Multiple sequence alignment - TraesCS1B01G362400
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
TraesCS1B01G362400
chr1B
100.000
2661
0
0
1
2661
591229511
591226851
0.000000e+00
4915.0
1
TraesCS1B01G362400
chr1D
91.345
1294
74
18
661
1931
436211214
436209936
0.000000e+00
1735.0
2
TraesCS1B01G362400
chr1D
82.850
379
45
10
1
367
436211737
436211367
3.300000e-84
322.0
3
TraesCS1B01G362400
chr1D
87.681
276
13
11
1968
2226
436209832
436209561
4.300000e-78
302.0
4
TraesCS1B01G362400
chr1D
88.235
119
11
3
2309
2424
436209410
436209292
3.570000e-29
139.0
5
TraesCS1B01G362400
chr1D
94.505
91
2
1
2563
2650
436209207
436209117
1.280000e-28
137.0
6
TraesCS1B01G362400
chr1D
84.884
86
8
1
2236
2316
436209523
436209438
6.110000e-12
82.4
7
TraesCS1B01G362400
chr1A
83.681
1967
118
91
370
2226
533462902
533461029
0.000000e+00
1666.0
8
TraesCS1B01G362400
chr1A
87.676
284
28
4
2359
2636
533460297
533460015
9.190000e-85
324.0
9
TraesCS1B01G362400
chr1A
80.670
388
38
23
1
372
533463312
533462946
1.570000e-67
267.0
10
TraesCS1B01G362400
chr1A
86.207
87
6
2
2219
2299
533461005
533460919
3.650000e-14
89.8
11
TraesCS1B01G362400
chr3B
80.952
399
36
15
3
373
565435141
565435527
2.020000e-71
279.0
12
TraesCS1B01G362400
chr3B
78.270
497
55
26
397
866
565565428
565565898
1.210000e-68
270.0
13
TraesCS1B01G362400
chr3B
86.842
190
14
4
3
185
565564968
565565153
4.490000e-48
202.0
14
TraesCS1B01G362400
chr3A
80.260
385
54
9
3
373
571399418
571399794
1.210000e-68
270.0
15
TraesCS1B01G362400
chr3D
78.772
391
39
26
3
373
433193396
433193762
3.450000e-54
222.0
16
TraesCS1B01G362400
chr3D
77.136
433
58
22
449
866
433194080
433194486
2.070000e-51
213.0
17
TraesCS1B01G362400
chr5B
81.026
195
21
7
2322
2515
461444625
461444446
9.930000e-30
141.0
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
TraesCS1B01G362400
chr1B
591226851
591229511
2660
True
4915.0
4915
100.0000
1
2661
1
chr1B.!!$R1
2660
1
TraesCS1B01G362400
chr1D
436209117
436211737
2620
True
452.9
1735
88.2500
1
2650
6
chr1D.!!$R1
2649
2
TraesCS1B01G362400
chr1A
533460015
533463312
3297
True
586.7
1666
84.5585
1
2636
4
chr1A.!!$R1
2635
3
TraesCS1B01G362400
chr3B
565564968
565565898
930
False
236.0
270
82.5560
3
866
2
chr3B.!!$F2
863
4
TraesCS1B01G362400
chr3D
433193396
433194486
1090
False
217.5
222
77.9540
3
866
2
chr3D.!!$F1
863
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
657
965
0.033011
ATAGGCTCTCTGGTCGTGGT
60.033
55.0
0.0
0.0
0.0
4.16
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
2552
3621
0.251033
GCTTCGGGTTAAGGGTTGGT
60.251
55.0
0.0
0.0
0.0
3.67
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
125
4.446371
CAAGTGGGACAGATCACTATTCC
58.554
47.826
0.00
0.00
42.67
3.01
122
133
3.456277
GACAGATCACTATTCCCAACCCT
59.544
47.826
0.00
0.00
0.00
4.34
123
134
3.200825
ACAGATCACTATTCCCAACCCTG
59.799
47.826
0.00
0.00
0.00
4.45
124
135
2.173569
AGATCACTATTCCCAACCCTGC
59.826
50.000
0.00
0.00
0.00
4.85
125
136
1.367346
TCACTATTCCCAACCCTGCA
58.633
50.000
0.00
0.00
0.00
4.41
130
141
0.974010
ATTCCCAACCCTGCATGCAG
60.974
55.000
35.88
35.88
43.26
4.41
145
156
2.512485
TGCAGGAACAATTTGCACTG
57.488
45.000
0.00
9.80
42.41
3.66
150
161
1.202510
GGAACAATTTGCACTGTGCCA
60.203
47.619
28.17
16.39
44.23
4.92
175
186
4.405680
TGAGAGAAAGTCCAACTCACTCAA
59.594
41.667
0.00
2.84
34.84
3.02
186
197
5.186797
TCCAACTCACTCAACAAATTTGGTT
59.813
36.000
21.74
10.50
34.94
3.67
188
199
6.371271
CCAACTCACTCAACAAATTTGGTTTT
59.629
34.615
21.74
5.00
0.00
2.43
190
201
6.106003
ACTCACTCAACAAATTTGGTTTTCC
58.894
36.000
21.74
0.00
41.14
3.13
212
223
7.379059
TCCATATTCTCATGTGGAGTAACAT
57.621
36.000
0.00
0.00
43.83
2.71
227
238
4.756502
AGTAACATTCTAAGGCTCCGTTC
58.243
43.478
0.00
0.00
0.00
3.95
232
249
1.481871
TCTAAGGCTCCGTTCGGATT
58.518
50.000
14.34
8.78
33.34
3.01
245
271
6.781138
TCCGTTCGGATTTTGATATTGAAAG
58.219
36.000
10.00
0.00
0.00
2.62
287
313
8.827832
TCAAATCTCCCAGACATTGATAATTT
57.172
30.769
0.00
0.00
32.08
1.82
288
314
8.689061
TCAAATCTCCCAGACATTGATAATTTG
58.311
33.333
0.00
0.00
32.08
2.32
289
315
8.689061
CAAATCTCCCAGACATTGATAATTTGA
58.311
33.333
0.00
0.00
34.11
2.69
290
316
9.430399
AAATCTCCCAGACATTGATAATTTGAT
57.570
29.630
0.00
0.00
0.00
2.57
311
337
9.950680
TTTGATATTGAAACTGAAACTGAACTC
57.049
29.630
0.00
0.00
0.00
3.01
314
340
5.818136
TTGAAACTGAAACTGAACTCTGG
57.182
39.130
0.00
0.00
0.00
3.86
333
361
4.338118
TCTGGTGTTTGGATGTTCAAGAAC
59.662
41.667
6.01
6.01
41.50
3.01
363
391
5.082251
TGGAATTCACATGAGAGACTCAG
57.918
43.478
7.93
3.13
44.08
3.35
367
395
3.839051
TCACATGAGAGACTCAGTTCG
57.161
47.619
5.02
0.00
44.08
3.95
395
505
9.685276
AATAGGATGAACATTGTACTTTGATGA
57.315
29.630
0.00
0.00
0.00
2.92
431
549
8.340618
ACTAACTTCTATGCAACATGTGAATT
57.659
30.769
0.00
0.00
0.00
2.17
468
750
9.508642
TGGTTATATACATCAAGAACACAACAA
57.491
29.630
0.00
0.00
0.00
2.83
477
759
4.697828
TCAAGAACACAACAACAGCACTTA
59.302
37.500
0.00
0.00
0.00
2.24
484
766
6.262601
ACACAACAACAGCACTTATACAAAC
58.737
36.000
0.00
0.00
0.00
2.93
486
768
6.414694
CACAACAACAGCACTTATACAAACAG
59.585
38.462
0.00
0.00
0.00
3.16
487
769
5.108385
ACAACAGCACTTATACAAACAGC
57.892
39.130
0.00
0.00
0.00
4.40
488
770
4.151070
CAACAGCACTTATACAAACAGCG
58.849
43.478
0.00
0.00
0.00
5.18
505
788
4.006989
ACAGCGGCACATATACAAAGAAA
58.993
39.130
1.45
0.00
0.00
2.52
592
900
4.308458
CGGCCGTGGTTGGTGAGA
62.308
66.667
19.50
0.00
0.00
3.27
650
958
2.739784
CCGGCATAGGCTCTCTGG
59.260
66.667
0.00
0.00
40.87
3.86
651
959
2.136878
CCGGCATAGGCTCTCTGGT
61.137
63.158
0.00
0.00
40.87
4.00
652
960
1.365633
CGGCATAGGCTCTCTGGTC
59.634
63.158
0.00
0.00
40.87
4.02
653
961
1.365633
GGCATAGGCTCTCTGGTCG
59.634
63.158
0.00
0.00
40.87
4.79
654
962
1.395826
GGCATAGGCTCTCTGGTCGT
61.396
60.000
0.00
0.00
40.87
4.34
655
963
0.249238
GCATAGGCTCTCTGGTCGTG
60.249
60.000
0.00
0.00
36.96
4.35
656
964
0.387202
CATAGGCTCTCTGGTCGTGG
59.613
60.000
0.00
0.00
0.00
4.94
657
965
0.033011
ATAGGCTCTCTGGTCGTGGT
60.033
55.000
0.00
0.00
0.00
4.16
658
966
0.251653
TAGGCTCTCTGGTCGTGGTT
60.252
55.000
0.00
0.00
0.00
3.67
762
1083
3.771160
GCGGGCGGAGAGAAGGAA
61.771
66.667
0.00
0.00
0.00
3.36
900
1232
9.050601
CAAATATGTGGAGGATCTTCTAGAAAC
57.949
37.037
6.63
0.00
33.73
2.78
901
1233
7.921041
ATATGTGGAGGATCTTCTAGAAACA
57.079
36.000
6.63
5.78
33.73
2.83
902
1234
6.627087
ATGTGGAGGATCTTCTAGAAACAA
57.373
37.500
6.63
0.00
33.73
2.83
903
1235
6.433847
TGTGGAGGATCTTCTAGAAACAAA
57.566
37.500
6.63
0.00
33.73
2.83
904
1236
6.837312
TGTGGAGGATCTTCTAGAAACAAAA
58.163
36.000
6.63
0.00
33.73
2.44
905
1237
7.287061
TGTGGAGGATCTTCTAGAAACAAAAA
58.713
34.615
6.63
0.00
33.73
1.94
1014
1346
1.066918
CGACCCGTATTCTTCCCCG
59.933
63.158
0.00
0.00
0.00
5.73
1308
1664
0.317269
ACGACGAAGAAAGCGACGAA
60.317
50.000
13.67
0.00
46.35
3.85
1318
1674
0.033504
AAGCGACGAAGAAGAAGGCA
59.966
50.000
0.00
0.00
0.00
4.75
1543
1904
1.821753
AGATGAGTTCTCGACCCACAG
59.178
52.381
0.00
0.00
0.00
3.66
1567
1928
2.799412
CACTGTGAGTTGTGAGAGCTTC
59.201
50.000
0.32
0.00
36.38
3.86
1573
1934
3.056250
TGAGTTGTGAGAGCTTCTGATCC
60.056
47.826
0.00
0.00
0.00
3.36
1584
1945
2.678190
GCTTCTGATCCGCCTTTGTACT
60.678
50.000
0.00
0.00
0.00
2.73
1620
1981
4.918588
TGTATCGCCATAGATCCAGTAGA
58.081
43.478
0.00
0.00
32.39
2.59
1648
2010
0.796312
TCGCTGCTTCGGAATGAAAC
59.204
50.000
0.00
0.00
35.79
2.78
1684
2048
1.000938
CGCCGATGAGATCAGTGATCA
60.001
52.381
30.05
16.12
41.12
2.92
1778
2146
1.064654
GTGGAGAAATCCGAATGCTGC
59.935
52.381
0.00
0.00
0.00
5.25
1803
2171
0.811616
CTGCTCTCCGTGGGCATAAC
60.812
60.000
0.65
0.00
35.37
1.89
1804
2172
1.264749
TGCTCTCCGTGGGCATAACT
61.265
55.000
0.00
0.00
0.00
2.24
1819
2187
4.083217
GGCATAACTCTCGACGATATCTGT
60.083
45.833
0.00
0.56
0.00
3.41
1820
2188
4.848841
GCATAACTCTCGACGATATCTGTG
59.151
45.833
0.00
0.00
0.00
3.66
1871
2239
8.726650
TGTGAAATTTTCAGTTGTATGAATCG
57.273
30.769
12.02
0.00
41.01
3.34
1879
2247
3.071479
AGTTGTATGAATCGGCAAACGT
58.929
40.909
0.00
0.00
44.69
3.99
1889
2257
5.399892
TGAATCGGCAAACGTTTAATTTGTC
59.600
36.000
14.20
2.00
44.69
3.18
1905
2273
1.363807
GTCTGTGCCCTTGTTTGCC
59.636
57.895
0.00
0.00
0.00
4.52
1963
2358
8.806429
AAGTGATCATGTAATTGGTATTCACA
57.194
30.769
0.00
0.00
0.00
3.58
1966
2361
5.733226
TCATGTAATTGGTATTCACAGCG
57.267
39.130
0.00
0.00
0.00
5.18
2020
2468
3.494626
ACAAGTACAGATTCAAGCACACG
59.505
43.478
0.00
0.00
0.00
4.49
2032
2480
2.100031
GCACACGTCCGCATCATCA
61.100
57.895
0.89
0.00
0.00
3.07
2033
2481
2.001357
CACACGTCCGCATCATCAG
58.999
57.895
0.00
0.00
0.00
2.90
2073
2521
3.272574
ACACACTCAATGATAGGCAGG
57.727
47.619
0.00
0.00
0.00
4.85
2128
2580
4.175516
ACGCCATGAACATTGCAAATAAG
58.824
39.130
1.71
0.00
30.63
1.73
2167
2619
4.262249
GCTCTGTACTATCCCAGAACCATC
60.262
50.000
0.00
0.00
37.27
3.51
2168
2620
5.144100
CTCTGTACTATCCCAGAACCATCT
58.856
45.833
0.00
0.00
37.27
2.90
2209
2674
8.213679
TGAATGGAATAGCTCTACTGCTAATTT
58.786
33.333
0.00
0.00
46.81
1.82
2213
2678
9.494271
TGGAATAGCTCTACTGCTAATTTATTG
57.506
33.333
0.00
0.00
46.81
1.90
2226
2691
6.127925
TGCTAATTTATTGAGACAGGCAAGTG
60.128
38.462
0.00
0.00
0.00
3.16
2228
2693
6.506500
AATTTATTGAGACAGGCAAGTGAG
57.493
37.500
0.00
0.00
0.00
3.51
2234
2731
7.603180
ATTGAGACAGGCAAGTGAGTATATA
57.397
36.000
0.00
0.00
0.00
0.86
2260
2757
2.100584
GCTGGAACACAACATCACCAAA
59.899
45.455
0.00
0.00
0.00
3.28
2269
2771
4.566360
CACAACATCACCAAACAAAACCTC
59.434
41.667
0.00
0.00
0.00
3.85
2302
2840
2.857592
AATTCAGACAATCATGCCGC
57.142
45.000
0.00
0.00
0.00
6.53
2307
2845
1.004610
CAGACAATCATGCCGCGTAAG
60.005
52.381
4.92
0.00
43.44
2.34
2404
3468
8.944212
AAAGAACATAAATTCGTTTTCTACCG
57.056
30.769
0.00
0.00
33.57
4.02
2423
3489
8.624701
TCTACCGATAAAAGAAACTGTAATCG
57.375
34.615
0.00
0.00
35.68
3.34
2429
3495
8.388103
CGATAAAAGAAACTGTAATCGGACAAT
58.612
33.333
0.00
0.00
33.10
2.71
2433
3499
8.786826
AAAGAAACTGTAATCGGACAATATGA
57.213
30.769
0.00
0.00
0.00
2.15
2459
3526
5.901552
TCGATGAATCAGCTATACACACAA
58.098
37.500
0.00
0.00
0.00
3.33
2480
3547
5.583854
ACAATGAGTTCATCCTTTCGATCTG
59.416
40.000
0.00
0.00
35.10
2.90
2484
3551
4.753233
AGTTCATCCTTTCGATCTGTCAG
58.247
43.478
0.00
0.00
0.00
3.51
2488
3555
5.354767
TCATCCTTTCGATCTGTCAGATTG
58.645
41.667
20.34
20.34
34.53
2.67
2494
3561
3.451526
TCGATCTGTCAGATTGTGCATC
58.548
45.455
23.81
8.25
37.39
3.91
2495
3562
3.119029
TCGATCTGTCAGATTGTGCATCA
60.119
43.478
23.81
6.43
37.39
3.07
2539
3608
7.473027
AATTGAACAATGCATAGCTAATTGC
57.527
32.000
14.01
12.91
43.29
3.56
2551
3620
3.892918
GCTAATTGCGCATGATCTTCT
57.107
42.857
12.75
0.00
0.00
2.85
2552
3621
4.997905
GCTAATTGCGCATGATCTTCTA
57.002
40.909
12.75
0.00
0.00
2.10
2561
3634
3.682718
CGCATGATCTTCTACCAACCCTT
60.683
47.826
0.00
0.00
0.00
3.95
2610
3683
1.522580
GGCAGAGGGCGTCATCTTC
60.523
63.158
0.00
0.00
46.16
2.87
2641
3717
2.173356
TGCTTTATCCATCACCTGGGAG
59.827
50.000
0.00
0.00
45.98
4.30
2650
3726
0.616111
TCACCTGGGAGGAAGCTCTC
60.616
60.000
0.00
0.00
37.67
3.20
2651
3727
0.617249
CACCTGGGAGGAAGCTCTCT
60.617
60.000
0.00
0.00
37.67
3.10
2652
3728
0.118144
ACCTGGGAGGAAGCTCTCTT
59.882
55.000
0.00
0.00
37.67
2.85
2653
3729
1.284313
CCTGGGAGGAAGCTCTCTTT
58.716
55.000
2.74
0.00
37.67
2.52
2654
3730
1.209261
CCTGGGAGGAAGCTCTCTTTC
59.791
57.143
2.74
0.00
37.67
2.62
2655
3731
2.187100
CTGGGAGGAAGCTCTCTTTCT
58.813
52.381
2.74
0.00
40.84
2.52
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
122
133
1.070289
TGCAAATTGTTCCTGCATGCA
59.930
42.857
21.29
21.29
41.01
3.96
123
134
1.461897
GTGCAAATTGTTCCTGCATGC
59.538
47.619
11.82
11.82
46.90
4.06
124
135
2.734606
CAGTGCAAATTGTTCCTGCATG
59.265
45.455
5.13
0.00
46.90
4.06
125
136
2.366266
ACAGTGCAAATTGTTCCTGCAT
59.634
40.909
5.13
0.00
46.90
3.96
130
141
4.051313
ATTGGCACAGTGCAAATTGTTCC
61.051
43.478
26.78
6.77
44.15
3.62
145
156
2.783135
TGGACTTTCTCTCATTGGCAC
58.217
47.619
0.00
0.00
0.00
5.01
150
161
5.070981
TGAGTGAGTTGGACTTTCTCTCATT
59.929
40.000
0.00
0.00
36.87
2.57
175
186
9.439500
CATGAGAATATGGAAAACCAAATTTGT
57.561
29.630
16.73
2.76
0.00
2.83
186
197
7.629157
TGTTACTCCACATGAGAATATGGAAA
58.371
34.615
0.00
0.00
44.42
3.13
188
199
6.806668
TGTTACTCCACATGAGAATATGGA
57.193
37.500
0.00
0.00
44.42
3.41
190
201
8.899427
AGAATGTTACTCCACATGAGAATATG
57.101
34.615
0.00
0.00
44.42
1.78
197
208
5.189736
AGCCTTAGAATGTTACTCCACATGA
59.810
40.000
0.00
0.00
37.46
3.07
198
209
5.431765
AGCCTTAGAATGTTACTCCACATG
58.568
41.667
0.00
0.00
37.46
3.21
201
212
4.443621
GGAGCCTTAGAATGTTACTCCAC
58.556
47.826
0.00
0.00
41.50
4.02
202
213
3.132289
CGGAGCCTTAGAATGTTACTCCA
59.868
47.826
0.00
0.00
41.87
3.86
210
221
1.136305
TCCGAACGGAGCCTTAGAATG
59.864
52.381
12.04
0.00
39.76
2.67
212
223
2.965805
TCCGAACGGAGCCTTAGAA
58.034
52.632
12.04
0.00
39.76
2.10
232
249
8.646004
TGGGACAAATTCACTTTCAATATCAAA
58.354
29.630
0.00
0.00
31.92
2.69
252
278
4.726317
TCTGGGAGATTTGATATTGGGACA
59.274
41.667
0.00
0.00
0.00
4.02
285
311
9.950680
GAGTTCAGTTTCAGTTTCAATATCAAA
57.049
29.630
0.00
0.00
0.00
2.69
286
312
9.342308
AGAGTTCAGTTTCAGTTTCAATATCAA
57.658
29.630
0.00
0.00
0.00
2.57
287
313
8.777413
CAGAGTTCAGTTTCAGTTTCAATATCA
58.223
33.333
0.00
0.00
0.00
2.15
288
314
8.233190
CCAGAGTTCAGTTTCAGTTTCAATATC
58.767
37.037
0.00
0.00
0.00
1.63
289
315
7.721399
ACCAGAGTTCAGTTTCAGTTTCAATAT
59.279
33.333
0.00
0.00
0.00
1.28
290
316
7.012327
CACCAGAGTTCAGTTTCAGTTTCAATA
59.988
37.037
0.00
0.00
0.00
1.90
291
317
5.888161
ACCAGAGTTCAGTTTCAGTTTCAAT
59.112
36.000
0.00
0.00
0.00
2.57
298
324
4.201950
CCAAACACCAGAGTTCAGTTTCAG
60.202
45.833
0.00
0.00
30.68
3.02
303
329
3.117888
ACATCCAAACACCAGAGTTCAGT
60.118
43.478
0.00
0.00
0.00
3.41
309
335
4.136796
TCTTGAACATCCAAACACCAGAG
58.863
43.478
0.00
0.00
0.00
3.35
311
337
4.339247
AGTTCTTGAACATCCAAACACCAG
59.661
41.667
14.80
0.00
0.00
4.00
314
340
5.163663
TGTCAGTTCTTGAACATCCAAACAC
60.164
40.000
14.80
1.96
37.61
3.32
333
361
4.999311
TCTCATGTGAATTCCAAGTGTCAG
59.001
41.667
2.27
0.00
0.00
3.51
363
391
6.761714
AGTACAATGTTCATCCTATTCCGAAC
59.238
38.462
0.00
0.00
38.55
3.95
367
395
8.506168
TCAAAGTACAATGTTCATCCTATTCC
57.494
34.615
0.00
0.00
0.00
3.01
442
560
9.508642
TTGTTGTGTTCTTGATGTATATAACCA
57.491
29.630
0.00
0.00
0.00
3.67
446
564
8.664798
GCTGTTGTTGTGTTCTTGATGTATATA
58.335
33.333
0.00
0.00
0.00
0.86
447
565
7.174772
TGCTGTTGTTGTGTTCTTGATGTATAT
59.825
33.333
0.00
0.00
0.00
0.86
452
734
3.792956
GTGCTGTTGTTGTGTTCTTGATG
59.207
43.478
0.00
0.00
0.00
3.07
468
750
2.742053
CCGCTGTTTGTATAAGTGCTGT
59.258
45.455
0.00
0.00
0.00
4.40
477
759
4.447290
TGTATATGTGCCGCTGTTTGTAT
58.553
39.130
0.00
0.00
0.00
2.29
484
766
4.614555
TTTCTTTGTATATGTGCCGCTG
57.385
40.909
0.00
0.00
0.00
5.18
486
768
5.157781
TGTTTTTCTTTGTATATGTGCCGC
58.842
37.500
0.00
0.00
0.00
6.53
487
769
5.286082
GCTGTTTTTCTTTGTATATGTGCCG
59.714
40.000
0.00
0.00
0.00
5.69
488
770
5.286082
CGCTGTTTTTCTTTGTATATGTGCC
59.714
40.000
0.00
0.00
0.00
5.01
505
788
2.811431
TGCTATTGTACAAGCGCTGTTT
59.189
40.909
23.84
0.00
41.77
2.83
640
948
1.534235
AACCACGACCAGAGAGCCT
60.534
57.895
0.00
0.00
0.00
4.58
645
953
2.738521
CGGCAACCACGACCAGAG
60.739
66.667
0.00
0.00
0.00
3.35
646
954
3.220999
CTCGGCAACCACGACCAGA
62.221
63.158
0.00
0.00
36.25
3.86
647
955
2.738521
CTCGGCAACCACGACCAG
60.739
66.667
0.00
0.00
36.25
4.00
648
956
4.980805
GCTCGGCAACCACGACCA
62.981
66.667
0.00
0.00
36.25
4.02
724
1041
2.736826
CCCGCCTTTCTCCCTCTCC
61.737
68.421
0.00
0.00
0.00
3.71
762
1083
1.692042
CAGGTCAGCCTCCCCATCT
60.692
63.158
0.00
0.00
44.97
2.90
833
1164
1.871039
TCCCGAAAAACAGAAGCGAAG
59.129
47.619
0.00
0.00
0.00
3.79
873
1205
7.921041
TCTAGAAGATCCTCCACATATTTGT
57.079
36.000
0.00
0.00
36.15
2.83
989
1321
1.153509
GAATACGGGTCGGTGGTGG
60.154
63.158
0.00
0.00
0.00
4.61
990
1322
0.248289
AAGAATACGGGTCGGTGGTG
59.752
55.000
0.00
0.00
0.00
4.17
991
1323
0.533951
GAAGAATACGGGTCGGTGGT
59.466
55.000
0.00
0.00
0.00
4.16
997
1329
0.388294
CTCGGGGAAGAATACGGGTC
59.612
60.000
0.00
0.00
0.00
4.46
1140
1472
2.750637
TCGGCCTCGGAGTCTGAC
60.751
66.667
0.00
0.00
36.95
3.51
1543
1904
2.992543
GCTCTCACAACTCACAGTGATC
59.007
50.000
2.97
0.00
43.18
2.92
1567
1928
2.672961
TCAGTACAAAGGCGGATCAG
57.327
50.000
0.00
0.00
0.00
2.90
1573
1934
2.489971
TGTTCCTTCAGTACAAAGGCG
58.510
47.619
17.87
1.68
42.57
5.52
1599
1960
5.899120
TTCTACTGGATCTATGGCGATAC
57.101
43.478
0.00
0.00
0.00
2.24
1601
1962
5.728471
CAATTCTACTGGATCTATGGCGAT
58.272
41.667
0.00
0.00
0.00
4.58
1648
2010
3.219117
CGATGATCTGCGCACGAG
58.781
61.111
5.66
0.00
0.00
4.18
1684
2048
1.299541
CAAGAACAGCGTCCAGTGTT
58.700
50.000
0.00
0.00
39.62
3.32
1693
2057
4.685169
AAATCCATACACAAGAACAGCG
57.315
40.909
0.00
0.00
0.00
5.18
1745
2110
6.180472
GGATTTCTCCACAATCAAGGTAAGA
58.820
40.000
0.00
0.00
41.64
2.10
1749
2114
3.009033
TCGGATTTCTCCACAATCAAGGT
59.991
43.478
0.00
0.00
42.19
3.50
1750
2115
3.609853
TCGGATTTCTCCACAATCAAGG
58.390
45.455
0.00
0.00
42.19
3.61
1778
2146
2.814341
CACGGAGAGCAGCAGCAG
60.814
66.667
3.17
0.00
45.49
4.24
1803
2171
1.399087
CCGCACAGATATCGTCGAGAG
60.399
57.143
0.00
0.00
0.00
3.20
1804
2172
0.586802
CCGCACAGATATCGTCGAGA
59.413
55.000
0.00
0.00
0.00
4.04
1819
2187
0.390998
TGATCGCATTTCTGACCGCA
60.391
50.000
0.00
0.00
0.00
5.69
1820
2188
0.726827
TTGATCGCATTTCTGACCGC
59.273
50.000
0.00
0.00
0.00
5.68
1871
2239
4.317769
GCACAGACAAATTAAACGTTTGCC
60.318
41.667
23.46
0.00
39.55
4.52
1879
2247
5.606348
AACAAGGGCACAGACAAATTAAA
57.394
34.783
0.00
0.00
0.00
1.52
1889
2257
1.108727
TCTGGCAAACAAGGGCACAG
61.109
55.000
0.00
0.00
36.73
3.66
1905
2273
7.439157
TGTTCAGAGTTTGTTCCATATTCTG
57.561
36.000
0.00
0.00
33.26
3.02
1963
2358
5.882557
ACCAATTAGATGATCACTTTTCGCT
59.117
36.000
0.00
0.00
0.00
4.93
2020
2468
3.751621
CTGTTTTTCTGATGATGCGGAC
58.248
45.455
0.00
0.00
0.00
4.79
2032
2480
4.394920
TGTTCGAAAGAGTGCTGTTTTTCT
59.605
37.500
0.00
0.00
43.69
2.52
2033
2481
4.495828
GTGTTCGAAAGAGTGCTGTTTTTC
59.504
41.667
0.00
0.00
43.69
2.29
2073
2521
2.262915
CTGTGGAGGAGTGGCGAC
59.737
66.667
0.00
0.00
0.00
5.19
2136
2588
7.500992
TCTGGGATAGTACAGAGCTAAATTTG
58.499
38.462
0.00
0.00
38.71
2.32
2175
2640
2.238646
AGCTATTCCATTCACCCGTCAA
59.761
45.455
0.00
0.00
0.00
3.18
2209
2674
5.939764
ATACTCACTTGCCTGTCTCAATA
57.060
39.130
0.00
0.00
0.00
1.90
2213
2678
6.642707
ACTATATACTCACTTGCCTGTCTC
57.357
41.667
0.00
0.00
0.00
3.36
2226
2691
7.333423
TGTTGTGTTCCAGCAAACTATATACTC
59.667
37.037
0.00
0.00
30.61
2.59
2228
2693
7.372451
TGTTGTGTTCCAGCAAACTATATAC
57.628
36.000
0.00
0.00
30.61
1.47
2234
2731
3.023119
TGATGTTGTGTTCCAGCAAACT
58.977
40.909
0.00
0.00
37.84
2.66
2260
2757
2.435372
TGCAGGTCTTGAGGTTTTGT
57.565
45.000
0.00
0.00
0.00
2.83
2269
2771
6.258230
TGTCTGAATTTTATGCAGGTCTTG
57.742
37.500
0.00
0.00
0.00
3.02
2302
2840
2.866762
GCCTCAACTTCCTATGCTTACG
59.133
50.000
0.00
0.00
0.00
3.18
2307
2845
2.128771
TTGGCCTCAACTTCCTATGC
57.871
50.000
3.32
0.00
0.00
3.14
2393
3457
7.570161
ACAGTTTCTTTTATCGGTAGAAAACG
58.430
34.615
0.00
0.00
39.01
3.60
2399
3463
7.838498
CCGATTACAGTTTCTTTTATCGGTAG
58.162
38.462
11.34
0.00
44.74
3.18
2400
3464
7.760131
CCGATTACAGTTTCTTTTATCGGTA
57.240
36.000
11.34
0.00
44.74
4.02
2401
3465
6.657836
CCGATTACAGTTTCTTTTATCGGT
57.342
37.500
11.34
0.00
44.74
4.69
2403
3467
7.285783
TGTCCGATTACAGTTTCTTTTATCG
57.714
36.000
0.00
0.00
34.74
2.92
2420
3486
7.603784
TGATTCATCGAATTCATATTGTCCGAT
59.396
33.333
6.22
0.00
35.95
4.18
2423
3489
7.020010
GCTGATTCATCGAATTCATATTGTCC
58.980
38.462
6.22
0.00
31.89
4.02
2429
3495
9.358872
GTGTATAGCTGATTCATCGAATTCATA
57.641
33.333
6.22
0.00
31.89
2.15
2433
3499
6.986231
TGTGTGTATAGCTGATTCATCGAATT
59.014
34.615
0.00
0.00
31.89
2.17
2459
3526
5.105187
TGACAGATCGAAAGGATGAACTCAT
60.105
40.000
0.00
0.00
39.70
2.90
2480
3547
4.959596
ACAAGATGATGCACAATCTGAC
57.040
40.909
12.48
0.00
36.15
3.51
2484
3551
4.707030
TGGAACAAGATGATGCACAATC
57.293
40.909
0.00
0.00
31.92
2.67
2517
3584
5.036090
CGCAATTAGCTATGCATTGTTCAA
58.964
37.500
17.24
0.00
42.68
2.69
2522
3589
3.002708
TGCGCAATTAGCTATGCATTG
57.997
42.857
8.16
14.02
42.68
2.82
2539
3608
2.158900
AGGGTTGGTAGAAGATCATGCG
60.159
50.000
0.00
0.00
0.00
4.73
2551
3620
1.003464
GCTTCGGGTTAAGGGTTGGTA
59.997
52.381
0.00
0.00
0.00
3.25
2552
3621
0.251033
GCTTCGGGTTAAGGGTTGGT
60.251
55.000
0.00
0.00
0.00
3.67
2561
3634
4.546829
AAGATGTTAGTGCTTCGGGTTA
57.453
40.909
0.00
0.00
0.00
2.85
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.