Multiple sequence alignment - TraesCS7A01G245800
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
TraesCS7A01G245800
chr7A
100.000
3934
0
0
1
3934
224035060
224038993
0.000000e+00
7265
1
TraesCS7A01G245800
chr7D
87.982
3528
173
110
506
3907
212205027
212208429
0.000000e+00
3934
2
TraesCS7A01G245800
chr7D
88.267
3375
157
110
1
3243
212204482
212207749
0.000000e+00
3818
3
TraesCS7A01G245800
chr7B
88.277
3122
150
84
506
3521
189498999
189495988
0.000000e+00
3539
4
TraesCS7A01G245800
chr7B
83.333
480
29
19
1
443
189499569
189499104
2.850000e-106
396
5
TraesCS7A01G245800
chr7B
90.960
177
6
5
3670
3846
189494745
189494579
3.060000e-56
230
6
TraesCS7A01G245800
chr5D
92.035
113
9
0
2090
2202
375678426
375678538
4.070000e-35
159
7
TraesCS7A01G245800
chr5A
91.150
113
10
0
2090
2202
476837049
476837161
1.890000e-33
154
8
TraesCS7A01G245800
chr5A
82.836
134
20
2
1364
1497
476836327
476836457
2.480000e-22
117
9
TraesCS7A01G245800
chr5B
83.942
137
19
3
1364
1497
448465851
448465987
1.150000e-25
128
10
TraesCS7A01G245800
chr5B
93.750
80
5
0
2524
2603
448467080
448467159
1.920000e-23
121
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
TraesCS7A01G245800
chr7A
224035060
224038993
3933
False
7265.000000
7265
100.000000
1
3934
1
chr7A.!!$F1
3933
1
TraesCS7A01G245800
chr7D
212204482
212208429
3947
False
3876.000000
3934
88.124500
1
3907
2
chr7D.!!$F1
3906
2
TraesCS7A01G245800
chr7B
189494579
189499569
4990
True
1388.333333
3539
87.523333
1
3846
3
chr7B.!!$R1
3845
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
342
381
0.250640
CACCCAAGCTCAGCTCAGTT
60.251
55.0
0.0
0.0
38.25
3.16
F
984
1131
0.252742
GTTTGGGAGGAGGGAGAGGA
60.253
60.0
0.0
0.0
0.00
3.71
F
1507
1669
0.623911
TCGGTACCTCTCCTCCTCCT
60.624
60.0
10.9
0.0
0.00
3.69
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
1496
1658
0.047176
AGGAGGAGAGGAGGAGGAGA
59.953
60.0
0.0
0.0
0.0
3.71
R
2241
2443
0.370273
GTAGCAATGGTGTTCTCGCG
59.630
55.0
0.0
0.0
0.0
5.87
R
3144
3360
0.031111
TCCGATCTCCCATCCCTTGT
60.031
55.0
0.0
0.0
0.0
3.16
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
17
18
4.607024
CGGTGGCTGTTTTGTTCG
57.393
55.556
0.00
0.00
0.00
3.95
19
20
0.316689
CGGTGGCTGTTTTGTTCGTC
60.317
55.000
0.00
0.00
0.00
4.20
20
21
0.316689
GGTGGCTGTTTTGTTCGTCG
60.317
55.000
0.00
0.00
0.00
5.12
21
22
0.928451
GTGGCTGTTTTGTTCGTCGC
60.928
55.000
0.00
0.00
0.00
5.19
73
76
7.215381
CCAAATTTAAATTTAAAATGACCGCGC
59.785
33.333
25.95
0.00
36.52
6.86
105
108
3.616219
TCATTGCCAGTGTAATACCACC
58.384
45.455
0.00
0.00
35.93
4.61
108
111
1.982226
TGCCAGTGTAATACCACCACT
59.018
47.619
0.00
0.00
39.93
4.00
115
118
4.890581
AGTGTAATACCACCACTGCAAAAA
59.109
37.500
0.00
0.00
38.00
1.94
147
159
1.526686
CACACAAGTGGGAGCTGCA
60.527
57.895
7.79
0.00
42.13
4.41
157
169
1.536073
GGGAGCTGCAAGGGAAAACC
61.536
60.000
7.79
0.00
40.67
3.27
172
184
3.933332
GGAAAACCGATCGAGAATTCAGT
59.067
43.478
18.66
0.00
0.00
3.41
251
276
3.119424
TGGTTTTTCTTTCGCTCCGTTTT
60.119
39.130
0.00
0.00
0.00
2.43
267
292
6.344572
TCCGTTTTATGATGATTCAGTTCG
57.655
37.500
0.00
0.00
34.73
3.95
286
311
3.976169
TCGGTCAATCAAAAGCAAAAGG
58.024
40.909
0.00
0.00
0.00
3.11
287
312
3.634448
TCGGTCAATCAAAAGCAAAAGGA
59.366
39.130
0.00
0.00
0.00
3.36
288
313
4.280677
TCGGTCAATCAAAAGCAAAAGGAT
59.719
37.500
0.00
0.00
0.00
3.24
297
322
5.541868
TCAAAAGCAAAAGGATGATAACCCA
59.458
36.000
0.00
0.00
0.00
4.51
338
377
0.536006
AACACACCCAAGCTCAGCTC
60.536
55.000
0.00
0.00
38.25
4.09
339
378
1.071987
CACACCCAAGCTCAGCTCA
59.928
57.895
0.00
0.00
38.25
4.26
340
379
0.954449
CACACCCAAGCTCAGCTCAG
60.954
60.000
0.00
0.00
38.25
3.35
341
380
1.374190
CACCCAAGCTCAGCTCAGT
59.626
57.895
0.00
0.00
38.25
3.41
342
381
0.250640
CACCCAAGCTCAGCTCAGTT
60.251
55.000
0.00
0.00
38.25
3.16
451
503
2.183046
GCACGCACCTCTCTCTCC
59.817
66.667
0.00
0.00
0.00
3.71
457
509
1.454847
CACCTCTCTCTCCCCCTCG
60.455
68.421
0.00
0.00
0.00
4.63
461
513
2.904866
CTCTCTCCCCCTCGCTCG
60.905
72.222
0.00
0.00
0.00
5.03
510
611
2.113139
CACTCCCACACCCACACC
59.887
66.667
0.00
0.00
0.00
4.16
511
612
3.175710
ACTCCCACACCCACACCC
61.176
66.667
0.00
0.00
0.00
4.61
512
613
3.174987
CTCCCACACCCACACCCA
61.175
66.667
0.00
0.00
0.00
4.51
513
614
3.491598
CTCCCACACCCACACCCAC
62.492
68.421
0.00
0.00
0.00
4.61
514
615
3.814906
CCCACACCCACACCCACA
61.815
66.667
0.00
0.00
0.00
4.17
515
616
2.518349
CCACACCCACACCCACAC
60.518
66.667
0.00
0.00
0.00
3.82
516
617
2.518349
CACACCCACACCCACACC
60.518
66.667
0.00
0.00
0.00
4.16
517
618
3.816090
ACACCCACACCCACACCC
61.816
66.667
0.00
0.00
0.00
4.61
518
619
3.814906
CACCCACACCCACACCCA
61.815
66.667
0.00
0.00
0.00
4.51
519
620
3.816090
ACCCACACCCACACCCAC
61.816
66.667
0.00
0.00
0.00
4.61
520
621
3.814906
CCCACACCCACACCCACA
61.815
66.667
0.00
0.00
0.00
4.17
521
622
2.518349
CCACACCCACACCCACAC
60.518
66.667
0.00
0.00
0.00
3.82
522
623
2.273776
CACACCCACACCCACACA
59.726
61.111
0.00
0.00
0.00
3.72
523
624
2.118404
CACACCCACACCCACACAC
61.118
63.158
0.00
0.00
0.00
3.82
524
625
2.899838
CACCCACACCCACACACG
60.900
66.667
0.00
0.00
0.00
4.49
560
661
1.492873
CTCCACGCACACACAATCG
59.507
57.895
0.00
0.00
0.00
3.34
658
771
1.202758
TGCTCGATCTCCTCTCTCTCC
60.203
57.143
0.00
0.00
0.00
3.71
663
776
4.204012
TCGATCTCCTCTCTCTCCTTTTC
58.796
47.826
0.00
0.00
0.00
2.29
664
777
4.080015
TCGATCTCCTCTCTCTCCTTTTCT
60.080
45.833
0.00
0.00
0.00
2.52
665
778
4.275936
CGATCTCCTCTCTCTCCTTTTCTC
59.724
50.000
0.00
0.00
0.00
2.87
673
786
6.139679
TCTCTCTCCTTTTCTCTCTCTCTT
57.860
41.667
0.00
0.00
0.00
2.85
674
787
6.552008
TCTCTCTCCTTTTCTCTCTCTCTTT
58.448
40.000
0.00
0.00
0.00
2.52
678
791
3.841255
TCCTTTTCTCTCTCTCTTTCCCC
59.159
47.826
0.00
0.00
0.00
4.81
680
793
3.569135
TTTCTCTCTCTCTTTCCCCCT
57.431
47.619
0.00
0.00
0.00
4.79
711
827
0.582005
CGCCGTAAAGAAGCCATAGC
59.418
55.000
0.00
0.00
40.32
2.97
792
927
1.731720
AGAAAGGAGCAATCGAGTGC
58.268
50.000
29.09
29.09
45.28
4.40
816
951
3.665675
CTCCCCGGCTGGAAAGTCG
62.666
68.421
15.09
0.00
37.49
4.18
828
963
1.509703
GAAAGTCGCCCGTCTTTTCT
58.490
50.000
12.58
0.00
34.63
2.52
832
967
1.871676
AGTCGCCCGTCTTTTCTTTTC
59.128
47.619
0.00
0.00
0.00
2.29
854
990
1.180029
CTGGGGAAGCTGAATTGGTG
58.820
55.000
0.00
0.00
0.00
4.17
915
1060
2.010582
GCTAGCCAGTGGAGGAGTCG
62.011
65.000
15.20
0.00
0.00
4.18
926
1071
0.524604
GAGGAGTCGCGCTTCTTCTC
60.525
60.000
17.03
17.03
31.80
2.87
934
1081
1.656095
CGCGCTTCTTCTCGATTTCTT
59.344
47.619
5.56
0.00
0.00
2.52
935
1082
2.284741
CGCGCTTCTTCTCGATTTCTTC
60.285
50.000
5.56
0.00
0.00
2.87
976
1123
5.264395
AGAATTATTGGTGTTTGGGAGGAG
58.736
41.667
0.00
0.00
0.00
3.69
981
1128
0.840722
GGTGTTTGGGAGGAGGGAGA
60.841
60.000
0.00
0.00
0.00
3.71
984
1131
0.252742
GTTTGGGAGGAGGGAGAGGA
60.253
60.000
0.00
0.00
0.00
3.71
989
1139
1.541672
GAGGAGGGAGAGGAGGAGG
59.458
68.421
0.00
0.00
0.00
4.30
990
1140
2.018086
AGGAGGGAGAGGAGGAGGG
61.018
68.421
0.00
0.00
0.00
4.30
1332
1482
2.113774
CACTCCCAGCACCAGCAA
59.886
61.111
0.00
0.00
45.49
3.91
1335
1485
1.970114
CTCCCAGCACCAGCAACAG
60.970
63.158
0.00
0.00
45.49
3.16
1496
1658
0.901580
ATGGACAACGGTCGGTACCT
60.902
55.000
10.90
0.00
45.28
3.08
1507
1669
0.623911
TCGGTACCTCTCCTCCTCCT
60.624
60.000
10.90
0.00
0.00
3.69
1540
1707
3.604875
TCGGCCTTCTTTTGGTACTAG
57.395
47.619
0.00
0.00
0.00
2.57
1548
1715
0.671163
TTTTGGTACTAGCCGCGGTG
60.671
55.000
28.70
19.18
0.00
4.94
1562
1729
0.874607
GCGGTGCCATAGTTCCTACG
60.875
60.000
0.00
0.00
0.00
3.51
1610
1777
0.954452
CCAGTTCTTGTTGGGAGCAC
59.046
55.000
0.00
0.00
0.00
4.40
1641
1808
1.212195
GGAACTAAATCCCGCCTCCTT
59.788
52.381
0.00
0.00
33.05
3.36
1675
1842
1.884926
GGGTACGAGAGCATGCTGC
60.885
63.158
28.27
15.89
45.46
5.25
1965
2147
2.730524
GGACTCCTCAGAGCCTGCC
61.731
68.421
0.00
0.00
44.65
4.85
2003
2185
6.149308
CCACAGTTACACTAGCATTTCATTCA
59.851
38.462
0.00
0.00
0.00
2.57
2006
2188
8.454106
ACAGTTACACTAGCATTTCATTCATTC
58.546
33.333
0.00
0.00
0.00
2.67
2007
2189
7.637519
CAGTTACACTAGCATTTCATTCATTCG
59.362
37.037
0.00
0.00
0.00
3.34
2008
2190
7.334421
AGTTACACTAGCATTTCATTCATTCGT
59.666
33.333
0.00
0.00
0.00
3.85
2009
2191
6.500684
ACACTAGCATTTCATTCATTCGTT
57.499
33.333
0.00
0.00
0.00
3.85
2010
2192
6.317088
ACACTAGCATTTCATTCATTCGTTG
58.683
36.000
0.00
0.00
0.00
4.10
2011
2193
5.228635
CACTAGCATTTCATTCATTCGTTGC
59.771
40.000
0.00
0.00
0.00
4.17
2031
2213
1.007734
GTGAGCACCGAACTGACGA
60.008
57.895
0.00
0.00
35.09
4.20
2036
2218
1.282930
GCACCGAACTGACGAGGTTC
61.283
60.000
0.00
0.00
39.49
3.62
2043
2225
1.242665
ACTGACGAGGTTCGGTCTCC
61.243
60.000
3.37
0.00
45.59
3.71
2079
2261
3.730761
GCGCACCAGTTCAGCCTG
61.731
66.667
0.30
0.00
0.00
4.85
2219
2401
1.402325
GGTAAACAAATCCACGCTGCC
60.402
52.381
0.00
0.00
0.00
4.85
2221
2403
2.141122
AAACAAATCCACGCTGCCCG
62.141
55.000
0.00
0.00
44.21
6.13
2231
2433
2.762360
CGCTGCCCGTTTAGATTGA
58.238
52.632
0.00
0.00
0.00
2.57
2252
2459
1.654105
CAGTATTGTCGCGAGAACACC
59.346
52.381
21.95
12.40
45.01
4.16
2259
2466
0.245266
TCGCGAGAACACCATTGCTA
59.755
50.000
3.71
0.00
37.03
3.49
2261
2468
0.727398
GCGAGAACACCATTGCTACC
59.273
55.000
0.00
0.00
0.00
3.18
2263
2470
2.632377
CGAGAACACCATTGCTACCAT
58.368
47.619
0.00
0.00
0.00
3.55
2271
2478
5.186198
ACACCATTGCTACCATTAGTCTTC
58.814
41.667
0.00
0.00
0.00
2.87
2355
2571
1.664659
CGAATCAGGAAGCTGCAAGAG
59.335
52.381
1.02
0.00
34.07
2.85
2385
2601
2.561478
ACATGGACAAGGTACACACC
57.439
50.000
0.00
0.00
46.19
4.16
2396
2612
1.476477
GTACACACCCTCTCTCTCCC
58.524
60.000
0.00
0.00
0.00
4.30
2397
2613
1.081481
TACACACCCTCTCTCTCCCA
58.919
55.000
0.00
0.00
0.00
4.37
2398
2614
0.252012
ACACACCCTCTCTCTCCCAG
60.252
60.000
0.00
0.00
0.00
4.45
2399
2615
1.305718
ACACCCTCTCTCTCCCAGC
60.306
63.158
0.00
0.00
0.00
4.85
2400
2616
1.001503
CACCCTCTCTCTCCCAGCT
59.998
63.158
0.00
0.00
0.00
4.24
2460
2676
5.183140
AGAACAGTGTATGGTTACCAAATGC
59.817
40.000
8.63
0.00
36.95
3.56
2463
2679
1.746220
TGTATGGTTACCAAATGCGCC
59.254
47.619
8.63
0.00
36.95
6.53
2512
2728
1.374758
CCGAGACCTGCAACTCCAC
60.375
63.158
8.83
0.00
0.00
4.02
2517
2733
2.485814
GAGACCTGCAACTCCACATTTC
59.514
50.000
0.00
0.00
0.00
2.17
2518
2734
2.107204
AGACCTGCAACTCCACATTTCT
59.893
45.455
0.00
0.00
0.00
2.52
2519
2735
2.485814
GACCTGCAACTCCACATTTCTC
59.514
50.000
0.00
0.00
0.00
2.87
2520
2736
2.107204
ACCTGCAACTCCACATTTCTCT
59.893
45.455
0.00
0.00
0.00
3.10
2601
2817
0.250513
CCAGGAGCAGGTCAAGGTAC
59.749
60.000
1.20
0.00
0.00
3.34
2608
2824
1.130561
GCAGGTCAAGGTACGCAAATC
59.869
52.381
0.00
0.00
0.00
2.17
2633
2849
7.559897
TCATCCTCCCAATTACCATAAACTTTC
59.440
37.037
0.00
0.00
0.00
2.62
2635
2851
7.116736
TCCTCCCAATTACCATAAACTTTCTC
58.883
38.462
0.00
0.00
0.00
2.87
2636
2852
6.889722
CCTCCCAATTACCATAAACTTTCTCA
59.110
38.462
0.00
0.00
0.00
3.27
2638
2854
6.661805
TCCCAATTACCATAAACTTTCTCACC
59.338
38.462
0.00
0.00
0.00
4.02
2639
2855
6.435904
CCCAATTACCATAAACTTTCTCACCA
59.564
38.462
0.00
0.00
0.00
4.17
2661
2877
5.221048
CCAAGAGAGGCATAAAATAAACCGG
60.221
44.000
0.00
0.00
0.00
5.28
2662
2878
5.112129
AGAGAGGCATAAAATAAACCGGT
57.888
39.130
0.00
0.00
0.00
5.28
2663
2879
5.506708
AGAGAGGCATAAAATAAACCGGTT
58.493
37.500
15.86
15.86
0.00
4.44
2667
2883
6.436218
AGAGGCATAAAATAAACCGGTTTCTT
59.564
34.615
34.79
27.46
34.23
2.52
2669
2885
6.209788
AGGCATAAAATAAACCGGTTTCTTGA
59.790
34.615
34.79
21.91
34.23
3.02
2678
2894
6.779115
AAACCGGTTTCTTGATTAATTTGC
57.221
33.333
26.87
0.00
0.00
3.68
2721
2937
3.431486
GCCAGTGAGGTCTAAATCAGGAG
60.431
52.174
0.00
0.00
40.61
3.69
2803
3019
8.879342
ATCTGAATTACTACTACTACGTACGT
57.121
34.615
25.98
25.98
0.00
3.57
2804
3020
9.967346
ATCTGAATTACTACTACTACGTACGTA
57.033
33.333
25.41
25.41
0.00
3.57
2805
3021
9.234384
TCTGAATTACTACTACTACGTACGTAC
57.766
37.037
23.60
15.90
0.00
3.67
2806
3022
9.239002
CTGAATTACTACTACTACGTACGTACT
57.761
37.037
23.60
16.88
0.00
2.73
2824
3040
4.980434
CGTACTACATAATCCAGAAACCGG
59.020
45.833
0.00
0.00
0.00
5.28
2918
3134
2.693762
GGCGAGCAAGCATCAGCAA
61.694
57.895
5.80
0.00
45.49
3.91
2919
3135
1.513586
GCGAGCAAGCATCAGCAAC
60.514
57.895
0.00
0.00
45.49
4.17
2920
3136
1.871077
CGAGCAAGCATCAGCAACA
59.129
52.632
0.00
0.00
45.49
3.33
2927
3143
2.393271
AGCATCAGCAACAGTACTCC
57.607
50.000
0.00
0.00
45.49
3.85
2944
3160
1.748493
CTCCGGTTGAGAGAAGAGAGG
59.252
57.143
0.00
0.00
44.42
3.69
2983
3199
4.133820
TCTCATCTCTAGAAGAAGCTCCG
58.866
47.826
0.00
0.00
37.61
4.63
3018
3234
8.115490
ACCTGGAGAATTTAGAAACAAGATTG
57.885
34.615
0.00
0.00
0.00
2.67
3035
3251
4.149598
AGATTGTTTGGGGAAGGTGTAAC
58.850
43.478
0.00
0.00
0.00
2.50
3081
3297
1.745232
TGCGGTTTGGGTATAAGCAG
58.255
50.000
0.00
0.00
0.00
4.24
3085
3301
2.452505
GGTTTGGGTATAAGCAGGCAA
58.547
47.619
0.00
0.00
0.00
4.52
3086
3302
2.427095
GGTTTGGGTATAAGCAGGCAAG
59.573
50.000
0.00
0.00
0.00
4.01
3087
3303
1.762708
TTGGGTATAAGCAGGCAAGC
58.237
50.000
0.00
0.00
0.00
4.01
3090
3306
1.221414
GGTATAAGCAGGCAAGCGAG
58.779
55.000
0.00
0.00
40.15
5.03
3091
3307
0.583917
GTATAAGCAGGCAAGCGAGC
59.416
55.000
0.00
0.00
40.15
5.03
3092
3308
0.177836
TATAAGCAGGCAAGCGAGCA
59.822
50.000
9.43
0.00
40.15
4.26
3093
3309
0.677731
ATAAGCAGGCAAGCGAGCAA
60.678
50.000
9.43
0.00
40.15
3.91
3094
3310
1.300971
TAAGCAGGCAAGCGAGCAAG
61.301
55.000
9.43
0.00
40.15
4.01
3095
3311
4.773117
GCAGGCAAGCGAGCAAGC
62.773
66.667
5.80
0.41
35.83
4.01
3096
3312
3.359523
CAGGCAAGCGAGCAAGCA
61.360
61.111
12.36
0.00
40.15
3.91
3097
3313
3.054503
AGGCAAGCGAGCAAGCAG
61.055
61.111
12.36
0.00
40.15
4.24
3105
3321
2.124778
GAGCAAGCAGAGGAGGGC
60.125
66.667
0.00
0.00
0.00
5.19
3141
3357
2.691526
TGGCATCATCAAGGATTCAAGC
59.308
45.455
0.00
0.00
0.00
4.01
3144
3360
4.382254
GGCATCATCAAGGATTCAAGCAAA
60.382
41.667
0.00
0.00
0.00
3.68
3148
3364
5.775686
TCATCAAGGATTCAAGCAAACAAG
58.224
37.500
0.00
0.00
0.00
3.16
3151
3367
3.243359
AGGATTCAAGCAAACAAGGGA
57.757
42.857
0.00
0.00
0.00
4.20
3153
3369
3.512724
AGGATTCAAGCAAACAAGGGATG
59.487
43.478
0.00
0.00
0.00
3.51
3154
3370
3.368739
GGATTCAAGCAAACAAGGGATGG
60.369
47.826
0.00
0.00
0.00
3.51
3155
3371
1.631405
TCAAGCAAACAAGGGATGGG
58.369
50.000
0.00
0.00
0.00
4.00
3156
3372
1.146774
TCAAGCAAACAAGGGATGGGA
59.853
47.619
0.00
0.00
0.00
4.37
3157
3373
1.547372
CAAGCAAACAAGGGATGGGAG
59.453
52.381
0.00
0.00
0.00
4.30
3158
3374
1.075601
AGCAAACAAGGGATGGGAGA
58.924
50.000
0.00
0.00
0.00
3.71
3159
3375
1.642762
AGCAAACAAGGGATGGGAGAT
59.357
47.619
0.00
0.00
0.00
2.75
3160
3376
2.027385
GCAAACAAGGGATGGGAGATC
58.973
52.381
0.00
0.00
0.00
2.75
3172
3388
0.830023
GGGAGATCGGAGAAGGGAGG
60.830
65.000
0.00
0.00
43.58
4.30
3174
3390
1.616159
GAGATCGGAGAAGGGAGGAG
58.384
60.000
0.00
0.00
43.58
3.69
3176
3392
0.186386
GATCGGAGAAGGGAGGAGGA
59.814
60.000
0.00
0.00
43.58
3.71
3177
3393
0.637195
ATCGGAGAAGGGAGGAGGAA
59.363
55.000
0.00
0.00
43.58
3.36
3181
3397
0.692756
GAGAAGGGAGGAGGAAGGGG
60.693
65.000
0.00
0.00
0.00
4.79
3183
3399
0.253207
GAAGGGAGGAGGAAGGGGAA
60.253
60.000
0.00
0.00
0.00
3.97
3292
3508
6.354130
GGTGCATTCCCATAGAAAGTTACTA
58.646
40.000
0.00
0.00
38.21
1.82
3293
3509
6.260271
GGTGCATTCCCATAGAAAGTTACTAC
59.740
42.308
0.00
0.00
38.21
2.73
3294
3510
7.048512
GTGCATTCCCATAGAAAGTTACTACT
58.951
38.462
0.00
0.00
38.21
2.57
3310
3526
1.129251
CTACTGCCATTGTTGTCAGCG
59.871
52.381
0.00
0.00
0.00
5.18
3348
3581
0.802607
GGCTCTCTCGCTTAACACCG
60.803
60.000
0.00
0.00
0.00
4.94
3386
3620
2.224549
CACACTCCGTCGCCAATAAAAA
59.775
45.455
0.00
0.00
0.00
1.94
3406
3640
3.317603
AATATTGCACCGCTTTGCTTT
57.682
38.095
7.79
0.00
43.41
3.51
3412
3646
1.639280
CACCGCTTTGCTTTTGTGTT
58.361
45.000
0.00
0.00
0.00
3.32
3454
3688
0.952010
CCTGGCAGCAATTTTGTGCC
60.952
55.000
20.48
20.48
46.14
5.01
3463
3712
0.446222
AATTTTGTGCCGGACGATCG
59.554
50.000
14.88
14.88
0.00
3.69
3473
3722
1.300233
GGACGATCGGGTCAGATGC
60.300
63.158
20.98
0.00
38.70
3.91
3501
3750
3.492102
TCTGCTTGCCCAATATAGTCC
57.508
47.619
0.00
0.00
0.00
3.85
3542
3842
3.014856
GCGAGTCGGCATAAAGGC
58.985
61.111
15.52
0.00
39.93
4.35
3587
3899
1.464997
GTCCAATGAACGGCTGAGAAC
59.535
52.381
0.00
0.00
0.00
3.01
3607
3919
1.818221
GCGTGGCTACTTTATCGCCG
61.818
60.000
0.00
0.00
46.67
6.46
3641
3974
4.833380
TCTCTCCTCCAAAATATAGTCCCG
59.167
45.833
0.00
0.00
0.00
5.14
3657
3990
2.093447
GTCCCGTGTCCATCTCAATTCT
60.093
50.000
0.00
0.00
0.00
2.40
3658
3991
2.571653
TCCCGTGTCCATCTCAATTCTT
59.428
45.455
0.00
0.00
0.00
2.52
3659
3992
3.009033
TCCCGTGTCCATCTCAATTCTTT
59.991
43.478
0.00
0.00
0.00
2.52
3660
3993
3.375299
CCCGTGTCCATCTCAATTCTTTC
59.625
47.826
0.00
0.00
0.00
2.62
3661
3994
4.256920
CCGTGTCCATCTCAATTCTTTCT
58.743
43.478
0.00
0.00
0.00
2.52
3684
5038
3.802139
CGGCCAGAAAAGAAAAGAAAACC
59.198
43.478
2.24
0.00
0.00
3.27
3719
5073
3.490759
CGCGCAAACTCCGAGCAT
61.491
61.111
8.75
0.00
0.00
3.79
3741
5095
1.333636
TGGGGCTGTGGTTGGTTTTG
61.334
55.000
0.00
0.00
0.00
2.44
3784
5138
3.698289
TCTTCGATCCTTCTGGTAGTGT
58.302
45.455
0.00
0.00
34.23
3.55
3785
5139
4.087182
TCTTCGATCCTTCTGGTAGTGTT
58.913
43.478
0.00
0.00
34.23
3.32
3786
5140
3.868757
TCGATCCTTCTGGTAGTGTTG
57.131
47.619
0.00
0.00
34.23
3.33
3787
5141
2.496070
TCGATCCTTCTGGTAGTGTTGG
59.504
50.000
0.00
0.00
34.23
3.77
3788
5142
2.418746
CGATCCTTCTGGTAGTGTTGGG
60.419
54.545
0.00
0.00
34.23
4.12
3806
5162
0.466739
GGTTGGTTATTAGGGGCGGG
60.467
60.000
0.00
0.00
0.00
6.13
3807
5163
0.466739
GTTGGTTATTAGGGGCGGGG
60.467
60.000
0.00
0.00
0.00
5.73
3810
5166
0.552363
GGTTATTAGGGGCGGGGAAA
59.448
55.000
0.00
0.00
0.00
3.13
3811
5167
1.063792
GGTTATTAGGGGCGGGGAAAA
60.064
52.381
0.00
0.00
0.00
2.29
3812
5168
2.304092
GTTATTAGGGGCGGGGAAAAG
58.696
52.381
0.00
0.00
0.00
2.27
3813
5169
1.598869
TATTAGGGGCGGGGAAAAGT
58.401
50.000
0.00
0.00
0.00
2.66
3843
5199
1.429148
GGGTGCCTATCGTGAAAGCG
61.429
60.000
0.00
0.00
0.00
4.68
3871
5227
8.905702
CACGAAATCTTTGTTTTATCTGAAAGG
58.094
33.333
0.00
0.00
0.00
3.11
3891
5247
4.434483
AAAAAGACGGGGATGGCC
57.566
55.556
0.00
0.00
0.00
5.36
3893
5249
2.132089
AAAAAGACGGGGATGGCCGA
62.132
55.000
0.00
0.00
33.83
5.54
3907
5263
1.657751
GGCCGAGGAAAAGATGTGGC
61.658
60.000
0.00
0.00
40.25
5.01
3908
5264
1.657751
GCCGAGGAAAAGATGTGGCC
61.658
60.000
0.00
0.00
35.01
5.36
3909
5265
1.032114
CCGAGGAAAAGATGTGGCCC
61.032
60.000
0.00
0.00
0.00
5.80
3910
5266
1.369091
CGAGGAAAAGATGTGGCCCG
61.369
60.000
0.00
0.00
0.00
6.13
3911
5267
1.657751
GAGGAAAAGATGTGGCCCGC
61.658
60.000
0.00
0.00
0.00
6.13
3912
5268
2.485122
GAAAAGATGTGGCCCGCG
59.515
61.111
0.00
0.00
0.00
6.46
3913
5269
3.683587
GAAAAGATGTGGCCCGCGC
62.684
63.158
0.00
0.00
0.00
6.86
3927
5283
2.474266
GCGCGCTCGTGAATGAAA
59.526
55.556
26.67
0.00
38.14
2.69
3928
5284
1.859135
GCGCGCTCGTGAATGAAAC
60.859
57.895
26.67
0.00
38.14
2.78
3929
5285
1.225745
CGCGCTCGTGAATGAAACC
60.226
57.895
5.56
0.00
0.00
3.27
3930
5286
1.866237
GCGCTCGTGAATGAAACCA
59.134
52.632
0.00
0.00
0.00
3.67
3931
5287
0.237235
GCGCTCGTGAATGAAACCAA
59.763
50.000
0.00
0.00
0.00
3.67
3932
5288
1.334599
GCGCTCGTGAATGAAACCAAA
60.335
47.619
0.00
0.00
0.00
3.28
3933
5289
2.307049
CGCTCGTGAATGAAACCAAAC
58.693
47.619
0.00
0.00
0.00
2.93
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
8
9
0.718220
CAGCGAGCGACGAACAAAAC
60.718
55.000
0.00
0.00
45.77
2.43
20
21
0.926846
GAGTAACATCAGCAGCGAGC
59.073
55.000
0.00
0.00
46.19
5.03
21
22
2.159324
TCTGAGTAACATCAGCAGCGAG
60.159
50.000
0.00
0.00
45.25
5.03
58
61
0.952280
TGTGGCGCGGTCATTTTAAA
59.048
45.000
8.83
0.00
0.00
1.52
59
62
1.131504
GATGTGGCGCGGTCATTTTAA
59.868
47.619
8.83
0.00
0.00
1.52
60
63
0.730265
GATGTGGCGCGGTCATTTTA
59.270
50.000
8.83
0.00
0.00
1.52
61
64
1.506262
GATGTGGCGCGGTCATTTT
59.494
52.632
8.83
0.00
0.00
1.82
62
65
2.406616
GGATGTGGCGCGGTCATTT
61.407
57.895
8.83
0.00
0.00
2.32
63
66
2.824041
GGATGTGGCGCGGTCATT
60.824
61.111
8.83
0.00
0.00
2.57
73
76
0.323633
TGGCAATGAGTGGGATGTGG
60.324
55.000
0.00
0.00
0.00
4.17
115
118
6.655003
CCCACTTGTGTGTATGTAGAGAATTT
59.345
38.462
0.00
0.00
42.34
1.82
128
131
1.526917
GCAGCTCCCACTTGTGTGT
60.527
57.895
0.00
0.00
42.34
3.72
147
159
3.629142
ATTCTCGATCGGTTTTCCCTT
57.371
42.857
16.41
0.00
36.42
3.95
157
169
1.590238
GTGGCACTGAATTCTCGATCG
59.410
52.381
11.13
9.36
0.00
3.69
208
220
4.235762
CGGTGGCGGGTGATAGGG
62.236
72.222
0.00
0.00
0.00
3.53
231
256
5.910723
TCATAAAACGGAGCGAAAGAAAAAC
59.089
36.000
0.00
0.00
0.00
2.43
235
260
4.932799
TCATCATAAAACGGAGCGAAAGAA
59.067
37.500
0.00
0.00
0.00
2.52
237
262
4.857871
TCATCATAAAACGGAGCGAAAG
57.142
40.909
0.00
0.00
0.00
2.62
241
266
4.271049
ACTGAATCATCATAAAACGGAGCG
59.729
41.667
0.00
0.00
34.37
5.03
251
276
6.581712
TGATTGACCGAACTGAATCATCATA
58.418
36.000
0.00
0.00
34.37
2.15
267
292
5.540911
TCATCCTTTTGCTTTTGATTGACC
58.459
37.500
0.00
0.00
0.00
4.02
286
311
7.425606
GTGGAATTACAACATGGGTTATCATC
58.574
38.462
0.00
0.00
34.87
2.92
287
312
6.323739
GGTGGAATTACAACATGGGTTATCAT
59.676
38.462
0.00
0.00
34.87
2.45
288
313
5.654650
GGTGGAATTACAACATGGGTTATCA
59.345
40.000
0.00
0.00
34.87
2.15
297
322
7.440856
GTGTTTTGATTGGTGGAATTACAACAT
59.559
33.333
9.79
0.00
37.99
2.71
338
377
1.528586
CGGCTCAACTGAACTGAACTG
59.471
52.381
0.00
0.00
0.00
3.16
339
378
1.412710
TCGGCTCAACTGAACTGAACT
59.587
47.619
0.00
0.00
0.00
3.01
340
379
1.527311
GTCGGCTCAACTGAACTGAAC
59.473
52.381
0.00
0.00
34.69
3.18
341
380
1.138069
TGTCGGCTCAACTGAACTGAA
59.862
47.619
0.00
0.00
34.69
3.02
342
381
0.750249
TGTCGGCTCAACTGAACTGA
59.250
50.000
0.00
0.00
34.69
3.41
438
477
1.760480
GAGGGGGAGAGAGAGGTGC
60.760
68.421
0.00
0.00
0.00
5.01
439
491
1.454847
CGAGGGGGAGAGAGAGGTG
60.455
68.421
0.00
0.00
0.00
4.00
440
492
3.011885
CGAGGGGGAGAGAGAGGT
58.988
66.667
0.00
0.00
0.00
3.85
441
493
2.520741
GCGAGGGGGAGAGAGAGG
60.521
72.222
0.00
0.00
0.00
3.69
510
611
3.582120
GTGCGTGTGTGGGTGTGG
61.582
66.667
0.00
0.00
0.00
4.17
511
612
3.935872
CGTGCGTGTGTGGGTGTG
61.936
66.667
0.00
0.00
0.00
3.82
514
615
2.796483
ATATGCGTGCGTGTGTGGGT
62.796
55.000
0.00
0.00
0.00
4.51
515
616
0.808060
TATATGCGTGCGTGTGTGGG
60.808
55.000
0.00
0.00
0.00
4.61
516
617
1.003108
TTATATGCGTGCGTGTGTGG
58.997
50.000
0.00
0.00
0.00
4.17
517
618
2.796976
TTTATATGCGTGCGTGTGTG
57.203
45.000
0.00
0.00
0.00
3.82
518
619
4.349663
AATTTTATATGCGTGCGTGTGT
57.650
36.364
0.00
0.00
0.00
3.72
519
620
4.546081
GCAAATTTTATATGCGTGCGTGTG
60.546
41.667
0.00
0.00
0.00
3.82
520
621
3.545873
GCAAATTTTATATGCGTGCGTGT
59.454
39.130
0.00
0.00
0.00
4.49
521
622
3.790820
AGCAAATTTTATATGCGTGCGTG
59.209
39.130
0.00
0.00
44.60
5.34
522
623
4.027572
AGCAAATTTTATATGCGTGCGT
57.972
36.364
0.00
0.00
44.60
5.24
523
624
3.421888
GGAGCAAATTTTATATGCGTGCG
59.578
43.478
0.00
0.00
44.60
5.34
524
625
4.207019
GTGGAGCAAATTTTATATGCGTGC
59.793
41.667
0.00
0.00
44.60
5.34
560
661
3.424105
AGGGATTGGGGGCTCTGC
61.424
66.667
0.00
0.00
0.00
4.26
658
771
3.843619
AGGGGGAAAGAGAGAGAGAAAAG
59.156
47.826
0.00
0.00
0.00
2.27
663
776
1.290732
AGGAGGGGGAAAGAGAGAGAG
59.709
57.143
0.00
0.00
0.00
3.20
664
777
1.289530
GAGGAGGGGGAAAGAGAGAGA
59.710
57.143
0.00
0.00
0.00
3.10
665
778
1.691163
GGAGGAGGGGGAAAGAGAGAG
60.691
61.905
0.00
0.00
0.00
3.20
673
786
2.768344
GCGATGGAGGAGGGGGAA
60.768
66.667
0.00
0.00
0.00
3.97
674
787
3.758133
GAGCGATGGAGGAGGGGGA
62.758
68.421
0.00
0.00
0.00
4.81
678
791
4.292178
GGCGAGCGATGGAGGAGG
62.292
72.222
0.00
0.00
0.00
4.30
711
827
0.584396
CTACGCTACTCGCTCCTCTG
59.416
60.000
0.00
0.00
43.23
3.35
732
860
2.682494
TCCCCCACACCGAGCTAC
60.682
66.667
0.00
0.00
0.00
3.58
733
861
2.238319
ATCTCCCCCACACCGAGCTA
62.238
60.000
0.00
0.00
0.00
3.32
734
862
3.625632
ATCTCCCCCACACCGAGCT
62.626
63.158
0.00
0.00
0.00
4.09
735
863
3.083997
ATCTCCCCCACACCGAGC
61.084
66.667
0.00
0.00
0.00
5.03
737
865
2.758327
CGATCTCCCCCACACCGA
60.758
66.667
0.00
0.00
0.00
4.69
738
866
2.758327
TCGATCTCCCCCACACCG
60.758
66.667
0.00
0.00
0.00
4.94
743
874
4.137615
TCCGCTCGATCTCCCCCA
62.138
66.667
0.00
0.00
0.00
4.96
767
902
4.693095
ACTCGATTGCTCCTTTCTTTTCTC
59.307
41.667
0.00
0.00
0.00
2.87
769
904
4.716943
CACTCGATTGCTCCTTTCTTTTC
58.283
43.478
0.00
0.00
0.00
2.29
773
908
1.731720
GCACTCGATTGCTCCTTTCT
58.268
50.000
19.43
0.00
39.59
2.52
792
927
4.479993
CCAGCCGGGGAGCAGAAG
62.480
72.222
2.18
0.00
34.23
2.85
816
951
0.601558
GGGGAAAAGAAAAGACGGGC
59.398
55.000
0.00
0.00
0.00
6.13
832
967
0.685458
CAATTCAGCTTCCCCAGGGG
60.685
60.000
20.55
20.55
46.11
4.79
854
990
1.296867
CACGCACGCGAATCAATCC
60.297
57.895
19.66
0.00
42.83
3.01
915
1060
3.297020
GAAGAAATCGAGAAGAAGCGC
57.703
47.619
0.00
0.00
0.00
5.92
976
1123
1.365105
TAGCTCCCTCCTCCTCTCCC
61.365
65.000
0.00
0.00
0.00
4.30
981
1128
1.232792
CAGCTAGCTCCCTCCTCCT
59.767
63.158
16.15
0.00
0.00
3.69
984
1131
0.264359
ACATCAGCTAGCTCCCTCCT
59.736
55.000
16.15
0.00
0.00
3.69
989
1139
0.319125
GCCGTACATCAGCTAGCTCC
60.319
60.000
16.15
0.00
0.00
4.70
990
1140
0.671251
AGCCGTACATCAGCTAGCTC
59.329
55.000
16.15
0.95
34.38
4.09
1046
1196
4.692129
CGGAGGAGTTCATCGTCG
57.308
61.111
0.00
0.00
42.57
5.12
1169
1319
1.374252
CGGGAGAAGACGTTGTGGG
60.374
63.158
0.00
0.00
0.00
4.61
1170
1320
2.027625
GCGGGAGAAGACGTTGTGG
61.028
63.158
0.00
0.00
0.00
4.17
1171
1321
0.600255
AAGCGGGAGAAGACGTTGTG
60.600
55.000
0.00
0.00
0.00
3.33
1263
1413
4.241555
ATGGCGGCGGAGTCATCC
62.242
66.667
9.78
0.00
42.81
3.51
1496
1658
0.047176
AGGAGGAGAGGAGGAGGAGA
59.953
60.000
0.00
0.00
0.00
3.71
1507
1669
2.176247
AGGCCGAATTAAGGAGGAGA
57.824
50.000
0.00
0.00
0.00
3.71
1540
1707
3.573491
GAACTATGGCACCGCGGC
61.573
66.667
28.58
12.69
41.67
6.53
1562
1729
0.660300
GGCTGTAATAATTGCGGCGC
60.660
55.000
27.44
27.44
46.89
6.53
1610
1777
4.338400
GGGATTTAGTTCCCGAAATGGAAG
59.662
45.833
0.00
0.00
45.84
3.46
1641
1808
2.125147
CCTGAATTCAGCGGCGGA
60.125
61.111
27.01
0.00
42.47
5.54
1650
1817
2.961526
TGCTCTCGTACCCTGAATTC
57.038
50.000
0.00
0.00
0.00
2.17
1944
2126
3.151022
GGCTCTGAGGAGTCCCGG
61.151
72.222
5.25
0.00
41.38
5.73
1983
2165
7.464358
ACGAATGAATGAAATGCTAGTGTAAC
58.536
34.615
0.00
0.00
0.00
2.50
2010
2192
3.414700
CAGTTCGGTGCTCACGGC
61.415
66.667
3.11
0.00
42.22
5.68
2011
2193
2.022129
GTCAGTTCGGTGCTCACGG
61.022
63.158
1.70
1.70
0.00
4.94
2079
2261
3.358076
CTCCGACGAGGTCTTGGGC
62.358
68.421
0.00
0.00
41.99
5.36
2204
2386
3.055719
CGGGCAGCGTGGATTTGT
61.056
61.111
0.00
0.00
0.00
2.83
2205
2387
2.141122
AAACGGGCAGCGTGGATTTG
62.141
55.000
0.00
0.00
0.00
2.32
2231
2433
2.325761
GTGTTCTCGCGACAATACTGT
58.674
47.619
14.89
0.00
38.98
3.55
2241
2443
0.370273
GTAGCAATGGTGTTCTCGCG
59.630
55.000
0.00
0.00
0.00
5.87
2244
2451
5.186198
ACTAATGGTAGCAATGGTGTTCTC
58.814
41.667
0.00
0.00
0.00
2.87
2245
2452
5.045578
AGACTAATGGTAGCAATGGTGTTCT
60.046
40.000
3.51
0.00
0.00
3.01
2246
2453
5.186198
AGACTAATGGTAGCAATGGTGTTC
58.814
41.667
3.51
0.00
0.00
3.18
2247
2454
5.179452
AGACTAATGGTAGCAATGGTGTT
57.821
39.130
3.51
0.00
0.00
3.32
2252
2459
7.055667
TCTAGGAAGACTAATGGTAGCAATG
57.944
40.000
0.00
0.00
0.00
2.82
2259
2466
5.221342
CGCTTGATCTAGGAAGACTAATGGT
60.221
44.000
6.30
0.00
33.57
3.55
2261
2468
5.221342
ACCGCTTGATCTAGGAAGACTAATG
60.221
44.000
6.30
0.00
33.57
1.90
2263
2470
4.279145
ACCGCTTGATCTAGGAAGACTAA
58.721
43.478
6.30
0.00
33.57
2.24
2271
2478
2.868583
CACATCAACCGCTTGATCTAGG
59.131
50.000
2.91
1.11
44.04
3.02
2355
2571
2.171635
GTCCATGTTTGGGACGAGC
58.828
57.895
0.00
0.00
44.80
5.03
2385
2601
1.457455
GGGAGCTGGGAGAGAGAGG
60.457
68.421
0.00
0.00
0.00
3.69
2389
2605
3.284251
TGGGGGAGCTGGGAGAGA
61.284
66.667
0.00
0.00
0.00
3.10
2390
2606
3.086600
GTGGGGGAGCTGGGAGAG
61.087
72.222
0.00
0.00
0.00
3.20
2391
2607
4.741239
GGTGGGGGAGCTGGGAGA
62.741
72.222
0.00
0.00
0.00
3.71
2396
2612
2.608988
AGACTGGTGGGGGAGCTG
60.609
66.667
0.00
0.00
0.00
4.24
2397
2613
2.106923
TACAGACTGGTGGGGGAGCT
62.107
60.000
7.51
0.00
0.00
4.09
2398
2614
1.612442
TACAGACTGGTGGGGGAGC
60.612
63.158
7.51
0.00
0.00
4.70
2399
2615
1.617947
GCTACAGACTGGTGGGGGAG
61.618
65.000
7.51
0.00
0.00
4.30
2400
2616
1.612442
GCTACAGACTGGTGGGGGA
60.612
63.158
7.51
0.00
0.00
4.81
2410
2626
3.958798
TCCTATTGGTACAGGCTACAGAC
59.041
47.826
0.00
0.00
42.39
3.51
2460
2676
2.672651
TGTGGTCCTTGCATGGCG
60.673
61.111
13.75
0.00
0.00
5.69
2463
2679
0.827089
TTGGGTGTGGTCCTTGCATG
60.827
55.000
0.00
0.00
0.00
4.06
2512
2728
3.119919
GGTTTGCTGCAGAGAGAGAAATG
60.120
47.826
20.43
0.00
0.00
2.32
2517
2733
1.534595
GTTGGTTTGCTGCAGAGAGAG
59.465
52.381
20.43
0.00
0.00
3.20
2518
2734
1.134128
TGTTGGTTTGCTGCAGAGAGA
60.134
47.619
20.43
0.00
0.00
3.10
2519
2735
1.002033
GTGTTGGTTTGCTGCAGAGAG
60.002
52.381
20.43
0.00
0.00
3.20
2520
2736
1.024271
GTGTTGGTTTGCTGCAGAGA
58.976
50.000
20.43
0.77
0.00
3.10
2601
2817
3.004734
GGTAATTGGGAGGATGATTTGCG
59.995
47.826
0.00
0.00
0.00
4.85
2608
2824
7.561356
AGAAAGTTTATGGTAATTGGGAGGATG
59.439
37.037
0.00
0.00
0.00
3.51
2633
2849
7.415653
GGTTTATTTTATGCCTCTCTTGGTGAG
60.416
40.741
0.00
0.00
43.96
3.51
2635
2851
6.564328
GGTTTATTTTATGCCTCTCTTGGTG
58.436
40.000
0.00
0.00
0.00
4.17
2636
2852
5.357032
CGGTTTATTTTATGCCTCTCTTGGT
59.643
40.000
0.00
0.00
0.00
3.67
2638
2854
5.357032
ACCGGTTTATTTTATGCCTCTCTTG
59.643
40.000
0.00
0.00
0.00
3.02
2639
2855
5.506708
ACCGGTTTATTTTATGCCTCTCTT
58.493
37.500
0.00
0.00
0.00
2.85
2661
2877
4.625311
CCACCCGCAAATTAATCAAGAAAC
59.375
41.667
0.00
0.00
0.00
2.78
2662
2878
4.322349
CCCACCCGCAAATTAATCAAGAAA
60.322
41.667
0.00
0.00
0.00
2.52
2663
2879
3.194542
CCCACCCGCAAATTAATCAAGAA
59.805
43.478
0.00
0.00
0.00
2.52
2667
2883
2.096248
GACCCACCCGCAAATTAATCA
58.904
47.619
0.00
0.00
0.00
2.57
2669
2885
2.223803
TGACCCACCCGCAAATTAAT
57.776
45.000
0.00
0.00
0.00
1.40
2678
2894
1.602605
GGAAAGGTTGACCCACCCG
60.603
63.158
0.00
0.00
37.58
5.28
2794
3010
7.643528
TCTGGATTATGTAGTACGTACGTAG
57.356
40.000
27.48
13.25
35.06
3.51
2798
3014
6.634436
CGGTTTCTGGATTATGTAGTACGTAC
59.366
42.308
18.10
18.10
0.00
3.67
2801
3017
4.980434
CCGGTTTCTGGATTATGTAGTACG
59.020
45.833
0.00
0.00
0.00
3.67
2803
3019
4.202284
GCCCGGTTTCTGGATTATGTAGTA
60.202
45.833
0.00
0.00
0.00
1.82
2804
3020
3.433173
GCCCGGTTTCTGGATTATGTAGT
60.433
47.826
0.00
0.00
0.00
2.73
2805
3021
3.139077
GCCCGGTTTCTGGATTATGTAG
58.861
50.000
0.00
0.00
0.00
2.74
2806
3022
2.775384
AGCCCGGTTTCTGGATTATGTA
59.225
45.455
0.00
0.00
0.00
2.29
2807
3023
1.564348
AGCCCGGTTTCTGGATTATGT
59.436
47.619
0.00
0.00
0.00
2.29
2808
3024
2.348411
AGCCCGGTTTCTGGATTATG
57.652
50.000
0.00
0.00
0.00
1.90
2809
3025
3.023832
CAAAGCCCGGTTTCTGGATTAT
58.976
45.455
0.00
0.00
28.35
1.28
2810
3026
2.040545
TCAAAGCCCGGTTTCTGGATTA
59.959
45.455
0.00
0.00
28.35
1.75
2811
3027
1.203001
TCAAAGCCCGGTTTCTGGATT
60.203
47.619
0.00
0.00
0.00
3.01
2824
3040
2.475487
GTGACGAGTAACTGTCAAAGCC
59.525
50.000
4.89
0.00
45.84
4.35
2918
3134
2.581216
TCTCTCAACCGGAGTACTGT
57.419
50.000
9.46
0.00
44.40
3.55
2919
3135
3.082548
TCTTCTCTCAACCGGAGTACTG
58.917
50.000
9.46
0.00
44.40
2.74
2920
3136
3.009253
TCTCTTCTCTCAACCGGAGTACT
59.991
47.826
9.46
0.00
44.40
2.73
2927
3143
0.820871
CCCCTCTCTTCTCTCAACCG
59.179
60.000
0.00
0.00
0.00
4.44
2949
3165
4.371624
AGAGATGAGATGAGACCGATCT
57.628
45.455
0.00
0.00
38.15
2.75
2950
3166
5.487433
TCTAGAGATGAGATGAGACCGATC
58.513
45.833
0.00
0.00
0.00
3.69
2951
3167
5.497464
TCTAGAGATGAGATGAGACCGAT
57.503
43.478
0.00
0.00
0.00
4.18
2952
3168
4.965200
TCTAGAGATGAGATGAGACCGA
57.035
45.455
0.00
0.00
0.00
4.69
2953
3169
5.304778
TCTTCTAGAGATGAGATGAGACCG
58.695
45.833
0.00
0.00
0.00
4.79
2955
3171
6.488006
AGCTTCTTCTAGAGATGAGATGAGAC
59.512
42.308
8.51
0.00
33.49
3.36
2956
3172
6.604171
AGCTTCTTCTAGAGATGAGATGAGA
58.396
40.000
8.51
0.00
33.49
3.27
2957
3173
6.072286
GGAGCTTCTTCTAGAGATGAGATGAG
60.072
46.154
8.51
0.03
33.49
2.90
2958
3174
5.769662
GGAGCTTCTTCTAGAGATGAGATGA
59.230
44.000
8.51
0.00
33.49
2.92
2959
3175
5.335113
CGGAGCTTCTTCTAGAGATGAGATG
60.335
48.000
0.00
0.00
33.49
2.90
2960
3176
4.761739
CGGAGCTTCTTCTAGAGATGAGAT
59.238
45.833
0.00
0.00
33.49
2.75
2961
3177
4.133820
CGGAGCTTCTTCTAGAGATGAGA
58.866
47.826
0.00
0.00
33.49
3.27
2983
3199
3.618690
ATTCTCCAGGTCTTGTACAGC
57.381
47.619
0.00
0.00
0.00
4.40
3018
3234
0.594602
GCGTTACACCTTCCCCAAAC
59.405
55.000
0.00
0.00
0.00
2.93
3026
3242
3.677976
GCTACTACCATGCGTTACACCTT
60.678
47.826
0.00
0.00
0.00
3.50
3035
3251
2.268298
ACGAAAAGCTACTACCATGCG
58.732
47.619
0.00
0.00
0.00
4.73
3081
3297
3.036783
CTCTGCTTGCTCGCTTGCC
62.037
63.158
0.00
0.00
0.00
4.52
3085
3301
2.578128
CTCCTCTGCTTGCTCGCT
59.422
61.111
0.00
0.00
0.00
4.93
3086
3302
2.511145
CCTCCTCTGCTTGCTCGC
60.511
66.667
0.00
0.00
0.00
5.03
3087
3303
2.186384
CCCTCCTCTGCTTGCTCG
59.814
66.667
0.00
0.00
0.00
5.03
3095
3311
4.845580
ATTGCGCGCCCTCCTCTG
62.846
66.667
30.77
0.00
0.00
3.35
3096
3312
4.845580
CATTGCGCGCCCTCCTCT
62.846
66.667
30.77
1.68
0.00
3.69
3105
3321
4.170062
CCACTGCTCCATTGCGCG
62.170
66.667
0.00
0.00
35.36
6.86
3141
3357
2.292267
CGATCTCCCATCCCTTGTTTG
58.708
52.381
0.00
0.00
0.00
2.93
3144
3360
0.031111
TCCGATCTCCCATCCCTTGT
60.031
55.000
0.00
0.00
0.00
3.16
3148
3364
0.972883
CTTCTCCGATCTCCCATCCC
59.027
60.000
0.00
0.00
0.00
3.85
3151
3367
0.563173
TCCCTTCTCCGATCTCCCAT
59.437
55.000
0.00
0.00
0.00
4.00
3153
3369
0.830023
CCTCCCTTCTCCGATCTCCC
60.830
65.000
0.00
0.00
0.00
4.30
3154
3370
0.186386
TCCTCCCTTCTCCGATCTCC
59.814
60.000
0.00
0.00
0.00
3.71
3155
3371
1.616159
CTCCTCCCTTCTCCGATCTC
58.384
60.000
0.00
0.00
0.00
2.75
3156
3372
0.187361
CCTCCTCCCTTCTCCGATCT
59.813
60.000
0.00
0.00
0.00
2.75
3157
3373
0.186386
TCCTCCTCCCTTCTCCGATC
59.814
60.000
0.00
0.00
0.00
3.69
3158
3374
0.637195
TTCCTCCTCCCTTCTCCGAT
59.363
55.000
0.00
0.00
0.00
4.18
3159
3375
0.033011
CTTCCTCCTCCCTTCTCCGA
60.033
60.000
0.00
0.00
0.00
4.55
3160
3376
1.045911
CCTTCCTCCTCCCTTCTCCG
61.046
65.000
0.00
0.00
0.00
4.63
3172
3388
2.437651
CTCCATCTTCTTCCCCTTCCTC
59.562
54.545
0.00
0.00
0.00
3.71
3174
3390
1.492599
CCTCCATCTTCTTCCCCTTCC
59.507
57.143
0.00
0.00
0.00
3.46
3176
3392
0.922626
GCCTCCATCTTCTTCCCCTT
59.077
55.000
0.00
0.00
0.00
3.95
3177
3393
0.990818
GGCCTCCATCTTCTTCCCCT
60.991
60.000
0.00
0.00
0.00
4.79
3181
3397
0.105778
CTCCGGCCTCCATCTTCTTC
59.894
60.000
0.00
0.00
0.00
2.87
3183
3399
0.325671
TTCTCCGGCCTCCATCTTCT
60.326
55.000
0.00
0.00
0.00
2.85
3262
3478
2.301870
TCTATGGGAATGCACCGGATAC
59.698
50.000
9.46
0.00
0.00
2.24
3294
3510
1.898094
AGCGCTGACAACAATGGCA
60.898
52.632
10.39
0.00
44.25
4.92
3310
3526
0.810823
CTAGAGCTCCTTGCAGCAGC
60.811
60.000
10.93
5.67
45.94
5.25
3339
3572
3.979495
GTGTGAGTAGTGACGGTGTTAAG
59.021
47.826
0.00
0.00
0.00
1.85
3348
3581
1.335810
TGTGACCGTGTGAGTAGTGAC
59.664
52.381
0.00
0.00
0.00
3.67
3394
3628
2.378445
AAACACAAAAGCAAAGCGGT
57.622
40.000
0.00
0.00
0.00
5.68
3395
3629
2.787382
GCAAAACACAAAAGCAAAGCGG
60.787
45.455
0.00
0.00
0.00
5.52
3396
3630
2.094099
AGCAAAACACAAAAGCAAAGCG
59.906
40.909
0.00
0.00
0.00
4.68
3406
3640
1.086634
GGCCGCAAAGCAAAACACAA
61.087
50.000
0.00
0.00
0.00
3.33
3454
3688
1.008424
CATCTGACCCGATCGTCCG
60.008
63.158
15.09
2.63
31.35
4.79
3463
3712
2.096496
CAGAATTGAACGCATCTGACCC
59.904
50.000
0.00
0.00
41.38
4.46
3473
3722
0.597568
TGGGCAAGCAGAATTGAACG
59.402
50.000
0.00
0.00
31.55
3.95
3501
3750
0.039165
GCCTTTCACTTTCAAGCCCG
60.039
55.000
0.00
0.00
0.00
6.13
3542
3842
2.738521
CGTGAACTCACCGGCCAG
60.739
66.667
0.00
0.00
43.66
4.85
3562
3862
4.160635
CCGTTCATTGGACGCCGC
62.161
66.667
12.12
0.00
39.09
6.53
3565
3865
1.970917
CTCAGCCGTTCATTGGACGC
61.971
60.000
12.12
7.75
39.09
5.19
3587
3899
1.558383
GCGATAAAGTAGCCACGCG
59.442
57.895
3.53
3.53
37.06
6.01
3607
3919
3.462678
GGAGAGACAGCGACCCCC
61.463
72.222
0.00
0.00
0.00
5.40
3641
3974
4.331168
CCGAGAAAGAATTGAGATGGACAC
59.669
45.833
0.00
0.00
0.00
3.67
3657
3990
4.204012
TCTTTTCTTTTCTGGCCGAGAAA
58.796
39.130
19.97
19.97
46.93
2.52
3658
3991
3.815809
TCTTTTCTTTTCTGGCCGAGAA
58.184
40.909
12.03
12.03
39.05
2.87
3659
3992
3.485463
TCTTTTCTTTTCTGGCCGAGA
57.515
42.857
0.00
0.00
0.00
4.04
3660
3993
4.568152
TTTCTTTTCTTTTCTGGCCGAG
57.432
40.909
0.00
0.00
0.00
4.63
3661
3994
4.440940
GGTTTTCTTTTCTTTTCTGGCCGA
60.441
41.667
0.00
0.00
0.00
5.54
3673
4006
1.270041
TGCGCCCATGGTTTTCTTTTC
60.270
47.619
11.73
0.00
0.00
2.29
3684
5038
4.884257
GCTGCCATTGCGCCCATG
62.884
66.667
4.18
7.37
41.78
3.66
3719
5073
0.618968
AACCAACCACAGCCCCAAAA
60.619
50.000
0.00
0.00
0.00
2.44
3784
5138
1.341187
CGCCCCTAATAACCAACCCAA
60.341
52.381
0.00
0.00
0.00
4.12
3785
5139
0.256464
CGCCCCTAATAACCAACCCA
59.744
55.000
0.00
0.00
0.00
4.51
3786
5140
0.466739
CCGCCCCTAATAACCAACCC
60.467
60.000
0.00
0.00
0.00
4.11
3787
5141
0.466739
CCCGCCCCTAATAACCAACC
60.467
60.000
0.00
0.00
0.00
3.77
3788
5142
0.466739
CCCCGCCCCTAATAACCAAC
60.467
60.000
0.00
0.00
0.00
3.77
3806
5162
1.336795
CCCCATGCGTCAAACTTTTCC
60.337
52.381
0.00
0.00
0.00
3.13
3807
5163
1.339929
ACCCCATGCGTCAAACTTTTC
59.660
47.619
0.00
0.00
0.00
2.29
3810
5166
1.805428
GCACCCCATGCGTCAAACTT
61.805
55.000
0.00
0.00
46.55
2.66
3811
5167
2.268076
GCACCCCATGCGTCAAACT
61.268
57.895
0.00
0.00
46.55
2.66
3812
5168
2.258286
GCACCCCATGCGTCAAAC
59.742
61.111
0.00
0.00
46.55
2.93
3843
5199
6.378582
TCAGATAAAACAAAGATTTCGTGCC
58.621
36.000
0.00
0.00
0.00
5.01
3891
5247
1.369091
CGGGCCACATCTTTTCCTCG
61.369
60.000
4.39
0.00
0.00
4.63
3893
5249
1.678970
GCGGGCCACATCTTTTCCT
60.679
57.895
4.39
0.00
0.00
3.36
3909
5265
3.347588
TTTCATTCACGAGCGCGCG
62.348
57.895
31.62
31.62
42.48
6.86
3910
5266
1.859135
GTTTCATTCACGAGCGCGC
60.859
57.895
26.66
26.66
42.48
6.86
3911
5267
1.225745
GGTTTCATTCACGAGCGCG
60.226
57.895
8.75
8.75
44.79
6.86
3912
5268
0.237235
TTGGTTTCATTCACGAGCGC
59.763
50.000
0.00
0.00
0.00
5.92
3913
5269
2.307049
GTTTGGTTTCATTCACGAGCG
58.693
47.619
0.00
0.00
0.00
5.03
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.