Multiple sequence alignment - TraesCS4A01G196700
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
TraesCS4A01G196700
chr4A
100.000
3642
0
0
1
3642
478753731
478750090
0.000000e+00
6726.0
1
TraesCS4A01G196700
chr4A
86.154
130
12
2
1401
1530
478866727
478866604
6.340000e-28
135.0
2
TraesCS4A01G196700
chr4D
91.200
1125
55
19
1882
2975
97383524
97384635
0.000000e+00
1489.0
3
TraesCS4A01G196700
chr4D
94.875
878
23
7
893
1757
97382663
97383531
0.000000e+00
1352.0
4
TraesCS4A01G196700
chr4D
79.380
742
121
15
997
1722
97377869
97378594
9.080000e-136
494.0
5
TraesCS4A01G196700
chr4D
74.697
577
116
20
2334
2904
97379107
97379659
2.830000e-56
230.0
6
TraesCS4A01G196700
chr4D
91.304
115
10
0
1956
2070
97381399
97381513
1.350000e-34
158.0
7
TraesCS4A01G196700
chr4D
88.372
129
5
6
735
853
97382550
97382678
2.930000e-31
147.0
8
TraesCS4A01G196700
chr4D
97.826
46
1
0
633
678
97381511
97381556
3.010000e-11
80.5
9
TraesCS4A01G196700
chr4D
100.000
33
0
0
670
702
97382505
97382537
1.090000e-05
62.1
10
TraesCS4A01G196700
chr4B
94.145
854
42
4
1951
2803
139106588
139107434
0.000000e+00
1293.0
11
TraesCS4A01G196700
chr4B
93.537
882
34
10
894
1757
139105625
139106501
0.000000e+00
1291.0
12
TraesCS4A01G196700
chr4B
89.353
695
70
4
1
694
139063488
139064179
0.000000e+00
870.0
13
TraesCS4A01G196700
chr4B
79.039
749
115
20
997
1726
139024066
139024791
3.290000e-130
475.0
14
TraesCS4A01G196700
chr4B
88.083
193
13
6
2788
2975
139107451
139107638
1.700000e-53
220.0
15
TraesCS4A01G196700
chr4B
89.167
120
6
2
741
853
139105520
139105639
3.790000e-30
143.0
16
TraesCS4A01G196700
chr5B
86.736
671
68
11
2976
3639
644868284
644868940
0.000000e+00
726.0
17
TraesCS4A01G196700
chr5B
88.021
576
47
11
3067
3639
232262952
232263508
0.000000e+00
662.0
18
TraesCS4A01G196700
chr7B
89.410
576
45
9
3067
3639
468940897
468941459
0.000000e+00
712.0
19
TraesCS4A01G196700
chr7B
87.153
576
52
12
3067
3639
137523088
137523644
5.130000e-178
634.0
20
TraesCS4A01G196700
chr7B
86.165
571
41
13
3067
3634
579448611
579449146
1.880000e-162
582.0
21
TraesCS4A01G196700
chr7D
89.223
566
50
4
3083
3639
159911499
159912062
0.000000e+00
697.0
22
TraesCS4A01G196700
chr7D
79.857
561
94
16
8
560
30383945
30384494
3.410000e-105
392.0
23
TraesCS4A01G196700
chr1D
88.215
577
35
11
3067
3639
113901261
113901808
0.000000e+00
658.0
24
TraesCS4A01G196700
chr1D
80.893
560
103
3
1
557
102771050
102771608
4.320000e-119
438.0
25
TraesCS4A01G196700
chr1D
79.613
569
96
17
8
566
457075645
457075087
1.230000e-104
390.0
26
TraesCS4A01G196700
chr1D
95.082
122
6
0
1761
1882
270900883
270901004
3.710000e-45
193.0
27
TraesCS4A01G196700
chr5A
86.261
575
50
9
3067
3639
401616699
401617246
6.730000e-167
597.0
28
TraesCS4A01G196700
chr5A
80.645
558
94
12
8
560
645418415
645417867
1.560000e-113
420.0
29
TraesCS4A01G196700
chr5A
83.081
396
60
5
3245
3636
401618049
401617657
1.610000e-93
353.0
30
TraesCS4A01G196700
chr5A
90.845
142
10
3
1750
1891
577784062
577784200
1.730000e-43
187.0
31
TraesCS4A01G196700
chr6A
86.239
545
36
11
3067
3608
454633852
454634360
4.110000e-154
555.0
32
TraesCS4A01G196700
chr6A
79.286
560
98
16
8
560
97584631
97585179
3.430000e-100
375.0
33
TraesCS4A01G196700
chrUn
84.456
579
38
16
3067
3642
26876537
26877066
1.160000e-144
523.0
34
TraesCS4A01G196700
chrUn
81.625
566
92
8
4
565
468000527
467999970
3.310000e-125
459.0
35
TraesCS4A01G196700
chrUn
93.600
125
8
0
1758
1882
28638428
28638552
1.730000e-43
187.0
36
TraesCS4A01G196700
chr6D
83.601
561
82
7
1
557
468144836
468145390
5.390000e-143
518.0
37
TraesCS4A01G196700
chr6D
95.082
122
6
0
1761
1882
345490423
345490302
3.710000e-45
193.0
38
TraesCS4A01G196700
chr2D
89.024
410
29
5
3234
3639
7809352
7809749
9.080000e-136
494.0
39
TraesCS4A01G196700
chr2D
85.348
273
25
6
2977
3235
7809136
7809407
5.990000e-68
268.0
40
TraesCS4A01G196700
chr2D
94.400
125
7
0
1758
1882
299720497
299720621
3.710000e-45
193.0
41
TraesCS4A01G196700
chr7A
79.893
562
94
13
8
560
646090573
646090022
9.480000e-106
394.0
42
TraesCS4A01G196700
chr7A
95.082
122
6
0
1761
1882
466311264
466311143
3.710000e-45
193.0
43
TraesCS4A01G196700
chr7A
95.041
121
6
0
1761
1881
486228315
486228195
1.330000e-44
191.0
44
TraesCS4A01G196700
chr2B
95.902
122
5
0
1761
1882
154497638
154497759
7.980000e-47
198.0
45
TraesCS4A01G196700
chr3D
94.400
125
7
0
1758
1882
359257717
359257841
3.710000e-45
193.0
BLAST Results - HSPs grouped
These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the
BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are
purely upstream or downstream may be removed if they don't overlap both primers.
query
scaffold
start
end
length
rev.comp
avg.bitscore
max.bitscore
avg.percent.identical
query.start
query.end
num_hsp
groupid
homo_length
0
TraesCS4A01G196700
chr4A
478750090
478753731
3641
True
6726.000
6726
100.00000
1
3642
1
chr4A.!!$R1
3641
1
TraesCS4A01G196700
chr4D
97377869
97384635
6766
False
501.575
1489
89.70675
633
2975
8
chr4D.!!$F1
2342
2
TraesCS4A01G196700
chr4B
139063488
139064179
691
False
870.000
870
89.35300
1
694
1
chr4B.!!$F2
693
3
TraesCS4A01G196700
chr4B
139105520
139107638
2118
False
736.750
1293
91.23300
741
2975
4
chr4B.!!$F3
2234
4
TraesCS4A01G196700
chr4B
139024066
139024791
725
False
475.000
475
79.03900
997
1726
1
chr4B.!!$F1
729
5
TraesCS4A01G196700
chr5B
644868284
644868940
656
False
726.000
726
86.73600
2976
3639
1
chr5B.!!$F2
663
6
TraesCS4A01G196700
chr5B
232262952
232263508
556
False
662.000
662
88.02100
3067
3639
1
chr5B.!!$F1
572
7
TraesCS4A01G196700
chr7B
468940897
468941459
562
False
712.000
712
89.41000
3067
3639
1
chr7B.!!$F2
572
8
TraesCS4A01G196700
chr7B
137523088
137523644
556
False
634.000
634
87.15300
3067
3639
1
chr7B.!!$F1
572
9
TraesCS4A01G196700
chr7B
579448611
579449146
535
False
582.000
582
86.16500
3067
3634
1
chr7B.!!$F3
567
10
TraesCS4A01G196700
chr7D
159911499
159912062
563
False
697.000
697
89.22300
3083
3639
1
chr7D.!!$F2
556
11
TraesCS4A01G196700
chr7D
30383945
30384494
549
False
392.000
392
79.85700
8
560
1
chr7D.!!$F1
552
12
TraesCS4A01G196700
chr1D
113901261
113901808
547
False
658.000
658
88.21500
3067
3639
1
chr1D.!!$F2
572
13
TraesCS4A01G196700
chr1D
102771050
102771608
558
False
438.000
438
80.89300
1
557
1
chr1D.!!$F1
556
14
TraesCS4A01G196700
chr1D
457075087
457075645
558
True
390.000
390
79.61300
8
566
1
chr1D.!!$R1
558
15
TraesCS4A01G196700
chr5A
401616699
401617246
547
False
597.000
597
86.26100
3067
3639
1
chr5A.!!$F1
572
16
TraesCS4A01G196700
chr5A
645417867
645418415
548
True
420.000
420
80.64500
8
560
1
chr5A.!!$R2
552
17
TraesCS4A01G196700
chr6A
454633852
454634360
508
False
555.000
555
86.23900
3067
3608
1
chr6A.!!$F2
541
18
TraesCS4A01G196700
chr6A
97584631
97585179
548
False
375.000
375
79.28600
8
560
1
chr6A.!!$F1
552
19
TraesCS4A01G196700
chrUn
26876537
26877066
529
False
523.000
523
84.45600
3067
3642
1
chrUn.!!$F1
575
20
TraesCS4A01G196700
chrUn
467999970
468000527
557
True
459.000
459
81.62500
4
565
1
chrUn.!!$R1
561
21
TraesCS4A01G196700
chr6D
468144836
468145390
554
False
518.000
518
83.60100
1
557
1
chr6D.!!$F1
556
22
TraesCS4A01G196700
chr2D
7809136
7809749
613
False
381.000
494
87.18600
2977
3639
2
chr2D.!!$F2
662
23
TraesCS4A01G196700
chr7A
646090022
646090573
551
True
394.000
394
79.89300
8
560
1
chr7A.!!$R3
552
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
110
111
0.173708
CTAGGTCTGACCCGAGTTGC
59.826
60.0
22.81
0.0
39.75
4.17
F
356
359
0.322456
TAGTTTGCTGATTGCGGGCT
60.322
50.0
0.00
0.0
46.63
5.19
F
1876
5877
0.169009
CTTTAAGGCACCGAAGCTGC
59.831
55.0
0.00
0.0
34.17
5.25
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
1819
5820
0.395586
TTGACATATGGGCCAGCCAC
60.396
55.000
13.78
2.96
37.98
5.01
R
2267
6295
0.043183
TCTGCTTCTCCCCATCTCCA
59.957
55.000
0.00
0.00
0.00
3.86
R
3122
7213
1.650363
CCACGTTCCGTTTTGGGTC
59.350
57.895
0.00
0.00
38.32
4.46
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
110
111
0.173708
CTAGGTCTGACCCGAGTTGC
59.826
60.000
22.81
0.00
39.75
4.17
127
128
5.410746
CGAGTTGCTTATATCTGGCAATGAT
59.589
40.000
11.28
0.00
45.55
2.45
158
159
2.036862
GTGTCGTTCCCTTGTAGAAGGT
59.963
50.000
16.93
0.00
46.84
3.50
211
214
6.023603
TCAGGGTGAAAACCTAGATTCTACT
58.976
40.000
0.00
0.00
36.32
2.57
237
240
1.003839
GTTGGATCAGGTGACGCCA
60.004
57.895
7.99
0.42
40.61
5.69
239
242
1.480212
TTGGATCAGGTGACGCCAGT
61.480
55.000
7.99
0.00
40.61
4.00
280
283
6.395426
TTCTTCAAGACATTGCTGTTGAAT
57.605
33.333
8.35
0.00
33.71
2.57
315
318
5.989168
TCGGTATGGTGTCATGATATGTTTC
59.011
40.000
0.00
0.00
34.96
2.78
325
328
6.200854
TGTCATGATATGTTTCGTGCAGATAC
59.799
38.462
0.00
0.00
33.50
2.24
354
357
3.376859
TGTTATAGTTTGCTGATTGCGGG
59.623
43.478
0.00
0.00
46.63
6.13
356
359
0.322456
TAGTTTGCTGATTGCGGGCT
60.322
50.000
0.00
0.00
46.63
5.19
389
396
7.094334
CCTTAGGTTATTTTCTTTTTCCTCGCT
60.094
37.037
0.00
0.00
0.00
4.93
394
403
5.712152
ATTTTCTTTTTCCTCGCTGATGT
57.288
34.783
0.00
0.00
0.00
3.06
432
443
6.751514
ATATGACTTTGTTATTTGCCGTCA
57.248
33.333
0.00
0.00
34.84
4.35
456
468
1.854227
TTGTGTATGCGTGTCGTTGA
58.146
45.000
0.00
0.00
0.00
3.18
469
481
3.063452
GTGTCGTTGATGTTGACTGTGTT
59.937
43.478
0.00
0.00
33.81
3.32
521
533
8.391106
GTGTGTTCATTATGTTTGTATCCTCTC
58.609
37.037
0.00
0.00
0.00
3.20
524
536
9.817809
TGTTCATTATGTTTGTATCCTCTCTAC
57.182
33.333
0.00
0.00
0.00
2.59
606
619
1.258445
ACCCTAACAGACGGAGCAGG
61.258
60.000
0.00
0.00
0.00
4.85
702
4670
6.199531
GTCGCACGTATCAGGTATCAATAAAA
59.800
38.462
0.00
0.00
0.00
1.52
703
4671
6.199531
TCGCACGTATCAGGTATCAATAAAAC
59.800
38.462
0.00
0.00
0.00
2.43
706
4674
7.464977
GCACGTATCAGGTATCAATAAAACGTT
60.465
37.037
0.00
0.00
37.71
3.99
707
4675
8.385111
CACGTATCAGGTATCAATAAAACGTTT
58.615
33.333
7.96
7.96
37.71
3.60
709
4677
8.060090
CGTATCAGGTATCAATAAAACGTTTCC
58.940
37.037
15.01
8.44
0.00
3.13
710
4678
6.746745
TCAGGTATCAATAAAACGTTTCCC
57.253
37.500
15.01
4.73
0.00
3.97
714
4682
5.648960
GGTATCAATAAAACGTTTCCCCTCA
59.351
40.000
15.01
0.00
0.00
3.86
715
4683
6.151480
GGTATCAATAAAACGTTTCCCCTCAA
59.849
38.462
15.01
0.00
0.00
3.02
716
4684
6.658188
ATCAATAAAACGTTTCCCCTCAAA
57.342
33.333
15.01
0.00
0.00
2.69
717
4685
6.466885
TCAATAAAACGTTTCCCCTCAAAA
57.533
33.333
15.01
0.00
0.00
2.44
718
4686
6.875076
TCAATAAAACGTTTCCCCTCAAAAA
58.125
32.000
15.01
0.00
0.00
1.94
843
4820
5.078256
TCTTCTTTTCTCGACTAGAACCCT
58.922
41.667
0.00
0.00
44.02
4.34
853
4830
3.190118
CGACTAGAACCCTACACGAGTTT
59.810
47.826
0.00
0.00
0.00
2.66
854
4831
4.320788
CGACTAGAACCCTACACGAGTTTT
60.321
45.833
0.00
0.00
0.00
2.43
855
4832
5.536260
GACTAGAACCCTACACGAGTTTTT
58.464
41.667
0.00
0.00
0.00
1.94
879
4856
2.951229
TTTTGGAGAGGAACCTGACC
57.049
50.000
0.00
2.35
0.00
4.02
880
4857
1.814429
TTTGGAGAGGAACCTGACCA
58.186
50.000
0.00
4.94
0.00
4.02
881
4858
1.352083
TTGGAGAGGAACCTGACCAG
58.648
55.000
0.00
0.00
32.51
4.00
882
4859
0.487325
TGGAGAGGAACCTGACCAGA
59.513
55.000
0.00
0.00
0.00
3.86
883
4860
1.132849
TGGAGAGGAACCTGACCAGAA
60.133
52.381
0.00
0.00
0.00
3.02
884
4861
2.192263
GGAGAGGAACCTGACCAGAAT
58.808
52.381
0.00
0.00
0.00
2.40
885
4862
2.169561
GGAGAGGAACCTGACCAGAATC
59.830
54.545
0.00
0.00
0.00
2.52
886
4863
1.827969
AGAGGAACCTGACCAGAATCG
59.172
52.381
0.00
0.00
0.00
3.34
887
4864
0.905357
AGGAACCTGACCAGAATCGG
59.095
55.000
0.00
0.00
0.00
4.18
888
4865
0.902531
GGAACCTGACCAGAATCGGA
59.097
55.000
0.00
0.00
0.00
4.55
889
4866
1.405661
GGAACCTGACCAGAATCGGAC
60.406
57.143
0.00
0.00
0.00
4.79
890
4867
1.275291
GAACCTGACCAGAATCGGACA
59.725
52.381
0.00
0.00
0.00
4.02
891
4868
0.608640
ACCTGACCAGAATCGGACAC
59.391
55.000
0.00
0.00
0.00
3.67
915
4892
1.000955
CCCTACACGAGTTGCTCAAGT
59.999
52.381
0.00
0.00
0.00
3.16
986
4964
1.362406
GCTAGCCTGCGTGAAAGGTC
61.362
60.000
2.29
0.00
37.13
3.85
987
4965
1.078759
CTAGCCTGCGTGAAAGGTCG
61.079
60.000
0.00
0.00
37.13
4.79
1175
5176
5.051173
GCATCTTCATCAACTACATCGACTG
60.051
44.000
0.00
0.00
0.00
3.51
1290
5291
3.610040
TCAATCGTAGACCACTGCAAT
57.390
42.857
0.00
0.00
42.51
3.56
1419
5420
1.087771
CATACCTTGCGTTCGACCCC
61.088
60.000
0.00
0.00
0.00
4.95
1461
5462
0.950836
TGCTTTTGATCCCGTGTGTG
59.049
50.000
0.00
0.00
0.00
3.82
1638
5639
4.274459
CCACTAGAGCCAAAATCTATGTGC
59.726
45.833
0.00
0.00
32.72
4.57
1639
5640
4.025396
CACTAGAGCCAAAATCTATGTGCG
60.025
45.833
0.00
0.00
29.80
5.34
1726
5727
2.346545
GCGTTTGTCGTCAGGTATTACC
59.653
50.000
4.57
4.57
42.13
2.85
1756
5757
2.094957
GCAGAGTCGCACTTCTACTTCT
60.095
50.000
2.68
0.00
0.00
2.85
1757
5758
3.753842
CAGAGTCGCACTTCTACTTCTC
58.246
50.000
0.00
0.00
0.00
2.87
1758
5759
2.417239
AGAGTCGCACTTCTACTTCTCG
59.583
50.000
0.00
0.00
0.00
4.04
1759
5760
2.415857
GAGTCGCACTTCTACTTCTCGA
59.584
50.000
0.00
0.00
0.00
4.04
1760
5761
2.812591
AGTCGCACTTCTACTTCTCGAA
59.187
45.455
0.00
0.00
0.00
3.71
1761
5762
2.909863
GTCGCACTTCTACTTCTCGAAC
59.090
50.000
0.00
0.00
0.00
3.95
1762
5763
1.905687
CGCACTTCTACTTCTCGAACG
59.094
52.381
0.00
0.00
0.00
3.95
1763
5764
2.412455
CGCACTTCTACTTCTCGAACGA
60.412
50.000
0.00
0.00
0.00
3.85
1764
5765
3.728268
CGCACTTCTACTTCTCGAACGAT
60.728
47.826
0.00
0.00
0.00
3.73
1765
5766
3.544285
GCACTTCTACTTCTCGAACGATG
59.456
47.826
0.00
0.00
0.00
3.84
1766
5767
3.544285
CACTTCTACTTCTCGAACGATGC
59.456
47.826
0.00
0.00
0.00
3.91
1767
5768
3.440872
ACTTCTACTTCTCGAACGATGCT
59.559
43.478
0.00
0.00
0.00
3.79
1768
5769
4.082679
ACTTCTACTTCTCGAACGATGCTT
60.083
41.667
0.00
0.00
0.00
3.91
1769
5770
4.017380
TCTACTTCTCGAACGATGCTTC
57.983
45.455
0.00
0.00
0.00
3.86
1776
5777
4.379174
AACGATGCTTCGGTGCTT
57.621
50.000
23.79
8.13
45.42
3.91
1777
5778
2.629002
AACGATGCTTCGGTGCTTT
58.371
47.368
23.79
7.79
45.42
3.51
1778
5779
1.803334
AACGATGCTTCGGTGCTTTA
58.197
45.000
23.79
0.00
45.42
1.85
1779
5780
2.147958
AACGATGCTTCGGTGCTTTAA
58.852
42.857
23.79
0.00
45.42
1.52
1780
5781
2.159627
AACGATGCTTCGGTGCTTTAAG
59.840
45.455
23.79
0.00
45.42
1.85
1781
5782
1.062587
CGATGCTTCGGTGCTTTAAGG
59.937
52.381
13.82
0.00
41.74
2.69
1782
5783
0.811281
ATGCTTCGGTGCTTTAAGGC
59.189
50.000
1.97
1.97
0.00
4.35
1783
5784
0.536233
TGCTTCGGTGCTTTAAGGCA
60.536
50.000
8.37
8.37
40.15
4.75
1801
5802
5.552870
AGGCACCTACCTTTGTATCTATG
57.447
43.478
0.00
0.00
36.28
2.23
1802
5803
5.216622
AGGCACCTACCTTTGTATCTATGA
58.783
41.667
0.00
0.00
36.28
2.15
1803
5804
5.070580
AGGCACCTACCTTTGTATCTATGAC
59.929
44.000
0.00
0.00
36.28
3.06
1804
5805
5.163343
GGCACCTACCTTTGTATCTATGACA
60.163
44.000
0.00
0.00
0.00
3.58
1805
5806
6.464465
GGCACCTACCTTTGTATCTATGACAT
60.464
42.308
0.00
0.00
0.00
3.06
1806
5807
7.256190
GGCACCTACCTTTGTATCTATGACATA
60.256
40.741
0.00
0.00
0.00
2.29
1807
5808
8.314751
GCACCTACCTTTGTATCTATGACATAT
58.685
37.037
0.00
0.00
0.00
1.78
1808
5809
9.645059
CACCTACCTTTGTATCTATGACATATG
57.355
37.037
0.00
0.00
0.00
1.78
1809
5810
9.601810
ACCTACCTTTGTATCTATGACATATGA
57.398
33.333
10.38
0.00
0.00
2.15
1811
5812
9.579768
CTACCTTTGTATCTATGACATATGAGC
57.420
37.037
10.38
1.49
0.00
4.26
1812
5813
7.390027
ACCTTTGTATCTATGACATATGAGCC
58.610
38.462
10.38
0.00
0.00
4.70
1813
5814
6.820656
CCTTTGTATCTATGACATATGAGCCC
59.179
42.308
10.38
0.00
0.00
5.19
1814
5815
6.933514
TTGTATCTATGACATATGAGCCCA
57.066
37.500
10.38
2.28
0.00
5.36
1815
5816
6.933514
TGTATCTATGACATATGAGCCCAA
57.066
37.500
10.38
0.00
0.00
4.12
1816
5817
6.701340
TGTATCTATGACATATGAGCCCAAC
58.299
40.000
10.38
0.00
0.00
3.77
1817
5818
5.830799
ATCTATGACATATGAGCCCAACA
57.169
39.130
10.38
0.00
0.00
3.33
1818
5819
5.219343
TCTATGACATATGAGCCCAACAG
57.781
43.478
10.38
4.43
0.00
3.16
1819
5820
2.715749
TGACATATGAGCCCAACAGG
57.284
50.000
10.38
0.00
39.47
4.00
1820
5821
1.915489
TGACATATGAGCCCAACAGGT
59.085
47.619
10.38
0.00
38.26
4.00
1821
5822
2.292267
GACATATGAGCCCAACAGGTG
58.708
52.381
10.38
0.00
38.26
4.00
1830
5831
4.601794
CAACAGGTGGCTGGCCCA
62.602
66.667
9.28
0.00
42.79
5.36
1837
5838
3.752622
TGGCTGGCCCATATGTCA
58.247
55.556
9.28
0.00
39.18
3.58
1838
5839
2.005921
TGGCTGGCCCATATGTCAA
58.994
52.632
9.28
0.00
39.18
3.18
1839
5840
0.557238
TGGCTGGCCCATATGTCAAT
59.443
50.000
9.28
0.00
39.18
2.57
1840
5841
0.963962
GGCTGGCCCATATGTCAATG
59.036
55.000
0.00
0.00
0.00
2.82
1841
5842
1.479205
GGCTGGCCCATATGTCAATGA
60.479
52.381
0.00
0.00
0.00
2.57
1842
5843
1.610522
GCTGGCCCATATGTCAATGAC
59.389
52.381
6.41
6.41
0.00
3.06
1843
5844
2.233271
CTGGCCCATATGTCAATGACC
58.767
52.381
11.24
0.00
0.00
4.02
1844
5845
1.133513
TGGCCCATATGTCAATGACCC
60.134
52.381
11.24
3.42
0.00
4.46
1845
5846
1.133513
GGCCCATATGTCAATGACCCA
60.134
52.381
11.24
0.00
0.00
4.51
1846
5847
2.665165
GCCCATATGTCAATGACCCAA
58.335
47.619
11.24
0.00
0.00
4.12
1847
5848
3.030291
GCCCATATGTCAATGACCCAAA
58.970
45.455
11.24
0.00
0.00
3.28
1848
5849
3.068590
GCCCATATGTCAATGACCCAAAG
59.931
47.826
11.24
0.00
0.00
2.77
1849
5850
3.638160
CCCATATGTCAATGACCCAAAGG
59.362
47.826
11.24
6.48
40.04
3.11
1850
5851
3.068590
CCATATGTCAATGACCCAAAGGC
59.931
47.826
11.24
0.00
36.11
4.35
1851
5852
2.307496
ATGTCAATGACCCAAAGGCA
57.693
45.000
11.24
0.00
36.11
4.75
1852
5853
1.619654
TGTCAATGACCCAAAGGCAG
58.380
50.000
11.24
0.00
36.11
4.85
1853
5854
0.890683
GTCAATGACCCAAAGGCAGG
59.109
55.000
1.10
0.00
36.11
4.85
1854
5855
0.482446
TCAATGACCCAAAGGCAGGT
59.518
50.000
0.00
0.00
39.75
4.00
1855
5856
0.604578
CAATGACCCAAAGGCAGGTG
59.395
55.000
0.00
0.00
36.17
4.00
1856
5857
1.187567
AATGACCCAAAGGCAGGTGC
61.188
55.000
0.00
0.00
36.17
5.01
1874
5875
3.249687
CCTTTAAGGCACCGAAGCT
57.750
52.632
0.00
0.00
34.17
3.74
1875
5876
0.804989
CCTTTAAGGCACCGAAGCTG
59.195
55.000
0.00
0.00
34.17
4.24
1876
5877
0.169009
CTTTAAGGCACCGAAGCTGC
59.831
55.000
0.00
0.00
34.17
5.25
1877
5878
1.573829
TTTAAGGCACCGAAGCTGCG
61.574
55.000
7.28
7.28
35.31
5.18
1878
5879
2.725203
TTAAGGCACCGAAGCTGCGT
62.725
55.000
14.34
0.00
35.31
5.24
1882
5883
4.379243
CACCGAAGCTGCGTCCCT
62.379
66.667
14.34
0.00
0.00
4.20
1883
5884
2.678934
ACCGAAGCTGCGTCCCTA
60.679
61.111
14.34
0.00
0.00
3.53
1884
5885
2.202756
CCGAAGCTGCGTCCCTAC
60.203
66.667
14.34
0.00
0.00
3.18
1885
5886
2.711922
CCGAAGCTGCGTCCCTACT
61.712
63.158
14.34
0.00
0.00
2.57
1886
5887
1.215647
CGAAGCTGCGTCCCTACTT
59.784
57.895
5.73
0.00
0.00
2.24
1887
5888
0.802607
CGAAGCTGCGTCCCTACTTC
60.803
60.000
5.73
0.00
34.71
3.01
1888
5889
0.533032
GAAGCTGCGTCCCTACTTCT
59.467
55.000
4.11
0.00
35.09
2.85
1889
5890
0.977395
AAGCTGCGTCCCTACTTCTT
59.023
50.000
0.00
0.00
0.00
2.52
1964
5992
8.654997
ACTTCACCACTATAGCTATGAATTGAT
58.345
33.333
16.77
0.00
0.00
2.57
1990
6018
5.545658
TTTGCAGATTATCTTTGTCGGAC
57.454
39.130
0.00
0.00
0.00
4.79
1991
6019
4.200838
TGCAGATTATCTTTGTCGGACA
57.799
40.909
6.76
6.76
0.00
4.02
2214
6242
2.100197
AGATTTCCGGATCGACACAGA
58.900
47.619
4.15
0.00
0.00
3.41
2267
6295
1.033574
GGATGGAGGACGACGAGAAT
58.966
55.000
0.00
0.00
0.00
2.40
2269
6297
0.747255
ATGGAGGACGACGAGAATGG
59.253
55.000
0.00
0.00
0.00
3.16
2270
6298
0.323087
TGGAGGACGACGAGAATGGA
60.323
55.000
0.00
0.00
0.00
3.41
2294
6322
2.238144
TGGGGAGAAGCAGATGAAGAAG
59.762
50.000
0.00
0.00
0.00
2.85
2317
6345
1.610886
GGAGAAGGAGAAAACGGTGGG
60.611
57.143
0.00
0.00
0.00
4.61
2402
6430
5.585445
GCTGATTATGGATGCTTCTATGGAG
59.415
44.000
8.49
1.50
0.00
3.86
2431
6459
0.853530
ACTTCCTTGGCTTTCACCCT
59.146
50.000
0.00
0.00
0.00
4.34
2594
6622
0.324552
CACCCCTTGCATGATTGGGA
60.325
55.000
16.24
0.00
42.11
4.37
2595
6623
0.032813
ACCCCTTGCATGATTGGGAG
60.033
55.000
16.24
10.02
42.11
4.30
2601
6629
0.332293
TGCATGATTGGGAGGCTTCA
59.668
50.000
0.00
0.00
0.00
3.02
2602
6630
1.030457
GCATGATTGGGAGGCTTCAG
58.970
55.000
0.00
0.00
0.00
3.02
2604
6632
2.573369
CATGATTGGGAGGCTTCAGAG
58.427
52.381
0.00
0.00
0.00
3.35
2626
6654
0.737715
ATGCTTCAAGGAGTCGTCGC
60.738
55.000
0.00
0.00
0.00
5.19
2627
6655
2.095252
GCTTCAAGGAGTCGTCGCC
61.095
63.158
0.00
0.00
0.00
5.54
2628
6656
1.801913
CTTCAAGGAGTCGTCGCCG
60.802
63.158
0.00
0.00
38.56
6.46
2629
6657
2.473664
CTTCAAGGAGTCGTCGCCGT
62.474
60.000
0.00
0.00
38.56
5.68
2630
6658
2.467946
TTCAAGGAGTCGTCGCCGTC
62.468
60.000
0.00
0.00
38.56
4.79
2631
6659
4.099170
AAGGAGTCGTCGCCGTCG
62.099
66.667
0.00
0.00
38.56
5.12
2640
6668
1.443194
GTCGCCGTCGCAGAAGTTA
60.443
57.895
0.00
0.00
39.69
2.24
2649
6677
3.241804
CGTCGCAGAAGTTAGAGCATTTC
60.242
47.826
0.00
0.00
39.69
2.17
2650
6678
2.923655
TCGCAGAAGTTAGAGCATTTCG
59.076
45.455
0.00
0.00
0.00
3.46
2659
6687
1.896220
AGAGCATTTCGGCTGTTTGA
58.104
45.000
0.00
0.00
45.99
2.69
2672
6700
5.580691
TCGGCTGTTTGACTGAACAATATAG
59.419
40.000
0.00
0.00
38.90
1.31
2700
6728
1.749258
GCCGATGTTTGGGTCCTCC
60.749
63.158
0.00
0.00
0.00
4.30
2716
6744
4.320870
GTCCTCCGTTTTACCTTTGATGA
58.679
43.478
0.00
0.00
0.00
2.92
2724
6752
6.015504
CGTTTTACCTTTGATGATGTTCTCG
58.984
40.000
0.00
0.00
0.00
4.04
2754
6782
2.807895
CGGCAGGTCGGTTACGTG
60.808
66.667
0.00
0.00
44.94
4.49
2813
6873
4.930405
GGTCTAGTTAAGTGCCAAGAAGTC
59.070
45.833
0.00
0.00
0.00
3.01
2816
6876
7.376615
GTCTAGTTAAGTGCCAAGAAGTCTTA
58.623
38.462
0.00
0.00
34.28
2.10
2817
6877
7.542824
GTCTAGTTAAGTGCCAAGAAGTCTTAG
59.457
40.741
0.00
0.00
34.28
2.18
2818
6878
4.998033
AGTTAAGTGCCAAGAAGTCTTAGC
59.002
41.667
4.73
4.73
40.27
3.09
2819
6879
2.481289
AGTGCCAAGAAGTCTTAGCC
57.519
50.000
8.66
1.73
39.34
3.93
2853
6918
6.169094
TCTCTGGTTTCTTCAGCTATTTGAG
58.831
40.000
0.00
0.00
32.63
3.02
2854
6919
5.869579
TCTGGTTTCTTCAGCTATTTGAGT
58.130
37.500
0.00
0.00
32.63
3.41
2855
6920
7.004555
TCTGGTTTCTTCAGCTATTTGAGTA
57.995
36.000
0.00
0.00
32.63
2.59
2856
6921
7.624549
TCTGGTTTCTTCAGCTATTTGAGTAT
58.375
34.615
0.00
0.00
32.63
2.12
2857
6922
7.766278
TCTGGTTTCTTCAGCTATTTGAGTATC
59.234
37.037
0.00
0.00
32.63
2.24
2896
6964
6.238211
GCATGAATGAGTAGACATGTACAACC
60.238
42.308
0.00
0.00
41.14
3.77
2923
6991
0.878416
TGCACCGATAGTTTGCAACC
59.122
50.000
0.00
0.00
46.41
3.77
2945
7013
3.560882
CCTGAGCTTTGGGTTCTTCTGAT
60.561
47.826
0.00
0.00
0.00
2.90
3051
7120
7.315247
TCTTCAAACGAAATTGACAGAAGAA
57.685
32.000
0.00
0.00
38.95
2.52
3056
7125
6.391227
AACGAAATTGACAGAAGAAACCAT
57.609
33.333
0.00
0.00
0.00
3.55
3059
7128
5.619981
CGAAATTGACAGAAGAAACCATCCC
60.620
44.000
0.00
0.00
0.00
3.85
3063
7132
1.707427
ACAGAAGAAACCATCCCAGCT
59.293
47.619
0.00
0.00
0.00
4.24
3122
7213
1.430632
CGCATAACAGCCAGCCAAG
59.569
57.895
0.00
0.00
0.00
3.61
3123
7214
1.026182
CGCATAACAGCCAGCCAAGA
61.026
55.000
0.00
0.00
0.00
3.02
3175
7267
4.065281
GCCGTCTAGTGGCGTGGT
62.065
66.667
11.95
0.00
43.70
4.16
3210
7303
2.388121
CCTACGTTTCGTTTCGTCTGT
58.612
47.619
0.00
0.00
41.54
3.41
3220
7313
7.317177
GTTTCGTTTCGTCTGTATTTTGTTTG
58.683
34.615
0.00
0.00
0.00
2.93
3403
7497
3.822192
CCGTCGCGGGTCTCATCA
61.822
66.667
6.13
0.00
44.15
3.07
3414
7508
0.755686
GTCTCATCATCGGCCTCCTT
59.244
55.000
0.00
0.00
0.00
3.36
3415
7509
1.964223
GTCTCATCATCGGCCTCCTTA
59.036
52.381
0.00
0.00
0.00
2.69
3425
7519
2.967946
GCCTCCTTACACCGGCCTT
61.968
63.158
0.00
0.00
36.56
4.35
3504
7610
2.135581
ACCCGACGGACTTTCACCA
61.136
57.895
17.49
0.00
0.00
4.17
3524
7630
1.437772
CCGTAGTCTCATCGTCGGCT
61.438
60.000
0.00
0.00
0.00
5.52
3579
7685
4.421479
CGTCGGCCTCTTCGCACT
62.421
66.667
0.00
0.00
0.00
4.40
3588
7694
0.392193
CTCTTCGCACTGGCCTCATT
60.392
55.000
3.32
0.00
36.38
2.57
3626
7732
2.411701
CGCAGGCCTTATCGTCGA
59.588
61.111
0.00
0.00
0.00
4.20
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
127
128
4.345859
AGGGAACGACACAAAACTATCA
57.654
40.909
0.00
0.00
0.00
2.15
137
138
2.685100
CCTTCTACAAGGGAACGACAC
58.315
52.381
0.00
0.00
45.27
3.67
158
159
6.466812
TCAGTCTGAACATATCTGAGCAAAA
58.533
36.000
0.00
0.00
36.77
2.44
211
214
0.986019
ACCTGATCCAACCGCCCATA
60.986
55.000
0.00
0.00
0.00
2.74
280
283
3.887110
ACACCATACCGACGATGAGATTA
59.113
43.478
0.00
0.00
0.00
1.75
315
318
1.640428
ACAATGACCGTATCTGCACG
58.360
50.000
0.00
0.00
41.59
5.34
325
328
5.794687
TCAGCAAACTATAACAATGACCG
57.205
39.130
0.00
0.00
0.00
4.79
354
357
0.468648
ATAACCTAAGGCGACCCAGC
59.531
55.000
0.00
0.00
0.00
4.85
356
359
3.264964
AGAAAATAACCTAAGGCGACCCA
59.735
43.478
0.00
0.00
0.00
4.51
443
455
1.194547
GTCAACATCAACGACACGCAT
59.805
47.619
0.00
0.00
0.00
4.73
450
462
3.526534
TGAACACAGTCAACATCAACGA
58.473
40.909
0.00
0.00
0.00
3.85
456
468
5.555017
AGCTAGAATGAACACAGTCAACAT
58.445
37.500
0.00
0.00
32.13
2.71
469
481
3.254411
CGGTCTCTGCATAGCTAGAATGA
59.746
47.826
0.00
0.00
0.00
2.57
521
533
4.854399
TGTTGGCTCAAAATGAAACGTAG
58.146
39.130
0.00
0.00
0.00
3.51
524
536
5.462034
TTTTGTTGGCTCAAAATGAAACG
57.538
34.783
13.78
0.00
40.73
3.60
568
580
3.400255
GGTATTTCTAACCGATCCCAGC
58.600
50.000
0.00
0.00
0.00
4.85
606
619
1.473677
TGCAGCTGTGGTTTATGCATC
59.526
47.619
16.64
0.00
41.65
3.91
717
4685
8.013378
CACGTCTCGTTTTATTGATACCTTTTT
58.987
33.333
0.00
0.00
38.32
1.94
718
4686
7.360607
CCACGTCTCGTTTTATTGATACCTTTT
60.361
37.037
0.00
0.00
38.32
2.27
719
4687
6.091713
CCACGTCTCGTTTTATTGATACCTTT
59.908
38.462
0.00
0.00
38.32
3.11
720
4688
5.579511
CCACGTCTCGTTTTATTGATACCTT
59.420
40.000
0.00
0.00
38.32
3.50
721
4689
5.107133
CCACGTCTCGTTTTATTGATACCT
58.893
41.667
0.00
0.00
38.32
3.08
722
4690
4.866486
ACCACGTCTCGTTTTATTGATACC
59.134
41.667
0.00
0.00
38.32
2.73
723
4691
5.346822
ACACCACGTCTCGTTTTATTGATAC
59.653
40.000
0.00
0.00
38.32
2.24
724
4692
5.472148
ACACCACGTCTCGTTTTATTGATA
58.528
37.500
0.00
0.00
38.32
2.15
725
4693
4.312443
ACACCACGTCTCGTTTTATTGAT
58.688
39.130
0.00
0.00
38.32
2.57
726
4694
3.719924
ACACCACGTCTCGTTTTATTGA
58.280
40.909
0.00
0.00
38.32
2.57
727
4695
4.461992
AACACCACGTCTCGTTTTATTG
57.538
40.909
0.00
0.00
38.32
1.90
728
4696
4.812626
AGAAACACCACGTCTCGTTTTATT
59.187
37.500
7.06
0.00
38.32
1.40
729
4697
4.374399
AGAAACACCACGTCTCGTTTTAT
58.626
39.130
7.06
0.00
38.32
1.40
730
4698
3.784338
AGAAACACCACGTCTCGTTTTA
58.216
40.909
7.06
0.00
38.32
1.52
731
4699
2.624636
AGAAACACCACGTCTCGTTTT
58.375
42.857
7.06
0.00
38.32
2.43
732
4700
2.304751
AGAAACACCACGTCTCGTTT
57.695
45.000
5.65
5.65
38.32
3.60
733
4701
2.360165
AGTAGAAACACCACGTCTCGTT
59.640
45.455
0.00
0.00
38.32
3.85
795
4768
2.680913
GCGGCGCTGCTTATATGGG
61.681
63.158
33.43
0.00
0.00
4.00
859
4836
2.512056
TGGTCAGGTTCCTCTCCAAAAA
59.488
45.455
8.38
0.00
0.00
1.94
861
4838
1.699634
CTGGTCAGGTTCCTCTCCAAA
59.300
52.381
10.88
0.00
0.00
3.28
862
4839
1.132849
TCTGGTCAGGTTCCTCTCCAA
60.133
52.381
10.88
3.26
0.00
3.53
863
4840
0.487325
TCTGGTCAGGTTCCTCTCCA
59.513
55.000
9.81
9.81
0.00
3.86
866
4843
1.827969
CGATTCTGGTCAGGTTCCTCT
59.172
52.381
0.00
0.00
0.00
3.69
867
4844
1.134670
CCGATTCTGGTCAGGTTCCTC
60.135
57.143
0.00
0.00
0.00
3.71
868
4845
0.905357
CCGATTCTGGTCAGGTTCCT
59.095
55.000
0.00
0.00
0.00
3.36
869
4846
0.902531
TCCGATTCTGGTCAGGTTCC
59.097
55.000
0.00
0.00
0.00
3.62
870
4847
1.275291
TGTCCGATTCTGGTCAGGTTC
59.725
52.381
0.00
0.00
0.00
3.62
871
4848
1.002087
GTGTCCGATTCTGGTCAGGTT
59.998
52.381
0.00
0.00
0.00
3.50
872
4849
0.608640
GTGTCCGATTCTGGTCAGGT
59.391
55.000
0.00
0.00
0.00
4.00
873
4850
0.458543
CGTGTCCGATTCTGGTCAGG
60.459
60.000
0.00
0.00
35.63
3.86
874
4851
0.526211
TCGTGTCCGATTCTGGTCAG
59.474
55.000
0.00
0.00
38.40
3.51
875
4852
0.963225
TTCGTGTCCGATTCTGGTCA
59.037
50.000
0.00
0.00
43.80
4.02
876
4853
1.347320
GTTCGTGTCCGATTCTGGTC
58.653
55.000
0.00
0.00
43.80
4.02
877
4854
0.037605
GGTTCGTGTCCGATTCTGGT
60.038
55.000
0.00
0.00
43.80
4.00
878
4855
0.739813
GGGTTCGTGTCCGATTCTGG
60.740
60.000
0.00
0.00
43.80
3.86
879
4856
0.246635
AGGGTTCGTGTCCGATTCTG
59.753
55.000
0.00
0.00
43.80
3.02
880
4857
1.475682
GTAGGGTTCGTGTCCGATTCT
59.524
52.381
0.00
0.00
43.80
2.40
881
4858
1.203052
TGTAGGGTTCGTGTCCGATTC
59.797
52.381
0.00
0.00
43.80
2.52
882
4859
1.067354
GTGTAGGGTTCGTGTCCGATT
60.067
52.381
0.00
0.00
43.80
3.34
883
4860
0.529378
GTGTAGGGTTCGTGTCCGAT
59.471
55.000
0.00
0.00
43.80
4.18
884
4861
1.855213
CGTGTAGGGTTCGTGTCCGA
61.855
60.000
0.00
0.00
42.41
4.55
885
4862
1.443194
CGTGTAGGGTTCGTGTCCG
60.443
63.158
0.00
0.00
0.00
4.79
886
4863
0.109412
CTCGTGTAGGGTTCGTGTCC
60.109
60.000
0.00
0.00
0.00
4.02
887
4864
0.595095
ACTCGTGTAGGGTTCGTGTC
59.405
55.000
0.00
0.00
0.00
3.67
888
4865
1.035139
AACTCGTGTAGGGTTCGTGT
58.965
50.000
0.00
0.00
40.01
4.49
889
4866
1.415374
CAACTCGTGTAGGGTTCGTG
58.585
55.000
0.00
0.00
42.80
4.35
890
4867
0.319297
GCAACTCGTGTAGGGTTCGT
60.319
55.000
0.00
0.00
42.80
3.85
891
4868
0.038526
AGCAACTCGTGTAGGGTTCG
60.039
55.000
0.00
0.00
42.80
3.95
895
4872
1.000955
ACTTGAGCAACTCGTGTAGGG
59.999
52.381
0.00
0.00
32.35
3.53
986
4964
3.197790
CCATGTCTGGCTTCCGCG
61.198
66.667
0.00
0.00
35.23
6.46
987
4965
2.109126
GTCCATGTCTGGCTTCCGC
61.109
63.158
0.00
0.00
42.80
5.54
988
4966
1.450312
GGTCCATGTCTGGCTTCCG
60.450
63.158
0.00
0.00
42.80
4.30
989
4967
0.393537
CTGGTCCATGTCTGGCTTCC
60.394
60.000
0.00
0.00
42.80
3.46
990
4968
0.615331
TCTGGTCCATGTCTGGCTTC
59.385
55.000
0.00
0.00
42.80
3.86
991
4969
0.326264
GTCTGGTCCATGTCTGGCTT
59.674
55.000
0.00
0.00
42.80
4.35
992
4970
1.557269
GGTCTGGTCCATGTCTGGCT
61.557
60.000
0.00
0.00
42.80
4.75
993
4971
1.078143
GGTCTGGTCCATGTCTGGC
60.078
63.158
0.00
0.00
42.80
4.85
994
4972
1.219124
CGGTCTGGTCCATGTCTGG
59.781
63.158
0.00
0.00
44.64
3.86
1281
5282
1.888018
CAAGAGGCCATTGCAGTGG
59.112
57.895
23.20
23.20
42.35
4.00
1290
5291
2.681976
GCTCTCATAAAGCAAGAGGCCA
60.682
50.000
5.01
0.00
46.50
5.36
1419
5420
2.423898
ATAGTGGGGTGAGACGGCG
61.424
63.158
4.80
4.80
0.00
6.46
1461
5462
0.890996
CAGGGTCCACTTTGTCAGGC
60.891
60.000
0.00
0.00
0.00
4.85
1740
5741
2.896243
TCGAGAAGTAGAAGTGCGAC
57.104
50.000
0.00
0.00
0.00
5.19
1762
5763
1.202188
GCCTTAAAGCACCGAAGCATC
60.202
52.381
2.02
0.00
36.85
3.91
1763
5764
0.811281
GCCTTAAAGCACCGAAGCAT
59.189
50.000
2.02
0.00
36.85
3.79
1764
5765
0.536233
TGCCTTAAAGCACCGAAGCA
60.536
50.000
0.00
0.00
38.00
3.91
1765
5766
2.253513
TGCCTTAAAGCACCGAAGC
58.746
52.632
0.00
0.00
38.00
3.86
1779
5780
5.070580
GTCATAGATACAAAGGTAGGTGCCT
59.929
44.000
0.00
0.00
41.41
4.75
1780
5781
5.163343
TGTCATAGATACAAAGGTAGGTGCC
60.163
44.000
0.00
0.00
31.88
5.01
1781
5782
5.914033
TGTCATAGATACAAAGGTAGGTGC
58.086
41.667
0.00
0.00
31.88
5.01
1782
5783
9.645059
CATATGTCATAGATACAAAGGTAGGTG
57.355
37.037
0.00
0.00
31.88
4.00
1783
5784
9.601810
TCATATGTCATAGATACAAAGGTAGGT
57.398
33.333
1.90
0.00
31.88
3.08
1785
5786
9.579768
GCTCATATGTCATAGATACAAAGGTAG
57.420
37.037
1.90
0.00
31.88
3.18
1786
5787
8.531982
GGCTCATATGTCATAGATACAAAGGTA
58.468
37.037
1.90
0.00
0.00
3.08
1787
5788
7.390027
GGCTCATATGTCATAGATACAAAGGT
58.610
38.462
1.90
0.00
0.00
3.50
1788
5789
6.820656
GGGCTCATATGTCATAGATACAAAGG
59.179
42.308
1.90
0.00
0.00
3.11
1789
5790
7.389232
TGGGCTCATATGTCATAGATACAAAG
58.611
38.462
1.90
0.00
0.00
2.77
1790
5791
7.315066
TGGGCTCATATGTCATAGATACAAA
57.685
36.000
1.90
0.00
0.00
2.83
1791
5792
6.933514
TGGGCTCATATGTCATAGATACAA
57.066
37.500
1.90
0.00
0.00
2.41
1792
5793
6.269769
TGTTGGGCTCATATGTCATAGATACA
59.730
38.462
1.90
0.00
0.00
2.29
1793
5794
6.701340
TGTTGGGCTCATATGTCATAGATAC
58.299
40.000
1.90
0.00
0.00
2.24
1794
5795
6.070596
CCTGTTGGGCTCATATGTCATAGATA
60.071
42.308
1.90
0.00
0.00
1.98
1795
5796
5.280368
CCTGTTGGGCTCATATGTCATAGAT
60.280
44.000
1.90
0.00
0.00
1.98
1796
5797
4.040829
CCTGTTGGGCTCATATGTCATAGA
59.959
45.833
1.90
0.00
0.00
1.98
1797
5798
4.202398
ACCTGTTGGGCTCATATGTCATAG
60.202
45.833
1.90
0.00
39.10
2.23
1798
5799
3.716353
ACCTGTTGGGCTCATATGTCATA
59.284
43.478
1.90
0.00
39.10
2.15
1799
5800
2.511218
ACCTGTTGGGCTCATATGTCAT
59.489
45.455
1.90
0.00
39.10
3.06
1800
5801
1.915489
ACCTGTTGGGCTCATATGTCA
59.085
47.619
1.90
0.00
39.10
3.58
1801
5802
2.292267
CACCTGTTGGGCTCATATGTC
58.708
52.381
1.90
0.00
39.10
3.06
1802
5803
1.064463
CCACCTGTTGGGCTCATATGT
60.064
52.381
1.90
0.00
42.54
2.29
1803
5804
1.683943
CCACCTGTTGGGCTCATATG
58.316
55.000
0.00
0.00
42.54
1.78
1813
5814
2.497792
TATGGGCCAGCCACCTGTTG
62.498
60.000
13.78
0.00
37.38
3.33
1814
5815
1.583784
ATATGGGCCAGCCACCTGTT
61.584
55.000
13.78
0.00
37.38
3.16
1815
5816
2.008723
ATATGGGCCAGCCACCTGT
61.009
57.895
13.78
0.00
37.38
4.00
1816
5817
1.529948
CATATGGGCCAGCCACCTG
60.530
63.158
13.78
0.00
38.85
4.00
1817
5818
1.999634
GACATATGGGCCAGCCACCT
62.000
60.000
13.78
0.00
37.98
4.00
1818
5819
1.529244
GACATATGGGCCAGCCACC
60.529
63.158
13.78
0.00
37.98
4.61
1819
5820
0.395586
TTGACATATGGGCCAGCCAC
60.396
55.000
13.78
2.96
37.98
5.01
1820
5821
0.557238
ATTGACATATGGGCCAGCCA
59.443
50.000
13.78
0.00
37.98
4.75
1821
5822
0.963962
CATTGACATATGGGCCAGCC
59.036
55.000
13.78
0.00
0.00
4.85
1822
5823
1.610522
GTCATTGACATATGGGCCAGC
59.389
52.381
13.78
0.00
32.09
4.85
1823
5824
2.233271
GGTCATTGACATATGGGCCAG
58.767
52.381
13.78
0.00
33.68
4.85
1824
5825
1.133513
GGGTCATTGACATATGGGCCA
60.134
52.381
18.09
9.61
33.68
5.36
1825
5826
1.133513
TGGGTCATTGACATATGGGCC
60.134
52.381
18.09
8.73
33.68
5.80
1826
5827
2.363306
TGGGTCATTGACATATGGGC
57.637
50.000
18.09
0.00
33.68
5.36
1827
5828
3.638160
CCTTTGGGTCATTGACATATGGG
59.362
47.826
18.09
10.15
33.68
4.00
1828
5829
3.068590
GCCTTTGGGTCATTGACATATGG
59.931
47.826
18.09
12.97
33.68
2.74
1829
5830
3.700539
TGCCTTTGGGTCATTGACATATG
59.299
43.478
18.09
0.00
33.68
1.78
1830
5831
3.956199
CTGCCTTTGGGTCATTGACATAT
59.044
43.478
18.09
0.00
33.68
1.78
1831
5832
3.355378
CTGCCTTTGGGTCATTGACATA
58.645
45.455
18.09
3.86
33.68
2.29
1832
5833
2.173519
CTGCCTTTGGGTCATTGACAT
58.826
47.619
18.09
0.00
33.68
3.06
1833
5834
1.619654
CTGCCTTTGGGTCATTGACA
58.380
50.000
18.09
0.00
33.68
3.58
1834
5835
0.890683
CCTGCCTTTGGGTCATTGAC
59.109
55.000
8.34
8.34
34.45
3.18
1835
5836
0.482446
ACCTGCCTTTGGGTCATTGA
59.518
50.000
0.00
0.00
34.45
2.57
1836
5837
0.604578
CACCTGCCTTTGGGTCATTG
59.395
55.000
0.00
0.00
32.95
2.82
1837
5838
1.187567
GCACCTGCCTTTGGGTCATT
61.188
55.000
0.00
0.00
32.95
2.57
1838
5839
1.607467
GCACCTGCCTTTGGGTCAT
60.607
57.895
0.00
0.00
32.95
3.06
1839
5840
2.203480
GCACCTGCCTTTGGGTCA
60.203
61.111
0.00
0.00
32.95
4.02
1856
5857
0.804989
CAGCTTCGGTGCCTTAAAGG
59.195
55.000
0.00
0.00
38.80
3.11
1865
5866
3.001902
TAGGGACGCAGCTTCGGTG
62.002
63.158
11.19
0.00
0.00
4.94
1866
5867
2.678934
TAGGGACGCAGCTTCGGT
60.679
61.111
11.19
0.00
0.00
4.69
1867
5868
2.202756
GTAGGGACGCAGCTTCGG
60.203
66.667
11.19
0.00
0.00
4.30
1868
5869
0.802607
GAAGTAGGGACGCAGCTTCG
60.803
60.000
3.63
3.63
0.00
3.79
1869
5870
0.533032
AGAAGTAGGGACGCAGCTTC
59.467
55.000
14.09
14.09
36.69
3.86
1870
5871
0.977395
AAGAAGTAGGGACGCAGCTT
59.023
50.000
0.00
0.00
0.00
3.74
1871
5872
0.977395
AAAGAAGTAGGGACGCAGCT
59.023
50.000
0.00
0.00
0.00
4.24
1872
5873
1.464997
CAAAAGAAGTAGGGACGCAGC
59.535
52.381
0.00
0.00
0.00
5.25
1873
5874
2.737252
GACAAAAGAAGTAGGGACGCAG
59.263
50.000
0.00
0.00
0.00
5.18
1874
5875
2.367567
AGACAAAAGAAGTAGGGACGCA
59.632
45.455
0.00
0.00
0.00
5.24
1875
5876
3.041508
AGACAAAAGAAGTAGGGACGC
57.958
47.619
0.00
0.00
0.00
5.19
1876
5877
5.780984
ACTAAGACAAAAGAAGTAGGGACG
58.219
41.667
0.00
0.00
0.00
4.79
1877
5878
6.812656
GCTACTAAGACAAAAGAAGTAGGGAC
59.187
42.308
9.22
0.00
39.87
4.46
1878
5879
6.932947
GCTACTAAGACAAAAGAAGTAGGGA
58.067
40.000
9.22
0.00
39.87
4.20
1879
5880
5.805994
CGCTACTAAGACAAAAGAAGTAGGG
59.194
44.000
9.51
9.51
43.04
3.53
1880
5881
6.388278
ACGCTACTAAGACAAAAGAAGTAGG
58.612
40.000
9.22
3.53
39.87
3.18
1881
5882
7.870588
AACGCTACTAAGACAAAAGAAGTAG
57.129
36.000
0.00
0.00
41.56
2.57
1882
5883
8.652810
AAAACGCTACTAAGACAAAAGAAGTA
57.347
30.769
0.00
0.00
0.00
2.24
1883
5884
7.494952
AGAAAACGCTACTAAGACAAAAGAAGT
59.505
33.333
0.00
0.00
0.00
3.01
1884
5885
7.852516
AGAAAACGCTACTAAGACAAAAGAAG
58.147
34.615
0.00
0.00
0.00
2.85
1885
5886
7.709613
AGAGAAAACGCTACTAAGACAAAAGAA
59.290
33.333
0.00
0.00
0.00
2.52
1886
5887
7.208080
AGAGAAAACGCTACTAAGACAAAAGA
58.792
34.615
0.00
0.00
0.00
2.52
1887
5888
7.409465
AGAGAAAACGCTACTAAGACAAAAG
57.591
36.000
0.00
0.00
0.00
2.27
1888
5889
7.781548
AAGAGAAAACGCTACTAAGACAAAA
57.218
32.000
0.00
0.00
0.00
2.44
1964
5992
8.181573
GTCCGACAAAGATAATCTGCAAAATTA
58.818
33.333
4.23
4.23
0.00
1.40
1990
6018
7.189512
GCATCTTAATTACTTGGTACTTGCTG
58.810
38.462
0.00
0.00
0.00
4.41
1991
6019
6.318900
GGCATCTTAATTACTTGGTACTTGCT
59.681
38.462
0.00
0.00
0.00
3.91
2214
6242
3.634397
TTTCAAATCCCTCGAGCTCAT
57.366
42.857
15.40
0.00
0.00
2.90
2248
6276
1.033574
ATTCTCGTCGTCCTCCATCC
58.966
55.000
0.00
0.00
0.00
3.51
2267
6295
0.043183
TCTGCTTCTCCCCATCTCCA
59.957
55.000
0.00
0.00
0.00
3.86
2269
6297
2.045524
TCATCTGCTTCTCCCCATCTC
58.954
52.381
0.00
0.00
0.00
2.75
2270
6298
2.187239
TCATCTGCTTCTCCCCATCT
57.813
50.000
0.00
0.00
0.00
2.90
2294
6322
3.067833
CACCGTTTTCTCCTTCTCCTTC
58.932
50.000
0.00
0.00
0.00
3.46
2317
6345
9.585099
CATTCTAGATTCTCTGGTATTAGCATC
57.415
37.037
0.00
0.00
0.00
3.91
2402
6430
1.675116
GCCAAGGAAGTAGACGTTCCC
60.675
57.143
0.00
0.00
44.12
3.97
2431
6459
4.647399
CCCAAGAAAACAACCTCCTTGTAA
59.353
41.667
0.00
0.00
42.70
2.41
2563
6591
2.785562
CAAGGGGTGTACGGAAATGAA
58.214
47.619
0.00
0.00
0.00
2.57
2594
6622
1.627329
TGAAGCATGACTCTGAAGCCT
59.373
47.619
0.00
0.00
0.00
4.58
2595
6623
2.105006
TGAAGCATGACTCTGAAGCC
57.895
50.000
0.00
0.00
0.00
4.35
2601
6629
2.094286
CGACTCCTTGAAGCATGACTCT
60.094
50.000
0.00
0.00
0.00
3.24
2602
6630
2.266554
CGACTCCTTGAAGCATGACTC
58.733
52.381
0.00
0.00
0.00
3.36
2604
6632
1.996191
GACGACTCCTTGAAGCATGAC
59.004
52.381
0.00
0.00
0.00
3.06
2626
6654
0.109272
TGCTCTAACTTCTGCGACGG
60.109
55.000
0.00
0.00
0.00
4.79
2627
6655
1.914634
ATGCTCTAACTTCTGCGACG
58.085
50.000
0.00
0.00
0.00
5.12
2628
6656
3.241804
CGAAATGCTCTAACTTCTGCGAC
60.242
47.826
0.00
0.00
0.00
5.19
2629
6657
2.923655
CGAAATGCTCTAACTTCTGCGA
59.076
45.455
0.00
0.00
0.00
5.10
2630
6658
2.029728
CCGAAATGCTCTAACTTCTGCG
59.970
50.000
0.00
0.00
0.00
5.18
2631
6659
2.223135
GCCGAAATGCTCTAACTTCTGC
60.223
50.000
0.00
0.00
0.00
4.26
2636
6664
2.770164
ACAGCCGAAATGCTCTAACT
57.230
45.000
0.00
0.00
40.32
2.24
2640
6668
1.537202
GTCAAACAGCCGAAATGCTCT
59.463
47.619
0.00
0.00
40.32
4.09
2649
6677
4.685169
ATATTGTTCAGTCAAACAGCCG
57.315
40.909
0.00
0.00
40.08
5.52
2650
6678
5.880332
TCCTATATTGTTCAGTCAAACAGCC
59.120
40.000
0.00
0.00
40.08
4.85
2659
6687
5.300286
GCTGCCATTTCCTATATTGTTCAGT
59.700
40.000
0.00
0.00
0.00
3.41
2672
6700
0.532115
AAACATCGGCTGCCATTTCC
59.468
50.000
20.29
0.00
0.00
3.13
2700
6728
6.015504
CGAGAACATCATCAAAGGTAAAACG
58.984
40.000
0.00
0.00
0.00
3.60
2716
6744
2.808543
GGAGCAGTTTCAACGAGAACAT
59.191
45.455
0.00
0.00
35.56
2.71
2724
6752
3.744559
TGCCGGAGCAGTTTCAAC
58.255
55.556
5.05
0.00
46.52
3.18
2754
6782
5.796350
AATGATACAGAACGCAGGTTAAC
57.204
39.130
0.00
0.00
36.24
2.01
2791
6851
5.785243
AGACTTCTTGGCACTTAACTAGAC
58.215
41.667
0.00
0.00
0.00
2.59
2813
6873
4.219288
ACCAGAGAAATGCAAAAGGCTAAG
59.781
41.667
0.00
0.00
45.15
2.18
2816
6876
2.601905
ACCAGAGAAATGCAAAAGGCT
58.398
42.857
0.00
0.00
45.15
4.58
2817
6877
3.391506
AACCAGAGAAATGCAAAAGGC
57.608
42.857
0.00
0.00
45.13
4.35
2818
6878
5.205759
AGAAACCAGAGAAATGCAAAAGG
57.794
39.130
0.00
0.00
0.00
3.11
2819
6879
6.275335
TGAAGAAACCAGAGAAATGCAAAAG
58.725
36.000
0.00
0.00
0.00
2.27
2872
6937
6.019559
CGGTTGTACATGTCTACTCATTCATG
60.020
42.308
0.00
0.00
42.00
3.07
2878
6943
5.654603
ATTCGGTTGTACATGTCTACTCA
57.345
39.130
0.00
0.00
0.00
3.41
2884
6949
3.723835
GCACGAATTCGGTTGTACATGTC
60.724
47.826
29.79
10.11
44.95
3.06
2923
6991
2.157738
CAGAAGAACCCAAAGCTCAGG
58.842
52.381
0.00
0.00
0.00
3.86
2945
7013
4.445453
CATCCAAGTGAATCATCGAGGAA
58.555
43.478
2.91
0.00
0.00
3.36
2993
7061
2.971330
TCAATTTCATTGGCAGGTGGTT
59.029
40.909
2.71
0.00
40.61
3.67
3027
7096
6.918892
TCTTCTGTCAATTTCGTTTGAAGA
57.081
33.333
0.00
0.00
37.36
2.87
3051
7120
2.036256
GCCACAGCTGGGATGGTT
59.964
61.111
20.22
0.00
38.13
3.67
3122
7213
1.650363
CCACGTTCCGTTTTGGGTC
59.350
57.895
0.00
0.00
38.32
4.46
3123
7214
1.824760
CCCACGTTCCGTTTTGGGT
60.825
57.895
0.00
0.00
38.32
4.51
3210
7303
8.240682
CCATTATTCGTCAGACCAAACAAAATA
58.759
33.333
0.00
0.00
0.00
1.40
3220
7313
1.935933
ACGCCATTATTCGTCAGACC
58.064
50.000
0.00
0.00
33.09
3.85
3277
7370
6.466308
CGAATCTATGGCATTATTCGTCAA
57.534
37.500
29.99
5.40
43.39
3.18
3403
7497
2.432300
CCGGTGTAAGGAGGCCGAT
61.432
63.158
0.00
0.00
46.33
4.18
3414
7508
2.265424
GGCGTTAAGGCCGGTGTA
59.735
61.111
22.38
0.00
44.40
2.90
3504
7610
1.712977
GCCGACGATGAGACTACGGT
61.713
60.000
0.00
0.00
41.92
4.83
3588
7694
4.704833
GCGAAGGTCTGCCAGGCA
62.705
66.667
15.23
15.23
37.19
4.75
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.