Multiple sequence alignment - TraesCS2D01G539300
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
TraesCS2D01G539300
chr2D
100.000
4739
0
0
1
4739
619712743
619708005
0.000000e+00
8752.0
1
TraesCS2D01G539300
chr2D
82.216
731
59
37
816
1493
585679389
585680101
8.900000e-157
564.0
2
TraesCS2D01G539300
chr2D
83.168
606
63
19
1620
2195
585680253
585680849
7.030000e-143
518.0
3
TraesCS2D01G539300
chr2D
74.386
1343
153
111
3047
4315
585681853
585683078
9.560000e-107
398.0
4
TraesCS2D01G539300
chr2D
76.802
444
63
31
2292
2718
585681069
585681489
3.710000e-51
213.0
5
TraesCS2D01G539300
chr2D
93.939
99
5
1
2907
3004
585681751
585681849
1.060000e-31
148.0
6
TraesCS2D01G539300
chr2D
95.556
45
0
2
210
253
13841548
13841591
2.370000e-08
71.3
7
TraesCS2D01G539300
chr2B
93.403
3911
139
52
574
4425
759451109
759447259
0.000000e+00
5683.0
8
TraesCS2D01G539300
chr2B
81.679
1441
146
78
816
2173
706724162
706725567
0.000000e+00
1090.0
9
TraesCS2D01G539300
chr2B
95.156
289
7
3
4455
4739
759447086
759446801
2.600000e-122
449.0
10
TraesCS2D01G539300
chr2B
73.992
1315
164
103
3070
4315
706726532
706727737
2.080000e-98
370.0
11
TraesCS2D01G539300
chr2B
92.308
169
12
1
38
206
759451818
759451651
6.130000e-59
239.0
12
TraesCS2D01G539300
chr2B
85.542
166
16
6
2574
2736
706725991
706726151
2.930000e-37
167.0
13
TraesCS2D01G539300
chr2B
92.308
104
7
1
2902
3004
706726406
706726509
3.820000e-31
147.0
14
TraesCS2D01G539300
chr2B
100.000
38
0
0
4422
4459
759447179
759447142
2.370000e-08
71.3
15
TraesCS2D01G539300
chr2A
93.081
3917
145
67
596
4459
751384229
751380386
0.000000e+00
5616.0
16
TraesCS2D01G539300
chr2A
80.756
1429
157
70
816
2173
719720773
719722154
0.000000e+00
1007.0
17
TraesCS2D01G539300
chr2A
85.931
462
34
12
6
441
751384921
751384465
9.290000e-127
464.0
18
TraesCS2D01G539300
chr2A
95.819
287
3
4
4455
4739
751380330
751380051
5.590000e-124
455.0
19
TraesCS2D01G539300
chr2A
74.439
1025
125
86
3047
4039
719723032
719723951
9.900000e-82
315.0
20
TraesCS2D01G539300
chr2A
82.392
301
23
14
4455
4736
751250879
751250590
7.930000e-58
235.0
21
TraesCS2D01G539300
chr2A
82.333
300
23
14
4455
4735
751273508
751273220
2.850000e-57
233.0
22
TraesCS2D01G539300
chr2A
85.366
164
12
8
2573
2732
719722518
719722673
4.910000e-35
159.0
23
TraesCS2D01G539300
chr3B
82.178
303
24
14
4452
4735
713761547
713761838
2.850000e-57
233.0
24
TraesCS2D01G539300
chr4A
93.548
62
4
0
3671
3732
249771578
249771639
5.050000e-15
93.5
25
TraesCS2D01G539300
chr4A
100.000
28
0
0
1795
1822
738972847
738972820
9.000000e-03
52.8
26
TraesCS2D01G539300
chr7D
95.556
45
2
0
210
254
423531805
423531849
6.580000e-09
73.1
27
TraesCS2D01G539300
chr7D
90.196
51
4
1
210
260
403092198
403092149
1.100000e-06
65.8
28
TraesCS2D01G539300
chr5D
95.556
45
2
0
210
254
318879373
318879417
6.580000e-09
73.1
29
TraesCS2D01G539300
chr4D
93.750
48
3
0
210
257
20437834
20437787
6.580000e-09
73.1
30
TraesCS2D01G539300
chr7B
95.455
44
2
0
213
256
244755542
244755499
2.370000e-08
71.3
31
TraesCS2D01G539300
chr7A
95.455
44
2
0
210
253
705217952
705217995
2.370000e-08
71.3
32
TraesCS2D01G539300
chr1A
93.617
47
1
2
210
255
259202217
259202262
8.510000e-08
69.4
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
TraesCS2D01G539300
chr2D
619708005
619712743
4738
True
8752.000000
8752
100.000000
1
4739
1
chr2D.!!$R1
4738
1
TraesCS2D01G539300
chr2D
585679389
585683078
3689
False
368.200000
564
82.102200
816
4315
5
chr2D.!!$F2
3499
2
TraesCS2D01G539300
chr2B
759446801
759451818
5017
True
1610.575000
5683
95.216750
38
4739
4
chr2B.!!$R1
4701
3
TraesCS2D01G539300
chr2B
706724162
706727737
3575
False
443.500000
1090
83.380250
816
4315
4
chr2B.!!$F1
3499
4
TraesCS2D01G539300
chr2A
751380051
751384921
4870
True
2178.333333
5616
91.610333
6
4739
3
chr2A.!!$R3
4733
5
TraesCS2D01G539300
chr2A
719720773
719723951
3178
False
493.666667
1007
80.187000
816
4039
3
chr2A.!!$F1
3223
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
306
357
0.250081
GCTGGGCATGTAGCTAGTCC
60.250
60.000
0.00
0.00
44.79
3.85
F
331
382
0.385974
GAATGTTGGTGTGTGAGCGC
60.386
55.000
0.00
0.00
0.00
5.92
F
799
984
0.750850
AGAGTGTTGTGTAGTGGCGT
59.249
50.000
0.00
0.00
0.00
5.68
F
940
1132
1.098129
GGCAGGCGAAATTCTCCTCC
61.098
60.000
0.83
3.57
26.97
4.30
F
1812
2129
2.123939
CACCACCACCACCAGCAA
60.124
61.111
0.00
0.00
0.00
3.91
F
3262
4009
0.744057
TGTACATCCATGGCGTGCTG
60.744
55.000
18.30
3.67
0.00
4.41
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
1653
1948
0.236711
CGCTGCTCCTGTTGAAGTTG
59.763
55.000
0.00
0.00
0.00
3.16
R
1812
2129
1.079543
GTGATCGTCCTGCTGCTGT
60.080
57.895
0.00
0.00
0.00
4.40
R
2378
2840
1.874019
CGACGGCGTCTCCATTCTG
60.874
63.158
33.90
14.79
34.01
3.02
R
2584
3148
6.028146
TGCATGCACAACTTTAATCAATCT
57.972
33.333
18.46
0.00
0.00
2.40
R
3279
4026
0.179111
CAAAGCATGCAGGAGCCATG
60.179
55.000
21.98
2.79
41.13
3.66
R
4217
5044
0.390492
TGCAGATATCCACTGGCTCG
59.610
55.000
0.00
0.00
36.09
5.03
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
121
122
1.153524
TGGTTTGGCATGGCAGAGT
59.846
52.632
22.17
0.00
0.00
3.24
209
210
1.440618
TTGGCTGGTACTCCCTTTGA
58.559
50.000
0.00
0.00
0.00
2.69
211
212
1.351017
TGGCTGGTACTCCCTTTGAAG
59.649
52.381
0.00
0.00
0.00
3.02
212
213
1.351350
GGCTGGTACTCCCTTTGAAGT
59.649
52.381
0.00
0.00
0.00
3.01
213
214
2.570302
GGCTGGTACTCCCTTTGAAGTA
59.430
50.000
0.00
0.00
0.00
2.24
214
215
3.369576
GGCTGGTACTCCCTTTGAAGTAG
60.370
52.174
0.00
0.00
0.00
2.57
215
216
3.261137
GCTGGTACTCCCTTTGAAGTAGT
59.739
47.826
0.00
0.00
0.00
2.73
216
217
4.822026
CTGGTACTCCCTTTGAAGTAGTG
58.178
47.826
0.00
0.00
0.00
2.74
306
357
0.250081
GCTGGGCATGTAGCTAGTCC
60.250
60.000
0.00
0.00
44.79
3.85
311
362
1.576356
GCATGTAGCTAGTCCTGCAC
58.424
55.000
0.00
0.00
41.15
4.57
313
364
1.405463
CATGTAGCTAGTCCTGCACGA
59.595
52.381
0.00
0.00
30.27
4.35
331
382
0.385974
GAATGTTGGTGTGTGAGCGC
60.386
55.000
0.00
0.00
0.00
5.92
345
396
1.977594
GAGCGCGTGGTGTATTTGGG
61.978
60.000
4.91
0.00
0.00
4.12
354
405
3.008049
GTGGTGTATTTGGGAGTGAGAGT
59.992
47.826
0.00
0.00
0.00
3.24
369
420
2.573462
TGAGAGTAGCAGCCCAGAAAAT
59.427
45.455
0.00
0.00
0.00
1.82
410
461
3.412237
AGTTTAGCTAGGCGGTTTGAA
57.588
42.857
0.00
0.00
0.00
2.69
415
466
2.973945
AGCTAGGCGGTTTGAACTTAG
58.026
47.619
0.00
0.00
0.00
2.18
427
478
5.803461
GGTTTGAACTTAGTGTGTTGGTTTC
59.197
40.000
0.00
0.00
0.00
2.78
508
627
7.463961
TTTCCTTATAAACAGAGTCTCTCGT
57.536
36.000
0.00
0.00
35.36
4.18
510
629
7.463961
TCCTTATAAACAGAGTCTCTCGTTT
57.536
36.000
22.63
22.63
39.00
3.60
512
631
9.017509
TCCTTATAAACAGAGTCTCTCGTTTTA
57.982
33.333
23.49
16.67
37.84
1.52
531
650
8.079809
TCGTTTTATTCTCCATTCAAGGTTTTC
58.920
33.333
0.00
0.00
0.00
2.29
532
651
8.082242
CGTTTTATTCTCCATTCAAGGTTTTCT
58.918
33.333
0.00
0.00
0.00
2.52
585
761
2.460918
AGATGACGCTAATTTCGGACG
58.539
47.619
5.09
0.00
0.00
4.79
586
762
1.521423
GATGACGCTAATTTCGGACGG
59.479
52.381
5.09
0.00
0.00
4.79
710
887
5.616204
GCATACGTCAAAACCCTAAGACAAC
60.616
44.000
0.00
0.00
0.00
3.32
730
910
6.412214
ACAACAAGAGGTTACTGTTACAACT
58.588
36.000
0.00
0.00
37.72
3.16
731
911
7.558604
ACAACAAGAGGTTACTGTTACAACTA
58.441
34.615
0.00
0.00
37.72
2.24
732
912
7.493645
ACAACAAGAGGTTACTGTTACAACTAC
59.506
37.037
0.00
0.00
37.72
2.73
796
981
2.795175
ACGAGAGTGTTGTGTAGTGG
57.205
50.000
0.00
0.00
46.97
4.00
797
982
1.269621
ACGAGAGTGTTGTGTAGTGGC
60.270
52.381
0.00
0.00
46.97
5.01
798
983
1.419374
GAGAGTGTTGTGTAGTGGCG
58.581
55.000
0.00
0.00
0.00
5.69
799
984
0.750850
AGAGTGTTGTGTAGTGGCGT
59.249
50.000
0.00
0.00
0.00
5.68
865
1053
3.002791
TCTGTTGCACCAGATCGATTTC
58.997
45.455
10.27
0.00
36.57
2.17
940
1132
1.098129
GGCAGGCGAAATTCTCCTCC
61.098
60.000
0.83
3.57
26.97
4.30
1329
1574
3.642778
CTGGTGGCTACGACGTGGG
62.643
68.421
11.56
4.59
0.00
4.61
1335
1580
3.066190
CTACGACGTGGGGGCTGA
61.066
66.667
11.56
0.00
0.00
4.26
1336
1581
3.352338
CTACGACGTGGGGGCTGAC
62.352
68.421
11.56
0.00
0.00
3.51
1420
1668
3.687125
CTCCCTAACCTTCCAAGAAACC
58.313
50.000
0.00
0.00
0.00
3.27
1501
1749
3.139077
AGTTGTTCGTTCCCACTTGATC
58.861
45.455
0.00
0.00
0.00
2.92
1522
1770
2.247358
CCACACCTGCCCTTAATTTGT
58.753
47.619
0.00
0.00
0.00
2.83
1653
1948
7.253783
CGAAATCTACATGTGTATGTGTGTCTC
60.254
40.741
9.11
0.00
46.63
3.36
1812
2129
2.123939
CACCACCACCACCAGCAA
60.124
61.111
0.00
0.00
0.00
3.91
2204
2534
8.846211
GCTTGGGCTAATGATTAAGTATTTACA
58.154
33.333
0.00
0.00
35.22
2.41
2237
2668
8.873215
TGCTCTACTAGTAGTTGCAAATATTC
57.127
34.615
31.15
14.20
39.03
1.75
2243
2674
7.573710
ACTAGTAGTTGCAAATATTCCATGGA
58.426
34.615
11.44
11.44
0.00
3.41
2244
2675
8.052748
ACTAGTAGTTGCAAATATTCCATGGAA
58.947
33.333
28.92
28.92
38.59
3.53
2245
2676
7.338800
AGTAGTTGCAAATATTCCATGGAAG
57.661
36.000
29.98
17.97
37.56
3.46
2378
2840
2.951458
CCGGCGTTCAAGAAACCC
59.049
61.111
6.01
0.00
34.11
4.11
2508
3026
4.402155
GGTTAAATCATGCCACTTGGATCA
59.598
41.667
0.00
0.00
37.39
2.92
2584
3148
3.134623
ACCCAGATCGATGCATCTTTACA
59.865
43.478
23.73
3.67
30.07
2.41
2854
3564
0.969894
CCCCGCCTTTCGAGATCTAT
59.030
55.000
0.00
0.00
41.67
1.98
2865
3575
8.559536
GCCTTTCGAGATCTATCTATCATCTAG
58.440
40.741
0.00
0.00
37.25
2.43
2866
3576
9.830975
CCTTTCGAGATCTATCTATCATCTAGA
57.169
37.037
0.00
0.00
37.25
2.43
3262
4009
0.744057
TGTACATCCATGGCGTGCTG
60.744
55.000
18.30
3.67
0.00
4.41
3277
4024
3.429141
CTGGCCAGTCTGCGCTTG
61.429
66.667
25.53
1.08
0.00
4.01
3278
4025
4.254709
TGGCCAGTCTGCGCTTGT
62.255
61.111
9.73
0.00
0.00
3.16
3279
4026
3.426568
GGCCAGTCTGCGCTTGTC
61.427
66.667
9.73
0.00
0.00
3.18
3280
4027
2.666190
GCCAGTCTGCGCTTGTCA
60.666
61.111
9.73
0.00
0.00
3.58
3281
4028
2.037136
GCCAGTCTGCGCTTGTCAT
61.037
57.895
9.73
0.00
0.00
3.06
3282
4029
1.792301
CCAGTCTGCGCTTGTCATG
59.208
57.895
9.73
0.00
0.00
3.07
3283
4030
1.642037
CCAGTCTGCGCTTGTCATGG
61.642
60.000
9.73
5.74
0.00
3.66
3284
4031
2.037136
AGTCTGCGCTTGTCATGGC
61.037
57.895
9.73
0.00
0.00
4.40
3285
4032
2.037136
GTCTGCGCTTGTCATGGCT
61.037
57.895
9.73
0.00
0.00
4.75
3286
4033
1.742880
TCTGCGCTTGTCATGGCTC
60.743
57.895
9.73
0.00
0.00
4.70
3317
4064
3.606595
TGCTCTCTCTCACTTTCCATG
57.393
47.619
0.00
0.00
0.00
3.66
3319
4066
2.499289
GCTCTCTCTCACTTTCCATGGA
59.501
50.000
11.44
11.44
0.00
3.41
3320
4067
3.134442
GCTCTCTCTCACTTTCCATGGAT
59.866
47.826
17.06
0.00
0.00
3.41
3323
4070
5.523588
TCTCTCTCACTTTCCATGGATACT
58.476
41.667
17.06
0.00
37.61
2.12
3324
4071
5.362143
TCTCTCTCACTTTCCATGGATACTG
59.638
44.000
17.06
10.14
37.61
2.74
3325
4072
4.125703
CTCTCACTTTCCATGGATACTGC
58.874
47.826
17.06
0.00
37.61
4.40
3360
4118
2.745821
TCTCAAAGTGCATGTCTGATGC
59.254
45.455
0.00
0.00
44.76
3.91
3377
4135
4.985413
TGATGCTAGCTTTTTACATGTGC
58.015
39.130
17.23
2.37
0.00
4.57
3571
4332
6.875972
TTTAGGTAGAGGAAGAAGAAGCAT
57.124
37.500
0.00
0.00
0.00
3.79
3577
4338
4.577875
AGAGGAAGAAGAAGCATCACAAG
58.422
43.478
0.00
0.00
0.00
3.16
3594
4355
0.584876
AAGGCTTGTTGAACGTACGC
59.415
50.000
16.72
0.00
0.00
4.42
3597
4358
1.226030
GCTTGTTGAACGTACGCCCT
61.226
55.000
16.72
0.00
0.00
5.19
3653
4426
1.536149
CGACAACGTTCCTCGATCTC
58.464
55.000
16.45
0.00
42.86
2.75
3795
4583
2.611292
GGCTCATTCTTCAGGTTCATCG
59.389
50.000
0.00
0.00
0.00
3.84
4157
4981
0.313672
TTCCAGAATTTGTGCGTGCC
59.686
50.000
0.00
0.00
0.00
5.01
4217
5044
5.888982
TCAGGTTAGACTATCCCATTTCC
57.111
43.478
6.04
0.00
0.00
3.13
4233
5061
2.088104
TTCCGAGCCAGTGGATATCT
57.912
50.000
15.20
0.00
33.42
1.98
4262
5102
5.388890
GCGTGTATAGCATATTCTTCTGTGC
60.389
44.000
0.00
0.00
37.84
4.57
4265
5105
5.920840
TGTATAGCATATTCTTCTGTGCGTC
59.079
40.000
0.00
0.00
42.18
5.19
4386
5226
8.850156
AGAAAATTCAGTTGCATAACAAGTAGT
58.150
29.630
0.00
0.00
40.04
2.73
4394
5234
8.033038
CAGTTGCATAACAAGTAGTAGGAGTAA
58.967
37.037
0.00
0.00
40.04
2.24
4395
5235
8.591072
AGTTGCATAACAAGTAGTAGGAGTAAA
58.409
33.333
0.00
0.00
40.25
2.01
4396
5236
9.211485
GTTGCATAACAAGTAGTAGGAGTAAAA
57.789
33.333
0.00
0.00
39.50
1.52
4397
5237
9.781633
TTGCATAACAAGTAGTAGGAGTAAAAA
57.218
29.630
0.00
0.00
33.24
1.94
4459
5382
3.340814
AGCGATGAAACTCACCTGAAT
57.659
42.857
0.00
0.00
0.00
2.57
4460
5383
3.265791
AGCGATGAAACTCACCTGAATC
58.734
45.455
0.00
0.00
0.00
2.52
4462
5385
3.308323
GCGATGAAACTCACCTGAATCTC
59.692
47.826
0.00
0.00
0.00
2.75
4464
5387
4.931601
CGATGAAACTCACCTGAATCTCAA
59.068
41.667
0.00
0.00
0.00
3.02
4465
5388
5.163913
CGATGAAACTCACCTGAATCTCAAC
60.164
44.000
0.00
0.00
0.00
3.18
4466
5389
5.296151
TGAAACTCACCTGAATCTCAACT
57.704
39.130
0.00
0.00
0.00
3.16
4468
5391
4.963318
AACTCACCTGAATCTCAACTGA
57.037
40.909
0.00
0.00
0.00
3.41
4469
5392
5.495926
AACTCACCTGAATCTCAACTGAT
57.504
39.130
0.00
0.00
0.00
2.90
4470
5393
6.611613
AACTCACCTGAATCTCAACTGATA
57.388
37.500
0.00
0.00
0.00
2.15
4554
5539
4.850193
CACCCCATTTCCTGTGCT
57.150
55.556
0.00
0.00
0.00
4.40
4555
5540
3.056213
CACCCCATTTCCTGTGCTT
57.944
52.632
0.00
0.00
0.00
3.91
4556
5541
1.341080
CACCCCATTTCCTGTGCTTT
58.659
50.000
0.00
0.00
0.00
3.51
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
0
1
2.472029
ACCTAGAGTCCATTGACCCTG
58.528
52.381
0.00
0.00
42.81
4.45
1
2
2.840651
CAACCTAGAGTCCATTGACCCT
59.159
50.000
0.00
0.00
42.81
4.34
2
3
2.092914
CCAACCTAGAGTCCATTGACCC
60.093
54.545
0.00
0.00
42.81
4.46
3
4
2.681097
GCCAACCTAGAGTCCATTGACC
60.681
54.545
0.00
0.00
42.81
4.02
4
5
2.633488
GCCAACCTAGAGTCCATTGAC
58.367
52.381
0.00
0.00
42.09
3.18
121
122
4.383444
CCCTTCTAGCACAAGATCATCACA
60.383
45.833
0.00
0.00
0.00
3.58
168
169
1.269517
CCAACCCCGTTTGATTGTGTG
60.270
52.381
0.00
0.00
0.00
3.82
246
297
3.684788
GCATGTCGTTCCATTGTACTTCT
59.315
43.478
0.00
0.00
0.00
2.85
255
306
1.089481
ATTCGCGCATGTCGTTCCAT
61.089
50.000
8.75
0.00
41.07
3.41
269
320
0.939106
GCCAACACACCAACATTCGC
60.939
55.000
0.00
0.00
0.00
4.70
306
357
0.662619
ACACACCAACATTCGTGCAG
59.337
50.000
0.00
0.00
33.09
4.41
311
362
0.110688
CGCTCACACACCAACATTCG
60.111
55.000
0.00
0.00
0.00
3.34
313
364
1.654220
GCGCTCACACACCAACATT
59.346
52.632
0.00
0.00
0.00
2.71
331
382
2.028476
TCTCACTCCCAAATACACCACG
60.028
50.000
0.00
0.00
0.00
4.94
345
396
0.459489
CTGGGCTGCTACTCTCACTC
59.541
60.000
0.00
0.00
0.00
3.51
354
405
5.329035
GAAATCAATTTTCTGGGCTGCTA
57.671
39.130
0.00
0.00
40.54
3.49
369
420
3.616956
AGATCTGCCACGAGAAATCAA
57.383
42.857
0.00
0.00
0.00
2.57
410
461
8.403236
GTGAATAAAGAAACCAACACACTAAGT
58.597
33.333
0.00
0.00
0.00
2.24
415
466
9.744468
AATAAGTGAATAAAGAAACCAACACAC
57.256
29.630
0.00
0.00
0.00
3.82
444
563
2.235016
GCTGACTACTCCATCCGATCT
58.765
52.381
0.00
0.00
0.00
2.75
452
571
1.273267
ACCCTCATGCTGACTACTCCA
60.273
52.381
0.00
0.00
0.00
3.86
471
590
2.831685
AAGGAAAAATGGGCCGAAAC
57.168
45.000
0.00
0.00
0.00
2.78
482
601
8.365647
ACGAGAGACTCTGTTTATAAGGAAAAA
58.634
33.333
10.44
0.00
0.00
1.94
533
652
7.934120
CGGATGGAGGAAGTATTTCTTTATTCT
59.066
37.037
0.00
0.00
36.40
2.40
537
656
6.801718
TCGGATGGAGGAAGTATTTCTTTA
57.198
37.500
0.00
0.00
36.40
1.85
549
668
4.262036
CGTCATCTAATTTCGGATGGAGGA
60.262
45.833
12.52
0.00
39.57
3.71
550
669
3.990469
CGTCATCTAATTTCGGATGGAGG
59.010
47.826
12.52
0.00
39.57
4.30
710
887
8.355169
TGTAGTAGTTGTAACAGTAACCTCTTG
58.645
37.037
0.00
0.00
0.00
3.02
730
910
8.557592
TTAACTCTCGATCTTGTCTTGTAGTA
57.442
34.615
0.00
0.00
0.00
1.82
731
911
5.968528
AACTCTCGATCTTGTCTTGTAGT
57.031
39.130
0.00
0.00
0.00
2.73
732
912
8.744008
TTTTAACTCTCGATCTTGTCTTGTAG
57.256
34.615
0.00
0.00
0.00
2.74
796
981
3.489398
CCCACATCACTAGAGTAGAACGC
60.489
52.174
0.00
0.00
0.00
4.84
797
982
3.695060
ACCCACATCACTAGAGTAGAACG
59.305
47.826
0.00
0.00
0.00
3.95
798
983
5.047235
ACAACCCACATCACTAGAGTAGAAC
60.047
44.000
0.00
0.00
0.00
3.01
799
984
5.084519
ACAACCCACATCACTAGAGTAGAA
58.915
41.667
0.00
0.00
0.00
2.10
865
1053
2.987413
TGCGTCAGCTGGTAAATTTG
57.013
45.000
15.13
0.00
45.42
2.32
1110
1333
2.165301
CGATCACCGCTCCGTTTCC
61.165
63.158
0.00
0.00
0.00
3.13
1201
1440
1.812922
CATGCCGTGAGAGACTGCC
60.813
63.158
0.00
0.00
34.02
4.85
1329
1574
4.475135
GCTTCCCTCCGTCAGCCC
62.475
72.222
0.00
0.00
0.00
5.19
1333
1578
3.706373
GCCTGCTTCCCTCCGTCA
61.706
66.667
0.00
0.00
0.00
4.35
1336
1581
3.984193
CTTGGCCTGCTTCCCTCCG
62.984
68.421
3.32
0.00
0.00
4.63
1338
1583
1.077858
CTCTTGGCCTGCTTCCCTC
60.078
63.158
3.32
0.00
0.00
4.30
1339
1584
3.085223
CTCTTGGCCTGCTTCCCT
58.915
61.111
3.32
0.00
0.00
4.20
1420
1668
3.499737
GGGTCGTTGATGCTGGCG
61.500
66.667
0.00
0.00
0.00
5.69
1501
1749
1.550072
CAAATTAAGGGCAGGTGTGGG
59.450
52.381
0.00
0.00
0.00
4.61
1653
1948
0.236711
CGCTGCTCCTGTTGAAGTTG
59.763
55.000
0.00
0.00
0.00
3.16
1812
2129
1.079543
GTGATCGTCCTGCTGCTGT
60.080
57.895
0.00
0.00
0.00
4.40
2204
2534
7.093902
TGCAACTACTAGTAGAGCATTGTAGTT
60.094
37.037
31.75
17.56
45.88
2.24
2213
2543
7.926555
TGGAATATTTGCAACTACTAGTAGAGC
59.073
37.037
31.93
30.12
37.82
4.09
2237
2668
2.002586
CTGTACGTGCTTCTTCCATGG
58.997
52.381
4.97
4.97
0.00
3.66
2243
2674
4.785511
ACTACATCTGTACGTGCTTCTT
57.214
40.909
4.97
0.00
0.00
2.52
2244
2675
4.335874
CCTACTACATCTGTACGTGCTTCT
59.664
45.833
4.97
0.00
0.00
2.85
2245
2676
4.096081
ACCTACTACATCTGTACGTGCTTC
59.904
45.833
4.97
0.00
0.00
3.86
2378
2840
1.874019
CGACGGCGTCTCCATTCTG
60.874
63.158
33.90
14.79
34.01
3.02
2448
2964
8.974060
TCCATGATTTAAAGGTAAGGTATGAC
57.026
34.615
0.00
0.00
0.00
3.06
2471
2987
7.255486
GCATGATTTAACCTAACCTAACCATCC
60.255
40.741
0.00
0.00
0.00
3.51
2508
3026
8.415950
TCAAATAATGTCCATGGTGTTTAAGT
57.584
30.769
12.58
0.00
0.00
2.24
2584
3148
6.028146
TGCATGCACAACTTTAATCAATCT
57.972
33.333
18.46
0.00
0.00
2.40
3262
4009
3.426568
GACAAGCGCAGACTGGCC
61.427
66.667
11.47
0.00
0.00
5.36
3269
4016
2.758089
GGAGCCATGACAAGCGCAG
61.758
63.158
11.47
3.78
0.00
5.18
3270
4017
2.747460
GGAGCCATGACAAGCGCA
60.747
61.111
11.47
0.00
0.00
6.09
3271
4018
2.437359
AGGAGCCATGACAAGCGC
60.437
61.111
0.00
0.00
0.00
5.92
3272
4019
2.758089
GCAGGAGCCATGACAAGCG
61.758
63.158
0.00
0.00
33.58
4.68
3273
4020
1.035932
ATGCAGGAGCCATGACAAGC
61.036
55.000
0.00
0.00
41.13
4.01
3274
4021
0.738975
CATGCAGGAGCCATGACAAG
59.261
55.000
0.00
0.00
41.13
3.16
3276
4023
1.751544
GCATGCAGGAGCCATGACA
60.752
57.895
14.21
0.00
41.13
3.58
3277
4024
1.035932
AAGCATGCAGGAGCCATGAC
61.036
55.000
21.98
0.00
41.13
3.06
3278
4025
0.323999
AAAGCATGCAGGAGCCATGA
60.324
50.000
21.98
0.00
41.13
3.07
3279
4026
0.179111
CAAAGCATGCAGGAGCCATG
60.179
55.000
21.98
2.79
41.13
3.66
3280
4027
2.199117
CAAAGCATGCAGGAGCCAT
58.801
52.632
21.98
0.00
41.13
4.40
3281
4028
3.689414
CAAAGCATGCAGGAGCCA
58.311
55.556
21.98
0.00
41.13
4.75
3317
4064
3.382546
ACTTGAAATGGCATGCAGTATCC
59.617
43.478
21.36
0.64
0.00
2.59
3319
4066
4.275810
AGACTTGAAATGGCATGCAGTAT
58.724
39.130
21.36
6.71
0.00
2.12
3320
4067
3.689347
AGACTTGAAATGGCATGCAGTA
58.311
40.909
21.36
5.44
0.00
2.74
3323
4070
2.516906
TGAGACTTGAAATGGCATGCA
58.483
42.857
21.36
6.13
0.00
3.96
3324
4071
3.581024
TTGAGACTTGAAATGGCATGC
57.419
42.857
9.90
9.90
0.00
4.06
3325
4072
4.921515
CACTTTGAGACTTGAAATGGCATG
59.078
41.667
0.00
0.00
0.00
4.06
3360
4118
3.728864
CGCAGGCACATGTAAAAAGCTAG
60.729
47.826
0.00
0.00
0.00
3.42
3377
4135
4.662961
TGACCAGACACGCGCAGG
62.663
66.667
5.73
3.38
0.00
4.85
3571
4332
1.745232
ACGTTCAACAAGCCTTGTGA
58.255
45.000
11.51
8.10
44.59
3.58
3577
4338
1.205820
GGCGTACGTTCAACAAGCC
59.794
57.895
17.90
1.77
36.08
4.35
3583
4344
0.457166
CGATCAGGGCGTACGTTCAA
60.457
55.000
17.90
0.00
0.00
2.69
3597
4358
3.553715
GCATGGTAGCTTCTGATCGATCA
60.554
47.826
25.80
25.80
35.16
2.92
3612
4379
0.317160
GGATCGATCCGTGCATGGTA
59.683
55.000
27.93
11.75
37.19
3.25
3653
4426
5.808030
TGATCATAGACTAGATAGCTCGTCG
59.192
44.000
6.97
0.00
40.63
5.12
3795
4583
5.074515
TCCCTTGGTCAATAGATTATTCCCC
59.925
44.000
0.00
0.00
0.00
4.81
3853
4646
0.111398
CGAATGATCAGCGCGACATG
60.111
55.000
12.10
4.97
0.00
3.21
3977
4784
7.339976
TGCTTTGATCCATCATCACTGAATTAA
59.660
33.333
0.00
0.00
41.56
1.40
3978
4785
6.829811
TGCTTTGATCCATCATCACTGAATTA
59.170
34.615
0.00
0.00
41.56
1.40
3987
4794
5.064558
ACAGATCTGCTTTGATCCATCATC
58.935
41.667
22.83
0.00
42.68
2.92
4157
4981
6.088085
GGCAATATTCAAGAAAAAGACACACG
59.912
38.462
0.00
0.00
0.00
4.49
4217
5044
0.390492
TGCAGATATCCACTGGCTCG
59.610
55.000
0.00
0.00
36.09
5.03
4233
5061
4.568956
AGAATATGCTATACACGCATGCA
58.431
39.130
19.57
0.00
46.69
3.96
4262
5102
4.096311
CGTAGACCACACAATAAGAGACG
58.904
47.826
0.00
0.00
0.00
4.18
4265
5105
4.091509
GCAACGTAGACCACACAATAAGAG
59.908
45.833
0.00
0.00
0.00
2.85
4464
5387
3.339253
TCAGTGCTGCAACATATCAGT
57.661
42.857
2.77
0.00
33.09
3.41
4465
5388
3.487042
GCTTCAGTGCTGCAACATATCAG
60.487
47.826
2.77
0.00
0.00
2.90
4466
5389
2.421073
GCTTCAGTGCTGCAACATATCA
59.579
45.455
2.77
0.00
0.00
2.15
4468
5391
2.719739
AGCTTCAGTGCTGCAACATAT
58.280
42.857
2.77
0.00
42.33
1.78
4469
5392
2.189594
AGCTTCAGTGCTGCAACATA
57.810
45.000
2.77
0.00
42.33
2.29
4470
5393
1.000607
CAAGCTTCAGTGCTGCAACAT
60.001
47.619
2.77
0.00
43.24
2.71
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.