Multiple sequence alignment - TraesCS4A01G106100

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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 TraesCS4A01G106100 chr4A 100.000 2186 0 0 1 2186 120143421 120145606 0.000000e+00 4037.0
1 TraesCS4A01G106100 chr4B 84.139 2194 143 76 1 2107 427068479 427066404 0.000000e+00 1934.0
2 TraesCS4A01G106100 chr4B 100.000 42 0 0 1658 1699 427066899 427066858 6.470000e-11 78.7
3 TraesCS4A01G106100 chr4D 85.903 1738 91 65 1 1686 345415581 345413946 0.000000e+00 1711.0
4 TraesCS4A01G106100 chr4D 79.654 231 22 11 1968 2186 345413829 345413612 2.260000e-30 143.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4A01G106100 chr4A 120143421 120145606 2185 False 4037.00 4037 100.0000 1 2186 1 chr4A.!!$F1 2185
1 TraesCS4A01G106100 chr4B 427066404 427068479 2075 True 1006.35 1934 92.0695 1 2107 2 chr4B.!!$R1 2106
2 TraesCS4A01G106100 chr4D 345413612 345415581 1969 True 927.00 1711 82.7785 1 2186 2 chr4D.!!$R1 2185

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
700 745 0.114954 ATCCAGAAAGCTTTGCCCCA 59.885 50.0 18.3 0.0 0.0 4.96 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2121 2327 0.029834 GATGATGTTGATGGCGTGGC 59.97 55.0 0.0 0.0 0.0 5.01 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
20 21 2.505405 TGTTACCGTGCATTGCCTTAA 58.495 42.857 6.12 0.00 0.00 1.85
138 149 5.066505 GTCAGTGTGGAATTCAAGTCAACTT 59.933 40.000 7.93 0.00 36.45 2.66
210 222 2.536928 CGCTGTATTTTAGTTCGCTGCC 60.537 50.000 0.00 0.00 0.00 4.85
260 272 6.209192 TGCAGGTTATCATATTTTATGCCCTG 59.791 38.462 0.00 0.00 38.95 4.45
261 273 6.209391 GCAGGTTATCATATTTTATGCCCTGT 59.791 38.462 0.00 0.00 38.36 4.00
262 274 7.596494 CAGGTTATCATATTTTATGCCCTGTG 58.404 38.462 0.00 0.00 32.90 3.66
263 275 6.209391 AGGTTATCATATTTTATGCCCTGTGC 59.791 38.462 0.00 0.00 41.77 4.57
264 276 6.209391 GGTTATCATATTTTATGCCCTGTGCT 59.791 38.462 0.00 0.00 42.00 4.40
338 350 2.743664 TCCATGCTGAAAGTTGTGATCG 59.256 45.455 0.00 0.00 35.30 3.69
349 361 6.931281 TGAAAGTTGTGATCGAGAAAATCTCT 59.069 34.615 5.88 0.00 41.26 3.10
350 362 8.088365 TGAAAGTTGTGATCGAGAAAATCTCTA 58.912 33.333 5.88 0.00 41.26 2.43
372 391 8.034313 TCTATATTTTCTTCTAGTGCCATGGT 57.966 34.615 14.67 0.00 0.00 3.55
408 427 9.765795 GTTAGTGCTTAAACTATATCCACTCAT 57.234 33.333 0.00 0.00 32.78 2.90
519 564 0.179150 GCGAGCCAACACAAAACACA 60.179 50.000 0.00 0.00 0.00 3.72
520 565 1.535860 GCGAGCCAACACAAAACACAT 60.536 47.619 0.00 0.00 0.00 3.21
522 567 3.296628 CGAGCCAACACAAAACACATAC 58.703 45.455 0.00 0.00 0.00 2.39
524 569 4.290155 GAGCCAACACAAAACACATACAG 58.710 43.478 0.00 0.00 0.00 2.74
525 570 3.699038 AGCCAACACAAAACACATACAGT 59.301 39.130 0.00 0.00 0.00 3.55
527 572 4.973663 GCCAACACAAAACACATACAGTAC 59.026 41.667 0.00 0.00 0.00 2.73
528 573 5.220970 GCCAACACAAAACACATACAGTACT 60.221 40.000 0.00 0.00 0.00 2.73
531 576 9.210329 CCAACACAAAACACATACAGTACTATA 57.790 33.333 0.00 0.00 0.00 1.31
579 624 4.220693 TGCTTGCTGGTGAGTTATGTAT 57.779 40.909 0.00 0.00 0.00 2.29
580 625 3.940852 TGCTTGCTGGTGAGTTATGTATG 59.059 43.478 0.00 0.00 0.00 2.39
581 626 3.941483 GCTTGCTGGTGAGTTATGTATGT 59.059 43.478 0.00 0.00 0.00 2.29
582 627 5.116180 GCTTGCTGGTGAGTTATGTATGTA 58.884 41.667 0.00 0.00 0.00 2.29
590 635 5.532406 GGTGAGTTATGTATGTACTACCGGA 59.468 44.000 9.46 0.00 0.00 5.14
609 654 3.170672 TGGTGTGCTGGGCTGACT 61.171 61.111 0.00 0.00 0.00 3.41
621 666 2.176889 GGGCTGACTAGTAACAGTGGA 58.823 52.381 11.92 0.00 36.62 4.02
700 745 0.114954 ATCCAGAAAGCTTTGCCCCA 59.885 50.000 18.30 0.00 0.00 4.96
702 747 1.538687 CCAGAAAGCTTTGCCCCAGG 61.539 60.000 18.30 4.52 0.00 4.45
789 837 2.806818 GACCCGAAAGTTTCCAGAAGAC 59.193 50.000 10.01 0.00 0.00 3.01
809 875 0.235926 GGAGTTCGAACTGCTTGCAC 59.764 55.000 34.31 19.29 43.15 4.57
833 899 1.002011 GGAACCTTGGCCCTCACTC 60.002 63.158 0.00 0.00 0.00 3.51
841 907 1.920835 GGCCCTCACTCTTCCCAGT 60.921 63.158 0.00 0.00 0.00 4.00
842 908 0.617820 GGCCCTCACTCTTCCCAGTA 60.618 60.000 0.00 0.00 0.00 2.74
843 909 0.537653 GCCCTCACTCTTCCCAGTAC 59.462 60.000 0.00 0.00 0.00 2.73
844 910 1.938585 CCCTCACTCTTCCCAGTACA 58.061 55.000 0.00 0.00 0.00 2.90
847 913 3.369892 CCCTCACTCTTCCCAGTACATTG 60.370 52.174 0.00 0.00 0.00 2.82
850 916 2.026822 CACTCTTCCCAGTACATTGGCT 60.027 50.000 0.00 0.00 36.88 4.75
874 940 0.531974 TATAAAAGGGCGCGGCTCTG 60.532 55.000 32.30 0.00 39.10 3.35
1220 1305 3.171388 CCGGGGAAGGAGGGATGG 61.171 72.222 0.00 0.00 0.00 3.51
1249 1351 9.217278 CTGATGATCTCTGAAGAAAAGAAAGAA 57.783 33.333 0.00 0.00 34.49 2.52
1290 1392 0.875059 CCGGTTCTTGTTCTTGAGCC 59.125 55.000 0.00 0.00 0.00 4.70
1308 1410 2.325082 CGGAAGCCGTTCTGTTGGG 61.325 63.158 0.00 0.00 42.73 4.12
1332 1434 0.546598 GGGATGAGGGTGGACGATTT 59.453 55.000 0.00 0.00 0.00 2.17
1335 1437 0.991920 ATGAGGGTGGACGATTTGGT 59.008 50.000 0.00 0.00 0.00 3.67
1355 1457 2.672651 TCGGGTTCGCTGGTACGA 60.673 61.111 0.00 0.00 41.04 3.43
1386 1489 4.775253 TGTTGGAGGGGAATAACATTTTCC 59.225 41.667 0.00 0.00 41.64 3.13
1392 1495 6.878923 GGAGGGGAATAACATTTTCCTTTTTG 59.121 38.462 2.76 0.00 41.98 2.44
1400 1503 1.952193 TTTTCCTTTTTGCTGGCTGC 58.048 45.000 9.67 9.67 43.25 5.25
1456 1559 2.743636 CAACATGTGGAGTCCGTAGT 57.256 50.000 4.30 0.00 0.00 2.73
1583 1694 3.258372 TCTGGTGTTGTCTGTCTATGGTC 59.742 47.826 0.00 0.00 0.00 4.02
1613 1724 4.499696 CCGGTTTCTGCACTTGAATTTCTT 60.500 41.667 0.00 0.00 0.00 2.52
1614 1725 4.676924 CGGTTTCTGCACTTGAATTTCTTC 59.323 41.667 0.00 0.00 0.00 2.87
1615 1726 5.506317 CGGTTTCTGCACTTGAATTTCTTCT 60.506 40.000 0.00 0.00 32.29 2.85
1616 1727 5.917447 GGTTTCTGCACTTGAATTTCTTCTC 59.083 40.000 0.00 0.00 32.29 2.87
1617 1728 6.238869 GGTTTCTGCACTTGAATTTCTTCTCT 60.239 38.462 0.00 0.00 32.29 3.10
1618 1729 5.936686 TCTGCACTTGAATTTCTTCTCTG 57.063 39.130 0.00 0.00 32.29 3.35
1619 1730 4.214971 TCTGCACTTGAATTTCTTCTCTGC 59.785 41.667 0.00 0.00 32.29 4.26
1620 1731 3.884693 TGCACTTGAATTTCTTCTCTGCA 59.115 39.130 0.00 0.00 35.38 4.41
1621 1732 4.521639 TGCACTTGAATTTCTTCTCTGCAT 59.478 37.500 0.00 0.00 34.10 3.96
1622 1733 5.094134 GCACTTGAATTTCTTCTCTGCATC 58.906 41.667 0.00 0.00 31.53 3.91
1623 1734 5.106237 GCACTTGAATTTCTTCTCTGCATCT 60.106 40.000 0.00 0.00 31.53 2.90
1624 1735 6.544622 CACTTGAATTTCTTCTCTGCATCTC 58.455 40.000 0.00 0.00 32.29 2.75
1625 1736 5.647225 ACTTGAATTTCTTCTCTGCATCTCC 59.353 40.000 0.00 0.00 32.29 3.71
1626 1737 4.186926 TGAATTTCTTCTCTGCATCTCCG 58.813 43.478 0.00 0.00 32.29 4.63
1627 1738 3.902881 ATTTCTTCTCTGCATCTCCGT 57.097 42.857 0.00 0.00 0.00 4.69
1628 1739 2.949451 TTCTTCTCTGCATCTCCGTC 57.051 50.000 0.00 0.00 0.00 4.79
1629 1740 0.735471 TCTTCTCTGCATCTCCGTCG 59.265 55.000 0.00 0.00 0.00 5.12
1630 1741 0.869454 CTTCTCTGCATCTCCGTCGC 60.869 60.000 0.00 0.00 0.00 5.19
1631 1742 2.598619 TTCTCTGCATCTCCGTCGCG 62.599 60.000 0.00 0.00 0.00 5.87
1642 1753 4.777781 CGTCGCGGAGTACATTCA 57.222 55.556 6.13 0.00 0.00 2.57
1643 1754 3.251817 CGTCGCGGAGTACATTCAT 57.748 52.632 6.13 0.00 0.00 2.57
1644 1755 1.556564 CGTCGCGGAGTACATTCATT 58.443 50.000 6.13 0.00 0.00 2.57
1645 1756 1.255342 CGTCGCGGAGTACATTCATTG 59.745 52.381 6.13 0.00 0.00 2.82
1646 1757 2.536365 GTCGCGGAGTACATTCATTGA 58.464 47.619 6.13 0.00 0.00 2.57
1647 1758 2.927477 GTCGCGGAGTACATTCATTGAA 59.073 45.455 6.13 0.75 0.00 2.69
1648 1759 2.927477 TCGCGGAGTACATTCATTGAAC 59.073 45.455 6.13 0.00 0.00 3.18
1649 1760 2.670905 CGCGGAGTACATTCATTGAACA 59.329 45.455 0.00 0.00 0.00 3.18
1650 1761 3.124466 CGCGGAGTACATTCATTGAACAA 59.876 43.478 0.00 0.00 0.00 2.83
1651 1762 4.651994 GCGGAGTACATTCATTGAACAAG 58.348 43.478 0.15 0.00 0.00 3.16
1652 1763 4.651994 CGGAGTACATTCATTGAACAAGC 58.348 43.478 0.15 0.00 0.00 4.01
1653 1764 4.437390 CGGAGTACATTCATTGAACAAGCC 60.437 45.833 0.15 0.00 0.00 4.35
1654 1765 4.142381 GGAGTACATTCATTGAACAAGCCC 60.142 45.833 0.15 0.00 0.00 5.19
1655 1766 3.440173 AGTACATTCATTGAACAAGCCCG 59.560 43.478 0.15 0.00 0.00 6.13
1656 1767 1.067635 ACATTCATTGAACAAGCCCGC 60.068 47.619 0.15 0.00 0.00 6.13
1715 1900 2.932614 CTCAAGATTGGCGAGGTTACAG 59.067 50.000 0.00 0.00 0.00 2.74
1716 1901 2.301870 TCAAGATTGGCGAGGTTACAGT 59.698 45.455 0.00 0.00 0.00 3.55
1798 1987 5.772672 ACCAAATTATCAAGCTTGTGGTACA 59.227 36.000 26.90 10.00 36.38 2.90
1808 1997 1.675483 CTTGTGGTACAACAAGCAGCA 59.325 47.619 26.27 0.29 44.16 4.41
1820 2009 4.510038 ACAAGCAGCAAAAGGTAATCAG 57.490 40.909 0.00 0.00 0.00 2.90
1843 2032 2.658593 GCATCATCCGTCGTCCCG 60.659 66.667 0.00 0.00 0.00 5.14
1853 2042 4.648626 TCGTCCCGGGTCGTCAGT 62.649 66.667 33.75 0.00 0.00 3.41
1930 2119 1.052617 TCGTTGACAAGTCATCCCCA 58.947 50.000 3.43 0.00 39.64 4.96
1933 2122 1.474077 GTTGACAAGTCATCCCCATGC 59.526 52.381 3.43 0.00 39.64 4.06
1934 2123 0.994247 TGACAAGTCATCCCCATGCT 59.006 50.000 0.00 0.00 34.14 3.79
1938 2127 1.064166 CAAGTCATCCCCATGCTCCTT 60.064 52.381 0.00 0.00 0.00 3.36
2037 2226 3.168528 AGGCAACGACACCTGGGT 61.169 61.111 0.00 0.00 46.39 4.51
2147 2353 3.181484 CGCCATCAACATCATCCACAAAT 60.181 43.478 0.00 0.00 0.00 2.32
2156 2362 6.343716 ACATCATCCACAAATTTGCTAACA 57.656 33.333 18.12 0.00 0.00 2.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
138 149 1.555477 ATTTTGTACGCCCGGGGAGA 61.555 55.000 25.28 4.32 0.00 3.71
210 222 5.801947 GGAAAAGCTGTACAATAATGCACTG 59.198 40.000 6.79 0.00 0.00 3.66
226 238 3.439857 TGATAACCTGCAGGAAAAGCT 57.560 42.857 39.19 13.13 38.94 3.74
261 273 1.815196 CAAGTGCCCAAACACAGCA 59.185 52.632 0.00 0.00 43.23 4.41
262 274 1.592400 GCAAGTGCCCAAACACAGC 60.592 57.895 0.00 0.00 43.23 4.40
263 275 0.175302 TTGCAAGTGCCCAAACACAG 59.825 50.000 0.00 0.00 43.23 3.66
264 276 0.829333 ATTGCAAGTGCCCAAACACA 59.171 45.000 4.94 0.00 43.23 3.72
307 319 2.045926 AGCATGGACCGTTCAGGC 60.046 61.111 8.46 8.46 46.52 4.85
319 331 3.681417 TCTCGATCACAACTTTCAGCATG 59.319 43.478 0.00 0.00 37.54 4.06
349 361 7.801104 TGACCATGGCACTAGAAGAAAATATA 58.199 34.615 13.04 0.00 0.00 0.86
350 362 6.662755 TGACCATGGCACTAGAAGAAAATAT 58.337 36.000 13.04 0.00 0.00 1.28
372 391 5.249852 AGTTTAAGCACTAACCTACCCATGA 59.750 40.000 0.00 0.00 0.00 3.07
408 427 1.606601 ACTGTCTGCCTGCCTACGA 60.607 57.895 0.00 0.00 0.00 3.43
541 586 1.705186 AGCAAGCCTGGGTAGAAAGAA 59.295 47.619 0.00 0.00 0.00 2.52
542 587 1.362224 AGCAAGCCTGGGTAGAAAGA 58.638 50.000 0.00 0.00 0.00 2.52
544 589 1.909700 CAAGCAAGCCTGGGTAGAAA 58.090 50.000 0.00 0.00 0.00 2.52
545 590 0.609131 GCAAGCAAGCCTGGGTAGAA 60.609 55.000 0.00 0.00 0.00 2.10
546 591 1.002134 GCAAGCAAGCCTGGGTAGA 60.002 57.895 0.00 0.00 0.00 2.59
547 592 1.001641 AGCAAGCAAGCCTGGGTAG 60.002 57.895 0.00 0.00 34.23 3.18
548 593 1.303561 CAGCAAGCAAGCCTGGGTA 60.304 57.895 0.00 0.00 34.23 3.69
549 594 2.599578 CAGCAAGCAAGCCTGGGT 60.600 61.111 0.00 0.00 34.23 4.51
550 595 3.379445 CCAGCAAGCAAGCCTGGG 61.379 66.667 7.66 0.00 32.61 4.45
590 635 3.170672 TCAGCCCAGCACACCAGT 61.171 61.111 0.00 0.00 0.00 4.00
595 640 1.275291 GTTACTAGTCAGCCCAGCACA 59.725 52.381 0.00 0.00 0.00 4.57
609 654 6.422344 TGGTGTGTTTATCCACTGTTACTA 57.578 37.500 0.00 0.00 36.30 1.82
621 666 0.960364 CGCCAGCCTGGTGTGTTTAT 60.960 55.000 16.33 0.00 42.85 1.40
700 745 0.252012 ACTGACTCTACTGCCTGCCT 60.252 55.000 0.00 0.00 0.00 4.75
702 747 1.819288 TGTACTGACTCTACTGCCTGC 59.181 52.381 0.00 0.00 0.00 4.85
712 757 5.378292 TTGAGATGTCACTGTACTGACTC 57.622 43.478 14.32 10.04 41.15 3.36
731 776 0.603569 GGCTCGAGTCTGAACCTTGA 59.396 55.000 15.13 0.00 0.00 3.02
758 803 3.589654 TTTCGGGTCTGCGCCTCAG 62.590 63.158 4.18 0.00 44.21 3.35
759 804 3.589654 CTTTCGGGTCTGCGCCTCA 62.590 63.158 4.18 0.00 0.00 3.86
761 806 2.676163 AAACTTTCGGGTCTGCGCCT 62.676 55.000 4.18 0.00 0.00 5.52
765 813 0.875059 CTGGAAACTTTCGGGTCTGC 59.125 55.000 0.00 0.00 0.00 4.26
789 837 1.221466 TGCAAGCAGTTCGAACTCCG 61.221 55.000 27.54 18.27 37.08 4.63
833 899 2.094675 CCAAGCCAATGTACTGGGAAG 58.905 52.381 3.52 0.00 36.92 3.46
841 907 4.892934 CCCTTTTATAGCCAAGCCAATGTA 59.107 41.667 0.00 0.00 0.00 2.29
842 908 3.706086 CCCTTTTATAGCCAAGCCAATGT 59.294 43.478 0.00 0.00 0.00 2.71
843 909 3.493176 GCCCTTTTATAGCCAAGCCAATG 60.493 47.826 0.00 0.00 0.00 2.82
844 910 2.700371 GCCCTTTTATAGCCAAGCCAAT 59.300 45.455 0.00 0.00 0.00 3.16
847 913 0.668535 CGCCCTTTTATAGCCAAGCC 59.331 55.000 0.00 0.00 0.00 4.35
850 916 1.098712 CCGCGCCCTTTTATAGCCAA 61.099 55.000 0.00 0.00 0.00 4.52
1263 1365 0.535102 AACAAGAACCGGACCTGCAG 60.535 55.000 9.46 6.78 0.00 4.41
1264 1366 0.534203 GAACAAGAACCGGACCTGCA 60.534 55.000 9.46 0.00 0.00 4.41
1265 1367 0.250338 AGAACAAGAACCGGACCTGC 60.250 55.000 9.46 0.00 0.00 4.85
1270 1372 1.542547 GGCTCAAGAACAAGAACCGGA 60.543 52.381 9.46 0.00 0.00 5.14
1308 1410 4.530857 CCACCCTCATCCCGCGTC 62.531 72.222 4.92 0.00 0.00 5.19
1332 1434 4.308458 CAGCGAACCCGACCACCA 62.308 66.667 0.00 0.00 38.22 4.17
1335 1437 2.601067 TACCAGCGAACCCGACCA 60.601 61.111 0.00 0.00 38.22 4.02
1355 1457 1.308746 CCCCTCCAACACCCCCTAT 60.309 63.158 0.00 0.00 0.00 2.57
1392 1495 1.440476 GGAATTCCATGCAGCCAGC 59.560 57.895 20.04 0.00 38.92 4.85
1400 1503 3.487376 CGGAATCACAACGGAATTCCATG 60.487 47.826 24.09 21.99 40.44 3.66
1456 1559 1.204704 ACGATCCAAATCACTGCGAGA 59.795 47.619 0.00 0.00 31.76 4.04
1556 1667 4.487714 AGACAGACAACACCAGAAAGAA 57.512 40.909 0.00 0.00 0.00 2.52
1557 1668 5.511373 CCATAGACAGACAACACCAGAAAGA 60.511 44.000 0.00 0.00 0.00 2.52
1583 1694 1.000955 AGTGCAGAAACCGGAGTACAG 59.999 52.381 9.46 0.00 0.00 2.74
1613 1724 2.801421 GCGACGGAGATGCAGAGA 59.199 61.111 0.00 0.00 0.00 3.10
1614 1725 2.653448 CGCGACGGAGATGCAGAG 60.653 66.667 0.00 0.00 0.00 3.35
1625 1736 1.255342 CAATGAATGTACTCCGCGACG 59.745 52.381 8.23 0.00 0.00 5.12
1626 1737 2.536365 TCAATGAATGTACTCCGCGAC 58.464 47.619 8.23 0.00 0.00 5.19
1627 1738 2.927477 GTTCAATGAATGTACTCCGCGA 59.073 45.455 8.23 0.00 0.00 5.87
1628 1739 2.670905 TGTTCAATGAATGTACTCCGCG 59.329 45.455 0.00 0.00 31.17 6.46
1629 1740 4.651994 CTTGTTCAATGAATGTACTCCGC 58.348 43.478 0.00 0.00 31.17 5.54
1630 1741 4.437390 GGCTTGTTCAATGAATGTACTCCG 60.437 45.833 0.00 0.00 31.17 4.63
1631 1742 4.142381 GGGCTTGTTCAATGAATGTACTCC 60.142 45.833 0.00 0.00 31.17 3.85
1632 1743 4.437390 CGGGCTTGTTCAATGAATGTACTC 60.437 45.833 0.00 0.00 31.17 2.59
1633 1744 3.440173 CGGGCTTGTTCAATGAATGTACT 59.560 43.478 0.00 0.00 31.17 2.73
1634 1745 3.758300 CGGGCTTGTTCAATGAATGTAC 58.242 45.455 0.00 0.00 0.00 2.90
1635 1746 2.163412 GCGGGCTTGTTCAATGAATGTA 59.837 45.455 0.00 0.00 0.00 2.29
1636 1747 1.067635 GCGGGCTTGTTCAATGAATGT 60.068 47.619 0.00 0.00 0.00 2.71
1637 1748 1.203052 AGCGGGCTTGTTCAATGAATG 59.797 47.619 0.00 0.00 0.00 2.67
1638 1749 1.474077 GAGCGGGCTTGTTCAATGAAT 59.526 47.619 0.00 0.00 0.00 2.57
1639 1750 0.881118 GAGCGGGCTTGTTCAATGAA 59.119 50.000 0.00 0.00 0.00 2.57
1640 1751 0.036732 AGAGCGGGCTTGTTCAATGA 59.963 50.000 0.00 0.00 0.00 2.57
1641 1752 0.449388 GAGAGCGGGCTTGTTCAATG 59.551 55.000 0.00 0.00 0.00 2.82
1642 1753 0.326264 AGAGAGCGGGCTTGTTCAAT 59.674 50.000 0.00 0.00 0.00 2.57
1643 1754 0.603707 CAGAGAGCGGGCTTGTTCAA 60.604 55.000 0.00 0.00 0.00 2.69
1644 1755 1.004560 CAGAGAGCGGGCTTGTTCA 60.005 57.895 0.00 0.00 0.00 3.18
1645 1756 2.394563 GCAGAGAGCGGGCTTGTTC 61.395 63.158 0.00 0.00 0.00 3.18
1646 1757 2.359230 GCAGAGAGCGGGCTTGTT 60.359 61.111 0.00 0.00 0.00 2.83
1655 1766 1.299014 CGACGGAGATGCAGAGAGC 60.299 63.158 0.00 0.00 45.96 4.09
1656 1767 1.299014 GCGACGGAGATGCAGAGAG 60.299 63.158 0.00 0.00 0.00 3.20
1715 1900 4.868171 TGCTGTTTCGTTATCCTGTGATAC 59.132 41.667 0.00 0.00 33.19 2.24
1716 1901 5.079689 TGCTGTTTCGTTATCCTGTGATA 57.920 39.130 0.00 0.00 32.18 2.15
1798 1987 4.584325 TCTGATTACCTTTTGCTGCTTGTT 59.416 37.500 0.00 0.00 0.00 2.83
1808 1997 3.439857 TGCAGCCTCTGATTACCTTTT 57.560 42.857 0.00 0.00 32.44 2.27
1820 2009 1.953138 CGACGGATGATGCAGCCTC 60.953 63.158 0.00 0.00 37.84 4.70
1843 2032 1.755393 AACCCTGACACTGACGACCC 61.755 60.000 0.00 0.00 0.00 4.46
1845 2034 0.387929 TGAACCCTGACACTGACGAC 59.612 55.000 0.00 0.00 0.00 4.34
1846 2035 1.116308 TTGAACCCTGACACTGACGA 58.884 50.000 0.00 0.00 0.00 4.20
1853 2042 1.052617 TCATCGGTTGAACCCTGACA 58.947 50.000 9.08 0.00 33.75 3.58
1990 2179 2.440980 GTGGGCTGGGGAGATTGC 60.441 66.667 0.00 0.00 0.00 3.56
2018 2207 2.738521 CCAGGTGTCGTTGCCTCG 60.739 66.667 0.00 0.00 31.73 4.63
2042 2231 4.200283 CTCGACCTCGGCTCAGGC 62.200 72.222 1.70 0.00 36.98 4.85
2045 2234 3.062466 CACCTCGACCTCGGCTCA 61.062 66.667 0.00 0.00 40.29 4.26
2046 2235 4.500116 GCACCTCGACCTCGGCTC 62.500 72.222 0.00 0.00 40.29 4.70
2048 2237 3.991536 GAAGCACCTCGACCTCGGC 62.992 68.421 0.00 0.00 40.29 5.54
2072 2278 2.354604 CCTTGCAGGAGGAGAAGACTTC 60.355 54.545 7.14 7.14 37.67 3.01
2119 2325 3.112126 GATGTTGATGGCGTGGCGG 62.112 63.158 0.00 0.00 0.00 6.13
2120 2326 1.717791 ATGATGTTGATGGCGTGGCG 61.718 55.000 0.00 0.00 0.00 5.69
2121 2327 0.029834 GATGATGTTGATGGCGTGGC 59.970 55.000 0.00 0.00 0.00 5.01
2122 2328 0.664761 GGATGATGTTGATGGCGTGG 59.335 55.000 0.00 0.00 0.00 4.94
2123 2329 1.064505 GTGGATGATGTTGATGGCGTG 59.935 52.381 0.00 0.00 0.00 5.34
2124 2330 1.339920 TGTGGATGATGTTGATGGCGT 60.340 47.619 0.00 0.00 0.00 5.68
2156 2362 6.914259 GCCTCTGCTTTCTAGTAATGTTTTT 58.086 36.000 0.00 0.00 33.53 1.94


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

AutoCloner maintained by Alex Coulton.