Multiple sequence alignment - TraesCS6D01G097900

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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 TraesCS6D01G097900 chr6D 100.000 2379 0 0 1 2379 61573004 61575382 0.000000e+00 4394.0
1 TraesCS6D01G097900 chr6D 95.582 747 29 4 1637 2379 445491247 445491993 0.000000e+00 1194.0
2 TraesCS6D01G097900 chr6D 96.226 53 2 0 581 633 61573534 61573586 1.170000e-13 87.9
3 TraesCS6D01G097900 chr6D 96.226 53 2 0 531 583 61573584 61573636 1.170000e-13 87.9
4 TraesCS6D01G097900 chr2D 95.745 752 28 3 1632 2379 9668225 9667474 0.000000e+00 1208.0
5 TraesCS6D01G097900 chr2D 94.814 752 33 5 1632 2379 605776361 605775612 0.000000e+00 1168.0
6 TraesCS6D01G097900 chr4D 95.479 752 30 3 1632 2379 328544568 328543817 0.000000e+00 1197.0
7 TraesCS6D01G097900 chr4D 94.974 756 33 4 1629 2379 507984610 507985365 0.000000e+00 1181.0
8 TraesCS6D01G097900 chr4D 94.814 752 35 3 1632 2379 471150102 471149351 0.000000e+00 1170.0
9 TraesCS6D01G097900 chr6B 91.734 871 37 4 768 1637 135405191 135406027 0.000000e+00 1177.0
10 TraesCS6D01G097900 chr6B 93.824 340 21 0 1271 1610 135384350 135384689 1.630000e-141 512.0
11 TraesCS6D01G097900 chr6B 75.787 921 151 47 768 1631 135376997 135377902 1.320000e-107 399.0
12 TraesCS6D01G097900 chr6B 91.813 171 14 0 580 750 135384043 135384213 3.060000e-59 239.0
13 TraesCS6D01G097900 chr6B 92.053 151 12 0 765 915 135384198 135384348 1.850000e-51 213.0
14 TraesCS6D01G097900 chr1D 93.351 752 46 3 1632 2379 11402985 11402234 0.000000e+00 1109.0
15 TraesCS6D01G097900 chr1D 90.824 752 65 3 1629 2376 106289828 106290579 0.000000e+00 1003.0
16 TraesCS6D01G097900 chrUn 92.593 756 50 5 1629 2379 9741395 9742149 0.000000e+00 1081.0
17 TraesCS6D01G097900 chr6A 75.270 926 148 60 768 1631 78843965 78844871 1.340000e-97 366.0
18 TraesCS6D01G097900 chr6A 88.542 288 22 5 1093 1379 78847500 78847777 2.930000e-89 339.0


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 TraesCS6D01G097900 chr6D 61573004 61575382 2378 False 1523.266667 4394 97.484000 1 2379 3 chr6D.!!$F2 2378
1 TraesCS6D01G097900 chr6D 445491247 445491993 746 False 1194.000000 1194 95.582000 1637 2379 1 chr6D.!!$F1 742
2 TraesCS6D01G097900 chr2D 9667474 9668225 751 True 1208.000000 1208 95.745000 1632 2379 1 chr2D.!!$R1 747
3 TraesCS6D01G097900 chr2D 605775612 605776361 749 True 1168.000000 1168 94.814000 1632 2379 1 chr2D.!!$R2 747
4 TraesCS6D01G097900 chr4D 328543817 328544568 751 True 1197.000000 1197 95.479000 1632 2379 1 chr4D.!!$R1 747
5 TraesCS6D01G097900 chr4D 507984610 507985365 755 False 1181.000000 1181 94.974000 1629 2379 1 chr4D.!!$F1 750
6 TraesCS6D01G097900 chr4D 471149351 471150102 751 True 1170.000000 1170 94.814000 1632 2379 1 chr4D.!!$R2 747
7 TraesCS6D01G097900 chr6B 135405191 135406027 836 False 1177.000000 1177 91.734000 768 1637 1 chr6B.!!$F2 869
8 TraesCS6D01G097900 chr6B 135376997 135377902 905 False 399.000000 399 75.787000 768 1631 1 chr6B.!!$F1 863
9 TraesCS6D01G097900 chr6B 135384043 135384689 646 False 321.333333 512 92.563333 580 1610 3 chr6B.!!$F3 1030
10 TraesCS6D01G097900 chr1D 11402234 11402985 751 True 1109.000000 1109 93.351000 1632 2379 1 chr1D.!!$R1 747
11 TraesCS6D01G097900 chr1D 106289828 106290579 751 False 1003.000000 1003 90.824000 1629 2376 1 chr1D.!!$F1 747
12 TraesCS6D01G097900 chrUn 9741395 9742149 754 False 1081.000000 1081 92.593000 1629 2379 1 chrUn.!!$F1 750
13 TraesCS6D01G097900 chr6A 78843965 78847777 3812 False 352.500000 366 81.906000 768 1631 2 chr6A.!!$F1 863

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
572 573 0.034574 TGGTTGAAGCCACACACACT 60.035 50.0 0.0 0.0 32.81 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1780 5002 0.811281 GGGAAGTACTTGGCATGCAC 59.189 55.0 21.36 8.61 0.0 4.57 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
52 53 9.891828 AAAGTTTGGAAAAATGAAAAAGTTCAC 57.108 25.926 0.00 0.00 46.40 3.18
53 54 7.738345 AGTTTGGAAAAATGAAAAAGTTCACG 58.262 30.769 0.00 0.00 46.40 4.35
54 55 7.600752 AGTTTGGAAAAATGAAAAAGTTCACGA 59.399 29.630 0.00 0.00 46.40 4.35
55 56 7.891183 TTGGAAAAATGAAAAAGTTCACGAA 57.109 28.000 0.00 0.00 46.40 3.85
56 57 8.485976 TTGGAAAAATGAAAAAGTTCACGAAT 57.514 26.923 0.00 0.00 46.40 3.34
57 58 8.485976 TGGAAAAATGAAAAAGTTCACGAATT 57.514 26.923 0.00 0.00 46.40 2.17
58 59 8.940952 TGGAAAAATGAAAAAGTTCACGAATTT 58.059 25.926 0.00 0.00 46.40 1.82
59 60 9.209297 GGAAAAATGAAAAAGTTCACGAATTTG 57.791 29.630 0.00 0.00 46.40 2.32
60 61 9.965748 GAAAAATGAAAAAGTTCACGAATTTGA 57.034 25.926 0.00 0.00 46.40 2.69
61 62 9.971744 AAAAATGAAAAAGTTCACGAATTTGAG 57.028 25.926 0.00 0.00 46.40 3.02
62 63 8.925161 AAATGAAAAAGTTCACGAATTTGAGA 57.075 26.923 0.00 0.00 46.40 3.27
63 64 8.925161 AATGAAAAAGTTCACGAATTTGAGAA 57.075 26.923 0.00 0.09 46.40 2.87
64 65 8.925161 ATGAAAAAGTTCACGAATTTGAGAAA 57.075 26.923 7.08 0.00 46.40 2.52
65 66 8.749841 TGAAAAAGTTCACGAATTTGAGAAAA 57.250 26.923 7.08 0.00 38.88 2.29
66 67 9.197694 TGAAAAAGTTCACGAATTTGAGAAAAA 57.802 25.926 7.08 0.00 38.88 1.94
93 94 9.820725 AATCATGAATTTGAAAAACTTCACAGA 57.179 25.926 0.00 0.00 31.00 3.41
94 95 9.991906 ATCATGAATTTGAAAAACTTCACAGAT 57.008 25.926 0.00 1.08 31.00 2.90
95 96 9.467258 TCATGAATTTGAAAAACTTCACAGATC 57.533 29.630 0.00 0.00 31.00 2.75
96 97 9.472361 CATGAATTTGAAAAACTTCACAGATCT 57.528 29.630 0.00 0.00 31.00 2.75
97 98 8.861033 TGAATTTGAAAAACTTCACAGATCTG 57.139 30.769 21.37 21.37 0.00 2.90
98 99 8.685427 TGAATTTGAAAAACTTCACAGATCTGA 58.315 29.630 29.27 5.01 0.00 3.27
99 100 9.520204 GAATTTGAAAAACTTCACAGATCTGAA 57.480 29.630 29.27 13.01 0.00 3.02
100 101 9.874205 AATTTGAAAAACTTCACAGATCTGAAA 57.126 25.926 29.27 19.48 29.66 2.69
101 102 9.874205 ATTTGAAAAACTTCACAGATCTGAAAA 57.126 25.926 29.27 19.15 29.66 2.29
102 103 9.703892 TTTGAAAAACTTCACAGATCTGAAAAA 57.296 25.926 29.27 16.90 29.66 1.94
145 146 9.657419 AAGACAAATCATGAAAGTTGAAAAAGT 57.343 25.926 18.69 1.59 0.00 2.66
146 147 9.657419 AGACAAATCATGAAAGTTGAAAAAGTT 57.343 25.926 18.69 0.00 0.00 2.66
147 148 9.906111 GACAAATCATGAAAGTTGAAAAAGTTC 57.094 29.630 18.69 5.54 0.00 3.01
148 149 9.434420 ACAAATCATGAAAGTTGAAAAAGTTCA 57.566 25.926 18.69 0.00 42.12 3.18
205 206 9.874205 AAAAAGTTCAGAGTTCATGAAAAATGA 57.126 25.926 10.35 11.15 38.34 2.57
206 207 9.874205 AAAAGTTCAGAGTTCATGAAAAATGAA 57.126 25.926 19.02 19.02 38.34 2.57
207 208 9.874205 AAAGTTCAGAGTTCATGAAAAATGAAA 57.126 25.926 22.22 8.40 39.43 2.69
208 209 9.874205 AAGTTCAGAGTTCATGAAAAATGAAAA 57.126 25.926 22.22 7.99 39.43 2.29
209 210 9.874205 AGTTCAGAGTTCATGAAAAATGAAAAA 57.126 25.926 22.22 7.48 39.43 1.94
232 233 9.599866 AAAAAGTTCATAGGTTGAAAGAAAAGG 57.400 29.630 0.00 0.00 45.71 3.11
233 234 7.898014 AAGTTCATAGGTTGAAAGAAAAGGT 57.102 32.000 0.00 0.00 45.71 3.50
234 235 7.511959 AGTTCATAGGTTGAAAGAAAAGGTC 57.488 36.000 0.00 0.00 45.71 3.85
235 236 7.060421 AGTTCATAGGTTGAAAGAAAAGGTCA 58.940 34.615 0.00 0.00 45.71 4.02
236 237 7.725844 AGTTCATAGGTTGAAAGAAAAGGTCAT 59.274 33.333 0.00 0.00 45.71 3.06
237 238 7.452880 TCATAGGTTGAAAGAAAAGGTCATG 57.547 36.000 0.00 0.00 0.00 3.07
238 239 7.230747 TCATAGGTTGAAAGAAAAGGTCATGA 58.769 34.615 0.00 0.00 0.00 3.07
239 240 7.723616 TCATAGGTTGAAAGAAAAGGTCATGAA 59.276 33.333 0.00 0.00 0.00 2.57
240 241 6.983906 AGGTTGAAAGAAAAGGTCATGAAT 57.016 33.333 0.00 0.00 0.00 2.57
241 242 7.365497 AGGTTGAAAGAAAAGGTCATGAATT 57.635 32.000 0.00 0.00 0.00 2.17
242 243 7.795047 AGGTTGAAAGAAAAGGTCATGAATTT 58.205 30.769 0.00 0.00 0.00 1.82
243 244 7.712205 AGGTTGAAAGAAAAGGTCATGAATTTG 59.288 33.333 0.00 0.00 0.00 2.32
244 245 7.710475 GGTTGAAAGAAAAGGTCATGAATTTGA 59.290 33.333 0.00 0.00 0.00 2.69
245 246 9.097257 GTTGAAAGAAAAGGTCATGAATTTGAA 57.903 29.630 0.00 0.00 0.00 2.69
246 247 9.664332 TTGAAAGAAAAGGTCATGAATTTGAAA 57.336 25.926 0.00 0.00 0.00 2.69
247 248 9.664332 TGAAAGAAAAGGTCATGAATTTGAAAA 57.336 25.926 0.00 0.00 0.00 2.29
279 280 9.709495 TGGAAGATTTTGTAAAAGAAATCATGG 57.291 29.630 10.37 0.00 42.12 3.66
280 281 9.927668 GGAAGATTTTGTAAAAGAAATCATGGA 57.072 29.630 10.37 0.00 42.12 3.41
312 313 8.672214 AAAACATGCAATTTGAAAAAGTTCAC 57.328 26.923 0.00 0.00 43.52 3.18
313 314 6.035070 ACATGCAATTTGAAAAAGTTCACG 57.965 33.333 0.00 0.00 43.52 4.35
314 315 5.006552 ACATGCAATTTGAAAAAGTTCACGG 59.993 36.000 0.00 0.00 43.52 4.94
315 316 4.748892 TGCAATTTGAAAAAGTTCACGGA 58.251 34.783 0.00 0.00 43.52 4.69
316 317 5.355596 TGCAATTTGAAAAAGTTCACGGAT 58.644 33.333 0.00 0.00 43.52 4.18
317 318 5.814705 TGCAATTTGAAAAAGTTCACGGATT 59.185 32.000 0.00 0.00 43.52 3.01
318 319 6.019156 TGCAATTTGAAAAAGTTCACGGATTC 60.019 34.615 0.00 0.00 43.52 2.52
319 320 6.019156 GCAATTTGAAAAAGTTCACGGATTCA 60.019 34.615 0.00 0.00 43.52 2.57
320 321 7.465245 GCAATTTGAAAAAGTTCACGGATTCAA 60.465 33.333 0.00 0.00 43.52 2.69
321 322 8.386606 CAATTTGAAAAAGTTCACGGATTCAAA 58.613 29.630 12.21 12.21 43.52 2.69
322 323 7.891183 TTTGAAAAAGTTCACGGATTCAAAA 57.109 28.000 8.53 0.00 43.52 2.44
323 324 7.891183 TTGAAAAAGTTCACGGATTCAAAAA 57.109 28.000 0.00 0.00 43.52 1.94
367 368 7.899178 AAAGTCAACTGGTTTTGTTTAAAGG 57.101 32.000 0.00 0.00 0.00 3.11
368 369 6.599356 AGTCAACTGGTTTTGTTTAAAGGT 57.401 33.333 0.00 0.00 0.00 3.50
369 370 6.999950 AGTCAACTGGTTTTGTTTAAAGGTT 58.000 32.000 0.00 0.00 0.00 3.50
370 371 8.124808 AGTCAACTGGTTTTGTTTAAAGGTTA 57.875 30.769 0.00 0.00 0.00 2.85
371 372 8.586744 AGTCAACTGGTTTTGTTTAAAGGTTAA 58.413 29.630 0.00 0.00 0.00 2.01
372 373 8.649841 GTCAACTGGTTTTGTTTAAAGGTTAAC 58.350 33.333 0.00 0.00 0.00 2.01
373 374 8.365647 TCAACTGGTTTTGTTTAAAGGTTAACA 58.634 29.630 8.10 0.00 32.76 2.41
374 375 8.989980 CAACTGGTTTTGTTTAAAGGTTAACAA 58.010 29.630 8.10 0.00 41.16 2.83
375 376 9.557061 AACTGGTTTTGTTTAAAGGTTAACAAA 57.443 25.926 8.10 8.56 46.61 2.83
511 512 7.680442 AATGTACAAAACCAATTTAATGGGC 57.320 32.000 0.00 0.00 45.18 5.36
512 513 5.230942 TGTACAAAACCAATTTAATGGGCG 58.769 37.500 0.00 0.00 45.18 6.13
513 514 3.070748 ACAAAACCAATTTAATGGGCGC 58.929 40.909 0.00 0.00 45.18 6.53
514 515 3.070018 CAAAACCAATTTAATGGGCGCA 58.930 40.909 10.83 5.70 45.18 6.09
515 516 3.625649 AAACCAATTTAATGGGCGCAT 57.374 38.095 11.00 11.00 45.18 4.73
516 517 4.744795 AAACCAATTTAATGGGCGCATA 57.255 36.364 17.51 1.50 45.18 3.14
517 518 4.744795 AACCAATTTAATGGGCGCATAA 57.255 36.364 17.51 9.03 45.18 1.90
518 519 4.320608 ACCAATTTAATGGGCGCATAAG 57.679 40.909 17.51 3.75 45.18 1.73
519 520 3.069443 ACCAATTTAATGGGCGCATAAGG 59.931 43.478 17.51 13.84 45.18 2.69
520 521 3.059166 CAATTTAATGGGCGCATAAGGC 58.941 45.455 17.51 0.00 39.90 4.35
531 532 1.604604 GCATAAGGCGCCAATTAGGA 58.395 50.000 31.54 5.22 41.22 2.94
532 533 2.162681 GCATAAGGCGCCAATTAGGAT 58.837 47.619 31.54 0.76 41.22 3.24
533 534 2.558359 GCATAAGGCGCCAATTAGGATT 59.442 45.455 31.54 14.07 41.22 3.01
534 535 3.005791 GCATAAGGCGCCAATTAGGATTT 59.994 43.478 31.54 13.27 41.22 2.17
535 536 4.549458 CATAAGGCGCCAATTAGGATTTG 58.451 43.478 31.54 10.10 41.22 2.32
536 537 1.402787 AGGCGCCAATTAGGATTTGG 58.597 50.000 31.54 0.00 41.22 3.28
537 538 1.111277 GGCGCCAATTAGGATTTGGT 58.889 50.000 24.80 0.00 41.22 3.67
538 539 1.480545 GGCGCCAATTAGGATTTGGTT 59.519 47.619 24.80 0.00 41.22 3.67
539 540 2.481276 GGCGCCAATTAGGATTTGGTTC 60.481 50.000 24.80 0.00 41.22 3.62
540 541 2.427095 GCGCCAATTAGGATTTGGTTCT 59.573 45.455 0.00 0.00 41.22 3.01
541 542 3.630312 GCGCCAATTAGGATTTGGTTCTA 59.370 43.478 0.00 0.00 41.22 2.10
542 543 4.097286 GCGCCAATTAGGATTTGGTTCTAA 59.903 41.667 0.00 0.00 41.22 2.10
543 544 5.221244 GCGCCAATTAGGATTTGGTTCTAAT 60.221 40.000 0.00 0.00 41.22 1.73
544 545 6.438763 CGCCAATTAGGATTTGGTTCTAATC 58.561 40.000 4.53 0.00 41.22 1.75
551 552 5.048846 GGATTTGGTTCTAATCCTAGCCA 57.951 43.478 11.81 0.00 44.95 4.75
552 553 5.635120 GGATTTGGTTCTAATCCTAGCCAT 58.365 41.667 11.81 0.00 44.95 4.40
553 554 6.071320 GGATTTGGTTCTAATCCTAGCCATT 58.929 40.000 11.81 0.00 44.95 3.16
554 555 6.015940 GGATTTGGTTCTAATCCTAGCCATTG 60.016 42.308 11.81 0.00 44.95 2.82
555 556 4.437682 TGGTTCTAATCCTAGCCATTGG 57.562 45.455 0.00 0.00 0.00 3.16
556 557 3.785887 TGGTTCTAATCCTAGCCATTGGT 59.214 43.478 4.26 0.00 0.00 3.67
557 558 4.229582 TGGTTCTAATCCTAGCCATTGGTT 59.770 41.667 4.26 0.04 0.00 3.67
558 559 4.580580 GGTTCTAATCCTAGCCATTGGTTG 59.419 45.833 4.26 0.00 0.00 3.77
559 560 5.437060 GTTCTAATCCTAGCCATTGGTTGA 58.563 41.667 4.26 0.00 0.00 3.18
560 561 5.708736 TCTAATCCTAGCCATTGGTTGAA 57.291 39.130 4.26 0.00 0.00 2.69
561 562 5.684704 TCTAATCCTAGCCATTGGTTGAAG 58.315 41.667 4.26 0.00 0.00 3.02
562 563 2.128771 TCCTAGCCATTGGTTGAAGC 57.871 50.000 4.26 0.00 0.00 3.86
563 564 1.106285 CCTAGCCATTGGTTGAAGCC 58.894 55.000 4.26 0.00 0.00 4.35
564 565 1.616725 CCTAGCCATTGGTTGAAGCCA 60.617 52.381 4.26 0.00 36.62 4.75
565 566 1.474077 CTAGCCATTGGTTGAAGCCAC 59.526 52.381 4.26 0.00 38.42 5.01
566 567 0.469705 AGCCATTGGTTGAAGCCACA 60.470 50.000 4.26 0.00 38.42 4.17
567 568 0.319813 GCCATTGGTTGAAGCCACAC 60.320 55.000 4.26 0.00 38.42 3.82
568 569 1.039068 CCATTGGTTGAAGCCACACA 58.961 50.000 0.00 0.00 38.42 3.72
569 570 1.269726 CCATTGGTTGAAGCCACACAC 60.270 52.381 0.00 0.00 38.42 3.82
570 571 1.408340 CATTGGTTGAAGCCACACACA 59.592 47.619 0.00 0.00 38.42 3.72
571 572 0.814457 TTGGTTGAAGCCACACACAC 59.186 50.000 0.00 0.00 38.42 3.82
572 573 0.034574 TGGTTGAAGCCACACACACT 60.035 50.000 0.00 0.00 32.81 3.55
573 574 0.381801 GGTTGAAGCCACACACACTG 59.618 55.000 0.00 0.00 0.00 3.66
574 575 1.094785 GTTGAAGCCACACACACTGT 58.905 50.000 0.00 0.00 0.00 3.55
575 576 1.472480 GTTGAAGCCACACACACTGTT 59.528 47.619 0.00 0.00 0.00 3.16
576 577 1.832883 TGAAGCCACACACACTGTTT 58.167 45.000 0.00 0.00 0.00 2.83
577 578 1.472082 TGAAGCCACACACACTGTTTG 59.528 47.619 0.00 0.00 0.00 2.93
578 579 0.173255 AAGCCACACACACTGTTTGC 59.827 50.000 0.00 0.00 27.29 3.68
582 583 1.064505 CCACACACACTGTTTGCAGAG 59.935 52.381 1.30 0.00 45.28 3.35
616 617 0.469705 AGCCATTGGTTGAAGCCACA 60.470 50.000 4.26 0.00 38.42 4.17
629 630 0.964860 AGCCACACACACTGTTTGCA 60.965 50.000 0.00 0.00 32.58 4.08
653 654 3.264897 CTGAAGCGAATCGGCCGG 61.265 66.667 27.83 10.44 0.00 6.13
662 663 1.009829 GAATCGGCCGGATGATATGC 58.990 55.000 27.83 4.64 34.93 3.14
709 710 9.052759 GCATTCTCTTTCTTTTATACCGGAATA 57.947 33.333 9.46 0.00 0.00 1.75
727 728 6.348458 CCGGAATAAATTGTCGTATCATGCAT 60.348 38.462 0.00 0.00 0.00 3.96
739 740 6.089417 GTCGTATCATGCATGATATCAACGAA 59.911 38.462 39.96 29.50 46.80 3.85
740 741 7.877281 GTCGTATCATGCATGATATCAACGAAC 60.877 40.741 39.96 32.78 46.80 3.95
742 743 6.812879 ATCATGCATGATATCAACGAACAT 57.187 33.333 35.28 12.08 45.17 2.71
743 744 6.622833 TCATGCATGATATCAACGAACATT 57.377 33.333 25.42 0.00 0.00 2.71
744 745 7.727331 TCATGCATGATATCAACGAACATTA 57.273 32.000 25.42 0.00 0.00 1.90
745 746 8.152309 TCATGCATGATATCAACGAACATTAA 57.848 30.769 25.42 0.00 0.00 1.40
746 747 8.785946 TCATGCATGATATCAACGAACATTAAT 58.214 29.630 25.42 0.00 0.00 1.40
747 748 8.846607 CATGCATGATATCAACGAACATTAATG 58.153 33.333 22.59 14.01 0.00 1.90
748 749 6.857451 TGCATGATATCAACGAACATTAATGC 59.143 34.615 15.48 10.57 0.00 3.56
749 750 6.857451 GCATGATATCAACGAACATTAATGCA 59.143 34.615 15.48 0.00 0.00 3.96
750 751 7.539710 GCATGATATCAACGAACATTAATGCAT 59.460 33.333 15.48 4.72 0.00 3.96
751 752 9.401873 CATGATATCAACGAACATTAATGCATT 57.598 29.630 17.56 17.56 0.00 3.56
752 753 9.970395 ATGATATCAACGAACATTAATGCATTT 57.030 25.926 18.75 0.00 0.00 2.32
753 754 9.800433 TGATATCAACGAACATTAATGCATTTT 57.200 25.926 18.75 5.44 0.00 1.82
755 756 6.609907 TCAACGAACATTAATGCATTTTCG 57.390 33.333 29.02 29.02 38.05 3.46
756 757 5.060323 TCAACGAACATTAATGCATTTTCGC 59.940 36.000 29.92 12.62 36.58 4.70
758 759 4.920340 ACGAACATTAATGCATTTTCGCAA 59.080 33.333 29.92 16.00 46.87 4.85
759 760 5.164100 ACGAACATTAATGCATTTTCGCAAC 60.164 36.000 29.92 13.56 46.87 4.17
760 761 5.164109 CGAACATTAATGCATTTTCGCAACA 60.164 36.000 23.41 1.26 46.87 3.33
761 762 6.536731 AACATTAATGCATTTTCGCAACAA 57.463 29.167 18.75 3.23 46.87 2.83
762 763 6.536731 ACATTAATGCATTTTCGCAACAAA 57.463 29.167 18.75 2.45 46.87 2.83
763 764 6.952743 ACATTAATGCATTTTCGCAACAAAA 58.047 28.000 18.75 1.67 46.87 2.44
764 765 7.412853 ACATTAATGCATTTTCGCAACAAAAA 58.587 26.923 18.75 1.12 46.87 1.94
807 809 7.867305 TTTTACAATGGGCACTAATCGATTA 57.133 32.000 16.69 16.69 0.00 1.75
813 815 4.578871 TGGGCACTAATCGATTATCCATG 58.421 43.478 17.84 14.06 0.00 3.66
821 823 8.509690 CACTAATCGATTATCCATGAATTGCTT 58.490 33.333 17.84 0.00 0.00 3.91
902 909 3.670203 CGTGAAACATTACTTCCATCGC 58.330 45.455 0.00 0.00 35.74 4.58
959 972 8.344098 CACTAGCTAACTACAGTACTTATCACC 58.656 40.741 0.00 0.00 0.00 4.02
973 986 9.847224 AGTACTTATCACCAAGAAAAGAAGAAA 57.153 29.630 0.00 0.00 0.00 2.52
1010 1023 2.566724 GCTAGCTTCTCATGGCTCCTAT 59.433 50.000 7.70 0.00 39.65 2.57
1110 1129 8.540388 TCAGGTATACATGCTTCTTAGTTTCTT 58.460 33.333 12.62 0.00 0.00 2.52
1150 4369 4.669206 TTCATGCACACACTTTTGGATT 57.331 36.364 0.00 0.00 0.00 3.01
1179 4399 1.771565 ATTACCCTGTCGATCGACCA 58.228 50.000 37.58 26.09 43.97 4.02
1190 4410 1.756375 GATCGACCATGTGCGCTGAC 61.756 60.000 9.73 0.00 0.00 3.51
1214 4434 5.295292 CCTGCTTCATTGTTCATAGGTACAG 59.705 44.000 0.00 0.00 0.00 2.74
1256 4476 2.167861 GTAGCCGAGAAAGCCTGCG 61.168 63.158 0.00 0.00 0.00 5.18
1391 4611 4.671766 GCCAAAAGTAATACAAGCCGTCAG 60.672 45.833 0.00 0.00 0.00 3.51
1436 4656 6.064060 TGGATGGAGATGATATGTTTTGTCC 58.936 40.000 0.00 0.00 0.00 4.02
1472 4692 1.713647 TGGGCAGTGAAAGGGGAATAA 59.286 47.619 0.00 0.00 0.00 1.40
1484 4704 8.424133 GTGAAAGGGGAATAATTTTCTATGCAT 58.576 33.333 3.79 3.79 32.28 3.96
1497 4717 3.415212 TCTATGCATGCTGGGATTTAGC 58.585 45.455 20.33 0.00 41.49 3.09
1591 4811 3.329814 TGTTTTTCCTACCCTTCCTCTCC 59.670 47.826 0.00 0.00 0.00 3.71
1644 4864 1.555967 ACCACCCAAATACCACATGC 58.444 50.000 0.00 0.00 0.00 4.06
1655 4875 1.194218 ACCACATGCTTAAATGGGCC 58.806 50.000 0.00 0.00 36.47 5.80
1664 4884 3.554696 TAAATGGGCCGCGGTGTGT 62.555 57.895 28.70 8.29 0.00 3.72
1680 4900 0.391597 GTGTCGTCCCAAAGACCTGA 59.608 55.000 0.00 0.00 43.08 3.86
1780 5002 2.282462 GCCTGTGGGTTGACCTGG 60.282 66.667 0.00 0.00 41.11 4.45
1784 5006 2.194597 GTGGGTTGACCTGGTGCA 59.805 61.111 2.82 0.00 41.11 4.57
1804 5026 0.759959 TGCCAAGTACTTCCCGAACA 59.240 50.000 4.77 0.00 0.00 3.18
1855 5078 4.891992 TCTCCTTTCTGGAACGATCTTT 57.108 40.909 0.00 0.00 45.63 2.52
2078 5302 2.104281 AGTTAACGGGAGCAGAACAAGT 59.896 45.455 0.00 0.00 0.00 3.16
2292 5520 5.968528 TTTTGGCAACTGTTCCGTAATAT 57.031 34.783 0.00 0.00 37.61 1.28
2348 5577 3.740397 CGTCGACCGGCCTGTGTA 61.740 66.667 10.58 0.00 0.00 2.90
2362 5591 4.107622 GCCTGTGTACGATATGTAACGTT 58.892 43.478 5.88 5.88 42.61 3.99
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 9.891828 GTGAACTTTTTCATTTTTCCAAACTTT 57.108 25.926 0.00 0.00 43.72 2.66
27 28 8.227119 CGTGAACTTTTTCATTTTTCCAAACTT 58.773 29.630 0.00 0.00 43.72 2.66
28 29 7.600752 TCGTGAACTTTTTCATTTTTCCAAACT 59.399 29.630 0.00 0.00 43.72 2.66
29 30 7.734554 TCGTGAACTTTTTCATTTTTCCAAAC 58.265 30.769 0.00 0.00 43.72 2.93
30 31 7.891183 TCGTGAACTTTTTCATTTTTCCAAA 57.109 28.000 0.00 0.00 43.72 3.28
31 32 7.891183 TTCGTGAACTTTTTCATTTTTCCAA 57.109 28.000 0.00 0.00 43.72 3.53
32 33 8.485976 AATTCGTGAACTTTTTCATTTTTCCA 57.514 26.923 0.00 0.00 43.72 3.53
33 34 9.209297 CAAATTCGTGAACTTTTTCATTTTTCC 57.791 29.630 0.00 0.00 43.72 3.13
34 35 9.965748 TCAAATTCGTGAACTTTTTCATTTTTC 57.034 25.926 0.00 0.00 43.72 2.29
35 36 9.971744 CTCAAATTCGTGAACTTTTTCATTTTT 57.028 25.926 0.00 0.00 43.72 1.94
36 37 9.364989 TCTCAAATTCGTGAACTTTTTCATTTT 57.635 25.926 0.00 0.00 43.72 1.82
37 38 8.925161 TCTCAAATTCGTGAACTTTTTCATTT 57.075 26.923 0.00 0.00 43.72 2.32
38 39 8.925161 TTCTCAAATTCGTGAACTTTTTCATT 57.075 26.923 0.00 0.00 43.72 2.57
39 40 8.925161 TTTCTCAAATTCGTGAACTTTTTCAT 57.075 26.923 0.00 0.00 43.72 2.57
40 41 8.749841 TTTTCTCAAATTCGTGAACTTTTTCA 57.250 26.923 0.00 0.00 39.55 2.69
67 68 9.820725 TCTGTGAAGTTTTTCAAATTCATGATT 57.179 25.926 0.00 0.00 45.90 2.57
68 69 9.991906 ATCTGTGAAGTTTTTCAAATTCATGAT 57.008 25.926 0.00 6.14 45.90 2.45
69 70 9.467258 GATCTGTGAAGTTTTTCAAATTCATGA 57.533 29.630 0.00 0.00 45.90 3.07
70 71 9.472361 AGATCTGTGAAGTTTTTCAAATTCATG 57.528 29.630 0.00 0.00 45.90 3.07
71 72 9.472361 CAGATCTGTGAAGTTTTTCAAATTCAT 57.528 29.630 14.95 0.00 45.90 2.57
72 73 8.685427 TCAGATCTGTGAAGTTTTTCAAATTCA 58.315 29.630 21.92 0.00 44.49 2.57
73 74 9.520204 TTCAGATCTGTGAAGTTTTTCAAATTC 57.480 29.630 21.92 0.00 44.49 2.17
74 75 9.874205 TTTCAGATCTGTGAAGTTTTTCAAATT 57.126 25.926 21.92 0.00 44.49 1.82
75 76 9.874205 TTTTCAGATCTGTGAAGTTTTTCAAAT 57.126 25.926 21.92 0.00 44.49 2.32
76 77 9.703892 TTTTTCAGATCTGTGAAGTTTTTCAAA 57.296 25.926 21.92 7.97 44.49 2.69
119 120 9.657419 ACTTTTTCAACTTTCATGATTTGTCTT 57.343 25.926 0.00 0.00 0.00 3.01
120 121 9.657419 AACTTTTTCAACTTTCATGATTTGTCT 57.343 25.926 0.00 0.00 0.00 3.41
121 122 9.906111 GAACTTTTTCAACTTTCATGATTTGTC 57.094 29.630 0.00 0.00 0.00 3.18
122 123 9.434420 TGAACTTTTTCAACTTTCATGATTTGT 57.566 25.926 0.00 0.00 38.87 2.83
125 126 9.874205 TCTTGAACTTTTTCAACTTTCATGATT 57.126 25.926 0.00 0.00 45.08 2.57
126 127 9.874205 TTCTTGAACTTTTTCAACTTTCATGAT 57.126 25.926 0.00 0.00 45.08 2.45
127 128 9.703892 TTTCTTGAACTTTTTCAACTTTCATGA 57.296 25.926 0.00 0.00 45.08 3.07
179 180 9.874205 TCATTTTTCATGAACTCTGAACTTTTT 57.126 25.926 7.89 0.00 32.57 1.94
180 181 9.874205 TTCATTTTTCATGAACTCTGAACTTTT 57.126 25.926 7.89 0.00 33.55 2.27
181 182 9.874205 TTTCATTTTTCATGAACTCTGAACTTT 57.126 25.926 18.36 0.00 37.71 2.66
182 183 9.874205 TTTTCATTTTTCATGAACTCTGAACTT 57.126 25.926 18.36 0.00 37.71 2.66
183 184 9.874205 TTTTTCATTTTTCATGAACTCTGAACT 57.126 25.926 18.36 1.20 37.71 3.01
212 213 7.723616 TCATGACCTTTTCTTTCAACCTATGAA 59.276 33.333 0.00 0.00 46.22 2.57
213 214 7.230747 TCATGACCTTTTCTTTCAACCTATGA 58.769 34.615 0.00 0.00 35.85 2.15
214 215 7.452880 TCATGACCTTTTCTTTCAACCTATG 57.547 36.000 0.00 0.00 0.00 2.23
215 216 8.655935 ATTCATGACCTTTTCTTTCAACCTAT 57.344 30.769 0.00 0.00 0.00 2.57
216 217 8.477419 AATTCATGACCTTTTCTTTCAACCTA 57.523 30.769 0.00 0.00 0.00 3.08
217 218 6.983906 ATTCATGACCTTTTCTTTCAACCT 57.016 33.333 0.00 0.00 0.00 3.50
218 219 7.710475 TCAAATTCATGACCTTTTCTTTCAACC 59.290 33.333 0.00 0.00 0.00 3.77
219 220 8.647143 TCAAATTCATGACCTTTTCTTTCAAC 57.353 30.769 0.00 0.00 0.00 3.18
220 221 9.664332 TTTCAAATTCATGACCTTTTCTTTCAA 57.336 25.926 0.00 0.00 0.00 2.69
221 222 9.664332 TTTTCAAATTCATGACCTTTTCTTTCA 57.336 25.926 0.00 0.00 0.00 2.69
253 254 9.709495 CCATGATTTCTTTTACAAAATCTTCCA 57.291 29.630 0.00 0.00 40.77 3.53
254 255 9.927668 TCCATGATTTCTTTTACAAAATCTTCC 57.072 29.630 0.00 0.00 40.77 3.46
286 287 9.127006 GTGAACTTTTTCAAATTGCATGTTTTT 57.873 25.926 0.00 0.00 43.52 1.94
287 288 7.481169 CGTGAACTTTTTCAAATTGCATGTTTT 59.519 29.630 0.00 0.00 43.52 2.43
288 289 6.960431 CGTGAACTTTTTCAAATTGCATGTTT 59.040 30.769 0.00 0.00 43.52 2.83
289 290 6.456718 CCGTGAACTTTTTCAAATTGCATGTT 60.457 34.615 0.00 0.00 43.52 2.71
290 291 5.006552 CCGTGAACTTTTTCAAATTGCATGT 59.993 36.000 0.00 0.00 43.52 3.21
291 292 5.233902 TCCGTGAACTTTTTCAAATTGCATG 59.766 36.000 0.00 0.00 43.52 4.06
292 293 5.355596 TCCGTGAACTTTTTCAAATTGCAT 58.644 33.333 0.00 0.00 43.52 3.96
293 294 4.748892 TCCGTGAACTTTTTCAAATTGCA 58.251 34.783 0.00 0.00 43.52 4.08
294 295 5.905480 ATCCGTGAACTTTTTCAAATTGC 57.095 34.783 0.00 0.00 43.52 3.56
295 296 7.462109 TGAATCCGTGAACTTTTTCAAATTG 57.538 32.000 0.00 0.00 43.52 2.32
296 297 8.485976 TTTGAATCCGTGAACTTTTTCAAATT 57.514 26.923 4.93 0.00 43.52 1.82
297 298 8.485976 TTTTGAATCCGTGAACTTTTTCAAAT 57.514 26.923 8.82 0.00 43.52 2.32
298 299 7.891183 TTTTGAATCCGTGAACTTTTTCAAA 57.109 28.000 4.93 4.93 43.52 2.69
299 300 7.891183 TTTTTGAATCCGTGAACTTTTTCAA 57.109 28.000 0.00 0.00 43.52 2.69
341 342 8.779303 CCTTTAAACAAAACCAGTTGACTTTTT 58.221 29.630 0.00 0.00 32.59 1.94
342 343 7.934665 ACCTTTAAACAAAACCAGTTGACTTTT 59.065 29.630 0.00 0.00 32.59 2.27
343 344 7.446769 ACCTTTAAACAAAACCAGTTGACTTT 58.553 30.769 0.00 0.00 32.59 2.66
344 345 6.999950 ACCTTTAAACAAAACCAGTTGACTT 58.000 32.000 0.00 0.00 32.59 3.01
345 346 6.599356 ACCTTTAAACAAAACCAGTTGACT 57.401 33.333 0.00 0.00 32.59 3.41
346 347 8.649841 GTTAACCTTTAAACAAAACCAGTTGAC 58.350 33.333 0.00 0.00 32.59 3.18
347 348 8.365647 TGTTAACCTTTAAACAAAACCAGTTGA 58.634 29.630 2.48 0.00 32.86 3.18
348 349 8.535690 TGTTAACCTTTAAACAAAACCAGTTG 57.464 30.769 2.48 0.00 32.86 3.16
349 350 9.557061 TTTGTTAACCTTTAAACAAAACCAGTT 57.443 25.926 10.08 0.00 46.82 3.16
485 486 8.572185 GCCCATTAAATTGGTTTTGTACATTTT 58.428 29.630 0.00 0.00 34.77 1.82
486 487 7.095017 CGCCCATTAAATTGGTTTTGTACATTT 60.095 33.333 0.00 0.00 34.77 2.32
487 488 6.370166 CGCCCATTAAATTGGTTTTGTACATT 59.630 34.615 0.00 0.00 34.77 2.71
488 489 5.872070 CGCCCATTAAATTGGTTTTGTACAT 59.128 36.000 0.00 0.00 34.77 2.29
489 490 5.230942 CGCCCATTAAATTGGTTTTGTACA 58.769 37.500 0.00 0.00 34.77 2.90
490 491 4.092237 GCGCCCATTAAATTGGTTTTGTAC 59.908 41.667 0.00 0.00 34.77 2.90
491 492 4.246458 GCGCCCATTAAATTGGTTTTGTA 58.754 39.130 0.00 0.00 34.77 2.41
492 493 3.070748 GCGCCCATTAAATTGGTTTTGT 58.929 40.909 0.00 0.00 34.77 2.83
493 494 3.070018 TGCGCCCATTAAATTGGTTTTG 58.930 40.909 4.18 0.00 34.77 2.44
494 495 3.409026 TGCGCCCATTAAATTGGTTTT 57.591 38.095 4.18 0.00 34.77 2.43
495 496 3.625649 ATGCGCCCATTAAATTGGTTT 57.374 38.095 4.18 0.00 34.77 3.27
496 497 4.442753 CCTTATGCGCCCATTAAATTGGTT 60.443 41.667 4.18 0.00 34.77 3.67
497 498 3.069443 CCTTATGCGCCCATTAAATTGGT 59.931 43.478 4.18 0.00 34.77 3.67
498 499 3.652274 CCTTATGCGCCCATTAAATTGG 58.348 45.455 4.18 0.00 36.46 3.16
499 500 3.059166 GCCTTATGCGCCCATTAAATTG 58.941 45.455 4.18 0.00 32.85 2.32
500 501 3.385193 GCCTTATGCGCCCATTAAATT 57.615 42.857 4.18 0.00 32.85 1.82
512 513 1.604604 TCCTAATTGGCGCCTTATGC 58.395 50.000 29.70 0.00 35.26 3.14
513 514 4.549458 CAAATCCTAATTGGCGCCTTATG 58.451 43.478 29.70 15.31 35.26 1.90
514 515 3.573967 CCAAATCCTAATTGGCGCCTTAT 59.426 43.478 29.70 18.12 40.78 1.73
515 516 2.955660 CCAAATCCTAATTGGCGCCTTA 59.044 45.455 29.70 17.62 40.78 2.69
516 517 1.756538 CCAAATCCTAATTGGCGCCTT 59.243 47.619 29.70 17.41 40.78 4.35
517 518 1.402787 CCAAATCCTAATTGGCGCCT 58.597 50.000 29.70 10.43 40.78 5.52
518 519 3.965780 CCAAATCCTAATTGGCGCC 57.034 52.632 22.73 22.73 40.78 6.53
530 531 6.015940 CCAATGGCTAGGATTAGAACCAAATC 60.016 42.308 0.00 0.00 33.44 2.17
531 532 5.835280 CCAATGGCTAGGATTAGAACCAAAT 59.165 40.000 0.00 0.00 0.00 2.32
532 533 5.200483 CCAATGGCTAGGATTAGAACCAAA 58.800 41.667 0.00 0.00 0.00 3.28
533 534 4.229582 ACCAATGGCTAGGATTAGAACCAA 59.770 41.667 0.00 0.00 0.00 3.67
534 535 3.785887 ACCAATGGCTAGGATTAGAACCA 59.214 43.478 0.00 0.00 0.00 3.67
535 536 4.439253 ACCAATGGCTAGGATTAGAACC 57.561 45.455 0.00 0.00 0.00 3.62
536 537 5.437060 TCAACCAATGGCTAGGATTAGAAC 58.563 41.667 0.00 0.00 0.00 3.01
537 538 5.708736 TCAACCAATGGCTAGGATTAGAA 57.291 39.130 0.00 0.00 0.00 2.10
538 539 5.684704 CTTCAACCAATGGCTAGGATTAGA 58.315 41.667 0.00 0.00 0.00 2.10
539 540 4.276926 GCTTCAACCAATGGCTAGGATTAG 59.723 45.833 0.00 0.00 0.00 1.73
540 541 4.207165 GCTTCAACCAATGGCTAGGATTA 58.793 43.478 0.00 0.00 0.00 1.75
541 542 3.026694 GCTTCAACCAATGGCTAGGATT 58.973 45.455 0.00 0.00 0.00 3.01
542 543 2.659428 GCTTCAACCAATGGCTAGGAT 58.341 47.619 0.00 0.00 0.00 3.24
543 544 1.340991 GGCTTCAACCAATGGCTAGGA 60.341 52.381 0.00 0.00 0.00 2.94
544 545 1.106285 GGCTTCAACCAATGGCTAGG 58.894 55.000 0.00 0.00 0.00 3.02
545 546 1.474077 GTGGCTTCAACCAATGGCTAG 59.526 52.381 0.00 0.00 42.70 3.42
546 547 1.202989 TGTGGCTTCAACCAATGGCTA 60.203 47.619 0.00 0.00 42.70 3.93
547 548 0.469705 TGTGGCTTCAACCAATGGCT 60.470 50.000 0.00 0.00 42.70 4.75
548 549 0.319813 GTGTGGCTTCAACCAATGGC 60.320 55.000 0.00 0.00 42.70 4.40
549 550 1.039068 TGTGTGGCTTCAACCAATGG 58.961 50.000 0.00 0.00 42.70 3.16
550 551 1.408340 TGTGTGTGGCTTCAACCAATG 59.592 47.619 0.00 0.00 42.70 2.82
551 552 1.408702 GTGTGTGTGGCTTCAACCAAT 59.591 47.619 0.00 0.00 42.70 3.16
552 553 0.814457 GTGTGTGTGGCTTCAACCAA 59.186 50.000 0.00 0.00 42.70 3.67
553 554 0.034574 AGTGTGTGTGGCTTCAACCA 60.035 50.000 0.00 0.00 37.38 3.67
554 555 0.381801 CAGTGTGTGTGGCTTCAACC 59.618 55.000 0.00 0.00 0.00 3.77
555 556 1.094785 ACAGTGTGTGTGGCTTCAAC 58.905 50.000 0.00 0.00 38.28 3.18
556 557 1.832883 AACAGTGTGTGTGGCTTCAA 58.167 45.000 0.00 0.00 40.26 2.69
557 558 1.472082 CAAACAGTGTGTGTGGCTTCA 59.528 47.619 5.17 0.00 40.26 3.02
558 559 1.798813 GCAAACAGTGTGTGTGGCTTC 60.799 52.381 14.94 0.00 40.26 3.86
559 560 0.173255 GCAAACAGTGTGTGTGGCTT 59.827 50.000 14.94 0.00 40.26 4.35
560 561 0.964860 TGCAAACAGTGTGTGTGGCT 60.965 50.000 14.94 0.00 40.26 4.75
561 562 0.526096 CTGCAAACAGTGTGTGTGGC 60.526 55.000 14.94 0.47 40.26 5.01
562 563 1.064505 CTCTGCAAACAGTGTGTGTGG 59.935 52.381 14.94 8.11 44.77 4.17
563 564 1.739466 ACTCTGCAAACAGTGTGTGTG 59.261 47.619 14.94 8.47 46.17 3.82
564 565 2.113860 ACTCTGCAAACAGTGTGTGT 57.886 45.000 14.94 0.00 46.17 3.72
565 566 2.478370 CCAACTCTGCAAACAGTGTGTG 60.478 50.000 9.25 9.25 46.99 3.82
566 567 1.745087 CCAACTCTGCAAACAGTGTGT 59.255 47.619 0.00 0.00 46.99 3.72
567 568 1.745087 ACCAACTCTGCAAACAGTGTG 59.255 47.619 0.00 0.00 46.99 3.82
569 570 2.164219 ACAACCAACTCTGCAAACAGTG 59.836 45.455 0.00 0.00 44.77 3.66
570 571 2.446435 ACAACCAACTCTGCAAACAGT 58.554 42.857 0.00 0.00 44.77 3.55
571 572 4.630894 TTACAACCAACTCTGCAAACAG 57.369 40.909 0.00 0.00 45.95 3.16
572 573 4.037446 GGATTACAACCAACTCTGCAAACA 59.963 41.667 0.00 0.00 0.00 2.83
573 574 4.278419 AGGATTACAACCAACTCTGCAAAC 59.722 41.667 0.00 0.00 0.00 2.93
574 575 4.469657 AGGATTACAACCAACTCTGCAAA 58.530 39.130 0.00 0.00 0.00 3.68
575 576 4.098914 AGGATTACAACCAACTCTGCAA 57.901 40.909 0.00 0.00 0.00 4.08
576 577 3.788227 AGGATTACAACCAACTCTGCA 57.212 42.857 0.00 0.00 0.00 4.41
577 578 3.623510 GCTAGGATTACAACCAACTCTGC 59.376 47.826 0.00 0.00 0.00 4.26
578 579 4.192317 GGCTAGGATTACAACCAACTCTG 58.808 47.826 0.00 0.00 0.00 3.35
582 583 4.097892 CCAATGGCTAGGATTACAACCAAC 59.902 45.833 0.00 0.00 0.00 3.77
616 617 0.466189 CCCCTCTGCAAACAGTGTGT 60.466 55.000 0.00 0.00 44.77 3.72
629 630 1.524482 GATTCGCTTCAGCCCCTCT 59.476 57.895 0.00 0.00 37.91 3.69
680 681 7.392113 TCCGGTATAAAAGAAAGAGAATGCAAA 59.608 33.333 0.00 0.00 0.00 3.68
681 682 6.882140 TCCGGTATAAAAGAAAGAGAATGCAA 59.118 34.615 0.00 0.00 0.00 4.08
727 728 9.800433 AAAATGCATTAATGTTCGTTGATATCA 57.200 25.926 13.39 0.00 0.00 2.15
736 737 5.164109 TGTTGCGAAAATGCATTAATGTTCG 60.164 36.000 27.60 27.60 45.78 3.95
737 738 6.150738 TGTTGCGAAAATGCATTAATGTTC 57.849 33.333 13.39 11.53 45.78 3.18
738 739 6.536731 TTGTTGCGAAAATGCATTAATGTT 57.463 29.167 13.39 2.74 45.78 2.71
739 740 6.536731 TTTGTTGCGAAAATGCATTAATGT 57.463 29.167 13.39 0.00 45.78 2.71
740 741 7.833284 TTTTTGTTGCGAAAATGCATTAATG 57.167 28.000 13.39 11.27 45.78 1.90
807 809 6.151648 CCGGTATCAATAAGCAATTCATGGAT 59.848 38.462 0.00 0.00 0.00 3.41
813 815 9.959749 TTTAATTCCGGTATCAATAAGCAATTC 57.040 29.630 0.00 0.00 0.00 2.17
821 823 9.713713 TGAATCGATTTAATTCCGGTATCAATA 57.286 29.630 12.81 0.00 33.13 1.90
882 889 4.946784 AGCGATGGAAGTAATGTTTCAC 57.053 40.909 0.00 0.00 0.00 3.18
954 967 6.877236 TGCTTTTTCTTCTTTTCTTGGTGAT 58.123 32.000 0.00 0.00 0.00 3.06
990 1003 3.119531 CGATAGGAGCCATGAGAAGCTAG 60.120 52.174 0.00 0.00 40.11 3.42
1010 1023 1.588082 GCCCGAGTGTTACTTCCGA 59.412 57.895 0.00 0.00 0.00 4.55
1110 1129 7.281999 TGCATGAAAGTGGAAATCGATATACAA 59.718 33.333 0.00 0.00 0.00 2.41
1169 4389 2.582226 GCGCACATGGTCGATCGA 60.582 61.111 15.15 15.15 0.00 3.59
1170 4390 2.583319 AGCGCACATGGTCGATCG 60.583 61.111 11.47 9.36 0.00 3.69
1179 4399 2.033141 AAGCAGGTCAGCGCACAT 59.967 55.556 11.47 0.00 40.15 3.21
1190 4410 5.185454 TGTACCTATGAACAATGAAGCAGG 58.815 41.667 0.00 0.00 0.00 4.85
1214 4434 2.358737 CTTCGTCCACCCACCTGC 60.359 66.667 0.00 0.00 0.00 4.85
1391 4611 7.645058 TCCAAATTAAATGGATCCTTCAGAC 57.355 36.000 14.23 0.00 41.98 3.51
1436 4656 2.622942 TGCCCAAAACTTTCTAGCACAG 59.377 45.455 0.00 0.00 0.00 3.66
1472 4692 5.881923 AAATCCCAGCATGCATAGAAAAT 57.118 34.783 21.98 0.82 31.97 1.82
1484 4704 1.064537 TGCATGAGCTAAATCCCAGCA 60.065 47.619 0.00 0.00 41.66 4.41
1591 4811 4.376340 AAGGACTGTTTGTTGCTCTTTG 57.624 40.909 0.00 0.00 0.00 2.77
1644 4864 2.043980 ACACCGCGGCCCATTTAAG 61.044 57.895 28.58 6.34 0.00 1.85
1655 4875 4.953868 TTGGGACGACACACCGCG 62.954 66.667 0.00 0.00 0.00 6.46
1664 4884 1.257743 CTCTCAGGTCTTTGGGACGA 58.742 55.000 0.00 0.00 45.35 4.20
1680 4900 4.902448 GGTATTTGTGATCCCTAGACCTCT 59.098 45.833 0.00 0.00 0.00 3.69
1764 4986 1.228245 CACCAGGTCAACCCACAGG 60.228 63.158 0.00 0.00 36.42 4.00
1780 5002 0.811281 GGGAAGTACTTGGCATGCAC 59.189 55.000 21.36 8.61 0.00 4.57
1784 5006 1.349688 TGTTCGGGAAGTACTTGGCAT 59.650 47.619 14.14 0.00 0.00 4.40
2078 5302 5.957842 ATCAAGCAATTCCGTTAAGTGAA 57.042 34.783 0.06 0.00 35.13 3.18
2348 5577 3.876914 TCCTCCGTAACGTTACATATCGT 59.123 43.478 31.60 0.00 42.12 3.73


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

AutoCloner maintained by Alex Coulton.