Multiple sequence alignment - TraesCS3B01G211700
Loading Multiple Alignment...
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
TraesCS3B01G211700
chr3B
100.000
3428
0
0
1
3428
250820389
250816962
0.000000e+00
6331.0
1
TraesCS3B01G211700
chr3D
96.751
2739
62
12
713
3428
172383511
172380777
0.000000e+00
4540.0
2
TraesCS3B01G211700
chr3A
95.374
2702
75
20
747
3428
210261284
210258613
0.000000e+00
4252.0
3
TraesCS3B01G211700
chr3A
82.157
510
63
19
182
674
100344743
100344245
2.460000e-111
412.0
4
TraesCS3B01G211700
chr3A
83.226
310
34
14
186
487
516837942
516837643
5.640000e-68
268.0
5
TraesCS3B01G211700
chr2B
83.206
524
68
17
203
714
617530402
617529887
2.410000e-126
462.0
6
TraesCS3B01G211700
chr2B
85.600
125
16
2
522
646
631502309
631502187
2.780000e-26
130.0
7
TraesCS3B01G211700
chr6B
82.289
463
51
15
186
643
171464373
171464809
4.180000e-99
372.0
8
TraesCS3B01G211700
chr5D
83.073
384
34
17
189
560
487416224
487415860
1.530000e-83
320.0
9
TraesCS3B01G211700
chr5D
82.445
319
27
16
183
487
9944413
9944716
5.680000e-63
252.0
10
TraesCS3B01G211700
chr6A
84.946
279
28
10
291
560
107513178
107513451
1.570000e-68
270.0
11
TraesCS3B01G211700
chr2D
84.775
289
19
11
186
463
229054029
229053755
2.030000e-67
267.0
12
TraesCS3B01G211700
chr1A
82.792
308
26
11
183
487
186751461
186751744
2.040000e-62
250.0
13
TraesCS3B01G211700
chr6D
83.871
93
10
4
1
89
371523195
371523286
2.190000e-12
84.2
14
TraesCS3B01G211700
chr2A
84.722
72
3
6
275
345
5649616
5649680
7.940000e-07
65.8
15
TraesCS3B01G211700
chr5B
94.872
39
2
0
671
709
503082590
503082628
1.030000e-05
62.1
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
TraesCS3B01G211700
chr3B
250816962
250820389
3427
True
6331
6331
100.000
1
3428
1
chr3B.!!$R1
3427
1
TraesCS3B01G211700
chr3D
172380777
172383511
2734
True
4540
4540
96.751
713
3428
1
chr3D.!!$R1
2715
2
TraesCS3B01G211700
chr3A
210258613
210261284
2671
True
4252
4252
95.374
747
3428
1
chr3A.!!$R2
2681
3
TraesCS3B01G211700
chr2B
617529887
617530402
515
True
462
462
83.206
203
714
1
chr2B.!!$R1
511
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
79
80
0.229753
GCGATGAGTAATTCCGTGCG
59.770
55.0
0.00
0.0
0.00
5.34
F
195
196
0.250727
GTGGGCTACAGCTGGTCAAA
60.251
55.0
19.93
0.0
41.70
2.69
F
201
202
0.250727
TACAGCTGGTCAAACAGGCC
60.251
55.0
19.93
0.0
44.53
5.19
F
1247
1270
0.336737
GAGGAGGTGGAAGAGGAGGA
59.663
60.0
0.00
0.0
0.00
3.71
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
1247
1270
0.257616
CTCCTCGACCTCCTCTTCCT
59.742
60.000
0.00
0.0
0.00
3.36
R
1977
2015
0.325933
TCTGGCAGTGCAGCATAACT
59.674
50.000
18.61
0.0
35.83
2.24
R
2108
2146
1.176527
CCCATAACCAGCACCAACAG
58.823
55.000
0.00
0.0
0.00
3.16
R
2440
2478
1.201647
ACAGTTAGGACACATCGACCG
59.798
52.381
0.00
0.0
34.24
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
28
29
9.875675
GTAGAAACGAATGTATCTAGACGTATT
57.124
33.333
0.00
0.00
33.76
1.89
30
31
9.798994
AGAAACGAATGTATCTAGACGTATTTT
57.201
29.630
0.00
0.00
33.76
1.82
61
62
9.407380
TCTAGATCCATTTCTCTCTATCTATGC
57.593
37.037
0.00
0.00
0.00
3.14
62
63
7.099266
AGATCCATTTCTCTCTATCTATGCG
57.901
40.000
0.00
0.00
0.00
4.73
63
64
6.889177
AGATCCATTTCTCTCTATCTATGCGA
59.111
38.462
0.00
0.00
0.00
5.10
64
65
7.560991
AGATCCATTTCTCTCTATCTATGCGAT
59.439
37.037
0.00
0.00
36.11
4.58
65
66
6.861144
TCCATTTCTCTCTATCTATGCGATG
58.139
40.000
0.00
0.00
33.48
3.84
66
67
6.660949
TCCATTTCTCTCTATCTATGCGATGA
59.339
38.462
0.00
0.00
33.48
2.92
67
68
6.974048
CCATTTCTCTCTATCTATGCGATGAG
59.026
42.308
0.00
0.00
33.48
2.90
68
69
7.362834
CCATTTCTCTCTATCTATGCGATGAGT
60.363
40.741
0.00
0.00
33.15
3.41
69
70
8.672815
CATTTCTCTCTATCTATGCGATGAGTA
58.327
37.037
0.00
0.00
33.15
2.59
70
71
8.622948
TTTCTCTCTATCTATGCGATGAGTAA
57.377
34.615
0.00
0.00
33.15
2.24
71
72
8.800370
TTCTCTCTATCTATGCGATGAGTAAT
57.200
34.615
0.00
0.00
33.15
1.89
72
73
8.800370
TCTCTCTATCTATGCGATGAGTAATT
57.200
34.615
0.00
0.00
33.15
1.40
73
74
8.888716
TCTCTCTATCTATGCGATGAGTAATTC
58.111
37.037
0.00
0.00
33.15
2.17
74
75
7.990917
TCTCTATCTATGCGATGAGTAATTCC
58.009
38.462
0.00
0.00
33.15
3.01
75
76
6.786207
TCTATCTATGCGATGAGTAATTCCG
58.214
40.000
0.00
0.00
33.48
4.30
76
77
4.848562
TCTATGCGATGAGTAATTCCGT
57.151
40.909
0.00
0.00
0.00
4.69
77
78
4.546570
TCTATGCGATGAGTAATTCCGTG
58.453
43.478
0.00
0.00
0.00
4.94
78
79
1.286501
TGCGATGAGTAATTCCGTGC
58.713
50.000
0.00
0.00
0.00
5.34
79
80
0.229753
GCGATGAGTAATTCCGTGCG
59.770
55.000
0.00
0.00
0.00
5.34
80
81
1.835121
CGATGAGTAATTCCGTGCGA
58.165
50.000
0.00
0.00
0.00
5.10
81
82
2.190161
CGATGAGTAATTCCGTGCGAA
58.810
47.619
0.00
0.00
34.14
4.70
82
83
2.216488
CGATGAGTAATTCCGTGCGAAG
59.784
50.000
0.00
0.00
32.78
3.79
83
84
2.004583
TGAGTAATTCCGTGCGAAGG
57.995
50.000
0.00
0.00
32.78
3.46
84
85
1.287425
GAGTAATTCCGTGCGAAGGG
58.713
55.000
0.00
0.00
32.78
3.95
85
86
0.899720
AGTAATTCCGTGCGAAGGGA
59.100
50.000
0.00
0.00
32.78
4.20
86
87
1.134788
AGTAATTCCGTGCGAAGGGAG
60.135
52.381
4.72
0.00
32.78
4.30
87
88
0.899720
TAATTCCGTGCGAAGGGAGT
59.100
50.000
4.72
0.00
32.78
3.85
88
89
0.899720
AATTCCGTGCGAAGGGAGTA
59.100
50.000
4.72
0.00
32.78
2.59
89
90
0.460311
ATTCCGTGCGAAGGGAGTAG
59.540
55.000
4.72
0.00
32.78
2.57
90
91
0.896940
TTCCGTGCGAAGGGAGTAGT
60.897
55.000
4.72
0.00
33.01
2.73
91
92
0.896940
TCCGTGCGAAGGGAGTAGTT
60.897
55.000
0.00
0.00
0.00
2.24
92
93
0.736325
CCGTGCGAAGGGAGTAGTTG
60.736
60.000
0.00
0.00
0.00
3.16
93
94
1.352156
CGTGCGAAGGGAGTAGTTGC
61.352
60.000
0.00
0.00
0.00
4.17
94
95
0.320421
GTGCGAAGGGAGTAGTTGCA
60.320
55.000
0.00
0.00
0.00
4.08
95
96
0.394938
TGCGAAGGGAGTAGTTGCAA
59.605
50.000
0.00
0.00
0.00
4.08
96
97
1.202710
TGCGAAGGGAGTAGTTGCAAA
60.203
47.619
0.00
0.00
0.00
3.68
97
98
1.877443
GCGAAGGGAGTAGTTGCAAAA
59.123
47.619
0.00
0.00
0.00
2.44
98
99
2.095718
GCGAAGGGAGTAGTTGCAAAAG
60.096
50.000
0.00
0.00
0.00
2.27
99
100
3.399330
CGAAGGGAGTAGTTGCAAAAGA
58.601
45.455
0.00
0.00
0.00
2.52
100
101
3.813166
CGAAGGGAGTAGTTGCAAAAGAA
59.187
43.478
0.00
0.00
0.00
2.52
101
102
4.274950
CGAAGGGAGTAGTTGCAAAAGAAA
59.725
41.667
0.00
0.00
0.00
2.52
102
103
5.220970
CGAAGGGAGTAGTTGCAAAAGAAAA
60.221
40.000
0.00
0.00
0.00
2.29
103
104
6.538945
AAGGGAGTAGTTGCAAAAGAAAAA
57.461
33.333
0.00
0.00
0.00
1.94
104
105
5.902681
AGGGAGTAGTTGCAAAAGAAAAAC
58.097
37.500
0.00
0.00
0.00
2.43
105
106
5.420739
AGGGAGTAGTTGCAAAAGAAAAACA
59.579
36.000
0.00
0.00
0.00
2.83
106
107
5.518847
GGGAGTAGTTGCAAAAGAAAAACAC
59.481
40.000
0.00
0.00
0.00
3.32
107
108
5.518847
GGAGTAGTTGCAAAAGAAAAACACC
59.481
40.000
0.00
0.00
0.00
4.16
108
109
5.416083
AGTAGTTGCAAAAGAAAAACACCC
58.584
37.500
0.00
0.00
0.00
4.61
109
110
4.551702
AGTTGCAAAAGAAAAACACCCT
57.448
36.364
0.00
0.00
0.00
4.34
110
111
5.669164
AGTTGCAAAAGAAAAACACCCTA
57.331
34.783
0.00
0.00
0.00
3.53
111
112
6.043854
AGTTGCAAAAGAAAAACACCCTAA
57.956
33.333
0.00
0.00
0.00
2.69
112
113
6.649155
AGTTGCAAAAGAAAAACACCCTAAT
58.351
32.000
0.00
0.00
0.00
1.73
113
114
7.109501
AGTTGCAAAAGAAAAACACCCTAATT
58.890
30.769
0.00
0.00
0.00
1.40
114
115
6.917217
TGCAAAAGAAAAACACCCTAATTG
57.083
33.333
0.00
0.00
0.00
2.32
115
116
5.295540
TGCAAAAGAAAAACACCCTAATTGC
59.704
36.000
0.00
0.00
39.72
3.56
116
117
5.295540
GCAAAAGAAAAACACCCTAATTGCA
59.704
36.000
0.00
0.00
39.25
4.08
117
118
6.183360
GCAAAAGAAAAACACCCTAATTGCAA
60.183
34.615
0.00
0.00
39.25
4.08
118
119
7.468494
GCAAAAGAAAAACACCCTAATTGCAAT
60.468
33.333
5.99
5.99
39.25
3.56
119
120
9.050601
CAAAAGAAAAACACCCTAATTGCAATA
57.949
29.630
13.39
0.54
0.00
1.90
120
121
9.620259
AAAAGAAAAACACCCTAATTGCAATAA
57.380
25.926
13.39
0.00
0.00
1.40
121
122
9.620259
AAAGAAAAACACCCTAATTGCAATAAA
57.380
25.926
13.39
3.23
0.00
1.40
122
123
9.620259
AAGAAAAACACCCTAATTGCAATAAAA
57.380
25.926
13.39
0.56
0.00
1.52
123
124
9.791801
AGAAAAACACCCTAATTGCAATAAAAT
57.208
25.926
13.39
0.00
0.00
1.82
178
179
2.359975
GGAAGGGTCCTTGCCGTG
60.360
66.667
7.03
0.00
41.24
4.94
179
180
2.359975
GAAGGGTCCTTGCCGTGG
60.360
66.667
7.03
0.00
36.26
4.94
180
181
3.920093
GAAGGGTCCTTGCCGTGGG
62.920
68.421
7.03
0.00
36.26
4.61
191
192
3.706373
CCGTGGGCTACAGCTGGT
61.706
66.667
19.93
6.35
41.70
4.00
192
193
2.125512
CGTGGGCTACAGCTGGTC
60.126
66.667
19.93
1.79
41.70
4.02
193
194
2.942796
CGTGGGCTACAGCTGGTCA
61.943
63.158
19.93
5.69
41.70
4.02
194
195
1.374947
GTGGGCTACAGCTGGTCAA
59.625
57.895
19.93
0.00
41.70
3.18
195
196
0.250727
GTGGGCTACAGCTGGTCAAA
60.251
55.000
19.93
0.00
41.70
2.69
196
197
0.250727
TGGGCTACAGCTGGTCAAAC
60.251
55.000
19.93
4.18
41.70
2.93
197
198
0.250727
GGGCTACAGCTGGTCAAACA
60.251
55.000
19.93
0.00
41.70
2.83
198
199
1.160137
GGCTACAGCTGGTCAAACAG
58.840
55.000
19.93
4.33
41.70
3.16
199
200
1.160137
GCTACAGCTGGTCAAACAGG
58.840
55.000
19.93
0.00
38.90
4.00
200
201
1.160137
CTACAGCTGGTCAAACAGGC
58.840
55.000
19.93
0.00
38.90
4.85
201
202
0.250727
TACAGCTGGTCAAACAGGCC
60.251
55.000
19.93
0.00
44.53
5.19
206
207
2.594592
GGTCAAACAGGCCGTGCT
60.595
61.111
0.00
0.00
28.17
4.40
214
215
2.928396
AGGCCGTGCTAACTGGGT
60.928
61.111
0.00
0.00
0.00
4.51
359
370
1.010419
GCACGACACGACCCGTTTAT
61.010
55.000
0.00
0.00
38.32
1.40
449
460
4.335082
TTGTAGTGCATGCGTACATTTC
57.665
40.909
25.21
8.07
32.87
2.17
466
477
9.464714
CGTACATTTCTAGTGCTCTAATATGTT
57.535
33.333
15.96
6.88
0.00
2.71
528
544
5.888691
TTTTGCCTTTTTCCCTTTTTGAC
57.111
34.783
0.00
0.00
0.00
3.18
537
553
6.466885
TTTTCCCTTTTTGACGGTATTTCA
57.533
33.333
0.00
0.00
0.00
2.69
538
554
6.658188
TTTCCCTTTTTGACGGTATTTCAT
57.342
33.333
0.00
0.00
0.00
2.57
545
563
9.685828
CCTTTTTGACGGTATTTCATAGAAAAA
57.314
29.630
0.00
0.00
0.00
1.94
576
594
0.741574
CACATACCGGCGTGCCTAAA
60.742
55.000
9.55
0.00
0.00
1.85
584
602
2.686816
GCGTGCCTAAACGTGCCAT
61.687
57.895
0.00
0.00
45.32
4.40
606
624
2.598787
CCGGCCCACTTAACTCCCA
61.599
63.158
0.00
0.00
0.00
4.37
666
684
4.699522
GCCCGGCCCGGCTATTAG
62.700
72.222
25.94
2.47
46.86
1.73
674
692
1.440060
CCGGCTATTAGTCGTGCCA
59.560
57.895
15.87
0.00
42.67
4.92
675
693
0.597637
CCGGCTATTAGTCGTGCCAG
60.598
60.000
15.87
0.00
42.67
4.85
677
695
0.880718
GGCTATTAGTCGTGCCAGGC
60.881
60.000
3.66
3.66
44.34
4.85
679
697
0.753262
CTATTAGTCGTGCCAGGCCT
59.247
55.000
9.64
0.00
0.00
5.19
681
699
1.553690
ATTAGTCGTGCCAGGCCTGT
61.554
55.000
30.63
13.32
0.00
4.00
682
700
1.764571
TTAGTCGTGCCAGGCCTGTT
61.765
55.000
30.63
9.75
0.00
3.16
683
701
1.764571
TAGTCGTGCCAGGCCTGTTT
61.765
55.000
30.63
10.42
0.00
2.83
684
702
1.302192
GTCGTGCCAGGCCTGTTTA
60.302
57.895
30.63
13.94
0.00
2.01
687
705
1.656818
CGTGCCAGGCCTGTTTATGG
61.657
60.000
30.63
16.80
35.84
2.74
714
732
3.741476
CCGTTTGGCCAGCTCTGC
61.741
66.667
5.11
0.00
0.00
4.26
737
755
3.119849
CCTGGGCGTTCTTCTAACAATTG
60.120
47.826
3.24
3.24
0.00
2.32
744
762
4.693566
CGTTCTTCTAACAATTGTAGGCCA
59.306
41.667
12.39
0.00
0.00
5.36
752
770
2.375174
ACAATTGTAGGCCAAGGAGACA
59.625
45.455
9.97
0.00
36.25
3.41
770
792
1.355720
ACAACAGGGATTGCTTAGCCT
59.644
47.619
0.29
0.00
32.47
4.58
775
797
2.373169
CAGGGATTGCTTAGCCTATCCA
59.627
50.000
25.95
0.00
39.16
3.41
816
838
7.039722
AGGAAAGGAAAACACCCATATAAGA
57.960
36.000
0.00
0.00
0.00
2.10
818
840
8.122481
AGGAAAGGAAAACACCCATATAAGATT
58.878
33.333
0.00
0.00
0.00
2.40
876
898
2.033194
GTGCCGTGAACTAGCCACC
61.033
63.158
9.46
0.00
0.00
4.61
1247
1270
0.336737
GAGGAGGTGGAAGAGGAGGA
59.663
60.000
0.00
0.00
0.00
3.71
1284
1322
2.338785
GGAAGAACAGCAGCAGGCC
61.339
63.158
0.00
0.00
46.50
5.19
1890
1928
2.342279
CTCGACAAGGCAACCGGA
59.658
61.111
9.46
0.00
37.17
5.14
1977
2015
1.522668
CGCACAAGTCATTTGAGGGA
58.477
50.000
0.00
0.00
40.91
4.20
2086
2124
2.478890
GCTGCTGGCTATGGTGCTG
61.479
63.158
0.00
0.00
38.06
4.41
2108
2146
3.915575
CCATTCTCTGCCTGGCAC
58.084
61.111
19.30
0.00
33.79
5.01
2440
2478
5.751586
TGGGTCATTAGGTAAGATTTGGTC
58.248
41.667
0.00
0.00
0.00
4.02
2588
2626
8.630054
TTTACACTGGTATTAGTCTTGCATTT
57.370
30.769
0.00
0.00
0.00
2.32
2836
2875
7.609056
TGTAGGTCATCTGTTAAGTAAGGAAC
58.391
38.462
0.00
0.00
0.00
3.62
2993
3033
8.785184
AATAGTAATAGGTTGAGGCTAGAAGT
57.215
34.615
0.00
0.00
0.00
3.01
3039
3080
8.023128
GCTCTGTTTTAGTTTAATGATGCTTGA
58.977
33.333
0.00
0.00
0.00
3.02
3117
3158
0.753111
GGCCTTGCAGTATCCTTGGG
60.753
60.000
0.00
0.00
0.00
4.12
3175
3216
3.891422
TTTGGCAGGCCTTATCATTTG
57.109
42.857
0.00
0.00
36.94
2.32
3251
3292
3.221771
TGCAGGTTTCAGTGCTTACATT
58.778
40.909
0.00
0.00
40.54
2.71
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
35
36
9.407380
GCATAGATAGAGAGAAATGGATCTAGA
57.593
37.037
0.00
0.00
31.37
2.43
36
37
8.344831
CGCATAGATAGAGAGAAATGGATCTAG
58.655
40.741
0.00
0.00
31.37
2.43
37
38
8.049721
TCGCATAGATAGAGAGAAATGGATCTA
58.950
37.037
0.00
0.00
32.15
1.98
38
39
6.889177
TCGCATAGATAGAGAGAAATGGATCT
59.111
38.462
0.00
0.00
0.00
2.75
39
40
7.094508
TCGCATAGATAGAGAGAAATGGATC
57.905
40.000
0.00
0.00
0.00
3.36
40
41
7.341512
TCATCGCATAGATAGAGAGAAATGGAT
59.658
37.037
0.00
0.00
37.52
3.41
41
42
6.660949
TCATCGCATAGATAGAGAGAAATGGA
59.339
38.462
0.00
0.00
37.52
3.41
42
43
6.861144
TCATCGCATAGATAGAGAGAAATGG
58.139
40.000
0.00
0.00
37.52
3.16
43
44
7.537715
ACTCATCGCATAGATAGAGAGAAATG
58.462
38.462
0.00
0.00
37.52
2.32
44
45
7.701539
ACTCATCGCATAGATAGAGAGAAAT
57.298
36.000
0.00
0.00
37.52
2.17
45
46
8.622948
TTACTCATCGCATAGATAGAGAGAAA
57.377
34.615
0.00
0.00
37.52
2.52
46
47
8.800370
ATTACTCATCGCATAGATAGAGAGAA
57.200
34.615
0.00
0.00
37.52
2.87
47
48
8.800370
AATTACTCATCGCATAGATAGAGAGA
57.200
34.615
0.00
0.00
37.52
3.10
48
49
8.128582
GGAATTACTCATCGCATAGATAGAGAG
58.871
40.741
0.00
0.00
37.52
3.20
49
50
7.201652
CGGAATTACTCATCGCATAGATAGAGA
60.202
40.741
0.00
0.00
37.52
3.10
50
51
6.909895
CGGAATTACTCATCGCATAGATAGAG
59.090
42.308
0.00
0.00
37.52
2.43
51
52
6.374613
ACGGAATTACTCATCGCATAGATAGA
59.625
38.462
0.00
0.00
37.52
1.98
52
53
6.470556
CACGGAATTACTCATCGCATAGATAG
59.529
42.308
0.00
0.00
37.52
2.08
53
54
6.322491
CACGGAATTACTCATCGCATAGATA
58.678
40.000
0.00
0.00
37.52
1.98
54
55
5.164233
CACGGAATTACTCATCGCATAGAT
58.836
41.667
0.00
0.00
41.01
1.98
55
56
4.546570
CACGGAATTACTCATCGCATAGA
58.453
43.478
0.00
0.00
0.00
1.98
56
57
3.121944
GCACGGAATTACTCATCGCATAG
59.878
47.826
0.00
0.00
0.00
2.23
57
58
3.057019
GCACGGAATTACTCATCGCATA
58.943
45.455
0.00
0.00
0.00
3.14
58
59
1.867233
GCACGGAATTACTCATCGCAT
59.133
47.619
0.00
0.00
0.00
4.73
59
60
1.286501
GCACGGAATTACTCATCGCA
58.713
50.000
0.00
0.00
0.00
5.10
60
61
0.229753
CGCACGGAATTACTCATCGC
59.770
55.000
0.00
0.00
0.00
4.58
61
62
1.835121
TCGCACGGAATTACTCATCG
58.165
50.000
0.00
0.00
0.00
3.84
62
63
2.540101
CCTTCGCACGGAATTACTCATC
59.460
50.000
0.00
0.00
33.26
2.92
63
64
2.550978
CCTTCGCACGGAATTACTCAT
58.449
47.619
0.00
0.00
33.26
2.90
64
65
1.404986
CCCTTCGCACGGAATTACTCA
60.405
52.381
0.00
0.00
33.26
3.41
65
66
1.134907
TCCCTTCGCACGGAATTACTC
60.135
52.381
0.00
0.00
33.26
2.59
66
67
0.899720
TCCCTTCGCACGGAATTACT
59.100
50.000
0.00
0.00
33.26
2.24
67
68
1.287425
CTCCCTTCGCACGGAATTAC
58.713
55.000
0.00
0.00
33.26
1.89
68
69
0.899720
ACTCCCTTCGCACGGAATTA
59.100
50.000
0.00
0.00
33.26
1.40
69
70
0.899720
TACTCCCTTCGCACGGAATT
59.100
50.000
0.00
0.00
33.26
2.17
70
71
0.460311
CTACTCCCTTCGCACGGAAT
59.540
55.000
0.00
0.00
33.26
3.01
71
72
0.896940
ACTACTCCCTTCGCACGGAA
60.897
55.000
0.00
0.00
0.00
4.30
72
73
0.896940
AACTACTCCCTTCGCACGGA
60.897
55.000
0.00
0.00
0.00
4.69
73
74
0.736325
CAACTACTCCCTTCGCACGG
60.736
60.000
0.00
0.00
0.00
4.94
74
75
1.352156
GCAACTACTCCCTTCGCACG
61.352
60.000
0.00
0.00
0.00
5.34
75
76
0.320421
TGCAACTACTCCCTTCGCAC
60.320
55.000
0.00
0.00
0.00
5.34
76
77
0.394938
TTGCAACTACTCCCTTCGCA
59.605
50.000
0.00
0.00
0.00
5.10
77
78
1.519408
TTTGCAACTACTCCCTTCGC
58.481
50.000
0.00
0.00
0.00
4.70
78
79
3.399330
TCTTTTGCAACTACTCCCTTCG
58.601
45.455
0.00
0.00
0.00
3.79
79
80
5.767816
TTTCTTTTGCAACTACTCCCTTC
57.232
39.130
0.00
0.00
0.00
3.46
80
81
6.071051
TGTTTTTCTTTTGCAACTACTCCCTT
60.071
34.615
0.00
0.00
0.00
3.95
81
82
5.420739
TGTTTTTCTTTTGCAACTACTCCCT
59.579
36.000
0.00
0.00
0.00
4.20
82
83
5.518847
GTGTTTTTCTTTTGCAACTACTCCC
59.481
40.000
0.00
0.00
0.00
4.30
83
84
5.518847
GGTGTTTTTCTTTTGCAACTACTCC
59.481
40.000
0.00
0.00
0.00
3.85
84
85
5.518847
GGGTGTTTTTCTTTTGCAACTACTC
59.481
40.000
0.00
0.00
0.00
2.59
85
86
5.186992
AGGGTGTTTTTCTTTTGCAACTACT
59.813
36.000
0.00
0.00
0.00
2.57
86
87
5.416083
AGGGTGTTTTTCTTTTGCAACTAC
58.584
37.500
0.00
0.00
0.00
2.73
87
88
5.669164
AGGGTGTTTTTCTTTTGCAACTA
57.331
34.783
0.00
0.00
0.00
2.24
88
89
4.551702
AGGGTGTTTTTCTTTTGCAACT
57.448
36.364
0.00
0.00
0.00
3.16
89
90
6.918892
ATTAGGGTGTTTTTCTTTTGCAAC
57.081
33.333
0.00
0.00
0.00
4.17
90
91
6.183360
GCAATTAGGGTGTTTTTCTTTTGCAA
60.183
34.615
0.00
0.00
36.61
4.08
91
92
5.295540
GCAATTAGGGTGTTTTTCTTTTGCA
59.704
36.000
0.00
0.00
36.61
4.08
92
93
5.295540
TGCAATTAGGGTGTTTTTCTTTTGC
59.704
36.000
0.00
0.00
37.00
3.68
93
94
6.917217
TGCAATTAGGGTGTTTTTCTTTTG
57.083
33.333
0.00
0.00
0.00
2.44
94
95
9.620259
TTATTGCAATTAGGGTGTTTTTCTTTT
57.380
25.926
18.75
0.00
0.00
2.27
95
96
9.620259
TTTATTGCAATTAGGGTGTTTTTCTTT
57.380
25.926
18.75
0.00
0.00
2.52
96
97
9.620259
TTTTATTGCAATTAGGGTGTTTTTCTT
57.380
25.926
18.75
0.00
0.00
2.52
97
98
9.791801
ATTTTATTGCAATTAGGGTGTTTTTCT
57.208
25.926
18.75
0.00
0.00
2.52
161
162
2.359975
CACGGCAAGGACCCTTCC
60.360
66.667
0.00
3.31
43.22
3.46
162
163
2.359975
CCACGGCAAGGACCCTTC
60.360
66.667
0.00
0.00
33.42
3.46
163
164
3.966543
CCCACGGCAAGGACCCTT
61.967
66.667
0.00
0.00
36.60
3.95
174
175
3.665675
GACCAGCTGTAGCCCACGG
62.666
68.421
13.81
0.00
43.38
4.94
175
176
2.125512
GACCAGCTGTAGCCCACG
60.126
66.667
13.81
0.00
43.38
4.94
176
177
0.250727
TTTGACCAGCTGTAGCCCAC
60.251
55.000
13.81
0.00
43.38
4.61
177
178
0.250727
GTTTGACCAGCTGTAGCCCA
60.251
55.000
13.81
0.00
43.38
5.36
178
179
0.250727
TGTTTGACCAGCTGTAGCCC
60.251
55.000
13.81
0.00
43.38
5.19
179
180
1.160137
CTGTTTGACCAGCTGTAGCC
58.840
55.000
13.81
0.00
43.38
3.93
180
181
1.160137
CCTGTTTGACCAGCTGTAGC
58.840
55.000
13.81
1.74
42.49
3.58
181
182
1.160137
GCCTGTTTGACCAGCTGTAG
58.840
55.000
13.81
0.00
0.00
2.74
182
183
0.250727
GGCCTGTTTGACCAGCTGTA
60.251
55.000
13.81
0.00
0.00
2.74
183
184
1.529244
GGCCTGTTTGACCAGCTGT
60.529
57.895
13.81
0.11
0.00
4.40
184
185
2.620112
CGGCCTGTTTGACCAGCTG
61.620
63.158
6.78
6.78
0.00
4.24
185
186
2.281761
CGGCCTGTTTGACCAGCT
60.282
61.111
0.00
0.00
0.00
4.24
186
187
2.594592
ACGGCCTGTTTGACCAGC
60.595
61.111
0.00
0.00
0.00
4.85
187
188
2.908073
GCACGGCCTGTTTGACCAG
61.908
63.158
0.00
0.00
0.00
4.00
188
189
2.046009
TAGCACGGCCTGTTTGACCA
62.046
55.000
0.00
0.00
0.00
4.02
189
190
0.887387
TTAGCACGGCCTGTTTGACC
60.887
55.000
0.00
0.00
0.00
4.02
190
191
0.237498
GTTAGCACGGCCTGTTTGAC
59.763
55.000
0.00
0.00
0.00
3.18
191
192
0.107831
AGTTAGCACGGCCTGTTTGA
59.892
50.000
0.00
0.00
0.00
2.69
192
193
0.238289
CAGTTAGCACGGCCTGTTTG
59.762
55.000
0.00
0.00
0.00
2.93
193
194
0.889186
CCAGTTAGCACGGCCTGTTT
60.889
55.000
0.00
0.00
0.00
2.83
194
195
1.302511
CCAGTTAGCACGGCCTGTT
60.303
57.895
0.00
0.00
0.00
3.16
195
196
2.347490
CCAGTTAGCACGGCCTGT
59.653
61.111
0.00
0.00
0.00
4.00
196
197
2.436646
CCCAGTTAGCACGGCCTG
60.437
66.667
0.00
0.00
0.00
4.85
197
198
2.928396
ACCCAGTTAGCACGGCCT
60.928
61.111
0.00
0.00
0.00
5.19
198
199
2.436115
GACCCAGTTAGCACGGCC
60.436
66.667
0.00
0.00
0.00
6.13
199
200
2.813908
CGACCCAGTTAGCACGGC
60.814
66.667
0.00
0.00
0.00
5.68
200
201
2.125673
CCGACCCAGTTAGCACGG
60.126
66.667
0.00
0.00
34.77
4.94
201
202
2.813908
GCCGACCCAGTTAGCACG
60.814
66.667
0.00
0.00
0.00
5.34
202
203
2.436115
GGCCGACCCAGTTAGCAC
60.436
66.667
0.00
0.00
0.00
4.40
220
221
3.179265
CGTTCCTGCGTGCTACCG
61.179
66.667
0.00
0.00
0.00
4.02
254
255
3.440415
GTGCCTGGCCCGTTTAGC
61.440
66.667
17.53
0.00
0.00
3.09
283
294
4.097863
GTGCCGTGCCGTTTAGCC
62.098
66.667
0.00
0.00
0.00
3.93
284
295
4.439472
CGTGCCGTGCCGTTTAGC
62.439
66.667
0.00
0.00
0.00
3.09
285
296
2.726691
CTCGTGCCGTGCCGTTTAG
61.727
63.158
6.64
0.00
0.00
1.85
286
297
2.735478
CTCGTGCCGTGCCGTTTA
60.735
61.111
6.64
0.00
0.00
2.01
297
308
3.434319
CCATGGTGTGCCTCGTGC
61.434
66.667
2.57
0.00
41.77
5.34
304
315
4.365111
TCCAGGGCCATGGTGTGC
62.365
66.667
34.18
0.00
41.43
4.57
340
351
1.010419
ATAAACGGGTCGTGTCGTGC
61.010
55.000
0.00
0.00
39.99
5.34
420
431
7.975750
TGTACGCATGCACTACAAAATTATTA
58.024
30.769
19.57
0.00
0.00
0.98
511
525
3.812156
ACCGTCAAAAAGGGAAAAAGG
57.188
42.857
0.00
0.00
36.70
3.11
516
530
7.169591
TCTATGAAATACCGTCAAAAAGGGAA
58.830
34.615
0.00
0.00
36.70
3.97
517
531
6.713276
TCTATGAAATACCGTCAAAAAGGGA
58.287
36.000
0.00
0.00
36.70
4.20
545
563
2.745281
CCGGTATGTGTCGGTTTGATTT
59.255
45.455
0.00
0.00
41.23
2.17
560
578
1.519898
CGTTTAGGCACGCCGGTAT
60.520
57.895
1.90
0.00
41.95
2.73
561
579
2.125991
CGTTTAGGCACGCCGGTA
60.126
61.111
1.90
0.00
41.95
4.02
562
580
4.303993
ACGTTTAGGCACGCCGGT
62.304
61.111
1.90
0.00
44.37
5.28
564
582
4.439472
GCACGTTTAGGCACGCCG
62.439
66.667
1.61
0.00
44.37
6.46
588
606
1.921869
ATGGGAGTTAAGTGGGCCGG
61.922
60.000
0.00
0.00
0.00
6.13
652
670
2.049433
CGACTAATAGCCGGGCCG
60.049
66.667
21.46
21.46
0.00
6.13
654
672
1.954651
GCACGACTAATAGCCGGGC
60.955
63.158
12.11
12.11
44.37
6.13
659
677
0.880718
GGCCTGGCACGACTAATAGC
60.881
60.000
22.05
0.00
0.00
2.97
666
684
0.676782
ATAAACAGGCCTGGCACGAC
60.677
55.000
35.42
2.38
34.19
4.34
677
695
3.209097
CGGCCCGCCATAAACAGG
61.209
66.667
6.52
0.00
35.37
4.00
714
732
0.323629
TGTTAGAAGAACGCCCAGGG
59.676
55.000
0.00
0.00
0.00
4.45
715
733
2.178912
TTGTTAGAAGAACGCCCAGG
57.821
50.000
0.00
0.00
0.00
4.45
716
734
3.502211
ACAATTGTTAGAAGAACGCCCAG
59.498
43.478
4.92
0.00
0.00
4.45
717
735
3.482436
ACAATTGTTAGAAGAACGCCCA
58.518
40.909
4.92
0.00
0.00
5.36
720
738
4.436986
GGCCTACAATTGTTAGAAGAACGC
60.437
45.833
17.78
6.81
0.00
4.84
737
755
1.339151
CCTGTTGTCTCCTTGGCCTAC
60.339
57.143
3.32
0.00
0.00
3.18
744
762
1.707427
AGCAATCCCTGTTGTCTCCTT
59.293
47.619
0.00
0.00
0.00
3.36
752
770
3.181439
GGATAGGCTAAGCAATCCCTGTT
60.181
47.826
0.00
0.00
36.95
3.16
770
792
5.408880
TTTATTATGGGCGACGATGGATA
57.591
39.130
0.00
0.00
0.00
2.59
775
797
4.345859
TTCCTTTATTATGGGCGACGAT
57.654
40.909
0.00
0.00
0.00
3.73
834
856
7.306205
CCGTTATATCGGTGTTTTCCTTTTA
57.694
36.000
13.14
0.00
44.77
1.52
835
857
6.185852
CCGTTATATCGGTGTTTTCCTTTT
57.814
37.500
13.14
0.00
44.77
2.27
836
858
5.806366
CCGTTATATCGGTGTTTTCCTTT
57.194
39.130
13.14
0.00
44.77
3.11
1247
1270
0.257616
CTCCTCGACCTCCTCTTCCT
59.742
60.000
0.00
0.00
0.00
3.36
1890
1928
0.758734
GAGCAAAACCCTTGGGCTTT
59.241
50.000
5.46
3.29
34.44
3.51
1977
2015
0.325933
TCTGGCAGTGCAGCATAACT
59.674
50.000
18.61
0.00
35.83
2.24
2108
2146
1.176527
CCCATAACCAGCACCAACAG
58.823
55.000
0.00
0.00
0.00
3.16
2440
2478
1.201647
ACAGTTAGGACACATCGACCG
59.798
52.381
0.00
0.00
34.24
4.79
2836
2875
2.161609
GCAATTTGTCGGGAAGTACTGG
59.838
50.000
0.00
0.00
0.00
4.00
2993
3033
5.132648
AGAGCCCATATATTCAACACCTTCA
59.867
40.000
0.00
0.00
0.00
3.02
3039
3080
9.651913
ATCGAATAAGGCAAACAAAACATAAAT
57.348
25.926
0.00
0.00
0.00
1.40
3175
3216
6.197096
GTGAAACAATGTTTGTGAGATGACAC
59.803
38.462
16.78
10.32
44.59
3.67
3220
3261
4.003648
ACTGAAACCTGCATACAAGCTAC
58.996
43.478
0.00
0.00
34.99
3.58
3279
3321
2.170166
CTCATAGCTTGGGGTTTGCAA
58.830
47.619
0.00
0.00
0.00
4.08
3292
3334
9.552114
CTGCTAAATAAATGCATAACTCATAGC
57.448
33.333
16.89
16.89
36.07
2.97
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.