Multiple sequence alignment - TraesCS1D01G091200

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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 TraesCS1D01G091200 chr1D 100.000 5906 0 0 385 6290 77386503 77392408 0.000000e+00 10907
1 TraesCS1D01G091200 chr1D 100.000 186 0 0 1 186 77386119 77386304 1.680000e-90 344
2 TraesCS1D01G091200 chr1D 98.413 63 1 0 2705 2767 77388761 77388823 1.850000e-20 111
3 TraesCS1D01G091200 chr1D 98.413 63 1 0 2643 2705 77388823 77388885 1.850000e-20 111
4 TraesCS1D01G091200 chr1B 95.058 5706 183 45 626 6290 121004948 121010595 0.000000e+00 8883
5 TraesCS1D01G091200 chr1B 98.770 244 3 0 385 628 121004623 121004866 9.680000e-118 435
6 TraesCS1D01G091200 chr1B 94.798 173 9 0 1 173 121004003 121004175 2.890000e-68 270
7 TraesCS1D01G091200 chr1B 100.000 63 0 0 2643 2705 121007012 121007074 3.980000e-22 117
8 TraesCS1D01G091200 chr1B 96.825 63 2 0 2705 2767 121006950 121007012 8.620000e-19 106
9 TraesCS1D01G091200 chr1A 95.807 3339 100 15 2967 6290 108771980 108775293 0.000000e+00 5354
10 TraesCS1D01G091200 chr1A 90.635 2125 129 28 516 2604 108769897 108771987 0.000000e+00 2758
11 TraesCS1D01G091200 chr7A 86.911 764 68 18 5148 5891 477172689 477173440 0.000000e+00 828
12 TraesCS1D01G091200 chr7A 85.127 316 22 9 5908 6214 477181781 477182080 3.690000e-77 300


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 TraesCS1D01G091200 chr1D 77386119 77392408 6289 False 2868.25 10907 99.2065 1 6290 4 chr1D.!!$F1 6289
1 TraesCS1D01G091200 chr1B 121004003 121010595 6592 False 1962.20 8883 97.0902 1 6290 5 chr1B.!!$F1 6289
2 TraesCS1D01G091200 chr1A 108769897 108775293 5396 False 4056.00 5354 93.2210 516 6290 2 chr1A.!!$F1 5774
3 TraesCS1D01G091200 chr7A 477172689 477173440 751 False 828.00 828 86.9110 5148 5891 1 chr7A.!!$F1 743

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
179 180 0.606673 AGGGTTTCTCTTTGCTCGCC 60.607 55.000 0.00 0.0 0.00 5.54 F
1083 1435 0.878416 GTGGTGAATTTACAGCGCCA 59.122 50.000 2.29 0.0 41.10 5.69 F
1556 1908 1.842381 AAGGAAAGCTGGGAGGTCCG 61.842 60.000 0.00 0.0 38.76 4.79 F
1626 1978 1.890876 TGGTTCGGATGGTGAAACAG 58.109 50.000 0.00 0.0 38.08 3.16 F
3444 3802 2.365941 GGTCTCACTGGAACCTATAGCC 59.634 54.545 0.00 0.0 0.00 3.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1877 2229 0.468226 ACTTCGCCTTTGACACAGGA 59.532 50.000 12.00 0.0 32.41 3.86 R
2611 2968 2.487934 CACAGCATGCCAGGATAGTAC 58.512 52.381 15.66 0.0 42.53 2.73 R
3209 3567 1.755783 GCAAGGCAGAAGGGATGGG 60.756 63.158 0.00 0.0 0.00 4.00 R
3546 3904 2.369860 TGTTGAGACATCCAGCTCTGTT 59.630 45.455 0.00 0.0 32.44 3.16 R
5356 5735 1.473434 CGACCTGGCTACATTTCCTCC 60.473 57.143 0.00 0.0 0.00 4.30 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
18 19 2.805353 GAAACTCGCGCTCGCTGA 60.805 61.111 5.56 9.98 39.32 4.26
34 35 2.356818 CTGAGGCGACGGAAGGGATC 62.357 65.000 0.00 0.00 0.00 3.36
43 44 2.586357 GAAGGGATCGCAGCCGTC 60.586 66.667 12.83 0.00 35.54 4.79
48 49 2.813908 GATCGCAGCCGTCCGTTT 60.814 61.111 0.00 0.00 35.54 3.60
66 67 1.214367 TTTCGAAGCAACGGTCAGAC 58.786 50.000 0.00 0.00 0.00 3.51
114 115 1.620822 GTGGAGACTGCCAAATGGTT 58.379 50.000 0.71 0.00 40.20 3.67
173 174 4.092116 ACAGAAGGAGGGTTTCTCTTTG 57.908 45.455 0.00 0.00 41.16 2.77
174 175 2.816672 CAGAAGGAGGGTTTCTCTTTGC 59.183 50.000 0.00 0.00 41.16 3.68
175 176 2.713708 AGAAGGAGGGTTTCTCTTTGCT 59.286 45.455 0.00 0.00 41.16 3.91
176 177 2.869101 AGGAGGGTTTCTCTTTGCTC 57.131 50.000 0.00 0.00 42.10 4.26
177 178 1.002544 AGGAGGGTTTCTCTTTGCTCG 59.997 52.381 0.00 0.00 42.10 5.03
178 179 0.799393 GAGGGTTTCTCTTTGCTCGC 59.201 55.000 0.00 0.00 39.38 5.03
179 180 0.606673 AGGGTTTCTCTTTGCTCGCC 60.607 55.000 0.00 0.00 0.00 5.54
180 181 1.497722 GGTTTCTCTTTGCTCGCCG 59.502 57.895 0.00 0.00 0.00 6.46
181 182 1.154395 GTTTCTCTTTGCTCGCCGC 60.154 57.895 0.00 0.00 39.77 6.53
182 183 2.325082 TTTCTCTTTGCTCGCCGCC 61.325 57.895 0.00 0.00 38.05 6.13
477 714 2.352805 CACAAGGTGAGCCTCCCC 59.647 66.667 0.00 0.00 46.33 4.81
1083 1435 0.878416 GTGGTGAATTTACAGCGCCA 59.122 50.000 2.29 0.00 41.10 5.69
1259 1611 7.502226 AGGAAGTAGAGAAGAGTATCAGTCATG 59.498 40.741 0.00 0.00 37.82 3.07
1305 1657 3.275617 TGACGGGTGGAATTATCTTGG 57.724 47.619 0.00 0.00 0.00 3.61
1331 1683 4.524328 CAGGGTGGCAAAAATAAGAAGACT 59.476 41.667 0.00 0.00 0.00 3.24
1556 1908 1.842381 AAGGAAAGCTGGGAGGTCCG 61.842 60.000 0.00 0.00 38.76 4.79
1626 1978 1.890876 TGGTTCGGATGGTGAAACAG 58.109 50.000 0.00 0.00 38.08 3.16
1649 2001 9.495572 ACAGAAGATACTAAACCAGAAAAGAAG 57.504 33.333 0.00 0.00 0.00 2.85
1657 2009 5.907866 AAACCAGAAAAGAAGAAACGGAA 57.092 34.783 0.00 0.00 0.00 4.30
1658 2010 5.907866 AACCAGAAAAGAAGAAACGGAAA 57.092 34.783 0.00 0.00 0.00 3.13
1855 2207 6.070366 TCAGTTCATGAATCTGAGGATGAAGT 60.070 38.462 24.55 8.74 34.02 3.01
2199 2553 4.510167 TCATCCCCTTTTCATCCTTCTC 57.490 45.455 0.00 0.00 0.00 2.87
2221 2576 7.130917 TCTCTACTATATTGCGAAACGTCTTC 58.869 38.462 0.00 0.00 0.00 2.87
2222 2577 6.788243 TCTACTATATTGCGAAACGTCTTCA 58.212 36.000 0.00 0.00 0.00 3.02
2528 2885 3.194968 TCGAGGGATCAACCTTAAGACAC 59.805 47.826 3.36 0.00 42.10 3.67
2529 2886 3.056107 CGAGGGATCAACCTTAAGACACA 60.056 47.826 3.36 0.00 42.10 3.72
2534 2891 4.142600 GGATCAACCTTAAGACACATGTGC 60.143 45.833 25.68 17.50 35.41 4.57
2611 2968 6.927294 ACCTTCTGTTCTGTTTAAAGTCTG 57.073 37.500 0.00 0.00 0.00 3.51
2688 3045 4.515191 TGACCTGACTGATGTTTTTAGTGC 59.485 41.667 0.00 0.00 0.00 4.40
2732 3089 7.396540 AGATATTTGTTTCACTTGATGACCC 57.603 36.000 0.00 0.00 36.92 4.46
2851 3209 3.131046 GGTCCATACTTTTTGCCCATCTG 59.869 47.826 0.00 0.00 0.00 2.90
3444 3802 2.365941 GGTCTCACTGGAACCTATAGCC 59.634 54.545 0.00 0.00 0.00 3.93
3814 4172 6.942532 TTTTGTACTCAGCATTCAGAACTT 57.057 33.333 0.00 0.00 0.00 2.66
3889 4247 8.958506 AGATCTACATAGTAAACGAGTGAGTTT 58.041 33.333 0.00 0.78 45.22 2.66
4099 4457 1.938585 ACCAGAACTTCATCTCCCGA 58.061 50.000 0.00 0.00 0.00 5.14
4100 4458 2.472029 ACCAGAACTTCATCTCCCGAT 58.528 47.619 0.00 0.00 0.00 4.18
4101 4459 2.169352 ACCAGAACTTCATCTCCCGATG 59.831 50.000 0.00 0.00 46.73 3.84
4102 4460 2.208431 CAGAACTTCATCTCCCGATGC 58.792 52.381 0.00 0.00 45.32 3.91
4103 4461 1.139853 AGAACTTCATCTCCCGATGCC 59.860 52.381 0.00 0.00 45.32 4.40
4104 4462 0.179073 AACTTCATCTCCCGATGCCG 60.179 55.000 0.00 0.00 45.32 5.69
4338 4696 2.107204 AGAGGCACAGAAACTGGTTCAT 59.893 45.455 8.34 0.00 38.86 2.57
4588 4951 3.313249 TCATTGTTGACTGTTGTCTGCAG 59.687 43.478 7.63 7.63 43.29 4.41
4753 5116 4.750098 TCACAAGTTAGTGCTTTACTGCTC 59.250 41.667 0.00 0.00 40.65 4.26
4965 5333 0.394352 ATCGGTCCATGAACCTTGCC 60.394 55.000 0.00 0.00 37.15 4.52
5011 5379 2.849120 CTTCTCCCTGTCGCTGGCAG 62.849 65.000 10.94 10.94 0.00 4.85
5040 5408 3.047877 GTCAACCTGGCGAACCCG 61.048 66.667 0.00 0.00 35.87 5.28
5142 5510 0.101219 ACGTCTTTACCCGTATCGCC 59.899 55.000 0.00 0.00 35.16 5.54
5227 5595 2.960688 AAGGACGCAGGGAAGGAGC 61.961 63.158 0.00 0.00 0.00 4.70
5356 5735 4.434330 GCTCTCAGTTTTGTTCGGTATTCG 60.434 45.833 0.00 0.00 40.90 3.34
5369 5748 3.057734 CGGTATTCGGAGGAAATGTAGC 58.942 50.000 0.00 0.00 35.40 3.58
5386 5765 2.335316 AGCCAGGTCGTTTTTGTACA 57.665 45.000 0.00 0.00 0.00 2.90
5388 5767 1.002142 GCCAGGTCGTTTTTGTACACC 60.002 52.381 0.00 0.00 0.00 4.16
5397 5779 4.876679 TCGTTTTTGTACACCACATGAGAA 59.123 37.500 0.00 0.00 36.90 2.87
5400 5782 4.764679 TTTGTACACCACATGAGAATGC 57.235 40.909 0.00 0.00 36.90 3.56
5521 5910 4.206477 TGCTGTCTGCTGTGTATACATT 57.794 40.909 9.18 0.00 43.37 2.71
5545 5934 2.424956 GTTCCATCTGCCCTGAACATTC 59.575 50.000 0.00 0.00 37.60 2.67
5573 5963 8.220559 AGGTTAACTAATGATGCCATAACAGAT 58.779 33.333 5.42 0.00 31.59 2.90
5589 5982 4.574674 ACAGATGGCACCTTCTCATAAA 57.425 40.909 2.22 0.00 0.00 1.40
5609 6002 8.952278 TCATAAAACGTAGGATTAACTTGCAAT 58.048 29.630 0.00 0.00 0.00 3.56
5619 6012 6.014327 AGGATTAACTTGCAATTGGTGATTGT 60.014 34.615 7.72 0.00 45.62 2.71
5621 6014 7.148590 GGATTAACTTGCAATTGGTGATTGTTC 60.149 37.037 7.72 0.00 45.62 3.18
5624 6017 5.232463 ACTTGCAATTGGTGATTGTTCATC 58.768 37.500 7.72 0.00 45.62 2.92
5626 6019 6.209192 ACTTGCAATTGGTGATTGTTCATCTA 59.791 34.615 7.72 0.00 45.62 1.98
5646 6039 8.102676 TCATCTATTTTGACAAACTGATGAGGA 58.897 33.333 22.40 13.35 38.13 3.71
5652 6045 5.144692 TGACAAACTGATGAGGAGAAGAG 57.855 43.478 0.00 0.00 0.00 2.85
5668 6063 5.010617 GGAGAAGAGGCCTCAAATAGACTAG 59.989 48.000 33.90 0.00 32.48 2.57
5801 6196 1.148310 CTCTGCAACAAGGTACACGG 58.852 55.000 0.00 0.00 0.00 4.94
5809 6210 4.201783 GCAACAAGGTACACGGAACATATC 60.202 45.833 0.00 0.00 0.00 1.63
5823 6224 5.872617 CGGAACATATCACACTTTGGTTCTA 59.127 40.000 0.00 0.00 34.96 2.10
5842 6243 9.295825 TGGTTCTATTTTGAATTACACATGACT 57.704 29.630 0.00 0.00 0.00 3.41
5879 6285 2.760092 TGTGCATGAGAAATAAAGGGGC 59.240 45.455 0.00 0.00 0.00 5.80
5887 6293 2.110578 GAAATAAAGGGGCCAGCACAT 58.889 47.619 4.39 0.00 0.00 3.21
5888 6294 1.488390 AATAAAGGGGCCAGCACATG 58.512 50.000 4.39 0.00 0.00 3.21
5889 6295 1.044790 ATAAAGGGGCCAGCACATGC 61.045 55.000 4.39 0.00 42.49 4.06
5890 6296 2.438074 TAAAGGGGCCAGCACATGCA 62.438 55.000 4.39 0.00 45.16 3.96
5921 6327 1.486310 TGACTGAAGAGCTGTGTGGTT 59.514 47.619 0.00 0.00 0.00 3.67
6059 6465 3.544285 CGTCGAAGATGTAGTTGAGCTTC 59.456 47.826 0.00 0.00 40.67 3.86
6106 6519 4.213482 ACGACAAACAAGATAGAACAAGCC 59.787 41.667 0.00 0.00 0.00 4.35
6120 6533 2.775890 ACAAGCCTCATCAGTGAACTG 58.224 47.619 3.98 3.98 45.08 3.16
6127 6540 3.188048 CCTCATCAGTGAACTGTTGAAGC 59.812 47.826 19.52 0.00 46.15 3.86
6177 6591 1.598701 GGAAGATGTGGCTGGTTGGC 61.599 60.000 0.00 0.00 42.18 4.52
6222 6636 0.750850 GGCCGAAGAGCAGGTACATA 59.249 55.000 0.00 0.00 0.00 2.29
6228 6642 3.493350 CGAAGAGCAGGTACATAAGGCAT 60.493 47.826 0.00 0.00 0.00 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 3.528370 CGATCCCTTCCGTCGCCT 61.528 66.667 0.00 0.00 0.00 5.52
34 35 4.424430 CGAAAACGGACGGCTGCG 62.424 66.667 0.00 0.00 37.24 5.18
36 37 1.491563 CTTCGAAAACGGACGGCTG 59.508 57.895 0.00 0.00 0.00 4.85
37 38 2.315386 GCTTCGAAAACGGACGGCT 61.315 57.895 0.00 0.00 0.00 5.52
48 49 0.599204 GGTCTGACCGTTGCTTCGAA 60.599 55.000 11.71 0.00 0.00 3.71
449 686 2.358737 CCTTGTGGCTCGTGGGAC 60.359 66.667 0.00 0.00 0.00 4.46
652 973 3.825328 AGCTCAACCAAAGTCTCACAAT 58.175 40.909 0.00 0.00 0.00 2.71
779 1126 2.681706 CCGCAGACCAGATACATGATC 58.318 52.381 0.00 0.00 34.40 2.92
888 1235 7.549839 TCAATGCCTCTCCATTTTATTTCTTG 58.450 34.615 0.00 0.00 33.35 3.02
1305 1657 4.864704 TCTTATTTTTGCCACCCTGAAC 57.135 40.909 0.00 0.00 0.00 3.18
1331 1683 0.537143 GTTCCATGGACACCACTGCA 60.537 55.000 15.91 0.00 35.80 4.41
1556 1908 4.543590 AAGATCGTCCATACCATCATCC 57.456 45.455 0.00 0.00 0.00 3.51
1649 2001 9.692749 AGATTCTTATTTTTCCTTTTCCGTTTC 57.307 29.630 0.00 0.00 0.00 2.78
1658 2010 9.759473 TCATCCTTCAGATTCTTATTTTTCCTT 57.241 29.630 0.00 0.00 30.59 3.36
1855 2207 2.323939 CGTTTCAACCGCATTAAGCA 57.676 45.000 0.00 0.00 46.13 3.91
1877 2229 0.468226 ACTTCGCCTTTGACACAGGA 59.532 50.000 12.00 0.00 32.41 3.86
1880 2232 3.120321 ACATACTTCGCCTTTGACACA 57.880 42.857 0.00 0.00 0.00 3.72
2199 2553 7.431376 TCTTGAAGACGTTTCGCAATATAGTAG 59.569 37.037 0.00 0.00 0.00 2.57
2277 2632 3.056821 TGGAACCGACTGTGAACAGATAG 60.057 47.826 17.11 7.05 46.59 2.08
2528 2885 3.630769 AGTTTATCATCTGCCTGCACATG 59.369 43.478 1.46 1.46 0.00 3.21
2529 2886 3.630769 CAGTTTATCATCTGCCTGCACAT 59.369 43.478 0.00 0.00 0.00 3.21
2534 2891 5.188434 TCTTTCCAGTTTATCATCTGCCTG 58.812 41.667 0.00 0.00 0.00 4.85
2611 2968 2.487934 CACAGCATGCCAGGATAGTAC 58.512 52.381 15.66 0.00 42.53 2.73
2732 3089 4.990543 TGAGCACTAAAAACATCAGTCG 57.009 40.909 0.00 0.00 0.00 4.18
2851 3209 8.671028 AGTACCATTACCGAATCAAAAACATAC 58.329 33.333 0.00 0.00 0.00 2.39
3041 3399 4.149511 TGCAAATACAGCAGCATACCTA 57.850 40.909 0.00 0.00 37.02 3.08
3209 3567 1.755783 GCAAGGCAGAAGGGATGGG 60.756 63.158 0.00 0.00 0.00 4.00
3387 3745 6.785488 ATGACGTCGAATATGCACAAATAT 57.215 33.333 11.62 0.00 0.00 1.28
3546 3904 2.369860 TGTTGAGACATCCAGCTCTGTT 59.630 45.455 0.00 0.00 32.44 3.16
3814 4172 1.892474 GCAATTTGGACTGCCTTACCA 59.108 47.619 0.00 0.00 32.18 3.25
3889 4247 5.606348 AAAACAGGTGCATAAAACAAGGA 57.394 34.783 0.00 0.00 0.00 3.36
4099 4457 0.035152 TTCTGTTCAGGCATCGGCAT 60.035 50.000 0.00 0.00 43.71 4.40
4100 4458 0.250684 TTTCTGTTCAGGCATCGGCA 60.251 50.000 0.00 0.00 43.71 5.69
4101 4459 0.169009 GTTTCTGTTCAGGCATCGGC 59.831 55.000 0.00 0.00 40.13 5.54
4102 4460 0.804989 GGTTTCTGTTCAGGCATCGG 59.195 55.000 0.00 0.00 0.00 4.18
4103 4461 1.813513 AGGTTTCTGTTCAGGCATCG 58.186 50.000 0.00 0.00 0.00 3.84
4104 4462 4.550422 GAAAAGGTTTCTGTTCAGGCATC 58.450 43.478 0.00 0.00 37.23 3.91
4490 4851 3.995048 TGACACACGTACACACAGAAAAA 59.005 39.130 0.00 0.00 0.00 1.94
4999 5367 3.420606 CAGTGCTGCCAGCGACAG 61.421 66.667 12.80 4.90 46.26 3.51
5085 5453 2.964740 TCTTTCTGCATCAAGGTCTCG 58.035 47.619 5.43 0.00 0.00 4.04
5227 5595 2.479049 CGATCTTGAATTTGCCAGCCAG 60.479 50.000 0.00 0.00 0.00 4.85
5356 5735 1.473434 CGACCTGGCTACATTTCCTCC 60.473 57.143 0.00 0.00 0.00 4.30
5369 5748 2.032426 GTGGTGTACAAAAACGACCTGG 59.968 50.000 0.00 0.00 0.00 4.45
5386 5765 4.828939 TCAAAGAAAGCATTCTCATGTGGT 59.171 37.500 4.40 0.00 45.19 4.16
5388 5767 7.597369 TCAATTCAAAGAAAGCATTCTCATGTG 59.403 33.333 4.40 2.12 45.19 3.21
5397 5779 6.403049 TGCATCATCAATTCAAAGAAAGCAT 58.597 32.000 0.00 0.00 0.00 3.79
5460 5843 7.549488 ACTGCATCTCCAAAGTTTGTATAGTAC 59.451 37.037 14.36 0.00 0.00 2.73
5521 5910 2.642311 TGTTCAGGGCAGATGGAACTTA 59.358 45.455 0.00 0.00 40.12 2.24
5545 5934 7.995289 TGTTATGGCATCATTAGTTAACCTTG 58.005 34.615 1.65 0.00 34.96 3.61
5573 5963 3.134574 ACGTTTTATGAGAAGGTGCCA 57.865 42.857 0.00 0.00 0.00 4.92
5576 5966 8.601476 GTTAATCCTACGTTTTATGAGAAGGTG 58.399 37.037 0.00 0.00 0.00 4.00
5577 5967 8.537858 AGTTAATCCTACGTTTTATGAGAAGGT 58.462 33.333 0.00 0.00 0.00 3.50
5582 5973 7.970384 TGCAAGTTAATCCTACGTTTTATGAG 58.030 34.615 0.00 0.00 0.00 2.90
5589 5982 5.475564 ACCAATTGCAAGTTAATCCTACGTT 59.524 36.000 4.94 0.00 0.00 3.99
5609 6002 8.175925 TGTCAAAATAGATGAACAATCACCAA 57.824 30.769 0.00 0.00 38.69 3.67
5619 6012 8.733458 CCTCATCAGTTTGTCAAAATAGATGAA 58.267 33.333 24.35 16.13 42.02 2.57
5621 6014 8.272545 TCCTCATCAGTTTGTCAAAATAGATG 57.727 34.615 20.24 20.24 38.94 2.90
5624 6017 7.912056 TCTCCTCATCAGTTTGTCAAAATAG 57.088 36.000 0.00 0.00 0.00 1.73
5626 6019 7.000472 TCTTCTCCTCATCAGTTTGTCAAAAT 59.000 34.615 0.00 0.00 0.00 1.82
5646 6039 4.898861 CCTAGTCTATTTGAGGCCTCTTCT 59.101 45.833 32.28 18.48 0.00 2.85
5652 6045 3.577919 TCTCCCTAGTCTATTTGAGGCC 58.422 50.000 0.00 0.00 0.00 5.19
5657 6050 5.125739 ACGACACTTCTCCCTAGTCTATTTG 59.874 44.000 0.00 0.00 0.00 2.32
5660 6053 4.506937 ACGACACTTCTCCCTAGTCTAT 57.493 45.455 0.00 0.00 0.00 1.98
5663 6056 2.671632 GCAACGACACTTCTCCCTAGTC 60.672 54.545 0.00 0.00 0.00 2.59
5668 6063 1.531578 GAAAGCAACGACACTTCTCCC 59.468 52.381 0.00 0.00 0.00 4.30
5713 6108 2.113807 TCTCCATGATCAGATGGGCT 57.886 50.000 14.11 0.00 42.95 5.19
5809 6210 9.743057 TGTAATTCAAAATAGAACCAAAGTGTG 57.257 29.630 0.00 0.00 0.00 3.82
5879 6285 1.241990 ACTCTTGCTGCATGTGCTGG 61.242 55.000 14.21 4.55 42.66 4.85
5887 6293 1.963515 TCAGTCAGTACTCTTGCTGCA 59.036 47.619 0.00 0.00 35.52 4.41
5888 6294 2.732412 TCAGTCAGTACTCTTGCTGC 57.268 50.000 0.00 0.00 35.52 5.25
5889 6295 4.484236 CTCTTCAGTCAGTACTCTTGCTG 58.516 47.826 0.00 0.00 36.82 4.41
5890 6296 3.056891 GCTCTTCAGTCAGTACTCTTGCT 60.057 47.826 0.00 0.00 31.97 3.91
5921 6327 2.285069 AGGACGCCCACCCACATA 60.285 61.111 0.00 0.00 33.88 2.29
6120 6533 4.764308 AGGAGAATTCTTCTTGGCTTCAAC 59.236 41.667 10.75 0.00 40.87 3.18
6127 6540 3.688673 GTCTGCAGGAGAATTCTTCTTGG 59.311 47.826 14.01 5.18 40.87 3.61
6177 6591 2.757099 ACACGCCGGGTAGGGTAG 60.757 66.667 2.18 0.00 41.48 3.18
6192 6606 3.818121 CTTCGGCCCCAACGTCACA 62.818 63.158 0.00 0.00 0.00 3.58
6222 6636 1.399714 TCGTCGTCCTCATATGCCTT 58.600 50.000 0.00 0.00 0.00 4.35
6228 6642 2.014857 CAGGAGTTCGTCGTCCTCATA 58.985 52.381 13.27 0.00 41.57 2.15


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

AutoCloner maintained by Alex Coulton.