Multiple sequence alignment - TraesCS1D01G226600
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
TraesCS1D01G226600
chr1D
100.000
5909
0
0
1
5909
314990875
314984967
0.000000e+00
10912
1
TraesCS1D01G226600
chr1D
84.444
270
25
7
5649
5909
313990384
313990645
3.540000e-62
250
2
TraesCS1D01G226600
chr1A
94.484
4333
133
21
1282
5567
395461924
395457651
0.000000e+00
6580
3
TraesCS1D01G226600
chr1A
90.525
591
19
17
586
1158
395462505
395461934
0.000000e+00
747
4
TraesCS1D01G226600
chr1A
87.714
350
22
11
219
561
395462830
395462495
7.180000e-104
388
5
TraesCS1D01G226600
chr1A
96.178
157
6
0
5492
5648
395457659
395457503
2.110000e-64
257
6
TraesCS1D01G226600
chr1A
89.247
186
11
5
1
184
395463099
395462921
2.140000e-54
224
7
TraesCS1D01G226600
chr1A
90.728
151
6
2
5759
5909
395457360
395457218
1.680000e-45
195
8
TraesCS1D01G226600
chr1A
83.684
190
22
5
5649
5829
476074097
476073908
2.830000e-38
171
9
TraesCS1D01G226600
chr1A
84.328
134
13
4
2691
2816
444171812
444171679
2.240000e-24
124
10
TraesCS1D01G226600
chr1A
83.206
131
14
4
2691
2813
575548284
575548154
4.840000e-21
113
11
TraesCS1D01G226600
chr1B
93.868
2805
80
29
651
3395
426687260
426684488
0.000000e+00
4143
12
TraesCS1D01G226600
chr1B
95.700
1651
46
13
3628
5275
426684430
426682802
0.000000e+00
2632
13
TraesCS1D01G226600
chr1B
86.982
338
15
15
219
555
426687619
426687310
2.620000e-93
353
14
TraesCS1D01G226600
chr1B
96.479
142
2
1
2
143
426687783
426687645
1.280000e-56
231
15
TraesCS1D01G226600
chr1B
82.593
270
28
13
5649
5908
502982995
502982735
2.770000e-53
220
16
TraesCS1D01G226600
chr1B
95.161
62
3
0
3591
3652
426684490
426684429
1.360000e-16
99
17
TraesCS1D01G226600
chr4B
85.978
271
20
9
5649
5909
105010736
105010474
2.100000e-69
274
18
TraesCS1D01G226600
chr4B
85.106
141
18
3
5510
5648
105010958
105010819
2.220000e-29
141
19
TraesCS1D01G226600
chr5B
83.704
270
22
11
5649
5909
549677924
549677668
9.900000e-58
235
20
TraesCS1D01G226600
chr5B
82.528
269
30
9
5649
5908
357310532
357310792
2.770000e-53
220
21
TraesCS1D01G226600
chr5B
82.759
261
26
9
5649
5899
138340535
138340786
1.290000e-51
215
22
TraesCS1D01G226600
chr4D
83.395
271
27
8
5649
5909
45307080
45307342
9.900000e-58
235
23
TraesCS1D01G226600
chr3B
82.418
273
25
11
5649
5909
706981673
706981934
3.590000e-52
217
24
TraesCS1D01G226600
chr2B
82.540
252
26
8
5649
5891
159598012
159597770
7.760000e-49
206
25
TraesCS1D01G226600
chr2B
81.609
174
19
5
5741
5909
631210579
631210414
1.340000e-26
132
26
TraesCS1D01G226600
chr3A
85.806
155
9
8
5760
5909
108940021
108939875
1.030000e-32
152
27
TraesCS1D01G226600
chr3A
83.969
131
13
4
2691
2813
698287652
698287782
1.040000e-22
119
28
TraesCS1D01G226600
chr7D
80.184
217
28
6
5697
5908
629492706
629492500
1.330000e-31
148
29
TraesCS1D01G226600
chr6B
83.766
154
15
5
2668
2813
11401323
11401474
2.870000e-28
137
30
TraesCS1D01G226600
chr2A
84.962
133
16
2
5649
5777
768947420
768947288
1.340000e-26
132
31
TraesCS1D01G226600
chr2D
81.765
170
18
8
5745
5909
531363275
531363114
4.810000e-26
130
32
TraesCS1D01G226600
chr6D
85.593
118
9
4
2691
2800
57462882
57462999
3.740000e-22
117
33
TraesCS1D01G226600
chr3D
80.405
148
20
7
5642
5783
496159879
496160023
2.910000e-18
104
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
TraesCS1D01G226600
chr1D
314984967
314990875
5908
True
10912.0
10912
100.000000
1
5909
1
chr1D.!!$R1
5908
1
TraesCS1D01G226600
chr1A
395457218
395463099
5881
True
1398.5
6580
91.479333
1
5909
6
chr1A.!!$R4
5908
2
TraesCS1D01G226600
chr1B
426682802
426687783
4981
True
1491.6
4143
93.638000
2
5275
5
chr1B.!!$R2
5273
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
558
623
0.110010
GTTGCTGCTTCGGCTCTTTC
60.110
55.0
0.00
0.00
42.37
2.62
F
1165
1258
0.036765
CAGCGGCTACAACAGGGTAA
60.037
55.0
0.26
0.00
0.00
2.85
F
1166
1259
0.249398
AGCGGCTACAACAGGGTAAG
59.751
55.0
0.00
0.00
0.00
2.34
F
1168
1261
0.036765
CGGCTACAACAGGGTAAGCA
60.037
55.0
0.00
0.00
0.00
3.91
F
1669
1788
0.620556
TTCCCTGTGCCTTCTCCATC
59.379
55.0
0.00
0.00
0.00
3.51
F
1800
1920
0.708918
GTGAGAGTTTACGCGTGCTC
59.291
55.0
24.59
23.84
0.00
4.26
F
2942
3070
1.833787
TAAAGTCCGGCCAGTGACCC
61.834
60.0
2.24
0.00
31.76
4.46
F
4256
4431
1.760192
AGAACATCATGAAGCTGGCC
58.240
50.0
0.00
0.00
0.00
5.36
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
2224
2349
0.693092
TGTACCATACCCCTCTGGCC
60.693
60.000
0.00
0.0
37.83
5.36
R
3154
3301
2.238084
TCATCTAGTCTGCCACCACT
57.762
50.000
0.00
0.0
0.00
4.00
R
3276
3427
2.318908
CCCCATAACCCCATTCACATG
58.681
52.381
0.00
0.0
0.00
3.21
R
3466
3617
3.127548
CGCTGCATCCTATTTGAAACACT
59.872
43.478
0.00
0.0
0.00
3.55
R
3477
3628
1.933181
CGAATGTTTCGCTGCATCCTA
59.067
47.619
0.00
0.0
46.97
2.94
R
3496
3647
5.967674
GCTAAATGATTCAGACAATCCAACG
59.032
40.000
0.00
0.0
0.00
4.10
R
4608
4785
1.366319
AAAGATCCCAGTCAGTGCCT
58.634
50.000
0.00
0.0
0.00
4.75
R
5409
5586
0.105964
AGGTGTAGCGCACTGAACAA
59.894
50.000
11.47
0.0
46.86
2.83
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
137
138
1.151899
TAGCCTGTCCAACCACCCT
60.152
57.895
0.00
0.00
0.00
4.34
138
139
0.117541
TAGCCTGTCCAACCACCCTA
59.882
55.000
0.00
0.00
0.00
3.53
152
153
2.245582
CACCCTAACCCTACCCTATCG
58.754
57.143
0.00
0.00
0.00
2.92
154
155
1.203149
CCCTAACCCTACCCTATCGCT
60.203
57.143
0.00
0.00
0.00
4.93
163
164
3.444388
CCTACCCTATCGCTCCTAATCAC
59.556
52.174
0.00
0.00
0.00
3.06
186
215
5.711976
ACTTCAGAAAATTACCACCATGGAG
59.288
40.000
21.47
11.19
40.96
3.86
190
219
6.953520
TCAGAAAATTACCACCATGGAGAATT
59.046
34.615
21.47
14.15
40.96
2.17
244
305
4.664062
CCACTAATGGCTGGTGGG
57.336
61.111
1.82
0.00
44.63
4.61
253
314
1.676248
TGGCTGGTGGGTAATAAGGT
58.324
50.000
0.00
0.00
0.00
3.50
261
322
1.286553
TGGGTAATAAGGTGCCAAGGG
59.713
52.381
0.00
0.00
0.00
3.95
262
323
1.286849
GGGTAATAAGGTGCCAAGGGT
59.713
52.381
0.00
0.00
0.00
4.34
328
389
1.743958
CAGAAGCAGGCTCATCCAAAG
59.256
52.381
0.00
0.00
37.29
2.77
329
390
0.455005
GAAGCAGGCTCATCCAAAGC
59.545
55.000
0.00
0.00
39.09
3.51
390
452
3.211564
TTTGACCGTCCGTCCGTCC
62.212
63.158
0.00
0.00
41.18
4.79
545
610
1.153289
CCATCTCCCTCCGTTGCTG
60.153
63.158
0.00
0.00
0.00
4.41
555
620
2.740055
CGTTGCTGCTTCGGCTCT
60.740
61.111
0.00
0.00
42.37
4.09
556
621
2.320587
CGTTGCTGCTTCGGCTCTT
61.321
57.895
0.00
0.00
42.37
2.85
557
622
1.845809
CGTTGCTGCTTCGGCTCTTT
61.846
55.000
0.00
0.00
42.37
2.52
558
623
0.110010
GTTGCTGCTTCGGCTCTTTC
60.110
55.000
0.00
0.00
42.37
2.62
559
624
1.237285
TTGCTGCTTCGGCTCTTTCC
61.237
55.000
0.00
0.00
42.37
3.13
560
625
1.376553
GCTGCTTCGGCTCTTTCCT
60.377
57.895
0.00
0.00
42.37
3.36
561
626
1.365368
GCTGCTTCGGCTCTTTCCTC
61.365
60.000
0.00
0.00
42.37
3.71
562
627
0.248843
CTGCTTCGGCTCTTTCCTCT
59.751
55.000
0.00
0.00
42.37
3.69
563
628
0.687354
TGCTTCGGCTCTTTCCTCTT
59.313
50.000
0.00
0.00
42.37
2.85
564
629
1.072331
TGCTTCGGCTCTTTCCTCTTT
59.928
47.619
0.00
0.00
42.37
2.52
565
630
2.155279
GCTTCGGCTCTTTCCTCTTTT
58.845
47.619
0.00
0.00
38.08
2.27
566
631
2.554462
GCTTCGGCTCTTTCCTCTTTTT
59.446
45.455
0.00
0.00
38.08
1.94
607
672
6.561519
TGGCTCTTTCCTTAACTAAGCTAT
57.438
37.500
0.00
0.00
32.02
2.97
608
673
7.670605
TGGCTCTTTCCTTAACTAAGCTATA
57.329
36.000
0.00
0.00
32.02
1.31
632
697
0.892755
TACTAGTCAAGGCCCACACG
59.107
55.000
0.00
0.00
0.00
4.49
695
768
1.063190
TCCCCTCGCTCCATAGAAGAA
60.063
52.381
0.00
0.00
0.00
2.52
733
806
1.790157
TCTCCTCCCCTTCTATCTCCC
59.210
57.143
0.00
0.00
0.00
4.30
763
844
2.362247
TGCTCTGCCGCTCTCTCT
60.362
61.111
0.00
0.00
0.00
3.10
765
846
2.120909
GCTCTGCCGCTCTCTCTCT
61.121
63.158
0.00
0.00
0.00
3.10
766
847
2.024918
CTCTGCCGCTCTCTCTCTC
58.975
63.158
0.00
0.00
0.00
3.20
770
851
2.115911
GCCGCTCTCTCTCTCGGAA
61.116
63.158
3.51
0.00
44.23
4.30
771
852
2.021722
CCGCTCTCTCTCTCGGAAG
58.978
63.158
0.00
0.00
44.23
3.46
772
853
1.355210
CGCTCTCTCTCTCGGAAGC
59.645
63.158
0.00
0.00
0.00
3.86
773
854
1.355210
GCTCTCTCTCTCGGAAGCG
59.645
63.158
0.00
0.00
0.00
4.68
853
942
3.189473
CTGCGCTGCTCTGCTCTG
61.189
66.667
9.73
0.00
0.00
3.35
932
1021
3.797353
GCCGAGCTGATTGGGGGA
61.797
66.667
0.64
0.00
32.21
4.81
933
1022
2.507944
CCGAGCTGATTGGGGGAG
59.492
66.667
0.00
0.00
0.00
4.30
934
1023
2.370445
CCGAGCTGATTGGGGGAGT
61.370
63.158
0.00
0.00
0.00
3.85
1162
1255
2.034879
CACAGCGGCTACAACAGGG
61.035
63.158
0.26
0.00
0.00
4.45
1164
1257
1.189524
ACAGCGGCTACAACAGGGTA
61.190
55.000
0.26
0.00
0.00
3.69
1165
1258
0.036765
CAGCGGCTACAACAGGGTAA
60.037
55.000
0.26
0.00
0.00
2.85
1166
1259
0.249398
AGCGGCTACAACAGGGTAAG
59.751
55.000
0.00
0.00
0.00
2.34
1168
1261
0.036765
CGGCTACAACAGGGTAAGCA
60.037
55.000
0.00
0.00
0.00
3.91
1192
1302
2.033448
TTGTAACCAGCTGGGCGG
59.967
61.111
35.42
12.27
42.05
6.13
1215
1325
4.395583
GCTCTGTGTGCGCCTTGC
62.396
66.667
4.18
0.00
46.70
4.01
1379
1495
2.934511
AGGGGGTCTCTAAGTCTAACCT
59.065
50.000
0.00
0.00
0.00
3.50
1443
1559
2.747686
GAAGTGGTGGCGGAAGGA
59.252
61.111
0.00
0.00
0.00
3.36
1669
1788
0.620556
TTCCCTGTGCCTTCTCCATC
59.379
55.000
0.00
0.00
0.00
3.51
1702
1821
2.834574
TTCAAAACGTGTTCATGCGT
57.165
40.000
0.00
0.00
43.64
5.24
1703
1822
2.098215
TCAAAACGTGTTCATGCGTG
57.902
45.000
0.00
0.00
41.42
5.34
1747
1867
1.804748
CCGCTGGTTGGTTCTAAAGAC
59.195
52.381
0.00
0.00
0.00
3.01
1800
1920
0.708918
GTGAGAGTTTACGCGTGCTC
59.291
55.000
24.59
23.84
0.00
4.26
2075
2200
7.071572
TGTTAACTAAGATTGGTATAGGGGGTC
59.928
40.741
7.22
0.00
0.00
4.46
2201
2326
5.751586
AGAGAAGTTCCCTTTGTTACAACA
58.248
37.500
0.00
0.00
37.08
3.33
2224
2349
2.124996
TTGGGTGAGGGGGAGAGG
59.875
66.667
0.00
0.00
0.00
3.69
2838
2966
5.817816
TCTCTGACCTCACTTTGTTTTTCTC
59.182
40.000
0.00
0.00
0.00
2.87
2942
3070
1.833787
TAAAGTCCGGCCAGTGACCC
61.834
60.000
2.24
0.00
31.76
4.46
3474
3625
9.571810
GTTCATTATGATTTGCATAGTGTTTCA
57.428
29.630
0.00
0.00
43.68
2.69
3496
3647
4.558538
AATAGGATGCAGCGAAACATTC
57.441
40.909
0.00
0.00
0.00
2.67
3520
3672
5.967674
CGTTGGATTGTCTGAATCATTTAGC
59.032
40.000
0.00
0.00
0.00
3.09
3593
3745
7.806960
CCTCAAAATTTTGTCTTCTGTGATCTC
59.193
37.037
25.98
0.00
39.18
2.75
3613
3765
3.438183
TCTACTTCCCCTAACTGTGGTC
58.562
50.000
0.00
0.00
0.00
4.02
4005
4180
5.815581
TGTTATTTTGACTACAGGCCTGAT
58.184
37.500
39.19
24.04
0.00
2.90
4168
4343
5.104941
TCACCAGTACATATGCAGTAAGCTT
60.105
40.000
3.48
3.48
45.94
3.74
4256
4431
1.760192
AGAACATCATGAAGCTGGCC
58.240
50.000
0.00
0.00
0.00
5.36
4983
5160
2.504367
AGATGGTAATTGCGGCCATAC
58.496
47.619
2.24
0.00
42.48
2.39
5317
5494
3.517602
TGTGTGATAACAGATGCGTACC
58.482
45.455
0.00
0.00
0.00
3.34
5318
5495
2.534349
GTGTGATAACAGATGCGTACCG
59.466
50.000
0.00
0.00
0.00
4.02
5341
5518
3.128938
GCACTTCTCTACTACATCACCGT
59.871
47.826
0.00
0.00
0.00
4.83
5356
5533
7.076842
ACATCACCGTCATTAAAATCTTCTG
57.923
36.000
0.00
0.00
0.00
3.02
5404
5581
4.932911
AATAACCCCTTCCCGAAAGTTA
57.067
40.909
0.00
0.00
32.69
2.24
5405
5582
2.574006
AACCCCTTCCCGAAAGTTAC
57.426
50.000
0.00
0.00
32.69
2.50
5406
5583
0.694771
ACCCCTTCCCGAAAGTTACC
59.305
55.000
0.00
0.00
32.69
2.85
5407
5584
0.989602
CCCCTTCCCGAAAGTTACCT
59.010
55.000
0.00
0.00
32.69
3.08
5409
5586
2.224942
CCCCTTCCCGAAAGTTACCTTT
60.225
50.000
0.00
0.00
43.58
3.11
5410
5587
3.493334
CCCTTCCCGAAAGTTACCTTTT
58.507
45.455
0.00
0.00
40.98
2.27
5411
5588
3.254903
CCCTTCCCGAAAGTTACCTTTTG
59.745
47.826
0.00
0.00
40.98
2.44
5574
5832
3.679980
CACATGAACTAAGTTCTGGACCG
59.320
47.826
0.00
0.00
42.39
4.79
5615
5873
0.320073
CTGGCCGAGACCAACGTTAA
60.320
55.000
0.00
0.00
39.86
2.01
5627
5885
4.668289
ACCAACGTTAAAAAGAACTGCTG
58.332
39.130
0.00
0.00
0.00
4.41
5693
6011
2.939103
CGTGTCCTTCCTGATCAAATCC
59.061
50.000
0.00
0.00
0.00
3.01
5695
6013
4.530875
GTGTCCTTCCTGATCAAATCCAT
58.469
43.478
0.00
0.00
0.00
3.41
5742
6060
8.707938
TGTTTCCTAATGCTCATATATGATCG
57.292
34.615
15.71
6.73
36.02
3.69
5743
6061
8.531146
TGTTTCCTAATGCTCATATATGATCGA
58.469
33.333
15.71
3.75
36.02
3.59
5744
6062
9.539825
GTTTCCTAATGCTCATATATGATCGAT
57.460
33.333
15.71
0.00
36.02
3.59
5818
6136
3.037549
ACTTTCCTTGTCCAAATTGGCA
58.962
40.909
7.24
6.10
37.47
4.92
5830
6148
1.915141
AATTGGCAGTTGGAGACAGG
58.085
50.000
0.00
0.00
44.54
4.00
5839
6157
2.147150
GTTGGAGACAGGCTGTTCTTC
58.853
52.381
22.98
17.91
44.54
2.87
5857
6175
2.746277
GTGATCCACCACGCCACC
60.746
66.667
0.00
0.00
0.00
4.61
5858
6176
3.245346
TGATCCACCACGCCACCA
61.245
61.111
0.00
0.00
0.00
4.17
5859
6177
2.272146
GATCCACCACGCCACCAT
59.728
61.111
0.00
0.00
0.00
3.55
5860
6178
2.045045
ATCCACCACGCCACCATG
60.045
61.111
0.00
0.00
0.00
3.66
5861
6179
3.643595
ATCCACCACGCCACCATGG
62.644
63.158
11.19
11.19
41.55
3.66
5862
6180
4.343323
CCACCACGCCACCATGGA
62.343
66.667
21.47
0.00
40.96
3.41
5863
6181
2.747460
CACCACGCCACCATGGAG
60.747
66.667
21.47
11.19
40.96
3.86
5878
6196
3.244700
CCATGGAGGTGATGAGGTTATCC
60.245
52.174
5.56
0.00
0.00
2.59
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
124
125
0.402272
AGGGTTAGGGTGGTTGGACA
60.402
55.000
0.00
0.00
0.00
4.02
137
138
1.785208
AGGAGCGATAGGGTAGGGTTA
59.215
52.381
0.00
0.00
0.00
2.85
138
139
0.561680
AGGAGCGATAGGGTAGGGTT
59.438
55.000
0.00
0.00
0.00
4.11
152
153
7.336931
TGGTAATTTTCTGAAGTGATTAGGAGC
59.663
37.037
0.00
0.00
0.00
4.70
154
155
7.610305
GGTGGTAATTTTCTGAAGTGATTAGGA
59.390
37.037
0.00
0.00
0.00
2.94
163
164
5.945784
TCTCCATGGTGGTAATTTTCTGAAG
59.054
40.000
12.58
0.00
39.03
3.02
186
215
1.000163
TCGCTCGCTCTGGGATAATTC
60.000
52.381
0.00
0.00
0.00
2.17
190
219
0.465642
TTCTCGCTCGCTCTGGGATA
60.466
55.000
0.00
0.00
0.00
2.59
244
305
2.093341
TCGACCCTTGGCACCTTATTAC
60.093
50.000
0.00
0.00
0.00
1.89
328
389
1.135660
GCGAGCTTGTTTTTAGGGAGC
60.136
52.381
2.14
0.00
0.00
4.70
329
390
1.468914
GGCGAGCTTGTTTTTAGGGAG
59.531
52.381
2.14
0.00
0.00
4.30
422
484
0.455295
CTCACTCTCGTCGGTTGAGC
60.455
60.000
9.54
0.00
33.41
4.26
450
515
7.382759
ACCTCGAATTTCTAATCTAATCTTCGC
59.617
37.037
0.00
0.00
0.00
4.70
485
550
2.681097
CGAATCTTCCCCCTTTCTCCAC
60.681
54.545
0.00
0.00
0.00
4.02
545
610
1.814793
AAAGAGGAAAGAGCCGAAGC
58.185
50.000
0.00
0.00
40.32
3.86
567
632
3.578282
GAGCCATTTCTGAAGGGGAAAAA
59.422
43.478
12.04
0.00
37.20
1.94
568
633
3.165071
GAGCCATTTCTGAAGGGGAAAA
58.835
45.455
12.04
0.00
37.20
2.29
569
634
2.379907
AGAGCCATTTCTGAAGGGGAAA
59.620
45.455
12.04
0.00
37.20
3.13
570
635
1.995542
AGAGCCATTTCTGAAGGGGAA
59.004
47.619
12.04
0.00
37.20
3.97
571
636
1.673767
AGAGCCATTTCTGAAGGGGA
58.326
50.000
12.04
0.00
37.20
4.81
572
637
2.521547
AAGAGCCATTTCTGAAGGGG
57.478
50.000
10.85
8.20
37.20
4.79
573
638
2.757314
GGAAAGAGCCATTTCTGAAGGG
59.243
50.000
10.17
5.98
38.86
3.95
574
639
3.694926
AGGAAAGAGCCATTTCTGAAGG
58.305
45.455
10.17
0.00
38.86
3.46
575
640
6.432472
AGTTAAGGAAAGAGCCATTTCTGAAG
59.568
38.462
10.17
0.00
38.86
3.02
576
641
6.306987
AGTTAAGGAAAGAGCCATTTCTGAA
58.693
36.000
10.17
0.00
38.86
3.02
577
642
5.880901
AGTTAAGGAAAGAGCCATTTCTGA
58.119
37.500
10.17
0.00
38.86
3.27
578
643
7.627300
GCTTAGTTAAGGAAAGAGCCATTTCTG
60.627
40.741
10.17
0.00
38.86
3.02
579
644
6.375736
GCTTAGTTAAGGAAAGAGCCATTTCT
59.624
38.462
10.17
0.00
38.86
2.52
580
645
6.375736
AGCTTAGTTAAGGAAAGAGCCATTTC
59.624
38.462
3.24
3.24
38.26
2.17
581
646
6.249192
AGCTTAGTTAAGGAAAGAGCCATTT
58.751
36.000
1.44
0.00
33.95
2.32
582
647
5.821097
AGCTTAGTTAAGGAAAGAGCCATT
58.179
37.500
1.44
0.00
33.95
3.16
583
648
5.443230
AGCTTAGTTAAGGAAAGAGCCAT
57.557
39.130
1.44
0.00
33.95
4.40
584
649
4.910458
AGCTTAGTTAAGGAAAGAGCCA
57.090
40.909
1.44
0.00
33.95
4.75
607
672
2.584031
TGGGCCTTGACTAGTAGTCCTA
59.416
50.000
24.32
13.24
44.44
2.94
608
673
1.361543
TGGGCCTTGACTAGTAGTCCT
59.638
52.381
24.32
0.00
44.44
3.85
733
806
1.105457
CAGAGCAGAGAGAGACAGGG
58.895
60.000
0.00
0.00
0.00
4.45
763
844
2.440430
CTCCTCCCGCTTCCGAGA
60.440
66.667
0.00
0.00
36.29
4.04
765
846
2.440430
CTCTCCTCCCGCTTCCGA
60.440
66.667
0.00
0.00
36.29
4.55
766
847
2.440430
TCTCTCCTCCCGCTTCCG
60.440
66.667
0.00
0.00
0.00
4.30
770
851
1.304217
TTTCGTCTCTCCTCCCGCT
60.304
57.895
0.00
0.00
0.00
5.52
771
852
1.139947
CTTTCGTCTCTCCTCCCGC
59.860
63.158
0.00
0.00
0.00
6.13
772
853
1.139947
GCTTTCGTCTCTCCTCCCG
59.860
63.158
0.00
0.00
0.00
5.14
773
854
0.174617
CTGCTTTCGTCTCTCCTCCC
59.825
60.000
0.00
0.00
0.00
4.30
1162
1255
3.735591
TGGTTACAAGAGTGGTGCTTAC
58.264
45.455
0.00
0.00
0.00
2.34
1164
1257
2.851195
CTGGTTACAAGAGTGGTGCTT
58.149
47.619
0.00
0.00
0.00
3.91
1165
1258
1.543429
GCTGGTTACAAGAGTGGTGCT
60.543
52.381
0.00
0.00
0.00
4.40
1166
1259
0.875059
GCTGGTTACAAGAGTGGTGC
59.125
55.000
0.00
0.00
0.00
5.01
1168
1261
1.072331
CCAGCTGGTTACAAGAGTGGT
59.928
52.381
25.53
0.00
0.00
4.16
1173
1266
1.003839
CGCCCAGCTGGTTACAAGA
60.004
57.895
30.63
0.00
36.04
3.02
1174
1267
2.040544
CCGCCCAGCTGGTTACAAG
61.041
63.158
30.63
15.52
36.04
3.16
1175
1268
2.033448
CCGCCCAGCTGGTTACAA
59.967
61.111
30.63
0.00
36.04
2.41
1176
1269
4.715523
GCCGCCCAGCTGGTTACA
62.716
66.667
30.63
0.00
36.04
2.41
1365
1481
2.613133
CGTCCCGAGGTTAGACTTAGAG
59.387
54.545
0.00
0.00
0.00
2.43
1416
1532
1.059913
CCACCACTTCCTTCAGGACT
58.940
55.000
0.00
0.00
45.39
3.85
1669
1788
9.878599
AACACGTTTTGAATGTATCTAGAAAAG
57.121
29.630
0.00
0.00
0.00
2.27
1702
1821
3.223394
CGTAGCGCGTACACATACA
57.777
52.632
8.43
0.00
35.54
2.29
1729
1848
4.261614
CCTTTGTCTTTAGAACCAACCAGC
60.262
45.833
0.00
0.00
0.00
4.85
1747
1867
1.981256
AAGCACACTACCCACCTTTG
58.019
50.000
0.00
0.00
0.00
2.77
1800
1920
1.472728
GCCGGCCATACGATTATAGGG
60.473
57.143
18.11
0.00
35.47
3.53
2069
2194
3.012047
ACCTAACCAATTAAAGGACCCCC
59.988
47.826
4.48
0.00
33.16
5.40
2075
2200
8.413229
CCATTATGTCACCTAACCAATTAAAGG
58.587
37.037
0.00
0.00
35.14
3.11
2201
2326
0.996762
TCCCCCTCACCCAACAACTT
60.997
55.000
0.00
0.00
0.00
2.66
2224
2349
0.693092
TGTACCATACCCCTCTGGCC
60.693
60.000
0.00
0.00
37.83
5.36
2358
2483
9.865321
ACGTTCAGAAAGTGCTATATTAAGTTA
57.135
29.630
0.36
0.00
0.00
2.24
2359
2484
8.773404
ACGTTCAGAAAGTGCTATATTAAGTT
57.227
30.769
0.36
0.00
0.00
2.66
2424
2549
3.251571
CGGAAGGCAGTGTCTTTAGTAC
58.748
50.000
12.08
0.00
0.00
2.73
2510
2637
4.202223
ACCTGCTCTGACGTTTTTCTTAGA
60.202
41.667
0.00
0.00
0.00
2.10
2838
2966
3.519510
TGTTTCCTCAGACCTCTATTGGG
59.480
47.826
0.00
0.00
0.00
4.12
2930
3058
4.263572
TGGTTGGGTCACTGGCCG
62.264
66.667
0.00
0.00
0.00
6.13
2942
3070
2.567497
CCAGTGGCTTGGCTGGTTG
61.567
63.158
0.00
0.00
45.28
3.77
3154
3301
2.238084
TCATCTAGTCTGCCACCACT
57.762
50.000
0.00
0.00
0.00
4.00
3276
3427
2.318908
CCCCATAACCCCATTCACATG
58.681
52.381
0.00
0.00
0.00
3.21
3465
3616
4.332543
CGCTGCATCCTATTTGAAACACTA
59.667
41.667
0.00
0.00
0.00
2.74
3466
3617
3.127548
CGCTGCATCCTATTTGAAACACT
59.872
43.478
0.00
0.00
0.00
3.55
3474
3625
4.496341
CGAATGTTTCGCTGCATCCTATTT
60.496
41.667
0.00
0.00
46.97
1.40
3477
3628
1.933181
CGAATGTTTCGCTGCATCCTA
59.067
47.619
0.00
0.00
46.97
2.94
3496
3647
5.967674
GCTAAATGATTCAGACAATCCAACG
59.032
40.000
0.00
0.00
0.00
4.10
3613
3765
9.340695
GAATATTCGAGAGTCAATAGTCATCAG
57.659
37.037
0.00
0.00
32.37
2.90
3866
4041
8.686334
ACAGTTACTCACACAATTTTCATCTTT
58.314
29.630
0.00
0.00
0.00
2.52
4350
4526
4.389890
TTTGCAGCAAGAAACAGTCAAT
57.610
36.364
8.12
0.00
0.00
2.57
4432
4608
6.373186
ACAAGGTCTAAAAGTTAACACAGC
57.627
37.500
8.61
0.00
0.00
4.40
4493
4670
2.094545
GTCAACCATTGTTCATCAGCCC
60.095
50.000
0.00
0.00
30.42
5.19
4608
4785
1.366319
AAAGATCCCAGTCAGTGCCT
58.634
50.000
0.00
0.00
0.00
4.75
4923
5100
8.677870
AACTAGCAGATTTGGAGGAGATATAT
57.322
34.615
0.00
0.00
0.00
0.86
4924
5101
7.179338
GGAACTAGCAGATTTGGAGGAGATATA
59.821
40.741
0.00
0.00
0.00
0.86
4925
5102
6.013812
GGAACTAGCAGATTTGGAGGAGATAT
60.014
42.308
0.00
0.00
0.00
1.63
4926
5103
5.305644
GGAACTAGCAGATTTGGAGGAGATA
59.694
44.000
0.00
0.00
0.00
1.98
4927
5104
4.102367
GGAACTAGCAGATTTGGAGGAGAT
59.898
45.833
0.00
0.00
0.00
2.75
4928
5105
3.452627
GGAACTAGCAGATTTGGAGGAGA
59.547
47.826
0.00
0.00
0.00
3.71
4931
5108
2.743183
CGGGAACTAGCAGATTTGGAGG
60.743
54.545
0.00
0.00
0.00
4.30
5317
5494
3.489398
GGTGATGTAGTAGAGAAGTGCCG
60.489
52.174
0.00
0.00
0.00
5.69
5318
5495
3.489398
CGGTGATGTAGTAGAGAAGTGCC
60.489
52.174
0.00
0.00
0.00
5.01
5341
5518
7.243487
GCATTCGACACAGAAGATTTTAATGA
58.757
34.615
0.00
0.00
33.19
2.57
5404
5581
1.602377
GTAGCGCACTGAACAAAAGGT
59.398
47.619
11.47
0.00
0.00
3.50
5405
5582
1.601903
TGTAGCGCACTGAACAAAAGG
59.398
47.619
11.47
0.00
0.00
3.11
5406
5583
2.602217
GGTGTAGCGCACTGAACAAAAG
60.602
50.000
11.47
0.00
46.86
2.27
5407
5584
1.332375
GGTGTAGCGCACTGAACAAAA
59.668
47.619
11.47
0.00
46.86
2.44
5409
5586
0.105964
AGGTGTAGCGCACTGAACAA
59.894
50.000
11.47
0.00
46.86
2.83
5410
5587
0.105964
AAGGTGTAGCGCACTGAACA
59.894
50.000
11.47
2.57
46.86
3.18
5411
5588
0.512952
CAAGGTGTAGCGCACTGAAC
59.487
55.000
11.47
0.00
46.86
3.18
5497
5687
3.681897
ACAGAAATGACGACTTGCTCATC
59.318
43.478
0.00
0.00
0.00
2.92
5498
5688
3.668447
ACAGAAATGACGACTTGCTCAT
58.332
40.909
0.00
0.00
0.00
2.90
5574
5832
6.477033
CCAGAGTGTGCATTAGTATCTTGTAC
59.523
42.308
0.00
0.00
0.00
2.90
5641
5899
6.292865
CGAGTCTCTGTTGCAATAAGAAACAA
60.293
38.462
16.44
3.28
45.13
2.83
5742
6060
7.113684
CCATCTTTTTCTGACGTCGAGTATATC
59.886
40.741
11.62
0.00
0.00
1.63
5743
6061
6.918569
CCATCTTTTTCTGACGTCGAGTATAT
59.081
38.462
11.62
0.00
0.00
0.86
5744
6062
6.094464
TCCATCTTTTTCTGACGTCGAGTATA
59.906
38.462
11.62
0.00
0.00
1.47
5745
6063
5.103000
CCATCTTTTTCTGACGTCGAGTAT
58.897
41.667
11.62
0.00
0.00
2.12
5746
6064
4.216902
TCCATCTTTTTCTGACGTCGAGTA
59.783
41.667
11.62
0.93
0.00
2.59
5747
6065
3.005472
TCCATCTTTTTCTGACGTCGAGT
59.995
43.478
11.62
0.00
0.00
4.18
5748
6066
3.365220
GTCCATCTTTTTCTGACGTCGAG
59.635
47.826
11.62
9.63
0.00
4.04
5749
6067
3.314553
GTCCATCTTTTTCTGACGTCGA
58.685
45.455
11.62
8.49
0.00
4.20
5750
6068
2.090658
CGTCCATCTTTTTCTGACGTCG
59.909
50.000
11.62
6.07
42.68
5.12
5751
6069
3.706994
CGTCCATCTTTTTCTGACGTC
57.293
47.619
9.11
9.11
42.68
4.34
5754
6072
4.307432
TGAGACGTCCATCTTTTTCTGAC
58.693
43.478
13.01
0.00
0.00
3.51
5755
6073
4.600692
TGAGACGTCCATCTTTTTCTGA
57.399
40.909
13.01
0.00
0.00
3.27
5756
6074
6.758416
TCATATGAGACGTCCATCTTTTTCTG
59.242
38.462
18.79
9.39
0.00
3.02
5757
6075
6.878317
TCATATGAGACGTCCATCTTTTTCT
58.122
36.000
18.79
0.00
0.00
2.52
5818
6136
1.428869
AGAACAGCCTGTCTCCAACT
58.571
50.000
0.00
0.00
0.00
3.16
5830
6148
1.079503
GGTGGATCACGAAGAACAGC
58.920
55.000
0.00
0.00
34.83
4.40
5856
6174
3.244700
GGATAACCTCATCACCTCCATGG
60.245
52.174
4.97
4.97
42.93
3.66
5857
6175
3.649981
AGGATAACCTCATCACCTCCATG
59.350
47.826
0.00
0.00
44.13
3.66
5858
6176
3.946824
AGGATAACCTCATCACCTCCAT
58.053
45.455
0.00
0.00
44.13
3.41
5859
6177
3.421394
AGGATAACCTCATCACCTCCA
57.579
47.619
0.00
0.00
44.13
3.86
5878
6196
3.553508
CCAGGCATTGGTTTGACAAAGAG
60.554
47.826
0.00
0.00
42.41
2.85
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.