Multiple sequence alignment - TraesCS6A01G317900

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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 TraesCS6A01G317900 chr6A 100.000 3539 0 0 1 3539 554301871 554305409 0.000000e+00 6536.0
1 TraesCS6A01G317900 chr6A 79.432 1478 251 38 1010 2469 553925990 553927432 0.000000e+00 996.0
2 TraesCS6A01G317900 chr6A 88.215 297 22 3 623 916 553942982 553943268 3.380000e-90 342.0
3 TraesCS6A01G317900 chr6A 74.778 563 119 19 1903 2455 592817601 592817052 7.640000e-57 231.0
4 TraesCS6A01G317900 chr6A 89.714 175 17 1 141 314 553933854 553934028 4.600000e-54 222.0
5 TraesCS6A01G317900 chr6A 100.000 64 0 0 74 137 553937297 553937360 6.210000e-23 119.0
6 TraesCS6A01G317900 chr6A 98.214 56 1 0 1 56 553932287 553932342 8.090000e-17 99.0
7 TraesCS6A01G317900 chr6A 96.429 56 2 0 1 56 553937257 553937312 3.760000e-15 93.5
8 TraesCS6A01G317900 chr6D 91.506 2496 140 27 780 3251 408213200 408215647 0.000000e+00 3369.0
9 TraesCS6A01G317900 chr6D 80.014 1456 239 40 1010 2446 408183262 408184684 0.000000e+00 1029.0
10 TraesCS6A01G317900 chr6D 90.635 299 26 1 3243 3539 408215582 408215880 2.560000e-106 396.0
11 TraesCS6A01G317900 chr6D 85.987 157 10 7 138 290 408212186 408212334 1.320000e-34 158.0
12 TraesCS6A01G317900 chr6D 91.667 108 6 1 623 730 408213108 408213212 2.850000e-31 147.0
13 TraesCS6A01G317900 chr6D 92.157 102 7 1 74 175 408212069 408212169 3.680000e-30 143.0
14 TraesCS6A01G317900 chr6B 90.804 2501 159 40 780 3251 612857135 612859593 0.000000e+00 3278.0
15 TraesCS6A01G317900 chr6B 79.823 1472 257 32 1010 2462 612847990 612849440 0.000000e+00 1037.0
16 TraesCS6A01G317900 chr6B 90.333 300 26 3 3243 3539 612859528 612859827 1.190000e-104 390.0
17 TraesCS6A01G317900 chr6B 95.050 101 5 0 74 174 612853186 612853286 3.660000e-35 159.0
18 TraesCS6A01G317900 chr6B 85.106 94 9 4 1910 2002 16241716 16241805 1.350000e-14 91.6
19 TraesCS6A01G317900 chr6B 92.857 56 4 0 1 56 612853146 612853201 8.140000e-12 82.4
20 TraesCS6A01G317900 chr2B 78.643 398 65 17 1952 2339 481900241 481900628 2.730000e-61 246.0
21 TraesCS6A01G317900 chr2D 77.045 440 88 12 1903 2337 338330835 338330404 1.270000e-59 241.0
22 TraesCS6A01G317900 chr2A 77.098 441 86 13 1903 2337 448293937 448293506 1.270000e-59 241.0
23 TraesCS6A01G317900 chr1B 80.408 245 39 6 371 613 658467593 658467356 1.010000e-40 178.0
24 TraesCS6A01G317900 chr4A 83.333 144 22 2 1010 1153 710677361 710677220 7.970000e-27 132.0


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 TraesCS6A01G317900 chr6A 554301871 554305409 3538 False 6536.00 6536 100.0000 1 3539 1 chr6A.!!$F3 3538
1 TraesCS6A01G317900 chr6A 553925990 553927432 1442 False 996.00 996 79.4320 1010 2469 1 chr6A.!!$F1 1459
2 TraesCS6A01G317900 chr6A 592817052 592817601 549 True 231.00 231 74.7780 1903 2455 1 chr6A.!!$R1 552
3 TraesCS6A01G317900 chr6D 408183262 408184684 1422 False 1029.00 1029 80.0140 1010 2446 1 chr6D.!!$F1 1436
4 TraesCS6A01G317900 chr6D 408212069 408215880 3811 False 842.60 3369 90.3904 74 3539 5 chr6D.!!$F2 3465
5 TraesCS6A01G317900 chr6B 612847990 612859827 11837 False 989.28 3278 89.7734 1 3539 5 chr6B.!!$F2 3538

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
53 5210 0.023732 CTTCACAAGATACGTGCGCG 59.976 55.000 19.78 19.78 44.93 6.86 F
316 6287 0.033504 AATAGGGCGCTACATCACGG 59.966 55.000 13.35 0.00 0.00 4.94 F
584 6555 0.321653 ATTTGGAGCGGACCTCACAC 60.322 55.000 0.00 0.00 42.62 3.82 F
1983 10763 1.065401 TCGGTCGTGTACGTCAACTTT 59.935 47.619 4.20 0.00 40.80 2.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1086 9809 0.971447 AGGTGACGTAGAAGCCCCTC 60.971 60.000 0.00 0.00 0.00 4.30 R
2115 10895 0.388134 CCTTCGTCTCGGCGAGAAAA 60.388 55.000 38.03 30.54 40.59 2.29 R
2346 11126 2.203788 ACCTCCTCCCGCTTGACA 60.204 61.111 0.00 0.00 0.00 3.58 R
2829 11649 0.529992 CGCCAGAATAAGTCCCGGAC 60.530 60.000 9.81 9.81 0.00 4.79 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
46 5203 5.331876 AGGCAGTAGTCTTCACAAGATAC 57.668 43.478 0.00 0.00 40.18 2.24
49 5206 4.559251 GCAGTAGTCTTCACAAGATACGTG 59.441 45.833 0.00 0.00 40.18 4.49
50 5207 4.559251 CAGTAGTCTTCACAAGATACGTGC 59.441 45.833 0.00 0.00 40.18 5.34
51 5208 2.596452 AGTCTTCACAAGATACGTGCG 58.404 47.619 0.00 0.00 40.18 5.34
52 5209 1.059264 GTCTTCACAAGATACGTGCGC 59.941 52.381 0.00 0.00 40.18 6.09
53 5210 0.023732 CTTCACAAGATACGTGCGCG 59.976 55.000 19.78 19.78 44.93 6.86
54 5211 4.827627 TCTTCACAAGATACGTGCGCGT 62.828 50.000 29.73 29.73 42.81 6.01
64 5221 4.367023 GTGCGCGTACACCCCTCA 62.367 66.667 22.80 0.00 34.35 3.86
65 5222 3.617735 TGCGCGTACACCCCTCAA 61.618 61.111 8.43 0.00 0.00 3.02
66 5223 2.357760 GCGCGTACACCCCTCAAA 60.358 61.111 8.43 0.00 0.00 2.69
67 5224 1.962306 GCGCGTACACCCCTCAAAA 60.962 57.895 8.43 0.00 0.00 2.44
68 5225 1.508808 GCGCGTACACCCCTCAAAAA 61.509 55.000 8.43 0.00 0.00 1.94
101 5258 0.922717 GCGCGTATAAACTACGGCAA 59.077 50.000 8.43 0.00 40.86 4.52
278 6249 5.837437 AGGAACTATAGAGAAATCAGCACG 58.163 41.667 6.78 0.00 36.02 5.34
279 6250 4.985409 GGAACTATAGAGAAATCAGCACGG 59.015 45.833 6.78 0.00 0.00 4.94
296 6267 3.801698 CACGGATTGAGGAGAATCACAT 58.198 45.455 0.00 0.00 36.25 3.21
303 6274 7.108847 GGATTGAGGAGAATCACATAATAGGG 58.891 42.308 0.00 0.00 36.25 3.53
304 6275 5.489792 TGAGGAGAATCACATAATAGGGC 57.510 43.478 0.00 0.00 36.25 5.19
309 6280 4.822026 AGAATCACATAATAGGGCGCTAC 58.178 43.478 13.35 0.00 0.00 3.58
310 6281 4.283467 AGAATCACATAATAGGGCGCTACA 59.717 41.667 13.35 4.53 0.00 2.74
311 6282 4.826274 ATCACATAATAGGGCGCTACAT 57.174 40.909 13.35 7.83 0.00 2.29
314 6285 3.679980 CACATAATAGGGCGCTACATCAC 59.320 47.826 13.35 0.00 0.00 3.06
316 6287 0.033504 AATAGGGCGCTACATCACGG 59.966 55.000 13.35 0.00 0.00 4.94
322 6293 1.202582 GGCGCTACATCACGGATATCT 59.797 52.381 7.64 0.00 0.00 1.98
327 6298 5.230306 GCGCTACATCACGGATATCTATTTC 59.770 44.000 0.00 0.00 0.00 2.17
332 6303 7.531857 ACATCACGGATATCTATTTCTGAGT 57.468 36.000 2.05 0.00 0.00 3.41
353 6324 2.816204 CAGACTCATCTGCATCCGAT 57.184 50.000 0.00 0.00 45.83 4.18
354 6325 2.674954 CAGACTCATCTGCATCCGATC 58.325 52.381 0.00 0.00 45.83 3.69
355 6326 2.035576 CAGACTCATCTGCATCCGATCA 59.964 50.000 0.00 0.00 45.83 2.92
358 6329 3.873361 GACTCATCTGCATCCGATCAAAA 59.127 43.478 0.00 0.00 0.00 2.44
360 6331 4.885907 ACTCATCTGCATCCGATCAAAAAT 59.114 37.500 0.00 0.00 0.00 1.82
361 6332 5.008415 ACTCATCTGCATCCGATCAAAAATC 59.992 40.000 0.00 0.00 0.00 2.17
362 6333 5.128205 TCATCTGCATCCGATCAAAAATCT 58.872 37.500 0.00 0.00 0.00 2.40
364 6335 6.938596 TCATCTGCATCCGATCAAAAATCTAT 59.061 34.615 0.00 0.00 0.00 1.98
367 6338 7.999679 TCTGCATCCGATCAAAAATCTATTTT 58.000 30.769 0.00 0.00 41.40 1.82
369 6340 9.173939 CTGCATCCGATCAAAAATCTATTTTAC 57.826 33.333 1.30 0.00 38.92 2.01
406 6377 4.916983 TGCATGGTAGATAATTTGGTGC 57.083 40.909 0.00 0.00 0.00 5.01
407 6378 4.276642 TGCATGGTAGATAATTTGGTGCA 58.723 39.130 0.00 0.00 37.69 4.57
408 6379 4.894705 TGCATGGTAGATAATTTGGTGCAT 59.105 37.500 0.00 0.00 35.41 3.96
409 6380 5.221283 TGCATGGTAGATAATTTGGTGCATG 60.221 40.000 0.00 0.00 35.41 4.06
410 6381 4.916983 TGGTAGATAATTTGGTGCATGC 57.083 40.909 11.82 11.82 0.00 4.06
411 6382 3.314913 TGGTAGATAATTTGGTGCATGCG 59.685 43.478 14.09 0.00 0.00 4.73
412 6383 3.304659 GGTAGATAATTTGGTGCATGCGG 60.305 47.826 14.09 0.00 0.00 5.69
413 6384 2.378038 AGATAATTTGGTGCATGCGGT 58.622 42.857 14.09 0.00 0.00 5.68
414 6385 2.099592 AGATAATTTGGTGCATGCGGTG 59.900 45.455 14.09 0.00 0.00 4.94
429 6400 2.339728 CGGTGCGCTCCAAATTAAAA 57.660 45.000 26.64 0.00 0.00 1.52
430 6401 2.250188 CGGTGCGCTCCAAATTAAAAG 58.750 47.619 26.64 4.72 0.00 2.27
431 6402 2.351350 CGGTGCGCTCCAAATTAAAAGT 60.351 45.455 26.64 0.00 0.00 2.66
432 6403 3.242518 GGTGCGCTCCAAATTAAAAGTC 58.757 45.455 23.09 0.00 0.00 3.01
433 6404 3.305064 GGTGCGCTCCAAATTAAAAGTCA 60.305 43.478 23.09 0.00 0.00 3.41
434 6405 4.485163 GTGCGCTCCAAATTAAAAGTCAT 58.515 39.130 9.73 0.00 0.00 3.06
435 6406 4.923281 GTGCGCTCCAAATTAAAAGTCATT 59.077 37.500 9.73 0.00 0.00 2.57
436 6407 5.405269 GTGCGCTCCAAATTAAAAGTCATTT 59.595 36.000 9.73 0.00 34.92 2.32
437 6408 5.633182 TGCGCTCCAAATTAAAAGTCATTTC 59.367 36.000 9.73 0.00 32.27 2.17
438 6409 5.220024 GCGCTCCAAATTAAAAGTCATTTCG 60.220 40.000 0.00 0.00 32.27 3.46
439 6410 6.083630 CGCTCCAAATTAAAAGTCATTTCGA 58.916 36.000 0.00 0.00 32.27 3.71
440 6411 6.032460 CGCTCCAAATTAAAAGTCATTTCGAC 59.968 38.462 0.00 0.00 45.77 4.20
454 6425 7.881643 GTCATTTCGACATATGAATAGCTCT 57.118 36.000 10.38 0.00 44.69 4.09
455 6426 8.972262 GTCATTTCGACATATGAATAGCTCTA 57.028 34.615 10.38 0.00 44.69 2.43
456 6427 9.579768 GTCATTTCGACATATGAATAGCTCTAT 57.420 33.333 10.38 0.00 44.69 1.98
457 6428 9.578439 TCATTTCGACATATGAATAGCTCTATG 57.422 33.333 10.38 2.02 0.00 2.23
458 6429 7.818493 TTTCGACATATGAATAGCTCTATGC 57.182 36.000 10.38 0.00 43.29 3.14
459 6430 6.515272 TCGACATATGAATAGCTCTATGCA 57.485 37.500 10.38 0.33 45.94 3.96
460 6431 6.924111 TCGACATATGAATAGCTCTATGCAA 58.076 36.000 10.38 0.00 45.94 4.08
461 6432 7.378181 TCGACATATGAATAGCTCTATGCAAA 58.622 34.615 10.38 0.00 45.94 3.68
462 6433 7.872483 TCGACATATGAATAGCTCTATGCAAAA 59.128 33.333 10.38 0.00 45.94 2.44
463 6434 8.498358 CGACATATGAATAGCTCTATGCAAAAA 58.502 33.333 10.38 0.00 45.94 1.94
494 6465 9.838339 AATTGGGTTAGAATAGTAGATGAACAG 57.162 33.333 0.00 0.00 0.00 3.16
495 6466 7.973048 TGGGTTAGAATAGTAGATGAACAGT 57.027 36.000 0.00 0.00 0.00 3.55
496 6467 9.483489 TTGGGTTAGAATAGTAGATGAACAGTA 57.517 33.333 0.00 0.00 0.00 2.74
497 6468 9.483489 TGGGTTAGAATAGTAGATGAACAGTAA 57.517 33.333 0.00 0.00 0.00 2.24
551 6522 5.425577 TTGTCGATAGCTACTCAGATGTC 57.574 43.478 0.00 0.00 0.00 3.06
557 6528 7.748683 GTCGATAGCTACTCAGATGTCTAAATG 59.251 40.741 0.00 0.00 0.00 2.32
559 6530 7.748683 CGATAGCTACTCAGATGTCTAAATGAC 59.251 40.741 0.00 0.00 45.54 3.06
583 6554 0.400213 AATTTGGAGCGGACCTCACA 59.600 50.000 0.00 0.00 42.62 3.58
584 6555 0.321653 ATTTGGAGCGGACCTCACAC 60.322 55.000 0.00 0.00 42.62 3.82
592 6563 1.604604 CGGACCTCACACACCAAATT 58.395 50.000 0.00 0.00 0.00 1.82
595 6566 3.756434 CGGACCTCACACACCAAATTATT 59.244 43.478 0.00 0.00 0.00 1.40
596 6567 4.217550 CGGACCTCACACACCAAATTATTT 59.782 41.667 0.00 0.00 0.00 1.40
598 6569 6.072397 CGGACCTCACACACCAAATTATTTAA 60.072 38.462 0.00 0.00 0.00 1.52
600 6571 6.674066 ACCTCACACACCAAATTATTTAACG 58.326 36.000 0.00 0.00 0.00 3.18
681 9382 6.278172 TGCATTATGCTGAATTAACCACAA 57.722 33.333 18.44 0.00 45.31 3.33
686 9387 7.946381 TTATGCTGAATTAACCACAACCATA 57.054 32.000 0.00 0.00 0.00 2.74
699 9400 6.055588 ACCACAACCATATCTTTATCTTCCG 58.944 40.000 0.00 0.00 0.00 4.30
704 9405 4.532521 ACCATATCTTTATCTTCCGAGGGG 59.467 45.833 0.00 0.00 0.00 4.79
717 9418 2.507886 TCCGAGGGGATTATGCTTTTCA 59.492 45.455 0.00 0.00 37.43 2.69
718 9419 3.053991 TCCGAGGGGATTATGCTTTTCAA 60.054 43.478 0.00 0.00 37.43 2.69
719 9420 3.699038 CCGAGGGGATTATGCTTTTCAAA 59.301 43.478 0.00 0.00 34.06 2.69
720 9421 4.159506 CCGAGGGGATTATGCTTTTCAAAA 59.840 41.667 0.00 0.00 34.06 2.44
721 9422 5.163416 CCGAGGGGATTATGCTTTTCAAAAT 60.163 40.000 0.00 0.00 34.06 1.82
722 9423 5.750067 CGAGGGGATTATGCTTTTCAAAATG 59.250 40.000 0.00 0.00 0.00 2.32
723 9424 6.625532 AGGGGATTATGCTTTTCAAAATGT 57.374 33.333 0.00 0.00 0.00 2.71
724 9425 6.408869 AGGGGATTATGCTTTTCAAAATGTG 58.591 36.000 0.00 0.00 0.00 3.21
725 9426 6.013466 AGGGGATTATGCTTTTCAAAATGTGT 60.013 34.615 0.00 0.00 0.00 3.72
726 9427 6.654582 GGGGATTATGCTTTTCAAAATGTGTT 59.345 34.615 0.00 0.00 0.00 3.32
727 9428 7.174772 GGGGATTATGCTTTTCAAAATGTGTTT 59.825 33.333 0.00 0.00 0.00 2.83
728 9429 8.016801 GGGATTATGCTTTTCAAAATGTGTTTG 58.983 33.333 0.00 0.00 0.00 2.93
729 9430 8.772705 GGATTATGCTTTTCAAAATGTGTTTGA 58.227 29.630 0.00 0.00 36.71 2.69
730 9431 9.584839 GATTATGCTTTTCAAAATGTGTTTGAC 57.415 29.630 1.12 0.00 38.05 3.18
731 9432 5.793026 TGCTTTTCAAAATGTGTTTGACC 57.207 34.783 1.12 0.00 38.05 4.02
732 9433 5.240891 TGCTTTTCAAAATGTGTTTGACCA 58.759 33.333 1.12 0.00 38.05 4.02
733 9434 5.702670 TGCTTTTCAAAATGTGTTTGACCAA 59.297 32.000 1.12 0.00 38.05 3.67
734 9435 6.128336 TGCTTTTCAAAATGTGTTTGACCAAG 60.128 34.615 1.12 7.85 38.05 3.61
735 9436 6.128309 GCTTTTCAAAATGTGTTTGACCAAGT 60.128 34.615 15.06 0.00 38.05 3.16
736 9437 6.718454 TTTCAAAATGTGTTTGACCAAGTG 57.282 33.333 1.12 0.00 38.05 3.16
737 9438 4.753233 TCAAAATGTGTTTGACCAAGTGG 58.247 39.130 0.00 0.00 42.17 4.00
831 9534 5.640218 CATTTAAAAATGCCAGCATACGG 57.360 39.130 5.39 0.00 39.29 4.02
856 9569 7.064728 GGATGCTCCTCACGGAATATATTTTAC 59.935 40.741 0.00 0.00 39.29 2.01
866 9579 8.625651 CACGGAATATATTTTACATTTGGTCCA 58.374 33.333 0.00 0.00 0.00 4.02
867 9580 9.191479 ACGGAATATATTTTACATTTGGTCCAA 57.809 29.630 0.00 0.00 0.00 3.53
868 9581 9.677567 CGGAATATATTTTACATTTGGTCCAAG 57.322 33.333 4.09 0.00 0.00 3.61
925 9647 5.334421 ACGGCTCTATATATCACCCTCTTT 58.666 41.667 0.00 0.00 0.00 2.52
926 9648 5.186021 ACGGCTCTATATATCACCCTCTTTG 59.814 44.000 0.00 0.00 0.00 2.77
927 9649 5.186021 CGGCTCTATATATCACCCTCTTTGT 59.814 44.000 0.00 0.00 0.00 2.83
930 9652 6.351456 GCTCTATATATCACCCTCTTTGTCCC 60.351 46.154 0.00 0.00 0.00 4.46
932 9654 1.200519 TATCACCCTCTTTGTCCCGG 58.799 55.000 0.00 0.00 0.00 5.73
986 9709 4.373116 GGCGTCACCAGCCGAAGA 62.373 66.667 0.00 0.00 45.58 2.87
987 9710 2.357034 GCGTCACCAGCCGAAGAA 60.357 61.111 0.00 0.00 0.00 2.52
988 9711 1.959226 GCGTCACCAGCCGAAGAAA 60.959 57.895 0.00 0.00 0.00 2.52
993 9716 2.616842 GTCACCAGCCGAAGAAAAGAAA 59.383 45.455 0.00 0.00 0.00 2.52
1086 9809 3.730761 GCCAAGGTGCTGCACTCG 61.731 66.667 29.54 18.29 34.40 4.18
1131 9854 1.214589 CTCGGAGTACAACCACCGG 59.785 63.158 0.00 0.00 44.57 5.28
1497 10229 3.857052 CTTCGTGCCACTCAAAGGTATA 58.143 45.455 0.00 0.00 0.00 1.47
1498 10230 3.241067 TCGTGCCACTCAAAGGTATAC 57.759 47.619 0.00 0.00 0.00 1.47
1499 10231 2.829720 TCGTGCCACTCAAAGGTATACT 59.170 45.455 2.25 0.00 0.00 2.12
1500 10232 4.018490 TCGTGCCACTCAAAGGTATACTA 58.982 43.478 2.25 0.00 0.00 1.82
1513 10245 1.889170 GTATACTACCACCCCCTACGC 59.111 57.143 0.00 0.00 0.00 4.42
1524 10256 2.280389 CCTACGCGCTCCATGCAT 60.280 61.111 5.73 0.00 43.06 3.96
1525 10257 2.601398 CCTACGCGCTCCATGCATG 61.601 63.158 20.19 20.19 43.06 4.06
1538 10270 3.088194 CATGCATGGAACTGGCATTAC 57.912 47.619 19.40 0.00 43.74 1.89
1555 10287 4.858692 GCATTACGTGATTGACTGCAAATT 59.141 37.500 0.00 0.00 37.59 1.82
1576 10308 8.830580 CAAATTAGTACTATAACTGTGCTGCAT 58.169 33.333 5.27 0.00 32.86 3.96
1577 10309 7.953158 ATTAGTACTATAACTGTGCTGCATG 57.047 36.000 5.27 4.78 32.86 4.06
1983 10763 1.065401 TCGGTCGTGTACGTCAACTTT 59.935 47.619 4.20 0.00 40.80 2.66
2478 11258 4.790861 GACGGCGGGACTTCGACC 62.791 72.222 13.24 0.00 34.05 4.79
2525 11305 2.190578 GCTTGGAGGGACCGATGG 59.809 66.667 0.00 0.00 42.61 3.51
2655 11435 0.804544 ACCGTTGTGCGTCCATATCG 60.805 55.000 0.00 0.00 39.32 2.92
2708 11519 3.979948 TGTCGTTTTCTCGGTGATGTAA 58.020 40.909 0.00 0.00 0.00 2.41
2739 11551 5.244402 TCACCAGTCCTACGAAGAACATTTA 59.756 40.000 0.00 0.00 0.00 1.40
2767 11587 3.850273 CCTGTAACAATCGAGTGTCGTAC 59.150 47.826 19.93 18.09 41.35 3.67
2777 11597 1.788886 GAGTGTCGTACGAACAAACCC 59.211 52.381 21.39 6.18 0.00 4.11
2870 11690 1.533625 TTCCATTTTCTGGCGTGAGG 58.466 50.000 0.00 0.00 45.52 3.86
2934 11754 6.376581 AGTGCAGAAATAGGAAAAGAATCAGG 59.623 38.462 0.00 0.00 0.00 3.86
2993 11814 6.780706 TTTCCAGTCAAGAAACGAGTATTC 57.219 37.500 0.00 0.00 0.00 1.75
3052 11873 4.403432 AGATCGGCATCAAATCATTTTGGT 59.597 37.500 0.00 0.00 42.10 3.67
3063 11884 6.760770 TCAAATCATTTTGGTGGAGTTTTCAC 59.239 34.615 0.00 0.00 42.10 3.18
3157 11978 1.055849 TGTTTGTAGCCTCAGCCTCA 58.944 50.000 0.00 0.00 41.25 3.86
3216 12037 2.555325 TCAGCAGAAAGGCATGAGTTTG 59.445 45.455 0.00 0.00 35.83 2.93
3217 12038 1.891150 AGCAGAAAGGCATGAGTTTGG 59.109 47.619 0.00 0.00 35.83 3.28
3235 12056 5.581874 AGTTTGGTGCAAAGTTTGATCAAAG 59.418 36.000 21.05 10.56 33.83 2.77
3238 12059 5.916318 TGGTGCAAAGTTTGATCAAAGAAT 58.084 33.333 21.05 7.79 0.00 2.40
3243 12064 6.591062 TGCAAAGTTTGATCAAAGAATATGGC 59.409 34.615 21.05 16.82 0.00 4.40
3257 12078 3.594568 TGGCAACATAGCAGCAGC 58.405 55.556 0.00 0.00 46.17 5.25
3258 12079 1.303480 TGGCAACATAGCAGCAGCA 60.303 52.632 3.17 0.00 46.17 4.41
3259 12080 0.894642 TGGCAACATAGCAGCAGCAA 60.895 50.000 3.17 0.00 46.17 3.91
3260 12081 0.179145 GGCAACATAGCAGCAGCAAG 60.179 55.000 3.17 0.00 45.49 4.01
3261 12082 0.524862 GCAACATAGCAGCAGCAAGT 59.475 50.000 3.17 0.00 45.49 3.16
3262 12083 1.467035 GCAACATAGCAGCAGCAAGTC 60.467 52.381 3.17 0.00 45.49 3.01
3263 12084 1.808343 CAACATAGCAGCAGCAAGTCA 59.192 47.619 3.17 0.00 45.49 3.41
3264 12085 2.414994 ACATAGCAGCAGCAAGTCAT 57.585 45.000 3.17 0.00 45.49 3.06
3265 12086 2.014857 ACATAGCAGCAGCAAGTCATG 58.985 47.619 3.17 1.47 45.49 3.07
3266 12087 2.285977 CATAGCAGCAGCAAGTCATGA 58.714 47.619 3.17 0.00 45.49 3.07
3267 12088 2.019948 TAGCAGCAGCAAGTCATGAG 57.980 50.000 3.17 0.00 45.49 2.90
3268 12089 0.036448 AGCAGCAGCAAGTCATGAGT 59.964 50.000 3.17 0.00 45.49 3.41
3269 12090 0.879765 GCAGCAGCAAGTCATGAGTT 59.120 50.000 10.10 10.10 41.58 3.01
3270 12091 1.268899 GCAGCAGCAAGTCATGAGTTT 59.731 47.619 13.25 0.00 41.58 2.66
3271 12092 2.485426 GCAGCAGCAAGTCATGAGTTTA 59.515 45.455 13.25 0.00 41.58 2.01
3272 12093 3.128242 GCAGCAGCAAGTCATGAGTTTAT 59.872 43.478 13.25 2.31 41.58 1.40
3273 12094 4.380233 GCAGCAGCAAGTCATGAGTTTATT 60.380 41.667 13.25 0.00 41.58 1.40
3274 12095 5.706916 CAGCAGCAAGTCATGAGTTTATTT 58.293 37.500 13.25 0.00 0.00 1.40
3275 12096 5.798934 CAGCAGCAAGTCATGAGTTTATTTC 59.201 40.000 13.25 2.79 0.00 2.17
3276 12097 5.474532 AGCAGCAAGTCATGAGTTTATTTCA 59.525 36.000 13.25 0.00 0.00 2.69
3277 12098 6.016024 AGCAGCAAGTCATGAGTTTATTTCAA 60.016 34.615 13.25 0.00 0.00 2.69
3278 12099 6.642131 GCAGCAAGTCATGAGTTTATTTCAAA 59.358 34.615 13.25 0.00 0.00 2.69
3279 12100 7.148853 GCAGCAAGTCATGAGTTTATTTCAAAG 60.149 37.037 13.25 0.58 0.00 2.77
3280 12101 7.864379 CAGCAAGTCATGAGTTTATTTCAAAGT 59.136 33.333 13.25 0.00 0.00 2.66
3281 12102 8.416329 AGCAAGTCATGAGTTTATTTCAAAGTT 58.584 29.630 13.25 0.00 0.00 2.66
3282 12103 8.694394 GCAAGTCATGAGTTTATTTCAAAGTTC 58.306 33.333 13.25 0.00 0.00 3.01
3283 12104 8.895845 CAAGTCATGAGTTTATTTCAAAGTTCG 58.104 33.333 13.25 0.00 0.00 3.95
3284 12105 8.378172 AGTCATGAGTTTATTTCAAAGTTCGA 57.622 30.769 0.00 0.00 0.00 3.71
3285 12106 9.003658 AGTCATGAGTTTATTTCAAAGTTCGAT 57.996 29.630 0.00 0.00 0.00 3.59
3286 12107 9.267096 GTCATGAGTTTATTTCAAAGTTCGATC 57.733 33.333 0.00 0.00 0.00 3.69
3287 12108 8.998377 TCATGAGTTTATTTCAAAGTTCGATCA 58.002 29.630 0.00 0.00 0.00 2.92
3288 12109 9.611284 CATGAGTTTATTTCAAAGTTCGATCAA 57.389 29.630 0.00 0.00 0.00 2.57
3290 12111 9.663904 TGAGTTTATTTCAAAGTTCGATCAAAG 57.336 29.630 0.00 0.00 0.00 2.77
3291 12112 9.878599 GAGTTTATTTCAAAGTTCGATCAAAGA 57.121 29.630 0.00 0.00 0.00 2.52
3299 12120 9.489084 TTCAAAGTTCGATCAAAGAAGATTAGA 57.511 29.630 0.00 0.00 0.00 2.10
3300 12121 9.489084 TCAAAGTTCGATCAAAGAAGATTAGAA 57.511 29.630 0.00 0.00 0.00 2.10
3301 12122 9.535270 CAAAGTTCGATCAAAGAAGATTAGAAC 57.465 33.333 13.40 13.40 41.24 3.01
3302 12123 8.833231 AAGTTCGATCAAAGAAGATTAGAACA 57.167 30.769 18.80 0.00 42.16 3.18
3303 12124 9.442047 AAGTTCGATCAAAGAAGATTAGAACAT 57.558 29.630 18.80 10.69 42.16 2.71
3311 12132 8.939929 TCAAAGAAGATTAGAACATAGTTGCTG 58.060 33.333 0.00 0.00 0.00 4.41
3315 12136 9.678260 AGAAGATTAGAACATAGTTGCTGATTT 57.322 29.630 0.00 0.00 0.00 2.17
3367 12189 9.676195 AACAGCAAAATGTTTATTTATTTTGGC 57.324 25.926 18.44 12.83 46.56 4.52
3369 12191 8.014517 CAGCAAAATGTTTATTTATTTTGGCGT 58.985 29.630 18.44 4.93 46.56 5.68
3381 12203 2.861462 TTTGGCGTTCTGAAAACTGG 57.139 45.000 0.00 0.00 0.00 4.00
3383 12205 0.181587 TGGCGTTCTGAAAACTGGGA 59.818 50.000 0.00 0.00 0.00 4.37
3403 12225 3.366070 GGAGTGACATACCGGATACATCG 60.366 52.174 9.46 0.00 0.00 3.84
3460 12282 4.034410 GGAGTCTGAAATTAGGAGGGAGT 58.966 47.826 0.00 0.00 0.00 3.85
3508 12330 0.106708 TCTGCTGCTGAAAGAACGGT 59.893 50.000 6.77 0.00 34.07 4.83
3514 12336 1.301401 CTGAAAGAACGGTGGCCGA 60.301 57.895 14.86 0.00 44.18 5.54
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.532862 CCCTCGTGGCGCATCTTTAT 60.533 55.000 10.83 0.00 0.00 1.40
1 2 1.153449 CCCTCGTGGCGCATCTTTA 60.153 57.895 10.83 0.00 0.00 1.85
2 3 2.436646 CCCTCGTGGCGCATCTTT 60.437 61.111 10.83 0.00 0.00 2.52
49 5206 1.508808 TTTTTGAGGGGTGTACGCGC 61.509 55.000 14.64 14.64 37.07 6.86
50 5207 2.619362 TTTTTGAGGGGTGTACGCG 58.381 52.632 3.53 3.53 37.07 6.01
101 5258 0.892358 TCCTCGTACTGGTTCAGCGT 60.892 55.000 0.00 0.00 34.37 5.07
219 5657 4.044484 CGGAGATAGAGCCGCCGG 62.044 72.222 0.00 0.00 42.06 6.13
249 5687 6.806751 TGATTTCTCTATAGTTCCTTCCGTG 58.193 40.000 0.00 0.00 0.00 4.94
250 5688 6.461788 GCTGATTTCTCTATAGTTCCTTCCGT 60.462 42.308 0.00 0.00 0.00 4.69
278 6249 7.108847 CCCTATTATGTGATTCTCCTCAATCC 58.891 42.308 0.00 0.00 32.51 3.01
279 6250 6.597280 GCCCTATTATGTGATTCTCCTCAATC 59.403 42.308 0.00 0.00 33.90 2.67
296 6267 1.271379 CCGTGATGTAGCGCCCTATTA 59.729 52.381 2.29 0.00 0.00 0.98
303 6274 2.638556 AGATATCCGTGATGTAGCGC 57.361 50.000 0.00 0.00 0.00 5.92
304 6275 6.470556 CAGAAATAGATATCCGTGATGTAGCG 59.529 42.308 0.00 0.00 0.00 4.26
309 6280 7.032580 GGACTCAGAAATAGATATCCGTGATG 58.967 42.308 0.00 0.00 0.00 3.07
310 6281 6.721668 TGGACTCAGAAATAGATATCCGTGAT 59.278 38.462 0.00 0.00 0.00 3.06
311 6282 6.068670 TGGACTCAGAAATAGATATCCGTGA 58.931 40.000 0.00 0.00 0.00 4.35
314 6285 6.825944 TCTGGACTCAGAAATAGATATCCG 57.174 41.667 0.00 0.00 46.08 4.18
381 6352 6.593382 GCACCAAATTATCTACCATGCAAAAA 59.407 34.615 0.00 0.00 0.00 1.94
382 6353 6.105333 GCACCAAATTATCTACCATGCAAAA 58.895 36.000 0.00 0.00 0.00 2.44
387 6358 5.224888 GCATGCACCAAATTATCTACCATG 58.775 41.667 14.21 0.00 0.00 3.66
389 6360 3.314913 CGCATGCACCAAATTATCTACCA 59.685 43.478 19.57 0.00 0.00 3.25
390 6361 3.304659 CCGCATGCACCAAATTATCTACC 60.305 47.826 19.57 0.00 0.00 3.18
391 6362 3.315191 ACCGCATGCACCAAATTATCTAC 59.685 43.478 19.57 0.00 0.00 2.59
393 6364 2.099592 CACCGCATGCACCAAATTATCT 59.900 45.455 19.57 0.00 0.00 1.98
394 6365 2.462889 CACCGCATGCACCAAATTATC 58.537 47.619 19.57 0.00 0.00 1.75
395 6366 2.582728 CACCGCATGCACCAAATTAT 57.417 45.000 19.57 0.00 0.00 1.28
397 6368 4.992515 CACCGCATGCACCAAATT 57.007 50.000 19.57 0.00 0.00 1.82
410 6381 2.250188 CTTTTAATTTGGAGCGCACCG 58.750 47.619 19.24 0.00 0.00 4.94
411 6382 3.242518 GACTTTTAATTTGGAGCGCACC 58.757 45.455 17.78 17.78 0.00 5.01
412 6383 3.896122 TGACTTTTAATTTGGAGCGCAC 58.104 40.909 11.47 1.97 0.00 5.34
413 6384 4.782019 ATGACTTTTAATTTGGAGCGCA 57.218 36.364 11.47 0.00 0.00 6.09
414 6385 5.220024 CGAAATGACTTTTAATTTGGAGCGC 60.220 40.000 0.00 0.00 0.00 5.92
415 6386 6.032460 GTCGAAATGACTTTTAATTTGGAGCG 59.968 38.462 0.00 0.00 44.58 5.03
416 6387 7.265693 GTCGAAATGACTTTTAATTTGGAGC 57.734 36.000 0.00 0.00 44.58 4.70
431 6402 9.578439 CATAGAGCTATTCATATGTCGAAATGA 57.422 33.333 1.90 0.25 0.00 2.57
432 6403 8.326713 GCATAGAGCTATTCATATGTCGAAATG 58.673 37.037 1.90 0.00 41.15 2.32
433 6404 8.037166 TGCATAGAGCTATTCATATGTCGAAAT 58.963 33.333 1.90 0.00 45.94 2.17
434 6405 7.378181 TGCATAGAGCTATTCATATGTCGAAA 58.622 34.615 1.90 0.00 45.94 3.46
435 6406 6.924111 TGCATAGAGCTATTCATATGTCGAA 58.076 36.000 1.90 0.00 45.94 3.71
436 6407 6.515272 TGCATAGAGCTATTCATATGTCGA 57.485 37.500 1.90 0.00 45.94 4.20
437 6408 7.586714 TTTGCATAGAGCTATTCATATGTCG 57.413 36.000 1.90 0.00 45.94 4.35
468 6439 9.838339 CTGTTCATCTACTATTCTAACCCAATT 57.162 33.333 0.00 0.00 0.00 2.32
469 6440 8.993424 ACTGTTCATCTACTATTCTAACCCAAT 58.007 33.333 0.00 0.00 0.00 3.16
470 6441 8.375493 ACTGTTCATCTACTATTCTAACCCAA 57.625 34.615 0.00 0.00 0.00 4.12
471 6442 7.973048 ACTGTTCATCTACTATTCTAACCCA 57.027 36.000 0.00 0.00 0.00 4.51
533 6504 7.748683 GTCATTTAGACATCTGAGTAGCTATCG 59.251 40.741 0.00 0.00 46.77 2.92
551 6522 7.432252 GTCCGCTCCAAATTTTATGTCATTTAG 59.568 37.037 0.00 0.00 0.00 1.85
557 6528 3.694566 AGGTCCGCTCCAAATTTTATGTC 59.305 43.478 0.00 0.00 0.00 3.06
559 6530 3.694072 TGAGGTCCGCTCCAAATTTTATG 59.306 43.478 0.00 0.00 0.00 1.90
560 6531 3.694566 GTGAGGTCCGCTCCAAATTTTAT 59.305 43.478 0.00 0.00 0.00 1.40
562 6533 1.886542 GTGAGGTCCGCTCCAAATTTT 59.113 47.619 0.00 0.00 0.00 1.82
616 8695 9.320295 TGGTATATCAAGAAAAGGGAAATGTTT 57.680 29.630 0.00 0.00 0.00 2.83
617 8696 8.893563 TGGTATATCAAGAAAAGGGAAATGTT 57.106 30.769 0.00 0.00 0.00 2.71
618 8697 8.116026 ACTGGTATATCAAGAAAAGGGAAATGT 58.884 33.333 0.00 0.00 0.00 2.71
619 8698 8.525290 ACTGGTATATCAAGAAAAGGGAAATG 57.475 34.615 0.00 0.00 0.00 2.32
621 8700 8.390921 AGAACTGGTATATCAAGAAAAGGGAAA 58.609 33.333 0.00 0.00 0.00 3.13
640 9341 1.606224 GCAATTGCCACCAAGAACTGG 60.606 52.381 20.06 0.00 42.68 4.00
641 9342 1.068895 TGCAATTGCCACCAAGAACTG 59.931 47.619 26.94 0.00 41.18 3.16
681 9382 4.532521 CCCCTCGGAAGATAAAGATATGGT 59.467 45.833 0.00 0.00 40.84 3.55
686 9387 6.577239 GCATAATCCCCTCGGAAGATAAAGAT 60.577 42.308 0.00 0.00 43.10 2.40
699 9400 6.536224 CACATTTTGAAAAGCATAATCCCCTC 59.464 38.462 0.00 0.00 0.00 4.30
704 9405 9.584839 GTCAAACACATTTTGAAAAGCATAATC 57.415 29.630 1.12 0.00 39.76 1.75
769 9470 9.439500 CCCTTCAAACACATTTTATCATTGATT 57.561 29.630 4.14 0.00 0.00 2.57
770 9471 7.550196 GCCCTTCAAACACATTTTATCATTGAT 59.450 33.333 4.28 4.28 0.00 2.57
771 9472 6.873076 GCCCTTCAAACACATTTTATCATTGA 59.127 34.615 0.00 0.00 0.00 2.57
772 9473 6.183360 CGCCCTTCAAACACATTTTATCATTG 60.183 38.462 0.00 0.00 0.00 2.82
773 9474 5.868801 CGCCCTTCAAACACATTTTATCATT 59.131 36.000 0.00 0.00 0.00 2.57
774 9475 5.047377 ACGCCCTTCAAACACATTTTATCAT 60.047 36.000 0.00 0.00 0.00 2.45
775 9476 4.279671 ACGCCCTTCAAACACATTTTATCA 59.720 37.500 0.00 0.00 0.00 2.15
776 9477 4.805219 ACGCCCTTCAAACACATTTTATC 58.195 39.130 0.00 0.00 0.00 1.75
777 9478 4.864704 ACGCCCTTCAAACACATTTTAT 57.135 36.364 0.00 0.00 0.00 1.40
778 9479 5.473846 TGATACGCCCTTCAAACACATTTTA 59.526 36.000 0.00 0.00 0.00 1.52
925 9647 4.939368 CACCAAACGGCCGGGACA 62.939 66.667 31.76 0.00 0.00 4.02
932 9654 3.578272 TGTCGTGCACCAAACGGC 61.578 61.111 12.15 0.47 45.56 5.68
980 9703 3.708563 TGGCTGTTTTCTTTTCTTCGG 57.291 42.857 0.00 0.00 0.00 4.30
983 9706 4.502087 GGCTCATGGCTGTTTTCTTTTCTT 60.502 41.667 6.20 0.00 41.46 2.52
986 9709 2.288395 CGGCTCATGGCTGTTTTCTTTT 60.288 45.455 6.79 0.00 42.08 2.27
987 9710 1.270550 CGGCTCATGGCTGTTTTCTTT 59.729 47.619 6.79 0.00 42.08 2.52
988 9711 0.883833 CGGCTCATGGCTGTTTTCTT 59.116 50.000 6.79 0.00 42.08 2.52
1086 9809 0.971447 AGGTGACGTAGAAGCCCCTC 60.971 60.000 0.00 0.00 0.00 4.30
1497 10229 2.757099 CGCGTAGGGGGTGGTAGT 60.757 66.667 0.00 0.00 36.55 2.73
1498 10230 4.217159 GCGCGTAGGGGGTGGTAG 62.217 72.222 8.43 0.00 42.39 3.18
1499 10231 4.764771 AGCGCGTAGGGGGTGGTA 62.765 66.667 8.43 0.00 42.39 3.25
1522 10254 2.355197 TCACGTAATGCCAGTTCCATG 58.645 47.619 0.00 0.00 0.00 3.66
1524 10256 2.746904 CAATCACGTAATGCCAGTTCCA 59.253 45.455 0.00 0.00 0.00 3.53
1525 10257 3.006940 TCAATCACGTAATGCCAGTTCC 58.993 45.455 0.00 0.00 0.00 3.62
1526 10258 3.684788 AGTCAATCACGTAATGCCAGTTC 59.315 43.478 0.00 0.00 0.00 3.01
1527 10259 3.436704 CAGTCAATCACGTAATGCCAGTT 59.563 43.478 0.00 0.00 0.00 3.16
1528 10260 3.002791 CAGTCAATCACGTAATGCCAGT 58.997 45.455 0.00 0.00 0.00 4.00
1529 10261 2.223112 GCAGTCAATCACGTAATGCCAG 60.223 50.000 0.00 0.00 0.00 4.85
1532 10264 3.469899 TTGCAGTCAATCACGTAATGC 57.530 42.857 0.98 0.98 0.00 3.56
1535 10267 6.795098 ACTAATTTGCAGTCAATCACGTAA 57.205 33.333 0.00 0.00 31.33 3.18
1538 10270 6.408858 AGTACTAATTTGCAGTCAATCACG 57.591 37.500 0.00 0.00 31.33 4.35
1555 10287 6.127451 ACACATGCAGCACAGTTATAGTACTA 60.127 38.462 4.77 4.77 0.00 1.82
1576 10308 2.943690 GGTAGCTCTCATCTACGACACA 59.056 50.000 0.00 0.00 37.79 3.72
1577 10309 3.002862 CAGGTAGCTCTCATCTACGACAC 59.997 52.174 0.00 0.00 37.79 3.67
1692 10472 4.796231 AGCATGACGTCGTCCCGC 62.796 66.667 22.05 21.99 0.00 6.13
1944 10724 4.355720 CCTGGCTGCTTCTGGGCA 62.356 66.667 0.00 0.00 40.15 5.36
1959 10739 2.670934 ACGTACACGACCGAGCCT 60.671 61.111 9.04 0.00 43.02 4.58
1983 10763 1.746239 CATGACGGTGATGCTGCCA 60.746 57.895 0.00 0.00 0.00 4.92
2115 10895 0.388134 CCTTCGTCTCGGCGAGAAAA 60.388 55.000 38.03 30.54 40.59 2.29
2346 11126 2.203788 ACCTCCTCCCGCTTGACA 60.204 61.111 0.00 0.00 0.00 3.58
2349 11129 4.785453 GCCACCTCCTCCCGCTTG 62.785 72.222 0.00 0.00 0.00 4.01
2525 11305 3.181500 ACAACGTTTTCAGCTTTGAGGAC 60.181 43.478 0.00 0.00 0.00 3.85
2530 11310 4.165779 AGACAACAACGTTTTCAGCTTTG 58.834 39.130 0.00 0.00 0.00 2.77
2575 11355 3.498481 CCAACCCCATATACCCATCACAG 60.498 52.174 0.00 0.00 0.00 3.66
2602 11382 6.377146 GTGGGAAATGGTTACATCATACTGTT 59.623 38.462 0.00 0.00 35.94 3.16
2655 11435 5.122239 TGCATAGTTTGTCTTGCATACTGTC 59.878 40.000 0.00 0.00 39.23 3.51
2708 11519 3.759581 TCGTAGGACTGGTGAAACTACT 58.240 45.455 0.00 0.00 36.74 2.57
2739 11551 6.513556 CGACACTCGATTGTTACAGGATAGAT 60.514 42.308 9.99 0.00 43.74 1.98
2795 11615 5.178067 GCTAGTAGTCGTCTTCTCTATGTCC 59.822 48.000 0.00 0.00 0.00 4.02
2829 11649 0.529992 CGCCAGAATAAGTCCCGGAC 60.530 60.000 9.81 9.81 0.00 4.79
2870 11690 3.364964 CCCATTGTACTGCGAAACTGAAC 60.365 47.826 0.00 0.00 0.00 3.18
2902 11722 4.970662 TCCTATTTCTGCACTGCATTTC 57.029 40.909 3.64 0.00 38.13 2.17
2993 11814 1.270625 TGGTTCGCAAAGGAGTACCAG 60.271 52.381 0.00 0.00 38.86 4.00
3052 11873 2.158957 ACTCGCTGAAGTGAAAACTCCA 60.159 45.455 0.00 0.00 33.75 3.86
3063 11884 1.612156 CTCGAACTGACTCGCTGAAG 58.388 55.000 0.00 0.00 38.73 3.02
3157 11978 4.588951 TCACAACCAACTCAGACAGTATCT 59.411 41.667 0.00 0.00 38.66 1.98
3188 12009 2.019249 TGCCTTTCTGCTGACATATGC 58.981 47.619 1.58 0.00 0.00 3.14
3216 12037 7.063780 CCATATTCTTTGATCAAACTTTGCACC 59.936 37.037 16.91 0.00 0.00 5.01
3217 12038 7.412237 GCCATATTCTTTGATCAAACTTTGCAC 60.412 37.037 16.91 0.71 0.00 4.57
3235 12056 3.611057 GCTGCTGCTATGTTGCCATATTC 60.611 47.826 8.53 0.00 33.18 1.75
3238 12059 1.311859 GCTGCTGCTATGTTGCCATA 58.688 50.000 8.53 0.00 36.03 2.74
3243 12064 1.808343 TGACTTGCTGCTGCTATGTTG 59.192 47.619 17.00 0.16 40.48 3.33
3251 12072 4.959596 ATAAACTCATGACTTGCTGCTG 57.040 40.909 0.00 0.00 0.00 4.41
3252 12073 5.474532 TGAAATAAACTCATGACTTGCTGCT 59.525 36.000 0.00 0.00 0.00 4.24
3253 12074 5.702865 TGAAATAAACTCATGACTTGCTGC 58.297 37.500 0.00 0.00 0.00 5.25
3254 12075 7.864379 ACTTTGAAATAAACTCATGACTTGCTG 59.136 33.333 0.00 0.00 0.00 4.41
3255 12076 7.945134 ACTTTGAAATAAACTCATGACTTGCT 58.055 30.769 0.00 0.00 0.00 3.91
3256 12077 8.579682 AACTTTGAAATAAACTCATGACTTGC 57.420 30.769 0.00 0.00 0.00 4.01
3257 12078 8.895845 CGAACTTTGAAATAAACTCATGACTTG 58.104 33.333 0.00 0.00 0.00 3.16
3258 12079 8.836413 TCGAACTTTGAAATAAACTCATGACTT 58.164 29.630 0.00 0.00 0.00 3.01
3259 12080 8.378172 TCGAACTTTGAAATAAACTCATGACT 57.622 30.769 0.00 0.00 0.00 3.41
3260 12081 9.267096 GATCGAACTTTGAAATAAACTCATGAC 57.733 33.333 0.00 0.00 0.00 3.06
3261 12082 8.998377 TGATCGAACTTTGAAATAAACTCATGA 58.002 29.630 0.00 0.00 0.00 3.07
3262 12083 9.611284 TTGATCGAACTTTGAAATAAACTCATG 57.389 29.630 0.00 0.00 0.00 3.07
3264 12085 9.663904 CTTTGATCGAACTTTGAAATAAACTCA 57.336 29.630 0.00 0.00 0.00 3.41
3265 12086 9.878599 TCTTTGATCGAACTTTGAAATAAACTC 57.121 29.630 0.00 0.00 0.00 3.01
3273 12094 9.489084 TCTAATCTTCTTTGATCGAACTTTGAA 57.511 29.630 0.00 0.00 0.00 2.69
3274 12095 9.489084 TTCTAATCTTCTTTGATCGAACTTTGA 57.511 29.630 0.00 0.00 0.00 2.69
3275 12096 9.535270 GTTCTAATCTTCTTTGATCGAACTTTG 57.465 33.333 0.00 0.00 35.84 2.77
3276 12097 9.273016 TGTTCTAATCTTCTTTGATCGAACTTT 57.727 29.630 14.51 0.00 37.50 2.66
3277 12098 8.833231 TGTTCTAATCTTCTTTGATCGAACTT 57.167 30.769 14.51 0.00 37.50 2.66
3283 12104 9.928236 GCAACTATGTTCTAATCTTCTTTGATC 57.072 33.333 0.00 0.00 0.00 2.92
3284 12105 9.678260 AGCAACTATGTTCTAATCTTCTTTGAT 57.322 29.630 0.00 0.00 0.00 2.57
3285 12106 8.939929 CAGCAACTATGTTCTAATCTTCTTTGA 58.060 33.333 0.00 0.00 0.00 2.69
3286 12107 8.939929 TCAGCAACTATGTTCTAATCTTCTTTG 58.060 33.333 0.00 0.00 0.00 2.77
3287 12108 9.678260 ATCAGCAACTATGTTCTAATCTTCTTT 57.322 29.630 0.00 0.00 0.00 2.52
3288 12109 9.678260 AATCAGCAACTATGTTCTAATCTTCTT 57.322 29.630 0.00 0.00 0.00 2.52
3289 12110 9.678260 AAATCAGCAACTATGTTCTAATCTTCT 57.322 29.630 0.00 0.00 0.00 2.85
3290 12111 9.713740 CAAATCAGCAACTATGTTCTAATCTTC 57.286 33.333 0.00 0.00 0.00 2.87
3291 12112 9.453572 TCAAATCAGCAACTATGTTCTAATCTT 57.546 29.630 0.00 0.00 0.00 2.40
3292 12113 8.887717 GTCAAATCAGCAACTATGTTCTAATCT 58.112 33.333 0.00 0.00 0.00 2.40
3293 12114 8.668353 TGTCAAATCAGCAACTATGTTCTAATC 58.332 33.333 0.00 0.00 0.00 1.75
3294 12115 8.565896 TGTCAAATCAGCAACTATGTTCTAAT 57.434 30.769 0.00 0.00 0.00 1.73
3295 12116 7.977789 TGTCAAATCAGCAACTATGTTCTAA 57.022 32.000 0.00 0.00 0.00 2.10
3296 12117 9.836864 ATATGTCAAATCAGCAACTATGTTCTA 57.163 29.630 0.00 0.00 0.00 2.10
3297 12118 8.618677 CATATGTCAAATCAGCAACTATGTTCT 58.381 33.333 0.00 0.00 0.00 3.01
3298 12119 8.615211 TCATATGTCAAATCAGCAACTATGTTC 58.385 33.333 1.90 0.00 0.00 3.18
3299 12120 8.510243 TCATATGTCAAATCAGCAACTATGTT 57.490 30.769 1.90 0.00 0.00 2.71
3300 12121 8.510243 TTCATATGTCAAATCAGCAACTATGT 57.490 30.769 1.90 0.00 0.00 2.29
3304 12125 8.959548 TGTTATTCATATGTCAAATCAGCAACT 58.040 29.630 1.90 0.00 0.00 3.16
3305 12126 9.740239 ATGTTATTCATATGTCAAATCAGCAAC 57.260 29.630 1.90 0.00 34.67 4.17
3306 12127 9.738832 CATGTTATTCATATGTCAAATCAGCAA 57.261 29.630 1.90 0.00 34.67 3.91
3307 12128 9.122779 TCATGTTATTCATATGTCAAATCAGCA 57.877 29.630 1.90 0.00 34.67 4.41
3367 12189 2.544267 GTCACTCCCAGTTTTCAGAACG 59.456 50.000 0.00 0.00 0.00 3.95
3369 12191 3.924114 TGTCACTCCCAGTTTTCAGAA 57.076 42.857 0.00 0.00 0.00 3.02
3381 12203 3.366070 CGATGTATCCGGTATGTCACTCC 60.366 52.174 0.00 0.00 0.00 3.85
3383 12205 3.220110 ACGATGTATCCGGTATGTCACT 58.780 45.455 0.00 0.00 0.00 3.41
3403 12225 1.736681 GCAATCTCAAGGCAGTCTGAC 59.263 52.381 3.32 0.00 0.00 3.51
3488 12310 0.795085 CCGTTCTTTCAGCAGCAGAG 59.205 55.000 0.00 0.00 0.00 3.35
3491 12313 1.165907 CCACCGTTCTTTCAGCAGCA 61.166 55.000 0.00 0.00 0.00 4.41


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

AutoCloner maintained by Alex Coulton.