Multiple sequence alignment - TraesCS1B01G171600
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BLAST Results
BLAST Results - Input Sequence
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
TraesCS1B01G171600
chr1B
100.000
5809
0
0
1
5809
305179202
305173394
0.000000e+00
10728.0
1
TraesCS1B01G171600
chr1B
89.516
124
13
0
2930
3053
173578367
173578490
2.170000e-34
158.0
2
TraesCS1B01G171600
chr1A
92.456
2691
97
25
816
3432
267141795
267144453
0.000000e+00
3747.0
3
TraesCS1B01G171600
chr1A
95.640
1445
45
5
3807
5251
267144874
267146300
0.000000e+00
2303.0
4
TraesCS1B01G171600
chr1A
97.683
561
8
1
5249
5809
267146375
267146930
0.000000e+00
959.0
5
TraesCS1B01G171600
chr1A
85.279
754
82
13
2
737
267140900
267141642
0.000000e+00
750.0
6
TraesCS1B01G171600
chr1A
96.512
344
10
1
3461
3804
267144452
267144793
8.450000e-158
568.0
7
TraesCS1B01G171600
chr1A
86.000
100
14
0
2928
3027
36130377
36130278
2.210000e-19
108.0
8
TraesCS1B01G171600
chr1D
96.471
2210
66
7
3602
5809
211684941
211687140
0.000000e+00
3639.0
9
TraesCS1B01G171600
chr1D
91.196
2056
89
36
65
2041
211681088
211683130
0.000000e+00
2710.0
10
TraesCS1B01G171600
chr1D
92.395
1591
67
20
2039
3613
211683198
211684750
0.000000e+00
2218.0
11
TraesCS1B01G171600
chr7B
79.945
723
113
21
2212
2918
51766837
51766131
2.420000e-138
503.0
12
TraesCS1B01G171600
chr7B
93.617
47
3
0
2275
2321
33072754
33072708
2.900000e-08
71.3
13
TraesCS1B01G171600
chr3A
79.096
708
97
27
2320
3016
44357509
44356842
1.920000e-119
440.0
14
TraesCS1B01G171600
chr3A
84.663
163
18
3
2111
2272
461843831
461843675
7.790000e-34
156.0
15
TraesCS1B01G171600
chr2B
86.831
243
18
5
2809
3051
66556653
66556425
5.770000e-65
259.0
16
TraesCS1B01G171600
chr2B
88.500
200
22
1
2822
3021
773006549
773006351
2.090000e-59
241.0
17
TraesCS1B01G171600
chr4B
86.782
174
17
1
2886
3053
94798089
94798262
7.680000e-44
189.0
18
TraesCS1B01G171600
chr4B
82.569
109
13
5
2216
2320
94792172
94792278
2.230000e-14
91.6
19
TraesCS1B01G171600
chr5D
87.342
158
15
5
2897
3052
307915887
307916041
5.980000e-40
176.0
20
TraesCS1B01G171600
chr3B
83.085
201
19
5
2840
3038
555095284
555095097
1.000000e-37
169.0
21
TraesCS1B01G171600
chr3B
84.706
170
19
3
2111
2279
440135455
440135618
4.660000e-36
163.0
22
TraesCS1B01G171600
chr3B
79.518
166
21
9
2094
2250
528660766
528660927
7.960000e-19
106.0
23
TraesCS1B01G171600
chr3D
85.890
163
15
3
2111
2272
341490821
341490976
3.600000e-37
167.0
24
TraesCS1B01G171600
chr2A
84.472
161
20
3
2111
2270
734097020
734097176
2.800000e-33
154.0
25
TraesCS1B01G171600
chr7A
89.167
120
12
1
2930
3049
446355413
446355531
1.300000e-31
148.0
26
TraesCS1B01G171600
chr7A
85.246
122
16
2
2930
3051
20101235
20101354
2.200000e-24
124.0
27
TraesCS1B01G171600
chr7A
80.986
142
18
4
2146
2279
85206267
85206127
2.860000e-18
104.0
BLAST Results - HSPs grouped
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
TraesCS1B01G171600
chr1B
305173394
305179202
5808
True
10728.000000
10728
100.000
1
5809
1
chr1B.!!$R1
5808
1
TraesCS1B01G171600
chr1A
267140900
267146930
6030
False
1665.400000
3747
93.514
2
5809
5
chr1A.!!$F1
5807
2
TraesCS1B01G171600
chr1D
211681088
211687140
6052
False
2855.666667
3639
93.354
65
5809
3
chr1D.!!$F1
5744
3
TraesCS1B01G171600
chr7B
51766131
51766837
706
True
503.000000
503
79.945
2212
2918
1
chr7B.!!$R2
706
4
TraesCS1B01G171600
chr3A
44356842
44357509
667
True
440.000000
440
79.096
2320
3016
1
chr3A.!!$R1
696
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.
Forward
Primers
Reverse
Primers
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
689
724
0.030638
CAAAGGCCCAACAACTCACG
59.969
55.0
0.00
0.0
0.00
4.35
F
807
895
0.107831
GCGTATTCCATGGTGCCCTA
59.892
55.0
12.58
0.0
0.00
3.53
F
1734
1877
0.383590
CAGACGACAGCCAGATCGAT
59.616
55.0
0.00
0.0
40.86
3.59
F
2477
2727
0.748450
CGCCATGCCAATTTGGATCT
59.252
50.0
19.76
0.0
40.96
2.75
F
4002
4563
0.964358
GCATGCTTTCCTCTGCTGGT
60.964
55.0
11.37
0.0
0.00
4.00
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
2220
2465
0.322456
TGCATCACTTGGTGCCCTAC
60.322
55.000
11.91
0.00
40.56
3.18
R
2258
2503
0.801251
GCTCATGTTTTGCTCGAGCT
59.199
50.000
35.27
13.88
44.47
4.09
R
2670
2920
1.684391
GGGGGCTGCCCGTAATTTT
60.684
57.895
30.32
0.00
46.66
1.82
R
4011
4572
0.250989
TAGGTTTTTCAGTGGCCCCG
60.251
55.000
0.00
0.00
0.00
5.73
R
5484
6129
1.076024
ACATGTGAATGAACTGCCCCT
59.924
47.619
0.00
0.00
0.00
4.79
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.
Forward
Primers
Reverse
Primers
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
29
30
6.925610
TGTAAATCATGGTTGTAGATGCTC
57.074
37.500
0.00
0.00
0.00
4.26
223
230
9.495754
GCAAACAAGATCTCAAATAATAGTGAC
57.504
33.333
0.00
0.00
0.00
3.67
305
312
4.779987
CATATGCTCACATACATGCACAC
58.220
43.478
0.00
0.00
41.50
3.82
306
313
2.181954
TGCTCACATACATGCACACA
57.818
45.000
0.00
0.00
0.00
3.72
307
314
1.805943
TGCTCACATACATGCACACAC
59.194
47.619
0.00
0.00
0.00
3.82
308
315
1.805943
GCTCACATACATGCACACACA
59.194
47.619
0.00
0.00
0.00
3.72
342
349
5.178623
CCTGTGAACGTATACACACACATTT
59.821
40.000
19.01
0.00
41.19
2.32
358
365
6.942576
ACACACATTTTATCCCTATAGATGCC
59.057
38.462
0.00
0.00
0.00
4.40
421
428
4.326548
GCACCATAGACGTTAAACTCACTC
59.673
45.833
0.00
0.00
0.00
3.51
464
471
8.408043
TGAAAGCTCTTATTGAAAGGAAATGA
57.592
30.769
0.00
0.00
0.00
2.57
485
492
1.508632
AACTCCGTTTGATCCGTGTG
58.491
50.000
0.00
0.00
0.00
3.82
486
493
0.391597
ACTCCGTTTGATCCGTGTGT
59.608
50.000
0.00
0.00
0.00
3.72
487
494
1.614903
ACTCCGTTTGATCCGTGTGTA
59.385
47.619
0.00
0.00
0.00
2.90
488
495
2.036217
ACTCCGTTTGATCCGTGTGTAA
59.964
45.455
0.00
0.00
0.00
2.41
490
497
3.666274
TCCGTTTGATCCGTGTGTAAAT
58.334
40.909
0.00
0.00
0.00
1.40
506
528
4.023878
GTGTAAATGCTCAAAACGTGGGTA
60.024
41.667
0.00
0.00
0.00
3.69
521
543
1.076485
GGTACCAGGCCTACGAGGA
60.076
63.158
13.66
0.00
37.67
3.71
537
559
7.596494
CCTACGAGGAATATGAAATTACGGTA
58.404
38.462
0.00
0.00
37.67
4.02
551
573
8.788806
TGAAATTACGGTAGTTGATGTCAAATT
58.211
29.630
0.79
0.00
37.63
1.82
572
594
1.000843
TGACAGTCCAATCACACTCGG
59.999
52.381
0.00
0.00
0.00
4.63
576
598
0.037326
GTCCAATCACACTCGGCTGA
60.037
55.000
0.00
0.00
0.00
4.26
578
600
1.278985
TCCAATCACACTCGGCTGAAT
59.721
47.619
0.00
0.00
0.00
2.57
589
611
1.266718
TCGGCTGAATGTTTGCAAGAC
59.733
47.619
0.00
2.08
0.00
3.01
606
628
9.809096
TTTGCAAGACTTTACAAATAATTGACA
57.191
25.926
0.00
0.00
38.94
3.58
665
700
0.604578
AAACGCCGAGCACTAACCTA
59.395
50.000
0.00
0.00
0.00
3.08
689
724
0.030638
CAAAGGCCCAACAACTCACG
59.969
55.000
0.00
0.00
0.00
4.35
698
734
2.666508
CCAACAACTCACGTAAGGATCG
59.333
50.000
0.00
0.00
46.39
3.69
701
737
4.247267
ACAACTCACGTAAGGATCGAAA
57.753
40.909
0.00
0.00
46.39
3.46
710
746
3.865745
CGTAAGGATCGAAATGCTGTCTT
59.134
43.478
0.00
0.00
33.27
3.01
718
754
0.678048
AAATGCTGTCTTCGGCTCCC
60.678
55.000
0.90
0.00
45.38
4.30
740
776
0.600782
GAACAACAGTTCGGGCGGTA
60.601
55.000
0.00
0.00
33.10
4.02
753
805
2.100252
CGGGCGGTAGATCTTTTAGACA
59.900
50.000
0.00
0.00
0.00
3.41
772
824
1.404391
CAGACACGTAGCCGGATAGTT
59.596
52.381
5.05
0.00
38.78
2.24
773
825
1.674962
AGACACGTAGCCGGATAGTTC
59.325
52.381
5.05
0.00
38.78
3.01
774
826
1.402968
GACACGTAGCCGGATAGTTCA
59.597
52.381
5.05
0.00
38.78
3.18
775
827
2.029623
ACACGTAGCCGGATAGTTCAT
58.970
47.619
5.05
0.00
38.78
2.57
788
876
2.732412
AGTTCATCGATATGAGCCCG
57.268
50.000
0.00
0.00
42.56
6.13
805
893
2.542907
CGCGTATTCCATGGTGCCC
61.543
63.158
12.58
0.00
0.00
5.36
806
894
1.152963
GCGTATTCCATGGTGCCCT
60.153
57.895
12.58
0.00
0.00
5.19
807
895
0.107831
GCGTATTCCATGGTGCCCTA
59.892
55.000
12.58
0.00
0.00
3.53
809
897
1.270839
CGTATTCCATGGTGCCCTAGG
60.271
57.143
12.58
0.06
0.00
3.02
810
898
2.054799
GTATTCCATGGTGCCCTAGGA
58.945
52.381
11.48
0.00
0.00
2.94
811
899
1.143813
ATTCCATGGTGCCCTAGGAG
58.856
55.000
11.48
1.06
31.27
3.69
984
1124
2.195741
TCTGATTTCTGCTGCTGCTT
57.804
45.000
17.00
0.00
40.48
3.91
990
1130
1.235281
TTCTGCTGCTGCTTCTGCTG
61.235
55.000
17.00
4.89
40.48
4.41
1014
1154
2.046892
CTCGCACCTTCCACCCTG
60.047
66.667
0.00
0.00
0.00
4.45
1064
1204
3.893753
TCTTCCCATCAAGAACCCAAA
57.106
42.857
0.00
0.00
29.01
3.28
1080
1220
2.028748
CCCAAATCCAAACCTCAGCTTG
60.029
50.000
0.00
0.00
0.00
4.01
1113
1255
4.411013
CAAGAGATTCCCCAAGAGGTTTT
58.589
43.478
0.00
0.00
0.00
2.43
1217
1360
2.155279
CTCCTAATCTGATCTCGCGGA
58.845
52.381
6.13
2.40
0.00
5.54
1241
1384
5.235186
ACATTGTCTATTCGATTGTAGCAGC
59.765
40.000
0.00
0.00
0.00
5.25
1314
1457
2.659610
GAGGCCTTCGAGCACACT
59.340
61.111
6.77
0.00
0.00
3.55
1551
1694
3.580916
GAGACCGTGCTCGACTCT
58.419
61.111
19.68
14.43
39.71
3.24
1704
1847
0.466124
AGCAAGATAAGGAGACCGGC
59.534
55.000
0.00
0.00
0.00
6.13
1707
1850
0.686769
AAGATAAGGAGACCGGCGGT
60.687
55.000
34.81
34.81
39.44
5.68
1731
1874
1.520342
GGCAGACGACAGCCAGATC
60.520
63.158
15.78
0.00
45.97
2.75
1734
1877
0.383590
CAGACGACAGCCAGATCGAT
59.616
55.000
0.00
0.00
40.86
3.59
1782
1925
3.254657
TCAAGGTAACAGAAAAATGCCCG
59.745
43.478
0.00
0.00
41.41
6.13
1952
2115
8.915057
ATCTAATATGCTGCTACAAAATGTCT
57.085
30.769
0.00
0.00
0.00
3.41
1953
2116
8.737168
TCTAATATGCTGCTACAAAATGTCTT
57.263
30.769
0.00
0.00
0.00
3.01
1986
2149
6.605594
TGTTCAAAATAATAAGGGCCAGTAGG
59.394
38.462
6.18
0.00
38.23
3.18
2018
2181
8.533657
ACATAATGACCAAATGAACAATCACAT
58.466
29.630
0.00
0.00
38.69
3.21
2214
2459
2.688507
TGCTCGAGTTTTCTCCATGAC
58.311
47.619
15.13
0.00
43.49
3.06
2220
2465
4.921515
TCGAGTTTTCTCCATGACGTAAAG
59.078
41.667
0.00
0.00
43.49
1.85
2258
2503
2.768698
CAAATTTGCATCACTTGGGCA
58.231
42.857
5.01
0.00
35.41
5.36
2477
2727
0.748450
CGCCATGCCAATTTGGATCT
59.252
50.000
19.76
0.00
40.96
2.75
2496
2746
3.043713
CCGCTGCGCAGAGTTTCA
61.044
61.111
40.21
0.00
0.00
2.69
2555
2805
3.382111
CTCCTGGAGCTCGTGGTT
58.618
61.111
11.42
0.00
0.00
3.67
2559
2809
1.367471
CTGGAGCTCGTGGTTGTCA
59.633
57.895
7.83
0.00
0.00
3.58
2580
2830
2.219458
TCCATCGTAGGTCTTCTAGCG
58.781
52.381
0.00
0.00
0.00
4.26
2581
2831
1.335142
CCATCGTAGGTCTTCTAGCGC
60.335
57.143
0.00
0.00
0.00
5.92
2941
3221
8.150945
AGCACTAGTACCCTATTTTACATCATG
58.849
37.037
0.00
0.00
0.00
3.07
3016
3296
9.176181
TGTAAATTTTACTCGAAGCACAATTTC
57.824
29.630
17.70
0.00
0.00
2.17
3029
3309
6.932901
AGCACAATTTCGTGATGTATTTTG
57.067
33.333
0.30
0.00
39.34
2.44
3129
3409
3.516512
ATGGGTGTTGGTGGGCCA
61.517
61.111
0.00
0.00
44.38
5.36
3163
3443
3.616721
AGGCAGACGTGTCCGCTT
61.617
61.111
8.02
0.00
37.70
4.68
3245
3525
4.415881
TTATGGGTATGCGAACAGTCAT
57.584
40.909
0.00
0.00
0.00
3.06
3247
3527
1.552792
TGGGTATGCGAACAGTCATGA
59.447
47.619
0.00
0.00
0.00
3.07
3304
3584
3.660111
GACCCACTTGCACACCGC
61.660
66.667
0.00
0.00
42.89
5.68
3489
3770
3.055602
GTGAGAATTACCCGGTTACTGGT
60.056
47.826
9.62
5.96
37.92
4.00
3613
4096
9.345517
CATTTTTCTCCATGTGTATGTAACTTG
57.654
33.333
0.00
0.00
32.21
3.16
3649
4132
2.079925
CCTAGACAGGTGAAGCTTTGC
58.920
52.381
0.00
0.00
37.15
3.68
3688
4171
9.778741
TCTGGTTATTATCACAAGGTTGATATC
57.221
33.333
0.00
0.00
38.10
1.63
3804
4287
5.407691
AGATGCATGCATGTTCTCTAATACG
59.592
40.000
36.73
0.00
36.70
3.06
3805
4288
4.441792
TGCATGCATGTTCTCTAATACGT
58.558
39.130
26.79
0.00
0.00
3.57
3855
4416
4.104738
CCATCAGGGTAATGGGACTAATGT
59.895
45.833
0.00
0.00
40.07
2.71
3905
4466
6.316390
GGTTGTATATCTGTTCCTGACCTTTG
59.684
42.308
0.00
0.00
0.00
2.77
3942
4503
2.223377
GCTGTTGTAGGAAGGTGAAACG
59.777
50.000
0.00
0.00
38.12
3.60
3976
4537
4.336993
ACGTGAAAAACAAGCCATCAACTA
59.663
37.500
0.00
0.00
0.00
2.24
4002
4563
0.964358
GCATGCTTTCCTCTGCTGGT
60.964
55.000
11.37
0.00
0.00
4.00
4011
4572
1.210478
TCCTCTGCTGGTTTATCTGGC
59.790
52.381
0.00
0.00
0.00
4.85
4104
4665
2.376165
GCTCCCACCTCCCCCTAAC
61.376
68.421
0.00
0.00
0.00
2.34
4221
4782
9.801873
GATATTTCTGCTATAGAGGTGAGAATC
57.198
37.037
3.21
0.00
36.61
2.52
4255
4817
6.456501
ACTTTCACTACAATCTCTACGCTTT
58.543
36.000
0.00
0.00
0.00
3.51
4413
4975
2.831526
ACTGGGACAAACAAAAAGCACT
59.168
40.909
0.00
0.00
38.70
4.40
4463
5025
1.400846
GAATGCCATCTGCTGTGTCAG
59.599
52.381
0.00
0.00
42.00
3.51
4468
5030
1.274447
CCATCTGCTGTGTCAGAGACA
59.726
52.381
0.14
0.00
45.22
3.41
4469
5031
2.289257
CCATCTGCTGTGTCAGAGACAA
60.289
50.000
1.44
0.00
44.49
3.18
4470
5032
3.396560
CATCTGCTGTGTCAGAGACAAA
58.603
45.455
1.44
0.00
44.49
2.83
4602
5169
2.677875
CCTTTGGGGAGGTGCTGC
60.678
66.667
0.00
0.00
37.23
5.25
4623
5190
4.349048
TGCTATCTATCAAGGCATCAACCT
59.651
41.667
0.00
0.00
43.91
3.50
4654
5221
0.174617
GGGAGCTCCGAAAGTCTGAG
59.825
60.000
26.36
0.00
36.71
3.35
4771
5338
8.571336
CACTTGTATTTCTGTCCTGAAAGATTT
58.429
33.333
5.73
0.00
39.01
2.17
4849
5416
6.089820
CGTTTGAAAACTAGAGCACGGTTATA
59.910
38.462
0.00
0.00
36.77
0.98
4949
5516
5.299279
ACAGTCGTGAAACCAAGAATGATTT
59.701
36.000
13.62
0.00
39.33
2.17
5063
5630
2.779282
CATACATGGACGCCAAGCA
58.221
52.632
0.00
0.00
36.95
3.91
5065
5632
0.748005
ATACATGGACGCCAAGCACC
60.748
55.000
0.00
0.00
36.95
5.01
5066
5633
2.118233
TACATGGACGCCAAGCACCA
62.118
55.000
0.00
5.26
36.95
4.17
5068
5635
1.304381
ATGGACGCCAAGCACCATT
60.304
52.632
8.75
0.00
40.39
3.16
5069
5636
1.597797
ATGGACGCCAAGCACCATTG
61.598
55.000
8.75
0.00
40.39
2.82
5073
5640
0.031994
ACGCCAAGCACCATTGTTTC
59.968
50.000
0.00
0.00
0.00
2.78
5155
5722
3.102052
AGCAAAGCCACAAAACTCATG
57.898
42.857
0.00
0.00
0.00
3.07
5484
6129
7.437862
GCAAACAAAATTGTGATCCTAACTTCA
59.562
33.333
1.62
0.00
41.31
3.02
5584
6229
0.984230
CTTCCTAGACAAGGGTGCCA
59.016
55.000
0.00
0.00
46.55
4.92
5645
6290
1.067706
CCGTTTGCAATGGATTCTGCA
60.068
47.619
11.80
0.00
46.50
4.41
5786
6431
1.501741
CGCGGCAAAGCAGTACATT
59.498
52.632
0.00
0.00
36.85
2.71
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
0
1
8.810427
CATCTACAACCATGATTTACAAATTGC
58.190
33.333
0.00
0.00
0.00
3.56
45
46
2.897969
AGTGGGACGTTACATGAGTCTT
59.102
45.455
0.00
0.00
35.42
3.01
120
121
5.011635
ACATTTTAGGTGGCAGGTTAAAAGG
59.988
40.000
15.25
15.25
34.67
3.11
305
312
2.022764
TCACAGGTTGAGTGTGTGTG
57.977
50.000
3.33
0.00
44.75
3.82
306
313
2.356135
GTTCACAGGTTGAGTGTGTGT
58.644
47.619
3.33
0.00
44.75
3.72
307
314
1.327460
CGTTCACAGGTTGAGTGTGTG
59.673
52.381
3.33
0.00
44.75
3.82
308
315
1.066430
ACGTTCACAGGTTGAGTGTGT
60.066
47.619
3.33
0.00
44.75
3.72
342
349
6.441924
CCTCTCAAAGGCATCTATAGGGATAA
59.558
42.308
0.00
0.00
38.67
1.75
358
365
5.486526
AGTTGTTAGATCTGCCTCTCAAAG
58.513
41.667
5.18
0.00
0.00
2.77
393
400
5.242434
AGTTTAACGTCTATGGTGCATTCA
58.758
37.500
0.00
0.00
0.00
2.57
421
428
6.319152
AGCTTTCATTTTCATGGATGAGAGAG
59.681
38.462
19.60
13.77
36.91
3.20
485
492
3.636282
ACCCACGTTTTGAGCATTTAC
57.364
42.857
0.00
0.00
0.00
2.01
486
493
3.502979
GGTACCCACGTTTTGAGCATTTA
59.497
43.478
0.00
0.00
0.00
1.40
487
494
2.295070
GGTACCCACGTTTTGAGCATTT
59.705
45.455
0.00
0.00
0.00
2.32
488
495
1.883926
GGTACCCACGTTTTGAGCATT
59.116
47.619
0.00
0.00
0.00
3.56
490
497
0.180642
TGGTACCCACGTTTTGAGCA
59.819
50.000
10.07
0.00
0.00
4.26
506
528
1.971357
CATATTCCTCGTAGGCCTGGT
59.029
52.381
17.99
0.00
34.61
4.00
516
538
7.650504
TCAACTACCGTAATTTCATATTCCTCG
59.349
37.037
0.00
0.00
0.00
4.63
521
543
9.607988
TGACATCAACTACCGTAATTTCATATT
57.392
29.630
0.00
0.00
0.00
1.28
551
573
2.547855
CCGAGTGTGATTGGACTGTCAA
60.548
50.000
10.38
0.00
0.00
3.18
572
594
5.280945
TGTAAAGTCTTGCAAACATTCAGC
58.719
37.500
0.00
0.00
0.00
4.26
578
600
9.809096
TCAATTATTTGTAAAGTCTTGCAAACA
57.191
25.926
14.15
0.00
45.85
2.83
619
641
5.473066
ACACAAGCCTTATTGCAATTTCT
57.527
34.783
18.75
6.90
33.28
2.52
622
644
3.747529
GCAACACAAGCCTTATTGCAATT
59.252
39.130
18.75
1.81
44.01
2.32
630
661
2.803451
CGTTTTGCAACACAAGCCTTA
58.197
42.857
15.56
0.00
40.06
2.69
665
700
1.490069
AGTTGTTGGGCCTTTGCAATT
59.510
42.857
4.53
0.00
40.13
2.32
689
724
4.026475
CGAAGACAGCATTTCGATCCTTAC
60.026
45.833
0.70
0.00
46.67
2.34
698
734
0.729690
GGAGCCGAAGACAGCATTTC
59.270
55.000
0.00
0.00
0.00
2.17
701
737
1.965754
GAGGGAGCCGAAGACAGCAT
61.966
60.000
0.00
0.00
0.00
3.79
710
746
2.154798
CTGTTGTTCGAGGGAGCCGA
62.155
60.000
0.00
0.00
0.00
5.54
733
769
3.383825
TCTGTCTAAAAGATCTACCGCCC
59.616
47.826
0.00
0.00
0.00
6.13
740
776
5.393243
GGCTACGTGTCTGTCTAAAAGATCT
60.393
44.000
0.00
0.00
0.00
2.75
753
805
1.674962
GAACTATCCGGCTACGTGTCT
59.325
52.381
0.00
0.00
38.78
3.41
772
824
1.212751
CGCGGGCTCATATCGATGA
59.787
57.895
8.54
0.00
39.88
2.92
773
825
0.170339
TACGCGGGCTCATATCGATG
59.830
55.000
12.47
0.00
0.00
3.84
774
826
1.103803
ATACGCGGGCTCATATCGAT
58.896
50.000
12.47
2.16
0.00
3.59
775
827
0.885879
AATACGCGGGCTCATATCGA
59.114
50.000
12.47
0.00
0.00
3.59
929
1060
1.626356
TTTGCCCCTCTGATCGGGAG
61.626
60.000
12.86
7.85
44.90
4.30
984
1124
3.456365
GCGAGGAGGAGCAGCAGA
61.456
66.667
0.00
0.00
0.00
4.26
990
1130
2.185608
GAAGGTGCGAGGAGGAGC
59.814
66.667
0.00
0.00
39.07
4.70
1014
1154
0.739561
AGGAGAAGACGTGGTATCGC
59.260
55.000
0.00
0.00
0.00
4.58
1113
1255
2.682856
GGGCTTGATCTGACGCAAAATA
59.317
45.455
0.00
0.00
0.00
1.40
1217
1360
5.235186
GCTGCTACAATCGAATAGACAATGT
59.765
40.000
0.00
0.00
0.00
2.71
1241
1384
2.652496
GCTCGCCGCTCTACTTCG
60.652
66.667
0.00
0.00
35.14
3.79
1551
1694
1.800315
GAGCACGAAGTAGCGCGAA
60.800
57.895
12.10
0.00
41.61
4.70
1704
1847
3.062466
TCGTCTGCCTCCTCACCG
61.062
66.667
0.00
0.00
0.00
4.94
1707
1850
2.640302
GCTGTCGTCTGCCTCCTCA
61.640
63.158
0.21
0.00
33.40
3.86
1782
1925
3.277715
AGCAATAGCAAAGAGAGAAGCC
58.722
45.455
0.00
0.00
45.49
4.35
1833
1976
6.924111
ACTAATTTGGCAGTGAAAATGTAGG
58.076
36.000
0.00
0.00
32.28
3.18
1986
2149
9.906660
TTGTTCATTTGGTCATTATGTAACTTC
57.093
29.630
0.00
0.00
0.00
3.01
2214
2459
2.073816
CACTTGGTGCCCTACTTTACG
58.926
52.381
0.00
0.00
0.00
3.18
2220
2465
0.322456
TGCATCACTTGGTGCCCTAC
60.322
55.000
11.91
0.00
40.56
3.18
2258
2503
0.801251
GCTCATGTTTTGCTCGAGCT
59.199
50.000
35.27
13.88
44.47
4.09
2326
2571
4.671590
TGGTCGGGTGGAGAGCGA
62.672
66.667
0.00
0.00
38.81
4.93
2555
2805
3.632333
AGAAGACCTACGATGGATGACA
58.368
45.455
5.55
0.00
0.00
3.58
2559
2809
2.814919
CGCTAGAAGACCTACGATGGAT
59.185
50.000
0.00
0.00
0.00
3.41
2638
2888
3.118454
CGCGATGCCGACCAAAGT
61.118
61.111
0.00
0.00
38.22
2.66
2670
2920
1.684391
GGGGGCTGCCCGTAATTTT
60.684
57.895
30.32
0.00
46.66
1.82
2941
3221
3.430236
CCAAAAACCTCCAACTCCAACAC
60.430
47.826
0.00
0.00
0.00
3.32
3129
3409
1.727062
CCTGCATCCCTAGTCAGGAT
58.273
55.000
1.09
0.96
46.80
3.24
3174
3454
2.722094
AGGATTAGTGCAATTTCGGCA
58.278
42.857
0.00
0.00
39.32
5.69
3211
3491
7.663905
TCGCATACCCATAATTAAAACTAGCAT
59.336
33.333
0.00
0.00
0.00
3.79
3304
3584
2.190578
CTCGCCAAGGCCCTAAGG
59.809
66.667
5.34
0.00
37.98
2.69
3312
3592
5.420409
GTCTTAATATATCCCTCGCCAAGG
58.580
45.833
0.00
0.00
45.77
3.61
3317
3597
5.401531
TGTGGTCTTAATATATCCCTCGC
57.598
43.478
0.00
0.00
0.00
5.03
3318
3598
7.170393
TCATGTGGTCTTAATATATCCCTCG
57.830
40.000
0.00
0.00
0.00
4.63
3489
3770
2.703007
ACACCATTTTTGGCCAGCTAAA
59.297
40.909
5.11
8.84
0.00
1.85
3635
4118
3.051081
ACTCTAGCAAAGCTTCACCTG
57.949
47.619
0.00
0.00
40.44
4.00
3636
4119
3.778954
AACTCTAGCAAAGCTTCACCT
57.221
42.857
0.00
0.00
40.44
4.00
3876
4437
7.514127
AGGTCAGGAACAGATATACAACCATAT
59.486
37.037
0.00
0.00
0.00
1.78
3905
4466
0.465097
CAGCAGGGACACCATCATCC
60.465
60.000
0.00
0.00
40.13
3.51
3942
4503
7.272731
GGCTTGTTTTTCACGTTTATCCTAATC
59.727
37.037
0.00
0.00
0.00
1.75
3976
4537
1.353694
AGAGGAAAGCATGCCACTTCT
59.646
47.619
15.66
13.74
0.00
2.85
4011
4572
0.250989
TAGGTTTTTCAGTGGCCCCG
60.251
55.000
0.00
0.00
0.00
5.73
4234
4795
6.347402
GCAAAAAGCGTAGAGATTGTAGTGAA
60.347
38.462
0.00
0.00
0.00
3.18
4386
4948
1.384525
TTGTTTGTCCCAGTTCGGTG
58.615
50.000
0.00
0.00
0.00
4.94
4463
5025
5.351465
TCAGTCACACAGTTTTCTTTGTCTC
59.649
40.000
0.00
0.00
38.58
3.36
4468
5030
7.433680
ACTTTTTCAGTCACACAGTTTTCTTT
58.566
30.769
0.00
0.00
0.00
2.52
4469
5031
6.981722
ACTTTTTCAGTCACACAGTTTTCTT
58.018
32.000
0.00
0.00
0.00
2.52
4470
5032
6.575162
ACTTTTTCAGTCACACAGTTTTCT
57.425
33.333
0.00
0.00
0.00
2.52
4471
5033
7.270579
GTGTACTTTTTCAGTCACACAGTTTTC
59.729
37.037
0.00
0.00
38.53
2.29
4472
5034
7.081976
GTGTACTTTTTCAGTCACACAGTTTT
58.918
34.615
0.00
0.00
38.53
2.43
4602
5169
4.694509
GCAGGTTGATGCCTTGATAGATAG
59.305
45.833
0.00
0.00
40.43
2.08
4623
5190
0.182061
GAGCTCCCTGAATCCATGCA
59.818
55.000
0.87
0.00
0.00
3.96
4654
5221
6.884836
ACCCACACTTCTATTCAGGAAAATAC
59.115
38.462
0.00
0.00
0.00
1.89
4771
5338
5.120208
GCTTTTCGCATAAACAGTACTCTCA
59.880
40.000
0.00
0.00
38.92
3.27
4796
5363
7.188834
TCTTCGCAAATGATAGCATAAAACAG
58.811
34.615
0.00
0.00
33.44
3.16
4831
5398
7.822822
AGAACAAATATAACCGTGCTCTAGTTT
59.177
33.333
0.00
0.00
0.00
2.66
4849
5416
2.676839
CAGATCAGCGCAGAGAACAAAT
59.323
45.455
11.47
0.00
0.00
2.32
5155
5722
4.742438
TTGAAGCTGTGATACCGTTTTC
57.258
40.909
0.00
0.00
0.00
2.29
5484
6129
1.076024
ACATGTGAATGAACTGCCCCT
59.924
47.619
0.00
0.00
0.00
4.79
5584
6229
6.720112
ACAATCAAATGCATAAGCCTATGT
57.280
33.333
0.00
0.00
41.13
2.29
5645
6290
1.133668
AGCTTGTTGAACCAGCTCCTT
60.134
47.619
17.07
0.00
0.00
3.36
5786
6431
1.970640
TGCTCCTTGTAGTGCTTCTCA
59.029
47.619
0.00
0.00
0.00
3.27
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.