Multiple sequence alignment - TraesCS3B01G042200
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
TraesCS3B01G042200
chr3B
100.000
3939
0
0
1
3939
21388054
21384116
0.000000e+00
7275.0
1
TraesCS3B01G042200
chr3B
88.073
1048
101
12
673
1709
21346698
21345664
0.000000e+00
1221.0
2
TraesCS3B01G042200
chr3B
77.759
1214
221
26
744
1938
11187219
11186036
0.000000e+00
701.0
3
TraesCS3B01G042200
chr3B
81.203
798
100
27
2023
2779
21334666
21333878
7.290000e-167
597.0
4
TraesCS3B01G042200
chr3B
85.918
561
49
12
54
595
21347228
21346679
4.420000e-159
571.0
5
TraesCS3B01G042200
chr3B
88.393
336
35
3
1695
2026
21337085
21336750
6.130000e-108
401.0
6
TraesCS3B01G042200
chr3B
81.768
362
53
6
221
572
11231516
11231874
1.380000e-74
291.0
7
TraesCS3B01G042200
chr3B
85.185
243
31
4
2450
2690
11182387
11182148
1.090000e-60
244.0
8
TraesCS3B01G042200
chr3B
95.000
40
2
0
1906
1945
11233169
11233208
3.290000e-06
63.9
9
TraesCS3B01G042200
chr3D
91.267
3332
222
34
632
3920
14416156
14412851
0.000000e+00
4477.0
10
TraesCS3B01G042200
chr3D
86.891
1602
135
31
146
1709
14407225
14405661
0.000000e+00
1725.0
11
TraesCS3B01G042200
chr3D
79.640
1277
199
34
704
1946
9105585
9106834
0.000000e+00
861.0
12
TraesCS3B01G042200
chr3D
89.875
642
48
5
43
669
14416710
14416071
0.000000e+00
809.0
13
TraesCS3B01G042200
chr3D
79.000
600
77
26
2825
3414
14391105
14390545
8.040000e-97
364.0
14
TraesCS3B01G042200
chr3D
83.792
327
39
7
1711
2026
14396463
14396140
8.270000e-77
298.0
15
TraesCS3B01G042200
chr3D
82.581
155
21
1
2631
2779
14393693
14393539
8.880000e-27
132.0
16
TraesCS3B01G042200
chr3A
94.934
1599
55
12
571
2153
22247956
22249544
0.000000e+00
2481.0
17
TraesCS3B01G042200
chr3A
84.397
1410
154
41
2156
3531
22249609
22250986
0.000000e+00
1325.0
18
TraesCS3B01G042200
chr3A
87.994
683
53
12
24
680
22247431
22248110
0.000000e+00
780.0
19
TraesCS3B01G042200
chr3A
77.439
492
78
21
221
692
11882914
11882436
3.020000e-66
263.0
20
TraesCS3B01G042200
chr7A
77.982
1635
263
56
279
1875
635552574
635554149
0.000000e+00
935.0
21
TraesCS3B01G042200
chr7A
75.000
312
44
27
1954
2232
635554850
635555160
3.220000e-21
113.0
22
TraesCS3B01G042200
chr7B
76.276
1724
255
85
193
1875
594763553
594765163
0.000000e+00
776.0
23
TraesCS3B01G042200
chr6A
78.272
382
59
20
199
558
106986286
106985907
1.420000e-54
224.0
24
TraesCS3B01G042200
chr5B
76.724
348
56
19
224
552
525447611
525447952
1.880000e-38
171.0
25
TraesCS3B01G042200
chr5D
76.504
349
55
23
224
552
432781794
432782135
8.760000e-37
165.0
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
TraesCS3B01G042200
chr3B
21384116
21388054
3938
True
7275.000000
7275
100.000000
1
3939
1
chr3B.!!$R1
3938
1
TraesCS3B01G042200
chr3B
21345664
21347228
1564
True
896.000000
1221
86.995500
54
1709
2
chr3B.!!$R4
1655
2
TraesCS3B01G042200
chr3B
21333878
21337085
3207
True
499.000000
597
84.798000
1695
2779
2
chr3B.!!$R3
1084
3
TraesCS3B01G042200
chr3B
11182148
11187219
5071
True
472.500000
701
81.472000
744
2690
2
chr3B.!!$R2
1946
4
TraesCS3B01G042200
chr3D
14412851
14416710
3859
True
2643.000000
4477
90.571000
43
3920
2
chr3D.!!$R3
3877
5
TraesCS3B01G042200
chr3D
14405661
14407225
1564
True
1725.000000
1725
86.891000
146
1709
1
chr3D.!!$R1
1563
6
TraesCS3B01G042200
chr3D
9105585
9106834
1249
False
861.000000
861
79.640000
704
1946
1
chr3D.!!$F1
1242
7
TraesCS3B01G042200
chr3D
14390545
14396463
5918
True
264.666667
364
81.791000
1711
3414
3
chr3D.!!$R2
1703
8
TraesCS3B01G042200
chr3A
22247431
22250986
3555
False
1528.666667
2481
89.108333
24
3531
3
chr3A.!!$F1
3507
9
TraesCS3B01G042200
chr7A
635552574
635555160
2586
False
524.000000
935
76.491000
279
2232
2
chr7A.!!$F1
1953
10
TraesCS3B01G042200
chr7B
594763553
594765163
1610
False
776.000000
776
76.276000
193
1875
1
chr7B.!!$F1
1682
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
722
787
0.041135
GAAGACGACGGCGAGGATAG
60.041
60.0
22.49
0.0
41.64
2.08
F
1374
1535
0.459585
TAGCTGGAATCGTTCGGTGC
60.460
55.0
0.00
0.0
0.00
5.01
F
2381
4812
0.105964
TGTCACAAACAGACCCGGAG
59.894
55.0
0.73
0.0
35.15
4.63
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
1579
1740
2.685897
GCTGTGTACCAACCAAAGAACA
59.314
45.455
0.00
0.00
0.00
3.18
R
2749
8574
1.133976
CCCTGCCTGATAAACCTGGAG
60.134
57.143
0.00
0.00
0.00
3.86
R
3582
11815
0.455410
TTCACCTTGTTGTGCAGCAC
59.545
50.000
19.37
19.37
36.17
4.40
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
124
131
4.720902
TGCATGTCGGCCTGGTGG
62.721
66.667
0.00
0.00
0.00
4.61
179
189
1.003580
CCCACACAATAGTCACTGCCT
59.996
52.381
0.00
0.00
0.00
4.75
185
197
4.286032
ACACAATAGTCACTGCCTCCTTTA
59.714
41.667
0.00
0.00
0.00
1.85
275
288
0.771755
GAAGAAACCCCCACCACTCT
59.228
55.000
0.00
0.00
0.00
3.24
277
290
1.003718
GAAACCCCCACCACTCTCG
60.004
63.158
0.00
0.00
0.00
4.04
283
296
3.680786
CCACCACTCTCGCCGACA
61.681
66.667
0.00
0.00
0.00
4.35
313
326
0.752376
CCCTCGACCTAGACACCCTC
60.752
65.000
0.00
0.00
0.00
4.30
319
332
2.050350
CCTAGACACCCTCCGCGAA
61.050
63.158
8.23
0.00
0.00
4.70
435
461
4.181010
CTCCATCCACCCCCGCTG
62.181
72.222
0.00
0.00
0.00
5.18
444
470
3.164269
CCCCCGCTGCTAGGTCAT
61.164
66.667
0.00
0.00
0.00
3.06
596
631
4.754667
GTCCGTTCCTGTCCCCGC
62.755
72.222
0.00
0.00
0.00
6.13
614
649
3.702048
CCCCGCCCTCGAAGACAA
61.702
66.667
0.00
0.00
38.10
3.18
615
650
2.434359
CCCGCCCTCGAAGACAAC
60.434
66.667
0.00
0.00
38.10
3.32
616
651
2.809601
CCGCCCTCGAAGACAACG
60.810
66.667
0.00
0.00
38.10
4.10
617
652
2.809601
CGCCCTCGAAGACAACGG
60.810
66.667
0.00
0.00
38.10
4.44
618
653
3.119096
GCCCTCGAAGACAACGGC
61.119
66.667
0.00
0.00
0.00
5.68
619
654
2.809601
CCCTCGAAGACAACGGCG
60.810
66.667
4.80
4.80
0.00
6.46
620
655
2.257371
CCTCGAAGACAACGGCGA
59.743
61.111
16.62
0.00
0.00
5.54
621
656
1.153823
CCTCGAAGACAACGGCGAT
60.154
57.895
16.62
0.00
31.87
4.58
622
657
1.413767
CCTCGAAGACAACGGCGATG
61.414
60.000
16.62
16.22
31.87
3.84
623
658
1.413767
CTCGAAGACAACGGCGATGG
61.414
60.000
21.20
8.72
31.87
3.51
624
659
2.785258
GAAGACAACGGCGATGGC
59.215
61.111
21.20
18.77
38.90
4.40
633
668
2.742372
GGCGATGGCGTGTCTGTT
60.742
61.111
0.00
0.00
41.24
3.16
634
669
2.740714
GGCGATGGCGTGTCTGTTC
61.741
63.158
0.00
0.00
41.24
3.18
635
670
2.740714
GCGATGGCGTGTCTGTTCC
61.741
63.158
0.00
0.00
40.36
3.62
636
671
1.079819
CGATGGCGTGTCTGTTCCT
60.080
57.895
0.00
0.00
0.00
3.36
637
672
1.354337
CGATGGCGTGTCTGTTCCTG
61.354
60.000
0.00
0.00
0.00
3.86
638
673
0.320771
GATGGCGTGTCTGTTCCTGT
60.321
55.000
0.00
0.00
0.00
4.00
639
674
0.320771
ATGGCGTGTCTGTTCCTGTC
60.321
55.000
0.00
0.00
0.00
3.51
640
675
1.668151
GGCGTGTCTGTTCCTGTCC
60.668
63.158
0.00
0.00
0.00
4.02
641
676
1.668151
GCGTGTCTGTTCCTGTCCC
60.668
63.158
0.00
0.00
0.00
4.46
642
677
1.004918
CGTGTCTGTTCCTGTCCCC
60.005
63.158
0.00
0.00
0.00
4.81
643
678
1.004918
GTGTCTGTTCCTGTCCCCG
60.005
63.158
0.00
0.00
0.00
5.73
644
679
2.047179
GTCTGTTCCTGTCCCCGC
60.047
66.667
0.00
0.00
0.00
6.13
721
786
1.769098
CGAAGACGACGGCGAGGATA
61.769
60.000
22.49
0.00
42.66
2.59
722
787
0.041135
GAAGACGACGGCGAGGATAG
60.041
60.000
22.49
0.00
41.64
2.08
742
857
1.587043
CGTCTCTGGCTCCGAAGACA
61.587
60.000
15.97
0.00
38.59
3.41
1076
1224
3.272031
GCTCTGGCCTCAAACTGC
58.728
61.111
3.32
0.00
0.00
4.40
1374
1535
0.459585
TAGCTGGAATCGTTCGGTGC
60.460
55.000
0.00
0.00
0.00
5.01
1579
1740
0.464373
CTACATCATGCCGTGGCCTT
60.464
55.000
8.69
0.00
41.09
4.35
1702
1878
2.929641
TGAACTGTTGTCTTGCCATGA
58.070
42.857
0.00
0.00
0.00
3.07
1829
2021
6.554982
TCCTACTCTATGCATACTGGAAATGT
59.445
38.462
1.16
0.00
0.00
2.71
2034
4383
9.515226
TCATTTTACTTCTGTTAGCAAGGTTAT
57.485
29.630
0.00
0.00
0.00
1.89
2106
4460
2.437281
AGCTGGCTGTGCTATGTAGAAT
59.563
45.455
0.00
0.00
39.21
2.40
2139
4494
4.342092
AGTGTAATTCTTTTTGCAGGTGCT
59.658
37.500
3.18
0.00
42.66
4.40
2153
4508
3.676646
GCAGGTGCTCATCATTTGTTTTC
59.323
43.478
0.00
0.00
38.21
2.29
2157
4574
7.262772
CAGGTGCTCATCATTTGTTTTCATAT
58.737
34.615
0.00
0.00
0.00
1.78
2217
4636
6.807230
GGTCCTAGCAATATATCACTAACACG
59.193
42.308
0.00
0.00
0.00
4.49
2381
4812
0.105964
TGTCACAAACAGACCCGGAG
59.894
55.000
0.73
0.00
35.15
4.63
2408
4839
5.296283
CAGGAAAGATGGTCAGCTATTTCTG
59.704
44.000
0.00
0.00
35.46
3.02
2442
8239
6.957631
ACAAGTTATACAATGTCATCTCCCA
58.042
36.000
0.00
0.00
0.00
4.37
2749
8574
5.586243
TGAAATGATAGCAACCTAGAGCAAC
59.414
40.000
0.00
0.00
0.00
4.17
2755
8580
1.677217
GCAACCTAGAGCAACTCCAGG
60.677
57.143
7.43
7.43
43.34
4.45
2808
11016
3.988976
TTCTCTGATTTAGCAGCCAGT
57.011
42.857
0.00
0.00
35.86
4.00
2886
11110
4.869297
GGGCTGATCGAATTGATATCTCTG
59.131
45.833
3.98
0.00
37.47
3.35
2938
11162
5.282055
AGACACACAATTCTCTTCTGTGA
57.718
39.130
8.32
0.00
42.48
3.58
2951
11175
7.664082
TCTCTTCTGTGATCTTGAATTGAAC
57.336
36.000
0.00
0.00
0.00
3.18
3015
11240
4.843220
AAGGTGCAGAAGAAGAAACATG
57.157
40.909
0.00
0.00
0.00
3.21
3115
11343
1.470979
GCAAGCAGGGCTTCATCAATG
60.471
52.381
0.00
0.00
46.77
2.82
3121
11349
1.005097
AGGGCTTCATCAATGTGCTGA
59.995
47.619
9.30
0.00
0.00
4.26
3148
11376
5.255687
TGTTGGTTCACATGCAGAATCTAT
58.744
37.500
11.62
0.00
0.00
1.98
3208
11436
1.178276
CCGTAGAGCTCTCAAGGTGT
58.822
55.000
22.17
0.00
32.07
4.16
3285
11514
6.533819
TGTATTGAAACAGTTTCGGTACAG
57.466
37.500
25.00
0.00
42.55
2.74
3302
11531
5.637810
CGGTACAGCAATTAGAGAAGAAACA
59.362
40.000
0.00
0.00
0.00
2.83
3306
11535
7.750229
ACAGCAATTAGAGAAGAAACAATCA
57.250
32.000
0.00
0.00
0.00
2.57
3326
11555
3.758023
TCAGAATTTGCCATTGTCGTCAT
59.242
39.130
0.00
0.00
0.00
3.06
3409
11639
6.741992
AACAGAGCGAATGTGAATTTGATA
57.258
33.333
0.00
0.00
0.00
2.15
3420
11650
6.415798
TGTGAATTTGATATACACACACCG
57.584
37.500
0.00
0.00
36.72
4.94
3444
11674
6.128902
CGGAAGACAAATACGTAGCAATATCC
60.129
42.308
0.08
3.05
0.00
2.59
3482
11713
7.062956
GCAAACAAAAATAACCTATAGTGGTGC
59.937
37.037
0.00
0.00
40.73
5.01
3483
11714
6.769134
ACAAAAATAACCTATAGTGGTGCC
57.231
37.500
0.00
0.00
40.73
5.01
3485
11716
5.362105
AAAATAACCTATAGTGGTGCCGA
57.638
39.130
0.00
0.00
40.73
5.54
3490
11721
2.158445
ACCTATAGTGGTGCCGAGAGAT
60.158
50.000
0.00
0.00
39.17
2.75
3491
11722
2.894126
CCTATAGTGGTGCCGAGAGATT
59.106
50.000
0.00
0.00
0.00
2.40
3492
11723
3.057174
CCTATAGTGGTGCCGAGAGATTC
60.057
52.174
0.00
0.00
0.00
2.52
3493
11724
1.112113
TAGTGGTGCCGAGAGATTCC
58.888
55.000
0.00
0.00
0.00
3.01
3494
11725
0.904865
AGTGGTGCCGAGAGATTCCA
60.905
55.000
0.00
0.00
0.00
3.53
3495
11726
0.179000
GTGGTGCCGAGAGATTCCAT
59.821
55.000
0.00
0.00
0.00
3.41
3540
11772
1.001641
AGATTGCTGGTGTGGCCTC
60.002
57.895
3.32
0.00
38.35
4.70
3541
11773
2.360350
ATTGCTGGTGTGGCCTCG
60.360
61.111
3.32
0.00
38.35
4.63
3582
11815
0.549950
AGATGGGTGGCCTCATTCTG
59.450
55.000
3.32
0.00
0.00
3.02
3614
11847
2.127651
AGGTGAACCCTTGTCCCTAA
57.872
50.000
0.00
0.00
42.73
2.69
3616
11849
2.375509
AGGTGAACCCTTGTCCCTAAAG
59.624
50.000
0.00
0.00
42.73
1.85
3621
11854
5.361571
GTGAACCCTTGTCCCTAAAGAAAAA
59.638
40.000
0.00
0.00
0.00
1.94
3682
11915
7.363431
GGGCTATGTAAATAACTTCTCATTGC
58.637
38.462
0.00
0.00
33.76
3.56
3720
11953
5.898061
GCTTTTGCATTTTCTCGAAAAACAG
59.102
36.000
8.69
4.27
46.58
3.16
3727
11960
7.012515
TGCATTTTCTCGAAAAACAGTAAGGTA
59.987
33.333
8.69
0.00
42.71
3.08
3758
11991
9.817809
GAAAACTAGAACTGGGAATTTCTTTTT
57.182
29.630
0.00
0.00
33.96
1.94
3759
11992
9.599866
AAAACTAGAACTGGGAATTTCTTTTTG
57.400
29.630
0.00
0.00
33.96
2.44
3891
12124
6.638096
TCAAGATGTTGATGTGTTGTTGAT
57.362
33.333
0.23
0.00
37.79
2.57
3907
12140
3.216800
GTTGATGATTGCTGGCCATCTA
58.783
45.455
5.51
0.00
37.97
1.98
3920
12153
3.130869
TGGCCATCTATGCACATTTGAAC
59.869
43.478
0.00
0.00
0.00
3.18
3921
12154
3.130869
GGCCATCTATGCACATTTGAACA
59.869
43.478
0.00
0.00
0.00
3.18
3924
12157
5.916883
GCCATCTATGCACATTTGAACATAC
59.083
40.000
0.00
0.00
0.00
2.39
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
10
11
9.185680
GGGTAGACTGAAACCAATGTTTATTAT
57.814
33.333
0.00
0.00
44.57
1.28
11
12
7.334921
CGGGTAGACTGAAACCAATGTTTATTA
59.665
37.037
0.00
0.00
44.57
0.98
12
13
6.150474
CGGGTAGACTGAAACCAATGTTTATT
59.850
38.462
0.00
0.00
44.57
1.40
13
14
5.646360
CGGGTAGACTGAAACCAATGTTTAT
59.354
40.000
0.00
0.00
44.57
1.40
14
15
4.998672
CGGGTAGACTGAAACCAATGTTTA
59.001
41.667
0.00
0.00
44.57
2.01
16
17
3.408634
CGGGTAGACTGAAACCAATGTT
58.591
45.455
0.00
0.00
37.51
2.71
17
18
2.874457
GCGGGTAGACTGAAACCAATGT
60.874
50.000
0.00
0.00
37.51
2.71
18
19
1.737793
GCGGGTAGACTGAAACCAATG
59.262
52.381
0.00
0.00
37.51
2.82
19
20
1.349688
TGCGGGTAGACTGAAACCAAT
59.650
47.619
0.00
0.00
37.51
3.16
20
21
0.759959
TGCGGGTAGACTGAAACCAA
59.240
50.000
0.00
0.00
37.51
3.67
21
22
0.759959
TTGCGGGTAGACTGAAACCA
59.240
50.000
0.00
0.00
37.51
3.67
22
23
1.886886
TTTGCGGGTAGACTGAAACC
58.113
50.000
0.00
0.00
34.85
3.27
89
95
2.267426
GCAAGAAAACGTGCCACTTTT
58.733
42.857
0.00
0.00
34.58
2.27
90
96
1.203523
TGCAAGAAAACGTGCCACTTT
59.796
42.857
0.00
0.00
40.14
2.66
91
97
0.814457
TGCAAGAAAACGTGCCACTT
59.186
45.000
0.00
0.00
40.14
3.16
179
189
3.143728
GGGTTTCGTTTCAGCTAAAGGA
58.856
45.455
0.00
0.00
39.54
3.36
185
197
2.568623
ATGAGGGTTTCGTTTCAGCT
57.431
45.000
0.00
0.00
0.00
4.24
275
288
1.807981
CGCTTATGGTTGTCGGCGA
60.808
57.895
4.99
4.99
44.36
5.54
277
290
2.403586
GCGCTTATGGTTGTCGGC
59.596
61.111
0.00
0.00
0.00
5.54
283
296
1.153429
GTCGAGGGCGCTTATGGTT
60.153
57.895
7.64
0.00
37.46
3.67
313
326
1.432270
GGCAGAGGAAGATTTCGCGG
61.432
60.000
6.13
0.00
0.00
6.46
319
332
0.045469
AGGGGAGGCAGAGGAAGATT
59.955
55.000
0.00
0.00
0.00
2.40
435
461
2.633488
GTGGTGAGGAAATGACCTAGC
58.367
52.381
0.00
0.00
40.73
3.42
444
470
1.133915
GTGTCTTGGGTGGTGAGGAAA
60.134
52.381
0.00
0.00
0.00
3.13
597
632
3.702048
TTGTCTTCGAGGGCGGGG
61.702
66.667
0.00
0.00
38.28
5.73
598
633
2.434359
GTTGTCTTCGAGGGCGGG
60.434
66.667
0.00
0.00
38.28
6.13
599
634
2.809601
CGTTGTCTTCGAGGGCGG
60.810
66.667
0.00
0.00
38.28
6.13
600
635
2.809601
CCGTTGTCTTCGAGGGCG
60.810
66.667
0.00
0.00
39.35
6.13
601
636
3.119096
GCCGTTGTCTTCGAGGGC
61.119
66.667
0.00
0.00
46.98
5.19
602
637
2.558554
ATCGCCGTTGTCTTCGAGGG
62.559
60.000
0.00
0.00
36.41
4.30
603
638
1.153823
ATCGCCGTTGTCTTCGAGG
60.154
57.895
0.00
0.00
34.30
4.63
604
639
1.413767
CCATCGCCGTTGTCTTCGAG
61.414
60.000
0.00
0.00
34.30
4.04
605
640
1.445410
CCATCGCCGTTGTCTTCGA
60.445
57.895
0.00
0.00
35.34
3.71
606
641
3.081133
CCATCGCCGTTGTCTTCG
58.919
61.111
0.00
0.00
0.00
3.79
607
642
2.785258
GCCATCGCCGTTGTCTTC
59.215
61.111
0.00
0.00
0.00
2.87
608
643
3.118454
CGCCATCGCCGTTGTCTT
61.118
61.111
0.00
0.00
0.00
3.01
609
644
4.373116
ACGCCATCGCCGTTGTCT
62.373
61.111
0.00
0.00
39.84
3.41
610
645
4.147322
CACGCCATCGCCGTTGTC
62.147
66.667
0.00
0.00
39.84
3.18
611
646
4.980805
ACACGCCATCGCCGTTGT
62.981
61.111
0.00
0.00
39.84
3.32
612
647
4.147322
GACACGCCATCGCCGTTG
62.147
66.667
0.00
0.00
39.84
4.10
613
648
4.373116
AGACACGCCATCGCCGTT
62.373
61.111
0.00
0.00
39.84
4.44
616
651
2.740714
GAACAGACACGCCATCGCC
61.741
63.158
0.00
0.00
39.84
5.54
617
652
2.740714
GGAACAGACACGCCATCGC
61.741
63.158
0.00
0.00
39.84
4.58
618
653
1.079819
AGGAACAGACACGCCATCG
60.080
57.895
0.00
0.00
42.43
3.84
619
654
0.320771
ACAGGAACAGACACGCCATC
60.321
55.000
0.00
0.00
0.00
3.51
620
655
0.320771
GACAGGAACAGACACGCCAT
60.321
55.000
0.00
0.00
0.00
4.40
621
656
1.069090
GACAGGAACAGACACGCCA
59.931
57.895
0.00
0.00
0.00
5.69
622
657
1.668151
GGACAGGAACAGACACGCC
60.668
63.158
0.00
0.00
0.00
5.68
623
658
1.668151
GGGACAGGAACAGACACGC
60.668
63.158
0.00
0.00
0.00
5.34
624
659
1.004918
GGGGACAGGAACAGACACG
60.005
63.158
0.00
0.00
0.00
4.49
625
660
1.004918
CGGGGACAGGAACAGACAC
60.005
63.158
0.00
0.00
0.00
3.67
626
661
2.879233
GCGGGGACAGGAACAGACA
61.879
63.158
0.00
0.00
0.00
3.41
627
662
2.047179
GCGGGGACAGGAACAGAC
60.047
66.667
0.00
0.00
0.00
3.51
628
663
3.319198
GGCGGGGACAGGAACAGA
61.319
66.667
0.00
0.00
0.00
3.41
629
664
4.410400
GGGCGGGGACAGGAACAG
62.410
72.222
0.00
0.00
0.00
3.16
666
701
2.264794
GGAACGGACACGCCATCT
59.735
61.111
0.00
0.00
46.04
2.90
721
786
2.676822
TTCGGAGCCAGAGACGCT
60.677
61.111
0.00
0.00
39.95
5.07
722
787
2.202676
CTTCGGAGCCAGAGACGC
60.203
66.667
0.00
0.00
0.00
5.19
742
857
3.194719
GACGGGATCCTCGTCGTT
58.805
61.111
28.25
10.32
45.53
3.85
1076
1224
0.737219
GCAGCCATTCACCAGCTTAG
59.263
55.000
0.00
0.00
33.70
2.18
1374
1535
8.970691
ATTTAACATTGTCTTCCTTGAATTCG
57.029
30.769
0.04
0.00
0.00
3.34
1579
1740
2.685897
GCTGTGTACCAACCAAAGAACA
59.314
45.455
0.00
0.00
0.00
3.18
1862
2054
9.614792
GGAATCTCTAGCAAATTACTCCTTTTA
57.385
33.333
0.00
0.00
0.00
1.52
2034
4383
9.665719
TGTGCATGATAAACAAGAGAACTTATA
57.334
29.630
0.00
0.00
34.70
0.98
2071
4423
3.560481
CAGCCAGCTATTTGATGTCTCTG
59.440
47.826
0.00
0.00
0.00
3.35
2106
4460
7.489757
GCAAAAAGAATTACACTACAAACCACA
59.510
33.333
0.00
0.00
0.00
4.17
2171
4588
7.564660
AGGACCAATATGCCTCATAAAAATCAA
59.435
33.333
0.00
0.00
29.74
2.57
2252
4682
7.335422
ACAAACTTGAGATAGTAATGCCAAGAG
59.665
37.037
0.00
0.00
36.03
2.85
2350
4781
3.252944
TGTTTGTGACACGATGCAATCAT
59.747
39.130
0.22
0.00
36.82
2.45
2381
4812
3.557228
AGCTGACCATCTTTCCTGATC
57.443
47.619
0.00
0.00
0.00
2.92
2749
8574
1.133976
CCCTGCCTGATAAACCTGGAG
60.134
57.143
0.00
0.00
0.00
3.86
2755
8580
1.559682
TCCTCACCCTGCCTGATAAAC
59.440
52.381
0.00
0.00
0.00
2.01
2886
11110
5.161358
GGATAAGCTGGTTTGCTGTAAAAC
58.839
41.667
0.00
0.00
43.24
2.43
2938
11162
5.944599
AGCAGACATCAGTTCAATTCAAGAT
59.055
36.000
0.00
0.00
0.00
2.40
3015
11240
3.101019
GCCATTACAAACGGCACAC
57.899
52.632
0.00
0.00
45.52
3.82
3115
11343
3.779759
TGTGAACCAACAATTTCAGCAC
58.220
40.909
0.00
0.00
32.40
4.40
3121
11349
4.669206
TCTGCATGTGAACCAACAATTT
57.331
36.364
0.00
0.00
32.81
1.82
3148
11376
6.280855
TGCAAGTTCTAACTGCAGATAGTA
57.719
37.500
25.12
16.36
39.66
1.82
3208
11436
3.435275
AGACTGACAGACATTAGCTCCA
58.565
45.455
10.08
0.00
0.00
3.86
3285
11514
9.852091
AATTCTGATTGTTTCTTCTCTAATTGC
57.148
29.630
0.00
0.00
0.00
3.56
3302
11531
4.218200
TGACGACAATGGCAAATTCTGATT
59.782
37.500
0.00
0.00
0.00
2.57
3306
11535
4.460382
AGAATGACGACAATGGCAAATTCT
59.540
37.500
0.00
3.02
0.00
2.40
3326
11555
4.473643
CCGTGTGGCAGGAAAGAA
57.526
55.556
0.00
0.00
0.00
2.52
3390
11620
7.584123
GTGTGTATATCAAATTCACATTCGCTC
59.416
37.037
0.00
0.00
40.31
5.03
3400
11630
6.537301
TCTTCCGGTGTGTGTATATCAAATTC
59.463
38.462
0.00
0.00
0.00
2.17
3409
11639
3.478857
TTTGTCTTCCGGTGTGTGTAT
57.521
42.857
0.00
0.00
0.00
2.29
3420
11650
6.929606
AGGATATTGCTACGTATTTGTCTTCC
59.070
38.462
0.00
0.00
0.00
3.46
3444
11674
9.801714
GTTATTTTTGTTTGCATCAATCTGAAG
57.198
29.630
5.83
0.00
0.00
3.02
3482
11713
1.139654
TCCAGCAATGGAATCTCTCGG
59.860
52.381
0.00
0.00
34.56
4.63
3483
11714
2.208431
GTCCAGCAATGGAATCTCTCG
58.792
52.381
0.00
0.00
40.06
4.04
3485
11716
3.265221
TCTTGTCCAGCAATGGAATCTCT
59.735
43.478
0.00
0.00
40.06
3.10
3490
11721
2.655090
TGTCTTGTCCAGCAATGGAA
57.345
45.000
0.00
0.00
40.06
3.53
3491
11722
2.885135
ATGTCTTGTCCAGCAATGGA
57.115
45.000
0.00
0.00
36.36
3.41
3492
11723
2.165030
GGAATGTCTTGTCCAGCAATGG
59.835
50.000
0.00
0.00
36.36
3.16
3493
11724
2.821378
TGGAATGTCTTGTCCAGCAATG
59.179
45.455
0.00
0.00
39.04
2.82
3494
11725
3.159213
TGGAATGTCTTGTCCAGCAAT
57.841
42.857
0.00
0.00
39.04
3.56
3495
11726
2.655090
TGGAATGTCTTGTCCAGCAA
57.345
45.000
0.00
0.00
39.04
3.91
3582
11815
0.455410
TTCACCTTGTTGTGCAGCAC
59.545
50.000
19.37
19.37
36.17
4.40
3621
11854
6.098266
AGCAAAGAAGTTATTCACCTTGGTTT
59.902
34.615
0.00
0.00
37.94
3.27
3622
11855
5.598417
AGCAAAGAAGTTATTCACCTTGGTT
59.402
36.000
0.00
0.00
37.94
3.67
3623
11856
5.140454
AGCAAAGAAGTTATTCACCTTGGT
58.860
37.500
0.00
0.00
37.94
3.67
3624
11857
5.712152
AGCAAAGAAGTTATTCACCTTGG
57.288
39.130
0.00
0.00
37.94
3.61
3682
11915
8.937634
AAATGCAAAAGCTTTGAATAGATAGG
57.062
30.769
13.54
0.00
0.00
2.57
3711
11944
7.486802
TTTCTTCCTACCTTACTGTTTTTCG
57.513
36.000
0.00
0.00
0.00
3.46
3720
11953
7.818446
CCAGTTCTAGTTTTCTTCCTACCTTAC
59.182
40.741
0.00
0.00
0.00
2.34
3727
11960
5.906772
TTCCCAGTTCTAGTTTTCTTCCT
57.093
39.130
0.00
0.00
0.00
3.36
3802
12035
9.337396
CATTTGTACTAAAACCATAGATAGGCA
57.663
33.333
0.00
0.00
0.00
4.75
3825
12058
9.872684
ATGAATAAATCTAACCAGGATCACATT
57.127
29.630
0.00
0.00
0.00
2.71
3862
12095
8.356533
ACAACACATCAACATCTTGATTTTTC
57.643
30.769
0.00
0.00
43.48
2.29
3868
12101
6.262720
TCATCAACAACACATCAACATCTTGA
59.737
34.615
0.00
0.00
40.77
3.02
3886
12119
2.029623
AGATGGCCAGCAATCATCAAC
58.970
47.619
25.38
0.00
39.59
3.18
3890
12123
2.168496
GCATAGATGGCCAGCAATCAT
58.832
47.619
25.38
7.68
0.00
2.45
3891
12124
1.133730
TGCATAGATGGCCAGCAATCA
60.134
47.619
25.38
12.22
31.42
2.57
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.