Multiple sequence alignment - TraesCS7B01G131600

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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 TraesCS7B01G131600 chr7B 100.000 2243 0 0 1 2243 158936105 158938347 0.000000e+00 4143
1 TraesCS7B01G131600 chr7B 85.095 1362 105 47 423 1745 158555820 158554518 0.000000e+00 1301
2 TraesCS7B01G131600 chr7B 79.869 457 58 18 1755 2190 158554318 158553875 1.010000e-78 303
3 TraesCS7B01G131600 chr7A 90.724 1477 72 27 282 1710 205123774 205125233 0.000000e+00 1908
4 TraesCS7B01G131600 chr7A 89.539 1281 74 17 496 1744 204668684 204667432 0.000000e+00 1568
5 TraesCS7B01G131600 chr7D 89.683 1231 83 17 443 1652 195278932 195280139 0.000000e+00 1530
6 TraesCS7B01G131600 chr7D 88.337 986 51 24 1309 2243 194794230 194793258 0.000000e+00 1125
7 TraesCS7B01G131600 chr7D 88.601 965 45 28 423 1341 194795227 194794282 0.000000e+00 1112
8 TraesCS7B01G131600 chr7D 86.410 390 33 9 781 1170 194792589 194792220 2.070000e-110 409
9 TraesCS7B01G131600 chr7D 82.716 324 20 15 1180 1502 194792177 194791889 2.860000e-64 255
10 TraesCS7B01G131600 chr7D 87.963 108 9 3 282 388 195277083 195277187 8.410000e-25 124
11 TraesCS7B01G131600 chr7D 96.825 63 1 1 1649 1710 195280219 195280281 1.100000e-18 104
12 TraesCS7B01G131600 chr6D 92.361 288 19 3 1 285 460364629 460364342 7.460000e-110 407
13 TraesCS7B01G131600 chr4D 91.259 286 22 1 3 285 177017584 177017869 9.720000e-104 387
14 TraesCS7B01G131600 chr2B 89.716 282 24 3 3 280 524077936 524078216 2.740000e-94 355


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 TraesCS7B01G131600 chr7B 158936105 158938347 2242 False 4143.00 4143 100.000000 1 2243 1 chr7B.!!$F1 2242
1 TraesCS7B01G131600 chr7B 158553875 158555820 1945 True 802.00 1301 82.482000 423 2190 2 chr7B.!!$R1 1767
2 TraesCS7B01G131600 chr7A 205123774 205125233 1459 False 1908.00 1908 90.724000 282 1710 1 chr7A.!!$F1 1428
3 TraesCS7B01G131600 chr7A 204667432 204668684 1252 True 1568.00 1568 89.539000 496 1744 1 chr7A.!!$R1 1248
4 TraesCS7B01G131600 chr7D 194791889 194795227 3338 True 725.25 1125 86.516000 423 2243 4 chr7D.!!$R1 1820
5 TraesCS7B01G131600 chr7D 195277083 195280281 3198 False 586.00 1530 91.490333 282 1710 3 chr7D.!!$F1 1428

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
240 241 0.038159 AGAGAAGTCGAAAGCACCGG 60.038 55.0 0.0 0.0 0.0 5.28 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2158 4369 1.001487 CGCTGAGCAACACCATTTTGA 60.001 47.619 4.88 0.0 0.0 2.69 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
18 19 2.270959 GGCTTCTTTGGCAAGAGGG 58.729 57.895 0.00 0.00 40.28 4.30
19 20 0.540597 GGCTTCTTTGGCAAGAGGGT 60.541 55.000 0.00 0.00 40.28 4.34
20 21 0.600057 GCTTCTTTGGCAAGAGGGTG 59.400 55.000 0.00 0.00 40.28 4.61
21 22 1.819305 GCTTCTTTGGCAAGAGGGTGA 60.819 52.381 0.00 0.00 40.28 4.02
22 23 2.800250 CTTCTTTGGCAAGAGGGTGAT 58.200 47.619 0.00 0.00 40.28 3.06
23 24 2.205022 TCTTTGGCAAGAGGGTGATG 57.795 50.000 0.00 0.00 33.80 3.07
24 25 1.704628 TCTTTGGCAAGAGGGTGATGA 59.295 47.619 0.00 0.00 33.80 2.92
25 26 2.089980 CTTTGGCAAGAGGGTGATGAG 58.910 52.381 0.00 0.00 30.57 2.90
26 27 0.329261 TTGGCAAGAGGGTGATGAGG 59.671 55.000 0.00 0.00 0.00 3.86
27 28 1.225704 GGCAAGAGGGTGATGAGGG 59.774 63.158 0.00 0.00 0.00 4.30
28 29 1.452833 GCAAGAGGGTGATGAGGGC 60.453 63.158 0.00 0.00 0.00 5.19
29 30 1.225704 CAAGAGGGTGATGAGGGCC 59.774 63.158 0.00 0.00 0.00 5.80
30 31 1.083706 AAGAGGGTGATGAGGGCCT 59.916 57.895 5.25 5.25 0.00 5.19
31 32 0.985490 AAGAGGGTGATGAGGGCCTC 60.985 60.000 26.95 26.95 0.00 4.70
32 33 1.690633 GAGGGTGATGAGGGCCTCA 60.691 63.158 36.61 36.61 44.99 3.86
48 49 3.698029 CCTCATTTAGGCGTTGGAATG 57.302 47.619 0.00 0.00 38.97 2.67
49 50 2.223572 CCTCATTTAGGCGTTGGAATGC 60.224 50.000 0.00 0.00 38.97 3.56
55 56 2.877691 GCGTTGGAATGCCTGACC 59.122 61.111 0.00 0.00 34.89 4.02
56 57 1.971167 GCGTTGGAATGCCTGACCA 60.971 57.895 0.00 0.00 34.89 4.02
57 58 1.315257 GCGTTGGAATGCCTGACCAT 61.315 55.000 0.00 0.00 34.89 3.55
58 59 1.176527 CGTTGGAATGCCTGACCATT 58.823 50.000 0.00 0.00 38.09 3.16
59 60 1.135315 CGTTGGAATGCCTGACCATTG 60.135 52.381 0.00 0.00 35.67 2.82
60 61 2.170166 GTTGGAATGCCTGACCATTGA 58.830 47.619 0.00 0.00 35.67 2.57
61 62 2.133281 TGGAATGCCTGACCATTGAG 57.867 50.000 0.00 0.00 35.67 3.02
62 63 1.634973 TGGAATGCCTGACCATTGAGA 59.365 47.619 0.00 0.00 35.67 3.27
63 64 2.295885 GGAATGCCTGACCATTGAGAG 58.704 52.381 0.00 0.00 35.67 3.20
64 65 2.356535 GGAATGCCTGACCATTGAGAGT 60.357 50.000 0.00 0.00 35.67 3.24
65 66 2.414994 ATGCCTGACCATTGAGAGTG 57.585 50.000 0.00 0.00 0.00 3.51
66 67 1.059098 TGCCTGACCATTGAGAGTGT 58.941 50.000 0.00 0.00 0.00 3.55
67 68 2.256306 TGCCTGACCATTGAGAGTGTA 58.744 47.619 0.00 0.00 0.00 2.90
68 69 2.840038 TGCCTGACCATTGAGAGTGTAT 59.160 45.455 0.00 0.00 0.00 2.29
69 70 4.030216 TGCCTGACCATTGAGAGTGTATA 58.970 43.478 0.00 0.00 0.00 1.47
70 71 4.100035 TGCCTGACCATTGAGAGTGTATAG 59.900 45.833 0.00 0.00 0.00 1.31
71 72 4.626042 CCTGACCATTGAGAGTGTATAGC 58.374 47.826 0.00 0.00 0.00 2.97
72 73 4.343526 CCTGACCATTGAGAGTGTATAGCT 59.656 45.833 0.00 0.00 0.00 3.32
73 74 5.163364 CCTGACCATTGAGAGTGTATAGCTT 60.163 44.000 0.00 0.00 0.00 3.74
74 75 6.040955 CCTGACCATTGAGAGTGTATAGCTTA 59.959 42.308 0.00 0.00 0.00 3.09
75 76 7.043961 TGACCATTGAGAGTGTATAGCTTAG 57.956 40.000 0.00 0.00 0.00 2.18
76 77 5.848406 ACCATTGAGAGTGTATAGCTTAGC 58.152 41.667 0.00 0.00 0.00 3.09
77 78 4.920340 CCATTGAGAGTGTATAGCTTAGCG 59.080 45.833 0.00 0.00 0.00 4.26
78 79 5.278512 CCATTGAGAGTGTATAGCTTAGCGA 60.279 44.000 0.00 0.00 0.00 4.93
79 80 5.830000 TTGAGAGTGTATAGCTTAGCGAA 57.170 39.130 0.00 0.00 0.00 4.70
80 81 5.830000 TGAGAGTGTATAGCTTAGCGAAA 57.170 39.130 0.00 0.00 0.00 3.46
81 82 6.203808 TGAGAGTGTATAGCTTAGCGAAAA 57.796 37.500 0.00 0.00 0.00 2.29
82 83 6.034591 TGAGAGTGTATAGCTTAGCGAAAAC 58.965 40.000 0.00 0.00 0.00 2.43
83 84 5.349809 AGAGTGTATAGCTTAGCGAAAACC 58.650 41.667 0.00 0.00 0.00 3.27
84 85 5.127356 AGAGTGTATAGCTTAGCGAAAACCT 59.873 40.000 0.00 0.00 0.00 3.50
85 86 5.349809 AGTGTATAGCTTAGCGAAAACCTC 58.650 41.667 0.00 0.00 0.00 3.85
86 87 5.105473 AGTGTATAGCTTAGCGAAAACCTCA 60.105 40.000 0.00 0.00 0.00 3.86
87 88 5.005490 GTGTATAGCTTAGCGAAAACCTCAC 59.995 44.000 0.00 0.00 0.00 3.51
88 89 2.543777 AGCTTAGCGAAAACCTCACA 57.456 45.000 0.00 0.00 0.00 3.58
89 90 2.846193 AGCTTAGCGAAAACCTCACAA 58.154 42.857 0.00 0.00 0.00 3.33
90 91 3.211045 AGCTTAGCGAAAACCTCACAAA 58.789 40.909 0.00 0.00 0.00 2.83
91 92 3.251004 AGCTTAGCGAAAACCTCACAAAG 59.749 43.478 0.00 0.00 0.00 2.77
92 93 3.250040 GCTTAGCGAAAACCTCACAAAGA 59.750 43.478 0.00 0.00 0.00 2.52
93 94 4.083271 GCTTAGCGAAAACCTCACAAAGAT 60.083 41.667 0.00 0.00 0.00 2.40
94 95 5.607119 TTAGCGAAAACCTCACAAAGATC 57.393 39.130 0.00 0.00 0.00 2.75
95 96 2.480419 AGCGAAAACCTCACAAAGATCG 59.520 45.455 0.00 0.00 0.00 3.69
96 97 2.223377 GCGAAAACCTCACAAAGATCGT 59.777 45.455 0.00 0.00 0.00 3.73
97 98 3.664537 GCGAAAACCTCACAAAGATCGTC 60.665 47.826 0.00 0.00 0.00 4.20
98 99 3.120649 CGAAAACCTCACAAAGATCGTCC 60.121 47.826 0.00 0.00 0.00 4.79
99 100 3.771577 AAACCTCACAAAGATCGTCCT 57.228 42.857 0.00 0.00 0.00 3.85
100 101 3.771577 AACCTCACAAAGATCGTCCTT 57.228 42.857 0.00 0.00 0.00 3.36
101 102 3.045601 ACCTCACAAAGATCGTCCTTG 57.954 47.619 0.00 0.00 0.00 3.61
102 103 2.632996 ACCTCACAAAGATCGTCCTTGA 59.367 45.455 6.82 0.00 0.00 3.02
103 104 3.261897 ACCTCACAAAGATCGTCCTTGAT 59.738 43.478 6.82 0.00 0.00 2.57
104 105 3.620374 CCTCACAAAGATCGTCCTTGATG 59.380 47.826 6.82 2.14 0.00 3.07
105 106 4.498241 CTCACAAAGATCGTCCTTGATGA 58.502 43.478 6.82 0.00 31.82 2.92
106 107 5.089970 TCACAAAGATCGTCCTTGATGAT 57.910 39.130 0.00 0.00 40.51 2.45
107 108 6.220726 TCACAAAGATCGTCCTTGATGATA 57.779 37.500 0.00 0.00 38.27 2.15
108 109 6.820335 TCACAAAGATCGTCCTTGATGATAT 58.180 36.000 0.00 0.00 38.27 1.63
109 110 6.925718 TCACAAAGATCGTCCTTGATGATATC 59.074 38.462 0.00 0.00 38.27 1.63
110 111 6.146837 CACAAAGATCGTCCTTGATGATATCC 59.853 42.308 0.00 0.00 38.27 2.59
111 112 5.413309 AAGATCGTCCTTGATGATATCCC 57.587 43.478 0.00 0.00 38.27 3.85
112 113 4.420206 AGATCGTCCTTGATGATATCCCA 58.580 43.478 0.00 0.00 38.27 4.37
113 114 4.465660 AGATCGTCCTTGATGATATCCCAG 59.534 45.833 0.00 0.00 38.27 4.45
114 115 2.300152 TCGTCCTTGATGATATCCCAGC 59.700 50.000 0.00 0.00 0.00 4.85
115 116 2.037641 CGTCCTTGATGATATCCCAGCA 59.962 50.000 0.00 0.00 0.00 4.41
116 117 3.307269 CGTCCTTGATGATATCCCAGCAT 60.307 47.826 0.00 0.00 35.47 3.79
117 118 4.008330 GTCCTTGATGATATCCCAGCATG 58.992 47.826 0.00 0.00 32.03 4.06
118 119 3.911894 TCCTTGATGATATCCCAGCATGA 59.088 43.478 0.00 0.00 39.69 3.07
119 120 4.019591 TCCTTGATGATATCCCAGCATGAG 60.020 45.833 0.00 0.00 39.69 2.90
120 121 3.345508 TGATGATATCCCAGCATGAGC 57.654 47.619 0.00 0.00 39.69 4.26
141 142 1.294459 AGGAACTCCGCGGTAAACC 59.706 57.895 27.15 22.69 42.08 3.27
142 143 1.742880 GGAACTCCGCGGTAAACCC 60.743 63.158 27.15 16.75 0.00 4.11
167 168 4.796231 CCGGGCGACTTGTCGGAG 62.796 72.222 22.04 0.00 44.69 4.63
168 169 4.796231 CGGGCGACTTGTCGGAGG 62.796 72.222 22.04 0.00 0.00 4.30
169 170 4.452733 GGGCGACTTGTCGGAGGG 62.453 72.222 22.04 0.00 0.00 4.30
170 171 4.452733 GGCGACTTGTCGGAGGGG 62.453 72.222 22.04 0.00 0.00 4.79
171 172 3.379445 GCGACTTGTCGGAGGGGA 61.379 66.667 22.04 0.00 0.00 4.81
172 173 2.885861 CGACTTGTCGGAGGGGAG 59.114 66.667 14.53 0.00 0.00 4.30
173 174 2.579738 GACTTGTCGGAGGGGAGC 59.420 66.667 0.00 0.00 0.00 4.70
174 175 1.985116 GACTTGTCGGAGGGGAGCT 60.985 63.158 0.00 0.00 0.00 4.09
175 176 1.536662 ACTTGTCGGAGGGGAGCTT 60.537 57.895 0.00 0.00 0.00 3.74
176 177 1.219393 CTTGTCGGAGGGGAGCTTC 59.781 63.158 0.00 0.00 0.00 3.86
177 178 2.245438 CTTGTCGGAGGGGAGCTTCC 62.245 65.000 0.70 0.70 35.23 3.46
178 179 2.364448 GTCGGAGGGGAGCTTCCT 60.364 66.667 11.94 10.28 36.57 3.36
179 180 2.364317 TCGGAGGGGAGCTTCCTG 60.364 66.667 11.94 0.00 36.57 3.86
180 181 2.364317 CGGAGGGGAGCTTCCTGA 60.364 66.667 11.94 0.00 36.57 3.86
181 182 1.764054 CGGAGGGGAGCTTCCTGAT 60.764 63.158 11.94 0.00 36.57 2.90
182 183 1.835693 GGAGGGGAGCTTCCTGATG 59.164 63.158 11.94 0.00 36.57 3.07
183 184 1.704007 GGAGGGGAGCTTCCTGATGG 61.704 65.000 11.94 0.00 36.57 3.51
184 185 2.194326 GGGGAGCTTCCTGATGGC 59.806 66.667 11.94 0.00 36.57 4.40
185 186 2.203126 GGGAGCTTCCTGATGGCG 60.203 66.667 2.76 0.00 36.57 5.69
186 187 2.203126 GGAGCTTCCTGATGGCGG 60.203 66.667 0.00 0.00 32.53 6.13
187 188 2.899339 GAGCTTCCTGATGGCGGC 60.899 66.667 0.00 0.00 0.00 6.53
188 189 4.496336 AGCTTCCTGATGGCGGCC 62.496 66.667 13.32 13.32 33.42 6.13
191 192 4.113815 TTCCTGATGGCGGCCCAG 62.114 66.667 17.97 16.70 46.24 4.45
193 194 3.882326 CCTGATGGCGGCCCAGAT 61.882 66.667 22.15 8.30 46.24 2.90
194 195 2.281345 CTGATGGCGGCCCAGATC 60.281 66.667 17.97 13.40 46.24 2.75
195 196 2.769621 TGATGGCGGCCCAGATCT 60.770 61.111 17.97 0.00 46.24 2.75
196 197 2.031768 GATGGCGGCCCAGATCTC 59.968 66.667 17.97 0.00 46.24 2.75
197 198 3.873026 GATGGCGGCCCAGATCTCG 62.873 68.421 17.97 0.00 46.24 4.04
199 200 4.593864 GGCGGCCCAGATCTCGTC 62.594 72.222 8.12 0.00 0.00 4.20
200 201 4.933064 GCGGCCCAGATCTCGTCG 62.933 72.222 8.61 8.61 0.00 5.12
201 202 4.271816 CGGCCCAGATCTCGTCGG 62.272 72.222 0.00 0.00 0.00 4.79
202 203 3.148279 GGCCCAGATCTCGTCGGT 61.148 66.667 0.00 0.00 0.00 4.69
203 204 2.105128 GCCCAGATCTCGTCGGTG 59.895 66.667 0.00 0.00 0.00 4.94
204 205 2.808315 CCCAGATCTCGTCGGTGG 59.192 66.667 0.00 0.00 0.00 4.61
205 206 2.052690 CCCAGATCTCGTCGGTGGT 61.053 63.158 0.00 0.00 0.00 4.16
206 207 1.139734 CCAGATCTCGTCGGTGGTG 59.860 63.158 0.00 0.00 0.00 4.17
207 208 1.313091 CCAGATCTCGTCGGTGGTGA 61.313 60.000 0.00 0.00 0.00 4.02
208 209 0.526211 CAGATCTCGTCGGTGGTGAA 59.474 55.000 0.00 0.00 0.00 3.18
209 210 1.067846 CAGATCTCGTCGGTGGTGAAA 60.068 52.381 0.00 0.00 0.00 2.69
210 211 1.202582 AGATCTCGTCGGTGGTGAAAG 59.797 52.381 0.00 0.00 0.00 2.62
211 212 0.246635 ATCTCGTCGGTGGTGAAAGG 59.753 55.000 0.00 0.00 0.00 3.11
212 213 2.027625 CTCGTCGGTGGTGAAAGGC 61.028 63.158 0.00 0.00 0.00 4.35
213 214 2.030562 CGTCGGTGGTGAAAGGCT 59.969 61.111 0.00 0.00 0.00 4.58
214 215 2.027625 CGTCGGTGGTGAAAGGCTC 61.028 63.158 0.00 0.00 0.00 4.70
215 216 1.671379 GTCGGTGGTGAAAGGCTCC 60.671 63.158 0.00 0.00 0.00 4.70
216 217 1.841556 TCGGTGGTGAAAGGCTCCT 60.842 57.895 0.00 0.00 0.00 3.69
217 218 1.376037 CGGTGGTGAAAGGCTCCTC 60.376 63.158 0.00 0.00 0.00 3.71
218 219 1.761174 GGTGGTGAAAGGCTCCTCA 59.239 57.895 0.00 0.00 0.00 3.86
219 220 0.110486 GGTGGTGAAAGGCTCCTCAA 59.890 55.000 1.16 0.00 0.00 3.02
220 221 1.528129 GTGGTGAAAGGCTCCTCAAG 58.472 55.000 1.16 0.00 0.00 3.02
221 222 1.072331 GTGGTGAAAGGCTCCTCAAGA 59.928 52.381 1.16 0.00 0.00 3.02
222 223 1.349026 TGGTGAAAGGCTCCTCAAGAG 59.651 52.381 1.16 0.00 46.29 2.85
223 224 1.625818 GGTGAAAGGCTCCTCAAGAGA 59.374 52.381 0.00 0.00 46.50 3.10
224 225 2.354604 GGTGAAAGGCTCCTCAAGAGAG 60.355 54.545 0.00 0.00 46.50 3.20
225 226 2.564947 GTGAAAGGCTCCTCAAGAGAGA 59.435 50.000 0.00 0.00 46.50 3.10
226 227 3.007398 GTGAAAGGCTCCTCAAGAGAGAA 59.993 47.826 0.00 0.00 46.50 2.87
227 228 3.260380 TGAAAGGCTCCTCAAGAGAGAAG 59.740 47.826 0.00 0.00 46.50 2.85
228 229 2.621556 AGGCTCCTCAAGAGAGAAGT 57.378 50.000 0.00 0.00 46.50 3.01
229 230 2.456577 AGGCTCCTCAAGAGAGAAGTC 58.543 52.381 0.00 0.00 46.50 3.01
230 231 1.134175 GGCTCCTCAAGAGAGAAGTCG 59.866 57.143 0.00 0.00 46.50 4.18
231 232 2.088423 GCTCCTCAAGAGAGAAGTCGA 58.912 52.381 0.00 0.00 46.50 4.20
232 233 2.490115 GCTCCTCAAGAGAGAAGTCGAA 59.510 50.000 0.00 0.00 46.50 3.71
233 234 3.057174 GCTCCTCAAGAGAGAAGTCGAAA 60.057 47.826 0.00 0.00 46.50 3.46
234 235 4.732784 CTCCTCAAGAGAGAAGTCGAAAG 58.267 47.826 0.00 0.00 46.50 2.62
235 236 3.057174 TCCTCAAGAGAGAAGTCGAAAGC 60.057 47.826 0.00 0.00 44.98 3.51
236 237 3.305676 CCTCAAGAGAGAAGTCGAAAGCA 60.306 47.826 0.00 0.00 44.98 3.91
237 238 3.643763 TCAAGAGAGAAGTCGAAAGCAC 58.356 45.455 0.00 0.00 0.00 4.40
238 239 2.734079 CAAGAGAGAAGTCGAAAGCACC 59.266 50.000 0.00 0.00 0.00 5.01
239 240 1.068194 AGAGAGAAGTCGAAAGCACCG 60.068 52.381 0.00 0.00 0.00 4.94
240 241 0.038159 AGAGAAGTCGAAAGCACCGG 60.038 55.000 0.00 0.00 0.00 5.28
241 242 1.004918 AGAAGTCGAAAGCACCGGG 60.005 57.895 6.32 0.00 0.00 5.73
242 243 2.032071 AAGTCGAAAGCACCGGGG 59.968 61.111 6.32 0.84 0.00 5.73
243 244 2.726822 GAAGTCGAAAGCACCGGGGT 62.727 60.000 5.12 0.00 0.00 4.95
245 246 4.323477 TCGAAAGCACCGGGGTGG 62.323 66.667 18.86 2.66 45.49 4.61
262 263 2.746277 GCCAATGGCGTCGAGGTT 60.746 61.111 9.14 0.00 39.62 3.50
263 264 1.448893 GCCAATGGCGTCGAGGTTA 60.449 57.895 9.14 0.00 39.62 2.85
264 265 1.022451 GCCAATGGCGTCGAGGTTAA 61.022 55.000 9.14 0.00 39.62 2.01
265 266 1.006832 CCAATGGCGTCGAGGTTAAG 58.993 55.000 7.01 0.00 0.00 1.85
266 267 1.404986 CCAATGGCGTCGAGGTTAAGA 60.405 52.381 7.01 0.00 0.00 2.10
267 268 1.927174 CAATGGCGTCGAGGTTAAGAG 59.073 52.381 7.01 0.00 0.00 2.85
268 269 1.471119 ATGGCGTCGAGGTTAAGAGA 58.529 50.000 7.01 0.00 0.00 3.10
269 270 0.809385 TGGCGTCGAGGTTAAGAGAG 59.191 55.000 7.01 0.00 0.00 3.20
270 271 0.100861 GGCGTCGAGGTTAAGAGAGG 59.899 60.000 7.01 0.00 0.00 3.69
271 272 0.810016 GCGTCGAGGTTAAGAGAGGT 59.190 55.000 7.01 0.00 0.00 3.85
272 273 1.467713 GCGTCGAGGTTAAGAGAGGTG 60.468 57.143 7.01 0.00 0.00 4.00
273 274 1.132643 CGTCGAGGTTAAGAGAGGTGG 59.867 57.143 0.00 0.00 0.00 4.61
274 275 2.169330 GTCGAGGTTAAGAGAGGTGGT 58.831 52.381 0.00 0.00 0.00 4.16
275 276 2.561858 GTCGAGGTTAAGAGAGGTGGTT 59.438 50.000 0.00 0.00 0.00 3.67
276 277 2.824341 TCGAGGTTAAGAGAGGTGGTTC 59.176 50.000 0.00 0.00 0.00 3.62
277 278 2.826725 CGAGGTTAAGAGAGGTGGTTCT 59.173 50.000 0.00 0.00 0.00 3.01
278 279 3.367498 CGAGGTTAAGAGAGGTGGTTCTG 60.367 52.174 0.00 0.00 0.00 3.02
279 280 3.579151 GAGGTTAAGAGAGGTGGTTCTGT 59.421 47.826 0.00 0.00 0.00 3.41
280 281 4.748701 AGGTTAAGAGAGGTGGTTCTGTA 58.251 43.478 0.00 0.00 0.00 2.74
413 414 6.075280 CCAAACCGTCTTACATTTAGAAACG 58.925 40.000 0.00 0.00 0.00 3.60
420 421 6.808212 CGTCTTACATTTAGAAACGGAGGTAA 59.192 38.462 0.00 0.00 0.00 2.85
556 2248 8.651389 TCATAGTAGTCATTAGCCTGCTTAAAT 58.349 33.333 0.00 0.00 0.00 1.40
747 2497 1.679944 GGCTCCTATGCAAGCTTGTCA 60.680 52.381 26.55 23.24 38.58 3.58
801 2551 0.040942 CAATCCACCCCCACCATTCA 59.959 55.000 0.00 0.00 0.00 2.57
907 2663 1.904771 CCCGGTGATCTAGCAACCA 59.095 57.895 0.00 0.00 0.00 3.67
919 2675 5.769484 TCTAGCAACCATAGTAGCACTAC 57.231 43.478 0.00 0.00 32.84 2.73
1079 2842 2.209064 GACAAGGACGCGCCAGACTA 62.209 60.000 19.30 0.00 40.02 2.59
1165 2928 1.872237 CGGAGCTGGAAAAAGACGTGA 60.872 52.381 0.00 0.00 0.00 4.35
1256 3035 5.187687 GCAGAGGTAGTAAGTAGTCTGTCT 58.812 45.833 0.00 0.00 35.02 3.41
1399 3272 1.569479 GCTTTCTCCGTGCAGTCACC 61.569 60.000 0.00 0.00 40.04 4.02
1439 3315 4.898829 TTCCTTCCATACATGCATTTCG 57.101 40.909 0.00 0.00 0.00 3.46
1558 3472 6.803154 ATCTCTTGACCTTTAGGAAAAACG 57.197 37.500 2.06 0.00 38.94 3.60
1559 3473 5.677567 TCTCTTGACCTTTAGGAAAAACGT 58.322 37.500 2.06 0.00 38.94 3.99
1560 3474 6.819284 TCTCTTGACCTTTAGGAAAAACGTA 58.181 36.000 2.06 0.00 38.94 3.57
1561 3475 7.274447 TCTCTTGACCTTTAGGAAAAACGTAA 58.726 34.615 2.06 0.00 38.94 3.18
1562 3476 7.440255 TCTCTTGACCTTTAGGAAAAACGTAAG 59.560 37.037 2.06 0.00 40.83 2.34
1619 3533 7.094248 TGTCATCTTGCAAATGTAGTAGCATTT 60.094 33.333 16.17 0.00 46.37 2.32
1799 3989 7.621428 ATCATCTTTTGACGATCTTGTTCAT 57.379 32.000 0.00 0.00 37.11 2.57
1848 4041 2.906389 ACAAGGCATGAACTCCTCACTA 59.094 45.455 0.00 0.00 36.69 2.74
1857 4050 5.367945 TGAACTCCTCACTAAAACCTTGT 57.632 39.130 0.00 0.00 0.00 3.16
1883 4076 8.774183 TGGTGTATTAATTTCTAGAGCCCTTTA 58.226 33.333 0.00 0.00 0.00 1.85
1967 4161 8.918202 ATTGTAATTCCAACTCAGTCAAACTA 57.082 30.769 0.00 0.00 0.00 2.24
2142 4352 3.163594 GACCTGATCGCAATTTGTTTCG 58.836 45.455 0.00 0.00 0.00 3.46
2177 4388 2.798976 TCAAAATGGTGTTGCTCAGC 57.201 45.000 0.00 0.00 43.90 4.26
2200 4411 3.869473 TTCCACGTGGCGGCTGTAC 62.869 63.158 30.25 0.00 34.44 2.90
2203 4414 1.080366 CACGTGGCGGCTGTACTAA 60.080 57.895 11.43 0.00 0.00 2.24
2215 4426 4.003648 GGCTGTACTAATGAACTGCTGTT 58.996 43.478 8.91 8.91 39.62 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.540597 ACCCTCTTGCCAAAGAAGCC 60.541 55.000 0.00 0.00 41.89 4.35
4 5 1.704628 TCATCACCCTCTTGCCAAAGA 59.295 47.619 0.00 0.00 40.20 2.52
5 6 2.089980 CTCATCACCCTCTTGCCAAAG 58.910 52.381 0.00 0.00 34.45 2.77
6 7 1.272092 CCTCATCACCCTCTTGCCAAA 60.272 52.381 0.00 0.00 0.00 3.28
7 8 0.329261 CCTCATCACCCTCTTGCCAA 59.671 55.000 0.00 0.00 0.00 4.52
8 9 1.565390 CCCTCATCACCCTCTTGCCA 61.565 60.000 0.00 0.00 0.00 4.92
9 10 1.225704 CCCTCATCACCCTCTTGCC 59.774 63.158 0.00 0.00 0.00 4.52
10 11 1.452833 GCCCTCATCACCCTCTTGC 60.453 63.158 0.00 0.00 0.00 4.01
11 12 1.225704 GGCCCTCATCACCCTCTTG 59.774 63.158 0.00 0.00 0.00 3.02
12 13 0.985490 GAGGCCCTCATCACCCTCTT 60.985 60.000 5.69 0.00 40.51 2.85
13 14 1.383803 GAGGCCCTCATCACCCTCT 60.384 63.158 5.69 0.00 40.51 3.69
14 15 1.059006 ATGAGGCCCTCATCACCCTC 61.059 60.000 20.78 0.00 46.83 4.30
15 16 1.005289 ATGAGGCCCTCATCACCCT 59.995 57.895 20.78 0.00 46.83 4.34
16 17 3.666122 ATGAGGCCCTCATCACCC 58.334 61.111 20.78 0.00 46.83 4.61
29 30 2.223572 GGCATTCCAACGCCTAAATGAG 60.224 50.000 0.00 0.00 45.29 2.90
30 31 1.748493 GGCATTCCAACGCCTAAATGA 59.252 47.619 0.00 0.00 45.29 2.57
31 32 2.208326 GGCATTCCAACGCCTAAATG 57.792 50.000 0.00 0.00 45.29 2.32
38 39 1.315257 ATGGTCAGGCATTCCAACGC 61.315 55.000 0.00 0.00 34.80 4.84
39 40 1.135315 CAATGGTCAGGCATTCCAACG 60.135 52.381 0.00 0.00 34.80 4.10
40 41 2.165030 CTCAATGGTCAGGCATTCCAAC 59.835 50.000 0.00 0.00 34.80 3.77
41 42 2.041485 TCTCAATGGTCAGGCATTCCAA 59.959 45.455 0.00 0.00 34.80 3.53
42 43 1.634973 TCTCAATGGTCAGGCATTCCA 59.365 47.619 0.00 0.00 35.64 3.53
43 44 2.295885 CTCTCAATGGTCAGGCATTCC 58.704 52.381 0.00 0.00 0.00 3.01
44 45 2.681848 CACTCTCAATGGTCAGGCATTC 59.318 50.000 0.00 0.00 0.00 2.67
45 46 2.040813 ACACTCTCAATGGTCAGGCATT 59.959 45.455 0.00 0.00 0.00 3.56
46 47 1.632409 ACACTCTCAATGGTCAGGCAT 59.368 47.619 0.00 0.00 0.00 4.40
47 48 1.059098 ACACTCTCAATGGTCAGGCA 58.941 50.000 0.00 0.00 0.00 4.75
48 49 3.550437 ATACACTCTCAATGGTCAGGC 57.450 47.619 0.00 0.00 0.00 4.85
49 50 4.343526 AGCTATACACTCTCAATGGTCAGG 59.656 45.833 0.00 0.00 0.00 3.86
50 51 5.528043 AGCTATACACTCTCAATGGTCAG 57.472 43.478 0.00 0.00 0.00 3.51
51 52 5.939764 AAGCTATACACTCTCAATGGTCA 57.060 39.130 0.00 0.00 0.00 4.02
52 53 5.923684 GCTAAGCTATACACTCTCAATGGTC 59.076 44.000 0.00 0.00 0.00 4.02
53 54 5.508153 CGCTAAGCTATACACTCTCAATGGT 60.508 44.000 0.00 0.00 0.00 3.55
54 55 4.920340 CGCTAAGCTATACACTCTCAATGG 59.080 45.833 0.00 0.00 0.00 3.16
55 56 5.763088 TCGCTAAGCTATACACTCTCAATG 58.237 41.667 0.00 0.00 0.00 2.82
56 57 6.392625 TTCGCTAAGCTATACACTCTCAAT 57.607 37.500 0.00 0.00 0.00 2.57
57 58 5.830000 TTCGCTAAGCTATACACTCTCAA 57.170 39.130 0.00 0.00 0.00 3.02
58 59 5.830000 TTTCGCTAAGCTATACACTCTCA 57.170 39.130 0.00 0.00 0.00 3.27
59 60 5.459434 GGTTTTCGCTAAGCTATACACTCTC 59.541 44.000 0.00 0.00 0.00 3.20
60 61 5.127356 AGGTTTTCGCTAAGCTATACACTCT 59.873 40.000 0.00 0.00 34.32 3.24
61 62 5.349809 AGGTTTTCGCTAAGCTATACACTC 58.650 41.667 0.00 0.00 34.32 3.51
62 63 5.105473 TGAGGTTTTCGCTAAGCTATACACT 60.105 40.000 0.00 0.00 36.09 3.55
63 64 5.005490 GTGAGGTTTTCGCTAAGCTATACAC 59.995 44.000 0.00 0.00 36.09 2.90
64 65 5.107133 GTGAGGTTTTCGCTAAGCTATACA 58.893 41.667 0.00 0.00 36.09 2.29
65 66 5.107133 TGTGAGGTTTTCGCTAAGCTATAC 58.893 41.667 0.00 5.33 36.09 1.47
66 67 5.333299 TGTGAGGTTTTCGCTAAGCTATA 57.667 39.130 0.00 0.00 36.09 1.31
67 68 4.202245 TGTGAGGTTTTCGCTAAGCTAT 57.798 40.909 0.00 0.00 36.09 2.97
68 69 3.671008 TGTGAGGTTTTCGCTAAGCTA 57.329 42.857 0.00 0.00 36.09 3.32
69 70 2.543777 TGTGAGGTTTTCGCTAAGCT 57.456 45.000 1.48 1.48 38.48 3.74
70 71 3.250040 TCTTTGTGAGGTTTTCGCTAAGC 59.750 43.478 6.92 0.00 43.93 3.09
71 72 5.613358 ATCTTTGTGAGGTTTTCGCTAAG 57.387 39.130 5.84 5.84 44.90 2.18
72 73 4.151689 CGATCTTTGTGAGGTTTTCGCTAA 59.848 41.667 0.00 0.00 37.22 3.09
73 74 3.678072 CGATCTTTGTGAGGTTTTCGCTA 59.322 43.478 0.00 0.00 37.22 4.26
74 75 2.480419 CGATCTTTGTGAGGTTTTCGCT 59.520 45.455 0.00 0.00 37.22 4.93
75 76 2.223377 ACGATCTTTGTGAGGTTTTCGC 59.777 45.455 0.00 0.00 36.83 4.70
76 77 3.120649 GGACGATCTTTGTGAGGTTTTCG 60.121 47.826 0.00 0.00 0.00 3.46
77 78 4.065789 AGGACGATCTTTGTGAGGTTTTC 58.934 43.478 0.00 0.00 0.00 2.29
78 79 4.086706 AGGACGATCTTTGTGAGGTTTT 57.913 40.909 0.00 0.00 0.00 2.43
79 80 3.771577 AGGACGATCTTTGTGAGGTTT 57.228 42.857 0.00 0.00 0.00 3.27
80 81 3.071023 TCAAGGACGATCTTTGTGAGGTT 59.929 43.478 0.00 0.00 35.32 3.50
81 82 2.632996 TCAAGGACGATCTTTGTGAGGT 59.367 45.455 0.00 0.00 35.32 3.85
82 83 3.319137 TCAAGGACGATCTTTGTGAGG 57.681 47.619 0.00 0.00 35.32 3.86
83 84 4.498241 TCATCAAGGACGATCTTTGTGAG 58.502 43.478 0.00 0.00 35.32 3.51
84 85 4.535526 TCATCAAGGACGATCTTTGTGA 57.464 40.909 0.00 1.21 35.32 3.58
85 86 6.146837 GGATATCATCAAGGACGATCTTTGTG 59.853 42.308 4.83 0.00 35.32 3.33
86 87 6.226787 GGATATCATCAAGGACGATCTTTGT 58.773 40.000 4.83 0.00 35.32 2.83
87 88 5.641209 GGGATATCATCAAGGACGATCTTTG 59.359 44.000 4.83 0.00 35.12 2.77
88 89 5.307976 TGGGATATCATCAAGGACGATCTTT 59.692 40.000 4.83 0.00 0.00 2.52
89 90 4.840680 TGGGATATCATCAAGGACGATCTT 59.159 41.667 4.83 0.00 0.00 2.40
90 91 4.420206 TGGGATATCATCAAGGACGATCT 58.580 43.478 4.83 0.00 0.00 2.75
91 92 4.753233 CTGGGATATCATCAAGGACGATC 58.247 47.826 4.83 0.00 0.00 3.69
92 93 3.055530 GCTGGGATATCATCAAGGACGAT 60.056 47.826 4.83 0.00 0.00 3.73
93 94 2.300152 GCTGGGATATCATCAAGGACGA 59.700 50.000 4.83 0.00 0.00 4.20
94 95 2.037641 TGCTGGGATATCATCAAGGACG 59.962 50.000 4.83 0.00 0.00 4.79
95 96 3.777106 TGCTGGGATATCATCAAGGAC 57.223 47.619 4.83 0.00 0.00 3.85
96 97 3.911894 TCATGCTGGGATATCATCAAGGA 59.088 43.478 4.83 0.00 0.00 3.36
97 98 4.262617 CTCATGCTGGGATATCATCAAGG 58.737 47.826 4.83 0.00 0.00 3.61
98 99 3.690139 GCTCATGCTGGGATATCATCAAG 59.310 47.826 4.83 0.00 36.03 3.02
99 100 3.682696 GCTCATGCTGGGATATCATCAA 58.317 45.455 4.83 0.00 36.03 2.57
100 101 2.354403 CGCTCATGCTGGGATATCATCA 60.354 50.000 4.83 1.65 36.97 3.07
101 102 2.277969 CGCTCATGCTGGGATATCATC 58.722 52.381 4.83 0.00 36.97 2.92
102 103 1.065636 CCGCTCATGCTGGGATATCAT 60.066 52.381 4.83 0.00 36.97 2.45
103 104 0.322648 CCGCTCATGCTGGGATATCA 59.677 55.000 4.83 0.00 36.97 2.15
104 105 0.610174 TCCGCTCATGCTGGGATATC 59.390 55.000 0.00 0.00 36.97 1.63
105 106 0.612229 CTCCGCTCATGCTGGGATAT 59.388 55.000 0.00 0.00 36.97 1.63
106 107 1.475169 CCTCCGCTCATGCTGGGATA 61.475 60.000 0.00 0.00 36.97 2.59
107 108 2.815945 CCTCCGCTCATGCTGGGAT 61.816 63.158 0.00 0.00 36.97 3.85
108 109 3.473647 CCTCCGCTCATGCTGGGA 61.474 66.667 0.00 0.00 36.97 4.37
109 110 3.035173 TTCCTCCGCTCATGCTGGG 62.035 63.158 0.00 0.00 36.97 4.45
110 111 1.817099 GTTCCTCCGCTCATGCTGG 60.817 63.158 0.00 0.00 36.97 4.85
111 112 0.809241 GAGTTCCTCCGCTCATGCTG 60.809 60.000 0.00 0.00 36.97 4.41
112 113 1.519719 GAGTTCCTCCGCTCATGCT 59.480 57.895 0.00 0.00 36.97 3.79
113 114 1.522580 GGAGTTCCTCCGCTCATGC 60.523 63.158 0.00 0.00 41.08 4.06
114 115 4.844420 GGAGTTCCTCCGCTCATG 57.156 61.111 0.00 0.00 41.08 3.07
121 122 0.738762 GTTTACCGCGGAGTTCCTCC 60.739 60.000 35.90 6.90 46.44 4.30
122 123 0.738762 GGTTTACCGCGGAGTTCCTC 60.739 60.000 35.90 14.25 0.00 3.71
123 124 1.294459 GGTTTACCGCGGAGTTCCT 59.706 57.895 35.90 11.18 0.00 3.36
124 125 1.742880 GGGTTTACCGCGGAGTTCC 60.743 63.158 35.90 25.66 36.71 3.62
125 126 3.880591 GGGTTTACCGCGGAGTTC 58.119 61.111 35.90 18.41 36.71 3.01
156 157 1.545706 AAGCTCCCCTCCGACAAGTC 61.546 60.000 0.00 0.00 0.00 3.01
157 158 1.536662 AAGCTCCCCTCCGACAAGT 60.537 57.895 0.00 0.00 0.00 3.16
158 159 1.219393 GAAGCTCCCCTCCGACAAG 59.781 63.158 0.00 0.00 0.00 3.16
159 160 2.291043 GGAAGCTCCCCTCCGACAA 61.291 63.158 0.00 0.00 0.00 3.18
160 161 2.683933 GGAAGCTCCCCTCCGACA 60.684 66.667 0.00 0.00 0.00 4.35
161 162 2.364448 AGGAAGCTCCCCTCCGAC 60.364 66.667 2.00 0.00 37.19 4.79
162 163 2.243774 ATCAGGAAGCTCCCCTCCGA 62.244 60.000 4.75 2.71 37.19 4.55
163 164 1.764054 ATCAGGAAGCTCCCCTCCG 60.764 63.158 4.75 0.00 37.19 4.63
164 165 1.704007 CCATCAGGAAGCTCCCCTCC 61.704 65.000 4.75 0.00 37.19 4.30
165 166 1.835693 CCATCAGGAAGCTCCCCTC 59.164 63.158 4.75 0.00 37.19 4.30
166 167 2.381941 GCCATCAGGAAGCTCCCCT 61.382 63.158 2.00 2.00 37.19 4.79
167 168 2.194326 GCCATCAGGAAGCTCCCC 59.806 66.667 0.00 0.00 37.19 4.81
168 169 2.203126 CGCCATCAGGAAGCTCCC 60.203 66.667 0.00 0.00 37.19 4.30
169 170 2.203126 CCGCCATCAGGAAGCTCC 60.203 66.667 0.00 0.00 36.89 4.70
170 171 2.899339 GCCGCCATCAGGAAGCTC 60.899 66.667 0.00 0.00 36.89 4.09
171 172 4.496336 GGCCGCCATCAGGAAGCT 62.496 66.667 3.91 0.00 36.89 3.74
173 174 4.113815 TGGGCCGCCATCAGGAAG 62.114 66.667 12.58 0.00 36.89 3.46
174 175 4.113815 CTGGGCCGCCATCAGGAA 62.114 66.667 12.58 0.00 36.89 3.36
176 177 3.839353 GATCTGGGCCGCCATCAGG 62.839 68.421 12.58 0.00 38.23 3.86
177 178 2.281345 GATCTGGGCCGCCATCAG 60.281 66.667 12.58 10.45 0.00 2.90
178 179 2.769621 AGATCTGGGCCGCCATCA 60.770 61.111 12.58 0.00 0.00 3.07
179 180 2.031768 GAGATCTGGGCCGCCATC 59.968 66.667 12.58 5.92 0.00 3.51
180 181 3.933722 CGAGATCTGGGCCGCCAT 61.934 66.667 12.58 0.00 0.00 4.40
182 183 4.593864 GACGAGATCTGGGCCGCC 62.594 72.222 9.72 0.00 0.00 6.13
183 184 4.933064 CGACGAGATCTGGGCCGC 62.933 72.222 9.72 0.00 0.00 6.53
184 185 4.271816 CCGACGAGATCTGGGCCG 62.272 72.222 9.72 11.32 0.00 6.13
185 186 3.148279 ACCGACGAGATCTGGGCC 61.148 66.667 9.72 0.00 0.00 5.80
186 187 2.105128 CACCGACGAGATCTGGGC 59.895 66.667 9.72 4.95 0.00 5.36
187 188 2.052690 ACCACCGACGAGATCTGGG 61.053 63.158 9.72 3.71 0.00 4.45
188 189 1.139734 CACCACCGACGAGATCTGG 59.860 63.158 0.00 0.00 0.00 3.86
189 190 0.526211 TTCACCACCGACGAGATCTG 59.474 55.000 0.00 0.00 0.00 2.90
190 191 1.202582 CTTTCACCACCGACGAGATCT 59.797 52.381 0.00 0.00 0.00 2.75
191 192 1.630148 CTTTCACCACCGACGAGATC 58.370 55.000 0.00 0.00 0.00 2.75
192 193 0.246635 CCTTTCACCACCGACGAGAT 59.753 55.000 0.00 0.00 0.00 2.75
193 194 1.663739 CCTTTCACCACCGACGAGA 59.336 57.895 0.00 0.00 0.00 4.04
194 195 2.027625 GCCTTTCACCACCGACGAG 61.028 63.158 0.00 0.00 0.00 4.18
195 196 2.029964 GCCTTTCACCACCGACGA 59.970 61.111 0.00 0.00 0.00 4.20
196 197 2.027625 GAGCCTTTCACCACCGACG 61.028 63.158 0.00 0.00 0.00 5.12
197 198 1.671379 GGAGCCTTTCACCACCGAC 60.671 63.158 0.00 0.00 0.00 4.79
198 199 1.827399 GAGGAGCCTTTCACCACCGA 61.827 60.000 0.00 0.00 0.00 4.69
199 200 1.376037 GAGGAGCCTTTCACCACCG 60.376 63.158 0.00 0.00 0.00 4.94
200 201 0.110486 TTGAGGAGCCTTTCACCACC 59.890 55.000 0.00 0.00 0.00 4.61
201 202 1.072331 TCTTGAGGAGCCTTTCACCAC 59.928 52.381 0.00 0.00 0.00 4.16
202 203 1.349026 CTCTTGAGGAGCCTTTCACCA 59.651 52.381 0.00 0.00 35.08 4.17
203 204 1.625818 TCTCTTGAGGAGCCTTTCACC 59.374 52.381 0.00 0.00 41.60 4.02
204 205 2.564947 TCTCTCTTGAGGAGCCTTTCAC 59.435 50.000 0.00 0.00 41.60 3.18
205 206 2.894731 TCTCTCTTGAGGAGCCTTTCA 58.105 47.619 0.00 0.00 41.60 2.69
206 207 3.860641 CTTCTCTCTTGAGGAGCCTTTC 58.139 50.000 0.00 0.00 38.92 2.62
207 208 3.979101 CTTCTCTCTTGAGGAGCCTTT 57.021 47.619 0.00 0.00 38.92 3.11
213 214 3.057174 GCTTTCGACTTCTCTCTTGAGGA 60.057 47.826 0.00 0.00 40.58 3.71
214 215 3.249917 GCTTTCGACTTCTCTCTTGAGG 58.750 50.000 0.00 0.00 40.58 3.86
215 216 3.672867 GTGCTTTCGACTTCTCTCTTGAG 59.327 47.826 0.00 0.00 41.51 3.02
216 217 3.553096 GGTGCTTTCGACTTCTCTCTTGA 60.553 47.826 0.00 0.00 0.00 3.02
217 218 2.734079 GGTGCTTTCGACTTCTCTCTTG 59.266 50.000 0.00 0.00 0.00 3.02
218 219 2.608261 CGGTGCTTTCGACTTCTCTCTT 60.608 50.000 0.00 0.00 0.00 2.85
219 220 1.068194 CGGTGCTTTCGACTTCTCTCT 60.068 52.381 0.00 0.00 0.00 3.10
220 221 1.341606 CGGTGCTTTCGACTTCTCTC 58.658 55.000 0.00 0.00 0.00 3.20
221 222 0.038159 CCGGTGCTTTCGACTTCTCT 60.038 55.000 0.00 0.00 0.00 3.10
222 223 1.014564 CCCGGTGCTTTCGACTTCTC 61.015 60.000 0.00 0.00 0.00 2.87
223 224 1.004918 CCCGGTGCTTTCGACTTCT 60.005 57.895 0.00 0.00 0.00 2.85
224 225 2.033194 CCCCGGTGCTTTCGACTTC 61.033 63.158 0.00 0.00 0.00 3.01
225 226 2.032071 CCCCGGTGCTTTCGACTT 59.968 61.111 0.00 0.00 0.00 3.01
226 227 3.239253 ACCCCGGTGCTTTCGACT 61.239 61.111 0.00 0.00 0.00 4.18
227 228 3.047877 CACCCCGGTGCTTTCGAC 61.048 66.667 0.00 0.00 39.39 4.20
228 229 4.323477 CCACCCCGGTGCTTTCGA 62.323 66.667 8.45 0.00 44.16 3.71
245 246 1.022451 TTAACCTCGACGCCATTGGC 61.022 55.000 18.10 18.10 46.75 4.52
246 247 1.006832 CTTAACCTCGACGCCATTGG 58.993 55.000 0.00 0.00 0.00 3.16
247 248 1.927174 CTCTTAACCTCGACGCCATTG 59.073 52.381 0.00 0.00 0.00 2.82
248 249 1.822990 TCTCTTAACCTCGACGCCATT 59.177 47.619 0.00 0.00 0.00 3.16
249 250 1.405821 CTCTCTTAACCTCGACGCCAT 59.594 52.381 0.00 0.00 0.00 4.40
250 251 0.809385 CTCTCTTAACCTCGACGCCA 59.191 55.000 0.00 0.00 0.00 5.69
251 252 0.100861 CCTCTCTTAACCTCGACGCC 59.899 60.000 0.00 0.00 0.00 5.68
252 253 0.810016 ACCTCTCTTAACCTCGACGC 59.190 55.000 0.00 0.00 0.00 5.19
253 254 1.132643 CCACCTCTCTTAACCTCGACG 59.867 57.143 0.00 0.00 0.00 5.12
254 255 2.169330 ACCACCTCTCTTAACCTCGAC 58.831 52.381 0.00 0.00 0.00 4.20
255 256 2.599408 ACCACCTCTCTTAACCTCGA 57.401 50.000 0.00 0.00 0.00 4.04
256 257 2.826725 AGAACCACCTCTCTTAACCTCG 59.173 50.000 0.00 0.00 0.00 4.63
257 258 3.579151 ACAGAACCACCTCTCTTAACCTC 59.421 47.826 0.00 0.00 0.00 3.85
258 259 3.588569 ACAGAACCACCTCTCTTAACCT 58.411 45.455 0.00 0.00 0.00 3.50
259 260 5.011840 AGTTACAGAACCACCTCTCTTAACC 59.988 44.000 0.00 0.00 36.08 2.85
260 261 6.099159 AGTTACAGAACCACCTCTCTTAAC 57.901 41.667 0.00 0.00 36.08 2.01
261 262 5.836898 TGAGTTACAGAACCACCTCTCTTAA 59.163 40.000 0.00 0.00 36.08 1.85
262 263 5.391256 TGAGTTACAGAACCACCTCTCTTA 58.609 41.667 0.00 0.00 36.08 2.10
263 264 4.223953 TGAGTTACAGAACCACCTCTCTT 58.776 43.478 0.00 0.00 36.08 2.85
264 265 3.845860 TGAGTTACAGAACCACCTCTCT 58.154 45.455 0.00 0.00 36.08 3.10
265 266 4.602340 TTGAGTTACAGAACCACCTCTC 57.398 45.455 0.00 0.00 36.08 3.20
266 267 5.367945 TTTTGAGTTACAGAACCACCTCT 57.632 39.130 0.00 0.00 36.08 3.69
267 268 6.635030 ATTTTTGAGTTACAGAACCACCTC 57.365 37.500 0.00 0.00 36.08 3.85
268 269 8.706322 AATATTTTTGAGTTACAGAACCACCT 57.294 30.769 0.00 0.00 36.08 4.00
269 270 9.836076 GTAATATTTTTGAGTTACAGAACCACC 57.164 33.333 0.00 0.00 36.08 4.61
378 379 4.237349 AGACGGTTTGGCAGTTTAAATG 57.763 40.909 0.00 0.00 0.00 2.32
394 395 4.565564 CCTCCGTTTCTAAATGTAAGACGG 59.434 45.833 5.73 5.73 35.21 4.79
413 414 8.225416 AGGGGACATAAAATTATTCTTACCTCC 58.775 37.037 0.00 0.00 0.00 4.30
420 421 9.715119 AGCTTTAAGGGGACATAAAATTATTCT 57.285 29.630 0.00 0.00 0.00 2.40
556 2248 7.378966 CCTGTCTTCACTGAGACTATTTGTAA 58.621 38.462 6.59 0.00 44.99 2.41
578 2300 5.182760 CCTTTCATCTCTTTTTGTCTCCCTG 59.817 44.000 0.00 0.00 0.00 4.45
697 2447 9.467796 AGAAGAAAGAAAGAAAGAAGAAAGGAA 57.532 29.630 0.00 0.00 0.00 3.36
764 2514 0.035317 TGGAGGTGTTAGCAGCAGTG 59.965 55.000 11.47 0.00 44.89 3.66
801 2551 4.884164 GGCTAGTTGGAGAATAATGCTTGT 59.116 41.667 0.00 0.00 0.00 3.16
949 2708 7.559897 ACAAGAAAGAAAACTAAGGTGGATTGA 59.440 33.333 0.00 0.00 0.00 2.57
1029 2792 1.290955 CGCCACCTCGAACACCTTA 59.709 57.895 0.00 0.00 0.00 2.69
1079 2842 2.665185 GCGCCACGTTCTGGAAGT 60.665 61.111 0.00 0.00 43.95 3.01
1165 2928 3.124636 GCACCGTTTGTATGAATCTCGTT 59.875 43.478 0.00 0.00 0.00 3.85
1256 3035 4.678256 ACAGTCCAGAACTAGGAGATTCA 58.322 43.478 0.00 0.00 36.07 2.57
1289 3080 5.047872 GGCCAATTATGTGATGATGCATGTA 60.048 40.000 2.46 0.00 0.00 2.29
1377 3250 1.343142 TGACTGCACGGAGAAAGCTAA 59.657 47.619 0.00 0.00 0.00 3.09
1439 3315 6.279513 AGAGACCATGCATATTAGTAGAGC 57.720 41.667 0.00 0.00 0.00 4.09
1558 3472 7.981102 ACAAAATTCAGTAGGGAGAACTTAC 57.019 36.000 0.00 0.00 0.00 2.34
1559 3473 8.846211 CAAACAAAATTCAGTAGGGAGAACTTA 58.154 33.333 0.00 0.00 0.00 2.24
1560 3474 7.342026 ACAAACAAAATTCAGTAGGGAGAACTT 59.658 33.333 0.00 0.00 0.00 2.66
1561 3475 6.833933 ACAAACAAAATTCAGTAGGGAGAACT 59.166 34.615 0.00 0.00 0.00 3.01
1562 3476 7.039313 ACAAACAAAATTCAGTAGGGAGAAC 57.961 36.000 0.00 0.00 0.00 3.01
1565 3479 7.745620 ACTACAAACAAAATTCAGTAGGGAG 57.254 36.000 0.00 0.00 34.71 4.30
1566 3480 8.528044 AAACTACAAACAAAATTCAGTAGGGA 57.472 30.769 0.00 0.00 34.71 4.20
1596 3510 8.552469 GTAAATGCTACTACATTTGCAAGATG 57.448 34.615 15.58 15.58 46.84 2.90
1619 3533 8.388656 AGATACCCAAGAATGGTAAAGAAGTA 57.611 34.615 0.00 0.00 46.01 2.24
1799 3989 6.826741 AGGCGAAACAAGCTTAAGGATAATAA 59.173 34.615 0.00 0.00 34.52 1.40
1857 4050 6.824958 AGGGCTCTAGAAATTAATACACCA 57.175 37.500 0.00 0.00 0.00 4.17
1951 4145 7.118390 CCTTTATGACTAGTTTGACTGAGTTGG 59.882 40.741 0.00 0.00 0.00 3.77
1982 4176 4.512571 GCATGTTGCTTTCAGAAACCAATT 59.487 37.500 6.86 0.00 40.96 2.32
2154 4365 5.229423 GCTGAGCAACACCATTTTGAATTA 58.771 37.500 0.00 0.00 0.00 1.40
2157 4368 2.543445 CGCTGAGCAACACCATTTTGAA 60.543 45.455 4.88 0.00 0.00 2.69
2158 4369 1.001487 CGCTGAGCAACACCATTTTGA 60.001 47.619 4.88 0.00 0.00 2.69
2177 4388 3.487202 CCGCCACGTGGAACATCG 61.487 66.667 38.30 28.25 44.52 3.84
2200 4411 8.391106 GTGATAAACCTAACAGCAGTTCATTAG 58.609 37.037 0.00 0.00 39.15 1.73
2203 4414 6.476378 AGTGATAAACCTAACAGCAGTTCAT 58.524 36.000 0.00 0.00 39.15 2.57


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

AutoCloner maintained by Alex Coulton.