Multiple sequence alignment - TraesCS2D01G079200

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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 TraesCS2D01G079200 chr2D 100.000 4216 0 0 1 4216 33907890 33903675 0.000000e+00 7786.0
1 TraesCS2D01G079200 chr2D 100.000 178 0 0 4574 4751 33903317 33903140 3.540000e-86 329.0
2 TraesCS2D01G079200 chr2D 100.000 29 0 0 3497 3525 121703259 121703231 2.000000e-03 54.7
3 TraesCS2D01G079200 chr2A 90.988 3673 222 52 592 4204 36812260 36808637 0.000000e+00 4848.0
4 TraesCS2D01G079200 chr2A 93.103 116 8 0 4636 4751 36808278 36808163 2.270000e-38 171.0
5 TraesCS2D01G079200 chr2A 100.000 29 0 0 3497 3525 125900473 125900445 2.000000e-03 54.7
6 TraesCS2D01G079200 chr2B 92.407 2937 152 24 1295 4205 56041624 56038733 0.000000e+00 4122.0
7 TraesCS2D01G079200 chr2B 85.959 641 52 22 592 1205 56042296 56041667 0.000000e+00 651.0
8 TraesCS2D01G079200 chr2B 85.837 233 25 2 13 245 56043306 56043082 1.710000e-59 241.0
9 TraesCS2D01G079200 chr2B 100.000 29 0 0 3497 3525 174828538 174828510 2.000000e-03 54.7
10 TraesCS2D01G079200 chr5A 93.333 45 3 0 4107 4151 519694652 519694608 3.070000e-07 67.6


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 TraesCS2D01G079200 chr2D 33903140 33907890 4750 True 4057.500000 7786 100.000000 1 4751 2 chr2D.!!$R2 4750
1 TraesCS2D01G079200 chr2A 36808163 36812260 4097 True 2509.500000 4848 92.045500 592 4751 2 chr2A.!!$R2 4159
2 TraesCS2D01G079200 chr2B 56038733 56043306 4573 True 1671.333333 4122 88.067667 13 4205 3 chr2B.!!$R2 4192

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
544 551 0.107312 TTAGTCGGTCTCCTCCTCCG 60.107 60.000 0.00 0.0 44.76 4.63 F
1375 1901 0.609131 CGCCCCTCCAGAATTGTTGT 60.609 55.000 0.00 0.0 0.00 3.32 F
2815 3357 1.135083 CGAAGGGCTATCGACAACACT 60.135 52.381 6.63 0.0 42.76 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1698 2234 0.326264 CCCTGAAGGTGAAGGTCTGG 59.674 60.0 0.0 0.0 0.00 3.86 R
3210 3769 0.308376 TACAACCGAAAAGCGTTGCC 59.692 50.0 0.0 0.0 38.67 4.52 R
4699 5564 0.034896 GGGAGTATATGGCACGGGTG 59.965 60.0 0.0 0.0 0.00 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
24 25 0.875059 GAGCGAACTCCAAACAAGGG 59.125 55.000 0.00 0.00 36.90 3.95
27 28 1.318576 CGAACTCCAAACAAGGGCTT 58.681 50.000 0.00 0.00 0.00 4.35
58 59 3.584733 AAATATGGAGAGGTTGGAGGC 57.415 47.619 0.00 0.00 0.00 4.70
63 64 1.003233 GAGAGGTTGGAGGCCACAC 60.003 63.158 5.01 0.00 30.78 3.82
78 79 1.945387 CACACATGGAAGGATCTCCG 58.055 55.000 0.00 0.00 42.08 4.63
84 85 5.126067 CACATGGAAGGATCTCCGTAATTT 58.874 41.667 0.00 0.00 42.08 1.82
86 87 6.202954 CACATGGAAGGATCTCCGTAATTTAC 59.797 42.308 0.00 0.00 42.08 2.01
107 108 2.440409 GGCAACTGAGATGTGAATGGT 58.560 47.619 0.00 0.00 0.00 3.55
110 111 3.120060 GCAACTGAGATGTGAATGGTGAC 60.120 47.826 0.00 0.00 0.00 3.67
172 173 5.107453 GGCGATTATTATGGAGTTTGAGACG 60.107 44.000 0.00 0.00 0.00 4.18
176 177 8.388103 CGATTATTATGGAGTTTGAGACGTTTT 58.612 33.333 0.00 0.00 0.00 2.43
180 181 7.789273 TTATGGAGTTTGAGACGTTTTAACA 57.211 32.000 0.00 0.00 0.00 2.41
181 182 6.687081 ATGGAGTTTGAGACGTTTTAACAA 57.313 33.333 0.00 0.00 0.00 2.83
182 183 5.871539 TGGAGTTTGAGACGTTTTAACAAC 58.128 37.500 0.00 0.00 0.00 3.32
199 200 3.326747 ACAACGTTGATAGAGTTGCTCC 58.673 45.455 33.66 0.00 46.41 4.70
204 205 3.368427 CGTTGATAGAGTTGCTCCAAGGA 60.368 47.826 0.00 0.00 32.06 3.36
209 210 3.133141 AGAGTTGCTCCAAGGAAACTC 57.867 47.619 19.19 19.19 42.68 3.01
215 216 1.882623 GCTCCAAGGAAACTCCAACAG 59.117 52.381 0.00 0.00 42.68 3.16
232 233 7.065120 TCCAACAGAAATCACCAAAATCAAT 57.935 32.000 0.00 0.00 0.00 2.57
233 234 6.930164 TCCAACAGAAATCACCAAAATCAATG 59.070 34.615 0.00 0.00 0.00 2.82
236 237 4.632688 CAGAAATCACCAAAATCAATGGCC 59.367 41.667 0.00 0.00 41.89 5.36
239 240 2.607499 TCACCAAAATCAATGGCCAGT 58.393 42.857 13.05 5.37 41.89 4.00
240 241 2.299582 TCACCAAAATCAATGGCCAGTG 59.700 45.455 27.04 27.04 41.89 3.66
241 242 2.037511 CACCAAAATCAATGGCCAGTGT 59.962 45.455 30.63 16.54 41.89 3.55
242 243 2.705127 ACCAAAATCAATGGCCAGTGTT 59.295 40.909 30.63 21.21 41.89 3.32
243 244 3.244181 ACCAAAATCAATGGCCAGTGTTC 60.244 43.478 30.63 0.00 41.89 3.18
244 245 3.244146 CCAAAATCAATGGCCAGTGTTCA 60.244 43.478 30.63 14.16 0.00 3.18
245 246 4.563993 CCAAAATCAATGGCCAGTGTTCAT 60.564 41.667 30.63 15.86 0.00 2.57
246 247 5.337410 CCAAAATCAATGGCCAGTGTTCATA 60.337 40.000 30.63 13.38 0.00 2.15
247 248 4.989279 AATCAATGGCCAGTGTTCATAC 57.011 40.909 30.63 0.00 0.00 2.39
248 249 2.722094 TCAATGGCCAGTGTTCATACC 58.278 47.619 30.63 0.00 0.00 2.73
249 250 2.040947 TCAATGGCCAGTGTTCATACCA 59.959 45.455 30.63 7.97 0.00 3.25
250 251 2.824936 CAATGGCCAGTGTTCATACCAA 59.175 45.455 24.85 0.00 0.00 3.67
251 252 2.666272 TGGCCAGTGTTCATACCAAA 57.334 45.000 0.00 0.00 0.00 3.28
252 253 2.235016 TGGCCAGTGTTCATACCAAAC 58.765 47.619 0.00 0.00 0.00 2.93
253 254 1.544246 GGCCAGTGTTCATACCAAACC 59.456 52.381 0.00 0.00 0.00 3.27
254 255 2.235016 GCCAGTGTTCATACCAAACCA 58.765 47.619 0.00 0.00 0.00 3.67
255 256 2.228822 GCCAGTGTTCATACCAAACCAG 59.771 50.000 0.00 0.00 0.00 4.00
256 257 3.750371 CCAGTGTTCATACCAAACCAGA 58.250 45.455 0.00 0.00 0.00 3.86
257 258 3.502211 CCAGTGTTCATACCAAACCAGAC 59.498 47.826 0.00 0.00 0.00 3.51
258 259 3.186409 CAGTGTTCATACCAAACCAGACG 59.814 47.826 0.00 0.00 0.00 4.18
259 260 2.482721 GTGTTCATACCAAACCAGACGG 59.517 50.000 0.00 0.00 38.77 4.79
268 269 3.821995 ACCAGACGGTGTTTGCAC 58.178 55.556 0.00 0.00 46.79 4.57
269 270 1.223487 ACCAGACGGTGTTTGCACT 59.777 52.632 0.00 0.00 46.79 4.40
270 271 0.393808 ACCAGACGGTGTTTGCACTT 60.394 50.000 0.00 0.00 46.79 3.16
271 272 0.738389 CCAGACGGTGTTTGCACTTT 59.262 50.000 0.00 0.00 44.65 2.66
272 273 1.134175 CCAGACGGTGTTTGCACTTTT 59.866 47.619 0.00 0.00 44.65 2.27
273 274 2.184448 CAGACGGTGTTTGCACTTTTG 58.816 47.619 0.00 0.00 44.65 2.44
274 275 1.134175 AGACGGTGTTTGCACTTTTGG 59.866 47.619 0.00 0.00 44.65 3.28
275 276 0.892063 ACGGTGTTTGCACTTTTGGT 59.108 45.000 0.00 0.00 44.65 3.67
279 280 2.670905 GGTGTTTGCACTTTTGGTTGTC 59.329 45.455 0.00 0.00 44.65 3.18
283 284 6.594968 GTGTTTGCACTTTTGGTTGTCCAAT 61.595 40.000 0.44 0.00 45.40 3.16
292 293 0.898326 GGTTGTCCAATGGGGTCACC 60.898 60.000 0.00 0.00 34.29 4.02
297 298 1.005924 GTCCAATGGGGTCACCTGATT 59.994 52.381 0.00 0.00 41.11 2.57
301 302 3.055891 CCAATGGGGTCACCTGATTTTTC 60.056 47.826 0.00 0.00 41.11 2.29
302 303 2.302587 TGGGGTCACCTGATTTTTCC 57.697 50.000 0.00 0.00 41.11 3.13
303 304 1.501170 TGGGGTCACCTGATTTTTCCA 59.499 47.619 0.00 0.00 41.11 3.53
304 305 2.171003 GGGGTCACCTGATTTTTCCAG 58.829 52.381 0.00 0.00 36.80 3.86
305 306 2.225017 GGGGTCACCTGATTTTTCCAGA 60.225 50.000 0.00 0.00 36.80 3.86
306 307 3.564352 GGGGTCACCTGATTTTTCCAGAT 60.564 47.826 0.00 0.00 36.80 2.90
307 308 4.325030 GGGGTCACCTGATTTTTCCAGATA 60.325 45.833 0.00 0.00 36.80 1.98
308 309 4.884164 GGGTCACCTGATTTTTCCAGATAG 59.116 45.833 0.00 0.00 33.65 2.08
309 310 5.339200 GGGTCACCTGATTTTTCCAGATAGA 60.339 44.000 0.00 0.00 33.65 1.98
310 311 5.586643 GGTCACCTGATTTTTCCAGATAGAC 59.413 44.000 0.00 0.00 33.65 2.59
312 313 4.884164 CACCTGATTTTTCCAGATAGACCC 59.116 45.833 0.00 0.00 33.65 4.46
313 314 4.130118 CCTGATTTTTCCAGATAGACCCG 58.870 47.826 0.00 0.00 33.65 5.28
316 317 3.622166 TTTTTCCAGATAGACCCGGAC 57.378 47.619 0.73 0.00 0.00 4.79
317 318 2.241281 TTTCCAGATAGACCCGGACA 57.759 50.000 0.73 0.00 0.00 4.02
318 319 2.471815 TTCCAGATAGACCCGGACAT 57.528 50.000 0.73 0.00 0.00 3.06
319 320 1.996798 TCCAGATAGACCCGGACATC 58.003 55.000 0.73 0.00 0.00 3.06
320 321 0.598562 CCAGATAGACCCGGACATCG 59.401 60.000 0.73 0.00 38.88 3.84
331 337 1.006832 CGGACATCGGATGACAAACC 58.993 55.000 23.98 15.55 34.75 3.27
338 344 1.303317 GGATGACAAACCGGCACCT 60.303 57.895 0.00 0.00 0.00 4.00
358 364 4.374584 CCGGGGGCATGTTTGGGA 62.375 66.667 0.00 0.00 0.00 4.37
364 370 0.329596 GGGCATGTTTGGGAGAGTCT 59.670 55.000 0.00 0.00 0.00 3.24
365 371 1.457346 GGCATGTTTGGGAGAGTCTG 58.543 55.000 0.00 0.00 0.00 3.51
368 374 2.356535 GCATGTTTGGGAGAGTCTGGAT 60.357 50.000 0.00 0.00 0.00 3.41
373 379 0.684479 TGGGAGAGTCTGGATGTCCG 60.684 60.000 0.00 0.00 39.43 4.79
377 383 0.689080 AGAGTCTGGATGTCCGCCAT 60.689 55.000 0.00 0.00 39.43 4.40
378 384 0.531532 GAGTCTGGATGTCCGCCATG 60.532 60.000 0.00 0.00 39.43 3.66
381 387 1.221566 CTGGATGTCCGCCATGTCA 59.778 57.895 0.00 0.00 39.43 3.58
384 390 0.107456 GGATGTCCGCCATGTCAGAT 59.893 55.000 0.00 0.00 32.56 2.90
387 393 0.904649 TGTCCGCCATGTCAGATTCT 59.095 50.000 0.00 0.00 0.00 2.40
402 408 1.289109 ATTCTGACAACGCGAACCCG 61.289 55.000 15.93 0.00 39.16 5.28
416 422 2.353323 GAACCCGCGGAAAACTAATCT 58.647 47.619 30.73 0.00 0.00 2.40
420 426 0.928229 CGCGGAAAACTAATCTCCCG 59.072 55.000 0.00 0.00 39.88 5.14
421 427 1.738030 CGCGGAAAACTAATCTCCCGT 60.738 52.381 0.00 0.00 39.18 5.28
423 429 2.745821 GCGGAAAACTAATCTCCCGTTT 59.254 45.455 0.00 0.00 39.18 3.60
424 430 3.425758 GCGGAAAACTAATCTCCCGTTTG 60.426 47.826 0.00 0.00 39.18 2.93
425 431 3.425758 CGGAAAACTAATCTCCCGTTTGC 60.426 47.826 0.00 0.00 31.82 3.68
428 434 5.372547 AAAACTAATCTCCCGTTTGCTTC 57.627 39.130 0.00 0.00 31.82 3.86
429 435 2.987232 ACTAATCTCCCGTTTGCTTCC 58.013 47.619 0.00 0.00 0.00 3.46
431 437 1.305930 AATCTCCCGTTTGCTTCCGC 61.306 55.000 0.00 0.00 0.00 5.54
432 438 3.431725 CTCCCGTTTGCTTCCGCC 61.432 66.667 0.00 0.00 34.43 6.13
434 440 2.983592 CCCGTTTGCTTCCGCCTT 60.984 61.111 0.00 0.00 34.43 4.35
436 442 2.255252 CGTTTGCTTCCGCCTTGG 59.745 61.111 0.00 0.00 40.09 3.61
437 443 2.049156 GTTTGCTTCCGCCTTGGC 60.049 61.111 0.75 0.75 37.80 4.52
455 461 1.285578 GCTTGACCGCATTCTCTCTC 58.714 55.000 0.00 0.00 0.00 3.20
456 462 1.554392 CTTGACCGCATTCTCTCTCG 58.446 55.000 0.00 0.00 0.00 4.04
458 464 1.590259 GACCGCATTCTCTCTCGCC 60.590 63.158 0.00 0.00 0.00 5.54
460 466 2.103143 CGCATTCTCTCTCGCCGT 59.897 61.111 0.00 0.00 0.00 5.68
482 489 2.735237 CCTCCCGCTTACCCGATC 59.265 66.667 0.00 0.00 0.00 3.69
540 547 1.849977 AAGGTTAGTCGGTCTCCTCC 58.150 55.000 0.00 0.00 0.00 4.30
544 551 0.107312 TTAGTCGGTCTCCTCCTCCG 60.107 60.000 0.00 0.00 44.76 4.63
545 552 2.605854 TAGTCGGTCTCCTCCTCCGC 62.606 65.000 0.00 0.00 43.35 5.54
581 588 2.819115 CAATCCTCATCCTCTCACACG 58.181 52.381 0.00 0.00 0.00 4.49
585 1063 1.568606 CTCATCCTCTCACACGCATG 58.431 55.000 0.00 0.00 0.00 4.06
588 1066 2.913054 ATCCTCTCACACGCATGCGG 62.913 60.000 39.95 30.20 44.69 5.69
801 1298 2.003301 GCGTTCTTCTAGAAGCCAAGG 58.997 52.381 25.04 20.09 34.42 3.61
945 1461 0.697854 ACACTCAAACCTCCCACCCT 60.698 55.000 0.00 0.00 0.00 4.34
994 1516 1.081092 CCAGAGGAGGTCCCAGGAA 59.919 63.158 0.00 0.00 37.41 3.36
995 1517 0.980231 CCAGAGGAGGTCCCAGGAAG 60.980 65.000 0.00 0.00 37.41 3.46
1077 1599 2.812619 CGAGAAGCCCCAGATCCCC 61.813 68.421 0.00 0.00 0.00 4.81
1138 1660 2.352032 CCGTCTTCTTCCTCGCCCT 61.352 63.158 0.00 0.00 0.00 5.19
1139 1661 1.139947 CGTCTTCTTCCTCGCCCTC 59.860 63.158 0.00 0.00 0.00 4.30
1185 1707 3.717400 TCATCTCCGCTAGATTCACAC 57.283 47.619 0.00 0.00 42.62 3.82
1189 1711 2.423892 TCTCCGCTAGATTCACACAGTC 59.576 50.000 0.00 0.00 0.00 3.51
1190 1712 1.476891 TCCGCTAGATTCACACAGTCC 59.523 52.381 0.00 0.00 0.00 3.85
1249 1771 1.250840 AATTTGTGGCTCCGGCTTCC 61.251 55.000 0.00 0.00 38.73 3.46
1331 1855 1.003696 CCCTCTCCCCTGTTTCTTCAC 59.996 57.143 0.00 0.00 0.00 3.18
1369 1893 0.698818 AAAGTTCGCCCCTCCAGAAT 59.301 50.000 0.00 0.00 0.00 2.40
1370 1894 0.698818 AAGTTCGCCCCTCCAGAATT 59.301 50.000 0.00 0.00 0.00 2.17
1375 1901 0.609131 CGCCCCTCCAGAATTGTTGT 60.609 55.000 0.00 0.00 0.00 3.32
1505 2041 2.361737 GCCTGCACTCCTTTCCCC 60.362 66.667 0.00 0.00 0.00 4.81
1536 2072 3.246226 CGTCTTCTTTATTCGCCTCATGG 59.754 47.826 0.00 0.00 0.00 3.66
1842 2379 7.554476 GTGAGGAGGTTCTTGCTAATTATTCTT 59.446 37.037 0.00 0.00 0.00 2.52
1843 2380 7.554118 TGAGGAGGTTCTTGCTAATTATTCTTG 59.446 37.037 0.00 0.00 0.00 3.02
1845 2382 6.319911 GGAGGTTCTTGCTAATTATTCTTGCT 59.680 38.462 0.00 0.00 0.00 3.91
1848 2385 7.394359 AGGTTCTTGCTAATTATTCTTGCTTCA 59.606 33.333 0.00 0.00 0.00 3.02
1863 2400 3.743521 TGCTTCACAGTTCATTAGCACT 58.256 40.909 0.00 0.00 34.05 4.40
1864 2401 3.499537 TGCTTCACAGTTCATTAGCACTG 59.500 43.478 0.00 0.00 43.44 3.66
1865 2402 3.669023 GCTTCACAGTTCATTAGCACTGC 60.669 47.826 0.00 0.00 41.86 4.40
1979 2516 1.592400 GGTTTAGGCTGCGGGTTTCC 61.592 60.000 0.00 0.00 0.00 3.13
2059 2597 5.309638 TCCTCGGTTGATTTACATTCACAA 58.690 37.500 0.00 0.00 0.00 3.33
2062 2600 5.996219 TCGGTTGATTTACATTCACAACTG 58.004 37.500 0.00 0.00 44.24 3.16
2125 2664 5.153513 TGCGCAAGAATTTGTCAAACTATC 58.846 37.500 8.16 0.27 43.02 2.08
2178 2720 7.459795 TTTGTTATCATCATAGGTTGTTGCA 57.540 32.000 0.00 0.00 0.00 4.08
2334 2876 3.569277 TGGTTTACGAGTATATGCCGCTA 59.431 43.478 0.00 0.00 0.00 4.26
2710 3252 2.129607 GGTACATACGGGTATTGTGCG 58.870 52.381 0.00 0.00 0.00 5.34
2728 3270 1.937108 GCGCCTGAGTATGCTATGACC 60.937 57.143 0.00 0.00 0.00 4.02
2794 3336 5.163269 TGTTCTATTGGAGATCATCACAGGG 60.163 44.000 0.00 0.00 32.88 4.45
2815 3357 1.135083 CGAAGGGCTATCGACAACACT 60.135 52.381 6.63 0.00 42.76 3.55
2836 3378 4.056125 GCTGCGGGGGAGCAAAAC 62.056 66.667 4.16 0.00 46.16 2.43
2890 3432 5.488645 TTTGTTACGGTCCTTTCTGTTTC 57.511 39.130 0.00 0.00 0.00 2.78
2897 3442 3.304057 CGGTCCTTTCTGTTTCTTCTTGC 60.304 47.826 0.00 0.00 0.00 4.01
2934 3479 9.838339 CATTCCATTATAGACTACTGGAGTTTT 57.162 33.333 0.00 0.00 39.06 2.43
2945 3490 9.841295 AGACTACTGGAGTTTTACTATAGAGAG 57.159 37.037 6.78 0.00 39.06 3.20
2984 3535 4.437239 CTGCTACCTCTTGTGAGTATTGG 58.563 47.826 0.00 0.00 38.61 3.16
3065 3617 1.667724 GCTGAGTGTTAGCGCATCAAT 59.332 47.619 11.47 4.48 0.00 2.57
3134 3686 7.821846 AGTCATCTCTGTATTTCTTTCCACTTC 59.178 37.037 0.00 0.00 0.00 3.01
3182 3741 6.258947 GGACATATTGTACTTTCCTTCAGCTC 59.741 42.308 0.00 0.00 0.00 4.09
3217 3776 3.492313 CTTACAATTTCTGAGGCAACGC 58.508 45.455 0.00 0.00 46.39 4.84
3223 3782 0.586319 TTCTGAGGCAACGCTTTTCG 59.414 50.000 0.00 0.00 46.39 3.46
3241 3800 6.347969 GCTTTTCGGTTGTAGGGTTACTAAAG 60.348 42.308 0.00 0.00 32.37 1.85
3257 3816 8.829612 GGTTACTAAAGAGCTACTGTACTAGAG 58.170 40.741 0.00 0.00 0.00 2.43
3359 3918 6.983307 AGTCTGTTGAATAGGATCGAATGAAG 59.017 38.462 0.00 0.00 0.00 3.02
3456 4015 1.530419 TGCACAATTTCAGGCCCGT 60.530 52.632 0.00 0.00 0.00 5.28
3489 4048 0.402861 ACAGGAGGAAGTTCCCCCAA 60.403 55.000 23.36 0.00 37.19 4.12
3579 4138 2.515757 TGCGTGCAAGAACAGCCA 60.516 55.556 2.99 0.00 0.00 4.75
3588 4147 0.111253 AAGAACAGCCAACCCTGAGG 59.889 55.000 0.00 0.00 36.67 3.86
3753 4312 2.185608 GGAGGAAGCGAGTGAGGC 59.814 66.667 0.00 0.00 0.00 4.70
3754 4313 2.202676 GAGGAAGCGAGTGAGGCG 60.203 66.667 0.00 0.00 35.00 5.52
3832 4393 4.635765 TGAAGAGGAATTTTGTGGATAGCG 59.364 41.667 0.00 0.00 0.00 4.26
3919 4480 2.435805 TCTATCTGGTTGAGATGGTGCC 59.564 50.000 0.00 0.00 41.86 5.01
3949 4511 1.028330 CATGCATGTGCTCTCCGGTT 61.028 55.000 18.91 0.00 42.66 4.44
3951 4513 0.108186 TGCATGTGCTCTCCGGTTAG 60.108 55.000 0.00 0.76 42.66 2.34
3955 4517 2.502142 TGTGCTCTCCGGTTAGAGTA 57.498 50.000 18.60 13.12 44.13 2.59
4087 4649 2.929301 TCCAGGGTTTGAGGGTTCTAT 58.071 47.619 0.00 0.00 0.00 1.98
4096 4658 3.281727 TGAGGGTTCTATTGCATGTCC 57.718 47.619 0.00 0.00 0.00 4.02
4097 4659 2.092429 TGAGGGTTCTATTGCATGTCCC 60.092 50.000 0.00 0.00 0.00 4.46
4173 4735 1.257743 TCCTCTTCCTCTGACAACCG 58.742 55.000 0.00 0.00 0.00 4.44
4594 5161 0.108041 CTTGGCCATCCATGCAAACC 60.108 55.000 6.09 0.00 43.05 3.27
4605 5470 2.547642 CCATGCAAACCGTTGAACCATT 60.548 45.455 0.00 0.00 36.83 3.16
4623 5488 4.083484 ACCATTCAAATTCTTCGACGAACC 60.083 41.667 6.10 0.00 0.00 3.62
4624 5489 4.154195 CCATTCAAATTCTTCGACGAACCT 59.846 41.667 6.10 0.00 0.00 3.50
4625 5490 4.725556 TTCAAATTCTTCGACGAACCTG 57.274 40.909 6.10 7.37 0.00 4.00
4626 5491 2.478894 TCAAATTCTTCGACGAACCTGC 59.521 45.455 6.10 0.00 0.00 4.85
4627 5492 1.439679 AATTCTTCGACGAACCTGCC 58.560 50.000 6.10 0.00 0.00 4.85
4628 5493 0.391263 ATTCTTCGACGAACCTGCCC 60.391 55.000 6.10 0.00 0.00 5.36
4629 5494 2.434359 CTTCGACGAACCTGCCCC 60.434 66.667 6.10 0.00 0.00 5.80
4630 5495 3.952628 CTTCGACGAACCTGCCCCC 62.953 68.421 6.10 0.00 0.00 5.40
4669 5534 0.181587 TTTCGAACTTGCCTCCACCA 59.818 50.000 0.00 0.00 0.00 4.17
4674 5539 0.995024 AACTTGCCTCCACCAGCTAT 59.005 50.000 0.00 0.00 0.00 2.97
4719 5584 0.105142 ACCCGTGCCATATACTCCCT 60.105 55.000 0.00 0.00 0.00 4.20
4727 5592 4.576463 GTGCCATATACTCCCTCTGTTTTG 59.424 45.833 0.00 0.00 0.00 2.44
4738 5603 6.263168 ACTCCCTCTGTTTTGAAATACAAGTG 59.737 38.462 0.00 0.00 39.77 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 0.875059 CCCTTGTTTGGAGTTCGCTC 59.125 55.000 0.00 0.00 43.36 5.03
7 8 1.172812 AGCCCTTGTTTGGAGTTCGC 61.173 55.000 0.00 0.00 0.00 4.70
8 9 1.266989 GAAGCCCTTGTTTGGAGTTCG 59.733 52.381 0.00 0.00 0.00 3.95
9 10 2.306847 TGAAGCCCTTGTTTGGAGTTC 58.693 47.619 0.00 0.00 0.00 3.01
10 11 2.452600 TGAAGCCCTTGTTTGGAGTT 57.547 45.000 0.00 0.00 0.00 3.01
11 12 2.683211 ATGAAGCCCTTGTTTGGAGT 57.317 45.000 0.00 0.00 0.00 3.85
12 13 3.193479 GGTTATGAAGCCCTTGTTTGGAG 59.807 47.826 0.00 0.00 0.00 3.86
13 14 3.161866 GGTTATGAAGCCCTTGTTTGGA 58.838 45.455 0.00 0.00 0.00 3.53
14 15 2.233676 GGGTTATGAAGCCCTTGTTTGG 59.766 50.000 0.00 0.00 43.23 3.28
15 16 3.592898 GGGTTATGAAGCCCTTGTTTG 57.407 47.619 0.00 0.00 43.23 2.93
23 24 4.898861 TCCATATTTTGGGGTTATGAAGCC 59.101 41.667 0.00 0.00 46.45 4.35
24 25 6.089249 CTCCATATTTTGGGGTTATGAAGC 57.911 41.667 0.00 0.00 46.45 3.86
38 39 2.175715 GGCCTCCAACCTCTCCATATTT 59.824 50.000 0.00 0.00 0.00 1.40
41 42 0.044092 TGGCCTCCAACCTCTCCATA 59.956 55.000 3.32 0.00 0.00 2.74
63 64 6.787085 GTAAATTACGGAGATCCTTCCATG 57.213 41.667 2.23 0.00 37.05 3.66
78 79 5.350365 TCACATCTCAGTTGCCGTAAATTAC 59.650 40.000 0.00 0.00 0.00 1.89
84 85 3.261580 CATTCACATCTCAGTTGCCGTA 58.738 45.455 0.00 0.00 0.00 4.02
86 87 1.399440 CCATTCACATCTCAGTTGCCG 59.601 52.381 0.00 0.00 0.00 5.69
96 97 5.724328 TCTAACAGAGTCACCATTCACATC 58.276 41.667 0.00 0.00 0.00 3.06
97 98 5.728471 CTCTAACAGAGTCACCATTCACAT 58.272 41.667 0.00 0.00 37.57 3.21
98 99 5.139435 CTCTAACAGAGTCACCATTCACA 57.861 43.478 0.00 0.00 37.57 3.58
172 173 7.130269 AGCAACTCTATCAACGTTGTTAAAAC 58.870 34.615 26.47 10.14 39.98 2.43
176 177 4.927425 GGAGCAACTCTATCAACGTTGTTA 59.073 41.667 26.47 20.87 39.98 2.41
177 178 3.746492 GGAGCAACTCTATCAACGTTGTT 59.254 43.478 26.47 20.87 39.98 2.83
178 179 3.244078 TGGAGCAACTCTATCAACGTTGT 60.244 43.478 26.47 16.50 39.98 3.32
179 180 3.325870 TGGAGCAACTCTATCAACGTTG 58.674 45.455 22.35 22.35 40.59 4.10
180 181 3.678056 TGGAGCAACTCTATCAACGTT 57.322 42.857 0.00 0.00 0.00 3.99
181 182 3.589988 CTTGGAGCAACTCTATCAACGT 58.410 45.455 0.00 0.00 0.00 3.99
182 183 2.932614 CCTTGGAGCAACTCTATCAACG 59.067 50.000 0.00 0.00 0.00 4.10
183 184 4.207891 TCCTTGGAGCAACTCTATCAAC 57.792 45.455 0.00 0.00 0.00 3.18
184 185 4.908601 TTCCTTGGAGCAACTCTATCAA 57.091 40.909 0.00 0.00 0.00 2.57
199 200 5.507985 GGTGATTTCTGTTGGAGTTTCCTTG 60.508 44.000 0.00 0.00 37.46 3.61
204 205 5.930837 TTTGGTGATTTCTGTTGGAGTTT 57.069 34.783 0.00 0.00 0.00 2.66
209 210 6.148150 CCATTGATTTTGGTGATTTCTGTTGG 59.852 38.462 0.00 0.00 0.00 3.77
215 216 4.577875 TGGCCATTGATTTTGGTGATTTC 58.422 39.130 0.00 0.00 36.57 2.17
232 233 2.235016 GTTTGGTATGAACACTGGCCA 58.765 47.619 4.71 4.71 0.00 5.36
233 234 1.544246 GGTTTGGTATGAACACTGGCC 59.456 52.381 0.00 0.00 0.00 5.36
236 237 3.186409 CGTCTGGTTTGGTATGAACACTG 59.814 47.826 0.00 0.00 0.00 3.66
239 240 2.773487 CCGTCTGGTTTGGTATGAACA 58.227 47.619 0.00 0.00 0.00 3.18
258 259 4.472056 GGACAACCAAAAGTGCAAACACC 61.472 47.826 0.00 0.00 40.93 4.16
259 260 2.670905 GGACAACCAAAAGTGCAAACAC 59.329 45.455 0.00 0.00 40.60 3.32
260 261 2.300152 TGGACAACCAAAAGTGCAAACA 59.700 40.909 0.00 0.00 43.91 2.83
261 262 2.966050 TGGACAACCAAAAGTGCAAAC 58.034 42.857 0.00 0.00 43.91 2.93
272 273 0.178975 GTGACCCCATTGGACAACCA 60.179 55.000 3.62 0.00 40.53 3.67
273 274 0.898326 GGTGACCCCATTGGACAACC 60.898 60.000 3.62 2.85 40.17 3.77
274 275 0.112412 AGGTGACCCCATTGGACAAC 59.888 55.000 3.62 4.49 45.55 3.32
275 276 0.112218 CAGGTGACCCCATTGGACAA 59.888 55.000 3.62 0.00 40.53 3.18
279 280 2.236489 AAATCAGGTGACCCCATTGG 57.764 50.000 0.00 0.00 41.37 3.16
283 284 1.501170 TGGAAAAATCAGGTGACCCCA 59.499 47.619 0.00 0.00 34.66 4.96
292 293 4.130118 CCGGGTCTATCTGGAAAAATCAG 58.870 47.826 0.00 0.00 35.18 2.90
297 298 2.542550 TGTCCGGGTCTATCTGGAAAA 58.457 47.619 0.00 0.00 43.21 2.29
301 302 0.598562 CGATGTCCGGGTCTATCTGG 59.401 60.000 0.00 0.00 33.91 3.86
312 313 1.006832 GGTTTGTCATCCGATGTCCG 58.993 55.000 8.24 0.00 38.18 4.79
319 320 2.686816 GGTGCCGGTTTGTCATCCG 61.687 63.158 1.90 9.21 45.42 4.18
320 321 0.035820 TAGGTGCCGGTTTGTCATCC 60.036 55.000 1.90 0.00 0.00 3.51
321 322 1.467342 GTTAGGTGCCGGTTTGTCATC 59.533 52.381 1.90 0.00 0.00 2.92
322 323 1.530323 GTTAGGTGCCGGTTTGTCAT 58.470 50.000 1.90 0.00 0.00 3.06
323 324 0.535553 GGTTAGGTGCCGGTTTGTCA 60.536 55.000 1.90 0.00 0.00 3.58
324 325 1.571215 CGGTTAGGTGCCGGTTTGTC 61.571 60.000 1.90 0.00 44.98 3.18
338 344 1.304547 CCAAACATGCCCCCGGTTA 60.305 57.895 0.00 0.00 0.00 2.85
348 354 3.276857 CATCCAGACTCTCCCAAACATG 58.723 50.000 0.00 0.00 0.00 3.21
350 356 2.303022 GACATCCAGACTCTCCCAAACA 59.697 50.000 0.00 0.00 0.00 2.83
358 364 0.689080 ATGGCGGACATCCAGACTCT 60.689 55.000 0.00 0.00 36.98 3.24
364 370 1.221566 CTGACATGGCGGACATCCA 59.778 57.895 0.00 0.00 37.84 3.41
365 371 0.107456 ATCTGACATGGCGGACATCC 59.893 55.000 13.71 0.00 37.84 3.51
368 374 0.904649 AGAATCTGACATGGCGGACA 59.095 50.000 13.71 0.00 0.00 4.02
381 387 1.429463 GGTTCGCGTTGTCAGAATCT 58.571 50.000 5.77 0.00 0.00 2.40
384 390 1.952133 CGGGTTCGCGTTGTCAGAA 60.952 57.895 5.77 0.00 0.00 3.02
395 401 1.061566 GATTAGTTTTCCGCGGGTTCG 59.938 52.381 27.83 0.00 39.81 3.95
402 408 2.019948 ACGGGAGATTAGTTTTCCGC 57.980 50.000 0.00 0.00 40.95 5.54
404 410 3.756963 AGCAAACGGGAGATTAGTTTTCC 59.243 43.478 0.00 0.00 36.12 3.13
405 411 5.372547 AAGCAAACGGGAGATTAGTTTTC 57.627 39.130 0.00 0.00 36.12 2.29
411 417 2.018542 CGGAAGCAAACGGGAGATTA 57.981 50.000 0.00 0.00 0.00 1.75
431 437 0.962356 AGAATGCGGTCAAGCCAAGG 60.962 55.000 0.00 0.00 36.97 3.61
432 438 0.449388 GAGAATGCGGTCAAGCCAAG 59.551 55.000 0.00 0.00 36.97 3.61
434 440 0.391661 GAGAGAATGCGGTCAAGCCA 60.392 55.000 0.00 0.00 36.97 4.75
436 442 1.285578 GAGAGAGAATGCGGTCAAGC 58.714 55.000 0.00 0.00 37.71 4.01
437 443 1.554392 CGAGAGAGAATGCGGTCAAG 58.446 55.000 0.00 0.00 0.00 3.02
497 504 2.188161 CGGAGTAGACCTCTCGGCC 61.188 68.421 0.00 0.00 40.30 6.13
498 505 1.153208 TCGGAGTAGACCTCTCGGC 60.153 63.158 0.00 0.00 40.30 5.54
518 525 3.380954 GGAGGAGACCGACTAACCTTTAG 59.619 52.174 0.00 0.00 0.00 1.85
520 527 2.177734 GGAGGAGACCGACTAACCTTT 58.822 52.381 0.00 0.00 0.00 3.11
531 538 1.079057 GTTTGCGGAGGAGGAGACC 60.079 63.158 0.00 0.00 0.00 3.85
533 540 2.291043 GGGTTTGCGGAGGAGGAGA 61.291 63.158 0.00 0.00 0.00 3.71
540 547 2.271173 GGGTAGGGGTTTGCGGAG 59.729 66.667 0.00 0.00 0.00 4.63
545 552 4.708386 TGCGCGGGTAGGGGTTTG 62.708 66.667 8.83 0.00 0.00 2.93
560 567 2.559440 GTGTGAGAGGATGAGGATTGC 58.441 52.381 0.00 0.00 0.00 3.56
581 588 3.818787 CAACTCCAGCCCGCATGC 61.819 66.667 7.91 7.91 0.00 4.06
590 1068 3.274288 CTTAAGCTTAGGGCAACTCCAG 58.726 50.000 7.70 0.00 44.79 3.86
617 1095 3.003897 GGACTAGAAGGCTCGTGACTATG 59.996 52.174 0.00 0.00 0.00 2.23
703 1182 3.783588 AAAAGTCACGCACGCACGC 62.784 57.895 0.00 0.00 36.19 5.34
704 1183 1.998257 CAAAAGTCACGCACGCACG 60.998 57.895 0.00 0.00 39.50 5.34
705 1184 2.285857 GCAAAAGTCACGCACGCAC 61.286 57.895 0.00 0.00 0.00 5.34
706 1185 1.987704 AAGCAAAAGTCACGCACGCA 61.988 50.000 0.00 0.00 0.00 5.24
770 1249 0.303493 GAAGAACGCAACGCACAAGA 59.697 50.000 0.00 0.00 0.00 3.02
774 1253 1.415374 TCTAGAAGAACGCAACGCAC 58.585 50.000 0.00 0.00 0.00 5.34
801 1298 4.168291 CAGCCCTCCCTTCTCCGC 62.168 72.222 0.00 0.00 0.00 5.54
803 1300 3.803162 GGCAGCCCTCCCTTCTCC 61.803 72.222 0.00 0.00 0.00 3.71
804 1301 3.803162 GGGCAGCCCTCCCTTCTC 61.803 72.222 24.99 0.00 41.34 2.87
874 1380 4.806339 AGGAAGGCGAGGGGAGGG 62.806 72.222 0.00 0.00 0.00 4.30
879 1385 1.222113 GGAAGAAGGAAGGCGAGGG 59.778 63.158 0.00 0.00 0.00 4.30
977 1499 1.621672 GCTTCCTGGGACCTCCTCTG 61.622 65.000 0.00 0.00 36.20 3.35
981 1503 4.475135 GCGCTTCCTGGGACCTCC 62.475 72.222 0.00 0.00 0.00 4.30
988 1510 2.825836 GTCCATGGCGCTTCCTGG 60.826 66.667 6.96 9.47 35.63 4.45
1057 1579 2.066999 GGATCTGGGGCTTCTCGGT 61.067 63.158 0.00 0.00 0.00 4.69
1059 1581 2.812619 GGGGATCTGGGGCTTCTCG 61.813 68.421 0.00 0.00 0.00 4.04
1101 1623 1.546548 GGCAAGAAAGAAGGCAGAGGT 60.547 52.381 0.00 0.00 0.00 3.85
1104 1626 0.108585 ACGGCAAGAAAGAAGGCAGA 59.891 50.000 0.00 0.00 0.00 4.26
1138 1660 4.753662 CGACGGTGGGGGAGGAGA 62.754 72.222 0.00 0.00 0.00 3.71
1185 1707 1.424493 GCAGAATCGGCGAAGGACTG 61.424 60.000 15.93 19.97 0.00 3.51
1189 1711 2.176273 CAGGCAGAATCGGCGAAGG 61.176 63.158 15.93 4.81 36.37 3.46
1190 1712 2.817423 GCAGGCAGAATCGGCGAAG 61.817 63.158 15.93 5.62 36.37 3.79
1299 1821 3.334054 AGAGGGGAACTGGGCTGC 61.334 66.667 0.00 0.00 0.00 5.25
1303 1825 2.692741 GGGGAGAGGGGAACTGGG 60.693 72.222 0.00 0.00 0.00 4.45
1314 1836 3.045634 TCTTGTGAAGAAACAGGGGAGA 58.954 45.455 0.00 0.00 33.83 3.71
1369 1893 5.357314 TGATTTTGGACCGAGTTTACAACAA 59.643 36.000 0.00 0.00 0.00 2.83
1370 1894 4.882427 TGATTTTGGACCGAGTTTACAACA 59.118 37.500 0.00 0.00 0.00 3.33
1375 1901 4.658063 ACCATGATTTTGGACCGAGTTTA 58.342 39.130 0.00 0.00 39.25 2.01
1469 2001 1.661509 GTTGTCTGGCGGCAAAAGC 60.662 57.895 14.48 3.99 0.00 3.51
1490 2026 1.928868 ATTTGGGGAAAGGAGTGCAG 58.071 50.000 0.00 0.00 0.00 4.41
1505 2041 5.569413 CGAATAAAGAAGACGGGGAATTTG 58.431 41.667 0.00 0.00 0.00 2.32
1562 2098 4.084328 CCGGCTTCGCTTTATTATCTGAAG 60.084 45.833 0.00 0.00 36.72 3.02
1563 2099 3.807622 CCGGCTTCGCTTTATTATCTGAA 59.192 43.478 0.00 0.00 0.00 3.02
1569 2105 2.489971 CATCCCGGCTTCGCTTTATTA 58.510 47.619 0.00 0.00 0.00 0.98
1695 2231 1.002011 GAAGGTGAAGGTCTGGGCC 60.002 63.158 0.00 0.00 0.00 5.80
1698 2234 0.326264 CCCTGAAGGTGAAGGTCTGG 59.674 60.000 0.00 0.00 0.00 3.86
1842 2379 3.499537 CAGTGCTAATGAACTGTGAAGCA 59.500 43.478 0.00 0.00 43.32 3.91
1843 2380 4.075763 CAGTGCTAATGAACTGTGAAGC 57.924 45.455 0.00 0.00 43.32 3.86
1863 2400 7.014230 AGTGGAAGCTTCTAAATAAACAAAGCA 59.986 33.333 25.05 7.23 43.65 3.91
1864 2401 7.371159 AGTGGAAGCTTCTAAATAAACAAAGC 58.629 34.615 25.05 4.70 42.00 3.51
1865 2402 9.185192 CAAGTGGAAGCTTCTAAATAAACAAAG 57.815 33.333 25.05 3.19 0.00 2.77
1979 2516 5.527582 CCCCATTTTCTATTACTTCGACAGG 59.472 44.000 0.00 0.00 0.00 4.00
2059 2597 7.809331 CACATGTTAATGTTATTGCTCAACAGT 59.191 33.333 0.00 4.76 44.94 3.55
2062 2600 7.090173 ACCACATGTTAATGTTATTGCTCAAC 58.910 34.615 0.00 0.00 44.94 3.18
2095 2633 7.504922 TTGACAAATTCTTGCGCATAATTAC 57.495 32.000 23.58 18.82 35.84 1.89
2125 2664 4.334759 CACCATGTCAATTAGCTTCAGGAG 59.665 45.833 0.00 0.00 0.00 3.69
2160 2702 7.147863 TGCTTTATTGCAACAACCTATGATGAT 60.148 33.333 0.00 0.00 40.29 2.45
2161 2703 6.152492 TGCTTTATTGCAACAACCTATGATGA 59.848 34.615 0.00 0.00 40.29 2.92
2163 2705 6.528537 TGCTTTATTGCAACAACCTATGAT 57.471 33.333 0.00 0.00 40.29 2.45
2167 2709 3.826157 AGCTGCTTTATTGCAACAACCTA 59.174 39.130 0.00 0.00 42.83 3.08
2175 2717 1.594397 CGATCGAGCTGCTTTATTGCA 59.406 47.619 10.26 0.00 41.05 4.08
2178 2720 4.024556 CCATTTCGATCGAGCTGCTTTATT 60.025 41.667 18.54 0.00 0.00 1.40
2334 2876 2.136026 AGGTGGTCTTCCAAAGAACCT 58.864 47.619 7.09 7.09 44.76 3.50
2620 3162 2.158623 TGCCAATCCAAAGTCAGACAGT 60.159 45.455 2.66 0.00 0.00 3.55
2710 3252 1.337260 CCGGTCATAGCATACTCAGGC 60.337 57.143 0.00 0.00 0.00 4.85
2728 3270 0.600557 ACTTCAGAGTCAGCTGACCG 59.399 55.000 37.09 26.93 44.08 4.79
2749 3291 4.700213 ACAACACCATAGCTGTAAACATCC 59.300 41.667 0.00 0.00 0.00 3.51
2794 3336 0.459585 TGTTGTCGATAGCCCTTCGC 60.460 55.000 0.00 0.00 36.56 4.70
2836 3378 1.203052 CAGCTTACCCATGCAACAAGG 59.797 52.381 0.00 0.00 0.00 3.61
2877 3419 6.809630 ATAGCAAGAAGAAACAGAAAGGAC 57.190 37.500 0.00 0.00 0.00 3.85
2885 3427 8.627208 ATGAAGAAGAATAGCAAGAAGAAACA 57.373 30.769 0.00 0.00 0.00 2.83
2886 3428 9.553418 GAATGAAGAAGAATAGCAAGAAGAAAC 57.447 33.333 0.00 0.00 0.00 2.78
2887 3429 8.734386 GGAATGAAGAAGAATAGCAAGAAGAAA 58.266 33.333 0.00 0.00 0.00 2.52
2890 3432 7.621428 TGGAATGAAGAAGAATAGCAAGAAG 57.379 36.000 0.00 0.00 0.00 2.85
2934 3479 7.823745 TCACAATGTGATGCTCTCTATAGTA 57.176 36.000 12.63 0.00 37.67 1.82
2945 3490 2.029649 AGCAGGTTTCACAATGTGATGC 60.030 45.455 24.17 24.17 42.40 3.91
3004 3555 3.172339 AGAGGCTGATATCTGGTGGATC 58.828 50.000 11.15 0.00 35.98 3.36
3065 3617 3.028850 CCCCTTCAGGTGATACGTAAGA 58.971 50.000 0.00 0.00 43.62 2.10
3199 3758 1.609208 AGCGTTGCCTCAGAAATTGT 58.391 45.000 0.00 0.00 0.00 2.71
3200 3759 2.712057 AAGCGTTGCCTCAGAAATTG 57.288 45.000 0.00 0.00 0.00 2.32
3201 3760 3.642705 GAAAAGCGTTGCCTCAGAAATT 58.357 40.909 0.00 0.00 0.00 1.82
3202 3761 2.350772 CGAAAAGCGTTGCCTCAGAAAT 60.351 45.455 0.00 0.00 34.64 2.17
3203 3762 1.002900 CGAAAAGCGTTGCCTCAGAAA 60.003 47.619 0.00 0.00 34.64 2.52
3204 3763 0.586319 CGAAAAGCGTTGCCTCAGAA 59.414 50.000 0.00 0.00 34.64 3.02
3205 3764 1.227999 CCGAAAAGCGTTGCCTCAGA 61.228 55.000 0.00 0.00 38.67 3.27
3206 3765 1.207593 CCGAAAAGCGTTGCCTCAG 59.792 57.895 0.00 0.00 38.67 3.35
3207 3766 1.098712 AACCGAAAAGCGTTGCCTCA 61.099 50.000 0.00 0.00 38.67 3.86
3208 3767 0.660300 CAACCGAAAAGCGTTGCCTC 60.660 55.000 0.00 0.00 38.67 4.70
3209 3768 1.358759 CAACCGAAAAGCGTTGCCT 59.641 52.632 0.00 0.00 38.67 4.75
3210 3769 0.308376 TACAACCGAAAAGCGTTGCC 59.692 50.000 0.00 0.00 38.67 4.52
3217 3776 6.930722 TCTTTAGTAACCCTACAACCGAAAAG 59.069 38.462 0.00 0.00 0.00 2.27
3223 3782 5.417754 AGCTCTTTAGTAACCCTACAACC 57.582 43.478 0.00 0.00 0.00 3.77
3241 3800 8.441312 ACTATTTCACTCTAGTACAGTAGCTC 57.559 38.462 0.00 0.00 0.00 4.09
3359 3918 1.747355 CTTTGGCATGTCATGACCCTC 59.253 52.381 22.85 10.96 37.55 4.30
3579 4138 1.299976 GATCAACGGCCTCAGGGTT 59.700 57.895 0.00 0.00 34.45 4.11
3720 4279 1.139654 CCTCCTCTTTGATGATCGGCA 59.860 52.381 0.00 0.00 0.00 5.69
3754 4313 4.821589 CTCTCCGGAAGCCGCACC 62.822 72.222 5.23 0.00 46.86 5.01
3764 4325 1.098050 CAAAATTCAGGGCTCTCCGG 58.902 55.000 0.00 0.00 41.52 5.14
3765 4326 1.740025 GACAAAATTCAGGGCTCTCCG 59.260 52.381 0.00 0.00 41.52 4.63
3771 4332 1.154035 CCGCGACAAAATTCAGGGC 60.154 57.895 8.23 0.00 0.00 5.19
3772 4333 1.129811 GTACCGCGACAAAATTCAGGG 59.870 52.381 8.23 0.00 0.00 4.45
3832 4393 0.728129 GTAAACGCAAAAGCCGCCTC 60.728 55.000 0.00 0.00 0.00 4.70
3919 4480 2.605580 GCACATGCATGCATCATCTCTG 60.606 50.000 30.07 20.45 45.39 3.35
3949 4511 9.252635 TCGTCATCTACCTAGATACATACTCTA 57.747 37.037 0.00 0.00 40.91 2.43
3951 4513 7.493320 CCTCGTCATCTACCTAGATACATACTC 59.507 44.444 0.00 0.00 40.91 2.59
3955 4517 4.944930 GCCTCGTCATCTACCTAGATACAT 59.055 45.833 0.00 0.00 40.91 2.29
4594 5161 5.339611 GTCGAAGAATTTGAATGGTTCAACG 59.660 40.000 4.72 5.00 44.26 4.10
4605 5470 2.478894 GCAGGTTCGTCGAAGAATTTGA 59.521 45.455 22.26 0.00 39.69 2.69
4629 5494 3.489513 GATGGTTCGGGGGAGGGG 61.490 72.222 0.00 0.00 0.00 4.79
4630 5495 2.270874 CTTGATGGTTCGGGGGAGGG 62.271 65.000 0.00 0.00 0.00 4.30
4631 5496 1.224592 CTTGATGGTTCGGGGGAGG 59.775 63.158 0.00 0.00 0.00 4.30
4632 5497 0.328258 AACTTGATGGTTCGGGGGAG 59.672 55.000 0.00 0.00 0.00 4.30
4633 5498 0.774908 AAACTTGATGGTTCGGGGGA 59.225 50.000 0.00 0.00 0.00 4.81
4634 5499 1.173913 GAAACTTGATGGTTCGGGGG 58.826 55.000 0.00 0.00 32.17 5.40
4699 5564 0.034896 GGGAGTATATGGCACGGGTG 59.965 60.000 0.00 0.00 0.00 4.61
4700 5565 0.105142 AGGGAGTATATGGCACGGGT 60.105 55.000 0.00 0.00 0.00 5.28


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

AutoCloner maintained by Alex Coulton.