Multiple sequence alignment - TraesCS1B01G157700
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
TraesCS1B01G157700
chr1B
100.000
4262
0
0
1
4262
267971940
267967679
0
7871
1
TraesCS1B01G157700
chr1A
93.398
4317
151
56
4
4262
239106252
239102012
0
6270
2
TraesCS1B01G157700
chr1D
91.923
3479
152
36
2
3431
193364215
193360817
0
4748
3
TraesCS1B01G157700
chr1D
97.689
779
17
1
3484
4262
193360819
193360042
0
1338
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
TraesCS1B01G157700
chr1B
267967679
267971940
4261
True
7871
7871
100.000
1
4262
1
chr1B.!!$R1
4261
1
TraesCS1B01G157700
chr1A
239102012
239106252
4240
True
6270
6270
93.398
4
4262
1
chr1A.!!$R1
4258
2
TraesCS1B01G157700
chr1D
193360042
193364215
4173
True
3043
4748
94.806
2
4262
2
chr1D.!!$R1
4260
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
250
264
0.029567
CACCATACTCGTCTCGCCTC
59.970
60.0
0.0
0.0
0.0
4.70
F
1293
1334
0.036388
TCCGCATCTTCACCTTCCAC
60.036
55.0
0.0
0.0
0.0
4.02
F
2161
2212
0.179121
CGGTATGTAACGAGCAGCCA
60.179
55.0
0.0
0.0
0.0
4.75
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
1529
1570
0.034059
GGTTGATGATCGGATCGCCT
59.966
55.000
12.99
0.84
0.00
5.52
R
2202
2260
0.748450
ATTGCGCCATGGAATTGAGG
59.252
50.000
18.40
0.00
34.61
3.86
R
4038
4127
3.334583
TCCGGAGCATGCTATATTTCC
57.665
47.619
22.74
15.62
0.00
3.13
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
128
140
9.716507
TTTCTTCTTTTGAACTTTGATTACTCG
57.283
29.630
0.00
0.00
34.31
4.18
234
248
1.228552
AACACCTGCACCCATCACC
60.229
57.895
0.00
0.00
0.00
4.02
235
249
2.005606
AACACCTGCACCCATCACCA
62.006
55.000
0.00
0.00
0.00
4.17
236
250
1.000521
CACCTGCACCCATCACCAT
60.001
57.895
0.00
0.00
0.00
3.55
237
251
0.255604
CACCTGCACCCATCACCATA
59.744
55.000
0.00
0.00
0.00
2.74
238
252
0.255890
ACCTGCACCCATCACCATAC
59.744
55.000
0.00
0.00
0.00
2.39
239
253
0.548031
CCTGCACCCATCACCATACT
59.452
55.000
0.00
0.00
0.00
2.12
240
254
1.475751
CCTGCACCCATCACCATACTC
60.476
57.143
0.00
0.00
0.00
2.59
241
255
0.177836
TGCACCCATCACCATACTCG
59.822
55.000
0.00
0.00
0.00
4.18
242
256
0.178068
GCACCCATCACCATACTCGT
59.822
55.000
0.00
0.00
0.00
4.18
243
257
1.806623
GCACCCATCACCATACTCGTC
60.807
57.143
0.00
0.00
0.00
4.20
244
258
1.757118
CACCCATCACCATACTCGTCT
59.243
52.381
0.00
0.00
0.00
4.18
245
259
2.032620
ACCCATCACCATACTCGTCTC
58.967
52.381
0.00
0.00
0.00
3.36
246
260
1.001268
CCCATCACCATACTCGTCTCG
60.001
57.143
0.00
0.00
0.00
4.04
247
261
1.600663
CCATCACCATACTCGTCTCGC
60.601
57.143
0.00
0.00
0.00
5.03
248
262
0.669077
ATCACCATACTCGTCTCGCC
59.331
55.000
0.00
0.00
0.00
5.54
249
263
0.393944
TCACCATACTCGTCTCGCCT
60.394
55.000
0.00
0.00
0.00
5.52
250
264
0.029567
CACCATACTCGTCTCGCCTC
59.970
60.000
0.00
0.00
0.00
4.70
251
265
0.107116
ACCATACTCGTCTCGCCTCT
60.107
55.000
0.00
0.00
0.00
3.69
252
266
0.589223
CCATACTCGTCTCGCCTCTC
59.411
60.000
0.00
0.00
0.00
3.20
253
267
0.233590
CATACTCGTCTCGCCTCTCG
59.766
60.000
0.00
0.00
40.15
4.04
254
268
1.500512
ATACTCGTCTCGCCTCTCGC
61.501
60.000
0.00
0.00
38.27
5.03
255
269
4.244802
CTCGTCTCGCCTCTCGCC
62.245
72.222
0.00
0.00
38.27
5.54
376
399
1.825191
CCGGCCATCCATTGACCTG
60.825
63.158
2.24
0.00
0.00
4.00
384
407
4.384056
CCATCCATTGACCTGCTAACTAG
58.616
47.826
0.00
0.00
0.00
2.57
477
503
0.322906
GGCTCAGCTAGGTGGCTTTT
60.323
55.000
24.72
0.00
41.00
2.27
503
529
3.119096
GAGCAGGAAACGACCCGC
61.119
66.667
0.00
0.00
0.00
6.13
520
546
1.743252
GCCCCGTGAAGAGAGCTTG
60.743
63.158
0.00
0.00
33.61
4.01
537
568
5.036117
AGCTTGGTGTCTTTCAACTTCTA
57.964
39.130
0.00
0.00
34.34
2.10
547
578
5.048013
GTCTTTCAACTTCTATTGGGTTGGG
60.048
44.000
0.00
0.00
40.20
4.12
559
590
0.756294
GGGTTGGGTTTGGACTTTGG
59.244
55.000
0.00
0.00
0.00
3.28
564
595
2.661718
TGGGTTTGGACTTTGGAGAAC
58.338
47.619
0.00
0.00
0.00
3.01
565
596
2.024846
TGGGTTTGGACTTTGGAGAACA
60.025
45.455
0.00
0.00
0.00
3.18
566
597
3.028130
GGGTTTGGACTTTGGAGAACAA
58.972
45.455
0.00
0.00
37.28
2.83
575
606
1.593196
TTGGAGAACAAGGTTGAGCG
58.407
50.000
0.00
0.00
33.18
5.03
754
787
7.613022
AGGATCTCATCTTATTTGAAAAGTGCA
59.387
33.333
0.00
0.00
0.00
4.57
755
788
8.411683
GGATCTCATCTTATTTGAAAAGTGCAT
58.588
33.333
0.00
0.00
0.00
3.96
759
792
9.674824
CTCATCTTATTTGAAAAGTGCATATCC
57.325
33.333
0.00
0.00
0.00
2.59
772
805
3.448660
GTGCATATCCCTTTTGCCTCTTT
59.551
43.478
0.00
0.00
35.51
2.52
801
834
7.914427
ACCCCTTTAGTTTTCTTCTTTTGAT
57.086
32.000
0.00
0.00
0.00
2.57
814
847
5.363580
TCTTCTTTTGATGCCTTCAAGGTTT
59.636
36.000
5.03
0.00
44.90
3.27
815
848
5.200368
TCTTTTGATGCCTTCAAGGTTTC
57.800
39.130
5.03
3.10
44.90
2.78
816
849
3.641437
TTTGATGCCTTCAAGGTTTCG
57.359
42.857
5.03
0.00
44.90
3.46
817
850
0.881118
TGATGCCTTCAAGGTTTCGC
59.119
50.000
5.03
0.00
37.80
4.70
818
851
1.168714
GATGCCTTCAAGGTTTCGCT
58.831
50.000
5.03
0.00
37.80
4.93
819
852
1.131315
GATGCCTTCAAGGTTTCGCTC
59.869
52.381
5.03
0.00
37.80
5.03
820
853
0.108585
TGCCTTCAAGGTTTCGCTCT
59.891
50.000
5.03
0.00
37.80
4.09
821
854
0.799393
GCCTTCAAGGTTTCGCTCTC
59.201
55.000
5.03
0.00
37.80
3.20
822
855
1.609320
GCCTTCAAGGTTTCGCTCTCT
60.609
52.381
5.03
0.00
37.80
3.10
823
856
2.342179
CCTTCAAGGTTTCGCTCTCTC
58.658
52.381
0.00
0.00
0.00
3.20
824
857
2.028567
CCTTCAAGGTTTCGCTCTCTCT
60.029
50.000
0.00
0.00
0.00
3.10
825
858
3.249917
CTTCAAGGTTTCGCTCTCTCTC
58.750
50.000
0.00
0.00
0.00
3.20
826
859
2.520069
TCAAGGTTTCGCTCTCTCTCT
58.480
47.619
0.00
0.00
0.00
3.10
827
860
2.490115
TCAAGGTTTCGCTCTCTCTCTC
59.510
50.000
0.00
0.00
0.00
3.20
828
861
2.491693
CAAGGTTTCGCTCTCTCTCTCT
59.508
50.000
0.00
0.00
0.00
3.10
829
862
2.365582
AGGTTTCGCTCTCTCTCTCTC
58.634
52.381
0.00
0.00
0.00
3.20
830
863
2.026262
AGGTTTCGCTCTCTCTCTCTCT
60.026
50.000
0.00
0.00
0.00
3.10
831
864
2.354821
GGTTTCGCTCTCTCTCTCTCTC
59.645
54.545
0.00
0.00
0.00
3.20
832
865
3.270877
GTTTCGCTCTCTCTCTCTCTCT
58.729
50.000
0.00
0.00
0.00
3.10
833
866
2.890808
TCGCTCTCTCTCTCTCTCTC
57.109
55.000
0.00
0.00
0.00
3.20
834
867
2.388735
TCGCTCTCTCTCTCTCTCTCT
58.611
52.381
0.00
0.00
0.00
3.10
835
868
2.362397
TCGCTCTCTCTCTCTCTCTCTC
59.638
54.545
0.00
0.00
0.00
3.20
836
869
2.363680
CGCTCTCTCTCTCTCTCTCTCT
59.636
54.545
0.00
0.00
0.00
3.10
837
870
3.551863
CGCTCTCTCTCTCTCTCTCTCTC
60.552
56.522
0.00
0.00
0.00
3.20
848
881
5.103728
TCTCTCTCTCTCTCTCTCTCTCTCT
60.104
48.000
0.00
0.00
0.00
3.10
874
910
5.191722
TCCTTCTGGTTGTAGAATAATGGCT
59.808
40.000
0.00
0.00
36.21
4.75
875
911
5.529060
CCTTCTGGTTGTAGAATAATGGCTC
59.471
44.000
0.00
0.00
36.21
4.70
876
912
5.957771
TCTGGTTGTAGAATAATGGCTCT
57.042
39.130
0.00
0.00
0.00
4.09
877
913
6.313519
TCTGGTTGTAGAATAATGGCTCTT
57.686
37.500
0.00
0.00
0.00
2.85
878
914
6.721318
TCTGGTTGTAGAATAATGGCTCTTT
58.279
36.000
0.00
0.00
0.00
2.52
879
915
7.175104
TCTGGTTGTAGAATAATGGCTCTTTT
58.825
34.615
0.00
0.00
0.00
2.27
880
916
7.336931
TCTGGTTGTAGAATAATGGCTCTTTTC
59.663
37.037
0.00
0.00
0.00
2.29
881
917
6.377146
TGGTTGTAGAATAATGGCTCTTTTCC
59.623
38.462
0.00
0.00
0.00
3.13
956
992
0.673644
GAGAGCTTGCCTTTACCGCA
60.674
55.000
0.00
0.00
0.00
5.69
1030
1068
0.548031
TTATTGCAGAGCAGGAGGGG
59.452
55.000
0.00
0.00
40.61
4.79
1031
1069
1.348008
TATTGCAGAGCAGGAGGGGG
61.348
60.000
0.00
0.00
40.61
5.40
1106
1147
3.478274
GGAGGAGGAGCTGCAGGG
61.478
72.222
17.12
0.00
0.00
4.45
1157
1198
2.202797
CAGCATCTCCACGGACCG
60.203
66.667
13.61
13.61
0.00
4.79
1237
1278
2.283388
AGTCCTTCGGCCGGTACA
60.283
61.111
27.83
1.61
0.00
2.90
1293
1334
0.036388
TCCGCATCTTCACCTTCCAC
60.036
55.000
0.00
0.00
0.00
4.02
1332
1373
1.963338
GAGCTTCAGCCGTGCACTT
60.963
57.895
16.19
0.00
43.38
3.16
1341
1382
0.810031
GCCGTGCACTTATGATCGGT
60.810
55.000
16.19
0.00
42.01
4.69
1460
1501
2.290577
GCCTCCAGGTGACATTCTCTTT
60.291
50.000
0.00
0.00
37.57
2.52
1497
1538
2.046892
CCAGCTCCACCCAACTCG
60.047
66.667
0.00
0.00
0.00
4.18
1523
1564
3.430042
AACATGGTGTCAGAGCTCATT
57.570
42.857
17.77
0.00
0.00
2.57
1529
1570
2.093288
GGTGTCAGAGCTCATTCATGGA
60.093
50.000
17.77
0.00
0.00
3.41
1532
1573
1.140452
TCAGAGCTCATTCATGGAGGC
59.860
52.381
17.77
0.00
32.96
4.70
1545
1586
1.967535
GGAGGCGATCCGATCATCA
59.032
57.895
9.07
0.00
38.67
3.07
1561
1602
1.130373
CATCAACCCGAACAACCATCG
59.870
52.381
0.00
0.00
39.92
3.84
1577
1618
2.420642
CATCGGTAATCTGGATGGCTG
58.579
52.381
0.00
0.00
35.15
4.85
1581
1622
2.613977
CGGTAATCTGGATGGCTGGATC
60.614
54.545
0.00
0.00
0.00
3.36
1620
1661
2.292267
CTTTGATTCGTCATCCAGGGG
58.708
52.381
0.00
0.00
0.00
4.79
1869
1910
2.673368
CAAGTACCTGCACGAAGATTCC
59.327
50.000
0.00
0.00
0.00
3.01
1885
1926
5.104259
AGATTCCGAATTCAAGGTAAGCT
57.896
39.130
6.22
2.37
0.00
3.74
1994
2044
4.229582
TGCCTTTTACCCAGTCCTGATATT
59.770
41.667
0.00
0.00
0.00
1.28
1995
2045
4.580580
GCCTTTTACCCAGTCCTGATATTG
59.419
45.833
0.00
0.00
0.00
1.90
2000
2050
2.171448
ACCCAGTCCTGATATTGTCTGC
59.829
50.000
0.00
0.00
0.00
4.26
2012
2063
7.065923
CCTGATATTGTCTGCCATCTATGAATG
59.934
40.741
0.00
0.00
0.00
2.67
2014
2065
8.596293
TGATATTGTCTGCCATCTATGAATGTA
58.404
33.333
0.00
0.00
0.00
2.29
2080
2131
2.426183
CGACGAGAACTGGAACGCG
61.426
63.158
3.53
3.53
35.67
6.01
2161
2212
0.179121
CGGTATGTAACGAGCAGCCA
60.179
55.000
0.00
0.00
0.00
4.75
2162
2213
1.737696
CGGTATGTAACGAGCAGCCAA
60.738
52.381
0.00
0.00
0.00
4.52
2163
2214
2.352388
GGTATGTAACGAGCAGCCAAA
58.648
47.619
0.00
0.00
0.00
3.28
2202
2260
1.590932
CAGCACCTGATGGCACTATC
58.409
55.000
0.00
0.00
36.63
2.08
2247
2305
8.367156
TGCTGACATATTGAATAGCATACTGTA
58.633
33.333
0.00
0.00
36.37
2.74
2257
2315
9.719355
TTGAATAGCATACTGTAACTTTCAGAA
57.281
29.630
2.65
0.00
36.81
3.02
2288
2348
4.009675
GCAAGTTCACCCAAGTATGATCA
58.990
43.478
0.00
0.00
0.00
2.92
2303
2363
9.121658
CAAGTATGATCAGTTCAGTAGGTACTA
57.878
37.037
0.09
0.00
37.62
1.82
2367
2427
4.086457
ACTTGTCAGACAAACCCAAAACT
58.914
39.130
16.85
0.00
37.69
2.66
2482
2555
4.371855
TCCTAGATACACAAGCAGAACG
57.628
45.455
0.00
0.00
0.00
3.95
2487
2560
2.163818
TACACAAGCAGAACGAAGGG
57.836
50.000
0.00
0.00
0.00
3.95
2539
2612
0.898326
TGCTAGTGCAGGAAGACCGA
60.898
55.000
0.00
0.00
45.31
4.69
2556
2629
2.103263
ACCGATTAGGAAAGCCAGCTAG
59.897
50.000
0.00
0.00
45.00
3.42
2572
2645
0.962356
CTAGCCCTGCTGGTTGGTTG
60.962
60.000
9.00
0.00
40.10
3.77
2610
2686
4.922206
TCTGGCTGATTTCCAATTGTAGT
58.078
39.130
4.43
0.00
32.41
2.73
2639
2715
9.949174
TTTATCACATGTGATGATAAATTTCCG
57.051
29.630
39.40
6.93
46.58
4.30
2658
2734
3.442977
TCCGAGTAAAAGTAGCCTCTGTC
59.557
47.826
0.00
0.00
0.00
3.51
2661
2737
4.082679
CGAGTAAAAGTAGCCTCTGTCTGT
60.083
45.833
0.00
0.00
0.00
3.41
2663
2739
6.270156
AGTAAAAGTAGCCTCTGTCTGTAC
57.730
41.667
0.00
0.00
0.00
2.90
2664
2740
5.773680
AGTAAAAGTAGCCTCTGTCTGTACA
59.226
40.000
0.00
0.00
0.00
2.90
2781
2862
4.439426
GCAGCTCCTGAGTATATCCATACG
60.439
50.000
0.00
0.00
36.12
3.06
2823
2904
6.956435
AGAATGACATATGGAGCTATGGAGTA
59.044
38.462
7.80
0.00
34.11
2.59
2972
3053
1.640917
AGGCTCGAAGGGAACTACAA
58.359
50.000
0.00
0.00
42.68
2.41
3123
3204
2.053244
CCAGAGCATCCCCTGATAAGT
58.947
52.381
0.00
0.00
33.66
2.24
3318
3399
6.182627
ACTTTGACATCCAGAGATATTTGCA
58.817
36.000
0.00
0.00
31.89
4.08
3400
3481
9.994432
GAACATGATAACTAAAAACAGGAGATG
57.006
33.333
0.00
0.00
0.00
2.90
3411
3499
1.030488
CAGGAGATGTGGCAAGCCTG
61.030
60.000
12.96
0.00
37.21
4.85
3477
3565
4.368391
CACAGGCAGTGTCCACTC
57.632
61.111
1.31
0.00
43.40
3.51
3538
3626
5.360714
TGGAAAATCAAAACTGAAGCAGTCT
59.639
36.000
0.00
0.00
44.62
3.24
3582
3670
6.773200
TGGTGTACAGTTTAACATGGAATTCA
59.227
34.615
7.93
0.00
0.00
2.57
3803
3891
9.592196
AGAATTTGCCTGTGTATATCCATAAAT
57.408
29.630
0.00
0.00
0.00
1.40
3951
4040
4.703897
TGCTAACTGCTCTTTGTGTACTT
58.296
39.130
0.00
0.00
43.37
2.24
4038
4127
7.116805
TCACTATTCATAGCACAAATCGCATAG
59.883
37.037
0.00
0.00
33.68
2.23
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
29
30
4.888326
ACAGATCTCTCAGAAAGCAACT
57.112
40.909
0.00
0.00
0.00
3.16
63
64
0.934496
CGTATGGTTGCCGTACATGG
59.066
55.000
15.32
0.00
43.93
3.66
128
140
5.241506
GGGTTGTGGGGTAGTAAAACTTAAC
59.758
44.000
0.00
0.00
0.00
2.01
131
143
3.464456
AGGGTTGTGGGGTAGTAAAACTT
59.536
43.478
0.00
0.00
0.00
2.66
234
248
0.233590
CGAGAGGCGAGACGAGTATG
59.766
60.000
0.00
0.00
44.57
2.39
235
249
1.500512
GCGAGAGGCGAGACGAGTAT
61.501
60.000
0.00
0.00
44.57
2.12
236
250
2.172372
GCGAGAGGCGAGACGAGTA
61.172
63.158
0.00
0.00
44.57
2.59
237
251
3.501548
GCGAGAGGCGAGACGAGT
61.502
66.667
0.00
0.00
44.57
4.18
247
261
1.452108
GGGTTTGGATGGCGAGAGG
60.452
63.158
0.00
0.00
0.00
3.69
248
262
0.462759
GAGGGTTTGGATGGCGAGAG
60.463
60.000
0.00
0.00
0.00
3.20
249
263
1.198094
TGAGGGTTTGGATGGCGAGA
61.198
55.000
0.00
0.00
0.00
4.04
250
264
1.026718
GTGAGGGTTTGGATGGCGAG
61.027
60.000
0.00
0.00
0.00
5.03
251
265
1.002624
GTGAGGGTTTGGATGGCGA
60.003
57.895
0.00
0.00
0.00
5.54
252
266
2.398554
CGTGAGGGTTTGGATGGCG
61.399
63.158
0.00
0.00
0.00
5.69
253
267
0.893727
AACGTGAGGGTTTGGATGGC
60.894
55.000
0.00
0.00
0.00
4.40
254
268
1.539827
GAAACGTGAGGGTTTGGATGG
59.460
52.381
0.00
0.00
40.05
3.51
255
269
2.484264
GAGAAACGTGAGGGTTTGGATG
59.516
50.000
0.00
0.00
40.05
3.51
318
341
1.781025
TTTCTGCTTGGTTGGTCGCG
61.781
55.000
0.00
0.00
0.00
5.87
376
399
3.820557
TGGATTGGATTGCCTAGTTAGC
58.179
45.455
0.00
0.00
34.31
3.09
384
407
1.069049
CGGGATTTGGATTGGATTGCC
59.931
52.381
0.00
0.00
0.00
4.52
477
503
2.459969
TTTCCTGCTCACCTGGGCA
61.460
57.895
0.00
0.00
36.94
5.36
503
529
1.078848
CCAAGCTCTCTTCACGGGG
60.079
63.158
0.00
0.00
0.00
5.73
520
546
5.070685
ACCCAATAGAAGTTGAAAGACACC
58.929
41.667
0.00
0.00
0.00
4.16
537
568
2.437651
CAAAGTCCAAACCCAACCCAAT
59.562
45.455
0.00
0.00
0.00
3.16
547
578
3.699538
ACCTTGTTCTCCAAAGTCCAAAC
59.300
43.478
0.00
0.00
31.20
2.93
559
590
1.264288
CAACCGCTCAACCTTGTTCTC
59.736
52.381
0.00
0.00
0.00
2.87
564
595
0.030638
CAACCAACCGCTCAACCTTG
59.969
55.000
0.00
0.00
0.00
3.61
565
596
1.106944
CCAACCAACCGCTCAACCTT
61.107
55.000
0.00
0.00
0.00
3.50
566
597
1.528309
CCAACCAACCGCTCAACCT
60.528
57.895
0.00
0.00
0.00
3.50
575
606
0.101579
CAACAACCGACCAACCAACC
59.898
55.000
0.00
0.00
0.00
3.77
754
787
6.295859
GGTTTCAAAAGAGGCAAAAGGGATAT
60.296
38.462
0.00
0.00
0.00
1.63
755
788
5.011635
GGTTTCAAAAGAGGCAAAAGGGATA
59.988
40.000
0.00
0.00
0.00
2.59
759
792
3.466836
GGGTTTCAAAAGAGGCAAAAGG
58.533
45.455
0.00
0.00
0.00
3.11
772
805
7.727578
AAGAAGAAAACTAAAGGGGTTTCAA
57.272
32.000
7.56
0.00
36.09
2.69
801
834
0.108585
AGAGCGAAACCTTGAAGGCA
59.891
50.000
11.96
0.00
39.63
4.75
814
847
2.362397
GAGAGAGAGAGAGAGAGAGCGA
59.638
54.545
0.00
0.00
0.00
4.93
815
848
2.363680
AGAGAGAGAGAGAGAGAGAGCG
59.636
54.545
0.00
0.00
0.00
5.03
816
849
3.640967
AGAGAGAGAGAGAGAGAGAGAGC
59.359
52.174
0.00
0.00
0.00
4.09
817
850
5.139727
AGAGAGAGAGAGAGAGAGAGAGAG
58.860
50.000
0.00
0.00
0.00
3.20
818
851
5.103728
AGAGAGAGAGAGAGAGAGAGAGAGA
60.104
48.000
0.00
0.00
0.00
3.10
819
852
5.139727
AGAGAGAGAGAGAGAGAGAGAGAG
58.860
50.000
0.00
0.00
0.00
3.20
820
853
5.103728
AGAGAGAGAGAGAGAGAGAGAGAGA
60.104
48.000
0.00
0.00
0.00
3.10
821
854
5.139727
AGAGAGAGAGAGAGAGAGAGAGAG
58.860
50.000
0.00
0.00
0.00
3.20
822
855
5.103728
AGAGAGAGAGAGAGAGAGAGAGAGA
60.104
48.000
0.00
0.00
0.00
3.10
823
856
5.139727
AGAGAGAGAGAGAGAGAGAGAGAG
58.860
50.000
0.00
0.00
0.00
3.20
824
857
5.103728
AGAGAGAGAGAGAGAGAGAGAGAGA
60.104
48.000
0.00
0.00
0.00
3.10
825
858
5.139727
AGAGAGAGAGAGAGAGAGAGAGAG
58.860
50.000
0.00
0.00
0.00
3.20
826
859
5.103728
AGAGAGAGAGAGAGAGAGAGAGAGA
60.104
48.000
0.00
0.00
0.00
3.10
827
860
5.139727
AGAGAGAGAGAGAGAGAGAGAGAG
58.860
50.000
0.00
0.00
0.00
3.20
828
861
5.136068
AGAGAGAGAGAGAGAGAGAGAGA
57.864
47.826
0.00
0.00
0.00
3.10
829
862
4.280677
GGAGAGAGAGAGAGAGAGAGAGAG
59.719
54.167
0.00
0.00
0.00
3.20
830
863
4.078922
AGGAGAGAGAGAGAGAGAGAGAGA
60.079
50.000
0.00
0.00
0.00
3.10
831
864
4.222336
AGGAGAGAGAGAGAGAGAGAGAG
58.778
52.174
0.00
0.00
0.00
3.20
832
865
4.271807
AGGAGAGAGAGAGAGAGAGAGA
57.728
50.000
0.00
0.00
0.00
3.10
833
866
4.653341
AGAAGGAGAGAGAGAGAGAGAGAG
59.347
50.000
0.00
0.00
0.00
3.20
834
867
4.406972
CAGAAGGAGAGAGAGAGAGAGAGA
59.593
50.000
0.00
0.00
0.00
3.10
835
868
4.444022
CCAGAAGGAGAGAGAGAGAGAGAG
60.444
54.167
0.00
0.00
36.89
3.20
836
869
3.455910
CCAGAAGGAGAGAGAGAGAGAGA
59.544
52.174
0.00
0.00
36.89
3.10
837
870
3.200825
ACCAGAAGGAGAGAGAGAGAGAG
59.799
52.174
0.00
0.00
38.69
3.20
848
881
6.632672
GCCATTATTCTACAACCAGAAGGAGA
60.633
42.308
0.00
0.00
37.93
3.71
874
910
0.593128
GCAGAAAGCAGCGGAAAAGA
59.407
50.000
0.00
0.00
44.79
2.52
875
911
3.098032
GCAGAAAGCAGCGGAAAAG
57.902
52.632
0.00
0.00
44.79
2.27
918
954
3.055819
TCTCGGATCTTGGAAGTTGGAAG
60.056
47.826
0.00
0.00
0.00
3.46
919
955
2.903784
TCTCGGATCTTGGAAGTTGGAA
59.096
45.455
0.00
0.00
0.00
3.53
920
956
2.497675
CTCTCGGATCTTGGAAGTTGGA
59.502
50.000
0.00
0.00
0.00
3.53
921
957
2.898705
CTCTCGGATCTTGGAAGTTGG
58.101
52.381
0.00
0.00
0.00
3.77
922
958
2.093764
AGCTCTCGGATCTTGGAAGTTG
60.094
50.000
0.00
0.00
0.00
3.16
923
959
2.183679
AGCTCTCGGATCTTGGAAGTT
58.816
47.619
0.00
0.00
0.00
2.66
924
960
1.859302
AGCTCTCGGATCTTGGAAGT
58.141
50.000
0.00
0.00
0.00
3.01
956
992
9.635404
AGCTACTATAGTAATCAGTTTCAGACT
57.365
33.333
13.51
0.30
39.89
3.24
989
1025
1.171549
TGACAGCATCAAAGGCGCAA
61.172
50.000
10.83
0.00
33.02
4.85
1030
1068
0.110010
GCGCTTCTTCTGCTTTGACC
60.110
55.000
0.00
0.00
0.00
4.02
1031
1069
0.451792
CGCGCTTCTTCTGCTTTGAC
60.452
55.000
5.56
0.00
0.00
3.18
1106
1147
3.941657
GACTGAGACCGTGCAGGCC
62.942
68.421
0.00
0.00
46.52
5.19
1293
1334
3.184683
GTGGCGCTCTTGAGCTCG
61.185
66.667
18.75
7.03
39.02
5.03
1332
1373
1.046472
AACCGCCCTCACCGATCATA
61.046
55.000
0.00
0.00
0.00
2.15
1341
1382
2.597217
CAGCCAAAACCGCCCTCA
60.597
61.111
0.00
0.00
0.00
3.86
1460
1501
3.324268
TGGAAGCAATGCATGAGGAAAAA
59.676
39.130
8.35
0.00
0.00
1.94
1497
1538
2.098117
GCTCTGACACCATGTTTATGCC
59.902
50.000
0.00
0.00
32.79
4.40
1523
1564
0.827507
TGATCGGATCGCCTCCATGA
60.828
55.000
12.99
0.00
45.24
3.07
1529
1570
0.034059
GGTTGATGATCGGATCGCCT
59.966
55.000
12.99
0.84
0.00
5.52
1532
1573
0.313987
TCGGGTTGATGATCGGATCG
59.686
55.000
12.99
0.00
0.00
3.69
1561
1602
2.290577
GGATCCAGCCATCCAGATTACC
60.291
54.545
6.95
0.00
42.02
2.85
1577
1618
4.217118
GCATTGGTGTTATCATCTGGATCC
59.783
45.833
4.20
4.20
37.44
3.36
1581
1622
5.125900
TCAAAGCATTGGTGTTATCATCTGG
59.874
40.000
1.24
0.00
37.15
3.86
1620
1661
1.134220
TCGGTCACCCATTCCTTATGC
60.134
52.381
0.00
0.00
32.60
3.14
1836
1877
0.889306
GGTACTTGAGACCACGAGCT
59.111
55.000
0.00
0.00
36.91
4.09
1869
1910
3.678072
TGACGAAGCTTACCTTGAATTCG
59.322
43.478
0.00
0.00
43.67
3.34
1885
1926
1.887242
GCCGCATGCCTATGACGAA
60.887
57.895
13.15
0.00
36.56
3.85
1994
2044
7.071069
AGAATACATTCATAGATGGCAGACA
57.929
36.000
4.85
0.00
39.23
3.41
1995
2045
7.118971
GGAAGAATACATTCATAGATGGCAGAC
59.881
40.741
4.85
0.00
39.23
3.51
2080
2131
0.319641
AGCCGAAGTCCGACAGTTTC
60.320
55.000
0.40
0.00
41.76
2.78
2162
2213
3.966665
TGGACAAAGAAGATGGGCTTTTT
59.033
39.130
0.00
0.00
36.83
1.94
2163
2214
3.575687
CTGGACAAAGAAGATGGGCTTTT
59.424
43.478
0.00
0.00
36.83
2.27
2202
2260
0.748450
ATTGCGCCATGGAATTGAGG
59.252
50.000
18.40
0.00
34.61
3.86
2247
2305
3.089573
GCAAAGCTGCTTCTGAAAGTT
57.910
42.857
16.28
0.00
45.74
2.66
2288
2348
6.215227
ACTGACTACCTAGTACCTACTGAACT
59.785
42.308
0.00
0.00
36.50
3.01
2303
2363
6.663953
TGAACTATTCTTGCTACTGACTACCT
59.336
38.462
0.00
0.00
0.00
3.08
2390
2451
2.283298
CTGCTAAGCATCCATTCACGT
58.717
47.619
0.00
0.00
38.13
4.49
2482
2555
0.909623
TGCCTAACTGCCTACCCTTC
59.090
55.000
0.00
0.00
0.00
3.46
2539
2612
1.143889
GGGCTAGCTGGCTTTCCTAAT
59.856
52.381
22.23
0.00
41.48
1.73
2556
2629
1.398958
TTTCAACCAACCAGCAGGGC
61.399
55.000
0.00
0.00
42.05
5.19
2572
2645
5.635417
AGCCAGAAAAGTTAGCTGATTTC
57.365
39.130
0.00
1.95
31.23
2.17
2639
2715
5.394224
ACAGACAGAGGCTACTTTTACTC
57.606
43.478
0.00
0.00
0.00
2.59
2658
2734
9.121658
TGTCAGGTATCTAGAGTTAATGTACAG
57.878
37.037
0.33
0.00
0.00
2.74
2781
2862
1.153549
CTTACTGCTGAGGCGTCCC
60.154
63.158
3.56
0.00
42.25
4.46
2972
3053
3.540211
CTGACTGCCGATTTCAGGT
57.460
52.632
0.00
0.00
35.94
4.00
3269
3350
7.172875
GTCATAAAGAGGAACATCTCATCCATG
59.827
40.741
0.00
0.00
35.35
3.66
3582
3670
7.043565
ACTCAAAATTCAGTCAGCAAAAATGT
58.956
30.769
0.00
0.00
0.00
2.71
3898
3987
3.888930
TGACCTGTGAATCCACCTTTTTC
59.111
43.478
0.00
0.00
42.53
2.29
3977
4066
8.258007
TCCTGAAAGTCATATGGTACTTTACTG
58.742
37.037
17.81
14.70
43.97
2.74
4038
4127
3.334583
TCCGGAGCATGCTATATTTCC
57.665
47.619
22.74
15.62
0.00
3.13
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.