Multiple sequence alignment - TraesCS3A01G055800

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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 TraesCS3A01G055800 chr3A 100.000 5349 0 0 1 5349 32177681 32172333 0.000000e+00 9878
1 TraesCS3A01G055800 chr3D 93.572 3625 154 31 1487 5079 23084847 23081270 0.000000e+00 5330
2 TraesCS3A01G055800 chr3D 89.856 1252 46 22 308 1489 23086247 23085007 0.000000e+00 1533
3 TraesCS3A01G055800 chr3D 88.645 273 27 3 5078 5349 23081176 23080907 3.990000e-86 329
4 TraesCS3A01G055800 chr3D 88.053 226 22 4 1 222 23086522 23086298 4.110000e-66 263
5 TraesCS3A01G055800 chr3B 93.457 3622 168 20 1686 5279 40528934 40525354 0.000000e+00 5312
6 TraesCS3A01G055800 chr3B 89.779 1761 97 30 2 1687 40530769 40529017 0.000000e+00 2178
7 TraesCS3A01G055800 chr5B 86.452 155 15 5 1 151 701457812 701457660 1.190000e-36 165
8 TraesCS3A01G055800 chr5D 85.806 155 16 5 1 151 549852856 549852704 5.550000e-35 159
9 TraesCS3A01G055800 chr4A 85.806 155 16 5 1 151 617947525 617947677 5.550000e-35 159


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 TraesCS3A01G055800 chr3A 32172333 32177681 5348 True 9878.00 9878 100.0000 1 5349 1 chr3A.!!$R1 5348
1 TraesCS3A01G055800 chr3D 23080907 23086522 5615 True 1863.75 5330 90.0315 1 5349 4 chr3D.!!$R1 5348
2 TraesCS3A01G055800 chr3B 40525354 40530769 5415 True 3745.00 5312 91.6180 2 5279 2 chr3B.!!$R1 5277

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
307 413 0.171903 CCCTAACGGACACACCTACG 59.828 60.0 0.00 0.0 36.31 3.51 F
446 596 0.331278 TTGTCTGGTAAGGGGCCATG 59.669 55.0 4.39 0.0 35.19 3.66 F
473 623 2.424956 CTGATGCTAAACTTGCCTTCCC 59.575 50.0 0.00 0.0 0.00 3.97 F
1338 1510 2.605837 TTCGACAAGGTAACACTGCA 57.394 45.0 0.00 0.0 41.41 4.41 F
1721 2163 0.105964 GGTTTCCAAAGCAACACCCC 59.894 55.0 0.00 0.0 36.47 4.95 F
1727 2169 0.178992 CAAAGCAACACCCCCTCTCA 60.179 55.0 0.00 0.0 0.00 3.27 F
2921 3375 0.250038 GCAGACAGGCACAGAGTCAA 60.250 55.0 0.00 0.0 34.80 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1438 1632 0.042431 AGACAGGATCACAGGAGGCT 59.958 55.0 0.00 0.0 0.00 4.58 R
1439 1633 0.463620 GAGACAGGATCACAGGAGGC 59.536 60.0 0.00 0.0 0.00 4.70 R
1506 1862 0.744281 GGTTCAGGTGGGTGTTGTTG 59.256 55.0 0.00 0.0 0.00 3.33 R
2921 3375 0.252197 GGCGGAACCAGTATTGTCCT 59.748 55.0 0.00 0.0 38.86 3.85 R
2989 3443 0.955919 GAGAGGTTGTTTCTGCGGGG 60.956 60.0 0.00 0.0 0.00 5.73 R
3384 3841 2.189191 ATCAGCTGCGGCCTTCTTCA 62.189 55.0 15.55 0.0 39.73 3.02 R
4458 4931 0.609662 GACAAATTGGCTGGCATGGT 59.390 50.0 4.22 1.0 0.00 3.55 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
38 39 5.997385 ACCTTGAAATAAGCTACAACAACG 58.003 37.500 0.00 0.00 0.00 4.10
41 42 7.040686 ACCTTGAAATAAGCTACAACAACGAAT 60.041 33.333 0.00 0.00 0.00 3.34
69 72 8.103948 AGGAATTTATCAGTGACAGAAAACAG 57.896 34.615 0.00 0.00 0.00 3.16
87 90 2.190578 GAACCCCATCGCTCCAGG 59.809 66.667 0.00 0.00 0.00 4.45
113 116 7.224297 AGGACTGCAAACTTTCTGAATACTTA 58.776 34.615 0.00 0.00 0.00 2.24
174 203 1.566018 CCAACTCGTTCCGGTTCTGC 61.566 60.000 0.00 0.00 0.00 4.26
202 231 6.197096 CACAAAAATGAAGCATAATACTCGGC 59.803 38.462 0.00 0.00 0.00 5.54
215 244 2.550830 ACTCGGCACTCAATTCACTT 57.449 45.000 0.00 0.00 0.00 3.16
234 283 6.220201 TCACTTCGACAACACATGATTCTAA 58.780 36.000 0.00 0.00 0.00 2.10
263 369 3.021269 CAGCACATGCATTCACTTTGT 57.979 42.857 6.64 0.00 45.16 2.83
264 370 2.729360 CAGCACATGCATTCACTTTGTG 59.271 45.455 6.64 9.47 45.16 3.33
266 372 3.021269 CACATGCATTCACTTTGTGCT 57.979 42.857 0.00 0.00 39.52 4.40
267 373 4.163458 CACATGCATTCACTTTGTGCTA 57.837 40.909 0.00 0.00 39.52 3.49
268 374 4.740268 CACATGCATTCACTTTGTGCTAT 58.260 39.130 0.00 0.00 39.52 2.97
269 375 5.882553 CACATGCATTCACTTTGTGCTATA 58.117 37.500 0.00 0.00 39.52 1.31
270 376 5.740569 CACATGCATTCACTTTGTGCTATAC 59.259 40.000 0.00 0.00 39.52 1.47
271 377 4.598406 TGCATTCACTTTGTGCTATACG 57.402 40.909 0.00 0.00 39.52 3.06
272 378 3.181511 TGCATTCACTTTGTGCTATACGC 60.182 43.478 0.00 0.00 39.52 4.42
273 379 3.063997 GCATTCACTTTGTGCTATACGCT 59.936 43.478 0.00 0.00 40.11 5.07
274 380 4.581493 CATTCACTTTGTGCTATACGCTG 58.419 43.478 0.00 0.00 40.11 5.18
275 381 3.313012 TCACTTTGTGCTATACGCTGT 57.687 42.857 0.00 0.00 40.11 4.40
276 382 3.659786 TCACTTTGTGCTATACGCTGTT 58.340 40.909 0.00 0.00 40.11 3.16
277 383 4.062293 TCACTTTGTGCTATACGCTGTTT 58.938 39.130 0.00 0.00 40.11 2.83
278 384 4.513692 TCACTTTGTGCTATACGCTGTTTT 59.486 37.500 0.00 0.00 40.11 2.43
279 385 5.697178 TCACTTTGTGCTATACGCTGTTTTA 59.303 36.000 0.00 0.00 40.11 1.52
280 386 6.203145 TCACTTTGTGCTATACGCTGTTTTAA 59.797 34.615 0.00 0.00 40.11 1.52
281 387 6.853872 CACTTTGTGCTATACGCTGTTTTAAA 59.146 34.615 0.00 0.00 40.11 1.52
282 388 7.377397 CACTTTGTGCTATACGCTGTTTTAAAA 59.623 33.333 0.00 0.00 40.11 1.52
283 389 7.589954 ACTTTGTGCTATACGCTGTTTTAAAAG 59.410 33.333 0.00 0.00 40.11 2.27
284 390 5.933790 TGTGCTATACGCTGTTTTAAAAGG 58.066 37.500 0.00 0.00 40.11 3.11
285 391 5.701750 TGTGCTATACGCTGTTTTAAAAGGA 59.298 36.000 0.00 0.00 40.11 3.36
286 392 6.205076 TGTGCTATACGCTGTTTTAAAAGGAA 59.795 34.615 0.00 0.00 40.11 3.36
287 393 7.079475 GTGCTATACGCTGTTTTAAAAGGAAA 58.921 34.615 0.00 0.00 40.11 3.13
288 394 7.060289 GTGCTATACGCTGTTTTAAAAGGAAAC 59.940 37.037 0.00 0.00 40.11 2.78
289 395 6.525628 GCTATACGCTGTTTTAAAAGGAAACC 59.474 38.462 0.00 0.00 36.43 3.27
290 396 4.049546 ACGCTGTTTTAAAAGGAAACCC 57.950 40.909 0.00 0.00 36.43 4.11
291 397 3.702548 ACGCTGTTTTAAAAGGAAACCCT 59.297 39.130 0.00 0.00 36.43 4.34
292 398 4.888823 ACGCTGTTTTAAAAGGAAACCCTA 59.111 37.500 0.00 0.00 36.43 3.53
293 399 5.360429 ACGCTGTTTTAAAAGGAAACCCTAA 59.640 36.000 0.00 0.00 36.43 2.69
294 400 5.688621 CGCTGTTTTAAAAGGAAACCCTAAC 59.311 40.000 0.00 0.00 36.43 2.34
295 401 5.688621 GCTGTTTTAAAAGGAAACCCTAACG 59.311 40.000 0.00 0.00 36.43 3.18
296 402 6.146601 TGTTTTAAAAGGAAACCCTAACGG 57.853 37.500 0.00 0.00 36.43 4.44
297 403 5.890419 TGTTTTAAAAGGAAACCCTAACGGA 59.110 36.000 0.00 0.00 36.43 4.69
298 404 6.183360 TGTTTTAAAAGGAAACCCTAACGGAC 60.183 38.462 0.00 0.00 36.43 4.79
299 405 3.581265 AAAAGGAAACCCTAACGGACA 57.419 42.857 0.00 0.00 32.65 4.02
300 406 2.556144 AAGGAAACCCTAACGGACAC 57.444 50.000 0.00 0.00 32.65 3.67
301 407 1.426751 AGGAAACCCTAACGGACACA 58.573 50.000 0.00 0.00 34.64 3.72
302 408 1.071228 AGGAAACCCTAACGGACACAC 59.929 52.381 0.00 0.00 34.64 3.82
303 409 1.516161 GAAACCCTAACGGACACACC 58.484 55.000 0.00 0.00 34.64 4.16
304 410 1.071228 GAAACCCTAACGGACACACCT 59.929 52.381 0.00 0.00 36.31 4.00
305 411 2.014010 AACCCTAACGGACACACCTA 57.986 50.000 0.00 0.00 36.31 3.08
306 412 1.260544 ACCCTAACGGACACACCTAC 58.739 55.000 0.00 0.00 36.31 3.18
307 413 0.171903 CCCTAACGGACACACCTACG 59.828 60.000 0.00 0.00 36.31 3.51
308 414 0.457337 CCTAACGGACACACCTACGC 60.457 60.000 0.00 0.00 36.31 4.42
408 514 0.755327 ACAACAAAGGCACCCTGGAC 60.755 55.000 0.00 0.00 32.13 4.02
446 596 0.331278 TTGTCTGGTAAGGGGCCATG 59.669 55.000 4.39 0.00 35.19 3.66
473 623 2.424956 CTGATGCTAAACTTGCCTTCCC 59.575 50.000 0.00 0.00 0.00 3.97
611 761 4.883026 CGTTTCCCGTGAGTCGAT 57.117 55.556 0.00 0.00 42.86 3.59
612 762 3.117589 CGTTTCCCGTGAGTCGATT 57.882 52.632 0.00 0.00 42.86 3.34
664 822 6.490381 AGAAATAGCTTTCGACTTTCCCTTTT 59.510 34.615 0.00 0.00 44.52 2.27
773 943 9.750125 CTTCACTTTTACCTTTTGCTTTTATCT 57.250 29.630 0.00 0.00 0.00 1.98
793 964 5.207110 TCTCCTTTGTTCTCTCTGTCTTG 57.793 43.478 0.00 0.00 0.00 3.02
813 984 6.428159 GTCTTGTCCTTTTCTTTATCTCTGCA 59.572 38.462 0.00 0.00 0.00 4.41
835 1006 8.354711 TGCATCTTATCTAATTCTATCGTCCT 57.645 34.615 0.00 0.00 0.00 3.85
845 1016 6.716934 AATTCTATCGTCCTGTACACTCAT 57.283 37.500 0.00 0.00 0.00 2.90
847 1018 4.135306 TCTATCGTCCTGTACACTCATCC 58.865 47.826 0.00 0.00 0.00 3.51
851 1022 2.685819 CGTCCTGTACACTCATCCCCTA 60.686 54.545 0.00 0.00 0.00 3.53
876 1047 5.352846 GGTTCTCACTTTAAGCATCTTCTCC 59.647 44.000 0.00 0.00 0.00 3.71
984 1155 4.163427 TCACTTCTTCAACCAGAGGAGAT 58.837 43.478 0.00 0.00 33.49 2.75
1068 1239 4.560739 ACCATGAGAAGTCCATGATCCTA 58.439 43.478 0.00 0.00 42.89 2.94
1213 1385 3.365666 CCAGATTGTACAAGCAGCAGTTG 60.366 47.826 24.55 12.96 0.00 3.16
1239 1411 3.397482 AGTCTGTGCAAGTTGATCTCAC 58.603 45.455 7.16 5.75 0.00 3.51
1270 1442 4.133078 CTGTTTTTCTTCTCTGCCTCTGT 58.867 43.478 0.00 0.00 0.00 3.41
1338 1510 2.605837 TTCGACAAGGTAACACTGCA 57.394 45.000 0.00 0.00 41.41 4.41
1359 1531 4.756642 GCATGTTACATAGCTCAGCCATTA 59.243 41.667 0.00 0.00 0.00 1.90
1366 1560 8.877779 GTTACATAGCTCAGCCATTATGATTAG 58.122 37.037 10.57 0.00 0.00 1.73
1394 1588 4.836125 AGCATGTGTGGTTACAAGAAAG 57.164 40.909 0.00 0.00 38.82 2.62
1401 1595 5.106078 TGTGTGGTTACAAGAAAGTTGGTTC 60.106 40.000 0.00 0.00 38.82 3.62
1427 1621 7.514125 CGTTTACAAGTTATATACACGCTCACC 60.514 40.741 0.00 0.00 0.00 4.02
1429 1623 4.160814 ACAAGTTATATACACGCTCACCCA 59.839 41.667 0.00 0.00 0.00 4.51
1435 1629 2.779755 TACACGCTCACCCAAATGAT 57.220 45.000 0.00 0.00 0.00 2.45
1436 1630 2.779755 ACACGCTCACCCAAATGATA 57.220 45.000 0.00 0.00 0.00 2.15
1437 1631 3.281727 ACACGCTCACCCAAATGATAT 57.718 42.857 0.00 0.00 0.00 1.63
1438 1632 4.415881 ACACGCTCACCCAAATGATATA 57.584 40.909 0.00 0.00 0.00 0.86
1439 1633 4.380531 ACACGCTCACCCAAATGATATAG 58.619 43.478 0.00 0.00 0.00 1.31
1440 1634 3.187227 CACGCTCACCCAAATGATATAGC 59.813 47.826 0.00 0.00 0.00 2.97
1441 1635 2.744202 CGCTCACCCAAATGATATAGCC 59.256 50.000 0.00 0.00 0.00 3.93
1442 1636 3.557898 CGCTCACCCAAATGATATAGCCT 60.558 47.826 0.00 0.00 0.00 4.58
1443 1637 4.006319 GCTCACCCAAATGATATAGCCTC 58.994 47.826 0.00 0.00 0.00 4.70
1444 1638 4.583871 CTCACCCAAATGATATAGCCTCC 58.416 47.826 0.00 0.00 0.00 4.30
1446 1640 4.042062 TCACCCAAATGATATAGCCTCCTG 59.958 45.833 0.00 0.00 0.00 3.86
1447 1641 3.983410 ACCCAAATGATATAGCCTCCTGT 59.017 43.478 0.00 0.00 0.00 4.00
1448 1642 4.202503 ACCCAAATGATATAGCCTCCTGTG 60.203 45.833 0.00 0.00 0.00 3.66
1449 1643 4.042062 CCCAAATGATATAGCCTCCTGTGA 59.958 45.833 0.00 0.00 0.00 3.58
1506 1862 3.873910 TGTAGCTAGGAAAGGTTGATGC 58.126 45.455 0.00 0.00 37.13 3.91
1681 2039 5.412594 GGCAATATAACATGCTTAGCTGCTA 59.587 40.000 5.02 5.02 42.20 3.49
1721 2163 0.105964 GGTTTCCAAAGCAACACCCC 59.894 55.000 0.00 0.00 36.47 4.95
1726 2168 0.895559 CCAAAGCAACACCCCCTCTC 60.896 60.000 0.00 0.00 0.00 3.20
1727 2169 0.178992 CAAAGCAACACCCCCTCTCA 60.179 55.000 0.00 0.00 0.00 3.27
1732 2174 1.839424 CAACACCCCCTCTCATTTCC 58.161 55.000 0.00 0.00 0.00 3.13
1741 2183 1.879380 CCTCTCATTTCCGTGTGCAAA 59.121 47.619 0.00 0.00 0.00 3.68
1791 2234 4.881273 TCCACATCATAGTTTGTGCATACC 59.119 41.667 0.00 0.00 41.47 2.73
1806 2249 3.054434 TGCATACCAGTGTATTCCTGCTT 60.054 43.478 0.00 0.00 35.46 3.91
1935 2385 5.072741 TCAACAAAGCTTTCTCTTGGCTAT 58.927 37.500 9.23 0.00 35.06 2.97
1975 2429 3.314635 CACTAGCCTCAAATTGCTCCATC 59.685 47.826 0.00 0.00 39.00 3.51
1976 2430 2.519771 AGCCTCAAATTGCTCCATCA 57.480 45.000 0.00 0.00 30.33 3.07
1977 2431 2.097825 AGCCTCAAATTGCTCCATCAC 58.902 47.619 0.00 0.00 30.33 3.06
2004 2458 5.525378 TGGTTTGTAAATGAAATGCAACACC 59.475 36.000 0.00 0.00 0.00 4.16
2007 2461 7.386299 GGTTTGTAAATGAAATGCAACACCATA 59.614 33.333 0.00 0.00 0.00 2.74
2027 2481 8.873830 CACCATATGGATTATCTCGTAAACATC 58.126 37.037 28.77 0.00 38.94 3.06
2410 2864 2.108075 TGAGAGGGCTTCCATTGAACAA 59.892 45.455 0.00 0.00 0.00 2.83
2488 2942 1.000771 GGCCTTCCCTTTCCCTGAC 60.001 63.158 0.00 0.00 0.00 3.51
2548 3002 4.846168 GGAAGAAGTCCTGGAGGTTTAT 57.154 45.455 0.00 0.00 43.98 1.40
2647 3101 3.384668 CCATCACATAGTGACATCCGAC 58.615 50.000 1.43 0.00 45.65 4.79
2779 3233 4.074970 AGCAGTACCAAATGGAAGAACTG 58.925 43.478 6.42 13.50 37.79 3.16
2921 3375 0.250038 GCAGACAGGCACAGAGTCAA 60.250 55.000 0.00 0.00 34.80 3.18
2938 3392 3.000727 GTCAAGGACAATACTGGTTCCG 58.999 50.000 0.00 0.00 32.09 4.30
2968 3422 2.031807 CGGCGGTACTATATCATCCTCG 59.968 54.545 0.00 0.00 0.00 4.63
2989 3443 3.491267 CGTCTTTCACAGTTCAACCTCTC 59.509 47.826 0.00 0.00 0.00 3.20
3013 3467 2.508526 GCAGAAACAACCTCTCATGGT 58.491 47.619 0.00 0.00 43.11 3.55
3347 3804 3.443479 AAGCCCCCAAACCCACCA 61.443 61.111 0.00 0.00 0.00 4.17
3384 3841 0.250640 CAACAGCCCTCTGAGCAAGT 60.251 55.000 0.00 0.00 42.95 3.16
3404 3861 0.179073 GAAGAAGGCCGCAGCTGATA 60.179 55.000 20.43 0.00 39.73 2.15
3511 3983 3.987745 AGAAGGTAGAGAGGCTGATCAA 58.012 45.455 0.00 0.00 0.00 2.57
3524 3996 2.165167 CTGATCAAAAGAGGGCTGCAA 58.835 47.619 0.50 0.00 0.00 4.08
3540 4012 2.198426 AACAGCACCAACCAGGGG 59.802 61.111 0.00 0.00 46.82 4.79
3547 4019 1.557610 ACCAACCAGGGGACTACCT 59.442 57.895 0.00 0.00 43.89 3.08
3577 4049 2.109128 TCAAAATACCCCTCAAGCACCA 59.891 45.455 0.00 0.00 0.00 4.17
3578 4050 3.099141 CAAAATACCCCTCAAGCACCAT 58.901 45.455 0.00 0.00 0.00 3.55
3649 4121 6.211384 TCATTAGTGAAGATGACCAGTTCTCA 59.789 38.462 0.00 0.00 0.00 3.27
3820 4292 0.677731 CGAAAGGAGGAATGGCTGCA 60.678 55.000 0.50 0.00 0.00 4.41
3838 4310 0.107993 CAGATGATCGTGGTGCCACT 60.108 55.000 17.96 1.50 44.16 4.00
3839 4311 0.107993 AGATGATCGTGGTGCCACTG 60.108 55.000 17.96 11.92 44.16 3.66
3973 4445 5.485353 TGATGGGAATAAGCCGATATCTTCT 59.515 40.000 0.34 0.00 0.00 2.85
4052 4524 2.092049 AGAGAAATGCCATCATCAGCCA 60.092 45.455 0.00 0.00 31.27 4.75
4054 4526 2.029623 GAAATGCCATCATCAGCCACT 58.970 47.619 0.00 0.00 31.27 4.00
4092 4564 0.040336 CAGCAGCTGCAAAGTGACAG 60.040 55.000 38.24 13.37 45.16 3.51
4101 4573 4.012374 CTGCAAAGTGACAGGTCCATTAT 58.988 43.478 0.00 0.00 0.00 1.28
4117 4589 3.436704 CCATTATATCGCCGCAAGACATT 59.563 43.478 0.00 0.00 43.02 2.71
4144 4616 0.183492 AAGGTTCTGAAGCTGCACCA 59.817 50.000 21.45 0.00 39.57 4.17
4167 4639 1.070289 GGTGTCTGGAACCGAGAAACT 59.930 52.381 10.81 0.00 29.59 2.66
4234 4706 1.833630 TCCCCTGATACTCAGCAAGTG 59.166 52.381 2.27 0.00 42.98 3.16
4312 4784 3.118149 ACGGTAATAAAGGTGATGTCCCC 60.118 47.826 0.00 0.00 0.00 4.81
4323 4795 0.173708 GATGTCCCCGAGTCACAGAC 59.826 60.000 0.00 0.00 0.00 3.51
4331 4803 3.591254 GAGTCACAGACGGGTGGCC 62.591 68.421 0.00 0.00 44.32 5.36
4388 4860 1.601903 CTGGTTGCAGCTTCGTTGTTA 59.398 47.619 0.00 0.00 0.00 2.41
4458 4931 3.593442 ATCTGTCACCTTTGGACCAAA 57.407 42.857 18.59 18.59 34.36 3.28
4560 5033 7.370383 TCCTGAAAAATGACTTGTTTAGATGC 58.630 34.615 0.00 0.00 0.00 3.91
4601 5074 7.208777 TGTTTTGAATAATGTGAGTGCAACAT 58.791 30.769 0.00 0.00 41.43 2.71
4694 5167 4.277476 TGAACTTCTGGGCTTCTTTGAAA 58.723 39.130 0.00 0.00 0.00 2.69
4777 5250 1.801178 GATGCTCGGCAGGCTATAAAC 59.199 52.381 4.90 0.00 43.65 2.01
4800 5273 9.705290 AAACGAAAGGCAAACAAGAAAATATAT 57.295 25.926 0.00 0.00 0.00 0.86
4801 5274 8.687824 ACGAAAGGCAAACAAGAAAATATATG 57.312 30.769 0.00 0.00 0.00 1.78
5018 5491 1.538849 GCCAAGGTTCCAGCAAAACAG 60.539 52.381 0.00 0.00 0.00 3.16
5110 5680 0.687354 ACTTCCTTGAGGATGCACGT 59.313 50.000 11.63 0.00 44.98 4.49
5122 5692 0.178068 ATGCACGTCTCCCATGGTAC 59.822 55.000 11.73 5.05 0.00 3.34
5134 5704 3.117663 TCCCATGGTACTATTCCCTTTGC 60.118 47.826 11.73 0.00 0.00 3.68
5147 5717 2.097825 CCCTTTGCCTCCTCATTTCTG 58.902 52.381 0.00 0.00 0.00 3.02
5184 5754 4.637483 TGAGAGCTTTGTTGGAAAACAG 57.363 40.909 0.00 0.00 33.73 3.16
5199 5770 4.094146 GGAAAACAGAGCAGAATGAGCTAC 59.906 45.833 0.00 0.00 43.58 3.58
5232 5803 9.517609 GACTTATACACAGATTACTTGTACAGG 57.482 37.037 2.98 2.98 0.00 4.00
5233 5804 9.032624 ACTTATACACAGATTACTTGTACAGGT 57.967 33.333 15.54 15.54 0.00 4.00
5258 5829 1.208259 GCCAAAAGAACACAAAGCCG 58.792 50.000 0.00 0.00 0.00 5.52
5273 5844 2.408835 CCGCATCCAATTGTCGCC 59.591 61.111 4.43 0.00 0.00 5.54
5282 5853 1.645034 CAATTGTCGCCGTGAGAGAT 58.355 50.000 0.00 0.00 0.00 2.75
5287 5858 2.066262 TGTCGCCGTGAGAGATTTTTC 58.934 47.619 0.00 0.00 0.00 2.29
5288 5859 2.288825 TGTCGCCGTGAGAGATTTTTCT 60.289 45.455 0.00 0.00 0.00 2.52
5303 5874 7.231317 AGAGATTTTTCTTTTGATGGTGTGCTA 59.769 33.333 0.00 0.00 0.00 3.49
5306 5877 7.532682 TTTTTCTTTTGATGGTGTGCTAAAC 57.467 32.000 0.00 0.00 0.00 2.01
5317 5888 6.266168 TGGTGTGCTAAACATTTAGATTGG 57.734 37.500 14.27 0.00 42.05 3.16
5321 5892 6.376018 GTGTGCTAAACATTTAGATTGGGGTA 59.624 38.462 14.27 0.00 42.05 3.69
5322 5893 6.948886 TGTGCTAAACATTTAGATTGGGGTAA 59.051 34.615 14.27 0.00 42.05 2.85
5323 5894 7.617723 TGTGCTAAACATTTAGATTGGGGTAAT 59.382 33.333 14.27 0.00 42.05 1.89
5324 5895 9.127277 GTGCTAAACATTTAGATTGGGGTAATA 57.873 33.333 14.27 0.00 42.05 0.98
5335 5906 6.672593 AGATTGGGGTAATAAGCTCATGAAA 58.327 36.000 0.00 0.00 32.51 2.69
5337 5908 4.532834 TGGGGTAATAAGCTCATGAAACC 58.467 43.478 0.00 0.00 0.00 3.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 39 7.050377 TCTGTCACTGATAAATTCCTCCATTC 58.950 38.462 0.00 0.00 0.00 2.67
41 42 6.373005 TTCTGTCACTGATAAATTCCTCCA 57.627 37.500 0.00 0.00 0.00 3.86
69 72 2.190578 CTGGAGCGATGGGGTTCC 59.809 66.667 0.00 0.00 37.77 3.62
87 90 5.703130 AGTATTCAGAAAGTTTGCAGTCCTC 59.297 40.000 0.00 0.00 0.00 3.71
120 123 7.969387 AGCATAATACATTGTTGTTTAAGCG 57.031 32.000 0.00 0.00 37.28 4.68
174 203 7.641411 CGAGTATTATGCTTCATTTTTGTGGAG 59.359 37.037 0.00 0.00 0.00 3.86
202 231 4.033932 TGTGTTGTCGAAGTGAATTGAGTG 59.966 41.667 0.00 0.00 0.00 3.51
215 244 5.798434 CGTAGTTAGAATCATGTGTTGTCGA 59.202 40.000 0.00 0.00 0.00 4.20
263 369 7.785772 GGTTTCCTTTTAAAACAGCGTATAGCA 60.786 37.037 0.00 0.00 40.64 3.49
264 370 6.525628 GGTTTCCTTTTAAAACAGCGTATAGC 59.474 38.462 0.00 0.00 38.16 2.97
265 371 7.025365 GGGTTTCCTTTTAAAACAGCGTATAG 58.975 38.462 0.00 0.00 38.16 1.31
266 372 6.716173 AGGGTTTCCTTTTAAAACAGCGTATA 59.284 34.615 0.00 0.00 41.56 1.47
267 373 5.537295 AGGGTTTCCTTTTAAAACAGCGTAT 59.463 36.000 0.00 0.00 41.56 3.06
268 374 4.888823 AGGGTTTCCTTTTAAAACAGCGTA 59.111 37.500 0.00 0.00 41.56 4.42
269 375 3.702548 AGGGTTTCCTTTTAAAACAGCGT 59.297 39.130 0.00 0.00 41.56 5.07
270 376 4.316205 AGGGTTTCCTTTTAAAACAGCG 57.684 40.909 0.00 0.00 41.56 5.18
271 377 5.688621 CGTTAGGGTTTCCTTTTAAAACAGC 59.311 40.000 0.00 0.00 41.56 4.40
272 378 6.039605 TCCGTTAGGGTTTCCTTTTAAAACAG 59.960 38.462 0.00 0.00 41.56 3.16
273 379 5.890419 TCCGTTAGGGTTTCCTTTTAAAACA 59.110 36.000 0.00 0.00 41.56 2.83
274 380 6.183360 TGTCCGTTAGGGTTTCCTTTTAAAAC 60.183 38.462 0.00 0.00 41.56 2.43
275 381 5.890419 TGTCCGTTAGGGTTTCCTTTTAAAA 59.110 36.000 0.00 0.00 41.56 1.52
276 382 5.299028 GTGTCCGTTAGGGTTTCCTTTTAAA 59.701 40.000 0.00 0.00 41.56 1.52
277 383 4.821260 GTGTCCGTTAGGGTTTCCTTTTAA 59.179 41.667 0.00 0.00 41.56 1.52
278 384 4.141528 TGTGTCCGTTAGGGTTTCCTTTTA 60.142 41.667 0.00 0.00 41.56 1.52
279 385 3.216800 GTGTCCGTTAGGGTTTCCTTTT 58.783 45.455 0.00 0.00 41.56 2.27
280 386 2.173143 TGTGTCCGTTAGGGTTTCCTTT 59.827 45.455 0.00 0.00 41.56 3.11
281 387 1.770061 TGTGTCCGTTAGGGTTTCCTT 59.230 47.619 0.00 0.00 41.56 3.36
282 388 1.071228 GTGTGTCCGTTAGGGTTTCCT 59.929 52.381 0.00 0.00 46.96 3.36
283 389 1.516161 GTGTGTCCGTTAGGGTTTCC 58.484 55.000 0.00 0.00 38.33 3.13
284 390 1.071228 AGGTGTGTCCGTTAGGGTTTC 59.929 52.381 0.00 0.00 41.99 2.78
285 391 1.134228 AGGTGTGTCCGTTAGGGTTT 58.866 50.000 0.00 0.00 41.99 3.27
286 392 1.620323 GTAGGTGTGTCCGTTAGGGTT 59.380 52.381 0.00 0.00 41.99 4.11
287 393 1.260544 GTAGGTGTGTCCGTTAGGGT 58.739 55.000 0.00 0.00 41.99 4.34
288 394 0.171903 CGTAGGTGTGTCCGTTAGGG 59.828 60.000 0.00 0.00 41.99 3.53
289 395 0.457337 GCGTAGGTGTGTCCGTTAGG 60.457 60.000 0.00 0.00 41.99 2.69
290 396 0.524862 AGCGTAGGTGTGTCCGTTAG 59.475 55.000 0.00 0.00 41.99 2.34
291 397 0.961019 AAGCGTAGGTGTGTCCGTTA 59.039 50.000 0.00 0.00 39.47 3.18
292 398 0.319297 GAAGCGTAGGTGTGTCCGTT 60.319 55.000 0.00 0.00 39.47 4.44
293 399 1.288127 GAAGCGTAGGTGTGTCCGT 59.712 57.895 0.00 0.00 39.47 4.69
294 400 1.445582 GGAAGCGTAGGTGTGTCCG 60.446 63.158 0.00 0.00 39.47 4.79
295 401 1.134560 CTAGGAAGCGTAGGTGTGTCC 59.865 57.143 0.00 0.00 39.47 4.02
296 402 2.089980 TCTAGGAAGCGTAGGTGTGTC 58.910 52.381 0.00 0.00 39.47 3.67
297 403 2.211250 TCTAGGAAGCGTAGGTGTGT 57.789 50.000 0.00 0.00 39.47 3.72
298 404 2.223829 CCATCTAGGAAGCGTAGGTGTG 60.224 54.545 0.00 0.00 41.22 3.82
299 405 2.032620 CCATCTAGGAAGCGTAGGTGT 58.967 52.381 0.00 0.00 41.22 4.16
300 406 1.269831 GCCATCTAGGAAGCGTAGGTG 60.270 57.143 0.00 0.00 41.22 4.00
301 407 1.041437 GCCATCTAGGAAGCGTAGGT 58.959 55.000 0.00 0.00 41.22 3.08
302 408 0.318762 GGCCATCTAGGAAGCGTAGG 59.681 60.000 0.00 0.00 41.22 3.18
303 409 1.000283 CAGGCCATCTAGGAAGCGTAG 60.000 57.143 5.01 0.00 41.22 3.51
304 410 1.040646 CAGGCCATCTAGGAAGCGTA 58.959 55.000 5.01 0.00 41.22 4.42
305 411 0.978146 ACAGGCCATCTAGGAAGCGT 60.978 55.000 5.01 0.00 41.22 5.07
306 412 0.531532 CACAGGCCATCTAGGAAGCG 60.532 60.000 5.01 0.00 41.22 4.68
307 413 0.833287 TCACAGGCCATCTAGGAAGC 59.167 55.000 5.01 0.00 41.22 3.86
308 414 3.474600 CAATCACAGGCCATCTAGGAAG 58.525 50.000 5.01 0.00 41.22 3.46
408 514 2.280389 CGGGATGAGTGATGGGCG 60.280 66.667 0.00 0.00 0.00 6.13
446 596 2.159462 GCAAGTTTAGCATCAGACCTGC 60.159 50.000 0.00 0.00 39.97 4.85
473 623 1.876156 GGAGCACAGAGGTTTTGTCTG 59.124 52.381 0.00 0.00 45.94 3.51
605 755 6.148976 GCCTCTTTTAGTAACCAAAATCGACT 59.851 38.462 0.00 0.00 0.00 4.18
607 757 5.998981 TGCCTCTTTTAGTAACCAAAATCGA 59.001 36.000 0.00 0.00 0.00 3.59
608 758 6.072673 ACTGCCTCTTTTAGTAACCAAAATCG 60.073 38.462 0.00 0.00 0.00 3.34
609 759 7.084486 CACTGCCTCTTTTAGTAACCAAAATC 58.916 38.462 0.00 0.00 0.00 2.17
610 760 6.549736 ACACTGCCTCTTTTAGTAACCAAAAT 59.450 34.615 0.00 0.00 0.00 1.82
611 761 5.889289 ACACTGCCTCTTTTAGTAACCAAAA 59.111 36.000 0.00 0.00 0.00 2.44
612 762 5.442391 ACACTGCCTCTTTTAGTAACCAAA 58.558 37.500 0.00 0.00 0.00 3.28
664 822 5.627503 GCCAAGGTACCGTCTATTTAAAGGA 60.628 44.000 6.18 0.00 0.00 3.36
770 940 5.306678 ACAAGACAGAGAGAACAAAGGAGAT 59.693 40.000 0.00 0.00 0.00 2.75
773 943 4.202264 GGACAAGACAGAGAGAACAAAGGA 60.202 45.833 0.00 0.00 0.00 3.36
793 964 7.622893 AAGATGCAGAGATAAAGAAAAGGAC 57.377 36.000 0.00 0.00 0.00 3.85
835 1006 3.012502 AGAACCTAGGGGATGAGTGTACA 59.987 47.826 14.81 0.00 36.25 2.90
845 1016 3.518303 GCTTAAAGTGAGAACCTAGGGGA 59.482 47.826 14.81 0.00 36.25 4.81
847 1018 4.553330 TGCTTAAAGTGAGAACCTAGGG 57.447 45.455 14.81 0.00 0.00 3.53
851 1022 6.120507 AGAAGATGCTTAAAGTGAGAACCT 57.879 37.500 0.00 0.00 0.00 3.50
876 1047 1.743958 CTGCCTCCATGAAGAAGCAAG 59.256 52.381 0.00 0.00 0.00 4.01
984 1155 1.340399 CCATGGTGGCCAGAGCTCTA 61.340 60.000 17.75 0.00 36.75 2.43
1189 1361 0.453390 GCTGCTTGTACAATCTGGGC 59.547 55.000 9.13 9.19 0.00 5.36
1213 1385 1.942657 TCAACTTGCACAGACTCAAGC 59.057 47.619 3.01 0.00 42.41 4.01
1221 1393 3.749609 TGATGTGAGATCAACTTGCACAG 59.250 43.478 0.00 0.00 42.02 3.66
1239 1411 6.636044 GCAGAGAAGAAAAACAGAAGTTGATG 59.364 38.462 0.00 0.00 38.17 3.07
1270 1442 0.464036 ACACTCCTCGTTGACTGCAA 59.536 50.000 0.00 0.00 0.00 4.08
1338 1510 6.772605 TCATAATGGCTGAGCTATGTAACAT 58.227 36.000 3.44 0.00 28.30 2.71
1349 1521 8.072567 GCTTAACAACTAATCATAATGGCTGAG 58.927 37.037 0.00 0.00 0.00 3.35
1359 1531 6.434028 ACCACACATGCTTAACAACTAATCAT 59.566 34.615 0.00 0.00 28.43 2.45
1366 1560 5.176407 TGTAACCACACATGCTTAACAAC 57.824 39.130 0.00 0.00 0.00 3.32
1394 1588 9.745323 GTGTATATAACTTGTAAACGAACCAAC 57.255 33.333 0.00 0.00 0.00 3.77
1401 1595 7.325180 GTGAGCGTGTATATAACTTGTAAACG 58.675 38.462 0.00 0.00 0.00 3.60
1427 1621 5.233083 TCACAGGAGGCTATATCATTTGG 57.767 43.478 0.00 0.00 0.00 3.28
1429 1623 5.789575 AGGATCACAGGAGGCTATATCATTT 59.210 40.000 0.00 0.00 0.00 2.32
1435 1629 3.141083 AGACAGGATCACAGGAGGCTATA 59.859 47.826 0.00 0.00 0.00 1.31
1436 1630 2.090831 AGACAGGATCACAGGAGGCTAT 60.091 50.000 0.00 0.00 0.00 2.97
1437 1631 1.289231 AGACAGGATCACAGGAGGCTA 59.711 52.381 0.00 0.00 0.00 3.93
1438 1632 0.042431 AGACAGGATCACAGGAGGCT 59.958 55.000 0.00 0.00 0.00 4.58
1439 1633 0.463620 GAGACAGGATCACAGGAGGC 59.536 60.000 0.00 0.00 0.00 4.70
1440 1634 1.857965 TGAGACAGGATCACAGGAGG 58.142 55.000 0.00 0.00 0.00 4.30
1441 1635 3.095332 TCTTGAGACAGGATCACAGGAG 58.905 50.000 0.00 0.00 30.68 3.69
1442 1636 2.828520 GTCTTGAGACAGGATCACAGGA 59.171 50.000 6.28 0.00 44.18 3.86
1443 1637 3.244033 GTCTTGAGACAGGATCACAGG 57.756 52.381 6.28 0.00 44.18 4.00
1506 1862 0.744281 GGTTCAGGTGGGTGTTGTTG 59.256 55.000 0.00 0.00 0.00 3.33
1721 2163 1.522668 TTGCACACGGAAATGAGAGG 58.477 50.000 0.00 0.00 0.00 3.69
1726 2168 2.988493 CTCCAATTTGCACACGGAAATG 59.012 45.455 0.00 0.00 41.77 2.32
1727 2169 2.627699 ACTCCAATTTGCACACGGAAAT 59.372 40.909 0.00 0.00 44.18 2.17
1732 2174 2.772568 TTCACTCCAATTTGCACACG 57.227 45.000 0.00 0.00 0.00 4.49
1741 2183 7.340487 GGAAATCCTGACTATTTTCACTCCAAT 59.660 37.037 0.00 0.00 31.29 3.16
1869 2312 2.827652 TCGTTAGCATTGACACACACA 58.172 42.857 0.00 0.00 0.00 3.72
1907 2357 6.701400 GCCAAGAGAAAGCTTTGTTGATTAAA 59.299 34.615 18.30 0.00 0.00 1.52
1955 2406 3.314635 GTGATGGAGCAATTTGAGGCTAG 59.685 47.826 0.00 0.00 41.22 3.42
1975 2429 5.699915 TGCATTTCATTTACAAACCATGGTG 59.300 36.000 20.60 9.74 0.00 4.17
1976 2430 5.862845 TGCATTTCATTTACAAACCATGGT 58.137 33.333 13.00 13.00 0.00 3.55
1977 2431 6.204301 TGTTGCATTTCATTTACAAACCATGG 59.796 34.615 11.19 11.19 0.00 3.66
2007 2461 8.260818 CCATAGGATGTTTACGAGATAATCCAT 58.739 37.037 11.70 0.00 0.00 3.41
2410 2864 2.769621 TCCTCATGCCGGAGCCAT 60.770 61.111 5.05 0.00 38.69 4.40
2488 2942 2.848887 GTCGATGTCACTCATGTCTTCG 59.151 50.000 0.00 4.34 40.43 3.79
2647 3101 1.674441 TCATACAGGTAGGCGAACTCG 59.326 52.381 0.00 0.00 43.27 4.18
2921 3375 0.252197 GGCGGAACCAGTATTGTCCT 59.748 55.000 0.00 0.00 38.86 3.85
2968 3422 3.810386 GGAGAGGTTGAACTGTGAAAGAC 59.190 47.826 0.00 0.00 0.00 3.01
2989 3443 0.955919 GAGAGGTTGTTTCTGCGGGG 60.956 60.000 0.00 0.00 0.00 5.73
3013 3467 5.815233 TTATTTGGCCAGGTGAATTTTGA 57.185 34.783 5.11 0.00 0.00 2.69
3347 3804 5.528043 TGTTGTGCATATGGAGTTTTGTT 57.472 34.783 4.56 0.00 0.00 2.83
3384 3841 2.189191 ATCAGCTGCGGCCTTCTTCA 62.189 55.000 15.55 0.00 39.73 3.02
3433 3890 2.715046 TGAATGTCTCTGAATGCCACC 58.285 47.619 0.00 0.00 0.00 4.61
3524 3996 2.776526 TCCCCTGGTTGGTGCTGT 60.777 61.111 0.00 0.00 0.00 4.40
3547 4019 3.265489 AGGGGTATTTTGAGAACCTGGA 58.735 45.455 0.00 0.00 33.59 3.86
3624 4096 6.211384 TGAGAACTGGTCATCTTCACTAATGA 59.789 38.462 0.00 0.00 0.00 2.57
3649 4121 5.320277 AGCATTTTTCTGAGCCTCTTAGTT 58.680 37.500 0.00 0.00 0.00 2.24
3818 4290 1.450134 TGGCACCACGATCATCTGC 60.450 57.895 0.00 0.00 0.00 4.26
3820 4292 4.941609 GTGGCACCACGATCATCT 57.058 55.556 6.29 0.00 37.19 2.90
3838 4310 2.083774 GATGGTGATTTTCGTGGCTCA 58.916 47.619 0.00 0.00 0.00 4.26
3839 4311 1.401905 GGATGGTGATTTTCGTGGCTC 59.598 52.381 0.00 0.00 0.00 4.70
3973 4445 7.609918 TCATTTGTTTGCTTGCTACTATCCTTA 59.390 33.333 0.00 0.00 0.00 2.69
4052 4524 3.323115 TGTTGTCTCATGCTCTTCTCAGT 59.677 43.478 0.00 0.00 0.00 3.41
4054 4526 3.863780 GCTGTTGTCTCATGCTCTTCTCA 60.864 47.826 0.00 0.00 0.00 3.27
4092 4564 1.732259 CTTGCGGCGATATAATGGACC 59.268 52.381 12.98 0.00 0.00 4.46
4101 4573 0.813610 CCCAATGTCTTGCGGCGATA 60.814 55.000 12.98 0.00 0.00 2.92
4117 4589 1.819305 GCTTCAGAACCTTGCTTCCCA 60.819 52.381 0.00 0.00 0.00 4.37
4167 4639 1.699634 CTTGTCCTGGAGTTCTCCCAA 59.300 52.381 15.20 10.89 32.53 4.12
4234 4706 9.636965 GATTTGCTGTTATTTCTGTTGTTTTTC 57.363 29.630 0.00 0.00 0.00 2.29
4291 4763 3.473625 GGGGACATCACCTTTATTACCG 58.526 50.000 0.00 0.00 36.20 4.02
4312 4784 2.258591 CCACCCGTCTGTGACTCG 59.741 66.667 0.00 0.00 38.55 4.18
4331 4803 3.666274 TGTGTTATAGGTTGGTTGACGG 58.334 45.455 0.00 0.00 0.00 4.79
4388 4860 5.846528 ACTAGGGAGGTAGATAAGACGAT 57.153 43.478 0.00 0.00 0.00 3.73
4418 4890 8.019656 ACAGATAATGGACCTTATTAACGAGT 57.980 34.615 0.00 0.00 0.00 4.18
4458 4931 0.609662 GACAAATTGGCTGGCATGGT 59.390 50.000 4.22 1.00 0.00 3.55
4694 5167 3.584848 GGCCTATCCAGAACAGGTATGAT 59.415 47.826 0.00 0.00 34.01 2.45
4743 5216 2.860735 CGAGCATCTGTGTAACTTAGCC 59.139 50.000 0.00 0.00 38.04 3.93
4777 5250 7.973388 TCCATATATTTTCTTGTTTGCCTTTCG 59.027 33.333 0.00 0.00 0.00 3.46
4808 5281 8.497910 AATCATACTCCTACCAGTGTATCAAT 57.502 34.615 0.00 0.00 0.00 2.57
4809 5282 7.914427 AATCATACTCCTACCAGTGTATCAA 57.086 36.000 0.00 0.00 0.00 2.57
4810 5283 7.914427 AAATCATACTCCTACCAGTGTATCA 57.086 36.000 0.00 0.00 0.00 2.15
4818 5291 8.491045 TGTGATCATAAATCATACTCCTACCA 57.509 34.615 0.00 0.00 0.00 3.25
4826 5299 9.740239 ATTTGCAACTGTGATCATAAATCATAC 57.260 29.630 0.00 0.00 0.00 2.39
4827 5300 9.955208 GATTTGCAACTGTGATCATAAATCATA 57.045 29.630 0.00 0.00 34.88 2.15
4900 5373 7.125811 ACATATATACCCACACTTGACTTGACT 59.874 37.037 0.00 0.00 0.00 3.41
4901 5374 7.272978 ACATATATACCCACACTTGACTTGAC 58.727 38.462 0.00 0.00 0.00 3.18
4902 5375 7.432148 ACATATATACCCACACTTGACTTGA 57.568 36.000 0.00 0.00 0.00 3.02
4903 5376 9.778741 ATAACATATATACCCACACTTGACTTG 57.221 33.333 0.00 0.00 0.00 3.16
4904 5377 9.998106 GATAACATATATACCCACACTTGACTT 57.002 33.333 0.00 0.00 0.00 3.01
4945 5418 1.467734 GTGTTCATTCCTGCTCTGCTG 59.532 52.381 0.00 0.00 0.00 4.41
5110 5680 4.295905 AAGGGAATAGTACCATGGGAGA 57.704 45.455 18.09 0.00 0.00 3.71
5122 5692 3.872459 ATGAGGAGGCAAAGGGAATAG 57.128 47.619 0.00 0.00 0.00 1.73
5134 5704 2.795231 TGCTTCCAGAAATGAGGAGG 57.205 50.000 0.00 0.00 34.91 4.30
5147 5717 3.366781 GCTCTCAAGTTGGATTTGCTTCC 60.367 47.826 2.34 0.00 36.24 3.46
5160 5730 4.462483 TGTTTTCCAACAAAGCTCTCAAGT 59.538 37.500 0.00 0.00 40.10 3.16
5162 5732 4.704540 TCTGTTTTCCAACAAAGCTCTCAA 59.295 37.500 0.00 0.00 42.53 3.02
5164 5734 4.853268 CTCTGTTTTCCAACAAAGCTCTC 58.147 43.478 0.00 0.00 42.53 3.20
5177 5747 4.094146 GGTAGCTCATTCTGCTCTGTTTTC 59.906 45.833 0.00 0.00 41.46 2.29
5184 5754 2.935201 CAAGTGGTAGCTCATTCTGCTC 59.065 50.000 0.00 0.00 41.46 4.26
5199 5770 7.556844 AGTAATCTGTGTATAAGTCCAAGTGG 58.443 38.462 0.00 0.00 0.00 4.00
5232 5803 2.297701 TGTGTTCTTTTGGCAGGAGAC 58.702 47.619 1.89 0.00 0.00 3.36
5233 5804 2.727123 TGTGTTCTTTTGGCAGGAGA 57.273 45.000 0.00 0.00 0.00 3.71
5241 5812 1.919918 TGCGGCTTTGTGTTCTTTTG 58.080 45.000 0.00 0.00 0.00 2.44
5258 5829 1.226379 CACGGCGACAATTGGATGC 60.226 57.895 16.62 10.06 0.00 3.91
5273 5844 6.580041 CACCATCAAAAGAAAAATCTCTCACG 59.420 38.462 0.00 0.00 0.00 4.35
5282 5853 7.099764 TGTTTAGCACACCATCAAAAGAAAAA 58.900 30.769 0.00 0.00 0.00 1.94
5287 5858 8.081633 TCTAAATGTTTAGCACACCATCAAAAG 58.918 33.333 7.49 0.00 38.61 2.27
5288 5859 7.946207 TCTAAATGTTTAGCACACCATCAAAA 58.054 30.769 7.49 0.00 38.61 2.44
5303 5874 8.838649 AGCTTATTACCCCAATCTAAATGTTT 57.161 30.769 0.00 0.00 0.00 2.83
5306 5877 8.517878 CATGAGCTTATTACCCCAATCTAAATG 58.482 37.037 0.00 0.00 0.00 2.32
5317 5888 3.564225 CCGGTTTCATGAGCTTATTACCC 59.436 47.826 0.00 0.00 0.00 3.69
5321 5892 2.945668 GCTCCGGTTTCATGAGCTTATT 59.054 45.455 0.00 0.00 46.19 1.40
5322 5893 2.565841 GCTCCGGTTTCATGAGCTTAT 58.434 47.619 0.00 0.00 46.19 1.73
5323 5894 2.024176 GCTCCGGTTTCATGAGCTTA 57.976 50.000 0.00 0.00 46.19 3.09
5324 5895 2.859992 GCTCCGGTTTCATGAGCTT 58.140 52.632 0.00 0.00 46.19 3.74


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

AutoCloner maintained by Alex Coulton.