Multiple sequence alignment - TraesCS6D01G198500
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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
TraesCS6D01G198500
chr6D
100.000
2702
0
0
1
2702
276681568
276684269
0.000000e+00
4990.0
1
TraesCS6D01G198500
chr6D
100.000
29
0
0
2146
2174
77709278
77709306
1.000000e-03
54.7
2
TraesCS6D01G198500
chr6A
88.861
2783
204
37
1
2695
399700446
399697682
0.000000e+00
3325.0
3
TraesCS6D01G198500
chr6B
90.996
1255
71
13
565
1810
438406292
438407513
0.000000e+00
1653.0
4
TraesCS6D01G198500
chr6B
94.805
308
8
4
1809
2112
438407701
438408004
8.760000e-130
473.0
5
TraesCS6D01G198500
chr7A
78.947
418
63
11
2290
2689
667982746
667982336
7.420000e-66
261.0
6
TraesCS6D01G198500
chr7A
82.593
270
30
12
2448
2702
578979755
578979488
3.500000e-54
222.0
7
TraesCS6D01G198500
chr3A
78.774
424
65
14
2284
2690
366872306
366872721
7.420000e-66
261.0
8
TraesCS6D01G198500
chr3A
81.557
244
31
6
2461
2690
328928369
328928126
3.550000e-44
189.0
9
TraesCS6D01G198500
chr3A
74.306
144
33
2
572
712
377139231
377139373
1.040000e-04
58.4
10
TraesCS6D01G198500
chr3A
100.000
29
0
0
2146
2174
366872173
366872201
1.000000e-03
54.7
11
TraesCS6D01G198500
chr5A
78.302
424
68
12
2284
2690
43242983
43243399
4.470000e-63
252.0
12
TraesCS6D01G198500
chr5A
75.658
152
34
2
563
712
708833070
708832920
3.730000e-09
73.1
13
TraesCS6D01G198500
chr1A
78.066
424
69
10
2284
2690
49337587
49338003
2.080000e-61
246.0
14
TraesCS6D01G198500
chr2A
81.579
304
41
6
2402
2690
690349706
690349403
1.250000e-58
237.0
15
TraesCS6D01G198500
chr2A
76.866
134
22
4
648
773
266870640
266870508
1.740000e-07
67.6
16
TraesCS6D01G198500
chr2D
75.000
568
101
18
2146
2690
343678843
343679392
9.740000e-55
224.0
17
TraesCS6D01G198500
chr2D
94.286
35
1
1
8
42
402720047
402720080
5.000000e-03
52.8
18
TraesCS6D01G198500
chr7B
79.297
256
42
6
2448
2702
536654635
536654390
4.630000e-38
169.0
19
TraesCS6D01G198500
chr4A
77.686
121
18
6
648
760
627997556
627997675
6.240000e-07
65.8
20
TraesCS6D01G198500
chr5B
75.385
130
28
4
586
712
710671260
710671132
2.910000e-05
60.2
21
TraesCS6D01G198500
chr3D
96.875
32
1
0
2144
2175
582795795
582795826
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
TraesCS6D01G198500
chr6D
276681568
276684269
2701
False
4990
4990
100.0000
1
2702
1
chr6D.!!$F2
2701
1
TraesCS6D01G198500
chr6A
399697682
399700446
2764
True
3325
3325
88.8610
1
2695
1
chr6A.!!$R1
2694
2
TraesCS6D01G198500
chr6B
438406292
438408004
1712
False
1063
1653
92.9005
565
2112
2
chr6B.!!$F1
1547
3
TraesCS6D01G198500
chr2D
343678843
343679392
549
False
224
224
75.0000
2146
2690
1
chr2D.!!$F1
544
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
227
234
0.028902
CCAGCATGCGACATGTGATG
59.971
55.0
13.01
3.86
31.97
3.07
F
379
387
0.036952
CTACCCTATGCCTCATGCCG
60.037
60.0
0.00
0.00
40.16
5.69
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
1333
1373
0.106708
TTCCGTTGCAGCTCTGAAGT
59.893
50.0
0.29
0.0
0.0
3.01
R
2116
2353
0.318784
GCTAGGTTATGCCGGTCTCG
60.319
60.0
1.90
0.0
43.7
4.04
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
26
27
4.657075
GCAAATTTTGTGCTTCTCATGG
57.343
40.909
10.65
0.00
39.00
3.66
42
43
6.500684
TCTCATGGAAGCACATACTTTTTC
57.499
37.500
0.00
0.00
0.00
2.29
49
50
6.928492
TGGAAGCACATACTTTTTCCATTTTC
59.072
34.615
0.39
0.00
41.60
2.29
50
51
6.928492
GGAAGCACATACTTTTTCCATTTTCA
59.072
34.615
0.00
0.00
37.75
2.69
60
61
6.536224
ACTTTTTCCATTTTCAAGAAGCACAG
59.464
34.615
0.00
0.00
0.00
3.66
62
63
3.225104
TCCATTTTCAAGAAGCACAGCT
58.775
40.909
0.00
0.00
42.56
4.24
126
131
2.859165
TGTCTGCTCCAAAACCTAGG
57.141
50.000
7.41
7.41
0.00
3.02
131
136
4.023107
GTCTGCTCCAAAACCTAGGAAAAC
60.023
45.833
17.98
0.00
32.57
2.43
133
138
2.561419
GCTCCAAAACCTAGGAAAACCC
59.439
50.000
17.98
0.00
32.57
4.11
137
142
4.107311
TCCAAAACCTAGGAAAACCCAGAT
59.893
41.667
17.98
0.00
37.41
2.90
141
148
7.015779
CCAAAACCTAGGAAAACCCAGATAAAA
59.984
37.037
17.98
0.00
37.41
1.52
142
149
7.534723
AAACCTAGGAAAACCCAGATAAAAC
57.465
36.000
17.98
0.00
37.41
2.43
170
177
6.788598
AAAAAGCCATCAAAAACCCAAAAT
57.211
29.167
0.00
0.00
0.00
1.82
172
179
4.019792
AGCCATCAAAAACCCAAAATCC
57.980
40.909
0.00
0.00
0.00
3.01
173
180
2.741517
GCCATCAAAAACCCAAAATCCG
59.258
45.455
0.00
0.00
0.00
4.18
174
181
3.805457
GCCATCAAAAACCCAAAATCCGT
60.805
43.478
0.00
0.00
0.00
4.69
178
185
6.978080
CCATCAAAAACCCAAAATCCGTATAG
59.022
38.462
0.00
0.00
0.00
1.31
180
187
7.762588
TCAAAAACCCAAAATCCGTATAGAA
57.237
32.000
0.00
0.00
0.00
2.10
183
190
8.705134
CAAAAACCCAAAATCCGTATAGAAAAC
58.295
33.333
0.00
0.00
0.00
2.43
186
193
7.712204
ACCCAAAATCCGTATAGAAAACAAT
57.288
32.000
0.00
0.00
0.00
2.71
209
216
8.086843
AATTTTAAAATTAGGAGGGAGCGCCC
62.087
42.308
21.77
19.43
44.48
6.13
227
234
0.028902
CCAGCATGCGACATGTGATG
59.971
55.000
13.01
3.86
31.97
3.07
230
237
1.995646
GCATGCGACATGTGATGGCA
61.996
55.000
1.15
8.03
38.56
4.92
235
242
1.215244
CGACATGTGATGGCAGCTAG
58.785
55.000
1.15
0.00
38.56
3.42
236
243
1.590932
GACATGTGATGGCAGCTAGG
58.409
55.000
1.15
0.00
38.49
3.02
247
254
3.636231
AGCTAGGCGTGCCCACAA
61.636
61.111
7.39
0.00
36.58
3.33
278
285
0.536460
TGACCTTTGAAAGTCCCCGC
60.536
55.000
4.02
0.00
0.00
6.13
302
309
6.718294
CAGGGGATAACCTTTAGTTAGTTGT
58.282
40.000
0.00
0.00
44.07
3.32
307
314
8.098912
GGGATAACCTTTAGTTAGTTGTTCTCA
58.901
37.037
0.00
0.00
44.07
3.27
311
318
8.434733
AACCTTTAGTTAGTTGTTCTCACTTC
57.565
34.615
0.00
0.00
36.74
3.01
313
320
8.044908
ACCTTTAGTTAGTTGTTCTCACTTCAA
58.955
33.333
0.00
0.00
33.35
2.69
326
333
1.059913
ACTTCAAGGAGGTGGTCAGG
58.940
55.000
0.00
0.00
0.00
3.86
330
337
0.322975
CAAGGAGGTGGTCAGGTCAG
59.677
60.000
0.00
0.00
0.00
3.51
340
347
1.340248
GGTCAGGTCAGACAAGTTCGA
59.660
52.381
2.17
0.00
40.29
3.71
362
369
2.107378
TCAGGCATCCAACCAAACACTA
59.893
45.455
0.00
0.00
0.00
2.74
368
375
4.855340
CATCCAACCAAACACTACCCTAT
58.145
43.478
0.00
0.00
0.00
2.57
376
383
3.845781
AACACTACCCTATGCCTCATG
57.154
47.619
0.00
0.00
0.00
3.07
379
387
0.036952
CTACCCTATGCCTCATGCCG
60.037
60.000
0.00
0.00
40.16
5.69
382
390
0.886490
CCCTATGCCTCATGCCGTTC
60.886
60.000
0.00
0.00
40.16
3.95
406
414
1.672356
ACAGTGACCATGCGAAGGC
60.672
57.895
0.00
0.00
40.52
4.35
409
417
0.957395
AGTGACCATGCGAAGGCTTG
60.957
55.000
3.46
0.00
42.32
4.01
416
424
0.905357
ATGCGAAGGCTTGGAGTAGT
59.095
50.000
13.81
0.00
40.82
2.73
422
430
3.736433
CGAAGGCTTGGAGTAGTGATCAG
60.736
52.174
3.46
0.00
0.00
2.90
434
442
5.503927
AGTAGTGATCAGCCATGACAAAAT
58.496
37.500
0.00
0.00
38.57
1.82
438
446
5.587844
AGTGATCAGCCATGACAAAATAGAC
59.412
40.000
0.00
0.00
38.57
2.59
444
452
7.147312
TCAGCCATGACAAAATAGACAAAAAG
58.853
34.615
0.00
0.00
0.00
2.27
449
457
9.533253
CCATGACAAAATAGACAAAAAGTTTCT
57.467
29.630
0.00
0.00
0.00
2.52
458
466
5.622180
AGACAAAAAGTTTCTAGGACTCCC
58.378
41.667
0.00
0.00
0.00
4.30
466
474
1.076632
CTAGGACTCCCGTGGCTCT
60.077
63.158
0.00
0.00
37.58
4.09
489
497
0.243095
GAAGGCTTCAAGCAGCTTGG
59.757
55.000
30.71
18.76
44.75
3.61
500
508
4.100529
CAAGCAGCTTGGAAATGTATTCG
58.899
43.478
25.40
0.00
37.77
3.34
515
523
7.935338
AATGTATTCGATGCATCCATTTTTC
57.065
32.000
20.87
6.57
34.39
2.29
520
528
2.159212
CGATGCATCCATTTTTCTGGCA
60.159
45.455
20.87
0.00
36.16
4.92
605
630
8.005466
CCAATGTTGTCAGAAAATTTCAAATCG
58.995
33.333
8.55
0.00
0.00
3.34
831
859
1.337354
TGCTACGGAAGTTCGATGCAA
60.337
47.619
0.00
0.00
46.40
4.08
844
872
2.170260
GATGCAACGGTGACACCACG
62.170
60.000
24.18
13.41
44.09
4.94
886
914
2.584608
CCTCTTGGGGCTACGGTG
59.415
66.667
0.00
0.00
0.00
4.94
926
954
1.608590
CCGCTCCAAAACACACAGAAT
59.391
47.619
0.00
0.00
0.00
2.40
927
955
2.350772
CCGCTCCAAAACACACAGAATC
60.351
50.000
0.00
0.00
0.00
2.52
976
1011
2.812591
CACTGATCTTGCAGCTTCAGTT
59.187
45.455
19.06
7.50
44.77
3.16
1062
1097
3.760035
TCGCTCGGCTCCTTGGAC
61.760
66.667
0.00
0.00
0.00
4.02
1244
1279
1.004979
CCCCCTCCAATTTCACGGTAA
59.995
52.381
0.00
0.00
0.00
2.85
1251
1286
3.192422
TCCAATTTCACGGTAAATGCCTG
59.808
43.478
0.00
0.00
0.00
4.85
1291
1331
0.108329
GTCCATTGATCGTGTCCGGT
60.108
55.000
0.00
0.00
33.95
5.28
1461
1501
4.131088
GACGACCTCGGCCACCTC
62.131
72.222
2.24
0.00
42.67
3.85
1539
1579
1.607467
CCTGTTCCCAAGGGCCAAG
60.607
63.158
6.18
0.00
34.68
3.61
1602
1642
3.740397
TCGTACGTCCGCCACCAG
61.740
66.667
16.05
0.00
0.00
4.00
1718
1761
0.539518
TAACAGCGGGATTAGCAGCA
59.460
50.000
0.00
0.00
37.01
4.41
1743
1786
1.825090
CTGGTGTATCAGCTTGGCAA
58.175
50.000
0.00
0.00
32.61
4.52
1784
1827
4.600576
TGTGCCGCTGTCGCTCAA
62.601
61.111
0.00
0.00
0.00
3.02
1785
1828
4.077188
GTGCCGCTGTCGCTCAAC
62.077
66.667
0.00
0.00
0.00
3.18
1814
2047
0.039165
GCCCTGCTTTGCTGTAACAC
60.039
55.000
0.00
0.00
0.00
3.32
1947
2180
1.664873
GATAAGTCCCGGAAACCAGC
58.335
55.000
0.73
0.00
0.00
4.85
1987
2220
0.325602
AAGGTTCGTTGGGCGGATTA
59.674
50.000
0.00
0.00
41.72
1.75
1998
2231
2.202932
CGGATTACGCAGCCAGCT
60.203
61.111
0.00
0.00
42.61
4.24
1999
2232
1.067416
CGGATTACGCAGCCAGCTA
59.933
57.895
0.00
0.00
42.61
3.32
2001
2234
1.224722
GGATTACGCAGCCAGCTAGC
61.225
60.000
6.62
6.62
42.61
3.42
2066
2299
5.629079
AGTTTTGTTCCATTCCGAATCTC
57.371
39.130
0.00
0.00
0.00
2.75
2081
2314
0.173708
ATCTCGAGTGTTCCTTCCGC
59.826
55.000
13.13
0.00
0.00
5.54
2082
2315
1.801913
CTCGAGTGTTCCTTCCGCG
60.802
63.158
3.62
0.00
0.00
6.46
2116
2353
2.087009
GTGACACGCTACGCCACTC
61.087
63.158
0.00
0.00
0.00
3.51
2127
2364
4.148825
GCCACTCGAGACCGGCAT
62.149
66.667
28.27
2.48
44.25
4.40
2136
2373
0.318784
GAGACCGGCATAACCTAGCG
60.319
60.000
0.00
0.00
35.61
4.26
2141
2379
1.148498
GGCATAACCTAGCGCCCTT
59.852
57.895
2.29
0.00
38.67
3.95
2191
2437
4.162812
GTCAGAACTCTTCATCACTCGTC
58.837
47.826
0.00
0.00
0.00
4.20
2273
2522
3.443037
TGAACATGAAAACGCCAAACAG
58.557
40.909
0.00
0.00
0.00
3.16
2292
2541
2.277591
GCCATCAACCAAGCCAGCA
61.278
57.895
0.00
0.00
0.00
4.41
2296
2545
0.248289
ATCAACCAAGCCAGCATTGC
59.752
50.000
0.00
0.00
0.00
3.56
2345
2594
1.431440
GTTGCAAACTGACGTGGCA
59.569
52.632
0.00
0.00
45.32
4.92
2348
2597
2.639286
CAAACTGACGTGGCAGGC
59.361
61.111
7.77
1.00
40.20
4.85
2364
2613
2.049156
GCTTGAAACGCCAAGGCC
60.049
61.111
5.34
0.00
42.73
5.19
2412
2661
2.017752
GCCTATGGCGTTTCTGCTC
58.982
57.895
0.00
0.00
39.62
4.26
2415
2664
2.548920
GCCTATGGCGTTTCTGCTCTAT
60.549
50.000
0.00
0.00
39.62
1.98
2427
2677
9.193133
GCGTTTCTGCTCTATATATTTAAGTGA
57.807
33.333
0.00
0.00
0.00
3.41
2440
2690
0.824109
TAAGTGATCGTGGGGCTCTG
59.176
55.000
0.00
0.00
0.00
3.35
2444
2694
2.039624
ATCGTGGGGCTCTGACCT
59.960
61.111
0.00
0.00
0.00
3.85
2446
2696
0.105453
ATCGTGGGGCTCTGACCTAT
60.105
55.000
0.00
0.00
0.00
2.57
2459
2709
2.092323
TGACCTATCACTCACCACTCG
58.908
52.381
0.00
0.00
0.00
4.18
2474
2724
1.380515
CTCGCTCTCTTCTCCCCCA
60.381
63.158
0.00
0.00
0.00
4.96
2482
2732
1.076485
CTTCTCCCCCATTGGCCTG
60.076
63.158
3.32
0.00
0.00
4.85
2492
2742
0.323178
CATTGGCCTGTCTCCAGCTT
60.323
55.000
3.32
0.00
37.38
3.74
2510
2760
3.133691
GCTTTTGCCCTTTTCTCCTTTG
58.866
45.455
0.00
0.00
40.15
2.77
2511
2761
3.432186
GCTTTTGCCCTTTTCTCCTTTGT
60.432
43.478
0.00
0.00
40.15
2.83
2512
2762
4.371786
CTTTTGCCCTTTTCTCCTTTGTC
58.628
43.478
0.00
0.00
0.00
3.18
2513
2763
3.312736
TTGCCCTTTTCTCCTTTGTCT
57.687
42.857
0.00
0.00
0.00
3.41
2514
2764
2.863809
TGCCCTTTTCTCCTTTGTCTC
58.136
47.619
0.00
0.00
0.00
3.36
2516
2766
2.224892
GCCCTTTTCTCCTTTGTCTCCT
60.225
50.000
0.00
0.00
0.00
3.69
2534
2785
5.046231
GTCTCCTTCACTTAAACCCTCTCAT
60.046
44.000
0.00
0.00
0.00
2.90
2538
2789
5.986135
CCTTCACTTAAACCCTCTCATATCG
59.014
44.000
0.00
0.00
0.00
2.92
2677
2942
4.022329
CCCTAGTTTTGAACATGGTTCCAC
60.022
45.833
6.64
1.95
0.00
4.02
2695
2960
7.094420
TGGTTCCACATTATGATGTTTGTAGTG
60.094
37.037
0.00
0.00
43.92
2.74
2696
2961
7.094377
GGTTCCACATTATGATGTTTGTAGTGT
60.094
37.037
0.00
0.00
43.92
3.55
2697
2962
7.994425
TCCACATTATGATGTTTGTAGTGTT
57.006
32.000
0.00
0.00
43.92
3.32
2698
2963
8.402798
TCCACATTATGATGTTTGTAGTGTTT
57.597
30.769
0.00
0.00
43.92
2.83
2699
2964
9.508642
TCCACATTATGATGTTTGTAGTGTTTA
57.491
29.630
0.00
0.00
43.92
2.01
2700
2965
9.554724
CCACATTATGATGTTTGTAGTGTTTAC
57.445
33.333
0.00
0.00
43.92
2.01
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
26
27
7.945033
TGAAAATGGAAAAAGTATGTGCTTC
57.055
32.000
0.00
0.00
0.00
3.86
36
37
6.510638
GCTGTGCTTCTTGAAAATGGAAAAAG
60.511
38.462
0.00
0.00
0.00
2.27
42
43
3.572584
GAGCTGTGCTTCTTGAAAATGG
58.427
45.455
0.00
0.00
39.88
3.16
112
117
2.561419
GGGTTTTCCTAGGTTTTGGAGC
59.439
50.000
9.08
0.44
40.46
4.70
148
155
5.301551
GGATTTTGGGTTTTTGATGGCTTTT
59.698
36.000
0.00
0.00
0.00
2.27
156
163
7.762588
TTCTATACGGATTTTGGGTTTTTGA
57.237
32.000
0.00
0.00
0.00
2.69
158
165
8.422566
TGTTTTCTATACGGATTTTGGGTTTTT
58.577
29.630
0.00
0.00
0.00
1.94
180
187
7.817478
CGCTCCCTCCTAATTTTAAAATTGTTT
59.183
33.333
28.45
11.79
38.90
2.83
183
190
5.748630
GCGCTCCCTCCTAATTTTAAAATTG
59.251
40.000
28.45
19.71
38.90
2.32
186
193
3.697542
GGCGCTCCCTCCTAATTTTAAAA
59.302
43.478
7.64
2.51
0.00
1.52
209
216
0.028902
CCATCACATGTCGCATGCTG
59.971
55.000
17.13
9.68
0.00
4.41
214
221
2.400962
GCTGCCATCACATGTCGCA
61.401
57.895
0.00
0.60
0.00
5.10
230
237
3.612247
CTTGTGGGCACGCCTAGCT
62.612
63.158
8.20
0.00
36.10
3.32
254
261
4.202212
CGGGGACTTTCAAAGGTCATTTTT
60.202
41.667
1.31
0.00
34.49
1.94
278
285
6.718294
ACAACTAACTAAAGGTTATCCCCTG
58.282
40.000
0.00
0.00
39.36
4.45
302
309
2.368875
GACCACCTCCTTGAAGTGAGAA
59.631
50.000
10.86
0.00
33.21
2.87
307
314
1.059913
CCTGACCACCTCCTTGAAGT
58.940
55.000
0.00
0.00
0.00
3.01
311
318
0.322975
CTGACCTGACCACCTCCTTG
59.677
60.000
0.00
0.00
0.00
3.61
313
320
0.543174
GTCTGACCTGACCACCTCCT
60.543
60.000
0.00
0.00
0.00
3.69
326
333
1.996191
GCCTGATCGAACTTGTCTGAC
59.004
52.381
0.00
0.00
0.00
3.51
330
337
1.936547
GGATGCCTGATCGAACTTGTC
59.063
52.381
0.00
0.00
30.87
3.18
340
347
1.895131
GTGTTTGGTTGGATGCCTGAT
59.105
47.619
0.00
0.00
0.00
2.90
379
387
2.668550
GGTCACTGTGGGCCGAAC
60.669
66.667
8.11
0.00
0.00
3.95
382
390
2.747460
CATGGTCACTGTGGGCCG
60.747
66.667
8.11
0.00
0.00
6.13
385
393
1.300971
CTTCGCATGGTCACTGTGGG
61.301
60.000
8.11
0.00
0.00
4.61
406
414
3.133542
TCATGGCTGATCACTACTCCAAG
59.866
47.826
0.00
0.00
0.00
3.61
409
417
2.432146
TGTCATGGCTGATCACTACTCC
59.568
50.000
0.00
0.00
32.98
3.85
416
424
5.499313
TGTCTATTTTGTCATGGCTGATCA
58.501
37.500
0.00
0.00
32.98
2.92
422
430
7.713764
AACTTTTTGTCTATTTTGTCATGGC
57.286
32.000
0.00
0.00
0.00
4.40
434
442
6.517864
CGGGAGTCCTAGAAACTTTTTGTCTA
60.518
42.308
9.58
0.00
0.00
2.59
438
446
4.213482
CACGGGAGTCCTAGAAACTTTTTG
59.787
45.833
9.58
0.00
44.67
2.44
444
452
0.108281
GCCACGGGAGTCCTAGAAAC
60.108
60.000
9.58
0.00
44.67
2.78
449
457
1.379977
CAGAGCCACGGGAGTCCTA
60.380
63.158
9.58
0.00
44.67
2.94
489
497
7.935338
AAAATGGATGCATCGAATACATTTC
57.065
32.000
26.86
11.39
44.29
2.17
500
508
3.118884
AGTGCCAGAAAAATGGATGCATC
60.119
43.478
18.81
18.81
43.57
3.91
535
543
8.066000
AGCTATTAACGTTTTAAAGTGTGTCAC
58.934
33.333
5.91
0.00
30.86
3.67
570
595
5.850557
TCTGACAACATTGGTTCATGTTT
57.149
34.783
0.00
0.00
38.78
2.83
654
682
6.383436
TGGGCTTTGAATTTGATCCATTATCA
59.617
34.615
0.00
0.00
43.03
2.15
805
833
2.991190
TCGAACTTCCGTAGCACATTTC
59.009
45.455
0.00
0.00
0.00
2.17
831
859
3.612681
CCCTCGTGGTGTCACCGT
61.613
66.667
17.27
0.00
42.58
4.83
844
872
3.073062
AGAATATATGTGCACCCACCCTC
59.927
47.826
15.69
4.72
41.35
4.30
886
914
1.147153
GGCTCCAGCATCCACCTAC
59.853
63.158
0.03
0.00
44.36
3.18
926
954
1.016627
GCAAGAAGCTGTGTGTGTGA
58.983
50.000
0.00
0.00
41.15
3.58
927
955
0.316442
CGCAAGAAGCTGTGTGTGTG
60.316
55.000
0.00
0.00
42.61
3.82
1116
1151
1.302033
CAGGAACTTGACGCTGCCT
60.302
57.895
0.00
0.00
34.60
4.75
1225
1260
2.500392
TTACCGTGAAATTGGAGGGG
57.500
50.000
0.00
0.00
0.00
4.79
1244
1279
1.296056
GCGTCGTTGGTACAGGCATT
61.296
55.000
0.00
0.00
42.39
3.56
1251
1286
1.445582
CAGGAGGCGTCGTTGGTAC
60.446
63.158
0.00
0.00
0.00
3.34
1291
1331
1.609501
AGCTGAACTGGGCGGAGTA
60.610
57.895
0.00
0.00
0.00
2.59
1333
1373
0.106708
TTCCGTTGCAGCTCTGAAGT
59.893
50.000
0.29
0.00
0.00
3.01
1461
1501
2.772691
GGCGTCGTACTCCTCCAGG
61.773
68.421
0.00
0.00
0.00
4.45
1585
1625
3.740397
CTGGTGGCGGACGTACGA
61.740
66.667
27.46
0.00
35.47
3.43
1674
1717
4.454948
CAACTGCCGTTGTGGAGA
57.545
55.556
12.39
0.00
44.27
3.71
1718
1761
4.919653
CTGATACACCAGCACGCT
57.080
55.556
0.00
0.00
0.00
5.07
1733
1776
1.329906
GATCTCACGATTGCCAAGCTG
59.670
52.381
0.00
0.00
0.00
4.24
1743
1786
0.676184
CCCATGGACGATCTCACGAT
59.324
55.000
15.22
0.00
37.03
3.73
1784
1827
1.991230
AGCAGGGCTTACAATCCGT
59.009
52.632
0.00
0.00
33.89
4.69
1785
1828
4.963878
AGCAGGGCTTACAATCCG
57.036
55.556
0.00
0.00
33.89
4.18
1807
1850
5.556915
AGCCAAGCTAATAAGTGTGTTACA
58.443
37.500
0.00
0.00
36.99
2.41
1947
2180
2.743928
GCCCTTGCGTCTGTCCTG
60.744
66.667
0.00
0.00
0.00
3.86
1998
2231
2.750166
CAGAAAGAGACGAGACAGGCTA
59.250
50.000
0.00
0.00
0.00
3.93
1999
2232
1.543802
CAGAAAGAGACGAGACAGGCT
59.456
52.381
0.00
0.00
0.00
4.58
2001
2234
2.817258
AGTCAGAAAGAGACGAGACAGG
59.183
50.000
0.00
0.00
40.84
4.00
2066
2299
3.479269
GCGCGGAAGGAACACTCG
61.479
66.667
8.83
0.00
0.00
4.18
2081
2314
1.000274
TCACTCCATCCACATATCGCG
60.000
52.381
0.00
0.00
0.00
5.87
2082
2315
2.224042
TGTCACTCCATCCACATATCGC
60.224
50.000
0.00
0.00
0.00
4.58
2116
2353
0.318784
GCTAGGTTATGCCGGTCTCG
60.319
60.000
1.90
0.00
43.70
4.04
2125
2362
0.468226
TCCAAGGGCGCTAGGTTATG
59.532
55.000
7.64
0.00
0.00
1.90
2127
2364
1.335132
CCTCCAAGGGCGCTAGGTTA
61.335
60.000
7.64
0.00
0.00
2.85
2141
2379
0.400213
AACAGTGATTTCGGCCTCCA
59.600
50.000
0.00
0.00
0.00
3.86
2229
2478
4.075682
TCTGAAACGCCATGGTTTATGAA
58.924
39.130
14.67
0.00
40.05
2.57
2230
2479
3.680490
TCTGAAACGCCATGGTTTATGA
58.320
40.909
14.67
5.98
40.05
2.15
2233
2482
3.680490
TCATCTGAAACGCCATGGTTTA
58.320
40.909
14.67
0.00
40.05
2.01
2235
2484
2.198827
TCATCTGAAACGCCATGGTT
57.801
45.000
14.67
0.00
0.00
3.67
2236
2485
1.812571
GTTCATCTGAAACGCCATGGT
59.187
47.619
14.67
0.00
35.58
3.55
2239
2488
3.346315
TCATGTTCATCTGAAACGCCAT
58.654
40.909
0.00
0.00
35.58
4.40
2273
2522
3.010413
GCTGGCTTGGTTGATGGCC
62.010
63.158
0.00
0.00
44.31
5.36
2278
2527
0.828762
AGCAATGCTGGCTTGGTTGA
60.829
50.000
7.07
0.00
38.81
3.18
2292
2541
2.999063
GTGGGCCAAGGCAGCAAT
60.999
61.111
8.40
0.00
44.11
3.56
2320
2569
2.117779
TCAGTTTGCAACGCCAGCA
61.118
52.632
0.00
0.00
40.85
4.41
2334
2583
2.281070
CAAGCCTGCCACGTCAGT
60.281
61.111
3.83
0.00
32.32
3.41
2348
2597
1.535204
ATGGGCCTTGGCGTTTCAAG
61.535
55.000
4.53
7.86
42.63
3.02
2371
2620
1.250840
GGCGTTTGAGGCCCAGAAAT
61.251
55.000
0.00
0.00
42.98
2.17
2410
2659
7.707035
GCCCCACGATCACTTAAATATATAGAG
59.293
40.741
0.00
0.00
0.00
2.43
2412
2661
7.556844
AGCCCCACGATCACTTAAATATATAG
58.443
38.462
0.00
0.00
0.00
1.31
2415
2664
5.542635
AGAGCCCCACGATCACTTAAATATA
59.457
40.000
0.00
0.00
0.00
0.86
2427
2677
0.105453
ATAGGTCAGAGCCCCACGAT
60.105
55.000
0.00
0.00
0.00
3.73
2440
2690
1.202313
GCGAGTGGTGAGTGATAGGTC
60.202
57.143
0.00
0.00
0.00
3.85
2444
2694
2.017782
GAGAGCGAGTGGTGAGTGATA
58.982
52.381
0.00
0.00
0.00
2.15
2446
2696
0.250945
AGAGAGCGAGTGGTGAGTGA
60.251
55.000
0.00
0.00
0.00
3.41
2459
2709
0.182299
CCAATGGGGGAGAAGAGAGC
59.818
60.000
0.00
0.00
0.00
4.09
2482
2732
1.332195
AAAGGGCAAAAGCTGGAGAC
58.668
50.000
0.00
0.00
0.00
3.36
2492
2742
3.636764
GAGACAAAGGAGAAAAGGGCAAA
59.363
43.478
0.00
0.00
0.00
3.68
2510
2760
4.283722
TGAGAGGGTTTAAGTGAAGGAGAC
59.716
45.833
0.00
0.00
0.00
3.36
2511
2761
4.489737
TGAGAGGGTTTAAGTGAAGGAGA
58.510
43.478
0.00
0.00
0.00
3.71
2512
2762
4.891992
TGAGAGGGTTTAAGTGAAGGAG
57.108
45.455
0.00
0.00
0.00
3.69
2513
2763
6.183360
CGATATGAGAGGGTTTAAGTGAAGGA
60.183
42.308
0.00
0.00
0.00
3.36
2514
2764
5.986135
CGATATGAGAGGGTTTAAGTGAAGG
59.014
44.000
0.00
0.00
0.00
3.46
2516
2766
6.540438
ACGATATGAGAGGGTTTAAGTGAA
57.460
37.500
0.00
0.00
0.00
3.18
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.