Multiple sequence alignment - TraesCS3B01G420300

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 TraesCS3B01G420300 chr3B 100.000 2498 0 0 1 2498 657344614 657342117 0.000000e+00 4614.0
1 TraesCS3B01G420300 chr3D 89.981 1577 86 25 421 1949 497370021 497368469 0.000000e+00 1971.0
2 TraesCS3B01G420300 chr3D 92.912 522 34 2 1980 2498 497368467 497367946 0.000000e+00 756.0
3 TraesCS3B01G420300 chr3D 88.889 243 23 2 2 240 497370255 497370013 1.880000e-76 296.0
4 TraesCS3B01G420300 chr3D 76.285 506 69 34 1999 2496 523657761 523657299 3.230000e-54 222.0
5 TraesCS3B01G420300 chr3D 88.235 187 16 2 920 1100 499966934 499966748 4.180000e-53 219.0
6 TraesCS3B01G420300 chr3D 77.170 311 49 18 2205 2496 135220904 135220597 7.150000e-36 161.0
7 TraesCS3B01G420300 chr3A 88.372 1204 55 28 676 1826 637292524 637293695 0.000000e+00 1369.0
8 TraesCS3B01G420300 chr3A 88.485 165 6 3 527 678 637292160 637292324 1.180000e-43 187.0
9 TraesCS3B01G420300 chr3A 81.065 169 24 5 2329 2493 150074013 150073849 7.250000e-26 128.0
10 TraesCS3B01G420300 chr6B 97.283 184 4 1 241 423 362373709 362373526 6.710000e-81 311.0
11 TraesCS3B01G420300 chr6B 96.685 181 5 1 241 420 368303263 368303443 1.450000e-77 300.0
12 TraesCS3B01G420300 chr6B 92.611 203 8 6 230 429 498537597 498537795 4.070000e-73 285.0
13 TraesCS3B01G420300 chr4A 97.238 181 4 1 241 420 577102900 577103080 3.120000e-79 305.0
14 TraesCS3B01G420300 chr7B 96.703 182 3 3 240 420 540244008 540243829 1.450000e-77 300.0
15 TraesCS3B01G420300 chr7B 86.567 134 15 1 2363 2496 566314646 566314516 7.200000e-31 145.0
16 TraesCS3B01G420300 chr7B 85.271 129 19 0 2368 2496 166964702 166964830 1.560000e-27 134.0
17 TraesCS3B01G420300 chr2A 96.685 181 5 1 241 420 16502590 16502410 1.450000e-77 300.0
18 TraesCS3B01G420300 chr2A 78.761 339 58 10 1960 2289 774805149 774804816 5.410000e-52 215.0
19 TraesCS3B01G420300 chr5D 95.580 181 7 1 241 420 531422086 531421906 3.140000e-74 289.0
20 TraesCS3B01G420300 chr5D 75.460 163 36 3 1883 2042 564094114 564093953 2.660000e-10 76.8
21 TraesCS3B01G420300 chr2B 94.086 186 7 4 237 420 40529984 40529801 1.890000e-71 279.0
22 TraesCS3B01G420300 chr2B 77.947 263 43 8 2227 2484 5653206 5653458 1.550000e-32 150.0
23 TraesCS3B01G420300 chr4B 93.956 182 6 4 241 420 568735604 568735426 1.140000e-68 270.0
24 TraesCS3B01G420300 chr4B 76.426 526 97 22 1977 2496 660133291 660132787 2.460000e-65 259.0
25 TraesCS3B01G420300 chr5B 88.496 113 13 0 2384 2496 275005493 275005381 1.200000e-28 137.0


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 TraesCS3B01G420300 chr3B 657342117 657344614 2497 True 4614.000000 4614 100.0000 1 2498 1 chr3B.!!$R1 2497
1 TraesCS3B01G420300 chr3D 497367946 497370255 2309 True 1007.666667 1971 90.5940 2 2498 3 chr3D.!!$R4 2496
2 TraesCS3B01G420300 chr3A 637292160 637293695 1535 False 778.000000 1369 88.4285 527 1826 2 chr3A.!!$F1 1299
3 TraesCS3B01G420300 chr4B 660132787 660133291 504 True 259.000000 259 76.4260 1977 2496 1 chr4B.!!$R2 519

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
292 297 0.179045 AAGCTAACGGGCAGGCATAG 60.179 55.0 0.0 0.0 34.17 2.23 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1921 2233 0.034756 TCCAATCTGTGTCACGGGTG 59.965 55.0 11.94 10.01 0.0 4.61 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
22 23 0.326238 ACCCCCGAAGCTCCTTATCA 60.326 55.000 0.00 0.00 0.00 2.15
27 28 1.539929 CCGAAGCTCCTTATCAGCCAG 60.540 57.143 0.00 0.00 37.63 4.85
32 33 0.835941 CTCCTTATCAGCCAGTGCCT 59.164 55.000 0.00 0.00 38.69 4.75
43 44 4.861203 AGTGCCTGAGCTCTGAGA 57.139 55.556 21.10 4.96 41.19 3.27
50 51 2.546373 GCCTGAGCTCTGAGATCACATC 60.546 54.545 20.70 9.45 35.46 3.06
79 80 4.036498 CCTTGAAGCTCCATGTTCATCATC 59.964 45.833 0.00 0.00 34.09 2.92
80 81 4.224991 TGAAGCTCCATGTTCATCATCA 57.775 40.909 0.00 0.00 34.09 3.07
88 89 3.474600 CATGTTCATCATCACCTCCCTC 58.525 50.000 0.00 0.00 34.09 4.30
95 96 0.461961 CATCACCTCCCTCGAGTTCC 59.538 60.000 12.31 0.00 33.93 3.62
129 130 0.179124 TTGCAAAGCCCGTTGTTGAC 60.179 50.000 0.00 0.00 0.00 3.18
137 138 0.531090 CCCGTTGTTGACTCCGTTCA 60.531 55.000 0.00 0.00 0.00 3.18
161 162 3.434637 CGACTATTTCGGCCAAAATTGG 58.565 45.455 7.03 7.84 44.60 3.16
224 229 3.902162 GAGTACGCGGCGGTTGTCA 62.902 63.158 27.37 1.19 0.00 3.58
225 230 2.812178 GTACGCGGCGGTTGTCAT 60.812 61.111 27.37 5.96 0.00 3.06
231 236 1.787847 CGGCGGTTGTCATTGAGTC 59.212 57.895 0.00 0.00 0.00 3.36
232 237 0.670546 CGGCGGTTGTCATTGAGTCT 60.671 55.000 0.00 0.00 0.00 3.24
233 238 1.079503 GGCGGTTGTCATTGAGTCTC 58.920 55.000 0.00 0.00 0.00 3.36
234 239 0.716108 GCGGTTGTCATTGAGTCTCG 59.284 55.000 0.00 0.00 0.00 4.04
235 240 1.668919 GCGGTTGTCATTGAGTCTCGA 60.669 52.381 0.00 0.00 0.00 4.04
236 241 2.672714 CGGTTGTCATTGAGTCTCGAA 58.327 47.619 0.00 0.00 0.00 3.71
237 242 3.254060 CGGTTGTCATTGAGTCTCGAAT 58.746 45.455 0.00 0.00 0.00 3.34
238 243 3.679980 CGGTTGTCATTGAGTCTCGAATT 59.320 43.478 0.00 0.00 0.00 2.17
239 244 4.862574 CGGTTGTCATTGAGTCTCGAATTA 59.137 41.667 0.00 0.00 0.00 1.40
240 245 5.004821 CGGTTGTCATTGAGTCTCGAATTAG 59.995 44.000 0.00 0.00 0.00 1.73
241 246 6.100004 GGTTGTCATTGAGTCTCGAATTAGA 58.900 40.000 0.00 0.00 0.00 2.10
242 247 6.254589 GGTTGTCATTGAGTCTCGAATTAGAG 59.745 42.308 9.13 9.13 39.52 2.43
243 248 5.344066 TGTCATTGAGTCTCGAATTAGAGC 58.656 41.667 10.46 6.35 38.12 4.09
244 249 5.105756 TGTCATTGAGTCTCGAATTAGAGCA 60.106 40.000 10.46 1.15 38.12 4.26
245 250 5.807520 GTCATTGAGTCTCGAATTAGAGCAA 59.192 40.000 10.46 9.43 38.12 3.91
246 251 6.478344 GTCATTGAGTCTCGAATTAGAGCAAT 59.522 38.462 10.46 11.03 38.12 3.56
247 252 6.478016 TCATTGAGTCTCGAATTAGAGCAATG 59.522 38.462 24.74 24.74 43.04 2.82
248 253 4.115516 TGAGTCTCGAATTAGAGCAATGC 58.884 43.478 10.46 0.00 38.12 3.56
249 254 4.142071 TGAGTCTCGAATTAGAGCAATGCT 60.142 41.667 7.79 7.79 43.88 3.79
250 255 5.067805 TGAGTCTCGAATTAGAGCAATGCTA 59.932 40.000 8.12 0.00 39.88 3.49
251 256 5.527951 AGTCTCGAATTAGAGCAATGCTAG 58.472 41.667 8.12 0.00 39.88 3.42
252 257 5.300539 AGTCTCGAATTAGAGCAATGCTAGA 59.699 40.000 8.12 1.37 39.88 2.43
253 258 5.401079 GTCTCGAATTAGAGCAATGCTAGAC 59.599 44.000 8.12 11.10 39.88 2.59
254 259 4.621991 TCGAATTAGAGCAATGCTAGACC 58.378 43.478 8.12 0.00 39.88 3.85
255 260 4.342378 TCGAATTAGAGCAATGCTAGACCT 59.658 41.667 8.12 3.29 39.88 3.85
256 261 5.535030 TCGAATTAGAGCAATGCTAGACCTA 59.465 40.000 8.12 2.17 39.88 3.08
257 262 5.631512 CGAATTAGAGCAATGCTAGACCTAC 59.368 44.000 8.12 0.00 39.88 3.18
258 263 4.569761 TTAGAGCAATGCTAGACCTACG 57.430 45.455 8.12 0.00 39.88 3.51
259 264 2.656002 AGAGCAATGCTAGACCTACGA 58.344 47.619 8.12 0.00 39.88 3.43
260 265 3.024547 AGAGCAATGCTAGACCTACGAA 58.975 45.455 8.12 0.00 39.88 3.85
261 266 3.067461 AGAGCAATGCTAGACCTACGAAG 59.933 47.826 8.12 0.00 39.88 3.79
262 267 3.024547 AGCAATGCTAGACCTACGAAGA 58.975 45.455 5.69 0.00 36.99 2.87
263 268 3.639094 AGCAATGCTAGACCTACGAAGAT 59.361 43.478 5.69 0.00 36.99 2.40
264 269 4.827835 AGCAATGCTAGACCTACGAAGATA 59.172 41.667 5.69 0.00 36.99 1.98
265 270 5.478679 AGCAATGCTAGACCTACGAAGATAT 59.521 40.000 5.69 0.00 36.99 1.63
266 271 6.015010 AGCAATGCTAGACCTACGAAGATATT 60.015 38.462 5.69 0.00 36.99 1.28
267 272 6.309251 GCAATGCTAGACCTACGAAGATATTC 59.691 42.308 0.00 0.00 0.00 1.75
268 273 7.598278 CAATGCTAGACCTACGAAGATATTCT 58.402 38.462 0.00 0.00 0.00 2.40
269 274 8.731605 CAATGCTAGACCTACGAAGATATTCTA 58.268 37.037 0.00 0.00 0.00 2.10
270 275 7.670009 TGCTAGACCTACGAAGATATTCTAC 57.330 40.000 0.00 0.00 0.00 2.59
271 276 6.368243 TGCTAGACCTACGAAGATATTCTACG 59.632 42.308 0.00 0.00 0.00 3.51
272 277 6.368516 GCTAGACCTACGAAGATATTCTACGT 59.631 42.308 0.00 0.00 40.23 3.57
273 278 7.543868 GCTAGACCTACGAAGATATTCTACGTA 59.456 40.741 0.00 0.00 38.18 3.57
274 279 9.416794 CTAGACCTACGAAGATATTCTACGTAA 57.583 37.037 0.00 0.00 38.58 3.18
275 280 8.309163 AGACCTACGAAGATATTCTACGTAAG 57.691 38.462 0.00 0.00 38.58 2.34
276 281 6.896969 ACCTACGAAGATATTCTACGTAAGC 58.103 40.000 0.00 0.00 45.62 3.09
277 282 6.709846 ACCTACGAAGATATTCTACGTAAGCT 59.290 38.462 0.00 0.00 45.62 3.74
278 283 7.875041 ACCTACGAAGATATTCTACGTAAGCTA 59.125 37.037 0.00 0.00 45.62 3.32
279 284 8.715998 CCTACGAAGATATTCTACGTAAGCTAA 58.284 37.037 0.00 0.00 45.62 3.09
280 285 9.527566 CTACGAAGATATTCTACGTAAGCTAAC 57.472 37.037 0.00 0.00 45.62 2.34
287 292 4.104143 CGTAAGCTAACGGGCAGG 57.896 61.111 0.00 0.00 39.19 4.85
288 293 2.171725 CGTAAGCTAACGGGCAGGC 61.172 63.158 0.00 0.00 39.19 4.85
289 294 1.078708 GTAAGCTAACGGGCAGGCA 60.079 57.895 0.00 0.00 34.17 4.75
290 295 0.463833 GTAAGCTAACGGGCAGGCAT 60.464 55.000 0.00 0.00 34.17 4.40
291 296 1.124780 TAAGCTAACGGGCAGGCATA 58.875 50.000 0.00 0.00 34.17 3.14
292 297 0.179045 AAGCTAACGGGCAGGCATAG 60.179 55.000 0.00 0.00 34.17 2.23
293 298 1.598130 GCTAACGGGCAGGCATAGG 60.598 63.158 0.00 0.00 0.00 2.57
294 299 1.830145 CTAACGGGCAGGCATAGGT 59.170 57.895 0.00 0.00 0.00 3.08
295 300 0.532862 CTAACGGGCAGGCATAGGTG 60.533 60.000 0.00 0.00 0.00 4.00
296 301 1.978455 TAACGGGCAGGCATAGGTGG 61.978 60.000 0.00 0.00 0.00 4.61
297 302 3.479203 CGGGCAGGCATAGGTGGA 61.479 66.667 0.00 0.00 0.00 4.02
298 303 2.512896 GGGCAGGCATAGGTGGAG 59.487 66.667 0.00 0.00 0.00 3.86
299 304 2.512896 GGCAGGCATAGGTGGAGG 59.487 66.667 0.00 0.00 0.00 4.30
300 305 2.072487 GGCAGGCATAGGTGGAGGA 61.072 63.158 0.00 0.00 0.00 3.71
301 306 1.422161 GGCAGGCATAGGTGGAGGAT 61.422 60.000 0.00 0.00 0.00 3.24
302 307 0.475906 GCAGGCATAGGTGGAGGATT 59.524 55.000 0.00 0.00 0.00 3.01
303 308 1.699634 GCAGGCATAGGTGGAGGATTA 59.300 52.381 0.00 0.00 0.00 1.75
304 309 2.551071 GCAGGCATAGGTGGAGGATTAC 60.551 54.545 0.00 0.00 0.00 1.89
305 310 2.975489 CAGGCATAGGTGGAGGATTACT 59.025 50.000 0.00 0.00 0.00 2.24
306 311 4.160329 CAGGCATAGGTGGAGGATTACTA 58.840 47.826 0.00 0.00 0.00 1.82
307 312 4.780021 CAGGCATAGGTGGAGGATTACTAT 59.220 45.833 0.00 0.00 0.00 2.12
308 313 5.249393 CAGGCATAGGTGGAGGATTACTATT 59.751 44.000 0.00 0.00 0.00 1.73
309 314 5.249393 AGGCATAGGTGGAGGATTACTATTG 59.751 44.000 0.00 0.00 0.00 1.90
310 315 5.491982 GCATAGGTGGAGGATTACTATTGG 58.508 45.833 0.00 0.00 0.00 3.16
311 316 5.248477 GCATAGGTGGAGGATTACTATTGGA 59.752 44.000 0.00 0.00 0.00 3.53
312 317 6.702329 CATAGGTGGAGGATTACTATTGGAC 58.298 44.000 0.00 0.00 0.00 4.02
313 318 3.974642 AGGTGGAGGATTACTATTGGACC 59.025 47.826 0.00 0.00 0.00 4.46
314 319 3.974642 GGTGGAGGATTACTATTGGACCT 59.025 47.826 0.00 0.00 0.00 3.85
315 320 5.102783 AGGTGGAGGATTACTATTGGACCTA 60.103 44.000 0.00 0.00 0.00 3.08
316 321 5.605488 GGTGGAGGATTACTATTGGACCTAA 59.395 44.000 0.00 0.00 0.00 2.69
317 322 6.239629 GGTGGAGGATTACTATTGGACCTAAG 60.240 46.154 0.00 0.00 0.00 2.18
318 323 5.844516 TGGAGGATTACTATTGGACCTAAGG 59.155 44.000 0.00 0.00 0.00 2.69
319 324 5.248705 GGAGGATTACTATTGGACCTAAGGG 59.751 48.000 0.00 0.00 38.88 3.95
320 325 5.163390 AGGATTACTATTGGACCTAAGGGG 58.837 45.833 0.00 0.00 41.89 4.79
321 326 4.288887 GGATTACTATTGGACCTAAGGGGG 59.711 50.000 0.00 0.00 40.03 5.40
357 362 3.985410 CTGAAAATCAGGGGGCAGA 57.015 52.632 0.00 0.00 40.71 4.26
358 363 1.760192 CTGAAAATCAGGGGGCAGAG 58.240 55.000 0.00 0.00 40.71 3.35
359 364 1.283029 CTGAAAATCAGGGGGCAGAGA 59.717 52.381 0.00 0.00 40.71 3.10
360 365 1.925255 TGAAAATCAGGGGGCAGAGAT 59.075 47.619 0.00 0.00 0.00 2.75
361 366 3.122480 TGAAAATCAGGGGGCAGAGATA 58.878 45.455 0.00 0.00 0.00 1.98
362 367 3.527253 TGAAAATCAGGGGGCAGAGATAA 59.473 43.478 0.00 0.00 0.00 1.75
363 368 4.168675 TGAAAATCAGGGGGCAGAGATAAT 59.831 41.667 0.00 0.00 0.00 1.28
364 369 4.821532 AAATCAGGGGGCAGAGATAATT 57.178 40.909 0.00 0.00 0.00 1.40
365 370 5.930209 AAATCAGGGGGCAGAGATAATTA 57.070 39.130 0.00 0.00 0.00 1.40
366 371 5.511386 AATCAGGGGGCAGAGATAATTAG 57.489 43.478 0.00 0.00 0.00 1.73
367 372 2.639839 TCAGGGGGCAGAGATAATTAGC 59.360 50.000 0.00 0.00 0.00 3.09
368 373 1.625818 AGGGGGCAGAGATAATTAGCG 59.374 52.381 0.00 0.00 0.00 4.26
369 374 1.623811 GGGGGCAGAGATAATTAGCGA 59.376 52.381 0.00 0.00 0.00 4.93
370 375 2.354203 GGGGGCAGAGATAATTAGCGAG 60.354 54.545 0.00 0.00 0.00 5.03
371 376 2.563179 GGGGCAGAGATAATTAGCGAGA 59.437 50.000 0.00 0.00 0.00 4.04
372 377 3.006967 GGGGCAGAGATAATTAGCGAGAA 59.993 47.826 0.00 0.00 0.00 2.87
373 378 4.241681 GGGCAGAGATAATTAGCGAGAAG 58.758 47.826 0.00 0.00 0.00 2.85
374 379 4.241681 GGCAGAGATAATTAGCGAGAAGG 58.758 47.826 0.00 0.00 0.00 3.46
375 380 4.021894 GGCAGAGATAATTAGCGAGAAGGA 60.022 45.833 0.00 0.00 0.00 3.36
376 381 5.337169 GGCAGAGATAATTAGCGAGAAGGAT 60.337 44.000 0.00 0.00 0.00 3.24
377 382 6.162777 GCAGAGATAATTAGCGAGAAGGATT 58.837 40.000 0.00 0.00 0.00 3.01
378 383 6.648725 GCAGAGATAATTAGCGAGAAGGATTT 59.351 38.462 0.00 0.00 0.00 2.17
379 384 7.815068 GCAGAGATAATTAGCGAGAAGGATTTA 59.185 37.037 0.00 0.00 0.00 1.40
380 385 9.134734 CAGAGATAATTAGCGAGAAGGATTTAC 57.865 37.037 0.00 0.00 0.00 2.01
381 386 8.024285 AGAGATAATTAGCGAGAAGGATTTACG 58.976 37.037 0.00 0.00 0.00 3.18
382 387 7.659186 AGATAATTAGCGAGAAGGATTTACGT 58.341 34.615 0.00 0.00 31.75 3.57
383 388 8.790718 AGATAATTAGCGAGAAGGATTTACGTA 58.209 33.333 0.00 0.00 31.75 3.57
384 389 9.570488 GATAATTAGCGAGAAGGATTTACGTAT 57.430 33.333 0.00 0.00 31.75 3.06
387 392 8.739649 ATTAGCGAGAAGGATTTACGTATAAC 57.260 34.615 0.00 0.00 31.75 1.89
388 393 5.527033 AGCGAGAAGGATTTACGTATAACC 58.473 41.667 0.00 0.00 31.75 2.85
389 394 5.301298 AGCGAGAAGGATTTACGTATAACCT 59.699 40.000 8.69 8.69 31.75 3.50
390 395 5.981915 GCGAGAAGGATTTACGTATAACCTT 59.018 40.000 21.73 21.73 39.89 3.50
395 400 8.856490 GAAGGATTTACGTATAACCTTCGTAA 57.144 34.615 26.97 5.63 44.38 3.18
396 401 8.634475 AAGGATTTACGTATAACCTTCGTAAC 57.366 34.615 17.80 0.56 45.23 2.50
397 402 8.000780 AGGATTTACGTATAACCTTCGTAACT 57.999 34.615 8.69 4.55 45.23 2.24
398 403 8.470002 AGGATTTACGTATAACCTTCGTAACTT 58.530 33.333 8.69 1.46 45.23 2.66
399 404 8.746751 GGATTTACGTATAACCTTCGTAACTTC 58.253 37.037 8.50 8.65 45.23 3.01
400 405 9.289303 GATTTACGTATAACCTTCGTAACTTCA 57.711 33.333 8.50 0.00 45.23 3.02
401 406 8.447787 TTTACGTATAACCTTCGTAACTTCAC 57.552 34.615 8.50 0.00 45.23 3.18
402 407 5.088739 ACGTATAACCTTCGTAACTTCACG 58.911 41.667 0.00 0.00 43.28 4.35
403 408 5.088739 CGTATAACCTTCGTAACTTCACGT 58.911 41.667 0.00 0.00 42.51 4.49
404 409 6.128391 ACGTATAACCTTCGTAACTTCACGTA 60.128 38.462 0.00 0.00 42.51 3.57
405 410 6.409185 CGTATAACCTTCGTAACTTCACGTAG 59.591 42.308 0.00 0.00 42.51 3.51
409 414 3.893720 CTTCGTAACTTCACGTAGGTGT 58.106 45.455 14.78 0.00 44.68 4.16
410 415 5.034554 CTTCGTAACTTCACGTAGGTGTA 57.965 43.478 14.78 5.16 44.68 2.90
411 416 4.668576 TCGTAACTTCACGTAGGTGTAG 57.331 45.455 17.43 17.43 44.43 2.74
412 417 4.314961 TCGTAACTTCACGTAGGTGTAGA 58.685 43.478 23.59 4.76 42.31 2.59
413 418 4.754618 TCGTAACTTCACGTAGGTGTAGAA 59.245 41.667 23.59 11.62 42.31 2.10
414 419 5.412594 TCGTAACTTCACGTAGGTGTAGAAT 59.587 40.000 23.59 15.58 42.31 2.40
415 420 6.072508 TCGTAACTTCACGTAGGTGTAGAATT 60.073 38.462 23.59 13.45 42.31 2.17
416 421 7.119116 TCGTAACTTCACGTAGGTGTAGAATTA 59.881 37.037 23.59 12.67 42.31 1.40
417 422 7.912250 CGTAACTTCACGTAGGTGTAGAATTAT 59.088 37.037 23.59 10.07 42.31 1.28
418 423 9.578439 GTAACTTCACGTAGGTGTAGAATTATT 57.422 33.333 23.59 12.35 42.31 1.40
419 424 8.475331 AACTTCACGTAGGTGTAGAATTATTG 57.525 34.615 23.59 1.90 42.31 1.90
431 436 7.746475 GGTGTAGAATTATTGCTCGAATTATGC 59.254 37.037 0.00 0.00 0.00 3.14
437 442 6.676237 TTATTGCTCGAATTATGCAGAACA 57.324 33.333 0.00 0.00 38.01 3.18
439 444 5.565592 TTGCTCGAATTATGCAGAACATT 57.434 34.783 0.00 0.00 40.38 2.71
463 468 2.547218 GCTGTGTCCGTTGGAGAAAGTA 60.547 50.000 2.51 0.00 33.38 2.24
468 473 5.008217 TGTGTCCGTTGGAGAAAGTATTTTG 59.992 40.000 0.00 0.00 39.27 2.44
471 476 3.488489 CGTTGGAGAAAGTATTTTGCCG 58.512 45.455 0.00 0.00 39.27 5.69
474 479 2.487762 TGGAGAAAGTATTTTGCCGCAG 59.512 45.455 0.00 0.00 39.27 5.18
476 481 3.426292 GGAGAAAGTATTTTGCCGCAGTC 60.426 47.826 0.00 0.00 39.27 3.51
477 482 3.146066 AGAAAGTATTTTGCCGCAGTCA 58.854 40.909 0.00 0.00 39.27 3.41
485 490 3.552604 TTTGCCGCAGTCAGTATTTTC 57.447 42.857 0.00 0.00 0.00 2.29
486 491 2.472695 TGCCGCAGTCAGTATTTTCT 57.527 45.000 0.00 0.00 0.00 2.52
487 492 3.603158 TGCCGCAGTCAGTATTTTCTA 57.397 42.857 0.00 0.00 0.00 2.10
496 501 6.314896 GCAGTCAGTATTTTCTAATGCAGAGT 59.685 38.462 0.00 0.00 33.83 3.24
507 512 7.517614 TTCTAATGCAGAGTAGGATAGTGAG 57.482 40.000 0.00 0.00 33.83 3.51
516 521 4.597004 AGTAGGATAGTGAGTCGGTTGAA 58.403 43.478 0.00 0.00 0.00 2.69
531 551 0.843309 TTGAACTTGCACCAGGGAGA 59.157 50.000 0.00 0.00 0.00 3.71
581 608 2.435805 TCATGCCAGATAAGAGGGTGAC 59.564 50.000 0.00 0.00 0.00 3.67
594 627 1.847737 AGGGTGACAGTTTGGTTGGTA 59.152 47.619 0.00 0.00 0.00 3.25
644 677 2.979814 TATGCACTGGATTGTAGCGT 57.020 45.000 0.00 0.00 0.00 5.07
661 694 0.937304 CGTAGCAATTCCCGTGGATG 59.063 55.000 0.00 0.00 0.00 3.51
761 1010 0.905357 CCAAACCCAACCCAACACAA 59.095 50.000 0.00 0.00 0.00 3.33
773 1022 0.859788 CAACACAACACCGCGACAAC 60.860 55.000 8.23 0.00 0.00 3.32
774 1023 1.299562 AACACAACACCGCGACAACA 61.300 50.000 8.23 0.00 0.00 3.33
775 1024 1.297304 CACAACACCGCGACAACAC 60.297 57.895 8.23 0.00 0.00 3.32
776 1025 1.742140 ACAACACCGCGACAACACA 60.742 52.632 8.23 0.00 0.00 3.72
777 1026 1.299562 ACAACACCGCGACAACACAA 61.300 50.000 8.23 0.00 0.00 3.33
784 1033 2.280524 CGACAACACAAGGCCGGA 60.281 61.111 5.05 0.00 0.00 5.14
813 1062 2.587522 TCTCACACTCACAGCACTACT 58.412 47.619 0.00 0.00 0.00 2.57
814 1063 2.959030 TCTCACACTCACAGCACTACTT 59.041 45.455 0.00 0.00 0.00 2.24
841 1090 1.078918 CTCATTCTCCACTGCCGCA 60.079 57.895 0.00 0.00 0.00 5.69
895 1144 4.101448 GCCGCATCCACTCCACCT 62.101 66.667 0.00 0.00 0.00 4.00
1302 1572 3.000819 ATCCACGACGGCCTGGAA 61.001 61.111 13.30 0.00 40.05 3.53
1430 1700 2.111162 ACGAGATCGGCAAGGAGAG 58.889 57.895 7.22 0.00 44.95 3.20
1444 1723 4.252878 CAAGGAGAGGAAGAAGAAGAAGC 58.747 47.826 0.00 0.00 0.00 3.86
1494 1773 3.385755 AGCTTCTTGGCTTCAAACATGTT 59.614 39.130 4.92 4.92 39.86 2.71
1552 1836 0.251354 ATGGACGCTCTTGATGTGCT 59.749 50.000 0.00 0.00 33.42 4.40
1608 1895 7.797123 CGTCGTTTTGAGTAAATAAAGAGCTTT 59.203 33.333 0.74 0.74 36.63 3.51
1611 1898 7.860872 CGTTTTGAGTAAATAAAGAGCTTTGGT 59.139 33.333 5.76 0.00 34.23 3.67
1635 1922 3.322541 TCGTTGACTTGAACATGGGACTA 59.677 43.478 0.00 0.00 0.00 2.59
1809 2119 0.040958 GCGCACTTTGTGAGGTCTTG 60.041 55.000 0.30 0.00 35.23 3.02
1826 2138 5.254032 AGGTCTTGGTCCCTAGATGAAATTT 59.746 40.000 0.88 0.00 31.32 1.82
1847 2159 2.224185 TGACTCGCAGCTCAAAAGGTTA 60.224 45.455 0.00 0.00 0.00 2.85
1849 2161 1.734465 CTCGCAGCTCAAAAGGTTAGG 59.266 52.381 0.00 0.00 0.00 2.69
1851 2163 1.880027 CGCAGCTCAAAAGGTTAGGTT 59.120 47.619 0.00 0.00 0.00 3.50
1852 2164 2.293399 CGCAGCTCAAAAGGTTAGGTTT 59.707 45.455 0.00 0.00 0.00 3.27
1853 2165 3.609409 CGCAGCTCAAAAGGTTAGGTTTC 60.609 47.826 0.00 0.00 0.00 2.78
1854 2166 3.570125 GCAGCTCAAAAGGTTAGGTTTCT 59.430 43.478 0.00 0.00 0.00 2.52
1855 2167 4.038042 GCAGCTCAAAAGGTTAGGTTTCTT 59.962 41.667 0.00 0.00 0.00 2.52
1856 2168 5.763088 CAGCTCAAAAGGTTAGGTTTCTTC 58.237 41.667 0.00 0.00 0.00 2.87
1857 2169 5.299279 CAGCTCAAAAGGTTAGGTTTCTTCA 59.701 40.000 0.00 0.00 0.00 3.02
1858 2170 5.891551 AGCTCAAAAGGTTAGGTTTCTTCAA 59.108 36.000 0.00 0.00 0.00 2.69
1859 2171 6.039829 AGCTCAAAAGGTTAGGTTTCTTCAAG 59.960 38.462 0.00 0.00 0.00 3.02
1867 2179 2.936202 AGGTTTCTTCAAGCAAGCAGA 58.064 42.857 1.81 0.00 35.10 4.26
1881 2193 4.098349 AGCAAGCAGAAGTTTTGATGTGAA 59.902 37.500 0.00 0.00 0.00 3.18
1891 2203 6.882610 AGTTTTGATGTGAAAGCATCTACA 57.117 33.333 7.45 0.00 44.02 2.74
1893 2205 4.952262 TTGATGTGAAAGCATCTACAGC 57.048 40.909 7.45 0.00 44.02 4.40
1895 2207 1.725641 TGTGAAAGCATCTACAGCCG 58.274 50.000 0.00 0.00 0.00 5.52
1901 2213 1.776662 AGCATCTACAGCCGGACTTA 58.223 50.000 5.05 0.00 0.00 2.24
1917 2229 2.937149 GACTTAACAAATCCGGCTCCTC 59.063 50.000 0.00 0.00 0.00 3.71
1921 2233 1.534729 ACAAATCCGGCTCCTCAAAC 58.465 50.000 0.00 0.00 0.00 2.93
1922 2234 1.202879 ACAAATCCGGCTCCTCAAACA 60.203 47.619 0.00 0.00 0.00 2.83
1928 2240 1.966451 GGCTCCTCAAACACCCGTG 60.966 63.158 0.00 0.00 0.00 4.94
1930 2242 1.228657 GCTCCTCAAACACCCGTGAC 61.229 60.000 0.96 0.00 0.00 3.67
1932 2244 0.179067 TCCTCAAACACCCGTGACAC 60.179 55.000 0.96 0.00 0.00 3.67
1968 2280 2.582959 GAGCATCGACGGATCACAC 58.417 57.895 0.00 0.00 0.00 3.82
1969 2281 0.872021 GAGCATCGACGGATCACACC 60.872 60.000 0.00 0.00 0.00 4.16
1970 2282 1.141881 GCATCGACGGATCACACCT 59.858 57.895 0.00 0.00 0.00 4.00
1971 2283 0.460284 GCATCGACGGATCACACCTT 60.460 55.000 0.00 0.00 0.00 3.50
1972 2284 1.280982 CATCGACGGATCACACCTTG 58.719 55.000 0.00 0.00 0.00 3.61
1973 2285 0.895530 ATCGACGGATCACACCTTGT 59.104 50.000 0.00 0.00 0.00 3.16
1974 2286 1.536940 TCGACGGATCACACCTTGTA 58.463 50.000 0.00 0.00 0.00 2.41
1975 2287 2.097036 TCGACGGATCACACCTTGTAT 58.903 47.619 0.00 0.00 0.00 2.29
2046 2360 7.271511 ACAAACCATGCAAAAGAATTCTTACA 58.728 30.769 20.76 18.17 34.61 2.41
2141 2455 4.424566 GGTAGTTGGGCGCGTCGA 62.425 66.667 8.43 0.00 0.00 4.20
2215 2529 1.078848 GTGTTCCGCCTCTGCATCT 60.079 57.895 0.00 0.00 37.32 2.90
2228 2542 4.511527 CTCTGCATCTTGTAGACAATGGT 58.488 43.478 0.00 0.00 34.19 3.55
2238 2552 2.086610 AGACAATGGTGTTTGGCCTT 57.913 45.000 3.32 0.00 38.41 4.35
2287 2601 3.386867 GATTGCCTGTTGCTCCGCG 62.387 63.158 0.00 0.00 42.00 6.46
2298 2612 3.118454 CTCCGCGTGCAAATCCGT 61.118 61.111 4.92 0.00 0.00 4.69
2310 2624 0.392060 AAATCCGTAGCCCCAACGTC 60.392 55.000 0.00 0.00 38.67 4.34
2343 2657 1.309688 GTGCTCCTCCTCCTCCTCT 59.690 63.158 0.00 0.00 0.00 3.69
2366 2683 1.229658 CCTCCTCTCCCACCACCTT 60.230 63.158 0.00 0.00 0.00 3.50
2471 2788 2.669849 CTCAAGGAGCTGCAGCCT 59.330 61.111 34.39 22.47 43.38 4.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.262640 TAAGGAGCTTCGGGGGTGAC 61.263 60.000 0.00 0.00 0.00 3.67
27 28 0.822811 TGATCTCAGAGCTCAGGCAC 59.177 55.000 17.77 3.34 41.70 5.01
32 33 2.648059 TCGATGTGATCTCAGAGCTCA 58.352 47.619 17.77 0.00 0.00 4.26
43 44 2.477825 CTTCAAGGCGATCGATGTGAT 58.522 47.619 21.57 0.00 41.06 3.06
50 51 0.531532 ATGGAGCTTCAAGGCGATCG 60.532 55.000 11.69 11.69 37.29 3.69
79 80 2.711922 CGGGAACTCGAGGGAGGTG 61.712 68.421 18.41 0.00 41.35 4.00
80 81 2.362632 CGGGAACTCGAGGGAGGT 60.363 66.667 18.41 0.00 44.89 3.85
88 89 0.035176 TTTTGGTACCCGGGAACTCG 59.965 55.000 32.02 0.00 0.00 4.18
95 96 0.962489 TGCAACATTTTGGTACCCGG 59.038 50.000 10.07 0.00 32.81 5.73
115 116 1.597027 CGGAGTCAACAACGGGCTT 60.597 57.895 0.00 0.00 0.00 4.35
129 130 2.279136 CGAAATAGTCGCTTGAACGGAG 59.721 50.000 0.00 0.00 44.14 4.63
137 138 7.839883 CCAATTTTGGCCGAAATAGTCGCTT 62.840 44.000 27.81 11.22 43.15 4.68
161 162 3.865164 CCCGTTCGGTACCATAAAAGTAC 59.135 47.826 13.54 0.00 39.51 2.73
171 173 0.823460 TTGGTATCCCGTTCGGTACC 59.177 55.000 18.13 18.13 38.12 3.34
174 176 0.533951 GACTTGGTATCCCGTTCGGT 59.466 55.000 10.36 0.00 0.00 4.69
195 200 4.402192 CGTACTCGCCATGTCCAG 57.598 61.111 0.00 0.00 0.00 3.86
214 219 1.079503 GAGACTCAATGACAACCGCC 58.920 55.000 0.00 0.00 0.00 6.13
221 226 5.344066 TGCTCTAATTCGAGACTCAATGAC 58.656 41.667 10.99 0.00 32.74 3.06
224 229 5.236047 GCATTGCTCTAATTCGAGACTCAAT 59.764 40.000 10.99 7.97 32.74 2.57
225 230 4.568359 GCATTGCTCTAATTCGAGACTCAA 59.432 41.667 10.99 6.17 32.74 3.02
231 236 4.683781 GGTCTAGCATTGCTCTAATTCGAG 59.316 45.833 15.81 4.43 40.44 4.04
232 237 4.342378 AGGTCTAGCATTGCTCTAATTCGA 59.658 41.667 15.81 0.00 40.44 3.71
233 238 4.626042 AGGTCTAGCATTGCTCTAATTCG 58.374 43.478 15.81 0.00 40.44 3.34
234 239 5.631512 CGTAGGTCTAGCATTGCTCTAATTC 59.368 44.000 15.81 1.83 40.44 2.17
235 240 5.302059 TCGTAGGTCTAGCATTGCTCTAATT 59.698 40.000 15.81 2.47 40.44 1.40
236 241 4.827835 TCGTAGGTCTAGCATTGCTCTAAT 59.172 41.667 15.81 1.68 40.44 1.73
237 242 4.204799 TCGTAGGTCTAGCATTGCTCTAA 58.795 43.478 15.81 0.00 40.44 2.10
238 243 3.816994 TCGTAGGTCTAGCATTGCTCTA 58.183 45.455 15.81 7.54 40.44 2.43
239 244 2.656002 TCGTAGGTCTAGCATTGCTCT 58.344 47.619 15.81 8.58 40.44 4.09
240 245 3.066900 TCTTCGTAGGTCTAGCATTGCTC 59.933 47.826 15.81 0.36 40.44 4.26
241 246 3.024547 TCTTCGTAGGTCTAGCATTGCT 58.975 45.455 16.63 16.63 43.41 3.91
242 247 3.438297 TCTTCGTAGGTCTAGCATTGC 57.562 47.619 0.00 0.00 0.00 3.56
243 248 7.598278 AGAATATCTTCGTAGGTCTAGCATTG 58.402 38.462 0.00 0.00 36.45 2.82
244 249 7.768807 AGAATATCTTCGTAGGTCTAGCATT 57.231 36.000 0.00 0.00 36.45 3.56
245 250 7.064847 CGTAGAATATCTTCGTAGGTCTAGCAT 59.935 40.741 0.00 0.00 33.49 3.79
246 251 6.368243 CGTAGAATATCTTCGTAGGTCTAGCA 59.632 42.308 0.00 0.00 33.49 3.49
247 252 6.368516 ACGTAGAATATCTTCGTAGGTCTAGC 59.631 42.308 9.77 0.00 46.10 3.42
248 253 7.887996 ACGTAGAATATCTTCGTAGGTCTAG 57.112 40.000 9.77 0.00 46.10 2.43
255 260 8.217115 CGTTAGCTTACGTAGAATATCTTCGTA 58.783 37.037 16.69 13.02 46.10 3.43
257 262 6.519078 CCGTTAGCTTACGTAGAATATCTTCG 59.481 42.308 22.21 5.08 41.95 3.79
258 263 6.800892 CCCGTTAGCTTACGTAGAATATCTTC 59.199 42.308 22.21 0.00 39.81 2.87
259 264 6.675987 CCCGTTAGCTTACGTAGAATATCTT 58.324 40.000 22.21 0.00 39.81 2.40
260 265 5.335504 GCCCGTTAGCTTACGTAGAATATCT 60.336 44.000 22.21 0.00 39.81 1.98
261 266 4.855937 GCCCGTTAGCTTACGTAGAATATC 59.144 45.833 22.21 0.00 39.81 1.63
262 267 4.279169 TGCCCGTTAGCTTACGTAGAATAT 59.721 41.667 22.21 0.00 39.81 1.28
263 268 3.631686 TGCCCGTTAGCTTACGTAGAATA 59.368 43.478 22.21 1.94 39.81 1.75
264 269 2.428171 TGCCCGTTAGCTTACGTAGAAT 59.572 45.455 22.21 0.00 39.81 2.40
265 270 1.818060 TGCCCGTTAGCTTACGTAGAA 59.182 47.619 22.21 6.80 39.81 2.10
266 271 1.402968 CTGCCCGTTAGCTTACGTAGA 59.597 52.381 22.21 5.95 39.81 2.59
267 272 1.535437 CCTGCCCGTTAGCTTACGTAG 60.535 57.143 22.21 16.35 39.81 3.51
268 273 0.457035 CCTGCCCGTTAGCTTACGTA 59.543 55.000 22.21 8.79 39.81 3.57
269 274 1.217244 CCTGCCCGTTAGCTTACGT 59.783 57.895 22.21 0.00 39.81 3.57
270 275 2.171725 GCCTGCCCGTTAGCTTACG 61.172 63.158 17.87 17.87 41.06 3.18
271 276 0.463833 ATGCCTGCCCGTTAGCTTAC 60.464 55.000 0.00 0.00 0.00 2.34
272 277 1.070134 CTATGCCTGCCCGTTAGCTTA 59.930 52.381 0.00 0.00 0.00 3.09
273 278 0.179045 CTATGCCTGCCCGTTAGCTT 60.179 55.000 0.00 0.00 0.00 3.74
274 279 1.447643 CTATGCCTGCCCGTTAGCT 59.552 57.895 0.00 0.00 0.00 3.32
275 280 1.598130 CCTATGCCTGCCCGTTAGC 60.598 63.158 0.00 0.00 0.00 3.09
276 281 0.532862 CACCTATGCCTGCCCGTTAG 60.533 60.000 0.00 0.00 0.00 2.34
277 282 1.524961 CACCTATGCCTGCCCGTTA 59.475 57.895 0.00 0.00 0.00 3.18
278 283 2.272146 CACCTATGCCTGCCCGTT 59.728 61.111 0.00 0.00 0.00 4.44
279 284 3.797353 CCACCTATGCCTGCCCGT 61.797 66.667 0.00 0.00 0.00 5.28
280 285 3.466791 CTCCACCTATGCCTGCCCG 62.467 68.421 0.00 0.00 0.00 6.13
281 286 2.512896 CTCCACCTATGCCTGCCC 59.487 66.667 0.00 0.00 0.00 5.36
282 287 1.422161 ATCCTCCACCTATGCCTGCC 61.422 60.000 0.00 0.00 0.00 4.85
283 288 0.475906 AATCCTCCACCTATGCCTGC 59.524 55.000 0.00 0.00 0.00 4.85
284 289 2.975489 AGTAATCCTCCACCTATGCCTG 59.025 50.000 0.00 0.00 0.00 4.85
285 290 3.352611 AGTAATCCTCCACCTATGCCT 57.647 47.619 0.00 0.00 0.00 4.75
286 291 5.491982 CAATAGTAATCCTCCACCTATGCC 58.508 45.833 0.00 0.00 0.00 4.40
287 292 5.248477 TCCAATAGTAATCCTCCACCTATGC 59.752 44.000 0.00 0.00 0.00 3.14
288 293 6.295916 GGTCCAATAGTAATCCTCCACCTATG 60.296 46.154 0.00 0.00 0.00 2.23
289 294 5.785940 GGTCCAATAGTAATCCTCCACCTAT 59.214 44.000 0.00 0.00 0.00 2.57
290 295 5.102783 AGGTCCAATAGTAATCCTCCACCTA 60.103 44.000 0.00 0.00 0.00 3.08
291 296 3.974642 GGTCCAATAGTAATCCTCCACCT 59.025 47.826 0.00 0.00 0.00 4.00
292 297 3.974642 AGGTCCAATAGTAATCCTCCACC 59.025 47.826 0.00 0.00 0.00 4.61
293 298 6.239629 CCTTAGGTCCAATAGTAATCCTCCAC 60.240 46.154 0.00 0.00 0.00 4.02
294 299 5.844516 CCTTAGGTCCAATAGTAATCCTCCA 59.155 44.000 0.00 0.00 0.00 3.86
295 300 5.248705 CCCTTAGGTCCAATAGTAATCCTCC 59.751 48.000 0.00 0.00 0.00 4.30
296 301 5.248705 CCCCTTAGGTCCAATAGTAATCCTC 59.751 48.000 0.00 0.00 0.00 3.71
297 302 5.163390 CCCCTTAGGTCCAATAGTAATCCT 58.837 45.833 0.00 0.00 0.00 3.24
298 303 4.288887 CCCCCTTAGGTCCAATAGTAATCC 59.711 50.000 0.00 0.00 0.00 3.01
299 304 5.500546 CCCCCTTAGGTCCAATAGTAATC 57.499 47.826 0.00 0.00 0.00 1.75
339 344 1.283029 TCTCTGCCCCCTGATTTTCAG 59.717 52.381 0.00 0.00 43.91 3.02
340 345 1.371467 TCTCTGCCCCCTGATTTTCA 58.629 50.000 0.00 0.00 0.00 2.69
341 346 2.744352 ATCTCTGCCCCCTGATTTTC 57.256 50.000 0.00 0.00 0.00 2.29
342 347 4.821532 ATTATCTCTGCCCCCTGATTTT 57.178 40.909 0.00 0.00 0.00 1.82
343 348 4.821532 AATTATCTCTGCCCCCTGATTT 57.178 40.909 0.00 0.00 0.00 2.17
344 349 4.263683 GCTAATTATCTCTGCCCCCTGATT 60.264 45.833 0.00 0.00 0.00 2.57
345 350 3.265479 GCTAATTATCTCTGCCCCCTGAT 59.735 47.826 0.00 0.00 0.00 2.90
346 351 2.639839 GCTAATTATCTCTGCCCCCTGA 59.360 50.000 0.00 0.00 0.00 3.86
347 352 2.613977 CGCTAATTATCTCTGCCCCCTG 60.614 54.545 0.00 0.00 0.00 4.45
348 353 1.625818 CGCTAATTATCTCTGCCCCCT 59.374 52.381 0.00 0.00 0.00 4.79
349 354 1.623811 TCGCTAATTATCTCTGCCCCC 59.376 52.381 0.00 0.00 0.00 5.40
350 355 2.563179 TCTCGCTAATTATCTCTGCCCC 59.437 50.000 0.00 0.00 0.00 5.80
351 356 3.944055 TCTCGCTAATTATCTCTGCCC 57.056 47.619 0.00 0.00 0.00 5.36
352 357 4.021894 TCCTTCTCGCTAATTATCTCTGCC 60.022 45.833 0.00 0.00 0.00 4.85
353 358 5.127693 TCCTTCTCGCTAATTATCTCTGC 57.872 43.478 0.00 0.00 0.00 4.26
354 359 9.134734 GTAAATCCTTCTCGCTAATTATCTCTG 57.865 37.037 0.00 0.00 0.00 3.35
355 360 8.024285 CGTAAATCCTTCTCGCTAATTATCTCT 58.976 37.037 0.00 0.00 0.00 3.10
356 361 7.808856 ACGTAAATCCTTCTCGCTAATTATCTC 59.191 37.037 0.00 0.00 0.00 2.75
357 362 7.659186 ACGTAAATCCTTCTCGCTAATTATCT 58.341 34.615 0.00 0.00 0.00 1.98
358 363 7.870588 ACGTAAATCCTTCTCGCTAATTATC 57.129 36.000 0.00 0.00 0.00 1.75
361 366 9.189723 GTTATACGTAAATCCTTCTCGCTAATT 57.810 33.333 0.00 0.00 0.00 1.40
362 367 7.811713 GGTTATACGTAAATCCTTCTCGCTAAT 59.188 37.037 0.00 0.00 0.00 1.73
363 368 7.013655 AGGTTATACGTAAATCCTTCTCGCTAA 59.986 37.037 0.00 0.00 0.00 3.09
364 369 6.488006 AGGTTATACGTAAATCCTTCTCGCTA 59.512 38.462 0.00 0.00 0.00 4.26
365 370 5.301298 AGGTTATACGTAAATCCTTCTCGCT 59.699 40.000 0.00 0.00 0.00 4.93
366 371 5.527033 AGGTTATACGTAAATCCTTCTCGC 58.473 41.667 0.00 0.00 0.00 5.03
367 372 6.359087 CGAAGGTTATACGTAAATCCTTCTCG 59.641 42.308 30.28 23.40 44.77 4.04
368 373 7.199078 ACGAAGGTTATACGTAAATCCTTCTC 58.801 38.462 30.28 19.12 44.77 2.87
369 374 7.105241 ACGAAGGTTATACGTAAATCCTTCT 57.895 36.000 30.28 22.27 44.77 2.85
370 375 8.856490 TTACGAAGGTTATACGTAAATCCTTC 57.144 34.615 27.38 27.38 45.05 3.46
377 382 6.740905 CGTGAAGTTACGAAGGTTATACGTAA 59.259 38.462 0.00 0.00 46.46 3.18
378 383 6.128391 ACGTGAAGTTACGAAGGTTATACGTA 60.128 38.462 0.00 0.00 46.46 3.57
379 384 5.088739 CGTGAAGTTACGAAGGTTATACGT 58.911 41.667 0.00 0.00 46.46 3.57
380 385 5.088739 ACGTGAAGTTACGAAGGTTATACG 58.911 41.667 5.23 0.00 46.46 3.06
381 386 6.688813 CCTACGTGAAGTTACGAAGGTTATAC 59.311 42.308 0.00 0.00 46.46 1.47
382 387 6.374333 ACCTACGTGAAGTTACGAAGGTTATA 59.626 38.462 0.00 0.00 46.46 0.98
383 388 5.183904 ACCTACGTGAAGTTACGAAGGTTAT 59.816 40.000 0.00 0.00 46.46 1.89
384 389 4.518970 ACCTACGTGAAGTTACGAAGGTTA 59.481 41.667 0.00 0.00 46.46 2.85
385 390 3.319122 ACCTACGTGAAGTTACGAAGGTT 59.681 43.478 0.00 0.00 46.46 3.50
386 391 2.887152 ACCTACGTGAAGTTACGAAGGT 59.113 45.455 0.00 0.00 46.46 3.50
387 392 3.240069 CACCTACGTGAAGTTACGAAGG 58.760 50.000 0.00 0.00 46.46 3.46
388 393 3.893720 ACACCTACGTGAAGTTACGAAG 58.106 45.455 0.00 0.00 46.46 3.79
389 394 3.988379 ACACCTACGTGAAGTTACGAA 57.012 42.857 0.00 0.00 46.46 3.85
390 395 4.314961 TCTACACCTACGTGAAGTTACGA 58.685 43.478 0.00 0.00 46.46 3.43
392 397 9.578439 AATAATTCTACACCTACGTGAAGTTAC 57.422 33.333 0.00 0.00 43.14 2.50
393 398 9.577110 CAATAATTCTACACCTACGTGAAGTTA 57.423 33.333 0.00 0.00 43.14 2.24
394 399 7.064253 GCAATAATTCTACACCTACGTGAAGTT 59.936 37.037 0.00 0.00 43.14 2.66
395 400 6.534079 GCAATAATTCTACACCTACGTGAAGT 59.466 38.462 0.00 0.00 43.14 3.01
396 401 6.757010 AGCAATAATTCTACACCTACGTGAAG 59.243 38.462 0.00 0.00 43.14 3.02
397 402 6.636705 AGCAATAATTCTACACCTACGTGAA 58.363 36.000 0.00 0.00 43.14 3.18
398 403 6.216801 AGCAATAATTCTACACCTACGTGA 57.783 37.500 0.00 0.00 43.14 4.35
399 404 5.173312 CGAGCAATAATTCTACACCTACGTG 59.827 44.000 0.00 0.00 46.11 4.49
400 405 5.066893 TCGAGCAATAATTCTACACCTACGT 59.933 40.000 0.00 0.00 0.00 3.57
401 406 5.516996 TCGAGCAATAATTCTACACCTACG 58.483 41.667 0.00 0.00 0.00 3.51
402 407 7.948278 ATTCGAGCAATAATTCTACACCTAC 57.052 36.000 0.00 0.00 0.00 3.18
404 409 8.993121 CATAATTCGAGCAATAATTCTACACCT 58.007 33.333 0.00 0.00 0.00 4.00
405 410 7.746475 GCATAATTCGAGCAATAATTCTACACC 59.254 37.037 0.00 0.00 0.00 4.16
406 411 8.282592 TGCATAATTCGAGCAATAATTCTACAC 58.717 33.333 0.00 0.00 34.97 2.90
407 412 8.376889 TGCATAATTCGAGCAATAATTCTACA 57.623 30.769 0.00 0.00 34.97 2.74
408 413 8.712363 TCTGCATAATTCGAGCAATAATTCTAC 58.288 33.333 0.00 0.00 37.89 2.59
409 414 8.831715 TCTGCATAATTCGAGCAATAATTCTA 57.168 30.769 0.00 0.00 37.89 2.10
410 415 7.734924 TCTGCATAATTCGAGCAATAATTCT 57.265 32.000 0.00 0.00 37.89 2.40
411 416 7.857389 TGTTCTGCATAATTCGAGCAATAATTC 59.143 33.333 0.00 0.00 37.89 2.17
412 417 7.706159 TGTTCTGCATAATTCGAGCAATAATT 58.294 30.769 0.00 0.00 37.89 1.40
413 418 7.263100 TGTTCTGCATAATTCGAGCAATAAT 57.737 32.000 0.00 0.00 37.89 1.28
414 419 6.676237 TGTTCTGCATAATTCGAGCAATAA 57.324 33.333 0.00 0.00 37.89 1.40
415 420 6.866010 ATGTTCTGCATAATTCGAGCAATA 57.134 33.333 0.00 0.00 37.89 1.90
416 421 5.762825 ATGTTCTGCATAATTCGAGCAAT 57.237 34.783 0.00 0.00 37.89 3.56
417 422 5.565592 AATGTTCTGCATAATTCGAGCAA 57.434 34.783 0.00 0.00 37.89 3.91
418 423 5.565592 AAATGTTCTGCATAATTCGAGCA 57.434 34.783 0.00 0.00 36.67 4.26
419 424 5.276067 GCAAAATGTTCTGCATAATTCGAGC 60.276 40.000 0.00 0.00 38.48 5.03
431 436 2.033299 ACGGACACAGCAAAATGTTCTG 59.967 45.455 0.00 0.00 0.00 3.02
437 442 1.608590 CTCCAACGGACACAGCAAAAT 59.391 47.619 0.00 0.00 0.00 1.82
439 444 0.179234 TCTCCAACGGACACAGCAAA 59.821 50.000 0.00 0.00 0.00 3.68
463 468 4.218417 AGAAAATACTGACTGCGGCAAAAT 59.782 37.500 3.44 0.00 0.00 1.82
468 473 4.786609 GCATTAGAAAATACTGACTGCGGC 60.787 45.833 0.00 0.00 0.00 6.53
471 476 6.314896 ACTCTGCATTAGAAAATACTGACTGC 59.685 38.462 3.38 0.00 34.32 4.40
474 479 8.198109 TCCTACTCTGCATTAGAAAATACTGAC 58.802 37.037 3.38 0.00 34.32 3.51
485 490 6.348132 CGACTCACTATCCTACTCTGCATTAG 60.348 46.154 0.00 0.00 0.00 1.73
486 491 5.470437 CGACTCACTATCCTACTCTGCATTA 59.530 44.000 0.00 0.00 0.00 1.90
487 492 4.277174 CGACTCACTATCCTACTCTGCATT 59.723 45.833 0.00 0.00 0.00 3.56
496 501 4.597004 AGTTCAACCGACTCACTATCCTA 58.403 43.478 0.00 0.00 0.00 2.94
507 512 0.307760 CTGGTGCAAGTTCAACCGAC 59.692 55.000 0.00 0.00 0.00 4.79
516 521 0.472734 ACTCTCTCCCTGGTGCAAGT 60.473 55.000 0.00 0.00 0.00 3.16
531 551 0.941463 CTTGAACGAGCGTGCACTCT 60.941 55.000 16.19 13.02 32.55 3.24
581 608 2.678836 TGACGTGTTACCAACCAAACTG 59.321 45.455 0.00 0.00 0.00 3.16
594 627 0.249699 TCGCCTTGACATGACGTGTT 60.250 50.000 0.00 0.00 42.36 3.32
644 677 0.813610 CGCATCCACGGGAATTGCTA 60.814 55.000 13.27 0.00 36.06 3.49
661 694 1.058057 GTTTCGTGACGCCAATTCGC 61.058 55.000 0.00 0.00 0.00 4.70
705 940 0.608035 GGGAGCGTCCAATTTGACCA 60.608 55.000 4.21 0.00 38.64 4.02
761 1010 2.177580 CCTTGTGTTGTCGCGGTGT 61.178 57.895 6.13 0.00 0.00 4.16
784 1033 1.253593 TGAGTGTGAGATCAGCCGCT 61.254 55.000 0.00 0.00 0.00 5.52
813 1062 2.233922 GTGGAGAATGAGAACGGAGGAA 59.766 50.000 0.00 0.00 0.00 3.36
814 1063 1.825474 GTGGAGAATGAGAACGGAGGA 59.175 52.381 0.00 0.00 0.00 3.71
841 1090 4.731612 CTCGTCAGCAGCGGCACT 62.732 66.667 12.44 0.00 44.61 4.40
846 1095 3.168604 CGTCACTCGTCAGCAGCG 61.169 66.667 0.00 0.00 34.52 5.18
895 1144 1.074319 GGATTTGTACTCGCGTGCGA 61.074 55.000 16.78 16.78 46.87 5.10
916 1165 0.968393 GCGAGGAGGTTCTCAGGTCT 60.968 60.000 0.00 0.00 33.59 3.85
979 1240 2.818274 CCCGCTTCAGTTACCGCC 60.818 66.667 0.00 0.00 0.00 6.13
1077 1344 4.388499 TTGCCCTCCTTCGCCGTC 62.388 66.667 0.00 0.00 0.00 4.79
1078 1345 4.394712 CTTGCCCTCCTTCGCCGT 62.395 66.667 0.00 0.00 0.00 5.68
1343 1613 1.339824 CCACCTGATGCTTCTTCTGCT 60.340 52.381 0.88 0.00 0.00 4.24
1373 1643 2.759973 CCTGCACCTCCGGCTCTA 60.760 66.667 0.00 0.00 0.00 2.43
1378 1648 3.775654 GTCTCCCTGCACCTCCGG 61.776 72.222 0.00 0.00 0.00 5.14
1379 1649 4.135153 CGTCTCCCTGCACCTCCG 62.135 72.222 0.00 0.00 0.00 4.63
1380 1650 4.459089 GCGTCTCCCTGCACCTCC 62.459 72.222 0.00 0.00 0.00 4.30
1381 1651 4.459089 GGCGTCTCCCTGCACCTC 62.459 72.222 0.00 0.00 0.00 3.85
1430 1700 0.325272 ACCCCGCTTCTTCTTCTTCC 59.675 55.000 0.00 0.00 0.00 3.46
1444 1723 1.026718 GCCTTGAAGATGTGACCCCG 61.027 60.000 0.00 0.00 0.00 5.73
1482 1761 8.826710 TGTTGACTAGACTAAACATGTTTGAAG 58.173 33.333 29.72 22.57 34.23 3.02
1494 1773 7.291411 AGAAGCTTCTTGTTGACTAGACTAA 57.709 36.000 23.49 0.00 32.55 2.24
1552 1836 6.603201 AGACAAGAACAAGATCCAAAACAGAA 59.397 34.615 0.00 0.00 0.00 3.02
1608 1895 3.066064 CCATGTTCAAGTCAACGAAACCA 59.934 43.478 0.00 0.00 0.00 3.67
1611 1898 3.314080 GTCCCATGTTCAAGTCAACGAAA 59.686 43.478 0.00 0.00 0.00 3.46
1635 1922 1.459592 GACGCAGAAATACAGCAACGT 59.540 47.619 0.00 0.00 34.85 3.99
1809 2119 4.811557 CGAGTCAAATTTCATCTAGGGACC 59.188 45.833 0.00 0.00 0.00 4.46
1826 2138 0.106708 ACCTTTTGAGCTGCGAGTCA 59.893 50.000 0.00 0.00 0.00 3.41
1847 2159 2.936202 TCTGCTTGCTTGAAGAAACCT 58.064 42.857 0.00 0.00 32.82 3.50
1849 2161 4.298744 ACTTCTGCTTGCTTGAAGAAAC 57.701 40.909 23.65 0.00 39.42 2.78
1851 2163 4.989279 AAACTTCTGCTTGCTTGAAGAA 57.011 36.364 23.65 11.89 39.42 2.52
1852 2164 4.398988 TCAAAACTTCTGCTTGCTTGAAGA 59.601 37.500 23.65 6.23 39.42 2.87
1853 2165 4.675510 TCAAAACTTCTGCTTGCTTGAAG 58.324 39.130 18.92 18.92 41.87 3.02
1854 2166 4.717233 TCAAAACTTCTGCTTGCTTGAA 57.283 36.364 0.00 0.00 0.00 2.69
1855 2167 4.098349 ACATCAAAACTTCTGCTTGCTTGA 59.902 37.500 0.00 0.00 0.00 3.02
1856 2168 4.208460 CACATCAAAACTTCTGCTTGCTTG 59.792 41.667 0.00 0.00 0.00 4.01
1857 2169 4.098349 TCACATCAAAACTTCTGCTTGCTT 59.902 37.500 0.00 0.00 0.00 3.91
1858 2170 3.633525 TCACATCAAAACTTCTGCTTGCT 59.366 39.130 0.00 0.00 0.00 3.91
1859 2171 3.968649 TCACATCAAAACTTCTGCTTGC 58.031 40.909 0.00 0.00 0.00 4.01
1881 2193 0.905357 AAGTCCGGCTGTAGATGCTT 59.095 50.000 0.00 0.00 0.00 3.91
1895 2207 2.014857 GGAGCCGGATTTGTTAAGTCC 58.985 52.381 5.05 0.00 0.00 3.85
1901 2213 1.886542 GTTTGAGGAGCCGGATTTGTT 59.113 47.619 5.05 0.00 0.00 2.83
1917 2229 1.593196 ATCTGTGTCACGGGTGTTTG 58.407 50.000 11.94 0.00 0.00 2.93
1921 2233 0.034756 TCCAATCTGTGTCACGGGTG 59.965 55.000 11.94 10.01 0.00 4.61
1922 2234 0.034896 GTCCAATCTGTGTCACGGGT 59.965 55.000 11.94 1.18 0.00 5.28
1949 2261 1.064134 TGTGATCCGTCGATGCTCG 59.936 57.895 0.00 0.00 42.10 5.03
1950 2262 0.872021 GGTGTGATCCGTCGATGCTC 60.872 60.000 0.00 0.00 0.00 4.26
1951 2263 1.141881 GGTGTGATCCGTCGATGCT 59.858 57.895 0.00 0.00 0.00 3.79
1952 2264 0.460284 AAGGTGTGATCCGTCGATGC 60.460 55.000 0.00 0.00 0.00 3.91
1953 2265 1.280982 CAAGGTGTGATCCGTCGATG 58.719 55.000 0.00 0.00 0.00 3.84
1954 2266 0.895530 ACAAGGTGTGATCCGTCGAT 59.104 50.000 0.00 0.00 0.00 3.59
1955 2267 1.536940 TACAAGGTGTGATCCGTCGA 58.463 50.000 0.00 0.00 0.00 4.20
1956 2268 2.579207 ATACAAGGTGTGATCCGTCG 57.421 50.000 0.00 0.00 0.00 5.12
1957 2269 4.250464 TCAAATACAAGGTGTGATCCGTC 58.750 43.478 0.00 0.00 0.00 4.79
1958 2270 4.280436 TCAAATACAAGGTGTGATCCGT 57.720 40.909 0.00 0.00 0.00 4.69
1959 2271 4.496341 GCATCAAATACAAGGTGTGATCCG 60.496 45.833 0.00 0.00 0.00 4.18
1960 2272 4.641989 AGCATCAAATACAAGGTGTGATCC 59.358 41.667 0.00 0.00 0.00 3.36
1961 2273 5.824904 AGCATCAAATACAAGGTGTGATC 57.175 39.130 0.00 0.00 0.00 2.92
1962 2274 6.183360 GCTTAGCATCAAATACAAGGTGTGAT 60.183 38.462 0.00 0.00 0.00 3.06
1963 2275 5.123820 GCTTAGCATCAAATACAAGGTGTGA 59.876 40.000 0.00 0.00 0.00 3.58
1964 2276 5.106197 TGCTTAGCATCAAATACAAGGTGTG 60.106 40.000 1.39 0.00 31.71 3.82
1965 2277 5.009631 TGCTTAGCATCAAATACAAGGTGT 58.990 37.500 1.39 0.00 31.71 4.16
1966 2278 5.565592 TGCTTAGCATCAAATACAAGGTG 57.434 39.130 1.39 0.00 31.71 4.00
2046 2360 6.294787 GCTAGCATGGTGTACAGAGTACATAT 60.295 42.308 10.63 8.23 0.00 1.78
2141 2455 1.007238 TGAAGAGGAGTCGGATCCCTT 59.993 52.381 6.06 1.17 40.53 3.95
2200 2514 0.901827 TACAAGATGCAGAGGCGGAA 59.098 50.000 0.00 0.00 45.35 4.30
2215 2529 2.625790 GGCCAAACACCATTGTCTACAA 59.374 45.455 0.00 0.00 40.51 2.41
2238 2552 2.125832 GGTCGGAATCAACGGCGA 60.126 61.111 16.62 0.00 36.69 5.54
2244 2558 1.552578 TTCTCTCCGGTCGGAATCAA 58.447 50.000 13.36 3.49 44.66 2.57
2287 2601 0.963355 TTGGGGCTACGGATTTGCAC 60.963 55.000 0.00 0.00 0.00 4.57
2298 2612 3.324108 GTGGGGACGTTGGGGCTA 61.324 66.667 0.00 0.00 0.00 3.93
2310 2624 2.347490 CACAAGGAGGACGTGGGG 59.653 66.667 0.00 0.00 32.45 4.96
2343 2657 1.221909 TGGTGGGAGAGGAGGAGCTA 61.222 60.000 0.00 0.00 0.00 3.32
2366 2683 0.252284 GGACTTGGAGGTGGAGGAGA 60.252 60.000 0.00 0.00 0.00 3.71
2395 2712 0.462047 CTACCTTCGGATGTGGTGGC 60.462 60.000 7.73 0.00 35.48 5.01
2471 2788 1.324740 ATACCTAACGCCAGACCGCA 61.325 55.000 0.00 0.00 0.00 5.69
2478 2795 1.863325 TGTACCCATACCTAACGCCA 58.137 50.000 0.00 0.00 0.00 5.69


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

AutoCloner maintained by Alex Coulton.