Multiple sequence alignment - TraesCS7A01G249700
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
TraesCS7A01G249700
chr7A
100.000
2969
0
0
1
2969
232387781
232390749
0.000000e+00
5483.0
1
TraesCS7A01G249700
chr7D
92.528
1499
84
12
804
2286
219847423
219848909
0.000000e+00
2122.0
2
TraesCS7A01G249700
chr7D
91.063
414
26
6
59
465
219843674
219844083
1.560000e-152
549.0
3
TraesCS7A01G249700
chr7D
76.538
780
171
11
1186
1962
572018288
572019058
1.650000e-112
416.0
4
TraesCS7A01G249700
chr7D
85.156
256
10
6
450
678
219844527
219844781
1.380000e-58
237.0
5
TraesCS7A01G249700
chr7D
94.286
140
7
1
682
821
219846108
219846246
2.320000e-51
213.0
6
TraesCS7A01G249700
chr7D
100.000
51
0
0
759
809
219846250
219846300
8.760000e-16
95.3
7
TraesCS7A01G249700
chr7B
87.944
1352
81
40
561
1904
179902671
179901394
0.000000e+00
1519.0
8
TraesCS7A01G249700
chr7B
90.051
392
21
8
1897
2288
179900054
179899681
2.660000e-135
492.0
9
TraesCS7A01G249700
chr7B
76.142
876
191
14
1092
1961
629019441
629020304
7.550000e-121
444.0
10
TraesCS7A01G249700
chr7B
83.544
395
54
4
44
436
179910817
179910432
2.810000e-95
359.0
11
TraesCS7A01G249700
chr7B
89.109
101
9
2
2460
2559
504815554
504815653
1.120000e-24
124.0
12
TraesCS7A01G249700
chr5A
95.603
614
26
1
2356
2969
482718638
482718026
0.000000e+00
983.0
13
TraesCS7A01G249700
chr3D
94.413
358
16
3
2616
2969
565800800
565800443
5.600000e-152
547.0
14
TraesCS7A01G249700
chr3D
93.785
354
20
2
2616
2969
369804120
369804471
5.630000e-147
531.0
15
TraesCS7A01G249700
chr3D
90.698
258
21
3
2356
2611
566967267
566967011
1.020000e-89
340.0
16
TraesCS7A01G249700
chr4A
94.398
357
16
4
2616
2969
717952854
717953209
2.010000e-151
545.0
17
TraesCS7A01G249700
chr6B
94.134
358
17
4
2616
2969
492220704
492220347
2.600000e-150
542.0
18
TraesCS7A01G249700
chr6B
93.575
358
19
4
2616
2969
392484221
392484578
5.630000e-147
531.0
19
TraesCS7A01G249700
chr6B
93.258
356
22
2
2616
2969
37233296
37232941
9.430000e-145
523.0
20
TraesCS7A01G249700
chr6B
93.220
354
24
0
2616
2969
6885669
6885316
3.390000e-144
521.0
21
TraesCS7A01G249700
chr2D
94.101
356
18
3
2616
2969
104151568
104151214
3.370000e-149
538.0
22
TraesCS7A01G249700
chr2D
77.132
516
96
18
1160
1662
18269632
18269126
2.250000e-71
279.0
23
TraesCS7A01G249700
chr1D
91.085
258
20
3
2356
2611
33992241
33991985
2.190000e-91
346.0
24
TraesCS7A01G249700
chr2B
77.692
520
87
24
1159
1662
30313388
30312882
1.040000e-74
291.0
25
TraesCS7A01G249700
chr2B
75.530
519
107
17
1157
1662
30418080
30417569
1.380000e-58
237.0
26
TraesCS7A01G249700
chr4B
88.372
215
21
4
2347
2559
634416412
634416200
3.800000e-64
255.0
27
TraesCS7A01G249700
chr4B
85.938
64
8
1
2460
2522
627529395
627529332
1.910000e-07
67.6
28
TraesCS7A01G249700
chr2A
74.143
642
135
24
1157
1781
19436304
19435677
1.380000e-58
237.0
29
TraesCS7A01G249700
chr3B
88.119
101
10
2
2460
2559
716242292
716242391
5.200000e-23
119.0
30
TraesCS7A01G249700
chr1A
79.518
166
27
7
1175
1336
540413928
540414090
8.700000e-21
111.0
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
TraesCS7A01G249700
chr7A
232387781
232390749
2968
False
5483.00
5483
100.0000
1
2969
1
chr7A.!!$F1
2968
1
TraesCS7A01G249700
chr7D
219843674
219848909
5235
False
643.26
2122
92.6066
59
2286
5
chr7D.!!$F2
2227
2
TraesCS7A01G249700
chr7D
572018288
572019058
770
False
416.00
416
76.5380
1186
1962
1
chr7D.!!$F1
776
3
TraesCS7A01G249700
chr7B
179899681
179902671
2990
True
1005.50
1519
88.9975
561
2288
2
chr7B.!!$R2
1727
4
TraesCS7A01G249700
chr7B
629019441
629020304
863
False
444.00
444
76.1420
1092
1961
1
chr7B.!!$F2
869
5
TraesCS7A01G249700
chr5A
482718026
482718638
612
True
983.00
983
95.6030
2356
2969
1
chr5A.!!$R1
613
6
TraesCS7A01G249700
chr2D
18269126
18269632
506
True
279.00
279
77.1320
1160
1662
1
chr2D.!!$R1
502
7
TraesCS7A01G249700
chr2B
30312882
30313388
506
True
291.00
291
77.6920
1159
1662
1
chr2B.!!$R1
503
8
TraesCS7A01G249700
chr2B
30417569
30418080
511
True
237.00
237
75.5300
1157
1662
1
chr2B.!!$R2
505
9
TraesCS7A01G249700
chr2A
19435677
19436304
627
True
237.00
237
74.1430
1157
1781
1
chr2A.!!$R1
624
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
971
3986
0.328592
ACCTGCTCGACCACTCTAGA
59.671
55.0
0.0
0.0
0.0
2.43
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
2617
7008
0.676782
AGGGTAGATGTTGTTGCCGC
60.677
55.0
0.0
0.0
0.0
6.53
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
21
22
3.957468
GTGTTGCTTCCTCTGTTCTTTG
58.043
45.455
0.00
0.00
0.00
2.77
22
23
3.378427
GTGTTGCTTCCTCTGTTCTTTGT
59.622
43.478
0.00
0.00
0.00
2.83
23
24
3.378112
TGTTGCTTCCTCTGTTCTTTGTG
59.622
43.478
0.00
0.00
0.00
3.33
24
25
3.558931
TGCTTCCTCTGTTCTTTGTGA
57.441
42.857
0.00
0.00
0.00
3.58
25
26
4.090761
TGCTTCCTCTGTTCTTTGTGAT
57.909
40.909
0.00
0.00
0.00
3.06
26
27
5.227569
TGCTTCCTCTGTTCTTTGTGATA
57.772
39.130
0.00
0.00
0.00
2.15
27
28
4.997395
TGCTTCCTCTGTTCTTTGTGATAC
59.003
41.667
0.00
0.00
0.00
2.24
28
29
4.393371
GCTTCCTCTGTTCTTTGTGATACC
59.607
45.833
0.00
0.00
0.00
2.73
29
30
5.799213
CTTCCTCTGTTCTTTGTGATACCT
58.201
41.667
0.00
0.00
0.00
3.08
30
31
5.825593
TCCTCTGTTCTTTGTGATACCTT
57.174
39.130
0.00
0.00
0.00
3.50
31
32
6.187727
TCCTCTGTTCTTTGTGATACCTTT
57.812
37.500
0.00
0.00
0.00
3.11
32
33
6.601332
TCCTCTGTTCTTTGTGATACCTTTT
58.399
36.000
0.00
0.00
0.00
2.27
33
34
7.060421
TCCTCTGTTCTTTGTGATACCTTTTT
58.940
34.615
0.00
0.00
0.00
1.94
64
65
6.803154
AACCTTGTGATGCTTTCTAGTAAC
57.197
37.500
0.00
0.00
0.00
2.50
71
72
9.515226
TTGTGATGCTTTCTAGTAACCTTATTT
57.485
29.630
0.00
0.00
0.00
1.40
89
90
9.432982
ACCTTATTTCTTGGCCATTAATCAATA
57.567
29.630
6.09
1.34
0.00
1.90
95
96
9.956640
TTTCTTGGCCATTAATCAATATTGTTT
57.043
25.926
6.09
14.72
0.00
2.83
116
117
1.747355
GGCCTGACTTGATGTTGATGG
59.253
52.381
0.00
0.00
0.00
3.51
120
121
4.074259
CCTGACTTGATGTTGATGGTGAA
58.926
43.478
0.00
0.00
0.00
3.18
126
127
4.371624
TGATGTTGATGGTGAAGAAGGT
57.628
40.909
0.00
0.00
0.00
3.50
134
135
5.634118
TGATGGTGAAGAAGGTGAAGAAAT
58.366
37.500
0.00
0.00
0.00
2.17
137
138
5.065914
TGGTGAAGAAGGTGAAGAAATCTG
58.934
41.667
0.00
0.00
0.00
2.90
146
147
2.746362
GTGAAGAAATCTGTGCTGGAGG
59.254
50.000
0.00
0.00
0.00
4.30
152
153
1.351080
ATCTGTGCTGGAGGGGATGG
61.351
60.000
0.00
0.00
0.00
3.51
170
171
3.315140
TGGATCCGCAACCACCGA
61.315
61.111
7.39
0.00
0.00
4.69
186
193
1.966354
ACCGAGGAAGGTCGTTTAACT
59.034
47.619
0.00
0.00
41.46
2.24
265
273
2.189499
GCCCCGGCAGATGATTGAC
61.189
63.158
0.00
0.00
41.49
3.18
281
289
7.677745
AGATGATTGACCTATGGAGCTTATAGT
59.322
37.037
14.30
6.19
0.00
2.12
286
294
2.563179
CCTATGGAGCTTATAGTGCCGT
59.437
50.000
14.30
2.70
0.00
5.68
287
295
3.006967
CCTATGGAGCTTATAGTGCCGTT
59.993
47.826
14.30
0.00
0.00
4.44
289
297
2.627945
TGGAGCTTATAGTGCCGTTTG
58.372
47.619
0.00
0.00
0.00
2.93
290
298
1.940613
GGAGCTTATAGTGCCGTTTGG
59.059
52.381
0.00
0.00
38.77
3.28
291
299
2.629051
GAGCTTATAGTGCCGTTTGGT
58.371
47.619
0.00
0.00
37.67
3.67
292
300
2.608090
GAGCTTATAGTGCCGTTTGGTC
59.392
50.000
0.00
0.00
37.67
4.02
293
301
2.236395
AGCTTATAGTGCCGTTTGGTCT
59.764
45.455
0.00
0.00
37.67
3.85
307
315
1.946984
TGGTCTATTGGAAGTCCGGT
58.053
50.000
0.00
0.00
39.43
5.28
356
364
3.701205
TCTGTATTTCTGAGCTTGCCA
57.299
42.857
0.00
0.00
0.00
4.92
367
375
2.223782
TGAGCTTGCCATTGTGTGTTTC
60.224
45.455
0.00
0.00
0.00
2.78
422
430
3.764466
CAGCTCCGGCGAGAACCT
61.764
66.667
9.30
0.63
44.37
3.50
522
987
2.093973
CGATGTAGGTTTCTGCTGGTCT
60.094
50.000
0.00
0.00
0.00
3.85
529
994
2.157738
GTTTCTGCTGGTCTCATGCTT
58.842
47.619
0.00
0.00
0.00
3.91
545
1010
4.158394
TCATGCTTGAGTTCCATAAAAGCC
59.842
41.667
0.00
0.00
41.99
4.35
603
1094
3.881688
CTGCAAGGATTAATGACTCAGGG
59.118
47.826
0.00
0.00
0.00
4.45
698
2514
9.698309
ATAATTCAGAACGTGATATTGGTAGAG
57.302
33.333
0.00
0.00
34.17
2.43
755
2571
6.115446
TCATCAGCTGGAGTTACCTTATTTG
58.885
40.000
15.13
0.00
39.86
2.32
854
3864
1.470890
ACCGGACATGCAAATTAACGG
59.529
47.619
9.46
13.81
45.06
4.44
856
3866
2.477189
CCGGACATGCAAATTAACGGAC
60.477
50.000
0.00
0.00
42.42
4.79
857
3867
2.477189
CGGACATGCAAATTAACGGACC
60.477
50.000
0.00
0.00
0.00
4.46
907
3921
1.688735
TGCATCATTACTCTCCCTCCG
59.311
52.381
0.00
0.00
0.00
4.63
922
3936
1.800586
CCTCCGCACATACATGCATAC
59.199
52.381
0.00
0.00
46.47
2.39
962
3977
1.598130
AAAGTGGCACCTGCTCGAC
60.598
57.895
15.27
0.00
41.70
4.20
971
3986
0.328592
ACCTGCTCGACCACTCTAGA
59.671
55.000
0.00
0.00
0.00
2.43
985
4000
1.005630
CTAGATAGCTGCGTGCCCC
60.006
63.158
0.00
0.00
44.23
5.80
986
4001
1.748329
CTAGATAGCTGCGTGCCCCA
61.748
60.000
0.00
0.00
44.23
4.96
987
4002
1.121407
TAGATAGCTGCGTGCCCCAT
61.121
55.000
0.00
0.00
44.23
4.00
988
4003
1.963338
GATAGCTGCGTGCCCCATC
60.963
63.158
0.00
0.00
44.23
3.51
989
4004
3.482232
ATAGCTGCGTGCCCCATCC
62.482
63.158
0.00
0.00
44.23
3.51
1015
4030
1.451927
GCCATGGCCGAGATCAACA
60.452
57.895
27.24
0.00
34.56
3.33
1505
4532
1.736126
CAGCTGGCACTACATGAACAG
59.264
52.381
5.57
0.00
37.69
3.16
1526
4568
4.516195
GAGCGCCGACTTCTCCCC
62.516
72.222
2.29
0.00
0.00
4.81
1677
4719
3.785859
ATGATGGCCGACGCAGGT
61.786
61.111
0.00
0.00
36.38
4.00
1684
4726
2.813908
CCGACGCAGGTAAGCACC
60.814
66.667
0.00
0.00
46.19
5.01
1914
6303
3.181440
ACTTGACTGAGGAGATGGCAAAA
60.181
43.478
0.00
0.00
0.00
2.44
1980
6369
0.439985
CCTTCTGACGTGTGATTGCG
59.560
55.000
0.00
0.00
0.00
4.85
1999
6390
3.128589
TGCGTCTCTTTAATTTGATGGCC
59.871
43.478
0.00
0.00
0.00
5.36
2017
6408
1.404851
GCCACAGAGGTCTTCTACTGC
60.405
57.143
0.00
0.00
40.61
4.40
2111
6502
6.735678
TGTTAATGAATGATACGCACACTT
57.264
33.333
0.00
0.00
0.00
3.16
2113
6504
3.680642
ATGAATGATACGCACACTTGC
57.319
42.857
0.00
0.00
46.21
4.01
2158
6549
3.611530
GCATAAATCAGTTGTTGCCGTGT
60.612
43.478
0.00
0.00
0.00
4.49
2159
6550
2.490328
AAATCAGTTGTTGCCGTGTG
57.510
45.000
0.00
0.00
0.00
3.82
2211
6602
5.830912
TGGAAGTGAAAAATGTCATGTGTC
58.169
37.500
0.00
0.00
0.00
3.67
2229
6620
4.935205
TGTGTCTTCCTTATGAAATGGACG
59.065
41.667
0.00
0.00
31.58
4.79
2288
6679
3.945981
TTACCACGTCAAGAGCACATA
57.054
42.857
0.00
0.00
0.00
2.29
2289
6680
2.831685
ACCACGTCAAGAGCACATAA
57.168
45.000
0.00
0.00
0.00
1.90
2290
6681
2.688507
ACCACGTCAAGAGCACATAAG
58.311
47.619
0.00
0.00
0.00
1.73
2291
6682
2.002586
CCACGTCAAGAGCACATAAGG
58.997
52.381
0.00
0.00
0.00
2.69
2292
6683
1.394917
CACGTCAAGAGCACATAAGGC
59.605
52.381
0.00
0.00
0.00
4.35
2293
6684
1.009829
CGTCAAGAGCACATAAGGCC
58.990
55.000
0.00
0.00
0.00
5.19
2294
6685
1.406069
CGTCAAGAGCACATAAGGCCT
60.406
52.381
0.00
0.00
0.00
5.19
2295
6686
2.716217
GTCAAGAGCACATAAGGCCTT
58.284
47.619
24.18
24.18
0.00
4.35
2296
6687
2.680339
GTCAAGAGCACATAAGGCCTTC
59.320
50.000
24.49
7.21
0.00
3.46
2297
6688
2.573462
TCAAGAGCACATAAGGCCTTCT
59.427
45.455
24.49
12.84
0.00
2.85
2298
6689
3.009473
TCAAGAGCACATAAGGCCTTCTT
59.991
43.478
24.49
14.67
39.40
2.52
2299
6690
3.728385
AGAGCACATAAGGCCTTCTTT
57.272
42.857
24.49
1.61
36.93
2.52
2300
6691
3.350833
AGAGCACATAAGGCCTTCTTTG
58.649
45.455
24.49
19.86
36.93
2.77
2301
6692
3.009473
AGAGCACATAAGGCCTTCTTTGA
59.991
43.478
24.49
3.81
36.93
2.69
2302
6693
3.950395
GAGCACATAAGGCCTTCTTTGAT
59.050
43.478
24.49
14.82
36.93
2.57
2303
6694
4.347607
AGCACATAAGGCCTTCTTTGATT
58.652
39.130
24.49
5.05
36.93
2.57
2304
6695
4.400567
AGCACATAAGGCCTTCTTTGATTC
59.599
41.667
24.49
11.95
36.93
2.52
2305
6696
4.158394
GCACATAAGGCCTTCTTTGATTCA
59.842
41.667
24.49
0.18
36.93
2.57
2306
6697
5.163478
GCACATAAGGCCTTCTTTGATTCAT
60.163
40.000
24.49
3.14
36.93
2.57
2307
6698
6.039717
GCACATAAGGCCTTCTTTGATTCATA
59.960
38.462
24.49
0.00
36.93
2.15
2308
6699
7.416664
GCACATAAGGCCTTCTTTGATTCATAA
60.417
37.037
24.49
0.00
36.93
1.90
2309
6700
8.133627
CACATAAGGCCTTCTTTGATTCATAAG
58.866
37.037
24.49
0.00
36.93
1.73
2310
6701
8.055181
ACATAAGGCCTTCTTTGATTCATAAGA
58.945
33.333
24.49
0.00
36.93
2.10
2311
6702
9.075678
CATAAGGCCTTCTTTGATTCATAAGAT
57.924
33.333
24.49
0.19
36.93
2.40
2313
6704
8.688747
AAGGCCTTCTTTGATTCATAAGATAG
57.311
34.615
13.78
10.08
31.00
2.08
2314
6705
7.230027
AGGCCTTCTTTGATTCATAAGATAGG
58.770
38.462
0.00
19.06
34.88
2.57
2315
6706
7.072961
AGGCCTTCTTTGATTCATAAGATAGGA
59.927
37.037
22.52
9.50
34.33
2.94
2316
6707
7.721399
GGCCTTCTTTGATTCATAAGATAGGAA
59.279
37.037
22.52
9.16
34.33
3.36
2317
6708
9.125026
GCCTTCTTTGATTCATAAGATAGGAAA
57.875
33.333
22.52
8.91
34.33
3.13
2349
6740
1.034356
AAAAAGGGGAACGTTTCGGG
58.966
50.000
0.46
0.00
46.89
5.14
2350
6741
0.824595
AAAAGGGGAACGTTTCGGGG
60.825
55.000
0.46
0.00
46.89
5.73
2351
6742
3.855503
AAGGGGAACGTTTCGGGGC
62.856
63.158
0.46
0.00
34.05
5.80
2354
6745
4.994471
GGAACGTTTCGGGGCGGT
62.994
66.667
0.46
0.00
0.00
5.68
2375
6766
4.744316
GAACGATTCGGCCGGTAT
57.256
55.556
27.83
19.22
0.00
2.73
2464
6855
1.705186
CCCACTTTCTTCTTCCTCCCA
59.295
52.381
0.00
0.00
0.00
4.37
2467
6858
4.411013
CCACTTTCTTCTTCCTCCCAATT
58.589
43.478
0.00
0.00
0.00
2.32
2488
6879
0.263172
CCTCCTTCCCTCTCAGCCTA
59.737
60.000
0.00
0.00
0.00
3.93
2515
6906
1.144936
CTGGCCCTCGTCTTCATCC
59.855
63.158
0.00
0.00
0.00
3.51
2617
7008
3.227276
CCCACCCTCCCTCGATCG
61.227
72.222
9.36
9.36
0.00
3.69
2626
7017
2.813474
CCTCGATCGCGGCAACAA
60.813
61.111
11.81
0.00
38.28
2.83
2629
7020
1.695893
CTCGATCGCGGCAACAACAT
61.696
55.000
11.09
0.00
38.28
2.71
2630
7021
1.296867
CGATCGCGGCAACAACATC
60.297
57.895
6.13
0.00
0.00
3.06
2655
7046
3.449918
CCTTCTTCCTTCTCCCTCTCTT
58.550
50.000
0.00
0.00
0.00
2.85
2694
7085
0.753479
TCCCTTTTTGCTGCAACCGA
60.753
50.000
15.72
0.00
0.00
4.69
2700
7091
1.369839
TTTGCTGCAACCGACGACAA
61.370
50.000
15.72
0.00
0.00
3.18
2742
7133
1.153529
CGCCCGTGCTACAACCATA
60.154
57.895
0.00
0.00
34.43
2.74
2758
7149
1.053264
CATAGCCACAGGGAGGAGCT
61.053
60.000
0.00
0.00
35.59
4.09
2765
7156
1.073722
CAGGGAGGAGCTGCAACAA
59.926
57.895
8.35
0.00
0.00
2.83
2773
7164
1.226746
GAGCTGCAACAACGGTACTT
58.773
50.000
1.02
0.00
0.00
2.24
2917
7308
2.288152
GCTTCAACCCGCAGATGAAAAA
60.288
45.455
0.00
0.00
33.08
1.94
2928
7319
4.147653
CGCAGATGAAAAAGCTTCAAACAG
59.852
41.667
0.00
0.00
31.55
3.16
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
0
1
3.378427
ACAAAGAACAGAGGAAGCAACAC
59.622
43.478
0.00
0.00
0.00
3.32
1
2
3.378112
CACAAAGAACAGAGGAAGCAACA
59.622
43.478
0.00
0.00
0.00
3.33
2
3
3.627577
TCACAAAGAACAGAGGAAGCAAC
59.372
43.478
0.00
0.00
0.00
4.17
3
4
3.884895
TCACAAAGAACAGAGGAAGCAA
58.115
40.909
0.00
0.00
0.00
3.91
4
5
3.558931
TCACAAAGAACAGAGGAAGCA
57.441
42.857
0.00
0.00
0.00
3.91
5
6
4.393371
GGTATCACAAAGAACAGAGGAAGC
59.607
45.833
0.00
0.00
0.00
3.86
6
7
5.799213
AGGTATCACAAAGAACAGAGGAAG
58.201
41.667
0.00
0.00
0.00
3.46
7
8
5.825593
AGGTATCACAAAGAACAGAGGAA
57.174
39.130
0.00
0.00
0.00
3.36
8
9
5.825593
AAGGTATCACAAAGAACAGAGGA
57.174
39.130
0.00
0.00
0.00
3.71
9
10
6.884280
AAAAGGTATCACAAAGAACAGAGG
57.116
37.500
0.00
0.00
0.00
3.69
32
33
9.515226
AGAAAGCATCACAAGGTTAGTATAAAA
57.485
29.630
0.00
0.00
0.00
1.52
34
35
9.817809
CTAGAAAGCATCACAAGGTTAGTATAA
57.182
33.333
0.00
0.00
0.00
0.98
35
36
8.978472
ACTAGAAAGCATCACAAGGTTAGTATA
58.022
33.333
0.00
0.00
0.00
1.47
36
37
7.852263
ACTAGAAAGCATCACAAGGTTAGTAT
58.148
34.615
0.00
0.00
0.00
2.12
37
38
7.241042
ACTAGAAAGCATCACAAGGTTAGTA
57.759
36.000
0.00
0.00
0.00
1.82
38
39
6.115448
ACTAGAAAGCATCACAAGGTTAGT
57.885
37.500
0.00
0.00
0.00
2.24
39
40
7.064728
GGTTACTAGAAAGCATCACAAGGTTAG
59.935
40.741
0.00
0.00
0.00
2.34
40
41
6.877322
GGTTACTAGAAAGCATCACAAGGTTA
59.123
38.462
0.00
0.00
0.00
2.85
41
42
5.705905
GGTTACTAGAAAGCATCACAAGGTT
59.294
40.000
0.00
0.00
0.00
3.50
42
43
5.013183
AGGTTACTAGAAAGCATCACAAGGT
59.987
40.000
0.00
0.00
0.00
3.50
43
44
5.491982
AGGTTACTAGAAAGCATCACAAGG
58.508
41.667
0.00
0.00
0.00
3.61
44
45
8.723942
ATAAGGTTACTAGAAAGCATCACAAG
57.276
34.615
0.00
0.00
0.00
3.16
45
46
9.515226
AAATAAGGTTACTAGAAAGCATCACAA
57.485
29.630
0.00
0.00
0.00
3.33
46
47
9.162764
GAAATAAGGTTACTAGAAAGCATCACA
57.837
33.333
0.00
0.00
0.00
3.58
47
48
9.384764
AGAAATAAGGTTACTAGAAAGCATCAC
57.615
33.333
0.00
0.00
0.00
3.06
48
49
9.959721
AAGAAATAAGGTTACTAGAAAGCATCA
57.040
29.630
0.00
0.00
0.00
3.07
50
51
9.178758
CCAAGAAATAAGGTTACTAGAAAGCAT
57.821
33.333
0.00
0.00
0.00
3.79
51
52
7.120726
GCCAAGAAATAAGGTTACTAGAAAGCA
59.879
37.037
0.00
0.00
0.00
3.91
52
53
7.415318
GGCCAAGAAATAAGGTTACTAGAAAGC
60.415
40.741
0.00
0.00
0.00
3.51
53
54
7.610305
TGGCCAAGAAATAAGGTTACTAGAAAG
59.390
37.037
0.61
0.00
0.00
2.62
54
55
7.463431
TGGCCAAGAAATAAGGTTACTAGAAA
58.537
34.615
0.61
0.00
0.00
2.52
55
56
7.023171
TGGCCAAGAAATAAGGTTACTAGAA
57.977
36.000
0.61
0.00
0.00
2.10
56
57
6.630203
TGGCCAAGAAATAAGGTTACTAGA
57.370
37.500
0.61
0.00
0.00
2.43
57
58
7.881775
AATGGCCAAGAAATAAGGTTACTAG
57.118
36.000
10.96
0.00
0.00
2.57
71
72
7.986320
CCAAACAATATTGATTAATGGCCAAGA
59.014
33.333
22.16
0.00
31.84
3.02
89
90
3.233507
ACATCAAGTCAGGCCAAACAAT
58.766
40.909
5.01
0.00
0.00
2.71
95
96
2.439409
CATCAACATCAAGTCAGGCCA
58.561
47.619
5.01
0.00
0.00
5.36
116
117
5.561725
GCACAGATTTCTTCACCTTCTTCAC
60.562
44.000
0.00
0.00
0.00
3.18
120
121
4.070716
CAGCACAGATTTCTTCACCTTCT
58.929
43.478
0.00
0.00
0.00
2.85
126
127
2.290514
CCCTCCAGCACAGATTTCTTCA
60.291
50.000
0.00
0.00
0.00
3.02
134
135
1.997311
CCATCCCCTCCAGCACAGA
60.997
63.158
0.00
0.00
0.00
3.41
137
138
2.273449
CACCATCCCCTCCAGCAC
59.727
66.667
0.00
0.00
0.00
4.40
159
160
2.742372
CCTTCCTCGGTGGTTGCG
60.742
66.667
0.00
0.00
37.07
4.85
161
162
1.374252
CGACCTTCCTCGGTGGTTG
60.374
63.158
0.00
4.92
37.42
3.77
169
170
2.737252
CTGCAGTTAAACGACCTTCCTC
59.263
50.000
5.25
0.00
0.00
3.71
170
171
2.367567
TCTGCAGTTAAACGACCTTCCT
59.632
45.455
14.67
0.00
0.00
3.36
186
193
2.562738
TCTGGAAGATCGAACTTCTGCA
59.437
45.455
27.87
19.50
43.76
4.41
250
258
2.420642
CATAGGTCAATCATCTGCCGG
58.579
52.381
0.00
0.00
0.00
6.13
258
266
6.519043
GCACTATAAGCTCCATAGGTCAATCA
60.519
42.308
15.92
0.00
31.44
2.57
265
273
2.563179
ACGGCACTATAAGCTCCATAGG
59.437
50.000
15.92
8.69
31.44
2.57
281
289
2.224670
ACTTCCAATAGACCAAACGGCA
60.225
45.455
0.00
0.00
0.00
5.69
286
294
2.640826
ACCGGACTTCCAATAGACCAAA
59.359
45.455
9.46
0.00
35.14
3.28
287
295
2.027561
CACCGGACTTCCAATAGACCAA
60.028
50.000
9.46
0.00
35.14
3.67
289
297
1.134491
CCACCGGACTTCCAATAGACC
60.134
57.143
9.46
0.00
35.14
3.85
290
298
1.553704
ACCACCGGACTTCCAATAGAC
59.446
52.381
9.46
0.00
35.14
2.59
291
299
1.946984
ACCACCGGACTTCCAATAGA
58.053
50.000
9.46
0.00
35.14
1.98
292
300
2.764572
AGTACCACCGGACTTCCAATAG
59.235
50.000
9.46
0.00
35.14
1.73
293
301
2.498481
CAGTACCACCGGACTTCCAATA
59.502
50.000
9.46
0.00
35.14
1.90
307
315
7.120716
GGGAAATATAAAGGAAACCAGTACCA
58.879
38.462
0.00
0.00
0.00
3.25
343
351
1.610038
CACACAATGGCAAGCTCAGAA
59.390
47.619
0.00
0.00
0.00
3.02
356
364
4.338964
TCACATTCAGCAGAAACACACAAT
59.661
37.500
0.00
0.00
37.29
2.71
367
375
1.888215
ACACCACTCACATTCAGCAG
58.112
50.000
0.00
0.00
0.00
4.24
422
430
1.133199
ACCCAGCAAAAGAACCCATCA
60.133
47.619
0.00
0.00
0.00
3.07
522
987
4.158394
GGCTTTTATGGAACTCAAGCATGA
59.842
41.667
0.00
0.00
41.42
3.07
529
994
3.846588
AGGAGAGGCTTTTATGGAACTCA
59.153
43.478
0.00
0.00
0.00
3.41
585
1076
3.525199
ACAGCCCTGAGTCATTAATCCTT
59.475
43.478
1.69
0.00
0.00
3.36
586
1077
3.118531
ACAGCCCTGAGTCATTAATCCT
58.881
45.455
1.69
0.00
0.00
3.24
755
2571
0.529378
TAGCCGAAGTCGAAGGGAAC
59.471
55.000
1.43
0.00
43.02
3.62
884
3896
3.006752
GGAGGGAGAGTAATGATGCAGAG
59.993
52.174
0.00
0.00
0.00
3.35
922
3936
3.005554
GCTGGTATATATGGCACTGCAG
58.994
50.000
13.48
13.48
0.00
4.41
927
3941
4.216257
CCACTTTGCTGGTATATATGGCAC
59.784
45.833
0.00
0.00
32.47
5.01
962
3977
1.601663
GCACGCAGCTATCTAGAGTGG
60.602
57.143
0.00
0.00
41.15
4.00
985
4000
3.359523
CATGGCGGATGGCGGATG
61.360
66.667
0.00
0.00
44.92
3.51
986
4001
4.648626
CCATGGCGGATGGCGGAT
62.649
66.667
0.00
0.00
45.58
4.18
1015
4030
1.448540
CTTCCTCTGCGGCGTCATT
60.449
57.895
9.37
0.00
0.00
2.57
1505
4532
3.991536
GAGAAGTCGGCGCTCACCC
62.992
68.421
7.64
0.00
0.00
4.61
1526
4568
3.605749
AAGGTGGCGTCCATGTCGG
62.606
63.158
9.04
0.00
35.28
4.79
1590
4632
3.740397
CAGTACCCGCGGACGTGA
61.740
66.667
30.73
3.14
37.70
4.35
1684
4726
0.459237
AACTCGGCGAGCATCTTGAG
60.459
55.000
34.76
11.09
32.04
3.02
1755
4797
2.126071
CTACACAGGGCCACGACG
60.126
66.667
6.18
0.00
0.00
5.12
1827
4869
4.738998
TCCATGGGCAAGCCACCG
62.739
66.667
13.02
0.00
37.98
4.94
1833
4875
1.672881
GACGAATTCTCCATGGGCAAG
59.327
52.381
13.02
1.69
0.00
4.01
1878
4920
3.034635
AGTCAAGTGTGTCTTCCAGTCT
58.965
45.455
0.00
0.00
33.63
3.24
1914
6303
0.877071
CAACGATGCAGTCCAGCTTT
59.123
50.000
0.00
0.00
34.99
3.51
1980
6369
5.415701
TCTGTGGCCATCAAATTAAAGAGAC
59.584
40.000
9.72
0.00
0.00
3.36
1999
6390
2.822561
TCTGCAGTAGAAGACCTCTGTG
59.177
50.000
14.67
0.00
35.41
3.66
2017
6408
4.363138
TGCGAGTATGTAATTCAGCTCTG
58.637
43.478
0.00
0.00
33.20
3.35
2131
6522
5.804473
CGGCAACAACTGATTTATGCATTTA
59.196
36.000
3.54
0.00
33.04
1.40
2134
6525
3.193267
ACGGCAACAACTGATTTATGCAT
59.807
39.130
3.79
3.79
33.04
3.96
2135
6526
2.556189
ACGGCAACAACTGATTTATGCA
59.444
40.909
0.00
0.00
33.04
3.96
2158
6549
7.715249
ACTCTTCTCAAGTAGCATAAACAAACA
59.285
33.333
0.00
0.00
0.00
2.83
2159
6550
8.089115
ACTCTTCTCAAGTAGCATAAACAAAC
57.911
34.615
0.00
0.00
0.00
2.93
2211
6602
6.867662
AATAGCGTCCATTTCATAAGGAAG
57.132
37.500
0.00
0.00
36.72
3.46
2229
6620
7.482654
TGCATTATCTTCACACAGTAATAGC
57.517
36.000
0.00
0.00
0.00
2.97
2288
6679
7.723172
CCTATCTTATGAATCAAAGAAGGCCTT
59.277
37.037
20.65
20.65
35.47
4.35
2289
6680
7.072961
TCCTATCTTATGAATCAAAGAAGGCCT
59.927
37.037
0.00
0.00
35.47
5.19
2290
6681
7.227156
TCCTATCTTATGAATCAAAGAAGGCC
58.773
38.462
17.90
0.00
35.47
5.19
2291
6682
8.682936
TTCCTATCTTATGAATCAAAGAAGGC
57.317
34.615
17.90
0.00
35.47
4.35
2330
6721
1.034356
CCCGAAACGTTCCCCTTTTT
58.966
50.000
0.00
0.00
0.00
1.94
2331
6722
0.824595
CCCCGAAACGTTCCCCTTTT
60.825
55.000
0.00
0.00
0.00
2.27
2332
6723
1.228337
CCCCGAAACGTTCCCCTTT
60.228
57.895
0.00
0.00
0.00
3.11
2333
6724
2.433004
CCCCGAAACGTTCCCCTT
59.567
61.111
0.00
0.00
0.00
3.95
2334
6725
4.340246
GCCCCGAAACGTTCCCCT
62.340
66.667
0.00
0.00
0.00
4.79
2337
6728
4.994471
ACCGCCCCGAAACGTTCC
62.994
66.667
0.00
0.00
0.00
3.62
2338
6729
3.719144
CACCGCCCCGAAACGTTC
61.719
66.667
0.00
0.00
0.00
3.95
2349
6740
3.861263
GAATCGTTCGGCACCGCC
61.861
66.667
3.66
0.00
46.75
6.13
2428
6819
2.197465
GTGGGAGAAGATAAGGTGGGT
58.803
52.381
0.00
0.00
0.00
4.51
2464
6855
2.486716
CTGAGAGGGAAGGAGGGAATT
58.513
52.381
0.00
0.00
0.00
2.17
2467
6858
1.002274
GCTGAGAGGGAAGGAGGGA
59.998
63.158
0.00
0.00
0.00
4.20
2563
6954
1.151450
CAAGGGCACTGAGGTTGGT
59.849
57.895
0.00
0.00
0.00
3.67
2568
6959
3.970410
TGGGCAAGGGCACTGAGG
61.970
66.667
0.00
0.00
46.28
3.86
2617
7008
0.676782
AGGGTAGATGTTGTTGCCGC
60.677
55.000
0.00
0.00
0.00
6.53
2626
7017
4.034410
GGAGAAGGAAGAAGGGTAGATGT
58.966
47.826
0.00
0.00
0.00
3.06
2629
7020
2.660556
AGGGAGAAGGAAGAAGGGTAGA
59.339
50.000
0.00
0.00
0.00
2.59
2630
7021
3.035363
GAGGGAGAAGGAAGAAGGGTAG
58.965
54.545
0.00
0.00
0.00
3.18
2655
7046
1.398799
AGAGAGGAGGAGGAAAGGGA
58.601
55.000
0.00
0.00
0.00
4.20
2694
7085
3.645975
CCGCGTTTGGCTTGTCGT
61.646
61.111
4.92
0.00
40.44
4.34
2742
7133
3.007920
CAGCTCCTCCCTGTGGCT
61.008
66.667
0.00
0.00
0.00
4.75
2758
7149
1.139256
TCTCCAAGTACCGTTGTTGCA
59.861
47.619
0.00
0.00
0.00
4.08
2765
7156
1.045407
TGCAACTCTCCAAGTACCGT
58.955
50.000
0.00
0.00
37.17
4.83
2773
7164
2.250939
CGCCGTTTGCAACTCTCCA
61.251
57.895
0.00
0.00
41.33
3.86
2797
7188
1.806542
GTGTCCATGGTTGTAGCACAG
59.193
52.381
12.58
0.00
0.00
3.66
2798
7189
1.141858
TGTGTCCATGGTTGTAGCACA
59.858
47.619
12.58
14.34
33.71
4.57
2842
7233
2.639065
TCGTTGTCTGGTTGAAGCTTT
58.361
42.857
0.00
0.00
0.00
3.51
2860
7251
6.075280
CGGTTGTAACTTTTCCTGTATTTCG
58.925
40.000
0.00
0.00
0.00
3.46
2917
7308
6.150809
GGATTTCTCAATCTCTGTTTGAAGCT
59.849
38.462
0.00
0.00
39.17
3.74
2928
7319
4.616953
GTCGAGGAGGATTTCTCAATCTC
58.383
47.826
0.00
0.00
44.19
2.75
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.