Multiple sequence alignment - TraesCS4D01G182400

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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 TraesCS4D01G182400 chr4D 100.000 2222 0 0 1 2222 318607428 318605207 0.000000e+00 4104.0
1 TraesCS4D01G182400 chr4B 93.791 2126 70 24 121 2222 395911446 395909359 0.000000e+00 3138.0
2 TraesCS4D01G182400 chr4A 91.238 2157 109 44 128 2222 155593158 155595296 0.000000e+00 2863.0
3 TraesCS4D01G182400 chr2D 76.445 467 56 35 1793 2221 323071521 323071971 1.040000e-48 204.0
4 TraesCS4D01G182400 chr7D 94.355 124 1 1 1 124 51445409 51445292 3.770000e-43 185.0
5 TraesCS4D01G182400 chr5B 92.562 121 3 4 6 126 668154924 668155038 3.790000e-38 169.0
6 TraesCS4D01G182400 chr5B 90.984 122 5 4 1 122 677578216 677578331 2.280000e-35 159.0
7 TraesCS4D01G182400 chr7B 92.437 119 3 4 6 124 413259557 413259669 4.910000e-37 165.0
8 TraesCS4D01G182400 chr7B 91.667 120 4 3 6 125 497576734 497576621 6.350000e-36 161.0
9 TraesCS4D01G182400 chr7B 91.667 120 4 3 6 125 605646355 605646468 6.350000e-36 161.0
10 TraesCS4D01G182400 chr7A 84.706 170 18 8 2055 2221 513226136 513225972 1.770000e-36 163.0
11 TraesCS4D01G182400 chr7A 84.024 169 20 6 2055 2221 530524214 530524377 2.950000e-34 156.0
12 TraesCS4D01G182400 chr3B 84.615 169 20 6 2055 2221 390443783 390443619 1.770000e-36 163.0
13 TraesCS4D01G182400 chr3B 100.000 29 0 0 2056 2084 452744150 452744178 1.000000e-03 54.7
14 TraesCS4D01G182400 chr1B 91.129 124 5 4 6 129 26093357 26093240 1.770000e-36 163.0
15 TraesCS4D01G182400 chr1B 82.635 167 22 5 2055 2221 623554252 623554411 8.270000e-30 141.0
16 TraesCS4D01G182400 chr2B 91.667 120 4 4 6 125 403085536 403085423 6.350000e-36 161.0
17 TraesCS4D01G182400 chr2B 91.736 121 3 4 6 125 796156706 796156820 6.350000e-36 161.0
18 TraesCS4D01G182400 chr6D 82.584 178 24 6 2047 2221 147648608 147648435 1.370000e-32 150.0
19 TraesCS4D01G182400 chr1D 75.000 424 57 27 1822 2221 431191642 431191244 1.370000e-32 150.0
20 TraesCS4D01G182400 chr3D 84.768 151 20 3 2072 2221 61034318 61034170 4.940000e-32 148.0


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 TraesCS4D01G182400 chr4D 318605207 318607428 2221 True 4104 4104 100.000 1 2222 1 chr4D.!!$R1 2221
1 TraesCS4D01G182400 chr4B 395909359 395911446 2087 True 3138 3138 93.791 121 2222 1 chr4B.!!$R1 2101
2 TraesCS4D01G182400 chr4A 155593158 155595296 2138 False 2863 2863 91.238 128 2222 1 chr4A.!!$F1 2094

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
906 927 0.179026 ATGATGCATGCGAGCTTCCT 60.179 50.0 14.09 0.0 37.75 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1854 1908 6.633856 AGACAGAAGAAACAAATGCAAAAGT 58.366 32.0 0.0 0.0 0.0 2.66 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
20 21 3.420300 TGGGTTACATACGGAGCAAAA 57.580 42.857 0.00 0.00 0.00 2.44
21 22 3.958018 TGGGTTACATACGGAGCAAAAT 58.042 40.909 0.00 0.00 0.00 1.82
22 23 3.692101 TGGGTTACATACGGAGCAAAATG 59.308 43.478 0.00 0.00 0.00 2.32
23 24 3.942748 GGGTTACATACGGAGCAAAATGA 59.057 43.478 0.00 0.00 0.00 2.57
24 25 4.396790 GGGTTACATACGGAGCAAAATGAA 59.603 41.667 0.00 0.00 0.00 2.57
25 26 5.067283 GGGTTACATACGGAGCAAAATGAAT 59.933 40.000 0.00 0.00 0.00 2.57
26 27 5.971202 GGTTACATACGGAGCAAAATGAATG 59.029 40.000 0.00 0.00 0.00 2.67
27 28 6.183360 GGTTACATACGGAGCAAAATGAATGA 60.183 38.462 0.00 0.00 0.00 2.57
28 29 5.895636 ACATACGGAGCAAAATGAATGAA 57.104 34.783 0.00 0.00 0.00 2.57
29 30 6.455360 ACATACGGAGCAAAATGAATGAAT 57.545 33.333 0.00 0.00 0.00 2.57
30 31 6.498304 ACATACGGAGCAAAATGAATGAATC 58.502 36.000 0.00 0.00 0.00 2.52
31 32 6.319658 ACATACGGAGCAAAATGAATGAATCT 59.680 34.615 0.00 0.00 0.00 2.40
32 33 7.498900 ACATACGGAGCAAAATGAATGAATCTA 59.501 33.333 0.00 0.00 0.00 1.98
33 34 6.757897 ACGGAGCAAAATGAATGAATCTAA 57.242 33.333 0.00 0.00 0.00 2.10
34 35 7.156876 ACGGAGCAAAATGAATGAATCTAAA 57.843 32.000 0.00 0.00 0.00 1.85
35 36 7.775120 ACGGAGCAAAATGAATGAATCTAAAT 58.225 30.769 0.00 0.00 0.00 1.40
36 37 8.253113 ACGGAGCAAAATGAATGAATCTAAATT 58.747 29.630 0.00 0.00 0.00 1.82
37 38 9.090692 CGGAGCAAAATGAATGAATCTAAATTT 57.909 29.630 0.00 0.00 0.00 1.82
71 72 8.374327 TCTATATACATCCGTATCCGTATGTG 57.626 38.462 0.00 0.00 42.61 3.21
72 73 8.206189 TCTATATACATCCGTATCCGTATGTGA 58.794 37.037 0.00 0.00 42.61 3.58
73 74 7.818997 ATATACATCCGTATCCGTATGTGAT 57.181 36.000 0.00 0.00 42.61 3.06
74 75 4.866508 ACATCCGTATCCGTATGTGATT 57.133 40.909 0.00 0.00 41.37 2.57
75 76 4.806330 ACATCCGTATCCGTATGTGATTC 58.194 43.478 0.00 0.00 41.37 2.52
76 77 4.279922 ACATCCGTATCCGTATGTGATTCA 59.720 41.667 0.00 0.00 41.37 2.57
77 78 5.047306 ACATCCGTATCCGTATGTGATTCAT 60.047 40.000 0.00 0.00 41.37 2.57
78 79 6.152154 ACATCCGTATCCGTATGTGATTCATA 59.848 38.462 0.00 0.00 41.37 2.15
79 80 6.190954 TCCGTATCCGTATGTGATTCATAG 57.809 41.667 0.00 0.00 39.36 2.23
80 81 5.708697 TCCGTATCCGTATGTGATTCATAGT 59.291 40.000 0.00 0.00 39.36 2.12
81 82 5.800438 CCGTATCCGTATGTGATTCATAGTG 59.200 44.000 0.00 0.00 39.36 2.74
82 83 5.800438 CGTATCCGTATGTGATTCATAGTGG 59.200 44.000 0.00 0.00 39.36 4.00
83 84 6.349033 CGTATCCGTATGTGATTCATAGTGGA 60.349 42.308 9.57 9.57 43.10 4.02
84 85 5.862678 TCCGTATGTGATTCATAGTGGAA 57.137 39.130 0.00 0.00 39.60 3.53
85 86 6.419484 TCCGTATGTGATTCATAGTGGAAT 57.581 37.500 0.00 0.00 39.60 3.01
97 98 9.255304 GATTCATAGTGGAATCTCTACAAAGAC 57.745 37.037 8.28 0.00 46.15 3.01
98 99 7.962995 TCATAGTGGAATCTCTACAAAGACT 57.037 36.000 0.00 0.00 29.47 3.24
99 100 8.367660 TCATAGTGGAATCTCTACAAAGACTT 57.632 34.615 0.00 0.00 29.47 3.01
100 101 9.475620 TCATAGTGGAATCTCTACAAAGACTTA 57.524 33.333 0.00 0.00 29.47 2.24
101 102 9.522804 CATAGTGGAATCTCTACAAAGACTTAC 57.477 37.037 0.00 0.00 29.47 2.34
102 103 7.540474 AGTGGAATCTCTACAAAGACTTACA 57.460 36.000 0.00 0.00 29.47 2.41
103 104 8.140112 AGTGGAATCTCTACAAAGACTTACAT 57.860 34.615 0.00 0.00 29.47 2.29
104 105 8.598041 AGTGGAATCTCTACAAAGACTTACATT 58.402 33.333 0.00 0.00 29.47 2.71
105 106 9.220767 GTGGAATCTCTACAAAGACTTACATTT 57.779 33.333 0.00 0.00 0.00 2.32
111 112 9.924650 TCTCTACAAAGACTTACATTTAGGAAC 57.075 33.333 0.00 0.00 0.00 3.62
112 113 8.752766 TCTACAAAGACTTACATTTAGGAACG 57.247 34.615 0.00 0.00 0.00 3.95
113 114 6.796705 ACAAAGACTTACATTTAGGAACGG 57.203 37.500 0.00 0.00 0.00 4.44
114 115 6.527423 ACAAAGACTTACATTTAGGAACGGA 58.473 36.000 0.00 0.00 0.00 4.69
115 116 6.649557 ACAAAGACTTACATTTAGGAACGGAG 59.350 38.462 0.00 0.00 0.00 4.63
116 117 5.340439 AGACTTACATTTAGGAACGGAGG 57.660 43.478 0.00 0.00 0.00 4.30
117 118 4.161754 AGACTTACATTTAGGAACGGAGGG 59.838 45.833 0.00 0.00 0.00 4.30
118 119 4.098894 ACTTACATTTAGGAACGGAGGGA 58.901 43.478 0.00 0.00 0.00 4.20
119 120 4.161754 ACTTACATTTAGGAACGGAGGGAG 59.838 45.833 0.00 0.00 0.00 4.30
201 206 5.786401 AAAATATAGATTGCTCGATCGGC 57.214 39.130 16.41 17.41 0.00 5.54
219 224 2.621763 CGCAAGCAAGGAACAGAGT 58.378 52.632 0.00 0.00 0.00 3.24
264 269 4.901868 TCCAGGGTGTTGTAGTGATAAAC 58.098 43.478 0.00 0.00 0.00 2.01
780 801 4.552355 CATGAACACACACATGATTGCTT 58.448 39.130 0.00 0.00 44.28 3.91
832 853 6.351371 CCGATACATCCCTATCAAAGCATAGT 60.351 42.308 0.00 0.00 0.00 2.12
888 909 2.438254 TCATTGCCCTGCGCGAAT 60.438 55.556 12.10 0.00 42.08 3.34
906 927 0.179026 ATGATGCATGCGAGCTTCCT 60.179 50.000 14.09 0.00 37.75 3.36
941 962 3.771577 TCTCTTCTTCGGCCTCTTTTT 57.228 42.857 0.00 0.00 0.00 1.94
1028 1059 0.980231 AGTAGCAGGAGCAAGGAGGG 60.980 60.000 0.00 0.00 45.49 4.30
1029 1060 0.978146 GTAGCAGGAGCAAGGAGGGA 60.978 60.000 0.00 0.00 45.49 4.20
1151 1185 3.195698 GTTCCAGGATGCGGCGAC 61.196 66.667 12.98 2.02 31.97 5.19
1268 1302 0.031857 TGGCAAATTTGTGGACGCTG 59.968 50.000 19.03 0.00 0.00 5.18
1392 1429 7.556733 ACGTTCGATAGGGCAAATTTTATTA 57.443 32.000 0.00 0.00 0.00 0.98
1403 1440 9.987272 AGGGCAAATTTTATTATTATGCTCTTC 57.013 29.630 0.00 0.00 40.00 2.87
1433 1472 3.543680 ATGCTATCAGGGTGTGTGTAC 57.456 47.619 0.00 0.00 0.00 2.90
1541 1580 5.911280 CACAGAGCTTGTTTTGTTGTCTATG 59.089 40.000 0.00 0.00 38.16 2.23
1557 1596 6.908870 TGTCTATGTCAGTTATGCAATGAC 57.091 37.500 14.35 14.35 42.90 3.06
1667 1706 1.068055 GCTGACTTCGAGTTCCGGTAA 60.068 52.381 0.00 0.00 39.14 2.85
1681 1720 1.292061 CGGTAAAATTCATCGGGCGA 58.708 50.000 0.00 0.00 0.00 5.54
1698 1737 2.358582 GGCGAGGTCTACTAGAAGGAAC 59.641 54.545 0.00 0.00 0.00 3.62
1816 1856 7.576861 TTTCTTCTGTTTTATTCGGTTTCCT 57.423 32.000 0.00 0.00 0.00 3.36
1874 1929 7.771183 TCACTACTTTTGCATTTGTTTCTTCT 58.229 30.769 0.00 0.00 0.00 2.85
1877 1932 6.892310 ACTTTTGCATTTGTTTCTTCTGTC 57.108 33.333 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.420300 TTTTGCTCCGTATGTAACCCA 57.580 42.857 0.00 0.00 0.00 4.51
1 2 3.942748 TCATTTTGCTCCGTATGTAACCC 59.057 43.478 0.00 0.00 0.00 4.11
2 3 5.554822 TTCATTTTGCTCCGTATGTAACC 57.445 39.130 0.00 0.00 0.00 2.85
3 4 6.781138 TCATTCATTTTGCTCCGTATGTAAC 58.219 36.000 0.00 0.00 0.00 2.50
4 5 6.993786 TCATTCATTTTGCTCCGTATGTAA 57.006 33.333 0.00 0.00 0.00 2.41
5 6 6.993786 TTCATTCATTTTGCTCCGTATGTA 57.006 33.333 0.00 0.00 0.00 2.29
6 7 5.895636 TTCATTCATTTTGCTCCGTATGT 57.104 34.783 0.00 0.00 0.00 2.29
7 8 6.732154 AGATTCATTCATTTTGCTCCGTATG 58.268 36.000 0.00 0.00 0.00 2.39
8 9 6.949352 AGATTCATTCATTTTGCTCCGTAT 57.051 33.333 0.00 0.00 0.00 3.06
9 10 7.857734 TTAGATTCATTCATTTTGCTCCGTA 57.142 32.000 0.00 0.00 0.00 4.02
10 11 6.757897 TTAGATTCATTCATTTTGCTCCGT 57.242 33.333 0.00 0.00 0.00 4.69
11 12 8.638685 AATTTAGATTCATTCATTTTGCTCCG 57.361 30.769 0.00 0.00 0.00 4.63
59 60 6.920817 TCCACTATGAATCACATACGGATAC 58.079 40.000 0.00 0.00 40.07 2.24
60 61 7.533289 TTCCACTATGAATCACATACGGATA 57.467 36.000 0.00 0.00 37.58 2.59
61 62 6.419484 TTCCACTATGAATCACATACGGAT 57.581 37.500 0.00 0.00 37.58 4.18
62 63 5.862678 TTCCACTATGAATCACATACGGA 57.137 39.130 0.00 0.00 40.07 4.69
63 64 6.712241 GATTCCACTATGAATCACATACGG 57.288 41.667 8.48 0.00 46.40 4.02
72 73 8.986991 AGTCTTTGTAGAGATTCCACTATGAAT 58.013 33.333 0.00 0.00 37.66 2.57
73 74 8.367660 AGTCTTTGTAGAGATTCCACTATGAA 57.632 34.615 0.00 0.00 0.00 2.57
74 75 7.962995 AGTCTTTGTAGAGATTCCACTATGA 57.037 36.000 0.00 0.00 0.00 2.15
75 76 9.522804 GTAAGTCTTTGTAGAGATTCCACTATG 57.477 37.037 0.00 0.00 0.00 2.23
76 77 9.256228 TGTAAGTCTTTGTAGAGATTCCACTAT 57.744 33.333 0.00 0.00 0.00 2.12
77 78 8.645814 TGTAAGTCTTTGTAGAGATTCCACTA 57.354 34.615 0.00 0.00 0.00 2.74
78 79 7.540474 TGTAAGTCTTTGTAGAGATTCCACT 57.460 36.000 0.00 0.00 0.00 4.00
79 80 8.779354 AATGTAAGTCTTTGTAGAGATTCCAC 57.221 34.615 0.00 0.00 0.00 4.02
85 86 9.924650 GTTCCTAAATGTAAGTCTTTGTAGAGA 57.075 33.333 0.00 0.00 0.00 3.10
86 87 8.861101 CGTTCCTAAATGTAAGTCTTTGTAGAG 58.139 37.037 0.00 0.00 0.00 2.43
87 88 7.816031 CCGTTCCTAAATGTAAGTCTTTGTAGA 59.184 37.037 0.00 0.00 0.00 2.59
88 89 7.816031 TCCGTTCCTAAATGTAAGTCTTTGTAG 59.184 37.037 0.00 0.00 0.00 2.74
89 90 7.669427 TCCGTTCCTAAATGTAAGTCTTTGTA 58.331 34.615 0.00 0.00 0.00 2.41
90 91 6.527423 TCCGTTCCTAAATGTAAGTCTTTGT 58.473 36.000 0.00 0.00 0.00 2.83
91 92 6.092259 CCTCCGTTCCTAAATGTAAGTCTTTG 59.908 42.308 0.00 0.00 0.00 2.77
92 93 6.171213 CCTCCGTTCCTAAATGTAAGTCTTT 58.829 40.000 0.00 0.00 0.00 2.52
93 94 5.338137 CCCTCCGTTCCTAAATGTAAGTCTT 60.338 44.000 0.00 0.00 0.00 3.01
94 95 4.161754 CCCTCCGTTCCTAAATGTAAGTCT 59.838 45.833 0.00 0.00 0.00 3.24
95 96 4.161001 TCCCTCCGTTCCTAAATGTAAGTC 59.839 45.833 0.00 0.00 0.00 3.01
96 97 4.098894 TCCCTCCGTTCCTAAATGTAAGT 58.901 43.478 0.00 0.00 0.00 2.24
97 98 4.161754 ACTCCCTCCGTTCCTAAATGTAAG 59.838 45.833 0.00 0.00 0.00 2.34
98 99 4.098894 ACTCCCTCCGTTCCTAAATGTAA 58.901 43.478 0.00 0.00 0.00 2.41
99 100 3.716431 ACTCCCTCCGTTCCTAAATGTA 58.284 45.455 0.00 0.00 0.00 2.29
100 101 2.547990 ACTCCCTCCGTTCCTAAATGT 58.452 47.619 0.00 0.00 0.00 2.71
101 102 4.957684 ATACTCCCTCCGTTCCTAAATG 57.042 45.455 0.00 0.00 0.00 2.32
102 103 5.720520 GGATATACTCCCTCCGTTCCTAAAT 59.279 44.000 0.00 0.00 38.19 1.40
103 104 5.082425 GGATATACTCCCTCCGTTCCTAAA 58.918 45.833 0.00 0.00 38.19 1.85
104 105 4.356190 AGGATATACTCCCTCCGTTCCTAA 59.644 45.833 0.00 0.00 46.27 2.69
105 106 3.921486 AGGATATACTCCCTCCGTTCCTA 59.079 47.826 0.00 0.00 46.27 2.94
106 107 2.723010 AGGATATACTCCCTCCGTTCCT 59.277 50.000 0.00 0.00 46.27 3.36
107 108 3.172471 AGGATATACTCCCTCCGTTCC 57.828 52.381 0.00 0.00 46.27 3.62
108 109 4.920999 AGTAGGATATACTCCCTCCGTTC 58.079 47.826 0.00 0.00 46.27 3.95
109 110 5.336491 AAGTAGGATATACTCCCTCCGTT 57.664 43.478 0.00 0.00 46.27 4.44
110 111 6.244654 GTTAAGTAGGATATACTCCCTCCGT 58.755 44.000 0.00 0.00 46.27 4.69
111 112 5.353678 CGTTAAGTAGGATATACTCCCTCCG 59.646 48.000 0.00 0.00 46.27 4.63
112 113 6.244654 ACGTTAAGTAGGATATACTCCCTCC 58.755 44.000 0.00 0.00 46.27 4.30
113 114 6.091986 CGACGTTAAGTAGGATATACTCCCTC 59.908 46.154 0.00 0.00 46.27 4.30
114 115 5.936956 CGACGTTAAGTAGGATATACTCCCT 59.063 44.000 0.00 0.00 46.27 4.20
115 116 5.123027 CCGACGTTAAGTAGGATATACTCCC 59.877 48.000 0.00 0.00 46.99 4.30
116 117 5.703130 ACCGACGTTAAGTAGGATATACTCC 59.297 44.000 4.42 0.00 46.99 3.85
117 118 6.425114 TCACCGACGTTAAGTAGGATATACTC 59.575 42.308 4.42 0.00 46.99 2.59
118 119 6.291377 TCACCGACGTTAAGTAGGATATACT 58.709 40.000 4.42 0.00 46.99 2.12
119 120 6.545504 TCACCGACGTTAAGTAGGATATAC 57.454 41.667 4.42 0.00 46.99 1.47
201 206 0.947244 AACTCTGTTCCTTGCTTGCG 59.053 50.000 0.00 0.00 0.00 4.85
219 224 0.824595 TTCCCTCGACACGACTCCAA 60.825 55.000 0.00 0.00 0.00 3.53
832 853 3.114809 CGCAATCTTTGTTGTTTCTGCA 58.885 40.909 0.00 0.00 0.00 4.41
888 909 0.393402 AAGGAAGCTCGCATGCATCA 60.393 50.000 19.57 0.00 32.97 3.07
917 938 2.745968 AGAGGCCGAAGAAGAGAAGAT 58.254 47.619 0.00 0.00 0.00 2.40
941 962 1.533033 TCGACCACAGCAAGGAGGA 60.533 57.895 0.00 0.00 0.00 3.71
1028 1059 1.399791 CAAGGAAATGCTTCTCGCCTC 59.600 52.381 0.00 0.00 38.05 4.70
1029 1060 1.003580 TCAAGGAAATGCTTCTCGCCT 59.996 47.619 0.00 0.00 38.05 5.52
1151 1185 1.019673 CTGCAAATCCTCGATGTGGG 58.980 55.000 0.00 0.00 28.63 4.61
1268 1302 2.225019 GGATCCATTCATGCATCGACAC 59.775 50.000 6.95 0.00 0.00 3.67
1392 1429 7.329499 AGCATAGATGAATCGAAGAGCATAAT 58.671 34.615 0.00 0.00 43.63 1.28
1403 1440 5.107824 CACCCTGATAGCATAGATGAATCG 58.892 45.833 0.00 0.00 0.00 3.34
1433 1472 1.135315 CTGGAAATCGCAACGCAGG 59.865 57.895 0.00 0.00 0.00 4.85
1541 1580 1.064060 GGCCGTCATTGCATAACTGAC 59.936 52.381 0.00 8.41 36.72 3.51
1557 1596 2.495669 AGTCACCAAAATAATTGGGCCG 59.504 45.455 11.58 0.74 43.71 6.13
1609 1648 1.257675 CGCGATGCAACGATGATACAA 59.742 47.619 21.39 0.00 35.09 2.41
1667 1706 0.541863 AGACCTCGCCCGATGAATTT 59.458 50.000 0.12 0.00 0.00 1.82
1681 1720 4.274978 GCTCTGTTCCTTCTAGTAGACCT 58.725 47.826 0.00 0.00 0.00 3.85
1698 1737 1.234821 TTGTGTAAAAGCCGGCTCTG 58.765 50.000 32.93 0.00 0.00 3.35
1730 1769 8.471609 AGGAAAGATACAAAAACCGAAGAAAAA 58.528 29.630 0.00 0.00 0.00 1.94
1731 1770 7.918562 CAGGAAAGATACAAAAACCGAAGAAAA 59.081 33.333 0.00 0.00 0.00 2.29
1773 1812 8.981659 AGAAGAAATGGAGAAAGGAAAGAAAAA 58.018 29.630 0.00 0.00 0.00 1.94
1774 1813 8.416329 CAGAAGAAATGGAGAAAGGAAAGAAAA 58.584 33.333 0.00 0.00 0.00 2.29
1782 1822 9.631452 GAATAAAACAGAAGAAATGGAGAAAGG 57.369 33.333 0.00 0.00 0.00 3.11
1854 1908 6.633856 AGACAGAAGAAACAAATGCAAAAGT 58.366 32.000 0.00 0.00 0.00 2.66


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

AutoCloner maintained by Alex Coulton.