Multiple sequence alignment - TraesCS3B01G451100
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
TraesCS3B01G451100
chr3B
100.000
3329
0
0
1
3329
691460353
691457025
0.000000e+00
6148.0
1
TraesCS3B01G451100
chr3B
91.039
279
13
6
167
434
691511756
691511479
1.890000e-97
366.0
2
TraesCS3B01G451100
chr3D
90.227
2957
136
52
487
3329
524201015
524203932
0.000000e+00
3718.0
3
TraesCS3B01G451100
chr3D
91.018
334
10
7
157
479
524197775
524198099
1.830000e-117
433.0
4
TraesCS3B01G451100
chr3A
90.521
2226
104
40
1183
3329
658843560
658841363
0.000000e+00
2843.0
5
TraesCS3B01G451100
chr3A
89.091
275
12
10
54
311
658845063
658844790
3.200000e-85
326.0
6
TraesCS3B01G451100
chr3A
79.276
497
32
34
486
954
658844623
658844170
7.030000e-72
281.0
7
TraesCS3B01G451100
chr3A
91.736
121
7
2
1026
1143
658843754
658843634
7.390000e-37
165.0
8
TraesCS3B01G451100
chr3A
94.595
37
2
0
946
982
658844161
658844125
1.290000e-04
58.4
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
TraesCS3B01G451100
chr3B
691457025
691460353
3328
True
6148.00
6148
100.0000
1
3329
1
chr3B.!!$R1
3328
1
TraesCS3B01G451100
chr3D
524197775
524203932
6157
False
2075.50
3718
90.6225
157
3329
2
chr3D.!!$F1
3172
2
TraesCS3B01G451100
chr3A
658841363
658845063
3700
True
734.68
2843
89.0438
54
3329
5
chr3A.!!$R1
3275
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
671
3647
0.110678
CATCAGCCATGGCCTCTCAT
59.889
55.0
33.14
14.63
43.17
2.9
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
2529
6003
0.833949
CTCTTAGCTGGAGTTCCCCC
59.166
60.0
0.0
0.0
34.29
5.4
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
32
33
2.351777
GGGGGTCTTGTCCAAAAGC
58.648
57.895
0.00
0.00
0.00
3.51
33
34
1.185618
GGGGGTCTTGTCCAAAAGCC
61.186
60.000
0.00
0.00
0.00
4.35
34
35
1.185618
GGGGTCTTGTCCAAAAGCCC
61.186
60.000
4.95
4.95
40.21
5.19
35
36
0.469144
GGGTCTTGTCCAAAAGCCCA
60.469
55.000
9.94
0.00
40.44
5.36
36
37
0.961753
GGTCTTGTCCAAAAGCCCAG
59.038
55.000
0.00
0.00
0.00
4.45
37
38
1.692411
GTCTTGTCCAAAAGCCCAGT
58.308
50.000
0.00
0.00
0.00
4.00
38
39
2.031870
GTCTTGTCCAAAAGCCCAGTT
58.968
47.619
0.00
0.00
0.00
3.16
39
40
2.031120
TCTTGTCCAAAAGCCCAGTTG
58.969
47.619
0.00
0.00
0.00
3.16
40
41
1.756538
CTTGTCCAAAAGCCCAGTTGT
59.243
47.619
0.00
0.00
0.00
3.32
41
42
1.110442
TGTCCAAAAGCCCAGTTGTG
58.890
50.000
0.00
0.00
0.00
3.33
42
43
0.249447
GTCCAAAAGCCCAGTTGTGC
60.249
55.000
0.00
0.00
0.00
4.57
43
44
1.069596
CCAAAAGCCCAGTTGTGCC
59.930
57.895
0.00
0.00
0.00
5.01
44
45
1.069596
CAAAAGCCCAGTTGTGCCC
59.930
57.895
0.00
0.00
0.00
5.36
45
46
2.140138
AAAAGCCCAGTTGTGCCCC
61.140
57.895
0.00
0.00
0.00
5.80
46
47
2.887738
AAAAGCCCAGTTGTGCCCCA
62.888
55.000
0.00
0.00
0.00
4.96
47
48
2.677968
AAAGCCCAGTTGTGCCCCAT
62.678
55.000
0.00
0.00
0.00
4.00
48
49
2.604382
GCCCAGTTGTGCCCCATT
60.604
61.111
0.00
0.00
0.00
3.16
49
50
2.946346
GCCCAGTTGTGCCCCATTG
61.946
63.158
0.00
0.00
0.00
2.82
50
51
1.228831
CCCAGTTGTGCCCCATTGA
60.229
57.895
0.00
0.00
0.00
2.57
51
52
1.535204
CCCAGTTGTGCCCCATTGAC
61.535
60.000
0.00
0.00
0.00
3.18
52
53
0.540365
CCAGTTGTGCCCCATTGACT
60.540
55.000
0.00
0.00
0.00
3.41
82
83
1.760613
TCTCACGACCAAGTGTTCCTT
59.239
47.619
0.00
0.00
42.40
3.36
94
95
5.229423
CAAGTGTTCCTTTCTCTCTCTCTG
58.771
45.833
0.00
0.00
0.00
3.35
95
96
4.735369
AGTGTTCCTTTCTCTCTCTCTGA
58.265
43.478
0.00
0.00
0.00
3.27
98
102
3.094484
TCCTTTCTCTCTCTCTGACCC
57.906
52.381
0.00
0.00
0.00
4.46
127
131
1.630369
TGGCCAGATTCTGCAGTTAGT
59.370
47.619
14.67
0.00
0.00
2.24
131
135
2.421424
CCAGATTCTGCAGTTAGTTGCC
59.579
50.000
14.67
0.00
43.43
4.52
132
136
3.341823
CAGATTCTGCAGTTAGTTGCCT
58.658
45.455
14.67
0.00
43.43
4.75
133
137
3.126514
CAGATTCTGCAGTTAGTTGCCTG
59.873
47.826
14.67
7.28
43.43
4.85
139
143
0.239347
CAGTTAGTTGCCTGCAGTGC
59.761
55.000
13.81
15.86
0.00
4.40
150
159
1.135199
CCTGCAGTGCACATTTCATCC
60.135
52.381
21.04
0.00
33.79
3.51
151
160
1.542472
CTGCAGTGCACATTTCATCCA
59.458
47.619
21.04
2.96
33.79
3.41
152
161
2.165641
CTGCAGTGCACATTTCATCCAT
59.834
45.455
21.04
0.00
33.79
3.41
153
162
3.354467
TGCAGTGCACATTTCATCCATA
58.646
40.909
21.04
0.00
31.71
2.74
154
163
3.955551
TGCAGTGCACATTTCATCCATAT
59.044
39.130
21.04
0.00
31.71
1.78
155
164
5.131784
TGCAGTGCACATTTCATCCATATA
58.868
37.500
21.04
0.00
31.71
0.86
223
241
1.002544
AGTCCAGTGAGTTTAGCCTGC
59.997
52.381
0.00
0.00
0.00
4.85
266
284
8.199449
TCCGATACAGTTAATTAACTAACCAGG
58.801
37.037
26.38
23.95
44.19
4.45
385
432
6.672266
TTTAGGAGGAGCATATTCGATCTT
57.328
37.500
0.00
0.00
0.00
2.40
386
433
4.533919
AGGAGGAGCATATTCGATCTTG
57.466
45.455
0.00
0.00
0.00
3.02
388
435
4.346418
AGGAGGAGCATATTCGATCTTGTT
59.654
41.667
0.00
0.00
0.00
2.83
389
436
4.450419
GGAGGAGCATATTCGATCTTGTTG
59.550
45.833
0.00
0.00
0.00
3.33
390
437
3.812053
AGGAGCATATTCGATCTTGTTGC
59.188
43.478
0.00
0.00
0.00
4.17
391
438
3.812053
GGAGCATATTCGATCTTGTTGCT
59.188
43.478
6.71
6.71
41.32
3.91
392
439
4.319333
GGAGCATATTCGATCTTGTTGCTG
60.319
45.833
10.48
0.00
38.93
4.41
393
440
3.562973
AGCATATTCGATCTTGTTGCTGG
59.437
43.478
6.32
0.00
37.55
4.85
394
441
3.851105
GCATATTCGATCTTGTTGCTGGC
60.851
47.826
0.00
0.00
0.00
4.85
395
442
2.119801
ATTCGATCTTGTTGCTGGCT
57.880
45.000
0.00
0.00
0.00
4.75
431
478
1.081892
CTCGATCAAGTGGGCAACAG
58.918
55.000
0.00
0.00
39.74
3.16
473
525
2.237066
GCAAGGTGTTTGGCGCAAC
61.237
57.895
10.83
6.71
37.26
4.17
479
531
0.865639
GTGTTTGGCGCAACACTCAC
60.866
55.000
27.31
16.46
0.00
3.51
481
533
0.941542
GTTTGGCGCAACACTCACTA
59.058
50.000
10.83
0.00
0.00
2.74
482
534
1.535462
GTTTGGCGCAACACTCACTAT
59.465
47.619
10.83
0.00
0.00
2.12
483
535
1.438651
TTGGCGCAACACTCACTATC
58.561
50.000
10.83
0.00
0.00
2.08
527
3491
2.442643
CACATCCCCACATGCCCC
60.443
66.667
0.00
0.00
0.00
5.80
537
3501
2.836360
CATGCCCCTCCATGTGCC
60.836
66.667
0.00
0.00
38.19
5.01
538
3502
3.349304
ATGCCCCTCCATGTGCCA
61.349
61.111
0.00
0.00
0.00
4.92
539
3503
2.933617
ATGCCCCTCCATGTGCCAA
61.934
57.895
0.00
0.00
0.00
4.52
637
3601
1.586541
CCGAGCTCACTGCACACTA
59.413
57.895
15.40
0.00
45.94
2.74
639
3603
0.242286
CGAGCTCACTGCACACTACT
59.758
55.000
15.40
0.00
45.94
2.57
641
3605
2.095212
CGAGCTCACTGCACACTACTTA
60.095
50.000
15.40
0.00
45.94
2.24
642
3606
3.246619
GAGCTCACTGCACACTACTTAC
58.753
50.000
9.40
0.00
45.94
2.34
643
3607
2.028930
AGCTCACTGCACACTACTTACC
60.029
50.000
0.00
0.00
45.94
2.85
644
3608
2.028930
GCTCACTGCACACTACTTACCT
60.029
50.000
0.00
0.00
42.31
3.08
646
3610
3.227614
TCACTGCACACTACTTACCTGA
58.772
45.455
0.00
0.00
0.00
3.86
647
3611
3.255888
TCACTGCACACTACTTACCTGAG
59.744
47.826
0.00
0.00
0.00
3.35
651
3615
2.417515
GCACACTACTTACCTGAGGAGC
60.418
54.545
4.99
0.00
30.20
4.70
670
3646
1.530283
CATCAGCCATGGCCTCTCA
59.470
57.895
33.14
12.89
43.17
3.27
671
3647
0.110678
CATCAGCCATGGCCTCTCAT
59.889
55.000
33.14
14.63
43.17
2.90
672
3648
0.400975
ATCAGCCATGGCCTCTCATC
59.599
55.000
33.14
3.07
43.17
2.92
678
3654
0.749049
CATGGCCTCTCATCTCGTCA
59.251
55.000
3.32
0.00
0.00
4.35
681
3657
1.137675
TGGCCTCTCATCTCGTCAATG
59.862
52.381
3.32
0.00
0.00
2.82
703
3705
0.675083
CATGGTGAAAGTTGGCAGCA
59.325
50.000
3.63
11.70
45.20
4.41
711
3713
4.331168
GTGAAAGTTGGCAGCATAGTAGAG
59.669
45.833
3.63
0.00
0.00
2.43
712
3714
2.611225
AGTTGGCAGCATAGTAGAGC
57.389
50.000
3.63
0.00
0.00
4.09
714
3716
1.936547
GTTGGCAGCATAGTAGAGCAC
59.063
52.381
0.00
0.00
0.00
4.40
716
3718
1.410517
TGGCAGCATAGTAGAGCACTC
59.589
52.381
0.00
0.00
38.80
3.51
717
3719
1.270041
GGCAGCATAGTAGAGCACTCC
60.270
57.143
0.00
0.00
38.80
3.85
718
3720
1.601663
GCAGCATAGTAGAGCACTCCG
60.602
57.143
0.00
0.00
38.80
4.63
719
3721
1.678627
CAGCATAGTAGAGCACTCCGT
59.321
52.381
0.00
0.00
38.80
4.69
720
3722
2.879026
CAGCATAGTAGAGCACTCCGTA
59.121
50.000
0.00
0.00
38.80
4.02
721
3723
3.058570
CAGCATAGTAGAGCACTCCGTAG
60.059
52.174
0.00
0.00
38.80
3.51
722
3724
2.879646
GCATAGTAGAGCACTCCGTAGT
59.120
50.000
0.00
0.00
38.80
2.73
723
3725
4.063689
GCATAGTAGAGCACTCCGTAGTA
58.936
47.826
0.00
0.00
38.80
1.82
724
3726
4.152759
GCATAGTAGAGCACTCCGTAGTAG
59.847
50.000
0.00
0.00
38.80
2.57
725
3727
5.539979
CATAGTAGAGCACTCCGTAGTAGA
58.460
45.833
0.00
0.00
38.80
2.59
726
3728
4.484537
AGTAGAGCACTCCGTAGTAGAA
57.515
45.455
0.00
0.00
33.48
2.10
727
3729
4.841422
AGTAGAGCACTCCGTAGTAGAAA
58.159
43.478
0.00
0.00
33.48
2.52
728
3730
5.251764
AGTAGAGCACTCCGTAGTAGAAAA
58.748
41.667
0.00
0.00
33.48
2.29
729
3731
5.709164
AGTAGAGCACTCCGTAGTAGAAAAA
59.291
40.000
0.00
0.00
33.48
1.94
730
3732
5.662674
AGAGCACTCCGTAGTAGAAAAAT
57.337
39.130
0.00
0.00
33.48
1.82
731
3733
5.411781
AGAGCACTCCGTAGTAGAAAAATG
58.588
41.667
0.00
0.00
33.48
2.32
732
3734
5.185249
AGAGCACTCCGTAGTAGAAAAATGA
59.815
40.000
0.00
0.00
33.48
2.57
733
3735
5.790593
AGCACTCCGTAGTAGAAAAATGAA
58.209
37.500
0.00
0.00
33.48
2.57
739
3741
9.333724
ACTCCGTAGTAGAAAAATGAAGAAAAA
57.666
29.630
0.00
0.00
32.84
1.94
798
3803
1.441729
CGCGGAGGAATCAAGGCTA
59.558
57.895
0.00
0.00
0.00
3.93
861
3871
2.476854
GCATTTACTCGCTCCAAGCAAG
60.477
50.000
0.00
0.00
42.58
4.01
862
3872
1.156736
TTTACTCGCTCCAAGCAAGC
58.843
50.000
0.00
0.00
42.58
4.01
905
3941
1.320507
TCCTGGTTTAAAACGCCACC
58.679
50.000
0.00
0.00
0.00
4.61
1137
4517
0.394192
TCCTTGCTAGCCCATCATCG
59.606
55.000
13.29
0.00
0.00
3.84
1143
4523
1.674221
GCTAGCCCATCATCGATCCAC
60.674
57.143
2.29
0.00
0.00
4.02
1179
4559
2.735663
GTGTCTCTCAGTTCGTCGTAGA
59.264
50.000
0.00
0.00
0.00
2.59
1377
4799
0.389948
CGTGGTGTAGGAACCTGCTC
60.390
60.000
10.01
6.50
41.16
4.26
1527
4958
1.001764
CAAGGTGGAGATGCAGCCA
60.002
57.895
0.00
0.00
0.00
4.75
1662
5093
1.226211
CTACTACGTGGCGGTCGTG
60.226
63.158
0.00
5.49
41.62
4.35
1683
5114
4.767255
GGCGAGGAGGTGGTGCTG
62.767
72.222
0.00
0.00
0.00
4.41
1854
5285
0.389687
TGCACGACATCAGCATCGAA
60.390
50.000
0.00
0.00
40.86
3.71
2093
5539
4.047059
GCCGTCACCCGACTTCGA
62.047
66.667
0.00
0.00
43.02
3.71
2189
5639
1.810151
GCTCGCTAGCTAGCTAGATGT
59.190
52.381
42.59
15.68
46.56
3.06
2214
5664
9.410556
GTTCTTACCTACATTCGTTTGTTACTA
57.589
33.333
0.00
0.00
0.00
1.82
2259
5709
4.787260
TGATGGACATTTCACCATGTTG
57.213
40.909
0.00
0.00
45.41
3.33
2291
5741
9.740239
AACATACTACTACCATGTAATGTAACG
57.260
33.333
0.00
0.00
44.81
3.18
2297
5747
4.875544
ACCATGTAATGTAACGATGTGC
57.124
40.909
0.00
0.00
44.81
4.57
2395
5863
1.108776
GTGCATGCACATGGAGGATT
58.891
50.000
39.12
0.00
45.53
3.01
2398
5866
2.025344
GCATGCACATGGAGGATTGGA
61.025
52.381
14.21
0.00
39.16
3.53
2400
5868
0.394762
TGCACATGGAGGATTGGAGC
60.395
55.000
0.00
0.00
0.00
4.70
2529
6003
5.217393
CAATCAATCATGCTGGTTTATCCG
58.783
41.667
0.00
0.00
39.52
4.18
2569
6051
0.790993
ACTGGTCCCTCCTAACTCCA
59.209
55.000
0.00
0.00
37.07
3.86
2724
6227
5.401531
TGGACAAGGACACAAGATACTAC
57.598
43.478
0.00
0.00
0.00
2.73
2725
6228
5.084519
TGGACAAGGACACAAGATACTACT
58.915
41.667
0.00
0.00
0.00
2.57
2726
6229
6.250711
TGGACAAGGACACAAGATACTACTA
58.749
40.000
0.00
0.00
0.00
1.82
2729
6232
7.159322
ACAAGGACACAAGATACTACTAGTG
57.841
40.000
5.39
0.00
0.00
2.74
2741
6247
8.693120
AGATACTACTAGTGCAATAGCTGTAA
57.307
34.615
20.52
3.97
42.74
2.41
2811
6317
3.194861
GTTTTTCACCCAGGTTTTCAGC
58.805
45.455
0.00
0.00
0.00
4.26
2869
6382
3.204526
CAAGTTGAGATCTCAGGGATGC
58.795
50.000
23.92
11.88
41.13
3.91
2893
6407
3.089284
ACTGGGCCAGTTTTAATAGTGC
58.911
45.455
33.18
0.00
42.59
4.40
2923
6450
4.128925
TGCAGATGAAAGGCTACTACTG
57.871
45.455
0.00
0.00
0.00
2.74
2940
6467
7.911205
GCTACTACTGTGTTTCATACAGACTAG
59.089
40.741
11.65
6.67
46.52
2.57
2943
6470
8.298140
ACTACTGTGTTTCATACAGACTAGAAC
58.702
37.037
11.65
0.00
46.52
3.01
2946
6473
8.150945
ACTGTGTTTCATACAGACTAGAACAAT
58.849
33.333
11.65
0.00
46.52
2.71
2947
6474
8.310406
TGTGTTTCATACAGACTAGAACAATG
57.690
34.615
0.00
0.00
37.45
2.82
2949
6476
9.155975
GTGTTTCATACAGACTAGAACAATGAT
57.844
33.333
0.00
0.00
37.45
2.45
2964
6491
8.483307
AGAACAATGATAATTCAAAATGGTGC
57.517
30.769
0.00
0.00
34.96
5.01
2965
6492
7.550196
AGAACAATGATAATTCAAAATGGTGCC
59.450
33.333
0.00
0.00
34.96
5.01
2966
6493
6.114767
ACAATGATAATTCAAAATGGTGCCC
58.885
36.000
0.00
0.00
34.96
5.36
2967
6494
5.954153
ATGATAATTCAAAATGGTGCCCA
57.046
34.783
0.00
0.00
34.74
5.36
2968
6495
5.341872
TGATAATTCAAAATGGTGCCCAG
57.658
39.130
0.41
0.00
36.75
4.45
2970
6497
2.028561
ATTCAAAATGGTGCCCAGGT
57.971
45.000
0.41
0.00
36.75
4.00
3095
6624
0.396139
GCTCATGCCTTCCCCATTGA
60.396
55.000
0.00
0.00
0.00
2.57
3096
6625
1.756690
GCTCATGCCTTCCCCATTGAT
60.757
52.381
0.00
0.00
0.00
2.57
3103
6632
2.101917
GCCTTCCCCATTGATTGACATG
59.898
50.000
0.00
0.00
0.00
3.21
3125
6654
4.040217
TGCATTGTTTAAACCAGGAATGCT
59.960
37.500
32.23
5.17
41.40
3.79
3216
6745
0.965439
GCATCCTACGCTCTCCTCAT
59.035
55.000
0.00
0.00
0.00
2.90
3225
6754
2.295909
ACGCTCTCCTCATGATTCTAGC
59.704
50.000
0.00
3.12
0.00
3.42
3298
6834
4.148174
GCGAACATGGAAAAGTAAACTTGC
59.852
41.667
0.00
0.00
36.12
4.01
3319
6855
2.609459
CTGACCAAACAGCCGATATGAC
59.391
50.000
0.00
0.00
0.00
3.06
3324
6860
3.303329
CCAAACAGCCGATATGACGAATG
60.303
47.826
0.00
0.00
35.09
2.67
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
14
15
1.185618
GGCTTTTGGACAAGACCCCC
61.186
60.000
0.00
0.00
0.00
5.40
15
16
1.185618
GGGCTTTTGGACAAGACCCC
61.186
60.000
0.00
0.45
45.48
4.95
16
17
2.351777
GGGCTTTTGGACAAGACCC
58.648
57.895
0.00
4.15
45.48
4.46
18
19
1.692411
ACTGGGCTTTTGGACAAGAC
58.308
50.000
0.00
0.00
0.00
3.01
19
20
2.031120
CAACTGGGCTTTTGGACAAGA
58.969
47.619
0.00
0.00
0.00
3.02
20
21
1.756538
ACAACTGGGCTTTTGGACAAG
59.243
47.619
0.00
0.00
0.00
3.16
21
22
1.480137
CACAACTGGGCTTTTGGACAA
59.520
47.619
0.00
0.00
0.00
3.18
22
23
1.110442
CACAACTGGGCTTTTGGACA
58.890
50.000
0.00
0.00
0.00
4.02
23
24
0.249447
GCACAACTGGGCTTTTGGAC
60.249
55.000
0.00
0.00
42.27
4.02
24
25
1.398958
GGCACAACTGGGCTTTTGGA
61.399
55.000
3.57
0.00
45.56
3.53
25
26
1.069596
GGCACAACTGGGCTTTTGG
59.930
57.895
3.57
0.00
45.56
3.28
26
27
1.069596
GGGCACAACTGGGCTTTTG
59.930
57.895
3.57
0.00
45.56
2.44
27
28
2.140138
GGGGCACAACTGGGCTTTT
61.140
57.895
3.57
0.00
45.56
2.27
28
29
2.524148
GGGGCACAACTGGGCTTT
60.524
61.111
3.57
0.00
45.56
3.51
29
30
2.677968
AATGGGGCACAACTGGGCTT
62.678
55.000
3.57
0.00
45.56
4.35
30
31
3.164610
AATGGGGCACAACTGGGCT
62.165
57.895
3.57
0.00
45.56
5.19
31
32
2.604382
AATGGGGCACAACTGGGC
60.604
61.111
0.00
0.00
45.53
5.36
32
33
1.228831
TCAATGGGGCACAACTGGG
60.229
57.895
0.00
0.00
0.00
4.45
33
34
0.540365
AGTCAATGGGGCACAACTGG
60.540
55.000
0.00
0.00
0.00
4.00
34
35
0.599558
CAGTCAATGGGGCACAACTG
59.400
55.000
5.72
5.72
0.00
3.16
35
36
1.181098
GCAGTCAATGGGGCACAACT
61.181
55.000
0.00
0.00
0.00
3.16
36
37
1.181098
AGCAGTCAATGGGGCACAAC
61.181
55.000
0.00
0.00
0.00
3.32
37
38
0.895100
GAGCAGTCAATGGGGCACAA
60.895
55.000
0.00
0.00
0.00
3.33
38
39
1.303561
GAGCAGTCAATGGGGCACA
60.304
57.895
0.00
0.00
0.00
4.57
39
40
0.610232
AAGAGCAGTCAATGGGGCAC
60.610
55.000
0.00
0.00
0.00
5.01
40
41
0.112995
AAAGAGCAGTCAATGGGGCA
59.887
50.000
0.00
0.00
0.00
5.36
41
42
1.067354
CAAAAGAGCAGTCAATGGGGC
60.067
52.381
0.00
0.00
0.00
5.80
42
43
2.229784
GACAAAAGAGCAGTCAATGGGG
59.770
50.000
0.00
0.00
32.68
4.96
43
44
3.152341
AGACAAAAGAGCAGTCAATGGG
58.848
45.455
0.00
0.00
34.80
4.00
44
45
3.817084
TGAGACAAAAGAGCAGTCAATGG
59.183
43.478
0.00
0.00
34.80
3.16
45
46
4.610007
CGTGAGACAAAAGAGCAGTCAATG
60.610
45.833
0.00
0.00
34.80
2.82
46
47
3.496130
CGTGAGACAAAAGAGCAGTCAAT
59.504
43.478
0.00
0.00
34.80
2.57
47
48
2.866156
CGTGAGACAAAAGAGCAGTCAA
59.134
45.455
0.00
0.00
34.80
3.18
48
49
2.100749
TCGTGAGACAAAAGAGCAGTCA
59.899
45.455
0.00
0.00
34.80
3.41
49
50
2.743938
TCGTGAGACAAAAGAGCAGTC
58.256
47.619
0.00
0.00
33.31
3.51
50
51
2.890808
TCGTGAGACAAAAGAGCAGT
57.109
45.000
0.00
0.00
33.31
4.40
82
83
1.996291
TCTGGGGTCAGAGAGAGAGAA
59.004
52.381
0.00
0.00
44.39
2.87
94
95
0.897621
CTGGCCATTTTTCTGGGGTC
59.102
55.000
5.51
0.00
36.75
4.46
95
96
0.486879
TCTGGCCATTTTTCTGGGGT
59.513
50.000
5.51
0.00
36.75
4.95
98
102
3.677976
GCAGAATCTGGCCATTTTTCTGG
60.678
47.826
32.27
22.30
42.13
3.86
127
131
0.032403
GAAATGTGCACTGCAGGCAA
59.968
50.000
25.17
17.50
43.91
4.52
131
135
1.542472
TGGATGAAATGTGCACTGCAG
59.458
47.619
19.41
13.48
40.08
4.41
132
136
1.618487
TGGATGAAATGTGCACTGCA
58.382
45.000
19.41
10.80
35.60
4.41
133
137
2.953466
ATGGATGAAATGTGCACTGC
57.047
45.000
19.41
1.93
0.00
4.40
134
138
6.016527
AGCTTATATGGATGAAATGTGCACTG
60.017
38.462
19.41
0.00
0.00
3.66
135
139
6.016527
CAGCTTATATGGATGAAATGTGCACT
60.017
38.462
19.41
0.00
0.00
4.40
136
140
6.147581
CAGCTTATATGGATGAAATGTGCAC
58.852
40.000
10.75
10.75
0.00
4.57
137
141
5.278610
GCAGCTTATATGGATGAAATGTGCA
60.279
40.000
0.00
0.00
0.00
4.57
138
142
5.159209
GCAGCTTATATGGATGAAATGTGC
58.841
41.667
0.00
0.00
0.00
4.57
139
143
6.147581
GTGCAGCTTATATGGATGAAATGTG
58.852
40.000
0.00
0.00
0.00
3.21
223
241
0.249489
GGATTCCGTCAGGTGGATCG
60.249
60.000
0.00
0.00
39.05
3.69
252
270
5.297799
AGGATCCTCCCTGGTTAGTTAATT
58.702
41.667
9.02
0.00
37.19
1.40
473
525
1.418334
CCTCTGGGGGATAGTGAGTG
58.582
60.000
0.00
0.00
0.00
3.51
479
531
0.400525
TTCTGGCCTCTGGGGGATAG
60.401
60.000
3.32
0.00
35.12
2.08
481
533
0.628668
ATTTCTGGCCTCTGGGGGAT
60.629
55.000
3.32
0.00
35.12
3.85
482
534
1.230281
ATTTCTGGCCTCTGGGGGA
60.230
57.895
3.32
0.00
35.12
4.81
483
535
1.228510
GATTTCTGGCCTCTGGGGG
59.771
63.158
3.32
0.00
35.12
5.40
527
3491
0.104120
CATGGCATTGGCACATGGAG
59.896
55.000
15.84
0.00
41.84
3.86
537
3501
1.687563
TGCTGGAGATCATGGCATTG
58.312
50.000
0.00
0.00
0.00
2.82
538
3502
2.239400
CATGCTGGAGATCATGGCATT
58.761
47.619
0.00
0.00
40.93
3.56
539
3503
1.145119
ACATGCTGGAGATCATGGCAT
59.855
47.619
0.00
0.00
43.11
4.40
595
3559
2.447765
TATCTTGGGGGCTCGGGG
60.448
66.667
0.00
0.00
0.00
5.73
596
3560
0.471211
TACTATCTTGGGGGCTCGGG
60.471
60.000
0.00
0.00
0.00
5.14
611
3575
1.471119
CAGTGAGCTCGGGGTTACTA
58.529
55.000
11.94
0.00
37.62
1.82
637
3601
2.114616
CTGATGGCTCCTCAGGTAAGT
58.885
52.381
0.00
0.00
37.15
2.24
639
3603
0.833287
GCTGATGGCTCCTCAGGTAA
59.167
55.000
12.12
0.00
40.40
2.85
641
3605
2.373707
GGCTGATGGCTCCTCAGGT
61.374
63.158
12.12
0.00
40.40
4.00
642
3606
1.706995
ATGGCTGATGGCTCCTCAGG
61.707
60.000
12.12
0.00
40.40
3.86
643
3607
0.535328
CATGGCTGATGGCTCCTCAG
60.535
60.000
7.61
7.61
42.47
3.35
644
3608
1.530283
CATGGCTGATGGCTCCTCA
59.470
57.895
0.00
0.00
41.46
3.86
646
3610
2.924640
CCATGGCTGATGGCTCCT
59.075
61.111
0.00
0.00
45.58
3.69
670
3646
2.169144
TCACCATGAGCATTGACGAGAT
59.831
45.455
0.00
0.00
0.00
2.75
671
3647
1.550072
TCACCATGAGCATTGACGAGA
59.450
47.619
0.00
0.00
0.00
4.04
672
3648
2.014335
TCACCATGAGCATTGACGAG
57.986
50.000
0.00
0.00
0.00
4.18
678
3654
2.028748
GCCAACTTTCACCATGAGCATT
60.029
45.455
0.00
0.00
0.00
3.56
681
3657
0.961019
TGCCAACTTTCACCATGAGC
59.039
50.000
0.00
0.00
0.00
4.26
703
3705
5.804944
TCTACTACGGAGTGCTCTACTAT
57.195
43.478
11.61
0.00
45.73
2.12
711
3713
5.867716
TCTTCATTTTTCTACTACGGAGTGC
59.132
40.000
11.61
0.00
45.73
4.40
712
3714
7.884816
TTCTTCATTTTTCTACTACGGAGTG
57.115
36.000
11.61
0.19
45.73
3.51
861
3871
4.838152
TCCTCCGCTTGCCATCGC
62.838
66.667
0.00
0.00
0.00
4.58
862
3872
2.125147
TTCCTCCGCTTGCCATCG
60.125
61.111
0.00
0.00
0.00
3.84
864
3874
0.393537
CTTCTTCCTCCGCTTGCCAT
60.394
55.000
0.00
0.00
0.00
4.40
865
3875
1.003355
CTTCTTCCTCCGCTTGCCA
60.003
57.895
0.00
0.00
0.00
4.92
866
3876
1.746991
CCTTCTTCCTCCGCTTGCC
60.747
63.158
0.00
0.00
0.00
4.52
1137
4517
2.230992
CGAGAGGATGGATGAGTGGATC
59.769
54.545
0.00
0.00
0.00
3.36
1143
4523
2.293122
GAGACACGAGAGGATGGATGAG
59.707
54.545
0.00
0.00
0.00
2.90
1179
4559
0.339859
TCCTGTCTGCCCCTCACTAT
59.660
55.000
0.00
0.00
0.00
2.12
1302
4724
2.803670
CGGTACACCAGCGTCACG
60.804
66.667
0.00
0.00
43.13
4.35
1365
4787
2.284331
TGGGCGAGCAGGTTCCTA
60.284
61.111
0.00
0.00
0.00
2.94
2079
5519
2.804090
GCGTCGAAGTCGGGTGAC
60.804
66.667
0.00
0.00
45.86
3.67
2101
5547
4.849329
GAACTCGTCGGCGGCGAT
62.849
66.667
37.15
24.07
37.74
4.58
2189
5639
9.410556
GTAGTAACAAACGAATGTAGGTAAGAA
57.589
33.333
0.00
0.00
32.02
2.52
2214
5664
1.447838
CGCTCTGTAATGTGGCGGT
60.448
57.895
0.00
0.00
41.77
5.68
2259
5709
5.661458
ACATGGTAGTAGTATGTTGCTCAC
58.339
41.667
0.00
0.00
31.38
3.51
2291
5741
1.471676
CCCCTCTTACACTCGCACATC
60.472
57.143
0.00
0.00
0.00
3.06
2297
5747
1.835494
TCACTCCCCTCTTACACTCG
58.165
55.000
0.00
0.00
0.00
4.18
2398
5866
3.696518
TATCCTGTGCCCCTCCGCT
62.697
63.158
0.00
0.00
0.00
5.52
2400
5868
1.749334
GACTATCCTGTGCCCCTCCG
61.749
65.000
0.00
0.00
0.00
4.63
2529
6003
0.833949
CTCTTAGCTGGAGTTCCCCC
59.166
60.000
0.00
0.00
34.29
5.40
2569
6051
7.713507
CAGTGTAGAGTAGAGTACTGCTAGATT
59.286
40.741
0.00
0.00
39.07
2.40
2724
6227
8.648557
TGAGTTAATTACAGCTATTGCACTAG
57.351
34.615
6.72
6.72
42.74
2.57
2725
6228
8.648557
CTGAGTTAATTACAGCTATTGCACTA
57.351
34.615
1.12
0.00
42.74
2.74
2726
6229
7.545362
CTGAGTTAATTACAGCTATTGCACT
57.455
36.000
1.12
0.00
42.74
4.40
2741
6247
7.921786
TTAACAATAGTGCAGCTGAGTTAAT
57.078
32.000
20.43
1.80
31.03
1.40
2754
6260
3.938963
ACCAGTCGCCATTAACAATAGTG
59.061
43.478
0.00
0.00
0.00
2.74
2755
6261
4.189231
GACCAGTCGCCATTAACAATAGT
58.811
43.478
0.00
0.00
0.00
2.12
2869
6382
1.937191
ATTAAAACTGGCCCAGTGGG
58.063
50.000
25.22
25.22
44.62
4.61
2893
6407
3.314635
GCCTTTCATCTGCATCTGTTAGG
59.685
47.826
0.00
1.20
0.00
2.69
2923
6450
8.534333
TCATTGTTCTAGTCTGTATGAAACAC
57.466
34.615
0.00
0.00
33.45
3.32
2940
6467
7.687445
GGCACCATTTTGAATTATCATTGTTC
58.313
34.615
0.00
0.00
34.96
3.18
2999
6528
4.371624
ACATGATTGACCTGTTCTCCAA
57.628
40.909
0.00
0.00
0.00
3.53
3095
6624
5.933463
CCTGGTTTAAACAATGCATGTCAAT
59.067
36.000
19.57
0.00
42.99
2.57
3096
6625
5.069648
TCCTGGTTTAAACAATGCATGTCAA
59.930
36.000
19.57
0.00
42.99
3.18
3103
6632
4.568956
AGCATTCCTGGTTTAAACAATGC
58.431
39.130
29.05
29.05
41.27
3.56
3172
6701
9.692749
GCTGTTGATTGCAAGTATACTAGTATA
57.307
33.333
17.03
17.03
34.01
1.47
3173
6702
8.204160
TGCTGTTGATTGCAAGTATACTAGTAT
58.796
33.333
19.07
19.07
36.15
2.12
3174
6703
7.552459
TGCTGTTGATTGCAAGTATACTAGTA
58.448
34.615
5.65
4.77
36.15
1.82
3225
6754
9.696917
GCAGTCCCCATTTTATTCTATTTTATG
57.303
33.333
0.00
0.00
0.00
1.90
3298
6834
2.609459
GTCATATCGGCTGTTTGGTCAG
59.391
50.000
0.00
0.00
38.35
3.51
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.