Multiple sequence alignment - TraesCS1A01G341900
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
TraesCS1A01G341900
chr1A
100.000
3688
0
0
1
3688
531284015
531280328
0.000000e+00
6811.0
1
TraesCS1A01G341900
chr1A
100.000
46
0
0
1696
1741
531282275
531282230
6.560000e-13
86.1
2
TraesCS1A01G341900
chr1A
100.000
46
0
0
1741
1786
531282320
531282275
6.560000e-13
86.1
3
TraesCS1A01G341900
chr1D
90.319
971
29
20
1746
2702
432808602
432807683
0.000000e+00
1212.0
4
TraesCS1A01G341900
chr1D
84.456
1113
84
48
416
1492
432809830
432808771
0.000000e+00
1014.0
5
TraesCS1A01G341900
chr1D
82.492
594
49
26
3106
3681
432807288
432806732
1.550000e-128
470.0
6
TraesCS1A01G341900
chr1D
91.477
176
11
3
1542
1717
432808773
432808602
4.760000e-59
239.0
7
TraesCS1A01G341900
chr1D
90.909
132
2
3
24
155
432810225
432810104
6.330000e-38
169.0
8
TraesCS1A01G341900
chr1D
92.157
51
0
1
220
266
432810022
432809972
6.610000e-08
69.4
9
TraesCS1A01G341900
chr1B
88.444
874
55
19
861
1717
584326309
584325465
0.000000e+00
1013.0
10
TraesCS1A01G341900
chr1B
95.455
440
14
2
2081
2514
584325185
584324746
0.000000e+00
697.0
11
TraesCS1A01G341900
chr1B
85.597
486
33
17
2546
3003
584324746
584324270
3.330000e-130
475.0
12
TraesCS1A01G341900
chr1B
92.657
286
14
3
1753
2038
584325458
584325180
4.430000e-109
405.0
13
TraesCS1A01G341900
chr1B
82.881
479
34
21
222
666
584326957
584326493
1.610000e-103
387.0
14
TraesCS1A01G341900
chr1B
87.838
148
11
7
3518
3662
584320594
584320451
2.280000e-37
167.0
15
TraesCS1A01G341900
chr1B
89.062
128
2
6
24
146
584327164
584327044
8.250000e-32
148.0
16
TraesCS1A01G341900
chr1B
82.812
128
7
8
3134
3246
584323772
584323645
2.340000e-17
100.0
17
TraesCS1A01G341900
chr1B
100.000
34
0
0
3078
3111
584323859
584323826
3.070000e-06
63.9
18
TraesCS1A01G341900
chr3B
82.703
185
25
5
1789
1971
498326275
498326096
1.370000e-34
158.0
19
TraesCS1A01G341900
chr3B
86.364
132
16
2
1788
1918
104971043
104971173
3.840000e-30
143.0
20
TraesCS1A01G341900
chr3D
87.597
129
16
0
1789
1917
382630515
382630387
2.290000e-32
150.0
21
TraesCS1A01G341900
chr3A
86.364
132
16
2
1788
1918
73513082
73513212
3.840000e-30
143.0
BLAST Results - HSPs grouped
These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the
BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are
purely upstream or downstream may be removed if they don't overlap both primers.
query
scaffold
start
end
length
rev.comp
avg.bitscore
max.bitscore
avg.percent.identical
query.start
query.end
num_hsp
groupid
homo_length
0
TraesCS1A01G341900
chr1A
531280328
531284015
3687
True
2327.733333
6811
100.000000
1
3688
3
chr1A.!!$R1
3687
1
TraesCS1A01G341900
chr1D
432806732
432810225
3493
True
528.900000
1212
88.635000
24
3681
6
chr1D.!!$R1
3657
2
TraesCS1A01G341900
chr1B
584320451
584327164
6713
True
383.988889
1013
89.416222
24
3662
9
chr1B.!!$R1
3638
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
443
524
0.247736
TTCGCTCCTTCTCTGCTTCC
59.752
55.0
0.0
0.0
0.00
3.46
F
2037
2228
0.165944
GAACCGCATTTCGTCTGGTG
59.834
55.0
0.0
0.0
36.19
4.17
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
2079
2270
0.110823
CGCTCCTACGCAACAACAAC
60.111
55.0
0.0
0.0
0.0
3.32
R
3076
3652
0.036010
CTTCGTCCCAGCTTCCATGT
60.036
55.0
0.0
0.0
0.0
3.21
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
2.183679
CCCTATCCCATCCACTCTAGC
58.816
57.143
0.00
0.00
0.00
3.42
21
22
1.821753
CCTATCCCATCCACTCTAGCG
59.178
57.143
0.00
0.00
0.00
4.26
22
23
1.821753
CTATCCCATCCACTCTAGCGG
59.178
57.143
0.00
0.00
0.00
5.52
211
221
1.804372
GCAGGCGAGGTGAGATACAAG
60.804
57.143
0.00
0.00
0.00
3.16
213
223
1.478510
AGGCGAGGTGAGATACAAGTG
59.521
52.381
0.00
0.00
0.00
3.16
214
224
1.476891
GGCGAGGTGAGATACAAGTGA
59.523
52.381
0.00
0.00
0.00
3.41
270
322
3.283684
TTTTGCTCGTGCCCGTGG
61.284
61.111
7.05
0.00
38.71
4.94
283
335
4.514577
CGTGGGACGCTGGCCTAG
62.515
72.222
3.32
0.34
33.65
3.02
292
344
3.595819
CTGGCCTAGCTTGTTGCC
58.404
61.111
3.32
8.17
44.23
4.52
330
382
3.006430
TCGTAGACAAGCCTTGTTCATCA
59.994
43.478
12.09
0.00
45.52
3.07
331
383
3.123621
CGTAGACAAGCCTTGTTCATCAC
59.876
47.826
12.09
5.01
45.52
3.06
332
384
3.213206
AGACAAGCCTTGTTCATCACA
57.787
42.857
12.09
0.00
45.52
3.58
334
386
3.504906
AGACAAGCCTTGTTCATCACATG
59.495
43.478
12.09
0.00
45.52
3.21
336
388
1.180029
AGCCTTGTTCATCACATGCC
58.820
50.000
0.00
0.00
35.19
4.40
341
422
0.883153
TGTTCATCACATGCCACAGC
59.117
50.000
0.00
0.00
40.48
4.40
385
466
2.657237
CGTGCGTTCCCTTCTCCT
59.343
61.111
0.00
0.00
0.00
3.69
389
470
1.262640
TGCGTTCCCTTCTCCTACCC
61.263
60.000
0.00
0.00
0.00
3.69
390
471
1.262640
GCGTTCCCTTCTCCTACCCA
61.263
60.000
0.00
0.00
0.00
4.51
393
474
0.797579
TTCCCTTCTCCTACCCACCT
59.202
55.000
0.00
0.00
0.00
4.00
394
475
0.797579
TCCCTTCTCCTACCCACCTT
59.202
55.000
0.00
0.00
0.00
3.50
395
476
1.205055
CCCTTCTCCTACCCACCTTC
58.795
60.000
0.00
0.00
0.00
3.46
396
477
1.205055
CCTTCTCCTACCCACCTTCC
58.795
60.000
0.00
0.00
0.00
3.46
397
478
1.205055
CTTCTCCTACCCACCTTCCC
58.795
60.000
0.00
0.00
0.00
3.97
398
479
0.253020
TTCTCCTACCCACCTTCCCC
60.253
60.000
0.00
0.00
0.00
4.81
399
480
2.039951
TCCTACCCACCTTCCCCG
59.960
66.667
0.00
0.00
0.00
5.73
400
481
3.793888
CCTACCCACCTTCCCCGC
61.794
72.222
0.00
0.00
0.00
6.13
401
482
3.793888
CTACCCACCTTCCCCGCC
61.794
72.222
0.00
0.00
0.00
6.13
440
521
1.204467
CTTCTTCGCTCCTTCTCTGCT
59.796
52.381
0.00
0.00
0.00
4.24
441
522
1.261480
TCTTCGCTCCTTCTCTGCTT
58.739
50.000
0.00
0.00
0.00
3.91
443
524
0.247736
TTCGCTCCTTCTCTGCTTCC
59.752
55.000
0.00
0.00
0.00
3.46
444
525
0.613292
TCGCTCCTTCTCTGCTTCCT
60.613
55.000
0.00
0.00
0.00
3.36
445
526
0.459934
CGCTCCTTCTCTGCTTCCTG
60.460
60.000
0.00
0.00
0.00
3.86
446
527
0.612744
GCTCCTTCTCTGCTTCCTGT
59.387
55.000
0.00
0.00
0.00
4.00
447
528
1.003003
GCTCCTTCTCTGCTTCCTGTT
59.997
52.381
0.00
0.00
0.00
3.16
474
560
2.975799
TTCGTTCGTTGGGGCTGC
60.976
61.111
0.00
0.00
0.00
5.25
515
603
2.391389
GCCTGAAAAGCTCGTCCGG
61.391
63.158
0.00
0.00
0.00
5.14
556
644
2.033194
GCTTCACGTAGGTGGCCAC
61.033
63.158
28.57
28.57
44.50
5.01
592
680
1.002366
CGCTTCCTTTCACTGATCCG
58.998
55.000
0.00
0.00
0.00
4.18
602
690
0.463204
CACTGATCCGACTGCCATCT
59.537
55.000
0.00
0.00
0.00
2.90
616
707
2.209809
ATCTCCCACCCACCCACA
59.790
61.111
0.00
0.00
0.00
4.17
666
773
1.968540
GCCGCTGGCTCTTTTCTGT
60.969
57.895
11.61
0.00
46.69
3.41
673
780
0.606673
GGCTCTTTTCTGTTCGGCCT
60.607
55.000
0.00
0.00
35.73
5.19
675
782
1.443802
CTCTTTTCTGTTCGGCCTCC
58.556
55.000
0.00
0.00
0.00
4.30
687
829
4.214327
GCCTCCTCTTCCTCGCCG
62.214
72.222
0.00
0.00
0.00
6.46
709
851
1.393883
GCGCCTCTCTAAAAGGTTTCG
59.606
52.381
0.00
0.00
36.21
3.46
722
864
3.503800
AGGTTTCGCCTCTTTTACCTT
57.496
42.857
0.00
0.00
46.96
3.50
735
877
4.279169
TCTTTTACCTTCCGACGAGAAAGA
59.721
41.667
0.00
0.00
31.61
2.52
758
900
4.767409
AGACAGAAACTTATCTTTTGGGGC
59.233
41.667
0.00
0.00
0.00
5.80
764
908
1.400494
CTTATCTTTTGGGGCGGTTCG
59.600
52.381
0.00
0.00
0.00
3.95
767
911
2.907917
TTTTGGGGCGGTTCGGTG
60.908
61.111
0.00
0.00
0.00
4.94
797
941
3.744660
TGCTTTCTTCCTCAACCTTCTC
58.255
45.455
0.00
0.00
0.00
2.87
815
959
2.171870
TCTCCCCGTTTCAGTTTCAACT
59.828
45.455
0.00
0.00
40.60
3.16
855
999
0.856641
TCTTGTTTACGCACGCTGTC
59.143
50.000
0.00
0.00
0.00
3.51
863
1014
1.661509
CGCACGCTGTCTCAACTCA
60.662
57.895
0.00
0.00
0.00
3.41
887
1038
4.760047
GGTCGACGCCATGGCTGT
62.760
66.667
33.07
29.63
39.32
4.40
896
1047
1.676678
GCCATGGCTGTCGTCTCCTA
61.677
60.000
29.98
0.00
38.26
2.94
918
1069
1.121967
GTTCTTGCAGTTCGTCGTACG
59.878
52.381
9.53
9.53
44.19
3.67
931
1082
5.879948
TCGTCGTACGATTTTGTGTTTTA
57.120
34.783
22.57
0.00
46.73
1.52
934
1085
7.343691
TCGTCGTACGATTTTGTGTTTTATTT
58.656
30.769
22.57
0.00
46.73
1.40
935
1086
7.318439
TCGTCGTACGATTTTGTGTTTTATTTG
59.682
33.333
22.57
0.00
46.73
2.32
936
1087
7.208429
GTCGTACGATTTTGTGTTTTATTTGC
58.792
34.615
22.57
0.00
0.00
3.68
937
1088
6.360148
TCGTACGATTTTGTGTTTTATTTGCC
59.640
34.615
15.28
0.00
0.00
4.52
938
1089
5.568747
ACGATTTTGTGTTTTATTTGCCG
57.431
34.783
0.00
0.00
0.00
5.69
939
1090
5.282510
ACGATTTTGTGTTTTATTTGCCGA
58.717
33.333
0.00
0.00
0.00
5.54
940
1091
5.749109
ACGATTTTGTGTTTTATTTGCCGAA
59.251
32.000
0.00
0.00
0.00
4.30
941
1092
6.422400
ACGATTTTGTGTTTTATTTGCCGAAT
59.578
30.769
0.00
0.00
0.00
3.34
942
1093
6.947680
CGATTTTGTGTTTTATTTGCCGAATC
59.052
34.615
0.00
0.00
0.00
2.52
943
1094
7.148820
CGATTTTGTGTTTTATTTGCCGAATCT
60.149
33.333
0.00
0.00
0.00
2.40
944
1095
7.778470
TTTTGTGTTTTATTTGCCGAATCTT
57.222
28.000
0.00
0.00
0.00
2.40
945
1096
6.761731
TTGTGTTTTATTTGCCGAATCTTG
57.238
33.333
0.00
0.00
0.00
3.02
946
1097
6.078202
TGTGTTTTATTTGCCGAATCTTGA
57.922
33.333
0.00
0.00
0.00
3.02
947
1098
6.148948
TGTGTTTTATTTGCCGAATCTTGAG
58.851
36.000
0.00
0.00
0.00
3.02
948
1099
6.149633
GTGTTTTATTTGCCGAATCTTGAGT
58.850
36.000
0.00
0.00
0.00
3.41
978
1129
1.443872
CGTTCTTCGCGCAGGTAGT
60.444
57.895
8.75
0.00
0.00
2.73
1030
1181
1.377725
ATGCGGTGGCTCAAGAAGG
60.378
57.895
0.00
0.00
40.82
3.46
1107
1258
2.265182
GCCGATCGAGAGGAGGAGG
61.265
68.421
18.66
0.00
0.00
4.30
1341
1504
6.038603
TCCTTTTCTCTCACACAAACATCAAG
59.961
38.462
0.00
0.00
0.00
3.02
1352
1515
6.036300
CACACAAACATCAAGCTGAATTTTGT
59.964
34.615
15.17
15.17
41.80
2.83
1372
1539
3.332761
TGATGAACACACGTTTGAAGC
57.667
42.857
9.03
0.00
34.75
3.86
1385
1557
3.920412
CGTTTGAAGCTAGGCCAATTTTC
59.080
43.478
5.01
4.26
0.00
2.29
1400
1572
4.331717
CCAATTTTCAGGCATTTCATCTGC
59.668
41.667
0.00
0.00
38.93
4.26
1413
1585
6.459710
GCATTTCATCTGCATCATCTCTTGAA
60.460
38.462
0.00
0.00
38.03
2.69
1432
1604
9.370126
CTCTTGAAAGATTAACAGTTGTAAACG
57.630
33.333
0.00
0.00
42.71
3.60
1444
1616
0.730265
TGTAAACGGCGATGGAATGC
59.270
50.000
16.62
0.00
0.00
3.56
1525
1697
0.464036
TTGACTTCACTGTGCGTCCT
59.536
50.000
19.88
0.00
0.00
3.85
1530
1702
1.436195
TTCACTGTGCGTCCTGTTGC
61.436
55.000
2.12
0.00
0.00
4.17
1531
1703
2.179547
CACTGTGCGTCCTGTTGCA
61.180
57.895
0.00
0.00
39.13
4.08
1532
1704
1.227943
ACTGTGCGTCCTGTTGCAT
60.228
52.632
0.00
0.00
43.96
3.96
1533
1705
1.230635
ACTGTGCGTCCTGTTGCATC
61.231
55.000
0.00
0.00
43.96
3.91
1608
1780
0.726827
CTGCTGCCGCTTCGAATTTA
59.273
50.000
0.00
0.00
36.97
1.40
1662
1834
1.004918
ACAAGCCTAGTCGGTGCAC
60.005
57.895
8.80
8.80
34.25
4.57
1677
1849
1.078201
TGCACTCGTCATCATCGCAC
61.078
55.000
0.00
0.00
0.00
5.34
1711
1883
8.784043
ACCTATCAAACACTAAAGAAATGTGTC
58.216
33.333
0.00
0.00
43.11
3.67
1736
1922
7.806014
TCAAAGATTTGAAATTTGTACTACCGC
59.194
33.333
5.55
0.00
43.62
5.68
1737
1923
5.864986
AGATTTGAAATTTGTACTACCGCG
58.135
37.500
0.00
0.00
0.00
6.46
1738
1924
5.640357
AGATTTGAAATTTGTACTACCGCGA
59.360
36.000
8.23
0.00
0.00
5.87
1739
1925
4.650545
TTGAAATTTGTACTACCGCGAC
57.349
40.909
8.23
0.00
0.00
5.19
1740
1926
2.995258
TGAAATTTGTACTACCGCGACC
59.005
45.455
8.23
0.00
0.00
4.79
1741
1927
2.747396
AATTTGTACTACCGCGACCA
57.253
45.000
8.23
0.00
0.00
4.02
1742
1928
2.000429
ATTTGTACTACCGCGACCAC
58.000
50.000
8.23
0.00
0.00
4.16
1743
1929
0.961019
TTTGTACTACCGCGACCACT
59.039
50.000
8.23
0.00
0.00
4.00
1744
1930
1.819928
TTGTACTACCGCGACCACTA
58.180
50.000
8.23
0.00
0.00
2.74
1745
1931
1.819928
TGTACTACCGCGACCACTAA
58.180
50.000
8.23
0.00
0.00
2.24
1746
1932
2.158559
TGTACTACCGCGACCACTAAA
58.841
47.619
8.23
0.00
0.00
1.85
1747
1933
2.162208
TGTACTACCGCGACCACTAAAG
59.838
50.000
8.23
0.00
0.00
1.85
1748
1934
1.538047
ACTACCGCGACCACTAAAGA
58.462
50.000
8.23
0.00
0.00
2.52
1749
1935
1.888512
ACTACCGCGACCACTAAAGAA
59.111
47.619
8.23
0.00
0.00
2.52
1750
1936
2.297033
ACTACCGCGACCACTAAAGAAA
59.703
45.455
8.23
0.00
0.00
2.52
1751
1937
2.467566
ACCGCGACCACTAAAGAAAT
57.532
45.000
8.23
0.00
0.00
2.17
1752
1938
2.073816
ACCGCGACCACTAAAGAAATG
58.926
47.619
8.23
0.00
0.00
2.32
1753
1939
2.073816
CCGCGACCACTAAAGAAATGT
58.926
47.619
8.23
0.00
0.00
2.71
1754
1940
2.159707
CCGCGACCACTAAAGAAATGTG
60.160
50.000
8.23
0.00
0.00
3.21
1755
1941
2.478894
CGCGACCACTAAAGAAATGTGT
59.521
45.455
0.00
0.00
0.00
3.72
1756
1942
3.423123
CGCGACCACTAAAGAAATGTGTC
60.423
47.826
0.00
0.00
0.00
3.67
1757
1943
3.496884
GCGACCACTAAAGAAATGTGTCA
59.503
43.478
0.00
0.00
0.00
3.58
1758
1944
4.024387
GCGACCACTAAAGAAATGTGTCAA
60.024
41.667
0.00
0.00
0.00
3.18
1759
1945
5.504994
GCGACCACTAAAGAAATGTGTCAAA
60.505
40.000
0.00
0.00
0.00
2.69
1760
1946
6.136071
CGACCACTAAAGAAATGTGTCAAAG
58.864
40.000
0.00
0.00
0.00
2.77
1761
1947
6.018262
CGACCACTAAAGAAATGTGTCAAAGA
60.018
38.462
0.00
0.00
0.00
2.52
1762
1948
7.307989
CGACCACTAAAGAAATGTGTCAAAGAT
60.308
37.037
0.00
0.00
0.00
2.40
1763
1949
8.237811
ACCACTAAAGAAATGTGTCAAAGATT
57.762
30.769
0.00
0.00
0.00
2.40
1764
1950
8.695456
ACCACTAAAGAAATGTGTCAAAGATTT
58.305
29.630
0.00
0.00
34.59
2.17
1765
1951
8.971321
CCACTAAAGAAATGTGTCAAAGATTTG
58.029
33.333
0.00
0.00
32.17
2.32
1766
1952
9.734620
CACTAAAGAAATGTGTCAAAGATTTGA
57.265
29.630
3.91
3.91
44.31
2.69
1941
2127
1.846712
GCAGGCCCTCAAGAACCTCT
61.847
60.000
0.00
0.00
0.00
3.69
1942
2128
0.251634
CAGGCCCTCAAGAACCTCTC
59.748
60.000
0.00
0.00
0.00
3.20
1943
2129
0.912006
AGGCCCTCAAGAACCTCTCC
60.912
60.000
0.00
0.00
0.00
3.71
1980
2171
0.526524
CGAGCAGGTCCGTCAGAATC
60.527
60.000
0.00
0.00
0.00
2.52
1986
2177
0.178301
GGTCCGTCAGAATCCCTTCC
59.822
60.000
0.00
0.00
31.27
3.46
1992
2183
4.176752
AGAATCCCTTCCCGCCGC
62.177
66.667
0.00
0.00
31.27
6.53
2012
2203
2.285486
GCGCATCGTGATTCTTCTTCTG
60.285
50.000
0.30
0.00
0.00
3.02
2013
2204
2.283617
CGCATCGTGATTCTTCTTCTGG
59.716
50.000
0.00
0.00
0.00
3.86
2035
2226
1.062587
GATGAACCGCATTTCGTCTGG
59.937
52.381
8.59
0.00
38.16
3.86
2036
2227
0.250124
TGAACCGCATTTCGTCTGGT
60.250
50.000
0.00
0.00
36.19
4.00
2037
2228
0.165944
GAACCGCATTTCGTCTGGTG
59.834
55.000
0.00
0.00
36.19
4.17
2038
2229
0.250124
AACCGCATTTCGTCTGGTGA
60.250
50.000
0.00
0.00
36.19
4.02
2039
2230
0.250124
ACCGCATTTCGTCTGGTGAA
60.250
50.000
0.00
0.00
36.19
3.18
2069
2260
3.988379
AGCTGAAAATTTGACGCTTGA
57.012
38.095
0.00
0.00
0.00
3.02
2071
2262
4.232221
AGCTGAAAATTTGACGCTTGATG
58.768
39.130
0.00
0.00
0.00
3.07
2072
2263
4.022935
AGCTGAAAATTTGACGCTTGATGA
60.023
37.500
0.00
0.00
0.00
2.92
2074
2265
5.346822
GCTGAAAATTTGACGCTTGATGATT
59.653
36.000
0.00
0.00
0.00
2.57
2075
2266
6.669032
GCTGAAAATTTGACGCTTGATGATTG
60.669
38.462
0.00
0.00
0.00
2.67
2076
2267
6.215121
TGAAAATTTGACGCTTGATGATTGT
58.785
32.000
0.00
0.00
0.00
2.71
2077
2268
6.700960
TGAAAATTTGACGCTTGATGATTGTT
59.299
30.769
0.00
0.00
0.00
2.83
2078
2269
7.224362
TGAAAATTTGACGCTTGATGATTGTTT
59.776
29.630
0.00
0.00
0.00
2.83
2079
2270
6.456447
AATTTGACGCTTGATGATTGTTTG
57.544
33.333
0.00
0.00
0.00
2.93
2102
2293
0.249953
TTGTTGCGTAGGAGCGGAAA
60.250
50.000
0.00
0.00
43.21
3.13
2114
2305
2.663852
CGGAAAACGTCGGTGCCT
60.664
61.111
0.00
0.00
37.93
4.75
2119
2310
2.879813
AAAACGTCGGTGCCTGTGGT
62.880
55.000
0.00
0.00
0.00
4.16
2523
2726
4.639171
GCAACAACAACCCCGCCG
62.639
66.667
0.00
0.00
0.00
6.46
2524
2727
4.639171
CAACAACAACCCCGCCGC
62.639
66.667
0.00
0.00
0.00
6.53
2694
2903
0.879400
CCAGCTCTGGTGATGATCGC
60.879
60.000
7.75
0.00
45.53
4.58
2712
2921
2.027024
CCGGCGCGCTACTAATCA
59.973
61.111
32.29
0.00
0.00
2.57
2718
2927
1.067582
GCGCTACTAATCAGGGCGT
59.932
57.895
0.00
0.00
44.35
5.68
2723
2932
2.866762
GCTACTAATCAGGGCGTGAAAG
59.133
50.000
14.47
15.80
39.19
2.62
2724
2933
1.739067
ACTAATCAGGGCGTGAAAGC
58.261
50.000
14.47
0.00
39.19
3.51
2735
2944
2.440501
GCGTGAAAGCCATTAACATCG
58.559
47.619
0.00
0.00
0.00
3.84
2738
2947
3.670203
GTGAAAGCCATTAACATCGTCG
58.330
45.455
0.00
0.00
0.00
5.12
2790
3002
7.975616
TCATTCAGGATTAACAAAATGCTTAGC
59.024
33.333
0.00
0.00
0.00
3.09
2798
3013
8.970691
ATTAACAAAATGCTTAGCAGTAGTTG
57.029
30.769
24.69
20.19
43.65
3.16
2813
3028
1.808411
AGTTGTAGTTGATGGCACGG
58.192
50.000
0.00
0.00
0.00
4.94
2829
3044
0.175531
ACGGCACATCATCATCGTCA
59.824
50.000
0.00
0.00
0.00
4.35
2834
3049
2.222678
GCACATCATCATCGTCATGGTC
59.777
50.000
0.00
0.00
0.00
4.02
2835
3050
3.460103
CACATCATCATCGTCATGGTCA
58.540
45.455
0.00
0.00
0.00
4.02
2838
3053
3.391506
TCATCATCGTCATGGTCATCC
57.608
47.619
0.00
0.00
0.00
3.51
2839
3054
2.064014
CATCATCGTCATGGTCATCCG
58.936
52.381
0.00
0.00
36.30
4.18
2840
3055
1.398692
TCATCGTCATGGTCATCCGA
58.601
50.000
0.00
5.20
36.30
4.55
2841
3056
1.963515
TCATCGTCATGGTCATCCGAT
59.036
47.619
8.39
8.39
38.68
4.18
2843
3058
1.111277
TCGTCATGGTCATCCGATGT
58.889
50.000
8.24
0.00
36.30
3.06
2859
3095
2.286184
CGATGTTAACCGCCATTGTAGC
60.286
50.000
2.48
0.00
0.00
3.58
2921
3161
0.521735
AAAATCCGTTCTGCTTCCGC
59.478
50.000
0.00
0.00
0.00
5.54
2924
3164
2.890847
ATCCGTTCTGCTTCCGCGAG
62.891
60.000
8.23
0.00
39.65
5.03
2930
3170
1.880340
CTGCTTCCGCGAGACCATC
60.880
63.158
8.23
0.00
39.65
3.51
2971
3211
0.890683
CAAAGCTCATGAACCCCACC
59.109
55.000
0.00
0.00
0.00
4.61
2972
3212
0.482446
AAAGCTCATGAACCCCACCA
59.518
50.000
0.00
0.00
0.00
4.17
2973
3213
0.251341
AAGCTCATGAACCCCACCAC
60.251
55.000
0.00
0.00
0.00
4.16
2977
3217
1.000896
CATGAACCCCACCACCCTC
60.001
63.158
0.00
0.00
0.00
4.30
2978
3218
2.602676
ATGAACCCCACCACCCTCG
61.603
63.158
0.00
0.00
0.00
4.63
2979
3219
3.246880
GAACCCCACCACCCTCGT
61.247
66.667
0.00
0.00
0.00
4.18
2980
3220
3.546714
GAACCCCACCACCCTCGTG
62.547
68.421
0.00
0.00
39.91
4.35
2983
3223
4.394712
CCCACCACCCTCGTGCTC
62.395
72.222
0.00
0.00
38.79
4.26
2999
3239
1.516892
CTCTGCTCTGCTCTGTCCC
59.483
63.158
0.00
0.00
0.00
4.46
3019
3259
4.827087
CGCTGCCAGCCTCGATGT
62.827
66.667
11.83
0.00
38.18
3.06
3022
3262
0.948141
GCTGCCAGCCTCGATGTATC
60.948
60.000
5.06
0.00
34.48
2.24
3024
3264
0.829990
TGCCAGCCTCGATGTATCAA
59.170
50.000
0.00
0.00
0.00
2.57
3043
3306
4.368543
GGTGACACCGACGTCCCC
62.369
72.222
9.33
0.00
34.88
4.81
3068
3635
4.354662
CTCTAGAAAACAGAGGGGGTAGT
58.645
47.826
0.00
0.00
36.65
2.73
3069
3636
4.094476
TCTAGAAAACAGAGGGGGTAGTG
58.906
47.826
0.00
0.00
0.00
2.74
3070
3637
1.351350
AGAAAACAGAGGGGGTAGTGC
59.649
52.381
0.00
0.00
0.00
4.40
3071
3638
1.073284
GAAAACAGAGGGGGTAGTGCA
59.927
52.381
0.00
0.00
0.00
4.57
3076
3652
0.413832
AGAGGGGGTAGTGCAGAAGA
59.586
55.000
0.00
0.00
0.00
2.87
3130
3745
4.809070
GCAGTGAAGCCAGAGGTT
57.191
55.556
0.00
0.00
36.10
3.50
3131
3746
3.027419
GCAGTGAAGCCAGAGGTTT
57.973
52.632
0.00
0.00
32.71
3.27
3132
3747
0.877743
GCAGTGAAGCCAGAGGTTTC
59.122
55.000
5.78
5.78
42.10
2.78
3168
3789
0.388520
TACGCACTGCACTGCACTAG
60.389
55.000
16.94
4.68
36.94
2.57
3255
3892
2.353958
CAGATGGCCTGGCTGTGT
59.646
61.111
19.68
3.09
39.23
3.72
3347
6307
4.593864
GACGATCCAGCGCCTCCC
62.594
72.222
2.29
0.00
33.86
4.30
3370
6330
1.036707
CGTCCCCAGAATCTCTCTCC
58.963
60.000
0.00
0.00
29.07
3.71
3374
6334
1.361993
CCAGAATCTCTCTCCGCGG
59.638
63.158
22.12
22.12
29.07
6.46
3376
6336
2.028337
GAATCTCTCTCCGCGGGC
59.972
66.667
27.83
0.00
0.00
6.13
3388
6348
3.799755
GCGGGCGTCAATGTGACC
61.800
66.667
2.91
0.00
44.20
4.02
3389
6349
3.487202
CGGGCGTCAATGTGACCG
61.487
66.667
7.98
7.98
44.20
4.79
3391
6351
2.388232
GGGCGTCAATGTGACCGAC
61.388
63.158
2.91
1.05
44.20
4.79
3393
6353
3.459027
CGTCAATGTGACCGACGG
58.541
61.111
13.61
13.61
46.59
4.79
3394
6354
2.092291
CGTCAATGTGACCGACGGG
61.092
63.158
20.00
0.00
46.59
5.28
3395
6355
1.290955
GTCAATGTGACCGACGGGA
59.709
57.895
20.00
0.55
41.37
5.14
3396
6356
0.320073
GTCAATGTGACCGACGGGAA
60.320
55.000
20.00
2.28
41.37
3.97
3397
6357
0.037697
TCAATGTGACCGACGGGAAG
60.038
55.000
20.00
0.73
36.97
3.46
3398
6358
1.019278
CAATGTGACCGACGGGAAGG
61.019
60.000
20.00
0.00
36.97
3.46
3399
6359
1.189524
AATGTGACCGACGGGAAGGA
61.190
55.000
20.00
0.00
36.97
3.36
3400
6360
1.885163
ATGTGACCGACGGGAAGGAC
61.885
60.000
20.00
7.38
36.97
3.85
3473
6433
3.769965
TACGTGCGTACAATGGCG
58.230
55.556
4.09
0.00
0.00
5.69
3480
6440
2.276430
GTACAATGGCGCGCGTTC
60.276
61.111
32.35
23.28
0.00
3.95
3543
6969
1.535636
GATCACGTCGCTGCAGATCG
61.536
60.000
20.43
19.34
0.00
3.69
3567
7002
3.561213
CTGCGTGCATCTCGGCAG
61.561
66.667
10.67
10.67
45.96
4.85
3568
7003
3.995219
CTGCGTGCATCTCGGCAGA
62.995
63.158
16.57
0.00
45.96
4.26
3569
7004
3.260483
GCGTGCATCTCGGCAGAG
61.260
66.667
7.64
7.64
45.96
3.35
3570
7005
2.182791
CGTGCATCTCGGCAGAGT
59.817
61.111
13.75
0.00
45.96
3.24
3571
7006
2.163390
CGTGCATCTCGGCAGAGTG
61.163
63.158
13.75
11.82
45.96
3.51
3572
7007
1.079543
GTGCATCTCGGCAGAGTGT
60.080
57.895
13.75
1.49
45.96
3.55
3573
7008
1.079612
TGCATCTCGGCAGAGTGTG
60.080
57.895
13.75
13.95
44.65
3.82
3613
7048
0.850856
GGATTACGCGCGAGGTAAAG
59.149
55.000
39.36
4.66
33.92
1.85
3676
7112
3.677963
AGCTTTACCTGCTGCCAAT
57.322
47.368
0.00
0.00
39.56
3.16
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
0
1
2.183679
GCTAGAGTGGATGGGATAGGG
58.816
57.143
0.00
0.00
0.00
3.53
1
2
1.821753
CGCTAGAGTGGATGGGATAGG
59.178
57.143
0.00
0.00
0.00
2.57
12
13
2.512515
GGGCTTGCCGCTAGAGTG
60.513
66.667
5.98
0.00
39.13
3.51
13
14
3.787001
GGGGCTTGCCGCTAGAGT
61.787
66.667
19.46
0.00
39.13
3.24
14
15
4.899239
CGGGGCTTGCCGCTAGAG
62.899
72.222
22.95
6.97
39.13
2.43
169
179
2.022129
AAAACTCTCGTCGCCGCTG
61.022
57.895
0.00
0.00
0.00
5.18
193
203
1.478510
CACTTGTATCTCACCTCGCCT
59.521
52.381
0.00
0.00
0.00
5.52
211
221
1.384222
GGCGGTGGGGAAATCATCAC
61.384
60.000
0.00
0.00
0.00
3.06
213
223
2.186826
CGGCGGTGGGGAAATCATC
61.187
63.158
0.00
0.00
0.00
2.92
214
224
2.124320
CGGCGGTGGGGAAATCAT
60.124
61.111
0.00
0.00
0.00
2.45
280
332
1.154150
GCGCAAGGCAACAAGCTAG
60.154
57.895
0.30
0.00
44.79
3.42
321
373
1.270274
GCTGTGGCATGTGATGAACAA
59.730
47.619
0.00
0.00
43.61
2.83
322
374
0.883153
GCTGTGGCATGTGATGAACA
59.117
50.000
0.00
0.00
44.79
3.18
324
376
0.966875
GGGCTGTGGCATGTGATGAA
60.967
55.000
0.00
0.00
40.87
2.57
325
377
1.378911
GGGCTGTGGCATGTGATGA
60.379
57.895
0.00
0.00
40.87
2.92
326
378
1.679641
TGGGCTGTGGCATGTGATG
60.680
57.895
0.00
0.00
40.87
3.07
330
382
2.282674
CTGTGGGCTGTGGCATGT
60.283
61.111
0.00
0.00
40.87
3.21
331
383
3.066190
CCTGTGGGCTGTGGCATG
61.066
66.667
0.00
0.00
40.87
4.06
371
452
1.262640
TGGGTAGGAGAAGGGAACGC
61.263
60.000
0.00
0.00
0.00
4.84
414
495
2.094234
AGAAGGAGCGAAGAAGAGAAGC
60.094
50.000
0.00
0.00
0.00
3.86
447
528
3.426426
CCCAACGAACGAACAGTGAAAAA
60.426
43.478
0.00
0.00
0.00
1.94
452
533
1.938861
CCCCAACGAACGAACAGTG
59.061
57.895
0.14
0.00
0.00
3.66
455
536
1.890041
CAGCCCCAACGAACGAACA
60.890
57.895
0.14
0.00
0.00
3.18
570
658
2.275318
GATCAGTGAAAGGAAGCGAGG
58.725
52.381
0.00
0.00
0.00
4.63
592
680
2.300967
TGGGTGGGAGATGGCAGTC
61.301
63.158
0.00
0.00
0.00
3.51
602
690
2.002018
GAGTTTGTGGGTGGGTGGGA
62.002
60.000
0.00
0.00
0.00
4.37
666
773
2.052690
CGAGGAAGAGGAGGCCGAA
61.053
63.158
0.00
0.00
0.00
4.30
687
829
1.019805
AACCTTTTAGAGAGGCGCGC
61.020
55.000
25.94
25.94
37.84
6.86
709
851
1.067354
TCGTCGGAAGGTAAAAGAGGC
60.067
52.381
0.00
0.00
0.00
4.70
722
864
2.180432
TCTGTCTCTTTCTCGTCGGA
57.820
50.000
0.00
0.00
0.00
4.55
735
877
4.767409
GCCCCAAAAGATAAGTTTCTGTCT
59.233
41.667
0.00
0.00
0.00
3.41
758
900
1.685302
CAAAAGCATTCACCGAACCG
58.315
50.000
0.00
0.00
0.00
4.44
764
908
3.742882
GGAAGAAAGCAAAAGCATTCACC
59.257
43.478
7.95
6.95
0.00
4.02
767
911
4.874970
TGAGGAAGAAAGCAAAAGCATTC
58.125
39.130
0.00
0.00
0.00
2.67
797
941
2.798145
GCAAGTTGAAACTGAAACGGGG
60.798
50.000
7.16
0.00
39.66
5.73
835
979
1.259507
GACAGCGTGCGTAAACAAGAA
59.740
47.619
0.00
0.00
0.00
2.52
855
999
2.743718
ACCTGCGGGTGAGTTGAG
59.256
61.111
18.90
0.00
45.43
3.02
880
1031
1.781786
ACATAGGAGACGACAGCCAT
58.218
50.000
0.00
0.00
0.00
4.40
887
1038
2.826128
ACTGCAAGAACATAGGAGACGA
59.174
45.455
0.00
0.00
37.43
4.20
889
1040
3.614616
CGAACTGCAAGAACATAGGAGAC
59.385
47.826
0.00
0.00
37.43
3.36
896
1047
1.865865
ACGACGAACTGCAAGAACAT
58.134
45.000
0.00
0.00
37.43
2.71
918
1069
8.017587
AGATTCGGCAAATAAAACACAAAATC
57.982
30.769
0.00
0.00
0.00
2.17
919
1070
7.961325
AGATTCGGCAAATAAAACACAAAAT
57.039
28.000
0.00
0.00
0.00
1.82
928
1079
6.817765
AGAACTCAAGATTCGGCAAATAAA
57.182
33.333
0.00
0.00
0.00
1.40
931
1082
4.761739
TCAAGAACTCAAGATTCGGCAAAT
59.238
37.500
0.00
0.00
0.00
2.32
934
1085
3.067106
GTCAAGAACTCAAGATTCGGCA
58.933
45.455
0.00
0.00
0.00
5.69
935
1086
2.092838
CGTCAAGAACTCAAGATTCGGC
59.907
50.000
0.00
0.00
0.00
5.54
936
1087
2.092838
GCGTCAAGAACTCAAGATTCGG
59.907
50.000
0.00
0.00
0.00
4.30
937
1088
2.222376
CGCGTCAAGAACTCAAGATTCG
60.222
50.000
0.00
0.00
0.00
3.34
938
1089
2.731976
ACGCGTCAAGAACTCAAGATTC
59.268
45.455
5.58
0.00
0.00
2.52
939
1090
2.731976
GACGCGTCAAGAACTCAAGATT
59.268
45.455
33.09
0.00
0.00
2.40
940
1091
2.329379
GACGCGTCAAGAACTCAAGAT
58.671
47.619
33.09
0.00
0.00
2.40
941
1092
1.767289
GACGCGTCAAGAACTCAAGA
58.233
50.000
33.09
0.00
0.00
3.02
942
1093
0.431233
CGACGCGTCAAGAACTCAAG
59.569
55.000
35.71
13.90
0.00
3.02
943
1094
0.248743
ACGACGCGTCAAGAACTCAA
60.249
50.000
35.71
0.00
33.69
3.02
944
1095
0.248743
AACGACGCGTCAAGAACTCA
60.249
50.000
35.71
0.00
39.99
3.41
945
1096
0.430110
GAACGACGCGTCAAGAACTC
59.570
55.000
35.71
18.71
39.99
3.01
946
1097
0.030369
AGAACGACGCGTCAAGAACT
59.970
50.000
35.71
23.08
39.99
3.01
947
1098
0.850856
AAGAACGACGCGTCAAGAAC
59.149
50.000
35.71
21.45
39.99
3.01
948
1099
1.126079
GAAGAACGACGCGTCAAGAA
58.874
50.000
35.71
0.00
39.99
2.52
978
1129
0.514255
CGCGACGACCGATCCTATTA
59.486
55.000
0.00
0.00
41.76
0.98
1236
1393
2.125106
ATCAAGACGGCGGCTTCC
60.125
61.111
27.85
0.85
0.00
3.46
1237
1394
2.174319
GGATCAAGACGGCGGCTTC
61.174
63.158
27.85
15.37
0.00
3.86
1238
1395
2.125106
GGATCAAGACGGCGGCTT
60.125
61.111
24.79
24.79
0.00
4.35
1239
1396
3.376935
CTGGATCAAGACGGCGGCT
62.377
63.158
10.88
10.88
0.00
5.52
1307
1466
6.884295
TGTGTGAGAGAAAAGGAAAAGAGAAA
59.116
34.615
0.00
0.00
0.00
2.52
1352
1515
2.942376
AGCTTCAAACGTGTGTTCATCA
59.058
40.909
5.45
0.00
37.31
3.07
1385
1557
3.570125
AGATGATGCAGATGAAATGCCTG
59.430
43.478
0.00
0.00
43.18
4.85
1397
1569
7.982224
TGTTAATCTTTCAAGAGATGATGCAG
58.018
34.615
0.00
0.00
38.66
4.41
1400
1572
9.770503
CAACTGTTAATCTTTCAAGAGATGATG
57.229
33.333
0.00
0.00
38.66
3.07
1413
1585
4.751098
TCGCCGTTTACAACTGTTAATCTT
59.249
37.500
0.00
0.00
0.00
2.40
1432
1604
2.703416
TCATCTATGCATTCCATCGCC
58.297
47.619
3.54
0.00
35.34
5.54
1434
1606
6.036844
CACCTATTCATCTATGCATTCCATCG
59.963
42.308
3.54
0.00
35.34
3.84
1435
1607
7.108194
TCACCTATTCATCTATGCATTCCATC
58.892
38.462
3.54
0.00
35.34
3.51
1499
1671
2.551459
GCACAGTGAAGTCAAATCTGCT
59.449
45.455
4.15
0.00
0.00
4.24
1530
1702
1.033746
AAGGCAGCAACCATCGGATG
61.034
55.000
11.07
11.07
0.00
3.51
1531
1703
0.749454
GAAGGCAGCAACCATCGGAT
60.749
55.000
0.00
0.00
0.00
4.18
1532
1704
1.377202
GAAGGCAGCAACCATCGGA
60.377
57.895
0.00
0.00
0.00
4.55
1533
1705
1.372087
GAGAAGGCAGCAACCATCGG
61.372
60.000
0.00
0.00
32.62
4.18
1608
1780
7.178274
TGCAGAACTGTGGGAATAAACATAAAT
59.822
33.333
3.77
0.00
0.00
1.40
1622
1794
1.591594
ACGACGTGCAGAACTGTGG
60.592
57.895
0.00
0.00
0.00
4.17
1662
1834
6.347881
GTTTAATAAGTGCGATGATGACGAG
58.652
40.000
0.00
0.00
0.00
4.18
1711
1883
7.201232
CGCGGTAGTACAAATTTCAAATCTTTG
60.201
37.037
0.00
0.00
39.48
2.77
1731
1917
3.255725
CATTTCTTTAGTGGTCGCGGTA
58.744
45.455
6.13
0.00
0.00
4.02
1732
1918
2.073816
CATTTCTTTAGTGGTCGCGGT
58.926
47.619
6.13
0.00
0.00
5.68
1733
1919
2.073816
ACATTTCTTTAGTGGTCGCGG
58.926
47.619
6.13
0.00
0.00
6.46
1734
1920
2.478894
ACACATTTCTTTAGTGGTCGCG
59.521
45.455
0.00
0.00
37.58
5.87
1735
1921
3.496884
TGACACATTTCTTTAGTGGTCGC
59.503
43.478
0.00
0.00
37.58
5.19
1736
1922
5.666969
TTGACACATTTCTTTAGTGGTCG
57.333
39.130
0.00
0.00
37.58
4.79
1737
1923
7.259290
TCTTTGACACATTTCTTTAGTGGTC
57.741
36.000
0.00
0.00
37.58
4.02
1738
1924
7.823745
ATCTTTGACACATTTCTTTAGTGGT
57.176
32.000
0.00
0.00
37.58
4.16
1739
1925
8.971321
CAAATCTTTGACACATTTCTTTAGTGG
58.029
33.333
0.00
0.00
40.55
4.00
1740
1926
9.734620
TCAAATCTTTGACACATTTCTTTAGTG
57.265
29.630
1.28
0.00
41.88
2.74
1753
1939
9.959749
GGTAGTACAAATTTCAAATCTTTGACA
57.040
29.630
4.89
0.00
45.99
3.58
1754
1940
9.113876
CGGTAGTACAAATTTCAAATCTTTGAC
57.886
33.333
4.89
0.00
45.99
3.18
1755
1941
7.806014
GCGGTAGTACAAATTTCAAATCTTTGA
59.194
33.333
2.06
1.28
44.78
2.69
1756
1942
7.201232
CGCGGTAGTACAAATTTCAAATCTTTG
60.201
37.037
0.00
0.00
39.48
2.77
1757
1943
6.799925
CGCGGTAGTACAAATTTCAAATCTTT
59.200
34.615
0.00
0.00
0.00
2.52
1758
1944
6.148150
TCGCGGTAGTACAAATTTCAAATCTT
59.852
34.615
6.13
0.00
0.00
2.40
1759
1945
5.640357
TCGCGGTAGTACAAATTTCAAATCT
59.360
36.000
6.13
0.00
0.00
2.40
1760
1946
5.731263
GTCGCGGTAGTACAAATTTCAAATC
59.269
40.000
6.13
0.00
0.00
2.17
1761
1947
5.391203
GGTCGCGGTAGTACAAATTTCAAAT
60.391
40.000
6.13
0.00
0.00
2.32
1762
1948
4.083908
GGTCGCGGTAGTACAAATTTCAAA
60.084
41.667
6.13
0.00
0.00
2.69
1763
1949
3.432933
GGTCGCGGTAGTACAAATTTCAA
59.567
43.478
6.13
0.00
0.00
2.69
1764
1950
2.995258
GGTCGCGGTAGTACAAATTTCA
59.005
45.455
6.13
0.00
0.00
2.69
1765
1951
2.028404
CGGTCGCGGTAGTACAAATTTC
59.972
50.000
6.13
0.00
0.00
2.17
1766
1952
1.994779
CGGTCGCGGTAGTACAAATTT
59.005
47.619
6.13
0.00
0.00
1.82
1767
1953
1.632422
CGGTCGCGGTAGTACAAATT
58.368
50.000
6.13
0.00
0.00
1.82
1768
1954
0.179129
CCGGTCGCGGTAGTACAAAT
60.179
55.000
6.13
0.00
0.00
2.32
1769
1955
1.212490
CCGGTCGCGGTAGTACAAA
59.788
57.895
6.13
0.00
0.00
2.83
1770
1956
2.876955
CCGGTCGCGGTAGTACAA
59.123
61.111
6.13
0.00
0.00
2.41
1771
1957
3.814268
GCCGGTCGCGGTAGTACA
61.814
66.667
6.13
0.00
0.00
2.90
1772
1958
3.746409
CTGCCGGTCGCGGTAGTAC
62.746
68.421
6.13
0.00
42.08
2.73
1773
1959
3.511595
CTGCCGGTCGCGGTAGTA
61.512
66.667
6.13
0.00
42.08
1.82
1992
2183
2.283617
CCAGAAGAAGAATCACGATGCG
59.716
50.000
0.00
0.00
0.00
4.73
1999
2190
5.248640
GGTTCATCACCAGAAGAAGAATCA
58.751
41.667
0.00
0.00
46.42
2.57
2012
2203
0.802494
ACGAAATGCGGTTCATCACC
59.198
50.000
0.00
0.00
46.49
4.02
2013
2204
1.732259
AGACGAAATGCGGTTCATCAC
59.268
47.619
0.00
0.00
46.49
3.06
2035
2226
9.377383
CAAATTTTCAGCTTCATTTTCATTCAC
57.623
29.630
0.00
0.00
0.00
3.18
2036
2227
9.327628
TCAAATTTTCAGCTTCATTTTCATTCA
57.672
25.926
0.00
0.00
0.00
2.57
2037
2228
9.590088
GTCAAATTTTCAGCTTCATTTTCATTC
57.410
29.630
0.00
0.00
0.00
2.67
2038
2229
8.277713
CGTCAAATTTTCAGCTTCATTTTCATT
58.722
29.630
0.00
0.00
0.00
2.57
2039
2230
7.569957
GCGTCAAATTTTCAGCTTCATTTTCAT
60.570
33.333
0.00
0.00
0.00
2.57
2069
2260
4.180057
ACGCAACAACAACAAACAATCAT
58.820
34.783
0.00
0.00
0.00
2.45
2071
2262
4.206200
CCTACGCAACAACAACAAACAATC
59.794
41.667
0.00
0.00
0.00
2.67
2072
2263
4.109050
CCTACGCAACAACAACAAACAAT
58.891
39.130
0.00
0.00
0.00
2.71
2074
2265
2.747989
TCCTACGCAACAACAACAAACA
59.252
40.909
0.00
0.00
0.00
2.83
2075
2266
3.359654
CTCCTACGCAACAACAACAAAC
58.640
45.455
0.00
0.00
0.00
2.93
2076
2267
2.223386
GCTCCTACGCAACAACAACAAA
60.223
45.455
0.00
0.00
0.00
2.83
2077
2268
1.332375
GCTCCTACGCAACAACAACAA
59.668
47.619
0.00
0.00
0.00
2.83
2078
2269
0.941542
GCTCCTACGCAACAACAACA
59.058
50.000
0.00
0.00
0.00
3.33
2079
2270
0.110823
CGCTCCTACGCAACAACAAC
60.111
55.000
0.00
0.00
0.00
3.32
2102
2293
3.857038
ACCACAGGCACCGACGTT
61.857
61.111
0.00
0.00
0.00
3.99
2694
2903
2.733593
GATTAGTAGCGCGCCGGG
60.734
66.667
30.33
0.00
0.00
5.73
2705
2914
1.679032
GGCTTTCACGCCCTGATTAGT
60.679
52.381
0.00
0.00
44.41
2.24
2718
2927
3.331150
ACGACGATGTTAATGGCTTTCA
58.669
40.909
0.00
0.00
0.00
2.69
2723
2932
1.517276
CGAGACGACGATGTTAATGGC
59.483
52.381
0.00
0.00
35.09
4.40
2724
2933
2.117137
CCGAGACGACGATGTTAATGG
58.883
52.381
0.00
0.00
35.09
3.16
2725
2934
2.793933
ACCGAGACGACGATGTTAATG
58.206
47.619
0.00
0.00
35.09
1.90
2726
2935
4.825546
ATACCGAGACGACGATGTTAAT
57.174
40.909
0.00
0.00
35.09
1.40
2727
2936
5.929697
ATATACCGAGACGACGATGTTAA
57.070
39.130
0.00
0.00
35.09
2.01
2728
2937
6.159293
ACTATATACCGAGACGACGATGTTA
58.841
40.000
0.00
0.00
35.09
2.41
2729
2938
4.993584
ACTATATACCGAGACGACGATGTT
59.006
41.667
0.00
0.00
35.09
2.71
2730
2939
4.564041
ACTATATACCGAGACGACGATGT
58.436
43.478
0.00
0.00
35.09
3.06
2731
2940
5.527511
AACTATATACCGAGACGACGATG
57.472
43.478
0.00
0.00
35.09
3.84
2733
2942
5.773575
ACTAACTATATACCGAGACGACGA
58.226
41.667
0.00
0.00
35.09
4.20
2735
2944
7.316640
TCCTACTAACTATATACCGAGACGAC
58.683
42.308
0.00
0.00
0.00
4.34
2789
3001
3.125316
GTGCCATCAACTACAACTACTGC
59.875
47.826
0.00
0.00
0.00
4.40
2790
3002
3.367932
CGTGCCATCAACTACAACTACTG
59.632
47.826
0.00
0.00
0.00
2.74
2798
3013
0.953471
TGTGCCGTGCCATCAACTAC
60.953
55.000
0.00
0.00
0.00
2.73
2813
3028
2.216046
ACCATGACGATGATGATGTGC
58.784
47.619
0.00
0.00
0.00
4.57
2829
3044
2.833794
CGGTTAACATCGGATGACCAT
58.166
47.619
23.98
9.61
35.59
3.55
2834
3049
1.593196
ATGGCGGTTAACATCGGATG
58.407
50.000
16.20
16.20
0.00
3.51
2835
3050
1.946768
CAATGGCGGTTAACATCGGAT
59.053
47.619
8.10
0.00
0.00
4.18
2838
3053
2.286184
GCTACAATGGCGGTTAACATCG
60.286
50.000
8.10
3.90
0.00
3.84
2839
3054
2.680841
TGCTACAATGGCGGTTAACATC
59.319
45.455
8.10
0.00
0.00
3.06
2840
3055
2.682856
CTGCTACAATGGCGGTTAACAT
59.317
45.455
8.10
0.00
0.00
2.71
2841
3056
2.080693
CTGCTACAATGGCGGTTAACA
58.919
47.619
8.10
0.00
0.00
2.41
2843
3058
1.091537
GCTGCTACAATGGCGGTTAA
58.908
50.000
0.00
0.00
38.25
2.01
2877
3113
1.478837
CCATTCTCTCTGGCATGCCAT
60.479
52.381
38.47
20.23
46.15
4.40
2878
3114
0.106868
CCATTCTCTCTGGCATGCCA
60.107
55.000
36.26
36.26
45.02
4.92
2921
3161
0.618458
TTTTCCCCCAGATGGTCTCG
59.382
55.000
0.00
0.00
0.00
4.04
2924
3164
0.326927
TCGTTTTCCCCCAGATGGTC
59.673
55.000
0.00
0.00
0.00
4.02
2930
3170
2.361230
GGCCTCGTTTTCCCCCAG
60.361
66.667
0.00
0.00
0.00
4.45
2972
3212
2.283532
AGAGCAGAGCACGAGGGT
60.284
61.111
0.00
0.00
0.00
4.34
2973
3213
2.183811
CAGAGCAGAGCACGAGGG
59.816
66.667
0.00
0.00
0.00
4.30
2977
3217
1.806351
CAGAGCAGAGCAGAGCACG
60.806
63.158
0.00
0.00
0.00
5.34
2978
3218
0.737019
GACAGAGCAGAGCAGAGCAC
60.737
60.000
0.00
0.00
0.00
4.40
2979
3219
1.590665
GACAGAGCAGAGCAGAGCA
59.409
57.895
0.00
0.00
0.00
4.26
2980
3220
1.153588
GGACAGAGCAGAGCAGAGC
60.154
63.158
0.00
0.00
0.00
4.09
2983
3223
2.183811
CGGGACAGAGCAGAGCAG
59.816
66.667
0.00
0.00
0.00
4.24
3005
3245
0.829990
TTGATACATCGAGGCTGGCA
59.170
50.000
3.38
0.00
0.00
4.92
3006
3246
1.802960
CATTGATACATCGAGGCTGGC
59.197
52.381
0.00
0.00
0.00
4.85
3007
3247
2.224378
ACCATTGATACATCGAGGCTGG
60.224
50.000
0.00
0.00
0.00
4.85
3008
3248
2.804527
CACCATTGATACATCGAGGCTG
59.195
50.000
0.00
0.00
0.00
4.85
3010
3250
2.802816
GTCACCATTGATACATCGAGGC
59.197
50.000
0.00
0.00
33.11
4.70
3011
3251
3.804325
GTGTCACCATTGATACATCGAGG
59.196
47.826
0.00
0.00
42.08
4.63
3013
3253
3.736740
CGGTGTCACCATTGATACATCGA
60.737
47.826
21.91
0.00
43.79
3.59
3014
3254
2.539688
CGGTGTCACCATTGATACATCG
59.460
50.000
21.91
0.00
43.79
3.84
3015
3255
3.555956
GTCGGTGTCACCATTGATACATC
59.444
47.826
21.91
0.00
43.79
3.06
3016
3256
3.531538
GTCGGTGTCACCATTGATACAT
58.468
45.455
21.91
0.00
43.79
2.29
3017
3257
2.672760
CGTCGGTGTCACCATTGATACA
60.673
50.000
21.91
0.00
43.79
2.29
3018
3258
1.924524
CGTCGGTGTCACCATTGATAC
59.075
52.381
21.91
8.30
41.84
2.24
3019
3259
1.546923
ACGTCGGTGTCACCATTGATA
59.453
47.619
21.91
0.00
38.47
2.15
3022
3262
1.289109
GGACGTCGGTGTCACCATTG
61.289
60.000
21.91
12.07
38.47
2.82
3024
3264
2.654877
GGACGTCGGTGTCACCAT
59.345
61.111
21.91
3.87
38.47
3.55
3051
3618
1.073284
TGCACTACCCCCTCTGTTTTC
59.927
52.381
0.00
0.00
0.00
2.29
3068
3635
1.612462
CCAGCTTCCATGTCTTCTGCA
60.612
52.381
0.00
0.00
0.00
4.41
3069
3636
1.093159
CCAGCTTCCATGTCTTCTGC
58.907
55.000
0.00
0.00
0.00
4.26
3070
3637
1.280133
TCCCAGCTTCCATGTCTTCTG
59.720
52.381
0.00
0.00
0.00
3.02
3071
3638
1.280421
GTCCCAGCTTCCATGTCTTCT
59.720
52.381
0.00
0.00
0.00
2.85
3076
3652
0.036010
CTTCGTCCCAGCTTCCATGT
60.036
55.000
0.00
0.00
0.00
3.21
3125
3740
3.445805
TCCAAACAACCACAAGAAACCTC
59.554
43.478
0.00
0.00
0.00
3.85
3130
3745
3.623960
CGTACTCCAAACAACCACAAGAA
59.376
43.478
0.00
0.00
0.00
2.52
3131
3746
3.199677
CGTACTCCAAACAACCACAAGA
58.800
45.455
0.00
0.00
0.00
3.02
3132
3747
2.286772
GCGTACTCCAAACAACCACAAG
60.287
50.000
0.00
0.00
0.00
3.16
3168
3789
3.159984
CGGTGCGCTTCAGTTCTC
58.840
61.111
9.73
0.00
0.00
2.87
3219
3856
3.197766
TCTGGTACTACTGCCATTTCCAG
59.802
47.826
0.00
0.00
41.47
3.86
3255
3892
1.073763
CACCACCTCAACATCAAGGGA
59.926
52.381
0.00
0.00
36.95
4.20
3343
6303
0.912486
ATTCTGGGGACGAAAGGGAG
59.088
55.000
0.00
0.00
0.00
4.30
3347
6307
2.763448
AGAGAGATTCTGGGGACGAAAG
59.237
50.000
0.00
0.00
33.93
2.62
3356
6316
1.361993
CCGCGGAGAGAGATTCTGG
59.638
63.158
24.07
0.00
35.87
3.86
3370
6330
4.147322
GTCACATTGACGCCCGCG
62.147
66.667
7.69
7.69
37.67
6.46
3379
6339
1.019278
CCTTCCCGTCGGTCACATTG
61.019
60.000
11.06
0.00
0.00
2.82
3388
6348
0.524816
CGTATGTGTCCTTCCCGTCG
60.525
60.000
0.00
0.00
0.00
5.12
3389
6349
0.179119
CCGTATGTGTCCTTCCCGTC
60.179
60.000
0.00
0.00
0.00
4.79
3391
6351
0.459585
CACCGTATGTGTCCTTCCCG
60.460
60.000
0.00
0.00
40.26
5.14
3392
6352
3.453559
CACCGTATGTGTCCTTCCC
57.546
57.895
0.00
0.00
40.26
3.97
3424
6384
1.153369
GCAAGCTACGATGCTGGGA
60.153
57.895
7.57
0.00
43.24
4.37
3505
6465
6.514048
CGTGATCAGTGATCTACAGATTGCTA
60.514
42.308
28.73
6.06
39.56
3.49
3509
6469
5.504830
CGACGTGATCAGTGATCTACAGATT
60.505
44.000
28.73
12.46
39.56
2.40
3512
6472
3.612539
CGACGTGATCAGTGATCTACAG
58.387
50.000
28.73
21.05
39.56
2.74
3522
6948
0.527169
ATCTGCAGCGACGTGATCAG
60.527
55.000
9.47
0.00
0.00
2.90
3563
6998
0.321122
CTGAACCTCCACACTCTGCC
60.321
60.000
0.00
0.00
0.00
4.85
3564
6999
0.681733
TCTGAACCTCCACACTCTGC
59.318
55.000
0.00
0.00
0.00
4.26
3565
7000
3.692257
AATCTGAACCTCCACACTCTG
57.308
47.619
0.00
0.00
0.00
3.35
3566
7001
4.160329
TGTAATCTGAACCTCCACACTCT
58.840
43.478
0.00
0.00
0.00
3.24
3567
7002
4.499183
CTGTAATCTGAACCTCCACACTC
58.501
47.826
0.00
0.00
0.00
3.51
3568
7003
3.307059
GCTGTAATCTGAACCTCCACACT
60.307
47.826
0.00
0.00
0.00
3.55
3569
7004
3.003480
GCTGTAATCTGAACCTCCACAC
58.997
50.000
0.00
0.00
0.00
3.82
3570
7005
2.353704
CGCTGTAATCTGAACCTCCACA
60.354
50.000
0.00
0.00
0.00
4.17
3571
7006
2.271800
CGCTGTAATCTGAACCTCCAC
58.728
52.381
0.00
0.00
0.00
4.02
3572
7007
1.405526
GCGCTGTAATCTGAACCTCCA
60.406
52.381
0.00
0.00
0.00
3.86
3573
7008
1.291132
GCGCTGTAATCTGAACCTCC
58.709
55.000
0.00
0.00
0.00
4.30
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.