Multiple sequence alignment - TraesCS5A01G180300
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
TraesCS5A01G180300
chr5A
100.000
4192
0
0
1
4192
379095108
379090917
0.000000e+00
7742.0
1
TraesCS5A01G180300
chr5A
80.324
432
41
18
3794
4192
379040928
379040508
1.910000e-73
287.0
2
TraesCS5A01G180300
chr5A
93.333
60
4
0
3709
3768
379041067
379041008
5.770000e-14
89.8
3
TraesCS5A01G180300
chr5D
92.278
2046
69
39
1
1997
287018399
287016394
0.000000e+00
2820.0
4
TraesCS5A01G180300
chr5D
90.786
1704
79
25
2094
3788
287016351
287014717
0.000000e+00
2206.0
5
TraesCS5A01G180300
chr5D
90.025
401
18
9
3794
4192
287014672
287014292
2.250000e-137
499.0
6
TraesCS5A01G180300
chr5D
93.443
61
4
0
3708
3768
286949778
286949718
1.600000e-14
91.6
7
TraesCS5A01G180300
chr5B
94.290
1261
41
16
621
1873
325965707
325964470
0.000000e+00
1901.0
8
TraesCS5A01G180300
chr5B
91.574
1080
61
7
2389
3467
325962814
325961764
0.000000e+00
1463.0
9
TraesCS5A01G180300
chr5B
96.178
628
20
4
1
624
325966414
325965787
0.000000e+00
1024.0
10
TraesCS5A01G180300
chr5B
89.000
400
25
7
3795
4192
325961444
325961062
1.050000e-130
477.0
11
TraesCS5A01G180300
chr5B
91.901
284
13
5
3507
3790
325961763
325961490
5.080000e-104
388.0
12
TraesCS5A01G180300
chr5B
93.089
246
12
3
2094
2335
325964254
325964010
5.150000e-94
355.0
13
TraesCS5A01G180300
chr5B
83.280
311
27
9
3797
4083
325942981
325942672
3.210000e-66
263.0
14
TraesCS5A01G180300
chr5B
90.698
129
10
2
1870
1997
325964424
325964297
2.000000e-38
171.0
15
TraesCS5A01G180300
chr7D
86.064
1471
120
43
661
2092
37659440
37660864
0.000000e+00
1502.0
16
TraesCS5A01G180300
chr7D
86.418
751
69
14
805
1547
37625515
37626240
0.000000e+00
791.0
17
TraesCS5A01G180300
chr7D
90.000
80
7
1
2097
2175
37660843
37660922
7.410000e-18
102.0
18
TraesCS5A01G180300
chr7D
91.525
59
4
1
2264
2321
37661065
37661123
3.470000e-11
80.5
19
TraesCS5A01G180300
chr3D
85.870
1472
122
42
661
2092
25527112
25525687
0.000000e+00
1487.0
20
TraesCS5A01G180300
chr3D
90.000
80
7
1
2097
2175
25525708
25525629
7.410000e-18
102.0
21
TraesCS5A01G180300
chr3D
93.220
59
3
1
2264
2321
25525486
25525428
7.470000e-13
86.1
22
TraesCS5A01G180300
chr2A
88.186
1185
96
24
661
1828
720388432
720387275
0.000000e+00
1373.0
23
TraesCS5A01G180300
chr2A
87.888
644
50
18
914
1547
720354044
720353419
0.000000e+00
732.0
24
TraesCS5A01G180300
chr2A
77.292
938
107
57
2264
3141
720386640
720385749
4.940000e-124
455.0
25
TraesCS5A01G180300
chr2A
83.051
118
13
3
1863
1979
720387270
720387159
2.670000e-17
100.0
26
TraesCS5A01G180300
chr4A
87.997
1183
94
26
808
1979
687321183
687320038
0.000000e+00
1354.0
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
TraesCS5A01G180300
chr5A
379090917
379095108
4191
True
7742.000000
7742
100.000000
1
4192
1
chr5A.!!$R1
4191
1
TraesCS5A01G180300
chr5D
287014292
287018399
4107
True
1841.666667
2820
91.029667
1
4192
3
chr5D.!!$R2
4191
2
TraesCS5A01G180300
chr5B
325961062
325966414
5352
True
825.571429
1901
92.390000
1
4192
7
chr5B.!!$R2
4191
3
TraesCS5A01G180300
chr7D
37625515
37626240
725
False
791.000000
791
86.418000
805
1547
1
chr7D.!!$F1
742
4
TraesCS5A01G180300
chr7D
37659440
37661123
1683
False
561.500000
1502
89.196333
661
2321
3
chr7D.!!$F2
1660
5
TraesCS5A01G180300
chr3D
25525428
25527112
1684
True
558.366667
1487
89.696667
661
2321
3
chr3D.!!$R1
1660
6
TraesCS5A01G180300
chr2A
720353419
720354044
625
True
732.000000
732
87.888000
914
1547
1
chr2A.!!$R1
633
7
TraesCS5A01G180300
chr2A
720385749
720388432
2683
True
642.666667
1373
82.843000
661
3141
3
chr2A.!!$R2
2480
8
TraesCS5A01G180300
chr4A
687320038
687321183
1145
True
1354.000000
1354
87.997000
808
1979
1
chr4A.!!$R1
1171
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
974
1082
2.108952
ACCAATTCTTGTCTTGCTCCCT
59.891
45.455
0.00
0.0
0.0
4.20
F
1999
2209
0.249120
TCCGTGATGGCTACCTGTTG
59.751
55.000
0.00
0.0
37.8
3.33
F
2065
2463
0.250209
CATGGAATCAGGGGAGCTCG
60.250
60.000
7.83
0.0
0.0
5.03
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
2342
2821
0.184692
TCACCACAGGGCATGTTTCA
59.815
50.0
0.14
0.0
41.41
2.69
R
3059
4749
0.597568
TGAAGGAGTTTGCAATGCCG
59.402
50.0
1.53
0.0
0.00
5.69
R
3845
5578
0.603975
AGAGCACGAAACTCCCAAGC
60.604
55.0
0.00
0.0
34.56
4.01
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
33
34
3.960571
AGTTGGCAGCAACAGATTAGAT
58.039
40.909
3.63
0.00
37.52
1.98
411
416
6.311735
ACCTTTGGGTTGTGATGTTTACTAT
58.688
36.000
0.00
0.00
44.73
2.12
478
483
6.290605
GCATATTTTGCCCAGGTGATAAATT
58.709
36.000
0.00
0.00
46.15
1.82
505
510
8.922931
TGCTGATAATGGCTTTCTCATAATTA
57.077
30.769
2.41
0.00
0.00
1.40
602
607
9.487790
TTTTTGATTTGACATTCCTTAATCACC
57.512
29.630
0.00
0.00
35.59
4.02
825
914
5.237344
GCAGAGTAACACTGTCTTCATTTGT
59.763
40.000
0.00
0.00
37.64
2.83
863
952
7.090173
GCAAGTATTTGTGCTCCTATTTTTGA
58.910
34.615
0.00
0.00
37.78
2.69
973
1081
2.229784
CACCAATTCTTGTCTTGCTCCC
59.770
50.000
0.00
0.00
0.00
4.30
974
1082
2.108952
ACCAATTCTTGTCTTGCTCCCT
59.891
45.455
0.00
0.00
0.00
4.20
975
1083
3.160269
CCAATTCTTGTCTTGCTCCCTT
58.840
45.455
0.00
0.00
0.00
3.95
976
1084
3.575687
CCAATTCTTGTCTTGCTCCCTTT
59.424
43.478
0.00
0.00
0.00
3.11
977
1085
4.553323
CAATTCTTGTCTTGCTCCCTTTG
58.447
43.478
0.00
0.00
0.00
2.77
978
1086
3.297134
TTCTTGTCTTGCTCCCTTTGT
57.703
42.857
0.00
0.00
0.00
2.83
1428
1547
6.126185
ACTGGGTATTTACATATTCTTGGGCT
60.126
38.462
0.00
0.00
0.00
5.19
1618
1751
4.401837
AGATTACTACCCGAGAACTTCACC
59.598
45.833
0.00
0.00
0.00
4.02
1623
1756
3.292492
ACCCGAGAACTTCACCTTTTT
57.708
42.857
0.00
0.00
0.00
1.94
1635
1768
2.687935
TCACCTTTTTCAGCCACAAGTC
59.312
45.455
0.00
0.00
0.00
3.01
1667
1800
0.466189
CCTGCCCACTGTTCAGTTGT
60.466
55.000
2.47
0.00
0.00
3.32
1687
1820
7.984050
CAGTTGTTCTTATCATGTATGGAGTCT
59.016
37.037
0.00
0.00
0.00
3.24
1710
1844
8.237267
GTCTAAATTGACCAAAACTCATCGAAT
58.763
33.333
0.00
0.00
0.00
3.34
1714
1848
3.751175
TGACCAAAACTCATCGAATGACC
59.249
43.478
0.00
0.00
35.06
4.02
1748
1882
7.712639
CAGCTTTATGATAATGTCACTACTGGT
59.287
37.037
0.00
0.00
40.28
4.00
1793
1927
5.192927
AGTGTCATCAAAGAAGGTCACAAA
58.807
37.500
0.00
0.00
0.00
2.83
1843
1977
9.823647
ATGTAAGTGATGACCTGAATACTTAAG
57.176
33.333
0.00
0.00
33.85
1.85
1880
2063
7.287927
TGTTTCCTTTGGTAATATTGGTGTCAA
59.712
33.333
0.00
0.00
37.28
3.18
1941
2129
9.774742
CTTTAAAACTCCATTACATACTTGAGC
57.225
33.333
0.00
0.00
0.00
4.26
1942
2130
6.759497
AAAACTCCATTACATACTTGAGCC
57.241
37.500
0.00
0.00
0.00
4.70
1998
2208
0.249398
GTCCGTGATGGCTACCTGTT
59.751
55.000
0.00
0.00
37.80
3.16
1999
2209
0.249120
TCCGTGATGGCTACCTGTTG
59.751
55.000
0.00
0.00
37.80
3.33
2005
2215
3.317993
GTGATGGCTACCTGTTGTTTTGT
59.682
43.478
0.00
0.00
0.00
2.83
2026
2236
2.132996
TTGGTTGGGCTGCTTGTGG
61.133
57.895
0.00
0.00
0.00
4.17
2028
2238
2.730094
GTTGGGCTGCTTGTGGTG
59.270
61.111
0.00
0.00
0.00
4.17
2053
2451
2.648059
GCTTAGTGGCAGTCATGGAAT
58.352
47.619
0.00
0.00
0.00
3.01
2065
2463
0.250209
CATGGAATCAGGGGAGCTCG
60.250
60.000
7.83
0.00
0.00
5.03
2096
2494
2.658422
GCCACAATTGGGCCACAG
59.342
61.111
21.04
0.74
45.87
3.66
2097
2495
2.946346
GCCACAATTGGGCCACAGG
61.946
63.158
21.04
5.04
45.87
4.00
2098
2496
1.533753
CCACAATTGGGCCACAGGT
60.534
57.895
5.23
0.58
39.57
4.00
2099
2497
1.667151
CACAATTGGGCCACAGGTG
59.333
57.895
5.23
11.11
0.00
4.00
2136
2534
2.740055
CGAGACAGCCTGGTGCAC
60.740
66.667
8.80
8.80
44.83
4.57
2155
2553
1.331214
CTGGCCACTTTGGTGTGATT
58.669
50.000
0.00
0.00
40.46
2.57
2182
2581
2.357836
CCAGGAAGTGGCAGGCAT
59.642
61.111
0.00
0.00
40.39
4.40
2191
2590
2.180017
GGCAGGCATGAAAGTGCG
59.820
61.111
0.62
0.00
45.97
5.34
2193
2592
2.180017
CAGGCATGAAAGTGCGGC
59.820
61.111
0.00
0.00
45.97
6.53
2243
2646
1.003355
TGCTTGGTGTAGGAGCAGC
60.003
57.895
0.00
0.00
41.15
5.25
2251
2654
1.066573
GTGTAGGAGCAGCTGTGTGAT
60.067
52.381
16.64
0.71
0.00
3.06
2316
2795
1.149077
ACCCCACAAAATTGGCCTAGT
59.851
47.619
3.32
0.00
35.00
2.57
2338
2817
3.391296
TCTTAGCCTTGTCTCAAGGTTGT
59.609
43.478
23.61
14.26
39.60
3.32
2341
2820
2.706190
AGCCTTGTCTCAAGGTTGTAGT
59.294
45.455
23.61
5.55
39.60
2.73
2342
2821
3.136626
AGCCTTGTCTCAAGGTTGTAGTT
59.863
43.478
23.61
5.01
39.60
2.24
2343
2822
3.251004
GCCTTGTCTCAAGGTTGTAGTTG
59.749
47.826
23.61
2.58
39.60
3.16
2365
2846
2.897271
ACATGCCCTGTGGTGAAATA
57.103
45.000
0.00
0.00
36.48
1.40
2429
4070
8.689972
AGTTTTTAGGCCAATTCAATATCTGAG
58.310
33.333
5.01
0.00
34.81
3.35
2432
4073
4.723309
AGGCCAATTCAATATCTGAGGTC
58.277
43.478
5.01
0.00
34.81
3.85
2440
4081
2.621998
CAATATCTGAGGTCGGGTACGT
59.378
50.000
0.00
0.00
41.85
3.57
2445
4086
1.246056
TGAGGTCGGGTACGTCAAGG
61.246
60.000
0.00
0.00
46.96
3.61
2447
4088
2.505557
GTCGGGTACGTCAAGGCG
60.506
66.667
0.00
0.00
41.85
5.52
2481
4128
2.027377
AGGCACATCTAGCATCTATGGC
60.027
50.000
0.00
0.00
0.00
4.40
2498
4145
2.862541
TGGCAGTGCTGTTACAATTCT
58.137
42.857
16.11
0.00
0.00
2.40
2515
4162
6.248433
ACAATTCTGTCAAATAGGTCATGGT
58.752
36.000
0.00
0.00
0.00
3.55
2517
4164
7.233348
ACAATTCTGTCAAATAGGTCATGGTTT
59.767
33.333
0.00
0.00
0.00
3.27
2532
4195
8.497745
AGGTCATGGTTTGATCATCTAATAACT
58.502
33.333
0.00
0.00
37.99
2.24
2538
4201
8.946085
TGGTTTGATCATCTAATAACTGTGTTC
58.054
33.333
0.00
0.00
0.00
3.18
2574
4244
7.466804
TGTGTTAATCTATTCCAGGGTCTTTT
58.533
34.615
0.00
0.00
0.00
2.27
2652
4322
5.393027
CCGTAAAGGTCATATTGCAAAGCTT
60.393
40.000
1.71
5.27
34.51
3.74
2655
4325
5.473066
AAGGTCATATTGCAAAGCTTTGT
57.527
34.783
33.47
20.27
40.24
2.83
2752
4422
0.395586
TGTGGTTGCAGGAGCTGTTT
60.396
50.000
0.00
0.00
42.74
2.83
2842
4520
8.396272
TGCCTATAATTATTTTCTTCTCCTGC
57.604
34.615
2.68
0.00
0.00
4.85
2886
4564
2.294233
TCTCACAGTGGCTTCATTTTGC
59.706
45.455
0.00
0.00
0.00
3.68
2907
4585
4.682787
GCTACCTGCAATTTTTCCCATAC
58.317
43.478
0.00
0.00
42.31
2.39
2950
4628
7.176165
GTGCCTCCTTTTACCTGTTTTATTACT
59.824
37.037
0.00
0.00
0.00
2.24
2994
4681
8.684386
TCCATGTTTTTCAGTGATAACAGTAA
57.316
30.769
19.75
9.63
34.37
2.24
3080
4770
1.615392
GGCATTGCAAACTCCTTCAGT
59.385
47.619
11.39
0.00
36.64
3.41
3215
4909
0.750911
ACCGGATCAGACGACTACCC
60.751
60.000
9.46
0.00
0.00
3.69
3216
4910
0.750546
CCGGATCAGACGACTACCCA
60.751
60.000
0.00
0.00
0.00
4.51
3257
4951
2.893489
ACCTTCTTCATGGGCTTGTTTC
59.107
45.455
0.00
0.00
0.00
2.78
3280
4974
2.124403
CACATGGCAGGGGAGAGC
60.124
66.667
3.46
0.00
0.00
4.09
3281
4975
2.611800
ACATGGCAGGGGAGAGCA
60.612
61.111
3.46
0.00
0.00
4.26
3282
4976
2.192443
CATGGCAGGGGAGAGCAG
59.808
66.667
0.00
0.00
0.00
4.24
3476
5170
6.187125
TGTTGCATTATTTCTTGCTCTCTC
57.813
37.500
0.00
0.00
39.60
3.20
3477
5171
5.942236
TGTTGCATTATTTCTTGCTCTCTCT
59.058
36.000
0.00
0.00
39.60
3.10
3488
5182
2.364842
TCTCTCTGCCCCCTGAGC
60.365
66.667
0.00
0.00
37.07
4.26
3497
5191
4.421554
CCCCTGAGCCCCTGAGGA
62.422
72.222
0.00
0.00
37.01
3.71
3498
5192
2.040043
CCCTGAGCCCCTGAGGAT
60.040
66.667
0.00
0.00
37.01
3.24
3499
5193
2.450320
CCCTGAGCCCCTGAGGATG
61.450
68.421
0.00
0.00
37.01
3.51
3501
5195
1.692042
CTGAGCCCCTGAGGATGGT
60.692
63.158
0.00
0.00
38.24
3.55
3503
5197
1.225704
GAGCCCCTGAGGATGGTTG
59.774
63.158
0.00
0.00
38.24
3.77
3504
5198
1.542375
AGCCCCTGAGGATGGTTGT
60.542
57.895
0.00
0.00
38.24
3.32
3505
5199
1.142688
AGCCCCTGAGGATGGTTGTT
61.143
55.000
0.00
0.00
38.24
2.83
3550
5244
7.597288
AGCAGTATGTATACATGGTTGACTA
57.403
36.000
25.48
2.85
39.31
2.59
3551
5245
7.434492
AGCAGTATGTATACATGGTTGACTAC
58.566
38.462
25.48
15.53
39.31
2.73
3552
5246
7.287927
AGCAGTATGTATACATGGTTGACTACT
59.712
37.037
25.48
17.21
39.31
2.57
3553
5247
7.926555
GCAGTATGTATACATGGTTGACTACTT
59.073
37.037
25.48
0.71
39.31
2.24
3554
5248
9.249457
CAGTATGTATACATGGTTGACTACTTG
57.751
37.037
25.48
8.03
37.15
3.16
3555
5249
9.197306
AGTATGTATACATGGTTGACTACTTGA
57.803
33.333
25.48
0.32
37.15
3.02
3556
5250
9.245962
GTATGTATACATGGTTGACTACTTGAC
57.754
37.037
25.48
8.81
37.15
3.18
3557
5251
7.476540
TGTATACATGGTTGACTACTTGACT
57.523
36.000
0.08
0.00
0.00
3.41
3651
5345
2.993264
GTCGGACCGGGACTGGAA
60.993
66.667
15.25
0.00
0.00
3.53
3657
5351
1.420430
GACCGGGACTGGAATGGATA
58.580
55.000
6.32
0.00
0.00
2.59
3658
5352
1.766496
GACCGGGACTGGAATGGATAA
59.234
52.381
6.32
0.00
0.00
1.75
3676
5370
4.202050
GGATAACCCATTGCAAAGCTGTAG
60.202
45.833
1.71
0.00
34.14
2.74
3694
5388
4.571919
TGTAGTCGGGTAAAGTTCCATTG
58.428
43.478
0.00
0.00
0.00
2.82
3704
5398
5.177327
GGTAAAGTTCCATTGCATGTTGTTG
59.823
40.000
0.00
0.00
0.00
3.33
3747
5441
4.011698
CCACATTCAGTTCACATGGATGA
58.988
43.478
0.00
0.00
35.95
2.92
3768
5462
7.653713
GGATGACATTATATTCAACTCGAGTGT
59.346
37.037
20.85
8.32
0.00
3.55
3779
5473
1.224069
CTCGAGTGTGTGCCTTGGTG
61.224
60.000
3.62
0.00
0.00
4.17
3780
5474
1.523711
CGAGTGTGTGCCTTGGTGT
60.524
57.895
0.00
0.00
0.00
4.16
3782
5476
0.663153
GAGTGTGTGCCTTGGTGTTC
59.337
55.000
0.00
0.00
0.00
3.18
3788
5482
3.764434
TGTGTGCCTTGGTGTTCTTTTTA
59.236
39.130
0.00
0.00
0.00
1.52
3789
5483
4.404073
TGTGTGCCTTGGTGTTCTTTTTAT
59.596
37.500
0.00
0.00
0.00
1.40
3790
5484
5.594725
TGTGTGCCTTGGTGTTCTTTTTATA
59.405
36.000
0.00
0.00
0.00
0.98
3792
5486
7.448777
TGTGTGCCTTGGTGTTCTTTTTATATA
59.551
33.333
0.00
0.00
0.00
0.86
3863
5596
1.869690
GCTTGGGAGTTTCGTGCTC
59.130
57.895
0.00
0.00
0.00
4.26
3881
5614
2.796304
CTCTGAGTGACGAGAGAATGC
58.204
52.381
8.47
0.00
38.42
3.56
3929
5662
6.539464
GCATTAATCTTTGATTTTGGCATCCA
59.461
34.615
0.00
0.00
0.00
3.41
3943
5676
4.758688
TGGCATCCAATATATAGCGACTG
58.241
43.478
0.00
0.00
0.00
3.51
4069
5804
3.225235
GAGAAGCCATCTCGCCCT
58.775
61.111
1.72
0.00
44.89
5.19
4117
5858
4.899239
GCGCCGGCTGACAGCTAT
62.899
66.667
26.68
0.00
41.99
2.97
4118
5859
2.659897
CGCCGGCTGACAGCTATC
60.660
66.667
26.68
13.79
41.99
2.08
4119
5860
2.280457
GCCGGCTGACAGCTATCC
60.280
66.667
25.92
9.21
41.99
2.59
4120
5861
3.094062
GCCGGCTGACAGCTATCCA
62.094
63.158
25.92
0.00
41.99
3.41
4121
5862
1.227380
CCGGCTGACAGCTATCCAC
60.227
63.158
25.92
8.12
41.99
4.02
4122
5863
1.227380
CGGCTGACAGCTATCCACC
60.227
63.158
25.92
7.41
41.99
4.61
4123
5864
1.907739
GGCTGACAGCTATCCACCA
59.092
57.895
25.92
0.00
41.99
4.17
4183
5924
3.397906
GCTTCTCCAGCTCCAGGT
58.602
61.111
0.00
0.00
46.27
4.00
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
33
34
9.967451
TCAGAAATGTAATTAAATACCAGGACA
57.033
29.630
0.00
0.00
33.67
4.02
303
307
7.230510
GGCCAGTATAACCAATTCAACATGATA
59.769
37.037
0.00
0.00
0.00
2.15
318
322
3.432326
CCACTTCAGAGGGCCAGTATAAC
60.432
52.174
6.18
0.00
0.00
1.89
411
416
8.836413
CCACAGTAGATAAAAAGTTTGTTCTCA
58.164
33.333
0.00
0.00
0.00
3.27
478
483
9.524496
AATTATGAGAAAGCCATTATCAGCATA
57.476
29.630
3.92
0.00
42.16
3.14
529
534
1.009078
CGAGCATGAAAATCCTCGCA
58.991
50.000
0.00
0.00
40.35
5.10
784
872
3.754965
TCTGCTTGACTGGCTTTTGTAT
58.245
40.909
0.00
0.00
0.00
2.29
825
914
7.304735
CACAAATACTTGCAGTTGTAGCATTA
58.695
34.615
0.00
0.00
42.33
1.90
1252
1366
6.086222
GGCACACAAAATGATGTAAGTAGTG
58.914
40.000
0.00
0.00
30.84
2.74
1253
1367
5.767665
TGGCACACAAAATGATGTAAGTAGT
59.232
36.000
0.00
0.00
30.84
2.73
1478
1597
6.880484
TGAGCACCGAATAAAGAATACCTAA
58.120
36.000
0.00
0.00
0.00
2.69
1618
1751
3.571401
AGATGGACTTGTGGCTGAAAAAG
59.429
43.478
0.00
0.00
0.00
2.27
1623
1756
2.158623
ACAAAGATGGACTTGTGGCTGA
60.159
45.455
0.00
0.00
38.98
4.26
1635
1768
0.890683
GGGCAGGTCAACAAAGATGG
59.109
55.000
0.00
0.00
0.00
3.51
1687
1820
8.020819
GTCATTCGATGAGTTTTGGTCAATTTA
58.979
33.333
0.00
0.00
40.53
1.40
1710
1844
4.724399
TCATAAAGCTGAAAACAGGGTCA
58.276
39.130
0.00
0.00
0.00
4.02
1714
1848
8.461222
TGACATTATCATAAAGCTGAAAACAGG
58.539
33.333
0.00
0.00
29.99
4.00
1880
2063
2.165030
GCATAGCTGACCAACAAATGCT
59.835
45.455
0.00
0.00
36.81
3.79
1986
2177
2.627699
CCACAAAACAACAGGTAGCCAT
59.372
45.455
0.00
0.00
0.00
4.40
1990
2181
3.445805
ACCAACCACAAAACAACAGGTAG
59.554
43.478
0.00
0.00
31.10
3.18
1998
2208
0.250513
GCCCAACCAACCACAAAACA
59.749
50.000
0.00
0.00
0.00
2.83
1999
2209
0.539518
AGCCCAACCAACCACAAAAC
59.460
50.000
0.00
0.00
0.00
2.43
2005
2215
2.132996
CAAGCAGCCCAACCAACCA
61.133
57.895
0.00
0.00
0.00
3.67
2026
2236
2.034066
TGCCACTAAGCCAGCCAC
59.966
61.111
0.00
0.00
0.00
5.01
2028
2238
1.746991
GACTGCCACTAAGCCAGCC
60.747
63.158
0.00
0.00
0.00
4.85
2053
2451
2.363018
CTGTCCGAGCTCCCCTGA
60.363
66.667
8.47
0.00
0.00
3.86
2100
2498
3.210302
GCCCAATTGTGGCCTAGC
58.790
61.111
21.04
0.00
44.46
3.42
2106
2504
0.888736
TGTCTCGTGCCCAATTGTGG
60.889
55.000
4.43
6.64
45.53
4.17
2107
2505
0.518636
CTGTCTCGTGCCCAATTGTG
59.481
55.000
4.43
0.00
0.00
3.33
2108
2506
1.237285
GCTGTCTCGTGCCCAATTGT
61.237
55.000
4.43
0.00
0.00
2.71
2109
2507
1.503542
GCTGTCTCGTGCCCAATTG
59.496
57.895
0.00
0.00
0.00
2.32
2110
2508
1.675641
GGCTGTCTCGTGCCCAATT
60.676
57.895
0.00
0.00
43.11
2.32
2111
2509
2.045926
GGCTGTCTCGTGCCCAAT
60.046
61.111
0.00
0.00
43.11
3.16
2116
2514
2.740055
CACCAGGCTGTCTCGTGC
60.740
66.667
14.43
0.00
28.46
5.34
2117
2515
2.740055
GCACCAGGCTGTCTCGTG
60.740
66.667
14.43
14.64
37.60
4.35
2155
2553
1.679139
CACTTCCTGGTTCACTGCAA
58.321
50.000
0.00
0.00
0.00
4.08
2193
2592
1.156736
CTAAACTGGAAGGTGGCACG
58.843
55.000
12.17
0.00
39.30
5.34
2199
2601
3.074538
ACCAAGCATCTAAACTGGAAGGT
59.925
43.478
0.00
0.00
39.30
3.50
2240
2643
7.118245
TGTCTAATCAAACTAATCACACAGCTG
59.882
37.037
13.48
13.48
0.00
4.24
2243
2646
9.764870
CATTGTCTAATCAAACTAATCACACAG
57.235
33.333
0.00
0.00
0.00
3.66
2251
2654
8.334263
TGATGTGCATTGTCTAATCAAACTAA
57.666
30.769
0.00
0.00
0.00
2.24
2316
2795
3.391296
ACAACCTTGAGACAAGGCTAAGA
59.609
43.478
24.58
0.00
41.10
2.10
2338
2817
2.158534
ACCACAGGGCATGTTTCAACTA
60.159
45.455
0.14
0.00
41.41
2.24
2341
2820
1.039068
CACCACAGGGCATGTTTCAA
58.961
50.000
0.14
0.00
41.41
2.69
2342
2821
0.184692
TCACCACAGGGCATGTTTCA
59.815
50.000
0.14
0.00
41.41
2.69
2343
2822
1.327303
TTCACCACAGGGCATGTTTC
58.673
50.000
0.14
0.00
41.41
2.78
2365
2846
3.498774
AATGCTTCTGACTGGACTTGT
57.501
42.857
0.00
0.00
0.00
3.16
2426
4067
1.246056
CCTTGACGTACCCGACCTCA
61.246
60.000
0.00
0.00
37.88
3.86
2429
4070
2.125793
GCCTTGACGTACCCGACC
60.126
66.667
0.00
0.00
37.88
4.79
2432
4073
4.728102
TGCGCCTTGACGTACCCG
62.728
66.667
4.18
0.00
40.83
5.28
2440
4081
1.896220
AATGAAAGACTGCGCCTTGA
58.104
45.000
4.18
0.00
0.00
3.02
2445
4086
1.086696
TGCCTAATGAAAGACTGCGC
58.913
50.000
0.00
0.00
0.00
6.09
2447
4088
3.944015
AGATGTGCCTAATGAAAGACTGC
59.056
43.478
0.00
0.00
0.00
4.40
2481
4128
5.422666
TTGACAGAATTGTAACAGCACTG
57.577
39.130
0.00
0.00
37.76
3.66
2498
4145
6.244654
TGATCAAACCATGACCTATTTGACA
58.755
36.000
0.00
2.22
42.22
3.58
2532
4195
3.950397
ACACAAGGTGAAAGAGAACACA
58.050
40.909
2.98
0.00
38.57
3.72
2538
4201
8.669243
GGAATAGATTAACACAAGGTGAAAGAG
58.331
37.037
2.98
0.00
36.96
2.85
2652
4322
9.595823
GTAAGTAGAGGCAGAACAATAATACAA
57.404
33.333
0.00
0.00
0.00
2.41
2655
4325
7.926555
GCAGTAAGTAGAGGCAGAACAATAATA
59.073
37.037
0.00
0.00
0.00
0.98
2752
4422
5.766174
AGAACTACGAAAATGGCAAACCTAA
59.234
36.000
0.00
0.00
36.63
2.69
2842
4520
0.961753
GCAAAGGGAACAGGGAACAG
59.038
55.000
0.00
0.00
0.00
3.16
2886
4564
4.099419
GGGTATGGGAAAAATTGCAGGTAG
59.901
45.833
0.00
0.00
0.00
3.18
2907
4585
1.884579
GCACCATCTGCATCATAAGGG
59.115
52.381
0.00
0.00
46.29
3.95
2950
4628
6.432783
ACATGGAGGAACACAAAAATCGATAA
59.567
34.615
0.00
0.00
0.00
1.75
2957
4635
6.467677
TGAAAAACATGGAGGAACACAAAAA
58.532
32.000
0.00
0.00
0.00
1.94
2961
4639
4.097741
CACTGAAAAACATGGAGGAACACA
59.902
41.667
0.00
0.00
0.00
3.72
2963
4641
4.531854
TCACTGAAAAACATGGAGGAACA
58.468
39.130
0.00
0.00
0.00
3.18
2966
4644
6.303054
TGTTATCACTGAAAAACATGGAGGA
58.697
36.000
0.00
0.00
0.00
3.71
2967
4645
6.207417
ACTGTTATCACTGAAAAACATGGAGG
59.793
38.462
9.56
3.23
31.88
4.30
2968
4646
7.206981
ACTGTTATCACTGAAAAACATGGAG
57.793
36.000
9.56
3.49
31.88
3.86
2969
4647
8.564574
GTTACTGTTATCACTGAAAAACATGGA
58.435
33.333
9.56
1.82
31.88
3.41
2994
4681
2.366266
ACAGTCCTGCAATGCAAATTGT
59.634
40.909
9.92
10.58
38.41
2.71
3059
4749
0.597568
TGAAGGAGTTTGCAATGCCG
59.402
50.000
1.53
0.00
0.00
5.69
3215
4909
3.865745
GTCAGGACGATCATGGTACTTTG
59.134
47.826
0.00
0.00
0.00
2.77
3216
4910
3.118738
GGTCAGGACGATCATGGTACTTT
60.119
47.826
0.00
0.00
0.00
2.66
3275
4969
2.159544
GCATGAGAAAACAGCTGCTCTC
60.160
50.000
24.16
24.16
35.82
3.20
3280
4974
2.292569
ACTGTGCATGAGAAAACAGCTG
59.707
45.455
13.48
13.48
43.04
4.24
3281
4975
2.579873
ACTGTGCATGAGAAAACAGCT
58.420
42.857
0.00
0.00
43.04
4.24
3282
4976
3.360249
AACTGTGCATGAGAAAACAGC
57.640
42.857
0.00
0.00
43.04
4.40
3443
5137
3.781079
ATAATGCAACATGTTCACCGG
57.219
42.857
8.48
0.00
0.00
5.28
3488
5182
0.698238
TCAACAACCATCCTCAGGGG
59.302
55.000
0.00
0.00
0.00
4.79
3496
5190
4.699257
AGAGCAAGAAGATCAACAACCATC
59.301
41.667
0.00
0.00
34.30
3.51
3497
5191
4.660168
AGAGCAAGAAGATCAACAACCAT
58.340
39.130
0.00
0.00
34.30
3.55
3498
5192
4.090761
AGAGCAAGAAGATCAACAACCA
57.909
40.909
0.00
0.00
34.30
3.67
3499
5193
4.516698
TCAAGAGCAAGAAGATCAACAACC
59.483
41.667
0.00
0.00
34.30
3.77
3501
5195
5.936686
CTCAAGAGCAAGAAGATCAACAA
57.063
39.130
0.00
0.00
34.30
2.83
3550
5244
2.538449
CACTTCGCGTAACAAGTCAAGT
59.462
45.455
5.77
1.66
30.06
3.16
3551
5245
2.538449
ACACTTCGCGTAACAAGTCAAG
59.462
45.455
5.77
0.93
30.06
3.02
3552
5246
2.283086
CACACTTCGCGTAACAAGTCAA
59.717
45.455
5.77
0.00
30.06
3.18
3553
5247
1.855978
CACACTTCGCGTAACAAGTCA
59.144
47.619
5.77
0.00
30.06
3.41
3554
5248
2.121786
TCACACTTCGCGTAACAAGTC
58.878
47.619
5.77
0.00
30.06
3.01
3555
5249
2.212869
TCACACTTCGCGTAACAAGT
57.787
45.000
5.77
5.43
32.87
3.16
3556
5250
2.538449
ACTTCACACTTCGCGTAACAAG
59.462
45.455
5.77
4.67
0.00
3.16
3557
5251
2.542597
ACTTCACACTTCGCGTAACAA
58.457
42.857
5.77
0.00
0.00
2.83
3657
5351
2.558359
GACTACAGCTTTGCAATGGGTT
59.442
45.455
13.62
0.00
0.00
4.11
3658
5352
2.162681
GACTACAGCTTTGCAATGGGT
58.837
47.619
13.62
6.63
0.00
4.51
3676
5370
2.156098
TGCAATGGAACTTTACCCGAC
58.844
47.619
0.00
0.00
0.00
4.79
3694
5388
5.699839
CCCTACTTCTTAACAACAACATGC
58.300
41.667
0.00
0.00
0.00
4.06
3704
5398
3.607741
GTTCCAGGCCCTACTTCTTAAC
58.392
50.000
0.00
0.00
0.00
2.01
3747
5441
6.036083
GCACACACTCGAGTTGAATATAATGT
59.964
38.462
24.80
11.84
0.00
2.71
3768
5462
6.909550
ATATAAAAAGAACACCAAGGCACA
57.090
33.333
0.00
0.00
0.00
4.57
3845
5578
0.603975
AGAGCACGAAACTCCCAAGC
60.604
55.000
0.00
0.00
34.56
4.01
3846
5579
1.151668
CAGAGCACGAAACTCCCAAG
58.848
55.000
0.00
0.00
34.56
3.61
3863
5596
1.131315
TCGCATTCTCTCGTCACTCAG
59.869
52.381
0.00
0.00
0.00
3.35
3881
5614
3.579709
AGATAATACGAAGGCAGCATCG
58.420
45.455
15.94
15.94
44.33
3.84
3929
5662
5.571285
TCTCCAGTCCAGTCGCTATATATT
58.429
41.667
0.00
0.00
0.00
1.28
3943
5676
4.679373
TGATAATTGCTCTCTCCAGTCC
57.321
45.455
0.00
0.00
0.00
3.85
4102
5843
2.280457
GGATAGCTGTCAGCCGGC
60.280
66.667
21.89
21.89
43.77
6.13
4103
5844
1.227380
GTGGATAGCTGTCAGCCGG
60.227
63.158
21.32
0.00
43.77
6.13
4104
5845
1.227380
GGTGGATAGCTGTCAGCCG
60.227
63.158
21.32
0.00
43.77
5.52
4106
5847
0.462759
GGTGGTGGATAGCTGTCAGC
60.463
60.000
17.48
17.48
42.84
4.26
4107
5848
0.904649
TGGTGGTGGATAGCTGTCAG
59.095
55.000
12.91
0.00
0.00
3.51
4108
5849
0.613260
GTGGTGGTGGATAGCTGTCA
59.387
55.000
12.91
0.00
0.00
3.58
4109
5850
0.107654
GGTGGTGGTGGATAGCTGTC
60.108
60.000
1.05
1.05
0.00
3.51
4111
5852
0.392998
GTGGTGGTGGTGGATAGCTG
60.393
60.000
0.00
0.00
0.00
4.24
4112
5853
1.562672
GGTGGTGGTGGTGGATAGCT
61.563
60.000
0.00
0.00
0.00
3.32
4113
5854
1.077716
GGTGGTGGTGGTGGATAGC
60.078
63.158
0.00
0.00
0.00
2.97
4114
5855
0.035439
GTGGTGGTGGTGGTGGATAG
60.035
60.000
0.00
0.00
0.00
2.08
4115
5856
1.493854
GGTGGTGGTGGTGGTGGATA
61.494
60.000
0.00
0.00
0.00
2.59
4116
5857
2.840753
GGTGGTGGTGGTGGTGGAT
61.841
63.158
0.00
0.00
0.00
3.41
4117
5858
3.494254
GGTGGTGGTGGTGGTGGA
61.494
66.667
0.00
0.00
0.00
4.02
4118
5859
3.790416
CTGGTGGTGGTGGTGGTGG
62.790
68.421
0.00
0.00
0.00
4.61
4119
5860
2.203337
CTGGTGGTGGTGGTGGTG
60.203
66.667
0.00
0.00
0.00
4.17
4120
5861
4.204028
GCTGGTGGTGGTGGTGGT
62.204
66.667
0.00
0.00
0.00
4.16
4149
5890
0.252881
AGCATGAGGAGGAGGGACAA
60.253
55.000
0.00
0.00
0.00
3.18
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.