Multiple sequence alignment - TraesCS3B01G429500
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
TraesCS3B01G429500
chr3B
100.000
3456
0
0
1
3456
668143873
668147328
0.000000e+00
6383.0
1
TraesCS3B01G429500
chr3B
91.608
143
8
3
2848
2986
668146643
668146785
9.790000e-46
195.0
2
TraesCS3B01G429500
chr3B
91.608
143
8
3
2771
2913
668146720
668146858
9.790000e-46
195.0
3
TraesCS3B01G429500
chr3D
96.163
2606
50
13
399
2986
506200686
506203259
0.000000e+00
4213.0
4
TraesCS3B01G429500
chr3D
93.886
687
36
5
2771
3456
506203122
506203803
0.000000e+00
1031.0
5
TraesCS3B01G429500
chr3D
89.757
371
28
6
1
369
20707021
20707383
1.880000e-127
466.0
6
TraesCS3B01G429500
chr3D
90.909
143
9
3
2848
2986
506203045
506203187
4.550000e-44
189.0
7
TraesCS3B01G429500
chr3D
89.510
143
10
4
2771
2913
506203195
506203332
3.540000e-40
176.0
8
TraesCS3B01G429500
chr3D
78.261
138
12
13
278
406
238592611
238592483
4.780000e-09
73.1
9
TraesCS3B01G429500
chr2B
88.943
407
39
3
1
402
605013278
605012873
6.660000e-137
497.0
10
TraesCS3B01G429500
chr2B
90.054
372
26
9
1
369
693858731
693858368
4.040000e-129
472.0
11
TraesCS3B01G429500
chr2D
90.984
366
33
0
2
367
188896147
188895782
8.620000e-136
494.0
12
TraesCS3B01G429500
chr4D
90.710
366
30
2
2
367
47691326
47690965
5.190000e-133
484.0
13
TraesCS3B01G429500
chr4D
87.302
63
5
2
348
407
469601489
469601427
6.190000e-08
69.4
14
TraesCS3B01G429500
chr5D
89.918
367
33
2
1
367
294225681
294225319
1.450000e-128
470.0
15
TraesCS3B01G429500
chr5D
89.946
368
31
4
1
367
338496083
338496445
1.450000e-128
470.0
16
TraesCS3B01G429500
chr6B
87.871
404
41
7
2
400
124626741
124627141
5.220000e-128
468.0
17
TraesCS3B01G429500
chr5B
86.881
404
46
5
1
400
212629088
212629488
2.450000e-121
446.0
18
TraesCS3B01G429500
chr4A
90.000
60
3
3
350
406
100671535
100671594
1.330000e-09
75.0
19
TraesCS3B01G429500
chr7A
89.655
58
3
3
346
400
696010696
696010753
1.720000e-08
71.3
20
TraesCS3B01G429500
chr5A
89.655
58
3
2
348
402
53188870
53188813
1.720000e-08
71.3
21
TraesCS3B01G429500
chr4B
87.097
62
5
2
348
406
427358824
427358885
2.230000e-07
67.6
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
TraesCS3B01G429500
chr3B
668143873
668147328
3455
False
2257.666667
6383
94.405333
1
3456
3
chr3B.!!$F1
3455
1
TraesCS3B01G429500
chr3D
506200686
506203803
3117
False
1402.250000
4213
92.617000
399
3456
4
chr3D.!!$F2
3057
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
289
290
0.030235
GCCGTTAAAATGGATCGGGC
59.970
55.000
5.11
0.0
41.24
6.13
F
290
291
0.306533
CCGTTAAAATGGATCGGGCG
59.693
55.000
0.00
0.0
37.24
6.13
F
294
295
0.878523
TAAAATGGATCGGGCGAGCG
60.879
55.000
0.00
0.0
0.00
5.03
F
1100
1119
1.005037
TGATCGCGGATATGGTGGC
60.005
57.895
6.13
0.0
0.00
5.01
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
1781
1800
0.397254
GGACGAGGAAGATGAGGGGA
60.397
60.000
0.0
0.0
0.00
4.81
R
1782
1801
0.687757
TGGACGAGGAAGATGAGGGG
60.688
60.000
0.0
0.0
0.00
4.79
R
1810
1829
1.153349
GTCCCTGAGGATGTTCGGC
60.153
63.158
0.0
0.0
46.41
5.54
R
2491
2510
0.108615
AAGAGTGAGAACCGATGCCG
60.109
55.000
0.0
0.0
0.00
5.69
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
23
24
3.941836
GGCTTACATCGCCGCTGC
61.942
66.667
0.00
0.00
37.87
5.25
24
25
3.195002
GCTTACATCGCCGCTGCA
61.195
61.111
0.00
0.00
37.32
4.41
25
26
2.537560
GCTTACATCGCCGCTGCAT
61.538
57.895
0.00
0.00
37.32
3.96
26
27
1.277739
CTTACATCGCCGCTGCATG
59.722
57.895
0.00
6.03
37.32
4.06
27
28
2.109538
CTTACATCGCCGCTGCATGG
62.110
60.000
13.79
0.79
37.32
3.66
28
29
2.585791
TTACATCGCCGCTGCATGGA
62.586
55.000
9.21
5.73
37.32
3.41
29
30
2.585791
TACATCGCCGCTGCATGGAA
62.586
55.000
9.21
0.00
37.32
3.53
30
31
3.204827
ATCGCCGCTGCATGGAAC
61.205
61.111
9.21
0.00
37.32
3.62
45
46
4.571243
AACACAACGTTCCCCTGG
57.429
55.556
0.00
0.00
29.27
4.45
46
47
1.152839
AACACAACGTTCCCCTGGG
60.153
57.895
5.50
5.50
29.27
4.45
47
48
2.983592
CACAACGTTCCCCTGGGC
60.984
66.667
7.39
0.00
34.68
5.36
48
49
4.280019
ACAACGTTCCCCTGGGCC
62.280
66.667
7.39
0.00
34.68
5.80
73
74
3.554692
CGCCGACGCTCATCAACC
61.555
66.667
0.00
0.00
0.00
3.77
74
75
2.125512
GCCGACGCTCATCAACCT
60.126
61.111
0.00
0.00
0.00
3.50
75
76
2.167861
GCCGACGCTCATCAACCTC
61.168
63.158
0.00
0.00
0.00
3.85
76
77
1.215382
CCGACGCTCATCAACCTCA
59.785
57.895
0.00
0.00
0.00
3.86
77
78
1.078759
CCGACGCTCATCAACCTCAC
61.079
60.000
0.00
0.00
0.00
3.51
78
79
1.078759
CGACGCTCATCAACCTCACC
61.079
60.000
0.00
0.00
0.00
4.02
79
80
1.078759
GACGCTCATCAACCTCACCG
61.079
60.000
0.00
0.00
0.00
4.94
80
81
1.215382
CGCTCATCAACCTCACCGA
59.785
57.895
0.00
0.00
0.00
4.69
81
82
1.078759
CGCTCATCAACCTCACCGAC
61.079
60.000
0.00
0.00
0.00
4.79
82
83
0.741221
GCTCATCAACCTCACCGACC
60.741
60.000
0.00
0.00
0.00
4.79
83
84
0.108138
CTCATCAACCTCACCGACCC
60.108
60.000
0.00
0.00
0.00
4.46
84
85
1.078426
CATCAACCTCACCGACCCC
60.078
63.158
0.00
0.00
0.00
4.95
85
86
2.656069
ATCAACCTCACCGACCCCG
61.656
63.158
0.00
0.00
0.00
5.73
86
87
3.307906
CAACCTCACCGACCCCGA
61.308
66.667
0.00
0.00
38.22
5.14
87
88
2.995574
AACCTCACCGACCCCGAG
60.996
66.667
0.00
0.00
38.22
4.63
90
91
3.450115
CTCACCGACCCCGAGGAC
61.450
72.222
0.00
0.00
38.22
3.85
96
97
3.295800
GACCCCGAGGACGACAAT
58.704
61.111
0.00
0.00
42.66
2.71
97
98
1.153628
GACCCCGAGGACGACAATG
60.154
63.158
0.00
0.00
42.66
2.82
98
99
1.601419
GACCCCGAGGACGACAATGA
61.601
60.000
0.00
0.00
42.66
2.57
99
100
1.153628
CCCCGAGGACGACAATGAC
60.154
63.158
0.00
0.00
42.66
3.06
100
101
1.516386
CCCGAGGACGACAATGACG
60.516
63.158
3.29
3.29
42.66
4.35
101
102
1.504900
CCGAGGACGACAATGACGA
59.495
57.895
12.41
0.00
42.66
4.20
102
103
0.797249
CCGAGGACGACAATGACGAC
60.797
60.000
12.41
5.57
42.66
4.34
103
104
0.109919
CGAGGACGACAATGACGACA
60.110
55.000
12.41
0.00
42.66
4.35
104
105
1.664874
CGAGGACGACAATGACGACAA
60.665
52.381
12.41
0.00
42.66
3.18
105
106
1.719780
GAGGACGACAATGACGACAAC
59.280
52.381
12.41
0.61
34.70
3.32
106
107
0.433492
GGACGACAATGACGACAACG
59.567
55.000
12.41
0.00
45.75
4.10
107
108
0.179282
GACGACAATGACGACAACGC
60.179
55.000
12.41
0.00
43.96
4.84
108
109
1.129809
CGACAATGACGACAACGCC
59.870
57.895
0.00
0.00
43.96
5.68
109
110
1.282248
CGACAATGACGACAACGCCT
61.282
55.000
0.00
0.00
43.96
5.52
110
111
1.705256
GACAATGACGACAACGCCTA
58.295
50.000
0.00
0.00
43.96
3.93
111
112
2.063266
GACAATGACGACAACGCCTAA
58.937
47.619
0.00
0.00
43.96
2.69
112
113
2.066262
ACAATGACGACAACGCCTAAG
58.934
47.619
0.00
0.00
43.96
2.18
113
114
1.393539
CAATGACGACAACGCCTAAGG
59.606
52.381
0.00
0.00
43.96
2.69
114
115
0.739813
ATGACGACAACGCCTAAGGC
60.740
55.000
0.00
0.00
46.75
4.35
139
140
4.865761
GCATCGCGTCGCCTGGTA
62.866
66.667
12.44
0.00
0.00
3.25
140
141
2.655364
CATCGCGTCGCCTGGTAG
60.655
66.667
12.44
0.00
0.00
3.18
141
142
3.138798
ATCGCGTCGCCTGGTAGT
61.139
61.111
12.44
0.00
0.00
2.73
142
143
2.707849
ATCGCGTCGCCTGGTAGTT
61.708
57.895
12.44
0.00
0.00
2.24
143
144
1.378882
ATCGCGTCGCCTGGTAGTTA
61.379
55.000
12.44
0.00
0.00
2.24
144
145
1.585521
CGCGTCGCCTGGTAGTTAG
60.586
63.158
12.44
0.00
0.00
2.34
145
146
1.226888
GCGTCGCCTGGTAGTTAGG
60.227
63.158
5.75
0.00
38.39
2.69
146
147
1.941999
GCGTCGCCTGGTAGTTAGGT
61.942
60.000
5.75
0.00
37.64
3.08
147
148
0.529378
CGTCGCCTGGTAGTTAGGTT
59.471
55.000
0.00
0.00
37.64
3.50
148
149
1.734707
CGTCGCCTGGTAGTTAGGTTG
60.735
57.143
0.00
0.00
37.64
3.77
149
150
1.274447
GTCGCCTGGTAGTTAGGTTGT
59.726
52.381
0.00
0.00
37.64
3.32
150
151
1.972795
TCGCCTGGTAGTTAGGTTGTT
59.027
47.619
0.00
0.00
37.64
2.83
151
152
2.369532
TCGCCTGGTAGTTAGGTTGTTT
59.630
45.455
0.00
0.00
37.64
2.83
152
153
3.143728
CGCCTGGTAGTTAGGTTGTTTT
58.856
45.455
0.00
0.00
37.64
2.43
153
154
3.566742
CGCCTGGTAGTTAGGTTGTTTTT
59.433
43.478
0.00
0.00
37.64
1.94
154
155
4.756135
CGCCTGGTAGTTAGGTTGTTTTTA
59.244
41.667
0.00
0.00
37.64
1.52
155
156
5.239087
CGCCTGGTAGTTAGGTTGTTTTTAA
59.761
40.000
0.00
0.00
37.64
1.52
156
157
6.072342
CGCCTGGTAGTTAGGTTGTTTTTAAT
60.072
38.462
0.00
0.00
37.64
1.40
157
158
7.522562
CGCCTGGTAGTTAGGTTGTTTTTAATT
60.523
37.037
0.00
0.00
37.64
1.40
158
159
8.145767
GCCTGGTAGTTAGGTTGTTTTTAATTT
58.854
33.333
0.00
0.00
37.64
1.82
159
160
9.687210
CCTGGTAGTTAGGTTGTTTTTAATTTC
57.313
33.333
0.00
0.00
0.00
2.17
179
180
8.980143
AATTTCTTTTAATGGTAATGTGGACG
57.020
30.769
0.00
0.00
0.00
4.79
180
181
5.554822
TCTTTTAATGGTAATGTGGACGC
57.445
39.130
0.00
0.00
0.00
5.19
181
182
4.093703
TCTTTTAATGGTAATGTGGACGCG
59.906
41.667
3.53
3.53
0.00
6.01
182
183
2.676632
TAATGGTAATGTGGACGCGT
57.323
45.000
13.85
13.85
0.00
6.01
183
184
1.083489
AATGGTAATGTGGACGCGTG
58.917
50.000
20.70
0.00
0.00
5.34
184
185
0.742990
ATGGTAATGTGGACGCGTGG
60.743
55.000
20.70
0.00
0.00
4.94
185
186
1.079681
GGTAATGTGGACGCGTGGA
60.080
57.895
20.70
0.00
0.00
4.02
186
187
1.356527
GGTAATGTGGACGCGTGGAC
61.357
60.000
20.70
13.83
0.00
4.02
187
188
0.389426
GTAATGTGGACGCGTGGACT
60.389
55.000
20.70
0.02
0.00
3.85
188
189
0.108992
TAATGTGGACGCGTGGACTC
60.109
55.000
20.70
8.41
0.00
3.36
189
190
1.816863
AATGTGGACGCGTGGACTCT
61.817
55.000
20.70
1.77
0.00
3.24
190
191
2.126424
GTGGACGCGTGGACTCTC
60.126
66.667
20.70
0.00
0.00
3.20
191
192
3.733960
TGGACGCGTGGACTCTCG
61.734
66.667
20.70
0.00
0.00
4.04
200
201
4.516195
GGACTCTCGCCGGCCTTC
62.516
72.222
23.46
9.81
0.00
3.46
201
202
4.516195
GACTCTCGCCGGCCTTCC
62.516
72.222
23.46
1.23
0.00
3.46
203
204
4.521062
CTCTCGCCGGCCTTCCTG
62.521
72.222
23.46
5.48
0.00
3.86
213
214
2.674754
CCTTCCTGGCCGGCTTTA
59.325
61.111
28.56
12.39
0.00
1.85
214
215
1.001393
CCTTCCTGGCCGGCTTTAA
60.001
57.895
28.56
14.43
0.00
1.52
215
216
0.395724
CCTTCCTGGCCGGCTTTAAT
60.396
55.000
28.56
0.00
0.00
1.40
216
217
0.740737
CTTCCTGGCCGGCTTTAATG
59.259
55.000
28.56
9.45
0.00
1.90
217
218
0.039035
TTCCTGGCCGGCTTTAATGT
59.961
50.000
28.56
0.00
0.00
2.71
218
219
0.039035
TCCTGGCCGGCTTTAATGTT
59.961
50.000
28.56
0.00
0.00
2.71
219
220
0.894835
CCTGGCCGGCTTTAATGTTT
59.105
50.000
28.56
0.00
0.00
2.83
220
221
2.096248
CCTGGCCGGCTTTAATGTTTA
58.904
47.619
28.56
0.00
0.00
2.01
221
222
2.494073
CCTGGCCGGCTTTAATGTTTAA
59.506
45.455
28.56
0.00
0.00
1.52
222
223
3.132111
CCTGGCCGGCTTTAATGTTTAAT
59.868
43.478
28.56
0.00
0.00
1.40
223
224
4.382577
CCTGGCCGGCTTTAATGTTTAATT
60.383
41.667
28.56
0.00
0.00
1.40
224
225
5.163499
CCTGGCCGGCTTTAATGTTTAATTA
60.163
40.000
28.56
0.00
0.00
1.40
225
226
6.282199
TGGCCGGCTTTAATGTTTAATTAA
57.718
33.333
28.56
0.00
0.00
1.40
226
227
6.334202
TGGCCGGCTTTAATGTTTAATTAAG
58.666
36.000
28.56
0.00
0.00
1.85
227
228
6.071278
TGGCCGGCTTTAATGTTTAATTAAGT
60.071
34.615
28.56
0.00
0.00
2.24
228
229
6.814644
GGCCGGCTTTAATGTTTAATTAAGTT
59.185
34.615
28.56
0.00
0.00
2.66
229
230
7.201487
GGCCGGCTTTAATGTTTAATTAAGTTG
60.201
37.037
28.56
0.00
0.00
3.16
230
231
7.329962
GCCGGCTTTAATGTTTAATTAAGTTGT
59.670
33.333
22.15
0.00
0.00
3.32
231
232
9.198837
CCGGCTTTAATGTTTAATTAAGTTGTT
57.801
29.630
0.00
0.00
0.00
2.83
252
253
9.823098
GTTGTTTTCATTTTAAATATGCATGCA
57.177
25.926
25.04
25.04
0.00
3.96
253
254
9.823098
TTGTTTTCATTTTAAATATGCATGCAC
57.177
25.926
25.37
4.19
0.00
4.57
254
255
8.996271
TGTTTTCATTTTAAATATGCATGCACA
58.004
25.926
25.37
13.37
0.00
4.57
255
256
9.480538
GTTTTCATTTTAAATATGCATGCACAG
57.519
29.630
25.37
0.00
0.00
3.66
256
257
8.774890
TTTCATTTTAAATATGCATGCACAGT
57.225
26.923
25.37
8.19
0.00
3.55
257
258
8.774890
TTCATTTTAAATATGCATGCACAGTT
57.225
26.923
25.37
20.49
0.00
3.16
258
259
8.774890
TCATTTTAAATATGCATGCACAGTTT
57.225
26.923
25.37
23.43
0.00
2.66
259
260
9.217278
TCATTTTAAATATGCATGCACAGTTTT
57.783
25.926
25.37
20.28
0.00
2.43
260
261
9.828852
CATTTTAAATATGCATGCACAGTTTTT
57.171
25.926
25.37
18.65
0.00
1.94
276
277
3.728474
TTTTTGTCGGCGCCGTTA
58.272
50.000
44.16
31.76
40.74
3.18
277
278
2.020131
TTTTTGTCGGCGCCGTTAA
58.980
47.368
44.16
34.85
40.74
2.01
278
279
0.379669
TTTTTGTCGGCGCCGTTAAA
59.620
45.000
44.16
37.50
40.74
1.52
279
280
0.379669
TTTTGTCGGCGCCGTTAAAA
59.620
45.000
44.16
39.80
40.74
1.52
280
281
0.592148
TTTGTCGGCGCCGTTAAAAT
59.408
45.000
44.16
0.00
40.74
1.82
281
282
0.110147
TTGTCGGCGCCGTTAAAATG
60.110
50.000
44.16
18.00
40.74
2.32
282
283
1.226184
GTCGGCGCCGTTAAAATGG
60.226
57.895
44.16
17.22
40.74
3.16
283
284
1.375652
TCGGCGCCGTTAAAATGGA
60.376
52.632
44.16
22.53
40.74
3.41
284
285
0.745128
TCGGCGCCGTTAAAATGGAT
60.745
50.000
44.16
0.00
40.74
3.41
285
286
0.316689
CGGCGCCGTTAAAATGGATC
60.317
55.000
39.71
0.00
37.24
3.36
286
287
0.316689
GGCGCCGTTAAAATGGATCG
60.317
55.000
12.58
1.50
37.24
3.69
287
288
0.316689
GCGCCGTTAAAATGGATCGG
60.317
55.000
5.11
0.00
43.37
4.18
288
289
0.306533
CGCCGTTAAAATGGATCGGG
59.693
55.000
5.11
0.00
41.24
5.14
289
290
0.030235
GCCGTTAAAATGGATCGGGC
59.970
55.000
5.11
0.00
41.24
6.13
290
291
0.306533
CCGTTAAAATGGATCGGGCG
59.693
55.000
0.00
0.00
37.24
6.13
291
292
1.292061
CGTTAAAATGGATCGGGCGA
58.708
50.000
0.00
0.00
0.00
5.54
292
293
1.260561
CGTTAAAATGGATCGGGCGAG
59.739
52.381
0.00
0.00
0.00
5.03
293
294
1.002792
GTTAAAATGGATCGGGCGAGC
60.003
52.381
0.00
0.00
0.00
5.03
294
295
0.878523
TAAAATGGATCGGGCGAGCG
60.879
55.000
0.00
0.00
0.00
5.03
295
296
2.869503
AAAATGGATCGGGCGAGCGT
62.870
55.000
0.00
0.00
0.00
5.07
296
297
2.869503
AAATGGATCGGGCGAGCGTT
62.870
55.000
0.00
0.00
0.00
4.84
297
298
4.812476
TGGATCGGGCGAGCGTTG
62.812
66.667
0.00
0.00
0.00
4.10
315
316
4.501714
GGCGCATACGTCGACCCA
62.502
66.667
10.83
0.00
42.83
4.51
316
317
2.507547
GCGCATACGTCGACCCAA
60.508
61.111
10.58
0.00
42.83
4.12
317
318
2.095847
GCGCATACGTCGACCCAAA
61.096
57.895
10.58
0.00
42.83
3.28
318
319
1.705727
CGCATACGTCGACCCAAAC
59.294
57.895
10.58
0.00
33.53
2.93
319
320
1.705727
GCATACGTCGACCCAAACG
59.294
57.895
10.58
0.00
44.22
3.60
320
321
1.705727
CATACGTCGACCCAAACGC
59.294
57.895
10.58
0.00
42.47
4.84
321
322
1.802715
ATACGTCGACCCAAACGCG
60.803
57.895
10.58
3.53
42.47
6.01
322
323
2.198906
ATACGTCGACCCAAACGCGA
62.199
55.000
15.93
0.00
42.47
5.87
323
324
2.399511
TACGTCGACCCAAACGCGAA
62.400
55.000
15.93
0.00
42.47
4.70
324
325
2.587679
CGTCGACCCAAACGCGAAA
61.588
57.895
15.93
0.00
35.66
3.46
325
326
1.203313
GTCGACCCAAACGCGAAAG
59.797
57.895
15.93
0.46
35.66
2.62
338
339
3.621520
GAAAGCGGACGTTCGTGT
58.378
55.556
19.12
2.35
0.00
4.49
339
340
1.485943
GAAAGCGGACGTTCGTGTC
59.514
57.895
19.12
9.03
38.17
3.67
345
346
3.103911
GACGTTCGTGTCCGCCTG
61.104
66.667
1.74
0.00
32.61
4.85
346
347
3.547249
GACGTTCGTGTCCGCCTGA
62.547
63.158
1.74
0.00
32.61
3.86
347
348
3.103911
CGTTCGTGTCCGCCTGAC
61.104
66.667
0.00
0.00
44.72
3.51
348
349
2.737376
GTTCGTGTCCGCCTGACC
60.737
66.667
0.00
0.00
43.78
4.02
349
350
4.351938
TTCGTGTCCGCCTGACCG
62.352
66.667
0.00
3.07
43.78
4.79
351
352
4.129737
CGTGTCCGCCTGACCGAT
62.130
66.667
0.00
0.00
43.78
4.18
352
353
2.202756
GTGTCCGCCTGACCGATC
60.203
66.667
0.00
0.00
43.78
3.69
353
354
3.458163
TGTCCGCCTGACCGATCC
61.458
66.667
0.00
0.00
43.78
3.36
354
355
3.148279
GTCCGCCTGACCGATCCT
61.148
66.667
0.00
0.00
38.09
3.24
355
356
1.826921
GTCCGCCTGACCGATCCTA
60.827
63.158
0.00
0.00
38.09
2.94
356
357
1.076559
TCCGCCTGACCGATCCTAA
60.077
57.895
0.00
0.00
0.00
2.69
357
358
1.067582
CCGCCTGACCGATCCTAAC
59.932
63.158
0.00
0.00
0.00
2.34
358
359
1.299165
CGCCTGACCGATCCTAACG
60.299
63.158
0.00
0.00
0.00
3.18
383
384
1.449726
AAAACTCCGTTTGGGTCGGC
61.450
55.000
0.00
0.00
46.49
5.54
384
385
3.837570
AACTCCGTTTGGGTCGGCC
62.838
63.158
0.00
0.00
46.49
6.13
394
395
4.324991
GGTCGGCCCGTTGGAGTT
62.325
66.667
1.63
0.00
0.00
3.01
395
396
3.047877
GTCGGCCCGTTGGAGTTG
61.048
66.667
1.63
0.00
0.00
3.16
502
506
6.349611
CCACAAACATATGGAGAAAGGAAGTG
60.350
42.308
7.80
0.00
38.34
3.16
503
507
5.711976
ACAAACATATGGAGAAAGGAAGTGG
59.288
40.000
7.80
0.00
0.00
4.00
504
508
5.779241
AACATATGGAGAAAGGAAGTGGA
57.221
39.130
7.80
0.00
0.00
4.02
505
509
5.104259
ACATATGGAGAAAGGAAGTGGAC
57.896
43.478
7.80
0.00
0.00
4.02
506
510
4.785376
ACATATGGAGAAAGGAAGTGGACT
59.215
41.667
7.80
0.00
0.00
3.85
507
511
3.990959
ATGGAGAAAGGAAGTGGACTC
57.009
47.619
0.00
0.00
0.00
3.36
508
512
1.978580
TGGAGAAAGGAAGTGGACTCC
59.021
52.381
0.00
0.00
42.64
3.85
509
513
1.978580
GGAGAAAGGAAGTGGACTCCA
59.021
52.381
0.00
0.00
42.11
3.86
635
640
3.787001
CCCCGCCCTCTGTTCTCC
61.787
72.222
0.00
0.00
0.00
3.71
673
687
2.572284
CCGTCTTCGTCCCCACTC
59.428
66.667
0.00
0.00
35.01
3.51
1100
1119
1.005037
TGATCGCGGATATGGTGGC
60.005
57.895
6.13
0.00
0.00
5.01
1154
1173
1.538204
GCGATTGATGAAGGCGTCCTA
60.538
52.381
0.00
0.00
31.13
2.94
1408
1427
1.645710
CACCTACCTCTCTTGGGTGT
58.354
55.000
0.00
0.00
41.52
4.16
1448
1467
3.157881
CCTCCGCTAGATACCTCATTCA
58.842
50.000
0.00
0.00
0.00
2.57
1458
1477
4.349342
AGATACCTCATTCATCAGGAACCC
59.651
45.833
0.00
0.00
38.60
4.11
1517
1536
1.337703
CGATCCTGAGAAGAGGCAGAG
59.662
57.143
0.00
0.00
34.06
3.35
1572
1591
3.112709
GCTCAACGTGCCGAGGAC
61.113
66.667
10.78
0.00
0.00
3.85
1612
1631
2.970974
GCGGACAAGGAAGCACTGC
61.971
63.158
0.00
0.00
0.00
4.40
1634
1653
2.956132
TCTATTAGCAGAGGCAGCTCT
58.044
47.619
2.37
0.00
42.32
4.09
1713
1732
1.400629
CGAGCTTGGATGTTGCTGTTG
60.401
52.381
0.00
0.00
37.16
3.33
1731
1750
4.966787
GGGTGGCGCAACAAGGGA
62.967
66.667
18.47
0.00
0.00
4.20
1744
1763
1.988846
ACAAGGGAAAGGAGAAGGAGG
59.011
52.381
0.00
0.00
0.00
4.30
1750
1769
2.448453
GAAAGGAGAAGGAGGACGAGA
58.552
52.381
0.00
0.00
0.00
4.04
1810
1829
2.047844
CCTCGTCCACAGGCACAG
60.048
66.667
0.00
0.00
0.00
3.66
1823
1842
1.375908
GCACAGCCGAACATCCTCA
60.376
57.895
0.00
0.00
0.00
3.86
1824
1843
1.364626
GCACAGCCGAACATCCTCAG
61.365
60.000
0.00
0.00
0.00
3.35
1825
1844
0.742281
CACAGCCGAACATCCTCAGG
60.742
60.000
0.00
0.00
0.00
3.86
1826
1845
1.153289
CAGCCGAACATCCTCAGGG
60.153
63.158
0.00
0.00
0.00
4.45
1827
1846
1.306141
AGCCGAACATCCTCAGGGA
60.306
57.895
0.00
0.00
46.81
4.20
1828
1847
1.153349
GCCGAACATCCTCAGGGAC
60.153
63.158
0.00
0.00
45.43
4.46
1829
1848
1.522569
CCGAACATCCTCAGGGACC
59.477
63.158
0.00
0.00
45.43
4.46
1830
1849
0.978146
CCGAACATCCTCAGGGACCT
60.978
60.000
0.00
0.00
45.43
3.85
1831
1850
0.461961
CGAACATCCTCAGGGACCTC
59.538
60.000
0.00
0.00
45.43
3.85
1852
1871
2.890766
CGGCCACCCAAGGTACACT
61.891
63.158
2.24
0.00
32.11
3.55
1853
1872
1.002502
GGCCACCCAAGGTACACTC
60.003
63.158
0.00
0.00
32.11
3.51
1874
1893
2.784356
CGCAGCTCCCTCCTCTCAG
61.784
68.421
0.00
0.00
0.00
3.35
1875
1894
1.685421
GCAGCTCCCTCCTCTCAGT
60.685
63.158
0.00
0.00
0.00
3.41
1883
1902
1.412079
CCTCCTCTCAGTCTCCCATG
58.588
60.000
0.00
0.00
0.00
3.66
2178
2197
4.410743
GCTTGGCTTGCTGACCGC
62.411
66.667
0.00
0.00
39.77
5.68
2249
2268
1.123928
ATAGCACCAGAGGCCACTAC
58.876
55.000
5.01
0.00
0.00
2.73
2491
2510
3.181506
CGAACCTCTTTGCAAGAATAGCC
60.182
47.826
0.00
0.00
37.02
3.93
2543
2562
3.982829
GAACCGCCCTTGTTCCTC
58.017
61.111
0.00
0.00
36.87
3.71
2562
2581
4.082125
CCTCACAGTTCCTAAGGCATTTT
58.918
43.478
0.00
0.00
0.00
1.82
2574
2593
0.521735
GGCATTTTCCTCACCACGAC
59.478
55.000
0.00
0.00
0.00
4.34
2659
2678
4.431416
AGAGTGTGACCATACAAAACCA
57.569
40.909
0.03
0.00
31.36
3.67
2698
2717
3.424962
GCCTCGCAAGTGTTGATTCTAAC
60.425
47.826
0.00
0.00
39.48
2.34
2818
2837
9.659830
GTTGTTGTATGTAGTTTTAAGTTCTGG
57.340
33.333
0.00
0.00
0.00
3.86
2889
2908
5.299949
TCGGTCCTTGTAGTTTTAAGTTCC
58.700
41.667
0.00
0.00
0.00
3.62
3054
3145
7.398829
TGCAGTGTTGTTATCCTTCCTAATTA
58.601
34.615
0.00
0.00
0.00
1.40
3066
3157
5.306160
TCCTTCCTAATTAATACAGGGTCCG
59.694
44.000
13.49
3.26
0.00
4.79
3077
3168
1.305887
AGGGTCCGACTAAGTGGGG
60.306
63.158
0.00
0.00
32.22
4.96
3081
3172
1.690527
GGTCCGACTAAGTGGGGGTAT
60.691
57.143
0.00
0.00
32.22
2.73
3164
3255
3.056607
AGTTGTGCTGAACTGCAAAAACT
60.057
39.130
19.67
19.67
45.12
2.66
3213
3304
6.314648
GCATTGTTGAAGATACTGATGTCTCA
59.685
38.462
0.00
0.00
0.00
3.27
3276
3367
1.538512
GAAGTGTCACTGTGCATGCAT
59.461
47.619
25.64
4.77
0.00
3.96
3294
3385
2.806818
GCATATGAGACCATCAGCACAG
59.193
50.000
6.97
0.00
42.53
3.66
3297
3388
0.322648
TGAGACCATCAGCACAGTGG
59.677
55.000
1.84
0.00
38.96
4.00
3306
3397
1.893808
AGCACAGTGGGCTTTCGTG
60.894
57.895
15.99
0.00
38.81
4.35
3329
3420
6.638873
GTGACGTCTTACTAGATCATTGATGG
59.361
42.308
17.92
0.00
31.86
3.51
3404
3496
5.357878
ACAAATATTTGGACGCATGATGAGT
59.642
36.000
27.43
0.27
42.34
3.41
3435
3527
7.392418
GGTCTAAACCAAGTAATAGTTCTGGT
58.608
38.462
0.00
0.00
45.68
4.00
3442
3534
5.235516
CAAGTAATAGTTCTGGTGGTTCGT
58.764
41.667
0.00
0.00
0.00
3.85
3447
3539
3.594603
AGTTCTGGTGGTTCGTATCAG
57.405
47.619
0.00
0.00
0.00
2.90
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
7
8
2.537560
ATGCAGCGGCGATGTAAGC
61.538
57.895
26.78
12.75
45.35
3.09
8
9
1.277739
CATGCAGCGGCGATGTAAG
59.722
57.895
26.78
15.80
45.35
2.34
9
10
2.179547
CCATGCAGCGGCGATGTAA
61.180
57.895
26.78
15.68
45.35
2.41
10
11
2.585791
TTCCATGCAGCGGCGATGTA
62.586
55.000
26.78
23.34
45.35
2.29
11
12
3.974835
TTCCATGCAGCGGCGATGT
62.975
57.895
26.78
4.47
45.35
3.06
12
13
3.204119
TTCCATGCAGCGGCGATG
61.204
61.111
22.35
22.35
45.35
3.84
13
14
3.204827
GTTCCATGCAGCGGCGAT
61.205
61.111
12.98
0.00
45.35
4.58
14
15
4.695993
TGTTCCATGCAGCGGCGA
62.696
61.111
12.98
0.00
45.35
5.54
15
16
4.465512
GTGTTCCATGCAGCGGCG
62.466
66.667
0.51
0.51
45.35
6.46
16
17
2.918345
TTGTGTTCCATGCAGCGGC
61.918
57.895
0.31
0.31
41.68
6.53
17
18
1.081242
GTTGTGTTCCATGCAGCGG
60.081
57.895
0.00
0.00
0.00
5.52
18
19
1.440850
CGTTGTGTTCCATGCAGCG
60.441
57.895
0.00
0.00
0.00
5.18
19
20
0.030638
AACGTTGTGTTCCATGCAGC
59.969
50.000
0.00
0.00
35.27
5.25
28
29
1.152839
CCCAGGGGAACGTTGTGTT
60.153
57.895
5.00
0.00
45.61
3.32
29
30
2.513895
CCCAGGGGAACGTTGTGT
59.486
61.111
5.00
0.00
37.50
3.72
30
31
2.983592
GCCCAGGGGAACGTTGTG
60.984
66.667
5.00
0.00
37.50
3.33
31
32
4.280019
GGCCCAGGGGAACGTTGT
62.280
66.667
5.00
0.00
37.50
3.32
56
57
3.554692
GGTTGATGAGCGTCGGCG
61.555
66.667
4.29
4.29
46.35
6.46
57
58
2.125512
AGGTTGATGAGCGTCGGC
60.126
61.111
0.00
0.00
40.37
5.54
58
59
1.078759
GTGAGGTTGATGAGCGTCGG
61.079
60.000
0.00
0.00
0.00
4.79
59
60
1.078759
GGTGAGGTTGATGAGCGTCG
61.079
60.000
0.00
0.00
0.00
5.12
60
61
1.078759
CGGTGAGGTTGATGAGCGTC
61.079
60.000
0.00
0.00
0.00
5.19
61
62
1.079819
CGGTGAGGTTGATGAGCGT
60.080
57.895
0.00
0.00
0.00
5.07
62
63
1.078759
GTCGGTGAGGTTGATGAGCG
61.079
60.000
0.00
0.00
0.00
5.03
63
64
0.741221
GGTCGGTGAGGTTGATGAGC
60.741
60.000
0.00
0.00
0.00
4.26
64
65
0.108138
GGGTCGGTGAGGTTGATGAG
60.108
60.000
0.00
0.00
0.00
2.90
65
66
1.550130
GGGGTCGGTGAGGTTGATGA
61.550
60.000
0.00
0.00
0.00
2.92
66
67
1.078426
GGGGTCGGTGAGGTTGATG
60.078
63.158
0.00
0.00
0.00
3.07
67
68
2.656069
CGGGGTCGGTGAGGTTGAT
61.656
63.158
0.00
0.00
0.00
2.57
68
69
3.307906
CGGGGTCGGTGAGGTTGA
61.308
66.667
0.00
0.00
0.00
3.18
69
70
3.296709
CTCGGGGTCGGTGAGGTTG
62.297
68.421
0.00
0.00
36.95
3.77
70
71
2.995574
CTCGGGGTCGGTGAGGTT
60.996
66.667
0.00
0.00
36.95
3.50
73
74
3.450115
GTCCTCGGGGTCGGTGAG
61.450
72.222
0.00
0.00
36.95
3.51
78
79
2.707849
ATTGTCGTCCTCGGGGTCG
61.708
63.158
15.22
15.22
43.50
4.79
79
80
1.153628
CATTGTCGTCCTCGGGGTC
60.154
63.158
0.00
0.00
37.69
4.46
80
81
1.608336
TCATTGTCGTCCTCGGGGT
60.608
57.895
0.00
0.00
37.69
4.95
81
82
1.153628
GTCATTGTCGTCCTCGGGG
60.154
63.158
0.00
0.00
37.69
5.73
82
83
1.516386
CGTCATTGTCGTCCTCGGG
60.516
63.158
0.00
0.00
37.69
5.14
83
84
0.797249
GTCGTCATTGTCGTCCTCGG
60.797
60.000
3.38
0.00
37.69
4.63
84
85
0.109919
TGTCGTCATTGTCGTCCTCG
60.110
55.000
3.38
0.00
38.55
4.63
85
86
1.719780
GTTGTCGTCATTGTCGTCCTC
59.280
52.381
3.38
0.00
0.00
3.71
86
87
1.779569
GTTGTCGTCATTGTCGTCCT
58.220
50.000
3.38
0.00
0.00
3.85
87
88
0.433492
CGTTGTCGTCATTGTCGTCC
59.567
55.000
3.38
0.00
0.00
4.79
88
89
0.179282
GCGTTGTCGTCATTGTCGTC
60.179
55.000
3.38
0.00
39.49
4.20
89
90
1.554042
GGCGTTGTCGTCATTGTCGT
61.554
55.000
3.38
0.00
41.67
4.34
90
91
1.129809
GGCGTTGTCGTCATTGTCG
59.870
57.895
0.00
0.00
41.67
4.35
91
92
1.705256
TAGGCGTTGTCGTCATTGTC
58.295
50.000
0.00
0.00
44.74
3.18
92
93
2.066262
CTTAGGCGTTGTCGTCATTGT
58.934
47.619
0.00
0.00
44.74
2.71
93
94
1.393539
CCTTAGGCGTTGTCGTCATTG
59.606
52.381
0.00
0.00
44.74
2.82
94
95
1.722011
CCTTAGGCGTTGTCGTCATT
58.278
50.000
0.00
0.00
44.74
2.57
95
96
0.739813
GCCTTAGGCGTTGTCGTCAT
60.740
55.000
7.77
0.00
44.74
3.06
96
97
1.373748
GCCTTAGGCGTTGTCGTCA
60.374
57.895
7.77
0.00
44.74
4.35
97
98
3.471399
GCCTTAGGCGTTGTCGTC
58.529
61.111
7.77
0.00
39.62
4.20
122
123
4.865761
TACCAGGCGACGCGATGC
62.866
66.667
15.93
16.48
0.00
3.91
123
124
2.655364
CTACCAGGCGACGCGATG
60.655
66.667
15.93
14.66
0.00
3.84
124
125
1.378882
TAACTACCAGGCGACGCGAT
61.379
55.000
15.93
1.48
0.00
4.58
125
126
1.985447
CTAACTACCAGGCGACGCGA
61.985
60.000
15.93
0.00
0.00
5.87
126
127
1.585521
CTAACTACCAGGCGACGCG
60.586
63.158
14.61
3.53
0.00
6.01
127
128
1.226888
CCTAACTACCAGGCGACGC
60.227
63.158
12.43
12.43
0.00
5.19
128
129
0.529378
AACCTAACTACCAGGCGACG
59.471
55.000
0.00
0.00
36.57
5.12
129
130
1.274447
ACAACCTAACTACCAGGCGAC
59.726
52.381
0.00
0.00
36.57
5.19
130
131
1.636148
ACAACCTAACTACCAGGCGA
58.364
50.000
0.00
0.00
36.57
5.54
131
132
2.467566
AACAACCTAACTACCAGGCG
57.532
50.000
0.00
0.00
36.57
5.52
132
133
6.638096
TTAAAAACAACCTAACTACCAGGC
57.362
37.500
0.00
0.00
36.57
4.85
133
134
9.687210
GAAATTAAAAACAACCTAACTACCAGG
57.313
33.333
0.00
0.00
39.25
4.45
154
155
7.544217
GCGTCCACATTACCATTAAAAGAAATT
59.456
33.333
0.00
0.00
0.00
1.82
155
156
7.033185
GCGTCCACATTACCATTAAAAGAAAT
58.967
34.615
0.00
0.00
0.00
2.17
156
157
6.383415
GCGTCCACATTACCATTAAAAGAAA
58.617
36.000
0.00
0.00
0.00
2.52
157
158
5.391097
CGCGTCCACATTACCATTAAAAGAA
60.391
40.000
0.00
0.00
0.00
2.52
158
159
4.093703
CGCGTCCACATTACCATTAAAAGA
59.906
41.667
0.00
0.00
0.00
2.52
159
160
4.142773
ACGCGTCCACATTACCATTAAAAG
60.143
41.667
5.58
0.00
0.00
2.27
160
161
3.752222
ACGCGTCCACATTACCATTAAAA
59.248
39.130
5.58
0.00
0.00
1.52
161
162
3.125487
CACGCGTCCACATTACCATTAAA
59.875
43.478
9.86
0.00
0.00
1.52
162
163
2.673862
CACGCGTCCACATTACCATTAA
59.326
45.455
9.86
0.00
0.00
1.40
163
164
2.272678
CACGCGTCCACATTACCATTA
58.727
47.619
9.86
0.00
0.00
1.90
164
165
1.083489
CACGCGTCCACATTACCATT
58.917
50.000
9.86
0.00
0.00
3.16
165
166
0.742990
CCACGCGTCCACATTACCAT
60.743
55.000
9.86
0.00
0.00
3.55
166
167
1.374885
CCACGCGTCCACATTACCA
60.375
57.895
9.86
0.00
0.00
3.25
167
168
1.079681
TCCACGCGTCCACATTACC
60.080
57.895
9.86
0.00
0.00
2.85
168
169
0.389426
AGTCCACGCGTCCACATTAC
60.389
55.000
9.86
0.00
0.00
1.89
169
170
0.108992
GAGTCCACGCGTCCACATTA
60.109
55.000
9.86
0.00
0.00
1.90
170
171
1.374252
GAGTCCACGCGTCCACATT
60.374
57.895
9.86
0.00
0.00
2.71
171
172
2.214181
GAGAGTCCACGCGTCCACAT
62.214
60.000
9.86
1.40
0.00
3.21
172
173
2.910479
AGAGTCCACGCGTCCACA
60.910
61.111
9.86
0.00
0.00
4.17
173
174
2.126424
GAGAGTCCACGCGTCCAC
60.126
66.667
9.86
9.15
0.00
4.02
174
175
3.733960
CGAGAGTCCACGCGTCCA
61.734
66.667
9.86
0.00
0.00
4.02
183
184
4.516195
GAAGGCCGGCGAGAGTCC
62.516
72.222
22.54
4.09
0.00
3.85
184
185
4.516195
GGAAGGCCGGCGAGAGTC
62.516
72.222
22.54
12.33
0.00
3.36
186
187
4.521062
CAGGAAGGCCGGCGAGAG
62.521
72.222
22.54
3.92
39.96
3.20
196
197
0.395724
ATTAAAGCCGGCCAGGAAGG
60.396
55.000
26.15
3.49
45.00
3.46
197
198
0.740737
CATTAAAGCCGGCCAGGAAG
59.259
55.000
26.15
5.89
45.00
3.46
198
199
0.039035
ACATTAAAGCCGGCCAGGAA
59.961
50.000
26.15
13.16
45.00
3.36
199
200
0.039035
AACATTAAAGCCGGCCAGGA
59.961
50.000
26.15
7.86
45.00
3.86
200
201
0.894835
AAACATTAAAGCCGGCCAGG
59.105
50.000
26.15
9.36
44.97
4.45
201
202
3.859411
TTAAACATTAAAGCCGGCCAG
57.141
42.857
26.15
9.37
0.00
4.85
202
203
4.810191
AATTAAACATTAAAGCCGGCCA
57.190
36.364
26.15
5.71
0.00
5.36
203
204
6.334989
ACTTAATTAAACATTAAAGCCGGCC
58.665
36.000
26.15
5.07
0.00
6.13
204
205
7.329962
ACAACTTAATTAAACATTAAAGCCGGC
59.670
33.333
21.89
21.89
0.00
6.13
205
206
8.751302
ACAACTTAATTAAACATTAAAGCCGG
57.249
30.769
0.00
0.00
0.00
6.13
226
227
9.823098
TGCATGCATATTTAAAATGAAAACAAC
57.177
25.926
18.46
0.00
0.00
3.32
227
228
9.823098
GTGCATGCATATTTAAAATGAAAACAA
57.177
25.926
25.64
0.00
0.00
2.83
228
229
8.996271
TGTGCATGCATATTTAAAATGAAAACA
58.004
25.926
25.64
7.63
0.00
2.83
229
230
9.480538
CTGTGCATGCATATTTAAAATGAAAAC
57.519
29.630
25.64
4.82
0.00
2.43
230
231
9.217278
ACTGTGCATGCATATTTAAAATGAAAA
57.783
25.926
25.64
0.00
0.00
2.29
231
232
8.774890
ACTGTGCATGCATATTTAAAATGAAA
57.225
26.923
25.64
0.00
0.00
2.69
232
233
8.774890
AACTGTGCATGCATATTTAAAATGAA
57.225
26.923
25.64
0.00
0.00
2.57
233
234
8.774890
AAACTGTGCATGCATATTTAAAATGA
57.225
26.923
25.64
0.00
0.00
2.57
234
235
9.828852
AAAAACTGTGCATGCATATTTAAAATG
57.171
25.926
25.64
9.01
0.00
2.32
266
267
0.316689
GATCCATTTTAACGGCGCCG
60.317
55.000
44.88
44.88
46.03
6.46
267
268
0.316689
CGATCCATTTTAACGGCGCC
60.317
55.000
19.07
19.07
0.00
6.53
268
269
0.316689
CCGATCCATTTTAACGGCGC
60.317
55.000
6.90
0.00
37.32
6.53
269
270
0.306533
CCCGATCCATTTTAACGGCG
59.693
55.000
4.80
4.80
41.86
6.46
270
271
0.030235
GCCCGATCCATTTTAACGGC
59.970
55.000
0.00
0.00
41.86
5.68
271
272
0.306533
CGCCCGATCCATTTTAACGG
59.693
55.000
0.00
0.00
42.67
4.44
272
273
1.260561
CTCGCCCGATCCATTTTAACG
59.739
52.381
0.00
0.00
0.00
3.18
273
274
1.002792
GCTCGCCCGATCCATTTTAAC
60.003
52.381
0.00
0.00
0.00
2.01
274
275
1.305201
GCTCGCCCGATCCATTTTAA
58.695
50.000
0.00
0.00
0.00
1.52
275
276
0.878523
CGCTCGCCCGATCCATTTTA
60.879
55.000
0.00
0.00
0.00
1.52
276
277
2.180204
CGCTCGCCCGATCCATTTT
61.180
57.895
0.00
0.00
0.00
1.82
277
278
2.588877
CGCTCGCCCGATCCATTT
60.589
61.111
0.00
0.00
0.00
2.32
278
279
3.385749
AACGCTCGCCCGATCCATT
62.386
57.895
1.63
0.00
0.00
3.16
279
280
3.849951
AACGCTCGCCCGATCCAT
61.850
61.111
1.63
0.00
0.00
3.41
280
281
4.812476
CAACGCTCGCCCGATCCA
62.812
66.667
1.63
0.00
0.00
3.41
294
295
2.507547
TCGACGTATGCGCCCAAC
60.508
61.111
4.18
0.00
42.83
3.77
295
296
2.507547
GTCGACGTATGCGCCCAA
60.508
61.111
4.18
0.00
42.83
4.12
296
297
4.501714
GGTCGACGTATGCGCCCA
62.502
66.667
9.92
0.00
42.83
5.36
298
299
3.993376
TTGGGTCGACGTATGCGCC
62.993
63.158
9.92
3.56
42.83
6.53
299
300
2.095847
TTTGGGTCGACGTATGCGC
61.096
57.895
9.92
0.00
42.83
6.09
300
301
1.705727
GTTTGGGTCGACGTATGCG
59.294
57.895
9.92
0.19
44.93
4.73
301
302
1.705727
CGTTTGGGTCGACGTATGC
59.294
57.895
9.92
0.00
34.75
3.14
302
303
1.705727
GCGTTTGGGTCGACGTATG
59.294
57.895
9.92
1.44
41.10
2.39
303
304
1.802715
CGCGTTTGGGTCGACGTAT
60.803
57.895
9.92
0.00
41.10
3.06
304
305
2.399511
TTCGCGTTTGGGTCGACGTA
62.400
55.000
9.92
0.00
41.10
3.57
305
306
3.771568
TTCGCGTTTGGGTCGACGT
62.772
57.895
9.92
0.00
41.10
4.34
306
307
2.474842
CTTTCGCGTTTGGGTCGACG
62.475
60.000
9.92
0.00
41.89
5.12
307
308
1.203313
CTTTCGCGTTTGGGTCGAC
59.797
57.895
7.13
7.13
31.48
4.20
308
309
2.600475
GCTTTCGCGTTTGGGTCGA
61.600
57.895
5.77
0.00
0.00
4.20
309
310
2.127383
GCTTTCGCGTTTGGGTCG
60.127
61.111
5.77
0.00
0.00
4.79
319
320
3.400590
ACGAACGTCCGCTTTCGC
61.401
61.111
0.00
0.00
46.10
4.70
321
322
1.485943
GACACGAACGTCCGCTTTC
59.514
57.895
0.00
0.00
0.00
2.62
322
323
1.952635
GGACACGAACGTCCGCTTT
60.953
57.895
0.00
0.00
45.77
3.51
323
324
2.355481
GGACACGAACGTCCGCTT
60.355
61.111
0.00
0.00
45.77
4.68
328
329
3.103911
CAGGCGGACACGAACGTC
61.104
66.667
0.00
0.00
44.60
4.34
329
330
3.598715
TCAGGCGGACACGAACGT
61.599
61.111
0.00
0.00
44.60
3.99
330
331
3.103911
GTCAGGCGGACACGAACG
61.104
66.667
13.03
0.00
46.19
3.95
337
338
1.389609
TTAGGATCGGTCAGGCGGAC
61.390
60.000
9.42
9.42
46.20
4.79
338
339
1.076559
TTAGGATCGGTCAGGCGGA
60.077
57.895
0.00
0.00
0.00
5.54
339
340
1.067582
GTTAGGATCGGTCAGGCGG
59.932
63.158
0.00
0.00
0.00
6.13
340
341
1.299165
CGTTAGGATCGGTCAGGCG
60.299
63.158
0.00
0.00
0.00
5.52
341
342
1.067582
CCGTTAGGATCGGTCAGGC
59.932
63.158
0.00
0.00
42.62
4.85
342
343
2.803203
TCCGTTAGGATCGGTCAGG
58.197
57.895
0.00
0.00
46.86
3.86
377
378
4.324991
AACTCCAACGGGCCGACC
62.325
66.667
35.78
0.00
0.00
4.79
378
379
3.047877
CAACTCCAACGGGCCGAC
61.048
66.667
35.78
0.00
0.00
4.79
381
382
3.056328
GAGCAACTCCAACGGGCC
61.056
66.667
0.00
0.00
0.00
5.80
382
383
0.321298
TAAGAGCAACTCCAACGGGC
60.321
55.000
0.00
0.00
0.00
6.13
383
384
1.270625
TGTAAGAGCAACTCCAACGGG
60.271
52.381
0.00
0.00
0.00
5.28
384
385
2.163818
TGTAAGAGCAACTCCAACGG
57.836
50.000
0.00
0.00
0.00
4.44
385
386
3.589988
AGATGTAAGAGCAACTCCAACG
58.410
45.455
0.00
0.00
0.00
4.10
386
387
4.568760
GCTAGATGTAAGAGCAACTCCAAC
59.431
45.833
0.00
0.00
36.20
3.77
387
388
4.383118
GGCTAGATGTAAGAGCAACTCCAA
60.383
45.833
0.00
0.00
37.98
3.53
388
389
3.133003
GGCTAGATGTAAGAGCAACTCCA
59.867
47.826
0.00
0.00
37.98
3.86
389
390
3.133003
TGGCTAGATGTAAGAGCAACTCC
59.867
47.826
0.00
0.00
37.98
3.85
390
391
4.392921
TGGCTAGATGTAAGAGCAACTC
57.607
45.455
0.00
0.00
37.98
3.01
391
392
5.365021
AATGGCTAGATGTAAGAGCAACT
57.635
39.130
0.00
0.00
37.98
3.16
392
393
5.586243
TGAAATGGCTAGATGTAAGAGCAAC
59.414
40.000
0.00
0.00
37.98
4.17
393
394
5.744171
TGAAATGGCTAGATGTAAGAGCAA
58.256
37.500
0.00
0.00
37.98
3.91
394
395
5.357742
TGAAATGGCTAGATGTAAGAGCA
57.642
39.130
0.00
0.00
37.98
4.26
395
396
6.709846
AGAATGAAATGGCTAGATGTAAGAGC
59.290
38.462
0.00
0.00
35.39
4.09
396
397
8.674263
AAGAATGAAATGGCTAGATGTAAGAG
57.326
34.615
0.00
0.00
0.00
2.85
397
398
9.466497
AAAAGAATGAAATGGCTAGATGTAAGA
57.534
29.630
0.00
0.00
0.00
2.10
513
517
2.887568
GATCAGCGTGGCAGTCCG
60.888
66.667
0.00
0.00
34.14
4.79
635
640
2.622436
CAAAGGAGAGCGGAAGGTTAG
58.378
52.381
0.00
0.00
45.11
2.34
673
687
4.675303
TGGAGAGGTGGGTGGGGG
62.675
72.222
0.00
0.00
0.00
5.40
977
996
1.548269
CTCTCCTTCTTGAGTCGCCTT
59.452
52.381
0.00
0.00
33.93
4.35
1057
1076
2.809601
CTTCTTGGCGTCGACGGG
60.810
66.667
36.13
13.02
40.23
5.28
1154
1173
3.181436
GGGTTCACATCCCATCAGATGAT
60.181
47.826
12.41
0.00
45.43
2.45
1408
1427
1.529948
CGTAGGCCACCCTATCCGA
60.530
63.158
5.01
0.00
45.22
4.55
1448
1467
1.486726
GGAGTGATTCGGGTTCCTGAT
59.513
52.381
0.89
0.00
0.00
2.90
1458
1477
1.961180
AAGCCTCCCGGAGTGATTCG
61.961
60.000
13.62
0.00
0.00
3.34
1484
1503
1.903890
GGATCGGATGAGGCGAGGA
60.904
63.158
0.00
0.00
0.00
3.71
1612
1631
3.321682
AGAGCTGCCTCTGCTAATAGAAG
59.678
47.826
0.00
0.00
46.51
2.85
1652
1671
2.418083
GCCTCCCCGAATTGCTTGG
61.418
63.158
0.00
0.00
0.00
3.61
1731
1750
2.452505
CTCTCGTCCTCCTTCTCCTTT
58.547
52.381
0.00
0.00
0.00
3.11
1750
1769
4.845580
CTCATTGAGGCCGCCGCT
62.846
66.667
14.72
0.00
34.44
5.52
1781
1800
0.397254
GGACGAGGAAGATGAGGGGA
60.397
60.000
0.00
0.00
0.00
4.81
1782
1801
0.687757
TGGACGAGGAAGATGAGGGG
60.688
60.000
0.00
0.00
0.00
4.79
1810
1829
1.153349
GTCCCTGAGGATGTTCGGC
60.153
63.158
0.00
0.00
46.41
5.54
1818
1837
2.363018
CGCTGAGGTCCCTGAGGA
60.363
66.667
0.00
0.00
41.08
3.71
1831
1850
4.028490
TACCTTGGGTGGCCGCTG
62.028
66.667
17.49
4.33
36.19
5.18
1838
1857
1.375523
GCGGAGTGTACCTTGGGTG
60.376
63.158
0.00
0.00
36.19
4.61
1841
1860
2.813908
GCGCGGAGTGTACCTTGG
60.814
66.667
8.83
0.00
41.96
3.61
1894
1913
1.281577
CCAAATTTGGGGTGGATTGGG
59.718
52.381
26.87
0.00
44.70
4.12
1921
1940
2.632377
TCCTCATTTCAATCAGGCGAC
58.368
47.619
0.00
0.00
0.00
5.19
2284
2303
7.287810
ACCAAAATGGAAGACCCTATATGTAC
58.712
38.462
2.85
0.00
40.96
2.90
2350
2369
5.935945
TCAATTACCAAGAGACCAGAACAA
58.064
37.500
0.00
0.00
0.00
2.83
2443
2462
0.681733
TGTCAACTCACTGCCTCCTC
59.318
55.000
0.00
0.00
0.00
3.71
2491
2510
0.108615
AAGAGTGAGAACCGATGCCG
60.109
55.000
0.00
0.00
0.00
5.69
2543
2562
4.082125
AGGAAAATGCCTTAGGAACTGTG
58.918
43.478
0.69
0.00
41.52
3.66
2795
2814
8.387190
ACCCAGAACTTAAAACTACATACAAC
57.613
34.615
0.00
0.00
0.00
3.32
2971
3062
9.681692
CTCATGAACTTTTGTAACATTCAATCA
57.318
29.630
0.00
0.00
33.29
2.57
2974
3065
8.006298
ACCTCATGAACTTTTGTAACATTCAA
57.994
30.769
0.00
0.00
33.29
2.69
3008
3099
4.261867
GCAAACCGACAAGGATAAAAAGGT
60.262
41.667
0.00
0.00
45.00
3.50
3054
3145
2.764572
CCACTTAGTCGGACCCTGTATT
59.235
50.000
4.14
0.00
0.00
1.89
3057
3148
0.903454
CCCACTTAGTCGGACCCTGT
60.903
60.000
4.14
0.00
0.00
4.00
3066
3157
5.899631
TTCCAATATACCCCCACTTAGTC
57.100
43.478
0.00
0.00
0.00
2.59
3077
3168
7.817418
TGGTAAAAGAGCATTCCAATATACC
57.183
36.000
0.00
0.00
0.00
2.73
3081
3172
7.716799
AACATGGTAAAAGAGCATTCCAATA
57.283
32.000
0.00
0.00
43.93
1.90
3213
3304
7.675962
TTACAATTATTTGTACAACGGCTCT
57.324
32.000
8.07
0.00
45.60
4.09
3248
3339
1.417890
ACAGTGACACTTCTTCCCCTG
59.582
52.381
5.04
0.00
0.00
4.45
3259
3350
2.679336
TCATATGCATGCACAGTGACAC
59.321
45.455
25.37
0.00
31.73
3.67
3276
3367
2.169144
CCACTGTGCTGATGGTCTCATA
59.831
50.000
1.29
0.00
32.98
2.15
3294
3385
0.878961
AAGACGTCACGAAAGCCCAC
60.879
55.000
19.50
0.00
0.00
4.61
3297
3388
2.061740
AGTAAGACGTCACGAAAGCC
57.938
50.000
19.50
0.00
0.00
4.35
3306
3397
5.631512
GCCATCAATGATCTAGTAAGACGTC
59.368
44.000
7.70
7.70
33.57
4.34
3371
3463
8.050778
TGCGTCCAAATATTTGTAGAAATTCT
57.949
30.769
23.24
0.00
36.45
2.40
3377
3469
6.765512
TCATCATGCGTCCAAATATTTGTAGA
59.234
34.615
23.24
13.50
36.45
2.59
3404
3496
6.961721
ACTATTACTTGGTTTAGACCTGGGTA
59.038
38.462
3.79
2.12
46.66
3.69
3428
3520
3.587797
TCTGATACGAACCACCAGAAC
57.412
47.619
0.00
0.00
31.72
3.01
3429
3521
3.322541
TGTTCTGATACGAACCACCAGAA
59.677
43.478
0.00
0.00
41.95
3.02
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.