Multiple sequence alignment - TraesCS5A01G337900
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
TraesCS5A01G337900
chr5A
100.000
3305
0
0
1
3305
546153217
546156521
0.000000e+00
6104.0
1
TraesCS5A01G337900
chr5A
87.985
2114
145
35
284
2322
546145464
546147543
0.000000e+00
2396.0
2
TraesCS5A01G337900
chr5A
95.192
1331
64
0
992
2322
545984611
545985941
0.000000e+00
2104.0
3
TraesCS5A01G337900
chr5A
90.689
1321
123
0
997
2317
545870668
545871988
0.000000e+00
1759.0
4
TraesCS5A01G337900
chr5A
81.279
219
35
6
1
216
546145236
546145451
4.380000e-39
172.0
5
TraesCS5A01G337900
chr5B
89.694
2416
194
28
13
2401
520045529
520047916
0.000000e+00
3031.0
6
TraesCS5A01G337900
chr5B
88.434
1686
134
25
643
2309
519660712
519662355
0.000000e+00
1977.0
7
TraesCS5A01G337900
chr5B
93.388
1331
85
1
989
2316
520036797
520038127
0.000000e+00
1967.0
8
TraesCS5A01G337900
chr5B
81.910
890
95
33
1
863
520035845
520036695
0.000000e+00
691.0
9
TraesCS5A01G337900
chr5B
87.574
507
48
6
2809
3302
520059250
520059754
1.030000e-159
573.0
10
TraesCS5A01G337900
chr5B
87.126
435
32
14
2396
2810
520048237
520048667
3.860000e-129
472.0
11
TraesCS5A01G337900
chr5B
78.613
173
24
11
162
328
272674824
272674989
5.830000e-18
102.0
12
TraesCS5A01G337900
chr5B
91.304
46
4
0
901
946
520036700
520036745
2.750000e-06
63.9
13
TraesCS5A01G337900
chr5D
90.708
2077
138
19
372
2424
430511027
430513072
0.000000e+00
2715.0
14
TraesCS5A01G337900
chr5D
87.908
1687
140
27
645
2322
430445235
430446866
0.000000e+00
1927.0
15
TraesCS5A01G337900
chr5D
90.310
1321
128
0
997
2317
430164059
430165379
0.000000e+00
1731.0
16
TraesCS5A01G337900
chr5D
90.234
512
37
6
2806
3305
430520365
430520875
0.000000e+00
656.0
17
TraesCS5A01G337900
chr5D
90.476
63
6
0
1
63
430510807
430510869
2.110000e-12
84.2
18
TraesCS5A01G337900
chr6D
77.014
422
79
12
79
495
397032472
397032064
3.320000e-55
226.0
19
TraesCS5A01G337900
chr6B
94.444
36
2
0
443
478
612193669
612193704
4.610000e-04
56.5
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
TraesCS5A01G337900
chr5A
546153217
546156521
3304
False
6104.0
6104
100.000000
1
3305
1
chr5A.!!$F3
3304
1
TraesCS5A01G337900
chr5A
545984611
545985941
1330
False
2104.0
2104
95.192000
992
2322
1
chr5A.!!$F2
1330
2
TraesCS5A01G337900
chr5A
545870668
545871988
1320
False
1759.0
1759
90.689000
997
2317
1
chr5A.!!$F1
1320
3
TraesCS5A01G337900
chr5A
546145236
546147543
2307
False
1284.0
2396
84.632000
1
2322
2
chr5A.!!$F4
2321
4
TraesCS5A01G337900
chr5B
519660712
519662355
1643
False
1977.0
1977
88.434000
643
2309
1
chr5B.!!$F2
1666
5
TraesCS5A01G337900
chr5B
520045529
520048667
3138
False
1751.5
3031
88.410000
13
2810
2
chr5B.!!$F5
2797
6
TraesCS5A01G337900
chr5B
520035845
520038127
2282
False
907.3
1967
88.867333
1
2316
3
chr5B.!!$F4
2315
7
TraesCS5A01G337900
chr5B
520059250
520059754
504
False
573.0
573
87.574000
2809
3302
1
chr5B.!!$F3
493
8
TraesCS5A01G337900
chr5D
430445235
430446866
1631
False
1927.0
1927
87.908000
645
2322
1
chr5D.!!$F2
1677
9
TraesCS5A01G337900
chr5D
430164059
430165379
1320
False
1731.0
1731
90.310000
997
2317
1
chr5D.!!$F1
1320
10
TraesCS5A01G337900
chr5D
430510807
430513072
2265
False
1399.6
2715
90.592000
1
2424
2
chr5D.!!$F4
2423
11
TraesCS5A01G337900
chr5D
430520365
430520875
510
False
656.0
656
90.234000
2806
3305
1
chr5D.!!$F3
499
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
979
1089
0.1078
TCTCCGGTCTCGTCCTACAG
60.108
60.0
0.0
0.0
33.95
2.74
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
2564
3044
0.031721
AGTGTTCAAGTCGGACGGAC
59.968
55.0
5.05
5.05
46.45
4.79
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
29
30
1.202114
CTGAGCTTCTTCTCTGTCGCT
59.798
52.381
0.00
0.00
34.29
4.93
109
110
1.006102
ACAACTTCCGTCTCCAGCG
60.006
57.895
0.00
0.00
0.00
5.18
137
138
3.829044
CGGGTCCATGCGTCGGTA
61.829
66.667
0.00
0.00
0.00
4.02
168
176
1.705745
AGAAGAGTGGGGGAAAAGGAC
59.294
52.381
0.00
0.00
0.00
3.85
175
183
1.272258
TGGGGGAAAAGGACGGAATTC
60.272
52.381
0.00
0.00
0.00
2.17
209
219
6.288294
CACGGGATGATGGAAGAAAATAGTA
58.712
40.000
0.00
0.00
0.00
1.82
220
231
5.857517
GGAAGAAAATAGTAGGAGATACGCG
59.142
44.000
3.53
3.53
39.55
6.01
272
283
2.417933
CGAGCTCCATCTCAGTTTTTGG
59.582
50.000
8.47
0.00
33.41
3.28
276
287
3.754965
CTCCATCTCAGTTTTTGGTGGA
58.245
45.455
0.00
0.00
34.42
4.02
278
289
3.138283
TCCATCTCAGTTTTTGGTGGACT
59.862
43.478
0.00
0.00
32.26
3.85
282
293
1.286553
TCAGTTTTTGGTGGACTGGGT
59.713
47.619
3.24
0.00
40.80
4.51
313
324
2.629050
CTACGTGGCTCATGTCCGGG
62.629
65.000
0.00
0.00
35.12
5.73
319
330
3.083349
CTCATGTCCGGGCTCCCA
61.083
66.667
7.97
0.00
35.37
4.37
324
335
2.075355
ATGTCCGGGCTCCCACAAAA
62.075
55.000
7.97
0.00
35.37
2.44
333
348
1.001974
GCTCCCACAAAACCCCATTTC
59.998
52.381
0.00
0.00
0.00
2.17
345
362
3.930035
ACCCCATTTCCCAGTTTGTTTA
58.070
40.909
0.00
0.00
0.00
2.01
346
363
4.299485
ACCCCATTTCCCAGTTTGTTTAA
58.701
39.130
0.00
0.00
0.00
1.52
431
448
3.702048
GGTGTCCGGGCAGCTACA
61.702
66.667
30.14
9.31
34.39
2.74
457
474
2.165030
GACGGATAAGGACGGTTTGAGA
59.835
50.000
0.00
0.00
0.00
3.27
468
486
0.599204
GGTTTGAGAGTCGGCGTTGA
60.599
55.000
6.85
0.00
0.00
3.18
499
534
8.322091
GCCCTAACTAGTCAAACATCCATATAT
58.678
37.037
0.00
0.00
0.00
0.86
516
554
5.337089
CCATATATGGGACTAGCAGTCAGTG
60.337
48.000
22.31
0.00
46.79
3.66
624
665
2.071778
AGCAGGCAAAGGAGTGAAAA
57.928
45.000
0.00
0.00
0.00
2.29
625
666
2.601905
AGCAGGCAAAGGAGTGAAAAT
58.398
42.857
0.00
0.00
0.00
1.82
626
667
3.766545
AGCAGGCAAAGGAGTGAAAATA
58.233
40.909
0.00
0.00
0.00
1.40
627
668
3.760684
AGCAGGCAAAGGAGTGAAAATAG
59.239
43.478
0.00
0.00
0.00
1.73
630
671
5.006386
CAGGCAAAGGAGTGAAAATAGAGT
58.994
41.667
0.00
0.00
0.00
3.24
680
722
2.154567
TCTAGGTAACAGCCGGTCAT
57.845
50.000
1.90
0.00
41.41
3.06
698
741
5.335127
GGTCATTAGTCAAACACATGCATC
58.665
41.667
0.00
0.00
0.00
3.91
713
760
1.153449
CATCGTTTAGAGGCGGGCA
60.153
57.895
3.78
0.00
0.00
5.36
734
783
4.697514
CAGTCCAAGTCTCAAGTCTCAAA
58.302
43.478
0.00
0.00
0.00
2.69
735
784
5.118990
CAGTCCAAGTCTCAAGTCTCAAAA
58.881
41.667
0.00
0.00
0.00
2.44
736
785
5.007136
CAGTCCAAGTCTCAAGTCTCAAAAC
59.993
44.000
0.00
0.00
0.00
2.43
737
786
4.876107
GTCCAAGTCTCAAGTCTCAAAACA
59.124
41.667
0.00
0.00
0.00
2.83
739
788
5.586243
TCCAAGTCTCAAGTCTCAAAACAAG
59.414
40.000
0.00
0.00
0.00
3.16
740
789
5.220931
CCAAGTCTCAAGTCTCAAAACAAGG
60.221
44.000
0.00
0.00
0.00
3.61
810
883
1.729838
GCGAGCGTGTTCGAGACTT
60.730
57.895
10.34
0.00
43.03
3.01
829
905
7.427989
AGACTTCCAATACCGTCCTATAAAA
57.572
36.000
0.00
0.00
0.00
1.52
856
932
1.526686
CAGCAGCAGGACAACCACA
60.527
57.895
0.00
0.00
38.94
4.17
863
939
2.624838
AGCAGGACAACCACAAAATCAG
59.375
45.455
0.00
0.00
38.94
2.90
893
980
2.221055
CACAAGAGTACAAGACCGCAAC
59.779
50.000
0.00
0.00
0.00
4.17
901
988
3.469863
AAGACCGCAACGCCTCCAA
62.470
57.895
0.00
0.00
0.00
3.53
911
998
0.396811
ACGCCTCCAAGTACAAGCTT
59.603
50.000
0.00
0.00
0.00
3.74
913
1000
1.878102
CGCCTCCAAGTACAAGCTTGT
60.878
52.381
32.97
32.97
43.03
3.16
970
1080
1.619332
AGAAACCACTTCTCCGGTCTC
59.381
52.381
0.00
0.00
40.61
3.36
971
1081
0.317479
AAACCACTTCTCCGGTCTCG
59.683
55.000
0.00
0.00
33.17
4.04
972
1082
0.826672
AACCACTTCTCCGGTCTCGT
60.827
55.000
0.00
0.00
33.17
4.18
974
1084
1.507174
CACTTCTCCGGTCTCGTCC
59.493
63.158
0.00
0.00
33.95
4.79
975
1085
0.961358
CACTTCTCCGGTCTCGTCCT
60.961
60.000
0.00
0.00
33.95
3.85
976
1086
0.617413
ACTTCTCCGGTCTCGTCCTA
59.383
55.000
0.00
0.00
33.95
2.94
977
1087
1.015868
CTTCTCCGGTCTCGTCCTAC
58.984
60.000
0.00
0.00
33.95
3.18
978
1088
0.325933
TTCTCCGGTCTCGTCCTACA
59.674
55.000
0.00
0.00
33.95
2.74
979
1089
0.107800
TCTCCGGTCTCGTCCTACAG
60.108
60.000
0.00
0.00
33.95
2.74
980
1090
0.107800
CTCCGGTCTCGTCCTACAGA
60.108
60.000
0.00
0.00
33.95
3.41
981
1091
0.107800
TCCGGTCTCGTCCTACAGAG
60.108
60.000
0.00
0.00
35.91
3.35
982
1092
0.107800
CCGGTCTCGTCCTACAGAGA
60.108
60.000
0.00
0.00
40.78
3.10
983
1093
1.678123
CCGGTCTCGTCCTACAGAGAA
60.678
57.143
0.00
0.00
44.07
2.87
984
1094
2.082231
CGGTCTCGTCCTACAGAGAAA
58.918
52.381
0.00
0.00
44.07
2.52
985
1095
2.159544
CGGTCTCGTCCTACAGAGAAAC
60.160
54.545
0.00
0.00
44.07
2.78
986
1096
2.164017
GGTCTCGTCCTACAGAGAAACC
59.836
54.545
0.00
0.00
44.07
3.27
987
1097
2.818432
GTCTCGTCCTACAGAGAAACCA
59.182
50.000
0.00
0.00
44.07
3.67
1043
1180
3.882025
GCTCGTCAAGCCTTCCTG
58.118
61.111
0.00
0.00
45.92
3.86
1200
1337
2.046023
CTTGCCATGGTCCTCGCA
60.046
61.111
14.67
0.09
0.00
5.10
1551
1688
4.935495
CCAGTGCACCACCACGCT
62.935
66.667
14.63
0.00
40.59
5.07
1686
1823
2.743752
CGTCATCCACAAGGCGCAG
61.744
63.158
10.83
0.00
33.74
5.18
1837
1974
2.903404
GAGACCTCCAAGATCCGGT
58.097
57.895
0.00
0.00
0.00
5.28
2256
2393
1.838073
ATGCCTTCGTCCCCGTCTTT
61.838
55.000
0.00
0.00
35.01
2.52
2343
2483
7.453126
AGAATCGGTAGATTGATAACTGAGGAT
59.547
37.037
0.00
0.00
46.30
3.24
2344
2484
6.576662
TCGGTAGATTGATAACTGAGGATC
57.423
41.667
0.00
0.00
0.00
3.36
2345
2485
6.721668
ATCGGTAGATTGATAACTGAGGATCA
59.278
38.462
0.00
0.00
36.77
2.92
2424
2891
6.338146
TGAGAATTGTATGGTGCTACTGTAC
58.662
40.000
0.00
0.00
0.00
2.90
2453
2930
5.818678
AGGTTCTGATGTACCAGTAACAA
57.181
39.130
0.26
0.00
36.27
2.83
2455
2932
4.935808
GGTTCTGATGTACCAGTAACAAGG
59.064
45.833
12.09
0.00
34.30
3.61
2512
2990
7.654520
CCAATGTATGCCTAATCTTTTTGATGG
59.345
37.037
0.00
0.00
35.21
3.51
2537
3017
9.962759
GGTATGTTAGTACGTTAAATTGAACAG
57.037
33.333
6.49
1.94
0.00
3.16
2564
3044
8.854979
TGTTCAATTTTGACACTGAAGTATTG
57.145
30.769
0.00
0.00
36.83
1.90
2568
3051
5.666969
TTTTGACACTGAAGTATTGTCCG
57.333
39.130
0.00
0.00
37.97
4.79
2572
3055
2.259618
CACTGAAGTATTGTCCGTCCG
58.740
52.381
0.00
0.00
0.00
4.79
2579
3062
2.559668
AGTATTGTCCGTCCGACTTGAA
59.440
45.455
0.00
0.00
42.49
2.69
2608
3091
7.656707
AAACAATGAAAGTATGAAACCATGC
57.343
32.000
0.00
0.00
0.00
4.06
2679
3163
5.107375
GCAAAACGGAATTGTACGAGTCTTA
60.107
40.000
10.25
0.00
0.00
2.10
2687
3171
8.106348
CGGAATTGTACGAGTCTTACAAAATAC
58.894
37.037
21.78
14.89
41.55
1.89
2689
3173
8.524870
AATTGTACGAGTCTTACAAAATACGT
57.475
30.769
21.78
5.94
41.55
3.57
2690
3174
9.624697
AATTGTACGAGTCTTACAAAATACGTA
57.375
29.630
21.78
0.00
41.55
3.57
2699
3183
6.034256
GTCTTACAAAATACGTAGATGCGTGT
59.966
38.462
6.22
0.00
45.33
4.49
2719
3203
7.295952
CGTGTAATGCTAAGAAATGAGAAGT
57.704
36.000
0.00
0.00
0.00
3.01
2738
3222
7.719193
TGAGAAGTGACAAAATAACCATCAAGA
59.281
33.333
0.00
0.00
0.00
3.02
2812
3297
8.352201
TGTCTTTTTGTCTTCTGTATGGAAATG
58.648
33.333
0.00
0.00
0.00
2.32
2955
3441
6.905578
TGAATCACTGAATTGATGAACACTG
58.094
36.000
0.00
0.00
36.31
3.66
2960
3446
6.870439
TCACTGAATTGATGAACACTGTCTAG
59.130
38.462
0.00
0.00
0.00
2.43
2961
3447
6.648310
CACTGAATTGATGAACACTGTCTAGT
59.352
38.462
0.00
0.00
37.75
2.57
3036
3533
2.028748
CAGGTTCAATTTTGGCTCTGGG
60.029
50.000
0.00
0.00
0.00
4.45
3071
3568
7.967890
AAGCTTGAATTGAAAAATACCAAGG
57.032
32.000
0.00
0.00
32.56
3.61
3073
3570
5.122239
GCTTGAATTGAAAAATACCAAGGCC
59.878
40.000
0.00
0.00
32.56
5.19
3074
3571
5.815233
TGAATTGAAAAATACCAAGGCCA
57.185
34.783
5.01
0.00
0.00
5.36
3104
3601
1.824852
CCCGAGCAAAGGCCTAAAAAT
59.175
47.619
5.16
0.00
42.56
1.82
3108
3605
4.381932
CCGAGCAAAGGCCTAAAAATTCAT
60.382
41.667
5.16
0.00
42.56
2.57
3115
3612
9.558648
GCAAAGGCCTAAAAATTCATTAATTTG
57.441
29.630
5.16
1.51
43.04
2.32
3141
3638
9.810231
GATAACAAATGTTAAACCAATTTGCAG
57.190
29.630
9.82
0.00
42.93
4.41
3172
3669
8.868522
AAATGAATTATTGTCTCTGTTCTCCA
57.131
30.769
0.00
0.00
0.00
3.86
3205
3702
9.423061
ACAATATTTTACACATTTCAGGCTTTC
57.577
29.630
0.00
0.00
0.00
2.62
3221
3718
3.494924
GGCTTTCATTTTGGGCTTCAAGT
60.495
43.478
0.00
0.00
36.62
3.16
3234
3731
0.107831
TTCAAGTCCGACCAACAGGG
59.892
55.000
0.00
0.00
44.81
4.45
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
7
8
1.543802
CGACAGAGAAGAAGCTCAGGT
59.456
52.381
0.00
0.00
37.37
4.00
29
30
5.299279
GGAGAGGTTTGACTTGTTGATGAAA
59.701
40.000
0.00
0.00
0.00
2.69
137
138
0.610687
CACTCTTCTTTCCTCCCGCT
59.389
55.000
0.00
0.00
0.00
5.52
146
147
2.789399
TCCTTTTCCCCCACTCTTCTTT
59.211
45.455
0.00
0.00
0.00
2.52
168
176
2.962253
GCTCTCCGCCGAATTCCG
60.962
66.667
0.00
0.00
38.18
4.30
178
186
1.300465
CATCATCCCGTGCTCTCCG
60.300
63.158
0.00
0.00
0.00
4.63
186
195
5.373812
ACTATTTTCTTCCATCATCCCGT
57.626
39.130
0.00
0.00
0.00
5.28
192
202
8.577296
CGTATCTCCTACTATTTTCTTCCATCA
58.423
37.037
0.00
0.00
0.00
3.07
209
219
1.200716
TGTTTTCGTCGCGTATCTCCT
59.799
47.619
5.77
0.00
0.00
3.69
216
226
1.634225
CACACTGTTTTCGTCGCGT
59.366
52.632
5.77
0.00
0.00
6.01
217
227
1.083657
CCACACTGTTTTCGTCGCG
60.084
57.895
0.00
0.00
0.00
5.87
220
231
0.307760
CTGGCCACACTGTTTTCGTC
59.692
55.000
0.00
0.00
0.00
4.20
259
270
3.490348
CCAGTCCACCAAAAACTGAGAT
58.510
45.455
3.42
0.00
42.37
2.75
260
271
2.422803
CCCAGTCCACCAAAAACTGAGA
60.423
50.000
3.42
0.00
42.37
3.27
272
283
2.030562
CCGACACACCCAGTCCAC
59.969
66.667
0.00
0.00
32.41
4.02
276
287
2.207924
GGACTCCGACACACCCAGT
61.208
63.158
0.00
0.00
0.00
4.00
278
289
0.896940
GTAGGACTCCGACACACCCA
60.897
60.000
3.55
0.00
0.00
4.51
282
293
1.239296
CCACGTAGGACTCCGACACA
61.239
60.000
8.84
0.00
41.22
3.72
313
324
1.001974
GAAATGGGGTTTTGTGGGAGC
59.998
52.381
0.00
0.00
0.00
4.70
319
330
2.487746
ACTGGGAAATGGGGTTTTGT
57.512
45.000
0.00
0.00
0.00
2.83
324
335
2.487746
AACAAACTGGGAAATGGGGT
57.512
45.000
0.00
0.00
0.00
4.95
333
348
3.553917
CGGCAAAGTTTAAACAAACTGGG
59.446
43.478
20.06
3.97
41.76
4.45
345
362
3.202097
CCACAATTTTCCGGCAAAGTTT
58.798
40.909
5.32
0.00
0.00
2.66
346
363
2.169561
ACCACAATTTTCCGGCAAAGTT
59.830
40.909
5.32
3.77
0.00
2.66
391
408
3.622206
GCAAGTCATCCATAACTGACCCA
60.622
47.826
0.00
0.00
42.18
4.51
400
417
1.134521
GGACACCGCAAGTCATCCATA
60.135
52.381
0.00
0.00
37.74
2.74
401
418
0.392998
GGACACCGCAAGTCATCCAT
60.393
55.000
0.00
0.00
37.74
3.41
423
440
1.816537
TCCGTCTGGATGTAGCTGC
59.183
57.895
0.00
0.00
40.17
5.25
457
474
1.579429
GGCATTTTCAACGCCGACT
59.421
52.632
0.00
0.00
35.79
4.18
468
486
6.152831
GGATGTTTGACTAGTTAGGGCATTTT
59.847
38.462
0.00
0.00
0.00
1.82
499
534
1.717032
AACACTGACTGCTAGTCCCA
58.283
50.000
11.99
0.00
44.44
4.37
502
537
3.670991
CGAGAAAACACTGACTGCTAGTC
59.329
47.826
8.75
8.75
45.26
2.59
503
538
3.068307
ACGAGAAAACACTGACTGCTAGT
59.932
43.478
0.00
0.00
0.00
2.57
504
539
3.426859
CACGAGAAAACACTGACTGCTAG
59.573
47.826
0.00
0.00
0.00
3.42
505
540
3.381045
CACGAGAAAACACTGACTGCTA
58.619
45.455
0.00
0.00
0.00
3.49
506
541
2.205074
CACGAGAAAACACTGACTGCT
58.795
47.619
0.00
0.00
0.00
4.24
507
542
1.261619
CCACGAGAAAACACTGACTGC
59.738
52.381
0.00
0.00
0.00
4.40
508
543
2.540101
GTCCACGAGAAAACACTGACTG
59.460
50.000
0.00
0.00
0.00
3.51
511
546
2.971660
TGTCCACGAGAAAACACTGA
57.028
45.000
0.00
0.00
0.00
3.41
624
665
6.432162
TCACAAGTCTAAACCGTACACTCTAT
59.568
38.462
0.00
0.00
0.00
1.98
625
666
5.764686
TCACAAGTCTAAACCGTACACTCTA
59.235
40.000
0.00
0.00
0.00
2.43
626
667
4.581824
TCACAAGTCTAAACCGTACACTCT
59.418
41.667
0.00
0.00
0.00
3.24
627
668
4.678742
GTCACAAGTCTAAACCGTACACTC
59.321
45.833
0.00
0.00
0.00
3.51
630
671
4.652421
TGTCACAAGTCTAAACCGTACA
57.348
40.909
0.00
0.00
0.00
2.90
680
722
5.431420
AAACGATGCATGTGTTTGACTAA
57.569
34.783
20.20
0.00
34.73
2.24
698
741
1.810030
GACTGCCCGCCTCTAAACG
60.810
63.158
0.00
0.00
0.00
3.60
713
760
5.119694
GTTTTGAGACTTGAGACTTGGACT
58.880
41.667
0.00
0.00
0.00
3.85
810
883
8.076910
TGTACTTTTTATAGGACGGTATTGGA
57.923
34.615
0.00
0.00
31.19
3.53
829
905
0.764890
TCCTGCTGCTGGTTGTACTT
59.235
50.000
22.62
0.00
0.00
2.24
856
932
5.415701
ACTCTTGTGTTGTGTGTCTGATTTT
59.584
36.000
0.00
0.00
0.00
1.82
863
939
4.868171
TCTTGTACTCTTGTGTTGTGTGTC
59.132
41.667
0.00
0.00
0.00
3.67
893
980
0.798776
CAAGCTTGTACTTGGAGGCG
59.201
55.000
18.65
0.00
42.73
5.52
970
1080
2.296471
ACTGTGGTTTCTCTGTAGGACG
59.704
50.000
0.00
0.00
0.00
4.79
971
1081
4.280174
TGTACTGTGGTTTCTCTGTAGGAC
59.720
45.833
0.00
0.00
0.00
3.85
972
1082
4.280174
GTGTACTGTGGTTTCTCTGTAGGA
59.720
45.833
0.00
0.00
0.00
2.94
974
1084
5.196341
TGTGTACTGTGGTTTCTCTGTAG
57.804
43.478
0.00
0.00
0.00
2.74
975
1085
4.500887
GCTGTGTACTGTGGTTTCTCTGTA
60.501
45.833
0.00
0.00
0.00
2.74
976
1086
3.741388
GCTGTGTACTGTGGTTTCTCTGT
60.741
47.826
0.00
0.00
0.00
3.41
977
1087
2.802816
GCTGTGTACTGTGGTTTCTCTG
59.197
50.000
0.00
0.00
0.00
3.35
978
1088
2.434336
TGCTGTGTACTGTGGTTTCTCT
59.566
45.455
0.00
0.00
0.00
3.10
979
1089
2.833794
TGCTGTGTACTGTGGTTTCTC
58.166
47.619
0.00
0.00
0.00
2.87
980
1090
3.275617
TTGCTGTGTACTGTGGTTTCT
57.724
42.857
0.00
0.00
0.00
2.52
981
1091
3.304659
CCATTGCTGTGTACTGTGGTTTC
60.305
47.826
0.00
0.00
0.00
2.78
982
1092
2.622942
CCATTGCTGTGTACTGTGGTTT
59.377
45.455
0.00
0.00
0.00
3.27
983
1093
2.158682
TCCATTGCTGTGTACTGTGGTT
60.159
45.455
0.00
0.00
0.00
3.67
984
1094
1.419762
TCCATTGCTGTGTACTGTGGT
59.580
47.619
0.00
0.00
0.00
4.16
985
1095
2.079158
CTCCATTGCTGTGTACTGTGG
58.921
52.381
0.00
0.00
0.00
4.17
986
1096
2.079158
CCTCCATTGCTGTGTACTGTG
58.921
52.381
0.00
0.00
0.00
3.66
987
1097
1.699634
ACCTCCATTGCTGTGTACTGT
59.300
47.619
0.00
0.00
0.00
3.55
1158
1295
3.432051
CTCGATGGAGGCCGTGGTC
62.432
68.421
0.00
0.00
36.61
4.02
1200
1337
3.047877
GCAAAGGCGCGGTACTGT
61.048
61.111
8.83
0.00
0.00
3.55
1245
1382
1.826921
GAGGATGACGGAGGGCGTA
60.827
63.158
0.00
0.00
0.00
4.42
1601
1738
1.070957
GGCAGGTAGTATTCCCGGC
59.929
63.158
0.00
0.00
40.65
6.13
1603
1740
0.031721
GACGGCAGGTAGTATTCCCG
59.968
60.000
0.00
0.00
41.31
5.14
1608
1745
2.496291
GGGCGACGGCAGGTAGTAT
61.496
63.158
23.66
0.00
42.47
2.12
1659
1796
4.697514
CCTTGTGGATGACGATGTTATCT
58.302
43.478
0.00
0.00
30.74
1.98
1662
1799
2.627945
GCCTTGTGGATGACGATGTTA
58.372
47.619
0.00
0.00
34.57
2.41
1686
1823
2.003301
GCGATGAAGTCCTTGGAGAAC
58.997
52.381
0.00
0.00
0.00
3.01
2256
2393
1.078918
CGCCTGGAGATTGTGCTCA
60.079
57.895
0.00
0.00
36.62
4.26
2343
2483
4.011966
TCTTTTCTCTGCTGAATGCTGA
57.988
40.909
0.00
0.00
45.30
4.26
2344
2484
4.761235
TTCTTTTCTCTGCTGAATGCTG
57.239
40.909
0.00
0.00
43.37
4.41
2345
2485
4.765856
ACATTCTTTTCTCTGCTGAATGCT
59.234
37.500
12.17
0.74
44.34
3.79
2346
2486
5.056894
ACATTCTTTTCTCTGCTGAATGC
57.943
39.130
12.17
0.00
44.34
3.56
2347
2487
6.675026
TCAACATTCTTTTCTCTGCTGAATG
58.325
36.000
11.06
11.06
45.32
2.67
2348
2488
6.889301
TCAACATTCTTTTCTCTGCTGAAT
57.111
33.333
0.00
0.00
0.00
2.57
2349
2489
6.889301
ATCAACATTCTTTTCTCTGCTGAA
57.111
33.333
0.00
0.00
0.00
3.02
2412
2879
2.806244
CCTTTGTGTGTACAGTAGCACC
59.194
50.000
10.75
0.00
38.23
5.01
2424
2891
4.133820
TGGTACATCAGAACCTTTGTGTG
58.866
43.478
0.00
0.00
36.67
3.82
2483
2961
9.420118
TCAAAAAGATTAGGCATACATTGGTAT
57.580
29.630
0.00
0.00
40.86
2.73
2484
2962
8.815565
TCAAAAAGATTAGGCATACATTGGTA
57.184
30.769
0.00
0.00
0.00
3.25
2485
2963
7.716799
TCAAAAAGATTAGGCATACATTGGT
57.283
32.000
0.00
0.00
0.00
3.67
2486
2964
7.654520
CCATCAAAAAGATTAGGCATACATTGG
59.345
37.037
0.00
0.00
33.72
3.16
2488
2966
8.310122
ACCATCAAAAAGATTAGGCATACATT
57.690
30.769
0.00
0.00
33.72
2.71
2490
2968
8.849168
CATACCATCAAAAAGATTAGGCATACA
58.151
33.333
0.00
0.00
33.72
2.29
2491
2969
8.850156
ACATACCATCAAAAAGATTAGGCATAC
58.150
33.333
0.00
0.00
33.72
2.39
2495
2973
8.903820
ACTAACATACCATCAAAAAGATTAGGC
58.096
33.333
0.00
0.00
33.72
3.93
2537
3017
9.683069
AATACTTCAGTGTCAAAATTGAACATC
57.317
29.630
0.00
0.00
39.21
3.06
2540
3020
8.856490
ACAATACTTCAGTGTCAAAATTGAAC
57.144
30.769
0.00
0.00
39.21
3.18
2564
3044
0.031721
AGTGTTCAAGTCGGACGGAC
59.968
55.000
5.05
5.05
46.45
4.79
2568
3051
5.235616
TCATTGTTTAGTGTTCAAGTCGGAC
59.764
40.000
0.00
0.00
0.00
4.79
2579
3062
8.908903
TGGTTTCATACTTTCATTGTTTAGTGT
58.091
29.630
0.00
0.00
0.00
3.55
2679
3163
6.701937
CATTACACGCATCTACGTATTTTGT
58.298
36.000
0.00
0.00
46.34
2.83
2687
3171
4.287720
TCTTAGCATTACACGCATCTACG
58.712
43.478
0.00
0.00
39.50
3.51
2689
3173
6.983890
TCATTTCTTAGCATTACACGCATCTA
59.016
34.615
0.00
0.00
0.00
1.98
2690
3174
5.817296
TCATTTCTTAGCATTACACGCATCT
59.183
36.000
0.00
0.00
0.00
2.90
2699
3183
8.846943
TTGTCACTTCTCATTTCTTAGCATTA
57.153
30.769
0.00
0.00
0.00
1.90
2707
3191
8.463930
TGGTTATTTTGTCACTTCTCATTTCT
57.536
30.769
0.00
0.00
0.00
2.52
2711
3195
8.408043
TTGATGGTTATTTTGTCACTTCTCAT
57.592
30.769
0.00
0.00
0.00
2.90
2783
3267
8.463930
TCCATACAGAAGACAAAAAGACAATT
57.536
30.769
0.00
0.00
0.00
2.32
2784
3268
8.463930
TTCCATACAGAAGACAAAAAGACAAT
57.536
30.769
0.00
0.00
0.00
2.71
2832
3317
6.934645
TCCGATTTGTCTTCTTTGTACAGAAT
59.065
34.615
0.00
0.00
32.21
2.40
2853
3339
9.739276
AAATGGCAAGAGATTAATATATTCCGA
57.261
29.630
0.00
0.00
0.00
4.55
2955
3441
7.553044
ACCTTCAACCATGCTTAAATACTAGAC
59.447
37.037
0.00
0.00
0.00
2.59
2960
3446
8.301002
TGTTTACCTTCAACCATGCTTAAATAC
58.699
33.333
0.00
0.00
0.00
1.89
2961
3447
8.410673
TGTTTACCTTCAACCATGCTTAAATA
57.589
30.769
0.00
0.00
0.00
1.40
3055
3552
4.263287
GGGTTGGCCTTGGTATTTTTCAAT
60.263
41.667
3.32
0.00
34.45
2.57
3071
3568
4.629523
TCGGGTTGTCGGGTTGGC
62.630
66.667
0.00
0.00
0.00
4.52
3073
3570
3.047877
GCTCGGGTTGTCGGGTTG
61.048
66.667
0.00
0.00
32.39
3.77
3074
3571
2.612095
TTTGCTCGGGTTGTCGGGTT
62.612
55.000
0.00
0.00
32.39
4.11
3115
3612
9.810231
CTGCAAATTGGTTTAACATTTGTTATC
57.190
29.630
16.68
6.24
39.89
1.75
3120
3617
6.259608
TGTCCTGCAAATTGGTTTAACATTTG
59.740
34.615
13.26
13.26
35.87
2.32
3125
3622
6.670077
TTTTGTCCTGCAAATTGGTTTAAC
57.330
33.333
0.00
0.00
45.38
2.01
3134
3631
9.287373
ACAATAATTCATTTTTGTCCTGCAAAT
57.713
25.926
3.35
0.00
45.38
2.32
3179
3676
9.423061
GAAAGCCTGAAATGTGTAAAATATTGT
57.577
29.630
0.00
0.00
0.00
2.71
3205
3702
1.885887
TCGGACTTGAAGCCCAAAATG
59.114
47.619
0.00
0.00
33.76
2.32
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.