Multiple sequence alignment - TraesCS7A01G551300

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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 TraesCS7A01G551300 chr7A 100.000 2997 0 0 1 2997 724968369 724965373 0.000000e+00 5535.0
1 TraesCS7A01G551300 chr3D 88.860 1921 181 16 1106 2997 29704998 29706914 0.000000e+00 2331.0
2 TraesCS7A01G551300 chr3A 87.363 1915 187 23 1108 2997 40362749 40364633 0.000000e+00 2145.0
3 TraesCS7A01G551300 chr7B 87.481 1925 140 55 148 2031 730818905 730817041 0.000000e+00 2126.0
4 TraesCS7A01G551300 chr7B 97.297 518 10 1 2484 2997 730816238 730815721 0.000000e+00 876.0
5 TraesCS7A01G551300 chr7B 96.085 281 8 2 2206 2484 730816947 730816668 3.520000e-124 455.0
6 TraesCS7A01G551300 chr7B 97.436 39 0 1 61 99 730819088 730819051 6.930000e-07 65.8
7 TraesCS7A01G551300 chr7D 92.886 1462 86 9 574 2031 628210992 628212439 0.000000e+00 2108.0
8 TraesCS7A01G551300 chr7D 95.244 799 25 5 2206 2997 628212545 628213337 0.000000e+00 1253.0
9 TraesCS7A01G551300 chr7D 84.507 497 39 15 95 573 628210479 628210955 9.790000e-125 457.0
10 TraesCS7A01G551300 chr7D 95.000 40 2 0 2613 2652 418919026 418918987 2.490000e-06 63.9
11 TraesCS7A01G551300 chr7D 100.000 28 0 0 2107 2134 628212482 628212509 5.000000e-03 52.8
12 TraesCS7A01G551300 chr3B 89.557 1197 86 19 1821 2997 50937038 50938215 0.000000e+00 1482.0
13 TraesCS7A01G551300 chr3B 87.041 1034 120 8 1106 2128 50932416 50933446 0.000000e+00 1155.0
14 TraesCS7A01G551300 chr3B 86.278 532 44 20 2165 2689 50933449 50933958 4.370000e-153 551.0
15 TraesCS7A01G551300 chr3B 85.127 316 20 5 2687 2997 50936662 50936955 6.280000e-77 298.0


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 TraesCS7A01G551300 chr7A 724965373 724968369 2996 True 5535.0 5535 100.00000 1 2997 1 chr7A.!!$R1 2996
1 TraesCS7A01G551300 chr3D 29704998 29706914 1916 False 2331.0 2331 88.86000 1106 2997 1 chr3D.!!$F1 1891
2 TraesCS7A01G551300 chr3A 40362749 40364633 1884 False 2145.0 2145 87.36300 1108 2997 1 chr3A.!!$F1 1889
3 TraesCS7A01G551300 chr7B 730815721 730819088 3367 True 880.7 2126 94.57475 61 2997 4 chr7B.!!$R1 2936
4 TraesCS7A01G551300 chr7D 628210479 628213337 2858 False 967.7 2108 93.15925 95 2997 4 chr7D.!!$F1 2902
5 TraesCS7A01G551300 chr3B 50932416 50938215 5799 False 871.5 1482 87.00075 1106 2997 4 chr3B.!!$F1 1891

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
806 986 0.033109 GCCCTCCCAGCAACCTAAAT 60.033 55.0 0.0 0.0 0.0 1.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2225 6357 0.744414 TCTTCAATAGGCTGGTGCGC 60.744 55.0 0.0 0.0 40.82 6.09 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 3.114527 TCAAATCGGATGGCCATGG 57.885 52.632 26.56 15.21 0.00 3.66
19 20 0.550432 TCAAATCGGATGGCCATGGA 59.450 50.000 26.56 20.35 0.00 3.41
20 21 0.956633 CAAATCGGATGGCCATGGAG 59.043 55.000 26.56 14.07 0.00 3.86
21 22 0.846015 AAATCGGATGGCCATGGAGA 59.154 50.000 26.56 19.08 0.00 3.71
22 23 1.070604 AATCGGATGGCCATGGAGAT 58.929 50.000 26.56 20.46 0.00 2.75
23 24 0.327259 ATCGGATGGCCATGGAGATG 59.673 55.000 26.56 6.05 0.00 2.90
24 25 0.763986 TCGGATGGCCATGGAGATGA 60.764 55.000 26.56 8.46 0.00 2.92
25 26 0.604780 CGGATGGCCATGGAGATGAC 60.605 60.000 26.56 5.49 0.00 3.06
26 27 0.604780 GGATGGCCATGGAGATGACG 60.605 60.000 26.56 0.00 0.00 4.35
27 28 0.604780 GATGGCCATGGAGATGACGG 60.605 60.000 26.56 0.00 0.00 4.79
28 29 1.056125 ATGGCCATGGAGATGACGGA 61.056 55.000 20.04 0.00 0.00 4.69
29 30 1.227674 GGCCATGGAGATGACGGAC 60.228 63.158 18.40 0.00 0.00 4.79
30 31 1.522092 GCCATGGAGATGACGGACA 59.478 57.895 18.40 0.00 0.00 4.02
31 32 0.107456 GCCATGGAGATGACGGACAT 59.893 55.000 18.40 0.00 42.47 3.06
32 33 1.875009 CCATGGAGATGACGGACATG 58.125 55.000 5.56 0.00 39.56 3.21
33 34 1.224075 CATGGAGATGACGGACATGC 58.776 55.000 0.00 0.00 39.56 4.06
34 35 0.249615 ATGGAGATGACGGACATGCG 60.250 55.000 0.00 0.00 39.56 4.73
35 36 2.240500 GGAGATGACGGACATGCGC 61.241 63.158 0.00 0.00 39.56 6.09
36 37 2.580470 GAGATGACGGACATGCGCG 61.580 63.158 0.00 0.00 39.56 6.86
37 38 2.582226 GATGACGGACATGCGCGA 60.582 61.111 12.10 0.00 39.56 5.87
38 39 2.580470 GATGACGGACATGCGCGAG 61.580 63.158 12.10 0.01 39.56 5.03
39 40 3.356639 ATGACGGACATGCGCGAGT 62.357 57.895 12.10 4.22 37.87 4.18
40 41 3.248171 GACGGACATGCGCGAGTC 61.248 66.667 20.01 20.01 0.00 3.36
41 42 3.964221 GACGGACATGCGCGAGTCA 62.964 63.158 26.44 8.05 36.50 3.41
42 43 2.583319 CGGACATGCGCGAGTCAT 60.583 61.111 26.44 9.88 36.50 3.06
43 44 2.580470 CGGACATGCGCGAGTCATC 61.580 63.158 26.44 13.65 36.50 2.92
44 45 1.227089 GGACATGCGCGAGTCATCT 60.227 57.895 26.44 1.62 36.50 2.90
45 46 1.485838 GGACATGCGCGAGTCATCTG 61.486 60.000 26.44 6.67 36.50 2.90
46 47 2.087095 GACATGCGCGAGTCATCTGC 62.087 60.000 22.33 0.00 34.93 4.26
47 48 2.958543 ATGCGCGAGTCATCTGCG 60.959 61.111 12.10 5.86 45.07 5.18
49 50 4.854784 GCGCGAGTCATCTGCGGA 62.855 66.667 12.10 0.00 43.64 5.54
50 51 2.026734 CGCGAGTCATCTGCGGAT 59.973 61.111 0.00 0.90 41.48 4.18
51 52 1.282875 CGCGAGTCATCTGCGGATA 59.717 57.895 7.96 0.00 41.48 2.59
52 53 0.109551 CGCGAGTCATCTGCGGATAT 60.110 55.000 7.96 0.00 41.48 1.63
53 54 1.344458 GCGAGTCATCTGCGGATATG 58.656 55.000 7.96 0.00 0.00 1.78
54 55 1.344458 CGAGTCATCTGCGGATATGC 58.656 55.000 7.96 1.49 0.00 3.14
55 56 1.344458 GAGTCATCTGCGGATATGCG 58.656 55.000 12.80 12.80 37.81 4.73
56 57 0.668706 AGTCATCTGCGGATATGCGC 60.669 55.000 31.58 31.58 37.81 6.09
57 58 1.734117 TCATCTGCGGATATGCGCG 60.734 57.895 31.80 25.82 37.81 6.86
58 59 1.734117 CATCTGCGGATATGCGCGA 60.734 57.895 31.80 29.23 37.81 5.87
59 60 1.445066 ATCTGCGGATATGCGCGAG 60.445 57.895 31.80 27.54 37.81 5.03
90 91 6.418057 TTCTCATGCCAAAATACCACTTTT 57.582 33.333 0.00 0.00 0.00 2.27
92 93 7.531857 TCTCATGCCAAAATACCACTTTTAA 57.468 32.000 0.00 0.00 0.00 1.52
93 94 8.133024 TCTCATGCCAAAATACCACTTTTAAT 57.867 30.769 0.00 0.00 0.00 1.40
140 228 3.008375 TGGCACTCAGCTCTCAGTTATTT 59.992 43.478 0.00 0.00 44.79 1.40
150 238 8.535335 TCAGCTCTCAGTTATTTCTGAATTACT 58.465 33.333 0.00 0.00 42.73 2.24
153 249 7.225734 GCTCTCAGTTATTTCTGAATTACTCCC 59.774 40.741 0.00 0.00 42.73 4.30
163 259 5.101529 TCTGAATTACTCCCTTTCTCCCTT 58.898 41.667 0.00 0.00 0.00 3.95
207 314 0.742505 TCTAACCCTATCACCACGCG 59.257 55.000 3.53 3.53 0.00 6.01
229 336 2.034558 CGCATCTCTCCTTCCTCTTCTC 59.965 54.545 0.00 0.00 0.00 2.87
395 508 1.984570 TCGCCTAGCCTGCAAGTCT 60.985 57.895 0.00 0.00 0.00 3.24
464 577 4.517703 GCGACCTCGACCTCGACG 62.518 72.222 10.46 0.00 44.22 5.12
576 690 3.917300 CTGTCTCCTTACCTAGTCCCAT 58.083 50.000 0.00 0.00 0.00 4.00
577 691 3.639094 CTGTCTCCTTACCTAGTCCCATG 59.361 52.174 0.00 0.00 0.00 3.66
578 692 3.271225 TGTCTCCTTACCTAGTCCCATGA 59.729 47.826 0.00 0.00 0.00 3.07
582 696 3.773119 TCCTTACCTAGTCCCATGAACAC 59.227 47.826 0.00 0.00 0.00 3.32
612 763 4.370917 GGTTGCTTTCTTTCAGCATTTGA 58.629 39.130 0.00 0.00 46.62 2.69
620 771 6.907206 TTCTTTCAGCATTTGAACAAAAGG 57.093 33.333 4.12 1.93 45.22 3.11
621 772 5.358922 TCTTTCAGCATTTGAACAAAAGGG 58.641 37.500 4.12 0.00 45.22 3.95
638 789 0.307760 GGGATCATGCGGCTTAAACG 59.692 55.000 0.00 0.00 0.00 3.60
642 793 2.439519 ATGCGGCTTAAACGGGGG 60.440 61.111 0.00 0.00 0.00 5.40
691 844 2.962859 AGGCTTGGAAGTTGGAATGTT 58.037 42.857 0.00 0.00 0.00 2.71
694 847 3.305608 GGCTTGGAAGTTGGAATGTTCAG 60.306 47.826 0.00 0.00 0.00 3.02
705 858 4.389374 TGGAATGTTCAGTGAAGAGAACC 58.611 43.478 5.62 10.23 42.57 3.62
743 923 3.308438 AGCAACATCAAACTCATTGCC 57.692 42.857 3.77 0.00 45.36 4.52
806 986 0.033109 GCCCTCCCAGCAACCTAAAT 60.033 55.000 0.00 0.00 0.00 1.40
836 1016 5.533903 AGTTCAGATGTCAAACAAAGCTCAT 59.466 36.000 0.00 0.00 0.00 2.90
846 1026 6.019559 GTCAAACAAAGCTCATTTTTCAGACC 60.020 38.462 0.00 0.00 0.00 3.85
873 1053 8.703336 CGGTTACATCATCAGTAATTCAGTATG 58.297 37.037 0.00 0.00 34.34 2.39
907 1087 6.875948 TTTTACTCATTGCAAGTTGAGCTA 57.124 33.333 23.73 14.90 42.51 3.32
918 1100 2.472029 AGTTGAGCTATACTGCCCACT 58.528 47.619 0.00 0.00 0.00 4.00
997 1181 0.958091 CACGAACCATGAGGCCAAAA 59.042 50.000 5.01 0.00 39.06 2.44
1018 1202 7.415429 CCAAAACAATGGCAAGAAATTTGAGTT 60.415 33.333 13.92 2.64 32.78 3.01
1115 1301 5.590259 AGCTGACACTGTATTGTTTCTGTTT 59.410 36.000 0.00 0.00 0.00 2.83
1162 1348 4.021916 CAAGATGGAAGAAGGGCAAAGAT 58.978 43.478 0.00 0.00 0.00 2.40
1265 1451 5.298276 TCGAAACTTGTGGCAACTTTATCTT 59.702 36.000 0.00 0.00 37.61 2.40
1636 1825 2.684881 CTCAGAGTTTGCTGTGGTTGTT 59.315 45.455 0.00 0.00 36.72 2.83
1747 1936 0.036732 CCAAGGCACTGCTGGTTCTA 59.963 55.000 0.00 0.00 40.86 2.10
1750 1939 0.036875 AGGCACTGCTGGTTCTAACC 59.963 55.000 4.87 4.87 44.22 2.85
1764 1953 5.086104 GTTCTAACCATCTCCAGCAGTAA 57.914 43.478 0.00 0.00 0.00 2.24
1770 1959 2.947652 CCATCTCCAGCAGTAATTGTGG 59.052 50.000 0.00 0.00 32.51 4.17
1772 1961 4.458397 CATCTCCAGCAGTAATTGTGGAT 58.542 43.478 0.00 0.00 36.81 3.41
1837 2026 5.844004 AGAACAATTACTAGGTGGATAGCG 58.156 41.667 0.00 0.00 0.00 4.26
1866 2055 0.941463 CGTGAGCAGCGAAGTGAACT 60.941 55.000 0.00 0.00 0.00 3.01
1883 2075 2.166821 ACTGTGCAGAGAAGAAGCAG 57.833 50.000 19.13 5.73 39.21 4.24
1885 2077 2.339418 CTGTGCAGAGAAGAAGCAGAG 58.661 52.381 4.50 0.00 42.08 3.35
1898 2090 5.240013 AGAAGCAGAGAAGGAAGAACAAT 57.760 39.130 0.00 0.00 0.00 2.71
1903 2095 6.897986 AGCAGAGAAGGAAGAACAATATCAT 58.102 36.000 0.00 0.00 0.00 2.45
1920 2112 6.857777 ATATCATGCAAGAGAAACTGTAGC 57.142 37.500 0.00 0.00 0.00 3.58
1921 2113 3.338249 TCATGCAAGAGAAACTGTAGCC 58.662 45.455 0.00 0.00 0.00 3.93
1932 2124 7.454225 AGAGAAACTGTAGCCTTCAACTATTT 58.546 34.615 0.00 0.00 0.00 1.40
1936 2128 3.352648 TGTAGCCTTCAACTATTTGGGC 58.647 45.455 5.33 5.33 39.27 5.36
1980 2172 9.857957 AGTTCTTTCTAGCTTACTTGTATACAC 57.142 33.333 4.68 0.00 0.00 2.90
1992 2184 4.402793 ACTTGTATACACGCTGAGATTCCT 59.597 41.667 4.68 0.00 0.00 3.36
1994 2186 6.265649 ACTTGTATACACGCTGAGATTCCTAT 59.734 38.462 4.68 0.00 0.00 2.57
2052 6146 7.765819 TGGTGATGTGTAACTTCTCATCTTATG 59.234 37.037 0.00 0.00 41.21 1.90
2073 6167 1.339055 GCAATCCTGTGCCAGTACTCA 60.339 52.381 0.00 0.00 38.66 3.41
2096 6190 6.647481 TCATGTGCATTTTGGAAAGATTTCTG 59.353 34.615 5.37 0.00 37.35 3.02
2105 6204 5.982890 TGGAAAGATTTCTGGAAATGGTC 57.017 39.130 12.51 7.25 40.77 4.02
2143 6252 6.137618 ATACAACTGTATCTGCAGAGTGCAC 61.138 44.000 22.96 9.40 41.78 4.57
2158 6267 5.761726 CAGAGTGCACACATCATATTATGGT 59.238 40.000 21.04 0.00 0.00 3.55
2169 6301 7.494952 CACATCATATTATGGTATGCTCTGGAG 59.505 40.741 3.89 0.00 33.15 3.86
2225 6357 5.413309 ACTAGAAACCTCTGAATGACCAG 57.587 43.478 0.00 0.00 32.70 4.00
2251 6385 5.248640 CACCAGCCTATTGAAGAAAAGAGA 58.751 41.667 0.00 0.00 0.00 3.10
2255 6389 6.201806 CCAGCCTATTGAAGAAAAGAGATACG 59.798 42.308 0.00 0.00 0.00 3.06
2462 6602 9.973246 CAACATGAAGTCTGTAAATACACATAC 57.027 33.333 0.00 0.00 31.93 2.39
2523 7099 8.632906 ATTTGACTTGATCTGTCTCTGAATTT 57.367 30.769 16.32 0.00 35.63 1.82
2653 7229 4.785376 TCTTTCTTCCTATTTGAGGCTCCT 59.215 41.667 12.86 0.00 46.25 3.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 0.956633 CTCCATGGCCATCCGATTTG 59.043 55.000 17.61 3.91 34.14 2.32
3 4 1.070604 ATCTCCATGGCCATCCGATT 58.929 50.000 17.61 2.44 34.14 3.34
7 8 0.604780 CGTCATCTCCATGGCCATCC 60.605 60.000 17.61 0.00 29.89 3.51
9 10 1.056125 TCCGTCATCTCCATGGCCAT 61.056 55.000 14.09 14.09 29.89 4.40
10 11 1.688884 TCCGTCATCTCCATGGCCA 60.689 57.895 8.56 8.56 29.89 5.36
11 12 1.227674 GTCCGTCATCTCCATGGCC 60.228 63.158 6.96 0.00 29.89 5.36
12 13 0.107456 ATGTCCGTCATCTCCATGGC 59.893 55.000 6.96 0.00 29.76 4.40
13 14 1.875009 CATGTCCGTCATCTCCATGG 58.125 55.000 4.97 4.97 34.09 3.66
14 15 1.224075 GCATGTCCGTCATCTCCATG 58.776 55.000 0.00 0.00 36.77 3.66
15 16 0.249615 CGCATGTCCGTCATCTCCAT 60.250 55.000 0.00 0.00 34.09 3.41
16 17 1.141665 CGCATGTCCGTCATCTCCA 59.858 57.895 0.00 0.00 34.09 3.86
17 18 2.240500 GCGCATGTCCGTCATCTCC 61.241 63.158 0.30 0.00 34.09 3.71
18 19 2.580470 CGCGCATGTCCGTCATCTC 61.580 63.158 8.75 0.00 34.09 2.75
19 20 2.583319 CGCGCATGTCCGTCATCT 60.583 61.111 8.75 0.00 34.09 2.90
20 21 2.580470 CTCGCGCATGTCCGTCATC 61.580 63.158 8.75 0.00 34.09 2.92
21 22 2.583319 CTCGCGCATGTCCGTCAT 60.583 61.111 8.75 0.00 37.22 3.06
22 23 3.964221 GACTCGCGCATGTCCGTCA 62.964 63.158 16.08 0.00 0.00 4.35
23 24 3.248171 GACTCGCGCATGTCCGTC 61.248 66.667 16.08 5.50 0.00 4.79
24 25 3.356639 ATGACTCGCGCATGTCCGT 62.357 57.895 21.68 11.34 32.67 4.69
25 26 2.580470 GATGACTCGCGCATGTCCG 61.580 63.158 21.68 0.00 32.67 4.79
26 27 1.227089 AGATGACTCGCGCATGTCC 60.227 57.895 21.68 11.00 32.67 4.02
27 28 1.922903 CAGATGACTCGCGCATGTC 59.077 57.895 18.98 18.98 0.00 3.06
28 29 2.169789 GCAGATGACTCGCGCATGT 61.170 57.895 8.75 4.83 0.00 3.21
29 30 2.624811 GCAGATGACTCGCGCATG 59.375 61.111 8.75 0.77 0.00 4.06
30 31 2.958543 CGCAGATGACTCGCGCAT 60.959 61.111 8.75 0.00 42.79 4.73
34 35 1.344458 CATATCCGCAGATGACTCGC 58.656 55.000 0.00 0.00 33.67 5.03
35 36 1.344458 GCATATCCGCAGATGACTCG 58.656 55.000 0.00 0.00 33.67 4.18
36 37 1.344458 CGCATATCCGCAGATGACTC 58.656 55.000 0.00 0.00 33.67 3.36
37 38 3.504021 CGCATATCCGCAGATGACT 57.496 52.632 0.00 0.00 33.67 3.41
46 47 0.999228 GAGTGACTCGCGCATATCCG 60.999 60.000 8.75 0.00 0.00 4.18
47 48 0.312416 AGAGTGACTCGCGCATATCC 59.688 55.000 8.75 0.00 35.36 2.59
48 49 2.126914 AAGAGTGACTCGCGCATATC 57.873 50.000 8.75 0.87 35.36 1.63
49 50 2.099921 AGAAAGAGTGACTCGCGCATAT 59.900 45.455 8.75 0.00 35.36 1.78
50 51 1.472878 AGAAAGAGTGACTCGCGCATA 59.527 47.619 8.75 0.00 35.36 3.14
51 52 0.244994 AGAAAGAGTGACTCGCGCAT 59.755 50.000 8.75 0.00 35.36 4.73
52 53 0.387367 GAGAAAGAGTGACTCGCGCA 60.387 55.000 8.75 0.00 35.36 6.09
53 54 0.387367 TGAGAAAGAGTGACTCGCGC 60.387 55.000 6.99 0.00 35.36 6.86
54 55 1.916651 CATGAGAAAGAGTGACTCGCG 59.083 52.381 6.99 0.00 35.36 5.87
55 56 1.658095 GCATGAGAAAGAGTGACTCGC 59.342 52.381 6.99 1.13 35.36 5.03
56 57 2.266554 GGCATGAGAAAGAGTGACTCG 58.733 52.381 6.99 0.00 35.36 4.18
57 58 3.325293 TGGCATGAGAAAGAGTGACTC 57.675 47.619 3.98 3.98 0.00 3.36
58 59 3.777106 TTGGCATGAGAAAGAGTGACT 57.223 42.857 0.00 0.00 0.00 3.41
59 60 4.836125 TTTTGGCATGAGAAAGAGTGAC 57.164 40.909 0.00 0.00 0.00 3.67
119 183 2.977772 ATAACTGAGAGCTGAGTGCC 57.022 50.000 0.00 0.00 44.23 5.01
127 191 7.225734 GGGAGTAATTCAGAAATAACTGAGAGC 59.774 40.741 0.00 0.00 45.63 4.09
140 228 4.699994 AGGGAGAAAGGGAGTAATTCAGA 58.300 43.478 0.00 0.00 0.00 3.27
150 238 5.656549 TGTCTTTTTAAGGGAGAAAGGGA 57.343 39.130 0.00 0.00 32.62 4.20
186 282 2.798499 CGCGTGGTGATAGGGTTAGAAG 60.798 54.545 0.00 0.00 0.00 2.85
207 314 0.463620 AAGAGGAAGGAGAGATGCGC 59.536 55.000 0.00 0.00 0.00 6.09
374 487 1.375908 CTTGCAGGCTAGGCGACAA 60.376 57.895 20.42 20.42 0.00 3.18
505 619 0.158928 CAGCAAGAAACGTCGTCGAC 59.841 55.000 15.51 15.51 40.62 4.20
512 626 0.180406 ACAGACCCAGCAAGAAACGT 59.820 50.000 0.00 0.00 0.00 3.99
516 630 1.072331 GAGGAACAGACCCAGCAAGAA 59.928 52.381 0.00 0.00 0.00 2.52
576 690 0.749649 GCAACCCACATTGGTGTTCA 59.250 50.000 0.00 0.00 43.71 3.18
577 691 1.039856 AGCAACCCACATTGGTGTTC 58.960 50.000 0.00 0.00 43.71 3.18
578 692 1.494960 AAGCAACCCACATTGGTGTT 58.505 45.000 0.00 0.00 43.71 3.32
582 696 3.181467 TGAAAGAAAGCAACCCACATTGG 60.181 43.478 0.00 0.00 37.25 3.16
612 763 0.532115 GCCGCATGATCCCTTTTGTT 59.468 50.000 0.00 0.00 0.00 2.83
620 771 0.307760 CCGTTTAAGCCGCATGATCC 59.692 55.000 0.00 0.00 0.00 3.36
621 772 0.307760 CCCGTTTAAGCCGCATGATC 59.692 55.000 0.00 0.00 0.00 2.92
669 822 3.421844 ACATTCCAACTTCCAAGCCTAC 58.578 45.455 0.00 0.00 0.00 3.18
691 844 2.677914 TCCTGTGGTTCTCTTCACTGA 58.322 47.619 0.00 0.00 35.69 3.41
694 847 3.477210 AGTTCCTGTGGTTCTCTTCAC 57.523 47.619 0.00 0.00 34.71 3.18
705 858 8.613060 ATGTTGCTATGATTATAGTTCCTGTG 57.387 34.615 6.40 0.00 38.81 3.66
743 923 5.526115 GGATTATTGGCATTGACACTGATG 58.474 41.667 0.00 0.00 0.00 3.07
806 986 7.862372 GCTTTGTTTGACATCTGAACTTTCATA 59.138 33.333 0.00 0.00 36.46 2.15
836 1016 4.088056 TGATGTAACCGGGTCTGAAAAA 57.912 40.909 6.32 0.00 0.00 1.94
846 1026 6.049149 ACTGAATTACTGATGATGTAACCGG 58.951 40.000 0.00 0.00 33.45 5.28
893 1073 3.009723 GGCAGTATAGCTCAACTTGCAA 58.990 45.455 16.85 0.00 34.17 4.08
918 1100 2.023673 GTGCAGGGCTATAACATTGCA 58.976 47.619 0.00 1.12 39.03 4.08
997 1181 6.165700 AGAACTCAAATTTCTTGCCATTGT 57.834 33.333 0.00 0.00 28.36 2.71
1115 1301 1.202568 CGCCATGTCCATAAGCTGAGA 60.203 52.381 0.00 0.00 0.00 3.27
1492 1681 2.990066 ACATCTCGGGAAATGACTCC 57.010 50.000 0.00 0.00 34.41 3.85
1636 1825 0.832135 ACTCCGCTCCTTCTGGAACA 60.832 55.000 0.00 0.00 42.66 3.18
1681 1870 3.005791 CACACAGTAGATCAGACCACACA 59.994 47.826 0.00 0.00 0.00 3.72
1747 1936 4.012374 CACAATTACTGCTGGAGATGGTT 58.988 43.478 2.24 0.00 0.00 3.67
1750 1939 3.877559 TCCACAATTACTGCTGGAGATG 58.122 45.455 2.24 0.00 33.14 2.90
1764 1953 3.911719 GGGGAGCTCAATCCACAAT 57.088 52.632 17.19 0.00 42.83 2.71
1770 1959 2.725221 ACAATCTGGGGAGCTCAATC 57.275 50.000 17.19 4.66 0.00 2.67
1772 1961 2.978156 AAACAATCTGGGGAGCTCAA 57.022 45.000 17.19 0.00 0.00 3.02
1859 2048 3.726607 CTTCTTCTCTGCACAGTTCACT 58.273 45.455 0.00 0.00 0.00 3.41
1866 2055 1.966354 TCTCTGCTTCTTCTCTGCACA 59.034 47.619 0.00 0.00 32.91 4.57
1883 2075 6.932356 TGCATGATATTGTTCTTCCTTCTC 57.068 37.500 0.00 0.00 0.00 2.87
1885 2077 7.281774 TCTCTTGCATGATATTGTTCTTCCTTC 59.718 37.037 2.33 0.00 0.00 3.46
1898 2090 5.104776 AGGCTACAGTTTCTCTTGCATGATA 60.105 40.000 2.33 0.00 0.00 2.15
1903 2095 3.181455 TGAAGGCTACAGTTTCTCTTGCA 60.181 43.478 0.00 0.00 0.00 4.08
1920 2112 5.820947 AGTATTACGCCCAAATAGTTGAAGG 59.179 40.000 4.10 0.00 36.83 3.46
1921 2113 6.920569 AGTATTACGCCCAAATAGTTGAAG 57.079 37.500 4.10 0.00 36.83 3.02
1932 2124 2.101917 GTGAAGCCTAGTATTACGCCCA 59.898 50.000 0.00 0.00 0.00 5.36
1936 2128 5.892568 AGAACTGTGAAGCCTAGTATTACG 58.107 41.667 0.00 0.00 0.00 3.18
1980 2172 8.988064 TTAGCTTTATTATAGGAATCTCAGCG 57.012 34.615 0.00 0.00 0.00 5.18
2066 6160 5.769662 TCTTTCCAAAATGCACATGAGTACT 59.230 36.000 0.00 0.00 0.00 2.73
2073 6167 5.935789 CCAGAAATCTTTCCAAAATGCACAT 59.064 36.000 0.00 0.00 37.92 3.21
2096 6190 9.561069 GTATGGATATATGTATGGACCATTTCC 57.439 37.037 13.40 8.47 46.13 3.13
2143 6252 7.333323 TCCAGAGCATACCATAATATGATGTG 58.667 38.462 1.10 0.00 40.23 3.21
2158 6267 3.054139 AGAAAATGCCACTCCAGAGCATA 60.054 43.478 8.59 0.00 46.17 3.14
2225 6357 0.744414 TCTTCAATAGGCTGGTGCGC 60.744 55.000 0.00 0.00 40.82 6.09
2653 7229 1.594194 CCAATGCGCACCTAAAGGCA 61.594 55.000 14.90 0.00 39.32 4.75
2943 7524 7.330208 AGCATAAAATCTTTGACTCAATTGCAC 59.670 33.333 0.00 0.00 0.00 4.57
2951 7532 6.958193 CGAAGTGAGCATAAAATCTTTGACTC 59.042 38.462 0.00 0.00 0.00 3.36


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

AutoCloner maintained by Alex Coulton.