Multiple sequence alignment - TraesCS3A01G453500

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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 TraesCS3A01G453500 chr3A 100.000 3977 0 0 1 3977 691714827 691710851 0.000000e+00 7345.0
1 TraesCS3A01G453500 chr3D 97.390 3640 66 12 1 3611 554957415 554961054 0.000000e+00 6168.0
2 TraesCS3A01G453500 chr3B 95.986 3637 117 11 1 3611 737766636 737763003 0.000000e+00 5880.0
3 TraesCS3A01G453500 chr3B 94.030 201 9 2 3612 3812 737762609 737762412 6.460000e-78 302.0
4 TraesCS3A01G453500 chr5D 76.380 652 145 8 14 659 553967016 553966368 3.810000e-90 342.0
5 TraesCS3A01G453500 chr5D 74.656 655 143 23 15 656 554346131 554346775 6.550000e-68 268.0
6 TraesCS3A01G453500 chr5B 77.686 484 96 11 20 497 696438574 696439051 6.500000e-73 285.0
7 TraesCS3A01G453500 chr7A 76.864 389 78 8 227 605 729311359 729310973 4.030000e-50 209.0
8 TraesCS3A01G453500 chr7A 75.349 430 76 20 833 1258 726710511 726710108 3.160000e-41 180.0
9 TraesCS3A01G453500 chr7A 77.606 259 55 3 1008 1264 729279188 729278931 1.910000e-33 154.0
10 TraesCS3A01G453500 chrUn 80.315 254 48 2 1005 1257 248488800 248489052 1.460000e-44 191.0
11 TraesCS3A01G453500 chr7B 79.070 258 51 3 1008 1264 739395711 739395456 1.470000e-39 174.0
12 TraesCS3A01G453500 chr6B 76.250 320 71 5 2569 2887 713723480 713723795 8.840000e-37 165.0
13 TraesCS3A01G453500 chr6B 79.825 114 23 0 2267 2380 713723286 713723399 2.550000e-12 84.2
14 TraesCS3A01G453500 chr7D 76.596 282 61 4 227 506 636848134 636848412 2.480000e-32 150.0
15 TraesCS3A01G453500 chr6A 73.280 378 89 8 2581 2955 613953196 613953564 1.160000e-25 128.0
16 TraesCS3A01G453500 chr6D 78.689 122 22 4 2267 2386 467798657 467798538 1.180000e-10 78.7


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 TraesCS3A01G453500 chr3A 691710851 691714827 3976 True 7345 7345 100.000 1 3977 1 chr3A.!!$R1 3976
1 TraesCS3A01G453500 chr3D 554957415 554961054 3639 False 6168 6168 97.390 1 3611 1 chr3D.!!$F1 3610
2 TraesCS3A01G453500 chr3B 737762412 737766636 4224 True 3091 5880 95.008 1 3812 2 chr3B.!!$R1 3811
3 TraesCS3A01G453500 chr5D 553966368 553967016 648 True 342 342 76.380 14 659 1 chr5D.!!$R1 645
4 TraesCS3A01G453500 chr5D 554346131 554346775 644 False 268 268 74.656 15 656 1 chr5D.!!$F1 641

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
807 811 1.890876 AGGCACACAATTTGCGTCTA 58.109 45.0 0.0 0.0 41.18 2.59 F
1332 1336 0.034089 GGTGGAAGCTATGGTTGCCT 60.034 55.0 0.0 0.0 30.64 4.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1831 1835 2.421424 GAGGGCAGTCATTTAAGCACAG 59.579 50.000 0.00 0.0 31.46 3.66 R
3138 3143 2.430465 TCAAATGCTTGCAGAGAGACC 58.570 47.619 0.87 0.0 32.14 3.85 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
37 38 6.997476 AGGTACGGTTGAACCAATTAAGTTAA 59.003 34.615 15.58 0.00 38.47 2.01
414 415 5.885449 TTTGGATTTCACAGGGATTTGTT 57.115 34.783 0.00 0.00 0.00 2.83
456 457 4.729868 TGAGATTGGATGAGATAGGACGA 58.270 43.478 0.00 0.00 0.00 4.20
506 507 3.505293 GGCTTCTTTCAGCAGATTGAAGT 59.495 43.478 16.79 0.00 42.10 3.01
709 713 8.946085 AGTTTCAAGAGATATTGCGAAATACAA 58.054 29.630 0.00 0.00 0.00 2.41
807 811 1.890876 AGGCACACAATTTGCGTCTA 58.109 45.000 0.00 0.00 41.18 2.59
828 832 6.018669 GTCTATTACAAGTATCTGCAACTGCC 60.019 42.308 0.00 0.00 41.18 4.85
1068 1072 7.230108 TCTCTAGAAAGACTTCCGTTTCTTACA 59.770 37.037 2.87 0.00 41.96 2.41
1071 1075 6.110707 AGAAAGACTTCCGTTTCTTACAACA 58.889 36.000 0.00 0.00 39.48 3.33
1072 1076 6.596497 AGAAAGACTTCCGTTTCTTACAACAA 59.404 34.615 0.00 0.00 39.48 2.83
1109 1113 6.415573 ACCTGCGGAAAATTAGAGAAGTATT 58.584 36.000 0.00 0.00 0.00 1.89
1332 1336 0.034089 GGTGGAAGCTATGGTTGCCT 60.034 55.000 0.00 0.00 30.64 4.75
1349 1353 3.982516 TGCCTGGTCTTAGAGTACTCAT 58.017 45.455 24.44 12.01 0.00 2.90
1863 1867 3.402186 CTGCCCTCAGTTCACACAA 57.598 52.632 0.00 0.00 35.61 3.33
2028 2032 6.459710 GCCCTTATTTGAGATTTTACGGGAAG 60.460 42.308 0.00 0.00 0.00 3.46
2190 2194 7.281774 GGACAAGTTGTGATCAGTCATTATGAT 59.718 37.037 14.57 0.00 40.08 2.45
2758 2762 3.809279 GTCCCTGCAAAACCTTGAATTTG 59.191 43.478 0.00 0.00 39.08 2.32
3138 3143 0.584054 GCGTCGTGCTAAAATGAGCG 60.584 55.000 0.00 0.00 45.99 5.03
3385 3394 6.736794 GCAGAGTTTTGATTTCACACCAGAAT 60.737 38.462 0.00 0.00 0.00 2.40
3395 3404 3.444029 TCACACCAGAATCTCATCCTCA 58.556 45.455 0.00 0.00 0.00 3.86
3396 3405 3.840078 TCACACCAGAATCTCATCCTCAA 59.160 43.478 0.00 0.00 0.00 3.02
3398 3407 3.204526 CACCAGAATCTCATCCTCAAGC 58.795 50.000 0.00 0.00 0.00 4.01
3400 3409 3.204526 CCAGAATCTCATCCTCAAGCAC 58.795 50.000 0.00 0.00 0.00 4.40
3402 3411 4.121317 CAGAATCTCATCCTCAAGCACTC 58.879 47.826 0.00 0.00 0.00 3.51
3403 3412 3.773667 AGAATCTCATCCTCAAGCACTCA 59.226 43.478 0.00 0.00 0.00 3.41
3405 3414 5.601729 AGAATCTCATCCTCAAGCACTCATA 59.398 40.000 0.00 0.00 0.00 2.15
3406 3415 6.270463 AGAATCTCATCCTCAAGCACTCATAT 59.730 38.462 0.00 0.00 0.00 1.78
3408 3417 6.983906 TCTCATCCTCAAGCACTCATATTA 57.016 37.500 0.00 0.00 0.00 0.98
3409 3418 7.365497 TCTCATCCTCAAGCACTCATATTAA 57.635 36.000 0.00 0.00 0.00 1.40
3411 3420 7.876582 TCTCATCCTCAAGCACTCATATTAATG 59.123 37.037 0.00 0.00 0.00 1.90
3412 3421 7.738847 TCATCCTCAAGCACTCATATTAATGA 58.261 34.615 0.00 0.00 39.87 2.57
3413 3422 7.658982 TCATCCTCAAGCACTCATATTAATGAC 59.341 37.037 0.00 0.00 37.20 3.06
3465 3485 2.036733 ACACGTTCGGATTTCTGGAAGA 59.963 45.455 0.00 0.00 44.68 2.87
3496 3516 9.364989 TGGTAATTTTTGCTCTATTATTGTTGC 57.635 29.630 0.00 0.00 0.00 4.17
3502 3522 4.209538 TGCTCTATTATTGTTGCCATGCT 58.790 39.130 0.00 0.00 0.00 3.79
3507 3527 7.263100 TCTATTATTGTTGCCATGCTAACTG 57.737 36.000 10.41 0.00 0.00 3.16
3525 3545 3.420839 CTGAAAGCAGTCAACGGTTTT 57.579 42.857 0.00 0.00 37.37 2.43
3551 3585 4.680975 GCCCAGTAGGTCAGTCTGTAATTC 60.681 50.000 0.00 0.00 38.26 2.17
3558 3592 9.750783 AGTAGGTCAGTCTGTAATTCTAAACTA 57.249 33.333 0.00 0.00 0.00 2.24
3656 4083 6.563422 TGTAATGCTTGAATGCCTAACAATC 58.437 36.000 0.00 0.00 0.00 2.67
3657 4084 5.927281 AATGCTTGAATGCCTAACAATCT 57.073 34.783 0.00 0.00 0.00 2.40
3659 4086 4.334552 TGCTTGAATGCCTAACAATCTGA 58.665 39.130 0.00 0.00 0.00 3.27
3686 4113 5.013704 TGGGAGCTTTTGTTTATCTCCACTA 59.986 40.000 8.60 0.00 43.80 2.74
3768 4195 5.324409 AGGATGTACAGCTTGGAAATTCAA 58.676 37.500 11.48 0.00 0.00 2.69
3775 4202 4.202151 ACAGCTTGGAAATTCAAACTGGAC 60.202 41.667 12.36 0.00 42.11 4.02
3785 4212 7.970614 GGAAATTCAAACTGGACTTATGTCATC 59.029 37.037 10.60 0.00 44.61 2.92
3787 4214 8.641498 AATTCAAACTGGACTTATGTCATCTT 57.359 30.769 10.60 0.00 44.61 2.40
3800 4227 9.778741 ACTTATGTCATCTTGTAGACTGAAAAA 57.221 29.630 0.00 0.00 35.81 1.94
3843 4270 9.874205 TTCCAATTTGTATTGAATCATTCCTTC 57.126 29.630 0.00 0.00 43.12 3.46
3844 4271 8.477256 TCCAATTTGTATTGAATCATTCCTTCC 58.523 33.333 0.00 0.00 43.12 3.46
3845 4272 8.259411 CCAATTTGTATTGAATCATTCCTTCCA 58.741 33.333 0.00 0.00 43.12 3.53
3846 4273 9.090692 CAATTTGTATTGAATCATTCCTTCCAC 57.909 33.333 0.00 0.00 43.12 4.02
3847 4274 6.773976 TTGTATTGAATCATTCCTTCCACC 57.226 37.500 0.00 0.00 0.00 4.61
3848 4275 6.078456 TGTATTGAATCATTCCTTCCACCT 57.922 37.500 0.00 0.00 0.00 4.00
3849 4276 5.887598 TGTATTGAATCATTCCTTCCACCTG 59.112 40.000 0.00 0.00 0.00 4.00
3850 4277 4.656100 TTGAATCATTCCTTCCACCTGA 57.344 40.909 0.00 0.00 0.00 3.86
3851 4278 4.656100 TGAATCATTCCTTCCACCTGAA 57.344 40.909 0.00 0.00 0.00 3.02
3859 4286 4.127918 TCCTTCCACCTGAAGTAGAAGA 57.872 45.455 3.09 0.00 44.30 2.87
3860 4287 3.833070 TCCTTCCACCTGAAGTAGAAGAC 59.167 47.826 3.09 0.00 44.30 3.01
3861 4288 3.835395 CCTTCCACCTGAAGTAGAAGACT 59.165 47.826 3.09 0.00 44.30 3.24
3895 4322 9.953565 TTGGTGTTAGTTGCTTCTAAATATAGT 57.046 29.630 3.53 0.00 32.70 2.12
3903 4330 9.699703 AGTTGCTTCTAAATATAGTAAGCTAGC 57.300 33.333 6.62 6.62 39.88 3.42
3904 4331 9.699703 GTTGCTTCTAAATATAGTAAGCTAGCT 57.300 33.333 12.68 12.68 39.88 3.32
3905 4332 9.915629 TTGCTTCTAAATATAGTAAGCTAGCTC 57.084 33.333 19.65 6.50 39.88 4.09
3906 4333 9.303116 TGCTTCTAAATATAGTAAGCTAGCTCT 57.697 33.333 19.65 14.36 39.88 4.09
3915 4342 9.802039 ATATAGTAAGCTAGCTCTTAGAACACT 57.198 33.333 19.65 12.58 0.00 3.55
3916 4343 6.202516 AGTAAGCTAGCTCTTAGAACACTG 57.797 41.667 19.65 0.00 0.00 3.66
3917 4344 5.712917 AGTAAGCTAGCTCTTAGAACACTGT 59.287 40.000 19.65 0.00 0.00 3.55
3918 4345 6.885376 AGTAAGCTAGCTCTTAGAACACTGTA 59.115 38.462 19.65 0.00 0.00 2.74
3919 4346 5.828299 AGCTAGCTCTTAGAACACTGTAG 57.172 43.478 12.68 0.00 0.00 2.74
3920 4347 5.502079 AGCTAGCTCTTAGAACACTGTAGA 58.498 41.667 12.68 0.00 0.00 2.59
3921 4348 5.946972 AGCTAGCTCTTAGAACACTGTAGAA 59.053 40.000 12.68 0.00 0.00 2.10
3922 4349 6.031471 GCTAGCTCTTAGAACACTGTAGAAC 58.969 44.000 7.70 0.00 0.00 3.01
3923 4350 6.349445 GCTAGCTCTTAGAACACTGTAGAACA 60.349 42.308 7.70 0.00 0.00 3.18
3924 4351 6.597832 AGCTCTTAGAACACTGTAGAACAT 57.402 37.500 0.00 0.00 0.00 2.71
3925 4352 6.393990 AGCTCTTAGAACACTGTAGAACATG 58.606 40.000 0.00 0.00 0.00 3.21
3926 4353 6.015010 AGCTCTTAGAACACTGTAGAACATGT 60.015 38.462 0.00 0.00 0.00 3.21
3927 4354 6.647067 GCTCTTAGAACACTGTAGAACATGTT 59.353 38.462 11.78 11.78 34.75 2.71
3928 4355 7.359598 GCTCTTAGAACACTGTAGAACATGTTG 60.360 40.741 17.58 3.36 33.38 3.33
3929 4356 7.722363 TCTTAGAACACTGTAGAACATGTTGA 58.278 34.615 17.58 0.09 33.38 3.18
3930 4357 7.867909 TCTTAGAACACTGTAGAACATGTTGAG 59.132 37.037 17.58 8.68 33.38 3.02
3931 4358 4.752101 AGAACACTGTAGAACATGTTGAGC 59.248 41.667 17.58 1.22 33.38 4.26
3932 4359 3.403038 ACACTGTAGAACATGTTGAGCC 58.597 45.455 17.58 0.81 0.00 4.70
3933 4360 3.181455 ACACTGTAGAACATGTTGAGCCA 60.181 43.478 17.58 6.26 0.00 4.75
3934 4361 3.814842 CACTGTAGAACATGTTGAGCCAA 59.185 43.478 17.58 0.00 0.00 4.52
3935 4362 4.456911 CACTGTAGAACATGTTGAGCCAAT 59.543 41.667 17.58 0.00 0.00 3.16
3936 4363 5.643348 CACTGTAGAACATGTTGAGCCAATA 59.357 40.000 17.58 0.00 0.00 1.90
3937 4364 6.317140 CACTGTAGAACATGTTGAGCCAATAT 59.683 38.462 17.58 0.00 0.00 1.28
3938 4365 6.886459 ACTGTAGAACATGTTGAGCCAATATT 59.114 34.615 17.58 0.00 0.00 1.28
3939 4366 8.046708 ACTGTAGAACATGTTGAGCCAATATTA 58.953 33.333 17.58 0.00 0.00 0.98
3940 4367 8.800370 TGTAGAACATGTTGAGCCAATATTAA 57.200 30.769 17.58 0.00 0.00 1.40
3941 4368 9.237187 TGTAGAACATGTTGAGCCAATATTAAA 57.763 29.630 17.58 0.00 0.00 1.52
3942 4369 9.503427 GTAGAACATGTTGAGCCAATATTAAAC 57.497 33.333 17.58 0.00 0.00 2.01
3943 4370 8.353423 AGAACATGTTGAGCCAATATTAAACT 57.647 30.769 17.58 0.00 0.00 2.66
3944 4371 9.461312 AGAACATGTTGAGCCAATATTAAACTA 57.539 29.630 17.58 0.00 0.00 2.24
3974 4401 8.738645 AGGATCAGTATTCCTTTTGTTACATC 57.261 34.615 0.00 0.00 40.84 3.06
3975 4402 8.328758 AGGATCAGTATTCCTTTTGTTACATCA 58.671 33.333 0.00 0.00 40.84 3.07
3976 4403 8.956426 GGATCAGTATTCCTTTTGTTACATCAA 58.044 33.333 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
37 38 5.796424 AAATCATCTTCTTGCAAACCAGT 57.204 34.783 0.00 0.00 0.00 4.00
414 415 8.768501 ATCTCATACCTGAATGACTACACTTA 57.231 34.615 0.00 0.00 32.51 2.24
506 507 7.224297 AGTTTGATTGTTTGAAGAGTAGCCTA 58.776 34.615 0.00 0.00 0.00 3.93
717 721 9.710900 AAGACCAATGATCTCAAATTTTTAACC 57.289 29.630 0.00 0.00 0.00 2.85
807 811 3.623060 CGGCAGTTGCAGATACTTGTAAT 59.377 43.478 6.43 0.00 44.36 1.89
828 832 2.548920 GCATAGGAAGGAATGAGACCCG 60.549 54.545 0.00 0.00 0.00 5.28
1109 1113 2.507058 AGCTCCTGCAATGATGGAACTA 59.493 45.455 0.00 0.00 42.74 2.24
1332 1336 9.916360 TTGATTACTATGAGTACTCTAAGACCA 57.084 33.333 23.01 13.45 33.21 4.02
1818 1822 3.515602 AAGCACAGTTCCTTCAGGATT 57.484 42.857 0.00 0.00 44.98 3.01
1831 1835 2.421424 GAGGGCAGTCATTTAAGCACAG 59.579 50.000 0.00 0.00 31.46 3.66
1857 1861 7.388776 TCTTCCTCTTCAATCTGTAATTGTGTG 59.611 37.037 0.00 0.00 0.00 3.82
1863 1867 7.911651 TGTTCTCTTCCTCTTCAATCTGTAAT 58.088 34.615 0.00 0.00 0.00 1.89
2028 2032 5.106118 GGTAAATCCAGCAAAGTCTTCCTTC 60.106 44.000 0.00 0.00 35.97 3.46
2190 2194 4.960938 AGCAGAGTGATAGTGTTTTGTGA 58.039 39.130 0.00 0.00 0.00 3.58
2295 2299 5.018240 CGAATTCTCAAATCTTCAAGCGAC 58.982 41.667 3.52 0.00 0.00 5.19
2758 2762 5.856126 TGTACGAGGTTGAAACAATCATC 57.144 39.130 0.00 0.00 38.03 2.92
3138 3143 2.430465 TCAAATGCTTGCAGAGAGACC 58.570 47.619 0.87 0.00 32.14 3.85
3336 3341 9.890629 TGCAGAATAAGACAAGTACTATTTGAT 57.109 29.630 0.00 0.00 0.00 2.57
3337 3342 9.371136 CTGCAGAATAAGACAAGTACTATTTGA 57.629 33.333 8.42 0.00 0.00 2.69
3338 3343 9.371136 TCTGCAGAATAAGACAAGTACTATTTG 57.629 33.333 15.67 0.00 0.00 2.32
3339 3344 9.593134 CTCTGCAGAATAAGACAAGTACTATTT 57.407 33.333 18.85 0.00 0.00 1.40
3341 3346 8.299990 ACTCTGCAGAATAAGACAAGTACTAT 57.700 34.615 18.85 0.00 0.00 2.12
3344 3349 7.659652 AAACTCTGCAGAATAAGACAAGTAC 57.340 36.000 18.85 0.00 0.00 2.73
3385 3394 5.883685 AATATGAGTGCTTGAGGATGAGA 57.116 39.130 0.00 0.00 0.00 3.27
3411 3420 8.081633 CAGAGATTAGATTATGAGACACCAGTC 58.918 40.741 0.00 0.00 45.31 3.51
3412 3421 7.471260 GCAGAGATTAGATTATGAGACACCAGT 60.471 40.741 0.00 0.00 0.00 4.00
3413 3422 6.867816 GCAGAGATTAGATTATGAGACACCAG 59.132 42.308 0.00 0.00 0.00 4.00
3430 3450 4.804139 CCGAACGTGTTAATAGCAGAGATT 59.196 41.667 0.00 0.00 0.00 2.40
3447 3467 4.213482 AGTTTTCTTCCAGAAATCCGAACG 59.787 41.667 0.00 0.00 43.06 3.95
3493 3513 2.229543 CTGCTTTCAGTTAGCATGGCAA 59.770 45.455 0.00 0.00 46.63 4.52
3507 3527 2.857748 CCAAAAACCGTTGACTGCTTTC 59.142 45.455 0.00 0.00 0.00 2.62
3520 3540 1.254026 GACCTACTGGGCCAAAAACC 58.746 55.000 8.04 0.00 39.10 3.27
3525 3545 0.178903 AGACTGACCTACTGGGCCAA 60.179 55.000 8.04 0.00 42.00 4.52
3540 3560 9.036980 ACACCATCTAGTTTAGAATTACAGACT 57.963 33.333 0.00 0.00 38.50 3.24
3543 3563 8.041323 ACCACACCATCTAGTTTAGAATTACAG 58.959 37.037 0.00 0.00 38.50 2.74
3551 3585 6.878923 TGATGAAACCACACCATCTAGTTTAG 59.121 38.462 0.00 0.00 37.97 1.85
3558 3592 4.221262 CCATTTGATGAAACCACACCATCT 59.779 41.667 0.00 0.00 37.97 2.90
3656 4083 5.474876 AGATAAACAAAAGCTCCCAAGTCAG 59.525 40.000 0.00 0.00 0.00 3.51
3657 4084 5.385198 AGATAAACAAAAGCTCCCAAGTCA 58.615 37.500 0.00 0.00 0.00 3.41
3659 4086 4.767409 GGAGATAAACAAAAGCTCCCAAGT 59.233 41.667 0.00 0.00 39.33 3.16
3701 4128 9.632638 ATTATGAGAAAGTTGCCTTACATACAT 57.367 29.630 0.00 0.00 0.00 2.29
3741 4168 6.759497 ATTTCCAAGCTGTACATCCTTAAC 57.241 37.500 0.00 0.00 0.00 2.01
3742 4169 6.945435 TGAATTTCCAAGCTGTACATCCTTAA 59.055 34.615 0.00 0.00 0.00 1.85
3758 4185 6.775142 TGACATAAGTCCAGTTTGAATTTCCA 59.225 34.615 0.00 0.00 44.33 3.53
3768 4195 7.179338 AGTCTACAAGATGACATAAGTCCAGTT 59.821 37.037 0.00 0.00 44.33 3.16
3817 4244 9.874205 GAAGGAATGATTCAATACAAATTGGAA 57.126 29.630 7.56 0.00 42.40 3.53
3818 4245 8.477256 GGAAGGAATGATTCAATACAAATTGGA 58.523 33.333 7.56 0.00 42.40 3.53
3819 4246 8.259411 TGGAAGGAATGATTCAATACAAATTGG 58.741 33.333 7.56 0.00 42.40 3.16
3820 4247 9.090692 GTGGAAGGAATGATTCAATACAAATTG 57.909 33.333 7.56 0.00 43.32 2.32
3821 4248 8.260114 GGTGGAAGGAATGATTCAATACAAATT 58.740 33.333 7.56 0.00 0.00 1.82
3822 4249 7.620888 AGGTGGAAGGAATGATTCAATACAAAT 59.379 33.333 7.56 0.00 0.00 2.32
3823 4250 6.953520 AGGTGGAAGGAATGATTCAATACAAA 59.046 34.615 7.56 0.00 0.00 2.83
3824 4251 6.377996 CAGGTGGAAGGAATGATTCAATACAA 59.622 38.462 7.56 0.00 0.00 2.41
3825 4252 5.887598 CAGGTGGAAGGAATGATTCAATACA 59.112 40.000 7.56 0.00 0.00 2.29
3826 4253 6.122277 TCAGGTGGAAGGAATGATTCAATAC 58.878 40.000 7.56 0.00 0.00 1.89
3827 4254 6.325993 TCAGGTGGAAGGAATGATTCAATA 57.674 37.500 7.56 0.00 0.00 1.90
3828 4255 5.197224 TCAGGTGGAAGGAATGATTCAAT 57.803 39.130 7.56 0.00 0.00 2.57
3829 4256 4.656100 TCAGGTGGAAGGAATGATTCAA 57.344 40.909 7.56 0.00 0.00 2.69
3830 4257 4.656100 TTCAGGTGGAAGGAATGATTCA 57.344 40.909 7.56 0.00 0.00 2.57
3869 4296 9.953565 ACTATATTTAGAAGCAACTAACACCAA 57.046 29.630 0.00 0.00 32.99 3.67
3877 4304 9.699703 GCTAGCTTACTATATTTAGAAGCAACT 57.300 33.333 7.70 9.29 39.03 3.16
3878 4305 9.699703 AGCTAGCTTACTATATTTAGAAGCAAC 57.300 33.333 12.68 12.60 39.03 4.17
3879 4306 9.915629 GAGCTAGCTTACTATATTTAGAAGCAA 57.084 33.333 20.42 2.91 39.03 3.91
3880 4307 9.303116 AGAGCTAGCTTACTATATTTAGAAGCA 57.697 33.333 20.42 10.82 39.03 3.91
3889 4316 9.802039 AGTGTTCTAAGAGCTAGCTTACTATAT 57.198 33.333 20.42 0.08 0.00 0.86
3890 4317 9.058174 CAGTGTTCTAAGAGCTAGCTTACTATA 57.942 37.037 20.42 7.13 0.00 1.31
3891 4318 7.558444 ACAGTGTTCTAAGAGCTAGCTTACTAT 59.442 37.037 20.42 6.32 0.00 2.12
3892 4319 6.885376 ACAGTGTTCTAAGAGCTAGCTTACTA 59.115 38.462 20.42 9.64 0.00 1.82
3893 4320 5.712917 ACAGTGTTCTAAGAGCTAGCTTACT 59.287 40.000 20.42 9.59 0.00 2.24
3894 4321 5.956642 ACAGTGTTCTAAGAGCTAGCTTAC 58.043 41.667 20.42 7.04 0.00 2.34
3895 4322 7.110810 TCTACAGTGTTCTAAGAGCTAGCTTA 58.889 38.462 20.42 7.36 0.00 3.09
3896 4323 5.946972 TCTACAGTGTTCTAAGAGCTAGCTT 59.053 40.000 20.42 6.41 0.00 3.74
3897 4324 5.502079 TCTACAGTGTTCTAAGAGCTAGCT 58.498 41.667 19.45 19.45 0.00 3.32
3898 4325 5.821516 TCTACAGTGTTCTAAGAGCTAGC 57.178 43.478 6.62 6.62 0.00 3.42
3899 4326 7.147143 TGTTCTACAGTGTTCTAAGAGCTAG 57.853 40.000 0.00 0.00 0.00 3.42
3900 4327 7.176865 ACATGTTCTACAGTGTTCTAAGAGCTA 59.823 37.037 0.00 0.00 0.00 3.32
3901 4328 6.015010 ACATGTTCTACAGTGTTCTAAGAGCT 60.015 38.462 0.00 0.00 0.00 4.09
3902 4329 6.159988 ACATGTTCTACAGTGTTCTAAGAGC 58.840 40.000 0.00 0.59 0.00 4.09
3903 4330 7.867909 TCAACATGTTCTACAGTGTTCTAAGAG 59.132 37.037 8.48 0.00 32.00 2.85
3904 4331 7.722363 TCAACATGTTCTACAGTGTTCTAAGA 58.278 34.615 8.48 0.00 32.00 2.10
3905 4332 7.359598 GCTCAACATGTTCTACAGTGTTCTAAG 60.360 40.741 8.48 0.00 32.00 2.18
3906 4333 6.423905 GCTCAACATGTTCTACAGTGTTCTAA 59.576 38.462 8.48 0.00 32.00 2.10
3907 4334 5.926542 GCTCAACATGTTCTACAGTGTTCTA 59.073 40.000 8.48 0.00 32.00 2.10
3908 4335 4.752101 GCTCAACATGTTCTACAGTGTTCT 59.248 41.667 8.48 0.00 32.00 3.01
3909 4336 4.083802 GGCTCAACATGTTCTACAGTGTTC 60.084 45.833 8.48 0.00 32.00 3.18
3910 4337 3.815401 GGCTCAACATGTTCTACAGTGTT 59.185 43.478 8.48 0.00 33.42 3.32
3911 4338 3.181455 TGGCTCAACATGTTCTACAGTGT 60.181 43.478 8.48 0.00 0.00 3.55
3912 4339 3.402110 TGGCTCAACATGTTCTACAGTG 58.598 45.455 8.48 0.00 0.00 3.66
3913 4340 3.769739 TGGCTCAACATGTTCTACAGT 57.230 42.857 8.48 0.00 0.00 3.55
3914 4341 6.932356 ATATTGGCTCAACATGTTCTACAG 57.068 37.500 8.48 3.74 0.00 2.74
3915 4342 8.800370 TTAATATTGGCTCAACATGTTCTACA 57.200 30.769 8.48 2.98 0.00 2.74
3916 4343 9.503427 GTTTAATATTGGCTCAACATGTTCTAC 57.497 33.333 8.48 0.25 0.00 2.59
3917 4344 9.461312 AGTTTAATATTGGCTCAACATGTTCTA 57.539 29.630 8.48 0.00 0.00 2.10
3918 4345 8.353423 AGTTTAATATTGGCTCAACATGTTCT 57.647 30.769 8.48 0.00 0.00 3.01
3950 4377 8.506168 TGATGTAACAAAAGGAATACTGATCC 57.494 34.615 0.00 0.00 37.22 3.36


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

AutoCloner maintained by Alex Coulton.