Multiple sequence alignment - TraesCS1D01G224200
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
TraesCS1D01G224200
chr1D
100.000
2696
0
0
1
2696
312665373
312668068
0.000000e+00
4979.0
1
TraesCS1D01G224200
chr1B
95.241
1723
45
13
700
2420
423111137
423112824
0.000000e+00
2693.0
2
TraesCS1D01G224200
chr1B
87.080
387
32
9
122
495
423084327
423084708
3.210000e-114
422.0
3
TraesCS1D01G224200
chr1B
89.286
224
24
0
2473
2696
423113151
423113374
5.680000e-72
281.0
4
TraesCS1D01G224200
chr1B
100.000
29
0
0
672
700
423085230
423085258
1.000000e-03
54.7
5
TraesCS1D01G224200
chr1A
96.779
1366
41
2
700
2062
392481178
392482543
0.000000e+00
2276.0
6
TraesCS1D01G224200
chr1A
85.714
518
46
13
1
505
392479761
392480263
3.080000e-144
521.0
7
TraesCS1D01G224200
chr1A
91.413
361
27
2
2336
2696
392482895
392483251
2.410000e-135
492.0
8
TraesCS1D01G224200
chr1A
100.000
37
0
0
664
700
392481102
392481138
4.820000e-08
69.4
9
TraesCS1D01G224200
chr4B
88.372
215
20
3
1593
1803
23323227
23323440
1.240000e-63
254.0
10
TraesCS1D01G224200
chr4B
85.714
175
16
6
497
663
629770561
629770734
2.760000e-40
176.0
11
TraesCS1D01G224200
chr3D
89.677
155
12
2
513
663
458309711
458309865
7.620000e-46
195.0
12
TraesCS1D01G224200
chr3D
88.816
152
12
4
516
663
508202188
508202038
5.930000e-42
182.0
13
TraesCS1D01G224200
chr7D
87.500
176
10
8
494
663
45193472
45193641
2.740000e-45
193.0
14
TraesCS1D01G224200
chr3A
89.103
156
12
3
513
663
733479376
733479531
3.540000e-44
189.0
15
TraesCS1D01G224200
chr6D
87.425
167
16
3
502
663
388554259
388554093
1.270000e-43
187.0
16
TraesCS1D01G224200
chr5D
88.535
157
12
4
513
663
531900278
531900434
4.580000e-43
185.0
17
TraesCS1D01G224200
chr2B
88.462
156
13
3
512
663
20705391
20705237
1.650000e-42
183.0
18
TraesCS1D01G224200
chr2B
87.500
64
8
0
438
501
90200339
90200402
1.040000e-09
75.0
19
TraesCS1D01G224200
chr7B
85.057
174
19
5
496
663
37102789
37102961
1.280000e-38
171.0
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
TraesCS1D01G224200
chr1D
312665373
312668068
2695
False
4979.00
4979
100.0000
1
2696
1
chr1D.!!$F1
2695
1
TraesCS1D01G224200
chr1B
423111137
423113374
2237
False
1487.00
2693
92.2635
700
2696
2
chr1B.!!$F2
1996
2
TraesCS1D01G224200
chr1B
423084327
423085258
931
False
238.35
422
93.5400
122
700
2
chr1B.!!$F1
578
3
TraesCS1D01G224200
chr1A
392479761
392483251
3490
False
839.60
2276
93.4765
1
2696
4
chr1A.!!$F1
2695
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
410
424
0.034089
GGCAGGGTGGACATTTAGCT
60.034
55.0
0.0
0.0
0.0
3.32
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
2285
3150
0.16747
TGACTCGCTAGAAACGGTCG
59.833
55.0
0.0
0.0
35.12
4.79
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
3.574284
TCAACAATGCCATTAGTGCAC
57.426
42.857
9.40
9.40
42.38
4.57
22
23
4.331108
TCAACAATGCCATTAGTGCACTA
58.669
39.130
22.67
22.67
42.38
2.74
29
30
2.945008
GCCATTAGTGCACTATTGAGCA
59.055
45.455
34.41
19.35
37.44
4.26
37
38
1.602851
GCACTATTGAGCATGCTCTGG
59.397
52.381
39.46
27.60
43.12
3.86
46
47
0.452987
GCATGCTCTGGCGATTTCAA
59.547
50.000
11.37
0.00
42.25
2.69
47
48
1.066605
GCATGCTCTGGCGATTTCAAT
59.933
47.619
11.37
0.00
42.25
2.57
53
54
3.549625
GCTCTGGCGATTTCAATGATTCC
60.550
47.826
0.00
0.00
0.00
3.01
57
58
2.035066
GGCGATTTCAATGATTCCAGGG
59.965
50.000
0.00
0.00
0.00
4.45
66
67
2.875102
TGATTCCAGGGATGAGGAGA
57.125
50.000
0.00
0.00
34.91
3.71
67
68
2.687297
TGATTCCAGGGATGAGGAGAG
58.313
52.381
0.00
0.00
34.91
3.20
68
69
1.977129
GATTCCAGGGATGAGGAGAGG
59.023
57.143
0.00
0.00
34.91
3.69
69
70
0.719015
TTCCAGGGATGAGGAGAGGT
59.281
55.000
0.00
0.00
34.91
3.85
70
71
0.719015
TCCAGGGATGAGGAGAGGTT
59.281
55.000
0.00
0.00
0.00
3.50
71
72
1.081174
TCCAGGGATGAGGAGAGGTTT
59.919
52.381
0.00
0.00
0.00
3.27
72
73
1.918957
CCAGGGATGAGGAGAGGTTTT
59.081
52.381
0.00
0.00
0.00
2.43
73
74
2.310052
CCAGGGATGAGGAGAGGTTTTT
59.690
50.000
0.00
0.00
0.00
1.94
90
91
2.861462
TTTTTGAGAGGTTTGCCACG
57.139
45.000
0.00
0.00
37.19
4.94
108
109
1.228769
GGTCCAGGGGTGGGTTTTC
60.229
63.158
0.00
0.00
0.00
2.29
109
110
1.602605
GTCCAGGGGTGGGTTTTCG
60.603
63.158
0.00
0.00
0.00
3.46
110
111
2.079911
TCCAGGGGTGGGTTTTCGT
61.080
57.895
0.00
0.00
0.00
3.85
133
134
0.038166
GTCTTGGTGCTGGGGATCAA
59.962
55.000
0.00
0.00
0.00
2.57
224
227
6.057321
AGCAATGATTTGGGTCAAATTGAT
57.943
33.333
0.00
0.21
43.05
2.57
233
236
2.424956
GGGTCAAATTGATCACTGAGGC
59.575
50.000
8.63
0.00
0.00
4.70
239
242
0.622136
TTGATCACTGAGGCTGGCAT
59.378
50.000
3.38
0.00
0.00
4.40
292
296
5.684704
TGGTAAAAATTTGGTGGCATTTGA
58.315
33.333
0.00
0.00
0.00
2.69
373
377
5.603170
AGTAATCCAAGCCAAATGAATGG
57.397
39.130
0.00
0.00
43.70
3.16
378
382
2.564062
CCAAGCCAAATGAATGGTCTGT
59.436
45.455
0.00
0.00
42.75
3.41
410
424
0.034089
GGCAGGGTGGACATTTAGCT
60.034
55.000
0.00
0.00
0.00
3.32
419
433
5.059833
GGTGGACATTTAGCTATCCAAGAG
58.940
45.833
14.07
0.00
42.79
2.85
428
442
7.568199
TTTAGCTATCCAAGAGTTATTTGGC
57.432
36.000
0.00
0.00
43.81
4.52
430
444
5.699143
AGCTATCCAAGAGTTATTTGGCAT
58.301
37.500
0.00
0.00
43.81
4.40
495
510
9.533831
AGAAATGGGTAGAACAGAAAATTGTAT
57.466
29.630
0.00
0.00
0.00
2.29
521
536
4.385358
ACGAAAATCCATATTTGCACCC
57.615
40.909
0.00
0.00
35.46
4.61
522
537
3.181491
ACGAAAATCCATATTTGCACCCG
60.181
43.478
0.00
0.00
35.46
5.28
524
539
1.039856
AATCCATATTTGCACCCGGC
58.960
50.000
0.00
0.00
45.13
6.13
525
540
0.185901
ATCCATATTTGCACCCGGCT
59.814
50.000
0.00
0.00
45.15
5.52
526
541
0.751277
TCCATATTTGCACCCGGCTG
60.751
55.000
0.00
0.00
45.15
4.85
527
542
0.751277
CCATATTTGCACCCGGCTGA
60.751
55.000
0.00
0.00
45.15
4.26
528
543
0.381801
CATATTTGCACCCGGCTGAC
59.618
55.000
0.00
0.00
45.15
3.51
529
544
1.095228
ATATTTGCACCCGGCTGACG
61.095
55.000
0.00
0.00
45.15
4.35
601
747
3.120234
TGTGCAGTAGACAATTTGATGCG
60.120
43.478
2.79
0.00
35.00
4.73
602
748
3.073678
TGCAGTAGACAATTTGATGCGT
58.926
40.909
2.79
0.00
35.00
5.24
603
749
3.120234
TGCAGTAGACAATTTGATGCGTG
60.120
43.478
2.79
0.00
35.00
5.34
605
751
4.726021
GCAGTAGACAATTTGATGCGTGAG
60.726
45.833
2.79
0.00
0.00
3.51
606
752
3.935203
AGTAGACAATTTGATGCGTGAGG
59.065
43.478
2.79
0.00
0.00
3.86
608
754
2.744202
AGACAATTTGATGCGTGAGGTC
59.256
45.455
2.79
0.00
0.00
3.85
609
755
1.812571
ACAATTTGATGCGTGAGGTCC
59.187
47.619
2.79
0.00
0.00
4.46
610
756
1.086696
AATTTGATGCGTGAGGTCCG
58.913
50.000
0.00
0.00
0.00
4.79
617
763
2.579201
CGTGAGGTCCGCTCCAAT
59.421
61.111
0.00
0.00
0.00
3.16
619
765
0.673644
CGTGAGGTCCGCTCCAATTT
60.674
55.000
0.00
0.00
0.00
1.82
620
766
1.534729
GTGAGGTCCGCTCCAATTTT
58.465
50.000
0.00
0.00
0.00
1.82
621
767
1.886542
GTGAGGTCCGCTCCAATTTTT
59.113
47.619
0.00
0.00
0.00
1.94
622
768
3.078837
GTGAGGTCCGCTCCAATTTTTA
58.921
45.455
0.00
0.00
0.00
1.52
623
769
3.504520
GTGAGGTCCGCTCCAATTTTTAA
59.495
43.478
0.00
0.00
0.00
1.52
624
770
3.756434
TGAGGTCCGCTCCAATTTTTAAG
59.244
43.478
0.00
0.00
0.00
1.85
626
772
3.756963
AGGTCCGCTCCAATTTTTAAGTC
59.243
43.478
0.00
0.00
0.00
3.01
628
774
4.217767
GGTCCGCTCCAATTTTTAAGTCTT
59.782
41.667
0.00
0.00
0.00
3.01
629
775
5.278808
GGTCCGCTCCAATTTTTAAGTCTTT
60.279
40.000
0.00
0.00
0.00
2.52
630
776
6.213677
GTCCGCTCCAATTTTTAAGTCTTTT
58.786
36.000
0.00
0.00
0.00
2.27
631
777
6.143919
GTCCGCTCCAATTTTTAAGTCTTTTG
59.856
38.462
0.00
0.00
0.00
2.44
632
778
5.405269
CCGCTCCAATTTTTAAGTCTTTTGG
59.595
40.000
6.64
6.64
35.93
3.28
633
779
6.212955
CGCTCCAATTTTTAAGTCTTTTGGA
58.787
36.000
12.88
12.88
40.08
3.53
634
780
6.143919
CGCTCCAATTTTTAAGTCTTTTGGAC
59.856
38.462
10.41
7.86
44.80
4.02
635
781
6.983890
GCTCCAATTTTTAAGTCTTTTGGACA
59.016
34.615
10.41
0.00
46.72
4.02
636
782
7.657354
GCTCCAATTTTTAAGTCTTTTGGACAT
59.343
33.333
10.41
0.00
46.72
3.06
642
788
9.860898
ATTTTTAAGTCTTTTGGACATATGAGC
57.139
29.630
10.38
0.60
46.72
4.26
643
789
8.635765
TTTTAAGTCTTTTGGACATATGAGCT
57.364
30.769
10.38
0.00
46.72
4.09
644
790
7.849804
TTAAGTCTTTTGGACATATGAGCTC
57.150
36.000
10.38
6.82
46.72
4.09
646
792
5.669477
AGTCTTTTGGACATATGAGCTCTC
58.331
41.667
16.19
3.13
46.72
3.20
647
793
5.188555
AGTCTTTTGGACATATGAGCTCTCA
59.811
40.000
16.19
1.67
46.72
3.27
649
795
3.465742
TTGGACATATGAGCTCTCAGC
57.534
47.619
16.19
0.00
43.61
4.26
652
798
3.198417
TGGACATATGAGCTCTCAGCAAA
59.802
43.478
16.19
0.00
45.56
3.68
653
799
4.194640
GGACATATGAGCTCTCAGCAAAA
58.805
43.478
16.19
0.00
45.56
2.44
736
1598
6.764308
TTCAGCTTCCAAATTAAGAGATGG
57.236
37.500
0.00
0.00
0.00
3.51
869
1731
6.379988
CCAACTAATTAGGTACCAAAGCCAAT
59.620
38.462
15.94
0.75
0.00
3.16
1073
1935
1.660560
CCGTCGTTATCCCCGTCTGT
61.661
60.000
0.00
0.00
0.00
3.41
1736
2598
0.512952
GACCATATCGCGCATGGAAC
59.487
55.000
33.00
24.35
44.95
3.62
1932
2797
7.148018
GCAGATTTCTCACCCTATTTTTCATGA
60.148
37.037
0.00
0.00
0.00
3.07
1958
2823
4.610605
TGGGTGAAATCGTAGTTGAAGA
57.389
40.909
0.00
0.00
0.00
2.87
2006
2871
4.870021
AATTTGCTACTCCCTCCATTCT
57.130
40.909
0.00
0.00
0.00
2.40
2096
2961
9.950680
TTTCAGATTCGGCATATTAGAAATTTC
57.049
29.630
10.33
10.33
0.00
2.17
2148
3013
2.094675
GTGTTTGGTAGGCTGCATCAT
58.905
47.619
4.64
0.00
0.00
2.45
2150
3015
2.290832
TGTTTGGTAGGCTGCATCATCA
60.291
45.455
4.64
0.00
0.00
3.07
2152
3017
2.265589
TGGTAGGCTGCATCATCATG
57.734
50.000
4.64
0.00
0.00
3.07
2177
3042
0.034337
GGCCGAGTGTGTGTAGGAAA
59.966
55.000
0.00
0.00
0.00
3.13
2178
3043
1.541670
GGCCGAGTGTGTGTAGGAAAA
60.542
52.381
0.00
0.00
0.00
2.29
2180
3045
2.032290
GCCGAGTGTGTGTAGGAAAAAC
60.032
50.000
0.00
0.00
0.00
2.43
2182
3047
3.001939
CCGAGTGTGTGTAGGAAAAACAC
59.998
47.826
0.00
0.00
45.96
3.32
2197
3062
4.608073
AAAACACATTTGGGAAAAACGC
57.392
36.364
0.00
0.00
0.00
4.84
2208
3073
3.175929
GGGAAAAACGCATTTGATACCG
58.824
45.455
0.00
0.00
0.00
4.02
2217
3082
3.241963
CGCATTTGATACCGTACACACAG
60.242
47.826
0.00
0.00
0.00
3.66
2218
3083
3.063452
GCATTTGATACCGTACACACAGG
59.937
47.826
0.00
0.00
0.00
4.00
2229
3094
0.478072
ACACACAGGGATTTGGCTCA
59.522
50.000
0.00
0.00
0.00
4.26
2232
3097
1.076024
ACACAGGGATTTGGCTCACAT
59.924
47.619
0.00
0.00
0.00
3.21
2233
3098
1.475280
CACAGGGATTTGGCTCACATG
59.525
52.381
0.00
0.00
0.00
3.21
2234
3099
1.076024
ACAGGGATTTGGCTCACATGT
59.924
47.619
0.00
0.00
0.00
3.21
2240
3105
2.535012
TTTGGCTCACATGTACACGA
57.465
45.000
0.00
0.00
0.00
4.35
2243
3108
1.069358
TGGCTCACATGTACACGAACA
59.931
47.619
0.00
0.00
0.00
3.18
2259
3124
3.244976
CGAACATTAAAGCAGCCCAAAG
58.755
45.455
0.00
0.00
0.00
2.77
2275
3140
2.094182
CCAAAGTCTGGCTCGCTAGTAA
60.094
50.000
2.19
0.00
38.76
2.24
2280
3145
1.338337
TCTGGCTCGCTAGTAATGCTC
59.662
52.381
2.19
0.00
0.00
4.26
2281
3146
1.067669
CTGGCTCGCTAGTAATGCTCA
59.932
52.381
0.00
0.00
0.00
4.26
2282
3147
1.480545
TGGCTCGCTAGTAATGCTCAA
59.519
47.619
0.00
0.00
0.00
3.02
2283
3148
2.093711
TGGCTCGCTAGTAATGCTCAAA
60.094
45.455
0.00
0.00
0.00
2.69
2284
3149
3.134458
GGCTCGCTAGTAATGCTCAAAT
58.866
45.455
0.00
0.00
0.00
2.32
2285
3150
3.185391
GGCTCGCTAGTAATGCTCAAATC
59.815
47.826
0.00
0.00
0.00
2.17
2287
3152
4.290969
CTCGCTAGTAATGCTCAAATCGA
58.709
43.478
0.00
0.00
0.00
3.59
2294
3159
3.471495
AATGCTCAAATCGACCGTTTC
57.529
42.857
0.00
0.00
0.00
2.78
2299
3164
2.256174
TCAAATCGACCGTTTCTAGCG
58.744
47.619
0.00
0.00
0.00
4.26
2322
3187
0.601046
CAGGCTGAGTCGAGTGCAAA
60.601
55.000
9.42
0.00
0.00
3.68
2327
3192
1.376037
GAGTCGAGTGCAAAGGGGG
60.376
63.158
0.00
0.00
0.00
5.40
2328
3193
3.056328
GTCGAGTGCAAAGGGGGC
61.056
66.667
0.00
0.00
0.00
5.80
2329
3194
3.565214
TCGAGTGCAAAGGGGGCA
61.565
61.111
0.00
0.00
39.32
5.36
2363
3366
4.035102
GCAGGGAGAAAGGGGCGT
62.035
66.667
0.00
0.00
0.00
5.68
2429
3432
3.757248
CTAGCATCACCGCACCCCC
62.757
68.421
0.00
0.00
0.00
5.40
2461
3464
7.772332
AAAATATTTACTCGCTCACCTGTAG
57.228
36.000
0.01
0.00
0.00
2.74
2476
3753
2.353803
CCTGTAGCGCTAGAACAAACCT
60.354
50.000
19.48
0.00
0.00
3.50
2560
3837
4.518249
CTTCAATCTTTGGTAGGAGGACC
58.482
47.826
0.00
0.00
40.21
4.46
2574
3851
3.404773
GACCTGGTCCTCCCCTTG
58.595
66.667
16.14
0.00
0.00
3.61
2660
3937
4.301072
AAGCAGCATACAAACCTCCTTA
57.699
40.909
0.00
0.00
0.00
2.69
2682
3959
8.139350
CCTTATGATGTTAGGTCGTTATGTACA
58.861
37.037
0.00
0.00
0.00
2.90
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
6
7
3.567164
GCTCAATAGTGCACTAATGGCAT
59.433
43.478
31.80
15.29
44.11
4.40
20
21
0.866427
CGCCAGAGCATGCTCAATAG
59.134
55.000
40.91
28.24
44.99
1.73
22
23
0.179026
ATCGCCAGAGCATGCTCAAT
60.179
50.000
40.91
24.38
44.99
2.57
29
30
2.646930
TCATTGAAATCGCCAGAGCAT
58.353
42.857
0.00
0.00
39.83
3.79
37
38
2.951642
TCCCTGGAATCATTGAAATCGC
59.048
45.455
0.00
0.00
0.00
4.58
46
47
3.249752
CTCTCCTCATCCCTGGAATCAT
58.750
50.000
0.00
0.00
31.23
2.45
47
48
2.687297
CTCTCCTCATCCCTGGAATCA
58.313
52.381
0.00
0.00
31.23
2.57
53
54
3.728385
AAAAACCTCTCCTCATCCCTG
57.272
47.619
0.00
0.00
0.00
4.45
71
72
1.407258
CCGTGGCAAACCTCTCAAAAA
59.593
47.619
0.00
0.00
36.63
1.94
72
73
1.028905
CCGTGGCAAACCTCTCAAAA
58.971
50.000
0.00
0.00
36.63
2.44
73
74
0.106918
ACCGTGGCAAACCTCTCAAA
60.107
50.000
0.00
0.00
36.63
2.69
74
75
0.534203
GACCGTGGCAAACCTCTCAA
60.534
55.000
0.00
0.00
36.63
3.02
75
76
1.070786
GACCGTGGCAAACCTCTCA
59.929
57.895
0.00
0.00
36.63
3.27
76
77
1.671379
GGACCGTGGCAAACCTCTC
60.671
63.158
0.00
0.00
36.63
3.20
77
78
2.397413
CTGGACCGTGGCAAACCTCT
62.397
60.000
0.00
0.00
36.63
3.69
78
79
1.966451
CTGGACCGTGGCAAACCTC
60.966
63.158
0.00
0.00
36.63
3.85
79
80
2.113139
CTGGACCGTGGCAAACCT
59.887
61.111
0.00
0.00
36.63
3.50
90
91
1.228769
GAAAACCCACCCCTGGACC
60.229
63.158
0.00
0.00
40.55
4.46
108
109
1.230635
CCCAGCACCAAGACTTGACG
61.231
60.000
16.99
7.97
0.00
4.35
109
110
0.890996
CCCCAGCACCAAGACTTGAC
60.891
60.000
16.99
5.82
0.00
3.18
110
111
1.059584
TCCCCAGCACCAAGACTTGA
61.060
55.000
16.99
0.00
0.00
3.02
133
134
6.022315
TCTTTCTCTCTCCCTCATCTTCTTT
58.978
40.000
0.00
0.00
0.00
2.52
213
216
3.128242
CAGCCTCAGTGATCAATTTGACC
59.872
47.826
0.15
0.00
0.00
4.02
224
227
1.571955
TCTAATGCCAGCCTCAGTGA
58.428
50.000
0.00
0.00
0.00
3.41
233
236
4.556898
GCAATGAAGCTCATCTAATGCCAG
60.557
45.833
0.00
0.00
35.76
4.85
239
242
4.449131
CTCCTGCAATGAAGCTCATCTAA
58.551
43.478
0.00
0.00
35.76
2.10
302
306
6.987386
TCTGGTTTTGAAACTTTTGTGAAGA
58.013
32.000
6.57
0.00
38.89
2.87
361
365
2.932187
GCCAACAGACCATTCATTTGGC
60.932
50.000
7.35
7.35
46.54
4.52
373
377
2.224018
TGCCAATTTTGAGCCAACAGAC
60.224
45.455
0.00
0.00
0.00
3.51
378
382
0.686224
CCCTGCCAATTTTGAGCCAA
59.314
50.000
0.00
0.00
0.00
4.52
495
510
8.952278
GGGTGCAAATATGGATTTTCGTATATA
58.048
33.333
0.00
0.00
32.73
0.86
498
513
5.278266
CGGGTGCAAATATGGATTTTCGTAT
60.278
40.000
0.00
0.00
32.73
3.06
501
516
3.371168
CGGGTGCAAATATGGATTTTCG
58.629
45.455
0.00
0.00
32.73
3.46
505
520
1.039856
GCCGGGTGCAAATATGGATT
58.960
50.000
2.18
0.00
40.77
3.01
508
523
0.751277
TCAGCCGGGTGCAAATATGG
60.751
55.000
28.72
1.75
44.83
2.74
509
524
0.381801
GTCAGCCGGGTGCAAATATG
59.618
55.000
28.72
2.56
44.83
1.78
510
525
1.095228
CGTCAGCCGGGTGCAAATAT
61.095
55.000
28.72
0.00
44.83
1.28
512
527
3.055719
CGTCAGCCGGGTGCAAAT
61.056
61.111
28.72
0.00
44.83
2.32
513
528
3.758973
TTCGTCAGCCGGGTGCAAA
62.759
57.895
28.72
18.08
44.83
3.68
514
529
3.758973
TTTCGTCAGCCGGGTGCAA
62.759
57.895
28.72
17.16
44.83
4.08
516
531
2.548295
TTTTTCGTCAGCCGGGTGC
61.548
57.895
28.72
21.12
41.71
5.01
517
532
3.739167
TTTTTCGTCAGCCGGGTG
58.261
55.556
27.73
27.73
37.11
4.61
580
726
3.120199
ACGCATCAAATTGTCTACTGCAC
60.120
43.478
0.00
0.00
0.00
4.57
585
731
3.684788
ACCTCACGCATCAAATTGTCTAC
59.315
43.478
0.00
0.00
0.00
2.59
586
732
3.932710
GACCTCACGCATCAAATTGTCTA
59.067
43.478
0.00
0.00
0.00
2.59
590
736
1.202065
CGGACCTCACGCATCAAATTG
60.202
52.381
0.00
0.00
0.00
2.32
591
737
1.086696
CGGACCTCACGCATCAAATT
58.913
50.000
0.00
0.00
0.00
1.82
592
738
2.767536
CGGACCTCACGCATCAAAT
58.232
52.632
0.00
0.00
0.00
2.32
601
747
1.534729
AAAATTGGAGCGGACCTCAC
58.465
50.000
0.00
0.00
42.62
3.51
602
748
2.286365
AAAAATTGGAGCGGACCTCA
57.714
45.000
0.00
0.00
42.62
3.86
603
749
3.756963
ACTTAAAAATTGGAGCGGACCTC
59.243
43.478
0.00
0.00
39.98
3.85
605
751
3.756963
AGACTTAAAAATTGGAGCGGACC
59.243
43.478
0.00
0.00
0.00
4.46
606
752
5.372547
AAGACTTAAAAATTGGAGCGGAC
57.627
39.130
0.00
0.00
0.00
4.79
608
754
5.405269
CCAAAAGACTTAAAAATTGGAGCGG
59.595
40.000
9.19
0.00
39.69
5.52
609
755
6.143919
GTCCAAAAGACTTAAAAATTGGAGCG
59.856
38.462
15.52
0.00
44.92
5.03
610
756
6.983890
TGTCCAAAAGACTTAAAAATTGGAGC
59.016
34.615
15.52
11.88
44.92
4.70
616
762
9.860898
GCTCATATGTCCAAAAGACTTAAAAAT
57.139
29.630
1.90
0.00
46.46
1.82
617
763
9.077885
AGCTCATATGTCCAAAAGACTTAAAAA
57.922
29.630
1.90
0.00
46.46
1.94
619
765
8.103305
AGAGCTCATATGTCCAAAAGACTTAAA
58.897
33.333
17.77
0.00
46.46
1.52
620
766
7.624549
AGAGCTCATATGTCCAAAAGACTTAA
58.375
34.615
17.77
0.00
46.46
1.85
621
767
7.093333
TGAGAGCTCATATGTCCAAAAGACTTA
60.093
37.037
17.77
0.00
39.42
2.24
622
768
6.059787
AGAGCTCATATGTCCAAAAGACTT
57.940
37.500
17.77
0.00
46.46
3.01
623
769
5.188555
TGAGAGCTCATATGTCCAAAAGACT
59.811
40.000
17.77
0.00
39.42
3.24
624
770
5.423015
TGAGAGCTCATATGTCCAAAAGAC
58.577
41.667
17.77
0.00
39.26
3.01
626
772
4.272991
GCTGAGAGCTCATATGTCCAAAAG
59.727
45.833
17.77
0.00
39.13
2.27
628
774
3.198417
TGCTGAGAGCTCATATGTCCAAA
59.802
43.478
17.77
0.00
42.97
3.28
629
775
2.767960
TGCTGAGAGCTCATATGTCCAA
59.232
45.455
17.77
0.00
42.97
3.53
630
776
2.391678
TGCTGAGAGCTCATATGTCCA
58.608
47.619
17.77
0.50
42.97
4.02
631
777
3.465742
TTGCTGAGAGCTCATATGTCC
57.534
47.619
17.77
0.00
42.97
4.02
632
778
5.808042
TTTTTGCTGAGAGCTCATATGTC
57.192
39.130
17.77
4.63
42.97
3.06
736
1598
6.428159
TGGTTTTCTTTGATCTGTTCTAGCTC
59.572
38.462
0.00
0.00
0.00
4.09
935
1797
1.543896
CCTTGGAGGGGAAGGGGAA
60.544
63.158
0.00
0.00
37.00
3.97
1081
1943
0.878523
CCGCTGTGTTCTTTGGACGA
60.879
55.000
0.00
0.00
0.00
4.20
1736
2598
1.483827
TGAGATAGCCAGCACTTCCAG
59.516
52.381
0.00
0.00
0.00
3.86
1932
2797
6.642707
TCAACTACGATTTCACCCAATTTT
57.357
33.333
0.00
0.00
0.00
1.82
2006
2871
5.655532
GGGCGTAATCATATCTACTCCCTAA
59.344
44.000
6.84
0.00
39.17
2.69
2148
3013
1.296392
CACTCGGCCTGTTCCATGA
59.704
57.895
0.00
0.00
0.00
3.07
2150
3015
1.003355
CACACTCGGCCTGTTCCAT
60.003
57.895
0.00
0.00
0.00
3.41
2152
3017
1.961277
CACACACTCGGCCTGTTCC
60.961
63.158
0.00
0.00
0.00
3.62
2161
3026
4.191662
GTGTTTTTCCTACACACACTCG
57.808
45.455
0.00
0.00
44.08
4.18
2177
3042
3.600388
TGCGTTTTTCCCAAATGTGTTT
58.400
36.364
0.00
0.00
0.00
2.83
2178
3043
3.252974
TGCGTTTTTCCCAAATGTGTT
57.747
38.095
0.00
0.00
0.00
3.32
2180
3045
4.272018
TCAAATGCGTTTTTCCCAAATGTG
59.728
37.500
0.00
0.00
0.00
3.21
2182
3047
5.610235
ATCAAATGCGTTTTTCCCAAATG
57.390
34.783
0.00
0.00
0.00
2.32
2183
3048
5.641636
GGTATCAAATGCGTTTTTCCCAAAT
59.358
36.000
0.00
0.00
0.00
2.32
2184
3049
4.991687
GGTATCAAATGCGTTTTTCCCAAA
59.008
37.500
0.00
0.00
0.00
3.28
2185
3050
4.561105
GGTATCAAATGCGTTTTTCCCAA
58.439
39.130
0.00
0.00
0.00
4.12
2186
3051
3.366476
CGGTATCAAATGCGTTTTTCCCA
60.366
43.478
0.00
0.00
0.00
4.37
2187
3052
3.175929
CGGTATCAAATGCGTTTTTCCC
58.824
45.455
0.00
0.00
0.00
3.97
2188
3053
3.828786
ACGGTATCAAATGCGTTTTTCC
58.171
40.909
0.00
1.63
0.00
3.13
2197
3062
3.621268
CCCTGTGTGTACGGTATCAAATG
59.379
47.826
0.00
0.00
0.00
2.32
2208
3073
2.084546
GAGCCAAATCCCTGTGTGTAC
58.915
52.381
0.00
0.00
0.00
2.90
2217
3082
2.423538
GTGTACATGTGAGCCAAATCCC
59.576
50.000
9.11
0.00
0.00
3.85
2218
3083
2.095853
CGTGTACATGTGAGCCAAATCC
59.904
50.000
9.11
0.00
0.00
3.01
2229
3094
5.616866
GCTGCTTTAATGTTCGTGTACATGT
60.617
40.000
14.63
2.69
38.69
3.21
2232
3097
3.187637
GGCTGCTTTAATGTTCGTGTACA
59.812
43.478
0.00
0.00
0.00
2.90
2233
3098
3.425758
GGGCTGCTTTAATGTTCGTGTAC
60.426
47.826
0.00
0.00
0.00
2.90
2234
3099
2.745281
GGGCTGCTTTAATGTTCGTGTA
59.255
45.455
0.00
0.00
0.00
2.90
2240
3105
3.897505
AGACTTTGGGCTGCTTTAATGTT
59.102
39.130
0.00
0.00
0.00
2.71
2243
3108
2.827921
CCAGACTTTGGGCTGCTTTAAT
59.172
45.455
0.00
0.00
43.75
1.40
2259
3124
1.067821
AGCATTACTAGCGAGCCAGAC
59.932
52.381
0.00
0.00
37.01
3.51
2265
3130
4.147306
GTCGATTTGAGCATTACTAGCGAG
59.853
45.833
0.00
0.00
37.01
5.03
2275
3140
2.699954
AGAAACGGTCGATTTGAGCAT
58.300
42.857
4.10
0.00
45.52
3.79
2280
3145
2.256174
TCGCTAGAAACGGTCGATTTG
58.744
47.619
0.00
0.00
0.00
2.32
2281
3146
2.094854
ACTCGCTAGAAACGGTCGATTT
60.095
45.455
0.00
0.00
0.00
2.17
2282
3147
1.471684
ACTCGCTAGAAACGGTCGATT
59.528
47.619
0.00
0.00
0.00
3.34
2283
3148
1.063764
GACTCGCTAGAAACGGTCGAT
59.936
52.381
0.00
0.00
0.00
3.59
2284
3149
0.445436
GACTCGCTAGAAACGGTCGA
59.555
55.000
0.00
0.00
0.00
4.20
2285
3150
0.167470
TGACTCGCTAGAAACGGTCG
59.833
55.000
0.00
0.00
35.12
4.79
2287
3152
0.526662
CCTGACTCGCTAGAAACGGT
59.473
55.000
0.00
0.00
0.00
4.83
2294
3159
0.380378
GACTCAGCCTGACTCGCTAG
59.620
60.000
0.00
0.00
33.91
3.42
2299
3164
0.170116
CACTCGACTCAGCCTGACTC
59.830
60.000
0.00
0.00
0.00
3.36
2322
3187
4.109675
GCATACACCGTGCCCCCT
62.110
66.667
0.00
0.00
36.61
4.79
2328
3193
3.115892
AACGCCGCATACACCGTG
61.116
61.111
0.00
0.00
33.78
4.94
2329
3194
3.115892
CAACGCCGCATACACCGT
61.116
61.111
0.00
0.00
35.14
4.83
2330
3195
4.514569
GCAACGCCGCATACACCG
62.515
66.667
0.00
0.00
0.00
4.94
2331
3196
3.381169
CTGCAACGCCGCATACACC
62.381
63.158
0.00
0.00
42.06
4.16
2332
3197
2.098298
CTGCAACGCCGCATACAC
59.902
61.111
0.00
0.00
42.06
2.90
2333
3198
3.124270
CCTGCAACGCCGCATACA
61.124
61.111
0.00
0.00
42.06
2.29
2334
3199
3.876198
CCCTGCAACGCCGCATAC
61.876
66.667
0.00
0.00
42.06
2.39
2363
3366
5.907662
AGATTTTGGTCTCCCATCATCTCTA
59.092
40.000
0.00
0.00
41.49
2.43
2429
3432
8.850452
GTGAGCGAGTAAATATTTTTCTTTTGG
58.150
33.333
5.91
0.14
0.00
3.28
2430
3433
8.850452
GGTGAGCGAGTAAATATTTTTCTTTTG
58.150
33.333
5.91
2.56
0.00
2.44
2441
3444
4.303086
GCTACAGGTGAGCGAGTAAATA
57.697
45.455
0.00
0.00
0.00
1.40
2507
3784
2.430465
TGCTTCTGCAGATTTGAGTCC
58.570
47.619
19.04
0.75
45.31
3.85
2560
3837
0.842467
AAGACCAAGGGGAGGACCAG
60.842
60.000
0.00
0.00
42.91
4.00
2565
3842
1.003696
GAGTCAAAGACCAAGGGGAGG
59.996
57.143
0.00
0.00
38.05
4.30
2574
3851
3.949113
AGGACGAGATAGAGTCAAAGACC
59.051
47.826
0.00
0.00
39.01
3.85
2621
3898
0.996583
TTACCCCCTTTGAAGCCGAT
59.003
50.000
0.00
0.00
0.00
4.18
2624
3901
0.251608
TGCTTACCCCCTTTGAAGCC
60.252
55.000
3.24
0.00
42.93
4.35
2660
3937
7.108841
ACTGTACATAACGACCTAACATCAT
57.891
36.000
0.00
0.00
0.00
2.45
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.