Multiple sequence alignment - TraesCS5A01G142500

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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 TraesCS5A01G142500 chr5A 100.000 2717 0 0 1 2717 316084021 316086737 0.000000e+00 5018.0
1 TraesCS5A01G142500 chr5A 100.000 109 0 0 2982 3090 316087002 316087110 5.220000e-48 202.0
2 TraesCS5A01G142500 chr5B 93.457 2323 63 34 434 2717 266500839 266503111 0.000000e+00 3365.0
3 TraesCS5A01G142500 chr5B 88.235 102 12 0 1378 1479 402751171 402751070 4.180000e-24 122.0
4 TraesCS5A01G142500 chr5B 83.471 121 8 2 2982 3090 266503174 266503294 5.450000e-18 102.0
5 TraesCS5A01G142500 chr5B 86.364 88 12 0 1375 1462 704916510 704916597 2.540000e-16 97.1
6 TraesCS5A01G142500 chr5B 91.935 62 5 0 1 62 266500149 266500210 1.530000e-13 87.9
7 TraesCS5A01G142500 chr5D 93.646 2282 64 25 479 2717 238558331 238556088 0.000000e+00 3336.0
8 TraesCS5A01G142500 chr5D 89.216 102 11 0 1378 1479 342712642 342712541 8.990000e-26 128.0
9 TraesCS5A01G142500 chr5D 85.227 88 13 0 1375 1462 557777884 557777971 1.180000e-14 91.6
10 TraesCS5A01G142500 chr5D 100.000 32 0 0 65 96 238558387 238558356 3.330000e-05 60.2
11 TraesCS5A01G142500 chr6B 98.125 320 6 0 97 416 706168919 706169238 2.690000e-155 558.0
12 TraesCS5A01G142500 chr1A 98.408 314 5 0 103 416 551460478 551460165 1.250000e-153 553.0
13 TraesCS5A01G142500 chr1A 96.774 31 1 0 429 459 66303641 66303611 6.000000e-03 52.8
14 TraesCS5A01G142500 chr7B 97.806 319 7 0 98 416 745587697 745588015 4.500000e-153 551.0
15 TraesCS5A01G142500 chr3B 97.523 323 7 1 94 416 803057002 803057323 4.500000e-153 551.0
16 TraesCS5A01G142500 chr3B 97.188 320 8 1 98 416 11226415 11226734 9.750000e-150 540.0
17 TraesCS5A01G142500 chr4A 97.806 319 6 1 98 416 140362569 140362886 1.620000e-152 549.0
18 TraesCS5A01G142500 chr4A 83.495 515 62 16 1001 1505 468603250 468603751 2.810000e-125 459.0
19 TraesCS5A01G142500 chr4A 82.418 273 39 7 1001 1267 724782636 724782905 2.400000e-56 230.0
20 TraesCS5A01G142500 chr4B 97.785 316 7 0 101 416 458320518 458320833 2.100000e-151 545.0
21 TraesCS5A01G142500 chr4B 97.468 316 8 0 101 416 626742607 626742922 9.750000e-150 540.0
22 TraesCS5A01G142500 chr4B 84.118 510 57 15 1001 1505 168984879 168985369 3.610000e-129 472.0
23 TraesCS5A01G142500 chr2B 97.785 316 6 1 101 416 566395041 566394727 7.540000e-151 544.0
24 TraesCS5A01G142500 chr4D 83.810 525 65 13 1001 1517 107710734 107710222 5.990000e-132 481.0
25 TraesCS5A01G142500 chr4D 81.522 276 43 6 1001 1270 506607107 506606834 1.440000e-53 220.0
26 TraesCS5A01G142500 chr7A 82.051 273 40 7 1001 1267 12429646 12429377 1.120000e-54 224.0
27 TraesCS5A01G142500 chr7D 81.655 278 39 10 1001 1270 13029511 13029238 1.440000e-53 220.0


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 TraesCS5A01G142500 chr5A 316084021 316087110 3089 False 2610.000000 5018 100.000 1 3090 2 chr5A.!!$F1 3089
1 TraesCS5A01G142500 chr5B 266500149 266503294 3145 False 1184.966667 3365 89.621 1 3090 3 chr5B.!!$F2 3089
2 TraesCS5A01G142500 chr5D 238556088 238558387 2299 True 1698.100000 3336 96.823 65 2717 2 chr5D.!!$R2 2652
3 TraesCS5A01G142500 chr4A 468603250 468603751 501 False 459.000000 459 83.495 1001 1505 1 chr4A.!!$F2 504
4 TraesCS5A01G142500 chr4D 107710222 107710734 512 True 481.000000 481 83.810 1001 1517 1 chr4D.!!$R1 516

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
873 1342 0.103937 GAGCTCACTCCCCTTCATCG 59.896 60.0 9.4 0.0 36.90 3.84 F
960 1439 0.880278 TGCAGGCACGAGTGAGAAAC 60.880 55.0 7.5 0.0 0.00 2.78 F
1414 1963 0.888619 CGTCTTACCTGCCACAGAGA 59.111 55.0 0.0 0.0 32.44 3.10 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1967 2534 0.180642 AGTGGCAGCTGATGATGGAG 59.819 55.0 20.43 0.0 0.00 3.86 R
1979 2546 0.388520 TCGATCGAACACAGTGGCAG 60.389 55.0 16.99 0.0 0.00 4.85 R
2570 3142 0.535335 CACCGGGTAAGCTAAGCTGA 59.465 55.0 6.32 0.0 39.62 4.26 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
30 31 8.533569 TGTGACCACACTCAAGAATATATCTA 57.466 34.615 0.00 0.00 46.07 1.98
35 36 9.656323 ACCACACTCAAGAATATATCTACCTTA 57.344 33.333 0.00 0.00 37.42 2.69
62 63 5.472137 TGAAGGCAAACTGGTTGTTAGATAC 59.528 40.000 7.35 0.00 39.63 2.24
63 64 4.980573 AGGCAAACTGGTTGTTAGATACA 58.019 39.130 7.35 0.00 39.63 2.29
96 115 8.519799 TGGTCAGAACTTCAGTAAAAATCTTT 57.480 30.769 0.00 0.00 0.00 2.52
117 515 6.981762 TTTTTAACGAAAAAGGGTTTTCCC 57.018 33.333 6.40 0.00 46.69 3.97
119 517 5.628666 TTTTAACGAAAAAGGGTTTTCCCCC 60.629 40.000 6.40 0.00 46.69 5.40
120 518 8.790127 TTTTAACGAAAAAGGGTTTTCCCCCG 62.790 42.308 6.40 0.00 46.69 5.73
131 529 1.842052 TTTCCCCCGCTTTGTATTCC 58.158 50.000 0.00 0.00 0.00 3.01
144 579 4.329462 TTGTATTCCAAAGCAACCAACC 57.671 40.909 0.00 0.00 0.00 3.77
145 580 2.294791 TGTATTCCAAAGCAACCAACCG 59.705 45.455 0.00 0.00 0.00 4.44
149 584 0.248866 CCAAAGCAACCAACCGACAC 60.249 55.000 0.00 0.00 0.00 3.67
151 586 1.066908 CAAAGCAACCAACCGACACAT 59.933 47.619 0.00 0.00 0.00 3.21
153 588 0.889186 AGCAACCAACCGACACATCC 60.889 55.000 0.00 0.00 0.00 3.51
155 590 1.313772 CAACCAACCGACACATCCAA 58.686 50.000 0.00 0.00 0.00 3.53
156 591 1.266718 CAACCAACCGACACATCCAAG 59.733 52.381 0.00 0.00 0.00 3.61
161 596 3.198068 CAACCGACACATCCAAGGATAG 58.802 50.000 0.40 0.56 32.93 2.08
163 598 1.762957 CCGACACATCCAAGGATAGGT 59.237 52.381 0.40 3.10 32.93 3.08
165 600 2.565841 GACACATCCAAGGATAGGTGC 58.434 52.381 15.59 8.09 34.11 5.01
169 604 1.143813 ATCCAAGGATAGGTGCTGGG 58.856 55.000 0.00 0.00 38.21 4.45
170 605 0.988145 TCCAAGGATAGGTGCTGGGG 60.988 60.000 0.00 0.00 37.48 4.96
171 606 1.152881 CAAGGATAGGTGCTGGGGC 60.153 63.158 0.00 0.00 39.26 5.80
172 607 2.746375 AAGGATAGGTGCTGGGGCG 61.746 63.158 0.00 0.00 42.25 6.13
173 608 4.256180 GGATAGGTGCTGGGGCGG 62.256 72.222 0.00 0.00 42.25 6.13
174 609 3.161450 GATAGGTGCTGGGGCGGA 61.161 66.667 0.00 0.00 42.25 5.54
175 610 2.690881 ATAGGTGCTGGGGCGGAA 60.691 61.111 0.00 0.00 42.25 4.30
176 611 2.666596 GATAGGTGCTGGGGCGGAAG 62.667 65.000 0.00 0.00 42.25 3.46
188 623 3.730761 CGGAAGCAGCACAGGCAC 61.731 66.667 0.00 0.00 44.61 5.01
189 624 2.595463 GGAAGCAGCACAGGCACA 60.595 61.111 0.00 0.00 44.61 4.57
190 625 2.641559 GAAGCAGCACAGGCACAC 59.358 61.111 0.00 0.00 44.61 3.82
191 626 2.908940 AAGCAGCACAGGCACACC 60.909 61.111 0.00 0.00 44.61 4.16
194 629 2.519063 CAGCACAGGCACACCCAA 60.519 61.111 0.00 0.00 44.61 4.12
196 631 1.381056 AGCACAGGCACACCCAAAA 60.381 52.632 0.00 0.00 44.61 2.44
198 633 1.391157 GCACAGGCACACCCAAAAGA 61.391 55.000 0.00 0.00 40.72 2.52
199 634 1.110442 CACAGGCACACCCAAAAGAA 58.890 50.000 0.00 0.00 36.11 2.52
200 635 1.480137 CACAGGCACACCCAAAAGAAA 59.520 47.619 0.00 0.00 36.11 2.52
202 637 0.744281 AGGCACACCCAAAAGAAACG 59.256 50.000 0.00 0.00 36.11 3.60
203 638 0.741915 GGCACACCCAAAAGAAACGA 59.258 50.000 0.00 0.00 0.00 3.85
204 639 1.135333 GGCACACCCAAAAGAAACGAA 59.865 47.619 0.00 0.00 0.00 3.85
205 640 2.417515 GGCACACCCAAAAGAAACGAAA 60.418 45.455 0.00 0.00 0.00 3.46
206 641 2.857748 GCACACCCAAAAGAAACGAAAG 59.142 45.455 0.00 0.00 0.00 2.62
207 642 3.428316 GCACACCCAAAAGAAACGAAAGA 60.428 43.478 0.00 0.00 0.00 2.52
208 643 4.351192 CACACCCAAAAGAAACGAAAGAG 58.649 43.478 0.00 0.00 0.00 2.85
209 644 4.095782 CACACCCAAAAGAAACGAAAGAGA 59.904 41.667 0.00 0.00 0.00 3.10
211 646 5.184287 ACACCCAAAAGAAACGAAAGAGAAA 59.816 36.000 0.00 0.00 0.00 2.52
212 647 5.515270 CACCCAAAAGAAACGAAAGAGAAAC 59.485 40.000 0.00 0.00 0.00 2.78
213 648 5.184287 ACCCAAAAGAAACGAAAGAGAAACA 59.816 36.000 0.00 0.00 0.00 2.83
214 649 6.096695 CCCAAAAGAAACGAAAGAGAAACAA 58.903 36.000 0.00 0.00 0.00 2.83
215 650 6.034577 CCCAAAAGAAACGAAAGAGAAACAAC 59.965 38.462 0.00 0.00 0.00 3.32
216 651 6.584563 CCAAAAGAAACGAAAGAGAAACAACA 59.415 34.615 0.00 0.00 0.00 3.33
217 652 7.115663 CCAAAAGAAACGAAAGAGAAACAACAA 59.884 33.333 0.00 0.00 0.00 2.83
218 653 7.796958 AAAGAAACGAAAGAGAAACAACAAG 57.203 32.000 0.00 0.00 0.00 3.16
219 654 6.737254 AGAAACGAAAGAGAAACAACAAGA 57.263 33.333 0.00 0.00 0.00 3.02
220 655 6.776094 AGAAACGAAAGAGAAACAACAAGAG 58.224 36.000 0.00 0.00 0.00 2.85
221 656 6.594159 AGAAACGAAAGAGAAACAACAAGAGA 59.406 34.615 0.00 0.00 0.00 3.10
222 657 6.737254 AACGAAAGAGAAACAACAAGAGAA 57.263 33.333 0.00 0.00 0.00 2.87
223 658 6.737254 ACGAAAGAGAAACAACAAGAGAAA 57.263 33.333 0.00 0.00 0.00 2.52
224 659 7.141100 ACGAAAGAGAAACAACAAGAGAAAA 57.859 32.000 0.00 0.00 0.00 2.29
225 660 7.244192 ACGAAAGAGAAACAACAAGAGAAAAG 58.756 34.615 0.00 0.00 0.00 2.27
226 661 7.119262 ACGAAAGAGAAACAACAAGAGAAAAGA 59.881 33.333 0.00 0.00 0.00 2.52
227 662 7.962918 CGAAAGAGAAACAACAAGAGAAAAGAA 59.037 33.333 0.00 0.00 0.00 2.52
228 663 9.794685 GAAAGAGAAACAACAAGAGAAAAGAAT 57.205 29.630 0.00 0.00 0.00 2.40
229 664 9.578439 AAAGAGAAACAACAAGAGAAAAGAATG 57.422 29.630 0.00 0.00 0.00 2.67
230 665 7.199078 AGAGAAACAACAAGAGAAAAGAATGC 58.801 34.615 0.00 0.00 0.00 3.56
231 666 6.276091 AGAAACAACAAGAGAAAAGAATGCC 58.724 36.000 0.00 0.00 0.00 4.40
232 667 4.228912 ACAACAAGAGAAAAGAATGCCG 57.771 40.909 0.00 0.00 0.00 5.69
233 668 3.882888 ACAACAAGAGAAAAGAATGCCGA 59.117 39.130 0.00 0.00 0.00 5.54
234 669 4.222114 CAACAAGAGAAAAGAATGCCGAC 58.778 43.478 0.00 0.00 0.00 4.79
235 670 3.476552 ACAAGAGAAAAGAATGCCGACA 58.523 40.909 0.00 0.00 0.00 4.35
236 671 3.882888 ACAAGAGAAAAGAATGCCGACAA 59.117 39.130 0.00 0.00 0.00 3.18
237 672 4.222114 CAAGAGAAAAGAATGCCGACAAC 58.778 43.478 0.00 0.00 0.00 3.32
238 673 2.480419 AGAGAAAAGAATGCCGACAACG 59.520 45.455 0.00 0.00 39.43 4.10
248 683 3.245315 CGACAACGGCGGATCGAC 61.245 66.667 20.25 3.07 36.70 4.20
268 703 2.579013 GGAAACGAAGAAGCTTCACG 57.421 50.000 30.04 30.04 36.14 4.35
269 704 2.132762 GGAAACGAAGAAGCTTCACGA 58.867 47.619 34.75 0.00 34.91 4.35
270 705 2.096860 GGAAACGAAGAAGCTTCACGAC 60.097 50.000 34.75 26.50 34.91 4.34
271 706 1.499049 AACGAAGAAGCTTCACGACC 58.501 50.000 34.75 17.84 34.91 4.79
272 707 0.387929 ACGAAGAAGCTTCACGACCA 59.612 50.000 34.75 0.00 34.91 4.02
273 708 0.784778 CGAAGAAGCTTCACGACCAC 59.215 55.000 28.93 12.92 33.54 4.16
274 709 1.603172 CGAAGAAGCTTCACGACCACT 60.603 52.381 28.93 7.36 33.54 4.00
275 710 1.795286 GAAGAAGCTTCACGACCACTG 59.205 52.381 27.57 0.00 0.00 3.66
276 711 0.601311 AGAAGCTTCACGACCACTGC 60.601 55.000 27.57 0.00 0.00 4.40
277 712 1.891060 GAAGCTTCACGACCACTGCG 61.891 60.000 21.67 0.00 0.00 5.18
278 713 4.077188 GCTTCACGACCACTGCGC 62.077 66.667 0.00 0.00 0.00 6.09
279 714 3.414700 CTTCACGACCACTGCGCC 61.415 66.667 4.18 0.00 0.00 6.53
280 715 4.980805 TTCACGACCACTGCGCCC 62.981 66.667 4.18 0.00 0.00 6.13
288 723 4.680237 CACTGCGCCCACCGAAGA 62.680 66.667 4.18 0.00 45.98 2.87
289 724 3.706373 ACTGCGCCCACCGAAGAT 61.706 61.111 4.18 0.00 45.98 2.40
290 725 2.892425 CTGCGCCCACCGAAGATC 60.892 66.667 4.18 0.00 45.98 2.75
291 726 3.376935 CTGCGCCCACCGAAGATCT 62.377 63.158 4.18 0.00 45.98 2.75
292 727 2.586357 GCGCCCACCGAAGATCTC 60.586 66.667 0.00 0.00 40.02 2.75
293 728 2.107141 CGCCCACCGAAGATCTCC 59.893 66.667 0.00 0.00 40.02 3.71
294 729 2.506472 GCCCACCGAAGATCTCCC 59.494 66.667 0.00 0.00 0.00 4.30
295 730 2.367202 GCCCACCGAAGATCTCCCA 61.367 63.158 0.00 0.00 0.00 4.37
296 731 1.522569 CCCACCGAAGATCTCCCAC 59.477 63.158 0.00 0.00 0.00 4.61
297 732 1.522569 CCACCGAAGATCTCCCACC 59.477 63.158 0.00 0.00 0.00 4.61
298 733 1.264749 CCACCGAAGATCTCCCACCA 61.265 60.000 0.00 0.00 0.00 4.17
299 734 0.613260 CACCGAAGATCTCCCACCAA 59.387 55.000 0.00 0.00 0.00 3.67
300 735 0.905357 ACCGAAGATCTCCCACCAAG 59.095 55.000 0.00 0.00 0.00 3.61
301 736 0.462759 CCGAAGATCTCCCACCAAGC 60.463 60.000 0.00 0.00 0.00 4.01
302 737 0.539051 CGAAGATCTCCCACCAAGCT 59.461 55.000 0.00 0.00 0.00 3.74
303 738 1.472376 CGAAGATCTCCCACCAAGCTC 60.472 57.143 0.00 0.00 0.00 4.09
304 739 0.915364 AAGATCTCCCACCAAGCTCC 59.085 55.000 0.00 0.00 0.00 4.70
305 740 0.252881 AGATCTCCCACCAAGCTCCA 60.253 55.000 0.00 0.00 0.00 3.86
306 741 0.620556 GATCTCCCACCAAGCTCCAA 59.379 55.000 0.00 0.00 0.00 3.53
307 742 0.622665 ATCTCCCACCAAGCTCCAAG 59.377 55.000 0.00 0.00 0.00 3.61
308 743 1.001641 CTCCCACCAAGCTCCAAGG 60.002 63.158 0.00 0.00 0.00 3.61
309 744 2.677875 CCCACCAAGCTCCAAGGC 60.678 66.667 0.00 0.00 0.00 4.35
310 745 2.437897 CCACCAAGCTCCAAGGCT 59.562 61.111 0.00 0.00 45.30 4.58
311 746 1.676967 CCACCAAGCTCCAAGGCTC 60.677 63.158 0.00 0.00 42.24 4.70
312 747 1.676967 CACCAAGCTCCAAGGCTCC 60.677 63.158 0.00 0.00 42.24 4.70
313 748 2.437359 CCAAGCTCCAAGGCTCCG 60.437 66.667 0.00 0.00 42.24 4.63
314 749 2.665000 CAAGCTCCAAGGCTCCGA 59.335 61.111 0.00 0.00 42.24 4.55
315 750 1.003355 CAAGCTCCAAGGCTCCGAA 60.003 57.895 0.00 0.00 42.24 4.30
316 751 1.023513 CAAGCTCCAAGGCTCCGAAG 61.024 60.000 0.00 0.00 42.24 3.79
329 764 3.055719 CGAAGCACCGGCACCAAT 61.056 61.111 0.00 0.00 44.61 3.16
330 765 2.877691 GAAGCACCGGCACCAATC 59.122 61.111 0.00 0.00 44.61 2.67
331 766 1.971167 GAAGCACCGGCACCAATCA 60.971 57.895 0.00 0.00 44.61 2.57
332 767 1.926511 GAAGCACCGGCACCAATCAG 61.927 60.000 0.00 0.00 44.61 2.90
333 768 4.120331 GCACCGGCACCAATCAGC 62.120 66.667 0.00 0.00 40.72 4.26
334 769 2.672651 CACCGGCACCAATCAGCA 60.673 61.111 0.00 0.00 0.00 4.41
335 770 2.672996 ACCGGCACCAATCAGCAC 60.673 61.111 0.00 0.00 0.00 4.40
336 771 3.443045 CCGGCACCAATCAGCACC 61.443 66.667 0.00 0.00 0.00 5.01
337 772 2.360350 CGGCACCAATCAGCACCT 60.360 61.111 0.00 0.00 0.00 4.00
338 773 2.401766 CGGCACCAATCAGCACCTC 61.402 63.158 0.00 0.00 0.00 3.85
339 774 2.048603 GGCACCAATCAGCACCTCC 61.049 63.158 0.00 0.00 0.00 4.30
340 775 1.303561 GCACCAATCAGCACCTCCA 60.304 57.895 0.00 0.00 0.00 3.86
341 776 0.895100 GCACCAATCAGCACCTCCAA 60.895 55.000 0.00 0.00 0.00 3.53
342 777 1.171308 CACCAATCAGCACCTCCAAG 58.829 55.000 0.00 0.00 0.00 3.61
343 778 1.067295 ACCAATCAGCACCTCCAAGA 58.933 50.000 0.00 0.00 0.00 3.02
344 779 1.425066 ACCAATCAGCACCTCCAAGAA 59.575 47.619 0.00 0.00 0.00 2.52
345 780 2.089980 CCAATCAGCACCTCCAAGAAG 58.910 52.381 0.00 0.00 0.00 2.85
346 781 2.089980 CAATCAGCACCTCCAAGAAGG 58.910 52.381 0.00 0.00 42.55 3.46
347 782 1.661463 ATCAGCACCTCCAAGAAGGA 58.339 50.000 0.00 0.00 46.75 3.36
348 783 0.687354 TCAGCACCTCCAAGAAGGAC 59.313 55.000 0.00 0.00 43.07 3.85
349 784 0.322008 CAGCACCTCCAAGAAGGACC 60.322 60.000 0.00 0.00 43.07 4.46
350 785 1.376037 GCACCTCCAAGAAGGACCG 60.376 63.158 0.00 0.00 43.07 4.79
351 786 1.376037 CACCTCCAAGAAGGACCGC 60.376 63.158 0.00 0.00 43.07 5.68
352 787 2.125512 CCTCCAAGAAGGACCGCG 60.126 66.667 0.00 0.00 43.07 6.46
353 788 2.646175 CCTCCAAGAAGGACCGCGA 61.646 63.158 8.23 0.00 43.07 5.87
354 789 1.446272 CTCCAAGAAGGACCGCGAC 60.446 63.158 8.23 0.17 43.07 5.19
355 790 2.809601 CCAAGAAGGACCGCGACG 60.810 66.667 8.23 0.00 41.22 5.12
356 791 2.257371 CAAGAAGGACCGCGACGA 59.743 61.111 8.23 0.00 0.00 4.20
357 792 1.372499 CAAGAAGGACCGCGACGAA 60.372 57.895 8.23 0.00 0.00 3.85
358 793 1.080705 AAGAAGGACCGCGACGAAG 60.081 57.895 8.23 0.00 0.00 3.79
359 794 1.521450 AAGAAGGACCGCGACGAAGA 61.521 55.000 8.23 0.00 0.00 2.87
360 795 1.139095 GAAGGACCGCGACGAAGAT 59.861 57.895 8.23 0.00 0.00 2.40
361 796 1.140407 GAAGGACCGCGACGAAGATG 61.140 60.000 8.23 0.00 0.00 2.90
362 797 1.592400 AAGGACCGCGACGAAGATGA 61.592 55.000 8.23 0.00 0.00 2.92
363 798 1.872679 GGACCGCGACGAAGATGAC 60.873 63.158 8.23 0.00 0.00 3.06
364 799 2.202440 ACCGCGACGAAGATGACG 60.202 61.111 8.23 0.00 0.00 4.35
365 800 3.607987 CCGCGACGAAGATGACGC 61.608 66.667 8.23 0.00 46.08 5.19
367 802 2.990735 GCGACGAAGATGACGCTG 59.009 61.111 0.00 0.00 46.06 5.18
368 803 2.990735 CGACGAAGATGACGCTGC 59.009 61.111 0.00 0.00 0.00 5.25
369 804 1.515088 CGACGAAGATGACGCTGCT 60.515 57.895 0.00 0.00 0.00 4.24
370 805 1.737196 CGACGAAGATGACGCTGCTG 61.737 60.000 0.00 0.00 0.00 4.41
371 806 2.018582 GACGAAGATGACGCTGCTGC 62.019 60.000 5.34 5.34 0.00 5.25
372 807 2.806856 CGAAGATGACGCTGCTGCC 61.807 63.158 10.24 0.00 35.36 4.85
373 808 1.742880 GAAGATGACGCTGCTGCCA 60.743 57.895 10.24 3.48 35.36 4.92
374 809 1.300971 GAAGATGACGCTGCTGCCAA 61.301 55.000 10.24 0.00 35.36 4.52
375 810 1.303799 AAGATGACGCTGCTGCCAAG 61.304 55.000 10.24 0.00 35.36 3.61
376 811 2.749044 ATGACGCTGCTGCCAAGG 60.749 61.111 10.24 0.00 35.36 3.61
379 814 4.586235 ACGCTGCTGCCAAGGGTT 62.586 61.111 10.24 0.00 35.36 4.11
380 815 3.297620 CGCTGCTGCCAAGGGTTT 61.298 61.111 10.24 0.00 35.36 3.27
381 816 2.653115 GCTGCTGCCAAGGGTTTC 59.347 61.111 3.85 0.00 0.00 2.78
382 817 2.935740 GCTGCTGCCAAGGGTTTCC 61.936 63.158 3.85 0.00 0.00 3.13
383 818 2.203625 TGCTGCCAAGGGTTTCCC 60.204 61.111 0.00 0.00 45.90 3.97
392 827 2.352422 GGGTTTCCCCCGGTACAC 59.648 66.667 0.00 0.00 45.80 2.90
393 828 2.046988 GGTTTCCCCCGGTACACG 60.047 66.667 0.00 0.00 43.80 4.49
403 838 2.099831 GGTACACGACGAGGCGAG 59.900 66.667 4.95 0.00 34.83 5.03
404 839 2.393768 GGTACACGACGAGGCGAGA 61.394 63.158 4.95 0.00 34.83 4.04
405 840 1.060622 GTACACGACGAGGCGAGAG 59.939 63.158 4.95 0.00 34.83 3.20
406 841 2.104859 TACACGACGAGGCGAGAGG 61.105 63.158 4.95 0.00 34.83 3.69
407 842 2.511545 TACACGACGAGGCGAGAGGA 62.512 60.000 4.95 0.00 34.83 3.71
408 843 2.359602 ACGACGAGGCGAGAGGAA 60.360 61.111 4.95 0.00 34.83 3.36
409 844 1.970114 ACGACGAGGCGAGAGGAAA 60.970 57.895 4.95 0.00 34.83 3.13
410 845 1.226435 CGACGAGGCGAGAGGAAAG 60.226 63.158 0.00 0.00 0.00 2.62
411 846 1.139947 GACGAGGCGAGAGGAAAGG 59.860 63.158 0.00 0.00 0.00 3.11
412 847 1.596895 GACGAGGCGAGAGGAAAGGT 61.597 60.000 0.00 0.00 0.00 3.50
413 848 1.139947 CGAGGCGAGAGGAAAGGTC 59.860 63.158 0.00 0.00 0.00 3.85
414 849 1.139947 GAGGCGAGAGGAAAGGTCG 59.860 63.158 0.00 0.00 36.77 4.79
417 852 4.988065 CGAGAGGAAAGGTCGCAA 57.012 55.556 0.00 0.00 0.00 4.85
418 853 3.442996 CGAGAGGAAAGGTCGCAAT 57.557 52.632 0.00 0.00 0.00 3.56
419 854 1.726853 CGAGAGGAAAGGTCGCAATT 58.273 50.000 0.00 0.00 0.00 2.32
420 855 2.076863 CGAGAGGAAAGGTCGCAATTT 58.923 47.619 0.00 0.00 0.00 1.82
421 856 2.484264 CGAGAGGAAAGGTCGCAATTTT 59.516 45.455 0.00 0.00 0.00 1.82
422 857 3.682858 CGAGAGGAAAGGTCGCAATTTTA 59.317 43.478 0.00 0.00 0.00 1.52
426 861 7.413657 CGAGAGGAAAGGTCGCAATTTTATTAA 60.414 37.037 0.00 0.00 0.00 1.40
469 938 2.203480 ATGGTTGTTGCAGCGGGT 60.203 55.556 0.00 0.00 0.00 5.28
475 944 1.733402 TTGTTGCAGCGGGTTCCTTG 61.733 55.000 0.00 0.00 0.00 3.61
500 969 8.636213 TGAGGATAGGTAACGAAATTTAGGTAG 58.364 37.037 3.27 0.00 46.39 3.18
501 970 8.544687 AGGATAGGTAACGAAATTTAGGTAGT 57.455 34.615 3.27 0.00 46.39 2.73
502 971 9.646522 AGGATAGGTAACGAAATTTAGGTAGTA 57.353 33.333 3.27 0.00 46.39 1.82
565 1034 3.686726 GGAGTGAAATGCCTTGACTAGTG 59.313 47.826 0.00 0.00 0.00 2.74
655 1124 1.141881 CCACACAGTAGCGCTAGGG 59.858 63.158 19.48 15.28 0.00 3.53
679 1148 3.008330 CAGCAGTACGTACACCTCTAGT 58.992 50.000 26.55 1.16 0.00 2.57
708 1177 4.708386 TTAAGGCGTGGTGGGGCG 62.708 66.667 0.00 0.00 34.74 6.13
837 1306 6.871492 TCAGAGAGCTATAGAGTTAGACGATG 59.129 42.308 3.21 0.00 0.00 3.84
873 1342 0.103937 GAGCTCACTCCCCTTCATCG 59.896 60.000 9.40 0.00 36.90 3.84
892 1371 6.522946 TCATCGTCTCCCTCCTATATATACG 58.477 44.000 0.00 0.00 0.00 3.06
946 1425 2.750637 CCAGAAGCCAGCTGCAGG 60.751 66.667 17.12 6.73 44.83 4.85
960 1439 0.880278 TGCAGGCACGAGTGAGAAAC 60.880 55.000 7.50 0.00 0.00 2.78
1274 1771 3.134574 TGGCAACAGGTAACCAACTAG 57.865 47.619 0.00 0.00 46.17 2.57
1290 1839 2.685387 CTAGGCCGTCCAGCGATGAC 62.685 65.000 0.06 0.00 44.77 3.06
1336 1885 1.068816 CCGTGCATGCATGGTGATATG 60.069 52.381 39.68 19.94 45.48 1.78
1414 1963 0.888619 CGTCTTACCTGCCACAGAGA 59.111 55.000 0.00 0.00 32.44 3.10
1646 2207 2.978824 GCTACAGCAACCCGGAGA 59.021 61.111 0.73 0.00 41.59 3.71
1758 2322 1.051812 AACATATCCAGGCTCCTCGG 58.948 55.000 0.00 0.00 0.00 4.63
1882 2446 2.436824 GAGCTGGCTTTCGTCCCC 60.437 66.667 0.00 0.00 0.00 4.81
1965 2532 2.668550 CAGACAGCAGCAGCAGCA 60.669 61.111 12.92 0.00 45.49 4.41
1966 2533 2.358860 AGACAGCAGCAGCAGCAG 60.359 61.111 12.92 6.60 45.49 4.24
1979 2546 1.787057 GCAGCAGCTCCATCATCAGC 61.787 60.000 0.00 0.00 37.91 4.26
2023 2590 4.116328 CTTCTCGACGAGGCGGCA 62.116 66.667 23.92 1.87 32.52 5.69
2047 2614 4.823276 GTCGCTGACCTCATGGAG 57.177 61.111 0.00 0.00 37.04 3.86
2298 2869 7.556275 ACCATCAAGTTAACTAGAGAGAGAGAG 59.444 40.741 8.92 0.00 0.00 3.20
2299 2870 7.773224 CCATCAAGTTAACTAGAGAGAGAGAGA 59.227 40.741 8.92 0.00 0.00 3.10
2300 2871 8.830580 CATCAAGTTAACTAGAGAGAGAGAGAG 58.169 40.741 8.92 0.00 0.00 3.20
2301 2872 8.141298 TCAAGTTAACTAGAGAGAGAGAGAGA 57.859 38.462 8.92 0.00 0.00 3.10
2302 2873 8.258007 TCAAGTTAACTAGAGAGAGAGAGAGAG 58.742 40.741 8.92 0.00 0.00 3.20
2303 2874 7.973048 AGTTAACTAGAGAGAGAGAGAGAGA 57.027 40.000 6.26 0.00 0.00 3.10
2304 2875 8.012957 AGTTAACTAGAGAGAGAGAGAGAGAG 57.987 42.308 6.26 0.00 0.00 3.20
2305 2876 7.839705 AGTTAACTAGAGAGAGAGAGAGAGAGA 59.160 40.741 6.26 0.00 0.00 3.10
2306 2877 6.723298 AACTAGAGAGAGAGAGAGAGAGAG 57.277 45.833 0.00 0.00 0.00 3.20
2307 2878 6.019656 ACTAGAGAGAGAGAGAGAGAGAGA 57.980 45.833 0.00 0.00 0.00 3.10
2308 2879 6.068010 ACTAGAGAGAGAGAGAGAGAGAGAG 58.932 48.000 0.00 0.00 0.00 3.20
2309 2880 5.136068 AGAGAGAGAGAGAGAGAGAGAGA 57.864 47.826 0.00 0.00 0.00 3.10
2310 2881 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2311 2882 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2312 2883 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2313 2884 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2314 2885 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2315 2886 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2316 2887 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2317 2888 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2318 2889 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2319 2890 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2320 2891 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2323 2894 5.960811 AGAGAGAGAGAGAGAGAGAGAGAAA 59.039 44.000 0.00 0.00 0.00 2.52
2361 2932 7.272978 AGAGACGTTTACTAATGGTGCATATT 58.727 34.615 0.00 0.00 0.00 1.28
2570 3142 4.962155 AGTACAAGCTAGCTGAAGTGTTT 58.038 39.130 21.49 10.39 0.00 2.83
2592 3164 2.093869 CAGCTTAGCTTACCCGGTGTTA 60.094 50.000 3.00 0.00 36.40 2.41
2686 3258 4.788521 GCAACGACTTGTACTTTTTCCTGG 60.789 45.833 0.00 0.00 0.00 4.45
3018 3597 5.978919 TCACTGCAAAAGAAAATGATCACAC 59.021 36.000 0.00 0.00 0.00 3.82
3021 3600 5.214417 TGCAAAAGAAAATGATCACACTCG 58.786 37.500 0.00 0.00 0.00 4.18
3030 3609 1.532437 TGATCACACTCGCTGCAAAAG 59.468 47.619 0.00 0.00 0.00 2.27
3033 3612 1.599071 TCACACTCGCTGCAAAAGAAG 59.401 47.619 0.00 0.00 0.00 2.85
3044 3628 4.268644 GCTGCAAAAGAAGAAAACAACTCC 59.731 41.667 0.00 0.00 0.00 3.85
3084 3668 1.486211 ATACTTCCTCCGTCCCACAG 58.514 55.000 0.00 0.00 0.00 3.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 7.766278 AGATATATTCTTGAGTGTGGTCACAAC 59.234 37.037 5.28 4.36 46.01 3.32
30 31 5.193099 ACCAGTTTGCCTTCATATAAGGT 57.807 39.130 5.72 0.00 39.60 3.50
35 36 6.245408 TCTAACAACCAGTTTGCCTTCATAT 58.755 36.000 0.00 0.00 41.64 1.78
62 63 7.678947 ACTGAAGTTCTGACCAATAGATTTG 57.321 36.000 15.84 0.00 0.00 2.32
63 64 9.793259 TTTACTGAAGTTCTGACCAATAGATTT 57.207 29.630 15.84 0.00 0.00 2.17
110 508 2.094390 GGAATACAAAGCGGGGGAAAAC 60.094 50.000 0.00 0.00 0.00 2.43
111 509 2.172679 GGAATACAAAGCGGGGGAAAA 58.827 47.619 0.00 0.00 0.00 2.29
125 523 2.554893 TCGGTTGGTTGCTTTGGAATAC 59.445 45.455 0.00 0.00 0.00 1.89
131 529 0.453793 TGTGTCGGTTGGTTGCTTTG 59.546 50.000 0.00 0.00 0.00 2.77
135 533 1.169661 TGGATGTGTCGGTTGGTTGC 61.170 55.000 0.00 0.00 0.00 4.17
136 534 1.266718 CTTGGATGTGTCGGTTGGTTG 59.733 52.381 0.00 0.00 0.00 3.77
139 574 0.036164 TCCTTGGATGTGTCGGTTGG 59.964 55.000 0.00 0.00 0.00 3.77
143 578 1.762957 ACCTATCCTTGGATGTGTCGG 59.237 52.381 12.08 7.14 0.00 4.79
144 579 2.826428 CACCTATCCTTGGATGTGTCG 58.174 52.381 12.08 2.10 0.00 4.35
145 580 2.171448 AGCACCTATCCTTGGATGTGTC 59.829 50.000 12.08 8.62 0.00 3.67
149 584 1.202855 CCCAGCACCTATCCTTGGATG 60.203 57.143 12.08 0.00 0.00 3.51
151 586 0.988145 CCCCAGCACCTATCCTTGGA 60.988 60.000 0.00 0.00 0.00 3.53
153 588 1.152881 GCCCCAGCACCTATCCTTG 60.153 63.158 0.00 0.00 39.53 3.61
155 590 3.164269 CGCCCCAGCACCTATCCT 61.164 66.667 0.00 0.00 39.83 3.24
156 591 4.256180 CCGCCCCAGCACCTATCC 62.256 72.222 0.00 0.00 39.83 2.59
171 606 3.730761 GTGCCTGTGCTGCTTCCG 61.731 66.667 0.00 0.00 38.71 4.30
172 607 2.595463 TGTGCCTGTGCTGCTTCC 60.595 61.111 0.00 0.00 38.71 3.46
173 608 2.641559 GTGTGCCTGTGCTGCTTC 59.358 61.111 0.00 0.00 38.71 3.86
174 609 2.908940 GGTGTGCCTGTGCTGCTT 60.909 61.111 0.00 0.00 38.71 3.91
175 610 4.962836 GGGTGTGCCTGTGCTGCT 62.963 66.667 0.00 0.00 38.71 4.24
177 612 1.674764 TTTTGGGTGTGCCTGTGCTG 61.675 55.000 0.00 0.00 38.71 4.41
178 613 1.381056 TTTTGGGTGTGCCTGTGCT 60.381 52.632 0.00 0.00 38.71 4.40
179 614 1.067916 CTTTTGGGTGTGCCTGTGC 59.932 57.895 0.00 0.00 38.26 4.57
181 616 1.480545 GTTTCTTTTGGGTGTGCCTGT 59.519 47.619 0.00 0.00 34.45 4.00
183 618 0.744281 CGTTTCTTTTGGGTGTGCCT 59.256 50.000 0.00 0.00 34.45 4.75
184 619 0.741915 TCGTTTCTTTTGGGTGTGCC 59.258 50.000 0.00 0.00 0.00 5.01
186 621 4.095782 TCTCTTTCGTTTCTTTTGGGTGTG 59.904 41.667 0.00 0.00 0.00 3.82
187 622 4.266714 TCTCTTTCGTTTCTTTTGGGTGT 58.733 39.130 0.00 0.00 0.00 4.16
188 623 4.893424 TCTCTTTCGTTTCTTTTGGGTG 57.107 40.909 0.00 0.00 0.00 4.61
189 624 5.184287 TGTTTCTCTTTCGTTTCTTTTGGGT 59.816 36.000 0.00 0.00 0.00 4.51
190 625 5.646606 TGTTTCTCTTTCGTTTCTTTTGGG 58.353 37.500 0.00 0.00 0.00 4.12
191 626 6.584563 TGTTGTTTCTCTTTCGTTTCTTTTGG 59.415 34.615 0.00 0.00 0.00 3.28
193 628 8.079809 TCTTGTTGTTTCTCTTTCGTTTCTTTT 58.920 29.630 0.00 0.00 0.00 2.27
194 629 7.590279 TCTTGTTGTTTCTCTTTCGTTTCTTT 58.410 30.769 0.00 0.00 0.00 2.52
196 631 6.594159 TCTCTTGTTGTTTCTCTTTCGTTTCT 59.406 34.615 0.00 0.00 0.00 2.52
198 633 6.737254 TCTCTTGTTGTTTCTCTTTCGTTT 57.263 33.333 0.00 0.00 0.00 3.60
199 634 6.737254 TTCTCTTGTTGTTTCTCTTTCGTT 57.263 33.333 0.00 0.00 0.00 3.85
200 635 6.737254 TTTCTCTTGTTGTTTCTCTTTCGT 57.263 33.333 0.00 0.00 0.00 3.85
202 637 9.794685 ATTCTTTTCTCTTGTTGTTTCTCTTTC 57.205 29.630 0.00 0.00 0.00 2.62
203 638 9.578439 CATTCTTTTCTCTTGTTGTTTCTCTTT 57.422 29.630 0.00 0.00 0.00 2.52
204 639 7.704047 GCATTCTTTTCTCTTGTTGTTTCTCTT 59.296 33.333 0.00 0.00 0.00 2.85
205 640 7.199078 GCATTCTTTTCTCTTGTTGTTTCTCT 58.801 34.615 0.00 0.00 0.00 3.10
206 641 6.419116 GGCATTCTTTTCTCTTGTTGTTTCTC 59.581 38.462 0.00 0.00 0.00 2.87
207 642 6.276091 GGCATTCTTTTCTCTTGTTGTTTCT 58.724 36.000 0.00 0.00 0.00 2.52
208 643 5.173854 CGGCATTCTTTTCTCTTGTTGTTTC 59.826 40.000 0.00 0.00 0.00 2.78
209 644 5.043248 CGGCATTCTTTTCTCTTGTTGTTT 58.957 37.500 0.00 0.00 0.00 2.83
211 646 3.882888 TCGGCATTCTTTTCTCTTGTTGT 59.117 39.130 0.00 0.00 0.00 3.32
212 647 4.222114 GTCGGCATTCTTTTCTCTTGTTG 58.778 43.478 0.00 0.00 0.00 3.33
213 648 3.882888 TGTCGGCATTCTTTTCTCTTGTT 59.117 39.130 0.00 0.00 0.00 2.83
214 649 3.476552 TGTCGGCATTCTTTTCTCTTGT 58.523 40.909 0.00 0.00 0.00 3.16
215 650 4.222114 GTTGTCGGCATTCTTTTCTCTTG 58.778 43.478 0.00 0.00 0.00 3.02
216 651 3.058914 CGTTGTCGGCATTCTTTTCTCTT 60.059 43.478 0.00 0.00 0.00 2.85
217 652 2.480419 CGTTGTCGGCATTCTTTTCTCT 59.520 45.455 0.00 0.00 0.00 3.10
218 653 2.839474 CGTTGTCGGCATTCTTTTCTC 58.161 47.619 0.00 0.00 0.00 2.87
219 654 2.969443 CGTTGTCGGCATTCTTTTCT 57.031 45.000 0.00 0.00 0.00 2.52
231 666 3.245315 GTCGATCCGCCGTTGTCG 61.245 66.667 0.00 0.00 35.55 4.35
232 667 3.245315 CGTCGATCCGCCGTTGTC 61.245 66.667 0.00 0.00 0.00 3.18
233 668 4.789075 CCGTCGATCCGCCGTTGT 62.789 66.667 0.00 0.00 0.00 3.32
234 669 3.975083 TTCCGTCGATCCGCCGTTG 62.975 63.158 0.00 0.00 0.00 4.10
235 670 3.285523 TTTCCGTCGATCCGCCGTT 62.286 57.895 0.00 0.00 0.00 4.44
236 671 3.751246 TTTCCGTCGATCCGCCGT 61.751 61.111 0.00 0.00 0.00 5.68
237 672 3.252484 GTTTCCGTCGATCCGCCG 61.252 66.667 0.00 0.00 0.00 6.46
238 673 3.252484 CGTTTCCGTCGATCCGCC 61.252 66.667 0.00 0.00 0.00 6.13
239 674 1.740043 CTTCGTTTCCGTCGATCCGC 61.740 60.000 0.00 0.00 37.18 5.54
240 675 0.179181 TCTTCGTTTCCGTCGATCCG 60.179 55.000 0.00 0.00 37.18 4.18
241 676 1.918609 CTTCTTCGTTTCCGTCGATCC 59.081 52.381 0.00 0.00 37.18 3.36
242 677 1.320852 GCTTCTTCGTTTCCGTCGATC 59.679 52.381 0.00 0.00 37.18 3.69
243 678 1.067776 AGCTTCTTCGTTTCCGTCGAT 60.068 47.619 0.00 0.00 37.18 3.59
244 679 0.313043 AGCTTCTTCGTTTCCGTCGA 59.687 50.000 0.00 0.00 35.50 4.20
245 680 1.124477 GAAGCTTCTTCGTTTCCGTCG 59.876 52.381 19.44 0.00 35.01 5.12
246 681 2.096860 GTGAAGCTTCTTCGTTTCCGTC 60.097 50.000 26.09 0.00 35.01 4.79
247 682 1.865340 GTGAAGCTTCTTCGTTTCCGT 59.135 47.619 26.09 0.00 35.01 4.69
248 683 1.136611 CGTGAAGCTTCTTCGTTTCCG 60.137 52.381 26.09 11.53 0.00 4.30
249 684 2.096860 GTCGTGAAGCTTCTTCGTTTCC 60.097 50.000 28.67 18.19 0.00 3.13
250 685 2.096860 GGTCGTGAAGCTTCTTCGTTTC 60.097 50.000 28.67 22.37 0.00 2.78
251 686 1.865340 GGTCGTGAAGCTTCTTCGTTT 59.135 47.619 28.67 0.00 0.00 3.60
252 687 1.202486 TGGTCGTGAAGCTTCTTCGTT 60.202 47.619 28.67 0.00 0.00 3.85
253 688 0.387929 TGGTCGTGAAGCTTCTTCGT 59.612 50.000 28.67 0.00 0.00 3.85
254 689 0.784778 GTGGTCGTGAAGCTTCTTCG 59.215 55.000 26.09 26.23 0.00 3.79
255 690 1.795286 CAGTGGTCGTGAAGCTTCTTC 59.205 52.381 26.09 17.48 0.00 2.87
256 691 1.871080 CAGTGGTCGTGAAGCTTCTT 58.129 50.000 26.09 0.00 0.00 2.52
257 692 0.601311 GCAGTGGTCGTGAAGCTTCT 60.601 55.000 26.09 1.25 0.00 2.85
258 693 1.862806 GCAGTGGTCGTGAAGCTTC 59.137 57.895 19.89 19.89 0.00 3.86
259 694 1.956170 CGCAGTGGTCGTGAAGCTT 60.956 57.895 0.00 0.00 0.00 3.74
260 695 2.356313 CGCAGTGGTCGTGAAGCT 60.356 61.111 0.00 0.00 0.00 3.74
261 696 4.077188 GCGCAGTGGTCGTGAAGC 62.077 66.667 0.30 0.00 0.00 3.86
262 697 3.414700 GGCGCAGTGGTCGTGAAG 61.415 66.667 10.83 0.00 0.00 3.02
263 698 4.980805 GGGCGCAGTGGTCGTGAA 62.981 66.667 10.83 0.00 0.00 3.18
271 706 3.958147 ATCTTCGGTGGGCGCAGTG 62.958 63.158 10.83 0.00 0.00 3.66
272 707 3.665675 GATCTTCGGTGGGCGCAGT 62.666 63.158 10.83 0.00 0.00 4.40
273 708 2.892425 GATCTTCGGTGGGCGCAG 60.892 66.667 10.83 0.00 0.00 5.18
274 709 3.371097 GAGATCTTCGGTGGGCGCA 62.371 63.158 10.83 0.00 0.00 6.09
275 710 2.586357 GAGATCTTCGGTGGGCGC 60.586 66.667 0.00 0.00 0.00 6.53
276 711 2.107141 GGAGATCTTCGGTGGGCG 59.893 66.667 0.00 0.00 0.00 6.13
277 712 2.367202 TGGGAGATCTTCGGTGGGC 61.367 63.158 0.00 0.00 0.00 5.36
278 713 1.522569 GTGGGAGATCTTCGGTGGG 59.477 63.158 0.00 0.00 0.00 4.61
279 714 1.264749 TGGTGGGAGATCTTCGGTGG 61.265 60.000 0.00 0.00 0.00 4.61
280 715 0.613260 TTGGTGGGAGATCTTCGGTG 59.387 55.000 0.00 0.00 0.00 4.94
281 716 0.905357 CTTGGTGGGAGATCTTCGGT 59.095 55.000 0.00 0.00 0.00 4.69
282 717 0.462759 GCTTGGTGGGAGATCTTCGG 60.463 60.000 0.00 0.00 0.00 4.30
283 718 0.539051 AGCTTGGTGGGAGATCTTCG 59.461 55.000 0.00 0.00 0.00 3.79
284 719 1.134250 GGAGCTTGGTGGGAGATCTTC 60.134 57.143 0.00 0.00 30.59 2.87
285 720 0.915364 GGAGCTTGGTGGGAGATCTT 59.085 55.000 0.00 0.00 30.59 2.40
286 721 0.252881 TGGAGCTTGGTGGGAGATCT 60.253 55.000 0.00 0.00 30.59 2.75
287 722 0.620556 TTGGAGCTTGGTGGGAGATC 59.379 55.000 0.00 0.00 0.00 2.75
288 723 0.622665 CTTGGAGCTTGGTGGGAGAT 59.377 55.000 0.00 0.00 0.00 2.75
289 724 1.492133 CCTTGGAGCTTGGTGGGAGA 61.492 60.000 0.00 0.00 0.00 3.71
290 725 1.001641 CCTTGGAGCTTGGTGGGAG 60.002 63.158 0.00 0.00 0.00 4.30
291 726 3.170362 CCTTGGAGCTTGGTGGGA 58.830 61.111 0.00 0.00 0.00 4.37
292 727 2.677875 GCCTTGGAGCTTGGTGGG 60.678 66.667 0.00 0.00 0.00 4.61
293 728 1.676967 GAGCCTTGGAGCTTGGTGG 60.677 63.158 0.00 0.00 45.15 4.61
294 729 1.676967 GGAGCCTTGGAGCTTGGTG 60.677 63.158 0.00 0.00 45.15 4.17
295 730 2.759795 GGAGCCTTGGAGCTTGGT 59.240 61.111 0.00 0.00 45.15 3.67
296 731 2.437359 CGGAGCCTTGGAGCTTGG 60.437 66.667 0.00 0.00 45.15 3.61
297 732 1.003355 TTCGGAGCCTTGGAGCTTG 60.003 57.895 0.00 0.00 45.15 4.01
298 733 1.298014 CTTCGGAGCCTTGGAGCTT 59.702 57.895 0.00 0.00 45.15 3.74
300 735 2.821810 GCTTCGGAGCCTTGGAGC 60.822 66.667 3.57 0.00 43.29 4.70
312 747 3.039202 GATTGGTGCCGGTGCTTCG 62.039 63.158 1.90 0.00 38.71 3.79
313 748 1.926511 CTGATTGGTGCCGGTGCTTC 61.927 60.000 1.90 0.00 38.71 3.86
314 749 1.973281 CTGATTGGTGCCGGTGCTT 60.973 57.895 1.90 0.00 38.71 3.91
315 750 2.360350 CTGATTGGTGCCGGTGCT 60.360 61.111 1.90 0.00 38.71 4.40
316 751 4.120331 GCTGATTGGTGCCGGTGC 62.120 66.667 1.90 0.00 38.26 5.01
317 752 2.672651 TGCTGATTGGTGCCGGTG 60.673 61.111 1.90 0.00 0.00 4.94
318 753 2.672996 GTGCTGATTGGTGCCGGT 60.673 61.111 1.90 0.00 0.00 5.28
319 754 3.443045 GGTGCTGATTGGTGCCGG 61.443 66.667 0.00 0.00 0.00 6.13
320 755 2.360350 AGGTGCTGATTGGTGCCG 60.360 61.111 0.00 0.00 0.00 5.69
321 756 2.048603 GGAGGTGCTGATTGGTGCC 61.049 63.158 0.00 0.00 0.00 5.01
322 757 0.895100 TTGGAGGTGCTGATTGGTGC 60.895 55.000 0.00 0.00 0.00 5.01
323 758 1.171308 CTTGGAGGTGCTGATTGGTG 58.829 55.000 0.00 0.00 0.00 4.17
324 759 1.067295 TCTTGGAGGTGCTGATTGGT 58.933 50.000 0.00 0.00 0.00 3.67
325 760 2.089980 CTTCTTGGAGGTGCTGATTGG 58.910 52.381 0.00 0.00 0.00 3.16
326 761 2.089980 CCTTCTTGGAGGTGCTGATTG 58.910 52.381 0.00 0.00 38.35 2.67
327 762 1.988107 TCCTTCTTGGAGGTGCTGATT 59.012 47.619 0.00 0.00 40.56 2.57
328 763 1.661463 TCCTTCTTGGAGGTGCTGAT 58.339 50.000 0.00 0.00 40.56 2.90
329 764 3.164024 TCCTTCTTGGAGGTGCTGA 57.836 52.632 0.00 0.00 40.56 4.26
337 772 2.654877 GTCGCGGTCCTTCTTGGA 59.345 61.111 6.13 0.00 43.86 3.53
338 773 2.758770 TTCGTCGCGGTCCTTCTTGG 62.759 60.000 6.13 0.00 37.10 3.61
339 774 1.344942 CTTCGTCGCGGTCCTTCTTG 61.345 60.000 6.13 0.00 0.00 3.02
340 775 1.080705 CTTCGTCGCGGTCCTTCTT 60.081 57.895 6.13 0.00 0.00 2.52
341 776 1.313812 ATCTTCGTCGCGGTCCTTCT 61.314 55.000 6.13 0.00 0.00 2.85
342 777 1.139095 ATCTTCGTCGCGGTCCTTC 59.861 57.895 6.13 0.00 0.00 3.46
343 778 1.153823 CATCTTCGTCGCGGTCCTT 60.154 57.895 6.13 0.00 0.00 3.36
344 779 2.044555 TCATCTTCGTCGCGGTCCT 61.045 57.895 6.13 0.00 0.00 3.85
345 780 1.872679 GTCATCTTCGTCGCGGTCC 60.873 63.158 6.13 0.00 0.00 4.46
346 781 2.215604 CGTCATCTTCGTCGCGGTC 61.216 63.158 6.13 0.00 0.00 4.79
347 782 2.202440 CGTCATCTTCGTCGCGGT 60.202 61.111 6.13 0.00 0.00 5.68
348 783 3.607987 GCGTCATCTTCGTCGCGG 61.608 66.667 6.13 0.00 39.35 6.46
351 786 1.515088 AGCAGCGTCATCTTCGTCG 60.515 57.895 0.00 0.00 0.00 5.12
352 787 1.994467 CAGCAGCGTCATCTTCGTC 59.006 57.895 0.00 0.00 0.00 4.20
353 788 2.097038 GCAGCAGCGTCATCTTCGT 61.097 57.895 0.00 0.00 0.00 3.85
354 789 2.699809 GCAGCAGCGTCATCTTCG 59.300 61.111 0.00 0.00 0.00 3.79
355 790 1.300971 TTGGCAGCAGCGTCATCTTC 61.301 55.000 0.00 0.00 43.41 2.87
356 791 1.302752 TTGGCAGCAGCGTCATCTT 60.303 52.632 0.00 0.00 43.41 2.40
357 792 1.744368 CTTGGCAGCAGCGTCATCT 60.744 57.895 0.00 0.00 43.41 2.90
358 793 2.758089 CCTTGGCAGCAGCGTCATC 61.758 63.158 0.00 0.00 43.41 2.92
359 794 2.749044 CCTTGGCAGCAGCGTCAT 60.749 61.111 0.00 0.00 43.41 3.06
362 797 4.586235 AACCCTTGGCAGCAGCGT 62.586 61.111 0.00 0.00 43.41 5.07
363 798 3.273080 GAAACCCTTGGCAGCAGCG 62.273 63.158 0.00 0.00 43.41 5.18
364 799 2.653115 GAAACCCTTGGCAGCAGC 59.347 61.111 0.00 0.00 41.10 5.25
365 800 3.369921 GGAAACCCTTGGCAGCAG 58.630 61.111 0.00 0.00 0.00 4.24
376 811 2.582493 TCGTGTACCGGGGGAAACC 61.582 63.158 6.32 0.00 42.97 3.27
377 812 1.374631 GTCGTGTACCGGGGGAAAC 60.375 63.158 6.32 0.00 37.11 2.78
378 813 2.929903 CGTCGTGTACCGGGGGAAA 61.930 63.158 6.32 0.00 37.11 3.13
379 814 3.372730 CGTCGTGTACCGGGGGAA 61.373 66.667 6.32 0.00 37.11 3.97
380 815 4.343323 TCGTCGTGTACCGGGGGA 62.343 66.667 6.32 0.00 37.11 4.81
381 816 3.818787 CTCGTCGTGTACCGGGGG 61.819 72.222 6.32 0.00 37.11 5.40
382 817 3.818787 CCTCGTCGTGTACCGGGG 61.819 72.222 6.32 0.00 38.56 5.73
383 818 4.487412 GCCTCGTCGTGTACCGGG 62.487 72.222 6.32 0.00 37.11 5.73
384 819 4.824166 CGCCTCGTCGTGTACCGG 62.824 72.222 0.00 0.00 37.11 5.28
385 820 3.713615 CTCGCCTCGTCGTGTACCG 62.714 68.421 0.00 0.00 38.13 4.02
386 821 2.099831 CTCGCCTCGTCGTGTACC 59.900 66.667 0.00 0.00 0.00 3.34
387 822 1.060622 CTCTCGCCTCGTCGTGTAC 59.939 63.158 0.00 0.00 0.00 2.90
388 823 2.104859 CCTCTCGCCTCGTCGTGTA 61.105 63.158 0.00 0.00 0.00 2.90
389 824 3.432588 CCTCTCGCCTCGTCGTGT 61.433 66.667 0.00 0.00 0.00 4.49
390 825 2.196382 TTTCCTCTCGCCTCGTCGTG 62.196 60.000 0.00 0.00 0.00 4.35
391 826 1.924320 CTTTCCTCTCGCCTCGTCGT 61.924 60.000 0.00 0.00 0.00 4.34
392 827 1.226435 CTTTCCTCTCGCCTCGTCG 60.226 63.158 0.00 0.00 0.00 5.12
393 828 1.139947 CCTTTCCTCTCGCCTCGTC 59.860 63.158 0.00 0.00 0.00 4.20
394 829 1.596895 GACCTTTCCTCTCGCCTCGT 61.597 60.000 0.00 0.00 0.00 4.18
395 830 1.139947 GACCTTTCCTCTCGCCTCG 59.860 63.158 0.00 0.00 0.00 4.63
396 831 1.139947 CGACCTTTCCTCTCGCCTC 59.860 63.158 0.00 0.00 0.00 4.70
397 832 3.007973 GCGACCTTTCCTCTCGCCT 62.008 63.158 0.00 0.00 45.60 5.52
398 833 2.509561 GCGACCTTTCCTCTCGCC 60.510 66.667 0.00 0.00 45.60 5.54
400 835 1.726853 AATTGCGACCTTTCCTCTCG 58.273 50.000 0.00 0.00 0.00 4.04
401 836 5.819825 ATAAAATTGCGACCTTTCCTCTC 57.180 39.130 0.00 0.00 0.00 3.20
402 837 7.696992 TTAATAAAATTGCGACCTTTCCTCT 57.303 32.000 0.00 0.00 0.00 3.69
403 838 8.751302 TTTTAATAAAATTGCGACCTTTCCTC 57.249 30.769 0.00 0.00 0.00 3.71
404 839 7.817478 CCTTTTAATAAAATTGCGACCTTTCCT 59.183 33.333 0.00 0.00 0.00 3.36
405 840 7.412563 GCCTTTTAATAAAATTGCGACCTTTCC 60.413 37.037 0.00 0.00 0.00 3.13
406 841 7.330946 AGCCTTTTAATAAAATTGCGACCTTTC 59.669 33.333 11.72 0.00 34.87 2.62
407 842 7.158697 AGCCTTTTAATAAAATTGCGACCTTT 58.841 30.769 11.72 0.00 34.87 3.11
408 843 6.697395 AGCCTTTTAATAAAATTGCGACCTT 58.303 32.000 11.72 0.00 34.87 3.50
409 844 6.280855 AGCCTTTTAATAAAATTGCGACCT 57.719 33.333 11.72 0.00 34.87 3.85
410 845 8.642908 ATTAGCCTTTTAATAAAATTGCGACC 57.357 30.769 11.72 0.00 34.87 4.79
412 847 9.959749 CCTATTAGCCTTTTAATAAAATTGCGA 57.040 29.630 11.72 6.65 34.87 5.10
413 848 8.699749 GCCTATTAGCCTTTTAATAAAATTGCG 58.300 33.333 11.72 0.00 34.87 4.85
437 872 5.405935 ACAACCATGAAGAAATTTAGGCC 57.594 39.130 0.00 0.00 0.00 5.19
475 944 8.637099 ACTACCTAAATTTCGTTACCTATCCTC 58.363 37.037 0.00 0.00 0.00 3.71
500 969 6.122850 AGGAAACAAAACGGTAAAGTGTAC 57.877 37.500 0.00 0.00 0.00 2.90
501 970 6.820656 TGTAGGAAACAAAACGGTAAAGTGTA 59.179 34.615 0.00 0.00 34.29 2.90
502 971 5.647225 TGTAGGAAACAAAACGGTAAAGTGT 59.353 36.000 0.00 0.00 34.29 3.55
565 1034 2.924290 GTGACTCGTCAAGCTTACCATC 59.076 50.000 0.00 0.00 41.85 3.51
655 1124 0.038526 AGGTGTACGTACTGCTGCAC 60.039 55.000 25.12 14.04 0.00 4.57
708 1177 3.553828 TGAATCATAGAAACCGACCCC 57.446 47.619 0.00 0.00 0.00 4.95
837 1306 3.615155 AGCTCCTTTTCACTTGCTATCC 58.385 45.455 0.00 0.00 0.00 2.59
892 1371 4.422073 TGATCTCTCACTCTCTCTCTCC 57.578 50.000 0.00 0.00 0.00 3.71
946 1425 1.387084 GATCGTGTTTCTCACTCGTGC 59.613 52.381 0.00 0.00 44.16 5.34
960 1439 0.095935 CTTTTGGCAGCTCGATCGTG 59.904 55.000 15.94 14.19 0.00 4.35
1290 1839 2.819595 CATGGCCAACCTCGACGG 60.820 66.667 10.96 0.03 36.63 4.79
1336 1885 9.713740 CAAAGAAGAGTTGTTATTAGATCATGC 57.286 33.333 0.00 0.00 0.00 4.06
1399 1948 0.320374 CCGTTCTCTGTGGCAGGTAA 59.680 55.000 0.00 0.00 31.51 2.85
1414 1963 2.519377 TCTTGATGTCGTTGTCCGTT 57.481 45.000 0.00 0.00 37.94 4.44
1548 2100 1.078759 GTTGTCGAGATGGACGGCAG 61.079 60.000 0.00 0.00 45.50 4.85
1549 2101 1.080093 GTTGTCGAGATGGACGGCA 60.080 57.895 0.00 0.00 43.38 5.69
1646 2207 1.000163 GATCGTCGTATGCTGGGTGAT 60.000 52.381 0.00 0.00 0.00 3.06
1758 2322 0.729690 GGAGCTCTTCATGAAACCGC 59.270 55.000 14.64 11.61 0.00 5.68
1965 2532 1.148723 GGCAGCTGATGATGGAGCT 59.851 57.895 20.43 0.00 46.73 4.09
1966 2533 1.153025 TGGCAGCTGATGATGGAGC 60.153 57.895 20.43 0.00 35.28 4.70
1967 2534 0.180642 AGTGGCAGCTGATGATGGAG 59.819 55.000 20.43 0.00 0.00 3.86
1979 2546 0.388520 TCGATCGAACACAGTGGCAG 60.389 55.000 16.99 0.00 0.00 4.85
2047 2614 4.803426 CAGCCACCGTCGGAGAGC 62.803 72.222 20.51 16.73 36.95 4.09
2298 2869 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2299 2870 5.136068 TCTCTCTCTCTCTCTCTCTCTCT 57.864 47.826 0.00 0.00 0.00 3.10
2300 2871 5.860941 TTCTCTCTCTCTCTCTCTCTCTC 57.139 47.826 0.00 0.00 0.00 3.20
2301 2872 5.960811 TCTTTCTCTCTCTCTCTCTCTCTCT 59.039 44.000 0.00 0.00 0.00 3.10
2302 2873 6.227298 TCTTTCTCTCTCTCTCTCTCTCTC 57.773 45.833 0.00 0.00 0.00 3.20
2303 2874 6.214412 ACTTCTTTCTCTCTCTCTCTCTCTCT 59.786 42.308 0.00 0.00 0.00 3.10
2304 2875 6.410540 ACTTCTTTCTCTCTCTCTCTCTCTC 58.589 44.000 0.00 0.00 0.00 3.20
2305 2876 6.380079 ACTTCTTTCTCTCTCTCTCTCTCT 57.620 41.667 0.00 0.00 0.00 3.10
2306 2877 8.561738 TTAACTTCTTTCTCTCTCTCTCTCTC 57.438 38.462 0.00 0.00 0.00 3.20
2307 2878 9.533831 AATTAACTTCTTTCTCTCTCTCTCTCT 57.466 33.333 0.00 0.00 0.00 3.10
2316 2887 9.498307 CGTCTCTCTAATTAACTTCTTTCTCTC 57.502 37.037 0.00 0.00 0.00 3.20
2317 2888 9.016438 ACGTCTCTCTAATTAACTTCTTTCTCT 57.984 33.333 0.00 0.00 0.00 3.10
2318 2889 9.628746 AACGTCTCTCTAATTAACTTCTTTCTC 57.371 33.333 0.00 0.00 0.00 2.87
2319 2890 9.984190 AAACGTCTCTCTAATTAACTTCTTTCT 57.016 29.630 0.00 0.00 0.00 2.52
2335 2906 4.491676 TGCACCATTAGTAAACGTCTCTC 58.508 43.478 0.00 0.00 0.00 3.20
2361 2932 3.392285 CTCATCATCCCATCCCAGTGTAA 59.608 47.826 0.00 0.00 0.00 2.41
2548 3120 4.608948 AACACTTCAGCTAGCTTGTACT 57.391 40.909 16.46 0.00 0.00 2.73
2549 3121 4.750098 TGAAACACTTCAGCTAGCTTGTAC 59.250 41.667 16.46 14.15 36.62 2.90
2550 3122 4.956085 TGAAACACTTCAGCTAGCTTGTA 58.044 39.130 16.46 0.07 36.62 2.41
2551 3123 3.808728 TGAAACACTTCAGCTAGCTTGT 58.191 40.909 16.46 14.38 36.62 3.16
2570 3142 0.535335 CACCGGGTAAGCTAAGCTGA 59.465 55.000 6.32 0.00 39.62 4.26
2592 3164 9.444600 AACTTATGTTCATACTCCGTACAATTT 57.555 29.630 0.00 0.00 0.00 1.82
2611 3183 7.440523 AAACAGAAGGCTTCACTAACTTATG 57.559 36.000 27.70 16.04 37.95 1.90
3018 3597 3.694734 TGTTTTCTTCTTTTGCAGCGAG 58.305 40.909 0.00 0.00 0.00 5.03
3021 3600 4.268644 GGAGTTGTTTTCTTCTTTTGCAGC 59.731 41.667 0.00 0.00 0.00 5.25
3030 3609 9.010029 TGTTATAATCTGGGAGTTGTTTTCTTC 57.990 33.333 0.00 0.00 0.00 2.87
3033 3612 9.974980 TTTTGTTATAATCTGGGAGTTGTTTTC 57.025 29.630 0.00 0.00 0.00 2.29
3070 3654 2.832643 TTATACTGTGGGACGGAGGA 57.167 50.000 0.00 0.00 0.00 3.71


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

AutoCloner maintained by Alex Coulton.