Multiple sequence alignment - TraesCS2D01G103800

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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 TraesCS2D01G103800 chr2D 100.000 4312 0 0 1 4312 56103807 56108118 0.000000e+00 7963.0
1 TraesCS2D01G103800 chr2D 84.211 266 18 6 4043 4289 443904475 443904735 2.000000e-58 237.0
2 TraesCS2D01G103800 chr2D 82.332 283 20 8 4026 4289 118470221 118469950 7.260000e-53 219.0
3 TraesCS2D01G103800 chr2D 81.735 219 36 4 4043 4259 630166217 630166001 3.430000e-41 180.0
4 TraesCS2D01G103800 chr2B 94.928 3174 120 20 660 3807 88838906 88842064 0.000000e+00 4931.0
5 TraesCS2D01G103800 chr2B 96.557 668 22 1 1 667 88838220 88838887 0.000000e+00 1105.0
6 TraesCS2D01G103800 chr2B 87.755 196 21 3 3832 4025 88842634 88842828 4.340000e-55 226.0
7 TraesCS2D01G103800 chr2A 95.600 2932 104 15 660 3578 57546906 57549825 0.000000e+00 4676.0
8 TraesCS2D01G103800 chr2A 94.056 673 17 6 1 667 57546232 57546887 0.000000e+00 1000.0
9 TraesCS2D01G103800 chr2A 91.848 184 13 2 1 183 775685960 775685778 5.530000e-64 255.0
10 TraesCS2D01G103800 chr2A 83.972 287 17 7 4026 4293 19451826 19451550 9.260000e-62 248.0
11 TraesCS2D01G103800 chr2A 85.776 232 32 1 4045 4275 616344431 616344662 1.200000e-60 244.0
12 TraesCS2D01G103800 chr2A 83.945 218 35 0 4049 4266 132193769 132193552 4.370000e-50 209.0
13 TraesCS2D01G103800 chr2A 88.194 144 16 1 3883 4026 57549818 57549960 2.060000e-38 171.0
14 TraesCS2D01G103800 chr2A 97.917 48 1 0 388 435 775685778 775685731 2.760000e-12 84.2
15 TraesCS2D01G103800 chr2A 94.444 54 3 0 382 435 775736860 775736913 2.760000e-12 84.2
16 TraesCS2D01G103800 chr4B 75.984 1270 258 33 1038 2285 375139426 375138182 2.850000e-171 612.0
17 TraesCS2D01G103800 chr3A 86.531 245 28 1 4027 4266 69643248 69643492 9.190000e-67 265.0
18 TraesCS2D01G103800 chr3A 85.135 74 11 0 3048 3121 644940124 644940197 4.620000e-10 76.8
19 TraesCS2D01G103800 chr3A 100.000 29 0 0 3933 3961 637568163 637568135 2.000000e-03 54.7
20 TraesCS2D01G103800 chr5B 92.265 181 12 2 4 183 21726303 21726124 5.530000e-64 255.0
21 TraesCS2D01G103800 chr5B 91.304 184 14 2 1 183 508017154 508017336 2.570000e-62 250.0
22 TraesCS2D01G103800 chr5B 76.630 184 43 0 3051 3234 243361518 243361701 7.630000e-18 102.0
23 TraesCS2D01G103800 chr5B 94.444 54 3 0 382 435 508017330 508017383 2.760000e-12 84.2
24 TraesCS2D01G103800 chr5B 95.833 48 1 1 388 435 21726124 21726078 4.620000e-10 76.8
25 TraesCS2D01G103800 chr5A 91.848 184 13 2 1 183 633001472 633001654 5.530000e-64 255.0
26 TraesCS2D01G103800 chr5A 82.712 295 26 10 4027 4303 640684124 640684411 5.570000e-59 239.0
27 TraesCS2D01G103800 chr5A 92.593 54 4 0 382 435 633001648 633001701 1.290000e-10 78.7
28 TraesCS2D01G103800 chr3D 84.644 267 30 5 4027 4293 15952227 15951972 5.530000e-64 255.0
29 TraesCS2D01G103800 chr3D 85.135 74 11 0 3048 3121 506715245 506715318 4.620000e-10 76.8
30 TraesCS2D01G103800 chr7A 91.304 184 14 2 1 183 709847492 709847674 2.570000e-62 250.0
31 TraesCS2D01G103800 chr7A 86.861 137 14 4 4155 4289 711190672 711190538 2.690000e-32 150.0
32 TraesCS2D01G103800 chr7A 94.444 54 3 0 382 435 709847668 709847721 2.760000e-12 84.2
33 TraesCS2D01G103800 chr1A 81.690 284 29 7 4027 4289 492186480 492186199 9.390000e-52 215.0
34 TraesCS2D01G103800 chr3B 81.818 264 30 8 4024 4275 50155276 50155019 5.650000e-49 206.0
35 TraesCS2D01G103800 chr3B 77.713 341 71 3 2912 3248 587568015 587568354 2.030000e-48 204.0
36 TraesCS2D01G103800 chr6A 89.362 141 13 2 4025 4164 7524535 7524396 4.430000e-40 176.0
37 TraesCS2D01G103800 chr7D 77.922 308 46 14 4025 4312 231397986 231397681 5.730000e-39 172.0
38 TraesCS2D01G103800 chr5D 77.174 184 42 0 3051 3234 220462830 220463013 1.640000e-19 108.0


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 TraesCS2D01G103800 chr2D 56103807 56108118 4311 False 7963.000000 7963 100.000000 1 4312 1 chr2D.!!$F1 4311
1 TraesCS2D01G103800 chr2B 88838220 88842828 4608 False 2087.333333 4931 93.080000 1 4025 3 chr2B.!!$F1 4024
2 TraesCS2D01G103800 chr2A 57546232 57549960 3728 False 1949.000000 4676 92.616667 1 4026 3 chr2A.!!$F3 4025
3 TraesCS2D01G103800 chr4B 375138182 375139426 1244 True 612.000000 612 75.984000 1038 2285 1 chr4B.!!$R1 1247

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
983 1025 0.652592 CAGCTGATTTAGTTCGCCCG 59.347 55.0 8.42 0.0 0.0 6.13 F
1293 1338 0.649475 CTCTTGGCAAGCTCGATTCG 59.351 55.0 22.31 0.0 0.0 3.34 F
1754 1799 0.954449 CCATCATCTCCATCGCCTGC 60.954 60.0 0.00 0.0 0.0 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1869 1914 1.014564 CGACACCGGCCTCTTTCTTC 61.015 60.000 0.0 0.0 0.0 2.87 R
2446 2514 2.672961 TTCAGATGCCAACTACTCCG 57.327 50.000 0.0 0.0 0.0 4.63 R
3683 3759 1.060698 GCCTTCGAGTTCGCATACAAC 59.939 52.381 0.0 0.0 39.6 3.32 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
38 39 2.778679 GTGCGACGCTAAAGCTGG 59.221 61.111 22.08 0.00 39.32 4.85
85 86 3.629142 AGTTTCTACCACATGTAGGGC 57.371 47.619 15.78 0.00 45.90 5.19
145 151 5.640357 ACTATTTGCATTGCATTTTGTCAGG 59.360 36.000 12.95 0.00 38.76 3.86
390 396 3.676291 TTTTAGGCCATGTTTTCCTGC 57.324 42.857 5.01 0.00 0.00 4.85
461 468 3.114616 ATGCTCGACTGCGTGTGC 61.115 61.111 0.00 0.00 43.20 4.57
523 531 8.521176 TGAATAGGTAGTTCAGTAAAGTGTCTC 58.479 37.037 0.00 0.00 32.23 3.36
539 547 1.227380 CTCGCTGCTGGTCCATACC 60.227 63.158 0.00 0.00 46.98 2.73
590 598 6.424683 CGGTTTACACAGGAAACTTTAAGTC 58.575 40.000 0.00 0.00 40.21 3.01
676 710 5.691896 AGTGCCCTGACTTACTTAAAAAGT 58.308 37.500 3.19 3.19 45.40 2.66
831 865 4.025813 GTGATTGCCAATTTGTGTGTTGTC 60.026 41.667 0.00 0.00 0.00 3.18
886 921 6.311690 CAGCTAGACTTTAAAGCTTAGTGTCC 59.688 42.308 15.24 4.98 43.97 4.02
890 925 6.155136 AGACTTTAAAGCTTAGTGTCCGTAC 58.845 40.000 15.24 0.00 0.00 3.67
965 1007 3.701542 TGGTGTAAACAAATGAAGGTGCA 59.298 39.130 0.00 0.00 0.00 4.57
983 1025 0.652592 CAGCTGATTTAGTTCGCCCG 59.347 55.000 8.42 0.00 0.00 6.13
986 1028 1.467342 GCTGATTTAGTTCGCCCGTTT 59.533 47.619 0.00 0.00 0.00 3.60
1013 1055 5.620429 CGACTCATCAGATGGATCATCTCAG 60.620 48.000 10.67 0.00 46.83 3.35
1025 1070 4.588528 GGATCATCTCAGTCTTAGAAGCCT 59.411 45.833 0.00 0.00 0.00 4.58
1027 1072 5.336150 TCATCTCAGTCTTAGAAGCCTTG 57.664 43.478 0.00 0.00 0.00 3.61
1032 1077 1.066787 AGTCTTAGAAGCCTTGTCCGC 60.067 52.381 0.00 0.00 0.00 5.54
1055 1100 1.204231 TCTGCTCTCACTGCATCTGTC 59.796 52.381 0.00 0.00 39.86 3.51
1057 1102 1.553704 TGCTCTCACTGCATCTGTCAT 59.446 47.619 0.00 0.00 35.31 3.06
1062 1107 4.614946 TCTCACTGCATCTGTCATTATCG 58.385 43.478 0.00 0.00 0.00 2.92
1205 1250 1.734707 GCATGGTGTCAAATGCTCAGC 60.735 52.381 12.44 0.00 44.64 4.26
1293 1338 0.649475 CTCTTGGCAAGCTCGATTCG 59.351 55.000 22.31 0.00 0.00 3.34
1472 1517 6.444704 TCTCCTATAATTCCTTCACTGGAGT 58.555 40.000 0.00 0.00 39.44 3.85
1596 1641 4.335594 AGACTGTTAAACCTGAGCAACAAC 59.664 41.667 0.00 0.00 31.00 3.32
1677 1722 2.589540 CCTGAACTATGCGGGCCA 59.410 61.111 4.39 0.00 0.00 5.36
1754 1799 0.954449 CCATCATCTCCATCGCCTGC 60.954 60.000 0.00 0.00 0.00 4.85
1761 1806 3.945434 CCATCGCCTGCGCATCAC 61.945 66.667 12.24 1.86 39.59 3.06
1869 1914 1.203050 TGCCTTTCAAAGAGGAAGGGG 60.203 52.381 0.00 0.90 42.54 4.79
2097 2151 2.022129 CGAGGACGGCACTGTTGTC 61.022 63.158 0.00 0.00 35.72 3.18
2387 2454 4.431809 CCAACATTGCTCAAGTGTCAAAA 58.568 39.130 0.00 0.00 0.00 2.44
2416 2483 8.967664 TTGTTACTGTACCTTTGAAAGTACAT 57.032 30.769 15.49 10.90 32.74 2.29
2444 2512 5.512298 TGCTATATCCATGCCATGCTTAAT 58.488 37.500 0.00 0.00 0.00 1.40
2446 2514 6.543465 TGCTATATCCATGCCATGCTTAATAC 59.457 38.462 0.00 0.00 0.00 1.89
2447 2515 6.293081 GCTATATCCATGCCATGCTTAATACG 60.293 42.308 0.00 0.00 0.00 3.06
2448 2516 2.503331 TCCATGCCATGCTTAATACGG 58.497 47.619 0.00 0.00 0.00 4.02
2449 2517 2.105649 TCCATGCCATGCTTAATACGGA 59.894 45.455 0.00 0.00 0.00 4.69
2450 2518 2.485426 CCATGCCATGCTTAATACGGAG 59.515 50.000 0.00 0.00 0.00 4.63
2624 2692 7.591426 GTGCAAAGAAAGATAACTTGTGTTAGG 59.409 37.037 0.00 0.00 41.33 2.69
3291 3359 1.513622 GACGAGAGGTTCAGGGAGC 59.486 63.158 0.00 0.00 0.00 4.70
3335 3403 4.083862 GTTCCCTCGCCGGCTTCT 62.084 66.667 26.68 0.00 0.00 2.85
3527 3596 1.538512 TGCTGTGCTGAATCTTCTTGC 59.461 47.619 0.00 0.00 0.00 4.01
3573 3649 1.286880 CCTTTCAGGCCAGCAAACG 59.713 57.895 5.01 0.00 0.00 3.60
3672 3748 4.451150 GGATCGGCAGTGGTCGCA 62.451 66.667 0.00 0.00 43.15 5.10
3693 3769 2.899976 CCAGTGTATGGTTGTATGCGA 58.100 47.619 0.00 0.00 44.91 5.10
3702 3778 1.659098 GGTTGTATGCGAACTCGAAGG 59.341 52.381 2.69 0.00 43.02 3.46
3750 3828 2.101770 GACGGCGTAGGGTTCTCG 59.898 66.667 14.74 0.00 0.00 4.04
3756 3834 1.509923 CGTAGGGTTCTCGTGGGTC 59.490 63.158 0.00 0.00 0.00 4.46
3757 3835 1.246056 CGTAGGGTTCTCGTGGGTCA 61.246 60.000 0.00 0.00 0.00 4.02
3762 3840 1.271163 GGGTTCTCGTGGGTCAATTCA 60.271 52.381 0.00 0.00 0.00 2.57
3810 3888 3.720949 GGTTTCGGTAGCAAACCTTTT 57.279 42.857 21.56 0.00 46.47 2.27
3811 3889 4.049546 GGTTTCGGTAGCAAACCTTTTT 57.950 40.909 21.56 0.00 46.47 1.94
3836 4459 3.000041 GTGTGTGAATGAATACGCAGGA 59.000 45.455 0.00 0.00 37.91 3.86
3838 4461 3.000041 GTGTGAATGAATACGCAGGACA 59.000 45.455 0.00 0.00 0.00 4.02
3840 4463 3.000041 GTGAATGAATACGCAGGACACA 59.000 45.455 0.00 0.00 0.00 3.72
3852 4475 4.572389 ACGCAGGACACATATCTTTTCATC 59.428 41.667 0.00 0.00 0.00 2.92
3879 4503 5.440610 AGAAGGGCAGAAACTACATAATGG 58.559 41.667 0.00 0.00 0.00 3.16
3895 4519 1.620739 ATGGTCACGATCCAGCAGCT 61.621 55.000 0.00 0.00 38.42 4.24
3915 4539 1.275291 TGCTTACAGTTAGAAGGCGCT 59.725 47.619 7.64 0.00 0.00 5.92
3927 4552 3.364441 GGCGCTGTTGTGGATGCA 61.364 61.111 7.64 0.00 0.00 3.96
3957 4582 2.191641 GGAGATGGGGTGCTCAGC 59.808 66.667 0.00 0.00 32.83 4.26
3989 4614 6.932947 ACATAGTTCAGGTTACAGGTAAGAC 58.067 40.000 0.00 0.00 0.00 3.01
3991 4616 5.725325 AGTTCAGGTTACAGGTAAGACTC 57.275 43.478 0.00 0.00 0.00 3.36
3997 4622 3.586892 GTTACAGGTAAGACTCTGTGGC 58.413 50.000 5.72 0.00 43.24 5.01
4010 4635 1.608717 CTGTGGCGTCCCTTAGCTCT 61.609 60.000 0.00 0.00 0.00 4.09
4032 4657 2.735151 GCCTTTGCCCAAAGTATACCT 58.265 47.619 16.87 0.00 44.66 3.08
4033 4658 2.427095 GCCTTTGCCCAAAGTATACCTG 59.573 50.000 16.87 0.00 44.66 4.00
4034 4659 3.876156 GCCTTTGCCCAAAGTATACCTGA 60.876 47.826 16.87 0.00 44.66 3.86
4035 4660 3.694566 CCTTTGCCCAAAGTATACCTGAC 59.305 47.826 16.87 0.00 44.66 3.51
4036 4661 3.359695 TTGCCCAAAGTATACCTGACC 57.640 47.619 0.00 0.00 0.00 4.02
4037 4662 2.270858 TGCCCAAAGTATACCTGACCA 58.729 47.619 0.00 0.00 0.00 4.02
4038 4663 2.849943 TGCCCAAAGTATACCTGACCAT 59.150 45.455 0.00 0.00 0.00 3.55
4039 4664 3.118038 TGCCCAAAGTATACCTGACCATC 60.118 47.826 0.00 0.00 0.00 3.51
4040 4665 3.136626 GCCCAAAGTATACCTGACCATCT 59.863 47.826 0.00 0.00 0.00 2.90
4041 4666 4.708177 CCCAAAGTATACCTGACCATCTG 58.292 47.826 0.00 0.00 0.00 2.90
4042 4667 4.164221 CCCAAAGTATACCTGACCATCTGT 59.836 45.833 0.00 0.00 0.00 3.41
4043 4668 5.360591 CCAAAGTATACCTGACCATCTGTC 58.639 45.833 0.00 0.00 44.72 3.51
4050 4675 4.530857 GACCATCTGTCGGGCCGG 62.531 72.222 27.98 10.57 33.49 6.13
4067 4692 2.595655 GGCCTACCAAAGCCCGAT 59.404 61.111 0.00 0.00 43.76 4.18
4068 4693 1.823899 GGCCTACCAAAGCCCGATG 60.824 63.158 0.00 0.00 43.76 3.84
4069 4694 2.481471 GCCTACCAAAGCCCGATGC 61.481 63.158 0.00 0.00 41.71 3.91
4070 4695 1.077787 CCTACCAAAGCCCGATGCA 60.078 57.895 0.00 0.00 44.83 3.96
4071 4696 0.679640 CCTACCAAAGCCCGATGCAA 60.680 55.000 0.00 0.00 44.83 4.08
4072 4697 1.173043 CTACCAAAGCCCGATGCAAA 58.827 50.000 0.00 0.00 44.83 3.68
4073 4698 1.543802 CTACCAAAGCCCGATGCAAAA 59.456 47.619 0.00 0.00 44.83 2.44
4074 4699 0.755686 ACCAAAGCCCGATGCAAAAA 59.244 45.000 0.00 0.00 44.83 1.94
4088 4713 4.198087 AAAAACCCAGGCCTGAGC 57.802 55.556 34.91 0.00 38.76 4.26
4121 4746 2.011453 CCGTCGGGCCTAAAAATCG 58.989 57.895 2.34 0.00 0.00 3.34
4122 4747 1.433837 CCGTCGGGCCTAAAAATCGG 61.434 60.000 2.34 4.24 0.00 4.18
4123 4748 1.433837 CGTCGGGCCTAAAAATCGGG 61.434 60.000 0.84 0.00 0.00 5.14
4124 4749 1.452470 TCGGGCCTAAAAATCGGGC 60.452 57.895 0.84 0.00 44.59 6.13
4127 4752 3.116463 GCCTAAAAATCGGGCCCG 58.884 61.111 39.13 39.13 39.96 6.13
4143 4768 2.901840 CGAACCCGGCCCATGATG 60.902 66.667 0.00 0.00 0.00 3.07
4144 4769 3.219198 GAACCCGGCCCATGATGC 61.219 66.667 0.00 0.00 0.00 3.91
4145 4770 3.721370 GAACCCGGCCCATGATGCT 62.721 63.158 0.00 0.00 0.00 3.79
4146 4771 2.337879 GAACCCGGCCCATGATGCTA 62.338 60.000 0.00 0.00 0.00 3.49
4147 4772 1.932156 AACCCGGCCCATGATGCTAA 61.932 55.000 0.00 0.00 0.00 3.09
4148 4773 1.152777 CCCGGCCCATGATGCTAAA 60.153 57.895 0.00 0.00 0.00 1.85
4149 4774 0.754957 CCCGGCCCATGATGCTAAAA 60.755 55.000 0.00 0.00 0.00 1.52
4150 4775 0.670162 CCGGCCCATGATGCTAAAAG 59.330 55.000 0.00 0.00 0.00 2.27
4151 4776 0.031178 CGGCCCATGATGCTAAAAGC 59.969 55.000 0.00 0.00 42.82 3.51
4152 4777 0.390492 GGCCCATGATGCTAAAAGCC 59.610 55.000 0.00 0.00 41.51 4.35
4153 4778 1.406903 GCCCATGATGCTAAAAGCCT 58.593 50.000 0.00 0.00 41.51 4.58
4154 4779 1.068127 GCCCATGATGCTAAAAGCCTG 59.932 52.381 0.00 0.00 41.51 4.85
4155 4780 2.381911 CCCATGATGCTAAAAGCCTGT 58.618 47.619 0.00 0.00 41.51 4.00
4156 4781 2.360165 CCCATGATGCTAAAAGCCTGTC 59.640 50.000 0.00 0.00 41.51 3.51
4157 4782 2.032550 CCATGATGCTAAAAGCCTGTCG 59.967 50.000 0.00 0.00 41.51 4.35
4158 4783 1.737838 TGATGCTAAAAGCCTGTCGG 58.262 50.000 0.00 0.00 41.51 4.79
4159 4784 1.017387 GATGCTAAAAGCCTGTCGGG 58.983 55.000 0.00 0.00 41.51 5.14
4168 4793 3.382832 CCTGTCGGGCCTCTTCGT 61.383 66.667 0.84 0.00 0.00 3.85
4169 4794 2.657237 CTGTCGGGCCTCTTCGTT 59.343 61.111 0.84 0.00 0.00 3.85
4170 4795 1.601419 CCTGTCGGGCCTCTTCGTTA 61.601 60.000 0.84 0.00 0.00 3.18
4171 4796 0.245539 CTGTCGGGCCTCTTCGTTAA 59.754 55.000 0.84 0.00 0.00 2.01
4172 4797 0.899720 TGTCGGGCCTCTTCGTTAAT 59.100 50.000 0.84 0.00 0.00 1.40
4173 4798 1.287425 GTCGGGCCTCTTCGTTAATG 58.713 55.000 0.84 0.00 0.00 1.90
4174 4799 0.461339 TCGGGCCTCTTCGTTAATGC 60.461 55.000 0.84 0.00 0.00 3.56
4175 4800 1.762222 CGGGCCTCTTCGTTAATGCG 61.762 60.000 0.84 0.00 0.00 4.73
4176 4801 0.743345 GGGCCTCTTCGTTAATGCGT 60.743 55.000 0.84 0.00 0.00 5.24
4177 4802 0.373716 GGCCTCTTCGTTAATGCGTG 59.626 55.000 0.00 0.00 0.00 5.34
4178 4803 1.355971 GCCTCTTCGTTAATGCGTGA 58.644 50.000 0.00 0.00 0.00 4.35
4179 4804 1.730064 GCCTCTTCGTTAATGCGTGAA 59.270 47.619 0.00 0.00 0.00 3.18
4180 4805 2.351726 GCCTCTTCGTTAATGCGTGAAT 59.648 45.455 0.00 0.00 0.00 2.57
4181 4806 3.181510 GCCTCTTCGTTAATGCGTGAATT 60.182 43.478 0.00 0.00 0.00 2.17
4182 4807 4.671766 GCCTCTTCGTTAATGCGTGAATTT 60.672 41.667 0.00 0.00 0.00 1.82
4183 4808 4.788100 CCTCTTCGTTAATGCGTGAATTTG 59.212 41.667 0.00 0.00 0.00 2.32
4184 4809 5.390461 CCTCTTCGTTAATGCGTGAATTTGA 60.390 40.000 0.00 0.00 0.00 2.69
4185 4810 5.379003 TCTTCGTTAATGCGTGAATTTGAC 58.621 37.500 0.00 0.00 0.00 3.18
4186 4811 3.727518 TCGTTAATGCGTGAATTTGACG 58.272 40.909 3.93 3.93 39.87 4.35
4187 4812 2.837878 CGTTAATGCGTGAATTTGACGG 59.162 45.455 10.32 0.00 37.30 4.79
4188 4813 3.168193 GTTAATGCGTGAATTTGACGGG 58.832 45.455 10.32 0.00 37.30 5.28
4189 4814 0.109319 AATGCGTGAATTTGACGGGC 60.109 50.000 10.32 0.00 37.30 6.13
4190 4815 0.960364 ATGCGTGAATTTGACGGGCT 60.960 50.000 10.32 0.00 37.30 5.19
4191 4816 1.134694 GCGTGAATTTGACGGGCTC 59.865 57.895 10.32 0.00 37.30 4.70
4192 4817 1.573829 GCGTGAATTTGACGGGCTCA 61.574 55.000 10.32 0.00 37.30 4.26
4193 4818 0.443869 CGTGAATTTGACGGGCTCAG 59.556 55.000 0.09 0.00 33.08 3.35
4194 4819 0.804989 GTGAATTTGACGGGCTCAGG 59.195 55.000 0.00 0.00 0.00 3.86
4195 4820 0.960364 TGAATTTGACGGGCTCAGGC 60.960 55.000 0.00 0.00 37.82 4.85
4224 4849 2.668212 CGGCTGTCGGGCTTGAAA 60.668 61.111 3.42 0.00 38.46 2.69
4225 4850 2.040544 CGGCTGTCGGGCTTGAAAT 61.041 57.895 3.42 0.00 38.46 2.17
4226 4851 1.803289 GGCTGTCGGGCTTGAAATC 59.197 57.895 0.00 0.00 37.53 2.17
4227 4852 0.678048 GGCTGTCGGGCTTGAAATCT 60.678 55.000 0.00 0.00 37.53 2.40
4228 4853 1.406887 GGCTGTCGGGCTTGAAATCTA 60.407 52.381 0.00 0.00 37.53 1.98
4229 4854 1.936547 GCTGTCGGGCTTGAAATCTAG 59.063 52.381 0.00 0.00 0.00 2.43
4230 4855 2.555199 CTGTCGGGCTTGAAATCTAGG 58.445 52.381 0.00 0.00 0.00 3.02
4231 4856 1.300481 GTCGGGCTTGAAATCTAGGC 58.700 55.000 9.36 9.36 41.89 3.93
4234 4859 2.707902 GGCTTGAAATCTAGGCCCG 58.292 57.895 0.00 0.00 38.07 6.13
4235 4860 0.180406 GGCTTGAAATCTAGGCCCGA 59.820 55.000 0.00 0.00 38.07 5.14
4236 4861 1.587547 GCTTGAAATCTAGGCCCGAG 58.412 55.000 0.00 0.00 0.00 4.63
4237 4862 1.587547 CTTGAAATCTAGGCCCGAGC 58.412 55.000 0.00 0.00 38.76 5.03
4254 4879 4.722700 CCTGGCCCGTGGACAAGG 62.723 72.222 0.00 0.00 41.95 3.61
4255 4880 3.953775 CTGGCCCGTGGACAAGGT 61.954 66.667 0.00 0.00 41.95 3.50
4256 4881 3.901797 CTGGCCCGTGGACAAGGTC 62.902 68.421 0.00 0.00 41.95 3.85
4259 4884 3.307906 CCCGTGGACAAGGTCGGA 61.308 66.667 4.00 0.00 44.86 4.55
4260 4885 2.048503 CCGTGGACAAGGTCGGAC 60.049 66.667 0.00 0.00 44.86 4.79
4261 4886 2.048503 CGTGGACAAGGTCGGACC 60.049 66.667 19.61 19.61 38.99 4.46
4262 4887 2.863346 CGTGGACAAGGTCGGACCA 61.863 63.158 27.87 4.26 41.95 4.02
4263 4888 1.004918 GTGGACAAGGTCGGACCAG 60.005 63.158 27.87 21.13 41.95 4.00
4264 4889 2.214216 TGGACAAGGTCGGACCAGG 61.214 63.158 27.87 20.52 41.95 4.45
4265 4890 2.047179 GACAAGGTCGGACCAGGC 60.047 66.667 27.87 18.42 41.95 4.85
4266 4891 3.607370 GACAAGGTCGGACCAGGCC 62.607 68.421 27.87 9.09 41.95 5.19
4282 4907 3.428282 CCGGGTCGGGCTTTTTCG 61.428 66.667 0.00 0.00 44.15 3.46
4283 4908 3.428282 CGGGTCGGGCTTTTTCGG 61.428 66.667 0.00 0.00 0.00 4.30
4284 4909 3.060000 GGGTCGGGCTTTTTCGGG 61.060 66.667 0.00 0.00 0.00 5.14
4285 4910 3.744719 GGTCGGGCTTTTTCGGGC 61.745 66.667 0.00 0.00 0.00 6.13
4286 4911 3.744719 GTCGGGCTTTTTCGGGCC 61.745 66.667 0.00 0.00 46.89 5.80
4290 4915 3.744719 GGCTTTTTCGGGCCGGAC 61.745 66.667 27.98 0.00 38.91 4.79
4291 4916 3.744719 GCTTTTTCGGGCCGGACC 61.745 66.667 27.98 19.81 37.93 4.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 2.785258 GTCGCACGAAAGGCATCC 59.215 61.111 0.00 0.00 0.00 3.51
14 15 1.893168 TTTAGCGTCGCACGAAAGGC 61.893 55.000 21.09 0.00 46.05 4.35
38 39 1.017387 CGCTTAGGAACAAGATGGCC 58.983 55.000 0.00 0.00 0.00 5.36
145 151 1.079750 GGCACAGAACTCCGAGTCC 60.080 63.158 0.35 0.00 0.00 3.85
189 195 1.903860 TCGGTATTGCCACCACTAAGT 59.096 47.619 0.81 0.00 38.61 2.24
461 468 8.783093 TGGTTTTCTAGTGACAATGTAAGAATG 58.217 33.333 0.00 0.00 0.00 2.67
539 547 0.591659 TTATCCTGCGAGATCGGTCG 59.408 55.000 4.18 0.22 43.08 4.79
590 598 4.944962 TTCATCATTCCAAACTAGTGCG 57.055 40.909 0.00 0.00 0.00 5.34
676 710 0.176910 TCACTCAACAGGAACGCACA 59.823 50.000 0.00 0.00 0.00 4.57
831 865 9.388506 ACAAGAACAGTATTTCATCATAAGAGG 57.611 33.333 0.00 0.00 0.00 3.69
886 921 2.624316 TTAGTGAGAACCAGCGTACG 57.376 50.000 11.84 11.84 0.00 3.67
890 925 2.673368 GGACATTTAGTGAGAACCAGCG 59.327 50.000 0.00 0.00 0.00 5.18
965 1007 0.249398 ACGGGCGAACTAAATCAGCT 59.751 50.000 0.00 0.00 0.00 4.24
983 1025 3.849911 TCCATCTGATGAGTCGTCAAAC 58.150 45.455 18.92 0.00 35.88 2.93
986 1028 3.290710 TGATCCATCTGATGAGTCGTCA 58.709 45.455 18.92 14.31 37.02 4.35
1013 1055 1.360820 GCGGACAAGGCTTCTAAGAC 58.639 55.000 0.00 0.00 0.00 3.01
1032 1077 1.207570 AGATGCAGTGAGAGCAGAAGG 59.792 52.381 0.00 0.00 46.36 3.46
1055 1100 5.049405 GCCAGAGGGTTGAATAACGATAATG 60.049 44.000 0.00 0.00 37.69 1.90
1057 1102 4.080807 TGCCAGAGGGTTGAATAACGATAA 60.081 41.667 0.00 0.00 37.69 1.75
1062 1107 3.073274 ACTGCCAGAGGGTTGAATAAC 57.927 47.619 0.00 0.00 36.17 1.89
1137 1182 0.882927 AGTTAAGCTTGTTGCCGCGA 60.883 50.000 8.23 0.00 44.23 5.87
1205 1250 4.159321 ACTCAGATATGTGTGACTGGTCTG 59.841 45.833 8.73 0.00 34.45 3.51
1472 1517 6.779860 AGGTTTTCTAAGCTTGTAGGAATCA 58.220 36.000 9.86 0.00 38.94 2.57
1605 1650 1.884926 CGAGCGAGGAATTGAGCCC 60.885 63.158 0.00 0.00 0.00 5.19
1666 1711 1.069765 CTAGTGGTGGCCCGCATAG 59.930 63.158 0.00 0.00 44.14 2.23
1677 1722 6.662755 TGGAAATGAGCAATTATCTAGTGGT 58.337 36.000 0.00 0.00 0.00 4.16
1754 1799 0.439985 CAGTTTCCTGTCGTGATGCG 59.560 55.000 0.00 0.00 43.01 4.73
1761 1806 2.544685 CCTATGCTCAGTTTCCTGTCG 58.455 52.381 0.00 0.00 39.82 4.35
1869 1914 1.014564 CGACACCGGCCTCTTTCTTC 61.015 60.000 0.00 0.00 0.00 2.87
2097 2151 4.452455 ACATCTTTTAGCCTCTTGACAACG 59.548 41.667 0.00 0.00 0.00 4.10
2416 2483 4.701651 GCATGGCATGGATATAGCAAGTTA 59.298 41.667 27.48 0.00 0.00 2.24
2444 2512 2.730382 TCAGATGCCAACTACTCCGTA 58.270 47.619 0.00 0.00 0.00 4.02
2446 2514 2.672961 TTCAGATGCCAACTACTCCG 57.327 50.000 0.00 0.00 0.00 4.63
2447 2515 6.767902 TCATAATTTCAGATGCCAACTACTCC 59.232 38.462 0.00 0.00 0.00 3.85
2448 2516 7.280876 TGTCATAATTTCAGATGCCAACTACTC 59.719 37.037 0.00 0.00 0.00 2.59
2449 2517 7.112122 TGTCATAATTTCAGATGCCAACTACT 58.888 34.615 0.00 0.00 0.00 2.57
2450 2518 7.320443 TGTCATAATTTCAGATGCCAACTAC 57.680 36.000 0.00 0.00 0.00 2.73
2456 2524 9.241317 CTTGTAAATGTCATAATTTCAGATGCC 57.759 33.333 0.00 0.00 32.16 4.40
2598 2666 7.591426 CCTAACACAAGTTATCTTTCTTTGCAC 59.409 37.037 0.00 0.00 39.36 4.57
3316 3384 4.394712 AAGCCGGCGAGGGAACAG 62.395 66.667 23.20 0.00 41.48 3.16
3335 3403 4.718276 TGAATCCAATGATCTCCTGACAGA 59.282 41.667 3.32 0.00 0.00 3.41
3379 3447 3.290567 TGCTGGCATGCATGAACC 58.709 55.556 30.64 21.79 38.12 3.62
3539 3615 1.315257 AAGGTAAAGCCAGCCATGCG 61.315 55.000 0.00 0.00 40.61 4.73
3573 3649 2.668550 GGTGCCGACCAGGTGTTC 60.669 66.667 0.00 0.00 42.59 3.18
3675 3751 4.181578 GAGTTCGCATACAACCATACACT 58.818 43.478 0.00 0.00 0.00 3.55
3680 3756 2.665649 TCGAGTTCGCATACAACCAT 57.334 45.000 0.00 0.00 39.60 3.55
3683 3759 1.060698 GCCTTCGAGTTCGCATACAAC 59.939 52.381 0.00 0.00 39.60 3.32
3750 3828 5.928264 CCTGAAGAAAATTGAATTGACCCAC 59.072 40.000 0.00 0.00 0.00 4.61
3756 3834 7.712205 ACAAAGACCCTGAAGAAAATTGAATTG 59.288 33.333 0.00 0.00 0.00 2.32
3757 3835 7.712205 CACAAAGACCCTGAAGAAAATTGAATT 59.288 33.333 0.00 0.00 0.00 2.17
3762 3840 6.129179 TCTCACAAAGACCCTGAAGAAAATT 58.871 36.000 0.00 0.00 0.00 1.82
3808 3886 5.457148 GCGTATTCATTCACACACACAAAAA 59.543 36.000 0.00 0.00 0.00 1.94
3809 3887 4.973051 GCGTATTCATTCACACACACAAAA 59.027 37.500 0.00 0.00 0.00 2.44
3810 3888 4.035675 TGCGTATTCATTCACACACACAAA 59.964 37.500 0.00 0.00 0.00 2.83
3811 3889 3.561725 TGCGTATTCATTCACACACACAA 59.438 39.130 0.00 0.00 0.00 3.33
3812 3890 3.134458 TGCGTATTCATTCACACACACA 58.866 40.909 0.00 0.00 0.00 3.72
3813 3891 3.424829 CCTGCGTATTCATTCACACACAC 60.425 47.826 0.00 0.00 0.00 3.82
3814 3892 2.741517 CCTGCGTATTCATTCACACACA 59.258 45.455 0.00 0.00 0.00 3.72
3815 3893 3.000041 TCCTGCGTATTCATTCACACAC 59.000 45.455 0.00 0.00 0.00 3.82
3816 3894 3.000041 GTCCTGCGTATTCATTCACACA 59.000 45.455 0.00 0.00 0.00 3.72
3818 3896 3.000041 GTGTCCTGCGTATTCATTCACA 59.000 45.455 0.00 0.00 0.00 3.58
3819 3897 3.000041 TGTGTCCTGCGTATTCATTCAC 59.000 45.455 0.00 0.00 0.00 3.18
3820 3898 3.326836 TGTGTCCTGCGTATTCATTCA 57.673 42.857 0.00 0.00 0.00 2.57
3822 3900 5.858381 AGATATGTGTCCTGCGTATTCATT 58.142 37.500 0.00 0.00 0.00 2.57
3823 3901 5.474578 AGATATGTGTCCTGCGTATTCAT 57.525 39.130 0.00 0.00 0.00 2.57
3824 3902 4.937201 AGATATGTGTCCTGCGTATTCA 57.063 40.909 0.00 0.00 0.00 2.57
3825 3903 6.257849 TGAAAAGATATGTGTCCTGCGTATTC 59.742 38.462 0.00 0.00 0.00 1.75
3826 3904 6.112734 TGAAAAGATATGTGTCCTGCGTATT 58.887 36.000 0.00 0.00 0.00 1.89
3827 3905 5.670485 TGAAAAGATATGTGTCCTGCGTAT 58.330 37.500 0.00 0.00 0.00 3.06
3828 3906 5.079689 TGAAAAGATATGTGTCCTGCGTA 57.920 39.130 0.00 0.00 0.00 4.42
3829 3907 3.937814 TGAAAAGATATGTGTCCTGCGT 58.062 40.909 0.00 0.00 0.00 5.24
3830 3908 4.318333 CGATGAAAAGATATGTGTCCTGCG 60.318 45.833 0.00 0.00 0.00 5.18
3836 4459 7.875041 CCCTTCTATCGATGAAAAGATATGTGT 59.125 37.037 8.54 0.00 0.00 3.72
3838 4461 6.876257 GCCCTTCTATCGATGAAAAGATATGT 59.124 38.462 8.54 0.00 0.00 2.29
3840 4463 7.009179 TGCCCTTCTATCGATGAAAAGATAT 57.991 36.000 8.54 0.00 0.00 1.63
3852 4475 4.386867 TGTAGTTTCTGCCCTTCTATCG 57.613 45.455 0.00 0.00 0.00 2.92
3863 4486 6.201044 GGATCGTGACCATTATGTAGTTTCTG 59.799 42.308 0.00 0.00 0.00 3.02
3865 4488 6.046593 TGGATCGTGACCATTATGTAGTTTC 58.953 40.000 0.00 0.00 32.03 2.78
3869 4493 3.990469 GCTGGATCGTGACCATTATGTAG 59.010 47.826 0.00 0.00 36.79 2.74
3879 4503 2.459442 GCAGCTGCTGGATCGTGAC 61.459 63.158 31.33 7.75 38.21 3.67
3895 4519 1.275291 AGCGCCTTCTAACTGTAAGCA 59.725 47.619 2.29 0.00 37.60 3.91
3898 4522 3.064207 CAACAGCGCCTTCTAACTGTAA 58.936 45.455 2.29 0.00 42.34 2.41
3903 4527 0.517316 CCACAACAGCGCCTTCTAAC 59.483 55.000 2.29 0.00 0.00 2.34
3904 4528 0.394938 TCCACAACAGCGCCTTCTAA 59.605 50.000 2.29 0.00 0.00 2.10
3915 4539 1.337703 GCTCACTTTGCATCCACAACA 59.662 47.619 0.00 0.00 0.00 3.33
3927 4552 1.558756 CCATCTCCCTCTGCTCACTTT 59.441 52.381 0.00 0.00 0.00 2.66
3957 4582 4.569719 AACCTGAACTATGTACCTTGGG 57.430 45.455 0.00 0.00 0.00 4.12
3989 4614 1.153549 GCTAAGGGACGCCACAGAG 60.154 63.158 0.00 0.00 0.00 3.35
3991 4616 1.153549 GAGCTAAGGGACGCCACAG 60.154 63.158 0.00 0.00 0.00 3.66
3997 4622 1.617947 AAGGCCAGAGCTAAGGGACG 61.618 60.000 5.01 0.00 39.73 4.79
4033 4658 4.530857 CCGGCCCGACAGATGGTC 62.531 72.222 3.71 0.00 43.36 4.02
4052 4677 0.679640 TTGCATCGGGCTTTGGTAGG 60.680 55.000 0.00 0.00 45.15 3.18
4053 4678 1.173043 TTTGCATCGGGCTTTGGTAG 58.827 50.000 0.00 0.00 45.15 3.18
4054 4679 1.621992 TTTTGCATCGGGCTTTGGTA 58.378 45.000 0.00 0.00 45.15 3.25
4055 4680 0.755686 TTTTTGCATCGGGCTTTGGT 59.244 45.000 0.00 0.00 45.15 3.67
4056 4681 3.603144 TTTTTGCATCGGGCTTTGG 57.397 47.368 0.00 0.00 45.15 3.28
4071 4696 4.198087 GCTCAGGCCTGGGTTTTT 57.802 55.556 33.05 0.00 32.48 1.94
4103 4728 1.433837 CCGATTTTTAGGCCCGACGG 61.434 60.000 6.99 6.99 0.00 4.79
4104 4729 1.433837 CCCGATTTTTAGGCCCGACG 61.434 60.000 0.00 0.00 0.00 5.12
4105 4730 1.721664 GCCCGATTTTTAGGCCCGAC 61.722 60.000 0.00 0.00 41.00 4.79
4106 4731 1.452470 GCCCGATTTTTAGGCCCGA 60.452 57.895 0.00 0.00 41.00 5.14
4107 4732 3.116463 GCCCGATTTTTAGGCCCG 58.884 61.111 0.00 0.00 41.00 6.13
4110 4735 1.452470 TCGGGCCCGATTTTTAGGC 60.452 57.895 42.66 0.00 44.01 3.93
4111 4736 4.968370 TCGGGCCCGATTTTTAGG 57.032 55.556 42.66 12.44 44.01 2.69
4126 4751 2.901840 CATCATGGGCCGGGTTCG 60.902 66.667 2.18 0.00 0.00 3.95
4127 4752 2.337879 TAGCATCATGGGCCGGGTTC 62.338 60.000 2.18 0.00 0.00 3.62
4128 4753 1.932156 TTAGCATCATGGGCCGGGTT 61.932 55.000 2.18 0.00 0.00 4.11
4129 4754 1.932156 TTTAGCATCATGGGCCGGGT 61.932 55.000 2.18 0.00 0.00 5.28
4130 4755 0.754957 TTTTAGCATCATGGGCCGGG 60.755 55.000 2.18 0.00 0.00 5.73
4131 4756 0.670162 CTTTTAGCATCATGGGCCGG 59.330 55.000 0.00 0.00 0.00 6.13
4132 4757 0.031178 GCTTTTAGCATCATGGGCCG 59.969 55.000 0.00 0.00 41.89 6.13
4133 4758 0.390492 GGCTTTTAGCATCATGGGCC 59.610 55.000 0.00 0.00 44.75 5.80
4134 4759 1.068127 CAGGCTTTTAGCATCATGGGC 59.932 52.381 0.67 0.00 44.75 5.36
4135 4760 2.360165 GACAGGCTTTTAGCATCATGGG 59.640 50.000 0.67 0.00 44.75 4.00
4136 4761 2.032550 CGACAGGCTTTTAGCATCATGG 59.967 50.000 0.67 0.00 44.75 3.66
4137 4762 2.032550 CCGACAGGCTTTTAGCATCATG 59.967 50.000 0.67 0.00 44.75 3.07
4138 4763 2.292267 CCGACAGGCTTTTAGCATCAT 58.708 47.619 0.67 0.00 44.75 2.45
4139 4764 1.678728 CCCGACAGGCTTTTAGCATCA 60.679 52.381 0.67 0.00 44.75 3.07
4140 4765 1.017387 CCCGACAGGCTTTTAGCATC 58.983 55.000 0.67 0.00 44.75 3.91
4141 4766 3.175133 CCCGACAGGCTTTTAGCAT 57.825 52.632 0.67 0.00 44.75 3.79
4142 4767 4.713946 CCCGACAGGCTTTTAGCA 57.286 55.556 0.67 0.00 44.75 3.49
4151 4776 1.601419 TAACGAAGAGGCCCGACAGG 61.601 60.000 0.00 0.00 39.47 4.00
4152 4777 0.245539 TTAACGAAGAGGCCCGACAG 59.754 55.000 0.00 0.00 0.00 3.51
4153 4778 0.899720 ATTAACGAAGAGGCCCGACA 59.100 50.000 0.00 0.00 0.00 4.35
4154 4779 1.287425 CATTAACGAAGAGGCCCGAC 58.713 55.000 0.00 0.00 0.00 4.79
4155 4780 0.461339 GCATTAACGAAGAGGCCCGA 60.461 55.000 0.00 0.00 0.00 5.14
4156 4781 1.762222 CGCATTAACGAAGAGGCCCG 61.762 60.000 0.00 0.00 34.06 6.13
4157 4782 0.743345 ACGCATTAACGAAGAGGCCC 60.743 55.000 0.00 0.00 36.70 5.80
4158 4783 0.373716 CACGCATTAACGAAGAGGCC 59.626 55.000 0.00 0.00 36.70 5.19
4159 4784 1.355971 TCACGCATTAACGAAGAGGC 58.644 50.000 0.00 0.00 36.70 4.70
4160 4785 4.600012 AATTCACGCATTAACGAAGAGG 57.400 40.909 0.00 0.00 36.70 3.69
4161 4786 5.504755 GTCAAATTCACGCATTAACGAAGAG 59.495 40.000 0.00 0.00 36.70 2.85
4162 4787 5.379003 GTCAAATTCACGCATTAACGAAGA 58.621 37.500 0.00 0.00 36.70 2.87
4163 4788 4.257447 CGTCAAATTCACGCATTAACGAAG 59.743 41.667 0.00 0.00 36.70 3.79
4164 4789 4.145276 CGTCAAATTCACGCATTAACGAA 58.855 39.130 0.00 0.00 36.70 3.85
4165 4790 3.423776 CCGTCAAATTCACGCATTAACGA 60.424 43.478 4.70 0.00 35.87 3.85
4166 4791 2.837878 CCGTCAAATTCACGCATTAACG 59.162 45.455 4.70 0.00 35.87 3.18
4167 4792 3.168193 CCCGTCAAATTCACGCATTAAC 58.832 45.455 4.70 0.00 35.87 2.01
4168 4793 2.414824 GCCCGTCAAATTCACGCATTAA 60.415 45.455 4.70 0.00 35.87 1.40
4169 4794 1.131504 GCCCGTCAAATTCACGCATTA 59.868 47.619 4.70 0.00 35.87 1.90
4170 4795 0.109319 GCCCGTCAAATTCACGCATT 60.109 50.000 4.70 0.00 35.87 3.56
4171 4796 0.960364 AGCCCGTCAAATTCACGCAT 60.960 50.000 4.70 0.00 35.87 4.73
4172 4797 1.573829 GAGCCCGTCAAATTCACGCA 61.574 55.000 4.70 0.00 35.87 5.24
4173 4798 1.134694 GAGCCCGTCAAATTCACGC 59.865 57.895 4.70 0.00 35.87 5.34
4174 4799 0.443869 CTGAGCCCGTCAAATTCACG 59.556 55.000 3.45 3.45 33.60 4.35
4175 4800 0.804989 CCTGAGCCCGTCAAATTCAC 59.195 55.000 0.00 0.00 33.60 3.18
4176 4801 0.960364 GCCTGAGCCCGTCAAATTCA 60.960 55.000 0.00 0.00 33.60 2.57
4177 4802 1.803289 GCCTGAGCCCGTCAAATTC 59.197 57.895 0.00 0.00 33.60 2.17
4178 4803 4.002797 GCCTGAGCCCGTCAAATT 57.997 55.556 0.00 0.00 33.60 1.82
4207 4832 1.982073 GATTTCAAGCCCGACAGCCG 61.982 60.000 0.00 0.00 38.18 5.52
4208 4833 0.678048 AGATTTCAAGCCCGACAGCC 60.678 55.000 0.00 0.00 0.00 4.85
4209 4834 1.936547 CTAGATTTCAAGCCCGACAGC 59.063 52.381 0.00 0.00 0.00 4.40
4210 4835 2.555199 CCTAGATTTCAAGCCCGACAG 58.445 52.381 0.00 0.00 0.00 3.51
4211 4836 1.406887 GCCTAGATTTCAAGCCCGACA 60.407 52.381 0.00 0.00 0.00 4.35
4212 4837 1.300481 GCCTAGATTTCAAGCCCGAC 58.700 55.000 0.00 0.00 0.00 4.79
4213 4838 0.180406 GGCCTAGATTTCAAGCCCGA 59.820 55.000 0.00 0.00 37.66 5.14
4214 4839 2.707902 GGCCTAGATTTCAAGCCCG 58.292 57.895 0.00 0.00 37.66 6.13
4216 4841 0.180406 TCGGGCCTAGATTTCAAGCC 59.820 55.000 0.84 0.00 43.09 4.35
4217 4842 1.587547 CTCGGGCCTAGATTTCAAGC 58.412 55.000 0.84 0.00 0.00 4.01
4218 4843 1.587547 GCTCGGGCCTAGATTTCAAG 58.412 55.000 9.63 0.00 0.00 3.02
4219 4844 3.780624 GCTCGGGCCTAGATTTCAA 57.219 52.632 9.63 0.00 0.00 2.69
4237 4862 4.722700 CCTTGTCCACGGGCCAGG 62.723 72.222 8.08 4.75 0.00 4.45
4238 4863 3.901797 GACCTTGTCCACGGGCCAG 62.902 68.421 4.39 1.85 0.00 4.85
4239 4864 3.948719 GACCTTGTCCACGGGCCA 61.949 66.667 4.39 0.00 0.00 5.36
4242 4867 3.307906 TCCGACCTTGTCCACGGG 61.308 66.667 0.00 0.00 44.57 5.28
4243 4868 2.048503 GTCCGACCTTGTCCACGG 60.049 66.667 0.00 0.00 45.61 4.94
4244 4869 2.048503 GGTCCGACCTTGTCCACG 60.049 66.667 10.59 0.00 34.73 4.94
4245 4870 1.004918 CTGGTCCGACCTTGTCCAC 60.005 63.158 18.54 0.00 39.58 4.02
4246 4871 2.214216 CCTGGTCCGACCTTGTCCA 61.214 63.158 18.54 0.00 39.58 4.02
4247 4872 2.663196 CCTGGTCCGACCTTGTCC 59.337 66.667 18.54 0.00 39.58 4.02
4248 4873 2.047179 GCCTGGTCCGACCTTGTC 60.047 66.667 18.54 2.09 39.58 3.18
4249 4874 3.637273 GGCCTGGTCCGACCTTGT 61.637 66.667 18.54 0.00 39.58 3.16
4266 4891 3.428282 CCGAAAAAGCCCGACCCG 61.428 66.667 0.00 0.00 0.00 5.28
4267 4892 3.060000 CCCGAAAAAGCCCGACCC 61.060 66.667 0.00 0.00 0.00 4.46
4268 4893 3.744719 GCCCGAAAAAGCCCGACC 61.745 66.667 0.00 0.00 0.00 4.79
4269 4894 3.744719 GGCCCGAAAAAGCCCGAC 61.745 66.667 0.00 0.00 43.76 4.79
4273 4898 3.744719 GTCCGGCCCGAAAAAGCC 61.745 66.667 3.71 0.00 46.17 4.35
4274 4899 3.744719 GGTCCGGCCCGAAAAAGC 61.745 66.667 3.71 0.00 0.00 3.51


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

AutoCloner maintained by Alex Coulton.