Multiple sequence alignment - TraesCS1B01G226000
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
TraesCS1B01G226000
chr1B
100.000
3320
0
0
1
3320
405907518
405904199
0.000000e+00
6131.0
1
TraesCS1B01G226000
chr1B
84.706
340
43
4
1991
2321
406037238
406037577
6.870000e-87
331.0
2
TraesCS1B01G226000
chr1B
86.979
192
25
0
1534
1725
405525542
405525351
2.010000e-52
217.0
3
TraesCS1B01G226000
chr1D
95.312
1792
49
9
1442
3220
300718921
300717152
0.000000e+00
2811.0
4
TraesCS1B01G226000
chr1D
91.502
859
52
11
549
1397
300719768
300718921
0.000000e+00
1162.0
5
TraesCS1B01G226000
chr1D
90.426
564
25
7
9
556
300720476
300719926
0.000000e+00
715.0
6
TraesCS1B01G226000
chr1D
83.429
350
47
5
1981
2321
300859818
300860165
6.910000e-82
315.0
7
TraesCS1B01G226000
chr1D
86.458
192
26
0
1534
1725
300326303
300326112
9.330000e-51
211.0
8
TraesCS1B01G226000
chr1A
91.654
1905
80
32
1442
3317
375113226
375111372
0.000000e+00
2564.0
9
TraesCS1B01G226000
chr1A
93.424
806
33
6
603
1397
375114022
375113226
0.000000e+00
1177.0
10
TraesCS1B01G226000
chr1A
89.912
565
26
9
9
559
375114689
375114142
0.000000e+00
699.0
11
TraesCS1B01G226000
chr1A
84.571
350
43
5
1981
2321
375468969
375469316
1.480000e-88
337.0
12
TraesCS1B01G226000
chr1A
87.097
186
24
0
1534
1719
374690176
374689991
9.330000e-51
211.0
13
TraesCS1B01G226000
chr4B
83.578
341
44
4
1990
2318
659329680
659329340
3.220000e-80
309.0
14
TraesCS1B01G226000
chr4B
82.781
151
21
5
2135
2283
659521548
659521695
2.690000e-26
130.0
15
TraesCS1B01G226000
chr5A
82.402
358
45
6
1979
2318
694760236
694760593
2.500000e-76
296.0
16
TraesCS1B01G226000
chr5A
81.564
179
30
3
2135
2312
693673605
693673429
9.600000e-31
145.0
17
TraesCS1B01G226000
chr5A
87.500
104
13
0
1277
1380
693674683
693674580
1.620000e-23
121.0
18
TraesCS1B01G226000
chr5A
91.071
56
5
0
1121
1176
693674746
693674691
3.550000e-10
76.8
19
TraesCS1B01G226000
chr4D
80.802
349
46
7
1991
2318
508501905
508502253
1.530000e-63
254.0
20
TraesCS1B01G226000
chr4D
80.447
179
32
3
2135
2312
508431517
508431341
2.080000e-27
134.0
21
TraesCS1B01G226000
chr4D
88.462
104
12
0
1277
1380
508432609
508432506
3.480000e-25
126.0
22
TraesCS1B01G226000
chrUn
86.364
176
24
0
1550
1725
76409314
76409489
3.380000e-45
193.0
23
TraesCS1B01G226000
chr6D
86.364
176
24
0
1550
1725
15551144
15550969
3.380000e-45
193.0
24
TraesCS1B01G226000
chr6D
86.364
176
24
0
1550
1725
15586362
15586187
3.380000e-45
193.0
25
TraesCS1B01G226000
chr6D
78.042
337
50
13
1997
2312
276456215
276455882
1.220000e-44
191.0
26
TraesCS1B01G226000
chr6A
86.364
176
24
0
1550
1725
16338192
16338367
3.380000e-45
193.0
27
TraesCS1B01G226000
chr6A
84.298
121
14
4
1268
1385
399722247
399722365
2.710000e-21
113.0
28
TraesCS1B01G226000
chr3B
85.950
121
12
4
1268
1385
766631535
766631653
1.250000e-24
124.0
29
TraesCS1B01G226000
chr3B
73.754
301
55
15
1992
2268
6118431
6118731
2.730000e-16
97.1
30
TraesCS1B01G226000
chr3D
86.087
115
12
3
1268
1380
575726148
575726260
1.620000e-23
121.0
31
TraesCS1B01G226000
chr6B
85.000
120
13
4
1268
1384
438386658
438386541
2.090000e-22
117.0
32
TraesCS1B01G226000
chr3A
85.217
115
13
3
1268
1380
711218118
711218230
7.530000e-22
115.0
33
TraesCS1B01G226000
chr4A
100.000
31
0
0
3270
3300
159296915
159296945
1.290000e-04
58.4
34
TraesCS1B01G226000
chr2D
100.000
28
0
0
3270
3297
626109424
626109451
6.000000e-03
52.8
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
TraesCS1B01G226000
chr1B
405904199
405907518
3319
True
6131.000000
6131
100.000000
1
3320
1
chr1B.!!$R2
3319
1
TraesCS1B01G226000
chr1D
300717152
300720476
3324
True
1562.666667
2811
92.413333
9
3220
3
chr1D.!!$R2
3211
2
TraesCS1B01G226000
chr1A
375111372
375114689
3317
True
1480.000000
2564
91.663333
9
3317
3
chr1A.!!$R2
3308
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
135
139
0.033642
TACGTGATTCGGTGGTTGCA
59.966
50.0
0.0
0.0
44.69
4.08
F
988
1293
0.165511
CACAAGCTCGAAGAAGCAGC
59.834
55.0
0.0
0.0
34.09
5.25
F
1500
1823
0.546122
TGGAGCTGGTGAAACAGTGT
59.454
50.0
0.0
0.0
39.98
3.55
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
1837
2166
0.033920
GTCCCAGTTAAACCGGTCGT
59.966
55.0
8.04
0.7
0.0
4.34
R
1947
2279
0.035176
GCAACCCATGTGCCATTGTT
59.965
50.0
0.00
0.0
0.0
2.83
R
2603
2951
0.191064
ACTGAGGGAGGGACAACAGA
59.809
55.0
0.00
0.0
0.0
3.41
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
119
123
1.129251
TCTACGCAACTTCGTCCTACG
59.871
52.381
0.00
0.00
43.15
3.51
133
137
1.067425
TCCTACGTGATTCGGTGGTTG
60.067
52.381
0.00
0.00
44.69
3.77
134
138
0.719465
CTACGTGATTCGGTGGTTGC
59.281
55.000
0.00
0.00
44.69
4.17
135
139
0.033642
TACGTGATTCGGTGGTTGCA
59.966
50.000
0.00
0.00
44.69
4.08
136
140
1.227999
ACGTGATTCGGTGGTTGCAG
61.228
55.000
0.00
0.00
44.69
4.41
137
141
0.948623
CGTGATTCGGTGGTTGCAGA
60.949
55.000
0.00
0.00
35.71
4.26
138
142
0.798776
GTGATTCGGTGGTTGCAGAG
59.201
55.000
0.00
0.00
0.00
3.35
139
143
0.684535
TGATTCGGTGGTTGCAGAGA
59.315
50.000
0.00
0.00
0.00
3.10
140
144
1.079503
GATTCGGTGGTTGCAGAGAC
58.920
55.000
0.00
0.00
0.00
3.36
141
145
0.396435
ATTCGGTGGTTGCAGAGACA
59.604
50.000
0.00
0.00
0.00
3.41
142
146
0.531974
TTCGGTGGTTGCAGAGACAC
60.532
55.000
0.00
0.00
0.00
3.67
175
179
3.313526
CAGGTTGGTTCCGATGATTGATC
59.686
47.826
0.00
0.00
0.00
2.92
326
340
8.934507
AAAGAGAATACGATTTTCCAGAGTAG
57.065
34.615
0.00
0.00
0.00
2.57
327
341
7.648039
AGAGAATACGATTTTCCAGAGTAGT
57.352
36.000
0.00
0.00
0.00
2.73
328
342
8.749026
AGAGAATACGATTTTCCAGAGTAGTA
57.251
34.615
0.00
0.00
0.00
1.82
379
399
0.859882
CACAGCTCATAGCATCAGCG
59.140
55.000
1.22
0.00
45.56
5.18
434
454
2.813908
GCATGTCCACGACCGTCC
60.814
66.667
0.00
0.00
0.00
4.79
437
457
1.605451
ATGTCCACGACCGTCCTCA
60.605
57.895
0.00
0.00
0.00
3.86
439
459
1.183030
TGTCCACGACCGTCCTCAAT
61.183
55.000
0.00
0.00
0.00
2.57
442
462
1.374125
CACGACCGTCCTCAATGCA
60.374
57.895
0.00
0.00
0.00
3.96
533
566
2.798680
CGAGCTTTGCTACATCTACGT
58.201
47.619
0.00
0.00
39.88
3.57
538
571
6.183360
CGAGCTTTGCTACATCTACGTAAAAA
60.183
38.462
0.00
0.00
39.88
1.94
584
883
3.625764
GCTTATGCGGTCTGATTTGGTTA
59.374
43.478
0.00
0.00
0.00
2.85
585
884
4.095782
GCTTATGCGGTCTGATTTGGTTAA
59.904
41.667
0.00
0.00
0.00
2.01
595
894
8.748582
CGGTCTGATTTGGTTAAAAGTAAAAAC
58.251
33.333
0.00
0.00
0.00
2.43
596
895
8.748582
GGTCTGATTTGGTTAAAAGTAAAAACG
58.251
33.333
0.00
0.00
0.00
3.60
601
900
4.846509
TGGTTAAAAGTAAAAACGGCTCG
58.153
39.130
0.00
0.00
0.00
5.03
633
932
4.156008
CGTAAAATTCAAGGGGAAGGTGAG
59.844
45.833
0.00
0.00
39.30
3.51
683
982
9.395707
GTAACATCATATCTAAGAGGTTACGTG
57.604
37.037
12.33
0.00
45.67
4.49
756
1055
1.898938
CATGCAATGTGTAACTGCCG
58.101
50.000
0.00
0.00
40.20
5.69
757
1056
1.468127
CATGCAATGTGTAACTGCCGA
59.532
47.619
0.00
0.00
40.20
5.54
758
1057
1.819928
TGCAATGTGTAACTGCCGAT
58.180
45.000
0.00
0.00
38.04
4.18
806
1105
1.305802
TCCCGTAGCCATGTGACCT
60.306
57.895
0.00
0.00
0.00
3.85
896
1195
5.429109
TGCCTATAAATACCCCGGCAATATA
59.571
40.000
0.00
0.00
43.81
0.86
930
1233
1.607628
CATCAAAGCATAGCTCAGCCC
59.392
52.381
6.68
0.00
38.25
5.19
931
1234
0.914644
TCAAAGCATAGCTCAGCCCT
59.085
50.000
6.68
0.00
38.25
5.19
988
1293
0.165511
CACAAGCTCGAAGAAGCAGC
59.834
55.000
0.00
0.00
34.09
5.25
997
1302
2.229543
TCGAAGAAGCAGCGGTACTTTA
59.770
45.455
0.90
0.00
0.00
1.85
1089
1397
1.740296
CGCCGGGAACTTCAACGAT
60.740
57.895
2.18
0.00
0.00
3.73
1248
1567
6.487689
TGATCGTTTGTGTAATAACATGCA
57.512
33.333
0.00
0.00
38.08
3.96
1251
1570
7.332182
TGATCGTTTGTGTAATAACATGCAGTA
59.668
33.333
0.00
0.00
38.08
2.74
1287
1606
3.587933
GGTGCGTGCGGGTTCAAA
61.588
61.111
0.00
0.00
0.00
2.69
1359
1678
1.125093
TCTTCAAGGACGGCAAGGGA
61.125
55.000
0.00
0.00
0.00
4.20
1426
1745
8.801882
TTTTCATGACGAGGGTTATTATTTCT
57.198
30.769
0.00
0.00
0.00
2.52
1427
1746
8.801882
TTTCATGACGAGGGTTATTATTTCTT
57.198
30.769
0.00
0.00
0.00
2.52
1428
1747
9.893634
TTTCATGACGAGGGTTATTATTTCTTA
57.106
29.630
0.00
0.00
0.00
2.10
1429
1748
9.893634
TTCATGACGAGGGTTATTATTTCTTAA
57.106
29.630
0.00
0.00
0.00
1.85
1430
1749
9.893634
TCATGACGAGGGTTATTATTTCTTAAA
57.106
29.630
0.00
0.00
0.00
1.52
1470
1789
3.754586
TTGGTGCTTTGCCCCTGCT
62.755
57.895
0.00
0.00
38.71
4.24
1493
1816
1.547675
GGTGGAAATGGAGCTGGTGAA
60.548
52.381
0.00
0.00
0.00
3.18
1500
1823
0.546122
TGGAGCTGGTGAAACAGTGT
59.454
50.000
0.00
0.00
39.98
3.55
1640
1963
2.289592
AGTACCACTTCGACCTGAGT
57.710
50.000
0.00
0.00
0.00
3.41
1788
2114
3.254060
CCTACCTGAACGATGAACAGTG
58.746
50.000
0.00
0.00
0.00
3.66
1836
2165
2.416162
GCCCAACAAAACTTTCACGACA
60.416
45.455
0.00
0.00
0.00
4.35
1837
2166
3.839293
CCCAACAAAACTTTCACGACAA
58.161
40.909
0.00
0.00
0.00
3.18
1947
2279
2.679837
CGGCTCGGTTACAGACTAAGTA
59.320
50.000
0.00
0.00
0.00
2.24
1975
2307
1.274167
CACATGGGTTGCTGATTGCTT
59.726
47.619
0.00
0.00
43.37
3.91
2028
2360
2.261671
CCCGGTCTCAAGGTGACG
59.738
66.667
0.00
0.00
35.45
4.35
2166
2498
4.552365
ATGCGCGAGTCATGGGGG
62.552
66.667
12.10
0.00
0.00
5.40
2169
2501
3.461773
CGCGAGTCATGGGGGTCT
61.462
66.667
0.00
0.00
0.00
3.85
2298
2630
2.955881
GCCCAGCACCTTCTACCGT
61.956
63.158
0.00
0.00
0.00
4.83
2377
2715
4.822685
TGCATTGGCTTGATTTGGTATT
57.177
36.364
0.00
0.00
41.91
1.89
2385
2723
7.385778
TGGCTTGATTTGGTATTTGTACTAC
57.614
36.000
0.00
0.00
0.00
2.73
2412
2754
3.688694
TCGTTTTGCATGGGTACTACT
57.311
42.857
0.00
0.00
0.00
2.57
2603
2951
4.968259
TGTTTGTGTGTACTCCTGCTTAT
58.032
39.130
0.00
0.00
0.00
1.73
2606
2954
4.456280
TGTGTGTACTCCTGCTTATCTG
57.544
45.455
0.00
0.00
0.00
2.90
2617
2965
1.559682
TGCTTATCTGTTGTCCCTCCC
59.440
52.381
0.00
0.00
0.00
4.30
2672
3020
5.887598
TCAGTTCGTATTGCCCTAGTACTTA
59.112
40.000
0.00
0.00
0.00
2.24
2696
3044
0.808125
ACTTGATTATGCGCGCCAAA
59.192
45.000
30.77
22.60
0.00
3.28
2704
3052
2.124011
ATGCGCGCCAAAGATTAATG
57.876
45.000
30.77
0.00
0.00
1.90
2705
3053
1.090728
TGCGCGCCAAAGATTAATGA
58.909
45.000
30.77
0.71
0.00
2.57
2711
3060
2.450160
GCCAAAGATTAATGAACGCCG
58.550
47.619
0.00
0.00
0.00
6.46
2718
3067
3.951680
AGATTAATGAACGCCGGGAATTT
59.048
39.130
2.18
0.00
0.00
1.82
2720
3069
0.530288
AATGAACGCCGGGAATTTGG
59.470
50.000
2.18
0.00
0.00
3.28
2770
3119
2.093447
CGGCCAGTGGAAATTCTACTCT
60.093
50.000
15.20
0.00
35.96
3.24
2794
3143
1.607628
CCGGTAGATTCGACGATCCTT
59.392
52.381
0.00
0.00
0.00
3.36
3003
3352
3.103738
CGTTCGTTCTATAACCGTCAGG
58.896
50.000
0.00
0.00
45.13
3.86
3053
3404
4.787598
TCGGAGTAACTTTTACACGAGAC
58.212
43.478
10.09
0.00
0.00
3.36
3054
3405
3.601211
CGGAGTAACTTTTACACGAGACG
59.399
47.826
0.00
0.00
0.00
4.18
3055
3406
4.611355
CGGAGTAACTTTTACACGAGACGA
60.611
45.833
0.00
0.00
0.00
4.20
3057
3408
5.334414
GGAGTAACTTTTACACGAGACGAGA
60.334
44.000
0.00
0.00
0.00
4.04
3091
3442
3.532542
GCCGCCTAAAAGTTCACTCTAT
58.467
45.455
0.00
0.00
0.00
1.98
3092
3443
3.556365
GCCGCCTAAAAGTTCACTCTATC
59.444
47.826
0.00
0.00
0.00
2.08
3093
3444
4.680975
GCCGCCTAAAAGTTCACTCTATCT
60.681
45.833
0.00
0.00
0.00
1.98
3094
3445
5.451520
GCCGCCTAAAAGTTCACTCTATCTA
60.452
44.000
0.00
0.00
0.00
1.98
3095
3446
6.570692
CCGCCTAAAAGTTCACTCTATCTAA
58.429
40.000
0.00
0.00
0.00
2.10
3096
3447
6.697892
CCGCCTAAAAGTTCACTCTATCTAAG
59.302
42.308
0.00
0.00
0.00
2.18
3097
3448
6.199342
CGCCTAAAAGTTCACTCTATCTAAGC
59.801
42.308
0.00
0.00
0.00
3.09
3098
3449
7.269316
GCCTAAAAGTTCACTCTATCTAAGCT
58.731
38.462
0.00
0.00
0.00
3.74
3099
3450
7.223777
GCCTAAAAGTTCACTCTATCTAAGCTG
59.776
40.741
0.00
0.00
0.00
4.24
3100
3451
7.708752
CCTAAAAGTTCACTCTATCTAAGCTGG
59.291
40.741
0.00
0.00
0.00
4.85
3101
3452
4.664150
AGTTCACTCTATCTAAGCTGGC
57.336
45.455
0.00
0.00
0.00
4.85
3191
3545
0.323999
TACTGGCGCTAACCTCTCCA
60.324
55.000
7.64
0.00
0.00
3.86
3238
3592
5.617528
TGTTGTCCACTTAAACTACTCCA
57.382
39.130
0.00
0.00
0.00
3.86
3241
3595
7.057894
TGTTGTCCACTTAAACTACTCCAAAT
58.942
34.615
0.00
0.00
0.00
2.32
3242
3596
7.012894
TGTTGTCCACTTAAACTACTCCAAATG
59.987
37.037
0.00
0.00
0.00
2.32
3243
3597
6.597562
TGTCCACTTAAACTACTCCAAATGT
58.402
36.000
0.00
0.00
0.00
2.71
3245
3599
8.212312
TGTCCACTTAAACTACTCCAAATGTAA
58.788
33.333
0.00
0.00
0.00
2.41
3246
3600
8.718734
GTCCACTTAAACTACTCCAAATGTAAG
58.281
37.037
0.00
0.00
0.00
2.34
3247
3601
8.653191
TCCACTTAAACTACTCCAAATGTAAGA
58.347
33.333
0.00
0.00
0.00
2.10
3248
3602
8.718734
CCACTTAAACTACTCCAAATGTAAGAC
58.281
37.037
0.00
0.00
0.00
3.01
3249
3603
9.490379
CACTTAAACTACTCCAAATGTAAGACT
57.510
33.333
0.00
0.00
0.00
3.24
3253
3607
7.981102
AACTACTCCAAATGTAAGACTTTCC
57.019
36.000
0.00
0.00
0.00
3.13
3254
3608
7.074653
ACTACTCCAAATGTAAGACTTTCCA
57.925
36.000
0.00
0.00
0.00
3.53
3255
3609
7.690256
ACTACTCCAAATGTAAGACTTTCCAT
58.310
34.615
0.00
0.00
0.00
3.41
3257
3611
7.839680
ACTCCAAATGTAAGACTTTCCATTT
57.160
32.000
14.85
14.85
37.86
2.32
3258
3612
7.886338
ACTCCAAATGTAAGACTTTCCATTTC
58.114
34.615
16.57
0.00
35.84
2.17
3259
3613
7.505585
ACTCCAAATGTAAGACTTTCCATTTCA
59.494
33.333
16.57
9.63
35.84
2.69
3260
3614
8.421249
TCCAAATGTAAGACTTTCCATTTCAT
57.579
30.769
16.57
2.05
35.84
2.57
3261
3615
9.527157
TCCAAATGTAAGACTTTCCATTTCATA
57.473
29.630
16.57
7.71
35.84
2.15
3287
3641
7.448748
AAATGTAAGACTTTTCGGCTGTTAT
57.551
32.000
0.00
0.00
0.00
1.89
3293
3647
3.395639
ACTTTTCGGCTGTTATCGACAA
58.604
40.909
0.00
0.00
37.93
3.18
3295
3649
2.004583
TTCGGCTGTTATCGACAAGG
57.995
50.000
0.00
0.00
37.93
3.61
3301
3655
3.326747
GCTGTTATCGACAAGGTCAAGT
58.673
45.455
0.00
0.00
37.93
3.16
3302
3656
3.368236
GCTGTTATCGACAAGGTCAAGTC
59.632
47.826
0.00
0.00
37.93
3.01
3310
3664
0.032952
CAAGGTCAAGTCGGTTCCGA
59.967
55.000
10.00
10.00
36.02
4.55
3317
3671
3.128242
GTCAAGTCGGTTCCGATAGAAGA
59.872
47.826
16.87
8.50
40.65
2.87
3318
3672
3.377485
TCAAGTCGGTTCCGATAGAAGAG
59.623
47.826
16.87
4.38
40.65
2.85
3319
3673
1.677052
AGTCGGTTCCGATAGAAGAGC
59.323
52.381
16.87
2.09
40.65
4.09
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
0
1
2.617308
GCTGCTACCTGATAGTACGTGA
59.383
50.000
0.00
0.00
32.90
4.35
1
2
2.357952
TGCTGCTACCTGATAGTACGTG
59.642
50.000
0.00
0.00
32.90
4.49
2
3
2.651455
TGCTGCTACCTGATAGTACGT
58.349
47.619
0.00
0.00
32.90
3.57
3
4
3.253432
TGATGCTGCTACCTGATAGTACG
59.747
47.826
0.00
0.00
32.90
3.67
4
5
4.855715
TGATGCTGCTACCTGATAGTAC
57.144
45.455
0.00
0.00
32.90
2.73
5
6
5.305386
ACAATGATGCTGCTACCTGATAGTA
59.695
40.000
0.00
0.00
32.90
1.82
6
7
4.102210
ACAATGATGCTGCTACCTGATAGT
59.898
41.667
0.00
0.00
32.90
2.12
7
8
4.451435
CACAATGATGCTGCTACCTGATAG
59.549
45.833
0.00
0.00
0.00
2.08
119
123
0.798776
CTCTGCAACCACCGAATCAC
59.201
55.000
0.00
0.00
0.00
3.06
133
137
1.194772
GTTTAACAGGCGTGTCTCTGC
59.805
52.381
13.21
0.00
35.08
4.26
134
138
2.476619
CTGTTTAACAGGCGTGTCTCTG
59.523
50.000
16.62
0.00
42.35
3.35
135
139
2.755650
CTGTTTAACAGGCGTGTCTCT
58.244
47.619
16.62
0.00
42.35
3.10
175
179
1.879796
GCCTGACTGACTCTTGTTGGG
60.880
57.143
0.00
0.00
0.00
4.12
326
340
4.971220
GCTAGAAAGAGATACGCACAGTAC
59.029
45.833
0.00
0.00
38.29
2.73
327
341
4.638865
TGCTAGAAAGAGATACGCACAGTA
59.361
41.667
0.00
0.00
40.03
2.74
328
342
3.444034
TGCTAGAAAGAGATACGCACAGT
59.556
43.478
0.00
0.00
0.00
3.55
369
389
1.738432
CCTGCTCTCGCTGATGCTA
59.262
57.895
0.00
0.00
37.28
3.49
379
399
2.439104
CCCTACCTGCCCTGCTCTC
61.439
68.421
0.00
0.00
0.00
3.20
546
579
6.202762
CCGCATAAGCTCATACATAAGTTTCA
59.797
38.462
0.00
0.00
39.10
2.69
547
580
6.202954
ACCGCATAAGCTCATACATAAGTTTC
59.797
38.462
0.00
0.00
39.10
2.78
559
755
2.938451
CAAATCAGACCGCATAAGCTCA
59.062
45.455
0.00
0.00
39.10
4.26
567
866
3.886505
ACTTTTAACCAAATCAGACCGCA
59.113
39.130
0.00
0.00
0.00
5.69
568
867
4.499037
ACTTTTAACCAAATCAGACCGC
57.501
40.909
0.00
0.00
0.00
5.68
569
868
8.748582
GTTTTTACTTTTAACCAAATCAGACCG
58.251
33.333
0.00
0.00
0.00
4.79
584
883
1.001048
GCCCGAGCCGTTTTTACTTTT
60.001
47.619
0.00
0.00
0.00
2.27
585
884
0.594602
GCCCGAGCCGTTTTTACTTT
59.405
50.000
0.00
0.00
0.00
2.66
613
912
4.199002
ACTCACCTTCCCCTTGAATTTT
57.801
40.909
0.00
0.00
31.06
1.82
656
955
9.352191
ACGTAACCTCTTAGATATGATGTTACT
57.648
33.333
19.65
11.51
0.00
2.24
667
966
3.438183
ACACCCACGTAACCTCTTAGAT
58.562
45.455
0.00
0.00
0.00
1.98
668
967
2.880443
ACACCCACGTAACCTCTTAGA
58.120
47.619
0.00
0.00
0.00
2.10
669
968
3.428589
GCTACACCCACGTAACCTCTTAG
60.429
52.174
0.00
0.00
0.00
2.18
681
980
2.295909
TGAGCAAAAATGCTACACCCAC
59.704
45.455
2.89
0.00
46.36
4.61
683
982
3.578688
CTTGAGCAAAAATGCTACACCC
58.421
45.455
2.89
0.00
46.36
4.61
754
1053
4.592192
ATCACGGCTCGGCATCGG
62.592
66.667
0.00
0.00
36.95
4.18
755
1054
2.094126
GAAATCACGGCTCGGCATCG
62.094
60.000
0.00
0.00
37.82
3.84
756
1055
0.811616
AGAAATCACGGCTCGGCATC
60.812
55.000
0.00
0.00
0.00
3.91
757
1056
0.811616
GAGAAATCACGGCTCGGCAT
60.812
55.000
0.00
0.00
0.00
4.40
758
1057
1.447838
GAGAAATCACGGCTCGGCA
60.448
57.895
0.00
0.00
0.00
5.69
806
1105
1.762419
GACGACGTGCTTTGTGTAGA
58.238
50.000
4.58
0.00
0.00
2.59
896
1195
4.202461
TGCTTTGATGTTCTGGGAGTAACT
60.202
41.667
0.00
0.00
0.00
2.24
988
1293
3.118738
AGAGGAGCCATGTTAAAGTACCG
60.119
47.826
0.00
0.00
0.00
4.02
997
1302
1.339151
GGACGAAAGAGGAGCCATGTT
60.339
52.381
0.00
0.00
0.00
2.71
1217
1530
9.006215
GTTATTACACAAACGATCAATTAAGCC
57.994
33.333
0.00
0.00
0.00
4.35
1248
1567
3.873361
CACCTGAATGCACATCGATTACT
59.127
43.478
0.00
0.00
0.00
2.24
1251
1570
2.019249
CCACCTGAATGCACATCGATT
58.981
47.619
0.00
0.00
0.00
3.34
1287
1606
1.228190
AGGGGTACTGGTTGGTGTTT
58.772
50.000
0.00
0.00
0.00
2.83
1359
1678
3.083349
TGGTAGCAGGAGCCGCAT
61.083
61.111
0.00
0.00
43.56
4.73
1400
1719
9.238368
AGAAATAATAACCCTCGTCATGAAAAA
57.762
29.630
0.00
0.00
0.00
1.94
1401
1720
8.801882
AGAAATAATAACCCTCGTCATGAAAA
57.198
30.769
0.00
0.00
0.00
2.29
1402
1721
8.801882
AAGAAATAATAACCCTCGTCATGAAA
57.198
30.769
0.00
0.00
0.00
2.69
1403
1722
9.893634
TTAAGAAATAATAACCCTCGTCATGAA
57.106
29.630
0.00
0.00
0.00
2.57
1404
1723
9.893634
TTTAAGAAATAATAACCCTCGTCATGA
57.106
29.630
0.00
0.00
0.00
3.07
1430
1749
3.372822
ACAATATGGCGATCGTCGTTTTT
59.627
39.130
20.95
11.44
42.81
1.94
1431
1750
2.933906
ACAATATGGCGATCGTCGTTTT
59.066
40.909
20.95
15.53
42.81
2.43
1432
1751
2.546778
ACAATATGGCGATCGTCGTTT
58.453
42.857
20.95
9.61
42.81
3.60
1433
1752
2.218953
ACAATATGGCGATCGTCGTT
57.781
45.000
20.95
10.02
42.81
3.85
1434
1753
1.858458
CAACAATATGGCGATCGTCGT
59.142
47.619
19.61
19.61
42.81
4.34
1435
1754
1.192312
CCAACAATATGGCGATCGTCG
59.808
52.381
15.94
2.37
43.89
5.12
1436
1755
2.032894
CACCAACAATATGGCGATCGTC
60.033
50.000
13.98
13.98
44.75
4.20
1437
1756
1.939934
CACCAACAATATGGCGATCGT
59.060
47.619
17.81
0.00
44.75
3.73
1438
1757
1.334059
GCACCAACAATATGGCGATCG
60.334
52.381
11.69
11.69
44.75
3.69
1439
1758
1.949525
AGCACCAACAATATGGCGATC
59.050
47.619
0.00
0.00
44.75
3.69
1440
1759
2.057137
AGCACCAACAATATGGCGAT
57.943
45.000
0.00
0.00
44.75
4.58
1441
1760
1.832883
AAGCACCAACAATATGGCGA
58.167
45.000
0.00
0.00
44.75
5.54
1444
1763
2.620242
GGCAAAGCACCAACAATATGG
58.380
47.619
0.00
0.00
46.38
2.74
1470
1789
0.251297
CCAGCTCCATTTCCACCACA
60.251
55.000
0.00
0.00
0.00
4.17
1493
1816
7.116948
CGATCAGAAGTCAAGATTAACACTGTT
59.883
37.037
0.00
0.00
0.00
3.16
1836
2165
0.758123
TCCCAGTTAAACCGGTCGTT
59.242
50.000
8.04
1.06
35.70
3.85
1837
2166
0.033920
GTCCCAGTTAAACCGGTCGT
59.966
55.000
8.04
0.70
0.00
4.34
1947
2279
0.035176
GCAACCCATGTGCCATTGTT
59.965
50.000
0.00
0.00
0.00
2.83
2028
2360
2.358737
CCCTGCTCCACGTGGAAC
60.359
66.667
35.36
31.31
44.91
3.62
2166
2498
1.068250
GTCCAGCCGCCAGATAGAC
59.932
63.158
0.00
0.00
0.00
2.59
2169
2501
2.134287
GGAGTCCAGCCGCCAGATA
61.134
63.158
3.60
0.00
0.00
1.98
2298
2630
1.204704
CAGCTGTACTGGACGATGGAA
59.795
52.381
5.25
0.00
43.19
3.53
2377
2715
4.393680
GCAAAACGATCCATGGTAGTACAA
59.606
41.667
12.58
0.00
0.00
2.41
2385
2723
2.212869
CCATGCAAAACGATCCATGG
57.787
50.000
4.97
4.97
45.96
3.66
2412
2754
8.950007
ACCTTAATTAATCAAAAACCTCCTCA
57.050
30.769
0.00
0.00
0.00
3.86
2603
2951
0.191064
ACTGAGGGAGGGACAACAGA
59.809
55.000
0.00
0.00
0.00
3.41
2606
2954
0.899019
GAGACTGAGGGAGGGACAAC
59.101
60.000
0.00
0.00
0.00
3.32
2617
2965
3.066621
GGCAGTACTGATGAGAGACTGAG
59.933
52.174
27.08
0.00
38.19
3.35
2696
3044
2.702592
TTCCCGGCGTTCATTAATCT
57.297
45.000
6.01
0.00
0.00
2.40
2704
3052
1.504900
GACCAAATTCCCGGCGTTC
59.495
57.895
6.01
0.00
0.00
3.95
2705
3053
1.974875
GGACCAAATTCCCGGCGTT
60.975
57.895
6.01
0.00
0.00
4.84
2711
3060
3.767711
AGAAAGTCAGGACCAAATTCCC
58.232
45.455
0.00
0.00
36.12
3.97
2718
3067
3.493699
CGTTGGTTAGAAAGTCAGGACCA
60.494
47.826
0.00
0.00
35.52
4.02
2720
3069
3.725490
ACGTTGGTTAGAAAGTCAGGAC
58.275
45.455
0.00
0.00
0.00
3.85
2770
3119
1.452110
TCGTCGAATCTACCGGAACA
58.548
50.000
9.46
0.00
0.00
3.18
2794
3143
1.259609
ATGACGTACCGACCTTTCCA
58.740
50.000
0.00
0.00
0.00
3.53
3003
3352
8.307483
TCATTCACTATCATTAGGTAGCTAAGC
58.693
37.037
18.51
0.00
0.00
3.09
3053
3404
3.257561
CGATGTTGCCGGCTCTCG
61.258
66.667
29.70
23.82
38.88
4.04
3054
3405
3.567797
GCGATGTTGCCGGCTCTC
61.568
66.667
29.70
17.62
0.00
3.20
3091
3442
1.282157
GAAAGGGAAGGCCAGCTTAGA
59.718
52.381
5.01
0.00
35.15
2.10
3092
3443
1.683319
GGAAAGGGAAGGCCAGCTTAG
60.683
57.143
5.01
0.00
35.15
2.18
3093
3444
0.331616
GGAAAGGGAAGGCCAGCTTA
59.668
55.000
5.01
0.00
35.15
3.09
3094
3445
1.077445
GGAAAGGGAAGGCCAGCTT
59.923
57.895
5.01
0.00
35.15
3.74
3095
3446
0.550147
TAGGAAAGGGAAGGCCAGCT
60.550
55.000
5.01
0.00
35.15
4.24
3096
3447
0.331616
TTAGGAAAGGGAAGGCCAGC
59.668
55.000
5.01
0.00
35.15
4.85
3097
3448
1.916181
TCTTAGGAAAGGGAAGGCCAG
59.084
52.381
5.01
0.00
35.15
4.85
3098
3449
2.053747
TCTTAGGAAAGGGAAGGCCA
57.946
50.000
5.01
0.00
35.15
5.36
3099
3450
3.451402
TTTCTTAGGAAAGGGAAGGCC
57.549
47.619
0.00
0.00
36.63
5.19
3191
3545
2.271800
CAAAGACTAGCTCGGCGATTT
58.728
47.619
11.27
2.95
0.00
2.17
3255
3609
9.187455
GCCGAAAAGTCTTACATTTTTATGAAA
57.813
29.630
0.00
0.00
0.00
2.69
3257
3611
8.020819
CAGCCGAAAAGTCTTACATTTTTATGA
58.979
33.333
0.00
0.00
0.00
2.15
3258
3612
7.807907
ACAGCCGAAAAGTCTTACATTTTTATG
59.192
33.333
0.00
0.00
0.00
1.90
3259
3613
7.882179
ACAGCCGAAAAGTCTTACATTTTTAT
58.118
30.769
0.00
0.00
0.00
1.40
3260
3614
7.266922
ACAGCCGAAAAGTCTTACATTTTTA
57.733
32.000
0.00
0.00
0.00
1.52
3261
3615
6.144078
ACAGCCGAAAAGTCTTACATTTTT
57.856
33.333
0.00
0.00
0.00
1.94
3262
3616
5.767816
ACAGCCGAAAAGTCTTACATTTT
57.232
34.783
0.00
0.00
0.00
1.82
3263
3617
5.767816
AACAGCCGAAAAGTCTTACATTT
57.232
34.783
0.00
0.00
0.00
2.32
3293
3647
4.186136
TCGGAACCGACTTGACCT
57.814
55.556
12.04
0.00
44.01
3.85
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.