Multiple sequence alignment - TraesCS1B01G439700
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
TraesCS1B01G439700
chr1B
100.000
2892
0
0
800
3691
661508321
661511212
0.000000e+00
5341.0
1
TraesCS1B01G439700
chr1B
100.000
433
0
0
1
433
661507522
661507954
0.000000e+00
800.0
2
TraesCS1B01G439700
chr1B
80.387
362
32
15
79
427
661567350
661567015
4.760000e-59
239.0
3
TraesCS1B01G439700
chr1D
93.039
747
29
14
800
1540
475502366
475503095
0.000000e+00
1070.0
4
TraesCS1B01G439700
chr1D
93.065
620
21
7
2811
3408
475504029
475504648
0.000000e+00
887.0
5
TraesCS1B01G439700
chr1D
91.406
640
35
13
2111
2744
475503403
475504028
0.000000e+00
859.0
6
TraesCS1B01G439700
chr1D
95.735
422
16
2
3
424
475501496
475501915
0.000000e+00
678.0
7
TraesCS1B01G439700
chr1D
94.309
123
6
1
1790
1912
418042983
418043104
1.750000e-43
187.0
8
TraesCS1B01G439700
chr1D
93.600
125
7
1
1792
1916
184463018
184463141
6.290000e-43
185.0
9
TraesCS1B01G439700
chr1D
96.078
102
4
0
1654
1755
475503292
475503393
2.280000e-37
167.0
10
TraesCS1B01G439700
chr1D
89.091
55
5
1
1322
1376
46107121
46107068
2.380000e-07
67.6
11
TraesCS1B01G439700
chr1A
93.141
729
33
11
800
1527
571281106
571281818
0.000000e+00
1053.0
12
TraesCS1B01G439700
chr1A
85.923
888
69
30
1897
2744
571282213
571283084
0.000000e+00
896.0
13
TraesCS1B01G439700
chr1A
96.774
403
9
4
3013
3413
571283544
571283944
0.000000e+00
669.0
14
TraesCS1B01G439700
chr1A
92.706
425
22
6
3
424
571280586
571281004
4.080000e-169
604.0
15
TraesCS1B01G439700
chr1A
88.046
435
35
9
3
424
571349042
571348612
1.980000e-137
499.0
16
TraesCS1B01G439700
chr1A
82.857
280
31
9
3424
3691
571284291
571284565
6.160000e-58
235.0
17
TraesCS1B01G439700
chr1A
86.463
229
9
4
2811
3017
571283085
571283313
7.970000e-57
231.0
18
TraesCS1B01G439700
chr1A
90.625
128
7
4
1536
1658
571281912
571282039
8.200000e-37
165.0
19
TraesCS1B01G439700
chr1A
91.597
119
8
2
1654
1771
571282083
571282200
2.950000e-36
163.0
20
TraesCS1B01G439700
chr5B
97.479
119
3
0
1785
1903
511839674
511839792
1.740000e-48
204.0
21
TraesCS1B01G439700
chr5B
95.000
120
6
0
1791
1910
685441690
685441571
4.870000e-44
189.0
22
TraesCS1B01G439700
chrUn
99.099
111
1
0
1792
1902
27987519
27987409
2.250000e-47
200.0
23
TraesCS1B01G439700
chr2B
97.414
116
3
0
1789
1904
146781184
146781069
8.090000e-47
198.0
24
TraesCS1B01G439700
chr4B
96.581
117
4
0
1785
1901
78817614
78817730
1.050000e-45
195.0
25
TraesCS1B01G439700
chr2D
95.798
119
3
2
1781
1898
272263053
272263170
1.350000e-44
191.0
26
TraesCS1B01G439700
chr3A
95.763
118
4
1
1785
1902
265543331
265543447
4.870000e-44
189.0
27
TraesCS1B01G439700
chr5D
89.431
123
12
1
302
424
289584852
289584973
1.780000e-33
154.0
28
TraesCS1B01G439700
chr3D
88.618
123
14
0
302
424
34544669
34544547
2.300000e-32
150.0
29
TraesCS1B01G439700
chr6D
92.958
71
5
0
1313
1383
445057445
445057375
1.810000e-18
104.0
30
TraesCS1B01G439700
chr6D
88.333
60
6
1
1319
1378
112956263
112956321
1.840000e-08
71.3
31
TraesCS1B01G439700
chr4D
92.453
53
4
0
1326
1378
321815851
321815903
3.950000e-10
76.8
32
TraesCS1B01G439700
chr4D
87.302
63
7
1
1319
1381
442750855
442750794
1.840000e-08
71.3
33
TraesCS1B01G439700
chr7D
90.196
51
5
0
1326
1376
134503747
134503797
2.380000e-07
67.6
BLAST Results - HSPs grouped
These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the
BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are
purely upstream or downstream may be removed if they don't overlap both primers.
query
scaffold
start
end
length
rev.comp
avg.bitscore
max.bitscore
avg.percent.identical
query.start
query.end
num_hsp
groupid
homo_length
0
TraesCS1B01G439700
chr1B
661507522
661511212
3690
False
3070.5
5341
100.00000
1
3691
2
chr1B.!!$F1
3690
1
TraesCS1B01G439700
chr1D
475501496
475504648
3152
False
732.2
1070
93.86460
3
3408
5
chr1D.!!$F3
3405
2
TraesCS1B01G439700
chr1A
571280586
571284565
3979
False
502.0
1053
90.01075
3
3691
8
chr1A.!!$F1
3688
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
980
1059
0.173708
GCCCGACCTGTTGTAGAGAG
59.826
60.0
0.00
0.0
0.0
3.20
F
2367
2592
0.249398
CGATCGAAACCAGGACCCTT
59.751
55.0
10.26
0.0
0.0
3.95
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
2666
2923
0.036875
ACTCTGCAAAGCTACACCCC
59.963
55.000
0.00
0.0
0.00
4.95
R
3413
3940
1.066303
GTAGCGAGCTGACATAGTGCT
59.934
52.381
7.99
0.0
40.02
4.40
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
20
21
0.976641
TCAGATCTTGTGCGGGTTCT
59.023
50.000
0.00
0.00
0.00
3.01
34
35
2.022129
GTTCTGTCCGTGCAGACCG
61.022
63.158
5.78
0.00
44.23
4.79
43
44
1.821241
CGTGCAGACCGTGACAACAG
61.821
60.000
0.00
0.00
0.00
3.16
44
45
0.810031
GTGCAGACCGTGACAACAGT
60.810
55.000
0.00
0.00
0.00
3.55
241
243
0.249868
TCCTTCAGGTTGTCTGCACG
60.250
55.000
0.00
0.00
43.06
5.34
376
378
2.436292
CCGTCGTCGTCCTCCTCT
60.436
66.667
0.71
0.00
35.01
3.69
424
426
1.663074
GAGCATCGCCGAGTCCATC
60.663
63.158
0.00
0.00
0.00
3.51
901
977
4.292178
CGGGCCATCGCTCTCTCC
62.292
72.222
4.39
0.00
30.96
3.71
903
979
4.292178
GGCCATCGCTCTCTCCCG
62.292
72.222
0.00
0.00
34.44
5.14
904
980
4.292178
GCCATCGCTCTCTCCCGG
62.292
72.222
0.00
0.00
0.00
5.73
968
1047
3.122971
GCAACTTACGGCCCGACC
61.123
66.667
11.71
0.00
0.00
4.79
969
1048
2.660802
CAACTTACGGCCCGACCT
59.339
61.111
11.71
0.00
35.61
3.85
970
1049
1.740296
CAACTTACGGCCCGACCTG
60.740
63.158
11.71
0.00
35.61
4.00
973
1052
1.740296
CTTACGGCCCGACCTGTTG
60.740
63.158
11.71
0.00
35.61
3.33
974
1053
2.444700
CTTACGGCCCGACCTGTTGT
62.445
60.000
11.71
0.00
35.61
3.32
980
1059
0.173708
GCCCGACCTGTTGTAGAGAG
59.826
60.000
0.00
0.00
0.00
3.20
982
1061
1.746220
CCCGACCTGTTGTAGAGAGAG
59.254
57.143
0.00
0.00
0.00
3.20
984
1063
2.680841
CCGACCTGTTGTAGAGAGAGAG
59.319
54.545
0.00
0.00
0.00
3.20
986
1065
4.004314
CGACCTGTTGTAGAGAGAGAGAA
58.996
47.826
0.00
0.00
0.00
2.87
987
1066
4.456222
CGACCTGTTGTAGAGAGAGAGAAA
59.544
45.833
0.00
0.00
0.00
2.52
988
1067
5.048643
CGACCTGTTGTAGAGAGAGAGAAAA
60.049
44.000
0.00
0.00
0.00
2.29
1047
1126
2.496817
CCGGAAGAGAGGAAGGCG
59.503
66.667
0.00
0.00
0.00
5.52
1189
1268
3.911698
CGCGGGGGATGATGACGA
61.912
66.667
0.00
0.00
0.00
4.20
1190
1269
2.280186
GCGGGGGATGATGACGAC
60.280
66.667
0.00
0.00
0.00
4.34
1437
1516
2.584064
CACATCAGGTAGCCCGCA
59.416
61.111
0.00
0.00
35.12
5.69
1527
1608
1.876714
GACGAATTGGAGCGCGCTA
60.877
57.895
36.69
20.50
0.00
4.26
1528
1609
2.078958
GACGAATTGGAGCGCGCTAC
62.079
60.000
36.22
36.22
0.00
3.58
1554
1720
2.860136
CGAATCTAGCAAGCAATCGACA
59.140
45.455
0.00
0.00
0.00
4.35
1564
1730
4.034394
GCAAGCAATCGACATGTCAGATTA
59.966
41.667
28.81
12.41
34.04
1.75
1568
1734
4.805719
GCAATCGACATGTCAGATTACTCA
59.194
41.667
28.81
9.21
34.04
3.41
1607
1778
2.128771
ATCCCAAGGATTGTGGTTCG
57.871
50.000
0.00
0.00
46.99
3.95
1615
1786
2.238646
AGGATTGTGGTTCGGCTAATGA
59.761
45.455
0.00
0.00
0.00
2.57
1661
1881
3.801114
AGCTGACAGTGCGATTATACA
57.199
42.857
3.99
0.00
35.28
2.29
1686
1907
4.532834
TGACTTCATAATTTAGCACCCCC
58.467
43.478
0.00
0.00
0.00
5.40
1728
1949
2.168313
TCGAGCTGCATCCTCATAACAA
59.832
45.455
13.10
0.00
0.00
2.83
1756
1977
3.854784
GCAATGCTTCCAGTGTGTTCTTC
60.855
47.826
0.00
0.00
39.15
2.87
1765
1986
1.692519
AGTGTGTTCTTCCGGCTTAGT
59.307
47.619
0.00
0.00
0.00
2.24
1766
1987
2.104281
AGTGTGTTCTTCCGGCTTAGTT
59.896
45.455
0.00
0.00
0.00
2.24
1767
1988
3.322828
AGTGTGTTCTTCCGGCTTAGTTA
59.677
43.478
0.00
0.00
0.00
2.24
1768
1989
3.678548
GTGTGTTCTTCCGGCTTAGTTAG
59.321
47.826
0.00
0.00
0.00
2.34
1793
2014
3.056035
ACTTAGCCCAGTGTAGCAACTAC
60.056
47.826
5.31
0.00
37.46
2.73
1794
2015
1.645710
AGCCCAGTGTAGCAACTACT
58.354
50.000
6.34
0.00
37.78
2.57
1795
2016
1.550976
AGCCCAGTGTAGCAACTACTC
59.449
52.381
6.34
3.00
37.78
2.59
1796
2017
1.405661
GCCCAGTGTAGCAACTACTCC
60.406
57.143
6.34
0.00
37.78
3.85
1797
2018
1.207329
CCCAGTGTAGCAACTACTCCC
59.793
57.143
6.34
0.00
37.78
4.30
1798
2019
2.180276
CCAGTGTAGCAACTACTCCCT
58.820
52.381
6.34
0.00
37.78
4.20
1799
2020
2.166664
CCAGTGTAGCAACTACTCCCTC
59.833
54.545
6.34
0.00
37.78
4.30
1800
2021
2.166664
CAGTGTAGCAACTACTCCCTCC
59.833
54.545
6.34
0.00
37.78
4.30
1801
2022
1.134560
GTGTAGCAACTACTCCCTCCG
59.865
57.143
6.34
0.00
37.78
4.63
1802
2023
1.272313
TGTAGCAACTACTCCCTCCGT
60.272
52.381
6.34
0.00
37.78
4.69
1803
2024
1.823610
GTAGCAACTACTCCCTCCGTT
59.176
52.381
0.00
0.00
34.45
4.44
1804
2025
0.896226
AGCAACTACTCCCTCCGTTC
59.104
55.000
0.00
0.00
0.00
3.95
1805
2026
0.896226
GCAACTACTCCCTCCGTTCT
59.104
55.000
0.00
0.00
0.00
3.01
1806
2027
1.404315
GCAACTACTCCCTCCGTTCTG
60.404
57.143
0.00
0.00
0.00
3.02
1807
2028
2.168496
CAACTACTCCCTCCGTTCTGA
58.832
52.381
0.00
0.00
0.00
3.27
1808
2029
2.561419
CAACTACTCCCTCCGTTCTGAA
59.439
50.000
0.00
0.00
0.00
3.02
1809
2030
3.103080
ACTACTCCCTCCGTTCTGAAT
57.897
47.619
0.00
0.00
0.00
2.57
1810
2031
3.442076
ACTACTCCCTCCGTTCTGAATT
58.558
45.455
0.00
0.00
0.00
2.17
1811
2032
4.607239
ACTACTCCCTCCGTTCTGAATTA
58.393
43.478
0.00
0.00
0.00
1.40
1812
2033
3.889520
ACTCCCTCCGTTCTGAATTAC
57.110
47.619
0.00
0.00
0.00
1.89
1813
2034
3.442076
ACTCCCTCCGTTCTGAATTACT
58.558
45.455
0.00
0.00
0.00
2.24
1814
2035
3.838903
ACTCCCTCCGTTCTGAATTACTT
59.161
43.478
0.00
0.00
0.00
2.24
1815
2036
4.184629
CTCCCTCCGTTCTGAATTACTTG
58.815
47.826
0.00
0.00
0.00
3.16
1816
2037
3.581332
TCCCTCCGTTCTGAATTACTTGT
59.419
43.478
0.00
0.00
0.00
3.16
1817
2038
3.933332
CCCTCCGTTCTGAATTACTTGTC
59.067
47.826
0.00
0.00
0.00
3.18
1818
2039
3.612860
CCTCCGTTCTGAATTACTTGTCG
59.387
47.826
0.00
0.00
0.00
4.35
1819
2040
2.991190
TCCGTTCTGAATTACTTGTCGC
59.009
45.455
0.00
0.00
0.00
5.19
1820
2041
2.734606
CCGTTCTGAATTACTTGTCGCA
59.265
45.455
0.00
0.00
0.00
5.10
1821
2042
3.423123
CCGTTCTGAATTACTTGTCGCAC
60.423
47.826
0.00
0.00
0.00
5.34
1822
2043
3.718036
CGTTCTGAATTACTTGTCGCACG
60.718
47.826
0.00
0.00
0.00
5.34
1823
2044
3.021269
TCTGAATTACTTGTCGCACGT
57.979
42.857
0.00
0.00
0.00
4.49
1824
2045
4.163458
TCTGAATTACTTGTCGCACGTA
57.837
40.909
0.00
0.00
0.00
3.57
1825
2046
4.740268
TCTGAATTACTTGTCGCACGTAT
58.260
39.130
0.00
0.00
0.00
3.06
1826
2047
4.561213
TCTGAATTACTTGTCGCACGTATG
59.439
41.667
0.00
0.00
0.00
2.39
1827
2048
3.615056
TGAATTACTTGTCGCACGTATGG
59.385
43.478
0.00
0.00
0.00
2.74
1828
2049
3.513680
ATTACTTGTCGCACGTATGGA
57.486
42.857
0.00
0.00
0.00
3.41
1829
2050
3.513680
TTACTTGTCGCACGTATGGAT
57.486
42.857
0.00
0.00
0.00
3.41
1830
2051
1.640428
ACTTGTCGCACGTATGGATG
58.360
50.000
0.00
0.00
0.00
3.51
1831
2052
1.067142
ACTTGTCGCACGTATGGATGT
60.067
47.619
0.00
0.00
0.00
3.06
1832
2053
2.164827
ACTTGTCGCACGTATGGATGTA
59.835
45.455
0.00
0.00
0.00
2.29
1833
2054
3.181479
ACTTGTCGCACGTATGGATGTAT
60.181
43.478
0.00
0.00
0.00
2.29
1834
2055
3.007979
TGTCGCACGTATGGATGTATC
57.992
47.619
0.00
0.00
0.00
2.24
1835
2056
2.621526
TGTCGCACGTATGGATGTATCT
59.378
45.455
0.00
0.00
0.00
1.98
1836
2057
3.816523
TGTCGCACGTATGGATGTATCTA
59.183
43.478
0.00
0.00
0.00
1.98
1837
2058
4.083484
TGTCGCACGTATGGATGTATCTAG
60.083
45.833
0.00
0.00
0.00
2.43
1838
2059
4.153655
GTCGCACGTATGGATGTATCTAGA
59.846
45.833
0.00
0.00
0.00
2.43
1839
2060
4.941873
TCGCACGTATGGATGTATCTAGAT
59.058
41.667
10.73
10.73
0.00
1.98
1840
2061
5.030936
CGCACGTATGGATGTATCTAGATG
58.969
45.833
15.79
0.00
0.00
2.90
1841
2062
5.392057
CGCACGTATGGATGTATCTAGATGT
60.392
44.000
15.79
1.25
30.36
3.06
1842
2063
6.183360
CGCACGTATGGATGTATCTAGATGTA
60.183
42.308
15.79
4.44
29.44
2.29
1843
2064
7.467403
CGCACGTATGGATGTATCTAGATGTAT
60.467
40.741
15.79
9.11
29.44
2.29
1844
2065
8.191446
GCACGTATGGATGTATCTAGATGTATT
58.809
37.037
15.79
0.00
29.44
1.89
1870
2091
9.547753
TTTAGTTCTAGATACATCCATTTCAGC
57.452
33.333
0.00
0.00
0.00
4.26
1871
2092
6.219473
AGTTCTAGATACATCCATTTCAGCG
58.781
40.000
0.00
0.00
0.00
5.18
1872
2093
6.040955
AGTTCTAGATACATCCATTTCAGCGA
59.959
38.462
0.00
0.00
0.00
4.93
1873
2094
5.773575
TCTAGATACATCCATTTCAGCGAC
58.226
41.667
0.00
0.00
0.00
5.19
1874
2095
3.384668
AGATACATCCATTTCAGCGACG
58.615
45.455
0.00
0.00
0.00
5.12
1875
2096
2.951457
TACATCCATTTCAGCGACGA
57.049
45.000
0.00
0.00
0.00
4.20
1876
2097
1.645034
ACATCCATTTCAGCGACGAG
58.355
50.000
0.00
0.00
0.00
4.18
1877
2098
1.066858
ACATCCATTTCAGCGACGAGT
60.067
47.619
0.00
0.00
0.00
4.18
1878
2099
2.165641
ACATCCATTTCAGCGACGAGTA
59.834
45.455
0.00
0.00
0.00
2.59
1879
2100
3.186909
CATCCATTTCAGCGACGAGTAA
58.813
45.455
0.00
0.00
0.00
2.24
1880
2101
3.520290
TCCATTTCAGCGACGAGTAAT
57.480
42.857
0.00
0.00
0.00
1.89
1881
2102
3.857052
TCCATTTCAGCGACGAGTAATT
58.143
40.909
0.00
0.00
0.00
1.40
1882
2103
4.250464
TCCATTTCAGCGACGAGTAATTT
58.750
39.130
0.00
0.00
0.00
1.82
1883
2104
4.092821
TCCATTTCAGCGACGAGTAATTTG
59.907
41.667
0.00
0.00
0.00
2.32
1884
2105
4.092821
CCATTTCAGCGACGAGTAATTTGA
59.907
41.667
0.00
0.00
0.00
2.69
1885
2106
5.390461
CCATTTCAGCGACGAGTAATTTGAA
60.390
40.000
0.00
0.00
0.00
2.69
1886
2107
5.660629
TTTCAGCGACGAGTAATTTGAAA
57.339
34.783
0.00
0.31
32.52
2.69
1887
2108
4.640805
TCAGCGACGAGTAATTTGAAAC
57.359
40.909
0.00
0.00
0.00
2.78
1888
2109
3.120616
TCAGCGACGAGTAATTTGAAACG
59.879
43.478
0.00
0.00
0.00
3.60
1889
2110
2.410730
AGCGACGAGTAATTTGAAACGG
59.589
45.455
0.00
0.00
0.00
4.44
1890
2111
2.409378
GCGACGAGTAATTTGAAACGGA
59.591
45.455
0.00
0.00
0.00
4.69
1891
2112
3.481467
GCGACGAGTAATTTGAAACGGAG
60.481
47.826
0.00
0.00
0.00
4.63
1892
2113
3.060363
CGACGAGTAATTTGAAACGGAGG
59.940
47.826
0.00
0.00
0.00
4.30
1893
2114
3.332034
ACGAGTAATTTGAAACGGAGGG
58.668
45.455
0.00
0.00
0.00
4.30
1894
2115
3.007182
ACGAGTAATTTGAAACGGAGGGA
59.993
43.478
0.00
0.00
0.00
4.20
1895
2116
3.617263
CGAGTAATTTGAAACGGAGGGAG
59.383
47.826
0.00
0.00
0.00
4.30
1896
2117
4.576879
GAGTAATTTGAAACGGAGGGAGT
58.423
43.478
0.00
0.00
0.00
3.85
1897
2118
5.622914
CGAGTAATTTGAAACGGAGGGAGTA
60.623
44.000
0.00
0.00
0.00
2.59
1910
2131
4.381411
GGAGGGAGTAGTAATTGACATGC
58.619
47.826
0.00
0.00
0.00
4.06
1916
2137
5.698545
GGAGTAGTAATTGACATGCCAGATC
59.301
44.000
0.00
0.00
0.00
2.75
1920
2141
1.590932
ATTGACATGCCAGATCGCTC
58.409
50.000
0.00
0.00
0.00
5.03
1970
2192
1.538047
TTGTGGCTCTGCAAATCCTC
58.462
50.000
0.00
0.00
0.00
3.71
1972
2194
0.322816
GTGGCTCTGCAAATCCTCCA
60.323
55.000
0.00
0.00
0.00
3.86
1973
2195
0.322816
TGGCTCTGCAAATCCTCCAC
60.323
55.000
0.00
0.00
0.00
4.02
2012
2234
6.470160
CGAATGCACATACTACTGTTCTTTC
58.530
40.000
0.00
0.00
0.00
2.62
2016
2238
5.926542
TGCACATACTACTGTTCTTTCAGAC
59.073
40.000
0.65
0.00
38.63
3.51
2074
2296
8.492673
TGACTTTATAATTTAGCACCTGACTG
57.507
34.615
0.00
0.00
0.00
3.51
2075
2297
8.100791
TGACTTTATAATTTAGCACCTGACTGT
58.899
33.333
0.00
0.00
0.00
3.55
2081
2303
3.386768
TTAGCACCTGACTGTCTGAAC
57.613
47.619
15.25
5.19
0.00
3.18
2089
2313
5.010112
CACCTGACTGTCTGAACTCTAAGAA
59.990
44.000
15.25
0.00
0.00
2.52
2091
2315
5.010112
CCTGACTGTCTGAACTCTAAGAACA
59.990
44.000
15.25
0.00
0.00
3.18
2102
2326
9.261180
CTGAACTCTAAGAACAAAACTACATCA
57.739
33.333
0.00
0.00
0.00
3.07
2123
2347
7.228108
ACATCATCATAACACTAGAAAGCATGG
59.772
37.037
0.00
0.00
0.00
3.66
2135
2359
6.886459
ACTAGAAAGCATGGAATTCTTTGCTA
59.114
34.615
25.51
14.87
44.26
3.49
2140
2364
4.883585
AGCATGGAATTCTTTGCTAATCGA
59.116
37.500
24.63
0.00
43.28
3.59
2162
2386
6.374053
TCGACTGAATCATTATTTGCCAAGAA
59.626
34.615
0.00
0.00
0.00
2.52
2164
2388
7.541783
CGACTGAATCATTATTTGCCAAGAAAA
59.458
33.333
0.00
0.00
0.00
2.29
2165
2389
8.538409
ACTGAATCATTATTTGCCAAGAAAAC
57.462
30.769
0.00
0.00
0.00
2.43
2173
2397
9.904647
CATTATTTGCCAAGAAAACGATTATTG
57.095
29.630
0.00
0.00
0.00
1.90
2186
2410
4.253685
ACGATTATTGTCACTGAACCCTG
58.746
43.478
0.00
0.00
0.00
4.45
2187
2411
4.253685
CGATTATTGTCACTGAACCCTGT
58.746
43.478
0.00
0.00
0.00
4.00
2188
2412
4.330074
CGATTATTGTCACTGAACCCTGTC
59.670
45.833
0.00
0.00
0.00
3.51
2228
2452
2.701163
GATACCTGAAGAGCGGCCCG
62.701
65.000
0.00
0.00
0.00
6.13
2258
2482
2.038659
GAGAAGGACATGGAGAGGAGG
58.961
57.143
0.00
0.00
0.00
4.30
2333
2558
4.016851
CCCTGATAATCAATCCCCATCCAT
60.017
45.833
0.00
0.00
33.22
3.41
2335
2560
5.197224
TGATAATCAATCCCCATCCATCC
57.803
43.478
0.00
0.00
33.22
3.51
2336
2561
4.607141
TGATAATCAATCCCCATCCATCCA
59.393
41.667
0.00
0.00
33.22
3.41
2340
2565
0.557729
AATCCCCATCCATCCACCAC
59.442
55.000
0.00
0.00
0.00
4.16
2341
2566
0.328842
ATCCCCATCCATCCACCACT
60.329
55.000
0.00
0.00
0.00
4.00
2342
2567
0.345146
TCCCCATCCATCCACCACTA
59.655
55.000
0.00
0.00
0.00
2.74
2343
2568
1.060640
TCCCCATCCATCCACCACTAT
60.061
52.381
0.00
0.00
0.00
2.12
2344
2569
1.074405
CCCCATCCATCCACCACTATG
59.926
57.143
0.00
0.00
0.00
2.23
2367
2592
0.249398
CGATCGAAACCAGGACCCTT
59.751
55.000
10.26
0.00
0.00
3.95
2368
2593
1.338769
CGATCGAAACCAGGACCCTTT
60.339
52.381
10.26
0.00
0.00
3.11
2370
2595
0.841289
TCGAAACCAGGACCCTTTGT
59.159
50.000
0.00
0.00
0.00
2.83
2371
2596
1.202722
TCGAAACCAGGACCCTTTGTC
60.203
52.381
0.00
0.00
43.67
3.18
2372
2597
1.202770
CGAAACCAGGACCCTTTGTCT
60.203
52.381
0.00
0.00
43.89
3.41
2373
2598
2.505405
GAAACCAGGACCCTTTGTCTC
58.495
52.381
0.00
0.00
43.89
3.36
2376
2601
1.132689
ACCAGGACCCTTTGTCTCTCT
60.133
52.381
0.00
0.00
43.89
3.10
2388
2613
1.813178
TGTCTCTCTAAGCACGACCAG
59.187
52.381
0.00
0.00
0.00
4.00
2420
2645
4.990526
AGATCCCTTGTTCAAGTGTGATT
58.009
39.130
10.93
1.51
32.48
2.57
2443
2668
4.633126
TGTAATGTCAGAATTCAGCTCTGC
59.367
41.667
8.44
0.00
40.18
4.26
2459
2684
6.654582
TCAGCTCTGCAATACTAATTTCAACA
59.345
34.615
0.00
0.00
0.00
3.33
2554
2781
7.553402
AGACATTTTCTCTGGATTGATCTTCTG
59.447
37.037
0.00
0.00
0.00
3.02
2559
2786
7.678947
TTCTCTGGATTGATCTTCTGAAAAC
57.321
36.000
0.00
0.00
0.00
2.43
2609
2865
5.181009
ACACGATGATCAGATGTTTGATGT
58.819
37.500
0.09
0.00
37.90
3.06
2613
2869
5.558463
CGATGATCAGATGTTTGATGTCAGC
60.558
44.000
0.09
0.00
37.90
4.26
2628
2884
1.135859
GTCAGCTTGTTTCTGCATCCG
60.136
52.381
0.00
0.00
0.00
4.18
2632
2888
1.129437
GCTTGTTTCTGCATCCGAGAC
59.871
52.381
0.00
0.00
0.00
3.36
2640
2897
0.534873
TGCATCCGAGACGAAATGGA
59.465
50.000
0.00
0.00
34.45
3.41
2646
2903
1.267532
CCGAGACGAAATGGATTTGCG
60.268
52.381
0.00
0.00
0.00
4.85
2660
2917
1.159285
TTTGCGAGATTCACCTGCAG
58.841
50.000
6.78
6.78
36.83
4.41
2664
2921
2.012673
GCGAGATTCACCTGCAGAAAT
58.987
47.619
17.39
11.73
0.00
2.17
2665
2922
2.223203
GCGAGATTCACCTGCAGAAATG
60.223
50.000
17.39
10.71
0.00
2.32
2666
2923
2.353889
CGAGATTCACCTGCAGAAATGG
59.646
50.000
17.39
0.19
0.00
3.16
2682
2939
0.323725
ATGGGGGTGTAGCTTTGCAG
60.324
55.000
0.00
0.00
0.00
4.41
2744
3004
1.278127
CCGATTGGGTCACAGTAGGTT
59.722
52.381
0.00
0.00
28.94
3.50
2745
3005
2.618053
CGATTGGGTCACAGTAGGTTC
58.382
52.381
0.00
0.00
0.00
3.62
2746
3006
2.233922
CGATTGGGTCACAGTAGGTTCT
59.766
50.000
0.00
0.00
0.00
3.01
2747
3007
3.446161
CGATTGGGTCACAGTAGGTTCTA
59.554
47.826
0.00
0.00
0.00
2.10
2748
3008
4.677250
CGATTGGGTCACAGTAGGTTCTAC
60.677
50.000
0.00
0.00
0.00
2.59
2749
3009
3.537795
TGGGTCACAGTAGGTTCTACT
57.462
47.619
2.07
2.07
0.00
2.57
2750
3010
3.853207
TGGGTCACAGTAGGTTCTACTT
58.147
45.455
4.99
0.00
0.00
2.24
2751
3011
3.830755
TGGGTCACAGTAGGTTCTACTTC
59.169
47.826
4.99
0.00
0.00
3.01
2752
3012
4.087907
GGGTCACAGTAGGTTCTACTTCT
58.912
47.826
4.99
0.00
0.00
2.85
2753
3013
5.222192
TGGGTCACAGTAGGTTCTACTTCTA
60.222
44.000
4.99
0.00
0.00
2.10
2754
3014
5.125257
GGGTCACAGTAGGTTCTACTTCTAC
59.875
48.000
4.99
4.20
35.03
2.59
2755
3015
5.945191
GGTCACAGTAGGTTCTACTTCTACT
59.055
44.000
4.99
0.00
42.89
2.57
2759
3019
5.900865
AGTAGGTTCTACTTCTACTGTGC
57.099
43.478
2.07
0.00
41.24
4.57
2760
3020
5.322754
AGTAGGTTCTACTTCTACTGTGCA
58.677
41.667
2.07
0.00
41.24
4.57
2761
3021
5.773680
AGTAGGTTCTACTTCTACTGTGCAA
59.226
40.000
2.07
0.00
41.24
4.08
2762
3022
5.546621
AGGTTCTACTTCTACTGTGCAAA
57.453
39.130
0.00
0.00
0.00
3.68
2763
3023
5.542779
AGGTTCTACTTCTACTGTGCAAAG
58.457
41.667
1.09
1.09
0.00
2.77
2764
3024
5.304614
AGGTTCTACTTCTACTGTGCAAAGA
59.695
40.000
11.93
0.00
0.00
2.52
2765
3025
5.405873
GGTTCTACTTCTACTGTGCAAAGAC
59.594
44.000
11.93
0.00
0.00
3.01
2766
3026
5.784578
TCTACTTCTACTGTGCAAAGACA
57.215
39.130
11.93
0.00
0.00
3.41
2767
3027
6.156748
TCTACTTCTACTGTGCAAAGACAA
57.843
37.500
11.93
0.00
0.00
3.18
2768
3028
6.216569
TCTACTTCTACTGTGCAAAGACAAG
58.783
40.000
11.93
11.16
0.00
3.16
2769
3029
3.561725
ACTTCTACTGTGCAAAGACAAGC
59.438
43.478
11.93
0.00
0.00
4.01
2770
3030
3.475566
TCTACTGTGCAAAGACAAGCT
57.524
42.857
11.93
0.00
0.00
3.74
2771
3031
3.808728
TCTACTGTGCAAAGACAAGCTT
58.191
40.909
11.93
0.00
38.88
3.74
2772
3032
3.809832
TCTACTGTGCAAAGACAAGCTTC
59.190
43.478
11.93
0.00
35.24
3.86
2773
3033
2.648059
ACTGTGCAAAGACAAGCTTCT
58.352
42.857
11.93
0.00
35.24
2.85
2774
3034
3.019564
ACTGTGCAAAGACAAGCTTCTT
58.980
40.909
11.93
0.00
37.44
2.52
2775
3035
3.445096
ACTGTGCAAAGACAAGCTTCTTT
59.555
39.130
11.93
7.46
44.98
2.52
2776
3036
4.082026
ACTGTGCAAAGACAAGCTTCTTTT
60.082
37.500
11.93
2.77
42.09
2.27
2777
3037
4.819769
TGTGCAAAGACAAGCTTCTTTTT
58.180
34.783
10.13
0.00
42.09
1.94
2839
3099
6.417339
CAGCTCAGCTTCTTTTTCTTTTCTTC
59.583
38.462
0.00
0.00
36.40
2.87
2840
3100
6.096001
AGCTCAGCTTCTTTTTCTTTTCTTCA
59.904
34.615
0.00
0.00
33.89
3.02
2909
3182
5.604231
TGATGATGAGGAATAGTAGTGGCTT
59.396
40.000
0.00
0.00
0.00
4.35
2924
3197
1.811679
GCTTAGCTGGTCCAGTCGC
60.812
63.158
20.24
13.05
33.43
5.19
2934
3207
2.513204
CCAGTCGCATCAGGCCAG
60.513
66.667
5.01
0.00
40.31
4.85
3277
3803
4.368543
GGTCGACACGTGGGGGAC
62.369
72.222
21.57
21.05
0.00
4.46
3413
3940
1.290955
CAAGAACCTACACGGCCGA
59.709
57.895
35.90
8.90
35.61
5.54
3415
3942
2.502692
AAGAACCTACACGGCCGAGC
62.503
60.000
35.90
10.05
35.61
5.03
3418
4281
3.760035
CCTACACGGCCGAGCACT
61.760
66.667
35.90
11.16
0.00
4.40
3421
4284
0.595053
CTACACGGCCGAGCACTATG
60.595
60.000
35.90
20.43
0.00
2.23
3422
4285
1.317431
TACACGGCCGAGCACTATGT
61.317
55.000
35.90
25.24
0.00
2.29
3425
4288
1.589993
CGGCCGAGCACTATGTCAG
60.590
63.158
24.07
0.00
0.00
3.51
3430
4293
2.587574
GAGCACTATGTCAGCTCGC
58.412
57.895
0.00
0.00
44.37
5.03
3460
4323
3.667497
TTTTTATTGGCACGCAATCCA
57.333
38.095
0.00
0.00
0.00
3.41
3461
4324
2.937469
TTTATTGGCACGCAATCCAG
57.063
45.000
0.00
0.00
33.32
3.86
3464
4327
0.968405
ATTGGCACGCAATCCAGTTT
59.032
45.000
0.00
0.00
33.32
2.66
3497
4360
9.679661
TCTACAATACCACAATTATGTTCATGT
57.320
29.630
0.00
0.00
37.82
3.21
3536
4399
5.471556
AAAATGCAAATGTCCATGTCTCA
57.528
34.783
0.00
0.00
0.00
3.27
3544
4407
6.363357
GCAAATGTCCATGTCTCAAAAAGTAC
59.637
38.462
0.00
0.00
0.00
2.73
3545
4408
6.575162
AATGTCCATGTCTCAAAAAGTACC
57.425
37.500
0.00
0.00
0.00
3.34
3557
4420
8.476925
GTCTCAAAAAGTACCGCTTTATTTTTG
58.523
33.333
15.49
15.49
45.91
2.44
3602
4467
4.238385
CGTGTTGGACGTCGTCAT
57.762
55.556
25.64
0.00
43.50
3.06
3613
4486
1.202604
ACGTCGTCATCCACAAAGGTT
60.203
47.619
0.00
0.00
39.02
3.50
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
0
1
1.556911
AGAACCCGCACAAGATCTGAT
59.443
47.619
0.00
0.00
0.00
2.90
1
2
0.976641
AGAACCCGCACAAGATCTGA
59.023
50.000
0.00
0.00
0.00
3.27
20
21
3.220658
TCACGGTCTGCACGGACA
61.221
61.111
11.53
0.00
37.91
4.02
34
35
5.447818
CCTGAAACTCTGAAACTGTTGTCAC
60.448
44.000
0.00
0.00
0.00
3.67
43
44
3.149981
CCCCTTCCTGAAACTCTGAAAC
58.850
50.000
0.00
0.00
0.00
2.78
44
45
2.108250
CCCCCTTCCTGAAACTCTGAAA
59.892
50.000
0.00
0.00
0.00
2.69
67
69
1.070289
CGGCAGGTAGGTTTCCTATCC
59.930
57.143
2.84
4.92
37.93
2.59
68
70
1.761198
ACGGCAGGTAGGTTTCCTATC
59.239
52.381
0.00
0.00
38.48
2.08
73
75
1.066430
TCATCACGGCAGGTAGGTTTC
60.066
52.381
0.00
0.00
0.00
2.78
77
79
1.226974
CGTCATCACGGCAGGTAGG
60.227
63.158
0.00
0.00
42.73
3.18
78
80
0.248661
CTCGTCATCACGGCAGGTAG
60.249
60.000
0.00
0.00
46.70
3.18
847
923
2.733218
GCCAAAAGCGCGGGAAAC
60.733
61.111
8.83
0.00
0.00
2.78
885
961
3.934962
GGGAGAGAGCGATGGCCC
61.935
72.222
0.00
0.00
41.24
5.80
968
1047
6.987386
TCCTTTTTCTCTCTCTCTACAACAG
58.013
40.000
0.00
0.00
0.00
3.16
969
1048
6.015010
CCTCCTTTTTCTCTCTCTCTACAACA
60.015
42.308
0.00
0.00
0.00
3.33
970
1049
6.209788
TCCTCCTTTTTCTCTCTCTCTACAAC
59.790
42.308
0.00
0.00
0.00
3.32
973
1052
6.184789
TCTCCTCCTTTTTCTCTCTCTCTAC
58.815
44.000
0.00
0.00
0.00
2.59
974
1053
6.395780
TCTCCTCCTTTTTCTCTCTCTCTA
57.604
41.667
0.00
0.00
0.00
2.43
1040
1119
4.856607
CTCGGTCGCTCGCCTTCC
62.857
72.222
0.00
0.00
0.00
3.46
1047
1126
4.239203
ATCGTCGCTCGGTCGCTC
62.239
66.667
0.00
0.00
40.32
5.03
1409
1488
1.219124
CTGATGTGGAGGTCGGTGG
59.781
63.158
0.00
0.00
0.00
4.61
1504
1585
0.796312
GCGCTCCAATTCGTCTTCAA
59.204
50.000
0.00
0.00
0.00
2.69
1511
1592
2.621000
GTAGCGCGCTCCAATTCG
59.379
61.111
40.23
0.00
0.00
3.34
1527
1608
1.424493
GCTTGCTAGATTCGCTGCGT
61.424
55.000
22.48
2.86
0.00
5.24
1528
1609
1.275066
GCTTGCTAGATTCGCTGCG
59.725
57.895
17.25
17.25
0.00
5.18
1531
1612
1.863454
CGATTGCTTGCTAGATTCGCT
59.137
47.619
0.00
0.00
0.00
4.93
1538
1704
2.931969
TGACATGTCGATTGCTTGCTAG
59.068
45.455
20.54
0.00
0.00
3.42
1600
1771
1.599542
GCAGATCATTAGCCGAACCAC
59.400
52.381
0.00
0.00
0.00
4.16
1607
1778
4.396522
AGAGGATTTGCAGATCATTAGCC
58.603
43.478
18.08
1.28
0.00
3.93
1615
1786
4.487714
TTTCGGTAGAGGATTTGCAGAT
57.512
40.909
0.00
0.00
0.00
2.90
1661
1881
5.652452
GGGGTGCTAAATTATGAAGTCAGTT
59.348
40.000
0.00
0.00
0.00
3.16
1686
1907
1.694150
TCTTGGAACTCAGGTGGTCAG
59.306
52.381
0.00
0.00
0.00
3.51
1771
1992
1.978580
AGTTGCTACACTGGGCTAAGT
59.021
47.619
0.13
0.00
0.00
2.24
1772
1993
2.770164
AGTTGCTACACTGGGCTAAG
57.230
50.000
0.13
0.00
0.00
2.18
1793
2014
4.184629
CAAGTAATTCAGAACGGAGGGAG
58.815
47.826
0.00
0.00
0.00
4.30
1794
2015
3.581332
ACAAGTAATTCAGAACGGAGGGA
59.419
43.478
0.00
0.00
0.00
4.20
1795
2016
3.933332
GACAAGTAATTCAGAACGGAGGG
59.067
47.826
0.00
0.00
0.00
4.30
1796
2017
3.612860
CGACAAGTAATTCAGAACGGAGG
59.387
47.826
0.00
0.00
0.00
4.30
1797
2018
3.060895
GCGACAAGTAATTCAGAACGGAG
59.939
47.826
0.00
0.00
0.00
4.63
1798
2019
2.991190
GCGACAAGTAATTCAGAACGGA
59.009
45.455
0.00
0.00
0.00
4.69
1799
2020
2.734606
TGCGACAAGTAATTCAGAACGG
59.265
45.455
0.00
0.00
0.00
4.44
1800
2021
3.718036
CGTGCGACAAGTAATTCAGAACG
60.718
47.826
0.00
0.00
0.00
3.95
1801
2022
3.183775
ACGTGCGACAAGTAATTCAGAAC
59.816
43.478
0.00
0.00
0.00
3.01
1802
2023
3.386486
ACGTGCGACAAGTAATTCAGAA
58.614
40.909
0.00
0.00
0.00
3.02
1803
2024
3.021269
ACGTGCGACAAGTAATTCAGA
57.979
42.857
0.00
0.00
0.00
3.27
1804
2025
4.259810
CCATACGTGCGACAAGTAATTCAG
60.260
45.833
0.00
0.88
32.82
3.02
1805
2026
3.615056
CCATACGTGCGACAAGTAATTCA
59.385
43.478
0.00
0.00
32.82
2.57
1806
2027
3.861113
TCCATACGTGCGACAAGTAATTC
59.139
43.478
0.00
0.00
32.82
2.17
1807
2028
3.852286
TCCATACGTGCGACAAGTAATT
58.148
40.909
0.00
0.00
32.82
1.40
1808
2029
3.513680
TCCATACGTGCGACAAGTAAT
57.486
42.857
0.00
0.00
32.82
1.89
1809
2030
3.183754
CATCCATACGTGCGACAAGTAA
58.816
45.455
0.00
0.00
32.82
2.24
1810
2031
2.164827
ACATCCATACGTGCGACAAGTA
59.835
45.455
0.00
7.72
33.49
2.24
1811
2032
1.067142
ACATCCATACGTGCGACAAGT
60.067
47.619
0.00
0.00
0.00
3.16
1812
2033
1.640428
ACATCCATACGTGCGACAAG
58.360
50.000
0.00
0.00
0.00
3.16
1813
2034
2.943449
TACATCCATACGTGCGACAA
57.057
45.000
0.00
0.00
0.00
3.18
1814
2035
2.621526
AGATACATCCATACGTGCGACA
59.378
45.455
0.00
0.00
0.00
4.35
1815
2036
3.284323
AGATACATCCATACGTGCGAC
57.716
47.619
0.00
0.00
0.00
5.19
1816
2037
4.320870
TCTAGATACATCCATACGTGCGA
58.679
43.478
0.00
0.00
0.00
5.10
1817
2038
4.680171
TCTAGATACATCCATACGTGCG
57.320
45.455
0.00
0.00
0.00
5.34
1818
2039
5.955488
ACATCTAGATACATCCATACGTGC
58.045
41.667
4.54
0.00
0.00
5.34
1844
2065
9.547753
GCTGAAATGGATGTATCTAGAACTAAA
57.452
33.333
0.00
0.00
0.00
1.85
1845
2066
7.867909
CGCTGAAATGGATGTATCTAGAACTAA
59.132
37.037
0.00
0.00
0.00
2.24
1846
2067
7.230712
TCGCTGAAATGGATGTATCTAGAACTA
59.769
37.037
0.00
0.00
0.00
2.24
1847
2068
6.040955
TCGCTGAAATGGATGTATCTAGAACT
59.959
38.462
0.00
0.00
0.00
3.01
1848
2069
6.144724
GTCGCTGAAATGGATGTATCTAGAAC
59.855
42.308
0.00
0.00
0.00
3.01
1849
2070
6.216569
GTCGCTGAAATGGATGTATCTAGAA
58.783
40.000
0.00
0.00
0.00
2.10
1850
2071
5.562890
CGTCGCTGAAATGGATGTATCTAGA
60.563
44.000
0.00
0.00
0.00
2.43
1851
2072
4.618912
CGTCGCTGAAATGGATGTATCTAG
59.381
45.833
0.00
0.00
0.00
2.43
1852
2073
4.277423
TCGTCGCTGAAATGGATGTATCTA
59.723
41.667
0.00
0.00
0.00
1.98
1853
2074
3.068165
TCGTCGCTGAAATGGATGTATCT
59.932
43.478
0.00
0.00
0.00
1.98
1854
2075
3.381045
TCGTCGCTGAAATGGATGTATC
58.619
45.455
0.00
0.00
0.00
2.24
1855
2076
3.181475
ACTCGTCGCTGAAATGGATGTAT
60.181
43.478
0.00
0.00
0.00
2.29
1856
2077
2.165641
ACTCGTCGCTGAAATGGATGTA
59.834
45.455
0.00
0.00
0.00
2.29
1857
2078
1.066858
ACTCGTCGCTGAAATGGATGT
60.067
47.619
0.00
0.00
0.00
3.06
1858
2079
1.645034
ACTCGTCGCTGAAATGGATG
58.355
50.000
0.00
0.00
0.00
3.51
1859
2080
3.520290
TTACTCGTCGCTGAAATGGAT
57.480
42.857
0.00
0.00
0.00
3.41
1860
2081
3.520290
ATTACTCGTCGCTGAAATGGA
57.480
42.857
0.00
0.00
0.00
3.41
1861
2082
4.092821
TCAAATTACTCGTCGCTGAAATGG
59.907
41.667
0.00
0.00
0.00
3.16
1862
2083
5.203358
TCAAATTACTCGTCGCTGAAATG
57.797
39.130
0.00
0.00
0.00
2.32
1863
2084
5.856126
TTCAAATTACTCGTCGCTGAAAT
57.144
34.783
0.00
0.00
0.00
2.17
1864
2085
5.437263
GTTTCAAATTACTCGTCGCTGAAA
58.563
37.500
0.00
0.00
0.00
2.69
1865
2086
4.375606
CGTTTCAAATTACTCGTCGCTGAA
60.376
41.667
0.00
0.00
0.00
3.02
1866
2087
3.120616
CGTTTCAAATTACTCGTCGCTGA
59.879
43.478
0.00
0.00
0.00
4.26
1867
2088
3.395671
CGTTTCAAATTACTCGTCGCTG
58.604
45.455
0.00
0.00
0.00
5.18
1868
2089
2.410730
CCGTTTCAAATTACTCGTCGCT
59.589
45.455
0.00
0.00
0.00
4.93
1869
2090
2.409378
TCCGTTTCAAATTACTCGTCGC
59.591
45.455
0.00
0.00
0.00
5.19
1870
2091
3.060363
CCTCCGTTTCAAATTACTCGTCG
59.940
47.826
0.00
0.00
0.00
5.12
1871
2092
3.370061
CCCTCCGTTTCAAATTACTCGTC
59.630
47.826
0.00
0.00
0.00
4.20
1872
2093
3.007182
TCCCTCCGTTTCAAATTACTCGT
59.993
43.478
0.00
0.00
0.00
4.18
1873
2094
3.592059
TCCCTCCGTTTCAAATTACTCG
58.408
45.455
0.00
0.00
0.00
4.18
1874
2095
4.576879
ACTCCCTCCGTTTCAAATTACTC
58.423
43.478
0.00
0.00
0.00
2.59
1875
2096
4.635699
ACTCCCTCCGTTTCAAATTACT
57.364
40.909
0.00
0.00
0.00
2.24
1876
2097
5.485620
ACTACTCCCTCCGTTTCAAATTAC
58.514
41.667
0.00
0.00
0.00
1.89
1877
2098
5.750352
ACTACTCCCTCCGTTTCAAATTA
57.250
39.130
0.00
0.00
0.00
1.40
1878
2099
4.635699
ACTACTCCCTCCGTTTCAAATT
57.364
40.909
0.00
0.00
0.00
1.82
1879
2100
5.750352
TTACTACTCCCTCCGTTTCAAAT
57.250
39.130
0.00
0.00
0.00
2.32
1880
2101
5.750352
ATTACTACTCCCTCCGTTTCAAA
57.250
39.130
0.00
0.00
0.00
2.69
1881
2102
5.246656
TCAATTACTACTCCCTCCGTTTCAA
59.753
40.000
0.00
0.00
0.00
2.69
1882
2103
4.773674
TCAATTACTACTCCCTCCGTTTCA
59.226
41.667
0.00
0.00
0.00
2.69
1883
2104
5.107824
GTCAATTACTACTCCCTCCGTTTC
58.892
45.833
0.00
0.00
0.00
2.78
1884
2105
4.529377
TGTCAATTACTACTCCCTCCGTTT
59.471
41.667
0.00
0.00
0.00
3.60
1885
2106
4.091549
TGTCAATTACTACTCCCTCCGTT
58.908
43.478
0.00
0.00
0.00
4.44
1886
2107
3.705051
TGTCAATTACTACTCCCTCCGT
58.295
45.455
0.00
0.00
0.00
4.69
1887
2108
4.621991
CATGTCAATTACTACTCCCTCCG
58.378
47.826
0.00
0.00
0.00
4.63
1888
2109
4.381411
GCATGTCAATTACTACTCCCTCC
58.619
47.826
0.00
0.00
0.00
4.30
1889
2110
4.141711
TGGCATGTCAATTACTACTCCCTC
60.142
45.833
0.00
0.00
0.00
4.30
1890
2111
3.780294
TGGCATGTCAATTACTACTCCCT
59.220
43.478
0.00
0.00
0.00
4.20
1891
2112
4.130118
CTGGCATGTCAATTACTACTCCC
58.870
47.826
0.00
0.00
0.00
4.30
1892
2113
5.023533
TCTGGCATGTCAATTACTACTCC
57.976
43.478
0.00
0.00
0.00
3.85
1893
2114
5.403766
CGATCTGGCATGTCAATTACTACTC
59.596
44.000
0.00
0.00
0.00
2.59
1894
2115
5.292765
CGATCTGGCATGTCAATTACTACT
58.707
41.667
0.00
0.00
0.00
2.57
1895
2116
4.084328
GCGATCTGGCATGTCAATTACTAC
60.084
45.833
0.00
0.00
0.00
2.73
1896
2117
4.058124
GCGATCTGGCATGTCAATTACTA
58.942
43.478
0.00
0.00
0.00
1.82
1897
2118
2.874701
GCGATCTGGCATGTCAATTACT
59.125
45.455
0.00
0.00
0.00
2.24
1910
2131
1.081892
CCAACTGTTGAGCGATCTGG
58.918
55.000
21.49
0.00
0.00
3.86
1934
2155
3.256631
CCACAATCCTTGGGAAAGTGAAG
59.743
47.826
17.32
4.57
40.53
3.02
1939
2160
1.821136
GAGCCACAATCCTTGGGAAAG
59.179
52.381
0.00
0.00
35.62
2.62
2016
2238
5.104776
TGGAAAGGGTAGAATGACATCTCTG
60.105
44.000
9.20
0.00
0.00
3.35
2064
2286
1.342819
AGAGTTCAGACAGTCAGGTGC
59.657
52.381
2.66
0.00
0.00
5.01
2067
2289
5.010112
TGTTCTTAGAGTTCAGACAGTCAGG
59.990
44.000
2.66
0.00
0.00
3.86
2074
2296
8.644318
TGTAGTTTTGTTCTTAGAGTTCAGAC
57.356
34.615
0.00
0.00
0.00
3.51
2075
2297
9.477484
GATGTAGTTTTGTTCTTAGAGTTCAGA
57.523
33.333
0.00
0.00
0.00
3.27
2102
2326
8.757982
AATTCCATGCTTTCTAGTGTTATGAT
57.242
30.769
0.00
0.00
0.00
2.45
2107
2331
7.373493
CAAAGAATTCCATGCTTTCTAGTGTT
58.627
34.615
0.65
0.00
30.00
3.32
2108
2332
6.571150
GCAAAGAATTCCATGCTTTCTAGTGT
60.571
38.462
20.21
0.00
35.93
3.55
2123
2347
7.688372
TGATTCAGTCGATTAGCAAAGAATTC
58.312
34.615
0.00
0.00
0.00
2.17
2135
2359
6.698008
TGGCAAATAATGATTCAGTCGATT
57.302
33.333
0.00
0.00
0.00
3.34
2140
2364
7.329226
CGTTTTCTTGGCAAATAATGATTCAGT
59.671
33.333
0.00
0.00
0.00
3.41
2162
2386
5.181245
CAGGGTTCAGTGACAATAATCGTTT
59.819
40.000
0.00
0.00
0.00
3.60
2164
2388
4.253685
CAGGGTTCAGTGACAATAATCGT
58.746
43.478
0.00
0.00
0.00
3.73
2165
2389
4.253685
ACAGGGTTCAGTGACAATAATCG
58.746
43.478
0.00
0.00
0.00
3.34
2173
2397
2.550830
ACATGACAGGGTTCAGTGAC
57.449
50.000
0.00
0.00
0.00
3.67
2186
2410
7.445900
TCTGATTACGTCGATTAAACATGAC
57.554
36.000
0.00
0.00
0.00
3.06
2187
2411
9.177304
GTATCTGATTACGTCGATTAAACATGA
57.823
33.333
0.00
0.00
0.00
3.07
2188
2412
8.425491
GGTATCTGATTACGTCGATTAAACATG
58.575
37.037
0.00
0.00
0.00
3.21
2228
2452
0.840722
TGTCCTTCTCCAGGTTCCCC
60.841
60.000
0.00
0.00
44.37
4.81
2333
2558
1.040646
GATCGAGCCATAGTGGTGGA
58.959
55.000
0.00
0.00
42.02
4.02
2335
2560
0.668535
TCGATCGAGCCATAGTGGTG
59.331
55.000
15.15
0.00
40.46
4.17
2336
2561
1.399714
TTCGATCGAGCCATAGTGGT
58.600
50.000
18.54
0.00
40.46
4.16
2340
2565
2.398498
CTGGTTTCGATCGAGCCATAG
58.602
52.381
30.41
21.25
33.17
2.23
2341
2566
1.068588
CCTGGTTTCGATCGAGCCATA
59.931
52.381
30.41
16.99
33.17
2.74
2342
2567
0.179073
CCTGGTTTCGATCGAGCCAT
60.179
55.000
30.41
0.00
33.17
4.40
2343
2568
1.218047
CCTGGTTTCGATCGAGCCA
59.782
57.895
29.19
29.19
32.82
4.75
2344
2569
0.806492
GTCCTGGTTTCGATCGAGCC
60.806
60.000
24.86
24.86
0.00
4.70
2367
2592
2.229062
CTGGTCGTGCTTAGAGAGACAA
59.771
50.000
4.48
0.00
33.84
3.18
2368
2593
1.813178
CTGGTCGTGCTTAGAGAGACA
59.187
52.381
4.48
0.00
33.84
3.41
2370
2595
0.811915
GCTGGTCGTGCTTAGAGAGA
59.188
55.000
0.00
0.00
0.00
3.10
2371
2596
0.179124
GGCTGGTCGTGCTTAGAGAG
60.179
60.000
0.00
0.00
0.00
3.20
2372
2597
1.605058
GGGCTGGTCGTGCTTAGAGA
61.605
60.000
0.00
0.00
0.00
3.10
2373
2598
1.153549
GGGCTGGTCGTGCTTAGAG
60.154
63.158
0.00
0.00
0.00
2.43
2376
2601
2.297895
ATGGGGCTGGTCGTGCTTA
61.298
57.895
0.00
0.00
0.00
3.09
2388
2613
1.075748
AAGGGATCTTGCATGGGGC
60.076
57.895
0.00
0.00
45.13
5.80
2420
2645
4.633126
GCAGAGCTGAATTCTGACATTACA
59.367
41.667
15.79
0.00
43.75
2.41
2459
2684
5.339008
TCTCGCTTGTGTAGATTAACCAT
57.661
39.130
0.00
0.00
0.00
3.55
2469
2694
4.645136
ACTGAATCCTATCTCGCTTGTGTA
59.355
41.667
0.00
0.00
0.00
2.90
2515
2740
2.770164
AATGTCTGTACAGGTCTGCC
57.230
50.000
22.48
5.11
39.49
4.85
2559
2786
6.973843
TCAACAGAAATCCAGAGAAAATGTG
58.026
36.000
0.00
0.00
0.00
3.21
2609
2865
1.159285
CGGATGCAGAAACAAGCTGA
58.841
50.000
0.00
0.00
35.39
4.26
2613
2869
1.391485
CGTCTCGGATGCAGAAACAAG
59.609
52.381
0.00
0.00
0.00
3.16
2628
2884
2.930040
TCTCGCAAATCCATTTCGTCTC
59.070
45.455
0.00
0.00
0.00
3.36
2632
2888
4.031028
GTGAATCTCGCAAATCCATTTCG
58.969
43.478
0.00
0.00
0.00
3.46
2640
2897
1.741706
CTGCAGGTGAATCTCGCAAAT
59.258
47.619
5.57
0.00
31.10
2.32
2646
2903
2.686915
CCCATTTCTGCAGGTGAATCTC
59.313
50.000
15.13
0.00
0.00
2.75
2660
2917
1.204704
GCAAAGCTACACCCCCATTTC
59.795
52.381
0.00
0.00
0.00
2.17
2664
2921
1.074775
CTGCAAAGCTACACCCCCA
59.925
57.895
0.00
0.00
0.00
4.96
2665
2922
0.678048
CTCTGCAAAGCTACACCCCC
60.678
60.000
0.00
0.00
0.00
5.40
2666
2923
0.036875
ACTCTGCAAAGCTACACCCC
59.963
55.000
0.00
0.00
0.00
4.95
2682
2939
4.392445
TGACACTCGCTTCTACTTCTACTC
59.608
45.833
0.00
0.00
0.00
2.59
2744
3004
5.784578
TGTCTTTGCACAGTAGAAGTAGA
57.215
39.130
0.00
0.00
0.00
2.59
2745
3005
5.107298
GCTTGTCTTTGCACAGTAGAAGTAG
60.107
44.000
0.00
0.00
0.00
2.57
2746
3006
4.750098
GCTTGTCTTTGCACAGTAGAAGTA
59.250
41.667
0.00
0.00
0.00
2.24
2747
3007
3.561725
GCTTGTCTTTGCACAGTAGAAGT
59.438
43.478
0.00
0.00
0.00
3.01
2748
3008
3.812053
AGCTTGTCTTTGCACAGTAGAAG
59.188
43.478
0.00
2.99
0.00
2.85
2749
3009
3.808728
AGCTTGTCTTTGCACAGTAGAA
58.191
40.909
0.00
0.00
0.00
2.10
2750
3010
3.475566
AGCTTGTCTTTGCACAGTAGA
57.524
42.857
0.00
0.00
0.00
2.59
2751
3011
3.812053
AGAAGCTTGTCTTTGCACAGTAG
59.188
43.478
2.10
0.00
34.56
2.57
2752
3012
3.808728
AGAAGCTTGTCTTTGCACAGTA
58.191
40.909
2.10
0.00
34.56
2.74
2753
3013
2.648059
AGAAGCTTGTCTTTGCACAGT
58.352
42.857
2.10
0.00
34.56
3.55
2754
3014
3.705043
AAGAAGCTTGTCTTTGCACAG
57.295
42.857
2.10
0.00
34.03
3.66
2755
3015
4.454728
AAAAGAAGCTTGTCTTTGCACA
57.545
36.364
12.96
0.00
45.09
4.57
2801
3061
2.165167
CTGAGCTGAGCCCATCAAAAA
58.835
47.619
0.00
0.00
37.52
1.94
2802
3062
1.830279
CTGAGCTGAGCCCATCAAAA
58.170
50.000
0.00
0.00
37.52
2.44
2803
3063
0.679002
GCTGAGCTGAGCCCATCAAA
60.679
55.000
14.99
0.00
37.52
2.69
2804
3064
1.077930
GCTGAGCTGAGCCCATCAA
60.078
57.895
14.99
0.00
37.52
2.57
2805
3065
1.559965
AAGCTGAGCTGAGCCCATCA
61.560
55.000
22.26
0.00
39.62
3.07
2806
3066
0.814812
GAAGCTGAGCTGAGCCCATC
60.815
60.000
22.26
13.81
39.62
3.51
2807
3067
1.224039
GAAGCTGAGCTGAGCCCAT
59.776
57.895
22.26
8.54
39.62
4.00
2808
3068
1.486997
AAGAAGCTGAGCTGAGCCCA
61.487
55.000
22.26
0.00
39.62
5.36
2809
3069
0.322366
AAAGAAGCTGAGCTGAGCCC
60.322
55.000
22.26
13.88
39.62
5.19
2909
3182
0.970427
TGATGCGACTGGACCAGCTA
60.970
55.000
21.95
5.76
34.37
3.32
2961
3239
1.065701
CTTATCCTCTGACACGACGGG
59.934
57.143
0.00
0.00
0.00
5.28
3376
3902
2.124942
GTGCAGCTAGCCTGGGAC
60.125
66.667
12.13
9.27
44.83
4.46
3413
3940
1.066303
GTAGCGAGCTGACATAGTGCT
59.934
52.381
7.99
0.00
40.02
4.40
3415
3942
1.747956
CGTAGCGAGCTGACATAGTG
58.252
55.000
7.99
0.00
0.00
2.74
3444
4307
1.832883
AACTGGATTGCGTGCCAATA
58.167
45.000
0.00
0.00
44.02
1.90
3471
4334
9.679661
ACATGAACATAATTGTGGTATTGTAGA
57.320
29.630
7.15
0.00
35.83
2.59
3474
4337
8.584157
ACAACATGAACATAATTGTGGTATTGT
58.416
29.630
7.15
4.69
35.83
2.71
3476
4339
9.023962
AGACAACATGAACATAATTGTGGTATT
57.976
29.630
16.10
0.00
35.83
1.89
3477
4340
8.579850
AGACAACATGAACATAATTGTGGTAT
57.420
30.769
16.10
0.30
35.83
2.73
3488
4351
4.126437
TGTGAACGAGACAACATGAACAT
58.874
39.130
0.00
0.00
0.00
2.71
3515
4378
5.471556
TTGAGACATGGACATTTGCATTT
57.528
34.783
0.00
0.00
29.79
2.32
3516
4379
5.471556
TTTGAGACATGGACATTTGCATT
57.528
34.783
0.00
0.00
29.79
3.56
3517
4380
5.471556
TTTTGAGACATGGACATTTGCAT
57.528
34.783
0.00
0.00
33.19
3.96
3518
4381
4.933505
TTTTGAGACATGGACATTTGCA
57.066
36.364
0.00
0.00
0.00
4.08
3527
4390
3.074412
AGCGGTACTTTTTGAGACATGG
58.926
45.455
0.00
0.00
0.00
3.66
3536
4399
9.589111
TTTCTCAAAAATAAAGCGGTACTTTTT
57.411
25.926
7.98
7.98
46.73
1.94
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.