Multiple sequence alignment - TraesCS3B01G164400
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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
TraesCS3B01G164400
chr3B
100.000
2381
0
0
1
2381
161797092
161794712
0.000000e+00
4397
1
TraesCS3B01G164400
chr3D
89.793
1979
170
19
422
2381
126392824
126394789
0.000000e+00
2507
2
TraesCS3B01G164400
chr3D
83.642
324
41
9
97
416
435708005
435708320
6.440000e-76
294
3
TraesCS3B01G164400
chr3D
81.493
335
45
12
99
424
315771177
315770851
2.350000e-65
259
4
TraesCS3B01G164400
chr1B
89.836
1948
170
15
445
2375
308913060
308914996
0.000000e+00
2475
5
TraesCS3B01G164400
chr1B
88.827
1960
192
18
434
2377
596304446
596306394
0.000000e+00
2381
6
TraesCS3B01G164400
chr5D
89.636
1949
163
26
422
2355
247315704
247313780
0.000000e+00
2444
7
TraesCS3B01G164400
chr5D
84.744
1973
250
28
434
2378
525593191
525595140
0.000000e+00
1929
8
TraesCS3B01G164400
chr5D
84.894
331
39
7
101
429
344691794
344691473
8.210000e-85
324
9
TraesCS3B01G164400
chrUn
89.401
1953
165
19
434
2373
218123596
218121673
0.000000e+00
2422
10
TraesCS3B01G164400
chrUn
90.752
1622
139
5
437
2055
366980144
366978531
0.000000e+00
2154
11
TraesCS3B01G164400
chr4B
89.094
1953
180
21
447
2381
71568969
71567032
0.000000e+00
2396
12
TraesCS3B01G164400
chr7B
88.838
1971
179
21
422
2376
724805641
724807586
0.000000e+00
2383
13
TraesCS3B01G164400
chr7B
85.800
1662
208
12
732
2377
662650261
662648612
0.000000e+00
1736
14
TraesCS3B01G164400
chr6B
88.720
1977
180
23
422
2381
320730524
320732474
0.000000e+00
2375
15
TraesCS3B01G164400
chr6B
85.321
327
41
6
101
424
672368680
672369002
4.910000e-87
331
16
TraesCS3B01G164400
chr1D
87.123
1359
148
11
1035
2378
236078895
236080241
0.000000e+00
1515
17
TraesCS3B01G164400
chr1D
86.575
797
86
8
1596
2379
433908654
433907866
0.000000e+00
859
18
TraesCS3B01G164400
chr7D
87.995
783
77
4
1609
2377
99380996
99380217
0.000000e+00
909
19
TraesCS3B01G164400
chr6D
87.187
718
78
4
1671
2377
199606769
199606055
0.000000e+00
804
20
TraesCS3B01G164400
chr5B
89.154
544
42
5
1853
2381
668818134
668818675
0.000000e+00
662
21
TraesCS3B01G164400
chr2D
92.260
323
22
2
2055
2377
448520194
448519875
2.790000e-124
455
22
TraesCS3B01G164400
chr2D
86.196
326
34
9
94
416
460867529
460867212
2.270000e-90
342
23
TraesCS3B01G164400
chr2D
82.075
318
47
8
98
413
505534450
505534141
1.810000e-66
263
24
TraesCS3B01G164400
chr5A
83.172
309
45
5
98
403
638912250
638912554
2.330000e-70
276
25
TraesCS3B01G164400
chr2B
82.650
317
48
6
99
413
243358733
243359044
8.380000e-70
274
26
TraesCS3B01G164400
chr3A
82.243
321
47
9
99
416
683476821
683477134
3.900000e-68
268
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
TraesCS3B01G164400
chr3B
161794712
161797092
2380
True
4397
4397
100.000
1
2381
1
chr3B.!!$R1
2380
1
TraesCS3B01G164400
chr3D
126392824
126394789
1965
False
2507
2507
89.793
422
2381
1
chr3D.!!$F1
1959
2
TraesCS3B01G164400
chr1B
308913060
308914996
1936
False
2475
2475
89.836
445
2375
1
chr1B.!!$F1
1930
3
TraesCS3B01G164400
chr1B
596304446
596306394
1948
False
2381
2381
88.827
434
2377
1
chr1B.!!$F2
1943
4
TraesCS3B01G164400
chr5D
247313780
247315704
1924
True
2444
2444
89.636
422
2355
1
chr5D.!!$R1
1933
5
TraesCS3B01G164400
chr5D
525593191
525595140
1949
False
1929
1929
84.744
434
2378
1
chr5D.!!$F1
1944
6
TraesCS3B01G164400
chrUn
218121673
218123596
1923
True
2422
2422
89.401
434
2373
1
chrUn.!!$R1
1939
7
TraesCS3B01G164400
chrUn
366978531
366980144
1613
True
2154
2154
90.752
437
2055
1
chrUn.!!$R2
1618
8
TraesCS3B01G164400
chr4B
71567032
71568969
1937
True
2396
2396
89.094
447
2381
1
chr4B.!!$R1
1934
9
TraesCS3B01G164400
chr7B
724805641
724807586
1945
False
2383
2383
88.838
422
2376
1
chr7B.!!$F1
1954
10
TraesCS3B01G164400
chr7B
662648612
662650261
1649
True
1736
1736
85.800
732
2377
1
chr7B.!!$R1
1645
11
TraesCS3B01G164400
chr6B
320730524
320732474
1950
False
2375
2375
88.720
422
2381
1
chr6B.!!$F1
1959
12
TraesCS3B01G164400
chr1D
236078895
236080241
1346
False
1515
1515
87.123
1035
2378
1
chr1D.!!$F1
1343
13
TraesCS3B01G164400
chr1D
433907866
433908654
788
True
859
859
86.575
1596
2379
1
chr1D.!!$R1
783
14
TraesCS3B01G164400
chr7D
99380217
99380996
779
True
909
909
87.995
1609
2377
1
chr7D.!!$R1
768
15
TraesCS3B01G164400
chr6D
199606055
199606769
714
True
804
804
87.187
1671
2377
1
chr6D.!!$R1
706
16
TraesCS3B01G164400
chr5B
668818134
668818675
541
False
662
662
89.154
1853
2381
1
chr5B.!!$F1
528
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
262
263
0.026285
GATTCGGATTTGCGTCGGTG
59.974
55.0
0.0
0.0
0.0
4.94
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
1955
1984
0.107017
TAGCATCTTGGCTTGCCTCC
60.107
55.0
13.18
0.0
42.71
4.3
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
18
19
3.339547
CCAAGTCCCAACGACCATT
57.660
52.632
0.00
0.00
43.08
3.16
19
20
1.165270
CCAAGTCCCAACGACCATTC
58.835
55.000
0.00
0.00
43.08
2.67
29
30
3.873812
GACCATTCGCCCCCGGAT
61.874
66.667
0.73
0.00
31.29
4.18
31
32
4.189580
CCATTCGCCCCCGGATGT
62.190
66.667
0.73
0.00
46.71
3.06
32
33
2.591715
CATTCGCCCCCGGATGTC
60.592
66.667
0.73
0.00
43.84
3.06
33
34
3.873812
ATTCGCCCCCGGATGTCC
61.874
66.667
0.73
0.00
29.65
4.02
44
45
1.643832
GGATGTCCGCTCATTTCGC
59.356
57.895
0.00
0.00
0.00
4.70
45
46
1.089481
GGATGTCCGCTCATTTCGCA
61.089
55.000
0.00
0.00
0.00
5.10
46
47
0.026803
GATGTCCGCTCATTTCGCAC
59.973
55.000
0.00
0.00
0.00
5.34
47
48
1.369091
ATGTCCGCTCATTTCGCACC
61.369
55.000
0.00
0.00
0.00
5.01
48
49
2.032634
GTCCGCTCATTTCGCACCA
61.033
57.895
0.00
0.00
0.00
4.17
49
50
2.032634
TCCGCTCATTTCGCACCAC
61.033
57.895
0.00
0.00
0.00
4.16
50
51
2.324330
CCGCTCATTTCGCACCACA
61.324
57.895
0.00
0.00
0.00
4.17
51
52
1.573932
CGCTCATTTCGCACCACAA
59.426
52.632
0.00
0.00
0.00
3.33
52
53
0.040514
CGCTCATTTCGCACCACAAA
60.041
50.000
0.00
0.00
0.00
2.83
53
54
1.408422
GCTCATTTCGCACCACAAAC
58.592
50.000
0.00
0.00
0.00
2.93
54
55
1.673760
CTCATTTCGCACCACAAACG
58.326
50.000
0.00
0.00
0.00
3.60
55
56
1.262950
CTCATTTCGCACCACAAACGA
59.737
47.619
0.00
0.00
0.00
3.85
56
57
1.671328
TCATTTCGCACCACAAACGAA
59.329
42.857
0.00
0.00
43.42
3.85
57
58
1.778591
CATTTCGCACCACAAACGAAC
59.221
47.619
0.00
0.00
44.64
3.95
58
59
0.803117
TTTCGCACCACAAACGAACA
59.197
45.000
0.00
0.00
44.64
3.18
59
60
0.803117
TTCGCACCACAAACGAACAA
59.197
45.000
0.00
0.00
40.56
2.83
60
61
0.803117
TCGCACCACAAACGAACAAA
59.197
45.000
0.00
0.00
31.97
2.83
61
62
1.402259
TCGCACCACAAACGAACAAAT
59.598
42.857
0.00
0.00
31.97
2.32
62
63
2.612672
TCGCACCACAAACGAACAAATA
59.387
40.909
0.00
0.00
31.97
1.40
63
64
3.251245
TCGCACCACAAACGAACAAATAT
59.749
39.130
0.00
0.00
31.97
1.28
64
65
3.978217
CGCACCACAAACGAACAAATATT
59.022
39.130
0.00
0.00
0.00
1.28
65
66
4.087930
CGCACCACAAACGAACAAATATTC
59.912
41.667
0.00
0.00
0.00
1.75
76
77
6.538894
CGAACAAATATTCGTGTCCATTTG
57.461
37.500
0.00
0.00
45.07
2.32
77
78
6.310960
CGAACAAATATTCGTGTCCATTTGA
58.689
36.000
11.62
0.00
45.07
2.69
78
79
6.465781
CGAACAAATATTCGTGTCCATTTGAG
59.534
38.462
11.62
1.57
45.07
3.02
79
80
6.194796
ACAAATATTCGTGTCCATTTGAGG
57.805
37.500
11.62
0.00
39.59
3.86
80
81
5.710099
ACAAATATTCGTGTCCATTTGAGGT
59.290
36.000
11.62
0.00
39.59
3.85
81
82
6.128007
ACAAATATTCGTGTCCATTTGAGGTC
60.128
38.462
11.62
0.00
39.59
3.85
82
83
3.703001
ATTCGTGTCCATTTGAGGTCT
57.297
42.857
0.00
0.00
0.00
3.85
83
84
2.455674
TCGTGTCCATTTGAGGTCTG
57.544
50.000
0.00
0.00
0.00
3.51
84
85
1.001974
TCGTGTCCATTTGAGGTCTGG
59.998
52.381
0.00
0.00
0.00
3.86
85
86
1.168714
GTGTCCATTTGAGGTCTGGC
58.831
55.000
0.00
0.00
0.00
4.85
86
87
0.770499
TGTCCATTTGAGGTCTGGCA
59.230
50.000
0.00
0.00
0.00
4.92
87
88
1.355381
TGTCCATTTGAGGTCTGGCAT
59.645
47.619
0.00
0.00
0.00
4.40
88
89
2.225091
TGTCCATTTGAGGTCTGGCATT
60.225
45.455
0.00
0.00
0.00
3.56
89
90
2.165030
GTCCATTTGAGGTCTGGCATTG
59.835
50.000
0.00
0.00
0.00
2.82
90
91
1.479323
CCATTTGAGGTCTGGCATTGG
59.521
52.381
0.00
0.00
0.00
3.16
91
92
1.479323
CATTTGAGGTCTGGCATTGGG
59.521
52.381
0.00
0.00
0.00
4.12
92
93
0.482446
TTTGAGGTCTGGCATTGGGT
59.518
50.000
0.00
0.00
0.00
4.51
93
94
0.482446
TTGAGGTCTGGCATTGGGTT
59.518
50.000
0.00
0.00
0.00
4.11
94
95
0.251297
TGAGGTCTGGCATTGGGTTG
60.251
55.000
0.00
0.00
0.00
3.77
95
96
0.251341
GAGGTCTGGCATTGGGTTGT
60.251
55.000
0.00
0.00
0.00
3.32
96
97
0.251341
AGGTCTGGCATTGGGTTGTC
60.251
55.000
0.00
0.00
0.00
3.18
97
98
1.250840
GGTCTGGCATTGGGTTGTCC
61.251
60.000
0.00
0.00
0.00
4.02
98
99
0.251341
GTCTGGCATTGGGTTGTCCT
60.251
55.000
0.00
0.00
36.20
3.85
99
100
0.482446
TCTGGCATTGGGTTGTCCTT
59.518
50.000
0.00
0.00
36.20
3.36
100
101
1.707989
TCTGGCATTGGGTTGTCCTTA
59.292
47.619
0.00
0.00
36.20
2.69
101
102
2.094675
CTGGCATTGGGTTGTCCTTAG
58.905
52.381
0.00
0.00
36.20
2.18
102
103
1.707989
TGGCATTGGGTTGTCCTTAGA
59.292
47.619
0.00
0.00
36.20
2.10
103
104
2.290896
TGGCATTGGGTTGTCCTTAGAG
60.291
50.000
0.00
0.00
36.20
2.43
104
105
1.745653
GCATTGGGTTGTCCTTAGAGC
59.254
52.381
0.00
0.00
36.20
4.09
105
106
2.879756
GCATTGGGTTGTCCTTAGAGCA
60.880
50.000
0.00
0.00
36.20
4.26
106
107
3.420893
CATTGGGTTGTCCTTAGAGCAA
58.579
45.455
0.00
0.00
36.20
3.91
107
108
2.561478
TGGGTTGTCCTTAGAGCAAC
57.439
50.000
9.24
9.24
41.02
4.17
108
109
2.054799
TGGGTTGTCCTTAGAGCAACT
58.945
47.619
14.54
0.00
41.36
3.16
109
110
2.038557
TGGGTTGTCCTTAGAGCAACTC
59.961
50.000
14.54
12.48
42.22
3.01
110
111
2.338500
GGTTGTCCTTAGAGCAACTCG
58.662
52.381
14.54
0.00
41.36
4.18
111
112
2.029290
GGTTGTCCTTAGAGCAACTCGA
60.029
50.000
14.54
0.00
41.36
4.04
112
113
3.554337
GGTTGTCCTTAGAGCAACTCGAA
60.554
47.826
14.54
0.00
41.36
3.71
113
114
3.299340
TGTCCTTAGAGCAACTCGAAC
57.701
47.619
0.00
0.00
35.36
3.95
114
115
2.251893
GTCCTTAGAGCAACTCGAACG
58.748
52.381
0.00
0.00
35.36
3.95
115
116
2.095364
GTCCTTAGAGCAACTCGAACGA
60.095
50.000
0.00
0.00
35.36
3.85
116
117
2.161808
TCCTTAGAGCAACTCGAACGAG
59.838
50.000
20.25
20.25
46.91
4.18
117
118
2.520979
CTTAGAGCAACTCGAACGAGG
58.479
52.381
24.33
11.42
45.88
4.63
118
119
0.170561
TAGAGCAACTCGAACGAGGC
59.829
55.000
24.33
19.00
45.88
4.70
119
120
2.048127
AGCAACTCGAACGAGGCC
60.048
61.111
24.33
13.60
45.88
5.19
120
121
2.357034
GCAACTCGAACGAGGCCA
60.357
61.111
24.33
0.00
45.88
5.36
121
122
2.668280
GCAACTCGAACGAGGCCAC
61.668
63.158
24.33
0.00
45.88
5.01
122
123
2.027625
CAACTCGAACGAGGCCACC
61.028
63.158
24.33
0.00
45.88
4.61
123
124
3.236003
AACTCGAACGAGGCCACCC
62.236
63.158
24.33
0.00
45.88
4.61
124
125
3.691342
CTCGAACGAGGCCACCCA
61.691
66.667
15.22
0.00
38.51
4.51
125
126
3.000819
TCGAACGAGGCCACCCAT
61.001
61.111
5.01
0.00
0.00
4.00
126
127
2.046314
CGAACGAGGCCACCCATT
60.046
61.111
5.01
0.00
0.00
3.16
127
128
1.674322
CGAACGAGGCCACCCATTT
60.674
57.895
5.01
0.00
0.00
2.32
128
129
1.644786
CGAACGAGGCCACCCATTTC
61.645
60.000
5.01
0.00
0.00
2.17
129
130
1.644786
GAACGAGGCCACCCATTTCG
61.645
60.000
5.01
6.07
33.82
3.46
130
131
2.046314
CGAGGCCACCCATTTCGT
60.046
61.111
5.01
0.00
0.00
3.85
131
132
2.106683
CGAGGCCACCCATTTCGTC
61.107
63.158
5.01
0.00
0.00
4.20
132
133
1.749258
GAGGCCACCCATTTCGTCC
60.749
63.158
5.01
0.00
0.00
4.79
133
134
3.131478
GGCCACCCATTTCGTCCG
61.131
66.667
0.00
0.00
0.00
4.79
134
135
3.810896
GCCACCCATTTCGTCCGC
61.811
66.667
0.00
0.00
0.00
5.54
135
136
2.046314
CCACCCATTTCGTCCGCT
60.046
61.111
0.00
0.00
0.00
5.52
136
137
2.398554
CCACCCATTTCGTCCGCTG
61.399
63.158
0.00
0.00
0.00
5.18
137
138
2.046314
ACCCATTTCGTCCGCTGG
60.046
61.111
0.00
0.00
0.00
4.85
138
139
3.508840
CCCATTTCGTCCGCTGGC
61.509
66.667
0.00
0.00
0.00
4.85
139
140
3.864686
CCATTTCGTCCGCTGGCG
61.865
66.667
8.08
8.08
39.44
5.69
140
141
3.118454
CATTTCGTCCGCTGGCGT
61.118
61.111
13.84
0.00
37.81
5.68
141
142
2.813908
ATTTCGTCCGCTGGCGTC
60.814
61.111
13.84
5.90
37.81
5.19
151
152
2.593436
CTGGCGTCCGTTTGGGTT
60.593
61.111
0.00
0.00
37.00
4.11
152
153
2.902846
TGGCGTCCGTTTGGGTTG
60.903
61.111
0.00
0.00
37.00
3.77
153
154
3.666253
GGCGTCCGTTTGGGTTGG
61.666
66.667
0.00
0.00
37.00
3.77
154
155
4.337060
GCGTCCGTTTGGGTTGGC
62.337
66.667
0.00
0.00
37.00
4.52
155
156
2.902846
CGTCCGTTTGGGTTGGCA
60.903
61.111
0.00
0.00
37.00
4.92
156
157
2.725641
GTCCGTTTGGGTTGGCAC
59.274
61.111
0.00
0.00
37.00
5.01
157
158
2.122167
GTCCGTTTGGGTTGGCACA
61.122
57.895
0.00
0.00
37.00
4.57
158
159
1.826054
TCCGTTTGGGTTGGCACAG
60.826
57.895
0.00
0.00
35.83
3.66
159
160
1.826054
CCGTTTGGGTTGGCACAGA
60.826
57.895
0.00
0.00
42.39
3.41
160
161
1.358759
CGTTTGGGTTGGCACAGAC
59.641
57.895
0.00
0.00
42.39
3.51
161
162
1.380403
CGTTTGGGTTGGCACAGACA
61.380
55.000
0.00
0.00
42.39
3.41
162
163
0.102300
GTTTGGGTTGGCACAGACAC
59.898
55.000
0.00
0.00
42.39
3.67
163
164
0.323816
TTTGGGTTGGCACAGACACA
60.324
50.000
0.00
0.00
42.39
3.72
164
165
0.323816
TTGGGTTGGCACAGACACAA
60.324
50.000
1.45
1.45
42.39
3.33
165
166
0.323816
TGGGTTGGCACAGACACAAA
60.324
50.000
0.00
0.00
42.39
2.83
166
167
0.820871
GGGTTGGCACAGACACAAAA
59.179
50.000
0.00
0.00
42.39
2.44
167
168
1.202405
GGGTTGGCACAGACACAAAAG
60.202
52.381
0.00
0.00
42.39
2.27
168
169
1.476488
GGTTGGCACAGACACAAAAGT
59.524
47.619
0.00
0.00
42.39
2.66
169
170
2.479560
GGTTGGCACAGACACAAAAGTC
60.480
50.000
0.00
0.00
42.39
3.01
170
171
1.013596
TGGCACAGACACAAAAGTCG
58.986
50.000
0.00
0.00
43.24
4.18
171
172
0.307760
GGCACAGACACAAAAGTCGG
59.692
55.000
0.00
0.00
43.24
4.79
172
173
0.317020
GCACAGACACAAAAGTCGGC
60.317
55.000
0.00
0.00
43.24
5.54
173
174
0.307760
CACAGACACAAAAGTCGGCC
59.692
55.000
0.00
0.00
43.24
6.13
174
175
0.818040
ACAGACACAAAAGTCGGCCC
60.818
55.000
0.00
0.00
43.24
5.80
175
176
0.817634
CAGACACAAAAGTCGGCCCA
60.818
55.000
0.00
0.00
43.24
5.36
176
177
0.106918
AGACACAAAAGTCGGCCCAA
60.107
50.000
0.00
0.00
43.24
4.12
177
178
0.030235
GACACAAAAGTCGGCCCAAC
59.970
55.000
0.00
0.00
0.00
3.77
178
179
1.008995
CACAAAAGTCGGCCCAACG
60.009
57.895
0.00
0.00
0.00
4.10
179
180
2.050442
CAAAAGTCGGCCCAACGC
60.050
61.111
0.00
0.00
0.00
4.84
180
181
3.656045
AAAAGTCGGCCCAACGCG
61.656
61.111
3.53
3.53
38.94
6.01
190
191
3.283684
CCAACGCGCTGACCCAAA
61.284
61.111
11.83
0.00
0.00
3.28
191
192
2.051345
CAACGCGCTGACCCAAAC
60.051
61.111
5.73
0.00
0.00
2.93
192
193
3.645975
AACGCGCTGACCCAAACG
61.646
61.111
5.73
0.00
0.00
3.60
239
240
3.217231
GACCCATCGTCGGTCCAT
58.783
61.111
6.96
0.00
43.48
3.41
240
241
1.520666
GACCCATCGTCGGTCCATT
59.479
57.895
6.96
0.00
43.48
3.16
241
242
0.107848
GACCCATCGTCGGTCCATTT
60.108
55.000
6.96
0.00
43.48
2.32
242
243
0.326927
ACCCATCGTCGGTCCATTTT
59.673
50.000
0.00
0.00
0.00
1.82
243
244
0.732571
CCCATCGTCGGTCCATTTTG
59.267
55.000
0.00
0.00
0.00
2.44
244
245
1.677518
CCCATCGTCGGTCCATTTTGA
60.678
52.381
0.00
0.00
0.00
2.69
245
246
2.288666
CCATCGTCGGTCCATTTTGAT
58.711
47.619
0.00
0.00
0.00
2.57
246
247
2.682856
CCATCGTCGGTCCATTTTGATT
59.317
45.455
0.00
0.00
0.00
2.57
247
248
3.242739
CCATCGTCGGTCCATTTTGATTC
60.243
47.826
0.00
0.00
0.00
2.52
248
249
1.996898
TCGTCGGTCCATTTTGATTCG
59.003
47.619
0.00
0.00
0.00
3.34
249
250
1.062002
CGTCGGTCCATTTTGATTCGG
59.938
52.381
0.00
0.00
0.00
4.30
250
251
2.352388
GTCGGTCCATTTTGATTCGGA
58.648
47.619
0.00
0.00
0.00
4.55
251
252
2.943033
GTCGGTCCATTTTGATTCGGAT
59.057
45.455
0.00
0.00
0.00
4.18
252
253
3.377172
GTCGGTCCATTTTGATTCGGATT
59.623
43.478
0.00
0.00
0.00
3.01
253
254
4.013728
TCGGTCCATTTTGATTCGGATTT
58.986
39.130
0.00
0.00
0.00
2.17
254
255
4.104776
CGGTCCATTTTGATTCGGATTTG
58.895
43.478
0.00
0.00
0.00
2.32
255
256
3.865164
GGTCCATTTTGATTCGGATTTGC
59.135
43.478
0.00
0.00
0.00
3.68
256
257
3.547468
GTCCATTTTGATTCGGATTTGCG
59.453
43.478
0.00
0.00
0.00
4.85
257
258
3.192422
TCCATTTTGATTCGGATTTGCGT
59.808
39.130
0.00
0.00
0.00
5.24
258
259
3.547468
CCATTTTGATTCGGATTTGCGTC
59.453
43.478
0.00
0.00
0.00
5.19
259
260
2.519002
TTTGATTCGGATTTGCGTCG
57.481
45.000
0.00
0.00
0.00
5.12
260
261
0.724549
TTGATTCGGATTTGCGTCGG
59.275
50.000
0.00
0.00
0.00
4.79
261
262
0.390603
TGATTCGGATTTGCGTCGGT
60.391
50.000
0.00
0.00
0.00
4.69
262
263
0.026285
GATTCGGATTTGCGTCGGTG
59.974
55.000
0.00
0.00
0.00
4.94
263
264
1.977594
ATTCGGATTTGCGTCGGTGC
61.978
55.000
0.00
0.00
0.00
5.01
264
265
4.499023
CGGATTTGCGTCGGTGCG
62.499
66.667
0.00
0.00
37.81
5.34
265
266
4.160635
GGATTTGCGTCGGTGCGG
62.161
66.667
0.00
0.00
37.81
5.69
266
267
3.115892
GATTTGCGTCGGTGCGGA
61.116
61.111
0.00
0.00
37.81
5.54
267
268
3.362851
GATTTGCGTCGGTGCGGAC
62.363
63.158
0.00
0.00
37.81
4.79
268
269
4.893601
TTTGCGTCGGTGCGGACA
62.894
61.111
9.96
0.00
36.73
4.02
277
278
3.371063
GTGCGGACACGAGGAGGA
61.371
66.667
0.63
0.00
44.60
3.71
278
279
3.371063
TGCGGACACGAGGAGGAC
61.371
66.667
0.00
0.00
44.60
3.85
279
280
4.477975
GCGGACACGAGGAGGACG
62.478
72.222
0.00
0.00
44.60
4.79
280
281
4.477975
CGGACACGAGGAGGACGC
62.478
72.222
0.00
0.00
44.60
5.19
305
306
4.840005
CGCGCCTTCTCCTTCCCC
62.840
72.222
0.00
0.00
0.00
4.81
306
307
4.840005
GCGCCTTCTCCTTCCCCG
62.840
72.222
0.00
0.00
0.00
5.73
307
308
4.162690
CGCCTTCTCCTTCCCCGG
62.163
72.222
0.00
0.00
0.00
5.73
308
309
3.798511
GCCTTCTCCTTCCCCGGG
61.799
72.222
15.80
15.80
0.00
5.73
309
310
3.798511
CCTTCTCCTTCCCCGGGC
61.799
72.222
17.73
0.00
0.00
6.13
310
311
3.798511
CTTCTCCTTCCCCGGGCC
61.799
72.222
17.73
0.00
0.00
5.80
331
332
3.695606
TGCTCGGTGGCAGACTCC
61.696
66.667
0.00
0.00
37.29
3.85
332
333
3.695606
GCTCGGTGGCAGACTCCA
61.696
66.667
0.00
0.00
32.91
3.86
339
340
3.650647
TGGCAGACTCCACCAATTC
57.349
52.632
0.00
0.00
0.00
2.17
340
341
0.038166
TGGCAGACTCCACCAATTCC
59.962
55.000
0.00
0.00
0.00
3.01
341
342
0.681243
GGCAGACTCCACCAATTCCC
60.681
60.000
0.00
0.00
0.00
3.97
342
343
0.329596
GCAGACTCCACCAATTCCCT
59.670
55.000
0.00
0.00
0.00
4.20
343
344
1.680249
GCAGACTCCACCAATTCCCTC
60.680
57.143
0.00
0.00
0.00
4.30
344
345
1.912043
CAGACTCCACCAATTCCCTCT
59.088
52.381
0.00
0.00
0.00
3.69
345
346
3.107601
CAGACTCCACCAATTCCCTCTA
58.892
50.000
0.00
0.00
0.00
2.43
346
347
3.713764
CAGACTCCACCAATTCCCTCTAT
59.286
47.826
0.00
0.00
0.00
1.98
347
348
3.970640
AGACTCCACCAATTCCCTCTATC
59.029
47.826
0.00
0.00
0.00
2.08
348
349
3.049344
ACTCCACCAATTCCCTCTATCC
58.951
50.000
0.00
0.00
0.00
2.59
349
350
2.373502
CTCCACCAATTCCCTCTATCCC
59.626
54.545
0.00
0.00
0.00
3.85
350
351
1.425448
CCACCAATTCCCTCTATCCCC
59.575
57.143
0.00
0.00
0.00
4.81
351
352
1.425448
CACCAATTCCCTCTATCCCCC
59.575
57.143
0.00
0.00
0.00
5.40
368
369
4.360405
CCCCCAGAAACCCACCCG
62.360
72.222
0.00
0.00
0.00
5.28
401
402
4.974721
GCCCCATACCCGCCATGG
62.975
72.222
7.63
7.63
42.30
3.66
402
403
3.174987
CCCCATACCCGCCATGGA
61.175
66.667
18.40
0.00
44.95
3.41
403
404
2.113139
CCCATACCCGCCATGGAC
59.887
66.667
18.40
5.97
44.95
4.02
404
405
2.280797
CCATACCCGCCATGGACG
60.281
66.667
18.40
18.22
44.95
4.79
405
406
2.802724
CCATACCCGCCATGGACGA
61.803
63.158
24.22
9.66
44.95
4.20
406
407
1.371183
CATACCCGCCATGGACGAT
59.629
57.895
24.22
16.10
42.00
3.73
407
408
0.950555
CATACCCGCCATGGACGATG
60.951
60.000
24.22
17.24
42.00
3.84
408
409
1.118965
ATACCCGCCATGGACGATGA
61.119
55.000
24.22
12.15
42.00
2.92
409
410
2.023414
TACCCGCCATGGACGATGAC
62.023
60.000
24.22
2.09
42.00
3.06
410
411
2.588877
CCGCCATGGACGATGACC
60.589
66.667
24.22
1.39
42.00
4.02
411
412
2.501128
CGCCATGGACGATGACCT
59.499
61.111
18.40
0.00
33.31
3.85
412
413
1.592669
CGCCATGGACGATGACCTC
60.593
63.158
18.40
0.00
33.31
3.85
475
476
1.599047
CAGGAGGTCATCAACGCCT
59.401
57.895
0.00
0.00
34.65
5.52
478
479
1.375908
GAGGTCATCAACGCCTGCA
60.376
57.895
0.00
0.00
31.89
4.41
482
483
1.079197
TCATCAACGCCTGCATCGT
60.079
52.632
8.14
8.14
42.54
3.73
491
492
2.108514
CCTGCATCGTGGCGACAAT
61.109
57.895
0.00
0.00
46.06
2.71
494
495
0.952984
TGCATCGTGGCGACAATGAA
60.953
50.000
7.13
0.00
46.06
2.57
495
496
0.521242
GCATCGTGGCGACAATGAAC
60.521
55.000
7.13
0.00
46.06
3.18
498
499
0.597898
TCGTGGCGACAATGAACGAA
60.598
50.000
0.00
0.00
46.06
3.85
501
502
0.882484
TGGCGACAATGAACGAAGCA
60.882
50.000
0.00
0.00
37.44
3.91
524
525
6.157211
CACTCTATATGCTAGGGTTAAACCG
58.843
44.000
3.26
0.00
39.83
4.44
541
542
2.701780
CGTGGCTAGCACGGTCTCT
61.702
63.158
23.41
0.00
41.76
3.10
598
610
1.832912
GCCTTCCCTCGGATGATGT
59.167
57.895
0.00
0.00
0.00
3.06
659
671
1.080025
GCTTTCACGTCTACCCGCT
60.080
57.895
0.00
0.00
0.00
5.52
705
717
2.671070
CCCGAGGTGAGCATGGTT
59.329
61.111
0.00
0.00
0.00
3.67
877
891
0.731514
CGGCGACAACGACTACATGT
60.732
55.000
0.00
2.69
46.46
3.21
924
938
1.379576
GGCTGCTGGCTTTGATCCT
60.380
57.895
10.05
0.00
41.46
3.24
997
1011
1.524621
AATGAAGATCAGGCGGCCG
60.525
57.895
24.05
24.05
0.00
6.13
1045
1059
2.282958
ACGGCTTCCCTCTCGACA
60.283
61.111
0.00
0.00
0.00
4.35
1057
1071
3.056536
CCCTCTCGACAATGAGTTTCTGA
60.057
47.826
0.00
0.00
37.28
3.27
1072
1086
1.760192
TCTGAAGGACTACGGGCTAC
58.240
55.000
0.00
0.00
0.00
3.58
1083
1097
0.971447
ACGGGCTACAGGAAGAGGAC
60.971
60.000
0.00
0.00
0.00
3.85
1084
1098
1.817209
GGGCTACAGGAAGAGGACG
59.183
63.158
0.00
0.00
0.00
4.79
1085
1099
0.683504
GGGCTACAGGAAGAGGACGA
60.684
60.000
0.00
0.00
0.00
4.20
1086
1100
0.741915
GGCTACAGGAAGAGGACGAG
59.258
60.000
0.00
0.00
0.00
4.18
1087
1101
1.465794
GCTACAGGAAGAGGACGAGT
58.534
55.000
0.00
0.00
0.00
4.18
1088
1102
1.133407
GCTACAGGAAGAGGACGAGTG
59.867
57.143
0.00
0.00
0.00
3.51
1185
1199
2.282745
AGCAAGCAGACCAAGGCC
60.283
61.111
0.00
0.00
0.00
5.19
1210
1224
2.464459
GCGGCCGAGGACAAGATTG
61.464
63.158
33.48
0.00
0.00
2.67
1345
1361
2.478894
CCATACCAAATAGTAAGCGCGG
59.521
50.000
8.83
0.00
0.00
6.46
1369
1386
0.109532
TGGGTGTCCATTTCGAAGCA
59.890
50.000
0.00
0.00
38.32
3.91
1493
1517
0.755327
AAGCCGCCCTCTTTTGTGTT
60.755
50.000
0.00
0.00
0.00
3.32
1510
1537
9.248291
CTTTTGTGTTATCAAGTTTATGCTTGT
57.752
29.630
5.84
0.00
44.41
3.16
1569
1597
6.979817
TGCATGAAATACATTTGTAGGCATTC
59.020
34.615
0.00
0.75
37.07
2.67
1628
1656
2.108952
AGTGCTTCAACCTCTCCCATTT
59.891
45.455
0.00
0.00
0.00
2.32
1668
1696
0.326264
AGGAGAAGTTCAAGGCGCAT
59.674
50.000
10.83
0.00
0.00
4.73
1684
1712
0.819259
GCATTATGCCGCCCTCAAGA
60.819
55.000
5.80
0.00
37.42
3.02
1838
1867
4.705110
TGATGACCAAGAAGGACTCAAA
57.295
40.909
0.00
0.00
41.22
2.69
1906
1935
1.135960
GGAGATCCAAAGGAGGAGGG
58.864
60.000
0.00
0.00
41.90
4.30
1955
1984
2.203126
GCTTGAGATGGAGGCGGG
60.203
66.667
0.00
0.00
0.00
6.13
1958
1987
2.037620
CTTGAGATGGAGGCGGGGAG
62.038
65.000
0.00
0.00
0.00
4.30
1985
2014
2.890311
CCAAGATGCTAGAGATCGAGGT
59.110
50.000
0.00
0.00
0.00
3.85
2101
2141
0.107945
GGTTCGAGAAGATGCAGGCT
60.108
55.000
0.00
0.00
0.00
4.58
2212
2259
2.246739
CGCGATGGCATGGTCGAAT
61.247
57.895
12.75
0.00
40.11
3.34
2224
2272
1.418264
TGGTCGAATTCAAGTCCCACA
59.582
47.619
6.22
0.00
0.00
4.17
2286
2337
2.693762
CGCCAGCATGAACTGTGGG
61.694
63.158
0.00
0.00
39.69
4.61
2340
2394
4.197498
GCATGGTGCCGGCATGAC
62.197
66.667
35.23
25.28
37.42
3.06
2341
2395
3.879682
CATGGTGCCGGCATGACG
61.880
66.667
35.23
15.88
0.00
4.35
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
0
1
1.165270
GAATGGTCGTTGGGACTTGG
58.835
55.000
0.00
0.00
45.35
3.61
2
3
3.226884
CGAATGGTCGTTGGGACTT
57.773
52.632
0.00
0.00
45.35
3.01
12
13
3.873812
ATCCGGGGGCGAATGGTC
61.874
66.667
0.00
0.00
0.00
4.02
13
14
4.189580
CATCCGGGGGCGAATGGT
62.190
66.667
0.00
0.00
0.00
3.55
14
15
4.189580
ACATCCGGGGGCGAATGG
62.190
66.667
0.00
0.00
0.00
3.16
15
16
2.591715
GACATCCGGGGGCGAATG
60.592
66.667
0.00
0.00
0.00
2.67
16
17
3.873812
GGACATCCGGGGGCGAAT
61.874
66.667
0.00
0.00
0.00
3.34
26
27
1.089481
TGCGAAATGAGCGGACATCC
61.089
55.000
0.00
0.00
37.44
3.51
27
28
2.383170
TGCGAAATGAGCGGACATC
58.617
52.632
0.00
0.00
37.44
3.06
28
29
4.615901
TGCGAAATGAGCGGACAT
57.384
50.000
0.00
0.00
37.44
3.06
31
32
2.032634
GTGGTGCGAAATGAGCGGA
61.033
57.895
0.00
0.00
37.44
5.54
32
33
1.851021
TTGTGGTGCGAAATGAGCGG
61.851
55.000
0.00
0.00
37.44
5.52
33
34
0.040514
TTTGTGGTGCGAAATGAGCG
60.041
50.000
0.00
0.00
37.44
5.03
34
35
1.408422
GTTTGTGGTGCGAAATGAGC
58.592
50.000
0.00
0.00
0.00
4.26
35
36
1.262950
TCGTTTGTGGTGCGAAATGAG
59.737
47.619
0.00
0.00
0.00
2.90
36
37
1.300481
TCGTTTGTGGTGCGAAATGA
58.700
45.000
0.00
0.00
0.00
2.57
37
38
1.778591
GTTCGTTTGTGGTGCGAAATG
59.221
47.619
0.00
0.00
44.46
2.32
38
39
1.402259
TGTTCGTTTGTGGTGCGAAAT
59.598
42.857
0.00
0.00
44.46
2.17
39
40
0.803117
TGTTCGTTTGTGGTGCGAAA
59.197
45.000
0.00
0.00
44.46
3.46
40
41
0.803117
TTGTTCGTTTGTGGTGCGAA
59.197
45.000
0.00
0.00
41.45
4.70
41
42
0.803117
TTTGTTCGTTTGTGGTGCGA
59.197
45.000
0.00
0.00
0.00
5.10
42
43
1.833860
ATTTGTTCGTTTGTGGTGCG
58.166
45.000
0.00
0.00
0.00
5.34
43
44
4.087930
CGAATATTTGTTCGTTTGTGGTGC
59.912
41.667
1.81
0.00
44.32
5.01
44
45
5.723319
CGAATATTTGTTCGTTTGTGGTG
57.277
39.130
1.81
0.00
44.32
4.17
54
55
6.747280
CCTCAAATGGACACGAATATTTGTTC
59.253
38.462
5.54
7.35
39.96
3.18
55
56
6.208599
ACCTCAAATGGACACGAATATTTGTT
59.791
34.615
5.54
0.00
39.96
2.83
56
57
5.710099
ACCTCAAATGGACACGAATATTTGT
59.290
36.000
2.21
2.21
39.96
2.83
57
58
6.094048
AGACCTCAAATGGACACGAATATTTG
59.906
38.462
0.78
0.78
40.23
2.32
58
59
6.094048
CAGACCTCAAATGGACACGAATATTT
59.906
38.462
0.00
0.00
0.00
1.40
59
60
5.586243
CAGACCTCAAATGGACACGAATATT
59.414
40.000
0.00
0.00
0.00
1.28
60
61
5.118990
CAGACCTCAAATGGACACGAATAT
58.881
41.667
0.00
0.00
0.00
1.28
61
62
4.503910
CAGACCTCAAATGGACACGAATA
58.496
43.478
0.00
0.00
0.00
1.75
62
63
3.338249
CAGACCTCAAATGGACACGAAT
58.662
45.455
0.00
0.00
0.00
3.34
63
64
2.549992
CCAGACCTCAAATGGACACGAA
60.550
50.000
0.00
0.00
36.09
3.85
64
65
1.001974
CCAGACCTCAAATGGACACGA
59.998
52.381
0.00
0.00
36.09
4.35
65
66
1.442769
CCAGACCTCAAATGGACACG
58.557
55.000
0.00
0.00
36.09
4.49
66
67
1.168714
GCCAGACCTCAAATGGACAC
58.831
55.000
0.00
0.00
36.09
3.67
67
68
0.770499
TGCCAGACCTCAAATGGACA
59.230
50.000
0.00
0.00
36.09
4.02
68
69
2.134789
ATGCCAGACCTCAAATGGAC
57.865
50.000
0.00
0.00
36.09
4.02
69
70
2.449464
CAATGCCAGACCTCAAATGGA
58.551
47.619
0.00
0.00
36.09
3.41
70
71
1.479323
CCAATGCCAGACCTCAAATGG
59.521
52.381
0.00
0.00
37.15
3.16
71
72
1.479323
CCCAATGCCAGACCTCAAATG
59.521
52.381
0.00
0.00
0.00
2.32
72
73
1.077663
ACCCAATGCCAGACCTCAAAT
59.922
47.619
0.00
0.00
0.00
2.32
73
74
0.482446
ACCCAATGCCAGACCTCAAA
59.518
50.000
0.00
0.00
0.00
2.69
74
75
0.482446
AACCCAATGCCAGACCTCAA
59.518
50.000
0.00
0.00
0.00
3.02
75
76
0.251297
CAACCCAATGCCAGACCTCA
60.251
55.000
0.00
0.00
0.00
3.86
76
77
0.251341
ACAACCCAATGCCAGACCTC
60.251
55.000
0.00
0.00
0.00
3.85
77
78
0.251341
GACAACCCAATGCCAGACCT
60.251
55.000
0.00
0.00
0.00
3.85
78
79
1.250840
GGACAACCCAATGCCAGACC
61.251
60.000
0.00
0.00
34.14
3.85
79
80
0.251341
AGGACAACCCAATGCCAGAC
60.251
55.000
0.00
0.00
37.41
3.51
80
81
0.482446
AAGGACAACCCAATGCCAGA
59.518
50.000
0.00
0.00
37.41
3.86
81
82
2.094675
CTAAGGACAACCCAATGCCAG
58.905
52.381
0.00
0.00
37.41
4.85
82
83
1.707989
TCTAAGGACAACCCAATGCCA
59.292
47.619
0.00
0.00
37.41
4.92
83
84
2.369394
CTCTAAGGACAACCCAATGCC
58.631
52.381
0.00
0.00
37.41
4.40
84
85
1.745653
GCTCTAAGGACAACCCAATGC
59.254
52.381
0.00
0.00
37.41
3.56
85
86
3.071874
TGCTCTAAGGACAACCCAATG
57.928
47.619
0.00
0.00
37.41
2.82
86
87
3.074538
AGTTGCTCTAAGGACAACCCAAT
59.925
43.478
0.00
0.00
43.68
3.16
87
88
2.441750
AGTTGCTCTAAGGACAACCCAA
59.558
45.455
0.00
0.00
43.68
4.12
88
89
2.038557
GAGTTGCTCTAAGGACAACCCA
59.961
50.000
0.00
0.00
43.68
4.51
89
90
2.701107
GAGTTGCTCTAAGGACAACCC
58.299
52.381
0.00
0.00
43.68
4.11
90
91
2.029290
TCGAGTTGCTCTAAGGACAACC
60.029
50.000
0.00
0.00
43.68
3.77
91
92
3.299340
TCGAGTTGCTCTAAGGACAAC
57.701
47.619
0.00
0.00
43.12
3.32
92
93
3.650139
GTTCGAGTTGCTCTAAGGACAA
58.350
45.455
0.00
0.00
0.00
3.18
93
94
2.351447
CGTTCGAGTTGCTCTAAGGACA
60.351
50.000
0.00
0.00
0.00
4.02
94
95
2.095364
TCGTTCGAGTTGCTCTAAGGAC
60.095
50.000
2.98
0.00
29.61
3.85
95
96
2.156917
TCGTTCGAGTTGCTCTAAGGA
58.843
47.619
2.98
2.98
31.21
3.36
96
97
2.520979
CTCGTTCGAGTTGCTCTAAGG
58.479
52.381
13.18
0.00
0.00
2.69
97
98
2.520979
CCTCGTTCGAGTTGCTCTAAG
58.479
52.381
18.59
0.00
0.00
2.18
98
99
1.402456
GCCTCGTTCGAGTTGCTCTAA
60.402
52.381
18.59
0.00
0.00
2.10
99
100
0.170561
GCCTCGTTCGAGTTGCTCTA
59.829
55.000
18.59
0.00
0.00
2.43
100
101
1.080434
GCCTCGTTCGAGTTGCTCT
60.080
57.895
18.59
0.00
0.00
4.09
101
102
2.095252
GGCCTCGTTCGAGTTGCTC
61.095
63.158
18.59
8.17
0.00
4.26
102
103
2.048127
GGCCTCGTTCGAGTTGCT
60.048
61.111
18.59
0.00
0.00
3.91
103
104
2.357034
TGGCCTCGTTCGAGTTGC
60.357
61.111
18.59
15.35
0.00
4.17
104
105
2.027625
GGTGGCCTCGTTCGAGTTG
61.028
63.158
18.59
7.57
0.00
3.16
105
106
2.342648
GGTGGCCTCGTTCGAGTT
59.657
61.111
18.59
0.00
0.00
3.01
106
107
3.692406
GGGTGGCCTCGTTCGAGT
61.692
66.667
18.59
0.00
0.00
4.18
107
108
2.521958
AATGGGTGGCCTCGTTCGAG
62.522
60.000
14.26
14.26
0.00
4.04
108
109
2.119484
AAATGGGTGGCCTCGTTCGA
62.119
55.000
3.32
0.00
0.00
3.71
109
110
1.644786
GAAATGGGTGGCCTCGTTCG
61.645
60.000
3.32
0.00
0.00
3.95
110
111
1.644786
CGAAATGGGTGGCCTCGTTC
61.645
60.000
3.32
1.97
0.00
3.95
111
112
1.674322
CGAAATGGGTGGCCTCGTT
60.674
57.895
3.32
0.00
0.00
3.85
112
113
2.046314
CGAAATGGGTGGCCTCGT
60.046
61.111
3.32
0.00
0.00
4.18
113
114
2.046314
ACGAAATGGGTGGCCTCG
60.046
61.111
3.32
5.40
35.68
4.63
114
115
1.749258
GGACGAAATGGGTGGCCTC
60.749
63.158
3.32
0.00
0.00
4.70
115
116
2.355115
GGACGAAATGGGTGGCCT
59.645
61.111
3.32
0.00
0.00
5.19
116
117
3.131478
CGGACGAAATGGGTGGCC
61.131
66.667
0.00
0.00
0.00
5.36
117
118
3.810896
GCGGACGAAATGGGTGGC
61.811
66.667
0.00
0.00
0.00
5.01
118
119
2.046314
AGCGGACGAAATGGGTGG
60.046
61.111
0.00
0.00
0.00
4.61
119
120
2.398554
CCAGCGGACGAAATGGGTG
61.399
63.158
0.00
0.00
0.00
4.61
120
121
2.046314
CCAGCGGACGAAATGGGT
60.046
61.111
0.00
0.00
0.00
4.51
121
122
3.508840
GCCAGCGGACGAAATGGG
61.509
66.667
11.26
0.00
33.23
4.00
122
123
3.864686
CGCCAGCGGACGAAATGG
61.865
66.667
3.61
1.37
35.56
3.16
123
124
3.083600
GACGCCAGCGGACGAAATG
62.084
63.158
17.33
0.00
44.69
2.32
124
125
2.813908
GACGCCAGCGGACGAAAT
60.814
61.111
17.33
0.00
44.69
2.17
134
135
2.593436
AACCCAAACGGACGCCAG
60.593
61.111
0.00
0.00
34.64
4.85
135
136
2.902846
CAACCCAAACGGACGCCA
60.903
61.111
0.00
0.00
34.64
5.69
136
137
3.666253
CCAACCCAAACGGACGCC
61.666
66.667
0.00
0.00
34.64
5.68
137
138
4.337060
GCCAACCCAAACGGACGC
62.337
66.667
0.00
0.00
34.64
5.19
138
139
2.902846
TGCCAACCCAAACGGACG
60.903
61.111
0.00
0.00
34.64
4.79
139
140
2.070654
CTGTGCCAACCCAAACGGAC
62.071
60.000
0.00
0.00
34.64
4.79
140
141
1.826054
CTGTGCCAACCCAAACGGA
60.826
57.895
0.00
0.00
34.64
4.69
141
142
1.826054
TCTGTGCCAACCCAAACGG
60.826
57.895
0.00
0.00
37.81
4.44
142
143
1.358759
GTCTGTGCCAACCCAAACG
59.641
57.895
0.00
0.00
0.00
3.60
143
144
0.102300
GTGTCTGTGCCAACCCAAAC
59.898
55.000
0.00
0.00
0.00
2.93
144
145
0.323816
TGTGTCTGTGCCAACCCAAA
60.324
50.000
0.00
0.00
0.00
3.28
145
146
0.323816
TTGTGTCTGTGCCAACCCAA
60.324
50.000
0.00
0.00
0.00
4.12
146
147
0.323816
TTTGTGTCTGTGCCAACCCA
60.324
50.000
0.00
0.00
0.00
4.51
147
148
0.820871
TTTTGTGTCTGTGCCAACCC
59.179
50.000
0.00
0.00
0.00
4.11
148
149
1.476488
ACTTTTGTGTCTGTGCCAACC
59.524
47.619
0.00
0.00
0.00
3.77
149
150
2.791158
CGACTTTTGTGTCTGTGCCAAC
60.791
50.000
0.00
0.00
35.00
3.77
150
151
1.400142
CGACTTTTGTGTCTGTGCCAA
59.600
47.619
0.00
0.00
35.00
4.52
151
152
1.013596
CGACTTTTGTGTCTGTGCCA
58.986
50.000
0.00
0.00
35.00
4.92
152
153
0.307760
CCGACTTTTGTGTCTGTGCC
59.692
55.000
0.00
0.00
35.00
5.01
153
154
0.317020
GCCGACTTTTGTGTCTGTGC
60.317
55.000
0.00
0.00
35.00
4.57
154
155
0.307760
GGCCGACTTTTGTGTCTGTG
59.692
55.000
0.00
0.00
35.00
3.66
155
156
0.818040
GGGCCGACTTTTGTGTCTGT
60.818
55.000
0.00
0.00
35.00
3.41
156
157
0.817634
TGGGCCGACTTTTGTGTCTG
60.818
55.000
0.00
0.00
35.00
3.51
157
158
0.106918
TTGGGCCGACTTTTGTGTCT
60.107
50.000
0.00
0.00
35.00
3.41
158
159
0.030235
GTTGGGCCGACTTTTGTGTC
59.970
55.000
17.07
0.00
0.00
3.67
159
160
1.720694
CGTTGGGCCGACTTTTGTGT
61.721
55.000
21.44
0.00
0.00
3.72
160
161
1.008995
CGTTGGGCCGACTTTTGTG
60.009
57.895
21.44
1.08
0.00
3.33
161
162
2.841160
GCGTTGGGCCGACTTTTGT
61.841
57.895
21.44
0.00
34.80
2.83
162
163
2.050442
GCGTTGGGCCGACTTTTG
60.050
61.111
21.44
7.22
34.80
2.44
163
164
3.656045
CGCGTTGGGCCGACTTTT
61.656
61.111
21.44
0.00
38.94
2.27
173
174
3.283684
TTTGGGTCAGCGCGTTGG
61.284
61.111
22.99
5.26
0.00
3.77
174
175
2.051345
GTTTGGGTCAGCGCGTTG
60.051
61.111
17.58
17.58
0.00
4.10
175
176
3.645975
CGTTTGGGTCAGCGCGTT
61.646
61.111
8.43
0.00
0.00
4.84
223
224
0.326927
AAAATGGACCGACGATGGGT
59.673
50.000
0.00
0.00
41.48
4.51
224
225
0.732571
CAAAATGGACCGACGATGGG
59.267
55.000
0.00
0.00
0.00
4.00
225
226
1.732941
TCAAAATGGACCGACGATGG
58.267
50.000
0.00
0.00
0.00
3.51
226
227
3.544048
CGAATCAAAATGGACCGACGATG
60.544
47.826
0.00
0.00
0.00
3.84
227
228
2.607635
CGAATCAAAATGGACCGACGAT
59.392
45.455
0.00
0.00
0.00
3.73
228
229
1.996898
CGAATCAAAATGGACCGACGA
59.003
47.619
0.00
0.00
0.00
4.20
229
230
1.062002
CCGAATCAAAATGGACCGACG
59.938
52.381
0.00
0.00
0.00
5.12
230
231
2.352388
TCCGAATCAAAATGGACCGAC
58.648
47.619
0.00
0.00
0.00
4.79
231
232
2.772077
TCCGAATCAAAATGGACCGA
57.228
45.000
0.00
0.00
0.00
4.69
232
233
4.104776
CAAATCCGAATCAAAATGGACCG
58.895
43.478
0.00
0.00
32.33
4.79
233
234
3.865164
GCAAATCCGAATCAAAATGGACC
59.135
43.478
0.00
0.00
32.33
4.46
234
235
3.547468
CGCAAATCCGAATCAAAATGGAC
59.453
43.478
0.00
0.00
32.33
4.02
235
236
3.192422
ACGCAAATCCGAATCAAAATGGA
59.808
39.130
0.00
0.00
34.45
3.41
236
237
3.510719
ACGCAAATCCGAATCAAAATGG
58.489
40.909
0.00
0.00
0.00
3.16
237
238
3.238114
CGACGCAAATCCGAATCAAAATG
59.762
43.478
0.00
0.00
0.00
2.32
238
239
3.425404
CGACGCAAATCCGAATCAAAAT
58.575
40.909
0.00
0.00
0.00
1.82
239
240
2.413502
CCGACGCAAATCCGAATCAAAA
60.414
45.455
0.00
0.00
0.00
2.44
240
241
1.129624
CCGACGCAAATCCGAATCAAA
59.870
47.619
0.00
0.00
0.00
2.69
241
242
0.724549
CCGACGCAAATCCGAATCAA
59.275
50.000
0.00
0.00
0.00
2.57
242
243
0.390603
ACCGACGCAAATCCGAATCA
60.391
50.000
0.00
0.00
0.00
2.57
243
244
0.026285
CACCGACGCAAATCCGAATC
59.974
55.000
0.00
0.00
0.00
2.52
244
245
1.977594
GCACCGACGCAAATCCGAAT
61.978
55.000
0.00
0.00
0.00
3.34
245
246
2.673114
GCACCGACGCAAATCCGAA
61.673
57.895
0.00
0.00
0.00
4.30
246
247
3.115892
GCACCGACGCAAATCCGA
61.116
61.111
0.00
0.00
0.00
4.55
247
248
4.499023
CGCACCGACGCAAATCCG
62.499
66.667
0.00
0.00
0.00
4.18
248
249
4.160635
CCGCACCGACGCAAATCC
62.161
66.667
0.00
0.00
0.00
3.01
249
250
3.115892
TCCGCACCGACGCAAATC
61.116
61.111
0.00
0.00
0.00
2.17
250
251
3.419759
GTCCGCACCGACGCAAAT
61.420
61.111
0.00
0.00
0.00
2.32
251
252
4.893601
TGTCCGCACCGACGCAAA
62.894
61.111
0.00
0.00
35.40
3.68
258
259
4.778415
CTCCTCGTGTCCGCACCG
62.778
72.222
0.00
0.00
42.39
4.94
259
260
4.436998
CCTCCTCGTGTCCGCACC
62.437
72.222
0.00
0.00
42.39
5.01
260
261
3.371063
TCCTCCTCGTGTCCGCAC
61.371
66.667
0.00
0.00
41.97
5.34
261
262
3.371063
GTCCTCCTCGTGTCCGCA
61.371
66.667
0.00
0.00
0.00
5.69
262
263
4.477975
CGTCCTCCTCGTGTCCGC
62.478
72.222
0.00
0.00
0.00
5.54
263
264
4.477975
GCGTCCTCCTCGTGTCCG
62.478
72.222
0.00
0.00
0.00
4.79
264
265
4.477975
CGCGTCCTCCTCGTGTCC
62.478
72.222
0.00
0.00
34.71
4.02
288
289
4.840005
GGGGAAGGAGAAGGCGCG
62.840
72.222
0.00
0.00
0.00
6.86
289
290
4.840005
CGGGGAAGGAGAAGGCGC
62.840
72.222
0.00
0.00
0.00
6.53
290
291
4.162690
CCGGGGAAGGAGAAGGCG
62.163
72.222
0.00
0.00
0.00
5.52
291
292
3.798511
CCCGGGGAAGGAGAAGGC
61.799
72.222
14.71
0.00
0.00
4.35
292
293
3.798511
GCCCGGGGAAGGAGAAGG
61.799
72.222
25.28
0.00
0.00
3.46
293
294
3.798511
GGCCCGGGGAAGGAGAAG
61.799
72.222
25.28
0.00
0.00
2.85
314
315
3.695606
GGAGTCTGCCACCGAGCA
61.696
66.667
0.00
0.00
41.46
4.26
315
316
3.695606
TGGAGTCTGCCACCGAGC
61.696
66.667
0.00
0.00
31.66
5.03
321
322
0.038166
GGAATTGGTGGAGTCTGCCA
59.962
55.000
2.76
2.76
35.02
4.92
322
323
0.681243
GGGAATTGGTGGAGTCTGCC
60.681
60.000
0.00
0.00
0.00
4.85
323
324
0.329596
AGGGAATTGGTGGAGTCTGC
59.670
55.000
0.00
0.00
0.00
4.26
324
325
1.912043
AGAGGGAATTGGTGGAGTCTG
59.088
52.381
0.00
0.00
0.00
3.51
325
326
2.350863
AGAGGGAATTGGTGGAGTCT
57.649
50.000
0.00
0.00
0.00
3.24
326
327
3.071747
GGATAGAGGGAATTGGTGGAGTC
59.928
52.174
0.00
0.00
0.00
3.36
327
328
3.049344
GGATAGAGGGAATTGGTGGAGT
58.951
50.000
0.00
0.00
0.00
3.85
328
329
2.373502
GGGATAGAGGGAATTGGTGGAG
59.626
54.545
0.00
0.00
0.00
3.86
329
330
2.418669
GGGATAGAGGGAATTGGTGGA
58.581
52.381
0.00
0.00
0.00
4.02
330
331
1.425448
GGGGATAGAGGGAATTGGTGG
59.575
57.143
0.00
0.00
0.00
4.61
331
332
1.425448
GGGGGATAGAGGGAATTGGTG
59.575
57.143
0.00
0.00
0.00
4.17
332
333
1.834540
GGGGGATAGAGGGAATTGGT
58.165
55.000
0.00
0.00
0.00
3.67
351
352
4.360405
CGGGTGGGTTTCTGGGGG
62.360
72.222
0.00
0.00
0.00
5.40
384
385
4.974721
CCATGGCGGGTATGGGGC
62.975
72.222
0.00
0.00
41.11
5.80
385
386
3.174987
TCCATGGCGGGTATGGGG
61.175
66.667
6.96
0.00
44.18
4.96
386
387
2.113139
GTCCATGGCGGGTATGGG
59.887
66.667
6.96
0.00
44.18
4.00
387
388
2.111999
ATCGTCCATGGCGGGTATGG
62.112
60.000
22.59
0.00
45.17
2.74
388
389
0.950555
CATCGTCCATGGCGGGTATG
60.951
60.000
22.59
16.60
34.36
2.39
389
390
1.118965
TCATCGTCCATGGCGGGTAT
61.119
55.000
22.59
10.61
32.64
2.73
390
391
1.758906
TCATCGTCCATGGCGGGTA
60.759
57.895
22.59
9.06
32.64
3.69
391
392
3.080765
TCATCGTCCATGGCGGGT
61.081
61.111
22.59
12.63
32.64
5.28
392
393
2.588877
GTCATCGTCCATGGCGGG
60.589
66.667
22.59
16.75
32.64
6.13
393
394
2.588877
GGTCATCGTCCATGGCGG
60.589
66.667
22.59
11.18
38.09
6.13
394
395
1.592669
GAGGTCATCGTCCATGGCG
60.593
63.158
18.73
18.73
38.09
5.69
395
396
1.592669
CGAGGTCATCGTCCATGGC
60.593
63.158
6.96
0.96
46.62
4.40
396
397
4.738198
CGAGGTCATCGTCCATGG
57.262
61.111
4.97
4.97
46.62
3.66
404
405
2.579787
CGCGGTGTCGAGGTCATC
60.580
66.667
0.00
0.00
39.00
2.92
405
406
4.796231
GCGCGGTGTCGAGGTCAT
62.796
66.667
8.83
0.00
39.00
3.06
467
468
2.741985
CCACGATGCAGGCGTTGA
60.742
61.111
13.86
0.00
40.44
3.18
475
476
0.952984
TTCATTGTCGCCACGATGCA
60.953
50.000
6.80
0.00
42.38
3.96
478
479
0.389296
TCGTTCATTGTCGCCACGAT
60.389
50.000
0.00
0.00
38.42
3.73
482
483
0.882484
TGCTTCGTTCATTGTCGCCA
60.882
50.000
0.00
0.00
0.00
5.69
487
488
5.235186
GCATATAGAGTGCTTCGTTCATTGT
59.765
40.000
0.00
0.00
39.45
2.71
498
499
6.239629
GGTTTAACCCTAGCATATAGAGTGCT
60.240
42.308
2.04
5.88
43.16
4.40
501
502
5.837438
ACGGTTTAACCCTAGCATATAGAGT
59.163
40.000
8.72
0.00
33.75
3.24
524
525
0.458716
GAAGAGACCGTGCTAGCCAC
60.459
60.000
13.29
9.58
41.15
5.01
595
607
4.778143
GGGCGAGTCGGGCAACAT
62.778
66.667
15.52
0.00
39.74
2.71
645
657
3.755628
GCCAGCGGGTAGACGTGA
61.756
66.667
4.36
0.00
36.17
4.35
809
823
4.953868
CGCCCGACAACACGTCCA
62.954
66.667
0.00
0.00
42.07
4.02
877
891
3.384789
CCACCCTCGAAGATCATGTTCTA
59.615
47.826
6.72
0.00
33.89
2.10
918
932
2.610479
GCTTTGTGTCTCGTCAGGATCA
60.610
50.000
0.00
0.00
0.00
2.92
924
938
0.249868
CCTGGCTTTGTGTCTCGTCA
60.250
55.000
0.00
0.00
0.00
4.35
997
1011
1.224075
CCGACCTGATCATGCATGAC
58.776
55.000
30.92
22.87
40.03
3.06
1045
1059
4.322801
CCCGTAGTCCTTCAGAAACTCATT
60.323
45.833
0.00
0.00
0.00
2.57
1057
1071
0.333993
TCCTGTAGCCCGTAGTCCTT
59.666
55.000
0.00
0.00
0.00
3.36
1072
1086
1.153939
CGCACTCGTCCTCTTCCTG
60.154
63.158
0.00
0.00
0.00
3.86
1083
1097
1.398762
CGATGTCACACTCGCACTCG
61.399
60.000
0.00
0.00
0.00
4.18
1084
1098
0.109735
TCGATGTCACACTCGCACTC
60.110
55.000
5.14
0.00
34.94
3.51
1085
1099
0.313987
TTCGATGTCACACTCGCACT
59.686
50.000
5.14
0.00
34.94
4.40
1086
1100
0.710567
CTTCGATGTCACACTCGCAC
59.289
55.000
5.14
0.00
34.94
5.34
1087
1101
0.388520
CCTTCGATGTCACACTCGCA
60.389
55.000
5.14
0.00
34.94
5.10
1088
1102
1.078759
CCCTTCGATGTCACACTCGC
61.079
60.000
5.14
0.00
34.94
5.03
1128
1142
1.377202
GATGGCTTGGTTGGCGAGA
60.377
57.895
0.00
0.00
35.06
4.04
1164
1178
1.611673
GCCTTGGTCTGCTTGCTCTTA
60.612
52.381
0.00
0.00
0.00
2.10
1207
1221
2.549754
CTCTCCAACACTCGCAAACAAT
59.450
45.455
0.00
0.00
0.00
2.71
1210
1224
1.527311
GTCTCTCCAACACTCGCAAAC
59.473
52.381
0.00
0.00
0.00
2.93
1256
1270
4.647424
AAGGTTGAATGCTTTTGTTCGA
57.353
36.364
0.00
0.00
0.00
3.71
1345
1361
1.304962
GAAATGGACACCCACCCCC
60.305
63.158
0.00
0.00
46.98
5.40
1369
1386
2.086869
CTTGTTGGATCACGCTCCATT
58.913
47.619
3.12
0.00
44.66
3.16
1376
1393
1.511850
TGCACTCTTGTTGGATCACG
58.488
50.000
0.00
0.00
0.00
4.35
1442
1460
0.251634
TGTCTTGCATGCCGATACCA
59.748
50.000
16.68
3.73
0.00
3.25
1510
1537
4.576216
AAATGGTATGCAAACGAACACA
57.424
36.364
0.00
0.00
0.00
3.72
1628
1656
4.081642
CCTCGTCTTTGATGACCCTAAAGA
60.082
45.833
0.00
0.00
37.91
2.52
1668
1696
1.153449
CGTCTTGAGGGCGGCATAA
60.153
57.895
12.47
0.00
0.00
1.90
1684
1712
1.525995
CTTGCTTCCCACCACACGT
60.526
57.895
0.00
0.00
0.00
4.49
1801
1830
1.852157
ATCATGCCCTCCACGGTTGT
61.852
55.000
0.00
0.00
0.00
3.32
1906
1935
1.656095
CTTCTCCGCGTTCATCTCAAC
59.344
52.381
4.92
0.00
0.00
3.18
1955
1984
0.107017
TAGCATCTTGGCTTGCCTCC
60.107
55.000
13.18
0.00
42.71
4.30
1958
1987
1.134280
TCTCTAGCATCTTGGCTTGCC
60.134
52.381
4.43
4.43
42.71
4.52
1985
2014
3.758973
TTGGTCTTGGCGTTGGCGA
62.759
57.895
0.00
0.00
41.24
5.54
2101
2141
1.000717
TCGTCGAACTTGAGCATGTCA
60.001
47.619
0.00
0.00
0.00
3.58
2267
2316
1.968017
CCACAGTTCATGCTGGCGT
60.968
57.895
5.48
0.00
40.59
5.68
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.