Multiple sequence alignment - TraesCS5D01G451300

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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 TraesCS5D01G451300 chr5D 100.000 2985 0 0 1 2985 499652050 499655034 0.000000e+00 5513
1 TraesCS5D01G451300 chr5D 80.173 1846 233 73 5 1764 499446913 499448711 0.000000e+00 1258
2 TraesCS5D01G451300 chr5D 81.947 1202 183 27 5 1196 499957358 499956181 0.000000e+00 987
3 TraesCS5D01G451300 chr5D 83.501 497 50 16 1344 1821 499955957 499955474 4.570000e-118 435
4 TraesCS5D01G451300 chr5B 92.104 2191 137 25 1 2171 620825338 620827512 0.000000e+00 3055
5 TraesCS5D01G451300 chr5B 80.121 1977 231 92 1 1878 620668362 620670275 0.000000e+00 1325
6 TraesCS5D01G451300 chr5B 80.033 1823 235 73 29 1764 620305914 620307694 0.000000e+00 1230
7 TraesCS5D01G451300 chr5B 81.863 1213 182 27 5 1200 621399994 621398803 0.000000e+00 987
8 TraesCS5D01G451300 chr5B 90.033 602 38 10 2385 2985 620827731 620828311 0.000000e+00 760
9 TraesCS5D01G451300 chr5B 88.249 417 31 8 1344 1748 621398592 621398182 1.610000e-132 483
10 TraesCS5D01G451300 chr5A 91.451 2012 142 19 3 1998 623953951 623955948 0.000000e+00 2736
11 TraesCS5D01G451300 chr5A 80.000 1865 233 76 1 1765 623684079 623685903 0.000000e+00 1249
12 TraesCS5D01G451300 chr5A 82.616 1116 171 17 29 1140 624476354 624475258 0.000000e+00 965
13 TraesCS5D01G451300 chr5A 84.708 994 72 40 2034 2985 623955950 623956905 0.000000e+00 920
14 TraesCS5D01G451300 chr5A 86.905 420 31 11 1344 1748 624474975 624474565 1.630000e-122 449


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 TraesCS5D01G451300 chr5D 499652050 499655034 2984 False 5513.0 5513 100.0000 1 2985 1 chr5D.!!$F2 2984
1 TraesCS5D01G451300 chr5D 499446913 499448711 1798 False 1258.0 1258 80.1730 5 1764 1 chr5D.!!$F1 1759
2 TraesCS5D01G451300 chr5D 499955474 499957358 1884 True 711.0 987 82.7240 5 1821 2 chr5D.!!$R1 1816
3 TraesCS5D01G451300 chr5B 620825338 620828311 2973 False 1907.5 3055 91.0685 1 2985 2 chr5B.!!$F3 2984
4 TraesCS5D01G451300 chr5B 620668362 620670275 1913 False 1325.0 1325 80.1210 1 1878 1 chr5B.!!$F2 1877
5 TraesCS5D01G451300 chr5B 620305914 620307694 1780 False 1230.0 1230 80.0330 29 1764 1 chr5B.!!$F1 1735
6 TraesCS5D01G451300 chr5B 621398182 621399994 1812 True 735.0 987 85.0560 5 1748 2 chr5B.!!$R1 1743
7 TraesCS5D01G451300 chr5A 623953951 623956905 2954 False 1828.0 2736 88.0795 3 2985 2 chr5A.!!$F2 2982
8 TraesCS5D01G451300 chr5A 623684079 623685903 1824 False 1249.0 1249 80.0000 1 1765 1 chr5A.!!$F1 1764
9 TraesCS5D01G451300 chr5A 624474565 624476354 1789 True 707.0 965 84.7605 29 1748 2 chr5A.!!$R1 1719

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
27 28 0.249120 TGATCCCAACTGTAGCCACG 59.751 55.0 0.00 0.0 0.0 4.94 F
700 714 0.382515 GTCGAATCGGTGGAGAGGAG 59.617 60.0 1.76 0.0 0.0 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1892 2209 0.941463 GCATCTAGGTCCGTCATGCG 60.941 60.0 6.29 3.02 40.95 4.73 R
2319 2730 0.110104 CATCCATCTCTTCCAGGCCC 59.890 60.0 0.00 0.00 0.00 5.80 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
27 28 0.249120 TGATCCCAACTGTAGCCACG 59.751 55.000 0.00 0.00 0.00 4.94
44 45 5.600696 AGCCACGACTTTCAAAATTTTCAT 58.399 33.333 0.00 0.00 0.00 2.57
69 71 2.372172 AGTTTGTCGTTCCAGGGAAGAT 59.628 45.455 0.00 0.00 34.49 2.40
81 83 7.171678 CGTTCCAGGGAAGATTAGATACAAATC 59.828 40.741 0.00 0.00 34.49 2.17
200 213 4.261741 GCCACAAGAACAAACACTGATCAT 60.262 41.667 0.00 0.00 29.33 2.45
218 231 7.341256 ACTGATCATTCCAGTGCAAATTAATCT 59.659 33.333 0.00 0.00 42.68 2.40
436 450 2.470821 CCTATCGAAACCATGTCGGAC 58.529 52.381 0.00 0.00 39.01 4.79
455 469 0.517316 CCAGCCTGTTTCTTGTACGC 59.483 55.000 0.00 0.00 0.00 4.42
457 471 1.195448 CAGCCTGTTTCTTGTACGCAG 59.805 52.381 0.00 0.00 0.00 5.18
458 472 1.070134 AGCCTGTTTCTTGTACGCAGA 59.930 47.619 0.00 0.00 0.00 4.26
590 604 0.970937 GACCAGTCCCTGATCACCGA 60.971 60.000 0.00 0.00 32.44 4.69
611 625 3.535561 ACGCATTTCTCCCAGAATACAG 58.464 45.455 0.00 0.00 33.67 2.74
629 643 4.385358 ACAGAACCAAATCACACAAACC 57.615 40.909 0.00 0.00 0.00 3.27
633 647 1.679153 ACCAAATCACACAAACCCGAC 59.321 47.619 0.00 0.00 0.00 4.79
680 694 5.460646 ACCTACACAATGCAGAAAATTTCG 58.539 37.500 0.00 0.00 34.02 3.46
700 714 0.382515 GTCGAATCGGTGGAGAGGAG 59.617 60.000 1.76 0.00 0.00 3.69
715 729 1.200484 GAGGAGCCGGAGATATTCGAC 59.800 57.143 5.05 0.00 0.00 4.20
748 762 1.437625 GAGAAGCACACTCTGGAAGC 58.562 55.000 0.00 0.00 0.00 3.86
1038 1089 1.379977 TCTCTCACCTCCGGCGAAT 60.380 57.895 9.30 0.00 0.00 3.34
1285 1437 4.790861 GACCCCTTCGCCGTCGTC 62.791 72.222 0.00 0.00 36.96 4.20
1293 1456 4.712425 CGCCGTCGTCCCTCGTTT 62.712 66.667 0.00 0.00 40.80 3.60
1307 1470 3.202906 CCTCGTTTTGTCTGTTCTTCCA 58.797 45.455 0.00 0.00 0.00 3.53
1336 1500 3.256631 CCCTGATCTGACTTTGGTTTTGG 59.743 47.826 0.38 0.00 0.00 3.28
1338 1502 4.342092 CCTGATCTGACTTTGGTTTTGGTT 59.658 41.667 0.38 0.00 0.00 3.67
1339 1503 5.507985 CCTGATCTGACTTTGGTTTTGGTTC 60.508 44.000 0.38 0.00 0.00 3.62
1892 2209 1.224870 GGCCAAGAAGTAGAGCCCC 59.775 63.158 0.00 0.00 37.66 5.80
1957 2276 2.971660 TTCTCTGTTCGGTGTTGTCA 57.028 45.000 0.00 0.00 0.00 3.58
2086 2408 8.414778 GGAATCAGTTGTACTAGTAGCAGTAAT 58.585 37.037 1.87 0.00 32.92 1.89
2131 2454 0.528924 TTGCAGCAATGTCCATGAGC 59.471 50.000 2.83 0.00 0.00 4.26
2141 2464 5.732528 GCAATGTCCATGAGCTATTTGTCAG 60.733 44.000 0.00 0.00 0.00 3.51
2148 2471 7.497249 GTCCATGAGCTATTTGTCAGAATTACT 59.503 37.037 0.00 0.00 0.00 2.24
2170 2493 5.163426 ACTGTGTTTCATTTGCCAAATCTGA 60.163 36.000 0.00 0.00 0.00 3.27
2177 2500 3.322211 TTTGCCAAATCTGATGCCAAG 57.678 42.857 0.00 0.00 0.00 3.61
2178 2501 2.219080 TGCCAAATCTGATGCCAAGA 57.781 45.000 0.00 0.00 0.00 3.02
2179 2502 2.742348 TGCCAAATCTGATGCCAAGAT 58.258 42.857 0.00 0.00 0.00 2.40
2181 2504 3.118920 TGCCAAATCTGATGCCAAGATTG 60.119 43.478 6.44 0.00 33.19 2.67
2182 2505 3.118884 GCCAAATCTGATGCCAAGATTGT 60.119 43.478 6.44 0.00 33.19 2.71
2184 2507 5.107133 CCAAATCTGATGCCAAGATTGTTC 58.893 41.667 6.44 0.00 33.19 3.18
2185 2508 5.336929 CCAAATCTGATGCCAAGATTGTTCA 60.337 40.000 6.44 0.00 33.19 3.18
2186 2509 6.338146 CAAATCTGATGCCAAGATTGTTCAT 58.662 36.000 6.44 0.00 33.19 2.57
2188 2511 4.338012 TCTGATGCCAAGATTGTTCATGT 58.662 39.130 0.00 0.00 0.00 3.21
2189 2512 4.768448 TCTGATGCCAAGATTGTTCATGTT 59.232 37.500 0.00 0.00 0.00 2.71
2190 2513 5.945191 TCTGATGCCAAGATTGTTCATGTTA 59.055 36.000 0.00 0.00 0.00 2.41
2191 2514 5.953183 TGATGCCAAGATTGTTCATGTTAC 58.047 37.500 0.00 0.00 0.00 2.50
2192 2515 4.782019 TGCCAAGATTGTTCATGTTACC 57.218 40.909 0.00 0.00 0.00 2.85
2193 2516 4.406456 TGCCAAGATTGTTCATGTTACCT 58.594 39.130 0.00 0.00 0.00 3.08
2194 2517 4.218200 TGCCAAGATTGTTCATGTTACCTG 59.782 41.667 0.00 0.00 0.00 4.00
2195 2518 4.737054 CCAAGATTGTTCATGTTACCTGC 58.263 43.478 0.00 0.00 0.00 4.85
2196 2519 4.460382 CCAAGATTGTTCATGTTACCTGCT 59.540 41.667 0.00 0.00 0.00 4.24
2197 2520 5.392380 CCAAGATTGTTCATGTTACCTGCTC 60.392 44.000 0.00 0.00 0.00 4.26
2198 2521 5.171339 AGATTGTTCATGTTACCTGCTCT 57.829 39.130 0.00 0.00 0.00 4.09
2199 2522 4.940046 AGATTGTTCATGTTACCTGCTCTG 59.060 41.667 0.00 0.00 0.00 3.35
2200 2523 4.350368 TTGTTCATGTTACCTGCTCTGA 57.650 40.909 0.00 0.00 0.00 3.27
2201 2524 3.930336 TGTTCATGTTACCTGCTCTGAG 58.070 45.455 0.00 0.00 0.00 3.35
2202 2525 3.578282 TGTTCATGTTACCTGCTCTGAGA 59.422 43.478 9.28 0.00 0.00 3.27
2203 2526 4.180057 GTTCATGTTACCTGCTCTGAGAG 58.820 47.826 9.28 4.80 0.00 3.20
2214 2537 1.255882 CTCTGAGAGCCTGCGGATAT 58.744 55.000 0.00 0.00 0.00 1.63
2215 2538 0.964700 TCTGAGAGCCTGCGGATATG 59.035 55.000 0.00 0.00 0.00 1.78
2223 2546 1.342074 CCTGCGGATATGGAAGGAGA 58.658 55.000 0.00 0.00 0.00 3.71
2224 2547 1.694150 CCTGCGGATATGGAAGGAGAA 59.306 52.381 0.00 0.00 0.00 2.87
2234 2557 7.123397 CGGATATGGAAGGAGAATTGAGATCTA 59.877 40.741 0.00 0.00 0.00 1.98
2342 2753 2.780714 CCTGGAAGAGATGGATGATGC 58.219 52.381 0.00 0.00 34.07 3.91
2345 2756 2.036862 TGGAAGAGATGGATGATGCTCG 59.963 50.000 0.00 0.00 32.80 5.03
2350 2761 0.668706 GATGGATGATGCTCGTCGGG 60.669 60.000 0.00 0.00 33.29 5.14
2351 2762 2.663188 GGATGATGCTCGTCGGGC 60.663 66.667 11.02 11.02 33.29 6.13
2360 2771 3.362399 CTCGTCGGGCTGATGCAGT 62.362 63.158 10.79 0.00 41.91 4.40
2364 2775 2.513204 CGGGCTGATGCAGTGAGG 60.513 66.667 0.00 0.00 41.91 3.86
2374 2785 1.896220 TGCAGTGAGGTGAATGGAAC 58.104 50.000 0.00 0.00 0.00 3.62
2375 2786 0.798776 GCAGTGAGGTGAATGGAACG 59.201 55.000 0.00 0.00 0.00 3.95
2376 2787 1.878102 GCAGTGAGGTGAATGGAACGT 60.878 52.381 0.00 0.00 0.00 3.99
2377 2788 1.800586 CAGTGAGGTGAATGGAACGTG 59.199 52.381 0.00 0.00 0.00 4.49
2381 2804 1.798813 GAGGTGAATGGAACGTGACAC 59.201 52.381 0.00 0.00 0.00 3.67
2388 2811 1.107945 TGGAACGTGACACACAGAGA 58.892 50.000 6.37 0.00 33.40 3.10
2405 2828 6.071840 ACACAGAGAACAGTAAGCTAACTAGG 60.072 42.308 0.00 0.00 0.00 3.02
2614 3055 3.365265 CGCCTGCAGTGTTTCCCC 61.365 66.667 13.81 0.00 0.00 4.81
2638 3079 1.636340 CGCTTCCGAAACCTATGCG 59.364 57.895 0.00 0.00 36.29 4.73
2666 3107 0.391130 GCAAGCGTGTGGATGTAGGA 60.391 55.000 0.59 0.00 0.00 2.94
2670 3111 1.749634 AGCGTGTGGATGTAGGAGTAC 59.250 52.381 0.00 0.00 0.00 2.73
2791 3232 2.222953 GCGAGTAAATTGTTAGCCACGG 60.223 50.000 0.00 0.00 0.00 4.94
2794 3235 4.668177 CGAGTAAATTGTTAGCCACGGTTG 60.668 45.833 0.00 0.00 0.00 3.77
2817 3259 4.469657 TGGCAGGACTTGACAATAAAACT 58.530 39.130 0.00 0.00 43.52 2.66
2885 3327 4.358851 CATGAACGAGGCAAAGAAACAAA 58.641 39.130 0.00 0.00 0.00 2.83
2894 3336 3.068165 GGCAAAGAAACAAACACTAGGCT 59.932 43.478 0.00 0.00 0.00 4.58
2895 3337 4.277423 GGCAAAGAAACAAACACTAGGCTA 59.723 41.667 0.00 0.00 0.00 3.93
2896 3338 5.452777 GCAAAGAAACAAACACTAGGCTAG 58.547 41.667 19.83 19.83 0.00 3.42
2897 3339 5.562890 GCAAAGAAACAAACACTAGGCTAGG 60.563 44.000 24.57 15.66 0.00 3.02
2949 3392 1.143073 GACCCAAACCAAGGAGACACT 59.857 52.381 0.00 0.00 0.00 3.55
2950 3393 1.133792 ACCCAAACCAAGGAGACACTG 60.134 52.381 0.00 0.00 0.00 3.66
2951 3394 1.142870 CCCAAACCAAGGAGACACTGA 59.857 52.381 0.00 0.00 0.00 3.41
2952 3395 2.422803 CCCAAACCAAGGAGACACTGAA 60.423 50.000 0.00 0.00 0.00 3.02
2953 3396 3.287222 CCAAACCAAGGAGACACTGAAA 58.713 45.455 0.00 0.00 0.00 2.69
2954 3397 3.066760 CCAAACCAAGGAGACACTGAAAC 59.933 47.826 0.00 0.00 0.00 2.78
2967 3410 4.589908 ACACTGAAACTGAAGGTTCAAGT 58.410 39.130 11.71 10.21 37.12 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 9.706846 CAAACTGGAATGAAAATTTTGAAAGTC 57.293 29.630 8.47 2.84 0.00 3.01
44 45 1.476110 CCCTGGAACGACAAACTGGAA 60.476 52.381 0.00 0.00 0.00 3.53
69 71 3.550275 GCACGACGCAGATTTGTATCTAA 59.450 43.478 0.00 0.00 39.11 2.10
218 231 1.605457 GCGATGTCACACTTGAGTCCA 60.605 52.381 0.00 0.00 30.10 4.02
436 450 0.517316 GCGTACAAGAAACAGGCTGG 59.483 55.000 20.34 1.75 0.00 4.85
455 469 3.246226 GCAGGATAACGTAGCAACATCTG 59.754 47.826 0.00 0.00 0.00 2.90
457 471 3.458189 AGCAGGATAACGTAGCAACATC 58.542 45.455 0.00 0.00 0.00 3.06
458 472 3.543680 AGCAGGATAACGTAGCAACAT 57.456 42.857 0.00 0.00 0.00 2.71
590 604 3.197766 TCTGTATTCTGGGAGAAATGCGT 59.802 43.478 0.00 0.00 37.82 5.24
611 625 2.359531 TCGGGTTTGTGTGATTTGGTTC 59.640 45.455 0.00 0.00 0.00 3.62
629 643 6.183360 GGATAATGTCTTTGTAACAAGGTCGG 60.183 42.308 0.00 0.00 0.00 4.79
633 647 6.737254 ACGGATAATGTCTTTGTAACAAGG 57.263 37.500 0.00 0.00 0.00 3.61
680 694 1.035932 TCCTCTCCACCGATTCGACC 61.036 60.000 7.83 0.00 0.00 4.79
700 714 4.554163 CGGTCGAATATCTCCGGC 57.446 61.111 0.00 0.00 39.41 6.13
715 729 1.537135 GCTTCTCCTCTCGATTTCCGG 60.537 57.143 0.00 0.00 39.14 5.14
823 838 2.511600 GTCTCCATCCAACGGCCG 60.512 66.667 26.86 26.86 0.00 6.13
932 949 2.756283 AAGACGGGAGAGCCGGAG 60.756 66.667 5.05 0.00 37.87 4.63
933 950 2.754658 GAAGACGGGAGAGCCGGA 60.755 66.667 5.05 0.00 37.87 5.14
934 951 3.839432 GGAAGACGGGAGAGCCGG 61.839 72.222 0.00 0.00 40.16 6.13
935 952 3.839432 GGGAAGACGGGAGAGCCG 61.839 72.222 0.00 0.00 33.83 5.52
936 953 3.839432 CGGGAAGACGGGAGAGCC 61.839 72.222 0.00 0.00 0.00 4.70
937 954 2.754658 TCGGGAAGACGGGAGAGC 60.755 66.667 0.00 0.00 0.00 4.09
1038 1089 1.618837 GAGGTGAGCTCTGGTGTGTTA 59.381 52.381 16.19 0.00 0.00 2.41
1285 1437 2.548480 GGAAGAACAGACAAAACGAGGG 59.452 50.000 0.00 0.00 0.00 4.30
1293 1456 3.888930 GGGAAACATGGAAGAACAGACAA 59.111 43.478 0.00 0.00 0.00 3.18
1307 1470 4.338879 CAAAGTCAGATCAGGGGAAACAT 58.661 43.478 0.00 0.00 0.00 2.71
1336 1500 1.672356 ACCATCTGCGCACAGGAAC 60.672 57.895 21.04 0.00 44.59 3.62
1338 1502 2.046988 CACCATCTGCGCACAGGA 60.047 61.111 21.04 12.07 44.59 3.86
1339 1503 2.359107 ACACCATCTGCGCACAGG 60.359 61.111 5.66 11.50 44.59 4.00
1892 2209 0.941463 GCATCTAGGTCCGTCATGCG 60.941 60.000 6.29 3.02 40.95 4.73
2122 2445 6.690194 AATTCTGACAAATAGCTCATGGAC 57.310 37.500 0.00 0.00 0.00 4.02
2141 2464 7.475771 TTTGGCAAATGAAACACAGTAATTC 57.524 32.000 8.93 0.00 0.00 2.17
2148 2471 5.273674 TCAGATTTGGCAAATGAAACACA 57.726 34.783 28.78 4.07 0.00 3.72
2170 2493 5.018809 AGGTAACATGAACAATCTTGGCAT 58.981 37.500 0.00 0.00 35.57 4.40
2177 2500 4.937620 TCAGAGCAGGTAACATGAACAATC 59.062 41.667 0.00 0.00 41.41 2.67
2178 2501 4.910195 TCAGAGCAGGTAACATGAACAAT 58.090 39.130 0.00 0.00 41.41 2.71
2179 2502 4.040339 TCTCAGAGCAGGTAACATGAACAA 59.960 41.667 0.00 0.00 41.41 2.83
2181 2504 4.180057 CTCTCAGAGCAGGTAACATGAAC 58.820 47.826 0.00 0.00 41.41 3.18
2182 2505 4.462508 CTCTCAGAGCAGGTAACATGAA 57.537 45.455 0.00 0.00 41.41 2.57
2205 2528 3.692257 ATTCTCCTTCCATATCCGCAG 57.308 47.619 0.00 0.00 0.00 5.18
2206 2529 3.390967 TCAATTCTCCTTCCATATCCGCA 59.609 43.478 0.00 0.00 0.00 5.69
2207 2530 3.999663 CTCAATTCTCCTTCCATATCCGC 59.000 47.826 0.00 0.00 0.00 5.54
2208 2531 5.474578 TCTCAATTCTCCTTCCATATCCG 57.525 43.478 0.00 0.00 0.00 4.18
2214 2537 9.182214 CAATTTTAGATCTCAATTCTCCTTCCA 57.818 33.333 0.00 0.00 0.00 3.53
2215 2538 9.401058 TCAATTTTAGATCTCAATTCTCCTTCC 57.599 33.333 0.00 0.00 0.00 3.46
2319 2730 0.110104 CATCCATCTCTTCCAGGCCC 59.890 60.000 0.00 0.00 0.00 5.80
2322 2733 2.372504 AGCATCATCCATCTCTTCCAGG 59.627 50.000 0.00 0.00 0.00 4.45
2325 2736 2.036992 ACGAGCATCATCCATCTCTTCC 59.963 50.000 0.00 0.00 33.17 3.46
2342 2753 2.584418 CTGCATCAGCCCGACGAG 60.584 66.667 0.00 0.00 41.13 4.18
2345 2756 1.812922 CTCACTGCATCAGCCCGAC 60.813 63.158 0.00 0.00 41.13 4.79
2350 2761 1.400846 CATTCACCTCACTGCATCAGC 59.599 52.381 0.00 0.00 42.57 4.26
2351 2762 2.014857 CCATTCACCTCACTGCATCAG 58.985 52.381 0.00 0.00 37.52 2.90
2360 2771 1.414550 TGTCACGTTCCATTCACCTCA 59.585 47.619 0.00 0.00 0.00 3.86
2364 2775 1.937223 TGTGTGTCACGTTCCATTCAC 59.063 47.619 0.00 0.00 37.14 3.18
2374 2785 2.209838 ACTGTTCTCTGTGTGTCACG 57.790 50.000 0.00 0.00 37.14 4.35
2375 2786 3.491267 GCTTACTGTTCTCTGTGTGTCAC 59.509 47.826 0.00 0.00 34.56 3.67
2376 2787 3.384789 AGCTTACTGTTCTCTGTGTGTCA 59.615 43.478 0.00 0.00 0.00 3.58
2377 2788 3.983741 AGCTTACTGTTCTCTGTGTGTC 58.016 45.455 0.00 0.00 0.00 3.67
2381 2804 6.326375 CCTAGTTAGCTTACTGTTCTCTGTG 58.674 44.000 15.47 0.00 0.00 3.66
2388 2811 2.830321 ACGGCCTAGTTAGCTTACTGTT 59.170 45.455 15.47 0.00 0.00 3.16
2405 2828 3.211963 GGCATCACCATGGACGGC 61.212 66.667 21.47 15.55 38.86 5.68
2614 3055 2.474712 GTTTCGGAAGCGCGGAAG 59.525 61.111 8.83 0.00 37.18 3.46
2638 3079 3.730761 CACGCTTGCTGCCCACTC 61.731 66.667 0.00 0.00 38.78 3.51
2666 3107 1.817447 GCCACTCCTGTAGAACGTACT 59.183 52.381 0.00 0.00 0.00 2.73
2670 3111 3.251571 GTTTAGCCACTCCTGTAGAACG 58.748 50.000 0.00 0.00 0.00 3.95
2791 3232 1.388547 TTGTCAAGTCCTGCCACAAC 58.611 50.000 0.00 0.00 0.00 3.32
2794 3235 4.278419 AGTTTTATTGTCAAGTCCTGCCAC 59.722 41.667 0.00 0.00 0.00 5.01
2811 3252 5.475220 CCCCACATGTCATACACAAGTTTTA 59.525 40.000 0.00 0.00 38.97 1.52
2817 3259 3.153130 CAACCCCACATGTCATACACAA 58.847 45.455 0.00 0.00 38.97 3.33
2885 3327 4.160626 CACTTTCTTAGCCTAGCCTAGTGT 59.839 45.833 0.00 0.00 0.00 3.55
2894 3336 3.609853 CATGCCACACTTTCTTAGCCTA 58.390 45.455 0.00 0.00 0.00 3.93
2895 3337 2.440409 CATGCCACACTTTCTTAGCCT 58.560 47.619 0.00 0.00 0.00 4.58
2896 3338 1.135286 GCATGCCACACTTTCTTAGCC 60.135 52.381 6.36 0.00 0.00 3.93
2897 3339 1.135286 GGCATGCCACACTTTCTTAGC 60.135 52.381 32.08 0.00 35.81 3.09
2949 3392 4.635765 CACTGACTTGAACCTTCAGTTTCA 59.364 41.667 0.71 0.00 46.23 2.69
2950 3393 4.636206 ACACTGACTTGAACCTTCAGTTTC 59.364 41.667 0.71 0.00 46.23 2.78
2951 3394 4.589908 ACACTGACTTGAACCTTCAGTTT 58.410 39.130 0.71 0.00 46.23 2.66
2952 3395 4.192317 GACACTGACTTGAACCTTCAGTT 58.808 43.478 0.71 0.00 46.23 3.16
2954 3397 2.797156 CGACACTGACTTGAACCTTCAG 59.203 50.000 0.00 0.00 42.17 3.02


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

AutoCloner maintained by Alex Coulton.