Multiple sequence alignment - TraesCS4B01G024900

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


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 TraesCS4B01G024900 chr4B 100.000 3203 0 0 1 3203 17783679 17786881 0.000000e+00 5915
1 TraesCS4B01G024900 chr4B 96.300 2946 108 1 259 3203 653205054 653202109 0.000000e+00 4835
2 TraesCS4B01G024900 chr4B 96.164 2946 112 1 259 3203 502205038 502207983 0.000000e+00 4813
3 TraesCS4B01G024900 chr4B 96.189 2939 110 1 265 3203 18572148 18575084 0.000000e+00 4806
4 TraesCS4B01G024900 chr4B 97.328 262 7 0 1 262 443340857 443340596 2.270000e-121 446
5 TraesCS4B01G024900 chr4B 96.970 264 6 2 1 262 451683288 451683025 2.930000e-120 442
6 TraesCS4B01G024900 chr4B 96.947 262 8 0 1 262 240687371 240687110 1.050000e-119 440
7 TraesCS4B01G024900 chr5B 96.538 2946 101 1 259 3203 129122228 129119283 0.000000e+00 4874
8 TraesCS4B01G024900 chr5B 96.958 263 7 1 1 262 253219103 253218841 1.050000e-119 440
9 TraesCS4B01G024900 chr6A 96.497 2940 103 0 264 3203 30113876 30116815 0.000000e+00 4859
10 TraesCS4B01G024900 chr7B 96.363 2942 105 2 262 3203 677854331 677857270 0.000000e+00 4839
11 TraesCS4B01G024900 chr7B 96.958 263 7 1 1 262 454303105 454302843 1.050000e-119 440
12 TraesCS4B01G024900 chr7B 96.947 262 8 0 1 262 479071389 479071650 1.050000e-119 440
13 TraesCS4B01G024900 chr3B 96.226 2941 111 0 263 3203 738137827 738134887 0.000000e+00 4817
14 TraesCS4B01G024900 chr3B 96.189 2939 111 1 265 3203 19709487 19706550 0.000000e+00 4806
15 TraesCS4B01G024900 chr3B 96.159 2942 112 1 262 3203 660458487 660461427 0.000000e+00 4806
16 TraesCS4B01G024900 chr2B 96.947 262 8 0 1 262 153529875 153530136 1.050000e-119 440
17 TraesCS4B01G024900 chr1B 96.947 262 8 0 1 262 646427311 646427050 1.050000e-119 440
18 TraesCS4B01G024900 chrUn 94.077 287 12 5 1 285 69157198 69156915 6.350000e-117 431


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 TraesCS4B01G024900 chr4B 17783679 17786881 3202 False 5915 5915 100.000 1 3203 1 chr4B.!!$F1 3202
1 TraesCS4B01G024900 chr4B 653202109 653205054 2945 True 4835 4835 96.300 259 3203 1 chr4B.!!$R4 2944
2 TraesCS4B01G024900 chr4B 502205038 502207983 2945 False 4813 4813 96.164 259 3203 1 chr4B.!!$F3 2944
3 TraesCS4B01G024900 chr4B 18572148 18575084 2936 False 4806 4806 96.189 265 3203 1 chr4B.!!$F2 2938
4 TraesCS4B01G024900 chr5B 129119283 129122228 2945 True 4874 4874 96.538 259 3203 1 chr5B.!!$R1 2944
5 TraesCS4B01G024900 chr6A 30113876 30116815 2939 False 4859 4859 96.497 264 3203 1 chr6A.!!$F1 2939
6 TraesCS4B01G024900 chr7B 677854331 677857270 2939 False 4839 4839 96.363 262 3203 1 chr7B.!!$F2 2941
7 TraesCS4B01G024900 chr3B 738134887 738137827 2940 True 4817 4817 96.226 263 3203 1 chr3B.!!$R2 2940
8 TraesCS4B01G024900 chr3B 19706550 19709487 2937 True 4806 4806 96.189 265 3203 1 chr3B.!!$R1 2938
9 TraesCS4B01G024900 chr3B 660458487 660461427 2940 False 4806 4806 96.159 262 3203 1 chr3B.!!$F1 2941

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.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
230 231 0.040351 TTGGGCGGGATCCATTTTCA 59.960 50.0 15.23 2.02 33.82 2.69 F
614 615 0.179026 CAGCTGCATGCCTACTCCAT 60.179 55.0 16.68 0.00 44.23 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1150 1151 1.408702 CAAACCCCAAGGATATTGGCG 59.591 52.381 0.95 0.0 38.23 5.69 R
2368 2370 0.965439 GACTCTGTCTCCAGCACACT 59.035 55.000 0.00 0.0 38.66 3.55 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.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 6.218019 GTTTGGGTGAAATTACAAACCTACC 58.782 40.000 7.65 0.00 44.04 3.18
25 26 4.409187 TGGGTGAAATTACAAACCTACCC 58.591 43.478 0.00 0.00 45.25 3.69
26 27 3.765511 GGGTGAAATTACAAACCTACCCC 59.234 47.826 0.00 0.00 40.44 4.95
27 28 4.509663 GGGTGAAATTACAAACCTACCCCT 60.510 45.833 0.00 0.00 40.44 4.79
28 29 5.281141 GGGTGAAATTACAAACCTACCCCTA 60.281 44.000 0.00 0.00 40.44 3.53
29 30 6.429151 GGTGAAATTACAAACCTACCCCTAT 58.571 40.000 0.00 0.00 0.00 2.57
30 31 6.544931 GGTGAAATTACAAACCTACCCCTATC 59.455 42.308 0.00 0.00 0.00 2.08
31 32 6.259387 GTGAAATTACAAACCTACCCCTATCG 59.741 42.308 0.00 0.00 0.00 2.92
32 33 6.156602 TGAAATTACAAACCTACCCCTATCGA 59.843 38.462 0.00 0.00 0.00 3.59
33 34 6.564557 AATTACAAACCTACCCCTATCGAA 57.435 37.500 0.00 0.00 0.00 3.71
34 35 6.564557 ATTACAAACCTACCCCTATCGAAA 57.435 37.500 0.00 0.00 0.00 3.46
35 36 4.212143 ACAAACCTACCCCTATCGAAAC 57.788 45.455 0.00 0.00 0.00 2.78
36 37 3.054875 ACAAACCTACCCCTATCGAAACC 60.055 47.826 0.00 0.00 0.00 3.27
37 38 2.862850 ACCTACCCCTATCGAAACCT 57.137 50.000 0.00 0.00 0.00 3.50
38 39 3.979501 ACCTACCCCTATCGAAACCTA 57.020 47.619 0.00 0.00 0.00 3.08
39 40 4.482400 ACCTACCCCTATCGAAACCTAT 57.518 45.455 0.00 0.00 0.00 2.57
40 41 5.605540 ACCTACCCCTATCGAAACCTATA 57.394 43.478 0.00 0.00 0.00 1.31
41 42 5.578073 ACCTACCCCTATCGAAACCTATAG 58.422 45.833 0.00 0.00 0.00 1.31
42 43 5.314306 ACCTACCCCTATCGAAACCTATAGA 59.686 44.000 0.00 0.00 0.00 1.98
43 44 6.183361 ACCTACCCCTATCGAAACCTATAGAA 60.183 42.308 0.00 0.00 0.00 2.10
44 45 6.723052 CCTACCCCTATCGAAACCTATAGAAA 59.277 42.308 0.00 0.00 0.00 2.52
45 46 7.399478 CCTACCCCTATCGAAACCTATAGAAAT 59.601 40.741 0.00 0.00 0.00 2.17
46 47 7.242322 ACCCCTATCGAAACCTATAGAAATC 57.758 40.000 0.00 0.00 0.00 2.17
47 48 6.212993 ACCCCTATCGAAACCTATAGAAATCC 59.787 42.308 0.00 0.00 0.00 3.01
48 49 6.212791 CCCCTATCGAAACCTATAGAAATCCA 59.787 42.308 0.00 0.00 0.00 3.41
49 50 7.324178 CCCTATCGAAACCTATAGAAATCCAG 58.676 42.308 0.00 0.00 0.00 3.86
50 51 6.814146 CCTATCGAAACCTATAGAAATCCAGC 59.186 42.308 0.00 0.00 0.00 4.85
51 52 5.607939 TCGAAACCTATAGAAATCCAGCA 57.392 39.130 0.00 0.00 0.00 4.41
52 53 5.601662 TCGAAACCTATAGAAATCCAGCAG 58.398 41.667 0.00 0.00 0.00 4.24
53 54 5.362717 TCGAAACCTATAGAAATCCAGCAGA 59.637 40.000 0.00 0.00 0.00 4.26
54 55 6.042093 TCGAAACCTATAGAAATCCAGCAGAT 59.958 38.462 0.00 0.00 36.48 2.90
55 56 7.232737 TCGAAACCTATAGAAATCCAGCAGATA 59.767 37.037 0.00 0.00 33.66 1.98
56 57 7.543868 CGAAACCTATAGAAATCCAGCAGATAG 59.456 40.741 0.00 0.00 33.66 2.08
57 58 6.865834 ACCTATAGAAATCCAGCAGATAGG 57.134 41.667 0.00 0.00 40.12 2.57
58 59 5.188751 ACCTATAGAAATCCAGCAGATAGGC 59.811 44.000 0.00 0.00 38.57 3.93
60 61 5.839517 ATAGAAATCCAGCAGATAGGCTT 57.160 39.130 0.00 0.00 42.71 4.35
61 62 4.516652 AGAAATCCAGCAGATAGGCTTT 57.483 40.909 0.00 0.00 42.71 3.51
62 63 4.205587 AGAAATCCAGCAGATAGGCTTTG 58.794 43.478 0.00 0.00 42.71 2.77
63 64 1.978454 ATCCAGCAGATAGGCTTTGC 58.022 50.000 9.47 9.47 42.71 3.68
64 65 0.462581 TCCAGCAGATAGGCTTTGCG 60.463 55.000 11.11 7.50 42.71 4.85
65 66 0.745845 CCAGCAGATAGGCTTTGCGT 60.746 55.000 11.11 0.00 42.71 5.24
66 67 0.376152 CAGCAGATAGGCTTTGCGTG 59.624 55.000 11.11 7.56 42.71 5.34
67 68 0.745845 AGCAGATAGGCTTTGCGTGG 60.746 55.000 11.11 0.00 42.71 4.94
68 69 1.723870 CAGATAGGCTTTGCGTGGC 59.276 57.895 0.00 0.00 0.00 5.01
69 70 1.026182 CAGATAGGCTTTGCGTGGCA 61.026 55.000 0.00 0.00 36.47 4.92
70 71 0.745845 AGATAGGCTTTGCGTGGCAG 60.746 55.000 0.00 0.00 40.61 4.85
71 72 1.718757 GATAGGCTTTGCGTGGCAGG 61.719 60.000 2.14 2.14 40.61 4.85
72 73 3.918253 TAGGCTTTGCGTGGCAGGG 62.918 63.158 9.49 0.00 40.61 4.45
74 75 3.064324 GCTTTGCGTGGCAGGGAT 61.064 61.111 9.49 0.00 40.61 3.85
75 76 1.748879 GCTTTGCGTGGCAGGGATA 60.749 57.895 9.49 0.31 40.61 2.59
76 77 1.718757 GCTTTGCGTGGCAGGGATAG 61.719 60.000 13.16 13.16 40.61 2.08
77 78 1.077787 TTTGCGTGGCAGGGATAGG 60.078 57.895 9.49 0.00 40.61 2.57
78 79 1.847798 TTTGCGTGGCAGGGATAGGT 61.848 55.000 9.49 0.00 40.61 3.08
79 80 0.978667 TTGCGTGGCAGGGATAGGTA 60.979 55.000 9.49 0.00 40.61 3.08
80 81 1.367840 GCGTGGCAGGGATAGGTAG 59.632 63.158 9.49 0.00 0.00 3.18
81 82 1.400530 GCGTGGCAGGGATAGGTAGT 61.401 60.000 9.49 0.00 0.00 2.73
82 83 1.991121 CGTGGCAGGGATAGGTAGTA 58.009 55.000 0.00 0.00 0.00 1.82
83 84 1.887198 CGTGGCAGGGATAGGTAGTAG 59.113 57.143 0.00 0.00 0.00 2.57
84 85 2.488528 CGTGGCAGGGATAGGTAGTAGA 60.489 54.545 0.00 0.00 0.00 2.59
85 86 3.158676 GTGGCAGGGATAGGTAGTAGAG 58.841 54.545 0.00 0.00 0.00 2.43
86 87 3.061369 TGGCAGGGATAGGTAGTAGAGA 58.939 50.000 0.00 0.00 0.00 3.10
87 88 3.663136 TGGCAGGGATAGGTAGTAGAGAT 59.337 47.826 0.00 0.00 0.00 2.75
88 89 4.108124 TGGCAGGGATAGGTAGTAGAGATT 59.892 45.833 0.00 0.00 0.00 2.40
89 90 5.088026 GGCAGGGATAGGTAGTAGAGATTT 58.912 45.833 0.00 0.00 0.00 2.17
90 91 5.186215 GGCAGGGATAGGTAGTAGAGATTTC 59.814 48.000 0.00 0.00 0.00 2.17
91 92 5.186215 GCAGGGATAGGTAGTAGAGATTTCC 59.814 48.000 0.00 0.00 0.00 3.13
92 93 6.315714 CAGGGATAGGTAGTAGAGATTTCCA 58.684 44.000 0.00 0.00 0.00 3.53
93 94 6.957020 CAGGGATAGGTAGTAGAGATTTCCAT 59.043 42.308 0.00 0.00 0.00 3.41
94 95 7.123547 CAGGGATAGGTAGTAGAGATTTCCATC 59.876 44.444 0.00 0.00 0.00 3.51
95 96 7.020168 AGGGATAGGTAGTAGAGATTTCCATCT 59.980 40.741 0.00 0.00 43.03 2.90
107 108 7.183580 GAGATTTCCATCTCGTAGATTTTGG 57.816 40.000 0.00 0.00 44.85 3.28
108 109 6.653989 AGATTTCCATCTCGTAGATTTTGGT 58.346 36.000 0.00 0.00 34.26 3.67
109 110 7.112779 AGATTTCCATCTCGTAGATTTTGGTT 58.887 34.615 0.00 0.00 34.26 3.67
110 111 7.611855 AGATTTCCATCTCGTAGATTTTGGTTT 59.388 33.333 0.00 0.00 34.26 3.27
111 112 6.737254 TTCCATCTCGTAGATTTTGGTTTC 57.263 37.500 0.00 0.00 31.32 2.78
112 113 4.868171 TCCATCTCGTAGATTTTGGTTTCG 59.132 41.667 0.00 0.00 31.32 3.46
113 114 4.034048 CCATCTCGTAGATTTTGGTTTCGG 59.966 45.833 0.00 0.00 31.32 4.30
114 115 3.592059 TCTCGTAGATTTTGGTTTCGGG 58.408 45.455 0.00 0.00 33.89 5.14
115 116 2.078392 TCGTAGATTTTGGTTTCGGGC 58.922 47.619 0.00 0.00 0.00 6.13
116 117 1.807742 CGTAGATTTTGGTTTCGGGCA 59.192 47.619 0.00 0.00 0.00 5.36
117 118 2.159572 CGTAGATTTTGGTTTCGGGCAG 60.160 50.000 0.00 0.00 0.00 4.85
118 119 1.995376 AGATTTTGGTTTCGGGCAGT 58.005 45.000 0.00 0.00 0.00 4.40
119 120 2.316108 AGATTTTGGTTTCGGGCAGTT 58.684 42.857 0.00 0.00 0.00 3.16
120 121 3.492337 AGATTTTGGTTTCGGGCAGTTA 58.508 40.909 0.00 0.00 0.00 2.24
121 122 3.254903 AGATTTTGGTTTCGGGCAGTTAC 59.745 43.478 0.00 0.00 0.00 2.50
122 123 2.351706 TTTGGTTTCGGGCAGTTACT 57.648 45.000 0.00 0.00 0.00 2.24
123 124 1.600023 TTGGTTTCGGGCAGTTACTG 58.400 50.000 8.18 8.18 34.12 2.74
135 136 1.986378 CAGTTACTGCGACTTTCTCCG 59.014 52.381 0.00 0.00 0.00 4.63
141 142 2.235546 GCGACTTTCTCCGCTTTGT 58.764 52.632 0.00 0.00 46.96 2.83
142 143 0.586802 GCGACTTTCTCCGCTTTGTT 59.413 50.000 0.00 0.00 46.96 2.83
143 144 1.398578 GCGACTTTCTCCGCTTTGTTC 60.399 52.381 0.00 0.00 46.96 3.18
144 145 1.864711 CGACTTTCTCCGCTTTGTTCA 59.135 47.619 0.00 0.00 0.00 3.18
145 146 2.286833 CGACTTTCTCCGCTTTGTTCAA 59.713 45.455 0.00 0.00 0.00 2.69
146 147 3.242608 CGACTTTCTCCGCTTTGTTCAAA 60.243 43.478 0.00 0.00 0.00 2.69
147 148 4.554723 CGACTTTCTCCGCTTTGTTCAAAT 60.555 41.667 0.00 0.00 0.00 2.32
148 149 5.262588 ACTTTCTCCGCTTTGTTCAAATT 57.737 34.783 0.00 0.00 0.00 1.82
149 150 5.660460 ACTTTCTCCGCTTTGTTCAAATTT 58.340 33.333 0.00 0.00 0.00 1.82
150 151 6.106003 ACTTTCTCCGCTTTGTTCAAATTTT 58.894 32.000 0.00 0.00 0.00 1.82
151 152 5.964887 TTCTCCGCTTTGTTCAAATTTTG 57.035 34.783 2.59 2.59 0.00 2.44
152 153 3.801594 TCTCCGCTTTGTTCAAATTTTGC 59.198 39.130 4.19 0.00 0.00 3.68
153 154 3.525537 TCCGCTTTGTTCAAATTTTGCA 58.474 36.364 4.19 0.00 0.00 4.08
154 155 3.308323 TCCGCTTTGTTCAAATTTTGCAC 59.692 39.130 4.19 4.70 0.00 4.57
155 156 3.063180 CCGCTTTGTTCAAATTTTGCACA 59.937 39.130 10.01 10.01 35.06 4.57
156 157 4.265371 CGCTTTGTTCAAATTTTGCACAG 58.735 39.130 13.03 5.95 38.03 3.66
157 158 4.201705 CGCTTTGTTCAAATTTTGCACAGT 60.202 37.500 13.03 0.00 38.03 3.55
158 159 5.023286 GCTTTGTTCAAATTTTGCACAGTG 58.977 37.500 13.03 11.20 38.03 3.66
159 160 4.596801 TTGTTCAAATTTTGCACAGTGC 57.403 36.364 19.37 19.37 45.29 4.40
168 169 4.914291 GCACAGTGCACGTTTACC 57.086 55.556 21.22 0.00 44.26 2.85
169 170 1.083015 GCACAGTGCACGTTTACCG 60.083 57.895 21.22 1.98 44.26 4.02
179 180 2.607457 CGTTTACCGTGCCAACTCA 58.393 52.632 0.00 0.00 0.00 3.41
180 181 0.938713 CGTTTACCGTGCCAACTCAA 59.061 50.000 0.00 0.00 0.00 3.02
181 182 1.533731 CGTTTACCGTGCCAACTCAAT 59.466 47.619 0.00 0.00 0.00 2.57
182 183 2.031508 CGTTTACCGTGCCAACTCAATT 60.032 45.455 0.00 0.00 0.00 2.32
183 184 3.561503 GTTTACCGTGCCAACTCAATTC 58.438 45.455 0.00 0.00 0.00 2.17
184 185 1.434555 TACCGTGCCAACTCAATTCG 58.565 50.000 0.00 0.00 0.00 3.34
185 186 0.250124 ACCGTGCCAACTCAATTCGA 60.250 50.000 0.00 0.00 0.00 3.71
186 187 0.871722 CCGTGCCAACTCAATTCGAA 59.128 50.000 0.00 0.00 0.00 3.71
187 188 1.468520 CCGTGCCAACTCAATTCGAAT 59.531 47.619 4.39 4.39 0.00 3.34
188 189 2.476185 CCGTGCCAACTCAATTCGAATC 60.476 50.000 11.83 0.00 0.00 2.52
189 190 2.476185 CGTGCCAACTCAATTCGAATCC 60.476 50.000 11.83 0.00 0.00 3.01
190 191 2.091541 TGCCAACTCAATTCGAATCCC 58.908 47.619 11.83 0.00 0.00 3.85
191 192 1.064060 GCCAACTCAATTCGAATCCCG 59.936 52.381 11.83 5.15 40.25 5.14
192 193 2.356135 CCAACTCAATTCGAATCCCGT 58.644 47.619 11.83 5.78 39.75 5.28
193 194 2.747446 CCAACTCAATTCGAATCCCGTT 59.253 45.455 11.83 11.32 39.75 4.44
194 195 3.190535 CCAACTCAATTCGAATCCCGTTT 59.809 43.478 11.83 0.00 39.75 3.60
195 196 4.158384 CAACTCAATTCGAATCCCGTTTG 58.842 43.478 11.83 5.85 39.75 2.93
196 197 3.408634 ACTCAATTCGAATCCCGTTTGT 58.591 40.909 11.83 1.67 39.75 2.83
197 198 4.571919 ACTCAATTCGAATCCCGTTTGTA 58.428 39.130 11.83 0.00 39.75 2.41
198 199 5.183228 ACTCAATTCGAATCCCGTTTGTAT 58.817 37.500 11.83 0.00 39.75 2.29
199 200 5.646360 ACTCAATTCGAATCCCGTTTGTATT 59.354 36.000 11.83 0.00 39.75 1.89
200 201 6.114221 TCAATTCGAATCCCGTTTGTATTC 57.886 37.500 11.83 0.00 39.75 1.75
201 202 5.878116 TCAATTCGAATCCCGTTTGTATTCT 59.122 36.000 11.83 0.00 39.75 2.40
202 203 7.042950 TCAATTCGAATCCCGTTTGTATTCTA 58.957 34.615 11.83 0.00 39.75 2.10
203 204 6.839820 ATTCGAATCCCGTTTGTATTCTAC 57.160 37.500 4.39 0.00 39.75 2.59
204 205 5.587388 TCGAATCCCGTTTGTATTCTACT 57.413 39.130 0.00 0.00 39.75 2.57
205 206 6.698008 TCGAATCCCGTTTGTATTCTACTA 57.302 37.500 0.00 0.00 39.75 1.82
206 207 7.281040 TCGAATCCCGTTTGTATTCTACTAT 57.719 36.000 0.00 0.00 39.75 2.12
207 208 7.719483 TCGAATCCCGTTTGTATTCTACTATT 58.281 34.615 0.00 0.00 39.75 1.73
208 209 8.199449 TCGAATCCCGTTTGTATTCTACTATTT 58.801 33.333 0.00 0.00 39.75 1.40
209 210 8.823818 CGAATCCCGTTTGTATTCTACTATTTT 58.176 33.333 0.00 0.00 0.00 1.82
226 227 3.390280 TTTTTGGGCGGGATCCATT 57.610 47.368 15.23 0.00 33.82 3.16
227 228 1.650528 TTTTTGGGCGGGATCCATTT 58.349 45.000 15.23 0.00 33.82 2.32
228 229 1.650528 TTTTGGGCGGGATCCATTTT 58.349 45.000 15.23 0.00 33.82 1.82
229 230 1.190643 TTTGGGCGGGATCCATTTTC 58.809 50.000 15.23 0.00 33.82 2.29
230 231 0.040351 TTGGGCGGGATCCATTTTCA 59.960 50.000 15.23 2.02 33.82 2.69
231 232 0.040351 TGGGCGGGATCCATTTTCAA 59.960 50.000 15.23 0.00 0.00 2.69
232 233 1.342874 TGGGCGGGATCCATTTTCAAT 60.343 47.619 15.23 0.00 0.00 2.57
233 234 1.762370 GGGCGGGATCCATTTTCAATT 59.238 47.619 15.23 0.00 0.00 2.32
234 235 2.483538 GGGCGGGATCCATTTTCAATTG 60.484 50.000 15.23 0.00 0.00 2.32
235 236 2.483538 GGCGGGATCCATTTTCAATTGG 60.484 50.000 15.23 0.00 0.00 3.16
236 237 2.430332 GCGGGATCCATTTTCAATTGGA 59.570 45.455 15.23 5.79 45.69 3.53
237 238 3.118811 GCGGGATCCATTTTCAATTGGAA 60.119 43.478 15.23 0.00 44.83 3.53
238 239 4.443315 GCGGGATCCATTTTCAATTGGAAT 60.443 41.667 15.23 4.05 44.83 3.01
239 240 5.673514 CGGGATCCATTTTCAATTGGAATT 58.326 37.500 15.23 0.00 44.83 2.17
240 241 6.685116 GCGGGATCCATTTTCAATTGGAATTA 60.685 38.462 15.23 0.00 44.83 1.40
241 242 6.701400 CGGGATCCATTTTCAATTGGAATTAC 59.299 38.462 15.23 0.00 44.83 1.89
242 243 7.563906 GGGATCCATTTTCAATTGGAATTACA 58.436 34.615 15.23 0.00 44.83 2.41
243 244 8.212995 GGGATCCATTTTCAATTGGAATTACAT 58.787 33.333 15.23 0.00 44.83 2.29
244 245 9.617523 GGATCCATTTTCAATTGGAATTACATT 57.382 29.630 6.95 0.00 44.83 2.71
307 308 0.676184 GTGGTGTCTCTGTGCTCAGA 59.324 55.000 17.04 17.04 46.85 3.27
378 379 2.700897 AGCTACTATGACGAGGCCAAAT 59.299 45.455 5.01 0.00 0.00 2.32
409 410 3.000819 TCCATTCCGTCCGCCAGT 61.001 61.111 0.00 0.00 0.00 4.00
426 427 2.422235 CCAGTGTTAAGTTGTGGGTCCA 60.422 50.000 0.00 0.00 0.00 4.02
447 448 2.654877 CTTACACGTGGGACCGCT 59.345 61.111 21.57 0.00 0.00 5.52
614 615 0.179026 CAGCTGCATGCCTACTCCAT 60.179 55.000 16.68 0.00 44.23 3.41
618 619 2.313172 GCATGCCTACTCCATCGCG 61.313 63.158 6.36 0.00 0.00 5.87
627 628 1.471119 ACTCCATCGCGACCTTTCTA 58.529 50.000 12.93 0.00 0.00 2.10
638 639 0.317479 ACCTTTCTACGCTGACGCTT 59.683 50.000 0.00 0.00 45.53 4.68
924 925 7.556844 CCTCCTGTTTAGATTGAGCTTAGTTA 58.443 38.462 0.00 0.00 0.00 2.24
944 945 6.913170 AGTTATGCATTTGAACACTCGATTT 58.087 32.000 3.54 0.00 0.00 2.17
981 982 5.048504 CCAATTAGTGTGCTGATTGTGTCTT 60.049 40.000 9.96 0.00 43.22 3.01
1067 1068 0.999406 ACGTTCGATGCAAAGGATCG 59.001 50.000 13.59 13.59 43.32 3.69
1150 1151 5.480422 AGACAATTTGGGGAGGTAATTTGTC 59.520 40.000 12.89 12.89 42.08 3.18
1239 1240 8.274322 TGGGTGACAATTAGTAATGATGAAGAT 58.726 33.333 0.00 0.00 0.00 2.40
1482 1483 4.877823 GTGGAGCATGATGACTACAATTCA 59.122 41.667 0.00 0.00 0.00 2.57
1654 1655 4.591498 ACCCTTTGAACCCTAATTTGGAAC 59.409 41.667 7.57 0.00 0.00 3.62
1707 1708 6.881065 AGTGTAGAAATGCACTTGTGACATAT 59.119 34.615 4.79 1.98 42.61 1.78
1798 1799 0.475632 TGAGGGTTGTCCATGGAGGT 60.476 55.000 16.81 0.00 39.02 3.85
1931 1932 1.661463 AGATGGGTGGCAGAAGAAGA 58.339 50.000 0.00 0.00 0.00 2.87
1995 1996 6.266103 AGGAATTGCAGAAGAACATCAAAGAA 59.734 34.615 0.00 0.00 0.00 2.52
2202 2203 4.389374 GAGTGACAAAGACCAAGGAATGA 58.611 43.478 0.00 0.00 0.00 2.57
2204 2205 4.763793 AGTGACAAAGACCAAGGAATGATG 59.236 41.667 0.00 0.00 0.00 3.07
2295 2297 3.837213 ATTGATGCCACTTTTCTCACG 57.163 42.857 0.00 0.00 0.00 4.35
2368 2370 5.830991 AGTTTTGTATTTCCAGTTGCCTACA 59.169 36.000 0.00 0.00 0.00 2.74
2471 2473 5.368145 GTTGGTCATTCATACAGATGCCTA 58.632 41.667 0.00 0.00 32.62 3.93
2509 2511 1.972075 TCGTGGACAATGTGTTCCCTA 59.028 47.619 0.00 0.00 0.00 3.53
2671 2673 9.479549 AGTTATACATGAATCCCAAAGTGAAAT 57.520 29.630 0.00 0.00 0.00 2.17
2886 2888 4.518970 GGAATAGCCGAGGCAAAATTCATA 59.481 41.667 24.61 8.00 44.88 2.15
2902 2904 8.361889 CAAAATTCATAGGCCACATTATCATCA 58.638 33.333 5.01 0.00 0.00 3.07
2994 2996 9.614792 GGTACCACAACAGAGATATCTTATTTT 57.385 33.333 7.15 0.00 0.00 1.82
3023 3025 6.231687 AGAGAAGAGGGAATGGAGATATCT 57.768 41.667 4.47 4.47 0.00 1.98
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.218019 GGTAGGTTTGTAATTTCACCCAAAC 58.782 40.000 0.00 0.00 43.58 2.93
4 5 3.765511 GGGGTAGGTTTGTAATTTCACCC 59.234 47.826 0.00 0.00 43.06 4.61
5 6 4.669700 AGGGGTAGGTTTGTAATTTCACC 58.330 43.478 0.00 0.00 0.00 4.02
6 7 6.259387 CGATAGGGGTAGGTTTGTAATTTCAC 59.741 42.308 0.00 0.00 0.00 3.18
7 8 6.156602 TCGATAGGGGTAGGTTTGTAATTTCA 59.843 38.462 0.00 0.00 0.00 2.69
8 9 6.585416 TCGATAGGGGTAGGTTTGTAATTTC 58.415 40.000 0.00 0.00 0.00 2.17
9 10 6.564557 TCGATAGGGGTAGGTTTGTAATTT 57.435 37.500 0.00 0.00 0.00 1.82
10 11 6.564557 TTCGATAGGGGTAGGTTTGTAATT 57.435 37.500 0.00 0.00 0.00 1.40
11 12 6.351711 GTTTCGATAGGGGTAGGTTTGTAAT 58.648 40.000 0.00 0.00 0.00 1.89
12 13 5.338300 GGTTTCGATAGGGGTAGGTTTGTAA 60.338 44.000 0.00 0.00 0.00 2.41
13 14 4.162131 GGTTTCGATAGGGGTAGGTTTGTA 59.838 45.833 0.00 0.00 0.00 2.41
14 15 3.054875 GGTTTCGATAGGGGTAGGTTTGT 60.055 47.826 0.00 0.00 0.00 2.83
15 16 3.199289 AGGTTTCGATAGGGGTAGGTTTG 59.801 47.826 0.00 0.00 0.00 2.93
16 17 3.457836 AGGTTTCGATAGGGGTAGGTTT 58.542 45.455 0.00 0.00 0.00 3.27
17 18 3.126323 AGGTTTCGATAGGGGTAGGTT 57.874 47.619 0.00 0.00 0.00 3.50
18 19 2.862850 AGGTTTCGATAGGGGTAGGT 57.137 50.000 0.00 0.00 0.00 3.08
19 20 5.824421 TCTATAGGTTTCGATAGGGGTAGG 58.176 45.833 0.00 0.00 31.95 3.18
20 21 7.771927 TTTCTATAGGTTTCGATAGGGGTAG 57.228 40.000 0.00 0.00 31.95 3.18
21 22 7.398332 GGATTTCTATAGGTTTCGATAGGGGTA 59.602 40.741 0.00 0.00 31.95 3.69
22 23 6.212993 GGATTTCTATAGGTTTCGATAGGGGT 59.787 42.308 0.00 0.00 31.95 4.95
23 24 6.212791 TGGATTTCTATAGGTTTCGATAGGGG 59.787 42.308 0.00 0.00 31.95 4.79
24 25 7.241042 TGGATTTCTATAGGTTTCGATAGGG 57.759 40.000 0.00 0.00 31.95 3.53
25 26 6.814146 GCTGGATTTCTATAGGTTTCGATAGG 59.186 42.308 0.00 0.00 31.95 2.57
26 27 7.378966 TGCTGGATTTCTATAGGTTTCGATAG 58.621 38.462 0.00 0.00 32.20 2.08
27 28 7.232737 TCTGCTGGATTTCTATAGGTTTCGATA 59.767 37.037 0.00 0.00 0.00 2.92
28 29 6.042093 TCTGCTGGATTTCTATAGGTTTCGAT 59.958 38.462 0.00 0.00 0.00 3.59
29 30 5.362717 TCTGCTGGATTTCTATAGGTTTCGA 59.637 40.000 0.00 0.00 0.00 3.71
30 31 5.601662 TCTGCTGGATTTCTATAGGTTTCG 58.398 41.667 0.00 0.00 0.00 3.46
31 32 7.821846 CCTATCTGCTGGATTTCTATAGGTTTC 59.178 40.741 0.00 0.00 35.98 2.78
32 33 7.684529 CCTATCTGCTGGATTTCTATAGGTTT 58.315 38.462 0.00 0.00 35.98 3.27
33 34 6.296145 GCCTATCTGCTGGATTTCTATAGGTT 60.296 42.308 0.00 0.00 37.73 3.50
34 35 5.188751 GCCTATCTGCTGGATTTCTATAGGT 59.811 44.000 0.00 0.00 37.73 3.08
35 36 5.424895 AGCCTATCTGCTGGATTTCTATAGG 59.575 44.000 0.00 0.00 40.90 2.57
36 37 6.543430 AGCCTATCTGCTGGATTTCTATAG 57.457 41.667 0.00 0.00 40.90 1.31
37 38 6.942163 AAGCCTATCTGCTGGATTTCTATA 57.058 37.500 0.00 0.00 41.80 1.31
38 39 5.839517 AAGCCTATCTGCTGGATTTCTAT 57.160 39.130 0.00 0.00 41.80 1.98
39 40 5.371526 CAAAGCCTATCTGCTGGATTTCTA 58.628 41.667 0.00 0.00 41.80 2.10
40 41 4.205587 CAAAGCCTATCTGCTGGATTTCT 58.794 43.478 0.00 0.00 41.80 2.52
41 42 3.243334 GCAAAGCCTATCTGCTGGATTTC 60.243 47.826 0.00 0.00 41.80 2.17
42 43 2.692041 GCAAAGCCTATCTGCTGGATTT 59.308 45.455 0.00 0.00 41.80 2.17
43 44 2.305009 GCAAAGCCTATCTGCTGGATT 58.695 47.619 0.00 0.00 41.80 3.01
44 45 1.813092 CGCAAAGCCTATCTGCTGGAT 60.813 52.381 0.00 0.00 41.80 3.41
45 46 0.462581 CGCAAAGCCTATCTGCTGGA 60.463 55.000 0.00 0.00 41.80 3.86
46 47 0.745845 ACGCAAAGCCTATCTGCTGG 60.746 55.000 0.00 0.00 41.80 4.85
47 48 0.376152 CACGCAAAGCCTATCTGCTG 59.624 55.000 0.00 0.00 41.80 4.41
48 49 0.745845 CCACGCAAAGCCTATCTGCT 60.746 55.000 0.00 0.00 45.43 4.24
49 50 1.723870 CCACGCAAAGCCTATCTGC 59.276 57.895 0.00 0.00 0.00 4.26
50 51 1.026182 TGCCACGCAAAGCCTATCTG 61.026 55.000 0.00 0.00 34.76 2.90
51 52 0.745845 CTGCCACGCAAAGCCTATCT 60.746 55.000 0.00 0.00 38.41 1.98
52 53 1.718757 CCTGCCACGCAAAGCCTATC 61.719 60.000 0.00 0.00 38.41 2.08
53 54 1.750399 CCTGCCACGCAAAGCCTAT 60.750 57.895 0.00 0.00 38.41 2.57
54 55 2.359850 CCTGCCACGCAAAGCCTA 60.360 61.111 0.00 0.00 38.41 3.93
57 58 1.718757 CTATCCCTGCCACGCAAAGC 61.719 60.000 0.00 0.00 38.41 3.51
58 59 1.097547 CCTATCCCTGCCACGCAAAG 61.098 60.000 0.00 0.00 38.41 2.77
59 60 1.077787 CCTATCCCTGCCACGCAAA 60.078 57.895 0.00 0.00 38.41 3.68
60 61 0.978667 TACCTATCCCTGCCACGCAA 60.979 55.000 0.00 0.00 38.41 4.85
61 62 1.382009 TACCTATCCCTGCCACGCA 60.382 57.895 0.00 0.00 36.92 5.24
62 63 1.367840 CTACCTATCCCTGCCACGC 59.632 63.158 0.00 0.00 0.00 5.34
63 64 1.887198 CTACTACCTATCCCTGCCACG 59.113 57.143 0.00 0.00 0.00 4.94
64 65 3.158676 CTCTACTACCTATCCCTGCCAC 58.841 54.545 0.00 0.00 0.00 5.01
65 66 3.061369 TCTCTACTACCTATCCCTGCCA 58.939 50.000 0.00 0.00 0.00 4.92
66 67 3.810721 TCTCTACTACCTATCCCTGCC 57.189 52.381 0.00 0.00 0.00 4.85
67 68 5.186215 GGAAATCTCTACTACCTATCCCTGC 59.814 48.000 0.00 0.00 0.00 4.85
68 69 6.315714 TGGAAATCTCTACTACCTATCCCTG 58.684 44.000 0.00 0.00 0.00 4.45
69 70 6.547396 TGGAAATCTCTACTACCTATCCCT 57.453 41.667 0.00 0.00 0.00 4.20
70 71 7.186268 AGATGGAAATCTCTACTACCTATCCC 58.814 42.308 0.00 0.00 0.00 3.85
71 72 7.066525 CGAGATGGAAATCTCTACTACCTATCC 59.933 44.444 12.54 0.00 43.64 2.59
72 73 7.608761 ACGAGATGGAAATCTCTACTACCTATC 59.391 40.741 12.54 0.00 43.64 2.08
73 74 7.463431 ACGAGATGGAAATCTCTACTACCTAT 58.537 38.462 12.54 0.00 43.64 2.57
74 75 6.839454 ACGAGATGGAAATCTCTACTACCTA 58.161 40.000 12.54 0.00 43.64 3.08
75 76 5.697067 ACGAGATGGAAATCTCTACTACCT 58.303 41.667 12.54 0.00 43.64 3.08
76 77 6.935771 TCTACGAGATGGAAATCTCTACTACC 59.064 42.308 12.54 0.00 43.64 3.18
77 78 7.966246 TCTACGAGATGGAAATCTCTACTAC 57.034 40.000 12.54 0.00 43.64 2.73
78 79 9.575868 AAATCTACGAGATGGAAATCTCTACTA 57.424 33.333 12.54 1.34 43.64 1.82
79 80 8.472007 AAATCTACGAGATGGAAATCTCTACT 57.528 34.615 12.54 0.40 43.64 2.57
80 81 8.973378 CAAAATCTACGAGATGGAAATCTCTAC 58.027 37.037 12.54 0.00 43.64 2.59
81 82 8.144478 CCAAAATCTACGAGATGGAAATCTCTA 58.856 37.037 12.54 5.09 43.64 2.43
82 83 6.989169 CCAAAATCTACGAGATGGAAATCTCT 59.011 38.462 12.54 4.35 43.64 3.10
83 84 6.763610 ACCAAAATCTACGAGATGGAAATCTC 59.236 38.462 5.78 5.78 42.68 2.75
84 85 6.653989 ACCAAAATCTACGAGATGGAAATCT 58.346 36.000 0.00 0.00 34.65 2.40
85 86 6.927294 ACCAAAATCTACGAGATGGAAATC 57.073 37.500 0.00 0.00 34.65 2.17
86 87 7.414098 CGAAACCAAAATCTACGAGATGGAAAT 60.414 37.037 0.00 0.00 34.65 2.17
87 88 6.128391 CGAAACCAAAATCTACGAGATGGAAA 60.128 38.462 0.00 0.00 34.65 3.13
88 89 5.350365 CGAAACCAAAATCTACGAGATGGAA 59.650 40.000 0.00 0.00 34.65 3.53
89 90 4.868171 CGAAACCAAAATCTACGAGATGGA 59.132 41.667 0.00 0.00 34.65 3.41
90 91 4.034048 CCGAAACCAAAATCTACGAGATGG 59.966 45.833 0.00 0.00 34.65 3.51
91 92 4.034048 CCCGAAACCAAAATCTACGAGATG 59.966 45.833 0.00 0.00 34.65 2.90
92 93 4.189231 CCCGAAACCAAAATCTACGAGAT 58.811 43.478 0.00 0.00 36.28 2.75
93 94 3.592059 CCCGAAACCAAAATCTACGAGA 58.408 45.455 0.00 0.00 0.00 4.04
94 95 2.095372 GCCCGAAACCAAAATCTACGAG 59.905 50.000 0.00 0.00 0.00 4.18
95 96 2.078392 GCCCGAAACCAAAATCTACGA 58.922 47.619 0.00 0.00 0.00 3.43
96 97 1.807742 TGCCCGAAACCAAAATCTACG 59.192 47.619 0.00 0.00 0.00 3.51
97 98 2.817844 ACTGCCCGAAACCAAAATCTAC 59.182 45.455 0.00 0.00 0.00 2.59
98 99 3.149005 ACTGCCCGAAACCAAAATCTA 57.851 42.857 0.00 0.00 0.00 1.98
99 100 1.995376 ACTGCCCGAAACCAAAATCT 58.005 45.000 0.00 0.00 0.00 2.40
100 101 2.812358 AACTGCCCGAAACCAAAATC 57.188 45.000 0.00 0.00 0.00 2.17
101 102 3.005367 CAGTAACTGCCCGAAACCAAAAT 59.995 43.478 0.00 0.00 0.00 1.82
102 103 2.359531 CAGTAACTGCCCGAAACCAAAA 59.640 45.455 0.00 0.00 0.00 2.44
103 104 1.950909 CAGTAACTGCCCGAAACCAAA 59.049 47.619 0.00 0.00 0.00 3.28
104 105 1.600023 CAGTAACTGCCCGAAACCAA 58.400 50.000 0.00 0.00 0.00 3.67
105 106 3.315765 CAGTAACTGCCCGAAACCA 57.684 52.632 0.00 0.00 0.00 3.67
115 116 1.986378 CGGAGAAAGTCGCAGTAACTG 59.014 52.381 0.00 0.00 34.12 3.16
116 117 2.349297 CGGAGAAAGTCGCAGTAACT 57.651 50.000 0.00 0.00 0.00 2.24
124 125 1.864711 TGAACAAAGCGGAGAAAGTCG 59.135 47.619 0.00 0.00 0.00 4.18
125 126 3.963383 TTGAACAAAGCGGAGAAAGTC 57.037 42.857 0.00 0.00 0.00 3.01
126 127 4.918810 ATTTGAACAAAGCGGAGAAAGT 57.081 36.364 6.18 0.00 33.32 2.66
127 128 6.413269 CAAAATTTGAACAAAGCGGAGAAAG 58.587 36.000 0.00 0.00 33.32 2.62
128 129 5.220567 GCAAAATTTGAACAAAGCGGAGAAA 60.221 36.000 10.26 0.00 33.32 2.52
129 130 4.269844 GCAAAATTTGAACAAAGCGGAGAA 59.730 37.500 10.26 0.00 33.32 2.87
130 131 3.801594 GCAAAATTTGAACAAAGCGGAGA 59.198 39.130 10.26 0.00 33.32 3.71
131 132 3.555139 TGCAAAATTTGAACAAAGCGGAG 59.445 39.130 10.26 0.00 33.32 4.63
132 133 3.308323 GTGCAAAATTTGAACAAAGCGGA 59.692 39.130 11.77 0.00 39.13 5.54
133 134 3.063180 TGTGCAAAATTTGAACAAAGCGG 59.937 39.130 16.59 0.00 46.01 5.52
134 135 4.256140 TGTGCAAAATTTGAACAAAGCG 57.744 36.364 16.59 0.00 46.01 4.68
151 152 1.083015 CGGTAAACGTGCACTGTGC 60.083 57.895 25.15 25.15 45.29 4.57
162 163 3.561503 GAATTGAGTTGGCACGGTAAAC 58.438 45.455 0.00 0.00 0.00 2.01
163 164 2.224549 CGAATTGAGTTGGCACGGTAAA 59.775 45.455 0.00 0.00 0.00 2.01
164 165 1.801771 CGAATTGAGTTGGCACGGTAA 59.198 47.619 0.00 0.00 0.00 2.85
165 166 1.001068 TCGAATTGAGTTGGCACGGTA 59.999 47.619 0.00 0.00 0.00 4.02
166 167 0.250124 TCGAATTGAGTTGGCACGGT 60.250 50.000 0.00 0.00 0.00 4.83
167 168 0.871722 TTCGAATTGAGTTGGCACGG 59.128 50.000 0.00 0.00 0.00 4.94
168 169 2.476185 GGATTCGAATTGAGTTGGCACG 60.476 50.000 12.81 0.00 0.00 5.34
169 170 2.159379 GGGATTCGAATTGAGTTGGCAC 60.159 50.000 12.81 0.00 0.00 5.01
170 171 2.091541 GGGATTCGAATTGAGTTGGCA 58.908 47.619 12.81 0.00 0.00 4.92
171 172 1.064060 CGGGATTCGAATTGAGTTGGC 59.936 52.381 12.81 0.00 42.43 4.52
172 173 2.356135 ACGGGATTCGAATTGAGTTGG 58.644 47.619 12.81 1.05 42.43 3.77
173 174 4.158384 CAAACGGGATTCGAATTGAGTTG 58.842 43.478 12.81 9.52 42.43 3.16
174 175 3.818773 ACAAACGGGATTCGAATTGAGTT 59.181 39.130 12.81 14.52 42.43 3.01
175 176 3.408634 ACAAACGGGATTCGAATTGAGT 58.591 40.909 12.81 9.48 42.43 3.41
176 177 5.734855 ATACAAACGGGATTCGAATTGAG 57.265 39.130 12.81 8.86 42.43 3.02
177 178 5.878116 AGAATACAAACGGGATTCGAATTGA 59.122 36.000 12.81 0.00 42.43 2.57
178 179 6.119144 AGAATACAAACGGGATTCGAATTG 57.881 37.500 12.81 8.65 42.43 2.32
179 180 7.046033 AGTAGAATACAAACGGGATTCGAATT 58.954 34.615 12.81 0.00 46.26 2.17
180 181 6.579865 AGTAGAATACAAACGGGATTCGAAT 58.420 36.000 11.20 11.20 46.26 3.34
181 182 5.969423 AGTAGAATACAAACGGGATTCGAA 58.031 37.500 0.00 0.00 46.26 3.71
182 183 5.587388 AGTAGAATACAAACGGGATTCGA 57.413 39.130 0.00 0.00 46.26 3.71
183 184 7.941795 AATAGTAGAATACAAACGGGATTCG 57.058 36.000 0.00 0.00 46.26 3.34
208 209 1.650528 AAATGGATCCCGCCCAAAAA 58.349 45.000 9.90 0.00 37.22 1.94
209 210 1.552792 GAAAATGGATCCCGCCCAAAA 59.447 47.619 9.90 0.00 37.22 2.44
210 211 1.190643 GAAAATGGATCCCGCCCAAA 58.809 50.000 9.90 0.00 37.22 3.28
211 212 0.040351 TGAAAATGGATCCCGCCCAA 59.960 50.000 9.90 0.00 37.22 4.12
212 213 0.040351 TTGAAAATGGATCCCGCCCA 59.960 50.000 9.90 0.00 38.19 5.36
213 214 1.413118 ATTGAAAATGGATCCCGCCC 58.587 50.000 9.90 0.00 0.00 6.13
214 215 2.483538 CCAATTGAAAATGGATCCCGCC 60.484 50.000 9.90 0.00 39.12 6.13
215 216 2.430332 TCCAATTGAAAATGGATCCCGC 59.570 45.455 9.90 0.00 40.74 6.13
216 217 4.734398 TTCCAATTGAAAATGGATCCCG 57.266 40.909 9.90 0.00 44.83 5.14
217 218 7.563906 TGTAATTCCAATTGAAAATGGATCCC 58.436 34.615 9.90 0.00 44.83 3.85
218 219 9.617523 AATGTAATTCCAATTGAAAATGGATCC 57.382 29.630 7.12 4.20 44.83 3.36
257 258 9.674068 GGCAAAAGGATAATTAACCCATAAAAA 57.326 29.630 8.09 0.00 0.00 1.94
307 308 5.484715 CACAATTTGCATCTGAGGGAAAAT 58.515 37.500 12.70 2.14 0.00 1.82
378 379 3.565307 GGAATGGACTCAAATATGGCCA 58.435 45.455 8.56 8.56 0.00 5.36
409 410 2.486548 GCTCTGGACCCACAACTTAACA 60.487 50.000 0.00 0.00 0.00 2.41
426 427 1.874345 CGGTCCCACGTGTAAGCTCT 61.874 60.000 15.65 0.00 0.00 4.09
618 619 2.360794 GCGTCAGCGTAGAAAGGTC 58.639 57.895 0.00 0.00 40.81 3.85
924 925 5.375417 TCAAATCGAGTGTTCAAATGCAT 57.625 34.783 0.00 0.00 0.00 3.96
944 945 4.202524 ACACTAATTGGGCAAACCTACTCA 60.203 41.667 0.00 0.00 41.11 3.41
989 990 0.251916 CAACTCCATCCTAACCGGCA 59.748 55.000 0.00 0.00 0.00 5.69
1150 1151 1.408702 CAAACCCCAAGGATATTGGCG 59.591 52.381 0.95 0.00 38.23 5.69
1200 1201 1.544246 GTCACCCATTTCTTTTCCCCG 59.456 52.381 0.00 0.00 0.00 5.73
1239 1240 4.224147 TGCCTAACAAACATGGTAGCTAGA 59.776 41.667 0.00 0.00 0.00 2.43
1482 1483 2.273619 AGCTTCTCTTCATCAACCCCT 58.726 47.619 0.00 0.00 0.00 4.79
1654 1655 4.582701 TGGATGCAAAAACTGTACCTTG 57.417 40.909 0.00 0.00 0.00 3.61
1707 1708 4.530710 AGTACGTTCTACCTTGATGCAA 57.469 40.909 0.00 0.00 0.00 4.08
1931 1932 5.247337 TGGTTTTCTTTCACCCACTTCTTTT 59.753 36.000 0.00 0.00 31.24 2.27
2202 2203 2.812011 GCAGACAAAAACCCTCGTACAT 59.188 45.455 0.00 0.00 0.00 2.29
2204 2205 2.490991 AGCAGACAAAAACCCTCGTAC 58.509 47.619 0.00 0.00 0.00 3.67
2295 2297 6.063496 ACTAACTGTCCTTTAAATCTCCCC 57.937 41.667 0.00 0.00 0.00 4.81
2301 2303 6.712276 AGCAGCTACTAACTGTCCTTTAAAT 58.288 36.000 0.00 0.00 37.47 1.40
2368 2370 0.965439 GACTCTGTCTCCAGCACACT 59.035 55.000 0.00 0.00 38.66 3.55
2389 2391 1.439543 AACCAAGTCCAGCTCTCCTT 58.560 50.000 0.00 0.00 0.00 3.36
2426 2428 2.313317 CATTGGGATGTGCAATAGCCT 58.687 47.619 6.48 0.00 41.13 4.58
2471 2473 3.875134 CACGACCACTTCTAAACCTTTGT 59.125 43.478 0.00 0.00 0.00 2.83
2671 2673 5.163184 TGGAGTGGTGTGTTTCCAAGTATTA 60.163 40.000 0.00 0.00 36.81 0.98
2719 2721 4.622701 AGTCAACTTTGCTCAGTTCAAC 57.377 40.909 0.00 1.84 34.60 3.18
2720 2722 5.822519 ACATAGTCAACTTTGCTCAGTTCAA 59.177 36.000 1.17 0.00 34.60 2.69
2855 2857 0.872021 CTCGGCTATTCCTGCACGAC 60.872 60.000 0.00 0.00 32.76 4.34
2886 2888 2.579873 GCAGTGATGATAATGTGGCCT 58.420 47.619 3.32 0.00 0.00 5.19
2902 2904 0.251354 AGCTCATTCATCACGGCAGT 59.749 50.000 0.00 0.00 0.00 4.40
2994 2996 6.205298 TCTCCATTCCCTCTTCTCTTTATCA 58.795 40.000 0.00 0.00 0.00 2.15
3023 3025 7.042335 GCAAGTTCTAGCTTCTAAATCCACTA 58.958 38.462 0.00 0.00 0.00 2.74
3106 3108 0.616111 GCTGGACCAGGGAGAGAAGA 60.616 60.000 23.09 0.00 31.21 2.87


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.