Multiple sequence alignment - TraesCS3A01G262800

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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 TraesCS3A01G262800 chr3A 100.000 3249 0 0 1 3249 485939940 485943188 0.000000e+00 6000
1 TraesCS3A01G262800 chr3B 89.856 2573 142 47 1 2513 474713425 474715938 0.000000e+00 3195
2 TraesCS3A01G262800 chr3B 90.212 378 11 10 2510 2869 474716211 474716580 1.360000e-128 470
3 TraesCS3A01G262800 chr3B 89.406 387 16 5 2871 3249 474716739 474717108 6.350000e-127 464
4 TraesCS3A01G262800 chr3D 94.456 1407 49 10 923 2318 364520569 364521957 0.000000e+00 2139
5 TraesCS3A01G262800 chr3D 94.370 675 13 6 2580 3249 364522620 364523274 0.000000e+00 1013
6 TraesCS3A01G262800 chr3D 83.819 686 66 14 22 690 364517288 364517945 7.710000e-171 610
7 TraesCS3A01G262800 chr3D 94.783 230 11 1 710 939 364518756 364518984 1.110000e-94 357
8 TraesCS3A01G262800 chr3D 94.149 188 4 4 2409 2595 364522421 364522602 2.470000e-71 279
9 TraesCS3A01G262800 chr4D 84.701 719 87 14 1 711 366337055 366336352 0.000000e+00 697
10 TraesCS3A01G262800 chr6D 83.176 743 92 11 3 719 98116127 98116862 0.000000e+00 649
11 TraesCS3A01G262800 chr5B 88.128 219 22 4 1 216 537862982 537863199 1.160000e-64 257
12 TraesCS3A01G262800 chr2D 85.115 262 27 5 1 251 524465058 524465318 1.160000e-64 257
13 TraesCS3A01G262800 chr2D 73.438 384 66 17 1 353 630287542 630287164 9.530000e-21 111
14 TraesCS3A01G262800 chr5A 85.906 149 17 4 76 221 11928919 11928772 4.340000e-34 156
15 TraesCS3A01G262800 chr4A 79.618 157 29 3 1 156 645348175 645348329 3.430000e-20 110


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 TraesCS3A01G262800 chr3A 485939940 485943188 3248 False 6000.000000 6000 100.000000 1 3249 1 chr3A.!!$F1 3248
1 TraesCS3A01G262800 chr3B 474713425 474717108 3683 False 1376.333333 3195 89.824667 1 3249 3 chr3B.!!$F1 3248
2 TraesCS3A01G262800 chr3D 364517288 364523274 5986 False 879.600000 2139 92.315400 22 3249 5 chr3D.!!$F1 3227
3 TraesCS3A01G262800 chr4D 366336352 366337055 703 True 697.000000 697 84.701000 1 711 1 chr4D.!!$R1 710
4 TraesCS3A01G262800 chr6D 98116127 98116862 735 False 649.000000 649 83.176000 3 719 1 chr6D.!!$F1 716

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
811 1649 0.034896 ACCAAACACGCCTCTACCTG 59.965 55.0 0.0 0.0 0.0 4.00 F
2108 4559 0.179073 CCCCGATGACCAGTAAGCAG 60.179 60.0 0.0 0.0 0.0 4.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2179 4630 0.102300 GTTGTTGTTGCTGGTGACCC 59.898 55.000 0.0 0.0 0.0 4.46 R
3057 6415 1.276421 GGCTCTGCTGGTAGACTTTCA 59.724 52.381 0.0 0.0 0.0 2.69 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
38 39 1.002134 CGGTGGAGGTCTGGCAATT 60.002 57.895 0.00 0.00 0.00 2.32
39 40 1.308069 CGGTGGAGGTCTGGCAATTG 61.308 60.000 0.00 0.00 0.00 2.32
50 51 1.077716 GGCAATTGGGGCGTACTCT 60.078 57.895 7.72 0.00 0.00 3.24
65 66 0.403271 ACTCTTCATGGTTGGCAGCT 59.597 50.000 0.24 0.00 0.00 4.24
114 115 2.038557 AGGATTTCAACGCTGGTGTACT 59.961 45.455 0.00 0.00 0.00 2.73
166 171 0.456312 GTGCCGTCGTCGAAGATCTT 60.456 55.000 7.95 7.95 40.67 2.40
186 191 2.124736 GCAGCGCCTTGTCCCATA 60.125 61.111 2.29 0.00 0.00 2.74
217 222 2.969238 CATGGCGCGATGGAGGTC 60.969 66.667 23.11 0.00 0.00 3.85
224 229 0.391130 CGCGATGGAGGTCTTTTGGA 60.391 55.000 0.00 0.00 0.00 3.53
236 241 1.640670 TCTTTTGGATGGGAAGGAGGG 59.359 52.381 0.00 0.00 0.00 4.30
239 244 0.121197 TTGGATGGGAAGGAGGGAGT 59.879 55.000 0.00 0.00 0.00 3.85
265 282 4.055710 TGGAGAGTGGTGGTTATCTGTA 57.944 45.455 0.00 0.00 0.00 2.74
311 334 0.110295 TGTGTGTGGAGATTGGGGTG 59.890 55.000 0.00 0.00 0.00 4.61
315 338 0.036164 TGTGGAGATTGGGGTGTTCG 59.964 55.000 0.00 0.00 0.00 3.95
333 356 1.529713 GGGAGAAACCAAACGGGCA 60.530 57.895 0.00 0.00 42.05 5.36
359 382 5.055642 TGAATCGATCGAACTACTGTTGT 57.944 39.130 23.50 0.00 36.39 3.32
419 443 0.960861 GACCCAGCAGCCCAGTAAAC 60.961 60.000 0.00 0.00 0.00 2.01
439 470 4.994471 AAACGACCGAACGCCCCC 62.994 66.667 0.00 0.00 36.70 5.40
467 498 4.063967 AGCCATCGACCGAACGCA 62.064 61.111 13.79 0.00 0.00 5.24
469 500 2.673114 GCCATCGACCGAACGCAAA 61.673 57.895 0.00 0.00 0.00 3.68
473 504 4.712873 CGACCGAACGCAAACCGC 62.713 66.667 0.00 0.00 41.76 5.68
474 505 4.379143 GACCGAACGCAAACCGCC 62.379 66.667 0.00 0.00 41.76 6.13
477 508 4.383602 CGAACGCAAACCGCCCAG 62.384 66.667 0.00 0.00 41.76 4.45
590 631 0.935196 GACCACGACAAAACGCTCTT 59.065 50.000 0.00 0.00 36.70 2.85
591 632 0.655733 ACCACGACAAAACGCTCTTG 59.344 50.000 0.00 0.00 36.70 3.02
636 678 1.601903 ACTGTCAATTTTTCGCTGCGA 59.398 42.857 22.24 22.24 0.00 5.10
692 734 9.897349 GTTTTACAAGAGTTATGACGCTAATAC 57.103 33.333 0.00 0.00 34.64 1.89
697 1535 6.555812 AGAGTTATGACGCTAATACGATGA 57.444 37.500 0.00 0.00 33.92 2.92
700 1538 8.082852 AGAGTTATGACGCTAATACGATGATTT 58.917 33.333 0.00 0.00 33.92 2.17
762 1600 3.010472 TCTTGAGGCCAGGAATTTGATGA 59.990 43.478 5.01 0.00 0.00 2.92
811 1649 0.034896 ACCAAACACGCCTCTACCTG 59.965 55.000 0.00 0.00 0.00 4.00
989 3428 0.748450 TACCCCTACCTCGCGAATTG 59.252 55.000 11.33 4.16 0.00 2.32
1354 3803 2.432628 GTGCCTTCCCTGTCGTCG 60.433 66.667 0.00 0.00 0.00 5.12
1452 3901 1.003355 ACGAGGGACCTTACGACGA 60.003 57.895 0.00 0.00 0.00 4.20
1462 3911 2.203972 CTTACGACGACGGGCTGGAA 62.204 60.000 12.58 0.00 44.46 3.53
1656 4105 1.413767 CGAAAGCGTCGTCCATCAGG 61.414 60.000 4.85 0.00 45.09 3.86
1867 4316 2.240500 GCAGCTCGATGTAAGGCCG 61.241 63.158 0.00 0.00 0.00 6.13
1909 4358 8.376270 CCTCACCCCTCTAATTACCTAATTAAG 58.624 40.741 0.40 0.00 37.60 1.85
1931 4382 5.262009 AGGCCAAGAAACCTCCTATTTTAC 58.738 41.667 5.01 0.00 0.00 2.01
2108 4559 0.179073 CCCCGATGACCAGTAAGCAG 60.179 60.000 0.00 0.00 0.00 4.24
2132 4583 2.126071 CGCTACCATATCCGGCCG 60.126 66.667 21.04 21.04 0.00 6.13
2135 4586 3.310860 CTACCATATCCGGCCGGCC 62.311 68.421 39.89 36.69 34.68 6.13
2154 4605 3.716585 GCGAGCTCTGCCATTCTC 58.283 61.111 12.85 0.00 0.00 2.87
2155 4606 1.143620 GCGAGCTCTGCCATTCTCT 59.856 57.895 12.85 0.00 0.00 3.10
2174 4625 1.172180 TTCTTCTGCCCACGCTTTGG 61.172 55.000 0.00 0.00 46.47 3.28
2181 4632 3.302344 CCACGCTTTGGGTTGGGG 61.302 66.667 0.00 0.00 42.54 4.96
2237 4693 7.299246 AGTAAACTAGGTTTAGCTGAGTTGA 57.701 36.000 0.00 0.00 38.44 3.18
2244 4700 4.532521 AGGTTTAGCTGAGTTGACAGGTAT 59.467 41.667 0.00 0.00 45.72 2.73
2252 4708 5.348997 GCTGAGTTGACAGGTATTGTACTTC 59.651 44.000 0.00 0.00 41.05 3.01
2280 4736 5.849081 TGTCGCGTCTTTTAACATTGATTTC 59.151 36.000 5.77 0.00 0.00 2.17
2322 4798 3.736433 GCGCTGCTTTATTCTCTCTCTCA 60.736 47.826 0.00 0.00 0.00 3.27
2347 4826 0.966920 AGTTGTAGGGTCTGTGGTCG 59.033 55.000 0.00 0.00 0.00 4.79
2351 4830 0.243095 GTAGGGTCTGTGGTCGTGTC 59.757 60.000 0.00 0.00 0.00 3.67
2362 4841 4.801891 TGTGGTCGTGTCTTGTAATCTAC 58.198 43.478 0.00 0.00 0.00 2.59
2363 4842 4.521639 TGTGGTCGTGTCTTGTAATCTACT 59.478 41.667 0.00 0.00 0.00 2.57
2364 4843 5.706833 TGTGGTCGTGTCTTGTAATCTACTA 59.293 40.000 0.00 0.00 0.00 1.82
2365 4844 6.026513 GTGGTCGTGTCTTGTAATCTACTAC 58.973 44.000 0.00 0.00 0.00 2.73
2396 4875 1.135046 CTAGATCGCCATGCTTCGTG 58.865 55.000 0.00 0.00 0.00 4.35
2404 4883 1.268234 GCCATGCTTCGTGTAATCTGC 60.268 52.381 0.00 0.00 0.00 4.26
2405 4884 1.331756 CCATGCTTCGTGTAATCTGCC 59.668 52.381 0.00 0.00 0.00 4.85
2431 5280 2.128853 CTCGATCTCTCTCCGCTGCC 62.129 65.000 0.00 0.00 0.00 4.85
2447 5296 2.969827 CCCGGGTTGCATGGTTTC 59.030 61.111 14.18 0.00 0.00 2.78
2448 5297 2.566010 CCGGGTTGCATGGTTTCG 59.434 61.111 0.00 0.00 0.00 3.46
2449 5298 2.265182 CCGGGTTGCATGGTTTCGT 61.265 57.895 0.00 0.00 0.00 3.85
2450 5299 1.209127 CGGGTTGCATGGTTTCGTC 59.791 57.895 0.00 0.00 0.00 4.20
2451 5300 1.209127 GGGTTGCATGGTTTCGTCG 59.791 57.895 0.00 0.00 0.00 5.12
2572 5705 2.262637 TCCCTACTCGATGGGTTTTGT 58.737 47.619 15.13 0.00 43.74 2.83
2595 5728 1.125021 GTCTGATCTGCGTGTTCGTTG 59.875 52.381 0.00 0.00 39.49 4.10
2596 5729 1.000717 TCTGATCTGCGTGTTCGTTGA 60.001 47.619 0.00 0.00 39.49 3.18
2597 5730 1.792367 CTGATCTGCGTGTTCGTTGAA 59.208 47.619 0.00 0.00 39.49 2.69
2598 5731 1.792367 TGATCTGCGTGTTCGTTGAAG 59.208 47.619 0.00 0.00 39.49 3.02
2599 5732 1.126846 GATCTGCGTGTTCGTTGAAGG 59.873 52.381 0.00 0.00 39.49 3.46
2600 5733 1.082756 CTGCGTGTTCGTTGAAGGC 60.083 57.895 0.00 0.00 39.49 4.35
2601 5734 2.251371 GCGTGTTCGTTGAAGGCC 59.749 61.111 0.00 0.00 39.49 5.19
2637 5807 2.874664 TACGTGCTTGGCTTCGGGT 61.875 57.895 0.00 0.00 33.25 5.28
2638 5808 2.775032 TACGTGCTTGGCTTCGGGTC 62.775 60.000 0.00 0.00 33.25 4.46
2639 5809 3.423154 GTGCTTGGCTTCGGGTCG 61.423 66.667 0.00 0.00 0.00 4.79
2640 5810 4.697756 TGCTTGGCTTCGGGTCGG 62.698 66.667 0.00 0.00 0.00 4.79
2764 5934 7.286087 AGCCATTATGTGACATTATCATTGTGT 59.714 33.333 2.29 0.00 40.28 3.72
2834 6014 1.003118 GTGCCTCCCAACAGTCATGTA 59.997 52.381 0.00 0.00 39.29 2.29
2835 6015 1.278985 TGCCTCCCAACAGTCATGTAG 59.721 52.381 0.00 0.00 39.29 2.74
2836 6016 1.279271 GCCTCCCAACAGTCATGTAGT 59.721 52.381 0.00 0.00 39.29 2.73
2920 6257 1.347707 CCCAGAAGTAGAACAGTGGCA 59.652 52.381 0.00 0.00 0.00 4.92
2941 6278 1.074248 CGGGTAGGGGTTTGCTTGT 59.926 57.895 0.00 0.00 0.00 3.16
2942 6279 0.958876 CGGGTAGGGGTTTGCTTGTC 60.959 60.000 0.00 0.00 0.00 3.18
2943 6280 0.111639 GGGTAGGGGTTTGCTTGTCA 59.888 55.000 0.00 0.00 0.00 3.58
2944 6281 1.534729 GGTAGGGGTTTGCTTGTCAG 58.465 55.000 0.00 0.00 0.00 3.51
2945 6282 1.534729 GTAGGGGTTTGCTTGTCAGG 58.465 55.000 0.00 0.00 0.00 3.86
2946 6283 1.145571 TAGGGGTTTGCTTGTCAGGT 58.854 50.000 0.00 0.00 0.00 4.00
2947 6284 1.145571 AGGGGTTTGCTTGTCAGGTA 58.854 50.000 0.00 0.00 0.00 3.08
2948 6285 1.202891 AGGGGTTTGCTTGTCAGGTAC 60.203 52.381 0.00 0.00 0.00 3.34
2949 6286 1.244816 GGGTTTGCTTGTCAGGTACC 58.755 55.000 2.73 2.73 0.00 3.34
2950 6287 1.477923 GGGTTTGCTTGTCAGGTACCA 60.478 52.381 15.94 0.00 0.00 3.25
2951 6288 2.514803 GGTTTGCTTGTCAGGTACCAT 58.485 47.619 15.94 0.00 0.00 3.55
2952 6289 2.890945 GGTTTGCTTGTCAGGTACCATT 59.109 45.455 15.94 0.00 0.00 3.16
2953 6290 3.305335 GGTTTGCTTGTCAGGTACCATTG 60.305 47.826 15.94 4.56 0.00 2.82
2997 6347 2.795175 GACAAAGGTCGAGTGTCAGA 57.205 50.000 11.56 0.00 41.09 3.27
2998 6348 3.093717 GACAAAGGTCGAGTGTCAGAA 57.906 47.619 11.56 0.00 41.09 3.02
2999 6349 3.053455 GACAAAGGTCGAGTGTCAGAAG 58.947 50.000 11.56 0.00 41.09 2.85
3057 6415 4.156664 TCGAGAGAGAAAACGTCGAAAT 57.843 40.909 0.00 0.00 36.76 2.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 39 0.907704 ACCATGAAGAGTACGCCCCA 60.908 55.000 0.00 0.00 0.00 4.96
39 40 0.252197 AACCATGAAGAGTACGCCCC 59.748 55.000 0.00 0.00 0.00 5.80
50 51 3.368822 GCAGCTGCCAACCATGAA 58.631 55.556 28.76 0.00 34.31 2.57
88 89 1.470098 CCAGCGTTGAAATCCTGAAGG 59.530 52.381 0.00 0.00 0.00 3.46
166 171 4.704833 GGGACAAGGCGCTGCAGA 62.705 66.667 20.43 0.00 0.00 4.26
217 222 1.640670 TCCCTCCTTCCCATCCAAAAG 59.359 52.381 0.00 0.00 0.00 2.27
224 229 0.121197 TCCAACTCCCTCCTTCCCAT 59.879 55.000 0.00 0.00 0.00 4.00
236 241 1.065854 CCACCACTCTCCATCCAACTC 60.066 57.143 0.00 0.00 0.00 3.01
239 244 1.444933 AACCACCACTCTCCATCCAA 58.555 50.000 0.00 0.00 0.00 3.53
265 282 3.194116 GCATTCACATTCACCATCCTTGT 59.806 43.478 0.00 0.00 0.00 3.16
311 334 0.589708 CCGTTTGGTTTCTCCCGAAC 59.410 55.000 0.00 0.00 42.99 3.95
315 338 1.529713 TGCCCGTTTGGTTTCTCCC 60.530 57.895 0.00 0.00 36.04 4.30
333 356 4.156190 ACAGTAGTTCGATCGATTCAGTGT 59.844 41.667 20.18 19.93 0.00 3.55
389 413 3.710722 CTGGGTCGGGCTCTGCTT 61.711 66.667 0.00 0.00 0.00 3.91
419 443 1.369568 GGGCGTTCGGTCGTTTTTG 60.370 57.895 0.00 0.00 0.00 2.44
439 470 2.362889 GATGGCTGGGGTGGGTTG 60.363 66.667 0.00 0.00 0.00 3.77
440 471 4.047125 CGATGGCTGGGGTGGGTT 62.047 66.667 0.00 0.00 0.00 4.11
511 552 0.109132 CGGCCGTTAACGACCTTACT 60.109 55.000 27.32 0.00 39.85 2.24
518 559 1.008361 GCACTAACGGCCGTTAACGA 61.008 55.000 40.88 27.10 43.02 3.85
572 613 0.655733 CAAGAGCGTTTTGTCGTGGT 59.344 50.000 0.00 0.00 0.00 4.16
578 619 3.859411 TGTTTTCCAAGAGCGTTTTGT 57.141 38.095 0.00 0.00 0.00 2.83
590 631 6.038050 GGCAAAAATCACTGATTTGTTTTCCA 59.962 34.615 16.18 0.00 40.77 3.53
591 632 6.038050 TGGCAAAAATCACTGATTTGTTTTCC 59.962 34.615 16.18 12.14 40.77 3.13
636 678 0.235665 CAAACTGTGACGCTTCGCAT 59.764 50.000 6.93 0.00 41.46 4.73
644 686 4.201970 ACCACCATTTTACAAACTGTGACG 60.202 41.667 0.00 0.00 0.00 4.35
673 715 6.967135 TCATCGTATTAGCGTCATAACTCTT 58.033 36.000 0.00 0.00 0.00 2.85
697 1535 8.932791 CCACGAGTAGAGTAAAATGTACAAAAT 58.067 33.333 0.00 0.00 0.00 1.82
700 1538 6.392354 CCCACGAGTAGAGTAAAATGTACAA 58.608 40.000 0.00 0.00 0.00 2.41
959 3398 1.477740 GGTAGGGGTAGGACGTAGGAC 60.478 61.905 0.00 0.00 0.00 3.85
960 3399 0.846693 GGTAGGGGTAGGACGTAGGA 59.153 60.000 0.00 0.00 0.00 2.94
961 3400 0.849417 AGGTAGGGGTAGGACGTAGG 59.151 60.000 0.00 0.00 0.00 3.18
962 3401 1.542108 CGAGGTAGGGGTAGGACGTAG 60.542 61.905 0.00 0.00 0.00 3.51
963 3402 0.469917 CGAGGTAGGGGTAGGACGTA 59.530 60.000 0.00 0.00 0.00 3.57
964 3403 1.225704 CGAGGTAGGGGTAGGACGT 59.774 63.158 0.00 0.00 0.00 4.34
965 3404 2.192187 GCGAGGTAGGGGTAGGACG 61.192 68.421 0.00 0.00 0.00 4.79
1308 3757 2.668550 GAGGCGGTTGTGGTGGAC 60.669 66.667 0.00 0.00 0.00 4.02
1309 3758 4.308458 CGAGGCGGTTGTGGTGGA 62.308 66.667 0.00 0.00 0.00 4.02
1452 3901 3.635510 GGAGATCTTCCAGCCCGT 58.364 61.111 0.00 0.00 46.01 5.28
1462 3911 0.105964 TGAGCTTAGCCCGGAGATCT 60.106 55.000 0.73 0.00 0.00 2.75
1867 4316 2.638363 GTGAGGGGTAGTATGGGGAATC 59.362 54.545 0.00 0.00 0.00 2.52
1909 4358 4.401519 GGTAAAATAGGAGGTTTCTTGGCC 59.598 45.833 0.00 0.00 0.00 5.36
1912 4361 7.035612 GCAATGGTAAAATAGGAGGTTTCTTG 58.964 38.462 0.00 0.00 0.00 3.02
1915 4366 5.163447 GGGCAATGGTAAAATAGGAGGTTTC 60.163 44.000 0.00 0.00 0.00 2.78
1931 4382 3.449018 AGCGTATAGATAGAGGGCAATGG 59.551 47.826 0.00 0.00 0.00 3.16
2137 4588 0.461693 AAGAGAATGGCAGAGCTCGC 60.462 55.000 18.35 18.35 32.80 5.03
2138 4589 1.136695 AGAAGAGAATGGCAGAGCTCG 59.863 52.381 8.37 4.60 32.80 5.03
2139 4590 2.985957 AGAAGAGAATGGCAGAGCTC 57.014 50.000 5.27 5.27 0.00 4.09
2140 4591 2.839425 AGAAGAAGAGAATGGCAGAGCT 59.161 45.455 0.00 0.00 0.00 4.09
2141 4592 2.937799 CAGAAGAAGAGAATGGCAGAGC 59.062 50.000 0.00 0.00 0.00 4.09
2142 4593 2.937799 GCAGAAGAAGAGAATGGCAGAG 59.062 50.000 0.00 0.00 0.00 3.35
2145 4596 1.340405 GGGCAGAAGAAGAGAATGGCA 60.340 52.381 0.00 0.00 38.12 4.92
2146 4597 1.340405 TGGGCAGAAGAAGAGAATGGC 60.340 52.381 0.00 0.00 35.85 4.40
2147 4598 2.363683 GTGGGCAGAAGAAGAGAATGG 58.636 52.381 0.00 0.00 0.00 3.16
2148 4599 2.005451 CGTGGGCAGAAGAAGAGAATG 58.995 52.381 0.00 0.00 0.00 2.67
2149 4600 1.677217 GCGTGGGCAGAAGAAGAGAAT 60.677 52.381 0.00 0.00 39.62 2.40
2150 4601 0.320771 GCGTGGGCAGAAGAAGAGAA 60.321 55.000 0.00 0.00 39.62 2.87
2151 4602 1.188219 AGCGTGGGCAGAAGAAGAGA 61.188 55.000 0.00 0.00 43.41 3.10
2152 4603 0.321122 AAGCGTGGGCAGAAGAAGAG 60.321 55.000 0.00 0.00 43.41 2.85
2153 4604 0.108585 AAAGCGTGGGCAGAAGAAGA 59.891 50.000 0.00 0.00 43.41 2.87
2154 4605 0.239347 CAAAGCGTGGGCAGAAGAAG 59.761 55.000 0.00 0.00 43.41 2.85
2155 4606 1.172180 CCAAAGCGTGGGCAGAAGAA 61.172 55.000 1.68 0.00 44.64 2.52
2174 4625 2.197324 TTGCTGGTGACCCCAACC 59.803 61.111 0.00 0.00 44.65 3.77
2179 4630 0.102300 GTTGTTGTTGCTGGTGACCC 59.898 55.000 0.00 0.00 0.00 4.46
2181 4632 2.645730 TTGTTGTTGTTGCTGGTGAC 57.354 45.000 0.00 0.00 0.00 3.67
2188 4644 5.752955 ACTCCATACATTTTGTTGTTGTTGC 59.247 36.000 0.00 0.00 0.00 4.17
2237 4693 4.439700 CGACATCGGAAGTACAATACCTGT 60.440 45.833 0.00 0.00 37.62 4.00
2244 4700 0.241749 ACGCGACATCGGAAGTACAA 59.758 50.000 15.93 0.00 40.23 2.41
2252 4708 1.722464 TGTTAAAAGACGCGACATCGG 59.278 47.619 15.93 0.00 40.23 4.18
2311 4767 7.721842 CCCTACAACTATACATGAGAGAGAGAA 59.278 40.741 0.00 0.00 0.00 2.87
2322 4798 5.278061 ACCACAGACCCTACAACTATACAT 58.722 41.667 0.00 0.00 0.00 2.29
2362 4841 5.298276 GGCGATCTAGATGGATTAGGAGTAG 59.702 48.000 17.98 0.00 0.00 2.57
2363 4842 5.194432 GGCGATCTAGATGGATTAGGAGTA 58.806 45.833 17.98 0.00 0.00 2.59
2364 4843 4.020543 GGCGATCTAGATGGATTAGGAGT 58.979 47.826 17.98 0.00 0.00 3.85
2365 4844 4.019858 TGGCGATCTAGATGGATTAGGAG 58.980 47.826 17.98 0.00 0.00 3.69
2381 4860 1.867233 GATTACACGAAGCATGGCGAT 59.133 47.619 0.00 0.00 0.00 4.58
2383 4862 1.004610 CAGATTACACGAAGCATGGCG 60.005 52.381 0.00 0.00 0.00 5.69
2396 4875 3.620929 TCGAGTACGATGGCAGATTAC 57.379 47.619 0.00 0.00 43.81 1.89
2431 5280 2.195123 GACGAAACCATGCAACCCGG 62.195 60.000 0.00 0.00 0.00 5.73
2438 5287 1.279527 TGACGACGACGAAACCATGC 61.280 55.000 15.32 0.00 42.66 4.06
2439 5288 1.320555 GATGACGACGACGAAACCATG 59.679 52.381 15.32 0.00 42.66 3.66
2440 5289 1.068125 TGATGACGACGACGAAACCAT 60.068 47.619 15.32 10.84 42.66 3.55
2441 5290 0.311477 TGATGACGACGACGAAACCA 59.689 50.000 15.32 6.59 42.66 3.67
2442 5291 1.123756 GTTGATGACGACGACGAAACC 59.876 52.381 15.32 1.31 42.66 3.27
2444 5293 1.269154 TGGTTGATGACGACGACGAAA 60.269 47.619 15.32 1.54 42.66 3.46
2447 5296 0.662077 TGTGGTTGATGACGACGACG 60.662 55.000 5.58 5.58 40.45 5.12
2448 5297 1.060713 CTGTGGTTGATGACGACGAC 58.939 55.000 0.00 0.00 39.57 4.34
2449 5298 0.671796 ACTGTGGTTGATGACGACGA 59.328 50.000 0.00 0.00 39.57 4.20
2450 5299 0.784178 CACTGTGGTTGATGACGACG 59.216 55.000 0.00 0.00 39.57 5.12
2451 5300 0.512952 GCACTGTGGTTGATGACGAC 59.487 55.000 10.21 0.00 37.48 4.34
2482 5331 0.662619 CAACAGACTGCGAAAAGGCA 59.337 50.000 1.25 0.00 41.45 4.75
2572 5705 0.109272 GAACACGCAGATCAGACGGA 60.109 55.000 0.00 0.00 0.00 4.69
2595 5728 4.023365 CGGCTATATACCTATACGGCCTTC 60.023 50.000 0.00 0.00 37.18 3.46
2596 5729 3.887716 CGGCTATATACCTATACGGCCTT 59.112 47.826 0.00 0.00 37.18 4.35
2597 5730 3.117738 ACGGCTATATACCTATACGGCCT 60.118 47.826 0.00 0.00 37.18 5.19
2598 5731 3.217626 ACGGCTATATACCTATACGGCC 58.782 50.000 0.00 0.00 36.57 6.13
2599 5732 4.084328 CGTACGGCTATATACCTATACGGC 60.084 50.000 7.57 3.89 36.78 5.68
2600 5733 5.050490 ACGTACGGCTATATACCTATACGG 58.950 45.833 21.06 13.36 40.98 4.02
2601 5734 5.557136 GCACGTACGGCTATATACCTATACG 60.557 48.000 21.06 19.42 41.74 3.06
2685 5855 1.745890 GTCCAAGCACCCCAAAACC 59.254 57.895 0.00 0.00 0.00 3.27
2920 6257 4.043100 GCAAACCCCTACCCGCCT 62.043 66.667 0.00 0.00 0.00 5.52
2941 6278 2.513753 CAAACTGCCAATGGTACCTGA 58.486 47.619 14.36 0.00 0.00 3.86
2942 6279 1.545582 CCAAACTGCCAATGGTACCTG 59.454 52.381 14.36 3.60 0.00 4.00
2943 6280 1.427368 TCCAAACTGCCAATGGTACCT 59.573 47.619 14.36 0.00 35.66 3.08
2944 6281 1.917872 TCCAAACTGCCAATGGTACC 58.082 50.000 4.43 4.43 35.66 3.34
2945 6282 2.890945 AGTTCCAAACTGCCAATGGTAC 59.109 45.455 0.00 0.00 41.01 3.34
2946 6283 3.153919 GAGTTCCAAACTGCCAATGGTA 58.846 45.455 0.00 0.00 43.03 3.25
2947 6284 1.963515 GAGTTCCAAACTGCCAATGGT 59.036 47.619 0.00 0.00 43.03 3.55
2948 6285 2.029649 CAGAGTTCCAAACTGCCAATGG 60.030 50.000 0.00 0.00 43.03 3.16
2949 6286 2.624838 ACAGAGTTCCAAACTGCCAATG 59.375 45.455 0.00 0.00 43.03 2.82
2950 6287 2.949447 ACAGAGTTCCAAACTGCCAAT 58.051 42.857 0.00 0.00 43.03 3.16
2951 6288 2.435372 ACAGAGTTCCAAACTGCCAA 57.565 45.000 0.00 0.00 43.03 4.52
2952 6289 2.435372 AACAGAGTTCCAAACTGCCA 57.565 45.000 0.00 0.00 43.03 4.92
2953 6290 3.883489 AGTAAACAGAGTTCCAAACTGCC 59.117 43.478 0.00 0.00 43.03 4.85
3006 6356 5.050091 CACGAGCTTTGTGACAGTAATTTCT 60.050 40.000 13.19 0.00 39.73 2.52
3007 6357 5.140177 CACGAGCTTTGTGACAGTAATTTC 58.860 41.667 13.19 0.00 39.73 2.17
3008 6358 4.574828 ACACGAGCTTTGTGACAGTAATTT 59.425 37.500 22.34 0.00 39.73 1.82
3010 6360 3.728845 ACACGAGCTTTGTGACAGTAAT 58.271 40.909 22.34 0.41 39.73 1.89
3057 6415 1.276421 GGCTCTGCTGGTAGACTTTCA 59.724 52.381 0.00 0.00 0.00 2.69


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

AutoCloner maintained by Alex Coulton.