Multiple sequence alignment - TraesCS5B01G308900

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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 TraesCS5B01G308900 chr5B 100.000 2749 0 0 1 2749 491573700 491570952 0.000000e+00 5077
1 TraesCS5B01G308900 chr5D 92.739 2727 129 23 58 2749 409881768 409879076 0.000000e+00 3875
2 TraesCS5B01G308900 chr5D 88.000 200 13 5 1897 2093 409879735 409879544 2.750000e-55 226
3 TraesCS5B01G308900 chr5A 90.831 2694 153 45 58 2709 521010106 521007465 0.000000e+00 3520
4 TraesCS5B01G308900 chr5A 89.080 174 13 4 2111 2283 521008229 521008061 7.710000e-51 211


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 TraesCS5B01G308900 chr5B 491570952 491573700 2748 True 5077.0 5077 100.0000 1 2749 1 chr5B.!!$R1 2748
1 TraesCS5B01G308900 chr5D 409879076 409881768 2692 True 2050.5 3875 90.3695 58 2749 2 chr5D.!!$R1 2691
2 TraesCS5B01G308900 chr5A 521007465 521010106 2641 True 1865.5 3520 89.9555 58 2709 2 chr5A.!!$R1 2651

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
292 296 0.302890 CGCATTTCTAAGCCTCTGCG 59.697 55.0 0.11 0.11 45.05 5.18 F
1332 1377 0.108424 CTGCTTCCTGGAACTCCTCG 60.108 60.0 4.68 0.00 36.82 4.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1534 1579 0.398239 CCTCCTCCTCCTGATCAGCA 60.398 60.0 17.76 0.58 0.0 4.41 R
2163 2227 0.610785 CCGGCCACCCAAATACTTGT 60.611 55.0 2.24 0.00 0.0 3.16 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 9.575783 TTATTTTCTTTTTATCGTGGTATTGCC 57.424 29.630 0.00 0.00 37.90 4.52
35 36 6.576662 TTTCTTTTTATCGTGGTATTGCCA 57.423 33.333 0.00 0.00 46.95 4.92
47 48 5.611128 TGGTATTGCCATGCATTAATTGT 57.389 34.783 0.00 0.00 43.61 2.71
48 49 5.358090 TGGTATTGCCATGCATTAATTGTG 58.642 37.500 0.00 0.00 43.61 3.33
49 50 5.105023 TGGTATTGCCATGCATTAATTGTGT 60.105 36.000 0.00 0.00 43.61 3.72
50 51 6.097412 TGGTATTGCCATGCATTAATTGTGTA 59.903 34.615 0.00 0.00 43.61 2.90
51 52 7.153985 GGTATTGCCATGCATTAATTGTGTAT 58.846 34.615 0.00 0.00 38.76 2.29
52 53 7.329226 GGTATTGCCATGCATTAATTGTGTATC 59.671 37.037 0.00 0.00 38.76 2.24
53 54 5.848833 TGCCATGCATTAATTGTGTATCA 57.151 34.783 0.00 0.00 31.71 2.15
54 55 6.408107 TGCCATGCATTAATTGTGTATCAT 57.592 33.333 0.00 0.00 31.71 2.45
55 56 7.521871 TGCCATGCATTAATTGTGTATCATA 57.478 32.000 0.00 0.00 31.71 2.15
56 57 7.369607 TGCCATGCATTAATTGTGTATCATAC 58.630 34.615 0.00 0.00 31.71 2.39
79 80 6.058183 ACAGTTATGCATTCCTTAGATCCAC 58.942 40.000 3.54 0.00 0.00 4.02
91 92 2.839486 AGATCCACATCAACGTGTGT 57.161 45.000 6.32 0.00 46.21 3.72
98 99 3.125146 CCACATCAACGTGTGTCCATTAG 59.875 47.826 6.32 0.00 46.21 1.73
213 217 1.313812 CGGTCTAACTCGCTCCCTGT 61.314 60.000 0.00 0.00 0.00 4.00
227 231 1.557269 CCCTGTGAGCCTAGCCAACT 61.557 60.000 0.00 0.00 0.00 3.16
254 258 2.703007 ACACCAATAGATCTGAGGCTCC 59.297 50.000 12.86 0.00 0.00 4.70
264 268 2.956132 TCTGAGGCTCCAGGAGAATAG 58.044 52.381 21.89 11.66 34.99 1.73
267 271 3.237746 TGAGGCTCCAGGAGAATAGATG 58.762 50.000 21.89 0.00 0.00 2.90
288 292 2.605366 GTCAGTCGCATTTCTAAGCCTC 59.395 50.000 0.00 0.00 0.00 4.70
292 296 0.302890 CGCATTTCTAAGCCTCTGCG 59.697 55.000 0.11 0.11 45.05 5.18
312 316 3.860536 GCGTCCTCATTTCTGAGTTACTC 59.139 47.826 5.27 5.27 46.33 2.59
316 320 6.183360 CGTCCTCATTTCTGAGTTACTCCATA 60.183 42.308 10.10 0.00 46.33 2.74
332 336 2.673862 TCCATACATAACGTGCAAACCG 59.326 45.455 0.00 0.00 0.00 4.44
337 341 2.614983 ACATAACGTGCAAACCGAAACT 59.385 40.909 1.86 0.00 0.00 2.66
383 387 0.527817 GCAATTCCATGCTCAGCAGC 60.528 55.000 5.13 0.00 43.65 5.25
428 433 5.473504 TGACTGATTAAAGGAAGAGTTTGCC 59.526 40.000 0.00 0.00 0.00 4.52
458 463 9.755804 TGCAAGAGAGAAATAATCACTAGTATG 57.244 33.333 0.00 0.00 0.00 2.39
466 471 2.354109 ATCACTAGTATGCATCGCGG 57.646 50.000 6.13 0.00 0.00 6.46
674 682 1.372004 CATGCACGCCAACACCTTG 60.372 57.895 0.00 0.00 0.00 3.61
804 812 0.823356 TGCACTGGTTTCTTGGAGGC 60.823 55.000 0.00 0.00 0.00 4.70
813 821 1.656587 TTCTTGGAGGCTGGAGCTTA 58.343 50.000 0.00 0.00 41.70 3.09
838 846 4.148128 TCCCTGCTGAAATGATTCTCTC 57.852 45.455 0.00 0.00 36.48 3.20
852 860 4.537688 TGATTCTCTCCTTTTGTCCTCCAT 59.462 41.667 0.00 0.00 0.00 3.41
853 861 4.559862 TTCTCTCCTTTTGTCCTCCATC 57.440 45.455 0.00 0.00 0.00 3.51
854 862 2.840651 TCTCTCCTTTTGTCCTCCATCC 59.159 50.000 0.00 0.00 0.00 3.51
855 863 1.916181 TCTCCTTTTGTCCTCCATCCC 59.084 52.381 0.00 0.00 0.00 3.85
906 914 1.207593 GGTGTCTCGTGTGCAATGC 59.792 57.895 0.00 0.00 0.00 3.56
925 933 1.886253 CGCCATGGCATCCAAAACCA 61.886 55.000 34.93 0.00 42.06 3.67
962 970 7.095649 CGCATCGATTTTTATCCATTCACTCTA 60.096 37.037 0.00 0.00 0.00 2.43
1039 1059 2.320671 TGGATCCCTTGGTCCATGG 58.679 57.895 15.60 15.60 39.51 3.66
1052 1072 1.835267 CCATGGTGGGCATGATGGG 60.835 63.158 2.57 0.00 33.06 4.00
1072 1092 2.514824 GGAACGCCTGCCTCCATC 60.515 66.667 1.12 0.00 0.00 3.51
1075 1095 2.932130 GAACGCCTGCCTCCATCTCC 62.932 65.000 0.00 0.00 0.00 3.71
1076 1096 3.160047 CGCCTGCCTCCATCTCCT 61.160 66.667 0.00 0.00 0.00 3.69
1077 1097 1.834378 CGCCTGCCTCCATCTCCTA 60.834 63.158 0.00 0.00 0.00 2.94
1079 1099 0.612744 GCCTGCCTCCATCTCCTATC 59.387 60.000 0.00 0.00 0.00 2.08
1147 1173 2.194889 TGTGTGCATGCACCACCAG 61.195 57.895 40.01 0.00 45.63 4.00
1182 1208 4.320456 CACCACGGCAGGCTCACT 62.320 66.667 0.00 0.00 0.00 3.41
1183 1209 4.008933 ACCACGGCAGGCTCACTC 62.009 66.667 0.00 0.00 0.00 3.51
1184 1210 4.007644 CCACGGCAGGCTCACTCA 62.008 66.667 0.00 0.00 0.00 3.41
1185 1211 2.740055 CACGGCAGGCTCACTCAC 60.740 66.667 0.00 0.00 0.00 3.51
1190 1216 0.539051 GGCAGGCTCACTCACATACT 59.461 55.000 0.00 0.00 0.00 2.12
1198 1224 1.814394 TCACTCACATACTTACGGCGT 59.186 47.619 19.64 19.64 0.00 5.68
1332 1377 0.108424 CTGCTTCCTGGAACTCCTCG 60.108 60.000 4.68 0.00 36.82 4.63
1445 1490 5.183904 AGCATGTTTCTGTTCCAGATTAACC 59.816 40.000 0.00 0.00 40.39 2.85
1516 1561 1.017387 GCTTACATGCAGCTACACCC 58.983 55.000 9.74 0.00 34.15 4.61
1522 1567 0.532862 ATGCAGCTACACCCGTATGC 60.533 55.000 0.00 0.00 35.20 3.14
1534 1579 3.945285 CACCCGTATGCTTTCAGGTTAAT 59.055 43.478 0.00 0.00 0.00 1.40
1823 1883 1.279271 GGTGTGTTGATGGTAGCTCCT 59.721 52.381 0.00 0.00 37.07 3.69
1867 1927 4.135306 CTGGCTGATGATCTGTGCTTATT 58.865 43.478 1.32 0.00 0.00 1.40
1876 1936 4.571984 TGATCTGTGCTTATTGATCAACCG 59.428 41.667 11.07 3.26 41.25 4.44
1987 2047 6.863126 CAGGGATTAGTTAGCAAGTTTTTGTG 59.137 38.462 0.00 0.00 36.65 3.33
2065 2127 2.363306 AGGGCAAACATGTCAACTCA 57.637 45.000 0.00 0.00 0.00 3.41
2121 2183 1.548081 TGTGGCTTGATCATGGTTGG 58.452 50.000 10.35 0.00 0.00 3.77
2169 2233 8.364894 TGAAGTGCAGAGATTAGTTAACAAGTA 58.635 33.333 8.61 0.00 0.00 2.24
2174 2238 8.946085 TGCAGAGATTAGTTAACAAGTATTTGG 58.054 33.333 8.61 0.00 38.66 3.28
2175 2239 8.398665 GCAGAGATTAGTTAACAAGTATTTGGG 58.601 37.037 8.61 0.00 38.66 4.12
2180 2244 3.830178 AGTTAACAAGTATTTGGGTGGCC 59.170 43.478 8.61 0.00 38.66 5.36
2186 2250 2.305607 TATTTGGGTGGCCGGCTCT 61.306 57.895 28.56 6.28 0.00 4.09
2187 2251 1.858739 TATTTGGGTGGCCGGCTCTT 61.859 55.000 28.56 5.45 0.00 2.85
2526 2590 5.375417 GCAATGCATTATATGTGCCAGTA 57.625 39.130 12.53 0.00 41.83 2.74
2542 2609 6.929049 TGTGCCAGTATAATATCTACAACTGC 59.071 38.462 0.00 0.00 34.41 4.40
2546 2613 7.543868 GCCAGTATAATATCTACAACTGCAGAG 59.456 40.741 23.35 14.90 34.41 3.35
2587 2654 2.140923 CGGCAAAAATCGCAACACC 58.859 52.632 0.00 0.00 0.00 4.16
2588 2655 0.596083 CGGCAAAAATCGCAACACCA 60.596 50.000 0.00 0.00 0.00 4.17
2632 2699 5.479716 TCTTCTTCGGAACAAGAACAAAC 57.520 39.130 6.05 0.00 37.45 2.93
2646 2713 6.488344 ACAAGAACAAACAAACCCAAAACAAT 59.512 30.769 0.00 0.00 0.00 2.71
2663 2730 5.567138 AACAATTACTATCACCAAGCTGC 57.433 39.130 0.00 0.00 0.00 5.25
2669 2736 0.459899 TATCACCAAGCTGCGACGAT 59.540 50.000 0.00 0.00 0.00 3.73
2732 2799 7.112779 ACAACAAATGGAGCTAAGCTTATACT 58.887 34.615 6.64 7.73 39.88 2.12
2744 2811 9.771140 AGCTAAGCTTATACTAGTAATACCCAT 57.229 33.333 6.64 0.00 33.89 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 9.575783 GGCAATACCACGATAAAAAGAAAATAA 57.424 29.630 0.00 0.00 38.86 1.40
9 10 8.740906 TGGCAATACCACGATAAAAAGAAAATA 58.259 29.630 0.00 0.00 46.36 1.40
10 11 7.607250 TGGCAATACCACGATAAAAAGAAAAT 58.393 30.769 0.00 0.00 46.36 1.82
11 12 6.982852 TGGCAATACCACGATAAAAAGAAAA 58.017 32.000 0.00 0.00 46.36 2.29
12 13 6.576662 TGGCAATACCACGATAAAAAGAAA 57.423 33.333 0.00 0.00 46.36 2.52
26 27 5.358922 ACACAATTAATGCATGGCAATACC 58.641 37.500 0.00 0.00 43.62 2.73
27 28 7.866898 TGATACACAATTAATGCATGGCAATAC 59.133 33.333 0.00 0.00 43.62 1.89
28 29 7.949434 TGATACACAATTAATGCATGGCAATA 58.051 30.769 0.00 0.00 43.62 1.90
29 30 6.818233 TGATACACAATTAATGCATGGCAAT 58.182 32.000 0.00 0.00 43.62 3.56
30 31 6.218108 TGATACACAATTAATGCATGGCAA 57.782 33.333 0.00 0.00 43.62 4.52
31 32 5.848833 TGATACACAATTAATGCATGGCA 57.151 34.783 0.00 0.00 44.86 4.92
32 33 7.369607 TGTATGATACACAATTAATGCATGGC 58.630 34.615 0.00 0.00 32.89 4.40
33 34 8.570488 ACTGTATGATACACAATTAATGCATGG 58.430 33.333 0.00 0.00 34.46 3.66
34 35 9.955208 AACTGTATGATACACAATTAATGCATG 57.045 29.630 0.00 0.00 34.46 4.06
43 44 8.786898 GGAATGCATAACTGTATGATACACAAT 58.213 33.333 0.00 0.00 39.72 2.71
44 45 7.992608 AGGAATGCATAACTGTATGATACACAA 59.007 33.333 0.00 0.00 39.72 3.33
45 46 7.508687 AGGAATGCATAACTGTATGATACACA 58.491 34.615 0.00 0.00 39.72 3.72
46 47 7.969536 AGGAATGCATAACTGTATGATACAC 57.030 36.000 0.00 0.00 39.72 2.90
47 48 9.710900 CTAAGGAATGCATAACTGTATGATACA 57.289 33.333 0.00 5.05 39.72 2.29
48 49 9.929180 TCTAAGGAATGCATAACTGTATGATAC 57.071 33.333 0.00 0.00 39.72 2.24
50 51 9.664332 GATCTAAGGAATGCATAACTGTATGAT 57.336 33.333 0.00 4.11 39.72 2.45
51 52 8.097038 GGATCTAAGGAATGCATAACTGTATGA 58.903 37.037 0.00 0.00 39.72 2.15
52 53 7.879677 TGGATCTAAGGAATGCATAACTGTATG 59.120 37.037 0.00 0.00 40.23 2.39
53 54 7.880195 GTGGATCTAAGGAATGCATAACTGTAT 59.120 37.037 0.00 0.00 0.00 2.29
54 55 7.147567 TGTGGATCTAAGGAATGCATAACTGTA 60.148 37.037 0.00 0.00 0.00 2.74
55 56 6.058183 GTGGATCTAAGGAATGCATAACTGT 58.942 40.000 0.00 0.00 0.00 3.55
56 57 6.057533 TGTGGATCTAAGGAATGCATAACTG 58.942 40.000 0.00 0.00 0.00 3.16
65 66 5.118990 CACGTTGATGTGGATCTAAGGAAT 58.881 41.667 0.00 0.00 36.20 3.01
79 80 5.605564 TTTCTAATGGACACACGTTGATG 57.394 39.130 5.01 0.00 0.00 3.07
104 106 2.379972 CTAGTTCCAGATGGTCTCGGT 58.620 52.381 0.00 0.00 36.34 4.69
194 198 1.313812 ACAGGGAGCGAGTTAGACCG 61.314 60.000 0.00 0.00 0.00 4.79
210 214 0.392193 CCAGTTGGCTAGGCTCACAG 60.392 60.000 18.18 10.58 0.00 3.66
213 217 1.538876 ACCCAGTTGGCTAGGCTCA 60.539 57.895 18.18 0.96 37.83 4.26
227 231 3.449918 TCAGATCTATTGGTGTCACCCA 58.550 45.455 19.57 9.07 37.50 4.51
254 258 3.067320 TGCGACTGACATCTATTCTCCTG 59.933 47.826 0.00 0.00 0.00 3.86
264 268 3.001736 GGCTTAGAAATGCGACTGACATC 59.998 47.826 0.00 0.00 0.00 3.06
267 271 2.605366 GAGGCTTAGAAATGCGACTGAC 59.395 50.000 0.00 0.00 0.00 3.51
288 292 2.376808 ACTCAGAAATGAGGACGCAG 57.623 50.000 9.85 0.00 40.08 5.18
292 296 5.407407 TGGAGTAACTCAGAAATGAGGAC 57.593 43.478 9.85 7.19 40.08 3.85
312 316 2.673862 TCGGTTTGCACGTTATGTATGG 59.326 45.455 0.00 0.00 0.00 2.74
316 320 2.614983 AGTTTCGGTTTGCACGTTATGT 59.385 40.909 0.00 0.00 0.00 2.29
332 336 9.562583 CTTTAGTGAGATGTGAGTAGTAGTTTC 57.437 37.037 0.00 0.00 0.00 2.78
337 341 9.682465 ATGTACTTTAGTGAGATGTGAGTAGTA 57.318 33.333 0.00 0.00 0.00 1.82
383 387 5.173131 GTCACTAAAAAGTTGGAATTGTGCG 59.827 40.000 0.00 0.00 0.00 5.34
428 433 9.932699 CTAGTGATTATTTCTCTCTTGCAATTG 57.067 33.333 0.00 0.00 30.95 2.32
442 447 5.348724 CCGCGATGCATACTAGTGATTATTT 59.651 40.000 8.23 0.00 0.00 1.40
458 463 1.512734 CACTTGCTTTCCGCGATGC 60.513 57.895 8.23 6.67 43.27 3.91
543 551 1.227999 TTGCTCCTGCGGTTTCTTCG 61.228 55.000 0.00 0.00 43.34 3.79
674 682 4.376146 GGAGTATCATTGAGACTTGAGCC 58.624 47.826 14.70 8.02 34.07 4.70
804 812 0.463474 GCAGGGAAGCTAAGCTCCAG 60.463 60.000 4.59 0.00 38.25 3.86
813 821 5.167621 GAGAATCATTTCAGCAGGGAAGCT 61.168 45.833 0.00 0.00 39.75 3.74
838 846 1.957113 GCTGGGATGGAGGACAAAAGG 60.957 57.143 0.00 0.00 0.00 3.11
855 863 4.457496 ACATGGACGGCGAGGCTG 62.457 66.667 16.62 8.32 41.29 4.85
906 914 1.153588 GGTTTTGGATGCCATGGCG 60.154 57.895 30.87 0.00 45.51 5.69
971 979 7.362662 GCACACAATCTCATCTCAAAAGTAAA 58.637 34.615 0.00 0.00 0.00 2.01
1039 1059 1.936767 TTCCTCCCCATCATGCCCAC 61.937 60.000 0.00 0.00 0.00 4.61
1072 1092 4.347360 TGCATGTGAAGGATGATAGGAG 57.653 45.455 0.00 0.00 0.00 3.69
1075 1095 4.215613 CACCATGCATGTGAAGGATGATAG 59.784 45.833 24.58 7.48 37.02 2.08
1076 1096 4.139038 CACCATGCATGTGAAGGATGATA 58.861 43.478 24.58 0.00 37.02 2.15
1077 1097 2.956333 CACCATGCATGTGAAGGATGAT 59.044 45.455 24.58 0.00 37.02 2.45
1079 1099 2.097036 ACACCATGCATGTGAAGGATG 58.903 47.619 24.58 9.57 34.97 3.51
1147 1173 3.630312 TGGTGAGCTTTAGGTGTTTTGTC 59.370 43.478 0.00 0.00 0.00 3.18
1182 1208 3.247442 CTTTGACGCCGTAAGTATGTGA 58.753 45.455 0.00 0.00 0.00 3.58
1183 1209 2.222729 GCTTTGACGCCGTAAGTATGTG 60.223 50.000 0.00 0.00 0.00 3.21
1184 1210 1.997606 GCTTTGACGCCGTAAGTATGT 59.002 47.619 0.00 0.00 0.00 2.29
1185 1211 1.326548 GGCTTTGACGCCGTAAGTATG 59.673 52.381 0.00 0.00 40.79 2.39
1198 1224 2.978156 AGGTGGATCTTTGGCTTTGA 57.022 45.000 0.00 0.00 0.00 2.69
1253 1298 1.494721 AGGAGCTCAAGGTGTTTGGAA 59.505 47.619 17.19 0.00 37.39 3.53
1255 1300 1.202806 TGAGGAGCTCAAGGTGTTTGG 60.203 52.381 17.19 0.00 37.57 3.28
1332 1377 1.376553 GAAGAGCACACCAGGAGGC 60.377 63.158 0.00 0.00 39.06 4.70
1445 1490 1.226101 CATTGCTGCCGCTGTTACG 60.226 57.895 0.70 0.00 36.97 3.18
1516 1561 4.332543 TCAGCATTAACCTGAAAGCATACG 59.667 41.667 5.44 0.00 36.46 3.06
1522 1567 5.188434 TCCTGATCAGCATTAACCTGAAAG 58.812 41.667 17.76 10.74 42.12 2.62
1534 1579 0.398239 CCTCCTCCTCCTGATCAGCA 60.398 60.000 17.76 0.58 0.00 4.41
1634 1688 2.405594 CGGAGCCTCTCGTTCTCG 59.594 66.667 0.00 0.00 38.55 4.04
1755 1809 2.359975 CCACCAAGGAGAACGGCC 60.360 66.667 0.00 0.00 41.22 6.13
1823 1883 1.304381 GCCATCTCCAACAGGCCAA 60.304 57.895 5.01 0.00 41.25 4.52
1876 1936 4.929819 TTAGGTCCAAGAAAAACCTTGC 57.070 40.909 0.00 0.00 40.53 4.01
1987 2047 2.362077 TCTTTTCAAAAGAGCCAGCCAC 59.638 45.455 8.60 0.00 0.00 5.01
2140 2202 6.868864 TGTTAACTAATCTCTGCACTTCAGAC 59.131 38.462 7.22 0.00 46.34 3.51
2161 2225 2.438411 CGGCCACCCAAATACTTGTTA 58.562 47.619 2.24 0.00 0.00 2.41
2163 2227 0.610785 CCGGCCACCCAAATACTTGT 60.611 55.000 2.24 0.00 0.00 3.16
2169 2233 2.730129 AAAGAGCCGGCCACCCAAAT 62.730 55.000 26.15 0.00 0.00 2.32
2217 2281 3.582780 CCTTTTGATCAAAGCTGCCTTC 58.417 45.455 19.64 0.00 40.75 3.46
2481 2545 7.592938 TGCCAGTAACATTCATCAAAGTAAAG 58.407 34.615 0.00 0.00 0.00 1.85
2526 2590 6.268617 TCAGGCTCTGCAGTTGTAGATATTAT 59.731 38.462 14.67 0.00 36.24 1.28
2542 2609 3.415212 TGGAAGTTTGATTCAGGCTCTG 58.585 45.455 0.00 0.00 0.00 3.35
2546 2613 4.248058 CCATTTGGAAGTTTGATTCAGGC 58.752 43.478 0.00 0.00 37.39 4.85
2632 2699 7.437748 TGGTGATAGTAATTGTTTTGGGTTTG 58.562 34.615 0.00 0.00 0.00 2.93
2646 2713 2.734175 CGTCGCAGCTTGGTGATAGTAA 60.734 50.000 3.84 0.00 0.00 2.24
2663 2730 0.739813 GACTGTTTCCCCCATCGTCG 60.740 60.000 0.00 0.00 0.00 5.12
2669 2736 0.696143 TGACCTGACTGTTTCCCCCA 60.696 55.000 0.00 0.00 0.00 4.96


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

AutoCloner maintained by Alex Coulton.