Multiple sequence alignment - TraesCS5A01G077600
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
TraesCS5A01G077600
chr5A
100.000
2708
0
0
1
2708
94741030
94743737
0.000000e+00
5001.0
1
TraesCS5A01G077600
chr5A
82.507
383
34
19
27
384
94735349
94735723
3.390000e-79
305.0
2
TraesCS5A01G077600
chr5A
85.897
78
1
2
2343
2410
426930740
426930663
1.040000e-09
75.0
3
TraesCS5A01G077600
chr5B
91.782
1813
75
21
27
1797
112588311
112586531
0.000000e+00
2455.0
4
TraesCS5A01G077600
chr5B
84.189
487
45
15
2239
2708
112586113
112585642
6.880000e-121
444.0
5
TraesCS5A01G077600
chr5B
80.418
383
39
18
27
384
112589200
112588829
2.670000e-65
259.0
6
TraesCS5A01G077600
chr5B
85.556
90
3
2
2331
2411
382906813
382906901
4.800000e-13
86.1
7
TraesCS5A01G077600
chr5B
85.057
87
3
2
2331
2408
382906285
382906370
2.240000e-11
80.5
8
TraesCS5A01G077600
chr5B
84.444
90
4
2
2331
2411
382907342
382907430
2.240000e-11
80.5
9
TraesCS5A01G077600
chr5D
92.126
1016
48
11
790
1797
103646324
103645333
0.000000e+00
1404.0
10
TraesCS5A01G077600
chr5D
93.100
913
41
10
1059
1958
103654722
103653819
0.000000e+00
1317.0
11
TraesCS5A01G077600
chr5D
94.003
767
25
7
275
1036
103655466
103654716
0.000000e+00
1142.0
12
TraesCS5A01G077600
chr5D
86.449
797
68
19
27
798
103649927
103649146
0.000000e+00
837.0
13
TraesCS5A01G077600
chr5D
85.078
449
39
13
2275
2707
103644919
103644483
1.490000e-117
433.0
14
TraesCS5A01G077600
chr5D
88.462
260
17
8
27
285
103657065
103656818
4.380000e-78
302.0
15
TraesCS5A01G077600
chr5D
80.049
411
22
27
1826
2231
103645260
103644905
1.610000e-62
250.0
16
TraesCS5A01G077600
chr6D
93.376
936
47
7
853
1788
276902588
276903508
0.000000e+00
1371.0
17
TraesCS5A01G077600
chr6D
88.066
729
42
22
27
749
276901810
276902499
0.000000e+00
822.0
18
TraesCS5A01G077600
chr6D
95.862
145
6
0
1805
1949
276903565
276903709
4.510000e-58
235.0
19
TraesCS5A01G077600
chr6D
86.250
80
8
2
2495
2571
83954364
83954285
1.730000e-12
84.2
20
TraesCS5A01G077600
chr6D
92.063
63
0
2
806
868
276902513
276902570
1.730000e-12
84.2
21
TraesCS5A01G077600
chr6D
86.441
59
4
3
2331
2385
25709006
25708948
8.100000e-06
62.1
22
TraesCS5A01G077600
chr6D
86.441
59
4
3
2331
2385
25720779
25720721
8.100000e-06
62.1
23
TraesCS5A01G077600
chrUn
86.250
80
8
2
2495
2571
273240037
273240116
1.730000e-12
84.2
24
TraesCS5A01G077600
chr7D
86.250
80
8
2
2495
2571
307063659
307063580
1.730000e-12
84.2
25
TraesCS5A01G077600
chr7D
86.250
80
8
2
2495
2571
349236881
349236802
1.730000e-12
84.2
26
TraesCS5A01G077600
chr7D
86.250
80
8
2
2495
2571
382013633
382013554
1.730000e-12
84.2
27
TraesCS5A01G077600
chr4D
86.250
80
8
2
2495
2571
123368880
123368959
1.730000e-12
84.2
28
TraesCS5A01G077600
chr4D
86.250
80
8
2
2495
2571
123579830
123579909
1.730000e-12
84.2
29
TraesCS5A01G077600
chr7B
87.500
56
6
1
2330
2385
712863162
712863216
2.250000e-06
63.9
30
TraesCS5A01G077600
chr2B
92.857
42
3
0
2344
2385
767472392
767472351
8.100000e-06
62.1
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
TraesCS5A01G077600
chr5A
94741030
94743737
2707
False
5001.000000
5001
100.000000
1
2708
1
chr5A.!!$F2
2707
1
TraesCS5A01G077600
chr5B
112585642
112589200
3558
True
1052.666667
2455
85.463000
27
2708
3
chr5B.!!$R1
2681
2
TraesCS5A01G077600
chr5D
103644483
103657065
12582
True
812.142857
1404
88.466714
27
2707
7
chr5D.!!$R1
2680
3
TraesCS5A01G077600
chr6D
276901810
276903709
1899
False
628.050000
1371
92.341750
27
1949
4
chr6D.!!$F1
1922
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
894
3220
0.040336
TTCAGCACTCACGACGAGAC
60.04
55.0
0.0
5.36
45.45
3.36
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
2342
13407
0.250513
GATTCCCTGCGTCTCCAGTT
59.749
55.0
0.0
0.0
0.0
3.16
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
56
946
8.949177
CATGCTGTTAGGATGCATTAATATACA
58.051
33.333
0.00
0.70
43.85
2.29
81
971
6.291377
TCATAAGGCATGGAACTGTCTTATC
58.709
40.000
7.72
0.00
46.10
1.75
82
972
4.851639
AAGGCATGGAACTGTCTTATCT
57.148
40.909
0.00
0.00
39.23
1.98
83
973
5.957771
AAGGCATGGAACTGTCTTATCTA
57.042
39.130
0.00
0.00
39.23
1.98
217
1108
4.864334
GCCCAGAGATGCACCGGG
62.864
72.222
6.32
0.00
40.11
5.73
219
1110
3.790437
CCAGAGATGCACCGGGCT
61.790
66.667
6.32
0.00
45.15
5.19
310
2563
4.446371
CGCCAGGAAGAAGAAGATAATGT
58.554
43.478
0.00
0.00
0.00
2.71
518
2771
4.005650
TGAACTCATGGACAGAATGAAGC
58.994
43.478
0.00
0.00
39.69
3.86
521
2774
4.597004
ACTCATGGACAGAATGAAGCAAT
58.403
39.130
0.00
0.00
39.69
3.56
600
2854
7.493367
AGATTAGTGGAATGAACAGTACTAGC
58.507
38.462
0.00
0.00
0.00
3.42
604
2858
5.877012
AGTGGAATGAACAGTACTAGCATTG
59.123
40.000
16.90
0.00
30.06
2.82
608
2862
6.036517
GGAATGAACAGTACTAGCATTGTGAG
59.963
42.308
16.90
0.00
30.06
3.51
668
2950
2.664402
AAGTGACAGGCTTGGTGAAT
57.336
45.000
0.00
0.00
0.00
2.57
739
3026
2.991190
GTTCGTTCGATCAGGTGCTTAA
59.009
45.455
0.00
0.00
0.00
1.85
771
3058
4.323417
ACCGTGAGCAATATGAAAAGACA
58.677
39.130
0.00
0.00
0.00
3.41
778
3065
3.416277
CAATATGAAAAGACACGGTGCG
58.584
45.455
8.30
0.00
0.00
5.34
831
3118
4.510340
GGACTCACTTTGCTTTCTCGTTTA
59.490
41.667
0.00
0.00
0.00
2.01
894
3220
0.040336
TTCAGCACTCACGACGAGAC
60.040
55.000
0.00
5.36
45.45
3.36
896
3222
1.959738
AGCACTCACGACGAGACGA
60.960
57.895
0.00
0.00
45.45
4.20
897
3223
1.510204
GCACTCACGACGAGACGAG
60.510
63.158
0.00
4.42
45.45
4.18
898
3224
1.860759
CACTCACGACGAGACGAGT
59.139
57.895
0.00
5.07
45.45
4.18
899
3225
0.179245
CACTCACGACGAGACGAGTC
60.179
60.000
0.00
0.00
45.45
3.36
954
3287
0.925466
CGTCCGTTGAACGTCAAAGT
59.075
50.000
17.05
0.00
40.58
2.66
1213
3553
2.040606
TCTCCTTCCCCTTCCCGG
59.959
66.667
0.00
0.00
0.00
5.73
1234
12234
3.322466
CCTTCTGGTCCGGGCAGT
61.322
66.667
9.07
0.00
0.00
4.40
1389
12395
3.351416
GTGGGCGGGTTCAACGTC
61.351
66.667
0.00
0.00
34.75
4.34
1644
12650
2.343758
GTCGTCTTCTGCCAGCCA
59.656
61.111
0.00
0.00
0.00
4.75
1651
12657
1.945354
CTTCTGCCAGCCAGCAATGG
61.945
60.000
0.00
0.00
43.52
3.16
1652
12658
2.678934
CTGCCAGCCAGCAATGGT
60.679
61.111
0.00
0.00
43.52
3.55
1653
12659
2.677524
TGCCAGCCAGCAATGGTC
60.678
61.111
0.00
0.00
40.56
4.02
1654
12660
3.818787
GCCAGCCAGCAATGGTCG
61.819
66.667
0.52
0.00
38.91
4.79
1655
12661
2.046023
CCAGCCAGCAATGGTCGA
60.046
61.111
0.00
0.00
0.00
4.20
1656
12662
2.401766
CCAGCCAGCAATGGTCGAC
61.402
63.158
7.13
7.13
0.00
4.20
1710
12716
0.108186
TCGTCGCCGAGAACTAGGTA
60.108
55.000
0.00
0.00
38.40
3.08
1713
12719
1.099879
TCGCCGAGAACTAGGTAGCC
61.100
60.000
0.00
0.00
0.00
3.93
1722
12728
1.797320
ACTAGGTAGCCGGCCATTAA
58.203
50.000
26.15
5.40
0.00
1.40
1729
12735
1.448893
GCCGGCCATTAACGAGTGA
60.449
57.895
18.11
0.00
0.00
3.41
1736
12745
3.063997
GGCCATTAACGAGTGATGTTGAG
59.936
47.826
0.00
0.00
0.00
3.02
1821
12880
4.629092
CCCCTGAGATGCATATGATATCG
58.371
47.826
6.97
2.10
0.00
2.92
1862
12921
7.380333
TCAATGATCCGTTATTATCGTACACAC
59.620
37.037
0.00
0.00
0.00
3.82
1951
13011
4.014406
TCGAGCTACTATGTGGAGTGAAA
58.986
43.478
0.00
0.00
0.00
2.69
1955
13015
5.833082
AGCTACTATGTGGAGTGAAATACG
58.167
41.667
0.00
0.00
0.00
3.06
1961
13021
7.803724
ACTATGTGGAGTGAAATACGTTTTTC
58.196
34.615
20.41
20.41
36.38
2.29
1966
13026
8.030106
TGTGGAGTGAAATACGTTTTTCTTTTT
58.970
29.630
25.14
12.47
36.71
1.94
1994
13058
6.104439
TGAGAAGAATAACGAGTCGAGTAC
57.896
41.667
21.50
6.48
0.00
2.73
2006
13070
4.220572
GAGTCGAGTACAACAAGACAGAC
58.779
47.826
0.00
0.00
32.05
3.51
2015
13079
4.379243
AAGACAGACGCCCCGCAG
62.379
66.667
0.00
0.00
0.00
5.18
2023
13087
3.127533
CGCCCCGCAGAAGAAAGG
61.128
66.667
0.00
0.00
0.00
3.11
2024
13088
2.351276
GCCCCGCAGAAGAAAGGA
59.649
61.111
0.00
0.00
0.00
3.36
2025
13089
1.303317
GCCCCGCAGAAGAAAGGAA
60.303
57.895
0.00
0.00
0.00
3.36
2026
13090
1.308783
GCCCCGCAGAAGAAAGGAAG
61.309
60.000
0.00
0.00
0.00
3.46
2030
13094
2.485814
CCCGCAGAAGAAAGGAAGAAAG
59.514
50.000
0.00
0.00
0.00
2.62
2081
13145
3.262420
TCGAGTTAAAGAGAAGCATGGC
58.738
45.455
0.00
0.00
0.00
4.40
2083
13147
2.685388
GAGTTAAAGAGAAGCATGGCCC
59.315
50.000
0.00
0.00
0.00
5.80
2084
13148
1.401905
GTTAAAGAGAAGCATGGCCCG
59.598
52.381
0.00
0.00
0.00
6.13
2085
13149
0.618458
TAAAGAGAAGCATGGCCCGT
59.382
50.000
0.00
0.00
0.00
5.28
2086
13150
0.251341
AAAGAGAAGCATGGCCCGTT
60.251
50.000
0.00
0.00
0.00
4.44
2087
13151
0.678048
AAGAGAAGCATGGCCCGTTC
60.678
55.000
0.00
0.00
0.00
3.95
2088
13152
2.436646
AGAAGCATGGCCCGTTCG
60.437
61.111
0.00
0.00
0.00
3.95
2089
13153
2.746277
GAAGCATGGCCCGTTCGT
60.746
61.111
0.00
0.00
0.00
3.85
2090
13154
2.282180
AAGCATGGCCCGTTCGTT
60.282
55.556
0.00
0.00
0.00
3.85
2117
13181
4.483243
CGGGGGCTGCACGGTAAT
62.483
66.667
0.50
0.00
0.00
1.89
2158
13222
2.711542
CAACGAAAATCTGGGCCTACT
58.288
47.619
4.53
0.00
0.00
2.57
2159
13223
3.869065
CAACGAAAATCTGGGCCTACTA
58.131
45.455
4.53
0.00
0.00
1.82
2160
13224
3.538634
ACGAAAATCTGGGCCTACTAC
57.461
47.619
4.53
0.00
0.00
2.73
2171
13235
0.384669
GCCTACTACAACCTCGCGAT
59.615
55.000
10.36
0.00
0.00
4.58
2225
13289
8.647143
AAGATCGACAAAACAAATGTGATTTT
57.353
26.923
0.00
0.00
28.02
1.82
2264
13328
9.434420
ACAAATGTGATTTCTTTGTCTCAAAAA
57.566
25.926
0.00
0.00
38.38
1.94
2354
13420
2.831685
AATGTGTAACTGGAGACGCA
57.168
45.000
0.00
0.00
40.15
5.24
2409
13484
0.243907
CCATATGAGCTACGTCCCCG
59.756
60.000
3.65
0.00
40.83
5.73
2423
13498
2.422127
CGTCCCCGTTCTGCATTTAAAT
59.578
45.455
0.00
0.00
0.00
1.40
2427
13502
6.017770
CGTCCCCGTTCTGCATTTAAATTATA
60.018
38.462
0.00
0.00
0.00
0.98
2431
13506
9.541143
CCCCGTTCTGCATTTAAATTATATTTT
57.459
29.630
0.00
0.00
0.00
1.82
2461
13536
8.463930
TTTAATAAGAATAGGAATGTGCCCTG
57.536
34.615
0.00
0.00
35.30
4.45
2479
13558
3.612247
GAAAGGCCGCTGCAGAGGA
62.612
63.158
37.11
0.00
40.13
3.71
2489
13568
1.068679
GCTGCAGAGGAAAAGAGCAAC
60.069
52.381
20.43
0.00
34.45
4.17
2499
13578
0.951558
AAAGAGCAACGCGTTCCATT
59.048
45.000
23.92
9.63
0.00
3.16
2500
13579
0.517316
AAGAGCAACGCGTTCCATTC
59.483
50.000
23.92
16.16
0.00
2.67
2503
13582
1.792057
GCAACGCGTTCCATTCGTG
60.792
57.895
23.92
10.44
43.13
4.35
2518
13599
2.112380
TCGTGTGTGGGTATAGACGA
57.888
50.000
0.00
0.00
40.41
4.20
2537
13618
7.456684
AGACGATCTTTCATTATTCTTCGTG
57.543
36.000
0.00
0.00
38.54
4.35
2548
13629
8.956533
TCATTATTCTTCGTGATATTGACCAA
57.043
30.769
0.00
0.00
0.00
3.67
2553
13634
6.435430
TCTTCGTGATATTGACCAAATTGG
57.565
37.500
11.02
11.02
45.02
3.16
2574
13655
4.158949
TGGTCCTCATTTGCATTTCATGAG
59.841
41.667
14.44
14.44
42.47
2.90
2651
13732
4.268359
GACTCCTGCTCCAGAAAATGATT
58.732
43.478
0.00
0.00
32.44
2.57
2703
13784
1.202557
CCACCTGTGCTTTGCATGTTT
60.203
47.619
0.00
0.00
41.91
2.83
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
5
6
9.665719
TGCATGTGTTAGAAATAATTACTGAGA
57.334
29.630
0.00
0.00
0.00
3.27
8
9
8.961092
GCATGCATGTGTTAGAAATAATTACTG
58.039
33.333
26.79
0.00
0.00
2.74
9
10
8.906867
AGCATGCATGTGTTAGAAATAATTACT
58.093
29.630
26.79
7.07
0.00
2.24
10
11
8.961092
CAGCATGCATGTGTTAGAAATAATTAC
58.039
33.333
26.79
4.87
0.00
1.89
11
12
8.685427
ACAGCATGCATGTGTTAGAAATAATTA
58.315
29.630
26.79
0.00
42.53
1.40
12
13
7.549839
ACAGCATGCATGTGTTAGAAATAATT
58.450
30.769
26.79
2.59
42.53
1.40
13
14
7.104043
ACAGCATGCATGTGTTAGAAATAAT
57.896
32.000
26.79
3.03
42.53
1.28
14
15
6.513806
ACAGCATGCATGTGTTAGAAATAA
57.486
33.333
26.79
0.00
42.53
1.40
15
16
6.513806
AACAGCATGCATGTGTTAGAAATA
57.486
33.333
29.72
0.00
42.53
1.40
16
17
5.395682
AACAGCATGCATGTGTTAGAAAT
57.604
34.783
29.72
15.68
42.53
2.17
17
18
4.852134
AACAGCATGCATGTGTTAGAAA
57.148
36.364
29.72
0.00
42.53
2.52
18
19
4.395854
CCTAACAGCATGCATGTGTTAGAA
59.604
41.667
40.75
28.04
44.22
2.10
19
20
3.940852
CCTAACAGCATGCATGTGTTAGA
59.059
43.478
40.75
28.44
44.22
2.10
20
21
3.940852
TCCTAACAGCATGCATGTGTTAG
59.059
43.478
37.42
37.42
43.02
2.34
21
22
3.949132
TCCTAACAGCATGCATGTGTTA
58.051
40.909
30.80
30.80
42.53
2.41
22
23
2.794103
TCCTAACAGCATGCATGTGTT
58.206
42.857
31.48
31.48
42.53
3.32
23
24
2.495155
TCCTAACAGCATGCATGTGT
57.505
45.000
26.79
23.79
42.53
3.72
24
25
2.543031
GCATCCTAACAGCATGCATGTG
60.543
50.000
26.79
23.21
42.53
3.21
25
26
1.679680
GCATCCTAACAGCATGCATGT
59.320
47.619
26.79
17.58
42.53
3.21
54
944
4.080129
AGACAGTTCCATGCCTTATGATGT
60.080
41.667
0.00
0.00
39.21
3.06
56
946
4.785346
AGACAGTTCCATGCCTTATGAT
57.215
40.909
0.00
0.00
39.21
2.45
81
971
8.773645
TGCAATGAATCGATATTAAGTTGGTAG
58.226
33.333
0.00
0.00
0.00
3.18
82
972
8.669946
TGCAATGAATCGATATTAAGTTGGTA
57.330
30.769
0.00
0.00
0.00
3.25
83
973
7.566760
TGCAATGAATCGATATTAAGTTGGT
57.433
32.000
0.00
0.00
0.00
3.67
197
1088
1.452651
CGGTGCATCTCTGGGCATT
60.453
57.895
0.00
0.00
42.75
3.56
217
1108
0.098728
AAATGCAATGGCGTACGAGC
59.901
50.000
21.65
13.95
45.35
5.03
219
1110
2.590073
CAAAAATGCAATGGCGTACGA
58.410
42.857
21.65
0.00
45.35
3.43
310
2563
1.831106
TGCTTCCTTGCCGAGAAGATA
59.169
47.619
10.04
0.00
41.69
1.98
518
2771
2.029020
TCGGACTCACTGAGTGGAATTG
60.029
50.000
16.69
0.97
43.53
2.32
521
2774
1.546029
CATCGGACTCACTGAGTGGAA
59.454
52.381
16.69
1.85
43.53
3.53
600
2854
8.871862
TGAATTTCTGAAACAAAACTCACAATG
58.128
29.630
4.73
0.00
0.00
2.82
604
2858
7.463251
GCAGTGAATTTCTGAAACAAAACTCAC
60.463
37.037
4.73
10.71
35.20
3.51
608
2862
6.645700
TGCAGTGAATTTCTGAAACAAAAC
57.354
33.333
4.73
2.52
35.20
2.43
668
2950
3.056891
GGGAAAAGAATGCATCGGTTCAA
60.057
43.478
0.00
0.00
31.19
2.69
753
3040
4.154015
CACCGTGTCTTTTCATATTGCTCA
59.846
41.667
0.00
0.00
0.00
4.26
778
3065
4.237724
GCTAATTTCAAAACAGAGGCACC
58.762
43.478
0.00
0.00
0.00
5.01
831
3118
2.906389
TGATGCCTACTGTTCTGTTCCT
59.094
45.455
0.00
0.00
0.00
3.36
894
3220
2.571096
GCGACGTCGTCTGACTCG
60.571
66.667
35.48
11.35
43.21
4.18
954
3287
3.841137
TTTGCACTGCAGGGCGCTA
62.841
57.895
34.24
20.15
40.61
4.26
1269
12275
3.997064
CTTGCTCCCCGTCTCGCAG
62.997
68.421
0.00
0.00
33.48
5.18
1530
12536
1.745489
CTGCTTGAAGTACCCGGGC
60.745
63.158
24.08
4.85
0.00
6.13
1575
12581
4.680537
ACGGGCTCCCTGTCGACT
62.681
66.667
17.92
0.00
39.13
4.18
1644
12650
2.959372
TCGACGTCGACCATTGCT
59.041
55.556
34.97
0.00
44.22
3.91
1710
12716
1.449601
CACTCGTTAATGGCCGGCT
60.450
57.895
28.56
9.55
0.00
5.52
1713
12719
1.651987
ACATCACTCGTTAATGGCCG
58.348
50.000
0.00
0.00
0.00
6.13
1722
12728
1.337071
ACGTGTCTCAACATCACTCGT
59.663
47.619
0.00
0.00
37.81
4.18
1729
12735
5.401531
ACACCTTATACGTGTCTCAACAT
57.598
39.130
0.00
0.00
40.40
2.71
1736
12745
7.823149
ATTTTCACTACACCTTATACGTGTC
57.177
36.000
0.00
0.00
43.29
3.67
1792
12804
2.665000
CATCTCAGGGGCACACGT
59.335
61.111
0.00
0.00
0.00
4.49
1797
12809
1.437397
TCATATGCATCTCAGGGGCA
58.563
50.000
0.19
0.00
42.43
5.36
1798
12810
2.803030
ATCATATGCATCTCAGGGGC
57.197
50.000
0.19
0.00
0.00
5.80
1801
12813
4.974888
CGACGATATCATATGCATCTCAGG
59.025
45.833
0.19
0.00
0.00
3.86
1802
12814
5.576895
ACGACGATATCATATGCATCTCAG
58.423
41.667
0.19
0.00
0.00
3.35
1821
12880
5.107453
GGATCATTGACGATTCCATTACGAC
60.107
44.000
0.00
0.00
0.00
4.34
1967
13027
6.072618
ACTCGACTCGTTATTCTTCTCAAAGA
60.073
38.462
0.00
0.00
39.78
2.52
1968
13028
6.087522
ACTCGACTCGTTATTCTTCTCAAAG
58.912
40.000
0.00
0.00
0.00
2.77
1969
13029
6.010294
ACTCGACTCGTTATTCTTCTCAAA
57.990
37.500
0.00
0.00
0.00
2.69
1970
13030
5.624344
ACTCGACTCGTTATTCTTCTCAA
57.376
39.130
0.00
0.00
0.00
3.02
1971
13031
5.640783
TGTACTCGACTCGTTATTCTTCTCA
59.359
40.000
0.00
0.00
0.00
3.27
1972
13032
6.104439
TGTACTCGACTCGTTATTCTTCTC
57.896
41.667
0.00
0.00
0.00
2.87
1973
13033
6.072838
TGTTGTACTCGACTCGTTATTCTTCT
60.073
38.462
0.00
0.00
0.00
2.85
1974
13034
6.082338
TGTTGTACTCGACTCGTTATTCTTC
58.918
40.000
0.00
0.00
0.00
2.87
1975
13035
6.005583
TGTTGTACTCGACTCGTTATTCTT
57.994
37.500
0.00
0.00
0.00
2.52
1982
13042
2.615447
TGTCTTGTTGTACTCGACTCGT
59.385
45.455
0.00
0.00
0.00
4.18
1987
13047
2.603892
GCGTCTGTCTTGTTGTACTCGA
60.604
50.000
0.00
0.00
0.00
4.04
1994
13058
2.317609
CGGGGCGTCTGTCTTGTTG
61.318
63.158
0.00
0.00
0.00
3.33
2006
13070
3.127533
CCTTTCTTCTGCGGGGCG
61.128
66.667
0.00
0.00
0.00
6.13
2015
13079
7.694886
TCTCGTTTTTCTTTCTTCCTTTCTTC
58.305
34.615
0.00
0.00
0.00
2.87
2023
13087
5.107259
GCCTCTCTCTCGTTTTTCTTTCTTC
60.107
44.000
0.00
0.00
0.00
2.87
2024
13088
4.752604
GCCTCTCTCTCGTTTTTCTTTCTT
59.247
41.667
0.00
0.00
0.00
2.52
2025
13089
4.311606
GCCTCTCTCTCGTTTTTCTTTCT
58.688
43.478
0.00
0.00
0.00
2.52
2026
13090
3.122111
CGCCTCTCTCTCGTTTTTCTTTC
59.878
47.826
0.00
0.00
0.00
2.62
2030
13094
1.721926
CACGCCTCTCTCTCGTTTTTC
59.278
52.381
0.00
0.00
33.84
2.29
2060
13124
3.262420
GCCATGCTTCTCTTTAACTCGA
58.738
45.455
0.00
0.00
0.00
4.04
2063
13127
2.728007
GGGCCATGCTTCTCTTTAACT
58.272
47.619
4.39
0.00
0.00
2.24
2077
13141
2.030958
GAACGAACGAACGGGCCAT
61.031
57.895
4.39
0.00
37.61
4.40
2081
13145
1.007038
TGGAGAACGAACGAACGGG
60.007
57.895
0.14
0.00
37.61
5.28
2117
13181
2.117858
TGCCAGCCCAGCATTTCA
59.882
55.556
0.00
0.00
34.69
2.69
2136
13200
1.215382
GGCCCAGATTTTCGTTGCC
59.785
57.895
0.00
0.00
0.00
4.52
2158
13222
1.216977
CACCCATCGCGAGGTTGTA
59.783
57.895
20.35
0.00
32.72
2.41
2159
13223
2.047274
CACCCATCGCGAGGTTGT
60.047
61.111
20.35
13.33
32.72
3.32
2160
13224
2.819595
CCACCCATCGCGAGGTTG
60.820
66.667
20.35
15.95
32.72
3.77
2237
13301
7.990541
TTGAGACAAAGAAATCACATTTGTG
57.009
32.000
7.22
4.29
44.76
3.33
2268
13332
9.077885
GAAGAGAAGAAGATATCACATAGGAGT
57.922
37.037
5.32
0.00
0.00
3.85
2269
13333
8.522830
GGAAGAGAAGAAGATATCACATAGGAG
58.477
40.741
5.32
0.00
0.00
3.69
2270
13334
7.453126
GGGAAGAGAAGAAGATATCACATAGGA
59.547
40.741
5.32
0.00
0.00
2.94
2271
13335
7.310361
GGGGAAGAGAAGAAGATATCACATAGG
60.310
44.444
5.32
0.00
0.00
2.57
2272
13336
7.234371
TGGGGAAGAGAAGAAGATATCACATAG
59.766
40.741
5.32
0.00
0.00
2.23
2273
13337
7.075797
TGGGGAAGAGAAGAAGATATCACATA
58.924
38.462
5.32
0.00
0.00
2.29
2337
13402
0.317160
CCTGCGTCTCCAGTTACACA
59.683
55.000
0.00
0.00
0.00
3.72
2338
13403
0.389948
CCCTGCGTCTCCAGTTACAC
60.390
60.000
0.00
0.00
0.00
2.90
2339
13404
0.541063
TCCCTGCGTCTCCAGTTACA
60.541
55.000
0.00
0.00
0.00
2.41
2340
13405
0.606604
TTCCCTGCGTCTCCAGTTAC
59.393
55.000
0.00
0.00
0.00
2.50
2341
13406
1.480954
GATTCCCTGCGTCTCCAGTTA
59.519
52.381
0.00
0.00
0.00
2.24
2342
13407
0.250513
GATTCCCTGCGTCTCCAGTT
59.749
55.000
0.00
0.00
0.00
3.16
2354
13420
2.987125
CACGGGGTTCGATTCCCT
59.013
61.111
20.64
7.57
44.07
4.20
2436
13511
8.278639
TCAGGGCACATTCCTATTCTTATTAAA
58.721
33.333
0.00
0.00
32.49
1.52
2437
13512
7.811282
TCAGGGCACATTCCTATTCTTATTAA
58.189
34.615
0.00
0.00
32.49
1.40
2438
13513
7.387265
TCAGGGCACATTCCTATTCTTATTA
57.613
36.000
0.00
0.00
32.49
0.98
2439
13514
6.266131
TCAGGGCACATTCCTATTCTTATT
57.734
37.500
0.00
0.00
32.49
1.40
2440
13515
5.912149
TCAGGGCACATTCCTATTCTTAT
57.088
39.130
0.00
0.00
32.49
1.73
2441
13516
5.708736
TTCAGGGCACATTCCTATTCTTA
57.291
39.130
0.00
0.00
32.49
2.10
2442
13517
4.591321
TTCAGGGCACATTCCTATTCTT
57.409
40.909
0.00
0.00
32.49
2.52
2443
13518
4.530875
CTTTCAGGGCACATTCCTATTCT
58.469
43.478
0.00
0.00
32.49
2.40
2444
13519
3.633986
CCTTTCAGGGCACATTCCTATTC
59.366
47.826
0.00
0.00
32.49
1.75
2445
13520
3.635591
CCTTTCAGGGCACATTCCTATT
58.364
45.455
0.00
0.00
32.49
1.73
2446
13521
3.303351
CCTTTCAGGGCACATTCCTAT
57.697
47.619
0.00
0.00
32.49
2.57
2447
13522
2.806945
CCTTTCAGGGCACATTCCTA
57.193
50.000
0.00
0.00
32.49
2.94
2461
13536
3.130160
CCTCTGCAGCGGCCTTTC
61.130
66.667
10.36
0.00
40.13
2.62
2466
13541
1.642952
CTCTTTTCCTCTGCAGCGGC
61.643
60.000
18.27
0.31
41.68
6.53
2467
13542
1.642952
GCTCTTTTCCTCTGCAGCGG
61.643
60.000
16.99
16.99
0.00
5.52
2479
13558
0.951558
ATGGAACGCGTTGCTCTTTT
59.048
45.000
37.07
18.04
0.00
2.27
2489
13568
1.154672
CACACACGAATGGAACGCG
60.155
57.895
3.53
3.53
0.00
6.01
2499
13578
2.112380
TCGTCTATACCCACACACGA
57.888
50.000
0.00
0.00
34.08
4.35
2500
13579
2.617308
AGATCGTCTATACCCACACACG
59.383
50.000
0.00
0.00
0.00
4.49
2503
13582
5.258456
TGAAAGATCGTCTATACCCACAC
57.742
43.478
1.81
0.00
0.00
3.82
2548
13629
5.486735
TGAAATGCAAATGAGGACCAATT
57.513
34.783
0.00
0.00
0.00
2.32
2553
13634
5.571784
TCTCATGAAATGCAAATGAGGAC
57.428
39.130
21.87
0.36
46.21
3.85
2557
13638
8.007405
AGATGATTCTCATGAAATGCAAATGA
57.993
30.769
0.00
0.00
46.21
2.57
2558
13639
8.648557
AAGATGATTCTCATGAAATGCAAATG
57.351
30.769
0.00
0.00
46.21
2.32
2590
13671
1.080995
CGAGCACCTGAAGCTACTGC
61.081
60.000
0.00
0.00
43.58
4.40
2618
13699
3.567397
GAGCAGGAGTCCAGGATAAGTA
58.433
50.000
12.86
0.00
0.00
2.24
2651
13732
3.870538
ATAAGGAGCATGATTCAGGCA
57.129
42.857
23.61
4.52
43.99
4.75
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.