Multiple sequence alignment - TraesCS6A01G251400

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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 TraesCS6A01G251400 chr6A 100.000 5229 0 0 1 5229 465938792 465933564 0.000000e+00 9657.0
1 TraesCS6A01G251400 chr6D 95.263 4919 145 20 322 5229 327210383 327205542 0.000000e+00 7712.0
2 TraesCS6A01G251400 chr6B 92.932 5277 259 45 1 5224 494423202 494428417 0.000000e+00 7574.0
3 TraesCS6A01G251400 chr1B 73.623 345 51 23 436 757 681801239 681800912 4.310000e-16 97.1


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 TraesCS6A01G251400 chr6A 465933564 465938792 5228 True 9657 9657 100.000 1 5229 1 chr6A.!!$R1 5228
1 TraesCS6A01G251400 chr6D 327205542 327210383 4841 True 7712 7712 95.263 322 5229 1 chr6D.!!$R1 4907
2 TraesCS6A01G251400 chr6B 494423202 494428417 5215 False 7574 7574 92.932 1 5224 1 chr6B.!!$F1 5223

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
176 178 0.105453 ACGGGAGGTGCAGATCCTAT 60.105 55.000 15.05 3.29 35.2 2.57 F
177 179 0.319728 CGGGAGGTGCAGATCCTATG 59.680 60.000 15.05 4.33 35.2 2.23 F
1740 1775 0.407139 AGGGCTCCTTCTTGTGCAAT 59.593 50.000 0.00 0.00 0.0 3.56 F
2373 2408 1.299541 CCTGCGACACACTGACTTTT 58.700 50.000 0.00 0.00 0.0 2.27 F
2374 2409 1.670811 CCTGCGACACACTGACTTTTT 59.329 47.619 0.00 0.00 0.0 1.94 F
2405 2440 1.961277 CTATGGAACGATGGGCCGC 60.961 63.158 0.00 0.00 0.0 6.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1974 2009 0.689623 AGAAACCAGAGGCTCCACAG 59.310 55.000 11.71 0.0 0.00 3.66 R
2026 2061 6.548622 AGATATTTTTGGGATGTCTGGTCATG 59.451 38.462 0.00 0.0 0.00 3.07 R
3542 3578 3.323115 CAGCCCTCTCATAGCACTTGATA 59.677 47.826 0.00 0.0 0.00 2.15 R
3966 4004 0.951558 ACAAACTAAAGCGGGTGCAG 59.048 50.000 0.00 0.0 46.23 4.41 R
4172 4218 3.462483 TCCAGACTGTGCTCGTTTTAA 57.538 42.857 0.93 0.0 0.00 1.52 R
4345 4392 4.082733 GCCTTCTCTGGAAACCAAATGTAC 60.083 45.833 0.00 0.0 30.80 2.90 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
34 35 8.461249 TGAGAACCACATACTATAGTAAGGTC 57.539 38.462 23.96 17.44 35.00 3.85
42 43 8.346300 CACATACTATAGTAAGGTCAGTGTGAG 58.654 40.741 23.82 9.60 35.35 3.51
44 45 9.121658 CATACTATAGTAAGGTCAGTGTGAGAA 57.878 37.037 16.37 0.00 32.09 2.87
46 47 3.669251 AGTAAGGTCAGTGTGAGAAGC 57.331 47.619 0.00 0.00 0.00 3.86
53 54 3.060602 GTCAGTGTGAGAAGCCAAGTAC 58.939 50.000 0.00 0.00 0.00 2.73
55 56 0.790814 GTGTGAGAAGCCAAGTACGC 59.209 55.000 0.00 0.00 0.00 4.42
70 71 5.180492 CCAAGTACGCAGTTTATCTTTGGAA 59.820 40.000 0.00 0.00 37.78 3.53
90 91 7.838079 TGGAAGATACAATTTGATAATGGGG 57.162 36.000 2.79 0.00 0.00 4.96
97 98 2.475339 TTTGATAATGGGGGCATGCT 57.525 45.000 18.92 0.00 0.00 3.79
101 102 2.176581 TGATAATGGGGGCATGCTACAA 59.823 45.455 18.92 4.58 0.00 2.41
121 122 9.764870 GCTACAATGCATATGACATATTTGTAG 57.235 33.333 29.77 29.77 41.47 2.74
123 124 8.922931 ACAATGCATATGACATATTTGTAGGA 57.077 30.769 16.92 4.88 35.79 2.94
160 162 3.858812 CCAAATGCAACACAATATCACGG 59.141 43.478 0.00 0.00 0.00 4.94
176 178 0.105453 ACGGGAGGTGCAGATCCTAT 60.105 55.000 15.05 3.29 35.20 2.57
177 179 0.319728 CGGGAGGTGCAGATCCTATG 59.680 60.000 15.05 4.33 35.20 2.23
222 224 5.104374 AGCGTGCCATGATTAAGAAAAATG 58.896 37.500 0.00 0.00 0.00 2.32
239 241 9.476202 AAGAAAAATGTAAACTGCAAAGGTATC 57.524 29.630 0.00 0.00 0.00 2.24
240 242 8.637986 AGAAAAATGTAAACTGCAAAGGTATCA 58.362 29.630 0.00 0.00 0.00 2.15
241 243 9.255304 GAAAAATGTAAACTGCAAAGGTATCAA 57.745 29.630 0.00 0.00 0.00 2.57
306 309 9.361315 GTCAAACCTTACACATTTAGTTTTGTT 57.639 29.630 0.00 0.00 0.00 2.83
330 333 6.600882 ATTCATTTATGGGAGGCATCATTC 57.399 37.500 0.00 0.00 0.00 2.67
333 336 6.079336 TCATTTATGGGAGGCATCATTCAAT 58.921 36.000 0.00 0.00 0.00 2.57
341 344 5.240121 GGAGGCATCATTCAATGTTGTTTT 58.760 37.500 9.67 0.00 33.57 2.43
412 415 6.058183 CCGATTCTTCAGGGTGAAAATCTAT 58.942 40.000 15.06 0.00 35.73 1.98
421 424 8.974060 TCAGGGTGAAAATCTATAATGTTACC 57.026 34.615 0.00 0.00 0.00 2.85
427 430 9.516314 GTGAAAATCTATAATGTTACCTTTGGC 57.484 33.333 0.00 0.00 0.00 4.52
455 458 4.693532 GGTGACGGTGATTGAGCA 57.306 55.556 0.00 0.00 0.00 4.26
481 484 4.219288 ACTCCATTCATGAAGGCTTTGTTC 59.781 41.667 14.55 0.00 0.00 3.18
497 500 7.285401 AGGCTTTGTTCTTGAAGAATCTTGTTA 59.715 33.333 11.20 0.00 36.50 2.41
526 529 2.357009 GGTGTCATGAGATGAATGGTGC 59.643 50.000 0.00 0.00 41.69 5.01
547 550 2.235016 GGCCATGGTTGTAGTTTGTCA 58.765 47.619 14.67 0.00 0.00 3.58
554 557 6.294675 CCATGGTTGTAGTTTGTCAATCACAT 60.295 38.462 2.57 0.00 37.47 3.21
611 614 3.632145 CCTCGCTTAGGCATAATTTGGTT 59.368 43.478 0.00 0.00 38.97 3.67
687 696 2.930826 ATTTATGTAGAGGCCGGGTG 57.069 50.000 2.18 0.00 0.00 4.61
690 699 1.682451 TATGTAGAGGCCGGGTGTGC 61.682 60.000 2.18 0.00 0.00 4.57
698 707 2.111043 CCGGGTGTGCACTCACTT 59.889 61.111 19.41 0.00 43.49 3.16
713 740 5.858581 GCACTCACTTTGTTTGTATCCATTC 59.141 40.000 0.00 0.00 0.00 2.67
838 865 0.842030 TCATCCACTCAGGCCCAACT 60.842 55.000 0.00 0.00 37.29 3.16
865 892 1.431195 TAGCCCAGCCCAACCAAAGA 61.431 55.000 0.00 0.00 0.00 2.52
885 912 3.766051 AGATCTCCCTCAAATGCCAAAAC 59.234 43.478 0.00 0.00 0.00 2.43
1641 1676 1.279271 GCTTCACTGGACCTGGTACAT 59.721 52.381 13.20 0.00 38.20 2.29
1656 1691 4.331968 TGGTACATTAAAGGTCAGGCTTG 58.668 43.478 0.00 0.00 0.00 4.01
1663 1698 7.179269 ACATTAAAGGTCAGGCTTGGTTATTA 58.821 34.615 0.00 0.00 0.00 0.98
1740 1775 0.407139 AGGGCTCCTTCTTGTGCAAT 59.593 50.000 0.00 0.00 0.00 3.56
1925 1960 5.997746 AGAAGAGATGCTAGCAGTAGACTAG 59.002 44.000 23.89 0.00 40.13 2.57
1953 1988 3.798337 GCTTCAGTTGTTTTGTCATGGTG 59.202 43.478 0.00 0.00 0.00 4.17
1974 2009 7.771183 TGGTGTAATGAAGCTGGAATAAATTC 58.229 34.615 0.00 0.00 36.08 2.17
2026 2061 5.034554 TCGTTGATGAAAGTTCAGATTGC 57.965 39.130 0.00 0.00 41.08 3.56
2040 2075 2.617308 CAGATTGCATGACCAGACATCC 59.383 50.000 0.00 0.00 0.00 3.51
2041 2076 1.952296 GATTGCATGACCAGACATCCC 59.048 52.381 0.00 0.00 0.00 3.85
2146 2181 6.185114 AGATGATTGGCTAGCTCTTTGTAT 57.815 37.500 15.72 1.18 0.00 2.29
2223 2258 5.795972 TGTGATAATACAACGGTTCTTCCA 58.204 37.500 0.00 0.00 35.57 3.53
2287 2322 3.567576 TCGTTTGCCAAATACACATGG 57.432 42.857 0.00 0.00 39.80 3.66
2292 2327 5.244755 GTTTGCCAAATACACATGGGATTT 58.755 37.500 0.00 0.00 36.88 2.17
2373 2408 1.299541 CCTGCGACACACTGACTTTT 58.700 50.000 0.00 0.00 0.00 2.27
2374 2409 1.670811 CCTGCGACACACTGACTTTTT 59.329 47.619 0.00 0.00 0.00 1.94
2405 2440 1.961277 CTATGGAACGATGGGCCGC 60.961 63.158 0.00 0.00 0.00 6.53
2450 2485 5.130705 AGTTTTCTCCCCTCTTTTCTTGT 57.869 39.130 0.00 0.00 0.00 3.16
2457 2492 3.518303 TCCCCTCTTTTCTTGTAGCCTAC 59.482 47.826 0.00 0.00 0.00 3.18
2696 2732 4.019174 CTGGTGCTATTGATTCCTTTGGT 58.981 43.478 0.00 0.00 0.00 3.67
3059 3095 5.815233 TTGAAGAACTCCTCAGAACTGAT 57.185 39.130 4.96 0.00 39.13 2.90
3813 3849 3.532542 GATTACACTGGCCCAGTAAGTC 58.467 50.000 17.77 10.30 43.43 3.01
3857 3895 9.912634 CAGCCTAATTGAAAAGAAAAACAGATA 57.087 29.630 0.00 0.00 0.00 1.98
3892 3930 2.027285 TGGTGAAATCTTGAGATCGGCA 60.027 45.455 0.00 0.00 32.75 5.69
3966 4004 6.015772 TGAAACCAACTTCAACCTAATTAGGC 60.016 38.462 28.19 9.63 37.40 3.93
3974 4012 3.006672 CCTAATTAGGCTGCACCCG 57.993 57.895 18.52 0.00 40.58 5.28
4162 4208 7.380602 CAGGAAAAAGAGACTGCAAAAAGTATG 59.619 37.037 0.00 0.00 0.00 2.39
4172 4218 5.596772 ACTGCAAAAAGTATGTTACAAGGGT 59.403 36.000 0.00 0.00 0.00 4.34
4345 4392 2.762887 TCTTACATGCAGAGAGGGACAG 59.237 50.000 0.00 0.00 0.00 3.51
4359 4406 3.756963 GAGGGACAGTACATTTGGTTTCC 59.243 47.826 0.00 0.00 0.00 3.13
4426 4473 4.052518 CCACTCCAGGGGCAAGGG 62.053 72.222 0.00 0.00 0.00 3.95
4428 4475 2.936032 ACTCCAGGGGCAAGGGAC 60.936 66.667 0.00 0.00 0.00 4.46
4481 4528 1.464997 GTGTTTCGAACATCTCCAGCC 59.535 52.381 0.00 0.00 44.35 4.85
4700 4747 1.610522 AGAAGTGTCAGCATTGTTGGC 59.389 47.619 0.00 0.00 0.00 4.52
4708 4755 1.760192 AGCATTGTTGGCTGATCTCC 58.240 50.000 0.00 0.00 40.80 3.71
4716 4763 2.899339 GCTGATCTCCGCTTGGCC 60.899 66.667 0.00 0.00 0.00 5.36
4750 4797 1.268079 GGCTTTTCTTCACTGGACTGC 59.732 52.381 0.00 0.00 0.00 4.40
4751 4798 2.225467 GCTTTTCTTCACTGGACTGCT 58.775 47.619 0.00 0.00 0.00 4.24
4752 4799 2.620585 GCTTTTCTTCACTGGACTGCTT 59.379 45.455 0.00 0.00 0.00 3.91
4753 4800 3.067320 GCTTTTCTTCACTGGACTGCTTT 59.933 43.478 0.00 0.00 0.00 3.51
4754 4801 4.604976 CTTTTCTTCACTGGACTGCTTTG 58.395 43.478 0.00 0.00 0.00 2.77
4824 4871 0.752054 CAGGCATCTCTGGAGGACTC 59.248 60.000 0.00 0.00 39.89 3.36
4967 5017 1.349688 TGTTGATGTTTCGTAGGCCCT 59.650 47.619 0.00 0.00 0.00 5.19
5078 5128 5.046529 ACTAATGCGTGCAAAAACAAATCA 58.953 33.333 0.00 0.00 0.00 2.57
5098 5149 0.604578 TTGGCCTGCAAAGATTCTGC 59.395 50.000 3.32 0.00 40.35 4.26
5136 5188 2.229675 TTATCATCTGAGTGGCGCTG 57.770 50.000 4.71 0.00 0.00 5.18
5144 5196 1.204312 GAGTGGCGCTGACGTTTTC 59.796 57.895 4.71 0.00 42.83 2.29
5194 5247 9.997482 TGTGATGTTACTAGTTTTCTTTTGTTC 57.003 29.630 0.00 0.00 0.00 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 35 2.061773 CGTACTTGGCTTCTCACACTG 58.938 52.381 0.00 0.00 0.00 3.66
42 43 3.933332 AGATAAACTGCGTACTTGGCTTC 59.067 43.478 0.00 0.00 0.00 3.86
44 45 3.611766 AGATAAACTGCGTACTTGGCT 57.388 42.857 0.00 0.00 0.00 4.75
46 47 4.693566 TCCAAAGATAAACTGCGTACTTGG 59.306 41.667 0.00 0.00 33.04 3.61
70 71 5.714863 TGCCCCCATTATCAAATTGTATCT 58.285 37.500 0.00 0.00 0.00 1.98
129 130 3.509575 TGTGTTGCATTTGGAGTATTCCC 59.490 43.478 1.20 0.00 43.33 3.97
136 137 4.794762 CGTGATATTGTGTTGCATTTGGAG 59.205 41.667 0.00 0.00 0.00 3.86
138 139 3.858812 CCGTGATATTGTGTTGCATTTGG 59.141 43.478 0.00 0.00 0.00 3.28
160 162 5.020132 AGTATACATAGGATCTGCACCTCC 58.980 45.833 5.50 0.00 38.76 4.30
191 193 2.350899 TCATGGCACGCTTCAAATTG 57.649 45.000 0.00 0.00 0.00 2.32
197 199 4.355543 TTTCTTAATCATGGCACGCTTC 57.644 40.909 0.00 0.00 0.00 3.86
199 201 4.782019 TTTTTCTTAATCATGGCACGCT 57.218 36.364 0.00 0.00 0.00 5.07
202 204 9.423061 AGTTTACATTTTTCTTAATCATGGCAC 57.577 29.630 0.00 0.00 0.00 5.01
222 224 6.151144 AGACCATTGATACCTTTGCAGTTTAC 59.849 38.462 0.00 0.00 0.00 2.01
299 302 7.327214 TGCCTCCCATAAATGAATAACAAAAC 58.673 34.615 0.00 0.00 0.00 2.43
306 309 7.240167 TGAATGATGCCTCCCATAAATGAATA 58.760 34.615 0.00 0.00 33.29 1.75
311 314 5.842328 ACATTGAATGATGCCTCCCATAAAT 59.158 36.000 12.80 0.00 33.29 1.40
314 317 4.458256 ACATTGAATGATGCCTCCCATA 57.542 40.909 12.80 0.00 33.29 2.74
315 318 3.323774 ACATTGAATGATGCCTCCCAT 57.676 42.857 12.80 0.00 36.70 4.00
319 322 5.697633 ACAAAACAACATTGAATGATGCCTC 59.302 36.000 12.80 0.00 36.63 4.70
333 336 9.979578 ATCAGCTTTATTAATCACAAAACAACA 57.020 25.926 0.00 0.00 0.00 3.33
341 344 9.844790 CAAAGAACATCAGCTTTATTAATCACA 57.155 29.630 0.00 0.00 33.34 3.58
386 389 3.502123 TTTCACCCTGAAGAATCGGTT 57.498 42.857 0.00 0.00 37.70 4.44
412 415 2.820787 CCAACCGCCAAAGGTAACATTA 59.179 45.455 0.00 0.00 45.21 1.90
416 419 0.824595 ACCCAACCGCCAAAGGTAAC 60.825 55.000 0.00 0.00 45.21 2.50
421 424 3.361977 CGGACCCAACCGCCAAAG 61.362 66.667 0.00 0.00 46.20 2.77
455 458 3.947612 AGCCTTCATGAATGGAGTGAT 57.052 42.857 21.24 0.85 31.17 3.06
467 470 6.492772 AGATTCTTCAAGAACAAAGCCTTCAT 59.507 34.615 0.68 0.00 37.00 2.57
481 484 9.401058 ACCATAAGGATAACAAGATTCTTCAAG 57.599 33.333 0.00 0.00 38.69 3.02
497 500 6.505048 TTCATCTCATGACACCATAAGGAT 57.495 37.500 0.00 0.00 39.39 3.24
526 529 1.199097 GACAAACTACAACCATGGCCG 59.801 52.381 13.04 5.43 0.00 6.13
533 536 9.128107 CAAATATGTGATTGACAAACTACAACC 57.872 33.333 0.00 0.00 38.36 3.77
577 580 3.135895 CCTAAGCGAGGGGGAAAGAATAA 59.864 47.826 0.00 0.00 42.39 1.40
611 614 8.757789 CGCCGACAAATAGTAAAGTCATATAAA 58.242 33.333 0.00 0.00 0.00 1.40
687 696 4.537015 GGATACAAACAAAGTGAGTGCAC 58.463 43.478 9.40 9.40 45.49 4.57
727 754 6.926630 ACAAAAGGTGGATTTTATTGGCTA 57.073 33.333 0.00 0.00 31.29 3.93
838 865 2.768344 GGCTGGGCTAGGTGGCTA 60.768 66.667 0.00 0.00 41.48 3.93
865 892 3.782992 AGTTTTGGCATTTGAGGGAGAT 58.217 40.909 0.00 0.00 0.00 2.75
885 912 2.892425 GATGCGGCGGGTCTGAAG 60.892 66.667 9.78 0.00 0.00 3.02
1116 1144 3.479489 GTTAGGGTTTTGACTTTCGGGA 58.521 45.455 0.00 0.00 0.00 5.14
1205 1233 4.778143 ATTGCCGCCGACTGGGAC 62.778 66.667 0.00 0.00 38.47 4.46
1641 1676 8.113462 AGAATAATAACCAAGCCTGACCTTTAA 58.887 33.333 0.00 0.00 0.00 1.52
1690 1725 6.461788 GCACCCACAAAACTTCCTACAAAATA 60.462 38.462 0.00 0.00 0.00 1.40
1740 1775 8.618240 TCCAGGTAAATCTTCTATTACTCCAA 57.382 34.615 0.00 0.00 33.53 3.53
1925 1960 4.095782 TGACAAAACAACTGAAGCACCTAC 59.904 41.667 0.00 0.00 0.00 3.18
1953 1988 7.917505 CCACAGAATTTATTCCAGCTTCATTAC 59.082 37.037 0.00 0.00 37.51 1.89
1974 2009 0.689623 AGAAACCAGAGGCTCCACAG 59.310 55.000 11.71 0.00 0.00 3.66
2026 2061 6.548622 AGATATTTTTGGGATGTCTGGTCATG 59.451 38.462 0.00 0.00 0.00 3.07
2146 2181 8.047413 TCTATCATCACAACGAGTACTTAACA 57.953 34.615 0.00 0.00 0.00 2.41
2223 2258 7.559170 ACATAAGCAATTTCTGAGCTTCCTTAT 59.441 33.333 5.30 0.10 44.67 1.73
2282 2317 8.365060 TCTCATTACAATTTGAAATCCCATGT 57.635 30.769 2.79 0.00 0.00 3.21
2292 2327 7.039853 TGGAGCACATTTCTCATTACAATTTGA 60.040 33.333 2.79 0.00 32.38 2.69
2373 2408 6.416415 TCGTTCCATAGGCCAAAAGTATAAA 58.584 36.000 5.01 0.00 0.00 1.40
2374 2409 5.991861 TCGTTCCATAGGCCAAAAGTATAA 58.008 37.500 5.01 0.00 0.00 0.98
2375 2410 5.617528 TCGTTCCATAGGCCAAAAGTATA 57.382 39.130 5.01 0.00 0.00 1.47
2405 2440 1.410153 GCCTTAAATGGACATGGCCAG 59.590 52.381 27.68 12.38 42.15 4.85
2450 2485 2.546899 TCTGCAAGGGAAAGTAGGCTA 58.453 47.619 0.00 0.00 0.00 3.93
2457 2492 3.004106 CAGACAGTTTCTGCAAGGGAAAG 59.996 47.826 0.20 0.00 45.51 2.62
2696 2732 5.804639 AGAACAATGCCATACAAGTACAGA 58.195 37.500 0.00 0.00 0.00 3.41
3059 3095 4.224147 TCCATAGAATCCACACGAAAAGGA 59.776 41.667 0.00 0.00 35.59 3.36
3542 3578 3.323115 CAGCCCTCTCATAGCACTTGATA 59.677 47.826 0.00 0.00 0.00 2.15
3813 3849 3.983344 GGCTGAAGCAAAGTGTACAAATG 59.017 43.478 0.00 0.00 44.36 2.32
3857 3895 8.676401 CAAGATTTCACCATTTTGTTTCCTTTT 58.324 29.630 0.00 0.00 0.00 2.27
3892 3930 7.552687 TGATCCTTCGTTAACTCATTTGCTAAT 59.447 33.333 3.71 0.00 0.00 1.73
3966 4004 0.951558 ACAAACTAAAGCGGGTGCAG 59.048 50.000 0.00 0.00 46.23 4.41
4121 4167 8.514136 TCTTTTTCCTGCAAATATTAAACACG 57.486 30.769 0.00 0.00 0.00 4.49
4144 4190 7.041098 CCTTGTAACATACTTTTTGCAGTCTCT 60.041 37.037 0.00 0.00 0.00 3.10
4162 4208 4.035441 TGTGCTCGTTTTAACCCTTGTAAC 59.965 41.667 0.00 0.00 0.00 2.50
4172 4218 3.462483 TCCAGACTGTGCTCGTTTTAA 57.538 42.857 0.93 0.00 0.00 1.52
4345 4392 4.082733 GCCTTCTCTGGAAACCAAATGTAC 60.083 45.833 0.00 0.00 30.80 2.90
4426 4473 2.512515 CGGCCCTTGCTAGCAGTC 60.513 66.667 18.45 7.27 37.74 3.51
4679 4726 2.813754 GCCAACAATGCTGACACTTCTA 59.186 45.455 0.00 0.00 0.00 2.10
4700 4747 1.227497 GAGGCCAAGCGGAGATCAG 60.227 63.158 5.01 0.00 0.00 2.90
4708 4755 1.457346 AGAATTTCAGAGGCCAAGCG 58.543 50.000 5.01 0.00 0.00 4.68
4716 4763 7.967303 GTGAAGAAAAGCCATAGAATTTCAGAG 59.033 37.037 0.00 0.00 34.91 3.35
4750 4797 3.125658 ACACAAAGCAAAGCAAAGCAAAG 59.874 39.130 0.00 0.00 0.00 2.77
4751 4798 3.072944 ACACAAAGCAAAGCAAAGCAAA 58.927 36.364 0.00 0.00 0.00 3.68
4752 4799 2.697654 ACACAAAGCAAAGCAAAGCAA 58.302 38.095 0.00 0.00 0.00 3.91
4753 4800 2.383368 ACACAAAGCAAAGCAAAGCA 57.617 40.000 0.00 0.00 0.00 3.91
4754 4801 2.788750 GCAACACAAAGCAAAGCAAAGC 60.789 45.455 0.00 0.00 0.00 3.51
4819 4866 2.003301 GAATCCAGACAAAGCGAGTCC 58.997 52.381 0.00 0.00 36.68 3.85
4824 4871 1.369091 CCCGGAATCCAGACAAAGCG 61.369 60.000 0.73 0.00 0.00 4.68
4875 4925 8.703604 ATAAATATAGTAATAGTGCACCGCAG 57.296 34.615 14.63 0.00 40.08 5.18
4967 5017 2.010582 GCCAACGGTCACAAAAGGCA 62.011 55.000 0.00 0.00 40.29 4.75
5078 5128 1.206371 GCAGAATCTTTGCAGGCCAAT 59.794 47.619 5.01 0.00 41.17 3.16
5098 5149 9.855021 GATGATAATAATTAAACCGGGAAATGG 57.145 33.333 6.32 0.00 0.00 3.16
5136 5188 1.991121 AAGGGAAAGGGGAAAACGTC 58.009 50.000 0.00 0.00 0.00 4.34
5144 5196 4.445879 GCCACTAGTATAAAGGGAAAGGGG 60.446 50.000 0.00 0.00 0.00 4.79


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

AutoCloner maintained by Alex Coulton.