Multiple sequence alignment - TraesCS6D01G381600

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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 TraesCS6D01G381600 chr6D 100.000 2445 0 0 1 2445 461949373 461946929 0.000000e+00 4516.0
1 TraesCS6D01G381600 chr2D 98.170 2131 34 3 318 2445 49235685 49233557 0.000000e+00 3714.0
2 TraesCS6D01G381600 chr2D 98.122 2130 35 3 320 2445 23034881 23032753 0.000000e+00 3707.0
3 TraesCS6D01G381600 chr2D 95.023 221 11 0 1 221 171789368 171789148 5.000000e-92 348.0
4 TraesCS6D01G381600 chr2D 93.694 222 13 1 1 221 158539953 158540174 5.040000e-87 331.0
5 TraesCS6D01G381600 chr2D 93.665 221 14 0 1 221 171737574 171737354 5.040000e-87 331.0
6 TraesCS6D01G381600 chr1D 98.028 2130 38 2 319 2445 433932745 433934873 0.000000e+00 3698.0
7 TraesCS6D01G381600 chr1D 97.935 2131 38 4 319 2445 19411216 19413344 0.000000e+00 3687.0
8 TraesCS6D01G381600 chr1D 93.213 221 15 0 1 221 429411374 429411154 2.340000e-85 326.0
9 TraesCS6D01G381600 chr5D 98.028 2130 37 3 319 2445 384682528 384680401 0.000000e+00 3696.0
10 TraesCS6D01G381600 chr5D 97.935 2131 40 2 318 2445 495939922 495942051 0.000000e+00 3688.0
11 TraesCS6D01G381600 chr5D 100.000 29 0 0 226 254 501122977 501123005 1.000000e-03 54.7
12 TraesCS6D01G381600 chr5D 100.000 28 0 0 226 253 260903885 260903858 4.000000e-03 52.8
13 TraesCS6D01G381600 chr3D 97.981 2130 39 2 319 2445 511305768 511307896 0.000000e+00 3692.0
14 TraesCS6D01G381600 chr3D 97.934 2130 41 1 319 2445 588147313 588145184 0.000000e+00 3687.0
15 TraesCS6D01G381600 chr7D 97.935 2131 39 3 319 2445 58171417 58173546 0.000000e+00 3687.0
16 TraesCS6D01G381600 chr7D 94.118 221 12 1 1 221 328584359 328584140 3.900000e-88 335.0
17 TraesCS6D01G381600 chr7D 93.694 222 13 1 1 221 218404058 218403837 5.040000e-87 331.0
18 TraesCS6D01G381600 chr4D 95.023 221 11 0 1 221 228972404 228972184 5.000000e-92 348.0
19 TraesCS6D01G381600 chr4D 94.954 218 11 0 4 221 260108709 260108492 2.330000e-90 342.0
20 TraesCS6D01G381600 chr4D 93.213 221 15 0 1 221 63925978 63926198 2.340000e-85 326.0
21 TraesCS6D01G381600 chr3A 100.000 29 0 0 226 254 430795426 430795398 1.000000e-03 54.7


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 TraesCS6D01G381600 chr6D 461946929 461949373 2444 True 4516 4516 100.000 1 2445 1 chr6D.!!$R1 2444
1 TraesCS6D01G381600 chr2D 49233557 49235685 2128 True 3714 3714 98.170 318 2445 1 chr2D.!!$R2 2127
2 TraesCS6D01G381600 chr2D 23032753 23034881 2128 True 3707 3707 98.122 320 2445 1 chr2D.!!$R1 2125
3 TraesCS6D01G381600 chr1D 433932745 433934873 2128 False 3698 3698 98.028 319 2445 1 chr1D.!!$F2 2126
4 TraesCS6D01G381600 chr1D 19411216 19413344 2128 False 3687 3687 97.935 319 2445 1 chr1D.!!$F1 2126
5 TraesCS6D01G381600 chr5D 384680401 384682528 2127 True 3696 3696 98.028 319 2445 1 chr5D.!!$R2 2126
6 TraesCS6D01G381600 chr5D 495939922 495942051 2129 False 3688 3688 97.935 318 2445 1 chr5D.!!$F1 2127
7 TraesCS6D01G381600 chr3D 511305768 511307896 2128 False 3692 3692 97.981 319 2445 1 chr3D.!!$F1 2126
8 TraesCS6D01G381600 chr3D 588145184 588147313 2129 True 3687 3687 97.934 319 2445 1 chr3D.!!$R1 2126
9 TraesCS6D01G381600 chr7D 58171417 58173546 2129 False 3687 3687 97.935 319 2445 1 chr7D.!!$F1 2126

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
221 222 0.03582 GTGGCCCATTACTCCGACAA 60.036 55.0 0.0 0.0 0.0 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1690 1698 0.106769 TGTTTGCCTCAGCCACTTCA 60.107 50.0 0.0 0.0 38.69 3.02 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
17 18 2.105930 CGACTGCTAGGAGCCAGC 59.894 66.667 11.72 0.00 41.51 4.85
18 19 2.503546 GACTGCTAGGAGCCAGCC 59.496 66.667 11.72 0.00 41.51 4.85
19 20 2.040278 ACTGCTAGGAGCCAGCCT 59.960 61.111 11.72 0.00 41.51 4.58
20 21 2.026945 GACTGCTAGGAGCCAGCCTC 62.027 65.000 11.72 0.00 41.51 4.70
21 22 1.761667 CTGCTAGGAGCCAGCCTCT 60.762 63.158 0.00 0.00 41.51 3.69
22 23 1.747325 CTGCTAGGAGCCAGCCTCTC 61.747 65.000 0.00 0.00 41.51 3.20
23 24 1.457455 GCTAGGAGCCAGCCTCTCT 60.457 63.158 0.00 0.00 40.57 3.10
24 25 1.747325 GCTAGGAGCCAGCCTCTCTG 61.747 65.000 0.00 0.00 40.57 3.35
53 54 3.322466 CCAGGAGTTGGCCCGTCT 61.322 66.667 0.00 0.00 40.87 4.18
54 55 2.750350 CAGGAGTTGGCCCGTCTT 59.250 61.111 0.00 0.00 0.00 3.01
55 56 1.672356 CAGGAGTTGGCCCGTCTTG 60.672 63.158 0.00 0.00 0.00 3.02
56 57 2.359975 GGAGTTGGCCCGTCTTGG 60.360 66.667 0.00 0.00 37.55 3.61
57 58 2.747686 GAGTTGGCCCGTCTTGGA 59.252 61.111 0.00 0.00 42.00 3.53
58 59 1.376037 GAGTTGGCCCGTCTTGGAG 60.376 63.158 0.00 0.00 42.00 3.86
59 60 3.056328 GTTGGCCCGTCTTGGAGC 61.056 66.667 0.00 0.00 42.00 4.70
63 64 4.699522 GCCCGTCTTGGAGCCGTT 62.700 66.667 0.00 0.00 42.00 4.44
64 65 2.032071 CCCGTCTTGGAGCCGTTT 59.968 61.111 0.00 0.00 42.00 3.60
65 66 1.599797 CCCGTCTTGGAGCCGTTTT 60.600 57.895 0.00 0.00 42.00 2.43
66 67 1.574702 CCCGTCTTGGAGCCGTTTTC 61.575 60.000 0.00 0.00 42.00 2.29
67 68 0.602905 CCGTCTTGGAGCCGTTTTCT 60.603 55.000 0.00 0.00 42.00 2.52
68 69 1.226746 CGTCTTGGAGCCGTTTTCTT 58.773 50.000 0.00 0.00 0.00 2.52
69 70 2.409975 CGTCTTGGAGCCGTTTTCTTA 58.590 47.619 0.00 0.00 0.00 2.10
70 71 2.803956 CGTCTTGGAGCCGTTTTCTTAA 59.196 45.455 0.00 0.00 0.00 1.85
71 72 3.120649 CGTCTTGGAGCCGTTTTCTTAAG 60.121 47.826 0.00 0.00 0.00 1.85
72 73 2.812011 TCTTGGAGCCGTTTTCTTAAGC 59.188 45.455 0.00 0.00 0.00 3.09
73 74 1.153353 TGGAGCCGTTTTCTTAAGCG 58.847 50.000 0.00 0.00 37.67 4.68
74 75 0.179197 GGAGCCGTTTTCTTAAGCGC 60.179 55.000 0.00 0.00 36.76 5.92
75 76 0.518559 GAGCCGTTTTCTTAAGCGCG 60.519 55.000 0.00 0.00 36.76 6.86
76 77 1.511254 GCCGTTTTCTTAAGCGCGG 60.511 57.895 8.83 16.72 41.79 6.46
77 78 1.511254 CCGTTTTCTTAAGCGCGGC 60.511 57.895 8.83 0.00 36.76 6.53
78 79 1.511254 CGTTTTCTTAAGCGCGGCC 60.511 57.895 8.83 0.00 31.39 6.13
79 80 1.511254 GTTTTCTTAAGCGCGGCCG 60.511 57.895 24.05 24.05 37.57 6.13
80 81 1.962306 TTTTCTTAAGCGCGGCCGT 60.962 52.632 28.70 9.45 36.67 5.68
81 82 1.903783 TTTTCTTAAGCGCGGCCGTC 61.904 55.000 28.70 18.89 36.67 4.79
82 83 2.775032 TTTCTTAAGCGCGGCCGTCT 62.775 55.000 28.70 20.95 36.67 4.18
83 84 2.775032 TTCTTAAGCGCGGCCGTCTT 62.775 55.000 28.70 28.51 35.84 3.01
84 85 2.799540 CTTAAGCGCGGCCGTCTTC 61.800 63.158 28.95 16.23 34.42 2.87
85 86 4.807039 TAAGCGCGGCCGTCTTCC 62.807 66.667 28.95 12.91 34.42 3.46
91 92 4.379243 CGGCCGTCTTCCAGCAGT 62.379 66.667 19.50 0.00 0.00 4.40
92 93 2.435059 GGCCGTCTTCCAGCAGTC 60.435 66.667 0.00 0.00 0.00 3.51
93 94 2.811317 GCCGTCTTCCAGCAGTCG 60.811 66.667 0.00 0.00 0.00 4.18
94 95 2.125912 CCGTCTTCCAGCAGTCGG 60.126 66.667 0.00 0.00 38.77 4.79
95 96 2.651361 CGTCTTCCAGCAGTCGGT 59.349 61.111 0.00 0.00 0.00 4.69
96 97 1.444553 CGTCTTCCAGCAGTCGGTC 60.445 63.158 0.00 0.00 0.00 4.79
97 98 1.444553 GTCTTCCAGCAGTCGGTCG 60.445 63.158 0.00 0.00 0.00 4.79
98 99 1.901948 TCTTCCAGCAGTCGGTCGT 60.902 57.895 0.00 0.00 0.00 4.34
99 100 1.006102 CTTCCAGCAGTCGGTCGTT 60.006 57.895 0.00 0.00 0.00 3.85
100 101 1.006571 TTCCAGCAGTCGGTCGTTC 60.007 57.895 0.00 0.00 0.00 3.95
101 102 2.742710 TTCCAGCAGTCGGTCGTTCG 62.743 60.000 0.00 0.00 0.00 3.95
102 103 2.805353 CAGCAGTCGGTCGTTCGG 60.805 66.667 0.00 0.00 0.00 4.30
103 104 4.719369 AGCAGTCGGTCGTTCGGC 62.719 66.667 0.00 0.00 34.63 5.54
104 105 4.719369 GCAGTCGGTCGTTCGGCT 62.719 66.667 1.91 1.91 46.75 5.52
105 106 2.872557 CAGTCGGTCGTTCGGCTA 59.127 61.111 6.91 0.00 43.74 3.93
106 107 1.226323 CAGTCGGTCGTTCGGCTAG 60.226 63.158 6.91 0.00 43.74 3.42
107 108 2.578981 GTCGGTCGTTCGGCTAGC 60.579 66.667 6.04 6.04 0.00 3.42
108 109 3.818787 TCGGTCGTTCGGCTAGCC 61.819 66.667 24.75 24.75 0.00 3.93
118 119 2.838225 GGCTAGCCGGCTACCAGA 60.838 66.667 32.71 19.34 34.85 3.86
119 120 2.432300 GGCTAGCCGGCTACCAGAA 61.432 63.158 32.71 18.73 34.85 3.02
120 121 1.068250 GCTAGCCGGCTACCAGAAG 59.932 63.158 32.24 23.45 0.00 2.85
121 122 1.742768 CTAGCCGGCTACCAGAAGG 59.257 63.158 32.24 16.68 42.21 3.46
128 129 4.148825 CTACCAGAAGGCGGCGCT 62.149 66.667 32.30 13.54 39.06 5.92
129 130 3.665675 CTACCAGAAGGCGGCGCTT 62.666 63.158 32.30 23.33 39.06 4.68
130 131 3.659089 TACCAGAAGGCGGCGCTTC 62.659 63.158 32.30 28.36 39.06 3.86
132 133 2.821366 CAGAAGGCGGCGCTTCAT 60.821 61.111 32.30 13.58 32.44 2.57
133 134 2.512515 AGAAGGCGGCGCTTCATC 60.513 61.111 32.30 19.35 32.44 2.92
134 135 2.512515 GAAGGCGGCGCTTCATCT 60.513 61.111 32.30 16.98 0.00 2.90
135 136 2.045926 AAGGCGGCGCTTCATCTT 60.046 55.556 32.30 21.95 0.00 2.40
136 137 2.315038 GAAGGCGGCGCTTCATCTTG 62.315 60.000 32.30 0.00 0.00 3.02
137 138 2.803155 AAGGCGGCGCTTCATCTTGA 62.803 55.000 32.30 0.00 0.00 3.02
138 139 2.401195 GCGGCGCTTCATCTTGAC 59.599 61.111 26.86 0.00 0.00 3.18
139 140 2.697425 CGGCGCTTCATCTTGACG 59.303 61.111 7.64 0.00 0.00 4.35
140 141 2.094659 CGGCGCTTCATCTTGACGT 61.095 57.895 7.64 0.00 0.00 4.34
141 142 1.710339 GGCGCTTCATCTTGACGTC 59.290 57.895 9.11 9.11 0.00 4.34
142 143 0.737715 GGCGCTTCATCTTGACGTCT 60.738 55.000 17.92 0.00 0.00 4.18
143 144 1.071605 GCGCTTCATCTTGACGTCTT 58.928 50.000 17.92 0.00 0.00 3.01
144 145 1.201855 GCGCTTCATCTTGACGTCTTG 60.202 52.381 17.92 9.44 0.00 3.02
145 146 2.328473 CGCTTCATCTTGACGTCTTGA 58.672 47.619 17.92 14.52 0.00 3.02
146 147 2.343843 CGCTTCATCTTGACGTCTTGAG 59.656 50.000 17.92 11.85 0.00 3.02
147 148 2.670414 GCTTCATCTTGACGTCTTGAGG 59.330 50.000 17.92 15.43 0.00 3.86
148 149 3.257393 CTTCATCTTGACGTCTTGAGGG 58.743 50.000 17.92 10.73 0.00 4.30
149 150 1.550524 TCATCTTGACGTCTTGAGGGG 59.449 52.381 17.92 8.59 0.00 4.79
150 151 0.250513 ATCTTGACGTCTTGAGGGGC 59.749 55.000 17.92 0.00 0.00 5.80
151 152 1.738099 CTTGACGTCTTGAGGGGCG 60.738 63.158 17.92 0.00 0.00 6.13
152 153 3.876589 TTGACGTCTTGAGGGGCGC 62.877 63.158 17.92 0.00 0.00 6.53
153 154 4.373116 GACGTCTTGAGGGGCGCA 62.373 66.667 10.83 0.00 0.00 6.09
154 155 4.379243 ACGTCTTGAGGGGCGCAG 62.379 66.667 10.83 0.00 0.00 5.18
176 177 2.101700 GCCTCGATGCCTCAAAAGG 58.898 57.895 0.58 0.00 46.44 3.11
177 178 0.678048 GCCTCGATGCCTCAAAAGGT 60.678 55.000 0.58 0.00 45.34 3.50
178 179 1.826385 CCTCGATGCCTCAAAAGGTT 58.174 50.000 0.00 0.00 45.34 3.50
179 180 1.740025 CCTCGATGCCTCAAAAGGTTC 59.260 52.381 0.00 0.00 45.34 3.62
180 181 2.616510 CCTCGATGCCTCAAAAGGTTCT 60.617 50.000 0.00 0.00 45.34 3.01
181 182 2.417933 CTCGATGCCTCAAAAGGTTCTG 59.582 50.000 0.00 0.00 45.34 3.02
182 183 1.470098 CGATGCCTCAAAAGGTTCTGG 59.530 52.381 0.00 0.00 45.34 3.86
183 184 1.821136 GATGCCTCAAAAGGTTCTGGG 59.179 52.381 0.00 0.00 45.34 4.45
184 185 0.178964 TGCCTCAAAAGGTTCTGGGG 60.179 55.000 0.00 0.00 45.34 4.96
185 186 2.658548 CCTCAAAAGGTTCTGGGGC 58.341 57.895 0.00 0.00 37.94 5.80
186 187 0.113190 CCTCAAAAGGTTCTGGGGCT 59.887 55.000 0.00 0.00 37.94 5.19
187 188 1.539157 CTCAAAAGGTTCTGGGGCTC 58.461 55.000 0.00 0.00 0.00 4.70
188 189 0.250727 TCAAAAGGTTCTGGGGCTCG 60.251 55.000 0.00 0.00 0.00 5.03
189 190 1.074951 AAAAGGTTCTGGGGCTCGG 59.925 57.895 0.00 0.00 0.00 4.63
190 191 2.426305 AAAAGGTTCTGGGGCTCGGG 62.426 60.000 0.00 0.00 0.00 5.14
191 192 4.658786 AGGTTCTGGGGCTCGGGT 62.659 66.667 0.00 0.00 0.00 5.28
192 193 3.647771 GGTTCTGGGGCTCGGGTT 61.648 66.667 0.00 0.00 0.00 4.11
193 194 2.295602 GGTTCTGGGGCTCGGGTTA 61.296 63.158 0.00 0.00 0.00 2.85
194 195 1.221021 GTTCTGGGGCTCGGGTTAG 59.779 63.158 0.00 0.00 0.00 2.34
195 196 1.993391 TTCTGGGGCTCGGGTTAGG 60.993 63.158 0.00 0.00 0.00 2.69
196 197 4.176752 CTGGGGCTCGGGTTAGGC 62.177 72.222 0.00 0.00 41.17 3.93
197 198 4.733725 TGGGGCTCGGGTTAGGCT 62.734 66.667 0.00 0.00 41.59 4.58
198 199 2.445274 GGGGCTCGGGTTAGGCTA 60.445 66.667 0.00 0.00 41.59 3.93
199 200 2.804912 GGGGCTCGGGTTAGGCTAC 61.805 68.421 0.00 0.00 41.59 3.58
200 201 2.804912 GGGCTCGGGTTAGGCTACC 61.805 68.421 0.00 0.00 41.59 3.18
206 207 2.188731 GGTTAGGCTACCCGTGGC 59.811 66.667 0.00 0.00 35.76 5.01
212 213 2.912714 GCTACCCGTGGCCCATTA 59.087 61.111 0.00 0.00 0.00 1.90
213 214 1.525306 GCTACCCGTGGCCCATTAC 60.525 63.158 0.00 0.00 0.00 1.89
214 215 1.979619 GCTACCCGTGGCCCATTACT 61.980 60.000 0.00 0.00 0.00 2.24
215 216 0.106149 CTACCCGTGGCCCATTACTC 59.894 60.000 0.00 0.00 0.00 2.59
216 217 1.339644 TACCCGTGGCCCATTACTCC 61.340 60.000 0.00 0.00 0.00 3.85
217 218 2.203015 CCGTGGCCCATTACTCCG 60.203 66.667 0.00 0.00 0.00 4.63
218 219 2.727392 CCGTGGCCCATTACTCCGA 61.727 63.158 0.00 0.00 0.00 4.55
219 220 1.520787 CGTGGCCCATTACTCCGAC 60.521 63.158 0.00 0.00 0.00 4.79
220 221 1.600107 GTGGCCCATTACTCCGACA 59.400 57.895 0.00 0.00 0.00 4.35
221 222 0.035820 GTGGCCCATTACTCCGACAA 60.036 55.000 0.00 0.00 0.00 3.18
222 223 0.251916 TGGCCCATTACTCCGACAAG 59.748 55.000 0.00 0.00 0.00 3.16
223 224 0.539986 GGCCCATTACTCCGACAAGA 59.460 55.000 0.00 0.00 0.00 3.02
224 225 1.141053 GGCCCATTACTCCGACAAGAT 59.859 52.381 0.00 0.00 0.00 2.40
225 226 2.421529 GGCCCATTACTCCGACAAGATT 60.422 50.000 0.00 0.00 0.00 2.40
226 227 2.872858 GCCCATTACTCCGACAAGATTC 59.127 50.000 0.00 0.00 0.00 2.52
227 228 3.432326 GCCCATTACTCCGACAAGATTCT 60.432 47.826 0.00 0.00 0.00 2.40
228 229 4.770795 CCCATTACTCCGACAAGATTCTT 58.229 43.478 0.00 0.00 0.00 2.52
229 230 5.684030 GCCCATTACTCCGACAAGATTCTTA 60.684 44.000 0.00 0.00 0.00 2.10
230 231 6.525629 CCCATTACTCCGACAAGATTCTTAT 58.474 40.000 0.00 0.00 0.00 1.73
231 232 7.667557 CCCATTACTCCGACAAGATTCTTATA 58.332 38.462 0.00 0.00 0.00 0.98
232 233 8.314751 CCCATTACTCCGACAAGATTCTTATAT 58.685 37.037 0.00 0.00 0.00 0.86
233 234 9.712305 CCATTACTCCGACAAGATTCTTATATT 57.288 33.333 0.00 0.00 0.00 1.28
238 239 9.892130 ACTCCGACAAGATTCTTATATTTCTTT 57.108 29.630 0.00 0.00 0.00 2.52
256 257 7.759489 TTTCTTTACGGAGGTAGTACTAACA 57.241 36.000 19.94 0.00 0.00 2.41
257 258 7.944729 TTCTTTACGGAGGTAGTACTAACAT 57.055 36.000 19.94 5.26 0.00 2.71
258 259 9.461312 TTTCTTTACGGAGGTAGTACTAACATA 57.539 33.333 19.94 4.26 0.00 2.29
259 260 8.668510 TCTTTACGGAGGTAGTACTAACATAG 57.331 38.462 19.94 11.85 0.00 2.23
260 261 8.267894 TCTTTACGGAGGTAGTACTAACATAGT 58.732 37.037 19.94 16.40 42.68 2.12
261 262 8.807948 TTTACGGAGGTAGTACTAACATAGTT 57.192 34.615 19.94 0.00 40.14 2.24
262 263 6.934048 ACGGAGGTAGTACTAACATAGTTC 57.066 41.667 19.94 8.00 40.14 3.01
263 264 6.418101 ACGGAGGTAGTACTAACATAGTTCA 58.582 40.000 19.94 0.00 40.14 3.18
264 265 6.886459 ACGGAGGTAGTACTAACATAGTTCAA 59.114 38.462 19.94 0.00 40.14 2.69
265 266 7.066766 ACGGAGGTAGTACTAACATAGTTCAAG 59.933 40.741 19.94 8.47 40.14 3.02
266 267 7.201835 GGAGGTAGTACTAACATAGTTCAAGC 58.798 42.308 19.94 0.00 40.14 4.01
267 268 7.147949 GGAGGTAGTACTAACATAGTTCAAGCA 60.148 40.741 19.94 0.00 40.14 3.91
268 269 8.307582 AGGTAGTACTAACATAGTTCAAGCAT 57.692 34.615 19.94 0.00 40.14 3.79
269 270 8.759782 AGGTAGTACTAACATAGTTCAAGCATT 58.240 33.333 19.94 0.00 40.14 3.56
270 271 9.379791 GGTAGTACTAACATAGTTCAAGCATTT 57.620 33.333 13.24 0.00 40.14 2.32
276 277 9.062524 ACTAACATAGTTCAAGCATTTTACACA 57.937 29.630 0.00 0.00 34.86 3.72
294 295 5.818136 ACACATATGTAACATCCAACTGC 57.182 39.130 8.32 0.00 37.26 4.40
295 296 5.252547 ACACATATGTAACATCCAACTGCA 58.747 37.500 8.32 0.00 37.26 4.41
296 297 5.709631 ACACATATGTAACATCCAACTGCAA 59.290 36.000 8.32 0.00 37.26 4.08
297 298 6.377996 ACACATATGTAACATCCAACTGCAAT 59.622 34.615 8.32 0.00 37.26 3.56
298 299 7.093814 ACACATATGTAACATCCAACTGCAATT 60.094 33.333 8.32 0.00 37.26 2.32
299 300 8.404765 CACATATGTAACATCCAACTGCAATTA 58.595 33.333 8.32 0.00 0.00 1.40
300 301 8.965819 ACATATGTAACATCCAACTGCAATTAA 58.034 29.630 6.56 0.00 0.00 1.40
301 302 9.454585 CATATGTAACATCCAACTGCAATTAAG 57.545 33.333 0.00 0.00 0.00 1.85
302 303 5.708948 TGTAACATCCAACTGCAATTAAGC 58.291 37.500 0.00 0.00 0.00 3.09
303 304 3.874392 ACATCCAACTGCAATTAAGCC 57.126 42.857 0.00 0.00 0.00 4.35
304 305 3.434309 ACATCCAACTGCAATTAAGCCT 58.566 40.909 0.00 0.00 0.00 4.58
305 306 3.445096 ACATCCAACTGCAATTAAGCCTC 59.555 43.478 0.00 0.00 0.00 4.70
306 307 3.153369 TCCAACTGCAATTAAGCCTCA 57.847 42.857 0.00 0.00 0.00 3.86
307 308 2.819608 TCCAACTGCAATTAAGCCTCAC 59.180 45.455 0.00 0.00 0.00 3.51
308 309 2.557924 CCAACTGCAATTAAGCCTCACA 59.442 45.455 0.00 0.00 0.00 3.58
309 310 3.194116 CCAACTGCAATTAAGCCTCACAT 59.806 43.478 0.00 0.00 0.00 3.21
310 311 4.322198 CCAACTGCAATTAAGCCTCACATT 60.322 41.667 0.00 0.00 0.00 2.71
311 312 4.708726 ACTGCAATTAAGCCTCACATTC 57.291 40.909 0.00 0.00 0.00 2.67
312 313 4.081406 ACTGCAATTAAGCCTCACATTCA 58.919 39.130 0.00 0.00 0.00 2.57
313 314 4.708421 ACTGCAATTAAGCCTCACATTCAT 59.292 37.500 0.00 0.00 0.00 2.57
314 315 5.887598 ACTGCAATTAAGCCTCACATTCATA 59.112 36.000 0.00 0.00 0.00 2.15
315 316 6.548622 ACTGCAATTAAGCCTCACATTCATAT 59.451 34.615 0.00 0.00 0.00 1.78
316 317 7.720957 ACTGCAATTAAGCCTCACATTCATATA 59.279 33.333 0.00 0.00 0.00 0.86
564 565 2.359975 GGCTTGAACCGGGACCAG 60.360 66.667 6.32 1.40 0.00 4.00
671 672 2.856222 AGTGCTCTGTTTTTCTCTGGG 58.144 47.619 0.00 0.00 0.00 4.45
690 691 3.087906 GGCGAGGGGAGGGCTTTA 61.088 66.667 0.00 0.00 0.00 1.85
1360 1365 3.642755 GCCATTCATACCGAGGCG 58.357 61.111 0.00 0.00 35.42 5.52
1430 1435 2.057316 TCGCATTTGTTTTCGCATTGG 58.943 42.857 0.00 0.00 0.00 3.16
1690 1698 1.549203 AGGGCGTGCATGATTTTCTT 58.451 45.000 10.93 0.00 0.00 2.52
1840 1848 4.816385 CACTATAATGTTTGGACGAGGCAT 59.184 41.667 0.00 0.00 0.00 4.40
1937 1945 2.668632 CTGCAACGGGGGAAGCTA 59.331 61.111 0.00 0.00 0.00 3.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.105930 GCTGGCTCCTAGCAGTCG 59.894 66.667 0.78 0.00 44.75 4.18
1 2 2.026945 GAGGCTGGCTCCTAGCAGTC 62.027 65.000 19.61 0.00 44.75 3.51
2 3 2.040278 AGGCTGGCTCCTAGCAGT 59.960 61.111 0.00 0.00 44.75 4.40
3 4 1.747325 GAGAGGCTGGCTCCTAGCAG 61.747 65.000 25.49 0.00 44.75 4.24
4 5 1.760086 GAGAGGCTGGCTCCTAGCA 60.760 63.158 25.49 0.00 44.75 3.49
5 6 1.457455 AGAGAGGCTGGCTCCTAGC 60.457 63.158 25.49 13.67 41.46 3.42
6 7 2.428834 CAGAGAGGCTGGCTCCTAG 58.571 63.158 25.49 12.75 41.07 3.02
7 8 4.695014 CAGAGAGGCTGGCTCCTA 57.305 61.111 25.49 0.00 41.07 2.94
37 38 1.672356 CAAGACGGGCCAACTCCTG 60.672 63.158 4.39 0.00 38.47 3.86
38 39 2.750350 CAAGACGGGCCAACTCCT 59.250 61.111 4.39 0.00 0.00 3.69
39 40 2.359975 CCAAGACGGGCCAACTCC 60.360 66.667 4.39 0.00 0.00 3.85
40 41 1.376037 CTCCAAGACGGGCCAACTC 60.376 63.158 4.39 0.00 34.36 3.01
41 42 2.750350 CTCCAAGACGGGCCAACT 59.250 61.111 4.39 0.00 34.36 3.16
42 43 3.056328 GCTCCAAGACGGGCCAAC 61.056 66.667 4.39 0.00 34.36 3.77
43 44 4.344865 GGCTCCAAGACGGGCCAA 62.345 66.667 4.39 0.00 45.63 4.52
50 51 3.365064 GCTTAAGAAAACGGCTCCAAGAC 60.365 47.826 6.67 0.00 0.00 3.01
51 52 2.812011 GCTTAAGAAAACGGCTCCAAGA 59.188 45.455 6.67 0.00 0.00 3.02
52 53 2.412847 CGCTTAAGAAAACGGCTCCAAG 60.413 50.000 6.67 0.00 0.00 3.61
53 54 1.533731 CGCTTAAGAAAACGGCTCCAA 59.466 47.619 6.67 0.00 0.00 3.53
54 55 1.153353 CGCTTAAGAAAACGGCTCCA 58.847 50.000 6.67 0.00 0.00 3.86
55 56 0.179197 GCGCTTAAGAAAACGGCTCC 60.179 55.000 6.67 0.00 0.00 4.70
56 57 0.518559 CGCGCTTAAGAAAACGGCTC 60.519 55.000 6.67 0.00 0.00 4.70
57 58 1.495951 CGCGCTTAAGAAAACGGCT 59.504 52.632 6.67 0.00 0.00 5.52
58 59 1.511254 CCGCGCTTAAGAAAACGGC 60.511 57.895 6.67 0.00 33.46 5.68
59 60 1.511254 GCCGCGCTTAAGAAAACGG 60.511 57.895 6.67 13.20 43.37 4.44
60 61 1.511254 GGCCGCGCTTAAGAAAACG 60.511 57.895 6.67 0.96 0.00 3.60
61 62 1.511254 CGGCCGCGCTTAAGAAAAC 60.511 57.895 14.67 0.00 0.00 2.43
62 63 1.903783 GACGGCCGCGCTTAAGAAAA 61.904 55.000 28.58 0.00 0.00 2.29
63 64 2.357760 ACGGCCGCGCTTAAGAAA 60.358 55.556 28.58 0.00 0.00 2.52
64 65 2.775032 AAGACGGCCGCGCTTAAGAA 62.775 55.000 28.58 0.00 0.00 2.52
65 66 3.291101 AAGACGGCCGCGCTTAAGA 62.291 57.895 28.58 0.00 0.00 2.10
66 67 2.799540 GAAGACGGCCGCGCTTAAG 61.800 63.158 28.58 0.00 0.00 1.85
67 68 2.812178 GAAGACGGCCGCGCTTAA 60.812 61.111 28.58 0.00 0.00 1.85
68 69 4.807039 GGAAGACGGCCGCGCTTA 62.807 66.667 28.58 0.00 0.00 3.09
77 78 2.125912 CCGACTGCTGGAAGACGG 60.126 66.667 5.24 5.24 46.08 4.79
78 79 1.444553 GACCGACTGCTGGAAGACG 60.445 63.158 0.00 0.00 34.07 4.18
79 80 1.444553 CGACCGACTGCTGGAAGAC 60.445 63.158 0.00 0.00 34.07 3.01
80 81 1.461091 AACGACCGACTGCTGGAAGA 61.461 55.000 0.00 0.00 34.07 2.87
81 82 1.006102 AACGACCGACTGCTGGAAG 60.006 57.895 0.00 0.00 0.00 3.46
82 83 1.006571 GAACGACCGACTGCTGGAA 60.007 57.895 0.00 0.00 0.00 3.53
83 84 2.649034 GAACGACCGACTGCTGGA 59.351 61.111 0.00 0.00 0.00 3.86
84 85 2.805353 CGAACGACCGACTGCTGG 60.805 66.667 0.00 0.00 0.00 4.85
85 86 2.805353 CCGAACGACCGACTGCTG 60.805 66.667 0.00 0.00 0.00 4.41
86 87 4.719369 GCCGAACGACCGACTGCT 62.719 66.667 0.00 0.00 0.00 4.24
87 88 3.332493 TAGCCGAACGACCGACTGC 62.332 63.158 0.00 0.00 0.00 4.40
88 89 1.226323 CTAGCCGAACGACCGACTG 60.226 63.158 0.00 0.00 0.00 3.51
89 90 3.048941 GCTAGCCGAACGACCGACT 62.049 63.158 2.29 0.00 0.00 4.18
90 91 2.578981 GCTAGCCGAACGACCGAC 60.579 66.667 2.29 0.00 0.00 4.79
91 92 3.818787 GGCTAGCCGAACGACCGA 61.819 66.667 20.16 0.00 0.00 4.69
101 102 2.370647 CTTCTGGTAGCCGGCTAGCC 62.371 65.000 45.60 38.27 43.92 3.93
102 103 1.068250 CTTCTGGTAGCCGGCTAGC 59.932 63.158 44.13 44.13 44.56 3.42
103 104 1.742768 CCTTCTGGTAGCCGGCTAG 59.257 63.158 36.09 26.16 0.00 3.42
104 105 2.432300 GCCTTCTGGTAGCCGGCTA 61.432 63.158 32.24 32.24 37.76 3.93
105 106 3.787001 GCCTTCTGGTAGCCGGCT 61.787 66.667 34.85 34.85 37.76 5.52
107 108 4.530857 CCGCCTTCTGGTAGCCGG 62.531 72.222 0.00 0.00 35.27 6.13
111 112 3.665675 AAGCGCCGCCTTCTGGTAG 62.666 63.158 4.98 0.00 35.27 3.18
112 113 3.659089 GAAGCGCCGCCTTCTGGTA 62.659 63.158 4.98 0.00 38.50 3.25
115 116 2.817423 GATGAAGCGCCGCCTTCTG 61.817 63.158 4.98 0.00 41.36 3.02
116 117 2.512515 GATGAAGCGCCGCCTTCT 60.513 61.111 4.98 0.00 41.36 2.85
117 118 2.109126 AAGATGAAGCGCCGCCTTC 61.109 57.895 4.98 9.82 41.21 3.46
118 119 2.045926 AAGATGAAGCGCCGCCTT 60.046 55.556 4.98 0.00 0.00 4.35
119 120 2.821366 CAAGATGAAGCGCCGCCT 60.821 61.111 4.98 0.00 0.00 5.52
120 121 2.819595 TCAAGATGAAGCGCCGCC 60.820 61.111 4.98 0.00 0.00 6.13
121 122 2.401195 GTCAAGATGAAGCGCCGC 59.599 61.111 2.29 0.00 0.00 6.53
122 123 2.014093 GACGTCAAGATGAAGCGCCG 62.014 60.000 11.55 0.00 28.70 6.46
123 124 0.737715 AGACGTCAAGATGAAGCGCC 60.738 55.000 19.50 0.00 28.70 6.53
124 125 1.071605 AAGACGTCAAGATGAAGCGC 58.928 50.000 19.50 0.00 28.70 5.92
125 126 2.328473 TCAAGACGTCAAGATGAAGCG 58.672 47.619 19.50 0.00 28.70 4.68
126 127 2.670414 CCTCAAGACGTCAAGATGAAGC 59.330 50.000 19.50 0.00 28.70 3.86
127 128 3.257393 CCCTCAAGACGTCAAGATGAAG 58.743 50.000 19.50 9.75 32.10 3.02
128 129 2.028112 CCCCTCAAGACGTCAAGATGAA 60.028 50.000 19.50 1.59 0.00 2.57
129 130 1.550524 CCCCTCAAGACGTCAAGATGA 59.449 52.381 19.50 14.45 0.00 2.92
130 131 2.009042 GCCCCTCAAGACGTCAAGATG 61.009 57.143 19.50 11.30 0.00 2.90
131 132 0.250513 GCCCCTCAAGACGTCAAGAT 59.749 55.000 19.50 0.00 0.00 2.40
132 133 1.671742 GCCCCTCAAGACGTCAAGA 59.328 57.895 19.50 13.62 0.00 3.02
133 134 1.738099 CGCCCCTCAAGACGTCAAG 60.738 63.158 19.50 11.60 0.00 3.02
134 135 2.342279 CGCCCCTCAAGACGTCAA 59.658 61.111 19.50 1.52 0.00 3.18
135 136 4.373116 GCGCCCCTCAAGACGTCA 62.373 66.667 19.50 0.00 0.00 4.35
136 137 4.373116 TGCGCCCCTCAAGACGTC 62.373 66.667 7.70 7.70 0.00 4.34
137 138 4.379243 CTGCGCCCCTCAAGACGT 62.379 66.667 4.18 0.00 0.00 4.34
158 159 0.678048 ACCTTTTGAGGCATCGAGGC 60.678 55.000 14.84 14.84 44.61 4.70
159 160 1.740025 GAACCTTTTGAGGCATCGAGG 59.260 52.381 12.05 12.05 0.00 4.63
160 161 2.417933 CAGAACCTTTTGAGGCATCGAG 59.582 50.000 0.00 0.00 0.00 4.04
161 162 2.426522 CAGAACCTTTTGAGGCATCGA 58.573 47.619 0.00 0.00 0.00 3.59
162 163 1.470098 CCAGAACCTTTTGAGGCATCG 59.530 52.381 0.00 0.00 0.00 3.84
163 164 1.821136 CCCAGAACCTTTTGAGGCATC 59.179 52.381 0.00 0.00 0.00 3.91
164 165 1.550869 CCCCAGAACCTTTTGAGGCAT 60.551 52.381 0.00 0.00 0.00 4.40
165 166 0.178964 CCCCAGAACCTTTTGAGGCA 60.179 55.000 0.00 0.00 0.00 4.75
166 167 1.536073 GCCCCAGAACCTTTTGAGGC 61.536 60.000 0.00 0.00 0.00 4.70
167 168 0.113190 AGCCCCAGAACCTTTTGAGG 59.887 55.000 0.00 0.00 0.00 3.86
168 169 1.539157 GAGCCCCAGAACCTTTTGAG 58.461 55.000 0.00 0.00 0.00 3.02
169 170 0.250727 CGAGCCCCAGAACCTTTTGA 60.251 55.000 0.00 0.00 0.00 2.69
170 171 1.244019 CCGAGCCCCAGAACCTTTTG 61.244 60.000 0.00 0.00 0.00 2.44
171 172 1.074951 CCGAGCCCCAGAACCTTTT 59.925 57.895 0.00 0.00 0.00 2.27
172 173 2.757077 CCGAGCCCCAGAACCTTT 59.243 61.111 0.00 0.00 0.00 3.11
173 174 3.330720 CCCGAGCCCCAGAACCTT 61.331 66.667 0.00 0.00 0.00 3.50
174 175 2.758852 TAACCCGAGCCCCAGAACCT 62.759 60.000 0.00 0.00 0.00 3.50
175 176 2.253403 CTAACCCGAGCCCCAGAACC 62.253 65.000 0.00 0.00 0.00 3.62
176 177 1.221021 CTAACCCGAGCCCCAGAAC 59.779 63.158 0.00 0.00 0.00 3.01
177 178 1.993391 CCTAACCCGAGCCCCAGAA 60.993 63.158 0.00 0.00 0.00 3.02
178 179 2.365105 CCTAACCCGAGCCCCAGA 60.365 66.667 0.00 0.00 0.00 3.86
179 180 4.176752 GCCTAACCCGAGCCCCAG 62.177 72.222 0.00 0.00 0.00 4.45
180 181 3.320411 TAGCCTAACCCGAGCCCCA 62.320 63.158 0.00 0.00 0.00 4.96
181 182 2.445274 TAGCCTAACCCGAGCCCC 60.445 66.667 0.00 0.00 0.00 5.80
182 183 2.804912 GGTAGCCTAACCCGAGCCC 61.805 68.421 0.00 0.00 33.02 5.19
183 184 2.820261 GGTAGCCTAACCCGAGCC 59.180 66.667 0.00 0.00 33.02 4.70
189 190 2.188731 GCCACGGGTAGCCTAACC 59.811 66.667 9.73 0.00 38.94 2.85
190 191 2.188731 GGCCACGGGTAGCCTAAC 59.811 66.667 9.73 0.00 46.14 2.34
195 196 1.525306 GTAATGGGCCACGGGTAGC 60.525 63.158 9.28 0.00 0.00 3.58
196 197 0.106149 GAGTAATGGGCCACGGGTAG 59.894 60.000 9.28 0.00 0.00 3.18
197 198 1.339644 GGAGTAATGGGCCACGGGTA 61.340 60.000 9.28 0.00 0.00 3.69
198 199 2.676265 GGAGTAATGGGCCACGGGT 61.676 63.158 9.28 0.00 0.00 5.28
199 200 2.192175 GGAGTAATGGGCCACGGG 59.808 66.667 9.28 0.00 0.00 5.28
200 201 2.203015 CGGAGTAATGGGCCACGG 60.203 66.667 9.28 0.00 0.00 4.94
201 202 1.520787 GTCGGAGTAATGGGCCACG 60.521 63.158 9.28 7.06 0.00 4.94
202 203 0.035820 TTGTCGGAGTAATGGGCCAC 60.036 55.000 9.28 0.00 0.00 5.01
203 204 0.251916 CTTGTCGGAGTAATGGGCCA 59.748 55.000 9.61 9.61 0.00 5.36
204 205 0.539986 TCTTGTCGGAGTAATGGGCC 59.460 55.000 0.00 0.00 0.00 5.80
205 206 2.622064 ATCTTGTCGGAGTAATGGGC 57.378 50.000 0.00 0.00 0.00 5.36
206 207 4.408182 AGAATCTTGTCGGAGTAATGGG 57.592 45.455 0.00 0.00 0.00 4.00
207 208 9.712305 AATATAAGAATCTTGTCGGAGTAATGG 57.288 33.333 5.64 0.00 0.00 3.16
212 213 9.892130 AAAGAAATATAAGAATCTTGTCGGAGT 57.108 29.630 5.64 0.00 32.72 3.85
230 231 9.461312 TGTTAGTACTACCTCCGTAAAGAAATA 57.539 33.333 0.91 0.00 0.00 1.40
231 232 8.353423 TGTTAGTACTACCTCCGTAAAGAAAT 57.647 34.615 0.91 0.00 0.00 2.17
232 233 7.759489 TGTTAGTACTACCTCCGTAAAGAAA 57.241 36.000 0.91 0.00 0.00 2.52
233 234 7.944729 ATGTTAGTACTACCTCCGTAAAGAA 57.055 36.000 0.91 0.00 0.00 2.52
234 235 8.267894 ACTATGTTAGTACTACCTCCGTAAAGA 58.732 37.037 0.91 0.00 37.23 2.52
235 236 8.443953 ACTATGTTAGTACTACCTCCGTAAAG 57.556 38.462 0.91 0.00 37.23 1.85
236 237 8.807948 AACTATGTTAGTACTACCTCCGTAAA 57.192 34.615 0.91 0.00 38.26 2.01
237 238 8.046708 TGAACTATGTTAGTACTACCTCCGTAA 58.953 37.037 0.91 0.00 38.26 3.18
238 239 7.564793 TGAACTATGTTAGTACTACCTCCGTA 58.435 38.462 0.91 0.00 38.26 4.02
239 240 6.418101 TGAACTATGTTAGTACTACCTCCGT 58.582 40.000 0.91 0.00 38.26 4.69
240 241 6.932356 TGAACTATGTTAGTACTACCTCCG 57.068 41.667 0.91 0.00 38.26 4.63
241 242 7.147949 TGCTTGAACTATGTTAGTACTACCTCC 60.148 40.741 0.91 0.00 38.26 4.30
242 243 7.769220 TGCTTGAACTATGTTAGTACTACCTC 58.231 38.462 0.91 0.00 38.26 3.85
243 244 7.713734 TGCTTGAACTATGTTAGTACTACCT 57.286 36.000 0.91 0.00 38.26 3.08
244 245 8.943909 AATGCTTGAACTATGTTAGTACTACC 57.056 34.615 0.91 0.00 38.26 3.18
250 251 9.062524 TGTGTAAAATGCTTGAACTATGTTAGT 57.937 29.630 0.00 0.00 41.73 2.24
270 271 6.881602 TGCAGTTGGATGTTACATATGTGTAA 59.118 34.615 18.81 10.66 45.89 2.41
271 272 6.410540 TGCAGTTGGATGTTACATATGTGTA 58.589 36.000 18.81 3.56 39.77 2.90
272 273 5.252547 TGCAGTTGGATGTTACATATGTGT 58.747 37.500 18.81 0.00 42.39 3.72
273 274 5.816449 TGCAGTTGGATGTTACATATGTG 57.184 39.130 18.81 0.00 0.00 3.21
274 275 7.408756 AATTGCAGTTGGATGTTACATATGT 57.591 32.000 13.93 13.93 0.00 2.29
275 276 9.454585 CTTAATTGCAGTTGGATGTTACATATG 57.545 33.333 4.47 0.00 0.00 1.78
276 277 8.137437 GCTTAATTGCAGTTGGATGTTACATAT 58.863 33.333 4.47 0.00 0.00 1.78
277 278 7.416213 GGCTTAATTGCAGTTGGATGTTACATA 60.416 37.037 4.47 0.00 34.04 2.29
278 279 6.332630 GCTTAATTGCAGTTGGATGTTACAT 58.667 36.000 4.47 0.00 0.00 2.29
279 280 5.336372 GGCTTAATTGCAGTTGGATGTTACA 60.336 40.000 4.47 0.00 34.04 2.41
280 281 5.102313 GGCTTAATTGCAGTTGGATGTTAC 58.898 41.667 4.47 0.00 34.04 2.50
281 282 5.016173 AGGCTTAATTGCAGTTGGATGTTA 58.984 37.500 4.47 0.00 34.04 2.41
282 283 3.834231 AGGCTTAATTGCAGTTGGATGTT 59.166 39.130 4.47 0.00 34.04 2.71
283 284 3.434309 AGGCTTAATTGCAGTTGGATGT 58.566 40.909 4.47 0.00 34.04 3.06
284 285 3.444742 TGAGGCTTAATTGCAGTTGGATG 59.555 43.478 4.47 0.00 34.04 3.51
285 286 3.445096 GTGAGGCTTAATTGCAGTTGGAT 59.555 43.478 4.47 0.00 34.04 3.41
286 287 2.819608 GTGAGGCTTAATTGCAGTTGGA 59.180 45.455 4.47 0.00 34.04 3.53
287 288 2.557924 TGTGAGGCTTAATTGCAGTTGG 59.442 45.455 4.47 0.00 34.04 3.77
288 289 3.921119 TGTGAGGCTTAATTGCAGTTG 57.079 42.857 4.47 0.00 34.04 3.16
289 290 4.523943 TGAATGTGAGGCTTAATTGCAGTT 59.476 37.500 0.00 0.00 34.04 3.16
290 291 4.081406 TGAATGTGAGGCTTAATTGCAGT 58.919 39.130 0.00 0.00 34.04 4.40
291 292 4.707030 TGAATGTGAGGCTTAATTGCAG 57.293 40.909 0.00 0.00 34.04 4.41
292 293 6.964807 ATATGAATGTGAGGCTTAATTGCA 57.035 33.333 0.00 0.00 34.04 4.08
293 294 8.352201 TGTTATATGAATGTGAGGCTTAATTGC 58.648 33.333 0.00 0.00 0.00 3.56
294 295 9.669353 GTGTTATATGAATGTGAGGCTTAATTG 57.331 33.333 0.00 0.00 0.00 2.32
295 296 9.632638 AGTGTTATATGAATGTGAGGCTTAATT 57.367 29.630 0.00 0.00 0.00 1.40
297 298 9.764363 CTAGTGTTATATGAATGTGAGGCTTAA 57.236 33.333 0.00 0.00 0.00 1.85
298 299 8.924303 ACTAGTGTTATATGAATGTGAGGCTTA 58.076 33.333 0.00 0.00 0.00 3.09
299 300 7.796054 ACTAGTGTTATATGAATGTGAGGCTT 58.204 34.615 0.00 0.00 0.00 4.35
300 301 7.366847 ACTAGTGTTATATGAATGTGAGGCT 57.633 36.000 0.00 0.00 0.00 4.58
301 302 8.577296 TCTACTAGTGTTATATGAATGTGAGGC 58.423 37.037 5.39 0.00 0.00 4.70
310 311 8.639761 GCCCTCTTTTCTACTAGTGTTATATGA 58.360 37.037 5.39 0.00 0.00 2.15
311 312 8.643324 AGCCCTCTTTTCTACTAGTGTTATATG 58.357 37.037 5.39 0.00 0.00 1.78
312 313 8.785184 AGCCCTCTTTTCTACTAGTGTTATAT 57.215 34.615 5.39 0.00 0.00 0.86
313 314 8.605325 AAGCCCTCTTTTCTACTAGTGTTATA 57.395 34.615 5.39 0.00 0.00 0.98
314 315 7.497773 AAGCCCTCTTTTCTACTAGTGTTAT 57.502 36.000 5.39 0.00 0.00 1.89
315 316 6.930068 AAGCCCTCTTTTCTACTAGTGTTA 57.070 37.500 5.39 0.00 0.00 2.41
316 317 5.827326 AAGCCCTCTTTTCTACTAGTGTT 57.173 39.130 5.39 0.00 0.00 3.32
564 565 1.224870 GGGACTAAAGGGCAGCCTC 59.775 63.158 12.43 1.02 0.00 4.70
1360 1365 3.472652 TCCAACGGCATAATGATACCAC 58.527 45.455 0.00 0.00 0.00 4.16
1690 1698 0.106769 TGTTTGCCTCAGCCACTTCA 60.107 50.000 0.00 0.00 38.69 3.02
1754 1762 1.467713 CCGGTCAGAGTAAGACTTCGC 60.468 57.143 0.00 0.00 36.29 4.70
1840 1848 5.231552 TCCATCATAACCCCTATTTCTCCA 58.768 41.667 0.00 0.00 0.00 3.86
1937 1945 4.020662 GTCTGGTTCCTCTTGATCTTCAGT 60.021 45.833 0.00 0.00 0.00 3.41
2073 2081 4.273480 CGAACTTCAGCTTCTCCTTTTGAA 59.727 41.667 0.00 0.00 0.00 2.69
2128 2136 1.949525 CCATCTTCGCAATTGGGGTAG 59.050 52.381 21.01 17.51 0.00 3.18


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

AutoCloner maintained by Alex Coulton.