Multiple sequence alignment - TraesCS5D01G313000

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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 TraesCS5D01G313000 chr5D 100.000 2422 0 0 1 2422 408535800 408538221 0.000000e+00 4473
1 TraesCS5D01G313000 chr5B 93.530 1221 59 11 1217 2422 490080281 490081496 0.000000e+00 1799
2 TraesCS5D01G313000 chr5B 88.492 756 76 6 1 746 490078728 490079482 0.000000e+00 904
3 TraesCS5D01G313000 chr5B 89.455 275 15 10 763 1030 490079629 490079896 3.860000e-88 335
4 TraesCS5D01G313000 chr5B 89.873 237 23 1 1518 1754 702408986 702408751 1.090000e-78 303
5 TraesCS5D01G313000 chr5B 88.837 215 19 5 1452 1663 604448945 604449157 2.390000e-65 259
6 TraesCS5D01G313000 chr5A 89.983 1168 98 14 1269 2422 514426550 514427712 0.000000e+00 1491
7 TraesCS5D01G313000 chr5A 88.313 753 76 7 1 746 514425236 514425983 0.000000e+00 893
8 TraesCS5D01G313000 chr5A 92.494 413 17 14 772 1181 514426051 514426452 1.610000e-161 579
9 TraesCS5D01G313000 chr5A 86.381 257 19 12 1425 1669 342330710 342330458 1.430000e-67 267
10 TraesCS5D01G313000 chr3D 89.118 340 27 6 1425 1754 8355457 8355118 4.820000e-112 414
11 TraesCS5D01G313000 chr7B 89.091 220 19 5 1453 1669 734400849 734400632 3.970000e-68 268
12 TraesCS5D01G313000 chr1D 85.992 257 22 10 1425 1669 11507254 11507000 1.850000e-66 263
13 TraesCS5D01G313000 chr6A 87.719 228 23 5 1445 1669 96083086 96082861 6.640000e-66 261


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 TraesCS5D01G313000 chr5D 408535800 408538221 2421 False 4473.000000 4473 100.000000 1 2422 1 chr5D.!!$F1 2421
1 TraesCS5D01G313000 chr5B 490078728 490081496 2768 False 1012.666667 1799 90.492333 1 2422 3 chr5B.!!$F2 2421
2 TraesCS5D01G313000 chr5A 514425236 514427712 2476 False 987.666667 1491 90.263333 1 2422 3 chr5A.!!$F1 2421

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
391 395 0.034337 GTTACACCCCGCTTGAGTGA 59.966 55.0 0.0 0.0 35.47 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1747 2168 0.250727 CCCTGGACGTTGGTTGTGAT 60.251 55.0 0.0 0.0 0.0 3.06 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
91 93 7.229707 TCTCCACCTCTTTATCTTCTAATCGAG 59.770 40.741 0.00 0.00 0.00 4.04
118 120 8.868522 AATGTTTCCTTTGATGATACTTCTCA 57.131 30.769 0.00 0.00 0.00 3.27
158 160 9.144747 GCTCTTCACGTGATATTCATACATTAT 57.855 33.333 20.80 0.00 0.00 1.28
272 276 4.082949 CGAGGTTTTTACATCACCCTTTCC 60.083 45.833 0.00 0.00 0.00 3.13
274 278 6.208840 AGGTTTTTACATCACCCTTTCCTA 57.791 37.500 0.00 0.00 0.00 2.94
275 279 6.008331 AGGTTTTTACATCACCCTTTCCTAC 58.992 40.000 0.00 0.00 0.00 3.18
283 287 5.424252 ACATCACCCTTTCCTACTATCGAAA 59.576 40.000 0.00 0.00 0.00 3.46
288 292 8.542080 TCACCCTTTCCTACTATCGAAATAAAA 58.458 33.333 0.00 0.00 0.00 1.52
319 323 7.766278 ACAATATTAGGTCGATAAGATCATGCC 59.234 37.037 0.00 0.00 30.60 4.40
339 343 7.339976 TCATGCCTTTCATTCATTATCTTGACA 59.660 33.333 0.00 0.00 31.79 3.58
371 375 3.576078 AAGAGGGTTGAACATCACACA 57.424 42.857 0.00 0.00 0.00 3.72
380 384 3.472652 TGAACATCACACAGTTACACCC 58.527 45.455 0.00 0.00 0.00 4.61
381 385 2.561478 ACATCACACAGTTACACCCC 57.439 50.000 0.00 0.00 0.00 4.95
391 395 0.034337 GTTACACCCCGCTTGAGTGA 59.966 55.000 0.00 0.00 35.47 3.41
396 400 0.110486 ACCCCGCTTGAGTGACAAAT 59.890 50.000 0.00 0.00 38.08 2.32
407 411 7.254319 CGCTTGAGTGACAAATAATATACCGTT 60.254 37.037 0.00 0.00 38.08 4.44
426 430 4.039973 CCGTTTCTATTAGTCCATGGGCTA 59.960 45.833 22.42 22.42 0.00 3.93
428 432 6.053005 CGTTTCTATTAGTCCATGGGCTAAA 58.947 40.000 35.89 24.53 31.91 1.85
429 433 6.710744 CGTTTCTATTAGTCCATGGGCTAAAT 59.289 38.462 35.89 26.16 31.91 1.40
457 461 2.681848 CAATTTTGGTGCTTGTTTGCCA 59.318 40.909 0.00 0.00 0.00 4.92
505 509 1.072331 AGGCTATAACTCCCAATGCCG 59.928 52.381 0.00 0.00 43.15 5.69
530 540 7.035004 GTGCTATCAAGGTTTAAAATGCATCA 58.965 34.615 0.00 0.00 0.00 3.07
554 564 0.034756 TCACCTTCACCATGTCACCG 59.965 55.000 0.00 0.00 0.00 4.94
562 572 1.302949 CCATGTCACCGGGTGGAAT 59.697 57.895 26.07 16.73 39.21 3.01
566 576 1.874129 TGTCACCGGGTGGAATATCT 58.126 50.000 26.07 0.00 39.21 1.98
608 619 2.260869 CGGTGTTGGGTGCCTTCTG 61.261 63.158 0.00 0.00 0.00 3.02
620 631 1.550524 TGCCTTCTGATAGTTCGCAGT 59.449 47.619 0.00 0.00 33.90 4.40
623 634 3.066900 GCCTTCTGATAGTTCGCAGTAGA 59.933 47.826 0.00 0.00 33.10 2.59
643 654 2.205307 CCGATCTAGACGGGTTTCAC 57.795 55.000 19.82 0.00 45.65 3.18
648 659 3.313012 TCTAGACGGGTTTCACACATG 57.687 47.619 0.00 0.00 0.00 3.21
727 738 2.226962 AGTTTCGTAGACAGCCCCTA 57.773 50.000 0.00 0.00 34.32 3.53
731 742 1.471119 TCGTAGACAGCCCCTACAAG 58.529 55.000 0.00 0.00 37.05 3.16
746 757 6.604795 GCCCCTACAAGCATCATATGATTATT 59.395 38.462 15.74 10.36 36.64 1.40
747 758 7.415989 GCCCCTACAAGCATCATATGATTATTG 60.416 40.741 24.92 24.92 36.64 1.90
748 759 7.830697 CCCCTACAAGCATCATATGATTATTGA 59.169 37.037 29.45 18.84 36.64 2.57
756 767 9.881649 AGCATCATATGATTATTGATTACGAGT 57.118 29.630 15.74 0.00 31.21 4.18
768 910 7.730364 ATTGATTACGAGTTTATGATGACCC 57.270 36.000 0.00 0.00 0.00 4.46
778 953 6.143915 AGTTTATGATGACCCCTTCTAGCTA 58.856 40.000 0.00 0.00 0.00 3.32
819 999 0.807667 CTCTGCTATGTGGACCGTGC 60.808 60.000 0.00 0.00 0.00 5.34
988 1169 2.634777 CGATCGAGAGTCGGAGGC 59.365 66.667 10.26 0.00 40.88 4.70
1095 1276 4.095400 GGCTCCCCCTCCCTCTCA 62.095 72.222 0.00 0.00 0.00 3.27
1098 1279 3.695825 TCCCCCTCCCTCTCACCC 61.696 72.222 0.00 0.00 0.00 4.61
1172 1526 0.108329 GCCCTCTTGGTTCGATTCGA 60.108 55.000 4.29 4.29 36.04 3.71
1186 1540 1.466950 GATTCGATTTGGCGTGGTTCA 59.533 47.619 0.00 0.00 0.00 3.18
1189 1543 0.591170 CGATTTGGCGTGGTTCAGTT 59.409 50.000 0.00 0.00 0.00 3.16
1193 1547 4.093703 CGATTTGGCGTGGTTCAGTTTATA 59.906 41.667 0.00 0.00 0.00 0.98
1194 1548 5.220777 CGATTTGGCGTGGTTCAGTTTATAT 60.221 40.000 0.00 0.00 0.00 0.86
1195 1549 4.955925 TTGGCGTGGTTCAGTTTATATG 57.044 40.909 0.00 0.00 0.00 1.78
1196 1550 4.209307 TGGCGTGGTTCAGTTTATATGA 57.791 40.909 0.00 0.00 0.00 2.15
1198 1552 5.189928 TGGCGTGGTTCAGTTTATATGAAT 58.810 37.500 0.00 0.00 38.81 2.57
1245 1632 2.816958 CGAGATGGCGCAGTGCTT 60.817 61.111 14.33 0.00 45.43 3.91
1385 1789 2.505364 AAAGGGGCCAGGCATGTCTC 62.505 60.000 15.19 0.00 0.00 3.36
1386 1790 4.864334 GGGGCCAGGCATGTCTCG 62.864 72.222 15.19 0.00 0.00 4.04
1390 1794 0.749454 GGCCAGGCATGTCTCGAATT 60.749 55.000 15.19 0.00 0.00 2.17
1443 1848 2.031245 TCCATGTTTCGTTGTGCATCAC 60.031 45.455 0.00 0.00 34.56 3.06
1450 1866 0.606401 CGTTGTGCATCACTTCCCCT 60.606 55.000 0.00 0.00 35.11 4.79
1499 1920 5.163864 TGTTCTGTTGCGCTGTTAGATATTG 60.164 40.000 9.73 0.00 0.00 1.90
1571 1992 4.371786 TCTCTGCGATTTATTGCGAATCT 58.628 39.130 0.00 0.00 40.12 2.40
1641 2062 1.202313 TGTGGGCGCAACTTTGTTAAC 60.202 47.619 10.83 0.00 0.00 2.01
1648 2069 3.664025 GCGCAACTTTGTTAACTGATGTC 59.336 43.478 0.30 0.00 0.00 3.06
1674 2095 0.179020 TGAACTGGCTTCTGGTGGTG 60.179 55.000 0.00 0.00 0.00 4.17
1692 2113 1.876156 GTGCAGTTCATATAGCTGGCC 59.124 52.381 0.00 0.00 36.95 5.36
1747 2168 4.278170 GCCACAATGCCTGTATTAATGCTA 59.722 41.667 5.11 0.00 36.10 3.49
1750 2171 6.207221 CCACAATGCCTGTATTAATGCTATCA 59.793 38.462 5.11 0.91 36.10 2.15
1767 2188 1.147376 CACAACCAACGTCCAGGGA 59.853 57.895 6.60 0.00 0.00 4.20
1783 2205 1.103398 GGGATGCGCTACTGCCATTT 61.103 55.000 9.73 0.00 32.81 2.32
1784 2206 1.593196 GGATGCGCTACTGCCATTTA 58.407 50.000 9.73 0.00 32.81 1.40
1785 2207 1.264288 GGATGCGCTACTGCCATTTAC 59.736 52.381 9.73 0.00 32.81 2.01
1787 2209 1.651987 TGCGCTACTGCCATTTACTC 58.348 50.000 9.73 0.00 35.36 2.59
1788 2210 1.207089 TGCGCTACTGCCATTTACTCT 59.793 47.619 9.73 0.00 35.36 3.24
1821 2243 3.206150 ACAGATCGATACAACAATGCCC 58.794 45.455 0.00 0.00 0.00 5.36
1839 2261 2.966050 CCCGAGGCAAATATCTCTAGC 58.034 52.381 0.00 0.00 0.00 3.42
1869 2291 9.444600 TGATAGGTTAGGTTTTATTTGTGTCTC 57.555 33.333 0.00 0.00 0.00 3.36
1900 2322 3.438434 GTCCAAGATTTCAGAGTGAAGGC 59.562 47.826 0.00 0.00 37.70 4.35
1911 2333 5.245531 TCAGAGTGAAGGCGAATTTTACAT 58.754 37.500 0.00 0.00 0.00 2.29
1943 2365 8.816640 AGGTATGCTTTGTTGATTTTACTTTG 57.183 30.769 0.00 0.00 0.00 2.77
2004 2426 6.444633 GTCGAGCAAGCTAATAATACCTACA 58.555 40.000 0.00 0.00 0.00 2.74
2051 2473 7.942341 TCCTTCCTTTGAACTGTAATGTACAAT 59.058 33.333 0.00 0.00 38.38 2.71
2087 2509 3.401182 GCCCTTTTCATGTTTGATGCAA 58.599 40.909 0.00 0.00 0.00 4.08
2365 2790 8.302515 TCGTAGATTAAAGGACCAGATTTAGT 57.697 34.615 0.00 0.00 0.00 2.24
2409 2835 7.557719 CCTGGTCCTTTCTTGTTTGATGTATAT 59.442 37.037 0.00 0.00 0.00 0.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
61 63 9.716556 ATTAGAAGATAAAGAGGTGGAGAGTAA 57.283 33.333 0.00 0.00 0.00 2.24
80 82 8.721478 TCAAAGGAAACATTTCTCGATTAGAAG 58.279 33.333 4.45 0.00 44.95 2.85
91 93 9.780413 GAGAAGTATCATCAAAGGAAACATTTC 57.220 33.333 0.00 0.00 36.46 2.17
118 120 6.472163 CACGTGAAGAGCAACAAAAATAAACT 59.528 34.615 10.90 0.00 0.00 2.66
239 243 4.186159 TGTAAAAACCTCGTAGGCTATGC 58.814 43.478 8.93 0.00 39.63 3.14
249 253 4.082949 GGAAAGGGTGATGTAAAAACCTCG 60.083 45.833 0.00 0.00 34.24 4.63
296 300 7.667575 AGGCATGATCTTATCGACCTAATAT 57.332 36.000 0.00 0.00 29.85 1.28
353 357 2.851195 ACTGTGTGATGTTCAACCCTC 58.149 47.619 0.00 0.00 0.00 4.30
371 375 0.034896 CACTCAAGCGGGGTGTAACT 59.965 55.000 3.54 0.00 36.74 2.24
380 384 6.346598 CGGTATATTATTTGTCACTCAAGCGG 60.347 42.308 0.00 0.00 37.35 5.52
381 385 6.200286 ACGGTATATTATTTGTCACTCAAGCG 59.800 38.462 0.00 0.00 37.35 4.68
407 411 7.633018 AGATTTAGCCCATGGACTAATAGAA 57.367 36.000 19.81 6.84 0.00 2.10
426 430 6.711645 ACAAGCACCAAAATTGCATAAGATTT 59.288 30.769 0.00 0.00 42.83 2.17
428 432 5.797051 ACAAGCACCAAAATTGCATAAGAT 58.203 33.333 0.00 0.00 42.83 2.40
429 433 5.212532 ACAAGCACCAAAATTGCATAAGA 57.787 34.783 0.00 0.00 42.83 2.10
476 480 4.065789 GGGAGTTATAGCCTGGAAAATCG 58.934 47.826 0.00 0.00 0.00 3.34
478 482 5.466127 TTGGGAGTTATAGCCTGGAAAAT 57.534 39.130 0.00 0.00 0.00 1.82
505 509 7.035004 TGATGCATTTTAAACCTTGATAGCAC 58.965 34.615 0.00 0.00 0.00 4.40
530 540 2.218603 GACATGGTGAAGGTGAACGTT 58.781 47.619 0.00 0.00 0.00 3.99
554 564 5.174395 CGAGATGAATGAGATATTCCACCC 58.826 45.833 0.00 0.00 0.00 4.61
562 572 9.289782 TCTAGATCAAACGAGATGAATGAGATA 57.710 33.333 0.00 0.00 0.00 1.98
566 576 6.212235 GCTCTAGATCAAACGAGATGAATGA 58.788 40.000 0.00 0.00 0.00 2.57
608 619 3.499157 AGATCGGTCTACTGCGAACTATC 59.501 47.826 0.00 0.00 31.36 2.08
620 631 3.209410 GAAACCCGTCTAGATCGGTCTA 58.791 50.000 23.31 5.08 45.63 2.59
623 634 1.475682 GTGAAACCCGTCTAGATCGGT 59.524 52.381 23.31 16.61 45.63 4.69
746 757 5.365605 AGGGGTCATCATAAACTCGTAATCA 59.634 40.000 0.00 0.00 0.00 2.57
747 758 5.855045 AGGGGTCATCATAAACTCGTAATC 58.145 41.667 0.00 0.00 0.00 1.75
748 759 5.888982 AGGGGTCATCATAAACTCGTAAT 57.111 39.130 0.00 0.00 0.00 1.89
750 761 4.960469 AGAAGGGGTCATCATAAACTCGTA 59.040 41.667 0.00 0.00 0.00 3.43
751 762 3.775316 AGAAGGGGTCATCATAAACTCGT 59.225 43.478 0.00 0.00 0.00 4.18
753 764 5.071115 AGCTAGAAGGGGTCATCATAAACTC 59.929 44.000 0.00 0.00 0.00 3.01
754 765 4.971924 AGCTAGAAGGGGTCATCATAAACT 59.028 41.667 0.00 0.00 0.00 2.66
755 766 5.297569 AGCTAGAAGGGGTCATCATAAAC 57.702 43.478 0.00 0.00 0.00 2.01
756 767 7.633018 AATAGCTAGAAGGGGTCATCATAAA 57.367 36.000 0.00 0.00 0.00 1.40
757 768 7.633018 AAATAGCTAGAAGGGGTCATCATAA 57.367 36.000 0.00 0.00 0.00 1.90
758 769 7.633018 AAAATAGCTAGAAGGGGTCATCATA 57.367 36.000 0.00 0.00 0.00 2.15
759 770 6.521527 AAAATAGCTAGAAGGGGTCATCAT 57.478 37.500 0.00 0.00 0.00 2.45
760 771 5.975988 AAAATAGCTAGAAGGGGTCATCA 57.024 39.130 0.00 0.00 0.00 3.07
787 962 7.234371 TCCACATAGCAGAGCTAGAATTTCTAT 59.766 37.037 6.59 0.00 44.66 1.98
789 964 5.365025 TCCACATAGCAGAGCTAGAATTTCT 59.635 40.000 4.03 4.03 44.66 2.52
790 965 5.465056 GTCCACATAGCAGAGCTAGAATTTC 59.535 44.000 4.92 0.00 44.66 2.17
791 966 5.363939 GTCCACATAGCAGAGCTAGAATTT 58.636 41.667 4.92 0.00 44.66 1.82
819 999 3.686726 GCCTGATTCAGTAACTGGTCTTG 59.313 47.826 12.54 0.00 31.51 3.02
988 1169 1.066303 CTTCGACATCTTCCTCCTCCG 59.934 57.143 0.00 0.00 0.00 4.63
1080 1261 2.041405 GGTGAGAGGGAGGGGGAG 60.041 72.222 0.00 0.00 0.00 4.30
1081 1262 3.695825 GGGTGAGAGGGAGGGGGA 61.696 72.222 0.00 0.00 0.00 4.81
1083 1264 2.041405 GAGGGTGAGAGGGAGGGG 60.041 72.222 0.00 0.00 0.00 4.79
1084 1265 1.075600 GAGAGGGTGAGAGGGAGGG 60.076 68.421 0.00 0.00 0.00 4.30
1085 1266 0.106217 GAGAGAGGGTGAGAGGGAGG 60.106 65.000 0.00 0.00 0.00 4.30
1086 1267 0.465460 CGAGAGAGGGTGAGAGGGAG 60.465 65.000 0.00 0.00 0.00 4.30
1087 1268 1.610327 CGAGAGAGGGTGAGAGGGA 59.390 63.158 0.00 0.00 0.00 4.20
1091 1272 2.043852 GGGCGAGAGAGGGTGAGA 60.044 66.667 0.00 0.00 0.00 3.27
1095 1276 3.564347 AAAGGGGGCGAGAGAGGGT 62.564 63.158 0.00 0.00 0.00 4.34
1098 1279 1.681486 GGAGAAAGGGGGCGAGAGAG 61.681 65.000 0.00 0.00 0.00 3.20
1153 1504 0.108329 TCGAATCGAACCAAGAGGGC 60.108 55.000 1.57 0.00 42.05 5.19
1157 1511 2.418628 GCCAAATCGAATCGAACCAAGA 59.581 45.455 10.12 0.00 39.99 3.02
1172 1526 5.650266 TCATATAAACTGAACCACGCCAAAT 59.350 36.000 0.00 0.00 0.00 2.32
1186 1540 9.950496 ATCGCTTCCTGATTATTCATATAAACT 57.050 29.630 0.00 0.00 30.38 2.66
1189 1543 9.809096 GAGATCGCTTCCTGATTATTCATATAA 57.191 33.333 0.00 0.00 0.00 0.98
1193 1547 5.167121 CGAGATCGCTTCCTGATTATTCAT 58.833 41.667 0.00 0.00 0.00 2.57
1194 1548 4.550422 CGAGATCGCTTCCTGATTATTCA 58.450 43.478 0.00 0.00 0.00 2.57
1195 1549 3.923461 CCGAGATCGCTTCCTGATTATTC 59.077 47.826 0.00 0.00 38.18 1.75
1196 1550 3.574396 TCCGAGATCGCTTCCTGATTATT 59.426 43.478 0.00 0.00 38.18 1.40
1198 1552 2.583143 TCCGAGATCGCTTCCTGATTA 58.417 47.619 0.00 0.00 38.18 1.75
1205 1565 0.313672 AGAGCATCCGAGATCGCTTC 59.686 55.000 0.00 0.00 38.18 3.86
1207 1567 1.106351 ACAGAGCATCCGAGATCGCT 61.106 55.000 0.00 9.05 38.18 4.93
1208 1568 0.938637 CACAGAGCATCCGAGATCGC 60.939 60.000 0.00 0.00 38.18 4.58
1240 1627 2.409948 AGAGCAGATGGGTTAAGCAC 57.590 50.000 7.03 0.00 0.00 4.40
1245 1632 1.839994 CAGGGAAGAGCAGATGGGTTA 59.160 52.381 0.00 0.00 0.00 2.85
1274 1678 0.895530 CCTTGTACGGCCTCTTCTGA 59.104 55.000 0.00 0.00 0.00 3.27
1386 1790 3.048942 CTGATTCACAGCGAGCAATTC 57.951 47.619 0.00 0.00 39.86 2.17
1443 1848 5.156608 AGCAAAATCATCAAAAGGGGAAG 57.843 39.130 0.00 0.00 0.00 3.46
1450 1866 5.466058 ACGATTGCAAGCAAAATCATCAAAA 59.534 32.000 15.98 0.00 39.55 2.44
1499 1920 7.382110 AGCTACTCACATCCACACATAATATC 58.618 38.462 0.00 0.00 0.00 1.63
1571 1992 0.602638 CTAACAAGTGCTGGACGCCA 60.603 55.000 0.00 0.00 38.05 5.69
1641 2062 4.940046 AGCCAGTTCATAACAAGACATCAG 59.060 41.667 0.00 0.00 0.00 2.90
1648 2069 4.074970 ACCAGAAGCCAGTTCATAACAAG 58.925 43.478 0.00 0.00 37.67 3.16
1674 2095 1.151668 CGGCCAGCTATATGAACTGC 58.848 55.000 2.24 0.00 0.00 4.40
1692 2113 1.472480 GTGTTCAATTGGGGGTCATCG 59.528 52.381 5.42 0.00 0.00 3.84
1747 2168 0.250727 CCCTGGACGTTGGTTGTGAT 60.251 55.000 0.00 0.00 0.00 3.06
1750 2171 0.250727 CATCCCTGGACGTTGGTTGT 60.251 55.000 0.00 0.00 0.00 3.32
1767 2188 2.158900 AGAGTAAATGGCAGTAGCGCAT 60.159 45.455 11.47 0.00 43.41 4.73
1787 2209 7.308435 TGTATCGATCTGTAGCATATGAACAG 58.692 38.462 23.03 23.03 41.58 3.16
1788 2210 7.214467 TGTATCGATCTGTAGCATATGAACA 57.786 36.000 6.97 8.87 0.00 3.18
1821 2243 3.290308 ACGCTAGAGATATTTGCCTCG 57.710 47.619 0.00 0.00 34.75 4.63
1837 2259 9.052759 CAAATAAAACCTAACCTATCATACGCT 57.947 33.333 0.00 0.00 0.00 5.07
1869 2291 7.064371 CACTCTGAAATCTTGGACATACAGAAG 59.936 40.741 0.00 0.00 33.77 2.85
1900 2322 7.116376 AGCATACCTATCGACATGTAAAATTCG 59.884 37.037 0.00 0.00 0.00 3.34
1911 2333 5.079689 TCAACAAAGCATACCTATCGACA 57.920 39.130 0.00 0.00 0.00 4.35
2004 2426 7.489239 AGGAGCTTCTAGTGATCTAACTTTT 57.511 36.000 0.00 0.00 0.00 2.27
2012 2434 5.105146 TCAAAGGAAGGAGCTTCTAGTGATC 60.105 44.000 0.00 0.00 40.07 2.92
2051 2473 6.019748 TGAAAAGGGCCCATTACTTAAATGA 58.980 36.000 27.56 0.00 46.81 2.57
2231 2656 6.406692 TCTACTTTTCAGACTGTACAAGCT 57.593 37.500 1.59 0.00 0.00 3.74


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

AutoCloner maintained by Alex Coulton.