Multiple sequence alignment - TraesCS3D01G410600

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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 TraesCS3D01G410600 chr3D 100.000 3352 0 0 1 3352 523739952 523743303 0.000000e+00 6191
1 TraesCS3D01G410600 chr3D 98.361 122 2 0 1 122 613248942 613249063 7.280000e-52 215
2 TraesCS3D01G410600 chr3D 96.800 125 3 1 1 125 598619265 598619388 1.220000e-49 207
3 TraesCS3D01G410600 chr6D 98.056 3240 61 2 115 3352 458889965 458893204 0.000000e+00 5633
4 TraesCS3D01G410600 chr6D 99.138 116 1 0 1 116 35615135 35615250 3.390000e-50 209
5 TraesCS3D01G410600 chr5D 97.901 3240 65 3 115 3352 562925288 562928526 0.000000e+00 5603
6 TraesCS3D01G410600 chr1A 97.931 3238 60 3 117 3352 94765487 94762255 0.000000e+00 5602
7 TraesCS3D01G410600 chr2D 97.778 3240 70 2 115 3352 200935049 200938288 0.000000e+00 5583
8 TraesCS3D01G410600 chr2D 97.130 3240 89 4 115 3352 604417020 604420257 0.000000e+00 5465
9 TraesCS3D01G410600 chr7A 97.716 3240 72 2 115 3352 211308221 211311460 0.000000e+00 5572
10 TraesCS3D01G410600 chr7A 97.377 3240 83 2 115 3352 563544746 563547985 0.000000e+00 5511
11 TraesCS3D01G410600 chr1D 97.562 3240 75 3 115 3352 185786463 185783226 0.000000e+00 5542
12 TraesCS3D01G410600 chr1D 95.455 132 4 2 1 131 182299781 182299651 3.390000e-50 209
13 TraesCS3D01G410600 chr7D 97.092 3233 92 2 122 3352 307118124 307114892 0.000000e+00 5448
14 TraesCS3D01G410600 chr7D 98.374 123 2 0 1 123 51050817 51050939 2.030000e-52 217
15 TraesCS3D01G410600 chr7D 95.385 130 3 3 1 129 481654740 481654613 1.580000e-48 204
16 TraesCS3D01G410600 chr6B 99.167 120 0 1 1 119 377820268 377820387 7.280000e-52 215
17 TraesCS3D01G410600 chr7B 96.774 124 4 0 1 124 483830327 483830204 1.220000e-49 207
18 TraesCS3D01G410600 chr5B 92.806 139 6 3 1 136 129358159 129358296 7.340000e-47 198


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 TraesCS3D01G410600 chr3D 523739952 523743303 3351 False 6191 6191 100.000 1 3352 1 chr3D.!!$F1 3351
1 TraesCS3D01G410600 chr6D 458889965 458893204 3239 False 5633 5633 98.056 115 3352 1 chr6D.!!$F2 3237
2 TraesCS3D01G410600 chr5D 562925288 562928526 3238 False 5603 5603 97.901 115 3352 1 chr5D.!!$F1 3237
3 TraesCS3D01G410600 chr1A 94762255 94765487 3232 True 5602 5602 97.931 117 3352 1 chr1A.!!$R1 3235
4 TraesCS3D01G410600 chr2D 200935049 200938288 3239 False 5583 5583 97.778 115 3352 1 chr2D.!!$F1 3237
5 TraesCS3D01G410600 chr2D 604417020 604420257 3237 False 5465 5465 97.130 115 3352 1 chr2D.!!$F2 3237
6 TraesCS3D01G410600 chr7A 211308221 211311460 3239 False 5572 5572 97.716 115 3352 1 chr7A.!!$F1 3237
7 TraesCS3D01G410600 chr7A 563544746 563547985 3239 False 5511 5511 97.377 115 3352 1 chr7A.!!$F2 3237
8 TraesCS3D01G410600 chr1D 185783226 185786463 3237 True 5542 5542 97.562 115 3352 1 chr1D.!!$R2 3237
9 TraesCS3D01G410600 chr7D 307114892 307118124 3232 True 5448 5448 97.092 122 3352 1 chr7D.!!$R1 3230

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
55 56 0.041238 ATCTTCCCGTGAGTCCCTGA 59.959 55.0 0.00 0.0 0.0 3.86 F
58 59 0.041238 TTCCCGTGAGTCCCTGATCT 59.959 55.0 0.00 0.0 0.0 2.75 F
60 61 0.176680 CCCGTGAGTCCCTGATCTTG 59.823 60.0 0.00 0.0 0.0 3.02 F
812 813 0.250166 AATACGCGGCCCCTATTGAC 60.250 55.0 12.47 0.0 0.0 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1885 1891 0.248949 GCGGTAGGTCGACATTCCTC 60.249 60.000 21.11 11.64 35.51 3.71 R
2218 2224 3.866651 TGCTTCCTTCTATCAAGAGCAC 58.133 45.455 0.00 0.00 31.96 4.40 R
2246 2252 2.337359 TCAACTAGGTAGGCCTTGGT 57.663 50.000 12.58 0.00 44.18 3.67 R
2856 2862 0.037046 GTTAGAAAAGCGTCCCCCGA 60.037 55.000 0.00 0.00 39.56 5.14 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
42 43 8.547967 TTTAGAGTTGTGTTGTGATATCTTCC 57.452 34.615 3.98 0.00 0.00 3.46
43 44 5.491982 AGAGTTGTGTTGTGATATCTTCCC 58.508 41.667 3.98 0.00 0.00 3.97
44 45 4.253685 AGTTGTGTTGTGATATCTTCCCG 58.746 43.478 3.98 0.00 0.00 5.14
45 46 3.973206 TGTGTTGTGATATCTTCCCGT 57.027 42.857 3.98 0.00 0.00 5.28
46 47 3.595173 TGTGTTGTGATATCTTCCCGTG 58.405 45.455 3.98 0.00 0.00 4.94
47 48 3.259625 TGTGTTGTGATATCTTCCCGTGA 59.740 43.478 3.98 0.00 0.00 4.35
48 49 3.865745 GTGTTGTGATATCTTCCCGTGAG 59.134 47.826 3.98 0.00 0.00 3.51
49 50 3.513912 TGTTGTGATATCTTCCCGTGAGT 59.486 43.478 3.98 0.00 0.00 3.41
50 51 4.113354 GTTGTGATATCTTCCCGTGAGTC 58.887 47.826 3.98 0.00 0.00 3.36
51 52 2.693591 TGTGATATCTTCCCGTGAGTCC 59.306 50.000 3.98 0.00 0.00 3.85
52 53 2.036089 GTGATATCTTCCCGTGAGTCCC 59.964 54.545 3.98 0.00 0.00 4.46
53 54 2.091278 TGATATCTTCCCGTGAGTCCCT 60.091 50.000 3.98 0.00 0.00 4.20
54 55 1.776662 TATCTTCCCGTGAGTCCCTG 58.223 55.000 0.00 0.00 0.00 4.45
55 56 0.041238 ATCTTCCCGTGAGTCCCTGA 59.959 55.000 0.00 0.00 0.00 3.86
56 57 0.041238 TCTTCCCGTGAGTCCCTGAT 59.959 55.000 0.00 0.00 0.00 2.90
57 58 0.461961 CTTCCCGTGAGTCCCTGATC 59.538 60.000 0.00 0.00 0.00 2.92
58 59 0.041238 TTCCCGTGAGTCCCTGATCT 59.959 55.000 0.00 0.00 0.00 2.75
59 60 0.041238 TCCCGTGAGTCCCTGATCTT 59.959 55.000 0.00 0.00 0.00 2.40
60 61 0.176680 CCCGTGAGTCCCTGATCTTG 59.823 60.000 0.00 0.00 0.00 3.02
61 62 1.186200 CCGTGAGTCCCTGATCTTGA 58.814 55.000 0.00 0.00 0.00 3.02
62 63 1.759445 CCGTGAGTCCCTGATCTTGAT 59.241 52.381 0.00 0.00 0.00 2.57
63 64 2.223923 CCGTGAGTCCCTGATCTTGATC 60.224 54.545 3.82 3.82 0.00 2.92
64 65 2.542618 CGTGAGTCCCTGATCTTGATCG 60.543 54.545 6.19 2.03 0.00 3.69
65 66 2.428890 GTGAGTCCCTGATCTTGATCGT 59.571 50.000 6.19 0.00 0.00 3.73
66 67 3.632604 GTGAGTCCCTGATCTTGATCGTA 59.367 47.826 6.19 0.00 0.00 3.43
67 68 3.632604 TGAGTCCCTGATCTTGATCGTAC 59.367 47.826 6.19 2.53 0.00 3.67
68 69 3.632333 AGTCCCTGATCTTGATCGTACA 58.368 45.455 6.19 0.00 0.00 2.90
69 70 3.381908 AGTCCCTGATCTTGATCGTACAC 59.618 47.826 6.19 1.73 0.00 2.90
70 71 2.357952 TCCCTGATCTTGATCGTACACG 59.642 50.000 6.19 0.00 41.45 4.49
71 72 2.099263 CCCTGATCTTGATCGTACACGT 59.901 50.000 1.19 0.00 40.80 4.49
72 73 3.428999 CCCTGATCTTGATCGTACACGTT 60.429 47.826 1.19 0.00 40.80 3.99
73 74 4.174009 CCTGATCTTGATCGTACACGTTT 58.826 43.478 1.19 0.00 40.80 3.60
74 75 4.031765 CCTGATCTTGATCGTACACGTTTG 59.968 45.833 1.19 0.00 40.80 2.93
75 76 3.366724 TGATCTTGATCGTACACGTTTGC 59.633 43.478 1.19 0.00 40.80 3.68
76 77 1.717113 TCTTGATCGTACACGTTTGCG 59.283 47.619 5.81 5.81 44.93 4.85
90 91 4.577687 CGTTTGCGTGTATGATTAGTGT 57.422 40.909 0.00 0.00 0.00 3.55
91 92 5.689927 CGTTTGCGTGTATGATTAGTGTA 57.310 39.130 0.00 0.00 0.00 2.90
92 93 5.478001 CGTTTGCGTGTATGATTAGTGTAC 58.522 41.667 0.00 0.00 0.00 2.90
93 94 5.478001 GTTTGCGTGTATGATTAGTGTACG 58.522 41.667 0.00 0.00 0.00 3.67
94 95 4.619437 TGCGTGTATGATTAGTGTACGA 57.381 40.909 0.00 0.00 32.36 3.43
95 96 5.177725 TGCGTGTATGATTAGTGTACGAT 57.822 39.130 0.00 0.00 32.36 3.73
96 97 5.584442 TGCGTGTATGATTAGTGTACGATT 58.416 37.500 0.00 0.00 32.36 3.34
97 98 5.457473 TGCGTGTATGATTAGTGTACGATTG 59.543 40.000 0.00 0.00 32.36 2.67
98 99 5.684184 GCGTGTATGATTAGTGTACGATTGA 59.316 40.000 0.00 0.00 32.36 2.57
99 100 6.197655 GCGTGTATGATTAGTGTACGATTGAA 59.802 38.462 0.00 0.00 32.36 2.69
100 101 7.096189 GCGTGTATGATTAGTGTACGATTGAAT 60.096 37.037 0.00 0.00 32.36 2.57
101 102 8.417928 CGTGTATGATTAGTGTACGATTGAATC 58.582 37.037 0.00 0.00 32.36 2.52
111 112 3.873781 GATTGAATCGGGGGTGTCA 57.126 52.632 0.00 0.00 0.00 3.58
112 113 1.379527 GATTGAATCGGGGGTGTCAC 58.620 55.000 0.00 0.00 0.00 3.67
113 114 0.695924 ATTGAATCGGGGGTGTCACA 59.304 50.000 5.12 0.00 0.00 3.58
182 183 7.581814 TCATACCAACATAATCATTCTCCCAA 58.418 34.615 0.00 0.00 0.00 4.12
665 666 3.781079 TGTCCACAAAAGAAGTTGCTG 57.219 42.857 0.00 0.00 31.29 4.41
812 813 0.250166 AATACGCGGCCCCTATTGAC 60.250 55.000 12.47 0.00 0.00 3.18
818 819 1.348036 GCGGCCCCTATTGACTCTTAT 59.652 52.381 0.00 0.00 0.00 1.73
1111 1112 2.096248 TCATTGCGGGTTGGTTATTCC 58.904 47.619 0.00 0.00 0.00 3.01
1134 1135 1.956802 CCCGGCTTTCACTTGGAAC 59.043 57.895 0.00 0.00 34.56 3.62
1160 1162 8.689972 CAATAGGAGATTTAGTTCCATGCTTTT 58.310 33.333 0.00 0.00 35.88 2.27
1337 1340 5.552870 AAGAATAGGGTTGTCGCTGATAT 57.447 39.130 0.00 0.00 37.93 1.63
1366 1369 5.134202 TGGATTAGATGTCGCAATATCGT 57.866 39.130 0.00 0.00 0.00 3.73
1520 1523 2.127708 GGGGAATCAGAGAAAGGGCTA 58.872 52.381 0.00 0.00 0.00 3.93
1573 1576 1.829849 GTTCGCTTTCTAGGTACCCCT 59.170 52.381 8.74 0.00 45.51 4.79
1675 1679 6.814954 ATGTGGGTAGACATTGAGTTAGAT 57.185 37.500 0.00 0.00 32.38 1.98
2159 2165 2.608752 GGATGCAGCAAGTGTCCAAAAG 60.609 50.000 3.51 0.00 0.00 2.27
2218 2224 2.386661 AGGATTTCGTACTGCCACAG 57.613 50.000 0.00 0.00 37.52 3.66
2246 2252 7.443575 GCTCTTGATAGAAGGAAGCATGAATAA 59.556 37.037 0.00 0.00 0.00 1.40
2248 2254 7.716998 TCTTGATAGAAGGAAGCATGAATAACC 59.283 37.037 0.00 0.00 0.00 2.85
2481 2487 2.688507 AGCTGTACTGGAATGACAACG 58.311 47.619 1.65 0.00 0.00 4.10
2539 2545 6.631016 ACACGACACACAATCTTATGACTAT 58.369 36.000 0.00 0.00 0.00 2.12
2760 2766 7.618137 ACTTTGGGATACGTATTTACAGACTT 58.382 34.615 9.92 0.00 37.60 3.01
2798 2804 2.166829 GTTGTTACCCACCATGCATGA 58.833 47.619 28.31 3.60 0.00 3.07
2856 2862 5.358442 ACATCATCTACTACTGCGAAACTCT 59.642 40.000 0.00 0.00 0.00 3.24
2918 2924 3.564790 GGAGGAAGAACACCCTCTAGACT 60.565 52.174 0.00 0.00 46.26 3.24
3139 3145 2.972021 TGGTTGTGAGACATCTTCCTCA 59.028 45.455 0.00 0.00 37.11 3.86
3204 3210 4.642429 TCACCTCTTTTAGACTCTTTGCC 58.358 43.478 0.00 0.00 0.00 4.52
3215 3221 4.718961 AGACTCTTTGCCATGTTTAGTGT 58.281 39.130 0.00 0.00 0.00 3.55
3262 3268 5.587844 TCAGATGCTATTCCTTCAAGAAAGC 59.412 40.000 0.00 0.00 33.88 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 8.999431 GGAAGATATCACAACACAACTCTAAAA 58.001 33.333 5.32 0.00 0.00 1.52
17 18 7.606456 GGGAAGATATCACAACACAACTCTAAA 59.394 37.037 5.32 0.00 0.00 1.85
18 19 7.103641 GGGAAGATATCACAACACAACTCTAA 58.896 38.462 5.32 0.00 0.00 2.10
19 20 6.627287 CGGGAAGATATCACAACACAACTCTA 60.627 42.308 5.32 0.00 0.00 2.43
20 21 5.491982 GGGAAGATATCACAACACAACTCT 58.508 41.667 5.32 0.00 0.00 3.24
21 22 4.330074 CGGGAAGATATCACAACACAACTC 59.670 45.833 5.32 0.00 0.00 3.01
22 23 4.253685 CGGGAAGATATCACAACACAACT 58.746 43.478 5.32 0.00 0.00 3.16
23 24 4.000988 ACGGGAAGATATCACAACACAAC 58.999 43.478 5.32 0.00 0.00 3.32
24 25 4.000325 CACGGGAAGATATCACAACACAA 59.000 43.478 5.32 0.00 0.00 3.33
25 26 3.259625 TCACGGGAAGATATCACAACACA 59.740 43.478 5.32 0.00 0.00 3.72
26 27 3.857052 TCACGGGAAGATATCACAACAC 58.143 45.455 5.32 0.00 0.00 3.32
27 28 3.513912 ACTCACGGGAAGATATCACAACA 59.486 43.478 5.32 0.00 0.00 3.33
28 29 4.113354 GACTCACGGGAAGATATCACAAC 58.887 47.826 5.32 0.00 0.00 3.32
29 30 3.132289 GGACTCACGGGAAGATATCACAA 59.868 47.826 5.32 0.00 0.00 3.33
30 31 2.693591 GGACTCACGGGAAGATATCACA 59.306 50.000 5.32 0.00 0.00 3.58
31 32 2.036089 GGGACTCACGGGAAGATATCAC 59.964 54.545 5.32 0.00 0.00 3.06
32 33 2.091278 AGGGACTCACGGGAAGATATCA 60.091 50.000 5.32 0.00 0.00 2.15
33 34 2.297597 CAGGGACTCACGGGAAGATATC 59.702 54.545 0.00 0.00 34.60 1.63
34 35 2.091278 TCAGGGACTCACGGGAAGATAT 60.091 50.000 0.00 0.00 34.60 1.63
35 36 1.286849 TCAGGGACTCACGGGAAGATA 59.713 52.381 0.00 0.00 34.60 1.98
36 37 0.041238 TCAGGGACTCACGGGAAGAT 59.959 55.000 0.00 0.00 34.60 2.40
37 38 0.041238 ATCAGGGACTCACGGGAAGA 59.959 55.000 0.00 0.00 34.60 2.87
38 39 0.461961 GATCAGGGACTCACGGGAAG 59.538 60.000 0.00 0.00 34.60 3.46
39 40 0.041238 AGATCAGGGACTCACGGGAA 59.959 55.000 0.00 0.00 34.60 3.97
40 41 0.041238 AAGATCAGGGACTCACGGGA 59.959 55.000 0.00 0.00 34.60 5.14
41 42 0.176680 CAAGATCAGGGACTCACGGG 59.823 60.000 0.00 0.00 34.60 5.28
42 43 1.186200 TCAAGATCAGGGACTCACGG 58.814 55.000 0.00 0.00 34.60 4.94
43 44 2.542618 CGATCAAGATCAGGGACTCACG 60.543 54.545 10.39 0.00 34.60 4.35
44 45 2.428890 ACGATCAAGATCAGGGACTCAC 59.571 50.000 10.39 0.00 34.60 3.51
45 46 2.739943 ACGATCAAGATCAGGGACTCA 58.260 47.619 10.39 0.00 34.60 3.41
46 47 3.632604 TGTACGATCAAGATCAGGGACTC 59.367 47.826 10.39 0.00 34.60 3.36
47 48 3.381908 GTGTACGATCAAGATCAGGGACT 59.618 47.826 10.39 0.00 43.88 3.85
48 49 3.707793 GTGTACGATCAAGATCAGGGAC 58.292 50.000 10.39 2.84 37.69 4.46
49 50 2.357952 CGTGTACGATCAAGATCAGGGA 59.642 50.000 10.39 0.00 43.02 4.20
50 51 2.099263 ACGTGTACGATCAAGATCAGGG 59.901 50.000 11.79 0.00 43.02 4.45
51 52 3.422417 ACGTGTACGATCAAGATCAGG 57.578 47.619 11.79 0.51 43.02 3.86
52 53 4.490959 GCAAACGTGTACGATCAAGATCAG 60.491 45.833 11.79 5.82 43.02 2.90
53 54 3.366724 GCAAACGTGTACGATCAAGATCA 59.633 43.478 11.79 0.00 43.02 2.92
54 55 3.539592 CGCAAACGTGTACGATCAAGATC 60.540 47.826 11.79 0.00 43.02 2.75
55 56 2.344441 CGCAAACGTGTACGATCAAGAT 59.656 45.455 11.79 0.00 43.02 2.40
56 57 1.717113 CGCAAACGTGTACGATCAAGA 59.283 47.619 11.79 0.00 43.02 3.02
57 58 2.125168 CGCAAACGTGTACGATCAAG 57.875 50.000 11.79 0.00 43.02 3.02
70 71 5.286797 TCGTACACTAATCATACACGCAAAC 59.713 40.000 0.00 0.00 0.00 2.93
71 72 5.400703 TCGTACACTAATCATACACGCAAA 58.599 37.500 0.00 0.00 0.00 3.68
72 73 4.984205 TCGTACACTAATCATACACGCAA 58.016 39.130 0.00 0.00 0.00 4.85
73 74 4.619437 TCGTACACTAATCATACACGCA 57.381 40.909 0.00 0.00 0.00 5.24
74 75 5.684184 TCAATCGTACACTAATCATACACGC 59.316 40.000 0.00 0.00 0.00 5.34
75 76 7.673810 TTCAATCGTACACTAATCATACACG 57.326 36.000 0.00 0.00 0.00 4.49
93 94 1.339631 TGTGACACCCCCGATTCAATC 60.340 52.381 2.45 0.00 0.00 2.67
94 95 0.695924 TGTGACACCCCCGATTCAAT 59.304 50.000 2.45 0.00 0.00 2.57
95 96 0.036164 CTGTGACACCCCCGATTCAA 59.964 55.000 2.45 0.00 0.00 2.69
96 97 1.676968 CTGTGACACCCCCGATTCA 59.323 57.895 2.45 0.00 0.00 2.57
97 98 1.745489 GCTGTGACACCCCCGATTC 60.745 63.158 2.45 0.00 0.00 2.52
98 99 2.351276 GCTGTGACACCCCCGATT 59.649 61.111 2.45 0.00 0.00 3.34
99 100 4.082523 CGCTGTGACACCCCCGAT 62.083 66.667 2.45 0.00 0.00 4.18
103 104 2.925162 GATAGCCGCTGTGACACCCC 62.925 65.000 2.16 0.00 0.00 4.95
104 105 1.521681 GATAGCCGCTGTGACACCC 60.522 63.158 2.16 0.00 0.00 4.61
105 106 1.521681 GGATAGCCGCTGTGACACC 60.522 63.158 2.16 0.00 0.00 4.16
106 107 0.807667 CAGGATAGCCGCTGTGACAC 60.808 60.000 2.16 0.00 39.96 3.67
107 108 1.517361 CAGGATAGCCGCTGTGACA 59.483 57.895 2.16 0.00 39.96 3.58
108 109 1.884926 GCAGGATAGCCGCTGTGAC 60.885 63.158 2.16 0.00 39.96 3.67
109 110 0.755327 TAGCAGGATAGCCGCTGTGA 60.755 55.000 21.31 4.25 41.70 3.58
110 111 0.104855 TTAGCAGGATAGCCGCTGTG 59.895 55.000 21.31 3.43 41.70 3.66
111 112 1.051812 ATTAGCAGGATAGCCGCTGT 58.948 50.000 21.31 10.61 41.70 4.40
112 113 2.232452 AGTATTAGCAGGATAGCCGCTG 59.768 50.000 21.31 4.46 41.70 5.18
113 114 2.232452 CAGTATTAGCAGGATAGCCGCT 59.768 50.000 17.87 17.87 43.23 5.52
220 221 6.599638 GCAAATAGGAAGGTACACAGAGATTT 59.400 38.462 0.00 0.00 0.00 2.17
532 533 3.127203 GCTGCTCTCTTACTCGTTACTCA 59.873 47.826 0.00 0.00 0.00 3.41
665 666 5.405331 AACTTACGAACAGTCTTTGCTTC 57.595 39.130 0.00 0.00 0.00 3.86
818 819 7.993183 AGAACACTTCTTTTCACAGGATTTCTA 59.007 33.333 0.00 0.00 36.36 2.10
1111 1112 1.302832 AAGTGAAAGCCGGGCTGAG 60.303 57.895 24.63 0.00 39.62 3.35
1134 1135 7.814264 AAGCATGGAACTAAATCTCCTATTG 57.186 36.000 0.00 0.00 32.51 1.90
1160 1162 2.408565 CCCTCCCTTCTGCTACCAATA 58.591 52.381 0.00 0.00 0.00 1.90
1337 1340 2.677836 GCGACATCTAATCCAAACAGCA 59.322 45.455 0.00 0.00 0.00 4.41
1520 1523 6.097270 CCCATGGTCATGATTGTTGACTAAAT 59.903 38.462 11.73 0.00 42.48 1.40
1573 1576 3.510531 AGGCGATGACTAGTAGATCCA 57.489 47.619 3.59 0.00 0.00 3.41
1675 1679 3.737559 AGTGTGCCCCTTCATTCAATA 57.262 42.857 0.00 0.00 0.00 1.90
1885 1891 0.248949 GCGGTAGGTCGACATTCCTC 60.249 60.000 21.11 11.64 35.51 3.71
2218 2224 3.866651 TGCTTCCTTCTATCAAGAGCAC 58.133 45.455 0.00 0.00 31.96 4.40
2246 2252 2.337359 TCAACTAGGTAGGCCTTGGT 57.663 50.000 12.58 0.00 44.18 3.67
2248 2254 5.130477 TCCTATTTCAACTAGGTAGGCCTTG 59.870 44.000 12.58 0.00 44.18 3.61
2377 2383 5.369833 GAAGGCCTCCTAAAAAGATCTACC 58.630 45.833 5.23 0.00 31.13 3.18
2481 2487 7.084486 TGTATCGTGTACAGATTCTCATATGC 58.916 38.462 11.43 0.00 0.00 3.14
2539 2545 5.674525 CTGTCAAAGATGAAGGCCATACTA 58.325 41.667 5.01 0.00 37.30 1.82
2856 2862 0.037046 GTTAGAAAAGCGTCCCCCGA 60.037 55.000 0.00 0.00 39.56 5.14
3019 3025 7.129109 TCGAAGGCGGATAAATTCAATAATC 57.871 36.000 0.00 0.00 38.28 1.75
3139 3145 4.884164 GGAAGAAGCCATTTGTAGCACTAT 59.116 41.667 0.00 0.00 0.00 2.12
3204 3210 4.021102 AGAGTTCCCCACACTAAACATG 57.979 45.455 0.00 0.00 0.00 3.21
3215 3221 5.586877 AGTACAATAGTGTAGAGTTCCCCA 58.413 41.667 2.71 0.00 40.94 4.96
3262 3268 2.558359 AGTCCCTTTTTGCTTTCCGATG 59.442 45.455 0.00 0.00 0.00 3.84


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

AutoCloner maintained by Alex Coulton.