Multiple sequence alignment - TraesCS2D01G287400

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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 TraesCS2D01G287400 chr2D 100.000 5032 0 0 1 5032 367919239 367924270 0.000000e+00 9293.0
1 TraesCS2D01G287400 chr2D 82.866 321 47 5 4712 5028 189279698 189279382 1.070000e-71 281.0
2 TraesCS2D01G287400 chr2D 80.451 266 48 4 2706 2969 367503918 367503655 3.070000e-47 200.0
3 TraesCS2D01G287400 chr2D 75.200 375 63 13 4674 5029 261243944 261244307 3.140000e-32 150.0
4 TraesCS2D01G287400 chr2B 97.822 4178 82 5 1 4170 436957568 436961744 0.000000e+00 7203.0
5 TraesCS2D01G287400 chr2B 92.788 416 24 4 4180 4591 436961785 436962198 9.320000e-167 597.0
6 TraesCS2D01G287400 chr2B 76.653 968 188 23 2706 3640 436239392 436238430 7.520000e-138 501.0
7 TraesCS2D01G287400 chr2B 79.706 340 46 8 4710 5029 778784498 778784162 1.820000e-54 224.0
8 TraesCS2D01G287400 chr2B 91.358 162 14 0 634 795 474405617 474405778 6.560000e-54 222.0
9 TraesCS2D01G287400 chr2B 78.507 335 46 14 4710 5022 245172428 245172098 3.970000e-46 196.0
10 TraesCS2D01G287400 chr2B 88.462 130 14 1 4601 4730 778784638 778784510 6.750000e-34 156.0
11 TraesCS2D01G287400 chr2B 76.744 258 28 20 336 577 416815826 416816067 1.140000e-21 115.0
12 TraesCS2D01G287400 chr2B 83.333 108 18 0 4599 4706 249419553 249419660 3.210000e-17 100.0
13 TraesCS2D01G287400 chr2B 95.122 41 2 0 489 529 366836299 366836339 1.170000e-06 65.8
14 TraesCS2D01G287400 chr2A 97.372 4186 76 13 1 4177 498039979 498044139 0.000000e+00 7090.0
15 TraesCS2D01G287400 chr2A 89.727 623 35 14 4180 4798 498044177 498044774 0.000000e+00 769.0
16 TraesCS2D01G287400 chr2A 81.648 267 47 2 2706 2971 497653850 497653585 2.360000e-53 220.0
17 TraesCS2D01G287400 chr4B 77.651 877 169 17 2706 3563 600656183 600655315 4.490000e-140 508.0
18 TraesCS2D01G287400 chr4B 78.070 228 48 2 3814 4040 600655055 600654829 5.250000e-30 143.0
19 TraesCS2D01G287400 chr4B 86.614 127 17 0 4710 4836 210474986 210474860 1.890000e-29 141.0
20 TraesCS2D01G287400 chr4B 74.742 194 37 7 390 579 465482469 465482284 5.400000e-10 76.8
21 TraesCS2D01G287400 chr5D 80.882 340 43 15 4710 5029 511937555 511937892 1.080000e-61 248.0
22 TraesCS2D01G287400 chr5D 89.809 157 16 0 633 789 299406144 299406300 8.540000e-48 202.0
23 TraesCS2D01G287400 chr5D 77.885 208 26 14 381 577 5812629 5812827 1.480000e-20 111.0
24 TraesCS2D01G287400 chr5D 86.517 89 10 2 490 577 450540121 450540208 4.150000e-16 97.1
25 TraesCS2D01G287400 chr6A 80.747 348 40 12 4710 5032 20805507 20805162 3.890000e-61 246.0
26 TraesCS2D01G287400 chr6A 80.172 348 42 17 4710 5032 20772818 20772473 8.420000e-58 235.0
27 TraesCS2D01G287400 chr6A 100.000 28 0 0 617 644 158047849 158047876 9.000000e-03 52.8
28 TraesCS2D01G287400 chr7D 81.073 317 42 11 4710 5022 400468255 400467953 2.340000e-58 237.0
29 TraesCS2D01G287400 chr7D 76.000 425 62 19 4635 5032 573106062 573105651 3.090000e-42 183.0
30 TraesCS2D01G287400 chr7D 94.318 88 5 0 490 577 586028451 586028364 8.790000e-28 135.0
31 TraesCS2D01G287400 chr7D 84.800 125 19 0 4712 4836 190949831 190949955 5.290000e-25 126.0
32 TraesCS2D01G287400 chr7D 76.974 152 28 7 4538 4685 186791322 186791174 4.180000e-11 80.5
33 TraesCS2D01G287400 chr4D 81.716 268 47 2 2706 2972 476304561 476304295 6.560000e-54 222.0
34 TraesCS2D01G287400 chr4D 93.056 144 10 0 649 792 492804404 492804261 1.420000e-50 211.0
35 TraesCS2D01G287400 chr4D 78.879 232 43 5 3812 4040 476303406 476303178 8.730000e-33 152.0
36 TraesCS2D01G287400 chr4D 75.258 194 36 7 390 579 378759162 378758977 1.160000e-11 82.4
37 TraesCS2D01G287400 chr3B 89.412 170 17 1 621 789 630594231 630594062 3.950000e-51 213.0
38 TraesCS2D01G287400 chr3B 92.053 151 8 3 642 790 271190941 271190793 5.100000e-50 209.0
39 TraesCS2D01G287400 chr5B 91.946 149 12 0 642 790 266982149 266982297 5.100000e-50 209.0
40 TraesCS2D01G287400 chr5B 77.848 316 44 11 4732 5021 450109872 450110187 6.700000e-39 172.0
41 TraesCS2D01G287400 chr6B 87.647 170 20 1 621 789 73159050 73158881 3.970000e-46 196.0
42 TraesCS2D01G287400 chr6B 74.118 510 99 24 4537 5032 624629242 624628752 4.000000e-41 180.0
43 TraesCS2D01G287400 chr5A 88.591 149 17 0 4710 4858 703670897 703671045 1.110000e-41 182.0
44 TraesCS2D01G287400 chr4A 76.246 341 60 8 4712 5032 406173825 406173486 1.450000e-35 161.0
45 TraesCS2D01G287400 chr4A 76.142 197 35 7 387 579 86294216 86294404 5.360000e-15 93.5
46 TraesCS2D01G287400 chr3A 74.342 456 80 29 4598 5026 658175187 658175632 5.210000e-35 159.0
47 TraesCS2D01G287400 chr3A 86.667 120 10 5 4599 4717 739663389 739663503 1.470000e-25 128.0
48 TraesCS2D01G287400 chr3A 85.567 97 11 2 628 724 501882361 501882268 1.150000e-16 99.0
49 TraesCS2D01G287400 chr1A 76.636 321 52 15 4732 5032 147340790 147340473 6.750000e-34 156.0
50 TraesCS2D01G287400 chr3D 77.133 293 45 17 4744 5029 3166935 3166658 3.140000e-32 150.0
51 TraesCS2D01G287400 chrUn 84.354 147 21 2 4887 5032 19867593 19867448 5.250000e-30 143.0
52 TraesCS2D01G287400 chr7A 82.857 70 10 2 4595 4663 163348674 163348742 1.510000e-05 62.1


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 TraesCS2D01G287400 chr2D 367919239 367924270 5031 False 9293.0 9293 100.0000 1 5032 1 chr2D.!!$F2 5031
1 TraesCS2D01G287400 chr2B 436957568 436962198 4630 False 3900.0 7203 95.3050 1 4591 2 chr2B.!!$F5 4590
2 TraesCS2D01G287400 chr2B 436238430 436239392 962 True 501.0 501 76.6530 2706 3640 1 chr2B.!!$R2 934
3 TraesCS2D01G287400 chr2A 498039979 498044774 4795 False 3929.5 7090 93.5495 1 4798 2 chr2A.!!$F1 4797
4 TraesCS2D01G287400 chr4B 600654829 600656183 1354 True 325.5 508 77.8605 2706 4040 2 chr4B.!!$R3 1334

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
794 801 1.136500 GGAACGGAGGGAGTACATGTC 59.864 57.143 0.00 0.00 0.00 3.06 F
1747 1758 1.426251 ATGGGACCTTGACACCAGCA 61.426 55.000 0.00 0.00 36.27 4.41 F
3490 3530 1.210204 ATCCCTCATGTGGCACCTGT 61.210 55.000 20.04 2.38 0.00 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1767 1778 1.335496 GACCTACGGATGACTCTCTGC 59.665 57.143 0.00 0.0 0.0 4.26 R
3587 3627 0.809385 CTAGGAACCTCGCGAACTGA 59.191 55.000 11.33 0.0 0.0 3.41 R
4924 5066 0.037326 TTGGTGAGCTGGACATCGAC 60.037 55.000 0.00 0.0 0.0 4.20 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
79 80 8.454859 AATCCAGTGGTATAGGATATGTTCAT 57.545 34.615 9.54 0.00 41.15 2.57
94 95 5.914898 ATGTTCATAGGCTTTTTACACCC 57.085 39.130 0.00 0.00 0.00 4.61
203 205 9.770097 CTATCCAGTTTTCTAGCTTGATTATCA 57.230 33.333 0.00 0.00 0.00 2.15
227 229 3.117663 GCCCTCCAAAATGGTAGTATCCA 60.118 47.826 0.00 0.00 39.03 3.41
350 352 6.428771 TGTTTACTTTTCCCTTCGTTCCATAG 59.571 38.462 0.00 0.00 0.00 2.23
653 659 4.141801 CCAAAACGTCATATCCTACCTCCA 60.142 45.833 0.00 0.00 0.00 3.86
794 801 1.136500 GGAACGGAGGGAGTACATGTC 59.864 57.143 0.00 0.00 0.00 3.06
1028 1038 5.817816 CACTAGAAGTTGAGAAACCACTGTT 59.182 40.000 0.00 0.00 35.82 3.16
1031 1041 5.440610 AGAAGTTGAGAAACCACTGTTCAT 58.559 37.500 0.00 0.00 32.15 2.57
1038 1048 3.069586 AGAAACCACTGTTCATCGAGACA 59.930 43.478 0.00 0.00 32.15 3.41
1110 1120 5.456763 GGTCTCTAATATCAAAGGCCATGGT 60.457 44.000 14.67 1.80 33.61 3.55
1440 1450 4.345257 ACAACGGAGATGGTAAGCTGATAT 59.655 41.667 0.00 0.00 33.36 1.63
1747 1758 1.426251 ATGGGACCTTGACACCAGCA 61.426 55.000 0.00 0.00 36.27 4.41
1767 1778 6.088824 CAGCAATTTCTGGTAGCAAAAGTAG 58.911 40.000 0.00 0.00 33.34 2.57
1955 1966 7.225538 GTCAGTACCCAGATTTAATCACATCTG 59.774 40.741 7.74 7.60 44.21 2.90
3120 3160 7.031975 GTGGAAGAAAAACATCATCTTCATCC 58.968 38.462 14.53 4.53 46.92 3.51
3194 3234 2.443255 ACTGTCAAAGTTCATCCAGGGT 59.557 45.455 0.00 0.00 34.57 4.34
3490 3530 1.210204 ATCCCTCATGTGGCACCTGT 61.210 55.000 20.04 2.38 0.00 4.00
3587 3627 0.338814 ACGGGGTAGAGGATTCAGGT 59.661 55.000 0.00 0.00 0.00 4.00
3769 3865 1.475034 GGTGATAGAGCCGCCAATGAA 60.475 52.381 0.00 0.00 34.47 2.57
4071 4173 6.183360 GCATGAGGTGATCAGACTAGTCTAAA 60.183 42.308 24.75 16.10 42.53 1.85
4073 4175 6.246163 TGAGGTGATCAGACTAGTCTAAACA 58.754 40.000 24.75 19.48 37.98 2.83
4097 4199 8.834465 ACATTTCTGTAGCATTATGTTGATCTC 58.166 33.333 0.00 0.00 32.49 2.75
4139 4241 5.185442 TGCTCATTTGACCAAATAGCATTGA 59.815 36.000 21.51 11.56 39.50 2.57
4274 4411 9.455847 GAAGTCATAATTTCATGTTATCAAGGC 57.544 33.333 0.00 0.00 0.00 4.35
4296 4433 4.084900 GCGAGCAAAAGAAAAATTGTCCTG 60.085 41.667 0.00 0.00 0.00 3.86
4298 4435 5.027293 AGCAAAAGAAAAATTGTCCTGCT 57.973 34.783 0.70 0.70 0.00 4.24
4299 4436 6.160576 AGCAAAAGAAAAATTGTCCTGCTA 57.839 33.333 3.92 0.00 0.00 3.49
4499 4637 2.237143 TGTCTCTAAGTTGATGCCCTGG 59.763 50.000 0.00 0.00 0.00 4.45
4524 4664 3.583526 GGAATGTCCTTAGGGTATCTCCC 59.416 52.174 0.00 0.00 44.45 4.30
4564 4704 0.317160 TCCGACATCCATCCGCATAC 59.683 55.000 0.00 0.00 0.00 2.39
4591 4732 1.993370 GACCAGTACGCAGACATGAAC 59.007 52.381 0.00 0.00 0.00 3.18
4592 4733 1.618837 ACCAGTACGCAGACATGAACT 59.381 47.619 0.00 0.00 0.00 3.01
4593 4734 1.995484 CCAGTACGCAGACATGAACTG 59.005 52.381 16.07 16.07 35.04 3.16
4594 4735 1.995484 CAGTACGCAGACATGAACTGG 59.005 52.381 19.70 14.24 36.09 4.00
4620 4762 1.097547 ATCCAACGCTGCCTGCATAC 61.098 55.000 0.00 0.00 43.06 2.39
4626 4768 2.364632 ACGCTGCCTGCATACATTTTA 58.635 42.857 0.00 0.00 43.06 1.52
4656 4798 8.601476 ACTATTTGAACTAATCGGACGAAATTC 58.399 33.333 0.00 1.75 0.00 2.17
4686 4828 4.772434 CACGGCGGATTTCATATAAACTG 58.228 43.478 13.24 0.00 0.00 3.16
4690 4832 6.079763 CGGCGGATTTCATATAAACTGAATG 58.920 40.000 0.00 0.00 32.94 2.67
4692 4834 7.519809 CGGCGGATTTCATATAAACTGAATGAA 60.520 37.037 0.00 0.00 37.73 2.57
4764 4906 8.819643 ACTCTAAACCTAATCTAAATGATCGC 57.180 34.615 0.00 0.00 33.57 4.58
4769 4911 1.148310 AATCTAAATGATCGCCGGCG 58.852 50.000 42.13 42.13 41.35 6.46
4771 4913 1.956170 CTAAATGATCGCCGGCGCT 60.956 57.895 42.78 35.61 39.59 5.92
4804 4946 4.232310 GCCATGAGCCCTGAGAAC 57.768 61.111 0.00 0.00 34.35 3.01
4805 4947 1.606531 GCCATGAGCCCTGAGAACT 59.393 57.895 0.00 0.00 34.35 3.01
4806 4948 0.833287 GCCATGAGCCCTGAGAACTA 59.167 55.000 0.00 0.00 34.35 2.24
4807 4949 1.210478 GCCATGAGCCCTGAGAACTAA 59.790 52.381 0.00 0.00 34.35 2.24
4808 4950 2.356125 GCCATGAGCCCTGAGAACTAAA 60.356 50.000 0.00 0.00 34.35 1.85
4809 4951 3.539604 CCATGAGCCCTGAGAACTAAAG 58.460 50.000 0.00 0.00 0.00 1.85
4810 4952 2.770164 TGAGCCCTGAGAACTAAAGC 57.230 50.000 0.00 0.00 0.00 3.51
4811 4953 2.260822 TGAGCCCTGAGAACTAAAGCT 58.739 47.619 0.00 0.00 0.00 3.74
4812 4954 2.234908 TGAGCCCTGAGAACTAAAGCTC 59.765 50.000 0.00 0.00 44.25 4.09
4813 4955 1.557371 AGCCCTGAGAACTAAAGCTCC 59.443 52.381 0.00 0.00 0.00 4.70
4814 4956 1.740718 GCCCTGAGAACTAAAGCTCCG 60.741 57.143 0.00 0.00 0.00 4.63
4815 4957 1.134670 CCCTGAGAACTAAAGCTCCGG 60.135 57.143 0.00 0.00 35.88 5.14
4816 4958 1.646189 CTGAGAACTAAAGCTCCGGC 58.354 55.000 0.00 0.00 39.06 6.13
4835 4977 2.844946 GCTATTGCCTTCTCCTTCTCC 58.155 52.381 0.00 0.00 0.00 3.71
4836 4978 2.171448 GCTATTGCCTTCTCCTTCTCCA 59.829 50.000 0.00 0.00 0.00 3.86
4837 4979 3.743899 GCTATTGCCTTCTCCTTCTCCAG 60.744 52.174 0.00 0.00 0.00 3.86
4838 4980 1.734655 TTGCCTTCTCCTTCTCCAGT 58.265 50.000 0.00 0.00 0.00 4.00
4839 4981 1.734655 TGCCTTCTCCTTCTCCAGTT 58.265 50.000 0.00 0.00 0.00 3.16
4840 4982 1.625818 TGCCTTCTCCTTCTCCAGTTC 59.374 52.381 0.00 0.00 0.00 3.01
4841 4983 1.065782 GCCTTCTCCTTCTCCAGTTCC 60.066 57.143 0.00 0.00 0.00 3.62
4842 4984 2.260822 CCTTCTCCTTCTCCAGTTCCA 58.739 52.381 0.00 0.00 0.00 3.53
4843 4985 2.843113 CCTTCTCCTTCTCCAGTTCCAT 59.157 50.000 0.00 0.00 0.00 3.41
4844 4986 3.118445 CCTTCTCCTTCTCCAGTTCCATC 60.118 52.174 0.00 0.00 0.00 3.51
4845 4987 3.481559 TCTCCTTCTCCAGTTCCATCT 57.518 47.619 0.00 0.00 0.00 2.90
4846 4988 3.370104 TCTCCTTCTCCAGTTCCATCTC 58.630 50.000 0.00 0.00 0.00 2.75
4847 4989 2.100584 CTCCTTCTCCAGTTCCATCTCG 59.899 54.545 0.00 0.00 0.00 4.04
4848 4990 1.137872 CCTTCTCCAGTTCCATCTCGG 59.862 57.143 0.00 0.00 0.00 4.63
4849 4991 1.827969 CTTCTCCAGTTCCATCTCGGT 59.172 52.381 0.00 0.00 35.57 4.69
4850 4992 1.186200 TCTCCAGTTCCATCTCGGTG 58.814 55.000 0.00 0.00 35.57 4.94
4851 4993 0.460987 CTCCAGTTCCATCTCGGTGC 60.461 60.000 0.00 0.00 35.57 5.01
4852 4994 0.904865 TCCAGTTCCATCTCGGTGCT 60.905 55.000 0.00 0.00 35.57 4.40
4853 4995 0.460987 CCAGTTCCATCTCGGTGCTC 60.461 60.000 0.00 0.00 35.57 4.26
4854 4996 0.534412 CAGTTCCATCTCGGTGCTCT 59.466 55.000 0.00 0.00 35.57 4.09
4855 4997 0.820871 AGTTCCATCTCGGTGCTCTC 59.179 55.000 0.00 0.00 35.57 3.20
4856 4998 0.179097 GTTCCATCTCGGTGCTCTCC 60.179 60.000 0.00 0.00 35.57 3.71
4857 4999 0.614697 TTCCATCTCGGTGCTCTCCA 60.615 55.000 0.00 0.00 35.57 3.86
4858 5000 1.039785 TCCATCTCGGTGCTCTCCAG 61.040 60.000 0.00 0.00 35.57 3.86
4859 5001 1.326213 CCATCTCGGTGCTCTCCAGT 61.326 60.000 0.00 0.00 0.00 4.00
4860 5002 0.534412 CATCTCGGTGCTCTCCAGTT 59.466 55.000 0.00 0.00 0.00 3.16
4861 5003 0.820871 ATCTCGGTGCTCTCCAGTTC 59.179 55.000 0.00 0.00 0.00 3.01
4862 5004 1.216710 CTCGGTGCTCTCCAGTTCC 59.783 63.158 0.00 0.00 0.00 3.62
4863 5005 1.228894 TCGGTGCTCTCCAGTTCCT 60.229 57.895 0.00 0.00 0.00 3.36
4864 5006 1.216710 CGGTGCTCTCCAGTTCCTC 59.783 63.158 0.00 0.00 0.00 3.71
4865 5007 1.599576 GGTGCTCTCCAGTTCCTCC 59.400 63.158 0.00 0.00 0.00 4.30
4866 5008 0.907230 GGTGCTCTCCAGTTCCTCCT 60.907 60.000 0.00 0.00 0.00 3.69
4867 5009 0.534873 GTGCTCTCCAGTTCCTCCTC 59.465 60.000 0.00 0.00 0.00 3.71
4868 5010 0.616111 TGCTCTCCAGTTCCTCCTCC 60.616 60.000 0.00 0.00 0.00 4.30
4869 5011 1.671901 GCTCTCCAGTTCCTCCTCCG 61.672 65.000 0.00 0.00 0.00 4.63
4870 5012 1.000486 TCTCCAGTTCCTCCTCCGG 60.000 63.158 0.00 0.00 0.00 5.14
4871 5013 1.000486 CTCCAGTTCCTCCTCCGGA 60.000 63.158 2.93 2.93 0.00 5.14
4886 5028 2.990479 GGAGCACCGGGAAGTGAT 59.010 61.111 6.32 0.00 40.34 3.06
4887 5029 1.450312 GGAGCACCGGGAAGTGATG 60.450 63.158 6.32 0.00 40.34 3.07
4888 5030 1.296715 GAGCACCGGGAAGTGATGT 59.703 57.895 6.32 0.00 40.34 3.06
4889 5031 0.741221 GAGCACCGGGAAGTGATGTC 60.741 60.000 6.32 0.00 40.34 3.06
4890 5032 1.194781 AGCACCGGGAAGTGATGTCT 61.195 55.000 6.32 0.00 40.34 3.41
4891 5033 1.021390 GCACCGGGAAGTGATGTCTG 61.021 60.000 6.32 0.00 40.34 3.51
4892 5034 1.021390 CACCGGGAAGTGATGTCTGC 61.021 60.000 6.32 0.00 40.34 4.26
4893 5035 1.450312 CCGGGAAGTGATGTCTGCC 60.450 63.158 0.00 0.00 32.46 4.85
4894 5036 1.599047 CGGGAAGTGATGTCTGCCT 59.401 57.895 0.00 0.00 33.73 4.75
4895 5037 0.460987 CGGGAAGTGATGTCTGCCTC 60.461 60.000 0.00 0.00 33.73 4.70
4896 5038 0.107459 GGGAAGTGATGTCTGCCTCC 60.107 60.000 0.00 0.00 33.73 4.30
4897 5039 0.615331 GGAAGTGATGTCTGCCTCCA 59.385 55.000 0.00 0.00 30.63 3.86
4898 5040 1.211457 GGAAGTGATGTCTGCCTCCAT 59.789 52.381 0.00 0.00 30.63 3.41
4899 5041 2.286872 GAAGTGATGTCTGCCTCCATG 58.713 52.381 0.00 0.00 0.00 3.66
4900 5042 1.283347 AGTGATGTCTGCCTCCATGT 58.717 50.000 0.00 0.00 0.00 3.21
4901 5043 1.209019 AGTGATGTCTGCCTCCATGTC 59.791 52.381 0.00 0.00 0.00 3.06
4902 5044 0.176449 TGATGTCTGCCTCCATGTCG 59.824 55.000 0.00 0.00 0.00 4.35
4903 5045 1.153289 ATGTCTGCCTCCATGTCGC 60.153 57.895 0.00 0.00 0.00 5.19
4904 5046 2.512515 GTCTGCCTCCATGTCGCC 60.513 66.667 0.00 0.00 0.00 5.54
4905 5047 3.002583 TCTGCCTCCATGTCGCCA 61.003 61.111 0.00 0.00 0.00 5.69
4906 5048 2.821366 CTGCCTCCATGTCGCCAC 60.821 66.667 0.00 0.00 0.00 5.01
4907 5049 4.408821 TGCCTCCATGTCGCCACC 62.409 66.667 0.00 0.00 0.00 4.61
4908 5050 4.408821 GCCTCCATGTCGCCACCA 62.409 66.667 0.00 0.00 0.00 4.17
4909 5051 2.350895 CCTCCATGTCGCCACCAA 59.649 61.111 0.00 0.00 0.00 3.67
4910 5052 1.746615 CCTCCATGTCGCCACCAAG 60.747 63.158 0.00 0.00 0.00 3.61
4911 5053 2.359850 TCCATGTCGCCACCAAGC 60.360 61.111 0.00 0.00 0.00 4.01
4919 5061 3.440415 GCCACCAAGCGGCTAACC 61.440 66.667 1.35 0.00 46.56 2.85
4929 5071 2.412112 GGCTAACCGCTCGTCGAT 59.588 61.111 0.00 0.00 41.67 3.59
4930 5072 1.944676 GGCTAACCGCTCGTCGATG 60.945 63.158 0.00 0.00 41.67 3.84
4931 5073 1.226603 GCTAACCGCTCGTCGATGT 60.227 57.895 4.21 0.00 41.67 3.06
4932 5074 1.201098 GCTAACCGCTCGTCGATGTC 61.201 60.000 4.21 0.00 41.67 3.06
4933 5075 0.591741 CTAACCGCTCGTCGATGTCC 60.592 60.000 4.21 0.00 41.67 4.02
4934 5076 1.307355 TAACCGCTCGTCGATGTCCA 61.307 55.000 4.21 0.00 41.67 4.02
4935 5077 2.278206 CCGCTCGTCGATGTCCAG 60.278 66.667 4.21 0.00 41.67 3.86
4936 5078 2.951745 CGCTCGTCGATGTCCAGC 60.952 66.667 4.21 5.66 41.67 4.85
4937 5079 2.492090 GCTCGTCGATGTCCAGCT 59.508 61.111 4.21 0.00 0.00 4.24
4938 5080 1.587613 GCTCGTCGATGTCCAGCTC 60.588 63.158 4.21 0.00 0.00 4.09
4939 5081 1.803289 CTCGTCGATGTCCAGCTCA 59.197 57.895 4.21 0.00 0.00 4.26
4940 5082 0.524392 CTCGTCGATGTCCAGCTCAC 60.524 60.000 4.21 0.00 0.00 3.51
4941 5083 1.517257 CGTCGATGTCCAGCTCACC 60.517 63.158 0.00 0.00 0.00 4.02
4942 5084 1.591703 GTCGATGTCCAGCTCACCA 59.408 57.895 0.00 0.00 0.00 4.17
4943 5085 0.037326 GTCGATGTCCAGCTCACCAA 60.037 55.000 0.00 0.00 0.00 3.67
4944 5086 0.247460 TCGATGTCCAGCTCACCAAG 59.753 55.000 0.00 0.00 0.00 3.61
4958 5100 3.826637 CCAAGCTTGGCTTCAATGG 57.173 52.632 31.70 6.73 46.77 3.16
4959 5101 0.248289 CCAAGCTTGGCTTCAATGGG 59.752 55.000 31.70 5.10 46.77 4.00
4960 5102 1.259609 CAAGCTTGGCTTCAATGGGA 58.740 50.000 19.14 0.00 46.77 4.37
4961 5103 1.203994 CAAGCTTGGCTTCAATGGGAG 59.796 52.381 19.14 0.00 46.77 4.30
4962 5104 0.324091 AGCTTGGCTTCAATGGGAGG 60.324 55.000 0.00 0.00 33.89 4.30
4963 5105 1.325476 GCTTGGCTTCAATGGGAGGG 61.325 60.000 0.00 0.00 0.00 4.30
4964 5106 0.685458 CTTGGCTTCAATGGGAGGGG 60.685 60.000 0.00 0.00 0.00 4.79
4965 5107 1.145900 TTGGCTTCAATGGGAGGGGA 61.146 55.000 0.00 0.00 0.00 4.81
4966 5108 1.145900 TGGCTTCAATGGGAGGGGAA 61.146 55.000 0.00 0.00 0.00 3.97
4967 5109 0.396278 GGCTTCAATGGGAGGGGAAG 60.396 60.000 0.00 0.00 39.70 3.46
4968 5110 0.625849 GCTTCAATGGGAGGGGAAGA 59.374 55.000 0.00 0.00 39.20 2.87
4969 5111 1.409381 GCTTCAATGGGAGGGGAAGAG 60.409 57.143 0.00 0.00 39.20 2.85
4970 5112 0.625849 TTCAATGGGAGGGGAAGAGC 59.374 55.000 0.00 0.00 0.00 4.09
4971 5113 1.153086 CAATGGGAGGGGAAGAGCG 60.153 63.158 0.00 0.00 0.00 5.03
4972 5114 2.378634 AATGGGAGGGGAAGAGCGG 61.379 63.158 0.00 0.00 0.00 5.52
4973 5115 3.642741 ATGGGAGGGGAAGAGCGGT 62.643 63.158 0.00 0.00 0.00 5.68
4974 5116 3.787001 GGGAGGGGAAGAGCGGTG 61.787 72.222 0.00 0.00 0.00 4.94
4975 5117 3.787001 GGAGGGGAAGAGCGGTGG 61.787 72.222 0.00 0.00 0.00 4.61
4976 5118 4.475135 GAGGGGAAGAGCGGTGGC 62.475 72.222 0.00 0.00 40.37 5.01
4979 5121 4.035102 GGGAAGAGCGGTGGCCTT 62.035 66.667 3.32 0.00 41.24 4.35
4980 5122 2.436824 GGAAGAGCGGTGGCCTTC 60.437 66.667 3.32 0.00 41.63 3.46
4981 5123 2.347490 GAAGAGCGGTGGCCTTCA 59.653 61.111 3.32 0.00 41.80 3.02
4982 5124 1.078143 GAAGAGCGGTGGCCTTCAT 60.078 57.895 3.32 0.00 41.80 2.57
4983 5125 1.372087 GAAGAGCGGTGGCCTTCATG 61.372 60.000 3.32 0.00 41.80 3.07
4984 5126 2.825836 GAGCGGTGGCCTTCATGG 60.826 66.667 3.32 0.00 41.24 3.66
4985 5127 4.431131 AGCGGTGGCCTTCATGGG 62.431 66.667 3.32 0.00 41.24 4.00
4986 5128 4.424711 GCGGTGGCCTTCATGGGA 62.425 66.667 3.32 0.00 36.00 4.37
4987 5129 2.354729 CGGTGGCCTTCATGGGAA 59.645 61.111 3.32 0.00 36.00 3.97
4988 5130 1.076777 CGGTGGCCTTCATGGGAAT 60.077 57.895 3.32 0.00 36.00 3.01
4989 5131 1.103398 CGGTGGCCTTCATGGGAATC 61.103 60.000 3.32 0.00 36.00 2.52
4990 5132 1.103398 GGTGGCCTTCATGGGAATCG 61.103 60.000 3.32 0.00 36.00 3.34
4991 5133 0.107214 GTGGCCTTCATGGGAATCGA 60.107 55.000 3.32 0.00 36.00 3.59
4992 5134 0.181114 TGGCCTTCATGGGAATCGAG 59.819 55.000 3.32 0.00 36.00 4.04
4993 5135 1.169034 GGCCTTCATGGGAATCGAGC 61.169 60.000 0.00 0.00 36.00 5.03
4994 5136 1.502163 GCCTTCATGGGAATCGAGCG 61.502 60.000 0.00 0.00 36.00 5.03
4995 5137 0.179073 CCTTCATGGGAATCGAGCGT 60.179 55.000 0.00 0.00 31.34 5.07
4996 5138 1.212616 CTTCATGGGAATCGAGCGTC 58.787 55.000 0.00 0.00 31.34 5.19
4997 5139 0.527600 TTCATGGGAATCGAGCGTCG 60.528 55.000 0.00 1.67 42.10 5.12
4998 5140 1.951130 CATGGGAATCGAGCGTCGG 60.951 63.158 7.39 0.00 40.88 4.79
4999 5141 3.792053 ATGGGAATCGAGCGTCGGC 62.792 63.158 7.39 0.00 40.88 5.54
5001 5143 4.547905 GGAATCGAGCGTCGGCGA 62.548 66.667 16.53 4.99 46.35 5.54
5002 5144 3.313257 GAATCGAGCGTCGGCGAC 61.313 66.667 29.06 29.06 46.35 5.19
5003 5145 4.849329 AATCGAGCGTCGGCGACC 62.849 66.667 31.86 23.89 46.35 4.79
5006 5148 4.883300 CGAGCGTCGGCGACCTAC 62.883 72.222 31.86 21.71 46.35 3.18
5007 5149 3.507009 GAGCGTCGGCGACCTACT 61.507 66.667 31.86 25.67 46.35 2.57
5008 5150 2.124983 AGCGTCGGCGACCTACTA 60.125 61.111 31.86 0.00 46.35 1.82
5009 5151 1.505477 GAGCGTCGGCGACCTACTAT 61.505 60.000 31.86 12.91 46.35 2.12
5010 5152 1.370172 GCGTCGGCGACCTACTATG 60.370 63.158 31.86 17.95 41.33 2.23
5011 5153 1.370172 CGTCGGCGACCTACTATGC 60.370 63.158 31.86 6.37 41.33 3.14
5012 5154 1.731700 GTCGGCGACCTACTATGCA 59.268 57.895 28.72 0.00 0.00 3.96
5013 5155 0.594284 GTCGGCGACCTACTATGCAC 60.594 60.000 28.72 0.00 0.00 4.57
5014 5156 0.750546 TCGGCGACCTACTATGCACT 60.751 55.000 4.99 0.00 0.00 4.40
5015 5157 0.949397 CGGCGACCTACTATGCACTA 59.051 55.000 0.00 0.00 0.00 2.74
5016 5158 1.334779 CGGCGACCTACTATGCACTAC 60.335 57.143 0.00 0.00 0.00 2.73
5017 5159 1.955080 GGCGACCTACTATGCACTACT 59.045 52.381 0.00 0.00 0.00 2.57
5018 5160 2.030981 GGCGACCTACTATGCACTACTC 60.031 54.545 0.00 0.00 0.00 2.59
5019 5161 2.879646 GCGACCTACTATGCACTACTCT 59.120 50.000 0.00 0.00 0.00 3.24
5020 5162 3.315749 GCGACCTACTATGCACTACTCTT 59.684 47.826 0.00 0.00 0.00 2.85
5021 5163 4.555116 GCGACCTACTATGCACTACTCTTC 60.555 50.000 0.00 0.00 0.00 2.87
5022 5164 4.817464 CGACCTACTATGCACTACTCTTCT 59.183 45.833 0.00 0.00 0.00 2.85
5023 5165 5.297278 CGACCTACTATGCACTACTCTTCTT 59.703 44.000 0.00 0.00 0.00 2.52
5024 5166 6.512091 CGACCTACTATGCACTACTCTTCTTC 60.512 46.154 0.00 0.00 0.00 2.87
5025 5167 5.297278 ACCTACTATGCACTACTCTTCTTCG 59.703 44.000 0.00 0.00 0.00 3.79
5026 5168 4.035278 ACTATGCACTACTCTTCTTCGC 57.965 45.455 0.00 0.00 0.00 4.70
5027 5169 3.697045 ACTATGCACTACTCTTCTTCGCT 59.303 43.478 0.00 0.00 0.00 4.93
5028 5170 2.354109 TGCACTACTCTTCTTCGCTG 57.646 50.000 0.00 0.00 0.00 5.18
5029 5171 1.613925 TGCACTACTCTTCTTCGCTGT 59.386 47.619 0.00 0.00 0.00 4.40
5030 5172 2.255316 GCACTACTCTTCTTCGCTGTC 58.745 52.381 0.00 0.00 0.00 3.51
5031 5173 2.510874 CACTACTCTTCTTCGCTGTCG 58.489 52.381 0.00 0.00 0.00 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
79 80 1.202782 TGTGCGGGTGTAAAAAGCCTA 60.203 47.619 0.00 0.00 35.47 3.93
94 95 0.681733 ATAGGGGCAGATAGTGTGCG 59.318 55.000 0.00 0.00 42.19 5.34
203 205 1.382914 ACTACCATTTTGGAGGGCCT 58.617 50.000 5.25 5.25 40.96 5.19
752 759 1.201424 AATACTCCCTCCGTCCCAAC 58.799 55.000 0.00 0.00 0.00 3.77
794 801 8.324163 AGCAAGTAAAAAGTATTAGACAGTGG 57.676 34.615 0.00 0.00 0.00 4.00
1028 1038 1.790755 CCGTTTGGTTGTCTCGATGA 58.209 50.000 0.00 0.00 0.00 2.92
1031 1041 0.179067 AAGCCGTTTGGTTGTCTCGA 60.179 50.000 0.00 0.00 37.67 4.04
1038 1048 3.030652 CGCTCAAGCCGTTTGGTT 58.969 55.556 0.00 0.00 37.39 3.67
1110 1120 0.033504 GTGTGAAGCAGACCTCGGAA 59.966 55.000 0.00 0.00 0.00 4.30
1747 1758 6.003950 TCTGCTACTTTTGCTACCAGAAATT 58.996 36.000 0.00 0.00 0.00 1.82
1767 1778 1.335496 GACCTACGGATGACTCTCTGC 59.665 57.143 0.00 0.00 0.00 4.26
1955 1966 7.359595 TGTACAAGAAATGCAACATACACTTC 58.640 34.615 0.00 0.00 0.00 3.01
3120 3160 7.007636 GGAACTAAACACAACGTAAAACAACAG 59.992 37.037 0.00 0.00 0.00 3.16
3194 3234 1.207488 AGCAGAATGGCAGGTACCCA 61.207 55.000 8.74 0.00 35.86 4.51
3490 3530 2.654877 GGAAGACGAACCGCTCCA 59.345 61.111 0.00 0.00 0.00 3.86
3554 3594 2.474112 ACCCCGTCACTGTAACCATAT 58.526 47.619 0.00 0.00 0.00 1.78
3587 3627 0.809385 CTAGGAACCTCGCGAACTGA 59.191 55.000 11.33 0.00 0.00 3.41
3769 3865 4.371681 ACTAATCCTCCCTACATGGTTGT 58.628 43.478 0.00 0.00 39.98 3.32
4071 4173 8.743085 AGATCAACATAATGCTACAGAAATGT 57.257 30.769 0.00 0.00 0.00 2.71
4073 4175 8.969260 TGAGATCAACATAATGCTACAGAAAT 57.031 30.769 0.00 0.00 0.00 2.17
4097 4199 0.591170 CAACGGCACTGTACCCTTTG 59.409 55.000 0.00 0.00 0.00 2.77
4139 4241 1.425448 ACCTGCCAAAACTCTAAGCCT 59.575 47.619 0.00 0.00 0.00 4.58
4274 4411 4.084900 GCAGGACAATTTTTCTTTTGCTCG 60.085 41.667 0.00 0.00 0.00 5.03
4362 4499 5.949735 ACAATTCGTTTACATGATTGGACC 58.050 37.500 0.00 0.00 0.00 4.46
4431 4568 3.366679 GCTAGCTTTGATTCAAGCAGCAA 60.367 43.478 19.92 0.00 31.82 3.91
4433 4570 2.479219 GGCTAGCTTTGATTCAAGCAGC 60.479 50.000 15.72 13.01 33.79 5.25
4477 4615 3.118112 CCAGGGCATCAACTTAGAGACAT 60.118 47.826 0.00 0.00 0.00 3.06
4517 4657 0.833287 GCAGACCAGCTTGGGAGATA 59.167 55.000 0.00 0.00 43.37 1.98
4548 4688 1.609061 CCCTGTATGCGGATGGATGTC 60.609 57.143 0.00 0.00 0.00 3.06
4576 4717 1.993370 GTCCAGTTCATGTCTGCGTAC 59.007 52.381 12.64 8.24 0.00 3.67
4578 4719 0.667487 CGTCCAGTTCATGTCTGCGT 60.667 55.000 12.64 0.00 0.00 5.24
4593 4734 4.778143 AGCGTTGGATGGCCGTCC 62.778 66.667 33.84 33.84 38.81 4.79
4594 4735 3.499737 CAGCGTTGGATGGCCGTC 61.500 66.667 17.28 17.28 36.79 4.79
4626 4768 6.869913 TCGTCCGATTAGTTCAAATAGTTGTT 59.130 34.615 2.43 0.00 36.07 2.83
4702 4844 9.296400 CCGGTTTATATGAAAAATGTTCGAAAT 57.704 29.630 0.00 0.00 0.00 2.17
4703 4845 8.512956 TCCGGTTTATATGAAAAATGTTCGAAA 58.487 29.630 0.00 0.00 0.00 3.46
4704 4846 8.041829 TCCGGTTTATATGAAAAATGTTCGAA 57.958 30.769 0.00 0.00 0.00 3.71
4705 4847 7.612668 TCCGGTTTATATGAAAAATGTTCGA 57.387 32.000 0.00 0.00 0.00 3.71
4706 4848 8.850454 AATCCGGTTTATATGAAAAATGTTCG 57.150 30.769 0.00 0.00 0.00 3.95
4716 4858 9.768662 GAGTAGGTTTTAATCCGGTTTATATGA 57.231 33.333 0.00 0.00 0.00 2.15
4717 4859 9.774413 AGAGTAGGTTTTAATCCGGTTTATATG 57.226 33.333 0.00 0.00 0.00 1.78
4798 4940 3.834732 GCCGGAGCTTTAGTTCTCA 57.165 52.632 5.05 0.00 35.50 3.27
4815 4957 2.171448 TGGAGAAGGAGAAGGCAATAGC 59.829 50.000 0.00 0.00 41.10 2.97
4816 4958 3.454082 ACTGGAGAAGGAGAAGGCAATAG 59.546 47.826 0.00 0.00 0.00 1.73
4817 4959 3.454858 ACTGGAGAAGGAGAAGGCAATA 58.545 45.455 0.00 0.00 0.00 1.90
4818 4960 2.273619 ACTGGAGAAGGAGAAGGCAAT 58.726 47.619 0.00 0.00 0.00 3.56
4819 4961 1.734655 ACTGGAGAAGGAGAAGGCAA 58.265 50.000 0.00 0.00 0.00 4.52
4820 4962 1.625818 GAACTGGAGAAGGAGAAGGCA 59.374 52.381 0.00 0.00 0.00 4.75
4821 4963 1.065782 GGAACTGGAGAAGGAGAAGGC 60.066 57.143 0.00 0.00 0.00 4.35
4822 4964 2.260822 TGGAACTGGAGAAGGAGAAGG 58.739 52.381 0.00 0.00 0.00 3.46
4823 4965 3.774216 AGATGGAACTGGAGAAGGAGAAG 59.226 47.826 0.00 0.00 0.00 2.85
4824 4966 3.772025 GAGATGGAACTGGAGAAGGAGAA 59.228 47.826 0.00 0.00 0.00 2.87
4825 4967 3.370104 GAGATGGAACTGGAGAAGGAGA 58.630 50.000 0.00 0.00 0.00 3.71
4826 4968 2.100584 CGAGATGGAACTGGAGAAGGAG 59.899 54.545 0.00 0.00 0.00 3.69
4827 4969 2.103373 CGAGATGGAACTGGAGAAGGA 58.897 52.381 0.00 0.00 0.00 3.36
4828 4970 1.137872 CCGAGATGGAACTGGAGAAGG 59.862 57.143 0.00 0.00 42.00 3.46
4829 4971 1.827969 ACCGAGATGGAACTGGAGAAG 59.172 52.381 0.00 0.00 42.00 2.85
4830 4972 1.550524 CACCGAGATGGAACTGGAGAA 59.449 52.381 0.00 0.00 42.00 2.87
4831 4973 1.186200 CACCGAGATGGAACTGGAGA 58.814 55.000 0.00 0.00 42.00 3.71
4832 4974 0.460987 GCACCGAGATGGAACTGGAG 60.461 60.000 0.00 0.00 42.00 3.86
4833 4975 0.904865 AGCACCGAGATGGAACTGGA 60.905 55.000 0.00 0.00 42.00 3.86
4834 4976 0.460987 GAGCACCGAGATGGAACTGG 60.461 60.000 0.00 0.00 42.00 4.00
4835 4977 0.534412 AGAGCACCGAGATGGAACTG 59.466 55.000 0.00 0.00 42.00 3.16
4836 4978 0.820871 GAGAGCACCGAGATGGAACT 59.179 55.000 0.00 0.00 42.00 3.01
4837 4979 0.179097 GGAGAGCACCGAGATGGAAC 60.179 60.000 0.00 0.00 42.00 3.62
4838 4980 0.614697 TGGAGAGCACCGAGATGGAA 60.615 55.000 0.00 0.00 42.00 3.53
4839 4981 1.000359 TGGAGAGCACCGAGATGGA 60.000 57.895 0.00 0.00 42.00 3.41
4840 4982 1.326213 ACTGGAGAGCACCGAGATGG 61.326 60.000 0.00 0.00 46.41 3.51
4841 4983 0.534412 AACTGGAGAGCACCGAGATG 59.466 55.000 0.00 0.00 0.00 2.90
4842 4984 0.820871 GAACTGGAGAGCACCGAGAT 59.179 55.000 0.00 0.00 0.00 2.75
4843 4985 1.251527 GGAACTGGAGAGCACCGAGA 61.252 60.000 0.00 0.00 0.00 4.04
4844 4986 1.216710 GGAACTGGAGAGCACCGAG 59.783 63.158 0.00 0.00 0.00 4.63
4845 4987 1.228894 AGGAACTGGAGAGCACCGA 60.229 57.895 0.00 0.00 37.18 4.69
4846 4988 1.216710 GAGGAACTGGAGAGCACCG 59.783 63.158 0.00 0.00 41.55 4.94
4847 4989 0.907230 AGGAGGAACTGGAGAGCACC 60.907 60.000 0.00 0.00 41.55 5.01
4848 4990 0.534873 GAGGAGGAACTGGAGAGCAC 59.465 60.000 0.00 0.00 41.55 4.40
4849 4991 0.616111 GGAGGAGGAACTGGAGAGCA 60.616 60.000 0.00 0.00 41.55 4.26
4850 4992 1.671901 CGGAGGAGGAACTGGAGAGC 61.672 65.000 0.00 0.00 41.55 4.09
4851 4993 2.499214 CGGAGGAGGAACTGGAGAG 58.501 63.158 0.00 0.00 41.55 3.20
4852 4994 4.766272 CGGAGGAGGAACTGGAGA 57.234 61.111 0.00 0.00 41.55 3.71
4869 5011 1.450312 CATCACTTCCCGGTGCTCC 60.450 63.158 0.00 0.00 37.16 4.70
4870 5012 0.741221 GACATCACTTCCCGGTGCTC 60.741 60.000 0.00 0.00 37.16 4.26
4871 5013 1.194781 AGACATCACTTCCCGGTGCT 61.195 55.000 0.00 0.00 37.16 4.40
4872 5014 1.021390 CAGACATCACTTCCCGGTGC 61.021 60.000 0.00 0.00 37.16 5.01
4873 5015 1.021390 GCAGACATCACTTCCCGGTG 61.021 60.000 0.00 0.00 38.44 4.94
4874 5016 1.296715 GCAGACATCACTTCCCGGT 59.703 57.895 0.00 0.00 0.00 5.28
4875 5017 1.450312 GGCAGACATCACTTCCCGG 60.450 63.158 0.00 0.00 0.00 5.73
4876 5018 0.460987 GAGGCAGACATCACTTCCCG 60.461 60.000 0.00 0.00 0.00 5.14
4877 5019 0.107459 GGAGGCAGACATCACTTCCC 60.107 60.000 0.00 0.00 0.00 3.97
4878 5020 0.615331 TGGAGGCAGACATCACTTCC 59.385 55.000 0.00 0.00 0.00 3.46
4879 5021 2.286872 CATGGAGGCAGACATCACTTC 58.713 52.381 0.00 0.00 0.00 3.01
4880 5022 1.632409 ACATGGAGGCAGACATCACTT 59.368 47.619 0.00 0.00 0.00 3.16
4881 5023 1.209019 GACATGGAGGCAGACATCACT 59.791 52.381 0.00 0.00 0.00 3.41
4882 5024 1.661341 GACATGGAGGCAGACATCAC 58.339 55.000 0.00 0.00 0.00 3.06
4883 5025 0.176449 CGACATGGAGGCAGACATCA 59.824 55.000 0.00 0.00 0.00 3.07
4884 5026 1.156645 GCGACATGGAGGCAGACATC 61.157 60.000 0.00 0.00 0.00 3.06
4885 5027 1.153289 GCGACATGGAGGCAGACAT 60.153 57.895 0.00 0.00 0.00 3.06
4886 5028 2.265739 GCGACATGGAGGCAGACA 59.734 61.111 0.00 0.00 0.00 3.41
4887 5029 2.512515 GGCGACATGGAGGCAGAC 60.513 66.667 10.54 0.00 0.00 3.51
4888 5030 3.002583 TGGCGACATGGAGGCAGA 61.003 61.111 13.41 0.00 38.02 4.26
4889 5031 2.821366 GTGGCGACATGGAGGCAG 60.821 66.667 16.85 0.00 46.14 4.85
4890 5032 4.408821 GGTGGCGACATGGAGGCA 62.409 66.667 13.41 13.41 46.14 4.75
4891 5033 3.918253 TTGGTGGCGACATGGAGGC 62.918 63.158 0.00 8.87 46.14 4.70
4892 5034 1.746615 CTTGGTGGCGACATGGAGG 60.747 63.158 0.00 0.00 46.14 4.30
4893 5035 2.401766 GCTTGGTGGCGACATGGAG 61.402 63.158 0.00 0.00 46.14 3.86
4894 5036 2.359850 GCTTGGTGGCGACATGGA 60.360 61.111 0.00 0.00 46.14 3.41
4914 5056 0.591741 GGACATCGACGAGCGGTTAG 60.592 60.000 3.01 0.00 41.33 2.34
4915 5057 1.307355 TGGACATCGACGAGCGGTTA 61.307 55.000 3.01 0.00 41.33 2.85
4916 5058 2.181021 GGACATCGACGAGCGGTT 59.819 61.111 3.01 0.00 41.33 4.44
4917 5059 3.052620 CTGGACATCGACGAGCGGT 62.053 63.158 3.01 1.25 41.33 5.68
4918 5060 2.278206 CTGGACATCGACGAGCGG 60.278 66.667 3.01 0.00 41.33 5.52
4919 5061 2.951745 GCTGGACATCGACGAGCG 60.952 66.667 3.01 0.00 42.69 5.03
4920 5062 1.587613 GAGCTGGACATCGACGAGC 60.588 63.158 3.01 0.00 38.90 5.03
4921 5063 0.524392 GTGAGCTGGACATCGACGAG 60.524 60.000 3.01 0.00 0.00 4.18
4922 5064 1.506718 GTGAGCTGGACATCGACGA 59.493 57.895 0.00 0.00 0.00 4.20
4923 5065 1.517257 GGTGAGCTGGACATCGACG 60.517 63.158 0.00 0.00 0.00 5.12
4924 5066 0.037326 TTGGTGAGCTGGACATCGAC 60.037 55.000 0.00 0.00 0.00 4.20
4925 5067 0.247460 CTTGGTGAGCTGGACATCGA 59.753 55.000 0.00 0.00 0.00 3.59
4926 5068 2.759783 CTTGGTGAGCTGGACATCG 58.240 57.895 0.00 0.00 0.00 3.84
4943 5085 0.324091 CCTCCCATTGAAGCCAAGCT 60.324 55.000 0.00 0.00 42.56 3.74
4944 5086 1.325476 CCCTCCCATTGAAGCCAAGC 61.325 60.000 0.00 0.00 35.48 4.01
4945 5087 0.685458 CCCCTCCCATTGAAGCCAAG 60.685 60.000 0.00 0.00 35.48 3.61
4946 5088 1.145900 TCCCCTCCCATTGAAGCCAA 61.146 55.000 0.00 0.00 36.61 4.52
4947 5089 1.145900 TTCCCCTCCCATTGAAGCCA 61.146 55.000 0.00 0.00 0.00 4.75
4948 5090 0.396278 CTTCCCCTCCCATTGAAGCC 60.396 60.000 0.00 0.00 0.00 4.35
4949 5091 0.625849 TCTTCCCCTCCCATTGAAGC 59.374 55.000 0.00 0.00 35.35 3.86
4950 5092 1.409381 GCTCTTCCCCTCCCATTGAAG 60.409 57.143 0.00 0.00 36.42 3.02
4951 5093 0.625849 GCTCTTCCCCTCCCATTGAA 59.374 55.000 0.00 0.00 0.00 2.69
4952 5094 1.626356 CGCTCTTCCCCTCCCATTGA 61.626 60.000 0.00 0.00 0.00 2.57
4953 5095 1.153086 CGCTCTTCCCCTCCCATTG 60.153 63.158 0.00 0.00 0.00 2.82
4954 5096 2.378634 CCGCTCTTCCCCTCCCATT 61.379 63.158 0.00 0.00 0.00 3.16
4955 5097 2.770048 CCGCTCTTCCCCTCCCAT 60.770 66.667 0.00 0.00 0.00 4.00
4956 5098 4.332543 ACCGCTCTTCCCCTCCCA 62.333 66.667 0.00 0.00 0.00 4.37
4957 5099 3.787001 CACCGCTCTTCCCCTCCC 61.787 72.222 0.00 0.00 0.00 4.30
4958 5100 3.787001 CCACCGCTCTTCCCCTCC 61.787 72.222 0.00 0.00 0.00 4.30
4959 5101 4.475135 GCCACCGCTCTTCCCCTC 62.475 72.222 0.00 0.00 0.00 4.30
4962 5104 3.978571 GAAGGCCACCGCTCTTCCC 62.979 68.421 5.01 0.00 36.81 3.97
4963 5105 2.436824 GAAGGCCACCGCTCTTCC 60.437 66.667 5.01 0.00 36.81 3.46
4964 5106 1.078143 ATGAAGGCCACCGCTCTTC 60.078 57.895 5.01 0.00 40.17 2.87
4965 5107 1.377725 CATGAAGGCCACCGCTCTT 60.378 57.895 5.01 0.00 34.44 2.85
4966 5108 2.270205 CATGAAGGCCACCGCTCT 59.730 61.111 5.01 0.00 34.44 4.09
4967 5109 2.825836 CCATGAAGGCCACCGCTC 60.826 66.667 5.01 0.00 34.44 5.03
4968 5110 4.431131 CCCATGAAGGCCACCGCT 62.431 66.667 5.01 0.00 35.39 5.52
4969 5111 3.936772 TTCCCATGAAGGCCACCGC 62.937 63.158 5.01 0.00 35.39 5.68
4970 5112 1.076777 ATTCCCATGAAGGCCACCG 60.077 57.895 5.01 0.00 33.05 4.94
4971 5113 1.103398 CGATTCCCATGAAGGCCACC 61.103 60.000 5.01 0.00 33.05 4.61
4972 5114 0.107214 TCGATTCCCATGAAGGCCAC 60.107 55.000 5.01 0.00 33.05 5.01
4973 5115 0.181114 CTCGATTCCCATGAAGGCCA 59.819 55.000 5.01 0.00 33.05 5.36
4974 5116 1.169034 GCTCGATTCCCATGAAGGCC 61.169 60.000 0.00 0.00 33.05 5.19
4975 5117 1.502163 CGCTCGATTCCCATGAAGGC 61.502 60.000 0.00 0.00 33.05 4.35
4976 5118 0.179073 ACGCTCGATTCCCATGAAGG 60.179 55.000 0.00 0.00 33.05 3.46
4977 5119 1.212616 GACGCTCGATTCCCATGAAG 58.787 55.000 0.00 0.00 33.05 3.02
4978 5120 0.527600 CGACGCTCGATTCCCATGAA 60.528 55.000 0.00 0.00 43.74 2.57
4979 5121 1.065764 CGACGCTCGATTCCCATGA 59.934 57.895 0.00 0.00 43.74 3.07
4980 5122 1.951130 CCGACGCTCGATTCCCATG 60.951 63.158 8.63 0.00 43.74 3.66
4981 5123 2.417516 CCGACGCTCGATTCCCAT 59.582 61.111 8.63 0.00 43.74 4.00
4982 5124 4.508128 GCCGACGCTCGATTCCCA 62.508 66.667 8.63 0.00 43.74 4.37
4984 5126 4.547905 TCGCCGACGCTCGATTCC 62.548 66.667 8.63 0.00 43.74 3.01
4985 5127 3.313257 GTCGCCGACGCTCGATTC 61.313 66.667 0.00 0.00 43.74 2.52
4986 5128 4.849329 GGTCGCCGACGCTCGATT 62.849 66.667 11.60 0.00 43.74 3.34
4989 5131 4.883300 GTAGGTCGCCGACGCTCG 62.883 72.222 11.60 0.00 39.84 5.03
4990 5132 1.505477 ATAGTAGGTCGCCGACGCTC 61.505 60.000 11.60 3.77 39.84 5.03
4991 5133 1.525535 ATAGTAGGTCGCCGACGCT 60.526 57.895 11.60 11.75 39.84 5.07
4992 5134 1.370172 CATAGTAGGTCGCCGACGC 60.370 63.158 11.60 4.40 39.84 5.19
4993 5135 1.370172 GCATAGTAGGTCGCCGACG 60.370 63.158 11.60 0.00 42.01 5.12
4994 5136 0.594284 GTGCATAGTAGGTCGCCGAC 60.594 60.000 9.15 9.15 0.00 4.79
4995 5137 0.750546 AGTGCATAGTAGGTCGCCGA 60.751 55.000 0.00 0.00 0.00 5.54
4996 5138 0.949397 TAGTGCATAGTAGGTCGCCG 59.051 55.000 0.00 0.00 0.00 6.46
4997 5139 1.955080 AGTAGTGCATAGTAGGTCGCC 59.045 52.381 0.00 0.00 0.00 5.54
4998 5140 2.879646 AGAGTAGTGCATAGTAGGTCGC 59.120 50.000 0.00 0.00 0.00 5.19
4999 5141 4.817464 AGAAGAGTAGTGCATAGTAGGTCG 59.183 45.833 0.00 0.00 0.00 4.79
5000 5142 6.512091 CGAAGAAGAGTAGTGCATAGTAGGTC 60.512 46.154 0.00 0.00 0.00 3.85
5001 5143 5.297278 CGAAGAAGAGTAGTGCATAGTAGGT 59.703 44.000 0.00 0.00 0.00 3.08
5002 5144 5.753744 CGAAGAAGAGTAGTGCATAGTAGG 58.246 45.833 0.00 0.00 0.00 3.18
5003 5145 5.008217 AGCGAAGAAGAGTAGTGCATAGTAG 59.992 44.000 0.00 0.00 0.00 2.57
5004 5146 4.882427 AGCGAAGAAGAGTAGTGCATAGTA 59.118 41.667 0.00 0.00 0.00 1.82
5005 5147 3.697045 AGCGAAGAAGAGTAGTGCATAGT 59.303 43.478 0.00 0.00 0.00 2.12
5006 5148 4.041049 CAGCGAAGAAGAGTAGTGCATAG 58.959 47.826 0.00 0.00 0.00 2.23
5007 5149 3.444034 ACAGCGAAGAAGAGTAGTGCATA 59.556 43.478 0.00 0.00 0.00 3.14
5008 5150 2.232452 ACAGCGAAGAAGAGTAGTGCAT 59.768 45.455 0.00 0.00 0.00 3.96
5009 5151 1.613925 ACAGCGAAGAAGAGTAGTGCA 59.386 47.619 0.00 0.00 0.00 4.57
5010 5152 2.255316 GACAGCGAAGAAGAGTAGTGC 58.745 52.381 0.00 0.00 0.00 4.40
5011 5153 2.510874 CGACAGCGAAGAAGAGTAGTG 58.489 52.381 0.00 0.00 40.82 2.74
5012 5154 2.904011 CGACAGCGAAGAAGAGTAGT 57.096 50.000 0.00 0.00 40.82 2.73


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

AutoCloner maintained by Alex Coulton.