Multiple sequence alignment - TraesCS3B01G470800
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
TraesCS3B01G470800
chr3B
100.000
7298
0
0
939
8236
719092119
719084822
0.000000e+00
13477.0
1
TraesCS3B01G470800
chr3B
100.000
639
0
0
1
639
719093057
719092419
0.000000e+00
1181.0
2
TraesCS3B01G470800
chr3A
96.508
6758
181
28
967
7684
680359357
680352615
0.000000e+00
11121.0
3
TraesCS3B01G470800
chr3A
90.484
578
45
3
3
570
680360111
680359534
0.000000e+00
754.0
4
TraesCS3B01G470800
chr3A
92.637
421
20
5
7824
8236
680352373
680351956
5.500000e-166
595.0
5
TraesCS3B01G470800
chr3D
96.197
5785
155
25
939
6706
543509438
543503702
0.000000e+00
9404.0
6
TraesCS3B01G470800
chr3D
94.182
911
38
8
6734
7630
543503381
543502472
0.000000e+00
1375.0
7
TraesCS3B01G470800
chr3D
90.968
620
25
11
3
592
543510312
543509694
0.000000e+00
806.0
8
TraesCS3B01G470800
chr3D
93.750
416
21
3
7822
8236
543502214
543501803
3.270000e-173
619.0
9
TraesCS3B01G470800
chr7A
90.136
811
37
14
3411
4206
575280817
575280035
0.000000e+00
1014.0
10
TraesCS3B01G470800
chr7A
93.902
82
5
0
4703
4784
575275790
575275709
3.120000e-24
124.0
11
TraesCS3B01G470800
chr7A
96.552
58
2
0
943
1000
554935470
554935527
6.800000e-16
97.1
12
TraesCS3B01G470800
chr7A
94.444
54
3
0
3589
3642
35092043
35092096
5.300000e-12
84.2
13
TraesCS3B01G470800
chrUn
100.000
386
0
0
4272
4657
480633002
480632617
0.000000e+00
713.0
14
TraesCS3B01G470800
chr2B
80.781
973
105
31
2795
3754
32099875
32100778
0.000000e+00
686.0
15
TraesCS3B01G470800
chr6A
89.865
148
5
1
4733
4880
437967361
437967224
1.830000e-41
182.0
16
TraesCS3B01G470800
chr6A
98.276
58
1
0
943
1000
351963541
351963598
1.460000e-17
102.0
17
TraesCS3B01G470800
chr5A
89.865
148
5
1
4733
4880
515747092
515747229
1.830000e-41
182.0
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
TraesCS3B01G470800
chr3B
719084822
719093057
8235
True
7329.000000
13477
100.000000
1
8236
2
chr3B.!!$R1
8235
1
TraesCS3B01G470800
chr3A
680351956
680360111
8155
True
4156.666667
11121
93.209667
3
8236
3
chr3A.!!$R1
8233
2
TraesCS3B01G470800
chr3D
543501803
543510312
8509
True
3051.000000
9404
93.774250
3
8236
4
chr3D.!!$R1
8233
3
TraesCS3B01G470800
chr7A
575280035
575280817
782
True
1014.000000
1014
90.136000
3411
4206
1
chr7A.!!$R2
795
4
TraesCS3B01G470800
chr2B
32099875
32100778
903
False
686.000000
686
80.781000
2795
3754
1
chr2B.!!$F1
959
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
463
498
1.215647
CCGTCTCCTCCCAGAAACG
59.784
63.158
0.00
0.0
0.00
3.60
F
1371
1415
0.109723
ACCATGGCACGTAGGTTGTT
59.890
50.000
13.04
0.0
0.00
2.83
F
1988
2050
0.321387
GAAGGAAGTGGACCGGGAAC
60.321
60.000
6.32
0.0
0.00
3.62
F
3450
3519
0.693430
AGGCTCCAGATGATGCTCCA
60.693
55.000
0.00
0.0
0.00
3.86
F
5270
5357
0.034089
GCCTGGTGGTGCTCCTTTAT
60.034
55.000
6.34
0.0
35.27
1.40
F
5314
5401
0.541392
TAGCACGTCATCATGGCCTT
59.459
50.000
3.32
0.0
0.00
4.35
F
6151
6238
1.021968
AGCCACACAACGAACTTTCC
58.978
50.000
0.00
0.0
0.00
3.13
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
1760
1811
0.182537
TGCTTGTAACAGCACCCAGT
59.817
50.000
0.00
0.00
45.14
4.00
R
2245
2307
0.896019
CACGGGAGTCTGACTCAGGT
60.896
60.000
32.16
25.96
46.79
4.00
R
3462
3531
0.753262
GGTACGGCATGAGGTCAGAT
59.247
55.000
0.00
0.00
0.00
2.90
R
5314
5401
2.108075
ACCATGTGTTTCCATCTGACCA
59.892
45.455
0.00
0.00
0.00
4.02
R
6482
6578
0.031449
GGGTTTGCTGTGCGCTTTAA
59.969
50.000
9.73
0.00
40.11
1.52
R
6524
6620
1.611977
TGAAGACAGATCCGTTGACGT
59.388
47.619
2.63
0.00
37.74
4.34
R
8048
8574
0.179056
ATACCAATTCTGTCCCGGCG
60.179
55.000
0.00
0.00
0.00
6.46
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
53
54
2.799488
TTTCGATGACACCGCGCGTA
62.799
55.000
29.95
9.69
0.00
4.42
131
136
1.604755
GCGACATGAGTATCCTCTCGT
59.395
52.381
0.00
0.00
36.09
4.18
132
137
2.350007
GCGACATGAGTATCCTCTCGTC
60.350
54.545
0.00
0.00
36.09
4.20
142
147
2.433868
TCCTCTCGTCCAAGTTTTCG
57.566
50.000
0.00
0.00
0.00
3.46
145
150
1.721926
CTCTCGTCCAAGTTTTCGCTC
59.278
52.381
0.00
0.00
0.00
5.03
148
153
1.866925
GTCCAAGTTTTCGCTCCGG
59.133
57.895
0.00
0.00
0.00
5.14
157
162
5.441709
AGTTTTCGCTCCGGAAATTTTAA
57.558
34.783
5.23
0.00
36.70
1.52
158
163
5.458015
AGTTTTCGCTCCGGAAATTTTAAG
58.542
37.500
5.23
0.00
36.70
1.85
169
194
6.324254
TCCGGAAATTTTAAGGTCCAGAAAAA
59.676
34.615
0.00
2.79
0.00
1.94
210
241
1.604278
GCACAAACAACTGAGGGAGAC
59.396
52.381
0.00
0.00
0.00
3.36
242
273
2.295909
CGAAAACCAGATCCAAAAGCCA
59.704
45.455
0.00
0.00
0.00
4.75
279
310
5.475719
ACAAGATCGACGTTTAGGATCAAA
58.524
37.500
16.71
0.00
39.17
2.69
307
338
3.970842
ACAACCTCCCTGTTTAACAACA
58.029
40.909
0.00
0.00
40.82
3.33
308
339
3.697542
ACAACCTCCCTGTTTAACAACAC
59.302
43.478
0.00
0.00
38.03
3.32
463
498
1.215647
CCGTCTCCTCCCAGAAACG
59.784
63.158
0.00
0.00
0.00
3.60
971
1006
2.189784
GCCCGAAACCCTAGCTCC
59.810
66.667
0.00
0.00
0.00
4.70
1151
1186
2.693591
CGTATGGGTAGATCTGTGTGGT
59.306
50.000
5.18
0.00
0.00
4.16
1159
1194
1.589716
GATCTGTGTGGTTGGCTGGC
61.590
60.000
0.00
0.00
0.00
4.85
1217
1252
2.634777
CTCTCGCTCGGGATCGAC
59.365
66.667
0.00
0.00
40.88
4.20
1290
1325
1.683365
TACCCTCGTTTCTCCCGGG
60.683
63.158
16.85
16.85
40.79
5.73
1313
1348
0.110056
CACATCAGTGTTGCTTCGGC
60.110
55.000
0.94
0.00
40.92
5.54
1317
1352
0.319900
TCAGTGTTGCTTCGGCTCTC
60.320
55.000
0.00
0.00
42.37
3.20
1322
1357
2.033424
GTGTTGCTTCGGCTCTCTTTTT
59.967
45.455
0.00
0.00
42.37
1.94
1349
1393
3.118261
TGTTCTTATTAGCTGCTGAGGGG
60.118
47.826
13.43
0.05
0.00
4.79
1367
1411
0.251073
GGTTACCATGGCACGTAGGT
59.749
55.000
13.04
7.71
38.14
3.08
1371
1415
0.109723
ACCATGGCACGTAGGTTGTT
59.890
50.000
13.04
0.00
0.00
2.83
1399
1443
4.688021
CTCTACTGTCTGTAGGATTTGGC
58.312
47.826
14.79
0.00
46.45
4.52
1459
1504
2.899838
TGCACGTGTGGACCTTGC
60.900
61.111
18.38
0.00
0.00
4.01
1511
1560
1.352622
TTGGGGTGGCAGTCTGAGTT
61.353
55.000
3.32
0.00
0.00
3.01
1512
1561
1.352622
TGGGGTGGCAGTCTGAGTTT
61.353
55.000
3.32
0.00
0.00
2.66
1514
1563
1.518903
GGGTGGCAGTCTGAGTTTGC
61.519
60.000
3.32
3.08
37.11
3.68
1547
1596
5.410132
TGTTATTGAGTACGTGTTTGATGGG
59.590
40.000
0.00
0.00
0.00
4.00
1548
1597
3.478857
TTGAGTACGTGTTTGATGGGT
57.521
42.857
0.00
0.00
0.00
4.51
1549
1598
4.603989
TTGAGTACGTGTTTGATGGGTA
57.396
40.909
0.00
0.00
0.00
3.69
1578
1627
3.133362
TGGTTTTACTGAGTCGTTGACCT
59.867
43.478
0.00
0.00
32.18
3.85
1622
1671
0.322277
CAGCAGCACCTGGAGAACAT
60.322
55.000
0.00
0.00
31.21
2.71
1675
1724
1.213537
CCAAGCGATGCCAAGGTTG
59.786
57.895
8.03
8.03
43.17
3.77
1760
1811
7.455638
AGTCAGTGTTATTTACCTAGGGTGTTA
59.544
37.037
14.81
0.00
36.19
2.41
1761
1812
7.547019
GTCAGTGTTATTTACCTAGGGTGTTAC
59.453
40.741
14.81
4.62
36.19
2.50
1771
1833
1.060163
AGGGTGTTACTGGGTGCTGT
61.060
55.000
0.00
0.00
0.00
4.40
1840
1902
1.681166
CCTCATGGGTCCTTGCTTGAG
60.681
57.143
0.00
0.00
0.00
3.02
1897
1959
2.704012
GCTAAGAAAGAGCGCCGC
59.296
61.111
2.29
0.00
0.00
6.53
1988
2050
0.321387
GAAGGAAGTGGACCGGGAAC
60.321
60.000
6.32
0.00
0.00
3.62
2170
2232
0.882474
ACGACAAGGAGAAGGACTCG
59.118
55.000
0.00
0.00
45.76
4.18
2311
2373
1.819903
GAGACTCAGACCAGTGGTACC
59.180
57.143
16.72
4.43
35.25
3.34
2709
2771
5.686753
TCTTTTAAAGTGGCTGTTCACCTA
58.313
37.500
4.53
0.00
38.34
3.08
2712
2774
6.569179
TTTAAAGTGGCTGTTCACCTATTC
57.431
37.500
0.00
0.00
38.34
1.75
2756
2818
6.305399
CAGTTTATTTATCCGTTTGTGTGCTG
59.695
38.462
0.00
0.00
0.00
4.41
2859
2925
7.118535
GGAGAGAAACAAAGATCTTGAAGGTAC
59.881
40.741
9.17
0.00
0.00
3.34
2887
2953
6.967135
CATCATGGGATGCATATATTACTGC
58.033
40.000
0.00
0.00
44.03
4.40
2982
3048
6.610075
ATTGATGCCAACAAGGATAAAAGT
57.390
33.333
0.00
0.00
41.22
2.66
3027
3093
1.676529
CATGAAGGATCTGCTGCCTTG
59.323
52.381
7.14
0.00
44.23
3.61
3042
3108
4.630111
CTGCCTTGATATCAGAGAAGGAC
58.370
47.826
20.75
13.68
37.74
3.85
3043
3109
3.389329
TGCCTTGATATCAGAGAAGGACC
59.611
47.826
20.75
8.08
37.74
4.46
3209
3278
7.664318
TGATATCGATCCTAGCACTAAGTTACA
59.336
37.037
0.00
0.00
0.00
2.41
3402
3471
7.821846
GTCTCCTGGTATGAAGATGGATATTTC
59.178
40.741
0.00
0.00
0.00
2.17
3450
3519
0.693430
AGGCTCCAGATGATGCTCCA
60.693
55.000
0.00
0.00
0.00
3.86
3462
3531
0.546122
ATGCTCCATTTCGCCCACTA
59.454
50.000
0.00
0.00
0.00
2.74
3755
3827
2.037136
GTCAGCAGCGCATTCCTGT
61.037
57.895
11.47
0.00
32.93
4.00
3764
3836
1.128692
GCGCATTCCTGTAACTGTGAC
59.871
52.381
0.30
0.00
0.00
3.67
3788
3860
4.287067
TCAGGATGCTGAAGGTTAGTTTCT
59.713
41.667
15.31
0.00
34.76
2.52
3830
3910
6.799512
AGTGTTTTTCTTCACATTCTCTTGG
58.200
36.000
0.00
0.00
37.07
3.61
4118
4205
5.164620
TCTCTCATCAAATGTGCTTGGTA
57.835
39.130
0.00
0.00
0.00
3.25
4132
4219
2.808543
GCTTGGTATAAATGAGCGGAGG
59.191
50.000
0.00
0.00
0.00
4.30
5119
5206
2.158475
TGCCTCCAGACTTGGTCAATTT
60.158
45.455
0.52
0.00
45.26
1.82
5176
5263
2.028294
GGAGCATCATGACCATCTCGAT
60.028
50.000
0.00
0.00
36.25
3.59
5224
5311
2.039084
GCATAGGGGAGGTCAAGGTATG
59.961
54.545
0.00
0.00
0.00
2.39
5270
5357
0.034089
GCCTGGTGGTGCTCCTTTAT
60.034
55.000
6.34
0.00
35.27
1.40
5314
5401
0.541392
TAGCACGTCATCATGGCCTT
59.459
50.000
3.32
0.00
0.00
4.35
5560
5647
4.666412
TGTGGAAATGAACCTTCCCATA
57.334
40.909
0.00
0.00
41.54
2.74
5713
5800
3.242413
CGGCATCATTTGGACGTAAAGAG
60.242
47.826
0.00
0.00
0.00
2.85
6151
6238
1.021968
AGCCACACAACGAACTTTCC
58.978
50.000
0.00
0.00
0.00
3.13
6229
6323
6.397272
CATCCAAGTTCTGATATCTAGGCTC
58.603
44.000
3.98
0.00
0.00
4.70
6275
6369
4.945246
TGTGTTCCTTCAGTACTCTGTTC
58.055
43.478
0.00
0.00
41.91
3.18
6321
6416
9.793259
TCTTTATTATGTTCACTTTTCCAGAGT
57.207
29.630
0.00
0.00
0.00
3.24
6323
6418
6.727824
ATTATGTTCACTTTTCCAGAGTCG
57.272
37.500
0.00
0.00
0.00
4.18
6346
6441
8.601476
GTCGATTAGGTATTTTACTTGTCCAAG
58.399
37.037
5.51
5.51
43.79
3.61
6482
6578
2.002625
GGAAGCTCCCATTCCCTGT
58.997
57.895
0.00
0.00
40.37
4.00
6612
6708
1.084289
GGTACGCCATGTTCAACCTC
58.916
55.000
0.00
0.00
34.09
3.85
6713
6810
7.433708
TGTTAAGTCCAATAATATCCATGCG
57.566
36.000
0.00
0.00
0.00
4.73
6740
7130
8.814038
AGCTAATTGAATTAACTGAAGACCAT
57.186
30.769
0.40
0.00
0.00
3.55
6858
7254
5.316987
ACTTGAGGATTCTACAAAAGGGTG
58.683
41.667
0.00
0.00
0.00
4.61
6953
7349
2.359230
GTCACCTCAGCAGCCCAC
60.359
66.667
0.00
0.00
0.00
4.61
7244
7640
1.671850
CCCGACGACTAACATGCTTGT
60.672
52.381
0.00
0.00
37.82
3.16
7403
7800
5.073144
TGTCAAGTTGAAATTAGGAGGGAGT
59.927
40.000
7.25
0.00
0.00
3.85
7466
7865
5.010112
AGGATACATGAATCTGTACAGGACG
59.990
44.000
22.48
8.25
34.59
4.79
7547
7950
6.256053
TCTTAATTCCTCAGGCCATTTCTTT
58.744
36.000
5.01
0.00
0.00
2.52
7581
7984
5.179452
TGAACAAGCCTAGCTTCCTTATT
57.821
39.130
0.00
0.00
46.77
1.40
7585
7988
6.253946
ACAAGCCTAGCTTCCTTATTATGT
57.746
37.500
0.00
0.00
46.77
2.29
7589
7992
8.470002
CAAGCCTAGCTTCCTTATTATGTTTTT
58.530
33.333
0.00
0.00
46.77
1.94
7590
7993
9.695155
AAGCCTAGCTTCCTTATTATGTTTTTA
57.305
29.630
0.00
0.00
46.77
1.52
7591
7994
9.695155
AGCCTAGCTTCCTTATTATGTTTTTAA
57.305
29.630
0.00
0.00
33.89
1.52
7616
8021
5.450688
GGTTAGAGGATATACATAGCAGCCG
60.451
48.000
0.00
0.00
0.00
5.52
7638
8043
2.779755
AACGTGGCATTATCCAGTCA
57.220
45.000
0.00
0.00
36.67
3.41
7639
8044
3.281727
AACGTGGCATTATCCAGTCAT
57.718
42.857
0.00
0.00
36.67
3.06
7640
8045
4.415881
AACGTGGCATTATCCAGTCATA
57.584
40.909
0.00
0.00
36.67
2.15
7641
8046
3.995199
ACGTGGCATTATCCAGTCATAG
58.005
45.455
0.00
0.00
36.67
2.23
7644
8049
4.816385
CGTGGCATTATCCAGTCATAGTTT
59.184
41.667
0.00
0.00
36.67
2.66
7645
8050
5.989168
CGTGGCATTATCCAGTCATAGTTTA
59.011
40.000
0.00
0.00
36.67
2.01
7650
8056
9.502091
GGCATTATCCAGTCATAGTTTAATGTA
57.498
33.333
0.00
0.00
31.46
2.29
7686
8146
4.413969
GTTTCTCGAGCTGTAGGACTAAC
58.586
47.826
7.81
0.00
0.00
2.34
7702
8162
6.206042
AGGACTAACCAGAGGATTATGAAGT
58.794
40.000
0.00
0.00
42.04
3.01
7726
8186
4.935205
CAGACATGGAATCCTAAACGAACA
59.065
41.667
0.00
0.00
0.00
3.18
7728
8188
5.586243
AGACATGGAATCCTAAACGAACATG
59.414
40.000
0.00
0.00
40.04
3.21
7740
8200
4.553330
AACGAACATGGTCAGATTAGGT
57.447
40.909
12.13
0.00
0.00
3.08
7748
8208
5.241506
ACATGGTCAGATTAGGTTGTTGTTG
59.758
40.000
0.00
0.00
0.00
3.33
7785
8245
3.382865
TCAGTTTGCCTTGTTTGTGCATA
59.617
39.130
0.00
0.00
34.51
3.14
7789
8249
2.591923
TGCCTTGTTTGTGCATAGGAA
58.408
42.857
0.00
0.00
0.00
3.36
7845
8365
8.955061
TCTCATTCTTTTGAATCGAAATGAAC
57.045
30.769
6.41
0.00
46.51
3.18
7909
8433
7.230466
TCTTCTTCTACGTTCTTGTGAAAAC
57.770
36.000
0.00
0.00
33.52
2.43
7914
8438
6.497785
TCTACGTTCTTGTGAAAACCAAAA
57.502
33.333
0.00
0.00
33.52
2.44
8188
8714
0.905357
AGGGATCTCAACGGTGAAGG
59.095
55.000
3.93
0.00
31.88
3.46
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
0
1
2.621526
CCCTAAAACAACTCGGTTGCTT
59.378
45.455
14.29
7.78
46.20
3.91
1
2
2.227194
CCCTAAAACAACTCGGTTGCT
58.773
47.619
14.29
2.60
46.20
3.91
53
54
2.406002
AAACGGACGGTGGATTGCCT
62.406
55.000
0.00
0.00
34.31
4.75
120
125
3.858238
CGAAAACTTGGACGAGAGGATAC
59.142
47.826
0.00
0.00
0.00
2.24
131
136
0.107081
TTCCGGAGCGAAAACTTGGA
59.893
50.000
3.34
0.00
0.00
3.53
132
137
0.948678
TTTCCGGAGCGAAAACTTGG
59.051
50.000
3.34
0.00
0.00
3.61
142
147
3.086282
TGGACCTTAAAATTTCCGGAGC
58.914
45.455
3.34
0.00
0.00
4.70
145
150
5.715434
TTTCTGGACCTTAAAATTTCCGG
57.285
39.130
0.00
0.00
36.03
5.14
192
217
1.843851
TGGTCTCCCTCAGTTGTTTGT
59.156
47.619
0.00
0.00
0.00
2.83
210
241
3.211045
TCTGGTTTTCGGAGAAAAGTGG
58.789
45.455
8.04
2.80
45.90
4.00
223
254
3.037549
TGTGGCTTTTGGATCTGGTTTT
58.962
40.909
0.00
0.00
0.00
2.43
242
273
6.797513
CGTCGATCTTGTATATTCGATTCTGT
59.202
38.462
0.00
0.00
41.96
3.41
279
310
0.475828
ACAGGGAGGTTGTTAGGGCT
60.476
55.000
0.00
0.00
0.00
5.19
308
339
9.578439
CCTGCTTTATTTCTTTCTTAATTGGAG
57.422
33.333
0.00
0.00
0.00
3.86
463
498
2.438434
CGGGGATGGGAACTGTGC
60.438
66.667
0.00
0.00
0.00
4.57
1169
1204
4.289342
CGAAACAAGCACACATCAAATCA
58.711
39.130
0.00
0.00
0.00
2.57
1217
1252
2.728817
GCGGTGGACCTATCCTCG
59.271
66.667
0.00
0.86
46.43
4.63
1278
1313
1.670083
GTGGTTCCCGGGAGAAACG
60.670
63.158
25.26
0.00
36.17
3.60
1290
1325
2.349817
CGAAGCAACACTGATGTGGTTC
60.350
50.000
5.06
5.06
42.21
3.62
1322
1357
6.072508
CCTCAGCAGCTAATAAGAACAACAAA
60.073
38.462
0.00
0.00
0.00
2.83
1325
1360
4.333926
CCCTCAGCAGCTAATAAGAACAAC
59.666
45.833
0.00
0.00
0.00
3.32
1326
1361
4.517285
CCCTCAGCAGCTAATAAGAACAA
58.483
43.478
0.00
0.00
0.00
2.83
1328
1363
3.118223
ACCCCTCAGCAGCTAATAAGAAC
60.118
47.826
0.00
0.00
0.00
3.01
1330
1365
2.764269
ACCCCTCAGCAGCTAATAAGA
58.236
47.619
0.00
0.00
0.00
2.10
1342
1386
0.394352
GTGCCATGGTAACCCCTCAG
60.394
60.000
14.67
0.00
0.00
3.35
1349
1393
1.735571
CAACCTACGTGCCATGGTAAC
59.264
52.381
14.67
11.41
31.82
2.50
1386
1430
4.437682
TCCCATAAGCCAAATCCTACAG
57.562
45.455
0.00
0.00
0.00
2.74
1399
1443
4.406649
AGCAACCATTCCATTTCCCATAAG
59.593
41.667
0.00
0.00
0.00
1.73
1459
1504
4.394941
CAGTCGCACGCACGAACG
62.395
66.667
1.58
0.00
44.93
3.95
1511
1560
2.480037
CTCAATAACAGCTCACACGCAA
59.520
45.455
0.00
0.00
0.00
4.85
1512
1561
2.068519
CTCAATAACAGCTCACACGCA
58.931
47.619
0.00
0.00
0.00
5.24
1514
1563
3.300853
CGTACTCAATAACAGCTCACACG
59.699
47.826
0.00
0.00
0.00
4.49
1547
1596
6.534079
ACGACTCAGTAAAACCATGCTATTAC
59.466
38.462
0.00
0.00
0.00
1.89
1548
1597
6.636705
ACGACTCAGTAAAACCATGCTATTA
58.363
36.000
0.00
0.00
0.00
0.98
1549
1598
5.488341
ACGACTCAGTAAAACCATGCTATT
58.512
37.500
0.00
0.00
0.00
1.73
1622
1671
1.079490
ACTGAGGGGACAGAGGAATGA
59.921
52.381
0.00
0.00
40.63
2.57
1675
1724
3.008049
ACAGAAATAGGACACCAGTGACC
59.992
47.826
10.75
10.75
43.96
4.02
1760
1811
0.182537
TGCTTGTAACAGCACCCAGT
59.817
50.000
0.00
0.00
45.14
4.00
1761
1812
3.019964
TGCTTGTAACAGCACCCAG
57.980
52.632
0.00
0.00
45.14
4.45
1771
1833
6.652900
TCTGCACAGTTAATACATGCTTGTAA
59.347
34.615
15.56
0.00
41.51
2.41
1840
1902
2.421248
CCTCCCATCTTTCTCAGAAGGC
60.421
54.545
0.00
0.00
38.86
4.35
1857
1919
0.545646
AGAGCCTTCAAGCATCCTCC
59.454
55.000
0.00
0.00
34.23
4.30
1882
1944
2.508439
CGGCGGCGCTCTTTCTTA
60.508
61.111
32.30
0.00
0.00
2.10
1988
2050
3.060363
CGATCGTTTTTACGGTTCTCCAG
59.940
47.826
7.03
0.00
0.00
3.86
2170
2232
5.047802
TGCATCCATCTTCTTTTCTGGTTTC
60.048
40.000
0.00
0.00
0.00
2.78
2224
2286
2.257207
AGCAGCCTTACAGGAAGTGTA
58.743
47.619
0.00
0.00
40.94
2.90
2245
2307
0.896019
CACGGGAGTCTGACTCAGGT
60.896
60.000
32.16
25.96
46.79
4.00
2311
2373
3.913573
GCAGCACGGTATGTCGCG
61.914
66.667
0.00
0.00
32.22
5.87
2670
2732
4.541973
AAAAGAAACCATGAAGGGCATC
57.458
40.909
0.00
0.00
43.89
3.91
2709
2771
9.975218
AACTGGGTAGTAGTGATAAAAATGAAT
57.025
29.630
0.00
0.00
35.69
2.57
2756
2818
6.759497
AATATCTTCCAAAACAGCCTGTAC
57.241
37.500
0.00
0.00
0.00
2.90
2887
2953
6.590068
AGGAACAGAAGAATCATATGACAGG
58.410
40.000
7.78
0.00
0.00
4.00
3048
3114
3.270027
TGCGAACATCCCTTCATTGTAG
58.730
45.455
0.00
0.00
0.00
2.74
3209
3278
6.769134
TGAACTGAGCATTTGAATCATCAT
57.231
33.333
0.00
0.00
34.96
2.45
3402
3471
0.811616
GCACAGGTAGCTCCAATCCG
60.812
60.000
0.00
0.00
39.02
4.18
3450
3519
2.103263
GAGGTCAGATAGTGGGCGAAAT
59.897
50.000
0.00
0.00
0.00
2.17
3462
3531
0.753262
GGTACGGCATGAGGTCAGAT
59.247
55.000
0.00
0.00
0.00
2.90
3755
3827
3.165071
TCAGCATCCTGAGTCACAGTTA
58.835
45.455
0.00
0.00
42.98
2.24
3830
3910
6.214191
TCAGAGTTTCAGACATGGATAGAC
57.786
41.667
0.00
0.00
0.00
2.59
4118
4205
2.711009
TGGGATTCCTCCGCTCATTTAT
59.289
45.455
2.01
0.00
43.11
1.40
4132
4219
1.087501
GAGCTGTCGGTTTGGGATTC
58.912
55.000
0.00
0.00
0.00
2.52
4270
4357
3.131046
GGGAAATTAGCCCTGACATGTTG
59.869
47.826
0.00
0.00
42.56
3.33
5119
5206
2.259917
TGAAGGGACTGCAGAAGATCA
58.740
47.619
23.35
14.35
40.52
2.92
5176
5263
4.560128
GTTCATGCATAGATAGGCTTCGA
58.440
43.478
0.00
0.00
33.54
3.71
5270
5357
5.105392
GGGCATTTACAACATCAGGATTTGA
60.105
40.000
9.56
0.00
40.85
2.69
5314
5401
2.108075
ACCATGTGTTTCCATCTGACCA
59.892
45.455
0.00
0.00
0.00
4.02
5560
5647
2.965805
CCATGCATGTGGGTTGTCT
58.034
52.632
24.58
0.00
35.55
3.41
5713
5800
1.949525
TGTGCAAAGAGTGAAGAAGGC
59.050
47.619
0.00
0.00
0.00
4.35
5899
5986
3.451526
CATTGTCGCAGAGCTTGATCTA
58.548
45.455
0.00
0.00
36.95
1.98
6194
6288
3.647590
AGAACTTGGATGGGTTTGCAAAT
59.352
39.130
16.21
0.00
0.00
2.32
6201
6295
5.983333
AGATATCAGAACTTGGATGGGTT
57.017
39.130
5.32
0.00
0.00
4.11
6321
6416
8.712285
CTTGGACAAGTAAAATACCTAATCGA
57.288
34.615
3.93
0.00
33.87
3.59
6346
6441
9.594038
CACTATGTGTAAACTGACAATAACAAC
57.406
33.333
0.00
0.00
0.00
3.32
6382
6478
4.323553
ACTAGAGAACCAACTGTGTGTC
57.676
45.455
0.00
0.00
0.00
3.67
6482
6578
0.031449
GGGTTTGCTGTGCGCTTTAA
59.969
50.000
9.73
0.00
40.11
1.52
6524
6620
1.611977
TGAAGACAGATCCGTTGACGT
59.388
47.619
2.63
0.00
37.74
4.34
6612
6708
4.790766
GCATGAGAAGAAAACCACACAGTG
60.791
45.833
0.00
0.00
0.00
3.66
6713
6810
9.162764
TGGTCTTCAGTTAATTCAATTAGCTAC
57.837
33.333
6.22
2.08
35.01
3.58
6816
7207
2.484264
AGTCAGTAAGCGGAACATTTGC
59.516
45.455
0.00
0.00
0.00
3.68
6953
7349
4.389576
GCAGTGGCTTCAACGGCG
62.390
66.667
4.80
4.80
36.96
6.46
7130
7526
7.147915
TGCTTTCCTTTCTTTGCTTTCTTCTTA
60.148
33.333
0.00
0.00
0.00
2.10
7244
7640
2.289565
TGTACACAAAATGGCACGACA
58.710
42.857
0.00
0.00
0.00
4.35
7466
7865
0.537143
TACATGCCCATGATTCCGGC
60.537
55.000
14.69
0.00
41.20
6.13
7547
7950
1.004745
GCTTGTTCAATCAGGGAGGGA
59.995
52.381
0.00
0.00
0.00
4.20
7589
7992
7.342284
GGCTGCTATGTATATCCTCTAACCTTA
59.658
40.741
0.00
0.00
0.00
2.69
7590
7993
6.155393
GGCTGCTATGTATATCCTCTAACCTT
59.845
42.308
0.00
0.00
0.00
3.50
7591
7994
5.659079
GGCTGCTATGTATATCCTCTAACCT
59.341
44.000
0.00
0.00
0.00
3.50
7597
8000
3.024547
TCCGGCTGCTATGTATATCCTC
58.975
50.000
0.00
0.00
0.00
3.71
7600
8003
3.612860
CGTTTCCGGCTGCTATGTATATC
59.387
47.826
0.00
0.00
0.00
1.63
7601
8004
3.006537
ACGTTTCCGGCTGCTATGTATAT
59.993
43.478
0.00
0.00
38.78
0.86
7603
8006
1.138266
ACGTTTCCGGCTGCTATGTAT
59.862
47.619
0.00
0.00
38.78
2.29
7606
8009
1.705337
CCACGTTTCCGGCTGCTATG
61.705
60.000
0.00
0.00
38.78
2.23
7616
8021
2.354821
GACTGGATAATGCCACGTTTCC
59.645
50.000
0.00
0.00
33.52
3.13
7639
8044
9.305555
ACCAGTACTGAGACTTACATTAAACTA
57.694
33.333
24.68
0.00
0.00
2.24
7640
8045
8.191534
ACCAGTACTGAGACTTACATTAAACT
57.808
34.615
24.68
0.00
0.00
2.66
7641
8046
8.828688
AACCAGTACTGAGACTTACATTAAAC
57.171
34.615
24.68
0.00
0.00
2.01
7644
8049
8.418597
AGAAACCAGTACTGAGACTTACATTA
57.581
34.615
24.68
0.00
0.00
1.90
7645
8050
7.304497
AGAAACCAGTACTGAGACTTACATT
57.696
36.000
24.68
5.32
0.00
2.71
7650
8056
4.142790
TCGAGAAACCAGTACTGAGACTT
58.857
43.478
24.68
10.84
0.00
3.01
7686
8146
5.604758
TGTCTGACTTCATAATCCTCTGG
57.395
43.478
9.51
0.00
0.00
3.86
7702
8162
5.175859
GTTCGTTTAGGATTCCATGTCTGA
58.824
41.667
5.29
0.00
0.00
3.27
7726
8186
4.218417
GCAACAACAACCTAATCTGACCAT
59.782
41.667
0.00
0.00
0.00
3.55
7728
8188
3.821033
AGCAACAACAACCTAATCTGACC
59.179
43.478
0.00
0.00
0.00
4.02
7758
8218
4.033129
CACAAACAAGGCAAACTGACATTG
59.967
41.667
0.00
0.00
0.00
2.82
7763
8223
1.547820
TGCACAAACAAGGCAAACTGA
59.452
42.857
0.00
0.00
34.05
3.41
7766
8226
3.059166
CCTATGCACAAACAAGGCAAAC
58.941
45.455
0.00
0.00
41.43
2.93
7785
8245
3.452878
TCAAATCCCCATTTGCATTCCT
58.547
40.909
3.05
0.00
46.01
3.36
7789
8249
3.839490
TCAACTCAAATCCCCATTTGCAT
59.161
39.130
3.05
0.00
46.01
3.96
7796
8256
6.985653
TTTTACAATCAACTCAAATCCCCA
57.014
33.333
0.00
0.00
0.00
4.96
7828
8348
7.042321
ACACTAGTCGTTCATTTCGATTCAAAA
60.042
33.333
0.00
0.00
39.45
2.44
7886
8410
6.036735
TGGTTTTCACAAGAACGTAGAAGAAG
59.963
38.462
0.00
0.00
32.39
2.85
7909
8433
2.159028
TCGTTTTTCAGGGCCTTTTTGG
60.159
45.455
1.32
0.00
39.35
3.28
7914
8438
1.318576
CTGTCGTTTTTCAGGGCCTT
58.681
50.000
1.32
0.00
0.00
4.35
8048
8574
0.179056
ATACCAATTCTGTCCCGGCG
60.179
55.000
0.00
0.00
0.00
6.46
8188
8714
4.828925
GCTGCTGCCGGTCTCTCC
62.829
72.222
1.90
0.00
0.00
3.71
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.