Multiple sequence alignment - TraesCS7A01G410900
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
TraesCS7A01G410900
chr7A
100.000
6035
0
0
1
6035
598355355
598349321
0.000000e+00
11145.0
1
TraesCS7A01G410900
chr7B
96.728
4920
132
18
1013
5922
554193696
554188796
0.000000e+00
8167.0
2
TraesCS7A01G410900
chr7B
90.311
867
57
12
948
1812
554339838
554338997
0.000000e+00
1110.0
3
TraesCS7A01G410900
chr7B
87.548
787
95
3
1
787
639868927
639869710
0.000000e+00
907.0
4
TraesCS7A01G410900
chr7B
88.837
430
31
9
955
1384
554355552
554355140
4.170000e-141
512.0
5
TraesCS7A01G410900
chr7B
94.068
118
5
2
5920
6035
554188747
554188630
1.730000e-40
178.0
6
TraesCS7A01G410900
chr7D
97.355
4613
100
14
1316
5922
520865159
520860563
0.000000e+00
7823.0
7
TraesCS7A01G410900
chr7D
88.396
586
45
14
955
1539
520872334
520871771
0.000000e+00
684.0
8
TraesCS7A01G410900
chr7D
93.966
116
6
1
5920
6035
520860515
520860401
2.240000e-39
174.0
9
TraesCS7A01G410900
chr7D
81.461
178
5
9
948
1112
520865763
520865601
2.950000e-23
121.0
10
TraesCS7A01G410900
chr3B
86.224
784
106
2
1
784
763272806
763272025
0.000000e+00
848.0
11
TraesCS7A01G410900
chr3B
84.949
784
116
2
1
784
774793728
774792947
0.000000e+00
793.0
12
TraesCS7A01G410900
chr3B
84.724
779
117
1
1
779
750201612
750202388
0.000000e+00
778.0
13
TraesCS7A01G410900
chr3B
83.549
772
123
3
1
771
457597057
457596289
0.000000e+00
719.0
14
TraesCS7A01G410900
chr5B
85.842
784
109
2
1
784
623557601
623556820
0.000000e+00
832.0
15
TraesCS7A01G410900
chr5B
85.842
784
109
2
1
784
627155835
627155054
0.000000e+00
832.0
16
TraesCS7A01G410900
chr4A
85.077
784
113
3
1
784
196568343
196567564
0.000000e+00
797.0
17
TraesCS7A01G410900
chr4D
82.803
785
132
2
1
784
446170652
446169870
0.000000e+00
699.0
18
TraesCS7A01G410900
chrUn
86.957
138
18
0
2411
2548
22142955
22142818
8.100000e-34
156.0
19
TraesCS7A01G410900
chrUn
98.438
64
1
0
2545
2608
22142269
22142206
4.940000e-21
113.0
20
TraesCS7A01G410900
chr2A
86.957
138
18
0
2411
2548
681091991
681092128
8.100000e-34
156.0
21
TraesCS7A01G410900
chr2B
80.172
232
22
7
1417
1648
17597010
17596803
1.050000e-32
152.0
22
TraesCS7A01G410900
chr2D
98.438
64
1
0
2545
2608
538669336
538669399
4.940000e-21
113.0
23
TraesCS7A01G410900
chr3D
97.143
35
1
0
5494
5528
37073516
37073550
6.530000e-05
60.2
24
TraesCS7A01G410900
chr3D
100.000
28
0
0
5500
5527
37073501
37073474
1.100000e-02
52.8
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
TraesCS7A01G410900
chr7A
598349321
598355355
6034
True
11145.0
11145
100.000000
1
6035
1
chr7A.!!$R1
6034
1
TraesCS7A01G410900
chr7B
554188630
554193696
5066
True
4172.5
8167
95.398000
1013
6035
2
chr7B.!!$R3
5022
2
TraesCS7A01G410900
chr7B
554338997
554339838
841
True
1110.0
1110
90.311000
948
1812
1
chr7B.!!$R1
864
3
TraesCS7A01G410900
chr7B
639868927
639869710
783
False
907.0
907
87.548000
1
787
1
chr7B.!!$F1
786
4
TraesCS7A01G410900
chr7D
520860401
520865763
5362
True
2706.0
7823
90.927333
948
6035
3
chr7D.!!$R2
5087
5
TraesCS7A01G410900
chr7D
520871771
520872334
563
True
684.0
684
88.396000
955
1539
1
chr7D.!!$R1
584
6
TraesCS7A01G410900
chr3B
763272025
763272806
781
True
848.0
848
86.224000
1
784
1
chr3B.!!$R2
783
7
TraesCS7A01G410900
chr3B
774792947
774793728
781
True
793.0
793
84.949000
1
784
1
chr3B.!!$R3
783
8
TraesCS7A01G410900
chr3B
750201612
750202388
776
False
778.0
778
84.724000
1
779
1
chr3B.!!$F1
778
9
TraesCS7A01G410900
chr3B
457596289
457597057
768
True
719.0
719
83.549000
1
771
1
chr3B.!!$R1
770
10
TraesCS7A01G410900
chr5B
623556820
623557601
781
True
832.0
832
85.842000
1
784
1
chr5B.!!$R1
783
11
TraesCS7A01G410900
chr5B
627155054
627155835
781
True
832.0
832
85.842000
1
784
1
chr5B.!!$R2
783
12
TraesCS7A01G410900
chr4A
196567564
196568343
779
True
797.0
797
85.077000
1
784
1
chr4A.!!$R1
783
13
TraesCS7A01G410900
chr4D
446169870
446170652
782
True
699.0
699
82.803000
1
784
1
chr4D.!!$R1
783
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
255
257
0.036010
ACCTTGTCATTGAGGCCGAG
60.036
55.000
0.00
0.0
36.48
4.63
F
2034
2293
0.037590
AAGGGCGTACAATTGCTGGA
59.962
50.000
5.05
0.0
0.00
3.86
F
2750
3009
1.277842
TGTTGAGCTCCTATCGGCAAA
59.722
47.619
12.15
0.0
0.00
3.68
F
4446
4705
1.754803
CTATCTGGTGCTTCCACGGTA
59.245
52.381
0.00
0.0
43.00
4.02
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
2193
2452
0.038744
CTGTGATCCCAGTGGCCTTT
59.961
55.000
3.32
0.0
0.00
3.11
R
3072
3331
0.391263
GCTGGACCTCCGTAACCTTG
60.391
60.000
0.00
0.0
39.43
3.61
R
4708
4967
0.178964
CCTTCCCCAGTTTTGCCAGA
60.179
55.000
0.00
0.0
0.00
3.86
R
5910
6176
1.455408
GTTTAAGCGCAACAATGGCAC
59.545
47.619
11.47
0.0
0.00
5.01
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
48
50
0.890542
TGTTGCAATCGCCTTCAGCT
60.891
50.000
0.59
0.00
40.39
4.24
93
95
2.925966
TTGCCATGATTTCCTCCCTT
57.074
45.000
0.00
0.00
0.00
3.95
101
103
5.308825
CATGATTTCCTCCCTTTACGCTAT
58.691
41.667
0.00
0.00
0.00
2.97
127
129
5.296780
TCAATCAAGCGATCCATAACCTTTC
59.703
40.000
0.00
0.00
0.00
2.62
255
257
0.036010
ACCTTGTCATTGAGGCCGAG
60.036
55.000
0.00
0.00
36.48
4.63
279
281
1.474478
TCTTGCAACTTGTTCGCCAAA
59.526
42.857
0.00
0.00
31.20
3.28
280
282
2.094494
TCTTGCAACTTGTTCGCCAAAA
60.094
40.909
0.00
0.00
31.20
2.44
300
303
3.807538
GCTAGTGTCGTCGCCGGA
61.808
66.667
5.05
0.00
33.95
5.14
307
310
1.957695
GTCGTCGCCGGACCTTTTT
60.958
57.895
5.05
0.00
40.17
1.94
435
438
1.227089
CGTCTTGAGCAGGATCGGG
60.227
63.158
0.00
0.00
0.00
5.14
456
459
2.354103
GCTGTGATCACTCTTGGCTACA
60.354
50.000
25.55
1.46
0.00
2.74
471
474
2.166664
GGCTACAGTCAGGTGTTCTAGG
59.833
54.545
0.00
0.00
31.46
3.02
551
554
1.535204
CCCTGCAATGTTGACCACCC
61.535
60.000
0.00
0.00
0.00
4.61
587
590
4.523943
TCAAAAGTCCAATCAAGACCCATG
59.476
41.667
0.00
0.00
34.67
3.66
757
760
5.280727
CCCTCCTCAACCTCTTCATAGTTTT
60.281
44.000
0.00
0.00
0.00
2.43
784
787
2.596904
TTATACCGCAAGCTCCTGTC
57.403
50.000
0.00
0.00
0.00
3.51
786
789
0.905357
ATACCGCAAGCTCCTGTCTT
59.095
50.000
0.00
0.00
0.00
3.01
787
790
1.552578
TACCGCAAGCTCCTGTCTTA
58.447
50.000
0.00
0.00
0.00
2.10
788
791
0.905357
ACCGCAAGCTCCTGTCTTAT
59.095
50.000
0.00
0.00
0.00
1.73
789
792
1.134670
ACCGCAAGCTCCTGTCTTATC
60.135
52.381
0.00
0.00
0.00
1.75
790
793
1.134699
CCGCAAGCTCCTGTCTTATCA
60.135
52.381
0.00
0.00
0.00
2.15
791
794
2.621338
CGCAAGCTCCTGTCTTATCAA
58.379
47.619
0.00
0.00
0.00
2.57
792
795
3.201290
CGCAAGCTCCTGTCTTATCAAT
58.799
45.455
0.00
0.00
0.00
2.57
793
796
3.247173
CGCAAGCTCCTGTCTTATCAATC
59.753
47.826
0.00
0.00
0.00
2.67
794
797
4.194640
GCAAGCTCCTGTCTTATCAATCA
58.805
43.478
0.00
0.00
0.00
2.57
795
798
4.820716
GCAAGCTCCTGTCTTATCAATCAT
59.179
41.667
0.00
0.00
0.00
2.45
796
799
5.298777
GCAAGCTCCTGTCTTATCAATCATT
59.701
40.000
0.00
0.00
0.00
2.57
797
800
6.726230
CAAGCTCCTGTCTTATCAATCATTG
58.274
40.000
0.00
0.00
0.00
2.82
798
801
5.999044
AGCTCCTGTCTTATCAATCATTGT
58.001
37.500
0.00
0.00
0.00
2.71
799
802
5.821470
AGCTCCTGTCTTATCAATCATTGTG
59.179
40.000
0.00
0.00
0.00
3.33
800
803
5.505324
GCTCCTGTCTTATCAATCATTGTGC
60.505
44.000
0.00
0.00
0.00
4.57
801
804
4.883585
TCCTGTCTTATCAATCATTGTGCC
59.116
41.667
0.00
0.00
0.00
5.01
802
805
4.885907
CCTGTCTTATCAATCATTGTGCCT
59.114
41.667
0.00
0.00
0.00
4.75
803
806
6.057533
CCTGTCTTATCAATCATTGTGCCTA
58.942
40.000
0.00
0.00
0.00
3.93
804
807
6.543465
CCTGTCTTATCAATCATTGTGCCTAA
59.457
38.462
0.00
0.00
0.00
2.69
805
808
7.255035
CCTGTCTTATCAATCATTGTGCCTAAG
60.255
40.741
0.00
2.33
0.00
2.18
806
809
6.543465
TGTCTTATCAATCATTGTGCCTAAGG
59.457
38.462
0.00
0.00
0.00
2.69
816
819
4.858680
GCCTAAGGCCGGCCAGAC
62.859
72.222
45.13
25.21
44.06
3.51
817
820
4.176752
CCTAAGGCCGGCCAGACC
62.177
72.222
45.13
20.27
38.92
3.85
818
821
3.083997
CTAAGGCCGGCCAGACCT
61.084
66.667
45.13
24.03
38.92
3.85
819
822
2.609610
TAAGGCCGGCCAGACCTT
60.610
61.111
45.13
31.69
45.62
3.50
820
823
2.198304
CTAAGGCCGGCCAGACCTTT
62.198
60.000
45.13
30.97
40.98
3.11
821
824
1.785353
TAAGGCCGGCCAGACCTTTT
61.785
55.000
45.13
30.25
40.98
2.27
822
825
2.600470
GGCCGGCCAGACCTTTTT
60.600
61.111
40.73
0.00
35.61
1.94
823
826
1.303806
GGCCGGCCAGACCTTTTTA
60.304
57.895
40.73
0.00
35.61
1.52
824
827
1.592400
GGCCGGCCAGACCTTTTTAC
61.592
60.000
40.73
7.78
35.61
2.01
825
828
1.918868
GCCGGCCAGACCTTTTTACG
61.919
60.000
18.11
0.00
35.61
3.18
826
829
1.303091
CCGGCCAGACCTTTTTACGG
61.303
60.000
2.24
0.00
35.61
4.02
827
830
0.604511
CGGCCAGACCTTTTTACGGT
60.605
55.000
2.24
0.00
37.50
4.83
828
831
1.612676
GGCCAGACCTTTTTACGGTT
58.387
50.000
0.00
0.00
34.19
4.44
829
832
1.538512
GGCCAGACCTTTTTACGGTTC
59.461
52.381
0.00
0.00
34.19
3.62
830
833
2.501261
GCCAGACCTTTTTACGGTTCT
58.499
47.619
0.00
0.00
34.19
3.01
831
834
2.225727
GCCAGACCTTTTTACGGTTCTG
59.774
50.000
0.00
0.00
34.19
3.02
832
835
2.812011
CCAGACCTTTTTACGGTTCTGG
59.188
50.000
8.04
8.04
40.28
3.86
833
836
3.473625
CAGACCTTTTTACGGTTCTGGT
58.526
45.455
0.00
0.00
34.19
4.00
834
837
4.503643
CCAGACCTTTTTACGGTTCTGGTA
60.504
45.833
12.51
0.00
40.75
3.25
835
838
5.243207
CAGACCTTTTTACGGTTCTGGTAT
58.757
41.667
0.00
0.00
34.19
2.73
836
839
5.121768
CAGACCTTTTTACGGTTCTGGTATG
59.878
44.000
0.00
0.00
34.19
2.39
837
840
4.976864
ACCTTTTTACGGTTCTGGTATGT
58.023
39.130
0.00
0.00
0.00
2.29
838
841
6.014327
AGACCTTTTTACGGTTCTGGTATGTA
60.014
38.462
0.00
0.00
34.19
2.29
839
842
6.168389
ACCTTTTTACGGTTCTGGTATGTAG
58.832
40.000
0.00
0.00
0.00
2.74
840
843
5.583457
CCTTTTTACGGTTCTGGTATGTAGG
59.417
44.000
0.00
0.00
0.00
3.18
841
844
4.741321
TTTACGGTTCTGGTATGTAGGG
57.259
45.455
0.00
0.00
0.00
3.53
842
845
2.242882
ACGGTTCTGGTATGTAGGGT
57.757
50.000
0.00
0.00
0.00
4.34
843
846
2.105766
ACGGTTCTGGTATGTAGGGTC
58.894
52.381
0.00
0.00
0.00
4.46
844
847
2.292061
ACGGTTCTGGTATGTAGGGTCT
60.292
50.000
0.00
0.00
0.00
3.85
845
848
2.100916
CGGTTCTGGTATGTAGGGTCTG
59.899
54.545
0.00
0.00
0.00
3.51
846
849
2.158943
GGTTCTGGTATGTAGGGTCTGC
60.159
54.545
0.00
0.00
0.00
4.26
847
850
2.766828
GTTCTGGTATGTAGGGTCTGCT
59.233
50.000
0.00
0.00
0.00
4.24
848
851
2.667470
TCTGGTATGTAGGGTCTGCTC
58.333
52.381
0.00
0.00
0.00
4.26
849
852
1.338337
CTGGTATGTAGGGTCTGCTCG
59.662
57.143
0.00
0.00
0.00
5.03
850
853
1.064240
TGGTATGTAGGGTCTGCTCGA
60.064
52.381
0.00
0.00
0.00
4.04
851
854
1.337387
GGTATGTAGGGTCTGCTCGAC
59.663
57.143
0.00
0.00
42.07
4.20
852
855
2.299521
GTATGTAGGGTCTGCTCGACT
58.700
52.381
6.67
0.00
42.44
4.18
853
856
1.107114
ATGTAGGGTCTGCTCGACTG
58.893
55.000
6.67
0.00
42.44
3.51
854
857
1.139947
GTAGGGTCTGCTCGACTGC
59.860
63.158
6.67
0.00
42.44
4.40
855
858
1.304134
TAGGGTCTGCTCGACTGCA
60.304
57.895
0.00
0.00
42.44
4.41
861
864
2.048784
TGCTCGACTGCAGCTCAC
60.049
61.111
15.27
2.11
38.12
3.51
862
865
3.177920
GCTCGACTGCAGCTCACG
61.178
66.667
15.27
14.48
33.75
4.35
863
866
3.177920
CTCGACTGCAGCTCACGC
61.178
66.667
15.27
0.00
0.00
5.34
864
867
4.724602
TCGACTGCAGCTCACGCC
62.725
66.667
15.27
0.00
36.60
5.68
866
869
3.117171
GACTGCAGCTCACGCCAG
61.117
66.667
15.27
0.00
36.60
4.85
874
877
2.979676
CTCACGCCAGCCTGCAAA
60.980
61.111
0.00
0.00
0.00
3.68
875
878
2.974489
CTCACGCCAGCCTGCAAAG
61.974
63.158
0.00
0.00
0.00
2.77
876
879
4.712425
CACGCCAGCCTGCAAAGC
62.712
66.667
0.04
0.04
0.00
3.51
880
883
3.297620
CCAGCCTGCAAAGCCGTT
61.298
61.111
4.82
0.00
0.00
4.44
881
884
2.730094
CAGCCTGCAAAGCCGTTT
59.270
55.556
4.82
0.00
0.00
3.60
882
885
1.067916
CAGCCTGCAAAGCCGTTTT
59.932
52.632
4.82
0.00
0.00
2.43
883
886
0.313672
CAGCCTGCAAAGCCGTTTTA
59.686
50.000
4.82
0.00
0.00
1.52
884
887
0.313987
AGCCTGCAAAGCCGTTTTAC
59.686
50.000
4.82
0.00
0.00
2.01
885
888
0.666274
GCCTGCAAAGCCGTTTTACC
60.666
55.000
0.00
0.00
0.00
2.85
886
889
0.386731
CCTGCAAAGCCGTTTTACCG
60.387
55.000
0.00
0.00
0.00
4.02
887
890
1.001745
CTGCAAAGCCGTTTTACCGC
61.002
55.000
0.00
0.00
0.00
5.68
888
891
2.078341
GCAAAGCCGTTTTACCGCG
61.078
57.895
0.00
0.00
0.00
6.46
889
892
1.570475
CAAAGCCGTTTTACCGCGA
59.430
52.632
8.23
0.00
0.00
5.87
890
893
0.041135
CAAAGCCGTTTTACCGCGAA
60.041
50.000
8.23
0.00
0.00
4.70
891
894
0.041047
AAAGCCGTTTTACCGCGAAC
60.041
50.000
8.23
2.38
0.00
3.95
892
895
0.881600
AAGCCGTTTTACCGCGAACT
60.882
50.000
8.23
0.00
0.00
3.01
893
896
1.154543
GCCGTTTTACCGCGAACTG
60.155
57.895
8.23
1.06
0.00
3.16
894
897
1.834458
GCCGTTTTACCGCGAACTGT
61.834
55.000
8.23
0.00
0.00
3.55
895
898
1.417372
CCGTTTTACCGCGAACTGTA
58.583
50.000
8.23
0.00
0.00
2.74
896
899
1.791785
CCGTTTTACCGCGAACTGTAA
59.208
47.619
8.23
4.40
0.00
2.41
897
900
2.220593
CCGTTTTACCGCGAACTGTAAA
59.779
45.455
8.23
11.04
34.77
2.01
898
901
3.120580
CCGTTTTACCGCGAACTGTAAAT
60.121
43.478
8.23
0.00
36.00
1.40
899
902
4.456914
CGTTTTACCGCGAACTGTAAATT
58.543
39.130
8.23
0.00
36.00
1.82
900
903
5.389307
CCGTTTTACCGCGAACTGTAAATTA
60.389
40.000
8.23
0.00
36.00
1.40
901
904
5.724859
CGTTTTACCGCGAACTGTAAATTAG
59.275
40.000
8.23
4.77
36.00
1.73
902
905
6.593072
GTTTTACCGCGAACTGTAAATTAGT
58.407
36.000
8.23
0.00
36.00
2.24
903
906
6.783892
TTTACCGCGAACTGTAAATTAGTT
57.216
33.333
8.23
0.00
40.84
2.24
904
907
6.783892
TTACCGCGAACTGTAAATTAGTTT
57.216
33.333
8.23
0.00
38.42
2.66
905
908
5.678132
ACCGCGAACTGTAAATTAGTTTT
57.322
34.783
8.23
0.00
38.42
2.43
906
909
5.445845
ACCGCGAACTGTAAATTAGTTTTG
58.554
37.500
8.23
0.00
38.42
2.44
907
910
4.319901
CCGCGAACTGTAAATTAGTTTTGC
59.680
41.667
8.23
0.00
38.42
3.68
908
911
4.907010
CGCGAACTGTAAATTAGTTTTGCA
59.093
37.500
0.00
0.00
38.42
4.08
915
918
5.992729
TGTAAATTAGTTTTGCAGGTCGAC
58.007
37.500
7.13
7.13
35.35
4.20
916
919
3.806316
AATTAGTTTTGCAGGTCGACG
57.194
42.857
9.92
0.00
0.00
5.12
917
920
2.512485
TTAGTTTTGCAGGTCGACGA
57.488
45.000
9.92
0.00
0.00
4.20
918
921
2.736144
TAGTTTTGCAGGTCGACGAT
57.264
45.000
9.92
0.00
0.00
3.73
919
922
2.736144
AGTTTTGCAGGTCGACGATA
57.264
45.000
9.92
0.00
0.00
2.92
920
923
2.334838
AGTTTTGCAGGTCGACGATAC
58.665
47.619
9.92
0.00
0.00
2.24
921
924
2.063266
GTTTTGCAGGTCGACGATACA
58.937
47.619
9.92
2.21
0.00
2.29
922
925
1.705256
TTTGCAGGTCGACGATACAC
58.295
50.000
9.92
0.00
0.00
2.90
935
938
3.815337
CGATACACGGGTCTGATAGAG
57.185
52.381
0.00
0.00
38.46
2.43
936
939
3.400255
CGATACACGGGTCTGATAGAGA
58.600
50.000
0.00
0.00
38.46
3.10
937
940
5.275052
ACGATACACGGGTCTGATAGAGAC
61.275
50.000
0.00
0.00
46.37
3.36
1006
1019
2.030371
TCTTCTCGATCAGCATGCTCT
58.970
47.619
19.68
8.29
34.76
4.09
1007
1020
2.034432
TCTTCTCGATCAGCATGCTCTC
59.966
50.000
19.68
16.33
34.76
3.20
1008
1021
0.672889
TCTCGATCAGCATGCTCTCC
59.327
55.000
19.68
8.43
34.76
3.71
1009
1022
0.388294
CTCGATCAGCATGCTCTCCA
59.612
55.000
19.68
5.59
34.76
3.86
1010
1023
0.103755
TCGATCAGCATGCTCTCCAC
59.896
55.000
19.68
7.00
34.76
4.02
1011
1024
1.213733
CGATCAGCATGCTCTCCACG
61.214
60.000
19.68
14.96
34.76
4.94
1082
1100
0.462759
CCACTGCCGAAATCCTCTCC
60.463
60.000
0.00
0.00
0.00
3.71
1083
1101
0.807667
CACTGCCGAAATCCTCTCCG
60.808
60.000
0.00
0.00
0.00
4.63
1084
1102
1.227380
CTGCCGAAATCCTCTCCGG
60.227
63.158
0.00
0.00
44.34
5.14
1086
1104
3.221222
CCGAAATCCTCTCCGGCT
58.779
61.111
0.00
0.00
35.29
5.52
1087
1105
1.068250
CCGAAATCCTCTCCGGCTC
59.932
63.158
0.00
0.00
35.29
4.70
1088
1106
1.395826
CCGAAATCCTCTCCGGCTCT
61.396
60.000
0.00
0.00
35.29
4.09
1629
1885
2.589540
CCGCACATGCCCTTCCTA
59.410
61.111
0.00
0.00
37.91
2.94
1670
1929
4.839706
GCCGATGGCCCCAATGGT
62.840
66.667
0.00
0.00
44.06
3.55
1734
1993
2.437343
CGTTGAGCGCGAGGAAGAC
61.437
63.158
12.10
0.00
0.00
3.01
1785
2044
2.829120
GGACTATAGGCCTCCTAAGCTG
59.171
54.545
18.25
0.00
39.77
4.24
1865
2124
3.100671
AGCCTCCTGAACCTACTTACAG
58.899
50.000
0.00
0.00
0.00
2.74
2034
2293
0.037590
AAGGGCGTACAATTGCTGGA
59.962
50.000
5.05
0.00
0.00
3.86
2055
2314
3.454719
TTGATCTGGGAGAATTGGCAA
57.545
42.857
0.68
0.68
0.00
4.52
2122
2381
2.687700
ATATGATGCCCGCAGAGATC
57.312
50.000
0.00
0.00
0.00
2.75
2193
2452
6.325028
AGCTGCCATATTCTAAGTTAGACTCA
59.675
38.462
12.25
0.00
33.84
3.41
2727
2986
3.766545
AGCTGAATTTTGGGCTGAGTTA
58.233
40.909
0.00
0.00
33.50
2.24
2750
3009
1.277842
TGTTGAGCTCCTATCGGCAAA
59.722
47.619
12.15
0.00
0.00
3.68
2867
3126
2.948979
CAAAGGTACCTGCTGTTGTGAA
59.051
45.455
17.14
0.00
0.00
3.18
3072
3331
2.838736
TGTTCTCAGCAAGGTGAAGAC
58.161
47.619
3.39
5.76
0.00
3.01
4134
4393
3.867493
TCATCACTAGATCAAAAGCTGCG
59.133
43.478
0.00
0.00
30.20
5.18
4428
4687
3.762288
AGACAGTTCACGTTGATAGCCTA
59.238
43.478
0.00
0.00
0.00
3.93
4446
4705
1.754803
CTATCTGGTGCTTCCACGGTA
59.245
52.381
0.00
0.00
43.00
4.02
4470
4729
4.062293
TGTTCACTCTTACAATTGACCGG
58.938
43.478
13.59
0.00
0.00
5.28
4542
4801
3.734463
TGGTGCGTGTTCTTCTAATGAA
58.266
40.909
0.00
0.00
0.00
2.57
4708
4967
2.180276
AGTACAAGAAGGCCTCATCGT
58.820
47.619
5.23
4.20
0.00
3.73
4712
4971
0.539051
AAGAAGGCCTCATCGTCTGG
59.461
55.000
5.23
0.00
0.00
3.86
4965
5224
0.916086
ACCATCGGATTGTTGGGCTA
59.084
50.000
0.84
0.00
41.07
3.93
4986
5245
2.880890
AGTCATTCCAAACACAGCAGTC
59.119
45.455
0.00
0.00
0.00
3.51
4992
5251
1.570813
CAAACACAGCAGTCGAGTCA
58.429
50.000
0.00
0.00
0.00
3.41
5084
5343
2.234300
TTCTTCGGTCTGGTGTTGTC
57.766
50.000
0.00
0.00
0.00
3.18
5085
5344
1.410004
TCTTCGGTCTGGTGTTGTCT
58.590
50.000
0.00
0.00
0.00
3.41
5298
5558
1.152567
CCCACAAGTTGAAGGGCCA
60.153
57.895
20.05
0.00
31.79
5.36
5377
5639
9.860898
AAACTGCTTGTTTTTGGAAGATATATC
57.139
29.630
4.42
4.42
45.69
1.63
5424
5686
0.668535
GTTTGGGGACTTGCACTGTC
59.331
55.000
9.78
9.78
0.00
3.51
5467
5729
3.584406
ACTGTGTTTGATCTCTGGGATGA
59.416
43.478
0.00
0.00
34.33
2.92
5506
5768
2.892784
ACTCCCTACTAAATCAGCGC
57.107
50.000
0.00
0.00
0.00
5.92
5559
5821
8.362464
TCTGATAACCTTTTCAGTAGAGCTTA
57.638
34.615
0.00
0.00
40.22
3.09
5585
5847
2.952310
TCTGTGGTATGATCCTGAGTCG
59.048
50.000
0.00
0.00
0.00
4.18
5604
5866
6.038382
TGAGTCGATAGCTAAGTCTGGTTTAG
59.962
42.308
0.00
0.00
0.00
1.85
5606
5868
6.038492
AGTCGATAGCTAAGTCTGGTTTAGTC
59.962
42.308
0.00
0.00
32.09
2.59
5667
5929
1.142262
GGGGGTGTAGTCTTTGTGTGT
59.858
52.381
0.00
0.00
0.00
3.72
5769
6031
3.534357
TTTTGTGGCCTCTATCCCAAA
57.466
42.857
3.32
0.00
31.90
3.28
5777
6039
5.067805
GTGGCCTCTATCCCAAAATAAAGTG
59.932
44.000
3.32
0.00
31.90
3.16
5813
6075
7.402862
ACATTATGGCTAAACCTCTTTAGTGT
58.597
34.615
0.00
0.00
40.73
3.55
5865
6131
3.953612
TCCTCTGTTTGAGTGCATTGTTT
59.046
39.130
0.00
0.00
41.11
2.83
5867
6133
5.105392
TCCTCTGTTTGAGTGCATTGTTTTT
60.105
36.000
0.00
0.00
41.11
1.94
5868
6134
6.096141
TCCTCTGTTTGAGTGCATTGTTTTTA
59.904
34.615
0.00
0.00
41.11
1.52
5869
6135
6.198966
CCTCTGTTTGAGTGCATTGTTTTTAC
59.801
38.462
0.00
0.00
41.11
2.01
5887
6153
4.837093
TTACTAGGACAGTTTGGGATGG
57.163
45.455
0.00
0.00
38.80
3.51
5989
6306
4.661222
TGAAACAGGTTTGGCATCTGATA
58.339
39.130
16.31
0.00
32.11
2.15
5990
6307
4.458989
TGAAACAGGTTTGGCATCTGATAC
59.541
41.667
16.31
9.08
32.11
2.24
6013
6331
1.597461
GGCTACCTGGTGGAGTGTC
59.403
63.158
15.03
0.00
37.04
3.67
6025
6343
2.554893
GTGGAGTGTCGAGGGATCTATC
59.445
54.545
0.00
0.00
0.00
2.08
6026
6344
2.443632
TGGAGTGTCGAGGGATCTATCT
59.556
50.000
0.00
0.00
0.00
1.98
6027
6345
3.651423
TGGAGTGTCGAGGGATCTATCTA
59.349
47.826
0.00
0.00
0.00
1.98
6028
6346
4.004982
GGAGTGTCGAGGGATCTATCTAC
58.995
52.174
0.00
0.00
0.00
2.59
6030
6348
3.394940
AGTGTCGAGGGATCTATCTACCA
59.605
47.826
0.00
0.00
0.00
3.25
6031
6349
3.502979
GTGTCGAGGGATCTATCTACCAC
59.497
52.174
0.00
0.00
0.00
4.16
6032
6350
3.394940
TGTCGAGGGATCTATCTACCACT
59.605
47.826
0.00
0.00
0.00
4.00
6033
6351
4.004982
GTCGAGGGATCTATCTACCACTC
58.995
52.174
0.00
0.00
0.00
3.51
6034
6352
3.651423
TCGAGGGATCTATCTACCACTCA
59.349
47.826
0.00
0.00
0.00
3.41
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
48
50
2.809446
CGTTCTCGAATCATGTGGCTA
58.191
47.619
0.00
0.00
39.71
3.93
101
103
4.101585
AGGTTATGGATCGCTTGATTGAGA
59.898
41.667
0.00
0.00
30.70
3.27
255
257
2.310577
GCGAACAAGTTGCAAGATGTC
58.689
47.619
15.27
9.42
0.00
3.06
279
281
1.080705
GGCGACGACACTAGCTGTT
60.081
57.895
0.00
0.00
31.03
3.16
280
282
2.567049
GGCGACGACACTAGCTGT
59.433
61.111
0.00
0.00
34.96
4.40
300
303
3.636764
ACGAAGCTTGGAATGAAAAAGGT
59.363
39.130
16.00
0.00
33.28
3.50
307
310
1.610624
GGTGGACGAAGCTTGGAATGA
60.611
52.381
16.00
0.00
0.00
2.57
435
438
2.275318
GTAGCCAAGAGTGATCACAGC
58.725
52.381
27.02
19.31
0.00
4.40
456
459
1.348036
GCAACCCTAGAACACCTGACT
59.652
52.381
0.00
0.00
0.00
3.41
490
493
3.793144
CGCCGAGCTGGTCTTTGC
61.793
66.667
5.23
4.36
41.21
3.68
491
494
2.048222
TCGCCGAGCTGGTCTTTG
60.048
61.111
5.23
0.00
41.21
2.77
551
554
3.280775
GACTTTTGAAAAGCGAGTGACG
58.719
45.455
16.96
0.00
45.66
4.35
587
590
3.746492
GTGGCTTGTCGGATATTGGATAC
59.254
47.826
0.00
0.00
0.00
2.24
736
739
5.309543
TGGAAAACTATGAAGAGGTTGAGGA
59.690
40.000
0.00
0.00
0.00
3.71
757
760
3.616219
AGCTTGCGGTATAAAACATGGA
58.384
40.909
0.00
0.00
0.00
3.41
800
803
4.176752
GGTCTGGCCGGCCTTAGG
62.177
72.222
43.34
29.01
36.94
2.69
801
804
2.198304
AAAGGTCTGGCCGGCCTTAG
62.198
60.000
43.34
33.30
41.31
2.18
802
805
1.785353
AAAAGGTCTGGCCGGCCTTA
61.785
55.000
43.34
29.37
41.31
2.69
803
806
2.656698
AAAAAGGTCTGGCCGGCCTT
62.657
55.000
43.34
27.69
43.75
4.35
804
807
1.785353
TAAAAAGGTCTGGCCGGCCT
61.785
55.000
43.34
23.22
43.70
5.19
805
808
1.303806
TAAAAAGGTCTGGCCGGCC
60.304
57.895
39.40
39.40
43.70
6.13
806
809
1.880894
GTAAAAAGGTCTGGCCGGC
59.119
57.895
21.18
21.18
43.70
6.13
807
810
1.303091
CCGTAAAAAGGTCTGGCCGG
61.303
60.000
4.71
4.71
43.70
6.13
808
811
0.604511
ACCGTAAAAAGGTCTGGCCG
60.605
55.000
0.00
0.00
43.70
6.13
809
812
1.538512
GAACCGTAAAAAGGTCTGGCC
59.461
52.381
0.00
0.00
41.95
5.36
810
813
2.225727
CAGAACCGTAAAAAGGTCTGGC
59.774
50.000
0.00
0.00
41.95
4.85
811
814
2.812011
CCAGAACCGTAAAAAGGTCTGG
59.188
50.000
9.54
9.54
43.54
3.86
812
815
3.473625
ACCAGAACCGTAAAAAGGTCTG
58.526
45.455
0.00
0.00
41.95
3.51
813
816
3.851458
ACCAGAACCGTAAAAAGGTCT
57.149
42.857
0.00
0.00
41.95
3.85
814
817
4.999311
ACATACCAGAACCGTAAAAAGGTC
59.001
41.667
0.00
0.00
41.95
3.85
815
818
4.976864
ACATACCAGAACCGTAAAAAGGT
58.023
39.130
0.00
0.00
45.29
3.50
816
819
5.583457
CCTACATACCAGAACCGTAAAAAGG
59.417
44.000
0.00
0.00
0.00
3.11
817
820
5.583457
CCCTACATACCAGAACCGTAAAAAG
59.417
44.000
0.00
0.00
0.00
2.27
818
821
5.012975
ACCCTACATACCAGAACCGTAAAAA
59.987
40.000
0.00
0.00
0.00
1.94
819
822
4.531732
ACCCTACATACCAGAACCGTAAAA
59.468
41.667
0.00
0.00
0.00
1.52
820
823
4.095946
ACCCTACATACCAGAACCGTAAA
58.904
43.478
0.00
0.00
0.00
2.01
821
824
3.701040
GACCCTACATACCAGAACCGTAA
59.299
47.826
0.00
0.00
0.00
3.18
822
825
3.053395
AGACCCTACATACCAGAACCGTA
60.053
47.826
0.00
0.00
0.00
4.02
823
826
2.105766
GACCCTACATACCAGAACCGT
58.894
52.381
0.00
0.00
0.00
4.83
824
827
2.100916
CAGACCCTACATACCAGAACCG
59.899
54.545
0.00
0.00
0.00
4.44
825
828
2.158943
GCAGACCCTACATACCAGAACC
60.159
54.545
0.00
0.00
0.00
3.62
826
829
2.766828
AGCAGACCCTACATACCAGAAC
59.233
50.000
0.00
0.00
0.00
3.01
827
830
3.031736
GAGCAGACCCTACATACCAGAA
58.968
50.000
0.00
0.00
0.00
3.02
828
831
2.667470
GAGCAGACCCTACATACCAGA
58.333
52.381
0.00
0.00
0.00
3.86
829
832
1.338337
CGAGCAGACCCTACATACCAG
59.662
57.143
0.00
0.00
0.00
4.00
830
833
1.064240
TCGAGCAGACCCTACATACCA
60.064
52.381
0.00
0.00
0.00
3.25
831
834
1.337387
GTCGAGCAGACCCTACATACC
59.663
57.143
1.39
0.00
43.95
2.73
832
835
2.778187
GTCGAGCAGACCCTACATAC
57.222
55.000
1.39
0.00
43.95
2.39
844
847
2.048784
GTGAGCTGCAGTCGAGCA
60.049
61.111
16.64
3.91
43.35
4.26
845
848
3.177920
CGTGAGCTGCAGTCGAGC
61.178
66.667
16.64
0.26
36.65
5.03
857
860
2.974489
CTTTGCAGGCTGGCGTGAG
61.974
63.158
17.64
4.23
36.28
3.51
858
861
2.979676
CTTTGCAGGCTGGCGTGA
60.980
61.111
17.64
2.30
36.28
4.35
859
862
4.712425
GCTTTGCAGGCTGGCGTG
62.712
66.667
17.64
10.40
36.28
5.34
863
866
2.367868
AAAACGGCTTTGCAGGCTGG
62.368
55.000
17.64
12.74
43.69
4.85
864
867
0.313672
TAAAACGGCTTTGCAGGCTG
59.686
50.000
10.94
10.94
43.69
4.85
865
868
0.313987
GTAAAACGGCTTTGCAGGCT
59.686
50.000
12.30
0.00
43.69
4.58
866
869
0.666274
GGTAAAACGGCTTTGCAGGC
60.666
55.000
5.35
5.35
42.39
4.85
867
870
0.386731
CGGTAAAACGGCTTTGCAGG
60.387
55.000
0.00
0.00
31.68
4.85
868
871
1.001745
GCGGTAAAACGGCTTTGCAG
61.002
55.000
2.71
0.00
40.69
4.41
869
872
1.008309
GCGGTAAAACGGCTTTGCA
60.008
52.632
2.71
0.00
40.69
4.08
870
873
2.078341
CGCGGTAAAACGGCTTTGC
61.078
57.895
0.00
0.00
41.55
3.68
871
874
0.041135
TTCGCGGTAAAACGGCTTTG
60.041
50.000
6.13
0.00
41.55
2.77
872
875
0.041047
GTTCGCGGTAAAACGGCTTT
60.041
50.000
6.13
0.00
41.55
3.51
873
876
0.881600
AGTTCGCGGTAAAACGGCTT
60.882
50.000
6.13
0.00
41.55
4.35
874
877
1.301165
AGTTCGCGGTAAAACGGCT
60.301
52.632
6.13
0.00
41.55
5.52
875
878
1.154543
CAGTTCGCGGTAAAACGGC
60.155
57.895
6.13
0.00
40.50
5.68
876
879
1.417372
TACAGTTCGCGGTAAAACGG
58.583
50.000
6.13
6.64
0.00
4.44
877
880
3.502256
TTTACAGTTCGCGGTAAAACG
57.498
42.857
6.13
2.76
42.00
3.60
878
881
6.593072
ACTAATTTACAGTTCGCGGTAAAAC
58.407
36.000
17.99
10.56
45.62
2.43
879
882
6.783892
ACTAATTTACAGTTCGCGGTAAAA
57.216
33.333
17.99
7.26
45.62
1.52
880
883
6.783892
AACTAATTTACAGTTCGCGGTAAA
57.216
33.333
16.89
16.89
46.18
2.01
881
884
6.783892
AAACTAATTTACAGTTCGCGGTAA
57.216
33.333
6.13
3.69
35.19
2.85
882
885
6.592166
CAAAACTAATTTACAGTTCGCGGTA
58.408
36.000
6.13
0.00
35.19
4.02
883
886
5.445845
CAAAACTAATTTACAGTTCGCGGT
58.554
37.500
6.13
0.00
35.19
5.68
884
887
4.319901
GCAAAACTAATTTACAGTTCGCGG
59.680
41.667
6.13
0.00
35.19
6.46
885
888
4.907010
TGCAAAACTAATTTACAGTTCGCG
59.093
37.500
0.00
0.00
37.24
5.87
886
889
5.342259
CCTGCAAAACTAATTTACAGTTCGC
59.658
40.000
0.00
6.86
35.19
4.70
887
890
6.435428
ACCTGCAAAACTAATTTACAGTTCG
58.565
36.000
0.00
0.00
35.19
3.95
888
891
6.577427
CGACCTGCAAAACTAATTTACAGTTC
59.423
38.462
0.00
0.00
35.19
3.01
889
892
6.261381
TCGACCTGCAAAACTAATTTACAGTT
59.739
34.615
0.00
0.00
37.85
3.16
890
893
5.761234
TCGACCTGCAAAACTAATTTACAGT
59.239
36.000
0.00
0.00
33.36
3.55
891
894
6.077838
GTCGACCTGCAAAACTAATTTACAG
58.922
40.000
3.51
0.00
34.28
2.74
892
895
5.333492
CGTCGACCTGCAAAACTAATTTACA
60.333
40.000
10.58
0.00
0.00
2.41
893
896
5.077424
CGTCGACCTGCAAAACTAATTTAC
58.923
41.667
10.58
0.00
0.00
2.01
894
897
4.989797
TCGTCGACCTGCAAAACTAATTTA
59.010
37.500
10.58
0.00
0.00
1.40
895
898
3.810941
TCGTCGACCTGCAAAACTAATTT
59.189
39.130
10.58
0.00
0.00
1.82
896
899
3.395639
TCGTCGACCTGCAAAACTAATT
58.604
40.909
10.58
0.00
0.00
1.40
897
900
3.034721
TCGTCGACCTGCAAAACTAAT
57.965
42.857
10.58
0.00
0.00
1.73
898
901
2.512485
TCGTCGACCTGCAAAACTAA
57.488
45.000
10.58
0.00
0.00
2.24
899
902
2.736144
ATCGTCGACCTGCAAAACTA
57.264
45.000
10.58
0.00
0.00
2.24
900
903
2.288579
TGTATCGTCGACCTGCAAAACT
60.289
45.455
10.58
0.00
0.00
2.66
901
904
2.063266
TGTATCGTCGACCTGCAAAAC
58.937
47.619
10.58
0.00
0.00
2.43
902
905
2.063266
GTGTATCGTCGACCTGCAAAA
58.937
47.619
10.58
0.00
0.00
2.44
903
906
1.705256
GTGTATCGTCGACCTGCAAA
58.295
50.000
10.58
0.00
0.00
3.68
904
907
0.455464
CGTGTATCGTCGACCTGCAA
60.455
55.000
10.58
0.00
34.52
4.08
905
908
1.135939
CGTGTATCGTCGACCTGCA
59.864
57.895
10.58
4.72
34.52
4.41
906
909
1.585521
CCGTGTATCGTCGACCTGC
60.586
63.158
10.58
1.88
37.94
4.85
907
910
1.063649
CCCGTGTATCGTCGACCTG
59.936
63.158
10.58
0.00
37.94
4.00
908
911
1.372087
GACCCGTGTATCGTCGACCT
61.372
60.000
10.58
0.00
37.94
3.85
909
912
1.063166
GACCCGTGTATCGTCGACC
59.937
63.158
10.58
0.00
37.94
4.79
910
913
0.247974
CAGACCCGTGTATCGTCGAC
60.248
60.000
5.18
5.18
37.94
4.20
911
914
0.391528
TCAGACCCGTGTATCGTCGA
60.392
55.000
0.00
0.00
37.94
4.20
912
915
0.661552
ATCAGACCCGTGTATCGTCG
59.338
55.000
0.00
0.00
37.94
5.12
913
916
3.136763
TCTATCAGACCCGTGTATCGTC
58.863
50.000
0.00
0.00
37.94
4.20
914
917
3.139850
CTCTATCAGACCCGTGTATCGT
58.860
50.000
0.00
0.00
37.94
3.73
915
918
3.186817
GTCTCTATCAGACCCGTGTATCG
59.813
52.174
0.00
0.00
45.47
2.92
916
919
4.752661
GTCTCTATCAGACCCGTGTATC
57.247
50.000
0.00
0.00
45.47
2.24
938
941
1.887707
ATACAGGCCGCGCTTAAGC
60.888
57.895
17.83
17.83
37.78
3.09
939
942
1.498865
CCATACAGGCCGCGCTTAAG
61.499
60.000
5.56
0.00
0.00
1.85
940
943
1.522806
CCATACAGGCCGCGCTTAA
60.523
57.895
5.56
0.00
0.00
1.85
941
944
2.108157
CCATACAGGCCGCGCTTA
59.892
61.111
5.56
0.00
0.00
3.09
952
955
1.271871
CCACTCAAACCTGGCCATACA
60.272
52.381
5.51
0.00
0.00
2.29
987
1000
2.396601
GAGAGCATGCTGATCGAGAAG
58.603
52.381
28.27
0.00
37.94
2.85
988
1001
1.068281
GGAGAGCATGCTGATCGAGAA
59.932
52.381
28.27
0.00
37.94
2.87
989
1002
0.672889
GGAGAGCATGCTGATCGAGA
59.327
55.000
28.27
0.00
37.94
4.04
990
1003
0.388294
TGGAGAGCATGCTGATCGAG
59.612
55.000
28.27
0.00
37.94
4.04
998
1011
2.103042
GTGGACGTGGAGAGCATGC
61.103
63.158
10.51
10.51
0.00
4.06
1006
1019
3.968837
ATAGGGCCGTGGACGTGGA
62.969
63.158
8.57
0.00
37.74
4.02
1007
1020
2.530958
AAATAGGGCCGTGGACGTGG
62.531
60.000
8.57
0.00
37.74
4.94
1008
1021
0.675522
AAAATAGGGCCGTGGACGTG
60.676
55.000
8.57
0.00
37.74
4.49
1009
1022
0.392060
GAAAATAGGGCCGTGGACGT
60.392
55.000
8.57
0.00
37.74
4.34
1010
1023
0.107848
AGAAAATAGGGCCGTGGACG
60.108
55.000
8.57
0.00
39.44
4.79
1011
1024
2.124277
AAGAAAATAGGGCCGTGGAC
57.876
50.000
8.57
0.00
0.00
4.02
1022
1035
5.538433
CAGGAGGGTTTGGTGAAAGAAAATA
59.462
40.000
0.00
0.00
0.00
1.40
1067
1085
2.900273
CCGGAGAGGATTTCGGCA
59.100
61.111
0.00
0.00
45.00
5.69
1082
1100
3.474570
CAGGAAGGGGGAGAGCCG
61.475
72.222
0.00
0.00
33.83
5.52
1083
1101
3.803162
GCAGGAAGGGGGAGAGCC
61.803
72.222
0.00
0.00
0.00
4.70
1084
1102
4.168291
CGCAGGAAGGGGGAGAGC
62.168
72.222
0.00
0.00
0.00
4.09
1085
1103
1.764054
ATCGCAGGAAGGGGGAGAG
60.764
63.158
0.00
0.00
0.00
3.20
1086
1104
2.066393
CATCGCAGGAAGGGGGAGA
61.066
63.158
0.00
0.00
0.00
3.71
1087
1105
2.507944
CATCGCAGGAAGGGGGAG
59.492
66.667
0.00
0.00
0.00
4.30
1088
1106
3.089874
CCATCGCAGGAAGGGGGA
61.090
66.667
0.00
0.00
0.00
4.81
1254
1272
2.817056
GGAGGAGGGCATGAGCTCC
61.817
68.421
12.15
0.00
44.52
4.70
1314
1570
1.383803
CTGAGGAGGAAGGGGAGGG
60.384
68.421
0.00
0.00
0.00
4.30
1734
1993
0.937304
CACCAACAGTGTCACCTTCG
59.063
55.000
0.00
0.00
41.93
3.79
1785
2044
2.159170
CGGATGAGGAAGACCAAGAGAC
60.159
54.545
0.00
0.00
38.94
3.36
1865
2124
4.159135
CCAATTCATCCATAATAGCCAGGC
59.841
45.833
1.84
1.84
0.00
4.85
2034
2293
3.675348
TGCCAATTCTCCCAGATCAAT
57.325
42.857
0.00
0.00
0.00
2.57
2055
2314
0.995675
ATGCCTTATGCCTCCCCTGT
60.996
55.000
0.00
0.00
40.16
4.00
2122
2381
3.663995
TTTTGCACCAACATCATCCAG
57.336
42.857
0.00
0.00
0.00
3.86
2193
2452
0.038744
CTGTGATCCCAGTGGCCTTT
59.961
55.000
3.32
0.00
0.00
3.11
2750
3009
6.682611
GCTCTTGTCTTCTGCATAGTACTCAT
60.683
42.308
0.00
0.00
0.00
2.90
2867
3126
2.553247
GCTAAGGCTTCCTTCACCAACT
60.553
50.000
1.30
0.00
43.57
3.16
3072
3331
0.391263
GCTGGACCTCCGTAACCTTG
60.391
60.000
0.00
0.00
39.43
3.61
3900
4159
2.029200
TGCCACAATTGATGCAAATCGT
60.029
40.909
19.32
0.00
0.00
3.73
4017
4276
2.292267
CTGTACATCAATGTCAGGGCC
58.708
52.381
0.00
0.00
41.97
5.80
4027
4286
6.158871
TGTTCCATTATACCCCTGTACATCAA
59.841
38.462
0.00
0.00
0.00
2.57
4134
4393
5.066505
CCTGATAATTCCAACTGCCACTAAC
59.933
44.000
0.00
0.00
0.00
2.34
4446
4705
5.181245
CCGGTCAATTGTAAGAGTGAACAAT
59.819
40.000
5.13
0.00
45.75
2.71
4470
4729
0.535797
CCGACTCCCAAGTAACTCCC
59.464
60.000
0.00
0.00
35.28
4.30
4542
4801
0.542702
TCCGGGACTCGTAAAACCCT
60.543
55.000
0.00
0.00
40.12
4.34
4590
4849
2.143925
GTTGAGCCTTCAAACGCTAGT
58.856
47.619
0.00
0.00
44.49
2.57
4708
4967
0.178964
CCTTCCCCAGTTTTGCCAGA
60.179
55.000
0.00
0.00
0.00
3.86
4712
4971
1.667722
CAGCCTTCCCCAGTTTTGC
59.332
57.895
0.00
0.00
0.00
3.68
4965
5224
2.880890
GACTGCTGTGTTTGGAATGACT
59.119
45.455
0.00
0.00
0.00
3.41
4986
5245
3.827625
CAGACCTTCTAACACTGACTCG
58.172
50.000
0.00
0.00
0.00
4.18
4992
5251
2.037772
CCACTGCAGACCTTCTAACACT
59.962
50.000
23.35
0.00
0.00
3.55
5039
5298
7.446769
TGTGCAGAGAAATAACCTGTAGTTTA
58.553
34.615
0.00
0.00
40.05
2.01
5084
5343
6.763610
CCTCCTTAGCTACAGAAATTTGGTAG
59.236
42.308
16.74
16.74
38.00
3.18
5085
5344
6.214819
ACCTCCTTAGCTACAGAAATTTGGTA
59.785
38.462
0.00
0.00
0.00
3.25
5239
5499
4.929781
AGCAAGACTTGAGCAAGAAAAAG
58.070
39.130
19.51
4.27
40.79
2.27
5298
5558
9.075678
GGGAATCACTATTCTTCATTCATTGAT
57.924
33.333
0.00
0.00
41.18
2.57
5377
5639
3.447229
AGCTAATGGGGAATTTCCAAACG
59.553
43.478
17.08
1.87
38.64
3.60
5446
5708
4.081254
TCTCATCCCAGAGATCAAACACAG
60.081
45.833
0.00
0.00
39.62
3.66
5467
5729
8.504409
AGGGAGTACTACATCTTAACTGTATCT
58.496
37.037
7.57
0.00
0.00
1.98
5490
5752
2.325583
TTGGCGCTGATTTAGTAGGG
57.674
50.000
7.64
0.00
0.00
3.53
5506
5768
5.179452
ACCCTCCGATCCATATTAATTGG
57.821
43.478
0.00
1.98
35.45
3.16
5559
5821
4.550669
TCAGGATCATACCACAGACTCAT
58.449
43.478
0.00
0.00
0.00
2.90
5585
5847
5.298777
TCCGACTAAACCAGACTTAGCTATC
59.701
44.000
0.00
0.00
30.79
2.08
5604
5866
6.986904
ATTAAAGAATCTTCCTGTTCCGAC
57.013
37.500
0.00
0.00
0.00
4.79
5606
5868
8.345565
CCATAATTAAAGAATCTTCCTGTTCCG
58.654
37.037
0.00
0.00
0.00
4.30
5667
5929
8.573035
GTTGGACACCTCTAAAATTAACAATGA
58.427
33.333
0.00
0.00
0.00
2.57
5777
6039
8.454106
GGTTTAGCCATAATGTCATATGTCATC
58.546
37.037
14.54
3.84
37.17
2.92
5813
6075
9.685276
ATTGATTCAATTTCAGTACAGTGGATA
57.315
29.630
6.06
0.00
28.76
2.59
5865
6131
4.600111
ACCATCCCAAACTGTCCTAGTAAA
59.400
41.667
0.00
0.00
39.18
2.01
5867
6133
3.517901
CACCATCCCAAACTGTCCTAGTA
59.482
47.826
0.00
0.00
39.18
1.82
5868
6134
2.305927
CACCATCCCAAACTGTCCTAGT
59.694
50.000
0.00
0.00
42.89
2.57
5869
6135
2.305927
ACACCATCCCAAACTGTCCTAG
59.694
50.000
0.00
0.00
0.00
3.02
5910
6176
1.455408
GTTTAAGCGCAACAATGGCAC
59.545
47.619
11.47
0.00
0.00
5.01
5989
6306
2.610859
CACCAGGTAGCCCCCAGT
60.611
66.667
0.00
0.00
0.00
4.00
5990
6307
3.411517
CCACCAGGTAGCCCCCAG
61.412
72.222
0.00
0.00
0.00
4.45
6013
6331
4.022413
TGAGTGGTAGATAGATCCCTCG
57.978
50.000
0.00
0.00
0.00
4.63
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.