Multiple sequence alignment - TraesCS2A01G499100
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
TraesCS2A01G499100
chr2A
100.000
2300
0
0
1
2300
729061062
729058763
0.000000e+00
4248
1
TraesCS2A01G499100
chr2A
88.968
562
40
5
1761
2300
75303695
75303134
0.000000e+00
675
2
TraesCS2A01G499100
chr2A
88.770
561
42
3
1761
2300
53451200
53451760
0.000000e+00
667
3
TraesCS2A01G499100
chr2A
86.455
347
40
6
191
533
729119930
729119587
7.760000e-100
374
4
TraesCS2A01G499100
chr2B
86.021
1445
119
54
203
1604
721726956
721725552
0.000000e+00
1472
5
TraesCS2A01G499100
chr2B
87.921
356
36
6
182
533
721902210
721901858
1.640000e-111
412
6
TraesCS2A01G499100
chr2B
85.119
168
18
6
1
166
721902358
721902196
5.080000e-37
165
7
TraesCS2A01G499100
chr2D
91.500
800
52
12
536
1327
594457009
594456218
0.000000e+00
1086
8
TraesCS2A01G499100
chr2D
93.554
543
24
8
1
538
594457624
594457088
0.000000e+00
798
9
TraesCS2A01G499100
chr2D
89.502
562
37
4
1760
2300
101695736
101696296
0.000000e+00
691
10
TraesCS2A01G499100
chr2D
88.968
562
39
5
1761
2300
567084569
567085129
0.000000e+00
673
11
TraesCS2A01G499100
chr2D
89.051
548
51
7
1761
2300
522887278
522886732
0.000000e+00
671
12
TraesCS2A01G499100
chr2D
82.909
275
23
19
1223
1485
594456228
594455966
2.300000e-55
226
13
TraesCS2A01G499100
chr2D
78.596
285
33
11
1502
1760
594455733
594455451
1.830000e-36
163
14
TraesCS2A01G499100
chr1D
90.792
543
41
7
1761
2300
100640974
100640438
0.000000e+00
717
15
TraesCS2A01G499100
chr1A
89.399
566
36
6
1757
2300
446514569
446514006
0.000000e+00
691
16
TraesCS2A01G499100
chr4D
89.046
566
39
5
1756
2300
482523734
482524297
0.000000e+00
680
17
TraesCS2A01G499100
chr7D
88.869
566
40
6
1756
2300
614643032
614642469
0.000000e+00
675
18
TraesCS2A01G499100
chr7D
88.434
562
41
5
1761
2300
579534897
579534338
0.000000e+00
656
19
TraesCS2A01G499100
chr3D
88.693
566
40
7
1756
2300
335847181
335847743
0.000000e+00
669
20
TraesCS2A01G499100
chr3D
88.770
561
41
4
1761
2300
483197131
483197690
0.000000e+00
667
21
TraesCS2A01G499100
chr3D
88.339
566
43
5
1756
2300
16644885
16645448
0.000000e+00
658
22
TraesCS2A01G499100
chr6A
88.277
563
43
6
1761
2300
616465267
616465829
0.000000e+00
652
23
TraesCS2A01G499100
chr6B
85.952
541
61
12
1761
2292
426457880
426458414
4.290000e-157
564
24
TraesCS2A01G499100
chr7A
85.870
276
18
6
1761
2015
500124565
500124290
8.100000e-70
274
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
TraesCS2A01G499100
chr2A
729058763
729061062
2299
True
4248.00
4248
100.00000
1
2300
1
chr2A.!!$R2
2299
1
TraesCS2A01G499100
chr2A
75303134
75303695
561
True
675.00
675
88.96800
1761
2300
1
chr2A.!!$R1
539
2
TraesCS2A01G499100
chr2A
53451200
53451760
560
False
667.00
667
88.77000
1761
2300
1
chr2A.!!$F1
539
3
TraesCS2A01G499100
chr2B
721725552
721726956
1404
True
1472.00
1472
86.02100
203
1604
1
chr2B.!!$R1
1401
4
TraesCS2A01G499100
chr2B
721901858
721902358
500
True
288.50
412
86.52000
1
533
2
chr2B.!!$R2
532
5
TraesCS2A01G499100
chr2D
101695736
101696296
560
False
691.00
691
89.50200
1760
2300
1
chr2D.!!$F1
540
6
TraesCS2A01G499100
chr2D
567084569
567085129
560
False
673.00
673
88.96800
1761
2300
1
chr2D.!!$F2
539
7
TraesCS2A01G499100
chr2D
522886732
522887278
546
True
671.00
671
89.05100
1761
2300
1
chr2D.!!$R1
539
8
TraesCS2A01G499100
chr2D
594455451
594457624
2173
True
568.25
1086
86.63975
1
1760
4
chr2D.!!$R2
1759
9
TraesCS2A01G499100
chr1D
100640438
100640974
536
True
717.00
717
90.79200
1761
2300
1
chr1D.!!$R1
539
10
TraesCS2A01G499100
chr1A
446514006
446514569
563
True
691.00
691
89.39900
1757
2300
1
chr1A.!!$R1
543
11
TraesCS2A01G499100
chr4D
482523734
482524297
563
False
680.00
680
89.04600
1756
2300
1
chr4D.!!$F1
544
12
TraesCS2A01G499100
chr7D
614642469
614643032
563
True
675.00
675
88.86900
1756
2300
1
chr7D.!!$R2
544
13
TraesCS2A01G499100
chr7D
579534338
579534897
559
True
656.00
656
88.43400
1761
2300
1
chr7D.!!$R1
539
14
TraesCS2A01G499100
chr3D
335847181
335847743
562
False
669.00
669
88.69300
1756
2300
1
chr3D.!!$F2
544
15
TraesCS2A01G499100
chr3D
483197131
483197690
559
False
667.00
667
88.77000
1761
2300
1
chr3D.!!$F3
539
16
TraesCS2A01G499100
chr3D
16644885
16645448
563
False
658.00
658
88.33900
1756
2300
1
chr3D.!!$F1
544
17
TraesCS2A01G499100
chr6A
616465267
616465829
562
False
652.00
652
88.27700
1761
2300
1
chr6A.!!$F1
539
18
TraesCS2A01G499100
chr6B
426457880
426458414
534
False
564.00
564
85.95200
1761
2292
1
chr6B.!!$F1
531
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
690
791
0.036105
TGCGTCGTCCTACTGGTAGA
60.036
55.0
9.11
0.0
35.21
2.59
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
1678
2171
0.032267
GATGCGTAGGTACAGAGGCC
59.968
60.0
0.0
0.0
0.0
5.19
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
90
91
0.817654
TCAGACCATCCAGTACAGCG
59.182
55.000
0.00
0.00
0.00
5.18
108
109
3.385079
GCGCGACAGCTAAAATACTTT
57.615
42.857
12.10
0.00
42.32
2.66
109
110
3.743886
GCGCGACAGCTAAAATACTTTT
58.256
40.909
12.10
0.00
42.32
2.27
172
173
4.177026
CACGAAACCACAACATTTTTCCA
58.823
39.130
0.00
0.00
0.00
3.53
207
212
8.816640
AGAAACCACAACATTTAGCAAATTAG
57.183
30.769
0.00
0.00
0.00
1.73
268
273
8.734386
CAGTAAACAAGAGCAAATTCCTTCTAT
58.266
33.333
0.00
0.00
0.00
1.98
269
274
8.734386
AGTAAACAAGAGCAAATTCCTTCTATG
58.266
33.333
0.00
0.00
0.00
2.23
391
404
1.405526
GGCCTTCACGCTCTTATCACA
60.406
52.381
0.00
0.00
0.00
3.58
690
791
0.036105
TGCGTCGTCCTACTGGTAGA
60.036
55.000
9.11
0.00
35.21
2.59
724
828
0.036732
CTGGCTAACTTCCAGTGGCA
59.963
55.000
3.51
0.00
44.62
4.92
725
829
0.250727
TGGCTAACTTCCAGTGGCAC
60.251
55.000
10.29
10.29
32.12
5.01
785
892
1.361668
AAATCGCAGCAGGCTACACG
61.362
55.000
0.00
0.00
41.67
4.49
830
937
6.070194
TCCTCACCTACTTAATTTGCTAAGCT
60.070
38.462
0.00
0.00
32.97
3.74
834
941
8.482943
TCACCTACTTAATTTGCTAAGCTGATA
58.517
33.333
0.00
0.00
32.97
2.15
838
945
6.122277
ACTTAATTTGCTAAGCTGATAGCCA
58.878
36.000
13.59
1.53
46.19
4.75
904
1015
2.796593
GGTCACACAGCAAAGCAAATTC
59.203
45.455
0.00
0.00
0.00
2.17
946
1057
5.163602
CGAAAGATCCAACAGAGCTACTAGT
60.164
44.000
0.00
0.00
41.49
2.57
981
1092
1.005630
GCAGAGCCGAACAGAGTGT
60.006
57.895
0.00
0.00
0.00
3.55
1206
1327
2.318224
CATCAGGAAGGCGCTGATG
58.682
57.895
18.47
18.47
45.27
3.07
1209
1330
1.817099
CAGGAAGGCGCTGATGGAC
60.817
63.158
7.64
0.00
0.00
4.02
1308
1522
2.049063
GTTGCCTGACGCGAGACT
60.049
61.111
15.93
0.00
42.08
3.24
1377
1619
0.608130
CGATGTGGAGTCCTTGTCCA
59.392
55.000
11.33
0.00
42.06
4.02
1378
1620
1.404717
CGATGTGGAGTCCTTGTCCAG
60.405
57.143
11.33
0.00
45.00
3.86
1382
1624
1.067776
GTGGAGTCCTTGTCCAGTACG
60.068
57.143
11.33
0.00
45.00
3.67
1385
1627
0.113776
AGTCCTTGTCCAGTACGGGA
59.886
55.000
11.03
11.03
34.36
5.14
1390
1632
1.553248
CTTGTCCAGTACGGGATTGGA
59.447
52.381
18.11
7.36
41.48
3.53
1391
1633
1.191535
TGTCCAGTACGGGATTGGAG
58.808
55.000
18.11
0.00
44.17
3.86
1392
1634
1.192428
GTCCAGTACGGGATTGGAGT
58.808
55.000
18.11
0.00
44.17
3.85
1393
1635
1.553704
GTCCAGTACGGGATTGGAGTT
59.446
52.381
18.11
0.00
44.17
3.01
1394
1636
1.553248
TCCAGTACGGGATTGGAGTTG
59.447
52.381
11.03
0.00
38.96
3.16
1395
1637
1.406887
CCAGTACGGGATTGGAGTTGG
60.407
57.143
6.11
0.00
37.08
3.77
1396
1638
1.553248
CAGTACGGGATTGGAGTTGGA
59.447
52.381
0.00
0.00
0.00
3.53
1397
1639
1.831736
AGTACGGGATTGGAGTTGGAG
59.168
52.381
0.00
0.00
0.00
3.86
1398
1640
0.539986
TACGGGATTGGAGTTGGAGC
59.460
55.000
0.00
0.00
0.00
4.70
1399
1641
1.452108
CGGGATTGGAGTTGGAGCC
60.452
63.158
0.00
0.00
0.00
4.70
1400
1642
1.915078
CGGGATTGGAGTTGGAGCCT
61.915
60.000
0.00
0.00
0.00
4.58
1401
1643
0.332972
GGGATTGGAGTTGGAGCCTT
59.667
55.000
0.00
0.00
0.00
4.35
1402
1644
1.467920
GGATTGGAGTTGGAGCCTTG
58.532
55.000
0.00
0.00
0.00
3.61
1403
1645
1.467920
GATTGGAGTTGGAGCCTTGG
58.532
55.000
0.00
0.00
0.00
3.61
1404
1646
1.004745
GATTGGAGTTGGAGCCTTGGA
59.995
52.381
0.00
0.00
0.00
3.53
1405
1647
0.401738
TTGGAGTTGGAGCCTTGGAG
59.598
55.000
0.00
0.00
0.00
3.86
1406
1648
1.301293
GGAGTTGGAGCCTTGGAGG
59.699
63.158
0.00
0.00
38.80
4.30
1415
1657
2.276740
CCTTGGAGGCCATCACCC
59.723
66.667
5.01
0.00
31.53
4.61
1425
1667
1.625818
GGCCATCACCCAGTAGGATAG
59.374
57.143
0.00
0.00
39.89
2.08
1429
1671
3.833070
CCATCACCCAGTAGGATAGGTAC
59.167
52.174
0.00
0.00
39.89
3.34
1442
1684
5.395611
AGGATAGGTACTGGCTAGTTTAGG
58.604
45.833
8.46
0.00
41.52
2.69
1443
1685
5.103172
AGGATAGGTACTGGCTAGTTTAGGT
60.103
44.000
8.46
0.00
41.52
3.08
1447
1689
3.773667
GGTACTGGCTAGTTTAGGTTCCT
59.226
47.826
8.46
0.00
38.36
3.36
1485
1730
2.551287
CCCCGTGTAAACAACCAGATCA
60.551
50.000
0.00
0.00
0.00
2.92
1486
1731
3.142951
CCCGTGTAAACAACCAGATCAA
58.857
45.455
0.00
0.00
0.00
2.57
1487
1732
3.756434
CCCGTGTAAACAACCAGATCAAT
59.244
43.478
0.00
0.00
0.00
2.57
1488
1733
4.142687
CCCGTGTAAACAACCAGATCAATC
60.143
45.833
0.00
0.00
0.00
2.67
1490
1735
5.049060
CCGTGTAAACAACCAGATCAATCAA
60.049
40.000
0.00
0.00
0.00
2.57
1491
1736
6.349280
CCGTGTAAACAACCAGATCAATCAAT
60.349
38.462
0.00
0.00
0.00
2.57
1492
1737
6.742718
CGTGTAAACAACCAGATCAATCAATC
59.257
38.462
0.00
0.00
0.00
2.67
1493
1738
7.572910
CGTGTAAACAACCAGATCAATCAATCA
60.573
37.037
0.00
0.00
0.00
2.57
1494
1739
8.081633
GTGTAAACAACCAGATCAATCAATCAA
58.918
33.333
0.00
0.00
0.00
2.57
1495
1740
8.637099
TGTAAACAACCAGATCAATCAATCAAA
58.363
29.630
0.00
0.00
0.00
2.69
1496
1741
9.132521
GTAAACAACCAGATCAATCAATCAAAG
57.867
33.333
0.00
0.00
0.00
2.77
1497
1742
5.717119
ACAACCAGATCAATCAATCAAAGC
58.283
37.500
0.00
0.00
0.00
3.51
1498
1743
5.244402
ACAACCAGATCAATCAATCAAAGCA
59.756
36.000
0.00
0.00
0.00
3.91
1512
1980
9.768662
ATCAATCAAAGCAAATAATATTCCCAC
57.231
29.630
0.00
0.00
0.00
4.61
1516
1984
6.826231
TCAAAGCAAATAATATTCCCACGAGA
59.174
34.615
0.00
0.00
0.00
4.04
1519
1987
6.226787
AGCAAATAATATTCCCACGAGAGAG
58.773
40.000
0.00
0.00
0.00
3.20
1522
1990
3.992260
AATATTCCCACGAGAGAGACG
57.008
47.619
0.00
0.00
0.00
4.18
1526
1994
2.408241
CCCACGAGAGAGACGGTCC
61.408
68.421
4.14
0.00
34.93
4.46
1536
2004
1.078759
GAGACGGTCCTGTTGCGATG
61.079
60.000
4.14
0.00
0.00
3.84
1619
2112
4.337145
TCTAGTAGCTAGGCCTTGATAGC
58.663
47.826
19.07
17.52
43.85
2.97
1648
2141
0.798776
GCAGCTTGCGTATTGTGTCT
59.201
50.000
0.00
0.00
31.71
3.41
1649
2142
1.201965
GCAGCTTGCGTATTGTGTCTC
60.202
52.381
0.00
0.00
31.71
3.36
1650
2143
1.394917
CAGCTTGCGTATTGTGTCTCC
59.605
52.381
0.00
0.00
0.00
3.71
1651
2144
1.001974
AGCTTGCGTATTGTGTCTCCA
59.998
47.619
0.00
0.00
0.00
3.86
1653
2146
2.159653
GCTTGCGTATTGTGTCTCCAAG
60.160
50.000
0.00
0.00
33.32
3.61
1654
2147
3.325870
CTTGCGTATTGTGTCTCCAAGA
58.674
45.455
0.00
0.00
32.22
3.02
1656
2149
3.937814
TGCGTATTGTGTCTCCAAGAAT
58.062
40.909
0.00
0.00
0.00
2.40
1658
2151
5.483811
TGCGTATTGTGTCTCCAAGAATAA
58.516
37.500
0.00
0.00
0.00
1.40
1659
2152
6.112734
TGCGTATTGTGTCTCCAAGAATAAT
58.887
36.000
0.00
0.00
0.00
1.28
1660
2153
6.257849
TGCGTATTGTGTCTCCAAGAATAATC
59.742
38.462
0.00
0.00
0.00
1.75
1661
2154
6.562270
GCGTATTGTGTCTCCAAGAATAATCG
60.562
42.308
0.00
0.00
0.00
3.34
1662
2155
6.695713
CGTATTGTGTCTCCAAGAATAATCGA
59.304
38.462
0.00
0.00
0.00
3.59
1663
2156
7.382488
CGTATTGTGTCTCCAAGAATAATCGAT
59.618
37.037
0.00
0.00
0.00
3.59
1664
2157
7.721286
ATTGTGTCTCCAAGAATAATCGATC
57.279
36.000
0.00
0.00
0.00
3.69
1666
2159
6.639563
TGTGTCTCCAAGAATAATCGATCAA
58.360
36.000
0.00
0.00
0.00
2.57
1667
2160
7.275183
TGTGTCTCCAAGAATAATCGATCAAT
58.725
34.615
0.00
0.00
0.00
2.57
1669
2162
6.707608
TGTCTCCAAGAATAATCGATCAATGG
59.292
38.462
0.00
2.51
0.00
3.16
1670
2163
6.708054
GTCTCCAAGAATAATCGATCAATGGT
59.292
38.462
0.00
0.00
0.00
3.55
1671
2164
6.707608
TCTCCAAGAATAATCGATCAATGGTG
59.292
38.462
0.00
3.78
0.00
4.17
1672
2165
5.764686
TCCAAGAATAATCGATCAATGGTGG
59.235
40.000
0.00
3.63
0.00
4.61
1673
2166
5.048504
CCAAGAATAATCGATCAATGGTGGG
60.049
44.000
0.00
0.00
0.00
4.61
1674
2167
4.074970
AGAATAATCGATCAATGGTGGGC
58.925
43.478
0.00
0.00
0.00
5.36
1675
2168
1.877637
TAATCGATCAATGGTGGGCG
58.122
50.000
0.00
0.00
0.00
6.13
1676
2169
0.819259
AATCGATCAATGGTGGGCGG
60.819
55.000
0.00
0.00
0.00
6.13
1677
2170
1.983119
ATCGATCAATGGTGGGCGGT
61.983
55.000
0.00
0.00
0.00
5.68
1678
2171
2.472059
CGATCAATGGTGGGCGGTG
61.472
63.158
0.00
0.00
0.00
4.94
1679
2172
2.044053
ATCAATGGTGGGCGGTGG
60.044
61.111
0.00
0.00
0.00
4.61
1693
2186
1.814527
GGTGGCCTCTGTACCTACG
59.185
63.158
3.32
0.00
0.00
3.51
1701
2194
0.661552
TCTGTACCTACGCATCTCGC
59.338
55.000
0.00
0.00
43.23
5.03
1740
2233
1.267732
CCGTAGTACGTACTTGAGCCG
60.268
57.143
31.58
22.73
40.58
5.52
1743
2236
0.445436
AGTACGTACTTGAGCCGACG
59.555
55.000
22.45
0.00
41.02
5.12
1747
2240
0.860618
CGTACTTGAGCCGACGTAGC
60.861
60.000
1.85
1.85
0.00
3.58
1750
2243
0.450983
ACTTGAGCCGACGTAGCTAC
59.549
55.000
14.19
14.19
41.75
3.58
1911
2425
2.764010
GGTTTCTGGTTTCCCTTTGTGT
59.236
45.455
0.00
0.00
0.00
3.72
2029
2560
1.270550
TCGTGGAGTACCGTTCTTTCC
59.729
52.381
0.00
0.00
39.42
3.13
2048
2579
0.167470
CTTGCCGTCGTCTTCGTCTA
59.833
55.000
0.00
0.00
38.33
2.59
2053
2584
0.301088
CGTCGTCTTCGTCTATCGCT
59.699
55.000
0.00
0.00
39.67
4.93
2068
2599
2.980233
GCTGCCGCCACTCTTGTT
60.980
61.111
0.00
0.00
0.00
2.83
2120
2651
2.653115
GCTTGTTGCCTGCCCTTC
59.347
61.111
0.00
0.00
35.15
3.46
2122
2653
1.228675
CTTGTTGCCTGCCCTTCCT
60.229
57.895
0.00
0.00
0.00
3.36
2137
2669
3.587506
CCCTTCCTTGGTCCTTCTTTAGA
59.412
47.826
0.00
0.00
0.00
2.10
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
15
16
1.960689
TGATGATTGGAGCCATGCATG
59.039
47.619
20.19
20.19
0.00
4.06
72
73
0.807667
GCGCTGTACTGGATGGTCTG
60.808
60.000
0.00
0.00
0.00
3.51
191
196
9.573133
GTGATTAGTGCTAATTTGCTAAATGTT
57.427
29.630
12.99
0.00
36.02
2.71
200
205
7.290857
AGTACGTGTGATTAGTGCTAATTTG
57.709
36.000
0.00
0.00
36.02
2.32
207
212
5.389516
CCTTTCAAGTACGTGTGATTAGTGC
60.390
44.000
8.68
0.00
0.00
4.40
268
273
1.668826
AAGGTTATCTGGACCCTGCA
58.331
50.000
0.00
0.00
37.93
4.41
269
274
4.439253
AATAAGGTTATCTGGACCCTGC
57.561
45.455
0.00
0.00
37.93
4.85
305
314
1.763770
GGGGCATGTCCTATGAGGG
59.236
63.158
17.62
0.00
35.59
4.30
422
435
6.529220
ACATGGCCAATTGCTTAACTTTAAA
58.471
32.000
10.96
0.00
40.92
1.52
676
777
1.134560
GCAAGGTCTACCAGTAGGACG
59.865
57.143
5.04
0.00
38.89
4.79
679
780
2.362717
GCTAGCAAGGTCTACCAGTAGG
59.637
54.545
10.63
0.00
38.89
3.18
722
826
0.378257
ATGGCGTGATGATTTCGTGC
59.622
50.000
0.00
0.00
0.00
5.34
724
828
2.022764
TGATGGCGTGATGATTTCGT
57.977
45.000
0.00
0.00
0.00
3.85
725
829
2.545106
TGATGATGGCGTGATGATTTCG
59.455
45.455
0.00
0.00
0.00
3.46
830
937
2.293170
CGTGAGAGAGAGTGGCTATCA
58.707
52.381
0.00
0.00
37.31
2.15
834
941
1.304052
AGCGTGAGAGAGAGTGGCT
60.304
57.895
0.00
0.00
0.00
4.75
838
945
1.366111
GAGCGAGCGTGAGAGAGAGT
61.366
60.000
0.00
0.00
0.00
3.24
904
1015
1.073964
CGAGTGGTGTGCAAGAGATG
58.926
55.000
0.00
0.00
0.00
2.90
956
1067
4.457603
ACTCTGTTCGGCTCTGCTATATAG
59.542
45.833
5.30
5.30
0.00
1.31
957
1068
4.216472
CACTCTGTTCGGCTCTGCTATATA
59.784
45.833
0.00
0.00
0.00
0.86
958
1069
3.005261
CACTCTGTTCGGCTCTGCTATAT
59.995
47.826
0.00
0.00
0.00
0.86
981
1092
3.196901
ACATGCCGAGAAATACACTACCA
59.803
43.478
0.00
0.00
0.00
3.25
1293
1507
4.056125
CCAGTCTCGCGTCAGGCA
62.056
66.667
5.77
0.00
43.84
4.75
1340
1554
0.993251
CGTCGTTACACGTGAAGCGA
60.993
55.000
25.01
22.72
43.14
4.93
1341
1555
0.993251
TCGTCGTTACACGTGAAGCG
60.993
55.000
25.01
20.90
43.14
4.68
1342
1556
1.057285
CATCGTCGTTACACGTGAAGC
59.943
52.381
25.01
10.06
43.14
3.86
1356
1594
1.404315
GGACAAGGACTCCACATCGTC
60.404
57.143
0.00
0.00
0.00
4.20
1361
1599
1.968493
GTACTGGACAAGGACTCCACA
59.032
52.381
0.00
0.00
36.71
4.17
1377
1619
1.831736
CTCCAACTCCAATCCCGTACT
59.168
52.381
0.00
0.00
0.00
2.73
1378
1620
1.742750
GCTCCAACTCCAATCCCGTAC
60.743
57.143
0.00
0.00
0.00
3.67
1382
1624
0.332972
AAGGCTCCAACTCCAATCCC
59.667
55.000
0.00
0.00
0.00
3.85
1385
1627
1.005215
CTCCAAGGCTCCAACTCCAAT
59.995
52.381
0.00
0.00
0.00
3.16
1398
1640
2.276740
GGGTGATGGCCTCCAAGG
59.723
66.667
3.32
0.00
36.95
3.61
1399
1641
1.077212
CTGGGTGATGGCCTCCAAG
60.077
63.158
3.32
0.39
36.95
3.61
1400
1642
0.548926
TACTGGGTGATGGCCTCCAA
60.549
55.000
3.32
0.00
36.95
3.53
1401
1643
0.982852
CTACTGGGTGATGGCCTCCA
60.983
60.000
3.32
0.00
38.19
3.86
1402
1644
1.700042
CCTACTGGGTGATGGCCTCC
61.700
65.000
3.32
0.99
0.00
4.30
1403
1645
0.691078
TCCTACTGGGTGATGGCCTC
60.691
60.000
3.32
0.00
36.25
4.70
1404
1646
0.029681
ATCCTACTGGGTGATGGCCT
60.030
55.000
3.32
0.00
36.25
5.19
1405
1647
1.625818
CTATCCTACTGGGTGATGGCC
59.374
57.143
0.00
0.00
36.25
5.36
1406
1648
1.625818
CCTATCCTACTGGGTGATGGC
59.374
57.143
0.00
0.00
36.25
4.40
1407
1649
2.977808
ACCTATCCTACTGGGTGATGG
58.022
52.381
0.00
0.00
36.25
3.51
1408
1650
4.524714
CAGTACCTATCCTACTGGGTGATG
59.475
50.000
0.00
0.00
38.20
3.07
1415
1657
4.988029
ACTAGCCAGTACCTATCCTACTG
58.012
47.826
0.00
0.00
40.54
2.74
1425
1667
3.773667
AGGAACCTAAACTAGCCAGTACC
59.226
47.826
0.00
0.00
33.48
3.34
1429
1671
9.708092
GTATAAATAGGAACCTAAACTAGCCAG
57.292
37.037
4.63
0.00
31.73
4.85
1442
1684
7.654923
CGGGGTTACAAGAGTATAAATAGGAAC
59.345
40.741
0.00
0.00
0.00
3.62
1443
1685
7.345392
ACGGGGTTACAAGAGTATAAATAGGAA
59.655
37.037
0.00
0.00
0.00
3.36
1447
1689
7.422465
ACACGGGGTTACAAGAGTATAAATA
57.578
36.000
0.00
0.00
0.00
1.40
1486
1731
9.768662
GTGGGAATATTATTTGCTTTGATTGAT
57.231
29.630
0.00
0.00
0.00
2.57
1487
1732
7.920151
CGTGGGAATATTATTTGCTTTGATTGA
59.080
33.333
0.00
0.00
0.00
2.57
1488
1733
7.920151
TCGTGGGAATATTATTTGCTTTGATTG
59.080
33.333
0.00
0.00
0.00
2.67
1490
1735
7.502226
TCTCGTGGGAATATTATTTGCTTTGAT
59.498
33.333
0.00
0.00
0.00
2.57
1491
1736
6.826231
TCTCGTGGGAATATTATTTGCTTTGA
59.174
34.615
0.00
0.00
0.00
2.69
1492
1737
7.012327
TCTCTCGTGGGAATATTATTTGCTTTG
59.988
37.037
0.00
0.00
0.00
2.77
1493
1738
7.054124
TCTCTCGTGGGAATATTATTTGCTTT
58.946
34.615
0.00
0.00
0.00
3.51
1494
1739
6.591935
TCTCTCGTGGGAATATTATTTGCTT
58.408
36.000
0.00
0.00
0.00
3.91
1495
1740
6.042093
TCTCTCTCGTGGGAATATTATTTGCT
59.958
38.462
0.00
0.00
0.00
3.91
1496
1741
6.146347
GTCTCTCTCGTGGGAATATTATTTGC
59.854
42.308
0.00
0.00
0.00
3.68
1497
1742
6.363626
CGTCTCTCTCGTGGGAATATTATTTG
59.636
42.308
0.00
0.00
0.00
2.32
1498
1743
6.448006
CGTCTCTCTCGTGGGAATATTATTT
58.552
40.000
0.00
0.00
0.00
1.40
1509
1977
1.377463
AGGACCGTCTCTCTCGTGG
60.377
63.158
0.00
0.00
0.00
4.94
1512
1980
0.169230
CAACAGGACCGTCTCTCTCG
59.831
60.000
0.00
0.00
0.00
4.04
1516
1984
1.251527
ATCGCAACAGGACCGTCTCT
61.252
55.000
0.00
0.00
0.00
3.10
1519
1987
2.740714
GCATCGCAACAGGACCGTC
61.741
63.158
0.00
0.00
0.00
4.79
1522
1990
3.667087
TTGCATCGCAACAGGACC
58.333
55.556
0.00
0.00
43.99
4.46
1604
2072
1.141858
ACCAAGCTATCAAGGCCTAGC
59.858
52.381
16.20
16.20
40.52
3.42
1605
2073
2.843701
CACCAAGCTATCAAGGCCTAG
58.156
52.381
5.16
0.00
0.00
3.02
1606
2074
1.134098
GCACCAAGCTATCAAGGCCTA
60.134
52.381
5.16
0.00
41.15
3.93
1607
2075
0.394899
GCACCAAGCTATCAAGGCCT
60.395
55.000
0.00
0.00
41.15
5.19
1608
2076
2.110296
GCACCAAGCTATCAAGGCC
58.890
57.895
0.00
0.00
41.15
5.19
1641
2134
6.639563
TGATCGATTATTCTTGGAGACACAA
58.360
36.000
0.00
0.00
42.67
3.33
1645
2138
6.708054
ACCATTGATCGATTATTCTTGGAGAC
59.292
38.462
0.00
0.00
0.00
3.36
1648
2141
5.764686
CCACCATTGATCGATTATTCTTGGA
59.235
40.000
0.00
0.00
0.00
3.53
1649
2142
5.048504
CCCACCATTGATCGATTATTCTTGG
60.049
44.000
0.00
3.33
0.00
3.61
1650
2143
5.563475
GCCCACCATTGATCGATTATTCTTG
60.563
44.000
0.00
0.00
0.00
3.02
1651
2144
4.520492
GCCCACCATTGATCGATTATTCTT
59.480
41.667
0.00
0.00
0.00
2.52
1653
2146
3.120199
CGCCCACCATTGATCGATTATTC
60.120
47.826
0.00
0.00
0.00
1.75
1654
2147
2.813754
CGCCCACCATTGATCGATTATT
59.186
45.455
0.00
0.00
0.00
1.40
1656
2149
1.542328
CCGCCCACCATTGATCGATTA
60.542
52.381
0.00
0.00
0.00
1.75
1658
2151
1.227943
CCGCCCACCATTGATCGAT
60.228
57.895
0.00
0.00
0.00
3.59
1659
2152
2.189257
CCGCCCACCATTGATCGA
59.811
61.111
0.00
0.00
0.00
3.59
1660
2153
2.124736
ACCGCCCACCATTGATCG
60.125
61.111
0.00
0.00
0.00
3.69
1661
2154
2.120909
CCACCGCCCACCATTGATC
61.121
63.158
0.00
0.00
0.00
2.92
1662
2155
2.044053
CCACCGCCCACCATTGAT
60.044
61.111
0.00
0.00
0.00
2.57
1673
2166
2.056223
TAGGTACAGAGGCCACCGC
61.056
63.158
5.01
0.00
37.42
5.68
1674
2167
1.814527
GTAGGTACAGAGGCCACCG
59.185
63.158
5.01
0.00
37.42
4.94
1675
2168
1.814527
CGTAGGTACAGAGGCCACC
59.185
63.158
5.01
2.56
0.00
4.61
1676
2169
1.141234
GCGTAGGTACAGAGGCCAC
59.859
63.158
5.01
0.00
0.00
5.01
1677
2170
0.686441
ATGCGTAGGTACAGAGGCCA
60.686
55.000
5.01
0.00
0.00
5.36
1678
2171
0.032267
GATGCGTAGGTACAGAGGCC
59.968
60.000
0.00
0.00
0.00
5.19
1679
2172
1.001158
GAGATGCGTAGGTACAGAGGC
60.001
57.143
0.00
0.00
0.00
4.70
1693
2186
1.527311
GATTACTTTCCGGCGAGATGC
59.473
52.381
9.30
0.00
45.38
3.91
1729
2222
0.450983
AGCTACGTCGGCTCAAGTAC
59.549
55.000
9.69
0.00
34.70
2.73
1743
2236
1.089920
TCGGAGGAACACGTAGCTAC
58.910
55.000
14.19
14.19
33.03
3.58
1747
2240
2.921754
GTGATTTCGGAGGAACACGTAG
59.078
50.000
0.00
0.00
33.03
3.51
1750
2243
2.080286
AGTGATTTCGGAGGAACACG
57.920
50.000
0.00
0.00
35.46
4.49
1844
2337
0.247301
GCGCATCGAAAAAGTCTCCG
60.247
55.000
0.30
0.00
0.00
4.63
1981
2511
3.686016
GCCCACACCAGAGAGAAAATAA
58.314
45.455
0.00
0.00
0.00
1.40
1983
2513
1.611673
CGCCCACACCAGAGAGAAAAT
60.612
52.381
0.00
0.00
0.00
1.82
2017
2548
0.393820
ACGGCAAGGAAAGAACGGTA
59.606
50.000
0.00
0.00
0.00
4.02
2029
2560
0.167470
TAGACGAAGACGACGGCAAG
59.833
55.000
2.19
0.00
41.61
4.01
2048
2579
4.087892
AAGAGTGGCGGCAGCGAT
62.088
61.111
13.91
0.00
46.35
4.58
2053
2584
3.286751
GCAACAAGAGTGGCGGCA
61.287
61.111
7.97
7.97
34.42
5.69
2116
2647
4.287326
ACTCTAAAGAAGGACCAAGGAAGG
59.713
45.833
0.00
0.00
0.00
3.46
2120
2651
3.510360
TCGACTCTAAAGAAGGACCAAGG
59.490
47.826
0.00
0.00
0.00
3.61
2122
2653
3.257624
GGTCGACTCTAAAGAAGGACCAA
59.742
47.826
16.46
0.00
38.42
3.67
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.