Multiple sequence alignment - TraesCS1B01G289000
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
TraesCS1B01G289000
chr1B
100.000
2580
0
0
1
2580
503663209
503660630
0.000000e+00
4765.0
1
TraesCS1B01G289000
chr1B
100.000
32
0
0
1
32
56751944
56751913
2.770000e-05
60.2
2
TraesCS1B01G289000
chr1D
93.875
1502
71
7
326
1821
376872255
376870769
0.000000e+00
2244.0
3
TraesCS1B01G289000
chr1D
86.015
665
62
15
1941
2580
376870616
376869958
0.000000e+00
684.0
4
TraesCS1B01G289000
chr1D
93.103
87
5
1
1850
1935
376870776
376870690
2.700000e-25
126.0
5
TraesCS1B01G289000
chr1A
95.181
83
4
0
1505
1587
477408874
477408792
5.790000e-27
132.0
6
TraesCS1B01G289000
chr2B
83.908
87
11
1
1852
1935
758120706
758120620
2.130000e-11
80.5
7
TraesCS1B01G289000
chr2A
83.908
87
11
1
1852
1935
750567548
750567462
2.130000e-11
80.5
8
TraesCS1B01G289000
chr7B
100.000
32
0
0
1
32
711479387
711479418
2.770000e-05
60.2
9
TraesCS1B01G289000
chr7B
97.143
35
0
1
1
34
697548341
697548375
9.970000e-05
58.4
10
TraesCS1B01G289000
chr6D
100.000
32
0
0
1
32
31863906
31863875
2.770000e-05
60.2
11
TraesCS1B01G289000
chr6D
100.000
32
0
0
1
32
436760102
436760133
2.770000e-05
60.2
12
TraesCS1B01G289000
chr3A
100.000
32
0
0
2
33
690458135
690458166
2.770000e-05
60.2
13
TraesCS1B01G289000
chrUn
97.059
34
1
0
1
34
325895957
325895924
9.970000e-05
58.4
14
TraesCS1B01G289000
chr7A
94.737
38
0
2
1
38
706965461
706965426
9.970000e-05
58.4
15
TraesCS1B01G289000
chr5B
97.059
34
1
0
1
34
15508413
15508380
9.970000e-05
58.4
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
TraesCS1B01G289000
chr1B
503660630
503663209
2579
True
4765
4765
100.000000
1
2580
1
chr1B.!!$R2
2579
1
TraesCS1B01G289000
chr1D
376869958
376872255
2297
True
1018
2244
90.997667
326
2580
3
chr1D.!!$R1
2254
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
25
26
0.178068
TACTCAAATCCTGGCTCCGC
59.822
55.0
0.0
0.0
0.0
5.54
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
1851
1858
0.035458
GAAGGGCATATGAGGGGACG
59.965
60.0
6.97
0.0
0.0
4.79
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
20
21
3.425162
CCCCTATACTCAAATCCTGGC
57.575
52.381
0.00
0.00
0.00
4.85
21
22
2.982488
CCCCTATACTCAAATCCTGGCT
59.018
50.000
0.00
0.00
0.00
4.75
22
23
3.008485
CCCCTATACTCAAATCCTGGCTC
59.992
52.174
0.00
0.00
0.00
4.70
23
24
3.008485
CCCTATACTCAAATCCTGGCTCC
59.992
52.174
0.00
0.00
0.00
4.70
24
25
2.918712
ATACTCAAATCCTGGCTCCG
57.081
50.000
0.00
0.00
0.00
4.63
25
26
0.178068
TACTCAAATCCTGGCTCCGC
59.822
55.000
0.00
0.00
0.00
5.54
44
45
3.898509
CCTGAGCTCCGAGCCGAG
61.899
72.222
16.99
12.24
43.77
4.63
45
46
2.826287
CTGAGCTCCGAGCCGAGA
60.826
66.667
16.99
0.00
43.77
4.04
46
47
2.361230
TGAGCTCCGAGCCGAGAA
60.361
61.111
16.99
0.00
43.77
2.87
47
48
2.103340
GAGCTCCGAGCCGAGAAC
59.897
66.667
16.99
0.00
43.77
3.01
48
49
3.743091
GAGCTCCGAGCCGAGAACG
62.743
68.421
16.99
0.00
43.77
3.95
59
60
4.742201
GAGAACGGCGCCTGAGCA
62.742
66.667
26.68
0.00
39.83
4.26
70
71
4.624364
CTGAGCACCACGCCCACA
62.624
66.667
0.00
0.00
44.04
4.17
71
72
4.927782
TGAGCACCACGCCCACAC
62.928
66.667
0.00
0.00
44.04
3.82
109
110
4.390584
GACAACACGTCGACGCGC
62.391
66.667
35.92
15.78
44.43
6.86
119
120
4.124351
CGACGCGCCCTTGACCTA
62.124
66.667
5.73
0.00
0.00
3.08
120
121
2.508663
GACGCGCCCTTGACCTAC
60.509
66.667
5.73
0.00
0.00
3.18
121
122
4.078516
ACGCGCCCTTGACCTACC
62.079
66.667
5.73
0.00
0.00
3.18
122
123
4.077184
CGCGCCCTTGACCTACCA
62.077
66.667
0.00
0.00
0.00
3.25
123
124
2.436115
GCGCCCTTGACCTACCAC
60.436
66.667
0.00
0.00
0.00
4.16
124
125
2.125673
CGCCCTTGACCTACCACG
60.126
66.667
0.00
0.00
0.00
4.94
125
126
2.436115
GCCCTTGACCTACCACGC
60.436
66.667
0.00
0.00
0.00
5.34
126
127
2.267961
CCCTTGACCTACCACGCC
59.732
66.667
0.00
0.00
0.00
5.68
127
128
2.267961
CCTTGACCTACCACGCCC
59.732
66.667
0.00
0.00
0.00
6.13
128
129
2.589157
CCTTGACCTACCACGCCCA
61.589
63.158
0.00
0.00
0.00
5.36
129
130
1.375523
CTTGACCTACCACGCCCAC
60.376
63.158
0.00
0.00
0.00
4.61
130
131
2.798148
CTTGACCTACCACGCCCACC
62.798
65.000
0.00
0.00
0.00
4.61
131
132
3.315949
GACCTACCACGCCCACCA
61.316
66.667
0.00
0.00
0.00
4.17
132
133
3.310860
GACCTACCACGCCCACCAG
62.311
68.421
0.00
0.00
0.00
4.00
133
134
4.778143
CCTACCACGCCCACCAGC
62.778
72.222
0.00
0.00
0.00
4.85
134
135
4.015406
CTACCACGCCCACCAGCA
62.015
66.667
0.00
0.00
0.00
4.41
135
136
4.323477
TACCACGCCCACCAGCAC
62.323
66.667
0.00
0.00
0.00
4.40
141
142
3.595758
GCCCACCAGCACACACAC
61.596
66.667
0.00
0.00
0.00
3.82
142
143
2.124362
CCCACCAGCACACACACA
60.124
61.111
0.00
0.00
0.00
3.72
143
144
2.188829
CCCACCAGCACACACACAG
61.189
63.158
0.00
0.00
0.00
3.66
144
145
2.717485
CACCAGCACACACACAGC
59.283
61.111
0.00
0.00
0.00
4.40
145
146
2.516930
ACCAGCACACACACAGCC
60.517
61.111
0.00
0.00
0.00
4.85
146
147
2.516695
CCAGCACACACACAGCCA
60.517
61.111
0.00
0.00
0.00
4.75
147
148
1.900016
CCAGCACACACACAGCCAT
60.900
57.895
0.00
0.00
0.00
4.40
148
149
0.606130
CCAGCACACACACAGCCATA
60.606
55.000
0.00
0.00
0.00
2.74
149
150
1.237533
CAGCACACACACAGCCATAA
58.762
50.000
0.00
0.00
0.00
1.90
150
151
1.814394
CAGCACACACACAGCCATAAT
59.186
47.619
0.00
0.00
0.00
1.28
151
152
2.086869
AGCACACACACAGCCATAATC
58.913
47.619
0.00
0.00
0.00
1.75
152
153
1.202065
GCACACACACAGCCATAATCG
60.202
52.381
0.00
0.00
0.00
3.34
153
154
1.086696
ACACACACAGCCATAATCGC
58.913
50.000
0.00
0.00
0.00
4.58
154
155
0.378257
CACACACAGCCATAATCGCC
59.622
55.000
0.00
0.00
0.00
5.54
155
156
0.748005
ACACACAGCCATAATCGCCC
60.748
55.000
0.00
0.00
0.00
6.13
156
157
1.523711
ACACAGCCATAATCGCCCG
60.524
57.895
0.00
0.00
0.00
6.13
157
158
2.591715
ACAGCCATAATCGCCCGC
60.592
61.111
0.00
0.00
0.00
6.13
158
159
3.716006
CAGCCATAATCGCCCGCG
61.716
66.667
0.00
0.00
41.35
6.46
161
162
4.012895
CCATAATCGCCCGCGCAC
62.013
66.667
8.75
0.00
39.59
5.34
162
163
4.354212
CATAATCGCCCGCGCACG
62.354
66.667
8.75
12.10
39.59
5.34
180
181
4.111016
CCACGCCGACAGACGCTA
62.111
66.667
0.00
0.00
41.07
4.26
181
182
2.577112
CACGCCGACAGACGCTAG
60.577
66.667
0.00
0.00
41.07
3.42
182
183
4.477975
ACGCCGACAGACGCTAGC
62.478
66.667
4.06
4.06
41.07
3.42
183
184
4.180946
CGCCGACAGACGCTAGCT
62.181
66.667
13.93
0.00
41.07
3.32
184
185
2.278271
GCCGACAGACGCTAGCTC
60.278
66.667
13.93
9.43
41.07
4.09
185
186
2.023461
CCGACAGACGCTAGCTCG
59.977
66.667
13.93
14.23
41.07
5.03
186
187
2.649349
CGACAGACGCTAGCTCGC
60.649
66.667
13.93
0.00
34.51
5.03
187
188
2.278271
GACAGACGCTAGCTCGCC
60.278
66.667
13.93
0.00
0.00
5.54
188
189
4.180946
ACAGACGCTAGCTCGCCG
62.181
66.667
13.93
1.86
0.00
6.46
209
210
4.722700
CGCCCCACACCTCCCTTG
62.723
72.222
0.00
0.00
0.00
3.61
210
211
4.366684
GCCCCACACCTCCCTTGG
62.367
72.222
0.00
0.00
0.00
3.61
211
212
4.366684
CCCCACACCTCCCTTGGC
62.367
72.222
0.00
0.00
0.00
4.52
212
213
4.366684
CCCACACCTCCCTTGGCC
62.367
72.222
0.00
0.00
0.00
5.36
213
214
3.260100
CCACACCTCCCTTGGCCT
61.260
66.667
3.32
0.00
0.00
5.19
214
215
1.923395
CCACACCTCCCTTGGCCTA
60.923
63.158
3.32
0.00
0.00
3.93
215
216
1.604378
CACACCTCCCTTGGCCTAG
59.396
63.158
7.29
7.29
0.00
3.02
216
217
2.301738
ACACCTCCCTTGGCCTAGC
61.302
63.158
8.91
0.00
0.00
3.42
217
218
3.083997
ACCTCCCTTGGCCTAGCG
61.084
66.667
8.91
0.00
0.00
4.26
218
219
3.866582
CCTCCCTTGGCCTAGCGG
61.867
72.222
8.91
11.44
0.00
5.52
244
245
4.697756
CACCCCAGCCTCGCGAAA
62.698
66.667
11.33
0.00
0.00
3.46
245
246
4.394712
ACCCCAGCCTCGCGAAAG
62.395
66.667
11.33
5.77
0.00
2.62
259
260
3.406728
GCGAAAGGGAAGTAATGAAGC
57.593
47.619
0.00
0.00
0.00
3.86
260
261
2.223044
GCGAAAGGGAAGTAATGAAGCG
60.223
50.000
0.00
0.00
0.00
4.68
261
262
3.000727
CGAAAGGGAAGTAATGAAGCGT
58.999
45.455
0.00
0.00
0.00
5.07
262
263
3.062234
CGAAAGGGAAGTAATGAAGCGTC
59.938
47.826
0.00
0.00
0.00
5.19
263
264
2.693267
AGGGAAGTAATGAAGCGTCC
57.307
50.000
0.00
0.00
33.49
4.79
264
265
1.664873
GGGAAGTAATGAAGCGTCCC
58.335
55.000
0.00
0.00
43.87
4.46
265
266
1.287425
GGAAGTAATGAAGCGTCCCG
58.713
55.000
0.00
0.00
0.00
5.14
307
308
4.410400
GCGAGGGTGGGAGGGTTG
62.410
72.222
0.00
0.00
0.00
3.77
308
309
3.717294
CGAGGGTGGGAGGGTTGG
61.717
72.222
0.00
0.00
0.00
3.77
309
310
2.204090
GAGGGTGGGAGGGTTGGA
60.204
66.667
0.00
0.00
0.00
3.53
310
311
2.204151
AGGGTGGGAGGGTTGGAG
60.204
66.667
0.00
0.00
0.00
3.86
311
312
2.204090
GGGTGGGAGGGTTGGAGA
60.204
66.667
0.00
0.00
0.00
3.71
312
313
2.301738
GGGTGGGAGGGTTGGAGAG
61.302
68.421
0.00
0.00
0.00
3.20
313
314
2.301738
GGTGGGAGGGTTGGAGAGG
61.302
68.421
0.00
0.00
0.00
3.69
314
315
2.124996
TGGGAGGGTTGGAGAGGG
59.875
66.667
0.00
0.00
0.00
4.30
315
316
2.692741
GGGAGGGTTGGAGAGGGG
60.693
72.222
0.00
0.00
0.00
4.79
316
317
2.692741
GGAGGGTTGGAGAGGGGG
60.693
72.222
0.00
0.00
0.00
5.40
317
318
2.125225
GAGGGTTGGAGAGGGGGT
59.875
66.667
0.00
0.00
0.00
4.95
318
319
2.204151
AGGGTTGGAGAGGGGGTG
60.204
66.667
0.00
0.00
0.00
4.61
319
320
3.339093
GGGTTGGAGAGGGGGTGG
61.339
72.222
0.00
0.00
0.00
4.61
320
321
2.531942
GGTTGGAGAGGGGGTGGT
60.532
66.667
0.00
0.00
0.00
4.16
321
322
2.160853
GGTTGGAGAGGGGGTGGTT
61.161
63.158
0.00
0.00
0.00
3.67
322
323
1.074951
GTTGGAGAGGGGGTGGTTG
59.925
63.158
0.00
0.00
0.00
3.77
323
324
2.160171
TTGGAGAGGGGGTGGTTGG
61.160
63.158
0.00
0.00
0.00
3.77
324
325
4.048470
GGAGAGGGGGTGGTTGGC
62.048
72.222
0.00
0.00
0.00
4.52
343
344
2.244117
CTCAGCGGGCAAGGCTTCTA
62.244
60.000
0.00
0.00
39.08
2.10
349
350
2.091541
CGGGCAAGGCTTCTAATTTCA
58.908
47.619
0.00
0.00
0.00
2.69
350
351
2.689983
CGGGCAAGGCTTCTAATTTCAT
59.310
45.455
0.00
0.00
0.00
2.57
351
352
3.882888
CGGGCAAGGCTTCTAATTTCATA
59.117
43.478
0.00
0.00
0.00
2.15
352
353
4.023707
CGGGCAAGGCTTCTAATTTCATAG
60.024
45.833
0.00
0.00
0.00
2.23
503
504
2.486955
GGGCAACAAAGGTTCCTACCG
61.487
57.143
0.00
0.00
44.87
4.02
535
536
1.532868
GGTCTGCAGCCTATTATTGCG
59.467
52.381
9.47
0.00
40.62
4.85
577
578
7.012704
ACAAATCATGGGAGAATTAAGACATCG
59.987
37.037
0.00
0.00
0.00
3.84
631
632
8.291191
AGAGGGTAGATTAGTAGTGTGTTAAC
57.709
38.462
0.00
0.00
0.00
2.01
635
636
6.755607
GGTAGATTAGTAGTGTGTTAACCTGC
59.244
42.308
2.48
0.00
0.00
4.85
641
642
2.783135
AGTGTGTTAACCTGCTGATGG
58.217
47.619
2.48
0.00
0.00
3.51
649
650
1.180029
ACCTGCTGATGGTGCATTTC
58.820
50.000
0.00
0.00
39.86
2.17
705
706
7.735326
TTTAGGAGTTACTGGCTTCTAGATT
57.265
36.000
0.00
0.00
0.00
2.40
712
713
7.686434
AGTTACTGGCTTCTAGATTTGGTTAA
58.314
34.615
0.00
0.00
0.00
2.01
713
714
8.161425
AGTTACTGGCTTCTAGATTTGGTTAAA
58.839
33.333
0.00
0.00
0.00
1.52
754
755
6.741992
TGAAGTGATAAAAAGCGTCATGAT
57.258
33.333
0.00
0.00
0.00
2.45
769
770
4.441495
CGTCATGATAGCCACTTGTAGGAA
60.441
45.833
0.00
0.00
0.00
3.36
777
778
3.452627
AGCCACTTGTAGGAAGACATAGG
59.547
47.826
0.00
0.00
0.00
2.57
792
793
8.847196
GGAAGACATAGGGGAAACATAATTTAC
58.153
37.037
0.00
0.00
0.00
2.01
796
797
4.976224
AGGGGAAACATAATTTACGCAC
57.024
40.909
2.05
0.00
0.00
5.34
811
812
2.504367
ACGCACTGCCACTTTAATTCT
58.496
42.857
0.00
0.00
0.00
2.40
814
815
2.729156
GCACTGCCACTTTAATTCTCGC
60.729
50.000
0.00
0.00
0.00
5.03
825
826
5.924825
ACTTTAATTCTCGCGTGGTATATCC
59.075
40.000
5.77
0.00
0.00
2.59
897
898
3.634397
TTCCAGCCTTACTCATTCAGG
57.366
47.619
0.00
0.00
0.00
3.86
905
906
6.146837
CAGCCTTACTCATTCAGGATTAATCG
59.853
42.308
9.32
0.00
0.00
3.34
912
913
6.870965
ACTCATTCAGGATTAATCGACTATGC
59.129
38.462
9.32
0.00
0.00
3.14
923
924
1.941294
TCGACTATGCCGAGTCTCTTC
59.059
52.381
11.95
0.00
43.18
2.87
925
926
2.032377
CGACTATGCCGAGTCTCTTCTC
60.032
54.545
11.95
0.00
43.18
2.87
939
940
4.702612
GTCTCTTCTCAGTCATGTGGTAGA
59.297
45.833
0.00
0.00
0.00
2.59
943
944
6.634805
TCTTCTCAGTCATGTGGTAGATTTC
58.365
40.000
0.00
0.00
0.00
2.17
981
982
5.939296
AGTGCCCACAAATTCCAAATATTTG
59.061
36.000
19.40
19.40
44.59
2.32
990
991
4.448537
TTCCAAATATTTGCCTCGTTGG
57.551
40.909
20.67
7.35
36.86
3.77
1084
1085
0.250295
TGACGGAGACAAGGCTTTGG
60.250
55.000
13.65
0.00
38.66
3.28
1104
1105
3.132111
TGGTAGATGCTAACGAATGCAGA
59.868
43.478
0.00
0.00
42.74
4.26
1185
1186
7.973048
ACTGAAGGTTACATAGAAGATACCA
57.027
36.000
0.00
0.00
0.00
3.25
1237
1238
6.985188
TTTCCTCTATATGAGTTTGTGTGC
57.015
37.500
0.00
0.00
41.11
4.57
1293
1294
9.223764
TATCATCAGGATTACAAGGGTGCTTGT
62.224
40.741
0.00
0.00
42.24
3.16
1297
1298
3.572255
GGATTACAAGGGTGCTTGTGAAA
59.428
43.478
0.00
0.00
45.83
2.69
1298
1299
4.321230
GGATTACAAGGGTGCTTGTGAAAG
60.321
45.833
0.00
0.00
45.83
2.62
1301
1302
2.166254
ACAAGGGTGCTTGTGAAAGTTG
59.834
45.455
0.00
0.00
44.79
3.16
1325
1326
1.676014
GGATGGACTCAAGTTGGACCG
60.676
57.143
2.34
0.00
0.00
4.79
1372
1373
1.122019
ACGGTATCCCATCTGCCTCC
61.122
60.000
0.00
0.00
0.00
4.30
1394
1395
4.023707
CCTTTTTGTTGTTTGTGGCAAACA
60.024
37.500
19.50
19.50
38.26
2.83
1429
1430
4.735578
GCATTATGCATTGTGAGGAACCAG
60.736
45.833
12.80
0.00
44.26
4.00
1496
1497
6.094061
GCTCCTAAGTGTTACTACAAGTGAG
58.906
44.000
0.00
0.00
35.69
3.51
1564
1566
1.263484
GATGCCATGCAAGATGTCTCG
59.737
52.381
0.00
0.00
43.62
4.04
1565
1567
0.249955
TGCCATGCAAGATGTCTCGA
59.750
50.000
0.00
0.00
34.76
4.04
1567
1569
1.329906
GCCATGCAAGATGTCTCGAAG
59.670
52.381
0.00
0.00
0.00
3.79
1632
1637
8.766000
TTTGTTTTCTTTAAAAGTGGGAAGAC
57.234
30.769
0.00
0.00
35.29
3.01
1637
1642
4.508861
TCTTTAAAAGTGGGAAGACGTTCG
59.491
41.667
0.00
0.00
32.92
3.95
1655
1660
1.202830
TCGGGATCTGCTCTCTAGTCC
60.203
57.143
0.00
0.00
0.00
3.85
1656
1661
1.627864
GGGATCTGCTCTCTAGTCCC
58.372
60.000
0.00
0.00
38.61
4.46
1657
1662
1.146982
GGGATCTGCTCTCTAGTCCCT
59.853
57.143
4.00
0.00
41.63
4.20
1658
1663
2.238521
GGATCTGCTCTCTAGTCCCTG
58.761
57.143
0.00
0.00
0.00
4.45
1660
1665
3.181438
GGATCTGCTCTCTAGTCCCTGTA
60.181
52.174
0.00
0.00
0.00
2.74
1661
1666
3.569194
TCTGCTCTCTAGTCCCTGTAG
57.431
52.381
0.00
0.00
0.00
2.74
1662
1667
2.847449
TCTGCTCTCTAGTCCCTGTAGT
59.153
50.000
0.00
0.00
0.00
2.73
1706
1713
7.467947
GCTTATAGGCTTTGAATTCCTGAACTC
60.468
40.741
2.27
0.00
0.00
3.01
1711
1718
4.377841
GCTTTGAATTCCTGAACTCGTCTG
60.378
45.833
2.27
0.00
0.00
3.51
1790
1797
8.634335
TCCTATCTTTTTGTGTCATTCATTCA
57.366
30.769
0.00
0.00
0.00
2.57
1797
1804
3.076621
TGTGTCATTCATTCAGGCTGTC
58.923
45.455
15.27
0.00
0.00
3.51
1798
1805
3.076621
GTGTCATTCATTCAGGCTGTCA
58.923
45.455
15.27
2.79
0.00
3.58
1799
1806
3.076621
TGTCATTCATTCAGGCTGTCAC
58.923
45.455
15.27
1.85
0.00
3.67
1818
1825
9.703892
GCTGTCACAAGATAGATTATTATCTGT
57.296
33.333
4.47
0.00
41.25
3.41
1823
1830
9.650539
CACAAGATAGATTATTATCTGTCCTGG
57.349
37.037
16.57
9.49
45.26
4.45
1824
1831
9.607333
ACAAGATAGATTATTATCTGTCCTGGA
57.393
33.333
16.57
0.00
45.26
3.86
1826
1833
8.305046
AGATAGATTATTATCTGTCCTGGAGC
57.695
38.462
13.02
0.00
45.26
4.70
1827
1834
7.898100
AGATAGATTATTATCTGTCCTGGAGCA
59.102
37.037
13.02
0.00
45.26
4.26
1828
1835
6.949117
AGATTATTATCTGTCCTGGAGCAT
57.051
37.500
0.00
0.00
39.66
3.79
1829
1836
6.945218
AGATTATTATCTGTCCTGGAGCATC
58.055
40.000
0.00
0.00
39.66
3.91
1830
1837
6.730038
AGATTATTATCTGTCCTGGAGCATCT
59.270
38.462
0.00
0.00
39.66
2.90
1831
1838
7.898100
AGATTATTATCTGTCCTGGAGCATCTA
59.102
37.037
0.00
0.00
39.66
1.98
1832
1839
5.736951
ATTATCTGTCCTGGAGCATCTAC
57.263
43.478
0.00
0.00
33.73
2.59
1833
1840
2.532250
TCTGTCCTGGAGCATCTACA
57.468
50.000
0.00
0.00
33.73
2.74
1834
1841
2.820178
TCTGTCCTGGAGCATCTACAA
58.180
47.619
0.00
0.00
33.73
2.41
1835
1842
2.497675
TCTGTCCTGGAGCATCTACAAC
59.502
50.000
0.00
0.00
33.73
3.32
1836
1843
1.555075
TGTCCTGGAGCATCTACAACC
59.445
52.381
0.00
0.00
33.73
3.77
1837
1844
1.555075
GTCCTGGAGCATCTACAACCA
59.445
52.381
0.00
0.00
33.73
3.67
1838
1845
1.555075
TCCTGGAGCATCTACAACCAC
59.445
52.381
0.00
0.00
33.73
4.16
1839
1846
1.278985
CCTGGAGCATCTACAACCACA
59.721
52.381
0.00
0.00
33.73
4.17
1840
1847
2.350522
CTGGAGCATCTACAACCACAC
58.649
52.381
0.00
0.00
33.73
3.82
1841
1848
1.977854
TGGAGCATCTACAACCACACT
59.022
47.619
0.00
0.00
33.73
3.55
1842
1849
2.371841
TGGAGCATCTACAACCACACTT
59.628
45.455
0.00
0.00
33.73
3.16
1843
1850
3.580895
TGGAGCATCTACAACCACACTTA
59.419
43.478
0.00
0.00
33.73
2.24
1844
1851
4.184629
GGAGCATCTACAACCACACTTAG
58.815
47.826
0.00
0.00
33.73
2.18
1845
1852
4.184629
GAGCATCTACAACCACACTTAGG
58.815
47.826
0.00
0.00
0.00
2.69
1846
1853
2.678336
GCATCTACAACCACACTTAGGC
59.322
50.000
0.00
0.00
0.00
3.93
1847
1854
3.868369
GCATCTACAACCACACTTAGGCA
60.868
47.826
0.00
0.00
0.00
4.75
1848
1855
4.323417
CATCTACAACCACACTTAGGCAA
58.677
43.478
0.00
0.00
0.00
4.52
1849
1856
4.425180
TCTACAACCACACTTAGGCAAA
57.575
40.909
0.00
0.00
0.00
3.68
1850
1857
4.980573
TCTACAACCACACTTAGGCAAAT
58.019
39.130
0.00
0.00
0.00
2.32
1851
1858
5.001232
TCTACAACCACACTTAGGCAAATC
58.999
41.667
0.00
0.00
0.00
2.17
1852
1859
2.552315
ACAACCACACTTAGGCAAATCG
59.448
45.455
0.00
0.00
0.00
3.34
1893
1900
9.622004
CTTCAAATCCATATAATCTCATGCAAC
57.378
33.333
0.00
0.00
0.00
4.17
1894
1901
8.694581
TCAAATCCATATAATCTCATGCAACA
57.305
30.769
0.00
0.00
0.00
3.33
1908
1915
7.477494
TCTCATGCAACATAGATCAAACAATG
58.523
34.615
0.00
0.00
0.00
2.82
1956
2031
8.920665
CATAGAATTAACGAGCTATGGAGAAAG
58.079
37.037
0.00
0.00
37.57
2.62
1996
2071
4.481368
TGCACTTGTCCGGTTTATAGAT
57.519
40.909
0.00
0.00
0.00
1.98
2003
2078
9.537192
CACTTGTCCGGTTTATAGATATTGTAA
57.463
33.333
0.00
0.00
0.00
2.41
2017
2092
9.935241
ATAGATATTGTAACGCTTGAAGATGAT
57.065
29.630
0.00
0.00
0.00
2.45
2027
2102
5.092105
CGCTTGAAGATGATATAGAGACCG
58.908
45.833
0.00
0.00
0.00
4.79
2047
2122
2.202479
GCGGATCTGTTTTGCGCC
60.202
61.111
4.18
0.00
46.47
6.53
2064
2139
1.811266
CCTGGAGGTGTCGAATGCG
60.811
63.158
0.00
0.00
39.35
4.73
2077
2152
1.429463
GAATGCGACACCGTTCTTCT
58.571
50.000
0.00
0.00
38.24
2.85
2078
2153
1.390463
GAATGCGACACCGTTCTTCTC
59.610
52.381
0.00
0.00
38.24
2.87
2079
2154
0.603569
ATGCGACACCGTTCTTCTCT
59.396
50.000
0.00
0.00
38.24
3.10
2080
2155
0.387929
TGCGACACCGTTCTTCTCTT
59.612
50.000
0.00
0.00
38.24
2.85
2129
2204
0.470766
GGGCATGGACAATACGGGTA
59.529
55.000
0.00
0.00
0.00
3.69
2141
2216
4.155733
CGGGTATGCTCCACCGCA
62.156
66.667
0.00
0.00
45.10
5.69
2143
2218
1.819632
GGGTATGCTCCACCGCAAG
60.820
63.158
0.00
0.00
44.06
4.01
2186
2261
1.912371
GCTCGCCAGGTTACAAGCAC
61.912
60.000
0.00
0.00
0.00
4.40
2188
2263
1.666553
CGCCAGGTTACAAGCACGA
60.667
57.895
0.00
0.00
0.00
4.35
2208
2284
3.481453
GAATATCCTTCTGGCCTTGTCC
58.519
50.000
3.32
0.00
0.00
4.02
2211
2287
1.376037
CCTTCTGGCCTTGTCCGAC
60.376
63.158
3.32
0.00
0.00
4.79
2302
2378
2.031157
CCAAACTTGAAGCCTAACACCG
60.031
50.000
0.00
0.00
0.00
4.94
2304
2380
1.878953
ACTTGAAGCCTAACACCGTG
58.121
50.000
0.00
0.00
0.00
4.94
2308
2384
1.833787
GAAGCCTAACACCGTGGGGA
61.834
60.000
3.03
0.00
36.97
4.81
2309
2385
2.046604
GCCTAACACCGTGGGGAC
60.047
66.667
3.03
0.00
36.97
4.46
2324
2400
2.353610
GGACAAGGGCCCAATGCAG
61.354
63.158
27.56
9.09
43.89
4.41
2356
2459
1.003355
ACACACCTCAAGCCATCGG
60.003
57.895
0.00
0.00
0.00
4.18
2383
2486
1.062525
GCATCACCGCCGTTCAATC
59.937
57.895
0.00
0.00
0.00
2.67
2436
2539
2.746472
GCCATGTGGTTGAGTATCCTCC
60.746
54.545
0.35
0.00
35.68
4.30
2440
2543
1.486726
GTGGTTGAGTATCCTCCTGGG
59.513
57.143
0.00
0.00
36.86
4.45
2454
2557
0.539051
CCTGGGATCGACAGAAAGCT
59.461
55.000
15.34
0.00
38.20
3.74
2457
2560
1.137086
TGGGATCGACAGAAAGCTAGC
59.863
52.381
6.62
6.62
0.00
3.42
2460
2563
2.418746
GGATCGACAGAAAGCTAGCCAA
60.419
50.000
12.13
0.00
0.00
4.52
2478
2581
3.120304
GCCAAATCCAAGTTGACGTACTC
60.120
47.826
3.87
0.00
0.00
2.59
2480
2583
4.152402
CCAAATCCAAGTTGACGTACTCAG
59.848
45.833
3.87
0.00
0.00
3.35
2492
2595
1.333931
CGTACTCAGATTCGCTGCCTA
59.666
52.381
0.00
0.00
44.52
3.93
2499
2602
2.679837
CAGATTCGCTGCCTACAATGTT
59.320
45.455
0.00
0.00
37.90
2.71
2510
2613
4.021544
TGCCTACAATGTTGAAAATGACCC
60.022
41.667
0.00
0.00
0.00
4.46
2523
2626
5.365025
TGAAAATGACCCAAGATCACCAAAA
59.635
36.000
0.00
0.00
0.00
2.44
2539
2642
0.394192
AAAAAGGAGCTGGGCAAAGC
59.606
50.000
0.00
3.39
43.88
3.51
2546
2649
2.032528
CTGGGCAAAGCGGACTGA
59.967
61.111
0.00
0.00
0.00
3.41
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
0
1
2.982488
AGCCAGGATTTGAGTATAGGGG
59.018
50.000
0.00
0.00
0.00
4.79
1
2
3.008485
GGAGCCAGGATTTGAGTATAGGG
59.992
52.174
0.00
0.00
0.00
3.53
2
3
3.306364
CGGAGCCAGGATTTGAGTATAGG
60.306
52.174
0.00
0.00
0.00
2.57
3
4
3.919216
CGGAGCCAGGATTTGAGTATAG
58.081
50.000
0.00
0.00
0.00
1.31
5
6
2.918712
CGGAGCCAGGATTTGAGTAT
57.081
50.000
0.00
0.00
0.00
2.12
27
28
3.898509
CTCGGCTCGGAGCTCAGG
61.899
72.222
27.47
15.16
41.99
3.86
28
29
2.410687
TTCTCGGCTCGGAGCTCAG
61.411
63.158
27.47
21.85
41.99
3.35
29
30
2.361230
TTCTCGGCTCGGAGCTCA
60.361
61.111
27.47
14.28
41.99
4.26
30
31
2.103340
GTTCTCGGCTCGGAGCTC
59.897
66.667
27.47
17.07
41.99
4.09
31
32
3.816524
CGTTCTCGGCTCGGAGCT
61.817
66.667
27.47
0.00
41.99
4.09
42
43
4.742201
TGCTCAGGCGCCGTTCTC
62.742
66.667
23.20
11.19
42.25
2.87
102
103
4.124351
TAGGTCAAGGGCGCGTCG
62.124
66.667
8.43
0.00
0.00
5.12
103
104
2.508663
GTAGGTCAAGGGCGCGTC
60.509
66.667
8.43
4.38
0.00
5.19
104
105
4.078516
GGTAGGTCAAGGGCGCGT
62.079
66.667
8.43
0.00
0.00
6.01
105
106
4.077184
TGGTAGGTCAAGGGCGCG
62.077
66.667
0.00
0.00
0.00
6.86
106
107
2.436115
GTGGTAGGTCAAGGGCGC
60.436
66.667
0.00
0.00
0.00
6.53
107
108
2.125673
CGTGGTAGGTCAAGGGCG
60.126
66.667
0.00
0.00
0.00
6.13
108
109
2.436115
GCGTGGTAGGTCAAGGGC
60.436
66.667
0.00
0.00
0.00
5.19
109
110
2.267961
GGCGTGGTAGGTCAAGGG
59.732
66.667
0.00
0.00
0.00
3.95
110
111
2.267961
GGGCGTGGTAGGTCAAGG
59.732
66.667
0.00
0.00
0.00
3.61
111
112
1.375523
GTGGGCGTGGTAGGTCAAG
60.376
63.158
0.00
0.00
0.00
3.02
112
113
2.745037
GTGGGCGTGGTAGGTCAA
59.255
61.111
0.00
0.00
0.00
3.18
113
114
3.315949
GGTGGGCGTGGTAGGTCA
61.316
66.667
0.00
0.00
0.00
4.02
114
115
3.310860
CTGGTGGGCGTGGTAGGTC
62.311
68.421
0.00
0.00
0.00
3.85
115
116
3.319198
CTGGTGGGCGTGGTAGGT
61.319
66.667
0.00
0.00
0.00
3.08
116
117
4.778143
GCTGGTGGGCGTGGTAGG
62.778
72.222
0.00
0.00
0.00
3.18
117
118
4.015406
TGCTGGTGGGCGTGGTAG
62.015
66.667
0.00
0.00
34.52
3.18
118
119
4.323477
GTGCTGGTGGGCGTGGTA
62.323
66.667
0.00
0.00
34.52
3.25
124
125
3.595758
GTGTGTGTGCTGGTGGGC
61.596
66.667
0.00
0.00
0.00
5.36
125
126
2.124362
TGTGTGTGTGCTGGTGGG
60.124
61.111
0.00
0.00
0.00
4.61
126
127
2.837883
GCTGTGTGTGTGCTGGTGG
61.838
63.158
0.00
0.00
0.00
4.61
127
128
2.717485
GCTGTGTGTGTGCTGGTG
59.283
61.111
0.00
0.00
0.00
4.17
128
129
2.516930
GGCTGTGTGTGTGCTGGT
60.517
61.111
0.00
0.00
0.00
4.00
129
130
0.606130
TATGGCTGTGTGTGTGCTGG
60.606
55.000
0.00
0.00
0.00
4.85
130
131
1.237533
TTATGGCTGTGTGTGTGCTG
58.762
50.000
0.00
0.00
0.00
4.41
131
132
2.086869
GATTATGGCTGTGTGTGTGCT
58.913
47.619
0.00
0.00
0.00
4.40
132
133
1.202065
CGATTATGGCTGTGTGTGTGC
60.202
52.381
0.00
0.00
0.00
4.57
133
134
1.202065
GCGATTATGGCTGTGTGTGTG
60.202
52.381
0.00
0.00
0.00
3.82
134
135
1.086696
GCGATTATGGCTGTGTGTGT
58.913
50.000
0.00
0.00
0.00
3.72
135
136
0.378257
GGCGATTATGGCTGTGTGTG
59.622
55.000
0.00
0.00
0.00
3.82
136
137
0.748005
GGGCGATTATGGCTGTGTGT
60.748
55.000
0.00
0.00
34.31
3.72
137
138
1.775039
CGGGCGATTATGGCTGTGTG
61.775
60.000
0.00
0.00
36.14
3.82
138
139
1.523711
CGGGCGATTATGGCTGTGT
60.524
57.895
0.00
0.00
36.14
3.72
139
140
2.896801
GCGGGCGATTATGGCTGTG
61.897
63.158
0.00
0.00
42.45
3.66
140
141
2.591715
GCGGGCGATTATGGCTGT
60.592
61.111
0.00
0.00
42.45
4.40
141
142
3.716006
CGCGGGCGATTATGGCTG
61.716
66.667
7.38
0.00
42.83
4.85
144
145
4.012895
GTGCGCGGGCGATTATGG
62.013
66.667
20.22
0.00
44.10
2.74
145
146
4.354212
CGTGCGCGGGCGATTATG
62.354
66.667
20.22
3.61
44.10
1.90
163
164
4.111016
TAGCGTCTGTCGGCGTGG
62.111
66.667
6.85
0.00
40.26
4.94
164
165
2.577112
CTAGCGTCTGTCGGCGTG
60.577
66.667
6.85
0.00
40.26
5.34
165
166
4.477975
GCTAGCGTCTGTCGGCGT
62.478
66.667
6.85
0.00
40.26
5.68
166
167
4.180946
AGCTAGCGTCTGTCGGCG
62.181
66.667
9.55
0.00
40.26
6.46
167
168
2.278271
GAGCTAGCGTCTGTCGGC
60.278
66.667
9.55
0.00
40.26
5.54
168
169
2.023461
CGAGCTAGCGTCTGTCGG
59.977
66.667
9.55
0.00
40.26
4.79
169
170
2.649349
GCGAGCTAGCGTCTGTCG
60.649
66.667
16.47
16.47
43.12
4.35
170
171
2.278271
GGCGAGCTAGCGTCTGTC
60.278
66.667
12.91
0.00
38.18
3.51
171
172
4.180946
CGGCGAGCTAGCGTCTGT
62.181
66.667
12.91
0.00
38.18
3.41
192
193
4.722700
CAAGGGAGGTGTGGGGCG
62.723
72.222
0.00
0.00
0.00
6.13
193
194
4.366684
CCAAGGGAGGTGTGGGGC
62.367
72.222
0.00
0.00
0.00
5.80
194
195
4.366684
GCCAAGGGAGGTGTGGGG
62.367
72.222
0.00
0.00
32.71
4.96
195
196
4.366684
GGCCAAGGGAGGTGTGGG
62.367
72.222
0.00
0.00
32.71
4.61
196
197
1.915078
CTAGGCCAAGGGAGGTGTGG
61.915
65.000
5.01
0.00
35.39
4.17
197
198
1.604378
CTAGGCCAAGGGAGGTGTG
59.396
63.158
5.01
0.00
0.00
3.82
198
199
2.301738
GCTAGGCCAAGGGAGGTGT
61.302
63.158
5.01
0.00
0.00
4.16
199
200
2.592308
GCTAGGCCAAGGGAGGTG
59.408
66.667
5.01
0.00
0.00
4.00
200
201
3.083997
CGCTAGGCCAAGGGAGGT
61.084
66.667
5.01
0.00
0.00
3.85
201
202
3.866582
CCGCTAGGCCAAGGGAGG
61.867
72.222
5.01
0.00
0.00
4.30
227
228
4.697756
TTTCGCGAGGCTGGGGTG
62.698
66.667
9.59
0.00
0.00
4.61
228
229
4.394712
CTTTCGCGAGGCTGGGGT
62.395
66.667
9.59
0.00
0.00
4.95
231
232
3.605749
TTCCCTTTCGCGAGGCTGG
62.606
63.158
9.59
9.26
35.37
4.85
232
233
2.047274
TTCCCTTTCGCGAGGCTG
60.047
61.111
9.59
0.00
35.37
4.85
233
234
1.255667
TACTTCCCTTTCGCGAGGCT
61.256
55.000
9.59
0.00
35.37
4.58
234
235
0.390735
TTACTTCCCTTTCGCGAGGC
60.391
55.000
9.59
0.00
35.37
4.70
235
236
1.933853
CATTACTTCCCTTTCGCGAGG
59.066
52.381
9.59
8.34
36.52
4.63
236
237
2.888594
TCATTACTTCCCTTTCGCGAG
58.111
47.619
9.59
0.00
0.00
5.03
237
238
3.259064
CTTCATTACTTCCCTTTCGCGA
58.741
45.455
3.71
3.71
0.00
5.87
238
239
2.223044
GCTTCATTACTTCCCTTTCGCG
60.223
50.000
0.00
0.00
0.00
5.87
239
240
2.223044
CGCTTCATTACTTCCCTTTCGC
60.223
50.000
0.00
0.00
0.00
4.70
240
241
3.000727
ACGCTTCATTACTTCCCTTTCG
58.999
45.455
0.00
0.00
0.00
3.46
241
242
3.374367
GGACGCTTCATTACTTCCCTTTC
59.626
47.826
0.00
0.00
0.00
2.62
242
243
3.344515
GGACGCTTCATTACTTCCCTTT
58.655
45.455
0.00
0.00
0.00
3.11
243
244
2.355818
GGGACGCTTCATTACTTCCCTT
60.356
50.000
0.00
0.00
40.40
3.95
244
245
1.209747
GGGACGCTTCATTACTTCCCT
59.790
52.381
0.00
0.00
40.40
4.20
245
246
1.664873
GGGACGCTTCATTACTTCCC
58.335
55.000
0.00
0.00
37.23
3.97
290
291
4.410400
CAACCCTCCCACCCTCGC
62.410
72.222
0.00
0.00
0.00
5.03
291
292
3.717294
CCAACCCTCCCACCCTCG
61.717
72.222
0.00
0.00
0.00
4.63
292
293
2.204090
TCCAACCCTCCCACCCTC
60.204
66.667
0.00
0.00
0.00
4.30
293
294
2.204151
CTCCAACCCTCCCACCCT
60.204
66.667
0.00
0.00
0.00
4.34
294
295
2.204090
TCTCCAACCCTCCCACCC
60.204
66.667
0.00
0.00
0.00
4.61
295
296
2.301738
CCTCTCCAACCCTCCCACC
61.302
68.421
0.00
0.00
0.00
4.61
296
297
2.301738
CCCTCTCCAACCCTCCCAC
61.302
68.421
0.00
0.00
0.00
4.61
297
298
2.124996
CCCTCTCCAACCCTCCCA
59.875
66.667
0.00
0.00
0.00
4.37
298
299
2.692741
CCCCTCTCCAACCCTCCC
60.693
72.222
0.00
0.00
0.00
4.30
299
300
2.692741
CCCCCTCTCCAACCCTCC
60.693
72.222
0.00
0.00
0.00
4.30
300
301
2.125225
ACCCCCTCTCCAACCCTC
59.875
66.667
0.00
0.00
0.00
4.30
301
302
2.204151
CACCCCCTCTCCAACCCT
60.204
66.667
0.00
0.00
0.00
4.34
302
303
3.339093
CCACCCCCTCTCCAACCC
61.339
72.222
0.00
0.00
0.00
4.11
303
304
2.160853
AACCACCCCCTCTCCAACC
61.161
63.158
0.00
0.00
0.00
3.77
304
305
1.074951
CAACCACCCCCTCTCCAAC
59.925
63.158
0.00
0.00
0.00
3.77
305
306
2.160171
CCAACCACCCCCTCTCCAA
61.160
63.158
0.00
0.00
0.00
3.53
306
307
2.531685
CCAACCACCCCCTCTCCA
60.532
66.667
0.00
0.00
0.00
3.86
307
308
4.048470
GCCAACCACCCCCTCTCC
62.048
72.222
0.00
0.00
0.00
3.71
308
309
2.936032
AGCCAACCACCCCCTCTC
60.936
66.667
0.00
0.00
0.00
3.20
309
310
2.936032
GAGCCAACCACCCCCTCT
60.936
66.667
0.00
0.00
0.00
3.69
310
311
3.256960
TGAGCCAACCACCCCCTC
61.257
66.667
0.00
0.00
0.00
4.30
311
312
3.260100
CTGAGCCAACCACCCCCT
61.260
66.667
0.00
0.00
0.00
4.79
319
320
3.741476
CTTGCCCGCTGAGCCAAC
61.741
66.667
0.00
0.00
0.00
3.77
324
325
2.244117
TAGAAGCCTTGCCCGCTGAG
62.244
60.000
0.00
0.00
36.47
3.35
440
441
3.882131
CCCCCAACTCGATGTGAAT
57.118
52.632
0.00
0.00
0.00
2.57
473
474
2.419436
CCTTTGTTGCCCCGTTCTTTTT
60.419
45.455
0.00
0.00
0.00
1.94
474
475
1.138069
CCTTTGTTGCCCCGTTCTTTT
59.862
47.619
0.00
0.00
0.00
2.27
488
489
1.331214
TCGTCGGTAGGAACCTTTGT
58.669
50.000
0.00
0.00
44.35
2.83
503
504
2.103042
GCAGACCTGTGGCATCGTC
61.103
63.158
0.00
0.00
0.00
4.20
507
508
2.360852
GCTGCAGACCTGTGGCAT
60.361
61.111
20.43
0.00
36.87
4.40
535
536
4.038642
TGATTTGTAACAAAACCAGCTCCC
59.961
41.667
0.00
0.00
0.00
4.30
631
632
1.471119
AGAAATGCACCATCAGCAGG
58.529
50.000
0.00
0.00
46.36
4.85
635
636
5.381174
TTCTCAAAGAAATGCACCATCAG
57.619
39.130
0.00
0.00
29.99
2.90
670
671
9.043079
GCCAGTAACTCCTAAAATATTACAGTC
57.957
37.037
0.00
0.00
0.00
3.51
686
687
5.735766
ACCAAATCTAGAAGCCAGTAACTC
58.264
41.667
0.00
0.00
0.00
3.01
701
702
9.646522
ATTATCCACTATGCTTTAACCAAATCT
57.353
29.630
0.00
0.00
0.00
2.40
705
706
8.815565
TTCATTATCCACTATGCTTTAACCAA
57.184
30.769
0.00
0.00
0.00
3.67
712
713
7.994911
TCACTTCATTCATTATCCACTATGCTT
59.005
33.333
0.00
0.00
0.00
3.91
713
714
7.512130
TCACTTCATTCATTATCCACTATGCT
58.488
34.615
0.00
0.00
0.00
3.79
754
755
4.649674
CCTATGTCTTCCTACAAGTGGCTA
59.350
45.833
0.00
0.00
32.02
3.93
769
770
6.485648
GCGTAAATTATGTTTCCCCTATGTCT
59.514
38.462
0.00
0.00
0.00
3.41
777
778
4.102649
GCAGTGCGTAAATTATGTTTCCC
58.897
43.478
0.00
0.00
0.00
3.97
792
793
2.474526
CGAGAATTAAAGTGGCAGTGCG
60.475
50.000
9.45
0.00
0.00
5.34
796
797
1.732259
ACGCGAGAATTAAAGTGGCAG
59.268
47.619
15.93
0.00
0.00
4.85
811
812
2.025898
TGTTGAGGATATACCACGCGA
58.974
47.619
15.93
0.00
42.04
5.87
814
815
4.024893
GCACAATGTTGAGGATATACCACG
60.025
45.833
0.00
0.00
42.04
4.94
854
855
5.659440
AACAAAGCCAATTAATCCGACAT
57.341
34.783
0.00
0.00
0.00
3.06
855
856
5.461032
AAACAAAGCCAATTAATCCGACA
57.539
34.783
0.00
0.00
0.00
4.35
905
906
2.946329
TGAGAAGAGACTCGGCATAGTC
59.054
50.000
9.12
9.12
45.20
2.59
912
913
2.752354
ACATGACTGAGAAGAGACTCGG
59.248
50.000
0.00
0.00
45.56
4.63
923
924
5.350504
AGGAAATCTACCACATGACTGAG
57.649
43.478
0.00
0.00
0.00
3.35
925
926
7.060383
AGATAGGAAATCTACCACATGACTG
57.940
40.000
0.00
0.00
0.00
3.51
939
940
5.128919
GGCACTGACAATGAGATAGGAAAT
58.871
41.667
0.00
0.00
0.00
2.17
943
944
2.171237
TGGGCACTGACAATGAGATAGG
59.829
50.000
0.00
0.00
0.00
2.57
1084
1085
5.718649
TTTCTGCATTCGTTAGCATCTAC
57.281
39.130
0.00
0.00
40.42
2.59
1104
1105
3.838795
CCAATCAGGCCGCATTTTT
57.161
47.368
0.00
0.00
0.00
1.94
1143
1144
3.733344
TAACATCAGAGCCGCGCCC
62.733
63.158
0.00
0.00
0.00
6.13
1237
1238
8.213812
CACAAGTTAATAGCCAAAAACAATTCG
58.786
33.333
0.00
0.00
0.00
3.34
1298
1299
1.271597
ACTTGAGTCCATCCAGGCAAC
60.272
52.381
0.00
0.00
37.29
4.17
1301
1302
1.457346
CAACTTGAGTCCATCCAGGC
58.543
55.000
0.00
0.00
37.29
4.85
1325
1326
4.727507
TCCTCAATCTCAGTGTTAGCTC
57.272
45.455
0.00
0.00
0.00
4.09
1372
1373
4.908730
GTGTTTGCCACAAACAACAAAAAG
59.091
37.500
23.18
0.00
43.92
2.27
1447
1448
8.055986
GCAAAAGCACAACAAGAACTTAATAAC
58.944
33.333
0.00
0.00
0.00
1.89
1496
1497
2.615869
GACCATCAGAGACTGCTTCAC
58.384
52.381
0.00
0.00
0.00
3.18
1564
1566
1.807142
GTTACTCAGCCTTGGTGCTTC
59.193
52.381
0.00
0.00
40.32
3.86
1565
1567
1.421646
AGTTACTCAGCCTTGGTGCTT
59.578
47.619
0.00
0.00
40.32
3.91
1567
1569
1.160137
CAGTTACTCAGCCTTGGTGC
58.840
55.000
0.00
0.00
0.00
5.01
1632
1637
1.265635
CTAGAGAGCAGATCCCGAACG
59.734
57.143
0.00
0.00
0.00
3.95
1637
1642
1.146982
AGGGACTAGAGAGCAGATCCC
59.853
57.143
0.00
0.00
45.34
3.85
1655
1660
1.798813
GGTGAAACGCTCAACTACAGG
59.201
52.381
0.00
0.00
38.87
4.00
1661
1666
1.852280
GCAAAAGGTGAAACGCTCAAC
59.148
47.619
0.00
0.00
42.69
3.18
1662
1667
1.748493
AGCAAAAGGTGAAACGCTCAA
59.252
42.857
0.00
0.00
38.12
3.02
1706
1713
5.643777
AGTTTACTTGATTTCCCATCAGACG
59.356
40.000
0.00
0.00
0.00
4.18
1711
1718
6.183360
GCCAGTAGTTTACTTGATTTCCCATC
60.183
42.308
0.00
0.00
36.76
3.51
1779
1786
3.076621
TGTGACAGCCTGAATGAATGAC
58.923
45.455
0.00
0.00
0.00
3.06
1790
1797
9.099071
AGATAATAATCTATCTTGTGACAGCCT
57.901
33.333
0.00
0.00
40.82
4.58
1797
1804
9.650539
CCAGGACAGATAATAATCTATCTTGTG
57.349
37.037
5.44
0.00
39.76
3.33
1798
1805
9.607333
TCCAGGACAGATAATAATCTATCTTGT
57.393
33.333
5.44
0.00
39.76
3.16
1818
1825
1.555075
GTGGTTGTAGATGCTCCAGGA
59.445
52.381
0.00
0.00
0.00
3.86
1819
1826
1.278985
TGTGGTTGTAGATGCTCCAGG
59.721
52.381
0.00
0.00
0.00
4.45
1820
1827
2.027745
AGTGTGGTTGTAGATGCTCCAG
60.028
50.000
0.00
0.00
0.00
3.86
1821
1828
1.977854
AGTGTGGTTGTAGATGCTCCA
59.022
47.619
0.00
0.00
0.00
3.86
1822
1829
2.770164
AGTGTGGTTGTAGATGCTCC
57.230
50.000
0.00
0.00
0.00
4.70
1823
1830
4.184629
CCTAAGTGTGGTTGTAGATGCTC
58.815
47.826
0.00
0.00
0.00
4.26
1824
1831
3.619979
GCCTAAGTGTGGTTGTAGATGCT
60.620
47.826
0.00
0.00
0.00
3.79
1825
1832
2.678336
GCCTAAGTGTGGTTGTAGATGC
59.322
50.000
0.00
0.00
0.00
3.91
1826
1833
3.937814
TGCCTAAGTGTGGTTGTAGATG
58.062
45.455
0.00
0.00
0.00
2.90
1827
1834
4.634012
TTGCCTAAGTGTGGTTGTAGAT
57.366
40.909
0.00
0.00
0.00
1.98
1828
1835
4.425180
TTTGCCTAAGTGTGGTTGTAGA
57.575
40.909
0.00
0.00
0.00
2.59
1829
1836
4.142902
CGATTTGCCTAAGTGTGGTTGTAG
60.143
45.833
0.00
0.00
0.00
2.74
1830
1837
3.749088
CGATTTGCCTAAGTGTGGTTGTA
59.251
43.478
0.00
0.00
0.00
2.41
1831
1838
2.552315
CGATTTGCCTAAGTGTGGTTGT
59.448
45.455
0.00
0.00
0.00
3.32
1832
1839
2.552315
ACGATTTGCCTAAGTGTGGTTG
59.448
45.455
0.00
0.00
0.00
3.77
1833
1840
2.812011
GACGATTTGCCTAAGTGTGGTT
59.188
45.455
0.00
0.00
0.00
3.67
1834
1841
2.423577
GACGATTTGCCTAAGTGTGGT
58.576
47.619
0.00
0.00
0.00
4.16
1835
1842
1.737793
GGACGATTTGCCTAAGTGTGG
59.262
52.381
0.00
0.00
0.00
4.17
1836
1843
1.737793
GGGACGATTTGCCTAAGTGTG
59.262
52.381
0.00
0.00
31.27
3.82
1837
1844
1.339727
GGGGACGATTTGCCTAAGTGT
60.340
52.381
0.00
0.00
35.51
3.55
1838
1845
1.065418
AGGGGACGATTTGCCTAAGTG
60.065
52.381
0.00
0.00
35.51
3.16
1839
1846
1.209747
GAGGGGACGATTTGCCTAAGT
59.790
52.381
0.00
0.00
35.51
2.24
1840
1847
1.209504
TGAGGGGACGATTTGCCTAAG
59.790
52.381
0.00
0.00
35.51
2.18
1841
1848
1.281419
TGAGGGGACGATTTGCCTAA
58.719
50.000
0.00
0.00
35.51
2.69
1842
1849
1.507140
ATGAGGGGACGATTTGCCTA
58.493
50.000
0.00
0.00
35.51
3.93
1843
1850
1.507140
TATGAGGGGACGATTTGCCT
58.493
50.000
0.00
0.00
35.51
4.75
1844
1851
2.154462
CATATGAGGGGACGATTTGCC
58.846
52.381
0.00
0.00
33.96
4.52
1845
1852
1.537202
GCATATGAGGGGACGATTTGC
59.463
52.381
6.97
0.00
0.00
3.68
1846
1853
2.154462
GGCATATGAGGGGACGATTTG
58.846
52.381
6.97
0.00
0.00
2.32
1847
1854
1.073923
GGGCATATGAGGGGACGATTT
59.926
52.381
6.97
0.00
0.00
2.17
1848
1855
0.693049
GGGCATATGAGGGGACGATT
59.307
55.000
6.97
0.00
0.00
3.34
1849
1856
0.178891
AGGGCATATGAGGGGACGAT
60.179
55.000
6.97
0.00
0.00
3.73
1850
1857
0.399949
AAGGGCATATGAGGGGACGA
60.400
55.000
6.97
0.00
0.00
4.20
1851
1858
0.035458
GAAGGGCATATGAGGGGACG
59.965
60.000
6.97
0.00
0.00
4.79
1852
1859
1.140312
TGAAGGGCATATGAGGGGAC
58.860
55.000
6.97
0.00
0.00
4.46
1935
1942
7.103641
TGAACTTTCTCCATAGCTCGTTAATT
58.896
34.615
0.00
0.00
0.00
1.40
1936
1943
6.640518
TGAACTTTCTCCATAGCTCGTTAAT
58.359
36.000
0.00
0.00
0.00
1.40
1938
1945
5.654603
TGAACTTTCTCCATAGCTCGTTA
57.345
39.130
0.00
0.00
0.00
3.18
1939
1946
4.537135
TGAACTTTCTCCATAGCTCGTT
57.463
40.909
0.00
0.00
0.00
3.85
1956
2031
1.133025
CAAGGGCGACAATGGATGAAC
59.867
52.381
0.00
0.00
0.00
3.18
1968
2043
2.281484
GGACAAGTGCAAGGGCGA
60.281
61.111
0.00
0.00
45.35
5.54
2003
2078
5.335269
CGGTCTCTATATCATCTTCAAGCGT
60.335
44.000
0.00
0.00
0.00
5.07
2027
2102
1.425428
CGCAAAACAGATCCGCCTC
59.575
57.895
0.00
0.00
0.00
4.70
2034
2109
0.962356
CCTCCAGGCGCAAAACAGAT
60.962
55.000
10.83
0.00
0.00
2.90
2047
2122
1.215382
TCGCATTCGACACCTCCAG
59.785
57.895
0.00
0.00
40.21
3.86
2064
2139
3.741856
GGAAGAAAGAGAAGAACGGTGTC
59.258
47.826
0.00
0.00
0.00
3.67
2173
2248
4.442706
AGGATATTCGTGCTTGTAACCTG
58.557
43.478
0.00
0.00
0.00
4.00
2186
2261
3.134458
GACAAGGCCAGAAGGATATTCG
58.866
50.000
5.01
0.00
36.89
3.34
2188
2263
2.158755
CGGACAAGGCCAGAAGGATATT
60.159
50.000
5.01
0.00
36.89
1.28
2244
2320
3.512516
GAGATGGCCAAGGTGCGC
61.513
66.667
10.96
0.00
0.00
6.09
2248
2324
0.033796
CATGGTGAGATGGCCAAGGT
60.034
55.000
10.96
0.00
38.38
3.50
2254
2330
2.123428
GTGCCCATGGTGAGATGGC
61.123
63.158
11.73
5.43
41.59
4.40
2257
2333
0.038166
AAACGTGCCCATGGTGAGAT
59.962
50.000
11.73
0.00
0.00
2.75
2280
2356
3.219281
GGTGTTAGGCTTCAAGTTTGGA
58.781
45.455
0.00
0.00
0.00
3.53
2288
2364
1.373435
CCCACGGTGTTAGGCTTCA
59.627
57.895
7.45
0.00
0.00
3.02
2304
2380
2.364186
CATTGGGCCCTTGTCCCC
60.364
66.667
25.70
0.00
43.24
4.81
2308
2384
2.284112
CCTGCATTGGGCCCTTGT
60.284
61.111
25.70
5.74
43.89
3.16
2309
2385
3.078836
CCCTGCATTGGGCCCTTG
61.079
66.667
25.70
21.23
43.89
3.61
2324
2400
1.148273
TGTGTGTCTGAGCAACCCC
59.852
57.895
0.00
0.00
0.00
4.95
2330
2406
1.506493
CTTGAGGTGTGTGTCTGAGC
58.494
55.000
0.00
0.00
0.00
4.26
2364
2467
2.631696
GATTGAACGGCGGTGATGCG
62.632
60.000
13.24
0.00
35.06
4.73
2365
2468
1.062525
GATTGAACGGCGGTGATGC
59.937
57.895
13.24
0.00
0.00
3.91
2376
2479
2.369394
CCAGTGGGGCTTAGATTGAAC
58.631
52.381
0.00
0.00
0.00
3.18
2403
2506
4.520846
CATGGCTTCGTTCGCGCC
62.521
66.667
0.00
14.72
44.02
6.53
2404
2507
3.788766
ACATGGCTTCGTTCGCGC
61.789
61.111
0.00
0.00
41.05
6.86
2410
2513
0.108585
ACTCAACCACATGGCTTCGT
59.891
50.000
0.00
0.00
39.32
3.85
2436
2539
2.801342
GCTAGCTTTCTGTCGATCCCAG
60.801
54.545
7.70
0.00
0.00
4.45
2440
2543
2.586258
TGGCTAGCTTTCTGTCGATC
57.414
50.000
15.72
0.00
0.00
3.69
2442
2545
2.831685
TTTGGCTAGCTTTCTGTCGA
57.168
45.000
15.72
0.00
0.00
4.20
2447
2550
4.039603
ACTTGGATTTGGCTAGCTTTCT
57.960
40.909
15.72
0.00
0.00
2.52
2454
2557
3.134574
ACGTCAACTTGGATTTGGCTA
57.865
42.857
0.00
0.00
0.00
3.93
2457
2560
4.062293
TGAGTACGTCAACTTGGATTTGG
58.938
43.478
0.00
0.00
29.64
3.28
2460
2563
4.866508
TCTGAGTACGTCAACTTGGATT
57.133
40.909
0.00
0.00
33.60
3.01
2478
2581
2.283298
ACATTGTAGGCAGCGAATCTG
58.717
47.619
0.00
0.00
45.62
2.90
2480
2583
2.677836
TCAACATTGTAGGCAGCGAATC
59.322
45.455
0.00
0.00
0.00
2.52
2492
2595
5.867903
TCTTGGGTCATTTTCAACATTGT
57.132
34.783
0.00
0.00
0.00
2.71
2499
2602
4.111255
TGGTGATCTTGGGTCATTTTCA
57.889
40.909
0.00
0.00
0.00
2.69
2510
2613
3.057033
CCAGCTCCTTTTTGGTGATCTTG
60.057
47.826
0.00
0.00
37.07
3.02
2523
2626
2.674380
CGCTTTGCCCAGCTCCTT
60.674
61.111
2.98
0.00
37.68
3.36
2539
2642
1.302511
CCACCCCACTTTCAGTCCG
60.303
63.158
0.00
0.00
0.00
4.79
2543
2646
0.326264
CCTCTCCACCCCACTTTCAG
59.674
60.000
0.00
0.00
0.00
3.02
2546
2649
1.360393
TTGCCTCTCCACCCCACTTT
61.360
55.000
0.00
0.00
0.00
2.66
2550
2653
0.486879
ATTTTTGCCTCTCCACCCCA
59.513
50.000
0.00
0.00
0.00
4.96
2560
2663
1.139439
AACCCTTGCCATTTTTGCCT
58.861
45.000
0.00
0.00
0.00
4.75
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.