Multiple sequence alignment - TraesCS3D01G185400

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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 TraesCS3D01G185400 chr3D 100.000 5895 0 0 830 6724 170675231 170681125 0.000000e+00 10887
1 TraesCS3D01G185400 chr3D 100.000 516 0 0 1 516 170674402 170674917 0.000000e+00 953
2 TraesCS3D01G185400 chr3D 96.296 270 7 3 4430 4698 603703431 603703164 2.230000e-119 440
3 TraesCS3D01G185400 chr3D 95.620 274 8 4 4421 4693 586578925 586579195 2.880000e-118 436
4 TraesCS3D01G185400 chr3A 95.488 2726 74 11 1717 4434 208241965 208244649 0.000000e+00 4307
5 TraesCS3D01G185400 chr3A 96.094 2048 59 6 4691 6724 208244647 208246687 0.000000e+00 3319
6 TraesCS3D01G185400 chr3A 96.064 813 22 4 830 1637 208241158 208241965 0.000000e+00 1315
7 TraesCS3D01G185400 chr3A 95.930 516 21 0 1 516 208240575 208241090 0.000000e+00 837
8 TraesCS3D01G185400 chr3B 95.829 1990 48 10 2464 4434 246156568 246158541 0.000000e+00 3182
9 TraesCS3D01G185400 chr3B 96.464 1810 49 5 4927 6724 246158899 246160705 0.000000e+00 2974
10 TraesCS3D01G185400 chr3B 92.896 1647 46 24 830 2472 246152678 246154257 0.000000e+00 2327
11 TraesCS3D01G185400 chr3B 97.093 516 12 1 1 516 246152096 246152608 0.000000e+00 867
12 TraesCS3D01G185400 chr3B 97.071 239 6 1 4691 4929 246158539 246158776 1.050000e-107 401
13 TraesCS3D01G185400 chr6A 89.762 420 23 8 1183 1598 61706049 61705646 2.780000e-143 520
14 TraesCS3D01G185400 chr6D 97.727 264 5 1 4430 4693 388990619 388990881 2.860000e-123 453
15 TraesCS3D01G185400 chr6D 97.328 262 6 1 4432 4693 26354240 26353980 1.720000e-120 444
16 TraesCS3D01G185400 chrUn 96.679 271 6 3 4429 4698 68758075 68758343 1.330000e-121 448
17 TraesCS3D01G185400 chr4D 97.004 267 6 2 4428 4694 349816055 349816319 1.330000e-121 448
18 TraesCS3D01G185400 chr4D 87.255 102 9 4 3337 3435 348302107 348302207 5.510000e-21 113
19 TraesCS3D01G185400 chr4D 87.255 102 7 5 3337 3434 348302205 348302106 1.980000e-20 111
20 TraesCS3D01G185400 chr2D 96.667 270 5 4 4433 4699 204112944 204112676 4.780000e-121 446
21 TraesCS3D01G185400 chr2D 87.255 102 8 3 3334 3435 376700732 376700828 1.980000e-20 111
22 TraesCS3D01G185400 chr7D 96.958 263 7 1 4433 4695 439780517 439780778 2.230000e-119 440
23 TraesCS3D01G185400 chr5A 96.617 266 8 1 4431 4696 642209961 642209697 2.230000e-119 440
24 TraesCS3D01G185400 chr1B 90.816 98 5 3 3337 3434 26096929 26096836 1.970000e-25 128
25 TraesCS3D01G185400 chr4B 89.899 99 8 2 3337 3434 544445375 544445278 7.080000e-25 126
26 TraesCS3D01G185400 chr7A 88.889 99 9 2 3337 3435 7501161 7501065 3.290000e-23 121
27 TraesCS3D01G185400 chr2B 86.792 106 8 4 3337 3436 676589118 676589013 5.510000e-21 113
28 TraesCS3D01G185400 chr1D 88.776 98 4 4 3337 3434 380609525 380609615 5.510000e-21 113
29 TraesCS3D01G185400 chr6B 87.000 100 8 5 3337 3434 503544056 503543960 2.560000e-19 108


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 TraesCS3D01G185400 chr3D 170674402 170681125 6723 False 5920.0 10887 100.0000 1 6724 2 chr3D.!!$F2 6723
1 TraesCS3D01G185400 chr3A 208240575 208246687 6112 False 2444.5 4307 95.8940 1 6724 4 chr3A.!!$F1 6723
2 TraesCS3D01G185400 chr3B 246152096 246160705 8609 False 1950.2 3182 95.8706 1 6724 5 chr3B.!!$F1 6723

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
885 886 1.555967 GGCCCATGAGCTTGGTTTAA 58.444 50.000 0.00 0.0 34.77 1.52 F
1432 1434 1.087501 GGGATGGTTTCTGAAGCGTC 58.912 55.000 0.00 0.0 44.61 5.19 F
3335 5677 1.003118 ACCATCAGTGCGCTAAAAGGA 59.997 47.619 9.73 0.0 0.00 3.36 F
3745 6089 1.971357 GGAGGAATTGCTCTCCCGATA 59.029 52.381 24.03 0.0 42.72 2.92 F
4567 6912 0.523072 GCAGATGCACCATGAAACGT 59.477 50.000 0.00 0.0 41.59 3.99 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2672 5004 0.616371 TGACTATCCCCCAACCGTTG 59.384 55.000 4.12 4.12 0.00 4.10 R
3426 5768 0.984995 GGGCTTGTCAGTTACTCCCT 59.015 55.000 0.00 0.00 33.09 4.20 R
4548 6893 0.523072 ACGTTTCATGGTGCATCTGC 59.477 50.000 0.00 0.00 42.50 4.26 R
4682 7027 1.139058 CCAAGTCCAATACTCCCTCCG 59.861 57.143 0.00 0.00 37.50 4.63 R
5851 8322 0.108615 AACTCCTCGATCACCAAGCG 60.109 55.000 0.00 0.00 38.38 4.68 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
856 857 3.258372 TCCGAGCTCACTTGTATTTGAGT 59.742 43.478 15.40 0.00 41.24 3.41
885 886 1.555967 GGCCCATGAGCTTGGTTTAA 58.444 50.000 0.00 0.00 34.77 1.52
905 906 1.558756 ACAGATCTCTTTGGGCCTCAG 59.441 52.381 4.53 0.00 0.00 3.35
913 914 2.158325 TCTTTGGGCCTCAGTTTCCAAT 60.158 45.455 4.53 0.00 38.81 3.16
1432 1434 1.087501 GGGATGGTTTCTGAAGCGTC 58.912 55.000 0.00 0.00 44.61 5.19
1658 1665 4.165372 GGGTTTGGTCATTCCCTAGATACA 59.835 45.833 0.00 0.00 37.18 2.29
1665 1672 7.016296 TGGTCATTCCCTAGATACACATATCA 58.984 38.462 0.00 0.00 36.51 2.15
1715 1722 5.010112 TGCGGATCATGTTTGGACTTTAAAA 59.990 36.000 0.00 0.00 0.00 1.52
1811 1818 6.718454 TCAACAAGGAAAACATTTTGTGTG 57.282 33.333 0.00 0.00 41.14 3.82
1875 1882 9.220767 GTATTGAGAGGTTTAAAGTGAGATTGT 57.779 33.333 0.00 0.00 0.00 2.71
1911 1918 7.099764 TGACAGAATCTCAGTAATGTTCCTTC 58.900 38.462 0.00 0.00 0.00 3.46
1998 2005 1.118838 TGTTTGTGGCCTTTTCTGGG 58.881 50.000 3.32 0.00 0.00 4.45
2196 2204 5.416639 AGAGCAACATTTATCATGTTCAGCA 59.583 36.000 10.77 0.00 39.94 4.41
2268 2276 2.039746 TGCTTTGTGGTACTGCCTGTAT 59.960 45.455 0.00 0.00 38.35 2.29
2280 2288 1.643292 CCTGTATGGCGCATGAACG 59.357 57.895 10.83 0.00 0.00 3.95
2297 2305 3.003585 TGAACGGCTGCAGCAATATAATG 59.996 43.478 37.63 18.55 44.36 1.90
2307 2315 7.119699 GCTGCAGCAATATAATGTACTTATCCA 59.880 37.037 33.36 0.00 41.59 3.41
2308 2316 8.322906 TGCAGCAATATAATGTACTTATCCAC 57.677 34.615 0.00 0.00 32.26 4.02
2309 2317 7.390440 TGCAGCAATATAATGTACTTATCCACC 59.610 37.037 0.00 0.00 32.26 4.61
2310 2318 7.607991 GCAGCAATATAATGTACTTATCCACCT 59.392 37.037 0.00 0.00 32.26 4.00
2311 2319 8.939929 CAGCAATATAATGTACTTATCCACCTG 58.060 37.037 0.00 0.11 32.26 4.00
2312 2320 7.607991 AGCAATATAATGTACTTATCCACCTGC 59.392 37.037 0.00 0.00 32.26 4.85
2313 2321 7.390440 GCAATATAATGTACTTATCCACCTGCA 59.610 37.037 0.00 0.00 32.26 4.41
2314 2322 8.721478 CAATATAATGTACTTATCCACCTGCAC 58.279 37.037 0.00 0.00 32.26 4.57
2315 2323 4.568072 AATGTACTTATCCACCTGCACA 57.432 40.909 0.00 0.00 0.00 4.57
2316 2324 4.778213 ATGTACTTATCCACCTGCACAT 57.222 40.909 0.00 0.00 0.00 3.21
2317 2325 4.137116 TGTACTTATCCACCTGCACATC 57.863 45.455 0.00 0.00 0.00 3.06
2318 2326 3.774766 TGTACTTATCCACCTGCACATCT 59.225 43.478 0.00 0.00 0.00 2.90
2319 2327 4.225042 TGTACTTATCCACCTGCACATCTT 59.775 41.667 0.00 0.00 0.00 2.40
2320 2328 4.307032 ACTTATCCACCTGCACATCTTT 57.693 40.909 0.00 0.00 0.00 2.52
2484 4810 4.264253 TGACTTATGGGTGATGAAAGCTG 58.736 43.478 0.00 0.00 0.00 4.24
2684 5016 1.333177 TTTTCATCAACGGTTGGGGG 58.667 50.000 19.91 10.26 0.00 5.40
2806 5139 2.165998 GCAAGGCAATTGGAAGAGTCT 58.834 47.619 7.72 0.00 39.47 3.24
2845 5178 4.518249 CCCTTAAAGCTCGAGGAAATTCT 58.482 43.478 15.58 0.00 32.11 2.40
2893 5226 1.151221 AGATGGTGCTGTTGTGGCA 59.849 52.632 0.00 0.00 37.36 4.92
3010 5343 6.071784 ACTCTTGATTTGCTATTGATGTGCAA 60.072 34.615 0.00 0.00 43.69 4.08
3039 5373 6.945938 TCTTCGGGAAAATGTAGAAAAACA 57.054 33.333 0.00 0.00 0.00 2.83
3066 5400 9.119418 TCTGTCTCAATGTGTTCAGATTAAAAA 57.881 29.630 8.06 0.00 0.00 1.94
3162 5496 6.032717 GTCACCCGAACTGTACTTATACTTC 58.967 44.000 0.00 0.00 32.00 3.01
3198 5532 1.269958 TGATGGACACCTGGTCTCTG 58.730 55.000 0.00 0.00 46.16 3.35
3334 5676 1.453155 ACCATCAGTGCGCTAAAAGG 58.547 50.000 9.73 6.38 0.00 3.11
3335 5677 1.003118 ACCATCAGTGCGCTAAAAGGA 59.997 47.619 9.73 0.00 0.00 3.36
3406 5748 9.944376 AGCTTACATTCTTTAGTGATCTAAACA 57.056 29.630 0.00 0.00 40.05 2.83
3706 6050 3.575630 CTCTATATGTGGTTATGCGCGT 58.424 45.455 8.43 7.55 0.00 6.01
3729 6073 4.536765 ACTGGTTTATGCCTAAATGGAGG 58.463 43.478 0.00 0.00 39.88 4.30
3745 6089 1.971357 GGAGGAATTGCTCTCCCGATA 59.029 52.381 24.03 0.00 42.72 2.92
4162 6507 6.777782 TGAACCTGCAAAATATGGGAAAATT 58.222 32.000 0.00 0.00 0.00 1.82
4310 6655 4.090090 TCTTCTCTCCAACTGAGGTAAGG 58.910 47.826 0.00 0.00 41.76 2.69
4331 6676 3.438434 GGATGTCTTCCAAAAGCTGACTC 59.562 47.826 0.00 0.00 44.74 3.36
4350 6695 5.820947 TGACTCCATTCATGATTCATCACAG 59.179 40.000 0.00 0.00 40.03 3.66
4364 6709 4.350346 TCATCACAGTTTTGAACTTTGCG 58.650 39.130 2.87 0.00 40.46 4.85
4431 6776 5.814705 GTCTCCAGTCCAGAAATAACTGATG 59.185 44.000 3.42 0.00 42.37 3.07
4432 6777 5.485353 TCTCCAGTCCAGAAATAACTGATGT 59.515 40.000 3.42 0.00 42.37 3.06
4433 6778 6.667848 TCTCCAGTCCAGAAATAACTGATGTA 59.332 38.462 3.42 0.00 42.37 2.29
4434 6779 6.640518 TCCAGTCCAGAAATAACTGATGTAC 58.359 40.000 3.42 0.00 42.37 2.90
4435 6780 6.440647 TCCAGTCCAGAAATAACTGATGTACT 59.559 38.462 3.42 0.00 42.37 2.73
4436 6781 6.758886 CCAGTCCAGAAATAACTGATGTACTC 59.241 42.308 3.42 0.00 42.37 2.59
4437 6782 6.758886 CAGTCCAGAAATAACTGATGTACTCC 59.241 42.308 0.00 0.00 42.37 3.85
4438 6783 6.049790 GTCCAGAAATAACTGATGTACTCCC 58.950 44.000 0.00 0.00 39.94 4.30
4439 6784 5.964477 TCCAGAAATAACTGATGTACTCCCT 59.036 40.000 0.00 0.00 39.94 4.20
4440 6785 6.098409 TCCAGAAATAACTGATGTACTCCCTC 59.902 42.308 0.00 0.00 39.94 4.30
4441 6786 6.284459 CAGAAATAACTGATGTACTCCCTCC 58.716 44.000 0.00 0.00 39.94 4.30
4442 6787 4.939052 AATAACTGATGTACTCCCTCCG 57.061 45.455 0.00 0.00 0.00 4.63
4443 6788 2.233305 AACTGATGTACTCCCTCCGT 57.767 50.000 0.00 0.00 0.00 4.69
4444 6789 2.233305 ACTGATGTACTCCCTCCGTT 57.767 50.000 0.00 0.00 0.00 4.44
4445 6790 2.537143 ACTGATGTACTCCCTCCGTTT 58.463 47.619 0.00 0.00 0.00 3.60
4446 6791 2.496470 ACTGATGTACTCCCTCCGTTTC 59.504 50.000 0.00 0.00 0.00 2.78
4447 6792 2.761208 CTGATGTACTCCCTCCGTTTCT 59.239 50.000 0.00 0.00 0.00 2.52
4448 6793 3.170717 TGATGTACTCCCTCCGTTTCTT 58.829 45.455 0.00 0.00 0.00 2.52
4449 6794 3.581332 TGATGTACTCCCTCCGTTTCTTT 59.419 43.478 0.00 0.00 0.00 2.52
4450 6795 4.041198 TGATGTACTCCCTCCGTTTCTTTT 59.959 41.667 0.00 0.00 0.00 2.27
4451 6796 4.426736 TGTACTCCCTCCGTTTCTTTTT 57.573 40.909 0.00 0.00 0.00 1.94
4452 6797 5.549742 TGTACTCCCTCCGTTTCTTTTTA 57.450 39.130 0.00 0.00 0.00 1.52
4453 6798 5.544650 TGTACTCCCTCCGTTTCTTTTTAG 58.455 41.667 0.00 0.00 0.00 1.85
4454 6799 4.701651 ACTCCCTCCGTTTCTTTTTAGT 57.298 40.909 0.00 0.00 0.00 2.24
4455 6800 4.639334 ACTCCCTCCGTTTCTTTTTAGTC 58.361 43.478 0.00 0.00 0.00 2.59
4456 6801 4.001652 CTCCCTCCGTTTCTTTTTAGTCC 58.998 47.826 0.00 0.00 0.00 3.85
4457 6802 2.740447 CCCTCCGTTTCTTTTTAGTCCG 59.260 50.000 0.00 0.00 0.00 4.79
4458 6803 2.159037 CCTCCGTTTCTTTTTAGTCCGC 59.841 50.000 0.00 0.00 0.00 5.54
4459 6804 2.803956 CTCCGTTTCTTTTTAGTCCGCA 59.196 45.455 0.00 0.00 0.00 5.69
4460 6805 3.404899 TCCGTTTCTTTTTAGTCCGCAT 58.595 40.909 0.00 0.00 0.00 4.73
4461 6806 4.567971 TCCGTTTCTTTTTAGTCCGCATA 58.432 39.130 0.00 0.00 0.00 3.14
4462 6807 5.180271 TCCGTTTCTTTTTAGTCCGCATAT 58.820 37.500 0.00 0.00 0.00 1.78
4463 6808 6.339730 TCCGTTTCTTTTTAGTCCGCATATA 58.660 36.000 0.00 0.00 0.00 0.86
4464 6809 6.817641 TCCGTTTCTTTTTAGTCCGCATATAA 59.182 34.615 0.00 0.00 0.00 0.98
4465 6810 7.010738 TCCGTTTCTTTTTAGTCCGCATATAAG 59.989 37.037 0.00 0.00 0.00 1.73
4466 6811 7.123830 CGTTTCTTTTTAGTCCGCATATAAGG 58.876 38.462 0.00 0.00 0.00 2.69
4467 6812 7.201582 CGTTTCTTTTTAGTCCGCATATAAGGT 60.202 37.037 0.00 0.00 0.00 3.50
4468 6813 8.456471 GTTTCTTTTTAGTCCGCATATAAGGTT 58.544 33.333 0.00 0.00 0.00 3.50
4469 6814 8.570068 TTCTTTTTAGTCCGCATATAAGGTTT 57.430 30.769 0.00 0.00 0.00 3.27
4470 6815 7.981142 TCTTTTTAGTCCGCATATAAGGTTTG 58.019 34.615 0.00 0.00 0.00 2.93
4471 6816 6.687081 TTTTAGTCCGCATATAAGGTTTGG 57.313 37.500 0.00 0.00 0.00 3.28
4472 6817 3.926058 AGTCCGCATATAAGGTTTGGT 57.074 42.857 0.00 0.00 0.00 3.67
4473 6818 3.805207 AGTCCGCATATAAGGTTTGGTC 58.195 45.455 0.00 0.00 0.00 4.02
4474 6819 3.199071 AGTCCGCATATAAGGTTTGGTCA 59.801 43.478 0.00 0.00 0.00 4.02
4475 6820 3.942748 GTCCGCATATAAGGTTTGGTCAA 59.057 43.478 0.00 0.00 0.00 3.18
4476 6821 4.396790 GTCCGCATATAAGGTTTGGTCAAA 59.603 41.667 0.00 0.00 0.00 2.69
4477 6822 4.638421 TCCGCATATAAGGTTTGGTCAAAG 59.362 41.667 0.00 0.00 0.00 2.77
4478 6823 4.398044 CCGCATATAAGGTTTGGTCAAAGT 59.602 41.667 0.00 0.00 0.00 2.66
4479 6824 5.448632 CCGCATATAAGGTTTGGTCAAAGTC 60.449 44.000 0.00 0.00 0.00 3.01
4480 6825 5.123186 CGCATATAAGGTTTGGTCAAAGTCA 59.877 40.000 0.00 0.00 0.00 3.41
4481 6826 6.348950 CGCATATAAGGTTTGGTCAAAGTCAA 60.349 38.462 0.00 0.00 0.00 3.18
4482 6827 7.029563 GCATATAAGGTTTGGTCAAAGTCAAG 58.970 38.462 0.00 0.00 0.00 3.02
4483 6828 3.801114 AAGGTTTGGTCAAAGTCAAGC 57.199 42.857 0.00 0.00 0.00 4.01
4484 6829 3.018423 AGGTTTGGTCAAAGTCAAGCT 57.982 42.857 0.00 0.00 0.00 3.74
4485 6830 3.365472 AGGTTTGGTCAAAGTCAAGCTT 58.635 40.909 0.00 0.00 39.52 3.74
4502 6847 7.478520 TCAAGCTTTGTAGAGTTTGACTAAC 57.521 36.000 0.00 0.00 40.46 2.34
4504 6849 7.769044 TCAAGCTTTGTAGAGTTTGACTAACTT 59.231 33.333 0.00 0.00 47.00 2.66
4505 6850 8.398665 CAAGCTTTGTAGAGTTTGACTAACTTT 58.601 33.333 0.00 1.31 47.00 2.66
4506 6851 9.609346 AAGCTTTGTAGAGTTTGACTAACTTTA 57.391 29.630 3.78 0.37 47.00 1.85
4507 6852 9.780186 AGCTTTGTAGAGTTTGACTAACTTTAT 57.220 29.630 3.78 0.00 47.00 1.40
4558 6903 7.439157 TGTAATCAATATTAGCAGATGCACC 57.561 36.000 7.68 0.00 45.16 5.01
4559 6904 6.997476 TGTAATCAATATTAGCAGATGCACCA 59.003 34.615 7.68 0.00 45.16 4.17
4560 6905 7.666804 TGTAATCAATATTAGCAGATGCACCAT 59.333 33.333 7.68 0.00 45.16 3.55
4561 6906 5.952526 TCAATATTAGCAGATGCACCATG 57.047 39.130 7.68 0.00 45.16 3.66
4562 6907 5.623169 TCAATATTAGCAGATGCACCATGA 58.377 37.500 7.68 1.41 45.16 3.07
4563 6908 6.063404 TCAATATTAGCAGATGCACCATGAA 58.937 36.000 7.68 0.00 45.16 2.57
4564 6909 6.546772 TCAATATTAGCAGATGCACCATGAAA 59.453 34.615 7.68 0.00 45.16 2.69
4565 6910 4.644103 ATTAGCAGATGCACCATGAAAC 57.356 40.909 7.68 0.00 45.16 2.78
4566 6911 0.806868 AGCAGATGCACCATGAAACG 59.193 50.000 7.68 0.00 45.16 3.60
4567 6912 0.523072 GCAGATGCACCATGAAACGT 59.477 50.000 0.00 0.00 41.59 3.99
4568 6913 1.737236 GCAGATGCACCATGAAACGTA 59.263 47.619 0.00 0.00 41.59 3.57
4569 6914 2.355756 GCAGATGCACCATGAAACGTAT 59.644 45.455 0.00 0.00 41.59 3.06
4570 6915 3.181497 GCAGATGCACCATGAAACGTATT 60.181 43.478 0.00 0.00 41.59 1.89
4571 6916 4.675146 GCAGATGCACCATGAAACGTATTT 60.675 41.667 0.00 0.00 41.59 1.40
4572 6917 5.401550 CAGATGCACCATGAAACGTATTTT 58.598 37.500 0.00 0.00 0.00 1.82
4573 6918 5.512788 CAGATGCACCATGAAACGTATTTTC 59.487 40.000 0.00 0.00 43.63 2.29
4643 6988 8.840833 AAAATTTGGTCAAACTTTGTGTAGTT 57.159 26.923 2.67 0.00 39.97 2.24
4644 6989 8.840833 AAATTTGGTCAAACTTTGTGTAGTTT 57.159 26.923 1.44 0.00 46.42 2.66
4654 6999 8.474006 AAACTTTGTGTAGTTTGATTTTGACC 57.526 30.769 0.00 0.00 44.42 4.02
4655 7000 7.164230 ACTTTGTGTAGTTTGATTTTGACCA 57.836 32.000 0.00 0.00 0.00 4.02
4656 7001 7.607250 ACTTTGTGTAGTTTGATTTTGACCAA 58.393 30.769 0.00 0.00 0.00 3.67
4657 7002 8.091449 ACTTTGTGTAGTTTGATTTTGACCAAA 58.909 29.630 0.00 0.00 0.00 3.28
4658 7003 9.097257 CTTTGTGTAGTTTGATTTTGACCAAAT 57.903 29.630 0.00 0.00 37.84 2.32
4669 7014 7.858052 GATTTTGACCAAATCTTATATGCGG 57.142 36.000 5.04 0.00 45.30 5.69
4670 7015 7.581213 ATTTTGACCAAATCTTATATGCGGA 57.419 32.000 0.00 0.00 27.71 5.54
4671 7016 6.618287 TTTGACCAAATCTTATATGCGGAG 57.382 37.500 0.00 0.00 0.00 4.63
4672 7017 5.290493 TGACCAAATCTTATATGCGGAGT 57.710 39.130 0.00 0.00 0.00 3.85
4673 7018 6.413783 TGACCAAATCTTATATGCGGAGTA 57.586 37.500 0.00 0.00 0.00 2.59
4674 7019 6.822442 TGACCAAATCTTATATGCGGAGTAA 58.178 36.000 0.00 0.00 0.00 2.24
4675 7020 7.276658 TGACCAAATCTTATATGCGGAGTAAA 58.723 34.615 0.00 0.00 0.00 2.01
4676 7021 7.771361 TGACCAAATCTTATATGCGGAGTAAAA 59.229 33.333 0.00 0.00 0.00 1.52
4677 7022 8.514330 ACCAAATCTTATATGCGGAGTAAAAA 57.486 30.769 0.00 0.00 0.00 1.94
4678 7023 8.621286 ACCAAATCTTATATGCGGAGTAAAAAG 58.379 33.333 0.00 0.00 0.00 2.27
4679 7024 8.836413 CCAAATCTTATATGCGGAGTAAAAAGA 58.164 33.333 0.00 0.00 0.00 2.52
4683 7028 7.902032 TCTTATATGCGGAGTAAAAAGAAACG 58.098 34.615 0.00 0.00 0.00 3.60
4684 7029 3.824414 ATGCGGAGTAAAAAGAAACGG 57.176 42.857 0.00 0.00 0.00 4.44
4685 7030 2.836262 TGCGGAGTAAAAAGAAACGGA 58.164 42.857 0.00 0.00 0.00 4.69
4686 7031 2.803956 TGCGGAGTAAAAAGAAACGGAG 59.196 45.455 0.00 0.00 0.00 4.63
4687 7032 2.159037 GCGGAGTAAAAAGAAACGGAGG 59.841 50.000 0.00 0.00 0.00 4.30
4688 7033 2.740447 CGGAGTAAAAAGAAACGGAGGG 59.260 50.000 0.00 0.00 0.00 4.30
4689 7034 3.555586 CGGAGTAAAAAGAAACGGAGGGA 60.556 47.826 0.00 0.00 0.00 4.20
5018 7488 5.990120 AATAGGCAAAGTGAGCATTCTTT 57.010 34.783 0.00 0.00 34.74 2.52
5218 7688 1.535462 GCATGGGTGTACTGTTGTGAC 59.465 52.381 0.00 0.00 0.00 3.67
5223 7693 3.000727 GGGTGTACTGTTGTGACTATGC 58.999 50.000 0.00 0.00 0.00 3.14
5288 7758 5.123979 GGAACCCAGTAAAGCACTTTCTATG 59.876 44.000 0.00 0.00 34.26 2.23
5386 7856 5.615289 ACTTATCGCTAGAAATCCATTGCT 58.385 37.500 0.00 0.00 0.00 3.91
5410 7880 8.079809 GCTACAATTCTACCTTGCTTTTGTTTA 58.920 33.333 0.00 0.00 0.00 2.01
5412 7882 8.871686 ACAATTCTACCTTGCTTTTGTTTAAG 57.128 30.769 0.00 0.00 0.00 1.85
5496 7967 2.990740 AACTTTGCAGGTAATCCCCA 57.009 45.000 0.00 0.00 0.00 4.96
5609 8080 0.179062 GACGGCTTCTGCTCATGGAT 60.179 55.000 0.00 0.00 39.59 3.41
5738 8209 0.450583 CCTGACGCTTCTACGCACTA 59.549 55.000 0.00 0.00 36.19 2.74
5761 8232 6.567602 ATGGACTTCTAGCTAGGATGTTTT 57.432 37.500 20.58 0.00 0.00 2.43
5790 8261 2.608506 CGTCACCCGACTGTATTTGTGA 60.609 50.000 0.00 0.00 40.23 3.58
5999 8470 7.229506 AGCTTTAACTGCTCTGTGAAACTATTT 59.770 33.333 0.00 0.00 35.67 1.40
6006 8477 4.082026 GCTCTGTGAAACTATTTGGGCATT 60.082 41.667 0.00 0.00 38.04 3.56
6127 8612 8.910351 ATAATTATCTGGAAAGGAGTAACTGC 57.090 34.615 0.00 0.00 0.00 4.40
6316 8801 7.781548 TTTACAGTACAAACCTCTCAAGTTC 57.218 36.000 0.00 0.00 0.00 3.01
6505 8990 0.251354 GCTCTCCTGGAATGACTGCA 59.749 55.000 0.00 0.00 0.00 4.41
6711 9196 3.425162 GGAACCCACAGTGATTTCTCT 57.575 47.619 0.62 0.00 0.00 3.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
885 886 1.558756 CTGAGGCCCAAAGAGATCTGT 59.441 52.381 0.00 0.00 0.00 3.41
905 906 2.357952 GAGTCGGCCCATTATTGGAAAC 59.642 50.000 5.18 0.00 46.92 2.78
913 914 4.039973 CCATTTACTAGAGTCGGCCCATTA 59.960 45.833 0.00 0.00 0.00 1.90
1432 1434 2.621763 GACAGTGGCTGTTGTCCAG 58.378 57.895 3.16 0.00 45.44 3.86
1554 1560 1.479323 CACAGGCATCAATTTCCCCAG 59.521 52.381 0.00 0.00 0.00 4.45
1691 1698 2.198827 AAGTCCAAACATGATCCGCA 57.801 45.000 0.00 0.00 0.00 5.69
1806 1813 9.642327 CAAATTTTCTCATGGATATTTCACACA 57.358 29.630 0.00 0.00 0.00 3.72
1866 1873 5.049198 TGTCAAAATCAGAGCACAATCTCAC 60.049 40.000 0.00 0.00 35.59 3.51
1875 1882 5.554070 TGAGATTCTGTCAAAATCAGAGCA 58.446 37.500 1.83 0.00 41.87 4.26
1911 1918 1.343075 TGACTACCTGAGGGGCTTAGG 60.343 57.143 2.38 0.00 42.13 2.69
1998 2005 7.148407 CCCAATTTAATAGATCACGCTATGTCC 60.148 40.741 0.00 0.00 31.69 4.02
2196 2204 6.926630 TCCAATACAAAAATTACAGGGCTT 57.073 33.333 0.00 0.00 0.00 4.35
2280 2288 5.695851 AAGTACATTATATTGCTGCAGCC 57.304 39.130 34.64 17.82 41.18 4.85
2297 2305 4.408182 AGATGTGCAGGTGGATAAGTAC 57.592 45.455 0.00 0.00 0.00 2.73
2307 2315 1.073763 TGCAGGTAAAGATGTGCAGGT 59.926 47.619 0.00 0.00 40.93 4.00
2308 2316 1.470098 GTGCAGGTAAAGATGTGCAGG 59.530 52.381 0.00 0.00 46.18 4.85
2309 2317 2.153645 TGTGCAGGTAAAGATGTGCAG 58.846 47.619 0.00 0.00 46.18 4.41
2310 2318 2.268762 TGTGCAGGTAAAGATGTGCA 57.731 45.000 0.00 0.00 43.50 4.57
2311 2319 2.749076 TGATGTGCAGGTAAAGATGTGC 59.251 45.455 0.00 0.00 36.42 4.57
2312 2320 5.181811 TCTTTGATGTGCAGGTAAAGATGTG 59.818 40.000 9.85 0.00 33.76 3.21
2313 2321 5.316167 TCTTTGATGTGCAGGTAAAGATGT 58.684 37.500 9.85 0.00 33.76 3.06
2314 2322 5.885230 TCTTTGATGTGCAGGTAAAGATG 57.115 39.130 9.85 0.00 33.76 2.90
2315 2323 5.948162 ACATCTTTGATGTGCAGGTAAAGAT 59.052 36.000 16.36 16.36 44.47 2.40
2316 2324 5.181811 CACATCTTTGATGTGCAGGTAAAGA 59.818 40.000 22.29 14.09 42.19 2.52
2317 2325 5.396484 CACATCTTTGATGTGCAGGTAAAG 58.604 41.667 22.29 0.00 42.19 1.85
2318 2326 5.375417 CACATCTTTGATGTGCAGGTAAA 57.625 39.130 22.29 0.00 42.19 2.01
2484 4810 6.177610 TCACATTGGTTCCAGATACCTTTAC 58.822 40.000 0.00 0.00 36.60 2.01
2672 5004 0.616371 TGACTATCCCCCAACCGTTG 59.384 55.000 4.12 4.12 0.00 4.10
2806 5139 1.700985 GGCCCCATTTAGAACCCCA 59.299 57.895 0.00 0.00 0.00 4.96
2845 5178 3.312718 GGCATGTGCAAGCCCCAA 61.313 61.111 13.57 0.00 45.18 4.12
2929 5262 1.136141 GTTCTGTCAACAGCTGATGCG 60.136 52.381 23.35 10.67 45.42 4.73
3017 5351 7.538678 CAGATGTTTTTCTACATTTTCCCGAAG 59.461 37.037 0.00 0.00 38.80 3.79
3039 5373 8.853077 TTTAATCTGAACACATTGAGACAGAT 57.147 30.769 15.71 15.71 43.71 2.90
3066 5400 9.392259 GTTTCTTAAGGCCTGTACATATACTTT 57.608 33.333 5.69 0.00 32.00 2.66
3080 5414 1.545841 CCAGTGGGTTTCTTAAGGCC 58.454 55.000 0.00 0.00 0.00 5.19
3162 5496 8.916654 GTGTCCATCATCTATTAAACACTATCG 58.083 37.037 0.00 0.00 34.44 2.92
3198 5532 3.181575 GTGGAAATAACACAAAAGTGCGC 59.818 43.478 0.00 0.00 38.67 6.09
3213 5547 2.379907 ACCTCTTGGTGGATGTGGAAAT 59.620 45.455 0.00 0.00 46.51 2.17
3380 5722 9.944376 TGTTTAGATCACTAAAGAATGTAAGCT 57.056 29.630 0.00 0.00 45.42 3.74
3381 5723 9.974750 GTGTTTAGATCACTAAAGAATGTAAGC 57.025 33.333 0.00 0.00 45.42 3.09
3405 5747 9.757227 CTCCCTCTGTAAAGAAATATAAGAGTG 57.243 37.037 0.00 0.00 0.00 3.51
3406 5748 9.495382 ACTCCCTCTGTAAAGAAATATAAGAGT 57.505 33.333 0.00 0.00 0.00 3.24
3426 5768 0.984995 GGGCTTGTCAGTTACTCCCT 59.015 55.000 0.00 0.00 33.09 4.20
3706 6050 5.430417 TCCTCCATTTAGGCATAAACCAGTA 59.570 40.000 5.58 0.00 36.51 2.74
3729 6073 7.913674 AGAAATAATATCGGGAGAGCAATTC 57.086 36.000 0.00 0.00 45.48 2.17
4162 6507 0.673985 CGTCACAGAACCAGGTCTCA 59.326 55.000 0.00 0.00 0.00 3.27
4310 6655 3.438434 GGAGTCAGCTTTTGGAAGACATC 59.562 47.826 1.53 0.00 34.71 3.06
4331 6676 7.317390 TCAAAACTGTGATGAATCATGAATGG 58.683 34.615 0.00 0.00 39.30 3.16
4364 6709 1.532868 CACCAGTGCTTGTCTGCTTAC 59.467 52.381 0.00 0.00 0.00 2.34
4431 6776 5.545588 ACTAAAAAGAAACGGAGGGAGTAC 58.454 41.667 0.00 0.00 0.00 2.73
4432 6777 5.279657 GGACTAAAAAGAAACGGAGGGAGTA 60.280 44.000 0.00 0.00 0.00 2.59
4433 6778 4.504514 GGACTAAAAAGAAACGGAGGGAGT 60.505 45.833 0.00 0.00 0.00 3.85
4434 6779 4.001652 GGACTAAAAAGAAACGGAGGGAG 58.998 47.826 0.00 0.00 0.00 4.30
4435 6780 3.555586 CGGACTAAAAAGAAACGGAGGGA 60.556 47.826 0.00 0.00 0.00 4.20
4436 6781 2.740447 CGGACTAAAAAGAAACGGAGGG 59.260 50.000 0.00 0.00 0.00 4.30
4437 6782 2.159037 GCGGACTAAAAAGAAACGGAGG 59.841 50.000 0.00 0.00 0.00 4.30
4438 6783 2.803956 TGCGGACTAAAAAGAAACGGAG 59.196 45.455 0.00 0.00 0.00 4.63
4439 6784 2.836262 TGCGGACTAAAAAGAAACGGA 58.164 42.857 0.00 0.00 0.00 4.69
4440 6785 3.824414 ATGCGGACTAAAAAGAAACGG 57.176 42.857 0.00 0.00 0.00 4.44
4441 6786 7.123830 CCTTATATGCGGACTAAAAAGAAACG 58.876 38.462 0.00 0.00 0.00 3.60
4442 6787 7.982224 ACCTTATATGCGGACTAAAAAGAAAC 58.018 34.615 0.00 0.00 0.00 2.78
4443 6788 8.570068 AACCTTATATGCGGACTAAAAAGAAA 57.430 30.769 0.00 0.00 0.00 2.52
4444 6789 8.455682 CAAACCTTATATGCGGACTAAAAAGAA 58.544 33.333 0.00 0.00 0.00 2.52
4445 6790 7.066525 CCAAACCTTATATGCGGACTAAAAAGA 59.933 37.037 0.00 0.00 0.00 2.52
4446 6791 7.148137 ACCAAACCTTATATGCGGACTAAAAAG 60.148 37.037 0.00 0.00 0.00 2.27
4447 6792 6.660094 ACCAAACCTTATATGCGGACTAAAAA 59.340 34.615 0.00 0.00 0.00 1.94
4448 6793 6.181908 ACCAAACCTTATATGCGGACTAAAA 58.818 36.000 0.00 0.00 0.00 1.52
4449 6794 5.747342 ACCAAACCTTATATGCGGACTAAA 58.253 37.500 0.00 0.00 0.00 1.85
4450 6795 5.104859 TGACCAAACCTTATATGCGGACTAA 60.105 40.000 0.00 0.00 0.00 2.24
4451 6796 4.406326 TGACCAAACCTTATATGCGGACTA 59.594 41.667 0.00 0.00 0.00 2.59
4452 6797 3.199071 TGACCAAACCTTATATGCGGACT 59.801 43.478 0.00 0.00 0.00 3.85
4453 6798 3.537580 TGACCAAACCTTATATGCGGAC 58.462 45.455 0.00 0.00 0.00 4.79
4454 6799 3.916359 TGACCAAACCTTATATGCGGA 57.084 42.857 0.00 0.00 0.00 5.54
4455 6800 4.398044 ACTTTGACCAAACCTTATATGCGG 59.602 41.667 0.00 0.00 0.00 5.69
4456 6801 5.123186 TGACTTTGACCAAACCTTATATGCG 59.877 40.000 0.00 0.00 0.00 4.73
4457 6802 6.509418 TGACTTTGACCAAACCTTATATGC 57.491 37.500 0.00 0.00 0.00 3.14
4458 6803 7.029563 GCTTGACTTTGACCAAACCTTATATG 58.970 38.462 0.00 0.00 0.00 1.78
4459 6804 6.948309 AGCTTGACTTTGACCAAACCTTATAT 59.052 34.615 0.00 0.00 0.00 0.86
4460 6805 6.303839 AGCTTGACTTTGACCAAACCTTATA 58.696 36.000 0.00 0.00 0.00 0.98
4461 6806 5.140454 AGCTTGACTTTGACCAAACCTTAT 58.860 37.500 0.00 0.00 0.00 1.73
4462 6807 4.532834 AGCTTGACTTTGACCAAACCTTA 58.467 39.130 0.00 0.00 0.00 2.69
4463 6808 3.365472 AGCTTGACTTTGACCAAACCTT 58.635 40.909 0.00 0.00 0.00 3.50
4464 6809 3.018423 AGCTTGACTTTGACCAAACCT 57.982 42.857 0.00 0.00 0.00 3.50
4465 6810 3.801114 AAGCTTGACTTTGACCAAACC 57.199 42.857 0.00 0.00 33.71 3.27
4475 6820 6.116126 AGTCAAACTCTACAAAGCTTGACTT 58.884 36.000 13.94 3.16 41.70 3.01
4476 6821 5.675538 AGTCAAACTCTACAAAGCTTGACT 58.324 37.500 13.94 13.94 0.00 3.41
4477 6822 5.993106 AGTCAAACTCTACAAAGCTTGAC 57.007 39.130 0.00 10.63 0.00 3.18
4478 6823 7.272978 AGTTAGTCAAACTCTACAAAGCTTGA 58.727 34.615 0.00 0.00 45.64 3.02
4479 6824 7.484035 AGTTAGTCAAACTCTACAAAGCTTG 57.516 36.000 0.00 0.00 45.64 4.01
4532 6877 9.166173 GGTGCATCTGCTAATATTGATTACATA 57.834 33.333 3.53 0.00 42.66 2.29
4533 6878 7.666804 TGGTGCATCTGCTAATATTGATTACAT 59.333 33.333 0.00 0.00 42.66 2.29
4534 6879 6.997476 TGGTGCATCTGCTAATATTGATTACA 59.003 34.615 0.00 0.00 42.66 2.41
4535 6880 7.439157 TGGTGCATCTGCTAATATTGATTAC 57.561 36.000 0.00 0.00 42.66 1.89
4536 6881 7.884354 TCATGGTGCATCTGCTAATATTGATTA 59.116 33.333 0.00 0.00 42.66 1.75
4537 6882 6.717997 TCATGGTGCATCTGCTAATATTGATT 59.282 34.615 0.00 0.00 42.66 2.57
4538 6883 6.243148 TCATGGTGCATCTGCTAATATTGAT 58.757 36.000 0.00 0.00 42.66 2.57
4539 6884 5.623169 TCATGGTGCATCTGCTAATATTGA 58.377 37.500 0.00 0.00 42.66 2.57
4540 6885 5.952526 TCATGGTGCATCTGCTAATATTG 57.047 39.130 0.00 0.00 42.66 1.90
4541 6886 6.513884 CGTTTCATGGTGCATCTGCTAATATT 60.514 38.462 0.00 0.00 42.66 1.28
4542 6887 5.049198 CGTTTCATGGTGCATCTGCTAATAT 60.049 40.000 0.00 0.00 42.66 1.28
4543 6888 4.273235 CGTTTCATGGTGCATCTGCTAATA 59.727 41.667 0.00 0.00 42.66 0.98
4544 6889 3.065786 CGTTTCATGGTGCATCTGCTAAT 59.934 43.478 0.00 0.00 42.66 1.73
4545 6890 2.419673 CGTTTCATGGTGCATCTGCTAA 59.580 45.455 0.00 0.00 42.66 3.09
4546 6891 2.009051 CGTTTCATGGTGCATCTGCTA 58.991 47.619 0.00 0.00 42.66 3.49
4547 6892 0.806868 CGTTTCATGGTGCATCTGCT 59.193 50.000 0.00 0.00 42.66 4.24
4548 6893 0.523072 ACGTTTCATGGTGCATCTGC 59.477 50.000 0.00 0.00 42.50 4.26
4549 6894 4.621068 AATACGTTTCATGGTGCATCTG 57.379 40.909 0.00 0.00 0.00 2.90
4550 6895 5.640732 GAAAATACGTTTCATGGTGCATCT 58.359 37.500 0.00 0.00 44.42 2.90
4551 6896 5.932021 GAAAATACGTTTCATGGTGCATC 57.068 39.130 0.00 0.00 44.42 3.91
4617 6962 9.930693 AACTACACAAAGTTTGACCAAATTTTA 57.069 25.926 22.23 0.00 37.88 1.52
4618 6963 8.840833 AACTACACAAAGTTTGACCAAATTTT 57.159 26.923 22.23 9.27 39.67 1.82
4619 6964 8.840833 AAACTACACAAAGTTTGACCAAATTT 57.159 26.923 22.23 11.30 45.60 1.82
4630 6975 7.607250 TGGTCAAAATCAAACTACACAAAGTT 58.393 30.769 0.00 0.00 41.46 2.66
4631 6976 7.164230 TGGTCAAAATCAAACTACACAAAGT 57.836 32.000 0.00 0.00 0.00 2.66
4632 6977 8.472683 TTTGGTCAAAATCAAACTACACAAAG 57.527 30.769 0.00 0.00 0.00 2.77
4646 6991 7.285401 ACTCCGCATATAAGATTTGGTCAAAAT 59.715 33.333 0.00 0.00 41.33 1.82
4647 6992 6.601613 ACTCCGCATATAAGATTTGGTCAAAA 59.398 34.615 0.00 0.00 33.56 2.44
4648 6993 6.119536 ACTCCGCATATAAGATTTGGTCAAA 58.880 36.000 0.00 0.00 34.46 2.69
4649 6994 5.680619 ACTCCGCATATAAGATTTGGTCAA 58.319 37.500 0.00 0.00 0.00 3.18
4650 6995 5.290493 ACTCCGCATATAAGATTTGGTCA 57.710 39.130 0.00 0.00 0.00 4.02
4651 6996 7.724305 TTTACTCCGCATATAAGATTTGGTC 57.276 36.000 0.00 0.00 0.00 4.02
4652 6997 8.514330 TTTTTACTCCGCATATAAGATTTGGT 57.486 30.769 0.00 0.00 0.00 3.67
4653 6998 8.836413 TCTTTTTACTCCGCATATAAGATTTGG 58.164 33.333 0.00 0.00 0.00 3.28
4657 7002 8.548721 CGTTTCTTTTTACTCCGCATATAAGAT 58.451 33.333 0.00 0.00 0.00 2.40
4658 7003 7.010738 CCGTTTCTTTTTACTCCGCATATAAGA 59.989 37.037 0.00 0.00 0.00 2.10
4659 7004 7.010738 TCCGTTTCTTTTTACTCCGCATATAAG 59.989 37.037 0.00 0.00 0.00 1.73
4660 7005 6.817641 TCCGTTTCTTTTTACTCCGCATATAA 59.182 34.615 0.00 0.00 0.00 0.98
4661 7006 6.339730 TCCGTTTCTTTTTACTCCGCATATA 58.660 36.000 0.00 0.00 0.00 0.86
4662 7007 5.180271 TCCGTTTCTTTTTACTCCGCATAT 58.820 37.500 0.00 0.00 0.00 1.78
4663 7008 4.567971 TCCGTTTCTTTTTACTCCGCATA 58.432 39.130 0.00 0.00 0.00 3.14
4664 7009 3.404899 TCCGTTTCTTTTTACTCCGCAT 58.595 40.909 0.00 0.00 0.00 4.73
4665 7010 2.803956 CTCCGTTTCTTTTTACTCCGCA 59.196 45.455 0.00 0.00 0.00 5.69
4666 7011 2.159037 CCTCCGTTTCTTTTTACTCCGC 59.841 50.000 0.00 0.00 0.00 5.54
4667 7012 2.740447 CCCTCCGTTTCTTTTTACTCCG 59.260 50.000 0.00 0.00 0.00 4.63
4668 7013 4.001652 CTCCCTCCGTTTCTTTTTACTCC 58.998 47.826 0.00 0.00 0.00 3.85
4669 7014 4.639334 ACTCCCTCCGTTTCTTTTTACTC 58.361 43.478 0.00 0.00 0.00 2.59
4670 7015 4.701651 ACTCCCTCCGTTTCTTTTTACT 57.298 40.909 0.00 0.00 0.00 2.24
4671 7016 6.128090 CCAATACTCCCTCCGTTTCTTTTTAC 60.128 42.308 0.00 0.00 0.00 2.01
4672 7017 5.941647 CCAATACTCCCTCCGTTTCTTTTTA 59.058 40.000 0.00 0.00 0.00 1.52
4673 7018 4.765339 CCAATACTCCCTCCGTTTCTTTTT 59.235 41.667 0.00 0.00 0.00 1.94
4674 7019 4.042435 TCCAATACTCCCTCCGTTTCTTTT 59.958 41.667 0.00 0.00 0.00 2.27
4675 7020 3.585732 TCCAATACTCCCTCCGTTTCTTT 59.414 43.478 0.00 0.00 0.00 2.52
4676 7021 3.055312 GTCCAATACTCCCTCCGTTTCTT 60.055 47.826 0.00 0.00 0.00 2.52
4677 7022 2.500504 GTCCAATACTCCCTCCGTTTCT 59.499 50.000 0.00 0.00 0.00 2.52
4678 7023 2.500504 AGTCCAATACTCCCTCCGTTTC 59.499 50.000 0.00 0.00 30.33 2.78
4679 7024 2.547990 AGTCCAATACTCCCTCCGTTT 58.452 47.619 0.00 0.00 30.33 3.60
4680 7025 2.236395 CAAGTCCAATACTCCCTCCGTT 59.764 50.000 0.00 0.00 37.50 4.44
4681 7026 1.831736 CAAGTCCAATACTCCCTCCGT 59.168 52.381 0.00 0.00 37.50 4.69
4682 7027 1.139058 CCAAGTCCAATACTCCCTCCG 59.861 57.143 0.00 0.00 37.50 4.63
4683 7028 2.170817 GTCCAAGTCCAATACTCCCTCC 59.829 54.545 0.00 0.00 37.50 4.30
4684 7029 2.838202 TGTCCAAGTCCAATACTCCCTC 59.162 50.000 0.00 0.00 37.50 4.30
4685 7030 2.840651 CTGTCCAAGTCCAATACTCCCT 59.159 50.000 0.00 0.00 37.50 4.20
4686 7031 2.838202 TCTGTCCAAGTCCAATACTCCC 59.162 50.000 0.00 0.00 37.50 4.30
4687 7032 3.515901 ACTCTGTCCAAGTCCAATACTCC 59.484 47.826 0.00 0.00 37.50 3.85
4688 7033 4.464597 AGACTCTGTCCAAGTCCAATACTC 59.535 45.833 0.00 0.00 43.41 2.59
4689 7034 4.421131 AGACTCTGTCCAAGTCCAATACT 58.579 43.478 0.00 0.00 43.41 2.12
4738 7083 9.826574 TTGGGTTTTATGCTTGTACTATAGTAG 57.173 33.333 12.99 4.89 0.00 2.57
4895 7240 2.354510 CGTTCCAGTTCACAAAGAAGCA 59.645 45.455 0.00 0.00 36.78 3.91
5018 7488 9.812347 ATAATATCTTGCCCACTCATTATCAAA 57.188 29.630 0.00 0.00 0.00 2.69
5223 7693 1.654954 GCCTTGTCAGCATGCTCCTG 61.655 60.000 19.68 8.32 34.76 3.86
5288 7758 3.641437 TTGCTGCAACTCACCAATAAC 57.359 42.857 11.69 0.00 0.00 1.89
5386 7856 9.959749 CTTAAACAAAAGCAAGGTAGAATTGTA 57.040 29.630 0.00 0.00 0.00 2.41
5410 7880 5.705905 GGTTTGCATCTGTTAGTACTTCCTT 59.294 40.000 0.00 0.00 0.00 3.36
5412 7882 5.246307 AGGTTTGCATCTGTTAGTACTTCC 58.754 41.667 0.00 0.00 0.00 3.46
5609 8080 4.760204 GGTAGAAGCAAAGCCAAAGACTTA 59.240 41.667 0.00 0.00 0.00 2.24
5738 8209 6.385467 AGAAAACATCCTAGCTAGAAGTCCAT 59.615 38.462 22.70 3.42 0.00 3.41
5761 8232 1.959085 GTCGGGTGACGGTGTTAGA 59.041 57.895 0.00 0.00 44.45 2.10
5790 8261 4.954826 GTCCTACGGATTAGGCTGGTATAT 59.045 45.833 0.00 0.00 46.72 0.86
5847 8318 1.546923 TCCTCGATCACCAAGCGTTTA 59.453 47.619 0.00 0.00 38.15 2.01
5848 8319 0.320374 TCCTCGATCACCAAGCGTTT 59.680 50.000 0.00 0.00 38.15 3.60
5851 8322 0.108615 AACTCCTCGATCACCAAGCG 60.109 55.000 0.00 0.00 38.38 4.68
5999 8470 4.620589 ACAAATCAACAATGAATGCCCA 57.379 36.364 0.00 0.00 39.49 5.36
6006 8477 4.739228 CAGCGACAAACAAATCAACAATGA 59.261 37.500 0.00 0.00 40.57 2.57
6081 8552 2.281484 AGTGTTTCACGCCGCCAT 60.281 55.556 0.00 0.00 39.64 4.40
6127 8612 1.702886 ACAGTTTGAGATGTCGAGCG 58.297 50.000 0.00 0.00 0.00 5.03
6200 8685 0.872388 CCTATTATTTCGGTGCGGGC 59.128 55.000 0.00 0.00 0.00 6.13
6303 8788 4.039245 TCATGAGAACGAACTTGAGAGGTT 59.961 41.667 0.00 0.00 0.00 3.50
6315 8800 3.187227 GCAAAGAGCTTTCATGAGAACGA 59.813 43.478 0.00 0.00 41.15 3.85
6316 8801 3.058708 TGCAAAGAGCTTTCATGAGAACG 60.059 43.478 0.00 0.00 45.94 3.95
6505 8990 2.604174 CCGCAGCGTTTTCTCGGTT 61.604 57.895 15.05 0.00 39.51 4.44


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

AutoCloner maintained by Alex Coulton.