Multiple sequence alignment - TraesCS3B01G161700
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
TraesCS3B01G161700
chr3B
100.000
2720
0
0
1
2720
158220161
158217442
0.000000e+00
5024.0
1
TraesCS3B01G161700
chr3B
90.756
1309
98
11
1
1294
158237701
158236401
0.000000e+00
1725.0
2
TraesCS3B01G161700
chr3B
88.889
54
5
1
1052
1105
701124262
701124210
6.290000e-07
65.8
3
TraesCS3B01G161700
chr3D
93.889
1080
42
11
855
1921
107441675
107440607
0.000000e+00
1607.0
4
TraesCS3B01G161700
chr3D
79.825
342
45
9
2101
2424
107440529
107440194
7.580000e-56
228.0
5
TraesCS3B01G161700
chr3A
92.518
1136
50
21
774
1887
124655369
124656491
0.000000e+00
1594.0
6
TraesCS3B01G161700
chr3A
96.970
33
1
0
2616
2648
25763197
25763165
3.780000e-04
56.5
7
TraesCS3B01G161700
chrUn
82.138
683
92
20
1
678
2430294
2430951
2.370000e-155
558.0
8
TraesCS3B01G161700
chr6B
83.755
554
60
13
2101
2625
260104547
260103995
5.230000e-137
497.0
9
TraesCS3B01G161700
chr5D
80.115
523
71
15
2106
2601
369325644
369326160
2.580000e-95
359.0
10
TraesCS3B01G161700
chr2A
87.500
256
25
6
1011
1260
675937632
675937886
3.430000e-74
289.0
11
TraesCS3B01G161700
chr4B
90.741
54
4
1
1052
1105
267356510
267356458
1.350000e-08
71.3
12
TraesCS3B01G161700
chr4B
90.741
54
4
1
1052
1105
614206807
614206755
1.350000e-08
71.3
13
TraesCS3B01G161700
chr2B
90.741
54
4
1
1052
1105
96276369
96276421
1.350000e-08
71.3
14
TraesCS3B01G161700
chr1B
88.889
54
5
1
1052
1105
127374013
127373961
6.290000e-07
65.8
15
TraesCS3B01G161700
chr7A
91.111
45
3
1
2616
2660
452062633
452062676
2.920000e-05
60.2
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
TraesCS3B01G161700
chr3B
158217442
158220161
2719
True
5024.0
5024
100.000
1
2720
1
chr3B.!!$R1
2719
1
TraesCS3B01G161700
chr3B
158236401
158237701
1300
True
1725.0
1725
90.756
1
1294
1
chr3B.!!$R2
1293
2
TraesCS3B01G161700
chr3D
107440194
107441675
1481
True
917.5
1607
86.857
855
2424
2
chr3D.!!$R1
1569
3
TraesCS3B01G161700
chr3A
124655369
124656491
1122
False
1594.0
1594
92.518
774
1887
1
chr3A.!!$F1
1113
4
TraesCS3B01G161700
chrUn
2430294
2430951
657
False
558.0
558
82.138
1
678
1
chrUn.!!$F1
677
5
TraesCS3B01G161700
chr6B
260103995
260104547
552
True
497.0
497
83.755
2101
2625
1
chr6B.!!$R1
524
6
TraesCS3B01G161700
chr5D
369325644
369326160
516
False
359.0
359
80.115
2106
2601
1
chr5D.!!$F1
495
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
403
408
0.031857
CAACAAAATGGTCGCTGCCA
59.968
50.0
0.0
0.0
43.48
4.92
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
1974
2020
0.030504
CAAATGTCAAGTGCGGCACA
59.969
50.0
32.29
13.92
36.74
4.57
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
109
110
6.205784
TCCAACAAAATGAAAGACGATTGTC
58.794
36.000
4.78
4.78
45.86
3.18
241
246
5.778862
GCTTTCCAGCAAAACAATAACCTA
58.221
37.500
0.00
0.00
46.49
3.08
257
262
7.092174
ACAATAACCTACTTGTATCATCCCCAA
60.092
37.037
0.00
0.00
33.96
4.12
303
308
3.736252
CGGAGGTTGTAGCTTTATCATCG
59.264
47.826
0.00
0.00
0.00
3.84
305
310
5.542779
GGAGGTTGTAGCTTTATCATCGAT
58.457
41.667
0.00
0.00
0.00
3.59
306
311
5.406780
GGAGGTTGTAGCTTTATCATCGATG
59.593
44.000
19.61
19.61
0.00
3.84
307
312
5.300752
AGGTTGTAGCTTTATCATCGATGG
58.699
41.667
24.61
9.70
0.00
3.51
334
339
3.063915
TTTTTGCCAGCTGCCCATA
57.936
47.368
8.66
0.00
40.16
2.74
355
360
3.050275
GACAGCCGGTTCCAGCAC
61.050
66.667
1.90
0.00
0.00
4.40
372
377
2.591429
CGCCTCTGGTGTTGCACA
60.591
61.111
1.61
0.00
35.86
4.57
396
401
1.726248
GCCGATTGCAACAAAATGGTC
59.274
47.619
0.00
0.00
40.77
4.02
401
406
0.597118
TGCAACAAAATGGTCGCTGC
60.597
50.000
0.00
0.00
0.00
5.25
403
408
0.031857
CAACAAAATGGTCGCTGCCA
59.968
50.000
0.00
0.00
43.48
4.92
437
442
0.310854
GTTGCCAGTTGTAGCACCAC
59.689
55.000
0.00
0.00
39.10
4.16
459
464
0.733729
CCGACTAGTGGGTCTTCTCG
59.266
60.000
15.41
2.01
34.38
4.04
474
479
3.729965
CTCGAGCGCCATCAGCCTT
62.730
63.158
2.29
0.00
38.78
4.35
499
505
2.029743
GCAAAACGCTCCCTGTTCA
58.970
52.632
0.00
0.00
37.77
3.18
502
508
1.782028
AAAACGCTCCCTGTTCACGC
61.782
55.000
0.00
0.00
0.00
5.34
512
518
3.723348
GTTCACGCCAACCCTCGC
61.723
66.667
0.00
0.00
0.00
5.03
593
599
2.159599
GCTGCATCGTGAGGAAGAAAAG
60.160
50.000
0.00
0.00
0.00
2.27
596
602
2.615493
GCATCGTGAGGAAGAAAAGGGA
60.615
50.000
0.00
0.00
0.00
4.20
646
653
2.768492
GCATGGGGAAAGAGCTGCG
61.768
63.158
0.00
0.00
0.00
5.18
649
656
4.722700
GGGGAAAGAGCTGCGGCA
62.723
66.667
21.93
1.29
41.70
5.69
668
675
1.071699
CACAGAAAGGGGGAGAACGAA
59.928
52.381
0.00
0.00
0.00
3.85
672
679
1.280998
GAAAGGGGGAGAACGAATGGA
59.719
52.381
0.00
0.00
0.00
3.41
681
688
0.177141
GAACGAATGGATGGGGACGA
59.823
55.000
0.00
0.00
0.00
4.20
690
697
1.618143
ATGGGGACGATGGGTTGGA
60.618
57.895
0.00
0.00
0.00
3.53
726
733
2.418746
CCCAGATCAAACAGTAGGGTCG
60.419
54.545
0.00
0.00
0.00
4.79
730
737
0.390124
TCAAACAGTAGGGTCGCGTT
59.610
50.000
5.77
0.00
0.00
4.84
733
740
2.202570
CAGTAGGGTCGCGTTCGG
60.203
66.667
5.77
0.00
36.13
4.30
749
756
2.263540
GGCCGAAGTGTAAGCCGA
59.736
61.111
0.00
0.00
35.30
5.54
750
757
2.098831
GGCCGAAGTGTAAGCCGAC
61.099
63.158
0.00
0.00
35.30
4.79
765
772
2.388232
CGACCTGCCGGCAGTAAAC
61.388
63.158
44.92
31.85
42.15
2.01
829
841
7.122204
GGGAATAACCAGCTACTATTGTTTTGT
59.878
37.037
0.00
0.00
41.20
2.83
846
858
1.954146
GTGTTTGGCTCGCTCGTGA
60.954
57.895
0.00
0.00
0.00
4.35
1112
1153
1.038130
ATCCTCGTCGTCTCCCCAAG
61.038
60.000
0.00
0.00
0.00
3.61
1218
1259
0.043334
CTTCCCTCCTCCTCCCAGAA
59.957
60.000
0.00
0.00
0.00
3.02
1233
1274
2.156098
AGAACTCCCCCTGCAGCAA
61.156
57.895
8.66
0.00
0.00
3.91
1450
1491
1.613630
GAGGGGAAGCTGGAGACCA
60.614
63.158
0.00
0.00
0.00
4.02
1756
1802
2.369860
ACTTCTCTGTGCTCATGGTTCA
59.630
45.455
0.00
0.00
0.00
3.18
1762
1808
2.418976
CTGTGCTCATGGTTCATCAGTG
59.581
50.000
0.00
0.00
0.00
3.66
1765
1811
1.741706
GCTCATGGTTCATCAGTGGTG
59.258
52.381
0.00
0.00
0.00
4.17
1778
1824
1.476085
CAGTGGTGTTGTTTGGCTTGA
59.524
47.619
0.00
0.00
0.00
3.02
1779
1825
2.101249
CAGTGGTGTTGTTTGGCTTGAT
59.899
45.455
0.00
0.00
0.00
2.57
1781
1827
2.100584
GTGGTGTTGTTTGGCTTGATCA
59.899
45.455
0.00
0.00
0.00
2.92
1782
1828
2.964464
TGGTGTTGTTTGGCTTGATCAT
59.036
40.909
0.00
0.00
0.00
2.45
1783
1829
3.005684
TGGTGTTGTTTGGCTTGATCATC
59.994
43.478
0.00
0.00
0.00
2.92
1787
1833
4.022935
TGTTGTTTGGCTTGATCATCTGAC
60.023
41.667
0.00
0.00
0.00
3.51
1788
1834
2.743664
TGTTTGGCTTGATCATCTGACG
59.256
45.455
0.00
0.00
0.00
4.35
1799
1845
6.030548
TGATCATCTGACGAGAGAAGTTTT
57.969
37.500
0.00
0.00
0.00
2.43
1844
1890
7.893124
ATCAGGAATTCAGTATTCAGCAATT
57.107
32.000
7.93
0.00
43.72
2.32
1854
1900
5.343058
CAGTATTCAGCAATTTTGTGTTCGG
59.657
40.000
0.00
0.00
0.00
4.30
1892
1938
7.032580
CAGGATTATGGACACGCAAATTTAAA
58.967
34.615
0.00
0.00
0.00
1.52
1921
1967
7.335924
ACATTTCAGTGTTAACTTGTGTGTAGT
59.664
33.333
7.22
0.00
32.98
2.73
1922
1968
7.675962
TTTCAGTGTTAACTTGTGTGTAGTT
57.324
32.000
7.22
0.00
39.13
2.24
1923
1969
6.656314
TCAGTGTTAACTTGTGTGTAGTTG
57.344
37.500
7.22
0.00
36.56
3.16
1924
1970
5.064198
TCAGTGTTAACTTGTGTGTAGTTGC
59.936
40.000
7.22
0.00
36.56
4.17
1925
1971
4.334481
AGTGTTAACTTGTGTGTAGTTGCC
59.666
41.667
7.22
0.00
36.56
4.52
1926
1972
3.310227
TGTTAACTTGTGTGTAGTTGCCG
59.690
43.478
7.22
0.00
36.56
5.69
1927
1973
2.032680
AACTTGTGTGTAGTTGCCGT
57.967
45.000
0.00
0.00
34.68
5.68
1928
1974
1.578583
ACTTGTGTGTAGTTGCCGTC
58.421
50.000
0.00
0.00
0.00
4.79
1929
1975
1.138266
ACTTGTGTGTAGTTGCCGTCT
59.862
47.619
0.00
0.00
0.00
4.18
1930
1976
1.792949
CTTGTGTGTAGTTGCCGTCTC
59.207
52.381
0.00
0.00
0.00
3.36
1931
1977
1.037493
TGTGTGTAGTTGCCGTCTCT
58.963
50.000
0.00
0.00
0.00
3.10
1932
1978
1.269569
TGTGTGTAGTTGCCGTCTCTG
60.270
52.381
0.00
0.00
0.00
3.35
1933
1979
0.319555
TGTGTAGTTGCCGTCTCTGC
60.320
55.000
0.00
0.00
0.00
4.26
1934
1980
1.080772
TGTAGTTGCCGTCTCTGCG
60.081
57.895
0.00
0.00
0.00
5.18
1935
1981
1.080705
GTAGTTGCCGTCTCTGCGT
60.081
57.895
0.00
0.00
0.00
5.24
1936
1982
0.666577
GTAGTTGCCGTCTCTGCGTT
60.667
55.000
0.00
0.00
0.00
4.84
1937
1983
0.666274
TAGTTGCCGTCTCTGCGTTG
60.666
55.000
0.00
0.00
0.00
4.10
1938
1984
1.954146
GTTGCCGTCTCTGCGTTGA
60.954
57.895
0.00
0.00
0.00
3.18
1939
1985
1.664649
TTGCCGTCTCTGCGTTGAG
60.665
57.895
1.27
1.27
35.52
3.02
1940
1986
2.082629
TTGCCGTCTCTGCGTTGAGA
62.083
55.000
5.60
5.60
40.39
3.27
1941
1987
1.372997
GCCGTCTCTGCGTTGAGAA
60.373
57.895
10.25
0.00
43.68
2.87
1942
1988
1.618640
GCCGTCTCTGCGTTGAGAAC
61.619
60.000
10.25
5.63
43.68
3.01
1943
1989
0.039074
CCGTCTCTGCGTTGAGAACT
60.039
55.000
10.25
0.00
43.68
3.01
1944
1990
1.603172
CCGTCTCTGCGTTGAGAACTT
60.603
52.381
10.25
0.00
43.68
2.66
1945
1991
1.453524
CGTCTCTGCGTTGAGAACTTG
59.546
52.381
10.25
0.41
43.68
3.16
1946
1992
1.193426
GTCTCTGCGTTGAGAACTTGC
59.807
52.381
10.25
0.00
43.68
4.01
1947
1993
1.069204
TCTCTGCGTTGAGAACTTGCT
59.931
47.619
6.97
0.00
39.80
3.91
1948
1994
1.194098
CTCTGCGTTGAGAACTTGCTG
59.806
52.381
1.43
0.00
36.23
4.41
1949
1995
0.385223
CTGCGTTGAGAACTTGCTGC
60.385
55.000
0.00
0.00
0.00
5.25
1950
1996
1.081840
GCGTTGAGAACTTGCTGCC
60.082
57.895
0.00
0.00
0.00
4.85
1951
1997
1.510480
GCGTTGAGAACTTGCTGCCT
61.510
55.000
0.00
0.00
0.00
4.75
1952
1998
1.795768
CGTTGAGAACTTGCTGCCTA
58.204
50.000
0.00
0.00
0.00
3.93
1953
1999
2.350522
CGTTGAGAACTTGCTGCCTAT
58.649
47.619
0.00
0.00
0.00
2.57
1954
2000
2.094894
CGTTGAGAACTTGCTGCCTATG
59.905
50.000
0.00
0.00
0.00
2.23
1955
2001
3.077359
GTTGAGAACTTGCTGCCTATGT
58.923
45.455
0.00
0.00
0.00
2.29
1956
2002
2.703416
TGAGAACTTGCTGCCTATGTG
58.297
47.619
0.00
0.00
0.00
3.21
1957
2003
2.038952
TGAGAACTTGCTGCCTATGTGT
59.961
45.455
0.00
0.00
0.00
3.72
1958
2004
3.077359
GAGAACTTGCTGCCTATGTGTT
58.923
45.455
0.00
0.00
0.00
3.32
1959
2005
2.816087
AGAACTTGCTGCCTATGTGTTG
59.184
45.455
0.00
0.00
0.00
3.33
1960
2006
2.276732
ACTTGCTGCCTATGTGTTGT
57.723
45.000
0.00
0.00
0.00
3.32
1961
2007
2.586425
ACTTGCTGCCTATGTGTTGTT
58.414
42.857
0.00
0.00
0.00
2.83
1962
2008
2.958355
ACTTGCTGCCTATGTGTTGTTT
59.042
40.909
0.00
0.00
0.00
2.83
1963
2009
3.384467
ACTTGCTGCCTATGTGTTGTTTT
59.616
39.130
0.00
0.00
0.00
2.43
1964
2010
3.367992
TGCTGCCTATGTGTTGTTTTG
57.632
42.857
0.00
0.00
0.00
2.44
1965
2011
2.954989
TGCTGCCTATGTGTTGTTTTGA
59.045
40.909
0.00
0.00
0.00
2.69
1966
2012
3.004629
TGCTGCCTATGTGTTGTTTTGAG
59.995
43.478
0.00
0.00
0.00
3.02
1967
2013
3.253188
GCTGCCTATGTGTTGTTTTGAGA
59.747
43.478
0.00
0.00
0.00
3.27
1968
2014
4.787598
CTGCCTATGTGTTGTTTTGAGAC
58.212
43.478
0.00
0.00
0.00
3.36
1969
2015
3.568007
TGCCTATGTGTTGTTTTGAGACC
59.432
43.478
0.00
0.00
0.00
3.85
1970
2016
3.057526
GCCTATGTGTTGTTTTGAGACCC
60.058
47.826
0.00
0.00
0.00
4.46
1971
2017
4.398319
CCTATGTGTTGTTTTGAGACCCT
58.602
43.478
0.00
0.00
0.00
4.34
1972
2018
4.216257
CCTATGTGTTGTTTTGAGACCCTG
59.784
45.833
0.00
0.00
0.00
4.45
1973
2019
1.748493
TGTGTTGTTTTGAGACCCTGC
59.252
47.619
0.00
0.00
0.00
4.85
1974
2020
2.024414
GTGTTGTTTTGAGACCCTGCT
58.976
47.619
0.00
0.00
0.00
4.24
1975
2021
2.023673
TGTTGTTTTGAGACCCTGCTG
58.976
47.619
0.00
0.00
0.00
4.41
1976
2022
2.024414
GTTGTTTTGAGACCCTGCTGT
58.976
47.619
0.00
0.00
0.00
4.40
1977
2023
1.679139
TGTTTTGAGACCCTGCTGTG
58.321
50.000
0.00
0.00
0.00
3.66
1978
2024
0.312102
GTTTTGAGACCCTGCTGTGC
59.688
55.000
0.00
0.00
0.00
4.57
1979
2025
0.823356
TTTTGAGACCCTGCTGTGCC
60.823
55.000
0.00
0.00
0.00
5.01
1980
2026
3.535629
TTGAGACCCTGCTGTGCCG
62.536
63.158
0.00
0.00
0.00
5.69
1986
2032
4.034258
CCTGCTGTGCCGCACTTG
62.034
66.667
23.52
16.66
35.74
3.16
1987
2033
2.974148
CTGCTGTGCCGCACTTGA
60.974
61.111
23.52
3.49
35.74
3.02
1988
2034
3.245948
CTGCTGTGCCGCACTTGAC
62.246
63.158
23.52
11.00
35.74
3.18
1989
2035
3.279116
GCTGTGCCGCACTTGACA
61.279
61.111
23.52
2.81
35.11
3.58
1990
2036
2.620112
GCTGTGCCGCACTTGACAT
61.620
57.895
23.52
0.00
35.11
3.06
1991
2037
1.951510
CTGTGCCGCACTTGACATT
59.048
52.632
23.52
0.00
35.11
2.71
1992
2038
0.311790
CTGTGCCGCACTTGACATTT
59.688
50.000
23.52
0.00
35.11
2.32
1993
2039
0.030504
TGTGCCGCACTTGACATTTG
59.969
50.000
23.52
0.00
35.11
2.32
1994
2040
0.310543
GTGCCGCACTTGACATTTGA
59.689
50.000
16.51
0.00
0.00
2.69
1995
2041
1.068333
GTGCCGCACTTGACATTTGAT
60.068
47.619
16.51
0.00
0.00
2.57
1996
2042
1.199789
TGCCGCACTTGACATTTGATC
59.800
47.619
0.00
0.00
0.00
2.92
1997
2043
1.199789
GCCGCACTTGACATTTGATCA
59.800
47.619
0.00
0.00
0.00
2.92
1998
2044
2.351641
GCCGCACTTGACATTTGATCAA
60.352
45.455
3.38
3.38
34.89
2.57
1999
2045
3.674138
GCCGCACTTGACATTTGATCAAT
60.674
43.478
9.40
0.00
35.57
2.57
2001
2047
4.379708
CCGCACTTGACATTTGATCAATGA
60.380
41.667
9.40
0.00
44.78
2.57
2002
2048
5.337554
CGCACTTGACATTTGATCAATGAT
58.662
37.500
9.40
0.00
44.78
2.45
2003
2049
5.454554
CGCACTTGACATTTGATCAATGATC
59.545
40.000
15.86
15.86
44.78
2.92
2004
2050
6.327154
GCACTTGACATTTGATCAATGATCA
58.673
36.000
20.85
20.85
45.78
2.92
2005
2051
6.978659
GCACTTGACATTTGATCAATGATCAT
59.021
34.615
24.53
11.33
46.52
2.45
2006
2052
7.043391
GCACTTGACATTTGATCAATGATCATG
60.043
37.037
24.53
21.76
46.52
3.07
2007
2053
6.978659
ACTTGACATTTGATCAATGATCATGC
59.021
34.615
24.53
16.36
46.52
4.06
2008
2054
6.458232
TGACATTTGATCAATGATCATGCA
57.542
33.333
24.53
18.21
46.52
3.96
2009
2055
6.270064
TGACATTTGATCAATGATCATGCAC
58.730
36.000
24.53
17.42
46.52
4.57
2010
2056
6.127591
TGACATTTGATCAATGATCATGCACA
60.128
34.615
24.53
19.24
46.52
4.57
2011
2057
6.635755
ACATTTGATCAATGATCATGCACAA
58.364
32.000
24.53
16.19
46.52
3.33
2012
2058
6.533723
ACATTTGATCAATGATCATGCACAAC
59.466
34.615
24.53
0.00
46.52
3.32
2013
2059
5.907866
TTGATCAATGATCATGCACAACT
57.092
34.783
24.53
0.00
46.52
3.16
2014
2060
5.243426
TGATCAATGATCATGCACAACTG
57.757
39.130
20.85
1.83
43.11
3.16
2015
2061
3.497297
TCAATGATCATGCACAACTGC
57.503
42.857
9.46
0.00
44.52
4.40
2016
2062
2.164827
TCAATGATCATGCACAACTGCC
59.835
45.455
9.46
0.00
43.51
4.85
2017
2063
1.108776
ATGATCATGCACAACTGCCC
58.891
50.000
7.59
0.00
43.51
5.36
2018
2064
1.307355
TGATCATGCACAACTGCCCG
61.307
55.000
0.00
0.00
43.51
6.13
2019
2065
1.303561
ATCATGCACAACTGCCCGT
60.304
52.632
0.00
0.00
43.51
5.28
2020
2066
0.895100
ATCATGCACAACTGCCCGTT
60.895
50.000
0.00
0.00
43.51
4.44
2021
2067
1.081242
CATGCACAACTGCCCGTTC
60.081
57.895
0.00
0.00
43.51
3.95
2022
2068
2.268076
ATGCACAACTGCCCGTTCC
61.268
57.895
0.00
0.00
43.51
3.62
2023
2069
3.670377
GCACAACTGCCCGTTCCC
61.670
66.667
0.00
0.00
37.45
3.97
2024
2070
2.983592
CACAACTGCCCGTTCCCC
60.984
66.667
0.00
0.00
32.27
4.81
2025
2071
3.175710
ACAACTGCCCGTTCCCCT
61.176
61.111
0.00
0.00
32.27
4.79
2026
2072
2.115266
CAACTGCCCGTTCCCCTT
59.885
61.111
0.00
0.00
32.27
3.95
2027
2073
1.530655
CAACTGCCCGTTCCCCTTT
60.531
57.895
0.00
0.00
32.27
3.11
2028
2074
1.228459
AACTGCCCGTTCCCCTTTC
60.228
57.895
0.00
0.00
0.00
2.62
2029
2075
2.746277
CTGCCCGTTCCCCTTTCG
60.746
66.667
0.00
0.00
0.00
3.46
2030
2076
3.546714
CTGCCCGTTCCCCTTTCGT
62.547
63.158
0.00
0.00
0.00
3.85
2031
2077
3.053896
GCCCGTTCCCCTTTCGTG
61.054
66.667
0.00
0.00
0.00
4.35
2032
2078
2.745037
CCCGTTCCCCTTTCGTGA
59.255
61.111
0.00
0.00
0.00
4.35
2033
2079
1.375523
CCCGTTCCCCTTTCGTGAG
60.376
63.158
0.00
0.00
0.00
3.51
2034
2080
1.669440
CCGTTCCCCTTTCGTGAGA
59.331
57.895
0.00
0.00
39.20
3.27
2035
2081
0.389948
CCGTTCCCCTTTCGTGAGAG
60.390
60.000
0.00
0.00
43.69
3.20
2036
2082
0.601558
CGTTCCCCTTTCGTGAGAGA
59.398
55.000
0.00
0.00
43.69
3.10
2037
2083
1.402984
CGTTCCCCTTTCGTGAGAGAG
60.403
57.143
0.00
0.00
43.69
3.20
2044
2090
2.993545
CTTTCGTGAGAGAGGCGATAG
58.006
52.381
0.00
0.00
43.69
2.08
2045
2091
2.039818
TTCGTGAGAGAGGCGATAGT
57.960
50.000
0.00
0.00
43.69
2.12
2046
2092
2.039818
TCGTGAGAGAGGCGATAGTT
57.960
50.000
0.00
0.00
34.72
2.24
2047
2093
3.189618
TCGTGAGAGAGGCGATAGTTA
57.810
47.619
0.00
0.00
34.72
2.24
2048
2094
3.132160
TCGTGAGAGAGGCGATAGTTAG
58.868
50.000
0.00
0.00
34.72
2.34
2051
2097
1.198178
GAGAGAGGCGATAGTTAGGCG
59.802
57.143
0.00
0.00
38.03
5.52
2060
2106
4.860799
GCGATAGTTAGGCGACAGTTTCG
61.861
52.174
0.00
0.00
45.31
3.46
2067
2113
4.496898
CGACAGTTTCGTGCTTGC
57.503
55.556
0.00
0.00
43.24
4.01
2150
2222
7.676468
AGTTCATAGATTAGGGATAGGTCTTCC
59.324
40.741
0.00
0.00
0.00
3.46
2208
2286
1.306997
TGGCCTCGGATTCTCCCTT
60.307
57.895
3.32
0.00
31.13
3.95
2263
2341
1.869574
CGATGGTCTCGTGTGCTCG
60.870
63.158
0.00
0.00
42.56
5.03
2266
2344
1.524008
ATGGTCTCGTGTGCTCGTCA
61.524
55.000
0.00
0.00
0.00
4.35
2275
2353
0.039888
TGTGCTCGTCATTCGTTCGA
60.040
50.000
0.00
0.00
40.80
3.71
2306
2385
4.681744
CTTTATGTGCCTGTTTGTGTTGT
58.318
39.130
0.00
0.00
0.00
3.32
2319
2398
2.270257
TGTTGTGATGCTGCTGCCC
61.270
57.895
13.47
5.68
38.71
5.36
2320
2399
2.677524
TTGTGATGCTGCTGCCCC
60.678
61.111
13.47
5.32
38.71
5.80
2321
2400
3.214190
TTGTGATGCTGCTGCCCCT
62.214
57.895
13.47
0.00
38.71
4.79
2323
2402
1.821332
GTGATGCTGCTGCCCCTAC
60.821
63.158
13.47
3.67
38.71
3.18
2325
2404
2.693864
ATGCTGCTGCCCCTACCT
60.694
61.111
13.47
0.00
38.71
3.08
2326
2405
1.384502
ATGCTGCTGCCCCTACCTA
60.385
57.895
13.47
0.00
38.71
3.08
2328
2407
3.108288
GCTGCTGCCCCTACCTACC
62.108
68.421
3.85
0.00
0.00
3.18
2336
2429
0.107214
CCCCTACCTACCGTCGTGTA
60.107
60.000
0.00
0.00
0.00
2.90
2350
2443
1.000607
TCGTGTACTTGGAGCACAGAC
60.001
52.381
0.00
0.00
33.70
3.51
2367
2460
2.113139
CGGAGGTTTGGTGGCAGT
59.887
61.111
0.00
0.00
0.00
4.40
2389
2482
0.323451
ATTTGGCTTTCCTCCCCGTC
60.323
55.000
0.00
0.00
0.00
4.79
2399
2492
2.762043
TCCCCGTCATCATCGGCA
60.762
61.111
0.00
0.00
45.71
5.69
2401
2494
2.501128
CCCGTCATCATCGGCAGT
59.499
61.111
0.00
0.00
45.71
4.40
2426
2527
0.529773
GCGGATCCAGATACAACGCA
60.530
55.000
13.41
0.00
44.32
5.24
2431
2532
1.496060
TCCAGATACAACGCAGGGAT
58.504
50.000
0.00
0.00
0.00
3.85
2454
2556
2.125713
CAGCCGACGTGCCACATA
60.126
61.111
0.00
0.00
0.00
2.29
2472
2574
3.133003
ACATAGTCAAGCGCCTGTTCTAT
59.867
43.478
2.29
11.52
0.00
1.98
2474
2576
3.887621
AGTCAAGCGCCTGTTCTATAA
57.112
42.857
2.29
0.00
0.00
0.98
2479
2581
0.179056
GCGCCTGTTCTATAAGCCCA
60.179
55.000
0.00
0.00
0.00
5.36
2495
2597
0.250234
CCCAGTCATCGGCTCTCAAA
59.750
55.000
0.00
0.00
0.00
2.69
2544
2646
2.531771
TCGTGGGATTGTGGAAGTCTA
58.468
47.619
0.00
0.00
0.00
2.59
2616
2718
2.357009
CTGTGTTGATTATCTGCAGGGC
59.643
50.000
15.13
0.00
0.00
5.19
2617
2719
1.678101
GTGTTGATTATCTGCAGGGCC
59.322
52.381
15.13
0.00
0.00
5.80
2620
2722
0.698886
TGATTATCTGCAGGGCCCCT
60.699
55.000
21.43
0.00
0.00
4.79
2621
2723
1.362224
GATTATCTGCAGGGCCCCTA
58.638
55.000
21.43
3.71
29.64
3.53
2623
2725
1.140312
TTATCTGCAGGGCCCCTAAG
58.860
55.000
21.43
13.83
29.64
2.18
2624
2726
0.267658
TATCTGCAGGGCCCCTAAGA
59.732
55.000
21.43
19.13
32.47
2.10
2625
2727
1.059006
ATCTGCAGGGCCCCTAAGAG
61.059
60.000
21.43
7.92
31.77
2.85
2626
2728
3.411517
TGCAGGGCCCCTAAGAGC
61.412
66.667
21.43
13.87
29.64
4.09
2627
2729
3.411517
GCAGGGCCCCTAAGAGCA
61.412
66.667
21.43
0.00
29.64
4.26
2628
2730
2.761465
GCAGGGCCCCTAAGAGCAT
61.761
63.158
21.43
0.00
29.64
3.79
2629
2731
1.453669
CAGGGCCCCTAAGAGCATC
59.546
63.158
21.43
0.00
29.64
3.91
2641
2743
3.364277
GAGCATCTACAACCGGACC
57.636
57.895
9.46
0.00
0.00
4.46
2642
2744
0.179081
GAGCATCTACAACCGGACCC
60.179
60.000
9.46
0.00
0.00
4.46
2643
2745
0.617820
AGCATCTACAACCGGACCCT
60.618
55.000
9.46
0.00
0.00
4.34
2644
2746
0.252197
GCATCTACAACCGGACCCTT
59.748
55.000
9.46
0.00
0.00
3.95
2645
2747
1.742750
GCATCTACAACCGGACCCTTC
60.743
57.143
9.46
0.00
0.00
3.46
2646
2748
1.553248
CATCTACAACCGGACCCTTCA
59.447
52.381
9.46
0.00
0.00
3.02
2647
2749
1.946984
TCTACAACCGGACCCTTCAT
58.053
50.000
9.46
0.00
0.00
2.57
2648
2750
3.104519
TCTACAACCGGACCCTTCATA
57.895
47.619
9.46
0.00
0.00
2.15
2649
2751
2.762327
TCTACAACCGGACCCTTCATAC
59.238
50.000
9.46
0.00
0.00
2.39
2650
2752
0.616891
ACAACCGGACCCTTCATACC
59.383
55.000
9.46
0.00
0.00
2.73
2651
2753
0.909623
CAACCGGACCCTTCATACCT
59.090
55.000
9.46
0.00
0.00
3.08
2652
2754
0.909623
AACCGGACCCTTCATACCTG
59.090
55.000
9.46
0.00
0.00
4.00
2653
2755
1.146263
CCGGACCCTTCATACCTGC
59.854
63.158
0.00
0.00
0.00
4.85
2654
2756
1.146263
CGGACCCTTCATACCTGCC
59.854
63.158
0.00
0.00
0.00
4.85
2655
2757
1.532238
GGACCCTTCATACCTGCCC
59.468
63.158
0.00
0.00
0.00
5.36
2656
2758
1.532238
GACCCTTCATACCTGCCCC
59.468
63.158
0.00
0.00
0.00
5.80
2657
2759
1.230149
ACCCTTCATACCTGCCCCA
60.230
57.895
0.00
0.00
0.00
4.96
2658
2760
0.849094
ACCCTTCATACCTGCCCCAA
60.849
55.000
0.00
0.00
0.00
4.12
2659
2761
0.334676
CCCTTCATACCTGCCCCAAA
59.665
55.000
0.00
0.00
0.00
3.28
2660
2762
1.474330
CCTTCATACCTGCCCCAAAC
58.526
55.000
0.00
0.00
0.00
2.93
2661
2763
1.094785
CTTCATACCTGCCCCAAACG
58.905
55.000
0.00
0.00
0.00
3.60
2662
2764
0.402504
TTCATACCTGCCCCAAACGT
59.597
50.000
0.00
0.00
0.00
3.99
2663
2765
0.035820
TCATACCTGCCCCAAACGTC
60.036
55.000
0.00
0.00
0.00
4.34
2664
2766
0.035439
CATACCTGCCCCAAACGTCT
60.035
55.000
0.00
0.00
0.00
4.18
2665
2767
1.208535
CATACCTGCCCCAAACGTCTA
59.791
52.381
0.00
0.00
0.00
2.59
2666
2768
0.899720
TACCTGCCCCAAACGTCTAG
59.100
55.000
0.00
0.00
0.00
2.43
2667
2769
0.834687
ACCTGCCCCAAACGTCTAGA
60.835
55.000
0.00
0.00
0.00
2.43
2668
2770
0.391263
CCTGCCCCAAACGTCTAGAC
60.391
60.000
13.18
13.18
0.00
2.59
2669
2771
0.320374
CTGCCCCAAACGTCTAGACA
59.680
55.000
22.37
0.00
0.00
3.41
2670
2772
0.034337
TGCCCCAAACGTCTAGACAC
59.966
55.000
22.37
0.00
0.00
3.67
2671
2773
1.012486
GCCCCAAACGTCTAGACACG
61.012
60.000
22.37
12.64
45.65
4.49
2672
2774
0.389426
CCCCAAACGTCTAGACACGG
60.389
60.000
22.37
14.92
44.41
4.94
2673
2775
0.316204
CCCAAACGTCTAGACACGGT
59.684
55.000
22.37
9.65
43.09
4.83
2676
2778
3.190337
AACGTCTAGACACGGTTGC
57.810
52.632
22.37
0.00
44.41
4.17
2677
2779
0.319297
AACGTCTAGACACGGTTGCC
60.319
55.000
22.37
0.00
44.41
4.52
2678
2780
1.445582
CGTCTAGACACGGTTGCCC
60.446
63.158
22.37
0.00
36.07
5.36
2690
2792
4.593864
TTGCCCGGGCGCAAAAAC
62.594
61.111
39.00
12.45
45.46
2.43
2699
2801
2.105128
CGCAAAAACCGCACCCAA
59.895
55.556
0.00
0.00
0.00
4.12
2700
2802
2.234335
CGCAAAAACCGCACCCAAC
61.234
57.895
0.00
0.00
0.00
3.77
2701
2803
1.153549
GCAAAAACCGCACCCAACA
60.154
52.632
0.00
0.00
0.00
3.33
2702
2804
1.151172
GCAAAAACCGCACCCAACAG
61.151
55.000
0.00
0.00
0.00
3.16
2703
2805
0.174617
CAAAAACCGCACCCAACAGT
59.825
50.000
0.00
0.00
0.00
3.55
2704
2806
1.405821
CAAAAACCGCACCCAACAGTA
59.594
47.619
0.00
0.00
0.00
2.74
2705
2807
1.026584
AAAACCGCACCCAACAGTAC
58.973
50.000
0.00
0.00
0.00
2.73
2706
2808
0.820482
AAACCGCACCCAACAGTACC
60.820
55.000
0.00
0.00
0.00
3.34
2707
2809
1.985460
AACCGCACCCAACAGTACCA
61.985
55.000
0.00
0.00
0.00
3.25
2708
2810
1.964373
CCGCACCCAACAGTACCAC
60.964
63.158
0.00
0.00
0.00
4.16
2709
2811
1.070786
CGCACCCAACAGTACCACT
59.929
57.895
0.00
0.00
0.00
4.00
2710
2812
0.534203
CGCACCCAACAGTACCACTT
60.534
55.000
0.00
0.00
0.00
3.16
2711
2813
1.270412
CGCACCCAACAGTACCACTTA
60.270
52.381
0.00
0.00
0.00
2.24
2712
2814
2.807472
CGCACCCAACAGTACCACTTAA
60.807
50.000
0.00
0.00
0.00
1.85
2713
2815
3.215975
GCACCCAACAGTACCACTTAAA
58.784
45.455
0.00
0.00
0.00
1.52
2714
2816
3.824443
GCACCCAACAGTACCACTTAAAT
59.176
43.478
0.00
0.00
0.00
1.40
2715
2817
4.082949
GCACCCAACAGTACCACTTAAATC
60.083
45.833
0.00
0.00
0.00
2.17
2716
2818
4.457949
CACCCAACAGTACCACTTAAATCC
59.542
45.833
0.00
0.00
0.00
3.01
2717
2819
3.687698
CCCAACAGTACCACTTAAATCCG
59.312
47.826
0.00
0.00
0.00
4.18
2718
2820
3.687698
CCAACAGTACCACTTAAATCCGG
59.312
47.826
0.00
0.00
0.00
5.14
2719
2821
4.320870
CAACAGTACCACTTAAATCCGGT
58.679
43.478
0.00
0.00
35.46
5.28
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
29
30
5.423610
TGATTTTTCTGGAACCACCTCAAAA
59.576
36.000
0.00
0.00
39.86
2.44
109
110
3.911868
TGGAACCATCTCAAAATTTGCG
58.088
40.909
0.00
0.00
0.00
4.85
215
219
0.103937
TTGTTTTGCTGGAAAGCCGG
59.896
50.000
0.00
0.00
43.89
6.13
236
241
4.079958
GGTTGGGGATGATACAAGTAGGTT
60.080
45.833
0.00
0.00
0.00
3.50
241
246
2.919602
AGTGGTTGGGGATGATACAAGT
59.080
45.455
0.00
0.00
0.00
3.16
257
262
4.074970
CTGAATTTGCTGGAACTAGTGGT
58.925
43.478
0.00
0.00
0.00
4.16
323
328
0.106335
CTGTCTCCTATGGGCAGCTG
59.894
60.000
10.11
10.11
0.00
4.24
324
329
1.694133
GCTGTCTCCTATGGGCAGCT
61.694
60.000
15.82
0.00
46.20
4.24
334
339
2.203788
TGGAACCGGCTGTCTCCT
60.204
61.111
0.00
0.00
0.00
3.69
355
360
2.591429
TGTGCAACACCAGAGGCG
60.591
61.111
0.00
0.00
45.67
5.52
380
385
2.406130
CAGCGACCATTTTGTTGCAAT
58.594
42.857
0.59
0.00
46.19
3.56
396
401
2.180017
GTTGCTGGAATGGCAGCG
59.820
61.111
0.00
0.00
46.60
5.18
401
406
1.000060
CAACCACTGTTGCTGGAATGG
60.000
52.381
0.00
0.00
44.86
3.16
414
419
0.182537
TGCTACAACTGGCAACCACT
59.817
50.000
0.00
0.00
35.40
4.00
437
442
2.280823
GAAGACCCACTAGTCGGCCG
62.281
65.000
22.12
22.12
41.83
6.13
459
464
0.590195
CATAAAGGCTGATGGCGCTC
59.410
55.000
7.64
0.00
44.18
5.03
512
518
0.931005
GCGCCATAACTTCTTCTCCG
59.069
55.000
0.00
0.00
0.00
4.63
514
520
1.922570
TCGCGCCATAACTTCTTCTC
58.077
50.000
0.00
0.00
0.00
2.87
515
521
2.380084
TTCGCGCCATAACTTCTTCT
57.620
45.000
0.00
0.00
0.00
2.85
593
599
2.124942
CGCAGCTCCTCCTTTCCC
60.125
66.667
0.00
0.00
0.00
3.97
596
602
4.416738
GCCCGCAGCTCCTCCTTT
62.417
66.667
0.00
0.00
38.99
3.11
635
641
1.230635
TTCTGTGCCGCAGCTCTTTC
61.231
55.000
0.00
0.00
44.66
2.62
646
653
0.609406
GTTCTCCCCCTTTCTGTGCC
60.609
60.000
0.00
0.00
0.00
5.01
649
656
1.430992
TTCGTTCTCCCCCTTTCTGT
58.569
50.000
0.00
0.00
0.00
3.41
652
659
1.280998
TCCATTCGTTCTCCCCCTTTC
59.719
52.381
0.00
0.00
0.00
2.62
668
675
0.993509
AACCCATCGTCCCCATCCAT
60.994
55.000
0.00
0.00
0.00
3.41
672
679
1.211567
TTCCAACCCATCGTCCCCAT
61.212
55.000
0.00
0.00
0.00
4.00
681
688
1.506028
ATCCCACGGTTCCAACCCAT
61.506
55.000
2.78
0.00
46.53
4.00
716
723
2.202570
CCGAACGCGACCCTACTG
60.203
66.667
15.93
0.00
40.82
2.74
717
724
4.125695
GCCGAACGCGACCCTACT
62.126
66.667
15.93
0.00
40.82
2.57
726
733
1.952266
CTTACACTTCGGCCGAACGC
61.952
60.000
35.81
0.00
0.00
4.84
730
737
2.263540
GGCTTACACTTCGGCCGA
59.736
61.111
27.28
27.28
35.08
5.54
733
740
2.098831
GGTCGGCTTACACTTCGGC
61.099
63.158
0.00
0.00
0.00
5.54
829
841
1.954146
GTCACGAGCGAGCCAAACA
60.954
57.895
0.00
0.00
0.00
2.83
846
858
4.712337
AGGTAAACTCTTCCATCTCATCGT
59.288
41.667
0.00
0.00
0.00
3.73
894
906
1.973812
GTGGGTCAAGGGCTCAAGC
60.974
63.158
0.00
0.00
41.14
4.01
976
1009
2.186903
GATGCGATCGGTGGTGGT
59.813
61.111
18.30
0.00
0.00
4.16
1218
1259
2.679716
GATTGCTGCAGGGGGAGT
59.320
61.111
17.12
0.00
34.49
3.85
1756
1802
2.071778
AGCCAAACAACACCACTGAT
57.928
45.000
0.00
0.00
0.00
2.90
1762
1808
3.256631
AGATGATCAAGCCAAACAACACC
59.743
43.478
0.00
0.00
0.00
4.16
1765
1811
4.479619
GTCAGATGATCAAGCCAAACAAC
58.520
43.478
0.00
0.00
0.00
3.32
1778
1824
7.831753
TCTTAAAACTTCTCTCGTCAGATGAT
58.168
34.615
0.00
0.00
0.00
2.45
1779
1825
7.175119
TCTCTTAAAACTTCTCTCGTCAGATGA
59.825
37.037
0.00
0.00
0.00
2.92
1781
1827
7.455641
TCTCTTAAAACTTCTCTCGTCAGAT
57.544
36.000
0.00
0.00
0.00
2.90
1782
1828
6.879276
TCTCTTAAAACTTCTCTCGTCAGA
57.121
37.500
0.00
0.00
0.00
3.27
1783
1829
7.932120
TTTCTCTTAAAACTTCTCTCGTCAG
57.068
36.000
0.00
0.00
0.00
3.51
1810
1856
4.651503
ACTGAATTCCTGATACATCTCGGT
59.348
41.667
2.27
0.00
0.00
4.69
1844
1890
0.958091
CAGATTGCCCCGAACACAAA
59.042
50.000
0.00
0.00
0.00
2.83
1854
1900
1.188863
AATCCTGTTGCAGATTGCCC
58.811
50.000
0.00
0.00
44.23
5.36
1892
1938
8.682710
ACACACAAGTTAACACTGAAATGTAAT
58.317
29.630
8.61
0.00
31.60
1.89
1921
1967
1.664649
CTCAACGCAGAGACGGCAA
60.665
57.895
0.00
0.00
37.87
4.52
1922
1968
2.049156
CTCAACGCAGAGACGGCA
60.049
61.111
0.00
0.00
37.87
5.69
1923
1969
1.372997
TTCTCAACGCAGAGACGGC
60.373
57.895
6.89
0.00
43.91
5.68
1924
1970
0.039074
AGTTCTCAACGCAGAGACGG
60.039
55.000
6.89
0.00
43.91
4.79
1925
1971
1.453524
CAAGTTCTCAACGCAGAGACG
59.546
52.381
6.89
0.00
43.91
4.18
1926
1972
1.193426
GCAAGTTCTCAACGCAGAGAC
59.807
52.381
6.89
3.86
43.91
3.36
1927
1973
1.069204
AGCAAGTTCTCAACGCAGAGA
59.931
47.619
3.51
3.51
42.62
3.10
1928
1974
1.194098
CAGCAAGTTCTCAACGCAGAG
59.806
52.381
0.00
0.00
36.97
3.35
1929
1975
1.220529
CAGCAAGTTCTCAACGCAGA
58.779
50.000
0.00
0.00
36.23
4.26
1930
1976
0.385223
GCAGCAAGTTCTCAACGCAG
60.385
55.000
0.00
0.00
36.23
5.18
1931
1977
1.648720
GCAGCAAGTTCTCAACGCA
59.351
52.632
0.00
0.00
36.23
5.24
1932
1978
1.081840
GGCAGCAAGTTCTCAACGC
60.082
57.895
0.00
0.00
36.23
4.84
1933
1979
1.795768
TAGGCAGCAAGTTCTCAACG
58.204
50.000
0.00
0.00
36.23
4.10
1934
1980
3.077359
ACATAGGCAGCAAGTTCTCAAC
58.923
45.455
0.00
0.00
0.00
3.18
1935
1981
3.076621
CACATAGGCAGCAAGTTCTCAA
58.923
45.455
0.00
0.00
0.00
3.02
1936
1982
2.038952
ACACATAGGCAGCAAGTTCTCA
59.961
45.455
0.00
0.00
0.00
3.27
1937
1983
2.704572
ACACATAGGCAGCAAGTTCTC
58.295
47.619
0.00
0.00
0.00
2.87
1938
1984
2.816087
CAACACATAGGCAGCAAGTTCT
59.184
45.455
0.00
0.00
0.00
3.01
1939
1985
2.554032
ACAACACATAGGCAGCAAGTTC
59.446
45.455
0.00
0.00
0.00
3.01
1940
1986
2.586425
ACAACACATAGGCAGCAAGTT
58.414
42.857
0.00
0.00
0.00
2.66
1941
1987
2.276732
ACAACACATAGGCAGCAAGT
57.723
45.000
0.00
0.00
0.00
3.16
1942
1988
3.648339
AAACAACACATAGGCAGCAAG
57.352
42.857
0.00
0.00
0.00
4.01
1943
1989
3.382865
TCAAAACAACACATAGGCAGCAA
59.617
39.130
0.00
0.00
0.00
3.91
1944
1990
2.954989
TCAAAACAACACATAGGCAGCA
59.045
40.909
0.00
0.00
0.00
4.41
1945
1991
3.253188
TCTCAAAACAACACATAGGCAGC
59.747
43.478
0.00
0.00
0.00
5.25
1946
1992
4.320494
GGTCTCAAAACAACACATAGGCAG
60.320
45.833
0.00
0.00
0.00
4.85
1947
1993
3.568007
GGTCTCAAAACAACACATAGGCA
59.432
43.478
0.00
0.00
0.00
4.75
1948
1994
3.057526
GGGTCTCAAAACAACACATAGGC
60.058
47.826
0.00
0.00
0.00
3.93
1949
1995
4.216257
CAGGGTCTCAAAACAACACATAGG
59.784
45.833
0.00
0.00
0.00
2.57
1950
1996
4.320494
GCAGGGTCTCAAAACAACACATAG
60.320
45.833
0.00
0.00
0.00
2.23
1951
1997
3.568007
GCAGGGTCTCAAAACAACACATA
59.432
43.478
0.00
0.00
0.00
2.29
1952
1998
2.362077
GCAGGGTCTCAAAACAACACAT
59.638
45.455
0.00
0.00
0.00
3.21
1953
1999
1.748493
GCAGGGTCTCAAAACAACACA
59.252
47.619
0.00
0.00
0.00
3.72
1954
2000
2.024414
AGCAGGGTCTCAAAACAACAC
58.976
47.619
0.00
0.00
0.00
3.32
1955
2001
2.023673
CAGCAGGGTCTCAAAACAACA
58.976
47.619
0.00
0.00
0.00
3.33
1956
2002
2.024414
ACAGCAGGGTCTCAAAACAAC
58.976
47.619
0.00
0.00
0.00
3.32
1957
2003
2.023673
CACAGCAGGGTCTCAAAACAA
58.976
47.619
0.00
0.00
0.00
2.83
1958
2004
1.679139
CACAGCAGGGTCTCAAAACA
58.321
50.000
0.00
0.00
0.00
2.83
1959
2005
0.312102
GCACAGCAGGGTCTCAAAAC
59.688
55.000
0.00
0.00
0.00
2.43
1960
2006
0.823356
GGCACAGCAGGGTCTCAAAA
60.823
55.000
0.00
0.00
0.00
2.44
1961
2007
1.228245
GGCACAGCAGGGTCTCAAA
60.228
57.895
0.00
0.00
0.00
2.69
1962
2008
2.431683
GGCACAGCAGGGTCTCAA
59.568
61.111
0.00
0.00
0.00
3.02
1963
2009
4.007644
CGGCACAGCAGGGTCTCA
62.008
66.667
0.00
0.00
0.00
3.27
1971
2017
3.279116
GTCAAGTGCGGCACAGCA
61.279
61.111
32.29
14.01
45.96
4.41
1972
2018
2.133742
AATGTCAAGTGCGGCACAGC
62.134
55.000
32.29
19.18
36.74
4.40
1973
2019
0.311790
AAATGTCAAGTGCGGCACAG
59.688
50.000
32.29
23.85
36.74
3.66
1974
2020
0.030504
CAAATGTCAAGTGCGGCACA
59.969
50.000
32.29
13.92
36.74
4.57
1975
2021
0.310543
TCAAATGTCAAGTGCGGCAC
59.689
50.000
25.00
25.00
34.10
5.01
1976
2022
1.199789
GATCAAATGTCAAGTGCGGCA
59.800
47.619
0.00
0.00
0.00
5.69
1977
2023
1.199789
TGATCAAATGTCAAGTGCGGC
59.800
47.619
0.00
0.00
0.00
6.53
1978
2024
3.557577
TTGATCAAATGTCAAGTGCGG
57.442
42.857
5.45
0.00
32.23
5.69
1979
2025
4.725359
TCATTGATCAAATGTCAAGTGCG
58.275
39.130
13.09
0.00
45.14
5.34
1980
2026
6.327154
TGATCATTGATCAAATGTCAAGTGC
58.673
36.000
23.72
0.00
44.70
4.40
2007
2053
2.976494
AAGGGGAACGGGCAGTTGTG
62.976
60.000
7.99
0.00
44.35
3.33
2008
2054
2.292785
AAAGGGGAACGGGCAGTTGT
62.293
55.000
7.99
0.00
44.35
3.32
2009
2055
1.524008
GAAAGGGGAACGGGCAGTTG
61.524
60.000
7.99
0.00
44.35
3.16
2011
2057
2.434774
GAAAGGGGAACGGGCAGT
59.565
61.111
0.00
0.00
0.00
4.40
2012
2058
2.746277
CGAAAGGGGAACGGGCAG
60.746
66.667
0.00
0.00
0.00
4.85
2013
2059
3.562232
ACGAAAGGGGAACGGGCA
61.562
61.111
0.00
0.00
0.00
5.36
2014
2060
3.053896
CACGAAAGGGGAACGGGC
61.054
66.667
0.00
0.00
0.00
6.13
2015
2061
1.375523
CTCACGAAAGGGGAACGGG
60.376
63.158
0.00
0.00
33.12
5.28
2016
2062
0.389948
CTCTCACGAAAGGGGAACGG
60.390
60.000
0.00
0.00
33.12
4.44
2017
2063
0.601558
TCTCTCACGAAAGGGGAACG
59.398
55.000
0.00
0.00
33.12
3.95
2018
2064
1.066787
CCTCTCTCACGAAAGGGGAAC
60.067
57.143
0.00
0.00
33.12
3.62
2019
2065
1.267121
CCTCTCTCACGAAAGGGGAA
58.733
55.000
0.00
0.00
33.12
3.97
2020
2066
1.258445
GCCTCTCTCACGAAAGGGGA
61.258
60.000
0.00
0.00
33.12
4.81
2021
2067
1.219393
GCCTCTCTCACGAAAGGGG
59.781
63.158
0.00
0.00
33.12
4.79
2022
2068
1.153745
CGCCTCTCTCACGAAAGGG
60.154
63.158
0.00
0.00
0.00
3.95
2023
2069
0.457851
ATCGCCTCTCTCACGAAAGG
59.542
55.000
0.00
0.00
39.56
3.11
2024
2070
2.356382
ACTATCGCCTCTCTCACGAAAG
59.644
50.000
0.00
0.00
39.56
2.62
2025
2071
2.366533
ACTATCGCCTCTCTCACGAAA
58.633
47.619
0.00
0.00
39.56
3.46
2026
2072
2.039818
ACTATCGCCTCTCTCACGAA
57.960
50.000
0.00
0.00
39.56
3.85
2027
2073
2.039818
AACTATCGCCTCTCTCACGA
57.960
50.000
0.00
0.00
40.53
4.35
2028
2074
2.224549
CCTAACTATCGCCTCTCTCACG
59.775
54.545
0.00
0.00
0.00
4.35
2029
2075
2.030628
GCCTAACTATCGCCTCTCTCAC
60.031
54.545
0.00
0.00
0.00
3.51
2030
2076
2.231529
GCCTAACTATCGCCTCTCTCA
58.768
52.381
0.00
0.00
0.00
3.27
2031
2077
1.198178
CGCCTAACTATCGCCTCTCTC
59.802
57.143
0.00
0.00
0.00
3.20
2032
2078
1.202782
TCGCCTAACTATCGCCTCTCT
60.203
52.381
0.00
0.00
0.00
3.10
2033
2079
1.069091
GTCGCCTAACTATCGCCTCTC
60.069
57.143
0.00
0.00
0.00
3.20
2034
2080
0.953003
GTCGCCTAACTATCGCCTCT
59.047
55.000
0.00
0.00
0.00
3.69
2035
2081
0.666913
TGTCGCCTAACTATCGCCTC
59.333
55.000
0.00
0.00
0.00
4.70
2036
2082
0.669077
CTGTCGCCTAACTATCGCCT
59.331
55.000
0.00
0.00
0.00
5.52
2037
2083
0.384669
ACTGTCGCCTAACTATCGCC
59.615
55.000
0.00
0.00
0.00
5.54
2038
2084
2.205307
AACTGTCGCCTAACTATCGC
57.795
50.000
0.00
0.00
0.00
4.58
2039
2085
2.782192
CGAAACTGTCGCCTAACTATCG
59.218
50.000
0.00
0.00
44.14
2.92
2051
2097
0.512952
ATCGCAAGCACGAAACTGTC
59.487
50.000
0.59
0.00
46.59
3.51
2060
2106
2.806856
CGCCAGAGATCGCAAGCAC
61.807
63.158
10.44
0.00
37.18
4.40
2062
2108
2.202797
TCGCCAGAGATCGCAAGC
60.203
61.111
0.00
0.00
37.18
4.01
2182
2260
4.646572
GAGAATCCGAGGCCAGATTATTT
58.353
43.478
5.01
0.27
32.91
1.40
2208
2286
3.376078
GAGGGCGTCACCGTGGTA
61.376
66.667
1.64
0.00
40.62
3.25
2222
2300
2.124901
TTTACGCCGCCATGGAGG
60.125
61.111
28.87
28.87
42.78
4.30
2228
2306
4.770874
GGCTCCTTTACGCCGCCA
62.771
66.667
0.00
0.00
40.41
5.69
2263
2341
1.993370
CTCAACCCTCGAACGAATGAC
59.007
52.381
0.00
0.00
0.00
3.06
2266
2344
0.608640
AGCTCAACCCTCGAACGAAT
59.391
50.000
0.00
0.00
0.00
3.34
2275
2353
1.355720
AGGCACATAAAGCTCAACCCT
59.644
47.619
0.00
0.00
0.00
4.34
2276
2354
1.474077
CAGGCACATAAAGCTCAACCC
59.526
52.381
0.00
0.00
0.00
4.11
2306
2385
2.591753
GTAGGGGCAGCAGCATCA
59.408
61.111
2.65
0.00
44.61
3.07
2319
2398
2.029838
AGTACACGACGGTAGGTAGG
57.970
55.000
0.00
0.00
0.00
3.18
2320
2399
2.096496
CCAAGTACACGACGGTAGGTAG
59.904
54.545
0.00
0.00
0.00
3.18
2321
2400
2.083774
CCAAGTACACGACGGTAGGTA
58.916
52.381
0.00
0.00
0.00
3.08
2323
2402
1.131883
CTCCAAGTACACGACGGTAGG
59.868
57.143
0.00
0.00
0.00
3.18
2325
2404
0.523072
GCTCCAAGTACACGACGGTA
59.477
55.000
0.00
0.00
0.00
4.02
2326
2405
1.288127
GCTCCAAGTACACGACGGT
59.712
57.895
0.00
0.00
0.00
4.83
2328
2407
0.318360
TGTGCTCCAAGTACACGACG
60.318
55.000
0.00
0.00
35.91
5.12
2336
2429
1.668294
CTCCGTCTGTGCTCCAAGT
59.332
57.895
0.00
0.00
0.00
3.16
2350
2443
2.113139
ACTGCCACCAAACCTCCG
59.887
61.111
0.00
0.00
0.00
4.63
2367
2460
0.041090
GGGGAGGAAAGCCAAATCCA
59.959
55.000
0.00
0.00
38.23
3.41
2389
2482
1.434622
GCCACTCACTGCCGATGATG
61.435
60.000
0.00
0.00
0.00
3.07
2399
2492
0.689080
ATCTGGATCCGCCACTCACT
60.689
55.000
7.39
0.00
43.33
3.41
2401
2494
1.040646
GTATCTGGATCCGCCACTCA
58.959
55.000
7.39
0.00
43.33
3.41
2431
2532
2.185867
GCACGTCGGCTGGGAATA
59.814
61.111
0.00
0.00
0.00
1.75
2438
2539
2.184322
CTATGTGGCACGTCGGCT
59.816
61.111
17.00
0.00
41.89
5.52
2454
2556
3.786635
CTTATAGAACAGGCGCTTGACT
58.213
45.455
27.58
23.63
0.00
3.41
2479
2581
3.450028
GCTTTGAGAGCCGATGACT
57.550
52.632
0.00
0.00
46.01
3.41
2501
2603
4.473643
GCCAACGCCATAGCCATA
57.526
55.556
0.00
0.00
34.57
2.74
2544
2646
1.596895
GACTCGCCGGAAGAAGAGGT
61.597
60.000
5.05
0.00
38.25
3.85
2591
2693
5.163683
CCCTGCAGATAATCAACACAGAAAG
60.164
44.000
17.39
0.00
0.00
2.62
2603
2705
1.707427
CTTAGGGGCCCTGCAGATAAT
59.293
52.381
35.70
8.00
34.61
1.28
2611
2713
1.059006
AGATGCTCTTAGGGGCCCTG
61.059
60.000
35.70
19.77
34.61
4.45
2616
2718
2.224066
CGGTTGTAGATGCTCTTAGGGG
60.224
54.545
0.00
0.00
0.00
4.79
2617
2719
2.224066
CCGGTTGTAGATGCTCTTAGGG
60.224
54.545
0.00
0.00
0.00
3.53
2620
2722
2.429610
GGTCCGGTTGTAGATGCTCTTA
59.570
50.000
0.00
0.00
0.00
2.10
2621
2723
1.207329
GGTCCGGTTGTAGATGCTCTT
59.793
52.381
0.00
0.00
0.00
2.85
2623
2725
0.179081
GGGTCCGGTTGTAGATGCTC
60.179
60.000
0.00
0.00
0.00
4.26
2624
2726
0.617820
AGGGTCCGGTTGTAGATGCT
60.618
55.000
0.00
0.00
0.00
3.79
2625
2727
0.252197
AAGGGTCCGGTTGTAGATGC
59.748
55.000
0.00
0.00
0.00
3.91
2626
2728
1.553248
TGAAGGGTCCGGTTGTAGATG
59.447
52.381
0.00
0.00
0.00
2.90
2627
2729
1.946984
TGAAGGGTCCGGTTGTAGAT
58.053
50.000
0.00
0.00
0.00
1.98
2628
2730
1.946984
ATGAAGGGTCCGGTTGTAGA
58.053
50.000
0.00
0.00
0.00
2.59
2629
2731
2.159000
GGTATGAAGGGTCCGGTTGTAG
60.159
54.545
0.00
0.00
0.00
2.74
2630
2732
1.832998
GGTATGAAGGGTCCGGTTGTA
59.167
52.381
0.00
0.00
0.00
2.41
2631
2733
0.616891
GGTATGAAGGGTCCGGTTGT
59.383
55.000
0.00
0.00
0.00
3.32
2632
2734
0.909623
AGGTATGAAGGGTCCGGTTG
59.090
55.000
0.00
0.00
0.00
3.77
2633
2735
0.909623
CAGGTATGAAGGGTCCGGTT
59.090
55.000
0.00
0.00
0.00
4.44
2634
2736
1.623542
GCAGGTATGAAGGGTCCGGT
61.624
60.000
0.00
0.00
0.00
5.28
2635
2737
1.146263
GCAGGTATGAAGGGTCCGG
59.854
63.158
0.00
0.00
0.00
5.14
2636
2738
1.146263
GGCAGGTATGAAGGGTCCG
59.854
63.158
0.00
0.00
0.00
4.79
2637
2739
1.532238
GGGCAGGTATGAAGGGTCC
59.468
63.158
0.00
0.00
0.00
4.46
2638
2740
1.279025
TGGGGCAGGTATGAAGGGTC
61.279
60.000
0.00
0.00
0.00
4.46
2639
2741
0.849094
TTGGGGCAGGTATGAAGGGT
60.849
55.000
0.00
0.00
0.00
4.34
2640
2742
0.334676
TTTGGGGCAGGTATGAAGGG
59.665
55.000
0.00
0.00
0.00
3.95
2641
2743
1.474330
GTTTGGGGCAGGTATGAAGG
58.526
55.000
0.00
0.00
0.00
3.46
2642
2744
1.094785
CGTTTGGGGCAGGTATGAAG
58.905
55.000
0.00
0.00
0.00
3.02
2643
2745
0.402504
ACGTTTGGGGCAGGTATGAA
59.597
50.000
0.00
0.00
0.00
2.57
2644
2746
0.035820
GACGTTTGGGGCAGGTATGA
60.036
55.000
0.00
0.00
0.00
2.15
2645
2747
0.035439
AGACGTTTGGGGCAGGTATG
60.035
55.000
0.00
0.00
0.00
2.39
2646
2748
1.485066
CTAGACGTTTGGGGCAGGTAT
59.515
52.381
0.00
0.00
0.00
2.73
2647
2749
0.899720
CTAGACGTTTGGGGCAGGTA
59.100
55.000
0.00
0.00
0.00
3.08
2648
2750
0.834687
TCTAGACGTTTGGGGCAGGT
60.835
55.000
0.00
0.00
0.00
4.00
2649
2751
0.391263
GTCTAGACGTTTGGGGCAGG
60.391
60.000
7.22
0.00
0.00
4.85
2650
2752
0.320374
TGTCTAGACGTTTGGGGCAG
59.680
55.000
17.85
0.00
0.00
4.85
2651
2753
0.034337
GTGTCTAGACGTTTGGGGCA
59.966
55.000
17.85
0.00
0.00
5.36
2652
2754
1.012486
CGTGTCTAGACGTTTGGGGC
61.012
60.000
17.85
0.62
34.56
5.80
2653
2755
0.389426
CCGTGTCTAGACGTTTGGGG
60.389
60.000
17.85
8.47
37.66
4.96
2654
2756
0.316204
ACCGTGTCTAGACGTTTGGG
59.684
55.000
17.85
14.98
37.66
4.12
2655
2757
1.790623
CAACCGTGTCTAGACGTTTGG
59.209
52.381
17.85
17.04
37.89
3.28
2656
2758
1.191647
GCAACCGTGTCTAGACGTTTG
59.808
52.381
17.85
16.62
42.63
2.93
2657
2759
1.494824
GCAACCGTGTCTAGACGTTT
58.505
50.000
17.85
5.47
37.66
3.60
2658
2760
0.319297
GGCAACCGTGTCTAGACGTT
60.319
55.000
17.85
12.66
37.66
3.99
2659
2761
1.288127
GGCAACCGTGTCTAGACGT
59.712
57.895
17.85
7.20
37.66
4.34
2660
2762
4.164252
GGCAACCGTGTCTAGACG
57.836
61.111
17.85
7.66
39.13
4.18
2681
2783
4.577246
TGGGTGCGGTTTTTGCGC
62.577
61.111
0.00
0.00
41.98
6.09
2682
2784
2.105128
TTGGGTGCGGTTTTTGCG
59.895
55.556
0.00
0.00
34.24
4.85
2683
2785
1.151172
CTGTTGGGTGCGGTTTTTGC
61.151
55.000
0.00
0.00
0.00
3.68
2684
2786
0.174617
ACTGTTGGGTGCGGTTTTTG
59.825
50.000
0.00
0.00
0.00
2.44
2685
2787
1.406180
GTACTGTTGGGTGCGGTTTTT
59.594
47.619
0.00
0.00
0.00
1.94
2686
2788
1.026584
GTACTGTTGGGTGCGGTTTT
58.973
50.000
0.00
0.00
0.00
2.43
2687
2789
0.820482
GGTACTGTTGGGTGCGGTTT
60.820
55.000
0.00
0.00
0.00
3.27
2688
2790
1.228033
GGTACTGTTGGGTGCGGTT
60.228
57.895
0.00
0.00
0.00
4.44
2689
2791
2.428622
GGTACTGTTGGGTGCGGT
59.571
61.111
0.00
0.00
0.00
5.68
2690
2792
1.964373
GTGGTACTGTTGGGTGCGG
60.964
63.158
0.00
0.00
0.00
5.69
2691
2793
0.534203
AAGTGGTACTGTTGGGTGCG
60.534
55.000
0.00
0.00
0.00
5.34
2692
2794
2.554370
TAAGTGGTACTGTTGGGTGC
57.446
50.000
0.00
0.00
0.00
5.01
2693
2795
4.457949
GGATTTAAGTGGTACTGTTGGGTG
59.542
45.833
0.00
0.00
0.00
4.61
2694
2796
4.659115
GGATTTAAGTGGTACTGTTGGGT
58.341
43.478
0.00
0.00
0.00
4.51
2695
2797
3.687698
CGGATTTAAGTGGTACTGTTGGG
59.312
47.826
0.00
0.00
0.00
4.12
2696
2798
3.687698
CCGGATTTAAGTGGTACTGTTGG
59.312
47.826
0.00
0.00
0.00
3.77
2697
2799
4.320870
ACCGGATTTAAGTGGTACTGTTG
58.679
43.478
9.46
0.00
31.60
3.33
2698
2800
4.628963
ACCGGATTTAAGTGGTACTGTT
57.371
40.909
9.46
0.00
31.60
3.16
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.