Multiple sequence alignment - TraesCS5D01G150700

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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 TraesCS5D01G150700 chr5D 100.000 4068 0 0 1 4068 239939217 239943284 0.000000e+00 7513
1 TraesCS5D01G150700 chr5B 97.560 1844 44 1 53 1896 263547788 263545946 0.000000e+00 3155
2 TraesCS5D01G150700 chr5B 96.392 776 18 8 1914 2680 263545961 263545187 0.000000e+00 1269
3 TraesCS5D01G150700 chr5B 91.558 616 36 6 2728 3342 263545192 263544592 0.000000e+00 835
4 TraesCS5D01G150700 chr5B 88.030 401 24 11 3412 3805 263544568 263544185 1.720000e-123 453
5 TraesCS5D01G150700 chr5B 89.879 247 20 4 3800 4045 263544105 263543863 3.050000e-81 313
6 TraesCS5D01G150700 chr5A 95.833 1896 56 6 1 1896 313907614 313905742 0.000000e+00 3042
7 TraesCS5D01G150700 chr5A 93.698 1444 64 17 1914 3342 313905757 313904326 0.000000e+00 2137
8 TraesCS5D01G150700 chr5A 93.167 600 16 8 3476 4066 313904271 313903688 0.000000e+00 857
9 TraesCS5D01G150700 chr1A 83.117 154 16 4 86 230 281893471 281893623 9.170000e-27 132


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 TraesCS5D01G150700 chr5D 239939217 239943284 4067 False 7513 7513 100.000000 1 4068 1 chr5D.!!$F1 4067
1 TraesCS5D01G150700 chr5B 263543863 263547788 3925 True 1205 3155 92.683800 53 4045 5 chr5B.!!$R1 3992
2 TraesCS5D01G150700 chr5A 313903688 313907614 3926 True 2012 3042 94.232667 1 4066 3 chr5A.!!$R1 4065

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
427 428 0.798776 AGTTATTCGTGCAGCACAGC 59.201 50.000 25.19 7.78 33.4 4.40 F
1437 1438 1.066929 CAAAGGGCTGGCATTGTTACC 60.067 52.381 0.82 0.00 0.0 2.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1953 1954 0.253044 GCTAACTGGACCATGCTCCA 59.747 55.0 9.43 9.43 38.05 3.86 R
3422 3440 0.034896 TTCCCACCGAAAGACTCTGC 59.965 55.0 0.00 0.00 0.00 4.26 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
88 89 6.518516 TTTTCTTTAACTTACCCCTCCTGA 57.481 37.500 0.00 0.00 0.00 3.86
101 102 5.024118 ACCCCTCCTGATAATAATCTACCG 58.976 45.833 0.00 0.00 32.93 4.02
125 126 6.089551 CGAATGTTAGTCCAGTACTCAGTTTG 59.910 42.308 0.00 0.00 39.80 2.93
138 139 2.051345 GTTTGTGACTTGGGCGCG 60.051 61.111 0.00 0.00 0.00 6.86
248 249 4.637534 ACTCATGTGTACATTCCATGAAGC 59.362 41.667 21.35 0.00 43.03 3.86
373 374 1.702182 TTGGCTTGCTGACCATTTGA 58.298 45.000 0.00 0.00 35.42 2.69
374 375 1.250328 TGGCTTGCTGACCATTTGAG 58.750 50.000 0.00 0.00 0.00 3.02
427 428 0.798776 AGTTATTCGTGCAGCACAGC 59.201 50.000 25.19 7.78 33.40 4.40
489 490 4.037208 CCTCACTGGTGCCATATGAATTTC 59.963 45.833 3.65 0.00 0.00 2.17
587 588 5.507637 TGTACCTTTCCTGTTGTTTGGTTA 58.492 37.500 0.00 0.00 0.00 2.85
631 632 1.282157 GGGTCAGGATAAGGTTGCACT 59.718 52.381 0.00 0.00 0.00 4.40
884 885 4.336433 GCAGTAAGATTGCCTGCTTGAATA 59.664 41.667 3.75 0.00 46.23 1.75
976 977 6.974932 ACAACTGATCATCAATAGTGTCAC 57.025 37.500 0.00 0.00 0.00 3.67
1227 1228 1.457346 CTGGGAATTCAGGCAGTCAC 58.543 55.000 7.93 0.00 0.00 3.67
1284 1285 2.114670 CATTACTGTGCCCCTGCCG 61.115 63.158 0.00 0.00 36.33 5.69
1318 1319 5.634118 AGACAGTGGATGAAATTTGGAGAA 58.366 37.500 0.00 0.00 0.00 2.87
1350 1351 4.338118 CAGGAAGAGGAGAGTAGTGATGAC 59.662 50.000 0.00 0.00 0.00 3.06
1437 1438 1.066929 CAAAGGGCTGGCATTGTTACC 60.067 52.381 0.82 0.00 0.00 2.85
1569 1570 4.619437 TGCGTATATTGTACGTCAGTCA 57.381 40.909 13.41 1.56 42.35 3.41
1682 1683 6.918067 TTCTGATCTTCAAAGTCCTAGTCA 57.082 37.500 0.00 0.00 0.00 3.41
1798 1799 8.360390 CAAGAGCTAGGAAACAGGTTTATTTTT 58.640 33.333 0.00 0.00 32.11 1.94
1851 1852 9.152595 ACTATAGAACTTGTTTAGCACTTTAGC 57.847 33.333 6.78 0.00 0.00 3.09
1901 1902 6.651975 AGAAACATACTAATAGAGACCCCG 57.348 41.667 0.00 0.00 0.00 5.73
1902 1903 4.868314 AACATACTAATAGAGACCCCGC 57.132 45.455 0.00 0.00 0.00 6.13
1903 1904 3.840991 ACATACTAATAGAGACCCCGCA 58.159 45.455 0.00 0.00 0.00 5.69
1904 1905 4.220724 ACATACTAATAGAGACCCCGCAA 58.779 43.478 0.00 0.00 0.00 4.85
1905 1906 4.652421 ACATACTAATAGAGACCCCGCAAA 59.348 41.667 0.00 0.00 0.00 3.68
1906 1907 5.129815 ACATACTAATAGAGACCCCGCAAAA 59.870 40.000 0.00 0.00 0.00 2.44
1907 1908 4.563140 ACTAATAGAGACCCCGCAAAAA 57.437 40.909 0.00 0.00 0.00 1.94
1951 1952 6.488715 AGGAAAAGGTGAATTAGCTCTCATT 58.511 36.000 0.00 0.00 35.72 2.57
1953 1954 7.452813 AGGAAAAGGTGAATTAGCTCTCATTTT 59.547 33.333 0.00 0.00 36.24 1.82
2078 2079 5.822519 TCTGCACAAGAACAGAACTAACATT 59.177 36.000 0.00 0.00 39.89 2.71
2137 2139 5.828299 TTGCCTATTTGCACCTACATAAC 57.172 39.130 0.00 0.00 41.88 1.89
2211 2213 7.730364 ACTACACCATAATATGTTAGCTTGC 57.270 36.000 0.00 0.00 0.00 4.01
2284 2286 9.753674 TTCTGTTCTGGGTTTATCTTAATTCAT 57.246 29.630 0.00 0.00 0.00 2.57
2285 2287 9.753674 TCTGTTCTGGGTTTATCTTAATTCATT 57.246 29.630 0.00 0.00 0.00 2.57
2314 2316 8.097038 AGCACTGGGTATATCACTTTGTATATG 58.903 37.037 0.00 0.00 0.00 1.78
2438 2441 5.133660 AGGCTGAAGAGAGAGAAGGTAGATA 59.866 44.000 0.00 0.00 0.00 1.98
2604 2612 7.437748 CCCTGTTTCACCAAATAATTTACACA 58.562 34.615 0.00 0.00 0.00 3.72
2827 2840 0.250295 TGCCTCTTGAGTTTCCCACG 60.250 55.000 0.00 0.00 0.00 4.94
2910 2923 3.065786 TGCTGCTATGTGCTATTGAAAGC 59.934 43.478 0.00 0.00 43.37 3.51
2980 2994 2.761559 ACGATGTTTCACCACATTCGA 58.238 42.857 0.00 0.00 37.52 3.71
3087 3101 3.611766 ATTGTGTGTAGAGTACAGGCC 57.388 47.619 0.00 0.00 39.77 5.19
3107 3121 3.879892 GCCTCTGGTAGATTTTGATCACC 59.120 47.826 0.00 0.00 0.00 4.02
3140 3154 2.035961 TCCTCGCATGTAACTATGGAGC 59.964 50.000 0.00 0.00 30.54 4.70
3181 3195 5.163550 GCTTGTAATTTGTAAAGGCCTAGGG 60.164 44.000 5.16 0.00 0.00 3.53
3215 3229 0.602905 GTGAAATATCCTCCCGGCCG 60.603 60.000 21.04 21.04 0.00 6.13
3264 3279 5.581126 TCTTTCAAATATTCTTGCGGCAT 57.419 34.783 2.28 0.00 0.00 4.40
3272 3287 3.282157 CTTGCGGCATGGATCCCG 61.282 66.667 9.90 6.52 46.94 5.14
3278 3293 1.227853 GGCATGGATCCCGGTGTAC 60.228 63.158 9.90 0.40 0.00 2.90
3342 3360 1.450025 GCTGTTGTAACCTGTAGCCC 58.550 55.000 0.00 0.00 0.00 5.19
3344 3362 0.694196 TGTTGTAACCTGTAGCCCCC 59.306 55.000 0.00 0.00 0.00 5.40
3346 3364 1.065636 GTTGTAACCTGTAGCCCCCTC 60.066 57.143 0.00 0.00 0.00 4.30
3347 3365 0.619543 TGTAACCTGTAGCCCCCTCC 60.620 60.000 0.00 0.00 0.00 4.30
3348 3366 0.619543 GTAACCTGTAGCCCCCTCCA 60.620 60.000 0.00 0.00 0.00 3.86
3349 3367 0.326238 TAACCTGTAGCCCCCTCCAG 60.326 60.000 0.00 0.00 0.00 3.86
3352 3370 1.341156 CCTGTAGCCCCCTCCAGAAG 61.341 65.000 0.00 0.00 27.07 2.85
3354 3372 0.178873 TGTAGCCCCCTCCAGAAGTT 60.179 55.000 0.00 0.00 0.00 2.66
3355 3373 0.992695 GTAGCCCCCTCCAGAAGTTT 59.007 55.000 0.00 0.00 0.00 2.66
3356 3374 1.065345 GTAGCCCCCTCCAGAAGTTTC 60.065 57.143 0.00 0.00 0.00 2.78
3357 3375 0.476611 AGCCCCCTCCAGAAGTTTCT 60.477 55.000 0.00 0.00 38.25 2.52
3358 3376 0.405973 GCCCCCTCCAGAAGTTTCTT 59.594 55.000 0.00 0.00 34.74 2.52
3359 3377 1.203063 GCCCCCTCCAGAAGTTTCTTT 60.203 52.381 0.00 0.00 34.74 2.52
3360 3378 2.796557 CCCCCTCCAGAAGTTTCTTTC 58.203 52.381 0.00 0.00 34.74 2.62
3361 3379 2.108250 CCCCCTCCAGAAGTTTCTTTCA 59.892 50.000 0.00 0.00 34.74 2.69
3370 3388 6.607198 TCCAGAAGTTTCTTTCAAATGAACCT 59.393 34.615 0.00 0.00 34.74 3.50
3381 3399 9.567776 TCTTTCAAATGAACCTTGTATTAGTGA 57.432 29.630 0.00 0.00 33.13 3.41
3390 3408 9.037737 TGAACCTTGTATTAGTGATATAAACGC 57.962 33.333 0.00 0.00 0.00 4.84
3391 3409 9.257651 GAACCTTGTATTAGTGATATAAACGCT 57.742 33.333 0.00 0.00 0.00 5.07
3392 3410 8.813643 ACCTTGTATTAGTGATATAAACGCTC 57.186 34.615 0.00 0.00 0.00 5.03
3393 3411 8.639761 ACCTTGTATTAGTGATATAAACGCTCT 58.360 33.333 0.00 0.00 0.00 4.09
3394 3412 9.477484 CCTTGTATTAGTGATATAAACGCTCTT 57.523 33.333 0.00 0.00 0.00 2.85
3422 3440 5.873179 TTTTTACGGGAGTATCTGCTTTG 57.127 39.130 0.00 0.00 46.13 2.77
3453 3471 2.028112 TCGGTGGGAAGAGAATGTCTTG 60.028 50.000 0.00 0.00 46.21 3.02
3502 3520 5.560724 TGTTCACCTAAGAAAATCCCTCTG 58.439 41.667 0.00 0.00 0.00 3.35
3605 3634 3.169099 TGAAGAGGAGGTGGAAGAAGAG 58.831 50.000 0.00 0.00 0.00 2.85
3606 3635 2.246091 AGAGGAGGTGGAAGAAGAGG 57.754 55.000 0.00 0.00 0.00 3.69
3607 3636 0.539518 GAGGAGGTGGAAGAAGAGGC 59.460 60.000 0.00 0.00 0.00 4.70
3719 3750 1.649321 TCCATGTGAGAGTCCAAGCT 58.351 50.000 0.00 0.00 0.00 3.74
3720 3751 2.820178 TCCATGTGAGAGTCCAAGCTA 58.180 47.619 0.00 0.00 0.00 3.32
3721 3752 3.173151 TCCATGTGAGAGTCCAAGCTAA 58.827 45.455 0.00 0.00 0.00 3.09
3722 3753 3.776969 TCCATGTGAGAGTCCAAGCTAAT 59.223 43.478 0.00 0.00 0.00 1.73
3723 3754 4.962362 TCCATGTGAGAGTCCAAGCTAATA 59.038 41.667 0.00 0.00 0.00 0.98
3724 3755 5.053145 CCATGTGAGAGTCCAAGCTAATAC 58.947 45.833 0.00 0.00 0.00 1.89
3725 3756 5.395657 CCATGTGAGAGTCCAAGCTAATACA 60.396 44.000 0.00 0.00 0.00 2.29
3726 3757 5.330455 TGTGAGAGTCCAAGCTAATACAG 57.670 43.478 0.00 0.00 0.00 2.74
3858 3975 6.769608 AAAAGGTAAAAACGGTACTACTCG 57.230 37.500 0.00 0.00 0.00 4.18
3863 3980 5.289434 GGTAAAAACGGTACTACTCGGATTG 59.711 44.000 0.00 0.00 0.00 2.67
3925 4042 5.163374 TGCCATGGGAATATGAGATCTATCG 60.163 44.000 15.13 0.00 0.00 2.92
3956 4073 0.606604 TAGTTTGGAGTGCGAGGACC 59.393 55.000 0.00 0.00 0.00 4.46
4067 4185 2.358322 TTTTCGAAAACTGGAGGCCT 57.642 45.000 19.08 3.86 0.00 5.19
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
101 102 6.929606 ACAAACTGAGTACTGGACTAACATTC 59.070 38.462 0.00 0.00 39.06 2.67
248 249 3.318839 TCTCCCAAAAACTGTTGCTCATG 59.681 43.478 0.00 0.00 0.00 3.07
373 374 6.575244 TCATGGGATTAAAGTATGGACACT 57.425 37.500 0.00 0.00 0.00 3.55
374 375 7.227156 AGATCATGGGATTAAAGTATGGACAC 58.773 38.462 0.00 0.00 32.67 3.67
427 428 4.139786 CAGGTGGGACCATTCTTCATATG 58.860 47.826 0.00 0.00 41.95 1.78
489 490 3.054361 ACTGCAAATACACTTCCTAGGGG 60.054 47.826 9.46 5.02 0.00 4.79
631 632 2.305927 TGAAACCAAACCCAAAAGGCAA 59.694 40.909 0.00 0.00 40.58 4.52
745 746 8.076178 GCACTATCATATGTATTTTGTCCAACC 58.924 37.037 1.90 0.00 0.00 3.77
884 885 8.177013 GTGCAAAAACTGTTCAGATTTTGATTT 58.823 29.630 32.15 11.92 41.18 2.17
901 902 6.670077 TTTTGGTAATCCTTGTGCAAAAAC 57.330 33.333 0.00 0.00 34.23 2.43
976 977 4.582701 TGCCTGTTTTATGTTTGACCAG 57.417 40.909 0.00 0.00 0.00 4.00
1227 1228 0.381801 AACCAAAAGCTGACGTGCTG 59.618 50.000 0.57 0.00 43.24 4.41
1284 1285 2.838736 TCCACTGTCTTCTTGCTCAAC 58.161 47.619 0.00 0.00 0.00 3.18
1318 1319 1.558756 CTCCTCTTCCTGCTGGATGTT 59.441 52.381 20.44 0.00 42.81 2.71
1350 1351 3.248602 CACAACCTGAACTCCTTTTCTCG 59.751 47.826 0.00 0.00 0.00 4.04
1437 1438 1.875576 GCATCCTTCTGATACTGCCCG 60.876 57.143 0.00 0.00 30.56 6.13
1682 1683 5.669447 ACATCCTGGGAAGACATTCTCTTAT 59.331 40.000 0.00 0.00 39.53 1.73
1798 1799 8.777413 CATGACTTGAATTGTAAAGAGTCAGAA 58.223 33.333 9.47 0.00 44.41 3.02
1880 1881 4.652421 TGCGGGGTCTCTATTAGTATGTTT 59.348 41.667 0.00 0.00 0.00 2.83
1881 1882 4.220724 TGCGGGGTCTCTATTAGTATGTT 58.779 43.478 0.00 0.00 0.00 2.71
1882 1883 3.840991 TGCGGGGTCTCTATTAGTATGT 58.159 45.455 0.00 0.00 0.00 2.29
1883 1884 4.866508 TTGCGGGGTCTCTATTAGTATG 57.133 45.455 0.00 0.00 0.00 2.39
1884 1885 5.881923 TTTTGCGGGGTCTCTATTAGTAT 57.118 39.130 0.00 0.00 0.00 2.12
1885 1886 5.680594 TTTTTGCGGGGTCTCTATTAGTA 57.319 39.130 0.00 0.00 0.00 1.82
1886 1887 4.563140 TTTTTGCGGGGTCTCTATTAGT 57.437 40.909 0.00 0.00 0.00 2.24
1951 1952 2.879756 GCTAACTGGACCATGCTCCAAA 60.880 50.000 10.95 0.00 39.97 3.28
1953 1954 0.253044 GCTAACTGGACCATGCTCCA 59.747 55.000 9.43 9.43 38.05 3.86
2078 2079 8.840200 ATAGTGTGTTCTAATCTAAAGAGGGA 57.160 34.615 0.00 0.00 0.00 4.20
2211 2213 4.583073 GGGGTTATGTAGGTGCAAAATAGG 59.417 45.833 0.00 0.00 0.00 2.57
2284 2286 5.950544 AAGTGATATACCCAGTGCTGTAA 57.049 39.130 0.00 0.00 0.00 2.41
2285 2287 5.188948 ACAAAGTGATATACCCAGTGCTGTA 59.811 40.000 0.00 0.00 0.00 2.74
2438 2441 7.524717 ACAGGTTATGTACAGAAAAAGCATT 57.475 32.000 4.14 0.00 41.60 3.56
2604 2612 5.656416 TCACCAACAGAAAAAGGAGACAAAT 59.344 36.000 0.00 0.00 0.00 2.32
2817 2830 4.710324 TCTTTGTATTCACGTGGGAAACT 58.290 39.130 17.00 0.00 0.00 2.66
2827 2840 7.690228 TGTACTTGTGTGTTCTTTGTATTCAC 58.310 34.615 0.00 0.00 0.00 3.18
2910 2923 6.073327 TCACTAGATAAATACAGGCTCGTG 57.927 41.667 0.00 0.00 0.00 4.35
2911 2924 6.902771 ATCACTAGATAAATACAGGCTCGT 57.097 37.500 0.00 0.00 31.14 4.18
2912 2925 7.755822 GGTAATCACTAGATAAATACAGGCTCG 59.244 40.741 0.00 0.00 33.08 5.03
2980 2994 2.592102 ACATGTCCAACTCCTGCAAT 57.408 45.000 0.00 0.00 0.00 3.56
3034 3048 2.031595 CGATCTCGTTCTCCGATGATGT 60.032 50.000 0.00 0.00 46.23 3.06
3039 3053 0.945813 GGTCGATCTCGTTCTCCGAT 59.054 55.000 0.00 0.00 46.23 4.18
3087 3101 5.365021 AGGGTGATCAAAATCTACCAGAG 57.635 43.478 0.00 0.00 36.02 3.35
3107 3121 1.238439 TGCGAGGAGAAAGCAAAAGG 58.762 50.000 0.00 0.00 38.01 3.11
3181 3195 3.451141 TTTCACAAGATTGTTGGGTGC 57.549 42.857 0.00 0.00 39.91 5.01
3243 3258 4.505191 CCATGCCGCAAGAATATTTGAAAG 59.495 41.667 0.00 0.00 43.02 2.62
3246 3261 3.286353 TCCATGCCGCAAGAATATTTGA 58.714 40.909 0.00 0.00 43.02 2.69
3272 3287 2.165301 GCAGCACGATCCGTACACC 61.165 63.158 0.00 0.00 38.32 4.16
3286 3301 2.969443 TTAGCAAGAAACTTCGCAGC 57.031 45.000 0.00 0.00 0.00 5.25
3322 3337 1.450025 GGCTACAGGTTACAACAGCC 58.550 55.000 5.69 5.69 37.26 4.85
3327 3343 1.282382 GAGGGGGCTACAGGTTACAA 58.718 55.000 0.00 0.00 0.00 2.41
3342 3360 5.536161 TCATTTGAAAGAAACTTCTGGAGGG 59.464 40.000 0.00 0.00 37.65 4.30
3344 3362 6.920210 GGTTCATTTGAAAGAAACTTCTGGAG 59.080 38.462 0.00 0.00 37.65 3.86
3346 3364 6.809869 AGGTTCATTTGAAAGAAACTTCTGG 58.190 36.000 0.00 0.00 38.58 3.86
3347 3365 7.761249 ACAAGGTTCATTTGAAAGAAACTTCTG 59.239 33.333 13.62 9.53 45.86 3.02
3348 3366 7.840931 ACAAGGTTCATTTGAAAGAAACTTCT 58.159 30.769 13.62 4.62 45.86 2.85
3349 3367 9.750125 ATACAAGGTTCATTTGAAAGAAACTTC 57.250 29.630 13.62 0.00 45.86 3.01
3355 3373 9.567776 TCACTAATACAAGGTTCATTTGAAAGA 57.432 29.630 0.00 0.00 35.58 2.52
3400 3418 4.155280 GCAAAGCAGATACTCCCGTAAAAA 59.845 41.667 0.00 0.00 0.00 1.94
3401 3419 3.687698 GCAAAGCAGATACTCCCGTAAAA 59.312 43.478 0.00 0.00 0.00 1.52
3402 3420 3.267483 GCAAAGCAGATACTCCCGTAAA 58.733 45.455 0.00 0.00 0.00 2.01
3403 3421 2.235155 TGCAAAGCAGATACTCCCGTAA 59.765 45.455 0.00 0.00 33.32 3.18
3404 3422 1.828595 TGCAAAGCAGATACTCCCGTA 59.171 47.619 0.00 0.00 33.32 4.02
3405 3423 0.613260 TGCAAAGCAGATACTCCCGT 59.387 50.000 0.00 0.00 33.32 5.28
3406 3424 3.458872 TGCAAAGCAGATACTCCCG 57.541 52.632 0.00 0.00 33.32 5.14
3416 3434 1.229428 CCGAAAGACTCTGCAAAGCA 58.771 50.000 0.00 0.00 36.92 3.91
3417 3435 1.069636 CACCGAAAGACTCTGCAAAGC 60.070 52.381 0.00 0.00 0.00 3.51
3418 3436 1.532868 CCACCGAAAGACTCTGCAAAG 59.467 52.381 0.00 0.00 0.00 2.77
3419 3437 1.593196 CCACCGAAAGACTCTGCAAA 58.407 50.000 0.00 0.00 0.00 3.68
3422 3440 0.034896 TTCCCACCGAAAGACTCTGC 59.965 55.000 0.00 0.00 0.00 4.26
3434 3452 2.087646 GCAAGACATTCTCTTCCCACC 58.912 52.381 0.00 0.00 37.08 4.61
3455 3473 7.069331 ACATTCTATAGTTCAGCTTAGACTGCT 59.931 37.037 0.00 0.00 42.06 4.24
3474 3492 7.928873 AGGGATTTTCTTAGGTGAACATTCTA 58.071 34.615 0.00 0.00 0.00 2.10
3502 3520 1.384222 GGAACATGGGAATGACCGCC 61.384 60.000 0.00 0.00 40.11 6.13
3605 3634 3.925630 TAACTGCCCAGCTGCTGCC 62.926 63.158 23.86 16.30 40.80 4.85
3606 3635 1.973281 TTAACTGCCCAGCTGCTGC 60.973 57.895 23.86 14.27 40.05 5.25
3607 3636 0.607489 AGTTAACTGCCCAGCTGCTG 60.607 55.000 22.44 22.44 36.39 4.41
3759 3791 6.856426 CACATTTCGATACGTGCTATAGAGAA 59.144 38.462 3.21 0.00 0.00 2.87
3760 3792 6.371389 CACATTTCGATACGTGCTATAGAGA 58.629 40.000 3.21 0.00 0.00 3.10
3858 3975 5.453762 GGGAAAATTGACATGATCCCAATCC 60.454 44.000 0.00 0.00 44.81 3.01
3863 3980 3.638627 GGAGGGAAAATTGACATGATCCC 59.361 47.826 0.00 4.78 45.61 3.85
3956 4073 0.250234 TCCGGCAGGATTCAAGACAG 59.750 55.000 0.00 0.00 42.75 3.51


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

AutoCloner maintained by Alex Coulton.