Multiple sequence alignment - TraesCS6B01G136000
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
TraesCS6B01G136000
chr6B
100.000
3254
0
0
1
3254
133347751
133351004
0.000000e+00
6010.0
1
TraesCS6B01G136000
chr6B
91.079
1334
66
29
1952
3253
133447377
133446065
0.000000e+00
1755.0
2
TraesCS6B01G136000
chr6B
93.744
1103
53
9
861
1956
133451828
133450735
0.000000e+00
1640.0
3
TraesCS6B01G136000
chr6A
90.689
1815
115
22
917
2692
76100128
76098329
0.000000e+00
2366.0
4
TraesCS6B01G136000
chr6A
89.100
789
81
4
1
789
29170692
29169909
0.000000e+00
976.0
5
TraesCS6B01G136000
chr6A
88.761
783
86
2
1
783
486383215
486383995
0.000000e+00
957.0
6
TraesCS6B01G136000
chr6A
91.923
520
30
7
2737
3253
76098028
76097518
0.000000e+00
717.0
7
TraesCS6B01G136000
chr6A
86.293
321
43
1
464
784
592804433
592804752
6.680000e-92
348.0
8
TraesCS6B01G136000
chr6D
93.359
1536
72
19
850
2374
59747558
59746042
0.000000e+00
2244.0
9
TraesCS6B01G136000
chr6D
88.537
663
41
13
2527
3158
59746039
59745381
0.000000e+00
771.0
10
TraesCS6B01G136000
chr6D
94.737
38
2
0
2565
2602
135459604
135459641
3.510000e-05
60.2
11
TraesCS6B01G136000
chr4A
91.176
782
67
2
1
782
552270836
552271615
0.000000e+00
1061.0
12
TraesCS6B01G136000
chr5D
89.514
782
81
1
3
784
440926631
440925851
0.000000e+00
989.0
13
TraesCS6B01G136000
chr5D
85.496
131
16
3
2378
2507
150835723
150835595
2.040000e-27
134.0
14
TraesCS6B01G136000
chr3A
87.883
784
91
4
1
783
456805536
456806316
0.000000e+00
918.0
15
TraesCS6B01G136000
chr7B
87.468
782
96
2
1
782
493222790
493223569
0.000000e+00
900.0
16
TraesCS6B01G136000
chr7B
82.550
149
21
4
2369
2514
60244541
60244395
3.410000e-25
126.0
17
TraesCS6B01G136000
chr5B
87.229
783
98
2
1
783
94082941
94083721
0.000000e+00
891.0
18
TraesCS6B01G136000
chr1B
86.589
768
102
1
3
770
477490074
477490840
0.000000e+00
846.0
19
TraesCS6B01G136000
chr7D
90.526
380
33
2
403
782
632761039
632760663
1.740000e-137
499.0
20
TraesCS6B01G136000
chr2A
86.508
126
12
5
2382
2505
58152971
58153093
2.040000e-27
134.0
21
TraesCS6B01G136000
chr7A
83.562
146
19
4
2364
2506
719012429
719012572
7.330000e-27
132.0
22
TraesCS6B01G136000
chr7A
82.877
146
20
4
2364
2506
719286298
719286441
3.410000e-25
126.0
23
TraesCS6B01G136000
chr5A
83.803
142
15
7
2373
2510
350268564
350268427
9.480000e-26
128.0
24
TraesCS6B01G136000
chr5A
94.872
39
2
0
2565
2603
471304197
471304235
9.750000e-06
62.1
25
TraesCS6B01G136000
chr4B
83.333
138
19
3
2372
2507
453048505
453048640
1.230000e-24
124.0
26
TraesCS6B01G136000
chrUn
94.737
38
2
0
2565
2602
216513763
216513800
3.510000e-05
60.2
27
TraesCS6B01G136000
chrUn
94.737
38
2
0
2565
2602
286269620
286269583
3.510000e-05
60.2
28
TraesCS6B01G136000
chrUn
94.737
38
2
0
2565
2602
379971536
379971573
3.510000e-05
60.2
29
TraesCS6B01G136000
chrUn
94.737
38
2
0
2565
2602
410662031
410661994
3.510000e-05
60.2
30
TraesCS6B01G136000
chrUn
94.737
38
2
0
2565
2602
418329323
418329360
3.510000e-05
60.2
31
TraesCS6B01G136000
chrUn
94.737
38
2
0
2565
2602
420150264
420150227
3.510000e-05
60.2
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
TraesCS6B01G136000
chr6B
133347751
133351004
3253
False
6010.0
6010
100.0000
1
3254
1
chr6B.!!$F1
3253
1
TraesCS6B01G136000
chr6B
133446065
133451828
5763
True
1697.5
1755
92.4115
861
3253
2
chr6B.!!$R1
2392
2
TraesCS6B01G136000
chr6A
76097518
76100128
2610
True
1541.5
2366
91.3060
917
3253
2
chr6A.!!$R2
2336
3
TraesCS6B01G136000
chr6A
29169909
29170692
783
True
976.0
976
89.1000
1
789
1
chr6A.!!$R1
788
4
TraesCS6B01G136000
chr6A
486383215
486383995
780
False
957.0
957
88.7610
1
783
1
chr6A.!!$F1
782
5
TraesCS6B01G136000
chr6D
59745381
59747558
2177
True
1507.5
2244
90.9480
850
3158
2
chr6D.!!$R1
2308
6
TraesCS6B01G136000
chr4A
552270836
552271615
779
False
1061.0
1061
91.1760
1
782
1
chr4A.!!$F1
781
7
TraesCS6B01G136000
chr5D
440925851
440926631
780
True
989.0
989
89.5140
3
784
1
chr5D.!!$R2
781
8
TraesCS6B01G136000
chr3A
456805536
456806316
780
False
918.0
918
87.8830
1
783
1
chr3A.!!$F1
782
9
TraesCS6B01G136000
chr7B
493222790
493223569
779
False
900.0
900
87.4680
1
782
1
chr7B.!!$F1
781
10
TraesCS6B01G136000
chr5B
94082941
94083721
780
False
891.0
891
87.2290
1
783
1
chr5B.!!$F1
782
11
TraesCS6B01G136000
chr1B
477490074
477490840
766
False
846.0
846
86.5890
3
770
1
chr1B.!!$F1
767
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
542
545
0.438445
CACTTTTTCGCGCTCGATGA
59.562
50.0
5.56
0.0
45.04
2.92
F
1021
1051
0.109272
GCAGACCGATGTCGACAGAA
60.109
55.0
24.41
0.0
46.51
3.02
F
1113
1146
0.970427
TCCACTACAGCATCCTCGCA
60.970
55.0
0.00
0.0
0.00
5.10
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
1512
1546
0.895530
CGAGGTGGTAGCTTTCCTGA
59.104
55.000
0.00
0.00
0.0
3.86
R
1843
1880
1.439228
CTGACACCATCGCGATCCT
59.561
57.895
20.85
3.62
0.0
3.24
R
2611
6032
1.923148
CCACTCCCCTGAAATAACCCT
59.077
52.381
0.00
0.00
0.0
4.34
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
86
87
1.266989
GCGACCCAAGGTTTCAAGAAG
59.733
52.381
0.00
0.00
35.25
2.85
91
92
2.294512
CCCAAGGTTTCAAGAAGCTGAC
59.705
50.000
0.00
0.00
0.00
3.51
168
169
6.506500
AACACATGATAAGGAAAGCTCAAG
57.493
37.500
0.00
0.00
0.00
3.02
171
172
4.205587
CATGATAAGGAAAGCTCAAGCCT
58.794
43.478
0.00
0.00
43.38
4.58
182
185
2.373502
AGCTCAAGCCTAGTCCAGTTTT
59.626
45.455
0.00
0.00
43.38
2.43
183
186
3.149981
GCTCAAGCCTAGTCCAGTTTTT
58.850
45.455
0.00
0.00
34.31
1.94
198
201
4.697352
CCAGTTTTTGAGATCGATCAAGGT
59.303
41.667
26.47
6.38
40.16
3.50
245
248
0.890996
GGAGCACACCAAAGTCCTGG
60.891
60.000
0.00
0.00
42.68
4.45
253
256
1.224592
CAAAGTCCTGGCCGGCTAT
59.775
57.895
28.56
0.94
0.00
2.97
275
278
3.003763
GGAGACCGCCTGAGGGTT
61.004
66.667
0.00
0.00
38.07
4.11
279
282
1.209747
GAGACCGCCTGAGGGTTATTT
59.790
52.381
0.00
0.00
38.07
1.40
344
347
2.692368
GGGGTGCAGGAGGGATCA
60.692
66.667
0.00
0.00
0.00
2.92
475
478
2.262915
CGAGGCTTCCTGCGAGTT
59.737
61.111
0.00
0.00
44.05
3.01
499
502
1.067295
TGGAGGTTGACTGCAAGGAT
58.933
50.000
0.00
0.00
45.18
3.24
504
507
2.906389
AGGTTGACTGCAAGGATGTAGA
59.094
45.455
0.90
0.00
41.33
2.59
542
545
0.438445
CACTTTTTCGCGCTCGATGA
59.562
50.000
5.56
0.00
45.04
2.92
557
560
2.222678
TCGATGATAGCGTCCGTTCTAC
59.777
50.000
0.00
0.00
0.00
2.59
570
573
5.124645
GTCCGTTCTACTGGAGATAGAAGA
58.875
45.833
0.00
0.00
38.91
2.87
577
580
6.901300
TCTACTGGAGATAGAAGAACTAGCA
58.099
40.000
0.00
0.00
39.63
3.49
630
633
9.686683
AACATGTATCTAGAAAAGCCAATACTT
57.313
29.630
0.00
0.00
0.00
2.24
639
642
0.995024
AGCCAATACTTCAGCCCACT
59.005
50.000
0.00
0.00
0.00
4.00
674
677
1.878948
GCTTGCACGTTAGGGGTTACA
60.879
52.381
0.00
0.00
0.00
2.41
705
708
2.999928
TGGACTCCCCTCCTAGTTTTT
58.000
47.619
0.00
0.00
35.38
1.94
726
729
6.624352
TTTTCATGACTAGCATTATGGCTC
57.376
37.500
0.00
0.00
44.54
4.70
761
764
9.336171
GGAGCTAGAGATGATTGAATAAAGTTT
57.664
33.333
0.00
0.00
0.00
2.66
774
777
6.399743
TGAATAAAGTTTTTATTTCCCCGCC
58.600
36.000
7.89
0.00
0.00
6.13
800
803
4.953940
AAAAAGTCTAGCCATGCCAAAA
57.046
36.364
0.00
0.00
0.00
2.44
801
804
3.942130
AAAGTCTAGCCATGCCAAAAC
57.058
42.857
0.00
0.00
0.00
2.43
802
805
2.584835
AGTCTAGCCATGCCAAAACA
57.415
45.000
0.00
0.00
0.00
2.83
803
806
2.162681
AGTCTAGCCATGCCAAAACAC
58.837
47.619
0.00
0.00
0.00
3.32
804
807
1.885887
GTCTAGCCATGCCAAAACACA
59.114
47.619
0.00
0.00
0.00
3.72
805
808
2.295909
GTCTAGCCATGCCAAAACACAA
59.704
45.455
0.00
0.00
0.00
3.33
806
809
2.295909
TCTAGCCATGCCAAAACACAAC
59.704
45.455
0.00
0.00
0.00
3.32
807
810
0.829333
AGCCATGCCAAAACACAACA
59.171
45.000
0.00
0.00
0.00
3.33
808
811
0.936600
GCCATGCCAAAACACAACAC
59.063
50.000
0.00
0.00
0.00
3.32
809
812
1.207390
CCATGCCAAAACACAACACG
58.793
50.000
0.00
0.00
0.00
4.49
810
813
0.576328
CATGCCAAAACACAACACGC
59.424
50.000
0.00
0.00
0.00
5.34
811
814
0.529555
ATGCCAAAACACAACACGCC
60.530
50.000
0.00
0.00
0.00
5.68
812
815
2.227568
GCCAAAACACAACACGCCG
61.228
57.895
0.00
0.00
0.00
6.46
813
816
2.227568
CCAAAACACAACACGCCGC
61.228
57.895
0.00
0.00
0.00
6.53
814
817
1.515088
CAAAACACAACACGCCGCA
60.515
52.632
0.00
0.00
0.00
5.69
815
818
1.515304
AAAACACAACACGCCGCAC
60.515
52.632
0.00
0.00
0.00
5.34
816
819
2.875684
AAAACACAACACGCCGCACC
62.876
55.000
0.00
0.00
0.00
5.01
820
823
3.893763
CAACACGCCGCACCCAAA
61.894
61.111
0.00
0.00
0.00
3.28
821
824
3.894947
AACACGCCGCACCCAAAC
61.895
61.111
0.00
0.00
0.00
2.93
822
825
4.868116
ACACGCCGCACCCAAACT
62.868
61.111
0.00
0.00
0.00
2.66
823
826
4.326766
CACGCCGCACCCAAACTG
62.327
66.667
0.00
0.00
0.00
3.16
824
827
4.555709
ACGCCGCACCCAAACTGA
62.556
61.111
0.00
0.00
0.00
3.41
825
828
3.283684
CGCCGCACCCAAACTGAA
61.284
61.111
0.00
0.00
0.00
3.02
826
829
2.335011
GCCGCACCCAAACTGAAC
59.665
61.111
0.00
0.00
0.00
3.18
827
830
3.039134
CCGCACCCAAACTGAACC
58.961
61.111
0.00
0.00
0.00
3.62
828
831
2.637025
CGCACCCAAACTGAACCG
59.363
61.111
0.00
0.00
0.00
4.44
829
832
1.890041
CGCACCCAAACTGAACCGA
60.890
57.895
0.00
0.00
0.00
4.69
830
833
1.440938
CGCACCCAAACTGAACCGAA
61.441
55.000
0.00
0.00
0.00
4.30
831
834
0.958822
GCACCCAAACTGAACCGAAT
59.041
50.000
0.00
0.00
0.00
3.34
832
835
2.156098
GCACCCAAACTGAACCGAATA
58.844
47.619
0.00
0.00
0.00
1.75
833
836
2.095415
GCACCCAAACTGAACCGAATAC
60.095
50.000
0.00
0.00
0.00
1.89
834
837
3.408634
CACCCAAACTGAACCGAATACT
58.591
45.455
0.00
0.00
0.00
2.12
835
838
3.188460
CACCCAAACTGAACCGAATACTG
59.812
47.826
0.00
0.00
0.00
2.74
836
839
2.747446
CCCAAACTGAACCGAATACTGG
59.253
50.000
0.00
0.00
0.00
4.00
837
840
3.408634
CCAAACTGAACCGAATACTGGT
58.591
45.455
0.00
0.00
42.98
4.00
842
845
3.148340
AACCGAATACTGGTTCCGC
57.852
52.632
0.00
0.00
46.61
5.54
843
846
0.738412
AACCGAATACTGGTTCCGCG
60.738
55.000
0.00
0.00
46.61
6.46
844
847
2.522638
CCGAATACTGGTTCCGCGC
61.523
63.158
0.00
0.00
0.00
6.86
845
848
2.856346
CGAATACTGGTTCCGCGCG
61.856
63.158
25.67
25.67
0.00
6.86
846
849
3.151673
GAATACTGGTTCCGCGCGC
62.152
63.158
27.36
23.91
0.00
6.86
847
850
3.943479
AATACTGGTTCCGCGCGCA
62.943
57.895
32.61
16.27
0.00
6.09
865
868
1.115467
CAGCTCCTATCCCGACAGTT
58.885
55.000
0.00
0.00
0.00
3.16
886
890
2.703536
TGCTGCTTTATAGGGATCCGAA
59.296
45.455
5.45
0.00
0.00
4.30
895
899
4.886121
GGATCCGAACGACCCGGC
62.886
72.222
0.00
0.00
46.10
6.13
907
911
4.939368
CCCGGCCCGAACACAACA
62.939
66.667
3.71
0.00
0.00
3.33
945
950
1.131638
TCCCAAGACTGACAGCAACT
58.868
50.000
1.25
0.00
0.00
3.16
979
993
0.444651
CGCCGCCAACGAAAAAGATA
59.555
50.000
0.00
0.00
43.93
1.98
980
994
1.529010
CGCCGCCAACGAAAAAGATAG
60.529
52.381
0.00
0.00
43.93
2.08
981
995
1.202143
GCCGCCAACGAAAAAGATAGG
60.202
52.381
0.00
0.00
43.93
2.57
982
996
1.400494
CCGCCAACGAAAAAGATAGGG
59.600
52.381
0.00
0.00
43.93
3.53
983
997
1.202143
CGCCAACGAAAAAGATAGGGC
60.202
52.381
0.00
0.00
43.93
5.19
984
998
1.816224
GCCAACGAAAAAGATAGGGCA
59.184
47.619
0.00
0.00
39.88
5.36
985
999
2.159379
GCCAACGAAAAAGATAGGGCAG
60.159
50.000
0.00
0.00
39.88
4.85
986
1000
3.343617
CCAACGAAAAAGATAGGGCAGA
58.656
45.455
0.00
0.00
0.00
4.26
987
1001
3.375299
CCAACGAAAAAGATAGGGCAGAG
59.625
47.826
0.00
0.00
0.00
3.35
988
1002
4.253685
CAACGAAAAAGATAGGGCAGAGA
58.746
43.478
0.00
0.00
0.00
3.10
989
1003
4.130286
ACGAAAAAGATAGGGCAGAGAG
57.870
45.455
0.00
0.00
0.00
3.20
990
1004
3.515901
ACGAAAAAGATAGGGCAGAGAGT
59.484
43.478
0.00
0.00
0.00
3.24
991
1005
4.710375
ACGAAAAAGATAGGGCAGAGAGTA
59.290
41.667
0.00
0.00
0.00
2.59
992
1006
5.163499
ACGAAAAAGATAGGGCAGAGAGTAG
60.163
44.000
0.00
0.00
0.00
2.57
993
1007
5.067936
CGAAAAAGATAGGGCAGAGAGTAGA
59.932
44.000
0.00
0.00
0.00
2.59
994
1008
6.478512
AAAAAGATAGGGCAGAGAGTAGAG
57.521
41.667
0.00
0.00
0.00
2.43
1021
1051
0.109272
GCAGACCGATGTCGACAGAA
60.109
55.000
24.41
0.00
46.51
3.02
1024
1054
1.611977
AGACCGATGTCGACAGAACAA
59.388
47.619
24.41
0.00
46.51
2.83
1113
1146
0.970427
TCCACTACAGCATCCTCGCA
60.970
55.000
0.00
0.00
0.00
5.10
1392
1426
1.374758
CACGAGCGGCCTTCTTCTT
60.375
57.895
0.00
0.00
0.00
2.52
2290
5698
3.710677
CTCTCCATCTCCATCTCAAGGTT
59.289
47.826
0.00
0.00
0.00
3.50
2334
5742
1.604755
ACTCGATCATCGCAGGTACTC
59.395
52.381
0.80
0.00
40.21
2.59
2337
5745
2.030805
TCGATCATCGCAGGTACTCATG
60.031
50.000
0.80
0.00
40.21
3.07
2380
5788
7.174253
ACTTTTCAGCTATCTATCTACCTCTCG
59.826
40.741
0.00
0.00
0.00
4.04
2429
5837
9.932207
TTAGAGATTTCAATACGGACTACAAAA
57.068
29.630
0.00
0.00
0.00
2.44
2611
6032
7.663905
TGATTTTACGGAATCTCAAAGAGGAAA
59.336
33.333
9.01
0.00
37.04
3.13
2629
6051
3.011369
GGAAAGGGTTATTTCAGGGGAGT
59.989
47.826
2.05
0.00
40.29
3.85
2689
6234
9.060347
CCTGCAGAATCTAATGTACATGTTTAT
57.940
33.333
17.39
0.00
0.00
1.40
2792
6486
1.077787
CTGCTGGCCCGATGGTTTA
60.078
57.895
0.00
0.00
0.00
2.01
2793
6487
1.077787
TGCTGGCCCGATGGTTTAG
60.078
57.895
0.00
0.00
0.00
1.85
2794
6488
2.481471
GCTGGCCCGATGGTTTAGC
61.481
63.158
0.00
0.00
0.00
3.09
2830
6524
1.616872
CTGCGTTTTTGGCCATTCGC
61.617
55.000
25.88
25.88
43.14
4.70
2844
6538
2.958355
CCATTCGCTTATGGGGATTTGT
59.042
45.455
6.15
0.00
41.18
2.83
2845
6539
4.141287
CCATTCGCTTATGGGGATTTGTA
58.859
43.478
6.15
0.00
41.18
2.41
2889
6592
4.349048
TCATGGTAGGCTTGATCTTGCTAT
59.651
41.667
0.00
3.45
0.00
2.97
2948
6652
7.645058
AAGGGTACATGAGGTGATAAAATTG
57.355
36.000
0.00
0.00
0.00
2.32
3178
6888
5.032846
AGATTGTACTTGAATGAGGAGGGA
58.967
41.667
0.00
0.00
0.00
4.20
3181
6892
1.589414
ACTTGAATGAGGAGGGAGGG
58.411
55.000
0.00
0.00
0.00
4.30
3182
6893
1.203492
ACTTGAATGAGGAGGGAGGGT
60.203
52.381
0.00
0.00
0.00
4.34
3183
6894
1.211457
CTTGAATGAGGAGGGAGGGTG
59.789
57.143
0.00
0.00
0.00
4.61
3184
6895
0.621571
TGAATGAGGAGGGAGGGTGG
60.622
60.000
0.00
0.00
0.00
4.61
3185
6896
1.308216
AATGAGGAGGGAGGGTGGG
60.308
63.158
0.00
0.00
0.00
4.61
3186
6897
1.837533
AATGAGGAGGGAGGGTGGGA
61.838
60.000
0.00
0.00
0.00
4.37
3226
6937
1.807165
GCTCTCGCAAGCGACATCA
60.807
57.895
13.74
0.00
44.01
3.07
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
26
27
1.003580
TGTTTCTGGGTGGAGATCAGC
59.996
52.381
0.00
0.00
42.74
4.26
50
51
2.032808
GGTCGCAAAGAATATCCTTCGC
60.033
50.000
0.00
0.00
0.00
4.70
86
87
2.531522
ACAATTTTTGCCCTGTCAGC
57.468
45.000
0.00
0.00
0.00
4.26
91
92
4.942852
TCACAGTAACAATTTTTGCCCTG
58.057
39.130
0.00
0.00
0.00
4.45
140
141
7.280876
TGAGCTTTCCTTATCATGTGTTATGTC
59.719
37.037
0.00
0.00
0.00
3.06
168
169
3.619038
CGATCTCAAAAACTGGACTAGGC
59.381
47.826
0.00
0.00
0.00
3.93
171
172
6.280855
TGATCGATCTCAAAAACTGGACTA
57.719
37.500
25.02
0.00
0.00
2.59
182
185
3.616956
AGCAACCTTGATCGATCTCAA
57.383
42.857
25.02
13.44
34.14
3.02
183
186
3.616956
AAGCAACCTTGATCGATCTCA
57.383
42.857
25.02
11.64
0.00
3.27
198
201
0.536233
TTCTAGCACCGCCAAAGCAA
60.536
50.000
0.00
0.00
39.83
3.91
245
248
1.523938
GTCTCCAACCATAGCCGGC
60.524
63.158
21.89
21.89
0.00
6.13
265
268
7.781056
TGATTTTAATCAAATAACCCTCAGGC
58.219
34.615
2.77
0.00
42.11
4.85
279
282
6.209192
ACCTGCATCAGTGTTGATTTTAATCA
59.791
34.615
5.35
1.12
42.12
2.57
320
323
1.497309
CCTCCTGCACCCCCTTTACA
61.497
60.000
0.00
0.00
0.00
2.41
425
428
0.681733
AGAACACCATCACGCAGAGT
59.318
50.000
0.00
0.00
0.00
3.24
475
478
0.836606
TGCAGTCAACCTCCAGAACA
59.163
50.000
0.00
0.00
0.00
3.18
499
502
0.830444
AAGCCCACAGGTCGTCTACA
60.830
55.000
0.00
0.00
34.57
2.74
542
545
1.948145
CTCCAGTAGAACGGACGCTAT
59.052
52.381
0.00
0.00
0.00
2.97
548
551
5.369409
TCTTCTATCTCCAGTAGAACGGA
57.631
43.478
0.00
0.00
37.89
4.69
557
560
9.023962
AGATAATGCTAGTTCTTCTATCTCCAG
57.976
37.037
0.00
0.00
0.00
3.86
606
609
9.330063
TGAAGTATTGGCTTTTCTAGATACATG
57.670
33.333
0.00
0.00
0.00
3.21
662
665
2.817844
CCAGCAACTTGTAACCCCTAAC
59.182
50.000
0.00
0.00
0.00
2.34
705
708
5.294734
TGAGCCATAATGCTAGTCATGAA
57.705
39.130
0.00
0.00
42.95
2.57
726
729
3.258622
TCATCTCTAGCTCCTGCATGATG
59.741
47.826
0.00
0.00
42.74
3.07
784
787
1.885887
TGTGTTTTGGCATGGCTAGAC
59.114
47.619
21.08
17.85
0.00
2.59
786
789
2.035704
TGTTGTGTTTTGGCATGGCTAG
59.964
45.455
21.08
0.00
0.00
3.42
787
790
2.034878
TGTTGTGTTTTGGCATGGCTA
58.965
42.857
21.08
10.42
0.00
3.93
788
791
0.829333
TGTTGTGTTTTGGCATGGCT
59.171
45.000
21.08
0.00
0.00
4.75
789
792
0.936600
GTGTTGTGTTTTGGCATGGC
59.063
50.000
13.29
13.29
0.00
4.40
790
793
1.207390
CGTGTTGTGTTTTGGCATGG
58.793
50.000
0.00
0.00
0.00
3.66
791
794
0.576328
GCGTGTTGTGTTTTGGCATG
59.424
50.000
0.00
0.00
0.00
4.06
792
795
0.529555
GGCGTGTTGTGTTTTGGCAT
60.530
50.000
0.00
0.00
0.00
4.40
793
796
1.153745
GGCGTGTTGTGTTTTGGCA
60.154
52.632
0.00
0.00
0.00
4.92
794
797
2.227568
CGGCGTGTTGTGTTTTGGC
61.228
57.895
0.00
0.00
0.00
4.52
795
798
2.227568
GCGGCGTGTTGTGTTTTGG
61.228
57.895
9.37
0.00
0.00
3.28
796
799
1.515088
TGCGGCGTGTTGTGTTTTG
60.515
52.632
9.37
0.00
0.00
2.44
797
800
1.515304
GTGCGGCGTGTTGTGTTTT
60.515
52.632
9.37
0.00
0.00
2.43
798
801
2.101380
GTGCGGCGTGTTGTGTTT
59.899
55.556
9.37
0.00
0.00
2.83
799
802
3.883180
GGTGCGGCGTGTTGTGTT
61.883
61.111
9.37
0.00
0.00
3.32
803
806
3.893763
TTTGGGTGCGGCGTGTTG
61.894
61.111
9.37
0.00
0.00
3.33
804
807
3.894947
GTTTGGGTGCGGCGTGTT
61.895
61.111
9.37
0.00
0.00
3.32
805
808
4.868116
AGTTTGGGTGCGGCGTGT
62.868
61.111
9.37
0.00
0.00
4.49
806
809
4.326766
CAGTTTGGGTGCGGCGTG
62.327
66.667
9.37
0.00
0.00
5.34
807
810
4.555709
TCAGTTTGGGTGCGGCGT
62.556
61.111
9.37
0.00
0.00
5.68
808
811
3.283684
TTCAGTTTGGGTGCGGCG
61.284
61.111
0.51
0.51
0.00
6.46
809
812
2.335011
GTTCAGTTTGGGTGCGGC
59.665
61.111
0.00
0.00
0.00
6.53
810
813
2.903547
CGGTTCAGTTTGGGTGCGG
61.904
63.158
0.00
0.00
0.00
5.69
811
814
1.440938
TTCGGTTCAGTTTGGGTGCG
61.441
55.000
0.00
0.00
0.00
5.34
812
815
0.958822
ATTCGGTTCAGTTTGGGTGC
59.041
50.000
0.00
0.00
0.00
5.01
813
816
3.188460
CAGTATTCGGTTCAGTTTGGGTG
59.812
47.826
0.00
0.00
0.00
4.61
814
817
3.408634
CAGTATTCGGTTCAGTTTGGGT
58.591
45.455
0.00
0.00
0.00
4.51
815
818
2.747446
CCAGTATTCGGTTCAGTTTGGG
59.253
50.000
0.00
0.00
0.00
4.12
816
819
3.408634
ACCAGTATTCGGTTCAGTTTGG
58.591
45.455
0.00
0.00
30.53
3.28
825
828
1.153706
CGCGGAACCAGTATTCGGT
60.154
57.895
0.00
0.00
38.85
4.69
826
829
2.522638
GCGCGGAACCAGTATTCGG
61.523
63.158
8.83
0.00
33.33
4.30
827
830
2.856346
CGCGCGGAACCAGTATTCG
61.856
63.158
24.84
0.00
0.00
3.34
828
831
3.003478
CGCGCGGAACCAGTATTC
58.997
61.111
24.84
0.00
0.00
1.75
829
832
3.192922
GCGCGCGGAACCAGTATT
61.193
61.111
33.06
0.00
0.00
1.89
830
833
4.444838
TGCGCGCGGAACCAGTAT
62.445
61.111
33.06
0.00
0.00
2.12
843
846
3.606662
TCGGGATAGGAGCTGCGC
61.607
66.667
0.00
0.00
0.00
6.09
844
847
2.336809
GTCGGGATAGGAGCTGCG
59.663
66.667
0.00
0.00
0.00
5.18
845
848
1.365633
CTGTCGGGATAGGAGCTGC
59.634
63.158
0.00
0.00
0.00
5.25
846
849
1.115467
AACTGTCGGGATAGGAGCTG
58.885
55.000
0.00
0.00
0.00
4.24
847
850
1.115467
CAACTGTCGGGATAGGAGCT
58.885
55.000
0.00
0.00
0.00
4.09
848
851
0.530870
GCAACTGTCGGGATAGGAGC
60.531
60.000
0.00
0.00
0.00
4.70
852
855
0.176680
AGCAGCAACTGTCGGGATAG
59.823
55.000
0.00
0.00
33.43
2.08
857
860
2.609459
CCTATAAAGCAGCAACTGTCGG
59.391
50.000
0.00
0.00
33.43
4.79
865
868
2.325484
TCGGATCCCTATAAAGCAGCA
58.675
47.619
6.06
0.00
0.00
4.41
894
898
1.003223
GTTGTACTGTTGTGTTCGGGC
60.003
52.381
0.00
0.00
0.00
6.13
895
899
1.600485
GGTTGTACTGTTGTGTTCGGG
59.400
52.381
0.00
0.00
0.00
5.14
900
904
5.906113
TTTTGATGGTTGTACTGTTGTGT
57.094
34.783
0.00
0.00
0.00
3.72
907
911
5.144100
TGGGACAATTTTGATGGTTGTACT
58.856
37.500
0.00
0.00
36.98
2.73
970
984
6.322712
TCTCTACTCTCTGCCCTATCTTTTTC
59.677
42.308
0.00
0.00
0.00
2.29
971
985
6.097696
GTCTCTACTCTCTGCCCTATCTTTTT
59.902
42.308
0.00
0.00
0.00
1.94
988
1002
2.294074
GGTCTGCATCGAGTCTCTACT
58.706
52.381
0.00
0.00
39.21
2.57
989
1003
1.003331
CGGTCTGCATCGAGTCTCTAC
60.003
57.143
0.00
0.00
0.00
2.59
990
1004
1.134491
TCGGTCTGCATCGAGTCTCTA
60.134
52.381
0.00
0.00
0.00
2.43
991
1005
0.393132
TCGGTCTGCATCGAGTCTCT
60.393
55.000
0.00
0.00
0.00
3.10
992
1006
0.665835
ATCGGTCTGCATCGAGTCTC
59.334
55.000
11.46
0.00
38.83
3.36
993
1007
0.383590
CATCGGTCTGCATCGAGTCT
59.616
55.000
11.46
0.00
38.83
3.24
994
1008
0.101399
ACATCGGTCTGCATCGAGTC
59.899
55.000
11.46
0.00
38.83
3.36
1045
1075
2.721859
CGTGATCTGCCGATCCGA
59.278
61.111
14.66
0.00
44.40
4.55
1321
1355
2.434359
GACGACGGGCAAGAAGGG
60.434
66.667
0.00
0.00
0.00
3.95
1392
1426
4.927782
GTGCTGCCGGTGGTGACA
62.928
66.667
1.90
0.00
38.70
3.58
1511
1545
1.134965
CGAGGTGGTAGCTTTCCTGAG
60.135
57.143
0.00
1.11
0.00
3.35
1512
1546
0.895530
CGAGGTGGTAGCTTTCCTGA
59.104
55.000
0.00
0.00
0.00
3.86
1547
1581
1.985159
ACCTCCACAGCTCCATGTTTA
59.015
47.619
0.00
0.00
0.00
2.01
1668
1702
4.753662
TACGAGAGCCCGCCCAGT
62.754
66.667
0.00
0.00
0.00
4.00
1764
1801
2.291043
GGACGGCCTCTTCTTCCCA
61.291
63.158
0.00
0.00
0.00
4.37
1843
1880
1.439228
CTGACACCATCGCGATCCT
59.561
57.895
20.85
3.62
0.00
3.24
1925
1968
3.770040
CCATCTCCCACCGCGTCA
61.770
66.667
4.92
0.00
0.00
4.35
1927
1970
4.082523
CACCATCTCCCACCGCGT
62.083
66.667
4.92
0.00
0.00
6.01
2290
5698
8.912988
AGTTCCATCAAATTACTGTCAGAAAAA
58.087
29.630
6.91
0.00
0.00
1.94
2334
5742
9.956720
GAAAAGTGAAATATCCAGAATACCATG
57.043
33.333
0.00
0.00
0.00
3.66
2337
5745
8.131731
GCTGAAAAGTGAAATATCCAGAATACC
58.868
37.037
0.00
0.00
0.00
2.73
2611
6032
1.923148
CCACTCCCCTGAAATAACCCT
59.077
52.381
0.00
0.00
0.00
4.34
2629
6051
6.662865
TTCTGCAAAAATAAACATCTCCCA
57.337
33.333
0.00
0.00
0.00
4.37
2792
6486
4.272018
CGCAGATAAAATTCACTAGCAGCT
59.728
41.667
0.00
0.00
0.00
4.24
2793
6487
4.034510
ACGCAGATAAAATTCACTAGCAGC
59.965
41.667
0.00
0.00
0.00
5.25
2794
6488
5.725110
ACGCAGATAAAATTCACTAGCAG
57.275
39.130
0.00
0.00
0.00
4.24
2889
6592
7.121463
ACAAAGTTAACACACCATAGTTCAACA
59.879
33.333
8.61
0.00
0.00
3.33
2948
6652
4.708726
AGCAATGCAACCTAAACATCTC
57.291
40.909
8.35
0.00
0.00
2.75
3121
6831
9.799106
TTGAATCATCTCTTTTCTTTCTAACCT
57.201
29.630
0.00
0.00
0.00
3.50
3183
6894
4.475135
GAGAAGCGGTGCCCTCCC
62.475
72.222
0.00
0.00
0.00
4.30
3184
6895
4.475135
GGAGAAGCGGTGCCCTCC
62.475
72.222
12.96
12.96
40.01
4.30
3185
6896
4.475135
GGGAGAAGCGGTGCCCTC
62.475
72.222
11.87
7.94
37.59
4.30
3190
6901
2.432628
GACACGGGAGAAGCGGTG
60.433
66.667
0.00
0.00
36.50
4.94
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.