Multiple sequence alignment - TraesCS3B01G482800

Loading Multiple Alignment...

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 TraesCS3B01G482800 chr3B 100.000 2657 0 0 1 2657 729723385 729726041 0.000000e+00 4907
1 TraesCS3B01G482800 chr3D 91.725 1281 97 8 362 1641 550269340 550270612 0.000000e+00 1770
2 TraesCS3B01G482800 chr3D 92.355 981 53 15 1690 2657 550270633 550271604 0.000000e+00 1376
3 TraesCS3B01G482800 chr3D 84.356 831 115 15 1831 2652 537593099 537593923 0.000000e+00 800
4 TraesCS3B01G482800 chr3D 81.673 562 81 17 386 940 362865603 362865057 5.220000e-122 448
5 TraesCS3B01G482800 chr3D 92.391 184 13 1 1 184 550269161 550269343 7.300000e-66 261
6 TraesCS3B01G482800 chr3D 91.304 161 12 2 186 346 558879347 558879189 4.450000e-53 219
7 TraesCS3B01G482800 chr3D 83.784 185 29 1 1 184 362865804 362865620 9.780000e-40 174
8 TraesCS3B01G482800 chr3A 89.033 1468 108 18 760 2217 687103050 687104474 0.000000e+00 1770
9 TraesCS3B01G482800 chr3A 83.123 871 119 15 1806 2657 588689306 588690167 0.000000e+00 769
10 TraesCS3B01G482800 chr3A 91.033 368 30 3 362 728 687102688 687103053 6.610000e-136 494
11 TraesCS3B01G482800 chr3A 91.848 184 15 0 1 184 687102508 687102691 9.440000e-65 257
12 TraesCS3B01G482800 chr4D 86.828 1154 135 8 939 2078 136500395 136501545 0.000000e+00 1273
13 TraesCS3B01G482800 chr4D 83.815 519 73 9 370 884 483204301 483203790 1.430000e-132 483
14 TraesCS3B01G482800 chr4D 88.043 184 22 0 1 184 483204489 483204306 4.450000e-53 219
15 TraesCS3B01G482800 chr2D 86.145 830 99 12 1834 2657 398645250 398646069 0.000000e+00 881
16 TraesCS3B01G482800 chr2D 85.269 835 103 15 1830 2657 209119708 209118887 0.000000e+00 843
17 TraesCS3B01G482800 chr2D 88.757 169 16 3 184 351 110637281 110637115 1.250000e-48 204
18 TraesCS3B01G482800 chr2A 85.525 829 105 10 1834 2657 535833871 535834689 0.000000e+00 852
19 TraesCS3B01G482800 chr2A 92.614 176 12 1 185 360 125228258 125228084 4.390000e-63 252
20 TraesCS3B01G482800 chr1D 84.704 778 107 11 1855 2626 376280302 376279531 0.000000e+00 767
21 TraesCS3B01G482800 chr1D 82.453 587 80 19 362 939 315605498 315604926 2.380000e-135 492
22 TraesCS3B01G482800 chr1D 92.216 167 12 1 190 356 14278078 14277913 4.420000e-58 235
23 TraesCS3B01G482800 chr2B 82.787 854 121 20 1811 2652 614504843 614505682 0.000000e+00 739
24 TraesCS3B01G482800 chr2B 81.667 360 56 8 526 884 753919220 753918870 9.300000e-75 291
25 TraesCS3B01G482800 chr5B 83.946 735 107 10 1926 2657 14768207 14767481 0.000000e+00 693
26 TraesCS3B01G482800 chr5B 86.957 184 22 2 1 184 167295673 167295854 3.470000e-49 206
27 TraesCS3B01G482800 chr5B 80.214 187 32 4 1 185 696704084 696704267 4.610000e-28 135
28 TraesCS3B01G482800 chr4A 84.229 558 69 10 1544 2087 397261586 397261034 2.340000e-145 525
29 TraesCS3B01G482800 chr7B 84.156 385 56 5 362 742 333355196 333354813 4.180000e-98 368
30 TraesCS3B01G482800 chr5A 84.858 317 44 4 362 676 693409926 693410240 1.540000e-82 316
31 TraesCS3B01G482800 chr5A 91.379 174 13 1 183 356 665981115 665981286 1.230000e-58 237
32 TraesCS3B01G482800 chr5A 83.871 186 28 2 1 185 189012303 189012487 2.720000e-40 176
33 TraesCS3B01G482800 chr5A 82.353 187 27 4 1 184 693409746 693409929 9.850000e-35 158
34 TraesCS3B01G482800 chr5A 81.622 185 31 2 1 184 693493519 693493701 1.650000e-32 150
35 TraesCS3B01G482800 chr7A 81.383 376 59 8 372 742 195201890 195202259 2.000000e-76 296
36 TraesCS3B01G482800 chr7A 90.683 161 14 1 182 342 485516286 485516445 2.070000e-51 213
37 TraesCS3B01G482800 chr5D 94.253 174 9 1 184 357 526302479 526302307 5.640000e-67 265
38 TraesCS3B01G482800 chr5D 91.379 174 14 1 183 356 47779031 47778859 1.230000e-58 237
39 TraesCS3B01G482800 chr1B 91.228 171 15 0 186 356 666539608 666539778 1.590000e-57 233


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 TraesCS3B01G482800 chr3B 729723385 729726041 2656 False 4907.000000 4907 100.0000 1 2657 1 chr3B.!!$F1 2656
1 TraesCS3B01G482800 chr3D 550269161 550271604 2443 False 1135.666667 1770 92.1570 1 2657 3 chr3D.!!$F2 2656
2 TraesCS3B01G482800 chr3D 537593099 537593923 824 False 800.000000 800 84.3560 1831 2652 1 chr3D.!!$F1 821
3 TraesCS3B01G482800 chr3D 362865057 362865804 747 True 311.000000 448 82.7285 1 940 2 chr3D.!!$R2 939
4 TraesCS3B01G482800 chr3A 687102508 687104474 1966 False 840.333333 1770 90.6380 1 2217 3 chr3A.!!$F2 2216
5 TraesCS3B01G482800 chr3A 588689306 588690167 861 False 769.000000 769 83.1230 1806 2657 1 chr3A.!!$F1 851
6 TraesCS3B01G482800 chr4D 136500395 136501545 1150 False 1273.000000 1273 86.8280 939 2078 1 chr4D.!!$F1 1139
7 TraesCS3B01G482800 chr4D 483203790 483204489 699 True 351.000000 483 85.9290 1 884 2 chr4D.!!$R1 883
8 TraesCS3B01G482800 chr2D 398645250 398646069 819 False 881.000000 881 86.1450 1834 2657 1 chr2D.!!$F1 823
9 TraesCS3B01G482800 chr2D 209118887 209119708 821 True 843.000000 843 85.2690 1830 2657 1 chr2D.!!$R2 827
10 TraesCS3B01G482800 chr2A 535833871 535834689 818 False 852.000000 852 85.5250 1834 2657 1 chr2A.!!$F1 823
11 TraesCS3B01G482800 chr1D 376279531 376280302 771 True 767.000000 767 84.7040 1855 2626 1 chr1D.!!$R3 771
12 TraesCS3B01G482800 chr1D 315604926 315605498 572 True 492.000000 492 82.4530 362 939 1 chr1D.!!$R2 577
13 TraesCS3B01G482800 chr2B 614504843 614505682 839 False 739.000000 739 82.7870 1811 2652 1 chr2B.!!$F1 841
14 TraesCS3B01G482800 chr5B 14767481 14768207 726 True 693.000000 693 83.9460 1926 2657 1 chr5B.!!$R1 731
15 TraesCS3B01G482800 chr4A 397261034 397261586 552 True 525.000000 525 84.2290 1544 2087 1 chr4A.!!$R1 543

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
920 937 0.031994 GACCAAAAATGGTGCGTGCT 59.968 50.0 5.02 0.0 43.24 4.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2107 2157 0.241213 TCTTGACGCTCGGAGTTCAG 59.759 55.0 6.9 4.91 0.0 3.02 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
127 129 5.333568 GGTGGTAAGTACGTGTGTGAATTTC 60.334 44.000 0.00 0.00 0.00 2.17
182 184 3.847671 TGGGACATGTACAAACACAGA 57.152 42.857 10.99 0.00 38.78 3.41
183 185 4.157849 TGGGACATGTACAAACACAGAA 57.842 40.909 10.99 0.00 38.78 3.02
184 186 3.880490 TGGGACATGTACAAACACAGAAC 59.120 43.478 10.99 0.00 38.78 3.01
185 187 3.059188 GGGACATGTACAAACACAGAACG 60.059 47.826 10.99 0.00 38.78 3.95
186 188 3.805422 GGACATGTACAAACACAGAACGA 59.195 43.478 2.19 0.00 38.78 3.85
187 189 4.271533 GGACATGTACAAACACAGAACGAA 59.728 41.667 2.19 0.00 38.78 3.85
188 190 5.403897 ACATGTACAAACACAGAACGAAG 57.596 39.130 0.00 0.00 38.78 3.79
189 191 4.873827 ACATGTACAAACACAGAACGAAGT 59.126 37.500 0.00 0.00 40.60 3.01
191 193 5.676744 CATGTACAAACACAGAACGAAGTTG 59.323 40.000 0.00 0.00 45.83 3.16
192 194 5.729454 ATGTACAAACACAGAACGAAGTTGC 60.729 40.000 0.00 0.00 45.83 4.17
193 195 7.838441 ATGTACAAACACAGAACGAAGTTGCT 61.838 38.462 0.00 0.00 45.83 3.91
194 196 9.221605 ATGTACAAACACAGAACGAAGTTGCTT 62.222 37.037 0.00 0.00 45.83 3.91
203 205 2.542597 ACGAAGTTGCTTTACACACGA 58.457 42.857 0.00 0.00 37.78 4.35
204 206 3.128349 ACGAAGTTGCTTTACACACGAT 58.872 40.909 0.00 0.00 37.78 3.73
205 207 3.183775 ACGAAGTTGCTTTACACACGATC 59.816 43.478 0.00 0.00 37.78 3.69
206 208 3.428870 CGAAGTTGCTTTACACACGATCT 59.571 43.478 0.00 0.00 0.00 2.75
207 209 4.084537 CGAAGTTGCTTTACACACGATCTT 60.085 41.667 0.00 0.00 0.00 2.40
208 210 5.558273 CGAAGTTGCTTTACACACGATCTTT 60.558 40.000 0.00 0.00 0.00 2.52
209 211 5.095691 AGTTGCTTTACACACGATCTTTG 57.904 39.130 0.00 0.00 0.00 2.77
210 212 4.574828 AGTTGCTTTACACACGATCTTTGT 59.425 37.500 0.00 0.00 0.00 2.83
211 213 5.756347 AGTTGCTTTACACACGATCTTTGTA 59.244 36.000 0.00 0.00 0.00 2.41
212 214 5.585500 TGCTTTACACACGATCTTTGTAC 57.415 39.130 0.00 0.00 0.00 2.90
213 215 5.051153 TGCTTTACACACGATCTTTGTACA 58.949 37.500 0.00 0.00 0.00 2.90
214 216 5.699001 TGCTTTACACACGATCTTTGTACAT 59.301 36.000 0.00 0.00 0.00 2.29
215 217 6.869388 TGCTTTACACACGATCTTTGTACATA 59.131 34.615 0.00 0.00 0.00 2.29
216 218 7.148705 TGCTTTACACACGATCTTTGTACATAC 60.149 37.037 0.00 0.00 0.00 2.39
217 219 6.858104 TTACACACGATCTTTGTACATACG 57.142 37.500 0.00 1.53 0.00 3.06
218 220 5.050644 ACACACGATCTTTGTACATACGA 57.949 39.130 0.00 0.00 0.00 3.43
219 221 5.647589 ACACACGATCTTTGTACATACGAT 58.352 37.500 0.00 0.00 0.00 3.73
220 222 5.742453 ACACACGATCTTTGTACATACGATC 59.258 40.000 14.66 14.66 0.00 3.69
221 223 5.971792 CACACGATCTTTGTACATACGATCT 59.028 40.000 19.00 9.63 0.00 2.75
222 224 5.971792 ACACGATCTTTGTACATACGATCTG 59.028 40.000 19.00 17.55 0.00 2.90
223 225 6.183360 ACACGATCTTTGTACATACGATCTGA 60.183 38.462 19.00 2.20 0.00 3.27
224 226 6.858478 CACGATCTTTGTACATACGATCTGAT 59.142 38.462 19.00 0.00 0.00 2.90
225 227 6.858478 ACGATCTTTGTACATACGATCTGATG 59.142 38.462 19.00 11.06 0.00 3.07
226 228 6.858478 CGATCTTTGTACATACGATCTGATGT 59.142 38.462 19.00 12.40 39.57 3.06
227 229 7.149063 CGATCTTTGTACATACGATCTGATGTG 60.149 40.741 19.00 2.71 36.92 3.21
228 230 6.863275 TCTTTGTACATACGATCTGATGTGT 58.137 36.000 15.85 7.54 36.92 3.72
229 231 6.972901 TCTTTGTACATACGATCTGATGTGTC 59.027 38.462 15.85 10.82 36.92 3.67
230 232 6.451064 TTGTACATACGATCTGATGTGTCT 57.549 37.500 15.85 0.00 36.92 3.41
231 233 6.061231 TGTACATACGATCTGATGTGTCTC 57.939 41.667 15.85 7.42 36.92 3.36
232 234 5.823045 TGTACATACGATCTGATGTGTCTCT 59.177 40.000 15.85 0.00 36.92 3.10
233 235 6.990349 TGTACATACGATCTGATGTGTCTCTA 59.010 38.462 15.85 0.00 36.92 2.43
234 236 6.307031 ACATACGATCTGATGTGTCTCTAC 57.693 41.667 8.18 0.00 34.98 2.59
235 237 6.058833 ACATACGATCTGATGTGTCTCTACT 58.941 40.000 8.18 0.00 34.98 2.57
236 238 7.217906 ACATACGATCTGATGTGTCTCTACTA 58.782 38.462 8.18 0.00 34.98 1.82
237 239 7.386573 ACATACGATCTGATGTGTCTCTACTAG 59.613 40.741 8.18 0.00 34.98 2.57
238 240 5.919755 ACGATCTGATGTGTCTCTACTAGA 58.080 41.667 0.00 0.00 0.00 2.43
249 251 3.218453 TCTCTACTAGACTCCATGCTGC 58.782 50.000 0.00 0.00 0.00 5.25
250 252 2.954989 CTCTACTAGACTCCATGCTGCA 59.045 50.000 4.13 4.13 0.00 4.41
251 253 3.570540 TCTACTAGACTCCATGCTGCAT 58.429 45.455 9.81 9.81 0.00 3.96
252 254 3.963374 TCTACTAGACTCCATGCTGCATT 59.037 43.478 13.38 0.00 0.00 3.56
253 255 3.191078 ACTAGACTCCATGCTGCATTC 57.809 47.619 13.38 8.16 0.00 2.67
254 256 2.502947 ACTAGACTCCATGCTGCATTCA 59.497 45.455 13.38 1.07 0.00 2.57
255 257 2.730934 AGACTCCATGCTGCATTCAT 57.269 45.000 13.38 0.00 0.00 2.57
256 258 2.298610 AGACTCCATGCTGCATTCATG 58.701 47.619 13.38 17.44 40.60 3.07
257 259 2.022195 GACTCCATGCTGCATTCATGT 58.978 47.619 13.38 9.43 39.60 3.21
258 260 2.426024 GACTCCATGCTGCATTCATGTT 59.574 45.455 13.38 9.89 39.60 2.71
259 261 2.426024 ACTCCATGCTGCATTCATGTTC 59.574 45.455 13.38 0.00 39.60 3.18
260 262 2.688446 CTCCATGCTGCATTCATGTTCT 59.312 45.455 13.38 0.00 39.60 3.01
261 263 3.093814 TCCATGCTGCATTCATGTTCTT 58.906 40.909 13.38 0.00 39.60 2.52
262 264 3.512329 TCCATGCTGCATTCATGTTCTTT 59.488 39.130 13.38 0.00 39.60 2.52
263 265 4.020928 TCCATGCTGCATTCATGTTCTTTT 60.021 37.500 13.38 0.00 39.60 2.27
264 266 4.328983 CCATGCTGCATTCATGTTCTTTTC 59.671 41.667 13.38 0.00 39.60 2.29
265 267 3.916761 TGCTGCATTCATGTTCTTTTCC 58.083 40.909 0.00 0.00 0.00 3.13
266 268 3.256558 GCTGCATTCATGTTCTTTTCCC 58.743 45.455 0.00 0.00 0.00 3.97
267 269 3.853475 CTGCATTCATGTTCTTTTCCCC 58.147 45.455 0.00 0.00 0.00 4.81
268 270 2.230992 TGCATTCATGTTCTTTTCCCCG 59.769 45.455 0.00 0.00 0.00 5.73
269 271 2.491693 GCATTCATGTTCTTTTCCCCGA 59.508 45.455 0.00 0.00 0.00 5.14
270 272 3.131046 GCATTCATGTTCTTTTCCCCGAT 59.869 43.478 0.00 0.00 0.00 4.18
271 273 4.675510 CATTCATGTTCTTTTCCCCGATG 58.324 43.478 0.00 0.00 0.00 3.84
272 274 2.722094 TCATGTTCTTTTCCCCGATGG 58.278 47.619 0.00 0.00 0.00 3.51
273 275 2.307392 TCATGTTCTTTTCCCCGATGGA 59.693 45.455 0.00 0.00 43.18 3.41
274 276 2.489938 TGTTCTTTTCCCCGATGGAG 57.510 50.000 0.00 0.00 46.24 3.86
275 277 1.095600 GTTCTTTTCCCCGATGGAGC 58.904 55.000 0.00 0.00 46.24 4.70
276 278 0.991920 TTCTTTTCCCCGATGGAGCT 59.008 50.000 0.00 0.00 46.24 4.09
277 279 0.253044 TCTTTTCCCCGATGGAGCTG 59.747 55.000 0.00 0.00 46.24 4.24
278 280 0.749454 CTTTTCCCCGATGGAGCTGG 60.749 60.000 0.00 0.00 46.24 4.85
279 281 1.497309 TTTTCCCCGATGGAGCTGGT 61.497 55.000 0.00 0.00 46.24 4.00
280 282 1.497309 TTTCCCCGATGGAGCTGGTT 61.497 55.000 0.00 0.00 46.24 3.67
281 283 2.124570 CCCCGATGGAGCTGGTTG 60.125 66.667 0.00 0.00 35.39 3.77
282 284 2.669133 CCCCGATGGAGCTGGTTGA 61.669 63.158 0.00 0.00 35.39 3.18
283 285 1.528824 CCCGATGGAGCTGGTTGAT 59.471 57.895 0.00 0.00 0.00 2.57
284 286 0.107017 CCCGATGGAGCTGGTTGATT 60.107 55.000 0.00 0.00 0.00 2.57
285 287 1.019673 CCGATGGAGCTGGTTGATTG 58.980 55.000 0.00 0.00 0.00 2.67
286 288 1.019673 CGATGGAGCTGGTTGATTGG 58.980 55.000 0.00 0.00 0.00 3.16
287 289 1.407299 CGATGGAGCTGGTTGATTGGA 60.407 52.381 0.00 0.00 0.00 3.53
288 290 2.019984 GATGGAGCTGGTTGATTGGAC 58.980 52.381 0.00 0.00 0.00 4.02
289 291 0.321564 TGGAGCTGGTTGATTGGACG 60.322 55.000 0.00 0.00 0.00 4.79
290 292 0.036388 GGAGCTGGTTGATTGGACGA 60.036 55.000 0.00 0.00 0.00 4.20
291 293 1.610624 GGAGCTGGTTGATTGGACGAA 60.611 52.381 0.00 0.00 0.00 3.85
292 294 2.151202 GAGCTGGTTGATTGGACGAAA 58.849 47.619 0.00 0.00 0.00 3.46
293 295 2.154462 AGCTGGTTGATTGGACGAAAG 58.846 47.619 0.00 0.00 0.00 2.62
294 296 1.401539 GCTGGTTGATTGGACGAAAGC 60.402 52.381 0.00 0.00 0.00 3.51
295 297 1.879380 CTGGTTGATTGGACGAAAGCA 59.121 47.619 0.00 0.00 0.00 3.91
296 298 1.606668 TGGTTGATTGGACGAAAGCAC 59.393 47.619 0.00 0.00 0.00 4.40
297 299 1.606668 GGTTGATTGGACGAAAGCACA 59.393 47.619 0.00 0.00 0.00 4.57
298 300 2.228822 GGTTGATTGGACGAAAGCACAT 59.771 45.455 0.00 0.00 0.00 3.21
299 301 3.236816 GTTGATTGGACGAAAGCACATG 58.763 45.455 0.00 0.00 0.00 3.21
300 302 1.199789 TGATTGGACGAAAGCACATGC 59.800 47.619 0.00 0.00 42.49 4.06
301 303 1.199789 GATTGGACGAAAGCACATGCA 59.800 47.619 6.64 0.00 45.16 3.96
302 304 1.028130 TTGGACGAAAGCACATGCAA 58.972 45.000 6.64 0.00 45.16 4.08
303 305 0.310543 TGGACGAAAGCACATGCAAC 59.689 50.000 6.64 0.00 45.16 4.17
304 306 0.310543 GGACGAAAGCACATGCAACA 59.689 50.000 6.64 0.00 45.16 3.33
305 307 1.268999 GGACGAAAGCACATGCAACAA 60.269 47.619 6.64 0.00 45.16 2.83
306 308 1.780860 GACGAAAGCACATGCAACAAC 59.219 47.619 6.64 0.00 45.16 3.32
307 309 1.133982 ACGAAAGCACATGCAACAACA 59.866 42.857 6.64 0.00 45.16 3.33
308 310 2.191802 CGAAAGCACATGCAACAACAA 58.808 42.857 6.64 0.00 45.16 2.83
309 311 2.796031 CGAAAGCACATGCAACAACAAT 59.204 40.909 6.64 0.00 45.16 2.71
310 312 3.121261 CGAAAGCACATGCAACAACAATC 60.121 43.478 6.64 0.00 45.16 2.67
311 313 2.054687 AGCACATGCAACAACAATCG 57.945 45.000 6.64 0.00 45.16 3.34
312 314 1.337703 AGCACATGCAACAACAATCGT 59.662 42.857 6.64 0.00 45.16 3.73
313 315 2.551887 AGCACATGCAACAACAATCGTA 59.448 40.909 6.64 0.00 45.16 3.43
314 316 3.191162 AGCACATGCAACAACAATCGTAT 59.809 39.130 6.64 0.00 45.16 3.06
315 317 4.394610 AGCACATGCAACAACAATCGTATA 59.605 37.500 6.64 0.00 45.16 1.47
316 318 5.066375 AGCACATGCAACAACAATCGTATAT 59.934 36.000 6.64 0.00 45.16 0.86
317 319 5.171874 GCACATGCAACAACAATCGTATATG 59.828 40.000 0.00 0.00 41.59 1.78
318 320 6.257423 CACATGCAACAACAATCGTATATGT 58.743 36.000 0.00 0.00 0.00 2.29
319 321 6.195060 CACATGCAACAACAATCGTATATGTG 59.805 38.462 0.00 0.00 36.76 3.21
320 322 5.871465 TGCAACAACAATCGTATATGTGT 57.129 34.783 0.00 0.00 0.00 3.72
321 323 6.247727 TGCAACAACAATCGTATATGTGTT 57.752 33.333 0.00 0.00 34.60 3.32
322 324 6.310960 TGCAACAACAATCGTATATGTGTTC 58.689 36.000 0.00 0.00 31.98 3.18
323 325 5.447846 GCAACAACAATCGTATATGTGTTCG 59.552 40.000 0.00 0.00 31.98 3.95
324 326 5.712217 ACAACAATCGTATATGTGTTCGG 57.288 39.130 0.00 0.00 31.98 4.30
325 327 5.412640 ACAACAATCGTATATGTGTTCGGA 58.587 37.500 0.00 0.00 31.98 4.55
326 328 5.290158 ACAACAATCGTATATGTGTTCGGAC 59.710 40.000 0.00 0.00 31.98 4.79
327 329 4.039703 ACAATCGTATATGTGTTCGGACG 58.960 43.478 0.00 0.00 0.00 4.79
328 330 3.976793 ATCGTATATGTGTTCGGACGT 57.023 42.857 0.00 0.00 0.00 4.34
329 331 3.055613 TCGTATATGTGTTCGGACGTG 57.944 47.619 0.00 0.00 0.00 4.49
330 332 2.677337 TCGTATATGTGTTCGGACGTGA 59.323 45.455 0.00 0.00 0.00 4.35
331 333 3.126686 TCGTATATGTGTTCGGACGTGAA 59.873 43.478 0.00 0.00 0.00 3.18
332 334 3.853103 CGTATATGTGTTCGGACGTGAAA 59.147 43.478 0.00 0.00 0.00 2.69
333 335 4.324135 CGTATATGTGTTCGGACGTGAAAA 59.676 41.667 0.00 0.00 0.00 2.29
334 336 5.005012 CGTATATGTGTTCGGACGTGAAAAT 59.995 40.000 0.00 0.00 0.00 1.82
335 337 3.536158 ATGTGTTCGGACGTGAAAATG 57.464 42.857 0.00 0.00 0.00 2.32
336 338 2.281517 TGTGTTCGGACGTGAAAATGT 58.718 42.857 0.00 0.00 0.00 2.71
337 339 2.285756 TGTGTTCGGACGTGAAAATGTC 59.714 45.455 0.00 0.00 0.00 3.06
338 340 1.523515 TGTTCGGACGTGAAAATGTCG 59.476 47.619 0.00 0.00 35.95 4.35
339 341 1.523934 GTTCGGACGTGAAAATGTCGT 59.476 47.619 0.00 0.00 40.49 4.34
340 342 2.702898 TCGGACGTGAAAATGTCGTA 57.297 45.000 0.00 0.00 37.92 3.43
341 343 2.318578 TCGGACGTGAAAATGTCGTAC 58.681 47.619 0.00 0.00 37.92 3.67
342 344 2.052891 CGGACGTGAAAATGTCGTACA 58.947 47.619 0.00 0.00 38.17 2.90
343 345 2.664568 CGGACGTGAAAATGTCGTACAT 59.335 45.455 0.00 0.00 41.31 2.29
344 346 3.853103 CGGACGTGAAAATGTCGTACATA 59.147 43.478 0.00 0.00 37.97 2.29
345 347 4.501559 CGGACGTGAAAATGTCGTACATAT 59.498 41.667 0.00 0.00 37.97 1.78
346 348 5.682422 CGGACGTGAAAATGTCGTACATATA 59.318 40.000 0.00 0.00 37.97 0.86
347 349 6.129535 CGGACGTGAAAATGTCGTACATATAG 60.130 42.308 0.00 0.00 37.97 1.31
348 350 6.345565 GGACGTGAAAATGTCGTACATATAGC 60.346 42.308 0.00 0.00 37.97 2.97
349 351 6.037726 ACGTGAAAATGTCGTACATATAGCA 58.962 36.000 0.00 0.00 37.97 3.49
350 352 6.198403 ACGTGAAAATGTCGTACATATAGCAG 59.802 38.462 0.00 0.00 37.97 4.24
351 353 6.345803 CGTGAAAATGTCGTACATATAGCAGG 60.346 42.308 0.00 0.00 37.97 4.85
352 354 5.989168 TGAAAATGTCGTACATATAGCAGGG 59.011 40.000 0.00 0.00 37.97 4.45
353 355 3.594603 ATGTCGTACATATAGCAGGGC 57.405 47.619 0.00 0.00 36.99 5.19
354 356 2.594131 TGTCGTACATATAGCAGGGCT 58.406 47.619 0.00 0.00 43.41 5.19
355 357 2.557056 TGTCGTACATATAGCAGGGCTC 59.443 50.000 0.00 0.00 40.44 4.70
356 358 2.557056 GTCGTACATATAGCAGGGCTCA 59.443 50.000 0.00 0.00 40.44 4.26
357 359 2.557056 TCGTACATATAGCAGGGCTCAC 59.443 50.000 0.00 0.00 40.44 3.51
358 360 2.352814 CGTACATATAGCAGGGCTCACC 60.353 54.545 0.00 0.00 40.44 4.02
360 362 1.417890 ACATATAGCAGGGCTCACCAC 59.582 52.381 0.00 0.00 43.89 4.16
365 367 1.228245 GCAGGGCTCACCACAGAAA 60.228 57.895 0.00 0.00 43.89 2.52
367 369 1.071471 AGGGCTCACCACAGAAACG 59.929 57.895 0.00 0.00 43.89 3.60
389 391 3.371595 GGGTGGAAGTACAACATGCCTAT 60.372 47.826 0.00 0.00 0.00 2.57
427 431 3.695830 TTGTAAGCATTTCCGGACTCT 57.304 42.857 1.83 0.00 0.00 3.24
532 538 2.441410 TGCGCCATTGATTTAGGTTGA 58.559 42.857 4.18 0.00 0.00 3.18
533 539 2.423185 TGCGCCATTGATTTAGGTTGAG 59.577 45.455 4.18 0.00 0.00 3.02
545 551 5.710409 TTTAGGTTGAGCCCTAAATAGCT 57.290 39.130 8.04 0.00 46.93 3.32
695 710 3.904800 TTATTCCAGATGAACTGCGGA 57.095 42.857 0.00 0.00 44.52 5.54
750 765 2.936050 AGTTTAGAAAACGGTTCGCG 57.064 45.000 0.00 0.00 0.00 5.87
757 772 3.556543 AAACGGTTCGCGGCGACTA 62.557 57.895 26.40 8.89 34.89 2.59
767 782 1.014352 GCGGCGACTAAATGTTGGAT 58.986 50.000 12.98 0.00 0.00 3.41
771 786 2.163412 GGCGACTAAATGTTGGATTGCA 59.837 45.455 0.00 0.00 0.00 4.08
787 802 8.850156 GTTGGATTGCAGGTTGATTAGTATAAT 58.150 33.333 0.00 0.00 0.00 1.28
795 810 9.780186 GCAGGTTGATTAGTATAATCTTTAGGT 57.220 33.333 10.09 0.00 0.00 3.08
814 831 7.798596 TTAGGTGTGTTTTACGTAAAATGGA 57.201 32.000 30.18 17.55 37.48 3.41
840 857 5.754543 AAACGATTCGTCCCAACTTAAAA 57.245 34.783 12.80 0.00 39.99 1.52
850 867 3.874392 CCAACTTAAAAGATGGGCTGG 57.126 47.619 10.36 0.00 43.14 4.85
920 937 0.031994 GACCAAAAATGGTGCGTGCT 59.968 50.000 5.02 0.00 43.24 4.40
954 971 2.854963 AGAGATATGGGCGTACGTACA 58.145 47.619 24.50 15.99 0.00 2.90
1021 1038 2.354503 GCATATCTCGCATCACCTCCAT 60.355 50.000 0.00 0.00 0.00 3.41
1079 1096 3.538129 TCTCCCTCTTCCTCCTATTCCTT 59.462 47.826 0.00 0.00 0.00 3.36
1086 1103 0.541863 CCTCCTATTCCTTGGCACGT 59.458 55.000 0.00 0.00 0.00 4.49
1154 1171 0.682209 ACACGCCGTACCCAGAGTAT 60.682 55.000 0.00 0.00 32.28 2.12
1179 1196 1.986757 ACCGTCCTCTCAGCATGCT 60.987 57.895 16.30 16.30 34.76 3.79
1446 1463 3.958147 AACTGCGATGAGTGCCGGG 62.958 63.158 2.18 0.00 0.00 5.73
1679 1696 9.303537 CATGCATGAATAATGTGTTGTAAATCA 57.696 29.630 22.59 0.00 38.65 2.57
1682 1699 9.013490 GCATGAATAATGTGTTGTAAATCAGAC 57.987 33.333 0.00 0.00 38.65 3.51
1738 1761 9.191995 CTTTTGCCTTAGAACATTTTATTCGTT 57.808 29.630 0.00 0.00 0.00 3.85
1739 1762 9.535878 TTTTGCCTTAGAACATTTTATTCGTTT 57.464 25.926 0.00 0.00 0.00 3.60
1740 1763 8.514136 TTGCCTTAGAACATTTTATTCGTTTG 57.486 30.769 0.00 0.00 0.00 2.93
1892 1924 0.465705 ATGACCCACCTAGATGCACG 59.534 55.000 0.00 0.00 0.00 5.34
1910 1942 5.424757 TGCACGGCACTAGTATATTTCTTT 58.575 37.500 0.00 0.00 31.71 2.52
1979 2026 5.978934 AAGTACACGTTTTGTCAGGTAAG 57.021 39.130 0.00 0.00 39.91 2.34
1985 2033 2.940410 CGTTTTGTCAGGTAAGGTGTGT 59.060 45.455 0.00 0.00 0.00 3.72
2010 2059 5.199723 TGCATGTCTCTTCTCTCACTCTAT 58.800 41.667 0.00 0.00 0.00 1.98
2234 2288 9.950680 TCATTTCACTAGAAAAATCTGAAACAC 57.049 29.630 0.00 0.00 46.06 3.32
2550 2614 9.979578 AGTGAAACATGCTTTTTCAATAATGTA 57.020 25.926 10.54 0.00 42.98 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
84 86 4.868734 CCACCGGACTACACTATTCTTTTC 59.131 45.833 9.46 0.00 0.00 2.29
177 179 4.201773 TGTGTAAAGCAACTTCGTTCTGTG 60.202 41.667 0.00 0.00 0.00 3.66
178 180 3.936453 TGTGTAAAGCAACTTCGTTCTGT 59.064 39.130 0.00 0.00 0.00 3.41
179 181 4.271687 GTGTGTAAAGCAACTTCGTTCTG 58.728 43.478 0.00 0.00 0.00 3.02
180 182 3.000925 CGTGTGTAAAGCAACTTCGTTCT 59.999 43.478 0.00 0.00 0.00 3.01
181 183 3.000523 TCGTGTGTAAAGCAACTTCGTTC 59.999 43.478 0.00 0.00 0.00 3.95
182 184 2.931325 TCGTGTGTAAAGCAACTTCGTT 59.069 40.909 0.00 0.00 0.00 3.85
183 185 2.542597 TCGTGTGTAAAGCAACTTCGT 58.457 42.857 0.00 0.00 0.00 3.85
184 186 3.428870 AGATCGTGTGTAAAGCAACTTCG 59.571 43.478 0.00 0.00 0.00 3.79
185 187 4.992381 AGATCGTGTGTAAAGCAACTTC 57.008 40.909 0.00 0.00 0.00 3.01
186 188 5.065988 ACAAAGATCGTGTGTAAAGCAACTT 59.934 36.000 4.49 0.00 0.00 2.66
187 189 4.574828 ACAAAGATCGTGTGTAAAGCAACT 59.425 37.500 4.49 0.00 0.00 3.16
188 190 4.844267 ACAAAGATCGTGTGTAAAGCAAC 58.156 39.130 4.49 0.00 0.00 4.17
189 191 5.524281 TGTACAAAGATCGTGTGTAAAGCAA 59.476 36.000 13.51 0.00 29.93 3.91
190 192 5.051153 TGTACAAAGATCGTGTGTAAAGCA 58.949 37.500 13.51 4.19 29.93 3.91
191 193 5.585500 TGTACAAAGATCGTGTGTAAAGC 57.415 39.130 13.51 2.15 29.93 3.51
192 194 7.271868 TCGTATGTACAAAGATCGTGTGTAAAG 59.728 37.037 13.51 3.65 29.93 1.85
193 195 7.083230 TCGTATGTACAAAGATCGTGTGTAAA 58.917 34.615 13.51 6.98 29.93 2.01
194 196 6.610456 TCGTATGTACAAAGATCGTGTGTAA 58.390 36.000 13.51 2.19 29.93 2.41
195 197 6.180771 TCGTATGTACAAAGATCGTGTGTA 57.819 37.500 13.51 8.27 0.00 2.90
196 198 5.050644 TCGTATGTACAAAGATCGTGTGT 57.949 39.130 13.51 9.12 0.00 3.72
197 199 5.971792 AGATCGTATGTACAAAGATCGTGTG 59.028 40.000 21.89 4.03 41.65 3.82
198 200 5.971792 CAGATCGTATGTACAAAGATCGTGT 59.028 40.000 21.89 9.62 41.65 4.49
199 201 6.199393 TCAGATCGTATGTACAAAGATCGTG 58.801 40.000 21.89 19.94 41.65 4.35
200 202 6.373186 TCAGATCGTATGTACAAAGATCGT 57.627 37.500 21.89 13.57 41.65 3.73
201 203 6.858478 ACATCAGATCGTATGTACAAAGATCG 59.142 38.462 21.89 18.41 41.65 3.69
202 204 7.649705 ACACATCAGATCGTATGTACAAAGATC 59.350 37.037 21.20 21.20 34.61 2.75
203 205 7.492524 ACACATCAGATCGTATGTACAAAGAT 58.507 34.615 13.50 5.21 34.61 2.40
204 206 6.863275 ACACATCAGATCGTATGTACAAAGA 58.137 36.000 13.50 0.00 34.61 2.52
205 207 6.975197 AGACACATCAGATCGTATGTACAAAG 59.025 38.462 13.50 6.12 34.61 2.77
206 208 6.863275 AGACACATCAGATCGTATGTACAAA 58.137 36.000 13.50 0.00 34.61 2.83
207 209 6.318900 AGAGACACATCAGATCGTATGTACAA 59.681 38.462 13.50 0.00 34.61 2.41
208 210 5.823045 AGAGACACATCAGATCGTATGTACA 59.177 40.000 13.50 0.00 34.61 2.90
209 211 6.307031 AGAGACACATCAGATCGTATGTAC 57.693 41.667 13.50 11.24 34.61 2.90
210 212 7.217906 AGTAGAGACACATCAGATCGTATGTA 58.782 38.462 13.50 0.00 34.61 2.29
211 213 6.058833 AGTAGAGACACATCAGATCGTATGT 58.941 40.000 9.42 9.42 36.78 2.29
212 214 6.552859 AGTAGAGACACATCAGATCGTATG 57.447 41.667 8.32 8.32 0.00 2.39
213 215 7.672240 TCTAGTAGAGACACATCAGATCGTAT 58.328 38.462 0.00 0.00 0.00 3.06
214 216 7.052142 TCTAGTAGAGACACATCAGATCGTA 57.948 40.000 0.00 0.00 0.00 3.43
215 217 5.919755 TCTAGTAGAGACACATCAGATCGT 58.080 41.667 0.00 0.00 0.00 3.73
227 229 3.004315 GCAGCATGGAGTCTAGTAGAGAC 59.996 52.174 0.00 0.00 46.12 3.36
228 230 3.218453 GCAGCATGGAGTCTAGTAGAGA 58.782 50.000 0.00 0.00 35.86 3.10
229 231 2.954989 TGCAGCATGGAGTCTAGTAGAG 59.045 50.000 0.00 0.00 35.86 2.43
230 232 3.018423 TGCAGCATGGAGTCTAGTAGA 57.982 47.619 0.00 0.00 35.86 2.59
231 233 4.333913 AATGCAGCATGGAGTCTAGTAG 57.666 45.455 9.18 0.00 42.42 2.57
238 240 2.139323 ACATGAATGCAGCATGGAGT 57.861 45.000 26.52 10.94 42.42 3.85
239 241 2.688446 AGAACATGAATGCAGCATGGAG 59.312 45.455 26.52 10.39 42.42 3.86
240 242 2.730382 AGAACATGAATGCAGCATGGA 58.270 42.857 26.52 0.00 45.62 3.41
241 243 3.520290 AAGAACATGAATGCAGCATGG 57.480 42.857 26.52 14.46 45.62 3.66
242 244 4.328983 GGAAAAGAACATGAATGCAGCATG 59.671 41.667 23.33 23.33 46.49 4.06
243 245 4.501071 GGAAAAGAACATGAATGCAGCAT 58.499 39.130 0.52 0.52 0.00 3.79
244 246 3.306225 GGGAAAAGAACATGAATGCAGCA 60.306 43.478 0.00 0.00 0.00 4.41
245 247 3.256558 GGGAAAAGAACATGAATGCAGC 58.743 45.455 0.00 0.00 0.00 5.25
246 248 3.674138 CGGGGAAAAGAACATGAATGCAG 60.674 47.826 0.00 0.00 0.00 4.41
247 249 2.230992 CGGGGAAAAGAACATGAATGCA 59.769 45.455 0.00 0.00 0.00 3.96
248 250 2.491693 TCGGGGAAAAGAACATGAATGC 59.508 45.455 0.00 0.00 0.00 3.56
249 251 4.440525 CCATCGGGGAAAAGAACATGAATG 60.441 45.833 0.00 0.00 40.01 2.67
250 252 3.701040 CCATCGGGGAAAAGAACATGAAT 59.299 43.478 0.00 0.00 40.01 2.57
251 253 3.088532 CCATCGGGGAAAAGAACATGAA 58.911 45.455 0.00 0.00 40.01 2.57
252 254 2.307392 TCCATCGGGGAAAAGAACATGA 59.693 45.455 0.00 0.00 44.80 3.07
253 255 2.722094 TCCATCGGGGAAAAGAACATG 58.278 47.619 0.00 0.00 44.80 3.21
263 265 2.285368 AACCAGCTCCATCGGGGA 60.285 61.111 0.00 0.00 45.89 4.81
264 266 1.987807 ATCAACCAGCTCCATCGGGG 61.988 60.000 0.00 0.00 38.37 5.73
265 267 0.107017 AATCAACCAGCTCCATCGGG 60.107 55.000 0.00 0.00 0.00 5.14
266 268 1.019673 CAATCAACCAGCTCCATCGG 58.980 55.000 0.00 0.00 0.00 4.18
267 269 1.019673 CCAATCAACCAGCTCCATCG 58.980 55.000 0.00 0.00 0.00 3.84
268 270 2.019984 GTCCAATCAACCAGCTCCATC 58.980 52.381 0.00 0.00 0.00 3.51
269 271 1.679944 CGTCCAATCAACCAGCTCCAT 60.680 52.381 0.00 0.00 0.00 3.41
270 272 0.321564 CGTCCAATCAACCAGCTCCA 60.322 55.000 0.00 0.00 0.00 3.86
271 273 0.036388 TCGTCCAATCAACCAGCTCC 60.036 55.000 0.00 0.00 0.00 4.70
272 274 1.808411 TTCGTCCAATCAACCAGCTC 58.192 50.000 0.00 0.00 0.00 4.09
273 275 2.154462 CTTTCGTCCAATCAACCAGCT 58.846 47.619 0.00 0.00 0.00 4.24
274 276 1.401539 GCTTTCGTCCAATCAACCAGC 60.402 52.381 0.00 0.00 0.00 4.85
275 277 1.879380 TGCTTTCGTCCAATCAACCAG 59.121 47.619 0.00 0.00 0.00 4.00
276 278 1.606668 GTGCTTTCGTCCAATCAACCA 59.393 47.619 0.00 0.00 0.00 3.67
277 279 1.606668 TGTGCTTTCGTCCAATCAACC 59.393 47.619 0.00 0.00 0.00 3.77
278 280 3.236816 CATGTGCTTTCGTCCAATCAAC 58.763 45.455 0.00 0.00 0.00 3.18
279 281 2.351641 GCATGTGCTTTCGTCCAATCAA 60.352 45.455 0.00 0.00 38.21 2.57
280 282 1.199789 GCATGTGCTTTCGTCCAATCA 59.800 47.619 0.00 0.00 38.21 2.57
281 283 1.199789 TGCATGTGCTTTCGTCCAATC 59.800 47.619 6.55 0.00 42.66 2.67
282 284 1.246649 TGCATGTGCTTTCGTCCAAT 58.753 45.000 6.55 0.00 42.66 3.16
283 285 1.028130 TTGCATGTGCTTTCGTCCAA 58.972 45.000 6.55 0.00 42.66 3.53
284 286 0.310543 GTTGCATGTGCTTTCGTCCA 59.689 50.000 6.55 0.00 42.66 4.02
285 287 0.310543 TGTTGCATGTGCTTTCGTCC 59.689 50.000 6.55 0.00 42.66 4.79
286 288 1.780860 GTTGTTGCATGTGCTTTCGTC 59.219 47.619 6.55 0.00 42.66 4.20
287 289 1.133982 TGTTGTTGCATGTGCTTTCGT 59.866 42.857 6.55 0.00 42.66 3.85
288 290 1.837648 TGTTGTTGCATGTGCTTTCG 58.162 45.000 6.55 0.00 42.66 3.46
289 291 3.121261 CGATTGTTGTTGCATGTGCTTTC 60.121 43.478 6.55 0.00 42.66 2.62
290 292 2.796031 CGATTGTTGTTGCATGTGCTTT 59.204 40.909 6.55 0.00 42.66 3.51
291 293 2.223782 ACGATTGTTGTTGCATGTGCTT 60.224 40.909 6.55 0.00 42.66 3.91
292 294 1.337703 ACGATTGTTGTTGCATGTGCT 59.662 42.857 6.55 0.00 42.66 4.40
293 295 1.769733 ACGATTGTTGTTGCATGTGC 58.230 45.000 0.00 0.00 42.50 4.57
294 296 6.195060 CACATATACGATTGTTGTTGCATGTG 59.805 38.462 0.00 0.00 35.22 3.21
295 297 6.128035 ACACATATACGATTGTTGTTGCATGT 60.128 34.615 0.00 0.00 0.00 3.21
296 298 6.257423 ACACATATACGATTGTTGTTGCATG 58.743 36.000 0.00 0.00 0.00 4.06
297 299 6.435430 ACACATATACGATTGTTGTTGCAT 57.565 33.333 0.00 0.00 0.00 3.96
298 300 5.871465 ACACATATACGATTGTTGTTGCA 57.129 34.783 0.00 0.00 0.00 4.08
299 301 5.447846 CGAACACATATACGATTGTTGTTGC 59.552 40.000 5.08 0.00 32.34 4.17
300 302 5.957220 CCGAACACATATACGATTGTTGTTG 59.043 40.000 5.08 0.00 32.34 3.33
301 303 5.870433 TCCGAACACATATACGATTGTTGTT 59.130 36.000 0.60 0.60 32.34 2.83
302 304 5.290158 GTCCGAACACATATACGATTGTTGT 59.710 40.000 0.00 0.00 32.34 3.32
303 305 5.553766 CGTCCGAACACATATACGATTGTTG 60.554 44.000 0.00 0.00 32.34 3.33
304 306 4.501559 CGTCCGAACACATATACGATTGTT 59.498 41.667 0.00 0.00 34.88 2.83
305 307 4.039703 CGTCCGAACACATATACGATTGT 58.960 43.478 0.00 0.00 32.35 2.71
306 308 4.039703 ACGTCCGAACACATATACGATTG 58.960 43.478 0.00 0.00 34.62 2.67
307 309 4.039703 CACGTCCGAACACATATACGATT 58.960 43.478 0.00 0.00 34.62 3.34
308 310 3.313249 TCACGTCCGAACACATATACGAT 59.687 43.478 0.00 0.00 34.62 3.73
309 311 2.677337 TCACGTCCGAACACATATACGA 59.323 45.455 0.00 0.00 34.62 3.43
310 312 3.055613 TCACGTCCGAACACATATACG 57.944 47.619 0.00 0.00 36.48 3.06
311 313 5.766702 TTTTCACGTCCGAACACATATAC 57.233 39.130 0.00 0.00 0.00 1.47
312 314 5.870433 ACATTTTCACGTCCGAACACATATA 59.130 36.000 0.00 0.00 0.00 0.86
313 315 4.693566 ACATTTTCACGTCCGAACACATAT 59.306 37.500 0.00 0.00 0.00 1.78
314 316 4.059511 ACATTTTCACGTCCGAACACATA 58.940 39.130 0.00 0.00 0.00 2.29
315 317 2.875933 ACATTTTCACGTCCGAACACAT 59.124 40.909 0.00 0.00 0.00 3.21
316 318 2.281517 ACATTTTCACGTCCGAACACA 58.718 42.857 0.00 0.00 0.00 3.72
317 319 2.658224 CGACATTTTCACGTCCGAACAC 60.658 50.000 0.00 0.00 0.00 3.32
318 320 1.523515 CGACATTTTCACGTCCGAACA 59.476 47.619 0.00 0.00 0.00 3.18
319 321 1.523934 ACGACATTTTCACGTCCGAAC 59.476 47.619 0.00 0.00 35.33 3.95
320 322 1.855513 ACGACATTTTCACGTCCGAA 58.144 45.000 0.00 0.00 35.33 4.30
321 323 2.287487 TGTACGACATTTTCACGTCCGA 60.287 45.455 0.00 0.00 40.61 4.55
322 324 2.052891 TGTACGACATTTTCACGTCCG 58.947 47.619 0.00 0.00 40.61 4.79
323 325 5.961395 ATATGTACGACATTTTCACGTCC 57.039 39.130 0.00 0.00 39.88 4.79
324 326 6.197655 TGCTATATGTACGACATTTTCACGTC 59.802 38.462 0.00 0.00 39.88 4.34
325 327 6.037726 TGCTATATGTACGACATTTTCACGT 58.962 36.000 5.94 0.00 39.88 4.49
326 328 6.345803 CCTGCTATATGTACGACATTTTCACG 60.346 42.308 5.94 0.00 39.88 4.35
327 329 6.073765 CCCTGCTATATGTACGACATTTTCAC 60.074 42.308 5.94 0.00 39.88 3.18
328 330 5.989168 CCCTGCTATATGTACGACATTTTCA 59.011 40.000 5.94 1.80 39.88 2.69
329 331 5.107065 GCCCTGCTATATGTACGACATTTTC 60.107 44.000 5.94 0.00 39.88 2.29
330 332 4.755123 GCCCTGCTATATGTACGACATTTT 59.245 41.667 5.94 0.00 39.88 1.82
331 333 4.040461 AGCCCTGCTATATGTACGACATTT 59.960 41.667 5.94 2.26 37.27 2.32
332 334 3.578716 AGCCCTGCTATATGTACGACATT 59.421 43.478 5.94 0.00 37.27 2.71
333 335 3.165875 AGCCCTGCTATATGTACGACAT 58.834 45.455 0.00 0.00 38.78 3.06
334 336 2.557056 GAGCCCTGCTATATGTACGACA 59.443 50.000 0.00 0.00 39.88 4.35
335 337 2.557056 TGAGCCCTGCTATATGTACGAC 59.443 50.000 0.00 0.00 39.88 4.34
336 338 2.557056 GTGAGCCCTGCTATATGTACGA 59.443 50.000 0.00 0.00 39.88 3.43
337 339 2.352814 GGTGAGCCCTGCTATATGTACG 60.353 54.545 0.00 0.00 39.88 3.67
338 340 2.632996 TGGTGAGCCCTGCTATATGTAC 59.367 50.000 0.00 0.00 39.88 2.90
339 341 2.632996 GTGGTGAGCCCTGCTATATGTA 59.367 50.000 0.00 0.00 39.88 2.29
340 342 1.417890 GTGGTGAGCCCTGCTATATGT 59.582 52.381 0.00 0.00 39.88 2.29
341 343 1.417517 TGTGGTGAGCCCTGCTATATG 59.582 52.381 0.00 0.00 39.88 1.78
342 344 1.696336 CTGTGGTGAGCCCTGCTATAT 59.304 52.381 0.00 0.00 39.88 0.86
343 345 1.123077 CTGTGGTGAGCCCTGCTATA 58.877 55.000 0.00 0.00 39.88 1.31
344 346 0.618680 TCTGTGGTGAGCCCTGCTAT 60.619 55.000 0.00 0.00 39.88 2.97
345 347 0.835971 TTCTGTGGTGAGCCCTGCTA 60.836 55.000 0.00 0.00 39.88 3.49
346 348 1.708993 TTTCTGTGGTGAGCCCTGCT 61.709 55.000 0.00 0.00 43.88 4.24
347 349 1.228245 TTTCTGTGGTGAGCCCTGC 60.228 57.895 0.00 0.00 0.00 4.85
348 350 1.230635 CGTTTCTGTGGTGAGCCCTG 61.231 60.000 0.00 0.00 0.00 4.45
349 351 1.071471 CGTTTCTGTGGTGAGCCCT 59.929 57.895 0.00 0.00 0.00 5.19
350 352 1.966451 CCGTTTCTGTGGTGAGCCC 60.966 63.158 0.00 0.00 0.00 5.19
351 353 1.966451 CCCGTTTCTGTGGTGAGCC 60.966 63.158 0.00 0.00 0.00 4.70
352 354 1.227853 ACCCGTTTCTGTGGTGAGC 60.228 57.895 0.00 0.00 0.00 4.26
355 357 3.744559 CCACCCGTTTCTGTGGTG 58.255 61.111 0.00 0.00 45.61 4.17
358 360 2.140717 GTACTTCCACCCGTTTCTGTG 58.859 52.381 0.00 0.00 0.00 3.66
360 362 2.536761 TGTACTTCCACCCGTTTCTG 57.463 50.000 0.00 0.00 0.00 3.02
365 367 1.880646 GCATGTTGTACTTCCACCCGT 60.881 52.381 0.00 0.00 0.00 5.28
367 369 1.173913 GGCATGTTGTACTTCCACCC 58.826 55.000 0.00 0.00 0.00 4.61
413 415 3.371087 GGAGAGAGTCCGGAAATGC 57.629 57.895 5.23 0.00 34.84 3.56
421 424 3.057043 TGCTTGGCAAGGAGAGAGTCC 62.057 57.143 27.25 8.82 38.66 3.85
687 702 2.825086 GCGTTAATCAATCCGCAGTT 57.175 45.000 0.00 0.00 45.12 3.16
695 710 6.493458 AGCCCCTAATATTTGCGTTAATCAAT 59.507 34.615 0.00 0.00 0.00 2.57
750 765 2.163412 TGCAATCCAACATTTAGTCGCC 59.837 45.455 0.00 0.00 0.00 5.54
757 772 4.895668 ATCAACCTGCAATCCAACATTT 57.104 36.364 0.00 0.00 0.00 2.32
787 802 8.344098 CCATTTTACGTAAAACACACCTAAAGA 58.656 33.333 30.17 8.81 37.92 2.52
791 806 7.798596 TTCCATTTTACGTAAAACACACCTA 57.201 32.000 30.17 10.82 37.92 3.08
840 857 1.302907 AATCAACCTCCAGCCCATCT 58.697 50.000 0.00 0.00 0.00 2.90
885 902 0.108520 GGTCATCCGTCGTGCCTTTA 60.109 55.000 0.00 0.00 0.00 1.85
900 917 0.249238 GCACGCACCATTTTTGGTCA 60.249 50.000 0.00 0.00 40.85 4.02
1003 1020 2.297315 GTCATGGAGGTGATGCGAGATA 59.703 50.000 0.00 0.00 0.00 1.98
1021 1038 1.958715 CAACGTGTCGCCATGGTCA 60.959 57.895 14.67 7.91 31.50 4.02
1052 1069 3.132481 GAGGAAGAGGGAGAGCGCG 62.132 68.421 0.00 0.00 0.00 6.86
1055 1072 2.694616 ATAGGAGGAAGAGGGAGAGC 57.305 55.000 0.00 0.00 0.00 4.09
1066 1083 0.830648 CGTGCCAAGGAATAGGAGGA 59.169 55.000 0.00 0.00 0.00 3.71
1079 1096 4.988716 ACGAGGGAGGACGTGCCA 62.989 66.667 2.38 0.00 39.84 4.92
1154 1171 0.673985 CTGAGAGGACGGTGACACAA 59.326 55.000 8.08 0.00 0.00 3.33
1179 1196 2.477357 CGTCCGCAGATTTACTCTTCGA 60.477 50.000 0.00 0.00 42.33 3.71
1229 1246 2.048023 GCTGGTATTGGCTGCAGCA 61.048 57.895 37.63 20.97 44.36 4.41
1280 1297 0.396139 TGCCATCCTTGATGCCCTTC 60.396 55.000 0.00 0.00 38.59 3.46
1356 1373 2.251642 GCCTCACGTTGTGGTGACC 61.252 63.158 0.00 0.00 41.76 4.02
1446 1463 4.506255 CTTGGACGCCCCATCCCC 62.506 72.222 0.00 0.00 46.10 4.81
1558 1575 2.047274 CCTTCACGGGCGACACAT 60.047 61.111 0.00 0.00 0.00 3.21
1650 1667 6.270156 ACAACACATTATTCATGCATGACA 57.730 33.333 28.72 19.15 36.14 3.58
1718 1741 8.237267 AGCTCAAACGAATAAAATGTTCTAAGG 58.763 33.333 0.00 0.00 0.00 2.69
1916 1948 8.181573 TGACACTGATTTGACTAACAAGAAAAC 58.818 33.333 0.00 0.00 39.77 2.43
1979 2026 3.866651 AGAAGAGACATGCATACACACC 58.133 45.455 0.00 0.00 0.00 4.16
1985 2033 5.199723 AGAGTGAGAGAAGAGACATGCATA 58.800 41.667 0.00 0.00 0.00 3.14
2107 2157 0.241213 TCTTGACGCTCGGAGTTCAG 59.759 55.000 6.90 4.91 0.00 3.02
2116 2167 3.580731 AGTTCTAAAGCTCTTGACGCTC 58.419 45.455 0.00 0.00 36.56 5.03
2373 2433 7.162761 TCCATTTCAATTGCACATTTCTGAAT 58.837 30.769 0.00 0.00 0.00 2.57
2457 2520 8.181573 TCACAAGTTGAGATTTTAGTTTCACAC 58.818 33.333 10.54 0.00 0.00 3.82
2568 2632 4.390297 TGCACTGGCTTGTTTAACAAAAAC 59.610 37.500 11.80 5.72 37.69 2.43


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

AutoCloner maintained by Alex Coulton.