCCGCCTA 60.124 66.667 10.93 0.00 0.00 3.93
1788 6831 2.359900 CTGAAGGTGGCCTATGTCAAC 58.640 52.381 3.32 0.00 32.50 3.18
1797 6840 3.274288 GGCCTATGTCAACCTTCAGAAG 58.726 50.000 2.78 2.78 0.00 2.85
1829 6872 3.504134 CCGTATGATCCTGAAGAGATCGT 59.496 47.826 0.00 0.00 42.57 3.73
1869 6912 0.523966 CGTCGGAGCTTGAAGAGACT 59.476 55.000 0.00 0.00 0.00 3.24
1963 7006 6.916909 TCTAGAATTCAGGAGTATCAGGACT 58.083 40.000 8.44 0.00 36.25 3.85
1965 7008 8.503573 TCTAGAATTCAGGAGTATCAGGACTTA 58.496 37.037 8.44 0.00 36.25 2.24
2025 7068 0.250553 AAATCGGTTGGCTTCGACCA 60.251 50.000 3.98 0.00 43.66 4.02
2029 7072 1.371558 GGTTGGCTTCGACCAGAGT 59.628 57.895 0.00 0.00 43.11 3.24
2075 7118 3.251484 TGGAACTGGAGGAGAAGATTGT 58.749 45.455 0.00 0.00 0.00 2.71
2135 7178 0.178990 AAGGGGGTGTCAACTGAAGC 60.179 55.000 0.00 0.00 0.00 3.86
2163 7206 2.223502 GGATCTACATGAGCGTTCGTCA 60.224 50.000 0.00 0.00 30.59 4.35
2264 7307 3.485633 CAATCGACAGTCAAGTTGCATG 58.514 45.455 0.41 1.87 0.00 4.06
2313 7356 3.230134 TGTTGAGGCCTATTTTGCTTGT 58.770 40.909 4.42 0.00 0.00 3.16
2418 7461 4.800249 GCTCTCATGACTGATCCAGATTCC 60.800 50.000 0.45 0.00 35.18 3.01
2487 7530 3.136260 AGAGCATGGAGGATTCCTTCTTC 59.864 47.826 12.38 5.23 44.36 2.87
2490 7533 1.204146 TGGAGGATTCCTTCTTCGGG 58.796 55.000 12.38 0.00 44.36 5.14
2514 7557 4.910195 ACTTGGATCACAGAGCATTTGTA 58.090 39.130 0.00 0.00 0.00 2.41
2708 7754 9.650539 CAAGATTATCAGAGAAGAGAAGTTCAA 57.349 33.333 5.50 0.00 0.00 2.69
2742 7788 1.947456 GTCATGCCGGGGTTTAAGATC 59.053 52.381 2.18 0.00 0.00 2.75
2751 7797 1.092348 GGTTTAAGATCGGGTGCACC 58.908 55.000 28.57 28.57 0.00 5.01
2772 7818 3.427503 CCGTCATCAAATGCAGGGTTTAC 60.428 47.826 0.00 0.00 0.00 2.01
2776 7822 5.048083 GTCATCAAATGCAGGGTTTACTTGA 60.048 40.000 0.00 0.00 0.00 3.02
2787 7833 6.374613 GCAGGGTTTACTTGAGTAAGCTTAAT 59.625 38.462 7.99 7.01 41.03 1.40
2790 7836 6.404403 GGGTTTACTTGAGTAAGCTTAATGCC 60.404 42.308 11.80 0.00 44.23 4.40
2814 7860 6.017357 CCATGGACTTCTGAACACATCATATG 60.017 42.308 5.56 0.00 37.44 1.78
2818 7864 6.595326 GGACTTCTGAACACATCATATGACAA 59.405 38.462 7.78 0.00 37.44 3.18
2842 7888 5.523369 CCATTAGGTAAGCAAGCAATTAGC 58.477 41.667 0.00 0.00 46.19 3.09
2861 7910 8.350722 CAATTAGCTTATAGTAAGTCTGTCGGA 58.649 37.037 0.00 0.00 0.00 4.55
2915 7964 2.691011 CCTAGGAGTTGAGGAGCACTAC 59.309 54.545 1.05 0.00 34.46 2.73
3065 8114 6.147864 ACGAAATTGGATAATGGAATGTGG 57.852 37.500 0.00 0.00 0.00 4.17
3066 8115 5.068987 ACGAAATTGGATAATGGAATGTGGG 59.931 40.000 0.00 0.00 0.00 4.61
3067 8116 4.961438 AATTGGATAATGGAATGTGGGC 57.039 40.909 0.00 0.00 0.00 5.36
3088 8139 4.456566 GGCATGCTCATCAAAAACCATTTT 59.543 37.500 18.92 0.00 39.30 1.82
3103 8154 4.511527 ACCATTTTGCATGAACAACACAA 58.488 34.783 0.00 0.00 0.00 3.33
3104 8155 4.571580 ACCATTTTGCATGAACAACACAAG 59.428 37.500 0.00 0.00 0.00 3.16
3105 8156 4.520078 CATTTTGCATGAACAACACAAGC 58.480 39.130 0.00 0.00 0.00 4.01
3106 8157 2.955477 TTGCATGAACAACACAAGCA 57.045 40.000 0.00 0.00 34.19 3.91
3107 8158 2.206815 TGCATGAACAACACAAGCAC 57.793 45.000 0.00 0.00 32.21 4.40
3108 8159 1.475682 TGCATGAACAACACAAGCACA 59.524 42.857 0.00 0.00 32.21 4.57
3109 8160 1.854126 GCATGAACAACACAAGCACAC 59.146 47.619 0.00 0.00 0.00 3.82
3110 8161 2.734809 GCATGAACAACACAAGCACACA 60.735 45.455 0.00 0.00 0.00 3.72
3111 8162 3.708890 CATGAACAACACAAGCACACAT 58.291 40.909 0.00 0.00 0.00 3.21
3117 8168 3.243168 ACAACACAAGCACACATCACATC 60.243 43.478 0.00 0.00 0.00 3.06
3169 8221 7.627939 GCATCCATCATTTATCTAACCATGAGC 60.628 40.741 0.00 0.00 0.00 4.26
3209 8261 5.376625 TGGTACAAAAGAAGTTCATCTGCT 58.623 37.500 5.50 0.00 29.94 4.24
3276 8328 2.349580 CGCCACATGCATATATCTTCCG 59.650 50.000 0.00 0.00 41.33 4.30
3363 8415 2.236395 CCAACCTTCCTCCACGTATTCT 59.764 50.000 0.00 0.00 0.00 2.40
3447 8499 2.092429 TGTTGTTTGCTCAGAGGAAGGT 60.092 45.455 4.36 0.00 0.00 3.50
3519 8573 9.354673 AGGTCATATTAATCCCAACAGTTTATG 57.645 33.333 0.00 0.00 0.00 1.90
3564 8626 7.129457 TGTACTGCCTGAGAAATCAATAGAT 57.871 36.000 0.00 0.00 35.53 1.98
3594 8656 4.886489 TGAGGTCATCTCTGTATCTGTGAG 59.114 45.833 0.00 0.00 42.86 3.51
3595 8657 4.214310 AGGTCATCTCTGTATCTGTGAGG 58.786 47.826 0.00 0.00 0.00 3.86
3597 8659 3.957497 GTCATCTCTGTATCTGTGAGGGT 59.043 47.826 0.00 0.00 0.00 4.34
3598 8660 5.133941 GTCATCTCTGTATCTGTGAGGGTA 58.866 45.833 0.00 0.00 0.00 3.69
3599 8661 5.772672 GTCATCTCTGTATCTGTGAGGGTAT 59.227 44.000 0.00 0.00 0.00 2.73
3600 8662 6.943146 GTCATCTCTGTATCTGTGAGGGTATA 59.057 42.308 0.00 0.00 0.00 1.47
3601 8663 7.120579 GTCATCTCTGTATCTGTGAGGGTATAG 59.879 44.444 0.00 0.00 0.00 1.31
3602 8664 5.882040 TCTCTGTATCTGTGAGGGTATAGG 58.118 45.833 0.00 0.00 0.00 2.57
3682 8748 2.684881 CGAAGGGCTGCATACTGAATTT 59.315 45.455 0.50 0.00 0.00 1.82
3714 8780 6.095860 CCAACCAGAAATTCATCAGCATAAGA 59.904 38.462 0.00 0.00 0.00 2.10
3731 8797 6.583806 AGCATAAGAAAAACTTGCAGATTTCG 59.416 34.615 0.00 0.00 39.38 3.46
3734 8800 4.293415 AGAAAAACTTGCAGATTTCGCTG 58.707 39.130 8.80 0.00 36.99 5.18
3784 8852 1.597663 GGCGGTTCAGTGTATGTATGC 59.402 52.381 0.00 0.00 0.00 3.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 0.896940 TTGTCCTCGACGTAGGCCTT 60.897 55.000 12.58 0.00 36.51 4.35
29 30 1.153881 GTTGTCCTCGACGTAGGCC 60.154 63.158 0.00 0.00 36.51 5.19
36 37 0.729116 TATCGACGGTTGTCCTCGAC 59.271 55.000 0.00 0.00 41.84 4.20
54 55 2.204029 ACGCTTCCCCTTGGGGTA 60.204 61.111 23.01 13.77 44.51 3.69
75 76 3.194755 TCGGAATTTCATCACTTCCTCGA 59.805 43.478 0.00 0.00 36.99 4.04
141 150 2.199652 CCAAAAGGTCTTGCCGCCA 61.200 57.895 0.00 0.00 43.70 5.69
144 153 3.016736 ACATATCCAAAAGGTCTTGCCG 58.983 45.455 0.00 0.00 43.70 5.69
192 201 1.738350 ACACAGTCCGAGACGACATAG 59.262 52.381 0.00 0.00 37.67 2.23
193 202 1.817357 ACACAGTCCGAGACGACATA 58.183 50.000 0.00 0.00 37.67 2.29
194 203 0.959553 AACACAGTCCGAGACGACAT 59.040 50.000 0.00 0.00 37.67 3.06
195 204 1.596603 TAACACAGTCCGAGACGACA 58.403 50.000 0.00 0.00 37.67 4.35
196 205 2.095364 ACATAACACAGTCCGAGACGAC 60.095 50.000 0.00 0.00 37.67 4.34
197 206 2.156917 ACATAACACAGTCCGAGACGA 58.843 47.619 0.00 0.00 37.67 4.20
198 207 2.631418 ACATAACACAGTCCGAGACG 57.369 50.000 0.00 0.00 37.67 4.18
199 208 8.136165 AGATATAAACATAACACAGTCCGAGAC 58.864 37.037 0.00 0.00 0.00 3.36
200 209 8.234136 AGATATAAACATAACACAGTCCGAGA 57.766 34.615 0.00 0.00 0.00 4.04
202 211 9.908152 CATAGATATAAACATAACACAGTCCGA 57.092 33.333 0.00 0.00 0.00 4.55
203 212 8.648097 GCATAGATATAAACATAACACAGTCCG 58.352 37.037 0.00 0.00 0.00 4.79
204 213 8.936864 GGCATAGATATAAACATAACACAGTCC 58.063 37.037 0.00 0.00 0.00 3.85
205 214 8.648097 CGGCATAGATATAAACATAACACAGTC 58.352 37.037 0.00 0.00 0.00 3.51
206 215 7.602644 CCGGCATAGATATAAACATAACACAGT 59.397 37.037 0.00 0.00 0.00 3.55
207 216 7.602644 ACCGGCATAGATATAAACATAACACAG 59.397 37.037 0.00 0.00 0.00 3.66
208 217 7.446769 ACCGGCATAGATATAAACATAACACA 58.553 34.615 0.00 0.00 0.00 3.72
209 218 7.900782 ACCGGCATAGATATAAACATAACAC 57.099 36.000 0.00 0.00 0.00 3.32
210 219 9.647797 CTAACCGGCATAGATATAAACATAACA 57.352 33.333 0.00 0.00 0.00 2.41
211 220 8.601476 GCTAACCGGCATAGATATAAACATAAC 58.399 37.037 16.83 0.00 0.00 1.89
212 221 8.537016 AGCTAACCGGCATAGATATAAACATAA 58.463 33.333 16.83 0.00 34.17 1.90
213 222 8.074613 AGCTAACCGGCATAGATATAAACATA 57.925 34.615 16.83 0.00 34.17 2.29
214 223 6.947464 AGCTAACCGGCATAGATATAAACAT 58.053 36.000 16.83 0.00 34.17 2.71
215 224 6.354794 AGCTAACCGGCATAGATATAAACA 57.645 37.500 16.83 0.00 34.17 2.83
216 225 7.980099 ACATAGCTAACCGGCATAGATATAAAC 59.020 37.037 19.46 3.08 31.95 2.01
217 226 8.074613 ACATAGCTAACCGGCATAGATATAAA 57.925 34.615 19.46 1.84 31.95 1.40
218 227 7.655521 ACATAGCTAACCGGCATAGATATAA 57.344 36.000 19.46 2.14 31.95 0.98
219 228 7.468220 CGAACATAGCTAACCGGCATAGATATA 60.468 40.741 19.46 9.79 31.95 0.86
220 229 6.546428 AACATAGCTAACCGGCATAGATAT 57.454 37.500 16.01 16.01 33.47 1.63
221 230 5.392703 CGAACATAGCTAACCGGCATAGATA 60.393 44.000 16.83 15.03 34.17 1.98
222 231 4.618460 CGAACATAGCTAACCGGCATAGAT 60.618 45.833 16.83 13.49 34.17 1.98
223 232 3.305131 CGAACATAGCTAACCGGCATAGA 60.305 47.826 16.83 0.00 34.17 1.98
224 233 2.987149 CGAACATAGCTAACCGGCATAG 59.013 50.000 0.00 5.87 34.17 2.23
225 234 2.363038 ACGAACATAGCTAACCGGCATA 59.637 45.455 0.00 0.00 34.17 3.14
226 235 1.138266 ACGAACATAGCTAACCGGCAT 59.862 47.619 0.00 0.00 34.17 4.40
227 236 0.533491 ACGAACATAGCTAACCGGCA 59.467 50.000 0.00 0.00 34.17 5.69
228 237 2.497107 TACGAACATAGCTAACCGGC 57.503 50.000 0.00 0.00 0.00 6.13
229 238 7.597743 AGATTAAATACGAACATAGCTAACCGG 59.402 37.037 0.00 0.00 0.00 5.28
230 239 8.425491 CAGATTAAATACGAACATAGCTAACCG 58.575 37.037 0.00 1.78 0.00 4.44
231 240 8.221766 GCAGATTAAATACGAACATAGCTAACC 58.778 37.037 0.00 0.00 0.00 2.85
232 241 7.945178 CGCAGATTAAATACGAACATAGCTAAC 59.055 37.037 0.00 0.00 0.00 2.34
233 242 7.650504 ACGCAGATTAAATACGAACATAGCTAA 59.349 33.333 0.00 0.00 0.00 3.09
234 243 7.143340 ACGCAGATTAAATACGAACATAGCTA 58.857 34.615 0.00 0.00 0.00 3.32
235 244 5.983720 ACGCAGATTAAATACGAACATAGCT 59.016 36.000 0.00 0.00 0.00 3.32
236 245 6.211664 ACGCAGATTAAATACGAACATAGC 57.788 37.500 0.00 0.00 0.00 2.97
237 246 7.806487 TCCTACGCAGATTAAATACGAACATAG 59.194 37.037 0.00 0.00 0.00 2.23
238 247 7.650890 TCCTACGCAGATTAAATACGAACATA 58.349 34.615 0.00 0.00 0.00 2.29
239 248 6.509656 TCCTACGCAGATTAAATACGAACAT 58.490 36.000 0.00 0.00 0.00 2.71
240 249 5.893687 TCCTACGCAGATTAAATACGAACA 58.106 37.500 0.00 0.00 0.00 3.18
241 250 6.559158 CGTTCCTACGCAGATTAAATACGAAC 60.559 42.308 0.00 0.00 41.41 3.95
242 251 5.456497 CGTTCCTACGCAGATTAAATACGAA 59.544 40.000 0.00 0.00 41.41 3.85
243 252 4.971830 CGTTCCTACGCAGATTAAATACGA 59.028 41.667 0.00 0.00 41.41 3.43
244 253 5.233473 CGTTCCTACGCAGATTAAATACG 57.767 43.478 0.00 0.00 41.41 3.06
258 267 1.127951 CCATGCAAACGACGTTCCTAC 59.872 52.381 14.58 4.65 0.00 3.18
259 268 1.270412 ACCATGCAAACGACGTTCCTA 60.270 47.619 14.58 3.54 0.00 2.94
260 269 0.534203 ACCATGCAAACGACGTTCCT 60.534 50.000 14.58 0.00 0.00 3.36
261 270 0.309612 AACCATGCAAACGACGTTCC 59.690 50.000 14.58 8.88 0.00 3.62
262 271 2.113910 AAACCATGCAAACGACGTTC 57.886 45.000 14.58 2.94 0.00 3.95
263 272 3.907894 ATAAACCATGCAAACGACGTT 57.092 38.095 7.57 7.57 0.00 3.99
264 273 4.632251 TCATATAAACCATGCAAACGACGT 59.368 37.500 0.00 0.00 0.00 4.34
265 274 5.150342 TCATATAAACCATGCAAACGACG 57.850 39.130 0.00 0.00 0.00 5.12
266 275 7.985634 AATTCATATAAACCATGCAAACGAC 57.014 32.000 0.00 0.00 0.00 4.34
273 282 9.607285 CGTACCTTAAATTCATATAAACCATGC 57.393 33.333 0.00 0.00 0.00 4.06
276 285 9.887629 TGTCGTACCTTAAATTCATATAAACCA 57.112 29.630 0.00 0.00 0.00 3.67
287 296 7.989416 TTCCTCAAATGTCGTACCTTAAATT 57.011 32.000 0.00 0.00 0.00 1.82
292 301 3.689649 GCATTCCTCAAATGTCGTACCTT 59.310 43.478 0.30 0.00 45.55 3.50
298 307 1.202222 GCCTGCATTCCTCAAATGTCG 60.202 52.381 0.00 0.00 45.55 4.35
300 309 1.927487 TGCCTGCATTCCTCAAATGT 58.073 45.000 0.00 0.00 45.55 2.71
318 327 1.938577 CCTCATTTCTCGCACTCCATG 59.061 52.381 0.00 0.00 0.00 3.66
319 328 1.556911 ACCTCATTTCTCGCACTCCAT 59.443 47.619 0.00 0.00 0.00 3.41
335 344 0.741915 GAGGTGATCGGACAGACCTC 59.258 60.000 10.84 10.84 45.82 3.85
340 349 1.142748 GCTGGAGGTGATCGGACAG 59.857 63.158 0.00 0.00 0.00 3.51
347 356 2.507944 GCATCCGCTGGAGGTGAT 59.492 61.111 10.15 0.00 35.75 3.06
375 384 0.599060 GCTCCTATACTCCAGCGGAC 59.401 60.000 0.00 0.00 0.00 4.79
381 390 5.473273 TCTAATTTGGGCTCCTATACTCCA 58.527 41.667 0.00 0.00 0.00 3.86
404 413 1.714899 GCATTTACAGCCGCGGTCAT 61.715 55.000 28.70 14.62 0.00 3.06
407 416 2.046314 AGCATTTACAGCCGCGGT 60.046 55.556 28.70 9.89 0.00 5.68
410 419 4.690748 TCATATAAGAGCATTTACAGCCGC 59.309 41.667 0.00 0.00 0.00 6.53
411 420 6.785488 TTCATATAAGAGCATTTACAGCCG 57.215 37.500 0.00 0.00 0.00 5.52
484 493 2.093711 TGAATGATACCACCACAGGACG 60.094 50.000 0.00 0.00 0.00 4.79
564 576 0.818296 GTGCATACTGTCTCCGGTCT 59.182 55.000 0.00 0.00 0.00 3.85
568 580 2.412870 TGTTTGTGCATACTGTCTCCG 58.587 47.619 0.00 0.00 0.00 4.63
583 595 5.782893 TTTTGGGAGAGGTACAATGTTTG 57.217 39.130 0.00 0.00 0.00 2.93
584 596 6.074648 TCATTTTGGGAGAGGTACAATGTTT 58.925 36.000 0.00 0.00 0.00 2.83
629 644 5.761234 TCACGTGGCAGTAAACTAAAGATTT 59.239 36.000 17.00 0.00 0.00 2.17
632 647 4.053295 GTCACGTGGCAGTAAACTAAAGA 58.947 43.478 16.80 0.00 0.00 2.52
637 652 1.219522 GCGTCACGTGGCAGTAAACT 61.220 55.000 21.70 0.00 0.00 2.66
686 708 3.748989 GCCTTCCATTCCAGATCTTACCC 60.749 52.174 0.00 0.00 0.00 3.69
780 5408 2.946329 CTCGCTCTCTGCCTAAGACTTA 59.054 50.000 0.00 0.00 38.78 2.24
781 5409 1.748493 CTCGCTCTCTGCCTAAGACTT 59.252 52.381 0.00 0.00 38.78 3.01
782 5410 1.388547 CTCGCTCTCTGCCTAAGACT 58.611 55.000 0.00 0.00 38.78 3.24
783 5411 0.383949 CCTCGCTCTCTGCCTAAGAC 59.616 60.000 0.00 0.00 38.78 3.01
784 5412 0.033991 ACCTCGCTCTCTGCCTAAGA 60.034 55.000 0.00 0.00 38.78 2.10
785 5413 0.820871 AACCTCGCTCTCTGCCTAAG 59.179 55.000 0.00 0.00 38.78 2.18
786 5414 2.025155 CTAACCTCGCTCTCTGCCTAA 58.975 52.381 0.00 0.00 38.78 2.69
789 5417 1.439644 CCTAACCTCGCTCTCTGCC 59.560 63.158 0.00 0.00 38.78 4.85
894 5527 3.018149 ACCACTACTGCTACTGCTACTC 58.982 50.000 0.00 0.00 40.48 2.59
895 5528 3.088789 ACCACTACTGCTACTGCTACT 57.911 47.619 0.00 0.00 40.48 2.57
926 5559 0.465824 GGATCGAGACGAGGAGGGAA 60.466 60.000 0.00 0.00 39.91 3.97
1032 6057 2.665603 GAGAGTGAGGTGGTGGGC 59.334 66.667 0.00 0.00 0.00 5.36
1098 6126 2.430921 CTGTCTGCACGGACGGAC 60.431 66.667 12.27 10.94 43.20 4.79
1111 6142 1.672145 GGCCGTTCTAGAACACCTGTC 60.672 57.143 29.95 15.67 41.20 3.51
1112 6143 0.320697 GGCCGTTCTAGAACACCTGT 59.679 55.000 29.95 0.00 41.20 4.00
1113 6144 0.736325 CGGCCGTTCTAGAACACCTG 60.736 60.000 29.95 21.31 41.20 4.00
1115 6146 0.320160 AACGGCCGTTCTAGAACACC 60.320 55.000 36.96 27.25 41.20 4.16
1174 6206 2.559231 TCATGTAACAGTACAGCCGTCA 59.441 45.455 0.00 0.00 43.42 4.35
1179 6211 4.673441 ACTCGATCATGTAACAGTACAGC 58.327 43.478 0.00 0.00 43.42 4.40
1184 6216 5.784177 ACAAGAACTCGATCATGTAACAGT 58.216 37.500 0.00 0.00 30.11 3.55
1220 6253 2.493035 TCAGACGATTGCAAAGCAGAA 58.507 42.857 1.71 0.00 40.61 3.02
1339 6372 1.215655 GATCGCGGATTTCGACAGGG 61.216 60.000 6.13 0.00 42.43 4.45
1410 6453 0.459411 GCGAACCTTCTCTCCTCAGC 60.459 60.000 0.00 0.00 0.00 4.26
1587 6630 2.099756 GGTGCTGTTGTTCTTGAGCTTT 59.900 45.455 0.00 0.00 32.41 3.51
1662 6705 4.436998 GAGGACGACGCCTGGTGG 62.437 72.222 12.58 0.00 38.73 4.61
1721 6764 2.752238 CGACCTCCTCCTCGCAGT 60.752 66.667 0.00 0.00 0.00 4.40
1731 6774 1.430228 GAGCTTCTCGACGACCTCC 59.570 63.158 0.00 0.00 0.00 4.30
1869 6912 1.412079 ACAAATCCTGCAAGTTGGCA 58.588 45.000 4.75 2.59 42.53 4.92
1963 7006 0.253044 GCCTGCAGGTCCATCACTAA 59.747 55.000 32.81 0.00 37.57 2.24
1965 7008 1.922369 AGCCTGCAGGTCCATCACT 60.922 57.895 32.81 17.06 37.57 3.41
2025 7068 1.001406 CTTTCCAGCTCGTCCAACTCT 59.999 52.381 0.00 0.00 0.00 3.24
2029 7072 0.762418 TTCCTTTCCAGCTCGTCCAA 59.238 50.000 0.00 0.00 0.00 3.53
2090 7133 2.027377 ACTGTGAAGCATCCTTCTCTGG 60.027 50.000 9.33 2.06 46.13 3.86
2163 7206 4.274602 TGCAAAATCATGGATGCACTTT 57.725 36.364 10.23 0.00 43.32 2.66
2264 7307 1.620819 TCTTGTCAGCCCTTCTCTCAC 59.379 52.381 0.00 0.00 0.00 3.51
2418 7461 3.797039 TCTGCAATATCTCCCGAAACTG 58.203 45.455 0.00 0.00 0.00 3.16
2487 7530 2.009042 GCTCTGTGATCCAAGTTCCCG 61.009 57.143 0.00 0.00 0.00 5.14
2490 7533 4.217118 ACAAATGCTCTGTGATCCAAGTTC 59.783 41.667 0.00 0.00 0.00 3.01
2514 7557 3.532155 GGATGACCGCCGCTCTCT 61.532 66.667 0.00 0.00 0.00 3.10
2708 7754 2.825532 GGCATGACTGTAAACCCAACAT 59.174 45.455 0.00 0.00 0.00 2.71
2751 7797 3.440173 AGTAAACCCTGCATTTGATGACG 59.560 43.478 0.00 0.00 0.00 4.35
2759 7805 4.459337 GCTTACTCAAGTAAACCCTGCATT 59.541 41.667 4.32 0.00 39.70 3.56
2772 7818 4.883585 TCCATGGCATTAAGCTTACTCAAG 59.116 41.667 6.96 0.12 44.79 3.02
2776 7822 4.510167 AGTCCATGGCATTAAGCTTACT 57.490 40.909 6.96 0.00 44.79 2.24
2787 7833 1.142667 TGTGTTCAGAAGTCCATGGCA 59.857 47.619 6.96 0.00 0.00 4.92
2790 7836 6.764560 TCATATGATGTGTTCAGAAGTCCATG 59.235 38.462 0.00 0.00 37.89 3.66
2814 7860 3.756434 TGCTTGCTTACCTAATGGTTGTC 59.244 43.478 0.00 0.00 46.05 3.18
2818 7864 5.067805 GCTAATTGCTTGCTTACCTAATGGT 59.932 40.000 0.00 0.00 43.54 3.55
2834 7880 7.115095 CCGACAGACTTACTATAAGCTAATTGC 59.885 40.741 0.00 0.00 43.29 3.56
2835 7881 8.350722 TCCGACAGACTTACTATAAGCTAATTG 58.649 37.037 0.00 0.00 0.00 2.32
2836 7882 8.351461 GTCCGACAGACTTACTATAAGCTAATT 58.649 37.037 0.00 0.00 42.69 1.40
2837 7883 7.501559 TGTCCGACAGACTTACTATAAGCTAAT 59.498 37.037 0.00 0.00 46.46 1.73
2838 7884 6.825213 TGTCCGACAGACTTACTATAAGCTAA 59.175 38.462 0.00 0.00 46.46 3.09
2839 7885 6.351711 TGTCCGACAGACTTACTATAAGCTA 58.648 40.000 0.00 0.00 46.46 3.32
2841 7887 5.496133 TGTCCGACAGACTTACTATAAGC 57.504 43.478 0.00 0.00 46.46 3.09
2842 7888 7.536855 ACTTTGTCCGACAGACTTACTATAAG 58.463 38.462 0.64 1.63 46.46 1.73
2843 7889 7.458409 ACTTTGTCCGACAGACTTACTATAA 57.542 36.000 0.64 0.00 46.46 0.98
2861 7910 6.038714 CAGGAGAAGCTTAACAGAAACTTTGT 59.961 38.462 0.00 0.00 0.00 2.83
3065 8114 2.747396 TGGTTTTTGATGAGCATGCC 57.253 45.000 15.66 6.65 0.00 4.40
3066 8115 5.616488 AAAATGGTTTTTGATGAGCATGC 57.384 34.783 10.51 10.51 33.79 4.06
3088 8139 1.475682 TGTGCTTGTGTTGTTCATGCA 59.524 42.857 0.00 0.00 41.34 3.96
3089 8140 1.854126 GTGTGCTTGTGTTGTTCATGC 59.146 47.619 0.00 0.00 36.79 4.06
3103 8154 2.420642 GACAGTGATGTGATGTGTGCT 58.579 47.619 0.00 0.00 0.00 4.40
3104 8155 1.466167 GGACAGTGATGTGATGTGTGC 59.534 52.381 0.00 0.00 0.00 4.57
3105 8156 3.049708 AGGACAGTGATGTGATGTGTG 57.950 47.619 0.00 0.00 0.00 3.82
3106 8157 4.890158 TTAGGACAGTGATGTGATGTGT 57.110 40.909 0.00 0.00 0.00 3.72
3107 8158 4.813161 GGATTAGGACAGTGATGTGATGTG 59.187 45.833 0.00 0.00 0.00 3.21
3108 8159 4.141620 GGGATTAGGACAGTGATGTGATGT 60.142 45.833 0.00 0.00 0.00 3.06
3109 8160 4.102210 AGGGATTAGGACAGTGATGTGATG 59.898 45.833 0.00 0.00 0.00 3.07
3110 8161 4.302067 AGGGATTAGGACAGTGATGTGAT 58.698 43.478 0.00 0.00 0.00 3.06
3111 8162 3.724478 AGGGATTAGGACAGTGATGTGA 58.276 45.455 0.00 0.00 0.00 3.58
3117 8168 4.494091 ACATCAAGGGATTAGGACAGTG 57.506 45.455 0.00 0.00 0.00 3.66
3185 8237 5.827797 AGCAGATGAACTTCTTTTGTACCAA 59.172 36.000 0.00 0.00 0.00 3.67
3209 8261 5.418840 ACAAACTTCTTTTCCAAGCTCTTCA 59.581 36.000 0.00 0.00 0.00 3.02
3276 8328 2.352127 GCCAAGGCAAGTTGACAATCTC 60.352 50.000 12.25 0.00 41.49 2.75
3363 8415 5.818336 TGTTTCTGAAAATACAGTTGACGGA 59.182 36.000 4.09 0.00 38.79 4.69
3490 8544 6.357367 ACTGTTGGGATTAATATGACCTCAC 58.643 40.000 0.00 0.00 0.00 3.51
3508 8562 6.668541 ATACTACTGCAGCATAAACTGTTG 57.331 37.500 15.27 0.00 39.96 3.33
3519 8573 9.477484 AGTACAATATTTGTATACTACTGCAGC 57.523 33.333 15.27 0.00 46.73 5.25
3564 8626 8.200120 CAGATACAGAGATGACCTCATGTTTTA 58.800 37.037 0.00 0.00 44.40 1.52
3577 8639 6.376864 CCTATACCCTCACAGATACAGAGATG 59.623 46.154 0.00 0.00 0.00 2.90
3594 8656 1.976404 GAAGGTACCCTGCCTATACCC 59.024 57.143 8.74 0.00 39.43 3.69
3595 8657 2.686119 TGAAGGTACCCTGCCTATACC 58.314 52.381 8.74 0.00 38.98 2.73
3597 8659 3.726790 TGTTGAAGGTACCCTGCCTATA 58.273 45.455 8.74 0.00 34.81 1.31
3598 8660 2.557869 TGTTGAAGGTACCCTGCCTAT 58.442 47.619 8.74 0.00 34.81 2.57
3599 8661 2.032965 TGTTGAAGGTACCCTGCCTA 57.967 50.000 8.74 0.00 34.81 3.93
3600 8662 1.372501 ATGTTGAAGGTACCCTGCCT 58.627 50.000 8.74 0.00 38.11 4.75
3601 8663 3.118038 TCATATGTTGAAGGTACCCTGCC 60.118 47.826 8.74 0.00 32.13 4.85
3602 8664 3.877508 GTCATATGTTGAAGGTACCCTGC 59.122 47.826 8.74 0.00 35.70 4.85
3682 8748 7.577426 GCTGATGAATTTCTGGTTGGTATTTCA 60.577 37.037 0.00 0.00 0.00 2.69
3714 8780 4.305989 TCAGCGAAATCTGCAAGTTTTT 57.694 36.364 0.00 0.00 36.08 1.94


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

AutoCloner maintained by Alex Coulton.