Multiple sequence alignment - TraesCS5B01G234500

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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 TraesCS5B01G234500 chr5B 100.000 3567 0 0 1 3567 412464215 412460649 0.000000e+00 6588
1 TraesCS5B01G234500 chr5D 90.764 3692 152 76 9 3563 351406464 351402825 0.000000e+00 4754
2 TraesCS5B01G234500 chr5A 89.091 3236 132 79 26 3137 451743702 451740564 0.000000e+00 3816
3 TraesCS5B01G234500 chr5A 93.913 230 11 3 3218 3445 451740553 451740325 9.480000e-91 344
4 TraesCS5B01G234500 chr5A 94.512 164 9 0 1041 1204 376844943 376845106 1.640000e-63 254
5 TraesCS5B01G234500 chr5A 88.757 169 13 5 65 230 451757536 451757371 6.040000e-48 202
6 TraesCS5B01G234500 chr6A 89.104 982 50 22 815 1764 566431372 566432328 0.000000e+00 1168
7 TraesCS5B01G234500 chr6A 88.313 984 55 23 815 1764 487772219 487773176 0.000000e+00 1125
8 TraesCS5B01G234500 chr2B 87.852 922 47 18 875 1764 267900977 267901865 0.000000e+00 1022
9 TraesCS5B01G234500 chr3A 95.122 164 8 0 1041 1204 435354499 435354662 3.530000e-65 259


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 TraesCS5B01G234500 chr5B 412460649 412464215 3566 True 6588 6588 100.000 1 3567 1 chr5B.!!$R1 3566
1 TraesCS5B01G234500 chr5D 351402825 351406464 3639 True 4754 4754 90.764 9 3563 1 chr5D.!!$R1 3554
2 TraesCS5B01G234500 chr5A 451740325 451743702 3377 True 2080 3816 91.502 26 3445 2 chr5A.!!$R2 3419
3 TraesCS5B01G234500 chr6A 566431372 566432328 956 False 1168 1168 89.104 815 1764 1 chr6A.!!$F2 949
4 TraesCS5B01G234500 chr6A 487772219 487773176 957 False 1125 1125 88.313 815 1764 1 chr6A.!!$F1 949
5 TraesCS5B01G234500 chr2B 267900977 267901865 888 False 1022 1022 87.852 875 1764 1 chr2B.!!$F1 889

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
203 209 1.001378 CCAAAAGTCCAGCGGTCAAAG 60.001 52.381 0.00 0.0 0.00 2.77 F
588 680 1.066787 GCAGTACAGACCCTGTCTTCC 60.067 57.143 2.55 0.0 41.21 3.46 F
2106 2286 0.033642 GCTATGCCGGGGAGTACTTC 59.966 60.000 2.18 0.0 0.00 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1500 1661 2.439701 TCCCCCTCGTAGCAGTCG 60.440 66.667 0.0 0.0 0.00 4.18 R
2208 2388 1.203313 CTTGTCGCCGTTCCGAAAC 59.797 57.895 0.0 0.0 39.17 2.78 R
3454 3677 0.033781 CATTGGTTGGTGCCTTGGTG 59.966 55.000 0.0 0.0 0.00 4.17 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
53 54 1.812235 TCTGTACTCCACGAGCGTAA 58.188 50.000 0.00 0.00 32.04 3.18
54 55 1.736126 TCTGTACTCCACGAGCGTAAG 59.264 52.381 0.00 0.00 32.04 2.34
63 65 2.852413 CCACGAGCGTAAGACATTACTG 59.148 50.000 0.00 0.00 39.36 2.74
69 71 3.933332 AGCGTAAGACATTACTGGAAAGC 59.067 43.478 0.00 0.00 39.36 3.51
84 86 1.947456 GAAAGCCCAGTCGTTTCACTT 59.053 47.619 0.00 0.00 31.68 3.16
92 94 4.809426 CCCAGTCGTTTCACTTCCATATAC 59.191 45.833 0.00 0.00 0.00 1.47
95 97 5.867174 CAGTCGTTTCACTTCCATATACACA 59.133 40.000 0.00 0.00 0.00 3.72
97 99 6.367969 AGTCGTTTCACTTCCATATACACAAC 59.632 38.462 0.00 0.00 0.00 3.32
99 101 6.367695 TCGTTTCACTTCCATATACACAACAG 59.632 38.462 0.00 0.00 0.00 3.16
166 172 1.343465 ACCGAGAAAACATCAGGACGT 59.657 47.619 0.00 0.00 33.75 4.34
203 209 1.001378 CCAAAAGTCCAGCGGTCAAAG 60.001 52.381 0.00 0.00 0.00 2.77
337 370 3.450115 CCTCGACCACCGTCCTCC 61.450 72.222 0.00 0.00 39.75 4.30
338 371 3.812019 CTCGACCACCGTCCTCCG 61.812 72.222 0.00 0.00 39.75 4.63
413 479 2.030371 GCACACTACCCTACCCTACTC 58.970 57.143 0.00 0.00 0.00 2.59
476 542 2.896801 GCCCACACTCACGCACAAG 61.897 63.158 0.00 0.00 0.00 3.16
517 593 4.338327 GGTTCGATTCCGATCCCG 57.662 61.111 0.00 0.00 44.70 5.14
540 627 2.651232 GTACTACTCCGCGCGCAG 60.651 66.667 32.61 24.25 0.00 5.18
541 628 3.884350 TACTACTCCGCGCGCAGG 61.884 66.667 32.61 30.06 0.00 4.85
569 656 1.584495 GGACCAATCAAACACCGGC 59.416 57.895 0.00 0.00 0.00 6.13
588 680 1.066787 GCAGTACAGACCCTGTCTTCC 60.067 57.143 2.55 0.00 41.21 3.46
596 688 2.060980 CCCTGTCTTCCCTCCCTCG 61.061 68.421 0.00 0.00 0.00 4.63
597 689 2.726351 CCTGTCTTCCCTCCCTCGC 61.726 68.421 0.00 0.00 0.00 5.03
834 950 4.890306 GCCTCCCCTCCCCTCCTC 62.890 77.778 0.00 0.00 0.00 3.71
835 951 3.039526 CCTCCCCTCCCCTCCTCT 61.040 72.222 0.00 0.00 0.00 3.69
1284 1442 2.517402 CTACTCCTCCTCGCGGCT 60.517 66.667 6.13 0.00 0.00 5.52
1408 1566 3.429141 GCGACGAGGACGACAGGA 61.429 66.667 0.00 0.00 42.66 3.86
1500 1661 1.661112 GTCGAGTTCTACAGCAATGGC 59.339 52.381 0.00 0.00 41.61 4.40
1593 1760 2.056815 GTACGAGGGGGACTGGGTC 61.057 68.421 0.00 0.00 0.00 4.46
1863 2034 1.950484 GCCTCTTGCGAAATTCCCTGA 60.950 52.381 0.00 0.00 0.00 3.86
1896 2068 5.473504 GGTCACACTGTTGTTTCCATATCTT 59.526 40.000 0.00 0.00 31.66 2.40
1897 2069 6.348540 GGTCACACTGTTGTTTCCATATCTTC 60.349 42.308 0.00 0.00 31.66 2.87
1898 2070 6.428159 GTCACACTGTTGTTTCCATATCTTCT 59.572 38.462 0.00 0.00 31.66 2.85
1944 2117 9.933723 TTAATAACTCCAACAACCTTACTACTC 57.066 33.333 0.00 0.00 0.00 2.59
1945 2118 7.793948 ATAACTCCAACAACCTTACTACTCT 57.206 36.000 0.00 0.00 0.00 3.24
1946 2119 8.890410 ATAACTCCAACAACCTTACTACTCTA 57.110 34.615 0.00 0.00 0.00 2.43
1947 2120 7.793948 AACTCCAACAACCTTACTACTCTAT 57.206 36.000 0.00 0.00 0.00 1.98
1948 2121 7.407393 ACTCCAACAACCTTACTACTCTATC 57.593 40.000 0.00 0.00 0.00 2.08
1950 2123 7.674772 ACTCCAACAACCTTACTACTCTATCTT 59.325 37.037 0.00 0.00 0.00 2.40
1951 2124 8.064336 TCCAACAACCTTACTACTCTATCTTC 57.936 38.462 0.00 0.00 0.00 2.87
1954 2127 9.877178 CAACAACCTTACTACTCTATCTTCATT 57.123 33.333 0.00 0.00 0.00 2.57
1956 2129 9.256228 ACAACCTTACTACTCTATCTTCATTCA 57.744 33.333 0.00 0.00 0.00 2.57
1975 2155 8.213518 TCATTCACAGTAATAATTCAAGCCTC 57.786 34.615 0.00 0.00 0.00 4.70
2082 2262 5.879223 TGTTGCAATTTGTTTCAGAAATGGT 59.121 32.000 0.59 0.00 0.00 3.55
2106 2286 0.033642 GCTATGCCGGGGAGTACTTC 59.966 60.000 2.18 0.00 0.00 3.01
2208 2388 2.201732 CAGGGATTCGGAATGTACACG 58.798 52.381 8.18 0.00 0.00 4.49
2344 2524 3.845781 CACATATTGCTCCCTAGGTGT 57.154 47.619 8.29 0.00 0.00 4.16
2346 2526 3.389329 CACATATTGCTCCCTAGGTGTCT 59.611 47.826 8.29 0.00 0.00 3.41
2347 2527 4.040755 ACATATTGCTCCCTAGGTGTCTT 58.959 43.478 8.29 0.00 0.00 3.01
2348 2528 4.101741 ACATATTGCTCCCTAGGTGTCTTC 59.898 45.833 8.29 0.00 0.00 2.87
2349 2529 2.327325 TTGCTCCCTAGGTGTCTTCT 57.673 50.000 8.29 0.00 0.00 2.85
2542 2725 1.221840 CCAGAACAGGATGGACGGG 59.778 63.158 0.00 0.00 43.62 5.28
2623 2810 6.040616 CCTCTAACTGTACATTAGGGTAGTGG 59.959 46.154 16.84 13.74 29.40 4.00
2716 2914 0.391395 TCCGAGTCCGTGAGAGAGAC 60.391 60.000 0.00 0.00 0.00 3.36
2877 3084 9.912634 AAATTGTACATAGATCCAAGTTGTTTG 57.087 29.630 0.00 0.00 36.50 2.93
2878 3085 8.635765 ATTGTACATAGATCCAAGTTGTTTGT 57.364 30.769 0.00 0.00 34.87 2.83
3002 3209 1.468127 CATACCACGAATGTGCTTGCA 59.532 47.619 0.00 0.00 45.04 4.08
3054 3267 0.988832 TAAATCTTGACTGCCCGGGT 59.011 50.000 24.63 0.58 0.00 5.28
3180 3398 2.107031 TGATGTTGGCCCCTATCATCAG 59.893 50.000 15.97 0.00 39.53 2.90
3191 3409 5.883673 GCCCCTATCATCAGAGTAGTAGTAG 59.116 48.000 0.00 0.00 0.00 2.57
3192 3410 6.522804 GCCCCTATCATCAGAGTAGTAGTAGT 60.523 46.154 0.00 0.00 0.00 2.73
3193 3411 7.311171 GCCCCTATCATCAGAGTAGTAGTAGTA 60.311 44.444 0.00 0.00 0.00 1.82
3194 3412 8.262227 CCCCTATCATCAGAGTAGTAGTAGTAG 58.738 44.444 0.00 0.00 0.00 2.57
3195 3413 8.818860 CCCTATCATCAGAGTAGTAGTAGTAGT 58.181 40.741 0.00 0.00 0.00 2.73
3258 3476 2.185310 AATCTGAGCCCCACCGTGTC 62.185 60.000 0.00 0.00 0.00 3.67
3328 3549 2.450476 CCCAGATTTTCCCACCAGAAG 58.550 52.381 0.00 0.00 0.00 2.85
3453 3676 8.638685 CATTTTGTGGATCAGGAAAATCATAC 57.361 34.615 0.00 0.00 0.00 2.39
3454 3677 6.773976 TTTGTGGATCAGGAAAATCATACC 57.226 37.500 0.00 0.00 0.00 2.73
3455 3678 5.449297 TGTGGATCAGGAAAATCATACCA 57.551 39.130 0.00 0.00 0.00 3.25
3456 3679 5.192927 TGTGGATCAGGAAAATCATACCAC 58.807 41.667 0.00 0.00 43.43 4.16
3457 3680 4.580580 GTGGATCAGGAAAATCATACCACC 59.419 45.833 0.00 0.00 39.17 4.61
3458 3681 4.229353 TGGATCAGGAAAATCATACCACCA 59.771 41.667 0.00 0.00 0.00 4.17
3459 3682 5.200483 GGATCAGGAAAATCATACCACCAA 58.800 41.667 0.00 0.00 0.00 3.67
3460 3683 5.300286 GGATCAGGAAAATCATACCACCAAG 59.700 44.000 0.00 0.00 0.00 3.61
3461 3684 4.599041 TCAGGAAAATCATACCACCAAGG 58.401 43.478 0.00 0.00 45.67 3.61
3479 3702 0.173255 GGCACCAACCAATGATTCCG 59.827 55.000 0.00 0.00 0.00 4.30
3521 3748 8.929260 ATGCTCATATTCCATAATGTCAGAAA 57.071 30.769 0.00 0.00 0.00 2.52
3525 3752 9.511272 CTCATATTCCATAATGTCAGAAATCCA 57.489 33.333 0.00 0.00 0.00 3.41
3536 3763 6.441093 TGTCAGAAATCCACATTATTCTGC 57.559 37.500 8.99 5.92 45.23 4.26
3540 3767 5.690409 CAGAAATCCACATTATTCTGCATGC 59.310 40.000 11.82 11.82 41.41 4.06
3541 3768 4.595762 AATCCACATTATTCTGCATGCC 57.404 40.909 16.68 0.00 0.00 4.40
3563 3790 1.789464 CATGGTCGCTCTTATCTTCGC 59.211 52.381 0.00 0.00 0.00 4.70
3564 3791 0.248498 TGGTCGCTCTTATCTTCGCG 60.248 55.000 0.00 0.00 46.28 5.87
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.039270 GGCGTTGGGAAGAAAATATTTACATT 58.961 34.615 0.01 0.00 0.00 2.71
1 2 6.569780 GGCGTTGGGAAGAAAATATTTACAT 58.430 36.000 0.01 0.00 0.00 2.29
2 3 5.392165 CGGCGTTGGGAAGAAAATATTTACA 60.392 40.000 0.01 0.00 0.00 2.41
3 4 5.032220 CGGCGTTGGGAAGAAAATATTTAC 58.968 41.667 0.01 0.00 0.00 2.01
4 5 4.439016 GCGGCGTTGGGAAGAAAATATTTA 60.439 41.667 9.37 0.00 0.00 1.40
5 6 3.674955 GCGGCGTTGGGAAGAAAATATTT 60.675 43.478 9.37 0.00 0.00 1.40
6 7 2.159296 GCGGCGTTGGGAAGAAAATATT 60.159 45.455 9.37 0.00 0.00 1.28
7 8 1.404035 GCGGCGTTGGGAAGAAAATAT 59.596 47.619 9.37 0.00 0.00 1.28
22 23 1.956170 GTACAGATGGATGGCGGCG 60.956 63.158 0.51 0.51 0.00 6.46
63 65 0.591659 GTGAAACGACTGGGCTTTCC 59.408 55.000 0.00 0.00 0.00 3.13
69 71 2.185004 ATGGAAGTGAAACGACTGGG 57.815 50.000 0.00 0.00 45.86 4.45
84 86 9.219603 CTTTCTTCTTTCTGTTGTGTATATGGA 57.780 33.333 0.00 0.00 0.00 3.41
92 94 3.621794 CCGCTTTCTTCTTTCTGTTGTG 58.378 45.455 0.00 0.00 0.00 3.33
95 97 1.609072 GGCCGCTTTCTTCTTTCTGTT 59.391 47.619 0.00 0.00 0.00 3.16
97 99 0.166814 CGGCCGCTTTCTTCTTTCTG 59.833 55.000 14.67 0.00 0.00 3.02
99 101 1.154207 GCGGCCGCTTTCTTCTTTC 60.154 57.895 41.71 9.25 38.26 2.62
179 185 1.377229 CCGCTGGACTTTTGGGGTA 59.623 57.895 0.00 0.00 0.00 3.69
348 410 3.136123 CTTGGCATGTGCGAGGGG 61.136 66.667 0.00 0.00 43.26 4.79
352 414 2.282391 AAGGCTTGGCATGTGCGA 60.282 55.556 0.00 0.00 43.26 5.10
396 462 2.158490 GGAGGAGTAGGGTAGGGTAGTG 60.158 59.091 0.00 0.00 0.00 2.74
397 463 2.142756 GGAGGAGTAGGGTAGGGTAGT 58.857 57.143 0.00 0.00 0.00 2.73
494 561 2.202837 CGGAATCGAACCGGACCC 60.203 66.667 21.33 0.00 45.65 4.46
517 593 3.909285 GCGGAGTAGTACCCGGCC 61.909 72.222 23.22 0.00 45.42 6.13
544 631 3.929334 TTTGATTGGTCCGGGCGGG 62.929 63.158 0.00 4.42 35.59 6.13
545 632 2.360600 TTTGATTGGTCCGGGCGG 60.361 61.111 0.00 0.00 0.00 6.13
546 633 1.969064 TGTTTGATTGGTCCGGGCG 60.969 57.895 0.00 0.00 0.00 6.13
547 634 1.584495 GTGTTTGATTGGTCCGGGC 59.416 57.895 0.00 0.00 0.00 6.13
548 635 1.582610 CGGTGTTTGATTGGTCCGGG 61.583 60.000 0.00 0.00 35.25 5.73
549 636 1.873165 CGGTGTTTGATTGGTCCGG 59.127 57.895 0.00 0.00 35.25 5.14
550 637 1.873165 CCGGTGTTTGATTGGTCCG 59.127 57.895 0.00 0.00 38.05 4.79
569 656 1.550976 GGGAAGACAGGGTCTGTACTG 59.449 57.143 0.00 0.00 45.44 2.74
831 947 2.780010 AGAGAAGAGAGGAGAGGAGAGG 59.220 54.545 0.00 0.00 0.00 3.69
832 948 3.181450 GGAGAGAAGAGAGGAGAGGAGAG 60.181 56.522 0.00 0.00 0.00 3.20
833 949 2.777692 GGAGAGAAGAGAGGAGAGGAGA 59.222 54.545 0.00 0.00 0.00 3.71
834 950 2.485479 CGGAGAGAAGAGAGGAGAGGAG 60.485 59.091 0.00 0.00 0.00 3.69
835 951 1.488812 CGGAGAGAAGAGAGGAGAGGA 59.511 57.143 0.00 0.00 0.00 3.71
1500 1661 2.439701 TCCCCCTCGTAGCAGTCG 60.440 66.667 0.00 0.00 0.00 4.18
1593 1760 2.872925 CCGTCGTACTTGCCGTCG 60.873 66.667 0.00 0.00 36.79 5.12
1863 2034 5.596836 ACAACAGTGTGACCAAATCAAAT 57.403 34.783 0.00 0.00 39.72 2.32
1896 2068 3.727726 TGAAGCAATCGAACAGTTGAGA 58.272 40.909 0.72 0.00 0.00 3.27
1897 2069 4.675190 ATGAAGCAATCGAACAGTTGAG 57.325 40.909 0.72 0.00 0.00 3.02
1898 2070 6.552859 TTAATGAAGCAATCGAACAGTTGA 57.447 33.333 0.72 0.00 0.00 3.18
1947 2120 8.677300 GGCTTGAATTATTACTGTGAATGAAGA 58.323 33.333 0.00 0.00 0.00 2.87
1948 2121 8.680903 AGGCTTGAATTATTACTGTGAATGAAG 58.319 33.333 0.00 0.00 0.00 3.02
1950 2123 7.828717 TGAGGCTTGAATTATTACTGTGAATGA 59.171 33.333 0.00 0.00 0.00 2.57
1951 2124 7.912250 GTGAGGCTTGAATTATTACTGTGAATG 59.088 37.037 0.00 0.00 0.00 2.67
1954 2127 6.472016 TGTGAGGCTTGAATTATTACTGTGA 58.528 36.000 0.00 0.00 0.00 3.58
1955 2128 6.741992 TGTGAGGCTTGAATTATTACTGTG 57.258 37.500 0.00 0.00 0.00 3.66
1956 2129 7.341805 AGATGTGAGGCTTGAATTATTACTGT 58.658 34.615 0.00 0.00 0.00 3.55
1975 2155 7.606858 ACTACTGTGAATGAATGAAGATGTG 57.393 36.000 0.00 0.00 0.00 3.21
2030 2210 6.027749 CGTTAGAAATTAGCAACCAATGGAC 58.972 40.000 6.16 0.00 0.00 4.02
2082 2262 2.523168 TCCCCGGCATAGCGATCA 60.523 61.111 0.00 0.00 0.00 2.92
2193 2373 2.669434 CCGAAACGTGTACATTCCGAAT 59.331 45.455 10.89 0.04 0.00 3.34
2208 2388 1.203313 CTTGTCGCCGTTCCGAAAC 59.797 57.895 0.00 0.00 39.17 2.78
2324 2504 3.389329 AGACACCTAGGGAGCAATATGTG 59.611 47.826 14.81 0.13 0.00 3.21
2542 2725 5.753438 TCACACATAGGTATCGCAGAATTTC 59.247 40.000 0.00 0.00 43.58 2.17
2623 2810 3.560068 CACCGATTAGTGTTATTGGCCTC 59.440 47.826 3.32 0.00 32.89 4.70
2705 2898 0.315251 TGTTGCTGGTCTCTCTCACG 59.685 55.000 0.00 0.00 0.00 4.35
2716 2914 3.058160 CTCCCGCCTTGTTGCTGG 61.058 66.667 0.00 0.00 37.00 4.85
2875 3082 4.225942 AGGCTCACTCTTCCATTGATACAA 59.774 41.667 0.00 0.00 0.00 2.41
2876 3083 3.776969 AGGCTCACTCTTCCATTGATACA 59.223 43.478 0.00 0.00 0.00 2.29
2877 3084 4.414337 AGGCTCACTCTTCCATTGATAC 57.586 45.455 0.00 0.00 0.00 2.24
2878 3085 5.431765 GAAAGGCTCACTCTTCCATTGATA 58.568 41.667 0.00 0.00 0.00 2.15
3054 3267 2.994995 ACCGCACATGGAGTCCGA 60.995 61.111 4.30 0.00 0.00 4.55
3060 3273 1.077787 GGGAATCACCGCACATGGA 60.078 57.895 0.00 0.00 40.11 3.41
3117 3335 3.146847 AGGACCGGAAGAAATTCACAAC 58.853 45.455 9.46 0.00 0.00 3.32
3191 3409 9.760077 ATGGTAGTACTGCAAATACAATACTAC 57.240 33.333 13.26 12.47 41.90 2.73
3193 3411 9.681062 AAATGGTAGTACTGCAAATACAATACT 57.319 29.630 13.26 0.00 0.00 2.12
3194 3412 9.716507 CAAATGGTAGTACTGCAAATACAATAC 57.283 33.333 13.26 5.17 0.00 1.89
3195 3413 8.402472 GCAAATGGTAGTACTGCAAATACAATA 58.598 33.333 13.26 0.00 33.19 1.90
3196 3414 7.122650 AGCAAATGGTAGTACTGCAAATACAAT 59.877 33.333 13.26 0.00 35.44 2.71
3200 3418 6.435430 CAGCAAATGGTAGTACTGCAAATA 57.565 37.500 13.26 0.00 35.44 1.40
3205 3423 2.832672 GCAGCAAATGGTAGTACTGC 57.167 50.000 5.39 3.50 43.09 4.40
3206 3424 2.991250 AGGCAGCAAATGGTAGTACTG 58.009 47.619 5.39 0.00 0.00 2.74
3211 3429 2.880890 GTGGATAGGCAGCAAATGGTAG 59.119 50.000 0.00 0.00 0.00 3.18
3216 3434 1.133668 GGGAGTGGATAGGCAGCAAAT 60.134 52.381 0.00 0.00 0.00 2.32
3258 3476 1.973138 CTGCTGCTGGTTTTGAATCG 58.027 50.000 0.00 0.00 0.00 3.34
3445 3668 2.225242 TGGTGCCTTGGTGGTATGATTT 60.225 45.455 0.00 0.00 38.35 2.17
3453 3676 1.120795 ATTGGTTGGTGCCTTGGTGG 61.121 55.000 0.00 0.00 39.35 4.61
3454 3677 0.033781 CATTGGTTGGTGCCTTGGTG 59.966 55.000 0.00 0.00 0.00 4.17
3455 3678 0.105760 TCATTGGTTGGTGCCTTGGT 60.106 50.000 0.00 0.00 0.00 3.67
3456 3679 1.269012 ATCATTGGTTGGTGCCTTGG 58.731 50.000 0.00 0.00 0.00 3.61
3457 3680 2.354003 GGAATCATTGGTTGGTGCCTTG 60.354 50.000 0.00 0.00 0.00 3.61
3458 3681 1.901833 GGAATCATTGGTTGGTGCCTT 59.098 47.619 0.00 0.00 0.00 4.35
3459 3682 1.560505 GGAATCATTGGTTGGTGCCT 58.439 50.000 0.00 0.00 0.00 4.75
3460 3683 0.173255 CGGAATCATTGGTTGGTGCC 59.827 55.000 0.00 0.00 0.00 5.01
3461 3684 0.458370 GCGGAATCATTGGTTGGTGC 60.458 55.000 0.00 0.00 0.00 5.01
3501 3728 9.070179 TGTGGATTTCTGACATTATGGAATATG 57.930 33.333 0.00 0.00 0.00 1.78
3521 3748 3.825014 GAGGCATGCAGAATAATGTGGAT 59.175 43.478 21.36 0.00 30.69 3.41
3525 3752 3.572682 CCATGAGGCATGCAGAATAATGT 59.427 43.478 21.36 0.00 40.20 2.71
3536 3763 0.463295 AAGAGCGACCATGAGGCATG 60.463 55.000 0.00 0.00 41.10 4.06
3540 3767 3.648009 GAAGATAAGAGCGACCATGAGG 58.352 50.000 0.00 0.00 42.21 3.86
3541 3768 3.304257 CGAAGATAAGAGCGACCATGAG 58.696 50.000 0.00 0.00 0.00 2.90


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

AutoCloner maintained by Alex Coulton.