Multiple sequence alignment - TraesCS6B01G209200
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
TraesCS6B01G209200
chr6B
100.000
2857
0
0
1
2857
275311648
275308792
0.000000e+00
5276.0
1
TraesCS6B01G209200
chr6B
85.099
859
111
7
1
847
699612221
699611368
0.000000e+00
861.0
2
TraesCS6B01G209200
chr6B
84.554
505
76
2
349
852
445888393
445887890
1.530000e-137
499.0
3
TraesCS6B01G209200
chr6B
85.393
356
44
2
3
350
445912440
445912085
2.090000e-96
363.0
4
TraesCS6B01G209200
chr6A
92.043
2124
106
35
28
2105
194812182
194810076
0.000000e+00
2928.0
5
TraesCS6B01G209200
chr6A
84.785
861
118
8
2
852
405453538
405452681
0.000000e+00
852.0
6
TraesCS6B01G209200
chr6A
94.708
359
17
2
2376
2732
194801487
194801129
8.940000e-155
556.0
7
TraesCS6B01G209200
chr6A
96.441
281
9
1
2105
2384
194804191
194803911
2.010000e-126
462.0
8
TraesCS6B01G209200
chr6D
95.997
1574
33
13
1101
2672
150155411
150156956
0.000000e+00
2531.0
9
TraesCS6B01G209200
chr6D
88.836
842
76
4
25
857
150154274
150155106
0.000000e+00
1018.0
10
TraesCS6B01G209200
chr6D
84.553
861
106
10
2
853
285025707
285024865
0.000000e+00
828.0
11
TraesCS6B01G209200
chr6D
84.191
272
32
7
852
1118
150155132
150155397
1.310000e-63
254.0
12
TraesCS6B01G209200
chr6D
90.351
114
10
1
2730
2843
42418880
42418768
6.380000e-32
148.0
13
TraesCS6B01G209200
chr6D
94.737
38
1
1
2232
2268
452116907
452116944
1.110000e-04
58.4
14
TraesCS6B01G209200
chr4D
84.813
856
115
6
1
843
11470119
11470972
0.000000e+00
846.0
15
TraesCS6B01G209200
chr4D
91.071
112
10
0
2732
2843
467211635
467211524
4.930000e-33
152.0
16
TraesCS6B01G209200
chr4A
84.104
843
121
4
1
830
624315149
624314307
0.000000e+00
802.0
17
TraesCS6B01G209200
chr7D
82.748
626
76
15
3
618
152640439
152639836
1.950000e-146
529.0
18
TraesCS6B01G209200
chr3B
85.372
417
52
7
422
831
711145476
711145890
9.460000e-115
424.0
19
TraesCS6B01G209200
chr3B
85.366
410
52
6
428
831
710829087
710829494
4.400000e-113
418.0
20
TraesCS6B01G209200
chr1D
86.630
359
39
1
1
350
494852009
494852367
3.450000e-104
388.0
21
TraesCS6B01G209200
chr1D
87.179
117
14
1
2727
2843
329677074
329677189
6.420000e-27
132.0
22
TraesCS6B01G209200
chr1D
86.087
115
15
1
2729
2843
414267190
414267303
3.870000e-24
122.0
23
TraesCS6B01G209200
chr7B
84.868
304
35
4
3
295
110192999
110192696
2.150000e-76
296.0
24
TraesCS6B01G209200
chr7A
89.726
146
13
2
60
204
152974468
152974324
4.860000e-43
185.0
25
TraesCS6B01G209200
chr2D
90.909
110
10
0
2734
2843
453612052
453611943
6.380000e-32
148.0
26
TraesCS6B01G209200
chr2D
87.826
115
14
0
2743
2857
89907303
89907189
4.970000e-28
135.0
27
TraesCS6B01G209200
chr1B
90.909
110
10
0
2734
2843
353765089
353765198
6.380000e-32
148.0
28
TraesCS6B01G209200
chr2B
90.654
107
10
0
2734
2840
121129035
121129141
2.970000e-30
143.0
29
TraesCS6B01G209200
chr2A
90.000
110
11
0
2734
2843
596368286
596368177
2.970000e-30
143.0
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
TraesCS6B01G209200
chr6B
275308792
275311648
2856
True
5276.000000
5276
100.000000
1
2857
1
chr6B.!!$R1
2856
1
TraesCS6B01G209200
chr6B
699611368
699612221
853
True
861.000000
861
85.099000
1
847
1
chr6B.!!$R4
846
2
TraesCS6B01G209200
chr6B
445887890
445888393
503
True
499.000000
499
84.554000
349
852
1
chr6B.!!$R2
503
3
TraesCS6B01G209200
chr6A
194810076
194812182
2106
True
2928.000000
2928
92.043000
28
2105
1
chr6A.!!$R1
2077
4
TraesCS6B01G209200
chr6A
405452681
405453538
857
True
852.000000
852
84.785000
2
852
1
chr6A.!!$R2
850
5
TraesCS6B01G209200
chr6A
194801129
194804191
3062
True
509.000000
556
95.574500
2105
2732
2
chr6A.!!$R3
627
6
TraesCS6B01G209200
chr6D
150154274
150156956
2682
False
1267.666667
2531
89.674667
25
2672
3
chr6D.!!$F2
2647
7
TraesCS6B01G209200
chr6D
285024865
285025707
842
True
828.000000
828
84.553000
2
853
1
chr6D.!!$R2
851
8
TraesCS6B01G209200
chr4D
11470119
11470972
853
False
846.000000
846
84.813000
1
843
1
chr4D.!!$F1
842
9
TraesCS6B01G209200
chr4A
624314307
624315149
842
True
802.000000
802
84.104000
1
830
1
chr4A.!!$R1
829
10
TraesCS6B01G209200
chr7D
152639836
152640439
603
True
529.000000
529
82.748000
3
618
1
chr7D.!!$R1
615
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
721
746
0.028902
GTTGGTGCAACGAGGAACAC
59.971
55.0
0.0
0.0
33.73
3.32
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
2626
5158
0.322816
TGCTTGCCCTCCACATCTTC
60.323
55.0
0.0
0.0
0.0
2.87
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
26
27
9.241919
ACTGAGATCTATCATAATACTCTGTGG
57.758
37.037
0.00
0.00
35.19
4.17
55
56
3.244215
ACAACAACCGATGATCAGAGTGT
60.244
43.478
0.09
0.00
0.00
3.55
56
57
2.964740
ACAACCGATGATCAGAGTGTG
58.035
47.619
0.09
0.00
0.00
3.82
82
83
1.594293
CTCGTGAACAACCGCCACT
60.594
57.895
0.00
0.00
0.00
4.00
150
151
1.216930
TCTCTCCCGGATATCACCACA
59.783
52.381
0.73
0.00
0.00
4.17
196
198
3.649277
CTCAACTCCGTCCAGGCCG
62.649
68.421
0.00
0.00
40.77
6.13
236
256
7.870509
TCACTAAAAGCTTGAAGCATATGAT
57.129
32.000
20.45
0.00
45.56
2.45
284
304
9.921637
TTGGCATTAGAATTTCGTTAAAATCTT
57.078
25.926
0.00
0.00
36.47
2.40
324
344
3.494048
CCTGTAGCATCTCCCTTAAGCTG
60.494
52.174
0.00
0.00
36.80
4.24
373
393
1.376037
GTCCCAAGCTGGTTCTCCG
60.376
63.158
0.00
0.00
35.17
4.63
379
400
2.289444
CCAAGCTGGTTCTCCGTAGAAA
60.289
50.000
0.00
0.00
43.30
2.52
461
483
5.041940
GTGTCATATAGTTCGGAACCACTC
58.958
45.833
16.84
3.37
0.00
3.51
464
486
0.822164
ATAGTTCGGAACCACTCCCG
59.178
55.000
16.84
0.00
46.57
5.14
484
507
9.106070
ACTCCCGTCTCATTATTATAAAACAAC
57.894
33.333
0.00
0.00
0.00
3.32
509
532
0.895100
GCCACCAGAGCAACCATCAA
60.895
55.000
0.00
0.00
0.00
2.57
553
576
8.451908
AATCGAACCCTAAATTAATCCTCAAG
57.548
34.615
0.00
0.00
0.00
3.02
643
666
1.204941
AGATCCAACAGCTCACGTACC
59.795
52.381
0.00
0.00
0.00
3.34
677
700
0.109365
CATGCCGCGACAATTCCAAA
60.109
50.000
8.23
0.00
0.00
3.28
682
705
2.096819
GCCGCGACAATTCCAAATAAGA
59.903
45.455
8.23
0.00
0.00
2.10
704
727
6.157211
AGAACTTTCATTATCGTCGACAGTT
58.843
36.000
17.16
13.43
33.55
3.16
721
746
0.028902
GTTGGTGCAACGAGGAACAC
59.971
55.000
0.00
0.00
33.73
3.32
784
811
3.621558
ACAAACCCTAGCTATTCTTGCC
58.378
45.455
0.00
0.00
0.00
4.52
794
824
1.398390
CTATTCTTGCCAGGCGACAAC
59.602
52.381
7.03
0.00
0.00
3.32
795
825
0.537143
ATTCTTGCCAGGCGACAACA
60.537
50.000
7.03
0.00
0.00
3.33
796
826
0.749818
TTCTTGCCAGGCGACAACAA
60.750
50.000
7.03
0.00
0.00
2.83
819
850
4.139038
GTCTATAGAGAAGCCTCCTCGTT
58.861
47.826
1.64
0.00
40.30
3.85
853
884
3.388024
ACCAGCAAACTCTAACAGACAGA
59.612
43.478
0.00
0.00
0.00
3.41
865
928
1.356059
ACAGACAGAGACCTCTAGCCA
59.644
52.381
0.00
0.00
37.98
4.75
869
932
0.827368
CAGAGACCTCTAGCCAACCC
59.173
60.000
0.00
0.00
37.98
4.11
907
970
1.064389
GCCTTCTTTGCTAGGGGACAT
60.064
52.381
0.00
0.00
31.95
3.06
974
1039
2.481289
AGAAGAAACTAGCAGGCCAC
57.519
50.000
5.01
0.00
0.00
5.01
976
1041
0.321653
AAGAAACTAGCAGGCCACCG
60.322
55.000
5.01
0.00
0.00
4.94
1007
1072
2.050350
GGCTGTCCTGCATGCATGT
61.050
57.895
26.79
0.00
34.04
3.21
1023
1088
6.143438
GCATGCATGTGTTTATAGAAATGAGC
59.857
38.462
26.79
2.96
0.00
4.26
1026
1091
5.678483
GCATGTGTTTATAGAAATGAGCGTG
59.322
40.000
0.00
0.00
0.00
5.34
1036
1101
4.177026
AGAAATGAGCGTGTGTATGAGTC
58.823
43.478
0.00
0.00
0.00
3.36
1054
1119
2.537639
TCGTATGCGACTGTACTGTG
57.462
50.000
10.43
4.36
42.81
3.66
1112
1178
9.504708
TTCCGTTCATTATAAGTTCCAACTTTA
57.495
29.630
9.92
1.26
46.52
1.85
1114
1180
9.769093
CCGTTCATTATAAGTTCCAACTTTAAG
57.231
33.333
9.92
0.00
46.52
1.85
1271
1368
4.423209
GCCCTCCACTCCCTCCCT
62.423
72.222
0.00
0.00
0.00
4.20
1274
1371
2.360980
CTCCACTCCCTCCCTCGT
59.639
66.667
0.00
0.00
0.00
4.18
1673
1770
2.105128
GATCTCACCGAGGCCGTG
59.895
66.667
0.00
0.00
0.00
4.94
1887
1984
9.959721
AGCAAACTTACCTTGATTCTTATCTTA
57.040
29.630
0.00
0.00
0.00
2.10
2051
2148
5.331876
ACTGTAGTAAGAAGTCTGATGCC
57.668
43.478
0.00
0.00
0.00
4.40
2064
2161
4.645136
AGTCTGATGCCGAGTACTAAATGA
59.355
41.667
0.00
0.00
0.00
2.57
2136
2234
0.248289
TGGAACGAACGATCCCCTTC
59.752
55.000
17.91
3.47
36.40
3.46
2142
2240
1.204941
CGAACGATCCCCTTCAAGACT
59.795
52.381
0.00
0.00
0.00
3.24
2422
4953
7.663827
AGTTATTTTTGGGTTAGTTTAGCACC
58.336
34.615
0.00
0.00
0.00
5.01
2440
4971
3.624777
CACCCCACATAGAGATGCTTTT
58.375
45.455
0.00
0.00
36.43
2.27
2447
4978
6.127535
CCCACATAGAGATGCTTTTCAACAAT
60.128
38.462
0.00
0.00
36.43
2.71
2519
5050
2.949177
ACATGTTTGGACAGCACCTA
57.051
45.000
0.00
0.00
39.58
3.08
2626
5158
5.873179
ATAATAACACACTTCAACACCCG
57.127
39.130
0.00
0.00
0.00
5.28
2652
5184
0.324943
TGGAGGGCAAGCAAGTACTC
59.675
55.000
0.00
0.00
0.00
2.59
2675
5207
4.318332
TGCTGAATAACTCCACAACTCAG
58.682
43.478
0.00
0.00
33.54
3.35
2676
5208
4.040339
TGCTGAATAACTCCACAACTCAGA
59.960
41.667
0.00
0.00
32.39
3.27
2727
5259
8.480501
TGTAACTAAAGACAACTGATATACCCC
58.519
37.037
0.00
0.00
0.00
4.95
2732
5264
7.939784
AAAGACAACTGATATACCCCTTTTC
57.060
36.000
0.00
0.00
0.00
2.29
2733
5265
6.636454
AGACAACTGATATACCCCTTTTCA
57.364
37.500
0.00
0.00
0.00
2.69
2734
5266
6.653989
AGACAACTGATATACCCCTTTTCAG
58.346
40.000
0.00
0.00
39.70
3.02
2735
5267
6.443849
AGACAACTGATATACCCCTTTTCAGA
59.556
38.462
5.33
0.00
37.75
3.27
2736
5268
6.653989
ACAACTGATATACCCCTTTTCAGAG
58.346
40.000
5.33
0.96
37.75
3.35
2737
5269
5.297569
ACTGATATACCCCTTTTCAGAGC
57.702
43.478
5.33
0.00
37.75
4.09
2738
5270
4.721776
ACTGATATACCCCTTTTCAGAGCA
59.278
41.667
5.33
0.00
37.75
4.26
2739
5271
5.370880
ACTGATATACCCCTTTTCAGAGCAT
59.629
40.000
5.33
0.00
37.75
3.79
2740
5272
5.869579
TGATATACCCCTTTTCAGAGCATC
58.130
41.667
0.00
0.00
0.00
3.91
2753
5285
0.678950
GAGCATCTCTAGCAGACCCC
59.321
60.000
0.00
0.00
32.26
4.95
2754
5286
1.112315
AGCATCTCTAGCAGACCCCG
61.112
60.000
0.00
0.00
32.26
5.73
2755
5287
1.395826
GCATCTCTAGCAGACCCCGT
61.396
60.000
0.00
0.00
32.26
5.28
2756
5288
1.982660
CATCTCTAGCAGACCCCGTA
58.017
55.000
0.00
0.00
32.26
4.02
2757
5289
2.520069
CATCTCTAGCAGACCCCGTAT
58.480
52.381
0.00
0.00
32.26
3.06
2758
5290
3.687125
CATCTCTAGCAGACCCCGTATA
58.313
50.000
0.00
0.00
32.26
1.47
2759
5291
3.420300
TCTCTAGCAGACCCCGTATAG
57.580
52.381
0.00
0.00
0.00
1.31
2760
5292
1.813786
CTCTAGCAGACCCCGTATAGC
59.186
57.143
0.00
0.00
0.00
2.97
2761
5293
0.522180
CTAGCAGACCCCGTATAGCG
59.478
60.000
0.00
0.00
40.95
4.26
2762
5294
1.521450
TAGCAGACCCCGTATAGCGC
61.521
60.000
0.00
0.00
39.71
5.92
2763
5295
2.338984
CAGACCCCGTATAGCGCC
59.661
66.667
2.29
0.00
39.71
6.53
2764
5296
3.292936
AGACCCCGTATAGCGCCG
61.293
66.667
2.29
0.00
39.71
6.46
2765
5297
3.289834
GACCCCGTATAGCGCCGA
61.290
66.667
2.29
0.00
39.71
5.54
2766
5298
3.548793
GACCCCGTATAGCGCCGAC
62.549
68.421
2.29
0.00
39.71
4.79
2767
5299
4.353437
CCCCGTATAGCGCCGACC
62.353
72.222
2.29
0.00
39.71
4.79
2768
5300
4.353437
CCCGTATAGCGCCGACCC
62.353
72.222
2.29
0.00
39.71
4.46
2769
5301
4.695231
CCGTATAGCGCCGACCCG
62.695
72.222
2.29
0.00
39.71
5.28
2790
5322
2.712466
GCAAAACGAGTTTACAGTTCGC
59.288
45.455
1.32
0.00
37.84
4.70
2791
5323
2.916735
AAACGAGTTTACAGTTCGCG
57.083
45.000
0.00
0.00
37.84
5.87
2792
5324
1.134226
AACGAGTTTACAGTTCGCGG
58.866
50.000
6.13
0.00
37.84
6.46
2793
5325
0.311790
ACGAGTTTACAGTTCGCGGA
59.688
50.000
6.13
0.00
37.84
5.54
2794
5326
1.269206
ACGAGTTTACAGTTCGCGGAA
60.269
47.619
6.13
0.00
37.84
4.30
2795
5327
1.788308
CGAGTTTACAGTTCGCGGAAA
59.212
47.619
6.13
0.00
0.00
3.13
2796
5328
2.219216
CGAGTTTACAGTTCGCGGAAAA
59.781
45.455
6.13
0.00
0.00
2.29
2797
5329
3.302610
CGAGTTTACAGTTCGCGGAAAAA
60.303
43.478
6.13
0.00
0.00
1.94
2798
5330
3.943958
AGTTTACAGTTCGCGGAAAAAC
58.056
40.909
6.13
7.02
0.00
2.43
2799
5331
2.649140
TTACAGTTCGCGGAAAAACG
57.351
45.000
6.13
2.76
0.00
3.60
2800
5332
0.860533
TACAGTTCGCGGAAAAACGG
59.139
50.000
6.13
6.64
0.00
4.44
2801
5333
1.724581
CAGTTCGCGGAAAAACGGC
60.725
57.895
6.13
0.00
40.64
5.68
2802
5334
1.890510
AGTTCGCGGAAAAACGGCT
60.891
52.632
6.13
0.00
41.63
5.52
2803
5335
0.600782
AGTTCGCGGAAAAACGGCTA
60.601
50.000
6.13
0.00
41.63
3.93
2804
5336
0.445043
GTTCGCGGAAAAACGGCTAT
59.555
50.000
6.13
0.00
41.63
2.97
2805
5337
0.444651
TTCGCGGAAAAACGGCTATG
59.555
50.000
6.13
0.00
41.63
2.23
2806
5338
1.582680
CGCGGAAAAACGGCTATGC
60.583
57.895
0.00
0.00
41.63
3.14
2807
5339
1.582680
GCGGAAAAACGGCTATGCG
60.583
57.895
0.00
0.00
40.81
4.73
2808
5340
1.061887
CGGAAAAACGGCTATGCGG
59.938
57.895
0.00
0.00
35.02
5.69
2809
5341
1.431845
GGAAAAACGGCTATGCGGG
59.568
57.895
2.48
0.00
33.14
6.13
2810
5342
1.226575
GAAAAACGGCTATGCGGGC
60.227
57.895
2.48
0.00
33.14
6.13
2811
5343
2.607668
GAAAAACGGCTATGCGGGCC
62.608
60.000
0.00
0.00
45.57
5.80
2837
5369
4.803426
CGGCGGCAGAGTCAGACC
62.803
72.222
10.53
0.00
0.00
3.85
2838
5370
4.459089
GGCGGCAGAGTCAGACCC
62.459
72.222
3.07
0.00
0.00
4.46
2839
5371
4.459089
GCGGCAGAGTCAGACCCC
62.459
72.222
0.00
0.00
0.00
4.95
2840
5372
4.135153
CGGCAGAGTCAGACCCCG
62.135
72.222
0.00
1.18
0.00
5.73
2841
5373
4.459089
GGCAGAGTCAGACCCCGC
62.459
72.222
0.00
0.00
0.00
6.13
2842
5374
3.695606
GCAGAGTCAGACCCCGCA
61.696
66.667
0.00
0.00
0.00
5.69
2843
5375
3.023949
GCAGAGTCAGACCCCGCAT
62.024
63.158
0.00
0.00
0.00
4.73
2844
5376
1.676678
GCAGAGTCAGACCCCGCATA
61.677
60.000
0.00
0.00
0.00
3.14
2845
5377
0.387202
CAGAGTCAGACCCCGCATAG
59.613
60.000
0.00
0.00
0.00
2.23
2846
5378
0.033011
AGAGTCAGACCCCGCATAGT
60.033
55.000
0.00
0.00
0.00
2.12
2847
5379
0.103208
GAGTCAGACCCCGCATAGTG
59.897
60.000
0.00
0.00
0.00
2.74
2848
5380
1.144057
GTCAGACCCCGCATAGTGG
59.856
63.158
0.00
0.00
0.00
4.00
2849
5381
1.001120
TCAGACCCCGCATAGTGGA
59.999
57.895
0.00
0.00
34.74
4.02
2850
5382
0.616395
TCAGACCCCGCATAGTGGAA
60.616
55.000
0.00
0.00
34.74
3.53
2851
5383
0.462047
CAGACCCCGCATAGTGGAAC
60.462
60.000
0.00
0.00
34.74
3.62
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
9
10
8.536175
TGTTGTTGACCACAGAGTATTATGATA
58.464
33.333
0.00
0.00
36.48
2.15
26
27
3.684103
TCATCGGTTGTTGTTGTTGAC
57.316
42.857
0.00
0.00
0.00
3.18
56
57
0.385974
GTTGTTCACGAGCACCATGC
60.386
55.000
0.00
0.00
45.46
4.06
82
83
4.825085
GGATGGTCAACAAAGTTTCCACTA
59.175
41.667
5.95
0.00
30.68
2.74
150
151
4.971282
TGGGAGATCAGTTTACATGGAGAT
59.029
41.667
0.00
0.00
0.00
2.75
196
198
8.801913
GCTTTTAGTGATTGTCTATTTGAATGC
58.198
33.333
0.00
0.00
0.00
3.56
236
256
2.305927
GTGAGAAGGAAGGTGGGAATCA
59.694
50.000
0.00
0.00
0.00
2.57
284
304
3.455910
ACAGGTCTATGGCTAGCAATTGA
59.544
43.478
18.24
14.63
0.00
2.57
290
310
1.964223
TGCTACAGGTCTATGGCTAGC
59.036
52.381
6.04
6.04
0.00
3.42
324
344
7.328493
GTCATTTGTCTTGGTGTTATTTTAGGC
59.672
37.037
0.00
0.00
0.00
3.93
373
393
2.620242
TGGCGATTAACCGGTTTCTAC
58.380
47.619
27.64
13.02
0.00
2.59
379
400
1.208535
TCAGATTGGCGATTAACCGGT
59.791
47.619
0.00
0.00
0.00
5.28
461
483
7.849026
CGTGTTGTTTTATAATAATGAGACGGG
59.151
37.037
0.00
0.00
0.00
5.28
464
486
9.916397
CCTCGTGTTGTTTTATAATAATGAGAC
57.084
33.333
0.00
0.00
0.00
3.36
484
507
3.535629
TTGCTCTGGTGGCCTCGTG
62.536
63.158
3.32
0.00
0.00
4.35
509
532
7.880160
TCGATTCCCTTCATGTTATTGAAAT
57.120
32.000
0.00
0.00
35.31
2.17
553
576
6.503524
TCTGAACAAAGTTAAGGCAATTCAC
58.496
36.000
0.00
0.00
0.00
3.18
643
666
1.640069
CATGCTCTCAACGATGGCG
59.360
57.895
0.00
0.00
44.79
5.69
677
700
7.974501
ACTGTCGACGATAATGAAAGTTCTTAT
59.025
33.333
11.62
0.00
25.28
1.73
682
705
5.120208
CCAACTGTCGACGATAATGAAAGTT
59.880
40.000
11.62
8.55
40.04
2.66
704
727
4.134623
GTGTTCCTCGTTGCACCA
57.865
55.556
0.00
0.00
0.00
4.17
746
772
2.027625
GTTGTCCTCTGGCGGTTCG
61.028
63.158
0.00
0.00
0.00
3.95
794
824
4.215399
CGAGGAGGCTTCTCTATAGACTTG
59.785
50.000
20.34
0.00
37.65
3.16
795
825
4.141344
ACGAGGAGGCTTCTCTATAGACTT
60.141
45.833
20.34
0.00
37.65
3.01
796
826
3.393278
ACGAGGAGGCTTCTCTATAGACT
59.607
47.826
20.34
0.00
37.65
3.24
819
850
5.188555
AGAGTTTGCTGGTCTTGATGATCTA
59.811
40.000
0.00
0.00
0.00
1.98
853
884
0.684805
CTCGGGTTGGCTAGAGGTCT
60.685
60.000
0.00
0.00
0.00
3.85
865
928
1.228154
GGTTTGCTGTCCTCGGGTT
60.228
57.895
0.00
0.00
0.00
4.11
869
932
0.741221
GCTAGGGTTTGCTGTCCTCG
60.741
60.000
0.00
0.00
32.46
4.63
907
970
3.716872
AGGGTTCTCCTCTTTTGACTTGA
59.283
43.478
0.00
0.00
44.06
3.02
992
1057
1.330234
AAACACATGCATGCAGGACA
58.670
45.000
36.44
8.40
0.00
4.02
1000
1065
6.038603
ACGCTCATTTCTATAAACACATGCAT
59.961
34.615
0.00
0.00
0.00
3.96
1007
1072
7.762159
TCATACACACGCTCATTTCTATAAACA
59.238
33.333
0.00
0.00
0.00
2.83
1023
1088
1.773525
CGCATACGACTCATACACACG
59.226
52.381
0.00
0.00
43.93
4.49
1036
1101
2.257974
ACACAGTACAGTCGCATACG
57.742
50.000
0.00
0.00
42.01
3.06
1051
1116
7.925043
TCTTACCTGAGTTTGTTTTAACACA
57.075
32.000
0.00
0.00
38.92
3.72
1112
1178
3.319405
TCGAGCTCACTCTCTTGAAACTT
59.681
43.478
15.40
0.00
41.09
2.66
1114
1180
2.983803
GTCGAGCTCACTCTCTTGAAAC
59.016
50.000
15.40
0.00
41.09
2.78
1115
1181
2.029828
GGTCGAGCTCACTCTCTTGAAA
60.030
50.000
15.40
0.00
41.09
2.69
1118
1184
0.172352
GGGTCGAGCTCACTCTCTTG
59.828
60.000
15.40
0.00
41.09
3.02
1119
1185
0.251386
TGGGTCGAGCTCACTCTCTT
60.251
55.000
15.40
0.00
41.09
2.85
1120
1186
0.251386
TTGGGTCGAGCTCACTCTCT
60.251
55.000
15.40
0.00
41.09
3.10
1121
1187
0.172352
CTTGGGTCGAGCTCACTCTC
59.828
60.000
15.40
3.65
41.09
3.20
1271
1368
2.180769
CGATGGGCAACTCGACGA
59.819
61.111
0.00
0.00
37.05
4.20
1274
1371
1.511305
GAGACGATGGGCAACTCGA
59.489
57.895
9.14
0.00
38.24
4.04
1976
2073
5.767665
TCGTTTACATAATGCATAAGGCCAT
59.232
36.000
5.01
0.00
43.89
4.40
1979
2076
8.574196
AATTTCGTTTACATAATGCATAAGGC
57.426
30.769
0.00
0.00
45.13
4.35
2051
2148
8.522178
AGAGAAACACTTTCATTTAGTACTCG
57.478
34.615
0.00
0.00
42.10
4.18
2064
2161
6.418946
AGTCCTGAAAAGAGAGAAACACTTT
58.581
36.000
0.00
0.00
40.13
2.66
2422
4953
4.701651
TGTTGAAAAGCATCTCTATGTGGG
59.298
41.667
0.00
0.00
35.38
4.61
2440
4971
6.033341
GCTGTACAAACTTGTTGATTGTTGA
58.967
36.000
0.00
0.00
41.08
3.18
2447
4978
6.017440
GTCCTATTGCTGTACAAACTTGTTGA
60.017
38.462
0.00
0.00
42.86
3.18
2519
5050
1.883926
GAAACGTGTATTGGCCTGGTT
59.116
47.619
3.32
0.00
0.00
3.67
2526
5057
3.437741
GTGGGTAAGGAAACGTGTATTGG
59.562
47.826
0.00
0.00
0.00
3.16
2578
5109
6.591935
TCCATTTGTAGCTTCCGATTATTCT
58.408
36.000
0.00
0.00
0.00
2.40
2626
5158
0.322816
TGCTTGCCCTCCACATCTTC
60.323
55.000
0.00
0.00
0.00
2.87
2652
5184
4.318332
TGAGTTGTGGAGTTATTCAGCAG
58.682
43.478
0.00
0.00
0.00
4.24
2727
5259
4.805192
GTCTGCTAGAGATGCTCTGAAAAG
59.195
45.833
7.19
0.00
41.37
2.27
2732
5264
1.340889
GGGTCTGCTAGAGATGCTCTG
59.659
57.143
7.19
0.00
41.37
3.35
2733
5265
1.703411
GGGTCTGCTAGAGATGCTCT
58.297
55.000
0.00
2.22
43.83
4.09
2734
5266
0.678950
GGGGTCTGCTAGAGATGCTC
59.321
60.000
0.00
0.00
31.63
4.26
2735
5267
1.112315
CGGGGTCTGCTAGAGATGCT
61.112
60.000
0.00
0.00
31.63
3.79
2736
5268
1.365633
CGGGGTCTGCTAGAGATGC
59.634
63.158
0.00
0.00
31.63
3.91
2737
5269
1.982660
TACGGGGTCTGCTAGAGATG
58.017
55.000
0.00
0.00
31.63
2.90
2738
5270
2.982339
ATACGGGGTCTGCTAGAGAT
57.018
50.000
0.00
0.00
31.63
2.75
2739
5271
2.552591
GCTATACGGGGTCTGCTAGAGA
60.553
54.545
0.00
0.00
0.00
3.10
2740
5272
1.813786
GCTATACGGGGTCTGCTAGAG
59.186
57.143
0.00
0.00
0.00
2.43
2741
5273
1.881072
CGCTATACGGGGTCTGCTAGA
60.881
57.143
0.00
0.00
38.44
2.43
2742
5274
0.522180
CGCTATACGGGGTCTGCTAG
59.478
60.000
0.00
0.00
38.44
3.42
2743
5275
1.521450
GCGCTATACGGGGTCTGCTA
61.521
60.000
0.00
0.00
43.93
3.49
2744
5276
2.857744
GCGCTATACGGGGTCTGCT
61.858
63.158
0.00
0.00
43.93
4.24
2745
5277
2.355956
GCGCTATACGGGGTCTGC
60.356
66.667
0.00
0.00
43.93
4.26
2746
5278
2.338984
GGCGCTATACGGGGTCTG
59.661
66.667
7.64
0.00
43.93
3.51
2747
5279
3.292936
CGGCGCTATACGGGGTCT
61.293
66.667
7.64
0.00
43.93
3.85
2748
5280
3.289834
TCGGCGCTATACGGGGTC
61.290
66.667
7.64
0.00
43.93
4.46
2749
5281
3.599704
GTCGGCGCTATACGGGGT
61.600
66.667
7.64
0.00
43.93
4.95
2750
5282
4.353437
GGTCGGCGCTATACGGGG
62.353
72.222
7.64
0.00
43.93
5.73
2751
5283
4.353437
GGGTCGGCGCTATACGGG
62.353
72.222
7.64
0.00
43.93
5.28
2752
5284
4.695231
CGGGTCGGCGCTATACGG
62.695
72.222
7.64
0.00
43.93
4.02
2754
5286
3.778360
TTGCGGGTCGGCGCTATAC
62.778
63.158
7.64
2.79
35.06
1.47
2755
5287
2.575125
TTTTGCGGGTCGGCGCTATA
62.575
55.000
7.64
0.00
35.06
1.31
2756
5288
3.961838
TTTTGCGGGTCGGCGCTAT
62.962
57.895
7.64
0.00
35.06
2.97
2757
5289
4.683721
TTTTGCGGGTCGGCGCTA
62.684
61.111
7.64
0.00
35.06
4.26
2761
5293
4.084888
CTCGTTTTGCGGGTCGGC
62.085
66.667
0.00
0.00
41.72
5.54
2767
5299
3.285745
GAACTGTAAACTCGTTTTGCGG
58.714
45.455
0.00
7.33
40.90
5.69
2768
5300
2.955799
CGAACTGTAAACTCGTTTTGCG
59.044
45.455
0.00
0.00
43.01
4.85
2769
5301
2.712466
GCGAACTGTAAACTCGTTTTGC
59.288
45.455
0.00
0.00
35.06
3.68
2770
5302
2.955799
CGCGAACTGTAAACTCGTTTTG
59.044
45.455
0.00
0.00
35.06
2.44
2771
5303
2.033492
CCGCGAACTGTAAACTCGTTTT
60.033
45.455
8.23
0.00
35.06
2.43
2772
5304
1.523934
CCGCGAACTGTAAACTCGTTT
59.476
47.619
8.23
0.35
35.06
3.60
2773
5305
1.134226
CCGCGAACTGTAAACTCGTT
58.866
50.000
8.23
0.00
35.06
3.85
2774
5306
0.311790
TCCGCGAACTGTAAACTCGT
59.688
50.000
8.23
0.00
35.06
4.18
2775
5307
1.411394
TTCCGCGAACTGTAAACTCG
58.589
50.000
8.23
0.00
35.70
4.18
2776
5308
3.865224
TTTTCCGCGAACTGTAAACTC
57.135
42.857
8.23
0.00
0.00
3.01
2777
5309
3.544637
CGTTTTTCCGCGAACTGTAAACT
60.545
43.478
8.23
0.00
0.00
2.66
2778
5310
2.710460
CGTTTTTCCGCGAACTGTAAAC
59.290
45.455
8.23
8.24
0.00
2.01
2779
5311
2.286301
CCGTTTTTCCGCGAACTGTAAA
60.286
45.455
8.23
0.00
0.00
2.01
2780
5312
1.261089
CCGTTTTTCCGCGAACTGTAA
59.739
47.619
8.23
0.00
0.00
2.41
2781
5313
0.860533
CCGTTTTTCCGCGAACTGTA
59.139
50.000
8.23
0.00
0.00
2.74
2782
5314
1.644913
CCGTTTTTCCGCGAACTGT
59.355
52.632
8.23
0.00
0.00
3.55
2783
5315
1.724581
GCCGTTTTTCCGCGAACTG
60.725
57.895
8.23
1.06
0.00
3.16
2784
5316
0.600782
TAGCCGTTTTTCCGCGAACT
60.601
50.000
8.23
0.00
0.00
3.01
2785
5317
0.445043
ATAGCCGTTTTTCCGCGAAC
59.555
50.000
8.23
2.38
0.00
3.95
2786
5318
0.444651
CATAGCCGTTTTTCCGCGAA
59.555
50.000
8.23
0.00
0.00
4.70
2787
5319
1.973137
GCATAGCCGTTTTTCCGCGA
61.973
55.000
8.23
0.00
0.00
5.87
2788
5320
1.582680
GCATAGCCGTTTTTCCGCG
60.583
57.895
0.00
0.00
0.00
6.46
2789
5321
1.582680
CGCATAGCCGTTTTTCCGC
60.583
57.895
0.00
0.00
0.00
5.54
2790
5322
1.061887
CCGCATAGCCGTTTTTCCG
59.938
57.895
0.00
0.00
0.00
4.30
2791
5323
1.431845
CCCGCATAGCCGTTTTTCC
59.568
57.895
0.00
0.00
0.00
3.13
2792
5324
1.226575
GCCCGCATAGCCGTTTTTC
60.227
57.895
0.00
0.00
0.00
2.29
2793
5325
2.706834
GGCCCGCATAGCCGTTTTT
61.707
57.895
0.00
0.00
41.41
1.94
2794
5326
3.138128
GGCCCGCATAGCCGTTTT
61.138
61.111
0.00
0.00
41.41
2.43
2820
5352
4.803426
GGTCTGACTCTGCCGCCG
62.803
72.222
7.85
0.00
0.00
6.46
2821
5353
4.459089
GGGTCTGACTCTGCCGCC
62.459
72.222
7.85
0.00
0.00
6.13
2822
5354
4.459089
GGGGTCTGACTCTGCCGC
62.459
72.222
7.74
0.00
0.00
6.53
2823
5355
4.135153
CGGGGTCTGACTCTGCCG
62.135
72.222
7.74
0.00
0.00
5.69
2824
5356
4.459089
GCGGGGTCTGACTCTGCC
62.459
72.222
27.39
11.86
45.15
4.85
2826
5358
0.387202
CTATGCGGGGTCTGACTCTG
59.613
60.000
12.25
12.25
0.00
3.35
2827
5359
0.033011
ACTATGCGGGGTCTGACTCT
60.033
55.000
7.74
0.00
0.00
3.24
2828
5360
0.103208
CACTATGCGGGGTCTGACTC
59.897
60.000
7.85
2.89
0.00
3.36
2829
5361
1.330655
CCACTATGCGGGGTCTGACT
61.331
60.000
7.85
0.00
0.00
3.41
2830
5362
1.144057
CCACTATGCGGGGTCTGAC
59.856
63.158
0.00
0.00
0.00
3.51
2831
5363
0.616395
TTCCACTATGCGGGGTCTGA
60.616
55.000
0.00
0.00
0.00
3.27
2832
5364
0.462047
GTTCCACTATGCGGGGTCTG
60.462
60.000
0.00
0.00
0.00
3.51
2833
5365
0.617820
AGTTCCACTATGCGGGGTCT
60.618
55.000
0.00
0.00
0.00
3.85
2834
5366
0.462047
CAGTTCCACTATGCGGGGTC
60.462
60.000
0.00
0.00
0.00
4.46
2835
5367
1.198759
ACAGTTCCACTATGCGGGGT
61.199
55.000
0.00
0.00
0.00
4.95
2836
5368
0.828022
TACAGTTCCACTATGCGGGG
59.172
55.000
0.00
0.00
0.00
5.73
2837
5369
2.684001
TTACAGTTCCACTATGCGGG
57.316
50.000
0.00
0.00
0.00
6.13
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.