Multiple sequence alignment - TraesCS1B01G158700

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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 TraesCS1B01G158700 chr1B 100.000 2270 0 0 1 2270 269073170 269070901 0.000000e+00 4193
1 TraesCS1B01G158700 chr5B 98.399 1811 25 1 464 2270 239323714 239321904 0.000000e+00 3181
2 TraesCS1B01G158700 chr5B 97.638 127 3 0 337 463 239323715 239323841 3.800000e-53 219
3 TraesCS1B01G158700 chr6B 98.066 1810 32 1 464 2270 346414948 346413139 0.000000e+00 3145
4 TraesCS1B01G158700 chr6B 96.063 127 5 0 337 463 346414949 346415075 8.220000e-50 207
5 TraesCS1B01G158700 chr5A 98.012 1811 32 1 464 2270 320271101 320272911 0.000000e+00 3142
6 TraesCS1B01G158700 chr5A 98.387 124 2 0 340 463 320271097 320270974 3.800000e-53 219
7 TraesCS1B01G158700 chr4B 97.903 1812 33 2 464 2270 92551617 92553428 0.000000e+00 3131
8 TraesCS1B01G158700 chr4B 96.774 124 4 0 340 463 92551613 92551490 8.220000e-50 207
9 TraesCS1B01G158700 chr7D 87.679 1818 192 20 466 2270 580111971 580110173 0.000000e+00 2087
10 TraesCS1B01G158700 chr7D 91.736 121 10 0 341 461 580111978 580112098 3.880000e-38 169
11 TraesCS1B01G158700 chr7B 92.809 1349 93 3 922 2270 27982672 27984016 0.000000e+00 1951
12 TraesCS1B01G158700 chr7B 99.366 947 6 0 1324 2270 516455488 516456434 0.000000e+00 1716
13 TraesCS1B01G158700 chr7B 96.770 867 24 1 464 1326 516452097 516452963 0.000000e+00 1443
14 TraesCS1B01G158700 chr7B 98.387 124 2 0 340 463 516452093 516451970 3.800000e-53 219
15 TraesCS1B01G158700 chr1A 86.036 1819 225 15 466 2270 94243294 94241491 0.000000e+00 1925
16 TraesCS1B01G158700 chr1A 85.387 349 23 11 1 339 245516742 245517072 1.000000e-88 337
17 TraesCS1B01G158700 chr3A 87.380 1569 182 12 710 2270 711443773 711442213 0.000000e+00 1786
18 TraesCS1B01G158700 chr2A 98.269 982 17 0 477 1458 608935237 608934256 0.000000e+00 1720
19 TraesCS1B01G158700 chr2A 96.063 127 5 0 337 463 608935258 608935384 8.220000e-50 207
20 TraesCS1B01G158700 chr2A 96.063 127 5 0 337 463 608935967 608936093 8.220000e-50 207
21 TraesCS1B01G158700 chr1D 85.515 359 18 10 1 343 196468836 196469176 6.000000e-91 344
22 TraesCS1B01G158700 chr7A 89.516 124 13 0 340 463 143077523 143077400 8.390000e-35 158


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 TraesCS1B01G158700 chr1B 269070901 269073170 2269 True 4193.0 4193 100.000 1 2270 1 chr1B.!!$R1 2269
1 TraesCS1B01G158700 chr5B 239321904 239323714 1810 True 3181.0 3181 98.399 464 2270 1 chr5B.!!$R1 1806
2 TraesCS1B01G158700 chr6B 346413139 346414948 1809 True 3145.0 3145 98.066 464 2270 1 chr6B.!!$R1 1806
3 TraesCS1B01G158700 chr5A 320271101 320272911 1810 False 3142.0 3142 98.012 464 2270 1 chr5A.!!$F1 1806
4 TraesCS1B01G158700 chr4B 92551617 92553428 1811 False 3131.0 3131 97.903 464 2270 1 chr4B.!!$F1 1806
5 TraesCS1B01G158700 chr7D 580110173 580111971 1798 True 2087.0 2087 87.679 466 2270 1 chr7D.!!$R1 1804
6 TraesCS1B01G158700 chr7B 27982672 27984016 1344 False 1951.0 1951 92.809 922 2270 1 chr7B.!!$F1 1348
7 TraesCS1B01G158700 chr7B 516452097 516456434 4337 False 1579.5 1716 98.068 464 2270 2 chr7B.!!$F2 1806
8 TraesCS1B01G158700 chr1A 94241491 94243294 1803 True 1925.0 1925 86.036 466 2270 1 chr1A.!!$R1 1804
9 TraesCS1B01G158700 chr3A 711442213 711443773 1560 True 1786.0 1786 87.380 710 2270 1 chr3A.!!$R1 1560
10 TraesCS1B01G158700 chr2A 608934256 608935237 981 True 1720.0 1720 98.269 477 1458 1 chr2A.!!$R1 981
11 TraesCS1B01G158700 chr2A 608935258 608936093 835 False 207.0 207 96.063 337 463 2 chr2A.!!$F1 126

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
68 69 0.031721 GACCCATGTACCGGTCGATC 59.968 60.0 12.4 0.63 39.29 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1915 4847 0.898326 GCCATGGGGAGGTTTTTCGT 60.898 55.0 15.13 0.0 35.59 3.85 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
23 24 5.459768 CCATTATTTTTGTTGCTTTTGCCC 58.540 37.500 0.00 0.00 46.87 5.36
24 25 5.459768 CATTATTTTTGTTGCTTTTGCCCC 58.540 37.500 0.00 0.00 46.87 5.80
25 26 1.756430 TTTTTGTTGCTTTTGCCCCC 58.244 45.000 0.00 0.00 46.87 5.40
43 44 4.451150 CAGCCGGCCGTAAGCAGA 62.451 66.667 26.15 0.00 46.50 4.26
44 45 3.702048 AGCCGGCCGTAAGCAGAA 61.702 61.111 26.15 0.00 46.50 3.02
45 46 2.513897 GCCGGCCGTAAGCAGAAT 60.514 61.111 26.12 0.00 46.50 2.40
46 47 2.823829 GCCGGCCGTAAGCAGAATG 61.824 63.158 26.12 5.27 46.50 2.67
60 61 2.292267 CAGAATGCAGACCCATGTACC 58.708 52.381 0.00 0.00 0.00 3.34
61 62 1.134401 AGAATGCAGACCCATGTACCG 60.134 52.381 0.00 0.00 0.00 4.02
62 63 0.107214 AATGCAGACCCATGTACCGG 60.107 55.000 0.00 0.00 0.00 5.28
63 64 1.271840 ATGCAGACCCATGTACCGGT 61.272 55.000 13.98 13.98 34.13 5.28
66 67 3.607163 GACCCATGTACCGGTCGA 58.393 61.111 12.40 0.00 39.29 4.20
67 68 2.121645 GACCCATGTACCGGTCGAT 58.878 57.895 12.40 0.17 39.29 3.59
68 69 0.031721 GACCCATGTACCGGTCGATC 59.968 60.000 12.40 0.63 39.29 3.69
69 70 0.685131 ACCCATGTACCGGTCGATCA 60.685 55.000 12.40 7.30 0.00 2.92
70 71 0.032130 CCCATGTACCGGTCGATCAG 59.968 60.000 12.40 0.00 0.00 2.90
71 72 0.597637 CCATGTACCGGTCGATCAGC 60.598 60.000 12.40 0.00 0.00 4.26
72 73 0.385751 CATGTACCGGTCGATCAGCT 59.614 55.000 12.40 0.00 0.00 4.24
73 74 1.607148 CATGTACCGGTCGATCAGCTA 59.393 52.381 12.40 0.00 0.00 3.32
74 75 1.306148 TGTACCGGTCGATCAGCTAG 58.694 55.000 12.40 0.00 0.00 3.42
75 76 1.307097 GTACCGGTCGATCAGCTAGT 58.693 55.000 12.40 0.00 0.00 2.57
76 77 1.002684 GTACCGGTCGATCAGCTAGTG 60.003 57.143 12.40 0.00 0.00 2.74
77 78 1.299468 CCGGTCGATCAGCTAGTGC 60.299 63.158 0.00 0.00 40.05 4.40
93 94 5.344884 GCTAGTGCTGTTTCTAGTTCTAGG 58.655 45.833 6.96 0.00 36.84 3.02
94 95 4.195225 AGTGCTGTTTCTAGTTCTAGGC 57.805 45.455 6.96 3.41 0.00 3.93
95 96 3.578716 AGTGCTGTTTCTAGTTCTAGGCA 59.421 43.478 6.96 5.60 0.00 4.75
96 97 4.223923 AGTGCTGTTTCTAGTTCTAGGCAT 59.776 41.667 6.96 0.00 0.00 4.40
97 98 4.938226 GTGCTGTTTCTAGTTCTAGGCATT 59.062 41.667 6.96 0.00 0.00 3.56
98 99 5.412904 GTGCTGTTTCTAGTTCTAGGCATTT 59.587 40.000 6.96 0.00 0.00 2.32
99 100 6.003950 TGCTGTTTCTAGTTCTAGGCATTTT 58.996 36.000 6.96 0.00 0.00 1.82
100 101 7.119262 GTGCTGTTTCTAGTTCTAGGCATTTTA 59.881 37.037 6.96 0.00 0.00 1.52
101 102 7.119262 TGCTGTTTCTAGTTCTAGGCATTTTAC 59.881 37.037 6.96 0.00 0.00 2.01
102 103 7.414208 GCTGTTTCTAGTTCTAGGCATTTTACC 60.414 40.741 6.96 0.00 0.00 2.85
103 104 7.686434 TGTTTCTAGTTCTAGGCATTTTACCT 58.314 34.615 6.96 0.00 41.57 3.08
104 105 7.606456 TGTTTCTAGTTCTAGGCATTTTACCTG 59.394 37.037 6.96 0.00 38.26 4.00
105 106 6.869206 TCTAGTTCTAGGCATTTTACCTGT 57.131 37.500 6.96 0.00 38.26 4.00
106 107 6.875076 TCTAGTTCTAGGCATTTTACCTGTC 58.125 40.000 6.96 0.00 38.26 3.51
107 108 4.504858 AGTTCTAGGCATTTTACCTGTCG 58.495 43.478 0.00 0.00 38.26 4.35
108 109 4.222145 AGTTCTAGGCATTTTACCTGTCGA 59.778 41.667 0.00 0.00 38.26 4.20
109 110 4.811969 TCTAGGCATTTTACCTGTCGAA 57.188 40.909 0.00 0.00 38.26 3.71
110 111 4.501071 TCTAGGCATTTTACCTGTCGAAC 58.499 43.478 0.00 0.00 38.26 3.95
111 112 2.433436 AGGCATTTTACCTGTCGAACC 58.567 47.619 0.00 0.00 35.72 3.62
112 113 2.156098 GGCATTTTACCTGTCGAACCA 58.844 47.619 0.00 0.00 0.00 3.67
113 114 2.752903 GGCATTTTACCTGTCGAACCAT 59.247 45.455 0.00 0.00 0.00 3.55
114 115 3.181500 GGCATTTTACCTGTCGAACCATC 60.181 47.826 0.00 0.00 0.00 3.51
115 116 3.438781 GCATTTTACCTGTCGAACCATCA 59.561 43.478 0.00 0.00 0.00 3.07
116 117 4.096382 GCATTTTACCTGTCGAACCATCAT 59.904 41.667 0.00 0.00 0.00 2.45
117 118 5.730568 GCATTTTACCTGTCGAACCATCATC 60.731 44.000 0.00 0.00 0.00 2.92
118 119 2.863401 TACCTGTCGAACCATCATCG 57.137 50.000 0.00 0.00 41.53 3.84
119 120 0.175760 ACCTGTCGAACCATCATCGG 59.824 55.000 0.00 0.00 40.59 4.18
120 121 0.530650 CCTGTCGAACCATCATCGGG 60.531 60.000 0.00 0.00 40.59 5.14
121 122 0.175760 CTGTCGAACCATCATCGGGT 59.824 55.000 0.00 0.00 40.59 5.28
122 123 0.108377 TGTCGAACCATCATCGGGTG 60.108 55.000 0.00 0.00 39.01 4.61
123 124 1.153449 TCGAACCATCATCGGGTGC 60.153 57.895 0.00 0.00 39.01 5.01
124 125 3.409856 GAACCATCATCGGGTGCG 58.590 61.111 0.00 0.00 39.01 5.34
125 126 1.449601 GAACCATCATCGGGTGCGT 60.450 57.895 0.00 0.00 39.01 5.24
126 127 1.705337 GAACCATCATCGGGTGCGTG 61.705 60.000 0.00 0.00 39.01 5.34
127 128 2.896854 CCATCATCGGGTGCGTGG 60.897 66.667 0.00 0.00 0.00 4.94
128 129 3.576356 CATCATCGGGTGCGTGGC 61.576 66.667 0.00 0.00 0.00 5.01
129 130 4.094646 ATCATCGGGTGCGTGGCA 62.095 61.111 0.00 0.00 35.60 4.92
130 131 4.758251 TCATCGGGTGCGTGGCAG 62.758 66.667 0.00 0.00 40.08 4.85
152 153 4.506255 GCCCCGGGCTGTAATGCT 62.506 66.667 22.31 0.00 46.69 3.79
153 154 2.516930 CCCCGGGCTGTAATGCTG 60.517 66.667 17.73 0.00 0.00 4.41
154 155 2.272146 CCCGGGCTGTAATGCTGT 59.728 61.111 8.08 0.00 0.00 4.40
155 156 1.524961 CCCGGGCTGTAATGCTGTA 59.475 57.895 8.08 0.00 0.00 2.74
156 157 0.108585 CCCGGGCTGTAATGCTGTAT 59.891 55.000 8.08 0.00 0.00 2.29
157 158 1.229428 CCGGGCTGTAATGCTGTATG 58.771 55.000 0.00 0.00 0.00 2.39
158 159 0.588252 CGGGCTGTAATGCTGTATGC 59.412 55.000 0.00 0.00 43.25 3.14
159 160 0.588252 GGGCTGTAATGCTGTATGCG 59.412 55.000 0.00 0.00 46.63 4.73
160 161 1.299541 GGCTGTAATGCTGTATGCGT 58.700 50.000 0.00 0.00 46.63 5.24
161 162 1.003545 GGCTGTAATGCTGTATGCGTG 60.004 52.381 0.00 0.00 46.63 5.34
162 163 1.933181 GCTGTAATGCTGTATGCGTGA 59.067 47.619 0.00 0.00 46.63 4.35
163 164 2.285834 GCTGTAATGCTGTATGCGTGAC 60.286 50.000 0.00 0.00 46.63 3.67
164 165 3.190079 CTGTAATGCTGTATGCGTGACT 58.810 45.455 0.00 0.00 46.63 3.41
165 166 4.359706 CTGTAATGCTGTATGCGTGACTA 58.640 43.478 0.00 0.00 46.63 2.59
166 167 4.109766 TGTAATGCTGTATGCGTGACTAC 58.890 43.478 0.00 0.00 46.63 2.73
191 192 5.640189 ACTACAGTACGTGCTTATCTTGT 57.360 39.130 2.37 1.07 0.00 3.16
192 193 6.748333 ACTACAGTACGTGCTTATCTTGTA 57.252 37.500 2.37 2.30 0.00 2.41
193 194 6.783162 ACTACAGTACGTGCTTATCTTGTAG 58.217 40.000 19.59 19.59 33.78 2.74
194 195 4.421948 ACAGTACGTGCTTATCTTGTAGC 58.578 43.478 2.37 0.00 37.89 3.58
195 196 4.082408 ACAGTACGTGCTTATCTTGTAGCA 60.082 41.667 2.37 0.00 44.58 3.49
200 201 2.888594 TGCTTATCTTGTAGCACGACC 58.111 47.619 0.00 0.00 42.12 4.79
201 202 1.852895 GCTTATCTTGTAGCACGACCG 59.147 52.381 0.00 0.00 37.35 4.79
202 203 2.734492 GCTTATCTTGTAGCACGACCGT 60.734 50.000 0.00 0.00 37.35 4.83
214 215 3.036577 GACCGTGACAGTCGACCA 58.963 61.111 13.01 0.00 0.00 4.02
215 216 1.361271 GACCGTGACAGTCGACCAA 59.639 57.895 13.01 0.00 0.00 3.67
216 217 0.663568 GACCGTGACAGTCGACCAAG 60.664 60.000 13.01 5.62 0.00 3.61
217 218 2.022129 CCGTGACAGTCGACCAAGC 61.022 63.158 13.01 0.00 0.00 4.01
218 219 2.022129 CGTGACAGTCGACCAAGCC 61.022 63.158 13.01 0.00 0.00 4.35
219 220 2.022129 GTGACAGTCGACCAAGCCG 61.022 63.158 13.01 0.00 0.00 5.52
220 221 2.432628 GACAGTCGACCAAGCCGG 60.433 66.667 13.01 0.00 42.50 6.13
221 222 4.681978 ACAGTCGACCAAGCCGGC 62.682 66.667 21.89 21.89 39.03 6.13
242 243 3.926616 CCGGTCCAGGCTATAGTAAATG 58.073 50.000 0.84 0.00 0.00 2.32
243 244 3.306780 CCGGTCCAGGCTATAGTAAATGG 60.307 52.174 0.84 5.18 0.00 3.16
244 245 3.306780 CGGTCCAGGCTATAGTAAATGGG 60.307 52.174 0.84 0.00 0.00 4.00
245 246 3.651423 GGTCCAGGCTATAGTAAATGGGT 59.349 47.826 0.84 0.00 0.00 4.51
246 247 4.104261 GGTCCAGGCTATAGTAAATGGGTT 59.896 45.833 0.84 0.00 0.00 4.11
247 248 5.398695 GGTCCAGGCTATAGTAAATGGGTTT 60.399 44.000 0.84 0.00 0.00 3.27
248 249 5.531287 GTCCAGGCTATAGTAAATGGGTTTG 59.469 44.000 0.84 0.00 0.00 2.93
249 250 4.827284 CCAGGCTATAGTAAATGGGTTTGG 59.173 45.833 0.84 0.00 0.00 3.28
250 251 5.398581 CCAGGCTATAGTAAATGGGTTTGGA 60.399 44.000 0.84 0.00 0.00 3.53
251 252 5.765182 CAGGCTATAGTAAATGGGTTTGGAG 59.235 44.000 0.84 0.00 0.00 3.86
252 253 4.519350 GGCTATAGTAAATGGGTTTGGAGC 59.481 45.833 0.84 0.00 0.00 4.70
253 254 4.213482 GCTATAGTAAATGGGTTTGGAGCG 59.787 45.833 0.84 0.00 0.00 5.03
254 255 1.173913 AGTAAATGGGTTTGGAGCGC 58.826 50.000 0.00 0.00 0.00 5.92
255 256 0.172578 GTAAATGGGTTTGGAGCGCC 59.827 55.000 2.29 0.00 0.00 6.53
256 257 0.251386 TAAATGGGTTTGGAGCGCCA 60.251 50.000 4.49 4.49 44.17 5.69
257 258 0.904394 AAATGGGTTTGGAGCGCCAT 60.904 50.000 10.98 0.00 45.46 4.40
258 259 1.322538 AATGGGTTTGGAGCGCCATC 61.323 55.000 10.98 6.82 45.46 3.51
259 260 3.140814 GGGTTTGGAGCGCCATCC 61.141 66.667 10.98 15.61 45.46 3.51
264 265 4.881440 TGGAGCGCCATCCATGCC 62.881 66.667 13.98 0.00 44.56 4.40
265 266 4.881440 GGAGCGCCATCCATGCCA 62.881 66.667 10.64 0.00 39.34 4.92
266 267 2.829914 GAGCGCCATCCATGCCAA 60.830 61.111 2.29 0.00 0.00 4.52
267 268 2.831742 AGCGCCATCCATGCCAAG 60.832 61.111 2.29 0.00 0.00 3.61
268 269 2.829914 GCGCCATCCATGCCAAGA 60.830 61.111 0.00 0.00 0.00 3.02
269 270 3.113745 CGCCATCCATGCCAAGAC 58.886 61.111 0.00 0.00 0.00 3.01
270 271 1.750018 CGCCATCCATGCCAAGACA 60.750 57.895 0.00 0.00 0.00 3.41
271 272 1.105167 CGCCATCCATGCCAAGACAT 61.105 55.000 0.00 0.00 0.00 3.06
272 273 0.672342 GCCATCCATGCCAAGACATC 59.328 55.000 0.00 0.00 0.00 3.06
273 274 1.753141 GCCATCCATGCCAAGACATCT 60.753 52.381 0.00 0.00 0.00 2.90
274 275 2.228059 CCATCCATGCCAAGACATCTC 58.772 52.381 0.00 0.00 0.00 2.75
275 276 2.422377 CCATCCATGCCAAGACATCTCA 60.422 50.000 0.00 0.00 0.00 3.27
276 277 2.704464 TCCATGCCAAGACATCTCAG 57.296 50.000 0.00 0.00 0.00 3.35
277 278 1.022735 CCATGCCAAGACATCTCAGC 58.977 55.000 0.00 0.00 0.00 4.26
278 279 1.022735 CATGCCAAGACATCTCAGCC 58.977 55.000 1.82 0.00 0.00 4.85
279 280 0.917533 ATGCCAAGACATCTCAGCCT 59.082 50.000 1.82 0.00 0.00 4.58
280 281 0.251354 TGCCAAGACATCTCAGCCTC 59.749 55.000 1.82 0.00 0.00 4.70
281 282 0.251354 GCCAAGACATCTCAGCCTCA 59.749 55.000 0.00 0.00 0.00 3.86
282 283 1.134159 GCCAAGACATCTCAGCCTCAT 60.134 52.381 0.00 0.00 0.00 2.90
283 284 2.836262 CCAAGACATCTCAGCCTCATC 58.164 52.381 0.00 0.00 0.00 2.92
284 285 2.485124 CCAAGACATCTCAGCCTCATCC 60.485 54.545 0.00 0.00 0.00 3.51
285 286 2.435069 CAAGACATCTCAGCCTCATCCT 59.565 50.000 0.00 0.00 0.00 3.24
286 287 2.040939 AGACATCTCAGCCTCATCCTG 58.959 52.381 0.00 0.00 0.00 3.86
287 288 0.469070 ACATCTCAGCCTCATCCTGC 59.531 55.000 0.00 0.00 0.00 4.85
288 289 0.468648 CATCTCAGCCTCATCCTGCA 59.531 55.000 0.00 0.00 0.00 4.41
289 290 1.134189 CATCTCAGCCTCATCCTGCAA 60.134 52.381 0.00 0.00 0.00 4.08
290 291 0.251354 TCTCAGCCTCATCCTGCAAC 59.749 55.000 0.00 0.00 0.00 4.17
291 292 0.747283 CTCAGCCTCATCCTGCAACC 60.747 60.000 0.00 0.00 0.00 3.77
292 293 1.001764 CAGCCTCATCCTGCAACCA 60.002 57.895 0.00 0.00 0.00 3.67
293 294 0.395311 CAGCCTCATCCTGCAACCAT 60.395 55.000 0.00 0.00 0.00 3.55
294 295 0.106819 AGCCTCATCCTGCAACCATC 60.107 55.000 0.00 0.00 0.00 3.51
295 296 1.442526 GCCTCATCCTGCAACCATCG 61.443 60.000 0.00 0.00 0.00 3.84
296 297 0.178767 CCTCATCCTGCAACCATCGA 59.821 55.000 0.00 0.00 0.00 3.59
297 298 1.293924 CTCATCCTGCAACCATCGAC 58.706 55.000 0.00 0.00 0.00 4.20
298 299 0.612744 TCATCCTGCAACCATCGACA 59.387 50.000 0.00 0.00 0.00 4.35
299 300 1.012086 CATCCTGCAACCATCGACAG 58.988 55.000 0.00 0.00 0.00 3.51
300 301 0.904649 ATCCTGCAACCATCGACAGA 59.095 50.000 0.37 0.00 31.67 3.41
301 302 0.904649 TCCTGCAACCATCGACAGAT 59.095 50.000 0.37 0.00 37.65 2.90
302 303 2.107366 TCCTGCAACCATCGACAGATA 58.893 47.619 0.37 0.00 34.85 1.98
303 304 2.700371 TCCTGCAACCATCGACAGATAT 59.300 45.455 0.37 0.00 34.85 1.63
304 305 3.062763 CCTGCAACCATCGACAGATATC 58.937 50.000 0.00 0.00 34.85 1.63
305 306 3.493176 CCTGCAACCATCGACAGATATCA 60.493 47.826 5.32 0.00 34.85 2.15
306 307 4.313282 CTGCAACCATCGACAGATATCAT 58.687 43.478 5.32 0.00 34.85 2.45
307 308 4.309933 TGCAACCATCGACAGATATCATC 58.690 43.478 5.32 1.29 34.85 2.92
308 309 4.202243 TGCAACCATCGACAGATATCATCA 60.202 41.667 5.32 0.00 34.85 3.07
309 310 4.751600 GCAACCATCGACAGATATCATCAA 59.248 41.667 5.32 0.00 34.85 2.57
310 311 5.333645 GCAACCATCGACAGATATCATCAAC 60.334 44.000 5.32 0.00 34.85 3.18
311 312 4.550422 ACCATCGACAGATATCATCAACG 58.450 43.478 5.32 3.85 34.85 4.10
312 313 4.038042 ACCATCGACAGATATCATCAACGT 59.962 41.667 5.32 0.00 34.85 3.99
313 314 4.618912 CCATCGACAGATATCATCAACGTC 59.381 45.833 5.32 1.26 34.85 4.34
314 315 4.893424 TCGACAGATATCATCAACGTCA 57.107 40.909 5.32 0.00 0.00 4.35
315 316 4.848757 TCGACAGATATCATCAACGTCAG 58.151 43.478 5.32 0.00 0.00 3.51
316 317 4.335594 TCGACAGATATCATCAACGTCAGT 59.664 41.667 5.32 0.00 0.00 3.41
317 318 5.037385 CGACAGATATCATCAACGTCAGTT 58.963 41.667 5.32 0.00 42.15 3.16
318 319 5.516696 CGACAGATATCATCAACGTCAGTTT 59.483 40.000 5.32 0.00 38.79 2.66
319 320 6.291322 CGACAGATATCATCAACGTCAGTTTC 60.291 42.308 5.32 0.00 38.79 2.78
320 321 5.516696 ACAGATATCATCAACGTCAGTTTCG 59.483 40.000 5.32 0.00 38.79 3.46
321 322 5.516696 CAGATATCATCAACGTCAGTTTCGT 59.483 40.000 5.32 0.00 43.45 3.85
322 323 5.516696 AGATATCATCAACGTCAGTTTCGTG 59.483 40.000 5.32 0.00 41.38 4.35
323 324 3.086818 TCATCAACGTCAGTTTCGTGA 57.913 42.857 0.00 0.00 41.38 4.35
324 325 3.049912 TCATCAACGTCAGTTTCGTGAG 58.950 45.455 0.00 0.00 41.38 3.51
325 326 1.205657 TCAACGTCAGTTTCGTGAGC 58.794 50.000 0.00 0.00 41.38 4.26
326 327 0.232303 CAACGTCAGTTTCGTGAGCC 59.768 55.000 0.00 0.00 41.38 4.70
327 328 1.213094 AACGTCAGTTTCGTGAGCCG 61.213 55.000 0.00 0.00 41.38 5.52
328 329 1.371267 CGTCAGTTTCGTGAGCCGA 60.371 57.895 0.00 0.00 45.66 5.54
329 330 0.732880 CGTCAGTTTCGTGAGCCGAT 60.733 55.000 0.00 0.00 46.75 4.18
330 331 1.466866 CGTCAGTTTCGTGAGCCGATA 60.467 52.381 0.00 0.00 46.75 2.92
331 332 2.602878 GTCAGTTTCGTGAGCCGATAA 58.397 47.619 0.00 0.00 46.75 1.75
332 333 2.991190 GTCAGTTTCGTGAGCCGATAAA 59.009 45.455 0.00 0.00 46.75 1.40
333 334 2.991190 TCAGTTTCGTGAGCCGATAAAC 59.009 45.455 0.00 0.00 46.75 2.01
334 335 1.990563 AGTTTCGTGAGCCGATAAACG 59.009 47.619 0.00 0.00 46.75 3.60
335 336 1.723003 GTTTCGTGAGCCGATAAACGT 59.277 47.619 0.00 0.00 46.75 3.99
336 337 1.621107 TTCGTGAGCCGATAAACGTC 58.379 50.000 0.00 0.00 46.75 4.34
337 338 0.521867 TCGTGAGCCGATAAACGTCG 60.522 55.000 0.00 0.00 41.60 5.12
418 419 4.069232 CGAGAGGCGCTGGACCAA 62.069 66.667 7.64 0.00 0.00 3.67
551 554 0.460987 CCAAGATCGACCTCCTGTGC 60.461 60.000 0.00 0.00 0.00 4.57
603 995 1.377725 CTCTTGGCTGCGGTGGATT 60.378 57.895 0.00 0.00 0.00 3.01
797 1195 0.613777 GTCACCCCGATCTTTGTCCT 59.386 55.000 0.00 0.00 0.00 3.85
833 1231 3.925630 CTGGCAATGCGGGGACACT 62.926 63.158 0.00 0.00 0.00 3.55
934 1332 1.269998 CGACAAGGAGAAGGAAGACGT 59.730 52.381 0.00 0.00 0.00 4.34
1140 1538 2.358615 GACATCACAGTGGCGGCA 60.359 61.111 7.97 7.97 0.00 5.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 4.522405 GGGGGCAAAAGCAACAAAAATAAT 59.478 37.500 0.00 0.00 0.00 1.28
5 6 2.305928 GGGGGCAAAAGCAACAAAAAT 58.694 42.857 0.00 0.00 0.00 1.82
26 27 3.950794 TTCTGCTTACGGCCGGCTG 62.951 63.158 33.73 33.73 40.92 4.85
27 28 3.031417 ATTCTGCTTACGGCCGGCT 62.031 57.895 31.76 12.49 40.92 5.52
28 29 2.513897 ATTCTGCTTACGGCCGGC 60.514 61.111 31.76 23.61 40.92 6.13
29 30 2.823829 GCATTCTGCTTACGGCCGG 61.824 63.158 31.76 13.36 40.96 6.13
30 31 2.040213 CTGCATTCTGCTTACGGCCG 62.040 60.000 26.86 26.86 45.31 6.13
31 32 0.744414 TCTGCATTCTGCTTACGGCC 60.744 55.000 0.00 0.00 45.31 6.13
32 33 0.375106 GTCTGCATTCTGCTTACGGC 59.625 55.000 0.34 0.00 45.31 5.68
33 34 1.009829 GGTCTGCATTCTGCTTACGG 58.990 55.000 0.34 0.00 45.31 4.02
34 35 1.009829 GGGTCTGCATTCTGCTTACG 58.990 55.000 0.34 0.00 45.31 3.18
35 36 2.113860 TGGGTCTGCATTCTGCTTAC 57.886 50.000 0.34 0.00 45.31 2.34
36 37 2.025981 ACATGGGTCTGCATTCTGCTTA 60.026 45.455 0.00 0.00 45.31 3.09
37 38 1.272313 ACATGGGTCTGCATTCTGCTT 60.272 47.619 0.00 0.00 45.31 3.91
38 39 0.330604 ACATGGGTCTGCATTCTGCT 59.669 50.000 0.00 0.00 45.31 4.24
39 40 1.672881 GTACATGGGTCTGCATTCTGC 59.327 52.381 0.00 0.00 45.29 4.26
40 41 2.292267 GGTACATGGGTCTGCATTCTG 58.708 52.381 0.00 0.00 0.00 3.02
41 42 1.134401 CGGTACATGGGTCTGCATTCT 60.134 52.381 0.00 0.00 0.00 2.40
42 43 1.299541 CGGTACATGGGTCTGCATTC 58.700 55.000 0.00 0.00 0.00 2.67
43 44 0.107214 CCGGTACATGGGTCTGCATT 60.107 55.000 0.00 0.00 0.00 3.56
44 45 1.271840 ACCGGTACATGGGTCTGCAT 61.272 55.000 4.49 0.00 0.00 3.96
45 46 1.916273 ACCGGTACATGGGTCTGCA 60.916 57.895 4.49 0.00 0.00 4.41
46 47 2.987125 ACCGGTACATGGGTCTGC 59.013 61.111 4.49 0.00 0.00 4.26
50 51 0.685131 TGATCGACCGGTACATGGGT 60.685 55.000 7.34 5.39 39.83 4.51
51 52 0.032130 CTGATCGACCGGTACATGGG 59.968 60.000 7.34 2.27 0.00 4.00
52 53 0.597637 GCTGATCGACCGGTACATGG 60.598 60.000 7.34 0.00 0.00 3.66
53 54 0.385751 AGCTGATCGACCGGTACATG 59.614 55.000 7.34 0.00 0.00 3.21
54 55 1.880675 CTAGCTGATCGACCGGTACAT 59.119 52.381 7.34 1.18 0.00 2.29
55 56 1.306148 CTAGCTGATCGACCGGTACA 58.694 55.000 7.34 5.03 0.00 2.90
56 57 1.002684 CACTAGCTGATCGACCGGTAC 60.003 57.143 7.34 0.00 0.00 3.34
57 58 1.306148 CACTAGCTGATCGACCGGTA 58.694 55.000 7.34 0.00 0.00 4.02
58 59 2.005960 GCACTAGCTGATCGACCGGT 62.006 60.000 6.92 6.92 37.91 5.28
59 60 1.299468 GCACTAGCTGATCGACCGG 60.299 63.158 0.00 0.00 37.91 5.28
60 61 4.310672 GCACTAGCTGATCGACCG 57.689 61.111 0.00 0.00 37.91 4.79
69 70 5.126384 CCTAGAACTAGAAACAGCACTAGCT 59.874 44.000 10.04 0.00 43.14 3.32
70 71 5.344884 CCTAGAACTAGAAACAGCACTAGC 58.655 45.833 10.04 0.00 39.47 3.42
71 72 5.105716 TGCCTAGAACTAGAAACAGCACTAG 60.106 44.000 10.04 0.00 41.01 2.57
72 73 4.770531 TGCCTAGAACTAGAAACAGCACTA 59.229 41.667 10.04 0.00 35.21 2.74
73 74 3.578716 TGCCTAGAACTAGAAACAGCACT 59.421 43.478 10.04 0.00 35.21 4.40
74 75 3.926616 TGCCTAGAACTAGAAACAGCAC 58.073 45.455 10.04 0.00 35.21 4.40
75 76 4.826274 ATGCCTAGAACTAGAAACAGCA 57.174 40.909 10.04 10.23 35.21 4.41
76 77 6.502136 AAAATGCCTAGAACTAGAAACAGC 57.498 37.500 10.04 5.53 35.21 4.40
77 78 7.824779 AGGTAAAATGCCTAGAACTAGAAACAG 59.175 37.037 10.04 0.00 35.21 3.16
78 79 7.606456 CAGGTAAAATGCCTAGAACTAGAAACA 59.394 37.037 10.04 6.17 35.21 2.83
79 80 7.606839 ACAGGTAAAATGCCTAGAACTAGAAAC 59.393 37.037 10.04 1.31 35.21 2.78
80 81 7.686434 ACAGGTAAAATGCCTAGAACTAGAAA 58.314 34.615 10.04 0.00 35.21 2.52
81 82 7.253905 ACAGGTAAAATGCCTAGAACTAGAA 57.746 36.000 10.04 0.00 35.21 2.10
82 83 6.405508 CGACAGGTAAAATGCCTAGAACTAGA 60.406 42.308 10.04 0.00 35.21 2.43
83 84 5.749109 CGACAGGTAAAATGCCTAGAACTAG 59.251 44.000 0.00 2.23 34.45 2.57
84 85 5.419788 TCGACAGGTAAAATGCCTAGAACTA 59.580 40.000 0.00 0.00 34.45 2.24
85 86 4.222145 TCGACAGGTAAAATGCCTAGAACT 59.778 41.667 0.00 0.00 34.45 3.01
86 87 4.501071 TCGACAGGTAAAATGCCTAGAAC 58.499 43.478 0.00 0.00 34.45 3.01
87 88 4.811969 TCGACAGGTAAAATGCCTAGAA 57.188 40.909 0.00 0.00 34.45 2.10
88 89 4.501071 GTTCGACAGGTAAAATGCCTAGA 58.499 43.478 0.00 0.00 34.45 2.43
89 90 3.621715 GGTTCGACAGGTAAAATGCCTAG 59.378 47.826 0.00 0.00 34.45 3.02
90 91 3.008157 TGGTTCGACAGGTAAAATGCCTA 59.992 43.478 0.00 0.00 34.45 3.93
91 92 2.224670 TGGTTCGACAGGTAAAATGCCT 60.225 45.455 0.00 0.00 36.66 4.75
92 93 2.156098 TGGTTCGACAGGTAAAATGCC 58.844 47.619 0.00 0.00 0.00 4.40
93 94 3.438781 TGATGGTTCGACAGGTAAAATGC 59.561 43.478 0.00 0.00 0.00 3.56
94 95 5.502382 CGATGATGGTTCGACAGGTAAAATG 60.502 44.000 0.00 0.00 38.88 2.32
95 96 4.570772 CGATGATGGTTCGACAGGTAAAAT 59.429 41.667 0.00 0.00 38.88 1.82
96 97 3.930229 CGATGATGGTTCGACAGGTAAAA 59.070 43.478 0.00 0.00 38.88 1.52
97 98 3.517602 CGATGATGGTTCGACAGGTAAA 58.482 45.455 0.00 0.00 38.88 2.01
98 99 2.159156 CCGATGATGGTTCGACAGGTAA 60.159 50.000 0.00 0.00 38.88 2.85
99 100 1.407618 CCGATGATGGTTCGACAGGTA 59.592 52.381 0.00 0.00 38.88 3.08
100 101 0.175760 CCGATGATGGTTCGACAGGT 59.824 55.000 0.00 0.00 38.88 4.00
101 102 0.530650 CCCGATGATGGTTCGACAGG 60.531 60.000 0.00 0.00 38.88 4.00
102 103 0.175760 ACCCGATGATGGTTCGACAG 59.824 55.000 0.00 0.00 38.88 3.51
103 104 0.108377 CACCCGATGATGGTTCGACA 60.108 55.000 0.00 0.00 38.88 4.35
104 105 1.429148 GCACCCGATGATGGTTCGAC 61.429 60.000 0.00 0.00 38.88 4.20
105 106 1.153449 GCACCCGATGATGGTTCGA 60.153 57.895 0.00 0.00 38.88 3.71
106 107 2.525248 CGCACCCGATGATGGTTCG 61.525 63.158 0.00 0.00 36.27 3.95
107 108 1.449601 ACGCACCCGATGATGGTTC 60.450 57.895 0.00 0.00 38.29 3.62
108 109 1.745115 CACGCACCCGATGATGGTT 60.745 57.895 0.00 0.00 38.29 3.67
109 110 2.125147 CACGCACCCGATGATGGT 60.125 61.111 0.00 0.00 38.29 3.55
110 111 2.896854 CCACGCACCCGATGATGG 60.897 66.667 0.00 0.00 38.29 3.51
111 112 3.576356 GCCACGCACCCGATGATG 61.576 66.667 0.00 0.00 38.29 3.07
112 113 4.094646 TGCCACGCACCCGATGAT 62.095 61.111 0.00 0.00 38.29 2.45
113 114 4.758251 CTGCCACGCACCCGATGA 62.758 66.667 0.00 0.00 38.29 2.92
136 137 1.978455 TACAGCATTACAGCCCGGGG 61.978 60.000 25.28 9.31 34.23 5.73
137 138 0.108585 ATACAGCATTACAGCCCGGG 59.891 55.000 19.09 19.09 34.23 5.73
138 139 1.229428 CATACAGCATTACAGCCCGG 58.771 55.000 0.00 0.00 34.23 5.73
139 140 0.588252 GCATACAGCATTACAGCCCG 59.412 55.000 0.00 0.00 44.79 6.13
140 141 0.588252 CGCATACAGCATTACAGCCC 59.412 55.000 0.00 0.00 46.13 5.19
141 142 1.003545 CACGCATACAGCATTACAGCC 60.004 52.381 0.00 0.00 46.13 4.85
142 143 1.933181 TCACGCATACAGCATTACAGC 59.067 47.619 0.00 0.00 46.13 4.40
143 144 3.190079 AGTCACGCATACAGCATTACAG 58.810 45.455 0.00 0.00 46.13 2.74
144 145 3.245518 AGTCACGCATACAGCATTACA 57.754 42.857 0.00 0.00 46.13 2.41
145 146 3.179795 CGTAGTCACGCATACAGCATTAC 59.820 47.826 0.00 0.00 46.13 1.89
146 147 3.368495 CGTAGTCACGCATACAGCATTA 58.632 45.455 0.00 0.00 46.13 1.90
147 148 2.193447 CGTAGTCACGCATACAGCATT 58.807 47.619 0.00 0.00 46.13 3.56
148 149 1.840181 CGTAGTCACGCATACAGCAT 58.160 50.000 0.00 0.00 46.13 3.79
149 150 3.322526 CGTAGTCACGCATACAGCA 57.677 52.632 0.00 0.00 46.13 4.41
167 168 6.549952 ACAAGATAAGCACGTACTGTAGTAC 58.450 40.000 11.28 11.28 45.47 2.73
168 169 6.748333 ACAAGATAAGCACGTACTGTAGTA 57.252 37.500 0.00 0.00 0.00 1.82
169 170 5.640189 ACAAGATAAGCACGTACTGTAGT 57.360 39.130 0.00 0.00 0.00 2.73
170 171 5.681982 GCTACAAGATAAGCACGTACTGTAG 59.318 44.000 6.35 6.35 38.63 2.74
171 172 5.124297 TGCTACAAGATAAGCACGTACTGTA 59.876 40.000 0.00 0.00 43.56 2.74
172 173 4.082408 TGCTACAAGATAAGCACGTACTGT 60.082 41.667 0.00 0.00 43.56 3.55
173 174 4.421058 TGCTACAAGATAAGCACGTACTG 58.579 43.478 0.00 0.00 43.56 2.74
174 175 4.713824 TGCTACAAGATAAGCACGTACT 57.286 40.909 0.00 0.00 43.56 2.73
180 181 2.734175 CGGTCGTGCTACAAGATAAGCA 60.734 50.000 0.00 0.00 46.11 3.91
181 182 1.852895 CGGTCGTGCTACAAGATAAGC 59.147 52.381 0.00 0.00 39.25 3.09
182 183 2.852413 CACGGTCGTGCTACAAGATAAG 59.148 50.000 10.59 0.00 39.39 1.73
183 184 2.488937 TCACGGTCGTGCTACAAGATAA 59.511 45.455 17.46 0.00 45.04 1.75
184 185 2.086094 TCACGGTCGTGCTACAAGATA 58.914 47.619 17.46 0.00 45.04 1.98
185 186 0.885879 TCACGGTCGTGCTACAAGAT 59.114 50.000 17.46 0.00 45.04 2.40
186 187 0.039798 GTCACGGTCGTGCTACAAGA 60.040 55.000 17.46 0.00 45.04 3.02
187 188 0.318360 TGTCACGGTCGTGCTACAAG 60.318 55.000 17.46 0.00 45.04 3.16
188 189 0.318360 CTGTCACGGTCGTGCTACAA 60.318 55.000 17.46 0.00 45.04 2.41
189 190 1.284715 CTGTCACGGTCGTGCTACA 59.715 57.895 17.46 15.65 45.04 2.74
190 191 0.728466 GACTGTCACGGTCGTGCTAC 60.728 60.000 17.46 12.26 45.04 3.58
191 192 1.577922 GACTGTCACGGTCGTGCTA 59.422 57.895 17.46 8.54 45.04 3.49
192 193 2.335369 GACTGTCACGGTCGTGCT 59.665 61.111 17.46 1.40 45.04 4.40
197 198 0.663568 CTTGGTCGACTGTCACGGTC 60.664 60.000 16.46 6.70 36.50 4.79
198 199 1.362717 CTTGGTCGACTGTCACGGT 59.637 57.895 16.46 0.00 0.00 4.83
199 200 2.022129 GCTTGGTCGACTGTCACGG 61.022 63.158 16.46 2.37 0.00 4.94
200 201 2.022129 GGCTTGGTCGACTGTCACG 61.022 63.158 16.46 4.03 0.00 4.35
201 202 2.022129 CGGCTTGGTCGACTGTCAC 61.022 63.158 16.46 5.37 29.41 3.67
202 203 2.338620 CGGCTTGGTCGACTGTCA 59.661 61.111 16.46 1.77 29.41 3.58
203 204 2.432628 CCGGCTTGGTCGACTGTC 60.433 66.667 16.46 6.88 29.41 3.51
204 205 4.681978 GCCGGCTTGGTCGACTGT 62.682 66.667 22.15 0.00 41.21 3.55
221 222 3.306780 CCATTTACTATAGCCTGGACCGG 60.307 52.174 0.00 0.00 0.00 5.28
222 223 3.306780 CCCATTTACTATAGCCTGGACCG 60.307 52.174 0.00 0.00 0.00 4.79
223 224 3.651423 ACCCATTTACTATAGCCTGGACC 59.349 47.826 0.00 0.00 0.00 4.46
224 225 4.976540 ACCCATTTACTATAGCCTGGAC 57.023 45.455 0.00 0.00 0.00 4.02
225 226 5.398581 CCAAACCCATTTACTATAGCCTGGA 60.399 44.000 0.00 0.00 0.00 3.86
226 227 4.827284 CCAAACCCATTTACTATAGCCTGG 59.173 45.833 0.00 1.94 0.00 4.45
227 228 5.690865 TCCAAACCCATTTACTATAGCCTG 58.309 41.667 0.00 0.00 0.00 4.85
228 229 5.690364 GCTCCAAACCCATTTACTATAGCCT 60.690 44.000 0.00 0.00 0.00 4.58
229 230 4.519350 GCTCCAAACCCATTTACTATAGCC 59.481 45.833 0.00 0.00 0.00 3.93
230 231 4.213482 CGCTCCAAACCCATTTACTATAGC 59.787 45.833 0.00 0.00 0.00 2.97
231 232 4.213482 GCGCTCCAAACCCATTTACTATAG 59.787 45.833 0.00 0.00 0.00 1.31
232 233 4.131596 GCGCTCCAAACCCATTTACTATA 58.868 43.478 0.00 0.00 0.00 1.31
233 234 2.949644 GCGCTCCAAACCCATTTACTAT 59.050 45.455 0.00 0.00 0.00 2.12
234 235 2.361789 GCGCTCCAAACCCATTTACTA 58.638 47.619 0.00 0.00 0.00 1.82
235 236 1.173913 GCGCTCCAAACCCATTTACT 58.826 50.000 0.00 0.00 0.00 2.24
236 237 0.172578 GGCGCTCCAAACCCATTTAC 59.827 55.000 7.64 0.00 0.00 2.01
237 238 0.251386 TGGCGCTCCAAACCCATTTA 60.251 50.000 7.64 0.00 39.99 1.40
238 239 1.532794 TGGCGCTCCAAACCCATTT 60.533 52.632 7.64 0.00 39.99 2.32
239 240 2.117206 TGGCGCTCCAAACCCATT 59.883 55.556 7.64 0.00 39.99 3.16
254 255 2.228059 GAGATGTCTTGGCATGGATGG 58.772 52.381 0.00 0.00 0.00 3.51
255 256 2.879026 CTGAGATGTCTTGGCATGGATG 59.121 50.000 0.00 0.00 0.00 3.51
256 257 2.748798 GCTGAGATGTCTTGGCATGGAT 60.749 50.000 0.00 0.00 0.00 3.41
257 258 1.407851 GCTGAGATGTCTTGGCATGGA 60.408 52.381 0.00 0.00 0.00 3.41
258 259 1.022735 GCTGAGATGTCTTGGCATGG 58.977 55.000 0.00 0.00 0.00 3.66
259 260 1.022735 GGCTGAGATGTCTTGGCATG 58.977 55.000 0.00 0.00 0.00 4.06
260 261 0.917533 AGGCTGAGATGTCTTGGCAT 59.082 50.000 11.00 0.00 0.00 4.40
261 262 0.251354 GAGGCTGAGATGTCTTGGCA 59.749 55.000 0.00 0.00 0.00 4.92
262 263 0.251354 TGAGGCTGAGATGTCTTGGC 59.749 55.000 0.00 0.00 0.00 4.52
263 264 2.485124 GGATGAGGCTGAGATGTCTTGG 60.485 54.545 0.00 0.00 0.00 3.61
264 265 2.435069 AGGATGAGGCTGAGATGTCTTG 59.565 50.000 0.00 0.00 0.00 3.02
265 266 2.435069 CAGGATGAGGCTGAGATGTCTT 59.565 50.000 0.00 0.00 39.69 3.01
266 267 2.040939 CAGGATGAGGCTGAGATGTCT 58.959 52.381 0.00 0.00 39.69 3.41
267 268 1.540797 GCAGGATGAGGCTGAGATGTC 60.541 57.143 0.00 0.00 39.69 3.06
268 269 0.469070 GCAGGATGAGGCTGAGATGT 59.531 55.000 0.00 0.00 39.69 3.06
269 270 0.468648 TGCAGGATGAGGCTGAGATG 59.531 55.000 0.00 0.00 39.69 2.90
270 271 1.134159 GTTGCAGGATGAGGCTGAGAT 60.134 52.381 0.00 0.00 39.69 2.75
271 272 0.251354 GTTGCAGGATGAGGCTGAGA 59.749 55.000 0.00 0.00 39.69 3.27
272 273 0.747283 GGTTGCAGGATGAGGCTGAG 60.747 60.000 0.00 0.00 39.69 3.35
273 274 1.300963 GGTTGCAGGATGAGGCTGA 59.699 57.895 0.00 0.00 39.69 4.26
274 275 0.395311 ATGGTTGCAGGATGAGGCTG 60.395 55.000 0.00 0.00 39.69 4.85
275 276 0.106819 GATGGTTGCAGGATGAGGCT 60.107 55.000 0.00 0.00 39.69 4.58
276 277 1.442526 CGATGGTTGCAGGATGAGGC 61.443 60.000 0.00 0.00 39.69 4.70
277 278 0.178767 TCGATGGTTGCAGGATGAGG 59.821 55.000 0.00 0.00 39.69 3.86
278 279 1.293924 GTCGATGGTTGCAGGATGAG 58.706 55.000 0.00 0.00 39.69 2.90
279 280 0.612744 TGTCGATGGTTGCAGGATGA 59.387 50.000 0.00 0.00 39.69 2.92
280 281 1.012086 CTGTCGATGGTTGCAGGATG 58.988 55.000 0.00 0.00 40.87 3.51
281 282 0.904649 TCTGTCGATGGTTGCAGGAT 59.095 50.000 0.00 0.00 0.00 3.24
282 283 0.904649 ATCTGTCGATGGTTGCAGGA 59.095 50.000 0.00 0.00 0.00 3.86
283 284 2.602257 TATCTGTCGATGGTTGCAGG 57.398 50.000 0.00 0.00 0.00 4.85
284 285 3.721035 TGATATCTGTCGATGGTTGCAG 58.279 45.455 3.98 0.00 0.00 4.41
285 286 3.817709 TGATATCTGTCGATGGTTGCA 57.182 42.857 3.98 0.00 0.00 4.08
286 287 4.309933 TGATGATATCTGTCGATGGTTGC 58.690 43.478 3.98 0.00 0.00 4.17
287 288 5.107722 CGTTGATGATATCTGTCGATGGTTG 60.108 44.000 3.98 0.00 0.00 3.77
288 289 4.984785 CGTTGATGATATCTGTCGATGGTT 59.015 41.667 3.98 0.00 0.00 3.67
289 290 4.038042 ACGTTGATGATATCTGTCGATGGT 59.962 41.667 16.16 9.42 0.00 3.55
290 291 4.550422 ACGTTGATGATATCTGTCGATGG 58.450 43.478 16.16 9.01 0.00 3.51
291 292 5.215160 TGACGTTGATGATATCTGTCGATG 58.785 41.667 3.98 9.65 32.89 3.84
292 293 5.009110 ACTGACGTTGATGATATCTGTCGAT 59.991 40.000 3.98 0.00 32.89 3.59
293 294 4.335594 ACTGACGTTGATGATATCTGTCGA 59.664 41.667 3.98 0.00 32.89 4.20
294 295 4.602006 ACTGACGTTGATGATATCTGTCG 58.398 43.478 3.98 4.88 32.89 4.35
295 296 6.291322 CGAAACTGACGTTGATGATATCTGTC 60.291 42.308 3.98 3.28 32.65 3.51
296 297 5.516696 CGAAACTGACGTTGATGATATCTGT 59.483 40.000 3.98 0.00 32.65 3.41
297 298 5.516696 ACGAAACTGACGTTGATGATATCTG 59.483 40.000 3.98 0.00 41.18 2.90
298 299 5.516696 CACGAAACTGACGTTGATGATATCT 59.483 40.000 3.98 0.00 42.07 1.98
299 300 5.515270 TCACGAAACTGACGTTGATGATATC 59.485 40.000 0.00 0.00 42.07 1.63
300 301 5.407502 TCACGAAACTGACGTTGATGATAT 58.592 37.500 0.00 0.00 42.07 1.63
301 302 4.800784 TCACGAAACTGACGTTGATGATA 58.199 39.130 0.00 0.00 42.07 2.15
302 303 3.649073 TCACGAAACTGACGTTGATGAT 58.351 40.909 0.00 0.00 42.07 2.45
303 304 3.049912 CTCACGAAACTGACGTTGATGA 58.950 45.455 0.00 0.00 42.07 2.92
304 305 2.410262 GCTCACGAAACTGACGTTGATG 60.410 50.000 0.00 0.00 42.07 3.07
305 306 1.792949 GCTCACGAAACTGACGTTGAT 59.207 47.619 0.00 0.00 42.07 2.57
306 307 1.205657 GCTCACGAAACTGACGTTGA 58.794 50.000 0.00 0.00 42.07 3.18
307 308 0.232303 GGCTCACGAAACTGACGTTG 59.768 55.000 0.00 0.00 42.07 4.10
308 309 2.601562 GGCTCACGAAACTGACGTT 58.398 52.632 0.00 0.00 42.07 3.99
309 310 4.338327 GGCTCACGAAACTGACGT 57.662 55.556 0.00 0.00 44.83 4.34
319 320 1.908089 CGACGTTTATCGGCTCACG 59.092 57.895 0.00 0.00 46.75 4.35
326 327 1.587088 CCCGACCCGACGTTTATCG 60.587 63.158 0.00 0.00 46.00 2.92
327 328 1.879884 GCCCGACCCGACGTTTATC 60.880 63.158 0.00 0.00 0.00 1.75
328 329 2.185093 GCCCGACCCGACGTTTAT 59.815 61.111 0.00 0.00 0.00 1.40
329 330 3.285523 CTGCCCGACCCGACGTTTA 62.286 63.158 0.00 0.00 0.00 2.01
330 331 4.675029 CTGCCCGACCCGACGTTT 62.675 66.667 0.00 0.00 0.00 3.60
418 419 1.291877 GCGCTCCATCGACAACAAGT 61.292 55.000 0.00 0.00 0.00 3.16
535 538 0.613292 ACAGCACAGGAGGTCGATCT 60.613 55.000 0.00 0.00 0.00 2.75
934 1332 1.192146 AAGCCTACGACTCCAGCCAA 61.192 55.000 0.00 0.00 0.00 4.52
1140 1538 1.890510 GTTGAACAACGCCCGGAGT 60.891 57.895 0.73 0.00 0.00 3.85
1183 1581 2.446848 CCACCAGGGCATCCTCGAT 61.447 63.158 0.00 0.00 42.67 3.59
1915 4847 0.898326 GCCATGGGGAGGTTTTTCGT 60.898 55.000 15.13 0.00 35.59 3.85


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

AutoCloner maintained by Alex Coulton.