Multiple sequence alignment - TraesCS7A01G555400

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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 TraesCS7A01G555400 chr7A 100.000 3641 0 0 1 3641 727229905 727233545 0.000000e+00 6724
1 TraesCS7A01G555400 chr7A 79.750 1200 231 11 4 1200 726769152 726767962 0.000000e+00 859
2 TraesCS7A01G555400 chr7A 76.656 1208 238 31 15 1200 726685024 726683839 2.390000e-176 628
3 TraesCS7A01G555400 chr7B 91.820 3692 235 27 1 3641 733861527 733865202 0.000000e+00 5083
4 TraesCS7A01G555400 chr7B 95.453 3035 130 6 1 3031 733926386 733929416 0.000000e+00 4833
5 TraesCS7A01G555400 chr7B 91.205 2149 156 15 1522 3641 733887659 733889803 0.000000e+00 2891
6 TraesCS7A01G555400 chr7B 92.871 1515 72 15 1 1492 733886165 733887666 0.000000e+00 2167
7 TraesCS7A01G555400 chr7B 80.166 1205 210 23 4 1201 733812339 733813521 0.000000e+00 874
8 TraesCS7A01G555400 chr7B 72.494 1167 267 44 4 1137 1305747 1306892 9.750000e-86 327
9 TraesCS7A01G555400 chr7D 80.530 1207 202 27 4 1201 631425549 631426731 0.000000e+00 896
10 TraesCS7A01G555400 chr5D 72.645 1221 267 51 4 1186 561897053 561898244 3.480000e-90 342


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 TraesCS7A01G555400 chr7A 727229905 727233545 3640 False 6724 6724 100.000 1 3641 1 chr7A.!!$F1 3640
1 TraesCS7A01G555400 chr7A 726767962 726769152 1190 True 859 859 79.750 4 1200 1 chr7A.!!$R2 1196
2 TraesCS7A01G555400 chr7A 726683839 726685024 1185 True 628 628 76.656 15 1200 1 chr7A.!!$R1 1185
3 TraesCS7A01G555400 chr7B 733861527 733865202 3675 False 5083 5083 91.820 1 3641 1 chr7B.!!$F3 3640
4 TraesCS7A01G555400 chr7B 733926386 733929416 3030 False 4833 4833 95.453 1 3031 1 chr7B.!!$F4 3030
5 TraesCS7A01G555400 chr7B 733886165 733889803 3638 False 2529 2891 92.038 1 3641 2 chr7B.!!$F5 3640
6 TraesCS7A01G555400 chr7B 733812339 733813521 1182 False 874 874 80.166 4 1201 1 chr7B.!!$F2 1197
7 TraesCS7A01G555400 chr7B 1305747 1306892 1145 False 327 327 72.494 4 1137 1 chr7B.!!$F1 1133
8 TraesCS7A01G555400 chr7D 631425549 631426731 1182 False 896 896 80.530 4 1201 1 chr7D.!!$F1 1197
9 TraesCS7A01G555400 chr5D 561897053 561898244 1191 False 342 342 72.645 4 1186 1 chr5D.!!$F1 1182

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
294 302 4.329392 TCTCGTGTTTTTCCCTATTTCCC 58.671 43.478 0.00 0.0 0.00 3.97 F
1853 1925 1.214367 GATATGGTGTACGCCAACCG 58.786 55.000 30.73 0.0 42.48 4.44 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2233 2305 0.036010 TGGAGTAAAGAGCCAGCTGC 60.036 55.0 8.66 3.91 41.71 5.25 R
3478 3577 0.684535 TCACGAGGAACAGGATGCAA 59.315 50.0 0.00 0.00 42.53 4.08 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
49 57 7.287061 TGAAGGAGAAAAACCTGAGAATTACA 58.713 34.615 0.00 0.00 37.85 2.41
294 302 4.329392 TCTCGTGTTTTTCCCTATTTCCC 58.671 43.478 0.00 0.00 0.00 3.97
366 386 8.199449 GCATTAGGGATCATTGAAAAAGATGAA 58.801 33.333 0.00 0.00 33.91 2.57
747 786 6.642917 TCGTGTTCTTTTTATCGAAGTCAAC 58.357 36.000 0.00 0.00 0.00 3.18
1081 1132 6.889722 TGAATTAAGTGAGTTGGGGGATTTAG 59.110 38.462 0.00 0.00 0.00 1.85
1145 1196 1.246737 GCAACCAAGGAAGAGGCCAG 61.247 60.000 5.01 0.00 0.00 4.85
1530 1602 6.652481 ACATTTCTACACTTGTTCAGATCAGG 59.348 38.462 0.00 0.00 0.00 3.86
1554 1626 2.619165 CGTTGTTGGGGTTACGGCC 61.619 63.158 0.00 0.00 0.00 6.13
1624 1696 2.038863 TACTGAGTGGGTTGGGACAT 57.961 50.000 0.00 0.00 39.30 3.06
1790 1862 2.124403 GCCCCTCATGCCTCACAG 60.124 66.667 0.00 0.00 0.00 3.66
1817 1889 5.462398 CCACACTAACTGAAGTTACTGTGTC 59.538 44.000 25.11 0.00 44.50 3.67
1824 1896 6.256912 ACTGAAGTTACTGTGTCTACTAGC 57.743 41.667 0.00 0.00 0.00 3.42
1834 1906 1.316651 GTCTACTAGCCGTACTGGGG 58.683 60.000 6.00 0.00 38.63 4.96
1836 1908 1.779092 TCTACTAGCCGTACTGGGGAT 59.221 52.381 6.00 0.00 38.63 3.85
1853 1925 1.214367 GATATGGTGTACGCCAACCG 58.786 55.000 30.73 0.00 42.48 4.44
1883 1955 2.447408 TTGACGAGGTATAGCAGGGA 57.553 50.000 4.48 0.00 0.00 4.20
1915 1987 2.021457 ACAATATGGCCGGCAAAGTAC 58.979 47.619 30.85 10.31 0.00 2.73
2011 2083 4.074970 TGAAATTGAAGGAGACTCAAGCC 58.925 43.478 4.53 0.00 42.68 4.35
2125 2197 1.704628 TCATGGCTTCCAACCTCAAGA 59.295 47.619 0.00 0.00 36.95 3.02
2175 2247 3.826754 CCTCGCTCTGTAGCCGCA 61.827 66.667 0.00 0.00 46.68 5.69
2233 2305 8.512138 CAAGGAGTAAAAAGTTATTACCACCTG 58.488 37.037 10.98 5.36 38.89 4.00
2480 2552 0.958876 GGGTTACACGGCCTTCCTTG 60.959 60.000 0.00 0.00 37.61 3.61
2736 2808 0.813821 GAATTCTGACAGGCTTGCCC 59.186 55.000 8.17 0.00 0.00 5.36
2746 2818 3.804193 GCTTGCCCGCACAGCTAC 61.804 66.667 13.23 0.00 31.94 3.58
2782 2854 2.665649 TCAAATTTCTAGCTCGGCGA 57.334 45.000 10.14 10.14 0.00 5.54
2852 2926 2.432146 GAGATGGCCATATATCCGCAGA 59.568 50.000 20.84 0.00 0.00 4.26
2853 2927 2.840038 AGATGGCCATATATCCGCAGAA 59.160 45.455 20.84 0.00 0.00 3.02
2869 2943 3.126831 GCAGAAGGATGAGTTATGTCCG 58.873 50.000 0.00 0.00 37.12 4.79
2953 3028 3.606687 GCTAGGAAATTCGGAGGAACAA 58.393 45.455 0.00 0.00 34.37 2.83
2993 3068 7.042254 ACGAGTACAAATTCAAGGTAACACTTC 60.042 37.037 0.00 0.00 41.41 3.01
3068 3144 3.806625 AATATGCATTGTGGTTGCTCC 57.193 42.857 3.54 0.00 40.77 4.70
3081 3157 2.616510 GGTTGCTCCTGTATGCAGAGTT 60.617 50.000 12.93 0.00 45.28 3.01
3085 3161 2.544685 CTCCTGTATGCAGAGTTTCCG 58.455 52.381 12.93 0.00 45.28 4.30
3088 3164 2.158900 CCTGTATGCAGAGTTTCCGGAT 60.159 50.000 12.93 0.00 45.28 4.18
3089 3165 3.069586 CCTGTATGCAGAGTTTCCGGATA 59.930 47.826 12.93 0.00 45.28 2.59
3102 3178 7.290248 AGAGTTTCCGGATATTAGGATGAAGAA 59.710 37.037 4.15 0.00 36.28 2.52
3113 3189 2.507471 AGGATGAAGAAGACCATGGTCC 59.493 50.000 36.09 23.92 45.59 4.46
3149 3225 8.752254 GTTCTAAACCTATTTGACAGTTTTTGC 58.248 33.333 0.00 0.00 34.46 3.68
3173 3249 6.128472 GCATGTTAAATTTTGAAGAGCAAGGG 60.128 38.462 0.00 0.00 37.87 3.95
3189 3265 2.494918 GGGACACCCGATCGACAG 59.505 66.667 18.66 7.46 32.13 3.51
3190 3266 2.494918 GGACACCCGATCGACAGG 59.505 66.667 18.66 12.18 0.00 4.00
3191 3267 2.202756 GACACCCGATCGACAGGC 60.203 66.667 18.66 3.48 0.00 4.85
3192 3268 2.994995 ACACCCGATCGACAGGCA 60.995 61.111 18.66 0.00 0.00 4.75
3194 3270 1.592669 CACCCGATCGACAGGCATC 60.593 63.158 18.66 0.00 0.00 3.91
3216 3292 4.635765 TCGAGGTGAATGCCTATTTTCTTG 59.364 41.667 0.00 0.00 39.34 3.02
3301 3377 1.228521 CCAGGACCATGCAACACCA 60.229 57.895 0.00 0.00 0.00 4.17
3326 3402 5.414765 GGTCCAACCACCTATTTTAGTTCAG 59.585 44.000 0.00 0.00 38.42 3.02
3330 3406 4.010349 ACCACCTATTTTAGTTCAGCAGC 58.990 43.478 0.00 0.00 0.00 5.25
3345 3421 5.772825 TCAGCAGCTTTATTTCACTTGTT 57.227 34.783 0.00 0.00 0.00 2.83
3367 3443 6.839134 TGTTAGCAAGAGGATATTCAGGTAGA 59.161 38.462 0.00 0.00 0.00 2.59
3370 3446 5.483583 AGCAAGAGGATATTCAGGTAGATCC 59.516 44.000 0.00 0.00 38.54 3.36
3371 3447 5.623368 GCAAGAGGATATTCAGGTAGATCCG 60.623 48.000 0.00 0.00 42.34 4.18
3375 3451 3.511934 GGATATTCAGGTAGATCCGCTGT 59.488 47.826 0.00 0.00 41.99 4.40
3382 3458 2.159085 AGGTAGATCCGCTGTTGCTTAC 60.159 50.000 0.00 0.00 41.99 2.34
3391 3467 2.090658 CGCTGTTGCTTACGTAGTTCTG 59.909 50.000 0.00 0.00 38.58 3.02
3395 3471 5.398176 TGTTGCTTACGTAGTTCTGTTTG 57.602 39.130 0.00 0.00 37.78 2.93
3417 3493 7.395190 TTGATGTTCATCTCATAACCCTTTG 57.605 36.000 12.94 0.00 0.00 2.77
3418 3494 6.484288 TGATGTTCATCTCATAACCCTTTGT 58.516 36.000 12.94 0.00 0.00 2.83
3419 3495 6.599244 TGATGTTCATCTCATAACCCTTTGTC 59.401 38.462 12.94 0.00 0.00 3.18
3420 3496 4.935205 TGTTCATCTCATAACCCTTTGTCG 59.065 41.667 0.00 0.00 0.00 4.35
3421 3497 3.531538 TCATCTCATAACCCTTTGTCGC 58.468 45.455 0.00 0.00 0.00 5.19
3422 3498 3.197766 TCATCTCATAACCCTTTGTCGCT 59.802 43.478 0.00 0.00 0.00 4.93
3424 3500 4.811969 TCTCATAACCCTTTGTCGCTTA 57.188 40.909 0.00 0.00 0.00 3.09
3425 3501 4.501071 TCTCATAACCCTTTGTCGCTTAC 58.499 43.478 0.00 0.00 0.00 2.34
3426 3502 4.222145 TCTCATAACCCTTTGTCGCTTACT 59.778 41.667 0.00 0.00 0.00 2.24
3427 3503 4.501071 TCATAACCCTTTGTCGCTTACTC 58.499 43.478 0.00 0.00 0.00 2.59
3430 3529 3.041508 ACCCTTTGTCGCTTACTCTTC 57.958 47.619 0.00 0.00 0.00 2.87
3438 3537 2.909863 GTCGCTTACTCTTCTTCGACAC 59.090 50.000 7.57 0.00 43.74 3.67
3439 3538 1.905687 CGCTTACTCTTCTTCGACACG 59.094 52.381 0.00 0.00 0.00 4.49
3453 3552 3.314553 TCGACACGAAGCTTCTTTTAGG 58.685 45.455 23.50 9.77 31.06 2.69
3465 3564 7.208225 AGCTTCTTTTAGGAGAACAACAATC 57.792 36.000 0.00 0.00 32.50 2.67
3478 3577 4.942761 ACAACAATCTGAACCTTGCAAT 57.057 36.364 0.00 0.00 0.00 3.56
3479 3578 5.280654 ACAACAATCTGAACCTTGCAATT 57.719 34.783 0.00 0.00 0.00 2.32
3493 3592 2.573941 GCAATTGCATCCTGTTCCTC 57.426 50.000 25.36 0.00 41.59 3.71
3495 3594 2.086869 CAATTGCATCCTGTTCCTCGT 58.913 47.619 0.00 0.00 0.00 4.18
3497 3596 0.684535 TTGCATCCTGTTCCTCGTGA 59.315 50.000 0.00 0.00 0.00 4.35
3500 3599 1.338200 GCATCCTGTTCCTCGTGAAGT 60.338 52.381 0.00 0.00 32.37 3.01
3506 3605 1.269778 TGTTCCTCGTGAAGTCTGCTG 60.270 52.381 0.00 0.00 32.37 4.41
3509 3608 0.034059 CCTCGTGAAGTCTGCTGGTT 59.966 55.000 0.00 0.00 0.00 3.67
3510 3609 1.272490 CCTCGTGAAGTCTGCTGGTTA 59.728 52.381 0.00 0.00 0.00 2.85
3531 3630 1.884235 AAGTGGTAAGCAGTGACAGC 58.116 50.000 0.00 0.00 0.00 4.40
3559 3658 2.746803 GCAACGGTGCGTATGTCCC 61.747 63.158 10.98 0.00 41.93 4.46
3560 3659 1.079405 CAACGGTGCGTATGTCCCT 60.079 57.895 0.00 0.00 39.99 4.20
3627 3726 9.701098 TCAACGTACCTAATTATGATGATAACC 57.299 33.333 0.00 0.00 0.00 2.85
3628 3727 8.644619 CAACGTACCTAATTATGATGATAACCG 58.355 37.037 0.00 0.00 0.00 4.44
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
49 57 9.582431 CTTTGCAAGATCAGTTAATTCATCATT 57.418 29.630 0.00 0.00 0.00 2.57
294 302 5.360591 AGATTGCTAAACCTATGGTCTTCG 58.639 41.667 0.00 0.00 33.12 3.79
366 386 9.810545 TTTTTCGAAAGTTCTTCCATGTAATTT 57.189 25.926 10.98 0.00 0.00 1.82
747 786 4.510167 ATGTGGTAAAGATTCTGGGGAG 57.490 45.455 0.00 0.00 0.00 4.30
1081 1132 0.612744 AGTTCTCCTCCAAGCTCTGC 59.387 55.000 0.00 0.00 0.00 4.26
1225 1297 2.483106 CAGATGATTCCGATGCACCATC 59.517 50.000 0.00 0.00 37.50 3.51
1554 1626 4.272504 TCCTTCAACTGCGTAAAACTTCTG 59.727 41.667 0.00 0.00 0.00 3.02
1624 1696 6.050432 GCATTGAAAATGAATGGGCATTAGA 58.950 36.000 4.18 0.00 37.50 2.10
1817 1889 2.289592 ATCCCCAGTACGGCTAGTAG 57.710 55.000 0.00 0.00 35.72 2.57
1824 1896 1.420430 ACACCATATCCCCAGTACGG 58.580 55.000 0.00 0.00 0.00 4.02
1834 1906 1.214367 CGGTTGGCGTACACCATATC 58.786 55.000 2.85 0.00 40.13 1.63
1836 1908 1.180907 TACGGTTGGCGTACACCATA 58.819 50.000 2.85 0.00 40.13 2.74
1853 1925 9.037737 TGCTATACCTCGTCAAATACAAATTAC 57.962 33.333 0.00 0.00 0.00 1.89
1883 1955 2.629617 GCCATATTGTGCCAGGCTAATT 59.370 45.455 14.15 0.00 42.01 1.40
1915 1987 4.397103 TCCAGCTTTAAATGTGATGCTCTG 59.603 41.667 0.00 0.00 0.00 3.35
1967 2039 6.610830 TCAAGTTTCTTGAGGGAGGTTAAAT 58.389 36.000 7.92 0.00 0.00 1.40
2029 2101 3.064271 GTGAGAGACGTGAGGTATGAGAC 59.936 52.174 0.00 0.00 0.00 3.36
2175 2247 2.223923 CGCCAATTCCGAGAGAAGATCT 60.224 50.000 0.00 0.00 42.61 2.75
2233 2305 0.036010 TGGAGTAAAGAGCCAGCTGC 60.036 55.000 8.66 3.91 41.71 5.25
2480 2552 3.402628 TGGCTTTTAGTGTCCTGAGAC 57.597 47.619 0.00 0.00 43.83 3.36
2712 2784 3.611057 GCAAGCCTGTCAGAATTCACAAG 60.611 47.826 8.44 0.00 0.00 3.16
2736 2808 2.223180 TGACATAGTACGTAGCTGTGCG 60.223 50.000 16.12 0.44 37.86 5.34
2746 2818 5.991328 ATTTGAATGCCTGACATAGTACG 57.009 39.130 0.00 0.00 38.34 3.67
2810 2884 6.383763 TCTCTAGAAGAGTAGCTACCTAGGA 58.616 44.000 23.53 18.80 42.83 2.94
2852 2926 3.134623 TGCATCGGACATAACTCATCCTT 59.865 43.478 0.00 0.00 0.00 3.36
2853 2927 2.700371 TGCATCGGACATAACTCATCCT 59.300 45.455 0.00 0.00 0.00 3.24
2890 2964 1.792949 GCGATGTATTGGCGAACCTAG 59.207 52.381 0.00 0.00 36.63 3.02
2898 2972 4.875544 TTTACTTCTGCGATGTATTGGC 57.124 40.909 0.00 0.00 0.00 4.52
2943 3018 1.071699 TCTGGGTCTTTTGTTCCTCCG 59.928 52.381 0.00 0.00 0.00 4.63
2953 3028 5.733620 TGTACTCGTAAATCTGGGTCTTT 57.266 39.130 0.00 0.00 0.00 2.52
2993 3068 1.740025 GAAGTGAATCTTTGGAGGCGG 59.260 52.381 0.00 0.00 36.40 6.13
3044 3120 4.751060 AGCAACCACAATGCATATTTCAG 58.249 39.130 0.00 0.00 46.22 3.02
3055 3131 2.094675 GCATACAGGAGCAACCACAAT 58.905 47.619 2.96 0.00 42.04 2.71
3068 3144 2.672961 TCCGGAAACTCTGCATACAG 57.327 50.000 0.00 0.00 45.95 2.74
3081 3157 6.014499 GGTCTTCTTCATCCTAATATCCGGAA 60.014 42.308 9.01 0.00 32.12 4.30
3085 3161 7.108847 CCATGGTCTTCTTCATCCTAATATCC 58.891 42.308 2.57 0.00 0.00 2.59
3088 3164 6.043243 GGACCATGGTCTTCTTCATCCTAATA 59.957 42.308 37.26 0.00 44.04 0.98
3089 3165 5.163152 GGACCATGGTCTTCTTCATCCTAAT 60.163 44.000 37.26 1.86 44.04 1.73
3102 3178 2.170607 CCGTAATCAAGGACCATGGTCT 59.829 50.000 37.26 23.60 44.04 3.85
3136 3212 9.552114 CAAAATTTAACATGCAAAAACTGTCAA 57.448 25.926 0.00 0.00 0.00 3.18
3142 3218 8.946935 GCTCTTCAAAATTTAACATGCAAAAAC 58.053 29.630 0.00 0.00 0.00 2.43
3148 3224 6.128472 CCCTTGCTCTTCAAAATTTAACATGC 60.128 38.462 0.00 0.00 33.65 4.06
3149 3225 6.369615 CCCCTTGCTCTTCAAAATTTAACATG 59.630 38.462 0.00 0.00 33.65 3.21
3173 3249 2.494918 CCTGTCGATCGGGTGTCC 59.505 66.667 16.41 0.00 37.78 4.02
3185 3261 1.293924 CATTCACCTCGATGCCTGTC 58.706 55.000 0.00 0.00 0.00 3.51
3188 3264 4.547859 GCATTCACCTCGATGCCT 57.452 55.556 0.00 0.00 34.23 4.75
3190 3266 2.175878 ATAGGCATTCACCTCGATGC 57.824 50.000 0.00 0.00 41.50 3.91
3191 3267 4.818546 AGAAAATAGGCATTCACCTCGATG 59.181 41.667 0.00 0.00 41.50 3.84
3192 3268 5.041191 AGAAAATAGGCATTCACCTCGAT 57.959 39.130 0.00 0.00 41.50 3.59
3194 3270 4.396166 ACAAGAAAATAGGCATTCACCTCG 59.604 41.667 0.00 0.00 41.50 4.63
3259 3335 1.457346 ATTTAGTCACTGCAGCCTGC 58.543 50.000 15.27 10.45 45.29 4.85
3275 3351 1.005805 TGCATGGTCCTGGCAGTATTT 59.994 47.619 14.43 0.00 32.95 1.40
3284 3360 1.246056 CCTGGTGTTGCATGGTCCTG 61.246 60.000 0.00 0.00 0.00 3.86
3326 3402 5.460646 TGCTAACAAGTGAAATAAAGCTGC 58.539 37.500 0.00 0.00 0.00 5.25
3345 3421 6.665680 GGATCTACCTGAATATCCTCTTGCTA 59.334 42.308 0.00 0.00 35.91 3.49
3367 3443 1.203994 ACTACGTAAGCAACAGCGGAT 59.796 47.619 0.00 0.00 45.62 4.18
3370 3446 2.090658 CAGAACTACGTAAGCAACAGCG 59.909 50.000 0.00 0.00 45.62 5.18
3371 3447 3.057734 ACAGAACTACGTAAGCAACAGC 58.942 45.455 0.00 0.00 45.62 4.40
3375 3451 5.756347 ACATCAAACAGAACTACGTAAGCAA 59.244 36.000 0.00 0.00 45.62 3.91
3382 3458 6.366061 TGAGATGAACATCAAACAGAACTACG 59.634 38.462 15.63 0.00 40.22 3.51
3391 3467 7.396540 AAGGGTTATGAGATGAACATCAAAC 57.603 36.000 15.63 12.72 40.22 2.93
3395 3471 6.238211 CGACAAAGGGTTATGAGATGAACATC 60.238 42.308 6.68 6.68 38.09 3.06
3417 3493 2.909863 GTGTCGAAGAAGAGTAAGCGAC 59.090 50.000 0.00 0.00 45.72 5.19
3418 3494 2.412455 CGTGTCGAAGAAGAGTAAGCGA 60.412 50.000 0.00 0.00 39.69 4.93
3419 3495 1.905687 CGTGTCGAAGAAGAGTAAGCG 59.094 52.381 0.00 0.00 39.69 4.68
3420 3496 3.198863 TCGTGTCGAAGAAGAGTAAGC 57.801 47.619 0.00 0.00 39.69 3.09
3438 3537 5.236478 TGTTGTTCTCCTAAAAGAAGCTTCG 59.764 40.000 20.43 6.09 35.99 3.79
3439 3538 6.619801 TGTTGTTCTCCTAAAAGAAGCTTC 57.380 37.500 19.11 19.11 35.99 3.86
3453 3552 4.036734 TGCAAGGTTCAGATTGTTGTTCTC 59.963 41.667 0.00 0.00 0.00 2.87
3478 3577 0.684535 TCACGAGGAACAGGATGCAA 59.315 50.000 0.00 0.00 42.53 4.08
3479 3578 0.684535 TTCACGAGGAACAGGATGCA 59.315 50.000 0.00 0.00 42.53 3.96
3493 3592 4.327357 CACTTATAACCAGCAGACTTCACG 59.673 45.833 0.00 0.00 0.00 4.35
3495 3594 4.286032 ACCACTTATAACCAGCAGACTTCA 59.714 41.667 0.00 0.00 0.00 3.02
3497 3596 4.910458 ACCACTTATAACCAGCAGACTT 57.090 40.909 0.00 0.00 0.00 3.01
3500 3599 4.224147 TGCTTACCACTTATAACCAGCAGA 59.776 41.667 0.00 0.00 0.00 4.26
3506 3605 5.484715 TGTCACTGCTTACCACTTATAACC 58.515 41.667 0.00 0.00 0.00 2.85
3509 3608 4.382685 GGCTGTCACTGCTTACCACTTATA 60.383 45.833 6.62 0.00 0.00 0.98
3510 3609 3.600388 GCTGTCACTGCTTACCACTTAT 58.400 45.455 0.00 0.00 0.00 1.73
3531 3630 3.055719 ACCGTTGCTTGATGCCGG 61.056 61.111 0.00 0.00 46.88 6.13
3559 3658 8.642020 GCAAAAGCATGAAAATTTACTGTCTAG 58.358 33.333 0.00 0.00 0.00 2.43
3560 3659 8.140628 TGCAAAAGCATGAAAATTTACTGTCTA 58.859 29.630 0.00 0.00 0.00 2.59
3593 3692 9.537192 TCATAATTAGGTACGTTGATCGATTTT 57.463 29.630 0.00 0.00 42.86 1.82
3598 3697 8.689251 ATCATCATAATTAGGTACGTTGATCG 57.311 34.615 0.00 0.00 46.00 3.69
3603 3702 7.330208 GCGGTTATCATCATAATTAGGTACGTT 59.670 37.037 0.00 0.00 0.00 3.99


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

AutoCloner maintained by Alex Coulton.