Multiple sequence alignment - TraesCS3A01G240200
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
TraesCS3A01G240200
chr3A
100.000
2624
0
0
1
2624
450953425
450950802
0.000000e+00
4846.0
1
TraesCS3A01G240200
chr3D
88.704
2222
88
60
1
2140
333285213
333283073
0.000000e+00
2562.0
2
TraesCS3A01G240200
chr3D
92.132
394
25
4
2137
2530
333283048
333282661
3.820000e-153
551.0
3
TraesCS3A01G240200
chr3D
93.684
95
6
0
2530
2624
333282614
333282520
2.720000e-30
143.0
4
TraesCS3A01G240200
chr3B
88.454
2174
128
53
33
2132
432335830
432333706
0.000000e+00
2510.0
5
TraesCS3A01G240200
chr3B
91.718
326
23
2
2137
2461
432333350
432333028
1.430000e-122
449.0
6
TraesCS3A01G240200
chr3B
94.792
96
4
1
2530
2624
432332830
432332735
5.850000e-32
148.0
7
TraesCS3A01G240200
chr3B
97.222
72
1
1
2459
2530
432332947
432332877
1.280000e-23
121.0
8
TraesCS3A01G240200
chr3B
100.000
46
0
0
1
46
432337703
432337658
4.650000e-13
86.1
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
TraesCS3A01G240200
chr3A
450950802
450953425
2623
True
4846.000000
4846
100.000000
1
2624
1
chr3A.!!$R1
2623
1
TraesCS3A01G240200
chr3D
333282520
333285213
2693
True
1085.333333
2562
91.506667
1
2624
3
chr3D.!!$R1
2623
2
TraesCS3A01G240200
chr3B
432332735
432337703
4968
True
662.820000
2510
94.437200
1
2624
5
chr3B.!!$R1
2623
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
312
2202
0.163146
GCAAGTGAACGAACGTAGCC
59.837
55.0
0.0
0.0
0.0
3.93
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
1795
3743
0.304705
CAACGCGCCATGGAAGTATC
59.695
55.0
18.4
0.0
0.0
2.24
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
129
1971
1.480954
AGCCTCGTCGTCCAATAATGT
59.519
47.619
0.00
0.00
0.00
2.71
138
1980
4.809426
GTCGTCCAATAATGTAACAGAGGG
59.191
45.833
0.00
0.00
0.00
4.30
139
1981
4.712829
TCGTCCAATAATGTAACAGAGGGA
59.287
41.667
0.00
0.00
0.00
4.20
140
1982
5.365605
TCGTCCAATAATGTAACAGAGGGAT
59.634
40.000
0.00
0.00
0.00
3.85
142
1984
5.765182
GTCCAATAATGTAACAGAGGGATGG
59.235
44.000
0.00
0.00
0.00
3.51
143
1985
5.431731
TCCAATAATGTAACAGAGGGATGGT
59.568
40.000
0.00
0.00
0.00
3.55
144
1986
5.765182
CCAATAATGTAACAGAGGGATGGTC
59.235
44.000
0.00
0.00
0.00
4.02
145
1987
6.409695
CCAATAATGTAACAGAGGGATGGTCT
60.410
42.308
0.00
0.00
0.00
3.85
147
1989
5.878406
AATGTAACAGAGGGATGGTCTAG
57.122
43.478
0.00
0.00
0.00
2.43
148
1990
4.603094
TGTAACAGAGGGATGGTCTAGA
57.397
45.455
0.00
0.00
0.00
2.43
149
1991
4.537751
TGTAACAGAGGGATGGTCTAGAG
58.462
47.826
0.00
0.00
0.00
2.43
150
1992
2.765689
ACAGAGGGATGGTCTAGAGG
57.234
55.000
0.00
0.00
0.00
3.69
151
1993
1.337118
CAGAGGGATGGTCTAGAGGC
58.663
60.000
0.00
0.00
0.00
4.70
192
2059
3.463329
AGAAGGCTAGGGCATTATTTGGA
59.537
43.478
0.00
0.00
42.73
3.53
193
2060
3.515602
AGGCTAGGGCATTATTTGGAG
57.484
47.619
0.00
0.00
40.87
3.86
194
2061
2.785857
AGGCTAGGGCATTATTTGGAGT
59.214
45.455
0.00
0.00
40.87
3.85
195
2062
3.205282
AGGCTAGGGCATTATTTGGAGTT
59.795
43.478
0.00
0.00
40.87
3.01
196
2063
3.319122
GGCTAGGGCATTATTTGGAGTTG
59.681
47.826
0.00
0.00
40.87
3.16
197
2064
3.319122
GCTAGGGCATTATTTGGAGTTGG
59.681
47.826
0.00
0.00
38.54
3.77
278
2165
1.739067
GCCTTTGAATGGCTCGTACT
58.261
50.000
14.17
0.00
46.38
2.73
279
2166
1.666189
GCCTTTGAATGGCTCGTACTC
59.334
52.381
14.17
0.00
46.38
2.59
280
2167
1.927174
CCTTTGAATGGCTCGTACTCG
59.073
52.381
0.00
0.00
38.55
4.18
281
2168
2.607187
CTTTGAATGGCTCGTACTCGT
58.393
47.619
0.00
0.00
38.33
4.18
282
2169
3.428452
CCTTTGAATGGCTCGTACTCGTA
60.428
47.826
0.00
0.00
38.33
3.43
285
2172
2.032290
TGAATGGCTCGTACTCGTATCG
60.032
50.000
0.00
0.00
38.33
2.92
287
2174
1.082235
GGCTCGTACTCGTATCGGC
60.082
63.158
0.00
0.00
38.33
5.54
310
2200
2.096909
CCAAGCAAGTGAACGAACGTAG
60.097
50.000
0.00
0.00
0.00
3.51
312
2202
0.163146
GCAAGTGAACGAACGTAGCC
59.837
55.000
0.00
0.00
0.00
3.93
473
2373
0.811616
CAGTAGCCAGACCGGATTGC
60.812
60.000
9.46
5.03
36.56
3.56
561
2474
2.066999
GGGAGCGTGGGGATTCTCT
61.067
63.158
0.00
0.00
0.00
3.10
565
2478
1.139853
GAGCGTGGGGATTCTCTTCAT
59.860
52.381
0.00
0.00
0.00
2.57
577
2490
6.803807
GGGATTCTCTTCATTTTTGAAACTCG
59.196
38.462
0.00
0.00
0.00
4.18
578
2491
6.306596
GGATTCTCTTCATTTTTGAAACTCGC
59.693
38.462
0.00
0.00
0.00
5.03
590
2503
0.668535
AAACTCGCCAGGCAGTTTTC
59.331
50.000
24.89
0.00
36.94
2.29
615
2528
0.744874
CTGCTTGGCTTGATCATGGG
59.255
55.000
10.35
0.00
0.00
4.00
623
2536
2.310538
GCTTGATCATGGGGTTTAGGG
58.689
52.381
10.35
0.00
0.00
3.53
633
2546
7.240390
TCATGGGGTTTAGGGGATTTATTAA
57.760
36.000
0.00
0.00
0.00
1.40
639
2552
5.537295
GGTTTAGGGGATTTATTAACGCCAT
59.463
40.000
0.00
0.00
38.75
4.40
640
2553
6.041182
GGTTTAGGGGATTTATTAACGCCATT
59.959
38.462
0.00
0.00
38.75
3.16
641
2554
7.418139
GGTTTAGGGGATTTATTAACGCCATTT
60.418
37.037
0.00
0.00
38.75
2.32
642
2555
5.529581
AGGGGATTTATTAACGCCATTTG
57.470
39.130
0.00
0.00
38.75
2.32
643
2556
4.959839
AGGGGATTTATTAACGCCATTTGT
59.040
37.500
0.00
0.00
38.75
2.83
644
2557
5.423931
AGGGGATTTATTAACGCCATTTGTT
59.576
36.000
0.00
0.00
38.75
2.83
645
2558
6.070481
AGGGGATTTATTAACGCCATTTGTTT
60.070
34.615
0.00
0.00
38.75
2.83
646
2559
6.596106
GGGGATTTATTAACGCCATTTGTTTT
59.404
34.615
0.00
0.00
36.78
2.43
647
2560
7.119992
GGGGATTTATTAACGCCATTTGTTTTT
59.880
33.333
0.00
0.00
36.78
1.94
668
2581
5.579384
TTTAACATAGTACACGCACACAC
57.421
39.130
0.00
0.00
0.00
3.82
669
2582
1.693467
ACATAGTACACGCACACACG
58.307
50.000
0.00
0.00
39.50
4.49
677
2590
1.300388
ACGCACACACGTCTTACCC
60.300
57.895
0.00
0.00
44.43
3.69
679
2592
1.670083
GCACACACGTCTTACCCCC
60.670
63.158
0.00
0.00
0.00
5.40
680
2593
2.055299
CACACACGTCTTACCCCCT
58.945
57.895
0.00
0.00
0.00
4.79
681
2594
0.320421
CACACACGTCTTACCCCCTG
60.320
60.000
0.00
0.00
0.00
4.45
682
2595
0.761702
ACACACGTCTTACCCCCTGT
60.762
55.000
0.00
0.00
0.00
4.00
683
2596
0.320421
CACACGTCTTACCCCCTGTG
60.320
60.000
0.00
0.00
0.00
3.66
684
2597
0.470456
ACACGTCTTACCCCCTGTGA
60.470
55.000
0.00
0.00
0.00
3.58
685
2598
0.682852
CACGTCTTACCCCCTGTGAA
59.317
55.000
0.00
0.00
0.00
3.18
686
2599
0.683412
ACGTCTTACCCCCTGTGAAC
59.317
55.000
0.00
0.00
0.00
3.18
687
2600
0.682852
CGTCTTACCCCCTGTGAACA
59.317
55.000
0.00
0.00
0.00
3.18
688
2601
1.278127
CGTCTTACCCCCTGTGAACAT
59.722
52.381
0.00
0.00
0.00
2.71
689
2602
2.711542
GTCTTACCCCCTGTGAACATG
58.288
52.381
0.00
0.00
0.00
3.21
691
2604
2.304761
TCTTACCCCCTGTGAACATGTC
59.695
50.000
0.00
0.00
0.00
3.06
694
2607
2.040544
CCCCTGTGAACATGTCCGC
61.041
63.158
0.00
0.00
0.00
5.54
715
2628
1.299468
GACTGAGCCGGCGTATCAG
60.299
63.158
31.73
31.73
44.81
2.90
716
2629
2.028190
CTGAGCCGGCGTATCAGG
59.972
66.667
28.05
14.62
37.41
3.86
719
2632
1.883084
GAGCCGGCGTATCAGGTTG
60.883
63.158
23.20
0.00
32.16
3.77
723
2636
1.539496
GCCGGCGTATCAGGTTGAATA
60.539
52.381
12.58
0.00
32.16
1.75
744
2676
4.976224
ATTAACGGGTATGCCAAACTTC
57.024
40.909
1.04
0.00
36.17
3.01
747
2679
1.807226
GGGTATGCCAAACTTCCGC
59.193
57.895
1.04
0.00
36.17
5.54
758
2690
4.403453
CCAAACTTCCGCTTTCTATTTCG
58.597
43.478
0.00
0.00
0.00
3.46
786
2718
2.094675
GCATTTACTGGCATGTGTCCT
58.905
47.619
0.00
0.00
0.00
3.85
847
2779
1.280746
CAGTTTGCTCGCCACTGTG
59.719
57.895
0.00
0.00
34.39
3.66
848
2780
2.050985
GTTTGCTCGCCACTGTGC
60.051
61.111
1.29
0.00
0.00
4.57
849
2781
2.515757
TTTGCTCGCCACTGTGCA
60.516
55.556
1.29
0.00
36.65
4.57
871
2803
4.496895
CAGCTCAATCGCCTTTTTATTTCG
59.503
41.667
0.00
0.00
0.00
3.46
927
2859
6.378582
CGTTTCAATTGCCACAAGTATTACT
58.621
36.000
0.00
0.00
0.00
2.24
928
2860
6.861055
CGTTTCAATTGCCACAAGTATTACTT
59.139
34.615
3.16
3.16
39.39
2.24
964
2897
0.327924
TGACCATGTCGGCCATTTCT
59.672
50.000
2.24
0.00
39.03
2.52
965
2898
1.271871
TGACCATGTCGGCCATTTCTT
60.272
47.619
2.24
0.00
39.03
2.52
966
2899
1.818674
GACCATGTCGGCCATTTCTTT
59.181
47.619
2.24
0.00
39.03
2.52
967
2900
1.818674
ACCATGTCGGCCATTTCTTTC
59.181
47.619
2.24
0.00
39.03
2.62
1350
3298
3.188786
GTGCGCGACATGGACCTC
61.189
66.667
12.10
0.00
0.00
3.85
1634
3582
0.517316
GACGTGTGAGATGGCCAAAC
59.483
55.000
10.96
7.46
0.00
2.93
1635
3583
0.889186
ACGTGTGAGATGGCCAAACC
60.889
55.000
10.96
1.57
39.84
3.27
1636
3584
1.875963
GTGTGAGATGGCCAAACCG
59.124
57.895
10.96
0.00
43.94
4.44
1637
3585
0.889186
GTGTGAGATGGCCAAACCGT
60.889
55.000
10.96
0.00
43.94
4.83
1795
3743
2.493973
GGAGCAGAGCACCGAGAG
59.506
66.667
0.00
0.00
28.62
3.20
1809
3757
1.336332
CCGAGAGATACTTCCATGGCG
60.336
57.143
6.96
2.80
0.00
5.69
1812
3760
0.249489
GAGATACTTCCATGGCGCGT
60.249
55.000
6.96
6.26
0.00
6.01
1817
3765
0.960364
ACTTCCATGGCGCGTTGATT
60.960
50.000
6.96
0.00
0.00
2.57
1843
3792
2.855963
GCAGATGATCCAACGCAAATTG
59.144
45.455
0.00
0.00
0.00
2.32
1856
3805
2.739287
CGCAAATTGGTTGGGGATGATG
60.739
50.000
0.00
0.00
44.40
3.07
1912
3861
1.527844
GGGAGCCTCATGGTCATGC
60.528
63.158
6.10
0.00
43.44
4.06
1927
3876
3.090219
ATGCGCCCCCGAGTAGAAC
62.090
63.158
4.18
0.00
36.29
3.01
1929
3878
2.183555
CGCCCCCGAGTAGAACAC
59.816
66.667
0.00
0.00
36.29
3.32
1981
3930
0.609957
TCGGCTCCTACCTTGTCGAA
60.610
55.000
0.00
0.00
0.00
3.71
1993
3942
5.362556
ACCTTGTCGAATGTTCATTCTTG
57.637
39.130
19.00
8.37
0.00
3.02
1994
3943
5.063204
ACCTTGTCGAATGTTCATTCTTGA
58.937
37.500
19.00
10.11
0.00
3.02
1995
3944
5.707298
ACCTTGTCGAATGTTCATTCTTGAT
59.293
36.000
19.00
1.41
0.00
2.57
1996
3945
6.207417
ACCTTGTCGAATGTTCATTCTTGATT
59.793
34.615
19.00
0.00
0.00
2.57
2008
3957
6.808008
TCATTCTTGATTTCTTCTGTGTCC
57.192
37.500
0.00
0.00
0.00
4.02
2085
4036
4.277423
CGAGGTCTCTAGATTTCTCCCTTC
59.723
50.000
0.00
0.00
0.00
3.46
2086
4037
5.205056
GAGGTCTCTAGATTTCTCCCTTCA
58.795
45.833
0.00
0.00
0.00
3.02
2088
4039
4.202212
GGTCTCTAGATTTCTCCCTTCAGC
60.202
50.000
0.00
0.00
0.00
4.26
2193
4495
5.523188
GCAACATTTGACAAAATCAGTTCCA
59.477
36.000
4.41
0.00
38.99
3.53
2200
4502
6.713762
TGACAAAATCAGTTCCATTGAAGT
57.286
33.333
0.00
0.00
34.39
3.01
2204
4506
7.555087
ACAAAATCAGTTCCATTGAAGTTTCA
58.445
30.769
0.00
0.00
31.64
2.69
2249
4551
2.305635
TGACCTGCTGCTTAGGAAATGA
59.694
45.455
12.51
0.00
38.71
2.57
2281
4583
5.287274
CGTGCAGTAGATTTAGTGTTCAGAG
59.713
44.000
0.00
0.00
33.55
3.35
2287
4589
7.062839
CAGTAGATTTAGTGTTCAGAGACTTGC
59.937
40.741
0.00
0.00
31.03
4.01
2300
4602
1.276421
AGACTTGCGCTGGACTATGTT
59.724
47.619
9.73
0.00
0.00
2.71
2304
4606
0.894835
TGCGCTGGACTATGTTCAGA
59.105
50.000
9.73
0.00
41.40
3.27
2305
4607
1.275010
TGCGCTGGACTATGTTCAGAA
59.725
47.619
9.73
0.00
41.40
3.02
2307
4609
2.094417
GCGCTGGACTATGTTCAGAAAC
59.906
50.000
9.94
0.00
41.40
2.78
2385
4690
5.182001
GTGCTATGGCTTTAATCATGTAGGG
59.818
44.000
1.68
0.00
39.59
3.53
2388
4693
6.490040
GCTATGGCTTTAATCATGTAGGGAAA
59.510
38.462
0.00
0.00
35.22
3.13
2500
4888
5.178809
ACACAAAAGACTTGCGTATTACTCC
59.821
40.000
0.00
0.00
0.00
3.85
2551
4986
6.296145
GGTTATCCCCAATGGAAAACATTCAA
60.296
38.462
0.00
0.00
46.67
2.69
2558
4993
5.338219
CCAATGGAAAACATTCAATAGGGCA
60.338
40.000
0.00
0.00
46.67
5.36
2572
5007
2.288025
GGGCAGTGACCCGGTAAGA
61.288
63.158
2.42
0.00
40.98
2.10
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
129
1971
3.691603
GCCTCTAGACCATCCCTCTGTTA
60.692
52.174
0.00
0.00
0.00
2.41
138
1980
1.693627
TTCCTCGCCTCTAGACCATC
58.306
55.000
0.00
0.00
0.00
3.51
139
1981
1.757699
GTTTCCTCGCCTCTAGACCAT
59.242
52.381
0.00
0.00
0.00
3.55
140
1982
1.183549
GTTTCCTCGCCTCTAGACCA
58.816
55.000
0.00
0.00
0.00
4.02
142
1984
3.254892
CTTTGTTTCCTCGCCTCTAGAC
58.745
50.000
0.00
0.00
0.00
2.59
143
1985
2.353803
GCTTTGTTTCCTCGCCTCTAGA
60.354
50.000
0.00
0.00
0.00
2.43
144
1986
2.003301
GCTTTGTTTCCTCGCCTCTAG
58.997
52.381
0.00
0.00
0.00
2.43
145
1987
1.671850
CGCTTTGTTTCCTCGCCTCTA
60.672
52.381
0.00
0.00
0.00
2.43
147
1989
1.228657
ACGCTTTGTTTCCTCGCCTC
61.229
55.000
0.00
0.00
0.00
4.70
148
1990
1.227853
ACGCTTTGTTTCCTCGCCT
60.228
52.632
0.00
0.00
0.00
5.52
149
1991
1.082104
CACGCTTTGTTTCCTCGCC
60.082
57.895
0.00
0.00
0.00
5.54
150
1992
0.306533
TTCACGCTTTGTTTCCTCGC
59.693
50.000
0.00
0.00
0.00
5.03
151
1993
2.286833
TCTTTCACGCTTTGTTTCCTCG
59.713
45.455
0.00
0.00
0.00
4.63
192
2059
3.517901
TGATGATAAAGACGGGTCCAACT
59.482
43.478
0.00
0.00
0.00
3.16
193
2060
3.869065
TGATGATAAAGACGGGTCCAAC
58.131
45.455
0.00
0.00
0.00
3.77
194
2061
4.408921
AGATGATGATAAAGACGGGTCCAA
59.591
41.667
0.00
0.00
0.00
3.53
195
2062
3.967326
AGATGATGATAAAGACGGGTCCA
59.033
43.478
0.00
0.00
0.00
4.02
196
2063
4.310769
CAGATGATGATAAAGACGGGTCC
58.689
47.826
0.00
0.00
0.00
4.46
197
2064
4.202264
ACCAGATGATGATAAAGACGGGTC
60.202
45.833
0.00
0.00
0.00
4.46
238
2105
2.509422
GGGTCCGGATAGGTTGCC
59.491
66.667
7.81
1.00
41.99
4.52
277
2164
3.330853
GCTTGGCGCCGATACGAG
61.331
66.667
23.90
8.87
34.06
4.18
278
2165
3.650907
TTGCTTGGCGCCGATACGA
62.651
57.895
23.90
12.25
38.05
3.43
279
2166
3.155470
CTTGCTTGGCGCCGATACG
62.155
63.158
23.90
9.70
38.05
3.06
280
2167
2.106683
ACTTGCTTGGCGCCGATAC
61.107
57.895
23.90
15.69
38.05
2.24
281
2168
2.106074
CACTTGCTTGGCGCCGATA
61.106
57.895
23.90
9.45
38.05
2.92
282
2169
3.434319
CACTTGCTTGGCGCCGAT
61.434
61.111
23.90
0.29
38.05
4.18
285
2172
2.050077
GTTCACTTGCTTGGCGCC
60.050
61.111
22.73
22.73
38.05
6.53
287
2174
0.657368
GTTCGTTCACTTGCTTGGCG
60.657
55.000
0.00
0.00
0.00
5.69
299
2189
0.165295
GCCTTTGGCTACGTTCGTTC
59.835
55.000
2.62
0.00
46.69
3.95
300
2190
2.241171
GCCTTTGGCTACGTTCGTT
58.759
52.632
2.62
0.00
46.69
3.85
301
2191
3.961729
GCCTTTGGCTACGTTCGT
58.038
55.556
0.00
2.91
46.69
3.85
312
2202
1.875963
CAGTAACTGCCGGCCTTTG
59.124
57.895
26.77
13.99
0.00
2.77
368
2268
0.464554
CTCTTTCCCGATTCCTGCCC
60.465
60.000
0.00
0.00
0.00
5.36
382
2282
0.464036
TACGCGCCATGGATCTCTTT
59.536
50.000
18.40
0.00
0.00
2.52
473
2373
3.365265
GCGTGGAGTGGGGCTTTG
61.365
66.667
0.00
0.00
0.00
2.77
530
2443
3.625897
CTCCCTGTGGTGGCGTGA
61.626
66.667
0.00
0.00
0.00
4.35
548
2461
4.458989
TCAAAAATGAAGAGAATCCCCACG
59.541
41.667
0.00
0.00
33.66
4.94
550
2463
6.554605
AGTTTCAAAAATGAAGAGAATCCCCA
59.445
34.615
0.00
0.00
33.66
4.96
554
2467
6.306596
GGCGAGTTTCAAAAATGAAGAGAATC
59.693
38.462
0.00
0.00
0.00
2.52
561
2474
3.798548
GCCTGGCGAGTTTCAAAAATGAA
60.799
43.478
1.35
0.00
0.00
2.57
565
2478
1.066908
CTGCCTGGCGAGTTTCAAAAA
59.933
47.619
14.98
0.00
0.00
1.94
577
2490
0.598419
GCAACAGAAAACTGCCTGGC
60.598
55.000
12.87
12.87
34.85
4.85
578
2491
1.035139
AGCAACAGAAAACTGCCTGG
58.965
50.000
0.00
0.00
36.73
4.45
590
2503
0.601558
ATCAAGCCAAGCAGCAACAG
59.398
50.000
0.00
0.00
34.23
3.16
592
2505
0.599558
TGATCAAGCCAAGCAGCAAC
59.400
50.000
0.00
0.00
34.23
4.17
593
2506
1.203758
CATGATCAAGCCAAGCAGCAA
59.796
47.619
0.00
0.00
34.23
3.91
595
2508
0.102481
CCATGATCAAGCCAAGCAGC
59.898
55.000
0.00
0.00
0.00
5.25
596
2509
0.744874
CCCATGATCAAGCCAAGCAG
59.255
55.000
0.00
0.00
0.00
4.24
597
2510
0.685131
CCCCATGATCAAGCCAAGCA
60.685
55.000
0.00
0.00
0.00
3.91
598
2511
0.685458
ACCCCATGATCAAGCCAAGC
60.685
55.000
0.00
0.00
0.00
4.01
599
2512
1.856629
AACCCCATGATCAAGCCAAG
58.143
50.000
0.00
0.00
0.00
3.61
600
2513
2.323999
AAACCCCATGATCAAGCCAA
57.676
45.000
0.00
0.00
0.00
4.52
601
2514
2.358090
CCTAAACCCCATGATCAAGCCA
60.358
50.000
0.00
0.00
0.00
4.75
602
2515
2.310538
CCTAAACCCCATGATCAAGCC
58.689
52.381
0.00
0.00
0.00
4.35
615
2528
4.888823
TGGCGTTAATAAATCCCCTAAACC
59.111
41.667
0.00
0.00
0.00
3.27
644
2557
6.420588
GTGTGTGCGTGTACTATGTTAAAAA
58.579
36.000
0.00
0.00
0.00
1.94
645
2558
5.332430
CGTGTGTGCGTGTACTATGTTAAAA
60.332
40.000
0.00
0.00
0.00
1.52
646
2559
4.148522
CGTGTGTGCGTGTACTATGTTAAA
59.851
41.667
0.00
0.00
0.00
1.52
647
2560
3.669588
CGTGTGTGCGTGTACTATGTTAA
59.330
43.478
0.00
0.00
0.00
2.01
648
2561
3.236005
CGTGTGTGCGTGTACTATGTTA
58.764
45.455
0.00
0.00
0.00
2.41
649
2562
2.055838
CGTGTGTGCGTGTACTATGTT
58.944
47.619
0.00
0.00
0.00
2.71
650
2563
1.001048
ACGTGTGTGCGTGTACTATGT
60.001
47.619
0.00
0.00
43.99
2.29
651
2564
1.647213
GACGTGTGTGCGTGTACTATG
59.353
52.381
0.00
0.00
45.79
2.23
652
2565
1.538512
AGACGTGTGTGCGTGTACTAT
59.461
47.619
0.00
0.00
45.79
2.12
658
2571
1.554042
GGGTAAGACGTGTGTGCGTG
61.554
60.000
0.00
0.00
45.79
5.34
660
2573
2.025418
GGGGTAAGACGTGTGTGCG
61.025
63.158
0.00
0.00
37.94
5.34
665
2578
0.470456
TCACAGGGGGTAAGACGTGT
60.470
55.000
0.00
0.00
36.27
4.49
668
2581
0.682852
TGTTCACAGGGGGTAAGACG
59.317
55.000
0.00
0.00
0.00
4.18
669
2582
2.039879
ACATGTTCACAGGGGGTAAGAC
59.960
50.000
0.00
0.00
30.95
3.01
677
2590
2.390599
CGCGGACATGTTCACAGGG
61.391
63.158
4.68
0.00
30.95
4.45
679
2592
0.388520
TCTCGCGGACATGTTCACAG
60.389
55.000
6.13
0.00
0.00
3.66
680
2593
0.666274
GTCTCGCGGACATGTTCACA
60.666
55.000
18.80
0.00
43.94
3.58
681
2594
0.388649
AGTCTCGCGGACATGTTCAC
60.389
55.000
23.47
0.00
46.72
3.18
682
2595
0.388520
CAGTCTCGCGGACATGTTCA
60.389
55.000
23.47
0.00
46.72
3.18
683
2596
0.109272
TCAGTCTCGCGGACATGTTC
60.109
55.000
23.47
0.00
46.72
3.18
684
2597
0.109086
CTCAGTCTCGCGGACATGTT
60.109
55.000
23.47
6.09
46.72
2.71
685
2598
1.508545
CTCAGTCTCGCGGACATGT
59.491
57.895
23.47
0.00
46.72
3.21
686
2599
1.875813
GCTCAGTCTCGCGGACATG
60.876
63.158
23.47
18.55
46.72
3.21
687
2600
2.492090
GCTCAGTCTCGCGGACAT
59.508
61.111
23.47
10.53
46.72
3.06
688
2601
3.749064
GGCTCAGTCTCGCGGACA
61.749
66.667
23.47
8.42
46.72
4.02
689
2602
4.838486
CGGCTCAGTCTCGCGGAC
62.838
72.222
16.80
16.80
44.80
4.79
694
2607
2.718993
GATACGCCGGCTCAGTCTCG
62.719
65.000
26.68
8.67
0.00
4.04
715
2628
4.822896
TGGCATACCCGTTAATATTCAACC
59.177
41.667
0.00
0.00
35.87
3.77
716
2629
6.380095
TTGGCATACCCGTTAATATTCAAC
57.620
37.500
0.00
0.00
35.87
3.18
719
2632
6.628919
AGTTTGGCATACCCGTTAATATTC
57.371
37.500
4.38
0.00
35.87
1.75
723
2636
3.697542
GGAAGTTTGGCATACCCGTTAAT
59.302
43.478
4.38
0.00
35.87
1.40
744
2676
1.641677
CGCCCGAAATAGAAAGCGG
59.358
57.895
0.00
0.00
43.20
5.52
747
2679
0.928229
CGTCCGCCCGAAATAGAAAG
59.072
55.000
0.00
0.00
0.00
2.62
758
2690
2.469516
CCAGTAAATGCGTCCGCCC
61.470
63.158
9.43
0.00
41.09
6.13
786
2718
4.700213
GCTGTAAATTAAGCCTCTGGACAA
59.300
41.667
0.00
0.00
33.12
3.18
847
2779
2.919666
TAAAAAGGCGATTGAGCTGC
57.080
45.000
0.00
0.00
37.29
5.25
848
2780
4.496895
CGAAATAAAAAGGCGATTGAGCTG
59.503
41.667
0.00
0.00
37.29
4.24
849
2781
4.156008
ACGAAATAAAAAGGCGATTGAGCT
59.844
37.500
0.00
0.00
37.29
4.09
871
2803
2.027625
CGAGAGCGGTGTTTGGGAC
61.028
63.158
0.00
0.00
0.00
4.46
927
2859
2.095969
GTCATGGCATCACGACGAAAAA
60.096
45.455
0.00
0.00
0.00
1.94
928
2860
1.463056
GTCATGGCATCACGACGAAAA
59.537
47.619
0.00
0.00
0.00
2.29
1084
3017
4.224274
TTGGTCGCCGTCGTGGTT
62.224
61.111
0.00
0.00
41.21
3.67
1661
3609
0.665369
ACAGACCGTACGGAAAAGCG
60.665
55.000
39.52
21.71
38.96
4.68
1795
3743
0.304705
CAACGCGCCATGGAAGTATC
59.695
55.000
18.40
0.00
0.00
2.24
1809
3757
1.739466
TCATCTGCTGGAAATCAACGC
59.261
47.619
0.00
0.00
0.00
4.84
1812
3760
4.239428
TGGATCATCTGCTGGAAATCAA
57.761
40.909
0.00
0.00
0.00
2.57
1817
3765
2.013563
GCGTTGGATCATCTGCTGGAA
61.014
52.381
0.00
0.00
0.00
3.53
1843
3792
1.511613
TCTCCTCATCATCCCCAACC
58.488
55.000
0.00
0.00
0.00
3.77
1856
3805
2.178890
CATGCTGCCGCTTCTCCTC
61.179
63.158
0.70
0.00
36.97
3.71
1906
3855
3.792053
CTACTCGGGGGCGCATGAC
62.792
68.421
10.83
0.00
0.00
3.06
1912
3861
2.183555
GTGTTCTACTCGGGGGCG
59.816
66.667
0.00
0.00
0.00
6.13
1919
3868
3.664107
TGTGCATTGAGGTGTTCTACTC
58.336
45.455
0.00
0.00
0.00
2.59
1921
3870
4.379813
CCATTGTGCATTGAGGTGTTCTAC
60.380
45.833
0.00
0.00
0.00
2.59
1927
3876
1.887854
TCACCATTGTGCATTGAGGTG
59.112
47.619
19.31
19.31
45.92
4.00
1929
3878
1.135199
GCTCACCATTGTGCATTGAGG
60.135
52.381
0.00
0.00
42.46
3.86
1981
3930
8.174733
ACACAGAAGAAATCAAGAATGAACAT
57.825
30.769
0.00
0.00
39.49
2.71
1993
3942
3.690460
ACCCATGGACACAGAAGAAATC
58.310
45.455
15.22
0.00
0.00
2.17
1994
3943
3.814504
ACCCATGGACACAGAAGAAAT
57.185
42.857
15.22
0.00
0.00
2.17
1995
3944
3.593442
AACCCATGGACACAGAAGAAA
57.407
42.857
15.22
0.00
0.00
2.52
1996
3945
3.221771
CAAACCCATGGACACAGAAGAA
58.778
45.455
15.22
0.00
0.00
2.52
2008
3957
1.750399
CGAGCTCCCCAAACCCATG
60.750
63.158
8.47
0.00
0.00
3.66
2085
4036
1.143813
ATACAGGGAGGGGATTGCTG
58.856
55.000
0.00
0.00
0.00
4.41
2086
4037
2.815357
TATACAGGGAGGGGATTGCT
57.185
50.000
0.00
0.00
0.00
3.91
2088
4039
6.632672
CGGAAATATATACAGGGAGGGGATTG
60.633
46.154
0.00
0.00
0.00
2.67
2229
4531
2.941720
CTCATTTCCTAAGCAGCAGGTC
59.058
50.000
0.00
0.00
34.56
3.85
2230
4532
2.307098
ACTCATTTCCTAAGCAGCAGGT
59.693
45.455
0.00
0.00
34.56
4.00
2281
4583
1.661112
GAACATAGTCCAGCGCAAGTC
59.339
52.381
11.47
0.00
41.68
3.01
2287
4589
3.589988
AGTTTCTGAACATAGTCCAGCG
58.410
45.455
0.00
0.00
38.26
5.18
2314
4618
6.278363
GGTACTCCCCTTTTCAAAAAGAAAC
58.722
40.000
15.15
5.43
45.48
2.78
2393
4698
1.796459
ACGACGAAACACAGGCAATAC
59.204
47.619
0.00
0.00
0.00
1.89
2394
4699
2.157834
ACGACGAAACACAGGCAATA
57.842
45.000
0.00
0.00
0.00
1.90
2395
4700
1.305201
AACGACGAAACACAGGCAAT
58.695
45.000
0.00
0.00
0.00
3.56
2396
4701
1.062880
GAAACGACGAAACACAGGCAA
59.937
47.619
0.00
0.00
0.00
4.52
2397
4702
0.653636
GAAACGACGAAACACAGGCA
59.346
50.000
0.00
0.00
0.00
4.75
2398
4703
0.041576
GGAAACGACGAAACACAGGC
60.042
55.000
0.00
0.00
0.00
4.85
2403
4708
1.202486
AGCTGAGGAAACGACGAAACA
60.202
47.619
0.00
0.00
0.00
2.83
2409
4714
3.485546
CGTACTCTAGCTGAGGAAACGAC
60.486
52.174
20.14
9.20
46.72
4.34
2469
4857
3.181511
CGCAAGTCTTTTGTGTGTTCTCA
60.182
43.478
0.00
0.00
0.00
3.27
2500
4888
5.049405
GTCTTGCATTATACCCCTTCATTCG
60.049
44.000
0.00
0.00
0.00
3.34
2551
4986
0.325860
TTACCGGGTCACTGCCCTAT
60.326
55.000
6.32
0.00
46.47
2.57
2558
4993
1.909700
TTACGTCTTACCGGGTCACT
58.090
50.000
6.32
0.00
0.00
3.41
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.