Multiple sequence alignment - TraesCS1A01G074700
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
TraesCS1A01G074700
chr1A
100.000
2603
0
0
1
2603
58028699
58026097
0.000000e+00
4807.0
1
TraesCS1A01G074700
chr1A
98.820
2458
29
0
146
2603
58020286
58022743
0.000000e+00
4379.0
2
TraesCS1A01G074700
chr1A
96.038
1666
53
10
148
1812
487466581
487468234
0.000000e+00
2699.0
3
TraesCS1A01G074700
chr1A
97.059
34
0
1
2422
2454
487467998
487468031
3.620000e-04
56.5
4
TraesCS1A01G074700
chr7B
98.613
2451
34
0
153
2603
581349075
581346625
0.000000e+00
4338.0
5
TraesCS1A01G074700
chr7B
94.793
2055
92
12
146
2198
297143265
297141224
0.000000e+00
3188.0
6
TraesCS1A01G074700
chr7B
96.324
408
15
0
2196
2603
297120954
297120547
0.000000e+00
671.0
7
TraesCS1A01G074700
chr7A
97.961
2452
36
2
152
2603
706439629
706442066
0.000000e+00
4239.0
8
TraesCS1A01G074700
chr7A
98.661
2389
32
0
215
2603
694026777
694029165
0.000000e+00
4235.0
9
TraesCS1A01G074700
chr3B
97.879
2452
37
1
152
2603
607813803
607816239
0.000000e+00
4226.0
10
TraesCS1A01G074700
chr3B
96.231
1645
37
5
962
2603
821049380
821051002
0.000000e+00
2671.0
11
TraesCS1A01G074700
chr1B
92.869
2454
156
14
153
2603
499022207
499019770
0.000000e+00
3544.0
12
TraesCS1A01G074700
chr1B
96.610
59
2
0
72
130
94929201
94929143
5.930000e-17
99.0
13
TraesCS1A01G074700
chrUn
94.584
1828
76
10
152
1978
94949711
94947906
0.000000e+00
2806.0
14
TraesCS1A01G074700
chr5B
95.608
1662
59
9
152
1812
491655614
491653966
0.000000e+00
2652.0
15
TraesCS1A01G074700
chr4D
91.468
586
40
3
1823
2399
506089458
506088874
0.000000e+00
797.0
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
TraesCS1A01G074700
chr1A
58026097
58028699
2602
True
4807.00
4807
100.0000
1
2603
1
chr1A.!!$R1
2602
1
TraesCS1A01G074700
chr1A
58020286
58022743
2457
False
4379.00
4379
98.8200
146
2603
1
chr1A.!!$F1
2457
2
TraesCS1A01G074700
chr1A
487466581
487468234
1653
False
1377.75
2699
96.5485
148
2454
2
chr1A.!!$F2
2306
3
TraesCS1A01G074700
chr7B
581346625
581349075
2450
True
4338.00
4338
98.6130
153
2603
1
chr7B.!!$R3
2450
4
TraesCS1A01G074700
chr7B
297141224
297143265
2041
True
3188.00
3188
94.7930
146
2198
1
chr7B.!!$R2
2052
5
TraesCS1A01G074700
chr7A
706439629
706442066
2437
False
4239.00
4239
97.9610
152
2603
1
chr7A.!!$F2
2451
6
TraesCS1A01G074700
chr7A
694026777
694029165
2388
False
4235.00
4235
98.6610
215
2603
1
chr7A.!!$F1
2388
7
TraesCS1A01G074700
chr3B
607813803
607816239
2436
False
4226.00
4226
97.8790
152
2603
1
chr3B.!!$F1
2451
8
TraesCS1A01G074700
chr3B
821049380
821051002
1622
False
2671.00
2671
96.2310
962
2603
1
chr3B.!!$F2
1641
9
TraesCS1A01G074700
chr1B
499019770
499022207
2437
True
3544.00
3544
92.8690
153
2603
1
chr1B.!!$R2
2450
10
TraesCS1A01G074700
chrUn
94947906
94949711
1805
True
2806.00
2806
94.5840
152
1978
1
chrUn.!!$R1
1826
11
TraesCS1A01G074700
chr5B
491653966
491655614
1648
True
2652.00
2652
95.6080
152
1812
1
chr5B.!!$R1
1660
12
TraesCS1A01G074700
chr4D
506088874
506089458
584
True
797.00
797
91.4680
1823
2399
1
chr4D.!!$R1
576
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
141
142
0.032615
TCACTTTGGGGCTGTTTGGT
60.033
50.0
0.0
0.0
0.0
3.67
F
144
145
0.106521
CTTTGGGGCTGTTTGGTTGG
59.893
55.0
0.0
0.0
0.0
3.77
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
1319
1334
0.823356
GGCAACTTGCTCCTCCACAA
60.823
55.0
13.43
0.0
44.28
3.33
R
1864
1894
5.360714
AGAAAGTTTCAGTTTGAAGCCATGA
59.639
36.0
17.65
0.0
38.18
3.07
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
24
25
4.292977
AGTTACACAAGTTCAAGCAAGC
57.707
40.909
0.00
0.00
0.00
4.01
25
26
3.947834
AGTTACACAAGTTCAAGCAAGCT
59.052
39.130
0.00
0.00
0.00
3.74
26
27
2.857592
ACACAAGTTCAAGCAAGCTG
57.142
45.000
0.00
0.00
0.00
4.24
27
28
2.368439
ACACAAGTTCAAGCAAGCTGA
58.632
42.857
0.00
0.00
0.00
4.26
28
29
2.754552
ACACAAGTTCAAGCAAGCTGAA
59.245
40.909
0.00
0.00
0.00
3.02
29
30
3.181493
ACACAAGTTCAAGCAAGCTGAAG
60.181
43.478
0.00
0.00
0.00
3.02
30
31
2.360165
ACAAGTTCAAGCAAGCTGAAGG
59.640
45.455
0.00
0.00
0.00
3.46
31
32
2.620115
CAAGTTCAAGCAAGCTGAAGGA
59.380
45.455
0.00
0.00
0.00
3.36
32
33
2.936202
AGTTCAAGCAAGCTGAAGGAA
58.064
42.857
0.00
0.00
0.00
3.36
33
34
3.290710
AGTTCAAGCAAGCTGAAGGAAA
58.709
40.909
0.00
0.00
0.00
3.13
34
35
3.317430
AGTTCAAGCAAGCTGAAGGAAAG
59.683
43.478
0.00
0.00
0.00
2.62
35
36
2.233271
TCAAGCAAGCTGAAGGAAAGG
58.767
47.619
0.00
0.00
0.00
3.11
36
37
2.158623
TCAAGCAAGCTGAAGGAAAGGA
60.159
45.455
0.00
0.00
0.00
3.36
37
38
2.624838
CAAGCAAGCTGAAGGAAAGGAA
59.375
45.455
0.00
0.00
0.00
3.36
38
39
2.949447
AGCAAGCTGAAGGAAAGGAAA
58.051
42.857
0.00
0.00
0.00
3.13
39
40
3.299503
AGCAAGCTGAAGGAAAGGAAAA
58.700
40.909
0.00
0.00
0.00
2.29
40
41
3.068732
AGCAAGCTGAAGGAAAGGAAAAC
59.931
43.478
0.00
0.00
0.00
2.43
41
42
3.181476
GCAAGCTGAAGGAAAGGAAAACA
60.181
43.478
0.00
0.00
0.00
2.83
42
43
4.502087
GCAAGCTGAAGGAAAGGAAAACAT
60.502
41.667
0.00
0.00
0.00
2.71
43
44
5.225642
CAAGCTGAAGGAAAGGAAAACATC
58.774
41.667
0.00
0.00
0.00
3.06
44
45
4.473444
AGCTGAAGGAAAGGAAAACATCA
58.527
39.130
0.00
0.00
0.00
3.07
45
46
4.279420
AGCTGAAGGAAAGGAAAACATCAC
59.721
41.667
0.00
0.00
0.00
3.06
46
47
4.037923
GCTGAAGGAAAGGAAAACATCACA
59.962
41.667
0.00
0.00
0.00
3.58
47
48
5.514274
TGAAGGAAAGGAAAACATCACAC
57.486
39.130
0.00
0.00
0.00
3.82
48
49
4.952957
TGAAGGAAAGGAAAACATCACACA
59.047
37.500
0.00
0.00
0.00
3.72
49
50
5.420421
TGAAGGAAAGGAAAACATCACACAA
59.580
36.000
0.00
0.00
0.00
3.33
50
51
5.930837
AGGAAAGGAAAACATCACACAAA
57.069
34.783
0.00
0.00
0.00
2.83
51
52
6.293004
AGGAAAGGAAAACATCACACAAAA
57.707
33.333
0.00
0.00
0.00
2.44
52
53
6.888105
AGGAAAGGAAAACATCACACAAAAT
58.112
32.000
0.00
0.00
0.00
1.82
53
54
8.017418
AGGAAAGGAAAACATCACACAAAATA
57.983
30.769
0.00
0.00
0.00
1.40
54
55
8.143835
AGGAAAGGAAAACATCACACAAAATAG
58.856
33.333
0.00
0.00
0.00
1.73
55
56
8.141268
GGAAAGGAAAACATCACACAAAATAGA
58.859
33.333
0.00
0.00
0.00
1.98
56
57
9.528018
GAAAGGAAAACATCACACAAAATAGAA
57.472
29.630
0.00
0.00
0.00
2.10
73
74
9.346725
CAAAATAGAATTACAGAAAAGAGTGGC
57.653
33.333
0.00
0.00
0.00
5.01
74
75
7.631717
AATAGAATTACAGAAAAGAGTGGCC
57.368
36.000
0.00
0.00
0.00
5.36
75
76
5.248380
AGAATTACAGAAAAGAGTGGCCT
57.752
39.130
3.32
0.00
0.00
5.19
76
77
5.006386
AGAATTACAGAAAAGAGTGGCCTG
58.994
41.667
3.32
0.00
0.00
4.85
77
78
2.185004
TACAGAAAAGAGTGGCCTGC
57.815
50.000
3.32
0.00
0.00
4.85
78
79
0.538287
ACAGAAAAGAGTGGCCTGCC
60.538
55.000
3.32
0.00
0.00
4.85
79
80
1.302832
AGAAAAGAGTGGCCTGCCG
60.303
57.895
3.32
0.00
39.42
5.69
80
81
2.982744
GAAAAGAGTGGCCTGCCGC
61.983
63.158
13.78
13.78
46.30
6.53
93
94
2.956987
GCCGCATGCAAGACACTT
59.043
55.556
19.57
0.00
40.77
3.16
94
95
1.286880
GCCGCATGCAAGACACTTT
59.713
52.632
19.57
0.00
40.77
2.66
95
96
1.005294
GCCGCATGCAAGACACTTTG
61.005
55.000
19.57
0.00
40.77
2.77
96
97
0.592637
CCGCATGCAAGACACTTTGA
59.407
50.000
19.57
0.00
0.00
2.69
97
98
1.664016
CCGCATGCAAGACACTTTGAC
60.664
52.381
19.57
0.00
0.00
3.18
98
99
1.664016
CGCATGCAAGACACTTTGACC
60.664
52.381
19.57
0.00
0.00
4.02
99
100
1.610522
GCATGCAAGACACTTTGACCT
59.389
47.619
14.21
0.00
0.00
3.85
100
101
2.351157
GCATGCAAGACACTTTGACCTC
60.351
50.000
14.21
0.00
0.00
3.85
101
102
2.708216
TGCAAGACACTTTGACCTCA
57.292
45.000
0.00
0.00
0.00
3.86
102
103
2.564771
TGCAAGACACTTTGACCTCAG
58.435
47.619
0.00
0.00
0.00
3.35
103
104
2.092968
TGCAAGACACTTTGACCTCAGT
60.093
45.455
0.00
0.00
0.00
3.41
104
105
2.945668
GCAAGACACTTTGACCTCAGTT
59.054
45.455
0.00
0.00
0.00
3.16
105
106
3.242870
GCAAGACACTTTGACCTCAGTTG
60.243
47.826
0.00
0.00
0.00
3.16
106
107
3.199880
AGACACTTTGACCTCAGTTGG
57.800
47.619
0.00
0.00
0.00
3.77
107
108
2.505819
AGACACTTTGACCTCAGTTGGT
59.494
45.455
0.00
0.00
44.10
3.67
108
109
2.614057
GACACTTTGACCTCAGTTGGTG
59.386
50.000
0.00
0.00
41.00
4.17
109
110
2.238646
ACACTTTGACCTCAGTTGGTGA
59.761
45.455
0.00
0.00
41.00
4.02
110
111
2.614057
CACTTTGACCTCAGTTGGTGAC
59.386
50.000
0.00
0.00
41.00
3.67
111
112
1.867233
CTTTGACCTCAGTTGGTGACG
59.133
52.381
0.00
0.00
41.00
4.35
112
113
0.105964
TTGACCTCAGTTGGTGACGG
59.894
55.000
0.00
0.00
41.00
4.79
113
114
1.046472
TGACCTCAGTTGGTGACGGT
61.046
55.000
0.00
0.00
41.00
4.83
114
115
0.319641
GACCTCAGTTGGTGACGGTC
60.320
60.000
0.00
0.00
41.86
4.79
115
116
0.759436
ACCTCAGTTGGTGACGGTCT
60.759
55.000
9.88
0.00
39.17
3.85
116
117
0.319900
CCTCAGTTGGTGACGGTCTG
60.320
60.000
9.88
0.00
0.00
3.51
117
118
0.946221
CTCAGTTGGTGACGGTCTGC
60.946
60.000
9.88
2.45
0.00
4.26
118
119
1.069765
CAGTTGGTGACGGTCTGCT
59.930
57.895
9.88
0.00
0.00
4.24
119
120
1.069765
AGTTGGTGACGGTCTGCTG
59.930
57.895
9.88
0.00
0.00
4.41
120
121
1.961277
GTTGGTGACGGTCTGCTGG
60.961
63.158
9.88
0.00
0.00
4.85
121
122
2.137528
TTGGTGACGGTCTGCTGGA
61.138
57.895
9.88
0.00
0.00
3.86
122
123
1.480212
TTGGTGACGGTCTGCTGGAT
61.480
55.000
9.88
0.00
0.00
3.41
123
124
1.153549
GGTGACGGTCTGCTGGATC
60.154
63.158
9.88
0.00
0.00
3.36
124
125
1.591703
GTGACGGTCTGCTGGATCA
59.408
57.895
9.88
0.00
0.00
2.92
125
126
0.737715
GTGACGGTCTGCTGGATCAC
60.738
60.000
9.88
0.00
0.00
3.06
126
127
0.900182
TGACGGTCTGCTGGATCACT
60.900
55.000
9.88
0.00
0.00
3.41
127
128
0.247736
GACGGTCTGCTGGATCACTT
59.752
55.000
0.00
0.00
0.00
3.16
128
129
0.687354
ACGGTCTGCTGGATCACTTT
59.313
50.000
0.00
0.00
0.00
2.66
129
130
1.081892
CGGTCTGCTGGATCACTTTG
58.918
55.000
0.00
0.00
0.00
2.77
130
131
1.457346
GGTCTGCTGGATCACTTTGG
58.543
55.000
0.00
0.00
0.00
3.28
131
132
1.457346
GTCTGCTGGATCACTTTGGG
58.543
55.000
0.00
0.00
0.00
4.12
132
133
0.329261
TCTGCTGGATCACTTTGGGG
59.671
55.000
0.00
0.00
0.00
4.96
133
134
1.304381
TGCTGGATCACTTTGGGGC
60.304
57.895
0.00
0.00
0.00
5.80
134
135
1.000396
GCTGGATCACTTTGGGGCT
60.000
57.895
0.00
0.00
0.00
5.19
135
136
1.318158
GCTGGATCACTTTGGGGCTG
61.318
60.000
0.00
0.00
0.00
4.85
136
137
0.038744
CTGGATCACTTTGGGGCTGT
59.961
55.000
0.00
0.00
0.00
4.40
137
138
0.482446
TGGATCACTTTGGGGCTGTT
59.518
50.000
0.00
0.00
0.00
3.16
138
139
1.133199
TGGATCACTTTGGGGCTGTTT
60.133
47.619
0.00
0.00
0.00
2.83
139
140
1.273327
GGATCACTTTGGGGCTGTTTG
59.727
52.381
0.00
0.00
0.00
2.93
140
141
1.273327
GATCACTTTGGGGCTGTTTGG
59.727
52.381
0.00
0.00
0.00
3.28
141
142
0.032615
TCACTTTGGGGCTGTTTGGT
60.033
50.000
0.00
0.00
0.00
3.67
142
143
0.829990
CACTTTGGGGCTGTTTGGTT
59.170
50.000
0.00
0.00
0.00
3.67
143
144
0.829990
ACTTTGGGGCTGTTTGGTTG
59.170
50.000
0.00
0.00
0.00
3.77
144
145
0.106521
CTTTGGGGCTGTTTGGTTGG
59.893
55.000
0.00
0.00
0.00
3.77
150
151
1.239347
GGCTGTTTGGTTGGAGACTC
58.761
55.000
0.00
0.00
0.00
3.36
170
171
1.078347
GGGGCTGTTTGGATCCCAA
59.922
57.895
9.90
0.59
42.29
4.12
178
179
2.109128
TGTTTGGATCCCAACCTAAGCA
59.891
45.455
22.43
9.04
43.82
3.91
310
311
3.335534
GTGTGGCGCTCGTTTCGT
61.336
61.111
7.64
0.00
0.00
3.85
350
351
1.480205
CGCAAACTGAGCCACAAAAG
58.520
50.000
0.00
0.00
0.00
2.27
374
375
2.936498
CCCGCGAACTGATAAAAGTCAT
59.064
45.455
8.23
0.00
0.00
3.06
527
529
2.695666
CCTGGTACGAATCCTCATCACT
59.304
50.000
0.00
0.00
0.00
3.41
927
938
3.871594
ACTGTCCTCTGTATAATTTGCGC
59.128
43.478
0.00
0.00
0.00
6.09
1177
1190
3.193903
TCCCATGTTCGAACGAGATGTTA
59.806
43.478
22.48
8.63
42.09
2.41
1319
1334
6.313519
ACTGGTAGACACATTCCATGTAAT
57.686
37.500
0.00
0.00
42.70
1.89
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
1
2
5.588648
AGCTTGCTTGAACTTGTGTAACTTA
59.411
36.000
0.00
0.00
38.04
2.24
2
3
4.399303
AGCTTGCTTGAACTTGTGTAACTT
59.601
37.500
0.00
0.00
38.04
2.66
3
4
3.947834
AGCTTGCTTGAACTTGTGTAACT
59.052
39.130
0.00
0.00
38.04
2.24
4
5
4.037690
CAGCTTGCTTGAACTTGTGTAAC
58.962
43.478
0.00
0.00
37.35
2.50
5
6
3.944650
TCAGCTTGCTTGAACTTGTGTAA
59.055
39.130
0.00
0.00
0.00
2.41
6
7
3.540617
TCAGCTTGCTTGAACTTGTGTA
58.459
40.909
0.00
0.00
0.00
2.90
7
8
2.368439
TCAGCTTGCTTGAACTTGTGT
58.632
42.857
0.00
0.00
0.00
3.72
8
9
3.369385
CTTCAGCTTGCTTGAACTTGTG
58.631
45.455
0.00
0.00
31.66
3.33
9
10
2.360165
CCTTCAGCTTGCTTGAACTTGT
59.640
45.455
0.00
0.00
31.66
3.16
10
11
2.620115
TCCTTCAGCTTGCTTGAACTTG
59.380
45.455
0.00
0.00
31.66
3.16
11
12
2.936202
TCCTTCAGCTTGCTTGAACTT
58.064
42.857
0.00
0.00
31.66
2.66
12
13
2.645838
TCCTTCAGCTTGCTTGAACT
57.354
45.000
0.00
0.00
31.66
3.01
13
14
3.551659
CCTTTCCTTCAGCTTGCTTGAAC
60.552
47.826
0.00
0.00
31.66
3.18
14
15
2.624838
CCTTTCCTTCAGCTTGCTTGAA
59.375
45.455
0.00
0.57
33.76
2.69
15
16
2.158623
TCCTTTCCTTCAGCTTGCTTGA
60.159
45.455
0.00
0.00
0.00
3.02
16
17
2.233271
TCCTTTCCTTCAGCTTGCTTG
58.767
47.619
0.00
0.00
0.00
4.01
17
18
2.664402
TCCTTTCCTTCAGCTTGCTT
57.336
45.000
0.00
0.00
0.00
3.91
18
19
2.664402
TTCCTTTCCTTCAGCTTGCT
57.336
45.000
0.00
0.00
0.00
3.91
19
20
3.181476
TGTTTTCCTTTCCTTCAGCTTGC
60.181
43.478
0.00
0.00
0.00
4.01
20
21
4.654091
TGTTTTCCTTTCCTTCAGCTTG
57.346
40.909
0.00
0.00
0.00
4.01
21
22
4.895297
TGATGTTTTCCTTTCCTTCAGCTT
59.105
37.500
0.00
0.00
0.00
3.74
22
23
4.279420
GTGATGTTTTCCTTTCCTTCAGCT
59.721
41.667
0.00
0.00
0.00
4.24
23
24
4.037923
TGTGATGTTTTCCTTTCCTTCAGC
59.962
41.667
0.00
0.00
0.00
4.26
24
25
5.067674
TGTGTGATGTTTTCCTTTCCTTCAG
59.932
40.000
0.00
0.00
0.00
3.02
25
26
4.952957
TGTGTGATGTTTTCCTTTCCTTCA
59.047
37.500
0.00
0.00
0.00
3.02
26
27
5.514274
TGTGTGATGTTTTCCTTTCCTTC
57.486
39.130
0.00
0.00
0.00
3.46
27
28
5.930837
TTGTGTGATGTTTTCCTTTCCTT
57.069
34.783
0.00
0.00
0.00
3.36
28
29
5.930837
TTTGTGTGATGTTTTCCTTTCCT
57.069
34.783
0.00
0.00
0.00
3.36
29
30
8.141268
TCTATTTTGTGTGATGTTTTCCTTTCC
58.859
33.333
0.00
0.00
0.00
3.13
30
31
9.528018
TTCTATTTTGTGTGATGTTTTCCTTTC
57.472
29.630
0.00
0.00
0.00
2.62
47
48
9.346725
GCCACTCTTTTCTGTAATTCTATTTTG
57.653
33.333
0.00
0.00
0.00
2.44
48
49
8.523658
GGCCACTCTTTTCTGTAATTCTATTTT
58.476
33.333
0.00
0.00
0.00
1.82
49
50
7.890655
AGGCCACTCTTTTCTGTAATTCTATTT
59.109
33.333
5.01
0.00
0.00
1.40
50
51
7.337942
CAGGCCACTCTTTTCTGTAATTCTATT
59.662
37.037
5.01
0.00
0.00
1.73
51
52
6.825721
CAGGCCACTCTTTTCTGTAATTCTAT
59.174
38.462
5.01
0.00
0.00
1.98
52
53
6.173339
CAGGCCACTCTTTTCTGTAATTCTA
58.827
40.000
5.01
0.00
0.00
2.10
53
54
5.006386
CAGGCCACTCTTTTCTGTAATTCT
58.994
41.667
5.01
0.00
0.00
2.40
54
55
4.379918
GCAGGCCACTCTTTTCTGTAATTC
60.380
45.833
5.01
0.00
0.00
2.17
55
56
3.507622
GCAGGCCACTCTTTTCTGTAATT
59.492
43.478
5.01
0.00
0.00
1.40
56
57
3.084786
GCAGGCCACTCTTTTCTGTAAT
58.915
45.455
5.01
0.00
0.00
1.89
57
58
2.504367
GCAGGCCACTCTTTTCTGTAA
58.496
47.619
5.01
0.00
0.00
2.41
58
59
1.271379
GGCAGGCCACTCTTTTCTGTA
60.271
52.381
5.01
0.00
35.81
2.74
59
60
0.538287
GGCAGGCCACTCTTTTCTGT
60.538
55.000
5.01
0.00
35.81
3.41
60
61
1.580845
CGGCAGGCCACTCTTTTCTG
61.581
60.000
5.01
0.00
35.37
3.02
61
62
1.302832
CGGCAGGCCACTCTTTTCT
60.303
57.895
5.01
0.00
35.37
2.52
62
63
2.982744
GCGGCAGGCCACTCTTTTC
61.983
63.158
5.01
0.00
35.37
2.29
63
64
2.985847
GCGGCAGGCCACTCTTTT
60.986
61.111
5.01
0.00
35.37
2.27
64
65
3.574074
ATGCGGCAGGCCACTCTTT
62.574
57.895
9.25
0.00
42.61
2.52
65
66
4.039092
ATGCGGCAGGCCACTCTT
62.039
61.111
9.25
0.00
42.61
2.85
66
67
4.790962
CATGCGGCAGGCCACTCT
62.791
66.667
9.25
0.00
42.61
3.24
76
77
1.005294
CAAAGTGTCTTGCATGCGGC
61.005
55.000
14.09
1.13
45.13
6.53
77
78
0.592637
TCAAAGTGTCTTGCATGCGG
59.407
50.000
14.09
8.69
0.00
5.69
78
79
1.664016
GGTCAAAGTGTCTTGCATGCG
60.664
52.381
14.09
0.00
0.00
4.73
79
80
1.610522
AGGTCAAAGTGTCTTGCATGC
59.389
47.619
11.82
11.82
0.00
4.06
80
81
2.880268
TGAGGTCAAAGTGTCTTGCATG
59.120
45.455
0.00
0.00
0.00
4.06
81
82
3.144506
CTGAGGTCAAAGTGTCTTGCAT
58.855
45.455
0.00
0.00
0.00
3.96
82
83
2.092968
ACTGAGGTCAAAGTGTCTTGCA
60.093
45.455
0.00
0.00
0.00
4.08
83
84
2.565841
ACTGAGGTCAAAGTGTCTTGC
58.434
47.619
0.00
0.00
0.00
4.01
84
85
3.313526
CCAACTGAGGTCAAAGTGTCTTG
59.686
47.826
0.00
0.00
0.00
3.02
85
86
3.054361
ACCAACTGAGGTCAAAGTGTCTT
60.054
43.478
0.00
0.00
37.28
3.01
86
87
2.505819
ACCAACTGAGGTCAAAGTGTCT
59.494
45.455
0.00
0.00
37.28
3.41
87
88
2.614057
CACCAACTGAGGTCAAAGTGTC
59.386
50.000
0.00
0.00
40.77
3.67
88
89
2.238646
TCACCAACTGAGGTCAAAGTGT
59.761
45.455
0.00
0.00
40.77
3.55
89
90
2.614057
GTCACCAACTGAGGTCAAAGTG
59.386
50.000
0.00
0.00
40.77
3.16
90
91
2.741878
CGTCACCAACTGAGGTCAAAGT
60.742
50.000
0.00
0.00
40.77
2.66
91
92
1.867233
CGTCACCAACTGAGGTCAAAG
59.133
52.381
0.00
0.00
40.77
2.77
92
93
1.474320
CCGTCACCAACTGAGGTCAAA
60.474
52.381
0.00
0.00
40.77
2.69
93
94
0.105964
CCGTCACCAACTGAGGTCAA
59.894
55.000
0.00
0.00
40.77
3.18
94
95
1.046472
ACCGTCACCAACTGAGGTCA
61.046
55.000
0.00
0.00
40.77
4.02
95
96
0.319641
GACCGTCACCAACTGAGGTC
60.320
60.000
0.00
0.00
40.77
3.85
96
97
0.759436
AGACCGTCACCAACTGAGGT
60.759
55.000
0.40
0.00
44.48
3.85
97
98
0.319900
CAGACCGTCACCAACTGAGG
60.320
60.000
0.40
0.00
34.96
3.86
98
99
0.946221
GCAGACCGTCACCAACTGAG
60.946
60.000
0.40
0.00
0.00
3.35
99
100
1.069090
GCAGACCGTCACCAACTGA
59.931
57.895
0.40
0.00
0.00
3.41
100
101
1.069765
AGCAGACCGTCACCAACTG
59.930
57.895
0.40
0.00
0.00
3.16
101
102
1.069765
CAGCAGACCGTCACCAACT
59.930
57.895
0.40
0.00
0.00
3.16
102
103
1.961277
CCAGCAGACCGTCACCAAC
60.961
63.158
0.40
0.00
0.00
3.77
103
104
1.480212
ATCCAGCAGACCGTCACCAA
61.480
55.000
0.40
0.00
0.00
3.67
104
105
1.888436
GATCCAGCAGACCGTCACCA
61.888
60.000
0.40
0.00
0.00
4.17
105
106
1.153549
GATCCAGCAGACCGTCACC
60.154
63.158
0.40
0.00
0.00
4.02
106
107
0.737715
GTGATCCAGCAGACCGTCAC
60.738
60.000
0.40
0.00
0.00
3.67
107
108
0.900182
AGTGATCCAGCAGACCGTCA
60.900
55.000
0.40
0.00
0.00
4.35
108
109
0.247736
AAGTGATCCAGCAGACCGTC
59.752
55.000
0.00
0.00
0.00
4.79
109
110
0.687354
AAAGTGATCCAGCAGACCGT
59.313
50.000
0.00
0.00
0.00
4.83
110
111
1.081892
CAAAGTGATCCAGCAGACCG
58.918
55.000
0.00
0.00
0.00
4.79
111
112
1.457346
CCAAAGTGATCCAGCAGACC
58.543
55.000
0.00
0.00
0.00
3.85
112
113
1.457346
CCCAAAGTGATCCAGCAGAC
58.543
55.000
0.00
0.00
0.00
3.51
113
114
0.329261
CCCCAAAGTGATCCAGCAGA
59.671
55.000
0.00
0.00
0.00
4.26
114
115
1.318158
GCCCCAAAGTGATCCAGCAG
61.318
60.000
0.00
0.00
0.00
4.24
115
116
1.304381
GCCCCAAAGTGATCCAGCA
60.304
57.895
0.00
0.00
0.00
4.41
116
117
1.000396
AGCCCCAAAGTGATCCAGC
60.000
57.895
0.00
0.00
0.00
4.85
117
118
0.038744
ACAGCCCCAAAGTGATCCAG
59.961
55.000
0.00
0.00
0.00
3.86
118
119
0.482446
AACAGCCCCAAAGTGATCCA
59.518
50.000
0.00
0.00
0.00
3.41
119
120
1.273327
CAAACAGCCCCAAAGTGATCC
59.727
52.381
0.00
0.00
0.00
3.36
120
121
1.273327
CCAAACAGCCCCAAAGTGATC
59.727
52.381
0.00
0.00
0.00
2.92
121
122
1.341080
CCAAACAGCCCCAAAGTGAT
58.659
50.000
0.00
0.00
0.00
3.06
122
123
0.032615
ACCAAACAGCCCCAAAGTGA
60.033
50.000
0.00
0.00
0.00
3.41
123
124
0.829990
AACCAAACAGCCCCAAAGTG
59.170
50.000
0.00
0.00
0.00
3.16
124
125
0.829990
CAACCAAACAGCCCCAAAGT
59.170
50.000
0.00
0.00
0.00
2.66
125
126
0.106521
CCAACCAAACAGCCCCAAAG
59.893
55.000
0.00
0.00
0.00
2.77
126
127
0.325671
TCCAACCAAACAGCCCCAAA
60.326
50.000
0.00
0.00
0.00
3.28
127
128
0.758685
CTCCAACCAAACAGCCCCAA
60.759
55.000
0.00
0.00
0.00
4.12
128
129
1.152567
CTCCAACCAAACAGCCCCA
60.153
57.895
0.00
0.00
0.00
4.96
129
130
1.152830
TCTCCAACCAAACAGCCCC
59.847
57.895
0.00
0.00
0.00
5.80
130
131
0.178990
AGTCTCCAACCAAACAGCCC
60.179
55.000
0.00
0.00
0.00
5.19
131
132
1.239347
GAGTCTCCAACCAAACAGCC
58.761
55.000
0.00
0.00
0.00
4.85
132
133
1.876156
CTGAGTCTCCAACCAAACAGC
59.124
52.381
0.00
0.00
0.00
4.40
133
134
2.498167
CCTGAGTCTCCAACCAAACAG
58.502
52.381
0.00
0.00
0.00
3.16
134
135
1.142870
CCCTGAGTCTCCAACCAAACA
59.857
52.381
0.00
0.00
0.00
2.83
135
136
1.545651
CCCCTGAGTCTCCAACCAAAC
60.546
57.143
0.00
0.00
0.00
2.93
136
137
0.771127
CCCCTGAGTCTCCAACCAAA
59.229
55.000
0.00
0.00
0.00
3.28
137
138
1.779061
GCCCCTGAGTCTCCAACCAA
61.779
60.000
0.00
0.00
0.00
3.67
138
139
2.224159
GCCCCTGAGTCTCCAACCA
61.224
63.158
0.00
0.00
0.00
3.67
139
140
1.920835
AGCCCCTGAGTCTCCAACC
60.921
63.158
0.00
0.00
0.00
3.77
140
141
1.298014
CAGCCCCTGAGTCTCCAAC
59.702
63.158
0.00
0.00
32.44
3.77
141
142
0.768221
AACAGCCCCTGAGTCTCCAA
60.768
55.000
0.00
0.00
35.18
3.53
142
143
0.768221
AAACAGCCCCTGAGTCTCCA
60.768
55.000
0.00
0.00
35.18
3.86
143
144
0.322008
CAAACAGCCCCTGAGTCTCC
60.322
60.000
0.00
0.00
35.18
3.71
144
145
0.322008
CCAAACAGCCCCTGAGTCTC
60.322
60.000
0.00
0.00
35.18
3.36
150
151
1.380380
GGGATCCAAACAGCCCCTG
60.380
63.158
15.23
0.00
37.52
4.45
170
171
1.622607
TAGGCGTGGCATGCTTAGGT
61.623
55.000
28.98
12.58
0.00
3.08
178
179
1.221840
CTCACCTTAGGCGTGGCAT
59.778
57.895
0.00
0.00
0.00
4.40
334
335
2.031870
GGGACTTTTGTGGCTCAGTTT
58.968
47.619
0.00
0.00
0.00
2.66
350
351
1.664151
CTTTTATCAGTTCGCGGGGAC
59.336
52.381
6.13
1.88
0.00
4.46
374
375
1.874345
GAGGACGAACAGGGAAGCGA
61.874
60.000
0.00
0.00
0.00
4.93
527
529
1.690893
GTGGAGGAGATAGATGCTGCA
59.309
52.381
4.13
4.13
36.66
4.41
1177
1190
1.880027
GTTCAGGCGTGACATCCTTTT
59.120
47.619
8.96
0.00
30.10
2.27
1319
1334
0.823356
GGCAACTTGCTCCTCCACAA
60.823
55.000
13.43
0.00
44.28
3.33
1864
1894
5.360714
AGAAAGTTTCAGTTTGAAGCCATGA
59.639
36.000
17.65
0.00
38.18
3.07
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.