Multiple sequence alignment - TraesCS7A01G315300

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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 TraesCS7A01G315300 chr7A 100.000 2297 0 0 1 2297 449640154 449642450 0.000000e+00 4242
1 TraesCS7A01G315300 chr7B 90.307 1661 85 29 1 1621 396043689 396045313 0.000000e+00 2106
2 TraesCS7A01G315300 chr7B 86.626 329 33 9 1974 2297 396045343 396045665 1.010000e-93 353
3 TraesCS7A01G315300 chr7B 79.524 210 39 4 1048 1257 399260429 399260634 1.840000e-31 147
4 TraesCS7A01G315300 chr7D 89.058 1115 46 27 529 1621 396112970 396114030 0.000000e+00 1314
5 TraesCS7A01G315300 chr7D 92.623 488 26 5 1 485 396103753 396104233 0.000000e+00 693
6 TraesCS7A01G315300 chr7D 92.605 311 23 0 1665 1975 539381769 539382079 4.500000e-122 448
7 TraesCS7A01G315300 chr7D 88.037 326 33 4 1974 2297 396114060 396114381 4.630000e-102 381
8 TraesCS7A01G315300 chr7D 96.610 59 2 0 480 538 396104798 396104856 5.220000e-17 99
9 TraesCS7A01G315300 chr6A 93.631 314 20 0 1667 1980 588602431 588602118 9.610000e-129 470
10 TraesCS7A01G315300 chr6A 92.675 314 22 1 1665 1977 235919608 235919295 3.480000e-123 451
11 TraesCS7A01G315300 chr6A 92.114 317 23 1 1666 1980 13077462 13077778 1.620000e-121 446
12 TraesCS7A01G315300 chr5A 92.593 324 22 2 1657 1979 549204654 549204332 4.470000e-127 464
13 TraesCS7A01G315300 chr1D 92.926 311 22 0 1669 1979 103031927 103032237 9.680000e-124 453
14 TraesCS7A01G315300 chr6D 92.903 310 22 0 1666 1975 28048591 28048900 3.480000e-123 451
15 TraesCS7A01G315300 chr6D 92.652 313 23 0 1665 1977 179949784 179949472 3.480000e-123 451
16 TraesCS7A01G315300 chr2D 92.381 315 22 2 1665 1977 213696991 213697305 4.500000e-122 448


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 TraesCS7A01G315300 chr7A 449640154 449642450 2296 False 4242.0 4242 100.0000 1 2297 1 chr7A.!!$F1 2296
1 TraesCS7A01G315300 chr7B 396043689 396045665 1976 False 1229.5 2106 88.4665 1 2297 2 chr7B.!!$F2 2296
2 TraesCS7A01G315300 chr7D 396112970 396114381 1411 False 847.5 1314 88.5475 529 2297 2 chr7D.!!$F3 1768
3 TraesCS7A01G315300 chr7D 396103753 396104856 1103 False 396.0 693 94.6165 1 538 2 chr7D.!!$F2 537

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
559 1156 0.179018 ACCTGCTTCACCAACCTCAC 60.179 55.0 0.0 0.0 0.0 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1998 2620 0.098905 TCTTCTGAATCGAGTCGCGG 59.901 55.0 7.92 0.0 41.33 6.46 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
163 181 4.036804 TGGCCAATTCGCACACGC 62.037 61.111 0.61 0.00 39.84 5.34
174 192 2.030562 CACACGCCCTTCGGTCTT 59.969 61.111 0.00 0.00 43.86 3.01
248 266 3.944015 CTGCCATTCCCAAAACACAAAAA 59.056 39.130 0.00 0.00 0.00 1.94
283 301 9.566624 CATGTCATTCGAATTTTACAAACAAAC 57.433 29.630 8.21 0.00 0.00 2.93
328 346 6.319152 TCGAATTTTACAGAAACTGGAAACCA 59.681 34.615 8.42 0.00 43.06 3.67
337 362 1.119684 ACTGGAAACCAAAGGGCAAC 58.880 50.000 0.00 0.00 37.90 4.17
355 380 2.926838 CAACCGAACCCAAAACACAAAG 59.073 45.455 0.00 0.00 0.00 2.77
357 382 2.826725 ACCGAACCCAAAACACAAAGAA 59.173 40.909 0.00 0.00 0.00 2.52
437 464 2.415010 CCTCAGATCACCGGCTCG 59.585 66.667 0.00 0.00 0.00 5.03
438 465 2.418910 CCTCAGATCACCGGCTCGT 61.419 63.158 0.00 0.00 0.00 4.18
439 466 1.064946 CTCAGATCACCGGCTCGTC 59.935 63.158 0.00 0.00 0.00 4.20
545 1142 2.125350 CTCCAAGCCTCGACCTGC 60.125 66.667 0.00 0.00 0.00 4.85
559 1156 0.179018 ACCTGCTTCACCAACCTCAC 60.179 55.000 0.00 0.00 0.00 3.51
670 1267 3.576078 AGCACGGGGATTGATTTGATA 57.424 42.857 0.00 0.00 0.00 2.15
701 1303 2.787601 CATGCAATGCAGATACCCAC 57.212 50.000 14.98 0.00 43.65 4.61
703 1305 1.462616 TGCAATGCAGATACCCACAC 58.537 50.000 2.72 0.00 33.32 3.82
707 1309 3.251729 GCAATGCAGATACCCACACATAG 59.748 47.826 0.00 0.00 0.00 2.23
711 1313 6.881067 ATGCAGATACCCACACATAGATAT 57.119 37.500 0.00 0.00 0.00 1.63
719 1321 4.101585 ACCCACACATAGATATGGACAGTG 59.898 45.833 4.93 7.19 38.00 3.66
761 1368 3.068024 CCAGCTTAGCAACAAAGAAACCA 59.932 43.478 7.07 0.00 0.00 3.67
771 1378 3.161866 ACAAAGAAACCACCACACAACT 58.838 40.909 0.00 0.00 0.00 3.16
772 1379 3.576550 ACAAAGAAACCACCACACAACTT 59.423 39.130 0.00 0.00 0.00 2.66
813 1420 1.141449 ACGCTCAGCTCAGATCAGC 59.859 57.895 0.00 0.00 39.99 4.26
816 1423 1.067749 CTCAGCTCAGATCAGCCCG 59.932 63.158 1.57 0.00 40.65 6.13
830 1437 1.131638 AGCCCGCCTCTTGATGATTA 58.868 50.000 0.00 0.00 0.00 1.75
836 1443 2.760374 GCCTCTTGATGATTACCTCCG 58.240 52.381 0.00 0.00 0.00 4.63
897 1504 2.091098 TAAATACGGGGCTAGCCTCA 57.909 50.000 32.71 15.62 36.01 3.86
919 1526 1.444933 TCCCACCACTCTTCACCATT 58.555 50.000 0.00 0.00 0.00 3.16
920 1527 1.780309 TCCCACCACTCTTCACCATTT 59.220 47.619 0.00 0.00 0.00 2.32
933 1540 4.543590 TCACCATTTCTCCAGTCTTCTC 57.456 45.455 0.00 0.00 0.00 2.87
961 1574 2.226437 CCGAAACAACATACAAGCAGCT 59.774 45.455 0.00 0.00 0.00 4.24
994 1607 1.301293 GGAAGCTCAGTGGGAAGGG 59.699 63.158 0.00 0.00 0.00 3.95
1276 1889 2.817056 GGCTGCTCATCCTCCTCCC 61.817 68.421 0.00 0.00 0.00 4.30
1278 1891 1.383664 CTGCTCATCCTCCTCCCCA 60.384 63.158 0.00 0.00 0.00 4.96
1281 1894 1.003442 CTCATCCTCCTCCCCACCA 59.997 63.158 0.00 0.00 0.00 4.17
1359 1978 3.771160 GGCCGGTCCAGACATCGT 61.771 66.667 1.90 0.00 34.01 3.73
1372 1991 4.366586 CAGACATCGTTATGATCACTGCT 58.633 43.478 0.00 0.00 34.13 4.24
1373 1992 4.208666 CAGACATCGTTATGATCACTGCTG 59.791 45.833 0.00 0.00 34.13 4.41
1374 1993 2.868583 ACATCGTTATGATCACTGCTGC 59.131 45.455 0.00 0.00 34.13 5.25
1375 1994 2.967599 TCGTTATGATCACTGCTGCT 57.032 45.000 0.00 0.00 0.00 4.24
1382 2001 6.642540 CGTTATGATCACTGCTGCTTAGATTA 59.357 38.462 0.00 0.00 0.00 1.75
1404 2023 9.355215 GATTACTACATTAGGACGGATACATTG 57.645 37.037 0.00 0.00 0.00 2.82
1438 2057 6.601217 GCTGAGGATTAATTCTTCTTGGAACT 59.399 38.462 0.00 0.00 31.86 3.01
1488 2107 3.577848 TGCATTTGCTTGAACCCTGTAAT 59.422 39.130 3.94 0.00 42.66 1.89
1489 2108 4.176271 GCATTTGCTTGAACCCTGTAATC 58.824 43.478 0.00 0.00 38.21 1.75
1588 2208 4.024387 TCGATGTTGGTTGCTTACAGTTTC 60.024 41.667 0.00 0.00 0.00 2.78
1621 2243 5.847111 ACCAAAGGTTTTTCTGTTAGGAC 57.153 39.130 0.00 0.00 27.29 3.85
1623 2245 5.593095 ACCAAAGGTTTTTCTGTTAGGACTC 59.407 40.000 0.00 0.00 27.29 3.36
1624 2246 5.828328 CCAAAGGTTTTTCTGTTAGGACTCT 59.172 40.000 0.00 0.00 0.00 3.24
1625 2247 6.996282 CCAAAGGTTTTTCTGTTAGGACTCTA 59.004 38.462 0.00 0.00 0.00 2.43
1626 2248 7.041303 CCAAAGGTTTTTCTGTTAGGACTCTAC 60.041 40.741 0.00 0.00 0.00 2.59
1627 2249 6.742559 AGGTTTTTCTGTTAGGACTCTACA 57.257 37.500 0.00 0.00 0.00 2.74
1628 2250 6.760291 AGGTTTTTCTGTTAGGACTCTACAG 58.240 40.000 0.00 0.00 0.00 2.74
1629 2251 6.326843 AGGTTTTTCTGTTAGGACTCTACAGT 59.673 38.462 11.74 0.00 34.57 3.55
1649 2271 3.633235 GTCTAGAGACGACGATACCGTA 58.367 50.000 0.00 0.00 41.32 4.02
1653 2275 8.710277 GTCTAGAGACGACGATACCGTAGGAT 62.710 50.000 0.00 0.00 43.10 3.24
1670 2292 6.157211 CGTAGGATACAAATACTGGCTAAGG 58.843 44.000 0.00 0.00 43.24 2.69
1671 2293 4.974399 AGGATACAAATACTGGCTAAGGC 58.026 43.478 0.00 0.00 41.41 4.35
1681 2303 4.423231 GCTAAGGCCTGCTTTGGT 57.577 55.556 5.69 0.00 0.00 3.67
1682 2304 2.658548 GCTAAGGCCTGCTTTGGTT 58.341 52.632 5.69 0.00 0.00 3.67
1683 2305 0.528017 GCTAAGGCCTGCTTTGGTTC 59.472 55.000 5.69 0.00 0.00 3.62
1684 2306 1.909700 CTAAGGCCTGCTTTGGTTCA 58.090 50.000 5.69 0.00 0.00 3.18
1685 2307 2.450476 CTAAGGCCTGCTTTGGTTCAT 58.550 47.619 5.69 0.00 0.00 2.57
1686 2308 2.603075 AAGGCCTGCTTTGGTTCATA 57.397 45.000 5.69 0.00 0.00 2.15
1687 2309 2.134789 AGGCCTGCTTTGGTTCATAG 57.865 50.000 3.11 0.00 0.00 2.23
1688 2310 1.106285 GGCCTGCTTTGGTTCATAGG 58.894 55.000 0.00 0.00 0.00 2.57
1689 2311 1.106285 GCCTGCTTTGGTTCATAGGG 58.894 55.000 0.00 0.00 0.00 3.53
1690 2312 1.616994 GCCTGCTTTGGTTCATAGGGT 60.617 52.381 0.00 0.00 0.00 4.34
1691 2313 2.356741 GCCTGCTTTGGTTCATAGGGTA 60.357 50.000 0.00 0.00 0.00 3.69
1692 2314 3.876156 GCCTGCTTTGGTTCATAGGGTAA 60.876 47.826 0.00 0.00 0.00 2.85
1693 2315 4.340617 CCTGCTTTGGTTCATAGGGTAAA 58.659 43.478 0.00 0.00 0.00 2.01
1694 2316 4.770010 CCTGCTTTGGTTCATAGGGTAAAA 59.230 41.667 0.00 0.00 0.00 1.52
1695 2317 5.245075 CCTGCTTTGGTTCATAGGGTAAAAA 59.755 40.000 0.00 0.00 0.00 1.94
1728 2350 9.844257 AGGAATAAGAAAGTCATAGGAAATGAG 57.156 33.333 0.00 0.00 0.00 2.90
1729 2351 9.838339 GGAATAAGAAAGTCATAGGAAATGAGA 57.162 33.333 0.00 0.00 0.00 3.27
1733 2355 8.729805 AAGAAAGTCATAGGAAATGAGATGAC 57.270 34.615 5.86 5.86 45.57 3.06
1734 2356 7.855375 AGAAAGTCATAGGAAATGAGATGACA 58.145 34.615 14.37 0.00 46.94 3.58
1735 2357 8.492782 AGAAAGTCATAGGAAATGAGATGACAT 58.507 33.333 14.37 1.96 46.94 3.06
1736 2358 8.447924 AAAGTCATAGGAAATGAGATGACATG 57.552 34.615 14.37 0.00 46.94 3.21
1737 2359 7.134362 AGTCATAGGAAATGAGATGACATGT 57.866 36.000 14.37 0.00 46.94 3.21
1738 2360 8.255111 AGTCATAGGAAATGAGATGACATGTA 57.745 34.615 14.37 0.00 46.94 2.29
1739 2361 8.878211 AGTCATAGGAAATGAGATGACATGTAT 58.122 33.333 14.37 0.00 46.94 2.29
1740 2362 9.149225 GTCATAGGAAATGAGATGACATGTATC 57.851 37.037 0.00 2.87 44.91 2.24
1741 2363 9.097946 TCATAGGAAATGAGATGACATGTATCT 57.902 33.333 14.05 14.05 37.59 1.98
1742 2364 9.368674 CATAGGAAATGAGATGACATGTATCTC 57.631 37.037 24.04 24.04 46.82 2.75
1765 2387 9.883293 TCTCAAATCTTATGAGTAGGAATAGGA 57.117 33.333 3.72 0.00 43.77 2.94
1772 2394 9.937876 TCTTATGAGTAGGAATAGGAAAGAAGA 57.062 33.333 0.00 0.00 0.00 2.87
1775 2397 6.821388 TGAGTAGGAATAGGAAAGAAGATGC 58.179 40.000 0.00 0.00 0.00 3.91
1776 2398 6.181206 AGTAGGAATAGGAAAGAAGATGCC 57.819 41.667 0.00 0.00 0.00 4.40
1777 2399 4.445557 AGGAATAGGAAAGAAGATGCCC 57.554 45.455 0.00 0.00 0.00 5.36
1778 2400 4.050757 AGGAATAGGAAAGAAGATGCCCT 58.949 43.478 0.00 0.00 0.00 5.19
1779 2401 4.480166 AGGAATAGGAAAGAAGATGCCCTT 59.520 41.667 0.00 0.00 37.93 3.95
1780 2402 5.043806 AGGAATAGGAAAGAAGATGCCCTTT 60.044 40.000 0.00 0.00 34.68 3.11
1781 2403 6.160459 AGGAATAGGAAAGAAGATGCCCTTTA 59.840 38.462 0.00 0.00 34.68 1.85
1782 2404 6.833933 GGAATAGGAAAGAAGATGCCCTTTAA 59.166 38.462 0.00 0.00 34.68 1.52
1783 2405 7.507277 GGAATAGGAAAGAAGATGCCCTTTAAT 59.493 37.037 0.00 0.00 34.68 1.40
1784 2406 8.844865 AATAGGAAAGAAGATGCCCTTTAATT 57.155 30.769 0.00 0.00 34.68 1.40
1785 2407 6.782082 AGGAAAGAAGATGCCCTTTAATTC 57.218 37.500 0.00 0.00 34.68 2.17
1786 2408 6.256053 AGGAAAGAAGATGCCCTTTAATTCA 58.744 36.000 0.00 0.00 34.68 2.57
1787 2409 6.153510 AGGAAAGAAGATGCCCTTTAATTCAC 59.846 38.462 0.00 0.00 34.68 3.18
1788 2410 5.567138 AAGAAGATGCCCTTTAATTCACG 57.433 39.130 0.00 0.00 34.68 4.35
1789 2411 4.589908 AGAAGATGCCCTTTAATTCACGT 58.410 39.130 0.00 0.00 34.68 4.49
1790 2412 4.636206 AGAAGATGCCCTTTAATTCACGTC 59.364 41.667 0.00 0.00 34.68 4.34
1791 2413 3.950397 AGATGCCCTTTAATTCACGTCA 58.050 40.909 0.00 0.00 0.00 4.35
1792 2414 4.526970 AGATGCCCTTTAATTCACGTCAT 58.473 39.130 0.00 0.00 0.00 3.06
1793 2415 5.680619 AGATGCCCTTTAATTCACGTCATA 58.319 37.500 0.00 0.00 0.00 2.15
1794 2416 6.299141 AGATGCCCTTTAATTCACGTCATAT 58.701 36.000 0.00 0.00 0.00 1.78
1795 2417 5.749596 TGCCCTTTAATTCACGTCATATG 57.250 39.130 0.00 0.00 0.00 1.78
1796 2418 5.189928 TGCCCTTTAATTCACGTCATATGT 58.810 37.500 1.90 0.00 0.00 2.29
1797 2419 5.650266 TGCCCTTTAATTCACGTCATATGTT 59.350 36.000 1.90 0.00 0.00 2.71
1798 2420 6.151985 TGCCCTTTAATTCACGTCATATGTTT 59.848 34.615 1.90 0.00 0.00 2.83
1799 2421 7.033185 GCCCTTTAATTCACGTCATATGTTTT 58.967 34.615 1.90 0.00 0.00 2.43
1800 2422 7.544217 GCCCTTTAATTCACGTCATATGTTTTT 59.456 33.333 1.90 0.00 0.00 1.94
1823 2445 8.593945 TTTTTCCATTGAATCTAGGCTAATGT 57.406 30.769 0.00 0.00 0.00 2.71
1824 2446 8.593945 TTTTCCATTGAATCTAGGCTAATGTT 57.406 30.769 0.00 0.00 0.00 2.71
1825 2447 8.593945 TTTCCATTGAATCTAGGCTAATGTTT 57.406 30.769 0.00 0.00 0.00 2.83
1826 2448 9.693739 TTTCCATTGAATCTAGGCTAATGTTTA 57.306 29.630 0.00 0.00 0.00 2.01
1827 2449 9.866655 TTCCATTGAATCTAGGCTAATGTTTAT 57.133 29.630 0.00 0.00 0.00 1.40
1828 2450 9.866655 TCCATTGAATCTAGGCTAATGTTTATT 57.133 29.630 0.00 0.00 0.00 1.40
1833 2455 9.920946 TGAATCTAGGCTAATGTTTATTTTCCT 57.079 29.630 0.00 0.00 33.86 3.36
1856 2478 9.843704 TCCTATGAAATATGGAGGATAAGAAGA 57.156 33.333 0.00 0.00 31.25 2.87
1898 2520 7.670364 AGGATTTCATTCCTACAAACAAAAGG 58.330 34.615 0.00 0.00 44.50 3.11
1899 2521 6.873605 GGATTTCATTCCTACAAACAAAAGGG 59.126 38.462 0.00 0.00 32.68 3.95
1900 2522 6.800072 TTTCATTCCTACAAACAAAAGGGT 57.200 33.333 0.00 0.00 0.00 4.34
1901 2523 6.800072 TTCATTCCTACAAACAAAAGGGTT 57.200 33.333 0.00 0.00 0.00 4.11
1902 2524 6.399639 TCATTCCTACAAACAAAAGGGTTC 57.600 37.500 0.00 0.00 0.00 3.62
1903 2525 6.133356 TCATTCCTACAAACAAAAGGGTTCT 58.867 36.000 0.00 0.00 0.00 3.01
1904 2526 7.291566 TCATTCCTACAAACAAAAGGGTTCTA 58.708 34.615 0.00 0.00 0.00 2.10
1905 2527 7.780745 TCATTCCTACAAACAAAAGGGTTCTAA 59.219 33.333 0.00 0.00 0.00 2.10
1906 2528 7.957992 TTCCTACAAACAAAAGGGTTCTAAA 57.042 32.000 0.00 0.00 0.00 1.85
1907 2529 7.576861 TCCTACAAACAAAAGGGTTCTAAAG 57.423 36.000 0.00 0.00 0.00 1.85
1908 2530 6.548251 TCCTACAAACAAAAGGGTTCTAAAGG 59.452 38.462 0.00 0.00 0.00 3.11
1909 2531 6.548251 CCTACAAACAAAAGGGTTCTAAAGGA 59.452 38.462 0.00 0.00 0.00 3.36
1910 2532 6.860790 ACAAACAAAAGGGTTCTAAAGGAA 57.139 33.333 0.00 0.00 0.00 3.36
1911 2533 7.432148 ACAAACAAAAGGGTTCTAAAGGAAT 57.568 32.000 0.00 0.00 36.24 3.01
1912 2534 7.857456 ACAAACAAAAGGGTTCTAAAGGAATT 58.143 30.769 0.00 0.00 36.24 2.17
1913 2535 8.325787 ACAAACAAAAGGGTTCTAAAGGAATTT 58.674 29.630 0.00 0.00 36.24 1.82
1914 2536 9.173021 CAAACAAAAGGGTTCTAAAGGAATTTT 57.827 29.630 0.00 0.00 36.24 1.82
1915 2537 9.747898 AAACAAAAGGGTTCTAAAGGAATTTTT 57.252 25.926 0.00 0.00 36.24 1.94
1951 2573 9.621239 ATCCTATCCTATGAAATTCCTACAAGA 57.379 33.333 0.00 0.00 0.00 3.02
1952 2574 9.621239 TCCTATCCTATGAAATTCCTACAAGAT 57.379 33.333 0.00 0.00 0.00 2.40
1956 2578 8.337118 TCCTATGAAATTCCTACAAGATTCCT 57.663 34.615 0.00 0.00 0.00 3.36
1957 2579 8.432805 TCCTATGAAATTCCTACAAGATTCCTC 58.567 37.037 0.00 0.00 0.00 3.71
1958 2580 8.435982 CCTATGAAATTCCTACAAGATTCCTCT 58.564 37.037 0.00 0.00 0.00 3.69
1962 2584 9.449719 TGAAATTCCTACAAGATTCCTCTAAAC 57.550 33.333 0.00 0.00 0.00 2.01
1963 2585 8.809468 AAATTCCTACAAGATTCCTCTAAACC 57.191 34.615 0.00 0.00 0.00 3.27
1964 2586 6.945636 TTCCTACAAGATTCCTCTAAACCA 57.054 37.500 0.00 0.00 0.00 3.67
1965 2587 6.945636 TCCTACAAGATTCCTCTAAACCAA 57.054 37.500 0.00 0.00 0.00 3.67
1966 2588 7.324388 TCCTACAAGATTCCTCTAAACCAAA 57.676 36.000 0.00 0.00 0.00 3.28
1967 2589 7.394816 TCCTACAAGATTCCTCTAAACCAAAG 58.605 38.462 0.00 0.00 0.00 2.77
1968 2590 6.599638 CCTACAAGATTCCTCTAAACCAAAGG 59.400 42.308 0.00 0.00 0.00 3.11
1969 2591 6.200878 ACAAGATTCCTCTAAACCAAAGGA 57.799 37.500 0.00 0.00 37.42 3.36
1970 2592 6.241645 ACAAGATTCCTCTAAACCAAAGGAG 58.758 40.000 0.00 0.00 40.21 3.69
1971 2593 5.443230 AGATTCCTCTAAACCAAAGGAGG 57.557 43.478 0.00 0.00 44.69 4.30
1972 2594 3.434940 TTCCTCTAAACCAAAGGAGGC 57.565 47.619 0.00 0.00 43.46 4.70
1984 2606 5.589831 ACCAAAGGAGGCCTAAATACATTT 58.410 37.500 4.42 0.00 31.13 2.32
1998 2620 5.880054 AATACATTTAGTGCCACTGTGTC 57.120 39.130 7.83 0.00 0.00 3.67
2004 2626 4.961511 TGCCACTGTGTCCGCGAC 62.962 66.667 8.23 4.50 0.00 5.19
2007 2629 2.801162 CACTGTGTCCGCGACTCG 60.801 66.667 8.23 0.00 33.15 4.18
2009 2631 2.333417 ACTGTGTCCGCGACTCGAT 61.333 57.895 8.23 0.00 41.67 3.59
2019 2641 1.184349 GCGACTCGATTCAGAAGACG 58.816 55.000 1.63 6.28 0.00 4.18
2023 2645 3.421741 GACTCGATTCAGAAGACGTGAG 58.578 50.000 16.16 8.87 0.00 3.51
2101 2724 7.671302 ACACGATATTAGGCAGTAGATGATTT 58.329 34.615 0.00 0.00 0.00 2.17
2108 2731 5.690464 AGGCAGTAGATGATTTTCTCAGT 57.310 39.130 0.00 0.00 37.28 3.41
2139 2763 3.365969 GCGTGGATGGTTTCCTTAACTTG 60.366 47.826 0.00 0.00 45.68 3.16
2142 2767 5.878116 CGTGGATGGTTTCCTTAACTTGATA 59.122 40.000 0.00 0.00 45.68 2.15
2143 2768 6.037172 CGTGGATGGTTTCCTTAACTTGATAG 59.963 42.308 0.00 0.00 45.68 2.08
2144 2769 6.318900 GTGGATGGTTTCCTTAACTTGATAGG 59.681 42.308 0.00 0.00 45.68 2.57
2145 2770 5.299531 GGATGGTTTCCTTAACTTGATAGGC 59.700 44.000 0.00 0.00 41.78 3.93
2146 2771 5.249780 TGGTTTCCTTAACTTGATAGGCA 57.750 39.130 0.00 0.00 36.93 4.75
2147 2772 5.253330 TGGTTTCCTTAACTTGATAGGCAG 58.747 41.667 0.00 0.00 36.93 4.85
2148 2773 5.222048 TGGTTTCCTTAACTTGATAGGCAGT 60.222 40.000 0.00 0.00 36.93 4.40
2150 2775 6.539103 GGTTTCCTTAACTTGATAGGCAGTAG 59.461 42.308 0.00 0.00 36.93 2.57
2151 2776 7.328737 GTTTCCTTAACTTGATAGGCAGTAGA 58.671 38.462 0.00 0.00 33.79 2.59
2195 2820 2.295885 CCCTGGTCTCTGCATCATTTC 58.704 52.381 0.00 0.00 0.00 2.17
2249 2874 9.941325 GATGATGAATAATGTCAATCTACTCCT 57.059 33.333 0.00 0.00 0.00 3.69
2250 2875 9.722184 ATGATGAATAATGTCAATCTACTCCTG 57.278 33.333 0.00 0.00 0.00 3.86
2264 2889 3.685139 ACTCCTGATACCACACACTTG 57.315 47.619 0.00 0.00 0.00 3.16
2265 2890 2.303022 ACTCCTGATACCACACACTTGG 59.697 50.000 0.00 0.00 43.04 3.61
2285 2910 3.118186 TGGGGTGGTTCCATATCTTAACG 60.118 47.826 0.00 0.00 38.11 3.18
2293 2918 6.151480 TGGTTCCATATCTTAACGAAAAACCC 59.849 38.462 0.00 0.00 33.21 4.11
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
109 127 1.471684 CTGCACCAGAGAATTGAAGGC 59.528 52.381 0.00 0.00 32.44 4.35
222 240 1.962807 TGTTTTGGGAATGGCAGAGTG 59.037 47.619 0.00 0.00 0.00 3.51
288 306 9.360093 TGTAAAATTCGAATGTGTTTCAGTTTT 57.640 25.926 12.25 7.60 33.66 2.43
289 307 8.918961 TGTAAAATTCGAATGTGTTTCAGTTT 57.081 26.923 12.25 7.55 33.66 2.66
290 308 8.402472 TCTGTAAAATTCGAATGTGTTTCAGTT 58.598 29.630 21.79 7.59 33.66 3.16
291 309 7.925993 TCTGTAAAATTCGAATGTGTTTCAGT 58.074 30.769 21.79 4.66 33.66 3.41
292 310 8.781067 TTCTGTAAAATTCGAATGTGTTTCAG 57.219 30.769 12.25 17.05 33.66 3.02
293 311 9.015577 GTTTCTGTAAAATTCGAATGTGTTTCA 57.984 29.630 12.25 9.39 33.66 2.69
299 317 7.504924 TCCAGTTTCTGTAAAATTCGAATGT 57.495 32.000 12.25 2.41 0.00 2.71
328 346 0.688087 TTTGGGTTCGGTTGCCCTTT 60.688 50.000 0.00 0.00 45.06 3.11
337 362 3.129638 TCTTCTTTGTGTTTTGGGTTCGG 59.870 43.478 0.00 0.00 0.00 4.30
475 502 2.202362 CTCGTCTCAGCGACACCG 60.202 66.667 0.00 0.00 42.98 4.94
485 1082 4.521062 ATGGCTGCCGCTCGTCTC 62.521 66.667 14.98 0.00 36.09 3.36
545 1142 1.543429 GGTGAGGTGAGGTTGGTGAAG 60.543 57.143 0.00 0.00 0.00 3.02
688 1290 6.352479 CCATATCTATGTGTGGGTATCTGCAT 60.352 42.308 0.00 0.00 31.82 3.96
689 1291 5.046376 CCATATCTATGTGTGGGTATCTGCA 60.046 44.000 0.00 0.00 31.82 4.41
690 1292 5.187772 TCCATATCTATGTGTGGGTATCTGC 59.812 44.000 0.00 0.00 32.58 4.26
691 1293 6.211384 TGTCCATATCTATGTGTGGGTATCTG 59.789 42.308 0.00 0.00 32.58 2.90
692 1294 6.322931 TGTCCATATCTATGTGTGGGTATCT 58.677 40.000 0.00 0.00 32.58 1.98
693 1295 6.211584 ACTGTCCATATCTATGTGTGGGTATC 59.788 42.308 0.00 0.00 32.58 2.24
694 1296 6.014242 CACTGTCCATATCTATGTGTGGGTAT 60.014 42.308 0.00 0.00 32.58 2.73
695 1297 5.304357 CACTGTCCATATCTATGTGTGGGTA 59.696 44.000 0.00 0.00 32.58 3.69
698 1300 4.060900 GCACTGTCCATATCTATGTGTGG 58.939 47.826 0.00 0.00 31.82 4.17
701 1303 4.953667 AGTGCACTGTCCATATCTATGTG 58.046 43.478 20.97 0.00 31.82 3.21
703 1305 4.562347 GGGAGTGCACTGTCCATATCTATG 60.562 50.000 27.27 0.00 34.14 2.23
707 1309 1.202698 GGGGAGTGCACTGTCCATATC 60.203 57.143 27.27 7.03 34.14 1.63
711 1313 1.847506 ATGGGGAGTGCACTGTCCA 60.848 57.895 29.01 29.01 34.14 4.02
761 1368 0.173255 GCTGCAACAAGTTGTGTGGT 59.827 50.000 9.79 0.00 40.60 4.16
813 1420 1.417890 AGGTAATCATCAAGAGGCGGG 59.582 52.381 0.00 0.00 0.00 6.13
816 1423 2.760374 CGGAGGTAATCATCAAGAGGC 58.240 52.381 0.00 0.00 0.00 4.70
836 1443 3.486383 AGATACTCTGCTCTGCTCTACC 58.514 50.000 0.00 0.00 0.00 3.18
897 1504 0.765510 GGTGAAGAGTGGTGGGAACT 59.234 55.000 0.00 0.00 0.00 3.01
919 1526 1.328279 TGCACGAGAAGACTGGAGAA 58.672 50.000 0.00 0.00 0.00 2.87
920 1527 1.000163 GTTGCACGAGAAGACTGGAGA 60.000 52.381 0.00 0.00 0.00 3.71
933 1540 2.286477 TGTATGTTGTTTCGGTTGCACG 60.286 45.455 0.00 0.00 0.00 5.34
961 1574 1.949525 GCTTCCAGCAAACAAGACTGA 59.050 47.619 0.00 0.00 41.89 3.41
986 1599 1.620259 GCCATTGATCCCCTTCCCA 59.380 57.895 0.00 0.00 0.00 4.37
990 1603 2.603008 CCCGCCATTGATCCCCTT 59.397 61.111 0.00 0.00 0.00 3.95
994 1607 2.196245 GCTTCCCCGCCATTGATCC 61.196 63.158 0.00 0.00 0.00 3.36
1099 1712 3.050275 GAACCGCTTCCGCTGCTT 61.050 61.111 0.00 0.00 0.00 3.91
1257 1870 2.420890 GAGGAGGATGAGCAGCCG 59.579 66.667 0.00 0.00 42.82 5.52
1287 1903 8.690203 ATGAGCTGCTATATATCTAGTGGTAG 57.310 38.462 0.15 0.00 0.00 3.18
1301 1917 0.390860 GTGGTCGGATGAGCTGCTAT 59.609 55.000 0.15 0.00 43.09 2.97
1353 1972 2.868583 GCAGCAGTGATCATAACGATGT 59.131 45.455 0.00 0.00 33.17 3.06
1359 1978 7.730084 AGTAATCTAAGCAGCAGTGATCATAA 58.270 34.615 0.00 0.00 0.00 1.90
1372 1991 6.774170 TCCGTCCTAATGTAGTAATCTAAGCA 59.226 38.462 0.00 0.00 0.00 3.91
1373 1992 7.211966 TCCGTCCTAATGTAGTAATCTAAGC 57.788 40.000 0.00 0.00 0.00 3.09
1375 1994 9.797642 TGTATCCGTCCTAATGTAGTAATCTAA 57.202 33.333 0.00 0.00 0.00 2.10
1382 2001 6.097839 ACACAATGTATCCGTCCTAATGTAGT 59.902 38.462 0.00 0.00 0.00 2.73
1438 2057 7.495606 CAGTACATTGATGAGTACTAATGCCAA 59.504 37.037 13.61 6.45 46.67 4.52
1488 2107 5.596772 TCATATCCCTTAATGTGACGAGTGA 59.403 40.000 0.00 0.00 0.00 3.41
1489 2108 5.842907 TCATATCCCTTAATGTGACGAGTG 58.157 41.667 0.00 0.00 0.00 3.51
1588 2208 6.719829 AGAAAAACCTTTGGTTCCTATGGTAG 59.280 38.462 10.12 0.00 46.20 3.18
1621 2243 4.031418 TCGTCGTCTCTAGACTGTAGAG 57.969 50.000 8.41 4.17 42.66 2.43
1623 2245 4.681025 GGTATCGTCGTCTCTAGACTGTAG 59.319 50.000 8.41 0.00 42.66 2.74
1624 2246 4.615949 GGTATCGTCGTCTCTAGACTGTA 58.384 47.826 8.41 0.00 42.66 2.74
1625 2247 3.456280 GGTATCGTCGTCTCTAGACTGT 58.544 50.000 8.41 0.00 42.66 3.55
1626 2248 2.472115 CGGTATCGTCGTCTCTAGACTG 59.528 54.545 8.41 2.81 42.66 3.51
1627 2249 2.741612 CGGTATCGTCGTCTCTAGACT 58.258 52.381 8.41 0.00 42.66 3.24
1646 2268 6.157211 CCTTAGCCAGTATTTGTATCCTACG 58.843 44.000 0.00 0.00 0.00 3.51
1649 2271 4.974399 GCCTTAGCCAGTATTTGTATCCT 58.026 43.478 0.00 0.00 0.00 3.24
1665 2287 1.909700 TGAACCAAAGCAGGCCTTAG 58.090 50.000 0.00 0.00 32.20 2.18
1666 2288 2.603075 ATGAACCAAAGCAGGCCTTA 57.397 45.000 0.00 0.00 32.20 2.69
1667 2289 2.450476 CTATGAACCAAAGCAGGCCTT 58.550 47.619 0.00 0.00 34.51 4.35
1668 2290 1.341383 CCTATGAACCAAAGCAGGCCT 60.341 52.381 0.00 0.00 0.00 5.19
1669 2291 1.106285 CCTATGAACCAAAGCAGGCC 58.894 55.000 0.00 0.00 0.00 5.19
1670 2292 1.106285 CCCTATGAACCAAAGCAGGC 58.894 55.000 0.00 0.00 0.00 4.85
1671 2293 2.514458 ACCCTATGAACCAAAGCAGG 57.486 50.000 0.00 0.00 0.00 4.85
1672 2294 5.975693 TTTTACCCTATGAACCAAAGCAG 57.024 39.130 0.00 0.00 0.00 4.24
1702 2324 9.844257 CTCATTTCCTATGACTTTCTTATTCCT 57.156 33.333 0.00 0.00 0.00 3.36
1703 2325 9.838339 TCTCATTTCCTATGACTTTCTTATTCC 57.162 33.333 0.00 0.00 0.00 3.01
1707 2329 9.823647 GTCATCTCATTTCCTATGACTTTCTTA 57.176 33.333 0.00 0.00 43.07 2.10
1708 2330 8.324306 TGTCATCTCATTTCCTATGACTTTCTT 58.676 33.333 13.59 0.00 45.40 2.52
1709 2331 7.855375 TGTCATCTCATTTCCTATGACTTTCT 58.145 34.615 13.59 0.00 45.40 2.52
1710 2332 8.557864 CATGTCATCTCATTTCCTATGACTTTC 58.442 37.037 13.59 0.00 45.40 2.62
1711 2333 8.051535 ACATGTCATCTCATTTCCTATGACTTT 58.948 33.333 13.59 1.75 45.40 2.66
1712 2334 7.571919 ACATGTCATCTCATTTCCTATGACTT 58.428 34.615 13.59 6.42 45.40 3.01
1713 2335 7.134362 ACATGTCATCTCATTTCCTATGACT 57.866 36.000 13.59 0.19 45.40 3.41
1714 2336 9.149225 GATACATGTCATCTCATTTCCTATGAC 57.851 37.037 0.00 7.23 45.40 3.06
1715 2337 9.097946 AGATACATGTCATCTCATTTCCTATGA 57.902 33.333 0.00 0.00 0.00 2.15
1716 2338 9.368674 GAGATACATGTCATCTCATTTCCTATG 57.631 37.037 24.95 0.00 45.17 2.23
1739 2361 9.883293 TCCTATTCCTACTCATAAGATTTGAGA 57.117 33.333 7.63 0.00 42.63 3.27
1746 2368 9.937876 TCTTCTTTCCTATTCCTACTCATAAGA 57.062 33.333 0.00 0.00 0.00 2.10
1749 2371 8.589338 GCATCTTCTTTCCTATTCCTACTCATA 58.411 37.037 0.00 0.00 0.00 2.15
1750 2372 7.449247 GCATCTTCTTTCCTATTCCTACTCAT 58.551 38.462 0.00 0.00 0.00 2.90
1751 2373 6.183361 GGCATCTTCTTTCCTATTCCTACTCA 60.183 42.308 0.00 0.00 0.00 3.41
1752 2374 6.227522 GGCATCTTCTTTCCTATTCCTACTC 58.772 44.000 0.00 0.00 0.00 2.59
1753 2375 5.072464 GGGCATCTTCTTTCCTATTCCTACT 59.928 44.000 0.00 0.00 0.00 2.57
1754 2376 5.072464 AGGGCATCTTCTTTCCTATTCCTAC 59.928 44.000 0.00 0.00 0.00 3.18
1755 2377 5.227593 AGGGCATCTTCTTTCCTATTCCTA 58.772 41.667 0.00 0.00 0.00 2.94
1756 2378 4.050757 AGGGCATCTTCTTTCCTATTCCT 58.949 43.478 0.00 0.00 0.00 3.36
1757 2379 4.445557 AGGGCATCTTCTTTCCTATTCC 57.554 45.455 0.00 0.00 0.00 3.01
1758 2380 7.881775 TTAAAGGGCATCTTCTTTCCTATTC 57.118 36.000 0.00 0.00 35.22 1.75
1759 2381 8.844865 AATTAAAGGGCATCTTCTTTCCTATT 57.155 30.769 0.00 0.00 35.22 1.73
1760 2382 8.061304 TGAATTAAAGGGCATCTTCTTTCCTAT 58.939 33.333 0.00 0.00 35.22 2.57
1761 2383 7.339466 GTGAATTAAAGGGCATCTTCTTTCCTA 59.661 37.037 0.00 0.00 35.22 2.94
1762 2384 6.153510 GTGAATTAAAGGGCATCTTCTTTCCT 59.846 38.462 0.00 0.00 35.22 3.36
1763 2385 6.333416 GTGAATTAAAGGGCATCTTCTTTCC 58.667 40.000 0.00 0.00 35.22 3.13
1764 2386 6.030228 CGTGAATTAAAGGGCATCTTCTTTC 58.970 40.000 0.00 0.00 35.22 2.62
1765 2387 5.476945 ACGTGAATTAAAGGGCATCTTCTTT 59.523 36.000 0.00 0.00 37.09 2.52
1766 2388 5.010282 ACGTGAATTAAAGGGCATCTTCTT 58.990 37.500 0.00 0.00 33.94 2.52
1767 2389 4.589908 ACGTGAATTAAAGGGCATCTTCT 58.410 39.130 0.00 0.00 33.94 2.85
1768 2390 4.394920 TGACGTGAATTAAAGGGCATCTTC 59.605 41.667 0.00 0.00 33.94 2.87
1769 2391 4.331968 TGACGTGAATTAAAGGGCATCTT 58.668 39.130 0.00 0.00 37.28 2.40
1770 2392 3.950397 TGACGTGAATTAAAGGGCATCT 58.050 40.909 0.00 0.00 0.00 2.90
1771 2393 4.900635 ATGACGTGAATTAAAGGGCATC 57.099 40.909 0.00 0.00 0.00 3.91
1772 2394 5.827797 ACATATGACGTGAATTAAAGGGCAT 59.172 36.000 10.38 6.81 35.43 4.40
1773 2395 5.189928 ACATATGACGTGAATTAAAGGGCA 58.810 37.500 10.38 0.00 0.00 5.36
1774 2396 5.751243 ACATATGACGTGAATTAAAGGGC 57.249 39.130 10.38 0.00 0.00 5.19
1775 2397 8.980143 AAAAACATATGACGTGAATTAAAGGG 57.020 30.769 10.38 0.00 0.00 3.95
1798 2420 8.593945 ACATTAGCCTAGATTCAATGGAAAAA 57.406 30.769 0.00 0.00 36.43 1.94
1799 2421 8.593945 AACATTAGCCTAGATTCAATGGAAAA 57.406 30.769 0.00 0.00 36.43 2.29
1800 2422 8.593945 AAACATTAGCCTAGATTCAATGGAAA 57.406 30.769 0.00 0.00 36.43 3.13
1801 2423 9.866655 ATAAACATTAGCCTAGATTCAATGGAA 57.133 29.630 0.00 0.00 37.45 3.53
1802 2424 9.866655 AATAAACATTAGCCTAGATTCAATGGA 57.133 29.630 0.00 0.00 32.20 3.41
1807 2429 9.920946 AGGAAAATAAACATTAGCCTAGATTCA 57.079 29.630 0.00 0.00 0.00 2.57
1830 2452 9.843704 TCTTCTTATCCTCCATATTTCATAGGA 57.156 33.333 0.00 0.00 40.50 2.94
1859 2481 9.799106 GGAATGAAATCCTATTCCTATGAAGAA 57.201 33.333 8.37 0.00 45.66 2.52
1874 2496 6.873605 CCCTTTTGTTTGTAGGAATGAAATCC 59.126 38.462 0.00 0.00 39.96 3.01
1875 2497 7.441836 ACCCTTTTGTTTGTAGGAATGAAATC 58.558 34.615 0.00 0.00 0.00 2.17
1876 2498 7.373617 ACCCTTTTGTTTGTAGGAATGAAAT 57.626 32.000 0.00 0.00 0.00 2.17
1877 2499 6.800072 ACCCTTTTGTTTGTAGGAATGAAA 57.200 33.333 0.00 0.00 0.00 2.69
1878 2500 6.609616 AGAACCCTTTTGTTTGTAGGAATGAA 59.390 34.615 0.00 0.00 0.00 2.57
1879 2501 6.133356 AGAACCCTTTTGTTTGTAGGAATGA 58.867 36.000 0.00 0.00 0.00 2.57
1880 2502 6.405278 AGAACCCTTTTGTTTGTAGGAATG 57.595 37.500 0.00 0.00 0.00 2.67
1881 2503 8.541899 TTTAGAACCCTTTTGTTTGTAGGAAT 57.458 30.769 0.00 0.00 0.00 3.01
1882 2504 7.068962 CCTTTAGAACCCTTTTGTTTGTAGGAA 59.931 37.037 0.00 0.00 0.00 3.36
1883 2505 6.548251 CCTTTAGAACCCTTTTGTTTGTAGGA 59.452 38.462 0.00 0.00 0.00 2.94
1884 2506 6.548251 TCCTTTAGAACCCTTTTGTTTGTAGG 59.452 38.462 0.00 0.00 0.00 3.18
1885 2507 7.576861 TCCTTTAGAACCCTTTTGTTTGTAG 57.423 36.000 0.00 0.00 0.00 2.74
1886 2508 7.957992 TTCCTTTAGAACCCTTTTGTTTGTA 57.042 32.000 0.00 0.00 0.00 2.41
1887 2509 6.860790 TTCCTTTAGAACCCTTTTGTTTGT 57.139 33.333 0.00 0.00 0.00 2.83
1888 2510 8.731275 AAATTCCTTTAGAACCCTTTTGTTTG 57.269 30.769 0.00 0.00 37.29 2.93
1889 2511 9.747898 AAAAATTCCTTTAGAACCCTTTTGTTT 57.252 25.926 0.00 0.00 37.29 2.83
1925 2547 9.621239 TCTTGTAGGAATTTCATAGGATAGGAT 57.379 33.333 0.00 0.00 28.27 3.24
1926 2548 9.621239 ATCTTGTAGGAATTTCATAGGATAGGA 57.379 33.333 0.00 0.00 0.00 2.94
1930 2552 8.953665 AGGAATCTTGTAGGAATTTCATAGGAT 58.046 33.333 0.00 0.00 0.00 3.24
1931 2553 8.337118 AGGAATCTTGTAGGAATTTCATAGGA 57.663 34.615 0.00 0.00 0.00 2.94
1932 2554 8.435982 AGAGGAATCTTGTAGGAATTTCATAGG 58.564 37.037 0.00 0.00 0.00 2.57
1936 2558 9.449719 GTTTAGAGGAATCTTGTAGGAATTTCA 57.550 33.333 0.00 0.00 0.00 2.69
1937 2559 8.894731 GGTTTAGAGGAATCTTGTAGGAATTTC 58.105 37.037 0.00 0.00 0.00 2.17
1938 2560 8.390921 TGGTTTAGAGGAATCTTGTAGGAATTT 58.609 33.333 0.00 0.00 0.00 1.82
1939 2561 7.928873 TGGTTTAGAGGAATCTTGTAGGAATT 58.071 34.615 0.00 0.00 0.00 2.17
1940 2562 7.510675 TGGTTTAGAGGAATCTTGTAGGAAT 57.489 36.000 0.00 0.00 0.00 3.01
1941 2563 6.945636 TGGTTTAGAGGAATCTTGTAGGAA 57.054 37.500 0.00 0.00 0.00 3.36
1942 2564 6.945636 TTGGTTTAGAGGAATCTTGTAGGA 57.054 37.500 0.00 0.00 0.00 2.94
1943 2565 6.599638 CCTTTGGTTTAGAGGAATCTTGTAGG 59.400 42.308 0.00 0.00 32.11 3.18
1944 2566 7.394816 TCCTTTGGTTTAGAGGAATCTTGTAG 58.605 38.462 0.00 0.00 36.67 2.74
1945 2567 7.324388 TCCTTTGGTTTAGAGGAATCTTGTA 57.676 36.000 0.00 0.00 36.67 2.41
1946 2568 6.200878 TCCTTTGGTTTAGAGGAATCTTGT 57.799 37.500 0.00 0.00 36.67 3.16
1947 2569 6.749923 CTCCTTTGGTTTAGAGGAATCTTG 57.250 41.667 0.00 0.00 39.00 3.02
1955 2577 4.569719 TTAGGCCTCCTTTGGTTTAGAG 57.430 45.455 9.68 0.00 34.61 2.43
1956 2578 5.530176 ATTTAGGCCTCCTTTGGTTTAGA 57.470 39.130 9.68 0.00 34.61 2.10
1957 2579 6.184789 TGTATTTAGGCCTCCTTTGGTTTAG 58.815 40.000 9.68 0.00 34.61 1.85
1958 2580 6.142259 TGTATTTAGGCCTCCTTTGGTTTA 57.858 37.500 9.68 0.00 34.61 2.01
1959 2581 5.005628 TGTATTTAGGCCTCCTTTGGTTT 57.994 39.130 9.68 0.00 34.61 3.27
1960 2582 4.668138 TGTATTTAGGCCTCCTTTGGTT 57.332 40.909 9.68 0.00 34.61 3.67
1961 2583 4.881157 ATGTATTTAGGCCTCCTTTGGT 57.119 40.909 9.68 0.00 34.61 3.67
1962 2584 7.277174 CTAAATGTATTTAGGCCTCCTTTGG 57.723 40.000 9.68 0.00 43.33 3.28
1984 2606 2.342279 GCGGACACAGTGGCACTA 59.658 61.111 21.59 0.00 0.00 2.74
1998 2620 0.098905 TCTTCTGAATCGAGTCGCGG 59.901 55.000 7.92 0.00 41.33 6.46
2004 2626 3.479505 ACTCACGTCTTCTGAATCGAG 57.520 47.619 17.32 11.76 0.00 4.04
2007 2629 6.146184 TGAATTGAACTCACGTCTTCTGAATC 59.854 38.462 0.00 0.00 0.00 2.52
2009 2631 5.356426 TGAATTGAACTCACGTCTTCTGAA 58.644 37.500 0.00 0.00 0.00 3.02
2019 2641 3.823304 AGGAAAGCCTGAATTGAACTCAC 59.177 43.478 0.00 0.00 44.90 3.51
2130 2754 8.738645 AAAATCTACTGCCTATCAAGTTAAGG 57.261 34.615 0.00 0.00 0.00 2.69
2178 2803 3.548745 ATCGAAATGATGCAGAGACCA 57.451 42.857 0.00 0.00 35.45 4.02
2195 2820 4.024893 GCCTATCAATGGTTGTGTACATCG 60.025 45.833 0.00 0.00 0.00 3.84
2200 2825 4.568072 ACTGCCTATCAATGGTTGTGTA 57.432 40.909 0.00 0.00 0.00 2.90
2249 2874 1.073125 CACCCCAAGTGTGTGGTATCA 59.927 52.381 0.00 0.00 41.93 2.15
2250 2875 1.613255 CCACCCCAAGTGTGTGGTATC 60.613 57.143 8.40 0.00 45.74 2.24
2264 2889 3.135167 TCGTTAAGATATGGAACCACCCC 59.865 47.826 0.00 0.00 38.00 4.95
2265 2890 4.411256 TCGTTAAGATATGGAACCACCC 57.589 45.455 0.00 0.00 38.00 4.61
2267 2892 7.025365 GGTTTTTCGTTAAGATATGGAACCAC 58.975 38.462 0.00 0.00 34.47 4.16
2268 2893 6.151480 GGGTTTTTCGTTAAGATATGGAACCA 59.849 38.462 0.00 0.00 35.66 3.67


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

AutoCloner maintained by Alex Coulton.