Multiple sequence alignment - TraesCS6D01G194400
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
TraesCS6D01G194400
chr6D
100.000
3487
0
0
1
3487
269804285
269807771
0.000000e+00
6440
1
TraesCS6D01G194400
chr6D
73.881
536
118
19
2963
3487
73644470
73644994
9.880000e-46
195
2
TraesCS6D01G194400
chr6D
91.398
93
8
0
160
252
104145380
104145472
1.020000e-25
128
3
TraesCS6D01G194400
chr6B
93.050
1669
85
14
235
1891
422565035
422566684
0.000000e+00
2410
4
TraesCS6D01G194400
chr6B
95.582
747
23
2
2189
2926
422567339
422568084
0.000000e+00
1188
5
TraesCS6D01G194400
chr6B
88.746
311
7
10
1884
2166
422566867
422567177
4.280000e-94
355
6
TraesCS6D01G194400
chr6A
92.195
1499
53
18
576
2025
384314282
384315765
0.000000e+00
2061
7
TraesCS6D01G194400
chr6A
92.325
886
33
7
2075
2926
384315769
384316653
0.000000e+00
1227
8
TraesCS6D01G194400
chr6A
92.931
580
39
2
1
580
384304886
384305463
0.000000e+00
843
9
TraesCS6D01G194400
chr3D
84.181
531
58
11
2963
3486
108203438
108202927
3.130000e-135
492
10
TraesCS6D01G194400
chr7A
86.111
252
34
1
1
252
672645678
672645428
1.600000e-68
270
11
TraesCS6D01G194400
chr5A
84.921
252
37
1
1
252
342441976
342442226
1.610000e-63
254
12
TraesCS6D01G194400
chr2A
84.921
252
37
1
1
252
709250269
709250019
1.610000e-63
254
13
TraesCS6D01G194400
chr2A
90.811
185
15
2
2256
2439
551481415
551481232
2.690000e-61
246
14
TraesCS6D01G194400
chr2A
84.454
238
26
7
2258
2488
551372303
551372070
1.260000e-54
224
15
TraesCS6D01G194400
chr2A
89.011
182
16
3
2256
2435
551462059
551461880
4.530000e-54
222
16
TraesCS6D01G194400
chr2A
88.172
186
18
3
2256
2439
551446875
551446692
5.860000e-53
219
17
TraesCS6D01G194400
chr2A
88.172
186
18
3
2256
2439
551467947
551467764
5.860000e-53
219
18
TraesCS6D01G194400
chr5D
84.921
252
35
3
1
252
482387455
482387703
5.780000e-63
252
19
TraesCS6D01G194400
chr2B
84.583
240
26
7
2256
2488
513696572
513696807
9.740000e-56
228
20
TraesCS6D01G194400
chr2D
89.888
178
14
3
2256
2431
435197482
435197657
3.500000e-55
226
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
TraesCS6D01G194400
chr6D
269804285
269807771
3486
False
6440.000000
6440
100.000000
1
3487
1
chr6D.!!$F3
3486
1
TraesCS6D01G194400
chr6B
422565035
422568084
3049
False
1317.666667
2410
92.459333
235
2926
3
chr6B.!!$F1
2691
2
TraesCS6D01G194400
chr6A
384314282
384316653
2371
False
1644.000000
2061
92.260000
576
2926
2
chr6A.!!$F2
2350
3
TraesCS6D01G194400
chr6A
384304886
384305463
577
False
843.000000
843
92.931000
1
580
1
chr6A.!!$F1
579
4
TraesCS6D01G194400
chr3D
108202927
108203438
511
True
492.000000
492
84.181000
2963
3486
1
chr3D.!!$R1
523
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
814
816
0.108138
CTGTTCATCGGGTCCCACTC
60.108
60.0
9.12
0.0
0.0
3.51
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
2587
3037
0.833287
CCACTCGGACCATTCCAGAT
59.167
55.0
0.0
0.0
43.0
2.9
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
23
24
2.429250
TCTTCTGTCGTGACTTGTGGAA
59.571
45.455
1.23
0.00
0.00
3.53
27
28
5.147330
TCTGTCGTGACTTGTGGAATATT
57.853
39.130
1.23
0.00
0.00
1.28
30
31
7.327975
TCTGTCGTGACTTGTGGAATATTATT
58.672
34.615
1.23
0.00
0.00
1.40
35
36
8.447833
TCGTGACTTGTGGAATATTATTTGTTC
58.552
33.333
0.00
0.00
0.00
3.18
60
61
3.696548
GTCTCATCAAGGGTGAAATTCCC
59.303
47.826
0.00
0.00
44.90
3.97
68
69
3.458044
GGGTGAAATTCCCTTCTTCCT
57.542
47.619
0.00
0.00
41.58
3.36
89
90
0.960364
TGCCCCGAACAGAGATTTGC
60.960
55.000
0.00
0.00
0.00
3.68
100
101
6.092122
CGAACAGAGATTTGCAGTATTTGGTA
59.908
38.462
0.00
0.00
0.00
3.25
122
123
7.156000
GGTAATATAACTCTTGAGCTCTTCCC
58.844
42.308
16.19
0.00
0.00
3.97
129
130
0.608640
TTGAGCTCTTCCCGACCTTC
59.391
55.000
16.19
0.00
0.00
3.46
136
137
1.664321
CTTCCCGACCTTCGATCCGT
61.664
60.000
0.00
0.00
43.74
4.69
156
157
3.339141
GTCCTTCATCTTGTTGGAGACC
58.661
50.000
0.00
0.00
0.00
3.85
157
158
2.978978
TCCTTCATCTTGTTGGAGACCA
59.021
45.455
0.00
0.00
0.00
4.02
190
191
0.916086
TTCCTATGCCGACCATTGGT
59.084
50.000
8.42
8.42
44.23
3.67
212
213
4.092968
GTGACCAATTGGAAGTATCGTGTC
59.907
45.833
31.22
13.70
38.94
3.67
300
301
4.640647
GCGAGGGTTTCATCCTTCTTTTAT
59.359
41.667
0.00
0.00
34.21
1.40
332
334
5.591877
ACTGTGCTCTGAAATCTTTGACTTT
59.408
36.000
0.00
0.00
0.00
2.66
356
358
5.007430
TCTCGTCTAGATACATCCGTTTGAC
59.993
44.000
0.00
0.00
0.00
3.18
358
360
4.618965
GTCTAGATACATCCGTTTGACCC
58.381
47.826
0.00
0.00
0.00
4.46
395
397
6.428159
CCGATGGAGAAAGTATATCCCAAAAG
59.572
42.308
0.00
0.00
31.73
2.27
403
405
7.615757
AGAAAGTATATCCCAAAAGGGTTCAAG
59.384
37.037
0.00
0.00
35.67
3.02
444
446
0.763035
ACAACCCCTAAAGCGTCACT
59.237
50.000
0.00
0.00
0.00
3.41
449
451
2.496470
ACCCCTAAAGCGTCACTAGAAG
59.504
50.000
0.00
0.00
0.00
2.85
795
797
0.251787
AACATGGGTCCTCCTTTGCC
60.252
55.000
0.00
0.00
36.20
4.52
814
816
0.108138
CTGTTCATCGGGTCCCACTC
60.108
60.000
9.12
0.00
0.00
3.51
851
853
1.599047
CCTGCATCCTCCTCGTTGT
59.401
57.895
0.00
0.00
0.00
3.32
925
933
2.363018
CCTGGCTCCTCGTCCTCA
60.363
66.667
0.00
0.00
0.00
3.86
935
945
5.381757
GCTCCTCGTCCTCATCCTATATAT
58.618
45.833
0.00
0.00
0.00
0.86
1495
1537
1.852067
ATCAAACAACGTCGCAGCCC
61.852
55.000
0.00
0.00
0.00
5.19
1496
1538
2.203153
AAACAACGTCGCAGCCCT
60.203
55.556
0.00
0.00
0.00
5.19
1497
1539
1.822186
AAACAACGTCGCAGCCCTT
60.822
52.632
0.00
0.00
0.00
3.95
1498
1540
1.381165
AAACAACGTCGCAGCCCTTT
61.381
50.000
0.00
0.00
0.00
3.11
1499
1541
1.381165
AACAACGTCGCAGCCCTTTT
61.381
50.000
0.00
0.00
0.00
2.27
1500
1542
1.358759
CAACGTCGCAGCCCTTTTT
59.641
52.632
0.00
0.00
0.00
1.94
1579
1637
3.459828
TGAGAAGAACCCATCACCCATA
58.540
45.455
0.00
0.00
0.00
2.74
1585
1643
5.994416
AGAACCCATCACCCATAAATAGT
57.006
39.130
0.00
0.00
0.00
2.12
1632
1691
2.290514
ACAGTAGCATGCACCACTCAAT
60.291
45.455
21.98
5.09
0.00
2.57
1745
1805
1.135139
GAATACGCTGCAGAGTCCTGA
59.865
52.381
26.96
9.91
43.02
3.86
1755
1815
2.679349
GCAGAGTCCTGATGTTTCCCTC
60.679
54.545
0.00
0.00
43.02
4.30
1813
1873
5.636543
CGAAACTCATAACGTTACCTTTCCT
59.363
40.000
10.81
0.00
0.00
3.36
1853
1913
8.691661
ACTCTAAAAATACCAACAGTTGACAT
57.308
30.769
15.36
4.46
0.00
3.06
1903
2154
8.494433
TCTAGATAATAAAAGGACACTTGCCAT
58.506
33.333
0.00
0.00
36.93
4.40
1942
2208
5.706369
TCTTCAGAAGTCAGGACTAGTACAC
59.294
44.000
8.10
0.00
41.58
2.90
2247
2688
5.008613
TCACAATGTAACAGGAAGCTTGTTC
59.991
40.000
2.10
0.00
39.36
3.18
2539
2989
4.844884
AGTAGAGCAGGAATGGTTTTACC
58.155
43.478
0.00
0.00
39.22
2.85
2618
3068
0.753848
CCGAGTGGGGGTGTGTTTTT
60.754
55.000
0.00
0.00
0.00
1.94
2705
3155
5.509498
AGTATGAGAGTGAGAGAGCTTTCT
58.491
41.667
6.45
6.45
0.00
2.52
2769
3220
3.262420
ACGATGTGATGTTAAGCCTGAC
58.738
45.455
0.00
0.00
0.00
3.51
2955
3406
9.996554
ATATGAAATACATACAGACCGAAATGA
57.003
29.630
0.00
0.00
43.12
2.57
2956
3407
8.731275
ATGAAATACATACAGACCGAAATGAA
57.269
30.769
0.00
0.00
37.46
2.57
2957
3408
8.554835
TGAAATACATACAGACCGAAATGAAA
57.445
30.769
0.00
0.00
0.00
2.69
2958
3409
8.447833
TGAAATACATACAGACCGAAATGAAAC
58.552
33.333
0.00
0.00
0.00
2.78
2959
3410
6.920569
ATACATACAGACCGAAATGAAACC
57.079
37.500
0.00
0.00
0.00
3.27
2960
3411
4.007659
ACATACAGACCGAAATGAAACCC
58.992
43.478
0.00
0.00
0.00
4.11
2961
3412
2.649531
ACAGACCGAAATGAAACCCA
57.350
45.000
0.00
0.00
0.00
4.51
2962
3413
2.227194
ACAGACCGAAATGAAACCCAC
58.773
47.619
0.00
0.00
0.00
4.61
2963
3414
2.226330
CAGACCGAAATGAAACCCACA
58.774
47.619
0.00
0.00
0.00
4.17
2964
3415
2.621055
CAGACCGAAATGAAACCCACAA
59.379
45.455
0.00
0.00
0.00
3.33
2965
3416
2.884639
AGACCGAAATGAAACCCACAAG
59.115
45.455
0.00
0.00
0.00
3.16
2966
3417
1.960689
ACCGAAATGAAACCCACAAGG
59.039
47.619
0.00
0.00
43.78
3.61
2973
3424
1.133199
TGAAACCCACAAGGAGGCAAT
60.133
47.619
0.00
0.00
39.89
3.56
3009
3460
9.018582
CCTCTTCTCAATGTTAATTTCCTTCTT
57.981
33.333
0.00
0.00
0.00
2.52
3015
3466
4.882842
TGTTAATTTCCTTCTTTGGGGC
57.117
40.909
0.00
0.00
0.00
5.80
3024
3475
0.252193
TTCTTTGGGGCAATGGAGGG
60.252
55.000
0.00
0.00
0.00
4.30
3025
3476
1.145900
TCTTTGGGGCAATGGAGGGA
61.146
55.000
0.00
0.00
0.00
4.20
3032
3483
1.632589
GGCAATGGAGGGACAAACTT
58.367
50.000
0.00
0.00
0.00
2.66
3054
3505
4.858850
TGTGTTGGGAGCTTGATCAATAT
58.141
39.130
8.96
0.00
0.00
1.28
3058
3509
6.203723
GTGTTGGGAGCTTGATCAATATCTAC
59.796
42.308
8.96
7.31
32.93
2.59
3060
3511
6.692849
TGGGAGCTTGATCAATATCTACAT
57.307
37.500
8.96
0.00
32.93
2.29
3066
3517
9.486497
GAGCTTGATCAATATCTACATGAGAAA
57.514
33.333
8.96
0.00
37.85
2.52
3079
3530
2.795231
TGAGAAAGAGGATGCTTGGG
57.205
50.000
0.00
0.00
0.00
4.12
3091
3544
1.927487
TGCTTGGGCACATCTTCAAT
58.073
45.000
0.00
0.00
44.28
2.57
3125
3578
6.591001
AGAAAATCCTATCTCCAAGCTCTTC
58.409
40.000
0.00
0.00
0.00
2.87
3139
3592
2.170187
AGCTCTTCGATCTCCTGCAATT
59.830
45.455
0.00
0.00
0.00
2.32
3144
3597
5.188434
TCTTCGATCTCCTGCAATTTTCAT
58.812
37.500
0.00
0.00
0.00
2.57
3151
3604
3.881688
CTCCTGCAATTTTCATCGATCCT
59.118
43.478
0.00
0.00
0.00
3.24
3157
3610
4.790766
GCAATTTTCATCGATCCTCGCAAT
60.791
41.667
0.00
0.00
40.21
3.56
3163
3616
3.006217
TCATCGATCCTCGCAATTCTGAT
59.994
43.478
0.00
0.00
40.21
2.90
3166
3619
2.288702
CGATCCTCGCAATTCTGATCCT
60.289
50.000
0.00
0.00
31.14
3.24
3167
3620
3.057245
CGATCCTCGCAATTCTGATCCTA
60.057
47.826
0.00
0.00
31.14
2.94
3172
3625
4.220382
CCTCGCAATTCTGATCCTAGATCT
59.780
45.833
0.00
0.00
0.00
2.75
3175
3628
4.620609
CGCAATTCTGATCCTAGATCTTCG
59.379
45.833
0.00
0.00
0.00
3.79
3176
3629
4.388469
GCAATTCTGATCCTAGATCTTCGC
59.612
45.833
0.00
0.00
0.00
4.70
3194
3647
4.295857
TCGCAAAATCACCATGATCATG
57.704
40.909
25.97
25.97
35.76
3.07
3196
3649
3.490249
CGCAAAATCACCATGATCATGCT
60.490
43.478
27.24
13.63
41.86
3.79
3204
3657
2.105477
ACCATGATCATGCTACCAGGAC
59.895
50.000
27.24
0.00
34.21
3.85
3209
3662
1.583556
TCATGCTACCAGGACACCAT
58.416
50.000
0.00
0.00
0.00
3.55
3210
3663
1.486310
TCATGCTACCAGGACACCATC
59.514
52.381
0.00
0.00
0.00
3.51
3211
3664
1.210234
CATGCTACCAGGACACCATCA
59.790
52.381
0.00
0.00
0.00
3.07
3212
3665
1.357137
TGCTACCAGGACACCATCAA
58.643
50.000
0.00
0.00
0.00
2.57
3213
3666
1.003118
TGCTACCAGGACACCATCAAC
59.997
52.381
0.00
0.00
0.00
3.18
3214
3667
2.007049
GCTACCAGGACACCATCAACG
61.007
57.143
0.00
0.00
0.00
4.10
3215
3668
0.611200
TACCAGGACACCATCAACGG
59.389
55.000
0.00
0.00
0.00
4.44
3216
3669
1.377202
CCAGGACACCATCAACGGG
60.377
63.158
0.00
0.00
0.00
5.28
3217
3670
1.676968
CAGGACACCATCAACGGGA
59.323
57.895
0.00
0.00
0.00
5.14
3218
3671
0.391661
CAGGACACCATCAACGGGAG
60.392
60.000
0.00
0.00
0.00
4.30
3219
3672
1.745489
GGACACCATCAACGGGAGC
60.745
63.158
0.00
0.00
0.00
4.70
3220
3673
1.003839
GACACCATCAACGGGAGCA
60.004
57.895
0.00
0.00
0.00
4.26
3221
3674
1.003355
ACACCATCAACGGGAGCAG
60.003
57.895
0.00
0.00
0.00
4.24
3222
3675
1.296392
CACCATCAACGGGAGCAGA
59.704
57.895
0.00
0.00
0.00
4.26
3223
3676
1.021390
CACCATCAACGGGAGCAGAC
61.021
60.000
0.00
0.00
0.00
3.51
3224
3677
1.450312
CCATCAACGGGAGCAGACC
60.450
63.158
0.00
0.00
0.00
3.85
3225
3678
1.599047
CATCAACGGGAGCAGACCT
59.401
57.895
0.00
0.00
0.00
3.85
3260
3713
1.107114
TGCCCACAATGTTGTCGTTT
58.893
45.000
0.00
0.00
39.91
3.60
3266
3719
4.466828
CCACAATGTTGTCGTTTCTGATC
58.533
43.478
0.00
0.00
39.91
2.92
3273
3726
0.806492
GTCGTTTCTGATCGGAGGGC
60.806
60.000
4.04
0.00
0.00
5.19
3277
3730
3.672338
TTCTGATCGGAGGGCGGGA
62.672
63.158
4.04
0.00
0.00
5.14
3278
3731
2.919856
CTGATCGGAGGGCGGGAT
60.920
66.667
0.00
0.00
0.00
3.85
3279
3732
2.917751
TGATCGGAGGGCGGGATC
60.918
66.667
0.00
0.00
37.63
3.36
3281
3734
1.304217
GATCGGAGGGCGGGATCTA
60.304
63.158
0.00
0.00
34.99
1.98
3282
3735
1.596895
GATCGGAGGGCGGGATCTAC
61.597
65.000
0.00
0.00
34.99
2.59
3283
3736
3.671411
CGGAGGGCGGGATCTACG
61.671
72.222
6.08
6.08
0.00
3.51
3315
3770
3.202818
ACAGGCCCACATGAATCATTCTA
59.797
43.478
0.00
0.00
0.00
2.10
3322
3777
4.512571
CCACATGAATCATTCTATGTGCGA
59.487
41.667
23.81
0.00
41.91
5.10
3324
3779
6.077838
CACATGAATCATTCTATGTGCGATG
58.922
40.000
20.50
8.46
39.67
3.84
3333
3788
3.225940
TCTATGTGCGATGTCTCCTCAT
58.774
45.455
0.00
0.00
0.00
2.90
3361
3816
1.892338
CAGGCCCAATTGCACGAAT
59.108
52.632
0.00
0.00
0.00
3.34
3374
3829
2.351418
TGCACGAATCGGATCAAATGTC
59.649
45.455
7.80
0.00
0.00
3.06
3375
3830
2.597505
GCACGAATCGGATCAAATGTCG
60.598
50.000
7.80
6.08
0.00
4.35
3384
3839
6.102006
TCGGATCAAATGTCGAAAATGTAC
57.898
37.500
0.00
0.00
0.00
2.90
3397
3852
1.140312
AATGTACGAGATGGGGCCAT
58.860
50.000
4.39
0.00
39.69
4.40
3408
3863
1.229076
GGGGCCATATTGAACGGGT
59.771
57.895
4.39
0.00
0.00
5.28
3412
3867
1.408266
GGCCATATTGAACGGGTCTGT
60.408
52.381
0.00
0.00
0.00
3.41
3416
3871
3.377172
CCATATTGAACGGGTCTGTTTCC
59.623
47.826
0.00
0.00
30.75
3.13
3418
3873
0.547075
TTGAACGGGTCTGTTTCCCA
59.453
50.000
0.00
0.00
44.81
4.37
3420
3875
1.226030
GAACGGGTCTGTTTCCCACG
61.226
60.000
1.91
0.00
44.81
4.94
3427
3882
3.801068
CTGTTTCCCACGGGCCCAA
62.801
63.158
24.92
4.68
34.68
4.12
3428
3883
2.283604
GTTTCCCACGGGCCCAAT
60.284
61.111
24.92
6.05
34.68
3.16
3438
3893
4.066139
GGCCCAATCCAGCCCAGT
62.066
66.667
0.00
0.00
43.76
4.00
3446
3901
0.106819
ATCCAGCCCAGTCAATGAGC
60.107
55.000
0.00
0.00
0.00
4.26
3455
3910
3.209410
CCAGTCAATGAGCCCAATCTAC
58.791
50.000
0.00
0.00
0.00
2.59
3480
3935
2.499685
CCCGAGGGTCGACATTCC
59.500
66.667
18.91
9.63
43.74
3.01
3486
3941
2.577059
GGTCGACATTCCGAGGCA
59.423
61.111
18.91
0.00
39.43
4.75
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
3
4
2.509052
TCCACAAGTCACGACAGAAG
57.491
50.000
0.00
0.00
0.00
2.85
6
7
7.539712
AATAATATTCCACAAGTCACGACAG
57.460
36.000
0.00
0.00
0.00
3.51
10
11
8.450964
AGAACAAATAATATTCCACAAGTCACG
58.549
33.333
0.00
0.00
0.00
4.35
27
28
7.180229
TCACCCTTGATGAGACTAGAACAAATA
59.820
37.037
0.00
0.00
0.00
1.40
30
31
4.838423
TCACCCTTGATGAGACTAGAACAA
59.162
41.667
0.00
0.00
0.00
2.83
35
36
5.819901
GGAATTTCACCCTTGATGAGACTAG
59.180
44.000
0.00
0.00
0.00
2.57
37
38
4.568592
GGGAATTTCACCCTTGATGAGACT
60.569
45.833
0.00
0.00
43.65
3.24
60
61
1.209504
TGTTCGGGGCATAGGAAGAAG
59.790
52.381
0.00
0.00
0.00
2.85
68
69
2.917933
CAAATCTCTGTTCGGGGCATA
58.082
47.619
0.00
0.00
0.00
3.14
100
101
5.598830
TCGGGAAGAGCTCAAGAGTTATATT
59.401
40.000
17.77
0.00
0.00
1.28
115
116
0.386113
GGATCGAAGGTCGGGAAGAG
59.614
60.000
0.00
0.00
40.88
2.85
122
123
0.248539
GAAGGACGGATCGAAGGTCG
60.249
60.000
0.00
0.00
42.10
4.79
129
130
2.586258
ACAAGATGAAGGACGGATCG
57.414
50.000
0.00
0.00
0.00
3.69
136
137
2.978978
TGGTCTCCAACAAGATGAAGGA
59.021
45.455
0.00
0.00
0.00
3.36
168
169
2.213499
CAATGGTCGGCATAGGAAGAC
58.787
52.381
0.00
0.00
0.00
3.01
190
191
4.020573
AGACACGATACTTCCAATTGGTCA
60.021
41.667
23.76
11.18
36.34
4.02
200
201
5.448904
GGGAGACAGTAAGACACGATACTTC
60.449
48.000
0.00
0.00
30.09
3.01
212
213
5.667539
TCATCTTGAAGGGAGACAGTAAG
57.332
43.478
0.00
0.00
0.00
2.34
239
240
4.042187
AGGTGAAGTACAAGATCCAAAGCT
59.958
41.667
0.00
0.00
0.00
3.74
332
334
5.007430
GTCAAACGGATGTATCTAGACGAGA
59.993
44.000
0.00
0.00
39.01
4.04
356
358
4.347000
TCTCCATCGGGAATTAGTTAAGGG
59.653
45.833
0.00
0.00
44.38
3.95
358
360
7.048512
ACTTTCTCCATCGGGAATTAGTTAAG
58.951
38.462
0.00
0.00
44.38
1.85
395
397
2.193087
TTAGCGAGGCCCTTGAACCC
62.193
60.000
0.80
0.00
0.00
4.11
403
405
2.044555
GGTGGTTTTAGCGAGGCCC
61.045
63.158
0.00
0.00
0.00
5.80
444
446
5.204292
AGGTATGTGTGATCTCAGCTTCTA
58.796
41.667
0.00
0.00
0.00
2.10
449
451
3.624861
CCAAAGGTATGTGTGATCTCAGC
59.375
47.826
0.00
0.00
0.00
4.26
550
552
4.389576
CGTGCTCGCTTGGTTGCC
62.390
66.667
0.00
0.00
0.00
4.52
795
797
0.108138
GAGTGGGACCCGATGAACAG
60.108
60.000
5.91
0.00
0.00
3.16
925
933
7.739995
AGGCATGTGTGTGTATATATAGGAT
57.260
36.000
0.00
0.00
0.00
3.24
935
945
2.639970
GCCAAGGCATGTGTGTGTA
58.360
52.632
6.14
0.00
41.49
2.90
1338
1363
5.120830
AGCTACTCGCATAACAAGAAAACAG
59.879
40.000
0.00
0.00
42.61
3.16
1339
1364
4.994852
AGCTACTCGCATAACAAGAAAACA
59.005
37.500
0.00
0.00
42.61
2.83
1340
1365
5.446073
GGAGCTACTCGCATAACAAGAAAAC
60.446
44.000
0.00
0.00
42.61
2.43
1341
1366
4.630069
GGAGCTACTCGCATAACAAGAAAA
59.370
41.667
0.00
0.00
42.61
2.29
1342
1367
4.081642
AGGAGCTACTCGCATAACAAGAAA
60.082
41.667
0.00
0.00
42.61
2.52
1343
1368
3.447586
AGGAGCTACTCGCATAACAAGAA
59.552
43.478
0.00
0.00
42.61
2.52
1344
1369
3.024547
AGGAGCTACTCGCATAACAAGA
58.975
45.455
0.00
0.00
42.61
3.02
1345
1370
3.444703
AGGAGCTACTCGCATAACAAG
57.555
47.619
0.00
0.00
42.61
3.16
1346
1371
6.264744
AGTTATAGGAGCTACTCGCATAACAA
59.735
38.462
23.28
0.00
38.63
2.83
1347
1372
5.768662
AGTTATAGGAGCTACTCGCATAACA
59.231
40.000
23.28
0.00
38.63
2.41
1498
1540
6.487668
TCACTGATGCAAGAGAATGAGAAAAA
59.512
34.615
0.00
0.00
0.00
1.94
1499
1541
5.999600
TCACTGATGCAAGAGAATGAGAAAA
59.000
36.000
0.00
0.00
0.00
2.29
1500
1542
5.554070
TCACTGATGCAAGAGAATGAGAAA
58.446
37.500
0.00
0.00
0.00
2.52
1501
1543
5.156608
TCACTGATGCAAGAGAATGAGAA
57.843
39.130
0.00
0.00
0.00
2.87
1502
1544
4.222366
ACTCACTGATGCAAGAGAATGAGA
59.778
41.667
17.66
0.00
36.63
3.27
1503
1545
4.330347
CACTCACTGATGCAAGAGAATGAG
59.670
45.833
12.04
12.04
38.60
2.90
1504
1546
4.251268
CACTCACTGATGCAAGAGAATGA
58.749
43.478
0.00
0.00
32.59
2.57
1505
1547
4.001652
ACACTCACTGATGCAAGAGAATG
58.998
43.478
0.00
0.00
32.59
2.67
1506
1548
4.283363
ACACTCACTGATGCAAGAGAAT
57.717
40.909
0.00
0.00
32.59
2.40
1507
1549
3.758755
ACACTCACTGATGCAAGAGAA
57.241
42.857
0.00
0.00
32.59
2.87
1508
1550
3.181462
ACAACACTCACTGATGCAAGAGA
60.181
43.478
0.00
0.00
32.59
3.10
1509
1551
3.136763
ACAACACTCACTGATGCAAGAG
58.863
45.455
0.00
0.00
0.00
2.85
1585
1643
7.867305
TTGACATTTACTTCACACCAAACTA
57.133
32.000
0.00
0.00
0.00
2.24
1632
1691
7.094508
TGCAAGTGAAGATGTGAAGTAAAAA
57.905
32.000
0.00
0.00
0.00
1.94
1694
1754
4.223032
ACACATCTGGGAGTAAAACGATCT
59.777
41.667
0.00
0.00
0.00
2.75
1871
1931
6.931840
GTGTCCTTTTATTATCTAGAGCAGGG
59.068
42.308
0.00
0.00
0.00
4.45
1903
2154
1.874345
GAAGAAGACGGACTGGGCGA
61.874
60.000
0.00
0.00
0.00
5.54
2014
2282
4.629634
TCAGTATGGTGAACTAAATGTGCG
59.370
41.667
0.00
0.00
36.16
5.34
2247
2688
2.827322
TCAGTTCCCCTGCAATTTGATG
59.173
45.455
0.00
0.00
41.25
3.07
2273
2714
1.065782
CCGGTCACCATGGACAACATA
60.066
52.381
21.47
0.00
37.84
2.29
2277
2718
2.753701
CCCGGTCACCATGGACAA
59.246
61.111
21.47
0.00
39.59
3.18
2539
2989
6.086502
TGTTCCGCAACGAAAATTAATAAACG
59.913
34.615
0.00
0.00
34.95
3.60
2587
3037
0.833287
CCACTCGGACCATTCCAGAT
59.167
55.000
0.00
0.00
43.00
2.90
2659
3109
1.007118
AGGGACCCTTATTTTGCCCTG
59.993
52.381
7.44
0.00
43.97
4.45
2705
3155
7.611770
ACACTAGCAACTACTAACATGATCAA
58.388
34.615
0.00
0.00
0.00
2.57
2769
3220
1.586154
GGGACAACATGAGCCCAACG
61.586
60.000
0.00
0.00
36.20
4.10
2929
3380
9.996554
TCATTTCGGTCTGTATGTATTTCATAT
57.003
29.630
0.00
0.00
40.54
1.78
2930
3381
9.825109
TTCATTTCGGTCTGTATGTATTTCATA
57.175
29.630
0.00
0.00
37.91
2.15
2931
3382
8.731275
TTCATTTCGGTCTGTATGTATTTCAT
57.269
30.769
0.00
0.00
40.25
2.57
2932
3383
8.447833
GTTTCATTTCGGTCTGTATGTATTTCA
58.552
33.333
0.00
0.00
0.00
2.69
2933
3384
7.908601
GGTTTCATTTCGGTCTGTATGTATTTC
59.091
37.037
0.00
0.00
0.00
2.17
2934
3385
7.148137
GGGTTTCATTTCGGTCTGTATGTATTT
60.148
37.037
0.00
0.00
0.00
1.40
2935
3386
6.317893
GGGTTTCATTTCGGTCTGTATGTATT
59.682
38.462
0.00
0.00
0.00
1.89
2936
3387
5.820947
GGGTTTCATTTCGGTCTGTATGTAT
59.179
40.000
0.00
0.00
0.00
2.29
2937
3388
5.180271
GGGTTTCATTTCGGTCTGTATGTA
58.820
41.667
0.00
0.00
0.00
2.29
2938
3389
4.007659
GGGTTTCATTTCGGTCTGTATGT
58.992
43.478
0.00
0.00
0.00
2.29
2939
3390
4.006989
TGGGTTTCATTTCGGTCTGTATG
58.993
43.478
0.00
0.00
0.00
2.39
2940
3391
4.007659
GTGGGTTTCATTTCGGTCTGTAT
58.992
43.478
0.00
0.00
0.00
2.29
2941
3392
3.181453
TGTGGGTTTCATTTCGGTCTGTA
60.181
43.478
0.00
0.00
0.00
2.74
2942
3393
2.227194
GTGGGTTTCATTTCGGTCTGT
58.773
47.619
0.00
0.00
0.00
3.41
2943
3394
2.226330
TGTGGGTTTCATTTCGGTCTG
58.774
47.619
0.00
0.00
0.00
3.51
2944
3395
2.649531
TGTGGGTTTCATTTCGGTCT
57.350
45.000
0.00
0.00
0.00
3.85
2945
3396
2.030274
CCTTGTGGGTTTCATTTCGGTC
60.030
50.000
0.00
0.00
0.00
4.79
2946
3397
1.960689
CCTTGTGGGTTTCATTTCGGT
59.039
47.619
0.00
0.00
0.00
4.69
2947
3398
2.228822
CTCCTTGTGGGTTTCATTTCGG
59.771
50.000
0.00
0.00
36.25
4.30
2948
3399
2.228822
CCTCCTTGTGGGTTTCATTTCG
59.771
50.000
0.00
0.00
36.25
3.46
2949
3400
2.029020
GCCTCCTTGTGGGTTTCATTTC
60.029
50.000
0.00
0.00
36.25
2.17
2950
3401
1.970640
GCCTCCTTGTGGGTTTCATTT
59.029
47.619
0.00
0.00
36.25
2.32
2951
3402
1.133199
TGCCTCCTTGTGGGTTTCATT
60.133
47.619
0.00
0.00
36.25
2.57
2952
3403
0.482446
TGCCTCCTTGTGGGTTTCAT
59.518
50.000
0.00
0.00
36.25
2.57
2953
3404
0.260230
TTGCCTCCTTGTGGGTTTCA
59.740
50.000
0.00
0.00
36.25
2.69
2954
3405
1.632589
ATTGCCTCCTTGTGGGTTTC
58.367
50.000
0.00
0.00
36.25
2.78
2955
3406
2.990740
TATTGCCTCCTTGTGGGTTT
57.009
45.000
0.00
0.00
36.25
3.27
2956
3407
2.582636
AGATATTGCCTCCTTGTGGGTT
59.417
45.455
0.00
0.00
36.25
4.11
2957
3408
2.173569
GAGATATTGCCTCCTTGTGGGT
59.826
50.000
0.00
0.00
36.25
4.51
2958
3409
2.441001
AGAGATATTGCCTCCTTGTGGG
59.559
50.000
0.00
0.00
0.00
4.61
2959
3410
3.390639
AGAGAGATATTGCCTCCTTGTGG
59.609
47.826
0.00
0.00
0.00
4.17
2960
3411
4.502950
GGAGAGAGATATTGCCTCCTTGTG
60.503
50.000
0.00
0.00
40.07
3.33
2961
3412
3.645687
GGAGAGAGATATTGCCTCCTTGT
59.354
47.826
0.00
0.00
40.07
3.16
2962
3413
3.007831
GGGAGAGAGATATTGCCTCCTTG
59.992
52.174
0.00
0.00
42.21
3.61
2963
3414
3.116395
AGGGAGAGAGATATTGCCTCCTT
60.116
47.826
0.00
0.00
42.21
3.36
2964
3415
2.454381
AGGGAGAGAGATATTGCCTCCT
59.546
50.000
0.00
0.00
42.21
3.69
2965
3416
2.831526
GAGGGAGAGAGATATTGCCTCC
59.168
54.545
0.00
0.00
41.88
4.30
2966
3417
3.778265
AGAGGGAGAGAGATATTGCCTC
58.222
50.000
4.21
4.21
46.32
4.70
2973
3424
6.024563
ACATTGAGAAGAGGGAGAGAGATA
57.975
41.667
0.00
0.00
0.00
1.98
3009
3460
1.734420
TTGTCCCTCCATTGCCCCAA
61.734
55.000
0.00
0.00
0.00
4.12
3015
3466
2.958355
ACACAAGTTTGTCCCTCCATTG
59.042
45.455
0.00
0.00
39.91
2.82
3024
3475
2.024414
AGCTCCCAACACAAGTTTGTC
58.976
47.619
0.00
0.00
39.91
3.18
3025
3476
2.143876
AGCTCCCAACACAAGTTTGT
57.856
45.000
0.00
0.00
43.36
2.83
3032
3483
2.655090
TTGATCAAGCTCCCAACACA
57.345
45.000
3.38
0.00
0.00
3.72
3054
3505
5.396101
CCAAGCATCCTCTTTCTCATGTAGA
60.396
44.000
0.00
0.00
0.00
2.59
3058
3509
2.950309
CCCAAGCATCCTCTTTCTCATG
59.050
50.000
0.00
0.00
0.00
3.07
3060
3511
1.340405
GCCCAAGCATCCTCTTTCTCA
60.340
52.381
0.00
0.00
39.53
3.27
3079
3530
1.002033
GGATGGCGATTGAAGATGTGC
60.002
52.381
0.00
0.00
0.00
4.57
3081
3532
3.643320
TCTAGGATGGCGATTGAAGATGT
59.357
43.478
0.00
0.00
0.00
3.06
3091
3544
5.087323
AGATAGGATTTTCTAGGATGGCGA
58.913
41.667
0.00
0.00
0.00
5.54
3125
3578
3.557185
TCGATGAAAATTGCAGGAGATCG
59.443
43.478
0.00
0.00
34.25
3.69
3151
3604
5.563671
CGAAGATCTAGGATCAGAATTGCGA
60.564
44.000
0.00
0.00
0.00
5.10
3157
3610
5.598416
TTTGCGAAGATCTAGGATCAGAA
57.402
39.130
0.00
0.00
0.00
3.02
3163
3616
4.081142
TGGTGATTTTGCGAAGATCTAGGA
60.081
41.667
0.00
0.00
0.00
2.94
3166
3619
5.427378
TCATGGTGATTTTGCGAAGATCTA
58.573
37.500
0.00
0.00
0.00
1.98
3167
3620
4.264253
TCATGGTGATTTTGCGAAGATCT
58.736
39.130
0.00
0.00
0.00
2.75
3172
3625
4.674475
CATGATCATGGTGATTTTGCGAA
58.326
39.130
25.37
0.00
37.20
4.70
3175
3628
4.054780
AGCATGATCATGGTGATTTTGC
57.945
40.909
33.50
19.38
46.50
3.68
3194
3647
1.739067
GTTGATGGTGTCCTGGTAGC
58.261
55.000
0.00
0.00
0.00
3.58
3196
3649
0.611200
CCGTTGATGGTGTCCTGGTA
59.389
55.000
0.00
0.00
0.00
3.25
3204
3657
1.021390
GTCTGCTCCCGTTGATGGTG
61.021
60.000
0.00
0.00
0.00
4.17
3209
3662
1.118965
TGAAGGTCTGCTCCCGTTGA
61.119
55.000
0.00
0.00
0.00
3.18
3210
3663
0.951040
GTGAAGGTCTGCTCCCGTTG
60.951
60.000
0.00
0.00
0.00
4.10
3211
3664
1.122019
AGTGAAGGTCTGCTCCCGTT
61.122
55.000
0.00
0.00
0.00
4.44
3212
3665
1.534235
AGTGAAGGTCTGCTCCCGT
60.534
57.895
0.00
0.00
0.00
5.28
3213
3666
1.216710
GAGTGAAGGTCTGCTCCCG
59.783
63.158
0.00
0.00
0.00
5.14
3214
3667
1.216710
CGAGTGAAGGTCTGCTCCC
59.783
63.158
0.00
0.00
0.00
4.30
3215
3668
1.216710
CCGAGTGAAGGTCTGCTCC
59.783
63.158
0.00
0.00
0.00
4.70
3216
3669
1.216710
CCCGAGTGAAGGTCTGCTC
59.783
63.158
0.00
0.00
0.00
4.26
3217
3670
2.948720
GCCCGAGTGAAGGTCTGCT
61.949
63.158
0.00
0.00
0.00
4.24
3218
3671
2.435059
GCCCGAGTGAAGGTCTGC
60.435
66.667
0.00
0.00
0.00
4.26
3219
3672
0.036010
AATGCCCGAGTGAAGGTCTG
60.036
55.000
0.00
0.00
0.00
3.51
3220
3673
1.568504
TAATGCCCGAGTGAAGGTCT
58.431
50.000
0.00
0.00
0.00
3.85
3221
3674
2.396590
TTAATGCCCGAGTGAAGGTC
57.603
50.000
0.00
0.00
0.00
3.85
3222
3675
2.643551
CATTAATGCCCGAGTGAAGGT
58.356
47.619
1.74
0.00
0.00
3.50
3247
3700
3.431912
TCCGATCAGAAACGACAACATTG
59.568
43.478
0.00
0.00
0.00
2.82
3252
3705
1.067142
CCCTCCGATCAGAAACGACAA
60.067
52.381
0.00
0.00
0.00
3.18
3253
3706
0.530744
CCCTCCGATCAGAAACGACA
59.469
55.000
0.00
0.00
0.00
4.35
3255
3708
1.515954
GCCCTCCGATCAGAAACGA
59.484
57.895
0.00
0.00
0.00
3.85
3260
3713
3.452621
ATCCCGCCCTCCGATCAGA
62.453
63.158
0.00
0.00
40.02
3.27
3266
3719
3.671411
CGTAGATCCCGCCCTCCG
61.671
72.222
0.00
0.00
0.00
4.63
3273
3726
1.847818
TTGAATTCGCGTAGATCCCG
58.152
50.000
5.77
0.00
0.00
5.14
3277
3730
2.351726
GCCTGTTTGAATTCGCGTAGAT
59.648
45.455
5.77
0.00
0.00
1.98
3278
3731
1.730064
GCCTGTTTGAATTCGCGTAGA
59.270
47.619
5.77
0.00
0.00
2.59
3279
3732
1.202031
GGCCTGTTTGAATTCGCGTAG
60.202
52.381
5.77
0.00
0.00
3.51
3281
3734
1.579429
GGCCTGTTTGAATTCGCGT
59.421
52.632
5.77
0.00
0.00
6.01
3282
3735
1.154035
GGGCCTGTTTGAATTCGCG
60.154
57.895
0.84
0.00
0.00
5.87
3283
3736
0.388520
GTGGGCCTGTTTGAATTCGC
60.389
55.000
4.53
0.00
0.00
4.70
3285
3738
2.562298
TCATGTGGGCCTGTTTGAATTC
59.438
45.455
4.53
0.00
0.00
2.17
3286
3739
2.607499
TCATGTGGGCCTGTTTGAATT
58.393
42.857
4.53
0.00
0.00
2.17
3287
3740
2.307496
TCATGTGGGCCTGTTTGAAT
57.693
45.000
4.53
0.00
0.00
2.57
3315
3770
1.202615
CCATGAGGAGACATCGCACAT
60.203
52.381
0.00
0.00
36.89
3.21
3322
3777
1.983691
CTATGGCCCATGAGGAGACAT
59.016
52.381
6.46
0.00
37.51
3.06
3324
3779
0.036022
GCTATGGCCCATGAGGAGAC
59.964
60.000
6.46
0.00
38.24
3.36
3352
3807
2.746904
ACATTTGATCCGATTCGTGCAA
59.253
40.909
5.20
3.70
0.00
4.08
3361
3816
5.220322
CGTACATTTTCGACATTTGATCCGA
60.220
40.000
0.00
0.00
0.00
4.55
3374
3829
1.597663
GCCCCATCTCGTACATTTTCG
59.402
52.381
0.00
0.00
0.00
3.46
3375
3830
1.947456
GGCCCCATCTCGTACATTTTC
59.053
52.381
0.00
0.00
0.00
2.29
3384
3839
2.154462
GTTCAATATGGCCCCATCTCG
58.846
52.381
0.00
0.00
37.82
4.04
3397
3852
3.062122
GGGAAACAGACCCGTTCAATA
57.938
47.619
0.00
0.00
37.85
1.90
3408
3863
3.961414
GGGCCCGTGGGAAACAGA
61.961
66.667
5.69
0.00
37.50
3.41
3412
3867
2.036572
GATTGGGCCCGTGGGAAA
59.963
61.111
19.37
4.57
37.50
3.13
3436
3891
3.683847
GCTGTAGATTGGGCTCATTGACT
60.684
47.826
0.00
0.00
0.00
3.41
3438
3893
2.742856
CGCTGTAGATTGGGCTCATTGA
60.743
50.000
0.00
0.00
0.00
2.57
3446
3901
3.272334
GCGGCGCTGTAGATTGGG
61.272
66.667
26.86
0.00
0.00
4.12
3468
3923
2.202892
GCCTCGGAATGTCGACCC
60.203
66.667
14.12
6.16
35.18
4.46
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.