Multiple sequence alignment - TraesCS1A01G268700
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
TraesCS1A01G268700
chr1A
100.000
3425
0
0
1000
4424
463403089
463399665
0.000000e+00
6325
1
TraesCS1A01G268700
chr1A
100.000
672
0
0
1
672
463404088
463403417
0.000000e+00
1242
2
TraesCS1A01G268700
chr1D
94.580
3450
122
28
1000
4424
364387138
364383729
0.000000e+00
5275
3
TraesCS1A01G268700
chr1D
86.561
692
48
26
1
672
364387896
364387230
0.000000e+00
721
4
TraesCS1A01G268700
chr1D
90.123
81
8
0
4141
4221
364384070
364383990
6.050000e-19
106
5
TraesCS1A01G268700
chr1B
95.971
2780
83
13
1083
3842
487682191
487679421
0.000000e+00
4486
6
TraesCS1A01G268700
chr1B
88.323
471
42
9
3961
4424
487679067
487678603
1.800000e-153
553
7
TraesCS1A01G268700
chr1B
85.060
502
48
17
172
672
487682989
487682514
1.850000e-133
486
8
TraesCS1A01G268700
chr1B
89.041
146
8
1
1
146
487683124
487682987
1.640000e-39
174
9
TraesCS1A01G268700
chr1B
87.611
113
11
1
3849
3958
487679358
487679246
1.290000e-25
128
10
TraesCS1A01G268700
chr6B
94.872
1950
97
2
1101
3048
500525863
500523915
0.000000e+00
3044
11
TraesCS1A01G268700
chr5A
93.846
1950
96
3
1101
3048
396680471
396682398
0.000000e+00
2915
12
TraesCS1A01G268700
chr3B
90.909
99
9
0
1696
1794
627615397
627615299
2.780000e-27
134
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
TraesCS1A01G268700
chr1A
463399665
463404088
4423
True
3783.5
6325
100.000000
1
4424
2
chr1A.!!$R1
4423
1
TraesCS1A01G268700
chr1D
364383729
364387896
4167
True
2034.0
5275
90.421333
1
4424
3
chr1D.!!$R1
4423
2
TraesCS1A01G268700
chr1B
487678603
487683124
4521
True
1165.4
4486
89.201200
1
4424
5
chr1B.!!$R1
4423
3
TraesCS1A01G268700
chr6B
500523915
500525863
1948
True
3044.0
3044
94.872000
1101
3048
1
chr6B.!!$R1
1947
4
TraesCS1A01G268700
chr5A
396680471
396682398
1927
False
2915.0
2915
93.846000
1101
3048
1
chr5A.!!$F1
1947
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
481
519
0.043310
CGTAGCGCCTTTTATCGTGC
60.043
55.0
2.29
0.0
35.72
5.34
F
605
643
0.189822
AGATCCCTCTCTACCCTGCC
59.810
60.0
0.00
0.0
0.00
4.85
F
2211
2255
0.477597
TTGGGATCCTTGAGGTGGGT
60.478
55.0
12.58
0.0
36.34
4.51
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
2217
2261
0.871722
GTATCAAGTTGCGTGCACCA
59.128
50.000
12.15
7.62
0.00
4.17
R
2235
2279
1.620524
CCATCCTTGGCCTTCATTGGT
60.621
52.381
3.32
0.00
35.85
3.67
R
4073
4375
0.036952
AGCGCACATTCAGTAGCTGT
60.037
50.000
11.47
0.00
40.43
4.40
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
36
37
0.179092
CCGTCCTTGGGGTTCGTATC
60.179
60.000
0.00
0.00
32.78
2.24
49
50
4.271687
GGTTCGTATCAAACATGATTCGC
58.728
43.478
0.00
1.68
38.42
4.70
55
56
0.798009
CAAACATGATTCGCGGCACC
60.798
55.000
6.13
0.00
0.00
5.01
146
178
2.030946
GCACGTAAATGGCTAGCAAGAG
59.969
50.000
18.24
3.28
0.00
2.85
147
179
2.030946
CACGTAAATGGCTAGCAAGAGC
59.969
50.000
18.24
0.00
42.05
4.09
157
189
2.203126
GCAAGAGCTCCGATGGGG
60.203
66.667
10.93
0.00
37.91
4.96
158
190
3.036429
GCAAGAGCTCCGATGGGGT
62.036
63.158
10.93
0.00
37.91
4.95
159
191
1.686325
GCAAGAGCTCCGATGGGGTA
61.686
60.000
10.93
0.00
37.91
3.69
160
192
0.390860
CAAGAGCTCCGATGGGGTAG
59.609
60.000
10.93
0.00
37.00
3.18
161
193
0.760945
AAGAGCTCCGATGGGGTAGG
60.761
60.000
10.93
0.00
37.00
3.18
162
194
2.122813
AGCTCCGATGGGGTAGGG
60.123
66.667
0.00
0.00
37.00
3.53
163
195
3.942439
GCTCCGATGGGGTAGGGC
61.942
72.222
0.00
0.00
37.00
5.19
164
196
3.616721
CTCCGATGGGGTAGGGCG
61.617
72.222
0.00
0.00
37.00
6.13
165
197
4.468769
TCCGATGGGGTAGGGCGT
62.469
66.667
0.00
0.00
37.00
5.68
166
198
2.522436
CCGATGGGGTAGGGCGTA
60.522
66.667
0.00
0.00
0.00
4.42
167
199
2.571216
CCGATGGGGTAGGGCGTAG
61.571
68.421
0.00
0.00
0.00
3.51
168
200
2.571216
CGATGGGGTAGGGCGTAGG
61.571
68.421
0.00
0.00
0.00
3.18
200
232
2.260434
GAACAGCACGCTCGGGTA
59.740
61.111
0.00
0.00
0.00
3.69
224
261
4.767255
CCACAGCGGAGACCCAGC
62.767
72.222
0.00
0.00
36.56
4.85
263
300
2.847441
CATGGGTGATGGATCTCACAG
58.153
52.381
14.90
1.37
45.95
3.66
264
301
2.252535
TGGGTGATGGATCTCACAGA
57.747
50.000
14.90
0.84
45.95
3.41
265
302
1.833630
TGGGTGATGGATCTCACAGAC
59.166
52.381
14.90
6.95
45.95
3.51
266
303
1.833630
GGGTGATGGATCTCACAGACA
59.166
52.381
14.90
0.00
45.95
3.41
310
347
0.900182
TCGAGCTGTCCACCACATCT
60.900
55.000
0.00
0.00
33.98
2.90
313
350
2.544694
CGAGCTGTCCACCACATCTATC
60.545
54.545
0.00
0.00
31.30
2.08
317
354
0.765510
GTCCACCACATCTATCCCCC
59.234
60.000
0.00
0.00
0.00
5.40
481
519
0.043310
CGTAGCGCCTTTTATCGTGC
60.043
55.000
2.29
0.00
35.72
5.34
505
543
3.484547
CGGGCCGTCACGCTTTAC
61.485
66.667
19.97
0.00
0.00
2.01
537
575
7.148689
CCTTTTTGTTAGATACGGATATACGCC
60.149
40.741
7.41
0.00
37.37
5.68
574
612
2.889018
GACGGCCGGGATTCGTTC
60.889
66.667
31.76
11.54
37.25
3.95
596
634
0.825840
AGGCGCTACAGATCCCTCTC
60.826
60.000
7.64
0.00
0.00
3.20
597
635
0.825840
GGCGCTACAGATCCCTCTCT
60.826
60.000
7.64
0.00
0.00
3.10
598
636
1.545875
GGCGCTACAGATCCCTCTCTA
60.546
57.143
7.64
0.00
0.00
2.43
599
637
1.538075
GCGCTACAGATCCCTCTCTAC
59.462
57.143
0.00
0.00
0.00
2.59
600
638
2.156098
CGCTACAGATCCCTCTCTACC
58.844
57.143
0.00
0.00
0.00
3.18
601
639
2.521126
GCTACAGATCCCTCTCTACCC
58.479
57.143
0.00
0.00
0.00
3.69
602
640
2.109304
GCTACAGATCCCTCTCTACCCT
59.891
54.545
0.00
0.00
0.00
4.34
603
641
2.765689
ACAGATCCCTCTCTACCCTG
57.234
55.000
0.00
0.00
0.00
4.45
604
642
1.337118
CAGATCCCTCTCTACCCTGC
58.663
60.000
0.00
0.00
0.00
4.85
605
643
0.189822
AGATCCCTCTCTACCCTGCC
59.810
60.000
0.00
0.00
0.00
4.85
606
644
0.834261
GATCCCTCTCTACCCTGCCC
60.834
65.000
0.00
0.00
0.00
5.36
607
645
1.307976
ATCCCTCTCTACCCTGCCCT
61.308
60.000
0.00
0.00
0.00
5.19
608
646
1.764054
CCCTCTCTACCCTGCCCTG
60.764
68.421
0.00
0.00
0.00
4.45
609
647
1.764054
CCTCTCTACCCTGCCCTGG
60.764
68.421
0.00
0.00
0.00
4.45
633
675
4.742201
CACACACGCTCCCCTCCG
62.742
72.222
0.00
0.00
0.00
4.63
1581
1623
1.953138
CGGCGAGATCATGCTGTCC
60.953
63.158
0.00
0.00
32.78
4.02
1635
1677
2.514824
GAGGCCTGGCATTCCGAC
60.515
66.667
22.05
0.33
34.14
4.79
2139
2183
1.986378
CATGTTCTTGACGAGTCGACC
59.014
52.381
21.50
10.96
0.00
4.79
2211
2255
0.477597
TTGGGATCCTTGAGGTGGGT
60.478
55.000
12.58
0.00
36.34
4.51
2217
2261
1.518367
TCCTTGAGGTGGGTGTTCTT
58.482
50.000
0.00
0.00
36.34
2.52
2235
2279
1.535028
CTTGGTGCACGCAACTTGATA
59.465
47.619
11.45
0.00
34.17
2.15
2238
2282
0.871722
GTGCACGCAACTTGATACCA
59.128
50.000
0.00
0.00
0.00
3.25
2429
2473
0.255318
AGCCAGATTGGGAGCAAGAG
59.745
55.000
0.00
0.00
38.19
2.85
2571
2615
2.575461
GGTGAGCTGCATTTGGCC
59.425
61.111
1.02
0.00
43.89
5.36
2670
2714
5.008980
TCACAACCAATATCAGTGATGCAA
58.991
37.500
16.15
0.00
34.59
4.08
2733
2777
2.265739
CTTAGCCGTGCTGAGCCA
59.734
61.111
0.23
0.00
40.10
4.75
2787
2831
0.895100
ATGTGGGCTCGCACATGTTT
60.895
50.000
25.18
8.07
40.16
2.83
2790
2834
1.305219
TGGGCTCGCACATGTTTAGC
61.305
55.000
13.11
13.11
0.00
3.09
3214
3258
2.581354
GTGAGAGAGCCCATGCGT
59.419
61.111
0.00
0.00
44.33
5.24
3321
3365
1.270550
CAGGTTTTGCTGGTCATCACC
59.729
52.381
0.00
0.00
44.10
4.02
3434
3498
9.650371
CGATTCGCTTATTTGAAGATAAAATGA
57.350
29.630
0.00
0.00
0.00
2.57
3500
3564
4.953667
TGGTTAGCATCAGATCAGATGTC
58.046
43.478
24.08
17.54
45.58
3.06
3535
3599
7.814264
ATGAGTTGATTAATTTAGAGCCAGG
57.186
36.000
0.00
0.00
0.00
4.45
3536
3600
5.590259
TGAGTTGATTAATTTAGAGCCAGGC
59.410
40.000
1.84
1.84
0.00
4.85
3537
3601
5.509498
AGTTGATTAATTTAGAGCCAGGCA
58.491
37.500
15.80
0.00
0.00
4.75
3538
3602
5.591877
AGTTGATTAATTTAGAGCCAGGCAG
59.408
40.000
15.80
0.00
0.00
4.85
3608
3673
2.162681
AGGCAGAAAACGAAGGAATGG
58.837
47.619
0.00
0.00
0.00
3.16
3637
3702
3.343941
TCCCTTCGTAGTTTTGGATGG
57.656
47.619
0.00
0.00
0.00
3.51
3779
3844
4.202631
TGTTACCTGCCCCTAATCTTGTTT
60.203
41.667
0.00
0.00
0.00
2.83
3837
3902
9.717942
CCCTTTTCTCCAGAAATATATCTACTG
57.282
37.037
2.59
0.00
42.83
2.74
3842
3907
7.474445
TCTCCAGAAATATATCTACTGCTCCT
58.526
38.462
0.00
0.00
0.00
3.69
3843
3908
8.615705
TCTCCAGAAATATATCTACTGCTCCTA
58.384
37.037
0.00
0.00
0.00
2.94
3844
3909
9.420118
CTCCAGAAATATATCTACTGCTCCTAT
57.580
37.037
0.00
0.00
0.00
2.57
3845
3910
9.775539
TCCAGAAATATATCTACTGCTCCTATT
57.224
33.333
0.00
0.00
0.00
1.73
3958
4082
4.039973
TGGGTATATCGGTGAAGTTCATCC
59.960
45.833
9.18
10.99
0.00
3.51
3959
4083
4.235360
GGTATATCGGTGAAGTTCATCCG
58.765
47.826
27.14
27.14
40.14
4.18
4032
4332
2.033299
CGTGGTTCAGTGCAGAATTGTT
59.967
45.455
0.00
0.00
0.00
2.83
4039
4339
2.095059
CAGTGCAGAATTGTTGTAGCCC
60.095
50.000
0.00
0.00
0.00
5.19
4046
4346
3.332485
AGAATTGTTGTAGCCCTTACCCA
59.668
43.478
0.00
0.00
0.00
4.51
4055
4355
3.156288
AGCCCTTACCCAACTTTTCTC
57.844
47.619
0.00
0.00
0.00
2.87
4056
4356
2.716969
AGCCCTTACCCAACTTTTCTCT
59.283
45.455
0.00
0.00
0.00
3.10
4073
4375
2.034939
TCTCTTTGTCGTAGCGGTTGAA
59.965
45.455
0.00
0.00
0.00
2.69
4090
4392
2.068519
TGAACAGCTACTGAATGTGCG
58.931
47.619
0.78
0.00
35.18
5.34
4111
4413
2.031069
GCTAATCCAGCGTGATCTCGTA
60.031
50.000
17.55
1.70
41.37
3.43
4113
4415
4.142665
GCTAATCCAGCGTGATCTCGTATA
60.143
45.833
17.55
3.22
41.37
1.47
4135
4437
1.045407
TTACTCCGTGGTTCAGTGCT
58.955
50.000
0.00
0.00
0.00
4.40
4148
4450
2.959516
TCAGTGCTGAATTGTCGTAGG
58.040
47.619
0.00
0.00
36.53
3.18
4149
4451
2.002586
CAGTGCTGAATTGTCGTAGGG
58.997
52.381
0.00
0.00
0.00
3.53
4150
4452
1.066143
AGTGCTGAATTGTCGTAGGGG
60.066
52.381
0.00
0.00
0.00
4.79
4151
4453
0.981183
TGCTGAATTGTCGTAGGGGT
59.019
50.000
0.00
0.00
0.00
4.95
4152
4454
1.349688
TGCTGAATTGTCGTAGGGGTT
59.650
47.619
0.00
0.00
0.00
4.11
4153
4455
2.224670
TGCTGAATTGTCGTAGGGGTTT
60.225
45.455
0.00
0.00
0.00
3.27
4154
4456
3.008157
TGCTGAATTGTCGTAGGGGTTTA
59.992
43.478
0.00
0.00
0.00
2.01
4155
4457
4.196971
GCTGAATTGTCGTAGGGGTTTAT
58.803
43.478
0.00
0.00
0.00
1.40
4156
4458
4.272748
GCTGAATTGTCGTAGGGGTTTATC
59.727
45.833
0.00
0.00
0.00
1.75
4157
4459
5.423704
TGAATTGTCGTAGGGGTTTATCA
57.576
39.130
0.00
0.00
0.00
2.15
4158
4460
5.424757
TGAATTGTCGTAGGGGTTTATCAG
58.575
41.667
0.00
0.00
0.00
2.90
4159
4461
2.973694
TGTCGTAGGGGTTTATCAGC
57.026
50.000
0.00
0.00
0.00
4.26
4160
4462
2.463752
TGTCGTAGGGGTTTATCAGCT
58.536
47.619
0.00
0.00
0.00
4.24
4161
4463
3.634504
TGTCGTAGGGGTTTATCAGCTA
58.365
45.455
0.00
0.00
0.00
3.32
4162
4464
3.382546
TGTCGTAGGGGTTTATCAGCTAC
59.617
47.826
0.00
0.00
0.00
3.58
4163
4465
3.635836
GTCGTAGGGGTTTATCAGCTACT
59.364
47.826
0.00
0.00
0.00
2.57
4164
4466
3.635373
TCGTAGGGGTTTATCAGCTACTG
59.365
47.826
0.00
0.00
0.00
2.74
4211
4536
0.250124
TGCCAGTTACTCCGTGGTTG
60.250
55.000
0.00
0.00
33.51
3.77
4231
4556
0.386478
GGTGCAGAAAAGAAGCAGCG
60.386
55.000
0.00
0.00
45.13
5.18
4285
4610
1.203287
CTGATCCGCACTGAGAGAACA
59.797
52.381
0.00
0.00
0.00
3.18
4286
4611
1.203287
TGATCCGCACTGAGAGAACAG
59.797
52.381
0.00
0.00
42.78
3.16
4298
4623
6.777526
CTGAGAGAACAGTTAGAAAGGTTG
57.222
41.667
0.00
0.00
33.73
3.77
4299
4624
6.235231
TGAGAGAACAGTTAGAAAGGTTGT
57.765
37.500
0.00
0.00
0.00
3.32
4303
4628
5.506708
AGAACAGTTAGAAAGGTTGTGGTT
58.493
37.500
0.00
0.00
0.00
3.67
4320
4645
1.002142
GGTTGTACCCACGCTTTTGAC
60.002
52.381
0.00
0.00
30.04
3.18
4398
4723
5.067936
TCCTTGTCGGCAACAAAAAGATAAA
59.932
36.000
0.00
0.00
46.95
1.40
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
36
37
0.798009
GGTGCCGCGAATCATGTTTG
60.798
55.000
8.23
0.00
0.00
2.93
49
50
1.370414
CAGCGAAACTTTGGTGCCG
60.370
57.895
0.00
0.00
33.78
5.69
55
56
1.401931
CCATCCTGCAGCGAAACTTTG
60.402
52.381
8.66
2.40
0.00
2.77
80
81
5.589192
GCCCAAAGATGATTGAGAGAATTG
58.411
41.667
0.00
0.00
31.84
2.32
124
156
1.064060
CTTGCTAGCCATTTACGTGCC
59.936
52.381
13.29
0.00
0.00
5.01
146
178
3.942439
GCCCTACCCCATCGGAGC
61.942
72.222
0.00
0.00
34.64
4.70
147
179
2.989173
TACGCCCTACCCCATCGGAG
62.989
65.000
0.00
0.00
34.64
4.63
148
180
2.989173
CTACGCCCTACCCCATCGGA
62.989
65.000
0.00
0.00
34.64
4.55
150
182
2.571216
CCTACGCCCTACCCCATCG
61.571
68.421
0.00
0.00
0.00
3.84
151
183
2.880380
GCCTACGCCCTACCCCATC
61.880
68.421
0.00
0.00
0.00
3.51
155
187
3.603671
CTCGCCTACGCCCTACCC
61.604
72.222
0.00
0.00
39.84
3.69
156
188
1.669999
TTTCTCGCCTACGCCCTACC
61.670
60.000
0.00
0.00
39.84
3.18
157
189
0.248949
CTTTCTCGCCTACGCCCTAC
60.249
60.000
0.00
0.00
39.84
3.18
158
190
0.682209
ACTTTCTCGCCTACGCCCTA
60.682
55.000
0.00
0.00
39.84
3.53
159
191
1.982938
ACTTTCTCGCCTACGCCCT
60.983
57.895
0.00
0.00
39.84
5.19
160
192
1.810030
CACTTTCTCGCCTACGCCC
60.810
63.158
0.00
0.00
39.84
6.13
161
193
0.389426
TTCACTTTCTCGCCTACGCC
60.389
55.000
0.00
0.00
39.84
5.68
162
194
1.126296
GTTTCACTTTCTCGCCTACGC
59.874
52.381
0.00
0.00
39.84
4.42
163
195
1.385743
CGTTTCACTTTCTCGCCTACG
59.614
52.381
0.00
0.00
42.01
3.51
164
196
2.669364
TCGTTTCACTTTCTCGCCTAC
58.331
47.619
0.00
0.00
0.00
3.18
165
197
3.054878
GTTCGTTTCACTTTCTCGCCTA
58.945
45.455
0.00
0.00
0.00
3.93
166
198
1.865340
GTTCGTTTCACTTTCTCGCCT
59.135
47.619
0.00
0.00
0.00
5.52
167
199
1.595794
TGTTCGTTTCACTTTCTCGCC
59.404
47.619
0.00
0.00
0.00
5.54
168
200
2.892613
CTGTTCGTTTCACTTTCTCGC
58.107
47.619
0.00
0.00
0.00
5.03
169
201
2.284150
TGCTGTTCGTTTCACTTTCTCG
59.716
45.455
0.00
0.00
0.00
4.04
170
202
3.608456
GTGCTGTTCGTTTCACTTTCTC
58.392
45.455
0.00
0.00
0.00
2.87
171
203
2.030457
CGTGCTGTTCGTTTCACTTTCT
59.970
45.455
0.00
0.00
0.00
2.52
172
204
2.363220
CGTGCTGTTCGTTTCACTTTC
58.637
47.619
0.00
0.00
0.00
2.62
173
205
1.531058
GCGTGCTGTTCGTTTCACTTT
60.531
47.619
0.00
0.00
0.00
2.66
174
206
0.027586
GCGTGCTGTTCGTTTCACTT
59.972
50.000
0.00
0.00
0.00
3.16
175
207
0.810031
AGCGTGCTGTTCGTTTCACT
60.810
50.000
0.00
0.00
0.00
3.41
176
208
0.383124
GAGCGTGCTGTTCGTTTCAC
60.383
55.000
0.00
0.00
0.00
3.18
177
209
1.817217
CGAGCGTGCTGTTCGTTTCA
61.817
55.000
0.00
0.00
45.05
2.69
178
210
1.154836
CGAGCGTGCTGTTCGTTTC
60.155
57.895
0.00
0.00
45.05
2.78
207
239
4.767255
GCTGGGTCTCCGCTGTGG
62.767
72.222
0.00
0.00
40.09
4.17
249
286
3.434309
TCTGTGTCTGTGAGATCCATCA
58.566
45.455
0.00
0.00
0.00
3.07
250
287
3.181477
CCTCTGTGTCTGTGAGATCCATC
60.181
52.174
0.00
0.00
0.00
3.51
251
288
2.765135
CCTCTGTGTCTGTGAGATCCAT
59.235
50.000
0.00
0.00
0.00
3.41
252
289
2.174360
CCTCTGTGTCTGTGAGATCCA
58.826
52.381
0.00
0.00
0.00
3.41
253
290
2.451490
TCCTCTGTGTCTGTGAGATCC
58.549
52.381
0.00
0.00
0.00
3.36
254
291
3.068024
GGATCCTCTGTGTCTGTGAGATC
59.932
52.174
3.84
0.00
0.00
2.75
255
292
3.030291
GGATCCTCTGTGTCTGTGAGAT
58.970
50.000
3.84
0.00
0.00
2.75
256
293
2.451490
GGATCCTCTGTGTCTGTGAGA
58.549
52.381
3.84
0.00
0.00
3.27
257
294
1.133982
CGGATCCTCTGTGTCTGTGAG
59.866
57.143
10.75
0.00
0.00
3.51
258
295
1.177401
CGGATCCTCTGTGTCTGTGA
58.823
55.000
10.75
0.00
0.00
3.58
259
296
1.135257
GTCGGATCCTCTGTGTCTGTG
60.135
57.143
10.75
0.00
0.00
3.66
260
297
1.178276
GTCGGATCCTCTGTGTCTGT
58.822
55.000
10.75
0.00
0.00
3.41
261
298
0.099613
CGTCGGATCCTCTGTGTCTG
59.900
60.000
10.75
0.00
0.00
3.51
262
299
1.658686
GCGTCGGATCCTCTGTGTCT
61.659
60.000
10.75
0.00
0.00
3.41
263
300
1.226717
GCGTCGGATCCTCTGTGTC
60.227
63.158
10.75
0.00
0.00
3.67
264
301
1.977009
TGCGTCGGATCCTCTGTGT
60.977
57.895
10.75
0.00
0.00
3.72
265
302
1.517257
GTGCGTCGGATCCTCTGTG
60.517
63.158
10.75
0.00
0.00
3.66
266
303
2.711922
GGTGCGTCGGATCCTCTGT
61.712
63.158
10.75
0.00
0.00
3.41
402
440
2.022129
GTCAGTGACGTTGGAGGCG
61.022
63.158
7.68
0.00
0.00
5.52
443
481
0.109873
GTCACCGACGTGTAGGTCAG
60.110
60.000
1.49
0.00
41.09
3.51
444
482
1.951510
GTCACCGACGTGTAGGTCA
59.048
57.895
1.49
0.00
41.09
4.02
445
483
4.855596
GTCACCGACGTGTAGGTC
57.144
61.111
1.49
0.00
41.09
3.85
469
507
1.721487
CAGCCCGCACGATAAAAGG
59.279
57.895
0.00
0.00
0.00
3.11
505
543
5.104817
TCCGTATCTAACAAAAAGGGGTAGG
60.105
44.000
0.00
0.00
0.00
3.18
574
612
2.336809
GGATCTGTAGCGCCTCGG
59.663
66.667
2.29
2.34
0.00
4.63
596
634
3.801997
CAGGCCAGGGCAGGGTAG
61.802
72.222
16.94
0.00
44.11
3.18
619
661
4.003788
CAACGGAGGGGAGCGTGT
62.004
66.667
0.00
0.00
0.00
4.49
1836
1880
2.359354
CACATCGGGTTGGGCGAA
60.359
61.111
0.00
0.00
0.00
4.70
1837
1881
4.402528
CCACATCGGGTTGGGCGA
62.403
66.667
0.00
0.00
0.00
5.54
2139
2183
3.243367
GCTGGAGATCACTGCTGTAGTAG
60.243
52.174
0.00
0.00
37.60
2.57
2211
2255
1.029408
AGTTGCGTGCACCAAGAACA
61.029
50.000
17.58
2.87
0.00
3.18
2217
2261
0.871722
GTATCAAGTTGCGTGCACCA
59.128
50.000
12.15
7.62
0.00
4.17
2235
2279
1.620524
CCATCCTTGGCCTTCATTGGT
60.621
52.381
3.32
0.00
35.85
3.67
2271
2315
1.665679
CCATACTTGGCAACGCAGTAG
59.334
52.381
0.00
0.00
36.13
2.57
2429
2473
2.516930
CATCCCGGGCATCACCAC
60.517
66.667
18.49
0.00
42.05
4.16
2571
2615
4.433102
GTGCATGTAAACCGCACG
57.567
55.556
8.44
0.00
45.69
5.34
2670
2714
0.912486
GGTGCCTCAGGTAGTCCAAT
59.088
55.000
0.00
0.00
35.89
3.16
3186
3230
2.811317
CTCTCACCTTGCGTCGCC
60.811
66.667
15.88
0.00
0.00
5.54
3214
3258
2.596851
GGTCCCTCCAGCTCAGCAA
61.597
63.158
0.00
0.00
35.97
3.91
3434
3498
3.421844
GGACAATGTTACAAGCTTCCCT
58.578
45.455
0.00
0.00
0.00
4.20
3535
3599
2.843912
ATTACAGGGCCACCAGCTGC
62.844
60.000
8.66
0.00
43.05
5.25
3536
3600
0.546122
TATTACAGGGCCACCAGCTG
59.454
55.000
6.78
6.78
43.05
4.24
3537
3601
1.212935
CTTATTACAGGGCCACCAGCT
59.787
52.381
6.18
0.00
43.05
4.24
3538
3602
1.680338
CTTATTACAGGGCCACCAGC
58.320
55.000
6.18
0.00
40.13
4.85
3624
3689
5.408299
GCCAACATTTTCCATCCAAAACTAC
59.592
40.000
0.00
0.00
0.00
2.73
3637
3702
2.928801
ACCCCAAAGCCAACATTTTC
57.071
45.000
0.00
0.00
0.00
2.29
3786
3851
8.314751
GGAAGGAACAGCACATATACTACATAT
58.685
37.037
0.00
0.00
0.00
1.78
3787
3852
7.256190
GGGAAGGAACAGCACATATACTACATA
60.256
40.741
0.00
0.00
0.00
2.29
3788
3853
6.464465
GGGAAGGAACAGCACATATACTACAT
60.464
42.308
0.00
0.00
0.00
2.29
3789
3854
5.163343
GGGAAGGAACAGCACATATACTACA
60.163
44.000
0.00
0.00
0.00
2.74
3790
3855
5.070580
AGGGAAGGAACAGCACATATACTAC
59.929
44.000
0.00
0.00
0.00
2.73
3791
3856
5.216622
AGGGAAGGAACAGCACATATACTA
58.783
41.667
0.00
0.00
0.00
1.82
3792
3857
4.040755
AGGGAAGGAACAGCACATATACT
58.959
43.478
0.00
0.00
0.00
2.12
3793
3858
4.423625
AGGGAAGGAACAGCACATATAC
57.576
45.455
0.00
0.00
0.00
1.47
3794
3859
5.450818
AAAGGGAAGGAACAGCACATATA
57.549
39.130
0.00
0.00
0.00
0.86
3795
3860
4.322057
AAAGGGAAGGAACAGCACATAT
57.678
40.909
0.00
0.00
0.00
1.78
3845
3910
2.292292
GGTAAGCGCCTCAGAACAAAAA
59.708
45.455
2.29
0.00
0.00
1.94
3846
3911
1.877443
GGTAAGCGCCTCAGAACAAAA
59.123
47.619
2.29
0.00
0.00
2.44
3880
4001
0.790814
GTGAAACTACCTCAGCGTGC
59.209
55.000
0.00
0.00
0.00
5.34
3958
4082
0.924090
GCACATTCGTAGGCTCTTCG
59.076
55.000
0.00
0.00
0.00
3.79
3959
4083
0.924090
CGCACATTCGTAGGCTCTTC
59.076
55.000
0.00
0.00
0.00
2.87
4032
4332
3.396611
AGAAAAGTTGGGTAAGGGCTACA
59.603
43.478
0.00
0.00
31.45
2.74
4039
4339
5.296035
ACGACAAAGAGAAAAGTTGGGTAAG
59.704
40.000
0.00
0.00
0.00
2.34
4046
4346
3.493503
CCGCTACGACAAAGAGAAAAGTT
59.506
43.478
0.00
0.00
0.00
2.66
4055
4355
1.862201
TGTTCAACCGCTACGACAAAG
59.138
47.619
0.00
0.00
0.00
2.77
4056
4356
1.862201
CTGTTCAACCGCTACGACAAA
59.138
47.619
0.00
0.00
0.00
2.83
4073
4375
0.036952
AGCGCACATTCAGTAGCTGT
60.037
50.000
11.47
0.00
40.43
4.40
4105
4407
4.517285
ACCACGGAGTAACTTATACGAGA
58.483
43.478
0.00
0.00
41.61
4.04
4108
4410
4.985413
TGAACCACGGAGTAACTTATACG
58.015
43.478
0.00
0.00
41.61
3.06
4111
4413
4.817517
CACTGAACCACGGAGTAACTTAT
58.182
43.478
0.00
0.00
41.61
1.73
4113
4415
2.805657
GCACTGAACCACGGAGTAACTT
60.806
50.000
0.00
0.00
41.61
2.66
4135
4437
5.423704
TGATAAACCCCTACGACAATTCA
57.576
39.130
0.00
0.00
0.00
2.57
4142
4444
3.635373
CAGTAGCTGATAAACCCCTACGA
59.365
47.826
0.00
0.00
34.94
3.43
4147
4449
4.576463
CACATTCAGTAGCTGATAAACCCC
59.424
45.833
0.00
0.00
40.39
4.95
4148
4450
4.035675
GCACATTCAGTAGCTGATAAACCC
59.964
45.833
0.00
0.00
40.39
4.11
4149
4451
4.635765
TGCACATTCAGTAGCTGATAAACC
59.364
41.667
0.00
0.00
40.39
3.27
4150
4452
5.352569
AGTGCACATTCAGTAGCTGATAAAC
59.647
40.000
21.04
0.00
40.39
2.01
4151
4453
5.491070
AGTGCACATTCAGTAGCTGATAAA
58.509
37.500
21.04
0.00
40.39
1.40
4152
4454
5.089970
AGTGCACATTCAGTAGCTGATAA
57.910
39.130
21.04
0.00
40.39
1.75
4153
4455
4.743057
AGTGCACATTCAGTAGCTGATA
57.257
40.909
21.04
0.00
40.39
2.15
4154
4456
3.623906
AGTGCACATTCAGTAGCTGAT
57.376
42.857
21.04
0.00
40.39
2.90
4155
4457
4.535526
TTAGTGCACATTCAGTAGCTGA
57.464
40.909
21.04
0.00
38.87
4.26
4156
4458
4.272018
GGATTAGTGCACATTCAGTAGCTG
59.728
45.833
21.04
0.00
0.00
4.24
4157
4459
4.080919
TGGATTAGTGCACATTCAGTAGCT
60.081
41.667
21.04
0.00
0.00
3.32
4158
4460
4.191544
TGGATTAGTGCACATTCAGTAGC
58.808
43.478
21.04
0.00
0.00
3.58
4159
4461
4.272018
GCTGGATTAGTGCACATTCAGTAG
59.728
45.833
21.04
9.74
0.00
2.57
4160
4462
4.191544
GCTGGATTAGTGCACATTCAGTA
58.808
43.478
21.04
0.00
0.00
2.74
4161
4463
3.012518
GCTGGATTAGTGCACATTCAGT
58.987
45.455
21.04
0.00
0.00
3.41
4162
4464
2.031314
CGCTGGATTAGTGCACATTCAG
59.969
50.000
21.04
18.85
0.00
3.02
4163
4465
2.009051
CGCTGGATTAGTGCACATTCA
58.991
47.619
21.04
8.80
0.00
2.57
4164
4466
2.009774
ACGCTGGATTAGTGCACATTC
58.990
47.619
21.04
12.02
40.64
2.67
4211
4536
0.038801
GCTGCTTCTTTTCTGCACCC
60.039
55.000
0.00
0.00
32.91
4.61
4241
4566
0.319211
CGGGAACTGCTCACGTACAA
60.319
55.000
0.00
0.00
46.39
2.41
4254
4579
3.195698
GGATCAGCGCACGGGAAC
61.196
66.667
11.47
0.00
0.00
3.62
4285
4610
5.128205
GGTACAACCACAACCTTTCTAACT
58.872
41.667
0.00
0.00
38.42
2.24
4286
4611
4.276678
GGGTACAACCACAACCTTTCTAAC
59.723
45.833
0.00
0.00
41.02
2.34
4287
4612
4.079901
TGGGTACAACCACAACCTTTCTAA
60.080
41.667
0.00
0.00
41.02
2.10
4288
4613
3.458857
TGGGTACAACCACAACCTTTCTA
59.541
43.478
0.00
0.00
41.02
2.10
4289
4614
2.242708
TGGGTACAACCACAACCTTTCT
59.757
45.455
0.00
0.00
41.02
2.52
4299
4624
1.025812
CAAAAGCGTGGGTACAACCA
58.974
50.000
0.00
0.00
41.02
3.67
4303
4628
0.535553
GGGTCAAAAGCGTGGGTACA
60.536
55.000
0.00
0.00
0.00
2.90
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.