Multiple sequence alignment - TraesCS1A01G405100

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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 TraesCS1A01G405100 chr1A 100.000 2303 0 0 1 2303 568382493 568384795 0.000000e+00 4253.0
1 TraesCS1A01G405100 chr1A 89.296 682 49 12 657 1329 568376809 568377475 0.000000e+00 833.0
2 TraesCS1A01G405100 chr1A 86.779 711 47 21 1622 2303 568394584 568395276 0.000000e+00 749.0
3 TraesCS1A01G405100 chr1A 81.505 930 90 43 1326 2216 568377539 568378425 0.000000e+00 689.0
4 TraesCS1A01G405100 chr1A 80.000 1020 109 54 1000 1980 568122127 568123090 0.000000e+00 665.0
5 TraesCS1A01G405100 chr1A 83.443 761 76 27 1574 2303 568399333 568400074 0.000000e+00 662.0
6 TraesCS1A01G405100 chr1A 86.760 574 47 18 756 1307 568327762 568328328 1.510000e-171 612.0
7 TraesCS1A01G405100 chr1A 86.989 538 40 18 756 1282 568265833 568266351 1.530000e-161 579.0
8 TraesCS1A01G405100 chr1A 89.151 424 26 13 1391 1810 568328597 568329004 5.680000e-141 510.0
9 TraesCS1A01G405100 chr1A 86.089 381 35 12 1621 1997 568389627 568389993 5.960000e-106 394.0
10 TraesCS1A01G405100 chr1A 90.635 299 18 7 2013 2303 568390050 568390346 2.770000e-104 388.0
11 TraesCS1A01G405100 chr1A 89.773 176 10 3 1335 1506 568266470 568266641 3.850000e-53 219.0
12 TraesCS1A01G405100 chr1D 94.302 1755 79 14 559 2303 473965623 473967366 0.000000e+00 2667.0
13 TraesCS1A01G405100 chr1D 80.472 1060 104 52 1327 2303 473992713 473993752 0.000000e+00 715.0
14 TraesCS1A01G405100 chr1D 83.990 762 72 37 821 1543 473987175 473987925 0.000000e+00 686.0
15 TraesCS1A01G405100 chr1D 85.381 643 50 17 1698 2303 473987959 473988594 5.400000e-176 627.0
16 TraesCS1A01G405100 chr1D 82.261 513 57 18 1813 2303 473998139 473998639 1.650000e-111 412.0
17 TraesCS1A01G405100 chr1D 83.721 387 39 11 1567 1948 473997752 473998119 6.090000e-91 344.0
18 TraesCS1A01G405100 chr1D 88.688 221 20 2 1335 1551 473961618 473961837 4.880000e-67 265.0
19 TraesCS1A01G405100 chr1D 86.842 190 6 2 1 171 473965203 473965392 6.490000e-46 195.0
20 TraesCS1A01G405100 chr7B 90.977 532 27 5 1291 1818 152914011 152913497 0.000000e+00 697.0
21 TraesCS1A01G405100 chr7B 91.882 271 19 1 1289 1559 65395624 65395891 2.160000e-100 375.0
22 TraesCS1A01G405100 chr1B 86.131 685 45 17 1662 2303 659322406 659323083 0.000000e+00 693.0
23 TraesCS1A01G405100 chr1B 82.898 766 84 24 1567 2303 659327045 659327792 0.000000e+00 645.0
24 TraesCS1A01G405100 chr1B 87.593 540 43 14 763 1282 659316616 659317151 2.530000e-169 604.0
25 TraesCS1A01G405100 chr1B 91.048 458 17 15 843 1282 659002558 659003009 4.240000e-167 597.0
26 TraesCS1A01G405100 chr1B 88.960 471 37 11 823 1282 659294545 659295011 3.320000e-158 568.0
27 TraesCS1A01G405100 chr1B 89.579 451 32 12 843 1282 659285899 659286345 2.000000e-155 558.0
28 TraesCS1A01G405100 chr1B 82.547 636 74 20 1690 2302 658969819 658970440 2.030000e-145 525.0
29 TraesCS1A01G405100 chr1B 88.189 381 29 11 1621 1997 659317826 659318194 7.550000e-120 440.0
30 TraesCS1A01G405100 chr1B 91.126 293 19 3 2018 2303 659318254 659318546 7.710000e-105 390.0
31 TraesCS1A01G405100 chr1B 86.577 149 12 2 1392 1532 659295172 659295320 8.520000e-35 158.0
32 TraesCS1A01G405100 chr6A 92.746 193 5 1 260 443 145136071 145135879 1.050000e-68 270.0
33 TraesCS1A01G405100 chr6A 97.959 98 2 0 171 268 145136484 145136387 1.090000e-38 171.0
34 TraesCS1A01G405100 chr5A 93.077 130 9 0 168 297 514836776 514836905 8.400000e-45 191.0
35 TraesCS1A01G405100 chr5A 92.473 93 6 1 352 443 514836902 514836994 5.160000e-27 132.0
36 TraesCS1A01G405100 chr5B 94.667 75 4 0 355 429 644946023 644945949 1.450000e-22 117.0
37 TraesCS1A01G405100 chr7A 91.111 45 2 2 104 148 126224455 126224497 2.470000e-05 60.2


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 TraesCS1A01G405100 chr1A 568382493 568384795 2302 False 4253.000000 4253 100.0000 1 2303 1 chr1A.!!$F2 2302
1 TraesCS1A01G405100 chr1A 568376809 568378425 1616 False 761.000000 833 85.4005 657 2216 2 chr1A.!!$F7 1559
2 TraesCS1A01G405100 chr1A 568394584 568395276 692 False 749.000000 749 86.7790 1622 2303 1 chr1A.!!$F3 681
3 TraesCS1A01G405100 chr1A 568122127 568123090 963 False 665.000000 665 80.0000 1000 1980 1 chr1A.!!$F1 980
4 TraesCS1A01G405100 chr1A 568399333 568400074 741 False 662.000000 662 83.4430 1574 2303 1 chr1A.!!$F4 729
5 TraesCS1A01G405100 chr1A 568327762 568329004 1242 False 561.000000 612 87.9555 756 1810 2 chr1A.!!$F6 1054
6 TraesCS1A01G405100 chr1A 568265833 568266641 808 False 399.000000 579 88.3810 756 1506 2 chr1A.!!$F5 750
7 TraesCS1A01G405100 chr1A 568389627 568390346 719 False 391.000000 394 88.3620 1621 2303 2 chr1A.!!$F8 682
8 TraesCS1A01G405100 chr1D 473961618 473967366 5748 False 1042.333333 2667 89.9440 1 2303 3 chr1D.!!$F2 2302
9 TraesCS1A01G405100 chr1D 473992713 473993752 1039 False 715.000000 715 80.4720 1327 2303 1 chr1D.!!$F1 976
10 TraesCS1A01G405100 chr1D 473987175 473988594 1419 False 656.500000 686 84.6855 821 2303 2 chr1D.!!$F3 1482
11 TraesCS1A01G405100 chr1D 473997752 473998639 887 False 378.000000 412 82.9910 1567 2303 2 chr1D.!!$F4 736
12 TraesCS1A01G405100 chr7B 152913497 152914011 514 True 697.000000 697 90.9770 1291 1818 1 chr7B.!!$R1 527
13 TraesCS1A01G405100 chr1B 659316616 659327792 11176 False 554.400000 693 87.1874 763 2303 5 chr1B.!!$F5 1540
14 TraesCS1A01G405100 chr1B 658969819 658970440 621 False 525.000000 525 82.5470 1690 2302 1 chr1B.!!$F1 612
15 TraesCS1A01G405100 chr1B 659294545 659295320 775 False 363.000000 568 87.7685 823 1532 2 chr1B.!!$F4 709
16 TraesCS1A01G405100 chr6A 145135879 145136484 605 True 220.500000 270 95.3525 171 443 2 chr6A.!!$R1 272

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
383 3988 0.039165 GCTAATAATGCAAGCCGGCC 60.039 55.0 26.15 8.84 0.0 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2138 7035 2.165167 TGTAGGAAGGTAGTGGTGACG 58.835 52.381 0.0 0.0 0.0 4.35 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
107 3712 5.306114 TCTACCTGAGAATATCTCGTGGA 57.694 43.478 19.26 10.15 46.25 4.02
123 3728 1.684450 GTGGAAACCGGTGAAAACCAT 59.316 47.619 8.52 0.00 0.00 3.55
124 3729 1.683917 TGGAAACCGGTGAAAACCATG 59.316 47.619 8.52 0.00 0.00 3.66
147 3752 7.639113 TGTGAAAACTATGTTTCTGGAGTTT 57.361 32.000 0.00 0.00 42.45 2.66
164 3769 7.605691 TCTGGAGTTTTGCAAAATTCTCAAAAA 59.394 29.630 33.01 19.55 40.14 1.94
260 3865 4.379186 CGATCTTCTCACAAAAAGCTGCAT 60.379 41.667 1.02 0.00 0.00 3.96
268 3873 1.135575 CAAAAAGCTGCATCGGGAGTC 60.136 52.381 1.02 0.00 34.49 3.36
269 3874 0.326264 AAAAGCTGCATCGGGAGTCT 59.674 50.000 1.02 0.00 34.49 3.24
270 3875 0.107945 AAAGCTGCATCGGGAGTCTC 60.108 55.000 1.02 0.00 34.49 3.36
271 3876 1.965754 AAGCTGCATCGGGAGTCTCC 61.966 60.000 10.78 10.78 34.49 3.71
272 3877 2.430610 GCTGCATCGGGAGTCTCCT 61.431 63.158 18.58 0.00 36.57 3.69
273 3878 1.739049 CTGCATCGGGAGTCTCCTC 59.261 63.158 18.58 7.93 36.57 3.71
274 3879 0.754957 CTGCATCGGGAGTCTCCTCT 60.755 60.000 18.58 0.99 37.86 3.69
275 3880 0.551396 TGCATCGGGAGTCTCCTCTA 59.449 55.000 18.58 4.97 37.86 2.43
277 3882 1.751032 GCATCGGGAGTCTCCTCTACA 60.751 57.143 18.58 0.00 37.86 2.74
278 3883 2.870175 CATCGGGAGTCTCCTCTACAT 58.130 52.381 18.58 1.49 37.86 2.29
279 3884 2.350057 TCGGGAGTCTCCTCTACATG 57.650 55.000 18.58 0.00 37.86 3.21
280 3885 0.671251 CGGGAGTCTCCTCTACATGC 59.329 60.000 18.58 0.00 37.86 4.06
281 3886 1.781786 GGGAGTCTCCTCTACATGCA 58.218 55.000 18.58 0.00 37.86 3.96
282 3887 2.324541 GGGAGTCTCCTCTACATGCAT 58.675 52.381 18.58 0.00 37.86 3.96
283 3888 2.036992 GGGAGTCTCCTCTACATGCATG 59.963 54.545 25.09 25.09 37.86 4.06
284 3889 2.547642 GGAGTCTCCTCTACATGCATGC 60.548 54.545 26.53 11.82 37.86 4.06
285 3890 2.102084 GAGTCTCCTCTACATGCATGCA 59.898 50.000 26.53 25.04 34.69 3.96
286 3891 2.704596 AGTCTCCTCTACATGCATGCAT 59.295 45.455 27.46 27.46 37.08 3.96
287 3892 3.065655 GTCTCCTCTACATGCATGCATC 58.934 50.000 30.07 11.28 33.90 3.91
288 3893 2.038164 TCTCCTCTACATGCATGCATCC 59.962 50.000 30.07 0.00 33.90 3.51
289 3894 1.770061 TCCTCTACATGCATGCATCCA 59.230 47.619 30.07 18.71 33.90 3.41
290 3895 2.173143 TCCTCTACATGCATGCATCCAA 59.827 45.455 30.07 16.59 33.90 3.53
291 3896 3.154710 CCTCTACATGCATGCATCCAAT 58.845 45.455 30.07 17.44 33.90 3.16
292 3897 3.057526 CCTCTACATGCATGCATCCAATG 60.058 47.826 30.07 21.90 33.90 2.82
293 3898 3.818773 CTCTACATGCATGCATCCAATGA 59.181 43.478 30.07 20.08 33.90 2.57
294 3899 4.208746 TCTACATGCATGCATCCAATGAA 58.791 39.130 30.07 9.50 33.90 2.57
295 3900 4.830600 TCTACATGCATGCATCCAATGAAT 59.169 37.500 30.07 4.31 33.90 2.57
296 3901 6.005198 TCTACATGCATGCATCCAATGAATA 58.995 36.000 30.07 8.93 33.90 1.75
297 3902 5.134202 ACATGCATGCATCCAATGAATAG 57.866 39.130 30.07 16.64 33.90 1.73
298 3903 4.587262 ACATGCATGCATCCAATGAATAGT 59.413 37.500 30.07 17.28 33.90 2.12
299 3904 4.841443 TGCATGCATCCAATGAATAGTC 57.159 40.909 18.46 0.00 0.00 2.59
300 3905 4.466827 TGCATGCATCCAATGAATAGTCT 58.533 39.130 18.46 0.00 0.00 3.24
301 3906 4.277423 TGCATGCATCCAATGAATAGTCTG 59.723 41.667 18.46 0.00 0.00 3.51
302 3907 4.795268 CATGCATCCAATGAATAGTCTGC 58.205 43.478 0.00 0.00 0.00 4.26
303 3908 3.888583 TGCATCCAATGAATAGTCTGCA 58.111 40.909 0.00 0.00 36.15 4.41
304 3909 4.466827 TGCATCCAATGAATAGTCTGCAT 58.533 39.130 0.00 0.00 33.80 3.96
305 3910 4.277423 TGCATCCAATGAATAGTCTGCATG 59.723 41.667 0.00 0.00 33.80 4.06
306 3911 4.795268 CATCCAATGAATAGTCTGCATGC 58.205 43.478 11.82 11.82 0.00 4.06
307 3912 3.888583 TCCAATGAATAGTCTGCATGCA 58.111 40.909 21.29 21.29 0.00 3.96
308 3913 3.881089 TCCAATGAATAGTCTGCATGCAG 59.119 43.478 36.80 36.80 44.86 4.41
309 3914 3.550233 CCAATGAATAGTCTGCATGCAGC 60.550 47.826 37.48 30.73 43.31 5.25
320 3925 2.712057 GCATGCAGCACAGTACTTTT 57.288 45.000 14.21 0.00 44.79 2.27
321 3926 3.829886 GCATGCAGCACAGTACTTTTA 57.170 42.857 14.21 0.00 44.79 1.52
322 3927 4.159377 GCATGCAGCACAGTACTTTTAA 57.841 40.909 14.21 0.00 44.79 1.52
323 3928 4.737054 GCATGCAGCACAGTACTTTTAAT 58.263 39.130 14.21 0.00 44.79 1.40
324 3929 4.795278 GCATGCAGCACAGTACTTTTAATC 59.205 41.667 14.21 0.00 44.79 1.75
325 3930 5.335127 CATGCAGCACAGTACTTTTAATCC 58.665 41.667 0.00 0.00 0.00 3.01
326 3931 3.756434 TGCAGCACAGTACTTTTAATCCC 59.244 43.478 0.00 0.00 0.00 3.85
327 3932 3.128764 GCAGCACAGTACTTTTAATCCCC 59.871 47.826 0.00 0.00 0.00 4.81
328 3933 4.589908 CAGCACAGTACTTTTAATCCCCT 58.410 43.478 0.00 0.00 0.00 4.79
329 3934 4.396166 CAGCACAGTACTTTTAATCCCCTG 59.604 45.833 0.00 0.00 0.00 4.45
330 3935 3.128764 GCACAGTACTTTTAATCCCCTGC 59.871 47.826 0.00 0.00 0.00 4.85
331 3936 3.694566 CACAGTACTTTTAATCCCCTGCC 59.305 47.826 0.00 0.00 0.00 4.85
332 3937 3.591977 ACAGTACTTTTAATCCCCTGCCT 59.408 43.478 0.00 0.00 0.00 4.75
333 3938 3.947834 CAGTACTTTTAATCCCCTGCCTG 59.052 47.826 0.00 0.00 0.00 4.85
334 3939 1.852633 ACTTTTAATCCCCTGCCTGC 58.147 50.000 0.00 0.00 0.00 4.85
335 3940 1.077005 ACTTTTAATCCCCTGCCTGCA 59.923 47.619 0.00 0.00 0.00 4.41
336 3941 2.292455 ACTTTTAATCCCCTGCCTGCAT 60.292 45.455 0.00 0.00 0.00 3.96
337 3942 1.779221 TTTAATCCCCTGCCTGCATG 58.221 50.000 0.00 0.00 0.00 4.06
338 3943 0.756442 TTAATCCCCTGCCTGCATGC 60.756 55.000 11.82 11.82 0.00 4.06
339 3944 1.935612 TAATCCCCTGCCTGCATGCA 61.936 55.000 21.29 21.29 39.37 3.96
354 3959 3.140141 GCAGCGCCTTGGCCAATA 61.140 61.111 20.85 0.00 0.00 1.90
355 3960 2.709883 GCAGCGCCTTGGCCAATAA 61.710 57.895 20.85 0.00 0.00 1.40
356 3961 1.139520 CAGCGCCTTGGCCAATAAC 59.860 57.895 20.85 10.49 0.00 1.89
357 3962 2.052104 AGCGCCTTGGCCAATAACC 61.052 57.895 20.85 8.38 0.00 2.85
358 3963 2.347322 GCGCCTTGGCCAATAACCA 61.347 57.895 20.85 0.00 34.65 3.67
359 3964 1.809207 CGCCTTGGCCAATAACCAG 59.191 57.895 20.85 5.65 38.73 4.00
360 3965 1.517361 GCCTTGGCCAATAACCAGC 59.483 57.895 20.85 11.38 38.73 4.85
361 3966 1.257055 GCCTTGGCCAATAACCAGCA 61.257 55.000 20.85 0.00 38.73 4.41
362 3967 0.819582 CCTTGGCCAATAACCAGCAG 59.180 55.000 20.85 3.11 38.73 4.24
363 3968 0.174162 CTTGGCCAATAACCAGCAGC 59.826 55.000 20.85 0.00 38.73 5.25
364 3969 1.594194 TTGGCCAATAACCAGCAGCG 61.594 55.000 16.05 0.00 38.73 5.18
365 3970 2.102946 GCCAATAACCAGCAGCGC 59.897 61.111 0.00 0.00 0.00 5.92
366 3971 2.409870 GCCAATAACCAGCAGCGCT 61.410 57.895 2.64 2.64 40.77 5.92
367 3972 1.095228 GCCAATAACCAGCAGCGCTA 61.095 55.000 10.99 0.00 36.40 4.26
368 3973 1.378531 CCAATAACCAGCAGCGCTAA 58.621 50.000 10.99 0.00 36.40 3.09
369 3974 1.949525 CCAATAACCAGCAGCGCTAAT 59.050 47.619 10.99 0.00 36.40 1.73
370 3975 3.138304 CCAATAACCAGCAGCGCTAATA 58.862 45.455 10.99 0.00 36.40 0.98
371 3976 3.563808 CCAATAACCAGCAGCGCTAATAA 59.436 43.478 10.99 0.00 36.40 1.40
372 3977 4.216257 CCAATAACCAGCAGCGCTAATAAT 59.784 41.667 10.99 0.00 36.40 1.28
373 3978 5.149273 CAATAACCAGCAGCGCTAATAATG 58.851 41.667 10.99 4.49 36.40 1.90
374 3979 0.947244 ACCAGCAGCGCTAATAATGC 59.053 50.000 10.99 9.69 36.40 3.56
375 3980 0.946528 CCAGCAGCGCTAATAATGCA 59.053 50.000 10.99 0.00 41.14 3.96
376 3981 1.334556 CCAGCAGCGCTAATAATGCAA 59.665 47.619 10.99 0.00 41.14 4.08
377 3982 2.603892 CCAGCAGCGCTAATAATGCAAG 60.604 50.000 10.99 6.08 41.14 4.01
378 3983 1.002033 AGCAGCGCTAATAATGCAAGC 60.002 47.619 10.99 5.06 41.14 4.01
379 3984 1.927710 GCAGCGCTAATAATGCAAGCC 60.928 52.381 10.99 0.00 38.54 4.35
380 3985 0.588252 AGCGCTAATAATGCAAGCCG 59.412 50.000 8.99 0.00 32.50 5.52
381 3986 0.385974 GCGCTAATAATGCAAGCCGG 60.386 55.000 0.00 0.00 32.50 6.13
382 3987 0.385974 CGCTAATAATGCAAGCCGGC 60.386 55.000 21.89 21.89 32.50 6.13
383 3988 0.039165 GCTAATAATGCAAGCCGGCC 60.039 55.000 26.15 8.84 0.00 6.13
384 3989 1.609208 CTAATAATGCAAGCCGGCCT 58.391 50.000 26.15 7.54 0.00 5.19
385 3990 1.956477 CTAATAATGCAAGCCGGCCTT 59.044 47.619 26.15 14.30 0.00 4.35
386 3991 1.194218 AATAATGCAAGCCGGCCTTT 58.806 45.000 26.15 14.63 0.00 3.11
387 3992 1.194218 ATAATGCAAGCCGGCCTTTT 58.806 45.000 26.15 8.51 0.00 2.27
388 3993 1.840737 TAATGCAAGCCGGCCTTTTA 58.159 45.000 26.15 11.59 0.00 1.52
389 3994 0.972883 AATGCAAGCCGGCCTTTTAA 59.027 45.000 26.15 4.47 0.00 1.52
390 3995 1.194218 ATGCAAGCCGGCCTTTTAAT 58.806 45.000 26.15 6.99 0.00 1.40
391 3996 0.530288 TGCAAGCCGGCCTTTTAATC 59.470 50.000 26.15 4.42 0.00 1.75
392 3997 0.179111 GCAAGCCGGCCTTTTAATCC 60.179 55.000 26.15 0.00 0.00 3.01
393 3998 0.459899 CAAGCCGGCCTTTTAATCCC 59.540 55.000 26.15 0.00 0.00 3.85
394 3999 1.035385 AAGCCGGCCTTTTAATCCCG 61.035 55.000 26.15 0.00 40.39 5.14
395 4000 1.751544 GCCGGCCTTTTAATCCCGT 60.752 57.895 18.11 0.00 39.12 5.28
396 4001 0.464193 GCCGGCCTTTTAATCCCGTA 60.464 55.000 18.11 0.00 39.12 4.02
397 4002 1.302366 CCGGCCTTTTAATCCCGTAC 58.698 55.000 0.00 0.00 39.12 3.67
398 4003 1.407162 CCGGCCTTTTAATCCCGTACA 60.407 52.381 0.00 0.00 39.12 2.90
399 4004 2.358015 CGGCCTTTTAATCCCGTACAA 58.642 47.619 0.00 0.00 36.18 2.41
400 4005 2.096335 CGGCCTTTTAATCCCGTACAAC 59.904 50.000 0.00 0.00 36.18 3.32
401 4006 2.424601 GGCCTTTTAATCCCGTACAACC 59.575 50.000 0.00 0.00 0.00 3.77
402 4007 3.083293 GCCTTTTAATCCCGTACAACCA 58.917 45.455 0.00 0.00 0.00 3.67
403 4008 3.506844 GCCTTTTAATCCCGTACAACCAA 59.493 43.478 0.00 0.00 0.00 3.67
404 4009 4.616604 GCCTTTTAATCCCGTACAACCAAC 60.617 45.833 0.00 0.00 0.00 3.77
405 4010 4.519730 CCTTTTAATCCCGTACAACCAACA 59.480 41.667 0.00 0.00 0.00 3.33
406 4011 5.184287 CCTTTTAATCCCGTACAACCAACAT 59.816 40.000 0.00 0.00 0.00 2.71
407 4012 6.294843 CCTTTTAATCCCGTACAACCAACATT 60.295 38.462 0.00 0.00 0.00 2.71
408 4013 5.630661 TTAATCCCGTACAACCAACATTG 57.369 39.130 0.00 0.00 35.59 2.82
418 4023 3.575506 CCAACATTGGCTAGCTGGA 57.424 52.632 15.72 0.96 42.21 3.86
419 4024 1.098050 CCAACATTGGCTAGCTGGAC 58.902 55.000 15.72 0.00 42.21 4.02
420 4025 1.098050 CAACATTGGCTAGCTGGACC 58.902 55.000 15.72 1.77 0.00 4.46
421 4026 0.995024 AACATTGGCTAGCTGGACCT 59.005 50.000 15.72 0.00 0.00 3.85
422 4027 1.879575 ACATTGGCTAGCTGGACCTA 58.120 50.000 15.72 0.00 0.00 3.08
423 4028 2.412591 ACATTGGCTAGCTGGACCTAT 58.587 47.619 15.72 1.19 0.00 2.57
424 4029 3.587498 ACATTGGCTAGCTGGACCTATA 58.413 45.455 15.72 0.00 0.00 1.31
425 4030 3.973973 ACATTGGCTAGCTGGACCTATAA 59.026 43.478 15.72 0.00 0.00 0.98
426 4031 4.599241 ACATTGGCTAGCTGGACCTATAAT 59.401 41.667 15.72 0.00 0.00 1.28
427 4032 4.891992 TTGGCTAGCTGGACCTATAATC 57.108 45.455 15.72 0.00 0.00 1.75
428 4033 3.173965 TGGCTAGCTGGACCTATAATCC 58.826 50.000 15.72 0.00 36.70 3.01
429 4034 2.502130 GGCTAGCTGGACCTATAATCCC 59.498 54.545 15.72 0.00 35.12 3.85
430 4035 2.166664 GCTAGCTGGACCTATAATCCCG 59.833 54.545 7.70 0.00 35.12 5.14
431 4036 1.645710 AGCTGGACCTATAATCCCGG 58.354 55.000 0.00 0.00 35.12 5.73
432 4037 1.149288 AGCTGGACCTATAATCCCGGA 59.851 52.381 0.73 0.00 35.12 5.14
433 4038 1.275573 GCTGGACCTATAATCCCGGAC 59.724 57.143 0.73 0.00 35.12 4.79
434 4039 1.544691 CTGGACCTATAATCCCGGACG 59.455 57.143 0.73 0.00 35.12 4.79
435 4040 1.145531 TGGACCTATAATCCCGGACGA 59.854 52.381 0.73 0.00 35.12 4.20
436 4041 2.242043 GGACCTATAATCCCGGACGAA 58.758 52.381 0.73 0.00 0.00 3.85
437 4042 2.230750 GGACCTATAATCCCGGACGAAG 59.769 54.545 0.73 0.00 0.00 3.79
438 4043 2.230750 GACCTATAATCCCGGACGAAGG 59.769 54.545 0.73 4.40 0.00 3.46
439 4044 2.245582 CCTATAATCCCGGACGAAGGT 58.754 52.381 0.73 0.00 0.00 3.50
440 4045 3.181429 ACCTATAATCCCGGACGAAGGTA 60.181 47.826 0.73 0.00 34.40 3.08
441 4046 3.442977 CCTATAATCCCGGACGAAGGTAG 59.557 52.174 0.73 0.00 0.00 3.18
442 4047 2.442236 TAATCCCGGACGAAGGTAGT 57.558 50.000 0.73 0.00 0.00 2.73
443 4048 0.822164 AATCCCGGACGAAGGTAGTG 59.178 55.000 0.73 0.00 0.00 2.74
444 4049 0.324091 ATCCCGGACGAAGGTAGTGT 60.324 55.000 0.73 0.00 0.00 3.55
445 4050 0.327924 TCCCGGACGAAGGTAGTGTA 59.672 55.000 0.73 0.00 0.00 2.90
446 4051 0.453390 CCCGGACGAAGGTAGTGTAC 59.547 60.000 0.73 0.00 0.00 2.90
447 4052 1.167851 CCGGACGAAGGTAGTGTACA 58.832 55.000 0.00 0.00 0.00 2.90
448 4053 1.747355 CCGGACGAAGGTAGTGTACAT 59.253 52.381 0.00 0.00 0.00 2.29
449 4054 2.479049 CCGGACGAAGGTAGTGTACATG 60.479 54.545 0.00 0.00 0.00 3.21
450 4055 2.537401 GGACGAAGGTAGTGTACATGC 58.463 52.381 0.00 0.00 0.00 4.06
453 4058 4.142315 GGACGAAGGTAGTGTACATGCTAA 60.142 45.833 0.00 0.00 0.00 3.09
474 4079 9.219603 TGCTAATTTTCTATATGTAGGCATGTC 57.780 33.333 0.00 0.00 36.58 3.06
490 4095 5.987347 AGGCATGTCAAATTTCAAGTTCAAG 59.013 36.000 0.00 0.00 0.00 3.02
493 4098 6.642917 CATGTCAAATTTCAAGTTCAAGCAC 58.357 36.000 0.00 0.00 0.00 4.40
494 4099 5.108517 TGTCAAATTTCAAGTTCAAGCACC 58.891 37.500 0.00 0.00 0.00 5.01
511 4116 2.357952 GCACCGATTCATTTACTTCCCC 59.642 50.000 0.00 0.00 0.00 4.81
538 4143 3.678056 ACACAGCTTCATTTACGAGGA 57.322 42.857 0.00 0.00 0.00 3.71
549 4154 9.155053 GCTTCATTTACGAGGAATAAAAATACG 57.845 33.333 0.00 0.00 0.00 3.06
590 4315 5.068234 TCAGTTTCAGATACGACGGATTT 57.932 39.130 0.00 0.00 0.00 2.17
591 4316 4.862574 TCAGTTTCAGATACGACGGATTTG 59.137 41.667 4.22 4.22 0.00 2.32
604 4329 5.121768 ACGACGGATTTGAGAGTTAATTTGG 59.878 40.000 0.00 0.00 0.00 3.28
620 4345 8.815912 AGTTAATTTGGATTTTAGGTGATGCTT 58.184 29.630 0.00 0.00 0.00 3.91
628 4353 9.420118 TGGATTTTAGGTGATGCTTGTATAATT 57.580 29.630 0.00 0.00 0.00 1.40
652 4377 4.556233 TGAAAACATCTCTGGACTACGTG 58.444 43.478 0.00 0.00 0.00 4.49
667 4392 1.303236 CGTGATGAGTTGGGGGCAA 60.303 57.895 0.00 0.00 0.00 4.52
686 4411 1.123928 ACGGCAAATGGACCCAAAAA 58.876 45.000 0.00 0.00 0.00 1.94
695 4421 7.109501 GCAAATGGACCCAAAAACCTAATTAT 58.890 34.615 0.00 0.00 0.00 1.28
726 4452 5.095490 GGCTGTCACCTAAAATTTTCATCG 58.905 41.667 6.72 0.00 0.00 3.84
744 4470 1.654137 GCAAACACCACACGCTTCG 60.654 57.895 0.00 0.00 0.00 3.79
745 4471 2.010670 CAAACACCACACGCTTCGA 58.989 52.632 0.00 0.00 0.00 3.71
746 4472 0.586319 CAAACACCACACGCTTCGAT 59.414 50.000 0.00 0.00 0.00 3.59
747 4473 0.865769 AAACACCACACGCTTCGATC 59.134 50.000 0.00 0.00 0.00 3.69
748 4474 0.949105 AACACCACACGCTTCGATCC 60.949 55.000 0.00 0.00 0.00 3.36
767 4493 0.689623 CCCATGTCTGATCCCTAGCC 59.310 60.000 0.00 0.00 0.00 3.93
791 4521 0.668535 AAAACCTGCGAGAACCTTGC 59.331 50.000 0.00 0.00 41.00 4.01
904 4664 0.261696 AACCAAACCACCAGAGCCTT 59.738 50.000 0.00 0.00 0.00 4.35
955 4719 3.289834 CAGCACACCAGGCACACC 61.290 66.667 0.00 0.00 0.00 4.16
964 4728 0.250901 CCAGGCACACCAAAGCTAGT 60.251 55.000 0.00 0.00 39.06 2.57
1016 4838 2.779506 GAAGATGTCTTCCGGGTTGTT 58.220 47.619 10.91 0.00 44.93 2.83
1512 6034 4.236527 ACCACTATCAGACAATTTCCCC 57.763 45.455 0.00 0.00 0.00 4.81
1795 6386 6.038161 TGGACAGTGAACAAAGATGTACAAAG 59.962 38.462 0.00 0.00 39.40 2.77
1894 6639 6.405176 GGAAGGAAAGGAGCATTGTCTATTTG 60.405 42.308 0.00 0.00 0.00 2.32
1895 6640 5.574188 AGGAAAGGAGCATTGTCTATTTGT 58.426 37.500 0.00 0.00 0.00 2.83
1900 6645 5.804639 AGGAGCATTGTCTATTTGTGTGTA 58.195 37.500 0.00 0.00 0.00 2.90
1903 6648 6.072728 GGAGCATTGTCTATTTGTGTGTACAA 60.073 38.462 0.00 0.00 44.66 2.41
1929 6677 6.620877 AGTATTGTTAGGTCATGTCCAAGA 57.379 37.500 11.70 0.27 0.00 3.02
2136 7033 5.239306 CAGGTTTAGAAAGCACACAGAATCA 59.761 40.000 6.93 0.00 38.79 2.57
2138 7035 6.150140 AGGTTTAGAAAGCACACAGAATCATC 59.850 38.462 6.93 0.00 38.79 2.92
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 2.161012 GTGGTGTCATCTCTGCAATGTG 59.839 50.000 0.00 0.00 0.00 3.21
3 4 1.741706 GGTGGTGTCATCTCTGCAATG 59.258 52.381 0.00 0.00 0.00 2.82
4 5 1.352017 TGGTGGTGTCATCTCTGCAAT 59.648 47.619 0.00 0.00 0.00 3.56
74 3679 2.035632 CTCAGGTAGATGGAGGTGACC 58.964 57.143 0.00 0.00 0.00 4.02
123 3728 7.639113 AAACTCCAGAAACATAGTTTTCACA 57.361 32.000 0.00 0.00 38.65 3.58
124 3729 7.043391 GCAAAACTCCAGAAACATAGTTTTCAC 60.043 37.037 8.61 2.56 45.54 3.18
164 3769 0.394899 CCCGGACGGAGGTAGTAGTT 60.395 60.000 13.13 0.00 37.50 2.24
165 3770 1.225704 CCCGGACGGAGGTAGTAGT 59.774 63.158 13.13 0.00 37.50 2.73
210 3815 3.359002 GCAAGTGCCTTGGTCCAG 58.641 61.111 14.32 0.00 41.31 3.86
268 3873 2.224450 TGGATGCATGCATGTAGAGGAG 60.224 50.000 36.73 0.03 36.70 3.69
269 3874 1.770061 TGGATGCATGCATGTAGAGGA 59.230 47.619 36.73 9.89 36.70 3.71
270 3875 2.265589 TGGATGCATGCATGTAGAGG 57.734 50.000 36.73 1.59 36.70 3.69
271 3876 3.818773 TCATTGGATGCATGCATGTAGAG 59.181 43.478 36.73 21.94 36.70 2.43
272 3877 3.822940 TCATTGGATGCATGCATGTAGA 58.177 40.909 36.73 22.04 36.70 2.59
273 3878 4.577834 TTCATTGGATGCATGCATGTAG 57.422 40.909 36.73 20.29 36.70 2.74
274 3879 5.771165 ACTATTCATTGGATGCATGCATGTA 59.229 36.000 36.73 23.60 36.70 2.29
275 3880 4.587262 ACTATTCATTGGATGCATGCATGT 59.413 37.500 36.73 20.48 36.70 3.21
277 3882 5.048013 CAGACTATTCATTGGATGCATGCAT 60.048 40.000 32.66 32.66 39.69 3.96
278 3883 4.277423 CAGACTATTCATTGGATGCATGCA 59.723 41.667 25.04 25.04 0.00 3.96
279 3884 4.795268 CAGACTATTCATTGGATGCATGC 58.205 43.478 11.82 11.82 0.00 4.06
280 3885 4.277423 TGCAGACTATTCATTGGATGCATG 59.723 41.667 2.46 0.00 37.50 4.06
281 3886 4.466827 TGCAGACTATTCATTGGATGCAT 58.533 39.130 0.00 0.00 37.50 3.96
282 3887 3.888583 TGCAGACTATTCATTGGATGCA 58.111 40.909 0.00 0.00 39.89 3.96
283 3888 4.795268 CATGCAGACTATTCATTGGATGC 58.205 43.478 0.00 0.00 33.68 3.91
284 3889 4.277423 TGCATGCAGACTATTCATTGGATG 59.723 41.667 18.46 1.20 40.82 3.51
285 3890 4.466827 TGCATGCAGACTATTCATTGGAT 58.533 39.130 18.46 0.00 0.00 3.41
286 3891 3.881089 CTGCATGCAGACTATTCATTGGA 59.119 43.478 38.90 2.23 46.30 3.53
287 3892 3.550233 GCTGCATGCAGACTATTCATTGG 60.550 47.826 44.02 19.38 46.30 3.16
288 3893 3.629058 GCTGCATGCAGACTATTCATTG 58.371 45.455 44.02 19.57 46.30 2.82
289 3894 3.984508 GCTGCATGCAGACTATTCATT 57.015 42.857 44.02 0.00 46.30 2.57
301 3906 2.712057 AAAAGTACTGTGCTGCATGC 57.288 45.000 11.82 11.82 43.25 4.06
302 3907 5.335127 GGATTAAAAGTACTGTGCTGCATG 58.665 41.667 5.27 4.78 0.00 4.06
303 3908 4.399303 GGGATTAAAAGTACTGTGCTGCAT 59.601 41.667 5.27 0.00 0.00 3.96
304 3909 3.756434 GGGATTAAAAGTACTGTGCTGCA 59.244 43.478 0.00 0.00 0.00 4.41
305 3910 3.128764 GGGGATTAAAAGTACTGTGCTGC 59.871 47.826 0.00 0.00 0.00 5.25
306 3911 4.396166 CAGGGGATTAAAAGTACTGTGCTG 59.604 45.833 0.00 0.00 0.00 4.41
307 3912 4.589908 CAGGGGATTAAAAGTACTGTGCT 58.410 43.478 0.00 0.00 0.00 4.40
308 3913 3.128764 GCAGGGGATTAAAAGTACTGTGC 59.871 47.826 0.00 0.00 0.00 4.57
309 3914 3.694566 GGCAGGGGATTAAAAGTACTGTG 59.305 47.826 0.00 0.00 0.00 3.66
310 3915 3.591977 AGGCAGGGGATTAAAAGTACTGT 59.408 43.478 0.00 0.00 0.00 3.55
311 3916 3.947834 CAGGCAGGGGATTAAAAGTACTG 59.052 47.826 0.00 0.00 0.00 2.74
312 3917 3.624959 GCAGGCAGGGGATTAAAAGTACT 60.625 47.826 0.00 0.00 0.00 2.73
313 3918 2.688446 GCAGGCAGGGGATTAAAAGTAC 59.312 50.000 0.00 0.00 0.00 2.73
314 3919 2.310349 TGCAGGCAGGGGATTAAAAGTA 59.690 45.455 0.00 0.00 0.00 2.24
315 3920 1.077005 TGCAGGCAGGGGATTAAAAGT 59.923 47.619 0.00 0.00 0.00 2.66
316 3921 1.851304 TGCAGGCAGGGGATTAAAAG 58.149 50.000 0.00 0.00 0.00 2.27
317 3922 2.109774 CATGCAGGCAGGGGATTAAAA 58.890 47.619 0.00 0.00 0.00 1.52
318 3923 1.779221 CATGCAGGCAGGGGATTAAA 58.221 50.000 0.00 0.00 0.00 1.52
319 3924 0.756442 GCATGCAGGCAGGGGATTAA 60.756 55.000 20.11 0.00 0.00 1.40
320 3925 1.152694 GCATGCAGGCAGGGGATTA 60.153 57.895 20.11 0.00 0.00 1.75
321 3926 2.443390 GCATGCAGGCAGGGGATT 60.443 61.111 20.11 0.00 0.00 3.01
322 3927 3.746436 TGCATGCAGGCAGGGGAT 61.746 61.111 24.07 0.00 39.25 3.85
330 3935 4.492160 CAAGGCGCTGCATGCAGG 62.492 66.667 40.59 31.65 43.77 4.85
331 3936 4.492160 CCAAGGCGCTGCATGCAG 62.492 66.667 37.81 37.81 46.15 4.41
336 3941 3.934909 TATTGGCCAAGGCGCTGCA 62.935 57.895 24.94 0.00 43.06 4.41
337 3942 2.709883 TTATTGGCCAAGGCGCTGC 61.710 57.895 24.94 5.22 43.06 5.25
338 3943 1.139520 GTTATTGGCCAAGGCGCTG 59.860 57.895 24.94 0.00 43.06 5.18
339 3944 2.052104 GGTTATTGGCCAAGGCGCT 61.052 57.895 24.94 9.16 43.06 5.92
340 3945 2.283472 CTGGTTATTGGCCAAGGCGC 62.283 60.000 24.94 13.18 43.06 6.53
341 3946 1.809207 CTGGTTATTGGCCAAGGCG 59.191 57.895 24.94 5.05 43.06 5.52
342 3947 1.257055 TGCTGGTTATTGGCCAAGGC 61.257 55.000 24.94 18.68 35.32 4.35
343 3948 0.819582 CTGCTGGTTATTGGCCAAGG 59.180 55.000 24.94 10.10 35.32 3.61
344 3949 0.174162 GCTGCTGGTTATTGGCCAAG 59.826 55.000 24.94 10.07 35.32 3.61
345 3950 1.594194 CGCTGCTGGTTATTGGCCAA 61.594 55.000 23.00 23.00 35.32 4.52
346 3951 2.045708 CGCTGCTGGTTATTGGCCA 61.046 57.895 0.00 0.00 34.42 5.36
347 3952 2.800736 CGCTGCTGGTTATTGGCC 59.199 61.111 0.00 0.00 0.00 5.36
348 3953 1.095228 TAGCGCTGCTGGTTATTGGC 61.095 55.000 22.90 0.00 40.10 4.52
349 3954 1.378531 TTAGCGCTGCTGGTTATTGG 58.621 50.000 22.90 0.00 40.10 3.16
350 3955 4.811555 TTATTAGCGCTGCTGGTTATTG 57.188 40.909 22.90 0.00 40.10 1.90
351 3956 4.320494 GCATTATTAGCGCTGCTGGTTATT 60.320 41.667 22.90 0.00 40.10 1.40
352 3957 3.189287 GCATTATTAGCGCTGCTGGTTAT 59.811 43.478 22.90 4.46 40.10 1.89
353 3958 2.548057 GCATTATTAGCGCTGCTGGTTA 59.452 45.455 22.90 0.00 40.10 2.85
354 3959 1.334869 GCATTATTAGCGCTGCTGGTT 59.665 47.619 22.90 0.33 40.10 3.67
355 3960 0.947244 GCATTATTAGCGCTGCTGGT 59.053 50.000 22.90 3.56 40.10 4.00
356 3961 0.946528 TGCATTATTAGCGCTGCTGG 59.053 50.000 22.90 5.70 40.10 4.85
357 3962 2.647337 CTTGCATTATTAGCGCTGCTG 58.353 47.619 22.90 10.86 40.10 4.41
358 3963 1.002033 GCTTGCATTATTAGCGCTGCT 60.002 47.619 22.90 9.66 43.41 4.24
359 3964 1.402511 GCTTGCATTATTAGCGCTGC 58.597 50.000 22.90 15.54 35.21 5.25
360 3965 1.661178 CGGCTTGCATTATTAGCGCTG 60.661 52.381 22.90 3.47 35.77 5.18
361 3966 0.588252 CGGCTTGCATTATTAGCGCT 59.412 50.000 17.26 17.26 35.77 5.92
362 3967 0.385974 CCGGCTTGCATTATTAGCGC 60.386 55.000 0.00 0.00 35.77 5.92
363 3968 0.385974 GCCGGCTTGCATTATTAGCG 60.386 55.000 22.15 0.00 35.77 4.26
364 3969 0.039165 GGCCGGCTTGCATTATTAGC 60.039 55.000 28.56 0.00 0.00 3.09
365 3970 1.609208 AGGCCGGCTTGCATTATTAG 58.391 50.000 28.56 0.00 0.00 1.73
366 3971 2.065899 AAGGCCGGCTTGCATTATTA 57.934 45.000 28.56 0.00 32.79 0.98
367 3972 1.194218 AAAGGCCGGCTTGCATTATT 58.806 45.000 28.56 5.63 33.54 1.40
368 3973 1.194218 AAAAGGCCGGCTTGCATTAT 58.806 45.000 28.56 0.00 33.54 1.28
369 3974 1.840737 TAAAAGGCCGGCTTGCATTA 58.159 45.000 28.56 16.03 33.54 1.90
370 3975 0.972883 TTAAAAGGCCGGCTTGCATT 59.027 45.000 28.56 17.07 36.72 3.56
371 3976 1.136891 GATTAAAAGGCCGGCTTGCAT 59.863 47.619 28.56 11.32 0.00 3.96
372 3977 0.530288 GATTAAAAGGCCGGCTTGCA 59.470 50.000 28.56 4.45 0.00 4.08
373 3978 0.179111 GGATTAAAAGGCCGGCTTGC 60.179 55.000 28.56 10.16 0.00 4.01
374 3979 0.459899 GGGATTAAAAGGCCGGCTTG 59.540 55.000 28.56 0.00 0.00 4.01
375 3980 1.035385 CGGGATTAAAAGGCCGGCTT 61.035 55.000 28.56 18.19 0.00 4.35
376 3981 1.453197 CGGGATTAAAAGGCCGGCT 60.453 57.895 28.56 9.11 0.00 5.52
377 3982 0.464193 TACGGGATTAAAAGGCCGGC 60.464 55.000 21.18 21.18 0.00 6.13
378 3983 1.302366 GTACGGGATTAAAAGGCCGG 58.698 55.000 0.00 0.00 0.00 6.13
379 3984 2.027003 TGTACGGGATTAAAAGGCCG 57.973 50.000 0.00 0.00 0.00 6.13
380 3985 2.424601 GGTTGTACGGGATTAAAAGGCC 59.575 50.000 0.00 0.00 0.00 5.19
381 3986 3.083293 TGGTTGTACGGGATTAAAAGGC 58.917 45.455 0.00 0.00 0.00 4.35
382 3987 4.519730 TGTTGGTTGTACGGGATTAAAAGG 59.480 41.667 0.00 0.00 0.00 3.11
383 3988 5.692613 TGTTGGTTGTACGGGATTAAAAG 57.307 39.130 0.00 0.00 0.00 2.27
384 3989 6.448006 CAATGTTGGTTGTACGGGATTAAAA 58.552 36.000 0.00 0.00 0.00 1.52
385 3990 5.047943 CCAATGTTGGTTGTACGGGATTAAA 60.048 40.000 3.58 0.00 43.43 1.52
386 3991 4.459685 CCAATGTTGGTTGTACGGGATTAA 59.540 41.667 3.58 0.00 43.43 1.40
387 3992 4.011023 CCAATGTTGGTTGTACGGGATTA 58.989 43.478 3.58 0.00 43.43 1.75
388 3993 2.823154 CCAATGTTGGTTGTACGGGATT 59.177 45.455 3.58 0.00 43.43 3.01
389 3994 2.442413 CCAATGTTGGTTGTACGGGAT 58.558 47.619 3.58 0.00 43.43 3.85
390 3995 1.898902 CCAATGTTGGTTGTACGGGA 58.101 50.000 3.58 0.00 43.43 5.14
401 4006 1.098050 GGTCCAGCTAGCCAATGTTG 58.902 55.000 12.13 1.30 0.00 3.33
402 4007 0.995024 AGGTCCAGCTAGCCAATGTT 59.005 50.000 12.13 0.00 0.00 2.71
403 4008 1.879575 TAGGTCCAGCTAGCCAATGT 58.120 50.000 12.13 0.00 0.00 2.71
404 4009 4.623932 TTATAGGTCCAGCTAGCCAATG 57.376 45.455 12.13 2.95 0.00 2.82
405 4010 4.226168 GGATTATAGGTCCAGCTAGCCAAT 59.774 45.833 12.13 0.00 35.76 3.16
406 4011 3.583086 GGATTATAGGTCCAGCTAGCCAA 59.417 47.826 12.13 0.00 35.76 4.52
407 4012 3.173965 GGATTATAGGTCCAGCTAGCCA 58.826 50.000 12.13 0.00 35.76 4.75
408 4013 2.502130 GGGATTATAGGTCCAGCTAGCC 59.498 54.545 12.13 0.00 37.49 3.93
409 4014 2.166664 CGGGATTATAGGTCCAGCTAGC 59.833 54.545 6.62 6.62 37.49 3.42
410 4015 2.761208 CCGGGATTATAGGTCCAGCTAG 59.239 54.545 0.00 0.00 37.49 3.42
411 4016 2.380932 TCCGGGATTATAGGTCCAGCTA 59.619 50.000 0.00 0.00 37.49 3.32
412 4017 1.149288 TCCGGGATTATAGGTCCAGCT 59.851 52.381 0.00 0.00 37.49 4.24
413 4018 1.275573 GTCCGGGATTATAGGTCCAGC 59.724 57.143 0.00 0.00 37.49 4.85
414 4019 1.544691 CGTCCGGGATTATAGGTCCAG 59.455 57.143 0.00 4.62 37.49 3.86
415 4020 1.145531 TCGTCCGGGATTATAGGTCCA 59.854 52.381 0.00 0.00 37.49 4.02
416 4021 1.915141 TCGTCCGGGATTATAGGTCC 58.085 55.000 0.00 0.00 34.92 4.46
417 4022 2.230750 CCTTCGTCCGGGATTATAGGTC 59.769 54.545 0.00 0.00 0.00 3.85
418 4023 2.245582 CCTTCGTCCGGGATTATAGGT 58.754 52.381 0.00 0.00 0.00 3.08
419 4024 2.245582 ACCTTCGTCCGGGATTATAGG 58.754 52.381 0.00 7.85 0.00 2.57
420 4025 4.077822 ACTACCTTCGTCCGGGATTATAG 58.922 47.826 0.00 0.13 0.00 1.31
421 4026 3.822735 CACTACCTTCGTCCGGGATTATA 59.177 47.826 0.00 0.00 0.00 0.98
422 4027 2.626743 CACTACCTTCGTCCGGGATTAT 59.373 50.000 0.00 0.00 0.00 1.28
423 4028 2.026641 CACTACCTTCGTCCGGGATTA 58.973 52.381 0.00 0.00 0.00 1.75
424 4029 0.822164 CACTACCTTCGTCCGGGATT 59.178 55.000 0.00 0.00 0.00 3.01
425 4030 0.324091 ACACTACCTTCGTCCGGGAT 60.324 55.000 0.00 0.00 0.00 3.85
426 4031 0.327924 TACACTACCTTCGTCCGGGA 59.672 55.000 0.00 0.00 0.00 5.14
427 4032 0.453390 GTACACTACCTTCGTCCGGG 59.547 60.000 0.00 0.00 0.00 5.73
428 4033 1.167851 TGTACACTACCTTCGTCCGG 58.832 55.000 0.00 0.00 0.00 5.14
429 4034 2.793933 CATGTACACTACCTTCGTCCG 58.206 52.381 0.00 0.00 0.00 4.79
430 4035 2.165845 AGCATGTACACTACCTTCGTCC 59.834 50.000 0.00 0.00 0.00 4.79
431 4036 3.505464 AGCATGTACACTACCTTCGTC 57.495 47.619 0.00 0.00 0.00 4.20
432 4037 5.593679 ATTAGCATGTACACTACCTTCGT 57.406 39.130 0.00 0.00 0.00 3.85
433 4038 6.903883 AAATTAGCATGTACACTACCTTCG 57.096 37.500 0.00 0.00 0.00 3.79
434 4039 8.494016 AGAAAATTAGCATGTACACTACCTTC 57.506 34.615 0.00 0.11 0.00 3.46
445 4050 9.745018 ATGCCTACATATAGAAAATTAGCATGT 57.255 29.630 0.00 0.00 33.67 3.21
446 4051 9.999009 CATGCCTACATATAGAAAATTAGCATG 57.001 33.333 0.00 0.00 33.67 4.06
447 4052 9.745018 ACATGCCTACATATAGAAAATTAGCAT 57.255 29.630 0.00 0.00 33.67 3.79
448 4053 9.219603 GACATGCCTACATATAGAAAATTAGCA 57.780 33.333 0.00 0.00 33.67 3.49
449 4054 9.219603 TGACATGCCTACATATAGAAAATTAGC 57.780 33.333 0.00 0.00 33.67 3.09
466 4071 5.534207 TGAACTTGAAATTTGACATGCCT 57.466 34.783 0.00 0.00 0.00 4.75
468 4073 5.234757 TGCTTGAACTTGAAATTTGACATGC 59.765 36.000 0.00 0.00 0.00 4.06
474 4079 4.358851 TCGGTGCTTGAACTTGAAATTTG 58.641 39.130 0.00 0.00 0.00 2.32
490 4095 2.357952 GGGGAAGTAAATGAATCGGTGC 59.642 50.000 0.00 0.00 0.00 5.01
493 4098 5.652994 TTTTGGGGAAGTAAATGAATCGG 57.347 39.130 0.00 0.00 0.00 4.18
572 4297 5.105877 ACTCTCAAATCCGTCGTATCTGAAA 60.106 40.000 0.00 0.00 0.00 2.69
590 4315 9.753674 ATCACCTAAAATCCAAATTAACTCTCA 57.246 29.630 0.00 0.00 0.00 3.27
628 4353 5.465390 CACGTAGTCCAGAGATGTTTTCAAA 59.535 40.000 0.00 0.00 41.61 2.69
642 4367 1.548719 CCCAACTCATCACGTAGTCCA 59.451 52.381 0.00 0.00 41.61 4.02
647 4372 1.195442 TGCCCCCAACTCATCACGTA 61.195 55.000 0.00 0.00 0.00 3.57
667 4392 1.123928 TTTTTGGGTCCATTTGCCGT 58.876 45.000 0.00 0.00 0.00 5.68
686 4411 6.151144 GTGACAGCCTGTTTGAATAATTAGGT 59.849 38.462 0.00 0.00 0.00 3.08
695 4421 3.569194 TTAGGTGACAGCCTGTTTGAA 57.431 42.857 0.00 0.00 39.60 2.69
726 4452 1.654137 CGAAGCGTGTGGTGTTTGC 60.654 57.895 0.00 0.00 0.00 3.68
744 4470 1.739750 AGGGATCAGACATGGGGATC 58.260 55.000 12.48 12.48 37.34 3.36
745 4471 2.913203 CTAGGGATCAGACATGGGGAT 58.087 52.381 0.00 0.00 0.00 3.85
746 4472 1.762827 GCTAGGGATCAGACATGGGGA 60.763 57.143 0.00 0.00 0.00 4.81
747 4473 0.689623 GCTAGGGATCAGACATGGGG 59.310 60.000 0.00 0.00 0.00 4.96
748 4474 0.689623 GGCTAGGGATCAGACATGGG 59.310 60.000 0.00 0.00 0.00 4.00
791 4521 1.133199 AGGTGGCTGAGGAGAGGATAG 60.133 57.143 0.00 0.00 0.00 2.08
904 4664 2.306847 GGAAGTTGTTTGCTCTTGGGA 58.693 47.619 0.00 0.00 0.00 4.37
955 4719 6.609533 TCTACTCGAACTAACACTAGCTTTG 58.390 40.000 0.00 0.00 0.00 2.77
1013 4835 3.858868 GAGGTGCTCCGCGACAACA 62.859 63.158 8.23 0.00 39.05 3.33
1102 4952 4.035102 GAGGTTGGGGGCGCTCTT 62.035 66.667 7.48 0.00 0.00 2.85
1282 5136 8.789762 ACCATCCTATGTTTGTACAGTTTTTAC 58.210 33.333 0.00 0.00 37.77 2.01
1296 5150 6.957631 TGTTAACATCAGACCATCCTATGTT 58.042 36.000 3.59 0.00 42.00 2.71
1492 6014 3.206150 CGGGGAAATTGTCTGATAGTGG 58.794 50.000 0.00 0.00 0.00 4.00
1579 6125 4.644685 GTGGGTCTGCACAAAATATACCAT 59.355 41.667 0.00 0.00 0.00 3.55
1598 6144 2.806945 ATGGGTGTGTAGATTGTGGG 57.193 50.000 0.00 0.00 0.00 4.61
1795 6386 5.994668 CCATTCTTGCTTCTTAGGGATCTAC 59.005 44.000 0.00 0.00 0.00 2.59
1894 6639 8.614346 TGACCTAACAATACTTTTTGTACACAC 58.386 33.333 0.00 0.00 38.85 3.82
1895 6640 8.734218 TGACCTAACAATACTTTTTGTACACA 57.266 30.769 0.00 0.00 38.85 3.72
1900 6645 7.504238 TGGACATGACCTAACAATACTTTTTGT 59.496 33.333 15.29 0.00 41.49 2.83
1903 6648 7.942341 TCTTGGACATGACCTAACAATACTTTT 59.058 33.333 15.29 0.00 0.00 2.27
1929 6677 4.207891 ACGACATTGAGGCAGACTTAAT 57.792 40.909 0.00 0.00 35.96 1.40
2035 6929 4.959596 TGCTACAGGTACGACTTCTTAG 57.040 45.455 0.00 0.00 0.00 2.18
2136 7033 2.233305 AGGAAGGTAGTGGTGACGAT 57.767 50.000 0.00 0.00 0.00 3.73
2138 7035 2.165167 TGTAGGAAGGTAGTGGTGACG 58.835 52.381 0.00 0.00 0.00 4.35


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

AutoCloner maintained by Alex Coulton.