Multiple sequence alignment - TraesCS3A01G113600
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
TraesCS3A01G113600
chr3A
100.000
4134
0
0
1
4134
80690669
80686536
0.000000e+00
7635.0
1
TraesCS3A01G113600
chr3A
95.288
191
7
2
1370
1559
77542424
77542613
6.720000e-78
302.0
2
TraesCS3A01G113600
chr3D
94.895
3565
144
19
585
4134
69501385
69497844
0.000000e+00
5541.0
3
TraesCS3A01G113600
chr3D
91.331
496
34
3
1
487
69502203
69501708
0.000000e+00
669.0
4
TraesCS3A01G113600
chr3B
93.504
2617
116
35
1555
4134
115397975
115395376
0.000000e+00
3842.0
5
TraesCS3A01G113600
chr3B
94.823
792
35
4
584
1375
115398742
115397957
0.000000e+00
1230.0
6
TraesCS3A01G113600
chr3B
94.444
486
25
2
1
485
115399264
115398780
0.000000e+00
747.0
7
TraesCS3A01G113600
chr3B
96.277
188
6
1
1370
1556
368605653
368605466
1.440000e-79
307.0
8
TraesCS3A01G113600
chr3B
95.767
189
6
1
1363
1551
766145376
766145190
1.870000e-78
303.0
9
TraesCS3A01G113600
chr3B
92.771
83
6
0
1469
1551
29868844
29868762
2.020000e-23
121.0
10
TraesCS3A01G113600
chr1D
96.277
188
6
1
1370
1556
211684749
211684936
1.440000e-79
307.0
11
TraesCS3A01G113600
chr1B
96.277
188
6
1
1374
1561
70318388
70318574
1.440000e-79
307.0
12
TraesCS3A01G113600
chr1B
95.238
105
4
1
488
592
549902440
549902337
9.190000e-37
165.0
13
TraesCS3A01G113600
chr1B
88.043
92
5
6
1249
1337
493871965
493871877
2.030000e-18
104.0
14
TraesCS3A01G113600
chr1B
86.000
100
6
6
1245
1342
493871877
493871970
2.630000e-17
100.0
15
TraesCS3A01G113600
chr6D
96.216
185
7
0
1374
1558
95293872
95293688
1.870000e-78
303.0
16
TraesCS3A01G113600
chr7B
95.263
190
9
0
1374
1563
55865145
55864956
6.720000e-78
302.0
17
TraesCS3A01G113600
chr5B
94.792
192
8
2
1374
1565
573807748
573807559
8.690000e-77
298.0
18
TraesCS3A01G113600
chr5D
96.296
108
0
2
485
592
281848127
281848230
1.530000e-39
174.0
19
TraesCS3A01G113600
chr7D
89.157
83
8
1
1249
1330
119897077
119896995
7.310000e-18
102.0
20
TraesCS3A01G113600
chr7D
88.235
85
5
5
1249
1330
419793198
419793116
3.400000e-16
97.1
21
TraesCS3A01G113600
chr2D
89.286
84
5
4
1249
1330
459300641
459300560
7.310000e-18
102.0
22
TraesCS3A01G113600
chr2A
85.870
92
7
6
1249
1337
743987846
743987934
4.400000e-15
93.5
23
TraesCS3A01G113600
chr5A
83.495
103
9
8
1248
1345
444560941
444560842
5.690000e-14
89.8
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
TraesCS3A01G113600
chr3A
80686536
80690669
4133
True
7635.000000
7635
100.000
1
4134
1
chr3A.!!$R1
4133
1
TraesCS3A01G113600
chr3D
69497844
69502203
4359
True
3105.000000
5541
93.113
1
4134
2
chr3D.!!$R1
4133
2
TraesCS3A01G113600
chr3B
115395376
115399264
3888
True
1939.666667
3842
94.257
1
4134
3
chr3B.!!$R4
4133
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
37
38
0.387565
GCGATTTTGTTGGTGGGTGT
59.612
50.0
0.00
0.00
0.00
4.16
F
517
528
0.400213
CTGGTGTAGGGCTTGTCCAA
59.600
55.0
0.00
0.00
36.21
3.53
F
1411
1649
0.523519
GTGGTAAAGCTGCTGCCTTC
59.476
55.0
12.44
0.95
40.80
3.46
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
1459
1697
0.107654
ACGCAGCCTTTCCCTACATC
60.108
55.000
0.00
0.00
0.00
3.06
R
1519
1757
2.202932
ATGTAGCTCCCGCTTGCG
60.203
61.111
8.14
8.14
46.47
4.85
R
3136
3374
0.027455
TTTCAGCTTCGCACACGTTG
59.973
50.000
0.00
0.00
41.18
4.10
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
35
36
1.801309
CGGCGATTTTGTTGGTGGGT
61.801
55.000
0.00
0.00
0.00
4.51
37
38
0.387565
GCGATTTTGTTGGTGGGTGT
59.612
50.000
0.00
0.00
0.00
4.16
112
115
5.689383
TTAATCGGATTTGCTATTGCTCC
57.311
39.130
8.76
0.00
40.48
4.70
134
137
7.042119
GCTCCTCTAGATGAGAATTAACAAAGC
60.042
40.741
24.37
5.70
45.39
3.51
135
138
8.083828
TCCTCTAGATGAGAATTAACAAAGCT
57.916
34.615
0.00
0.00
45.39
3.74
145
148
9.162764
TGAGAATTAACAAAGCTACATCTAACC
57.837
33.333
0.00
0.00
0.00
2.85
163
166
9.224267
CATCTAACCCCTACATCATTTGATTAG
57.776
37.037
0.00
0.00
31.21
1.73
237
241
5.817816
CCAAATGGTGTAGGAGTTAGATGTC
59.182
44.000
0.00
0.00
0.00
3.06
331
335
6.978343
TCGTTTGGTATGTAAGAAGGATTG
57.022
37.500
0.00
0.00
0.00
2.67
457
468
0.610232
ATCAAAGGAGCAGTGTGCCC
60.610
55.000
0.00
0.00
46.52
5.36
501
512
9.559732
TTCCATCTTATCATGTAATTGTACTGG
57.440
33.333
0.00
0.00
0.00
4.00
502
513
8.713971
TCCATCTTATCATGTAATTGTACTGGT
58.286
33.333
0.00
0.00
0.00
4.00
503
514
8.777413
CCATCTTATCATGTAATTGTACTGGTG
58.223
37.037
0.00
0.00
0.00
4.17
508
519
5.984725
TCATGTAATTGTACTGGTGTAGGG
58.015
41.667
0.00
0.00
0.00
3.53
509
520
4.210724
TGTAATTGTACTGGTGTAGGGC
57.789
45.455
0.00
0.00
0.00
5.19
512
523
2.851263
TTGTACTGGTGTAGGGCTTG
57.149
50.000
0.00
0.00
0.00
4.01
513
524
1.724545
TGTACTGGTGTAGGGCTTGT
58.275
50.000
0.00
0.00
0.00
3.16
514
525
1.621814
TGTACTGGTGTAGGGCTTGTC
59.378
52.381
0.00
0.00
0.00
3.18
515
526
1.066358
GTACTGGTGTAGGGCTTGTCC
60.066
57.143
0.00
0.00
0.00
4.02
516
527
0.766674
ACTGGTGTAGGGCTTGTCCA
60.767
55.000
0.00
0.00
36.21
4.02
517
528
0.400213
CTGGTGTAGGGCTTGTCCAA
59.600
55.000
0.00
0.00
36.21
3.53
520
531
1.463674
GTGTAGGGCTTGTCCAATGG
58.536
55.000
0.00
0.00
36.21
3.16
521
532
1.072266
TGTAGGGCTTGTCCAATGGT
58.928
50.000
0.00
0.00
36.21
3.55
522
533
2.026636
GTGTAGGGCTTGTCCAATGGTA
60.027
50.000
0.00
0.00
36.21
3.25
523
534
2.026636
TGTAGGGCTTGTCCAATGGTAC
60.027
50.000
0.00
0.00
36.21
3.34
524
535
1.072266
AGGGCTTGTCCAATGGTACA
58.928
50.000
0.00
0.00
39.17
2.90
525
536
1.640670
AGGGCTTGTCCAATGGTACAT
59.359
47.619
0.00
0.00
39.36
2.29
526
537
1.750778
GGGCTTGTCCAATGGTACATG
59.249
52.381
0.00
6.33
39.36
3.21
527
538
2.446435
GGCTTGTCCAATGGTACATGT
58.554
47.619
2.69
2.69
37.85
3.21
528
539
2.164219
GGCTTGTCCAATGGTACATGTG
59.836
50.000
9.11
0.00
37.85
3.21
529
540
4.373055
GGCTTGTCCAATGGTACATGTGT
61.373
47.826
9.11
0.00
37.85
3.72
530
541
5.825660
GGCTTGTCCAATGGTACATGTGTT
61.826
45.833
9.11
0.00
37.85
3.32
539
550
4.691326
TGGTACATGTGTTGGACTTGTA
57.309
40.909
9.11
0.00
41.78
2.41
544
555
4.072131
ACATGTGTTGGACTTGTACATCC
58.928
43.478
8.35
8.35
40.30
3.51
545
556
3.134574
TGTGTTGGACTTGTACATCCC
57.865
47.619
12.07
7.26
33.69
3.85
546
557
2.708861
TGTGTTGGACTTGTACATCCCT
59.291
45.455
12.07
0.00
33.69
4.20
547
558
3.137544
TGTGTTGGACTTGTACATCCCTT
59.862
43.478
12.07
0.00
33.69
3.95
548
559
3.502211
GTGTTGGACTTGTACATCCCTTG
59.498
47.826
12.07
0.00
33.69
3.61
549
560
3.137544
TGTTGGACTTGTACATCCCTTGT
59.862
43.478
12.07
0.00
42.62
3.16
551
562
5.163184
TGTTGGACTTGTACATCCCTTGTAA
60.163
40.000
12.07
0.00
42.37
2.41
552
563
4.901868
TGGACTTGTACATCCCTTGTAAC
58.098
43.478
12.07
0.00
42.37
2.50
553
564
4.348461
TGGACTTGTACATCCCTTGTAACA
59.652
41.667
12.07
0.00
42.37
2.41
555
566
5.766174
GGACTTGTACATCCCTTGTAACAAA
59.234
40.000
4.38
0.00
42.37
2.83
556
567
6.293790
GGACTTGTACATCCCTTGTAACAAAC
60.294
42.308
4.38
0.00
42.37
2.93
558
569
6.485648
ACTTGTACATCCCTTGTAACAAACTC
59.514
38.462
0.00
0.00
42.37
3.01
559
570
5.310451
TGTACATCCCTTGTAACAAACTCC
58.690
41.667
0.00
0.00
42.37
3.85
560
571
4.724279
ACATCCCTTGTAACAAACTCCT
57.276
40.909
0.00
0.00
36.57
3.69
561
572
4.652822
ACATCCCTTGTAACAAACTCCTC
58.347
43.478
0.00
0.00
36.57
3.71
562
573
4.351111
ACATCCCTTGTAACAAACTCCTCT
59.649
41.667
0.00
0.00
36.57
3.69
563
574
5.546499
ACATCCCTTGTAACAAACTCCTCTA
59.454
40.000
0.00
0.00
36.57
2.43
564
575
6.043938
ACATCCCTTGTAACAAACTCCTCTAA
59.956
38.462
0.00
0.00
36.57
2.10
566
577
6.293698
TCCCTTGTAACAAACTCCTCTAAAC
58.706
40.000
0.00
0.00
0.00
2.01
567
578
5.472478
CCCTTGTAACAAACTCCTCTAAACC
59.528
44.000
0.00
0.00
0.00
3.27
568
579
5.472478
CCTTGTAACAAACTCCTCTAAACCC
59.528
44.000
0.00
0.00
0.00
4.11
569
580
4.976864
TGTAACAAACTCCTCTAAACCCC
58.023
43.478
0.00
0.00
0.00
4.95
570
581
3.520691
AACAAACTCCTCTAAACCCCC
57.479
47.619
0.00
0.00
0.00
5.40
669
907
9.020813
GTCGTACTTGCATATATGTACATATGG
57.979
37.037
30.35
23.72
38.69
2.74
693
931
9.790344
TGGATTTGTTTCAATTGTAATTTCCAT
57.210
25.926
5.13
0.00
0.00
3.41
748
986
1.661112
GATCTGAGTTTACGTGCTGCC
59.339
52.381
0.00
0.00
0.00
4.85
857
1095
3.963374
TGACTCCCTCCTGTCTATTCATG
59.037
47.826
0.00
0.00
34.57
3.07
883
1121
7.520119
TGTATCTTATGTCTTAACTTGTGCG
57.480
36.000
0.00
0.00
0.00
5.34
887
1125
5.404366
TCTTATGTCTTAACTTGTGCGACAC
59.596
40.000
3.44
3.44
37.43
3.67
970
1208
2.227388
CACTGCAGTTGAGTTTGGATCC
59.773
50.000
18.94
4.20
0.00
3.36
1213
1451
5.769662
TCAGTGGTGTTTAATCTGCTTGATT
59.230
36.000
9.68
9.68
46.22
2.57
1257
1495
6.999272
CAGTGTACATAGTACATACTCCCTCT
59.001
42.308
12.53
1.24
37.73
3.69
1268
1506
9.004231
AGTACATACTCCCTCTATCCAAAAATT
57.996
33.333
0.00
0.00
0.00
1.82
1322
1560
4.028993
ACCACGACACTTATTTTGGGAT
57.971
40.909
0.00
0.00
0.00
3.85
1326
1564
4.457603
CACGACACTTATTTTGGGATGGAA
59.542
41.667
0.00
0.00
0.00
3.53
1361
1599
7.398024
ACTATTGTTTTCTCCTGTGCTTCTAT
58.602
34.615
0.00
0.00
0.00
1.98
1411
1649
0.523519
GTGGTAAAGCTGCTGCCTTC
59.476
55.000
12.44
0.95
40.80
3.46
1459
1697
3.685139
TGGAAACAGCCTCTTACAGAG
57.315
47.619
0.00
0.00
37.73
3.35
1508
1746
0.605589
CAAAGTGGTCGGACCCTTCC
60.606
60.000
23.81
9.51
37.50
3.46
1509
1747
1.775934
AAAGTGGTCGGACCCTTCCC
61.776
60.000
23.81
7.17
38.99
3.97
1510
1748
3.714001
GTGGTCGGACCCTTCCCC
61.714
72.222
23.81
0.00
38.99
4.81
1517
1755
4.735599
GACCCTTCCCCGGACCCT
62.736
72.222
0.73
0.00
0.00
4.34
1570
1808
4.464947
CCCCCTTTCTATTCACAGATTCC
58.535
47.826
0.00
0.00
0.00
3.01
1713
1951
5.501413
CGTCACTGCTATTTCATGTTAGCTG
60.501
44.000
19.69
19.69
42.62
4.24
1855
2093
8.909423
TTTACTCCCCTTTCCATTTATCAAAT
57.091
30.769
0.00
0.00
0.00
2.32
2044
2282
8.877808
TCATGATTCATGAAGTACACTGATAC
57.122
34.615
23.72
0.00
46.17
2.24
2045
2283
8.477256
TCATGATTCATGAAGTACACTGATACA
58.523
33.333
23.72
0.00
46.17
2.29
2046
2284
8.762426
CATGATTCATGAAGTACACTGATACAG
58.238
37.037
19.84
0.00
43.81
2.74
2258
2496
1.318158
GCTGATGCTCCCCACAAAGG
61.318
60.000
0.00
0.00
36.03
3.11
2266
2504
2.199652
CCCCACAAAGGCGCTTGAA
61.200
57.895
15.47
0.00
35.39
2.69
2374
2612
1.666209
CGGTTGGTTCATCCCATGGC
61.666
60.000
6.09
0.00
33.60
4.40
2466
2704
1.204146
CTCCCCTCAATCGGAAGGAA
58.796
55.000
0.00
0.00
29.94
3.36
2569
2807
1.670811
CAAGTGACACGCAAAGGAAGT
59.329
47.619
0.00
0.00
0.00
3.01
2624
2862
1.168714
GGTGGATGTCTTCAAGCACC
58.831
55.000
0.00
0.00
30.29
5.01
2656
2894
7.510549
ACTTTACACCATTGATGTATATGGC
57.489
36.000
0.00
0.00
44.17
4.40
2662
2900
3.436704
CCATTGATGTATATGGCACGGTC
59.563
47.826
0.00
0.00
35.31
4.79
2764
3002
4.035208
CACTACCAACACCAGAAGTTCAAC
59.965
45.833
5.50
0.00
0.00
3.18
2791
3029
3.756727
GAGACCCCGTCCGGACAC
61.757
72.222
32.80
17.58
37.50
3.67
3007
3245
1.282570
CATGTGCGCGTTCAACCTT
59.717
52.632
8.43
0.00
0.00
3.50
3013
3251
1.868997
CGCGTTCAACCTTGAGCAT
59.131
52.632
0.00
0.00
38.17
3.79
3136
3374
6.540551
GGTTAATCCCTTCTCTGAAGTGATTC
59.459
42.308
16.84
7.85
0.00
2.52
3178
3416
4.042560
ACTGGCGTGTACCTATATCCTAGA
59.957
45.833
0.00
0.00
0.00
2.43
3195
3433
3.119209
CCTAGAAACCGGTACTCTGAACC
60.119
52.174
23.20
1.44
0.00
3.62
3196
3434
2.322658
AGAAACCGGTACTCTGAACCA
58.677
47.619
8.00
0.00
36.78
3.67
3198
3436
1.713297
AACCGGTACTCTGAACCACT
58.287
50.000
8.00
0.00
36.78
4.00
3201
3439
2.560105
ACCGGTACTCTGAACCACTTAC
59.440
50.000
4.49
0.00
36.78
2.34
3202
3440
2.415090
CCGGTACTCTGAACCACTTACG
60.415
54.545
0.00
0.00
36.78
3.18
3205
3443
4.095483
CGGTACTCTGAACCACTTACGTAT
59.905
45.833
0.00
0.00
36.78
3.06
3206
3444
5.294306
CGGTACTCTGAACCACTTACGTATA
59.706
44.000
0.00
0.00
36.78
1.47
3209
3447
6.830873
ACTCTGAACCACTTACGTATAACT
57.169
37.500
0.00
0.00
0.00
2.24
3210
3448
7.928307
ACTCTGAACCACTTACGTATAACTA
57.072
36.000
0.00
0.00
0.00
2.24
3211
3449
7.983307
ACTCTGAACCACTTACGTATAACTAG
58.017
38.462
0.00
0.00
0.00
2.57
3303
3544
1.608822
GTCGTTGCGTGTGTTTGTTT
58.391
45.000
0.00
0.00
0.00
2.83
3305
3546
1.979469
TCGTTGCGTGTGTTTGTTTTG
59.021
42.857
0.00
0.00
0.00
2.44
3356
3600
8.524487
TGTGTTTTTGGACAAAGTTGTATTACT
58.476
29.630
0.00
0.00
42.43
2.24
3370
3614
5.687166
TGTATTACTAGTCCTGGGTTTGG
57.313
43.478
0.00
0.00
0.00
3.28
3416
3662
3.003068
GCCAGTGACACATGCAGAATATC
59.997
47.826
8.59
0.00
0.00
1.63
3460
3709
1.814394
GACATGAGCAGTGCATTTCCA
59.186
47.619
19.20
7.22
0.00
3.53
3514
3763
3.976169
TGGTTTCTTGCGAATTTGGAAG
58.024
40.909
18.38
18.38
38.51
3.46
3544
3793
2.275318
CTCGGTCAGGAATTCAGAAGC
58.725
52.381
7.93
0.44
0.00
3.86
3554
3803
2.568623
ATTCAGAAGCCGGAAGTGTT
57.431
45.000
5.05
0.00
30.42
3.32
3556
3805
0.884704
TCAGAAGCCGGAAGTGTTGC
60.885
55.000
5.05
0.00
0.00
4.17
3561
3810
2.280524
CCGGAAGTGTTGCCGTGA
60.281
61.111
0.00
0.00
45.85
4.35
3562
3811
2.317609
CCGGAAGTGTTGCCGTGAG
61.318
63.158
0.00
0.00
45.85
3.51
3597
3850
1.814248
GCCGATTATCCCCGCTTCTTT
60.814
52.381
0.00
0.00
0.00
2.52
3598
3851
2.143925
CCGATTATCCCCGCTTCTTTC
58.856
52.381
0.00
0.00
0.00
2.62
3599
3852
2.143925
CGATTATCCCCGCTTCTTTCC
58.856
52.381
0.00
0.00
0.00
3.13
3684
3943
0.669318
GAGATCAACCCAACGCGTCA
60.669
55.000
14.44
0.00
0.00
4.35
3719
3978
0.332972
ATTCCCCACTTTCTCAGGCC
59.667
55.000
0.00
0.00
0.00
5.19
3747
4008
2.279120
CACCAGCTCGATCTCGCC
60.279
66.667
0.00
0.00
39.60
5.54
3976
4261
4.253257
GGAGCCTCGCCTACGTCG
62.253
72.222
0.00
0.00
41.18
5.12
4032
4317
2.186384
CTCGGGAAGCTGAGCCTG
59.814
66.667
0.00
0.00
0.00
4.85
4125
4410
3.115892
TTCGCCAACGTCATCGCC
61.116
61.111
0.00
0.00
41.18
5.54
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
14
15
0.386731
CCACCAACAAAATCGCCGAC
60.387
55.000
0.00
0.00
0.00
4.79
35
36
1.228003
AAATCAACGCGTCCCCACA
60.228
52.632
14.44
0.00
0.00
4.17
37
38
1.969064
CCAAATCAACGCGTCCCCA
60.969
57.895
14.44
0.00
0.00
4.96
106
109
7.423844
TGTTAATTCTCATCTAGAGGAGCAA
57.576
36.000
25.97
20.42
44.81
3.91
112
115
9.809096
TGTAGCTTTGTTAATTCTCATCTAGAG
57.191
33.333
0.00
0.00
46.14
2.43
134
137
7.735917
TCAAATGATGTAGGGGTTAGATGTAG
58.264
38.462
0.00
0.00
0.00
2.74
135
138
7.684317
TCAAATGATGTAGGGGTTAGATGTA
57.316
36.000
0.00
0.00
0.00
2.29
191
195
4.258543
GTTTTACACGGAGATTCATGGGA
58.741
43.478
0.00
0.00
0.00
4.37
196
200
5.048364
CCATTTGGTTTTACACGGAGATTCA
60.048
40.000
0.00
0.00
0.00
2.57
276
280
1.175983
GGCCACGGAATCACACCAAA
61.176
55.000
0.00
0.00
0.00
3.28
306
310
6.980051
ATCCTTCTTACATACCAAACGAAC
57.020
37.500
0.00
0.00
0.00
3.95
323
327
9.522804
TTAAACAACACAAATACACAATCCTTC
57.477
29.630
0.00
0.00
0.00
3.46
487
498
4.473559
AGCCCTACACCAGTACAATTACAT
59.526
41.667
0.00
0.00
0.00
2.29
488
499
3.841845
AGCCCTACACCAGTACAATTACA
59.158
43.478
0.00
0.00
0.00
2.41
491
502
3.073946
ACAAGCCCTACACCAGTACAATT
59.926
43.478
0.00
0.00
0.00
2.32
493
504
2.038033
GACAAGCCCTACACCAGTACAA
59.962
50.000
0.00
0.00
0.00
2.41
494
505
1.621814
GACAAGCCCTACACCAGTACA
59.378
52.381
0.00
0.00
0.00
2.90
495
506
1.066358
GGACAAGCCCTACACCAGTAC
60.066
57.143
0.00
0.00
0.00
2.73
496
507
1.272807
GGACAAGCCCTACACCAGTA
58.727
55.000
0.00
0.00
0.00
2.74
497
508
0.766674
TGGACAAGCCCTACACCAGT
60.767
55.000
0.00
0.00
34.97
4.00
498
509
0.400213
TTGGACAAGCCCTACACCAG
59.600
55.000
0.00
0.00
34.97
4.00
500
511
1.463674
CATTGGACAAGCCCTACACC
58.536
55.000
0.00
0.00
34.97
4.16
501
512
1.271926
ACCATTGGACAAGCCCTACAC
60.272
52.381
10.37
0.00
34.97
2.90
502
513
1.072266
ACCATTGGACAAGCCCTACA
58.928
50.000
10.37
0.00
34.97
2.74
503
514
2.026636
TGTACCATTGGACAAGCCCTAC
60.027
50.000
10.37
0.00
34.97
3.18
505
516
1.072266
TGTACCATTGGACAAGCCCT
58.928
50.000
10.37
0.00
34.97
5.19
508
519
2.819608
ACACATGTACCATTGGACAAGC
59.180
45.455
10.37
0.00
0.00
4.01
509
520
4.321156
CCAACACATGTACCATTGGACAAG
60.321
45.833
18.70
8.94
42.04
3.16
512
523
3.417101
TCCAACACATGTACCATTGGAC
58.583
45.455
20.72
4.12
42.99
4.02
513
524
3.073798
AGTCCAACACATGTACCATTGGA
59.926
43.478
20.72
20.72
45.07
3.53
514
525
3.420893
AGTCCAACACATGTACCATTGG
58.579
45.455
17.91
17.91
41.04
3.16
515
526
4.278170
ACAAGTCCAACACATGTACCATTG
59.722
41.667
0.00
1.27
35.12
2.82
516
527
4.469657
ACAAGTCCAACACATGTACCATT
58.530
39.130
0.00
0.00
35.12
3.16
517
528
4.098914
ACAAGTCCAACACATGTACCAT
57.901
40.909
0.00
0.00
35.12
3.55
521
532
5.242434
GGATGTACAAGTCCAACACATGTA
58.758
41.667
10.14
0.00
38.00
2.29
522
533
4.072131
GGATGTACAAGTCCAACACATGT
58.928
43.478
10.14
0.00
40.13
3.21
523
534
3.440173
GGGATGTACAAGTCCAACACATG
59.560
47.826
15.72
0.00
36.19
3.21
524
535
3.330701
AGGGATGTACAAGTCCAACACAT
59.669
43.478
15.72
0.00
36.19
3.21
525
536
2.708861
AGGGATGTACAAGTCCAACACA
59.291
45.455
15.72
0.00
36.19
3.72
526
537
3.418684
AGGGATGTACAAGTCCAACAC
57.581
47.619
15.72
0.80
36.19
3.32
527
538
3.137544
ACAAGGGATGTACAAGTCCAACA
59.862
43.478
15.72
0.00
41.63
3.33
528
539
3.751518
ACAAGGGATGTACAAGTCCAAC
58.248
45.455
15.72
1.73
41.63
3.77
529
540
5.163184
TGTTACAAGGGATGTACAAGTCCAA
60.163
40.000
15.72
0.68
44.11
3.53
530
541
4.348461
TGTTACAAGGGATGTACAAGTCCA
59.652
41.667
15.72
0.00
44.11
4.02
532
543
6.485648
AGTTTGTTACAAGGGATGTACAAGTC
59.514
38.462
0.00
0.00
44.11
3.01
533
544
6.362248
AGTTTGTTACAAGGGATGTACAAGT
58.638
36.000
0.00
0.00
44.11
3.16
534
545
6.072673
GGAGTTTGTTACAAGGGATGTACAAG
60.073
42.308
0.00
0.00
44.11
3.16
535
546
5.766174
GGAGTTTGTTACAAGGGATGTACAA
59.234
40.000
0.00
0.00
44.11
2.41
536
547
5.072600
AGGAGTTTGTTACAAGGGATGTACA
59.927
40.000
0.00
0.00
44.11
2.90
537
548
5.557866
AGGAGTTTGTTACAAGGGATGTAC
58.442
41.667
0.00
0.00
44.11
2.90
539
550
4.351111
AGAGGAGTTTGTTACAAGGGATGT
59.649
41.667
0.00
0.00
46.36
3.06
540
551
4.911390
AGAGGAGTTTGTTACAAGGGATG
58.089
43.478
0.00
0.00
0.00
3.51
544
555
5.472478
GGGTTTAGAGGAGTTTGTTACAAGG
59.528
44.000
0.00
0.00
0.00
3.61
545
556
5.472478
GGGGTTTAGAGGAGTTTGTTACAAG
59.528
44.000
0.00
0.00
0.00
3.16
546
557
5.379187
GGGGTTTAGAGGAGTTTGTTACAA
58.621
41.667
0.00
0.00
0.00
2.41
547
558
4.202493
GGGGGTTTAGAGGAGTTTGTTACA
60.202
45.833
0.00
0.00
0.00
2.41
548
559
4.330250
GGGGGTTTAGAGGAGTTTGTTAC
58.670
47.826
0.00
0.00
0.00
2.50
549
560
4.645863
GGGGGTTTAGAGGAGTTTGTTA
57.354
45.455
0.00
0.00
0.00
2.41
567
578
5.761234
CAGCATTTTCATTGATATTTGGGGG
59.239
40.000
0.00
0.00
0.00
5.40
568
579
5.761234
CCAGCATTTTCATTGATATTTGGGG
59.239
40.000
0.00
0.00
0.00
4.96
569
580
6.584488
TCCAGCATTTTCATTGATATTTGGG
58.416
36.000
0.00
0.00
0.00
4.12
570
581
7.494211
TCTCCAGCATTTTCATTGATATTTGG
58.506
34.615
0.00
0.00
0.00
3.28
571
582
9.193133
GATCTCCAGCATTTTCATTGATATTTG
57.807
33.333
0.00
0.00
0.00
2.32
573
584
8.577296
CAGATCTCCAGCATTTTCATTGATATT
58.423
33.333
0.00
0.00
0.00
1.28
574
585
7.176865
CCAGATCTCCAGCATTTTCATTGATAT
59.823
37.037
0.00
0.00
0.00
1.63
576
587
5.302059
CCAGATCTCCAGCATTTTCATTGAT
59.698
40.000
0.00
0.00
0.00
2.57
577
588
4.643334
CCAGATCTCCAGCATTTTCATTGA
59.357
41.667
0.00
0.00
0.00
2.57
579
590
4.607239
ACCAGATCTCCAGCATTTTCATT
58.393
39.130
0.00
0.00
0.00
2.57
580
591
4.246712
ACCAGATCTCCAGCATTTTCAT
57.753
40.909
0.00
0.00
0.00
2.57
582
593
5.065731
CAGTTACCAGATCTCCAGCATTTTC
59.934
44.000
0.00
0.00
0.00
2.29
583
594
4.946157
CAGTTACCAGATCTCCAGCATTTT
59.054
41.667
0.00
0.00
0.00
1.82
642
880
9.788960
CATATGTACATATATGCAAGTACGACT
57.211
33.333
24.50
0.00
39.63
4.18
693
931
8.197439
CAGATGACCTACATGTACTACATTTCA
58.803
37.037
0.08
0.00
36.53
2.69
748
986
0.787787
TAAACTTACGCTGCTGCACG
59.212
50.000
16.29
18.29
39.64
5.34
857
1095
7.898309
CGCACAAGTTAAGACATAAGATACAAC
59.102
37.037
0.00
0.00
0.00
3.32
874
1112
4.217035
TGCAGTGTCGCACAAGTT
57.783
50.000
11.58
0.00
36.86
2.66
883
1121
2.679837
CAACATATCCTGGTGCAGTGTC
59.320
50.000
0.00
0.00
35.33
3.67
970
1208
8.194104
ACTACAATAACTTCAGCTGATGTAGAG
58.806
37.037
36.49
26.10
40.72
2.43
1213
1451
9.587772
GTACACTGCTTTAAGATCTTCATTCTA
57.412
33.333
12.24
0.00
0.00
2.10
1257
1495
4.255301
ACGGCGACACTAATTTTTGGATA
58.745
39.130
16.62
0.00
0.00
2.59
1268
1506
3.367992
TTGAACTAAACGGCGACACTA
57.632
42.857
16.62
0.00
0.00
2.74
1322
1560
3.705051
ACAATAGTACTCCGTCCTTCCA
58.295
45.455
0.00
0.00
0.00
3.53
1326
1564
5.105432
GGAGAAAACAATAGTACTCCGTCCT
60.105
44.000
0.00
0.00
35.06
3.85
1361
1599
2.026822
GCTCCCCTTCAGAATCTGTGAA
60.027
50.000
10.36
0.00
32.61
3.18
1391
1629
0.895559
AAGGCAGCAGCTTTACCACC
60.896
55.000
0.00
0.00
38.40
4.61
1427
1665
2.749800
GCTGTTTCCAGGACTTGAACCT
60.750
50.000
0.00
0.00
39.22
3.50
1429
1667
1.609072
GGCTGTTTCCAGGACTTGAAC
59.391
52.381
0.00
0.00
39.22
3.18
1457
1695
1.808133
CGCAGCCTTTCCCTACATCTC
60.808
57.143
0.00
0.00
0.00
2.75
1459
1697
0.107654
ACGCAGCCTTTCCCTACATC
60.108
55.000
0.00
0.00
0.00
3.06
1516
1754
4.819761
TAGCTCCCGCTTGCGCAG
62.820
66.667
11.31
6.32
46.47
5.18
1519
1757
2.202932
ATGTAGCTCCCGCTTGCG
60.203
61.111
8.14
8.14
46.47
4.85
1570
1808
4.875536
TCATGGATAAACATGGTCAAGTCG
59.124
41.667
0.00
0.00
46.33
4.18
1648
1886
5.745227
AGAATGTTGGTAAGGATCGAATGT
58.255
37.500
0.00
0.00
0.00
2.71
1713
1951
2.746362
CAAAGACCATTCACCAGAGAGC
59.254
50.000
0.00
0.00
0.00
4.09
1821
2059
7.770366
TGGAAAGGGGAGTAAATAAGAAAAC
57.230
36.000
0.00
0.00
0.00
2.43
1855
2093
8.820831
TCCATTTAAGCTCATTTAATTTTGGGA
58.179
29.630
0.00
0.00
0.00
4.37
2258
2496
2.636768
AATTTAGCACCTTCAAGCGC
57.363
45.000
0.00
0.00
35.48
5.92
2301
2539
3.181454
ACTCGGGATATGGATGGTTTGAC
60.181
47.826
0.00
0.00
0.00
3.18
2466
2704
2.541907
ATGGCCTTGGACAGGTGCT
61.542
57.895
3.32
0.00
46.07
4.40
2569
2807
2.823984
TCGACAAACGACCAGCTTTTA
58.176
42.857
0.00
0.00
46.45
1.52
2624
2862
3.252215
TCAATGGTGTAAAGTTGCCTTCG
59.748
43.478
0.00
0.00
0.00
3.79
2662
2900
4.767255
GGCTCTGCCCACACCTCG
62.767
72.222
0.00
0.00
44.06
4.63
2788
3026
1.066143
CGCTTGACCCTTATGAGGTGT
60.066
52.381
2.39
0.17
41.85
4.16
2789
3027
1.656652
CGCTTGACCCTTATGAGGTG
58.343
55.000
2.39
0.00
41.85
4.00
2791
3029
0.815615
GGCGCTTGACCCTTATGAGG
60.816
60.000
7.64
0.00
43.15
3.86
3007
3245
1.993653
CTCCTTGGTCCCATGCTCA
59.006
57.895
0.00
0.00
0.00
4.26
3013
3251
0.970937
CTACGAGCTCCTTGGTCCCA
60.971
60.000
8.47
0.00
39.84
4.37
3136
3374
0.027455
TTTCAGCTTCGCACACGTTG
59.973
50.000
0.00
0.00
41.18
4.10
3178
3416
2.044758
AGTGGTTCAGAGTACCGGTTT
58.955
47.619
15.04
0.32
38.55
3.27
3314
3555
5.920193
AAACACAAGCCAGTTGCATATAT
57.080
34.783
0.00
0.00
44.83
0.86
3315
3556
5.720371
AAAACACAAGCCAGTTGCATATA
57.280
34.783
0.00
0.00
44.83
0.86
3356
3600
1.992557
AGAATGCCAAACCCAGGACTA
59.007
47.619
0.00
0.00
0.00
2.59
3357
3601
0.779997
AGAATGCCAAACCCAGGACT
59.220
50.000
0.00
0.00
0.00
3.85
3360
3604
2.583472
GGAGAATGCCAAACCCAGG
58.417
57.895
0.00
0.00
0.00
4.45
3370
3614
0.106967
GGGACAAGGAGGGAGAATGC
60.107
60.000
0.00
0.00
0.00
3.56
3416
3662
1.575244
CCACACAGATATGCGACCAG
58.425
55.000
0.00
0.00
0.00
4.00
3514
3763
1.891150
TCCTGACCGAGTGGAAGTTAC
59.109
52.381
0.00
0.00
39.21
2.50
3599
3852
3.788766
CTGCTCGGAAAACGCGGG
61.789
66.667
12.47
0.00
43.86
6.13
3625
3878
3.565902
GGTTGGCTTATATTGGACAGAGC
59.434
47.826
0.00
0.00
0.00
4.09
3684
3943
2.438385
GAATGGCGACGCACGTGTTT
62.438
55.000
23.09
3.83
44.60
2.83
3696
3955
0.322456
TGAGAAAGTGGGGAATGGCG
60.322
55.000
0.00
0.00
0.00
5.69
3728
3989
2.279120
CGAGATCGAGCTGGTGCC
60.279
66.667
8.50
0.00
43.02
5.01
3976
4261
2.801679
CGAGGAGATAGTAGGTGACGAC
59.198
54.545
0.00
0.00
36.03
4.34
3990
4275
2.113433
GTAGAGCACGGCGAGGAGA
61.113
63.158
16.62
0.00
0.00
3.71
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.