Multiple sequence alignment - TraesCS2B01G495800

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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 TraesCS2B01G495800 chr2B 100.000 4270 0 0 1 4270 692710631 692714900 0.000000e+00 7886.0
1 TraesCS2B01G495800 chr2D 96.130 2894 92 10 1 2887 576849391 576852271 0.000000e+00 4706.0
2 TraesCS2B01G495800 chr2D 93.537 851 38 8 2885 3720 576852432 576853280 0.000000e+00 1251.0
3 TraesCS2B01G495800 chr2D 88.387 310 25 6 3878 4183 576853402 576853704 3.140000e-96 363.0
4 TraesCS2B01G495800 chr2A 95.470 2671 88 10 69 2737 714622041 714624680 0.000000e+00 4231.0
5 TraesCS2B01G495800 chr2A 93.665 884 46 6 2784 3660 714624678 714625558 0.000000e+00 1314.0
6 TraesCS2B01G495800 chr2A 87.500 304 28 5 3878 4177 714625824 714626121 4.090000e-90 342.0
7 TraesCS2B01G495800 chr5D 88.651 467 38 5 1757 2221 298133470 298133923 4.820000e-154 555.0
8 TraesCS2B01G495800 chr5D 83.665 502 69 9 3026 3522 298134677 298135170 1.080000e-125 460.0
9 TraesCS2B01G495800 chr1D 87.397 484 46 9 1822 2300 408737939 408737466 3.760000e-150 542.0
10 TraesCS2B01G495800 chr1D 89.032 155 17 0 2297 2451 408714511 408714357 4.360000e-45 193.0
11 TraesCS2B01G495800 chr1D 93.750 48 3 0 4139 4186 479770869 479770916 5.920000e-09 73.1
12 TraesCS2B01G495800 chr3B 85.211 426 47 13 3106 3522 259375304 259375722 1.420000e-114 424.0
13 TraesCS2B01G495800 chr6A 87.129 101 9 1 4032 4132 133795690 133795786 1.260000e-20 111.0
14 TraesCS2B01G495800 chr1A 93.617 47 3 0 4140 4186 576217309 576217355 2.130000e-08 71.3
15 TraesCS2B01G495800 chr1A 89.583 48 5 0 4139 4186 576212494 576212541 1.280000e-05 62.1
16 TraesCS2B01G495800 chr1A 89.130 46 5 0 4141 4186 576215243 576215288 1.660000e-04 58.4


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 TraesCS2B01G495800 chr2B 692710631 692714900 4269 False 7886.000000 7886 100.000000 1 4270 1 chr2B.!!$F1 4269
1 TraesCS2B01G495800 chr2D 576849391 576853704 4313 False 2106.666667 4706 92.684667 1 4183 3 chr2D.!!$F1 4182
2 TraesCS2B01G495800 chr2A 714622041 714626121 4080 False 1962.333333 4231 92.211667 69 4177 3 chr2A.!!$F1 4108
3 TraesCS2B01G495800 chr5D 298133470 298135170 1700 False 507.500000 555 86.158000 1757 3522 2 chr5D.!!$F1 1765

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
766 768 0.029300 CGGTTTGACTGGCTTGTGTG 59.971 55.000 0.0 0.0 0.00 3.82 F
1530 1533 0.985760 ACCTACGCCCAATAACACCA 59.014 50.000 0.0 0.0 0.00 4.17 F
1554 1557 1.213926 GATGATCTTGCCCCTGACCTT 59.786 52.381 0.0 0.0 0.00 3.50 F
3082 3261 1.174712 GCAGAGGCCTCAAGTGCAAA 61.175 55.000 33.9 0.0 34.18 3.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2422 2427 2.020694 GCATGAGCAAGCATACAGGGT 61.021 52.381 0.00 0.0 41.58 4.34 R
2958 3137 3.192001 ACTGCAGTAATTGTGGCATTGAG 59.808 43.478 20.16 0.0 35.45 3.02 R
3209 3388 3.681897 CCTTCAGTTCATCTTCCTTCACG 59.318 47.826 0.00 0.0 0.00 4.35 R
3917 4227 1.014352 CTACCCAAAGTGCGGCATAC 58.986 55.000 5.72 0.0 0.00 2.39 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
77 78 2.364961 AGGAGAACCCTAGCGCCT 59.635 61.111 2.29 0.00 45.48 5.52
157 158 2.242572 CCGCGGACGATCGTCTCTA 61.243 63.158 38.48 0.00 44.04 2.43
159 160 1.279238 GCGGACGATCGTCTCTACC 59.721 63.158 38.48 25.68 44.04 3.18
207 208 5.434408 GAGGTCGTAATTTCAGGGGTAATT 58.566 41.667 0.00 0.00 0.00 1.40
224 225 2.414994 ATTGCTCACTCCCATCTGTG 57.585 50.000 0.00 0.00 35.68 3.66
246 247 2.120909 GCCCACGCATGTATGGCTT 61.121 57.895 10.92 0.00 40.36 4.35
294 295 7.850003 TGCAGTTTTATTTTGCGAAATTTTCTG 59.150 29.630 17.00 18.00 40.62 3.02
295 296 8.061268 GCAGTTTTATTTTGCGAAATTTTCTGA 58.939 29.630 17.00 0.00 36.82 3.27
352 354 6.110707 GGTTCCTCTGTTTTGATCCGTATTA 58.889 40.000 0.00 0.00 0.00 0.98
354 356 5.667466 TCCTCTGTTTTGATCCGTATTACC 58.333 41.667 0.00 0.00 0.00 2.85
641 643 7.325694 AGAATTTAAGCCACTTGGATTGATTG 58.674 34.615 9.06 0.00 44.55 2.67
714 716 6.825721 GGGATCTATTAATCTGCTGTTATGGG 59.174 42.308 0.00 0.00 0.00 4.00
722 724 4.888326 TCTGCTGTTATGGGCAAAAATT 57.112 36.364 0.00 0.00 38.02 1.82
723 725 4.567971 TCTGCTGTTATGGGCAAAAATTG 58.432 39.130 0.00 0.00 38.02 2.32
724 726 3.672808 TGCTGTTATGGGCAAAAATTGG 58.327 40.909 0.00 0.00 35.40 3.16
766 768 0.029300 CGGTTTGACTGGCTTGTGTG 59.971 55.000 0.00 0.00 0.00 3.82
907 909 8.587952 TTGCCTCTTTTATAAAGAAAAACTGC 57.412 30.769 0.00 0.00 0.00 4.40
1059 1062 1.980772 GCTGCCCATTGAGCCACTT 60.981 57.895 0.00 0.00 0.00 3.16
1128 1131 8.008513 ACGAGTATTCTACATATGAACAACCT 57.991 34.615 10.38 0.00 0.00 3.50
1170 1173 1.986575 GCATTCCACCTCTTCGCAGC 61.987 60.000 0.00 0.00 0.00 5.25
1204 1207 2.489329 CCAAATATCCGACATGATGGGC 59.511 50.000 0.00 0.00 0.00 5.36
1251 1254 6.149474 GTGGTACTCTTGACACTAAAATGCAT 59.851 38.462 0.00 0.00 0.00 3.96
1263 1266 9.840427 GACACTAAAATGCATACAGTTTATGTT 57.160 29.630 0.00 0.00 43.22 2.71
1465 1468 5.579904 GGGTTTTCTCTTATTACGGTGAGAC 59.420 44.000 0.00 0.00 35.60 3.36
1500 1503 1.144936 GCTCAGAGGTTGGATCCCG 59.855 63.158 9.90 0.00 0.00 5.14
1530 1533 0.985760 ACCTACGCCCAATAACACCA 59.014 50.000 0.00 0.00 0.00 4.17
1554 1557 1.213926 GATGATCTTGCCCCTGACCTT 59.786 52.381 0.00 0.00 0.00 3.50
2062 2067 2.478292 TCCTAATCTGTCCTTCCCCAC 58.522 52.381 0.00 0.00 0.00 4.61
2078 2083 2.285083 CCCACGACAAGTTCAGAAACA 58.715 47.619 0.00 0.00 37.88 2.83
2106 2111 3.009473 ACCCTGTCAGTTATGCATGACTT 59.991 43.478 20.61 2.82 44.90 3.01
2422 2427 9.367160 TGAGATAACATCAGGTATCACATTAGA 57.633 33.333 3.66 0.00 0.00 2.10
2541 2548 6.542370 ACTGCTAATAGCGACCAACATATTTT 59.458 34.615 7.84 0.00 46.26 1.82
2640 2647 7.505585 TCTTTGGGTGTGAAAATTCAGATAACT 59.494 33.333 0.00 0.00 37.98 2.24
2704 2711 3.947612 AGGAGTTGATGGCTCAATGAT 57.052 42.857 3.35 0.00 43.08 2.45
2708 2715 4.996122 GGAGTTGATGGCTCAATGATAGAG 59.004 45.833 3.35 0.00 43.08 2.43
2827 2835 7.894753 TGATGAGTGAGATTTCTGTAGATCT 57.105 36.000 0.00 0.00 35.41 2.75
2851 2859 7.394077 TCTGCTCAAAGTGGAAATGAATGATTA 59.606 33.333 0.00 0.00 0.00 1.75
2870 2878 7.496529 TGATTAGACTTATTTGGCTGTATGC 57.503 36.000 0.00 0.00 41.94 3.14
2871 2879 7.282585 TGATTAGACTTATTTGGCTGTATGCT 58.717 34.615 0.00 0.00 42.39 3.79
2958 3137 3.548818 GCACTCCCGTGAATAATGCAATC 60.549 47.826 0.00 0.00 43.97 2.67
2981 3160 3.573538 TCAATGCCACAATTACTGCAGTT 59.426 39.130 27.06 4.60 37.12 3.16
2982 3161 4.764308 TCAATGCCACAATTACTGCAGTTA 59.236 37.500 27.06 17.54 37.12 2.24
3082 3261 1.174712 GCAGAGGCCTCAAGTGCAAA 61.175 55.000 33.90 0.00 34.18 3.68
3175 3354 2.159627 GGCTAACAAACTGATGTGACCG 59.840 50.000 0.00 0.00 32.81 4.79
3209 3388 2.621998 CCCAGATGATGTTCAATCTGCC 59.378 50.000 7.06 0.00 39.21 4.85
3212 3391 2.941064 AGATGATGTTCAATCTGCCGTG 59.059 45.455 0.00 0.00 0.00 4.94
3368 3547 1.335496 CGAACCCTAGAGCAGACTAGC 59.665 57.143 0.00 0.00 38.66 3.42
3371 3550 3.039252 ACCCTAGAGCAGACTAGCATT 57.961 47.619 0.00 0.00 38.66 3.56
3553 3738 0.462047 GCGTCTGGATGGTAAGTGGG 60.462 60.000 0.00 0.00 0.00 4.61
3568 3753 1.707427 AGTGGGTCCTCTGCATTTCTT 59.293 47.619 0.00 0.00 0.00 2.52
3616 3801 1.442688 GCACTTTGTTAGCAGCGGC 60.443 57.895 0.00 0.00 41.61 6.53
3660 3846 7.425606 CCAAAGTTTGCTTCAGTGTAAACTAT 58.574 34.615 10.25 1.28 46.61 2.12
3684 3955 2.936498 CAACGGACAGGTGCTATTAAGG 59.064 50.000 0.00 0.00 0.00 2.69
3703 3974 5.600669 AAGGTTCTTCTGTTTCCCCTATT 57.399 39.130 0.00 0.00 0.00 1.73
3706 3977 5.045505 AGGTTCTTCTGTTTCCCCTATTCTC 60.046 44.000 0.00 0.00 0.00 2.87
3723 4033 4.640789 TTCTCGCTTATCTGAGAACCTC 57.359 45.455 0.80 0.00 44.11 3.85
3729 4039 3.895041 GCTTATCTGAGAACCTCTAGGCT 59.105 47.826 0.00 0.00 39.32 4.58
3730 4040 4.022329 GCTTATCTGAGAACCTCTAGGCTC 60.022 50.000 0.00 0.00 39.32 4.70
3731 4041 2.445682 TCTGAGAACCTCTAGGCTCC 57.554 55.000 0.00 0.00 39.32 4.70
3735 4045 1.611491 GAGAACCTCTAGGCTCCGATG 59.389 57.143 0.00 0.00 39.32 3.84
3744 4054 1.135094 AGGCTCCGATGGATTGATGT 58.865 50.000 0.00 0.00 0.00 3.06
3746 4056 2.705658 AGGCTCCGATGGATTGATGTAA 59.294 45.455 0.00 0.00 0.00 2.41
3760 4070 1.689273 GATGTAATCGGCCTCAGAGGT 59.311 52.381 18.37 0.00 33.06 3.85
3761 4071 2.447408 TGTAATCGGCCTCAGAGGTA 57.553 50.000 18.37 4.63 37.80 3.08
3762 4072 2.307768 TGTAATCGGCCTCAGAGGTAG 58.692 52.381 18.37 12.03 37.80 3.18
3763 4073 1.614413 GTAATCGGCCTCAGAGGTAGG 59.386 57.143 18.37 7.67 37.80 3.18
3764 4074 0.261991 AATCGGCCTCAGAGGTAGGA 59.738 55.000 18.37 12.61 37.80 2.94
3765 4075 0.178975 ATCGGCCTCAGAGGTAGGAG 60.179 60.000 18.37 5.54 37.80 3.69
3766 4076 2.494530 CGGCCTCAGAGGTAGGAGC 61.495 68.421 18.37 1.93 37.80 4.70
3784 4094 1.417517 AGCAGTCTGTTGTGTCATCCA 59.582 47.619 0.93 0.00 0.00 3.41
3802 4112 4.015872 TCCACGATTGCTTAAAGGTCTT 57.984 40.909 0.00 0.00 0.00 3.01
3831 4141 9.889128 TTTTTCTGTTCTTTTTGAGAATGGATT 57.111 25.926 0.00 0.00 45.66 3.01
3832 4142 9.889128 TTTTCTGTTCTTTTTGAGAATGGATTT 57.111 25.926 0.00 0.00 45.66 2.17
3833 4143 8.876275 TTCTGTTCTTTTTGAGAATGGATTTG 57.124 30.769 0.00 0.00 45.66 2.32
3834 4144 7.436118 TCTGTTCTTTTTGAGAATGGATTTGG 58.564 34.615 0.00 0.00 45.66 3.28
3835 4145 5.990996 TGTTCTTTTTGAGAATGGATTTGGC 59.009 36.000 0.00 0.00 45.66 4.52
3836 4146 4.808558 TCTTTTTGAGAATGGATTTGGCG 58.191 39.130 0.00 0.00 0.00 5.69
3837 4147 4.522405 TCTTTTTGAGAATGGATTTGGCGA 59.478 37.500 0.00 0.00 0.00 5.54
3838 4148 4.862902 TTTTGAGAATGGATTTGGCGAA 57.137 36.364 0.00 0.00 0.00 4.70
3839 4149 3.848272 TTGAGAATGGATTTGGCGAAC 57.152 42.857 0.00 0.00 0.00 3.95
3840 4150 2.789213 TGAGAATGGATTTGGCGAACA 58.211 42.857 0.00 0.00 0.00 3.18
3841 4151 2.487762 TGAGAATGGATTTGGCGAACAC 59.512 45.455 0.00 0.00 0.00 3.32
3842 4152 1.818674 AGAATGGATTTGGCGAACACC 59.181 47.619 5.80 5.80 0.00 4.16
3843 4153 0.894835 AATGGATTTGGCGAACACCC 59.105 50.000 9.20 3.59 0.00 4.61
3844 4154 0.251564 ATGGATTTGGCGAACACCCA 60.252 50.000 7.32 7.32 0.00 4.51
3845 4155 0.468214 TGGATTTGGCGAACACCCAA 60.468 50.000 9.20 0.00 40.43 4.12
3846 4156 0.038618 GGATTTGGCGAACACCCAAC 60.039 55.000 0.00 0.00 41.77 3.77
3847 4157 0.958822 GATTTGGCGAACACCCAACT 59.041 50.000 0.00 0.00 41.77 3.16
3848 4158 2.156098 GATTTGGCGAACACCCAACTA 58.844 47.619 0.00 0.00 41.77 2.24
3849 4159 1.600023 TTTGGCGAACACCCAACTAG 58.400 50.000 0.00 0.00 41.77 2.57
3850 4160 0.887387 TTGGCGAACACCCAACTAGC 60.887 55.000 0.00 0.00 37.43 3.42
3851 4161 1.302192 GGCGAACACCCAACTAGCA 60.302 57.895 0.00 0.00 0.00 3.49
3852 4162 0.887387 GGCGAACACCCAACTAGCAA 60.887 55.000 0.00 0.00 0.00 3.91
3853 4163 0.948678 GCGAACACCCAACTAGCAAA 59.051 50.000 0.00 0.00 0.00 3.68
3854 4164 1.335496 GCGAACACCCAACTAGCAAAA 59.665 47.619 0.00 0.00 0.00 2.44
3855 4165 2.223618 GCGAACACCCAACTAGCAAAAA 60.224 45.455 0.00 0.00 0.00 1.94
3856 4166 3.552068 GCGAACACCCAACTAGCAAAAAT 60.552 43.478 0.00 0.00 0.00 1.82
3857 4167 3.980775 CGAACACCCAACTAGCAAAAATG 59.019 43.478 0.00 0.00 0.00 2.32
3858 4168 4.306600 GAACACCCAACTAGCAAAAATGG 58.693 43.478 0.00 0.00 0.00 3.16
3859 4169 3.304829 ACACCCAACTAGCAAAAATGGT 58.695 40.909 0.00 0.00 0.00 3.55
3860 4170 3.069443 ACACCCAACTAGCAAAAATGGTG 59.931 43.478 9.89 9.89 45.75 4.17
3861 4171 2.632512 ACCCAACTAGCAAAAATGGTGG 59.367 45.455 0.00 0.00 0.00 4.61
3862 4172 2.632512 CCCAACTAGCAAAAATGGTGGT 59.367 45.455 0.00 0.00 32.50 4.16
3863 4173 3.554752 CCCAACTAGCAAAAATGGTGGTG 60.555 47.826 0.00 0.00 31.59 4.17
3864 4174 3.554752 CCAACTAGCAAAAATGGTGGTGG 60.555 47.826 0.00 0.27 31.59 4.61
3865 4175 2.957474 ACTAGCAAAAATGGTGGTGGT 58.043 42.857 0.00 0.00 33.92 4.16
3866 4176 2.890945 ACTAGCAAAAATGGTGGTGGTC 59.109 45.455 0.00 0.00 33.56 4.02
3867 4177 1.786937 AGCAAAAATGGTGGTGGTCA 58.213 45.000 0.00 0.00 0.00 4.02
3868 4178 1.688197 AGCAAAAATGGTGGTGGTCAG 59.312 47.619 0.00 0.00 0.00 3.51
3869 4179 1.873486 GCAAAAATGGTGGTGGTCAGC 60.873 52.381 0.00 0.00 43.68 4.26
3870 4180 1.047801 AAAAATGGTGGTGGTCAGCC 58.952 50.000 0.00 0.00 42.81 4.85
3871 4181 0.188342 AAAATGGTGGTGGTCAGCCT 59.812 50.000 0.00 0.00 42.81 4.58
3872 4182 0.188342 AAATGGTGGTGGTCAGCCTT 59.812 50.000 0.00 0.00 42.81 4.35
3873 4183 0.188342 AATGGTGGTGGTCAGCCTTT 59.812 50.000 0.00 0.00 42.81 3.11
3874 4184 0.540365 ATGGTGGTGGTCAGCCTTTG 60.540 55.000 0.00 0.00 42.81 2.77
3875 4185 1.152756 GGTGGTGGTCAGCCTTTGT 60.153 57.895 0.00 0.00 37.88 2.83
3876 4186 1.455383 GGTGGTGGTCAGCCTTTGTG 61.455 60.000 0.00 0.00 37.88 3.33
3877 4187 0.751643 GTGGTGGTCAGCCTTTGTGT 60.752 55.000 0.00 0.00 35.27 3.72
3892 4202 2.031258 TGTGTTTTTCTCGCAGGTGA 57.969 45.000 0.00 0.00 0.00 4.02
3902 4212 3.420893 TCTCGCAGGTGATTTGGAAAAT 58.579 40.909 0.00 0.00 0.00 1.82
3917 4227 2.167075 GGAAAATCAGAAGCCATGGTGG 59.833 50.000 14.67 0.00 41.55 4.61
3944 4254 3.368495 CGCACTTTGGGTAGTTGTTTTC 58.632 45.455 0.00 0.00 0.00 2.29
3945 4255 3.368495 GCACTTTGGGTAGTTGTTTTCG 58.632 45.455 0.00 0.00 0.00 3.46
3951 4261 6.264518 ACTTTGGGTAGTTGTTTTCGAATGAT 59.735 34.615 0.00 0.00 0.00 2.45
3952 4262 6.642707 TTGGGTAGTTGTTTTCGAATGATT 57.357 33.333 0.00 0.00 0.00 2.57
3959 4269 5.180492 AGTTGTTTTCGAATGATTTCCGCTA 59.820 36.000 0.00 0.00 0.00 4.26
3974 4284 2.104792 TCCGCTAGGAATTTCCTCCATG 59.895 50.000 21.20 11.18 45.66 3.66
3976 4286 3.545703 CGCTAGGAATTTCCTCCATGTT 58.454 45.455 21.20 0.00 45.66 2.71
3983 4293 7.853645 AGGAATTTCCTCCATGTTGAGAGGC 62.854 48.000 12.37 0.00 45.66 4.70
4000 4310 5.141910 GAGAGGCTTAAGAGGTAGGTGTAT 58.858 45.833 6.67 0.00 0.00 2.29
4001 4311 6.126273 TGAGAGGCTTAAGAGGTAGGTGTATA 60.126 42.308 6.67 0.00 0.00 1.47
4002 4312 6.865520 AGAGGCTTAAGAGGTAGGTGTATAT 58.134 40.000 6.67 0.00 0.00 0.86
4003 4313 6.722129 AGAGGCTTAAGAGGTAGGTGTATATG 59.278 42.308 6.67 0.00 0.00 1.78
4004 4314 6.621394 AGGCTTAAGAGGTAGGTGTATATGA 58.379 40.000 6.67 0.00 0.00 2.15
4005 4315 7.073854 AGGCTTAAGAGGTAGGTGTATATGAA 58.926 38.462 6.67 0.00 0.00 2.57
4006 4316 7.735321 AGGCTTAAGAGGTAGGTGTATATGAAT 59.265 37.037 6.67 0.00 0.00 2.57
4007 4317 7.819900 GGCTTAAGAGGTAGGTGTATATGAATG 59.180 40.741 6.67 0.00 0.00 2.67
4008 4318 8.585881 GCTTAAGAGGTAGGTGTATATGAATGA 58.414 37.037 6.67 0.00 0.00 2.57
4078 4391 2.949644 CCCGTTTCATCAAACTATCCCC 59.050 50.000 0.00 0.00 39.97 4.81
4113 4426 8.684520 GGAATTCTGATTGATCAAACAAGAGAT 58.315 33.333 17.79 10.59 36.18 2.75
4116 4429 8.625786 TTCTGATTGATCAAACAAGAGATTCA 57.374 30.769 17.79 10.26 36.18 2.57
4120 4433 9.016438 TGATTGATCAAACAAGAGATTCAATGA 57.984 29.630 15.28 0.00 33.08 2.57
4167 4480 3.920231 AGCTATCACTTCTCATGCCAA 57.080 42.857 0.00 0.00 0.00 4.52
4170 4483 3.944015 GCTATCACTTCTCATGCCAAAGT 59.056 43.478 0.00 0.00 33.63 2.66
4178 4491 0.991146 TCATGCCAAAGTGCTCCCTA 59.009 50.000 0.00 0.00 0.00 3.53
4197 4510 5.402997 CCTAGAGGGAGTAACTTTTTCGT 57.597 43.478 0.00 0.00 37.23 3.85
4198 4511 5.409211 CCTAGAGGGAGTAACTTTTTCGTC 58.591 45.833 0.00 0.00 37.23 4.20
4199 4512 4.950205 AGAGGGAGTAACTTTTTCGTCA 57.050 40.909 0.00 0.00 0.00 4.35
4200 4513 4.884247 AGAGGGAGTAACTTTTTCGTCAG 58.116 43.478 0.00 0.00 0.00 3.51
4201 4514 4.344390 AGAGGGAGTAACTTTTTCGTCAGT 59.656 41.667 0.00 0.00 0.00 3.41
4202 4515 4.629092 AGGGAGTAACTTTTTCGTCAGTC 58.371 43.478 0.00 0.00 0.00 3.51
4203 4516 3.427863 GGGAGTAACTTTTTCGTCAGTCG 59.572 47.826 0.00 0.00 41.41 4.18
4214 4527 3.759527 TCGTCAGTCGAAGATACCAAG 57.240 47.619 0.00 0.00 45.98 3.61
4215 4528 2.159421 TCGTCAGTCGAAGATACCAAGC 60.159 50.000 0.00 0.00 45.98 4.01
4216 4529 2.415491 CGTCAGTCGAAGATACCAAGCA 60.415 50.000 0.00 0.00 40.67 3.91
4217 4530 3.585862 GTCAGTCGAAGATACCAAGCAA 58.414 45.455 0.00 0.00 40.67 3.91
4218 4531 3.368236 GTCAGTCGAAGATACCAAGCAAC 59.632 47.826 0.00 0.00 40.67 4.17
4219 4532 3.258372 TCAGTCGAAGATACCAAGCAACT 59.742 43.478 0.00 0.00 40.67 3.16
4220 4533 3.997021 CAGTCGAAGATACCAAGCAACTT 59.003 43.478 0.00 0.00 40.67 2.66
4221 4534 3.997021 AGTCGAAGATACCAAGCAACTTG 59.003 43.478 0.24 0.24 40.67 3.16
4222 4535 3.746492 GTCGAAGATACCAAGCAACTTGT 59.254 43.478 6.58 0.00 38.22 3.16
4223 4536 4.927425 GTCGAAGATACCAAGCAACTTGTA 59.073 41.667 6.58 0.71 38.22 2.41
4224 4537 5.062308 GTCGAAGATACCAAGCAACTTGTAG 59.938 44.000 6.58 0.00 38.22 2.74
4225 4538 5.047590 TCGAAGATACCAAGCAACTTGTAGA 60.048 40.000 6.58 0.00 39.58 2.59
4226 4539 5.637810 CGAAGATACCAAGCAACTTGTAGAA 59.362 40.000 6.58 0.00 39.58 2.10
4227 4540 6.183360 CGAAGATACCAAGCAACTTGTAGAAG 60.183 42.308 6.58 0.00 39.58 2.85
4228 4541 5.491982 AGATACCAAGCAACTTGTAGAAGG 58.508 41.667 4.45 0.00 39.58 3.46
4229 4542 2.230660 ACCAAGCAACTTGTAGAAGGC 58.769 47.619 4.45 0.00 39.58 4.35
4230 4543 1.541588 CCAAGCAACTTGTAGAAGGCC 59.458 52.381 4.45 0.00 39.58 5.19
4231 4544 2.229792 CAAGCAACTTGTAGAAGGCCA 58.770 47.619 5.01 0.00 36.79 5.36
4232 4545 2.622942 CAAGCAACTTGTAGAAGGCCAA 59.377 45.455 5.01 0.00 36.79 4.52
4233 4546 2.230660 AGCAACTTGTAGAAGGCCAAC 58.769 47.619 5.01 0.00 32.95 3.77
4234 4547 1.953686 GCAACTTGTAGAAGGCCAACA 59.046 47.619 5.01 0.04 32.95 3.33
4235 4548 2.558359 GCAACTTGTAGAAGGCCAACAT 59.442 45.455 5.01 0.00 32.95 2.71
4236 4549 3.005791 GCAACTTGTAGAAGGCCAACATT 59.994 43.478 5.01 0.00 32.95 2.71
4237 4550 4.798574 CAACTTGTAGAAGGCCAACATTC 58.201 43.478 5.01 0.00 32.95 2.67
4238 4551 4.098914 ACTTGTAGAAGGCCAACATTCA 57.901 40.909 5.01 0.00 32.95 2.57
4239 4552 4.666512 ACTTGTAGAAGGCCAACATTCAT 58.333 39.130 5.01 0.00 32.95 2.57
4240 4553 4.702131 ACTTGTAGAAGGCCAACATTCATC 59.298 41.667 5.01 0.00 32.95 2.92
4241 4554 4.574674 TGTAGAAGGCCAACATTCATCT 57.425 40.909 5.01 0.00 0.00 2.90
4242 4555 4.922206 TGTAGAAGGCCAACATTCATCTT 58.078 39.130 5.01 0.00 0.00 2.40
4243 4556 5.324409 TGTAGAAGGCCAACATTCATCTTT 58.676 37.500 5.01 0.00 0.00 2.52
4244 4557 5.415701 TGTAGAAGGCCAACATTCATCTTTC 59.584 40.000 5.01 0.00 0.00 2.62
4245 4558 4.670765 AGAAGGCCAACATTCATCTTTCT 58.329 39.130 5.01 0.00 0.00 2.52
4246 4559 5.082425 AGAAGGCCAACATTCATCTTTCTT 58.918 37.500 5.01 0.00 0.00 2.52
4247 4560 5.541484 AGAAGGCCAACATTCATCTTTCTTT 59.459 36.000 5.01 0.00 0.00 2.52
4248 4561 5.813513 AGGCCAACATTCATCTTTCTTTT 57.186 34.783 5.01 0.00 0.00 2.27
4249 4562 6.178607 AGGCCAACATTCATCTTTCTTTTT 57.821 33.333 5.01 0.00 0.00 1.94
4269 4582 5.392767 TTTTCTGAGCTATCACTTCTCGT 57.607 39.130 0.00 0.00 0.00 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
106 107 4.888325 AGAGGGGAGGGATGCCGG 62.888 72.222 0.00 0.00 0.00 6.13
111 112 1.311371 AGGAGGAGAGGGGAGGGAT 60.311 63.158 0.00 0.00 0.00 3.85
151 152 2.783288 CGCCTTCGGGGGTAGAGAC 61.783 68.421 0.00 0.00 42.33 3.36
207 208 1.196766 AGCACAGATGGGAGTGAGCA 61.197 55.000 0.00 0.00 37.97 4.26
224 225 1.230635 CCATACATGCGTGGGCTAGC 61.231 60.000 11.36 6.04 40.82 3.42
246 247 3.554934 AGAAACAAACCAGACATGAGCA 58.445 40.909 0.00 0.00 0.00 4.26
352 354 2.436417 CAAAACATCATCGGACAGGGT 58.564 47.619 0.00 0.00 0.00 4.34
354 356 1.745087 CCCAAAACATCATCGGACAGG 59.255 52.381 0.00 0.00 0.00 4.00
427 429 0.898326 GGGGCACGGGTGAGAATTTT 60.898 55.000 2.38 0.00 0.00 1.82
429 431 2.198304 GAGGGGCACGGGTGAGAATT 62.198 60.000 2.38 0.00 0.00 2.17
430 432 2.610859 AGGGGCACGGGTGAGAAT 60.611 61.111 2.38 0.00 0.00 2.40
702 704 3.685756 CCAATTTTTGCCCATAACAGCAG 59.314 43.478 0.00 0.00 40.73 4.24
722 724 1.337703 CTGCTACAAACTTGCAAGCCA 59.662 47.619 26.27 10.56 38.81 4.75
723 725 1.932156 GCTGCTACAAACTTGCAAGCC 60.932 52.381 26.27 6.70 38.81 4.35
724 726 1.269206 TGCTGCTACAAACTTGCAAGC 60.269 47.619 26.27 11.89 39.55 4.01
766 768 4.990426 ACTGCATGTTGAAAATACAAAGGC 59.010 37.500 0.00 0.00 0.00 4.35
907 909 9.185192 GTTTGAATTTACCTTCAATCAGAACAG 57.815 33.333 0.56 0.00 42.87 3.16
932 935 1.344763 GTGCTGAGACTACCCTGTTGT 59.655 52.381 0.00 0.00 0.00 3.32
1059 1062 2.035421 CTTTGCACCAGAGCTTGCA 58.965 52.632 6.71 6.71 46.93 4.08
1089 1092 1.153628 CTCGTACTTCCTTGGGCGG 60.154 63.158 0.00 0.00 0.00 6.13
1092 1095 5.359009 TGTAGAATACTCGTACTTCCTTGGG 59.641 44.000 0.00 0.00 43.54 4.12
1170 1173 4.151689 CGGATATTTGGGTTATACAGTGCG 59.848 45.833 0.00 0.00 0.00 5.34
1173 1176 6.488769 TGTCGGATATTTGGGTTATACAGT 57.511 37.500 0.00 0.00 0.00 3.55
1204 1207 7.665559 ACCACCTAATGTATGGTTAATATGCAG 59.334 37.037 0.00 0.00 44.51 4.41
1251 1254 3.751175 GTGCAGGCAGAACATAAACTGTA 59.249 43.478 0.00 0.00 36.98 2.74
1465 1468 2.289882 TGAGCACCTGATTGTCCTTCAG 60.290 50.000 0.00 0.00 40.25 3.02
1500 1503 2.093341 TGGGCGTAGGTTAGTTTCATCC 60.093 50.000 0.00 0.00 0.00 3.51
1530 1533 1.925255 TCAGGGGCAAGATCATCCTTT 59.075 47.619 0.00 0.00 0.00 3.11
1554 1557 1.367346 TACTTGGTTGGAGCATGGGA 58.633 50.000 0.00 0.00 0.00 4.37
2078 2083 3.244875 TGCATAACTGACAGGGTTGACAT 60.245 43.478 7.51 0.00 0.00 3.06
2106 2111 5.924254 CACATAGTACACGAAGTTTCCTGAA 59.076 40.000 0.00 0.00 41.61 3.02
2326 2331 8.857098 CCAAGATAAGATCCAAAATCATGACAT 58.143 33.333 0.00 0.00 0.00 3.06
2422 2427 2.020694 GCATGAGCAAGCATACAGGGT 61.021 52.381 0.00 0.00 41.58 4.34
2764 2772 9.300681 TCATAAAATGAGGACTCAAAAGTCATT 57.699 29.630 6.06 0.00 46.04 2.57
2818 2826 4.462508 TCCACTTTGAGCAGATCTACAG 57.537 45.455 0.00 0.00 0.00 2.74
2827 2835 5.988310 ATCATTCATTTCCACTTTGAGCA 57.012 34.783 0.00 0.00 0.00 4.26
2851 2859 6.240549 AGTAGCATACAGCCAAATAAGTCT 57.759 37.500 0.00 0.00 46.26 3.24
2958 3137 3.192001 ACTGCAGTAATTGTGGCATTGAG 59.808 43.478 20.16 0.00 35.45 3.02
3082 3261 4.656454 AAACTACCTAGGGGATTAGGGT 57.344 45.455 14.81 0.00 43.76 4.34
3133 3312 4.499865 GCCCTTGAAGTGAAAAAGAAGTCC 60.500 45.833 0.00 0.00 0.00 3.85
3175 3354 5.475909 ACATCATCTGGGATGCAAATATCAC 59.524 40.000 0.00 0.00 46.81 3.06
3209 3388 3.681897 CCTTCAGTTCATCTTCCTTCACG 59.318 47.826 0.00 0.00 0.00 4.35
3212 3391 5.180304 GTCAACCTTCAGTTCATCTTCCTTC 59.820 44.000 0.00 0.00 36.18 3.46
3404 3586 4.771114 TGTTTCTCCTCTGAACCTTCAA 57.229 40.909 0.00 0.00 36.64 2.69
3406 3588 6.263168 TGAATTTGTTTCTCCTCTGAACCTTC 59.737 38.462 0.00 0.00 35.23 3.46
3553 3738 8.458212 CATTTTAAGAAAGAAATGCAGAGGAC 57.542 34.615 0.00 0.00 36.71 3.85
3568 3753 2.436417 AGCGCCTCTGCATTTTAAGAA 58.564 42.857 2.29 0.00 37.32 2.52
3599 3784 4.847255 GCCGCTGCTAACAAAGTG 57.153 55.556 0.00 0.00 33.53 3.16
3616 3801 6.980397 ACTTTGGCAAAAGAACAATTGTAGAG 59.020 34.615 20.65 0.10 44.81 2.43
3660 3846 1.836999 ATAGCACCTGTCCGTTGCCA 61.837 55.000 0.00 0.00 0.00 4.92
3684 3955 4.870991 CGAGAATAGGGGAAACAGAAGAAC 59.129 45.833 0.00 0.00 0.00 3.01
3703 3974 3.892284 AGAGGTTCTCAGATAAGCGAGA 58.108 45.455 0.00 0.00 36.50 4.04
3706 3977 3.305064 GCCTAGAGGTTCTCAGATAAGCG 60.305 52.174 0.00 0.00 37.57 4.68
3723 4033 2.301296 ACATCAATCCATCGGAGCCTAG 59.699 50.000 0.00 0.00 34.05 3.02
3731 4041 2.416547 GGCCGATTACATCAATCCATCG 59.583 50.000 0.00 0.00 40.07 3.84
3735 4045 3.070018 CTGAGGCCGATTACATCAATCC 58.930 50.000 0.00 0.00 40.07 3.01
3744 4054 1.497716 TCCTACCTCTGAGGCCGATTA 59.502 52.381 23.43 7.17 39.63 1.75
3746 4056 0.178975 CTCCTACCTCTGAGGCCGAT 60.179 60.000 23.43 6.70 39.63 4.18
3760 4070 2.316108 TGACACAACAGACTGCTCCTA 58.684 47.619 1.25 0.00 0.00 2.94
3761 4071 1.123077 TGACACAACAGACTGCTCCT 58.877 50.000 1.25 0.00 0.00 3.69
3762 4072 2.072298 GATGACACAACAGACTGCTCC 58.928 52.381 1.25 0.00 0.00 4.70
3763 4073 2.072298 GGATGACACAACAGACTGCTC 58.928 52.381 1.25 0.00 0.00 4.26
3764 4074 1.417517 TGGATGACACAACAGACTGCT 59.582 47.619 1.25 0.00 0.00 4.24
3765 4075 1.882912 TGGATGACACAACAGACTGC 58.117 50.000 1.25 0.00 0.00 4.40
3808 4118 7.927629 CCAAATCCATTCTCAAAAAGAACAGAA 59.072 33.333 0.00 0.00 46.61 3.02
3809 4119 7.436118 CCAAATCCATTCTCAAAAAGAACAGA 58.564 34.615 0.00 0.00 46.61 3.41
3810 4120 6.146673 GCCAAATCCATTCTCAAAAAGAACAG 59.853 38.462 0.00 0.00 46.61 3.16
3811 4121 5.990996 GCCAAATCCATTCTCAAAAAGAACA 59.009 36.000 0.00 0.00 46.61 3.18
3812 4122 5.119125 CGCCAAATCCATTCTCAAAAAGAAC 59.881 40.000 0.00 0.00 46.61 3.01
3814 4124 4.522405 TCGCCAAATCCATTCTCAAAAAGA 59.478 37.500 0.00 0.00 0.00 2.52
3815 4125 4.808558 TCGCCAAATCCATTCTCAAAAAG 58.191 39.130 0.00 0.00 0.00 2.27
3816 4126 4.862902 TCGCCAAATCCATTCTCAAAAA 57.137 36.364 0.00 0.00 0.00 1.94
3817 4127 4.038522 TGTTCGCCAAATCCATTCTCAAAA 59.961 37.500 0.00 0.00 0.00 2.44
3818 4128 3.571828 TGTTCGCCAAATCCATTCTCAAA 59.428 39.130 0.00 0.00 0.00 2.69
3819 4129 3.057596 GTGTTCGCCAAATCCATTCTCAA 60.058 43.478 0.00 0.00 0.00 3.02
3820 4130 2.487762 GTGTTCGCCAAATCCATTCTCA 59.512 45.455 0.00 0.00 0.00 3.27
3821 4131 2.159379 GGTGTTCGCCAAATCCATTCTC 60.159 50.000 0.00 0.00 0.00 2.87
3822 4132 1.818674 GGTGTTCGCCAAATCCATTCT 59.181 47.619 0.00 0.00 0.00 2.40
3823 4133 1.135112 GGGTGTTCGCCAAATCCATTC 60.135 52.381 4.78 0.00 0.00 2.67
3824 4134 0.894835 GGGTGTTCGCCAAATCCATT 59.105 50.000 4.78 0.00 0.00 3.16
3825 4135 0.251564 TGGGTGTTCGCCAAATCCAT 60.252 50.000 4.78 0.00 0.00 3.41
3826 4136 0.468214 TTGGGTGTTCGCCAAATCCA 60.468 50.000 4.78 0.00 0.00 3.41
3827 4137 0.038618 GTTGGGTGTTCGCCAAATCC 60.039 55.000 4.78 0.00 0.00 3.01
3828 4138 0.958822 AGTTGGGTGTTCGCCAAATC 59.041 50.000 4.78 0.00 0.00 2.17
3829 4139 2.159382 CTAGTTGGGTGTTCGCCAAAT 58.841 47.619 4.78 0.00 0.00 2.32
3830 4140 1.600023 CTAGTTGGGTGTTCGCCAAA 58.400 50.000 4.78 0.00 0.00 3.28
3831 4141 0.887387 GCTAGTTGGGTGTTCGCCAA 60.887 55.000 4.78 0.00 0.00 4.52
3832 4142 1.302192 GCTAGTTGGGTGTTCGCCA 60.302 57.895 4.78 0.00 0.00 5.69
3833 4143 0.887387 TTGCTAGTTGGGTGTTCGCC 60.887 55.000 0.00 0.00 0.00 5.54
3834 4144 0.948678 TTTGCTAGTTGGGTGTTCGC 59.051 50.000 0.00 0.00 0.00 4.70
3835 4145 3.701532 TTTTTGCTAGTTGGGTGTTCG 57.298 42.857 0.00 0.00 0.00 3.95
3836 4146 4.202212 ACCATTTTTGCTAGTTGGGTGTTC 60.202 41.667 0.00 0.00 0.00 3.18
3837 4147 3.709141 ACCATTTTTGCTAGTTGGGTGTT 59.291 39.130 0.00 0.00 0.00 3.32
3838 4148 3.069443 CACCATTTTTGCTAGTTGGGTGT 59.931 43.478 0.00 0.00 39.65 4.16
3839 4149 3.554752 CCACCATTTTTGCTAGTTGGGTG 60.555 47.826 0.00 0.00 43.13 4.61
3840 4150 2.632512 CCACCATTTTTGCTAGTTGGGT 59.367 45.455 0.00 0.00 0.00 4.51
3841 4151 2.632512 ACCACCATTTTTGCTAGTTGGG 59.367 45.455 0.00 0.00 0.00 4.12
3842 4152 3.554752 CCACCACCATTTTTGCTAGTTGG 60.555 47.826 0.00 0.00 0.00 3.77
3843 4153 3.069443 ACCACCACCATTTTTGCTAGTTG 59.931 43.478 0.00 0.00 0.00 3.16
3844 4154 3.304829 ACCACCACCATTTTTGCTAGTT 58.695 40.909 0.00 0.00 0.00 2.24
3845 4155 2.890945 GACCACCACCATTTTTGCTAGT 59.109 45.455 0.00 0.00 0.00 2.57
3846 4156 2.890311 TGACCACCACCATTTTTGCTAG 59.110 45.455 0.00 0.00 0.00 3.42
3847 4157 2.890311 CTGACCACCACCATTTTTGCTA 59.110 45.455 0.00 0.00 0.00 3.49
3848 4158 1.688197 CTGACCACCACCATTTTTGCT 59.312 47.619 0.00 0.00 0.00 3.91
3849 4159 1.873486 GCTGACCACCACCATTTTTGC 60.873 52.381 0.00 0.00 0.00 3.68
3850 4160 1.270252 GGCTGACCACCACCATTTTTG 60.270 52.381 0.00 0.00 35.26 2.44
3851 4161 1.047801 GGCTGACCACCACCATTTTT 58.952 50.000 0.00 0.00 35.26 1.94
3852 4162 0.188342 AGGCTGACCACCACCATTTT 59.812 50.000 0.00 0.00 39.06 1.82
3853 4163 0.188342 AAGGCTGACCACCACCATTT 59.812 50.000 0.00 0.00 39.06 2.32
3854 4164 0.188342 AAAGGCTGACCACCACCATT 59.812 50.000 0.00 0.00 39.06 3.16
3855 4165 0.540365 CAAAGGCTGACCACCACCAT 60.540 55.000 0.00 0.00 39.06 3.55
3856 4166 1.152777 CAAAGGCTGACCACCACCA 60.153 57.895 0.00 0.00 39.06 4.17
3857 4167 1.152756 ACAAAGGCTGACCACCACC 60.153 57.895 0.00 0.00 39.06 4.61
3858 4168 0.751643 ACACAAAGGCTGACCACCAC 60.752 55.000 0.00 0.00 39.06 4.16
3859 4169 0.033601 AACACAAAGGCTGACCACCA 60.034 50.000 0.00 0.00 39.06 4.17
3860 4170 1.111277 AAACACAAAGGCTGACCACC 58.889 50.000 0.00 0.00 39.06 4.61
3861 4171 2.959507 AAAACACAAAGGCTGACCAC 57.040 45.000 0.00 0.00 39.06 4.16
3862 4172 3.096092 AGAAAAACACAAAGGCTGACCA 58.904 40.909 0.00 0.00 39.06 4.02
3863 4173 3.706698 GAGAAAAACACAAAGGCTGACC 58.293 45.455 0.00 0.00 0.00 4.02
3864 4174 3.363178 CGAGAAAAACACAAAGGCTGAC 58.637 45.455 0.00 0.00 0.00 3.51
3865 4175 2.223479 GCGAGAAAAACACAAAGGCTGA 60.223 45.455 0.00 0.00 0.00 4.26
3866 4176 2.119457 GCGAGAAAAACACAAAGGCTG 58.881 47.619 0.00 0.00 0.00 4.85
3867 4177 1.748493 TGCGAGAAAAACACAAAGGCT 59.252 42.857 0.00 0.00 0.00 4.58
3868 4178 2.119457 CTGCGAGAAAAACACAAAGGC 58.881 47.619 0.00 0.00 0.00 4.35
3869 4179 2.099098 ACCTGCGAGAAAAACACAAAGG 59.901 45.455 0.00 0.00 0.00 3.11
3870 4180 3.108144 CACCTGCGAGAAAAACACAAAG 58.892 45.455 0.00 0.00 0.00 2.77
3871 4181 2.750166 TCACCTGCGAGAAAAACACAAA 59.250 40.909 0.00 0.00 0.00 2.83
3872 4182 2.360844 TCACCTGCGAGAAAAACACAA 58.639 42.857 0.00 0.00 0.00 3.33
3873 4183 2.031258 TCACCTGCGAGAAAAACACA 57.969 45.000 0.00 0.00 0.00 3.72
3874 4184 3.626028 AATCACCTGCGAGAAAAACAC 57.374 42.857 0.00 0.00 0.00 3.32
3875 4185 3.243367 CCAAATCACCTGCGAGAAAAACA 60.243 43.478 0.00 0.00 0.00 2.83
3876 4186 3.004315 TCCAAATCACCTGCGAGAAAAAC 59.996 43.478 0.00 0.00 0.00 2.43
3877 4187 3.218453 TCCAAATCACCTGCGAGAAAAA 58.782 40.909 0.00 0.00 0.00 1.94
3892 4202 4.533311 ACCATGGCTTCTGATTTTCCAAAT 59.467 37.500 13.04 0.00 0.00 2.32
3902 4212 1.408683 GCATACCACCATGGCTTCTGA 60.409 52.381 13.04 0.00 42.67 3.27
3917 4227 1.014352 CTACCCAAAGTGCGGCATAC 58.986 55.000 5.72 0.00 0.00 2.39
3974 4284 3.770388 ACCTACCTCTTAAGCCTCTCAAC 59.230 47.826 0.00 0.00 0.00 3.18
3976 4286 3.245658 ACACCTACCTCTTAAGCCTCTCA 60.246 47.826 0.00 0.00 0.00 3.27
4017 4327 6.271159 GGTATAAGAATCTCCATCTCCCTTGT 59.729 42.308 0.00 0.00 0.00 3.16
4018 4328 6.270927 TGGTATAAGAATCTCCATCTCCCTTG 59.729 42.308 0.00 0.00 0.00 3.61
4049 4359 2.799126 TGATGAAACGGGTTGCCTAT 57.201 45.000 0.00 0.00 0.00 2.57
4133 4446 6.131972 AGTGATAGCTATGTATGGCCAAAT 57.868 37.500 10.96 6.87 34.49 2.32
4178 4491 4.344390 ACTGACGAAAAAGTTACTCCCTCT 59.656 41.667 0.00 0.00 0.00 3.69
4195 4508 2.186076 GCTTGGTATCTTCGACTGACG 58.814 52.381 0.00 0.00 44.09 4.35
4196 4509 3.232213 TGCTTGGTATCTTCGACTGAC 57.768 47.619 0.00 0.00 0.00 3.51
4197 4510 3.258372 AGTTGCTTGGTATCTTCGACTGA 59.742 43.478 0.00 0.00 0.00 3.41
4198 4511 3.589988 AGTTGCTTGGTATCTTCGACTG 58.410 45.455 0.00 0.00 0.00 3.51
4199 4512 3.963428 AGTTGCTTGGTATCTTCGACT 57.037 42.857 0.00 0.00 0.00 4.18
4200 4513 3.746492 ACAAGTTGCTTGGTATCTTCGAC 59.254 43.478 12.66 0.00 44.81 4.20
4201 4514 4.002906 ACAAGTTGCTTGGTATCTTCGA 57.997 40.909 12.66 0.00 44.81 3.71
4202 4515 5.168569 TCTACAAGTTGCTTGGTATCTTCG 58.831 41.667 12.66 0.00 44.81 3.79
4203 4516 6.092807 CCTTCTACAAGTTGCTTGGTATCTTC 59.907 42.308 12.66 0.00 44.81 2.87
4204 4517 5.940470 CCTTCTACAAGTTGCTTGGTATCTT 59.060 40.000 12.66 0.00 44.81 2.40
4205 4518 5.491982 CCTTCTACAAGTTGCTTGGTATCT 58.508 41.667 12.66 0.00 44.81 1.98
4206 4519 4.095036 GCCTTCTACAAGTTGCTTGGTATC 59.905 45.833 12.66 0.00 44.81 2.24
4207 4520 4.010349 GCCTTCTACAAGTTGCTTGGTAT 58.990 43.478 12.66 0.00 44.81 2.73
4208 4521 3.408634 GCCTTCTACAAGTTGCTTGGTA 58.591 45.455 12.66 3.49 44.81 3.25
4209 4522 2.230660 GCCTTCTACAAGTTGCTTGGT 58.769 47.619 12.66 2.63 44.81 3.67
4210 4523 1.541588 GGCCTTCTACAAGTTGCTTGG 59.458 52.381 12.66 0.03 44.81 3.61
4211 4524 2.229792 TGGCCTTCTACAAGTTGCTTG 58.770 47.619 3.32 7.27 45.85 4.01
4212 4525 2.623416 GTTGGCCTTCTACAAGTTGCTT 59.377 45.455 3.32 0.00 0.00 3.91
4213 4526 2.230660 GTTGGCCTTCTACAAGTTGCT 58.769 47.619 3.32 0.00 0.00 3.91
4214 4527 1.953686 TGTTGGCCTTCTACAAGTTGC 59.046 47.619 3.32 0.00 0.00 4.17
4215 4528 4.278170 TGAATGTTGGCCTTCTACAAGTTG 59.722 41.667 3.32 0.00 35.00 3.16
4216 4529 4.469657 TGAATGTTGGCCTTCTACAAGTT 58.530 39.130 3.32 0.00 35.00 2.66
4217 4530 4.098914 TGAATGTTGGCCTTCTACAAGT 57.901 40.909 3.32 0.00 35.00 3.16
4218 4531 4.946157 AGATGAATGTTGGCCTTCTACAAG 59.054 41.667 3.32 0.00 35.00 3.16
4219 4532 4.922206 AGATGAATGTTGGCCTTCTACAA 58.078 39.130 3.32 0.00 35.00 2.41
4220 4533 4.574674 AGATGAATGTTGGCCTTCTACA 57.425 40.909 3.32 3.54 35.74 2.74
4221 4534 5.649831 AGAAAGATGAATGTTGGCCTTCTAC 59.350 40.000 3.32 0.00 0.00 2.59
4222 4535 5.819991 AGAAAGATGAATGTTGGCCTTCTA 58.180 37.500 3.32 0.00 0.00 2.10
4223 4536 4.670765 AGAAAGATGAATGTTGGCCTTCT 58.329 39.130 3.32 0.00 0.00 2.85
4224 4537 5.397142 AAGAAAGATGAATGTTGGCCTTC 57.603 39.130 3.32 0.00 0.00 3.46
4225 4538 5.813513 AAAGAAAGATGAATGTTGGCCTT 57.186 34.783 3.32 0.00 0.00 4.35
4226 4539 5.813513 AAAAGAAAGATGAATGTTGGCCT 57.186 34.783 3.32 0.00 0.00 5.19
4246 4559 5.784177 ACGAGAAGTGATAGCTCAGAAAAA 58.216 37.500 0.00 0.00 30.18 1.94
4247 4560 5.392767 ACGAGAAGTGATAGCTCAGAAAA 57.607 39.130 0.00 0.00 30.18 2.29


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

AutoCloner maintained by Alex Coulton.