Multiple sequence alignment - TraesCS5A01G444200
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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
TraesCS5A01G444200
chr5A
100.000
5247
0
0
1
5247
624217916
624212670
0.000000e+00
9690.0
1
TraesCS5A01G444200
chr5B
94.525
4712
195
26
1
4681
621267277
621262598
0.000000e+00
7214.0
2
TraesCS5A01G444200
chr5B
76.970
495
47
38
4793
5247
621262533
621262066
2.460000e-53
220.0
3
TraesCS5A01G444200
chr5B
84.733
131
10
7
4682
4806
265435469
265435343
7.140000e-24
122.0
4
TraesCS5A01G444200
chr5B
81.295
139
11
8
4677
4806
312761812
312761944
1.200000e-16
99.0
5
TraesCS5A01G444200
chr5D
94.973
2248
81
15
299
2531
499875808
499873578
0.000000e+00
3496.0
6
TraesCS5A01G444200
chr5D
96.323
1251
40
5
2574
3823
499873577
499872332
0.000000e+00
2050.0
7
TraesCS5A01G444200
chr5D
87.164
1488
105
35
3801
5244
499872322
499870877
0.000000e+00
1611.0
8
TraesCS5A01G444200
chr5D
90.980
255
18
2
1
251
499876073
499875820
6.510000e-89
339.0
9
TraesCS5A01G444200
chr5D
82.308
130
9
7
4683
4801
18193872
18193746
3.340000e-17
100.0
10
TraesCS5A01G444200
chr5D
81.343
134
11
11
4677
4800
294640229
294640358
4.320000e-16
97.1
11
TraesCS5A01G444200
chr6D
84.496
129
8
6
4680
4802
221219671
221219549
3.320000e-22
117.0
12
TraesCS5A01G444200
chr6B
83.459
133
10
7
4680
4806
365700752
365700878
4.290000e-21
113.0
13
TraesCS5A01G444200
chr1B
82.946
129
16
4
4677
4800
240487906
240488033
1.540000e-20
111.0
14
TraesCS5A01G444200
chr1D
82.353
136
9
9
4680
4808
35756865
35756992
2.580000e-18
104.0
15
TraesCS5A01G444200
chr7B
83.333
126
3
9
4683
4801
475307981
475308095
3.340000e-17
100.0
16
TraesCS5A01G444200
chr7B
80.808
99
17
2
1969
2066
602894589
602894686
5.630000e-10
76.8
17
TraesCS5A01G444200
chr2D
95.918
49
2
0
1969
2017
32187423
32187375
4.360000e-11
80.5
18
TraesCS5A01G444200
chr2A
95.918
49
2
0
1969
2017
34327542
34327494
4.360000e-11
80.5
19
TraesCS5A01G444200
chr2B
93.878
49
3
0
1969
2017
52871308
52871260
2.030000e-09
75.0
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
TraesCS5A01G444200
chr5A
624212670
624217916
5246
True
9690
9690
100.0000
1
5247
1
chr5A.!!$R1
5246
1
TraesCS5A01G444200
chr5B
621262066
621267277
5211
True
3717
7214
85.7475
1
5247
2
chr5B.!!$R2
5246
2
TraesCS5A01G444200
chr5D
499870877
499876073
5196
True
1874
3496
92.3600
1
5244
4
chr5D.!!$R2
5243
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
390
395
0.461961
AGAGGCATAAGTCTGGACGC
59.538
55.0
0.00
0.0
36.20
5.19
F
1927
1952
0.102120
CGGTTGAGGTTTTGCTTGCA
59.898
50.0
0.00
0.0
0.00
4.08
F
2359
2385
1.168714
GGTGACACCCAAGAAGATGC
58.831
55.0
14.16
0.0
30.04
3.91
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
2359
2385
0.965363
AATGTAAGGCCAGGTTGCGG
60.965
55.0
5.01
0.0
0.00
5.69
R
3716
3753
0.035534
TAAGGCGCTGGCTCATTTCA
60.036
50.0
7.64
0.0
37.50
2.69
R
4332
4403
1.514003
TAACTTGACCGCGAAATGCA
58.486
45.0
8.23
0.0
46.97
3.96
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
37
38
6.603940
TTTGTTTTTCAGGAGGGGATTATG
57.396
37.500
0.00
0.00
0.00
1.90
49
50
1.355210
GATTATGTGGGCGCCGTTG
59.645
57.895
22.54
0.00
0.00
4.10
131
132
2.247311
ACGATTCATGCGTGCTTTTC
57.753
45.000
0.00
0.00
40.94
2.29
140
141
2.380660
TGCGTGCTTTTCGTGATTTTC
58.619
42.857
0.00
0.00
0.00
2.29
142
143
2.786578
GCGTGCTTTTCGTGATTTTCAA
59.213
40.909
0.00
0.00
0.00
2.69
201
202
2.482490
CGACCTAGGGTTTCGTATTGGG
60.482
54.545
14.81
0.00
35.25
4.12
226
231
3.126831
GACAGATTCAACATAGCCCTCG
58.873
50.000
0.00
0.00
0.00
4.63
270
275
4.281941
GGTTTCAGGAGAAGGAATGCTTTT
59.718
41.667
0.00
0.00
34.71
2.27
280
285
3.359950
AGGAATGCTTTTAGGAGCCAAG
58.640
45.455
0.00
0.00
42.01
3.61
290
295
2.563427
GAGCCAAGCGCAGTTTCC
59.437
61.111
11.47
0.00
41.38
3.13
297
302
3.308530
CCAAGCGCAGTTTCCTTTTTAG
58.691
45.455
11.47
0.00
0.00
1.85
299
304
2.583143
AGCGCAGTTTCCTTTTTAGGT
58.417
42.857
11.47
0.00
0.00
3.08
354
359
4.949856
AGCTTTGAGAACTTCTTGTTTCCA
59.050
37.500
0.00
0.00
39.30
3.53
383
388
2.119495
TCCCTTCCAGAGGCATAAGTC
58.881
52.381
0.00
0.00
44.85
3.01
390
395
0.461961
AGAGGCATAAGTCTGGACGC
59.538
55.000
0.00
0.00
36.20
5.19
434
439
9.361281
GCTCTAGCAAGCTTGAATCATTCTAGC
62.361
44.444
30.39
22.02
46.81
3.42
446
451
4.063998
TCATTCTAGCGTGCATGAGAAT
57.936
40.909
10.93
12.99
38.81
2.40
484
489
1.672356
CCTCAACTTCCACCGGCAG
60.672
63.158
0.00
0.00
0.00
4.85
501
506
5.995897
ACCGGCAGATTTTAGTTGTATATCC
59.004
40.000
0.00
0.00
0.00
2.59
779
787
6.881065
TCTTATTAGATGCTTGGCCACATATC
59.119
38.462
3.88
9.63
0.00
1.63
783
791
5.052693
AGATGCTTGGCCACATATCTTTA
57.947
39.130
3.88
0.00
0.00
1.85
825
839
8.352201
TCCTTTTGTTGAGAACATTAAGACATG
58.648
33.333
10.86
0.00
41.79
3.21
871
887
5.411977
AGAGCAACTCAATTCAGATGTTCAG
59.588
40.000
6.28
0.00
31.38
3.02
895
911
3.849911
TGAAGAGTTATGAGAAGTGGCG
58.150
45.455
0.00
0.00
0.00
5.69
899
915
2.673368
GAGTTATGAGAAGTGGCGTTGG
59.327
50.000
0.00
0.00
0.00
3.77
1245
1270
6.985653
TCCCTCTCATTACAATTCCTAGAG
57.014
41.667
0.00
0.00
0.00
2.43
1506
1531
6.966534
AACCAAGATTCACTGAAGTTGATT
57.033
33.333
14.34
4.96
0.00
2.57
1733
1758
3.950397
AGAAGGTATGTTGGCGATTTCA
58.050
40.909
0.00
0.00
0.00
2.69
1753
1778
4.686972
TCACTATGCTCTATTGCACTGTC
58.313
43.478
0.00
0.00
46.33
3.51
1867
1892
3.202906
TCATTGCTATGGAACGTTAGCC
58.797
45.455
16.08
8.48
40.49
3.93
1927
1952
0.102120
CGGTTGAGGTTTTGCTTGCA
59.898
50.000
0.00
0.00
0.00
4.08
1963
1988
5.902613
TCATTGGCTAGAAAAATGGACTG
57.097
39.130
0.00
0.00
33.14
3.51
2102
2128
4.095483
GGTGATGCTTGGAAGAGTGTAATG
59.905
45.833
0.00
0.00
0.00
1.90
2201
2227
7.392953
TCTTTTATGAACCTGAACATATGCACA
59.607
33.333
1.58
2.53
0.00
4.57
2359
2385
1.168714
GGTGACACCCAAGAAGATGC
58.831
55.000
14.16
0.00
30.04
3.91
2552
2578
7.363268
GGCTGAAAGATGACTGGAAAATTACAT
60.363
37.037
0.00
0.00
34.07
2.29
2560
2586
6.980593
TGACTGGAAAATTACATTGTTCTGG
58.019
36.000
0.00
0.00
0.00
3.86
2603
2629
8.690203
TTTCTGGAAGATCTTACAATTTGTGA
57.310
30.769
20.85
10.85
46.36
3.58
2771
2797
2.370189
AGCTGGCAGAACTAAGACAACT
59.630
45.455
20.86
0.00
0.00
3.16
3119
3147
3.055602
ACGGGTATCCTTTGTTCTGTACC
60.056
47.826
0.00
0.00
0.00
3.34
3122
3150
3.930848
GGTATCCTTTGTTCTGTACCACG
59.069
47.826
0.00
0.00
33.49
4.94
3363
3393
5.172205
GTTCAAGCCTAGGTTAGACTCTTG
58.828
45.833
11.31
12.86
33.22
3.02
3383
3413
4.487714
TGTGAATTCGAGCCCTAGATTT
57.512
40.909
0.04
0.00
0.00
2.17
3691
3728
5.329035
ACATTTAATGGATGTGGTGCTTC
57.671
39.130
9.88
0.00
36.43
3.86
3728
3765
8.309656
TCTGTATATATCACTGAAATGAGCCAG
58.690
37.037
0.00
0.00
36.53
4.85
3729
3766
6.875726
TGTATATATCACTGAAATGAGCCAGC
59.124
38.462
0.00
0.00
33.90
4.85
3735
3772
0.035534
TGAAATGAGCCAGCGCCTTA
60.036
50.000
2.29
0.00
34.57
2.69
3791
3829
3.620488
ACACATGTTGCCCCTAATACAG
58.380
45.455
0.00
0.00
0.00
2.74
3842
3912
8.520351
AGGTGTAATTTGCTTCATAAAGTTACC
58.480
33.333
0.00
0.00
34.79
2.85
3844
3914
9.341899
GTGTAATTTGCTTCATAAAGTTACCTG
57.658
33.333
0.00
0.00
34.79
4.00
3871
3941
8.823220
ATAAGGCTTTCCATTTGTGTTATAGT
57.177
30.769
4.45
0.00
33.74
2.12
3908
3978
6.426980
TGCATAGTTTTATGACAAGCAGAG
57.573
37.500
0.00
0.00
39.22
3.35
3928
3998
6.678900
GCAGAGCATTTAACTAACTTCCCATG
60.679
42.308
0.00
0.00
0.00
3.66
3976
4047
5.295787
GCAAGAAATATAACACACCCGATGA
59.704
40.000
0.00
0.00
0.00
2.92
3980
4051
6.538742
AGAAATATAACACACCCGATGAACTG
59.461
38.462
0.00
0.00
0.00
3.16
4016
4087
4.651994
CTCAGTCACGGATTTACATTTGC
58.348
43.478
0.00
0.00
0.00
3.68
4021
4092
3.120130
TCACGGATTTACATTTGCGGTTC
60.120
43.478
0.00
0.00
0.00
3.62
4180
4251
1.162698
GGAACCCTAAAGACGCCAAC
58.837
55.000
0.00
0.00
0.00
3.77
4203
4274
2.347490
GCAGTGCTCCCCGAAGAA
59.653
61.111
8.18
0.00
0.00
2.52
4332
4403
3.387050
ACCCTAACTCAACGTTGTCTCTT
59.613
43.478
26.47
15.34
37.05
2.85
4333
4404
3.741344
CCCTAACTCAACGTTGTCTCTTG
59.259
47.826
26.47
12.91
37.05
3.02
4334
4405
3.184581
CCTAACTCAACGTTGTCTCTTGC
59.815
47.826
26.47
0.00
37.05
4.01
4335
4406
2.309528
ACTCAACGTTGTCTCTTGCA
57.690
45.000
26.47
5.08
0.00
4.08
4345
4424
0.095417
GTCTCTTGCATTTCGCGGTC
59.905
55.000
6.13
0.00
46.97
4.79
4351
4430
1.514003
TGCATTTCGCGGTCAAGTTA
58.486
45.000
6.13
0.00
46.97
2.24
4408
4490
0.320374
TTTGATGCCCTCGACGAACT
59.680
50.000
0.00
0.00
0.00
3.01
4409
4491
0.389817
TTGATGCCCTCGACGAACTG
60.390
55.000
0.00
0.00
0.00
3.16
4440
4522
2.762327
CTGAACTTATTGCATTGCCCCT
59.238
45.455
6.12
0.00
0.00
4.79
4476
4558
2.197324
GGGTCTGGGTGGTTTGCA
59.803
61.111
0.00
0.00
0.00
4.08
4548
4630
9.964303
TCATGTTTGTATTATTATTGTCATGGC
57.036
29.630
0.00
0.00
32.65
4.40
4567
4649
4.260170
TGGCTTGAGTTTTGCAAATTTGT
58.740
34.783
19.03
0.00
0.00
2.83
4568
4650
4.094590
TGGCTTGAGTTTTGCAAATTTGTG
59.905
37.500
19.03
3.76
0.00
3.33
4614
4696
2.177451
TGGCCACCATGATAATGGATGT
59.823
45.455
16.78
0.00
44.39
3.06
4635
4717
5.500234
TGTGCCAGCTTTACATCTAGAAAT
58.500
37.500
0.00
0.00
0.00
2.17
4685
4767
2.177016
GCCACCCCTGGGAAATAATACT
59.823
50.000
16.20
0.00
38.13
2.12
4714
4804
8.378172
TCCGTCCTAATATAAGAGCATTTTTG
57.622
34.615
0.00
0.00
0.00
2.44
4757
4847
8.397951
AATGCTCTTATATTATGGGATGGAGA
57.602
34.615
0.00
0.00
0.00
3.71
4759
4849
8.397951
TGCTCTTATATTATGGGATGGAGATT
57.602
34.615
0.00
0.00
0.00
2.40
4760
4850
8.270030
TGCTCTTATATTATGGGATGGAGATTG
58.730
37.037
0.00
0.00
0.00
2.67
4796
4887
5.269991
CTCTTATATTATGGGACGGAGGGA
58.730
45.833
0.00
0.00
0.00
4.20
4913
5019
7.348201
CAACGTGAAGGATCTCAATTATTAGC
58.652
38.462
0.00
0.00
0.00
3.09
4916
5022
6.925718
CGTGAAGGATCTCAATTATTAGCAGA
59.074
38.462
0.00
0.00
0.00
4.26
4917
5023
7.601886
CGTGAAGGATCTCAATTATTAGCAGAT
59.398
37.037
0.00
0.00
0.00
2.90
4922
5041
9.732130
AGGATCTCAATTATTAGCAGATAAACC
57.268
33.333
0.00
0.00
0.00
3.27
4947
5066
5.538463
ACTTTTCCAAGCTCCATTTCCTGG
61.538
45.833
0.00
0.00
38.88
4.45
4948
5067
1.075601
TCCAAGCTCCATTTCCTGGT
58.924
50.000
0.00
0.00
46.08
4.00
4958
5077
0.991920
ATTTCCTGGTCCGGTGTCAT
59.008
50.000
0.00
0.00
0.00
3.06
4959
5078
0.323629
TTTCCTGGTCCGGTGTCATC
59.676
55.000
0.00
0.00
0.00
2.92
4960
5079
0.834261
TTCCTGGTCCGGTGTCATCA
60.834
55.000
0.00
0.00
0.00
3.07
4977
5096
8.542953
GGTGTCATCAGAAATGAAAAGAAAAAC
58.457
33.333
0.00
0.00
0.00
2.43
5020
5147
6.243811
TGGGACACAACGACATATTTAAAC
57.756
37.500
0.00
0.00
0.00
2.01
5050
5180
1.440618
TTGAGAAAGCCACCACCCTA
58.559
50.000
0.00
0.00
0.00
3.53
5067
5198
8.342634
CACCACCCTATTATGTTTATTTCGAAG
58.657
37.037
0.00
0.00
0.00
3.79
5150
5295
3.659786
TCTCGTGTACATTTCCAACCTG
58.340
45.455
0.00
0.00
0.00
4.00
5151
5296
2.147958
TCGTGTACATTTCCAACCTGC
58.852
47.619
0.00
0.00
0.00
4.85
5153
5298
2.235016
GTGTACATTTCCAACCTGCCA
58.765
47.619
0.00
0.00
0.00
4.92
5154
5299
2.825532
GTGTACATTTCCAACCTGCCAT
59.174
45.455
0.00
0.00
0.00
4.40
5158
5303
1.894466
CATTTCCAACCTGCCATGACA
59.106
47.619
0.00
0.00
0.00
3.58
5159
5304
1.619654
TTTCCAACCTGCCATGACAG
58.380
50.000
1.37
1.37
37.42
3.51
5165
5310
3.895025
CTGCCATGACAGGTTCCG
58.105
61.111
0.22
0.00
33.85
4.30
5166
5311
1.746615
CTGCCATGACAGGTTCCGG
60.747
63.158
0.22
0.00
33.85
5.14
5167
5312
2.438434
GCCATGACAGGTTCCGGG
60.438
66.667
0.00
0.00
0.00
5.73
5168
5313
2.272146
CCATGACAGGTTCCGGGG
59.728
66.667
0.00
0.00
0.00
5.73
5169
5314
2.272146
CATGACAGGTTCCGGGGG
59.728
66.667
0.00
0.00
0.00
5.40
5170
5315
2.204090
ATGACAGGTTCCGGGGGT
60.204
61.111
0.00
0.00
0.00
4.95
5171
5316
1.081462
ATGACAGGTTCCGGGGGTA
59.919
57.895
0.00
0.00
0.00
3.69
5175
5320
2.365237
AGGTTCCGGGGGTAGAGC
60.365
66.667
0.00
0.00
0.00
4.09
5195
5340
2.060383
CATCCCTCTCGCTGTCCCA
61.060
63.158
0.00
0.00
0.00
4.37
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
126
127
6.681777
AGAATCCCTTGAAAATCACGAAAAG
58.318
36.000
0.00
0.00
0.00
2.27
131
132
7.147976
AGAAAAAGAATCCCTTGAAAATCACG
58.852
34.615
0.00
0.00
34.79
4.35
140
141
5.279156
CCAGACCAAGAAAAAGAATCCCTTG
60.279
44.000
0.00
0.00
34.79
3.61
142
143
4.411013
CCAGACCAAGAAAAAGAATCCCT
58.589
43.478
0.00
0.00
0.00
4.20
201
202
3.471680
GGCTATGTTGAATCTGTCTCCC
58.528
50.000
0.00
0.00
0.00
4.30
226
231
2.731976
CTGAGTTCAGTGTAAGGCGTTC
59.268
50.000
0.00
0.00
39.09
3.95
251
256
4.536090
TCCTAAAAGCATTCCTTCTCCTGA
59.464
41.667
0.00
0.00
31.99
3.86
257
262
3.356290
TGGCTCCTAAAAGCATTCCTTC
58.644
45.455
0.00
0.00
44.35
3.46
270
275
0.673644
GAAACTGCGCTTGGCTCCTA
60.674
55.000
9.73
0.00
44.05
2.94
280
285
3.364889
AACCTAAAAAGGAAACTGCGC
57.635
42.857
0.00
0.00
42.68
6.09
290
295
6.220930
GGCTCCTAACCAAAAACCTAAAAAG
58.779
40.000
0.00
0.00
0.00
2.27
297
302
1.893137
CTGGGCTCCTAACCAAAAACC
59.107
52.381
0.00
0.00
36.09
3.27
299
304
1.146982
AGCTGGGCTCCTAACCAAAAA
59.853
47.619
0.00
0.00
36.09
1.94
383
388
1.000843
TGGAATATCCATCGCGTCCAG
59.999
52.381
5.77
0.00
42.67
3.86
434
439
3.495193
CACCAGAAAATTCTCATGCACG
58.505
45.455
0.00
0.00
34.74
5.34
446
451
0.537143
AGCGCACATCCACCAGAAAA
60.537
50.000
11.47
0.00
0.00
2.29
484
489
7.801716
TGTGCCAGGATATACAACTAAAATC
57.198
36.000
0.00
0.00
0.00
2.17
501
506
5.649782
AAAATTCCTGTAAGATGTGCCAG
57.350
39.130
0.00
0.00
34.07
4.85
541
548
3.763360
CACATGGAAAGGCTGGTGAATAA
59.237
43.478
0.00
0.00
0.00
1.40
542
549
3.010027
TCACATGGAAAGGCTGGTGAATA
59.990
43.478
0.00
0.00
32.85
1.75
543
550
2.173519
CACATGGAAAGGCTGGTGAAT
58.826
47.619
0.00
0.00
0.00
2.57
544
551
1.144708
TCACATGGAAAGGCTGGTGAA
59.855
47.619
0.00
0.00
32.85
3.18
553
560
8.954350
ACTATCTCAAAATCTTCACATGGAAAG
58.046
33.333
0.00
0.00
34.44
2.62
648
655
2.734723
CTGCATATCGACCGGCCG
60.735
66.667
21.04
21.04
0.00
6.13
783
791
9.918630
CAACAAAAGGAAAAGATCTGTGATAAT
57.081
29.630
0.00
0.00
0.00
1.28
806
814
7.301054
CCAGTTCATGTCTTAATGTTCTCAAC
58.699
38.462
0.00
0.00
0.00
3.18
854
870
7.868775
TCTTCAAACTGAACATCTGAATTGAG
58.131
34.615
0.00
0.00
32.21
3.02
857
873
7.814264
ACTCTTCAAACTGAACATCTGAATT
57.186
32.000
0.00
0.00
32.21
2.17
871
887
5.389935
CGCCACTTCTCATAACTCTTCAAAC
60.390
44.000
0.00
0.00
0.00
2.93
1199
1224
6.328934
GGAATAAATGGATAAACATTGGGGGT
59.671
38.462
0.00
0.00
40.71
4.95
1506
1531
4.940046
GGAAGAGCAGACATTTCTTGATCA
59.060
41.667
0.00
0.00
31.67
2.92
1659
1684
4.501071
CTTGCCCAGATTTTTCTCCATTG
58.499
43.478
0.00
0.00
0.00
2.82
1805
1830
7.888250
AGGGCCAAAAATCAAATTAAAAACA
57.112
28.000
6.18
0.00
0.00
2.83
1867
1892
8.549548
CAATCTTGCTTCTGTATGATCTAGTTG
58.450
37.037
0.00
0.00
0.00
3.16
1927
1952
1.140052
CCAATGATGGCCAATGCATGT
59.860
47.619
10.96
0.00
40.58
3.21
1959
1984
3.737972
CCAACTTTTTGGCAACTCCAGTC
60.738
47.826
0.00
0.00
46.09
3.51
2359
2385
0.965363
AATGTAAGGCCAGGTTGCGG
60.965
55.000
5.01
0.00
0.00
5.69
2501
2527
3.934579
GAGCCTTGGTATGCAAAAATTGG
59.065
43.478
0.00
0.00
0.00
3.16
2552
2578
5.746245
CGTAAGAAACAAATTGCCAGAACAA
59.254
36.000
0.00
0.00
43.02
2.83
2560
2586
6.474102
TCCAGAAAACGTAAGAAACAAATTGC
59.526
34.615
0.00
0.00
43.62
3.56
2603
2629
5.636903
AGATACAGCTTGTGGGTTCATAT
57.363
39.130
0.00
0.00
0.00
1.78
2771
2797
2.584835
ATGTAGGAGCAAAGGCAACA
57.415
45.000
0.00
0.00
44.61
3.33
3082
3110
5.293569
GGATACCCGTGTTAAATCAAGACAG
59.706
44.000
0.00
0.00
30.81
3.51
3119
3147
4.147479
GGAAAATCCGTTTGTTTAAGCGTG
59.853
41.667
0.00
0.00
38.62
5.34
3122
3150
4.149922
GCTGGAAAATCCGTTTGTTTAAGC
59.850
41.667
0.00
0.00
40.17
3.09
3241
3269
2.306805
AGGAGATGCAAATCCTCACACA
59.693
45.455
15.52
0.00
42.44
3.72
3242
3270
2.996631
AGGAGATGCAAATCCTCACAC
58.003
47.619
15.52
0.00
42.44
3.82
3363
3393
4.698575
AGAAATCTAGGGCTCGAATTCAC
58.301
43.478
6.22
0.00
0.00
3.18
3383
3413
1.623311
TGGCAGTAGCAAGCTGTTAGA
59.377
47.619
4.53
0.00
44.61
2.10
3632
3662
6.513806
TGAAACATGTATAAGCAACTGCAT
57.486
33.333
0.00
0.00
45.16
3.96
3667
3704
6.127479
GGAAGCACCACATCCATTAAATGTAA
60.127
38.462
0.00
0.00
35.62
2.41
3716
3753
0.035534
TAAGGCGCTGGCTCATTTCA
60.036
50.000
7.64
0.00
37.50
2.69
3728
3765
7.323656
CAGCACATTAACTAATTATTAAGGCGC
59.676
37.037
0.00
0.00
33.70
6.53
3729
3766
8.342634
ACAGCACATTAACTAATTATTAAGGCG
58.657
33.333
9.77
4.97
28.69
5.52
3791
3829
6.395426
TGATATCATTCAATGGGTTGCTTC
57.605
37.500
0.00
0.00
35.26
3.86
3842
3912
6.515272
ACACAAATGGAAAGCCTTATACAG
57.485
37.500
0.00
0.00
34.31
2.74
3871
3941
9.836864
ATAAAACTATGCATCAACATCTACTCA
57.163
29.630
0.19
0.00
0.00
3.41
3908
3978
9.435688
AAAAATCATGGGAAGTTAGTTAAATGC
57.564
29.630
0.00
0.00
0.00
3.56
3976
4047
7.171678
GTGACTGAGCATAGTTTAAAGTCAGTT
59.828
37.037
12.87
1.31
42.40
3.16
3980
4051
5.062308
CCGTGACTGAGCATAGTTTAAAGTC
59.938
44.000
0.00
0.00
34.52
3.01
4016
4087
1.867233
CACCTTCACAGAACAGAACCG
59.133
52.381
0.00
0.00
0.00
4.44
4021
4092
1.517242
GAGGCACCTTCACAGAACAG
58.483
55.000
0.00
0.00
0.00
3.16
4121
4192
4.819761
GTGAGATGCGGCGCTGGA
62.820
66.667
33.26
17.29
0.00
3.86
4203
4274
2.358247
CTTTGGCGCCTACACCGT
60.358
61.111
29.70
0.00
0.00
4.83
4293
4364
2.147958
GGGTTTGTACAGCGACATTCA
58.852
47.619
0.00
0.00
0.00
2.57
4332
4403
1.514003
TAACTTGACCGCGAAATGCA
58.486
45.000
8.23
0.00
46.97
3.96
4333
4404
2.604969
TTAACTTGACCGCGAAATGC
57.395
45.000
8.23
0.00
41.47
3.56
4334
4405
4.717991
TGAATTAACTTGACCGCGAAATG
58.282
39.130
8.23
0.00
0.00
2.32
4335
4406
5.106317
ACATGAATTAACTTGACCGCGAAAT
60.106
36.000
8.23
0.00
0.00
2.17
4345
4424
8.055279
ACATCCACCTTACATGAATTAACTTG
57.945
34.615
0.00
0.00
0.00
3.16
4351
4430
5.819991
ACAGACATCCACCTTACATGAATT
58.180
37.500
0.00
0.00
0.00
2.17
4408
4490
5.706833
TGCAATAAGTTCAGCTCTCAAATCA
59.293
36.000
0.00
0.00
0.00
2.57
4409
4491
6.187125
TGCAATAAGTTCAGCTCTCAAATC
57.813
37.500
0.00
0.00
0.00
2.17
4440
4522
1.250328
CAGGCAAGCAAACATCCAGA
58.750
50.000
0.00
0.00
0.00
3.86
4538
4620
3.069872
TGCAAAACTCAAGCCATGACAAT
59.930
39.130
0.00
0.00
33.47
2.71
4542
4624
3.815856
TTTGCAAAACTCAAGCCATGA
57.184
38.095
10.02
0.00
36.38
3.07
4548
4630
4.265371
CGCACAAATTTGCAAAACTCAAG
58.735
39.130
17.19
6.27
43.15
3.02
4576
4658
2.781595
CCACGTCTGGAACCCGAAGG
62.782
65.000
0.00
0.00
44.94
3.46
4614
4696
7.508687
TCATATTTCTAGATGTAAAGCTGGCA
58.491
34.615
0.00
0.00
0.00
4.92
4635
4717
4.451891
TGGGGATGCTTATGCTTTCATA
57.548
40.909
1.96
0.00
40.48
2.15
4685
4767
4.202641
TGCTCTTATATTAGGACGGAGGGA
60.203
45.833
0.00
0.00
0.00
4.20
4732
4822
8.397951
TCTCCATCCCATAATATAAGAGCATT
57.602
34.615
0.00
0.00
0.00
3.56
4733
4823
8.578593
ATCTCCATCCCATAATATAAGAGCAT
57.421
34.615
0.00
0.00
0.00
3.79
4734
4824
8.270030
CAATCTCCATCCCATAATATAAGAGCA
58.730
37.037
0.00
0.00
0.00
4.26
4735
4825
8.270744
ACAATCTCCATCCCATAATATAAGAGC
58.729
37.037
0.00
0.00
0.00
4.09
4766
4856
8.768397
TCCGTCCCATAATATAAGAGCATTATT
58.232
33.333
0.20
0.00
0.00
1.40
4767
4857
8.319057
TCCGTCCCATAATATAAGAGCATTAT
57.681
34.615
0.00
0.00
0.00
1.28
4768
4858
7.147724
CCTCCGTCCCATAATATAAGAGCATTA
60.148
40.741
0.00
0.00
0.00
1.90
4824
4915
2.259917
TGTGAATGCTCCTTCTCTCCA
58.740
47.619
0.00
0.00
0.00
3.86
4825
4916
3.557228
ATGTGAATGCTCCTTCTCTCC
57.443
47.619
0.00
0.00
0.00
3.71
4913
5019
4.455877
AGCTTGGAAAAGTCGGTTTATCTG
59.544
41.667
0.00
0.00
0.00
2.90
4916
5022
3.756963
GGAGCTTGGAAAAGTCGGTTTAT
59.243
43.478
0.00
0.00
0.00
1.40
4917
5023
3.143728
GGAGCTTGGAAAAGTCGGTTTA
58.856
45.455
0.00
0.00
0.00
2.01
4922
5041
3.366374
GGAAATGGAGCTTGGAAAAGTCG
60.366
47.826
0.00
0.00
0.00
4.18
4947
5066
2.972625
TCATTTCTGATGACACCGGAC
58.027
47.619
9.46
0.00
0.00
4.79
4948
5067
3.694043
TTCATTTCTGATGACACCGGA
57.306
42.857
9.46
0.00
0.00
5.14
4958
5077
9.369904
CCTTTCTGTTTTTCTTTTCATTTCTGA
57.630
29.630
0.00
0.00
0.00
3.27
4959
5078
9.369904
TCCTTTCTGTTTTTCTTTTCATTTCTG
57.630
29.630
0.00
0.00
0.00
3.02
4960
5079
9.942850
TTCCTTTCTGTTTTTCTTTTCATTTCT
57.057
25.926
0.00
0.00
0.00
2.52
4977
5096
6.010219
TCCCATCTAAACCTTTTCCTTTCTG
58.990
40.000
0.00
0.00
0.00
3.02
5020
5147
5.335191
GGTGGCTTTCTCAATTAGTTGTCAG
60.335
44.000
0.00
0.00
36.69
3.51
5067
5198
7.133513
GTGAATGCTGATGATGATCTTTTCTC
58.866
38.462
0.00
0.00
0.00
2.87
5150
5295
2.438434
CCCGGAACCTGTCATGGC
60.438
66.667
0.73
0.00
0.00
4.40
5151
5296
2.272146
CCCCGGAACCTGTCATGG
59.728
66.667
0.73
0.00
0.00
3.66
5153
5298
0.981277
CTACCCCCGGAACCTGTCAT
60.981
60.000
0.73
0.00
0.00
3.06
5154
5299
1.611261
CTACCCCCGGAACCTGTCA
60.611
63.158
0.73
0.00
0.00
3.58
5158
5303
2.365237
GCTCTACCCCCGGAACCT
60.365
66.667
0.73
0.00
0.00
3.50
5159
5304
2.365237
AGCTCTACCCCCGGAACC
60.365
66.667
0.73
0.00
0.00
3.62
5161
5306
0.759436
GATGAGCTCTACCCCCGGAA
60.759
60.000
16.19
0.00
0.00
4.30
5162
5307
1.152525
GATGAGCTCTACCCCCGGA
60.153
63.158
16.19
0.00
0.00
5.14
5163
5308
2.210711
GGATGAGCTCTACCCCCGG
61.211
68.421
16.19
0.00
0.00
5.73
5164
5309
2.210711
GGGATGAGCTCTACCCCCG
61.211
68.421
27.09
0.00
36.65
5.73
5165
5310
0.834261
GAGGGATGAGCTCTACCCCC
60.834
65.000
30.79
25.10
42.97
5.40
5166
5311
0.189822
AGAGGGATGAGCTCTACCCC
59.810
60.000
30.79
26.95
42.97
4.95
5167
5312
1.627864
GAGAGGGATGAGCTCTACCC
58.372
60.000
28.85
28.85
42.36
3.69
5168
5313
1.243902
CGAGAGGGATGAGCTCTACC
58.756
60.000
16.19
16.86
0.00
3.18
5169
5314
0.596082
GCGAGAGGGATGAGCTCTAC
59.404
60.000
16.19
8.63
0.00
2.59
5170
5315
0.476338
AGCGAGAGGGATGAGCTCTA
59.524
55.000
16.19
1.49
31.94
2.43
5171
5316
1.108727
CAGCGAGAGGGATGAGCTCT
61.109
60.000
16.19
0.00
35.82
4.09
5175
5320
1.739049
GGACAGCGAGAGGGATGAG
59.261
63.158
0.00
0.00
0.00
2.90
5195
5340
9.261180
CTACGTGTATCAATAATTCCAGTCAAT
57.739
33.333
0.00
0.00
0.00
2.57
5216
5370
3.626930
AGGCTGAGAGAGATTTCTACGT
58.373
45.455
0.00
0.00
32.53
3.57
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.