Multiple sequence alignment - TraesCS6B01G352100
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
TraesCS6B01G352100
chr6B
100.000
3622
0
0
1
3622
617647484
617643863
0.000000e+00
6689
1
TraesCS6B01G352100
chr6D
87.597
3741
156
125
4
3615
410830112
410826551
0.000000e+00
4054
2
TraesCS6B01G352100
chr6A
89.122
2666
157
63
1022
3622
555753875
555751278
0.000000e+00
3193
3
TraesCS6B01G352100
chr6A
86.214
515
24
14
496
976
555754389
555753888
6.930000e-142
514
4
TraesCS6B01G352100
chr6A
84.735
321
5
13
75
390
555754701
555754420
7.660000e-72
281
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
TraesCS6B01G352100
chr6B
617643863
617647484
3621
True
6689.000000
6689
100.000000
1
3622
1
chr6B.!!$R1
3621
1
TraesCS6B01G352100
chr6D
410826551
410830112
3561
True
4054.000000
4054
87.597000
4
3615
1
chr6D.!!$R1
3611
2
TraesCS6B01G352100
chr6A
555751278
555754701
3423
True
1329.333333
3193
86.690333
75
3622
3
chr6A.!!$R1
3547
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
977
1058
0.227234
CAAATCCGAGCGTCGAATCG
59.773
55.0
11.89
11.89
43.74
3.34
F
1177
1267
0.393448
TGATCACGTTCCGTTTGGGA
59.607
50.0
0.00
0.00
45.40
4.37
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
2466
2601
0.462759
GCTTTCATCGGCTGGCTAGT
60.463
55.0
0.00
0.00
0.0
2.57
R
2985
3152
0.111832
AGGCGGAATCATGCATGGAT
59.888
50.0
25.97
15.15
0.0
3.41
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
115
116
1.882625
CTGCGCGCAACTAGGCATA
60.883
57.895
35.50
7.85
34.49
3.14
116
117
1.224069
CTGCGCGCAACTAGGCATAT
61.224
55.000
35.50
0.00
34.49
1.78
117
118
1.205064
GCGCGCAACTAGGCATATG
59.795
57.895
29.10
0.00
0.00
1.78
118
119
1.205064
CGCGCAACTAGGCATATGC
59.795
57.895
19.79
19.79
41.14
3.14
138
139
0.253894
CAGCATCCATCCACCAGTCA
59.746
55.000
0.00
0.00
0.00
3.41
206
207
4.802051
ATCAACCAGCGGCGGCAT
62.802
61.111
19.21
0.23
43.41
4.40
264
265
1.754380
CTCCACCCACCGAACTCACA
61.754
60.000
0.00
0.00
0.00
3.58
265
266
1.597027
CCACCCACCGAACTCACAC
60.597
63.158
0.00
0.00
0.00
3.82
294
302
2.044806
CTGCCAAGGTAGATCCGGGG
62.045
65.000
0.00
0.00
41.99
5.73
295
303
2.819284
GCCAAGGTAGATCCGGGGG
61.819
68.421
0.00
0.00
41.99
5.40
296
304
2.819284
CCAAGGTAGATCCGGGGGC
61.819
68.421
0.00
0.00
41.99
5.80
407
425
3.118454
CGTTACACGGCTGGCCAG
61.118
66.667
29.34
29.34
38.08
4.85
410
428
1.078497
TTACACGGCTGGCCAGATG
60.078
57.895
37.21
29.03
35.37
2.90
411
429
1.836999
TTACACGGCTGGCCAGATGT
61.837
55.000
37.21
32.44
35.37
3.06
413
431
1.078497
CACGGCTGGCCAGATGTTA
60.078
57.895
37.21
0.00
35.37
2.41
415
433
1.128200
ACGGCTGGCCAGATGTTATA
58.872
50.000
37.21
0.00
35.37
0.98
417
435
2.092646
ACGGCTGGCCAGATGTTATAAA
60.093
45.455
37.21
0.00
35.37
1.40
419
437
3.569701
CGGCTGGCCAGATGTTATAAAAT
59.430
43.478
37.21
0.00
35.37
1.82
420
438
4.557296
CGGCTGGCCAGATGTTATAAAATG
60.557
45.833
37.21
5.64
35.37
2.32
421
439
4.262164
GGCTGGCCAGATGTTATAAAATGG
60.262
45.833
37.21
4.89
35.81
3.16
423
441
5.278660
GCTGGCCAGATGTTATAAAATGGAG
60.279
44.000
37.21
4.07
0.00
3.86
424
442
4.584325
TGGCCAGATGTTATAAAATGGAGC
59.416
41.667
0.00
2.63
0.00
4.70
426
444
4.829492
GCCAGATGTTATAAAATGGAGCCT
59.171
41.667
9.53
0.00
0.00
4.58
428
446
6.736794
GCCAGATGTTATAAAATGGAGCCTTG
60.737
42.308
9.53
0.00
0.00
3.61
429
447
6.211515
CAGATGTTATAAAATGGAGCCTTGC
58.788
40.000
0.00
0.00
0.00
4.01
432
450
6.603940
TGTTATAAAATGGAGCCTTGCTTT
57.396
33.333
0.00
0.00
39.88
3.51
437
455
1.255667
ATGGAGCCTTGCTTTGCCAG
61.256
55.000
0.00
0.00
39.88
4.85
452
472
4.025401
CAGCCCGCCGTTTCACAC
62.025
66.667
0.00
0.00
0.00
3.82
462
482
0.240945
CGTTTCACACATTCCCTGGC
59.759
55.000
0.00
0.00
0.00
4.85
492
524
3.478857
TGTCACGTACATGTCCCTTTT
57.521
42.857
0.00
0.00
31.43
2.27
493
525
3.811083
TGTCACGTACATGTCCCTTTTT
58.189
40.909
0.00
0.00
31.43
1.94
562
605
0.895530
GCAGGTGCTGACACTACCTA
59.104
55.000
5.74
0.00
46.57
3.08
587
630
2.352001
CGGCGATCCTCGTACACG
60.352
66.667
0.00
0.00
42.81
4.49
591
634
2.416260
GATCCTCGTACACGGCCC
59.584
66.667
0.00
0.00
40.29
5.80
634
677
1.016130
CATCACGTGTGGAGTGGAGC
61.016
60.000
16.51
0.00
39.86
4.70
650
708
2.506217
GCGGATTGCAGACGACGA
60.506
61.111
0.00
0.00
45.45
4.20
662
720
3.132139
CGACGAGCTTCCCGAGGA
61.132
66.667
0.00
0.00
0.00
3.71
663
721
2.482333
CGACGAGCTTCCCGAGGAT
61.482
63.158
0.00
0.00
0.00
3.24
701
763
2.815647
TGCGCAACACACGTCACA
60.816
55.556
8.16
0.00
0.00
3.58
705
767
2.521771
GCAACACACGTCACAGCGA
61.522
57.895
0.00
0.00
35.59
4.93
706
768
1.559814
CAACACACGTCACAGCGAG
59.440
57.895
0.00
0.00
35.59
5.03
707
769
2.237751
AACACACGTCACAGCGAGC
61.238
57.895
0.00
0.00
35.59
5.03
708
770
3.406361
CACACGTCACAGCGAGCC
61.406
66.667
0.00
0.00
35.59
4.70
709
771
3.606662
ACACGTCACAGCGAGCCT
61.607
61.111
0.00
0.00
35.59
4.58
842
908
4.918360
ACCCACCCAGCACCCAGA
62.918
66.667
0.00
0.00
0.00
3.86
843
909
4.351054
CCCACCCAGCACCCAGAC
62.351
72.222
0.00
0.00
0.00
3.51
844
910
4.351054
CCACCCAGCACCCAGACC
62.351
72.222
0.00
0.00
0.00
3.85
845
911
4.351054
CACCCAGCACCCAGACCC
62.351
72.222
0.00
0.00
0.00
4.46
846
912
4.918360
ACCCAGCACCCAGACCCA
62.918
66.667
0.00
0.00
0.00
4.51
847
913
4.039092
CCCAGCACCCAGACCCAG
62.039
72.222
0.00
0.00
0.00
4.45
848
914
2.930019
CCAGCACCCAGACCCAGA
60.930
66.667
0.00
0.00
0.00
3.86
849
915
2.348998
CAGCACCCAGACCCAGAC
59.651
66.667
0.00
0.00
0.00
3.51
850
916
2.930562
AGCACCCAGACCCAGACC
60.931
66.667
0.00
0.00
0.00
3.85
851
917
4.035102
GCACCCAGACCCAGACCC
62.035
72.222
0.00
0.00
0.00
4.46
967
1048
1.147153
GGCCCTCTCCAAATCCGAG
59.853
63.158
0.00
0.00
0.00
4.63
977
1058
0.227234
CAAATCCGAGCGTCGAATCG
59.773
55.000
11.89
11.89
43.74
3.34
1005
1090
1.603306
CCCGTTCGAATTACCCCCA
59.397
57.895
0.00
0.00
0.00
4.96
1007
1092
1.589803
CCGTTCGAATTACCCCCATC
58.410
55.000
0.00
0.00
0.00
3.51
1008
1093
1.134340
CCGTTCGAATTACCCCCATCA
60.134
52.381
0.00
0.00
0.00
3.07
1009
1094
2.486548
CCGTTCGAATTACCCCCATCAT
60.487
50.000
0.00
0.00
0.00
2.45
1010
1095
2.806244
CGTTCGAATTACCCCCATCATC
59.194
50.000
0.00
0.00
0.00
2.92
1011
1096
3.742954
CGTTCGAATTACCCCCATCATCA
60.743
47.826
0.00
0.00
0.00
3.07
1012
1097
4.398319
GTTCGAATTACCCCCATCATCAT
58.602
43.478
0.00
0.00
0.00
2.45
1013
1098
4.286297
TCGAATTACCCCCATCATCATC
57.714
45.455
0.00
0.00
0.00
2.92
1014
1099
3.009033
TCGAATTACCCCCATCATCATCC
59.991
47.826
0.00
0.00
0.00
3.51
1015
1100
3.244875
CGAATTACCCCCATCATCATCCA
60.245
47.826
0.00
0.00
0.00
3.41
1016
1101
4.568380
CGAATTACCCCCATCATCATCCAT
60.568
45.833
0.00
0.00
0.00
3.41
1017
1102
4.598036
ATTACCCCCATCATCATCCATC
57.402
45.455
0.00
0.00
0.00
3.51
1018
1103
1.837252
ACCCCCATCATCATCCATCA
58.163
50.000
0.00
0.00
0.00
3.07
1019
1104
1.426598
ACCCCCATCATCATCCATCAC
59.573
52.381
0.00
0.00
0.00
3.06
1020
1105
1.709115
CCCCCATCATCATCCATCACT
59.291
52.381
0.00
0.00
0.00
3.41
1037
1122
5.448225
CCATCACTCATCAGTTTCAAATCCG
60.448
44.000
0.00
0.00
0.00
4.18
1105
1191
3.406361
CGTGTCACGCCTGCAGAC
61.406
66.667
17.39
1.25
33.65
3.51
1109
1195
2.661537
TCACGCCTGCAGACAACG
60.662
61.111
17.39
15.34
0.00
4.10
1177
1267
0.393448
TGATCACGTTCCGTTTGGGA
59.607
50.000
0.00
0.00
45.40
4.37
1377
1482
0.837691
AGCGGCATCATATCCCTCCA
60.838
55.000
1.45
0.00
0.00
3.86
1426
1531
3.681473
GGAAACGGCCAAAGGAGG
58.319
61.111
2.24
0.00
0.00
4.30
1582
1695
1.741770
CGTTTCCAAGAGGAGGCGG
60.742
63.158
0.00
0.00
46.74
6.13
1858
1980
0.972471
GCAAGGTGAGGGAATTGGGG
60.972
60.000
0.00
0.00
0.00
4.96
2049
2171
4.842531
TCTTGTGAATTATGCCTCCTGA
57.157
40.909
0.00
0.00
0.00
3.86
2375
2503
1.079875
TCGCCGGAATTCTAACGTGC
61.080
55.000
5.05
5.86
0.00
5.34
2385
2513
0.448197
TCTAACGTGCGAGCTCTCTG
59.552
55.000
12.85
3.61
0.00
3.35
2471
2606
3.479370
CGGTGAGCAGCAACTAGC
58.521
61.111
0.00
0.00
46.19
3.42
2609
2745
4.398319
AGATGCTCCGGAAAGAAGAAAAA
58.602
39.130
5.23
0.00
0.00
1.94
2674
2812
7.169158
TCAACCAACTTTTTCTTTCACTCAT
57.831
32.000
0.00
0.00
0.00
2.90
2677
2815
7.169158
ACCAACTTTTTCTTTCACTCATTCA
57.831
32.000
0.00
0.00
0.00
2.57
2709
2847
2.026356
CCCACCATTATCACCTCACACA
60.026
50.000
0.00
0.00
0.00
3.72
2713
2851
2.239654
CCATTATCACCTCACACACCCT
59.760
50.000
0.00
0.00
0.00
4.34
2714
2852
3.308402
CCATTATCACCTCACACACCCTT
60.308
47.826
0.00
0.00
0.00
3.95
2715
2853
4.080582
CCATTATCACCTCACACACCCTTA
60.081
45.833
0.00
0.00
0.00
2.69
2716
2854
5.397899
CCATTATCACCTCACACACCCTTAT
60.398
44.000
0.00
0.00
0.00
1.73
2717
2855
6.183361
CCATTATCACCTCACACACCCTTATA
60.183
42.308
0.00
0.00
0.00
0.98
2743
2881
1.829222
CCTGATTTTTCCCAGCAGCAT
59.171
47.619
0.00
0.00
0.00
3.79
2784
2927
5.851418
ACTTCCCCTACTGGTACTTATCTT
58.149
41.667
0.00
0.00
0.00
2.40
2785
2928
5.898397
ACTTCCCCTACTGGTACTTATCTTC
59.102
44.000
0.00
0.00
0.00
2.87
2802
2959
0.109458
TTCGTTGACAGGACGGATCG
60.109
55.000
0.14
0.00
40.70
3.69
2845
3006
8.640063
TGTAATTGTCACCTAGTAGTAGTTGA
57.360
34.615
0.91
0.91
0.00
3.18
2846
3007
9.251440
TGTAATTGTCACCTAGTAGTAGTTGAT
57.749
33.333
7.96
0.00
31.03
2.57
2850
3011
7.636150
TGTCACCTAGTAGTAGTTGATTACC
57.364
40.000
7.96
0.00
31.03
2.85
2851
3012
7.408543
TGTCACCTAGTAGTAGTTGATTACCT
58.591
38.462
7.96
0.00
31.03
3.08
2853
3014
9.401058
GTCACCTAGTAGTAGTTGATTACCTTA
57.599
37.037
7.96
0.00
31.03
2.69
2854
3015
9.401058
TCACCTAGTAGTAGTTGATTACCTTAC
57.599
37.037
0.91
0.00
0.00
2.34
2855
3016
9.182214
CACCTAGTAGTAGTTGATTACCTTACA
57.818
37.037
3.91
0.00
0.00
2.41
2897
3064
1.848608
CTGTACATCGTCGTCAGCATG
59.151
52.381
0.00
0.00
37.54
4.06
2899
3066
2.420722
TGTACATCGTCGTCAGCATGTA
59.579
45.455
0.00
0.90
37.40
2.29
2901
3068
0.848942
CATCGTCGTCAGCATGTAGC
59.151
55.000
0.00
0.00
46.19
3.58
2985
3152
0.536460
GTCTCCCTTTGCCGTTTCCA
60.536
55.000
0.00
0.00
0.00
3.53
3054
3225
0.791422
TGCACACGTTATGCGGTTAC
59.209
50.000
14.98
0.00
46.49
2.50
3055
3226
0.095762
GCACACGTTATGCGGTTACC
59.904
55.000
5.84
0.00
46.52
2.85
3074
3245
2.510768
CCAGATCGTTGGGTAGCTAC
57.489
55.000
15.88
15.88
34.46
3.58
3075
3246
2.032620
CCAGATCGTTGGGTAGCTACT
58.967
52.381
22.74
1.33
34.46
2.57
3076
3247
2.034812
CCAGATCGTTGGGTAGCTACTC
59.965
54.545
22.74
20.19
34.46
2.59
3142
3313
2.251642
ACGGAAACAGCTTCGGCAC
61.252
57.895
0.00
0.00
44.74
5.01
3144
3315
2.626780
GGAAACAGCTTCGGCACCC
61.627
63.158
0.00
0.00
44.74
4.61
3145
3316
1.896660
GAAACAGCTTCGGCACCCA
60.897
57.895
0.00
0.00
44.74
4.51
3146
3317
1.228552
AAACAGCTTCGGCACCCAT
60.229
52.632
0.00
0.00
44.74
4.00
3269
3457
1.876664
GCCGTGGAAAGAAGGCTTC
59.123
57.895
19.53
19.53
45.67
3.86
3355
3548
1.153565
AGAAGGGGAGGGAAGTTACCA
59.846
52.381
6.96
0.00
0.00
3.25
3414
3607
2.772515
GGGGTTAGATAGAGCAAGTGGT
59.227
50.000
0.00
0.00
0.00
4.16
3444
3637
6.291377
ACCTATGCGTGAATGATTAGTGATT
58.709
36.000
0.00
0.00
0.00
2.57
3449
3642
5.463392
TGCGTGAATGATTAGTGATTAGAGC
59.537
40.000
0.00
0.00
0.00
4.09
3450
3643
5.387855
GCGTGAATGATTAGTGATTAGAGCG
60.388
44.000
0.00
0.00
0.00
5.03
3451
3644
5.117745
CGTGAATGATTAGTGATTAGAGCGG
59.882
44.000
0.00
0.00
0.00
5.52
3452
3645
4.991056
TGAATGATTAGTGATTAGAGCGGC
59.009
41.667
0.00
0.00
0.00
6.53
3455
3648
1.108776
TTAGTGATTAGAGCGGCCGT
58.891
50.000
28.70
13.92
0.00
5.68
3458
3651
0.872021
GTGATTAGAGCGGCCGTCTG
60.872
60.000
28.95
5.83
0.00
3.51
3480
3673
2.527547
CTAAACAAAGCGCCGCTGGG
62.528
60.000
14.52
10.87
39.62
4.45
3615
3810
7.170489
GTCAGTCAGTAGGTTGGTAAAAACTAC
59.830
40.741
5.36
5.36
0.00
2.73
3616
3811
7.070322
TCAGTCAGTAGGTTGGTAAAAACTACT
59.930
37.037
9.48
9.48
30.70
2.57
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
1
2
1.366111
TTACCGCGCAAAGATCCAGC
61.366
55.000
8.75
0.00
0.00
4.85
2
3
0.373716
GTTACCGCGCAAAGATCCAG
59.626
55.000
8.75
0.00
0.00
3.86
15
16
3.634568
TTTGGATGCTTTGTGTTACCG
57.365
42.857
0.00
0.00
0.00
4.02
16
17
4.055360
GGTTTTGGATGCTTTGTGTTACC
58.945
43.478
0.00
0.00
0.00
2.85
58
59
2.865603
CACGAGCGACGACGACAG
60.866
66.667
12.29
3.21
45.77
3.51
73
74
2.380410
GGTCGTGTGCGTGATCCAC
61.380
63.158
0.00
0.00
39.49
4.02
115
116
1.152610
GGTGGATGGATGCTGGCAT
60.153
57.895
7.86
7.86
39.69
4.40
116
117
2.276409
GGTGGATGGATGCTGGCA
59.724
61.111
0.00
0.00
0.00
4.92
117
118
1.826921
CTGGTGGATGGATGCTGGC
60.827
63.158
0.00
0.00
0.00
4.85
118
119
0.465097
GACTGGTGGATGGATGCTGG
60.465
60.000
0.00
0.00
0.00
4.85
119
120
0.253894
TGACTGGTGGATGGATGCTG
59.746
55.000
0.00
0.00
0.00
4.41
120
121
1.142465
GATGACTGGTGGATGGATGCT
59.858
52.381
0.00
0.00
0.00
3.79
121
122
1.134007
TGATGACTGGTGGATGGATGC
60.134
52.381
0.00
0.00
0.00
3.91
122
123
2.172082
ACTGATGACTGGTGGATGGATG
59.828
50.000
0.00
0.00
0.00
3.51
123
124
2.485659
ACTGATGACTGGTGGATGGAT
58.514
47.619
0.00
0.00
0.00
3.41
124
125
1.956869
ACTGATGACTGGTGGATGGA
58.043
50.000
0.00
0.00
0.00
3.41
138
139
5.827797
ACGGTGATATTTTTGGCATACTGAT
59.172
36.000
0.00
0.00
0.00
2.90
180
181
3.554692
CTGGTTGATCGTCGCGGC
61.555
66.667
6.13
1.93
0.00
6.53
181
182
3.554692
GCTGGTTGATCGTCGCGG
61.555
66.667
6.13
0.00
0.00
6.46
182
183
3.902063
CGCTGGTTGATCGTCGCG
61.902
66.667
0.00
0.00
34.50
5.87
183
184
3.554692
CCGCTGGTTGATCGTCGC
61.555
66.667
0.00
0.00
0.00
5.19
184
185
3.554692
GCCGCTGGTTGATCGTCG
61.555
66.667
0.00
0.00
0.00
5.12
185
186
3.554692
CGCCGCTGGTTGATCGTC
61.555
66.667
0.00
0.00
0.00
4.20
243
244
0.178955
TGAGTTCGGTGGGTGGAGTA
60.179
55.000
0.00
0.00
0.00
2.59
407
425
6.396829
AGCAAGGCTCCATTTTATAACATC
57.603
37.500
0.00
0.00
30.62
3.06
410
428
5.291858
GCAAAGCAAGGCTCCATTTTATAAC
59.708
40.000
0.00
0.00
38.25
1.89
411
429
5.418676
GCAAAGCAAGGCTCCATTTTATAA
58.581
37.500
0.00
0.00
38.25
0.98
413
431
3.369787
GGCAAAGCAAGGCTCCATTTTAT
60.370
43.478
0.00
0.00
38.25
1.40
415
433
1.271001
GGCAAAGCAAGGCTCCATTTT
60.271
47.619
0.00
0.00
38.25
1.82
417
435
0.832983
TGGCAAAGCAAGGCTCCATT
60.833
50.000
0.00
0.00
38.25
3.16
419
437
1.904865
CTGGCAAAGCAAGGCTCCA
60.905
57.895
0.00
0.00
38.25
3.86
420
438
2.968206
CTGGCAAAGCAAGGCTCC
59.032
61.111
0.00
0.00
38.25
4.70
437
455
2.796245
GAATGTGTGAAACGGCGGGC
62.796
60.000
13.24
0.00
42.39
6.13
440
458
1.209127
GGGAATGTGTGAAACGGCG
59.791
57.895
4.80
4.80
42.39
6.46
444
462
0.240945
CGCCAGGGAATGTGTGAAAC
59.759
55.000
0.00
0.00
37.35
2.78
445
463
1.523154
GCGCCAGGGAATGTGTGAAA
61.523
55.000
0.00
0.00
0.00
2.69
446
464
1.971167
GCGCCAGGGAATGTGTGAA
60.971
57.895
0.00
0.00
0.00
3.18
447
465
2.359850
GCGCCAGGGAATGTGTGA
60.360
61.111
0.00
0.00
0.00
3.58
448
466
3.803082
CGCGCCAGGGAATGTGTG
61.803
66.667
0.00
0.00
0.00
3.82
452
472
2.514592
ATCACGCGCCAGGGAATG
60.515
61.111
5.73
0.00
0.00
2.67
491
523
6.373774
AGTGAAATGGCAAATGTGTTCAAAAA
59.626
30.769
0.00
0.00
0.00
1.94
492
524
5.879223
AGTGAAATGGCAAATGTGTTCAAAA
59.121
32.000
0.00
0.00
0.00
2.44
493
525
5.426504
AGTGAAATGGCAAATGTGTTCAAA
58.573
33.333
0.00
0.00
0.00
2.69
494
526
5.021033
AGTGAAATGGCAAATGTGTTCAA
57.979
34.783
0.00
0.00
0.00
2.69
549
592
1.065251
GTAGCGGTAGGTAGTGTCAGC
59.935
57.143
0.00
0.00
0.00
4.26
587
630
2.747855
CGGTTGAAGCTGAGGGCC
60.748
66.667
0.00
0.00
43.05
5.80
591
634
3.793144
GCGGCGGTTGAAGCTGAG
61.793
66.667
9.78
0.00
43.29
3.35
634
677
2.508891
GCTCGTCGTCTGCAATCCG
61.509
63.158
0.00
0.00
0.00
4.18
650
708
0.970937
TTCGTCATCCTCGGGAAGCT
60.971
55.000
0.00
0.00
34.34
3.74
662
720
1.134280
CCCCTGATCTGCTTTCGTCAT
60.134
52.381
0.00
0.00
0.00
3.06
663
721
0.250234
CCCCTGATCTGCTTTCGTCA
59.750
55.000
0.00
0.00
0.00
4.35
842
908
4.354943
CCTCCCCTGGGTCTGGGT
62.355
72.222
12.71
0.00
42.80
4.51
1005
1090
5.827326
ACTGATGAGTGATGGATGATGAT
57.173
39.130
0.00
0.00
0.00
2.45
1007
1092
5.820947
TGAAACTGATGAGTGATGGATGATG
59.179
40.000
0.00
0.00
30.61
3.07
1008
1093
5.997843
TGAAACTGATGAGTGATGGATGAT
58.002
37.500
0.00
0.00
30.61
2.45
1009
1094
5.425196
TGAAACTGATGAGTGATGGATGA
57.575
39.130
0.00
0.00
30.61
2.92
1010
1095
6.505044
TTTGAAACTGATGAGTGATGGATG
57.495
37.500
0.00
0.00
30.61
3.51
1011
1096
6.320672
GGATTTGAAACTGATGAGTGATGGAT
59.679
38.462
0.00
0.00
30.61
3.41
1012
1097
5.649395
GGATTTGAAACTGATGAGTGATGGA
59.351
40.000
0.00
0.00
30.61
3.41
1013
1098
5.448225
CGGATTTGAAACTGATGAGTGATGG
60.448
44.000
0.00
0.00
30.61
3.51
1014
1099
5.122869
ACGGATTTGAAACTGATGAGTGATG
59.877
40.000
0.00
0.00
30.61
3.07
1015
1100
5.248640
ACGGATTTGAAACTGATGAGTGAT
58.751
37.500
0.00
0.00
30.61
3.06
1016
1101
4.641396
ACGGATTTGAAACTGATGAGTGA
58.359
39.130
0.00
0.00
30.61
3.41
1017
1102
4.692625
AGACGGATTTGAAACTGATGAGTG
59.307
41.667
0.00
0.00
30.61
3.51
1018
1103
4.899502
AGACGGATTTGAAACTGATGAGT
58.100
39.130
0.00
0.00
0.00
3.41
1019
1104
5.869753
AAGACGGATTTGAAACTGATGAG
57.130
39.130
0.00
0.00
0.00
2.90
1020
1105
6.148811
GGTTAAGACGGATTTGAAACTGATGA
59.851
38.462
0.00
0.00
0.00
2.92
1037
1122
2.271173
CCTGGGCGGGGTTAAGAC
59.729
66.667
0.00
0.00
0.00
3.01
1094
1180
2.356313
CTCGTTGTCTGCAGGCGT
60.356
61.111
14.71
0.00
0.00
5.68
1099
1185
2.410322
ATTGCCCCTCGTTGTCTGCA
62.410
55.000
0.00
0.00
0.00
4.41
1102
1188
0.250513
GAGATTGCCCCTCGTTGTCT
59.749
55.000
0.00
0.00
0.00
3.41
1105
1191
3.799753
CGAGATTGCCCCTCGTTG
58.200
61.111
10.20
0.00
45.89
4.10
1109
1195
1.389609
TACGGACGAGATTGCCCCTC
61.390
60.000
0.00
0.00
0.00
4.30
1177
1267
1.445871
GGTAACGGCGTTCTGGAAAT
58.554
50.000
30.35
5.01
0.00
2.17
1278
1374
2.237643
ACACATATAACACGCCAAGGGA
59.762
45.455
0.00
0.00
0.00
4.20
1279
1375
2.639065
ACACATATAACACGCCAAGGG
58.361
47.619
0.00
0.00
0.00
3.95
1280
1376
3.244345
CGTACACATATAACACGCCAAGG
59.756
47.826
0.00
0.00
0.00
3.61
1446
1556
2.372074
TACTTCCCCATCGCCCCAC
61.372
63.158
0.00
0.00
0.00
4.61
1447
1557
2.041430
TACTTCCCCATCGCCCCA
59.959
61.111
0.00
0.00
0.00
4.96
1567
1680
3.717294
GGCCGCCTCCTCTTGGAA
61.717
66.667
0.71
0.00
42.66
3.53
1798
1920
3.449227
CACGACGGCAGGCTCCTA
61.449
66.667
0.00
0.00
0.00
2.94
1834
1956
2.629617
CAATTCCCTCACCTTGCTGTTT
59.370
45.455
0.00
0.00
0.00
2.83
1839
1961
0.972471
CCCCAATTCCCTCACCTTGC
60.972
60.000
0.00
0.00
0.00
4.01
1911
2033
0.963856
TAGAGCGGAGAAAGCCACGA
60.964
55.000
0.00
0.00
34.64
4.35
1954
2076
2.896801
CTCCGCGTTGTTGCTTGCT
61.897
57.895
4.92
0.00
0.00
3.91
1957
2079
2.607892
GCTCTCCGCGTTGTTGCTT
61.608
57.895
4.92
0.00
0.00
3.91
2075
2197
2.660490
CGCCTGAATTTTCAAAAGCGA
58.340
42.857
19.19
0.00
45.84
4.93
2385
2513
1.145803
GTCGAAGTTGTACCTGGCAC
58.854
55.000
0.00
0.00
0.00
5.01
2466
2601
0.462759
GCTTTCATCGGCTGGCTAGT
60.463
55.000
0.00
0.00
0.00
2.57
2471
2606
2.817423
GCTCGCTTTCATCGGCTGG
61.817
63.158
0.00
0.00
0.00
4.85
2475
2610
2.697425
CACGCTCGCTTTCATCGG
59.303
61.111
0.00
0.00
0.00
4.18
2479
2614
1.279539
CTTTGCACGCTCGCTTTCA
59.720
52.632
0.00
0.00
0.00
2.69
2511
2647
6.896021
ACAGTGAGTAACTTTCTAGCTACA
57.104
37.500
0.00
0.00
36.83
2.74
2609
2745
5.104109
TGGTTGGTTAGGCTATAATGCTTCT
60.104
40.000
0.00
0.00
0.00
2.85
2674
2812
4.860802
ATGGTGGGAATATGTGAGTGAA
57.139
40.909
0.00
0.00
0.00
3.18
2677
2815
6.299141
GTGATAATGGTGGGAATATGTGAGT
58.701
40.000
0.00
0.00
0.00
3.41
2709
2847
9.601810
GGGAAAAATCAGGATTAATATAAGGGT
57.398
33.333
0.00
0.00
0.00
4.34
2713
2851
9.653516
TGCTGGGAAAAATCAGGATTAATATAA
57.346
29.630
0.00
0.00
0.00
0.98
2714
2852
9.300681
CTGCTGGGAAAAATCAGGATTAATATA
57.699
33.333
0.00
0.00
31.25
0.86
2715
2853
7.256083
GCTGCTGGGAAAAATCAGGATTAATAT
60.256
37.037
0.00
0.00
31.25
1.28
2716
2854
6.040842
GCTGCTGGGAAAAATCAGGATTAATA
59.959
38.462
0.00
0.00
31.25
0.98
2717
2855
5.163374
GCTGCTGGGAAAAATCAGGATTAAT
60.163
40.000
0.00
0.00
31.25
1.40
2743
2881
3.126001
AGTAAAACTGCTACTGCTGCA
57.874
42.857
0.88
0.88
41.07
4.41
2784
2927
1.504900
CGATCCGTCCTGTCAACGA
59.495
57.895
0.00
0.00
42.62
3.85
2785
2928
2.158959
GCGATCCGTCCTGTCAACG
61.159
63.158
0.00
0.00
39.78
4.10
2845
3006
6.668645
TCCAGGCAAATACATGTAAGGTAAT
58.331
36.000
10.14
0.00
36.33
1.89
2846
3007
6.068461
TCCAGGCAAATACATGTAAGGTAA
57.932
37.500
10.14
0.00
36.33
2.85
2847
3008
5.702065
TCCAGGCAAATACATGTAAGGTA
57.298
39.130
10.14
0.00
37.57
3.08
2848
3009
4.584638
TCCAGGCAAATACATGTAAGGT
57.415
40.909
10.14
0.00
32.53
3.50
2849
3010
6.469782
AAATCCAGGCAAATACATGTAAGG
57.530
37.500
10.14
3.68
0.00
2.69
2985
3152
0.111832
AGGCGGAATCATGCATGGAT
59.888
50.000
25.97
15.15
0.00
3.41
3055
3226
2.032620
AGTAGCTACCCAACGATCTGG
58.967
52.381
20.31
0.00
36.10
3.86
3074
3245
3.764434
TCACTTGCAGAACTACCTAGGAG
59.236
47.826
17.98
11.09
0.00
3.69
3075
3246
3.764434
CTCACTTGCAGAACTACCTAGGA
59.236
47.826
17.98
0.00
0.00
2.94
3076
3247
3.677424
GCTCACTTGCAGAACTACCTAGG
60.677
52.174
7.41
7.41
0.00
3.02
3146
3317
1.468506
GCATCCATCCATGCCATGCA
61.469
55.000
0.00
0.00
43.03
3.96
3269
3457
3.866582
GTCCCCCATCTCCCAGCG
61.867
72.222
0.00
0.00
0.00
5.18
3327
3519
1.229984
CCTCCCCTTCTTCCCTGGT
60.230
63.158
0.00
0.00
0.00
4.00
3355
3548
0.324830
GGCAGAGGTAGGGAGACAGT
60.325
60.000
0.00
0.00
0.00
3.55
3414
3607
7.931407
ACTAATCATTCACGCATAGGTTAATCA
59.069
33.333
0.00
0.00
0.00
2.57
3424
3617
6.146837
GCTCTAATCACTAATCATTCACGCAT
59.853
38.462
0.00
0.00
0.00
4.73
3444
3637
0.393402
TAGTTCAGACGGCCGCTCTA
60.393
55.000
28.58
16.78
0.00
2.43
3449
3642
1.504359
TTGTTTAGTTCAGACGGCCG
58.496
50.000
26.86
26.86
0.00
6.13
3450
3643
2.350484
GCTTTGTTTAGTTCAGACGGCC
60.350
50.000
0.00
0.00
0.00
6.13
3451
3644
2.661979
CGCTTTGTTTAGTTCAGACGGC
60.662
50.000
0.00
0.00
0.00
5.68
3452
3645
2.661979
GCGCTTTGTTTAGTTCAGACGG
60.662
50.000
0.00
0.00
0.00
4.79
3455
3648
1.529438
CGGCGCTTTGTTTAGTTCAGA
59.471
47.619
7.64
0.00
0.00
3.27
3458
3651
0.237498
AGCGGCGCTTTGTTTAGTTC
59.763
50.000
31.35
0.00
33.89
3.01
3480
3673
3.086600
CAGACCCAGCTCCCCTCC
61.087
72.222
0.00
0.00
0.00
4.30
3481
3674
2.905676
ATCCAGACCCAGCTCCCCTC
62.906
65.000
0.00
0.00
0.00
4.30
3482
3675
2.905676
GATCCAGACCCAGCTCCCCT
62.906
65.000
0.00
0.00
0.00
4.79
3483
3676
2.367512
ATCCAGACCCAGCTCCCC
60.368
66.667
0.00
0.00
0.00
4.81
3484
3677
2.447714
GGATCCAGACCCAGCTCCC
61.448
68.421
6.95
0.00
0.00
4.30
3485
3678
1.059006
ATGGATCCAGACCCAGCTCC
61.059
60.000
21.33
0.00
35.67
4.70
3486
3679
0.108207
CATGGATCCAGACCCAGCTC
59.892
60.000
21.33
0.00
35.67
4.09
3487
3680
1.351080
CCATGGATCCAGACCCAGCT
61.351
60.000
21.33
0.00
35.67
4.24
3488
3681
1.150081
CCATGGATCCAGACCCAGC
59.850
63.158
21.33
0.00
35.67
4.85
3489
3682
1.150081
GCCATGGATCCAGACCCAG
59.850
63.158
21.33
5.90
35.67
4.45
3490
3683
1.619057
TGCCATGGATCCAGACCCA
60.619
57.895
21.33
11.35
36.79
4.51
3491
3684
1.152881
GTGCCATGGATCCAGACCC
60.153
63.158
21.33
8.86
0.00
4.46
3492
3685
0.184451
ATGTGCCATGGATCCAGACC
59.816
55.000
21.33
10.64
0.00
3.85
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.