Multiple sequence alignment - TraesCS6A01G191300

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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 TraesCS6A01G191300 chr6A 100.000 2345 0 0 1 2345 258367390 258365046 0.000000e+00 4331.0
1 TraesCS6A01G191300 chr6D 91.376 1635 88 26 1 1614 67402635 67404237 0.000000e+00 2189.0
2 TraesCS6A01G191300 chr6D 94.270 541 17 4 1814 2345 163930698 163930163 0.000000e+00 815.0
3 TraesCS6A01G191300 chr6D 93.519 108 7 0 1608 1715 163930876 163930769 6.710000e-36 161.0
4 TraesCS6A01G191300 chrUn 87.595 1056 67 21 601 1608 119059890 119058851 0.000000e+00 1166.0
5 TraesCS6A01G191300 chr2B 87.017 647 50 17 995 1608 687501064 687501709 0.000000e+00 699.0
6 TraesCS6A01G191300 chr6B 95.556 405 15 2 1942 2345 309713759 309714161 0.000000e+00 645.0
7 TraesCS6A01G191300 chr6B 96.350 137 5 0 1812 1948 309691181 309691317 2.340000e-55 226.0
8 TraesCS6A01G191300 chr6B 91.228 57 5 0 1755 1811 88886377 88886321 6.950000e-11 78.7
9 TraesCS6A01G191300 chr1A 76.897 290 39 19 1339 1609 234209803 234210083 3.140000e-29 139.0
10 TraesCS6A01G191300 chr5D 94.444 72 4 0 1538 1609 553477874 553477945 6.850000e-21 111.0
11 TraesCS6A01G191300 chr5D 86.207 58 8 0 1547 1604 66752253 66752310 1.950000e-06 63.9
12 TraesCS6A01G191300 chr3D 87.931 58 7 0 1547 1604 25134971 25134914 4.180000e-08 69.4
13 TraesCS6A01G191300 chr1B 81.707 82 14 1 317 398 67531691 67531611 1.500000e-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 TraesCS6A01G191300 chr6A 258365046 258367390 2344 True 4331 4331 100.0000 1 2345 1 chr6A.!!$R1 2344
1 TraesCS6A01G191300 chr6D 67402635 67404237 1602 False 2189 2189 91.3760 1 1614 1 chr6D.!!$F1 1613
2 TraesCS6A01G191300 chr6D 163930163 163930876 713 True 488 815 93.8945 1608 2345 2 chr6D.!!$R1 737
3 TraesCS6A01G191300 chrUn 119058851 119059890 1039 True 1166 1166 87.5950 601 1608 1 chrUn.!!$R1 1007
4 TraesCS6A01G191300 chr2B 687501064 687501709 645 False 699 699 87.0170 995 1608 1 chr2B.!!$F1 613

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
100 108 0.487772 ATAGTAGGAGATGGGGCGGT 59.512 55.0 0.0 0.0 0.0 5.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1876 1967 0.469494 ACCATGTGCACAGAGTCACA 59.531 50.0 25.84 0.0 45.81 3.58 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
33 41 1.862911 AGAAGCTGAGGGGAGAGGATA 59.137 52.381 0.00 0.00 0.00 2.59
97 105 1.277557 CAGCATAGTAGGAGATGGGGC 59.722 57.143 0.00 0.00 0.00 5.80
100 108 0.487772 ATAGTAGGAGATGGGGCGGT 59.512 55.000 0.00 0.00 0.00 5.68
102 110 1.760875 GTAGGAGATGGGGCGGTGA 60.761 63.158 0.00 0.00 0.00 4.02
144 152 1.676314 CGAGAGAGGACGAAGGAGACA 60.676 57.143 0.00 0.00 0.00 3.41
152 160 2.351544 GGACGAAGGAGACACTACACAC 60.352 54.545 0.00 0.00 0.00 3.82
156 164 3.673594 CGAAGGAGACACTACACACATCC 60.674 52.174 0.00 0.00 0.00 3.51
167 175 4.794439 CACATCCGGTGCGCTCGA 62.794 66.667 21.41 7.31 41.36 4.04
168 176 3.838271 ACATCCGGTGCGCTCGAT 61.838 61.111 21.41 9.18 0.00 3.59
178 187 0.521291 TGCGCTCGATTCCTTTTTGG 59.479 50.000 9.73 0.00 37.10 3.28
179 188 0.802494 GCGCTCGATTCCTTTTTGGA 59.198 50.000 0.00 0.00 44.51 3.53
180 189 1.401905 GCGCTCGATTCCTTTTTGGAT 59.598 47.619 0.00 0.00 45.68 3.41
190 200 2.158475 TCCTTTTTGGATGACCTGTGCT 60.158 45.455 0.00 0.00 40.56 4.40
206 216 2.885113 CTCGCACGAGGTCATCCA 59.115 61.111 12.17 0.00 38.51 3.41
272 282 3.330766 GCAACTCTGCGATCGTACT 57.669 52.632 17.81 0.00 39.20 2.73
276 286 2.546195 ACTCTGCGATCGTACTTGAC 57.454 50.000 17.81 0.00 0.00 3.18
282 292 3.534554 TGCGATCGTACTTGACCTACTA 58.465 45.455 17.81 0.00 0.00 1.82
284 294 3.303659 GCGATCGTACTTGACCTACTACC 60.304 52.174 17.81 0.00 0.00 3.18
288 298 2.352960 CGTACTTGACCTACTACCCGAC 59.647 54.545 0.00 0.00 0.00 4.79
304 314 3.550974 ACGAGAGTGTGCAACCCT 58.449 55.556 0.00 0.00 46.97 4.34
350 360 3.337889 GCGCGTGTGCAACTCTCA 61.338 61.111 8.43 0.00 42.97 3.27
353 363 1.566563 GCGTGTGCAACTCTCACAG 59.433 57.895 5.39 0.23 44.11 3.66
388 398 4.743057 ACTATGCTGACAAGAGTATGCA 57.257 40.909 0.00 0.00 39.31 3.96
395 405 2.502947 TGACAAGAGTATGCAGCTCCAT 59.497 45.455 14.99 0.00 33.69 3.41
397 407 1.602851 CAAGAGTATGCAGCTCCATGC 59.397 52.381 14.99 0.00 46.68 4.06
399 409 1.226686 GAGTATGCAGCTCCATGCCG 61.227 60.000 0.00 0.00 45.91 5.69
489 500 3.220999 TACAACTCTGCAGCCGCGT 62.221 57.895 9.47 6.38 42.97 6.01
504 515 3.081133 CGTGTGTGCGACTATGCC 58.919 61.111 0.00 0.00 0.00 4.40
555 566 1.666553 CCAACTACGCGGCAGTCAA 60.667 57.895 12.47 0.00 0.00 3.18
599 610 3.760537 TGTGCAACTTTACACGGTTTTC 58.239 40.909 0.00 0.00 39.71 2.29
618 629 6.534793 GGTTTTCCGACAACCGTAGAATATTA 59.465 38.462 0.68 0.00 34.59 0.98
690 702 5.398603 TCAACAACCACAAAACATGAACT 57.601 34.783 0.00 0.00 0.00 3.01
691 703 5.167121 TCAACAACCACAAAACATGAACTG 58.833 37.500 0.00 0.00 0.00 3.16
836 853 2.397597 AGTGTTGGAAGTTGGGCATTT 58.602 42.857 0.00 0.00 0.00 2.32
904 921 4.162040 ACCCAGAAATCAGGCATAGAAG 57.838 45.455 0.00 0.00 0.00 2.85
920 937 2.212420 AGAAGATCCCTTTGCCTCCAT 58.788 47.619 0.00 0.00 31.62 3.41
1040 1072 2.681778 CCGGCTGGTGACTCCTCT 60.682 66.667 2.29 0.00 37.07 3.69
1044 1076 1.676384 GCTGGTGACTCCTCTTGCT 59.324 57.895 0.00 0.00 37.07 3.91
1086 1118 0.617249 CCTCCCTCTTCTCAGCCTGT 60.617 60.000 0.00 0.00 0.00 4.00
1348 1408 4.884257 GCGGCGCGGGTTGATCTA 62.884 66.667 19.09 0.00 0.00 1.98
1428 1498 4.830765 TACGCCGACTGCCATGGC 62.831 66.667 30.54 30.54 45.39 4.40
1463 1533 1.689575 CGAGAGAGGGGAAATCAGGGA 60.690 57.143 0.00 0.00 0.00 4.20
1473 1564 2.379005 GAAATCAGGGATGGGTTGGTC 58.621 52.381 0.00 0.00 0.00 4.02
1474 1565 0.255890 AATCAGGGATGGGTTGGTCG 59.744 55.000 0.00 0.00 0.00 4.79
1475 1566 0.914417 ATCAGGGATGGGTTGGTCGT 60.914 55.000 0.00 0.00 0.00 4.34
1476 1567 1.131303 TCAGGGATGGGTTGGTCGTT 61.131 55.000 0.00 0.00 0.00 3.85
1477 1568 0.676782 CAGGGATGGGTTGGTCGTTC 60.677 60.000 0.00 0.00 0.00 3.95
1478 1569 1.743995 GGGATGGGTTGGTCGTTCG 60.744 63.158 0.00 0.00 0.00 3.95
1479 1570 1.743995 GGATGGGTTGGTCGTTCGG 60.744 63.158 0.00 0.00 0.00 4.30
1480 1571 1.743995 GATGGGTTGGTCGTTCGGG 60.744 63.158 0.00 0.00 0.00 5.14
1481 1572 3.912745 ATGGGTTGGTCGTTCGGGC 62.913 63.158 0.00 0.00 0.00 6.13
1500 1591 2.280797 GCAGTGGGTCTTGTCGCA 60.281 61.111 0.00 0.00 0.00 5.10
1501 1592 2.320587 GCAGTGGGTCTTGTCGCAG 61.321 63.158 0.00 0.00 0.00 5.18
1540 1631 1.448893 GCGTGAGGATACGGGCAAA 60.449 57.895 0.00 0.00 43.87 3.68
1623 1714 8.103948 AGATTTTAGGATAAATGAATGCGGAG 57.896 34.615 0.00 0.00 0.00 4.63
1632 1723 2.042686 TGAATGCGGAGGAAGGAATG 57.957 50.000 0.00 0.00 0.00 2.67
1635 1726 2.897350 GCGGAGGAAGGAATGCGG 60.897 66.667 0.00 0.00 0.00 5.69
1689 1780 0.104304 AAGCAGTTGGAACGTCGTCT 59.896 50.000 0.00 0.00 0.00 4.18
1715 1806 0.036388 TCCAAGAGTCACGGCAATCC 60.036 55.000 0.00 0.00 0.00 3.01
1716 1807 1.026718 CCAAGAGTCACGGCAATCCC 61.027 60.000 0.00 0.00 0.00 3.85
1717 1808 1.026718 CAAGAGTCACGGCAATCCCC 61.027 60.000 0.00 0.00 0.00 4.81
1724 1815 2.653702 CGGCAATCCCCGCAAAAA 59.346 55.556 0.00 0.00 42.03 1.94
1744 1835 3.837213 AAAAGTCACGGCAATCAGATG 57.163 42.857 0.00 0.00 0.00 2.90
1745 1836 1.089920 AAGTCACGGCAATCAGATGC 58.910 50.000 0.00 0.00 45.67 3.91
1752 1843 3.196040 GCAATCAGATGCCTTGGGA 57.804 52.632 0.00 0.00 40.49 4.37
1753 1844 1.030457 GCAATCAGATGCCTTGGGAG 58.970 55.000 0.00 0.00 40.49 4.30
1755 1846 2.731572 CAATCAGATGCCTTGGGAGTT 58.268 47.619 0.00 0.00 0.00 3.01
1756 1847 3.094572 CAATCAGATGCCTTGGGAGTTT 58.905 45.455 0.00 0.00 0.00 2.66
1757 1848 2.978156 TCAGATGCCTTGGGAGTTTT 57.022 45.000 0.00 0.00 0.00 2.43
1758 1849 3.243359 TCAGATGCCTTGGGAGTTTTT 57.757 42.857 0.00 0.00 0.00 1.94
1779 1870 3.639672 TTCCGATAAACTTCTTCCCCC 57.360 47.619 0.00 0.00 0.00 5.40
1781 1872 3.187112 TCCGATAAACTTCTTCCCCCTT 58.813 45.455 0.00 0.00 0.00 3.95
1782 1873 4.364470 TCCGATAAACTTCTTCCCCCTTA 58.636 43.478 0.00 0.00 0.00 2.69
1784 1875 5.430745 TCCGATAAACTTCTTCCCCCTTATT 59.569 40.000 0.00 0.00 0.00 1.40
1785 1876 5.763698 CCGATAAACTTCTTCCCCCTTATTC 59.236 44.000 0.00 0.00 0.00 1.75
1786 1877 6.354130 CGATAAACTTCTTCCCCCTTATTCA 58.646 40.000 0.00 0.00 0.00 2.57
1787 1878 6.998673 CGATAAACTTCTTCCCCCTTATTCAT 59.001 38.462 0.00 0.00 0.00 2.57
1788 1879 7.502561 CGATAAACTTCTTCCCCCTTATTCATT 59.497 37.037 0.00 0.00 0.00 2.57
1789 1880 9.201989 GATAAACTTCTTCCCCCTTATTCATTT 57.798 33.333 0.00 0.00 0.00 2.32
1794 1885 9.868160 ACTTCTTCCCCCTTATTCATTTATAAG 57.132 33.333 0.00 0.00 37.68 1.73
1795 1886 9.868160 CTTCTTCCCCCTTATTCATTTATAAGT 57.132 33.333 0.00 0.00 36.70 2.24
1876 1967 4.635765 CCGTGGAGACATTGTATGTTCAAT 59.364 41.667 0.00 0.00 45.03 2.57
1951 2042 3.260884 AGTCACGGCTCTTCCTATTTTGA 59.739 43.478 0.00 0.00 0.00 2.69
1998 2089 2.027653 TCTGATTATGGCGTGACAACCA 60.028 45.455 1.13 1.13 41.06 3.67
2005 2096 1.308069 GGCGTGACAACCAGCATCAT 61.308 55.000 0.00 0.00 0.00 2.45
2028 2119 8.394877 TCATTAACTGGCATTTGTAAATACTCG 58.605 33.333 0.00 0.00 0.00 4.18
2030 2121 5.545658 ACTGGCATTTGTAAATACTCGTG 57.454 39.130 0.00 0.00 0.00 4.35
2034 2125 7.551262 ACTGGCATTTGTAAATACTCGTGATAA 59.449 33.333 0.00 0.00 0.00 1.75
2087 2178 8.742777 AGTTACATGCATGAATAAAATGACTGT 58.257 29.630 32.75 9.32 0.00 3.55
2125 2216 9.198475 CTCTTAGACTCACCTAAAATAACCCTA 57.802 37.037 0.00 0.00 0.00 3.53
2128 2219 9.948964 TTAGACTCACCTAAAATAACCCTAAAC 57.051 33.333 0.00 0.00 0.00 2.01
2218 2317 7.895759 ACCAAACACATTTCAAATGTAGCTAT 58.104 30.769 15.51 0.00 0.00 2.97
2219 2318 8.367156 ACCAAACACATTTCAAATGTAGCTATT 58.633 29.630 15.51 4.35 0.00 1.73
2220 2319 9.206870 CCAAACACATTTCAAATGTAGCTATTT 57.793 29.630 15.51 8.57 0.00 1.40
2260 2359 6.486320 TGACACCATATACCATGCATAACTTG 59.514 38.462 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 1.208165 TCCCCTCAGCTTCTTTCCCC 61.208 60.000 0.00 0.00 0.00 4.81
33 41 2.045926 GCTCCCAACATCGTGCCT 60.046 61.111 0.00 0.00 0.00 4.75
97 105 0.812811 TCTCTCCCGATACGTCACCG 60.813 60.000 0.00 0.00 40.83 4.94
100 108 2.286872 GTCTTCTCTCCCGATACGTCA 58.713 52.381 0.00 0.00 0.00 4.35
102 110 1.677942 GGTCTTCTCTCCCGATACGT 58.322 55.000 0.00 0.00 0.00 3.57
134 142 3.502920 GATGTGTGTAGTGTCTCCTTCG 58.497 50.000 0.00 0.00 0.00 3.79
152 160 2.586079 AATCGAGCGCACCGGATG 60.586 61.111 9.46 3.68 0.00 3.51
156 164 1.635663 AAAAGGAATCGAGCGCACCG 61.636 55.000 11.47 13.44 0.00 4.94
178 187 2.447887 CGTGCGAGCACAGGTCATC 61.448 63.158 25.18 0.00 46.47 2.92
179 188 2.433145 CGTGCGAGCACAGGTCAT 60.433 61.111 25.18 0.00 46.47 3.06
180 189 3.558099 CTCGTGCGAGCACAGGTCA 62.558 63.158 25.18 5.15 46.47 4.02
190 200 1.080093 GTTGGATGACCTCGTGCGA 60.080 57.895 0.00 0.00 37.04 5.10
261 271 2.362736 AGTAGGTCAAGTACGATCGCA 58.637 47.619 16.60 0.00 0.00 5.10
270 280 1.003580 TCGTCGGGTAGTAGGTCAAGT 59.996 52.381 0.00 0.00 0.00 3.16
272 282 1.278985 TCTCGTCGGGTAGTAGGTCAA 59.721 52.381 0.00 0.00 0.00 3.18
276 286 1.297664 CACTCTCGTCGGGTAGTAGG 58.702 60.000 0.00 0.00 0.00 3.18
282 292 2.495409 TTGCACACTCTCGTCGGGT 61.495 57.895 0.00 0.00 0.00 5.28
284 294 2.022129 GGTTGCACACTCTCGTCGG 61.022 63.158 0.00 0.00 0.00 4.79
288 298 1.069765 ACAGGGTTGCACACTCTCG 59.930 57.895 0.00 0.00 31.53 4.04
304 314 2.194889 TCGCACACGTAGGACCACA 61.195 57.895 0.00 0.00 41.18 4.17
350 360 1.663702 GTAACTCACGCACGCCTGT 60.664 57.895 0.00 0.00 0.00 4.00
353 363 0.921347 CATAGTAACTCACGCACGCC 59.079 55.000 0.00 0.00 0.00 5.68
441 452 2.895682 GCACAGTCGCACATGCACA 61.896 57.895 4.49 0.00 42.21 4.57
446 457 2.023771 CGTCAGCACAGTCGCACAT 61.024 57.895 0.00 0.00 0.00 3.21
472 483 4.609018 ACGCGGCTGCAGAGTTGT 62.609 61.111 20.43 7.11 42.97 3.32
504 515 1.488957 GAAGTTGCACACTCTCGCG 59.511 57.895 0.00 0.00 32.94 5.87
555 566 2.289195 CCATGCTTTTGGAGTTGCACAT 60.289 45.455 0.00 0.00 39.25 3.21
589 600 2.396700 GGTTGTCGGAAAACCGTGT 58.603 52.632 14.11 0.00 37.90 4.49
599 610 7.912383 ACATTTTAATATTCTACGGTTGTCGG 58.088 34.615 0.00 0.00 44.45 4.79
690 702 1.879380 CATGTTTCTTCCCTTGACGCA 59.121 47.619 0.00 0.00 0.00 5.24
691 703 1.401539 GCATGTTTCTTCCCTTGACGC 60.402 52.381 0.00 0.00 0.00 5.19
757 773 8.328758 ACCAAGAATTCAGATTATGAGGTGTTA 58.671 33.333 8.44 0.00 39.68 2.41
769 785 3.508793 CCTGCACAACCAAGAATTCAGAT 59.491 43.478 8.44 0.00 0.00 2.90
836 853 1.735700 GCTCAACGTGGTGATCATCGA 60.736 52.381 19.22 0.00 0.00 3.59
904 921 1.213926 AGTGATGGAGGCAAAGGGATC 59.786 52.381 0.00 0.00 0.00 3.36
920 937 4.348020 AATACAGAGAGGGGGTTAGTGA 57.652 45.455 0.00 0.00 0.00 3.41
1040 1072 1.885388 CCGACAACCACGACAGCAA 60.885 57.895 0.00 0.00 0.00 3.91
1044 1076 2.732016 CTCCCGACAACCACGACA 59.268 61.111 0.00 0.00 0.00 4.35
1171 1203 2.178325 TGGAGGACGGTATAATCCCAGA 59.822 50.000 0.00 0.00 35.38 3.86
1348 1408 4.827087 CGCATCCTCCGCTGCTGT 62.827 66.667 0.00 0.00 36.23 4.40
1429 1499 3.869272 CTCGCGAGCAACCATGGC 61.869 66.667 25.07 0.00 0.00 4.40
1430 1500 2.125552 TCTCGCGAGCAACCATGG 60.126 61.111 30.97 11.19 0.00 3.66
1432 1502 1.140589 CTCTCTCGCGAGCAACCAT 59.859 57.895 30.97 0.00 37.19 3.55
1433 1503 2.568612 CTCTCTCGCGAGCAACCA 59.431 61.111 30.97 12.77 37.19 3.67
1434 1504 2.202676 CCTCTCTCGCGAGCAACC 60.203 66.667 30.97 0.00 37.19 3.77
1435 1505 2.202676 CCCTCTCTCGCGAGCAAC 60.203 66.667 30.97 0.00 37.19 4.17
1436 1506 3.452786 CCCCTCTCTCGCGAGCAA 61.453 66.667 30.97 19.18 37.19 3.91
1437 1507 3.938637 TTCCCCTCTCTCGCGAGCA 62.939 63.158 30.97 18.25 37.19 4.26
1440 1510 0.683179 TGATTTCCCCTCTCTCGCGA 60.683 55.000 9.26 9.26 0.00 5.87
1463 1533 2.349755 CCCGAACGACCAACCCAT 59.650 61.111 0.00 0.00 0.00 4.00
1479 1570 4.643387 ACAAGACCCACTGCGGCC 62.643 66.667 0.00 0.00 0.00 6.13
1480 1571 3.050275 GACAAGACCCACTGCGGC 61.050 66.667 0.00 0.00 0.00 6.53
1481 1572 2.738521 CGACAAGACCCACTGCGG 60.739 66.667 0.00 0.00 0.00 5.69
1482 1573 3.414700 GCGACAAGACCCACTGCG 61.415 66.667 0.00 0.00 0.00 5.18
1483 1574 2.280797 TGCGACAAGACCCACTGC 60.281 61.111 0.00 0.00 0.00 4.40
1484 1575 0.668706 CTCTGCGACAAGACCCACTG 60.669 60.000 0.00 0.00 0.00 3.66
1485 1576 1.668294 CTCTGCGACAAGACCCACT 59.332 57.895 0.00 0.00 0.00 4.00
1486 1577 2.029844 GCTCTGCGACAAGACCCAC 61.030 63.158 0.00 0.00 0.00 4.61
1487 1578 2.343758 GCTCTGCGACAAGACCCA 59.656 61.111 0.00 0.00 0.00 4.51
1540 1631 2.496817 GCTCCTGTCCGCTCGATT 59.503 61.111 0.00 0.00 0.00 3.34
1570 1661 2.493675 TGCTTACGCATTATTTGGGCAA 59.506 40.909 0.00 0.00 42.25 4.52
1612 1703 2.579873 CATTCCTTCCTCCGCATTCAT 58.420 47.619 0.00 0.00 0.00 2.57
1623 1714 3.592898 AAAAATGACCGCATTCCTTCC 57.407 42.857 0.00 0.00 43.71 3.46
1649 1740 5.388371 GCTTTGATCGGTTGTATTTTTGCAC 60.388 40.000 0.00 0.00 0.00 4.57
1659 1750 1.608590 CCAACTGCTTTGATCGGTTGT 59.391 47.619 12.06 0.00 44.92 3.32
1723 1814 3.612479 GCATCTGATTGCCGTGACTTTTT 60.612 43.478 0.00 0.00 36.60 1.94
1724 1815 2.095059 GCATCTGATTGCCGTGACTTTT 60.095 45.455 0.00 0.00 36.60 2.27
1725 1816 1.470098 GCATCTGATTGCCGTGACTTT 59.530 47.619 0.00 0.00 36.60 2.66
1726 1817 1.089920 GCATCTGATTGCCGTGACTT 58.910 50.000 0.00 0.00 36.60 3.01
1727 1818 2.772739 GCATCTGATTGCCGTGACT 58.227 52.632 0.00 0.00 36.60 3.41
1734 1825 1.030457 CTCCCAAGGCATCTGATTGC 58.970 55.000 0.00 0.00 42.01 3.56
1735 1826 2.431954 ACTCCCAAGGCATCTGATTG 57.568 50.000 0.00 0.00 0.00 2.67
1737 1828 3.463048 AAAACTCCCAAGGCATCTGAT 57.537 42.857 0.00 0.00 0.00 2.90
1738 1829 2.978156 AAAACTCCCAAGGCATCTGA 57.022 45.000 0.00 0.00 0.00 3.27
1756 1847 4.768448 GGGGGAAGAAGTTTATCGGAAAAA 59.232 41.667 0.00 0.00 0.00 1.94
1757 1848 4.043686 AGGGGGAAGAAGTTTATCGGAAAA 59.956 41.667 0.00 0.00 0.00 2.29
1758 1849 3.590182 AGGGGGAAGAAGTTTATCGGAAA 59.410 43.478 0.00 0.00 0.00 3.13
1761 1852 3.646736 AAGGGGGAAGAAGTTTATCGG 57.353 47.619 0.00 0.00 0.00 4.18
1762 1853 6.354130 TGAATAAGGGGGAAGAAGTTTATCG 58.646 40.000 0.00 0.00 0.00 2.92
1763 1854 8.768501 AATGAATAAGGGGGAAGAAGTTTATC 57.231 34.615 0.00 0.00 0.00 1.75
1769 1860 9.868160 ACTTATAAATGAATAAGGGGGAAGAAG 57.132 33.333 10.50 0.00 41.70 2.85
1788 1879 9.439500 ACCAAAACGATGCTACTTTACTTATAA 57.561 29.630 0.00 0.00 0.00 0.98
1790 1881 7.916914 ACCAAAACGATGCTACTTTACTTAT 57.083 32.000 0.00 0.00 0.00 1.73
1791 1882 9.439500 AATACCAAAACGATGCTACTTTACTTA 57.561 29.630 0.00 0.00 0.00 2.24
1792 1883 7.916914 ATACCAAAACGATGCTACTTTACTT 57.083 32.000 0.00 0.00 0.00 2.24
1793 1884 7.916914 AATACCAAAACGATGCTACTTTACT 57.083 32.000 0.00 0.00 0.00 2.24
1798 1889 9.826574 TCTAATTAATACCAAAACGATGCTACT 57.173 29.630 0.00 0.00 0.00 2.57
1800 1891 8.770828 GCTCTAATTAATACCAAAACGATGCTA 58.229 33.333 0.00 0.00 0.00 3.49
1801 1892 7.499232 AGCTCTAATTAATACCAAAACGATGCT 59.501 33.333 0.00 0.00 0.00 3.79
1802 1893 7.639945 AGCTCTAATTAATACCAAAACGATGC 58.360 34.615 0.00 0.00 0.00 3.91
1804 1895 8.989980 GCTAGCTCTAATTAATACCAAAACGAT 58.010 33.333 7.70 0.00 0.00 3.73
1805 1896 7.440255 GGCTAGCTCTAATTAATACCAAAACGA 59.560 37.037 15.72 0.00 0.00 3.85
1806 1897 7.225931 TGGCTAGCTCTAATTAATACCAAAACG 59.774 37.037 15.72 0.00 0.00 3.60
1807 1898 8.446599 TGGCTAGCTCTAATTAATACCAAAAC 57.553 34.615 15.72 0.00 0.00 2.43
1808 1899 9.640952 AATGGCTAGCTCTAATTAATACCAAAA 57.359 29.630 15.72 0.00 0.00 2.44
1809 1900 9.066892 CAATGGCTAGCTCTAATTAATACCAAA 57.933 33.333 15.72 0.00 0.00 3.28
1810 1901 7.665559 CCAATGGCTAGCTCTAATTAATACCAA 59.334 37.037 15.72 0.00 0.00 3.67
1811 1902 7.017155 TCCAATGGCTAGCTCTAATTAATACCA 59.983 37.037 15.72 0.00 0.00 3.25
1812 1903 7.334671 GTCCAATGGCTAGCTCTAATTAATACC 59.665 40.741 15.72 0.00 0.00 2.73
1825 1916 1.593196 TATTGCGTCCAATGGCTAGC 58.407 50.000 6.04 6.04 41.58 3.42
1876 1967 0.469494 ACCATGTGCACAGAGTCACA 59.531 50.000 25.84 0.00 45.81 3.58
1998 2089 6.528537 TTACAAATGCCAGTTAATGATGCT 57.471 33.333 0.00 0.00 0.00 3.79
2005 2096 7.388224 TCACGAGTATTTACAAATGCCAGTTAA 59.612 33.333 0.00 0.00 32.30 2.01
2072 2163 6.587206 TGCAATCCACAGTCATTTTATTCA 57.413 33.333 0.00 0.00 0.00 2.57
2076 2167 5.304101 AGGTTTGCAATCCACAGTCATTTTA 59.696 36.000 24.89 0.00 0.00 1.52
2087 2178 4.041567 TGAGTCTAAGAGGTTTGCAATCCA 59.958 41.667 24.89 6.71 0.00 3.41
2125 2216 9.349713 TCACATATTTTAGGTGAGTCTTTGTTT 57.650 29.630 0.00 0.00 43.60 2.83
2245 2344 6.350110 GGAAAAAGCTCAAGTTATGCATGGTA 60.350 38.462 10.16 0.00 0.00 3.25
2260 2359 4.989279 TCATAAGGCATGGAAAAAGCTC 57.011 40.909 0.00 0.00 35.16 4.09


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

AutoCloner maintained by Alex Coulton.