Multiple sequence alignment - TraesCS3B01G351800
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
TraesCS3B01G351800
chr3B
100.000
3184
0
0
1
3184
561589530
561592713
0.000000e+00
5880.0
1
TraesCS3B01G351800
chr3B
90.894
615
31
10
2590
3184
561840316
561840925
0.000000e+00
802.0
2
TraesCS3B01G351800
chr3B
93.617
188
12
0
2071
2258
561695142
561695329
6.720000e-72
281.0
3
TraesCS3B01G351800
chr3B
90.210
143
14
0
3040
3182
561039106
561038964
1.510000e-43
187.0
4
TraesCS3B01G351800
chr3B
89.404
151
13
1
3035
3182
561044761
561044611
1.510000e-43
187.0
5
TraesCS3B01G351800
chr3B
100.000
33
0
0
1
33
561571616
561571648
9.540000e-06
62.1
6
TraesCS3B01G351800
chr3A
93.505
2371
113
22
33
2373
556357195
556354836
0.000000e+00
3487.0
7
TraesCS3B01G351800
chr3A
85.016
634
46
19
2590
3182
556341132
556340507
1.630000e-167
599.0
8
TraesCS3B01G351800
chr3A
86.458
576
38
17
2629
3181
556354400
556353842
2.110000e-166
595.0
9
TraesCS3B01G351800
chr3A
78.523
447
46
31
2770
3182
556261163
556260733
6.820000e-62
248.0
10
TraesCS3B01G351800
chr3A
86.709
158
18
1
3028
3182
556678410
556678567
4.220000e-39
172.0
11
TraesCS3B01G351800
chr3A
82.114
123
12
3
2469
2584
556341326
556341207
2.610000e-16
97.1
12
TraesCS3B01G351800
chr3D
93.480
1365
61
11
904
2258
429632631
429633977
0.000000e+00
2002.0
13
TraesCS3B01G351800
chr3D
91.388
569
31
11
2630
3182
429636845
429637411
0.000000e+00
763.0
14
TraesCS3B01G351800
chr3D
79.455
550
49
40
2670
3182
429647108
429647630
6.580000e-87
331.0
15
TraesCS3B01G351800
chr3D
87.919
149
15
1
3033
3181
428994403
428994258
4.220000e-39
172.0
16
TraesCS3B01G351800
chr7B
87.281
857
101
6
53
904
580663278
580662425
0.000000e+00
972.0
17
TraesCS3B01G351800
chr1B
86.521
868
105
8
43
904
328644177
328645038
0.000000e+00
944.0
18
TraesCS3B01G351800
chr1B
100.000
32
0
0
1
32
60554261
60554230
3.430000e-05
60.2
19
TraesCS3B01G351800
chr2D
86.490
866
104
10
43
902
551154003
551154861
0.000000e+00
939.0
20
TraesCS3B01G351800
chr2D
85.948
854
108
9
34
881
493073673
493074520
0.000000e+00
902.0
21
TraesCS3B01G351800
chr5A
85.436
872
121
4
33
900
84148416
84147547
0.000000e+00
902.0
22
TraesCS3B01G351800
chr1D
85.402
870
121
4
33
899
484432362
484433228
0.000000e+00
898.0
23
TraesCS3B01G351800
chr7D
85.240
874
119
7
33
901
621300935
621300067
0.000000e+00
891.0
24
TraesCS3B01G351800
chr1A
85.240
874
115
9
33
902
342866311
342865448
0.000000e+00
887.0
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
TraesCS3B01G351800
chr3B
561589530
561592713
3183
False
5880.00
5880
100.0000
1
3184
1
chr3B.!!$F2
3183
1
TraesCS3B01G351800
chr3B
561840316
561840925
609
False
802.00
802
90.8940
2590
3184
1
chr3B.!!$F4
594
2
TraesCS3B01G351800
chr3A
556353842
556357195
3353
True
2041.00
3487
89.9815
33
3181
2
chr3A.!!$R3
3148
3
TraesCS3B01G351800
chr3A
556340507
556341326
819
True
348.05
599
83.5650
2469
3182
2
chr3A.!!$R2
713
4
TraesCS3B01G351800
chr3D
429632631
429637411
4780
False
1382.50
2002
92.4340
904
3182
2
chr3D.!!$F2
2278
5
TraesCS3B01G351800
chr3D
429647108
429647630
522
False
331.00
331
79.4550
2670
3182
1
chr3D.!!$F1
512
6
TraesCS3B01G351800
chr7B
580662425
580663278
853
True
972.00
972
87.2810
53
904
1
chr7B.!!$R1
851
7
TraesCS3B01G351800
chr1B
328644177
328645038
861
False
944.00
944
86.5210
43
904
1
chr1B.!!$F1
861
8
TraesCS3B01G351800
chr2D
551154003
551154861
858
False
939.00
939
86.4900
43
902
1
chr2D.!!$F2
859
9
TraesCS3B01G351800
chr2D
493073673
493074520
847
False
902.00
902
85.9480
34
881
1
chr2D.!!$F1
847
10
TraesCS3B01G351800
chr5A
84147547
84148416
869
True
902.00
902
85.4360
33
900
1
chr5A.!!$R1
867
11
TraesCS3B01G351800
chr1D
484432362
484433228
866
False
898.00
898
85.4020
33
899
1
chr1D.!!$F1
866
12
TraesCS3B01G351800
chr7D
621300067
621300935
868
True
891.00
891
85.2400
33
901
1
chr7D.!!$R1
868
13
TraesCS3B01G351800
chr1A
342865448
342866311
863
True
887.00
887
85.2400
33
902
1
chr1A.!!$R1
869
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
474
478
0.179029
GGTGGTACTTGGCGGCATAT
60.179
55.0
14.32
6.61
0.00
1.78
F
857
866
0.541296
AAAGAAGGCTGCATGCACCT
60.541
50.0
26.48
26.48
45.15
4.00
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
1635
1652
0.253044
GGAGCCATGTAGCCACTGAA
59.747
55.0
0.00
0.0
0.0
3.02
R
2726
5426
0.173255
GTGATTTTGACCGGGCATGG
59.827
55.0
13.08
0.0
0.0
3.66
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
29
30
8.824756
ACAGAAAGAGGACTATACACATCTAA
57.175
34.615
0.00
0.00
0.00
2.10
30
31
8.688151
ACAGAAAGAGGACTATACACATCTAAC
58.312
37.037
0.00
0.00
0.00
2.34
31
32
8.687242
CAGAAAGAGGACTATACACATCTAACA
58.313
37.037
0.00
0.00
0.00
2.41
40
41
5.939764
ATACACATCTAACAGGCTTGAGA
57.060
39.130
1.40
0.00
0.00
3.27
41
42
4.833478
ACACATCTAACAGGCTTGAGAT
57.167
40.909
1.40
0.00
0.00
2.75
109
110
0.252197
GGGAGACATAGTTGCCGGTT
59.748
55.000
1.90
0.00
0.00
4.44
149
150
4.704833
ATGGCGGCGTTCTGTGCT
62.705
61.111
9.37
0.00
0.00
4.40
446
450
5.126869
CAGATCTTCCAGAGACTTCAAGCTA
59.873
44.000
0.00
0.00
37.17
3.32
473
477
1.222387
GGTGGTACTTGGCGGCATA
59.778
57.895
14.32
0.00
0.00
3.14
474
478
0.179029
GGTGGTACTTGGCGGCATAT
60.179
55.000
14.32
6.61
0.00
1.78
599
604
4.002316
GGCAAGGATAATGCAGATCTCTC
58.998
47.826
10.35
0.00
45.60
3.20
662
669
6.270156
TCTTAACCGTATGTGTGATGTACA
57.730
37.500
0.00
0.00
36.82
2.90
765
772
4.128925
GTGAGAGCACTCCACATTATCA
57.871
45.455
8.77
0.00
41.84
2.15
769
777
4.511527
AGAGCACTCCACATTATCAAGTG
58.488
43.478
0.00
0.00
40.19
3.16
832
841
8.641498
ATTTCTTGTCAGACCTTGTTGAATAT
57.359
30.769
0.00
0.00
0.00
1.28
855
864
3.515330
AATAAAGAAGGCTGCATGCAC
57.485
42.857
18.46
13.69
45.15
4.57
857
866
0.541296
AAAGAAGGCTGCATGCACCT
60.541
50.000
26.48
26.48
45.15
4.00
1027
1041
2.493278
CAGGGCAACTTACCAAATGGAG
59.507
50.000
6.42
0.00
38.94
3.86
1040
1054
3.508762
CAAATGGAGAAGATGTTGCTGC
58.491
45.455
0.00
0.00
0.00
5.25
1179
1193
7.270779
ACGGGGAAGAAATGTTACTAATCTAC
58.729
38.462
0.00
0.00
0.00
2.59
1405
1420
0.976641
TCTCCACAAGCATTCTCGGT
59.023
50.000
0.00
0.00
0.00
4.69
1444
1459
3.181466
GGACCTGAAACCAAGCAACATTT
60.181
43.478
0.00
0.00
0.00
2.32
1447
1462
4.190772
CCTGAAACCAAGCAACATTTTGT
58.809
39.130
0.00
0.00
34.90
2.83
1449
1464
5.814705
CCTGAAACCAAGCAACATTTTGTTA
59.185
36.000
0.00
0.00
38.77
2.41
1553
1568
5.979288
AGAGTCGTTGGAACATAGTAAGT
57.021
39.130
0.00
0.00
39.30
2.24
1583
1598
9.952030
TCTATTGGTATTTGACATGTAAAGTGA
57.048
29.630
0.00
0.00
0.00
3.41
1588
1603
9.295825
TGGTATTTGACATGTAAAGTGAAAGAT
57.704
29.630
0.00
0.00
0.00
2.40
1590
1605
9.478019
GTATTTGACATGTAAAGTGAAAGATCG
57.522
33.333
0.00
0.00
0.00
3.69
1591
1606
5.530519
TGACATGTAAAGTGAAAGATCGC
57.469
39.130
0.00
0.00
36.28
4.58
1593
1608
6.394809
TGACATGTAAAGTGAAAGATCGCTA
58.605
36.000
0.00
0.00
45.53
4.26
1594
1609
7.041721
TGACATGTAAAGTGAAAGATCGCTAT
58.958
34.615
0.00
0.00
45.53
2.97
1595
1610
8.194769
TGACATGTAAAGTGAAAGATCGCTATA
58.805
33.333
0.00
0.00
45.53
1.31
1596
1611
8.354011
ACATGTAAAGTGAAAGATCGCTATAC
57.646
34.615
0.00
0.00
45.53
1.47
1597
1612
7.979537
ACATGTAAAGTGAAAGATCGCTATACA
59.020
33.333
0.00
0.00
45.53
2.29
1598
1613
7.987268
TGTAAAGTGAAAGATCGCTATACAG
57.013
36.000
0.00
0.00
45.53
2.74
1599
1614
7.768240
TGTAAAGTGAAAGATCGCTATACAGA
58.232
34.615
0.00
0.00
45.53
3.41
1652
1669
2.584835
TTTTCAGTGGCTACATGGCT
57.415
45.000
2.02
0.00
42.34
4.75
1655
1672
0.618680
TCAGTGGCTACATGGCTCCT
60.619
55.000
2.02
0.00
42.34
3.69
1713
1730
4.159135
CCGATGTATTTAGCTACGGGGTAT
59.841
45.833
8.43
0.00
36.08
2.73
1730
1747
4.446889
GGGGTATTGCTTCTGGAGATCATT
60.447
45.833
0.00
0.00
0.00
2.57
1801
1818
2.109834
TCCTTGGTCATGTGGGTCAAAT
59.890
45.455
0.00
0.00
0.00
2.32
1818
1835
5.759763
GGTCAAATTTCCAACAAGCTCAAAT
59.240
36.000
0.00
0.00
0.00
2.32
1827
1844
6.680810
TCCAACAAGCTCAAATTGTTCTATG
58.319
36.000
1.29
0.00
45.33
2.23
1833
1850
8.025445
ACAAGCTCAAATTGTTCTATGATTGTC
58.975
33.333
0.00
0.00
37.61
3.18
1846
1863
9.309516
GTTCTATGATTGTCGTACCTGATTTTA
57.690
33.333
0.00
0.00
0.00
1.52
1847
1864
9.878667
TTCTATGATTGTCGTACCTGATTTTAA
57.121
29.630
0.00
0.00
0.00
1.52
1964
1981
4.202441
GTGCATGTCCTGAGAATATGGTT
58.798
43.478
0.00
0.00
0.00
3.67
1989
2006
4.166011
GCATTCACGTCGGCCTGC
62.166
66.667
0.00
0.00
0.00
4.85
2060
2077
9.274065
GTCATTTCCATGATTACTAACGAAAAC
57.726
33.333
0.00
0.00
41.64
2.43
2188
2205
2.628657
GCCTGGATGGTAGGTAGTACTG
59.371
54.545
5.39
0.00
37.64
2.74
2254
2278
4.020307
TGTTCAGGCAACAGAGTATCATGA
60.020
41.667
0.00
0.00
40.29
3.07
2258
2282
7.071069
TCAGGCAACAGAGTATCATGATATT
57.929
36.000
18.18
14.22
37.82
1.28
2344
3775
4.098894
AGTAAGACGGTATTTTCAGGGGA
58.901
43.478
0.00
0.00
0.00
4.81
2346
3777
4.376225
AAGACGGTATTTTCAGGGGAAA
57.624
40.909
0.00
0.00
41.13
3.13
2351
3782
3.190535
CGGTATTTTCAGGGGAAACTGTG
59.809
47.826
0.00
0.00
42.48
3.66
2357
3788
0.890683
CAGGGGAAACTGTGATTGGC
59.109
55.000
0.00
0.00
33.81
4.52
2373
3804
9.537192
CTGTGATTGGCATATTTTGACATATTT
57.463
29.630
0.00
0.00
44.92
1.40
2374
3805
9.887629
TGTGATTGGCATATTTTGACATATTTT
57.112
25.926
0.00
0.00
44.92
1.82
2378
4215
8.945481
TTGGCATATTTTGACATATTTTCAGG
57.055
30.769
0.00
0.00
44.92
3.86
2380
4217
6.930722
GGCATATTTTGACATATTTTCAGGGG
59.069
38.462
0.00
0.00
31.51
4.79
2388
4225
2.806945
TATTTTCAGGGGGAGCTGTG
57.193
50.000
0.00
0.00
0.00
3.66
2394
4231
1.927527
AGGGGGAGCTGTGATTGCT
60.928
57.895
0.00
0.00
44.24
3.91
2395
4232
0.621571
AGGGGGAGCTGTGATTGCTA
60.622
55.000
0.00
0.00
41.30
3.49
2398
4235
2.551071
GGGGGAGCTGTGATTGCTATAC
60.551
54.545
0.00
0.00
41.30
1.47
2401
4238
2.805099
GGAGCTGTGATTGCTATACTGC
59.195
50.000
0.00
0.00
41.30
4.40
2402
4239
2.474359
GAGCTGTGATTGCTATACTGCG
59.526
50.000
0.00
0.00
41.99
5.18
2404
4241
2.609459
GCTGTGATTGCTATACTGCGTT
59.391
45.455
0.00
0.00
35.36
4.84
2405
4242
3.302740
GCTGTGATTGCTATACTGCGTTC
60.303
47.826
0.00
0.00
35.36
3.95
2406
4243
2.857748
TGTGATTGCTATACTGCGTTCG
59.142
45.455
0.00
0.00
35.36
3.95
2407
4244
2.858344
GTGATTGCTATACTGCGTTCGT
59.142
45.455
0.00
0.00
35.36
3.85
2408
4245
2.857748
TGATTGCTATACTGCGTTCGTG
59.142
45.455
0.00
0.00
35.36
4.35
2409
4246
0.996462
TTGCTATACTGCGTTCGTGC
59.004
50.000
0.00
0.00
35.36
5.34
2410
4247
0.804544
TGCTATACTGCGTTCGTGCC
60.805
55.000
0.00
0.00
35.36
5.01
2412
4249
0.921347
CTATACTGCGTTCGTGCCAC
59.079
55.000
0.00
0.00
0.00
5.01
2426
4563
0.881159
TGCCACCTTTTCCGTACACG
60.881
55.000
0.00
0.00
39.44
4.49
2446
4583
1.346365
GCTGCGTTCTCGTGTGATTA
58.654
50.000
0.00
0.00
39.49
1.75
2447
4584
1.059264
GCTGCGTTCTCGTGTGATTAC
59.941
52.381
0.00
0.00
39.49
1.89
2449
4586
2.324860
TGCGTTCTCGTGTGATTACAG
58.675
47.619
0.00
0.00
37.52
2.74
2481
5090
9.832445
TTCTTTTTCTATCACTGAACTACACTT
57.168
29.630
0.00
0.00
0.00
3.16
2504
5113
2.603412
CCGCACAGATCGAGAGTGATAC
60.603
54.545
16.05
1.43
35.33
2.24
2505
5114
2.289274
CGCACAGATCGAGAGTGATACT
59.711
50.000
16.05
0.00
35.33
2.12
2506
5115
3.626977
GCACAGATCGAGAGTGATACTG
58.373
50.000
16.05
0.00
35.33
2.74
2532
5141
2.228822
ACAATCGCATTTCACACCTTCC
59.771
45.455
0.00
0.00
0.00
3.46
2542
5151
6.587608
GCATTTCACACCTTCCTTTTCTTATG
59.412
38.462
0.00
0.00
0.00
1.90
2543
5152
7.661040
CATTTCACACCTTCCTTTTCTTATGT
58.339
34.615
0.00
0.00
0.00
2.29
2547
5163
8.934023
TCACACCTTCCTTTTCTTATGTAAAT
57.066
30.769
0.00
0.00
0.00
1.40
2576
5192
0.721718
GATCTGTGTACAGGTTGCGC
59.278
55.000
11.76
0.00
43.91
6.09
2579
5195
1.568612
CTGTGTACAGGTTGCGCAGG
61.569
60.000
11.31
4.45
40.20
4.85
2621
5311
5.017490
CCTACTGTCCTCTCTCCTTTGTTA
58.983
45.833
0.00
0.00
0.00
2.41
2624
5314
2.561419
TGTCCTCTCTCCTTTGTTACGG
59.439
50.000
0.00
0.00
0.00
4.02
2639
5329
2.288961
TACGGTCGATTCCTTCTTGC
57.711
50.000
0.00
0.00
0.00
4.01
2753
5454
1.442017
GTCAAAATCACACGGCGGC
60.442
57.895
13.24
0.00
0.00
6.53
2835
5540
3.551846
CCGGCCTGTAAATGTTAGGAAT
58.448
45.455
0.00
0.00
33.33
3.01
2868
5577
1.662629
CCGTTCTCAGCATAAGCAGTG
59.337
52.381
0.00
0.00
45.49
3.66
2899
5608
3.379445
GGACGCCGTCTCCAAGGA
61.379
66.667
17.76
0.00
32.47
3.36
3142
5898
3.554692
GCCGACGCCAAGATCACG
61.555
66.667
0.00
0.00
0.00
4.35
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
3
4
9.916360
TTAGATGTGTATAGTCCTCTTTCTGTA
57.084
33.333
0.00
0.00
0.00
2.74
4
5
8.688151
GTTAGATGTGTATAGTCCTCTTTCTGT
58.312
37.037
0.00
0.00
0.00
3.41
5
6
8.687242
TGTTAGATGTGTATAGTCCTCTTTCTG
58.313
37.037
0.00
0.00
0.00
3.02
6
7
8.824756
TGTTAGATGTGTATAGTCCTCTTTCT
57.175
34.615
0.00
0.00
0.00
2.52
7
8
8.138712
CCTGTTAGATGTGTATAGTCCTCTTTC
58.861
40.741
0.00
0.00
0.00
2.62
8
9
7.418025
GCCTGTTAGATGTGTATAGTCCTCTTT
60.418
40.741
0.00
0.00
0.00
2.52
9
10
6.041069
GCCTGTTAGATGTGTATAGTCCTCTT
59.959
42.308
0.00
0.00
0.00
2.85
10
11
5.536916
GCCTGTTAGATGTGTATAGTCCTCT
59.463
44.000
0.00
0.00
0.00
3.69
11
12
5.536916
AGCCTGTTAGATGTGTATAGTCCTC
59.463
44.000
0.00
0.00
0.00
3.71
12
13
5.459505
AGCCTGTTAGATGTGTATAGTCCT
58.540
41.667
0.00
0.00
0.00
3.85
13
14
5.793030
AGCCTGTTAGATGTGTATAGTCC
57.207
43.478
0.00
0.00
0.00
3.85
14
15
6.806751
TCAAGCCTGTTAGATGTGTATAGTC
58.193
40.000
0.00
0.00
0.00
2.59
15
16
6.607600
TCTCAAGCCTGTTAGATGTGTATAGT
59.392
38.462
0.00
0.00
0.00
2.12
16
17
7.043961
TCTCAAGCCTGTTAGATGTGTATAG
57.956
40.000
0.00
0.00
0.00
1.31
17
18
7.603180
ATCTCAAGCCTGTTAGATGTGTATA
57.397
36.000
0.00
0.00
0.00
1.47
18
19
5.939764
TCTCAAGCCTGTTAGATGTGTAT
57.060
39.130
0.00
0.00
0.00
2.29
19
20
5.939764
ATCTCAAGCCTGTTAGATGTGTA
57.060
39.130
0.00
0.00
0.00
2.90
20
21
4.833478
ATCTCAAGCCTGTTAGATGTGT
57.167
40.909
0.00
0.00
0.00
3.72
21
22
4.334759
CCAATCTCAAGCCTGTTAGATGTG
59.665
45.833
0.00
0.00
0.00
3.21
22
23
4.521146
CCAATCTCAAGCCTGTTAGATGT
58.479
43.478
0.00
0.00
0.00
3.06
23
24
3.881688
CCCAATCTCAAGCCTGTTAGATG
59.118
47.826
0.00
0.00
0.00
2.90
24
25
3.525199
ACCCAATCTCAAGCCTGTTAGAT
59.475
43.478
0.00
0.00
0.00
1.98
25
26
2.912956
ACCCAATCTCAAGCCTGTTAGA
59.087
45.455
0.00
0.00
0.00
2.10
26
27
3.012518
CACCCAATCTCAAGCCTGTTAG
58.987
50.000
0.00
0.00
0.00
2.34
27
28
2.375174
ACACCCAATCTCAAGCCTGTTA
59.625
45.455
0.00
0.00
0.00
2.41
28
29
1.145738
ACACCCAATCTCAAGCCTGTT
59.854
47.619
0.00
0.00
0.00
3.16
29
30
0.773644
ACACCCAATCTCAAGCCTGT
59.226
50.000
0.00
0.00
0.00
4.00
30
31
1.815003
GAACACCCAATCTCAAGCCTG
59.185
52.381
0.00
0.00
0.00
4.85
31
32
1.611673
CGAACACCCAATCTCAAGCCT
60.612
52.381
0.00
0.00
0.00
4.58
40
41
0.178068
CCGAGATCCGAACACCCAAT
59.822
55.000
5.32
0.00
41.76
3.16
41
42
1.594833
CCGAGATCCGAACACCCAA
59.405
57.895
5.32
0.00
41.76
4.12
109
110
4.211986
GCCATCGGCTCGGTTTTA
57.788
55.556
0.00
0.00
46.69
1.52
411
415
1.534175
GGAAGATCTGTCGTGCGTAGG
60.534
57.143
0.00
0.00
0.00
3.18
446
450
0.036388
CAAGTACCACCAGCCGACAT
60.036
55.000
0.00
0.00
0.00
3.06
473
477
1.596934
CGGTACACCTCAGCACCAT
59.403
57.895
0.00
0.00
0.00
3.55
474
478
2.579657
CCGGTACACCTCAGCACCA
61.580
63.158
0.00
0.00
0.00
4.17
599
604
0.179089
CGCTGACCCATCTTCAGGAG
60.179
60.000
1.76
0.00
40.84
3.69
626
631
2.024414
GGTTAAGAAGGCGCCATCATT
58.976
47.619
31.30
22.91
0.00
2.57
662
669
4.546829
TCCGGTGTAGCAAATCTAAAGT
57.453
40.909
0.00
0.00
0.00
2.66
765
772
2.116238
ACCACTCACACCTACACACTT
58.884
47.619
0.00
0.00
0.00
3.16
769
777
0.602905
GCCACCACTCACACCTACAC
60.603
60.000
0.00
0.00
0.00
2.90
832
841
5.410067
GTGCATGCAGCCTTCTTTATTAAA
58.590
37.500
23.41
0.00
44.83
1.52
855
864
0.604780
CCCGCCTCTGCATCAATAGG
60.605
60.000
0.00
0.00
37.32
2.57
857
866
1.451504
CCCCGCCTCTGCATCAATA
59.548
57.895
0.00
0.00
37.32
1.90
972
986
6.203530
TGTCAGATTTTCAACAGTCAGACATC
59.796
38.462
2.66
0.00
33.87
3.06
1027
1041
4.502962
AGTCTCTTAGCAGCAACATCTTC
58.497
43.478
0.00
0.00
0.00
2.87
1040
1054
3.928992
TGAATTCGCTGCAAGTCTCTTAG
59.071
43.478
0.00
0.00
35.30
2.18
1179
1193
5.235305
AGCTTTTGTTTGGCATATACTCG
57.765
39.130
0.00
0.00
0.00
4.18
1405
1420
5.250543
TCAGGTCCCTGTGAATAATTCTCAA
59.749
40.000
12.88
0.00
43.96
3.02
1444
1459
6.620877
AGGGTTCATATCAGTGTCTAACAA
57.379
37.500
0.00
0.00
0.00
2.83
1447
1462
8.783660
ATCTTAGGGTTCATATCAGTGTCTAA
57.216
34.615
0.00
0.00
0.00
2.10
1449
1464
7.072562
AGATCTTAGGGTTCATATCAGTGTCT
58.927
38.462
0.00
0.00
0.00
3.41
1570
1585
5.786401
AGCGATCTTTCACTTTACATGTC
57.214
39.130
0.00
0.00
0.00
3.06
1583
1598
7.047891
TGTCCATTTTCTGTATAGCGATCTTT
58.952
34.615
0.00
0.00
0.00
2.52
1588
1603
4.982295
CGATGTCCATTTTCTGTATAGCGA
59.018
41.667
0.00
0.00
0.00
4.93
1590
1605
6.844696
TTCGATGTCCATTTTCTGTATAGC
57.155
37.500
0.00
0.00
0.00
2.97
1593
1608
9.396022
AGTAAATTCGATGTCCATTTTCTGTAT
57.604
29.630
0.00
0.00
0.00
2.29
1594
1609
8.786826
AGTAAATTCGATGTCCATTTTCTGTA
57.213
30.769
0.00
0.00
0.00
2.74
1595
1610
7.687941
AGTAAATTCGATGTCCATTTTCTGT
57.312
32.000
0.00
0.00
0.00
3.41
1596
1611
9.098355
TCTAGTAAATTCGATGTCCATTTTCTG
57.902
33.333
8.20
1.84
0.00
3.02
1597
1612
9.838339
ATCTAGTAAATTCGATGTCCATTTTCT
57.162
29.630
0.00
1.76
0.00
2.52
1635
1652
0.253044
GGAGCCATGTAGCCACTGAA
59.747
55.000
0.00
0.00
0.00
3.02
1636
1653
0.618680
AGGAGCCATGTAGCCACTGA
60.619
55.000
0.00
0.00
0.00
3.41
1713
1730
4.471025
TCCACTAATGATCTCCAGAAGCAA
59.529
41.667
0.00
0.00
0.00
3.91
1730
1747
2.235155
TGCGGCATTTCTTAGTCCACTA
59.765
45.455
0.00
0.00
0.00
2.74
1790
1807
3.431486
GCTTGTTGGAAATTTGACCCACA
60.431
43.478
0.00
0.00
31.54
4.17
1801
1818
5.976458
AGAACAATTTGAGCTTGTTGGAAA
58.024
33.333
5.48
0.00
44.56
3.13
1818
1835
6.275494
TCAGGTACGACAATCATAGAACAA
57.725
37.500
0.00
0.00
0.00
2.83
1852
1869
9.561069
AAGTTCAGTTGTAGACATCAAATTACT
57.439
29.630
0.00
0.00
0.00
2.24
1867
1884
1.473258
TGCCTGCAAAGTTCAGTTGT
58.527
45.000
0.00
0.00
0.00
3.32
1964
1981
1.533129
CCGACGTGAATGCATCGTAGA
60.533
52.381
17.15
0.00
45.75
2.59
1989
2006
0.445436
GCATTCTCCTGAACGCACAG
59.555
55.000
2.97
2.97
40.62
3.66
2188
2205
9.982651
TGTAACACTCTTTATCTAATGGATAGC
57.017
33.333
0.00
0.00
38.07
2.97
2254
2278
8.806146
ACTTCAAAAGTGCTGTCCAATTAATAT
58.194
29.630
0.00
0.00
41.01
1.28
2344
3775
6.757237
TGTCAAAATATGCCAATCACAGTTT
58.243
32.000
0.00
0.00
0.00
2.66
2346
3777
5.981088
TGTCAAAATATGCCAATCACAGT
57.019
34.783
0.00
0.00
0.00
3.55
2357
3788
8.248904
TCCCCCTGAAAATATGTCAAAATATG
57.751
34.615
0.00
0.00
0.00
1.78
2373
3804
0.329261
CAATCACAGCTCCCCCTGAA
59.671
55.000
0.00
0.00
36.67
3.02
2374
3805
1.993653
CAATCACAGCTCCCCCTGA
59.006
57.895
0.00
0.00
36.67
3.86
2375
3806
1.751927
GCAATCACAGCTCCCCCTG
60.752
63.158
0.00
0.00
38.78
4.45
2378
4215
2.370189
AGTATAGCAATCACAGCTCCCC
59.630
50.000
0.00
0.00
42.32
4.81
2380
4217
2.805099
GCAGTATAGCAATCACAGCTCC
59.195
50.000
0.00
0.00
42.32
4.70
2388
4225
2.347661
GCACGAACGCAGTATAGCAATC
60.348
50.000
0.00
0.00
45.00
2.67
2394
4231
0.458889
GGTGGCACGAACGCAGTATA
60.459
55.000
12.17
0.00
45.00
1.47
2395
4232
1.740296
GGTGGCACGAACGCAGTAT
60.740
57.895
12.17
0.00
45.00
2.12
2398
4235
2.058829
AAAAGGTGGCACGAACGCAG
62.059
55.000
12.17
0.00
0.00
5.18
2401
4238
1.281656
GGAAAAGGTGGCACGAACG
59.718
57.895
12.17
0.00
0.00
3.95
2402
4239
1.281656
CGGAAAAGGTGGCACGAAC
59.718
57.895
12.17
0.00
0.00
3.95
2404
4241
0.600782
GTACGGAAAAGGTGGCACGA
60.601
55.000
12.17
0.00
0.00
4.35
2405
4242
0.881159
TGTACGGAAAAGGTGGCACG
60.881
55.000
12.17
0.15
0.00
5.34
2406
4243
0.589708
GTGTACGGAAAAGGTGGCAC
59.410
55.000
9.70
9.70
0.00
5.01
2407
4244
0.881159
CGTGTACGGAAAAGGTGGCA
60.881
55.000
0.00
0.00
35.37
4.92
2408
4245
1.864176
CGTGTACGGAAAAGGTGGC
59.136
57.895
0.00
0.00
35.37
5.01
2426
4563
1.291877
AATCACACGAGAACGCAGCC
61.292
55.000
0.00
0.00
43.96
4.85
2446
4583
9.396022
TCAGTGATAGAAAAAGAAGAAAACTGT
57.604
29.630
0.00
0.00
33.58
3.55
2467
4604
2.729882
GTGCGGTAAGTGTAGTTCAGTG
59.270
50.000
0.00
0.00
0.00
3.66
2481
5090
0.733150
CACTCTCGATCTGTGCGGTA
59.267
55.000
0.00
0.00
0.00
4.02
2504
5113
3.236816
GTGAAATGCGATTGTTGTCCAG
58.763
45.455
0.00
0.00
0.00
3.86
2505
5114
2.620585
TGTGAAATGCGATTGTTGTCCA
59.379
40.909
0.00
0.00
0.00
4.02
2506
5115
2.979813
GTGTGAAATGCGATTGTTGTCC
59.020
45.455
0.00
0.00
0.00
4.02
2547
5163
6.427441
ACCTGTACACAGATCAGAGAGATTA
58.573
40.000
10.96
0.00
46.59
1.75
2579
5195
0.527385
GATCAGAGAGACAGGCACGC
60.527
60.000
0.00
0.00
0.00
5.34
2584
5200
3.882888
GACAGTAGGATCAGAGAGACAGG
59.117
52.174
0.00
0.00
0.00
4.00
2586
5202
3.525609
AGGACAGTAGGATCAGAGAGACA
59.474
47.826
0.00
0.00
0.00
3.41
2587
5203
4.134563
GAGGACAGTAGGATCAGAGAGAC
58.865
52.174
0.00
0.00
0.00
3.36
2588
5204
4.044308
AGAGGACAGTAGGATCAGAGAGA
58.956
47.826
0.00
0.00
0.00
3.10
2621
5311
0.608640
AGCAAGAAGGAATCGACCGT
59.391
50.000
0.00
0.00
34.73
4.83
2624
5314
2.933260
GGAGAAGCAAGAAGGAATCGAC
59.067
50.000
0.00
0.00
0.00
4.20
2639
5329
1.287730
GCGCAGTGACAGTGGAGAAG
61.288
60.000
12.19
0.00
0.00
2.85
2698
5388
1.670811
CACTCACGTTGCTCACCTTTT
59.329
47.619
0.00
0.00
0.00
2.27
2702
5392
1.860676
TTACACTCACGTTGCTCACC
58.139
50.000
0.00
0.00
0.00
4.02
2726
5426
0.173255
GTGATTTTGACCGGGCATGG
59.827
55.000
13.08
0.00
0.00
3.66
2727
5427
0.887247
TGTGATTTTGACCGGGCATG
59.113
50.000
13.08
0.00
0.00
4.06
2753
5454
7.277981
ACTGCTTTGTACTGTAATATTCTTCGG
59.722
37.037
0.00
0.00
0.00
4.30
2835
5540
2.829120
TGAGAACGGTATGGACATGTCA
59.171
45.455
26.47
13.45
0.00
3.58
2868
5577
3.790177
GTCCAATGTACGGGCGAC
58.210
61.111
0.00
0.00
0.00
5.19
2899
5608
1.224592
GTGGAGATTCCGGCCATGT
59.775
57.895
2.24
0.00
40.17
3.21
3135
5891
4.479993
GCAGCTGCCCCGTGATCT
62.480
66.667
28.76
0.00
34.31
2.75
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.