Multiple sequence alignment - TraesCS5D01G247300

Loading Multiple Alignment...

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 TraesCS5D01G247300 chr5D 100.000 2841 0 0 1 2841 354835826 354838666 0.000000e+00 5247.0
1 TraesCS5D01G247300 chr5D 80.134 599 73 34 1148 1717 354891243 354891824 3.410000e-109 405.0
2 TraesCS5D01G247300 chr5D 95.283 212 10 0 1506 1717 354030971 354030760 1.260000e-88 337.0
3 TraesCS5D01G247300 chr5B 91.278 1502 59 28 1303 2755 419620274 419621752 0.000000e+00 1982.0
4 TraesCS5D01G247300 chr5B 90.554 921 41 15 270 1159 419619113 419620018 0.000000e+00 1177.0
5 TraesCS5D01G247300 chr5B 78.140 613 79 35 1148 1717 419644432 419645032 3.510000e-89 339.0
6 TraesCS5D01G247300 chr5B 94.811 212 11 0 1506 1717 418374135 418373924 5.870000e-87 331.0
7 TraesCS5D01G247300 chr5A 88.379 1721 67 49 1151 2783 456974909 456976584 0.000000e+00 1947.0
8 TraesCS5D01G247300 chr5A 79.669 605 69 37 1148 1717 457003850 457004435 1.230000e-103 387.0
9 TraesCS5D01G247300 chr5A 78.374 615 68 37 1151 1717 454817009 454816412 3.510000e-89 339.0
10 TraesCS5D01G247300 chr5A 82.555 407 39 15 777 1159 456974480 456974878 2.110000e-86 329.0
11 TraesCS5D01G247300 chr5A 84.746 354 23 11 363 702 456974141 456974477 2.730000e-85 326.0
12 TraesCS5D01G247300 chr5A 77.500 200 23 15 780 972 454817446 454817262 1.800000e-17 100.0
13 TraesCS5D01G247300 chr5A 94.828 58 3 0 317 374 456974034 456974091 1.080000e-14 91.6
14 TraesCS5D01G247300 chr5A 90.909 44 3 1 2769 2811 456976615 456976658 1.100000e-04 58.4


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 TraesCS5D01G247300 chr5D 354835826 354838666 2840 False 5247.0 5247 100.0000 1 2841 1 chr5D.!!$F1 2840
1 TraesCS5D01G247300 chr5D 354891243 354891824 581 False 405.0 405 80.1340 1148 1717 1 chr5D.!!$F2 569
2 TraesCS5D01G247300 chr5B 419619113 419621752 2639 False 1579.5 1982 90.9160 270 2755 2 chr5B.!!$F2 2485
3 TraesCS5D01G247300 chr5B 419644432 419645032 600 False 339.0 339 78.1400 1148 1717 1 chr5B.!!$F1 569
4 TraesCS5D01G247300 chr5A 456974034 456976658 2624 False 550.4 1947 88.2834 317 2811 5 chr5A.!!$F2 2494
5 TraesCS5D01G247300 chr5A 457003850 457004435 585 False 387.0 387 79.6690 1148 1717 1 chr5A.!!$F1 569
6 TraesCS5D01G247300 chr5A 454816412 454817446 1034 True 219.5 339 77.9370 780 1717 2 chr5A.!!$R1 937

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
29 30 0.110056 CTGTGCAAAGATCCACACGC 60.11 55.0 0.0 0.0 37.07 5.34 F
554 618 0.110056 CACGACAAGATTGCCTGCAC 60.11 55.0 0.0 0.0 0.00 4.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1573 1895 1.210931 GTCCATGTCCGTCGACGAA 59.789 57.895 37.65 18.28 42.37 3.85 R
2523 2909 2.168728 GCAACCAAGGTAAACCAAACCA 59.831 45.455 1.26 0.00 39.64 3.67 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 1.972872 AGACCACCTTCTGTGCAAAG 58.027 50.000 0.00 0.00 44.01 2.77
20 21 1.490490 AGACCACCTTCTGTGCAAAGA 59.510 47.619 1.21 1.21 44.01 2.52
21 22 2.107204 AGACCACCTTCTGTGCAAAGAT 59.893 45.455 7.60 0.00 44.01 2.40
22 23 2.485814 GACCACCTTCTGTGCAAAGATC 59.514 50.000 7.60 0.00 44.01 2.75
23 24 1.815003 CCACCTTCTGTGCAAAGATCC 59.185 52.381 7.60 0.00 44.01 3.36
24 25 2.507484 CACCTTCTGTGCAAAGATCCA 58.493 47.619 7.60 0.00 38.34 3.41
25 26 2.227388 CACCTTCTGTGCAAAGATCCAC 59.773 50.000 7.60 0.00 38.34 4.02
26 27 2.158623 ACCTTCTGTGCAAAGATCCACA 60.159 45.455 7.60 3.05 39.45 4.17
27 28 2.227388 CCTTCTGTGCAAAGATCCACAC 59.773 50.000 7.60 0.00 37.07 3.82
28 29 1.511850 TCTGTGCAAAGATCCACACG 58.488 50.000 1.21 0.00 37.07 4.49
29 30 0.110056 CTGTGCAAAGATCCACACGC 60.110 55.000 0.00 0.00 37.07 5.34
30 31 1.154413 GTGCAAAGATCCACACGCG 60.154 57.895 3.53 3.53 32.37 6.01
31 32 1.596752 TGCAAAGATCCACACGCGT 60.597 52.632 5.58 5.58 0.00 6.01
32 33 1.154413 GCAAAGATCCACACGCGTG 60.154 57.895 35.99 35.99 43.21 5.34
79 80 4.796231 CCGAGGTCGTTGGCGGAG 62.796 72.222 0.00 0.00 46.29 4.63
80 81 4.796231 CGAGGTCGTTGGCGGAGG 62.796 72.222 0.00 0.00 38.89 4.30
81 82 4.452733 GAGGTCGTTGGCGGAGGG 62.453 72.222 0.00 0.00 38.89 4.30
83 84 4.452733 GGTCGTTGGCGGAGGGAG 62.453 72.222 0.00 0.00 38.89 4.30
105 106 4.367023 CGGAGGACAACGGCGGAA 62.367 66.667 13.24 0.00 0.00 4.30
106 107 2.434359 GGAGGACAACGGCGGAAG 60.434 66.667 13.24 2.48 0.00 3.46
107 108 2.342648 GAGGACAACGGCGGAAGT 59.657 61.111 13.24 6.32 0.00 3.01
108 109 1.588082 GAGGACAACGGCGGAAGTA 59.412 57.895 13.24 0.00 0.00 2.24
109 110 0.458025 GAGGACAACGGCGGAAGTAG 60.458 60.000 13.24 0.00 0.00 2.57
110 111 0.896940 AGGACAACGGCGGAAGTAGA 60.897 55.000 13.24 0.00 0.00 2.59
111 112 0.735287 GGACAACGGCGGAAGTAGAC 60.735 60.000 13.24 0.00 0.00 2.59
112 113 1.069378 GACAACGGCGGAAGTAGACG 61.069 60.000 13.24 0.00 0.00 4.18
118 119 4.203076 CGGAAGTAGACGCCCCGG 62.203 72.222 0.00 0.00 36.81 5.73
119 120 2.757099 GGAAGTAGACGCCCCGGA 60.757 66.667 0.73 0.00 0.00 5.14
120 121 2.783288 GGAAGTAGACGCCCCGGAG 61.783 68.421 0.73 0.00 0.00 4.63
148 149 4.599417 CGACGAGATCGCCTCTTC 57.401 61.111 1.39 3.11 45.52 2.87
149 150 2.018544 CGACGAGATCGCCTCTTCT 58.981 57.895 1.39 0.00 45.52 2.85
150 151 0.378962 CGACGAGATCGCCTCTTCTT 59.621 55.000 1.39 0.00 45.52 2.52
151 152 1.202200 CGACGAGATCGCCTCTTCTTT 60.202 52.381 1.39 0.00 45.52 2.52
152 153 2.456010 GACGAGATCGCCTCTTCTTTC 58.544 52.381 1.39 0.00 44.43 2.62
153 154 2.096248 ACGAGATCGCCTCTTCTTTCT 58.904 47.619 1.39 0.00 44.43 2.52
154 155 2.494073 ACGAGATCGCCTCTTCTTTCTT 59.506 45.455 1.39 0.00 44.43 2.52
155 156 3.056465 ACGAGATCGCCTCTTCTTTCTTT 60.056 43.478 1.39 0.00 44.43 2.52
156 157 3.549873 CGAGATCGCCTCTTCTTTCTTTC 59.450 47.826 0.00 0.00 39.78 2.62
157 158 4.676723 CGAGATCGCCTCTTCTTTCTTTCT 60.677 45.833 0.00 0.00 39.78 2.52
158 159 4.502962 AGATCGCCTCTTCTTTCTTTCTG 58.497 43.478 0.00 0.00 0.00 3.02
159 160 3.045601 TCGCCTCTTCTTTCTTTCTGG 57.954 47.619 0.00 0.00 0.00 3.86
160 161 2.079925 CGCCTCTTCTTTCTTTCTGGG 58.920 52.381 0.00 0.00 0.00 4.45
161 162 2.289694 CGCCTCTTCTTTCTTTCTGGGA 60.290 50.000 0.00 0.00 0.00 4.37
162 163 3.756117 GCCTCTTCTTTCTTTCTGGGAA 58.244 45.455 0.00 0.00 0.00 3.97
163 164 4.145052 GCCTCTTCTTTCTTTCTGGGAAA 58.855 43.478 0.00 0.00 0.00 3.13
164 165 4.217334 GCCTCTTCTTTCTTTCTGGGAAAG 59.783 45.833 12.24 12.24 46.28 2.62
195 196 5.844301 AAAAACTATGTAACGTGTACCCG 57.156 39.130 0.00 0.00 0.00 5.28
196 197 3.508744 AACTATGTAACGTGTACCCGG 57.491 47.619 2.11 0.00 0.00 5.73
197 198 2.446435 ACTATGTAACGTGTACCCGGT 58.554 47.619 0.00 0.00 0.00 5.28
198 199 2.423538 ACTATGTAACGTGTACCCGGTC 59.576 50.000 0.00 0.00 0.00 4.79
199 200 1.255882 ATGTAACGTGTACCCGGTCA 58.744 50.000 0.00 0.00 0.00 4.02
200 201 0.313672 TGTAACGTGTACCCGGTCAC 59.686 55.000 0.00 6.16 0.00 3.67
201 202 0.313672 GTAACGTGTACCCGGTCACA 59.686 55.000 17.41 10.83 34.66 3.58
202 203 1.035923 TAACGTGTACCCGGTCACAA 58.964 50.000 17.41 4.35 34.66 3.33
203 204 0.393820 AACGTGTACCCGGTCACAAT 59.606 50.000 17.41 4.41 34.66 2.71
204 205 0.393820 ACGTGTACCCGGTCACAATT 59.606 50.000 17.41 3.11 34.66 2.32
205 206 0.793861 CGTGTACCCGGTCACAATTG 59.206 55.000 17.41 3.24 34.66 2.32
206 207 1.874739 CGTGTACCCGGTCACAATTGT 60.875 52.381 4.92 4.92 34.66 2.71
207 208 1.802365 GTGTACCCGGTCACAATTGTC 59.198 52.381 8.48 0.00 35.04 3.18
208 209 1.416772 TGTACCCGGTCACAATTGTCA 59.583 47.619 8.48 0.00 0.00 3.58
209 210 2.039216 TGTACCCGGTCACAATTGTCAT 59.961 45.455 8.48 0.00 0.00 3.06
210 211 1.821216 ACCCGGTCACAATTGTCATC 58.179 50.000 8.48 0.00 0.00 2.92
211 212 1.351017 ACCCGGTCACAATTGTCATCT 59.649 47.619 8.48 0.00 0.00 2.90
212 213 2.224769 ACCCGGTCACAATTGTCATCTT 60.225 45.455 8.48 0.00 0.00 2.40
213 214 2.819608 CCCGGTCACAATTGTCATCTTT 59.180 45.455 8.48 0.00 0.00 2.52
214 215 3.255642 CCCGGTCACAATTGTCATCTTTT 59.744 43.478 8.48 0.00 0.00 2.27
215 216 4.261994 CCCGGTCACAATTGTCATCTTTTT 60.262 41.667 8.48 0.00 0.00 1.94
235 236 5.789643 TTTTTACCTGGACTAGTGTACGT 57.210 39.130 0.00 0.00 0.00 3.57
236 237 5.789643 TTTTACCTGGACTAGTGTACGTT 57.210 39.130 0.00 0.00 0.00 3.99
237 238 4.771590 TTACCTGGACTAGTGTACGTTG 57.228 45.455 0.00 0.00 0.00 4.10
238 239 2.590821 ACCTGGACTAGTGTACGTTGT 58.409 47.619 0.00 0.00 0.00 3.32
239 240 3.754965 ACCTGGACTAGTGTACGTTGTA 58.245 45.455 0.00 0.00 0.00 2.41
240 241 4.338879 ACCTGGACTAGTGTACGTTGTAT 58.661 43.478 0.00 0.00 0.00 2.29
241 242 4.768968 ACCTGGACTAGTGTACGTTGTATT 59.231 41.667 0.00 0.00 0.00 1.89
242 243 5.244626 ACCTGGACTAGTGTACGTTGTATTT 59.755 40.000 0.00 0.00 0.00 1.40
243 244 6.161381 CCTGGACTAGTGTACGTTGTATTTT 58.839 40.000 0.00 0.00 0.00 1.82
244 245 6.090358 CCTGGACTAGTGTACGTTGTATTTTG 59.910 42.308 0.00 0.00 0.00 2.44
245 246 6.514947 TGGACTAGTGTACGTTGTATTTTGT 58.485 36.000 0.00 0.00 0.00 2.83
246 247 6.985645 TGGACTAGTGTACGTTGTATTTTGTT 59.014 34.615 0.00 0.00 0.00 2.83
247 248 7.042590 TGGACTAGTGTACGTTGTATTTTGTTG 60.043 37.037 0.00 0.00 0.00 3.33
248 249 6.652245 ACTAGTGTACGTTGTATTTTGTTGC 58.348 36.000 0.00 0.00 0.00 4.17
249 250 5.487153 AGTGTACGTTGTATTTTGTTGCA 57.513 34.783 0.00 0.00 0.00 4.08
250 251 6.067263 AGTGTACGTTGTATTTTGTTGCAT 57.933 33.333 0.00 0.00 0.00 3.96
251 252 7.192148 AGTGTACGTTGTATTTTGTTGCATA 57.808 32.000 0.00 0.00 0.00 3.14
252 253 7.812648 AGTGTACGTTGTATTTTGTTGCATAT 58.187 30.769 0.00 0.00 0.00 1.78
253 254 8.937884 AGTGTACGTTGTATTTTGTTGCATATA 58.062 29.630 0.00 0.00 0.00 0.86
254 255 8.991810 GTGTACGTTGTATTTTGTTGCATATAC 58.008 33.333 0.00 0.00 0.00 1.47
255 256 8.718734 TGTACGTTGTATTTTGTTGCATATACA 58.281 29.630 0.00 0.00 33.09 2.29
256 257 9.710979 GTACGTTGTATTTTGTTGCATATACAT 57.289 29.630 0.00 0.00 34.49 2.29
258 259 9.632807 ACGTTGTATTTTGTTGCATATACATTT 57.367 25.926 0.00 0.00 34.49 2.32
267 268 9.625747 TTTGTTGCATATACATTTCTCCATAGA 57.374 29.630 0.00 0.00 0.00 1.98
268 269 8.837788 TGTTGCATATACATTTCTCCATAGAG 57.162 34.615 0.00 0.00 41.93 2.43
296 297 1.546476 GACCTGTCTCTTCACACCGAT 59.454 52.381 0.00 0.00 0.00 4.18
309 310 1.473677 ACACCGATCGATTCGTTACCA 59.526 47.619 18.66 0.00 46.65 3.25
316 317 2.950433 TCGATTCGTTACCACAGGAAC 58.050 47.619 5.89 0.00 0.00 3.62
320 321 3.947910 TTCGTTACCACAGGAACCTAG 57.052 47.619 0.00 0.00 0.00 3.02
422 484 0.443869 CTGTCCCGAAAGCAACATCG 59.556 55.000 0.00 0.00 38.74 3.84
444 506 0.752054 CCACCACCAGCAATGTTGTT 59.248 50.000 0.00 0.00 0.00 2.83
460 522 7.561556 CAATGTTGTTTTGCATCTTCTTCTTC 58.438 34.615 0.00 0.00 0.00 2.87
461 523 6.455360 TGTTGTTTTGCATCTTCTTCTTCT 57.545 33.333 0.00 0.00 0.00 2.85
463 525 6.974622 TGTTGTTTTGCATCTTCTTCTTCTTC 59.025 34.615 0.00 0.00 0.00 2.87
464 526 6.949352 TGTTTTGCATCTTCTTCTTCTTCT 57.051 33.333 0.00 0.00 0.00 2.85
465 527 7.338800 TGTTTTGCATCTTCTTCTTCTTCTT 57.661 32.000 0.00 0.00 0.00 2.52
466 528 7.775120 TGTTTTGCATCTTCTTCTTCTTCTTT 58.225 30.769 0.00 0.00 0.00 2.52
467 529 8.902806 TGTTTTGCATCTTCTTCTTCTTCTTTA 58.097 29.630 0.00 0.00 0.00 1.85
471 533 7.968246 TGCATCTTCTTCTTCTTCTTTATTCG 58.032 34.615 0.00 0.00 0.00 3.34
472 534 7.065085 TGCATCTTCTTCTTCTTCTTTATTCGG 59.935 37.037 0.00 0.00 0.00 4.30
473 535 6.969828 TCTTCTTCTTCTTCTTTATTCGGC 57.030 37.500 0.00 0.00 0.00 5.54
477 539 8.842358 TTCTTCTTCTTCTTTATTCGGCTTTA 57.158 30.769 0.00 0.00 0.00 1.85
523 587 4.701956 TTTGCTTCCGAATCATTTCTCC 57.298 40.909 0.00 0.00 0.00 3.71
554 618 0.110056 CACGACAAGATTGCCTGCAC 60.110 55.000 0.00 0.00 0.00 4.57
587 656 4.329545 GTGGCTTCGGTGCTCCCA 62.330 66.667 0.00 0.00 0.00 4.37
642 727 0.320374 CTCGGGCTTTGTACTGGTCA 59.680 55.000 0.00 0.00 0.00 4.02
661 746 0.888736 ATGGTTGTGCTGCTTACGCA 60.889 50.000 0.00 0.00 45.60 5.24
686 774 2.000447 CGATCAAACTTCCGTCCTTCC 59.000 52.381 0.00 0.00 0.00 3.46
690 778 1.071699 CAAACTTCCGTCCTTCCTGGA 59.928 52.381 0.00 0.00 43.86 3.86
705 793 2.166459 TCCTGGATCGAAGCACACTAAG 59.834 50.000 0.00 0.00 0.00 2.18
706 794 2.166459 CCTGGATCGAAGCACACTAAGA 59.834 50.000 0.00 0.00 0.00 2.10
708 796 3.585862 TGGATCGAAGCACACTAAGAAC 58.414 45.455 0.00 0.00 0.00 3.01
709 797 3.258372 TGGATCGAAGCACACTAAGAACT 59.742 43.478 0.00 0.00 0.00 3.01
711 799 5.038033 GGATCGAAGCACACTAAGAACTAG 58.962 45.833 0.00 0.00 0.00 2.57
712 800 5.163642 GGATCGAAGCACACTAAGAACTAGA 60.164 44.000 0.00 0.00 0.00 2.43
713 801 5.044428 TCGAAGCACACTAAGAACTAGAC 57.956 43.478 0.00 0.00 0.00 2.59
714 802 4.517832 TCGAAGCACACTAAGAACTAGACA 59.482 41.667 0.00 0.00 0.00 3.41
715 803 4.617645 CGAAGCACACTAAGAACTAGACAC 59.382 45.833 0.00 0.00 0.00 3.67
716 804 4.162096 AGCACACTAAGAACTAGACACG 57.838 45.455 0.00 0.00 0.00 4.49
717 805 3.568853 AGCACACTAAGAACTAGACACGT 59.431 43.478 0.00 0.00 0.00 4.49
718 806 4.037684 AGCACACTAAGAACTAGACACGTT 59.962 41.667 0.00 0.00 0.00 3.99
719 807 4.382160 GCACACTAAGAACTAGACACGTTC 59.618 45.833 0.00 0.00 40.72 3.95
728 816 2.970640 ACTAGACACGTTCTTTTCCCCT 59.029 45.455 0.00 0.00 35.55 4.79
729 817 3.390311 ACTAGACACGTTCTTTTCCCCTT 59.610 43.478 0.00 0.00 35.55 3.95
738 826 4.213482 CGTTCTTTTCCCCTTGAGTAACAG 59.787 45.833 0.00 0.00 0.00 3.16
774 862 3.649986 GCTCGGCGCCGCAAATAT 61.650 61.111 42.78 0.00 39.59 1.28
775 863 3.022287 CTCGGCGCCGCAAATATT 58.978 55.556 42.78 0.00 39.59 1.28
776 864 1.837538 GCTCGGCGCCGCAAATATTA 61.838 55.000 42.78 22.74 39.59 0.98
777 865 0.110823 CTCGGCGCCGCAAATATTAC 60.111 55.000 42.78 2.40 39.59 1.89
778 866 0.810426 TCGGCGCCGCAAATATTACA 60.810 50.000 42.78 19.99 39.59 2.41
798 887 1.169577 AGTACACTGTCCAGCTCGAG 58.830 55.000 8.45 8.45 0.00 4.04
884 979 1.800805 ACAAACACATCGAGAGCCAG 58.199 50.000 0.00 0.00 0.00 4.85
1142 1298 3.127533 GCCGCTAACCACTGCAGG 61.128 66.667 19.93 4.24 0.00 4.85
1143 1299 2.347490 CCGCTAACCACTGCAGGT 59.653 61.111 19.93 5.02 45.91 4.00
1144 1300 1.741770 CCGCTAACCACTGCAGGTC 60.742 63.158 19.93 0.00 42.25 3.85
1145 1301 1.741770 CGCTAACCACTGCAGGTCC 60.742 63.158 19.93 0.00 42.25 4.46
1146 1302 1.377333 GCTAACCACTGCAGGTCCC 60.377 63.158 19.93 0.00 42.25 4.46
1149 1347 0.178903 TAACCACTGCAGGTCCCTCT 60.179 55.000 19.93 0.00 42.25 3.69
1267 1489 2.557924 TGTTCTTGACCCATTCATGTGC 59.442 45.455 0.00 0.00 32.84 4.57
1292 1581 4.856801 GCATCCCGGCATCCGTGT 62.857 66.667 0.00 0.00 46.80 4.49
1296 1585 2.319890 ATCCCGGCATCCGTGTAACC 62.320 60.000 0.00 0.00 46.80 2.85
1298 1587 2.125832 CGGCATCCGTGTAACCGT 60.126 61.111 0.00 0.00 42.73 4.83
1300 1589 2.746803 GGCATCCGTGTAACCGTGC 61.747 63.158 0.00 0.00 0.00 5.34
1301 1590 1.740296 GCATCCGTGTAACCGTGCT 60.740 57.895 0.00 0.00 0.00 4.40
1311 1600 5.435557 CGTGTAACCGTGCTAGTAGTATAC 58.564 45.833 0.00 0.00 43.47 1.47
1372 1661 1.227002 GATGAGGAAGCGGTCGTCC 60.227 63.158 9.66 0.00 39.89 4.79
1463 1752 2.441750 AGCTCTATCGAGAAGGTCTCCT 59.558 50.000 0.00 0.00 40.34 3.69
1728 2067 2.261671 GAGCAGAAACCTCGCCGA 59.738 61.111 0.00 0.00 0.00 5.54
1729 2068 1.374252 GAGCAGAAACCTCGCCGAA 60.374 57.895 0.00 0.00 0.00 4.30
1786 2139 3.598019 ACCAGTTAAGTTAATCGGCGA 57.402 42.857 13.87 13.87 0.00 5.54
1898 2265 5.983118 AGAAACAAATAAAAGGGCGTGAAAG 59.017 36.000 0.00 0.00 0.00 2.62
1904 2271 1.605753 AAAGGGCGTGAAAGGAACTC 58.394 50.000 0.00 0.00 38.49 3.01
2133 2507 1.448540 GAGCACGGTGATCCAGGTG 60.449 63.158 15.18 0.00 0.00 4.00
2630 3025 0.332972 GGCTCATCCCCTTTGTCCTT 59.667 55.000 0.00 0.00 0.00 3.36
2682 3089 0.957888 GAGTGGAAAGTGCTGGGAGC 60.958 60.000 0.00 0.00 42.82 4.70
2811 3265 2.030562 CGTTTGGCCTGTCGGACT 59.969 61.111 3.32 0.00 39.94 3.85
2812 3266 1.290955 CGTTTGGCCTGTCGGACTA 59.709 57.895 3.32 0.00 39.94 2.59
2813 3267 0.108329 CGTTTGGCCTGTCGGACTAT 60.108 55.000 3.32 0.00 39.94 2.12
2814 3268 1.135527 CGTTTGGCCTGTCGGACTATA 59.864 52.381 3.32 0.00 39.94 1.31
2815 3269 2.223971 CGTTTGGCCTGTCGGACTATAT 60.224 50.000 3.32 0.00 39.94 0.86
2816 3270 3.391049 GTTTGGCCTGTCGGACTATATC 58.609 50.000 3.32 0.00 39.94 1.63
2817 3271 2.677542 TGGCCTGTCGGACTATATCT 57.322 50.000 3.32 0.00 39.94 1.98
2818 3272 2.239400 TGGCCTGTCGGACTATATCTG 58.761 52.381 3.32 0.00 39.94 2.90
2819 3273 1.546476 GGCCTGTCGGACTATATCTGG 59.454 57.143 9.88 0.00 34.48 3.86
2820 3274 1.067495 GCCTGTCGGACTATATCTGGC 60.067 57.143 9.88 3.20 38.96 4.85
2821 3275 1.546476 CCTGTCGGACTATATCTGGCC 59.454 57.143 9.88 0.00 37.53 5.36
2822 3276 2.239400 CTGTCGGACTATATCTGGCCA 58.761 52.381 4.71 4.71 37.53 5.36
2823 3277 2.828520 CTGTCGGACTATATCTGGCCAT 59.171 50.000 5.51 0.00 37.53 4.40
2824 3278 2.826128 TGTCGGACTATATCTGGCCATC 59.174 50.000 5.51 0.00 37.53 3.51
2825 3279 3.093057 GTCGGACTATATCTGGCCATCT 58.907 50.000 5.51 0.00 31.42 2.90
2826 3280 4.263771 TGTCGGACTATATCTGGCCATCTA 60.264 45.833 5.51 0.49 37.53 1.98
2827 3281 4.096682 GTCGGACTATATCTGGCCATCTAC 59.903 50.000 5.51 0.00 31.42 2.59
2828 3282 4.017126 CGGACTATATCTGGCCATCTACA 58.983 47.826 5.51 0.00 0.00 2.74
2829 3283 4.097135 CGGACTATATCTGGCCATCTACAG 59.903 50.000 5.51 1.81 36.07 2.74
2830 3284 4.142049 GGACTATATCTGGCCATCTACAGC 60.142 50.000 5.51 0.00 34.76 4.40
2835 3289 4.937431 GGCCATCTACAGCCCGGC 62.937 72.222 0.00 0.00 43.76 6.13
2836 3290 4.937431 GCCATCTACAGCCCGGCC 62.937 72.222 5.55 0.00 36.73 6.13
2837 3291 4.256180 CCATCTACAGCCCGGCCC 62.256 72.222 5.55 0.00 0.00 5.80
2838 3292 4.609018 CATCTACAGCCCGGCCCG 62.609 72.222 5.55 0.00 0.00 6.13
2839 3293 4.853142 ATCTACAGCCCGGCCCGA 62.853 66.667 3.71 0.00 0.00 5.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 2.508526 GTGGATCTTTGCACAGAAGGT 58.491 47.619 6.66 0.00 43.17 3.50
12 13 1.154413 CGCGTGTGGATCTTTGCAC 60.154 57.895 0.00 0.00 43.88 4.57
13 14 1.596752 ACGCGTGTGGATCTTTGCA 60.597 52.632 12.93 0.00 0.00 4.08
14 15 1.154413 CACGCGTGTGGATCTTTGC 60.154 57.895 30.50 0.00 42.59 3.68
44 45 2.681064 TCGTTACCGGTGAGGGGG 60.681 66.667 19.93 0.13 46.96 5.40
45 46 2.575461 GTCGTTACCGGTGAGGGG 59.425 66.667 19.93 1.09 46.96 4.79
46 47 2.575461 GGTCGTTACCGGTGAGGG 59.425 66.667 19.93 3.96 46.96 4.30
62 63 4.796231 CTCCGCCAACGACCTCGG 62.796 72.222 0.00 0.00 43.93 4.63
63 64 4.796231 CCTCCGCCAACGACCTCG 62.796 72.222 0.00 0.00 43.93 4.63
64 65 4.452733 CCCTCCGCCAACGACCTC 62.453 72.222 0.00 0.00 43.93 3.85
66 67 4.452733 CTCCCTCCGCCAACGACC 62.453 72.222 0.00 0.00 43.93 4.79
77 78 4.779733 TCCTCCGGTGGCTCCCTC 62.780 72.222 18.03 0.00 0.00 4.30
80 81 3.319198 TTGTCCTCCGGTGGCTCC 61.319 66.667 18.03 8.49 0.00 4.70
81 82 2.047179 GTTGTCCTCCGGTGGCTC 60.047 66.667 18.03 13.07 0.00 4.70
82 83 4.003788 CGTTGTCCTCCGGTGGCT 62.004 66.667 18.03 0.00 0.00 4.75
88 89 4.367023 TTCCGCCGTTGTCCTCCG 62.367 66.667 0.00 0.00 0.00 4.63
89 90 1.880819 TACTTCCGCCGTTGTCCTCC 61.881 60.000 0.00 0.00 0.00 4.30
90 91 0.458025 CTACTTCCGCCGTTGTCCTC 60.458 60.000 0.00 0.00 0.00 3.71
91 92 0.896940 TCTACTTCCGCCGTTGTCCT 60.897 55.000 0.00 0.00 0.00 3.85
92 93 0.735287 GTCTACTTCCGCCGTTGTCC 60.735 60.000 0.00 0.00 0.00 4.02
93 94 1.069378 CGTCTACTTCCGCCGTTGTC 61.069 60.000 0.00 0.00 0.00 3.18
94 95 1.080974 CGTCTACTTCCGCCGTTGT 60.081 57.895 0.00 0.00 0.00 3.32
95 96 2.442188 GCGTCTACTTCCGCCGTTG 61.442 63.158 0.00 0.00 43.96 4.10
96 97 2.126189 GCGTCTACTTCCGCCGTT 60.126 61.111 0.00 0.00 43.96 4.44
101 102 4.203076 CCGGGGCGTCTACTTCCG 62.203 72.222 0.00 0.00 40.32 4.30
102 103 2.757099 TCCGGGGCGTCTACTTCC 60.757 66.667 0.00 0.00 0.00 3.46
103 104 2.783288 CCTCCGGGGCGTCTACTTC 61.783 68.421 0.00 0.00 0.00 3.01
104 105 2.758737 CCTCCGGGGCGTCTACTT 60.759 66.667 0.00 0.00 0.00 2.24
122 123 4.538283 ATCTCGTCGCCGTCGCAG 62.538 66.667 0.00 0.00 35.26 5.18
123 124 4.531912 GATCTCGTCGCCGTCGCA 62.532 66.667 0.00 0.00 35.26 5.10
132 133 2.098443 AGAAAGAAGAGGCGATCTCGTC 59.902 50.000 11.85 11.85 46.68 4.20
133 134 2.096248 AGAAAGAAGAGGCGATCTCGT 58.904 47.619 1.14 0.00 46.82 4.18
134 135 2.861462 AGAAAGAAGAGGCGATCTCG 57.139 50.000 0.00 0.00 46.82 4.04
135 136 4.566360 CAGAAAGAAAGAAGAGGCGATCTC 59.434 45.833 0.00 0.00 37.23 2.75
136 137 4.502962 CAGAAAGAAAGAAGAGGCGATCT 58.497 43.478 0.00 0.00 41.27 2.75
137 138 3.620821 CCAGAAAGAAAGAAGAGGCGATC 59.379 47.826 0.00 0.00 0.00 3.69
138 139 3.604582 CCAGAAAGAAAGAAGAGGCGAT 58.395 45.455 0.00 0.00 0.00 4.58
139 140 2.289694 CCCAGAAAGAAAGAAGAGGCGA 60.290 50.000 0.00 0.00 0.00 5.54
140 141 2.079925 CCCAGAAAGAAAGAAGAGGCG 58.920 52.381 0.00 0.00 0.00 5.52
141 142 3.425162 TCCCAGAAAGAAAGAAGAGGC 57.575 47.619 0.00 0.00 0.00 4.70
173 174 4.690280 CCGGGTACACGTTACATAGTTTTT 59.310 41.667 17.68 0.00 0.00 1.94
174 175 4.244862 CCGGGTACACGTTACATAGTTTT 58.755 43.478 17.68 0.00 0.00 2.43
175 176 3.258123 ACCGGGTACACGTTACATAGTTT 59.742 43.478 17.68 0.00 0.00 2.66
176 177 2.825532 ACCGGGTACACGTTACATAGTT 59.174 45.455 17.68 0.00 0.00 2.24
177 178 2.423538 GACCGGGTACACGTTACATAGT 59.576 50.000 17.68 4.79 0.00 2.12
178 179 2.423185 TGACCGGGTACACGTTACATAG 59.577 50.000 17.68 1.09 0.00 2.23
179 180 2.163412 GTGACCGGGTACACGTTACATA 59.837 50.000 17.68 0.00 0.00 2.29
180 181 1.067635 GTGACCGGGTACACGTTACAT 60.068 52.381 17.68 0.00 0.00 2.29
181 182 0.313672 GTGACCGGGTACACGTTACA 59.686 55.000 17.68 10.34 0.00 2.41
182 183 0.313672 TGTGACCGGGTACACGTTAC 59.686 55.000 17.68 12.33 39.52 2.50
183 184 1.035923 TTGTGACCGGGTACACGTTA 58.964 50.000 17.68 0.00 39.52 3.18
184 185 0.393820 ATTGTGACCGGGTACACGTT 59.606 50.000 17.68 0.33 39.52 3.99
185 186 0.393820 AATTGTGACCGGGTACACGT 59.606 50.000 17.68 4.41 39.52 4.49
186 187 0.793861 CAATTGTGACCGGGTACACG 59.206 55.000 11.48 11.48 39.52 4.49
187 188 1.802365 GACAATTGTGACCGGGTACAC 59.198 52.381 17.58 13.73 37.51 2.90
188 189 1.416772 TGACAATTGTGACCGGGTACA 59.583 47.619 17.58 7.79 0.00 2.90
189 190 2.172851 TGACAATTGTGACCGGGTAC 57.827 50.000 17.58 4.69 0.00 3.34
190 191 2.569853 AGATGACAATTGTGACCGGGTA 59.430 45.455 17.58 0.00 0.00 3.69
191 192 1.351017 AGATGACAATTGTGACCGGGT 59.649 47.619 17.58 0.00 0.00 5.28
192 193 2.113860 AGATGACAATTGTGACCGGG 57.886 50.000 17.58 0.00 0.00 5.73
193 194 4.503741 AAAAGATGACAATTGTGACCGG 57.496 40.909 17.58 0.00 0.00 5.28
213 214 5.789643 ACGTACACTAGTCCAGGTAAAAA 57.210 39.130 0.00 0.00 0.00 1.94
214 215 5.068987 ACAACGTACACTAGTCCAGGTAAAA 59.931 40.000 0.00 0.00 0.00 1.52
215 216 4.584325 ACAACGTACACTAGTCCAGGTAAA 59.416 41.667 0.00 0.00 0.00 2.01
216 217 4.144297 ACAACGTACACTAGTCCAGGTAA 58.856 43.478 0.00 0.00 0.00 2.85
217 218 3.754965 ACAACGTACACTAGTCCAGGTA 58.245 45.455 0.00 0.00 0.00 3.08
218 219 2.590821 ACAACGTACACTAGTCCAGGT 58.409 47.619 0.00 0.00 0.00 4.00
219 220 4.978083 ATACAACGTACACTAGTCCAGG 57.022 45.455 0.00 0.00 0.00 4.45
220 221 6.643770 ACAAAATACAACGTACACTAGTCCAG 59.356 38.462 0.00 0.00 0.00 3.86
221 222 6.514947 ACAAAATACAACGTACACTAGTCCA 58.485 36.000 0.00 0.00 0.00 4.02
222 223 7.285788 CAACAAAATACAACGTACACTAGTCC 58.714 38.462 0.00 0.00 0.00 3.85
223 224 6.788930 GCAACAAAATACAACGTACACTAGTC 59.211 38.462 0.00 0.00 0.00 2.59
224 225 6.258287 TGCAACAAAATACAACGTACACTAGT 59.742 34.615 0.00 0.00 0.00 2.57
225 226 6.651308 TGCAACAAAATACAACGTACACTAG 58.349 36.000 0.00 0.00 0.00 2.57
226 227 6.600246 TGCAACAAAATACAACGTACACTA 57.400 33.333 0.00 0.00 0.00 2.74
227 228 5.487153 TGCAACAAAATACAACGTACACT 57.513 34.783 0.00 0.00 0.00 3.55
228 229 8.991810 GTATATGCAACAAAATACAACGTACAC 58.008 33.333 0.00 0.00 0.00 2.90
229 230 8.718734 TGTATATGCAACAAAATACAACGTACA 58.281 29.630 0.00 0.00 33.17 2.90
230 231 9.710979 ATGTATATGCAACAAAATACAACGTAC 57.289 29.630 0.00 0.00 38.08 3.67
232 233 9.632807 AAATGTATATGCAACAAAATACAACGT 57.367 25.926 0.00 0.00 38.08 3.99
241 242 9.625747 TCTATGGAGAAATGTATATGCAACAAA 57.374 29.630 0.00 0.00 0.00 2.83
242 243 9.276590 CTCTATGGAGAAATGTATATGCAACAA 57.723 33.333 0.00 0.00 41.86 2.83
243 244 8.650490 TCTCTATGGAGAAATGTATATGCAACA 58.350 33.333 6.28 0.00 44.62 3.33
258 259 2.566913 GTCGAGCTGTCTCTATGGAGA 58.433 52.381 4.39 4.39 45.30 3.71
259 260 1.606668 GGTCGAGCTGTCTCTATGGAG 59.393 57.143 7.51 0.00 40.73 3.86
260 261 1.213182 AGGTCGAGCTGTCTCTATGGA 59.787 52.381 17.85 0.00 37.19 3.41
261 262 1.336440 CAGGTCGAGCTGTCTCTATGG 59.664 57.143 31.45 7.38 37.19 2.74
262 263 2.020720 ACAGGTCGAGCTGTCTCTATG 58.979 52.381 37.43 17.71 37.19 2.23
263 264 2.294074 GACAGGTCGAGCTGTCTCTAT 58.706 52.381 46.37 28.93 44.55 1.98
264 265 1.740297 GACAGGTCGAGCTGTCTCTA 58.260 55.000 46.37 0.00 44.55 2.43
265 266 2.562125 GACAGGTCGAGCTGTCTCT 58.438 57.895 46.37 29.85 44.55 3.10
296 297 2.353011 GGTTCCTGTGGTAACGAATCGA 60.353 50.000 10.55 0.00 42.51 3.59
309 310 1.628846 ACGAAATGCCTAGGTTCCTGT 59.371 47.619 11.31 0.00 0.00 4.00
316 317 2.739913 TCGTGAAAACGAAATGCCTAGG 59.260 45.455 3.67 3.67 39.34 3.02
320 321 1.681825 GGTCGTGAAAACGAAATGCC 58.318 50.000 2.07 0.00 44.12 4.40
362 363 2.125269 AAGGTACACGCCGATGCC 60.125 61.111 0.00 0.00 0.00 4.40
422 484 1.039856 AACATTGCTGGTGGTGGTTC 58.960 50.000 0.00 0.00 0.00 3.62
460 522 8.159344 AGGATCAATAAAGCCGAATAAAGAAG 57.841 34.615 0.00 0.00 0.00 2.85
461 523 8.519799 AAGGATCAATAAAGCCGAATAAAGAA 57.480 30.769 0.00 0.00 0.00 2.52
463 525 7.363431 GGAAGGATCAATAAAGCCGAATAAAG 58.637 38.462 0.00 0.00 0.00 1.85
464 526 6.017440 CGGAAGGATCAATAAAGCCGAATAAA 60.017 38.462 0.00 0.00 39.85 1.40
465 527 5.468746 CGGAAGGATCAATAAAGCCGAATAA 59.531 40.000 0.00 0.00 39.85 1.40
466 528 4.994852 CGGAAGGATCAATAAAGCCGAATA 59.005 41.667 0.00 0.00 39.85 1.75
467 529 3.815401 CGGAAGGATCAATAAAGCCGAAT 59.185 43.478 0.00 0.00 39.85 3.34
470 532 2.833794 TCGGAAGGATCAATAAAGCCG 58.166 47.619 0.00 0.00 38.89 5.52
471 533 4.451900 TCTTCGGAAGGATCAATAAAGCC 58.548 43.478 17.19 0.00 0.00 4.35
472 534 5.360591 TCTCTTCGGAAGGATCAATAAAGC 58.639 41.667 17.19 0.00 0.00 3.51
473 535 5.465056 GCTCTCTTCGGAAGGATCAATAAAG 59.535 44.000 17.19 4.71 0.00 1.85
477 539 2.768527 TGCTCTCTTCGGAAGGATCAAT 59.231 45.455 17.19 0.00 0.00 2.57
521 585 2.107366 TGTCGTGCAAGATCATAGGGA 58.893 47.619 5.42 0.00 0.00 4.20
554 618 0.297230 CCACAAACAACAAAAGCGCG 59.703 50.000 0.00 0.00 0.00 6.86
587 656 2.497675 AGATCGTGTTGACTACATGGCT 59.502 45.455 9.00 5.04 42.83 4.75
686 774 3.510388 TCTTAGTGTGCTTCGATCCAG 57.490 47.619 0.00 0.00 0.00 3.86
690 778 5.183331 TGTCTAGTTCTTAGTGTGCTTCGAT 59.817 40.000 0.00 0.00 0.00 3.59
705 793 3.744942 GGGGAAAAGAACGTGTCTAGTTC 59.255 47.826 0.00 1.26 45.97 3.01
706 794 3.390311 AGGGGAAAAGAACGTGTCTAGTT 59.610 43.478 0.00 0.00 34.56 2.24
708 796 3.679824 AGGGGAAAAGAACGTGTCTAG 57.320 47.619 0.00 0.00 34.56 2.43
709 797 3.388676 TCAAGGGGAAAAGAACGTGTCTA 59.611 43.478 0.00 0.00 34.56 2.59
711 799 2.548480 CTCAAGGGGAAAAGAACGTGTC 59.452 50.000 0.00 0.00 0.00 3.67
712 800 2.092592 ACTCAAGGGGAAAAGAACGTGT 60.093 45.455 0.00 0.00 0.00 4.49
713 801 2.572290 ACTCAAGGGGAAAAGAACGTG 58.428 47.619 0.00 0.00 0.00 4.49
714 802 4.132336 GTTACTCAAGGGGAAAAGAACGT 58.868 43.478 0.00 0.00 0.00 3.99
715 803 4.131596 TGTTACTCAAGGGGAAAAGAACG 58.868 43.478 0.00 0.00 0.00 3.95
716 804 4.519350 CCTGTTACTCAAGGGGAAAAGAAC 59.481 45.833 0.00 0.00 0.00 3.01
717 805 4.414182 TCCTGTTACTCAAGGGGAAAAGAA 59.586 41.667 0.00 0.00 0.00 2.52
718 806 3.977999 TCCTGTTACTCAAGGGGAAAAGA 59.022 43.478 0.00 0.00 0.00 2.52
719 807 4.072839 GTCCTGTTACTCAAGGGGAAAAG 58.927 47.826 0.00 0.00 0.00 2.27
728 816 2.496070 CCGATCCTGTCCTGTTACTCAA 59.504 50.000 0.00 0.00 0.00 3.02
729 817 2.100197 CCGATCCTGTCCTGTTACTCA 58.900 52.381 0.00 0.00 0.00 3.41
738 826 0.461961 CTCCACTTCCGATCCTGTCC 59.538 60.000 0.00 0.00 0.00 4.02
774 862 3.305131 CGAGCTGGACAGTGTACTTGTAA 60.305 47.826 7.11 0.00 0.00 2.41
775 863 2.228103 CGAGCTGGACAGTGTACTTGTA 59.772 50.000 7.11 0.00 0.00 2.41
776 864 1.000163 CGAGCTGGACAGTGTACTTGT 60.000 52.381 7.11 3.68 0.00 3.16
777 865 1.269723 TCGAGCTGGACAGTGTACTTG 59.730 52.381 7.11 0.89 0.00 3.16
778 866 1.542030 CTCGAGCTGGACAGTGTACTT 59.458 52.381 7.11 0.00 0.00 2.24
798 887 1.693083 CTACGTAACAGCCGCCTTGC 61.693 60.000 0.00 0.00 0.00 4.01
884 979 1.334149 GCAACTTGAACGGAACAGAGC 60.334 52.381 0.00 0.00 0.00 4.09
1070 1213 2.809601 ATTGCTCACGCGGTCGAC 60.810 61.111 12.47 7.13 39.65 4.20
1142 1298 3.151022 CCGAGGCAGGAGAGGGAC 61.151 72.222 0.00 0.00 0.00 4.46
1197 1395 4.244802 GAGCTCGTCCTCCTCGCG 62.245 72.222 0.00 0.00 0.00 5.87
1282 1507 2.746803 GCACGGTTACACGGATGCC 61.747 63.158 0.00 0.00 38.39 4.40
1284 1509 1.135199 ACTAGCACGGTTACACGGATG 60.135 52.381 0.00 0.00 38.39 3.51
1286 1511 1.739466 CTACTAGCACGGTTACACGGA 59.261 52.381 0.00 0.00 38.39 4.69
1289 1514 6.425504 CAGTATACTACTAGCACGGTTACAC 58.574 44.000 4.74 0.00 37.23 2.90
1292 1581 5.125356 TGCAGTATACTACTAGCACGGTTA 58.875 41.667 4.74 0.00 37.66 2.85
1296 1585 3.914966 GCATGCAGTATACTACTAGCACG 59.085 47.826 14.21 10.28 41.75 5.34
1298 1587 5.728637 ATGCATGCAGTATACTACTAGCA 57.271 39.130 26.69 18.75 42.48 3.49
1300 1589 6.810676 CCTGAATGCATGCAGTATACTACTAG 59.189 42.308 29.18 9.43 37.23 2.57
1301 1590 6.267699 ACCTGAATGCATGCAGTATACTACTA 59.732 38.462 29.18 0.00 37.23 1.82
1311 1600 3.003378 CAGTATCACCTGAATGCATGCAG 59.997 47.826 25.79 25.79 34.23 4.41
1312 1601 2.946990 CAGTATCACCTGAATGCATGCA 59.053 45.455 25.04 25.04 34.23 3.96
1313 1602 3.208594 TCAGTATCACCTGAATGCATGC 58.791 45.455 11.82 11.82 38.49 4.06
1339 1628 1.765314 CTCATCTCCCGGTTCCTCATT 59.235 52.381 0.00 0.00 0.00 2.57
1372 1661 2.740055 GAGTCCACGCTGCACCTG 60.740 66.667 0.00 0.00 0.00 4.00
1463 1752 2.024846 CCTCCTTCTCCTCCTCAGTACA 60.025 54.545 0.00 0.00 0.00 2.90
1496 1818 1.581954 CCTCGCTCTCGTTGTCACT 59.418 57.895 0.00 0.00 36.96 3.41
1573 1895 1.210931 GTCCATGTCCGTCGACGAA 59.789 57.895 37.65 18.28 42.37 3.85
1693 2023 2.257980 CGCTTGCGCCATTTCCAA 59.742 55.556 4.18 0.00 0.00 3.53
1717 2047 2.251642 GCTGTGTTCGGCGAGGTTT 61.252 57.895 10.46 0.00 36.18 3.27
1786 2139 6.039382 GGAAGTTCTTGTTTCTGTAATGGTGT 59.961 38.462 2.25 0.00 0.00 4.16
1846 2199 7.083858 TGTTGCTAATTTCATTTGTAGTCTGC 58.916 34.615 0.00 0.00 0.00 4.26
1898 2265 4.452455 TGATCTGAAAGCTTTTCGAGTTCC 59.548 41.667 14.05 0.00 0.00 3.62
1904 2271 2.475187 CGGCTGATCTGAAAGCTTTTCG 60.475 50.000 14.05 7.69 39.46 3.46
2313 2687 4.547905 GTCTACGCCGCGCTGCTA 62.548 66.667 21.59 11.56 0.00 3.49
2523 2909 2.168728 GCAACCAAGGTAAACCAAACCA 59.831 45.455 1.26 0.00 39.64 3.67
2524 2910 2.432874 AGCAACCAAGGTAAACCAAACC 59.567 45.455 1.26 0.00 38.89 3.27
2525 2911 3.812156 AGCAACCAAGGTAAACCAAAC 57.188 42.857 1.26 0.00 38.89 2.93
2526 2912 4.508662 CAAAGCAACCAAGGTAAACCAAA 58.491 39.130 1.26 0.00 38.89 3.28
2527 2913 3.680196 GCAAAGCAACCAAGGTAAACCAA 60.680 43.478 1.26 0.00 38.89 3.67
2682 3089 2.679092 TGGCCTGAATCAGCCCAG 59.321 61.111 9.08 0.00 33.90 4.45
2818 3272 4.937431 GCCGGGCTGTAGATGGCC 62.937 72.222 12.87 0.00 46.89 5.36
2819 3273 4.937431 GGCCGGGCTGTAGATGGC 62.937 72.222 22.87 0.00 44.98 4.40
2820 3274 4.256180 GGGCCGGGCTGTAGATGG 62.256 72.222 28.80 0.00 0.00 3.51
2821 3275 4.609018 CGGGCCGGGCTGTAGATG 62.609 72.222 28.10 5.77 0.00 2.90
2822 3276 4.853142 TCGGGCCGGGCTGTAGAT 62.853 66.667 33.53 0.00 0.00 1.98


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

AutoCloner maintained by Alex Coulton.