Multiple sequence alignment - TraesCS2D01G233200
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
TraesCS2D01G233200
chr2D
100.000
3514
0
0
1
3514
207253460
207249947
0.000000e+00
6490.0
1
TraesCS2D01G233200
chr2D
91.429
595
49
2
2
595
159187551
159186958
0.000000e+00
815.0
2
TraesCS2D01G233200
chr2D
91.081
583
51
1
1
583
401418321
401418902
0.000000e+00
787.0
3
TraesCS2D01G233200
chr2D
90.741
54
4
1
1004
1057
367225293
367225345
1.750000e-08
71.3
4
TraesCS2D01G233200
chr2B
91.573
1424
39
25
1685
3091
260638776
260640135
0.000000e+00
1890.0
5
TraesCS2D01G233200
chr2B
98.174
438
7
1
3077
3514
260640219
260640655
0.000000e+00
763.0
6
TraesCS2D01G233200
chr2B
94.737
133
7
0
596
728
260623429
260623561
1.280000e-49
207.0
7
TraesCS2D01G233200
chr2A
97.400
846
22
0
2669
3514
257854766
257855611
0.000000e+00
1441.0
8
TraesCS2D01G233200
chr2A
90.774
1008
30
13
1642
2634
257853804
257854763
0.000000e+00
1288.0
9
TraesCS2D01G233200
chr2A
93.214
280
15
3
1345
1622
257791234
257791511
3.270000e-110
409.0
10
TraesCS2D01G233200
chr2A
91.327
196
15
2
985
1178
257785607
257785802
2.080000e-67
267.0
11
TraesCS2D01G233200
chr2A
93.233
133
9
0
596
728
257785458
257785590
2.770000e-46
196.0
12
TraesCS2D01G233200
chr2A
93.333
120
5
2
1167
1286
257786446
257786562
1.300000e-39
174.0
13
TraesCS2D01G233200
chr1D
91.062
593
51
2
1
592
79497588
79498179
0.000000e+00
800.0
14
TraesCS2D01G233200
chr5D
90.801
587
54
0
9
595
181519019
181519605
0.000000e+00
785.0
15
TraesCS2D01G233200
chr5D
86.975
238
17
10
985
1210
154330621
154330386
4.500000e-64
255.0
16
TraesCS2D01G233200
chr5D
85.776
232
23
10
985
1210
225525870
225525643
1.630000e-58
237.0
17
TraesCS2D01G233200
chr5D
85.776
232
23
10
985
1210
225574119
225573892
1.630000e-58
237.0
18
TraesCS2D01G233200
chr7D
90.436
596
55
2
1
595
257570409
257571003
0.000000e+00
784.0
19
TraesCS2D01G233200
chr7D
90.909
275
22
3
715
988
500619042
500619314
1.990000e-97
366.0
20
TraesCS2D01G233200
chr7D
85.502
269
37
2
720
987
46993827
46993560
2.670000e-71
279.0
21
TraesCS2D01G233200
chr3D
90.420
595
57
0
1
595
164498800
164499394
0.000000e+00
784.0
22
TraesCS2D01G233200
chr3D
90.101
596
57
2
1
595
98079716
98080310
0.000000e+00
773.0
23
TraesCS2D01G233200
chr4D
90.268
596
56
2
1
595
242879717
242880311
0.000000e+00
778.0
24
TraesCS2D01G233200
chr7A
89.848
591
60
0
4
594
336198609
336198019
0.000000e+00
760.0
25
TraesCS2D01G233200
chr7A
86.100
259
36
0
730
988
92768261
92768519
2.670000e-71
279.0
26
TraesCS2D01G233200
chr6D
85.558
547
58
12
1903
2441
461387683
461388216
1.430000e-153
553.0
27
TraesCS2D01G233200
chr6D
85.593
236
22
9
985
1210
209633039
209633272
1.630000e-58
237.0
28
TraesCS2D01G233200
chr6D
92.258
155
7
5
1675
1827
461387169
461387320
7.640000e-52
215.0
29
TraesCS2D01G233200
chr6D
81.818
77
6
4
1538
1606
461386932
461387008
1.360000e-04
58.4
30
TraesCS2D01G233200
chr6A
84.954
545
71
7
1903
2441
608073815
608074354
3.090000e-150
542.0
31
TraesCS2D01G233200
chr6A
85.496
262
38
0
730
991
596891573
596891834
1.240000e-69
274.0
32
TraesCS2D01G233200
chr6A
96.850
127
4
0
1701
1827
608073348
608073474
2.750000e-51
213.0
33
TraesCS2D01G233200
chr6A
83.333
222
20
11
1002
1210
271823276
271823059
4.630000e-44
189.0
34
TraesCS2D01G233200
chr6B
84.142
536
57
16
1911
2441
703147084
703147596
8.760000e-136
494.0
35
TraesCS2D01G233200
chr6B
86.100
259
36
0
730
988
2044365
2044107
2.670000e-71
279.0
36
TraesCS2D01G233200
chr6B
94.444
144
5
3
1686
1829
703146339
703146479
5.910000e-53
219.0
37
TraesCS2D01G233200
chr5A
92.520
254
19
0
730
983
536370212
536369959
7.170000e-97
364.0
38
TraesCS2D01G233200
chr5A
85.659
258
37
0
730
987
404561125
404560868
4.470000e-69
272.0
39
TraesCS2D01G233200
chr5A
85.659
258
37
0
730
987
487842952
487842695
4.470000e-69
272.0
40
TraesCS2D01G233200
chr5A
81.974
233
27
10
986
1206
208199542
208199313
2.150000e-42
183.0
41
TraesCS2D01G233200
chr3B
85.659
258
37
0
730
987
2110161
2110418
4.470000e-69
272.0
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
TraesCS2D01G233200
chr2D
207249947
207253460
3513
True
6490.000000
6490
100.000000
1
3514
1
chr2D.!!$R2
3513
1
TraesCS2D01G233200
chr2D
159186958
159187551
593
True
815.000000
815
91.429000
2
595
1
chr2D.!!$R1
593
2
TraesCS2D01G233200
chr2D
401418321
401418902
581
False
787.000000
787
91.081000
1
583
1
chr2D.!!$F2
582
3
TraesCS2D01G233200
chr2B
260638776
260640655
1879
False
1326.500000
1890
94.873500
1685
3514
2
chr2B.!!$F2
1829
4
TraesCS2D01G233200
chr2A
257853804
257855611
1807
False
1364.500000
1441
94.087000
1642
3514
2
chr2A.!!$F3
1872
5
TraesCS2D01G233200
chr2A
257785458
257786562
1104
False
212.333333
267
92.631000
596
1286
3
chr2A.!!$F2
690
6
TraesCS2D01G233200
chr1D
79497588
79498179
591
False
800.000000
800
91.062000
1
592
1
chr1D.!!$F1
591
7
TraesCS2D01G233200
chr5D
181519019
181519605
586
False
785.000000
785
90.801000
9
595
1
chr5D.!!$F1
586
8
TraesCS2D01G233200
chr7D
257570409
257571003
594
False
784.000000
784
90.436000
1
595
1
chr7D.!!$F1
594
9
TraesCS2D01G233200
chr3D
164498800
164499394
594
False
784.000000
784
90.420000
1
595
1
chr3D.!!$F2
594
10
TraesCS2D01G233200
chr3D
98079716
98080310
594
False
773.000000
773
90.101000
1
595
1
chr3D.!!$F1
594
11
TraesCS2D01G233200
chr4D
242879717
242880311
594
False
778.000000
778
90.268000
1
595
1
chr4D.!!$F1
594
12
TraesCS2D01G233200
chr7A
336198019
336198609
590
True
760.000000
760
89.848000
4
594
1
chr7A.!!$R1
590
13
TraesCS2D01G233200
chr6D
461386932
461388216
1284
False
275.466667
553
86.544667
1538
2441
3
chr6D.!!$F2
903
14
TraesCS2D01G233200
chr6A
608073348
608074354
1006
False
377.500000
542
90.902000
1701
2441
2
chr6A.!!$F2
740
15
TraesCS2D01G233200
chr6B
703146339
703147596
1257
False
356.500000
494
89.293000
1686
2441
2
chr6B.!!$F1
755
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
601
602
1.020861
TCATCAGCCACACACATCGC
61.021
55.0
0.00
0.00
0.0
4.58
F
1436
2092
0.104120
TCTGTTGACTGGTCCACGTG
59.896
55.0
9.08
9.08
0.0
4.49
F
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
Orientation
1448
2104
0.027979
CTATTTGGCGCGTGGTGATG
59.972
55.0
8.43
0.0
0.0
3.07
R
2822
4307
0.387929
TTCGGTTGTGCGTTCTCTCT
59.612
50.0
0.00
0.0
0.0
3.10
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
83
84
3.003230
CCCTTGGTTCCCGGCATA
58.997
61.111
0.00
0.00
0.00
3.14
210
211
2.342279
CCTCACGGCGGAAGTGAA
59.658
61.111
13.24
0.00
46.43
3.18
227
228
2.476997
GTGAACTTTGTCTCCGAAGAGC
59.523
50.000
0.00
0.00
40.22
4.09
239
240
5.239744
GTCTCCGAAGAGCACATCTATCTTA
59.760
44.000
0.00
0.00
40.22
2.10
293
294
3.346315
CACAATGCCATGGAAGACAGTA
58.654
45.455
18.40
0.00
0.00
2.74
381
382
1.151668
GCTGCTACCGCCATCTATTG
58.848
55.000
0.00
0.00
34.43
1.90
501
502
1.227674
CGGCTCCAACTGATAGGCC
60.228
63.158
0.00
0.00
36.60
5.19
524
525
1.073964
CAGACCAGTGCATGAACTCG
58.926
55.000
2.28
0.00
0.00
4.18
601
602
1.020861
TCATCAGCCACACACATCGC
61.021
55.000
0.00
0.00
0.00
4.58
613
614
4.443725
CACACACATCGCAGATCTAGAATC
59.556
45.833
0.00
0.00
45.12
2.52
707
708
1.557099
TAGAGTCCATCAACGCCACT
58.443
50.000
0.00
0.00
0.00
4.00
718
719
2.159448
TCAACGCCACTGACAAAAGTTG
60.159
45.455
0.00
0.00
38.87
3.16
728
729
7.456253
CCACTGACAAAAGTTGAATATAGACG
58.544
38.462
0.00
0.00
0.00
4.18
731
732
7.331193
ACTGACAAAAGTTGAATATAGACGTCC
59.669
37.037
13.01
0.00
0.00
4.79
732
733
6.592607
TGACAAAAGTTGAATATAGACGTCCC
59.407
38.462
13.01
0.00
0.00
4.46
733
734
6.708285
ACAAAAGTTGAATATAGACGTCCCT
58.292
36.000
13.01
1.94
0.00
4.20
734
735
6.817140
ACAAAAGTTGAATATAGACGTCCCTC
59.183
38.462
13.01
2.61
0.00
4.30
735
736
6.793505
AAAGTTGAATATAGACGTCCCTCT
57.206
37.500
13.01
0.00
0.00
3.69
736
737
5.776173
AGTTGAATATAGACGTCCCTCTG
57.224
43.478
13.01
0.00
0.00
3.35
737
738
5.202004
AGTTGAATATAGACGTCCCTCTGT
58.798
41.667
13.01
0.00
0.00
3.41
739
740
5.769484
TGAATATAGACGTCCCTCTGTTC
57.231
43.478
13.01
9.98
0.00
3.18
740
741
4.583489
TGAATATAGACGTCCCTCTGTTCC
59.417
45.833
13.01
0.00
0.00
3.62
743
744
2.526888
AGACGTCCCTCTGTTCCATA
57.473
50.000
13.01
0.00
0.00
2.74
744
745
2.816411
AGACGTCCCTCTGTTCCATAA
58.184
47.619
13.01
0.00
0.00
1.90
745
746
3.170717
AGACGTCCCTCTGTTCCATAAA
58.829
45.455
13.01
0.00
0.00
1.40
746
747
3.581332
AGACGTCCCTCTGTTCCATAAAA
59.419
43.478
13.01
0.00
0.00
1.52
747
748
4.225267
AGACGTCCCTCTGTTCCATAAAAT
59.775
41.667
13.01
0.00
0.00
1.82
748
749
5.424252
AGACGTCCCTCTGTTCCATAAAATA
59.576
40.000
13.01
0.00
0.00
1.40
749
750
5.671493
ACGTCCCTCTGTTCCATAAAATAG
58.329
41.667
0.00
0.00
0.00
1.73
750
751
5.189145
ACGTCCCTCTGTTCCATAAAATAGT
59.811
40.000
0.00
0.00
0.00
2.12
751
752
5.523916
CGTCCCTCTGTTCCATAAAATAGTG
59.476
44.000
0.00
0.00
0.00
2.74
752
753
5.297029
GTCCCTCTGTTCCATAAAATAGTGC
59.703
44.000
0.00
0.00
0.00
4.40
753
754
5.191722
TCCCTCTGTTCCATAAAATAGTGCT
59.808
40.000
0.00
0.00
0.00
4.40
754
755
5.888161
CCCTCTGTTCCATAAAATAGTGCTT
59.112
40.000
0.00
0.00
0.00
3.91
755
756
6.183360
CCCTCTGTTCCATAAAATAGTGCTTG
60.183
42.308
0.00
0.00
0.00
4.01
756
757
6.375455
CCTCTGTTCCATAAAATAGTGCTTGT
59.625
38.462
0.00
0.00
0.00
3.16
757
758
7.552687
CCTCTGTTCCATAAAATAGTGCTTGTA
59.447
37.037
0.00
0.00
0.00
2.41
758
759
8.492673
TCTGTTCCATAAAATAGTGCTTGTAG
57.507
34.615
0.00
0.00
0.00
2.74
759
760
8.318412
TCTGTTCCATAAAATAGTGCTTGTAGA
58.682
33.333
0.00
0.00
0.00
2.59
760
761
9.113838
CTGTTCCATAAAATAGTGCTTGTAGAT
57.886
33.333
0.00
0.00
0.00
1.98
761
762
9.461312
TGTTCCATAAAATAGTGCTTGTAGATT
57.539
29.630
0.00
0.00
0.00
2.40
793
794
8.528917
AAAGTCAAACTTTACAAACTTTGACC
57.471
30.769
22.51
13.06
45.75
4.02
794
795
7.222000
AGTCAAACTTTACAAACTTTGACCA
57.778
32.000
22.51
2.11
44.13
4.02
795
796
7.662897
AGTCAAACTTTACAAACTTTGACCAA
58.337
30.769
22.51
0.00
44.13
3.67
796
797
7.812669
AGTCAAACTTTACAAACTTTGACCAAG
59.187
33.333
22.51
8.83
44.13
3.61
874
875
9.453572
ACATCACAAGACATACTTTCATATTGT
57.546
29.630
0.00
0.00
36.61
2.71
937
938
9.830975
ATAAATTTGGTCAAAGTTTGTAAAGCT
57.169
25.926
15.08
8.92
39.89
3.74
982
983
5.740290
ACACTATATTATGGAACGGAGGG
57.260
43.478
0.00
0.00
0.00
4.30
983
984
5.399991
ACACTATATTATGGAACGGAGGGA
58.600
41.667
0.00
0.00
0.00
4.20
1007
1008
9.837525
GGAGTATCACTTATTCGACGTATAAAT
57.162
33.333
8.07
0.00
36.25
1.40
1054
1055
4.379394
CCACAAGGGTCAATACGTTGAATG
60.379
45.833
0.00
0.00
45.38
2.67
1057
1058
6.093495
CACAAGGGTCAATACGTTGAATGTAT
59.907
38.462
4.28
4.28
45.38
2.29
1066
1069
4.404507
ACGTTGAATGTATGCAAGTCAC
57.595
40.909
0.00
0.00
0.00
3.67
1067
1070
3.812609
ACGTTGAATGTATGCAAGTCACA
59.187
39.130
0.00
0.00
0.00
3.58
1085
1088
9.684448
CAAGTCACACTAGGTATGATATAACAG
57.316
37.037
0.00
0.00
0.00
3.16
1140
1143
4.044336
TGAATGTGGTTGTTTTGCAGAG
57.956
40.909
0.00
0.00
0.00
3.35
1152
1155
6.207691
TGTTTTGCAGAGAAGCTAACTTTT
57.792
33.333
0.00
0.00
35.82
2.27
1168
1171
7.988028
AGCTAACTTTTCCCTGATAACTACATC
59.012
37.037
0.00
0.00
0.00
3.06
1231
1887
7.970061
ACATAATGTCAAAATCTCAACCATTCG
59.030
33.333
0.00
0.00
0.00
3.34
1243
1899
2.154567
ACCATTCGTAGTGGCTAGGA
57.845
50.000
0.00
0.00
40.49
2.94
1251
1907
2.292016
CGTAGTGGCTAGGATCACTGAG
59.708
54.545
6.27
0.00
43.24
3.35
1297
1953
5.803020
CCTTTAGGTGTTTTAGCTAGCAG
57.197
43.478
18.83
0.00
40.24
4.24
1298
1954
4.095036
CCTTTAGGTGTTTTAGCTAGCAGC
59.905
45.833
18.83
4.43
40.24
5.25
1299
1955
2.115343
AGGTGTTTTAGCTAGCAGCC
57.885
50.000
18.83
7.67
43.77
4.85
1300
1956
1.351017
AGGTGTTTTAGCTAGCAGCCA
59.649
47.619
18.83
3.00
43.77
4.75
1301
1957
2.159382
GGTGTTTTAGCTAGCAGCCAA
58.841
47.619
18.83
2.18
43.77
4.52
1302
1958
2.755103
GGTGTTTTAGCTAGCAGCCAAT
59.245
45.455
18.83
0.00
43.77
3.16
1303
1959
3.428045
GGTGTTTTAGCTAGCAGCCAATG
60.428
47.826
18.83
0.00
43.77
2.82
1304
1960
3.440173
GTGTTTTAGCTAGCAGCCAATGA
59.560
43.478
18.83
0.00
43.77
2.57
1305
1961
3.440173
TGTTTTAGCTAGCAGCCAATGAC
59.560
43.478
18.83
5.00
43.77
3.06
1306
1962
3.634397
TTTAGCTAGCAGCCAATGACT
57.366
42.857
18.83
0.00
43.77
3.41
1307
1963
2.898729
TAGCTAGCAGCCAATGACTC
57.101
50.000
18.83
0.00
43.77
3.36
1308
1964
1.202330
AGCTAGCAGCCAATGACTCT
58.798
50.000
18.83
0.00
43.77
3.24
1309
1965
1.558756
AGCTAGCAGCCAATGACTCTT
59.441
47.619
18.83
0.00
43.77
2.85
1310
1966
2.026449
AGCTAGCAGCCAATGACTCTTT
60.026
45.455
18.83
0.00
43.77
2.52
1311
1967
2.354199
GCTAGCAGCCAATGACTCTTTC
59.646
50.000
10.63
0.00
34.48
2.62
1312
1968
1.831580
AGCAGCCAATGACTCTTTCC
58.168
50.000
0.00
0.00
0.00
3.13
1313
1969
0.813821
GCAGCCAATGACTCTTTCCC
59.186
55.000
0.00
0.00
0.00
3.97
1314
1970
1.615384
GCAGCCAATGACTCTTTCCCT
60.615
52.381
0.00
0.00
0.00
4.20
1315
1971
2.363683
CAGCCAATGACTCTTTCCCTC
58.636
52.381
0.00
0.00
0.00
4.30
1316
1972
2.026449
CAGCCAATGACTCTTTCCCTCT
60.026
50.000
0.00
0.00
0.00
3.69
1317
1973
2.238395
AGCCAATGACTCTTTCCCTCTC
59.762
50.000
0.00
0.00
0.00
3.20
1318
1974
2.682269
GCCAATGACTCTTTCCCTCTCC
60.682
54.545
0.00
0.00
0.00
3.71
1319
1975
2.573462
CCAATGACTCTTTCCCTCTCCA
59.427
50.000
0.00
0.00
0.00
3.86
1320
1976
3.201708
CCAATGACTCTTTCCCTCTCCAT
59.798
47.826
0.00
0.00
0.00
3.41
1321
1977
4.450053
CAATGACTCTTTCCCTCTCCATC
58.550
47.826
0.00
0.00
0.00
3.51
1322
1978
2.103373
TGACTCTTTCCCTCTCCATCG
58.897
52.381
0.00
0.00
0.00
3.84
1323
1979
0.827368
ACTCTTTCCCTCTCCATCGC
59.173
55.000
0.00
0.00
0.00
4.58
1324
1980
0.826715
CTCTTTCCCTCTCCATCGCA
59.173
55.000
0.00
0.00
0.00
5.10
1325
1981
1.208052
CTCTTTCCCTCTCCATCGCAA
59.792
52.381
0.00
0.00
0.00
4.85
1326
1982
1.628340
TCTTTCCCTCTCCATCGCAAA
59.372
47.619
0.00
0.00
0.00
3.68
1327
1983
2.039746
TCTTTCCCTCTCCATCGCAAAA
59.960
45.455
0.00
0.00
0.00
2.44
1328
1984
2.577606
TTCCCTCTCCATCGCAAAAA
57.422
45.000
0.00
0.00
0.00
1.94
1369
2025
3.582714
AAAAAGCTAGCAGCCAATGAC
57.417
42.857
18.83
0.00
43.77
3.06
1370
2026
2.503895
AAAGCTAGCAGCCAATGACT
57.496
45.000
18.83
0.00
43.77
3.41
1371
2027
2.503895
AAGCTAGCAGCCAATGACTT
57.496
45.000
18.83
0.00
43.77
3.01
1372
2028
2.035530
AGCTAGCAGCCAATGACTTC
57.964
50.000
18.83
0.00
43.77
3.01
1373
2029
1.020437
GCTAGCAGCCAATGACTTCC
58.980
55.000
10.63
0.00
34.48
3.46
1374
2030
1.673168
CTAGCAGCCAATGACTTCCC
58.327
55.000
0.00
0.00
0.00
3.97
1375
2031
0.255890
TAGCAGCCAATGACTTCCCC
59.744
55.000
0.00
0.00
0.00
4.81
1376
2032
1.000396
GCAGCCAATGACTTCCCCT
60.000
57.895
0.00
0.00
0.00
4.79
1377
2033
0.255890
GCAGCCAATGACTTCCCCTA
59.744
55.000
0.00
0.00
0.00
3.53
1378
2034
1.340991
GCAGCCAATGACTTCCCCTAA
60.341
52.381
0.00
0.00
0.00
2.69
1379
2035
2.883888
GCAGCCAATGACTTCCCCTAAA
60.884
50.000
0.00
0.00
0.00
1.85
1380
2036
3.430453
CAGCCAATGACTTCCCCTAAAA
58.570
45.455
0.00
0.00
0.00
1.52
1381
2037
3.831911
CAGCCAATGACTTCCCCTAAAAA
59.168
43.478
0.00
0.00
0.00
1.94
1400
2056
3.582714
AAAAAGCTAGCAGCCAATGAC
57.417
42.857
18.83
0.00
43.77
3.06
1401
2057
2.205022
AAAGCTAGCAGCCAATGACA
57.795
45.000
18.83
0.00
43.77
3.58
1402
2058
1.747709
AAGCTAGCAGCCAATGACAG
58.252
50.000
18.83
0.00
43.77
3.51
1403
2059
0.617413
AGCTAGCAGCCAATGACAGT
59.383
50.000
18.83
0.00
43.77
3.55
1404
2060
0.731417
GCTAGCAGCCAATGACAGTG
59.269
55.000
10.63
0.00
34.48
3.66
1405
2061
1.376543
CTAGCAGCCAATGACAGTGG
58.623
55.000
17.60
17.60
39.33
4.00
1406
2062
0.983467
TAGCAGCCAATGACAGTGGA
59.017
50.000
25.55
0.81
38.54
4.02
1407
2063
0.607489
AGCAGCCAATGACAGTGGAC
60.607
55.000
25.55
15.75
38.54
4.02
1408
2064
1.589716
GCAGCCAATGACAGTGGACC
61.590
60.000
25.55
8.70
38.54
4.46
1409
2065
0.962356
CAGCCAATGACAGTGGACCC
60.962
60.000
25.55
7.96
38.54
4.46
1410
2066
2.040544
GCCAATGACAGTGGACCCG
61.041
63.158
25.55
0.00
38.54
5.28
1411
2067
1.377202
CCAATGACAGTGGACCCGG
60.377
63.158
17.01
0.00
38.54
5.73
1412
2068
2.040544
CAATGACAGTGGACCCGGC
61.041
63.158
0.00
0.00
0.00
6.13
1413
2069
3.605749
AATGACAGTGGACCCGGCG
62.606
63.158
0.00
0.00
0.00
6.46
1422
2078
4.681978
GACCCGGCGCACTCTGTT
62.682
66.667
10.83
0.00
0.00
3.16
1423
2079
4.988598
ACCCGGCGCACTCTGTTG
62.989
66.667
10.83
0.00
0.00
3.33
1424
2080
4.680237
CCCGGCGCACTCTGTTGA
62.680
66.667
10.83
0.00
0.00
3.18
1425
2081
3.414700
CCGGCGCACTCTGTTGAC
61.415
66.667
10.83
0.00
0.00
3.18
1426
2082
2.356313
CGGCGCACTCTGTTGACT
60.356
61.111
10.83
0.00
0.00
3.41
1427
2083
2.661566
CGGCGCACTCTGTTGACTG
61.662
63.158
10.83
0.00
0.00
3.51
1428
2084
2.320587
GGCGCACTCTGTTGACTGG
61.321
63.158
10.83
0.00
0.00
4.00
1429
2085
1.595382
GCGCACTCTGTTGACTGGT
60.595
57.895
0.30
0.00
0.00
4.00
1430
2086
1.560860
GCGCACTCTGTTGACTGGTC
61.561
60.000
0.30
0.00
0.00
4.02
1431
2087
0.946221
CGCACTCTGTTGACTGGTCC
60.946
60.000
0.00
0.00
0.00
4.46
1432
2088
0.106708
GCACTCTGTTGACTGGTCCA
59.893
55.000
0.00
0.00
0.00
4.02
1433
2089
1.871080
CACTCTGTTGACTGGTCCAC
58.129
55.000
0.00
0.00
0.00
4.02
1434
2090
0.389391
ACTCTGTTGACTGGTCCACG
59.611
55.000
0.00
0.00
0.00
4.94
1435
2091
0.389391
CTCTGTTGACTGGTCCACGT
59.611
55.000
0.00
0.00
0.00
4.49
1436
2092
0.104120
TCTGTTGACTGGTCCACGTG
59.896
55.000
9.08
9.08
0.00
4.49
1437
2093
0.104120
CTGTTGACTGGTCCACGTGA
59.896
55.000
19.30
0.00
0.00
4.35
1438
2094
0.179094
TGTTGACTGGTCCACGTGAC
60.179
55.000
19.30
13.01
43.67
3.67
1446
2102
3.390003
GTCCACGTGACCCTTTTGA
57.610
52.632
19.30
0.00
38.09
2.69
1447
2103
0.942252
GTCCACGTGACCCTTTTGAC
59.058
55.000
19.30
9.32
38.09
3.18
1448
2104
0.179040
TCCACGTGACCCTTTTGACC
60.179
55.000
19.30
0.00
0.00
4.02
1449
2105
0.464735
CCACGTGACCCTTTTGACCA
60.465
55.000
19.30
0.00
0.00
4.02
1450
2106
1.604604
CACGTGACCCTTTTGACCAT
58.395
50.000
10.90
0.00
0.00
3.55
1451
2107
1.535462
CACGTGACCCTTTTGACCATC
59.465
52.381
10.90
0.00
0.00
3.51
1452
2108
1.142060
ACGTGACCCTTTTGACCATCA
59.858
47.619
0.00
0.00
0.00
3.07
1453
2109
1.535462
CGTGACCCTTTTGACCATCAC
59.465
52.381
0.00
0.00
34.46
3.06
1454
2110
1.886542
GTGACCCTTTTGACCATCACC
59.113
52.381
0.00
0.00
32.18
4.02
1455
2111
1.496857
TGACCCTTTTGACCATCACCA
59.503
47.619
0.00
0.00
0.00
4.17
1456
2112
1.886542
GACCCTTTTGACCATCACCAC
59.113
52.381
0.00
0.00
0.00
4.16
1457
2113
0.881118
CCCTTTTGACCATCACCACG
59.119
55.000
0.00
0.00
0.00
4.94
1458
2114
0.240945
CCTTTTGACCATCACCACGC
59.759
55.000
0.00
0.00
0.00
5.34
1459
2115
0.110238
CTTTTGACCATCACCACGCG
60.110
55.000
3.53
3.53
0.00
6.01
1460
2116
2.123988
TTTTGACCATCACCACGCGC
62.124
55.000
5.73
0.00
0.00
6.86
1463
2119
4.634703
ACCATCACCACGCGCCAA
62.635
61.111
5.73
0.00
0.00
4.52
1464
2120
3.361158
CCATCACCACGCGCCAAA
61.361
61.111
5.73
0.00
0.00
3.28
1465
2121
2.699768
CCATCACCACGCGCCAAAT
61.700
57.895
5.73
0.00
0.00
2.32
1466
2122
1.372838
CCATCACCACGCGCCAAATA
61.373
55.000
5.73
0.00
0.00
1.40
1467
2123
0.027979
CATCACCACGCGCCAAATAG
59.972
55.000
5.73
0.00
0.00
1.73
1468
2124
0.392461
ATCACCACGCGCCAAATAGT
60.392
50.000
5.73
0.00
0.00
2.12
1469
2125
0.604243
TCACCACGCGCCAAATAGTT
60.604
50.000
5.73
0.00
0.00
2.24
1470
2126
0.239879
CACCACGCGCCAAATAGTTT
59.760
50.000
5.73
0.00
0.00
2.66
1471
2127
0.519961
ACCACGCGCCAAATAGTTTC
59.480
50.000
5.73
0.00
0.00
2.78
1472
2128
0.802494
CCACGCGCCAAATAGTTTCT
59.198
50.000
5.73
0.00
0.00
2.52
1473
2129
1.465689
CCACGCGCCAAATAGTTTCTG
60.466
52.381
5.73
0.00
0.00
3.02
1474
2130
0.802494
ACGCGCCAAATAGTTTCTGG
59.198
50.000
5.73
0.00
0.00
3.86
1522
2178
6.699575
ATATAAATGTGGCACTTGTTCTCC
57.300
37.500
19.83
0.00
0.00
3.71
1523
2179
2.664402
AATGTGGCACTTGTTCTCCT
57.336
45.000
19.83
0.00
0.00
3.69
1524
2180
3.788227
AATGTGGCACTTGTTCTCCTA
57.212
42.857
19.83
0.00
0.00
2.94
1525
2181
3.788227
ATGTGGCACTTGTTCTCCTAA
57.212
42.857
19.83
0.00
0.00
2.69
1526
2182
3.569194
TGTGGCACTTGTTCTCCTAAA
57.431
42.857
19.83
0.00
0.00
1.85
1527
2183
3.892284
TGTGGCACTTGTTCTCCTAAAA
58.108
40.909
19.83
0.00
0.00
1.52
1528
2184
4.274147
TGTGGCACTTGTTCTCCTAAAAA
58.726
39.130
19.83
0.00
0.00
1.94
1529
2185
4.097286
TGTGGCACTTGTTCTCCTAAAAAC
59.903
41.667
19.83
0.00
0.00
2.43
1530
2186
4.097286
GTGGCACTTGTTCTCCTAAAAACA
59.903
41.667
11.13
0.00
33.74
2.83
1531
2187
4.707448
TGGCACTTGTTCTCCTAAAAACAA
59.293
37.500
0.00
0.00
41.67
2.83
1532
2188
5.041287
GGCACTTGTTCTCCTAAAAACAAC
58.959
41.667
0.00
0.00
39.70
3.32
1533
2189
4.733405
GCACTTGTTCTCCTAAAAACAACG
59.267
41.667
0.00
0.00
39.70
4.10
1534
2190
5.270853
CACTTGTTCTCCTAAAAACAACGG
58.729
41.667
0.00
0.00
39.70
4.44
1535
2191
5.065474
CACTTGTTCTCCTAAAAACAACGGA
59.935
40.000
0.00
0.00
39.70
4.69
1536
2192
5.296035
ACTTGTTCTCCTAAAAACAACGGAG
59.704
40.000
0.00
0.00
39.70
4.63
1541
2197
3.681593
TCCTAAAAACAACGGAGATGGG
58.318
45.455
0.00
0.00
33.36
4.00
1570
2226
7.548427
CGATGGATATGAGCAGTTCAGAAATAT
59.452
37.037
0.00
0.00
39.68
1.28
1573
2229
8.316946
TGGATATGAGCAGTTCAGAAATATAGG
58.683
37.037
0.00
0.00
39.68
2.57
1579
2243
4.024809
GCAGTTCAGAAATATAGGGCGTTC
60.025
45.833
0.00
0.00
0.00
3.95
1580
2244
4.209288
CAGTTCAGAAATATAGGGCGTTCG
59.791
45.833
0.00
0.00
0.00
3.95
1582
2246
5.068198
AGTTCAGAAATATAGGGCGTTCGTA
59.932
40.000
0.00
0.00
0.00
3.43
1584
2248
4.581824
TCAGAAATATAGGGCGTTCGTAGT
59.418
41.667
0.00
0.00
0.00
2.73
1585
2249
5.068198
TCAGAAATATAGGGCGTTCGTAGTT
59.932
40.000
0.00
0.00
0.00
2.24
1589
2253
1.477553
TAGGGCGTTCGTAGTTGGAT
58.522
50.000
0.00
0.00
0.00
3.41
1634
2348
3.264947
GCTAATTTTAACGACTCCCCGT
58.735
45.455
0.00
0.00
45.64
5.28
1641
2356
2.047560
CGACTCCCCGTGTTTCCC
60.048
66.667
0.00
0.00
0.00
3.97
1652
2367
2.741211
GTTTCCCCCACTCGCGTC
60.741
66.667
5.77
0.00
0.00
5.19
1946
3393
9.847224
AGTGAAGTCCGGTATCAAATATAAATT
57.153
29.630
0.00
0.00
0.00
1.82
2223
3683
2.165437
AGAGTTCAGCATCCTCGACTTC
59.835
50.000
0.00
0.00
0.00
3.01
2327
3792
1.153489
CCACCGAGAGCCACATCAG
60.153
63.158
0.00
0.00
0.00
2.90
2339
3804
2.677902
GCCACATCAGATGGAAAGACGA
60.678
50.000
15.13
0.00
39.87
4.20
2491
3972
3.953612
TGCTTTCTGTGACTGGAATGTTT
59.046
39.130
0.00
0.00
0.00
2.83
2505
3986
3.569701
GGAATGTTTGCTTCCTCTGTGAA
59.430
43.478
0.00
0.00
39.30
3.18
2719
4204
2.838202
TCCCAGTTGACAATACTCCCTC
59.162
50.000
0.00
0.00
0.00
4.30
2819
4304
2.422479
ACAGCAGCATTAACTCAGCATG
59.578
45.455
0.00
0.00
37.54
4.06
2822
4307
1.746787
CAGCATTAACTCAGCATGCCA
59.253
47.619
15.66
0.00
43.75
4.92
3014
4499
2.146073
CTTGCTGCAAAACGGGAGGG
62.146
60.000
16.74
0.00
0.00
4.30
3015
4500
3.373565
GCTGCAAAACGGGAGGGG
61.374
66.667
0.00
0.00
0.00
4.79
3311
4894
2.699251
GTTTGTAAGCCTCCCAAACG
57.301
50.000
4.16
0.00
38.74
3.60
3347
4930
7.639113
TTAAGACAAACAGGAACTCAAATGT
57.361
32.000
0.00
0.00
34.60
2.71
3454
5037
6.310711
GTGGGTTCTTACTTGAATCTAACTCG
59.689
42.308
0.00
0.00
0.00
4.18
Position
MSA Position
Penalty
Sequence
TM
GC
Self any TH
Self end TH
Hairpin
End Stability
83
84
6.243900
CCATTATGCCTACCTCAAGATGAAT
58.756
40.000
0.00
0.00
0.00
2.57
121
122
1.520342
CGGTCAGCTCTAGCCAAGC
60.520
63.158
0.00
0.00
43.38
4.01
136
137
2.365635
ATGTGCTCCTAGGCCGGT
60.366
61.111
2.96
0.00
0.00
5.28
210
211
1.412710
TGTGCTCTTCGGAGACAAAGT
59.587
47.619
0.00
0.00
44.41
2.66
227
228
7.664082
AATCGGCAAGATTAAGATAGATGTG
57.336
36.000
5.04
0.00
46.99
3.21
293
294
2.270205
CAGCTCCAGCCCAATCGT
59.730
61.111
0.00
0.00
43.38
3.73
381
382
1.478510
TGCTCGTTTCTCCCAGATCTC
59.521
52.381
0.00
0.00
0.00
2.75
473
474
3.113514
TTGGAGCCGTGCAGACCAA
62.114
57.895
13.37
13.37
36.69
3.67
501
502
2.028294
AGTTCATGCACTGGTCTGAGAG
60.028
50.000
0.00
0.00
0.00
3.20
636
637
9.793252
ATAATTTGTTTGTATGCTAGCTTTCAG
57.207
29.630
17.23
0.00
0.00
3.02
692
693
0.602638
TGTCAGTGGCGTTGATGGAC
60.603
55.000
0.00
0.00
0.00
4.02
707
708
6.592607
GGGACGTCTATATTCAACTTTTGTCA
59.407
38.462
16.46
0.00
0.00
3.58
718
719
4.583489
TGGAACAGAGGGACGTCTATATTC
59.417
45.833
16.46
11.40
0.00
1.75
848
849
9.453572
ACAATATGAAAGTATGTCTTGTGATGT
57.546
29.630
0.00
0.00
36.40
3.06
911
912
9.830975
AGCTTTACAAACTTTGACCAAATTTAT
57.169
25.926
8.55
0.00
0.00
1.40
912
913
9.660180
AAGCTTTACAAACTTTGACCAAATTTA
57.340
25.926
8.55
0.00
0.00
1.40
913
914
8.450180
CAAGCTTTACAAACTTTGACCAAATTT
58.550
29.630
8.55
0.00
0.00
1.82
914
915
7.821846
TCAAGCTTTACAAACTTTGACCAAATT
59.178
29.630
8.55
0.00
0.00
1.82
915
916
7.277760
GTCAAGCTTTACAAACTTTGACCAAAT
59.722
33.333
8.55
0.00
0.00
2.32
916
917
6.588373
GTCAAGCTTTACAAACTTTGACCAAA
59.412
34.615
8.55
4.99
0.00
3.28
917
918
6.071616
AGTCAAGCTTTACAAACTTTGACCAA
60.072
34.615
13.07
0.00
0.00
3.67
918
919
5.417580
AGTCAAGCTTTACAAACTTTGACCA
59.582
36.000
13.07
0.00
0.00
4.02
919
920
5.891451
AGTCAAGCTTTACAAACTTTGACC
58.109
37.500
13.07
0.00
0.00
4.02
920
921
7.812309
AAAGTCAAGCTTTACAAACTTTGAC
57.188
32.000
13.07
6.64
44.90
3.18
921
922
9.915629
TTAAAAGTCAAGCTTTACAAACTTTGA
57.084
25.926
13.07
7.17
45.91
2.69
956
957
9.144298
CCCTCCGTTCCATAATATAGTGTATAT
57.856
37.037
0.00
0.00
32.90
0.86
957
958
8.338493
TCCCTCCGTTCCATAATATAGTGTATA
58.662
37.037
0.00
0.00
0.00
1.47
958
959
7.186972
TCCCTCCGTTCCATAATATAGTGTAT
58.813
38.462
0.00
0.00
0.00
2.29
959
960
6.554784
TCCCTCCGTTCCATAATATAGTGTA
58.445
40.000
0.00
0.00
0.00
2.90
960
961
5.399991
TCCCTCCGTTCCATAATATAGTGT
58.600
41.667
0.00
0.00
0.00
3.55
961
962
5.480772
ACTCCCTCCGTTCCATAATATAGTG
59.519
44.000
0.00
0.00
0.00
2.74
962
963
5.652324
ACTCCCTCCGTTCCATAATATAGT
58.348
41.667
0.00
0.00
0.00
2.12
963
964
7.560262
TGATACTCCCTCCGTTCCATAATATAG
59.440
40.741
0.00
0.00
0.00
1.31
964
965
7.341256
GTGATACTCCCTCCGTTCCATAATATA
59.659
40.741
0.00
0.00
0.00
0.86
965
966
6.154706
GTGATACTCCCTCCGTTCCATAATAT
59.845
42.308
0.00
0.00
0.00
1.28
966
967
5.479375
GTGATACTCCCTCCGTTCCATAATA
59.521
44.000
0.00
0.00
0.00
0.98
967
968
4.283722
GTGATACTCCCTCCGTTCCATAAT
59.716
45.833
0.00
0.00
0.00
1.28
968
969
3.640029
GTGATACTCCCTCCGTTCCATAA
59.360
47.826
0.00
0.00
0.00
1.90
969
970
3.117246
AGTGATACTCCCTCCGTTCCATA
60.117
47.826
0.00
0.00
0.00
2.74
970
971
2.040178
GTGATACTCCCTCCGTTCCAT
58.960
52.381
0.00
0.00
0.00
3.41
971
972
1.006758
AGTGATACTCCCTCCGTTCCA
59.993
52.381
0.00
0.00
0.00
3.53
972
973
1.777941
AGTGATACTCCCTCCGTTCC
58.222
55.000
0.00
0.00
0.00
3.62
973
974
5.530712
GAATAAGTGATACTCCCTCCGTTC
58.469
45.833
0.00
0.00
0.00
3.95
974
975
4.037684
CGAATAAGTGATACTCCCTCCGTT
59.962
45.833
0.00
0.00
0.00
4.44
975
976
3.568853
CGAATAAGTGATACTCCCTCCGT
59.431
47.826
0.00
0.00
0.00
4.69
976
977
3.819337
TCGAATAAGTGATACTCCCTCCG
59.181
47.826
0.00
0.00
0.00
4.63
977
978
4.320348
CGTCGAATAAGTGATACTCCCTCC
60.320
50.000
0.00
0.00
0.00
4.30
978
979
4.275443
ACGTCGAATAAGTGATACTCCCTC
59.725
45.833
0.00
0.00
0.00
4.30
979
980
4.205587
ACGTCGAATAAGTGATACTCCCT
58.794
43.478
0.00
0.00
0.00
4.20
980
981
4.564940
ACGTCGAATAAGTGATACTCCC
57.435
45.455
0.00
0.00
0.00
4.30
981
982
9.837525
ATTTATACGTCGAATAAGTGATACTCC
57.162
33.333
0.00
0.00
0.00
3.85
994
995
7.650104
TCATGTTGCAGATATTTATACGTCGAA
59.350
33.333
0.00
0.00
0.00
3.71
1007
1008
9.183368
TGGTTGTAATTTATCATGTTGCAGATA
57.817
29.630
0.00
0.00
0.00
1.98
1043
1044
5.641636
TGTGACTTGCATACATTCAACGTAT
59.358
36.000
0.00
0.00
0.00
3.06
1054
1055
5.902681
TCATACCTAGTGTGACTTGCATAC
58.097
41.667
0.00
0.00
38.74
2.39
1057
1058
6.731292
ATATCATACCTAGTGTGACTTGCA
57.269
37.500
0.00
0.00
36.58
4.08
1066
1069
9.516546
TGTAGGTCTGTTATATCATACCTAGTG
57.483
37.037
20.45
0.00
43.11
2.74
1085
1088
4.408182
ACCTTGCATGTAGATGTAGGTC
57.592
45.455
17.45
0.00
40.13
3.85
1140
1143
7.822822
TGTAGTTATCAGGGAAAAGTTAGCTTC
59.177
37.037
0.00
0.00
33.01
3.86
1231
1887
2.625790
CCTCAGTGATCCTAGCCACTAC
59.374
54.545
9.38
0.00
41.26
2.73
1243
1899
1.066143
CCACGGCTAAACCTCAGTGAT
60.066
52.381
0.00
0.00
35.61
3.06
1251
1907
0.606096
AAAATGGCCACGGCTAAACC
59.394
50.000
8.16
0.00
41.60
3.27
1286
1942
3.198635
AGAGTCATTGGCTGCTAGCTAAA
59.801
43.478
17.23
5.41
44.77
1.85
1287
1943
2.768527
AGAGTCATTGGCTGCTAGCTAA
59.231
45.455
17.23
8.80
45.66
3.09
1288
1944
2.392662
AGAGTCATTGGCTGCTAGCTA
58.607
47.619
17.23
1.31
41.99
3.32
1289
1945
1.202330
AGAGTCATTGGCTGCTAGCT
58.798
50.000
17.23
0.00
41.99
3.32
1290
1946
2.035530
AAGAGTCATTGGCTGCTAGC
57.964
50.000
8.10
8.10
41.46
3.42
1291
1947
2.941720
GGAAAGAGTCATTGGCTGCTAG
59.058
50.000
0.00
0.00
0.00
3.42
1292
1948
2.356125
GGGAAAGAGTCATTGGCTGCTA
60.356
50.000
0.00
0.00
0.00
3.49
1293
1949
1.615384
GGGAAAGAGTCATTGGCTGCT
60.615
52.381
0.00
0.00
0.00
4.24
1294
1950
0.813821
GGGAAAGAGTCATTGGCTGC
59.186
55.000
0.00
0.00
0.00
5.25
1295
1951
2.026449
AGAGGGAAAGAGTCATTGGCTG
60.026
50.000
0.00
0.00
0.00
4.85
1296
1952
2.238395
GAGAGGGAAAGAGTCATTGGCT
59.762
50.000
0.00
0.00
0.00
4.75
1297
1953
2.637947
GAGAGGGAAAGAGTCATTGGC
58.362
52.381
0.00
0.00
0.00
4.52
1298
1954
2.573462
TGGAGAGGGAAAGAGTCATTGG
59.427
50.000
0.00
0.00
0.00
3.16
1299
1955
3.988976
TGGAGAGGGAAAGAGTCATTG
57.011
47.619
0.00
0.00
0.00
2.82
1300
1956
3.133721
CGATGGAGAGGGAAAGAGTCATT
59.866
47.826
0.00
0.00
0.00
2.57
1301
1957
2.697751
CGATGGAGAGGGAAAGAGTCAT
59.302
50.000
0.00
0.00
0.00
3.06
1302
1958
2.103373
CGATGGAGAGGGAAAGAGTCA
58.897
52.381
0.00
0.00
0.00
3.41
1303
1959
1.202475
GCGATGGAGAGGGAAAGAGTC
60.202
57.143
0.00
0.00
0.00
3.36
1304
1960
0.827368
GCGATGGAGAGGGAAAGAGT
59.173
55.000
0.00
0.00
0.00
3.24
1305
1961
0.826715
TGCGATGGAGAGGGAAAGAG
59.173
55.000
0.00
0.00
0.00
2.85
1306
1962
1.275666
TTGCGATGGAGAGGGAAAGA
58.724
50.000
0.00
0.00
0.00
2.52
1307
1963
2.113860
TTTGCGATGGAGAGGGAAAG
57.886
50.000
0.00
0.00
0.00
2.62
1308
1964
2.577606
TTTTGCGATGGAGAGGGAAA
57.422
45.000
0.00
0.00
0.00
3.13
1309
1965
2.577606
TTTTTGCGATGGAGAGGGAA
57.422
45.000
0.00
0.00
0.00
3.97
1349
2005
3.160269
AGTCATTGGCTGCTAGCTTTTT
58.840
40.909
17.23
0.00
41.99
1.94
1350
2006
2.800250
AGTCATTGGCTGCTAGCTTTT
58.200
42.857
17.23
0.00
41.99
2.27
1351
2007
2.503895
AGTCATTGGCTGCTAGCTTT
57.496
45.000
17.23
0.00
41.99
3.51
1352
2008
2.363683
GAAGTCATTGGCTGCTAGCTT
58.636
47.619
17.23
0.00
41.99
3.74
1353
2009
1.407989
GGAAGTCATTGGCTGCTAGCT
60.408
52.381
17.23
0.00
41.99
3.32
1354
2010
1.020437
GGAAGTCATTGGCTGCTAGC
58.980
55.000
8.10
8.10
41.46
3.42
1355
2011
1.673168
GGGAAGTCATTGGCTGCTAG
58.327
55.000
0.00
0.00
0.00
3.42
1356
2012
0.255890
GGGGAAGTCATTGGCTGCTA
59.744
55.000
0.00
0.00
0.00
3.49
1357
2013
1.000396
GGGGAAGTCATTGGCTGCT
60.000
57.895
0.00
0.00
0.00
4.24
1358
2014
0.255890
TAGGGGAAGTCATTGGCTGC
59.744
55.000
0.00
0.00
0.00
5.25
1359
2015
2.806945
TTAGGGGAAGTCATTGGCTG
57.193
50.000
0.00
0.00
0.00
4.85
1360
2016
3.825908
TTTTAGGGGAAGTCATTGGCT
57.174
42.857
0.00
0.00
0.00
4.75
1380
2036
2.892852
TGTCATTGGCTGCTAGCTTTTT
59.107
40.909
17.23
0.00
41.99
1.94
1381
2037
2.490903
CTGTCATTGGCTGCTAGCTTTT
59.509
45.455
17.23
0.00
41.99
2.27
1382
2038
2.089980
CTGTCATTGGCTGCTAGCTTT
58.910
47.619
17.23
0.00
41.99
3.51
1383
2039
1.004044
ACTGTCATTGGCTGCTAGCTT
59.996
47.619
17.23
0.00
41.99
3.74
1384
2040
0.617413
ACTGTCATTGGCTGCTAGCT
59.383
50.000
17.23
0.00
41.99
3.32
1385
2041
0.731417
CACTGTCATTGGCTGCTAGC
59.269
55.000
8.10
8.10
41.46
3.42
1386
2042
1.065926
TCCACTGTCATTGGCTGCTAG
60.066
52.381
4.33
0.00
33.71
3.42
1387
2043
0.983467
TCCACTGTCATTGGCTGCTA
59.017
50.000
4.33
0.00
33.71
3.49
1388
2044
0.607489
GTCCACTGTCATTGGCTGCT
60.607
55.000
4.33
0.00
33.71
4.24
1389
2045
1.589716
GGTCCACTGTCATTGGCTGC
61.590
60.000
4.33
0.00
33.71
5.25
1390
2046
0.962356
GGGTCCACTGTCATTGGCTG
60.962
60.000
4.33
0.00
33.71
4.85
1391
2047
1.380302
GGGTCCACTGTCATTGGCT
59.620
57.895
4.33
0.00
33.71
4.75
1392
2048
2.040544
CGGGTCCACTGTCATTGGC
61.041
63.158
4.33
0.58
33.71
4.52
1393
2049
1.377202
CCGGGTCCACTGTCATTGG
60.377
63.158
2.77
2.77
35.18
3.16
1394
2050
2.040544
GCCGGGTCCACTGTCATTG
61.041
63.158
2.18
0.00
0.00
2.82
1395
2051
2.351276
GCCGGGTCCACTGTCATT
59.649
61.111
2.18
0.00
0.00
2.57
1396
2052
4.082523
CGCCGGGTCCACTGTCAT
62.083
66.667
2.18
0.00
0.00
3.06
1405
2061
4.681978
AACAGAGTGCGCCGGGTC
62.682
66.667
4.18
0.00
0.00
4.46
1406
2062
4.988598
CAACAGAGTGCGCCGGGT
62.989
66.667
4.18
0.00
0.00
5.28
1407
2063
4.680237
TCAACAGAGTGCGCCGGG
62.680
66.667
4.18
0.00
0.00
5.73
1408
2064
3.414700
GTCAACAGAGTGCGCCGG
61.415
66.667
4.18
0.00
0.00
6.13
1409
2065
2.356313
AGTCAACAGAGTGCGCCG
60.356
61.111
4.18
0.00
0.00
6.46
1410
2066
2.320587
CCAGTCAACAGAGTGCGCC
61.321
63.158
4.18
0.00
32.51
6.53
1411
2067
1.560860
GACCAGTCAACAGAGTGCGC
61.561
60.000
0.00
0.00
32.51
6.09
1412
2068
0.946221
GGACCAGTCAACAGAGTGCG
60.946
60.000
0.00
0.00
32.51
5.34
1413
2069
0.106708
TGGACCAGTCAACAGAGTGC
59.893
55.000
0.00
0.00
32.51
4.40
1414
2070
1.869754
CGTGGACCAGTCAACAGAGTG
60.870
57.143
6.16
0.00
33.09
3.51
1415
2071
0.389391
CGTGGACCAGTCAACAGAGT
59.611
55.000
6.16
0.00
33.09
3.24
1416
2072
0.389391
ACGTGGACCAGTCAACAGAG
59.611
55.000
6.16
0.00
33.09
3.35
1417
2073
0.104120
CACGTGGACCAGTCAACAGA
59.896
55.000
7.95
0.00
33.09
3.41
1418
2074
0.104120
TCACGTGGACCAGTCAACAG
59.896
55.000
17.00
1.80
33.09
3.16
1419
2075
0.179094
GTCACGTGGACCAGTCAACA
60.179
55.000
17.00
0.00
40.83
3.33
1420
2076
2.601562
GTCACGTGGACCAGTCAAC
58.398
57.895
17.00
0.00
40.83
3.18
1428
2084
0.942252
GTCAAAAGGGTCACGTGGAC
59.058
55.000
17.00
12.21
46.20
4.02
1429
2085
0.179040
GGTCAAAAGGGTCACGTGGA
60.179
55.000
17.00
0.00
0.00
4.02
1430
2086
0.464735
TGGTCAAAAGGGTCACGTGG
60.465
55.000
17.00
0.00
0.00
4.94
1431
2087
1.535462
GATGGTCAAAAGGGTCACGTG
59.465
52.381
9.94
9.94
0.00
4.49
1432
2088
1.142060
TGATGGTCAAAAGGGTCACGT
59.858
47.619
0.00
0.00
0.00
4.49
1433
2089
1.535462
GTGATGGTCAAAAGGGTCACG
59.465
52.381
0.00
0.00
0.00
4.35
1434
2090
1.886542
GGTGATGGTCAAAAGGGTCAC
59.113
52.381
0.00
0.00
36.22
3.67
1435
2091
1.496857
TGGTGATGGTCAAAAGGGTCA
59.503
47.619
0.00
0.00
0.00
4.02
1436
2092
1.886542
GTGGTGATGGTCAAAAGGGTC
59.113
52.381
0.00
0.00
0.00
4.46
1437
2093
1.817740
CGTGGTGATGGTCAAAAGGGT
60.818
52.381
0.00
0.00
0.00
4.34
1438
2094
0.881118
CGTGGTGATGGTCAAAAGGG
59.119
55.000
0.00
0.00
0.00
3.95
1439
2095
0.240945
GCGTGGTGATGGTCAAAAGG
59.759
55.000
0.00
0.00
0.00
3.11
1440
2096
0.110238
CGCGTGGTGATGGTCAAAAG
60.110
55.000
0.00
0.00
0.00
2.27
1441
2097
1.945522
CGCGTGGTGATGGTCAAAA
59.054
52.632
0.00
0.00
0.00
2.44
1442
2098
2.612567
GCGCGTGGTGATGGTCAAA
61.613
57.895
8.43
0.00
0.00
2.69
1443
2099
3.047280
GCGCGTGGTGATGGTCAA
61.047
61.111
8.43
0.00
0.00
3.18
1446
2102
3.986739
TATTTGGCGCGTGGTGATGGT
62.987
52.381
8.43
0.00
0.00
3.55
1447
2103
1.372838
TATTTGGCGCGTGGTGATGG
61.373
55.000
8.43
0.00
0.00
3.51
1448
2104
0.027979
CTATTTGGCGCGTGGTGATG
59.972
55.000
8.43
0.00
0.00
3.07
1449
2105
0.392461
ACTATTTGGCGCGTGGTGAT
60.392
50.000
8.43
0.00
0.00
3.06
1450
2106
0.604243
AACTATTTGGCGCGTGGTGA
60.604
50.000
8.43
0.00
0.00
4.02
1451
2107
0.239879
AAACTATTTGGCGCGTGGTG
59.760
50.000
8.43
0.00
0.00
4.17
1452
2108
0.519961
GAAACTATTTGGCGCGTGGT
59.480
50.000
8.43
0.00
0.00
4.16
1453
2109
0.802494
AGAAACTATTTGGCGCGTGG
59.198
50.000
8.43
0.00
0.00
4.94
1454
2110
1.465689
CCAGAAACTATTTGGCGCGTG
60.466
52.381
8.43
0.00
0.00
5.34
1455
2111
0.802494
CCAGAAACTATTTGGCGCGT
59.198
50.000
8.43
0.00
0.00
6.01
1456
2112
0.523335
GCCAGAAACTATTTGGCGCG
60.523
55.000
0.00
0.00
46.82
6.86
1457
2113
3.329114
GCCAGAAACTATTTGGCGC
57.671
52.632
0.00
0.00
46.82
6.53
1496
2152
8.850156
GGAGAACAAGTGCCACATTTATATATT
58.150
33.333
0.00
0.00
0.00
1.28
1497
2153
8.220559
AGGAGAACAAGTGCCACATTTATATAT
58.779
33.333
0.00
0.00
0.00
0.86
1498
2154
7.573710
AGGAGAACAAGTGCCACATTTATATA
58.426
34.615
0.00
0.00
0.00
0.86
1499
2155
6.426587
AGGAGAACAAGTGCCACATTTATAT
58.573
36.000
0.00
0.00
0.00
0.86
1500
2156
5.815581
AGGAGAACAAGTGCCACATTTATA
58.184
37.500
0.00
0.00
0.00
0.98
1501
2157
4.666512
AGGAGAACAAGTGCCACATTTAT
58.333
39.130
0.00
0.00
0.00
1.40
1502
2158
4.098914
AGGAGAACAAGTGCCACATTTA
57.901
40.909
0.00
0.00
0.00
1.40
1503
2159
2.949447
AGGAGAACAAGTGCCACATTT
58.051
42.857
0.00
0.00
0.00
2.32
1504
2160
2.664402
AGGAGAACAAGTGCCACATT
57.336
45.000
0.00
0.00
0.00
2.71
1505
2161
3.788227
TTAGGAGAACAAGTGCCACAT
57.212
42.857
0.00
0.00
0.00
3.21
1506
2162
3.569194
TTTAGGAGAACAAGTGCCACA
57.431
42.857
0.00
0.00
0.00
4.17
1507
2163
4.097286
TGTTTTTAGGAGAACAAGTGCCAC
59.903
41.667
0.00
0.00
33.19
5.01
1508
2164
4.274147
TGTTTTTAGGAGAACAAGTGCCA
58.726
39.130
0.00
0.00
33.19
4.92
1509
2165
4.911514
TGTTTTTAGGAGAACAAGTGCC
57.088
40.909
0.00
0.00
33.19
5.01
1510
2166
4.733405
CGTTGTTTTTAGGAGAACAAGTGC
59.267
41.667
2.25
0.00
43.90
4.40
1511
2167
5.065474
TCCGTTGTTTTTAGGAGAACAAGTG
59.935
40.000
2.25
0.00
43.90
3.16
1512
2168
5.187687
TCCGTTGTTTTTAGGAGAACAAGT
58.812
37.500
2.25
0.00
43.90
3.16
1513
2169
5.744666
TCCGTTGTTTTTAGGAGAACAAG
57.255
39.130
2.25
0.00
43.90
3.16
1520
2176
3.328343
TCCCATCTCCGTTGTTTTTAGGA
59.672
43.478
0.00
0.00
0.00
2.94
1521
2177
3.681593
TCCCATCTCCGTTGTTTTTAGG
58.318
45.455
0.00
0.00
0.00
2.69
1522
2178
4.034048
CGATCCCATCTCCGTTGTTTTTAG
59.966
45.833
0.00
0.00
0.00
1.85
1523
2179
3.936453
CGATCCCATCTCCGTTGTTTTTA
59.064
43.478
0.00
0.00
0.00
1.52
1524
2180
2.747446
CGATCCCATCTCCGTTGTTTTT
59.253
45.455
0.00
0.00
0.00
1.94
1525
2181
2.027561
TCGATCCCATCTCCGTTGTTTT
60.028
45.455
0.00
0.00
0.00
2.43
1526
2182
1.553248
TCGATCCCATCTCCGTTGTTT
59.447
47.619
0.00
0.00
0.00
2.83
1527
2183
1.191535
TCGATCCCATCTCCGTTGTT
58.808
50.000
0.00
0.00
0.00
2.83
1528
2184
1.069204
CATCGATCCCATCTCCGTTGT
59.931
52.381
0.00
0.00
0.00
3.32
1529
2185
1.606480
CCATCGATCCCATCTCCGTTG
60.606
57.143
0.00
0.00
0.00
4.10
1530
2186
0.681733
CCATCGATCCCATCTCCGTT
59.318
55.000
0.00
0.00
0.00
4.44
1531
2187
0.178961
TCCATCGATCCCATCTCCGT
60.179
55.000
0.00
0.00
0.00
4.69
1532
2188
1.189752
ATCCATCGATCCCATCTCCG
58.810
55.000
0.00
0.00
0.00
4.63
1533
2189
3.963374
TCATATCCATCGATCCCATCTCC
59.037
47.826
0.00
0.00
0.00
3.71
1534
2190
4.501229
GCTCATATCCATCGATCCCATCTC
60.501
50.000
0.00
0.00
0.00
2.75
1535
2191
3.387374
GCTCATATCCATCGATCCCATCT
59.613
47.826
0.00
0.00
0.00
2.90
1536
2192
3.133542
TGCTCATATCCATCGATCCCATC
59.866
47.826
0.00
0.00
0.00
3.51
1541
2197
4.814147
TGAACTGCTCATATCCATCGATC
58.186
43.478
0.00
0.00
0.00
3.69
1570
2226
1.135527
CATCCAACTACGAACGCCCTA
59.864
52.381
0.00
0.00
0.00
3.53
1573
2229
0.108520
TCCATCCAACTACGAACGCC
60.109
55.000
0.00
0.00
0.00
5.68
1579
2243
1.418342
CGGCGTTCCATCCAACTACG
61.418
60.000
0.00
0.00
35.48
3.51
1580
2244
1.702491
GCGGCGTTCCATCCAACTAC
61.702
60.000
9.37
0.00
0.00
2.73
1582
2246
2.746277
GCGGCGTTCCATCCAACT
60.746
61.111
9.37
0.00
0.00
3.16
1584
2248
2.435938
GAGCGGCGTTCCATCCAA
60.436
61.111
13.07
0.00
0.00
3.53
1585
2249
4.467084
GGAGCGGCGTTCCATCCA
62.467
66.667
33.58
0.00
37.65
3.41
1606
2270
2.674357
GTCGTTAAAATTAGCGGCCTGA
59.326
45.455
0.00
0.00
36.24
3.86
1608
2272
2.934553
GAGTCGTTAAAATTAGCGGCCT
59.065
45.455
9.82
6.39
41.83
5.19
1609
2273
2.031314
GGAGTCGTTAAAATTAGCGGCC
59.969
50.000
9.82
0.00
41.83
6.13
1610
2274
2.031314
GGGAGTCGTTAAAATTAGCGGC
59.969
50.000
5.99
5.99
41.33
6.53
1613
2277
3.063045
CACGGGGAGTCGTTAAAATTAGC
59.937
47.826
0.00
0.00
41.86
3.09
1614
2278
4.248058
ACACGGGGAGTCGTTAAAATTAG
58.752
43.478
0.00
0.00
41.86
1.73
1616
2280
3.130280
ACACGGGGAGTCGTTAAAATT
57.870
42.857
0.00
0.00
41.86
1.82
1617
2281
2.845363
ACACGGGGAGTCGTTAAAAT
57.155
45.000
0.00
0.00
41.86
1.82
1634
2348
3.552384
ACGCGAGTGGGGGAAACA
61.552
61.111
15.93
0.00
46.97
2.83
1870
2659
0.901827
TTTAGCACTCGATCAGCCCA
59.098
50.000
0.00
0.00
0.00
5.36
1871
2660
2.139118
GATTTAGCACTCGATCAGCCC
58.861
52.381
0.00
0.00
0.00
5.19
1872
2661
3.104843
AGATTTAGCACTCGATCAGCC
57.895
47.619
0.00
0.00
0.00
4.85
1873
2662
6.414890
GTTTTAGATTTAGCACTCGATCAGC
58.585
40.000
0.00
0.00
0.00
4.26
1874
2663
6.291849
CGGTTTTAGATTTAGCACTCGATCAG
60.292
42.308
0.00
0.00
0.00
2.90
1875
2664
5.518847
CGGTTTTAGATTTAGCACTCGATCA
59.481
40.000
0.00
0.00
0.00
2.92
1946
3393
0.250989
GTTCCATTCCGGGTTGGTGA
60.251
55.000
19.21
9.69
39.52
4.02
2327
3792
3.056465
AGAGACCTTGTCGTCTTTCCATC
60.056
47.826
0.00
0.00
43.22
3.51
2339
3804
4.503991
GGACAATGTTCTGAGAGACCTTGT
60.504
45.833
13.54
13.54
0.00
3.16
2491
3972
4.890158
TTCATAGTTCACAGAGGAAGCA
57.110
40.909
0.00
0.00
0.00
3.91
2505
3986
5.354234
CCAGGACGTTGCTTATTTTCATAGT
59.646
40.000
0.00
0.00
0.00
2.12
2551
4032
2.958355
GCATGCCTTACATAACACCCAT
59.042
45.455
6.36
0.00
36.64
4.00
2597
4078
8.082242
GCAGAACCAAAACTATAAACAGACATT
58.918
33.333
0.00
0.00
0.00
2.71
2666
4151
9.828691
TCCAGATCATCCTATTTCTAGTTGATA
57.171
33.333
0.00
0.00
31.30
2.15
2813
4298
1.703438
GCGTTCTCTCTGGCATGCTG
61.703
60.000
18.92
11.12
0.00
4.41
2819
4304
1.569479
GGTTGTGCGTTCTCTCTGGC
61.569
60.000
0.00
0.00
0.00
4.85
2822
4307
0.387929
TTCGGTTGTGCGTTCTCTCT
59.612
50.000
0.00
0.00
0.00
3.10
3347
4930
4.141181
AGCATAAACCCCAATCTAGATGCA
60.141
41.667
5.86
0.00
40.65
3.96
Based at the University of Bristol with support from BBSRC .
AutoCloner maintained by Alex Coulton.