Multiple sequence alignment - TraesCS7A01G382700

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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 TraesCS7A01G382700 chr7A 100.000 2486 0 0 1 2486 556922313 556919828 0.000000e+00 4591.0
1 TraesCS7A01G382700 chr7D 93.942 2179 69 21 333 2467 490882366 490880207 0.000000e+00 3234.0
2 TraesCS7A01G382700 chr7D 90.323 93 5 3 87 179 490882507 490882419 4.340000e-23 119.0
3 TraesCS7A01G382700 chr7B 90.668 2229 99 35 333 2486 519525131 519522937 0.000000e+00 2863.0
4 TraesCS7A01G382700 chr6B 80.488 492 80 14 1000 1486 38971330 38971810 1.820000e-96 363.0
5 TraesCS7A01G382700 chr6A 80.244 491 83 12 1000 1486 22555334 22555814 8.460000e-95 357.0
6 TraesCS7A01G382700 chr6D 80.041 491 84 12 1000 1486 24029268 24029748 3.930000e-93 351.0
7 TraesCS7A01G382700 chr2D 94.000 50 3 0 1089 1138 27062588 27062637 2.650000e-10 76.8


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 TraesCS7A01G382700 chr7A 556919828 556922313 2485 True 4591.0 4591 100.0000 1 2486 1 chr7A.!!$R1 2485
1 TraesCS7A01G382700 chr7D 490880207 490882507 2300 True 1676.5 3234 92.1325 87 2467 2 chr7D.!!$R1 2380
2 TraesCS7A01G382700 chr7B 519522937 519525131 2194 True 2863.0 2863 90.6680 333 2486 1 chr7B.!!$R1 2153

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
412 413 0.025513 GCTAAGCGAGCGTGTCATTG 59.974 55.0 0.0 0.0 42.62 2.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1795 1841 0.30289 GATCGATCAACCTTGCAGCG 59.697 55.0 20.52 0.0 0.0 5.18 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
21 22 3.029810 TGCGGTGCACAACATGTC 58.970 55.556 20.43 0.00 31.71 3.06
22 23 2.127270 GCGGTGCACAACATGTCG 60.127 61.111 20.43 11.98 0.00 4.35
23 24 2.555782 CGGTGCACAACATGTCGG 59.444 61.111 20.43 0.00 0.00 4.79
24 25 2.953821 GGTGCACAACATGTCGGG 59.046 61.111 20.43 0.00 0.00 5.14
25 26 2.625823 GGTGCACAACATGTCGGGG 61.626 63.158 20.43 0.00 0.00 5.73
26 27 1.896660 GTGCACAACATGTCGGGGT 60.897 57.895 13.17 0.00 0.00 4.95
27 28 1.896183 TGCACAACATGTCGGGGTG 60.896 57.895 0.00 7.15 0.00 4.61
28 29 1.896660 GCACAACATGTCGGGGTGT 60.897 57.895 16.31 7.73 0.00 4.16
29 30 0.604243 GCACAACATGTCGGGGTGTA 60.604 55.000 16.31 0.00 0.00 2.90
30 31 1.885560 CACAACATGTCGGGGTGTAA 58.114 50.000 0.00 0.00 0.00 2.41
31 32 2.222886 CACAACATGTCGGGGTGTAAA 58.777 47.619 0.00 0.00 0.00 2.01
32 33 2.225491 CACAACATGTCGGGGTGTAAAG 59.775 50.000 0.00 0.00 0.00 1.85
33 34 1.199097 CAACATGTCGGGGTGTAAAGC 59.801 52.381 0.00 0.00 0.00 3.51
34 35 0.398696 ACATGTCGGGGTGTAAAGCA 59.601 50.000 0.00 0.00 0.00 3.91
35 36 1.004277 ACATGTCGGGGTGTAAAGCAT 59.996 47.619 0.00 0.00 0.00 3.79
36 37 2.091541 CATGTCGGGGTGTAAAGCATT 58.908 47.619 0.00 0.00 0.00 3.56
37 38 2.279935 TGTCGGGGTGTAAAGCATTT 57.720 45.000 0.00 0.00 43.42 2.32
38 39 1.883275 TGTCGGGGTGTAAAGCATTTG 59.117 47.619 0.00 0.00 39.63 2.32
39 40 1.883926 GTCGGGGTGTAAAGCATTTGT 59.116 47.619 0.00 0.00 39.63 2.83
40 41 2.095415 GTCGGGGTGTAAAGCATTTGTC 60.095 50.000 0.00 0.00 39.63 3.18
41 42 1.201414 CGGGGTGTAAAGCATTTGTCC 59.799 52.381 0.00 0.00 39.63 4.02
42 43 2.243810 GGGGTGTAAAGCATTTGTCCA 58.756 47.619 0.00 0.00 39.63 4.02
43 44 2.029380 GGGGTGTAAAGCATTTGTCCAC 60.029 50.000 0.00 0.00 39.63 4.02
44 45 2.625790 GGGTGTAAAGCATTTGTCCACA 59.374 45.455 0.00 0.00 39.63 4.17
45 46 3.552068 GGGTGTAAAGCATTTGTCCACAC 60.552 47.826 0.00 0.00 40.98 3.82
46 47 3.067461 GGTGTAAAGCATTTGTCCACACA 59.933 43.478 6.91 0.00 42.55 3.72
47 48 4.261994 GGTGTAAAGCATTTGTCCACACAT 60.262 41.667 6.91 0.00 42.55 3.21
48 49 5.288804 GTGTAAAGCATTTGTCCACACATT 58.711 37.500 0.98 0.00 41.22 2.71
49 50 5.402270 GTGTAAAGCATTTGTCCACACATTC 59.598 40.000 0.98 0.00 41.22 2.67
50 51 2.995466 AGCATTTGTCCACACATTCG 57.005 45.000 0.00 0.00 30.55 3.34
51 52 2.503331 AGCATTTGTCCACACATTCGA 58.497 42.857 0.00 0.00 30.55 3.71
52 53 2.884012 AGCATTTGTCCACACATTCGAA 59.116 40.909 0.00 0.00 30.55 3.71
53 54 2.979813 GCATTTGTCCACACATTCGAAC 59.020 45.455 0.00 0.00 30.55 3.95
54 55 3.225548 CATTTGTCCACACATTCGAACG 58.774 45.455 0.00 0.00 30.55 3.95
55 56 1.942677 TTGTCCACACATTCGAACGT 58.057 45.000 0.00 0.00 30.55 3.99
56 57 2.797074 TGTCCACACATTCGAACGTA 57.203 45.000 0.00 0.00 0.00 3.57
57 58 3.095102 TGTCCACACATTCGAACGTAA 57.905 42.857 0.00 0.00 0.00 3.18
58 59 3.655486 TGTCCACACATTCGAACGTAAT 58.345 40.909 0.00 0.00 0.00 1.89
59 60 3.430556 TGTCCACACATTCGAACGTAATG 59.569 43.478 0.00 7.78 39.68 1.90
60 61 3.676172 GTCCACACATTCGAACGTAATGA 59.324 43.478 14.80 0.00 37.68 2.57
61 62 4.150980 GTCCACACATTCGAACGTAATGAA 59.849 41.667 14.80 7.81 37.68 2.57
62 63 4.932799 TCCACACATTCGAACGTAATGAAT 59.067 37.500 14.80 9.58 37.68 2.57
63 64 5.410132 TCCACACATTCGAACGTAATGAATT 59.590 36.000 14.80 2.82 37.68 2.17
64 65 5.507876 CCACACATTCGAACGTAATGAATTG 59.492 40.000 14.80 13.33 37.68 2.32
65 66 5.507876 CACACATTCGAACGTAATGAATTGG 59.492 40.000 14.80 8.97 37.68 3.16
66 67 5.410132 ACACATTCGAACGTAATGAATTGGA 59.590 36.000 14.80 0.00 37.68 3.53
67 68 6.093495 ACACATTCGAACGTAATGAATTGGAT 59.907 34.615 14.80 0.00 37.68 3.41
68 69 6.966632 CACATTCGAACGTAATGAATTGGATT 59.033 34.615 14.80 0.00 37.68 3.01
69 70 7.164171 CACATTCGAACGTAATGAATTGGATTC 59.836 37.037 14.80 0.00 37.68 2.52
70 71 6.978343 TTCGAACGTAATGAATTGGATTCT 57.022 33.333 0.00 0.00 39.96 2.40
71 72 6.978343 TCGAACGTAATGAATTGGATTCTT 57.022 33.333 0.00 0.00 39.96 2.52
72 73 6.771076 TCGAACGTAATGAATTGGATTCTTG 58.229 36.000 0.00 0.00 39.96 3.02
73 74 5.965334 CGAACGTAATGAATTGGATTCTTGG 59.035 40.000 0.00 0.00 39.96 3.61
74 75 6.403200 CGAACGTAATGAATTGGATTCTTGGT 60.403 38.462 0.00 0.00 39.96 3.67
75 76 6.834168 ACGTAATGAATTGGATTCTTGGTT 57.166 33.333 0.00 0.00 39.96 3.67
76 77 7.227049 ACGTAATGAATTGGATTCTTGGTTT 57.773 32.000 0.00 0.00 39.96 3.27
77 78 7.666623 ACGTAATGAATTGGATTCTTGGTTTT 58.333 30.769 0.00 0.00 39.96 2.43
78 79 8.798402 ACGTAATGAATTGGATTCTTGGTTTTA 58.202 29.630 0.00 0.00 39.96 1.52
79 80 9.632807 CGTAATGAATTGGATTCTTGGTTTTAA 57.367 29.630 2.74 0.00 39.96 1.52
82 83 9.844257 AATGAATTGGATTCTTGGTTTTAAACA 57.156 25.926 10.14 0.00 39.96 2.83
83 84 8.655651 TGAATTGGATTCTTGGTTTTAAACAC 57.344 30.769 10.14 0.34 39.96 3.32
84 85 8.260818 TGAATTGGATTCTTGGTTTTAAACACA 58.739 29.630 10.14 2.92 39.96 3.72
85 86 9.271828 GAATTGGATTCTTGGTTTTAAACACAT 57.728 29.630 10.14 0.00 36.37 3.21
151 152 6.039717 TGCCAAAGCATCCTCTTTATTCATAC 59.960 38.462 0.00 0.00 46.52 2.39
152 153 6.515696 GCCAAAGCATCCTCTTTATTCATACC 60.516 42.308 0.00 0.00 39.53 2.73
179 180 8.217131 ACGTTTTGTTATTTGAGGTAGACTTT 57.783 30.769 0.00 0.00 0.00 2.66
180 181 8.126700 ACGTTTTGTTATTTGAGGTAGACTTTG 58.873 33.333 0.00 0.00 0.00 2.77
181 182 7.589954 CGTTTTGTTATTTGAGGTAGACTTTGG 59.410 37.037 0.00 0.00 0.00 3.28
182 183 8.410912 GTTTTGTTATTTGAGGTAGACTTTGGT 58.589 33.333 0.00 0.00 0.00 3.67
183 184 8.528044 TTTGTTATTTGAGGTAGACTTTGGTT 57.472 30.769 0.00 0.00 0.00 3.67
184 185 7.739498 TGTTATTTGAGGTAGACTTTGGTTC 57.261 36.000 0.00 0.00 0.00 3.62
185 186 7.284074 TGTTATTTGAGGTAGACTTTGGTTCA 58.716 34.615 0.00 0.00 0.00 3.18
186 187 7.942341 TGTTATTTGAGGTAGACTTTGGTTCAT 59.058 33.333 0.00 0.00 0.00 2.57
187 188 8.793592 GTTATTTGAGGTAGACTTTGGTTCATT 58.206 33.333 0.00 0.00 0.00 2.57
188 189 6.633500 TTTGAGGTAGACTTTGGTTCATTG 57.367 37.500 0.00 0.00 0.00 2.82
189 190 5.560722 TGAGGTAGACTTTGGTTCATTGA 57.439 39.130 0.00 0.00 0.00 2.57
190 191 5.935945 TGAGGTAGACTTTGGTTCATTGAA 58.064 37.500 0.00 0.00 0.00 2.69
191 192 6.361433 TGAGGTAGACTTTGGTTCATTGAAA 58.639 36.000 0.00 0.00 0.00 2.69
192 193 6.831353 TGAGGTAGACTTTGGTTCATTGAAAA 59.169 34.615 0.00 0.00 0.00 2.29
193 194 7.013274 TGAGGTAGACTTTGGTTCATTGAAAAG 59.987 37.037 0.00 4.42 36.06 2.27
194 195 6.833933 AGGTAGACTTTGGTTCATTGAAAAGT 59.166 34.615 12.54 12.54 43.61 2.66
195 196 6.918022 GGTAGACTTTGGTTCATTGAAAAGTG 59.082 38.462 16.03 3.89 41.62 3.16
196 197 5.351458 AGACTTTGGTTCATTGAAAAGTGC 58.649 37.500 16.03 9.84 41.62 4.40
197 198 5.083533 ACTTTGGTTCATTGAAAAGTGCA 57.916 34.783 12.10 0.00 40.42 4.57
198 199 5.673514 ACTTTGGTTCATTGAAAAGTGCAT 58.326 33.333 12.10 0.00 40.42 3.96
199 200 6.114767 ACTTTGGTTCATTGAAAAGTGCATT 58.885 32.000 12.10 0.00 40.42 3.56
200 201 6.598850 ACTTTGGTTCATTGAAAAGTGCATTT 59.401 30.769 12.10 0.00 40.42 2.32
201 202 6.998968 TTGGTTCATTGAAAAGTGCATTTT 57.001 29.167 0.65 0.65 43.88 1.82
202 203 6.998968 TGGTTCATTGAAAAGTGCATTTTT 57.001 29.167 18.60 18.60 41.24 1.94
203 204 7.014092 TGGTTCATTGAAAAGTGCATTTTTC 57.986 32.000 30.10 30.10 41.24 2.29
204 205 6.822676 TGGTTCATTGAAAAGTGCATTTTTCT 59.177 30.769 33.62 20.28 43.89 2.52
205 206 7.336427 TGGTTCATTGAAAAGTGCATTTTTCTT 59.664 29.630 33.62 23.64 43.89 2.52
213 214 4.861102 AGTGCATTTTTCTTCCCTCAAG 57.139 40.909 0.00 0.00 0.00 3.02
233 234 4.243007 AGAAGGGAAAAAGAAATGTGCG 57.757 40.909 0.00 0.00 0.00 5.34
236 237 2.029918 AGGGAAAAAGAAATGTGCGCTC 60.030 45.455 9.73 5.51 0.00 5.03
237 238 2.328473 GGAAAAAGAAATGTGCGCTCC 58.672 47.619 9.73 0.00 0.00 4.70
238 239 2.328473 GAAAAAGAAATGTGCGCTCCC 58.672 47.619 9.73 0.00 0.00 4.30
239 240 1.327303 AAAAGAAATGTGCGCTCCCA 58.673 45.000 9.73 2.81 0.00 4.37
240 241 1.327303 AAAGAAATGTGCGCTCCCAA 58.673 45.000 9.73 0.00 0.00 4.12
242 243 1.549203 AGAAATGTGCGCTCCCAAAT 58.451 45.000 9.73 0.00 0.00 2.32
243 244 1.895131 AGAAATGTGCGCTCCCAAATT 59.105 42.857 9.73 0.00 0.00 1.82
244 245 3.088532 AGAAATGTGCGCTCCCAAATTA 58.911 40.909 9.73 0.00 0.00 1.40
245 246 3.509575 AGAAATGTGCGCTCCCAAATTAA 59.490 39.130 9.73 0.00 0.00 1.40
246 247 2.939460 ATGTGCGCTCCCAAATTAAC 57.061 45.000 9.73 0.00 0.00 2.01
247 248 0.885196 TGTGCGCTCCCAAATTAACC 59.115 50.000 9.73 0.00 0.00 2.85
248 249 0.179174 GTGCGCTCCCAAATTAACCG 60.179 55.000 9.73 0.00 0.00 4.44
249 250 1.309499 TGCGCTCCCAAATTAACCGG 61.309 55.000 9.73 0.00 0.00 5.28
250 251 1.027792 GCGCTCCCAAATTAACCGGA 61.028 55.000 9.46 0.00 0.00 5.14
251 252 1.455248 CGCTCCCAAATTAACCGGAA 58.545 50.000 9.46 0.00 0.00 4.30
252 253 1.131693 CGCTCCCAAATTAACCGGAAC 59.868 52.381 9.46 0.00 0.00 3.62
279 280 6.055231 AGAAAATCTCAGACGATCTAGACG 57.945 41.667 11.54 11.54 0.00 4.18
280 281 5.587043 AGAAAATCTCAGACGATCTAGACGT 59.413 40.000 16.66 16.66 46.58 4.34
281 282 7.986428 GAGAAAATCTCAGACGATCTAGACGTC 60.986 44.444 26.55 26.55 45.35 4.34
291 292 6.922247 ACGATCTAGACGTCTTAATCTTGA 57.078 37.500 25.44 10.80 39.87 3.02
292 293 6.950545 ACGATCTAGACGTCTTAATCTTGAG 58.049 40.000 25.44 12.30 39.87 3.02
293 294 6.762187 ACGATCTAGACGTCTTAATCTTGAGA 59.238 38.462 25.44 17.39 39.87 3.27
294 295 7.280428 ACGATCTAGACGTCTTAATCTTGAGAA 59.720 37.037 25.44 0.00 39.87 2.87
295 296 8.123575 CGATCTAGACGTCTTAATCTTGAGAAA 58.876 37.037 25.44 0.00 31.68 2.52
296 297 9.959749 GATCTAGACGTCTTAATCTTGAGAAAT 57.040 33.333 25.44 3.55 31.68 2.17
301 302 7.911205 AGACGTCTTAATCTTGAGAAATAGACG 59.089 37.037 24.41 24.41 45.92 4.18
302 303 6.973474 ACGTCTTAATCTTGAGAAATAGACGG 59.027 38.462 26.80 17.53 45.42 4.79
303 304 6.418226 CGTCTTAATCTTGAGAAATAGACGGG 59.582 42.308 21.47 6.99 42.05 5.28
304 305 6.201234 GTCTTAATCTTGAGAAATAGACGGGC 59.799 42.308 0.00 0.00 0.00 6.13
305 306 2.981859 TCTTGAGAAATAGACGGGCC 57.018 50.000 0.00 0.00 0.00 5.80
306 307 2.467880 TCTTGAGAAATAGACGGGCCT 58.532 47.619 0.84 0.00 0.00 5.19
307 308 2.838202 TCTTGAGAAATAGACGGGCCTT 59.162 45.455 0.84 0.00 0.00 4.35
308 309 2.981859 TGAGAAATAGACGGGCCTTC 57.018 50.000 0.84 0.90 0.00 3.46
309 310 2.184533 TGAGAAATAGACGGGCCTTCA 58.815 47.619 13.04 0.00 0.00 3.02
310 311 2.771943 TGAGAAATAGACGGGCCTTCAT 59.228 45.455 13.04 1.30 0.00 2.57
311 312 3.199946 TGAGAAATAGACGGGCCTTCATT 59.800 43.478 13.04 7.24 0.00 2.57
312 313 4.200092 GAGAAATAGACGGGCCTTCATTT 58.800 43.478 13.04 14.41 0.00 2.32
313 314 5.104693 TGAGAAATAGACGGGCCTTCATTTA 60.105 40.000 13.04 0.00 0.00 1.40
314 315 5.123936 AGAAATAGACGGGCCTTCATTTAC 58.876 41.667 13.04 9.60 0.00 2.01
315 316 2.994186 TAGACGGGCCTTCATTTACC 57.006 50.000 13.04 0.00 0.00 2.85
316 317 0.255033 AGACGGGCCTTCATTTACCC 59.745 55.000 13.04 0.00 39.12 3.69
317 318 0.750546 GACGGGCCTTCATTTACCCC 60.751 60.000 0.84 0.00 39.34 4.95
318 319 1.212250 ACGGGCCTTCATTTACCCCT 61.212 55.000 0.84 0.00 39.34 4.79
319 320 0.033503 CGGGCCTTCATTTACCCCTT 60.034 55.000 0.84 0.00 39.34 3.95
320 321 1.776662 GGGCCTTCATTTACCCCTTC 58.223 55.000 0.84 0.00 36.24 3.46
321 322 1.288037 GGGCCTTCATTTACCCCTTCT 59.712 52.381 0.84 0.00 36.24 2.85
322 323 2.292257 GGGCCTTCATTTACCCCTTCTT 60.292 50.000 0.84 0.00 36.24 2.52
323 324 3.024547 GGCCTTCATTTACCCCTTCTTC 58.975 50.000 0.00 0.00 0.00 2.87
324 325 3.563479 GGCCTTCATTTACCCCTTCTTCA 60.563 47.826 0.00 0.00 0.00 3.02
325 326 4.281657 GCCTTCATTTACCCCTTCTTCAT 58.718 43.478 0.00 0.00 0.00 2.57
326 327 5.445964 GCCTTCATTTACCCCTTCTTCATA 58.554 41.667 0.00 0.00 0.00 2.15
327 328 6.071320 GCCTTCATTTACCCCTTCTTCATAT 58.929 40.000 0.00 0.00 0.00 1.78
328 329 6.551227 GCCTTCATTTACCCCTTCTTCATATT 59.449 38.462 0.00 0.00 0.00 1.28
329 330 7.724061 GCCTTCATTTACCCCTTCTTCATATTA 59.276 37.037 0.00 0.00 0.00 0.98
330 331 9.813826 CCTTCATTTACCCCTTCTTCATATTAT 57.186 33.333 0.00 0.00 0.00 1.28
339 340 8.166726 ACCCCTTCTTCATATTATCAGAAATCC 58.833 37.037 0.00 0.00 0.00 3.01
369 370 4.894784 TGTGGCGACTAAAGAGAGAAAAT 58.105 39.130 0.00 0.00 0.00 1.82
371 372 6.460781 TGTGGCGACTAAAGAGAGAAAATTA 58.539 36.000 0.00 0.00 0.00 1.40
373 374 7.064609 TGTGGCGACTAAAGAGAGAAAATTATG 59.935 37.037 0.00 0.00 0.00 1.90
375 376 6.037172 GGCGACTAAAGAGAGAAAATTATGCA 59.963 38.462 0.00 0.00 0.00 3.96
376 377 6.902417 GCGACTAAAGAGAGAAAATTATGCAC 59.098 38.462 0.00 0.00 0.00 4.57
377 378 7.402640 CGACTAAAGAGAGAAAATTATGCACC 58.597 38.462 0.00 0.00 0.00 5.01
378 379 7.308782 ACTAAAGAGAGAAAATTATGCACCG 57.691 36.000 0.00 0.00 0.00 4.94
387 388 4.900635 AAATTATGCACCGTCTCCATTC 57.099 40.909 0.00 0.00 0.00 2.67
397 398 2.098607 CCGTCTCCATTCTACACGCTAA 59.901 50.000 0.00 0.00 0.00 3.09
398 399 3.364062 CGTCTCCATTCTACACGCTAAG 58.636 50.000 0.00 0.00 0.00 2.18
399 400 3.117046 GTCTCCATTCTACACGCTAAGC 58.883 50.000 0.00 0.00 0.00 3.09
412 413 0.025513 GCTAAGCGAGCGTGTCATTG 59.974 55.000 0.00 0.00 42.62 2.82
464 465 1.548132 CTTGCGGAAAACCAAAGCGC 61.548 55.000 0.00 0.00 0.00 5.92
512 513 4.635765 TGAAAGAGGAGATATTTGTTGCCG 59.364 41.667 0.00 0.00 0.00 5.69
521 522 5.258051 AGATATTTGTTGCCGTAAAAGGGA 58.742 37.500 0.00 0.00 0.00 4.20
564 589 0.594602 CGACGTGTGGTCCTTCTACA 59.405 55.000 0.00 0.00 42.99 2.74
654 681 2.125188 GCAGCAGTCTCTGAGCCC 60.125 66.667 0.00 0.00 36.19 5.19
750 777 2.202349 GCGACAGCGAAACATGCC 60.202 61.111 0.00 0.00 40.82 4.40
751 778 2.480555 CGACAGCGAAACATGCCC 59.519 61.111 0.00 0.00 40.82 5.36
788 815 4.711949 AGCCTGCCAAGCACCTCG 62.712 66.667 0.00 0.00 33.79 4.63
858 885 4.421479 CGGTCTTCGTCGCCTGCT 62.421 66.667 0.00 0.00 0.00 4.24
859 886 2.507324 GGTCTTCGTCGCCTGCTC 60.507 66.667 0.00 0.00 0.00 4.26
860 887 2.507324 GTCTTCGTCGCCTGCTCC 60.507 66.667 0.00 0.00 0.00 4.70
861 888 2.676822 TCTTCGTCGCCTGCTCCT 60.677 61.111 0.00 0.00 0.00 3.69
862 889 2.507992 CTTCGTCGCCTGCTCCTG 60.508 66.667 0.00 0.00 0.00 3.86
883 910 2.289257 GCTCGGCCGTATATAAACCCTT 60.289 50.000 27.15 0.00 0.00 3.95
932 959 1.597663 GCACCACAACACTGTACAGTC 59.402 52.381 25.63 7.63 40.20 3.51
944 972 0.174617 GTACAGTCTGCCAGAGCTCC 59.825 60.000 10.93 0.00 40.80 4.70
945 973 1.315981 TACAGTCTGCCAGAGCTCCG 61.316 60.000 10.93 0.00 40.80 4.63
946 974 3.768922 AGTCTGCCAGAGCTCCGC 61.769 66.667 10.93 13.29 40.80 5.54
947 975 4.828925 GTCTGCCAGAGCTCCGCC 62.829 72.222 18.08 4.81 40.80 6.13
966 994 1.309013 TCCCCCTCCATTGCCAGAT 60.309 57.895 0.00 0.00 0.00 2.90
967 995 0.925720 TCCCCCTCCATTGCCAGATT 60.926 55.000 0.00 0.00 0.00 2.40
1005 1041 2.657237 GCCGGTAGATCGATGGGG 59.343 66.667 0.54 0.00 0.00 4.96
1510 1546 2.739913 CTCACTAGGTCGATCGATCTCC 59.260 54.545 32.94 22.81 36.84 3.71
1520 1556 0.106167 ATCGATCTCCTCCCGTTCCA 60.106 55.000 0.00 0.00 0.00 3.53
1538 1574 6.400568 CGTTCCATTTGGTAACTCCTAGTAA 58.599 40.000 0.00 0.00 37.07 2.24
1596 1632 2.438763 TGGGTTACACTTTTTCCTCGGA 59.561 45.455 0.00 0.00 0.00 4.55
1611 1647 2.516460 GGAGGAGCTGCATGGCTG 60.516 66.667 8.35 0.00 43.20 4.85
1627 1663 1.672356 CTGCTCCGGGTTGGTTCAG 60.672 63.158 0.00 0.00 39.52 3.02
1659 1704 4.754667 GTCCTGCCGTCGTTCCCC 62.755 72.222 0.00 0.00 0.00 4.81
1795 1841 2.087646 GTCTTGTTCCCATTCTGCTCC 58.912 52.381 0.00 0.00 0.00 4.70
1873 1935 3.518998 CCTCGATCGGCGTCCTGT 61.519 66.667 16.41 0.00 41.80 4.00
1928 1999 0.892358 AGTTGCTGCAGTGTCCATGG 60.892 55.000 16.64 4.97 0.00 3.66
2004 2075 4.041917 CCGTTGCGCAATGCCAGT 62.042 61.111 32.17 0.00 45.60 4.00
2012 2084 1.453155 CGCAATGCCAGTAAAGGAGT 58.547 50.000 0.00 0.00 0.00 3.85
2264 2343 7.969690 TGATAACCAAACCAATCAATACCAT 57.030 32.000 0.00 0.00 0.00 3.55
2265 2344 8.372877 TGATAACCAAACCAATCAATACCATT 57.627 30.769 0.00 0.00 0.00 3.16
2346 2449 9.595823 GCAAGTATTATAACCAACTCTACTTCA 57.404 33.333 3.50 0.00 0.00 3.02
2378 2490 1.202582 CAACACCAACCGACCAAAACA 59.797 47.619 0.00 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 2.891221 CGACATGTTGTGCACCGCA 61.891 57.895 15.69 13.49 35.60 5.69
5 6 2.127270 CGACATGTTGTGCACCGC 60.127 61.111 15.69 7.61 0.00 5.68
6 7 2.555782 CCGACATGTTGTGCACCG 59.444 61.111 15.69 8.42 0.00 4.94
7 8 2.625823 CCCCGACATGTTGTGCACC 61.626 63.158 15.69 0.00 0.00 5.01
8 9 1.896660 ACCCCGACATGTTGTGCAC 60.897 57.895 10.75 10.75 0.00 4.57
9 10 1.896183 CACCCCGACATGTTGTGCA 60.896 57.895 12.19 0.00 0.00 4.57
10 11 0.604243 TACACCCCGACATGTTGTGC 60.604 55.000 12.19 0.00 0.00 4.57
11 12 1.885560 TTACACCCCGACATGTTGTG 58.114 50.000 12.19 13.10 0.00 3.33
12 13 2.500229 CTTTACACCCCGACATGTTGT 58.500 47.619 12.19 8.67 0.00 3.32
13 14 1.199097 GCTTTACACCCCGACATGTTG 59.801 52.381 6.06 6.06 0.00 3.33
14 15 1.202830 TGCTTTACACCCCGACATGTT 60.203 47.619 0.00 0.00 0.00 2.71
15 16 0.398696 TGCTTTACACCCCGACATGT 59.601 50.000 0.00 0.00 0.00 3.21
16 17 1.750193 ATGCTTTACACCCCGACATG 58.250 50.000 0.00 0.00 0.00 3.21
17 18 2.491693 CAAATGCTTTACACCCCGACAT 59.508 45.455 0.00 0.00 0.00 3.06
18 19 1.883275 CAAATGCTTTACACCCCGACA 59.117 47.619 0.00 0.00 0.00 4.35
19 20 1.883926 ACAAATGCTTTACACCCCGAC 59.116 47.619 0.00 0.00 0.00 4.79
20 21 2.156098 GACAAATGCTTTACACCCCGA 58.844 47.619 0.00 0.00 0.00 5.14
21 22 1.201414 GGACAAATGCTTTACACCCCG 59.799 52.381 0.00 0.00 0.00 5.73
22 23 2.029380 GTGGACAAATGCTTTACACCCC 60.029 50.000 0.00 0.00 0.00 4.95
23 24 2.625790 TGTGGACAAATGCTTTACACCC 59.374 45.455 0.00 0.00 0.00 4.61
24 25 3.067461 TGTGTGGACAAATGCTTTACACC 59.933 43.478 10.90 4.59 36.91 4.16
25 26 4.300189 TGTGTGGACAAATGCTTTACAC 57.700 40.909 7.88 7.88 37.89 2.90
26 27 5.527951 GAATGTGTGGACAAATGCTTTACA 58.472 37.500 0.00 0.00 35.11 2.41
27 28 4.616802 CGAATGTGTGGACAAATGCTTTAC 59.383 41.667 0.00 0.00 35.11 2.01
28 29 4.517075 TCGAATGTGTGGACAAATGCTTTA 59.483 37.500 0.00 0.00 35.11 1.85
29 30 3.317711 TCGAATGTGTGGACAAATGCTTT 59.682 39.130 0.00 0.00 35.11 3.51
30 31 2.884012 TCGAATGTGTGGACAAATGCTT 59.116 40.909 0.00 0.00 35.11 3.91
31 32 2.503331 TCGAATGTGTGGACAAATGCT 58.497 42.857 0.00 0.00 35.11 3.79
32 33 2.979813 GTTCGAATGTGTGGACAAATGC 59.020 45.455 0.00 0.00 35.11 3.56
33 34 3.225548 CGTTCGAATGTGTGGACAAATG 58.774 45.455 9.29 0.00 35.11 2.32
34 35 2.875933 ACGTTCGAATGTGTGGACAAAT 59.124 40.909 21.83 0.00 35.11 2.32
35 36 2.281517 ACGTTCGAATGTGTGGACAAA 58.718 42.857 21.83 0.00 35.11 2.83
36 37 1.942677 ACGTTCGAATGTGTGGACAA 58.057 45.000 21.83 0.00 35.11 3.18
37 38 2.797074 TACGTTCGAATGTGTGGACA 57.203 45.000 28.92 8.61 36.22 4.02
38 39 3.676172 TCATTACGTTCGAATGTGTGGAC 59.324 43.478 28.92 1.34 36.02 4.02
39 40 3.915536 TCATTACGTTCGAATGTGTGGA 58.084 40.909 28.92 19.96 36.02 4.02
40 41 4.655440 TTCATTACGTTCGAATGTGTGG 57.345 40.909 28.92 18.30 36.02 4.17
41 42 5.507876 CCAATTCATTACGTTCGAATGTGTG 59.492 40.000 28.92 24.92 36.02 3.82
42 43 5.410132 TCCAATTCATTACGTTCGAATGTGT 59.590 36.000 28.92 16.55 36.02 3.72
43 44 5.863898 TCCAATTCATTACGTTCGAATGTG 58.136 37.500 28.92 15.10 36.02 3.21
44 45 6.677781 ATCCAATTCATTACGTTCGAATGT 57.322 33.333 25.19 25.19 36.02 2.71
45 46 7.409697 AGAATCCAATTCATTACGTTCGAATG 58.590 34.615 15.80 15.80 41.71 2.67
46 47 7.553881 AGAATCCAATTCATTACGTTCGAAT 57.446 32.000 0.00 0.00 41.71 3.34
47 48 6.978343 AGAATCCAATTCATTACGTTCGAA 57.022 33.333 0.00 0.00 41.71 3.71
48 49 6.183360 CCAAGAATCCAATTCATTACGTTCGA 60.183 38.462 0.00 0.00 41.71 3.71
49 50 5.965334 CCAAGAATCCAATTCATTACGTTCG 59.035 40.000 0.00 0.00 41.71 3.95
50 51 6.852664 ACCAAGAATCCAATTCATTACGTTC 58.147 36.000 0.00 0.00 41.71 3.95
51 52 6.834168 ACCAAGAATCCAATTCATTACGTT 57.166 33.333 0.00 0.00 41.71 3.99
52 53 6.834168 AACCAAGAATCCAATTCATTACGT 57.166 33.333 0.00 0.00 41.71 3.57
53 54 9.632807 TTAAAACCAAGAATCCAATTCATTACG 57.367 29.630 2.79 0.00 41.71 3.18
56 57 9.844257 TGTTTAAAACCAAGAATCCAATTCATT 57.156 25.926 2.79 0.00 41.71 2.57
57 58 9.271828 GTGTTTAAAACCAAGAATCCAATTCAT 57.728 29.630 2.79 0.00 41.71 2.57
58 59 8.260818 TGTGTTTAAAACCAAGAATCCAATTCA 58.739 29.630 2.79 0.00 41.71 2.57
59 60 8.655651 TGTGTTTAAAACCAAGAATCCAATTC 57.344 30.769 0.00 0.00 39.56 2.17
60 61 9.271828 GATGTGTTTAAAACCAAGAATCCAATT 57.728 29.630 0.00 0.00 0.00 2.32
61 62 7.877612 GGATGTGTTTAAAACCAAGAATCCAAT 59.122 33.333 0.00 0.00 0.00 3.16
62 63 7.147655 TGGATGTGTTTAAAACCAAGAATCCAA 60.148 33.333 12.24 3.31 0.00 3.53
63 64 6.325028 TGGATGTGTTTAAAACCAAGAATCCA 59.675 34.615 11.35 11.35 0.00 3.41
64 65 6.754193 TGGATGTGTTTAAAACCAAGAATCC 58.246 36.000 0.00 0.64 0.00 3.01
65 66 8.087750 TGATGGATGTGTTTAAAACCAAGAATC 58.912 33.333 0.00 0.00 0.00 2.52
66 67 7.961351 TGATGGATGTGTTTAAAACCAAGAAT 58.039 30.769 0.00 0.00 0.00 2.40
67 68 7.353414 TGATGGATGTGTTTAAAACCAAGAA 57.647 32.000 0.00 0.00 0.00 2.52
68 69 6.968263 TGATGGATGTGTTTAAAACCAAGA 57.032 33.333 0.00 0.00 0.00 3.02
69 70 8.606040 AATTGATGGATGTGTTTAAAACCAAG 57.394 30.769 0.00 0.00 0.00 3.61
70 71 8.834465 CAAATTGATGGATGTGTTTAAAACCAA 58.166 29.630 0.00 0.00 0.00 3.67
71 72 7.989741 ACAAATTGATGGATGTGTTTAAAACCA 59.010 29.630 0.00 0.00 0.00 3.67
72 73 8.376889 ACAAATTGATGGATGTGTTTAAAACC 57.623 30.769 0.00 0.00 0.00 3.27
79 80 9.685276 TCTAATCTACAAATTGATGGATGTGTT 57.315 29.630 0.00 0.00 30.33 3.32
80 81 9.685276 TTCTAATCTACAAATTGATGGATGTGT 57.315 29.630 0.00 0.00 32.39 3.72
110 111 5.567423 GCTTTGGCATACTGGAACTTTGATT 60.567 40.000 0.00 0.00 38.54 2.57
111 112 4.082026 GCTTTGGCATACTGGAACTTTGAT 60.082 41.667 0.00 0.00 38.54 2.57
112 113 3.255642 GCTTTGGCATACTGGAACTTTGA 59.744 43.478 0.00 0.00 38.54 2.69
113 114 3.005684 TGCTTTGGCATACTGGAACTTTG 59.994 43.478 0.00 0.00 44.28 2.77
114 115 3.230134 TGCTTTGGCATACTGGAACTTT 58.770 40.909 0.00 0.00 44.28 2.66
115 116 2.875296 TGCTTTGGCATACTGGAACTT 58.125 42.857 0.00 0.00 44.28 2.66
116 117 2.584835 TGCTTTGGCATACTGGAACT 57.415 45.000 0.00 0.00 44.28 3.01
151 152 7.601508 AGTCTACCTCAAATAACAAAACGTAGG 59.398 37.037 0.00 0.00 0.00 3.18
152 153 8.530269 AGTCTACCTCAAATAACAAAACGTAG 57.470 34.615 0.00 0.00 0.00 3.51
179 180 6.822676 AGAAAAATGCACTTTTCAATGAACCA 59.177 30.769 28.91 0.00 44.36 3.67
180 181 7.250445 AGAAAAATGCACTTTTCAATGAACC 57.750 32.000 28.91 6.29 44.36 3.62
181 182 7.852454 GGAAGAAAAATGCACTTTTCAATGAAC 59.148 33.333 28.91 15.32 44.36 3.18
182 183 7.012232 GGGAAGAAAAATGCACTTTTCAATGAA 59.988 33.333 28.91 0.00 44.36 2.57
183 184 6.482973 GGGAAGAAAAATGCACTTTTCAATGA 59.517 34.615 28.91 0.00 44.36 2.57
184 185 6.484308 AGGGAAGAAAAATGCACTTTTCAATG 59.516 34.615 28.91 0.00 44.36 2.82
185 186 6.594744 AGGGAAGAAAAATGCACTTTTCAAT 58.405 32.000 28.91 19.63 44.36 2.57
186 187 5.988287 AGGGAAGAAAAATGCACTTTTCAA 58.012 33.333 28.91 0.00 44.36 2.69
187 188 5.128499 TGAGGGAAGAAAAATGCACTTTTCA 59.872 36.000 28.91 9.89 44.36 2.69
188 189 5.600696 TGAGGGAAGAAAAATGCACTTTTC 58.399 37.500 22.36 22.36 42.94 2.29
189 190 5.612725 TGAGGGAAGAAAAATGCACTTTT 57.387 34.783 5.41 5.41 38.73 2.27
190 191 5.363580 TCTTGAGGGAAGAAAAATGCACTTT 59.636 36.000 0.00 0.00 37.78 2.66
191 192 4.895297 TCTTGAGGGAAGAAAAATGCACTT 59.105 37.500 0.00 0.00 37.78 3.16
192 193 4.473444 TCTTGAGGGAAGAAAAATGCACT 58.527 39.130 0.00 0.00 37.78 4.40
193 194 4.853924 TCTTGAGGGAAGAAAAATGCAC 57.146 40.909 0.00 0.00 37.78 4.57
213 214 2.731451 GCGCACATTTCTTTTTCCCTTC 59.269 45.455 0.30 0.00 0.00 3.46
218 219 2.288152 TGGGAGCGCACATTTCTTTTTC 60.288 45.455 11.47 0.00 0.00 2.29
227 228 1.476488 GGTTAATTTGGGAGCGCACAT 59.524 47.619 11.47 0.00 0.00 3.21
228 229 0.885196 GGTTAATTTGGGAGCGCACA 59.115 50.000 11.47 2.05 0.00 4.57
229 230 0.179174 CGGTTAATTTGGGAGCGCAC 60.179 55.000 11.47 1.97 0.00 5.34
233 234 1.131693 CGTTCCGGTTAATTTGGGAGC 59.868 52.381 0.00 0.00 0.00 4.70
236 237 2.152830 TCACGTTCCGGTTAATTTGGG 58.847 47.619 0.00 0.00 0.00 4.12
237 238 3.068560 TCTCACGTTCCGGTTAATTTGG 58.931 45.455 0.00 0.00 0.00 3.28
238 239 4.735662 TTCTCACGTTCCGGTTAATTTG 57.264 40.909 0.00 0.00 0.00 2.32
239 240 5.754543 TTTTCTCACGTTCCGGTTAATTT 57.245 34.783 0.00 0.00 0.00 1.82
240 241 5.704053 AGATTTTCTCACGTTCCGGTTAATT 59.296 36.000 0.00 0.00 0.00 1.40
242 243 4.634199 AGATTTTCTCACGTTCCGGTTAA 58.366 39.130 0.00 0.00 0.00 2.01
243 244 4.240096 GAGATTTTCTCACGTTCCGGTTA 58.760 43.478 0.00 0.00 42.90 2.85
244 245 3.064931 GAGATTTTCTCACGTTCCGGTT 58.935 45.455 0.00 0.00 42.90 4.44
245 246 2.685100 GAGATTTTCTCACGTTCCGGT 58.315 47.619 0.00 0.00 42.90 5.28
254 255 8.538117 ACGTCTAGATCGTCTGAGATTTTCTCA 61.538 40.741 12.60 7.00 43.06 3.27
255 256 6.133392 CGTCTAGATCGTCTGAGATTTTCTC 58.867 44.000 0.00 0.00 43.65 2.87
256 257 5.587043 ACGTCTAGATCGTCTGAGATTTTCT 59.413 40.000 12.60 0.00 36.85 2.52
257 258 5.812652 ACGTCTAGATCGTCTGAGATTTTC 58.187 41.667 12.60 0.00 36.85 2.29
258 259 5.821516 ACGTCTAGATCGTCTGAGATTTT 57.178 39.130 12.60 0.00 36.85 1.82
268 269 6.762187 TCTCAAGATTAAGACGTCTAGATCGT 59.238 38.462 20.39 18.58 44.27 3.73
269 270 7.179927 TCTCAAGATTAAGACGTCTAGATCG 57.820 40.000 20.39 12.53 0.00 3.69
270 271 9.959749 ATTTCTCAAGATTAAGACGTCTAGATC 57.040 33.333 20.39 22.36 0.00 2.75
275 276 7.911205 CGTCTATTTCTCAAGATTAAGACGTCT 59.089 37.037 13.58 13.58 39.98 4.18
276 277 7.166142 CCGTCTATTTCTCAAGATTAAGACGTC 59.834 40.741 22.80 7.70 42.24 4.34
277 278 6.973474 CCGTCTATTTCTCAAGATTAAGACGT 59.027 38.462 22.80 0.00 42.24 4.34
278 279 6.418226 CCCGTCTATTTCTCAAGATTAAGACG 59.582 42.308 20.36 20.36 43.05 4.18
279 280 6.201234 GCCCGTCTATTTCTCAAGATTAAGAC 59.799 42.308 0.00 0.00 0.00 3.01
280 281 6.281405 GCCCGTCTATTTCTCAAGATTAAGA 58.719 40.000 0.00 0.00 0.00 2.10
281 282 5.467063 GGCCCGTCTATTTCTCAAGATTAAG 59.533 44.000 0.00 0.00 0.00 1.85
282 283 5.130477 AGGCCCGTCTATTTCTCAAGATTAA 59.870 40.000 0.00 0.00 0.00 1.40
283 284 4.654262 AGGCCCGTCTATTTCTCAAGATTA 59.346 41.667 0.00 0.00 0.00 1.75
284 285 3.456277 AGGCCCGTCTATTTCTCAAGATT 59.544 43.478 0.00 0.00 0.00 2.40
285 286 3.041946 AGGCCCGTCTATTTCTCAAGAT 58.958 45.455 0.00 0.00 0.00 2.40
286 287 2.467880 AGGCCCGTCTATTTCTCAAGA 58.532 47.619 0.00 0.00 0.00 3.02
287 288 2.990066 AGGCCCGTCTATTTCTCAAG 57.010 50.000 0.00 0.00 0.00 3.02
288 289 2.569853 TGAAGGCCCGTCTATTTCTCAA 59.430 45.455 0.00 0.00 0.00 3.02
289 290 2.184533 TGAAGGCCCGTCTATTTCTCA 58.815 47.619 0.00 0.00 0.00 3.27
290 291 2.981859 TGAAGGCCCGTCTATTTCTC 57.018 50.000 0.00 0.00 0.00 2.87
291 292 3.933861 AATGAAGGCCCGTCTATTTCT 57.066 42.857 0.00 0.00 0.00 2.52
292 293 4.275196 GGTAAATGAAGGCCCGTCTATTTC 59.725 45.833 0.00 0.00 0.00 2.17
293 294 4.204799 GGTAAATGAAGGCCCGTCTATTT 58.795 43.478 0.00 8.91 0.00 1.40
294 295 3.434596 GGGTAAATGAAGGCCCGTCTATT 60.435 47.826 0.00 0.00 0.00 1.73
295 296 2.105993 GGGTAAATGAAGGCCCGTCTAT 59.894 50.000 0.00 0.00 0.00 1.98
296 297 1.487558 GGGTAAATGAAGGCCCGTCTA 59.512 52.381 0.00 0.00 0.00 2.59
297 298 0.255033 GGGTAAATGAAGGCCCGTCT 59.745 55.000 0.00 0.00 0.00 4.18
298 299 0.750546 GGGGTAAATGAAGGCCCGTC 60.751 60.000 0.00 0.00 41.95 4.79
299 300 1.212250 AGGGGTAAATGAAGGCCCGT 61.212 55.000 0.00 0.00 41.95 5.28
300 301 0.033503 AAGGGGTAAATGAAGGCCCG 60.034 55.000 0.00 0.00 41.95 6.13
301 302 1.288037 AGAAGGGGTAAATGAAGGCCC 59.712 52.381 0.00 0.00 40.35 5.80
302 303 2.828661 AGAAGGGGTAAATGAAGGCC 57.171 50.000 0.00 0.00 0.00 5.19
303 304 3.697166 TGAAGAAGGGGTAAATGAAGGC 58.303 45.455 0.00 0.00 0.00 4.35
304 305 9.813826 ATAATATGAAGAAGGGGTAAATGAAGG 57.186 33.333 0.00 0.00 0.00 3.46
313 314 8.166726 GGATTTCTGATAATATGAAGAAGGGGT 58.833 37.037 0.00 0.00 30.77 4.95
314 315 8.389366 AGGATTTCTGATAATATGAAGAAGGGG 58.611 37.037 0.00 0.00 30.77 4.79
326 327 9.236006 GCCACAACATATAGGATTTCTGATAAT 57.764 33.333 0.00 0.00 0.00 1.28
327 328 7.387673 CGCCACAACATATAGGATTTCTGATAA 59.612 37.037 0.00 0.00 0.00 1.75
328 329 6.873605 CGCCACAACATATAGGATTTCTGATA 59.126 38.462 0.00 0.00 0.00 2.15
329 330 5.702670 CGCCACAACATATAGGATTTCTGAT 59.297 40.000 0.00 0.00 0.00 2.90
330 331 5.056480 CGCCACAACATATAGGATTTCTGA 58.944 41.667 0.00 0.00 0.00 3.27
331 332 5.050091 GTCGCCACAACATATAGGATTTCTG 60.050 44.000 0.00 0.00 0.00 3.02
339 340 6.504398 TCTCTTTAGTCGCCACAACATATAG 58.496 40.000 0.00 0.00 0.00 1.31
346 347 4.330944 TTTCTCTCTTTAGTCGCCACAA 57.669 40.909 0.00 0.00 0.00 3.33
351 352 6.902417 GTGCATAATTTTCTCTCTTTAGTCGC 59.098 38.462 0.00 0.00 0.00 5.19
369 370 3.449377 TGTAGAATGGAGACGGTGCATAA 59.551 43.478 0.00 0.00 35.87 1.90
371 372 1.831106 TGTAGAATGGAGACGGTGCAT 59.169 47.619 0.00 0.00 39.29 3.96
373 374 1.641577 GTGTAGAATGGAGACGGTGC 58.358 55.000 0.00 0.00 0.00 5.01
375 376 0.172803 GCGTGTAGAATGGAGACGGT 59.827 55.000 0.00 0.00 34.42 4.83
376 377 0.456221 AGCGTGTAGAATGGAGACGG 59.544 55.000 0.00 0.00 34.42 4.79
377 378 3.364062 CTTAGCGTGTAGAATGGAGACG 58.636 50.000 0.00 0.00 36.71 4.18
378 379 3.117046 GCTTAGCGTGTAGAATGGAGAC 58.883 50.000 0.00 0.00 0.00 3.36
397 398 2.357396 TGCAATGACACGCTCGCT 60.357 55.556 0.00 0.00 0.00 4.93
398 399 2.202222 GTGCAATGACACGCTCGC 60.202 61.111 0.00 0.00 0.00 5.03
464 465 2.437359 CGGGAGCTTTCTGGCCTG 60.437 66.667 3.32 2.92 0.00 4.85
564 589 4.796231 GCCGTCGCGAGTCCACAT 62.796 66.667 10.24 0.00 0.00 3.21
631 658 2.609350 CTCAGAGACTGCTGCTTTCTC 58.391 52.381 17.94 17.94 36.76 2.87
743 770 2.736995 CACGTCGACGGGCATGTT 60.737 61.111 37.89 15.71 44.95 2.71
750 777 4.712425 GGGGTCACACGTCGACGG 62.712 72.222 37.89 28.36 44.95 4.79
751 778 4.712425 GGGGGTCACACGTCGACG 62.712 72.222 34.58 34.58 46.33 5.12
788 815 1.446966 GGAGCAAGACGTGAGAGGC 60.447 63.158 0.00 0.00 0.00 4.70
858 885 1.913778 TTATATACGGCCGAGCAGGA 58.086 50.000 35.90 10.66 45.00 3.86
859 886 2.334838 GTTTATATACGGCCGAGCAGG 58.665 52.381 35.90 0.55 44.97 4.85
860 887 2.334838 GGTTTATATACGGCCGAGCAG 58.665 52.381 35.90 1.49 0.00 4.24
861 888 1.001181 GGGTTTATATACGGCCGAGCA 59.999 52.381 35.90 17.09 0.00 4.26
862 889 1.274447 AGGGTTTATATACGGCCGAGC 59.726 52.381 35.90 17.16 0.00 5.03
883 910 1.738346 CTCCATGGACGGATCGAGCA 61.738 60.000 11.44 0.00 33.56 4.26
944 972 4.883354 GCAATGGAGGGGGAGGCG 62.883 72.222 0.00 0.00 0.00 5.52
945 973 4.529731 GGCAATGGAGGGGGAGGC 62.530 72.222 0.00 0.00 0.00 4.70
946 974 3.023116 TGGCAATGGAGGGGGAGG 61.023 66.667 0.00 0.00 0.00 4.30
947 975 1.358830 ATCTGGCAATGGAGGGGGAG 61.359 60.000 0.00 0.00 0.00 4.30
948 976 0.925720 AATCTGGCAATGGAGGGGGA 60.926 55.000 0.00 0.00 0.00 4.81
992 1028 1.344763 CCAGGAACCCCATCGATCTAC 59.655 57.143 0.00 0.00 33.88 2.59
994 1030 0.031111 TCCAGGAACCCCATCGATCT 60.031 55.000 0.00 0.00 33.88 2.75
995 1031 0.394565 CTCCAGGAACCCCATCGATC 59.605 60.000 0.00 0.00 33.88 3.69
1005 1041 2.671682 GACAGGGCCTCCAGGAAC 59.328 66.667 0.95 0.00 37.39 3.62
1416 1452 2.015587 GTGTACCTAGTCTCGGTGGAG 58.984 57.143 6.31 0.00 41.89 3.86
1510 1546 3.007635 GAGTTACCAAATGGAACGGGAG 58.992 50.000 6.42 0.00 38.94 4.30
1538 1574 5.934781 ACGTAGCAGTTACTACCTAGGTAT 58.065 41.667 22.02 14.06 39.53 2.73
1611 1647 2.359975 CCTGAACCAACCCGGAGC 60.360 66.667 0.73 0.00 38.63 4.70
1795 1841 0.302890 GATCGATCAACCTTGCAGCG 59.697 55.000 20.52 0.00 0.00 5.18
1873 1935 1.529438 GAAATGCGAACACCGAGTCAA 59.471 47.619 0.00 0.00 41.76 3.18
1928 1999 2.635427 TGGAGGTTAAAAATTGGTGGCC 59.365 45.455 0.00 0.00 0.00 5.36
1994 2065 3.375299 CAGTACTCCTTTACTGGCATTGC 59.625 47.826 0.00 0.00 43.63 3.56
2004 2075 3.132289 CGGGCAAGATCAGTACTCCTTTA 59.868 47.826 0.00 0.00 0.00 1.85
2012 2084 2.016393 CTCGCCGGGCAAGATCAGTA 62.016 60.000 20.71 0.00 0.00 2.74
2072 2144 5.002516 ACTGAAGCTGAAAGATGGAAGAAG 58.997 41.667 0.00 0.00 34.07 2.85
2223 2302 7.933396 TGGTTATCATTCAAGCATACATCAAG 58.067 34.615 0.00 0.00 0.00 3.02
2378 2490 4.707934 CCAACCCTACCAAATTCGGTTAAT 59.292 41.667 0.00 0.00 40.67 1.40


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

AutoCloner maintained by Alex Coulton.