Multiple sequence alignment - TraesCS6D01G178600
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
TraesCS6D01G178600
chr6D
100.000
2983
0
0
1
2983
187206604
187203622
0.000000e+00
5509.0
1
TraesCS6D01G178600
chr6B
91.121
1802
80
31
367
2138
298488573
298486822
0.000000e+00
2368.0
2
TraesCS6D01G178600
chr6B
95.089
448
22
0
2536
2983
298486373
298485926
0.000000e+00
706.0
3
TraesCS6D01G178600
chr6B
91.639
299
19
3
11
303
298489411
298489113
2.770000e-110
409.0
4
TraesCS6D01G178600
chr6B
89.668
271
15
5
2127
2384
298486734
298486464
1.710000e-87
333.0
5
TraesCS6D01G178600
chr6A
93.276
1636
47
20
530
2138
223978840
223980439
0.000000e+00
2353.0
6
TraesCS6D01G178600
chr6A
89.013
892
53
11
2127
2980
223980553
223981437
0.000000e+00
1062.0
7
TraesCS6D01G178600
chr6A
91.573
178
11
3
359
535
223973715
223973889
2.970000e-60
243.0
8
TraesCS6D01G178600
chr6A
92.982
57
2
2
307
361
426605971
426605915
6.850000e-12
82.4
9
TraesCS6D01G178600
chr7A
94.737
57
2
1
304
359
339540513
339540457
1.470000e-13
87.9
10
TraesCS6D01G178600
chr3D
93.220
59
3
1
304
361
42250389
42250331
5.300000e-13
86.1
11
TraesCS6D01G178600
chr5B
94.340
53
1
1
306
358
277248010
277248060
2.460000e-11
80.5
12
TraesCS6D01G178600
chr5B
80.000
105
12
3
2443
2538
57130064
57129960
5.340000e-08
69.4
13
TraesCS6D01G178600
chr3B
92.857
56
3
1
304
358
338780058
338780003
2.460000e-11
80.5
14
TraesCS6D01G178600
chr5D
91.228
57
4
1
304
359
453824680
453824736
3.190000e-10
76.8
15
TraesCS6D01G178600
chr7B
90.000
50
4
1
2442
2490
723962114
723962163
2.480000e-06
63.9
16
TraesCS6D01G178600
chr4B
100.000
29
0
0
2458
2486
449811452
449811424
1.000000e-03
54.7
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
TraesCS6D01G178600
chr6D
187203622
187206604
2982
True
5509.0
5509
100.00000
1
2983
1
chr6D.!!$R1
2982
1
TraesCS6D01G178600
chr6B
298485926
298489411
3485
True
954.0
2368
91.87925
11
2983
4
chr6B.!!$R1
2972
2
TraesCS6D01G178600
chr6A
223978840
223981437
2597
False
1707.5
2353
91.14450
530
2980
2
chr6A.!!$F2
2450
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
426
910
0.173481
TCAGATTTCGAGCCCTCACG
59.827
55.0
0.00
0.00
0.00
4.35
F
428
912
0.173708
AGATTTCGAGCCCTCACGAC
59.826
55.0
0.00
0.00
38.24
4.34
F
863
1359
0.381089
CTAGGAACCGGTCTGCTACG
59.619
60.0
8.04
4.41
0.00
3.51
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
1884
2398
0.467290
TGGCCAACAAGAAGGACACC
60.467
55.0
0.61
0.00
38.22
4.16
R
1892
2409
1.118965
TCTCTCGGTGGCCAACAAGA
61.119
55.0
23.36
17.64
0.00
3.02
R
2627
3324
0.392706
TCACACCTGTACTGCAGTGG
59.607
55.0
29.57
23.13
43.55
4.00
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
63
64
2.202756
GTAAGCGAGCTCCACGGG
60.203
66.667
8.47
0.00
0.00
5.28
84
85
0.877649
GCTCATCGATGTCGCCACAT
60.878
55.000
24.09
0.00
46.64
3.21
119
120
4.131088
GTCGGGCGAGGAGGTGTC
62.131
72.222
0.00
0.00
0.00
3.67
194
195
0.475044
GTGACCCCAACCACTGGTTA
59.525
55.000
13.33
0.00
45.01
2.85
247
249
3.041946
GGCTGAGAGGAAGAAGGGATAA
58.958
50.000
0.00
0.00
0.00
1.75
251
253
5.588246
GCTGAGAGGAAGAAGGGATAAAAAG
59.412
44.000
0.00
0.00
0.00
2.27
264
271
7.929941
AGGGATAAAAAGAAATCAGAGTGAC
57.070
36.000
0.00
0.00
0.00
3.67
280
287
0.614979
TGACTAGCACTCCCACTCCC
60.615
60.000
0.00
0.00
0.00
4.30
303
310
2.634600
CCCGGGATCAACATCGTTTAA
58.365
47.619
18.48
0.00
0.00
1.52
304
311
2.353579
CCCGGGATCAACATCGTTTAAC
59.646
50.000
18.48
0.00
0.00
2.01
305
312
3.267483
CCGGGATCAACATCGTTTAACT
58.733
45.455
0.00
0.00
0.00
2.24
309
316
5.106869
CGGGATCAACATCGTTTAACTTTGA
60.107
40.000
0.00
0.00
0.00
2.69
310
317
6.314784
GGGATCAACATCGTTTAACTTTGAG
58.685
40.000
0.00
0.00
0.00
3.02
312
319
7.118680
GGGATCAACATCGTTTAACTTTGAGTA
59.881
37.037
0.00
0.00
0.00
2.59
313
320
8.500773
GGATCAACATCGTTTAACTTTGAGTAA
58.499
33.333
0.00
0.00
0.00
2.24
331
652
9.455144
TTTGAGTAATATATTTAGGTGGAGGGA
57.545
33.333
2.68
0.00
0.00
4.20
332
653
8.431910
TGAGTAATATATTTAGGTGGAGGGAC
57.568
38.462
2.68
0.00
0.00
4.46
346
667
4.722389
GGACTCCTCCCCGGTAAT
57.278
61.111
0.00
0.00
0.00
1.89
347
668
2.926539
GGACTCCTCCCCGGTAATT
58.073
57.895
0.00
0.00
0.00
1.40
348
669
0.757512
GGACTCCTCCCCGGTAATTC
59.242
60.000
0.00
0.00
0.00
2.17
349
670
1.691801
GGACTCCTCCCCGGTAATTCT
60.692
57.143
0.00
0.00
0.00
2.40
351
672
3.303049
GACTCCTCCCCGGTAATTCTAA
58.697
50.000
0.00
0.00
0.00
2.10
352
673
3.708121
GACTCCTCCCCGGTAATTCTAAA
59.292
47.826
0.00
0.00
0.00
1.85
353
674
4.106324
ACTCCTCCCCGGTAATTCTAAAA
58.894
43.478
0.00
0.00
0.00
1.52
354
675
4.537288
ACTCCTCCCCGGTAATTCTAAAAA
59.463
41.667
0.00
0.00
0.00
1.94
381
864
2.027469
CAGCGTTTAGGGTTTAGGGACT
60.027
50.000
0.00
0.00
46.37
3.85
391
874
3.076621
GGTTTAGGGACTGTAAAACCCG
58.923
50.000
12.18
0.00
44.48
5.28
403
887
0.250338
AAAACCCGGAGTGTGAGAGC
60.250
55.000
0.73
0.00
0.00
4.09
404
888
1.407656
AAACCCGGAGTGTGAGAGCA
61.408
55.000
0.73
0.00
0.00
4.26
405
889
1.407656
AACCCGGAGTGTGAGAGCAA
61.408
55.000
0.73
0.00
0.00
3.91
415
899
4.314121
AGTGTGAGAGCAAGTCAGATTTC
58.686
43.478
0.00
0.00
0.00
2.17
416
900
3.122613
GTGTGAGAGCAAGTCAGATTTCG
59.877
47.826
0.00
0.00
0.00
3.46
420
904
1.663135
GAGCAAGTCAGATTTCGAGCC
59.337
52.381
0.00
0.00
0.00
4.70
426
910
0.173481
TCAGATTTCGAGCCCTCACG
59.827
55.000
0.00
0.00
0.00
4.35
428
912
0.173708
AGATTTCGAGCCCTCACGAC
59.826
55.000
0.00
0.00
38.24
4.34
440
924
3.627577
GCCCTCACGACATCATATTGTTT
59.372
43.478
0.00
0.00
0.00
2.83
479
963
5.987777
TTTTAGATGAAAACAACGTCCGA
57.012
34.783
0.00
0.00
31.90
4.55
488
972
1.578583
ACAACGTCCGAGAAACCTTG
58.421
50.000
0.00
0.00
0.00
3.61
498
982
2.224314
CGAGAAACCTTGTGCCTTTCTC
59.776
50.000
8.64
8.64
43.29
2.87
501
985
3.117888
AGAAACCTTGTGCCTTTCTCTGA
60.118
43.478
0.00
0.00
29.98
3.27
516
1000
7.470900
CCTTTCTCTGATATTGAAAGCAGAAC
58.529
38.462
10.14
0.00
42.89
3.01
517
1001
6.992063
TTCTCTGATATTGAAAGCAGAACC
57.008
37.500
0.00
0.00
36.99
3.62
559
1044
1.162800
GCCATCCTGCTGGTTCGATC
61.163
60.000
9.73
0.00
38.63
3.69
571
1065
2.948979
TGGTTCGATCAAAAAGCACTGT
59.051
40.909
0.00
0.00
0.00
3.55
739
1233
3.670627
GCGTTAGGCCAAAAGAACATCAG
60.671
47.826
5.01
0.00
34.80
2.90
740
1234
3.751175
CGTTAGGCCAAAAGAACATCAGA
59.249
43.478
5.01
0.00
0.00
3.27
743
1237
6.512297
GTTAGGCCAAAAGAACATCAGAAAA
58.488
36.000
5.01
0.00
0.00
2.29
744
1238
4.948847
AGGCCAAAAGAACATCAGAAAAC
58.051
39.130
5.01
0.00
0.00
2.43
745
1239
3.735746
GGCCAAAAGAACATCAGAAAACG
59.264
43.478
0.00
0.00
0.00
3.60
863
1359
0.381089
CTAGGAACCGGTCTGCTACG
59.619
60.000
8.04
4.41
0.00
3.51
879
1375
5.538813
TCTGCTACGATCCAAACCATATACT
59.461
40.000
0.00
0.00
0.00
2.12
880
1376
5.538118
TGCTACGATCCAAACCATATACTG
58.462
41.667
0.00
0.00
0.00
2.74
882
1378
6.265876
TGCTACGATCCAAACCATATACTGTA
59.734
38.462
0.00
0.00
0.00
2.74
883
1379
6.585322
GCTACGATCCAAACCATATACTGTAC
59.415
42.308
0.00
0.00
0.00
2.90
884
1380
6.726490
ACGATCCAAACCATATACTGTACT
57.274
37.500
0.00
0.00
0.00
2.73
885
1381
7.120923
ACGATCCAAACCATATACTGTACTT
57.879
36.000
0.00
0.00
0.00
2.24
886
1382
8.241497
ACGATCCAAACCATATACTGTACTTA
57.759
34.615
0.00
0.00
0.00
2.24
887
1383
8.139989
ACGATCCAAACCATATACTGTACTTAC
58.860
37.037
0.00
0.00
0.00
2.34
888
1384
8.358148
CGATCCAAACCATATACTGTACTTACT
58.642
37.037
0.00
0.00
0.00
2.24
954
1450
0.796312
CGATCAACACTTGGAACCCG
59.204
55.000
0.00
0.00
0.00
5.28
1427
1929
2.930019
CAGCCACCTGGTCCTCCA
60.930
66.667
0.00
0.00
42.05
3.86
1474
1976
1.677637
GCTACACCCCCTCCTTCTCG
61.678
65.000
0.00
0.00
0.00
4.04
1483
1985
0.745845
CCTCCTTCTCGGCATTGGTG
60.746
60.000
0.00
0.00
0.00
4.17
1782
2292
1.913685
CGCGCGTCTTGATCTTCTC
59.086
57.895
24.19
0.00
0.00
2.87
1839
2349
6.527423
TCTTGTAGTAGGATTTTTGACGGTT
58.473
36.000
0.00
0.00
0.00
4.44
1841
2351
6.548441
TGTAGTAGGATTTTTGACGGTTTG
57.452
37.500
0.00
0.00
0.00
2.93
1843
2353
6.543100
TGTAGTAGGATTTTTGACGGTTTGTT
59.457
34.615
0.00
0.00
0.00
2.83
1844
2354
6.459670
AGTAGGATTTTTGACGGTTTGTTT
57.540
33.333
0.00
0.00
0.00
2.83
1845
2355
6.270064
AGTAGGATTTTTGACGGTTTGTTTG
58.730
36.000
0.00
0.00
0.00
2.93
1855
2369
2.223618
ACGGTTTGTTTGTGTGGCATAC
60.224
45.455
7.51
7.51
0.00
2.39
1861
2375
2.803386
TGTTTGTGTGGCATACGTACAG
59.197
45.455
14.29
0.00
32.72
2.74
1881
2395
2.543687
TAGTGTGAGCGGCGCTTCTC
62.544
60.000
36.73
27.81
39.88
2.87
1884
2398
4.441695
TGAGCGGCGCTTCTCCTG
62.442
66.667
36.73
0.00
39.88
3.86
1892
2409
1.674057
CGCTTCTCCTGGTGTCCTT
59.326
57.895
0.00
0.00
0.00
3.36
1908
2425
1.237285
CCTTCTTGTTGGCCACCGAG
61.237
60.000
11.34
11.34
0.00
4.63
1916
2433
1.768684
TTGGCCACCGAGAGAAGCTT
61.769
55.000
3.88
0.00
0.00
3.74
1918
2435
2.394563
GCCACCGAGAGAAGCTTGC
61.395
63.158
2.10
0.00
0.00
4.01
1952
2469
5.396436
CCTTGTACATACGGATCCTTTCCTT
60.396
44.000
10.75
0.00
42.99
3.36
1961
2478
3.681874
CGGATCCTTTCCTTCCCTTGTAC
60.682
52.174
10.75
0.00
42.99
2.90
1966
2483
3.010138
CCTTTCCTTCCCTTGTACCATCA
59.990
47.826
0.00
0.00
0.00
3.07
1970
2487
3.455910
TCCTTCCCTTGTACCATCATCTG
59.544
47.826
0.00
0.00
0.00
2.90
1971
2488
3.209410
CTTCCCTTGTACCATCATCTGC
58.791
50.000
0.00
0.00
0.00
4.26
1972
2489
2.481441
TCCCTTGTACCATCATCTGCT
58.519
47.619
0.00
0.00
0.00
4.24
2041
2565
8.851960
AATGACATACACATACTGTTACTACG
57.148
34.615
0.00
0.00
33.91
3.51
2198
2847
3.572604
AGTTCGCTAGTACAGTTGGTC
57.427
47.619
0.00
0.00
0.00
4.02
2217
2866
3.868077
GGTCAGCTGAAATGCTAGTACAG
59.132
47.826
20.19
0.00
41.98
2.74
2222
2871
3.372206
GCTGAAATGCTAGTACAGGTGTG
59.628
47.826
0.00
0.00
0.00
3.82
2223
2872
3.334691
TGAAATGCTAGTACAGGTGTGC
58.665
45.455
0.00
0.00
0.00
4.57
2224
2873
2.010145
AATGCTAGTACAGGTGTGCG
57.990
50.000
0.00
0.00
35.74
5.34
2340
3005
4.572389
AGCACAATCATCATCTTCGGTTAC
59.428
41.667
0.00
0.00
0.00
2.50
2343
3008
6.622679
GCACAATCATCATCTTCGGTTACAAA
60.623
38.462
0.00
0.00
0.00
2.83
2358
3023
1.808411
ACAAACATTCGGCGTGATCT
58.192
45.000
6.85
0.00
0.00
2.75
2446
3134
7.517417
CGAATCATGCACTCTGTTCCTAAATAC
60.517
40.741
0.00
0.00
0.00
1.89
2450
3138
5.974108
TGCACTCTGTTCCTAAATACTACC
58.026
41.667
0.00
0.00
0.00
3.18
2454
3142
5.593502
ACTCTGTTCCTAAATACTACCTCCG
59.406
44.000
0.00
0.00
0.00
4.63
2457
3145
6.096001
TCTGTTCCTAAATACTACCTCCGTTC
59.904
42.308
0.00
0.00
0.00
3.95
2458
3146
5.954150
TGTTCCTAAATACTACCTCCGTTCT
59.046
40.000
0.00
0.00
0.00
3.01
2472
3160
9.379791
CTACCTCCGTTCTAAAATAAATGTCTT
57.620
33.333
0.00
0.00
0.00
3.01
2523
3211
6.329496
ACTTGAAACACATATTTTATGGCGG
58.671
36.000
0.10
0.00
0.00
6.13
2525
3213
6.130298
TGAAACACATATTTTATGGCGGAG
57.870
37.500
0.10
0.00
0.00
4.63
2526
3214
5.067153
TGAAACACATATTTTATGGCGGAGG
59.933
40.000
0.10
0.00
0.00
4.30
2527
3215
3.486383
ACACATATTTTATGGCGGAGGG
58.514
45.455
0.10
0.00
0.00
4.30
2528
3216
3.137544
ACACATATTTTATGGCGGAGGGA
59.862
43.478
0.10
0.00
0.00
4.20
2572
3263
6.879276
AGCAGTTCAAATCATCTGGATATG
57.121
37.500
0.00
0.00
34.28
1.78
2666
3363
1.048601
TTCTGCCCGTCACTTCTTCT
58.951
50.000
0.00
0.00
0.00
2.85
2703
3400
1.786441
TCATTCCCCAACTGTTCCCTT
59.214
47.619
0.00
0.00
0.00
3.95
2741
3438
1.408702
TCAAGCCCACACAGAAAAAGC
59.591
47.619
0.00
0.00
0.00
3.51
2751
3448
0.033920
CAGAAAAAGCAGGTTGGGCC
59.966
55.000
0.00
0.00
37.58
5.80
2830
3527
8.242729
ACTTGAATTCTCCATGACTTCTTTTT
57.757
30.769
7.05
0.00
35.95
1.94
2881
3578
4.342665
GGGTTTCTACTCCTAGTGAGATGG
59.657
50.000
13.28
5.11
44.42
3.51
2882
3579
4.202172
GGTTTCTACTCCTAGTGAGATGGC
60.202
50.000
13.28
0.00
44.42
4.40
2894
3591
1.953231
GAGATGGCCTGCCTTTTGCC
61.953
60.000
9.97
0.00
45.56
4.52
2980
3677
4.026558
CGACAATCATCTTCACGTATGTGG
60.027
45.833
15.02
0.25
46.42
4.17
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
1
2
8.455682
GCGCTATCTCTTCTGTAACTAGATAAT
58.544
37.037
0.00
0.00
30.84
1.28
2
3
7.444487
TGCGCTATCTCTTCTGTAACTAGATAA
59.556
37.037
9.73
0.00
30.84
1.75
3
4
6.935208
TGCGCTATCTCTTCTGTAACTAGATA
59.065
38.462
9.73
0.00
0.00
1.98
4
5
5.765677
TGCGCTATCTCTTCTGTAACTAGAT
59.234
40.000
9.73
0.00
0.00
1.98
5
6
5.123936
TGCGCTATCTCTTCTGTAACTAGA
58.876
41.667
9.73
0.00
0.00
2.43
6
7
5.425577
TGCGCTATCTCTTCTGTAACTAG
57.574
43.478
9.73
0.00
0.00
2.57
7
8
5.531287
TGATGCGCTATCTCTTCTGTAACTA
59.469
40.000
9.73
0.00
36.71
2.24
8
9
4.339530
TGATGCGCTATCTCTTCTGTAACT
59.660
41.667
9.73
0.00
36.71
2.24
9
10
4.611943
TGATGCGCTATCTCTTCTGTAAC
58.388
43.478
9.73
0.00
36.71
2.50
60
61
1.371022
CGACATCGATGAGCTCCCG
60.371
63.158
31.33
17.99
43.02
5.14
63
64
1.066422
TGGCGACATCGATGAGCTC
59.934
57.895
32.16
25.80
43.02
4.09
70
71
1.671901
TAGGCATGTGGCGACATCGA
61.672
55.000
11.83
0.00
46.14
3.59
71
72
0.809636
TTAGGCATGTGGCGACATCG
60.810
55.000
11.83
8.82
46.14
3.84
84
85
2.434185
CGCTCGCAAGGTTAGGCA
60.434
61.111
0.00
0.00
38.47
4.75
136
137
1.384643
CCTCTAGGGGAAGGGGTGG
60.385
68.421
0.73
0.00
31.85
4.61
137
138
4.401657
CCTCTAGGGGAAGGGGTG
57.598
66.667
0.73
0.00
31.85
4.61
149
150
3.000819
CCACGGTGGTGCCCTCTA
61.001
66.667
19.15
0.00
43.00
2.43
161
162
1.577328
GGTCACTGTTCATGCCACGG
61.577
60.000
2.90
2.90
0.00
4.94
162
163
1.577328
GGGTCACTGTTCATGCCACG
61.577
60.000
0.00
0.00
0.00
4.94
194
195
3.241530
TGGCCGCTCTCACCTTGT
61.242
61.111
0.00
0.00
0.00
3.16
247
249
6.793492
GTGCTAGTCACTCTGATTTCTTTT
57.207
37.500
9.26
0.00
42.38
2.27
264
271
2.427245
CGGGGAGTGGGAGTGCTAG
61.427
68.421
0.00
0.00
0.00
3.42
280
287
2.591715
GATGTTGATCCCGGGCGG
60.592
66.667
18.49
0.00
0.00
6.13
304
311
9.726438
CCCTCCACCTAAATATATTACTCAAAG
57.274
37.037
0.00
0.00
0.00
2.77
305
312
9.455144
TCCCTCCACCTAAATATATTACTCAAA
57.545
33.333
0.00
0.00
0.00
2.69
309
316
8.667592
GAGTCCCTCCACCTAAATATATTACT
57.332
38.462
0.00
0.00
0.00
2.24
331
652
3.409804
TTAGAATTACCGGGGAGGAGT
57.590
47.619
6.32
0.00
45.00
3.85
332
653
4.765813
TTTTAGAATTACCGGGGAGGAG
57.234
45.455
6.32
0.00
45.00
3.69
355
676
4.038282
CCCTAAACCCTAAACGCTGTTTTT
59.962
41.667
10.96
3.69
33.36
1.94
356
677
3.570975
CCCTAAACCCTAAACGCTGTTTT
59.429
43.478
10.96
0.00
33.36
2.43
357
678
3.151554
CCCTAAACCCTAAACGCTGTTT
58.848
45.455
10.61
10.61
35.32
2.83
360
681
2.027469
AGTCCCTAAACCCTAAACGCTG
60.027
50.000
0.00
0.00
0.00
5.18
361
682
2.027469
CAGTCCCTAAACCCTAAACGCT
60.027
50.000
0.00
0.00
0.00
5.07
362
683
2.289882
ACAGTCCCTAAACCCTAAACGC
60.290
50.000
0.00
0.00
0.00
4.84
363
684
3.690475
ACAGTCCCTAAACCCTAAACG
57.310
47.619
0.00
0.00
0.00
3.60
364
685
6.207417
GGTTTTACAGTCCCTAAACCCTAAAC
59.793
42.308
0.00
0.00
42.22
2.01
365
686
6.306199
GGTTTTACAGTCCCTAAACCCTAAA
58.694
40.000
0.00
0.00
42.22
1.85
371
854
3.076621
CCGGGTTTTACAGTCCCTAAAC
58.923
50.000
0.00
0.00
39.10
2.01
381
864
2.036733
CTCTCACACTCCGGGTTTTACA
59.963
50.000
0.00
0.00
0.00
2.41
391
874
1.615883
TCTGACTTGCTCTCACACTCC
59.384
52.381
0.00
0.00
0.00
3.85
403
887
2.275318
GAGGGCTCGAAATCTGACTTG
58.725
52.381
0.00
0.00
0.00
3.16
404
888
1.902508
TGAGGGCTCGAAATCTGACTT
59.097
47.619
0.00
0.00
0.00
3.01
405
889
1.205893
GTGAGGGCTCGAAATCTGACT
59.794
52.381
0.00
0.00
0.00
3.41
415
899
0.668535
TATGATGTCGTGAGGGCTCG
59.331
55.000
0.00
0.00
0.00
5.03
416
900
3.062763
CAATATGATGTCGTGAGGGCTC
58.937
50.000
0.00
0.00
0.00
4.70
420
904
6.037062
TGCTTAAACAATATGATGTCGTGAGG
59.963
38.462
0.00
0.00
31.81
3.86
426
910
7.489113
CCAAACCTGCTTAAACAATATGATGTC
59.511
37.037
0.00
0.00
31.81
3.06
428
912
6.256321
GCCAAACCTGCTTAAACAATATGATG
59.744
38.462
0.00
0.00
0.00
3.07
440
924
7.559533
TCATCTAAAATATGCCAAACCTGCTTA
59.440
33.333
0.00
0.00
0.00
3.09
479
963
3.117888
TCAGAGAAAGGCACAAGGTTTCT
60.118
43.478
0.00
0.00
42.02
2.52
488
972
5.124457
TGCTTTCAATATCAGAGAAAGGCAC
59.876
40.000
13.88
1.46
45.09
5.01
498
982
4.096984
GGTGGGTTCTGCTTTCAATATCAG
59.903
45.833
0.00
0.00
0.00
2.90
501
985
3.016736
CGGTGGGTTCTGCTTTCAATAT
58.983
45.455
0.00
0.00
0.00
1.28
559
1044
3.636764
AGGGGTTTCTACAGTGCTTTTTG
59.363
43.478
0.00
0.00
0.00
2.44
571
1065
2.543635
GTGGGAGTGTAGGGGTTTCTA
58.456
52.381
0.00
0.00
0.00
2.10
739
1233
3.466836
CTCGGTTCATTCGTTCGTTTTC
58.533
45.455
0.00
0.00
0.00
2.29
740
1234
2.349155
GCTCGGTTCATTCGTTCGTTTT
60.349
45.455
0.00
0.00
0.00
2.43
743
1237
0.038526
AGCTCGGTTCATTCGTTCGT
60.039
50.000
0.00
0.00
0.00
3.85
744
1238
0.640768
GAGCTCGGTTCATTCGTTCG
59.359
55.000
0.00
0.00
0.00
3.95
745
1239
1.390463
GTGAGCTCGGTTCATTCGTTC
59.610
52.381
9.64
0.00
0.00
3.95
879
1375
5.819379
ACGCTGCTACAGTATAGTAAGTACA
59.181
40.000
0.00
0.00
33.43
2.90
880
1376
6.134730
CACGCTGCTACAGTATAGTAAGTAC
58.865
44.000
0.00
0.00
33.43
2.73
882
1378
4.497674
GCACGCTGCTACAGTATAGTAAGT
60.498
45.833
0.00
0.00
40.96
2.24
883
1379
3.975670
GCACGCTGCTACAGTATAGTAAG
59.024
47.826
0.00
0.00
40.96
2.34
884
1380
3.379057
TGCACGCTGCTACAGTATAGTAA
59.621
43.478
10.54
0.00
45.31
2.24
885
1381
2.946990
TGCACGCTGCTACAGTATAGTA
59.053
45.455
10.54
0.00
45.31
1.82
886
1382
1.749063
TGCACGCTGCTACAGTATAGT
59.251
47.619
10.54
0.00
45.31
2.12
887
1383
2.120232
GTGCACGCTGCTACAGTATAG
58.880
52.381
0.00
0.00
45.31
1.31
888
1384
1.202371
GGTGCACGCTGCTACAGTATA
60.202
52.381
11.45
0.00
45.31
1.47
954
1450
5.147330
AGCCTTTTTATAAAAGTGGGTGC
57.853
39.130
23.69
15.56
34.88
5.01
1004
1500
2.456119
GCGTGAGGAACTGATGGCG
61.456
63.158
0.00
0.00
41.55
5.69
1072
1568
0.392461
TTGGCATCTTGTACCGCTCC
60.392
55.000
0.00
0.00
0.00
4.70
1079
1575
2.846206
ACCTCTCCATTGGCATCTTGTA
59.154
45.455
0.00
0.00
0.00
2.41
1342
1844
0.621082
AGAAAGGCTTGTAGGAGGCC
59.379
55.000
0.00
0.00
45.57
5.19
1474
1976
1.586154
CCTCGTTGTCCACCAATGCC
61.586
60.000
0.00
0.00
39.49
4.40
1508
2016
4.796231
CTCGTCCGTCTTGGCCGG
62.796
72.222
0.00
0.00
46.83
6.13
1509
2017
4.796231
CCTCGTCCGTCTTGGCCG
62.796
72.222
0.00
0.00
37.80
6.13
1512
2020
4.796231
CCGCCTCGTCCGTCTTGG
62.796
72.222
0.00
0.00
40.09
3.61
1513
2021
3.685214
CTCCGCCTCGTCCGTCTTG
62.685
68.421
0.00
0.00
0.00
3.02
1678
2186
1.028868
GCAGAGCAACCTGGATGGAC
61.029
60.000
0.00
0.00
39.71
4.02
1719
2228
1.516161
TAGCTCAGCTGCACAACAAG
58.484
50.000
10.31
0.00
40.10
3.16
1720
2229
2.189594
ATAGCTCAGCTGCACAACAA
57.810
45.000
10.31
0.00
40.10
2.83
1721
2230
2.028203
TGTATAGCTCAGCTGCACAACA
60.028
45.455
10.31
3.38
40.10
3.33
1782
2292
1.077858
GGAGGAAGCAGAAGGGCAG
60.078
63.158
0.00
0.00
35.83
4.85
1839
2349
3.203716
TGTACGTATGCCACACAAACAA
58.796
40.909
0.00
0.00
0.00
2.83
1841
2351
2.803956
ACTGTACGTATGCCACACAAAC
59.196
45.455
0.00
0.00
0.00
2.93
1843
2353
2.823924
ACTGTACGTATGCCACACAA
57.176
45.000
0.00
0.00
0.00
3.33
1844
2354
2.821378
ACTACTGTACGTATGCCACACA
59.179
45.455
0.00
0.00
0.00
3.72
1845
2355
3.176708
CACTACTGTACGTATGCCACAC
58.823
50.000
0.00
0.00
0.00
3.82
1855
2369
0.797249
GCCGCTCACACTACTGTACG
60.797
60.000
0.00
0.00
0.00
3.67
1861
2375
2.432628
AAGCGCCGCTCACACTAC
60.433
61.111
14.01
0.00
38.25
2.73
1881
2395
1.609208
CCAACAAGAAGGACACCAGG
58.391
55.000
0.00
0.00
0.00
4.45
1884
2398
0.467290
TGGCCAACAAGAAGGACACC
60.467
55.000
0.61
0.00
38.22
4.16
1892
2409
1.118965
TCTCTCGGTGGCCAACAAGA
61.119
55.000
23.36
17.64
0.00
3.02
1908
2425
1.265365
GACAACACAGGCAAGCTTCTC
59.735
52.381
0.00
0.00
0.00
2.87
1916
2433
1.210722
TGTACAAGGACAACACAGGCA
59.789
47.619
0.00
0.00
0.00
4.75
1918
2435
3.678072
CGTATGTACAAGGACAACACAGG
59.322
47.826
0.00
0.00
31.83
4.00
1961
2478
8.715998
GTGTCTATATTACAAAGCAGATGATGG
58.284
37.037
0.00
0.00
0.00
3.51
2041
2565
4.585162
ACATGGCCAGTATGTAGTCTAGTC
59.415
45.833
13.05
0.00
37.02
2.59
2198
2847
3.620374
CACCTGTACTAGCATTTCAGCTG
59.380
47.826
7.63
7.63
46.11
4.24
2340
3005
1.202065
CCAGATCACGCCGAATGTTTG
60.202
52.381
0.00
0.00
0.00
2.93
2343
3008
1.815421
GCCAGATCACGCCGAATGT
60.815
57.895
0.00
0.00
0.00
2.71
2358
3023
1.377202
GAGAAATCCCACAGCGCCA
60.377
57.895
2.29
0.00
0.00
5.69
2446
3134
8.943909
AGACATTTATTTTAGAACGGAGGTAG
57.056
34.615
0.00
0.00
0.00
3.18
2497
3185
7.330700
CCGCCATAAAATATGTGTTTCAAGTTT
59.669
33.333
0.00
0.00
0.00
2.66
2505
3193
3.888930
CCCTCCGCCATAAAATATGTGTT
59.111
43.478
0.00
0.00
0.00
3.32
2510
3198
7.504926
TTATACTCCCTCCGCCATAAAATAT
57.495
36.000
0.00
0.00
0.00
1.28
2516
3204
8.063153
TCTTATATTTATACTCCCTCCGCCATA
58.937
37.037
0.00
0.00
0.00
2.74
2518
3206
6.154021
GTCTTATATTTATACTCCCTCCGCCA
59.846
42.308
0.00
0.00
0.00
5.69
2520
3208
6.127786
ACGTCTTATATTTATACTCCCTCCGC
60.128
42.308
0.00
0.00
0.00
5.54
2525
3213
9.786105
GCTAGAACGTCTTATATTTATACTCCC
57.214
37.037
0.00
0.00
0.00
4.30
2627
3324
0.392706
TCACACCTGTACTGCAGTGG
59.607
55.000
29.57
23.13
43.55
4.00
2632
3329
1.734465
GCAGAATCACACCTGTACTGC
59.266
52.381
0.00
0.00
41.33
4.40
2666
3363
2.655090
TGACCTGGTCAAATTGCTCA
57.345
45.000
26.54
0.75
39.78
4.26
2751
3448
2.719739
ACTGAGCAATCACCCATTCAG
58.280
47.619
0.00
0.00
38.34
3.02
2894
3591
2.230992
TCCCAAATGGTTCAAGCAATCG
59.769
45.455
0.00
0.00
34.77
3.34
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.