Multiple sequence alignment - TraesCS5B01G248900

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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 TraesCS5B01G248900 chr5B 100.000 1667 0 0 793 2459 431063248 431061582 0.000000e+00 3079
1 TraesCS5B01G248900 chr5B 100.000 462 0 0 1 462 431064040 431063579 0.000000e+00 854
2 TraesCS5B01G248900 chr5D 95.867 1113 42 2 810 1919 365084494 365083383 0.000000e+00 1797
3 TraesCS5B01G248900 chr5D 96.622 444 9 2 1 440 365085082 365084641 0.000000e+00 732
4 TraesCS5B01G248900 chr5D 90.443 429 27 7 2043 2459 365083384 365082958 9.940000e-154 553
5 TraesCS5B01G248900 chr5D 99.231 130 1 0 1915 2044 241844207 241844078 4.090000e-58 235
6 TraesCS5B01G248900 chr5D 97.778 135 3 0 1915 2049 154533447 154533581 1.470000e-57 233
7 TraesCS5B01G248900 chr5D 97.761 134 2 1 1915 2048 115924519 115924651 1.900000e-56 230
8 TraesCS5B01G248900 chr5A 93.292 1133 65 7 810 1937 466574423 466573297 0.000000e+00 1661
9 TraesCS5B01G248900 chr5A 92.208 462 13 10 1 440 466575043 466574583 1.240000e-177 632
10 TraesCS5B01G248900 chr5A 91.051 447 25 7 2025 2459 466573251 466572808 7.570000e-165 590
11 TraesCS5B01G248900 chr7B 98.519 135 0 2 1915 2048 680907569 680907436 1.140000e-58 237
12 TraesCS5B01G248900 chr7B 97.744 133 3 0 1913 2045 339766030 339766162 1.900000e-56 230
13 TraesCS5B01G248900 chr6D 97.778 135 1 2 1912 2044 428405831 428405965 5.290000e-57 231
14 TraesCS5B01G248900 chr4B 99.219 128 1 0 1920 2047 340640768 340640641 5.290000e-57 231
15 TraesCS5B01G248900 chr2A 97.037 135 4 0 1910 2044 333746023 333746157 6.840000e-56 228
16 TraesCS5B01G248900 chr7D 96.350 137 5 0 1908 2044 576290191 576290327 2.460000e-55 226


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 TraesCS5B01G248900 chr5B 431061582 431064040 2458 True 1966.500000 3079 100.000000 1 2459 2 chr5B.!!$R1 2458
1 TraesCS5B01G248900 chr5D 365082958 365085082 2124 True 1027.333333 1797 94.310667 1 2459 3 chr5D.!!$R2 2458
2 TraesCS5B01G248900 chr5A 466572808 466575043 2235 True 961.000000 1661 92.183667 1 2459 3 chr5A.!!$R1 2458

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
827 919 0.751643 GCGGGTTATGGGTGCTCAAT 60.752 55.0 0.0 0.0 0.0 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2026 2205 0.115745 ACTACTCCCTCCGTCCCAAA 59.884 55.0 0.0 0.0 0.0 3.28 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
208 213 1.072965 CAGGTGCATCTAATCTCCCCC 59.927 57.143 0.00 0.00 0.00 5.40
430 456 4.343814 CCCTTTCCCATTTAAACACACTGT 59.656 41.667 0.00 0.00 0.00 3.55
827 919 0.751643 GCGGGTTATGGGTGCTCAAT 60.752 55.000 0.00 0.00 0.00 2.57
832 924 1.873591 GTTATGGGTGCTCAATAGGCG 59.126 52.381 0.00 0.00 0.00 5.52
949 1041 1.001378 CCTTGTTCTGCCTTGTTTCCG 60.001 52.381 0.00 0.00 0.00 4.30
991 1083 2.436542 TCTTTTGGTCTTCCACTCCGAA 59.563 45.455 0.00 0.00 44.22 4.30
1047 1139 1.956170 CGGCGAAGAGTGCAACAGT 60.956 57.895 0.00 0.00 41.43 3.55
1194 1286 1.390463 GAAGAGAACAACGCGGATGAC 59.610 52.381 19.17 12.50 0.00 3.06
1237 1329 1.028868 GTCTGATGCTTCCACAGGGC 61.029 60.000 0.00 0.00 33.19 5.19
1324 1416 4.430007 CAATGAACATGGCAAGGATGAAG 58.570 43.478 0.00 0.00 0.00 3.02
1348 1440 3.067833 GCTGAGACACTTACCAAGTTCC 58.932 50.000 0.00 0.00 40.46 3.62
1371 1463 0.179078 CAGGCAGCAACAAAAAGGCA 60.179 50.000 0.00 0.00 0.00 4.75
1395 1487 1.430992 AGGTGAAGAAAGGGGACGAA 58.569 50.000 0.00 0.00 0.00 3.85
1486 1578 8.677300 TGATGTAAAAACCTTGCTCATCTATTC 58.323 33.333 0.00 0.00 33.67 1.75
1508 1603 8.916628 ATTCCTTTCTTATCAAGCTAGAATCC 57.083 34.615 0.00 0.00 0.00 3.01
1521 1616 2.706339 AGAATCCATGTCAGAGGCAC 57.294 50.000 0.00 0.00 0.00 5.01
1590 1685 1.917872 TGTCCATTTGTTAGCCACCC 58.082 50.000 0.00 0.00 0.00 4.61
1625 1720 3.998913 TCCTATGCAAATCTGTCACCA 57.001 42.857 0.00 0.00 0.00 4.17
1775 1871 6.494146 ACCAACCCAAAAAGATAATTCGGTTA 59.506 34.615 0.00 0.00 31.32 2.85
1795 1891 0.615827 AATGGCCTTCTGCTTTCCCC 60.616 55.000 3.32 0.00 40.92 4.81
1796 1892 2.751837 GGCCTTCTGCTTTCCCCG 60.752 66.667 0.00 0.00 40.92 5.73
1833 1929 8.243426 GGTCAGAATATCTGCATGTGTTAAAAA 58.757 33.333 2.48 0.00 43.95 1.94
1888 1984 6.090763 TGCTTTATCGTGTGTCTGTCAATAAG 59.909 38.462 0.00 0.00 0.00 1.73
1919 2098 7.478520 ACGTTTGGTGAGCAATCTAATATAC 57.521 36.000 0.00 0.00 0.00 1.47
1920 2099 7.272978 ACGTTTGGTGAGCAATCTAATATACT 58.727 34.615 0.00 0.00 0.00 2.12
1921 2100 7.438459 ACGTTTGGTGAGCAATCTAATATACTC 59.562 37.037 0.00 0.00 0.00 2.59
1922 2101 7.095607 CGTTTGGTGAGCAATCTAATATACTCC 60.096 40.741 0.00 0.00 0.00 3.85
1923 2102 6.360370 TGGTGAGCAATCTAATATACTCCC 57.640 41.667 0.00 0.00 0.00 4.30
1924 2103 6.084738 TGGTGAGCAATCTAATATACTCCCT 58.915 40.000 0.00 0.00 0.00 4.20
1925 2104 6.211584 TGGTGAGCAATCTAATATACTCCCTC 59.788 42.308 0.00 0.00 0.00 4.30
1926 2105 6.351456 GGTGAGCAATCTAATATACTCCCTCC 60.351 46.154 0.00 0.00 0.00 4.30
1927 2106 5.419155 TGAGCAATCTAATATACTCCCTCCG 59.581 44.000 0.00 0.00 0.00 4.63
1928 2107 5.334421 AGCAATCTAATATACTCCCTCCGT 58.666 41.667 0.00 0.00 0.00 4.69
1929 2108 5.419471 AGCAATCTAATATACTCCCTCCGTC 59.581 44.000 0.00 0.00 0.00 4.79
1930 2109 5.394333 GCAATCTAATATACTCCCTCCGTCC 60.394 48.000 0.00 0.00 0.00 4.79
1931 2110 4.313020 TCTAATATACTCCCTCCGTCCC 57.687 50.000 0.00 0.00 0.00 4.46
1932 2111 3.659195 TCTAATATACTCCCTCCGTCCCA 59.341 47.826 0.00 0.00 0.00 4.37
1933 2112 3.339713 AATATACTCCCTCCGTCCCAA 57.660 47.619 0.00 0.00 0.00 4.12
1934 2113 2.852714 TATACTCCCTCCGTCCCAAA 57.147 50.000 0.00 0.00 0.00 3.28
1935 2114 1.961133 ATACTCCCTCCGTCCCAAAA 58.039 50.000 0.00 0.00 0.00 2.44
1936 2115 1.961133 TACTCCCTCCGTCCCAAAAT 58.039 50.000 0.00 0.00 0.00 1.82
1937 2116 1.073098 ACTCCCTCCGTCCCAAAATT 58.927 50.000 0.00 0.00 0.00 1.82
1938 2117 1.004394 ACTCCCTCCGTCCCAAAATTC 59.996 52.381 0.00 0.00 0.00 2.17
1939 2118 1.282157 CTCCCTCCGTCCCAAAATTCT 59.718 52.381 0.00 0.00 0.00 2.40
1940 2119 1.708551 TCCCTCCGTCCCAAAATTCTT 59.291 47.619 0.00 0.00 0.00 2.52
1941 2120 1.818674 CCCTCCGTCCCAAAATTCTTG 59.181 52.381 0.00 0.00 0.00 3.02
1942 2121 2.514803 CCTCCGTCCCAAAATTCTTGT 58.485 47.619 0.00 0.00 0.00 3.16
1943 2122 2.488153 CCTCCGTCCCAAAATTCTTGTC 59.512 50.000 0.00 0.00 0.00 3.18
1944 2123 3.412386 CTCCGTCCCAAAATTCTTGTCT 58.588 45.455 0.00 0.00 0.00 3.41
1945 2124 3.821033 CTCCGTCCCAAAATTCTTGTCTT 59.179 43.478 0.00 0.00 0.00 3.01
1946 2125 4.975631 TCCGTCCCAAAATTCTTGTCTTA 58.024 39.130 0.00 0.00 0.00 2.10
1947 2126 5.378332 TCCGTCCCAAAATTCTTGTCTTAA 58.622 37.500 0.00 0.00 0.00 1.85
1948 2127 5.828859 TCCGTCCCAAAATTCTTGTCTTAAA 59.171 36.000 0.00 0.00 0.00 1.52
1949 2128 6.492087 TCCGTCCCAAAATTCTTGTCTTAAAT 59.508 34.615 0.00 0.00 0.00 1.40
1950 2129 7.014808 TCCGTCCCAAAATTCTTGTCTTAAATT 59.985 33.333 0.00 0.00 0.00 1.82
1951 2130 7.655732 CCGTCCCAAAATTCTTGTCTTAAATTT 59.344 33.333 0.00 0.00 34.86 1.82
1952 2131 8.487176 CGTCCCAAAATTCTTGTCTTAAATTTG 58.513 33.333 0.00 0.00 33.95 2.32
1953 2132 9.325198 GTCCCAAAATTCTTGTCTTAAATTTGT 57.675 29.630 0.00 0.00 33.95 2.83
1954 2133 9.541143 TCCCAAAATTCTTGTCTTAAATTTGTC 57.459 29.630 0.00 0.00 33.95 3.18
1955 2134 9.546428 CCCAAAATTCTTGTCTTAAATTTGTCT 57.454 29.630 0.00 0.00 33.95 3.41
1963 2142 9.582431 TCTTGTCTTAAATTTGTCTAGATACGG 57.418 33.333 0.00 0.00 0.00 4.02
1964 2143 9.582431 CTTGTCTTAAATTTGTCTAGATACGGA 57.418 33.333 0.00 0.00 0.00 4.69
1966 2145 9.529325 TGTCTTAAATTTGTCTAGATACGGATG 57.471 33.333 0.00 0.00 0.00 3.51
1967 2146 9.530633 GTCTTAAATTTGTCTAGATACGGATGT 57.469 33.333 0.00 0.00 0.00 3.06
1983 2162 8.792831 ATACGGATGTATCTAACACTAAAACG 57.207 34.615 0.00 0.00 42.09 3.60
1984 2163 6.624423 ACGGATGTATCTAACACTAAAACGT 58.376 36.000 0.00 0.00 42.09 3.99
1985 2164 7.761409 ACGGATGTATCTAACACTAAAACGTA 58.239 34.615 0.00 0.00 42.09 3.57
1986 2165 8.243426 ACGGATGTATCTAACACTAAAACGTAA 58.757 33.333 0.00 0.00 42.09 3.18
1987 2166 8.526681 CGGATGTATCTAACACTAAAACGTAAC 58.473 37.037 0.00 0.00 42.09 2.50
1988 2167 9.578439 GGATGTATCTAACACTAAAACGTAACT 57.422 33.333 0.00 0.00 42.09 2.24
1998 2177 9.578439 AACACTAAAACGTAACTAGATACATCC 57.422 33.333 10.40 0.00 0.00 3.51
1999 2178 7.912250 ACACTAAAACGTAACTAGATACATCCG 59.088 37.037 10.40 0.00 0.00 4.18
2000 2179 7.912250 CACTAAAACGTAACTAGATACATCCGT 59.088 37.037 10.40 0.16 0.00 4.69
2001 2180 9.109393 ACTAAAACGTAACTAGATACATCCGTA 57.891 33.333 10.40 0.00 0.00 4.02
2004 2183 9.807649 AAAACGTAACTAGATACATCCGTATTT 57.192 29.630 10.40 4.25 38.48 1.40
2007 2186 9.494271 ACGTAACTAGATACATCCGTATTTAGA 57.506 33.333 13.92 0.00 41.85 2.10
2008 2187 9.752274 CGTAACTAGATACATCCGTATTTAGAC 57.248 37.037 13.92 5.26 41.85 2.59
2019 2198 9.530633 ACATCCGTATTTAGACAAATCTAAGAC 57.469 33.333 0.00 0.83 45.93 3.01
2020 2199 9.529325 CATCCGTATTTAGACAAATCTAAGACA 57.471 33.333 9.81 0.00 45.93 3.41
2022 2201 9.582431 TCCGTATTTAGACAAATCTAAGACAAG 57.418 33.333 9.81 3.88 45.93 3.16
2023 2202 9.582431 CCGTATTTAGACAAATCTAAGACAAGA 57.418 33.333 9.81 0.00 45.93 3.02
2031 2210 8.579863 AGACAAATCTAAGACAAGAATTTTGGG 58.420 33.333 0.00 0.00 33.04 4.12
2032 2211 8.477419 ACAAATCTAAGACAAGAATTTTGGGA 57.523 30.769 0.00 0.00 33.04 4.37
2033 2212 8.360390 ACAAATCTAAGACAAGAATTTTGGGAC 58.640 33.333 0.00 0.00 33.04 4.46
2034 2213 6.743575 ATCTAAGACAAGAATTTTGGGACG 57.256 37.500 5.68 0.00 0.00 4.79
2035 2214 5.001232 TCTAAGACAAGAATTTTGGGACGG 58.999 41.667 0.00 0.00 0.00 4.79
2036 2215 3.502123 AGACAAGAATTTTGGGACGGA 57.498 42.857 0.00 0.00 0.00 4.69
2037 2216 3.412386 AGACAAGAATTTTGGGACGGAG 58.588 45.455 0.00 0.00 0.00 4.63
2038 2217 2.488153 GACAAGAATTTTGGGACGGAGG 59.512 50.000 0.00 0.00 0.00 4.30
2039 2218 1.818674 CAAGAATTTTGGGACGGAGGG 59.181 52.381 0.00 0.00 0.00 4.30
2040 2219 1.368374 AGAATTTTGGGACGGAGGGA 58.632 50.000 0.00 0.00 0.00 4.20
2041 2220 1.282157 AGAATTTTGGGACGGAGGGAG 59.718 52.381 0.00 0.00 0.00 4.30
2042 2221 1.004394 GAATTTTGGGACGGAGGGAGT 59.996 52.381 0.00 0.00 0.00 3.85
2043 2222 1.961133 ATTTTGGGACGGAGGGAGTA 58.039 50.000 0.00 0.00 0.00 2.59
2054 2233 4.459330 ACGGAGGGAGTAGTATTGTCTAC 58.541 47.826 0.00 0.00 40.14 2.59
2060 2239 5.892686 AGGGAGTAGTATTGTCTACCAGTTC 59.107 44.000 0.00 0.00 40.56 3.01
2256 2435 8.709386 AAGAAGCATTAGACAATGTACAGTAG 57.291 34.615 0.33 0.00 43.03 2.57
2298 2477 7.615582 TGCAGAATATTTCAAGAAGACGAAT 57.384 32.000 0.00 0.00 0.00 3.34
2303 2482 8.383619 AGAATATTTCAAGAAGACGAATCAACG 58.616 33.333 0.00 0.00 39.31 4.10
2306 2485 6.539649 TTTCAAGAAGACGAATCAACGATT 57.460 33.333 0.00 0.00 34.71 3.34
2325 2504 7.311364 ACGATTTACTGTACAAACAAGTGTT 57.689 32.000 0.00 0.00 40.50 3.32
2340 2519 3.275617 AGTGTTGTTTACAGGACAGCA 57.724 42.857 0.00 0.00 37.45 4.41
2355 2539 6.127591 ACAGGACAGCATAAGTAGACAAGTAG 60.128 42.308 0.00 0.00 0.00 2.57
2428 2613 3.354948 TGCGTCTACAGTAGTTCCCTA 57.645 47.619 7.50 0.00 0.00 3.53
2429 2614 3.689347 TGCGTCTACAGTAGTTCCCTAA 58.311 45.455 7.50 0.00 0.00 2.69
2430 2615 4.081406 TGCGTCTACAGTAGTTCCCTAAA 58.919 43.478 7.50 0.00 0.00 1.85
2432 2617 5.100943 GCGTCTACAGTAGTTCCCTAAAAG 58.899 45.833 7.50 0.00 0.00 2.27
2439 2630 2.959465 AGTTCCCTAAAAGCAGCAGT 57.041 45.000 0.00 0.00 0.00 4.40
2442 2633 2.403252 TCCCTAAAAGCAGCAGTAGC 57.597 50.000 0.00 0.00 42.56 3.58
2444 2635 2.239654 TCCCTAAAAGCAGCAGTAGCAT 59.760 45.455 0.00 0.00 45.49 3.79
2447 2638 3.311871 CCTAAAAGCAGCAGTAGCATCAG 59.688 47.826 0.00 0.00 45.49 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
132 133 6.604735 AGCATTAGATTACAAGGTTAAGCG 57.395 37.500 0.00 0.00 0.00 4.68
430 456 1.501170 TGTTTGGGGGTGAAAGGATGA 59.499 47.619 0.00 0.00 0.00 2.92
827 919 1.067142 CACTGTTCTTGCCTACGCCTA 60.067 52.381 0.00 0.00 0.00 3.93
949 1041 3.416156 AGAGACAAGAATGGCCAAGAAC 58.584 45.455 10.96 1.10 33.81 3.01
991 1083 0.179000 GAGGATTCCATGACAGGCGT 59.821 55.000 5.29 0.00 0.00 5.68
1012 1104 2.839098 GCCATCCCCGGTGATCAT 59.161 61.111 0.00 0.00 0.00 2.45
1013 1105 3.860605 CGCCATCCCCGGTGATCA 61.861 66.667 0.00 0.00 38.98 2.92
1047 1139 1.487300 TCGTCCACCCGGATTCATTA 58.513 50.000 0.73 0.00 45.33 1.90
1107 1199 0.609957 TGCTCCCTTCACTGCCATTG 60.610 55.000 0.00 0.00 0.00 2.82
1194 1286 3.579709 CAGGGAATCGTAATCTCCATCG 58.420 50.000 0.00 0.00 0.00 3.84
1206 1298 0.877649 CATCAGACGCCAGGGAATCG 60.878 60.000 0.00 0.00 0.00 3.34
1237 1329 2.486472 AGCACCTTCACTTGAGATGG 57.514 50.000 0.00 0.00 38.44 3.51
1324 1416 3.996480 ACTTGGTAAGTGTCTCAGCTTC 58.004 45.455 0.00 0.00 41.01 3.86
1348 1440 0.102120 TTTTTGTTGCTGCCTGTCGG 59.898 50.000 0.00 0.00 0.00 4.79
1371 1463 0.113190 CCCCTTTCTTCACCTTGCCT 59.887 55.000 0.00 0.00 0.00 4.75
1395 1487 1.485895 TGGCCTCTTTTGCTGCTTTTT 59.514 42.857 3.32 0.00 0.00 1.94
1486 1578 7.718753 ACATGGATTCTAGCTTGATAAGAAAGG 59.281 37.037 0.00 0.00 33.26 3.11
1508 1603 0.247460 TTCCTCGTGCCTCTGACATG 59.753 55.000 0.00 0.00 0.00 3.21
1521 1616 1.740025 GACAAGGCCTTCAATTCCTCG 59.260 52.381 17.29 3.29 0.00 4.63
1775 1871 1.269958 GGGAAAGCAGAAGGCCATTT 58.730 50.000 5.01 0.00 46.50 2.32
1838 1934 9.261180 CAGATTTCTATATACGCCTTTTCTGAA 57.739 33.333 0.00 0.00 0.00 3.02
1919 2098 1.282157 AGAATTTTGGGACGGAGGGAG 59.718 52.381 0.00 0.00 0.00 4.30
1920 2099 1.368374 AGAATTTTGGGACGGAGGGA 58.632 50.000 0.00 0.00 0.00 4.20
1921 2100 1.818674 CAAGAATTTTGGGACGGAGGG 59.181 52.381 0.00 0.00 0.00 4.30
1922 2101 2.488153 GACAAGAATTTTGGGACGGAGG 59.512 50.000 0.00 0.00 0.00 4.30
1923 2102 3.412386 AGACAAGAATTTTGGGACGGAG 58.588 45.455 0.00 0.00 0.00 4.63
1924 2103 3.502123 AGACAAGAATTTTGGGACGGA 57.498 42.857 0.00 0.00 0.00 4.69
1925 2104 5.699097 TTAAGACAAGAATTTTGGGACGG 57.301 39.130 0.00 0.00 0.00 4.79
1926 2105 8.487176 CAAATTTAAGACAAGAATTTTGGGACG 58.513 33.333 0.00 0.00 32.35 4.79
1927 2106 9.325198 ACAAATTTAAGACAAGAATTTTGGGAC 57.675 29.630 0.00 0.00 33.39 4.46
1928 2107 9.541143 GACAAATTTAAGACAAGAATTTTGGGA 57.459 29.630 0.00 0.00 33.39 4.37
1929 2108 9.546428 AGACAAATTTAAGACAAGAATTTTGGG 57.454 29.630 0.00 0.00 33.39 4.12
1937 2116 9.582431 CCGTATCTAGACAAATTTAAGACAAGA 57.418 33.333 0.00 0.00 0.00 3.02
1938 2117 9.582431 TCCGTATCTAGACAAATTTAAGACAAG 57.418 33.333 0.00 0.00 0.00 3.16
1940 2119 9.529325 CATCCGTATCTAGACAAATTTAAGACA 57.471 33.333 0.00 0.00 0.00 3.41
1941 2120 9.530633 ACATCCGTATCTAGACAAATTTAAGAC 57.469 33.333 0.00 0.00 0.00 3.01
1958 2137 8.408601 ACGTTTTAGTGTTAGATACATCCGTAT 58.591 33.333 0.00 0.00 41.16 3.06
1959 2138 7.761409 ACGTTTTAGTGTTAGATACATCCGTA 58.239 34.615 0.00 0.00 39.39 4.02
1960 2139 6.624423 ACGTTTTAGTGTTAGATACATCCGT 58.376 36.000 0.00 0.00 39.39 4.69
1961 2140 8.526681 GTTACGTTTTAGTGTTAGATACATCCG 58.473 37.037 0.00 0.00 39.39 4.18
1962 2141 9.578439 AGTTACGTTTTAGTGTTAGATACATCC 57.422 33.333 0.00 0.00 39.39 3.51
1972 2151 9.578439 GGATGTATCTAGTTACGTTTTAGTGTT 57.422 33.333 0.00 0.00 0.00 3.32
1973 2152 7.912250 CGGATGTATCTAGTTACGTTTTAGTGT 59.088 37.037 0.00 0.00 0.00 3.55
1974 2153 7.912250 ACGGATGTATCTAGTTACGTTTTAGTG 59.088 37.037 0.00 0.00 0.00 2.74
1975 2154 7.989826 ACGGATGTATCTAGTTACGTTTTAGT 58.010 34.615 0.00 3.78 0.00 2.24
1978 2157 9.807649 AAATACGGATGTATCTAGTTACGTTTT 57.192 29.630 0.00 2.11 40.42 2.43
1981 2160 9.494271 TCTAAATACGGATGTATCTAGTTACGT 57.506 33.333 5.54 5.54 40.42 3.57
1982 2161 9.752274 GTCTAAATACGGATGTATCTAGTTACG 57.248 37.037 6.50 0.00 40.42 3.18
1993 2172 9.530633 GTCTTAGATTTGTCTAAATACGGATGT 57.469 33.333 0.26 0.00 36.66 3.06
1994 2173 9.529325 TGTCTTAGATTTGTCTAAATACGGATG 57.471 33.333 0.26 0.00 36.66 3.51
1996 2175 9.582431 CTTGTCTTAGATTTGTCTAAATACGGA 57.418 33.333 0.26 0.00 36.66 4.69
1997 2176 9.582431 TCTTGTCTTAGATTTGTCTAAATACGG 57.418 33.333 0.26 0.99 36.66 4.02
2005 2184 8.579863 CCCAAAATTCTTGTCTTAGATTTGTCT 58.420 33.333 0.00 0.00 28.79 3.41
2006 2185 8.576442 TCCCAAAATTCTTGTCTTAGATTTGTC 58.424 33.333 0.00 0.00 28.79 3.18
2007 2186 8.360390 GTCCCAAAATTCTTGTCTTAGATTTGT 58.640 33.333 0.00 0.00 28.79 2.83
2008 2187 7.538678 CGTCCCAAAATTCTTGTCTTAGATTTG 59.461 37.037 0.00 0.00 29.84 2.32
2009 2188 7.309194 CCGTCCCAAAATTCTTGTCTTAGATTT 60.309 37.037 0.00 0.00 0.00 2.17
2010 2189 6.151144 CCGTCCCAAAATTCTTGTCTTAGATT 59.849 38.462 0.00 0.00 0.00 2.40
2011 2190 5.648092 CCGTCCCAAAATTCTTGTCTTAGAT 59.352 40.000 0.00 0.00 0.00 1.98
2012 2191 5.001232 CCGTCCCAAAATTCTTGTCTTAGA 58.999 41.667 0.00 0.00 0.00 2.10
2013 2192 5.001232 TCCGTCCCAAAATTCTTGTCTTAG 58.999 41.667 0.00 0.00 0.00 2.18
2014 2193 4.975631 TCCGTCCCAAAATTCTTGTCTTA 58.024 39.130 0.00 0.00 0.00 2.10
2015 2194 3.821033 CTCCGTCCCAAAATTCTTGTCTT 59.179 43.478 0.00 0.00 0.00 3.01
2016 2195 3.412386 CTCCGTCCCAAAATTCTTGTCT 58.588 45.455 0.00 0.00 0.00 3.41
2017 2196 2.488153 CCTCCGTCCCAAAATTCTTGTC 59.512 50.000 0.00 0.00 0.00 3.18
2018 2197 2.514803 CCTCCGTCCCAAAATTCTTGT 58.485 47.619 0.00 0.00 0.00 3.16
2019 2198 1.818674 CCCTCCGTCCCAAAATTCTTG 59.181 52.381 0.00 0.00 0.00 3.02
2020 2199 1.708551 TCCCTCCGTCCCAAAATTCTT 59.291 47.619 0.00 0.00 0.00 2.52
2021 2200 1.282157 CTCCCTCCGTCCCAAAATTCT 59.718 52.381 0.00 0.00 0.00 2.40
2022 2201 1.004394 ACTCCCTCCGTCCCAAAATTC 59.996 52.381 0.00 0.00 0.00 2.17
2023 2202 1.073098 ACTCCCTCCGTCCCAAAATT 58.927 50.000 0.00 0.00 0.00 1.82
2024 2203 1.838077 CTACTCCCTCCGTCCCAAAAT 59.162 52.381 0.00 0.00 0.00 1.82
2025 2204 1.272807 CTACTCCCTCCGTCCCAAAA 58.727 55.000 0.00 0.00 0.00 2.44
2026 2205 0.115745 ACTACTCCCTCCGTCCCAAA 59.884 55.000 0.00 0.00 0.00 3.28
2027 2206 1.002069 TACTACTCCCTCCGTCCCAA 58.998 55.000 0.00 0.00 0.00 4.12
2028 2207 1.229131 ATACTACTCCCTCCGTCCCA 58.771 55.000 0.00 0.00 0.00 4.37
2029 2208 1.962100 CAATACTACTCCCTCCGTCCC 59.038 57.143 0.00 0.00 0.00 4.46
2030 2209 2.622470 GACAATACTACTCCCTCCGTCC 59.378 54.545 0.00 0.00 0.00 4.79
2031 2210 3.553904 AGACAATACTACTCCCTCCGTC 58.446 50.000 0.00 0.00 0.00 4.79
2032 2211 3.666345 AGACAATACTACTCCCTCCGT 57.334 47.619 0.00 0.00 0.00 4.69
2033 2212 3.819902 GGTAGACAATACTACTCCCTCCG 59.180 52.174 0.00 0.00 41.45 4.63
2034 2213 4.801164 TGGTAGACAATACTACTCCCTCC 58.199 47.826 0.00 0.00 41.45 4.30
2035 2214 5.447757 ACTGGTAGACAATACTACTCCCTC 58.552 45.833 0.00 0.00 41.45 4.30
2036 2215 5.469210 ACTGGTAGACAATACTACTCCCT 57.531 43.478 0.00 0.00 41.45 4.20
2037 2216 5.655532 TGAACTGGTAGACAATACTACTCCC 59.344 44.000 0.00 0.00 41.45 4.30
2038 2217 6.377712 ACTGAACTGGTAGACAATACTACTCC 59.622 42.308 0.00 0.00 41.45 3.85
2039 2218 7.393841 ACTGAACTGGTAGACAATACTACTC 57.606 40.000 0.00 0.00 41.45 2.59
2040 2219 7.778185 AACTGAACTGGTAGACAATACTACT 57.222 36.000 0.00 0.00 41.45 2.57
2107 2286 8.002459 AGGGTAAGAAAAATGTGTTAAGGAGAA 58.998 33.333 0.00 0.00 0.00 2.87
2122 2301 7.648039 TTTGCTTTACTCAAGGGTAAGAAAA 57.352 32.000 0.00 0.00 33.90 2.29
2276 2455 9.483062 GTTGATTCGTCTTCTTGAAATATTCTG 57.517 33.333 0.00 0.00 0.00 3.02
2281 2460 7.827819 ATCGTTGATTCGTCTTCTTGAAATA 57.172 32.000 0.00 0.00 0.00 1.40
2289 2468 6.390987 ACAGTAAATCGTTGATTCGTCTTC 57.609 37.500 0.00 0.00 30.29 2.87
2298 2477 7.064847 ACACTTGTTTGTACAGTAAATCGTTGA 59.935 33.333 0.00 0.00 35.28 3.18
2325 2504 6.014925 TGTCTACTTATGCTGTCCTGTAAACA 60.015 38.462 0.00 0.00 0.00 2.83
2334 2513 7.759465 TGTACTACTTGTCTACTTATGCTGTC 58.241 38.462 0.00 0.00 0.00 3.51
2340 2519 9.745018 TGTACCTTGTACTACTTGTCTACTTAT 57.255 33.333 6.02 0.00 0.00 1.73
2355 2539 2.565834 TGGAGGCTCTTGTACCTTGTAC 59.434 50.000 15.23 0.00 36.05 2.90
2428 2613 3.063510 TCTGATGCTACTGCTGCTTTT 57.936 42.857 0.00 0.00 40.48 2.27
2429 2614 2.775911 TCTGATGCTACTGCTGCTTT 57.224 45.000 0.00 0.00 40.48 3.51
2430 2615 2.562635 CATCTGATGCTACTGCTGCTT 58.437 47.619 4.47 0.00 40.48 3.91
2432 2617 1.202615 TCCATCTGATGCTACTGCTGC 60.203 52.381 12.17 0.00 40.48 5.25
2439 2630 1.798626 AGGTGCTCCATCTGATGCTA 58.201 50.000 12.17 1.85 35.89 3.49


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

AutoCloner maintained by Alex Coulton.