Multiple sequence alignment - TraesCS3B01G239800

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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 TraesCS3B01G239800 chr3B 100.000 4079 0 0 1 4079 378210483 378206405 0.000000e+00 7533
1 TraesCS3B01G239800 chr3B 90.306 196 17 2 3883 4078 370756134 370756327 5.230000e-64 255
2 TraesCS3B01G239800 chr3D 95.728 3347 66 19 1 3313 285004692 285007995 0.000000e+00 5317
3 TraesCS3B01G239800 chr3D 96.359 412 14 1 3481 3892 285014116 285014526 0.000000e+00 676
4 TraesCS3B01G239800 chr3D 97.765 179 0 2 3303 3481 285009525 285009699 5.120000e-79 305
5 TraesCS3B01G239800 chr3D 93.299 194 12 1 3886 4078 325794058 325794251 6.670000e-73 285
6 TraesCS3B01G239800 chr3A 92.010 3542 113 56 1 3439 372456798 372460272 0.000000e+00 4817
7 TraesCS3B01G239800 chr3A 94.798 346 17 1 3478 3822 372460275 372460620 4.640000e-149 538
8 TraesCS3B01G239800 chr5B 91.667 192 14 2 3888 4078 170469979 170469789 8.690000e-67 265
9 TraesCS3B01G239800 chr6B 86.935 199 24 2 3878 4076 678598186 678597990 5.310000e-54 222
10 TraesCS3B01G239800 chr6B 84.236 203 28 4 3875 4076 682880051 682880250 1.160000e-45 195
11 TraesCS3B01G239800 chr1D 86.500 200 23 3 3869 4066 384132335 384132532 2.470000e-52 217
12 TraesCS3B01G239800 chr1B 85.377 212 27 4 3863 4073 681448533 681448741 2.470000e-52 217
13 TraesCS3B01G239800 chr4D 83.796 216 30 4 3863 4078 175788413 175788203 2.490000e-47 200
14 TraesCS3B01G239800 chr6D 83.810 210 31 3 3868 4076 78778362 78778155 3.220000e-46 196


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 TraesCS3B01G239800 chr3B 378206405 378210483 4078 True 7533.0 7533 100.0000 1 4079 1 chr3B.!!$R1 4078
1 TraesCS3B01G239800 chr3D 285004692 285009699 5007 False 2811.0 5317 96.7465 1 3481 2 chr3D.!!$F3 3480
2 TraesCS3B01G239800 chr3A 372456798 372460620 3822 False 2677.5 4817 93.4040 1 3822 2 chr3A.!!$F1 3821

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
778 805 0.041238 TACCACTCCCCTCACCTCAG 59.959 60.0 0.00 0.0 0.0 3.35 F
1057 1129 0.556747 TAGCACCTCCTCCTCCTACC 59.443 60.0 0.00 0.0 0.0 3.18 F
2217 2316 0.902516 AGAAGAAGAGGAGCGGCAGT 60.903 55.0 1.45 0.0 0.0 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1596 1695 0.595053 CCGGGATCGTCTTCACATCG 60.595 60.0 0.00 0.00 33.95 3.84 R
2917 3016 0.619832 TGGATCTGCAGCTTCTCCCT 60.620 55.0 9.47 0.00 0.00 4.20 R
4030 5676 0.316841 TGGTTTCGATTGGCCAAAGC 59.683 50.0 24.71 15.67 38.76 3.51 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
20 23 3.641437 TGTTGCTTAGTTGTGGATTGC 57.359 42.857 0.00 0.00 0.00 3.56
490 506 3.583086 ACTGGGATGCAACTACTACACTT 59.417 43.478 0.00 0.00 0.00 3.16
491 507 4.775780 ACTGGGATGCAACTACTACACTTA 59.224 41.667 0.00 0.00 0.00 2.24
492 508 5.105310 ACTGGGATGCAACTACTACACTTAG 60.105 44.000 0.00 0.00 0.00 2.18
493 509 4.775780 TGGGATGCAACTACTACACTTAGT 59.224 41.667 0.00 0.00 41.69 2.24
494 510 5.953548 TGGGATGCAACTACTACACTTAGTA 59.046 40.000 0.00 0.00 39.43 1.82
569 588 5.107143 CGCGTAATTCCTACTAGTACTCCTC 60.107 48.000 0.00 0.00 0.00 3.71
570 589 5.181056 GCGTAATTCCTACTAGTACTCCTCC 59.819 48.000 0.00 0.00 0.00 4.30
571 590 6.532826 CGTAATTCCTACTAGTACTCCTCCT 58.467 44.000 0.00 0.00 0.00 3.69
632 659 7.599245 AGAAAAGATTAACGTTCACTAGTCCAG 59.401 37.037 2.82 0.00 0.00 3.86
648 675 3.066900 AGTCCAGCGCATTACACTAGTAG 59.933 47.826 11.47 0.00 0.00 2.57
649 676 3.021695 TCCAGCGCATTACACTAGTAGT 58.978 45.455 11.47 0.00 0.00 2.73
650 677 4.036027 GTCCAGCGCATTACACTAGTAGTA 59.964 45.833 11.47 0.00 0.00 1.82
651 678 4.275196 TCCAGCGCATTACACTAGTAGTAG 59.725 45.833 11.47 2.87 0.00 2.57
652 679 4.036498 CCAGCGCATTACACTAGTAGTAGT 59.964 45.833 11.47 4.29 40.38 2.73
653 680 5.237996 CCAGCGCATTACACTAGTAGTAGTA 59.762 44.000 11.47 5.63 37.40 1.82
734 761 2.839975 TGATTCCGTGCCGCATAATAA 58.160 42.857 0.00 0.00 0.00 1.40
777 804 0.252103 GTACCACTCCCCTCACCTCA 60.252 60.000 0.00 0.00 0.00 3.86
778 805 0.041238 TACCACTCCCCTCACCTCAG 59.959 60.000 0.00 0.00 0.00 3.35
891 948 6.857848 AGAGAGAGAGAGAGAGAGAGAGATA 58.142 44.000 0.00 0.00 0.00 1.98
928 985 1.706443 GAACCATTTTGCTGCTGCTC 58.294 50.000 17.00 0.00 40.48 4.26
952 1024 1.659794 GCCTTTCTGCGCTTTTGGA 59.340 52.632 9.73 0.00 0.00 3.53
1057 1129 0.556747 TAGCACCTCCTCCTCCTACC 59.443 60.000 0.00 0.00 0.00 3.18
1158 1230 3.157949 CTCTTCCTCCCCTCCGCC 61.158 72.222 0.00 0.00 0.00 6.13
1260 1335 4.925861 GCCATCCTCTGCGGCCTC 62.926 72.222 0.00 0.00 40.07 4.70
1557 1635 4.509737 GAGCTGTACCGGACCCGC 62.510 72.222 9.46 5.89 38.24 6.13
2019 2118 3.580319 GAACCACCACCTGCCCCT 61.580 66.667 0.00 0.00 0.00 4.79
2217 2316 0.902516 AGAAGAAGAGGAGCGGCAGT 60.903 55.000 1.45 0.00 0.00 4.40
2319 2418 2.520458 CACCACCACCACCACCAT 59.480 61.111 0.00 0.00 0.00 3.55
2917 3016 3.119459 GCTGGAGAAGATCAACTCGTACA 60.119 47.826 11.22 5.36 34.40 2.90
3128 3233 1.786579 GTTGCATTGACGCTTGGAAAC 59.213 47.619 0.00 0.00 0.00 2.78
3149 3254 7.361286 GGAAACAACAGAGAGAAAAGCGAATAT 60.361 37.037 0.00 0.00 0.00 1.28
3150 3255 7.440523 AACAACAGAGAGAAAAGCGAATATT 57.559 32.000 0.00 0.00 0.00 1.28
3500 5145 8.623030 GGAGTATAGTCGTAGAAAGTGAAAGAT 58.377 37.037 1.45 0.00 39.69 2.40
3508 5153 8.640291 GTCGTAGAAAGTGAAAGATCTTTACAG 58.360 37.037 20.51 9.02 39.69 2.74
3587 5232 4.067896 GTGATCGTGGATGATTTGCCTAT 58.932 43.478 0.00 0.00 0.00 2.57
3611 5256 4.212004 GCTGATATACCACGTACGTACTCA 59.788 45.833 22.34 15.03 0.00 3.41
3645 5291 1.391485 GTAGTGTTGCATGAGCTGTCG 59.609 52.381 0.00 0.00 42.74 4.35
3648 5294 1.293963 TGTTGCATGAGCTGTCGAGC 61.294 55.000 0.00 0.00 46.64 5.03
3721 5367 0.675633 GATTGTGCCCAGTTGTGCTT 59.324 50.000 0.00 0.00 0.00 3.91
3740 5386 3.366374 GCTTATCATATTTTGGGCCTCGC 60.366 47.826 4.53 0.00 0.00 5.03
3773 5419 2.029110 CCATCCATCCACACAACCAAAC 60.029 50.000 0.00 0.00 0.00 2.93
3775 5421 1.028905 CCATCCACACAACCAAACGT 58.971 50.000 0.00 0.00 0.00 3.99
3812 5458 7.651704 ACCAACCTCAAATCAAAATAGAAAACG 59.348 33.333 0.00 0.00 0.00 3.60
3822 5468 8.700722 ATCAAAATAGAAAACGCATGCAAATA 57.299 26.923 19.57 1.63 0.00 1.40
3823 5469 7.948137 TCAAAATAGAAAACGCATGCAAATAC 58.052 30.769 19.57 5.81 0.00 1.89
3824 5470 7.812191 TCAAAATAGAAAACGCATGCAAATACT 59.188 29.630 19.57 12.87 0.00 2.12
3825 5471 7.740519 AAATAGAAAACGCATGCAAATACTC 57.259 32.000 19.57 5.98 0.00 2.59
3826 5472 4.096732 AGAAAACGCATGCAAATACTCC 57.903 40.909 19.57 0.00 0.00 3.85
3827 5473 2.939460 AAACGCATGCAAATACTCCC 57.061 45.000 19.57 0.00 0.00 4.30
3828 5474 2.128771 AACGCATGCAAATACTCCCT 57.871 45.000 19.57 0.00 0.00 4.20
3829 5475 2.128771 ACGCATGCAAATACTCCCTT 57.871 45.000 19.57 0.00 0.00 3.95
3830 5476 2.017049 ACGCATGCAAATACTCCCTTC 58.983 47.619 19.57 0.00 0.00 3.46
3831 5477 1.334869 CGCATGCAAATACTCCCTTCC 59.665 52.381 19.57 0.00 0.00 3.46
3832 5478 2.659428 GCATGCAAATACTCCCTTCCT 58.341 47.619 14.21 0.00 0.00 3.36
3833 5479 2.620585 GCATGCAAATACTCCCTTCCTC 59.379 50.000 14.21 0.00 0.00 3.71
3834 5480 3.217626 CATGCAAATACTCCCTTCCTCC 58.782 50.000 0.00 0.00 0.00 4.30
3835 5481 1.564348 TGCAAATACTCCCTTCCTCCC 59.436 52.381 0.00 0.00 0.00 4.30
3836 5482 1.564348 GCAAATACTCCCTTCCTCCCA 59.436 52.381 0.00 0.00 0.00 4.37
3837 5483 2.175715 GCAAATACTCCCTTCCTCCCAT 59.824 50.000 0.00 0.00 0.00 4.00
3838 5484 3.394606 GCAAATACTCCCTTCCTCCCATA 59.605 47.826 0.00 0.00 0.00 2.74
3839 5485 4.141251 GCAAATACTCCCTTCCTCCCATAA 60.141 45.833 0.00 0.00 0.00 1.90
3840 5486 5.458215 GCAAATACTCCCTTCCTCCCATAAT 60.458 44.000 0.00 0.00 0.00 1.28
3841 5487 6.240176 GCAAATACTCCCTTCCTCCCATAATA 60.240 42.308 0.00 0.00 0.00 0.98
3842 5488 7.531269 GCAAATACTCCCTTCCTCCCATAATAT 60.531 40.741 0.00 0.00 0.00 1.28
3843 5489 9.057911 CAAATACTCCCTTCCTCCCATAATATA 57.942 37.037 0.00 0.00 0.00 0.86
3844 5490 9.643778 AAATACTCCCTTCCTCCCATAATATAA 57.356 33.333 0.00 0.00 0.00 0.98
3845 5491 6.954352 ACTCCCTTCCTCCCATAATATAAC 57.046 41.667 0.00 0.00 0.00 1.89
3846 5492 6.399013 ACTCCCTTCCTCCCATAATATAACA 58.601 40.000 0.00 0.00 0.00 2.41
3847 5493 6.272558 ACTCCCTTCCTCCCATAATATAACAC 59.727 42.308 0.00 0.00 0.00 3.32
3848 5494 5.247564 TCCCTTCCTCCCATAATATAACACG 59.752 44.000 0.00 0.00 0.00 4.49
3849 5495 5.012768 CCCTTCCTCCCATAATATAACACGT 59.987 44.000 0.00 0.00 0.00 4.49
3850 5496 6.465321 CCCTTCCTCCCATAATATAACACGTT 60.465 42.308 0.00 0.00 0.00 3.99
3851 5497 6.996282 CCTTCCTCCCATAATATAACACGTTT 59.004 38.462 0.00 0.00 0.00 3.60
3852 5498 7.501225 CCTTCCTCCCATAATATAACACGTTTT 59.499 37.037 0.00 0.00 0.00 2.43
3853 5499 8.810990 TTCCTCCCATAATATAACACGTTTTT 57.189 30.769 0.00 0.00 0.00 1.94
3854 5500 8.215926 TCCTCCCATAATATAACACGTTTTTG 57.784 34.615 0.00 0.00 0.00 2.44
3855 5501 8.047911 TCCTCCCATAATATAACACGTTTTTGA 58.952 33.333 0.00 0.00 0.00 2.69
3856 5502 8.126700 CCTCCCATAATATAACACGTTTTTGAC 58.873 37.037 0.00 0.00 0.00 3.18
3857 5503 8.563123 TCCCATAATATAACACGTTTTTGACA 57.437 30.769 0.00 0.00 0.00 3.58
3858 5504 8.452534 TCCCATAATATAACACGTTTTTGACAC 58.547 33.333 0.00 0.00 0.00 3.67
3859 5505 8.455682 CCCATAATATAACACGTTTTTGACACT 58.544 33.333 0.00 0.00 0.00 3.55
3864 5510 9.485206 AATATAACACGTTTTTGACACTAGTCT 57.515 29.630 0.00 0.00 45.20 3.24
3869 5515 8.684973 ACACGTTTTTGACACTAGTCTATATC 57.315 34.615 0.00 0.00 45.20 1.63
3870 5516 8.521176 ACACGTTTTTGACACTAGTCTATATCT 58.479 33.333 0.00 0.00 45.20 1.98
3871 5517 9.999009 CACGTTTTTGACACTAGTCTATATCTA 57.001 33.333 0.00 0.00 45.20 1.98
3925 5571 9.959749 AATAAAGTAATGTGTGTTTCGTCAATT 57.040 25.926 0.00 0.00 0.00 2.32
3926 5572 9.959749 ATAAAGTAATGTGTGTTTCGTCAATTT 57.040 25.926 0.00 0.00 0.00 1.82
3927 5573 8.696410 AAAGTAATGTGTGTTTCGTCAATTTT 57.304 26.923 0.00 0.00 0.00 1.82
3928 5574 8.696410 AAGTAATGTGTGTTTCGTCAATTTTT 57.304 26.923 0.00 0.00 0.00 1.94
3929 5575 8.335256 AGTAATGTGTGTTTCGTCAATTTTTC 57.665 30.769 0.00 0.00 0.00 2.29
3930 5576 6.582437 AATGTGTGTTTCGTCAATTTTTCC 57.418 33.333 0.00 0.00 0.00 3.13
3931 5577 5.060662 TGTGTGTTTCGTCAATTTTTCCA 57.939 34.783 0.00 0.00 0.00 3.53
3932 5578 5.655488 TGTGTGTTTCGTCAATTTTTCCAT 58.345 33.333 0.00 0.00 0.00 3.41
3933 5579 5.746245 TGTGTGTTTCGTCAATTTTTCCATC 59.254 36.000 0.00 0.00 0.00 3.51
3934 5580 5.977129 GTGTGTTTCGTCAATTTTTCCATCT 59.023 36.000 0.00 0.00 0.00 2.90
3935 5581 5.976534 TGTGTTTCGTCAATTTTTCCATCTG 59.023 36.000 0.00 0.00 0.00 2.90
3936 5582 5.977129 GTGTTTCGTCAATTTTTCCATCTGT 59.023 36.000 0.00 0.00 0.00 3.41
3937 5583 6.475402 GTGTTTCGTCAATTTTTCCATCTGTT 59.525 34.615 0.00 0.00 0.00 3.16
3938 5584 6.695278 TGTTTCGTCAATTTTTCCATCTGTTC 59.305 34.615 0.00 0.00 0.00 3.18
3939 5585 6.384258 TTCGTCAATTTTTCCATCTGTTCA 57.616 33.333 0.00 0.00 0.00 3.18
3940 5586 6.573664 TCGTCAATTTTTCCATCTGTTCAT 57.426 33.333 0.00 0.00 0.00 2.57
3941 5587 6.611381 TCGTCAATTTTTCCATCTGTTCATC 58.389 36.000 0.00 0.00 0.00 2.92
3942 5588 5.509272 CGTCAATTTTTCCATCTGTTCATCG 59.491 40.000 0.00 0.00 0.00 3.84
3943 5589 6.381801 GTCAATTTTTCCATCTGTTCATCGT 58.618 36.000 0.00 0.00 0.00 3.73
3944 5590 6.524586 GTCAATTTTTCCATCTGTTCATCGTC 59.475 38.462 0.00 0.00 0.00 4.20
3945 5591 4.661993 TTTTTCCATCTGTTCATCGTCG 57.338 40.909 0.00 0.00 0.00 5.12
3946 5592 3.586100 TTTCCATCTGTTCATCGTCGA 57.414 42.857 0.00 0.00 0.00 4.20
3947 5593 3.586100 TTCCATCTGTTCATCGTCGAA 57.414 42.857 0.00 0.00 0.00 3.71
3948 5594 3.586100 TCCATCTGTTCATCGTCGAAA 57.414 42.857 0.00 0.00 0.00 3.46
3949 5595 3.920446 TCCATCTGTTCATCGTCGAAAA 58.080 40.909 0.00 0.00 0.00 2.29
3950 5596 3.926527 TCCATCTGTTCATCGTCGAAAAG 59.073 43.478 0.00 1.68 32.33 2.27
3951 5597 3.926527 CCATCTGTTCATCGTCGAAAAGA 59.073 43.478 0.00 10.51 42.18 2.52
3952 5598 4.388773 CCATCTGTTCATCGTCGAAAAGAA 59.611 41.667 11.67 1.49 41.49 2.52
3953 5599 5.063944 CCATCTGTTCATCGTCGAAAAGAAT 59.936 40.000 11.67 1.94 41.49 2.40
3954 5600 6.402550 CCATCTGTTCATCGTCGAAAAGAATT 60.403 38.462 11.67 0.00 41.49 2.17
3955 5601 6.539649 TCTGTTCATCGTCGAAAAGAATTT 57.460 33.333 0.00 0.00 42.41 1.82
3972 5618 3.220447 TTTTTCCTACGCGAGGTGG 57.780 52.632 15.93 9.16 46.76 4.61
3973 5619 0.393820 TTTTTCCTACGCGAGGTGGT 59.606 50.000 15.93 0.00 46.76 4.16
3974 5620 1.255882 TTTTCCTACGCGAGGTGGTA 58.744 50.000 15.93 0.00 46.76 3.25
3975 5621 0.527565 TTTCCTACGCGAGGTGGTAC 59.472 55.000 15.93 0.00 46.76 3.34
3976 5622 0.322816 TTCCTACGCGAGGTGGTACT 60.323 55.000 15.93 0.00 46.76 2.73
3977 5623 0.541392 TCCTACGCGAGGTGGTACTA 59.459 55.000 15.93 0.00 46.76 1.82
3978 5624 1.065491 TCCTACGCGAGGTGGTACTAA 60.065 52.381 15.93 0.00 46.76 2.24
3979 5625 1.332997 CCTACGCGAGGTGGTACTAAG 59.667 57.143 15.93 0.00 40.98 2.18
3980 5626 2.012673 CTACGCGAGGTGGTACTAAGT 58.987 52.381 15.93 0.00 0.00 2.24
3981 5627 1.251251 ACGCGAGGTGGTACTAAGTT 58.749 50.000 15.93 0.00 0.00 2.66
3982 5628 1.200948 ACGCGAGGTGGTACTAAGTTC 59.799 52.381 15.93 0.00 0.00 3.01
3983 5629 1.471684 CGCGAGGTGGTACTAAGTTCT 59.528 52.381 0.00 0.00 0.00 3.01
3984 5630 2.094854 CGCGAGGTGGTACTAAGTTCTT 60.095 50.000 0.00 0.00 0.00 2.52
3985 5631 3.127548 CGCGAGGTGGTACTAAGTTCTTA 59.872 47.826 0.00 0.00 0.00 2.10
3986 5632 4.201990 CGCGAGGTGGTACTAAGTTCTTAT 60.202 45.833 0.00 0.00 0.00 1.73
3987 5633 5.041940 GCGAGGTGGTACTAAGTTCTTATG 58.958 45.833 0.00 0.00 0.00 1.90
3988 5634 5.393896 GCGAGGTGGTACTAAGTTCTTATGT 60.394 44.000 0.00 0.00 0.00 2.29
3989 5635 6.034591 CGAGGTGGTACTAAGTTCTTATGTG 58.965 44.000 0.00 0.00 0.00 3.21
3990 5636 6.349944 CGAGGTGGTACTAAGTTCTTATGTGT 60.350 42.308 0.00 0.00 0.00 3.72
3991 5637 7.312415 AGGTGGTACTAAGTTCTTATGTGTT 57.688 36.000 0.00 0.00 0.00 3.32
3992 5638 7.742767 AGGTGGTACTAAGTTCTTATGTGTTT 58.257 34.615 0.00 0.00 0.00 2.83
3993 5639 7.660208 AGGTGGTACTAAGTTCTTATGTGTTTG 59.340 37.037 0.00 0.00 0.00 2.93
3994 5640 7.443272 GGTGGTACTAAGTTCTTATGTGTTTGT 59.557 37.037 0.00 0.00 0.00 2.83
3995 5641 8.493547 GTGGTACTAAGTTCTTATGTGTTTGTC 58.506 37.037 0.00 0.00 0.00 3.18
3996 5642 8.426489 TGGTACTAAGTTCTTATGTGTTTGTCT 58.574 33.333 0.00 0.00 0.00 3.41
3997 5643 8.709646 GGTACTAAGTTCTTATGTGTTTGTCTG 58.290 37.037 0.00 0.00 0.00 3.51
3998 5644 7.190920 ACTAAGTTCTTATGTGTTTGTCTGC 57.809 36.000 0.00 0.00 0.00 4.26
3999 5645 6.992715 ACTAAGTTCTTATGTGTTTGTCTGCT 59.007 34.615 0.00 0.00 0.00 4.24
4000 5646 8.148351 ACTAAGTTCTTATGTGTTTGTCTGCTA 58.852 33.333 0.00 0.00 0.00 3.49
4001 5647 7.426929 AAGTTCTTATGTGTTTGTCTGCTAG 57.573 36.000 0.00 0.00 0.00 3.42
4002 5648 6.759272 AGTTCTTATGTGTTTGTCTGCTAGA 58.241 36.000 0.00 0.00 0.00 2.43
4003 5649 7.217200 AGTTCTTATGTGTTTGTCTGCTAGAA 58.783 34.615 0.00 0.00 0.00 2.10
4004 5650 7.715249 AGTTCTTATGTGTTTGTCTGCTAGAAA 59.285 33.333 0.00 0.00 0.00 2.52
4005 5651 8.342634 GTTCTTATGTGTTTGTCTGCTAGAAAA 58.657 33.333 0.00 0.00 0.00 2.29
4006 5652 8.445275 TCTTATGTGTTTGTCTGCTAGAAAAA 57.555 30.769 0.00 0.00 29.36 1.94
4007 5653 8.559536 TCTTATGTGTTTGTCTGCTAGAAAAAG 58.440 33.333 0.00 0.00 32.44 2.27
4008 5654 6.942532 ATGTGTTTGTCTGCTAGAAAAAGA 57.057 33.333 0.00 0.09 32.44 2.52
4009 5655 6.751514 TGTGTTTGTCTGCTAGAAAAAGAA 57.248 33.333 0.00 0.00 32.44 2.52
4010 5656 7.333528 TGTGTTTGTCTGCTAGAAAAAGAAT 57.666 32.000 0.00 0.00 32.44 2.40
4011 5657 7.771183 TGTGTTTGTCTGCTAGAAAAAGAATT 58.229 30.769 0.00 0.00 32.44 2.17
4012 5658 8.250332 TGTGTTTGTCTGCTAGAAAAAGAATTT 58.750 29.630 0.00 0.00 42.41 1.82
4013 5659 8.746751 GTGTTTGTCTGCTAGAAAAAGAATTTC 58.253 33.333 0.00 0.00 37.28 2.17
4014 5660 7.920682 TGTTTGTCTGCTAGAAAAAGAATTTCC 59.079 33.333 0.00 0.00 37.28 3.13
4015 5661 6.241207 TGTCTGCTAGAAAAAGAATTTCCG 57.759 37.500 0.00 0.00 37.28 4.30
4016 5662 5.763204 TGTCTGCTAGAAAAAGAATTTCCGT 59.237 36.000 0.00 0.00 37.28 4.69
4017 5663 6.932400 TGTCTGCTAGAAAAAGAATTTCCGTA 59.068 34.615 0.00 0.00 37.28 4.02
4018 5664 7.095355 TGTCTGCTAGAAAAAGAATTTCCGTAC 60.095 37.037 0.00 0.00 37.28 3.67
4019 5665 6.090358 TCTGCTAGAAAAAGAATTTCCGTACG 59.910 38.462 8.69 8.69 37.28 3.67
4020 5666 5.697633 TGCTAGAAAAAGAATTTCCGTACGT 59.302 36.000 15.21 0.00 37.28 3.57
4021 5667 6.867816 TGCTAGAAAAAGAATTTCCGTACGTA 59.132 34.615 15.21 0.00 37.28 3.57
4022 5668 7.062605 TGCTAGAAAAAGAATTTCCGTACGTAG 59.937 37.037 15.21 5.10 37.28 3.51
4023 5669 6.716898 AGAAAAAGAATTTCCGTACGTAGG 57.283 37.500 15.21 8.30 37.28 3.18
4024 5670 4.934075 AAAAGAATTTCCGTACGTAGGC 57.066 40.909 15.21 0.00 37.28 3.93
4025 5671 2.591571 AGAATTTCCGTACGTAGGCC 57.408 50.000 15.21 0.00 0.00 5.19
4026 5672 1.202336 AGAATTTCCGTACGTAGGCCG 60.202 52.381 15.21 3.51 44.03 6.13
4027 5673 0.807275 AATTTCCGTACGTAGGCCGC 60.807 55.000 15.21 0.00 41.42 6.53
4028 5674 2.941964 ATTTCCGTACGTAGGCCGCG 62.942 60.000 15.21 18.70 41.42 6.46
4044 5690 3.798650 CGCGCTTTGGCCAATCGA 61.799 61.111 31.96 14.92 34.44 3.59
4045 5691 2.566010 GCGCTTTGGCCAATCGAA 59.434 55.556 31.96 14.59 34.44 3.71
4046 5692 1.080839 GCGCTTTGGCCAATCGAAA 60.081 52.632 31.96 14.25 34.44 3.46
4047 5693 1.344226 GCGCTTTGGCCAATCGAAAC 61.344 55.000 31.96 17.65 34.44 2.78
4048 5694 0.732538 CGCTTTGGCCAATCGAAACC 60.733 55.000 26.91 8.86 34.44 3.27
4049 5695 0.316841 GCTTTGGCCAATCGAAACCA 59.683 50.000 21.26 0.00 0.00 3.67
4050 5696 1.669795 GCTTTGGCCAATCGAAACCAG 60.670 52.381 21.26 12.11 32.79 4.00
4051 5697 0.316841 TTTGGCCAATCGAAACCAGC 59.683 50.000 21.26 0.00 32.79 4.85
4052 5698 1.531739 TTGGCCAATCGAAACCAGCC 61.532 55.000 16.05 8.00 40.87 4.85
4053 5699 2.710902 GGCCAATCGAAACCAGCCC 61.711 63.158 0.00 0.00 34.23 5.19
4054 5700 1.976474 GCCAATCGAAACCAGCCCA 60.976 57.895 0.00 0.00 0.00 5.36
4055 5701 1.883021 CCAATCGAAACCAGCCCAC 59.117 57.895 0.00 0.00 0.00 4.61
4056 5702 0.609131 CCAATCGAAACCAGCCCACT 60.609 55.000 0.00 0.00 0.00 4.00
4057 5703 1.247567 CAATCGAAACCAGCCCACTT 58.752 50.000 0.00 0.00 0.00 3.16
4058 5704 2.432444 CAATCGAAACCAGCCCACTTA 58.568 47.619 0.00 0.00 0.00 2.24
4059 5705 3.016736 CAATCGAAACCAGCCCACTTAT 58.983 45.455 0.00 0.00 0.00 1.73
4060 5706 2.871096 TCGAAACCAGCCCACTTATT 57.129 45.000 0.00 0.00 0.00 1.40
4061 5707 3.149005 TCGAAACCAGCCCACTTATTT 57.851 42.857 0.00 0.00 0.00 1.40
4062 5708 3.492337 TCGAAACCAGCCCACTTATTTT 58.508 40.909 0.00 0.00 0.00 1.82
4063 5709 3.892588 TCGAAACCAGCCCACTTATTTTT 59.107 39.130 0.00 0.00 0.00 1.94
4064 5710 4.022676 TCGAAACCAGCCCACTTATTTTTC 60.023 41.667 0.00 0.00 0.00 2.29
4065 5711 4.022329 CGAAACCAGCCCACTTATTTTTCT 60.022 41.667 0.00 0.00 0.00 2.52
4066 5712 4.871933 AACCAGCCCACTTATTTTTCTG 57.128 40.909 0.00 0.00 0.00 3.02
4067 5713 2.562738 ACCAGCCCACTTATTTTTCTGC 59.437 45.455 0.00 0.00 0.00 4.26
4068 5714 2.094026 CCAGCCCACTTATTTTTCTGCC 60.094 50.000 0.00 0.00 0.00 4.85
4069 5715 2.094026 CAGCCCACTTATTTTTCTGCCC 60.094 50.000 0.00 0.00 0.00 5.36
4070 5716 1.899142 GCCCACTTATTTTTCTGCCCA 59.101 47.619 0.00 0.00 0.00 5.36
4071 5717 2.501316 GCCCACTTATTTTTCTGCCCAT 59.499 45.455 0.00 0.00 0.00 4.00
4072 5718 3.679639 GCCCACTTATTTTTCTGCCCATG 60.680 47.826 0.00 0.00 0.00 3.66
4073 5719 3.524541 CCACTTATTTTTCTGCCCATGC 58.475 45.455 0.00 0.00 38.26 4.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 23 3.615224 ACCCATGCAAATTTAGCCTTG 57.385 42.857 0.00 7.46 0.00 3.61
72 75 5.368989 GTTTTCTTCTCTTCTCACCCTCAA 58.631 41.667 0.00 0.00 0.00 3.02
73 76 4.202367 GGTTTTCTTCTCTTCTCACCCTCA 60.202 45.833 0.00 0.00 0.00 3.86
74 77 4.320023 GGTTTTCTTCTCTTCTCACCCTC 58.680 47.826 0.00 0.00 0.00 4.30
75 78 3.073209 GGGTTTTCTTCTCTTCTCACCCT 59.927 47.826 0.00 0.00 39.75 4.34
76 79 3.073209 AGGGTTTTCTTCTCTTCTCACCC 59.927 47.826 0.00 0.00 42.74 4.61
77 80 4.068599 CAGGGTTTTCTTCTCTTCTCACC 58.931 47.826 0.00 0.00 0.00 4.02
490 506 3.691118 CGGTGCCAAGTACTACACTACTA 59.309 47.826 17.94 0.00 36.04 1.82
491 507 2.490903 CGGTGCCAAGTACTACACTACT 59.509 50.000 17.94 0.00 36.04 2.57
492 508 2.489329 TCGGTGCCAAGTACTACACTAC 59.511 50.000 17.94 6.24 36.04 2.73
493 509 2.794103 TCGGTGCCAAGTACTACACTA 58.206 47.619 17.94 8.41 36.04 2.74
494 510 1.624336 TCGGTGCCAAGTACTACACT 58.376 50.000 17.94 0.00 40.05 3.55
495 511 2.334838 CTTCGGTGCCAAGTACTACAC 58.665 52.381 12.78 12.78 0.00 2.90
496 512 1.274167 CCTTCGGTGCCAAGTACTACA 59.726 52.381 0.00 0.00 0.00 2.74
499 515 1.002087 CTTCCTTCGGTGCCAAGTACT 59.998 52.381 0.00 0.00 0.00 2.73
632 659 8.167985 GTCTATACTACTACTAGTGTAATGCGC 58.832 40.741 5.39 0.00 34.79 6.09
648 675 5.360144 TGTTGGGCTTCTGAGTCTATACTAC 59.640 44.000 0.00 0.00 35.56 2.73
649 676 5.516044 TGTTGGGCTTCTGAGTCTATACTA 58.484 41.667 0.00 0.00 35.56 1.82
650 677 4.353777 TGTTGGGCTTCTGAGTCTATACT 58.646 43.478 0.00 0.00 39.21 2.12
651 678 4.737855 TGTTGGGCTTCTGAGTCTATAC 57.262 45.455 0.00 0.00 0.00 1.47
652 679 5.425217 TGATTGTTGGGCTTCTGAGTCTATA 59.575 40.000 0.00 0.00 0.00 1.31
653 680 4.225942 TGATTGTTGGGCTTCTGAGTCTAT 59.774 41.667 0.00 0.00 0.00 1.98
734 761 3.444388 TGCTTAAGTTGTTTGTCCGGTTT 59.556 39.130 0.00 0.00 0.00 3.27
777 804 0.896019 CGTGAGGTGAGGTGAGGTCT 60.896 60.000 0.00 0.00 0.00 3.85
778 805 1.179814 ACGTGAGGTGAGGTGAGGTC 61.180 60.000 0.00 0.00 0.00 3.85
891 948 1.745232 TCGTGTGTGGAGCTTTTTGT 58.255 45.000 0.00 0.00 0.00 2.83
928 985 1.809567 AAGCGCAGAAAGGCCAAAGG 61.810 55.000 11.47 0.00 0.00 3.11
952 1024 0.447801 GCACGGTTGAGATGCGAAAT 59.552 50.000 0.00 0.00 0.00 2.17
1210 1285 2.260743 GAGGTTGACGACGTCCCC 59.739 66.667 24.33 22.12 37.22 4.81
1557 1635 4.939915 CGATCGGCGTCGTCTCGG 62.940 72.222 22.65 9.51 38.19 4.63
1576 1675 4.180946 CGACGTCCTCCTGAGCGG 62.181 72.222 10.58 0.00 0.00 5.52
1596 1695 0.595053 CCGGGATCGTCTTCACATCG 60.595 60.000 0.00 0.00 33.95 3.84
2917 3016 0.619832 TGGATCTGCAGCTTCTCCCT 60.620 55.000 9.47 0.00 0.00 4.20
3068 3173 4.616181 AGAATTCGAATTTACAAGCCGG 57.384 40.909 23.49 0.00 0.00 6.13
3128 3233 8.733857 AAAAATATTCGCTTTTCTCTCTGTTG 57.266 30.769 0.00 0.00 0.00 3.33
3439 5084 6.461110 TCTGGCCATGTTAAGTAGTACTAC 57.539 41.667 23.03 23.03 36.35 2.73
3458 5103 2.510238 CCTCGCCGAGCTTTCTGG 60.510 66.667 9.01 0.00 0.00 3.86
3587 5232 4.129380 AGTACGTACGTGGTATATCAGCA 58.871 43.478 30.25 2.87 0.00 4.41
3611 5256 4.520078 CAACACTACAAAAACGCACGTAT 58.480 39.130 0.00 0.00 0.00 3.06
3617 5262 3.367607 TCATGCAACACTACAAAAACGC 58.632 40.909 0.00 0.00 0.00 4.84
3645 5291 6.913170 TCCAAACACAGAAATCATTAAGCTC 58.087 36.000 0.00 0.00 0.00 4.09
3650 5296 9.253832 ACCAATATCCAAACACAGAAATCATTA 57.746 29.630 0.00 0.00 0.00 1.90
3655 5301 5.622007 CGCACCAATATCCAAACACAGAAAT 60.622 40.000 0.00 0.00 0.00 2.17
3659 5305 2.159393 CCGCACCAATATCCAAACACAG 60.159 50.000 0.00 0.00 0.00 3.66
3660 5306 1.815613 CCGCACCAATATCCAAACACA 59.184 47.619 0.00 0.00 0.00 3.72
3721 5367 2.224426 ACGCGAGGCCCAAAATATGATA 60.224 45.455 15.93 0.00 0.00 2.15
3773 5419 0.733566 GGTTGGTGATGCATGCAACG 60.734 55.000 26.68 0.00 0.00 4.10
3775 5421 0.889994 GAGGTTGGTGATGCATGCAA 59.110 50.000 26.68 6.15 0.00 4.08
3812 5458 2.620585 GAGGAAGGGAGTATTTGCATGC 59.379 50.000 11.82 11.82 0.00 4.06
3822 5468 6.272558 GTGTTATATTATGGGAGGAAGGGAGT 59.727 42.308 0.00 0.00 0.00 3.85
3823 5469 6.574465 CGTGTTATATTATGGGAGGAAGGGAG 60.574 46.154 0.00 0.00 0.00 4.30
3824 5470 5.247564 CGTGTTATATTATGGGAGGAAGGGA 59.752 44.000 0.00 0.00 0.00 4.20
3825 5471 5.012768 ACGTGTTATATTATGGGAGGAAGGG 59.987 44.000 0.00 0.00 0.00 3.95
3826 5472 6.110411 ACGTGTTATATTATGGGAGGAAGG 57.890 41.667 0.00 0.00 0.00 3.46
3827 5473 8.446599 AAAACGTGTTATATTATGGGAGGAAG 57.553 34.615 0.00 0.00 0.00 3.46
3828 5474 8.679100 CAAAAACGTGTTATATTATGGGAGGAA 58.321 33.333 0.00 0.00 0.00 3.36
3829 5475 8.047911 TCAAAAACGTGTTATATTATGGGAGGA 58.952 33.333 0.00 0.00 0.00 3.71
3830 5476 8.126700 GTCAAAAACGTGTTATATTATGGGAGG 58.873 37.037 0.00 0.00 0.00 4.30
3831 5477 8.670135 TGTCAAAAACGTGTTATATTATGGGAG 58.330 33.333 0.00 0.00 0.00 4.30
3832 5478 8.452534 GTGTCAAAAACGTGTTATATTATGGGA 58.547 33.333 0.00 0.00 0.00 4.37
3833 5479 8.455682 AGTGTCAAAAACGTGTTATATTATGGG 58.544 33.333 0.00 0.00 0.00 4.00
3838 5484 9.485206 AGACTAGTGTCAAAAACGTGTTATATT 57.515 29.630 0.00 0.00 45.20 1.28
3843 5489 9.136952 GATATAGACTAGTGTCAAAAACGTGTT 57.863 33.333 0.00 0.00 45.20 3.32
3844 5490 8.521176 AGATATAGACTAGTGTCAAAAACGTGT 58.479 33.333 0.00 0.00 45.20 4.49
3845 5491 8.912787 AGATATAGACTAGTGTCAAAAACGTG 57.087 34.615 0.00 0.00 45.20 4.49
3899 5545 9.959749 AATTGACGAAACACACATTACTTTATT 57.040 25.926 0.00 0.00 0.00 1.40
3900 5546 9.959749 AAATTGACGAAACACACATTACTTTAT 57.040 25.926 0.00 0.00 0.00 1.40
3901 5547 9.790389 AAAATTGACGAAACACACATTACTTTA 57.210 25.926 0.00 0.00 0.00 1.85
3902 5548 8.696410 AAAATTGACGAAACACACATTACTTT 57.304 26.923 0.00 0.00 0.00 2.66
3903 5549 8.696410 AAAAATTGACGAAACACACATTACTT 57.304 26.923 0.00 0.00 0.00 2.24
3904 5550 7.434013 GGAAAAATTGACGAAACACACATTACT 59.566 33.333 0.00 0.00 0.00 2.24
3905 5551 7.221067 TGGAAAAATTGACGAAACACACATTAC 59.779 33.333 0.00 0.00 0.00 1.89
3906 5552 7.258441 TGGAAAAATTGACGAAACACACATTA 58.742 30.769 0.00 0.00 0.00 1.90
3907 5553 6.102663 TGGAAAAATTGACGAAACACACATT 58.897 32.000 0.00 0.00 0.00 2.71
3908 5554 5.655488 TGGAAAAATTGACGAAACACACAT 58.345 33.333 0.00 0.00 0.00 3.21
3909 5555 5.060662 TGGAAAAATTGACGAAACACACA 57.939 34.783 0.00 0.00 0.00 3.72
3910 5556 5.977129 AGATGGAAAAATTGACGAAACACAC 59.023 36.000 0.00 0.00 0.00 3.82
3911 5557 5.976534 CAGATGGAAAAATTGACGAAACACA 59.023 36.000 0.00 0.00 0.00 3.72
3912 5558 5.977129 ACAGATGGAAAAATTGACGAAACAC 59.023 36.000 0.00 0.00 0.00 3.32
3913 5559 6.142818 ACAGATGGAAAAATTGACGAAACA 57.857 33.333 0.00 0.00 0.00 2.83
3914 5560 6.695278 TGAACAGATGGAAAAATTGACGAAAC 59.305 34.615 0.00 0.00 0.00 2.78
3915 5561 6.800543 TGAACAGATGGAAAAATTGACGAAA 58.199 32.000 0.00 0.00 0.00 3.46
3916 5562 6.384258 TGAACAGATGGAAAAATTGACGAA 57.616 33.333 0.00 0.00 0.00 3.85
3917 5563 6.573664 ATGAACAGATGGAAAAATTGACGA 57.426 33.333 0.00 0.00 0.00 4.20
3918 5564 5.509272 CGATGAACAGATGGAAAAATTGACG 59.491 40.000 0.00 0.00 0.00 4.35
3919 5565 6.381801 ACGATGAACAGATGGAAAAATTGAC 58.618 36.000 0.00 0.00 0.00 3.18
3920 5566 6.573664 ACGATGAACAGATGGAAAAATTGA 57.426 33.333 0.00 0.00 0.00 2.57
3921 5567 5.509272 CGACGATGAACAGATGGAAAAATTG 59.491 40.000 0.00 0.00 0.00 2.32
3922 5568 5.411361 TCGACGATGAACAGATGGAAAAATT 59.589 36.000 0.00 0.00 0.00 1.82
3923 5569 4.935205 TCGACGATGAACAGATGGAAAAAT 59.065 37.500 0.00 0.00 0.00 1.82
3924 5570 4.311606 TCGACGATGAACAGATGGAAAAA 58.688 39.130 0.00 0.00 0.00 1.94
3925 5571 3.920446 TCGACGATGAACAGATGGAAAA 58.080 40.909 0.00 0.00 0.00 2.29
3926 5572 3.586100 TCGACGATGAACAGATGGAAA 57.414 42.857 0.00 0.00 0.00 3.13
3927 5573 3.586100 TTCGACGATGAACAGATGGAA 57.414 42.857 0.00 0.00 0.00 3.53
3928 5574 3.586100 TTTCGACGATGAACAGATGGA 57.414 42.857 0.00 0.00 0.00 3.41
3929 5575 3.926527 TCTTTTCGACGATGAACAGATGG 59.073 43.478 0.00 0.00 31.56 3.51
3930 5576 5.515548 TTCTTTTCGACGATGAACAGATG 57.484 39.130 0.00 0.00 35.32 2.90
3931 5577 6.727824 AATTCTTTTCGACGATGAACAGAT 57.272 33.333 0.00 0.00 35.32 2.90
3932 5578 6.539649 AAATTCTTTTCGACGATGAACAGA 57.460 33.333 0.00 0.00 33.95 3.41
3933 5579 7.608974 AAAAATTCTTTTCGACGATGAACAG 57.391 32.000 0.00 0.00 28.09 3.16
3960 5606 2.012673 ACTTAGTACCACCTCGCGTAG 58.987 52.381 5.77 1.91 0.00 3.51
3961 5607 2.113860 ACTTAGTACCACCTCGCGTA 57.886 50.000 5.77 0.00 0.00 4.42
3962 5608 1.200948 GAACTTAGTACCACCTCGCGT 59.799 52.381 5.77 0.00 0.00 6.01
3963 5609 1.471684 AGAACTTAGTACCACCTCGCG 59.528 52.381 0.00 0.00 0.00 5.87
3964 5610 3.589495 AAGAACTTAGTACCACCTCGC 57.411 47.619 0.00 0.00 0.00 5.03
3965 5611 6.034591 CACATAAGAACTTAGTACCACCTCG 58.965 44.000 0.00 0.00 0.00 4.63
3966 5612 6.932947 ACACATAAGAACTTAGTACCACCTC 58.067 40.000 0.00 0.00 0.00 3.85
3967 5613 6.930068 ACACATAAGAACTTAGTACCACCT 57.070 37.500 0.00 0.00 0.00 4.00
3968 5614 7.443272 ACAAACACATAAGAACTTAGTACCACC 59.557 37.037 0.00 0.00 0.00 4.61
3969 5615 8.374327 ACAAACACATAAGAACTTAGTACCAC 57.626 34.615 0.00 0.00 0.00 4.16
3970 5616 8.426489 AGACAAACACATAAGAACTTAGTACCA 58.574 33.333 0.00 0.00 0.00 3.25
3971 5617 8.709646 CAGACAAACACATAAGAACTTAGTACC 58.290 37.037 0.00 0.00 0.00 3.34
3972 5618 8.221766 GCAGACAAACACATAAGAACTTAGTAC 58.778 37.037 0.00 0.00 0.00 2.73
3973 5619 8.148351 AGCAGACAAACACATAAGAACTTAGTA 58.852 33.333 0.00 0.00 0.00 1.82
3974 5620 6.992715 AGCAGACAAACACATAAGAACTTAGT 59.007 34.615 0.00 0.00 0.00 2.24
3975 5621 7.426929 AGCAGACAAACACATAAGAACTTAG 57.573 36.000 0.00 0.00 0.00 2.18
3976 5622 8.364894 TCTAGCAGACAAACACATAAGAACTTA 58.635 33.333 0.00 0.00 0.00 2.24
3977 5623 7.217200 TCTAGCAGACAAACACATAAGAACTT 58.783 34.615 0.00 0.00 0.00 2.66
3978 5624 6.759272 TCTAGCAGACAAACACATAAGAACT 58.241 36.000 0.00 0.00 0.00 3.01
3979 5625 7.421530 TTCTAGCAGACAAACACATAAGAAC 57.578 36.000 0.00 0.00 0.00 3.01
3980 5626 8.445275 TTTTCTAGCAGACAAACACATAAGAA 57.555 30.769 0.00 0.00 0.00 2.52
3981 5627 8.445275 TTTTTCTAGCAGACAAACACATAAGA 57.555 30.769 0.00 0.00 0.00 2.10
3982 5628 8.559536 TCTTTTTCTAGCAGACAAACACATAAG 58.440 33.333 0.00 0.00 0.00 1.73
3983 5629 8.445275 TCTTTTTCTAGCAGACAAACACATAA 57.555 30.769 0.00 0.00 0.00 1.90
3984 5630 8.445275 TTCTTTTTCTAGCAGACAAACACATA 57.555 30.769 0.00 0.00 0.00 2.29
3985 5631 6.942532 TCTTTTTCTAGCAGACAAACACAT 57.057 33.333 0.00 0.00 0.00 3.21
3986 5632 6.751514 TTCTTTTTCTAGCAGACAAACACA 57.248 33.333 0.00 0.00 0.00 3.72
3987 5633 8.634475 AAATTCTTTTTCTAGCAGACAAACAC 57.366 30.769 0.00 0.00 0.00 3.32
3988 5634 7.920682 GGAAATTCTTTTTCTAGCAGACAAACA 59.079 33.333 0.00 0.00 0.00 2.83
3989 5635 7.113544 CGGAAATTCTTTTTCTAGCAGACAAAC 59.886 37.037 0.00 0.00 0.00 2.93
3990 5636 7.138736 CGGAAATTCTTTTTCTAGCAGACAAA 58.861 34.615 0.00 0.00 0.00 2.83
3991 5637 6.262273 ACGGAAATTCTTTTTCTAGCAGACAA 59.738 34.615 0.00 0.00 0.00 3.18
3992 5638 5.763204 ACGGAAATTCTTTTTCTAGCAGACA 59.237 36.000 0.00 0.00 0.00 3.41
3993 5639 6.242508 ACGGAAATTCTTTTTCTAGCAGAC 57.757 37.500 0.00 0.00 0.00 3.51
3994 5640 6.090358 CGTACGGAAATTCTTTTTCTAGCAGA 59.910 38.462 7.57 0.00 0.00 4.26
3995 5641 6.128634 ACGTACGGAAATTCTTTTTCTAGCAG 60.129 38.462 21.06 0.00 0.00 4.24
3996 5642 5.697633 ACGTACGGAAATTCTTTTTCTAGCA 59.302 36.000 21.06 0.00 0.00 3.49
3997 5643 6.161911 ACGTACGGAAATTCTTTTTCTAGC 57.838 37.500 21.06 0.00 0.00 3.42
3998 5644 7.463780 GCCTACGTACGGAAATTCTTTTTCTAG 60.464 40.741 21.06 6.52 0.00 2.43
3999 5645 6.311200 GCCTACGTACGGAAATTCTTTTTCTA 59.689 38.462 21.06 0.00 0.00 2.10
4000 5646 5.121298 GCCTACGTACGGAAATTCTTTTTCT 59.879 40.000 21.06 0.00 0.00 2.52
4001 5647 5.319139 GCCTACGTACGGAAATTCTTTTTC 58.681 41.667 21.06 0.00 0.00 2.29
4002 5648 4.154737 GGCCTACGTACGGAAATTCTTTTT 59.845 41.667 21.06 0.00 0.00 1.94
4003 5649 3.686241 GGCCTACGTACGGAAATTCTTTT 59.314 43.478 21.06 0.00 0.00 2.27
4004 5650 3.264947 GGCCTACGTACGGAAATTCTTT 58.735 45.455 21.06 0.00 0.00 2.52
4005 5651 2.736400 CGGCCTACGTACGGAAATTCTT 60.736 50.000 21.06 0.00 37.93 2.52
4006 5652 1.202336 CGGCCTACGTACGGAAATTCT 60.202 52.381 21.06 0.00 37.93 2.40
4007 5653 1.203065 CGGCCTACGTACGGAAATTC 58.797 55.000 21.06 3.26 37.93 2.17
4008 5654 0.807275 GCGGCCTACGTACGGAAATT 60.807 55.000 21.06 0.00 46.52 1.82
4009 5655 1.227060 GCGGCCTACGTACGGAAAT 60.227 57.895 21.06 0.09 46.52 2.17
4010 5656 2.181525 GCGGCCTACGTACGGAAA 59.818 61.111 21.06 3.59 46.52 3.13
4011 5657 4.178214 CGCGGCCTACGTACGGAA 62.178 66.667 21.06 6.30 46.52 4.30
4030 5676 0.316841 TGGTTTCGATTGGCCAAAGC 59.683 50.000 24.71 15.67 38.76 3.51
4031 5677 1.669795 GCTGGTTTCGATTGGCCAAAG 60.670 52.381 24.71 19.45 0.00 2.77
4032 5678 0.316841 GCTGGTTTCGATTGGCCAAA 59.683 50.000 24.71 2.49 0.00 3.28
4033 5679 1.531739 GGCTGGTTTCGATTGGCCAA 61.532 55.000 23.00 23.00 39.38 4.52
4034 5680 1.976474 GGCTGGTTTCGATTGGCCA 60.976 57.895 0.00 0.00 39.38 5.36
4035 5681 2.710902 GGGCTGGTTTCGATTGGCC 61.711 63.158 0.00 0.00 38.92 5.36
4036 5682 1.976474 TGGGCTGGTTTCGATTGGC 60.976 57.895 0.00 0.00 0.00 4.52
4037 5683 0.609131 AGTGGGCTGGTTTCGATTGG 60.609 55.000 0.00 0.00 0.00 3.16
4038 5684 1.247567 AAGTGGGCTGGTTTCGATTG 58.752 50.000 0.00 0.00 0.00 2.67
4039 5685 2.871096 TAAGTGGGCTGGTTTCGATT 57.129 45.000 0.00 0.00 0.00 3.34
4040 5686 3.366052 AATAAGTGGGCTGGTTTCGAT 57.634 42.857 0.00 0.00 0.00 3.59
4041 5687 2.871096 AATAAGTGGGCTGGTTTCGA 57.129 45.000 0.00 0.00 0.00 3.71
4042 5688 3.934457 AAAATAAGTGGGCTGGTTTCG 57.066 42.857 0.00 0.00 0.00 3.46
4043 5689 5.230182 CAGAAAAATAAGTGGGCTGGTTTC 58.770 41.667 0.00 0.00 0.00 2.78
4044 5690 4.503123 GCAGAAAAATAAGTGGGCTGGTTT 60.503 41.667 0.00 0.00 0.00 3.27
4045 5691 3.006859 GCAGAAAAATAAGTGGGCTGGTT 59.993 43.478 0.00 0.00 0.00 3.67
4046 5692 2.562738 GCAGAAAAATAAGTGGGCTGGT 59.437 45.455 0.00 0.00 0.00 4.00
4047 5693 2.094026 GGCAGAAAAATAAGTGGGCTGG 60.094 50.000 0.00 0.00 0.00 4.85
4048 5694 2.094026 GGGCAGAAAAATAAGTGGGCTG 60.094 50.000 0.00 0.00 0.00 4.85
4049 5695 2.179427 GGGCAGAAAAATAAGTGGGCT 58.821 47.619 0.00 0.00 0.00 5.19
4050 5696 1.899142 TGGGCAGAAAAATAAGTGGGC 59.101 47.619 0.00 0.00 0.00 5.36
4051 5697 3.679639 GCATGGGCAGAAAAATAAGTGGG 60.680 47.826 0.00 0.00 40.72 4.61
4052 5698 3.524541 GCATGGGCAGAAAAATAAGTGG 58.475 45.455 0.00 0.00 40.72 4.00


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

AutoCloner maintained by Alex Coulton.