Multiple sequence alignment - TraesCS3B01G458200

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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 TraesCS3B01G458200 chr3B 100.000 2141 0 0 1 2141 700787055 700784915 0.000000e+00 3954.0
1 TraesCS3B01G458200 chr3B 96.567 2010 66 3 135 2141 201527396 201529405 0.000000e+00 3326.0
2 TraesCS3B01G458200 chr5D 96.816 2010 61 3 135 2141 503218590 503220599 0.000000e+00 3354.0
3 TraesCS3B01G458200 chr5D 96.712 2007 63 3 138 2141 503277851 503275845 0.000000e+00 3338.0
4 TraesCS3B01G458200 chr5D 96.269 2010 72 3 135 2141 6189312 6191321 0.000000e+00 3293.0
5 TraesCS3B01G458200 chr1A 96.766 2010 62 3 135 2141 554512620 554514629 0.000000e+00 3349.0
6 TraesCS3B01G458200 chr3D 96.662 2007 63 4 138 2141 589279169 589277164 0.000000e+00 3332.0
7 TraesCS3B01G458200 chr3D 95.522 67 1 1 1 67 529862689 529862625 2.910000e-19 106.0
8 TraesCS3B01G458200 chr2D 96.888 1992 59 3 153 2141 272564345 272566336 0.000000e+00 3332.0
9 TraesCS3B01G458200 chr2D 89.831 59 6 0 2 60 27904135 27904077 2.280000e-10 76.8
10 TraesCS3B01G458200 chr6D 96.610 2006 65 3 139 2141 168255302 168257307 0.000000e+00 3325.0
11 TraesCS3B01G458200 chr3A 96.413 2007 67 5 138 2141 672909632 672907628 0.000000e+00 3302.0


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 TraesCS3B01G458200 chr3B 700784915 700787055 2140 True 3954 3954 100.000 1 2141 1 chr3B.!!$R1 2140
1 TraesCS3B01G458200 chr3B 201527396 201529405 2009 False 3326 3326 96.567 135 2141 1 chr3B.!!$F1 2006
2 TraesCS3B01G458200 chr5D 503218590 503220599 2009 False 3354 3354 96.816 135 2141 1 chr5D.!!$F2 2006
3 TraesCS3B01G458200 chr5D 503275845 503277851 2006 True 3338 3338 96.712 138 2141 1 chr5D.!!$R1 2003
4 TraesCS3B01G458200 chr5D 6189312 6191321 2009 False 3293 3293 96.269 135 2141 1 chr5D.!!$F1 2006
5 TraesCS3B01G458200 chr1A 554512620 554514629 2009 False 3349 3349 96.766 135 2141 1 chr1A.!!$F1 2006
6 TraesCS3B01G458200 chr3D 589277164 589279169 2005 True 3332 3332 96.662 138 2141 1 chr3D.!!$R2 2003
7 TraesCS3B01G458200 chr2D 272564345 272566336 1991 False 3332 3332 96.888 153 2141 1 chr2D.!!$F1 1988
8 TraesCS3B01G458200 chr6D 168255302 168257307 2005 False 3325 3325 96.610 139 2141 1 chr6D.!!$F1 2002
9 TraesCS3B01G458200 chr3A 672907628 672909632 2004 True 3302 3302 96.413 138 2141 1 chr3A.!!$R1 2003

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
63 64 0.322456 TCTTGGATTTGGGCCTCACG 60.322 55.0 4.53 0.0 0.0 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1600 1606 0.175073 GGAACTCGCGGTTATGGACT 59.825 55.0 6.13 0.0 38.41 3.85 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
40 41 3.520862 CGGGCCGCATTGAAGCAT 61.521 61.111 15.42 0.00 0.00 3.79
41 42 2.894919 GGGCCGCATTGAAGCATT 59.105 55.556 0.00 0.00 0.00 3.56
42 43 1.519898 GGGCCGCATTGAAGCATTG 60.520 57.895 0.00 0.00 0.00 2.82
43 44 1.216178 GGCCGCATTGAAGCATTGT 59.784 52.632 0.00 0.00 0.00 2.71
44 45 0.390209 GGCCGCATTGAAGCATTGTT 60.390 50.000 0.00 0.00 0.00 2.83
45 46 0.994263 GCCGCATTGAAGCATTGTTC 59.006 50.000 0.00 0.00 0.00 3.18
46 47 1.403249 GCCGCATTGAAGCATTGTTCT 60.403 47.619 0.00 0.00 0.00 3.01
47 48 2.927871 GCCGCATTGAAGCATTGTTCTT 60.928 45.455 0.00 0.00 0.00 2.52
48 49 2.664568 CCGCATTGAAGCATTGTTCTTG 59.335 45.455 0.00 0.00 0.00 3.02
49 50 2.664568 CGCATTGAAGCATTGTTCTTGG 59.335 45.455 0.00 0.00 0.00 3.61
50 51 3.612241 CGCATTGAAGCATTGTTCTTGGA 60.612 43.478 0.00 0.00 0.00 3.53
51 52 4.501071 GCATTGAAGCATTGTTCTTGGAT 58.499 39.130 0.00 0.00 0.00 3.41
52 53 4.933400 GCATTGAAGCATTGTTCTTGGATT 59.067 37.500 0.00 0.00 0.00 3.01
53 54 5.410439 GCATTGAAGCATTGTTCTTGGATTT 59.590 36.000 0.00 0.00 0.00 2.17
54 55 6.619874 GCATTGAAGCATTGTTCTTGGATTTG 60.620 38.462 0.00 0.00 0.00 2.32
55 56 4.885413 TGAAGCATTGTTCTTGGATTTGG 58.115 39.130 0.00 0.00 0.00 3.28
56 57 3.967332 AGCATTGTTCTTGGATTTGGG 57.033 42.857 0.00 0.00 0.00 4.12
57 58 2.027837 AGCATTGTTCTTGGATTTGGGC 60.028 45.455 0.00 0.00 0.00 5.36
58 59 2.936553 GCATTGTTCTTGGATTTGGGCC 60.937 50.000 0.00 0.00 0.00 5.80
59 60 2.397044 TTGTTCTTGGATTTGGGCCT 57.603 45.000 4.53 0.00 0.00 5.19
60 61 1.923356 TGTTCTTGGATTTGGGCCTC 58.077 50.000 4.53 0.00 0.00 4.70
61 62 1.146774 TGTTCTTGGATTTGGGCCTCA 59.853 47.619 4.53 0.00 0.00 3.86
62 63 1.546029 GTTCTTGGATTTGGGCCTCAC 59.454 52.381 4.53 0.00 0.00 3.51
63 64 0.322456 TCTTGGATTTGGGCCTCACG 60.322 55.000 4.53 0.00 0.00 4.35
64 65 0.609131 CTTGGATTTGGGCCTCACGT 60.609 55.000 4.53 0.00 0.00 4.49
65 66 0.608035 TTGGATTTGGGCCTCACGTC 60.608 55.000 4.53 0.00 0.00 4.34
66 67 1.749258 GGATTTGGGCCTCACGTCC 60.749 63.158 4.53 5.60 0.00 4.79
67 68 1.749258 GATTTGGGCCTCACGTCCC 60.749 63.158 4.53 3.07 42.93 4.46
68 69 3.622060 ATTTGGGCCTCACGTCCCG 62.622 63.158 4.53 0.00 45.60 5.14
89 90 3.721706 CCTGGCCTGGGTCCTGTC 61.722 72.222 20.77 0.00 0.00 3.51
90 91 2.608988 CTGGCCTGGGTCCTGTCT 60.609 66.667 3.32 0.00 0.00 3.41
91 92 2.121963 TGGCCTGGGTCCTGTCTT 60.122 61.111 3.32 0.00 0.00 3.01
92 93 2.190488 CTGGCCTGGGTCCTGTCTTC 62.190 65.000 3.32 0.00 0.00 2.87
93 94 2.266055 GCCTGGGTCCTGTCTTCG 59.734 66.667 0.00 0.00 0.00 3.79
94 95 2.266055 CCTGGGTCCTGTCTTCGC 59.734 66.667 0.00 0.00 0.00 4.70
95 96 2.266055 CTGGGTCCTGTCTTCGCC 59.734 66.667 0.00 0.00 0.00 5.54
96 97 3.316573 CTGGGTCCTGTCTTCGCCC 62.317 68.421 0.00 0.00 39.73 6.13
97 98 4.097361 GGGTCCTGTCTTCGCCCC 62.097 72.222 0.00 0.00 33.40 5.80
98 99 3.003763 GGTCCTGTCTTCGCCCCT 61.004 66.667 0.00 0.00 0.00 4.79
99 100 2.266055 GTCCTGTCTTCGCCCCTG 59.734 66.667 0.00 0.00 0.00 4.45
100 101 3.003173 TCCTGTCTTCGCCCCTGG 61.003 66.667 0.00 0.00 0.00 4.45
101 102 3.322466 CCTGTCTTCGCCCCTGGT 61.322 66.667 0.00 0.00 0.00 4.00
102 103 1.987855 CCTGTCTTCGCCCCTGGTA 60.988 63.158 0.00 0.00 0.00 3.25
103 104 1.218316 CTGTCTTCGCCCCTGGTAC 59.782 63.158 0.00 0.00 0.00 3.34
104 105 2.240162 CTGTCTTCGCCCCTGGTACC 62.240 65.000 4.43 4.43 0.00 3.34
105 106 1.988406 GTCTTCGCCCCTGGTACCT 60.988 63.158 14.36 0.00 0.00 3.08
106 107 1.987855 TCTTCGCCCCTGGTACCTG 60.988 63.158 14.36 12.94 0.00 4.00
107 108 2.203877 TTCGCCCCTGGTACCTGT 60.204 61.111 14.36 0.00 0.00 4.00
108 109 0.974010 CTTCGCCCCTGGTACCTGTA 60.974 60.000 14.36 0.00 0.00 2.74
109 110 0.325860 TTCGCCCCTGGTACCTGTAT 60.326 55.000 14.36 0.00 0.00 2.29
110 111 0.325860 TCGCCCCTGGTACCTGTATT 60.326 55.000 14.36 0.00 0.00 1.89
111 112 1.063038 TCGCCCCTGGTACCTGTATTA 60.063 52.381 14.36 0.00 0.00 0.98
112 113 1.975680 CGCCCCTGGTACCTGTATTAT 59.024 52.381 14.36 0.00 0.00 1.28
113 114 2.370849 CGCCCCTGGTACCTGTATTATT 59.629 50.000 14.36 0.00 0.00 1.40
114 115 3.181448 CGCCCCTGGTACCTGTATTATTT 60.181 47.826 14.36 0.00 0.00 1.40
115 116 4.687769 CGCCCCTGGTACCTGTATTATTTT 60.688 45.833 14.36 0.00 0.00 1.82
116 117 5.205821 GCCCCTGGTACCTGTATTATTTTT 58.794 41.667 14.36 0.00 0.00 1.94
117 118 5.301045 GCCCCTGGTACCTGTATTATTTTTC 59.699 44.000 14.36 0.00 0.00 2.29
118 119 5.831525 CCCCTGGTACCTGTATTATTTTTCC 59.168 44.000 14.36 0.00 0.00 3.13
119 120 6.354477 CCCCTGGTACCTGTATTATTTTTCCT 60.354 42.308 14.36 0.00 0.00 3.36
120 121 6.546034 CCCTGGTACCTGTATTATTTTTCCTG 59.454 42.308 14.36 0.00 0.00 3.86
121 122 7.116736 CCTGGTACCTGTATTATTTTTCCTGT 58.883 38.462 14.36 0.00 0.00 4.00
122 123 7.067008 CCTGGTACCTGTATTATTTTTCCTGTG 59.933 40.741 14.36 0.00 0.00 3.66
123 124 6.376018 TGGTACCTGTATTATTTTTCCTGTGC 59.624 38.462 14.36 0.00 0.00 4.57
124 125 6.376018 GGTACCTGTATTATTTTTCCTGTGCA 59.624 38.462 4.06 0.00 0.00 4.57
125 126 7.068226 GGTACCTGTATTATTTTTCCTGTGCAT 59.932 37.037 4.06 0.00 0.00 3.96
126 127 9.116067 GTACCTGTATTATTTTTCCTGTGCATA 57.884 33.333 0.00 0.00 0.00 3.14
127 128 7.996385 ACCTGTATTATTTTTCCTGTGCATAC 58.004 34.615 0.00 0.00 0.00 2.39
128 129 7.613801 ACCTGTATTATTTTTCCTGTGCATACA 59.386 33.333 0.00 0.00 35.08 2.29
129 130 8.632679 CCTGTATTATTTTTCCTGTGCATACAT 58.367 33.333 0.00 0.00 35.97 2.29
134 135 8.532186 TTATTTTTCCTGTGCATACATATGGT 57.468 30.769 7.80 0.00 35.97 3.55
135 136 6.849085 TTTTTCCTGTGCATACATATGGTT 57.151 33.333 7.80 0.00 35.97 3.67
136 137 7.946381 TTTTTCCTGTGCATACATATGGTTA 57.054 32.000 7.80 0.00 35.97 2.85
147 148 6.877322 GCATACATATGGTTACGATTAGGGTT 59.123 38.462 7.80 0.00 34.32 4.11
163 164 8.145767 CGATTAGGGTTGTATTCTATGGTTACA 58.854 37.037 0.00 0.00 0.00 2.41
261 263 3.494398 GCCTTGCGGTAATGATTCCTCTA 60.494 47.826 0.00 0.00 0.00 2.43
311 313 8.826710 GTGTCGTCCATAGATCAAATTATTTCA 58.173 33.333 0.00 0.00 0.00 2.69
339 341 3.072330 TGGATTTCACTTGCCTGTCTACA 59.928 43.478 0.00 0.00 0.00 2.74
340 342 4.263462 TGGATTTCACTTGCCTGTCTACAT 60.263 41.667 0.00 0.00 0.00 2.29
348 350 4.288626 ACTTGCCTGTCTACATTTCCCTTA 59.711 41.667 0.00 0.00 0.00 2.69
372 375 1.130561 GTGCTCGGATAGGTGTTTTGC 59.869 52.381 0.00 0.00 0.00 3.68
581 585 3.771577 AAGAAGAGTTCGACCCAATGT 57.228 42.857 0.00 0.00 34.02 2.71
583 587 3.403038 AGAAGAGTTCGACCCAATGTTG 58.597 45.455 0.00 0.00 34.02 3.33
588 592 6.045072 AGAGTTCGACCCAATGTTGTATTA 57.955 37.500 0.00 0.00 0.00 0.98
589 593 6.650120 AGAGTTCGACCCAATGTTGTATTAT 58.350 36.000 0.00 0.00 0.00 1.28
727 733 1.751351 TGCTCTGAGTTCCAGTATCGG 59.249 52.381 6.53 0.00 43.38 4.18
831 837 3.387962 TCCATGGATAGAGAGCCAGTTT 58.612 45.455 11.44 0.00 46.52 2.66
907 913 7.122948 ACCCGCAAATTTACCAATTATGAGTTA 59.877 33.333 0.00 0.00 31.89 2.24
908 914 8.141268 CCCGCAAATTTACCAATTATGAGTTAT 58.859 33.333 0.00 0.00 31.89 1.89
1059 1065 6.410540 GGAGATGACTATGAAAACACCTCTT 58.589 40.000 0.00 0.00 0.00 2.85
1075 1081 3.209410 CCTCTTTGGATCCTCGAATTGG 58.791 50.000 14.23 3.09 38.35 3.16
1228 1234 5.560724 ACCGGGATCCATTTACTTATGATG 58.439 41.667 15.23 0.00 0.00 3.07
1376 1382 8.665685 ACTAATCGTTTTCATTTACCATCTCAC 58.334 33.333 0.00 0.00 0.00 3.51
1506 1512 5.750352 TCTTTTCATTAAGGTACGAGGGT 57.250 39.130 0.00 0.00 0.00 4.34
1600 1606 7.335627 ACAATGTTCCATACTAAAGGATTCGA 58.664 34.615 0.00 0.00 33.10 3.71
1611 1617 3.454371 AAGGATTCGAGTCCATAACCG 57.546 47.619 26.72 0.00 40.90 4.44
1757 1763 0.901827 TGCGAGCCAAGGTAAGATCA 59.098 50.000 0.00 0.00 0.00 2.92
1785 1791 4.140924 GGGATCATGGGACCCTTTTCTATT 60.141 45.833 13.00 0.00 40.39 1.73
1797 1803 6.946526 ACCCTTTTCTATTAGATAGGAGGGA 58.053 40.000 23.92 0.00 43.24 4.20
1891 1897 2.105134 TGTCAGGAAGCGGGTTTTTCTA 59.895 45.455 0.00 0.00 0.00 2.10
2000 2006 2.616510 CGCAAGATCTTTGGTCTTCCCT 60.617 50.000 4.86 0.00 43.02 4.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 3.067480 AATGCTTCAATGCGGCCCG 62.067 57.895 0.00 0.00 35.36 6.13
24 25 1.519898 CAATGCTTCAATGCGGCCC 60.520 57.895 0.00 0.00 35.36 5.80
25 26 0.390209 AACAATGCTTCAATGCGGCC 60.390 50.000 0.00 0.00 35.36 6.13
26 27 0.994263 GAACAATGCTTCAATGCGGC 59.006 50.000 0.00 0.00 35.36 6.53
27 28 2.642139 AGAACAATGCTTCAATGCGG 57.358 45.000 0.00 0.00 35.36 5.69
28 29 2.664568 CCAAGAACAATGCTTCAATGCG 59.335 45.455 0.00 0.00 35.36 4.73
29 30 3.916761 TCCAAGAACAATGCTTCAATGC 58.083 40.909 0.00 0.00 0.00 3.56
30 31 6.128391 CCAAATCCAAGAACAATGCTTCAATG 60.128 38.462 0.00 0.00 0.00 2.82
31 32 5.935789 CCAAATCCAAGAACAATGCTTCAAT 59.064 36.000 0.00 0.00 0.00 2.57
32 33 5.299148 CCAAATCCAAGAACAATGCTTCAA 58.701 37.500 0.00 0.00 0.00 2.69
33 34 4.262549 CCCAAATCCAAGAACAATGCTTCA 60.263 41.667 0.00 0.00 0.00 3.02
34 35 4.248058 CCCAAATCCAAGAACAATGCTTC 58.752 43.478 0.00 0.00 0.00 3.86
35 36 3.557686 GCCCAAATCCAAGAACAATGCTT 60.558 43.478 0.00 0.00 0.00 3.91
36 37 2.027837 GCCCAAATCCAAGAACAATGCT 60.028 45.455 0.00 0.00 0.00 3.79
37 38 2.349590 GCCCAAATCCAAGAACAATGC 58.650 47.619 0.00 0.00 0.00 3.56
38 39 2.568509 AGGCCCAAATCCAAGAACAATG 59.431 45.455 0.00 0.00 0.00 2.82
39 40 2.833943 GAGGCCCAAATCCAAGAACAAT 59.166 45.455 0.00 0.00 0.00 2.71
40 41 2.247358 GAGGCCCAAATCCAAGAACAA 58.753 47.619 0.00 0.00 0.00 2.83
41 42 1.146774 TGAGGCCCAAATCCAAGAACA 59.853 47.619 0.00 0.00 0.00 3.18
42 43 1.546029 GTGAGGCCCAAATCCAAGAAC 59.454 52.381 0.00 0.00 0.00 3.01
43 44 1.886222 CGTGAGGCCCAAATCCAAGAA 60.886 52.381 0.00 0.00 0.00 2.52
44 45 0.322456 CGTGAGGCCCAAATCCAAGA 60.322 55.000 0.00 0.00 0.00 3.02
45 46 0.609131 ACGTGAGGCCCAAATCCAAG 60.609 55.000 0.00 0.00 0.00 3.61
46 47 0.608035 GACGTGAGGCCCAAATCCAA 60.608 55.000 0.00 0.00 0.00 3.53
47 48 1.002624 GACGTGAGGCCCAAATCCA 60.003 57.895 0.00 0.00 0.00 3.41
48 49 3.905249 GACGTGAGGCCCAAATCC 58.095 61.111 0.00 0.00 0.00 3.01
72 73 3.721706 GACAGGACCCAGGCCAGG 61.722 72.222 7.34 7.34 0.00 4.45
73 74 2.190488 GAAGACAGGACCCAGGCCAG 62.190 65.000 5.01 0.00 0.00 4.85
74 75 2.121963 AAGACAGGACCCAGGCCA 60.122 61.111 5.01 0.00 0.00 5.36
75 76 2.671682 GAAGACAGGACCCAGGCC 59.328 66.667 0.00 0.00 0.00 5.19
76 77 2.266055 CGAAGACAGGACCCAGGC 59.734 66.667 0.00 0.00 0.00 4.85
77 78 2.266055 GCGAAGACAGGACCCAGG 59.734 66.667 0.00 0.00 0.00 4.45
78 79 2.266055 GGCGAAGACAGGACCCAG 59.734 66.667 0.00 0.00 31.66 4.45
79 80 3.319198 GGGCGAAGACAGGACCCA 61.319 66.667 0.00 0.00 37.00 4.51
80 81 4.097361 GGGGCGAAGACAGGACCC 62.097 72.222 0.00 0.00 37.00 4.46
81 82 3.003763 AGGGGCGAAGACAGGACC 61.004 66.667 0.00 0.00 37.00 4.46
82 83 2.266055 CAGGGGCGAAGACAGGAC 59.734 66.667 0.00 0.00 37.00 3.85
83 84 2.449967 TACCAGGGGCGAAGACAGGA 62.450 60.000 0.00 0.00 37.00 3.86
84 85 1.987855 TACCAGGGGCGAAGACAGG 60.988 63.158 0.00 0.00 37.00 4.00
85 86 1.218316 GTACCAGGGGCGAAGACAG 59.782 63.158 0.00 0.00 37.00 3.51
86 87 2.288025 GGTACCAGGGGCGAAGACA 61.288 63.158 7.15 0.00 37.00 3.41
87 88 1.988406 AGGTACCAGGGGCGAAGAC 60.988 63.158 15.94 0.00 0.00 3.01
88 89 1.987855 CAGGTACCAGGGGCGAAGA 60.988 63.158 15.94 0.00 0.00 2.87
89 90 0.974010 TACAGGTACCAGGGGCGAAG 60.974 60.000 15.94 0.00 0.00 3.79
90 91 0.325860 ATACAGGTACCAGGGGCGAA 60.326 55.000 15.94 0.00 0.00 4.70
91 92 0.325860 AATACAGGTACCAGGGGCGA 60.326 55.000 15.94 0.00 0.00 5.54
92 93 1.416243 TAATACAGGTACCAGGGGCG 58.584 55.000 15.94 0.00 0.00 6.13
93 94 4.448720 AAATAATACAGGTACCAGGGGC 57.551 45.455 15.94 0.00 0.00 5.80
94 95 5.831525 GGAAAAATAATACAGGTACCAGGGG 59.168 44.000 15.94 2.94 0.00 4.79
95 96 6.546034 CAGGAAAAATAATACAGGTACCAGGG 59.454 42.308 15.94 5.66 0.00 4.45
96 97 7.067008 CACAGGAAAAATAATACAGGTACCAGG 59.933 40.741 15.94 8.43 0.00 4.45
97 98 7.415206 GCACAGGAAAAATAATACAGGTACCAG 60.415 40.741 15.94 9.05 0.00 4.00
98 99 6.376018 GCACAGGAAAAATAATACAGGTACCA 59.624 38.462 15.94 0.00 0.00 3.25
99 100 6.376018 TGCACAGGAAAAATAATACAGGTACC 59.624 38.462 2.73 2.73 0.00 3.34
100 101 7.385778 TGCACAGGAAAAATAATACAGGTAC 57.614 36.000 0.00 0.00 0.00 3.34
101 102 9.116067 GTATGCACAGGAAAAATAATACAGGTA 57.884 33.333 0.00 0.00 0.00 3.08
102 103 7.613801 TGTATGCACAGGAAAAATAATACAGGT 59.386 33.333 0.00 0.00 0.00 4.00
103 104 7.995289 TGTATGCACAGGAAAAATAATACAGG 58.005 34.615 0.00 0.00 0.00 4.00
108 109 9.146586 ACCATATGTATGCACAGGAAAAATAAT 57.853 29.630 1.24 0.00 38.30 1.28
109 110 8.532186 ACCATATGTATGCACAGGAAAAATAA 57.468 30.769 1.24 0.00 38.30 1.40
110 111 8.532186 AACCATATGTATGCACAGGAAAAATA 57.468 30.769 1.24 0.00 38.30 1.40
111 112 7.422465 AACCATATGTATGCACAGGAAAAAT 57.578 32.000 1.24 0.00 38.30 1.82
112 113 6.849085 AACCATATGTATGCACAGGAAAAA 57.151 33.333 1.24 0.00 38.30 1.94
113 114 6.037720 CGTAACCATATGTATGCACAGGAAAA 59.962 38.462 1.24 0.00 38.30 2.29
114 115 5.525745 CGTAACCATATGTATGCACAGGAAA 59.474 40.000 1.24 0.00 38.30 3.13
115 116 5.053811 CGTAACCATATGTATGCACAGGAA 58.946 41.667 1.24 0.00 38.30 3.36
116 117 4.342665 TCGTAACCATATGTATGCACAGGA 59.657 41.667 1.24 0.00 38.30 3.86
117 118 4.627058 TCGTAACCATATGTATGCACAGG 58.373 43.478 1.24 0.00 38.30 4.00
118 119 6.785488 AATCGTAACCATATGTATGCACAG 57.215 37.500 1.24 0.00 38.30 3.66
119 120 6.871492 CCTAATCGTAACCATATGTATGCACA 59.129 38.462 1.24 0.00 39.52 4.57
120 121 6.312918 CCCTAATCGTAACCATATGTATGCAC 59.687 42.308 1.24 0.00 32.40 4.57
121 122 6.014070 ACCCTAATCGTAACCATATGTATGCA 60.014 38.462 1.24 0.00 32.40 3.96
122 123 6.403878 ACCCTAATCGTAACCATATGTATGC 58.596 40.000 1.24 0.00 32.40 3.14
123 124 7.876068 ACAACCCTAATCGTAACCATATGTATG 59.124 37.037 1.24 0.00 0.00 2.39
124 125 7.970102 ACAACCCTAATCGTAACCATATGTAT 58.030 34.615 1.24 0.00 0.00 2.29
125 126 7.364149 ACAACCCTAATCGTAACCATATGTA 57.636 36.000 1.24 0.00 0.00 2.29
126 127 6.243216 ACAACCCTAATCGTAACCATATGT 57.757 37.500 1.24 0.00 0.00 2.29
127 128 8.842358 AATACAACCCTAATCGTAACCATATG 57.158 34.615 0.00 0.00 0.00 1.78
128 129 8.877195 AGAATACAACCCTAATCGTAACCATAT 58.123 33.333 0.00 0.00 0.00 1.78
129 130 8.253867 AGAATACAACCCTAATCGTAACCATA 57.746 34.615 0.00 0.00 0.00 2.74
130 131 7.133133 AGAATACAACCCTAATCGTAACCAT 57.867 36.000 0.00 0.00 0.00 3.55
131 132 6.549433 AGAATACAACCCTAATCGTAACCA 57.451 37.500 0.00 0.00 0.00 3.67
132 133 7.601508 CCATAGAATACAACCCTAATCGTAACC 59.398 40.741 0.00 0.00 0.00 2.85
133 134 8.146412 ACCATAGAATACAACCCTAATCGTAAC 58.854 37.037 0.00 0.00 0.00 2.50
134 135 8.253867 ACCATAGAATACAACCCTAATCGTAA 57.746 34.615 0.00 0.00 0.00 3.18
135 136 7.844493 ACCATAGAATACAACCCTAATCGTA 57.156 36.000 0.00 0.00 0.00 3.43
136 137 6.742559 ACCATAGAATACAACCCTAATCGT 57.257 37.500 0.00 0.00 0.00 3.73
261 263 4.687483 CGTTGTGGTAAAGGTCGTAATTCT 59.313 41.667 0.00 0.00 0.00 2.40
288 290 9.002600 CCATGAAATAATTTGATCTATGGACGA 57.997 33.333 0.00 0.00 35.69 4.20
311 313 3.449737 CAGGCAAGTGAAATCCAATCCAT 59.550 43.478 0.00 0.00 0.00 3.41
339 341 2.238646 TCCGAGCACACATAAGGGAAAT 59.761 45.455 0.00 0.00 0.00 2.17
340 342 1.626321 TCCGAGCACACATAAGGGAAA 59.374 47.619 0.00 0.00 0.00 3.13
348 350 1.195115 ACACCTATCCGAGCACACAT 58.805 50.000 0.00 0.00 0.00 3.21
372 375 9.872757 ACTTAATAATACGGCGAAACATTTATG 57.127 29.630 16.62 8.78 0.00 1.90
433 437 5.198207 CCCTTCAACCGGGTTATTCTATTT 58.802 41.667 12.95 0.00 36.91 1.40
461 465 6.925610 ACAATGCATTACAGACGTATGATT 57.074 33.333 18.55 1.83 0.00 2.57
519 523 3.318275 GTGAATAGCCATCGACTACCTGA 59.682 47.826 0.00 0.00 0.00 3.86
581 585 8.479689 TCGGGATTCACTAAGACAATAATACAA 58.520 33.333 0.00 0.00 0.00 2.41
583 587 9.490379 AATCGGGATTCACTAAGACAATAATAC 57.510 33.333 0.00 0.00 0.00 1.89
588 592 5.050490 CGAATCGGGATTCACTAAGACAAT 58.950 41.667 18.52 0.00 45.60 2.71
589 593 4.158949 TCGAATCGGGATTCACTAAGACAA 59.841 41.667 18.52 0.00 45.60 3.18
680 686 7.413446 AGGAGGGAAAGTCAATTTATGAATGA 58.587 34.615 0.00 0.00 40.50 2.57
684 690 6.772716 GCATAGGAGGGAAAGTCAATTTATGA 59.227 38.462 0.00 0.00 35.05 2.15
692 698 2.768527 CAGAGCATAGGAGGGAAAGTCA 59.231 50.000 0.00 0.00 0.00 3.41
787 793 6.542735 GGAATCTCATCCATCATCCATACATG 59.457 42.308 0.00 0.00 39.42 3.21
907 913 1.134946 GGCTGAATGGTTAAAGCGCAT 59.865 47.619 11.47 0.00 36.50 4.73
908 914 0.525761 GGCTGAATGGTTAAAGCGCA 59.474 50.000 11.47 0.00 36.50 6.09
1007 1013 6.713762 ATTTGCCATCTCGGAATATTTTCA 57.286 33.333 0.00 0.00 36.56 2.69
1059 1065 3.774766 TCTCTTCCAATTCGAGGATCCAA 59.225 43.478 15.82 0.00 34.56 3.53
1075 1081 5.598005 TCTTGATCCCTCTCAATCTCTCTTC 59.402 44.000 0.00 0.00 34.76 2.87
1296 1302 8.874156 TGTCTGATAATGAGCAAGGAATATACT 58.126 33.333 0.00 0.00 0.00 2.12
1376 1382 2.924880 GCGGAATGAAAAGGGTTTTCCG 60.925 50.000 15.87 15.87 46.49 4.30
1486 1492 6.536447 AGAAACCCTCGTACCTTAATGAAAA 58.464 36.000 0.00 0.00 0.00 2.29
1524 1530 6.219417 TGAAAGAATGAAAAGGTGCTTTCA 57.781 33.333 0.00 0.00 46.45 2.69
1600 1606 0.175073 GGAACTCGCGGTTATGGACT 59.825 55.000 6.13 0.00 38.41 3.85
1611 1617 0.243907 TCTAGTGCACTGGAACTCGC 59.756 55.000 28.42 0.00 33.80 5.03
1726 1732 1.285950 GCTCGCAAACCCCAAGTTC 59.714 57.895 0.00 0.00 37.88 3.01
1757 1763 2.143419 GGTCCCATGATCCCGAGCT 61.143 63.158 0.00 0.00 0.00 4.09
1785 1791 5.988865 TGTACAAGAGTCCCTCCTATCTA 57.011 43.478 0.00 0.00 0.00 1.98
1891 1897 4.223144 AGTTTGAAGTACCTTTTGGCCAT 58.777 39.130 6.09 0.00 45.59 4.40
2027 2033 6.863275 TCATTCTGAGCGAGTACATAAGAAA 58.137 36.000 0.00 0.00 0.00 2.52


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

AutoCloner maintained by Alex Coulton.