Multiple sequence alignment - TraesCS2A01G488000

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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 TraesCS2A01G488000 chr2A 100.000 3979 0 0 820 4798 722526300 722522322 0.000000e+00 7348.0
1 TraesCS2A01G488000 chr2A 100.000 484 0 0 1 484 722527119 722526636 0.000000e+00 894.0
2 TraesCS2A01G488000 chr2A 97.059 34 1 0 1397 1430 722525693 722525660 1.870000e-04 58.4
3 TraesCS2A01G488000 chr2A 97.059 34 1 0 1427 1460 722525723 722525690 1.870000e-04 58.4
4 TraesCS2A01G488000 chr2D 92.344 2508 138 34 1427 3909 587703842 587701364 0.000000e+00 3518.0
5 TraesCS2A01G488000 chr2D 90.128 780 39 12 4035 4798 587701221 587700464 0.000000e+00 979.0
6 TraesCS2A01G488000 chr2D 89.752 605 29 12 834 1425 587704398 587703814 0.000000e+00 743.0
7 TraesCS2A01G488000 chr2D 90.428 491 27 5 1 484 587705181 587704704 3.150000e-176 628.0
8 TraesCS2A01G488000 chr2B 93.059 1383 58 21 2551 3909 710286780 710285412 0.000000e+00 1988.0
9 TraesCS2A01G488000 chr2B 93.799 1145 53 6 1427 2554 710288004 710286861 0.000000e+00 1705.0
10 TraesCS2A01G488000 chr2B 90.368 706 41 11 4101 4798 710285207 710284521 0.000000e+00 902.0
11 TraesCS2A01G488000 chr2B 90.878 592 39 6 843 1425 710288561 710287976 0.000000e+00 780.0
12 TraesCS2A01G488000 chr2B 93.443 122 8 0 33 154 710289179 710289058 1.060000e-41 182.0
13 TraesCS2A01G488000 chr2B 87.591 137 10 4 150 279 710289024 710288888 8.320000e-33 152.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2A01G488000 chr2A 722522322 722527119 4797 True 2089.7 7348 98.5295 1 4798 4 chr2A.!!$R1 4797
1 TraesCS2A01G488000 chr2D 587700464 587705181 4717 True 1467.0 3518 90.6630 1 4798 4 chr2D.!!$R1 4797
2 TraesCS2A01G488000 chr2B 710284521 710289179 4658 True 951.5 1988 91.5230 33 4798 6 chr2B.!!$R1 4765

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
330 388 0.465097 TCTACGTCGATGGGGGACTC 60.465 60.000 9.90 0.0 32.24 3.36 F
1426 1669 0.106708 TGCGGAAGTATCCATGCTCC 59.893 55.000 0.00 0.0 46.97 4.70 F
1454 1697 0.541392 TGTGCGGAAGTATCCATGCT 59.459 50.000 0.00 0.0 46.97 3.79 F
1574 1817 1.003355 CCCACCTGCATCGTGTCTT 60.003 57.895 11.81 0.0 0.00 3.01 F
3166 3532 1.002274 AGCTTCGATGGGTCCTCCT 59.998 57.895 0.00 0.0 36.20 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1450 1693 0.107017 ATTTGCCGGCACTAGAGCAT 60.107 50.000 32.95 9.63 34.72 3.79 R
2950 3316 0.607217 TGACACCAGAAGCAGCATGG 60.607 55.000 9.23 9.23 40.10 3.66 R
3160 3526 1.202927 CCAAAGTTTCCAGCAGGAGGA 60.203 52.381 0.00 0.00 46.74 3.71 R
3277 3643 1.404843 GTATCGAGAGCTTGACCCCT 58.595 55.000 0.00 0.00 0.00 4.79 R
4174 4606 0.034896 CCTTCGCAGGTGTAACTGGT 59.965 55.000 0.00 0.00 38.90 4.00 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
119 120 5.614308 TGGCTCTTCGATATGTTCAATCAT 58.386 37.500 0.00 0.00 0.00 2.45
195 246 4.213270 CCTTTGAGCACGTCAAGATTTGTA 59.787 41.667 0.00 0.00 46.09 2.41
196 247 5.277779 CCTTTGAGCACGTCAAGATTTGTAA 60.278 40.000 0.00 0.00 46.09 2.41
197 248 5.743026 TTGAGCACGTCAAGATTTGTAAA 57.257 34.783 0.00 0.00 40.45 2.01
198 249 5.090652 TGAGCACGTCAAGATTTGTAAAC 57.909 39.130 0.00 0.00 29.64 2.01
199 250 4.572795 TGAGCACGTCAAGATTTGTAAACA 59.427 37.500 0.00 0.00 29.64 2.83
200 251 5.065346 TGAGCACGTCAAGATTTGTAAACAA 59.935 36.000 0.00 0.00 29.64 2.83
201 252 6.403746 TGAGCACGTCAAGATTTGTAAACAAA 60.404 34.615 10.47 10.47 40.12 2.83
202 253 7.680827 TGAGCACGTCAAGATTTGTAAACAAAT 60.681 33.333 18.44 18.44 44.24 2.32
227 278 6.024552 TCTTAACAATCTTCAATTGGCACC 57.975 37.500 5.42 0.00 33.56 5.01
254 305 5.596836 TGAAAATCTCAAAACAGGCTTGT 57.403 34.783 0.00 0.00 39.87 3.16
263 314 2.348411 AACAGGCTTGTGTGTAGCTT 57.652 45.000 0.65 0.00 37.67 3.74
315 373 8.651588 CCATATAAAGATGTTGCGAAGATCTAC 58.348 37.037 0.00 0.00 40.27 2.59
317 375 3.784701 AGATGTTGCGAAGATCTACGT 57.215 42.857 0.00 0.00 39.48 3.57
330 388 0.465097 TCTACGTCGATGGGGGACTC 60.465 60.000 9.90 0.00 32.24 3.36
336 394 2.136878 CGATGGGGGACTCTCCAGG 61.137 68.421 0.00 0.00 38.64 4.45
337 395 1.003573 GATGGGGGACTCTCCAGGT 59.996 63.158 0.00 0.00 38.64 4.00
339 397 3.403558 GGGGGACTCTCCAGGTGC 61.404 72.222 0.00 0.00 38.64 5.01
343 401 1.599576 GGACTCTCCAGGTGCCTTC 59.400 63.158 0.00 0.00 36.28 3.46
363 421 2.938451 TCGCTATGCAACCATTCTTCAG 59.062 45.455 0.00 0.00 32.85 3.02
376 434 4.445448 CCATTCTTCAGGGGGTAGATCAAG 60.445 50.000 0.00 0.00 0.00 3.02
380 438 1.364678 TCAGGGGGTAGATCAAGGTCA 59.635 52.381 0.00 0.00 0.00 4.02
416 474 6.894682 AGAAGGTTTCTTTTGGCCATAAAAA 58.105 32.000 6.09 3.10 36.36 1.94
458 516 2.744494 GCACATGCTCTAGCTAAAGCCT 60.744 50.000 16.36 3.68 42.66 4.58
479 537 5.320277 CCTCTTCTTCTCTTTTCATTGGGT 58.680 41.667 0.00 0.00 0.00 4.51
841 899 3.006940 TCAAATTGATGCCGTGTAGTCC 58.993 45.455 0.00 0.00 0.00 3.85
861 1091 2.422597 CATTTGGGTGACAGAAGCGTA 58.577 47.619 0.00 0.00 0.00 4.42
903 1135 0.688487 AATTCCCGTCGGAGTTTGGA 59.312 50.000 14.39 0.00 40.10 3.53
910 1145 2.221299 TCGGAGTTTGGACCCCCAG 61.221 63.158 0.00 0.00 44.60 4.45
1185 1426 2.648102 CGCTCGAGAGGTAACGCG 60.648 66.667 18.75 3.53 43.56 6.01
1187 1428 1.154073 GCTCGAGAGGTAACGCGTT 60.154 57.895 29.27 29.27 43.56 4.84
1194 1435 1.145803 GAGGTAACGCGTTGCTTTCT 58.854 50.000 33.29 24.05 46.39 2.52
1195 1436 1.529865 GAGGTAACGCGTTGCTTTCTT 59.470 47.619 33.29 17.29 46.39 2.52
1196 1437 1.529865 AGGTAACGCGTTGCTTTCTTC 59.470 47.619 33.29 18.93 46.39 2.87
1197 1438 1.399343 GGTAACGCGTTGCTTTCTTCC 60.399 52.381 33.29 15.51 0.00 3.46
1200 1441 2.258013 CGCGTTGCTTTCTTCCCCA 61.258 57.895 0.00 0.00 0.00 4.96
1235 1478 1.065251 CCTCGTACGCTTTCTAGGTCC 59.935 57.143 11.24 0.00 0.00 4.46
1242 1485 0.179142 GCTTTCTAGGTCCCGTCGTC 60.179 60.000 0.00 0.00 0.00 4.20
1243 1486 1.171308 CTTTCTAGGTCCCGTCGTCA 58.829 55.000 0.00 0.00 0.00 4.35
1251 1494 4.477975 CCCGTCGTCAGGTCTCGC 62.478 72.222 0.00 0.00 0.00 5.03
1262 1505 2.338015 GGTCTCGCCCTGTCGTGTA 61.338 63.158 0.00 0.00 0.00 2.90
1425 1668 1.221414 GTGCGGAAGTATCCATGCTC 58.779 55.000 0.00 0.00 46.97 4.26
1426 1669 0.106708 TGCGGAAGTATCCATGCTCC 59.893 55.000 0.00 0.00 46.97 4.70
1427 1670 0.106708 GCGGAAGTATCCATGCTCCA 59.893 55.000 0.00 0.00 46.97 3.86
1428 1671 1.875576 GCGGAAGTATCCATGCTCCAG 60.876 57.143 0.00 0.00 46.97 3.86
1429 1672 1.414181 CGGAAGTATCCATGCTCCAGT 59.586 52.381 0.00 0.00 46.97 4.00
1430 1673 2.628178 CGGAAGTATCCATGCTCCAGTA 59.372 50.000 0.00 0.00 46.97 2.74
1431 1674 3.259374 CGGAAGTATCCATGCTCCAGTAT 59.741 47.826 0.00 0.00 46.97 2.12
1432 1675 4.262635 CGGAAGTATCCATGCTCCAGTATT 60.263 45.833 0.00 0.00 46.97 1.89
1433 1676 5.241662 GGAAGTATCCATGCTCCAGTATTC 58.758 45.833 0.00 0.00 45.79 1.75
1434 1677 5.221722 GGAAGTATCCATGCTCCAGTATTCA 60.222 44.000 0.00 0.00 45.79 2.57
1435 1678 6.445451 AAGTATCCATGCTCCAGTATTCAT 57.555 37.500 0.00 0.00 0.00 2.57
1436 1679 5.802465 AGTATCCATGCTCCAGTATTCATG 58.198 41.667 0.00 0.00 36.86 3.07
1437 1680 4.719026 ATCCATGCTCCAGTATTCATGT 57.281 40.909 0.00 0.00 35.72 3.21
1438 1681 3.812262 TCCATGCTCCAGTATTCATGTG 58.188 45.455 0.00 0.00 35.72 3.21
1439 1682 2.292569 CCATGCTCCAGTATTCATGTGC 59.707 50.000 0.00 0.00 35.72 4.57
1440 1683 1.655484 TGCTCCAGTATTCATGTGCG 58.345 50.000 0.00 0.00 0.00 5.34
1441 1684 0.940126 GCTCCAGTATTCATGTGCGG 59.060 55.000 0.00 0.00 0.00 5.69
1442 1685 1.473257 GCTCCAGTATTCATGTGCGGA 60.473 52.381 0.00 0.00 0.00 5.54
1443 1686 2.905075 CTCCAGTATTCATGTGCGGAA 58.095 47.619 0.00 0.00 0.00 4.30
1444 1687 2.868583 CTCCAGTATTCATGTGCGGAAG 59.131 50.000 0.00 0.00 0.00 3.46
1445 1688 2.236146 TCCAGTATTCATGTGCGGAAGT 59.764 45.455 0.00 0.00 0.00 3.01
1446 1689 3.449377 TCCAGTATTCATGTGCGGAAGTA 59.551 43.478 0.00 0.00 0.00 2.24
1447 1690 4.100963 TCCAGTATTCATGTGCGGAAGTAT 59.899 41.667 0.00 0.00 0.00 2.12
1448 1691 4.449068 CCAGTATTCATGTGCGGAAGTATC 59.551 45.833 0.00 0.00 0.00 2.24
1449 1692 4.449068 CAGTATTCATGTGCGGAAGTATCC 59.551 45.833 0.00 0.00 42.80 2.59
1450 1693 3.558931 ATTCATGTGCGGAAGTATCCA 57.441 42.857 0.00 0.00 46.97 3.41
1451 1694 3.558931 TTCATGTGCGGAAGTATCCAT 57.441 42.857 0.00 0.00 46.97 3.41
1452 1695 2.837498 TCATGTGCGGAAGTATCCATG 58.163 47.619 0.00 0.00 46.97 3.66
1453 1696 1.265095 CATGTGCGGAAGTATCCATGC 59.735 52.381 0.00 0.00 46.97 4.06
1454 1697 0.541392 TGTGCGGAAGTATCCATGCT 59.459 50.000 0.00 0.00 46.97 3.79
1455 1698 1.221414 GTGCGGAAGTATCCATGCTC 58.779 55.000 0.00 0.00 46.97 4.26
1574 1817 1.003355 CCCACCTGCATCGTGTCTT 60.003 57.895 11.81 0.00 0.00 3.01
1627 1871 4.329462 AAAAATAGCTTGGCAACCGAAA 57.671 36.364 0.00 0.00 0.00 3.46
1628 1872 3.575965 AAATAGCTTGGCAACCGAAAG 57.424 42.857 0.00 0.00 0.00 2.62
1655 1899 4.036518 ACCAACTCATCTAAGAGCAGGAT 58.963 43.478 8.63 0.00 39.26 3.24
1724 1968 3.074390 AGAACATGTGGGAAAGGTGATGA 59.926 43.478 0.00 0.00 0.00 2.92
1786 2030 3.765511 TGCTCAAAATGGAATTGGAGGAG 59.234 43.478 0.00 0.00 38.36 3.69
1852 2108 7.812309 TGTTATGATCTGTTTCTAGTTGTCG 57.188 36.000 0.00 0.00 0.00 4.35
1912 2171 2.408271 TTCTGCAGGATAAGCACCAG 57.592 50.000 15.13 0.00 37.02 4.00
2011 2270 8.025445 ACTTGAATAGAAGATCAACAATGCAAC 58.975 33.333 0.00 0.00 32.46 4.17
2233 2494 1.234821 TTGGTGCAGAAGCTTTACGG 58.765 50.000 0.00 0.00 42.74 4.02
2286 2547 6.392354 CAATGTTGCCAACTGATCAAAGTAT 58.608 36.000 9.30 0.00 0.00 2.12
2431 2693 4.691860 AATTGAGTCTGCACTAACATGC 57.308 40.909 0.00 0.00 46.32 4.06
2439 2701 5.409826 AGTCTGCACTAACATGCTTTAGTTC 59.590 40.000 6.10 3.32 46.28 3.01
2512 2774 2.632512 TGCAGTATTGTGGTCTCTGTGA 59.367 45.455 0.00 0.00 0.00 3.58
2519 2781 4.422073 TTGTGGTCTCTGTGAATCTTGT 57.578 40.909 0.00 0.00 0.00 3.16
2698 3046 8.599774 GTTATCTTGTTATGAGAACTCTTCTGC 58.400 37.037 3.51 0.00 40.87 4.26
2711 3059 4.097418 ACTCTTCTGCCTTGGTATACAGT 58.903 43.478 5.01 0.00 0.00 3.55
2746 3094 8.044908 TGTCCTTTGTAACAAGTCTCTAAGTTT 58.955 33.333 0.00 0.00 0.00 2.66
2944 3310 2.343758 GCACCGTCAAGAGCTCCA 59.656 61.111 10.93 0.00 0.00 3.86
3085 3451 2.126882 CCATCCTCCTACATGTCCCAA 58.873 52.381 0.00 0.00 0.00 4.12
3144 3510 1.658673 GTCGACACGAACCACCTCT 59.341 57.895 11.55 0.00 37.72 3.69
3160 3526 2.249413 CTCTGCCAGCTTCGATGGGT 62.249 60.000 5.71 0.00 38.33 4.51
3166 3532 1.002274 AGCTTCGATGGGTCCTCCT 59.998 57.895 0.00 0.00 36.20 3.69
3277 3643 4.526770 CAGATCTGCCGCATCACA 57.473 55.556 10.38 0.00 0.00 3.58
3298 3664 0.739561 GGGTCAAGCTCTCGATACGT 59.260 55.000 0.00 0.00 0.00 3.57
3346 3712 0.964358 ACATTGAGCTGGAAGGCAGC 60.964 55.000 0.00 0.00 45.38 5.25
3427 3793 1.663739 CACTCCGTCGAAGAACCCA 59.336 57.895 0.00 0.00 39.69 4.51
3431 3797 2.342279 CGTCGAAGAACCCAGCCA 59.658 61.111 0.00 0.00 39.69 4.75
3677 4046 1.831580 ATTCTGTTCTCCCTTGCTGC 58.168 50.000 0.00 0.00 0.00 5.25
3727 4096 9.913310 TGTATTTTGGTTCTATGGATTGTGATA 57.087 29.630 0.00 0.00 0.00 2.15
3784 4154 2.479566 TTCTTGCTGTCATCCCAGTC 57.520 50.000 0.00 0.00 34.84 3.51
3791 4161 4.093743 TGCTGTCATCCCAGTCTAGTTAA 58.906 43.478 0.00 0.00 34.84 2.01
3795 4165 4.398358 TGTCATCCCAGTCTAGTTAAGTCG 59.602 45.833 0.00 0.00 0.00 4.18
3811 4181 4.983671 AAGTCGCCTTTTGAGTTTTCTT 57.016 36.364 0.00 0.00 0.00 2.52
3812 4182 4.983671 AGTCGCCTTTTGAGTTTTCTTT 57.016 36.364 0.00 0.00 0.00 2.52
3813 4183 4.921547 AGTCGCCTTTTGAGTTTTCTTTC 58.078 39.130 0.00 0.00 0.00 2.62
3814 4184 4.640647 AGTCGCCTTTTGAGTTTTCTTTCT 59.359 37.500 0.00 0.00 0.00 2.52
3815 4185 4.970611 GTCGCCTTTTGAGTTTTCTTTCTC 59.029 41.667 0.00 0.00 0.00 2.87
3816 4186 4.036380 TCGCCTTTTGAGTTTTCTTTCTCC 59.964 41.667 0.00 0.00 0.00 3.71
3817 4187 4.036852 CGCCTTTTGAGTTTTCTTTCTCCT 59.963 41.667 0.00 0.00 0.00 3.69
3818 4188 5.450550 CGCCTTTTGAGTTTTCTTTCTCCTT 60.451 40.000 0.00 0.00 0.00 3.36
3819 4189 5.750547 GCCTTTTGAGTTTTCTTTCTCCTTG 59.249 40.000 0.00 0.00 0.00 3.61
3823 4193 3.312421 TGAGTTTTCTTTCTCCTTGTGCG 59.688 43.478 0.00 0.00 0.00 5.34
3834 4205 2.482721 CTCCTTGTGCGTTTTATTCGGT 59.517 45.455 0.00 0.00 0.00 4.69
3835 4206 2.879646 TCCTTGTGCGTTTTATTCGGTT 59.120 40.909 0.00 0.00 0.00 4.44
3836 4207 3.058777 TCCTTGTGCGTTTTATTCGGTTC 60.059 43.478 0.00 0.00 0.00 3.62
3838 4209 4.152759 CCTTGTGCGTTTTATTCGGTTCTA 59.847 41.667 0.00 0.00 0.00 2.10
3844 4215 4.493708 GCGTTTTATTCGGTTCTAGCTTCC 60.494 45.833 0.00 0.00 0.00 3.46
3845 4216 4.259690 CGTTTTATTCGGTTCTAGCTTCCG 60.260 45.833 11.80 11.80 44.76 4.30
3846 4217 2.503920 TATTCGGTTCTAGCTTCCGC 57.496 50.000 12.77 0.00 43.35 5.54
3848 4219 2.552585 TTCGGTTCTAGCTTCCGCGG 62.553 60.000 22.12 22.12 43.35 6.46
3849 4220 2.577593 GGTTCTAGCTTCCGCGGT 59.422 61.111 27.15 8.36 42.32 5.68
3851 4222 1.518792 GTTCTAGCTTCCGCGGTCC 60.519 63.158 27.15 14.42 42.32 4.46
3852 4223 1.980232 TTCTAGCTTCCGCGGTCCA 60.980 57.895 27.15 9.72 42.32 4.02
3853 4224 1.327690 TTCTAGCTTCCGCGGTCCAT 61.328 55.000 27.15 12.77 42.32 3.41
3854 4225 1.144057 CTAGCTTCCGCGGTCCATT 59.856 57.895 27.15 10.88 42.32 3.16
3855 4226 1.153449 TAGCTTCCGCGGTCCATTG 60.153 57.895 27.15 10.81 42.32 2.82
3856 4227 4.179579 GCTTCCGCGGTCCATTGC 62.180 66.667 27.15 16.56 0.00 3.56
3857 4228 2.436646 CTTCCGCGGTCCATTGCT 60.437 61.111 27.15 0.00 0.00 3.91
3868 4239 2.423538 GGTCCATTGCTGTGGTGATTAC 59.576 50.000 7.64 0.00 40.27 1.89
3883 4254 2.084546 GATTACCCAGCTGTGTTGACC 58.915 52.381 13.81 0.00 0.00 4.02
3884 4255 0.840617 TTACCCAGCTGTGTTGACCA 59.159 50.000 13.81 0.00 0.00 4.02
3904 4275 1.691976 ACAGACGGGTCACTGATTTCA 59.308 47.619 0.00 0.00 37.54 2.69
3909 4280 1.800586 CGGGTCACTGATTTCACTGTG 59.199 52.381 0.17 0.17 39.75 3.66
3910 4281 1.537202 GGGTCACTGATTTCACTGTGC 59.463 52.381 2.12 0.00 38.79 4.57
3911 4282 2.498167 GGTCACTGATTTCACTGTGCT 58.502 47.619 2.12 0.00 38.79 4.40
3912 4283 2.481952 GGTCACTGATTTCACTGTGCTC 59.518 50.000 2.12 0.78 38.79 4.26
3914 4285 3.812053 GTCACTGATTTCACTGTGCTCTT 59.188 43.478 2.12 0.00 38.79 2.85
3915 4286 4.991056 GTCACTGATTTCACTGTGCTCTTA 59.009 41.667 2.12 0.00 38.79 2.10
3916 4287 5.641209 GTCACTGATTTCACTGTGCTCTTAT 59.359 40.000 2.12 0.00 38.79 1.73
3917 4288 5.640783 TCACTGATTTCACTGTGCTCTTATG 59.359 40.000 2.12 0.00 38.79 1.90
3918 4289 5.640783 CACTGATTTCACTGTGCTCTTATGA 59.359 40.000 2.12 0.00 34.24 2.15
3920 4291 6.315642 ACTGATTTCACTGTGCTCTTATGATG 59.684 38.462 2.12 0.00 0.00 3.07
3921 4292 4.952262 TTTCACTGTGCTCTTATGATGC 57.048 40.909 2.12 0.00 0.00 3.91
3922 4293 2.910199 TCACTGTGCTCTTATGATGCC 58.090 47.619 2.12 0.00 0.00 4.40
3925 4296 1.602851 CTGTGCTCTTATGATGCCTGC 59.397 52.381 0.00 0.00 0.00 4.85
3926 4297 1.065272 TGTGCTCTTATGATGCCTGCA 60.065 47.619 0.00 0.00 0.00 4.41
3927 4298 2.228059 GTGCTCTTATGATGCCTGCAT 58.772 47.619 3.90 3.90 39.69 3.96
3929 4300 3.067742 GTGCTCTTATGATGCCTGCATTT 59.932 43.478 6.02 0.37 36.70 2.32
3930 4301 3.067601 TGCTCTTATGATGCCTGCATTTG 59.932 43.478 6.02 0.00 36.70 2.32
3931 4302 3.639538 CTCTTATGATGCCTGCATTTGC 58.360 45.455 6.02 0.00 36.70 3.68
3964 4390 5.290386 ACGTACTTCCTTGTTCTTCTCAAG 58.710 41.667 0.00 0.00 41.06 3.02
3965 4391 5.068723 ACGTACTTCCTTGTTCTTCTCAAGA 59.931 40.000 7.16 0.00 43.17 3.02
4005 4433 8.330466 TCGAGAAAAATAGCAAAATCTACCAA 57.670 30.769 0.00 0.00 0.00 3.67
4006 4434 8.956426 TCGAGAAAAATAGCAAAATCTACCAAT 58.044 29.630 0.00 0.00 0.00 3.16
4054 4482 9.559732 TTCGTCCATCATAAGATATGTTTTCAT 57.440 29.630 0.00 0.00 43.60 2.57
4055 4483 8.992073 TCGTCCATCATAAGATATGTTTTCATG 58.008 33.333 0.00 0.00 41.09 3.07
4089 4517 8.954950 ATTTGGTCACTATTGTAGATCTTGAG 57.045 34.615 0.00 0.00 0.00 3.02
4091 4519 7.340122 TGGTCACTATTGTAGATCTTGAGAG 57.660 40.000 0.00 0.00 0.00 3.20
4093 4521 8.053355 TGGTCACTATTGTAGATCTTGAGAGTA 58.947 37.037 0.00 0.00 0.00 2.59
4094 4522 9.073475 GGTCACTATTGTAGATCTTGAGAGTAT 57.927 37.037 0.00 0.00 0.00 2.12
4149 4581 7.230466 AGTTTGACTTTTGAAGTAGTGTACG 57.770 36.000 0.00 0.00 43.03 3.67
4174 4606 1.423161 TGGTGTCAATGACATGTGGGA 59.577 47.619 19.72 0.00 44.63 4.37
4187 4619 0.762418 TGTGGGACCAGTTACACCTG 59.238 55.000 0.00 0.00 33.07 4.00
4191 4623 0.034337 GGACCAGTTACACCTGCGAA 59.966 55.000 0.00 0.00 0.00 4.70
4272 4705 1.064946 CCACGACATCTCGAGCTCC 59.935 63.158 7.81 0.00 43.06 4.70
4578 5036 0.543277 TCCTCGCAGAATGAATGGCT 59.457 50.000 0.00 0.00 39.69 4.75
4606 5064 4.373116 CCGTACTGCCGTGCTGGT 62.373 66.667 7.46 4.76 41.21 4.00
4653 5111 1.154093 CAGTGCAGCTGCCGATTTG 60.154 57.895 34.64 20.45 41.18 2.32
4654 5112 2.180017 GTGCAGCTGCCGATTTGG 59.820 61.111 34.64 0.00 41.18 3.28
4694 5156 2.676121 CCAATTGTGCCCAGCGGA 60.676 61.111 4.43 0.00 0.00 5.54
4696 5158 1.213537 CAATTGTGCCCAGCGGAAG 59.786 57.895 0.00 0.00 0.00 3.46
4700 5162 3.050275 GTGCCCAGCGGAAGTCAC 61.050 66.667 0.00 0.00 0.00 3.67
4709 5172 0.380378 GCGGAAGTCACTTTTGCACA 59.620 50.000 9.43 0.00 0.00 4.57
4773 5236 2.487934 CCCACCGAATCATGAGCTTAG 58.512 52.381 0.09 0.00 0.00 2.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
31 32 1.001633 GTTCAGTTAGCCCCTCGTCAA 59.998 52.381 0.00 0.00 0.00 3.18
119 120 0.955428 GCACCCGAGCAAGTTCATCA 60.955 55.000 0.00 0.00 0.00 3.07
198 249 9.815936 GCCAATTGAAGATTGTTAAGAAATTTG 57.184 29.630 7.12 0.00 0.00 2.32
199 250 9.558396 TGCCAATTGAAGATTGTTAAGAAATTT 57.442 25.926 7.12 0.00 0.00 1.82
200 251 8.992073 GTGCCAATTGAAGATTGTTAAGAAATT 58.008 29.630 7.12 0.00 0.00 1.82
201 252 7.603784 GGTGCCAATTGAAGATTGTTAAGAAAT 59.396 33.333 7.12 0.00 0.00 2.17
202 253 6.928492 GGTGCCAATTGAAGATTGTTAAGAAA 59.072 34.615 7.12 0.00 0.00 2.52
203 254 6.267471 AGGTGCCAATTGAAGATTGTTAAGAA 59.733 34.615 7.12 0.00 0.00 2.52
204 255 5.774690 AGGTGCCAATTGAAGATTGTTAAGA 59.225 36.000 7.12 0.00 0.00 2.10
205 256 5.865552 CAGGTGCCAATTGAAGATTGTTAAG 59.134 40.000 7.12 0.00 0.00 1.85
206 257 5.782047 CAGGTGCCAATTGAAGATTGTTAA 58.218 37.500 7.12 0.00 0.00 2.01
207 258 4.321899 GCAGGTGCCAATTGAAGATTGTTA 60.322 41.667 7.12 0.00 34.31 2.41
208 259 3.555586 GCAGGTGCCAATTGAAGATTGTT 60.556 43.478 7.12 0.00 34.31 2.83
211 262 2.250031 TGCAGGTGCCAATTGAAGATT 58.750 42.857 7.12 0.00 41.18 2.40
227 278 4.387862 GCCTGTTTTGAGATTTTCATGCAG 59.612 41.667 0.00 0.00 35.27 4.41
254 305 2.622942 CCTTTTGGAAGCAAGCTACACA 59.377 45.455 0.00 0.00 44.07 3.72
296 354 4.106197 GACGTAGATCTTCGCAACATCTT 58.894 43.478 20.10 0.00 0.00 2.40
315 373 2.491022 GGAGAGTCCCCCATCGACG 61.491 68.421 0.00 0.00 35.33 5.12
317 375 1.075970 CTGGAGAGTCCCCCATCGA 60.076 63.158 2.68 0.00 35.03 3.59
330 388 0.531532 CATAGCGAAGGCACCTGGAG 60.532 60.000 0.00 0.00 43.41 3.86
336 394 1.305219 TGGTTGCATAGCGAAGGCAC 61.305 55.000 0.83 0.00 43.41 5.01
337 395 0.394216 ATGGTTGCATAGCGAAGGCA 60.394 50.000 0.00 0.00 43.41 4.75
339 397 2.292267 AGAATGGTTGCATAGCGAAGG 58.708 47.619 0.00 0.00 0.00 3.46
343 401 2.032550 CCTGAAGAATGGTTGCATAGCG 59.967 50.000 0.00 0.00 0.00 4.26
363 421 2.576648 AGTTTGACCTTGATCTACCCCC 59.423 50.000 0.00 0.00 0.00 5.40
416 474 3.744530 GCCTAAGTCATTGTTATCCCGCT 60.745 47.826 0.00 0.00 0.00 5.52
458 516 4.520492 GCACCCAATGAAAAGAGAAGAAGA 59.480 41.667 0.00 0.00 0.00 2.87
823 881 2.779755 TGGACTACACGGCATCAATT 57.220 45.000 0.00 0.00 0.00 2.32
841 899 1.238439 ACGCTTCTGTCACCCAAATG 58.762 50.000 0.00 0.00 0.00 2.32
861 1091 1.125633 ATTCCGGCCCAGTTACGTAT 58.874 50.000 0.00 0.00 0.00 3.06
948 1183 1.745489 CTTACGGTGGCTGGGCTTC 60.745 63.158 0.00 0.00 0.00 3.86
1185 1426 3.013219 GAGAGATGGGGAAGAAAGCAAC 58.987 50.000 0.00 0.00 0.00 4.17
1187 1428 1.561542 GGAGAGATGGGGAAGAAAGCA 59.438 52.381 0.00 0.00 0.00 3.91
1194 1435 2.040884 CCGGGGAGAGATGGGGAA 60.041 66.667 0.00 0.00 0.00 3.97
1195 1436 4.880426 GCCGGGGAGAGATGGGGA 62.880 72.222 2.18 0.00 0.00 4.81
1219 1460 0.813821 ACGGGACCTAGAAAGCGTAC 59.186 55.000 0.00 0.00 0.00 3.67
1222 1463 1.226603 CGACGGGACCTAGAAAGCG 60.227 63.158 0.00 0.00 0.00 4.68
1235 1478 4.477975 GGCGAGACCTGACGACGG 62.478 72.222 0.00 0.00 34.51 4.79
1243 1486 2.759641 TACACGACAGGGCGAGACCT 62.760 60.000 0.00 0.00 43.08 3.85
1251 1494 1.513158 CAGGAGCTACACGACAGGG 59.487 63.158 0.00 0.00 0.00 4.45
1390 1633 3.002791 CCGCACATGAATACTGTCAAGT 58.997 45.455 0.00 0.00 40.67 3.16
1425 1668 2.632377 ACTTCCGCACATGAATACTGG 58.368 47.619 0.00 0.00 0.00 4.00
1426 1669 4.449068 GGATACTTCCGCACATGAATACTG 59.551 45.833 0.00 0.00 30.72 2.74
1427 1670 4.100963 TGGATACTTCCGCACATGAATACT 59.899 41.667 0.00 0.00 45.89 2.12
1428 1671 4.377021 TGGATACTTCCGCACATGAATAC 58.623 43.478 0.00 0.00 45.89 1.89
1429 1672 4.681074 TGGATACTTCCGCACATGAATA 57.319 40.909 0.00 0.00 45.89 1.75
1430 1673 3.558931 TGGATACTTCCGCACATGAAT 57.441 42.857 0.00 0.00 45.89 2.57
1431 1674 3.205338 CATGGATACTTCCGCACATGAA 58.795 45.455 0.00 0.00 45.89 2.57
1432 1675 2.837498 CATGGATACTTCCGCACATGA 58.163 47.619 0.00 0.00 45.89 3.07
1433 1676 1.265095 GCATGGATACTTCCGCACATG 59.735 52.381 0.00 0.00 45.89 3.21
1434 1677 1.141657 AGCATGGATACTTCCGCACAT 59.858 47.619 0.00 0.00 45.89 3.21
1435 1678 0.541392 AGCATGGATACTTCCGCACA 59.459 50.000 0.00 0.00 45.89 4.57
1436 1679 1.202580 AGAGCATGGATACTTCCGCAC 60.203 52.381 0.00 0.00 45.89 5.34
1437 1680 1.123077 AGAGCATGGATACTTCCGCA 58.877 50.000 0.00 0.00 45.89 5.69
1438 1681 2.297597 ACTAGAGCATGGATACTTCCGC 59.702 50.000 0.00 0.00 45.89 5.54
1439 1682 3.858877 GCACTAGAGCATGGATACTTCCG 60.859 52.174 7.33 0.00 45.89 4.30
1440 1683 3.556004 GGCACTAGAGCATGGATACTTCC 60.556 52.174 14.31 0.00 38.25 3.46
1441 1684 3.658709 GGCACTAGAGCATGGATACTTC 58.341 50.000 14.31 0.00 35.83 3.01
1442 1685 2.036475 CGGCACTAGAGCATGGATACTT 59.964 50.000 14.31 0.00 35.83 2.24
1443 1686 1.615883 CGGCACTAGAGCATGGATACT 59.384 52.381 14.31 0.00 35.83 2.12
1444 1687 1.337260 CCGGCACTAGAGCATGGATAC 60.337 57.143 14.31 0.00 34.57 2.24
1445 1688 0.969149 CCGGCACTAGAGCATGGATA 59.031 55.000 14.31 0.00 34.57 2.59
1446 1689 1.750930 CCGGCACTAGAGCATGGAT 59.249 57.895 14.31 0.00 34.57 3.41
1447 1690 3.094062 GCCGGCACTAGAGCATGGA 62.094 63.158 24.80 0.00 34.57 3.41
1448 1691 2.590007 GCCGGCACTAGAGCATGG 60.590 66.667 24.80 14.89 35.83 3.66
1449 1692 1.026182 TTTGCCGGCACTAGAGCATG 61.026 55.000 32.95 5.66 34.72 4.06
1450 1693 0.107017 ATTTGCCGGCACTAGAGCAT 60.107 50.000 32.95 9.63 34.72 3.79
1451 1694 0.744414 GATTTGCCGGCACTAGAGCA 60.744 55.000 32.95 10.28 35.83 4.26
1452 1695 1.440145 GGATTTGCCGGCACTAGAGC 61.440 60.000 32.95 17.87 0.00 4.09
1453 1696 0.815615 GGGATTTGCCGGCACTAGAG 60.816 60.000 32.95 0.00 37.63 2.43
1454 1697 1.223487 GGGATTTGCCGGCACTAGA 59.777 57.895 32.95 12.64 37.63 2.43
1455 1698 1.097547 CAGGGATTTGCCGGCACTAG 61.098 60.000 32.95 13.05 37.63 2.57
1574 1817 8.698210 ACTTGATAGGTATTTCATTACGGTACA 58.302 33.333 0.00 0.00 0.00 2.90
1618 1862 0.383949 TTGGTTCAGCTTTCGGTTGC 59.616 50.000 0.00 0.00 0.00 4.17
1627 1871 4.622695 GCTCTTAGATGAGTTGGTTCAGCT 60.623 45.833 0.00 0.00 45.11 4.24
1628 1872 3.620821 GCTCTTAGATGAGTTGGTTCAGC 59.379 47.826 0.00 0.00 36.51 4.26
1655 1899 5.180492 CGCCTTGATCCAACTTTTTAGTACA 59.820 40.000 0.00 0.00 0.00 2.90
1724 1968 6.207221 GCTTTTCCAAATTTGTTTCCCATCAT 59.793 34.615 16.73 0.00 0.00 2.45
1839 2095 6.340537 TGTTGAAAGACGACAACTAGAAAC 57.659 37.500 0.00 0.00 44.25 2.78
1849 2105 5.082059 CACTGCATATTGTTGAAAGACGAC 58.918 41.667 0.00 0.00 0.00 4.34
1852 2108 6.000891 TCACACTGCATATTGTTGAAAGAC 57.999 37.500 0.00 0.00 0.00 3.01
1946 2205 8.774890 TTGTGTCCAATAAATTTGATGAATGG 57.225 30.769 0.00 0.00 0.00 3.16
1956 2215 9.995003 ACATGTACAATTTGTGTCCAATAAATT 57.005 25.926 12.30 0.00 41.98 1.82
2233 2494 7.479291 GTGCATGAATTACAATTTGCAACAATC 59.521 33.333 13.04 1.56 41.25 2.67
2343 2604 4.339872 ACATGCAACAAATGTGGATTGT 57.660 36.364 0.00 0.00 42.56 2.71
2385 2647 7.800300 ACCAAGTAATAGAGAAAGAGAAGGT 57.200 36.000 0.00 0.00 0.00 3.50
2431 2693 8.559536 TGCTTTCATTACTCAACAGAACTAAAG 58.440 33.333 0.00 0.00 0.00 1.85
2439 2701 6.506500 AAGGATGCTTTCATTACTCAACAG 57.493 37.500 0.00 0.00 31.96 3.16
2512 2774 5.535333 CAGGTGCAAGATTCAAACAAGATT 58.465 37.500 0.00 0.00 0.00 2.40
2519 2781 1.614903 CAGGCAGGTGCAAGATTCAAA 59.385 47.619 4.01 0.00 44.36 2.69
2563 2909 4.778534 AAGTTGCATGAAATCCTGTCTG 57.221 40.909 0.00 0.00 0.00 3.51
2711 3059 7.107542 ACTTGTTACAAAGGACAGTTGTAGAA 58.892 34.615 0.00 0.00 41.26 2.10
2950 3316 0.607217 TGACACCAGAAGCAGCATGG 60.607 55.000 9.23 9.23 40.10 3.66
3085 3451 3.730269 AGGAGGAGCATAGGAACTTTCT 58.270 45.455 0.00 0.00 41.75 2.52
3144 3510 2.268920 GACCCATCGAAGCTGGCA 59.731 61.111 0.00 0.00 32.08 4.92
3160 3526 1.202927 CCAAAGTTTCCAGCAGGAGGA 60.203 52.381 0.00 0.00 46.74 3.71
3166 3532 2.727544 GCGCCAAAGTTTCCAGCA 59.272 55.556 0.00 0.00 0.00 4.41
3277 3643 1.404843 GTATCGAGAGCTTGACCCCT 58.595 55.000 0.00 0.00 0.00 4.79
3298 3664 1.418264 TCTGGGTTTGATTCGTGGTCA 59.582 47.619 0.00 0.00 0.00 4.02
3346 3712 2.352960 GGCTTGCTTTATCTGGTCGAAG 59.647 50.000 0.00 0.00 0.00 3.79
3412 3778 2.654877 GCTGGGTTCTTCGACGGA 59.345 61.111 0.00 0.00 0.00 4.69
3623 3992 1.205655 CACAAGAAGGAGCGAGGATCA 59.794 52.381 0.00 0.00 33.17 2.92
3677 4046 1.346068 GGCCTAATCACCTAGAGCCAG 59.654 57.143 0.00 0.00 36.25 4.85
3755 4125 4.882671 TGACAGCAAGAAAGTTCTGAAC 57.117 40.909 12.54 12.54 37.65 3.18
3791 4161 5.220873 GAGAAAGAAAACTCAAAAGGCGACT 60.221 40.000 0.00 0.00 36.20 4.18
3795 4165 5.521906 AGGAGAAAGAAAACTCAAAAGGC 57.478 39.130 0.00 0.00 35.17 4.35
3811 4181 3.187637 CCGAATAAAACGCACAAGGAGAA 59.812 43.478 0.00 0.00 0.00 2.87
3812 4182 2.739913 CCGAATAAAACGCACAAGGAGA 59.260 45.455 0.00 0.00 0.00 3.71
3813 4183 2.482721 ACCGAATAAAACGCACAAGGAG 59.517 45.455 0.00 0.00 0.00 3.69
3814 4184 2.496111 ACCGAATAAAACGCACAAGGA 58.504 42.857 0.00 0.00 0.00 3.36
3815 4185 2.981400 ACCGAATAAAACGCACAAGG 57.019 45.000 0.00 0.00 0.00 3.61
3816 4186 4.141855 AGAACCGAATAAAACGCACAAG 57.858 40.909 0.00 0.00 0.00 3.16
3817 4187 4.377635 GCTAGAACCGAATAAAACGCACAA 60.378 41.667 0.00 0.00 0.00 3.33
3818 4188 3.123959 GCTAGAACCGAATAAAACGCACA 59.876 43.478 0.00 0.00 0.00 4.57
3819 4189 3.370061 AGCTAGAACCGAATAAAACGCAC 59.630 43.478 0.00 0.00 0.00 5.34
3844 4215 3.803082 CCACAGCAATGGACCGCG 61.803 66.667 0.00 0.00 43.02 6.46
3845 4216 2.672996 ACCACAGCAATGGACCGC 60.673 61.111 12.88 0.00 43.02 5.68
3846 4217 0.677731 ATCACCACAGCAATGGACCG 60.678 55.000 12.88 1.93 43.02 4.79
3848 4219 2.423538 GGTAATCACCACAGCAATGGAC 59.576 50.000 12.88 0.67 45.04 4.02
3849 4220 2.722094 GGTAATCACCACAGCAATGGA 58.278 47.619 12.88 0.00 45.04 3.41
3883 4254 2.069273 GAAATCAGTGACCCGTCTGTG 58.931 52.381 0.00 0.00 33.89 3.66
3884 4255 1.691976 TGAAATCAGTGACCCGTCTGT 59.308 47.619 0.00 0.00 33.89 3.41
3904 4275 2.915349 CAGGCATCATAAGAGCACAGT 58.085 47.619 0.00 0.00 0.00 3.55
3909 4280 3.639538 CAAATGCAGGCATCATAAGAGC 58.360 45.455 7.29 0.00 35.31 4.09
3910 4281 3.639538 GCAAATGCAGGCATCATAAGAG 58.360 45.455 7.29 0.00 41.59 2.85
3911 4282 3.720949 GCAAATGCAGGCATCATAAGA 57.279 42.857 7.29 0.00 41.59 2.10
3920 4291 5.989293 CGTATTACGTTTGCAAATGCAGGC 61.989 45.833 27.36 14.66 43.85 4.85
3921 4292 3.541916 CGTATTACGTTTGCAAATGCAGG 59.458 43.478 27.36 13.75 43.85 4.85
3922 4293 4.720415 CGTATTACGTTTGCAAATGCAG 57.280 40.909 27.36 15.79 43.85 4.41
3936 4307 8.025445 TGAGAAGAACAAGGAAGTACGTATTAC 58.975 37.037 0.00 0.00 0.00 1.89
3937 4308 8.114331 TGAGAAGAACAAGGAAGTACGTATTA 57.886 34.615 0.00 0.00 0.00 0.98
3938 4309 6.989659 TGAGAAGAACAAGGAAGTACGTATT 58.010 36.000 0.00 0.00 0.00 1.89
3942 4313 5.529791 TCTTGAGAAGAACAAGGAAGTACG 58.470 41.667 0.00 0.00 43.11 3.67
3943 4314 7.971183 AATCTTGAGAAGAACAAGGAAGTAC 57.029 36.000 0.00 0.00 43.11 2.73
3944 4315 8.210946 TCAAATCTTGAGAAGAACAAGGAAGTA 58.789 33.333 0.00 0.00 43.11 2.24
3945 4316 7.056635 TCAAATCTTGAGAAGAACAAGGAAGT 58.943 34.615 0.00 0.00 43.11 3.01
3946 4317 7.502120 TCAAATCTTGAGAAGAACAAGGAAG 57.498 36.000 0.00 0.00 43.11 3.46
3947 4318 7.720957 TGATCAAATCTTGAGAAGAACAAGGAA 59.279 33.333 0.00 0.00 43.98 3.36
3948 4319 7.226441 TGATCAAATCTTGAGAAGAACAAGGA 58.774 34.615 0.00 0.00 43.98 3.36
3949 4320 7.444629 TGATCAAATCTTGAGAAGAACAAGG 57.555 36.000 0.00 0.00 43.98 3.61
3950 4321 9.909644 AATTGATCAAATCTTGAGAAGAACAAG 57.090 29.630 13.09 0.00 43.98 3.16
4025 4453 9.784531 AAAACATATCTTATGATGGACGAATCT 57.215 29.630 1.45 0.00 34.32 2.40
4027 4455 9.559732 TGAAAACATATCTTATGATGGACGAAT 57.440 29.630 1.45 0.00 34.32 3.34
4028 4456 8.956533 TGAAAACATATCTTATGATGGACGAA 57.043 30.769 1.45 0.00 34.32 3.85
4029 4457 8.992073 CATGAAAACATATCTTATGATGGACGA 58.008 33.333 1.45 0.00 34.32 4.20
4030 4458 8.777413 ACATGAAAACATATCTTATGATGGACG 58.223 33.333 0.00 0.00 34.32 4.79
4149 4581 1.200716 CATGTCATTGACACCACTGGC 59.799 52.381 21.19 0.00 45.65 4.85
4174 4606 0.034896 CCTTCGCAGGTGTAACTGGT 59.965 55.000 0.00 0.00 38.90 4.00
4187 4619 2.167487 AGGAGAGAGAAATGACCTTCGC 59.833 50.000 0.00 0.00 0.00 4.70
4191 4623 4.843516 AGAACAAGGAGAGAGAAATGACCT 59.156 41.667 0.00 0.00 0.00 3.85
4272 4705 2.520741 GCCGAGGGGAGGAGAGAG 60.521 72.222 0.00 0.00 34.06 3.20
4578 5036 4.764771 AGTACGGGGCAGGCCGTA 62.765 66.667 6.98 9.09 42.72 4.02
4602 5060 2.543861 CGATTCGTATGGACCAGACCAG 60.544 54.545 13.58 0.86 43.49 4.00
4603 5061 1.407618 CGATTCGTATGGACCAGACCA 59.592 52.381 13.58 0.00 44.41 4.02
4604 5062 1.407979 ACGATTCGTATGGACCAGACC 59.592 52.381 13.58 0.00 38.73 3.85
4605 5063 2.865343 ACGATTCGTATGGACCAGAC 57.135 50.000 10.53 9.31 38.73 3.51
4646 5104 6.984474 TGAGAAACTACTAATAGCCAAATCGG 59.016 38.462 0.00 0.00 38.11 4.18
4653 5111 7.931948 TGGCTTATTGAGAAACTACTAATAGCC 59.068 37.037 0.00 0.00 33.32 3.93
4654 5112 8.888579 TGGCTTATTGAGAAACTACTAATAGC 57.111 34.615 0.00 0.00 30.75 2.97
4660 5118 7.575720 GCACAATTGGCTTATTGAGAAACTACT 60.576 37.037 10.83 0.00 38.56 2.57
4694 5156 3.731867 CGAAAGCTGTGCAAAAGTGACTT 60.732 43.478 0.00 0.00 0.00 3.01
4696 5158 2.111756 CGAAAGCTGTGCAAAAGTGAC 58.888 47.619 0.00 0.00 0.00 3.67
4700 5162 4.043750 TCAAATCGAAAGCTGTGCAAAAG 58.956 39.130 0.00 0.00 0.00 2.27
4709 5172 3.997021 ACTCGTCAATCAAATCGAAAGCT 59.003 39.130 0.00 0.00 32.12 3.74
4773 5236 2.404215 ACATGCAGACACGAACACTAC 58.596 47.619 0.00 0.00 0.00 2.73


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

AutoCloner maintained by Alex Coulton.