Multiple sequence alignment - TraesCS2D01G260400

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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 TraesCS2D01G260400 chr2D 100.000 2433 0 0 1 2433 316327255 316329687 0.000000e+00 4494.0
1 TraesCS2D01G260400 chr2D 95.000 60 3 0 2367 2426 567785452 567785511 7.160000e-16 95.3
2 TraesCS2D01G260400 chr2D 92.188 64 3 2 2359 2422 2373442 2373381 3.330000e-14 89.8
3 TraesCS2D01G260400 chr2D 84.746 59 9 0 1162 1220 560991630 560991572 2.610000e-05 60.2
4 TraesCS2D01G260400 chr2B 94.331 1658 45 20 353 2000 384399672 384401290 0.000000e+00 2495.0
5 TraesCS2D01G260400 chr2B 92.669 341 24 1 1 341 52676672 52676333 7.820000e-135 490.0
6 TraesCS2D01G260400 chr2B 92.375 341 25 1 1 341 721283029 721282690 3.640000e-133 484.0
7 TraesCS2D01G260400 chr2B 93.980 299 15 1 2138 2433 384404000 384404298 1.330000e-122 449.0
8 TraesCS2D01G260400 chr2B 99.065 107 1 0 2034 2140 384401290 384401396 2.470000e-45 193.0
9 TraesCS2D01G260400 chr2B 84.746 59 9 0 1162 1220 669649031 669648973 2.610000e-05 60.2
10 TraesCS2D01G260400 chr2A 95.094 1121 39 8 738 1850 418795448 418794336 0.000000e+00 1751.0
11 TraesCS2D01G260400 chr2A 94.086 372 11 7 380 747 418796409 418796045 2.730000e-154 555.0
12 TraesCS2D01G260400 chr2A 87.667 300 30 4 2138 2432 418793495 418793198 2.320000e-90 342.0
13 TraesCS2D01G260400 chr2A 89.299 271 14 4 1878 2140 418793821 418793558 2.330000e-85 326.0
14 TraesCS2D01G260400 chr2A 97.500 40 1 0 1847 1886 418794073 418794034 4.340000e-08 69.4
15 TraesCS2D01G260400 chr2A 86.441 59 8 0 1162 1220 700976012 700975954 5.620000e-07 65.8
16 TraesCS2D01G260400 chr6D 93.750 336 20 1 1 336 394561577 394561911 1.000000e-138 503.0
17 TraesCS2D01G260400 chr7D 92.962 341 22 2 1 341 59382668 59382330 1.680000e-136 496.0
18 TraesCS2D01G260400 chr7D 100.000 29 0 0 2106 2134 395220114 395220142 1.000000e-03 54.7
19 TraesCS2D01G260400 chr7B 93.114 334 22 1 1 333 482841824 482842157 2.810000e-134 488.0
20 TraesCS2D01G260400 chr7B 92.398 342 21 4 1 341 111898460 111898123 1.310000e-132 483.0
21 TraesCS2D01G260400 chr7B 94.444 36 2 0 2099 2134 161606391 161606426 3.380000e-04 56.5
22 TraesCS2D01G260400 chr7B 94.286 35 2 0 2100 2134 161624699 161624733 1.000000e-03 54.7
23 TraesCS2D01G260400 chr6B 92.375 341 25 1 1 341 160920058 160919719 3.640000e-133 484.0
24 TraesCS2D01G260400 chr5B 92.375 341 24 2 1 341 483695309 483694971 3.640000e-133 484.0
25 TraesCS2D01G260400 chr5B 90.385 52 5 0 1307 1358 580843774 580843723 4.340000e-08 69.4
26 TraesCS2D01G260400 chr4D 92.082 341 26 1 1 341 481382012 481382351 1.690000e-131 479.0
27 TraesCS2D01G260400 chrUn 86.842 76 7 3 2352 2427 45464003 45464075 5.580000e-12 82.4
28 TraesCS2D01G260400 chrUn 92.857 56 1 3 2362 2414 24832063 24832118 7.210000e-11 78.7
29 TraesCS2D01G260400 chrUn 92.857 56 1 3 2362 2414 24834572 24834627 7.210000e-11 78.7
30 TraesCS2D01G260400 chrUn 92.857 56 1 3 2362 2414 212863631 212863686 7.210000e-11 78.7
31 TraesCS2D01G260400 chr3D 89.552 67 4 3 2367 2432 349976480 349976416 5.580000e-12 82.4
32 TraesCS2D01G260400 chr5A 81.132 106 15 3 1121 1222 139083444 139083548 2.010000e-11 80.5
33 TraesCS2D01G260400 chr5A 90.385 52 5 0 1307 1358 593340243 593340192 4.340000e-08 69.4
34 TraesCS2D01G260400 chr7A 86.301 73 9 1 2270 2341 636631517 636631589 7.210000e-11 78.7
35 TraesCS2D01G260400 chr5D 90.385 52 5 0 1307 1358 473848570 473848519 4.340000e-08 69.4


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 TraesCS2D01G260400 chr2D 316327255 316329687 2432 False 4494.000000 4494 100.0000 1 2433 1 chr2D.!!$F1 2432
1 TraesCS2D01G260400 chr2B 384399672 384404298 4626 False 1045.666667 2495 95.7920 353 2433 3 chr2B.!!$F1 2080
2 TraesCS2D01G260400 chr2A 418793198 418796409 3211 True 608.680000 1751 92.7292 380 2432 5 chr2A.!!$R2 2052

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
283 284 0.031857 CCTCATAGAGCAGCCACTCG 59.968 60.0 0.0 0.0 41.77 4.18 F
338 339 0.036022 AGAAACCACCAGAGAGCTGC 59.964 55.0 0.0 0.0 40.91 5.25 F
339 340 0.957888 GAAACCACCAGAGAGCTGCC 60.958 60.0 0.0 0.0 40.91 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1257 1871 0.101219 GCATGAAGAACCATTCCGCC 59.899 55.0 0.00 0.00 0.00 6.13 R
1276 1890 0.108992 ATGCACCCTACGTACGTGTG 60.109 55.0 30.25 27.15 0.00 3.82 R
2021 3132 0.316204 CCAACTACCTTCGACACGGT 59.684 55.0 5.65 5.65 37.31 4.83 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
45 46 4.910585 CCGCTGCCCCGACATACC 62.911 72.222 0.00 0.00 0.00 2.73
46 47 4.155733 CGCTGCCCCGACATACCA 62.156 66.667 0.00 0.00 0.00 3.25
47 48 2.513897 GCTGCCCCGACATACCAC 60.514 66.667 0.00 0.00 0.00 4.16
48 49 2.189521 CTGCCCCGACATACCACC 59.810 66.667 0.00 0.00 0.00 4.61
49 50 3.733344 CTGCCCCGACATACCACCG 62.733 68.421 0.00 0.00 0.00 4.94
51 52 3.467226 CCCCGACATACCACCGCT 61.467 66.667 0.00 0.00 0.00 5.52
52 53 2.582436 CCCGACATACCACCGCTT 59.418 61.111 0.00 0.00 0.00 4.68
53 54 1.520787 CCCGACATACCACCGCTTC 60.521 63.158 0.00 0.00 0.00 3.86
54 55 1.520787 CCGACATACCACCGCTTCC 60.521 63.158 0.00 0.00 0.00 3.46
55 56 1.520787 CGACATACCACCGCTTCCC 60.521 63.158 0.00 0.00 0.00 3.97
56 57 1.905512 GACATACCACCGCTTCCCT 59.094 57.895 0.00 0.00 0.00 4.20
57 58 0.179081 GACATACCACCGCTTCCCTC 60.179 60.000 0.00 0.00 0.00 4.30
58 59 1.227263 CATACCACCGCTTCCCTCG 60.227 63.158 0.00 0.00 0.00 4.63
59 60 1.380785 ATACCACCGCTTCCCTCGA 60.381 57.895 0.00 0.00 0.00 4.04
60 61 1.392710 ATACCACCGCTTCCCTCGAG 61.393 60.000 5.13 5.13 0.00 4.04
61 62 4.821589 CCACCGCTTCCCTCGAGC 62.822 72.222 6.99 0.00 36.79 5.03
62 63 4.069232 CACCGCTTCCCTCGAGCA 62.069 66.667 6.99 0.00 40.13 4.26
63 64 3.764466 ACCGCTTCCCTCGAGCAG 61.764 66.667 6.99 3.49 40.13 4.24
65 66 4.441695 CGCTTCCCTCGAGCAGCA 62.442 66.667 22.10 2.50 40.13 4.41
66 67 2.046892 GCTTCCCTCGAGCAGCAA 60.047 61.111 19.21 4.60 39.89 3.91
67 68 2.394563 GCTTCCCTCGAGCAGCAAC 61.395 63.158 19.21 0.46 39.89 4.17
68 69 2.048222 TTCCCTCGAGCAGCAACG 60.048 61.111 6.99 0.00 0.00 4.10
69 70 4.742201 TCCCTCGAGCAGCAACGC 62.742 66.667 6.99 0.00 0.00 4.84
125 126 3.414700 CAACCGCTCGCAGACCAC 61.415 66.667 0.00 0.00 0.00 4.16
128 129 4.717629 CCGCTCGCAGACCACGAA 62.718 66.667 0.00 0.00 39.39 3.85
129 130 3.470567 CGCTCGCAGACCACGAAC 61.471 66.667 0.00 0.00 39.39 3.95
130 131 3.470567 GCTCGCAGACCACGAACG 61.471 66.667 0.00 0.00 39.39 3.95
131 132 3.470567 CTCGCAGACCACGAACGC 61.471 66.667 0.00 0.00 39.39 4.84
140 141 2.811747 CACGAACGCCGCACCATA 60.812 61.111 0.00 0.00 43.32 2.74
141 142 2.171079 CACGAACGCCGCACCATAT 61.171 57.895 0.00 0.00 43.32 1.78
142 143 1.881252 ACGAACGCCGCACCATATC 60.881 57.895 0.00 0.00 43.32 1.63
143 144 1.591594 CGAACGCCGCACCATATCT 60.592 57.895 0.00 0.00 0.00 1.98
144 145 1.821241 CGAACGCCGCACCATATCTG 61.821 60.000 0.00 0.00 0.00 2.90
153 154 4.704833 CCATATCTGGGGCCGCCG 62.705 72.222 18.45 11.56 39.04 6.46
165 166 4.841861 CCGCCGCCCCGACATAAA 62.842 66.667 0.00 0.00 0.00 1.40
166 167 3.269347 CGCCGCCCCGACATAAAG 61.269 66.667 0.00 0.00 0.00 1.85
167 168 2.124860 GCCGCCCCGACATAAAGT 60.125 61.111 0.00 0.00 0.00 2.66
168 169 2.178235 GCCGCCCCGACATAAAGTC 61.178 63.158 0.00 0.00 44.02 3.01
177 178 1.653151 GACATAAAGTCAGACCGCCC 58.347 55.000 0.00 0.00 46.77 6.13
178 179 0.252197 ACATAAAGTCAGACCGCCCC 59.748 55.000 0.00 0.00 0.00 5.80
179 180 0.463833 CATAAAGTCAGACCGCCCCC 60.464 60.000 0.00 0.00 0.00 5.40
180 181 0.620700 ATAAAGTCAGACCGCCCCCT 60.621 55.000 0.00 0.00 0.00 4.79
181 182 0.838987 TAAAGTCAGACCGCCCCCTT 60.839 55.000 0.00 0.00 0.00 3.95
182 183 1.716028 AAAGTCAGACCGCCCCCTTT 61.716 55.000 0.00 0.00 0.00 3.11
183 184 2.359975 GTCAGACCGCCCCCTTTG 60.360 66.667 0.00 0.00 0.00 2.77
184 185 3.646715 TCAGACCGCCCCCTTTGG 61.647 66.667 0.00 0.00 0.00 3.28
195 196 2.513897 CCTTTGGGGCGGATCGAC 60.514 66.667 0.00 0.00 0.00 4.20
205 206 3.515286 GGATCGACCGAGCCGACA 61.515 66.667 11.02 0.00 41.05 4.35
206 207 2.278013 GATCGACCGAGCCGACAC 60.278 66.667 0.00 0.00 38.97 3.67
207 208 3.753070 GATCGACCGAGCCGACACC 62.753 68.421 0.00 0.00 38.97 4.16
233 234 3.909662 CCAAGCGGGACAAGGATG 58.090 61.111 0.00 0.00 40.01 3.51
234 235 2.409870 CCAAGCGGGACAAGGATGC 61.410 63.158 0.00 0.00 40.01 3.91
235 236 2.044946 AAGCGGGACAAGGATGCC 60.045 61.111 0.00 0.00 0.00 4.40
236 237 2.905996 AAGCGGGACAAGGATGCCA 61.906 57.895 0.00 0.00 0.00 4.92
237 238 3.134127 GCGGGACAAGGATGCCAC 61.134 66.667 0.00 0.00 0.00 5.01
238 239 2.671070 CGGGACAAGGATGCCACT 59.329 61.111 0.00 0.00 0.00 4.00
239 240 1.450312 CGGGACAAGGATGCCACTC 60.450 63.158 0.00 0.00 0.00 3.51
240 241 1.685224 GGGACAAGGATGCCACTCA 59.315 57.895 0.00 0.00 0.00 3.41
241 242 0.038166 GGGACAAGGATGCCACTCAA 59.962 55.000 0.00 0.00 0.00 3.02
242 243 1.168714 GGACAAGGATGCCACTCAAC 58.831 55.000 0.00 0.00 0.00 3.18
243 244 1.168714 GACAAGGATGCCACTCAACC 58.831 55.000 0.00 0.00 37.86 3.77
244 245 0.478072 ACAAGGATGCCACTCAACCA 59.522 50.000 0.00 0.00 39.86 3.67
245 246 1.133513 ACAAGGATGCCACTCAACCAA 60.134 47.619 0.00 0.00 39.86 3.67
246 247 2.173519 CAAGGATGCCACTCAACCAAT 58.826 47.619 0.00 0.00 39.86 3.16
247 248 1.843368 AGGATGCCACTCAACCAATG 58.157 50.000 0.00 0.00 39.86 2.82
248 249 1.076024 AGGATGCCACTCAACCAATGT 59.924 47.619 0.00 0.00 39.86 2.71
249 250 1.474077 GGATGCCACTCAACCAATGTC 59.526 52.381 0.00 0.00 37.55 3.06
250 251 1.131126 GATGCCACTCAACCAATGTCG 59.869 52.381 0.00 0.00 0.00 4.35
251 252 0.107643 TGCCACTCAACCAATGTCGA 59.892 50.000 0.00 0.00 0.00 4.20
252 253 0.798776 GCCACTCAACCAATGTCGAG 59.201 55.000 0.00 0.00 0.00 4.04
253 254 1.608025 GCCACTCAACCAATGTCGAGA 60.608 52.381 0.00 0.00 0.00 4.04
254 255 2.936993 GCCACTCAACCAATGTCGAGAT 60.937 50.000 0.00 0.00 0.00 2.75
255 256 3.678806 GCCACTCAACCAATGTCGAGATA 60.679 47.826 0.00 0.00 0.00 1.98
256 257 4.115516 CCACTCAACCAATGTCGAGATAG 58.884 47.826 0.00 0.00 0.00 2.08
257 258 4.142160 CCACTCAACCAATGTCGAGATAGA 60.142 45.833 0.00 0.00 0.00 1.98
258 259 5.039984 CACTCAACCAATGTCGAGATAGAG 58.960 45.833 0.00 2.02 0.00 2.43
259 260 4.046938 TCAACCAATGTCGAGATAGAGC 57.953 45.455 0.00 0.00 0.00 4.09
260 261 3.126831 CAACCAATGTCGAGATAGAGCC 58.873 50.000 0.00 0.00 0.00 4.70
261 262 1.689273 ACCAATGTCGAGATAGAGCCC 59.311 52.381 0.00 0.00 0.00 5.19
262 263 1.001406 CCAATGTCGAGATAGAGCCCC 59.999 57.143 0.00 0.00 0.00 5.80
263 264 1.688735 CAATGTCGAGATAGAGCCCCA 59.311 52.381 0.00 0.00 0.00 4.96
264 265 1.333177 ATGTCGAGATAGAGCCCCAC 58.667 55.000 0.00 0.00 0.00 4.61
265 266 0.755698 TGTCGAGATAGAGCCCCACC 60.756 60.000 0.00 0.00 0.00 4.61
266 267 0.468400 GTCGAGATAGAGCCCCACCT 60.468 60.000 0.00 0.00 0.00 4.00
267 268 0.178987 TCGAGATAGAGCCCCACCTC 60.179 60.000 0.00 0.00 0.00 3.85
268 269 0.468214 CGAGATAGAGCCCCACCTCA 60.468 60.000 0.00 0.00 34.26 3.86
269 270 1.825242 CGAGATAGAGCCCCACCTCAT 60.825 57.143 0.00 0.00 34.26 2.90
270 271 2.555448 CGAGATAGAGCCCCACCTCATA 60.555 54.545 0.00 0.00 34.26 2.15
271 272 3.096092 GAGATAGAGCCCCACCTCATAG 58.904 54.545 0.00 0.00 34.26 2.23
272 273 2.724672 AGATAGAGCCCCACCTCATAGA 59.275 50.000 0.00 0.00 34.26 1.98
273 274 2.685106 TAGAGCCCCACCTCATAGAG 57.315 55.000 0.00 0.00 34.26 2.43
274 275 0.762461 AGAGCCCCACCTCATAGAGC 60.762 60.000 0.00 0.00 34.26 4.09
275 276 1.003442 AGCCCCACCTCATAGAGCA 59.997 57.895 0.00 0.00 0.00 4.26
276 277 1.053264 AGCCCCACCTCATAGAGCAG 61.053 60.000 0.00 0.00 0.00 4.24
277 278 1.449353 CCCCACCTCATAGAGCAGC 59.551 63.158 0.00 0.00 0.00 5.25
278 279 1.449353 CCCACCTCATAGAGCAGCC 59.551 63.158 0.00 0.00 0.00 4.85
279 280 1.340399 CCCACCTCATAGAGCAGCCA 61.340 60.000 0.00 0.00 0.00 4.75
280 281 0.179062 CCACCTCATAGAGCAGCCAC 60.179 60.000 0.00 0.00 0.00 5.01
281 282 0.829333 CACCTCATAGAGCAGCCACT 59.171 55.000 0.00 0.00 0.00 4.00
282 283 1.118838 ACCTCATAGAGCAGCCACTC 58.881 55.000 0.00 0.00 36.91 3.51
283 284 0.031857 CCTCATAGAGCAGCCACTCG 59.968 60.000 0.00 0.00 41.77 4.18
284 285 0.597118 CTCATAGAGCAGCCACTCGC 60.597 60.000 0.00 0.00 41.77 5.03
285 286 1.142531 CATAGAGCAGCCACTCGCA 59.857 57.895 0.00 0.00 41.77 5.10
286 287 0.249784 CATAGAGCAGCCACTCGCAT 60.250 55.000 0.00 0.00 41.77 4.73
287 288 0.467384 ATAGAGCAGCCACTCGCATT 59.533 50.000 0.00 0.00 41.77 3.56
288 289 0.460811 TAGAGCAGCCACTCGCATTG 60.461 55.000 0.00 0.00 41.77 2.82
289 290 2.033141 AGCAGCCACTCGCATTGT 59.967 55.556 0.00 0.00 41.38 2.71
290 291 1.580845 GAGCAGCCACTCGCATTGTT 61.581 55.000 0.00 0.00 41.38 2.83
291 292 1.154150 GCAGCCACTCGCATTGTTC 60.154 57.895 0.00 0.00 41.38 3.18
292 293 1.503542 CAGCCACTCGCATTGTTCC 59.496 57.895 0.00 0.00 41.38 3.62
293 294 1.675641 AGCCACTCGCATTGTTCCC 60.676 57.895 0.00 0.00 41.38 3.97
294 295 3.039202 GCCACTCGCATTGTTCCCG 62.039 63.158 0.00 0.00 37.47 5.14
295 296 1.375396 CCACTCGCATTGTTCCCGA 60.375 57.895 0.00 0.00 0.00 5.14
299 300 3.362581 TCGCATTGTTCCCGAGATC 57.637 52.632 0.00 0.00 0.00 2.75
300 301 0.527600 TCGCATTGTTCCCGAGATCG 60.528 55.000 0.00 0.00 39.44 3.69
301 302 1.643832 GCATTGTTCCCGAGATCGC 59.356 57.895 0.00 0.00 38.18 4.58
302 303 1.776034 GCATTGTTCCCGAGATCGCC 61.776 60.000 0.00 0.00 38.18 5.54
303 304 0.461870 CATTGTTCCCGAGATCGCCA 60.462 55.000 0.00 0.00 38.18 5.69
304 305 0.469917 ATTGTTCCCGAGATCGCCAT 59.530 50.000 0.00 0.00 38.18 4.40
305 306 0.179084 TTGTTCCCGAGATCGCCATC 60.179 55.000 0.00 0.00 38.18 3.51
306 307 1.043116 TGTTCCCGAGATCGCCATCT 61.043 55.000 0.00 0.00 42.59 2.90
319 320 2.689083 CCATCTCGGCGCATAAACA 58.311 52.632 10.83 0.00 0.00 2.83
320 321 0.583438 CCATCTCGGCGCATAAACAG 59.417 55.000 10.83 0.00 0.00 3.16
321 322 1.570813 CATCTCGGCGCATAAACAGA 58.429 50.000 10.83 0.00 0.00 3.41
322 323 1.933181 CATCTCGGCGCATAAACAGAA 59.067 47.619 10.83 0.00 0.00 3.02
323 324 2.087501 TCTCGGCGCATAAACAGAAA 57.912 45.000 10.83 0.00 0.00 2.52
324 325 1.730064 TCTCGGCGCATAAACAGAAAC 59.270 47.619 10.83 0.00 0.00 2.78
325 326 0.800012 TCGGCGCATAAACAGAAACC 59.200 50.000 10.83 0.00 0.00 3.27
326 327 0.519519 CGGCGCATAAACAGAAACCA 59.480 50.000 10.83 0.00 0.00 3.67
327 328 1.727857 CGGCGCATAAACAGAAACCAC 60.728 52.381 10.83 0.00 0.00 4.16
328 329 1.402325 GGCGCATAAACAGAAACCACC 60.402 52.381 10.83 0.00 0.00 4.61
329 330 1.268352 GCGCATAAACAGAAACCACCA 59.732 47.619 0.30 0.00 0.00 4.17
330 331 2.668279 GCGCATAAACAGAAACCACCAG 60.668 50.000 0.30 0.00 0.00 4.00
331 332 2.811431 CGCATAAACAGAAACCACCAGA 59.189 45.455 0.00 0.00 0.00 3.86
332 333 3.120199 CGCATAAACAGAAACCACCAGAG 60.120 47.826 0.00 0.00 0.00 3.35
333 334 4.072131 GCATAAACAGAAACCACCAGAGA 58.928 43.478 0.00 0.00 0.00 3.10
334 335 4.154918 GCATAAACAGAAACCACCAGAGAG 59.845 45.833 0.00 0.00 0.00 3.20
335 336 2.262423 AACAGAAACCACCAGAGAGC 57.738 50.000 0.00 0.00 0.00 4.09
336 337 1.428869 ACAGAAACCACCAGAGAGCT 58.571 50.000 0.00 0.00 0.00 4.09
337 338 1.071385 ACAGAAACCACCAGAGAGCTG 59.929 52.381 0.00 0.00 41.93 4.24
338 339 0.036022 AGAAACCACCAGAGAGCTGC 59.964 55.000 0.00 0.00 40.91 5.25
339 340 0.957888 GAAACCACCAGAGAGCTGCC 60.958 60.000 0.00 0.00 40.91 4.85
340 341 2.738213 AAACCACCAGAGAGCTGCCG 62.738 60.000 0.00 0.00 40.91 5.69
341 342 3.385384 CCACCAGAGAGCTGCCGA 61.385 66.667 0.00 0.00 40.91 5.54
342 343 2.659016 CACCAGAGAGCTGCCGAA 59.341 61.111 0.00 0.00 40.91 4.30
343 344 1.739562 CACCAGAGAGCTGCCGAAC 60.740 63.158 0.00 0.00 40.91 3.95
344 345 2.210013 ACCAGAGAGCTGCCGAACA 61.210 57.895 0.00 0.00 40.91 3.18
526 530 3.286751 GCGGCTTTGCACACTCCA 61.287 61.111 0.00 0.00 34.15 3.86
531 535 1.134848 GGCTTTGCACACTCCAAACAA 60.135 47.619 0.00 0.00 0.00 2.83
614 620 2.311463 CGTCATCAGTGTCCCTATCCT 58.689 52.381 0.00 0.00 0.00 3.24
618 624 4.896482 GTCATCAGTGTCCCTATCCTAACT 59.104 45.833 0.00 0.00 0.00 2.24
619 625 5.364157 GTCATCAGTGTCCCTATCCTAACTT 59.636 44.000 0.00 0.00 0.00 2.66
704 710 5.084055 GCGTAATTTGCCGCCTTATAATAC 58.916 41.667 5.77 0.00 43.96 1.89
958 1572 8.375465 ACGTGTCTTGCGTTAACTAATTATAAC 58.625 33.333 3.71 0.64 39.79 1.89
998 1612 1.000385 GAGAGTCAGCCGGATGAGATG 60.000 57.143 25.38 0.00 0.00 2.90
1006 1620 1.735386 CCGGATGAGATGGATGCATC 58.265 55.000 18.73 18.73 38.10 3.91
1276 1890 0.101219 GGCGGAATGGTTCTTCATGC 59.899 55.000 0.00 0.00 0.00 4.06
1277 1891 0.810648 GCGGAATGGTTCTTCATGCA 59.189 50.000 0.00 0.00 31.89 3.96
1408 2022 4.547367 CCCCGGACGATGGCTTCC 62.547 72.222 0.73 0.00 0.00 3.46
1525 2139 4.148825 GCCGGACTCATGTCGCCT 62.149 66.667 5.05 0.00 43.79 5.52
1721 2341 2.708325 AGAGAGGGCCACTAATGAATCC 59.292 50.000 6.18 0.00 0.00 3.01
1727 2347 1.537202 GCCACTAATGAATCCATCGGC 59.463 52.381 0.00 0.00 31.40 5.54
1752 2372 2.350964 GGTCTCTCCATCGATTACGCTC 60.351 54.545 0.00 0.00 36.42 5.03
1823 2443 5.807520 TGATCTGAAAACGATGCTACTCTTC 59.192 40.000 0.00 0.00 0.00 2.87
1919 3030 4.588528 AGGTTGCAACACTTGTATTTCCAT 59.411 37.500 29.55 0.00 0.00 3.41
1920 3031 5.070313 AGGTTGCAACACTTGTATTTCCATT 59.930 36.000 29.55 0.00 0.00 3.16
2030 3141 1.315690 AGAAAGTCTGACCGTGTCGA 58.684 50.000 3.76 0.00 34.95 4.20
2104 3219 3.554324 TCCAAGCGCGTAATTTCTGATAC 59.446 43.478 8.43 0.00 0.00 2.24
2186 5907 3.707793 GGTTAGCACCTATCGTCTTGAG 58.292 50.000 0.00 0.00 40.44 3.02
2204 5925 4.038271 TGAGACATGCTCCTCCAAAAAT 57.962 40.909 12.62 0.00 43.26 1.82
2356 6082 7.006509 CCATGAGAAACCATGTAGGGATAAAT 58.993 38.462 0.00 0.00 41.65 1.40
2419 6147 3.987220 GCAAACATCACCACATAACAACC 59.013 43.478 0.00 0.00 0.00 3.77
2426 6154 3.007506 TCACCACATAACAACCGAGACAT 59.992 43.478 0.00 0.00 0.00 3.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 4.910585 GGTATGTCGGGGCAGCGG 62.911 72.222 0.00 0.00 0.00 5.52
29 30 4.155733 TGGTATGTCGGGGCAGCG 62.156 66.667 0.00 0.00 0.00 5.18
30 31 2.513897 GTGGTATGTCGGGGCAGC 60.514 66.667 0.00 0.00 0.00 5.25
31 32 2.189521 GGTGGTATGTCGGGGCAG 59.810 66.667 0.00 0.00 0.00 4.85
32 33 3.776781 CGGTGGTATGTCGGGGCA 61.777 66.667 0.00 0.00 0.00 5.36
34 35 2.918230 GAAGCGGTGGTATGTCGGGG 62.918 65.000 0.00 0.00 0.00 5.73
35 36 1.520787 GAAGCGGTGGTATGTCGGG 60.521 63.158 0.00 0.00 0.00 5.14
36 37 1.520787 GGAAGCGGTGGTATGTCGG 60.521 63.158 0.00 0.00 0.00 4.79
37 38 1.520787 GGGAAGCGGTGGTATGTCG 60.521 63.158 0.00 0.00 0.00 4.35
38 39 0.179081 GAGGGAAGCGGTGGTATGTC 60.179 60.000 0.00 0.00 0.00 3.06
39 40 1.905512 GAGGGAAGCGGTGGTATGT 59.094 57.895 0.00 0.00 0.00 2.29
40 41 1.227263 CGAGGGAAGCGGTGGTATG 60.227 63.158 0.00 0.00 0.00 2.39
41 42 1.380785 TCGAGGGAAGCGGTGGTAT 60.381 57.895 0.00 0.00 0.00 2.73
42 43 2.036098 TCGAGGGAAGCGGTGGTA 59.964 61.111 0.00 0.00 0.00 3.25
43 44 3.382832 CTCGAGGGAAGCGGTGGT 61.383 66.667 3.91 0.00 0.00 4.16
44 45 4.821589 GCTCGAGGGAAGCGGTGG 62.822 72.222 15.58 0.00 0.00 4.61
45 46 3.997064 CTGCTCGAGGGAAGCGGTG 62.997 68.421 15.58 0.00 0.00 4.94
46 47 3.764466 CTGCTCGAGGGAAGCGGT 61.764 66.667 15.58 0.00 0.00 5.68
48 49 3.939837 TTGCTGCTCGAGGGAAGCG 62.940 63.158 15.58 0.00 0.00 4.68
49 50 2.046892 TTGCTGCTCGAGGGAAGC 60.047 61.111 15.58 6.09 0.00 3.86
50 51 2.097038 CGTTGCTGCTCGAGGGAAG 61.097 63.158 15.58 0.00 0.00 3.46
51 52 2.048222 CGTTGCTGCTCGAGGGAA 60.048 61.111 15.58 2.84 0.00 3.97
52 53 4.742201 GCGTTGCTGCTCGAGGGA 62.742 66.667 15.58 0.00 0.00 4.20
108 109 3.414700 GTGGTCTGCGAGCGGTTG 61.415 66.667 3.65 0.00 32.15 3.77
111 112 4.717629 TTCGTGGTCTGCGAGCGG 62.718 66.667 0.00 0.00 39.61 5.52
112 113 3.470567 GTTCGTGGTCTGCGAGCG 61.471 66.667 0.00 0.00 39.61 5.03
113 114 3.470567 CGTTCGTGGTCTGCGAGC 61.471 66.667 0.00 1.60 39.61 5.03
114 115 3.470567 GCGTTCGTGGTCTGCGAG 61.471 66.667 0.00 0.00 39.61 5.03
123 124 2.089433 GATATGGTGCGGCGTTCGTG 62.089 60.000 9.37 0.00 41.72 4.35
124 125 1.881252 GATATGGTGCGGCGTTCGT 60.881 57.895 9.37 2.51 41.72 3.85
125 126 1.591594 AGATATGGTGCGGCGTTCG 60.592 57.895 9.37 0.00 42.76 3.95
126 127 1.498865 CCAGATATGGTGCGGCGTTC 61.499 60.000 9.37 1.43 0.00 3.95
127 128 1.523711 CCAGATATGGTGCGGCGTT 60.524 57.895 9.37 0.00 0.00 4.84
128 129 2.108976 CCAGATATGGTGCGGCGT 59.891 61.111 9.37 0.00 0.00 5.68
129 130 2.666190 CCCAGATATGGTGCGGCG 60.666 66.667 5.49 0.51 0.00 6.46
130 131 2.281761 CCCCAGATATGGTGCGGC 60.282 66.667 5.49 0.00 0.00 6.53
131 132 2.281761 GCCCCAGATATGGTGCGG 60.282 66.667 5.49 0.45 0.00 5.69
132 133 2.281761 GGCCCCAGATATGGTGCG 60.282 66.667 7.77 0.00 0.00 5.34
133 134 2.281761 CGGCCCCAGATATGGTGC 60.282 66.667 5.12 5.12 0.00 5.01
134 135 2.281761 GCGGCCCCAGATATGGTG 60.282 66.667 5.49 0.00 0.00 4.17
135 136 3.570212 GGCGGCCCCAGATATGGT 61.570 66.667 8.12 0.00 0.00 3.55
136 137 4.704833 CGGCGGCCCCAGATATGG 62.705 72.222 14.55 0.00 0.00 2.74
148 149 4.841861 TTTATGTCGGGGCGGCGG 62.842 66.667 9.78 0.00 32.50 6.13
149 150 3.269347 CTTTATGTCGGGGCGGCG 61.269 66.667 0.51 0.51 32.50 6.46
150 151 2.124860 ACTTTATGTCGGGGCGGC 60.125 61.111 0.00 0.00 0.00 6.53
151 152 4.120085 GACTTTATGTCGGGGCGG 57.880 61.111 0.00 0.00 35.81 6.13
158 159 1.653151 GGGCGGTCTGACTTTATGTC 58.347 55.000 7.85 0.00 45.54 3.06
159 160 0.252197 GGGGCGGTCTGACTTTATGT 59.748 55.000 7.85 0.00 0.00 2.29
160 161 0.463833 GGGGGCGGTCTGACTTTATG 60.464 60.000 7.85 0.00 0.00 1.90
161 162 0.620700 AGGGGGCGGTCTGACTTTAT 60.621 55.000 7.85 0.00 0.00 1.40
162 163 0.838987 AAGGGGGCGGTCTGACTTTA 60.839 55.000 7.85 0.00 0.00 1.85
163 164 1.716028 AAAGGGGGCGGTCTGACTTT 61.716 55.000 7.85 0.00 0.00 2.66
164 165 2.154074 AAAGGGGGCGGTCTGACTT 61.154 57.895 7.85 0.00 0.00 3.01
165 166 2.529389 AAAGGGGGCGGTCTGACT 60.529 61.111 7.85 0.00 0.00 3.41
166 167 2.359975 CAAAGGGGGCGGTCTGAC 60.360 66.667 0.00 0.00 0.00 3.51
167 168 3.646715 CCAAAGGGGGCGGTCTGA 61.647 66.667 0.00 0.00 0.00 3.27
178 179 2.513897 GTCGATCCGCCCCAAAGG 60.514 66.667 0.00 0.00 39.47 3.11
179 180 2.513897 GGTCGATCCGCCCCAAAG 60.514 66.667 0.00 0.00 0.00 2.77
188 189 3.515286 TGTCGGCTCGGTCGATCC 61.515 66.667 4.01 3.44 42.90 3.36
189 190 2.278013 GTGTCGGCTCGGTCGATC 60.278 66.667 4.01 0.00 42.90 3.69
190 191 3.823330 GGTGTCGGCTCGGTCGAT 61.823 66.667 4.01 0.00 42.90 3.59
216 217 2.409870 GCATCCTTGTCCCGCTTGG 61.410 63.158 0.00 0.00 0.00 3.61
217 218 2.409870 GGCATCCTTGTCCCGCTTG 61.410 63.158 0.00 0.00 0.00 4.01
218 219 2.044946 GGCATCCTTGTCCCGCTT 60.045 61.111 0.00 0.00 0.00 4.68
219 220 3.329889 TGGCATCCTTGTCCCGCT 61.330 61.111 0.00 0.00 0.00 5.52
220 221 3.134127 GTGGCATCCTTGTCCCGC 61.134 66.667 0.00 0.00 0.00 6.13
221 222 1.450312 GAGTGGCATCCTTGTCCCG 60.450 63.158 0.00 0.00 0.00 5.14
222 223 0.038166 TTGAGTGGCATCCTTGTCCC 59.962 55.000 0.00 0.00 0.00 4.46
223 224 1.168714 GTTGAGTGGCATCCTTGTCC 58.831 55.000 0.00 0.00 0.00 4.02
224 225 1.168714 GGTTGAGTGGCATCCTTGTC 58.831 55.000 0.00 0.00 34.20 3.18
225 226 0.478072 TGGTTGAGTGGCATCCTTGT 59.522 50.000 0.00 0.00 37.28 3.16
226 227 1.619654 TTGGTTGAGTGGCATCCTTG 58.380 50.000 0.00 0.00 37.28 3.61
227 228 2.173519 CATTGGTTGAGTGGCATCCTT 58.826 47.619 0.00 0.00 37.28 3.36
228 229 1.076024 ACATTGGTTGAGTGGCATCCT 59.924 47.619 0.00 0.00 37.28 3.24
229 230 1.474077 GACATTGGTTGAGTGGCATCC 59.526 52.381 0.00 0.00 36.97 3.51
230 231 1.131126 CGACATTGGTTGAGTGGCATC 59.869 52.381 0.00 0.00 0.00 3.91
231 232 1.167851 CGACATTGGTTGAGTGGCAT 58.832 50.000 0.00 0.00 0.00 4.40
232 233 0.107643 TCGACATTGGTTGAGTGGCA 59.892 50.000 0.00 0.00 32.35 4.92
233 234 0.798776 CTCGACATTGGTTGAGTGGC 59.201 55.000 4.30 0.00 46.37 5.01
238 239 3.181475 GGCTCTATCTCGACATTGGTTGA 60.181 47.826 0.00 0.00 36.04 3.18
239 240 3.126831 GGCTCTATCTCGACATTGGTTG 58.873 50.000 0.00 0.00 0.00 3.77
240 241 2.103263 GGGCTCTATCTCGACATTGGTT 59.897 50.000 0.00 0.00 0.00 3.67
241 242 1.689273 GGGCTCTATCTCGACATTGGT 59.311 52.381 0.00 0.00 0.00 3.67
242 243 1.001406 GGGGCTCTATCTCGACATTGG 59.999 57.143 0.00 0.00 0.00 3.16
243 244 1.688735 TGGGGCTCTATCTCGACATTG 59.311 52.381 0.00 0.00 0.00 2.82
244 245 1.689273 GTGGGGCTCTATCTCGACATT 59.311 52.381 0.00 0.00 0.00 2.71
245 246 1.333177 GTGGGGCTCTATCTCGACAT 58.667 55.000 0.00 0.00 0.00 3.06
246 247 0.755698 GGTGGGGCTCTATCTCGACA 60.756 60.000 0.00 0.00 0.00 4.35
247 248 0.468400 AGGTGGGGCTCTATCTCGAC 60.468 60.000 0.00 0.00 0.00 4.20
248 249 0.178987 GAGGTGGGGCTCTATCTCGA 60.179 60.000 0.00 0.00 0.00 4.04
249 250 0.468214 TGAGGTGGGGCTCTATCTCG 60.468 60.000 5.66 0.00 0.00 4.04
250 251 2.022718 ATGAGGTGGGGCTCTATCTC 57.977 55.000 2.63 2.63 0.00 2.75
251 252 2.724672 TCTATGAGGTGGGGCTCTATCT 59.275 50.000 0.00 0.00 0.00 1.98
252 253 3.096092 CTCTATGAGGTGGGGCTCTATC 58.904 54.545 0.00 0.00 0.00 2.08
253 254 2.825072 GCTCTATGAGGTGGGGCTCTAT 60.825 54.545 0.00 0.00 0.00 1.98
254 255 1.481428 GCTCTATGAGGTGGGGCTCTA 60.481 57.143 0.00 0.00 0.00 2.43
255 256 0.762461 GCTCTATGAGGTGGGGCTCT 60.762 60.000 0.00 0.00 0.00 4.09
256 257 1.050988 TGCTCTATGAGGTGGGGCTC 61.051 60.000 0.00 0.00 0.00 4.70
257 258 1.003442 TGCTCTATGAGGTGGGGCT 59.997 57.895 0.00 0.00 0.00 5.19
258 259 1.449353 CTGCTCTATGAGGTGGGGC 59.551 63.158 0.00 0.00 0.00 5.80
259 260 1.449353 GCTGCTCTATGAGGTGGGG 59.551 63.158 0.00 0.00 0.00 4.96
260 261 1.340399 TGGCTGCTCTATGAGGTGGG 61.340 60.000 0.00 0.00 0.00 4.61
261 262 0.179062 GTGGCTGCTCTATGAGGTGG 60.179 60.000 0.00 0.00 0.00 4.61
262 263 0.829333 AGTGGCTGCTCTATGAGGTG 59.171 55.000 0.00 0.00 0.00 4.00
263 264 1.118838 GAGTGGCTGCTCTATGAGGT 58.881 55.000 0.00 0.00 32.99 3.85
264 265 0.031857 CGAGTGGCTGCTCTATGAGG 59.968 60.000 0.00 0.00 33.55 3.86
265 266 0.597118 GCGAGTGGCTGCTCTATGAG 60.597 60.000 0.00 0.00 39.11 2.90
266 267 1.322538 TGCGAGTGGCTGCTCTATGA 61.323 55.000 0.00 0.00 44.05 2.15
267 268 0.249784 ATGCGAGTGGCTGCTCTATG 60.250 55.000 0.00 0.00 44.05 2.23
268 269 0.467384 AATGCGAGTGGCTGCTCTAT 59.533 50.000 0.00 1.31 44.05 1.98
269 270 0.460811 CAATGCGAGTGGCTGCTCTA 60.461 55.000 0.00 0.00 44.05 2.43
270 271 1.744368 CAATGCGAGTGGCTGCTCT 60.744 57.895 0.00 0.00 44.05 4.09
271 272 1.580845 AACAATGCGAGTGGCTGCTC 61.581 55.000 0.00 0.62 44.05 4.26
272 273 1.580845 GAACAATGCGAGTGGCTGCT 61.581 55.000 0.00 0.00 44.05 4.24
273 274 1.154150 GAACAATGCGAGTGGCTGC 60.154 57.895 0.00 0.00 44.05 5.25
274 275 1.503542 GGAACAATGCGAGTGGCTG 59.496 57.895 0.00 0.00 44.05 4.85
275 276 1.675641 GGGAACAATGCGAGTGGCT 60.676 57.895 0.00 0.00 44.05 4.75
276 277 2.877691 GGGAACAATGCGAGTGGC 59.122 61.111 0.00 0.00 43.96 5.01
277 278 1.361668 CTCGGGAACAATGCGAGTGG 61.362 60.000 0.00 0.00 0.00 4.00
278 279 0.389817 TCTCGGGAACAATGCGAGTG 60.390 55.000 0.00 0.00 0.00 3.51
279 280 0.537188 ATCTCGGGAACAATGCGAGT 59.463 50.000 0.00 0.00 0.00 4.18
280 281 1.212616 GATCTCGGGAACAATGCGAG 58.787 55.000 0.00 0.00 0.00 5.03
281 282 0.527600 CGATCTCGGGAACAATGCGA 60.528 55.000 0.00 0.00 35.37 5.10
282 283 1.927210 CGATCTCGGGAACAATGCG 59.073 57.895 0.00 0.00 35.37 4.73
283 284 1.643832 GCGATCTCGGGAACAATGC 59.356 57.895 0.00 0.00 40.23 3.56
284 285 0.461870 TGGCGATCTCGGGAACAATG 60.462 55.000 0.00 0.00 40.23 2.82
285 286 0.469917 ATGGCGATCTCGGGAACAAT 59.530 50.000 0.00 0.00 40.23 2.71
286 287 0.179084 GATGGCGATCTCGGGAACAA 60.179 55.000 0.81 0.00 40.23 2.83
287 288 1.043116 AGATGGCGATCTCGGGAACA 61.043 55.000 5.25 0.00 33.20 3.18
288 289 0.319125 GAGATGGCGATCTCGGGAAC 60.319 60.000 20.98 0.41 44.10 3.62
289 290 2.041976 GAGATGGCGATCTCGGGAA 58.958 57.895 20.98 0.00 44.10 3.97
290 291 3.765051 GAGATGGCGATCTCGGGA 58.235 61.111 20.98 0.00 44.10 5.14
301 302 0.583438 CTGTTTATGCGCCGAGATGG 59.417 55.000 4.18 0.00 42.50 3.51
302 303 1.570813 TCTGTTTATGCGCCGAGATG 58.429 50.000 4.18 0.00 0.00 2.90
303 304 2.309528 TTCTGTTTATGCGCCGAGAT 57.690 45.000 4.18 0.00 0.00 2.75
304 305 1.730064 GTTTCTGTTTATGCGCCGAGA 59.270 47.619 4.18 0.00 0.00 4.04
305 306 1.202031 GGTTTCTGTTTATGCGCCGAG 60.202 52.381 4.18 0.00 0.00 4.63
306 307 0.800012 GGTTTCTGTTTATGCGCCGA 59.200 50.000 4.18 0.00 0.00 5.54
307 308 0.519519 TGGTTTCTGTTTATGCGCCG 59.480 50.000 4.18 0.00 0.00 6.46
308 309 1.402325 GGTGGTTTCTGTTTATGCGCC 60.402 52.381 4.18 0.00 0.00 6.53
309 310 1.268352 TGGTGGTTTCTGTTTATGCGC 59.732 47.619 0.00 0.00 0.00 6.09
310 311 2.811431 TCTGGTGGTTTCTGTTTATGCG 59.189 45.455 0.00 0.00 0.00 4.73
311 312 4.072131 TCTCTGGTGGTTTCTGTTTATGC 58.928 43.478 0.00 0.00 0.00 3.14
312 313 4.154918 GCTCTCTGGTGGTTTCTGTTTATG 59.845 45.833 0.00 0.00 0.00 1.90
313 314 4.042187 AGCTCTCTGGTGGTTTCTGTTTAT 59.958 41.667 0.00 0.00 0.00 1.40
314 315 3.391296 AGCTCTCTGGTGGTTTCTGTTTA 59.609 43.478 0.00 0.00 0.00 2.01
315 316 2.173569 AGCTCTCTGGTGGTTTCTGTTT 59.826 45.455 0.00 0.00 0.00 2.83
316 317 1.771255 AGCTCTCTGGTGGTTTCTGTT 59.229 47.619 0.00 0.00 0.00 3.16
317 318 1.071385 CAGCTCTCTGGTGGTTTCTGT 59.929 52.381 0.00 0.00 40.23 3.41
318 319 1.805869 CAGCTCTCTGGTGGTTTCTG 58.194 55.000 0.00 0.00 40.23 3.02
319 320 0.036022 GCAGCTCTCTGGTGGTTTCT 59.964 55.000 0.00 0.00 43.78 2.52
320 321 0.957888 GGCAGCTCTCTGGTGGTTTC 60.958 60.000 0.00 0.00 43.78 2.78
321 322 1.073897 GGCAGCTCTCTGGTGGTTT 59.926 57.895 0.00 0.00 43.78 3.27
322 323 2.753029 GGCAGCTCTCTGGTGGTT 59.247 61.111 0.00 0.00 43.78 3.67
323 324 3.699894 CGGCAGCTCTCTGGTGGT 61.700 66.667 0.00 0.00 43.78 4.16
324 325 2.947532 TTCGGCAGCTCTCTGGTGG 61.948 63.158 0.00 0.00 43.78 4.61
325 326 1.739562 GTTCGGCAGCTCTCTGGTG 60.740 63.158 0.00 0.00 46.12 4.17
326 327 2.164865 CTGTTCGGCAGCTCTCTGGT 62.165 60.000 0.00 0.00 40.65 4.00
327 328 1.447489 CTGTTCGGCAGCTCTCTGG 60.447 63.158 0.00 0.00 40.65 3.86
328 329 1.447489 CCTGTTCGGCAGCTCTCTG 60.447 63.158 0.00 0.00 43.71 3.35
329 330 2.654079 CCCTGTTCGGCAGCTCTCT 61.654 63.158 0.00 0.00 43.71 3.10
330 331 2.125350 CCCTGTTCGGCAGCTCTC 60.125 66.667 0.00 0.00 43.71 3.20
338 339 1.672356 CAACTCAGGCCCTGTTCGG 60.672 63.158 11.27 2.72 32.61 4.30
339 340 0.036010 ATCAACTCAGGCCCTGTTCG 60.036 55.000 11.27 3.37 32.61 3.95
340 341 1.003580 TCATCAACTCAGGCCCTGTTC 59.996 52.381 11.27 0.00 32.61 3.18
341 342 1.067295 TCATCAACTCAGGCCCTGTT 58.933 50.000 11.27 0.00 32.61 3.16
342 343 1.211457 GATCATCAACTCAGGCCCTGT 59.789 52.381 11.27 0.00 32.61 4.00
343 344 1.476471 GGATCATCAACTCAGGCCCTG 60.476 57.143 3.69 3.69 0.00 4.45
344 345 0.842635 GGATCATCAACTCAGGCCCT 59.157 55.000 0.00 0.00 0.00 5.19
345 346 0.548031 TGGATCATCAACTCAGGCCC 59.452 55.000 0.00 0.00 0.00 5.80
346 347 2.502295 GATGGATCATCAACTCAGGCC 58.498 52.381 0.00 0.00 40.28 5.19
347 348 2.141517 CGATGGATCATCAACTCAGGC 58.858 52.381 8.38 0.00 40.54 4.85
348 349 3.740631 TCGATGGATCATCAACTCAGG 57.259 47.619 8.38 0.00 40.54 3.86
349 350 4.941657 TCTTCGATGGATCATCAACTCAG 58.058 43.478 8.38 0.00 40.54 3.35
350 351 5.343307 TTCTTCGATGGATCATCAACTCA 57.657 39.130 8.38 0.00 40.54 3.41
351 352 9.814899 ATATATTCTTCGATGGATCATCAACTC 57.185 33.333 8.38 0.00 40.54 3.01
378 379 4.210331 CGGATCAATCCCTCCAAGAAAAT 58.790 43.478 3.45 0.00 44.24 1.82
383 387 1.486310 TGACGGATCAATCCCTCCAAG 59.514 52.381 3.45 0.00 44.24 3.61
400 404 6.801539 TTGTCCTACAATGACATCTTTGAC 57.198 37.500 12.90 3.40 41.99 3.18
526 530 3.304829 ACCATGTTTACCTGCCTTGTTT 58.695 40.909 0.00 0.00 0.00 2.83
531 535 3.371595 GGACATACCATGTTTACCTGCCT 60.372 47.826 0.00 0.00 45.03 4.75
614 620 6.760298 TGCTTGCACATTGAAATCAAAAGTTA 59.240 30.769 0.00 0.00 39.55 2.24
618 624 6.432607 TTTGCTTGCACATTGAAATCAAAA 57.567 29.167 0.00 0.00 39.55 2.44
619 625 5.504337 GCTTTGCTTGCACATTGAAATCAAA 60.504 36.000 0.00 0.00 39.55 2.69
727 736 7.469260 GGTACGTACGTAATTAAGTCCAGTAA 58.531 38.462 28.34 0.75 31.86 2.24
977 1591 1.098129 TCTCATCCGGCTGACTCTCG 61.098 60.000 3.28 0.00 0.00 4.04
982 1596 0.683973 ATCCATCTCATCCGGCTGAC 59.316 55.000 3.28 0.00 0.00 3.51
992 1606 3.959293 ACAAGTTGATGCATCCATCTCA 58.041 40.909 23.67 2.43 46.43 3.27
1006 1620 4.101803 GCCATTGCACTGGTAACAAGTTG 61.102 47.826 22.70 0.00 42.17 3.16
1252 1866 3.810896 GAACCATTCCGCCACCGC 61.811 66.667 0.00 0.00 0.00 5.68
1253 1867 1.644786 GAAGAACCATTCCGCCACCG 61.645 60.000 0.00 0.00 0.00 4.94
1254 1868 0.608035 TGAAGAACCATTCCGCCACC 60.608 55.000 0.00 0.00 0.00 4.61
1255 1869 1.133025 CATGAAGAACCATTCCGCCAC 59.867 52.381 0.00 0.00 0.00 5.01
1256 1870 1.462616 CATGAAGAACCATTCCGCCA 58.537 50.000 0.00 0.00 0.00 5.69
1257 1871 0.101219 GCATGAAGAACCATTCCGCC 59.899 55.000 0.00 0.00 0.00 6.13
1262 1876 2.229792 ACGTGTGCATGAAGAACCATT 58.770 42.857 0.00 0.00 0.00 3.16
1276 1890 0.108992 ATGCACCCTACGTACGTGTG 60.109 55.000 30.25 27.15 0.00 3.82
1277 1891 0.108992 CATGCACCCTACGTACGTGT 60.109 55.000 30.25 17.06 0.00 4.49
1563 2182 1.196808 GCGTCCGCATATATTTGTGGG 59.803 52.381 21.15 10.48 45.47 4.61
1721 2341 2.105128 GAGAGACCACCGCCGATG 59.895 66.667 0.00 0.00 0.00 3.84
1752 2372 4.156622 CTGCACTGCACGCCGATG 62.157 66.667 0.00 0.00 33.79 3.84
1823 2443 4.383850 TTTTGTGGGCATCGGAATATTG 57.616 40.909 0.00 0.00 0.00 1.90
1933 3044 5.163703 CGTGATGGAAATGGAAATACGGAAA 60.164 40.000 0.00 0.00 0.00 3.13
1935 3046 3.874543 CGTGATGGAAATGGAAATACGGA 59.125 43.478 0.00 0.00 0.00 4.69
1937 3048 3.874543 TCCGTGATGGAAATGGAAATACG 59.125 43.478 0.00 0.00 46.38 3.06
2008 3119 0.753262 ACACGGTCAGACTTTCTGCT 59.247 50.000 0.00 0.00 43.95 4.24
2021 3132 0.316204 CCAACTACCTTCGACACGGT 59.684 55.000 5.65 5.65 37.31 4.83
2030 3141 3.074412 CAGCGATGAAACCAACTACCTT 58.926 45.455 0.00 0.00 0.00 3.50
2104 3219 6.672147 AGATTCATTTGTCTTCCTTGTTTCG 58.328 36.000 0.00 0.00 0.00 3.46
2186 5907 3.129988 CAGGATTTTTGGAGGAGCATGTC 59.870 47.826 0.00 0.00 0.00 3.06


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

AutoCloner maintained by Alex Coulton.