Multiple sequence alignment - TraesCS5A01G222200

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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 TraesCS5A01G222200 chr5A 100.000 5136 0 0 1 5136 438358514 438353379 0.000000e+00 9485.0
1 TraesCS5A01G222200 chr5A 91.019 3318 242 14 772 4087 438410848 438407585 0.000000e+00 4425.0
2 TraesCS5A01G222200 chr5A 86.377 345 30 9 43 380 438412348 438412014 1.360000e-95 361.0
3 TraesCS5A01G222200 chr5A 88.333 120 9 2 630 749 438411875 438411761 6.930000e-29 139.0
4 TraesCS5A01G222200 chr5A 87.500 112 6 6 475 584 438411965 438411860 6.980000e-24 122.0
5 TraesCS5A01G222200 chr5B 95.239 4264 143 20 1 4249 395684844 395680626 0.000000e+00 6695.0
6 TraesCS5A01G222200 chr5B 92.613 1083 53 10 870 1952 395709764 395708709 0.000000e+00 1531.0
7 TraesCS5A01G222200 chr5B 93.093 999 31 8 1949 2942 395708225 395707260 0.000000e+00 1428.0
8 TraesCS5A01G222200 chr5B 88.528 462 31 12 4609 5057 395680427 395679975 1.630000e-149 540.0
9 TraesCS5A01G222200 chr5B 93.069 303 17 1 3165 3463 395707262 395706960 1.700000e-119 440.0
10 TraesCS5A01G222200 chr5B 85.321 327 33 7 43 361 395710605 395710286 1.780000e-84 324.0
11 TraesCS5A01G222200 chr5B 95.000 180 6 1 681 857 395710110 395709931 3.920000e-71 279.0
12 TraesCS5A01G222200 chr5B 89.952 209 16 3 4266 4469 395680641 395680433 1.100000e-66 265.0
13 TraesCS5A01G222200 chr5B 93.162 117 8 0 513 629 395710226 395710110 6.840000e-39 172.0
14 TraesCS5A01G222200 chr5B 92.241 116 6 1 3972 4087 395706960 395706848 1.480000e-35 161.0
15 TraesCS5A01G222200 chr5D 92.336 4149 240 25 121 4249 337186614 337182524 0.000000e+00 5829.0
16 TraesCS5A01G222200 chr5D 93.577 1339 75 2 2631 3969 337216431 337215104 0.000000e+00 1986.0
17 TraesCS5A01G222200 chr5D 90.710 1324 73 15 630 1952 337218817 337217543 0.000000e+00 1718.0
18 TraesCS5A01G222200 chr5D 95.137 658 23 3 1949 2598 337217085 337216429 0.000000e+00 1029.0
19 TraesCS5A01G222200 chr5D 91.598 488 32 8 4570 5057 337182197 337181719 0.000000e+00 665.0
20 TraesCS5A01G222200 chr5D 82.609 345 25 10 37 380 337219262 337218952 6.550000e-69 272.0
21 TraesCS5A01G222200 chr5D 86.561 253 21 5 4645 4885 337154400 337154651 3.050000e-67 267.0
22 TraesCS5A01G222200 chr5D 93.750 160 8 1 4315 4472 337182367 337182208 6.650000e-59 239.0
23 TraesCS5A01G222200 chr5D 98.361 122 2 0 4 125 337186855 337186734 1.120000e-51 215.0
24 TraesCS5A01G222200 chr5D 94.309 123 7 0 3965 4087 337209677 337209555 6.790000e-44 189.0
25 TraesCS5A01G222200 chr5D 85.714 112 8 6 475 584 337218907 337218802 1.510000e-20 111.0
26 TraesCS5A01G222200 chr5D 98.387 62 1 0 43 104 337219402 337219341 5.440000e-20 110.0
27 TraesCS5A01G222200 chr5D 88.235 85 6 4 4308 4388 337207537 337207453 1.180000e-16 99.0
28 TraesCS5A01G222200 chr5D 92.308 52 4 0 4266 4317 337182539 337182488 1.980000e-09 75.0
29 TraesCS5A01G222200 chr5D 80.556 108 9 5 4153 4249 337209507 337209401 7.130000e-09 73.1
30 TraesCS5A01G222200 chr6B 91.753 97 4 4 4471 4563 347752040 347752136 1.160000e-26 132.0
31 TraesCS5A01G222200 chr6A 88.785 107 4 4 4471 4570 3320561 3320456 1.940000e-24 124.0
32 TraesCS5A01G222200 chr6D 87.850 107 10 3 4467 4572 370847798 370847694 6.980000e-24 122.0
33 TraesCS5A01G222200 chr6D 87.037 108 10 3 4471 4574 7460178 7460285 9.030000e-23 119.0
34 TraesCS5A01G222200 chr7A 90.426 94 5 4 4471 4563 42306430 42306340 2.510000e-23 121.0
35 TraesCS5A01G222200 chr2D 88.119 101 6 4 4471 4569 566655172 566655076 1.170000e-21 115.0
36 TraesCS5A01G222200 chr1D 86.667 105 11 3 4461 4564 354500683 354500785 4.200000e-21 113.0
37 TraesCS5A01G222200 chrUn 85.849 106 11 4 4472 4574 355020726 355020622 5.440000e-20 110.0
38 TraesCS5A01G222200 chr3B 85.849 106 11 4 4472 4574 713839918 713840022 5.440000e-20 110.0


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 TraesCS5A01G222200 chr5A 438353379 438358514 5135 True 9485.000000 9485 100.000000 1 5136 1 chr5A.!!$R1 5135
1 TraesCS5A01G222200 chr5A 438407585 438412348 4763 True 1261.750000 4425 88.307250 43 4087 4 chr5A.!!$R2 4044
2 TraesCS5A01G222200 chr5B 395679975 395684844 4869 True 2500.000000 6695 91.239667 1 5057 3 chr5B.!!$R1 5056
3 TraesCS5A01G222200 chr5B 395706848 395710605 3757 True 619.285714 1531 92.071286 43 4087 7 chr5B.!!$R2 4044
4 TraesCS5A01G222200 chr5D 337181719 337186855 5136 True 1404.600000 5829 93.670600 4 5057 5 chr5D.!!$R1 5053
5 TraesCS5A01G222200 chr5D 337215104 337219402 4298 True 871.000000 1986 91.022333 37 3969 6 chr5D.!!$R3 3932

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
998 2299 2.029110 GCTGCATGCCTTTCCACTAAAA 60.029 45.455 16.68 0.00 35.15 1.52 F
1626 2927 0.317160 TCGGCAACAACGATCTGTCT 59.683 50.000 0.00 0.00 35.12 3.41 F
2230 4483 2.032376 TGTCAGGCAATGCGCTGA 59.968 55.556 18.02 18.02 41.91 4.26 F
3471 5737 1.066858 AGCAACGTCCTCATCAACGAT 60.067 47.619 1.52 0.00 41.29 3.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2485 4746 1.002087 GTTCCAGGACAGGTCAATCGT 59.998 52.381 1.41 0.0 0.0 3.73 R
2559 4820 1.069090 GTTGTGCGACAGGTCCAGA 59.931 57.895 0.00 0.0 0.0 3.86 R
3808 6082 0.948623 CGCCCTCAAACATGTCGTCA 60.949 55.000 0.00 0.0 0.0 4.35 R
4738 7146 0.106519 AGGCTGTGGTTCTTGCAACT 60.107 50.000 0.00 0.0 0.0 3.16 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
182 413 9.394767 ACATGCAAGATTTGACATGTATAACTA 57.605 29.630 20.05 0.00 46.43 2.24
217 448 3.445096 GCTGCTTGGTATGAATTGGTTCT 59.555 43.478 0.00 0.00 35.33 3.01
365 607 5.046529 ACTCTAGCTTTATCATGCTCAACG 58.953 41.667 0.00 0.00 40.35 4.10
413 655 2.794910 CGGTTGGCAATAGAGATACACG 59.205 50.000 1.92 0.00 0.00 4.49
420 662 3.116300 CAATAGAGATACACGCGCTTGT 58.884 45.455 23.61 23.61 0.00 3.16
592 838 2.887152 GGCATGCCCGAAGAAAATCTAT 59.113 45.455 27.24 0.00 0.00 1.98
623 869 4.111016 TCGTCCCTACTGCACGCG 62.111 66.667 3.53 3.53 33.46 6.01
876 2177 3.019799 TCCATCTCTGGAGTCTGGTAC 57.980 52.381 15.72 0.00 46.95 3.34
877 2178 2.311841 TCCATCTCTGGAGTCTGGTACA 59.688 50.000 15.72 0.00 46.95 2.90
878 2179 3.052566 TCCATCTCTGGAGTCTGGTACAT 60.053 47.826 15.72 0.00 46.95 2.29
879 2180 3.320541 CCATCTCTGGAGTCTGGTACATC 59.679 52.174 0.00 0.00 46.37 3.06
880 2181 3.019799 TCTCTGGAGTCTGGTACATCC 57.980 52.381 0.00 0.00 38.20 3.51
881 2182 2.311841 TCTCTGGAGTCTGGTACATCCA 59.688 50.000 0.00 0.00 45.01 3.41
882 2183 3.052566 TCTCTGGAGTCTGGTACATCCAT 60.053 47.826 0.00 0.00 46.12 3.41
939 2240 3.244249 GCCATGTAGAACCCTTAGCTAGG 60.244 52.174 0.00 0.00 44.33 3.02
944 2245 2.673258 AGAACCCTTAGCTAGGCTCTC 58.327 52.381 0.00 0.00 43.27 3.20
998 2299 2.029110 GCTGCATGCCTTTCCACTAAAA 60.029 45.455 16.68 0.00 35.15 1.52
1006 2307 3.193479 GCCTTTCCACTAAAACATGAGGG 59.807 47.826 0.00 0.00 0.00 4.30
1007 2308 4.407365 CCTTTCCACTAAAACATGAGGGT 58.593 43.478 0.00 0.00 0.00 4.34
1008 2309 5.566469 CCTTTCCACTAAAACATGAGGGTA 58.434 41.667 0.00 0.00 0.00 3.69
1050 2351 1.753368 CGGCCATTCTCCTCCTCCTC 61.753 65.000 2.24 0.00 0.00 3.71
1051 2352 1.414866 GGCCATTCTCCTCCTCCTCC 61.415 65.000 0.00 0.00 0.00 4.30
1052 2353 0.692419 GCCATTCTCCTCCTCCTCCA 60.692 60.000 0.00 0.00 0.00 3.86
1053 2354 1.127343 CCATTCTCCTCCTCCTCCAC 58.873 60.000 0.00 0.00 0.00 4.02
1054 2355 1.127343 CATTCTCCTCCTCCTCCACC 58.873 60.000 0.00 0.00 0.00 4.61
1055 2356 1.022903 ATTCTCCTCCTCCTCCACCT 58.977 55.000 0.00 0.00 0.00 4.00
1056 2357 0.336737 TTCTCCTCCTCCTCCACCTC 59.663 60.000 0.00 0.00 0.00 3.85
1057 2358 1.075600 CTCCTCCTCCTCCACCTCC 60.076 68.421 0.00 0.00 0.00 4.30
1058 2359 1.862138 TCCTCCTCCTCCACCTCCA 60.862 63.158 0.00 0.00 0.00 3.86
1059 2360 1.687493 CCTCCTCCTCCACCTCCAC 60.687 68.421 0.00 0.00 0.00 4.02
1060 2361 1.687493 CTCCTCCTCCACCTCCACC 60.687 68.421 0.00 0.00 0.00 4.61
1061 2362 2.174876 CTCCTCCTCCACCTCCACCT 62.175 65.000 0.00 0.00 0.00 4.00
1062 2363 1.687493 CCTCCTCCACCTCCACCTC 60.687 68.421 0.00 0.00 0.00 3.85
1063 2364 1.687493 CTCCTCCACCTCCACCTCC 60.687 68.421 0.00 0.00 0.00 4.30
1064 2365 2.122729 CCTCCACCTCCACCTCCA 59.877 66.667 0.00 0.00 0.00 3.86
1269 2570 4.057428 GACGTCTGCGGCCTCACT 62.057 66.667 8.70 0.00 41.03 3.41
1368 2669 0.815734 CGGTCATCGGTAACCTCACT 59.184 55.000 0.00 0.00 33.14 3.41
1588 2889 2.550830 TCTCTTCAAGAACTGCACCC 57.449 50.000 0.00 0.00 0.00 4.61
1623 2924 1.126846 GACTTCGGCAACAACGATCTG 59.873 52.381 0.00 0.00 40.38 2.90
1626 2927 0.317160 TCGGCAACAACGATCTGTCT 59.683 50.000 0.00 0.00 35.12 3.41
1655 2956 2.726351 CCCTGGAAGCCTCGGAGAC 61.726 68.421 6.58 0.00 0.00 3.36
1725 3026 2.047274 TGGCTCGCTAACTGCACC 60.047 61.111 0.00 0.00 43.06 5.01
1768 3069 3.891586 GACAACTCGCTCGCCGACA 62.892 63.158 0.00 0.00 41.89 4.35
1791 3092 4.624364 CCCGCCGGCATCATAGCA 62.624 66.667 28.98 0.00 35.83 3.49
2230 4483 2.032376 TGTCAGGCAATGCGCTGA 59.968 55.556 18.02 18.02 41.91 4.26
2519 4780 2.233271 CTGGAACAACTTCAGTGGCAT 58.767 47.619 0.00 0.00 38.70 4.40
2562 4823 2.581354 CGGGAGCTGGAGGTTCTG 59.419 66.667 0.00 0.00 0.00 3.02
2722 4983 9.072375 TGAAACATTTCAACCTGTCATACAATA 57.928 29.630 4.56 0.00 43.62 1.90
2922 5184 1.742880 GCTGACAATCCTCTGCGCA 60.743 57.895 10.98 10.98 0.00 6.09
3333 5599 3.094062 GCGGTGCCTCTATGCTGGA 62.094 63.158 0.00 0.00 0.00 3.86
3471 5737 1.066858 AGCAACGTCCTCATCAACGAT 60.067 47.619 1.52 0.00 41.29 3.73
3667 5934 5.046014 ACAAGCTATTCTGGTGATGAGTTCT 60.046 40.000 0.00 0.00 0.00 3.01
3808 6082 1.201880 GTAACGAGGAAGAAGCCGACT 59.798 52.381 0.00 0.00 0.00 4.18
4117 6391 1.207329 GGCTTCTCATCCACGGTAGTT 59.793 52.381 0.00 0.00 0.00 2.24
4138 6416 9.757227 GTAGTTGAAGATATTGATGACTAGCTT 57.243 33.333 0.00 0.00 0.00 3.74
4145 6423 2.871182 TGATGACTAGCTTAGCGGTG 57.129 50.000 10.05 2.24 0.00 4.94
4151 6429 0.727398 CTAGCTTAGCGGTGGCAAAC 59.273 55.000 14.73 0.00 43.41 2.93
4154 6432 1.065418 AGCTTAGCGGTGGCAAACTAT 60.065 47.619 14.73 0.00 43.41 2.12
4155 6433 1.330829 GCTTAGCGGTGGCAAACTATC 59.669 52.381 0.00 0.00 43.41 2.08
4156 6434 2.627945 CTTAGCGGTGGCAAACTATCA 58.372 47.619 0.00 0.00 43.41 2.15
4178 6461 4.957759 AATTAACAGGGATACGTTGTGC 57.042 40.909 0.00 0.00 35.55 4.57
4201 6484 3.348119 TGCGTGGTTAGGAATTTATGCA 58.652 40.909 0.00 0.00 0.00 3.96
4204 6487 4.495844 GCGTGGTTAGGAATTTATGCAGTC 60.496 45.833 0.00 0.00 0.00 3.51
4237 6520 7.714377 GGAGAAGATGATCACAAGATGTATGTT 59.286 37.037 0.00 0.00 33.72 2.71
4238 6521 9.107177 GAGAAGATGATCACAAGATGTATGTTT 57.893 33.333 0.00 0.00 33.72 2.83
4302 6585 9.119418 TCTTTCAAAGTGTCTGATTTGATGTAA 57.881 29.630 5.92 0.00 43.05 2.41
4371 6779 6.211584 AGTTCAGGAAGTAACTGATTAGCTCA 59.788 38.462 0.00 0.00 43.82 4.26
4396 6804 5.407387 GTGTGACGGCTATCTTCTGTTTTTA 59.593 40.000 0.00 0.00 0.00 1.52
4418 6826 2.299521 CTTTGTTTTGTCCCCGTACCA 58.700 47.619 0.00 0.00 0.00 3.25
4420 6828 2.188062 TGTTTTGTCCCCGTACCATC 57.812 50.000 0.00 0.00 0.00 3.51
4446 6854 4.335416 TCCAAAACAATCAGATGTCTCCC 58.665 43.478 0.00 0.00 31.81 4.30
4472 6880 8.956617 TTTTGTTTGGCAAACTTGAAAATTAC 57.043 26.923 35.03 12.85 45.70 1.89
4473 6881 7.913674 TTGTTTGGCAAACTTGAAAATTACT 57.086 28.000 35.03 0.00 41.90 2.24
4474 6882 7.532682 TGTTTGGCAAACTTGAAAATTACTC 57.467 32.000 35.03 11.52 41.90 2.59
4475 6883 6.536941 TGTTTGGCAAACTTGAAAATTACTCC 59.463 34.615 35.03 10.95 41.90 3.85
4476 6884 5.208463 TGGCAAACTTGAAAATTACTCCC 57.792 39.130 0.00 0.00 0.00 4.30
4478 6886 5.010617 TGGCAAACTTGAAAATTACTCCCTC 59.989 40.000 0.00 0.00 0.00 4.30
4480 6888 5.699839 CAAACTTGAAAATTACTCCCTCCG 58.300 41.667 0.00 0.00 0.00 4.63
4481 6889 4.635699 ACTTGAAAATTACTCCCTCCGT 57.364 40.909 0.00 0.00 0.00 4.69
4482 6890 4.576879 ACTTGAAAATTACTCCCTCCGTC 58.423 43.478 0.00 0.00 0.00 4.79
4483 6891 3.622166 TGAAAATTACTCCCTCCGTCC 57.378 47.619 0.00 0.00 0.00 4.79
4484 6892 2.237893 TGAAAATTACTCCCTCCGTCCC 59.762 50.000 0.00 0.00 0.00 4.46
4485 6893 1.961133 AAATTACTCCCTCCGTCCCA 58.039 50.000 0.00 0.00 0.00 4.37
4486 6894 2.191981 AATTACTCCCTCCGTCCCAT 57.808 50.000 0.00 0.00 0.00 4.00
4487 6895 3.339713 AATTACTCCCTCCGTCCCATA 57.660 47.619 0.00 0.00 0.00 2.74
4488 6896 2.852714 TTACTCCCTCCGTCCCATAA 57.147 50.000 0.00 0.00 0.00 1.90
4489 6897 3.339713 TTACTCCCTCCGTCCCATAAT 57.660 47.619 0.00 0.00 0.00 1.28
4490 6898 4.474303 TTACTCCCTCCGTCCCATAATA 57.526 45.455 0.00 0.00 0.00 0.98
4491 6899 3.562108 ACTCCCTCCGTCCCATAATAT 57.438 47.619 0.00 0.00 0.00 1.28
4492 6900 4.687262 ACTCCCTCCGTCCCATAATATA 57.313 45.455 0.00 0.00 0.00 0.86
4493 6901 5.019657 ACTCCCTCCGTCCCATAATATAA 57.980 43.478 0.00 0.00 0.00 0.98
4494 6902 5.024118 ACTCCCTCCGTCCCATAATATAAG 58.976 45.833 0.00 0.00 0.00 1.73
4495 6903 5.222484 ACTCCCTCCGTCCCATAATATAAGA 60.222 44.000 0.00 0.00 0.00 2.10
4496 6904 5.269991 TCCCTCCGTCCCATAATATAAGAG 58.730 45.833 0.00 0.00 0.00 2.85
4497 6905 4.141914 CCCTCCGTCCCATAATATAAGAGC 60.142 50.000 0.00 0.00 0.00 4.09
4498 6906 4.440250 CCTCCGTCCCATAATATAAGAGCG 60.440 50.000 0.00 0.00 0.00 5.03
4499 6907 4.084287 TCCGTCCCATAATATAAGAGCGT 58.916 43.478 0.00 0.00 0.00 5.07
4500 6908 4.525487 TCCGTCCCATAATATAAGAGCGTT 59.475 41.667 0.00 0.00 0.00 4.84
4501 6909 5.011329 TCCGTCCCATAATATAAGAGCGTTT 59.989 40.000 0.00 0.00 0.00 3.60
4502 6910 5.699458 CCGTCCCATAATATAAGAGCGTTTT 59.301 40.000 0.00 0.00 0.00 2.43
4503 6911 6.204108 CCGTCCCATAATATAAGAGCGTTTTT 59.796 38.462 0.00 0.00 0.00 1.94
4504 6912 7.069569 CGTCCCATAATATAAGAGCGTTTTTG 58.930 38.462 0.00 0.00 0.00 2.44
4505 6913 7.042321 CGTCCCATAATATAAGAGCGTTTTTGA 60.042 37.037 0.00 0.00 0.00 2.69
4506 6914 8.068380 GTCCCATAATATAAGAGCGTTTTTGAC 58.932 37.037 0.00 0.00 0.00 3.18
4507 6915 7.771361 TCCCATAATATAAGAGCGTTTTTGACA 59.229 33.333 0.00 0.00 0.00 3.58
4508 6916 7.855904 CCCATAATATAAGAGCGTTTTTGACAC 59.144 37.037 0.00 0.00 0.00 3.67
4509 6917 8.612619 CCATAATATAAGAGCGTTTTTGACACT 58.387 33.333 0.00 0.00 0.00 3.55
4513 6921 8.718102 ATATAAGAGCGTTTTTGACACTATGT 57.282 30.769 0.00 0.00 0.00 2.29
4555 6963 9.827198 AAAAATGCTCTTATATTATGGGATGGA 57.173 29.630 0.00 0.00 0.00 3.41
4556 6964 9.471702 AAAATGCTCTTATATTATGGGATGGAG 57.528 33.333 0.00 0.00 0.00 3.86
4557 6965 6.566079 TGCTCTTATATTATGGGATGGAGG 57.434 41.667 0.00 0.00 0.00 4.30
4558 6966 5.429762 TGCTCTTATATTATGGGATGGAGGG 59.570 44.000 0.00 0.00 0.00 4.30
4559 6967 5.667626 GCTCTTATATTATGGGATGGAGGGA 59.332 44.000 0.00 0.00 0.00 4.20
4560 6968 6.183361 GCTCTTATATTATGGGATGGAGGGAG 60.183 46.154 0.00 0.00 0.00 4.30
4561 6969 6.826727 TCTTATATTATGGGATGGAGGGAGT 58.173 40.000 0.00 0.00 0.00 3.85
4562 6970 7.961940 TCTTATATTATGGGATGGAGGGAGTA 58.038 38.462 0.00 0.00 0.00 2.59
4563 6971 8.068110 TCTTATATTATGGGATGGAGGGAGTAG 58.932 40.741 0.00 0.00 0.00 2.57
4564 6972 4.785173 ATTATGGGATGGAGGGAGTAGA 57.215 45.455 0.00 0.00 0.00 2.59
4565 6973 4.785173 TTATGGGATGGAGGGAGTAGAT 57.215 45.455 0.00 0.00 0.00 1.98
4566 6974 3.663298 ATGGGATGGAGGGAGTAGATT 57.337 47.619 0.00 0.00 0.00 2.40
4567 6975 4.785173 ATGGGATGGAGGGAGTAGATTA 57.215 45.455 0.00 0.00 0.00 1.75
4568 6976 4.785173 TGGGATGGAGGGAGTAGATTAT 57.215 45.455 0.00 0.00 0.00 1.28
4569 6977 5.106631 TGGGATGGAGGGAGTAGATTATT 57.893 43.478 0.00 0.00 0.00 1.40
4570 6978 6.241223 TGGGATGGAGGGAGTAGATTATTA 57.759 41.667 0.00 0.00 0.00 0.98
4571 6979 6.826727 TGGGATGGAGGGAGTAGATTATTAT 58.173 40.000 0.00 0.00 0.00 1.28
4572 6980 7.263901 TGGGATGGAGGGAGTAGATTATTATT 58.736 38.462 0.00 0.00 0.00 1.40
4573 6981 8.414623 TGGGATGGAGGGAGTAGATTATTATTA 58.585 37.037 0.00 0.00 0.00 0.98
4603 7011 9.874205 TTGAGAAAAACTTGAAAAATCAGATGT 57.126 25.926 0.00 0.00 0.00 3.06
4604 7012 9.874205 TGAGAAAAACTTGAAAAATCAGATGTT 57.126 25.926 0.00 0.00 0.00 2.71
4639 7047 6.931838 TGAAGTATCGGAGTACACTGAAAAT 58.068 36.000 5.90 0.00 0.00 1.82
4642 7050 4.819105 ATCGGAGTACACTGAAAATGGA 57.181 40.909 5.90 0.00 0.00 3.41
4648 7056 4.307432 AGTACACTGAAAATGGAGTCACG 58.693 43.478 0.00 0.00 0.00 4.35
4669 7077 1.799181 CGCACTACTGAATGGGTCGAG 60.799 57.143 0.00 0.00 0.00 4.04
4687 7095 4.848299 GTCGAGAGCACAAATTGTTTCATC 59.152 41.667 0.00 0.00 0.00 2.92
4698 7106 9.850628 CACAAATTGTTTCATCTTCTGTGATAT 57.149 29.630 0.00 0.00 34.89 1.63
4712 7120 4.227300 TCTGTGATATACCAGTGCCCTTTT 59.773 41.667 2.10 0.00 0.00 2.27
4716 7124 4.475381 TGATATACCAGTGCCCTTTTACCA 59.525 41.667 0.00 0.00 0.00 3.25
4819 7239 4.717280 ACAGAAAGGTTAGGATAGGAGTGG 59.283 45.833 0.00 0.00 0.00 4.00
4856 7276 6.644248 TTGCATATGGATTTCAGATGGAAG 57.356 37.500 4.56 0.00 45.74 3.46
4885 7305 6.267699 TGGTCCATGTACACCTTCTATCTATG 59.732 42.308 0.00 0.00 33.36 2.23
4887 7307 7.450634 GGTCCATGTACACCTTCTATCTATGTA 59.549 40.741 0.00 0.00 0.00 2.29
4918 7338 3.367025 GGATATATAAACCGAGTGTGCGC 59.633 47.826 0.00 0.00 0.00 6.09
4939 7359 2.676839 CCGGAGCATATCATGAGCAATC 59.323 50.000 0.00 0.00 0.00 2.67
4975 7395 5.073691 ACCAGCCTAGCAAATATGATAACCT 59.926 40.000 0.00 0.00 0.00 3.50
5051 7471 3.366781 GCTTCTGGTTGGATGCTTCTTTC 60.367 47.826 0.00 0.00 34.76 2.62
5057 7477 5.630121 TGGTTGGATGCTTCTTTCTTTCTA 58.370 37.500 0.00 0.00 0.00 2.10
5058 7478 5.707298 TGGTTGGATGCTTCTTTCTTTCTAG 59.293 40.000 0.00 0.00 0.00 2.43
5059 7479 5.124617 GGTTGGATGCTTCTTTCTTTCTAGG 59.875 44.000 0.00 0.00 0.00 3.02
5060 7480 5.762179 TGGATGCTTCTTTCTTTCTAGGA 57.238 39.130 0.00 0.00 0.00 2.94
5061 7481 5.491982 TGGATGCTTCTTTCTTTCTAGGAC 58.508 41.667 0.00 0.00 0.00 3.85
5062 7482 5.249393 TGGATGCTTCTTTCTTTCTAGGACT 59.751 40.000 0.00 0.00 0.00 3.85
5063 7483 6.440647 TGGATGCTTCTTTCTTTCTAGGACTA 59.559 38.462 0.00 0.00 0.00 2.59
5064 7484 6.983890 GGATGCTTCTTTCTTTCTAGGACTAG 59.016 42.308 0.00 0.00 34.56 2.57
5065 7485 6.287589 TGCTTCTTTCTTTCTAGGACTAGG 57.712 41.667 6.52 0.00 34.06 3.02
5066 7486 6.017192 TGCTTCTTTCTTTCTAGGACTAGGA 58.983 40.000 6.52 0.00 34.06 2.94
5067 7487 6.670027 TGCTTCTTTCTTTCTAGGACTAGGAT 59.330 38.462 6.52 0.00 34.06 3.24
5068 7488 7.181125 TGCTTCTTTCTTTCTAGGACTAGGATT 59.819 37.037 6.52 0.00 34.06 3.01
5069 7489 7.494298 GCTTCTTTCTTTCTAGGACTAGGATTG 59.506 40.741 6.52 0.00 34.06 2.67
5070 7490 7.425224 TCTTTCTTTCTAGGACTAGGATTGG 57.575 40.000 6.52 0.00 34.06 3.16
5071 7491 6.960542 TCTTTCTTTCTAGGACTAGGATTGGT 59.039 38.462 6.52 0.00 34.06 3.67
5072 7492 6.793505 TTCTTTCTAGGACTAGGATTGGTC 57.206 41.667 6.52 0.00 34.06 4.02
5076 7496 2.541177 GGACTAGGATTGGTCCCCC 58.459 63.158 0.00 0.00 46.34 5.40
5077 7497 1.408453 GGACTAGGATTGGTCCCCCG 61.408 65.000 0.00 0.00 46.34 5.73
5078 7498 0.690077 GACTAGGATTGGTCCCCCGT 60.690 60.000 0.00 0.00 46.34 5.28
5079 7499 0.690077 ACTAGGATTGGTCCCCCGTC 60.690 60.000 0.00 0.00 46.34 4.79
5080 7500 1.383525 TAGGATTGGTCCCCCGTCC 60.384 63.158 0.00 0.00 46.34 4.79
5081 7501 4.171103 GGATTGGTCCCCCGTCCG 62.171 72.222 0.00 0.00 38.69 4.79
5082 7502 4.851179 GATTGGTCCCCCGTCCGC 62.851 72.222 0.00 0.00 0.00 5.54
5087 7507 4.276146 GTCCCCCGTCCGCGTATC 62.276 72.222 4.92 0.00 36.15 2.24
5097 7517 3.920553 CGCGTATCCGGTTTGCGG 61.921 66.667 19.83 0.00 44.65 5.69
5098 7518 3.569690 GCGTATCCGGTTTGCGGG 61.570 66.667 16.16 0.00 36.54 6.13
5099 7519 2.125431 CGTATCCGGTTTGCGGGT 60.125 61.111 0.00 0.00 36.58 5.28
5100 7520 1.141449 CGTATCCGGTTTGCGGGTA 59.859 57.895 0.00 0.00 36.58 3.69
5101 7521 0.249573 CGTATCCGGTTTGCGGGTAT 60.250 55.000 0.00 0.00 36.58 2.73
5102 7522 1.000385 CGTATCCGGTTTGCGGGTATA 60.000 52.381 0.00 0.00 36.58 1.47
5103 7523 2.680577 GTATCCGGTTTGCGGGTATAG 58.319 52.381 0.00 0.00 36.58 1.31
5104 7524 0.250166 ATCCGGTTTGCGGGTATAGC 60.250 55.000 0.00 0.00 36.58 2.97
5105 7525 1.145377 CCGGTTTGCGGGTATAGCT 59.855 57.895 1.32 0.00 35.28 3.32
5106 7526 0.463116 CCGGTTTGCGGGTATAGCTT 60.463 55.000 0.00 0.00 35.28 3.74
5107 7527 1.202557 CCGGTTTGCGGGTATAGCTTA 60.203 52.381 0.00 0.00 35.28 3.09
5108 7528 2.553086 CGGTTTGCGGGTATAGCTTAA 58.447 47.619 0.00 0.00 35.28 1.85
5109 7529 2.286025 CGGTTTGCGGGTATAGCTTAAC 59.714 50.000 0.00 0.00 35.28 2.01
5110 7530 3.272581 GGTTTGCGGGTATAGCTTAACA 58.727 45.455 0.00 0.00 34.22 2.41
5111 7531 3.881089 GGTTTGCGGGTATAGCTTAACAT 59.119 43.478 0.00 0.00 34.22 2.71
5112 7532 4.261031 GGTTTGCGGGTATAGCTTAACATG 60.261 45.833 0.00 0.00 34.22 3.21
5113 7533 2.489971 TGCGGGTATAGCTTAACATGC 58.510 47.619 0.00 0.00 35.28 4.06
5114 7534 2.104111 TGCGGGTATAGCTTAACATGCT 59.896 45.455 0.00 0.00 43.79 3.79
5115 7535 3.322541 TGCGGGTATAGCTTAACATGCTA 59.677 43.478 0.00 0.00 45.49 3.49
5125 7545 6.814506 AGCTTAACATGCTATGATTCATCC 57.185 37.500 1.55 0.00 39.21 3.51
5126 7546 5.709164 AGCTTAACATGCTATGATTCATCCC 59.291 40.000 1.55 0.00 39.21 3.85
5127 7547 5.474532 GCTTAACATGCTATGATTCATCCCA 59.525 40.000 1.55 2.28 0.00 4.37
5128 7548 6.152323 GCTTAACATGCTATGATTCATCCCAT 59.848 38.462 1.55 4.52 0.00 4.00
5129 7549 7.627939 GCTTAACATGCTATGATTCATCCCATC 60.628 40.741 1.55 0.00 0.00 3.51
5130 7550 4.259356 ACATGCTATGATTCATCCCATCG 58.741 43.478 1.55 5.35 0.00 3.84
5131 7551 4.259356 CATGCTATGATTCATCCCATCGT 58.741 43.478 1.55 0.00 0.00 3.73
5132 7552 3.930336 TGCTATGATTCATCCCATCGTC 58.070 45.455 1.55 0.00 0.00 4.20
5133 7553 3.324556 TGCTATGATTCATCCCATCGTCA 59.675 43.478 1.55 0.00 0.00 4.35
5134 7554 4.019950 TGCTATGATTCATCCCATCGTCAT 60.020 41.667 1.55 0.00 0.00 3.06
5135 7555 4.940046 GCTATGATTCATCCCATCGTCATT 59.060 41.667 1.55 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
259 498 1.822371 GCCGCCTCCTTTATCCAAAAA 59.178 47.619 0.00 0.00 0.00 1.94
260 499 1.470051 GCCGCCTCCTTTATCCAAAA 58.530 50.000 0.00 0.00 0.00 2.44
365 607 3.957497 ACCATCTGACAGATCTGGAGTAC 59.043 47.826 25.40 12.09 31.32 2.73
413 655 3.739300 TGAACACTACTTTAGACAAGCGC 59.261 43.478 0.00 0.00 0.00 5.92
592 838 1.971167 GACGAGGTTGCAATGGCCA 60.971 57.895 8.56 8.56 40.13 5.36
647 894 1.241990 ATGGCTCTGCACTGCACTTG 61.242 55.000 0.00 0.00 33.79 3.16
654 901 2.729479 CCGGAGATGGCTCTGCACT 61.729 63.158 0.00 0.00 44.60 4.40
655 902 2.202987 CCGGAGATGGCTCTGCAC 60.203 66.667 0.00 0.00 44.60 4.57
656 903 2.685017 ACCGGAGATGGCTCTGCA 60.685 61.111 9.46 0.00 44.60 4.41
657 904 2.107953 GACCGGAGATGGCTCTGC 59.892 66.667 9.46 0.00 44.60 4.26
658 905 2.415010 CGACCGGAGATGGCTCTG 59.585 66.667 9.46 0.00 45.36 3.35
659 906 3.532155 GCGACCGGAGATGGCTCT 61.532 66.667 9.46 0.00 41.06 4.09
872 2173 4.777896 TCTATAGGCTGGAATGGATGTACC 59.222 45.833 0.00 0.00 39.54 3.34
874 2175 5.655394 ACTCTATAGGCTGGAATGGATGTA 58.345 41.667 0.00 0.00 0.00 2.29
875 2176 4.497516 ACTCTATAGGCTGGAATGGATGT 58.502 43.478 0.00 0.00 0.00 3.06
876 2177 5.719085 ACTACTCTATAGGCTGGAATGGATG 59.281 44.000 0.00 0.00 0.00 3.51
877 2178 5.719085 CACTACTCTATAGGCTGGAATGGAT 59.281 44.000 0.00 0.00 0.00 3.41
878 2179 5.080337 CACTACTCTATAGGCTGGAATGGA 58.920 45.833 0.00 0.00 0.00 3.41
879 2180 5.047660 GTCACTACTCTATAGGCTGGAATGG 60.048 48.000 0.00 0.00 0.00 3.16
880 2181 5.047660 GGTCACTACTCTATAGGCTGGAATG 60.048 48.000 0.00 0.00 0.00 2.67
881 2182 5.081032 GGTCACTACTCTATAGGCTGGAAT 58.919 45.833 0.00 0.00 0.00 3.01
882 2183 4.471548 GGTCACTACTCTATAGGCTGGAA 58.528 47.826 0.00 0.00 0.00 3.53
1006 2307 2.109181 GACGGCCATGGGAGCTAC 59.891 66.667 15.13 0.00 0.00 3.58
1007 2308 2.364973 TGACGGCCATGGGAGCTA 60.365 61.111 15.13 0.00 0.00 3.32
1008 2309 3.790437 CTGACGGCCATGGGAGCT 61.790 66.667 15.13 0.00 0.00 4.09
1050 2351 2.203998 AGGTGGAGGTGGAGGTGG 60.204 66.667 0.00 0.00 0.00 4.61
1051 2352 2.294078 GGAGGTGGAGGTGGAGGTG 61.294 68.421 0.00 0.00 0.00 4.00
1052 2353 2.122954 GGAGGTGGAGGTGGAGGT 59.877 66.667 0.00 0.00 0.00 3.85
1053 2354 2.122729 TGGAGGTGGAGGTGGAGG 59.877 66.667 0.00 0.00 0.00 4.30
1054 2355 2.294078 GGTGGAGGTGGAGGTGGAG 61.294 68.421 0.00 0.00 0.00 3.86
1055 2356 2.203938 GGTGGAGGTGGAGGTGGA 60.204 66.667 0.00 0.00 0.00 4.02
1056 2357 2.203998 AGGTGGAGGTGGAGGTGG 60.204 66.667 0.00 0.00 0.00 4.61
1057 2358 0.911525 ATGAGGTGGAGGTGGAGGTG 60.912 60.000 0.00 0.00 0.00 4.00
1058 2359 0.911525 CATGAGGTGGAGGTGGAGGT 60.912 60.000 0.00 0.00 0.00 3.85
1059 2360 1.910722 CATGAGGTGGAGGTGGAGG 59.089 63.158 0.00 0.00 0.00 4.30
1060 2361 1.222936 GCATGAGGTGGAGGTGGAG 59.777 63.158 0.00 0.00 0.00 3.86
1061 2362 1.229625 AGCATGAGGTGGAGGTGGA 60.230 57.895 0.00 0.00 0.00 4.02
1062 2363 1.222936 GAGCATGAGGTGGAGGTGG 59.777 63.158 0.00 0.00 0.00 4.61
1063 2364 0.617413 AAGAGCATGAGGTGGAGGTG 59.383 55.000 0.00 0.00 0.00 4.00
1064 2365 0.908198 GAAGAGCATGAGGTGGAGGT 59.092 55.000 0.00 0.00 0.00 3.85
1161 2462 2.947532 CGTGGCCTTCTCCTGCAGA 61.948 63.158 17.39 0.00 0.00 4.26
1368 2669 2.361230 TCGAGGCTCTTGAGGCGA 60.361 61.111 13.50 7.85 39.53 5.54
1419 2720 2.284258 AGGTTGGAGAGCTCGGCT 60.284 61.111 8.37 0.00 43.88 5.52
1533 2834 3.580458 GGCCTGAGAGCTGATTATCCTTA 59.420 47.826 0.00 0.00 0.00 2.69
1655 2956 2.787994 AGAGGTTGAGCACAAGAATGG 58.212 47.619 0.00 0.00 36.64 3.16
1725 3026 4.039609 TCCACATCCAGCATGTACAGATAG 59.960 45.833 0.33 0.00 44.60 2.08
1952 4201 3.741476 GCAACGAGCCAAGCCAGG 61.741 66.667 0.00 0.00 37.23 4.45
2478 4739 1.873591 GACAGGTCAATCGTTTGCACT 59.126 47.619 1.18 0.00 32.61 4.40
2485 4746 1.002087 GTTCCAGGACAGGTCAATCGT 59.998 52.381 1.41 0.00 0.00 3.73
2519 4780 1.832219 CCAATCTGCGGGGAGATCA 59.168 57.895 3.07 0.00 31.07 2.92
2547 4808 1.599576 GTCCAGAACCTCCAGCTCC 59.400 63.158 0.00 0.00 0.00 4.70
2559 4820 1.069090 GTTGTGCGACAGGTCCAGA 59.931 57.895 0.00 0.00 0.00 3.86
2562 4823 1.941812 CAAGTTGTGCGACAGGTCC 59.058 57.895 0.00 0.00 0.00 4.46
2722 4983 2.325082 GCACATGGCCGACGAAGTT 61.325 57.895 0.00 0.00 37.47 2.66
2832 5094 1.271840 ACTGATACCATGGGCGGTGT 61.272 55.000 18.09 6.42 40.39 4.16
2922 5184 1.617947 GGATCTTCCAGGCACCGACT 61.618 60.000 0.00 0.00 36.28 4.18
3060 5322 1.290324 GTCTGCGCTGAACTCCTCA 59.710 57.895 19.14 0.00 0.00 3.86
3312 5578 2.280457 GCATAGAGGCACCGCTCC 60.280 66.667 0.00 0.00 0.00 4.70
3808 6082 0.948623 CGCCCTCAAACATGTCGTCA 60.949 55.000 0.00 0.00 0.00 4.35
4033 6307 2.525629 TTGAGCCGGTCCAGGTCA 60.526 61.111 1.90 2.73 0.00 4.02
4072 6346 1.944676 GGACTCGAATGTAGCGGCG 60.945 63.158 0.51 0.51 0.00 6.46
4117 6391 7.087007 CGCTAAGCTAGTCATCAATATCTTCA 58.913 38.462 0.00 0.00 0.00 3.02
4138 6416 2.772077 TTGATAGTTTGCCACCGCTA 57.228 45.000 0.00 0.00 35.36 4.26
4145 6423 6.524101 TCCCTGTTAATTTGATAGTTTGCC 57.476 37.500 0.00 0.00 0.00 4.52
4151 6429 8.335356 CACAACGTATCCCTGTTAATTTGATAG 58.665 37.037 0.00 0.00 0.00 2.08
4154 6432 5.106475 GCACAACGTATCCCTGTTAATTTGA 60.106 40.000 0.00 0.00 0.00 2.69
4155 6433 5.092781 GCACAACGTATCCCTGTTAATTTG 58.907 41.667 0.00 0.00 0.00 2.32
4156 6434 4.762765 TGCACAACGTATCCCTGTTAATTT 59.237 37.500 0.00 0.00 0.00 1.82
4178 6461 4.202000 TGCATAAATTCCTAACCACGCATG 60.202 41.667 0.00 0.00 0.00 4.06
4201 6484 2.808919 TCATCTTCTCCCTTCACGACT 58.191 47.619 0.00 0.00 0.00 4.18
4204 6487 3.118992 TGTGATCATCTTCTCCCTTCACG 60.119 47.826 0.00 0.00 35.84 4.35
4371 6779 2.171840 ACAGAAGATAGCCGTCACACT 58.828 47.619 0.00 0.00 0.00 3.55
4396 6804 2.300433 GTACGGGGACAAAACAAAGGT 58.700 47.619 0.00 0.00 0.00 3.50
4418 6826 7.628234 AGACATCTGATTGTTTTGGAGTAGAT 58.372 34.615 0.00 0.00 0.00 1.98
4420 6828 6.314896 GGAGACATCTGATTGTTTTGGAGTAG 59.685 42.308 0.00 0.00 0.00 2.57
4472 6880 5.269991 TCTTATATTATGGGACGGAGGGAG 58.730 45.833 0.00 0.00 0.00 4.30
4473 6881 5.269991 CTCTTATATTATGGGACGGAGGGA 58.730 45.833 0.00 0.00 0.00 4.20
4474 6882 4.141914 GCTCTTATATTATGGGACGGAGGG 60.142 50.000 0.00 0.00 0.00 4.30
4475 6883 4.440250 CGCTCTTATATTATGGGACGGAGG 60.440 50.000 0.00 0.00 0.00 4.30
4476 6884 4.158025 ACGCTCTTATATTATGGGACGGAG 59.842 45.833 0.00 0.00 0.00 4.63
4478 6886 4.451629 ACGCTCTTATATTATGGGACGG 57.548 45.455 0.00 0.00 0.00 4.79
4480 6888 8.068380 GTCAAAAACGCTCTTATATTATGGGAC 58.932 37.037 0.00 0.00 0.00 4.46
4481 6889 7.771361 TGTCAAAAACGCTCTTATATTATGGGA 59.229 33.333 0.00 0.00 0.00 4.37
4482 6890 7.855904 GTGTCAAAAACGCTCTTATATTATGGG 59.144 37.037 0.00 0.00 35.42 4.00
4483 6891 8.612619 AGTGTCAAAAACGCTCTTATATTATGG 58.387 33.333 0.00 0.00 45.69 2.74
4487 6895 9.162764 ACATAGTGTCAAAAACGCTCTTATATT 57.837 29.630 0.00 0.00 45.69 1.28
4488 6896 8.718102 ACATAGTGTCAAAAACGCTCTTATAT 57.282 30.769 0.00 0.00 45.69 0.86
4489 6897 8.181487 GACATAGTGTCAAAAACGCTCTTATA 57.819 34.615 5.28 0.00 45.69 0.98
4490 6898 7.061752 GACATAGTGTCAAAAACGCTCTTAT 57.938 36.000 5.28 0.00 45.69 1.73
4491 6899 6.462073 GACATAGTGTCAAAAACGCTCTTA 57.538 37.500 5.28 0.00 45.69 2.10
4492 6900 5.344207 GACATAGTGTCAAAAACGCTCTT 57.656 39.130 5.28 0.00 45.69 2.85
4493 6901 4.992381 GACATAGTGTCAAAAACGCTCT 57.008 40.909 5.28 0.00 45.69 4.09
4529 6937 9.827198 TCCATCCCATAATATAAGAGCATTTTT 57.173 29.630 0.00 0.00 0.00 1.94
4530 6938 9.471702 CTCCATCCCATAATATAAGAGCATTTT 57.528 33.333 0.00 0.00 0.00 1.82
4531 6939 8.057623 CCTCCATCCCATAATATAAGAGCATTT 58.942 37.037 0.00 0.00 0.00 2.32
4532 6940 7.367186 CCCTCCATCCCATAATATAAGAGCATT 60.367 40.741 0.00 0.00 0.00 3.56
4533 6941 6.102321 CCCTCCATCCCATAATATAAGAGCAT 59.898 42.308 0.00 0.00 0.00 3.79
4534 6942 5.429762 CCCTCCATCCCATAATATAAGAGCA 59.570 44.000 0.00 0.00 0.00 4.26
4535 6943 5.667626 TCCCTCCATCCCATAATATAAGAGC 59.332 44.000 0.00 0.00 0.00 4.09
4536 6944 6.905776 ACTCCCTCCATCCCATAATATAAGAG 59.094 42.308 0.00 0.00 0.00 2.85
4537 6945 6.826727 ACTCCCTCCATCCCATAATATAAGA 58.173 40.000 0.00 0.00 0.00 2.10
4538 6946 8.068110 TCTACTCCCTCCATCCCATAATATAAG 58.932 40.741 0.00 0.00 0.00 1.73
4539 6947 7.961940 TCTACTCCCTCCATCCCATAATATAA 58.038 38.462 0.00 0.00 0.00 0.98
4540 6948 7.554597 TCTACTCCCTCCATCCCATAATATA 57.445 40.000 0.00 0.00 0.00 0.86
4541 6949 6.438111 TCTACTCCCTCCATCCCATAATAT 57.562 41.667 0.00 0.00 0.00 1.28
4542 6950 5.896530 TCTACTCCCTCCATCCCATAATA 57.103 43.478 0.00 0.00 0.00 0.98
4543 6951 4.785173 TCTACTCCCTCCATCCCATAAT 57.215 45.455 0.00 0.00 0.00 1.28
4544 6952 4.785173 ATCTACTCCCTCCATCCCATAA 57.215 45.455 0.00 0.00 0.00 1.90
4545 6953 4.785173 AATCTACTCCCTCCATCCCATA 57.215 45.455 0.00 0.00 0.00 2.74
4546 6954 3.663298 AATCTACTCCCTCCATCCCAT 57.337 47.619 0.00 0.00 0.00 4.00
4547 6955 4.785173 ATAATCTACTCCCTCCATCCCA 57.215 45.455 0.00 0.00 0.00 4.37
4548 6956 7.757242 AATAATAATCTACTCCCTCCATCCC 57.243 40.000 0.00 0.00 0.00 3.85
4599 7007 9.395707 CCGATACTTCAGTAACATACTAACATC 57.604 37.037 0.00 0.00 37.23 3.06
4601 7009 8.510243 TCCGATACTTCAGTAACATACTAACA 57.490 34.615 0.00 0.00 37.23 2.41
4602 7010 8.619546 ACTCCGATACTTCAGTAACATACTAAC 58.380 37.037 0.00 0.00 37.23 2.34
4603 7011 8.743085 ACTCCGATACTTCAGTAACATACTAA 57.257 34.615 0.00 0.00 37.23 2.24
4604 7012 9.265901 GTACTCCGATACTTCAGTAACATACTA 57.734 37.037 0.00 0.00 37.23 1.82
4605 7013 7.772292 TGTACTCCGATACTTCAGTAACATACT 59.228 37.037 0.00 0.00 40.28 2.12
4606 7014 7.854916 GTGTACTCCGATACTTCAGTAACATAC 59.145 40.741 0.00 0.00 33.76 2.39
4639 7047 2.257371 GTAGTGCGCGTGACTCCA 59.743 61.111 14.99 0.00 0.00 3.86
4642 7050 0.243907 ATTCAGTAGTGCGCGTGACT 59.756 50.000 8.43 13.00 0.00 3.41
4648 7056 1.421410 CGACCCATTCAGTAGTGCGC 61.421 60.000 0.00 0.00 0.00 6.09
4669 7077 6.143438 CACAGAAGATGAAACAATTTGTGCTC 59.857 38.462 2.13 4.13 0.00 4.26
4687 7095 3.389329 AGGGCACTGGTATATCACAGAAG 59.611 47.826 12.13 6.53 38.09 2.85
4698 7106 2.882229 GCATGGTAAAAGGGCACTGGTA 60.882 50.000 0.00 0.00 0.00 3.25
4738 7146 0.106519 AGGCTGTGGTTCTTGCAACT 60.107 50.000 0.00 0.00 0.00 3.16
4750 7158 0.662619 TTCGTGCTCAAAAGGCTGTG 59.337 50.000 0.00 0.00 0.00 3.66
4856 7276 2.579410 AGGTGTACATGGACCAAACC 57.421 50.000 5.38 6.79 34.36 3.27
4892 7312 6.163476 GCACACTCGGTTTATATATCCATCA 58.837 40.000 0.00 0.00 0.00 3.07
4895 7315 4.552355 CGCACACTCGGTTTATATATCCA 58.448 43.478 0.00 0.00 0.00 3.41
4912 7332 2.280119 GATATGCTCCGGCGCACA 60.280 61.111 23.54 11.61 43.61 4.57
4918 7338 2.174363 TTGCTCATGATATGCTCCGG 57.826 50.000 0.00 0.00 0.00 5.14
4939 7359 0.695803 AGGCTGGTCCATTCTAGGGG 60.696 60.000 0.00 0.00 37.29 4.79
5070 7490 4.276146 GATACGCGGACGGGGGAC 62.276 72.222 12.47 0.61 46.04 4.46
5088 7508 2.228138 TAAGCTATACCCGCAAACCG 57.772 50.000 0.00 0.00 0.00 4.44
5089 7509 3.272581 TGTTAAGCTATACCCGCAAACC 58.727 45.455 0.00 0.00 0.00 3.27
5090 7510 4.788521 GCATGTTAAGCTATACCCGCAAAC 60.789 45.833 0.00 0.00 0.00 2.93
5091 7511 3.314080 GCATGTTAAGCTATACCCGCAAA 59.686 43.478 0.00 0.00 0.00 3.68
5092 7512 2.875933 GCATGTTAAGCTATACCCGCAA 59.124 45.455 0.00 0.00 0.00 4.85
5093 7513 2.104111 AGCATGTTAAGCTATACCCGCA 59.896 45.455 0.00 0.00 41.32 5.69
5094 7514 2.767505 AGCATGTTAAGCTATACCCGC 58.232 47.619 0.00 0.00 41.32 6.13
5102 7522 5.709164 GGGATGAATCATAGCATGTTAAGCT 59.291 40.000 0.00 0.00 45.77 3.74
5103 7523 5.474532 TGGGATGAATCATAGCATGTTAAGC 59.525 40.000 0.00 0.00 0.00 3.09
5104 7524 7.413767 CGATGGGATGAATCATAGCATGTTAAG 60.414 40.741 0.00 0.00 0.00 1.85
5105 7525 6.372381 CGATGGGATGAATCATAGCATGTTAA 59.628 38.462 0.00 0.00 0.00 2.01
5106 7526 5.876460 CGATGGGATGAATCATAGCATGTTA 59.124 40.000 0.00 0.00 0.00 2.41
5107 7527 4.698780 CGATGGGATGAATCATAGCATGTT 59.301 41.667 0.00 0.00 0.00 2.71
5108 7528 4.259356 CGATGGGATGAATCATAGCATGT 58.741 43.478 0.00 0.00 0.00 3.21
5109 7529 4.259356 ACGATGGGATGAATCATAGCATG 58.741 43.478 0.00 0.00 0.00 4.06
5110 7530 4.019950 TGACGATGGGATGAATCATAGCAT 60.020 41.667 0.00 0.00 0.00 3.79
5111 7531 3.324556 TGACGATGGGATGAATCATAGCA 59.675 43.478 0.00 0.00 0.00 3.49
5112 7532 3.930336 TGACGATGGGATGAATCATAGC 58.070 45.455 0.00 0.00 0.00 2.97


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

AutoCloner maintained by Alex Coulton.