Multiple sequence alignment - TraesCS1B01G294700

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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 TraesCS1B01G294700 chr1B 100.000 4065 0 0 1 4065 512638130 512634066 0.000000e+00 7507.0
1 TraesCS1B01G294700 chr1B 93.750 160 9 1 4 162 512690740 512690581 5.250000e-59 239.0
2 TraesCS1B01G294700 chr1B 91.549 71 3 1 429 496 512637636 512637566 1.200000e-15 95.3
3 TraesCS1B01G294700 chr1B 91.549 71 3 1 495 565 512637702 512637635 1.200000e-15 95.3
4 TraesCS1B01G294700 chr1D 92.803 2918 123 29 495 3356 382726524 382723638 0.000000e+00 4145.0
5 TraesCS1B01G294700 chr1D 92.396 434 22 3 3643 4065 382723625 382723192 3.470000e-170 608.0
6 TraesCS1B01G294700 chr1D 93.768 353 20 2 1 351 382727600 382727248 2.780000e-146 529.0
7 TraesCS1B01G294700 chr1D 94.118 153 8 1 344 496 382726609 382726458 8.790000e-57 231.0
8 TraesCS1B01G294700 chr1A 87.962 1487 101 39 495 1971 482780713 482779295 0.000000e+00 1683.0
9 TraesCS1B01G294700 chr1A 92.851 1133 58 10 1969 3088 482778652 482777530 0.000000e+00 1622.0
10 TraesCS1B01G294700 chr1A 93.028 961 55 10 3112 4065 482772363 482771408 0.000000e+00 1393.0
11 TraesCS1B01G294700 chr1A 92.742 496 34 2 3 496 482781141 482780646 0.000000e+00 715.0
12 TraesCS1B01G294700 chr3A 100.000 61 0 0 1179 1239 605169032 605169092 3.320000e-21 113.0
13 TraesCS1B01G294700 chr3A 95.000 60 3 0 1352 1411 605169165 605169224 1.200000e-15 95.3
14 TraesCS1B01G294700 chr3D 98.387 62 1 0 1179 1240 462233706 462233767 4.300000e-20 110.0
15 TraesCS1B01G294700 chr3D 96.552 58 2 0 1354 1411 462233855 462233912 3.340000e-16 97.1
16 TraesCS1B01G294700 chr3B 98.387 62 1 0 1179 1240 613802687 613802748 4.300000e-20 110.0
17 TraesCS1B01G294700 chr3B 96.667 60 2 0 1352 1411 613802829 613802888 2.590000e-17 100.0


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 TraesCS1B01G294700 chr1B 512634066 512638130 4064 True 2565.866667 7507 94.36600 1 4065 3 chr1B.!!$R2 4064
1 TraesCS1B01G294700 chr1D 382723192 382727600 4408 True 1378.250000 4145 93.27125 1 4065 4 chr1D.!!$R1 4064
2 TraesCS1B01G294700 chr1A 482771408 482772363 955 True 1393.000000 1393 93.02800 3112 4065 1 chr1A.!!$R1 953
3 TraesCS1B01G294700 chr1A 482777530 482781141 3611 True 1340.000000 1683 91.18500 3 3088 3 chr1A.!!$R2 3085

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
544 1193 0.324943 ACGGGACTATTTGTGCAGCT 59.675 50.000 0.0 0.0 38.87 4.24 F
1091 1755 0.179116 CCCTGTCGCTCACTCATCTG 60.179 60.000 0.0 0.0 0.00 2.90 F
1326 1990 1.078426 CGCCAGGGAATTTCGGTCT 60.078 57.895 0.0 0.0 0.00 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1347 2014 0.253044 CCTCCTTCGCCTGAAATGGA 59.747 55.0 0.00 0.0 32.66 3.41 R
2763 4132 0.537828 TTCTCTGCTGCATTGTGGCA 60.538 50.0 1.31 0.0 42.53 4.92 R
3263 4637 0.619255 TTCAGGATACCCAAGGGCGA 60.619 55.0 4.70 0.0 39.32 5.54 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
65 67 2.666190 CGGTGACAGGGTGTGCTG 60.666 66.667 0.00 0.00 0.00 4.41
137 139 1.039856 GCAAGTCCAAGCTGGGAAAA 58.960 50.000 12.79 0.00 39.05 2.29
139 141 1.000171 CAAGTCCAAGCTGGGAAAAGC 60.000 52.381 12.79 0.00 43.88 3.51
145 147 3.070576 GCTGGGAAAAGCGGGCAT 61.071 61.111 0.00 0.00 32.56 4.40
176 178 3.504520 GGGCGTGAAAGAAATAGGTTCAA 59.495 43.478 0.00 0.00 38.86 2.69
190 192 1.068055 GGTTCAACTCAGCTGCCATTG 60.068 52.381 9.47 12.85 0.00 2.82
197 199 1.171549 TCAGCTGCCATTGTTTCGCA 61.172 50.000 9.47 0.00 0.00 5.10
207 210 3.121058 CCATTGTTTCGCAAAATTCGGTG 60.121 43.478 0.00 0.00 40.91 4.94
211 214 1.456196 TTCGCAAAATTCGGTGGGCA 61.456 50.000 0.00 0.00 0.00 5.36
240 243 2.044650 TGGGGATCTTGCAGCTGC 60.045 61.111 31.89 31.89 42.50 5.25
254 257 1.598962 GCTGCTGCAGTTGTGGAGA 60.599 57.895 28.50 0.00 44.77 3.71
296 299 7.171167 CAGCGAACTTACTATACTACTAGCAGA 59.829 40.741 0.00 0.00 0.00 4.26
313 316 2.689983 GCAGATTACTGGGGGTTGATTG 59.310 50.000 0.00 0.00 43.62 2.67
335 338 4.996122 TGCCTTTGGAACAGCAATTTATTG 59.004 37.500 0.00 0.00 42.39 1.90
365 1014 4.482030 AGCAGACTGGTGATCTCTATCAT 58.518 43.478 6.31 0.00 43.87 2.45
540 1189 5.366829 AAAAAGTACGGGACTATTTGTGC 57.633 39.130 0.00 0.00 37.44 4.57
541 1190 3.688694 AAGTACGGGACTATTTGTGCA 57.311 42.857 0.00 0.00 37.44 4.57
542 1191 3.247006 AGTACGGGACTATTTGTGCAG 57.753 47.619 0.00 0.00 38.87 4.41
543 1192 1.664151 GTACGGGACTATTTGTGCAGC 59.336 52.381 0.00 0.00 38.87 5.25
544 1193 0.324943 ACGGGACTATTTGTGCAGCT 59.675 50.000 0.00 0.00 38.87 4.24
632 1288 8.442660 AATACCCCTGTTAATTTTCATTTCCA 57.557 30.769 0.00 0.00 0.00 3.53
633 1289 6.358974 ACCCCTGTTAATTTTCATTTCCAG 57.641 37.500 0.00 0.00 0.00 3.86
634 1290 6.081356 ACCCCTGTTAATTTTCATTTCCAGA 58.919 36.000 0.00 0.00 0.00 3.86
635 1291 6.211384 ACCCCTGTTAATTTTCATTTCCAGAG 59.789 38.462 0.00 0.00 0.00 3.35
636 1292 6.211384 CCCCTGTTAATTTTCATTTCCAGAGT 59.789 38.462 0.00 0.00 0.00 3.24
637 1293 7.396055 CCCCTGTTAATTTTCATTTCCAGAGTA 59.604 37.037 0.00 0.00 0.00 2.59
712 1369 8.899427 TGCCAATTATTTTTGAAGTGATTCAA 57.101 26.923 0.00 0.00 38.99 2.69
778 1436 8.123639 AGTGAGAGCAAATAGTCTTACACTTA 57.876 34.615 0.00 0.00 36.43 2.24
828 1486 5.502153 TTTTTAGAAAAGCGGCTGTACAA 57.498 34.783 1.81 0.00 0.00 2.41
885 1543 1.485124 GTCCTAATTTTGGGCCCTGG 58.515 55.000 25.70 13.05 0.00 4.45
918 1576 1.869767 GAAGCACACAGTCAGAACCAG 59.130 52.381 0.00 0.00 0.00 4.00
976 1638 4.154347 GGCCAGTCTCCGCTCCTG 62.154 72.222 0.00 0.00 0.00 3.86
977 1639 4.828925 GCCAGTCTCCGCTCCTGC 62.829 72.222 0.00 0.00 0.00 4.85
978 1640 4.154347 CCAGTCTCCGCTCCTGCC 62.154 72.222 0.00 0.00 35.36 4.85
979 1641 4.504916 CAGTCTCCGCTCCTGCCG 62.505 72.222 0.00 0.00 35.36 5.69
1085 1749 3.374402 CCGTCCCTGTCGCTCACT 61.374 66.667 0.00 0.00 0.00 3.41
1091 1755 0.179116 CCCTGTCGCTCACTCATCTG 60.179 60.000 0.00 0.00 0.00 2.90
1102 1766 4.216257 GCTCACTCATCTGCCTTTTGTTTA 59.784 41.667 0.00 0.00 0.00 2.01
1111 1775 4.396790 TCTGCCTTTTGTTTACGTTTCACT 59.603 37.500 0.00 0.00 0.00 3.41
1326 1990 1.078426 CGCCAGGGAATTTCGGTCT 60.078 57.895 0.00 0.00 0.00 3.85
1405 2072 1.660560 GATGGTGCAGCTCGGCAAAT 61.661 55.000 18.08 0.00 46.93 2.32
1418 2085 3.191669 TCGGCAAATATGTACGTCCTTG 58.808 45.455 0.00 0.00 33.06 3.61
1423 2090 4.188462 CAAATATGTACGTCCTTGAGCCA 58.812 43.478 0.00 0.00 0.00 4.75
1432 2099 2.615493 CGTCCTTGAGCCATTTACCAGT 60.615 50.000 0.00 0.00 0.00 4.00
1520 2225 4.034279 GGATTGTTTAGTGGCGCGTATTTA 59.966 41.667 8.43 0.00 0.00 1.40
1704 2413 5.005740 TCTGGACATATTGGCTTATGCATC 58.994 41.667 0.19 0.00 41.91 3.91
1715 2424 2.286418 GCTTATGCATCGAAACCCTTCG 60.286 50.000 0.19 0.90 45.98 3.79
1767 2476 5.708948 TGAGTTTTCTTGTTTCCTGTTGTG 58.291 37.500 0.00 0.00 0.00 3.33
1803 2512 7.648112 GGAAACTTGTTAGATTGTTGAGGTTTC 59.352 37.037 0.00 0.00 38.45 2.78
1900 2609 6.148315 TGCTTTCATGAAGAAGTCAGTATGTG 59.852 38.462 8.41 0.00 40.43 3.21
1980 3334 2.094545 GCACAAATCTGAATGTCACCCC 60.095 50.000 0.00 0.00 0.00 4.95
1988 3342 3.056107 TCTGAATGTCACCCCTTAACGAG 60.056 47.826 0.00 0.00 0.00 4.18
2166 3530 7.450634 ACTTCCATTGCTGCTATATTGATGAAT 59.549 33.333 0.00 0.00 0.00 2.57
2234 3598 1.750778 GCATTTGTTCGGGGTGATGAT 59.249 47.619 0.00 0.00 0.00 2.45
2237 3601 2.577606 TTGTTCGGGGTGATGATGTT 57.422 45.000 0.00 0.00 0.00 2.71
2353 3717 4.153296 GCTCAAAAGAACCTCTCAAGCTAC 59.847 45.833 0.00 0.00 0.00 3.58
2422 3786 5.396436 GCTGGTGGGTATACAAGACTATTGT 60.396 44.000 5.01 0.00 36.49 2.71
2784 4153 1.203994 GCCACAATGCAGCAGAGAAAT 59.796 47.619 0.00 0.00 0.00 2.17
2917 4286 2.110967 CAGCGTGCCCCTCTTGATG 61.111 63.158 0.00 0.00 0.00 3.07
2976 4345 3.055021 GGCCTAAAGTTAGCCAGAACTCT 60.055 47.826 0.00 0.00 38.75 3.24
3175 4549 4.726021 GCTGATGTGTTAAGAGTTCATGCG 60.726 45.833 0.00 0.00 0.00 4.73
3198 4572 1.656652 CGATCATTGACAGGGTGGAC 58.343 55.000 0.00 0.00 0.00 4.02
3210 4584 2.554032 CAGGGTGGACTTTGTCATGTTC 59.446 50.000 0.00 0.00 33.68 3.18
3255 4629 2.746277 GGCAATGCCCGACGAAGT 60.746 61.111 14.47 0.00 44.98 3.01
3297 4672 5.732331 ATCCTGAAACTTCCATAATCCCA 57.268 39.130 0.00 0.00 0.00 4.37
3316 4691 4.461431 TCCCATGATATGAAGATGCAATGC 59.539 41.667 0.00 0.00 0.00 3.56
3342 4717 1.824230 TGTTGGCACTTTGCTCTGTTT 59.176 42.857 0.00 0.00 44.28 2.83
3361 4736 6.428465 TCTGTTTTGCTGAATTCGTATGGTTA 59.572 34.615 0.04 0.00 0.00 2.85
3385 4760 4.116238 GACTCGGAACTGATCCTGAATTC 58.884 47.826 0.00 0.00 46.98 2.17
3400 4775 5.710099 TCCTGAATTCCAAATGGTGTCTTAC 59.290 40.000 2.27 0.00 36.34 2.34
3426 4801 1.391729 AGGAAGCTGAGCTCCCTCT 59.608 57.895 6.35 0.00 39.99 3.69
3427 4802 0.687427 AGGAAGCTGAGCTCCCTCTC 60.687 60.000 6.35 0.00 39.99 3.20
3428 4803 0.687427 GGAAGCTGAGCTCCCTCTCT 60.687 60.000 7.72 0.00 38.25 3.10
3443 4818 4.158025 TCCCTCTCTGATCAGTTTACGTTC 59.842 45.833 21.92 0.00 0.00 3.95
3491 4866 0.328258 AGGCAGCCTACCAAATCGTT 59.672 50.000 14.18 0.00 28.47 3.85
3502 4877 3.589988 ACCAAATCGTTGAGCTCAGTAG 58.410 45.455 17.43 12.13 36.83 2.57
3534 4909 9.643693 TTTACCTTCTTATTCAGTAAACCGTAG 57.356 33.333 0.00 0.00 30.22 3.51
3559 4934 1.002868 GCTGTGAGCCTGTGACCAT 60.003 57.895 0.00 0.00 34.48 3.55
3588 4965 2.269241 GAAAGGGGAGGCGGTCAG 59.731 66.667 0.00 0.00 0.00 3.51
3629 5006 8.584063 AGTTTTAACCTGAGTCCTTTTGTTTA 57.416 30.769 0.00 0.00 0.00 2.01
3748 5134 5.988561 CGGGAGAAAACATCCAAAATTTCAA 59.011 36.000 0.00 0.00 38.70 2.69
3820 5209 5.566469 CATTTGACCCTTAACTAGACCCAA 58.434 41.667 0.00 0.00 0.00 4.12
3822 5211 4.628963 TGACCCTTAACTAGACCCAAAC 57.371 45.455 0.00 0.00 0.00 2.93
3823 5212 3.328637 TGACCCTTAACTAGACCCAAACC 59.671 47.826 0.00 0.00 0.00 3.27
3837 5226 3.153919 CCCAAACCGAAAGAATGAAGGA 58.846 45.455 0.00 0.00 0.00 3.36
4043 5432 6.855763 AACATATTTTGGAGCTGATTTCCA 57.144 33.333 0.00 0.00 42.81 3.53
4044 5433 6.461110 ACATATTTTGGAGCTGATTTCCAG 57.539 37.500 0.00 0.00 45.00 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
31 32 0.671163 CCGCAGTTTGCCGGTAAGTA 60.671 55.000 4.79 0.00 41.12 2.24
38 39 3.240606 CTGTCACCGCAGTTTGCCG 62.241 63.158 0.00 0.00 41.12 5.69
137 139 2.040544 CCGTTTCTTCATGCCCGCT 61.041 57.895 0.00 0.00 0.00 5.52
139 141 3.051392 GCCCGTTTCTTCATGCCCG 62.051 63.158 0.00 0.00 0.00 6.13
145 147 0.941542 CTTTCACGCCCGTTTCTTCA 59.058 50.000 0.00 0.00 0.00 3.02
176 178 0.877071 CGAAACAATGGCAGCTGAGT 59.123 50.000 20.43 4.09 0.00 3.41
190 192 1.414378 CCCACCGAATTTTGCGAAAC 58.586 50.000 0.00 0.00 0.00 2.78
197 199 0.318120 CTGCTTGCCCACCGAATTTT 59.682 50.000 0.00 0.00 0.00 1.82
223 226 2.044650 GCAGCTGCAAGATCCCCA 60.045 61.111 33.36 0.00 41.59 4.96
240 243 1.233019 CCAAGTCTCCACAACTGCAG 58.767 55.000 13.48 13.48 0.00 4.41
296 299 1.645919 AGGCAATCAACCCCCAGTAAT 59.354 47.619 0.00 0.00 0.00 1.89
313 316 4.996758 ACAATAAATTGCTGTTCCAAAGGC 59.003 37.500 2.60 0.00 41.38 4.35
335 338 5.127491 AGATCACCAGTCTGCTAGTAGTAC 58.873 45.833 7.77 5.24 0.00 2.73
365 1014 8.786826 ACGTCTTCATTCCAATTCAGTAAATA 57.213 30.769 0.00 0.00 0.00 1.40
378 1027 0.237235 TTGCGCAACGTCTTCATTCC 59.763 50.000 21.02 0.00 0.00 3.01
381 1030 0.512952 GAGTTGCGCAACGTCTTCAT 59.487 50.000 38.96 24.80 45.50 2.57
388 1037 0.515127 TAACCATGAGTTGCGCAACG 59.485 50.000 38.96 28.88 45.50 4.10
518 1167 4.822896 TGCACAAATAGTCCCGTACTTTTT 59.177 37.500 0.00 0.00 39.17 1.94
519 1168 4.391155 TGCACAAATAGTCCCGTACTTTT 58.609 39.130 0.00 0.00 39.80 2.27
520 1169 4.000988 CTGCACAAATAGTCCCGTACTTT 58.999 43.478 0.00 0.00 39.80 2.66
521 1170 3.596214 CTGCACAAATAGTCCCGTACTT 58.404 45.455 0.00 0.00 39.80 2.24
522 1171 2.677037 GCTGCACAAATAGTCCCGTACT 60.677 50.000 0.00 0.00 42.62 2.73
523 1172 1.664151 GCTGCACAAATAGTCCCGTAC 59.336 52.381 0.00 0.00 0.00 3.67
524 1173 1.553248 AGCTGCACAAATAGTCCCGTA 59.447 47.619 1.02 0.00 0.00 4.02
525 1174 0.324943 AGCTGCACAAATAGTCCCGT 59.675 50.000 1.02 0.00 0.00 5.28
526 1175 2.309528 TAGCTGCACAAATAGTCCCG 57.690 50.000 1.02 0.00 0.00 5.14
527 1176 5.385509 TTTTTAGCTGCACAAATAGTCCC 57.614 39.130 1.02 0.00 0.00 4.46
569 1218 2.036346 GCAACCAAAGTGGAAGAGCAAT 59.964 45.455 0.18 0.00 40.96 3.56
630 1286 4.318332 TGATTTGCAACTCTGTACTCTGG 58.682 43.478 16.65 0.00 0.00 3.86
631 1287 4.993584 ACTGATTTGCAACTCTGTACTCTG 59.006 41.667 22.20 2.30 0.00 3.35
632 1288 4.993584 CACTGATTTGCAACTCTGTACTCT 59.006 41.667 22.77 4.15 0.00 3.24
633 1289 4.752101 ACACTGATTTGCAACTCTGTACTC 59.248 41.667 22.77 0.00 0.00 2.59
634 1290 4.512944 CACACTGATTTGCAACTCTGTACT 59.487 41.667 22.77 12.22 0.00 2.73
635 1291 4.511454 TCACACTGATTTGCAACTCTGTAC 59.489 41.667 22.77 0.00 0.00 2.90
636 1292 4.702831 TCACACTGATTTGCAACTCTGTA 58.297 39.130 22.77 10.12 0.00 2.74
637 1293 3.544684 TCACACTGATTTGCAACTCTGT 58.455 40.909 19.26 19.26 0.00 3.41
828 1486 4.301072 TTTCTAACAAGGCCTGTGCTAT 57.699 40.909 5.69 0.29 38.67 2.97
885 1543 1.340017 TGTGCTTCAGTTATGGGCCTC 60.340 52.381 4.53 0.00 0.00 4.70
918 1576 2.281484 TGCCAGGCTCCGTTTGTC 60.281 61.111 14.15 0.00 0.00 3.18
1085 1749 5.066634 TGAAACGTAAACAAAAGGCAGATGA 59.933 36.000 0.00 0.00 0.00 2.92
1091 1755 4.916870 AGAGTGAAACGTAAACAAAAGGC 58.083 39.130 0.00 0.00 45.86 4.35
1102 1766 1.198178 GAGAGAGCGAGAGTGAAACGT 59.802 52.381 0.00 0.00 45.86 3.99
1111 1775 1.077357 GGTCAGGGAGAGAGCGAGA 60.077 63.158 0.00 0.00 0.00 4.04
1336 2003 2.886523 CCTGAAATGGACAGAAGCAACA 59.113 45.455 0.00 0.00 37.54 3.33
1346 2013 1.373570 CTCCTTCGCCTGAAATGGAC 58.626 55.000 0.00 0.00 32.66 4.02
1347 2014 0.253044 CCTCCTTCGCCTGAAATGGA 59.747 55.000 0.00 0.00 32.66 3.41
1405 2072 4.481368 AAATGGCTCAAGGACGTACATA 57.519 40.909 0.00 0.00 0.00 2.29
1418 2085 7.715249 TGAATAGTGAATACTGGTAAATGGCTC 59.285 37.037 0.00 0.00 37.78 4.70
1520 2225 8.967664 TTACACCACTCAAGTAAACTAAACAT 57.032 30.769 0.00 0.00 0.00 2.71
1586 2292 3.136763 AGCGCAAGATATGATGAACCTG 58.863 45.455 11.47 0.00 43.02 4.00
1587 2293 3.482156 AGCGCAAGATATGATGAACCT 57.518 42.857 11.47 0.00 43.02 3.50
1638 2346 1.423395 GGCATAGCGAGTATGAGCAC 58.577 55.000 8.89 0.00 41.17 4.40
1715 2424 3.315191 ACAACCGCATCACATTATTAGGC 59.685 43.478 0.00 0.00 0.00 3.93
1767 2476 5.003804 TCTAACAAGTTTCCATGAGAAGCC 58.996 41.667 0.00 0.00 36.41 4.35
1803 2512 6.039493 ACACTTAATATCCACTCAGGTAGTCG 59.961 42.308 0.00 0.00 35.76 4.18
1868 2577 4.394300 ACTTCTTCATGAAAGCAGATTCCG 59.606 41.667 9.88 0.00 33.09 4.30
1900 2609 5.253330 TGACAAACAGGGTATCCTTGAATC 58.747 41.667 0.00 0.00 42.67 2.52
1980 3334 1.385743 CGCGTTGACTTCCTCGTTAAG 59.614 52.381 0.00 0.00 0.00 1.85
1988 3342 2.344025 ACCTATTTCGCGTTGACTTCC 58.656 47.619 5.77 0.00 0.00 3.46
2039 3394 9.701098 CCTGGAATGTGGAATGATATAATTTTG 57.299 33.333 0.00 0.00 0.00 2.44
2166 3530 8.777578 AGTGTACCCTATACAATGATAGAACA 57.222 34.615 0.00 0.00 32.00 3.18
2234 3598 6.458206 GCTCTGTGAATAACTTGTGAACAACA 60.458 38.462 0.00 0.00 36.85 3.33
2237 3601 5.368145 AGCTCTGTGAATAACTTGTGAACA 58.632 37.500 0.00 0.00 0.00 3.18
2300 3664 3.006430 CCAGACCACAATAAAACCAACCC 59.994 47.826 0.00 0.00 0.00 4.11
2314 3678 1.339055 TGAGCATGCTAACCAGACCAC 60.339 52.381 22.74 4.34 0.00 4.16
2422 3786 2.639065 GCCAATTCGTATCCTGGTTCA 58.361 47.619 0.00 0.00 0.00 3.18
2595 3962 7.439381 ACGAATACAAAAGAGAACTAACTGGA 58.561 34.615 0.00 0.00 0.00 3.86
2763 4132 0.537828 TTCTCTGCTGCATTGTGGCA 60.538 50.000 1.31 0.00 42.53 4.92
2784 4153 5.801531 ATCTCACCACGGCATATAGTTTA 57.198 39.130 0.00 0.00 0.00 2.01
2932 4301 2.519063 CCACTGTTGGCTGGCACA 60.519 61.111 2.29 4.93 35.56 4.57
2933 4302 3.297620 CCCACTGTTGGCTGGCAC 61.298 66.667 2.29 0.00 42.35 5.01
2964 4333 5.280011 CCCTTCTGTTTTAGAGTTCTGGCTA 60.280 44.000 0.00 0.00 36.61 3.93
2976 4345 5.013704 TGGTTCTCATAGCCCTTCTGTTTTA 59.986 40.000 0.00 0.00 0.00 1.52
3054 4424 7.327064 ACAGAATGGATCTCCTAATTAGCAT 57.673 36.000 6.99 1.55 43.62 3.79
3055 4425 6.753913 ACAGAATGGATCTCCTAATTAGCA 57.246 37.500 6.99 0.00 43.62 3.49
3133 4507 6.060028 TCAGCAACAATTTCTAGTCACAAC 57.940 37.500 0.00 0.00 0.00 3.32
3175 4549 2.550978 CACCCTGTCAATGATCGGTAC 58.449 52.381 0.00 0.00 0.00 3.34
3198 4572 8.008279 CGAAGCTATGATATGAACATGACAAAG 58.992 37.037 0.00 0.00 0.00 2.77
3210 4584 3.620374 GGCCACATCGAAGCTATGATATG 59.380 47.826 0.00 1.19 0.00 1.78
3263 4637 0.619255 TTCAGGATACCCAAGGGCGA 60.619 55.000 4.70 0.00 39.32 5.54
3297 4672 3.119602 GCCGCATTGCATCTTCATATCAT 60.120 43.478 9.69 0.00 0.00 2.45
3342 4717 6.170506 AGTCTTAACCATACGAATTCAGCAA 58.829 36.000 6.22 0.00 0.00 3.91
3400 4775 0.317770 GCTCAGCTTCCTCGAGATCG 60.318 60.000 15.71 2.08 41.45 3.69
3426 4801 6.157211 GGAGAAAGAACGTAAACTGATCAGA 58.843 40.000 29.27 3.89 0.00 3.27
3427 4802 5.348997 GGGAGAAAGAACGTAAACTGATCAG 59.651 44.000 21.37 21.37 0.00 2.90
3428 4803 5.011738 AGGGAGAAAGAACGTAAACTGATCA 59.988 40.000 0.00 0.00 0.00 2.92
3443 4818 0.322906 GGGTGGCTGAAGGGAGAAAG 60.323 60.000 0.00 0.00 0.00 2.62
3502 4877 8.732746 TTACTGAATAAGAAGGTAAATGAGGC 57.267 34.615 0.00 0.00 0.00 4.70
3530 4905 0.097674 GCTCACAGCATTTGCCTACG 59.902 55.000 0.00 0.00 41.89 3.51
3534 4909 1.214589 CAGGCTCACAGCATTTGCC 59.785 57.895 0.00 0.00 44.75 4.52
3542 4917 2.941064 CAATATGGTCACAGGCTCACAG 59.059 50.000 0.00 0.00 0.00 3.66
3545 4920 3.118408 GGTACAATATGGTCACAGGCTCA 60.118 47.826 0.00 0.00 0.00 4.26
3559 4934 4.037927 CCTCCCCTTTCTGAGGTACAATA 58.962 47.826 0.00 0.00 44.71 1.90
3588 4965 7.330946 AGGTTAAAACTTCTTCAGTTGCAAAAC 59.669 33.333 0.00 0.00 45.77 2.43
3615 4992 4.275196 GTGTCCCAGTAAACAAAAGGACTC 59.725 45.833 8.34 1.47 43.39 3.36
3619 4996 3.317993 CAGGTGTCCCAGTAAACAAAAGG 59.682 47.826 0.00 0.00 0.00 3.11
3629 5006 0.104934 AGAGGTTCAGGTGTCCCAGT 60.105 55.000 0.00 0.00 0.00 4.00
3696 5082 5.523916 ACATATAAACGTCTCAGGTCAATGC 59.476 40.000 0.00 0.00 0.00 3.56
3748 5134 1.004394 GGCAAACTGTACCCCTTAGCT 59.996 52.381 0.00 0.00 0.00 3.32
3845 5234 1.672881 GGTGATGCCAAGATAGCACAC 59.327 52.381 0.00 0.00 44.40 3.82
3933 5322 7.040409 GGTCATGTGGATAACAGAAGAAAAACT 60.040 37.037 0.00 0.00 43.64 2.66
4029 5418 2.102084 CGATCTCTGGAAATCAGCTCCA 59.898 50.000 0.00 0.00 43.06 3.86
4043 5432 1.962100 GATCCCCGTTAACCGATCTCT 59.038 52.381 13.74 0.00 39.56 3.10
4044 5433 1.335689 CGATCCCCGTTAACCGATCTC 60.336 57.143 16.73 3.89 39.56 2.75


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

AutoCloner maintained by Alex Coulton.