Multiple sequence alignment - TraesCS3A01G297000
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
TraesCS3A01G297000
chr3A
100.000
2594
0
0
1000
3593
531668657
531666064
0.000000e+00
4791.0
1
TraesCS3A01G297000
chr3A
100.000
692
0
0
1
692
531669656
531668965
0.000000e+00
1279.0
2
TraesCS3A01G297000
chr3A
82.069
580
70
21
1297
1850
531667754
531667183
7.030000e-127
464.0
3
TraesCS3A01G297000
chr3A
82.069
580
70
21
1903
2474
531668360
531667807
7.030000e-127
464.0
4
TraesCS3A01G297000
chr3D
92.281
2267
103
28
1337
3589
419560287
419562495
0.000000e+00
3151.0
5
TraesCS3A01G297000
chr3D
84.114
491
46
14
1391
1850
419560926
419561415
2.550000e-121
446.0
6
TraesCS3A01G297000
chr3D
83.992
481
47
14
1994
2474
419560350
419560800
5.510000e-118
435.0
7
TraesCS3A01G297000
chr3D
90.064
312
30
1
1
311
419520327
419520638
1.550000e-108
403.0
8
TraesCS3A01G297000
chr3D
91.129
248
16
4
437
682
419559752
419559995
7.440000e-87
331.0
9
TraesCS3A01G297000
chr3B
90.204
1715
95
18
1890
3589
546183224
546181568
0.000000e+00
2169.0
10
TraesCS3A01G297000
chr3B
86.974
1520
96
41
1699
3184
545813669
545812218
0.000000e+00
1616.0
11
TraesCS3A01G297000
chr3B
94.607
853
38
5
1013
1858
546184074
546183223
0.000000e+00
1314.0
12
TraesCS3A01G297000
chr3B
92.229
682
44
3
1000
1672
545814343
545813662
0.000000e+00
957.0
13
TraesCS3A01G297000
chr3B
91.176
680
50
7
9
682
545815018
545814343
0.000000e+00
915.0
14
TraesCS3A01G297000
chr3B
87.153
576
52
10
1292
1850
545813469
545812899
5.060000e-178
634.0
15
TraesCS3A01G297000
chr3B
83.406
687
76
21
9
682
546184739
546184078
1.430000e-168
603.0
16
TraesCS3A01G297000
chr3B
88.889
387
28
5
1479
1850
546183035
546182649
2.530000e-126
462.0
17
TraesCS3A01G297000
chr3B
84.100
478
46
17
1997
2474
546183678
546183231
5.510000e-118
435.0
18
TraesCS3A01G297000
chr3B
78.392
398
64
18
1903
2292
545814037
545813654
4.640000e-59
239.0
19
TraesCS3A01G297000
chr3B
90.667
150
12
2
2326
2474
545813665
545813517
7.870000e-47
198.0
20
TraesCS3A01G297000
chr7A
91.667
48
3
1
9
56
54678034
54678080
8.330000e-07
65.8
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
TraesCS3A01G297000
chr3A
531666064
531669656
3592
True
1749.500000
4791
91.034500
1
3593
4
chr3A.!!$R1
3592
1
TraesCS3A01G297000
chr3D
419559752
419562495
2743
False
1090.750000
3151
87.879000
437
3589
4
chr3D.!!$F2
3152
2
TraesCS3A01G297000
chr3B
546181568
546184739
3171
True
996.600000
2169
88.241200
9
3589
5
chr3B.!!$R2
3580
3
TraesCS3A01G297000
chr3B
545812218
545815018
2800
True
759.833333
1616
87.765167
9
3184
6
chr3B.!!$R1
3175
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
538
554
0.394899
GCCCACTAAATCCAGCAGCT
60.395
55.0
0.0
0.0
0.0
4.24
F
1220
1254
0.032615
GAGGAGGAGGAGAGAGCCAA
60.033
60.0
0.0
0.0
0.0
4.52
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
2474
2520
0.384669
GCTCTTGCCCTTGATCATGC
59.615
55.0
0.0
0.49
0.00
4.06
R
3093
3158
0.392863
TCAGGATGTGCCATTCACCG
60.393
55.0
0.0
0.00
45.03
4.94
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
35
36
3.694566
ACGGTTCAATTAGGGAGCATTTC
59.305
43.478
0.00
0.00
0.00
2.17
46
47
1.986413
AGCATTTCAGCTCGGGAGT
59.014
52.632
0.00
0.00
42.18
3.85
57
58
1.069091
GCTCGGGAGTAGATACTTCGC
60.069
57.143
0.00
4.98
36.50
4.70
58
59
2.219458
CTCGGGAGTAGATACTTCGCA
58.781
52.381
10.05
2.72
36.50
5.10
121
122
5.123227
CCTTGTTACTTCTTCTCCACACAA
58.877
41.667
0.00
0.00
0.00
3.33
124
125
5.116180
TGTTACTTCTTCTCCACACAAGTG
58.884
41.667
0.00
0.00
45.47
3.16
178
181
0.878523
TGGTCGAGGTGCTTTTGTCG
60.879
55.000
0.00
0.00
0.00
4.35
192
195
5.049267
TGCTTTTGTCGGGTACATCTAAAAC
60.049
40.000
0.00
0.00
38.10
2.43
217
220
6.319141
AGTGCATTTTTAACCTCTTCTGTC
57.681
37.500
0.00
0.00
0.00
3.51
232
235
2.847441
TCTGTCGTATATGGAGCGTCT
58.153
47.619
0.00
0.00
0.00
4.18
263
268
4.314740
TTCATTGCTGGCGTTAGTTTTT
57.685
36.364
0.00
0.00
0.00
1.94
302
307
1.668419
CTCATCCATCCCCAACGTTC
58.332
55.000
0.00
0.00
0.00
3.95
358
366
1.511850
TGATTGTGCGACTGTTGAGG
58.488
50.000
0.00
0.00
0.00
3.86
377
385
1.276989
GGTTCCTCACAATACGACCCA
59.723
52.381
0.00
0.00
0.00
4.51
538
554
0.394899
GCCCACTAAATCCAGCAGCT
60.395
55.000
0.00
0.00
0.00
4.24
582
598
2.539983
GCCCAGAAGTAGGCCCATA
58.460
57.895
0.00
0.00
43.76
2.74
611
627
3.287867
AGAAATGGATTCATCGCACCT
57.712
42.857
0.00
0.00
40.72
4.00
616
632
0.652592
GGATTCATCGCACCTGTTCG
59.347
55.000
0.00
0.00
0.00
3.95
627
643
2.989055
ACCTGTTCGGTCCACAAGCG
62.989
60.000
0.00
0.00
44.93
4.68
682
698
1.471676
CCTAACCCACATCGAGAGCAC
60.472
57.143
0.00
0.00
0.00
4.40
683
699
1.478510
CTAACCCACATCGAGAGCACT
59.521
52.381
0.00
0.00
0.00
4.40
684
700
0.687354
AACCCACATCGAGAGCACTT
59.313
50.000
0.00
0.00
0.00
3.16
685
701
0.687354
ACCCACATCGAGAGCACTTT
59.313
50.000
0.00
0.00
0.00
2.66
686
702
1.338200
ACCCACATCGAGAGCACTTTC
60.338
52.381
0.00
0.00
0.00
2.62
687
703
1.066573
CCCACATCGAGAGCACTTTCT
60.067
52.381
0.00
0.00
0.00
2.52
688
704
2.266554
CCACATCGAGAGCACTTTCTC
58.733
52.381
0.00
0.00
40.16
2.87
689
705
2.353109
CCACATCGAGAGCACTTTCTCA
60.353
50.000
0.00
0.00
43.02
3.27
690
706
3.320626
CACATCGAGAGCACTTTCTCAA
58.679
45.455
0.00
0.00
43.02
3.02
691
707
3.742882
CACATCGAGAGCACTTTCTCAAA
59.257
43.478
0.00
0.00
43.02
2.69
1098
1120
3.782443
GCGATGGGGAAGACGGGT
61.782
66.667
0.00
0.00
0.00
5.28
1099
1121
2.428925
GCGATGGGGAAGACGGGTA
61.429
63.158
0.00
0.00
0.00
3.69
1100
1122
1.740285
CGATGGGGAAGACGGGTAG
59.260
63.158
0.00
0.00
0.00
3.18
1116
1138
1.341778
GGTAGGACGGAGGAGGAGAAA
60.342
57.143
0.00
0.00
0.00
2.52
1119
1141
1.331399
GGACGGAGGAGGAGAAAGGG
61.331
65.000
0.00
0.00
0.00
3.95
1149
1171
1.850755
GGACAAGGGGAAGGGGTCA
60.851
63.158
0.00
0.00
0.00
4.02
1220
1254
0.032615
GAGGAGGAGGAGAGAGCCAA
60.033
60.000
0.00
0.00
0.00
4.52
1635
1669
1.504900
CCTCGACACGGTGATCGAA
59.495
57.895
24.73
14.97
46.01
3.71
1880
1914
0.608035
GTCAATTGCAAGACCCCCGA
60.608
55.000
4.94
0.00
0.00
5.14
1916
1950
1.980765
AGAGGAGGAAGACATGTGCAA
59.019
47.619
1.15
0.00
0.00
4.08
1979
2013
3.721706
AGCGGAGGGGGCAAGAAG
61.722
66.667
0.00
0.00
0.00
2.85
1981
2015
4.115199
CGGAGGGGGCAAGAAGGG
62.115
72.222
0.00
0.00
0.00
3.95
1990
2036
1.377333
GCAAGAAGGGGGAGAACCG
60.377
63.158
0.00
0.00
41.60
4.44
1991
2037
2.067197
CAAGAAGGGGGAGAACCGT
58.933
57.895
0.00
0.00
41.60
4.83
2523
2569
1.137404
GCGCAAGATGTTCGGCATT
59.863
52.632
0.30
0.00
38.06
3.56
2549
2595
0.323542
GACTTCACCGAGGAGGAGGA
60.324
60.000
0.00
0.00
45.00
3.71
2550
2596
0.323908
ACTTCACCGAGGAGGAGGAG
60.324
60.000
0.00
0.00
45.00
3.69
2551
2597
1.000486
TTCACCGAGGAGGAGGAGG
60.000
63.158
0.00
0.00
45.00
4.30
2602
2651
3.002038
TCGAAGAGTAGGAGTCCCTTC
57.998
52.381
5.25
10.37
40.78
3.46
2685
2735
6.349300
TGTTCTGCCTCCTTTATCACTAATC
58.651
40.000
0.00
0.00
0.00
1.75
2703
2753
6.318144
CACTAATCTCCTAGTGGTCGTTTCTA
59.682
42.308
3.34
0.00
43.39
2.10
2706
2756
4.660168
TCTCCTAGTGGTCGTTTCTAAGT
58.340
43.478
0.00
0.00
34.23
2.24
2707
2757
4.699257
TCTCCTAGTGGTCGTTTCTAAGTC
59.301
45.833
0.00
0.00
34.23
3.01
2718
2768
6.419771
GTCGTTTCTAAGTCTTTGTCAAAGG
58.580
40.000
22.23
8.45
39.01
3.11
2722
2772
7.849515
CGTTTCTAAGTCTTTGTCAAAGGTTAC
59.150
37.037
22.23
14.40
39.01
2.50
2750
2800
5.927115
AGTAAGGTCAACTTGATTCGTCTTC
59.073
40.000
0.00
0.00
40.37
2.87
2755
2805
1.345176
CTTGATTCGTCTTCCGCGC
59.655
57.895
0.00
0.00
36.19
6.86
2756
2806
1.351430
CTTGATTCGTCTTCCGCGCA
61.351
55.000
8.75
0.00
36.19
6.09
2774
2825
4.208253
CGCGCACTTAACCTTTTTCATTTT
59.792
37.500
8.75
0.00
0.00
1.82
2775
2826
5.431309
GCGCACTTAACCTTTTTCATTTTG
58.569
37.500
0.30
0.00
0.00
2.44
2782
2833
9.719355
ACTTAACCTTTTTCATTTTGTTCTGTT
57.281
25.926
0.00
0.00
0.00
3.16
2818
2869
6.308041
GGGATCGAATTTGTGTTTAAAGCTTC
59.692
38.462
0.00
0.00
0.00
3.86
2902
2955
4.186159
CCCCATGAATTGCTGTTGAATTC
58.814
43.478
0.00
0.00
39.36
2.17
2931
2984
2.417719
ACTCTTGATCGAAGGTGTTGC
58.582
47.619
0.00
0.00
31.85
4.17
2962
3020
5.609423
ACTATTCTTGATCTGCTTAGCTGG
58.391
41.667
11.04
1.67
0.00
4.85
3087
3152
6.036735
GCAGTGAATATTTGAAATGCTTGCAT
59.963
34.615
1.81
1.81
0.00
3.96
3088
3153
7.398746
CAGTGAATATTTGAAATGCTTGCATG
58.601
34.615
8.98
0.00
0.00
4.06
3089
3154
7.064134
CAGTGAATATTTGAAATGCTTGCATGT
59.936
33.333
8.98
3.13
0.00
3.21
3090
3155
7.064134
AGTGAATATTTGAAATGCTTGCATGTG
59.936
33.333
8.98
0.00
0.00
3.21
3091
3156
6.314152
TGAATATTTGAAATGCTTGCATGTGG
59.686
34.615
8.98
0.00
0.00
4.17
3092
3157
1.798283
TTGAAATGCTTGCATGTGGC
58.202
45.000
8.98
0.00
45.13
5.01
3093
3158
0.037139
TGAAATGCTTGCATGTGGCC
60.037
50.000
8.98
0.00
43.89
5.36
3094
3159
1.079681
AAATGCTTGCATGTGGCCG
60.080
52.632
8.98
0.00
43.89
6.13
3211
3281
7.291182
AGTGAATAGCATATATATCCTGACCCC
59.709
40.741
0.00
0.00
0.00
4.95
3212
3282
7.071196
GTGAATAGCATATATATCCTGACCCCA
59.929
40.741
0.00
0.00
0.00
4.96
3213
3283
7.290948
TGAATAGCATATATATCCTGACCCCAG
59.709
40.741
0.00
0.00
40.09
4.45
3224
3294
1.984026
GACCCCAGGCAATTGGTGG
60.984
63.158
7.72
0.00
36.45
4.61
3225
3295
2.120274
CCCCAGGCAATTGGTGGT
59.880
61.111
7.72
0.00
36.45
4.16
3226
3296
1.386155
CCCCAGGCAATTGGTGGTA
59.614
57.895
7.72
0.00
36.45
3.25
3227
3297
0.032217
CCCCAGGCAATTGGTGGTAT
60.032
55.000
7.72
0.00
36.45
2.73
3228
3298
1.216678
CCCCAGGCAATTGGTGGTATA
59.783
52.381
7.72
0.00
36.45
1.47
3229
3299
2.358721
CCCCAGGCAATTGGTGGTATAA
60.359
50.000
7.72
0.00
36.45
0.98
3230
3300
3.370104
CCCAGGCAATTGGTGGTATAAA
58.630
45.455
7.72
0.00
36.45
1.40
3231
3301
3.384467
CCCAGGCAATTGGTGGTATAAAG
59.616
47.826
7.72
0.00
36.45
1.85
3232
3302
3.384467
CCAGGCAATTGGTGGTATAAAGG
59.616
47.826
7.72
0.00
33.38
3.11
3233
3303
3.384467
CAGGCAATTGGTGGTATAAAGGG
59.616
47.826
7.72
0.00
0.00
3.95
3281
3351
4.572795
TGTGTTTTGCTTGACTACATTCGA
59.427
37.500
0.00
0.00
0.00
3.71
3282
3352
5.238432
TGTGTTTTGCTTGACTACATTCGAT
59.762
36.000
0.00
0.00
0.00
3.59
3284
3354
7.041712
TGTGTTTTGCTTGACTACATTCGATTA
60.042
33.333
0.00
0.00
0.00
1.75
3336
3406
2.460757
AATTTTGGCATGTGGCTCAC
57.539
45.000
8.09
0.00
44.01
3.51
3401
3471
6.957631
ACCTTATCAGTCAATTGTCACCATA
58.042
36.000
5.13
0.00
0.00
2.74
3440
3510
7.919690
TCTTGTCTTGTTCTTATGTTTGAGTG
58.080
34.615
0.00
0.00
0.00
3.51
3445
3515
8.012241
GTCTTGTTCTTATGTTTGAGTGTGATC
58.988
37.037
0.00
0.00
0.00
2.92
3446
3516
7.933577
TCTTGTTCTTATGTTTGAGTGTGATCT
59.066
33.333
0.00
0.00
0.00
2.75
3447
3517
8.450578
TTGTTCTTATGTTTGAGTGTGATCTT
57.549
30.769
0.00
0.00
0.00
2.40
3448
3518
9.554395
TTGTTCTTATGTTTGAGTGTGATCTTA
57.446
29.630
0.00
0.00
0.00
2.10
3449
3519
9.725019
TGTTCTTATGTTTGAGTGTGATCTTAT
57.275
29.630
0.00
0.00
0.00
1.73
3462
3536
7.497595
AGTGTGATCTTATTATTCGCTTGGTA
58.502
34.615
0.00
0.00
0.00
3.25
3506
3581
5.340803
TCTTCTGTATTTCGATGAAGGACG
58.659
41.667
0.00
0.00
35.98
4.79
3508
3583
4.421058
TCTGTATTTCGATGAAGGACGTG
58.579
43.478
0.00
0.00
0.00
4.49
3512
3587
1.014044
TTCGATGAAGGACGTGCTGC
61.014
55.000
11.44
9.83
0.00
5.25
3515
3592
0.723981
GATGAAGGACGTGCTGCTTC
59.276
55.000
16.83
15.30
45.40
3.86
3520
3597
1.230324
AGGACGTGCTGCTTCTTTTC
58.770
50.000
9.49
0.00
0.00
2.29
3525
3602
4.261031
GGACGTGCTGCTTCTTTTCTTTTA
60.261
41.667
0.00
0.00
0.00
1.52
3534
3611
7.639113
TGCTTCTTTTCTTTTACCTTTGAGA
57.361
32.000
0.00
0.00
0.00
3.27
3540
3617
7.920682
TCTTTTCTTTTACCTTTGAGATTGCAC
59.079
33.333
0.00
0.00
0.00
4.57
3545
3622
3.228188
ACCTTTGAGATTGCACCTTCA
57.772
42.857
0.00
0.00
0.00
3.02
3579
3656
4.194640
AGCTGAGTGTATCATTTGCGATT
58.805
39.130
0.00
0.00
37.28
3.34
3580
3657
5.359756
AGCTGAGTGTATCATTTGCGATTA
58.640
37.500
0.00
0.00
37.28
1.75
3589
3666
8.818057
GTGTATCATTTGCGATTAGTAAACTCT
58.182
33.333
0.00
0.00
37.26
3.24
3590
3667
9.031360
TGTATCATTTGCGATTAGTAAACTCTC
57.969
33.333
0.00
0.00
37.26
3.20
3591
3668
9.031360
GTATCATTTGCGATTAGTAAACTCTCA
57.969
33.333
0.00
0.00
37.26
3.27
3592
3669
7.290857
TCATTTGCGATTAGTAAACTCTCAC
57.709
36.000
0.00
0.00
37.26
3.51
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
0
1
9.250624
CCTAATTGAACCGTAAAATTGAAACAA
57.749
29.630
0.00
0.00
0.00
2.83
1
2
7.868415
CCCTAATTGAACCGTAAAATTGAAACA
59.132
33.333
0.00
0.00
0.00
2.83
2
3
8.083462
TCCCTAATTGAACCGTAAAATTGAAAC
58.917
33.333
0.00
0.00
0.00
2.78
3
4
8.179509
TCCCTAATTGAACCGTAAAATTGAAA
57.820
30.769
0.00
0.00
0.00
2.69
4
5
7.576098
GCTCCCTAATTGAACCGTAAAATTGAA
60.576
37.037
0.00
0.00
0.00
2.69
5
6
6.127842
GCTCCCTAATTGAACCGTAAAATTGA
60.128
38.462
0.00
0.00
0.00
2.57
6
7
6.033966
GCTCCCTAATTGAACCGTAAAATTG
58.966
40.000
0.00
0.00
0.00
2.32
7
8
5.712917
TGCTCCCTAATTGAACCGTAAAATT
59.287
36.000
0.00
0.00
0.00
1.82
15
16
4.440663
GCTGAAATGCTCCCTAATTGAACC
60.441
45.833
0.00
0.00
0.00
3.62
35
36
2.224549
CGAAGTATCTACTCCCGAGCTG
59.775
54.545
0.00
0.00
35.64
4.24
57
58
3.582998
TGGATTTGAGGGCTTAGGATG
57.417
47.619
0.00
0.00
0.00
3.51
58
59
4.821532
AATGGATTTGAGGGCTTAGGAT
57.178
40.909
0.00
0.00
0.00
3.24
88
89
4.595986
AGAAGTAACAAGGGTTGTGTTGT
58.404
39.130
0.18
0.00
44.59
3.32
146
147
2.432146
CCTCGACCAGATGGATTTCTGA
59.568
50.000
5.72
0.00
44.88
3.27
164
167
1.154197
GTACCCGACAAAAGCACCTC
58.846
55.000
0.00
0.00
0.00
3.85
178
181
3.592059
TGCACTCGTTTTAGATGTACCC
58.408
45.455
0.00
0.00
0.00
3.69
192
195
5.049405
ACAGAAGAGGTTAAAAATGCACTCG
60.049
40.000
0.00
0.00
0.00
4.18
217
220
4.713806
CAAGACTAGACGCTCCATATACG
58.286
47.826
0.00
0.00
0.00
3.06
263
268
1.475034
GGTTCTCTCTTGTGCACCACA
60.475
52.381
15.69
0.00
43.02
4.17
358
366
2.232941
TCTGGGTCGTATTGTGAGGAAC
59.767
50.000
0.00
0.00
0.00
3.62
383
391
5.728637
ATGGAATTGAAAGGTTTCAGACC
57.271
39.130
5.35
10.10
46.68
3.85
403
411
3.976942
CACACGCAAAAGGAAGAAGAATG
59.023
43.478
0.00
0.00
0.00
2.67
446
460
8.363390
TCATGAAGGAGATATAGCAACACTAAG
58.637
37.037
0.00
0.00
33.57
2.18
448
462
7.839680
TCATGAAGGAGATATAGCAACACTA
57.160
36.000
0.00
0.00
34.64
2.74
449
463
6.737720
TCATGAAGGAGATATAGCAACACT
57.262
37.500
0.00
0.00
0.00
3.55
493
509
7.092716
CCATTTGTAATATTATGCTTGAGCCC
58.907
38.462
0.00
0.00
41.18
5.19
538
554
4.016444
ACTGAAACAAGCTGGAGTTTTGA
58.984
39.130
11.88
4.06
38.01
2.69
582
598
2.019984
GAATCCATTTCTTCTGCCGCT
58.980
47.619
0.00
0.00
0.00
5.52
611
627
2.970324
GCGCTTGTGGACCGAACA
60.970
61.111
0.00
0.00
0.00
3.18
627
643
4.819761
TGGCCGAGAGTGCGATGC
62.820
66.667
0.00
0.00
0.00
3.91
630
646
1.447838
GAAATGGCCGAGAGTGCGA
60.448
57.895
0.00
0.00
0.00
5.10
1018
1034
4.880426
TCCCGCCCCCATCTCCTC
62.880
72.222
0.00
0.00
0.00
3.71
1098
1120
1.063867
CCTTTCTCCTCCTCCGTCCTA
60.064
57.143
0.00
0.00
0.00
2.94
1099
1121
0.324830
CCTTTCTCCTCCTCCGTCCT
60.325
60.000
0.00
0.00
0.00
3.85
1100
1122
1.331399
CCCTTTCTCCTCCTCCGTCC
61.331
65.000
0.00
0.00
0.00
4.79
1129
1151
2.933834
CCCCTTCCCCTTGTCCGT
60.934
66.667
0.00
0.00
0.00
4.69
1149
1171
0.898789
TCTCTTCCTTCTCCGCCGTT
60.899
55.000
0.00
0.00
0.00
4.44
1220
1254
1.779061
TTCTCCCTTTTGCTCCGCCT
61.779
55.000
0.00
0.00
0.00
5.52
1622
1656
1.203758
TGCAGTATTCGATCACCGTGT
59.796
47.619
0.00
0.00
39.75
4.49
1880
1914
1.693062
CCTCTATCTGGTGCATCTGCT
59.307
52.381
0.00
0.00
42.66
4.24
1916
1950
4.828072
GGAGTAAGTCCAGAGAACCATT
57.172
45.455
0.00
0.00
46.10
3.16
1979
2013
2.059345
TTGACCAACGGTTCTCCCCC
62.059
60.000
0.00
0.00
35.25
5.40
1981
2015
2.625375
GTTGACCAACGGTTCTCCC
58.375
57.895
0.00
0.00
35.25
4.30
1990
2036
3.047877
CTCCGGCCGTTGACCAAC
61.048
66.667
26.12
2.94
37.92
3.77
1991
2037
4.323477
CCTCCGGCCGTTGACCAA
62.323
66.667
26.12
0.00
0.00
3.67
2474
2520
0.384669
GCTCTTGCCCTTGATCATGC
59.615
55.000
0.00
0.49
0.00
4.06
2523
2569
3.220999
CTCGGTGAAGTCGGTGGCA
62.221
63.158
0.00
0.00
0.00
4.92
2549
2595
2.494073
CTCTCTTTACGCAGTTCCTCCT
59.506
50.000
0.00
0.00
37.78
3.69
2550
2596
2.231721
ACTCTCTTTACGCAGTTCCTCC
59.768
50.000
0.00
0.00
37.78
4.30
2551
2597
3.503891
GACTCTCTTTACGCAGTTCCTC
58.496
50.000
0.00
0.00
37.78
3.71
2602
2651
0.519175
CGCAGAAATGGCTTCGAACG
60.519
55.000
0.00
0.00
39.22
3.95
2685
2735
4.701171
AGACTTAGAAACGACCACTAGGAG
59.299
45.833
0.00
0.00
38.69
3.69
2703
2753
5.751586
TCCTGTAACCTTTGACAAAGACTT
58.248
37.500
26.14
18.45
41.02
3.01
2706
2756
5.367945
ACTCCTGTAACCTTTGACAAAGA
57.632
39.130
26.14
6.61
41.02
2.52
2707
2757
6.204882
CCTTACTCCTGTAACCTTTGACAAAG
59.795
42.308
19.20
19.20
35.14
2.77
2718
2768
5.850614
TCAAGTTGACCTTACTCCTGTAAC
58.149
41.667
0.08
0.00
35.14
2.50
2722
2772
4.627467
CGAATCAAGTTGACCTTACTCCTG
59.373
45.833
7.96
0.00
0.00
3.86
2750
2800
1.002251
TGAAAAAGGTTAAGTGCGCGG
60.002
47.619
8.83
0.00
0.00
6.46
2755
2805
9.150348
ACAGAACAAAATGAAAAAGGTTAAGTG
57.850
29.630
0.00
0.00
0.00
3.16
2756
2806
9.719355
AACAGAACAAAATGAAAAAGGTTAAGT
57.281
25.926
0.00
0.00
0.00
2.24
2774
2825
5.047566
TCCCAATCTTCTTCAACAGAACA
57.952
39.130
0.00
0.00
36.51
3.18
2775
2826
5.163814
CGATCCCAATCTTCTTCAACAGAAC
60.164
44.000
0.00
0.00
36.51
3.01
2782
2833
5.945784
ACAAATTCGATCCCAATCTTCTTCA
59.054
36.000
0.00
0.00
0.00
3.02
2818
2869
1.400629
CCACTTGAAGCATGCAGTTCG
60.401
52.381
21.98
7.59
0.00
3.95
2902
2955
4.358851
CTTCGATCAAGAGTAGCTGAAGG
58.641
47.826
0.00
0.00
33.29
3.46
2931
2984
7.151999
AGCAGATCAAGAATAGTACTATCCG
57.848
40.000
15.72
5.39
0.00
4.18
3092
3157
1.077501
AGGATGTGCCATTCACCGG
60.078
57.895
0.00
0.00
45.03
5.28
3093
3158
0.392863
TCAGGATGTGCCATTCACCG
60.393
55.000
0.00
0.00
45.03
4.94
3094
3159
1.679680
CATCAGGATGTGCCATTCACC
59.320
52.381
1.07
0.00
45.03
4.02
3211
3281
3.384467
CCCTTTATACCACCAATTGCCTG
59.616
47.826
0.00
0.00
0.00
4.85
3212
3282
3.270960
TCCCTTTATACCACCAATTGCCT
59.729
43.478
0.00
0.00
0.00
4.75
3213
3283
3.636764
CTCCCTTTATACCACCAATTGCC
59.363
47.826
0.00
0.00
0.00
4.52
3231
3301
7.090082
AATCCAATGTGGGATAAGAAACTCCC
61.090
42.308
0.49
0.49
46.96
4.30
3232
3302
4.855340
TCCAATGTGGGATAAGAAACTCC
58.145
43.478
0.00
0.00
38.32
3.85
3233
3303
6.378280
ACAATCCAATGTGGGATAAGAAACTC
59.622
38.462
0.00
0.00
46.96
3.01
3315
3385
3.514645
GTGAGCCACATGCCAAAATTAG
58.485
45.455
0.00
0.00
42.71
1.73
3370
3440
8.999431
TGACAATTGACTGATAAGGTTAGTTTC
58.001
33.333
13.59
0.00
0.00
2.78
3401
3471
7.125792
ACAAGACAAGATCCTTATCCGTTAT
57.874
36.000
0.00
0.00
31.98
1.89
3440
3510
8.988934
TGAATACCAAGCGAATAATAAGATCAC
58.011
33.333
0.00
0.00
0.00
3.06
3446
3516
9.990360
TCATACTGAATACCAAGCGAATAATAA
57.010
29.630
0.00
0.00
0.00
1.40
3448
3518
9.155975
GATCATACTGAATACCAAGCGAATAAT
57.844
33.333
0.00
0.00
0.00
1.28
3449
3519
8.367911
AGATCATACTGAATACCAAGCGAATAA
58.632
33.333
0.00
0.00
0.00
1.40
3451
3521
6.763355
AGATCATACTGAATACCAAGCGAAT
58.237
36.000
0.00
0.00
0.00
3.34
3452
3522
6.161855
AGATCATACTGAATACCAAGCGAA
57.838
37.500
0.00
0.00
0.00
4.70
3454
3524
9.809096
ATATAAGATCATACTGAATACCAAGCG
57.191
33.333
0.00
0.00
0.00
4.68
3506
3581
5.188327
AGGTAAAAGAAAAGAAGCAGCAC
57.812
39.130
0.00
0.00
0.00
4.40
3508
3583
6.273071
TCAAAGGTAAAAGAAAAGAAGCAGC
58.727
36.000
0.00
0.00
0.00
5.25
3512
3587
8.972349
GCAATCTCAAAGGTAAAAGAAAAGAAG
58.028
33.333
0.00
0.00
0.00
2.85
3515
3592
7.169813
GGTGCAATCTCAAAGGTAAAAGAAAAG
59.830
37.037
0.00
0.00
0.00
2.27
3520
3597
5.712152
AGGTGCAATCTCAAAGGTAAAAG
57.288
39.130
0.00
0.00
0.00
2.27
3525
3602
3.228188
TGAAGGTGCAATCTCAAAGGT
57.772
42.857
0.00
0.00
0.00
3.50
3534
3611
6.038714
GCTTAATACTAGCTTGAAGGTGCAAT
59.961
38.462
7.22
0.00
35.74
3.56
3540
3617
6.478344
CACTCAGCTTAATACTAGCTTGAAGG
59.522
42.308
1.04
0.00
46.42
3.46
3545
3622
8.239038
TGATACACTCAGCTTAATACTAGCTT
57.761
34.615
0.00
0.00
46.42
3.74
3562
3639
8.718102
AGTTTACTAATCGCAAATGATACACT
57.282
30.769
0.00
0.00
0.00
3.55
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.