Multiple sequence alignment - TraesCS1D01G208700

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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 TraesCS1D01G208700 chr1D 100.000 4281 0 0 1 4281 294746306 294742026 0.000000e+00 7906.0
1 TraesCS1D01G208700 chr1A 97.001 2034 43 8 2254 4281 367875813 367873792 0.000000e+00 3402.0
2 TraesCS1D01G208700 chr1A 96.732 1530 40 5 646 2175 367877570 367876051 0.000000e+00 2540.0
3 TraesCS1D01G208700 chr1A 88.530 619 51 11 18 633 367878155 367877554 0.000000e+00 732.0
4 TraesCS1D01G208700 chr1B 95.249 1347 44 7 803 2138 396364049 396362712 0.000000e+00 2115.0
5 TraesCS1D01G208700 chr1B 95.580 1267 46 5 2240 3505 396362461 396361204 0.000000e+00 2021.0
6 TraesCS1D01G208700 chr1B 93.275 684 30 6 3610 4280 396360882 396360202 0.000000e+00 994.0
7 TraesCS1D01G208700 chr1B 88.605 430 37 9 35 462 396367097 396366678 2.950000e-141 512.0
8 TraesCS1D01G208700 chr3D 85.370 581 77 8 35 610 58601167 58601744 2.850000e-166 595.0
9 TraesCS1D01G208700 chr2D 83.849 582 83 11 35 610 313467902 313468478 1.050000e-150 544.0
10 TraesCS1D01G208700 chr2B 81.865 579 95 9 35 609 338778413 338777841 2.990000e-131 479.0
11 TraesCS1D01G208700 chr2B 78.514 498 98 9 119 611 310852483 310851990 6.910000e-83 318.0
12 TraesCS1D01G208700 chr2A 79.376 577 107 12 35 604 348050546 348049975 3.100000e-106 396.0
13 TraesCS1D01G208700 chr2A 78.485 581 116 9 35 610 550182391 550181815 5.230000e-99 372.0
14 TraesCS1D01G208700 chr6D 76.543 567 100 16 38 598 18865520 18864981 3.260000e-71 279.0
15 TraesCS1D01G208700 chr4D 74.086 602 133 21 39 627 312918005 312917414 4.310000e-55 226.0
16 TraesCS1D01G208700 chr6B 94.595 37 1 1 4 39 31745479 31745443 5.980000e-04 56.5


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 TraesCS1D01G208700 chr1D 294742026 294746306 4280 True 7906.000000 7906 100.000000 1 4281 1 chr1D.!!$R1 4280
1 TraesCS1D01G208700 chr1A 367873792 367878155 4363 True 2224.666667 3402 94.087667 18 4281 3 chr1A.!!$R1 4263
2 TraesCS1D01G208700 chr1B 396360202 396367097 6895 True 1410.500000 2115 93.177250 35 4280 4 chr1B.!!$R1 4245
3 TraesCS1D01G208700 chr3D 58601167 58601744 577 False 595.000000 595 85.370000 35 610 1 chr3D.!!$F1 575
4 TraesCS1D01G208700 chr2D 313467902 313468478 576 False 544.000000 544 83.849000 35 610 1 chr2D.!!$F1 575
5 TraesCS1D01G208700 chr2B 338777841 338778413 572 True 479.000000 479 81.865000 35 609 1 chr2B.!!$R2 574
6 TraesCS1D01G208700 chr2A 348049975 348050546 571 True 396.000000 396 79.376000 35 604 1 chr2A.!!$R1 569
7 TraesCS1D01G208700 chr2A 550181815 550182391 576 True 372.000000 372 78.485000 35 610 1 chr2A.!!$R2 575
8 TraesCS1D01G208700 chr6D 18864981 18865520 539 True 279.000000 279 76.543000 38 598 1 chr6D.!!$R1 560
9 TraesCS1D01G208700 chr4D 312917414 312918005 591 True 226.000000 226 74.086000 39 627 1 chr4D.!!$R1 588

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
87 88 1.095228 ACGGTCAGCCACACAAACTG 61.095 55.000 0.00 0.0 34.09 3.16 F
493 2731 1.271652 TGGAATTGCGAGCACCCTTTA 60.272 47.619 0.00 0.0 0.00 1.85 F
1658 4018 0.178975 GGGTGGGAATGGTGAACACA 60.179 55.000 7.25 0.0 33.91 3.72 F
2247 4636 0.039764 GAACAAAGAAGGGGGAGGGG 59.960 60.000 0.00 0.0 0.00 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1600 3960 0.743097 GATGCTGCCTCAATTGGTCC 59.257 55.0 5.42 0.0 0.00 4.46 R
2228 4617 0.039764 CCCCTCCCCCTTCTTTGTTC 59.960 60.0 0.00 0.0 0.00 3.18 R
3271 5822 0.758734 CACTGTGAGTTCAGGGACCA 59.241 55.0 0.32 0.0 40.91 4.02 R
3362 5914 1.362224 TTGAGGGCTTGCTCCTTACT 58.638 50.0 4.60 0.0 34.21 2.24 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
28 29 1.373748 GTTACGCGCCTGTTGGAGA 60.374 57.895 5.73 0.00 34.95 3.71
87 88 1.095228 ACGGTCAGCCACACAAACTG 61.095 55.000 0.00 0.00 34.09 3.16
182 185 2.503765 TGTATCTTCTGGCCCATTCGAA 59.496 45.455 0.00 0.00 0.00 3.71
252 255 2.224621 ACTCAACATGGGAGTGTTCCAG 60.225 50.000 18.16 0.00 45.98 3.86
273 278 3.836229 CGTAGTGTACGCCAAATGATC 57.164 47.619 1.98 0.00 45.81 2.92
278 283 6.035220 CGTAGTGTACGCCAAATGATCTTTTA 59.965 38.462 1.98 0.00 45.81 1.52
311 316 8.188139 TGCCGGACAAAATAATTTCTAAATCTC 58.812 33.333 5.05 0.00 0.00 2.75
406 411 7.976175 GGTTCCATTCTTCTAAATAAGCCAAAG 59.024 37.037 0.00 0.00 0.00 2.77
421 426 3.642848 AGCCAAAGGAACAATGAACATGT 59.357 39.130 0.00 0.00 0.00 3.21
493 2731 1.271652 TGGAATTGCGAGCACCCTTTA 60.272 47.619 0.00 0.00 0.00 1.85
537 2775 4.286808 TCTGTCTCACCAAATCTTCATCCA 59.713 41.667 0.00 0.00 0.00 3.41
544 2782 8.906867 TCTCACCAAATCTTCATCCAATAATTC 58.093 33.333 0.00 0.00 0.00 2.17
598 2840 3.333680 ACAAAAGATGCCCCTTCTAGGAA 59.666 43.478 0.00 0.00 37.67 3.36
610 2852 7.007116 GCCCCTTCTAGGAATGATAATCTTTT 58.993 38.462 0.00 0.00 37.67 2.27
611 2853 7.507277 GCCCCTTCTAGGAATGATAATCTTTTT 59.493 37.037 0.00 0.00 37.67 1.94
634 2876 7.781324 TTTTTCCTATTGGAGATGCTCTTTT 57.219 32.000 0.00 0.00 44.24 2.27
635 2877 7.781324 TTTTCCTATTGGAGATGCTCTTTTT 57.219 32.000 0.00 0.00 44.24 1.94
682 2924 9.478768 GCTCTTACTATGGAATAAAACTCCTAC 57.521 37.037 0.00 0.00 33.77 3.18
690 2932 5.311121 TGGAATAAAACTCCTACTGAACCCA 59.689 40.000 0.00 0.00 33.77 4.51
691 2933 6.183361 TGGAATAAAACTCCTACTGAACCCAA 60.183 38.462 0.00 0.00 33.77 4.12
752 2999 1.787989 GCACGAATCATGACGCAACAG 60.788 52.381 0.00 0.00 0.00 3.16
754 3001 1.460743 ACGAATCATGACGCAACAGTG 59.539 47.619 0.00 0.00 0.00 3.66
930 3280 3.093172 CCAGCCCCTCTCTTCCCC 61.093 72.222 0.00 0.00 0.00 4.81
931 3281 3.093172 CAGCCCCTCTCTTCCCCC 61.093 72.222 0.00 0.00 0.00 5.40
973 3323 3.929948 CTCGATCAAAGCCGCCGC 61.930 66.667 0.00 0.00 0.00 6.53
1459 3819 2.159179 AAGACCAAGCAAACCCAAGT 57.841 45.000 0.00 0.00 0.00 3.16
1537 3897 3.782523 TCAACCTAGAATTCATCAGGGCT 59.217 43.478 19.24 8.07 33.27 5.19
1540 3900 5.753721 ACCTAGAATTCATCAGGGCTATC 57.246 43.478 19.24 0.00 33.27 2.08
1546 3906 3.746045 TTCATCAGGGCTATCGTTACC 57.254 47.619 0.00 0.00 0.00 2.85
1600 3960 1.376037 GGAGGTGCTCCCTTTCGTG 60.376 63.158 0.00 0.00 46.51 4.35
1658 4018 0.178975 GGGTGGGAATGGTGAACACA 60.179 55.000 7.25 0.00 33.91 3.72
1677 4037 3.530260 CGGTGATGGCAATGGGGC 61.530 66.667 0.00 0.00 43.73 5.80
1807 4167 1.367840 GTGCTCCACGTTGGACTCT 59.632 57.895 3.02 0.00 42.67 3.24
1954 4314 6.199342 GCGTTCAGAAGGTATCATTAGAGAAC 59.801 42.308 4.81 0.00 0.00 3.01
1985 4345 6.721318 TGCCTCTCACCTTTATCATTTAGTT 58.279 36.000 0.00 0.00 0.00 2.24
2132 4492 7.728847 AAAACTATCTTGGTGCAAATTTTCC 57.271 32.000 0.00 0.00 0.00 3.13
2155 4544 7.601856 TCCAAGAACCAATTGCTACAATTTAG 58.398 34.615 0.00 1.54 0.00 1.85
2242 4631 8.595362 AGAAAATATTAGAACAAAGAAGGGGG 57.405 34.615 0.00 0.00 0.00 5.40
2243 4632 8.398743 AGAAAATATTAGAACAAAGAAGGGGGA 58.601 33.333 0.00 0.00 0.00 4.81
2244 4633 8.595362 AAAATATTAGAACAAAGAAGGGGGAG 57.405 34.615 0.00 0.00 0.00 4.30
2245 4634 4.592997 ATTAGAACAAAGAAGGGGGAGG 57.407 45.455 0.00 0.00 0.00 4.30
2246 4635 1.076438 AGAACAAAGAAGGGGGAGGG 58.924 55.000 0.00 0.00 0.00 4.30
2247 4636 0.039764 GAACAAAGAAGGGGGAGGGG 59.960 60.000 0.00 0.00 0.00 4.79
2248 4637 1.443729 AACAAAGAAGGGGGAGGGGG 61.444 60.000 0.00 0.00 0.00 5.40
2306 4854 2.866156 TCGCCATTAAGCTTCTCAATCG 59.134 45.455 0.00 1.29 0.00 3.34
2336 4884 3.939066 ACAGTGTATTGCTACTGGGAAC 58.061 45.455 8.95 0.00 46.52 3.62
2377 4925 4.860802 ACCTTGATGATAACCCACATGA 57.139 40.909 0.00 0.00 0.00 3.07
2691 5239 0.883833 TCGGTTAGTCCTTCCGACAC 59.116 55.000 1.35 0.00 46.54 3.67
2729 5277 8.220755 TGTTTTCTTGAGCTATTTAACACTGT 57.779 30.769 0.00 0.00 0.00 3.55
2730 5278 8.128582 TGTTTTCTTGAGCTATTTAACACTGTG 58.871 33.333 6.19 6.19 0.00 3.66
2782 5330 4.888038 TTGATGCTGAGTAATCATGTGC 57.112 40.909 0.00 0.00 33.01 4.57
2795 5343 9.410556 GAGTAATCATGTGCAATTTAGTTGTTT 57.589 29.630 0.00 0.00 40.07 2.83
2966 5514 8.737168 TTATTTCTTACTCATCTTGATGTGGG 57.263 34.615 14.52 7.92 0.00 4.61
3082 5630 4.623932 ACTGATCCAACTTCAGCTTACA 57.376 40.909 0.78 0.00 43.57 2.41
3157 5705 1.534595 GCGATGAACATTCCATGCCAC 60.535 52.381 0.00 0.00 0.00 5.01
3167 5715 4.771577 ACATTCCATGCCACTTTTATGACA 59.228 37.500 0.00 0.00 0.00 3.58
3168 5716 5.422970 ACATTCCATGCCACTTTTATGACAT 59.577 36.000 0.00 0.00 0.00 3.06
3169 5717 5.581126 TTCCATGCCACTTTTATGACATC 57.419 39.130 0.00 0.00 0.00 3.06
3220 5771 0.818296 GAGGTACATCGTCAGGCTGT 59.182 55.000 15.27 0.00 0.00 4.40
3235 5786 1.464997 GGCTGTTTTGTGATCTCCGTC 59.535 52.381 0.00 0.00 0.00 4.79
3262 5813 0.544833 TAGGGTACGCCTGGTGGAAA 60.545 55.000 12.58 0.00 34.57 3.13
3271 5822 1.138859 GCCTGGTGGAAAAAGTTGCTT 59.861 47.619 0.00 0.00 34.57 3.91
3340 5892 4.346730 TCATCATTCTGAAGGTGGCAAAT 58.653 39.130 1.70 0.00 0.00 2.32
3362 5914 0.478072 TTTTGCTTCTCTGGCCTCCA 59.522 50.000 3.32 0.00 0.00 3.86
3380 5932 0.615331 CAGTAAGGAGCAAGCCCTCA 59.385 55.000 3.15 0.00 33.47 3.86
3420 5972 4.495565 TGTTGGGTTAGGGAGAAACTCTA 58.504 43.478 0.00 0.00 0.00 2.43
3421 5973 5.098663 TGTTGGGTTAGGGAGAAACTCTAT 58.901 41.667 0.00 0.00 30.99 1.98
3627 6396 2.542178 CGATGTGACAAGAACCGTTCAA 59.458 45.455 13.69 0.00 0.00 2.69
3628 6397 3.186409 CGATGTGACAAGAACCGTTCAAT 59.814 43.478 13.69 0.00 0.00 2.57
3670 6445 5.176774 TGTGACATGTCAACAGAATAACGTC 59.823 40.000 29.42 12.86 41.85 4.34
3674 6449 5.344128 ACATGTCAACAGAATAACGTCGTAC 59.656 40.000 0.00 0.00 0.00 3.67
3735 6510 0.804989 GCAACCTGCTACATGTCCAC 59.195 55.000 0.00 0.00 40.96 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 2.170036 CAACAGGCGCGTAACACG 59.830 61.111 8.43 0.00 45.88 4.49
8 9 1.897398 CTCCAACAGGCGCGTAACAC 61.897 60.000 8.43 0.00 0.00 3.32
9 10 1.666553 CTCCAACAGGCGCGTAACA 60.667 57.895 8.43 0.00 0.00 2.41
10 11 0.739813 ATCTCCAACAGGCGCGTAAC 60.740 55.000 8.43 0.00 0.00 2.50
11 12 0.739462 CATCTCCAACAGGCGCGTAA 60.739 55.000 8.43 0.00 0.00 3.18
12 13 1.153647 CATCTCCAACAGGCGCGTA 60.154 57.895 8.43 0.00 0.00 4.42
13 14 2.434884 CATCTCCAACAGGCGCGT 60.435 61.111 8.43 0.00 0.00 6.01
14 15 3.869272 GCATCTCCAACAGGCGCG 61.869 66.667 0.00 0.00 0.00 6.86
15 16 1.589716 AAAGCATCTCCAACAGGCGC 61.590 55.000 0.00 0.00 0.00 6.53
16 17 1.737838 TAAAGCATCTCCAACAGGCG 58.262 50.000 0.00 0.00 0.00 5.52
214 217 9.102757 CATGTTGAGTTACACTTGCTAATAGAT 57.897 33.333 0.00 0.00 0.00 1.98
272 277 4.289238 TGTCCGGCAAAGGTATAAAAGA 57.711 40.909 0.00 0.00 0.00 2.52
273 278 5.379732 TTTGTCCGGCAAAGGTATAAAAG 57.620 39.130 16.73 0.00 41.68 2.27
278 283 6.538945 AATTATTTTGTCCGGCAAAGGTAT 57.461 33.333 18.84 14.15 46.40 2.73
468 2706 1.000274 GGTGCTCGCAATTCCACTTTT 60.000 47.619 0.00 0.00 0.00 2.27
469 2707 0.598065 GGTGCTCGCAATTCCACTTT 59.402 50.000 0.00 0.00 0.00 2.66
493 2731 4.525487 AGACATTGTGACCAATTGATGCTT 59.475 37.500 7.12 0.00 39.28 3.91
537 2775 9.745018 ATCTTATTGACCCGATCATGAATTATT 57.255 29.630 0.00 0.00 37.11 1.40
544 2782 5.299949 TGTGATCTTATTGACCCGATCATG 58.700 41.667 0.00 0.00 42.70 3.07
550 2789 4.261801 AGGTTTGTGATCTTATTGACCCG 58.738 43.478 0.00 0.00 0.00 5.28
634 2876 7.707624 AGCATCTCCAATAGAATGTCAAAAA 57.292 32.000 0.00 0.00 37.89 1.94
635 2877 7.325660 GAGCATCTCCAATAGAATGTCAAAA 57.674 36.000 0.00 0.00 37.89 2.44
636 2878 6.932356 GAGCATCTCCAATAGAATGTCAAA 57.068 37.500 0.00 0.00 37.89 2.69
830 3178 0.818040 GGAACCAGGAAGTGTGCGTT 60.818 55.000 0.00 0.00 0.00 4.84
1442 3802 1.111277 ACACTTGGGTTTGCTTGGTC 58.889 50.000 0.00 0.00 0.00 4.02
1451 3811 7.924412 CGTATATGAGTATGTAACACTTGGGTT 59.076 37.037 0.00 0.00 34.81 4.11
1600 3960 0.743097 GATGCTGCCTCAATTGGTCC 59.257 55.000 5.42 0.00 0.00 4.46
1658 4018 2.440796 CCCATTGCCATCACCGCT 60.441 61.111 0.00 0.00 0.00 5.52
1677 4037 2.409870 GGCGAACCATCCTGCTTGG 61.410 63.158 0.00 0.00 40.26 3.61
1807 4167 1.406898 CTCTCAAGATCAGCCACGCTA 59.593 52.381 0.00 0.00 36.40 4.26
1954 4314 2.583520 GGTGAGAGGCAGCAGAGG 59.416 66.667 0.00 0.00 44.31 3.69
1985 4345 2.267426 CGTACATCAATTGGCGACTCA 58.733 47.619 5.42 0.00 32.09 3.41
2019 4379 5.849081 GCGAATAAAATCAACACTTTGTCGA 59.151 36.000 0.00 0.00 34.02 4.20
2028 4388 8.219546 TCCATTATGAGCGAATAAAATCAACA 57.780 30.769 0.00 0.00 0.00 3.33
2126 4486 6.418057 TGTAGCAATTGGTTCTTGGAAAAT 57.582 33.333 16.43 0.00 0.00 1.82
2132 4492 7.062605 CAGCTAAATTGTAGCAATTGGTTCTTG 59.937 37.037 16.43 0.00 42.68 3.02
2155 4544 8.760569 GTTCATCTTCTAGTAATCTAAAGCAGC 58.239 37.037 0.00 0.00 0.00 5.25
2216 4605 9.695155 CCCCCTTCTTTGTTCTAATATTTTCTA 57.305 33.333 0.00 0.00 0.00 2.10
2217 4606 8.398743 TCCCCCTTCTTTGTTCTAATATTTTCT 58.601 33.333 0.00 0.00 0.00 2.52
2218 4607 8.589701 TCCCCCTTCTTTGTTCTAATATTTTC 57.410 34.615 0.00 0.00 0.00 2.29
2219 4608 7.619698 CCTCCCCCTTCTTTGTTCTAATATTTT 59.380 37.037 0.00 0.00 0.00 1.82
2220 4609 7.126061 CCTCCCCCTTCTTTGTTCTAATATTT 58.874 38.462 0.00 0.00 0.00 1.40
2221 4610 6.354829 CCCTCCCCCTTCTTTGTTCTAATATT 60.355 42.308 0.00 0.00 0.00 1.28
2222 4611 5.134509 CCCTCCCCCTTCTTTGTTCTAATAT 59.865 44.000 0.00 0.00 0.00 1.28
2223 4612 4.477213 CCCTCCCCCTTCTTTGTTCTAATA 59.523 45.833 0.00 0.00 0.00 0.98
2224 4613 3.269643 CCCTCCCCCTTCTTTGTTCTAAT 59.730 47.826 0.00 0.00 0.00 1.73
2225 4614 2.647802 CCCTCCCCCTTCTTTGTTCTAA 59.352 50.000 0.00 0.00 0.00 2.10
2226 4615 2.275466 CCCTCCCCCTTCTTTGTTCTA 58.725 52.381 0.00 0.00 0.00 2.10
2227 4616 1.076438 CCCTCCCCCTTCTTTGTTCT 58.924 55.000 0.00 0.00 0.00 3.01
2228 4617 0.039764 CCCCTCCCCCTTCTTTGTTC 59.960 60.000 0.00 0.00 0.00 3.18
2229 4618 1.443729 CCCCCTCCCCCTTCTTTGTT 61.444 60.000 0.00 0.00 0.00 2.83
2230 4619 1.857348 CCCCCTCCCCCTTCTTTGT 60.857 63.158 0.00 0.00 0.00 2.83
2231 4620 3.100111 CCCCCTCCCCCTTCTTTG 58.900 66.667 0.00 0.00 0.00 2.77
2245 4634 0.107165 GTCAACTGTCTATGGCCCCC 60.107 60.000 0.00 0.00 0.00 5.40
2246 4635 0.107165 GGTCAACTGTCTATGGCCCC 60.107 60.000 0.00 0.00 35.23 5.80
2247 4636 0.618458 TGGTCAACTGTCTATGGCCC 59.382 55.000 0.00 0.00 40.68 5.80
2248 4637 2.717639 ATGGTCAACTGTCTATGGCC 57.282 50.000 0.00 0.00 41.77 5.36
2249 4638 5.163513 CAAAAATGGTCAACTGTCTATGGC 58.836 41.667 0.00 0.00 0.00 4.40
2250 4639 5.243730 ACCAAAAATGGTCAACTGTCTATGG 59.756 40.000 0.00 0.00 37.74 2.74
2306 4854 7.254455 CCAGTAGCAATACACTGTAAGCAATAC 60.254 40.741 15.43 11.18 40.47 1.89
2336 4884 9.273016 TCAAGGTTCTCAAAACTACAATAGAAG 57.727 33.333 0.00 0.00 30.19 2.85
2377 4925 5.207354 TCATCTCTGACCTAAGAAGAGCAT 58.793 41.667 0.00 0.00 37.86 3.79
2534 5082 2.347490 GGAGTTCAGCCTCGGCAA 59.653 61.111 11.02 0.00 44.88 4.52
2691 5239 5.890334 TCAAGAAAACAGTAACAAGGCTTG 58.110 37.500 25.06 25.06 33.45 4.01
2757 5305 7.229907 TGCACATGATTACTCAGCATCAAATAT 59.770 33.333 0.00 0.00 34.12 1.28
2764 5312 5.847111 AATTGCACATGATTACTCAGCAT 57.153 34.783 0.00 0.00 32.22 3.79
2795 5343 6.489700 TGCAATTACACTCTCAGAAATGGAAA 59.510 34.615 0.00 0.00 0.00 3.13
2966 5514 7.677454 AAATTTCCAAAGGAGAAATCAATGC 57.323 32.000 0.00 0.00 41.84 3.56
3082 5630 1.148310 CGAAAGACGCAATGGTCAGT 58.852 50.000 5.04 0.00 39.42 3.41
3157 5705 5.732528 GCTGCCATCTGTGATGTCATAAAAG 60.733 44.000 6.78 0.00 0.00 2.27
3167 5715 2.803030 AAGAAGCTGCCATCTGTGAT 57.197 45.000 6.35 0.00 0.00 3.06
3168 5716 2.555325 CAAAAGAAGCTGCCATCTGTGA 59.445 45.455 6.35 0.00 0.00 3.58
3169 5717 2.352421 CCAAAAGAAGCTGCCATCTGTG 60.352 50.000 6.35 7.76 0.00 3.66
3220 5771 3.623960 ACAAAACGACGGAGATCACAAAA 59.376 39.130 0.00 0.00 0.00 2.44
3235 5786 1.461897 CAGGCGTACCCTAACAAAACG 59.538 52.381 2.94 0.00 44.09 3.60
3262 5813 2.031870 GTTCAGGGACCAAGCAACTTT 58.968 47.619 0.00 0.00 0.00 2.66
3271 5822 0.758734 CACTGTGAGTTCAGGGACCA 59.241 55.000 0.32 0.00 40.91 4.02
3340 5892 2.290323 GGAGGCCAGAGAAGCAAAAGTA 60.290 50.000 5.01 0.00 0.00 2.24
3362 5914 1.362224 TTGAGGGCTTGCTCCTTACT 58.638 50.000 4.60 0.00 34.21 2.24
3420 5972 7.801716 ACTACTACAAAACATGAACACACAT 57.198 32.000 0.00 0.00 0.00 3.21
3421 5973 8.198778 TCTACTACTACAAAACATGAACACACA 58.801 33.333 0.00 0.00 0.00 3.72
3674 6449 2.858941 CTGAGCTCTGATCAACACGATG 59.141 50.000 16.19 0.00 33.17 3.84
3735 6510 2.141517 CATCTCAAGGCTGGCTAATCG 58.858 52.381 3.41 0.00 0.00 3.34


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

AutoCloner maintained by Alex Coulton.