Multiple sequence alignment - TraesCS3A01G261700
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
TraesCS3A01G261700
chr3A
100.000
4493
0
0
1
4493
484638247
484633755
0.000000e+00
8298.0
1
TraesCS3A01G261700
chr3A
73.897
816
172
30
1266
2068
448701981
448702768
5.690000e-74
289.0
2
TraesCS3A01G261700
chr3A
71.887
811
171
45
1270
2053
598553492
598554272
9.930000e-42
182.0
3
TraesCS3A01G261700
chr3A
71.902
815
158
52
1276
2053
623610125
623610905
2.150000e-38
171.0
4
TraesCS3A01G261700
chr3A
71.785
801
164
48
1284
2053
625210518
625209749
2.150000e-38
171.0
5
TraesCS3A01G261700
chr3B
93.747
4478
222
29
1
4464
473695664
473691231
0.000000e+00
6665.0
6
TraesCS3A01G261700
chr3B
73.432
813
175
30
1269
2068
431040213
431040997
2.660000e-67
267.0
7
TraesCS3A01G261700
chr3B
71.144
804
183
39
1270
2053
602331249
602332023
2.160000e-33
154.0
8
TraesCS3A01G261700
chr3D
93.664
2336
109
19
1
2326
363598923
363596617
0.000000e+00
3458.0
9
TraesCS3A01G261700
chr3D
92.595
1337
86
7
2323
3657
363595635
363594310
0.000000e+00
1908.0
10
TraesCS3A01G261700
chr3D
90.808
631
40
9
3746
4371
363594077
363593460
0.000000e+00
828.0
11
TraesCS3A01G261700
chr3D
74.293
813
168
30
1269
2068
331657185
331657969
5.650000e-79
305.0
12
TraesCS3A01G261700
chr3D
72.025
815
157
52
1276
2053
480842451
480843231
4.620000e-40
176.0
13
TraesCS3A01G261700
chr3D
71.640
811
173
44
1270
2053
455869728
455870508
2.150000e-38
171.0
14
TraesCS3A01G261700
chr3D
71.163
808
169
46
1278
2053
482190987
482190212
4.690000e-30
143.0
15
TraesCS3A01G261700
chr6D
90.064
936
89
2
1
936
14169163
14170094
0.000000e+00
1210.0
16
TraesCS3A01G261700
chr5A
86.511
897
117
4
1
895
46423206
46422312
0.000000e+00
983.0
17
TraesCS3A01G261700
chr5A
75.556
810
138
37
1277
2059
41373873
41374649
1.200000e-90
344.0
18
TraesCS3A01G261700
chr2B
100.000
29
0
0
2855
2883
765296337
765296309
2.000000e-03
54.7
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
TraesCS3A01G261700
chr3A
484633755
484638247
4492
True
8298.000000
8298
100.000000
1
4493
1
chr3A.!!$R1
4492
1
TraesCS3A01G261700
chr3A
448701981
448702768
787
False
289.000000
289
73.897000
1266
2068
1
chr3A.!!$F1
802
2
TraesCS3A01G261700
chr3B
473691231
473695664
4433
True
6665.000000
6665
93.747000
1
4464
1
chr3B.!!$R1
4463
3
TraesCS3A01G261700
chr3B
431040213
431040997
784
False
267.000000
267
73.432000
1269
2068
1
chr3B.!!$F1
799
4
TraesCS3A01G261700
chr3D
363593460
363598923
5463
True
2064.666667
3458
92.355667
1
4371
3
chr3D.!!$R2
4370
5
TraesCS3A01G261700
chr3D
331657185
331657969
784
False
305.000000
305
74.293000
1269
2068
1
chr3D.!!$F1
799
6
TraesCS3A01G261700
chr6D
14169163
14170094
931
False
1210.000000
1210
90.064000
1
936
1
chr6D.!!$F1
935
7
TraesCS3A01G261700
chr5A
46422312
46423206
894
True
983.000000
983
86.511000
1
895
1
chr5A.!!$R1
894
8
TraesCS3A01G261700
chr5A
41373873
41374649
776
False
344.000000
344
75.556000
1277
2059
1
chr5A.!!$F1
782
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
756
757
1.134965
GGAGAGATCACCGAGGTTGTG
60.135
57.143
0.0
0.0
35.01
3.33
F
1070
1073
0.099968
CTGTCATTTGCAGCATCCCG
59.900
55.000
0.0
0.0
0.00
5.14
F
2761
3775
0.543174
AGGAGGCGACAAGGACTTCT
60.543
55.000
0.0
0.0
0.00
2.85
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
2706
3720
0.036952
CCTTCACTGTGATCTGCCGT
60.037
55.0
11.86
0.00
0.00
5.68
R
2871
3885
0.548031
CATAGCTTTCCAGGGAGCCA
59.452
55.0
11.01
0.21
39.71
4.75
R
4148
5327
0.324738
TTGTGCTCCCAAAACCACCA
60.325
50.0
0.00
0.00
0.00
4.17
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
57
58
2.224769
TGAAAAGCTAGGTCAAGGTGGG
60.225
50.000
0.00
0.00
0.00
4.61
223
224
5.640147
TCTTAGGATTTTGCTTGGAAGGAA
58.360
37.500
0.00
0.00
34.39
3.36
282
283
5.362430
TGGTTCACTTGAAAGGTATGCTTTT
59.638
36.000
0.00
0.00
35.58
2.27
294
295
4.889995
AGGTATGCTTTTAAAGATGGCTCC
59.110
41.667
9.10
3.08
0.00
4.70
432
433
3.697166
ACCCCACAACATTCTATTGGAC
58.303
45.455
0.00
0.00
0.00
4.02
456
457
5.048434
CCAAAACTTCTGTCCAAAGATCTCC
60.048
44.000
0.00
0.00
0.00
3.71
756
757
1.134965
GGAGAGATCACCGAGGTTGTG
60.135
57.143
0.00
0.00
35.01
3.33
843
844
1.400142
AGAGTCGTCGAGATGCTTGAG
59.600
52.381
0.00
0.00
0.00
3.02
865
866
3.723348
GCACAACCGGCCTCGAAC
61.723
66.667
0.00
0.00
39.00
3.95
906
907
6.374333
TCTTGAGTTGACAGGGTTTATATTGC
59.626
38.462
0.00
0.00
0.00
3.56
910
911
6.485171
AGTTGACAGGGTTTATATTGCTCTT
58.515
36.000
0.00
0.00
0.00
2.85
936
938
3.004629
CACTTGCTCCAGTGTTGCATAAA
59.995
43.478
7.89
0.00
39.59
1.40
946
949
5.794945
CCAGTGTTGCATAAATCTGTAAACG
59.205
40.000
0.00
0.00
0.00
3.60
1070
1073
0.099968
CTGTCATTTGCAGCATCCCG
59.900
55.000
0.00
0.00
0.00
5.14
1071
1074
1.314534
TGTCATTTGCAGCATCCCGG
61.315
55.000
0.00
0.00
0.00
5.73
1082
1085
1.143073
AGCATCCCGGTTCTTTATCCC
59.857
52.381
0.00
0.00
0.00
3.85
1093
1096
6.376018
CCGGTTCTTTATCCCAGAAAATAACA
59.624
38.462
0.00
0.00
31.98
2.41
1119
1122
2.851263
TTCCTTCCACGTATGCTTGT
57.149
45.000
0.00
0.00
0.00
3.16
1182
1185
6.306356
CACAAAAGACATTCGCCATCTTTAAG
59.694
38.462
0.00
0.00
40.85
1.85
1183
1186
6.206634
ACAAAAGACATTCGCCATCTTTAAGA
59.793
34.615
0.00
0.00
40.85
2.10
1184
1187
5.803020
AAGACATTCGCCATCTTTAAGAC
57.197
39.130
0.00
0.00
28.03
3.01
1185
1188
5.091261
AGACATTCGCCATCTTTAAGACT
57.909
39.130
0.00
0.00
0.00
3.24
1186
1189
5.491982
AGACATTCGCCATCTTTAAGACTT
58.508
37.500
0.00
0.00
0.00
3.01
1187
1190
5.940470
AGACATTCGCCATCTTTAAGACTTT
59.060
36.000
0.00
0.00
0.00
2.66
1188
1191
7.103641
AGACATTCGCCATCTTTAAGACTTTA
58.896
34.615
0.00
0.00
0.00
1.85
1189
1192
7.606456
AGACATTCGCCATCTTTAAGACTTTAA
59.394
33.333
0.00
0.00
0.00
1.52
1200
1203
1.173913
AGACTTTAACAATGCCCGGC
58.826
50.000
1.04
1.04
0.00
6.13
1230
1233
3.373439
GCATTCTCACGATCTTGCTCTTT
59.627
43.478
0.00
0.00
0.00
2.52
1347
1350
3.450115
GGCACGGGACTCTACGCT
61.450
66.667
0.00
0.00
0.00
5.07
2016
2037
2.821366
CAGGTGCTGCCGATGGTC
60.821
66.667
0.00
0.00
43.70
4.02
2072
2093
3.003113
GCCGCTCCTACGACAAGGT
62.003
63.158
0.00
0.00
37.91
3.50
2076
2097
1.465794
GCTCCTACGACAAGGTCTCT
58.534
55.000
0.00
0.00
37.91
3.10
2079
2100
1.075050
TCCTACGACAAGGTCTCTGGT
59.925
52.381
0.00
0.00
37.91
4.00
2085
2106
3.387050
ACGACAAGGTCTCTGGTTTTAGT
59.613
43.478
0.00
0.00
0.00
2.24
2088
2109
4.451900
ACAAGGTCTCTGGTTTTAGTGTG
58.548
43.478
0.00
0.00
0.00
3.82
2156
2181
2.746362
CCTTCTGCTTTCAGGCTTACAG
59.254
50.000
0.00
0.00
40.69
2.74
2218
2245
8.883789
TTGCCGTCGTTTATTCTAAATTTTAG
57.116
30.769
9.48
9.48
0.00
1.85
2370
3384
5.809562
CACATAGACTAGCTCAAGAGTTTGG
59.190
44.000
0.00
0.00
34.97
3.28
2425
3439
3.840666
TGCATTGCATTTTAAACCCCCTA
59.159
39.130
7.38
0.00
31.71
3.53
2613
3627
5.591877
AGCTCATCATCCAAAAAGATACACC
59.408
40.000
0.00
0.00
0.00
4.16
2639
3653
2.744202
CCGAAGTGGAAAGGATGACAAG
59.256
50.000
0.00
0.00
42.00
3.16
2738
3752
3.209410
CAGTGAAGGTGCTGAAGAACTT
58.791
45.455
0.00
0.00
34.87
2.66
2739
3753
3.629398
CAGTGAAGGTGCTGAAGAACTTT
59.371
43.478
0.00
0.00
34.87
2.66
2745
3759
5.048846
AGGTGCTGAAGAACTTTAAAGGA
57.951
39.130
19.14
0.00
0.00
3.36
2761
3775
0.543174
AGGAGGCGACAAGGACTTCT
60.543
55.000
0.00
0.00
0.00
2.85
2838
3852
3.614698
TTTTGCTTGCAGGGGCCG
61.615
61.111
0.00
0.00
40.13
6.13
2871
3885
5.480422
TCTGATATACGAGTACATGCCCAAT
59.520
40.000
0.00
0.00
0.00
3.16
2913
3927
0.457443
TCAGCAGCTATGACTCCGTG
59.543
55.000
0.00
0.00
0.00
4.94
2961
3975
3.181454
ACTGGGAGAAACTGTTCGACATT
60.181
43.478
0.00
0.00
38.90
2.71
2967
3981
2.995466
AACTGTTCGACATTGCCATG
57.005
45.000
0.00
0.00
36.34
3.66
3081
4095
3.265479
AGGAGCTATGCCCAAAGATATCC
59.735
47.826
0.00
0.00
0.00
2.59
3177
4191
1.264749
TGGTGTCCAGGAGATTCGGG
61.265
60.000
0.00
0.00
0.00
5.14
3188
4202
0.974010
AGATTCGGGCCGGTCACTAA
60.974
55.000
27.98
12.37
0.00
2.24
3210
4224
1.747709
AGTCCGACGTGTACAGCTAT
58.252
50.000
0.00
0.00
0.00
2.97
3254
4268
0.034059
AGGGCAAAGAGACACGTCAG
59.966
55.000
0.00
0.00
0.00
3.51
3394
4408
2.290287
ATAGTCGGGCTGTGGTGCA
61.290
57.895
0.00
0.00
34.04
4.57
3465
4479
4.874977
GAGGGTAGCAGCGCGGAC
62.875
72.222
13.03
0.54
0.00
4.79
3499
4513
2.231721
AGAAGAACCTCCTGAAGCGTAC
59.768
50.000
0.00
0.00
0.00
3.67
3552
4569
3.323751
AATGCACCTGCTTTTGGATTC
57.676
42.857
0.00
0.00
42.66
2.52
3572
4592
1.871039
CGTGTAGTGTTGGTTTCAGGG
59.129
52.381
0.00
0.00
0.00
4.45
3576
4596
1.222567
AGTGTTGGTTTCAGGGGAGT
58.777
50.000
0.00
0.00
0.00
3.85
3578
4598
2.372172
AGTGTTGGTTTCAGGGGAGTAG
59.628
50.000
0.00
0.00
0.00
2.57
3640
4661
6.149633
GGTTTTAGTGCCAGATAACTTGTTG
58.850
40.000
0.00
0.00
0.00
3.33
3641
4662
5.957842
TTTAGTGCCAGATAACTTGTTGG
57.042
39.130
0.00
0.00
0.00
3.77
3688
4815
6.435428
ACAAACCAAACAATAAGACACGATC
58.565
36.000
0.00
0.00
0.00
3.69
3689
4816
6.038825
ACAAACCAAACAATAAGACACGATCA
59.961
34.615
0.00
0.00
0.00
2.92
3690
4817
6.817765
AACCAAACAATAAGACACGATCAT
57.182
33.333
0.00
0.00
0.00
2.45
3691
4818
6.422776
ACCAAACAATAAGACACGATCATC
57.577
37.500
0.00
0.00
0.00
2.92
3692
4819
5.937540
ACCAAACAATAAGACACGATCATCA
59.062
36.000
0.00
0.00
0.00
3.07
3693
4820
6.429692
ACCAAACAATAAGACACGATCATCAA
59.570
34.615
0.00
0.00
0.00
2.57
3701
4828
2.413112
GACACGATCATCAACACCACAG
59.587
50.000
0.00
0.00
0.00
3.66
3716
4843
0.604073
CACAGGCACATTTGATGGCA
59.396
50.000
0.00
0.00
44.76
4.92
3900
5076
3.873952
GCTGTTCTGGGAGTTGATGTATC
59.126
47.826
0.00
0.00
0.00
2.24
4108
5287
1.585006
CTACGAGGAACAGCACCGT
59.415
57.895
0.00
0.00
37.27
4.83
4132
5311
1.093159
GGCTTCATGGCTTCTCAGTG
58.907
55.000
0.00
0.00
38.32
3.66
4134
5313
2.430465
GCTTCATGGCTTCTCAGTGAA
58.570
47.619
0.00
0.00
0.00
3.18
4146
5325
6.279513
CTTCTCAGTGAAGGATTACTCTGT
57.720
41.667
4.53
0.00
46.25
3.41
4147
5326
5.906113
TCTCAGTGAAGGATTACTCTGTC
57.094
43.478
0.00
0.00
0.00
3.51
4148
5327
5.575157
TCTCAGTGAAGGATTACTCTGTCT
58.425
41.667
0.00
0.00
0.00
3.41
4149
5328
5.417266
TCTCAGTGAAGGATTACTCTGTCTG
59.583
44.000
0.00
0.00
0.00
3.51
4150
5329
4.464244
TCAGTGAAGGATTACTCTGTCTGG
59.536
45.833
0.00
0.00
0.00
3.86
4205
5388
4.627467
ACTATTTGTAGCAAGAGAACAGCG
59.373
41.667
0.00
0.00
0.00
5.18
4239
5422
1.202568
CGCCATGCTCTATCTGGAACA
60.203
52.381
0.00
0.00
31.38
3.18
4255
5438
2.350484
GGAACAGTGCCGCTAAAACTTC
60.350
50.000
0.00
0.00
0.00
3.01
4256
5439
0.865769
ACAGTGCCGCTAAAACTTCG
59.134
50.000
0.00
0.00
0.00
3.79
4307
5491
3.645660
TGGAGCACGGGCATTCCA
61.646
61.111
16.16
16.16
40.81
3.53
4321
5506
1.479323
CATTCCAATGAGTGCTTGGGG
59.521
52.381
2.16
0.00
42.83
4.96
4337
5522
4.704833
GGCTCCGGCACTGCTTCA
62.705
66.667
0.00
0.00
40.87
3.02
4379
5564
3.097137
CTGCTGCTGCTGCTTAGCG
62.097
63.158
27.67
10.25
44.01
4.26
4416
5601
2.217750
TGCTGTGCAGATTACGTTTGT
58.782
42.857
3.02
0.00
33.32
2.83
4464
5649
3.004315
CACACCGATAAAAGTGCCTTGTT
59.996
43.478
0.00
0.00
37.51
2.83
4465
5650
3.004315
ACACCGATAAAAGTGCCTTGTTG
59.996
43.478
0.00
0.00
37.51
3.33
4466
5651
3.252215
CACCGATAAAAGTGCCTTGTTGA
59.748
43.478
0.00
0.00
0.00
3.18
4467
5652
3.886505
ACCGATAAAAGTGCCTTGTTGAA
59.113
39.130
0.00
0.00
0.00
2.69
4468
5653
4.226761
CCGATAAAAGTGCCTTGTTGAAC
58.773
43.478
0.00
0.00
0.00
3.18
4469
5654
4.261405
CCGATAAAAGTGCCTTGTTGAACA
60.261
41.667
0.00
0.00
0.00
3.18
4470
5655
4.911610
CGATAAAAGTGCCTTGTTGAACAG
59.088
41.667
0.00
0.00
0.00
3.16
4471
5656
5.277779
CGATAAAAGTGCCTTGTTGAACAGA
60.278
40.000
0.00
0.00
0.00
3.41
4472
5657
6.568462
CGATAAAAGTGCCTTGTTGAACAGAT
60.568
38.462
0.00
0.00
0.00
2.90
4473
5658
5.343307
AAAAGTGCCTTGTTGAACAGATT
57.657
34.783
0.00
0.00
0.00
2.40
4474
5659
5.343307
AAAGTGCCTTGTTGAACAGATTT
57.657
34.783
0.00
0.00
0.00
2.17
4475
5660
5.343307
AAGTGCCTTGTTGAACAGATTTT
57.657
34.783
0.00
0.00
0.00
1.82
4476
5661
4.936891
AGTGCCTTGTTGAACAGATTTTC
58.063
39.130
0.00
0.00
0.00
2.29
4477
5662
4.051237
GTGCCTTGTTGAACAGATTTTCC
58.949
43.478
0.00
0.00
0.00
3.13
4478
5663
3.703556
TGCCTTGTTGAACAGATTTTCCA
59.296
39.130
0.00
0.00
0.00
3.53
4479
5664
4.161189
TGCCTTGTTGAACAGATTTTCCAA
59.839
37.500
0.00
0.00
0.00
3.53
4480
5665
4.507756
GCCTTGTTGAACAGATTTTCCAAC
59.492
41.667
0.00
0.00
0.00
3.77
4481
5666
5.659463
CCTTGTTGAACAGATTTTCCAACA
58.341
37.500
0.00
0.00
30.99
3.33
4482
5667
6.282930
CCTTGTTGAACAGATTTTCCAACAT
58.717
36.000
0.00
0.00
32.03
2.71
4483
5668
6.762661
CCTTGTTGAACAGATTTTCCAACATT
59.237
34.615
0.00
0.00
32.03
2.71
4484
5669
7.254522
CCTTGTTGAACAGATTTTCCAACATTG
60.255
37.037
0.00
0.00
32.03
2.82
4485
5670
6.871844
TGTTGAACAGATTTTCCAACATTGA
58.128
32.000
0.00
0.00
29.42
2.57
4486
5671
6.979817
TGTTGAACAGATTTTCCAACATTGAG
59.020
34.615
0.00
0.00
29.42
3.02
4487
5672
5.531634
TGAACAGATTTTCCAACATTGAGC
58.468
37.500
0.00
0.00
0.00
4.26
4488
5673
5.068855
TGAACAGATTTTCCAACATTGAGCA
59.931
36.000
0.00
0.00
0.00
4.26
4489
5674
5.534207
ACAGATTTTCCAACATTGAGCAA
57.466
34.783
0.00
0.00
0.00
3.91
4490
5675
6.105397
ACAGATTTTCCAACATTGAGCAAT
57.895
33.333
0.00
0.00
0.00
3.56
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
57
58
2.287608
GCCTCTGTAAACAGCACCAAAC
60.288
50.000
5.21
0.00
43.46
2.93
223
224
6.016555
AGTCATAAATTAGTGCCCTTTTGGT
58.983
36.000
0.00
0.00
38.10
3.67
282
283
1.209504
CCACCTTCGGAGCCATCTTTA
59.790
52.381
0.00
0.00
0.00
1.85
294
295
5.123344
CCAACCTAAAGTATTTCCACCTTCG
59.877
44.000
0.00
0.00
40.09
3.79
432
433
5.048434
GGAGATCTTTGGACAGAAGTTTTGG
60.048
44.000
0.00
0.00
0.00
3.28
456
457
1.982073
GCTTGGCCAGTCCGAAATCG
61.982
60.000
5.11
0.00
37.80
3.34
555
556
4.510038
ACTTACTGCTCCAAATTGCTTG
57.490
40.909
0.00
0.00
34.52
4.01
654
655
6.293845
GGAAATATTGGCTGCTAGATTCAGTG
60.294
42.308
0.00
0.00
34.21
3.66
756
757
3.745797
GCCCAACCACTATCATCTTCCTC
60.746
52.174
0.00
0.00
0.00
3.71
865
866
1.035139
AAGAGCACTTTTGGTGGCAG
58.965
50.000
0.00
0.00
45.44
4.85
991
994
0.886490
CCAGCGGACATATGGAAGCC
60.886
60.000
7.80
2.19
36.09
4.35
1070
1073
8.581578
TGTTGTTATTTTCTGGGATAAAGAACC
58.418
33.333
0.00
0.00
35.62
3.62
1071
1074
9.406828
GTGTTGTTATTTTCTGGGATAAAGAAC
57.593
33.333
0.00
0.00
36.50
3.01
1082
1085
6.868339
GGAAGGAATGGTGTTGTTATTTTCTG
59.132
38.462
0.00
0.00
0.00
3.02
1093
1096
3.343617
CATACGTGGAAGGAATGGTGTT
58.656
45.455
0.00
0.00
0.00
3.32
1145
1148
3.402691
TTTTGTGGCGTGTGCGGTG
62.403
57.895
0.00
0.00
44.10
4.94
1146
1149
3.119709
CTTTTGTGGCGTGTGCGGT
62.120
57.895
0.00
0.00
44.10
5.68
1147
1150
2.353376
CTTTTGTGGCGTGTGCGG
60.353
61.111
0.00
0.00
44.10
5.69
1148
1151
1.654137
GTCTTTTGTGGCGTGTGCG
60.654
57.895
0.00
0.00
44.10
5.34
1182
1185
0.885196
TGCCGGGCATTGTTAAAGTC
59.115
50.000
19.77
0.00
31.71
3.01
1183
1186
1.272212
CTTGCCGGGCATTGTTAAAGT
59.728
47.619
24.49
0.00
38.76
2.66
1184
1187
1.994916
CTTGCCGGGCATTGTTAAAG
58.005
50.000
24.49
11.49
38.76
1.85
1185
1188
0.037790
GCTTGCCGGGCATTGTTAAA
60.038
50.000
24.49
4.67
38.76
1.52
1186
1189
1.589113
GCTTGCCGGGCATTGTTAA
59.411
52.632
24.49
5.50
38.76
2.01
1187
1190
2.347322
GGCTTGCCGGGCATTGTTA
61.347
57.895
24.49
6.33
38.76
2.41
1188
1191
3.694538
GGCTTGCCGGGCATTGTT
61.695
61.111
24.49
0.00
38.76
2.83
1200
1203
2.753966
CGTGAGAATGCCGGGCTTG
61.754
63.158
21.46
0.00
0.00
4.01
1211
1214
2.738846
GCAAAGAGCAAGATCGTGAGAA
59.261
45.455
13.18
0.00
44.07
2.87
1347
1350
0.664166
GGAACGCGAGGTTGACGTAA
60.664
55.000
15.93
0.00
39.50
3.18
1553
1556
1.445942
CATAGGTAGGTGGCCACGG
59.554
63.158
29.08
7.33
0.00
4.94
2016
2037
1.582680
GTAATTGGGCGCGCTTTCG
60.583
57.895
32.29
0.00
39.07
3.46
2072
2093
4.380531
CAGCTTCACACTAAAACCAGAGA
58.619
43.478
0.00
0.00
0.00
3.10
2076
2097
2.618241
CTGCAGCTTCACACTAAAACCA
59.382
45.455
0.00
0.00
0.00
3.67
2079
2100
2.549754
GCTCTGCAGCTTCACACTAAAA
59.450
45.455
9.47
0.00
43.09
1.52
2346
3360
5.809562
CCAAACTCTTGAGCTAGTCTATGTG
59.190
44.000
0.00
0.00
34.14
3.21
2370
3384
2.627699
TGGCAAGGAAATCACCAACTTC
59.372
45.455
0.00
0.00
0.00
3.01
2577
3591
1.425066
TGATGAGCTCCCAGTTTTGGT
59.575
47.619
12.15
0.00
43.40
3.67
2639
3653
1.457346
CATCCTGTGAGCAAAGGTCC
58.543
55.000
6.60
0.00
34.94
4.46
2706
3720
0.036952
CCTTCACTGTGATCTGCCGT
60.037
55.000
11.86
0.00
0.00
5.68
2738
3752
1.975680
AGTCCTTGTCGCCTCCTTTAA
59.024
47.619
0.00
0.00
0.00
1.52
2739
3753
1.640917
AGTCCTTGTCGCCTCCTTTA
58.359
50.000
0.00
0.00
0.00
1.85
2745
3759
3.614399
CAAGAAGTCCTTGTCGCCT
57.386
52.632
0.00
0.00
45.52
5.52
2761
3775
1.478510
GATGCTCTCGACCTCCTTCAA
59.521
52.381
0.00
0.00
0.00
2.69
2838
3852
2.417239
CTCGTATATCAGAGCCCTCGTC
59.583
54.545
0.00
0.00
34.09
4.20
2871
3885
0.548031
CATAGCTTTCCAGGGAGCCA
59.452
55.000
11.01
0.21
39.71
4.75
2913
3927
2.554893
CCATAGCGAGTAGTTCTCCTCC
59.445
54.545
0.00
0.00
39.84
4.30
2997
4011
1.447140
GTTAGCACCGTCATCGCCA
60.447
57.895
0.00
0.00
35.54
5.69
3081
4095
2.151202
AGGTTTGCTACACCAACATCG
58.849
47.619
2.88
0.00
36.67
3.84
3177
4191
1.012486
CGGACTTGTTAGTGACCGGC
61.012
60.000
0.00
0.00
37.84
6.13
3188
4202
0.318445
GCTGTACACGTCGGACTTGT
60.318
55.000
21.62
21.62
34.78
3.16
3210
4224
2.606213
TCCAGGACCATCACGCCA
60.606
61.111
0.00
0.00
0.00
5.69
3270
4284
0.451783
GGGCGAAATACTTGCTGGTG
59.548
55.000
0.00
0.00
0.00
4.17
3499
4513
8.099364
ACATTGTTTACAACCATGTCTTCTAG
57.901
34.615
0.00
0.00
42.15
2.43
3552
4569
1.871039
CCCTGAAACCAACACTACACG
59.129
52.381
0.00
0.00
0.00
4.49
3572
4592
2.680312
TGAAGTGCTCATGCTACTCC
57.320
50.000
0.00
0.00
40.48
3.85
3576
4596
3.599343
ACGAAATGAAGTGCTCATGCTA
58.401
40.909
0.00
0.00
44.43
3.49
3578
4598
2.907910
ACGAAATGAAGTGCTCATGC
57.092
45.000
0.00
0.00
44.43
4.06
3621
4642
4.323417
CACCAACAAGTTATCTGGCACTA
58.677
43.478
0.00
0.00
31.74
2.74
3626
4647
4.218200
TGATTGCACCAACAAGTTATCTGG
59.782
41.667
0.00
0.00
31.96
3.86
3640
4661
7.042187
TGTTTGTTTTCAACATATGATTGCACC
60.042
33.333
10.38
1.37
41.79
5.01
3641
4662
7.849496
TGTTTGTTTTCAACATATGATTGCAC
58.151
30.769
10.38
8.22
41.79
4.57
3666
4793
6.627395
TGATCGTGTCTTATTGTTTGGTTT
57.373
33.333
0.00
0.00
0.00
3.27
3667
4794
6.429692
TGATGATCGTGTCTTATTGTTTGGTT
59.570
34.615
0.00
0.00
0.00
3.67
3668
4795
5.937540
TGATGATCGTGTCTTATTGTTTGGT
59.062
36.000
0.00
0.00
0.00
3.67
3669
4796
6.421377
TGATGATCGTGTCTTATTGTTTGG
57.579
37.500
0.00
0.00
0.00
3.28
3670
4797
7.269084
GTGTTGATGATCGTGTCTTATTGTTTG
59.731
37.037
0.00
0.00
0.00
2.93
3688
4815
1.250328
ATGTGCCTGTGGTGTTGATG
58.750
50.000
0.00
0.00
0.00
3.07
3689
4816
1.999648
AATGTGCCTGTGGTGTTGAT
58.000
45.000
0.00
0.00
0.00
2.57
3690
4817
1.408340
CAAATGTGCCTGTGGTGTTGA
59.592
47.619
0.00
0.00
0.00
3.18
3691
4818
1.408340
TCAAATGTGCCTGTGGTGTTG
59.592
47.619
0.00
0.00
0.00
3.33
3692
4819
1.774110
TCAAATGTGCCTGTGGTGTT
58.226
45.000
0.00
0.00
0.00
3.32
3693
4820
1.614903
CATCAAATGTGCCTGTGGTGT
59.385
47.619
0.00
0.00
0.00
4.16
3701
4828
2.273557
GTCATTGCCATCAAATGTGCC
58.726
47.619
0.00
0.00
35.56
5.01
3716
4843
2.026641
AGCAGTGCTTTGTGTGTCATT
58.973
42.857
13.14
0.00
33.89
2.57
3757
4933
2.204461
TTCGTCTTGGCCGTCTCCA
61.204
57.895
0.00
0.00
0.00
3.86
4108
5287
1.679977
GAAGCCATGAAGCCCTGCA
60.680
57.895
0.00
0.00
0.00
4.41
4132
5311
3.515901
ACCACCAGACAGAGTAATCCTTC
59.484
47.826
0.00
0.00
0.00
3.46
4134
5313
3.191888
ACCACCAGACAGAGTAATCCT
57.808
47.619
0.00
0.00
0.00
3.24
4140
5319
1.133792
CCCAAAACCACCAGACAGAGT
60.134
52.381
0.00
0.00
0.00
3.24
4142
5321
1.142870
CTCCCAAAACCACCAGACAGA
59.857
52.381
0.00
0.00
0.00
3.41
4143
5322
1.609208
CTCCCAAAACCACCAGACAG
58.391
55.000
0.00
0.00
0.00
3.51
4146
5325
0.467290
GTGCTCCCAAAACCACCAGA
60.467
55.000
0.00
0.00
0.00
3.86
4147
5326
0.754957
TGTGCTCCCAAAACCACCAG
60.755
55.000
0.00
0.00
0.00
4.00
4148
5327
0.324738
TTGTGCTCCCAAAACCACCA
60.325
50.000
0.00
0.00
0.00
4.17
4149
5328
0.389025
CTTGTGCTCCCAAAACCACC
59.611
55.000
0.00
0.00
0.00
4.61
4150
5329
1.338020
CTCTTGTGCTCCCAAAACCAC
59.662
52.381
0.00
0.00
0.00
4.16
4239
5422
2.443887
TACGAAGTTTTAGCGGCACT
57.556
45.000
1.45
0.00
37.78
4.40
4255
5438
2.160117
CGTGCAATGCAAAAGCTTTACG
60.160
45.455
10.44
11.95
41.47
3.18
4256
5439
2.155539
CCGTGCAATGCAAAAGCTTTAC
59.844
45.455
10.44
8.62
41.47
2.01
4321
5506
3.123620
CTGAAGCAGTGCCGGAGC
61.124
66.667
12.58
2.48
40.48
4.70
4374
5559
1.899814
ACCTTGGACATGTCTCGCTAA
59.100
47.619
24.50
11.44
0.00
3.09
4379
5564
2.227388
CAGCAAACCTTGGACATGTCTC
59.773
50.000
24.50
15.19
0.00
3.36
4416
5601
2.106857
ACGGTCACCCCACTTCAATTAA
59.893
45.455
0.00
0.00
0.00
1.40
4437
5622
2.422597
CACTTTTATCGGTGTGCTCCA
58.577
47.619
0.00
0.00
0.00
3.86
4458
5643
5.659463
TGTTGGAAAATCTGTTCAACAAGG
58.341
37.500
0.00
0.00
31.57
3.61
4461
5646
6.871844
TCAATGTTGGAAAATCTGTTCAACA
58.128
32.000
9.17
9.17
35.26
3.33
4464
5649
5.068855
TGCTCAATGTTGGAAAATCTGTTCA
59.931
36.000
0.00
0.00
0.00
3.18
4465
5650
5.531634
TGCTCAATGTTGGAAAATCTGTTC
58.468
37.500
0.00
0.00
0.00
3.18
4466
5651
5.534207
TGCTCAATGTTGGAAAATCTGTT
57.466
34.783
0.00
0.00
0.00
3.16
4467
5652
5.534207
TTGCTCAATGTTGGAAAATCTGT
57.466
34.783
0.00
0.00
0.00
3.41
4468
5653
5.350365
CCATTGCTCAATGTTGGAAAATCTG
59.650
40.000
18.07
0.00
44.97
2.90
4469
5654
5.484715
CCATTGCTCAATGTTGGAAAATCT
58.515
37.500
18.07
0.00
44.97
2.40
4470
5655
5.789710
CCATTGCTCAATGTTGGAAAATC
57.210
39.130
18.07
0.00
44.97
2.17
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.