Multiple sequence alignment - TraesCS7D01G449500
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
TraesCS7D01G449500
chr7D
100.000
5249
0
0
1
5249
568632878
568627630
0.000000e+00
9694.0
1
TraesCS7D01G449500
chr7D
83.650
263
15
6
320
557
194467388
194467129
6.840000e-54
222.0
2
TraesCS7D01G449500
chr7A
96.196
4916
138
21
1
4902
657421448
657416568
0.000000e+00
7997.0
3
TraesCS7D01G449500
chr7A
80.025
3139
603
18
1110
4234
625913088
625909960
0.000000e+00
2302.0
4
TraesCS7D01G449500
chr7B
96.441
4440
128
14
1
4421
624710947
624706519
0.000000e+00
7297.0
5
TraesCS7D01G449500
chr7B
92.308
273
18
1
4420
4689
624706357
624706085
8.250000e-103
385.0
6
TraesCS7D01G449500
chr7B
88.424
311
22
7
4588
4892
570672831
570672529
3.860000e-96
363.0
7
TraesCS7D01G449500
chr7B
91.018
167
7
3
4737
4902
624705894
624705735
8.850000e-53
219.0
8
TraesCS7D01G449500
chr7B
91.791
134
10
1
320
453
549936207
549936339
8.980000e-43
185.0
9
TraesCS7D01G449500
chr7B
93.651
63
3
1
4737
4798
624705995
624705933
5.600000e-15
93.5
10
TraesCS7D01G449500
chr2B
83.699
3147
479
27
1106
4234
734396035
734399165
0.000000e+00
2939.0
11
TraesCS7D01G449500
chr2B
88.274
307
23
9
4592
4892
558684132
558683833
6.470000e-94
355.0
12
TraesCS7D01G449500
chr2B
87.419
310
25
7
4588
4891
311967147
311966846
1.400000e-90
344.0
13
TraesCS7D01G449500
chr2B
83.525
261
16
9
320
555
355392562
355392820
8.850000e-53
219.0
14
TraesCS7D01G449500
chr3D
82.934
3211
510
29
1050
4241
26587053
26583862
0.000000e+00
2859.0
15
TraesCS7D01G449500
chr3A
82.563
3223
532
25
1063
4270
36662569
36659362
0.000000e+00
2811.0
16
TraesCS7D01G449500
chr3A
83.178
321
51
2
3924
4241
14770740
14770420
1.850000e-74
291.0
17
TraesCS7D01G449500
chr6B
81.523
3480
583
44
793
4234
65091125
65087668
0.000000e+00
2809.0
18
TraesCS7D01G449500
chr6B
82.368
3227
529
30
1027
4234
64689710
64686505
0.000000e+00
2771.0
19
TraesCS7D01G449500
chr6B
78.988
652
135
2
1081
1731
15277569
15276919
1.340000e-120
444.0
20
TraesCS7D01G449500
chr3B
82.539
3190
523
29
1063
4234
44787491
44784318
0.000000e+00
2774.0
21
TraesCS7D01G449500
chr3B
78.512
968
194
10
1663
2623
44761078
44762038
1.610000e-174
623.0
22
TraesCS7D01G449500
chr5B
81.332
3348
562
48
1020
4343
35549006
35545698
0.000000e+00
2662.0
23
TraesCS7D01G449500
chr5B
89.389
311
19
7
4588
4892
302655895
302655593
3.840000e-101
379.0
24
TraesCS7D01G449500
chr5B
87.781
311
24
8
4588
4892
611085806
611085504
8.360000e-93
351.0
25
TraesCS7D01G449500
chr4A
81.242
3204
560
31
1054
4233
657097087
657100273
0.000000e+00
2549.0
26
TraesCS7D01G449500
chr4A
81.220
3147
557
27
1106
4234
657201029
657204159
0.000000e+00
2507.0
27
TraesCS7D01G449500
chr6A
79.945
3276
591
41
1081
4341
1757644
1754420
0.000000e+00
2350.0
28
TraesCS7D01G449500
chr6A
79.908
652
129
2
1081
1731
9015593
9014943
1.320000e-130
477.0
29
TraesCS7D01G449500
chr6A
88.312
308
21
8
4592
4892
542012411
542012112
6.470000e-94
355.0
30
TraesCS7D01G449500
chrUn
81.469
2860
476
33
1508
4340
94836791
94839623
0.000000e+00
2296.0
31
TraesCS7D01G449500
chr6D
79.479
2534
469
34
1081
3602
2750548
2748054
0.000000e+00
1751.0
32
TraesCS7D01G449500
chr6D
78.931
655
133
4
1081
1731
24751461
24750808
1.740000e-119
440.0
33
TraesCS7D01G449500
chr2D
88.131
337
26
7
4592
4921
99507653
99507982
6.370000e-104
388.0
34
TraesCS7D01G449500
chr4B
88.746
311
21
7
4588
4892
139868384
139868686
8.300000e-98
368.0
35
TraesCS7D01G449500
chr1D
78.733
442
90
4
1614
2053
17672557
17672996
5.140000e-75
292.0
36
TraesCS7D01G449500
chr1A
90.625
64
4
2
5166
5228
552275570
552275508
3.370000e-12
84.2
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
TraesCS7D01G449500
chr7D
568627630
568632878
5248
True
9694.000
9694
100.0000
1
5249
1
chr7D.!!$R2
5248
1
TraesCS7D01G449500
chr7A
657416568
657421448
4880
True
7997.000
7997
96.1960
1
4902
1
chr7A.!!$R2
4901
2
TraesCS7D01G449500
chr7A
625909960
625913088
3128
True
2302.000
2302
80.0250
1110
4234
1
chr7A.!!$R1
3124
3
TraesCS7D01G449500
chr7B
624705735
624710947
5212
True
1998.625
7297
93.3545
1
4902
4
chr7B.!!$R2
4901
4
TraesCS7D01G449500
chr2B
734396035
734399165
3130
False
2939.000
2939
83.6990
1106
4234
1
chr2B.!!$F2
3128
5
TraesCS7D01G449500
chr3D
26583862
26587053
3191
True
2859.000
2859
82.9340
1050
4241
1
chr3D.!!$R1
3191
6
TraesCS7D01G449500
chr3A
36659362
36662569
3207
True
2811.000
2811
82.5630
1063
4270
1
chr3A.!!$R2
3207
7
TraesCS7D01G449500
chr6B
65087668
65091125
3457
True
2809.000
2809
81.5230
793
4234
1
chr6B.!!$R3
3441
8
TraesCS7D01G449500
chr6B
64686505
64689710
3205
True
2771.000
2771
82.3680
1027
4234
1
chr6B.!!$R2
3207
9
TraesCS7D01G449500
chr6B
15276919
15277569
650
True
444.000
444
78.9880
1081
1731
1
chr6B.!!$R1
650
10
TraesCS7D01G449500
chr3B
44784318
44787491
3173
True
2774.000
2774
82.5390
1063
4234
1
chr3B.!!$R1
3171
11
TraesCS7D01G449500
chr3B
44761078
44762038
960
False
623.000
623
78.5120
1663
2623
1
chr3B.!!$F1
960
12
TraesCS7D01G449500
chr5B
35545698
35549006
3308
True
2662.000
2662
81.3320
1020
4343
1
chr5B.!!$R1
3323
13
TraesCS7D01G449500
chr4A
657097087
657100273
3186
False
2549.000
2549
81.2420
1054
4233
1
chr4A.!!$F1
3179
14
TraesCS7D01G449500
chr4A
657201029
657204159
3130
False
2507.000
2507
81.2200
1106
4234
1
chr4A.!!$F2
3128
15
TraesCS7D01G449500
chr6A
1754420
1757644
3224
True
2350.000
2350
79.9450
1081
4341
1
chr6A.!!$R1
3260
16
TraesCS7D01G449500
chr6A
9014943
9015593
650
True
477.000
477
79.9080
1081
1731
1
chr6A.!!$R2
650
17
TraesCS7D01G449500
chrUn
94836791
94839623
2832
False
2296.000
2296
81.4690
1508
4340
1
chrUn.!!$F1
2832
18
TraesCS7D01G449500
chr6D
2748054
2750548
2494
True
1751.000
1751
79.4790
1081
3602
1
chr6D.!!$R1
2521
19
TraesCS7D01G449500
chr6D
24750808
24751461
653
True
440.000
440
78.9310
1081
1731
1
chr6D.!!$R2
650
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
780
793
0.330604
ATCTCACCAACTGCCATGCT
59.669
50.000
0.00
0.00
0.00
3.79
F
1777
1830
0.934496
CAACTTGTCGTCGCTGGAAA
59.066
50.000
0.00
0.00
0.00
3.13
F
3302
3367
2.482721
ACGGTGCAGTTTATAAGTGTGC
59.517
45.455
8.21
8.21
34.28
4.57
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
2568
2630
0.245539
CCAAGCTGCCAACCTCATTG
59.754
55.000
0.00
0.0
38.12
2.82
R
3463
3528
2.887152
ACACCAATGCCTTGAACTCTTC
59.113
45.455
2.97
0.0
34.04
2.87
R
5007
5413
0.031515
TCCCCGGAGATTGCCTTCTA
60.032
55.000
0.73
0.0
0.00
2.10
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
71
72
6.405538
AGCAAAGGTTCTGAAACATGAAAAA
58.594
32.000
8.34
0.00
37.10
1.94
130
131
8.344831
CGCATCCATCTATTGAGAAATTTAACA
58.655
33.333
0.00
0.00
34.61
2.41
223
224
6.116806
TCCTAAAAAGTCGCTAAATATGGCA
58.883
36.000
0.00
0.00
31.43
4.92
540
545
2.936202
TCAAAGCAGAAACCTTGAGCT
58.064
42.857
0.00
0.00
37.08
4.09
687
692
6.109359
AGTAGCCAAACTCAGATACAATCAC
58.891
40.000
0.00
0.00
0.00
3.06
688
693
4.910195
AGCCAAACTCAGATACAATCACA
58.090
39.130
0.00
0.00
0.00
3.58
780
793
0.330604
ATCTCACCAACTGCCATGCT
59.669
50.000
0.00
0.00
0.00
3.79
786
799
1.179152
CCAACTGCCATGCTGATTGA
58.821
50.000
0.00
0.00
0.00
2.57
869
883
6.633500
TGTTGGACAGTTTTGAGATTTAGG
57.367
37.500
0.00
0.00
0.00
2.69
917
932
7.093945
GGACAAAAGGTCTAAATTATTGCTGGA
60.094
37.037
0.00
0.00
46.16
3.86
976
995
4.394920
AGTTGTTGGAATATTAGCACACCG
59.605
41.667
0.00
0.00
0.00
4.94
1539
1590
2.364842
ATCCCAGCTGAGCTCGGT
60.365
61.111
23.36
13.62
38.11
4.69
1777
1830
0.934496
CAACTTGTCGTCGCTGGAAA
59.066
50.000
0.00
0.00
0.00
3.13
1845
1898
5.242838
TGATATTGACAACAAGTTCCCCAAC
59.757
40.000
0.00
0.00
39.46
3.77
1912
1965
9.051259
CCATCCCTTCCTCAATATCTAATCTAA
57.949
37.037
0.00
0.00
0.00
2.10
2660
2722
5.300752
ACCGGATAGTATTCAGAATTGCAG
58.699
41.667
9.46
0.00
0.00
4.41
2668
2730
6.705302
AGTATTCAGAATTGCAGAGTCTTGA
58.295
36.000
0.00
0.00
28.33
3.02
3163
3228
2.610479
CGTAGGAAGCTCAGACAAAGCA
60.610
50.000
0.00
0.00
42.35
3.91
3302
3367
2.482721
ACGGTGCAGTTTATAAGTGTGC
59.517
45.455
8.21
8.21
34.28
4.57
3553
3618
2.069273
CTCAAGAGCCCACTACAAACG
58.931
52.381
0.00
0.00
0.00
3.60
3971
4047
3.745799
TGCTTGAGATGTTTACCGGAAA
58.254
40.909
9.46
1.01
0.00
3.13
4243
4322
2.081725
TGCATACCTCGCGTTTGTTA
57.918
45.000
5.77
0.00
0.00
2.41
4358
4437
3.751175
TCCTGCAATTTATATGTAGCGCC
59.249
43.478
2.29
0.00
0.00
6.53
4524
4776
1.471287
CACACATGCTGGGAACATCAG
59.529
52.381
0.00
0.00
40.26
2.90
4544
4796
8.708378
ACATCAGTTCATGATTAAGATAGACCA
58.292
33.333
0.00
0.00
46.97
4.02
4556
4808
9.303537
GATTAAGATAGACCAGTAGACAACAAC
57.696
37.037
0.00
0.00
0.00
3.32
4568
4820
2.169352
AGACAACAACTGAGACTGCACT
59.831
45.455
0.00
0.00
0.00
4.40
4598
4850
6.072286
AGCATGGTTCATCTGTAGAAAAACAG
60.072
38.462
0.00
0.00
46.78
3.16
4604
4856
7.148787
GGTTCATCTGTAGAAAAACAGTAGACG
60.149
40.741
4.11
0.00
45.78
4.18
4685
4947
5.181811
CAGCATAGATTCAGACACCACAAAA
59.818
40.000
0.00
0.00
0.00
2.44
4707
4969
7.977789
AAAAAGCTGTCCAAAAGAAAGAAAA
57.022
28.000
0.00
0.00
30.30
2.29
4708
4970
7.977789
AAAAGCTGTCCAAAAGAAAGAAAAA
57.022
28.000
0.00
0.00
30.30
1.94
4709
4971
6.968131
AAGCTGTCCAAAAGAAAGAAAAAC
57.032
33.333
0.00
0.00
30.30
2.43
4710
4972
5.102313
AGCTGTCCAAAAGAAAGAAAAACG
58.898
37.500
0.00
0.00
30.30
3.60
4764
5068
6.186957
TCAGACATACACCAGGCAATAATTT
58.813
36.000
0.00
0.00
0.00
1.82
4767
5071
6.835488
AGACATACACCAGGCAATAATTTCAT
59.165
34.615
0.00
0.00
0.00
2.57
4786
5192
5.996669
TCATAAGTAGCAGCACATCAATG
57.003
39.130
0.00
0.00
0.00
2.82
4827
5233
2.846039
ACGATACTACAAGGCTCACG
57.154
50.000
0.00
0.00
0.00
4.35
4828
5234
2.362736
ACGATACTACAAGGCTCACGA
58.637
47.619
0.00
0.00
0.00
4.35
4829
5235
2.355132
ACGATACTACAAGGCTCACGAG
59.645
50.000
0.00
0.00
0.00
4.18
4830
5236
2.355132
CGATACTACAAGGCTCACGAGT
59.645
50.000
0.00
0.00
0.00
4.18
4831
5237
3.546417
CGATACTACAAGGCTCACGAGTC
60.546
52.174
0.00
0.00
0.00
3.36
4832
5238
1.617322
ACTACAAGGCTCACGAGTCA
58.383
50.000
0.87
0.00
34.98
3.41
4833
5239
1.269998
ACTACAAGGCTCACGAGTCAC
59.730
52.381
0.87
0.00
34.98
3.67
4838
5244
2.872001
GCTCACGAGTCACGAGCG
60.872
66.667
13.36
0.00
45.77
5.03
4902
5308
1.003355
AGGGTGTGATCTTGGTGCG
60.003
57.895
0.00
0.00
0.00
5.34
4903
5309
2.040544
GGGTGTGATCTTGGTGCGG
61.041
63.158
0.00
0.00
0.00
5.69
4904
5310
2.690778
GGTGTGATCTTGGTGCGGC
61.691
63.158
0.00
0.00
0.00
6.53
4905
5311
2.741985
TGTGATCTTGGTGCGGCG
60.742
61.111
0.51
0.51
0.00
6.46
4906
5312
2.742372
GTGATCTTGGTGCGGCGT
60.742
61.111
9.37
0.00
0.00
5.68
4907
5313
2.741985
TGATCTTGGTGCGGCGTG
60.742
61.111
9.37
0.00
0.00
5.34
4908
5314
4.166011
GATCTTGGTGCGGCGTGC
62.166
66.667
9.37
0.96
46.70
5.34
4909
5315
4.704833
ATCTTGGTGCGGCGTGCT
62.705
61.111
9.37
0.00
46.63
4.40
4910
5316
4.927782
TCTTGGTGCGGCGTGCTT
62.928
61.111
9.37
0.00
46.63
3.91
4911
5317
4.688419
CTTGGTGCGGCGTGCTTG
62.688
66.667
9.37
0.00
46.63
4.01
4939
5345
3.528370
CGGGTAGGGTGAGGCGAG
61.528
72.222
0.00
0.00
0.00
5.03
4940
5346
3.851128
GGGTAGGGTGAGGCGAGC
61.851
72.222
0.00
0.00
0.00
5.03
4941
5347
4.208686
GGTAGGGTGAGGCGAGCG
62.209
72.222
0.00
0.00
0.00
5.03
4942
5348
4.208686
GTAGGGTGAGGCGAGCGG
62.209
72.222
0.00
0.00
0.00
5.52
4943
5349
4.435970
TAGGGTGAGGCGAGCGGA
62.436
66.667
0.00
0.00
0.00
5.54
4958
5364
2.107141
GGAGGTCCGGATCTTGCG
59.893
66.667
20.66
0.00
0.00
4.85
4959
5365
2.423898
GGAGGTCCGGATCTTGCGA
61.424
63.158
20.66
0.00
30.86
5.10
4960
5366
1.066587
GAGGTCCGGATCTTGCGAG
59.933
63.158
20.66
0.00
30.86
5.03
4961
5367
1.379977
AGGTCCGGATCTTGCGAGA
60.380
57.895
12.79
6.01
30.86
4.04
4962
5368
1.066587
GGTCCGGATCTTGCGAGAG
59.933
63.158
7.81
0.00
34.85
3.20
4963
5369
1.384989
GGTCCGGATCTTGCGAGAGA
61.385
60.000
7.81
0.00
34.85
3.10
4964
5370
0.030101
GTCCGGATCTTGCGAGAGAG
59.970
60.000
7.81
3.22
34.85
3.20
4965
5371
0.107165
TCCGGATCTTGCGAGAGAGA
60.107
55.000
10.06
0.70
34.85
3.10
4966
5372
0.958091
CCGGATCTTGCGAGAGAGAT
59.042
55.000
10.06
0.00
34.85
2.75
4967
5373
1.335780
CCGGATCTTGCGAGAGAGATG
60.336
57.143
10.06
0.00
34.85
2.90
4968
5374
1.782044
GGATCTTGCGAGAGAGATGC
58.218
55.000
10.06
0.31
34.85
3.91
4969
5375
1.407434
GATCTTGCGAGAGAGATGCG
58.593
55.000
10.06
0.00
34.85
4.73
4970
5376
0.031857
ATCTTGCGAGAGAGATGCGG
59.968
55.000
10.06
0.00
34.85
5.69
4971
5377
1.032114
TCTTGCGAGAGAGATGCGGA
61.032
55.000
0.00
0.00
0.00
5.54
4972
5378
0.594540
CTTGCGAGAGAGATGCGGAG
60.595
60.000
0.00
0.00
0.00
4.63
4973
5379
2.009424
TTGCGAGAGAGATGCGGAGG
62.009
60.000
0.00
0.00
0.00
4.30
4974
5380
2.190170
GCGAGAGAGATGCGGAGGA
61.190
63.158
0.00
0.00
0.00
3.71
4975
5381
1.652012
CGAGAGAGATGCGGAGGAC
59.348
63.158
0.00
0.00
0.00
3.85
4976
5382
0.817634
CGAGAGAGATGCGGAGGACT
60.818
60.000
0.00
0.00
0.00
3.85
4977
5383
0.667993
GAGAGAGATGCGGAGGACTG
59.332
60.000
0.00
0.00
0.00
3.51
4978
5384
0.754957
AGAGAGATGCGGAGGACTGG
60.755
60.000
0.00
0.00
0.00
4.00
4979
5385
1.000993
AGAGATGCGGAGGACTGGT
59.999
57.895
0.00
0.00
0.00
4.00
4980
5386
1.142748
GAGATGCGGAGGACTGGTG
59.857
63.158
0.00
0.00
0.00
4.17
4981
5387
2.187946
GATGCGGAGGACTGGTGG
59.812
66.667
0.00
0.00
0.00
4.61
4982
5388
2.284625
ATGCGGAGGACTGGTGGA
60.285
61.111
0.00
0.00
0.00
4.02
4983
5389
2.303549
GATGCGGAGGACTGGTGGAG
62.304
65.000
0.00
0.00
0.00
3.86
4984
5390
3.775654
GCGGAGGACTGGTGGAGG
61.776
72.222
0.00
0.00
0.00
4.30
4985
5391
3.077556
CGGAGGACTGGTGGAGGG
61.078
72.222
0.00
0.00
0.00
4.30
4986
5392
2.450243
GGAGGACTGGTGGAGGGA
59.550
66.667
0.00
0.00
0.00
4.20
4987
5393
1.003573
GGAGGACTGGTGGAGGGAT
59.996
63.158
0.00
0.00
0.00
3.85
4988
5394
0.621862
GGAGGACTGGTGGAGGGATT
60.622
60.000
0.00
0.00
0.00
3.01
4989
5395
0.833949
GAGGACTGGTGGAGGGATTC
59.166
60.000
0.00
0.00
0.00
2.52
4990
5396
0.119155
AGGACTGGTGGAGGGATTCA
59.881
55.000
0.00
0.00
0.00
2.57
4991
5397
0.253327
GGACTGGTGGAGGGATTCAC
59.747
60.000
0.00
0.00
0.00
3.18
4992
5398
1.280457
GACTGGTGGAGGGATTCACT
58.720
55.000
0.00
0.00
34.57
3.41
4993
5399
0.987294
ACTGGTGGAGGGATTCACTG
59.013
55.000
0.00
0.00
34.57
3.66
4994
5400
0.254178
CTGGTGGAGGGATTCACTGG
59.746
60.000
0.00
0.00
34.57
4.00
4995
5401
1.077429
GGTGGAGGGATTCACTGGC
60.077
63.158
0.00
0.00
34.57
4.85
4996
5402
1.450312
GTGGAGGGATTCACTGGCG
60.450
63.158
0.00
0.00
0.00
5.69
4997
5403
2.190578
GGAGGGATTCACTGGCGG
59.809
66.667
0.00
0.00
0.00
6.13
4998
5404
2.367202
GGAGGGATTCACTGGCGGA
61.367
63.158
0.00
0.00
0.00
5.54
4999
5405
1.144936
GAGGGATTCACTGGCGGAG
59.855
63.158
0.00
0.00
0.00
4.63
5000
5406
2.190578
GGGATTCACTGGCGGAGG
59.809
66.667
0.00
0.00
0.00
4.30
5001
5407
2.190578
GGATTCACTGGCGGAGGG
59.809
66.667
0.00
0.00
0.00
4.30
5002
5408
2.190578
GATTCACTGGCGGAGGGG
59.809
66.667
0.00
0.00
0.00
4.79
5003
5409
3.406595
GATTCACTGGCGGAGGGGG
62.407
68.421
0.00
0.00
0.00
5.40
5012
5418
3.917760
CGGAGGGGGCGCTAGAAG
61.918
72.222
7.64
0.00
0.00
2.85
5013
5419
3.551407
GGAGGGGGCGCTAGAAGG
61.551
72.222
7.64
0.00
0.00
3.46
5014
5420
4.243008
GAGGGGGCGCTAGAAGGC
62.243
72.222
7.64
0.00
0.00
4.35
5016
5422
4.109675
GGGGGCGCTAGAAGGCAA
62.110
66.667
7.64
0.00
35.71
4.52
5017
5423
2.193248
GGGGCGCTAGAAGGCAAT
59.807
61.111
7.64
0.00
35.71
3.56
5018
5424
1.894282
GGGGCGCTAGAAGGCAATC
60.894
63.158
7.64
0.00
35.71
2.67
5019
5425
1.147153
GGGCGCTAGAAGGCAATCT
59.853
57.895
7.64
0.00
35.71
2.40
5020
5426
0.882484
GGGCGCTAGAAGGCAATCTC
60.882
60.000
7.64
0.00
35.71
2.75
5021
5427
0.882484
GGCGCTAGAAGGCAATCTCC
60.882
60.000
7.64
0.00
0.00
3.71
5022
5428
1.218230
GCGCTAGAAGGCAATCTCCG
61.218
60.000
0.00
3.31
0.00
4.63
5023
5429
0.598680
CGCTAGAAGGCAATCTCCGG
60.599
60.000
0.00
0.00
0.00
5.14
5024
5430
0.250081
GCTAGAAGGCAATCTCCGGG
60.250
60.000
0.00
0.00
0.00
5.73
5025
5431
0.394565
CTAGAAGGCAATCTCCGGGG
59.605
60.000
0.00
0.00
0.00
5.73
5026
5432
0.031515
TAGAAGGCAATCTCCGGGGA
60.032
55.000
6.42
6.42
0.00
4.81
5027
5433
0.695803
AGAAGGCAATCTCCGGGGAT
60.696
55.000
12.32
12.32
0.00
3.85
5028
5434
0.250510
GAAGGCAATCTCCGGGGATC
60.251
60.000
19.50
5.78
0.00
3.36
5029
5435
2.031163
GGCAATCTCCGGGGATCG
59.969
66.667
19.50
7.85
38.88
3.69
5030
5436
2.507854
GGCAATCTCCGGGGATCGA
61.508
63.158
19.50
0.00
42.43
3.59
5031
5437
1.445942
GCAATCTCCGGGGATCGAA
59.554
57.895
19.50
0.00
42.43
3.71
5032
5438
0.880718
GCAATCTCCGGGGATCGAAC
60.881
60.000
19.50
3.56
42.43
3.95
5033
5439
0.753262
CAATCTCCGGGGATCGAACT
59.247
55.000
19.50
0.00
42.43
3.01
5034
5440
1.961394
CAATCTCCGGGGATCGAACTA
59.039
52.381
19.50
0.00
42.43
2.24
5035
5441
2.364324
CAATCTCCGGGGATCGAACTAA
59.636
50.000
19.50
0.00
42.43
2.24
5036
5442
2.148446
TCTCCGGGGATCGAACTAAA
57.852
50.000
0.00
0.00
42.43
1.85
5037
5443
2.459644
TCTCCGGGGATCGAACTAAAA
58.540
47.619
0.00
0.00
42.43
1.52
5038
5444
3.036091
TCTCCGGGGATCGAACTAAAAT
58.964
45.455
0.00
0.00
42.43
1.82
5039
5445
4.217510
TCTCCGGGGATCGAACTAAAATA
58.782
43.478
0.00
0.00
42.43
1.40
5040
5446
4.836736
TCTCCGGGGATCGAACTAAAATAT
59.163
41.667
0.00
0.00
42.43
1.28
5041
5447
4.890088
TCCGGGGATCGAACTAAAATATG
58.110
43.478
0.00
0.00
42.43
1.78
5042
5448
3.435671
CCGGGGATCGAACTAAAATATGC
59.564
47.826
0.00
0.00
42.43
3.14
5043
5449
4.062293
CGGGGATCGAACTAAAATATGCA
58.938
43.478
0.00
0.00
42.43
3.96
5044
5450
4.084013
CGGGGATCGAACTAAAATATGCAC
60.084
45.833
0.00
0.00
42.43
4.57
5045
5451
4.819630
GGGGATCGAACTAAAATATGCACA
59.180
41.667
0.00
0.00
0.00
4.57
5046
5452
5.473504
GGGGATCGAACTAAAATATGCACAT
59.526
40.000
0.00
0.00
0.00
3.21
5047
5453
6.348540
GGGGATCGAACTAAAATATGCACATC
60.349
42.308
0.00
0.00
0.00
3.06
5048
5454
6.428159
GGGATCGAACTAAAATATGCACATCT
59.572
38.462
0.00
0.00
0.00
2.90
5049
5455
7.293745
GGATCGAACTAAAATATGCACATCTG
58.706
38.462
0.00
0.00
0.00
2.90
5050
5456
6.603237
TCGAACTAAAATATGCACATCTGG
57.397
37.500
0.00
0.00
0.00
3.86
5051
5457
5.527214
TCGAACTAAAATATGCACATCTGGG
59.473
40.000
0.00
0.00
0.00
4.45
5052
5458
5.277974
CGAACTAAAATATGCACATCTGGGG
60.278
44.000
0.00
0.00
0.00
4.96
5053
5459
3.891366
ACTAAAATATGCACATCTGGGGC
59.109
43.478
0.00
0.00
0.00
5.80
5054
5460
1.321474
AAATATGCACATCTGGGGCG
58.679
50.000
0.00
0.00
0.00
6.13
5055
5461
0.538057
AATATGCACATCTGGGGCGG
60.538
55.000
0.00
0.00
0.00
6.13
5056
5462
1.708993
ATATGCACATCTGGGGCGGT
61.709
55.000
0.00
0.00
0.00
5.68
5057
5463
1.920734
TATGCACATCTGGGGCGGTT
61.921
55.000
0.00
0.00
0.00
4.44
5058
5464
3.134127
GCACATCTGGGGCGGTTC
61.134
66.667
0.00
0.00
0.00
3.62
5059
5465
2.671070
CACATCTGGGGCGGTTCT
59.329
61.111
0.00
0.00
0.00
3.01
5060
5466
1.450312
CACATCTGGGGCGGTTCTC
60.450
63.158
0.00
0.00
0.00
2.87
5061
5467
2.190578
CATCTGGGGCGGTTCTCC
59.809
66.667
0.00
0.00
0.00
3.71
5062
5468
2.285368
ATCTGGGGCGGTTCTCCA
60.285
61.111
0.00
0.00
0.00
3.86
5063
5469
1.694169
ATCTGGGGCGGTTCTCCAT
60.694
57.895
0.00
0.00
0.00
3.41
5064
5470
1.281925
ATCTGGGGCGGTTCTCCATT
61.282
55.000
0.00
0.00
0.00
3.16
5065
5471
1.750399
CTGGGGCGGTTCTCCATTG
60.750
63.158
0.00
0.00
0.00
2.82
5066
5472
2.440247
GGGGCGGTTCTCCATTGG
60.440
66.667
0.00
0.00
0.00
3.16
5067
5473
2.440247
GGGCGGTTCTCCATTGGG
60.440
66.667
2.09
0.00
0.00
4.12
5068
5474
2.440247
GGCGGTTCTCCATTGGGG
60.440
66.667
2.09
0.00
38.37
4.96
5069
5475
2.440247
GCGGTTCTCCATTGGGGG
60.440
66.667
1.86
0.00
37.22
5.40
5070
5476
2.440247
CGGTTCTCCATTGGGGGC
60.440
66.667
1.86
0.00
33.18
5.80
5071
5477
2.042944
GGTTCTCCATTGGGGGCC
60.043
66.667
1.86
0.00
33.18
5.80
5072
5478
2.770130
GTTCTCCATTGGGGGCCA
59.230
61.111
4.39
0.00
33.18
5.36
5081
5487
3.567902
TTGGGGGCCAAAGAACATT
57.432
47.368
4.39
0.00
40.92
2.71
5082
5488
1.813102
TTGGGGGCCAAAGAACATTT
58.187
45.000
4.39
0.00
40.92
2.32
5083
5489
1.813102
TGGGGGCCAAAGAACATTTT
58.187
45.000
4.39
0.00
0.00
1.82
5084
5490
2.131023
TGGGGGCCAAAGAACATTTTT
58.869
42.857
4.39
0.00
0.00
1.94
5107
5513
5.773239
TTTTTAACGATAACAGGAGAGCG
57.227
39.130
0.00
0.00
0.00
5.03
5108
5514
4.707030
TTTAACGATAACAGGAGAGCGA
57.293
40.909
0.00
0.00
0.00
4.93
5109
5515
4.707030
TTAACGATAACAGGAGAGCGAA
57.293
40.909
0.00
0.00
0.00
4.70
5110
5516
3.587797
AACGATAACAGGAGAGCGAAA
57.412
42.857
0.00
0.00
0.00
3.46
5111
5517
3.587797
ACGATAACAGGAGAGCGAAAA
57.412
42.857
0.00
0.00
0.00
2.29
5112
5518
4.124851
ACGATAACAGGAGAGCGAAAAT
57.875
40.909
0.00
0.00
0.00
1.82
5113
5519
4.504858
ACGATAACAGGAGAGCGAAAATT
58.495
39.130
0.00
0.00
0.00
1.82
5114
5520
4.567159
ACGATAACAGGAGAGCGAAAATTC
59.433
41.667
0.00
0.00
0.00
2.17
5115
5521
4.025647
CGATAACAGGAGAGCGAAAATTCC
60.026
45.833
0.00
0.00
0.00
3.01
5116
5522
3.425162
AACAGGAGAGCGAAAATTCCT
57.575
42.857
0.00
0.00
40.63
3.36
5117
5523
3.425162
ACAGGAGAGCGAAAATTCCTT
57.575
42.857
0.00
0.00
37.97
3.36
5118
5524
3.756117
ACAGGAGAGCGAAAATTCCTTT
58.244
40.909
0.00
0.00
37.97
3.11
5119
5525
3.753797
ACAGGAGAGCGAAAATTCCTTTC
59.246
43.478
0.00
0.00
37.97
2.62
5126
5532
2.941453
GAAAATTCCTTTCGGAGGCC
57.059
50.000
0.00
0.00
45.87
5.19
5137
5543
2.203126
GGAGGCCGAGCTCCAATG
60.203
66.667
8.47
0.00
39.45
2.82
5138
5544
2.735772
GGAGGCCGAGCTCCAATGA
61.736
63.158
8.47
0.00
39.45
2.57
5139
5545
1.227497
GAGGCCGAGCTCCAATGAG
60.227
63.158
8.47
0.00
41.84
2.90
5140
5546
2.203126
GGCCGAGCTCCAATGAGG
60.203
66.667
8.47
3.22
39.14
3.86
5141
5547
2.899339
GCCGAGCTCCAATGAGGC
60.899
66.667
8.47
10.27
39.14
4.70
5142
5548
2.906458
CCGAGCTCCAATGAGGCT
59.094
61.111
8.47
0.00
39.14
4.58
5143
5549
1.523258
CCGAGCTCCAATGAGGCTG
60.523
63.158
8.47
0.00
39.14
4.85
5144
5550
1.523258
CGAGCTCCAATGAGGCTGG
60.523
63.158
8.47
0.00
39.14
4.85
5145
5551
1.606531
GAGCTCCAATGAGGCTGGT
59.393
57.895
0.87
0.00
39.14
4.00
5146
5552
0.034670
GAGCTCCAATGAGGCTGGTT
60.035
55.000
0.87
0.00
39.14
3.67
5147
5553
0.407139
AGCTCCAATGAGGCTGGTTT
59.593
50.000
0.00
0.00
39.14
3.27
5148
5554
1.203100
AGCTCCAATGAGGCTGGTTTT
60.203
47.619
0.00
0.00
39.14
2.43
5149
5555
1.620323
GCTCCAATGAGGCTGGTTTTT
59.380
47.619
0.00
0.00
39.14
1.94
5150
5556
2.611224
GCTCCAATGAGGCTGGTTTTTG
60.611
50.000
0.00
0.00
39.14
2.44
5151
5557
2.892852
CTCCAATGAGGCTGGTTTTTGA
59.107
45.455
0.00
0.00
37.29
2.69
5152
5558
3.303938
TCCAATGAGGCTGGTTTTTGAA
58.696
40.909
0.00
0.00
37.29
2.69
5153
5559
3.708631
TCCAATGAGGCTGGTTTTTGAAA
59.291
39.130
0.00
0.00
37.29
2.69
5154
5560
4.163078
TCCAATGAGGCTGGTTTTTGAAAA
59.837
37.500
0.00
0.00
37.29
2.29
5155
5561
4.880696
CCAATGAGGCTGGTTTTTGAAAAA
59.119
37.500
0.00
0.00
0.00
1.94
5156
5562
5.532032
CCAATGAGGCTGGTTTTTGAAAAAT
59.468
36.000
6.35
0.00
0.00
1.82
5157
5563
6.039605
CCAATGAGGCTGGTTTTTGAAAAATT
59.960
34.615
6.35
0.00
0.00
1.82
5158
5564
6.866010
ATGAGGCTGGTTTTTGAAAAATTC
57.134
33.333
6.35
3.53
0.00
2.17
5159
5565
5.738909
TGAGGCTGGTTTTTGAAAAATTCA
58.261
33.333
6.35
7.58
38.04
2.57
5222
5628
9.775854
ACATAGATATAGATGAAGGCATAATGC
57.224
33.333
3.84
0.00
44.08
3.56
5236
5642
5.673337
GCATAATGCATAAGAGGACGAAA
57.327
39.130
0.00
0.00
44.26
3.46
5237
5643
6.246420
GCATAATGCATAAGAGGACGAAAT
57.754
37.500
0.00
0.00
44.26
2.17
5238
5644
7.364522
GCATAATGCATAAGAGGACGAAATA
57.635
36.000
0.00
0.00
44.26
1.40
5239
5645
7.237173
GCATAATGCATAAGAGGACGAAATAC
58.763
38.462
0.00
0.00
44.26
1.89
5240
5646
7.095229
GCATAATGCATAAGAGGACGAAATACA
60.095
37.037
0.00
0.00
44.26
2.29
5241
5647
8.939929
CATAATGCATAAGAGGACGAAATACAT
58.060
33.333
0.00
0.00
0.00
2.29
5242
5648
7.807977
AATGCATAAGAGGACGAAATACATT
57.192
32.000
0.00
0.00
0.00
2.71
5243
5649
6.603237
TGCATAAGAGGACGAAATACATTG
57.397
37.500
0.00
0.00
0.00
2.82
5244
5650
6.345298
TGCATAAGAGGACGAAATACATTGA
58.655
36.000
0.00
0.00
0.00
2.57
5245
5651
6.821160
TGCATAAGAGGACGAAATACATTGAA
59.179
34.615
0.00
0.00
0.00
2.69
5246
5652
7.335673
TGCATAAGAGGACGAAATACATTGAAA
59.664
33.333
0.00
0.00
0.00
2.69
5247
5653
8.345565
GCATAAGAGGACGAAATACATTGAAAT
58.654
33.333
0.00
0.00
0.00
2.17
5248
5654
9.655769
CATAAGAGGACGAAATACATTGAAATG
57.344
33.333
1.45
1.45
42.10
2.32
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
101
102
3.391506
TCTCAATAGATGGATGCGTGG
57.608
47.619
0.00
0.00
0.00
4.94
130
131
4.160252
AGGAGAGCATGTGTTTTTGTTTGT
59.840
37.500
0.00
0.00
0.00
2.83
180
181
4.526970
AGGATGTTTTATTGGCATCTCGT
58.473
39.130
0.00
0.00
39.04
4.18
233
234
1.002087
CTGCTAACAGTTCGGGAGGTT
59.998
52.381
0.00
0.00
39.22
3.50
255
256
8.974060
ACTAAATTGATATATCGGGTTGTTGT
57.026
30.769
8.19
0.00
0.00
3.32
318
319
8.402326
TGTCGATGTTGTTATGTATACAGTTC
57.598
34.615
11.91
4.64
0.00
3.01
453
458
2.875672
GCAGTAACCTCATGCCTTGACA
60.876
50.000
0.00
0.00
33.81
3.58
533
538
7.872113
ATACTATGAAGGGAAAAAGCTCAAG
57.128
36.000
0.00
0.00
0.00
3.02
780
793
9.066892
GGTTGCTAAATAGGATAATGTCAATCA
57.933
33.333
0.00
0.00
0.00
2.57
786
799
8.766994
ACAATGGTTGCTAAATAGGATAATGT
57.233
30.769
0.00
0.00
0.00
2.71
869
883
5.354234
TCCTCTTTTGACAACTTGACAGTTC
59.646
40.000
0.00
0.00
41.69
3.01
896
911
9.657419
CATTTTCCAGCAATAATTTAGACCTTT
57.343
29.630
0.00
0.00
0.00
3.11
917
932
6.039941
TGTTTATGTCCCGTCACTTTCATTTT
59.960
34.615
0.00
0.00
0.00
1.82
1539
1590
4.263905
ACTGCCAGGGATATGAACTTTTCA
60.264
41.667
0.00
0.00
45.01
2.69
1912
1965
4.081420
CAGGCTGAGTTGTATGAGGTTAGT
60.081
45.833
9.42
0.00
0.00
2.24
2568
2630
0.245539
CCAAGCTGCCAACCTCATTG
59.754
55.000
0.00
0.00
38.12
2.82
2660
2722
9.871238
TGTCTAATAATAACCAGTTCAAGACTC
57.129
33.333
0.00
0.00
36.10
3.36
3163
3228
4.827835
TGAGTACTGCACTAGTGTCTTCTT
59.172
41.667
23.44
6.72
40.65
2.52
3302
3367
5.772825
TGTTCTGTCCTCATTTTCCAAAG
57.227
39.130
0.00
0.00
0.00
2.77
3463
3528
2.887152
ACACCAATGCCTTGAACTCTTC
59.113
45.455
2.97
0.00
34.04
2.87
3553
3618
3.426568
GGCAAGGCTGAGCGTGTC
61.427
66.667
0.00
0.00
0.00
3.67
3971
4047
1.376424
CTGTCATCTGTTGGGCGCT
60.376
57.895
7.64
0.00
0.00
5.92
4243
4322
1.581223
GGTTCCCCTGTAACCTAGCT
58.419
55.000
0.00
0.00
42.63
3.32
4262
4341
1.172175
GGCTTCTTTCCCTGCTTCAG
58.828
55.000
0.00
0.00
0.00
3.02
4272
4351
8.253113
TGAATTTATTGATTCAGGGCTTCTTTC
58.747
33.333
0.00
0.00
40.20
2.62
4449
4698
7.974675
TGACTAGAACTTGCTATTATTGCAAC
58.025
34.615
9.75
1.90
44.24
4.17
4522
4774
9.689976
CTACTGGTCTATCTTAATCATGAACTG
57.310
37.037
0.00
0.00
0.00
3.16
4524
4776
9.685828
GTCTACTGGTCTATCTTAATCATGAAC
57.314
37.037
0.00
0.00
0.00
3.18
4540
4792
4.038162
AGTCTCAGTTGTTGTCTACTGGTC
59.962
45.833
9.12
2.78
43.71
4.02
4544
4796
3.384789
TGCAGTCTCAGTTGTTGTCTACT
59.615
43.478
0.00
0.00
0.00
2.57
4556
4808
1.543358
TGCTCTGTAGTGCAGTCTCAG
59.457
52.381
16.02
16.02
45.23
3.35
4568
4820
4.956075
TCTACAGATGAACCATGCTCTGTA
59.044
41.667
10.00
10.00
44.80
2.74
4572
4824
6.072508
TGTTTTTCTACAGATGAACCATGCTC
60.073
38.462
0.00
0.00
0.00
4.26
4598
4850
4.421948
CTGTTACTGGATTCCACGTCTAC
58.578
47.826
0.00
7.21
0.00
2.59
4604
4856
4.380867
CCATTTGCTGTTACTGGATTCCAC
60.381
45.833
0.00
0.00
0.00
4.02
4631
4888
9.788960
TGCTTGCTTATCGTATAATCTAGTATG
57.211
33.333
0.00
0.00
0.00
2.39
4640
4897
4.944048
TGCTCTGCTTGCTTATCGTATAA
58.056
39.130
0.00
0.00
0.00
0.98
4641
4898
4.550422
CTGCTCTGCTTGCTTATCGTATA
58.450
43.478
0.00
0.00
0.00
1.47
4685
4947
6.090763
CGTTTTTCTTTCTTTTGGACAGCTTT
59.909
34.615
0.00
0.00
0.00
3.51
4689
4951
5.102313
AGCGTTTTTCTTTCTTTTGGACAG
58.898
37.500
0.00
0.00
0.00
3.51
4691
4953
5.004440
GTGAGCGTTTTTCTTTCTTTTGGAC
59.996
40.000
0.00
0.00
0.00
4.02
4692
4954
5.099575
GTGAGCGTTTTTCTTTCTTTTGGA
58.900
37.500
0.00
0.00
0.00
3.53
4693
4955
4.027702
CGTGAGCGTTTTTCTTTCTTTTGG
60.028
41.667
0.00
0.00
0.00
3.28
4694
4956
5.041467
CGTGAGCGTTTTTCTTTCTTTTG
57.959
39.130
0.00
0.00
0.00
2.44
4764
5068
4.274214
GCATTGATGTGCTGCTACTTATGA
59.726
41.667
0.00
0.00
41.82
2.15
4767
5071
3.608796
TGCATTGATGTGCTGCTACTTA
58.391
40.909
0.00
0.00
45.27
2.24
4786
5192
6.260050
TCGTTAGTGATTCTGGGAATTTATGC
59.740
38.462
0.00
0.00
0.00
3.14
4827
5233
0.179134
ATTACTGCCGCTCGTGACTC
60.179
55.000
0.00
0.00
0.00
3.36
4828
5234
0.246635
AATTACTGCCGCTCGTGACT
59.753
50.000
0.00
0.00
0.00
3.41
4829
5235
1.917273
TAATTACTGCCGCTCGTGAC
58.083
50.000
0.00
0.00
0.00
3.67
4830
5236
2.264813
GTTAATTACTGCCGCTCGTGA
58.735
47.619
0.00
0.00
0.00
4.35
4831
5237
1.996898
TGTTAATTACTGCCGCTCGTG
59.003
47.619
0.00
0.00
0.00
4.35
4832
5238
1.997606
GTGTTAATTACTGCCGCTCGT
59.002
47.619
0.00
0.00
0.00
4.18
4833
5239
1.326548
GGTGTTAATTACTGCCGCTCG
59.673
52.381
0.00
0.00
0.00
5.03
4838
5244
1.662122
CCGTCGGTGTTAATTACTGCC
59.338
52.381
2.08
0.00
0.00
4.85
4917
5323
3.528370
CTCACCCTACCCGGCGAG
61.528
72.222
9.30
0.00
0.00
5.03
4922
5328
3.528370
CTCGCCTCACCCTACCCG
61.528
72.222
0.00
0.00
0.00
5.28
4923
5329
3.851128
GCTCGCCTCACCCTACCC
61.851
72.222
0.00
0.00
0.00
3.69
4924
5330
4.208686
CGCTCGCCTCACCCTACC
62.209
72.222
0.00
0.00
0.00
3.18
4925
5331
4.208686
CCGCTCGCCTCACCCTAC
62.209
72.222
0.00
0.00
0.00
3.18
4926
5332
4.435970
TCCGCTCGCCTCACCCTA
62.436
66.667
0.00
0.00
0.00
3.53
4930
5336
4.500116
GACCTCCGCTCGCCTCAC
62.500
72.222
0.00
0.00
0.00
3.51
4941
5347
2.107141
CGCAAGATCCGGACCTCC
59.893
66.667
6.12
0.00
43.02
4.30
4942
5348
3.207354
TCGCAAGATCCGGACCTC
58.793
61.111
6.12
0.17
45.01
3.85
4953
5359
0.594540
CTCCGCATCTCTCTCGCAAG
60.595
60.000
0.00
0.00
0.00
4.01
4954
5360
1.435105
CTCCGCATCTCTCTCGCAA
59.565
57.895
0.00
0.00
0.00
4.85
4955
5361
2.484928
CCTCCGCATCTCTCTCGCA
61.485
63.158
0.00
0.00
0.00
5.10
4956
5362
2.190170
TCCTCCGCATCTCTCTCGC
61.190
63.158
0.00
0.00
0.00
5.03
4957
5363
0.817634
AGTCCTCCGCATCTCTCTCG
60.818
60.000
0.00
0.00
0.00
4.04
4958
5364
0.667993
CAGTCCTCCGCATCTCTCTC
59.332
60.000
0.00
0.00
0.00
3.20
4959
5365
0.754957
CCAGTCCTCCGCATCTCTCT
60.755
60.000
0.00
0.00
0.00
3.10
4960
5366
1.040339
ACCAGTCCTCCGCATCTCTC
61.040
60.000
0.00
0.00
0.00
3.20
4961
5367
1.000993
ACCAGTCCTCCGCATCTCT
59.999
57.895
0.00
0.00
0.00
3.10
4962
5368
1.142748
CACCAGTCCTCCGCATCTC
59.857
63.158
0.00
0.00
0.00
2.75
4963
5369
2.362369
CCACCAGTCCTCCGCATCT
61.362
63.158
0.00
0.00
0.00
2.90
4964
5370
2.187946
CCACCAGTCCTCCGCATC
59.812
66.667
0.00
0.00
0.00
3.91
4965
5371
2.284625
TCCACCAGTCCTCCGCAT
60.285
61.111
0.00
0.00
0.00
4.73
4966
5372
2.997315
CTCCACCAGTCCTCCGCA
60.997
66.667
0.00
0.00
0.00
5.69
4967
5373
3.775654
CCTCCACCAGTCCTCCGC
61.776
72.222
0.00
0.00
0.00
5.54
4968
5374
2.880629
ATCCCTCCACCAGTCCTCCG
62.881
65.000
0.00
0.00
0.00
4.63
4969
5375
0.621862
AATCCCTCCACCAGTCCTCC
60.622
60.000
0.00
0.00
0.00
4.30
4970
5376
0.833949
GAATCCCTCCACCAGTCCTC
59.166
60.000
0.00
0.00
0.00
3.71
4971
5377
0.119155
TGAATCCCTCCACCAGTCCT
59.881
55.000
0.00
0.00
0.00
3.85
4972
5378
0.253327
GTGAATCCCTCCACCAGTCC
59.747
60.000
0.00
0.00
0.00
3.85
4973
5379
1.065854
CAGTGAATCCCTCCACCAGTC
60.066
57.143
0.00
0.00
34.00
3.51
4974
5380
0.987294
CAGTGAATCCCTCCACCAGT
59.013
55.000
0.00
0.00
34.00
4.00
4975
5381
0.254178
CCAGTGAATCCCTCCACCAG
59.746
60.000
0.00
0.00
34.00
4.00
4976
5382
1.852157
GCCAGTGAATCCCTCCACCA
61.852
60.000
0.00
0.00
34.00
4.17
4977
5383
1.077429
GCCAGTGAATCCCTCCACC
60.077
63.158
0.00
0.00
34.00
4.61
4978
5384
1.450312
CGCCAGTGAATCCCTCCAC
60.450
63.158
0.00
0.00
0.00
4.02
4979
5385
2.669133
CCGCCAGTGAATCCCTCCA
61.669
63.158
0.00
0.00
0.00
3.86
4980
5386
2.190578
CCGCCAGTGAATCCCTCC
59.809
66.667
0.00
0.00
0.00
4.30
4981
5387
1.144936
CTCCGCCAGTGAATCCCTC
59.855
63.158
0.00
0.00
0.00
4.30
4982
5388
2.370445
CCTCCGCCAGTGAATCCCT
61.370
63.158
0.00
0.00
0.00
4.20
4983
5389
2.190578
CCTCCGCCAGTGAATCCC
59.809
66.667
0.00
0.00
0.00
3.85
4984
5390
2.190578
CCCTCCGCCAGTGAATCC
59.809
66.667
0.00
0.00
0.00
3.01
4985
5391
2.190578
CCCCTCCGCCAGTGAATC
59.809
66.667
0.00
0.00
0.00
2.52
4986
5392
3.411517
CCCCCTCCGCCAGTGAAT
61.412
66.667
0.00
0.00
0.00
2.57
4995
5401
3.917760
CTTCTAGCGCCCCCTCCG
61.918
72.222
2.29
0.00
0.00
4.63
4996
5402
3.551407
CCTTCTAGCGCCCCCTCC
61.551
72.222
2.29
0.00
0.00
4.30
4997
5403
4.243008
GCCTTCTAGCGCCCCCTC
62.243
72.222
2.29
0.00
0.00
4.30
4999
5405
3.421728
ATTGCCTTCTAGCGCCCCC
62.422
63.158
2.29
0.00
34.65
5.40
5000
5406
1.894282
GATTGCCTTCTAGCGCCCC
60.894
63.158
2.29
0.00
34.65
5.80
5001
5407
0.882484
GAGATTGCCTTCTAGCGCCC
60.882
60.000
2.29
0.00
34.65
6.13
5002
5408
0.882484
GGAGATTGCCTTCTAGCGCC
60.882
60.000
2.29
0.00
34.65
6.53
5003
5409
1.218230
CGGAGATTGCCTTCTAGCGC
61.218
60.000
0.00
0.00
34.65
5.92
5004
5410
0.598680
CCGGAGATTGCCTTCTAGCG
60.599
60.000
0.00
0.00
34.65
4.26
5005
5411
0.250081
CCCGGAGATTGCCTTCTAGC
60.250
60.000
0.73
0.00
0.00
3.42
5006
5412
0.394565
CCCCGGAGATTGCCTTCTAG
59.605
60.000
0.73
0.00
0.00
2.43
5007
5413
0.031515
TCCCCGGAGATTGCCTTCTA
60.032
55.000
0.73
0.00
0.00
2.10
5008
5414
0.695803
ATCCCCGGAGATTGCCTTCT
60.696
55.000
0.73
0.00
0.00
2.85
5009
5415
0.250510
GATCCCCGGAGATTGCCTTC
60.251
60.000
0.73
0.00
0.00
3.46
5010
5416
1.839894
GATCCCCGGAGATTGCCTT
59.160
57.895
0.73
0.00
0.00
4.35
5011
5417
2.511452
CGATCCCCGGAGATTGCCT
61.511
63.158
0.73
0.00
33.91
4.75
5012
5418
2.031163
CGATCCCCGGAGATTGCC
59.969
66.667
0.73
0.00
33.91
4.52
5013
5419
0.880718
GTTCGATCCCCGGAGATTGC
60.881
60.000
8.33
0.00
39.14
3.56
5014
5420
0.753262
AGTTCGATCCCCGGAGATTG
59.247
55.000
0.73
4.51
39.14
2.67
5015
5421
2.376695
TAGTTCGATCCCCGGAGATT
57.623
50.000
0.73
0.00
39.14
2.40
5016
5422
2.376695
TTAGTTCGATCCCCGGAGAT
57.623
50.000
0.73
0.00
39.14
2.75
5017
5423
2.148446
TTTAGTTCGATCCCCGGAGA
57.852
50.000
0.73
0.00
39.14
3.71
5018
5424
2.973694
TTTTAGTTCGATCCCCGGAG
57.026
50.000
0.73
0.00
39.14
4.63
5019
5425
4.801581
GCATATTTTAGTTCGATCCCCGGA
60.802
45.833
0.73
0.00
39.14
5.14
5020
5426
3.435671
GCATATTTTAGTTCGATCCCCGG
59.564
47.826
0.00
0.00
39.14
5.73
5021
5427
4.062293
TGCATATTTTAGTTCGATCCCCG
58.938
43.478
0.00
0.00
40.25
5.73
5022
5428
4.819630
TGTGCATATTTTAGTTCGATCCCC
59.180
41.667
0.00
0.00
0.00
4.81
5023
5429
6.428159
AGATGTGCATATTTTAGTTCGATCCC
59.572
38.462
0.00
0.00
0.00
3.85
5024
5430
7.293745
CAGATGTGCATATTTTAGTTCGATCC
58.706
38.462
0.00
0.00
0.00
3.36
5025
5431
7.293745
CCAGATGTGCATATTTTAGTTCGATC
58.706
38.462
0.00
0.00
0.00
3.69
5026
5432
6.205464
CCCAGATGTGCATATTTTAGTTCGAT
59.795
38.462
0.00
0.00
0.00
3.59
5027
5433
5.527214
CCCAGATGTGCATATTTTAGTTCGA
59.473
40.000
0.00
0.00
0.00
3.71
5028
5434
5.277974
CCCCAGATGTGCATATTTTAGTTCG
60.278
44.000
0.00
0.00
0.00
3.95
5029
5435
5.507985
GCCCCAGATGTGCATATTTTAGTTC
60.508
44.000
0.00
0.00
0.00
3.01
5030
5436
4.342092
GCCCCAGATGTGCATATTTTAGTT
59.658
41.667
0.00
0.00
0.00
2.24
5031
5437
3.891366
GCCCCAGATGTGCATATTTTAGT
59.109
43.478
0.00
0.00
0.00
2.24
5032
5438
3.058016
CGCCCCAGATGTGCATATTTTAG
60.058
47.826
0.00
0.00
0.00
1.85
5033
5439
2.884012
CGCCCCAGATGTGCATATTTTA
59.116
45.455
0.00
0.00
0.00
1.52
5034
5440
1.682854
CGCCCCAGATGTGCATATTTT
59.317
47.619
0.00
0.00
0.00
1.82
5035
5441
1.321474
CGCCCCAGATGTGCATATTT
58.679
50.000
0.00
0.00
0.00
1.40
5036
5442
0.538057
CCGCCCCAGATGTGCATATT
60.538
55.000
0.00
0.00
0.00
1.28
5037
5443
1.073722
CCGCCCCAGATGTGCATAT
59.926
57.895
0.00
0.00
0.00
1.78
5038
5444
1.920734
AACCGCCCCAGATGTGCATA
61.921
55.000
0.00
0.00
0.00
3.14
5039
5445
3.286694
AACCGCCCCAGATGTGCAT
62.287
57.895
0.00
0.00
0.00
3.96
5040
5446
3.918253
GAACCGCCCCAGATGTGCA
62.918
63.158
0.00
0.00
0.00
4.57
5041
5447
3.134127
GAACCGCCCCAGATGTGC
61.134
66.667
0.00
0.00
0.00
4.57
5042
5448
1.450312
GAGAACCGCCCCAGATGTG
60.450
63.158
0.00
0.00
0.00
3.21
5043
5449
2.670148
GGAGAACCGCCCCAGATGT
61.670
63.158
0.00
0.00
0.00
3.06
5044
5450
1.987807
ATGGAGAACCGCCCCAGATG
61.988
60.000
0.00
0.00
39.42
2.90
5045
5451
1.281925
AATGGAGAACCGCCCCAGAT
61.282
55.000
0.00
0.00
39.42
2.90
5046
5452
1.923395
AATGGAGAACCGCCCCAGA
60.923
57.895
0.00
0.00
39.42
3.86
5047
5453
1.750399
CAATGGAGAACCGCCCCAG
60.750
63.158
0.00
0.00
39.42
4.45
5048
5454
2.354729
CAATGGAGAACCGCCCCA
59.645
61.111
0.00
0.00
39.42
4.96
5049
5455
2.440247
CCAATGGAGAACCGCCCC
60.440
66.667
0.00
0.00
39.42
5.80
5050
5456
2.440247
CCCAATGGAGAACCGCCC
60.440
66.667
0.00
0.00
39.42
6.13
5051
5457
2.440247
CCCCAATGGAGAACCGCC
60.440
66.667
0.00
0.00
39.42
6.13
5052
5458
2.440247
CCCCCAATGGAGAACCGC
60.440
66.667
0.00
0.00
39.42
5.68
5053
5459
2.440247
GCCCCCAATGGAGAACCG
60.440
66.667
0.00
0.00
39.42
4.44
5054
5460
2.042944
GGCCCCCAATGGAGAACC
60.043
66.667
0.00
0.00
35.39
3.62
5055
5461
0.544120
TTTGGCCCCCAATGGAGAAC
60.544
55.000
0.00
0.00
43.55
3.01
5056
5462
0.252193
CTTTGGCCCCCAATGGAGAA
60.252
55.000
0.00
0.00
43.55
2.87
5057
5463
1.145900
TCTTTGGCCCCCAATGGAGA
61.146
55.000
0.00
0.00
43.55
3.71
5058
5464
0.252193
TTCTTTGGCCCCCAATGGAG
60.252
55.000
0.00
0.00
43.55
3.86
5059
5465
0.544120
GTTCTTTGGCCCCCAATGGA
60.544
55.000
0.00
0.00
43.55
3.41
5060
5466
0.835543
TGTTCTTTGGCCCCCAATGG
60.836
55.000
0.00
0.00
43.55
3.16
5061
5467
1.278537
ATGTTCTTTGGCCCCCAATG
58.721
50.000
0.00
0.85
43.55
2.82
5062
5468
2.043307
AATGTTCTTTGGCCCCCAAT
57.957
45.000
0.00
0.00
43.55
3.16
5063
5469
1.813102
AAATGTTCTTTGGCCCCCAA
58.187
45.000
0.00
0.00
42.29
4.12
5064
5470
1.813102
AAAATGTTCTTTGGCCCCCA
58.187
45.000
0.00
0.00
0.00
4.96
5065
5471
2.949177
AAAAATGTTCTTTGGCCCCC
57.051
45.000
0.00
0.00
0.00
5.40
5085
5491
5.472148
TCGCTCTCCTGTTATCGTTAAAAA
58.528
37.500
0.00
0.00
0.00
1.94
5086
5492
5.063180
TCGCTCTCCTGTTATCGTTAAAA
57.937
39.130
0.00
0.00
0.00
1.52
5087
5493
4.707030
TCGCTCTCCTGTTATCGTTAAA
57.293
40.909
0.00
0.00
0.00
1.52
5088
5494
4.707030
TTCGCTCTCCTGTTATCGTTAA
57.293
40.909
0.00
0.00
0.00
2.01
5089
5495
4.707030
TTTCGCTCTCCTGTTATCGTTA
57.293
40.909
0.00
0.00
0.00
3.18
5090
5496
3.587797
TTTCGCTCTCCTGTTATCGTT
57.412
42.857
0.00
0.00
0.00
3.85
5091
5497
3.587797
TTTTCGCTCTCCTGTTATCGT
57.412
42.857
0.00
0.00
0.00
3.73
5092
5498
4.025647
GGAATTTTCGCTCTCCTGTTATCG
60.026
45.833
0.00
0.00
0.00
2.92
5093
5499
5.119694
AGGAATTTTCGCTCTCCTGTTATC
58.880
41.667
0.00
0.00
36.92
1.75
5094
5500
5.104259
AGGAATTTTCGCTCTCCTGTTAT
57.896
39.130
0.00
0.00
36.92
1.89
5095
5501
4.553330
AGGAATTTTCGCTCTCCTGTTA
57.447
40.909
0.00
0.00
36.92
2.41
5096
5502
3.425162
AGGAATTTTCGCTCTCCTGTT
57.575
42.857
0.00
0.00
36.92
3.16
5097
5503
3.425162
AAGGAATTTTCGCTCTCCTGT
57.575
42.857
0.00
0.00
38.34
4.00
5098
5504
4.348198
GAAAGGAATTTTCGCTCTCCTG
57.652
45.455
0.00
0.00
38.34
3.86
5121
5527
1.227497
CTCATTGGAGCTCGGCCTC
60.227
63.158
7.83
0.00
33.67
4.70
5122
5528
2.739996
CCTCATTGGAGCTCGGCCT
61.740
63.158
7.83
0.00
39.96
5.19
5123
5529
2.203126
CCTCATTGGAGCTCGGCC
60.203
66.667
7.83
0.00
39.96
6.13
5124
5530
2.899339
GCCTCATTGGAGCTCGGC
60.899
66.667
11.57
11.57
39.96
5.54
5125
5531
1.523258
CAGCCTCATTGGAGCTCGG
60.523
63.158
7.83
2.99
39.96
4.63
5126
5532
1.523258
CCAGCCTCATTGGAGCTCG
60.523
63.158
7.83
0.00
39.96
5.03
5127
5533
0.034670
AACCAGCCTCATTGGAGCTC
60.035
55.000
4.71
4.71
39.96
4.09
5128
5534
0.407139
AAACCAGCCTCATTGGAGCT
59.593
50.000
0.00
0.00
39.96
4.09
5129
5535
1.260544
AAAACCAGCCTCATTGGAGC
58.739
50.000
0.00
0.00
39.96
4.70
5130
5536
2.892852
TCAAAAACCAGCCTCATTGGAG
59.107
45.455
0.00
0.00
39.08
3.86
5131
5537
2.956132
TCAAAAACCAGCCTCATTGGA
58.044
42.857
0.00
0.00
39.08
3.53
5132
5538
3.749665
TTCAAAAACCAGCCTCATTGG
57.250
42.857
0.00
0.00
41.60
3.16
5133
5539
6.622833
ATTTTTCAAAAACCAGCCTCATTG
57.377
33.333
0.00
0.00
0.00
2.82
5134
5540
6.827762
TGAATTTTTCAAAAACCAGCCTCATT
59.172
30.769
0.00
0.00
36.59
2.57
5135
5541
6.355747
TGAATTTTTCAAAAACCAGCCTCAT
58.644
32.000
0.00
0.00
36.59
2.90
5136
5542
5.738909
TGAATTTTTCAAAAACCAGCCTCA
58.261
33.333
0.00
0.00
36.59
3.86
5137
5543
6.676237
TTGAATTTTTCAAAAACCAGCCTC
57.324
33.333
0.00
0.00
45.94
4.70
5196
5602
9.775854
GCATTATGCCTTCATCTATATCTATGT
57.224
33.333
5.80
0.00
37.42
2.29
5197
5603
9.774413
TGCATTATGCCTTCATCTATATCTATG
57.226
33.333
15.06
0.00
44.23
2.23
5203
5609
9.828039
CTCTTATGCATTATGCCTTCATCTATA
57.172
33.333
15.06
0.43
44.23
1.31
5204
5610
7.774157
CCTCTTATGCATTATGCCTTCATCTAT
59.226
37.037
15.06
1.40
44.23
1.98
5205
5611
7.038088
TCCTCTTATGCATTATGCCTTCATCTA
60.038
37.037
15.06
0.00
44.23
1.98
5206
5612
5.944599
CCTCTTATGCATTATGCCTTCATCT
59.055
40.000
15.06
0.00
44.23
2.90
5207
5613
5.942236
TCCTCTTATGCATTATGCCTTCATC
59.058
40.000
15.06
0.00
44.23
2.92
5208
5614
5.709164
GTCCTCTTATGCATTATGCCTTCAT
59.291
40.000
15.06
3.94
44.23
2.57
5209
5615
5.065914
GTCCTCTTATGCATTATGCCTTCA
58.934
41.667
15.06
0.00
44.23
3.02
5210
5616
4.153117
CGTCCTCTTATGCATTATGCCTTC
59.847
45.833
15.06
0.00
44.23
3.46
5211
5617
4.067896
CGTCCTCTTATGCATTATGCCTT
58.932
43.478
15.06
4.92
44.23
4.35
5212
5618
3.324846
TCGTCCTCTTATGCATTATGCCT
59.675
43.478
15.06
7.49
44.23
4.75
5213
5619
3.664107
TCGTCCTCTTATGCATTATGCC
58.336
45.455
15.06
0.00
44.23
4.40
5214
5620
5.673337
TTTCGTCCTCTTATGCATTATGC
57.327
39.130
10.65
10.65
45.29
3.14
5215
5621
8.310406
TGTATTTCGTCCTCTTATGCATTATG
57.690
34.615
3.54
0.00
0.00
1.90
5216
5622
9.507329
AATGTATTTCGTCCTCTTATGCATTAT
57.493
29.630
3.54
0.00
32.34
1.28
5217
5623
8.773645
CAATGTATTTCGTCCTCTTATGCATTA
58.226
33.333
3.54
0.00
32.34
1.90
5218
5624
7.498900
TCAATGTATTTCGTCCTCTTATGCATT
59.501
33.333
3.54
0.00
33.68
3.56
5219
5625
6.992123
TCAATGTATTTCGTCCTCTTATGCAT
59.008
34.615
3.79
3.79
0.00
3.96
5220
5626
6.345298
TCAATGTATTTCGTCCTCTTATGCA
58.655
36.000
0.00
0.00
0.00
3.96
5221
5627
6.844696
TCAATGTATTTCGTCCTCTTATGC
57.155
37.500
0.00
0.00
0.00
3.14
5222
5628
9.655769
CATTTCAATGTATTTCGTCCTCTTATG
57.344
33.333
0.00
0.00
0.00
1.90
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.