Multiple sequence alignment - TraesCS1D01G432000

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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 TraesCS1D01G432000 chr1D 100.000 2956 0 0 1 2956 482024583 482027538 0.000000e+00 5459
1 TraesCS1D01G432000 chr1B 86.186 3091 163 99 1 2956 670569196 670572157 0.000000e+00 3099
2 TraesCS1D01G432000 chr1A 85.062 2430 162 96 410 2746 578812307 578814628 0.000000e+00 2290
3 TraesCS1D01G432000 chr1A 86.166 253 7 8 2732 2956 578814944 578815196 6.330000e-62 248
4 TraesCS1D01G432000 chr1A 82.979 141 24 0 1 141 578811690 578811830 8.600000e-26 128


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 TraesCS1D01G432000 chr1D 482024583 482027538 2955 False 5459.000000 5459 100.000000 1 2956 1 chr1D.!!$F1 2955
1 TraesCS1D01G432000 chr1B 670569196 670572157 2961 False 3099.000000 3099 86.186000 1 2956 1 chr1B.!!$F1 2955
2 TraesCS1D01G432000 chr1A 578811690 578815196 3506 False 888.666667 2290 84.735667 1 2956 3 chr1A.!!$F1 2955

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
983 1326 0.032678 CAGACCTCACAAGTCACGCT 59.967 55.0 0.0 0.0 36.68 5.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2369 2833 0.250234 CAAAGCCGTGAGATGAGGGA 59.75 55.0 0.0 0.0 0.0 4.2 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
18 19 1.313475 AAGCCCACGGGAGAGGATA 59.687 57.895 6.21 0.00 43.94 2.59
34 35 3.904339 GAGGATAGGGAGTAGCCAATGAA 59.096 47.826 0.00 0.00 39.99 2.57
60 61 4.021925 GGGTTCAGGCAGGCGACT 62.022 66.667 0.00 0.00 46.44 4.18
115 116 1.003355 CAGTCGCCACCCAGATTGT 60.003 57.895 0.00 0.00 0.00 2.71
127 128 2.648059 CCAGATTGTGAGGGGATGAAC 58.352 52.381 0.00 0.00 0.00 3.18
135 136 2.698797 GTGAGGGGATGAACGGATTAGA 59.301 50.000 0.00 0.00 0.00 2.10
143 144 1.287425 GAACGGATTAGAAGGGCGTG 58.713 55.000 0.00 0.00 0.00 5.34
145 146 1.262640 ACGGATTAGAAGGGCGTGGT 61.263 55.000 0.00 0.00 0.00 4.16
171 172 1.478105 GGCCAAACCCTAGCAATTGAG 59.522 52.381 10.34 0.00 0.00 3.02
172 173 2.171003 GCCAAACCCTAGCAATTGAGT 58.829 47.619 10.34 0.00 0.00 3.41
173 174 2.094545 GCCAAACCCTAGCAATTGAGTG 60.095 50.000 10.34 0.00 0.00 3.51
175 176 2.493278 CAAACCCTAGCAATTGAGTGGG 59.507 50.000 21.08 21.08 40.37 4.61
176 177 1.668826 ACCCTAGCAATTGAGTGGGA 58.331 50.000 26.29 0.78 38.08 4.37
179 180 1.561542 CCTAGCAATTGAGTGGGAGGT 59.438 52.381 10.34 0.00 0.00 3.85
180 181 2.636830 CTAGCAATTGAGTGGGAGGTG 58.363 52.381 10.34 0.00 0.00 4.00
181 182 0.038744 AGCAATTGAGTGGGAGGTGG 59.961 55.000 10.34 0.00 0.00 4.61
182 183 0.967380 GCAATTGAGTGGGAGGTGGG 60.967 60.000 10.34 0.00 0.00 4.61
183 184 0.405585 CAATTGAGTGGGAGGTGGGT 59.594 55.000 0.00 0.00 0.00 4.51
184 185 0.405585 AATTGAGTGGGAGGTGGGTG 59.594 55.000 0.00 0.00 0.00 4.61
209 211 3.579335 GGGTTATGCGCCAAAAGTTTA 57.421 42.857 4.18 0.00 0.00 2.01
228 230 4.647424 TTAAGCTTTGTTTGACCACCAG 57.353 40.909 3.20 0.00 0.00 4.00
230 232 1.750778 AGCTTTGTTTGACCACCAGTG 59.249 47.619 0.00 0.00 0.00 3.66
248 278 4.158384 CAGTGTGACAACCAATTAATCGC 58.842 43.478 0.00 0.00 0.00 4.58
256 286 6.372937 TGACAACCAATTAATCGCTTGACATA 59.627 34.615 0.00 0.00 0.00 2.29
296 326 0.249489 GTGCTATTCGAGTCGGCCAT 60.249 55.000 13.54 5.43 0.00 4.40
303 333 1.687563 TCGAGTCGGCCATCTTATGA 58.312 50.000 13.54 0.00 0.00 2.15
304 334 2.239400 TCGAGTCGGCCATCTTATGAT 58.761 47.619 13.54 0.00 0.00 2.45
337 634 5.120399 TGTTAACCGATTAATCAGCCGAAT 58.880 37.500 15.57 0.00 32.91 3.34
339 636 6.762187 TGTTAACCGATTAATCAGCCGAATTA 59.238 34.615 15.57 2.67 32.91 1.40
353 650 6.072175 TCAGCCGAATTATTAAACAGTGCTTT 60.072 34.615 0.00 0.00 0.00 3.51
408 705 0.389948 CACCTCTAACGGACTGCACC 60.390 60.000 0.00 0.00 0.00 5.01
419 716 2.552315 CGGACTGCACCAACAACTAATT 59.448 45.455 0.00 0.00 0.00 1.40
452 749 2.404265 TTGACGTGTACGGTGTGTAG 57.596 50.000 9.40 0.00 44.95 2.74
460 757 2.954989 TGTACGGTGTGTAGGTGTGTTA 59.045 45.455 0.00 0.00 32.51 2.41
517 817 2.659610 GAACGTCCTGGCAGCTCT 59.340 61.111 9.56 0.00 0.00 4.09
519 819 3.245668 AACGTCCTGGCAGCTCTGG 62.246 63.158 9.56 0.00 0.00 3.86
527 827 2.446848 GGCAGCTCTGGGCCTCATA 61.447 63.158 4.53 0.00 46.74 2.15
529 829 1.694133 GCAGCTCTGGGCCTCATAGT 61.694 60.000 4.53 0.00 43.05 2.12
530 830 0.106335 CAGCTCTGGGCCTCATAGTG 59.894 60.000 4.53 0.00 43.05 2.74
532 832 1.050988 GCTCTGGGCCTCATAGTGGA 61.051 60.000 4.53 0.00 34.27 4.02
880 1223 4.289934 TCCTTTGTTTTTCCAACCCCTTTT 59.710 37.500 0.00 0.00 0.00 2.27
974 1317 2.421314 CACGCACCAGACCTCACA 59.579 61.111 0.00 0.00 0.00 3.58
976 1319 1.069765 ACGCACCAGACCTCACAAG 59.930 57.895 0.00 0.00 0.00 3.16
977 1320 1.069765 CGCACCAGACCTCACAAGT 59.930 57.895 0.00 0.00 0.00 3.16
979 1322 0.106708 GCACCAGACCTCACAAGTCA 59.893 55.000 0.00 0.00 36.68 3.41
980 1323 1.871080 CACCAGACCTCACAAGTCAC 58.129 55.000 0.00 0.00 36.68 3.67
981 1324 0.389391 ACCAGACCTCACAAGTCACG 59.611 55.000 0.00 0.00 36.68 4.35
983 1326 0.032678 CAGACCTCACAAGTCACGCT 59.967 55.000 0.00 0.00 36.68 5.07
1027 1380 2.588596 CACACAGAGCACGGCACA 60.589 61.111 0.00 0.00 0.00 4.57
1073 1434 2.210013 ACCTCTCAGCTCGCCACAA 61.210 57.895 0.00 0.00 0.00 3.33
1095 1456 3.136750 CAGATCCTCCGGCTCCTG 58.863 66.667 0.00 0.00 0.00 3.86
1287 1651 0.375454 AGCTCGACTTCGTCATCTCG 59.625 55.000 0.00 0.00 40.80 4.04
1290 1654 0.374063 TCGACTTCGTCATCTCGCTC 59.626 55.000 0.00 0.00 40.80 5.03
1293 1657 0.453793 ACTTCGTCATCTCGCTCCAG 59.546 55.000 0.00 0.00 0.00 3.86
1294 1658 0.869454 CTTCGTCATCTCGCTCCAGC 60.869 60.000 0.00 0.00 37.78 4.85
1500 1864 2.437180 CTGCGGCTCTTCATGGCA 60.437 61.111 0.00 0.00 0.00 4.92
1788 2164 3.083997 GAGTCCATCCACCGGGCT 61.084 66.667 6.32 0.00 42.61 5.19
1848 2224 2.513897 GACCCGGGGAAATGCGAG 60.514 66.667 27.92 0.00 0.00 5.03
1865 2241 4.221422 GGCCGCATAGCTCGTCCA 62.221 66.667 0.00 0.00 0.00 4.02
1866 2242 2.202878 GCCGCATAGCTCGTCCAA 60.203 61.111 0.00 0.00 0.00 3.53
1867 2243 2.240500 GCCGCATAGCTCGTCCAAG 61.241 63.158 0.00 0.00 0.00 3.61
1868 2244 2.240500 CCGCATAGCTCGTCCAAGC 61.241 63.158 0.00 0.00 42.82 4.01
1885 2261 3.239861 GCTATAGCTCATGGCCACC 57.760 57.895 17.75 0.00 43.05 4.61
1886 2262 0.671781 GCTATAGCTCATGGCCACCG 60.672 60.000 17.75 1.50 43.05 4.94
1887 2263 0.681733 CTATAGCTCATGGCCACCGT 59.318 55.000 8.16 0.00 43.05 4.83
1888 2264 0.679505 TATAGCTCATGGCCACCGTC 59.320 55.000 8.16 0.00 43.05 4.79
1889 2265 2.044806 ATAGCTCATGGCCACCGTCC 62.045 60.000 8.16 0.00 43.05 4.79
1917 2293 1.594310 AGCGTGGAAGCTTCTCTCC 59.406 57.895 25.05 10.81 46.80 3.71
1947 2323 2.755650 TCGGTGAAGAAGAAACAGAGC 58.244 47.619 0.00 0.00 0.00 4.09
1949 2325 3.070018 CGGTGAAGAAGAAACAGAGCAT 58.930 45.455 0.00 0.00 0.00 3.79
1965 2352 3.760684 AGAGCATAAAAGTGGCAAGAAGG 59.239 43.478 0.00 0.00 0.00 3.46
2025 2423 6.346678 GCTTCACGTCCTAGAGTTTTTAGTTG 60.347 42.308 0.00 0.00 0.00 3.16
2184 2587 4.599241 TGTCTCTTTTCCTCCTCATTTCCT 59.401 41.667 0.00 0.00 0.00 3.36
2229 2632 6.375945 TTGTAGAAGTACTCGTGTGTACAA 57.624 37.500 9.70 9.70 43.65 2.41
2230 2633 6.564709 TGTAGAAGTACTCGTGTGTACAAT 57.435 37.500 12.97 3.57 43.65 2.71
2231 2634 6.376177 TGTAGAAGTACTCGTGTGTACAATG 58.624 40.000 12.97 0.00 43.65 2.82
2297 2700 4.893424 TTGACAAACTACTGGCTTTCAC 57.107 40.909 0.00 0.00 0.00 3.18
2349 2810 2.960819 TCTTCTCTTTGAACGGCTAGC 58.039 47.619 6.04 6.04 0.00 3.42
2352 2813 4.159693 TCTTCTCTTTGAACGGCTAGCATA 59.840 41.667 18.24 0.00 0.00 3.14
2369 2833 7.362229 GGCTAGCATAGAGTAGACGTTGATTAT 60.362 40.741 18.24 0.00 42.77 1.28
2372 2836 6.071840 AGCATAGAGTAGACGTTGATTATCCC 60.072 42.308 0.00 0.00 0.00 3.85
2373 2837 6.071840 GCATAGAGTAGACGTTGATTATCCCT 60.072 42.308 0.00 0.00 0.00 4.20
2401 2865 1.543429 CGGCTTTGTGTTTCTCCCTCT 60.543 52.381 0.00 0.00 0.00 3.69
2404 2868 1.532868 CTTTGTGTTTCTCCCTCTGCG 59.467 52.381 0.00 0.00 0.00 5.18
2460 2924 3.569200 GAAAAGCTCGGGGTGGCCT 62.569 63.158 3.32 0.00 0.00 5.19
2736 3201 0.039074 CTCCGTGACTTGCGTCTCTT 60.039 55.000 0.00 0.00 40.86 2.85
2748 3213 1.940613 GCGTCTCTTCTCTCTCTCTCC 59.059 57.143 0.00 0.00 0.00 3.71
2796 3592 1.079057 GAGGTGAGGTCCCTTTCGC 60.079 63.158 0.00 0.00 30.60 4.70
2797 3593 2.046217 GGTGAGGTCCCTTTCGCC 60.046 66.667 0.00 0.00 36.88 5.54
2811 3607 1.766625 TTCGCCCCGTTTACCTTCCA 61.767 55.000 0.00 0.00 0.00 3.53
2812 3608 1.078001 CGCCCCGTTTACCTTCCAT 60.078 57.895 0.00 0.00 0.00 3.41
2839 3656 2.302230 CCAAAAAGTTGCAGCGCCG 61.302 57.895 2.29 0.00 33.01 6.46
2914 3746 3.861569 AAAGCTTTCGTTTCGTCTGAG 57.138 42.857 5.69 0.00 0.00 3.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 1.566231 CCCTTTCATTGGCTACTCCCT 59.434 52.381 0.00 0.00 0.00 4.20
34 35 2.626467 GCCTGAACCCCATCCCCTT 61.626 63.158 0.00 0.00 0.00 3.95
60 61 0.610174 CCAGCAACTAGACAGCTCCA 59.390 55.000 0.00 0.00 36.26 3.86
66 67 1.002430 CCAAGCTCCAGCAACTAGACA 59.998 52.381 0.00 0.00 45.16 3.41
115 116 3.040655 TCTAATCCGTTCATCCCCTCA 57.959 47.619 0.00 0.00 0.00 3.86
127 128 0.748450 TACCACGCCCTTCTAATCCG 59.252 55.000 0.00 0.00 0.00 4.18
135 136 2.687566 CCCTCCTACCACGCCCTT 60.688 66.667 0.00 0.00 0.00 3.95
171 172 2.294078 CCTCTCACCCACCTCCCAC 61.294 68.421 0.00 0.00 0.00 4.61
172 173 2.122729 CCTCTCACCCACCTCCCA 59.877 66.667 0.00 0.00 0.00 4.37
173 174 2.689034 CCCTCTCACCCACCTCCC 60.689 72.222 0.00 0.00 0.00 4.30
175 176 0.252558 TAACCCCTCTCACCCACCTC 60.253 60.000 0.00 0.00 0.00 3.85
176 177 0.421904 ATAACCCCTCTCACCCACCT 59.578 55.000 0.00 0.00 0.00 4.00
179 180 1.622607 CGCATAACCCCTCTCACCCA 61.623 60.000 0.00 0.00 0.00 4.51
180 181 1.146263 CGCATAACCCCTCTCACCC 59.854 63.158 0.00 0.00 0.00 4.61
181 182 1.523938 GCGCATAACCCCTCTCACC 60.524 63.158 0.30 0.00 0.00 4.02
182 183 1.523938 GGCGCATAACCCCTCTCAC 60.524 63.158 10.83 0.00 0.00 3.51
183 184 1.558167 TTGGCGCATAACCCCTCTCA 61.558 55.000 10.83 0.00 0.00 3.27
184 185 0.393808 TTTGGCGCATAACCCCTCTC 60.394 55.000 10.83 0.00 0.00 3.20
209 211 2.166254 CACTGGTGGTCAAACAAAGCTT 59.834 45.455 0.00 0.00 0.00 3.74
228 230 4.419522 AGCGATTAATTGGTTGTCACAC 57.580 40.909 1.33 0.00 0.00 3.82
230 232 4.851558 GTCAAGCGATTAATTGGTTGTCAC 59.148 41.667 32.06 24.55 45.37 3.67
248 278 3.247442 TCGCGTTAACTGGTATGTCAAG 58.753 45.455 5.77 0.00 0.00 3.02
256 286 4.270084 CACATAATCATCGCGTTAACTGGT 59.730 41.667 5.77 0.00 0.00 4.00
296 326 7.330946 CGGTTAACAAGTCAGTTCATCATAAGA 59.669 37.037 8.10 0.00 33.07 2.10
303 333 7.972832 TTAATCGGTTAACAAGTCAGTTCAT 57.027 32.000 8.10 0.00 33.07 2.57
304 334 7.658167 TGATTAATCGGTTAACAAGTCAGTTCA 59.342 33.333 2.29 0.00 32.91 3.18
305 335 8.025243 TGATTAATCGGTTAACAAGTCAGTTC 57.975 34.615 2.29 0.00 32.91 3.01
395 692 1.134340 AGTTGTTGGTGCAGTCCGTTA 60.134 47.619 0.00 0.00 0.00 3.18
419 716 3.135225 CACGTCAATGTCCACTAACCAA 58.865 45.455 0.00 0.00 0.00 3.67
452 749 1.724654 CGCGCTGACAAATAACACACC 60.725 52.381 5.56 0.00 0.00 4.16
460 757 1.736645 ACTACGCGCGCTGACAAAT 60.737 52.632 32.58 10.51 0.00 2.32
481 778 1.438814 GTGTGCTTGGTGCTTGCTT 59.561 52.632 0.00 0.00 43.37 3.91
482 779 2.837883 CGTGTGCTTGGTGCTTGCT 61.838 57.895 0.00 0.00 43.37 3.91
483 780 2.335052 TTCGTGTGCTTGGTGCTTGC 62.335 55.000 0.00 0.00 43.37 4.01
484 781 0.592247 GTTCGTGTGCTTGGTGCTTG 60.592 55.000 0.00 0.00 43.37 4.01
493 790 2.029073 CCAGGACGTTCGTGTGCT 59.971 61.111 1.74 0.00 41.62 4.40
547 849 1.081242 GCAACTGCGGATGTTGGTG 60.081 57.895 16.47 0.00 43.37 4.17
548 850 1.528076 TGCAACTGCGGATGTTGGT 60.528 52.632 16.47 0.00 45.83 3.67
550 852 1.440850 CGTGCAACTGCGGATGTTG 60.441 57.895 0.00 12.51 45.83 3.33
555 857 2.661537 CAGTCGTGCAACTGCGGA 60.662 61.111 5.63 0.00 45.83 5.54
700 1038 1.298788 GTTCGTGGGCGTTTTGTGG 60.299 57.895 0.00 0.00 39.49 4.17
770 1113 3.450115 CAGGGGAGTCGTCGGGAC 61.450 72.222 0.00 0.00 46.45 4.46
771 1114 3.518552 AACAGGGGAGTCGTCGGGA 62.519 63.158 0.00 0.00 0.00 5.14
781 1124 2.454941 GAGGGAGGGAACAGGGGA 59.545 66.667 0.00 0.00 0.00 4.81
868 1211 2.033372 GAAAACCGAAAAGGGGTTGGA 58.967 47.619 0.00 0.00 46.75 3.53
880 1223 2.662527 GGACGCGTGGAAAACCGA 60.663 61.111 20.70 0.00 0.00 4.69
929 1272 2.552315 TGGCTTTTAAACTGGCTCGAAG 59.448 45.455 12.81 0.00 0.00 3.79
974 1317 4.681978 GCCGGGTGAGCGTGACTT 62.682 66.667 2.18 0.00 0.00 3.01
1011 1364 2.588877 GTGTGCCGTGCTCTGTGT 60.589 61.111 0.00 0.00 0.00 3.72
1027 1380 4.008933 GAGCTGAGGGGTGCGTGT 62.009 66.667 0.00 0.00 0.00 4.49
1050 1411 2.202544 CGAGCTGAGAGGTGCGAC 60.203 66.667 0.00 0.00 0.00 5.19
1056 1417 1.739562 GTTGTGGCGAGCTGAGAGG 60.740 63.158 0.00 0.00 0.00 3.69
1155 1519 3.090532 AATGGCCCCTCGTCCTCC 61.091 66.667 0.00 0.00 0.00 4.30
1485 1849 2.486966 GTTGCCATGAAGAGCCGC 59.513 61.111 0.00 0.00 0.00 6.53
1632 1999 4.704103 AGTCCTCTGGCCTCGGCA 62.704 66.667 10.51 0.00 44.11 5.69
1725 2101 2.962569 CCGTCCTGCTTCTCGACA 59.037 61.111 0.00 0.00 0.00 4.35
1788 2164 1.080093 GTCGCAGTCGGACATGGAA 60.080 57.895 11.27 0.00 36.13 3.53
1867 2243 0.671781 CGGTGGCCATGAGCTATAGC 60.672 60.000 17.33 17.33 43.05 2.97
1868 2244 0.681733 ACGGTGGCCATGAGCTATAG 59.318 55.000 9.72 0.00 43.05 1.31
1869 2245 0.679505 GACGGTGGCCATGAGCTATA 59.320 55.000 9.72 0.00 43.05 1.31
1870 2246 1.447643 GACGGTGGCCATGAGCTAT 59.552 57.895 9.72 0.00 43.05 2.97
1871 2247 2.731571 GGACGGTGGCCATGAGCTA 61.732 63.158 9.72 0.00 43.05 3.32
1872 2248 4.101448 GGACGGTGGCCATGAGCT 62.101 66.667 9.72 0.00 43.05 4.09
1874 2250 4.489771 GGGGACGGTGGCCATGAG 62.490 72.222 9.72 6.07 0.00 2.90
1876 2252 4.127744 ATGGGGACGGTGGCCATG 62.128 66.667 9.72 7.70 0.00 3.66
1877 2253 3.809013 GATGGGGACGGTGGCCAT 61.809 66.667 9.72 0.00 0.00 4.40
1929 2305 6.560253 TTTATGCTCTGTTTCTTCTTCACC 57.440 37.500 0.00 0.00 0.00 4.02
1931 2307 7.255242 CCACTTTTATGCTCTGTTTCTTCTTCA 60.255 37.037 0.00 0.00 0.00 3.02
1937 2313 4.144297 TGCCACTTTTATGCTCTGTTTCT 58.856 39.130 0.00 0.00 0.00 2.52
1947 2323 6.928520 AGATTTCCTTCTTGCCACTTTTATG 58.071 36.000 0.00 0.00 0.00 1.90
1949 2325 6.976934 AAGATTTCCTTCTTGCCACTTTTA 57.023 33.333 0.00 0.00 34.68 1.52
1965 2352 8.320295 CACACATAAACAACACACAAAGATTTC 58.680 33.333 0.00 0.00 0.00 2.17
2025 2423 5.391629 CGCTTACACCTAACCAAAATCCTTC 60.392 44.000 0.00 0.00 0.00 3.46
2184 2587 2.368439 AGCAAGCACACAAAGTTGAGA 58.632 42.857 0.00 0.00 0.00 3.27
2229 2632 4.037446 ACGTGTTGCAACTTACATTTCCAT 59.963 37.500 28.61 0.64 0.00 3.41
2230 2633 3.378742 ACGTGTTGCAACTTACATTTCCA 59.621 39.130 28.61 3.04 0.00 3.53
2231 2634 3.959943 ACGTGTTGCAACTTACATTTCC 58.040 40.909 28.61 0.18 0.00 3.13
2338 2799 3.564644 GTCTACTCTATGCTAGCCGTTCA 59.435 47.826 13.29 0.00 0.00 3.18
2344 2805 4.815040 TCAACGTCTACTCTATGCTAGC 57.185 45.455 8.10 8.10 0.00 3.42
2349 2810 7.175119 TGAGGGATAATCAACGTCTACTCTATG 59.825 40.741 0.00 0.00 0.00 2.23
2352 2813 5.446860 TGAGGGATAATCAACGTCTACTCT 58.553 41.667 0.00 0.00 0.00 3.24
2369 2833 0.250234 CAAAGCCGTGAGATGAGGGA 59.750 55.000 0.00 0.00 0.00 4.20
2372 2836 1.800805 ACACAAAGCCGTGAGATGAG 58.199 50.000 5.60 0.00 39.34 2.90
2373 2837 2.254546 AACACAAAGCCGTGAGATGA 57.745 45.000 5.60 0.00 39.34 2.92
2401 2865 1.291184 CTCGTCACCTTTGCATCGCA 61.291 55.000 0.00 0.00 36.47 5.10
2404 2868 1.796796 GGCTCGTCACCTTTGCATC 59.203 57.895 0.00 0.00 0.00 3.91
2470 2935 2.395690 CTTCGACGCCATGAACGC 59.604 61.111 7.85 0.00 0.00 4.84
2472 2937 2.395690 CGCTTCGACGCCATGAAC 59.604 61.111 8.46 0.00 0.00 3.18
2706 3171 1.153309 TCACGGAGAGCATGCCATG 60.153 57.895 15.66 0.00 0.00 3.66
2707 3172 1.153289 GTCACGGAGAGCATGCCAT 60.153 57.895 15.66 2.28 0.00 4.40
2736 3201 1.027255 CGCCAACGGAGAGAGAGAGA 61.027 60.000 0.00 0.00 34.97 3.10
2796 3592 0.322997 TGCATGGAAGGTAAACGGGG 60.323 55.000 0.00 0.00 0.00 5.73
2797 3593 1.540267 TTGCATGGAAGGTAAACGGG 58.460 50.000 0.00 0.00 0.00 5.28
2811 3607 4.260170 TGCAACTTTTTGGTCTTTTGCAT 58.740 34.783 2.79 0.00 43.19 3.96
2812 3608 3.668447 TGCAACTTTTTGGTCTTTTGCA 58.332 36.364 2.79 2.79 45.20 4.08
2914 3746 1.166531 AGCAAAGAACGGCCTGTCAC 61.167 55.000 0.00 0.00 0.00 3.67


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

AutoCloner maintained by Alex Coulton.