Multiple sequence alignment - TraesCS7B01G275900

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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 TraesCS7B01G275900 chr7B 100.000 4789 0 0 1 4789 505223907 505219119 0.000000e+00 8844.0
1 TraesCS7B01G275900 chr7B 81.197 351 65 1 4430 4780 722737598 722737249 1.010000e-71 281.0
2 TraesCS7B01G275900 chr7B 100.000 31 0 0 2369 2399 505221454 505221424 1.860000e-04 58.4
3 TraesCS7B01G275900 chr5A 99.477 4398 21 2 1 4396 457097417 457101814 0.000000e+00 7993.0
4 TraesCS7B01G275900 chr5A 88.041 485 49 7 2632 3110 390558240 390558721 2.500000e-157 566.0
5 TraesCS7B01G275900 chr5A 100.000 31 0 0 2369 2399 457099871 457099901 1.860000e-04 58.4
6 TraesCS7B01G275900 chr3B 97.973 2220 33 7 1 2214 782216177 782213964 0.000000e+00 3840.0
7 TraesCS7B01G275900 chr3B 97.836 2218 37 8 1 2214 782299397 782297187 0.000000e+00 3819.0
8 TraesCS7B01G275900 chr3B 97.792 2219 38 7 1 2214 782257585 782255373 0.000000e+00 3816.0
9 TraesCS7B01G275900 chr3B 97.742 2170 34 8 51 2214 782175031 782172871 0.000000e+00 3722.0
10 TraesCS7B01G275900 chr3B 95.932 2188 51 21 2244 4397 782172875 782170692 0.000000e+00 3513.0
11 TraesCS7B01G275900 chr3B 95.887 2188 53 20 2244 4397 782255377 782253193 0.000000e+00 3507.0
12 TraesCS7B01G275900 chr3B 95.750 2188 50 21 2244 4397 782297191 782295013 0.000000e+00 3485.0
13 TraesCS7B01G275900 chr3B 95.658 2188 52 21 2244 4397 782213968 782211790 0.000000e+00 3474.0
14 TraesCS7B01G275900 chr3B 83.191 351 58 1 4430 4780 77802381 77802032 2.150000e-83 320.0
15 TraesCS7B01G275900 chr3B 84.071 113 18 0 4651 4763 608037671 608037559 5.070000e-20 110.0
16 TraesCS7B01G275900 chr3B 100.000 29 0 0 4592 4620 601169102 601169130 2.000000e-03 54.7
17 TraesCS7B01G275900 chr5D 99.561 1821 7 1 1 1820 468181622 468179802 0.000000e+00 3317.0
18 TraesCS7B01G275900 chr5D 100.000 163 0 0 2446 2608 468179801 468179639 7.790000e-78 302.0
19 TraesCS7B01G275900 chr5D 100.000 31 0 0 2369 2399 468179793 468179763 1.860000e-04 58.4
20 TraesCS7B01G275900 chr4B 99.561 1821 7 1 1 1820 42253589 42255409 0.000000e+00 3317.0
21 TraesCS7B01G275900 chr4B 99.143 1167 10 0 3231 4397 42255569 42256735 0.000000e+00 2100.0
22 TraesCS7B01G275900 chr4B 100.000 163 0 0 2446 2608 42255410 42255572 7.790000e-78 302.0
23 TraesCS7B01G275900 chr4B 100.000 31 0 0 2369 2399 42255418 42255448 1.860000e-04 58.4
24 TraesCS7B01G275900 chr7D 99.559 1813 7 1 1 1812 64828331 64826519 0.000000e+00 3302.0
25 TraesCS7B01G275900 chr7D 100.000 31 0 0 2369 2399 64826259 64826229 1.860000e-04 58.4
26 TraesCS7B01G275900 chr4D 99.559 1813 7 1 1 1812 505351034 505349222 0.000000e+00 3302.0
27 TraesCS7B01G275900 chr4D 99.061 1172 11 0 3234 4405 505348746 505347575 0.000000e+00 2104.0
28 TraesCS7B01G275900 chr4D 100.000 163 0 0 2446 2608 505348908 505348746 7.790000e-78 302.0
29 TraesCS7B01G275900 chr4D 100.000 31 0 0 2369 2399 505348900 505348870 1.860000e-04 58.4
30 TraesCS7B01G275900 chr2A 88.943 2252 166 35 2187 4391 21632127 21634342 0.000000e+00 2702.0
31 TraesCS7B01G275900 chr4A 99.502 1405 7 0 2992 4396 27194815 27193411 0.000000e+00 2556.0
32 TraesCS7B01G275900 chr4A 90.769 1820 137 16 2587 4395 698013245 698011446 0.000000e+00 2401.0
33 TraesCS7B01G275900 chr4A 84.593 344 52 1 4432 4775 67840637 67840979 1.650000e-89 340.0
34 TraesCS7B01G275900 chr4A 83.898 354 56 1 4427 4780 69374486 69374838 2.140000e-88 337.0
35 TraesCS7B01G275900 chr3D 99.227 1164 9 0 3234 4397 562176038 562174875 0.000000e+00 2100.0
36 TraesCS7B01G275900 chr3D 100.000 163 0 0 2446 2608 562176200 562176038 7.790000e-78 302.0
37 TraesCS7B01G275900 chr3D 100.000 31 0 0 2369 2399 562176192 562176162 1.860000e-04 58.4
38 TraesCS7B01G275900 chr7A 87.835 485 50 7 2632 3110 31809315 31809796 1.160000e-155 560.0
39 TraesCS7B01G275900 chr6B 87.835 485 50 7 2632 3110 532352527 532353008 1.160000e-155 560.0
40 TraesCS7B01G275900 chr6B 90.582 361 34 0 4428 4788 156076642 156076282 3.350000e-131 479.0
41 TraesCS7B01G275900 chr6A 84.241 349 54 1 4432 4780 567917751 567918098 5.940000e-89 339.0
42 TraesCS7B01G275900 chr2B 82.051 351 62 1 4430 4780 66101638 66101289 1.010000e-76 298.0
43 TraesCS7B01G275900 chr2B 86.364 154 21 0 4610 4763 694344729 694344882 8.240000e-38 169.0
44 TraesCS7B01G275900 chr3A 100.000 31 0 0 2369 2399 690944333 690944363 1.860000e-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 TraesCS7B01G275900 chr7B 505219119 505223907 4788 True 4451.200000 8844 100.000000 1 4789 2 chr7B.!!$R2 4788
1 TraesCS7B01G275900 chr5A 457097417 457101814 4397 False 4025.700000 7993 99.738500 1 4396 2 chr5A.!!$F2 4395
2 TraesCS7B01G275900 chr3B 782253193 782257585 4392 True 3661.500000 3816 96.839500 1 4397 2 chr3B.!!$R5 4396
3 TraesCS7B01G275900 chr3B 782211790 782216177 4387 True 3657.000000 3840 96.815500 1 4397 2 chr3B.!!$R4 4396
4 TraesCS7B01G275900 chr3B 782295013 782299397 4384 True 3652.000000 3819 96.793000 1 4397 2 chr3B.!!$R6 4396
5 TraesCS7B01G275900 chr3B 782170692 782175031 4339 True 3617.500000 3722 96.837000 51 4397 2 chr3B.!!$R3 4346
6 TraesCS7B01G275900 chr5D 468179639 468181622 1983 True 1225.800000 3317 99.853667 1 2608 3 chr5D.!!$R1 2607
7 TraesCS7B01G275900 chr4B 42253589 42256735 3146 False 1444.350000 3317 99.676000 1 4397 4 chr4B.!!$F1 4396
8 TraesCS7B01G275900 chr7D 64826229 64828331 2102 True 1680.200000 3302 99.779500 1 2399 2 chr7D.!!$R1 2398
9 TraesCS7B01G275900 chr4D 505347575 505351034 3459 True 1441.600000 3302 99.655000 1 4405 4 chr4D.!!$R1 4404
10 TraesCS7B01G275900 chr2A 21632127 21634342 2215 False 2702.000000 2702 88.943000 2187 4391 1 chr2A.!!$F1 2204
11 TraesCS7B01G275900 chr4A 27193411 27194815 1404 True 2556.000000 2556 99.502000 2992 4396 1 chr4A.!!$R1 1404
12 TraesCS7B01G275900 chr4A 698011446 698013245 1799 True 2401.000000 2401 90.769000 2587 4395 1 chr4A.!!$R2 1808
13 TraesCS7B01G275900 chr3D 562174875 562176200 1325 True 820.133333 2100 99.742333 2369 4397 3 chr3D.!!$R1 2028

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
206 208 8.958043 GTGATATAAAAGGCACGATTGATTTTC 58.042 33.333 0.0 0.00 30.28 2.29 F
1915 2230 2.095567 CAGCTCACCATTAGTGCAACAC 60.096 50.000 0.0 0.00 46.81 3.32 F
2131 2446 4.416620 AGTCGCTTCAAGATTCTTACTCG 58.583 43.478 0.0 1.66 0.00 4.18 F
3482 3844 2.967887 AGCAAACAAGAAGGGCAAGATT 59.032 40.909 0.0 0.00 0.00 2.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2131 2446 3.945640 TTAAAGGTATGAAGGGCCTCC 57.054 47.619 6.46 2.59 0.00 4.30 R
3482 3844 5.221986 ACTGGCTGCCATATCATCATTAGAA 60.222 40.000 23.64 0.00 30.82 2.10 R
3568 3930 6.012337 TCCAAAGGTTTGCATATGGATCTA 57.988 37.500 4.56 0.00 36.86 1.98 R
4685 5061 0.030101 TTGCAAGAAAAAGCGGGTCG 59.970 50.000 0.00 0.00 0.00 4.79 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
206 208 8.958043 GTGATATAAAAGGCACGATTGATTTTC 58.042 33.333 0.00 0.00 30.28 2.29
1915 2230 2.095567 CAGCTCACCATTAGTGCAACAC 60.096 50.000 0.00 0.00 46.81 3.32
2131 2446 4.416620 AGTCGCTTCAAGATTCTTACTCG 58.583 43.478 0.00 1.66 0.00 4.18
3482 3844 2.967887 AGCAAACAAGAAGGGCAAGATT 59.032 40.909 0.00 0.00 0.00 2.40
4157 4533 8.144478 GTCATGTGATATATGTGAGGTAGTGTT 58.856 37.037 0.00 0.00 0.00 3.32
4378 4754 0.645496 TTGGTAGGGCTAGATGGGGA 59.355 55.000 0.00 0.00 0.00 4.81
4398 4774 3.447229 GGAACAATCCAAACATACCCTGG 59.553 47.826 0.00 0.00 45.79 4.45
4402 4778 4.230502 ACAATCCAAACATACCCTGGATCT 59.769 41.667 3.41 0.00 46.93 2.75
4405 4781 3.202151 TCCAAACATACCCTGGATCTTCC 59.798 47.826 0.00 0.00 34.26 3.46
4406 4782 3.555966 CAAACATACCCTGGATCTTCCC 58.444 50.000 0.00 0.00 35.03 3.97
4407 4783 2.897823 ACATACCCTGGATCTTCCCT 57.102 50.000 0.00 0.00 35.03 4.20
4408 4784 2.695585 ACATACCCTGGATCTTCCCTC 58.304 52.381 0.00 0.00 35.03 4.30
4409 4785 1.981495 CATACCCTGGATCTTCCCTCC 59.019 57.143 0.00 0.00 35.03 4.30
4410 4786 1.023719 TACCCTGGATCTTCCCTCCA 58.976 55.000 0.00 0.00 40.49 3.86
4411 4787 0.348370 ACCCTGGATCTTCCCTCCAT 59.652 55.000 0.00 0.00 41.83 3.41
4412 4788 0.769873 CCCTGGATCTTCCCTCCATG 59.230 60.000 0.00 0.00 41.83 3.66
4413 4789 1.696965 CCCTGGATCTTCCCTCCATGA 60.697 57.143 0.00 0.00 41.83 3.07
4414 4790 2.130193 CCTGGATCTTCCCTCCATGAA 58.870 52.381 0.00 0.00 41.83 2.57
4415 4791 2.158696 CCTGGATCTTCCCTCCATGAAC 60.159 54.545 0.00 0.00 41.83 3.18
4416 4792 2.776536 CTGGATCTTCCCTCCATGAACT 59.223 50.000 0.00 0.00 41.83 3.01
4417 4793 3.192944 TGGATCTTCCCTCCATGAACTT 58.807 45.455 0.00 0.00 37.87 2.66
4418 4794 3.054139 TGGATCTTCCCTCCATGAACTTG 60.054 47.826 0.00 0.00 37.87 3.16
4419 4795 3.200825 GGATCTTCCCTCCATGAACTTGA 59.799 47.826 0.00 0.00 32.72 3.02
4420 4796 4.324563 GGATCTTCCCTCCATGAACTTGAA 60.325 45.833 0.00 0.00 32.72 2.69
4421 4797 4.292186 TCTTCCCTCCATGAACTTGAAG 57.708 45.455 0.00 0.16 0.00 3.02
4422 4798 3.652869 TCTTCCCTCCATGAACTTGAAGT 59.347 43.478 0.00 0.00 31.90 3.01
4423 4799 3.703001 TCCCTCCATGAACTTGAAGTC 57.297 47.619 0.00 0.00 0.00 3.01
4424 4800 2.028112 TCCCTCCATGAACTTGAAGTCG 60.028 50.000 0.00 0.00 0.00 4.18
4425 4801 2.289694 CCCTCCATGAACTTGAAGTCGT 60.290 50.000 0.00 0.00 0.00 4.34
4426 4802 2.738846 CCTCCATGAACTTGAAGTCGTG 59.261 50.000 0.00 4.41 0.00 4.35
4427 4803 2.143122 TCCATGAACTTGAAGTCGTGC 58.857 47.619 0.00 0.00 0.00 5.34
4428 4804 1.197721 CCATGAACTTGAAGTCGTGCC 59.802 52.381 0.00 0.00 0.00 5.01
4429 4805 2.146342 CATGAACTTGAAGTCGTGCCT 58.854 47.619 0.00 0.00 0.00 4.75
4430 4806 1.865865 TGAACTTGAAGTCGTGCCTC 58.134 50.000 0.00 0.00 0.00 4.70
4431 4807 1.412710 TGAACTTGAAGTCGTGCCTCT 59.587 47.619 0.00 0.00 0.00 3.69
4432 4808 1.795286 GAACTTGAAGTCGTGCCTCTG 59.205 52.381 0.00 0.00 0.00 3.35
4433 4809 0.753262 ACTTGAAGTCGTGCCTCTGT 59.247 50.000 0.00 0.00 0.00 3.41
4434 4810 1.139058 ACTTGAAGTCGTGCCTCTGTT 59.861 47.619 0.00 0.00 0.00 3.16
4435 4811 1.795286 CTTGAAGTCGTGCCTCTGTTC 59.205 52.381 0.00 0.00 0.00 3.18
4436 4812 0.033504 TGAAGTCGTGCCTCTGTTCC 59.966 55.000 0.00 0.00 0.00 3.62
4437 4813 0.318762 GAAGTCGTGCCTCTGTTCCT 59.681 55.000 0.00 0.00 0.00 3.36
4438 4814 0.034059 AAGTCGTGCCTCTGTTCCTG 59.966 55.000 0.00 0.00 0.00 3.86
4439 4815 1.115930 AGTCGTGCCTCTGTTCCTGT 61.116 55.000 0.00 0.00 0.00 4.00
4440 4816 0.946221 GTCGTGCCTCTGTTCCTGTG 60.946 60.000 0.00 0.00 0.00 3.66
4441 4817 1.669115 CGTGCCTCTGTTCCTGTGG 60.669 63.158 0.00 0.00 0.00 4.17
4442 4818 1.451936 GTGCCTCTGTTCCTGTGGT 59.548 57.895 0.00 0.00 0.00 4.16
4443 4819 0.179018 GTGCCTCTGTTCCTGTGGTT 60.179 55.000 0.00 0.00 0.00 3.67
4444 4820 0.179020 TGCCTCTGTTCCTGTGGTTG 60.179 55.000 0.00 0.00 0.00 3.77
4445 4821 1.518903 GCCTCTGTTCCTGTGGTTGC 61.519 60.000 0.00 0.00 0.00 4.17
4446 4822 1.230635 CCTCTGTTCCTGTGGTTGCG 61.231 60.000 0.00 0.00 0.00 4.85
4447 4823 1.227823 TCTGTTCCTGTGGTTGCGG 60.228 57.895 0.00 0.00 0.00 5.69
4448 4824 2.203280 TGTTCCTGTGGTTGCGGG 60.203 61.111 0.00 0.00 36.25 6.13
4449 4825 3.670377 GTTCCTGTGGTTGCGGGC 61.670 66.667 0.00 0.00 34.92 6.13
4461 4837 3.730761 GCGGGCGCATCCATGATC 61.731 66.667 10.83 0.00 41.49 2.92
4462 4838 3.052082 CGGGCGCATCCATGATCC 61.052 66.667 10.83 0.00 36.21 3.36
4463 4839 3.052082 GGGCGCATCCATGATCCG 61.052 66.667 10.83 0.00 36.21 4.18
4464 4840 3.730761 GGCGCATCCATGATCCGC 61.731 66.667 10.83 3.88 43.51 5.54
4465 4841 2.667536 GCGCATCCATGATCCGCT 60.668 61.111 0.30 0.00 41.28 5.52
4466 4842 2.962827 GCGCATCCATGATCCGCTG 61.963 63.158 0.30 0.00 41.28 5.18
4467 4843 2.322830 CGCATCCATGATCCGCTGG 61.323 63.158 0.00 0.00 0.00 4.85
4468 4844 2.623915 GCATCCATGATCCGCTGGC 61.624 63.158 0.00 0.00 32.30 4.85
4469 4845 1.970114 CATCCATGATCCGCTGGCC 60.970 63.158 0.00 0.00 32.30 5.36
4470 4846 3.541950 ATCCATGATCCGCTGGCCG 62.542 63.158 0.00 0.00 32.30 6.13
4472 4848 4.923942 CATGATCCGCTGGCCGCT 62.924 66.667 15.78 0.00 36.13 5.52
4473 4849 4.181010 ATGATCCGCTGGCCGCTT 62.181 61.111 15.78 2.99 36.13 4.68
4474 4850 3.704231 ATGATCCGCTGGCCGCTTT 62.704 57.895 15.78 2.69 36.13 3.51
4475 4851 2.203015 GATCCGCTGGCCGCTTTA 60.203 61.111 15.78 3.69 36.13 1.85
4476 4852 2.203070 ATCCGCTGGCCGCTTTAG 60.203 61.111 15.78 0.46 36.13 1.85
4479 4855 3.567797 CGCTGGCCGCTTTAGCTC 61.568 66.667 15.78 0.00 39.32 4.09
4480 4856 3.567797 GCTGGCCGCTTTAGCTCG 61.568 66.667 11.61 0.00 39.32 5.03
4481 4857 3.567797 CTGGCCGCTTTAGCTCGC 61.568 66.667 0.00 1.57 39.32 5.03
4483 4859 4.840005 GGCCGCTTTAGCTCGCCT 62.840 66.667 17.55 0.00 45.21 5.52
4484 4860 3.265636 GCCGCTTTAGCTCGCCTC 61.266 66.667 0.00 0.00 39.32 4.70
4485 4861 2.496817 CCGCTTTAGCTCGCCTCT 59.503 61.111 0.00 0.00 39.32 3.69
4486 4862 1.880340 CCGCTTTAGCTCGCCTCTG 60.880 63.158 0.00 0.00 39.32 3.35
4487 4863 2.520904 CGCTTTAGCTCGCCTCTGC 61.521 63.158 0.00 0.00 39.32 4.26
4488 4864 1.153469 GCTTTAGCTCGCCTCTGCT 60.153 57.895 0.00 0.00 42.67 4.24
4489 4865 0.742635 GCTTTAGCTCGCCTCTGCTT 60.743 55.000 0.00 0.00 40.35 3.91
4490 4866 1.285578 CTTTAGCTCGCCTCTGCTTC 58.714 55.000 0.00 0.00 40.35 3.86
4491 4867 0.108138 TTTAGCTCGCCTCTGCTTCC 60.108 55.000 0.00 0.00 40.35 3.46
4492 4868 1.257750 TTAGCTCGCCTCTGCTTCCA 61.258 55.000 0.00 0.00 40.35 3.53
4493 4869 1.949847 TAGCTCGCCTCTGCTTCCAC 61.950 60.000 0.00 0.00 40.35 4.02
4494 4870 2.659016 CTCGCCTCTGCTTCCACA 59.341 61.111 0.00 0.00 34.43 4.17
4495 4871 1.739562 CTCGCCTCTGCTTCCACAC 60.740 63.158 0.00 0.00 34.43 3.82
4496 4872 2.031012 CGCCTCTGCTTCCACACA 59.969 61.111 0.00 0.00 34.43 3.72
4497 4873 2.320587 CGCCTCTGCTTCCACACAC 61.321 63.158 0.00 0.00 34.43 3.82
4498 4874 1.072159 GCCTCTGCTTCCACACACT 59.928 57.895 0.00 0.00 33.53 3.55
4499 4875 1.233285 GCCTCTGCTTCCACACACTG 61.233 60.000 0.00 0.00 33.53 3.66
4500 4876 1.233285 CCTCTGCTTCCACACACTGC 61.233 60.000 0.00 0.00 0.00 4.40
4501 4877 0.533531 CTCTGCTTCCACACACTGCA 60.534 55.000 0.00 0.00 0.00 4.41
4502 4878 1.947013 CTGCTTCCACACACTGCAG 59.053 57.895 13.48 13.48 43.71 4.41
4503 4879 1.512996 CTGCTTCCACACACTGCAGG 61.513 60.000 19.93 9.66 44.95 4.85
4504 4880 2.263741 GCTTCCACACACTGCAGGG 61.264 63.158 16.28 16.28 0.00 4.45
4505 4881 2.203337 TTCCACACACTGCAGGGC 60.203 61.111 18.07 0.00 0.00 5.19
4506 4882 3.790416 TTCCACACACTGCAGGGCC 62.790 63.158 18.07 0.00 0.00 5.80
4507 4883 4.584518 CCACACACTGCAGGGCCA 62.585 66.667 18.07 0.00 0.00 5.36
4508 4884 2.282674 CACACACTGCAGGGCCAT 60.283 61.111 18.07 0.00 0.00 4.40
4509 4885 2.034687 ACACACTGCAGGGCCATC 59.965 61.111 18.07 0.00 0.00 3.51
4510 4886 2.353958 CACACTGCAGGGCCATCT 59.646 61.111 18.07 0.00 0.00 2.90
4511 4887 1.303888 CACACTGCAGGGCCATCTT 60.304 57.895 18.07 0.00 0.00 2.40
4512 4888 1.001641 ACACTGCAGGGCCATCTTC 60.002 57.895 18.07 0.00 0.00 2.87
4513 4889 1.751927 CACTGCAGGGCCATCTTCC 60.752 63.158 19.93 0.00 0.00 3.46
4514 4890 1.927527 ACTGCAGGGCCATCTTCCT 60.928 57.895 19.93 0.00 0.00 3.36
4515 4891 0.621571 ACTGCAGGGCCATCTTCCTA 60.622 55.000 19.93 0.00 0.00 2.94
4516 4892 0.179034 CTGCAGGGCCATCTTCCTAC 60.179 60.000 6.18 0.00 0.00 3.18
4517 4893 1.149401 GCAGGGCCATCTTCCTACC 59.851 63.158 6.18 0.00 0.00 3.18
4518 4894 1.447643 CAGGGCCATCTTCCTACCG 59.552 63.158 6.18 0.00 0.00 4.02
4519 4895 1.003051 AGGGCCATCTTCCTACCGT 59.997 57.895 6.18 0.00 0.00 4.83
4520 4896 1.049289 AGGGCCATCTTCCTACCGTC 61.049 60.000 6.18 0.00 0.00 4.79
4521 4897 1.335132 GGGCCATCTTCCTACCGTCA 61.335 60.000 4.39 0.00 0.00 4.35
4522 4898 0.179081 GGCCATCTTCCTACCGTCAC 60.179 60.000 0.00 0.00 0.00 3.67
4523 4899 0.179081 GCCATCTTCCTACCGTCACC 60.179 60.000 0.00 0.00 0.00 4.02
4524 4900 0.102481 CCATCTTCCTACCGTCACCG 59.898 60.000 0.00 0.00 0.00 4.94
4550 4926 2.496817 CTGCCGGACTACAGCTCC 59.503 66.667 5.05 0.00 0.00 4.70
4551 4927 2.283604 TGCCGGACTACAGCTCCA 60.284 61.111 5.05 0.00 0.00 3.86
4552 4928 2.184579 GCCGGACTACAGCTCCAC 59.815 66.667 5.05 0.00 0.00 4.02
4553 4929 2.352032 GCCGGACTACAGCTCCACT 61.352 63.158 5.05 0.00 0.00 4.00
4554 4930 1.889530 GCCGGACTACAGCTCCACTT 61.890 60.000 5.05 0.00 0.00 3.16
4555 4931 0.173708 CCGGACTACAGCTCCACTTC 59.826 60.000 0.00 0.00 0.00 3.01
4556 4932 0.173708 CGGACTACAGCTCCACTTCC 59.826 60.000 0.00 0.00 0.00 3.46
4557 4933 0.537653 GGACTACAGCTCCACTTCCC 59.462 60.000 0.00 0.00 0.00 3.97
4558 4934 1.267121 GACTACAGCTCCACTTCCCA 58.733 55.000 0.00 0.00 0.00 4.37
4559 4935 0.977395 ACTACAGCTCCACTTCCCAC 59.023 55.000 0.00 0.00 0.00 4.61
4560 4936 1.270907 CTACAGCTCCACTTCCCACT 58.729 55.000 0.00 0.00 0.00 4.00
4561 4937 2.225293 ACTACAGCTCCACTTCCCACTA 60.225 50.000 0.00 0.00 0.00 2.74
4562 4938 1.958288 ACAGCTCCACTTCCCACTAT 58.042 50.000 0.00 0.00 0.00 2.12
4563 4939 1.556911 ACAGCTCCACTTCCCACTATG 59.443 52.381 0.00 0.00 0.00 2.23
4564 4940 1.833630 CAGCTCCACTTCCCACTATGA 59.166 52.381 0.00 0.00 0.00 2.15
4565 4941 1.834263 AGCTCCACTTCCCACTATGAC 59.166 52.381 0.00 0.00 0.00 3.06
4566 4942 1.134371 GCTCCACTTCCCACTATGACC 60.134 57.143 0.00 0.00 0.00 4.02
4567 4943 1.486726 CTCCACTTCCCACTATGACCC 59.513 57.143 0.00 0.00 0.00 4.46
4568 4944 0.178068 CCACTTCCCACTATGACCCG 59.822 60.000 0.00 0.00 0.00 5.28
4569 4945 0.178068 CACTTCCCACTATGACCCGG 59.822 60.000 0.00 0.00 0.00 5.73
4570 4946 0.252558 ACTTCCCACTATGACCCGGT 60.253 55.000 0.00 0.00 0.00 5.28
4571 4947 0.464452 CTTCCCACTATGACCCGGTC 59.536 60.000 10.96 10.96 0.00 4.79
4572 4948 0.042131 TTCCCACTATGACCCGGTCT 59.958 55.000 18.54 6.90 33.15 3.85
4573 4949 0.042131 TCCCACTATGACCCGGTCTT 59.958 55.000 18.54 14.40 33.15 3.01
4574 4950 0.178068 CCCACTATGACCCGGTCTTG 59.822 60.000 18.54 10.51 33.15 3.02
4575 4951 0.462047 CCACTATGACCCGGTCTTGC 60.462 60.000 18.54 0.00 33.15 4.01
4576 4952 0.462047 CACTATGACCCGGTCTTGCC 60.462 60.000 18.54 0.00 33.15 4.52
4587 4963 1.653151 GGTCTTGCCGAATCACTACC 58.347 55.000 0.00 0.00 0.00 3.18
4588 4964 1.066430 GGTCTTGCCGAATCACTACCA 60.066 52.381 0.00 0.00 0.00 3.25
4589 4965 2.271800 GTCTTGCCGAATCACTACCAG 58.728 52.381 0.00 0.00 0.00 4.00
4590 4966 1.207089 TCTTGCCGAATCACTACCAGG 59.793 52.381 0.00 0.00 0.00 4.45
4591 4967 0.981183 TTGCCGAATCACTACCAGGT 59.019 50.000 0.00 0.00 0.00 4.00
4592 4968 0.535335 TGCCGAATCACTACCAGGTC 59.465 55.000 0.00 0.00 0.00 3.85
4593 4969 0.535335 GCCGAATCACTACCAGGTCA 59.465 55.000 0.00 0.00 0.00 4.02
4594 4970 1.739371 GCCGAATCACTACCAGGTCAC 60.739 57.143 0.00 0.00 0.00 3.67
4595 4971 1.134788 CCGAATCACTACCAGGTCACC 60.135 57.143 0.00 0.00 0.00 4.02
4596 4972 1.469251 CGAATCACTACCAGGTCACCG 60.469 57.143 0.00 0.00 0.00 4.94
4597 4973 0.249398 AATCACTACCAGGTCACCGC 59.751 55.000 0.00 0.00 0.00 5.68
4598 4974 0.614979 ATCACTACCAGGTCACCGCT 60.615 55.000 0.00 0.00 0.00 5.52
4599 4975 1.079819 CACTACCAGGTCACCGCTG 60.080 63.158 0.00 0.00 0.00 5.18
4600 4976 1.228769 ACTACCAGGTCACCGCTGA 60.229 57.895 0.00 0.00 0.00 4.26
4601 4977 1.251527 ACTACCAGGTCACCGCTGAG 61.252 60.000 0.00 0.00 0.00 3.35
4602 4978 2.564553 CTACCAGGTCACCGCTGAGC 62.565 65.000 0.00 1.61 44.07 4.26
4628 5004 4.444838 CGAATCACCGCCGGGTCA 62.445 66.667 8.57 0.00 46.01 4.02
4629 5005 2.818274 GAATCACCGCCGGGTCAC 60.818 66.667 8.57 0.00 46.01 3.67
4630 5006 4.404098 AATCACCGCCGGGTCACC 62.404 66.667 8.57 0.00 46.01 4.02
4640 5016 2.743928 GGGTCACCGCTGAAGCAG 60.744 66.667 2.79 0.00 42.21 4.24
4654 5030 4.543084 GCAGCCTTGCCGATTCGC 62.543 66.667 0.00 0.00 44.74 4.70
4655 5031 3.880846 CAGCCTTGCCGATTCGCC 61.881 66.667 0.00 0.00 0.00 5.54
4664 5040 4.908687 CGATTCGCCCCCGCATCA 62.909 66.667 0.00 0.00 37.02 3.07
4665 5041 2.515991 GATTCGCCCCCGCATCAA 60.516 61.111 0.00 0.00 37.13 2.57
4666 5042 2.516930 ATTCGCCCCCGCATCAAG 60.517 61.111 0.00 0.00 34.03 3.02
4667 5043 4.794648 TTCGCCCCCGCATCAAGG 62.795 66.667 0.00 0.00 34.03 3.61
4675 5051 4.170062 CGCATCAAGGCTGCCGTG 62.170 66.667 25.81 25.81 36.24 4.94
4676 5052 3.818787 GCATCAAGGCTGCCGTGG 61.819 66.667 29.64 18.00 33.92 4.94
4677 5053 3.818787 CATCAAGGCTGCCGTGGC 61.819 66.667 29.64 3.30 42.35 5.01
4695 5071 4.675029 CACGACCCGACCCGCTTT 62.675 66.667 0.00 0.00 0.00 3.51
4696 5072 3.932483 ACGACCCGACCCGCTTTT 61.932 61.111 0.00 0.00 0.00 2.27
4697 5073 2.667199 CGACCCGACCCGCTTTTT 60.667 61.111 0.00 0.00 0.00 1.94
4698 5074 2.674084 CGACCCGACCCGCTTTTTC 61.674 63.158 0.00 0.00 0.00 2.29
4699 5075 1.302271 GACCCGACCCGCTTTTTCT 60.302 57.895 0.00 0.00 0.00 2.52
4700 5076 0.887836 GACCCGACCCGCTTTTTCTT 60.888 55.000 0.00 0.00 0.00 2.52
4701 5077 1.170290 ACCCGACCCGCTTTTTCTTG 61.170 55.000 0.00 0.00 0.00 3.02
4702 5078 1.081442 CCGACCCGCTTTTTCTTGC 60.081 57.895 0.00 0.00 0.00 4.01
4703 5079 1.652012 CGACCCGCTTTTTCTTGCA 59.348 52.632 0.00 0.00 0.00 4.08
4704 5080 0.030101 CGACCCGCTTTTTCTTGCAA 59.970 50.000 0.00 0.00 0.00 4.08
4705 5081 1.770957 GACCCGCTTTTTCTTGCAAG 58.229 50.000 20.81 20.81 0.00 4.01
4706 5082 1.336755 GACCCGCTTTTTCTTGCAAGA 59.663 47.619 25.16 25.16 0.00 3.02
4707 5083 1.338020 ACCCGCTTTTTCTTGCAAGAG 59.662 47.619 27.02 17.45 36.22 2.85
4708 5084 1.336240 CCCGCTTTTTCTTGCAAGAGG 60.336 52.381 27.02 22.39 39.13 3.69
4709 5085 1.336240 CCGCTTTTTCTTGCAAGAGGG 60.336 52.381 27.02 21.98 36.58 4.30
4710 5086 1.338020 CGCTTTTTCTTGCAAGAGGGT 59.662 47.619 27.02 0.00 36.22 4.34
4711 5087 2.747436 GCTTTTTCTTGCAAGAGGGTG 58.253 47.619 27.02 19.24 36.22 4.61
4712 5088 2.747436 CTTTTTCTTGCAAGAGGGTGC 58.253 47.619 27.02 0.00 45.15 5.01
4713 5089 2.071778 TTTTCTTGCAAGAGGGTGCT 57.928 45.000 27.02 0.00 45.17 4.40
4714 5090 1.321474 TTTCTTGCAAGAGGGTGCTG 58.679 50.000 27.02 0.00 45.17 4.41
4715 5091 0.538057 TTCTTGCAAGAGGGTGCTGG 60.538 55.000 27.02 0.00 45.17 4.85
4716 5092 2.598394 TTGCAAGAGGGTGCTGGC 60.598 61.111 0.00 0.00 45.17 4.85
4717 5093 3.137385 TTGCAAGAGGGTGCTGGCT 62.137 57.895 0.00 0.00 45.17 4.75
4718 5094 2.749441 GCAAGAGGGTGCTGGCTC 60.749 66.667 0.00 0.00 41.51 4.70
4719 5095 2.435586 CAAGAGGGTGCTGGCTCG 60.436 66.667 0.00 0.00 0.00 5.03
4720 5096 4.400961 AAGAGGGTGCTGGCTCGC 62.401 66.667 4.02 4.02 0.00 5.03
4732 5108 4.774503 GCTCGCTGCTGCCTTCCT 62.775 66.667 10.24 0.00 38.95 3.36
4733 5109 2.818714 CTCGCTGCTGCCTTCCTG 60.819 66.667 10.24 0.00 35.36 3.86
4736 5112 3.441290 GCTGCTGCCTTCCTGCTG 61.441 66.667 3.85 0.00 38.99 4.41
4737 5113 2.750637 CTGCTGCCTTCCTGCTGG 60.751 66.667 2.58 2.58 38.99 4.85
4743 5119 4.020617 CCTTCCTGCTGGCCACGA 62.021 66.667 0.00 0.00 0.00 4.35
4744 5120 2.743928 CTTCCTGCTGGCCACGAC 60.744 66.667 0.00 0.00 0.00 4.34
4745 5121 4.329545 TTCCTGCTGGCCACGACC 62.330 66.667 0.00 0.00 0.00 4.79
4755 5131 4.849329 CCACGACCGCGCCTCTAC 62.849 72.222 0.00 0.00 42.48 2.59
4756 5132 3.812019 CACGACCGCGCCTCTACT 61.812 66.667 0.00 0.00 42.48 2.57
4757 5133 3.812019 ACGACCGCGCCTCTACTG 61.812 66.667 0.00 0.00 42.48 2.74
4759 5135 3.827898 GACCGCGCCTCTACTGCT 61.828 66.667 0.00 0.00 0.00 4.24
4760 5136 4.135153 ACCGCGCCTCTACTGCTG 62.135 66.667 0.00 0.00 0.00 4.41
4762 5138 4.801624 CGCGCCTCTACTGCTGCA 62.802 66.667 0.00 0.88 0.00 4.41
4763 5139 2.202987 GCGCCTCTACTGCTGCAT 60.203 61.111 1.31 0.00 0.00 3.96
4764 5140 2.532256 GCGCCTCTACTGCTGCATG 61.532 63.158 1.31 0.00 0.00 4.06
4765 5141 1.886313 CGCCTCTACTGCTGCATGG 60.886 63.158 1.31 2.30 0.00 3.66
4766 5142 1.222936 GCCTCTACTGCTGCATGGT 59.777 57.895 1.31 0.61 0.00 3.55
4767 5143 1.094073 GCCTCTACTGCTGCATGGTG 61.094 60.000 1.31 0.00 0.00 4.17
4768 5144 0.538584 CCTCTACTGCTGCATGGTGA 59.461 55.000 1.31 0.00 0.00 4.02
4769 5145 1.472904 CCTCTACTGCTGCATGGTGAG 60.473 57.143 1.31 8.68 0.00 3.51
4770 5146 0.107993 TCTACTGCTGCATGGTGAGC 60.108 55.000 1.31 0.00 35.65 4.26
4771 5147 0.107800 CTACTGCTGCATGGTGAGCT 60.108 55.000 1.31 0.00 36.11 4.09
4772 5148 0.392060 TACTGCTGCATGGTGAGCTG 60.392 55.000 1.31 0.00 39.37 4.24
4775 5151 3.188011 CTGCATGGTGAGCTGCTG 58.812 61.111 7.01 0.00 39.16 4.41
4776 5152 3.052620 CTGCATGGTGAGCTGCTGC 62.053 63.158 7.01 7.62 39.16 5.25
4777 5153 4.175489 GCATGGTGAGCTGCTGCG 62.175 66.667 7.01 0.00 45.42 5.18
4778 5154 4.175489 CATGGTGAGCTGCTGCGC 62.175 66.667 7.01 12.30 45.42 6.09
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1915 2230 5.227152 CCAAGAAAAATTTCCCTACAACCG 58.773 41.667 2.37 0.00 37.92 4.44
2131 2446 3.945640 TTAAAGGTATGAAGGGCCTCC 57.054 47.619 6.46 2.59 0.00 4.30
3482 3844 5.221986 ACTGGCTGCCATATCATCATTAGAA 60.222 40.000 23.64 0.00 30.82 2.10
3568 3930 6.012337 TCCAAAGGTTTGCATATGGATCTA 57.988 37.500 4.56 0.00 36.86 1.98
4157 4533 3.575256 AGCCAAAAAGTGATCAGCATCAA 59.425 39.130 0.00 0.00 40.90 2.57
4378 4754 4.396357 TCCAGGGTATGTTTGGATTGTT 57.604 40.909 0.00 0.00 36.13 2.83
4398 4774 4.494091 TCAAGTTCATGGAGGGAAGATC 57.506 45.455 0.00 0.00 0.00 2.75
4402 4778 3.557054 CGACTTCAAGTTCATGGAGGGAA 60.557 47.826 0.00 0.00 29.52 3.97
4405 4781 2.738846 CACGACTTCAAGTTCATGGAGG 59.261 50.000 0.00 0.00 29.52 4.30
4406 4782 2.158449 GCACGACTTCAAGTTCATGGAG 59.842 50.000 0.00 0.00 31.79 3.86
4407 4783 2.143122 GCACGACTTCAAGTTCATGGA 58.857 47.619 0.00 0.00 0.00 3.41
4408 4784 1.197721 GGCACGACTTCAAGTTCATGG 59.802 52.381 0.00 0.00 0.00 3.66
4409 4785 2.146342 AGGCACGACTTCAAGTTCATG 58.854 47.619 0.00 0.00 0.00 3.07
4410 4786 2.037772 AGAGGCACGACTTCAAGTTCAT 59.962 45.455 0.00 0.00 0.00 2.57
4411 4787 1.412710 AGAGGCACGACTTCAAGTTCA 59.587 47.619 0.00 0.00 0.00 3.18
4412 4788 1.795286 CAGAGGCACGACTTCAAGTTC 59.205 52.381 0.00 0.00 0.00 3.01
4413 4789 1.139058 ACAGAGGCACGACTTCAAGTT 59.861 47.619 0.00 0.00 0.00 2.66
4414 4790 0.753262 ACAGAGGCACGACTTCAAGT 59.247 50.000 0.00 0.00 0.00 3.16
4415 4791 1.795286 GAACAGAGGCACGACTTCAAG 59.205 52.381 0.00 0.00 0.00 3.02
4416 4792 1.540363 GGAACAGAGGCACGACTTCAA 60.540 52.381 0.00 0.00 0.00 2.69
4417 4793 0.033504 GGAACAGAGGCACGACTTCA 59.966 55.000 0.00 0.00 0.00 3.02
4418 4794 0.318762 AGGAACAGAGGCACGACTTC 59.681 55.000 0.00 0.00 0.00 3.01
4419 4795 0.034059 CAGGAACAGAGGCACGACTT 59.966 55.000 0.00 0.00 0.00 3.01
4420 4796 1.115930 ACAGGAACAGAGGCACGACT 61.116 55.000 0.00 0.00 0.00 4.18
4421 4797 0.946221 CACAGGAACAGAGGCACGAC 60.946 60.000 0.00 0.00 0.00 4.34
4422 4798 1.367471 CACAGGAACAGAGGCACGA 59.633 57.895 0.00 0.00 0.00 4.35
4423 4799 1.669115 CCACAGGAACAGAGGCACG 60.669 63.158 0.00 0.00 0.00 5.34
4424 4800 0.179018 AACCACAGGAACAGAGGCAC 60.179 55.000 0.00 0.00 0.00 5.01
4425 4801 0.179020 CAACCACAGGAACAGAGGCA 60.179 55.000 0.00 0.00 0.00 4.75
4426 4802 1.518903 GCAACCACAGGAACAGAGGC 61.519 60.000 0.00 0.00 0.00 4.70
4427 4803 1.230635 CGCAACCACAGGAACAGAGG 61.231 60.000 0.00 0.00 0.00 3.69
4428 4804 1.230635 CCGCAACCACAGGAACAGAG 61.231 60.000 0.00 0.00 0.00 3.35
4429 4805 1.227823 CCGCAACCACAGGAACAGA 60.228 57.895 0.00 0.00 0.00 3.41
4430 4806 2.260869 CCCGCAACCACAGGAACAG 61.261 63.158 0.00 0.00 0.00 3.16
4431 4807 2.203280 CCCGCAACCACAGGAACA 60.203 61.111 0.00 0.00 0.00 3.18
4432 4808 3.670377 GCCCGCAACCACAGGAAC 61.670 66.667 0.00 0.00 0.00 3.62
4444 4820 3.730761 GATCATGGATGCGCCCGC 61.731 66.667 4.18 5.60 42.35 6.13
4445 4821 3.052082 GGATCATGGATGCGCCCG 61.052 66.667 4.18 0.00 34.97 6.13
4446 4822 3.052082 CGGATCATGGATGCGCCC 61.052 66.667 4.18 0.00 45.46 6.13
4450 4826 2.623915 GCCAGCGGATCATGGATGC 61.624 63.158 13.42 0.00 39.02 3.91
4451 4827 1.970114 GGCCAGCGGATCATGGATG 60.970 63.158 13.42 2.61 39.02 3.51
4452 4828 2.433446 GGCCAGCGGATCATGGAT 59.567 61.111 13.42 0.00 39.02 3.41
4453 4829 4.240103 CGGCCAGCGGATCATGGA 62.240 66.667 13.42 0.00 39.02 3.41
4470 4846 3.404369 GCAGAGGCGAGCTAAAGC 58.596 61.111 0.00 0.00 42.49 3.51
4480 4856 1.072159 AGTGTGTGGAAGCAGAGGC 59.928 57.895 0.00 0.00 41.61 4.70
4481 4857 1.233285 GCAGTGTGTGGAAGCAGAGG 61.233 60.000 0.00 0.00 0.00 3.69
4482 4858 0.533531 TGCAGTGTGTGGAAGCAGAG 60.534 55.000 0.00 0.00 0.00 3.35
4483 4859 1.526405 TGCAGTGTGTGGAAGCAGA 59.474 52.632 0.00 0.00 0.00 4.26
4484 4860 1.947013 CTGCAGTGTGTGGAAGCAG 59.053 57.895 5.25 0.00 45.44 4.24
4485 4861 1.526686 CCTGCAGTGTGTGGAAGCA 60.527 57.895 13.81 0.00 0.00 3.91
4486 4862 2.263741 CCCTGCAGTGTGTGGAAGC 61.264 63.158 13.81 0.00 0.00 3.86
4487 4863 2.263741 GCCCTGCAGTGTGTGGAAG 61.264 63.158 13.81 0.00 0.00 3.46
4488 4864 2.203337 GCCCTGCAGTGTGTGGAA 60.203 61.111 13.81 0.00 0.00 3.53
4489 4865 4.269523 GGCCCTGCAGTGTGTGGA 62.270 66.667 13.81 0.00 0.00 4.02
4490 4866 3.873679 ATGGCCCTGCAGTGTGTGG 62.874 63.158 13.81 7.30 0.00 4.17
4491 4867 2.282674 ATGGCCCTGCAGTGTGTG 60.283 61.111 13.81 0.00 0.00 3.82
4492 4868 2.034687 GATGGCCCTGCAGTGTGT 59.965 61.111 13.81 0.00 0.00 3.72
4493 4869 1.303888 AAGATGGCCCTGCAGTGTG 60.304 57.895 13.81 1.67 0.00 3.82
4494 4870 1.001641 GAAGATGGCCCTGCAGTGT 60.002 57.895 13.81 0.00 0.00 3.55
4495 4871 1.751927 GGAAGATGGCCCTGCAGTG 60.752 63.158 13.81 1.33 0.00 3.66
4496 4872 0.621571 TAGGAAGATGGCCCTGCAGT 60.622 55.000 13.81 0.00 34.11 4.40
4497 4873 0.179034 GTAGGAAGATGGCCCTGCAG 60.179 60.000 6.78 6.78 35.59 4.41
4498 4874 1.635817 GGTAGGAAGATGGCCCTGCA 61.636 60.000 0.00 0.00 36.97 4.41
4499 4875 1.149401 GGTAGGAAGATGGCCCTGC 59.851 63.158 0.00 0.00 34.90 4.85
4500 4876 1.338136 ACGGTAGGAAGATGGCCCTG 61.338 60.000 0.00 0.00 34.11 4.45
4501 4877 1.003051 ACGGTAGGAAGATGGCCCT 59.997 57.895 0.00 0.00 36.60 5.19
4502 4878 1.335132 TGACGGTAGGAAGATGGCCC 61.335 60.000 0.00 0.00 0.00 5.80
4503 4879 0.179081 GTGACGGTAGGAAGATGGCC 60.179 60.000 0.00 0.00 0.00 5.36
4504 4880 0.179081 GGTGACGGTAGGAAGATGGC 60.179 60.000 0.00 0.00 0.00 4.40
4527 4903 4.208686 GTAGTCCGGCAGCGGAGG 62.209 72.222 4.18 0.43 38.90 4.30
4528 4904 3.417275 CTGTAGTCCGGCAGCGGAG 62.417 68.421 4.18 0.00 38.90 4.63
4529 4905 3.449227 CTGTAGTCCGGCAGCGGA 61.449 66.667 0.00 0.00 35.42 5.54
4535 4911 1.889530 AAGTGGAGCTGTAGTCCGGC 61.890 60.000 0.00 0.00 46.50 6.13
4536 4912 0.173708 GAAGTGGAGCTGTAGTCCGG 59.826 60.000 0.00 0.00 36.82 5.14
4537 4913 0.173708 GGAAGTGGAGCTGTAGTCCG 59.826 60.000 0.00 0.00 36.82 4.79
4538 4914 0.537653 GGGAAGTGGAGCTGTAGTCC 59.462 60.000 0.00 0.00 34.31 3.85
4539 4915 1.066787 GTGGGAAGTGGAGCTGTAGTC 60.067 57.143 0.00 0.00 0.00 2.59
4540 4916 0.977395 GTGGGAAGTGGAGCTGTAGT 59.023 55.000 0.00 0.00 0.00 2.73
4541 4917 1.270907 AGTGGGAAGTGGAGCTGTAG 58.729 55.000 0.00 0.00 0.00 2.74
4542 4918 2.615986 TAGTGGGAAGTGGAGCTGTA 57.384 50.000 0.00 0.00 0.00 2.74
4543 4919 1.556911 CATAGTGGGAAGTGGAGCTGT 59.443 52.381 0.00 0.00 0.00 4.40
4544 4920 1.833630 TCATAGTGGGAAGTGGAGCTG 59.166 52.381 0.00 0.00 0.00 4.24
4545 4921 1.834263 GTCATAGTGGGAAGTGGAGCT 59.166 52.381 0.00 0.00 0.00 4.09
4546 4922 1.134371 GGTCATAGTGGGAAGTGGAGC 60.134 57.143 0.00 0.00 0.00 4.70
4547 4923 1.486726 GGGTCATAGTGGGAAGTGGAG 59.513 57.143 0.00 0.00 0.00 3.86
4548 4924 1.580059 GGGTCATAGTGGGAAGTGGA 58.420 55.000 0.00 0.00 0.00 4.02
4549 4925 0.178068 CGGGTCATAGTGGGAAGTGG 59.822 60.000 0.00 0.00 0.00 4.00
4550 4926 0.178068 CCGGGTCATAGTGGGAAGTG 59.822 60.000 0.00 0.00 0.00 3.16
4551 4927 0.252558 ACCGGGTCATAGTGGGAAGT 60.253 55.000 6.32 0.00 0.00 3.01
4552 4928 0.464452 GACCGGGTCATAGTGGGAAG 59.536 60.000 22.10 0.00 32.09 3.46
4553 4929 0.042131 AGACCGGGTCATAGTGGGAA 59.958 55.000 27.87 0.00 34.60 3.97
4554 4930 0.042131 AAGACCGGGTCATAGTGGGA 59.958 55.000 27.87 0.00 34.60 4.37
4555 4931 0.178068 CAAGACCGGGTCATAGTGGG 59.822 60.000 27.87 1.21 34.60 4.61
4556 4932 0.462047 GCAAGACCGGGTCATAGTGG 60.462 60.000 27.87 7.04 34.60 4.00
4557 4933 0.462047 GGCAAGACCGGGTCATAGTG 60.462 60.000 27.87 19.34 34.60 2.74
4558 4934 1.905512 GGCAAGACCGGGTCATAGT 59.094 57.895 27.87 5.36 34.60 2.12
4559 4935 4.857251 GGCAAGACCGGGTCATAG 57.143 61.111 27.87 17.42 34.60 2.23
4568 4944 1.066430 TGGTAGTGATTCGGCAAGACC 60.066 52.381 0.00 0.00 0.00 3.85
4569 4945 2.271800 CTGGTAGTGATTCGGCAAGAC 58.728 52.381 0.00 0.00 0.00 3.01
4570 4946 1.207089 CCTGGTAGTGATTCGGCAAGA 59.793 52.381 0.00 0.00 0.00 3.02
4571 4947 1.066143 ACCTGGTAGTGATTCGGCAAG 60.066 52.381 0.00 0.00 0.00 4.01
4572 4948 0.981183 ACCTGGTAGTGATTCGGCAA 59.019 50.000 0.00 0.00 0.00 4.52
4573 4949 0.535335 GACCTGGTAGTGATTCGGCA 59.465 55.000 0.00 0.00 0.00 5.69
4574 4950 0.535335 TGACCTGGTAGTGATTCGGC 59.465 55.000 0.00 0.00 0.00 5.54
4575 4951 1.134788 GGTGACCTGGTAGTGATTCGG 60.135 57.143 0.00 0.00 0.00 4.30
4576 4952 1.469251 CGGTGACCTGGTAGTGATTCG 60.469 57.143 0.00 0.00 0.00 3.34
4577 4953 1.739371 GCGGTGACCTGGTAGTGATTC 60.739 57.143 0.00 0.00 0.00 2.52
4578 4954 0.249398 GCGGTGACCTGGTAGTGATT 59.751 55.000 0.00 0.00 0.00 2.57
4579 4955 0.614979 AGCGGTGACCTGGTAGTGAT 60.615 55.000 0.00 0.00 0.00 3.06
4580 4956 1.228769 AGCGGTGACCTGGTAGTGA 60.229 57.895 0.00 0.00 0.00 3.41
4581 4957 1.079819 CAGCGGTGACCTGGTAGTG 60.080 63.158 9.50 0.00 0.00 2.74
4582 4958 1.228769 TCAGCGGTGACCTGGTAGT 60.229 57.895 14.39 0.00 31.80 2.73
4583 4959 1.513158 CTCAGCGGTGACCTGGTAG 59.487 63.158 14.39 0.00 31.80 3.18
4584 4960 2.646175 GCTCAGCGGTGACCTGGTA 61.646 63.158 14.39 0.00 31.80 3.25
4585 4961 4.008933 GCTCAGCGGTGACCTGGT 62.009 66.667 14.39 0.00 31.80 4.00
4611 4987 4.444838 TGACCCGGCGGTGATTCG 62.445 66.667 26.32 10.81 44.88 3.34
4612 4988 2.818274 GTGACCCGGCGGTGATTC 60.818 66.667 26.32 15.30 44.88 2.52
4613 4989 4.404098 GGTGACCCGGCGGTGATT 62.404 66.667 26.32 5.67 44.88 2.57
4623 4999 2.743928 CTGCTTCAGCGGTGACCC 60.744 66.667 18.42 11.54 45.83 4.46
4647 5023 4.908687 TGATGCGGGGGCGAATCG 62.909 66.667 0.00 0.00 0.00 3.34
4648 5024 2.515991 TTGATGCGGGGGCGAATC 60.516 61.111 0.00 0.00 0.00 2.52
4649 5025 2.516930 CTTGATGCGGGGGCGAAT 60.517 61.111 0.00 0.00 0.00 3.34
4650 5026 4.794648 CCTTGATGCGGGGGCGAA 62.795 66.667 0.00 0.00 0.00 4.70
4658 5034 4.170062 CACGGCAGCCTTGATGCG 62.170 66.667 12.76 0.00 46.62 4.73
4659 5035 3.818787 CCACGGCAGCCTTGATGC 61.819 66.667 19.55 0.00 44.80 3.91
4660 5036 3.818787 GCCACGGCAGCCTTGATG 61.819 66.667 19.55 7.15 41.49 3.07
4678 5054 4.675029 AAAGCGGGTCGGGTCGTG 62.675 66.667 0.00 0.00 0.00 4.35
4679 5055 3.465258 AAAAAGCGGGTCGGGTCGT 62.465 57.895 0.00 0.00 0.00 4.34
4680 5056 2.667199 AAAAAGCGGGTCGGGTCG 60.667 61.111 0.00 0.00 0.00 4.79
4681 5057 0.887836 AAGAAAAAGCGGGTCGGGTC 60.888 55.000 0.00 0.00 0.00 4.46
4682 5058 1.149854 AAGAAAAAGCGGGTCGGGT 59.850 52.632 0.00 0.00 0.00 5.28
4683 5059 1.579429 CAAGAAAAAGCGGGTCGGG 59.421 57.895 0.00 0.00 0.00 5.14
4684 5060 1.081442 GCAAGAAAAAGCGGGTCGG 60.081 57.895 0.00 0.00 0.00 4.79
4685 5061 0.030101 TTGCAAGAAAAAGCGGGTCG 59.970 50.000 0.00 0.00 0.00 4.79
4686 5062 1.336755 TCTTGCAAGAAAAAGCGGGTC 59.663 47.619 26.61 0.00 30.73 4.46
4687 5063 1.338020 CTCTTGCAAGAAAAAGCGGGT 59.662 47.619 28.16 0.00 34.03 5.28
4688 5064 1.336240 CCTCTTGCAAGAAAAAGCGGG 60.336 52.381 28.16 19.86 34.03 6.13
4689 5065 1.336240 CCCTCTTGCAAGAAAAAGCGG 60.336 52.381 28.16 22.90 34.03 5.52
4690 5066 1.338020 ACCCTCTTGCAAGAAAAAGCG 59.662 47.619 28.16 15.91 34.03 4.68
4691 5067 2.747436 CACCCTCTTGCAAGAAAAAGC 58.253 47.619 28.16 0.00 34.03 3.51
4692 5068 2.363359 AGCACCCTCTTGCAAGAAAAAG 59.637 45.455 28.16 19.04 45.62 2.27
4693 5069 2.101249 CAGCACCCTCTTGCAAGAAAAA 59.899 45.455 28.16 7.96 45.62 1.94
4694 5070 1.682854 CAGCACCCTCTTGCAAGAAAA 59.317 47.619 28.16 8.33 45.62 2.29
4695 5071 1.321474 CAGCACCCTCTTGCAAGAAA 58.679 50.000 28.16 9.08 45.62 2.52
4696 5072 0.538057 CCAGCACCCTCTTGCAAGAA 60.538 55.000 28.16 13.40 45.62 2.52
4697 5073 1.073722 CCAGCACCCTCTTGCAAGA 59.926 57.895 26.87 26.87 45.62 3.02
4698 5074 2.633509 GCCAGCACCCTCTTGCAAG 61.634 63.158 20.81 20.81 45.62 4.01
4699 5075 2.598394 GCCAGCACCCTCTTGCAA 60.598 61.111 0.00 0.00 45.62 4.08
4700 5076 3.557903 GAGCCAGCACCCTCTTGCA 62.558 63.158 0.00 0.00 45.62 4.08
4701 5077 2.749441 GAGCCAGCACCCTCTTGC 60.749 66.667 0.00 0.00 43.34 4.01
4702 5078 2.435586 CGAGCCAGCACCCTCTTG 60.436 66.667 0.00 0.00 0.00 3.02
4703 5079 4.400961 GCGAGCCAGCACCCTCTT 62.401 66.667 0.00 0.00 37.05 2.85
4715 5091 4.774503 AGGAAGGCAGCAGCGAGC 62.775 66.667 4.45 4.45 43.41 5.03
4716 5092 2.818714 CAGGAAGGCAGCAGCGAG 60.819 66.667 0.00 0.00 43.41 5.03
4719 5095 3.441290 CAGCAGGAAGGCAGCAGC 61.441 66.667 0.00 0.00 41.10 5.25
4720 5096 2.750637 CCAGCAGGAAGGCAGCAG 60.751 66.667 0.00 0.00 36.89 4.24
4726 5102 4.020617 TCGTGGCCAGCAGGAAGG 62.021 66.667 5.11 0.00 36.89 3.46
4727 5103 2.743928 GTCGTGGCCAGCAGGAAG 60.744 66.667 5.11 0.00 36.89 3.46
4728 5104 4.329545 GGTCGTGGCCAGCAGGAA 62.330 66.667 5.11 0.00 36.89 3.36
4738 5114 4.849329 GTAGAGGCGCGGTCGTGG 62.849 72.222 8.83 0.00 38.14 4.94
4739 5115 3.812019 AGTAGAGGCGCGGTCGTG 61.812 66.667 8.83 0.00 38.14 4.35
4740 5116 3.812019 CAGTAGAGGCGCGGTCGT 61.812 66.667 8.83 0.00 38.14 4.34
4742 5118 3.827898 AGCAGTAGAGGCGCGGTC 61.828 66.667 8.83 0.00 36.08 4.79
4743 5119 4.135153 CAGCAGTAGAGGCGCGGT 62.135 66.667 8.83 0.00 36.08 5.68
4745 5121 4.801624 TGCAGCAGTAGAGGCGCG 62.802 66.667 0.00 0.00 34.91 6.86
4746 5122 2.202987 ATGCAGCAGTAGAGGCGC 60.203 61.111 0.00 0.00 36.08 6.53
4747 5123 1.886313 CCATGCAGCAGTAGAGGCG 60.886 63.158 0.00 0.00 36.08 5.52
4748 5124 1.094073 CACCATGCAGCAGTAGAGGC 61.094 60.000 0.00 0.00 0.00 4.70
4749 5125 0.538584 TCACCATGCAGCAGTAGAGG 59.461 55.000 0.00 0.11 0.00 3.69
4750 5126 1.937278 CTCACCATGCAGCAGTAGAG 58.063 55.000 0.00 1.95 0.00 2.43
4751 5127 0.107993 GCTCACCATGCAGCAGTAGA 60.108 55.000 0.00 0.00 35.56 2.59
4752 5128 0.107800 AGCTCACCATGCAGCAGTAG 60.108 55.000 0.00 0.00 38.18 2.57
4753 5129 0.392060 CAGCTCACCATGCAGCAGTA 60.392 55.000 0.00 0.00 38.18 2.74
4754 5130 1.674651 CAGCTCACCATGCAGCAGT 60.675 57.895 0.00 0.00 38.18 4.40
4755 5131 3.052620 GCAGCTCACCATGCAGCAG 62.053 63.158 0.00 5.31 41.54 4.24
4756 5132 3.060000 GCAGCTCACCATGCAGCA 61.060 61.111 0.00 0.00 41.54 4.41
4757 5133 2.750637 AGCAGCTCACCATGCAGC 60.751 61.111 0.00 2.16 45.01 5.25
4758 5134 3.052620 GCAGCAGCTCACCATGCAG 62.053 63.158 0.00 0.00 45.01 4.41
4759 5135 3.060000 GCAGCAGCTCACCATGCA 61.060 61.111 0.00 0.00 45.01 3.96
4760 5136 4.175489 CGCAGCAGCTCACCATGC 62.175 66.667 0.00 0.00 42.87 4.06


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

AutoCloner maintained by Alex Coulton.