Multiple sequence alignment - TraesCS1A01G295400
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
TraesCS1A01G295400
chr1A
100.000
1804
0
0
716
2519
490417959
490419762
0.000000e+00
3332
1
TraesCS1A01G295400
chr1A
85.878
1225
109
40
789
1992
62794771
62793590
0.000000e+00
1245
2
TraesCS1A01G295400
chr1A
87.399
992
75
20
768
1732
490759741
490760709
0.000000e+00
1094
3
TraesCS1A01G295400
chr1A
92.832
558
38
2
841
1398
487568496
487569051
0.000000e+00
808
4
TraesCS1A01G295400
chr1A
100.000
371
0
0
1
371
490417244
490417614
0.000000e+00
686
5
TraesCS1A01G295400
chr1A
92.121
330
22
2
2192
2519
490778344
490778671
1.770000e-126
462
6
TraesCS1A01G295400
chr1A
90.909
341
28
2
1
339
490759354
490759693
2.950000e-124
455
7
TraesCS1A01G295400
chr1A
88.953
344
26
5
2180
2519
62793606
62793271
5.010000e-112
414
8
TraesCS1A01G295400
chr1A
87.712
236
22
6
1726
1959
490777846
490778076
4.130000e-68
268
9
TraesCS1A01G295400
chr1B
86.574
1147
99
34
859
1992
104481696
104480592
0.000000e+00
1214
10
TraesCS1A01G295400
chr1B
86.501
1126
100
27
749
1841
527287966
527289072
0.000000e+00
1190
11
TraesCS1A01G295400
chr1B
91.182
567
41
6
841
1406
521352209
521352767
0.000000e+00
761
12
TraesCS1A01G295400
chr1B
87.356
609
62
11
866
1471
608335832
608335236
0.000000e+00
684
13
TraesCS1A01G295400
chr1B
91.167
317
24
3
2204
2517
527289882
527290197
6.440000e-116
427
14
TraesCS1A01G295400
chr1B
86.047
344
25
6
2180
2519
104480608
104480284
5.160000e-92
348
15
TraesCS1A01G295400
chr1B
96.825
189
6
0
1992
2180
110622812
110623000
1.450000e-82
316
16
TraesCS1A01G295400
chr1D
86.927
1048
95
23
859
1894
63682289
63681272
0.000000e+00
1138
17
TraesCS1A01G295400
chr1D
90.619
565
51
2
841
1405
388024381
388024943
0.000000e+00
749
18
TraesCS1A01G295400
chr1D
89.394
198
15
5
1775
1970
394490469
394490276
6.960000e-61
244
19
TraesCS1A01G295400
chr1D
90.076
131
13
0
2389
2519
394490181
394490051
1.200000e-38
171
20
TraesCS1A01G295400
chr6B
85.580
1061
80
30
787
1808
679983726
679982700
0.000000e+00
1044
21
TraesCS1A01G295400
chr6B
85.404
322
39
6
24
342
679984117
679983801
6.720000e-86
327
22
TraesCS1A01G295400
chr6B
96.809
188
6
0
1992
2179
475722681
475722868
5.230000e-82
315
23
TraesCS1A01G295400
chr6B
87.200
125
4
6
1879
1992
679982685
679982562
5.650000e-27
132
24
TraesCS1A01G295400
chr3A
96.392
194
7
0
1991
2184
642038941
642038748
1.120000e-83
320
25
TraesCS1A01G295400
chr7A
96.354
192
7
0
1991
2182
105168996
105168805
1.450000e-82
316
26
TraesCS1A01G295400
chr5A
96.809
188
6
0
1993
2180
219371603
219371790
5.230000e-82
315
27
TraesCS1A01G295400
chr4A
96.809
188
6
0
1993
2180
20234536
20234723
5.230000e-82
315
28
TraesCS1A01G295400
chr2B
96.335
191
7
0
1990
2180
409336568
409336378
5.230000e-82
315
29
TraesCS1A01G295400
chr6A
96.791
187
6
0
1994
2180
7980290
7980476
1.880000e-81
313
30
TraesCS1A01G295400
chr7B
94.554
202
7
3
1991
2189
68862024
68862224
2.430000e-80
309
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
TraesCS1A01G295400
chr1A
490417244
490419762
2518
False
2009.0
3332
100.000000
1
2519
2
chr1A.!!$F2
2518
1
TraesCS1A01G295400
chr1A
62793271
62794771
1500
True
829.5
1245
87.415500
789
2519
2
chr1A.!!$R1
1730
2
TraesCS1A01G295400
chr1A
487568496
487569051
555
False
808.0
808
92.832000
841
1398
1
chr1A.!!$F1
557
3
TraesCS1A01G295400
chr1A
490759354
490760709
1355
False
774.5
1094
89.154000
1
1732
2
chr1A.!!$F3
1731
4
TraesCS1A01G295400
chr1A
490777846
490778671
825
False
365.0
462
89.916500
1726
2519
2
chr1A.!!$F4
793
5
TraesCS1A01G295400
chr1B
527287966
527290197
2231
False
808.5
1190
88.834000
749
2517
2
chr1B.!!$F3
1768
6
TraesCS1A01G295400
chr1B
104480284
104481696
1412
True
781.0
1214
86.310500
859
2519
2
chr1B.!!$R2
1660
7
TraesCS1A01G295400
chr1B
521352209
521352767
558
False
761.0
761
91.182000
841
1406
1
chr1B.!!$F2
565
8
TraesCS1A01G295400
chr1B
608335236
608335832
596
True
684.0
684
87.356000
866
1471
1
chr1B.!!$R1
605
9
TraesCS1A01G295400
chr1D
63681272
63682289
1017
True
1138.0
1138
86.927000
859
1894
1
chr1D.!!$R1
1035
10
TraesCS1A01G295400
chr1D
388024381
388024943
562
False
749.0
749
90.619000
841
1405
1
chr1D.!!$F1
564
11
TraesCS1A01G295400
chr6B
679982562
679984117
1555
True
501.0
1044
86.061333
24
1992
3
chr6B.!!$R1
1968
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
782
787
0.036765
TTCCTAGTTCGCGCCATTGT
60.037
50.0
0.0
0.0
0.0
2.71
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
2117
2472
0.036164
CCATGAGGTCACGGGTTCAA
59.964
55.0
0.0
0.0
0.0
2.69
R
All possible primers
Listed here are all possible primers based on the multiple sequence alignment and SNPs generated
previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work
during PCR or sequencing,
these could be used as alternatives.
Forward
Primers
Reverse
Primers
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
34
35
3.628487
TCGTTCGGTTTGTTTCAAATCCT
59.372
39.130
0.00
0.00
0.00
3.24
35
36
4.815308
TCGTTCGGTTTGTTTCAAATCCTA
59.185
37.500
0.00
0.00
0.00
2.94
51
52
1.757306
CTATTGGATGGCCGGCTCT
59.243
57.895
28.56
14.25
36.79
4.09
59
60
4.615815
GGCCGGCTCTCGCATCAT
62.616
66.667
28.56
0.00
38.10
2.45
64
65
0.529337
CGGCTCTCGCATCATTGTCT
60.529
55.000
0.00
0.00
38.10
3.41
87
88
1.149987
GTGTCCGCGAACAAATACCA
58.850
50.000
8.23
0.00
0.00
3.25
91
92
3.253677
TGTCCGCGAACAAATACCATTTT
59.746
39.130
8.23
0.00
0.00
1.82
92
93
3.849708
GTCCGCGAACAAATACCATTTTC
59.150
43.478
8.23
0.00
0.00
2.29
104
107
7.868922
ACAAATACCATTTTCGTTAGGGTTTTC
59.131
33.333
0.00
0.00
33.14
2.29
133
136
5.254115
GAGTTGCCCTTAGACTTACCAAAT
58.746
41.667
0.00
0.00
0.00
2.32
185
189
3.689161
CGCTCCACCTCACAATTTTCATA
59.311
43.478
0.00
0.00
0.00
2.15
359
363
4.153958
TCTCAAAAACACACACACACAC
57.846
40.909
0.00
0.00
0.00
3.82
360
364
3.565902
TCTCAAAAACACACACACACACA
59.434
39.130
0.00
0.00
0.00
3.72
361
365
3.633235
TCAAAAACACACACACACACAC
58.367
40.909
0.00
0.00
0.00
3.82
362
366
3.066760
TCAAAAACACACACACACACACA
59.933
39.130
0.00
0.00
0.00
3.72
363
367
2.697431
AAACACACACACACACACAC
57.303
45.000
0.00
0.00
0.00
3.82
364
368
1.598882
AACACACACACACACACACA
58.401
45.000
0.00
0.00
0.00
3.72
365
369
0.871722
ACACACACACACACACACAC
59.128
50.000
0.00
0.00
0.00
3.82
366
370
0.871057
CACACACACACACACACACA
59.129
50.000
0.00
0.00
0.00
3.72
367
371
0.871722
ACACACACACACACACACAC
59.128
50.000
0.00
0.00
0.00
3.82
368
372
0.871057
CACACACACACACACACACA
59.129
50.000
0.00
0.00
0.00
3.72
742
746
5.761165
ATATTTTGGTAAAATCGACGGGG
57.239
39.130
3.06
0.00
41.16
5.73
745
749
5.641330
ATTTTGGTAAAATCGACGGGGACC
61.641
45.833
0.00
0.00
40.45
4.46
782
787
0.036765
TTCCTAGTTCGCGCCATTGT
60.037
50.000
0.00
0.00
0.00
2.71
785
790
0.095245
CTAGTTCGCGCCATTGTGTG
59.905
55.000
0.00
0.00
0.00
3.82
945
992
2.096406
CATCGAACGGCAGCAACG
59.904
61.111
0.00
0.00
37.36
4.10
989
1046
1.643811
CCTTAAAATCCCCTCCCCACA
59.356
52.381
0.00
0.00
0.00
4.17
1001
1059
1.076777
CCCCACATCCGGCAAATCT
60.077
57.895
0.00
0.00
0.00
2.40
1002
1060
1.103398
CCCCACATCCGGCAAATCTC
61.103
60.000
0.00
0.00
0.00
2.75
1028
1088
0.321564
CAATTCACCACCGCTCCTCA
60.322
55.000
0.00
0.00
0.00
3.86
1038
1103
2.896443
GCTCCTCAACCTCCTCCG
59.104
66.667
0.00
0.00
0.00
4.63
1297
1363
2.503375
GACGCCGTCACCTACACG
60.503
66.667
13.23
0.00
36.99
4.49
1405
1471
4.475135
GCTCTTCCTCGCCACCCC
62.475
72.222
0.00
0.00
0.00
4.95
1406
1472
3.003173
CTCTTCCTCGCCACCCCA
61.003
66.667
0.00
0.00
0.00
4.96
1418
1488
3.402681
ACCCCACTGCAGATCCCG
61.403
66.667
23.35
5.88
0.00
5.14
1451
1521
0.662374
ACCGCGACTTGTGTAGTTCG
60.662
55.000
8.23
0.00
37.17
3.95
1455
1525
1.912110
GCGACTTGTGTAGTTCGCTAG
59.088
52.381
7.53
0.00
43.60
3.42
1490
1561
5.258456
TCGCTATTTCCTCTGTATTTCGT
57.742
39.130
0.00
0.00
0.00
3.85
1502
1573
4.796830
TCTGTATTTCGTACTGAATCGTGC
59.203
41.667
0.00
0.00
38.03
5.34
1553
1628
8.641498
AAATCAAACATGTCTCTGAAATACCT
57.359
30.769
0.00
0.00
0.00
3.08
1563
1638
6.096695
GTCTCTGAAATACCTTGTCTCTGAC
58.903
44.000
0.00
0.00
0.00
3.51
1579
1654
3.216800
TCTGACTTTGTTCTGCTGCATT
58.783
40.909
1.31
0.00
0.00
3.56
1587
1662
4.488126
TGTTCTGCTGCATTTCTGTTAC
57.512
40.909
1.31
0.00
0.00
2.50
1598
1675
7.535940
GCTGCATTTCTGTTACGTAAAATTGTA
59.464
33.333
10.11
6.65
0.00
2.41
1650
1727
2.676748
TGGGAGTTGGATTGTTTTGCT
58.323
42.857
0.00
0.00
0.00
3.91
1667
1744
5.897377
TTTGCTATTCTTTTACCAGGAGC
57.103
39.130
0.00
0.00
0.00
4.70
1679
1756
2.041265
AGGAGCCCCTGACGGATT
59.959
61.111
0.00
0.00
42.42
3.01
1681
1758
2.514824
GAGCCCCTGACGGATTGC
60.515
66.667
0.00
0.00
0.00
3.56
1683
1760
2.124151
GCCCCTGACGGATTGCAT
60.124
61.111
0.00
0.00
0.00
3.96
1692
1769
0.733566
ACGGATTGCATTTGCTTGCG
60.734
50.000
14.57
14.57
45.77
4.85
1696
1773
2.273557
GATTGCATTTGCTTGCGGAAT
58.726
42.857
3.94
0.00
45.77
3.01
1698
1775
2.565210
TGCATTTGCTTGCGGAATAG
57.435
45.000
3.94
0.00
45.77
1.73
1701
1779
3.441922
TGCATTTGCTTGCGGAATAGTTA
59.558
39.130
3.94
0.00
45.77
2.24
1705
1783
2.006888
TGCTTGCGGAATAGTTAGTGC
58.993
47.619
0.00
0.00
0.00
4.40
1712
1790
2.744823
CGGAATAGTTAGTGCATGGCCA
60.745
50.000
8.56
8.56
0.00
5.36
1727
1805
2.449464
TGGCCAAATCAGGAACATCAG
58.551
47.619
0.61
0.00
0.00
2.90
1732
1810
3.367703
CCAAATCAGGAACATCAGTTGCC
60.368
47.826
0.00
0.00
46.06
4.52
1748
1828
1.917872
TGCCCCGTTTCTGCTATTTT
58.082
45.000
0.00
0.00
0.00
1.82
1766
1846
8.901793
TGCTATTTTATCTGATGCATTTGTACA
58.098
29.630
0.00
0.00
0.00
2.90
1767
1847
9.734620
GCTATTTTATCTGATGCATTTGTACAA
57.265
29.630
3.59
3.59
0.00
2.41
1772
1852
4.018490
TCTGATGCATTTGTACAAGGCAT
58.982
39.130
32.50
32.50
42.08
4.40
1784
1864
8.929827
TTTGTACAAGGCATCATTTATGATTG
57.070
30.769
8.56
3.06
44.70
2.67
1789
1873
7.262772
ACAAGGCATCATTTATGATTGTTCTG
58.737
34.615
2.51
1.32
44.70
3.02
1812
1896
7.976175
TCTGTGTTGCAACAATGTGTTTAATTA
59.024
29.630
32.61
2.99
38.77
1.40
1815
1899
8.061268
GTGTTGCAACAATGTGTTTAATTAAGG
58.939
33.333
32.61
0.00
38.77
2.69
1834
1918
9.990868
AATTAAGGTTGGGATTAGTCTGTATTT
57.009
29.630
0.00
0.00
0.00
1.40
1835
1919
9.628500
ATTAAGGTTGGGATTAGTCTGTATTTC
57.372
33.333
0.00
0.00
0.00
2.17
1836
1920
6.636454
AGGTTGGGATTAGTCTGTATTTCA
57.364
37.500
0.00
0.00
0.00
2.69
1838
1922
8.331931
AGGTTGGGATTAGTCTGTATTTCATA
57.668
34.615
0.00
0.00
0.00
2.15
1862
1950
7.798596
ACATCGATTTCTAGATTGATTTGCT
57.201
32.000
0.00
0.00
29.52
3.91
1894
1982
3.119602
GCTCTGTGCAAATCATCATGTGT
60.120
43.478
0.00
0.00
42.31
3.72
1898
1986
4.558178
TGTGCAAATCATCATGTGTTTCC
58.442
39.130
0.00
0.00
0.00
3.13
1908
1996
7.757941
TCATCATGTGTTTCCTGTTAATCAA
57.242
32.000
0.00
0.00
0.00
2.57
1910
1998
8.805175
TCATCATGTGTTTCCTGTTAATCAAAT
58.195
29.630
0.00
0.00
0.00
2.32
1913
2001
8.081633
TCATGTGTTTCCTGTTAATCAAATGTC
58.918
33.333
0.00
0.00
30.64
3.06
1914
2002
7.340122
TGTGTTTCCTGTTAATCAAATGTCA
57.660
32.000
0.00
0.00
0.00
3.58
1916
2004
7.068103
TGTGTTTCCTGTTAATCAAATGTCACT
59.932
33.333
0.00
0.00
0.00
3.41
1974
2329
7.041576
GCAGTAATACTTCATCTGATGCATCAA
60.042
37.037
28.39
19.41
36.18
2.57
1985
2340
3.336468
TGATGCATCAAACATTTTGGCC
58.664
40.909
26.87
0.00
33.08
5.36
1986
2341
1.793258
TGCATCAAACATTTTGGCCG
58.207
45.000
0.00
0.00
0.00
6.13
1987
2342
1.069823
TGCATCAAACATTTTGGCCGT
59.930
42.857
0.00
0.00
0.00
5.68
1988
2343
1.460359
GCATCAAACATTTTGGCCGTG
59.540
47.619
0.00
0.00
0.00
4.94
1989
2344
2.067766
CATCAAACATTTTGGCCGTGG
58.932
47.619
0.00
0.00
0.00
4.94
1990
2345
0.249657
TCAAACATTTTGGCCGTGGC
60.250
50.000
1.16
1.16
41.06
5.01
1991
2346
0.531532
CAAACATTTTGGCCGTGGCA
60.532
50.000
13.76
0.00
44.11
4.92
1992
2347
0.179000
AAACATTTTGGCCGTGGCAA
59.821
45.000
13.76
4.81
46.03
4.52
2018
2373
3.078836
GGCAGCCCCAATGCATGT
61.079
61.111
0.00
0.00
45.68
3.21
2019
2374
1.757731
GGCAGCCCCAATGCATGTA
60.758
57.895
0.00
0.00
45.68
2.29
2020
2375
1.737816
GCAGCCCCAATGCATGTAG
59.262
57.895
0.00
0.00
43.31
2.74
2021
2376
1.737816
CAGCCCCAATGCATGTAGC
59.262
57.895
0.00
1.14
45.96
3.58
2022
2377
0.754217
CAGCCCCAATGCATGTAGCT
60.754
55.000
0.00
3.80
45.94
3.32
2023
2378
0.466922
AGCCCCAATGCATGTAGCTC
60.467
55.000
0.00
0.00
45.94
4.09
2024
2379
1.458639
GCCCCAATGCATGTAGCTCC
61.459
60.000
0.00
0.00
45.94
4.70
2025
2380
0.825010
CCCCAATGCATGTAGCTCCC
60.825
60.000
0.00
0.00
45.94
4.30
2026
2381
1.168407
CCCAATGCATGTAGCTCCCG
61.168
60.000
0.00
0.00
45.94
5.14
2027
2382
1.650912
CAATGCATGTAGCTCCCGC
59.349
57.895
0.00
0.00
45.94
6.13
2029
2384
0.107017
AATGCATGTAGCTCCCGCTT
60.107
50.000
0.00
0.00
46.47
4.68
2030
2385
0.816825
ATGCATGTAGCTCCCGCTTG
60.817
55.000
0.00
0.00
46.47
4.01
2031
2386
2.828128
GCATGTAGCTCCCGCTTGC
61.828
63.158
0.00
0.00
46.47
4.01
2032
2387
2.202932
ATGTAGCTCCCGCTTGCG
60.203
61.111
8.14
8.14
46.47
4.85
2035
2390
4.386951
TAGCTCCCGCTTGCGCAA
62.387
61.111
23.48
23.48
46.47
4.85
2041
2396
2.434185
CCGCTTGCGCAAGGTCTA
60.434
61.111
41.83
14.50
38.80
2.59
2042
2397
2.456119
CCGCTTGCGCAAGGTCTAG
61.456
63.158
41.83
23.74
38.80
2.43
2043
2398
2.456119
CGCTTGCGCAAGGTCTAGG
61.456
63.158
41.83
22.68
38.80
3.02
2044
2399
1.376037
GCTTGCGCAAGGTCTAGGT
60.376
57.895
41.83
0.00
38.80
3.08
2045
2400
0.108329
GCTTGCGCAAGGTCTAGGTA
60.108
55.000
41.83
11.45
38.80
3.08
2046
2401
1.674817
GCTTGCGCAAGGTCTAGGTAA
60.675
52.381
41.83
10.91
38.80
2.85
2047
2402
2.271800
CTTGCGCAAGGTCTAGGTAAG
58.728
52.381
36.86
12.36
34.87
2.34
2048
2403
0.535335
TGCGCAAGGTCTAGGTAAGG
59.465
55.000
8.16
0.00
38.28
2.69
2049
2404
0.179081
GCGCAAGGTCTAGGTAAGGG
60.179
60.000
0.30
0.00
38.28
3.95
2050
2405
1.192428
CGCAAGGTCTAGGTAAGGGT
58.808
55.000
0.00
0.00
0.00
4.34
2051
2406
1.136500
CGCAAGGTCTAGGTAAGGGTC
59.864
57.143
0.00
0.00
0.00
4.46
2052
2407
1.485480
GCAAGGTCTAGGTAAGGGTCC
59.515
57.143
0.00
0.00
0.00
4.46
2053
2408
1.755380
CAAGGTCTAGGTAAGGGTCCG
59.245
57.143
0.00
0.00
0.00
4.79
2054
2409
1.302907
AGGTCTAGGTAAGGGTCCGA
58.697
55.000
0.00
0.00
0.00
4.55
2055
2410
1.064091
AGGTCTAGGTAAGGGTCCGAC
60.064
57.143
0.00
0.00
0.00
4.79
2056
2411
1.397672
GTCTAGGTAAGGGTCCGACC
58.602
60.000
9.30
9.30
37.60
4.79
2057
2412
1.002069
TCTAGGTAAGGGTCCGACCA
58.998
55.000
19.43
0.00
41.02
4.02
2058
2413
1.109609
CTAGGTAAGGGTCCGACCAC
58.890
60.000
19.43
8.76
41.02
4.16
2059
2414
0.706433
TAGGTAAGGGTCCGACCACT
59.294
55.000
19.43
10.80
41.02
4.00
2060
2415
0.178912
AGGTAAGGGTCCGACCACTT
60.179
55.000
19.43
19.32
41.02
3.16
2061
2416
0.689055
GGTAAGGGTCCGACCACTTT
59.311
55.000
19.43
12.03
41.02
2.66
2062
2417
1.609841
GGTAAGGGTCCGACCACTTTG
60.610
57.143
19.43
0.00
41.02
2.77
2063
2418
0.688487
TAAGGGTCCGACCACTTTGG
59.312
55.000
19.43
0.00
41.02
3.28
2064
2419
2.033602
GGGTCCGACCACTTTGGG
59.966
66.667
19.43
0.00
43.37
4.12
2065
2420
2.826003
GGGTCCGACCACTTTGGGT
61.826
63.158
19.43
0.00
43.37
4.51
2076
2431
4.270008
ACCACTTTGGGTCTATTGTATGC
58.730
43.478
0.00
0.00
43.37
3.14
2077
2432
4.263727
ACCACTTTGGGTCTATTGTATGCA
60.264
41.667
0.00
0.00
43.37
3.96
2078
2433
4.336433
CCACTTTGGGTCTATTGTATGCAG
59.664
45.833
0.00
0.00
32.67
4.41
2079
2434
3.947834
ACTTTGGGTCTATTGTATGCAGC
59.052
43.478
0.00
0.00
0.00
5.25
2080
2435
2.638480
TGGGTCTATTGTATGCAGCC
57.362
50.000
0.00
0.00
0.00
4.85
2081
2436
2.126882
TGGGTCTATTGTATGCAGCCT
58.873
47.619
0.00
0.00
0.00
4.58
2082
2437
2.509548
TGGGTCTATTGTATGCAGCCTT
59.490
45.455
0.00
0.00
0.00
4.35
2083
2438
3.053693
TGGGTCTATTGTATGCAGCCTTT
60.054
43.478
0.00
0.00
0.00
3.11
2084
2439
3.565902
GGGTCTATTGTATGCAGCCTTTC
59.434
47.826
0.00
0.00
0.00
2.62
2085
2440
3.565902
GGTCTATTGTATGCAGCCTTTCC
59.434
47.826
0.00
0.00
0.00
3.13
2086
2441
3.565902
GTCTATTGTATGCAGCCTTTCCC
59.434
47.826
0.00
0.00
0.00
3.97
2087
2442
2.834638
ATTGTATGCAGCCTTTCCCT
57.165
45.000
0.00
0.00
0.00
4.20
2088
2443
3.951563
ATTGTATGCAGCCTTTCCCTA
57.048
42.857
0.00
0.00
0.00
3.53
2089
2444
2.710096
TGTATGCAGCCTTTCCCTAC
57.290
50.000
0.00
0.00
0.00
3.18
2090
2445
1.912731
TGTATGCAGCCTTTCCCTACA
59.087
47.619
0.00
0.00
0.00
2.74
2091
2446
2.509548
TGTATGCAGCCTTTCCCTACAT
59.490
45.455
0.00
0.00
0.00
2.29
2092
2447
2.834638
ATGCAGCCTTTCCCTACATT
57.165
45.000
0.00
0.00
0.00
2.71
2093
2448
2.603075
TGCAGCCTTTCCCTACATTT
57.397
45.000
0.00
0.00
0.00
2.32
2094
2449
2.446435
TGCAGCCTTTCCCTACATTTC
58.554
47.619
0.00
0.00
0.00
2.17
2095
2450
2.041620
TGCAGCCTTTCCCTACATTTCT
59.958
45.455
0.00
0.00
0.00
2.52
2096
2451
2.424956
GCAGCCTTTCCCTACATTTCTG
59.575
50.000
0.00
0.00
0.00
3.02
2097
2452
2.424956
CAGCCTTTCCCTACATTTCTGC
59.575
50.000
0.00
0.00
0.00
4.26
2098
2453
2.041620
AGCCTTTCCCTACATTTCTGCA
59.958
45.455
0.00
0.00
0.00
4.41
2099
2454
2.825532
GCCTTTCCCTACATTTCTGCAA
59.174
45.455
0.00
0.00
0.00
4.08
2100
2455
3.119352
GCCTTTCCCTACATTTCTGCAAG
60.119
47.826
0.00
0.00
0.00
4.01
2101
2456
4.335416
CCTTTCCCTACATTTCTGCAAGA
58.665
43.478
0.00
0.00
44.68
3.02
2111
2466
3.329300
TCTGCAAGAGGCTGTTTCC
57.671
52.632
0.00
0.00
38.67
3.13
2112
2467
0.473755
TCTGCAAGAGGCTGTTTCCA
59.526
50.000
0.00
0.00
38.67
3.53
2113
2468
0.879765
CTGCAAGAGGCTGTTTCCAG
59.120
55.000
0.00
0.00
45.15
3.86
2114
2469
0.538057
TGCAAGAGGCTGTTTCCAGG
60.538
55.000
0.00
0.00
45.15
4.45
2115
2470
0.250901
GCAAGAGGCTGTTTCCAGGA
60.251
55.000
0.00
0.00
39.22
3.86
2116
2471
1.528129
CAAGAGGCTGTTTCCAGGAC
58.472
55.000
0.00
0.00
39.22
3.85
2117
2472
1.072965
CAAGAGGCTGTTTCCAGGACT
59.927
52.381
0.00
0.00
39.22
3.85
2118
2473
1.439543
AGAGGCTGTTTCCAGGACTT
58.560
50.000
0.00
0.00
39.22
3.01
2119
2474
1.072965
AGAGGCTGTTTCCAGGACTTG
59.927
52.381
0.00
0.00
39.22
3.16
2120
2475
1.072331
GAGGCTGTTTCCAGGACTTGA
59.928
52.381
0.00
0.00
39.22
3.02
2121
2476
1.494721
AGGCTGTTTCCAGGACTTGAA
59.505
47.619
0.00
0.00
39.22
2.69
2122
2477
1.609072
GGCTGTTTCCAGGACTTGAAC
59.391
52.381
0.00
0.00
39.22
3.18
2123
2478
1.609072
GCTGTTTCCAGGACTTGAACC
59.391
52.381
0.00
0.00
39.22
3.62
2124
2479
2.230660
CTGTTTCCAGGACTTGAACCC
58.769
52.381
0.00
0.00
34.90
4.11
2125
2480
1.235724
GTTTCCAGGACTTGAACCCG
58.764
55.000
0.00
0.00
0.00
5.28
2126
2481
0.841289
TTTCCAGGACTTGAACCCGT
59.159
50.000
0.00
0.00
0.00
5.28
2127
2482
0.107831
TTCCAGGACTTGAACCCGTG
59.892
55.000
0.00
0.00
0.00
4.94
2128
2483
0.761323
TCCAGGACTTGAACCCGTGA
60.761
55.000
0.00
0.00
0.00
4.35
2129
2484
0.602905
CCAGGACTTGAACCCGTGAC
60.603
60.000
0.00
0.00
0.00
3.67
2130
2485
0.602905
CAGGACTTGAACCCGTGACC
60.603
60.000
0.00
0.00
0.00
4.02
2131
2486
0.763223
AGGACTTGAACCCGTGACCT
60.763
55.000
0.00
0.00
0.00
3.85
2132
2487
0.320508
GGACTTGAACCCGTGACCTC
60.321
60.000
0.00
0.00
0.00
3.85
2133
2488
0.391597
GACTTGAACCCGTGACCTCA
59.608
55.000
0.00
0.00
0.00
3.86
2134
2489
1.002087
GACTTGAACCCGTGACCTCAT
59.998
52.381
0.00
0.00
0.00
2.90
2135
2490
1.270839
ACTTGAACCCGTGACCTCATG
60.271
52.381
0.00
0.00
0.00
3.07
2146
2501
2.154139
ACCTCATGGTCACAAGGCA
58.846
52.632
0.00
0.00
44.78
4.75
2147
2502
0.037303
ACCTCATGGTCACAAGGCAG
59.963
55.000
0.00
0.00
44.78
4.85
2148
2503
1.310933
CCTCATGGTCACAAGGCAGC
61.311
60.000
0.00
0.00
0.00
5.25
2149
2504
0.607217
CTCATGGTCACAAGGCAGCA
60.607
55.000
0.00
0.00
0.00
4.41
2150
2505
0.607217
TCATGGTCACAAGGCAGCAG
60.607
55.000
0.00
0.00
0.00
4.24
2151
2506
1.975407
ATGGTCACAAGGCAGCAGC
60.975
57.895
0.00
0.00
41.10
5.25
2152
2507
2.282040
GGTCACAAGGCAGCAGCT
60.282
61.111
0.00
0.00
41.70
4.24
2153
2508
1.900498
GGTCACAAGGCAGCAGCTT
60.900
57.895
0.00
0.00
41.70
3.74
2154
2509
1.458639
GGTCACAAGGCAGCAGCTTT
61.459
55.000
0.00
0.00
41.17
3.51
2155
2510
1.238439
GTCACAAGGCAGCAGCTTTA
58.762
50.000
0.00
0.00
38.07
1.85
2156
2511
1.068954
GTCACAAGGCAGCAGCTTTAC
60.069
52.381
0.00
0.00
38.07
2.01
2157
2512
0.242017
CACAAGGCAGCAGCTTTACC
59.758
55.000
0.00
0.00
38.07
2.85
2158
2513
0.178992
ACAAGGCAGCAGCTTTACCA
60.179
50.000
0.00
0.00
38.07
3.25
2159
2514
0.242017
CAAGGCAGCAGCTTTACCAC
59.758
55.000
0.00
0.00
38.07
4.16
2160
2515
0.111253
AAGGCAGCAGCTTTACCACT
59.889
50.000
0.00
0.00
38.40
4.00
2161
2516
0.984230
AGGCAGCAGCTTTACCACTA
59.016
50.000
0.00
0.00
41.70
2.74
2162
2517
1.087501
GGCAGCAGCTTTACCACTAC
58.912
55.000
0.00
0.00
41.70
2.73
2163
2518
0.721718
GCAGCAGCTTTACCACTACG
59.278
55.000
0.00
0.00
37.91
3.51
2164
2519
0.721718
CAGCAGCTTTACCACTACGC
59.278
55.000
0.00
0.00
0.00
4.42
2165
2520
0.391263
AGCAGCTTTACCACTACGCC
60.391
55.000
0.00
0.00
0.00
5.68
2166
2521
0.672401
GCAGCTTTACCACTACGCCA
60.672
55.000
0.00
0.00
0.00
5.69
2167
2522
1.803334
CAGCTTTACCACTACGCCAA
58.197
50.000
0.00
0.00
0.00
4.52
2168
2523
1.732259
CAGCTTTACCACTACGCCAAG
59.268
52.381
0.00
0.00
0.00
3.61
2169
2524
1.084289
GCTTTACCACTACGCCAAGG
58.916
55.000
0.00
0.00
0.00
3.61
2170
2525
1.084289
CTTTACCACTACGCCAAGGC
58.916
55.000
0.00
0.00
37.85
4.35
2171
2526
0.688487
TTTACCACTACGCCAAGGCT
59.312
50.000
9.73
0.00
39.32
4.58
2172
2527
0.248289
TTACCACTACGCCAAGGCTC
59.752
55.000
9.73
0.00
39.32
4.70
2173
2528
1.610554
TACCACTACGCCAAGGCTCC
61.611
60.000
9.73
0.00
39.32
4.70
2174
2529
2.125106
CACTACGCCAAGGCTCCC
60.125
66.667
9.73
0.00
39.32
4.30
2175
2530
3.400054
ACTACGCCAAGGCTCCCC
61.400
66.667
9.73
0.00
39.32
4.81
2176
2531
3.083997
CTACGCCAAGGCTCCCCT
61.084
66.667
9.73
0.00
45.77
4.79
2186
2541
1.928868
AGGCTCCCCTTCACATTTTG
58.071
50.000
0.00
0.00
38.74
2.44
2187
2542
0.897621
GGCTCCCCTTCACATTTTGG
59.102
55.000
0.00
0.00
0.00
3.28
2188
2543
0.247460
GCTCCCCTTCACATTTTGGC
59.753
55.000
0.00
0.00
0.00
4.52
2189
2544
0.897621
CTCCCCTTCACATTTTGGCC
59.102
55.000
0.00
0.00
0.00
5.36
2216
3285
4.479619
CAGCAACAACTTAATCCTTCAGC
58.520
43.478
0.00
0.00
0.00
4.26
2217
3286
3.507622
AGCAACAACTTAATCCTTCAGCC
59.492
43.478
0.00
0.00
0.00
4.85
2348
3417
5.295540
GGGAAGATCAGTTCTTACTTGATGC
59.704
44.000
3.82
0.00
44.88
3.91
2418
3491
6.220201
GTGAATCCTAGAATCCTACAGAAGC
58.780
44.000
0.00
0.00
0.00
3.86
2445
3518
3.194116
ACCAGCGAGCAATGAAAAATGAT
59.806
39.130
0.00
0.00
0.00
2.45
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
3
4
3.305110
ACAAACCGAACGAATTTCATGC
58.695
40.909
0.00
0.00
33.24
4.06
34
35
1.754745
GAGAGCCGGCCATCCAATA
59.245
57.895
26.15
0.00
0.00
1.90
35
36
2.512896
GAGAGCCGGCCATCCAAT
59.487
61.111
26.15
0.94
0.00
3.16
59
60
2.339100
TTCGCGGACACGTCAGACAA
62.339
55.000
6.13
0.00
43.45
3.18
64
65
0.876777
ATTTGTTCGCGGACACGTCA
60.877
50.000
22.39
1.72
43.45
4.35
87
88
5.540719
TCCAATGGAAAACCCTAACGAAAAT
59.459
36.000
0.00
0.00
35.38
1.82
91
92
3.073356
ACTCCAATGGAAAACCCTAACGA
59.927
43.478
2.61
0.00
35.38
3.85
92
93
3.418047
ACTCCAATGGAAAACCCTAACG
58.582
45.455
2.61
0.00
35.38
3.18
104
107
2.025887
AGTCTAAGGGCAACTCCAATGG
60.026
50.000
0.00
0.00
36.21
3.16
160
164
0.321653
AATTGTGAGGTGGAGCGGAC
60.322
55.000
0.00
0.00
0.00
4.79
342
346
3.181486
TGTGTGTGTGTGTGTGTGTTTTT
60.181
39.130
0.00
0.00
0.00
1.94
343
347
2.359214
TGTGTGTGTGTGTGTGTGTTTT
59.641
40.909
0.00
0.00
0.00
2.43
344
348
1.950216
TGTGTGTGTGTGTGTGTGTTT
59.050
42.857
0.00
0.00
0.00
2.83
347
351
0.871057
TGTGTGTGTGTGTGTGTGTG
59.129
50.000
0.00
0.00
0.00
3.82
349
353
0.871057
TGTGTGTGTGTGTGTGTGTG
59.129
50.000
0.00
0.00
0.00
3.82
351
355
0.871057
TGTGTGTGTGTGTGTGTGTG
59.129
50.000
0.00
0.00
0.00
3.82
715
719
7.024768
CCGTCGATTTTACCAAAATATTGTGT
58.975
34.615
4.91
0.00
40.97
3.72
716
720
6.470877
CCCGTCGATTTTACCAAAATATTGTG
59.529
38.462
0.00
0.00
40.97
3.33
717
721
6.404954
CCCCGTCGATTTTACCAAAATATTGT
60.405
38.462
0.00
0.00
40.97
2.71
718
722
5.974751
CCCCGTCGATTTTACCAAAATATTG
59.025
40.000
0.00
0.00
40.97
1.90
719
723
5.887035
TCCCCGTCGATTTTACCAAAATATT
59.113
36.000
0.00
0.00
40.97
1.28
720
724
5.297527
GTCCCCGTCGATTTTACCAAAATAT
59.702
40.000
0.00
0.00
40.97
1.28
721
725
4.635324
GTCCCCGTCGATTTTACCAAAATA
59.365
41.667
0.00
0.00
40.97
1.40
722
726
3.441222
GTCCCCGTCGATTTTACCAAAAT
59.559
43.478
0.00
0.00
43.43
1.82
723
727
2.813172
GTCCCCGTCGATTTTACCAAAA
59.187
45.455
0.00
0.00
34.41
2.44
724
728
2.425539
GTCCCCGTCGATTTTACCAAA
58.574
47.619
0.00
0.00
0.00
3.28
725
729
1.338960
GGTCCCCGTCGATTTTACCAA
60.339
52.381
0.00
0.00
0.00
3.67
726
730
0.249955
GGTCCCCGTCGATTTTACCA
59.750
55.000
0.00
0.00
0.00
3.25
727
731
0.807275
CGGTCCCCGTCGATTTTACC
60.807
60.000
0.00
0.00
42.73
2.85
728
732
0.807275
CCGGTCCCCGTCGATTTTAC
60.807
60.000
0.00
0.00
46.80
2.01
730
734
2.266689
CCGGTCCCCGTCGATTTT
59.733
61.111
0.00
0.00
46.80
1.82
762
766
0.373716
CAATGGCGCGAACTAGGAAC
59.626
55.000
12.10
0.00
0.00
3.62
782
787
3.205536
TTTTCGCGCTGGTGCACA
61.206
55.556
20.43
3.92
39.64
4.57
785
790
1.797537
GATGTTTTCGCGCTGGTGC
60.798
57.895
5.56
0.00
0.00
5.01
890
936
2.280865
GATTGCGATCCGGGGGAC
60.281
66.667
0.00
0.00
32.98
4.46
989
1046
1.812571
GTGTTGTGAGATTTGCCGGAT
59.187
47.619
5.05
0.00
0.00
4.18
1001
1059
1.673400
CGGTGGTGAATTGTGTTGTGA
59.327
47.619
0.00
0.00
0.00
3.58
1002
1060
1.863624
GCGGTGGTGAATTGTGTTGTG
60.864
52.381
0.00
0.00
0.00
3.33
1028
1088
3.069318
GAGCGGACGGAGGAGGTT
61.069
66.667
0.00
0.00
0.00
3.50
1401
1467
3.402681
CGGGATCTGCAGTGGGGT
61.403
66.667
14.67
0.00
0.00
4.95
1405
1471
1.813513
AACTTTCGGGATCTGCAGTG
58.186
50.000
14.67
0.10
0.00
3.66
1406
1472
2.154462
CAAACTTTCGGGATCTGCAGT
58.846
47.619
14.67
0.42
0.00
4.40
1418
1488
3.617263
AGTCGCGGTATCATCAAACTTTC
59.383
43.478
6.13
0.00
0.00
2.62
1451
1521
2.424246
AGCGAACTACAGAGGAACTAGC
59.576
50.000
0.00
0.00
41.55
3.42
1455
1525
4.804665
GGAAATAGCGAACTACAGAGGAAC
59.195
45.833
0.00
0.00
0.00
3.62
1490
1561
2.766313
ACTTTGCTGCACGATTCAGTA
58.234
42.857
0.00
0.00
34.21
2.74
1502
1573
4.290155
ACAAACTGCGAATAACTTTGCTG
58.710
39.130
0.00
3.70
41.61
4.41
1537
1610
6.438741
TCAGAGACAAGGTATTTCAGAGACAT
59.561
38.462
0.00
0.00
0.00
3.06
1553
1628
3.873361
CAGCAGAACAAAGTCAGAGACAA
59.127
43.478
0.00
0.00
34.60
3.18
1563
1638
3.973657
ACAGAAATGCAGCAGAACAAAG
58.026
40.909
0.00
0.00
0.00
2.77
1598
1675
7.040201
ACACAATTTTGCATCACAGAAGATAGT
60.040
33.333
0.00
0.00
0.00
2.12
1601
1678
5.924254
CACACAATTTTGCATCACAGAAGAT
59.076
36.000
0.00
0.00
0.00
2.40
1650
1727
3.470868
AGGGGCTCCTGGTAAAAGAATA
58.529
45.455
2.82
0.00
42.98
1.75
1667
1744
0.457035
CAAATGCAATCCGTCAGGGG
59.543
55.000
0.00
0.00
38.33
4.79
1679
1756
1.818060
ACTATTCCGCAAGCAAATGCA
59.182
42.857
8.28
0.00
46.76
3.96
1681
1758
5.030295
CACTAACTATTCCGCAAGCAAATG
58.970
41.667
0.00
0.00
0.00
2.32
1683
1760
3.119990
GCACTAACTATTCCGCAAGCAAA
60.120
43.478
0.00
0.00
0.00
3.68
1692
1769
2.930950
TGGCCATGCACTAACTATTCC
58.069
47.619
0.00
0.00
0.00
3.01
1696
1773
3.947196
CTGATTTGGCCATGCACTAACTA
59.053
43.478
6.09
0.00
0.00
2.24
1698
1775
2.159198
CCTGATTTGGCCATGCACTAAC
60.159
50.000
6.09
0.00
0.00
2.34
1701
1779
0.040058
TCCTGATTTGGCCATGCACT
59.960
50.000
6.09
0.00
0.00
4.40
1705
1783
2.761767
TGATGTTCCTGATTTGGCCATG
59.238
45.455
6.09
0.00
0.00
3.66
1712
1790
2.827921
GGGCAACTGATGTTCCTGATTT
59.172
45.455
0.00
0.00
33.52
2.17
1727
1805
1.173913
AATAGCAGAAACGGGGCAAC
58.826
50.000
0.00
0.00
0.00
4.17
1732
1810
6.662616
CATCAGATAAAATAGCAGAAACGGG
58.337
40.000
0.00
0.00
0.00
5.28
1748
1828
5.192176
TGCCTTGTACAAATGCATCAGATA
58.808
37.500
22.02
4.65
0.00
1.98
1766
1846
7.093640
ACACAGAACAATCATAAATGATGCCTT
60.094
33.333
6.22
0.00
46.22
4.35
1767
1847
6.379133
ACACAGAACAATCATAAATGATGCCT
59.621
34.615
6.22
0.10
46.22
4.75
1772
1852
6.979465
TGCAACACAGAACAATCATAAATGA
58.021
32.000
0.00
0.00
41.70
2.57
1784
1864
3.510719
ACACATTGTTGCAACACAGAAC
58.489
40.909
31.17
3.32
38.92
3.01
1789
1873
8.061268
CCTTAATTAAACACATTGTTGCAACAC
58.939
33.333
31.17
6.69
40.14
3.32
1812
1896
7.027874
TGAAATACAGACTAATCCCAACCTT
57.972
36.000
0.00
0.00
0.00
3.50
1835
1919
9.539139
GCAAATCAATCTAGAAATCGATGTATG
57.461
33.333
0.00
0.07
0.00
2.39
1836
1920
9.499479
AGCAAATCAATCTAGAAATCGATGTAT
57.501
29.630
0.00
0.00
0.00
2.29
1838
1922
7.798596
AGCAAATCAATCTAGAAATCGATGT
57.201
32.000
0.00
0.00
0.00
3.06
1894
1982
7.437862
GCAAAGTGACATTTGATTAACAGGAAA
59.562
33.333
10.31
0.00
41.71
3.13
1898
1986
7.365741
AGAGCAAAGTGACATTTGATTAACAG
58.634
34.615
10.31
0.00
41.71
3.16
1908
1996
5.709164
AGCAGAAATAGAGCAAAGTGACATT
59.291
36.000
0.00
0.00
0.00
2.71
1910
1998
4.453478
CAGCAGAAATAGAGCAAAGTGACA
59.547
41.667
0.00
0.00
0.00
3.58
1913
2001
5.368256
AACAGCAGAAATAGAGCAAAGTG
57.632
39.130
0.00
0.00
0.00
3.16
1914
2002
6.396829
AAAACAGCAGAAATAGAGCAAAGT
57.603
33.333
0.00
0.00
0.00
2.66
1941
2041
7.265673
TCAGATGAAGTATTACTGCAGTAACC
58.734
38.462
35.31
27.88
37.15
2.85
1974
2329
0.179000
TTTGCCACGGCCAAAATGTT
59.821
45.000
2.24
0.00
41.09
2.71
1995
2350
2.068915
CATTGGGGCTGCCCTTTTT
58.931
52.632
34.99
16.16
44.66
1.94
1996
2351
2.595884
GCATTGGGGCTGCCCTTTT
61.596
57.895
34.99
17.92
44.66
2.27
1997
2352
3.004946
GCATTGGGGCTGCCCTTT
61.005
61.111
34.99
18.28
44.66
3.11
1998
2353
3.629035
ATGCATTGGGGCTGCCCTT
62.629
57.895
34.99
18.63
44.66
3.95
1999
2354
4.084147
ATGCATTGGGGCTGCCCT
62.084
61.111
34.99
15.15
44.66
5.19
2000
2355
3.857038
CATGCATTGGGGCTGCCC
61.857
66.667
29.93
29.93
44.51
5.36
2001
2356
1.741327
CTACATGCATTGGGGCTGCC
61.741
60.000
11.05
11.05
38.89
4.85
2002
2357
1.737816
CTACATGCATTGGGGCTGC
59.262
57.895
0.00
0.00
40.10
5.25
2003
2358
0.754217
AGCTACATGCATTGGGGCTG
60.754
55.000
0.00
0.00
45.94
4.85
2004
2359
0.466922
GAGCTACATGCATTGGGGCT
60.467
55.000
11.39
11.39
45.94
5.19
2005
2360
1.458639
GGAGCTACATGCATTGGGGC
61.459
60.000
0.00
0.00
45.94
5.80
2006
2361
0.825010
GGGAGCTACATGCATTGGGG
60.825
60.000
0.00
0.00
45.94
4.96
2007
2362
1.168407
CGGGAGCTACATGCATTGGG
61.168
60.000
0.00
0.00
45.94
4.12
2008
2363
2.324215
CGGGAGCTACATGCATTGG
58.676
57.895
0.00
0.00
45.94
3.16
2027
2382
2.271800
CTTACCTAGACCTTGCGCAAG
58.728
52.381
37.33
37.33
38.14
4.01
2028
2383
1.066430
CCTTACCTAGACCTTGCGCAA
60.066
52.381
23.48
23.48
0.00
4.85
2029
2384
0.535335
CCTTACCTAGACCTTGCGCA
59.465
55.000
5.66
5.66
0.00
6.09
2030
2385
0.179081
CCCTTACCTAGACCTTGCGC
60.179
60.000
0.00
0.00
0.00
6.09
2031
2386
1.136500
GACCCTTACCTAGACCTTGCG
59.864
57.143
0.00
0.00
0.00
4.85
2032
2387
1.485480
GGACCCTTACCTAGACCTTGC
59.515
57.143
0.00
0.00
0.00
4.01
2033
2388
1.755380
CGGACCCTTACCTAGACCTTG
59.245
57.143
0.00
0.00
0.00
3.61
2034
2389
1.642762
TCGGACCCTTACCTAGACCTT
59.357
52.381
0.00
0.00
0.00
3.50
2035
2390
1.064091
GTCGGACCCTTACCTAGACCT
60.064
57.143
0.00
0.00
0.00
3.85
2036
2391
1.397672
GTCGGACCCTTACCTAGACC
58.602
60.000
0.00
0.00
0.00
3.85
2037
2392
1.341383
TGGTCGGACCCTTACCTAGAC
60.341
57.143
23.81
0.00
37.50
2.59
2038
2393
1.002069
TGGTCGGACCCTTACCTAGA
58.998
55.000
23.81
0.00
37.50
2.43
2039
2394
1.109609
GTGGTCGGACCCTTACCTAG
58.890
60.000
23.81
0.00
37.50
3.02
2040
2395
0.706433
AGTGGTCGGACCCTTACCTA
59.294
55.000
23.81
0.61
37.50
3.08
2041
2396
0.178912
AAGTGGTCGGACCCTTACCT
60.179
55.000
23.81
9.20
37.50
3.08
2042
2397
0.689055
AAAGTGGTCGGACCCTTACC
59.311
55.000
23.81
7.17
37.50
2.85
2043
2398
1.609841
CCAAAGTGGTCGGACCCTTAC
60.610
57.143
23.81
15.33
37.50
2.34
2044
2399
0.688487
CCAAAGTGGTCGGACCCTTA
59.312
55.000
23.81
2.97
37.50
2.69
2045
2400
1.454539
CCAAAGTGGTCGGACCCTT
59.545
57.895
23.81
21.08
37.50
3.95
2046
2401
2.526046
CCCAAAGTGGTCGGACCCT
61.526
63.158
23.81
16.82
37.50
4.34
2047
2402
2.033602
CCCAAAGTGGTCGGACCC
59.966
66.667
23.81
14.91
37.50
4.46
2048
2403
1.302271
GACCCAAAGTGGTCGGACC
60.302
63.158
20.36
20.36
44.98
4.46
2049
2404
4.373771
GACCCAAAGTGGTCGGAC
57.626
61.111
0.00
0.00
44.98
4.79
2054
2409
4.263727
TGCATACAATAGACCCAAAGTGGT
60.264
41.667
0.00
0.00
42.79
4.16
2055
2410
4.269183
TGCATACAATAGACCCAAAGTGG
58.731
43.478
0.00
0.00
37.25
4.00
2056
2411
4.201950
GCTGCATACAATAGACCCAAAGTG
60.202
45.833
0.00
0.00
0.00
3.16
2057
2412
3.947834
GCTGCATACAATAGACCCAAAGT
59.052
43.478
0.00
0.00
0.00
2.66
2058
2413
3.316308
GGCTGCATACAATAGACCCAAAG
59.684
47.826
0.50
0.00
0.00
2.77
2059
2414
3.053693
AGGCTGCATACAATAGACCCAAA
60.054
43.478
0.50
0.00
0.00
3.28
2060
2415
2.509548
AGGCTGCATACAATAGACCCAA
59.490
45.455
0.50
0.00
0.00
4.12
2061
2416
2.126882
AGGCTGCATACAATAGACCCA
58.873
47.619
0.50
0.00
0.00
4.51
2062
2417
2.938956
AGGCTGCATACAATAGACCC
57.061
50.000
0.50
0.00
0.00
4.46
2063
2418
3.565902
GGAAAGGCTGCATACAATAGACC
59.434
47.826
0.50
0.00
0.00
3.85
2064
2419
3.565902
GGGAAAGGCTGCATACAATAGAC
59.434
47.826
0.50
0.00
0.00
2.59
2065
2420
3.459598
AGGGAAAGGCTGCATACAATAGA
59.540
43.478
0.50
0.00
0.00
1.98
2066
2421
3.825328
AGGGAAAGGCTGCATACAATAG
58.175
45.455
0.50
0.00
0.00
1.73
2067
2422
3.951563
AGGGAAAGGCTGCATACAATA
57.048
42.857
0.50
0.00
0.00
1.90
2068
2423
2.834638
AGGGAAAGGCTGCATACAAT
57.165
45.000
0.50
0.00
0.00
2.71
2069
2424
2.307392
TGTAGGGAAAGGCTGCATACAA
59.693
45.455
0.50
0.00
39.32
2.41
2070
2425
1.912731
TGTAGGGAAAGGCTGCATACA
59.087
47.619
0.50
0.00
39.88
2.29
2071
2426
2.710096
TGTAGGGAAAGGCTGCATAC
57.290
50.000
0.50
0.00
33.66
2.39
2072
2427
3.951563
AATGTAGGGAAAGGCTGCATA
57.048
42.857
0.50
0.00
0.00
3.14
2073
2428
2.834638
AATGTAGGGAAAGGCTGCAT
57.165
45.000
0.50
0.00
0.00
3.96
2074
2429
2.041620
AGAAATGTAGGGAAAGGCTGCA
59.958
45.455
0.50
0.00
0.00
4.41
2075
2430
2.424956
CAGAAATGTAGGGAAAGGCTGC
59.575
50.000
0.00
0.00
0.00
5.25
2076
2431
2.424956
GCAGAAATGTAGGGAAAGGCTG
59.575
50.000
0.00
0.00
0.00
4.85
2077
2432
2.041620
TGCAGAAATGTAGGGAAAGGCT
59.958
45.455
0.00
0.00
0.00
4.58
2078
2433
2.446435
TGCAGAAATGTAGGGAAAGGC
58.554
47.619
0.00
0.00
0.00
4.35
2079
2434
4.335416
TCTTGCAGAAATGTAGGGAAAGG
58.665
43.478
0.00
0.00
0.00
3.11
2080
2435
4.397417
CCTCTTGCAGAAATGTAGGGAAAG
59.603
45.833
0.00
0.00
0.00
2.62
2081
2436
4.335416
CCTCTTGCAGAAATGTAGGGAAA
58.665
43.478
0.00
0.00
0.00
3.13
2082
2437
3.873801
GCCTCTTGCAGAAATGTAGGGAA
60.874
47.826
0.00
0.00
40.77
3.97
2083
2438
2.356125
GCCTCTTGCAGAAATGTAGGGA
60.356
50.000
0.00
0.00
40.77
4.20
2084
2439
2.019984
GCCTCTTGCAGAAATGTAGGG
58.980
52.381
0.00
0.00
40.77
3.53
2085
2440
2.681848
CAGCCTCTTGCAGAAATGTAGG
59.318
50.000
0.00
0.00
44.83
3.18
2086
2441
3.341823
ACAGCCTCTTGCAGAAATGTAG
58.658
45.455
0.00
0.00
44.83
2.74
2087
2442
3.423539
ACAGCCTCTTGCAGAAATGTA
57.576
42.857
0.00
0.00
44.83
2.29
2088
2443
2.283145
ACAGCCTCTTGCAGAAATGT
57.717
45.000
0.00
0.00
44.83
2.71
2089
2444
3.572584
GAAACAGCCTCTTGCAGAAATG
58.427
45.455
0.00
0.00
44.83
2.32
2090
2445
2.560105
GGAAACAGCCTCTTGCAGAAAT
59.440
45.455
0.00
0.00
44.83
2.17
2091
2446
1.956477
GGAAACAGCCTCTTGCAGAAA
59.044
47.619
0.00
0.00
44.83
2.52
2092
2447
1.133823
TGGAAACAGCCTCTTGCAGAA
60.134
47.619
0.00
0.00
44.83
3.02
2093
2448
0.473755
TGGAAACAGCCTCTTGCAGA
59.526
50.000
0.00
0.00
44.83
4.26
2094
2449
3.025924
TGGAAACAGCCTCTTGCAG
57.974
52.632
0.00
0.00
44.83
4.41
2105
2460
1.476110
CGGGTTCAAGTCCTGGAAACA
60.476
52.381
0.00
0.00
32.36
2.83
2106
2461
1.235724
CGGGTTCAAGTCCTGGAAAC
58.764
55.000
0.00
0.00
0.00
2.78
2107
2462
0.841289
ACGGGTTCAAGTCCTGGAAA
59.159
50.000
0.00
0.00
35.79
3.13
2108
2463
0.107831
CACGGGTTCAAGTCCTGGAA
59.892
55.000
0.00
0.00
35.79
3.53
2109
2464
0.761323
TCACGGGTTCAAGTCCTGGA
60.761
55.000
0.00
0.00
35.79
3.86
2110
2465
0.602905
GTCACGGGTTCAAGTCCTGG
60.603
60.000
0.00
0.00
35.79
4.45
2111
2466
0.602905
GGTCACGGGTTCAAGTCCTG
60.603
60.000
0.00
0.00
37.36
3.86
2112
2467
0.763223
AGGTCACGGGTTCAAGTCCT
60.763
55.000
0.00
0.00
0.00
3.85
2113
2468
0.320508
GAGGTCACGGGTTCAAGTCC
60.321
60.000
0.00
0.00
0.00
3.85
2114
2469
0.391597
TGAGGTCACGGGTTCAAGTC
59.608
55.000
0.00
0.00
0.00
3.01
2115
2470
1.056660
ATGAGGTCACGGGTTCAAGT
58.943
50.000
0.00
0.00
0.00
3.16
2116
2471
1.442769
CATGAGGTCACGGGTTCAAG
58.557
55.000
0.00
0.00
0.00
3.02
2117
2472
0.036164
CCATGAGGTCACGGGTTCAA
59.964
55.000
0.00
0.00
0.00
2.69
2118
2473
1.676968
CCATGAGGTCACGGGTTCA
59.323
57.895
0.00
0.00
0.00
3.18
2119
2474
4.617875
CCATGAGGTCACGGGTTC
57.382
61.111
0.00
0.00
0.00
3.62
2129
2484
1.310933
GCTGCCTTGTGACCATGAGG
61.311
60.000
0.00
0.00
42.21
3.86
2130
2485
0.607217
TGCTGCCTTGTGACCATGAG
60.607
55.000
0.00
0.00
0.00
2.90
2131
2486
0.607217
CTGCTGCCTTGTGACCATGA
60.607
55.000
0.00
0.00
0.00
3.07
2132
2487
1.880894
CTGCTGCCTTGTGACCATG
59.119
57.895
0.00
0.00
0.00
3.66
2133
2488
1.975407
GCTGCTGCCTTGTGACCAT
60.975
57.895
3.85
0.00
0.00
3.55
2134
2489
2.595463
GCTGCTGCCTTGTGACCA
60.595
61.111
3.85
0.00
0.00
4.02
2135
2490
1.458639
AAAGCTGCTGCCTTGTGACC
61.459
55.000
12.44
0.00
40.80
4.02
2136
2491
1.068954
GTAAAGCTGCTGCCTTGTGAC
60.069
52.381
12.44
0.00
40.80
3.67
2137
2492
1.238439
GTAAAGCTGCTGCCTTGTGA
58.762
50.000
12.44
0.00
40.80
3.58
2138
2493
0.242017
GGTAAAGCTGCTGCCTTGTG
59.758
55.000
12.44
0.00
40.80
3.33
2139
2494
0.178992
TGGTAAAGCTGCTGCCTTGT
60.179
50.000
12.44
0.00
40.80
3.16
2140
2495
0.242017
GTGGTAAAGCTGCTGCCTTG
59.758
55.000
12.44
0.00
40.80
3.61
2141
2496
0.111253
AGTGGTAAAGCTGCTGCCTT
59.889
50.000
12.44
8.34
40.80
4.35
2142
2497
0.984230
TAGTGGTAAAGCTGCTGCCT
59.016
50.000
12.44
2.45
40.80
4.75
2143
2498
1.087501
GTAGTGGTAAAGCTGCTGCC
58.912
55.000
12.44
7.07
40.80
4.85
2144
2499
0.721718
CGTAGTGGTAAAGCTGCTGC
59.278
55.000
1.35
7.62
40.05
5.25
2145
2500
0.721718
GCGTAGTGGTAAAGCTGCTG
59.278
55.000
1.35
0.00
0.00
4.41
2146
2501
0.391263
GGCGTAGTGGTAAAGCTGCT
60.391
55.000
0.00
0.00
0.00
4.24
2147
2502
0.672401
TGGCGTAGTGGTAAAGCTGC
60.672
55.000
0.00
0.00
0.00
5.25
2148
2503
1.732259
CTTGGCGTAGTGGTAAAGCTG
59.268
52.381
0.00
0.00
0.00
4.24
2149
2504
1.338769
CCTTGGCGTAGTGGTAAAGCT
60.339
52.381
0.00
0.00
0.00
3.74
2150
2505
1.084289
CCTTGGCGTAGTGGTAAAGC
58.916
55.000
0.00
0.00
0.00
3.51
2151
2506
1.084289
GCCTTGGCGTAGTGGTAAAG
58.916
55.000
0.00
0.00
0.00
1.85
2152
2507
0.688487
AGCCTTGGCGTAGTGGTAAA
59.312
50.000
5.95
0.00
0.00
2.01
2153
2508
0.248289
GAGCCTTGGCGTAGTGGTAA
59.752
55.000
5.95
0.00
0.00
2.85
2154
2509
1.610554
GGAGCCTTGGCGTAGTGGTA
61.611
60.000
5.95
0.00
0.00
3.25
2155
2510
2.663196
GAGCCTTGGCGTAGTGGT
59.337
61.111
5.95
0.00
0.00
4.16
2156
2511
2.125106
GGAGCCTTGGCGTAGTGG
60.125
66.667
5.95
0.00
0.00
4.00
2157
2512
2.125106
GGGAGCCTTGGCGTAGTG
60.125
66.667
5.95
0.00
0.00
2.74
2158
2513
3.400054
GGGGAGCCTTGGCGTAGT
61.400
66.667
5.95
0.00
0.00
2.73
2159
2514
2.595009
GAAGGGGAGCCTTGGCGTAG
62.595
65.000
5.95
0.00
0.00
3.51
2160
2515
2.609610
AAGGGGAGCCTTGGCGTA
60.610
61.111
5.95
0.00
0.00
4.42
2161
2516
4.035102
GAAGGGGAGCCTTGGCGT
62.035
66.667
5.95
0.00
0.00
5.68
2162
2517
4.033776
TGAAGGGGAGCCTTGGCG
62.034
66.667
5.95
0.00
0.00
5.69
2163
2518
2.361737
GTGAAGGGGAGCCTTGGC
60.362
66.667
2.97
2.97
0.00
4.52
2164
2519
0.040204
AATGTGAAGGGGAGCCTTGG
59.960
55.000
0.00
0.00
0.00
3.61
2165
2520
1.928868
AAATGTGAAGGGGAGCCTTG
58.071
50.000
0.00
0.00
0.00
3.61
2166
2521
2.250924
CAAAATGTGAAGGGGAGCCTT
58.749
47.619
0.00
0.00
0.00
4.35
2167
2522
1.550869
CCAAAATGTGAAGGGGAGCCT
60.551
52.381
0.00
0.00
0.00
4.58
2168
2523
0.897621
CCAAAATGTGAAGGGGAGCC
59.102
55.000
0.00
0.00
0.00
4.70
2169
2524
0.247460
GCCAAAATGTGAAGGGGAGC
59.753
55.000
0.00
0.00
0.00
4.70
2170
2525
0.897621
GGCCAAAATGTGAAGGGGAG
59.102
55.000
0.00
0.00
0.00
4.30
2171
2526
0.897863
CGGCCAAAATGTGAAGGGGA
60.898
55.000
2.24
0.00
0.00
4.81
2172
2527
1.184970
ACGGCCAAAATGTGAAGGGG
61.185
55.000
2.24
0.00
0.00
4.79
2173
2528
0.038343
CACGGCCAAAATGTGAAGGG
60.038
55.000
2.24
0.00
35.66
3.95
2174
2529
0.038343
CCACGGCCAAAATGTGAAGG
60.038
55.000
2.24
0.00
35.66
3.46
2175
2530
0.667184
GCCACGGCCAAAATGTGAAG
60.667
55.000
2.24
0.00
35.66
3.02
2176
2531
1.365633
GCCACGGCCAAAATGTGAA
59.634
52.632
2.24
0.00
35.66
3.18
2177
2532
1.804396
CTGCCACGGCCAAAATGTGA
61.804
55.000
2.24
0.00
41.09
3.58
2178
2533
1.373246
CTGCCACGGCCAAAATGTG
60.373
57.895
2.24
1.52
41.09
3.21
2179
2534
3.050339
CTGCCACGGCCAAAATGT
58.950
55.556
2.24
0.00
41.09
2.71
2180
2535
2.432972
GCTGCCACGGCCAAAATG
60.433
61.111
2.24
0.00
41.09
2.32
2181
2536
2.506061
TTGCTGCCACGGCCAAAAT
61.506
52.632
2.24
0.00
41.09
1.82
2182
2537
3.150335
TTGCTGCCACGGCCAAAA
61.150
55.556
2.24
0.00
41.09
2.44
2183
2538
3.910490
GTTGCTGCCACGGCCAAA
61.910
61.111
2.24
0.00
41.09
3.28
2186
2541
4.645921
GTTGTTGCTGCCACGGCC
62.646
66.667
5.42
0.00
41.09
6.13
2187
2542
1.791103
TAAGTTGTTGCTGCCACGGC
61.791
55.000
0.00
0.00
42.35
5.68
2188
2543
0.665835
TTAAGTTGTTGCTGCCACGG
59.334
50.000
0.00
0.00
0.00
4.94
2189
2544
2.584791
GATTAAGTTGTTGCTGCCACG
58.415
47.619
0.00
0.00
0.00
4.94
2278
3347
6.738635
TGTCACTAAACTCCCCTAATCTAGA
58.261
40.000
0.00
0.00
0.00
2.43
2348
3417
7.534085
TTCATTCCTGCTAATACAGTAAACG
57.466
36.000
0.00
0.00
35.83
3.60
2418
3491
1.133253
CATTGCTCGCTGGTGTTCG
59.867
57.895
0.00
0.00
0.00
3.95
2445
3518
8.436778
ACCCAATGCAATGTATCACTACTATTA
58.563
33.333
0.21
0.00
0.00
0.98
2458
3531
3.642848
AGAAACTTGACCCAATGCAATGT
59.357
39.130
0.21
0.00
0.00
2.71
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.