Multiple sequence alignment - TraesCS6A01G108800
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
TraesCS6A01G108800
chr6A
100.000
4045
0
0
1
4045
77540002
77535958
0.000000e+00
7470.0
1
TraesCS6A01G108800
chr6D
91.503
3460
180
51
660
4045
60548758
60545339
0.000000e+00
4656.0
2
TraesCS6A01G108800
chr6D
96.200
500
15
2
1
496
60549689
60549190
0.000000e+00
815.0
3
TraesCS6A01G108800
chr6D
95.604
182
6
1
479
660
60549178
60548999
1.420000e-74
291.0
4
TraesCS6A01G108800
chr6B
89.187
3320
260
54
104
3349
134827600
134824306
0.000000e+00
4050.0
5
TraesCS6A01G108800
chr6B
86.511
556
46
18
3513
4045
134824222
134823673
5.830000e-163
584.0
6
TraesCS6A01G108800
chr6B
81.385
693
54
33
160
795
134828273
134827599
2.810000e-136
496.0
7
TraesCS6A01G108800
chr6B
90.647
139
8
1
1
139
134828386
134828253
3.210000e-41
180.0
8
TraesCS6A01G108800
chr3D
91.820
868
56
11
1499
2358
135040702
135041562
0.000000e+00
1195.0
9
TraesCS6A01G108800
chr3D
86.901
626
70
9
852
1467
135018798
135019421
0.000000e+00
691.0
10
TraesCS6A01G108800
chr3A
90.658
760
50
15
1606
2358
149982968
149983713
0.000000e+00
990.0
11
TraesCS6A01G108800
chr3A
86.458
768
92
9
852
1609
149962018
149962783
0.000000e+00
832.0
12
TraesCS6A01G108800
chr4D
79.204
226
38
8
351
571
380282174
380281953
9.060000e-32
148.0
13
TraesCS6A01G108800
chr4B
78.855
227
39
8
351
571
467460719
467460496
1.170000e-30
145.0
14
TraesCS6A01G108800
chr4B
83.721
86
13
1
1993
2078
377800200
377800116
3.350000e-11
80.5
15
TraesCS6A01G108800
chr2D
78.673
211
42
3
356
565
62063153
62062945
1.960000e-28
137.0
16
TraesCS6A01G108800
chr1D
77.934
213
44
2
356
565
338927369
338927157
3.280000e-26
130.0
17
TraesCS6A01G108800
chr2A
77.725
211
45
2
356
565
62388251
62388042
1.180000e-25
128.0
18
TraesCS6A01G108800
chr2A
76.754
228
44
5
343
565
15610831
15611054
7.100000e-23
119.0
19
TraesCS6A01G108800
chr7D
96.774
62
2
0
2554
2615
528026736
528026675
1.990000e-18
104.0
20
TraesCS6A01G108800
chr7B
95.161
62
3
0
2554
2615
565054729
565054668
9.250000e-17
99.0
21
TraesCS6A01G108800
chr7A
93.548
62
4
0
2554
2615
608204629
608204568
4.300000e-15
93.5
22
TraesCS6A01G108800
chr4A
83.146
89
14
1
1990
2078
176539244
176539331
3.350000e-11
80.5
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
TraesCS6A01G108800
chr6A
77535958
77540002
4044
True
7470.000000
7470
100.000000
1
4045
1
chr6A.!!$R1
4044
1
TraesCS6A01G108800
chr6D
60545339
60549689
4350
True
1920.666667
4656
94.435667
1
4045
3
chr6D.!!$R1
4044
2
TraesCS6A01G108800
chr6B
134823673
134828386
4713
True
1327.500000
4050
86.932500
1
4045
4
chr6B.!!$R1
4044
3
TraesCS6A01G108800
chr3D
135040702
135041562
860
False
1195.000000
1195
91.820000
1499
2358
1
chr3D.!!$F2
859
4
TraesCS6A01G108800
chr3D
135018798
135019421
623
False
691.000000
691
86.901000
852
1467
1
chr3D.!!$F1
615
5
TraesCS6A01G108800
chr3A
149982968
149983713
745
False
990.000000
990
90.658000
1606
2358
1
chr3A.!!$F2
752
6
TraesCS6A01G108800
chr3A
149962018
149962783
765
False
832.000000
832
86.458000
852
1609
1
chr3A.!!$F1
757
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
967
1951
0.779997
AGGGTTGGATTGGAGCAAGT
59.220
50.0
0.00
0.00
0.00
3.16
F
1070
2054
0.251474
ATGGCTCACACCTGCAATGT
60.251
50.0
0.00
0.00
0.00
2.71
F
1213
2197
0.723414
CTGTGCAAGCATGTACTCGG
59.277
55.0
11.38
0.00
42.06
4.63
F
1218
2202
0.735978
CAAGCATGTACTCGGCGTCA
60.736
55.0
6.85
3.05
0.00
4.35
F
1219
2203
0.736325
AAGCATGTACTCGGCGTCAC
60.736
55.0
6.85
4.02
0.00
3.67
F
1366
2350
1.021390
CAGCGATGGTGGTCAAGGTC
61.021
60.0
0.00
0.00
0.00
3.85
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
2828
3861
0.249784
CATGCTCCTCTATGCGCAGT
60.250
55.000
18.32
6.92
35.66
4.40
R
2896
3929
1.203087
TCTCCTCTGGTTTCGGTACCA
60.203
52.381
13.54
8.87
45.73
3.25
R
2926
3959
1.673665
GGAGCTGAAGTGGTGCTGG
60.674
63.158
0.00
0.00
37.16
4.85
R
2989
4023
2.026641
GCCTTCTGCTATCCATTTGCA
58.973
47.619
0.00
0.00
36.87
4.08
R
2993
4027
2.106166
CTCTGGCCTTCTGCTATCCATT
59.894
50.000
3.32
0.00
40.92
3.16
R
3255
4313
0.694771
TGAGCATGAACAGGGAGCTT
59.305
50.000
0.00
0.00
35.36
3.74
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
190
880
2.239654
TCCTGCTTATGGGAAGGAACTG
59.760
50.000
0.00
0.00
38.06
3.16
213
903
6.228258
TGTCATCAAGTTTTGGTAGGAGTAC
58.772
40.000
0.00
0.00
0.00
2.73
371
1074
9.419297
GTCCCAAGTGAAAATTTATAAAGTTCC
57.581
33.333
11.01
0.00
0.00
3.62
577
1310
3.702045
CGGAGGGAGTGTCTATTTTCTCT
59.298
47.826
0.00
0.00
0.00
3.10
640
1373
2.236146
TCCAGACATGACCGTAGCAATT
59.764
45.455
0.00
0.00
0.00
2.32
727
1701
6.841601
TCTGGGAATATTCTTATGTCCCTTG
58.158
40.000
14.95
4.95
36.90
3.61
734
1708
9.561069
GAATATTCTTATGTCCCTTGTGTACAT
57.439
33.333
8.27
0.00
37.58
2.29
781
1755
6.709397
TCAATCTGGATCATTCTATTGACAGC
59.291
38.462
0.00
0.00
30.59
4.40
795
1769
3.116096
TGACAGCCTAGTACTCCCAAT
57.884
47.619
0.00
0.00
0.00
3.16
802
1776
5.297776
CAGCCTAGTACTCCCAATTCAAATG
59.702
44.000
0.00
0.00
0.00
2.32
803
1777
5.044846
AGCCTAGTACTCCCAATTCAAATGT
60.045
40.000
0.00
0.00
0.00
2.71
821
1796
9.985318
TTCAAATGTAATGCTTTGTTTTTCTTG
57.015
25.926
0.00
0.00
34.66
3.02
822
1797
8.121708
TCAAATGTAATGCTTTGTTTTTCTTGC
58.878
29.630
0.00
0.00
34.66
4.01
823
1798
7.551035
AATGTAATGCTTTGTTTTTCTTGCA
57.449
28.000
0.00
0.00
34.88
4.08
824
1799
7.733402
ATGTAATGCTTTGTTTTTCTTGCAT
57.267
28.000
0.00
0.00
42.01
3.96
922
1905
6.633500
TTGAAAGGACTTGGAACTTGTATG
57.367
37.500
0.00
0.00
0.00
2.39
923
1906
4.518970
TGAAAGGACTTGGAACTTGTATGC
59.481
41.667
0.00
0.00
0.00
3.14
967
1951
0.779997
AGGGTTGGATTGGAGCAAGT
59.220
50.000
0.00
0.00
0.00
3.16
978
1962
2.426522
TGGAGCAAGTTTTCCATCTCG
58.573
47.619
2.39
0.00
38.53
4.04
982
1966
4.876107
GGAGCAAGTTTTCCATCTCGATTA
59.124
41.667
0.00
0.00
33.55
1.75
988
1972
7.589221
GCAAGTTTTCCATCTCGATTATCATTC
59.411
37.037
0.00
0.00
0.00
2.67
991
1975
8.206867
AGTTTTCCATCTCGATTATCATTCTCA
58.793
33.333
0.00
0.00
0.00
3.27
993
1977
8.599055
TTTCCATCTCGATTATCATTCTCAAG
57.401
34.615
0.00
0.00
0.00
3.02
1030
2014
4.950050
ACAGAGTGTACTTCCTGTGAAAG
58.050
43.478
11.75
0.00
38.32
2.62
1070
2054
0.251474
ATGGCTCACACCTGCAATGT
60.251
50.000
0.00
0.00
0.00
2.71
1085
2069
2.863704
GCAATGTTCCACAACCTTCAGC
60.864
50.000
0.00
0.00
0.00
4.26
1113
2097
9.361315
CATCAAATGTTCAATGCTAAATCTGAA
57.639
29.630
0.00
0.00
0.00
3.02
1133
2117
4.155826
TGAAATTTACAGTTCGGCAGATGG
59.844
41.667
0.00
0.00
29.01
3.51
1149
2133
0.828022
ATGGTATTTCCCGCGTCTCA
59.172
50.000
4.92
0.00
34.77
3.27
1212
2196
1.713597
TCTGTGCAAGCATGTACTCG
58.286
50.000
11.38
3.26
42.06
4.18
1213
2197
0.723414
CTGTGCAAGCATGTACTCGG
59.277
55.000
11.38
0.00
42.06
4.63
1218
2202
0.735978
CAAGCATGTACTCGGCGTCA
60.736
55.000
6.85
3.05
0.00
4.35
1219
2203
0.736325
AAGCATGTACTCGGCGTCAC
60.736
55.000
6.85
4.02
0.00
3.67
1247
2231
5.422145
GAACTCCAAATTATGCTGGCAAAT
58.578
37.500
0.00
0.00
32.33
2.32
1311
2295
4.528002
CAGTTTTCAGCTGCGCAG
57.472
55.556
32.83
32.83
0.00
5.18
1346
2330
2.551032
CTCTGTTGTTTGCTGCTGATCA
59.449
45.455
0.00
0.00
0.00
2.92
1366
2350
1.021390
CAGCGATGGTGGTCAAGGTC
61.021
60.000
0.00
0.00
0.00
3.85
1450
2434
2.203788
TCCGTGGAGGAGGCAGTT
60.204
61.111
0.00
0.00
45.98
3.16
1485
2469
2.368548
TGAGCAGCTGGAGTTTCAGTTA
59.631
45.455
17.12
0.00
37.12
2.24
1663
2647
9.569122
TTGGCTAAGTTCAGATTTTAACTAGTT
57.431
29.630
13.68
13.68
34.91
2.24
1704
2691
7.989170
TCATTGCTTAGGACATATATGGCATAG
59.011
37.037
20.24
13.61
37.62
2.23
1728
2715
2.464865
CGCAATGCTCACCTAGTCTAC
58.535
52.381
2.94
0.00
0.00
2.59
1817
2807
2.259917
TCACCTTCTTCATCTGGAGCA
58.740
47.619
0.00
0.00
0.00
4.26
1818
2808
2.639347
TCACCTTCTTCATCTGGAGCAA
59.361
45.455
0.00
0.00
0.00
3.91
1819
2809
2.746362
CACCTTCTTCATCTGGAGCAAC
59.254
50.000
0.00
0.00
0.00
4.17
1900
2892
1.971357
TCTGAAAAAGCTCGGAGGACT
59.029
47.619
7.20
0.00
0.00
3.85
1936
2929
6.366061
GTGATCACTCTGTTAAATTTTTGGGC
59.634
38.462
18.83
0.00
0.00
5.36
2048
3041
2.743636
TGAAGGTAGAAGGCTTGACG
57.256
50.000
3.46
0.00
0.00
4.35
2132
3126
8.495148
TCACAAACATATATCACATTACGATGC
58.505
33.333
0.00
0.00
36.72
3.91
2415
3417
7.523293
TCAGAAGATAACAAGGCAAAATCAA
57.477
32.000
0.00
0.00
0.00
2.57
2452
3454
5.505181
TCTGGCAAAAAGAAGTATCTCCT
57.495
39.130
0.00
0.00
33.77
3.69
2504
3506
3.070115
ATGAGGGGCATGCACAAAA
57.930
47.368
23.88
6.18
35.42
2.44
2505
3507
1.350071
ATGAGGGGCATGCACAAAAA
58.650
45.000
23.88
4.12
35.42
1.94
2526
3528
6.698008
AAAGTGTCATCAAAACTCACATCA
57.302
33.333
0.00
0.00
0.00
3.07
2538
3540
7.381948
TCAAAACTCACATCAATTTCCATTTCG
59.618
33.333
0.00
0.00
0.00
3.46
2557
3559
4.015872
TCGTAGGAGTTTTCAAATGGCT
57.984
40.909
0.00
0.00
0.00
4.75
2658
3663
6.419484
TGATAGGTTCAGAAACAGTTCTCA
57.581
37.500
0.00
0.00
42.45
3.27
2659
3664
7.009179
TGATAGGTTCAGAAACAGTTCTCAT
57.991
36.000
0.00
0.00
42.45
2.90
2660
3665
6.875726
TGATAGGTTCAGAAACAGTTCTCATG
59.124
38.462
0.00
0.00
42.45
3.07
2661
3666
5.296151
AGGTTCAGAAACAGTTCTCATGA
57.704
39.130
0.00
0.00
42.45
3.07
2663
3668
5.762218
AGGTTCAGAAACAGTTCTCATGAAG
59.238
40.000
0.00
0.00
42.45
3.02
2665
3670
6.038714
GGTTCAGAAACAGTTCTCATGAAGTT
59.961
38.462
0.00
0.00
42.45
2.66
2666
3671
6.851222
TCAGAAACAGTTCTCATGAAGTTC
57.149
37.500
0.00
0.00
42.45
3.01
2668
3673
6.481313
TCAGAAACAGTTCTCATGAAGTTCAG
59.519
38.462
11.91
4.09
42.45
3.02
2828
3861
5.279406
CCATCAGGTGCAAAGGAAATTACAA
60.279
40.000
0.00
0.00
0.00
2.41
2896
3929
4.077822
CAACAGAAGGCCAGAAAATCTCT
58.922
43.478
5.01
0.00
33.23
3.10
2926
3959
1.349357
ACCAGAGGAGAAAACAGAGGC
59.651
52.381
0.00
0.00
0.00
4.70
2929
3962
1.627834
AGAGGAGAAAACAGAGGCCAG
59.372
52.381
5.01
0.00
0.00
4.85
2966
3999
4.148891
CGTCGCTGAAGTGTAAAATTTCC
58.851
43.478
0.00
0.00
0.00
3.13
2976
4010
4.575645
AGTGTAAAATTTCCGACACCGAAA
59.424
37.500
19.49
0.00
42.55
3.46
2984
4018
3.226346
TCCGACACCGAAATAGAACAG
57.774
47.619
0.00
0.00
38.22
3.16
2989
4023
4.684703
CGACACCGAAATAGAACAGAACTT
59.315
41.667
0.00
0.00
38.22
2.66
2993
4027
4.819630
ACCGAAATAGAACAGAACTTGCAA
59.180
37.500
0.00
0.00
0.00
4.08
3041
4075
5.207768
CAACTTGATCTTGAAAGTGAACCG
58.792
41.667
0.00
0.00
36.75
4.44
3043
4077
5.607477
ACTTGATCTTGAAAGTGAACCGTA
58.393
37.500
0.00
0.00
35.34
4.02
3070
4104
3.633525
ACGATCATGGTGCATGCTTTAAT
59.366
39.130
20.33
4.63
41.18
1.40
3072
4106
4.023450
CGATCATGGTGCATGCTTTAATCT
60.023
41.667
20.33
0.00
41.18
2.40
3159
4217
3.055819
TGACAAGGTTCTAGCTAAGCCAG
60.056
47.826
9.62
5.32
0.00
4.85
3169
4227
8.030106
GGTTCTAGCTAAGCCAGTGTATATAAG
58.970
40.741
0.00
0.00
0.00
1.73
3191
4249
1.952296
AGTTCTGCTGCTTGTTTCCAG
59.048
47.619
0.00
0.00
0.00
3.86
3195
4253
1.891150
CTGCTGCTTGTTTCCAGGAAT
59.109
47.619
1.58
0.00
0.00
3.01
3213
4271
9.784531
TCCAGGAATAAACAAGATATTCTCATC
57.215
33.333
6.32
0.00
38.96
2.92
3233
4291
8.830580
TCTCATCTGTAATTAAACTAGCATTGC
58.169
33.333
0.00
0.00
0.00
3.56
3235
4293
8.615211
TCATCTGTAATTAAACTAGCATTGCAG
58.385
33.333
11.91
8.74
40.21
4.41
3252
4310
6.614160
CATTGCAGTTCAAACATAGATGTCA
58.386
36.000
0.00
0.00
40.80
3.58
3255
4313
5.530543
TGCAGTTCAAACATAGATGTCACAA
59.469
36.000
0.00
0.00
40.80
3.33
3256
4314
6.039159
TGCAGTTCAAACATAGATGTCACAAA
59.961
34.615
0.00
0.00
40.80
2.83
3313
4371
8.474577
GCATGCAAGATAAACTGAATTAAATCG
58.525
33.333
14.21
0.00
0.00
3.34
3358
4417
2.231478
CCTACATATGGGAGTACTGCGG
59.769
54.545
8.41
0.00
0.00
5.69
3441
4500
0.320374
CGTCCTGAGCACCCTAAACA
59.680
55.000
0.00
0.00
0.00
2.83
3487
4551
0.914417
CCAAGGTAGCCAGGAGGGAA
60.914
60.000
0.00
0.00
40.01
3.97
3489
4553
1.065126
CAAGGTAGCCAGGAGGGAAAG
60.065
57.143
0.00
0.00
40.01
2.62
3508
4573
2.745968
AGAGGAATCAGGTGGTCTCTC
58.254
52.381
0.00
0.00
0.00
3.20
3533
4598
8.225416
TCAGAAGTATACCATCTAAGCCTCTAA
58.775
37.037
8.12
0.00
0.00
2.10
3534
4599
8.519526
CAGAAGTATACCATCTAAGCCTCTAAG
58.480
40.741
8.12
0.00
0.00
2.18
3593
4659
8.336235
TGATGGAATGGAATAAGTTAAGAACCT
58.664
33.333
0.00
0.00
0.00
3.50
3647
4714
0.250038
TGAGACCTCACTTGCTGCAC
60.250
55.000
0.00
0.00
34.14
4.57
3707
4780
5.596836
TCAACTTTCATTCTTTGCTGGTT
57.403
34.783
0.00
0.00
0.00
3.67
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
190
880
5.642491
GGTACTCCTACCAAAACTTGATGAC
59.358
44.000
0.00
0.00
42.16
3.06
282
976
0.670162
CCCAGTGCCAAACTTGACTG
59.330
55.000
0.00
0.00
36.83
3.51
415
1119
7.443272
TCACTGGCTATATTTTGACATCAGATG
59.557
37.037
9.03
9.03
0.00
2.90
434
1138
2.906354
ACCGTTAGATTCATCACTGGC
58.094
47.619
0.00
0.00
0.00
4.85
577
1310
4.202274
TGAAATCAAACTCACGTACAGGGA
60.202
41.667
0.00
0.00
0.00
4.20
640
1373
9.381038
AGAGGTAATGATAGTTTGCTTCCTATA
57.619
33.333
0.00
0.00
0.00
1.31
679
1653
8.552296
AGATGATTTAGACCCTTCAACAATAGT
58.448
33.333
0.00
0.00
0.00
2.12
781
1755
8.840321
CATTACATTTGAATTGGGAGTACTAGG
58.160
37.037
0.00
0.00
0.00
3.02
795
1769
9.985318
CAAGAAAAACAAAGCATTACATTTGAA
57.015
25.926
4.79
0.00
38.42
2.69
802
1776
9.532697
CATTATGCAAGAAAAACAAAGCATTAC
57.467
29.630
0.00
0.00
42.16
1.89
803
1777
9.486497
TCATTATGCAAGAAAAACAAAGCATTA
57.514
25.926
0.00
0.00
42.16
1.90
887
1863
9.312904
TCCAAGTCCTTTCAAATTTCAATATCT
57.687
29.630
0.00
0.00
0.00
1.98
888
1864
9.927668
TTCCAAGTCCTTTCAAATTTCAATATC
57.072
29.630
0.00
0.00
0.00
1.63
903
1886
4.074970
CAGCATACAAGTTCCAAGTCCTT
58.925
43.478
0.00
0.00
0.00
3.36
907
1890
3.146104
AGCAGCATACAAGTTCCAAGT
57.854
42.857
0.00
0.00
0.00
3.16
922
1905
4.578105
AGCTTAAATATCCAGTCAAGCAGC
59.422
41.667
6.86
0.00
40.58
5.25
923
1906
5.505324
GCAGCTTAAATATCCAGTCAAGCAG
60.505
44.000
6.86
0.25
40.58
4.24
967
1951
8.962884
TTGAGAATGATAATCGAGATGGAAAA
57.037
30.769
0.00
0.00
0.00
2.29
978
1962
6.263842
TCATTGTGCCCTTGAGAATGATAATC
59.736
38.462
0.00
0.00
30.05
1.75
982
1966
3.952323
CTCATTGTGCCCTTGAGAATGAT
59.048
43.478
0.00
0.00
39.36
2.45
988
1972
0.524862
GTGCTCATTGTGCCCTTGAG
59.475
55.000
8.14
0.00
39.87
3.02
991
1975
0.467844
TGTGTGCTCATTGTGCCCTT
60.468
50.000
8.14
0.00
0.00
3.95
993
1977
0.890542
TCTGTGTGCTCATTGTGCCC
60.891
55.000
8.14
0.00
0.00
5.36
1030
2014
3.736720
TGCTGTCAGGAGCAATGATATC
58.263
45.455
1.14
0.00
46.05
1.63
1070
2054
0.482446
ATGGGCTGAAGGTTGTGGAA
59.518
50.000
0.00
0.00
0.00
3.53
1085
2069
7.223971
CAGATTTAGCATTGAACATTTGATGGG
59.776
37.037
0.00
0.00
33.60
4.00
1113
2097
3.686016
ACCATCTGCCGAACTGTAAATT
58.314
40.909
0.00
0.00
0.00
1.82
1133
2117
2.412089
GCATATGAGACGCGGGAAATAC
59.588
50.000
12.47
0.00
0.00
1.89
1218
2202
2.676342
GCATAATTTGGAGTTCGTCGGT
59.324
45.455
0.00
0.00
0.00
4.69
1219
2203
2.936498
AGCATAATTTGGAGTTCGTCGG
59.064
45.455
0.00
0.00
0.00
4.79
1247
2231
1.150536
AGGAAAGGCAAACCGCTGA
59.849
52.632
0.00
0.00
42.76
4.26
1311
2295
3.114809
CAACAGAGCAGAGATCGATGAC
58.885
50.000
0.54
0.00
0.00
3.06
1346
2330
1.003355
CCTTGACCACCATCGCTGT
60.003
57.895
0.00
0.00
0.00
4.40
1351
2335
2.787473
TCATGACCTTGACCACCATC
57.213
50.000
0.00
0.00
0.00
3.51
1366
2350
7.259290
TGAGATCATGTGAATGTTCATCATG
57.741
36.000
20.20
20.20
41.99
3.07
1448
2432
3.084039
TGCTCACTGAAATCCATGGAAC
58.916
45.455
20.67
13.65
0.00
3.62
1450
2434
2.942752
GCTGCTCACTGAAATCCATGGA
60.943
50.000
18.88
18.88
0.00
3.41
1485
2469
4.262164
GCAATCCCAAGTTGTTCAGACAAT
60.262
41.667
1.45
0.00
46.63
2.71
1677
2661
6.175471
TGCCATATATGTCCTAAGCAATGAG
58.825
40.000
11.73
0.00
0.00
2.90
1728
2715
2.478872
TGGTCAGAGGAAGGGGATAG
57.521
55.000
0.00
0.00
0.00
2.08
1817
2807
5.493133
TTCTCGTTTTGCTACATGTTGTT
57.507
34.783
2.30
0.00
0.00
2.83
1818
2808
5.238432
TCATTCTCGTTTTGCTACATGTTGT
59.762
36.000
2.30
0.00
0.00
3.32
1819
2809
5.688823
TCATTCTCGTTTTGCTACATGTTG
58.311
37.500
2.30
2.50
0.00
3.33
1900
2892
3.515502
CAGAGTGATCACCCTACTTTCCA
59.484
47.826
22.21
0.00
0.00
3.53
2210
3205
8.483758
TGTATAGATTTTCCCTTCACCTTAGTC
58.516
37.037
0.00
0.00
0.00
2.59
2368
3370
7.776107
TGAACATGGTCTCTTCACTAGATTAG
58.224
38.462
12.94
0.00
30.92
1.73
2369
3371
7.615757
TCTGAACATGGTCTCTTCACTAGATTA
59.384
37.037
12.94
0.00
30.92
1.75
2415
3417
3.972133
TGCCAGAATCAATTCCAGATGT
58.028
40.909
0.00
0.00
37.51
3.06
2452
3454
6.365970
AAAGAGATAGCAAGTTCTGGAGAA
57.634
37.500
0.00
0.00
0.00
2.87
2504
3506
6.698008
TTGATGTGAGTTTTGATGACACTT
57.302
33.333
0.00
0.00
33.41
3.16
2505
3507
6.889301
ATTGATGTGAGTTTTGATGACACT
57.111
33.333
0.00
0.00
33.41
3.55
2518
3520
6.316140
TCCTACGAAATGGAAATTGATGTGAG
59.684
38.462
0.00
0.00
0.00
3.51
2526
3528
7.519032
TGAAAACTCCTACGAAATGGAAATT
57.481
32.000
0.00
0.00
31.23
1.82
2538
3540
5.703876
CTTCAGCCATTTGAAAACTCCTAC
58.296
41.667
0.00
0.00
36.69
3.18
2557
3559
2.760634
TTTGCATCCGTAGAGCTTCA
57.239
45.000
0.00
0.00
0.00
3.02
2657
3662
4.276678
TGACAAAGGCTTCTGAACTTCATG
59.723
41.667
0.00
0.00
0.00
3.07
2658
3663
4.464008
TGACAAAGGCTTCTGAACTTCAT
58.536
39.130
0.00
0.00
0.00
2.57
2659
3664
3.879295
CTGACAAAGGCTTCTGAACTTCA
59.121
43.478
0.00
1.22
0.00
3.02
2660
3665
3.304324
GCTGACAAAGGCTTCTGAACTTC
60.304
47.826
0.00
0.00
0.00
3.01
2661
3666
2.620585
GCTGACAAAGGCTTCTGAACTT
59.379
45.455
0.00
0.00
0.00
2.66
2663
3668
1.949525
TGCTGACAAAGGCTTCTGAAC
59.050
47.619
0.00
3.15
0.00
3.18
2665
3670
2.574006
ATGCTGACAAAGGCTTCTGA
57.426
45.000
0.00
0.00
0.00
3.27
2666
3671
2.818432
AGAATGCTGACAAAGGCTTCTG
59.182
45.455
0.00
4.08
30.79
3.02
2668
3673
3.572584
CAAGAATGCTGACAAAGGCTTC
58.427
45.455
0.00
0.00
0.00
3.86
2828
3861
0.249784
CATGCTCCTCTATGCGCAGT
60.250
55.000
18.32
6.92
35.66
4.40
2863
3896
4.081087
TGGCCTTCTGTTGTTCTAGTATCC
60.081
45.833
3.32
0.00
0.00
2.59
2896
3929
1.203087
TCTCCTCTGGTTTCGGTACCA
60.203
52.381
13.54
8.87
45.73
3.25
2926
3959
1.673665
GGAGCTGAAGTGGTGCTGG
60.674
63.158
0.00
0.00
37.16
4.85
2929
3962
2.029844
GACGGAGCTGAAGTGGTGC
61.030
63.158
0.00
0.00
0.00
5.01
2955
3988
5.692613
ATTTCGGTGTCGGAAATTTTACA
57.307
34.783
8.67
0.00
37.43
2.41
2966
3999
4.235360
AGTTCTGTTCTATTTCGGTGTCG
58.765
43.478
0.00
0.00
37.82
4.35
2976
4010
7.201767
GCTATCCATTTGCAAGTTCTGTTCTAT
60.202
37.037
0.00
0.00
0.00
1.98
2984
4018
4.970662
TCTGCTATCCATTTGCAAGTTC
57.029
40.909
0.00
0.00
36.22
3.01
2989
4023
2.026641
GCCTTCTGCTATCCATTTGCA
58.973
47.619
0.00
0.00
36.87
4.08
2993
4027
2.106166
CTCTGGCCTTCTGCTATCCATT
59.894
50.000
3.32
0.00
40.92
3.16
3041
4075
4.530388
CATGCACCATGATCGTTCATTAC
58.470
43.478
6.24
0.00
43.81
1.89
3043
4077
2.223641
GCATGCACCATGATCGTTCATT
60.224
45.455
14.21
0.00
43.81
2.57
3070
4104
5.717178
ACTAGAACTCTACATGGCAAGAAGA
59.283
40.000
0.00
0.00
0.00
2.87
3072
4106
5.724328
CACTAGAACTCTACATGGCAAGAA
58.276
41.667
0.00
0.00
0.00
2.52
3159
4217
7.707035
ACAAGCAGCAGAACTACTTATATACAC
59.293
37.037
0.00
0.00
29.67
2.90
3169
4227
2.878406
TGGAAACAAGCAGCAGAACTAC
59.122
45.455
0.00
0.00
37.44
2.73
3213
4271
8.236586
TGAACTGCAATGCTAGTTTAATTACAG
58.763
33.333
18.70
2.58
37.27
2.74
3229
4287
6.207221
TGTGACATCTATGTTTGAACTGCAAT
59.793
34.615
0.00
0.00
41.95
3.56
3233
4291
6.580041
GCTTTGTGACATCTATGTTTGAACTG
59.420
38.462
0.00
0.00
41.95
3.16
3235
4293
6.672147
AGCTTTGTGACATCTATGTTTGAAC
58.328
36.000
0.00
0.00
41.95
3.18
3252
4310
1.202976
AGCATGAACAGGGAGCTTTGT
60.203
47.619
0.00
0.00
29.98
2.83
3255
4313
0.694771
TGAGCATGAACAGGGAGCTT
59.305
50.000
0.00
0.00
35.36
3.74
3256
4314
0.917533
ATGAGCATGAACAGGGAGCT
59.082
50.000
0.00
0.00
38.43
4.09
3278
4336
5.643777
AGTTTATCTTGCATGCTTAAGACGT
59.356
36.000
19.43
9.88
35.91
4.34
3313
4371
2.548057
TCACATCGCAACCTCAAACTTC
59.452
45.455
0.00
0.00
0.00
3.01
3358
4417
3.993234
CCACGCGCATCATCTCGC
61.993
66.667
5.73
0.00
46.98
5.03
3384
4443
2.505557
CGCCAGGACGTCCGTAAC
60.506
66.667
28.26
17.64
42.08
2.50
3441
4500
0.962356
CCTTCGCAATCCAAGCAGGT
60.962
55.000
0.00
0.00
39.02
4.00
3469
4533
0.991920
TTTCCCTCCTGGCTACCTTG
59.008
55.000
0.00
0.00
0.00
3.61
3487
4551
3.103742
GAGAGACCACCTGATTCCTCTT
58.896
50.000
0.00
0.00
31.86
2.85
3489
4553
2.430332
CTGAGAGACCACCTGATTCCTC
59.570
54.545
0.00
0.00
0.00
3.71
3508
4573
6.909550
AGAGGCTTAGATGGTATACTTCTG
57.090
41.667
15.06
5.01
35.44
3.02
3533
4598
3.942829
TCGAAATTGCATCAACTCCTCT
58.057
40.909
0.00
0.00
0.00
3.69
3534
4599
4.497006
CCATCGAAATTGCATCAACTCCTC
60.497
45.833
0.00
0.00
0.00
3.71
3544
4609
4.533919
ATTCAAACCCATCGAAATTGCA
57.466
36.364
0.00
0.00
0.00
4.08
3586
4652
7.771927
AGATCAATCAAAACATCAGGTTCTT
57.228
32.000
0.00
0.00
39.29
2.52
3707
4780
5.425217
TGTAGGCAGATTCTCTTGTTATGGA
59.575
40.000
0.00
0.00
0.00
3.41
3805
4884
3.350833
AGGTCTTTCAAGTGCATCCATC
58.649
45.455
0.00
0.00
0.00
3.51
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.