Multiple sequence alignment - TraesCS1B01G348200
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
TraesCS1B01G348200
chr1B
100.000
3487
0
0
1
3487
577798577
577795091
0.000000e+00
6440.0
1
TraesCS1B01G348200
chr1D
90.860
1674
118
17
1842
3485
427235624
427233956
0.000000e+00
2211.0
2
TraesCS1B01G348200
chr1D
89.631
1408
94
15
475
1843
427238756
427237362
0.000000e+00
1744.0
3
TraesCS1B01G348200
chr1D
88.174
482
43
6
2
470
427239210
427238730
2.350000e-156
562.0
4
TraesCS1B01G348200
chr1A
89.604
1616
136
16
1895
3484
522501106
522499497
0.000000e+00
2025.0
5
TraesCS1B01G348200
chr1A
94.439
1079
54
4
802
1875
522502294
522501217
0.000000e+00
1655.0
6
TraesCS1B01G348200
chr1A
84.615
169
23
2
523
691
522502914
522502749
7.740000e-37
165.0
7
TraesCS1B01G348200
chr1A
89.381
113
8
4
1409
1519
95861379
95861489
4.690000e-29
139.0
8
TraesCS1B01G348200
chr5B
85.526
228
29
3
1074
1298
603873283
603873057
5.820000e-58
235.0
9
TraesCS1B01G348200
chr2B
82.759
174
24
4
1165
1335
51201764
51201594
2.170000e-32
150.0
10
TraesCS1B01G348200
chr2B
97.727
44
1
0
1083
1126
51201801
51201758
3.730000e-10
76.8
11
TraesCS1B01G348200
chr5A
90.566
106
8
2
1414
1519
545599858
545599755
4.690000e-29
139.0
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
TraesCS1B01G348200
chr1B
577795091
577798577
3486
True
6440.000000
6440
100.000000
1
3487
1
chr1B.!!$R1
3486
1
TraesCS1B01G348200
chr1D
427233956
427239210
5254
True
1505.666667
2211
89.555000
2
3485
3
chr1D.!!$R1
3483
2
TraesCS1B01G348200
chr1A
522499497
522502914
3417
True
1281.666667
2025
89.552667
523
3484
3
chr1A.!!$R1
2961
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
418
432
0.035317
TGCAATTCACTCGTGGAGCT
59.965
50.0
0.0
0.0
32.04
4.09
F
989
1375
0.036388
ATCAACCACCCTGCACGTAG
60.036
55.0
0.0
0.0
0.00
3.51
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
2189
4414
0.172578
ATTCGTCGTCTCGCCAATCA
59.827
50.0
0.0
0.0
0.0
2.57
R
2594
4819
0.321298
TTGAAGGACAAGTAGGGCGC
60.321
55.0
0.0
0.0
34.2
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
24
25
5.828328
AGGAGGTCTTTCAAAACTTACAAGG
59.172
40.000
0.00
0.00
0.00
3.61
25
26
5.507482
GGAGGTCTTTCAAAACTTACAAGGC
60.507
44.000
0.00
0.00
0.00
4.35
26
27
4.341235
AGGTCTTTCAAAACTTACAAGGCC
59.659
41.667
0.00
0.00
39.19
5.19
58
61
6.839124
TTGTGCAAATCTGGTCTTTCATAT
57.161
33.333
0.00
0.00
0.00
1.78
99
102
5.034152
TGAACAAAAGTCGAGATGCAAAAC
58.966
37.500
0.00
0.00
0.00
2.43
112
115
7.064609
TCGAGATGCAAAACATAAAACTAGAGG
59.935
37.037
0.00
0.00
39.84
3.69
114
117
5.041951
TGCAAAACATAAAACTAGAGGCG
57.958
39.130
0.00
0.00
0.00
5.52
126
132
3.887352
ACTAGAGGCGATGACTTGACTA
58.113
45.455
0.00
0.00
0.00
2.59
134
140
5.053145
GGCGATGACTTGACTAGATTGAAT
58.947
41.667
0.00
0.00
0.00
2.57
155
161
6.985645
TGAATTGGAGATTTTTGTTGTCCTTG
59.014
34.615
0.00
0.00
0.00
3.61
168
174
3.936372
TGTCCTTGTGTGCTCTAGTAC
57.064
47.619
0.00
0.00
0.00
2.73
231
237
7.920151
AGTTAGATCTTGATTGACGAATGAGAG
59.080
37.037
0.00
0.00
0.00
3.20
232
238
6.219417
AGATCTTGATTGACGAATGAGAGT
57.781
37.500
0.00
0.00
0.00
3.24
256
262
7.381678
AGTTTGACTCGAAGAATGTAGTAACAC
59.618
37.037
0.00
0.00
38.78
3.32
294
300
9.599866
AAAATTAATGATAAGTAAAGCCAAGCC
57.400
29.630
0.00
0.00
0.00
4.35
344
358
3.713826
AGAAAAACCCGAAGCCATCTA
57.286
42.857
0.00
0.00
0.00
1.98
352
366
2.224606
CCGAAGCCATCTACATTGCAT
58.775
47.619
0.00
0.00
0.00
3.96
360
374
7.822161
AGCCATCTACATTGCATATGTTTTA
57.178
32.000
16.19
6.51
33.76
1.52
368
382
9.797473
CTACATTGCATATGTTTTACGATAGTG
57.203
33.333
16.19
0.00
40.81
2.74
382
396
4.649088
CGATAGTGTCACCACAATCCTA
57.351
45.455
0.00
0.00
44.39
2.94
384
398
2.743636
AGTGTCACCACAATCCTACG
57.256
50.000
0.00
0.00
44.39
3.51
394
408
3.564511
CACAATCCTACGGCAAACTTTG
58.435
45.455
0.00
0.00
0.00
2.77
398
412
2.215196
TCCTACGGCAAACTTTGTGAC
58.785
47.619
3.48
0.00
0.00
3.67
399
413
2.158871
TCCTACGGCAAACTTTGTGACT
60.159
45.455
3.48
0.00
0.00
3.41
400
414
2.032030
CCTACGGCAAACTTTGTGACTG
60.032
50.000
3.48
0.00
0.00
3.51
401
415
0.100503
ACGGCAAACTTTGTGACTGC
59.899
50.000
3.48
0.00
0.00
4.40
409
423
4.989279
AACTTTGTGACTGCAATTCACT
57.011
36.364
22.38
5.94
43.30
3.41
411
425
3.002656
ACTTTGTGACTGCAATTCACTCG
59.997
43.478
22.38
15.03
43.30
4.18
414
428
1.195448
GTGACTGCAATTCACTCGTGG
59.805
52.381
17.21
0.00
40.30
4.94
418
432
0.035317
TGCAATTCACTCGTGGAGCT
59.965
50.000
0.00
0.00
32.04
4.09
425
439
1.472878
TCACTCGTGGAGCTACATGTC
59.527
52.381
17.86
0.00
32.04
3.06
429
443
0.246360
CGTGGAGCTACATGTCACCA
59.754
55.000
10.27
5.38
0.00
4.17
437
451
4.460263
AGCTACATGTCACCAAACAAAGA
58.540
39.130
0.00
0.00
31.81
2.52
443
457
2.229062
TGTCACCAAACAAAGAACGCAA
59.771
40.909
0.00
0.00
0.00
4.85
444
458
4.969121
ATGTCACCAAACAAAGAACGCAAG
60.969
41.667
0.00
0.00
36.48
4.01
445
459
2.750166
TCACCAAACAAAGAACGCAAGA
59.250
40.909
0.00
0.00
43.62
3.02
446
460
2.851824
CACCAAACAAAGAACGCAAGAC
59.148
45.455
0.00
0.00
43.62
3.01
447
461
2.752903
ACCAAACAAAGAACGCAAGACT
59.247
40.909
0.00
0.00
43.62
3.24
448
462
3.942748
ACCAAACAAAGAACGCAAGACTA
59.057
39.130
0.00
0.00
43.62
2.59
449
463
4.201881
ACCAAACAAAGAACGCAAGACTAC
60.202
41.667
0.00
0.00
43.62
2.73
450
464
4.201871
CCAAACAAAGAACGCAAGACTACA
60.202
41.667
0.00
0.00
43.62
2.74
451
465
5.328691
CAAACAAAGAACGCAAGACTACAA
58.671
37.500
0.00
0.00
43.62
2.41
452
466
4.795970
ACAAAGAACGCAAGACTACAAG
57.204
40.909
0.00
0.00
43.62
3.16
453
467
4.439057
ACAAAGAACGCAAGACTACAAGA
58.561
39.130
0.00
0.00
43.62
3.02
454
468
4.270325
ACAAAGAACGCAAGACTACAAGAC
59.730
41.667
0.00
0.00
43.62
3.01
455
469
3.728076
AGAACGCAAGACTACAAGACA
57.272
42.857
0.00
0.00
43.62
3.41
456
470
3.643763
AGAACGCAAGACTACAAGACAG
58.356
45.455
0.00
0.00
43.62
3.51
457
471
1.784525
ACGCAAGACTACAAGACAGC
58.215
50.000
0.00
0.00
43.62
4.40
458
472
1.068588
ACGCAAGACTACAAGACAGCA
59.931
47.619
0.00
0.00
43.62
4.41
459
473
2.289072
ACGCAAGACTACAAGACAGCAT
60.289
45.455
0.00
0.00
43.62
3.79
460
474
2.346847
CGCAAGACTACAAGACAGCATC
59.653
50.000
0.00
0.00
43.02
3.91
461
475
3.594134
GCAAGACTACAAGACAGCATCT
58.406
45.455
0.00
0.00
40.46
2.90
462
476
5.383757
CGCAAGACTACAAGACAGCATCTT
61.384
45.833
0.00
0.00
45.47
2.40
463
477
4.092675
GCAAGACTACAAGACAGCATCTTC
59.907
45.833
0.47
0.00
44.99
2.87
464
478
5.233225
CAAGACTACAAGACAGCATCTTCA
58.767
41.667
0.47
0.00
44.99
3.02
465
479
5.474578
AGACTACAAGACAGCATCTTCAA
57.525
39.130
0.47
0.00
44.99
2.69
466
480
5.477510
AGACTACAAGACAGCATCTTCAAG
58.522
41.667
0.47
4.45
44.99
3.02
467
481
4.573900
ACTACAAGACAGCATCTTCAAGG
58.426
43.478
0.47
0.00
44.99
3.61
468
482
3.777106
ACAAGACAGCATCTTCAAGGA
57.223
42.857
0.47
0.00
44.99
3.36
469
483
3.672808
ACAAGACAGCATCTTCAAGGAG
58.327
45.455
0.47
0.00
44.99
3.69
470
484
3.072184
ACAAGACAGCATCTTCAAGGAGT
59.928
43.478
0.47
0.00
44.99
3.85
471
485
3.608316
AGACAGCATCTTCAAGGAGTC
57.392
47.619
0.00
0.00
31.62
3.36
472
486
2.094286
AGACAGCATCTTCAAGGAGTCG
60.094
50.000
0.00
0.00
31.62
4.18
473
487
1.620819
ACAGCATCTTCAAGGAGTCGT
59.379
47.619
0.00
0.00
0.00
4.34
495
509
4.963318
AGACTCCAAGACAACATCTTCA
57.037
40.909
0.00
0.00
44.99
3.02
498
512
4.392940
ACTCCAAGACAACATCTTCAAGG
58.607
43.478
0.00
0.00
44.99
3.61
501
515
4.103153
TCCAAGACAACATCTTCAAGGAGT
59.897
41.667
0.00
0.00
44.99
3.85
502
516
4.453819
CCAAGACAACATCTTCAAGGAGTC
59.546
45.833
0.00
0.00
44.99
3.36
509
524
2.011122
TCTTCAAGGAGTCGTCCCTT
57.989
50.000
0.00
0.00
45.26
3.95
516
531
0.179081
GGAGTCGTCCCTTGTATGCC
60.179
60.000
0.00
0.00
36.76
4.40
531
546
5.784578
TGTATGCCGATGTTGACTAGTAT
57.215
39.130
0.00
0.00
0.00
2.12
559
574
5.654650
CACAAAGTTAAACATGGGGGCTATA
59.345
40.000
0.00
0.00
0.00
1.31
575
590
3.697542
GGCTATAACCCACAAAACCGAAT
59.302
43.478
0.00
0.00
0.00
3.34
576
591
4.201980
GGCTATAACCCACAAAACCGAATC
60.202
45.833
0.00
0.00
0.00
2.52
614
634
1.135228
GGGAAAACAACGTGCACAGTT
60.135
47.619
18.64
17.92
0.00
3.16
626
646
2.813754
GTGCACAGTTTGATCTAGCCAA
59.186
45.455
13.17
0.00
0.00
4.52
677
711
3.926616
AGAATGTAACCTCGGTGTCAAG
58.073
45.455
0.00
0.00
0.00
3.02
737
790
2.159382
TGGCCAAACGAGAATTCTTCC
58.841
47.619
9.87
0.00
0.00
3.46
739
792
2.820197
GGCCAAACGAGAATTCTTCCTT
59.180
45.455
9.87
0.47
0.00
3.36
740
793
3.366374
GGCCAAACGAGAATTCTTCCTTG
60.366
47.826
9.87
12.17
0.00
3.61
781
1096
1.523938
GCTTCCGGTCCACCTATGC
60.524
63.158
0.00
0.00
0.00
3.14
905
1283
1.436600
GCATGAGTGGTGAGTGACTG
58.563
55.000
0.00
0.00
0.00
3.51
921
1299
4.160626
AGTGACTGGACAGACTATTTAGCC
59.839
45.833
6.29
0.00
0.00
3.93
971
1349
6.456501
ACAAGTACGAAGAACAAGCTAAGAT
58.543
36.000
0.00
0.00
0.00
2.40
988
1374
0.036765
GATCAACCACCCTGCACGTA
60.037
55.000
0.00
0.00
0.00
3.57
989
1375
0.036388
ATCAACCACCCTGCACGTAG
60.036
55.000
0.00
0.00
0.00
3.51
991
1377
0.319083
CAACCACCCTGCACGTAGTA
59.681
55.000
0.00
0.00
41.61
1.82
1005
1391
3.129813
CACGTAGTAAGTACTCCATGGCA
59.870
47.826
6.96
0.00
41.61
4.92
1199
1585
0.104934
ACCATTATCGCCCTCCCTCT
60.105
55.000
0.00
0.00
0.00
3.69
1203
1589
0.854218
TTATCGCCCTCCCTCTCTCT
59.146
55.000
0.00
0.00
0.00
3.10
1245
1631
4.429212
ATGCGCGTGCTCACCGTA
62.429
61.111
23.16
0.00
43.34
4.02
1264
1650
4.831307
CGGGCGTCTTCTCCGTCG
62.831
72.222
0.00
0.00
39.04
5.12
1266
1652
2.100603
GGCGTCTTCTCCGTCGAG
59.899
66.667
0.00
0.00
37.48
4.04
1323
1709
2.799371
GTCTACGGGCTCACCTCG
59.201
66.667
0.00
0.00
36.97
4.63
1372
1758
1.592400
GACATCGTCGGGACTGTCCA
61.592
60.000
26.94
7.70
38.64
4.02
1410
1796
3.998672
GACCCGAACCTCACCGCA
61.999
66.667
0.00
0.00
0.00
5.69
1497
1883
2.125106
GGCGAGGACATGTGGGAC
60.125
66.667
1.15
0.00
0.00
4.46
1536
1922
1.686355
CTCTGAGCAGGACGATAGGT
58.314
55.000
0.00
0.00
43.77
3.08
1576
1962
2.649034
GCTTCGTCGTGGAGGTGA
59.351
61.111
0.00
0.00
0.00
4.02
1776
2162
0.249699
TCGCCGGCGATATGTTTGAT
60.250
50.000
45.37
0.00
44.01
2.57
1834
2220
8.325787
AGGTAATTTCACATGTGTTCCATACTA
58.674
33.333
24.63
0.00
30.71
1.82
1861
3985
4.415881
TTAGTCGCCATGTGTTCCATAT
57.584
40.909
0.00
0.00
30.71
1.78
1864
3988
3.627577
AGTCGCCATGTGTTCCATATTTC
59.372
43.478
0.00
0.00
30.71
2.17
1875
3999
5.295787
GTGTTCCATATTTCCATTGCGAGTA
59.704
40.000
0.00
0.00
0.00
2.59
1876
4000
5.295787
TGTTCCATATTTCCATTGCGAGTAC
59.704
40.000
0.00
0.00
0.00
2.73
1877
4001
4.385825
TCCATATTTCCATTGCGAGTACC
58.614
43.478
0.00
0.00
0.00
3.34
1882
4060
3.520290
TTCCATTGCGAGTACCTACTG
57.480
47.619
0.00
0.00
36.50
2.74
2022
4242
4.762289
AAACCATAGAGCTTAGACCTGG
57.238
45.455
0.00
0.00
0.00
4.45
2039
4259
2.658285
CTGGCCTTTGCATATCAGGAA
58.342
47.619
3.32
0.00
40.13
3.36
2042
4262
3.117398
TGGCCTTTGCATATCAGGAAGAT
60.117
43.478
3.32
0.00
40.13
2.40
2076
4296
2.303600
ACTTTATTACCGAGGGCACACA
59.696
45.455
0.00
0.00
0.00
3.72
2102
4323
6.563381
CGACACTTACGTGCTTGATTAAGTTT
60.563
38.462
0.00
0.00
45.10
2.66
2103
4324
7.358600
CGACACTTACGTGCTTGATTAAGTTTA
60.359
37.037
0.00
0.00
45.10
2.01
2104
4325
8.319143
ACACTTACGTGCTTGATTAAGTTTAT
57.681
30.769
0.00
0.00
45.10
1.40
2207
4432
0.172578
ATGATTGGCGAGACGACGAA
59.827
50.000
0.00
0.00
37.93
3.85
2247
4472
1.340991
GGTGCAAAGAGGCAATCCCTA
60.341
52.381
0.00
0.00
46.60
3.53
2291
4516
6.547141
AGGTGATAATCATAAACATGGTGGTG
59.453
38.462
0.00
0.00
0.00
4.17
2306
4531
2.422945
GGTGGTGGGTTCTGAAAAGTCT
60.423
50.000
0.00
0.00
0.00
3.24
2365
4590
2.362397
TGTACGATCTCTTCCTCATGGC
59.638
50.000
0.00
0.00
0.00
4.40
2447
4672
5.483685
TCAGTGGCTACAATATCATACCC
57.516
43.478
2.02
0.00
0.00
3.69
2449
4674
3.000727
GTGGCTACAATATCATACCCGC
58.999
50.000
0.00
0.00
0.00
6.13
2590
4815
9.764363
ATGGTTTATATATATATGTGCACCTCG
57.236
33.333
15.69
0.00
0.00
4.63
2658
4884
5.465935
TCAAATTAGCCGGTTTCATGTTTC
58.534
37.500
1.90
0.00
0.00
2.78
2673
4899
6.220726
TCATGTTTCGGTCAGAGATGAATA
57.779
37.500
0.00
0.00
0.00
1.75
2718
4944
7.088589
AGTGTATGCATGTTACTCCAAATTC
57.911
36.000
10.16
0.00
0.00
2.17
2823
5058
6.160684
CCATGAATTGACACACATGACAAAT
58.839
36.000
0.00
0.00
42.41
2.32
2946
5182
4.336889
TCGTTGAATTCTCTGTGGTCTT
57.663
40.909
7.05
0.00
0.00
3.01
2968
5204
2.427453
GCCTTCATCGACCTCTGAAGTA
59.573
50.000
19.79
0.00
44.40
2.24
2981
5217
1.760613
CTGAAGTAACCGGGATGCCTA
59.239
52.381
6.32
0.00
0.00
3.93
3001
5237
5.418209
GCCTAGACTAGTGGACAAGAAACTA
59.582
44.000
0.00
0.00
0.00
2.24
3014
5250
7.990886
TGGACAAGAAACTACTAAGACACAAAT
59.009
33.333
0.00
0.00
0.00
2.32
3028
5264
3.067106
ACACAAATAGGCACACGAGAAG
58.933
45.455
0.00
0.00
0.00
2.85
3033
5269
5.147162
CAAATAGGCACACGAGAAGAAAAC
58.853
41.667
0.00
0.00
0.00
2.43
3052
5291
3.712091
ACGTCCGAATAAAGAGCTAGG
57.288
47.619
0.00
0.00
0.00
3.02
3099
5338
2.223144
TGGTCGTTTCAATTGCTTCTCG
59.777
45.455
0.00
1.78
0.00
4.04
3103
5342
3.428870
TCGTTTCAATTGCTTCTCGAGAC
59.571
43.478
16.36
5.25
0.00
3.36
3127
5366
8.927675
ACGAGTTAGATAGATCTCTTGGTAAT
57.072
34.615
0.00
0.00
38.32
1.89
3140
5379
8.812513
ATCTCTTGGTAATTTCAATGATCACA
57.187
30.769
0.00
0.00
0.00
3.58
3150
5389
6.897706
TTTCAATGATCACAGTGGATGAAA
57.102
33.333
0.00
8.03
41.57
2.69
3155
5394
4.582869
TGATCACAGTGGATGAAAGGAAG
58.417
43.478
0.00
0.00
0.00
3.46
3167
5406
2.987046
GAAAGGAAGCACACTTTCGTG
58.013
47.619
10.04
0.00
41.94
4.35
3343
5584
7.342769
TGGTCATGACTATGTAATAACGACT
57.657
36.000
24.50
0.00
35.73
4.18
3361
5602
4.863131
ACGACTTATTCCGACAGAATGAAC
59.137
41.667
0.00
0.00
45.11
3.18
3430
5671
4.192429
TCTCGTTGAGATGCATGAAAGA
57.808
40.909
2.46
1.17
33.35
2.52
3436
5677
5.570344
GTTGAGATGCATGAAAGAGACATG
58.430
41.667
2.46
0.00
45.19
3.21
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
0
1
5.828328
CCTTGTAAGTTTTGAAAGACCTCCT
59.172
40.000
0.00
0.00
0.00
3.69
45
48
8.103948
ACAGTGAAGAAAATATGAAAGACCAG
57.896
34.615
0.00
0.00
0.00
4.00
46
49
9.567776
TTACAGTGAAGAAAATATGAAAGACCA
57.432
29.630
0.00
0.00
0.00
4.02
58
61
6.751514
TGTTCAAGCTTACAGTGAAGAAAA
57.248
33.333
0.00
0.00
32.15
2.29
67
70
5.234329
TCTCGACTTTTGTTCAAGCTTACAG
59.766
40.000
0.00
0.00
0.00
2.74
99
102
6.019479
GTCAAGTCATCGCCTCTAGTTTTATG
60.019
42.308
0.00
0.00
0.00
1.90
112
115
6.417327
CAATTCAATCTAGTCAAGTCATCGC
58.583
40.000
0.00
0.00
0.00
4.58
114
117
7.984050
TCTCCAATTCAATCTAGTCAAGTCATC
59.016
37.037
0.00
0.00
0.00
2.92
126
132
7.874528
GGACAACAAAAATCTCCAATTCAATCT
59.125
33.333
0.00
0.00
0.00
2.40
134
140
5.186797
ACACAAGGACAACAAAAATCTCCAA
59.813
36.000
0.00
0.00
0.00
3.53
199
205
9.869757
TTCGTCAATCAAGATCTAACTTCATTA
57.130
29.630
0.00
0.00
0.00
1.90
221
227
3.917329
TCGAGTCAAACTCTCATTCGT
57.083
42.857
5.63
0.00
42.92
3.85
231
237
7.359014
GGTGTTACTACATTCTTCGAGTCAAAC
60.359
40.741
0.00
0.00
36.50
2.93
232
238
6.643770
GGTGTTACTACATTCTTCGAGTCAAA
59.356
38.462
0.00
0.00
36.50
2.69
333
347
4.453478
ACATATGCAATGTAGATGGCTTCG
59.547
41.667
10.43
0.00
28.60
3.79
336
350
6.720112
AAAACATATGCAATGTAGATGGCT
57.280
33.333
10.43
0.00
28.60
4.75
344
358
8.208718
ACACTATCGTAAAACATATGCAATGT
57.791
30.769
1.58
8.21
0.00
2.71
382
396
0.100503
GCAGTCACAAAGTTTGCCGT
59.899
50.000
15.59
0.00
0.00
5.68
384
398
2.292103
TTGCAGTCACAAAGTTTGCC
57.708
45.000
15.59
4.17
33.98
4.52
394
408
1.195448
CCACGAGTGAATTGCAGTCAC
59.805
52.381
19.71
19.71
45.44
3.67
398
412
0.445436
GCTCCACGAGTGAATTGCAG
59.555
55.000
4.59
0.00
31.39
4.41
399
413
0.035317
AGCTCCACGAGTGAATTGCA
59.965
50.000
4.59
0.00
31.39
4.08
400
414
1.661112
GTAGCTCCACGAGTGAATTGC
59.339
52.381
4.59
3.71
31.39
3.56
401
415
2.959516
TGTAGCTCCACGAGTGAATTG
58.040
47.619
4.59
0.00
31.39
2.32
409
423
0.530744
GGTGACATGTAGCTCCACGA
59.469
55.000
0.00
0.00
0.00
4.35
411
425
2.472695
TTGGTGACATGTAGCTCCAC
57.527
50.000
0.00
1.78
42.32
4.02
414
428
4.515191
TCTTTGTTTGGTGACATGTAGCTC
59.485
41.667
0.00
0.00
42.32
4.09
418
432
4.496673
GCGTTCTTTGTTTGGTGACATGTA
60.497
41.667
0.00
0.00
42.32
2.29
425
439
2.851824
GTCTTGCGTTCTTTGTTTGGTG
59.148
45.455
0.00
0.00
0.00
4.17
429
443
5.353123
TCTTGTAGTCTTGCGTTCTTTGTTT
59.647
36.000
0.00
0.00
0.00
2.83
437
451
2.135933
GCTGTCTTGTAGTCTTGCGTT
58.864
47.619
0.00
0.00
0.00
4.84
451
465
2.094286
CGACTCCTTGAAGATGCTGTCT
60.094
50.000
0.00
0.00
39.43
3.41
452
466
2.266554
CGACTCCTTGAAGATGCTGTC
58.733
52.381
0.00
0.00
0.00
3.51
453
467
1.620819
ACGACTCCTTGAAGATGCTGT
59.379
47.619
0.00
0.00
0.00
4.40
454
468
2.376808
ACGACTCCTTGAAGATGCTG
57.623
50.000
0.00
0.00
0.00
4.41
455
469
3.129638
GTCTACGACTCCTTGAAGATGCT
59.870
47.826
0.00
0.00
0.00
3.79
456
470
3.129638
AGTCTACGACTCCTTGAAGATGC
59.870
47.826
0.00
0.00
38.71
3.91
457
471
4.974368
AGTCTACGACTCCTTGAAGATG
57.026
45.455
0.00
0.00
38.71
2.90
467
481
8.007572
AGATGTTGTCTTGGAGTCTACGACTC
62.008
46.154
14.06
14.06
45.15
3.36
468
482
3.220110
TGTTGTCTTGGAGTCTACGACT
58.780
45.455
13.17
0.00
46.42
4.18
469
483
3.637998
TGTTGTCTTGGAGTCTACGAC
57.362
47.619
6.22
6.22
0.00
4.34
470
484
4.079970
AGATGTTGTCTTGGAGTCTACGA
58.920
43.478
0.00
0.00
31.47
3.43
471
485
4.442375
AGATGTTGTCTTGGAGTCTACG
57.558
45.455
0.00
0.00
31.47
3.51
485
499
2.996621
GGACGACTCCTTGAAGATGTTG
59.003
50.000
0.00
0.00
33.07
3.33
495
509
1.207329
GCATACAAGGGACGACTCCTT
59.793
52.381
0.00
0.00
44.76
3.36
498
512
0.527817
CGGCATACAAGGGACGACTC
60.528
60.000
0.00
0.00
0.00
3.36
501
515
0.104120
CATCGGCATACAAGGGACGA
59.896
55.000
0.00
0.00
34.70
4.20
502
516
0.179084
ACATCGGCATACAAGGGACG
60.179
55.000
0.00
0.00
0.00
4.79
509
524
5.784578
ATACTAGTCAACATCGGCATACA
57.215
39.130
0.00
0.00
0.00
2.29
516
531
9.302345
ACTTTGTGAATATACTAGTCAACATCG
57.698
33.333
0.00
0.00
34.28
3.84
531
546
5.046950
GCCCCCATGTTTAACTTTGTGAATA
60.047
40.000
0.00
0.00
0.00
1.75
543
558
3.132056
TGGGTTATAGCCCCCATGTTTA
58.868
45.455
21.00
0.00
46.06
2.01
559
574
1.960689
CCAGATTCGGTTTTGTGGGTT
59.039
47.619
0.00
0.00
0.00
4.11
569
584
0.620556
ATGTTGGCTCCAGATTCGGT
59.379
50.000
0.00
0.00
0.00
4.69
575
590
0.247460
CGTCAGATGTTGGCTCCAGA
59.753
55.000
0.00
0.00
0.00
3.86
576
591
0.742281
CCGTCAGATGTTGGCTCCAG
60.742
60.000
0.00
0.00
0.00
3.86
614
634
9.970395
CATAATTTAGCATTTTGGCTAGATCAA
57.030
29.630
0.00
0.00
46.25
2.57
626
646
7.710475
CGGGTGAAAATCCATAATTTAGCATTT
59.290
33.333
0.00
0.00
36.54
2.32
848
1226
7.116376
TCTCCGATTTTAATATTCATCACGAGC
59.884
37.037
0.00
0.00
0.00
5.03
885
1263
0.037882
AGTCACTCACCACTCATGCG
60.038
55.000
0.00
0.00
0.00
4.73
905
1283
3.118592
ACTGCTGGCTAAATAGTCTGTCC
60.119
47.826
0.00
0.00
30.69
4.02
921
1299
3.085533
AGCTATATCTCCGGTACTGCTG
58.914
50.000
0.00
0.00
0.00
4.41
971
1349
1.369692
CTACGTGCAGGGTGGTTGA
59.630
57.895
11.67
0.00
0.00
3.18
988
1374
3.195825
GTGAGTGCCATGGAGTACTTACT
59.804
47.826
18.40
6.99
39.71
2.24
989
1375
3.522553
GTGAGTGCCATGGAGTACTTAC
58.477
50.000
18.40
17.61
0.00
2.34
990
1376
2.500098
GGTGAGTGCCATGGAGTACTTA
59.500
50.000
18.40
10.06
0.00
2.24
991
1377
1.279271
GGTGAGTGCCATGGAGTACTT
59.721
52.381
18.40
1.37
0.00
2.24
1005
1391
1.585006
CTTGTAGTCGCCGGTGAGT
59.415
57.895
27.45
27.45
0.00
3.41
1245
1631
2.754658
ACGGAGAAGACGCCCGAT
60.755
61.111
7.06
0.00
45.58
4.18
1354
1740
1.595993
CTGGACAGTCCCGACGATGT
61.596
60.000
17.59
0.00
35.03
3.06
1372
1758
2.362369
CCATGAGGGACACGAGGCT
61.362
63.158
0.00
0.00
40.01
4.58
1461
1847
1.428448
CGTGGTGCATCTCGAAGAAA
58.572
50.000
16.07
0.00
34.09
2.52
1551
1937
3.973516
ACGACGAAGCGGCTGTCA
61.974
61.111
17.38
0.00
35.12
3.58
1596
1982
4.099170
CCGGAGAAGACGTCGCGT
62.099
66.667
10.46
4.60
45.10
6.01
1761
2147
4.457810
GAATGTGATCAAACATATCGCCG
58.542
43.478
0.00
0.00
39.89
6.46
1773
2159
2.595095
GCCGGGGGAATGTGATCA
59.405
61.111
2.18
0.00
0.00
2.92
1861
3985
3.857052
CAGTAGGTACTCGCAATGGAAA
58.143
45.455
0.00
0.00
41.75
3.13
1864
3988
1.137086
AGCAGTAGGTACTCGCAATGG
59.863
52.381
11.58
0.00
41.75
3.16
1875
3999
7.857404
AATGATACTAATACCAGCAGTAGGT
57.143
36.000
0.00
0.00
43.14
3.08
1876
4000
8.993121
CAAAATGATACTAATACCAGCAGTAGG
58.007
37.037
0.00
0.00
33.42
3.18
1877
4001
9.547753
ACAAAATGATACTAATACCAGCAGTAG
57.452
33.333
0.00
0.00
33.42
2.57
1882
4060
9.542462
TCTACACAAAATGATACTAATACCAGC
57.458
33.333
0.00
0.00
0.00
4.85
1946
4162
9.973450
CTATAAAGCTTCTATTAGTGCTTCAGA
57.027
33.333
19.02
12.21
43.80
3.27
1947
4163
9.973450
TCTATAAAGCTTCTATTAGTGCTTCAG
57.027
33.333
19.02
16.57
43.80
3.02
1951
4167
9.137459
TGAGTCTATAAAGCTTCTATTAGTGCT
57.863
33.333
0.00
7.70
37.37
4.40
1971
4187
8.827177
TGACTATATTTGACGTTTTTGAGTCT
57.173
30.769
12.20
0.00
38.16
3.24
1992
4208
7.982354
GTCTAAGCTCTATGGTTTTGTATGACT
59.018
37.037
0.00
0.00
37.56
3.41
2003
4219
2.043227
GCCAGGTCTAAGCTCTATGGT
58.957
52.381
0.00
0.00
0.00
3.55
2102
4323
9.348476
TGTAGGCTTGTGCATTCAATATTTATA
57.652
29.630
0.00
0.00
41.91
0.98
2103
4324
8.236585
TGTAGGCTTGTGCATTCAATATTTAT
57.763
30.769
0.00
0.00
41.91
1.40
2104
4325
7.637631
TGTAGGCTTGTGCATTCAATATTTA
57.362
32.000
0.00
0.00
41.91
1.40
2189
4414
0.172578
ATTCGTCGTCTCGCCAATCA
59.827
50.000
0.00
0.00
0.00
2.57
2207
4432
2.196749
CTTCGCAGTATCTTGACGCAT
58.803
47.619
0.00
0.00
0.00
4.73
2291
4516
3.082548
GCCCTTAGACTTTTCAGAACCC
58.917
50.000
0.00
0.00
0.00
4.11
2306
4531
7.403813
TCCTCCTTTTTAGTACTATTGCCCTTA
59.596
37.037
2.79
0.00
0.00
2.69
2365
4590
0.601558
TCGTTCACCTCCCTCGAAAG
59.398
55.000
0.00
0.00
0.00
2.62
2447
4672
0.387929
TGGACCTAATTCCTAGCGCG
59.612
55.000
0.00
0.00
36.51
6.86
2449
4674
4.499183
GATGATGGACCTAATTCCTAGCG
58.501
47.826
0.00
0.00
36.51
4.26
2588
4813
2.048597
CAAGTAGGGCGCACACGA
60.049
61.111
14.57
0.00
43.93
4.35
2590
4815
2.033194
GGACAAGTAGGGCGCACAC
61.033
63.158
14.57
8.43
0.00
3.82
2594
4819
0.321298
TTGAAGGACAAGTAGGGCGC
60.321
55.000
0.00
0.00
34.20
6.53
2924
5160
4.543590
AGACCACAGAGAATTCAACGAT
57.456
40.909
8.44
0.00
0.00
3.73
2946
5182
1.205655
CTTCAGAGGTCGATGAAGGCA
59.794
52.381
15.63
0.00
45.61
4.75
2968
5204
1.063114
ACTAGTCTAGGCATCCCGGTT
60.063
52.381
11.61
0.00
35.76
4.44
2981
5217
7.943447
TCTTAGTAGTTTCTTGTCCACTAGTCT
59.057
37.037
0.00
0.00
30.77
3.24
3001
5237
3.994392
CGTGTGCCTATTTGTGTCTTAGT
59.006
43.478
0.00
0.00
0.00
2.24
3014
5250
2.223876
ACGTTTTCTTCTCGTGTGCCTA
60.224
45.455
0.00
0.00
36.46
3.93
3028
5264
4.923264
AGCTCTTTATTCGGACGTTTTC
57.077
40.909
0.00
0.00
0.00
2.29
3033
5269
3.712091
ACCTAGCTCTTTATTCGGACG
57.288
47.619
0.00
0.00
0.00
4.79
3052
5291
5.596845
TCAAATTGGGTACAAGCTTGAAAC
58.403
37.500
32.50
25.75
40.49
2.78
3099
5338
6.708949
ACCAAGAGATCTATCTAACTCGTCTC
59.291
42.308
0.00
0.00
37.25
3.36
3127
5366
6.071784
CCTTTCATCCACTGTGATCATTGAAA
60.072
38.462
9.86
13.81
0.00
2.69
3137
5376
2.227388
GTGCTTCCTTTCATCCACTGTG
59.773
50.000
0.00
0.00
0.00
3.66
3138
5377
2.158623
TGTGCTTCCTTTCATCCACTGT
60.159
45.455
0.00
0.00
0.00
3.55
3140
5379
2.107204
AGTGTGCTTCCTTTCATCCACT
59.893
45.455
0.00
0.00
0.00
4.00
3189
5428
7.233348
AGTGACCATGTACAAAGGAAATCAATT
59.767
33.333
20.82
6.87
0.00
2.32
3192
5431
5.630121
AGTGACCATGTACAAAGGAAATCA
58.370
37.500
20.82
12.79
0.00
2.57
3343
5584
4.258543
GTGGGTTCATTCTGTCGGAATAA
58.741
43.478
6.58
0.00
42.20
1.40
3403
5644
2.677199
TGCATCTCAACGAGAAGACAC
58.323
47.619
0.00
0.00
42.27
3.67
3412
5653
3.681417
TGTCTCTTTCATGCATCTCAACG
59.319
43.478
0.00
0.00
0.00
4.10
3430
5671
6.175471
TGAGCATCTTGAATGTTACATGTCT
58.825
36.000
0.00
0.00
34.92
3.41
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.