Multiple sequence alignment - TraesCS5A01G133900

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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 TraesCS5A01G133900 chr5A 100.000 3894 0 0 1 3894 300966616 300962723 0.000000e+00 7191.0
1 TraesCS5A01G133900 chr5D 94.478 3513 79 34 396 3847 226942496 226939038 0.000000e+00 5306.0
2 TraesCS5A01G133900 chr5D 93.730 319 11 3 42 359 226942894 226942584 1.640000e-128 470.0
3 TraesCS5A01G133900 chr5D 96.552 87 3 0 1 87 226942973 226942887 1.130000e-30 145.0
4 TraesCS5A01G133900 chr5D 97.561 41 1 0 355 395 226942571 226942531 1.940000e-08 71.3
5 TraesCS5A01G133900 chr5B 92.426 3565 98 57 396 3847 244975580 244979085 0.000000e+00 4929.0
6 TraesCS5A01G133900 chr5B 92.857 364 16 3 1 359 244975134 244975492 1.600000e-143 520.0
7 TraesCS5A01G133900 chr4B 75.481 1248 128 81 1738 2922 173968040 173969172 2.760000e-121 446.0
8 TraesCS5A01G133900 chr4B 79.508 244 35 6 1432 1660 173967533 173967776 4.030000e-35 159.0
9 TraesCS5A01G133900 chr4B 94.231 52 3 0 1738 1789 173967878 173967929 3.230000e-11 80.5
10 TraesCS5A01G133900 chr4A 75.281 1246 140 85 1738 2922 463924496 463923358 1.280000e-119 440.0
11 TraesCS5A01G133900 chr4D 75.020 1245 139 85 1738 2922 113236130 113237262 6.020000e-113 418.0
12 TraesCS5A01G133900 chr4D 75.410 366 59 17 1432 1789 113235569 113235911 8.720000e-32 148.0
13 TraesCS5A01G133900 chr3B 100.000 31 0 0 485 515 418659830 418659800 1.510000e-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 TraesCS5A01G133900 chr5A 300962723 300966616 3893 True 7191.000 7191 100.000000 1 3894 1 chr5A.!!$R1 3893
1 TraesCS5A01G133900 chr5D 226939038 226942973 3935 True 1498.075 5306 95.580250 1 3847 4 chr5D.!!$R1 3846
2 TraesCS5A01G133900 chr5B 244975134 244979085 3951 False 2724.500 4929 92.641500 1 3847 2 chr5B.!!$F1 3846
3 TraesCS5A01G133900 chr4B 173967533 173969172 1639 False 228.500 446 83.073333 1432 2922 3 chr4B.!!$F1 1490
4 TraesCS5A01G133900 chr4A 463923358 463924496 1138 True 440.000 440 75.281000 1738 2922 1 chr4A.!!$R1 1184
5 TraesCS5A01G133900 chr4D 113235569 113237262 1693 False 283.000 418 75.215000 1432 2922 2 chr4D.!!$F1 1490

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
245 285 0.818296 CCTCACGTCCCGAGAGAAAT 59.182 55.000 11.71 0.0 44.72 2.17 F
1235 1358 1.446272 GCGTTCTCTGTTCCTCCGG 60.446 63.158 0.00 0.0 0.00 5.14 F
1247 1370 0.981277 TCCTCCGGAATTCCCAGACC 60.981 60.000 19.01 0.0 34.14 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1247 1370 0.657312 TGTTCACTTTGAGCACGCAG 59.343 50.0 0.00 0.0 32.63 5.18 R
2407 2977 0.331278 CCATACCACCAGGAAAGCCA 59.669 55.0 0.00 0.0 38.69 4.75 R
3035 3673 1.000884 GACGACGACGATCTCAGAGT 58.999 55.0 15.32 0.0 42.66 3.24 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
73 74 6.747280 GCTGTCATAACGCATTCAACTAAAAT 59.253 34.615 0.00 0.00 0.00 1.82
87 126 9.912634 ATTCAACTAAAATGTCACTAAACATGG 57.087 29.630 0.00 0.00 39.76 3.66
218 258 6.099845 ACTTAACGGAATATTCCTCTGATGGT 59.900 38.462 27.86 15.76 45.33 3.55
228 268 4.271807 TCCTCTGATGGTCAGTTATCCT 57.728 45.455 6.83 0.00 44.58 3.24
245 285 0.818296 CCTCACGTCCCGAGAGAAAT 59.182 55.000 11.71 0.00 44.72 2.17
246 286 2.022195 CCTCACGTCCCGAGAGAAATA 58.978 52.381 11.71 0.00 44.72 1.40
247 287 2.223525 CCTCACGTCCCGAGAGAAATAC 60.224 54.545 11.71 0.00 44.72 1.89
248 288 2.683867 CTCACGTCCCGAGAGAAATACT 59.316 50.000 5.33 0.00 44.72 2.12
249 289 2.681848 TCACGTCCCGAGAGAAATACTC 59.318 50.000 0.00 0.00 45.22 2.59
250 290 2.022934 ACGTCCCGAGAGAAATACTCC 58.977 52.381 0.00 0.00 45.96 3.85
478 580 4.543590 AGGAGTAGGATTTCACACACAG 57.456 45.455 0.00 0.00 0.00 3.66
750 869 4.772100 CCTGTTCCTTTTCTCTCTCTCTCT 59.228 45.833 0.00 0.00 0.00 3.10
751 870 5.105756 CCTGTTCCTTTTCTCTCTCTCTCTC 60.106 48.000 0.00 0.00 0.00 3.20
752 871 5.640147 TGTTCCTTTTCTCTCTCTCTCTCT 58.360 41.667 0.00 0.00 0.00 3.10
753 872 5.710099 TGTTCCTTTTCTCTCTCTCTCTCTC 59.290 44.000 0.00 0.00 0.00 3.20
754 873 5.779241 TCCTTTTCTCTCTCTCTCTCTCT 57.221 43.478 0.00 0.00 0.00 3.10
755 874 5.745227 TCCTTTTCTCTCTCTCTCTCTCTC 58.255 45.833 0.00 0.00 0.00 3.20
756 875 5.488919 TCCTTTTCTCTCTCTCTCTCTCTCT 59.511 44.000 0.00 0.00 0.00 3.10
757 876 5.819901 CCTTTTCTCTCTCTCTCTCTCTCTC 59.180 48.000 0.00 0.00 0.00 3.20
758 877 6.352565 CCTTTTCTCTCTCTCTCTCTCTCTCT 60.353 46.154 0.00 0.00 0.00 3.10
759 878 5.860941 TTCTCTCTCTCTCTCTCTCTCTC 57.139 47.826 0.00 0.00 0.00 3.20
766 885 1.775039 CTCTCTCTCTCTCCGCTGCG 61.775 65.000 16.34 16.34 0.00 5.18
812 931 5.648092 GTGTGTGGGGAGATATTATATTGCC 59.352 44.000 0.00 0.00 0.00 4.52
889 1011 1.464734 TACCGCACCTTCTCTCTCAG 58.535 55.000 0.00 0.00 0.00 3.35
916 1038 3.552890 GCAATGTTTTCCTCCTGGTTGTC 60.553 47.826 0.00 0.00 34.23 3.18
957 1079 1.480954 GTCTGATTTGAGGCCTCCGTA 59.519 52.381 29.95 15.14 0.00 4.02
1068 1191 2.143122 TCAACTCAAGACATTCCGTGC 58.857 47.619 0.00 0.00 0.00 5.34
1235 1358 1.446272 GCGTTCTCTGTTCCTCCGG 60.446 63.158 0.00 0.00 0.00 5.14
1247 1370 0.981277 TCCTCCGGAATTCCCAGACC 60.981 60.000 19.01 0.00 34.14 3.85
1374 1515 2.913613 CTTCAGTTTCGCTCTTGCTTG 58.086 47.619 0.00 0.00 36.97 4.01
1379 1520 4.083855 TCAGTTTCGCTCTTGCTTGTTATG 60.084 41.667 0.00 0.00 36.97 1.90
1681 1837 1.153756 CAAGGGCCAGAAAGGTGGT 59.846 57.895 6.18 0.00 40.09 4.16
2125 2680 4.509580 AACCCCAACAACGGCGGT 62.510 61.111 13.24 0.00 32.73 5.68
2407 2977 0.816825 CTAACATGATGGGCGCTGCT 60.817 55.000 7.64 0.00 0.00 4.24
2417 2987 4.112341 GCGCTGCTGGCTTTCCTG 62.112 66.667 0.00 0.00 39.13 3.86
2418 2988 3.437795 CGCTGCTGGCTTTCCTGG 61.438 66.667 0.00 0.00 39.13 4.45
3059 3697 0.301088 GAGATCGTCGTCGTCATCGT 59.699 55.000 1.33 0.00 38.33 3.73
3354 4033 2.096496 GCTGTGGATGCATGACTACAAC 59.904 50.000 2.46 0.00 0.00 3.32
3360 4039 2.078849 TGCATGACTACAACTCCACG 57.921 50.000 0.00 0.00 0.00 4.94
3385 4067 5.416326 CACATATACTACTGGAGGGAGTAGC 59.584 48.000 7.47 0.00 46.52 3.58
3434 4116 3.686726 CAGTAGTGCCTTTAGCTTTCTGG 59.313 47.826 0.00 0.00 44.23 3.86
3446 4128 1.630244 CTTTCTGGCCTGCTTCGTCG 61.630 60.000 3.32 0.00 0.00 5.12
3447 4129 3.589654 TTCTGGCCTGCTTCGTCGG 62.590 63.158 3.32 0.00 0.00 4.79
3448 4130 4.379243 CTGGCCTGCTTCGTCGGT 62.379 66.667 3.32 0.00 0.00 4.69
3449 4131 4.680237 TGGCCTGCTTCGTCGGTG 62.680 66.667 3.32 0.00 0.00 4.94
3450 4132 4.681978 GGCCTGCTTCGTCGGTGT 62.682 66.667 0.00 0.00 0.00 4.16
3491 4176 8.613922 AGATATACTAGTCTACTACTCCTCCC 57.386 42.308 0.00 0.00 39.80 4.30
3492 4177 5.743636 ATACTAGTCTACTACTCCTCCCG 57.256 47.826 0.00 0.00 39.80 5.14
3493 4178 3.652055 ACTAGTCTACTACTCCTCCCGA 58.348 50.000 0.00 0.00 39.80 5.14
3574 4268 3.115556 CGAGCGAGGAAGGAGAGG 58.884 66.667 0.00 0.00 0.00 3.69
3575 4269 1.452289 CGAGCGAGGAAGGAGAGGA 60.452 63.158 0.00 0.00 0.00 3.71
3576 4270 1.444119 CGAGCGAGGAAGGAGAGGAG 61.444 65.000 0.00 0.00 0.00 3.69
3577 4271 0.106918 GAGCGAGGAAGGAGAGGAGA 60.107 60.000 0.00 0.00 0.00 3.71
3578 4272 0.106719 AGCGAGGAAGGAGAGGAGAG 60.107 60.000 0.00 0.00 0.00 3.20
3579 4273 1.106944 GCGAGGAAGGAGAGGAGAGG 61.107 65.000 0.00 0.00 0.00 3.69
3580 4274 0.548989 CGAGGAAGGAGAGGAGAGGA 59.451 60.000 0.00 0.00 0.00 3.71
3581 4275 1.476833 CGAGGAAGGAGAGGAGAGGAG 60.477 61.905 0.00 0.00 0.00 3.69
3582 4276 1.850345 GAGGAAGGAGAGGAGAGGAGA 59.150 57.143 0.00 0.00 0.00 3.71
3583 4277 1.852965 AGGAAGGAGAGGAGAGGAGAG 59.147 57.143 0.00 0.00 0.00 3.20
3584 4278 1.133482 GGAAGGAGAGGAGAGGAGAGG 60.133 61.905 0.00 0.00 0.00 3.69
3585 4279 1.850345 GAAGGAGAGGAGAGGAGAGGA 59.150 57.143 0.00 0.00 0.00 3.71
3586 4280 1.522900 AGGAGAGGAGAGGAGAGGAG 58.477 60.000 0.00 0.00 0.00 3.69
3587 4281 1.010793 AGGAGAGGAGAGGAGAGGAGA 59.989 57.143 0.00 0.00 0.00 3.71
3588 4282 1.421646 GGAGAGGAGAGGAGAGGAGAG 59.578 61.905 0.00 0.00 0.00 3.20
3755 4449 1.627864 AATAAACACCACCACTGCCC 58.372 50.000 0.00 0.00 0.00 5.36
3784 4484 4.790962 CTGCCTCCGCCTGCATGT 62.791 66.667 0.00 0.00 36.79 3.21
3792 4492 3.466836 CTCCGCCTGCATGTTATTTCTA 58.533 45.455 0.00 0.00 0.00 2.10
3847 4547 4.232122 TGATTCCTCTCCCTCCAACTACTA 59.768 45.833 0.00 0.00 0.00 1.82
3848 4548 3.666345 TCCTCTCCCTCCAACTACTAC 57.334 52.381 0.00 0.00 0.00 2.73
3849 4549 3.199671 TCCTCTCCCTCCAACTACTACT 58.800 50.000 0.00 0.00 0.00 2.57
3850 4550 3.202595 TCCTCTCCCTCCAACTACTACTC 59.797 52.174 0.00 0.00 0.00 2.59
3851 4551 3.558033 CTCTCCCTCCAACTACTACTCC 58.442 54.545 0.00 0.00 0.00 3.85
3852 4552 2.924302 TCTCCCTCCAACTACTACTCCA 59.076 50.000 0.00 0.00 0.00 3.86
3853 4553 3.532232 TCTCCCTCCAACTACTACTCCAT 59.468 47.826 0.00 0.00 0.00 3.41
3854 4554 3.639094 CTCCCTCCAACTACTACTCCATG 59.361 52.174 0.00 0.00 0.00 3.66
3855 4555 2.700897 CCCTCCAACTACTACTCCATGG 59.299 54.545 4.97 4.97 0.00 3.66
3856 4556 3.630054 CCCTCCAACTACTACTCCATGGA 60.630 52.174 15.27 15.27 35.74 3.41
3857 4557 4.227197 CCTCCAACTACTACTCCATGGAT 58.773 47.826 16.63 8.36 36.45 3.41
3858 4558 4.282195 CCTCCAACTACTACTCCATGGATC 59.718 50.000 16.63 0.00 36.45 3.36
3859 4559 5.144100 CTCCAACTACTACTCCATGGATCT 58.856 45.833 16.63 6.09 36.45 2.75
3860 4560 5.529289 TCCAACTACTACTCCATGGATCTT 58.471 41.667 16.63 5.37 32.28 2.40
3861 4561 5.363868 TCCAACTACTACTCCATGGATCTTG 59.636 44.000 16.63 5.99 32.28 3.02
3862 4562 4.946478 ACTACTACTCCATGGATCTTGC 57.054 45.455 16.63 0.00 0.00 4.01
3863 4563 4.551671 ACTACTACTCCATGGATCTTGCT 58.448 43.478 16.63 0.00 0.00 3.91
3864 4564 4.965532 ACTACTACTCCATGGATCTTGCTT 59.034 41.667 16.63 0.00 0.00 3.91
3865 4565 4.148128 ACTACTCCATGGATCTTGCTTG 57.852 45.455 16.63 3.11 0.00 4.01
3866 4566 2.431954 ACTCCATGGATCTTGCTTGG 57.568 50.000 16.63 2.31 34.93 3.61
3867 4567 1.637553 ACTCCATGGATCTTGCTTGGT 59.362 47.619 16.63 3.03 35.12 3.67
3868 4568 2.846206 ACTCCATGGATCTTGCTTGGTA 59.154 45.455 16.63 0.00 35.12 3.25
3869 4569 3.209410 CTCCATGGATCTTGCTTGGTAC 58.791 50.000 16.63 0.00 35.12 3.34
3870 4570 2.092429 TCCATGGATCTTGCTTGGTACC 60.092 50.000 11.44 4.43 35.12 3.34
3871 4571 1.942657 CATGGATCTTGCTTGGTACCG 59.057 52.381 7.57 0.00 0.00 4.02
3872 4572 0.392461 TGGATCTTGCTTGGTACCGC 60.392 55.000 7.57 6.10 0.00 5.68
3873 4573 0.107654 GGATCTTGCTTGGTACCGCT 60.108 55.000 7.57 0.00 0.00 5.52
3874 4574 1.291132 GATCTTGCTTGGTACCGCTC 58.709 55.000 7.57 0.00 0.00 5.03
3875 4575 0.905357 ATCTTGCTTGGTACCGCTCT 59.095 50.000 7.57 0.00 0.00 4.09
3876 4576 0.246635 TCTTGCTTGGTACCGCTCTC 59.753 55.000 7.57 0.00 0.00 3.20
3877 4577 0.247736 CTTGCTTGGTACCGCTCTCT 59.752 55.000 7.57 0.00 0.00 3.10
3878 4578 0.246635 TTGCTTGGTACCGCTCTCTC 59.753 55.000 7.57 0.00 0.00 3.20
3879 4579 0.612174 TGCTTGGTACCGCTCTCTCT 60.612 55.000 7.57 0.00 0.00 3.10
3880 4580 1.340697 TGCTTGGTACCGCTCTCTCTA 60.341 52.381 7.57 0.00 0.00 2.43
3881 4581 1.065851 GCTTGGTACCGCTCTCTCTAC 59.934 57.143 7.57 0.00 0.00 2.59
3882 4582 1.331138 CTTGGTACCGCTCTCTCTACG 59.669 57.143 7.57 0.00 0.00 3.51
3883 4583 0.251354 TGGTACCGCTCTCTCTACGT 59.749 55.000 7.57 0.00 0.00 3.57
3884 4584 1.482182 TGGTACCGCTCTCTCTACGTA 59.518 52.381 7.57 0.00 0.00 3.57
3885 4585 2.134346 GGTACCGCTCTCTCTACGTAG 58.866 57.143 16.73 16.73 0.00 3.51
3887 4587 1.654317 ACCGCTCTCTCTACGTAGTG 58.346 55.000 21.53 18.99 45.73 2.74
3888 4588 0.938713 CCGCTCTCTCTACGTAGTGG 59.061 60.000 21.53 15.26 45.73 4.00
3889 4589 1.654317 CGCTCTCTCTACGTAGTGGT 58.346 55.000 21.53 0.00 45.73 4.16
3890 4590 2.482664 CCGCTCTCTCTACGTAGTGGTA 60.483 54.545 21.53 10.22 45.73 3.25
3891 4591 2.539274 CGCTCTCTCTACGTAGTGGTAC 59.461 54.545 21.53 9.36 45.73 3.34
3892 4592 3.737663 CGCTCTCTCTACGTAGTGGTACT 60.738 52.174 21.53 0.00 45.73 2.73
3893 4593 4.498850 CGCTCTCTCTACGTAGTGGTACTA 60.499 50.000 21.53 3.05 45.73 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
50 51 7.589395 ACATTTTAGTTGAATGCGTTATGACA 58.411 30.769 0.00 0.00 37.89 3.58
73 74 5.410132 CGTTTCATACCCATGTTTAGTGACA 59.590 40.000 0.00 0.00 33.57 3.58
86 125 7.311364 ACATATACAAACACGTTTCATACCC 57.689 36.000 0.00 0.00 0.00 3.69
87 126 9.090692 ACTACATATACAAACACGTTTCATACC 57.909 33.333 0.00 0.00 0.00 2.73
245 285 6.070951 TGTTTGTAGAGCCTACTAGGAGTA 57.929 41.667 6.26 0.00 37.67 2.59
246 286 4.931914 TGTTTGTAGAGCCTACTAGGAGT 58.068 43.478 6.26 0.00 37.67 3.85
247 287 4.951094 ACTGTTTGTAGAGCCTACTAGGAG 59.049 45.833 6.26 0.00 37.67 3.69
248 288 4.931914 ACTGTTTGTAGAGCCTACTAGGA 58.068 43.478 6.26 0.00 37.67 2.94
249 289 4.951094 AGACTGTTTGTAGAGCCTACTAGG 59.049 45.833 11.92 0.00 38.80 3.02
250 290 7.337436 AGTTAGACTGTTTGTAGAGCCTACTAG 59.663 40.741 11.92 0.00 0.00 2.57
285 330 3.067470 TCATATCAGTCCCTCCCTCTCT 58.933 50.000 0.00 0.00 0.00 3.10
286 331 3.534357 TCATATCAGTCCCTCCCTCTC 57.466 52.381 0.00 0.00 0.00 3.20
478 580 3.930012 CCTCCCCTCGGCCGATTC 61.930 72.222 31.19 0.00 0.00 2.52
587 706 3.609703 GAGGCTTCCTCTCTCGCA 58.390 61.111 5.65 0.00 46.41 5.10
681 800 2.693074 GTTTGCAGAAAACCAAGAGGGA 59.307 45.455 0.00 0.00 42.06 4.20
766 885 2.544267 ACTCACACGCAAAAGAGTAAGC 59.456 45.455 0.00 0.00 39.40 3.09
812 931 2.893637 CTGGAGATAACTTGGTGTCCG 58.106 52.381 0.00 0.00 0.00 4.79
889 1011 2.751806 CAGGAGGAAAACATTGCTCTCC 59.248 50.000 9.44 0.00 39.08 3.71
916 1038 3.909574 ACGAAGAACAAACAACAACAACG 59.090 39.130 0.00 0.00 0.00 4.10
957 1079 1.681166 GCAACTGCCCAGATCTGTCAT 60.681 52.381 21.11 2.79 34.31 3.06
1068 1191 2.101249 TGGCAGCAAAAACAAGAAGGAG 59.899 45.455 0.00 0.00 0.00 3.69
1120 1243 7.648112 GGTGAAAAGAAAAGTAAAGTAAGGCAG 59.352 37.037 0.00 0.00 0.00 4.85
1235 1358 1.648467 GCACGCAGGTCTGGGAATTC 61.648 60.000 19.54 0.00 45.10 2.17
1247 1370 0.657312 TGTTCACTTTGAGCACGCAG 59.343 50.000 0.00 0.00 32.63 5.18
1391 1532 4.892433 TCTCCGTTACCGAAAATTAACCA 58.108 39.130 0.00 0.00 35.63 3.67
1392 1533 5.352293 ACATCTCCGTTACCGAAAATTAACC 59.648 40.000 0.00 0.00 35.63 2.85
1403 1544 4.693566 TGAATTCAACACATCTCCGTTACC 59.306 41.667 5.45 0.00 0.00 2.85
1698 1857 2.187946 CCTTGCTAGCACCTCCGG 59.812 66.667 19.17 9.20 0.00 5.14
2041 2590 2.282180 TTGCCGCCCTTCTTGTCC 60.282 61.111 0.00 0.00 0.00 4.02
2144 2699 0.886490 CCACCTGCGTCTTTCTTGCT 60.886 55.000 0.00 0.00 0.00 3.91
2282 2849 4.740822 CTTCCCAGGTTGGCCCGG 62.741 72.222 0.00 0.00 35.79 5.73
2407 2977 0.331278 CCATACCACCAGGAAAGCCA 59.669 55.000 0.00 0.00 38.69 4.75
2416 2986 2.367648 ATCGGGCCCATACCACCA 60.368 61.111 24.92 0.00 0.00 4.17
2417 2987 2.113139 CATCGGGCCCATACCACC 59.887 66.667 24.92 0.00 0.00 4.61
2418 2988 2.113139 CCATCGGGCCCATACCAC 59.887 66.667 24.92 0.00 0.00 4.16
2685 3291 2.568029 CGTGCGCGTTCAACATCG 60.568 61.111 12.43 0.00 0.00 3.84
2800 3418 2.972505 GGCATCGGGTACGCCATG 60.973 66.667 12.27 12.27 45.52 3.66
2952 3582 1.807142 GAAGAGAAAGGAAAGCACCCG 59.193 52.381 0.00 0.00 0.00 5.28
3032 3670 1.267632 CGACGACGATCTCAGAGTTCC 60.268 57.143 0.00 0.00 42.66 3.62
3033 3671 1.394227 ACGACGACGATCTCAGAGTTC 59.606 52.381 15.32 0.00 42.66 3.01
3034 3672 1.394227 GACGACGACGATCTCAGAGTT 59.606 52.381 15.32 0.00 42.66 3.01
3035 3673 1.000884 GACGACGACGATCTCAGAGT 58.999 55.000 15.32 0.00 42.66 3.24
3059 3697 2.678580 TGAGCCGGTGATGGACGA 60.679 61.111 1.90 0.00 0.00 4.20
3354 4033 3.568430 TCCAGTAGTATATGTGCGTGGAG 59.432 47.826 0.00 0.00 0.00 3.86
3360 4039 4.153411 ACTCCCTCCAGTAGTATATGTGC 58.847 47.826 0.00 0.00 0.00 4.57
3385 4067 5.056480 TGAGTTGACAACATTCCACTACTG 58.944 41.667 20.08 0.00 0.00 2.74
3434 4116 3.414700 CACACCGACGAAGCAGGC 61.415 66.667 0.00 0.00 0.00 4.85
3446 4128 0.472471 TTCTTCCCTCACACCACACC 59.528 55.000 0.00 0.00 0.00 4.16
3447 4129 2.158813 TCTTTCTTCCCTCACACCACAC 60.159 50.000 0.00 0.00 0.00 3.82
3448 4130 2.123589 TCTTTCTTCCCTCACACCACA 58.876 47.619 0.00 0.00 0.00 4.17
3449 4131 2.930826 TCTTTCTTCCCTCACACCAC 57.069 50.000 0.00 0.00 0.00 4.16
3450 4132 5.964477 AGTATATCTTTCTTCCCTCACACCA 59.036 40.000 0.00 0.00 0.00 4.17
3483 4165 1.990060 CACCATGGTCGGGAGGAGT 60.990 63.158 16.53 0.00 0.00 3.85
3488 4173 1.229051 TCTGTCACCATGGTCGGGA 60.229 57.895 16.53 6.89 0.00 5.14
3489 4174 1.079127 GTCTGTCACCATGGTCGGG 60.079 63.158 16.53 4.06 0.00 5.14
3490 4175 0.390340 CTGTCTGTCACCATGGTCGG 60.390 60.000 16.53 10.41 0.00 4.79
3491 4176 0.603065 TCTGTCTGTCACCATGGTCG 59.397 55.000 16.53 11.15 0.00 4.79
3492 4177 1.066573 CCTCTGTCTGTCACCATGGTC 60.067 57.143 16.53 5.38 0.00 4.02
3493 4178 0.979665 CCTCTGTCTGTCACCATGGT 59.020 55.000 13.00 13.00 0.00 3.55
3574 4268 1.145738 AGCATCCTCTCCTCTCCTCTC 59.854 57.143 0.00 0.00 0.00 3.20
3575 4269 1.234806 AGCATCCTCTCCTCTCCTCT 58.765 55.000 0.00 0.00 0.00 3.69
3576 4270 2.555227 CCTAGCATCCTCTCCTCTCCTC 60.555 59.091 0.00 0.00 0.00 3.71
3577 4271 1.428912 CCTAGCATCCTCTCCTCTCCT 59.571 57.143 0.00 0.00 0.00 3.69
3578 4272 1.146982 ACCTAGCATCCTCTCCTCTCC 59.853 57.143 0.00 0.00 0.00 3.71
3579 4273 2.238521 CACCTAGCATCCTCTCCTCTC 58.761 57.143 0.00 0.00 0.00 3.20
3580 4274 1.757405 GCACCTAGCATCCTCTCCTCT 60.757 57.143 0.00 0.00 44.79 3.69
3581 4275 0.678950 GCACCTAGCATCCTCTCCTC 59.321 60.000 0.00 0.00 44.79 3.71
3582 4276 2.833244 GCACCTAGCATCCTCTCCT 58.167 57.895 0.00 0.00 44.79 3.69
3784 4484 3.844211 ACCAGGCAGTGAGGTAGAAATAA 59.156 43.478 0.00 0.00 32.92 1.40
3792 4492 2.930562 GGGACCAGGCAGTGAGGT 60.931 66.667 0.00 0.00 38.63 3.85
3847 4547 1.637553 ACCAAGCAAGATCCATGGAGT 59.362 47.619 21.33 7.11 35.16 3.85
3848 4548 2.431954 ACCAAGCAAGATCCATGGAG 57.568 50.000 21.33 7.50 35.16 3.86
3849 4549 2.092429 GGTACCAAGCAAGATCCATGGA 60.092 50.000 18.88 18.88 35.16 3.41
3850 4550 2.301346 GGTACCAAGCAAGATCCATGG 58.699 52.381 7.15 4.97 37.19 3.66
3851 4551 1.942657 CGGTACCAAGCAAGATCCATG 59.057 52.381 13.54 0.00 0.00 3.66
3852 4552 1.747206 GCGGTACCAAGCAAGATCCAT 60.747 52.381 13.54 0.00 0.00 3.41
3853 4553 0.392461 GCGGTACCAAGCAAGATCCA 60.392 55.000 13.54 0.00 0.00 3.41
3854 4554 0.107654 AGCGGTACCAAGCAAGATCC 60.108 55.000 13.54 0.00 35.48 3.36
3855 4555 1.134670 AGAGCGGTACCAAGCAAGATC 60.135 52.381 13.54 2.40 35.48 2.75
3856 4556 0.905357 AGAGCGGTACCAAGCAAGAT 59.095 50.000 13.54 0.00 35.48 2.40
3857 4557 0.246635 GAGAGCGGTACCAAGCAAGA 59.753 55.000 13.54 0.00 35.48 3.02
3858 4558 0.247736 AGAGAGCGGTACCAAGCAAG 59.752 55.000 13.54 0.00 35.48 4.01
3859 4559 0.246635 GAGAGAGCGGTACCAAGCAA 59.753 55.000 13.54 0.00 35.48 3.91
3860 4560 0.612174 AGAGAGAGCGGTACCAAGCA 60.612 55.000 13.54 0.00 35.48 3.91
3861 4561 1.065851 GTAGAGAGAGCGGTACCAAGC 59.934 57.143 13.54 8.27 0.00 4.01
3862 4562 1.331138 CGTAGAGAGAGCGGTACCAAG 59.669 57.143 13.54 0.00 0.00 3.61
3863 4563 1.339438 ACGTAGAGAGAGCGGTACCAA 60.339 52.381 13.54 0.00 0.00 3.67
3864 4564 0.251354 ACGTAGAGAGAGCGGTACCA 59.749 55.000 13.54 0.00 0.00 3.25
3865 4565 2.134346 CTACGTAGAGAGAGCGGTACC 58.866 57.143 17.95 0.16 0.00 3.34
3866 4566 2.539274 CACTACGTAGAGAGAGCGGTAC 59.461 54.545 28.74 0.00 0.00 3.34
3867 4567 2.482664 CCACTACGTAGAGAGAGCGGTA 60.483 54.545 28.74 0.00 0.00 4.02
3868 4568 1.654317 CACTACGTAGAGAGAGCGGT 58.346 55.000 28.74 0.79 0.00 5.68
3869 4569 0.938713 CCACTACGTAGAGAGAGCGG 59.061 60.000 28.74 12.25 0.00 5.52
3870 4570 1.654317 ACCACTACGTAGAGAGAGCG 58.346 55.000 28.74 10.17 0.00 5.03
3871 4571 3.795877 AGTACCACTACGTAGAGAGAGC 58.204 50.000 28.74 13.14 0.00 4.09


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

AutoCloner maintained by Alex Coulton.