Multiple sequence alignment - TraesCS7A01G155900

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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 TraesCS7A01G155900 chr7A 100.000 2517 0 0 1 2517 108810303 108807787 0.000000e+00 4649.0
1 TraesCS7A01G155900 chr7A 86.951 797 68 20 992 1755 418348132 418348925 0.000000e+00 863.0
2 TraesCS7A01G155900 chr7D 91.031 1795 98 20 1 1757 104568140 104566371 0.000000e+00 2364.0
3 TraesCS7A01G155900 chr7D 85.581 430 33 9 2095 2517 104566079 104565672 8.320000e-115 424.0
4 TraesCS7A01G155900 chr7D 91.071 56 3 1 1878 1933 218352617 218352670 9.660000e-10 75.0
5 TraesCS7A01G155900 chr7B 88.266 1943 143 32 1 1881 62688885 62686966 0.000000e+00 2246.0
6 TraesCS7A01G155900 chr7B 88.049 569 43 10 1950 2517 62686967 62686423 0.000000e+00 651.0
7 TraesCS7A01G155900 chr3B 87.032 802 66 17 992 1758 632817305 632818103 0.000000e+00 870.0
8 TraesCS7A01G155900 chr3B 84.825 257 17 9 992 1227 172154730 172154475 3.240000e-59 239.0
9 TraesCS7A01G155900 chr5B 88.286 700 53 12 994 1667 453116856 453116160 0.000000e+00 811.0
10 TraesCS7A01G155900 chr3A 89.211 621 51 8 1148 1755 56494319 56494936 0.000000e+00 761.0
11 TraesCS7A01G155900 chr3A 86.154 260 14 8 992 1230 71904667 71904925 6.910000e-66 261.0
12 TraesCS7A01G155900 chr1D 93.319 479 23 5 1146 1618 10037504 10037979 0.000000e+00 699.0
13 TraesCS7A01G155900 chr1D 91.389 511 35 5 1114 1618 9923754 9923247 0.000000e+00 691.0
14 TraesCS7A01G155900 chr2A 89.165 443 21 14 1276 1712 196308700 196308279 6.170000e-146 527.0
15 TraesCS7A01G155900 chr2A 86.047 258 14 13 994 1230 779441336 779441080 8.930000e-65 257.0
16 TraesCS7A01G155900 chrUn 81.879 447 55 20 949 1385 74596057 74596487 1.110000e-93 353.0
17 TraesCS7A01G155900 chr5A 85.985 264 15 8 988 1230 43768962 43768700 1.920000e-66 263.0
18 TraesCS7A01G155900 chr5A 85.769 260 15 11 992 1230 43682902 43682644 3.210000e-64 255.0
19 TraesCS7A01G155900 chr5A 95.238 42 2 0 1880 1921 50753464 50753505 1.620000e-07 67.6
20 TraesCS7A01G155900 chr4A 85.385 260 16 8 992 1230 590625485 590625743 1.490000e-62 250.0
21 TraesCS7A01G155900 chr4B 84.556 259 19 10 992 1229 106581748 106582006 1.160000e-58 237.0


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 TraesCS7A01G155900 chr7A 108807787 108810303 2516 True 4649.0 4649 100.0000 1 2517 1 chr7A.!!$R1 2516
1 TraesCS7A01G155900 chr7A 418348132 418348925 793 False 863.0 863 86.9510 992 1755 1 chr7A.!!$F1 763
2 TraesCS7A01G155900 chr7D 104565672 104568140 2468 True 1394.0 2364 88.3060 1 2517 2 chr7D.!!$R1 2516
3 TraesCS7A01G155900 chr7B 62686423 62688885 2462 True 1448.5 2246 88.1575 1 2517 2 chr7B.!!$R1 2516
4 TraesCS7A01G155900 chr3B 632817305 632818103 798 False 870.0 870 87.0320 992 1758 1 chr3B.!!$F1 766
5 TraesCS7A01G155900 chr5B 453116160 453116856 696 True 811.0 811 88.2860 994 1667 1 chr5B.!!$R1 673
6 TraesCS7A01G155900 chr3A 56494319 56494936 617 False 761.0 761 89.2110 1148 1755 1 chr3A.!!$F1 607
7 TraesCS7A01G155900 chr1D 9923247 9923754 507 True 691.0 691 91.3890 1114 1618 1 chr1D.!!$R1 504

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
456 457 1.296056 CTTACAGTTTGGACCCGGCG 61.296 60.0 0.0 0.0 0.0 6.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1524 1604 0.179127 TCAGCGATAGTGCAGCAGAC 60.179 55.0 0.0 0.0 37.31 3.51 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
60 61 7.473027 ACAAAACTTTCTTCATGCATTTCAG 57.527 32.000 0.00 0.00 0.00 3.02
177 178 7.780745 AGACATGCCTAGAGTGTAATACTTAGT 59.219 37.037 0.00 0.00 40.53 2.24
178 179 8.307582 ACATGCCTAGAGTGTAATACTTAGTT 57.692 34.615 0.00 0.00 40.53 2.24
217 218 1.739338 AAACAACGCAATCCGGCCAA 61.739 50.000 2.24 0.00 42.52 4.52
447 448 5.476945 AGGTGAAATTAGGGCTTACAGTTTG 59.523 40.000 0.00 0.00 0.00 2.93
455 456 1.583495 GCTTACAGTTTGGACCCGGC 61.583 60.000 0.00 0.00 0.00 6.13
456 457 1.296056 CTTACAGTTTGGACCCGGCG 61.296 60.000 0.00 0.00 0.00 6.46
458 459 2.438951 TACAGTTTGGACCCGGCGAC 62.439 60.000 9.30 0.00 0.00 5.19
459 460 4.324991 AGTTTGGACCCGGCGACC 62.325 66.667 9.30 9.69 0.00 4.79
460 461 4.324991 GTTTGGACCCGGCGACCT 62.325 66.667 9.30 0.00 0.00 3.85
500 505 3.479269 CGAGAGGCGCGTTGAACC 61.479 66.667 8.43 0.00 0.00 3.62
545 550 2.837291 CTGGGAGGGAGAGCTCGG 60.837 72.222 8.37 0.00 0.00 4.63
772 777 3.136123 CCCGTGCAGCCCATCTTG 61.136 66.667 0.00 0.00 0.00 3.02
839 844 4.933064 GGCAGATCGAGCCGTCCG 62.933 72.222 15.04 0.00 43.15 4.79
875 880 2.214181 GATCCGCGCCGTCCAGATAT 62.214 60.000 0.00 0.00 0.00 1.63
1144 1217 1.650528 TGGGAATGCGGGGAAATTTT 58.349 45.000 0.00 0.00 0.00 1.82
1404 1477 4.726304 CCGCCCGCCCTTGGTTTA 62.726 66.667 0.00 0.00 0.00 2.01
1418 1491 1.003851 GGTTTACGATGCGCTGCTTA 58.996 50.000 9.73 0.00 0.00 3.09
1424 1497 1.699656 CGATGCGCTGCTTACTTGCT 61.700 55.000 9.73 0.00 0.00 3.91
1425 1498 0.449388 GATGCGCTGCTTACTTGCTT 59.551 50.000 9.73 0.00 0.00 3.91
1426 1499 0.169672 ATGCGCTGCTTACTTGCTTG 59.830 50.000 9.73 0.00 0.00 4.01
1427 1500 0.884259 TGCGCTGCTTACTTGCTTGA 60.884 50.000 9.73 0.00 0.00 3.02
1437 1510 1.985473 ACTTGCTTGATTGCTGGTGA 58.015 45.000 0.00 0.00 0.00 4.02
1451 1525 0.968405 TGGTGATTTTTGCTGAGGCC 59.032 50.000 0.00 0.00 37.74 5.19
1524 1604 2.131183 GAGCAGCATCTAAGGTTAGCG 58.869 52.381 0.00 0.00 0.00 4.26
1566 1649 5.584253 TGTTTGTTTAAGGCTGTTGCTTA 57.416 34.783 0.00 0.00 39.59 3.09
1633 1717 3.068732 CGCCTTGAGAATGACTAGGATGA 59.931 47.826 0.00 0.00 0.00 2.92
1638 1722 6.482641 CCTTGAGAATGACTAGGATGAATGTG 59.517 42.308 0.00 0.00 0.00 3.21
1729 1816 7.255590 CCATCGAGATATTAATGGTTTGGCTTT 60.256 37.037 0.00 0.00 35.08 3.51
1743 1838 2.238521 TGGCTTTGGTCAATCTGGTTC 58.761 47.619 0.00 0.00 0.00 3.62
1751 1846 3.587061 TGGTCAATCTGGTTCATGTAGGT 59.413 43.478 0.00 0.00 0.00 3.08
1767 1887 4.922206 TGTAGGTTTCTGAATGATGCCTT 58.078 39.130 0.00 0.00 33.39 4.35
1785 1918 4.937620 TGCCTTCTAAGCAATACTGAGTTG 59.062 41.667 0.00 0.00 37.28 3.16
1825 1960 8.862325 ATCCAGTTTGATCTGTTAACATTGTA 57.138 30.769 9.13 0.00 34.02 2.41
1860 1995 5.467063 AGCTTTGTTGCTAGTTCTAGTGTTC 59.533 40.000 8.38 0.01 42.10 3.18
1864 1999 5.914033 TGTTGCTAGTTCTAGTGTTCTGTT 58.086 37.500 8.38 0.00 0.00 3.16
1866 2001 6.821665 TGTTGCTAGTTCTAGTGTTCTGTTTT 59.178 34.615 8.38 0.00 0.00 2.43
1876 2011 8.740123 TCTAGTGTTCTGTTTTTGGAATGTTA 57.260 30.769 0.00 0.00 0.00 2.41
1884 2019 9.974980 TTCTGTTTTTGGAATGTTATTTACTCC 57.025 29.630 0.00 0.00 0.00 3.85
1885 2020 8.581578 TCTGTTTTTGGAATGTTATTTACTCCC 58.418 33.333 0.00 0.00 0.00 4.30
1886 2021 8.485578 TGTTTTTGGAATGTTATTTACTCCCT 57.514 30.769 0.00 0.00 0.00 4.20
1887 2022 9.589461 TGTTTTTGGAATGTTATTTACTCCCTA 57.411 29.630 0.00 0.00 0.00 3.53
1888 2023 9.850628 GTTTTTGGAATGTTATTTACTCCCTAC 57.149 33.333 0.00 0.00 0.00 3.18
1889 2024 7.852971 TTTGGAATGTTATTTACTCCCTACG 57.147 36.000 0.00 0.00 0.00 3.51
1890 2025 6.549433 TGGAATGTTATTTACTCCCTACGT 57.451 37.500 0.00 0.00 0.00 3.57
1891 2026 6.576185 TGGAATGTTATTTACTCCCTACGTC 58.424 40.000 0.00 0.00 0.00 4.34
1892 2027 6.381994 TGGAATGTTATTTACTCCCTACGTCT 59.618 38.462 0.00 0.00 0.00 4.18
1893 2028 6.922407 GGAATGTTATTTACTCCCTACGTCTC 59.078 42.308 0.00 0.00 0.00 3.36
1894 2029 7.414222 AATGTTATTTACTCCCTACGTCTCA 57.586 36.000 0.00 0.00 0.00 3.27
1895 2030 7.598759 ATGTTATTTACTCCCTACGTCTCAT 57.401 36.000 0.00 0.00 0.00 2.90
1896 2031 8.701908 ATGTTATTTACTCCCTACGTCTCATA 57.298 34.615 0.00 0.00 0.00 2.15
1897 2032 8.523915 TGTTATTTACTCCCTACGTCTCATAA 57.476 34.615 0.00 0.00 0.00 1.90
1898 2033 9.139734 TGTTATTTACTCCCTACGTCTCATAAT 57.860 33.333 0.00 0.00 0.00 1.28
1905 2040 8.795842 ACTCCCTACGTCTCATAATATAAGAG 57.204 38.462 0.00 0.00 0.00 2.85
1906 2041 7.337436 ACTCCCTACGTCTCATAATATAAGAGC 59.663 40.741 0.00 0.00 0.00 4.09
1907 2042 6.315642 TCCCTACGTCTCATAATATAAGAGCG 59.684 42.308 0.00 0.00 36.09 5.03
1908 2043 6.093771 CCCTACGTCTCATAATATAAGAGCGT 59.906 42.308 16.87 16.87 41.37 5.07
1909 2044 7.361885 CCCTACGTCTCATAATATAAGAGCGTT 60.362 40.741 17.39 0.00 40.15 4.84
1910 2045 8.021973 CCTACGTCTCATAATATAAGAGCGTTT 58.978 37.037 17.39 5.98 40.15 3.60
1911 2046 9.395707 CTACGTCTCATAATATAAGAGCGTTTT 57.604 33.333 17.39 5.57 40.15 2.43
1913 2048 9.395707 ACGTCTCATAATATAAGAGCGTTTTAG 57.604 33.333 0.00 0.00 38.20 1.85
1914 2049 9.608617 CGTCTCATAATATAAGAGCGTTTTAGA 57.391 33.333 0.00 0.00 0.00 2.10
1921 2056 8.868635 AATATAAGAGCGTTTTAGACACTACC 57.131 34.615 0.00 0.00 0.00 3.18
1922 2057 3.589495 AGAGCGTTTTAGACACTACCC 57.411 47.619 0.00 0.00 0.00 3.69
1923 2058 3.163467 AGAGCGTTTTAGACACTACCCT 58.837 45.455 0.00 0.00 0.00 4.34
1924 2059 3.577415 AGAGCGTTTTAGACACTACCCTT 59.423 43.478 0.00 0.00 0.00 3.95
1925 2060 3.660865 AGCGTTTTAGACACTACCCTTG 58.339 45.455 0.00 0.00 0.00 3.61
1926 2061 3.322828 AGCGTTTTAGACACTACCCTTGA 59.677 43.478 0.00 0.00 0.00 3.02
1927 2062 3.678548 GCGTTTTAGACACTACCCTTGAG 59.321 47.826 0.00 0.00 0.00 3.02
1928 2063 4.798593 GCGTTTTAGACACTACCCTTGAGT 60.799 45.833 0.00 0.00 0.00 3.41
1940 2075 8.617290 CACTACCCTTGAGTGTTATTAGTTTT 57.383 34.615 0.00 0.00 39.61 2.43
1941 2076 9.063615 CACTACCCTTGAGTGTTATTAGTTTTT 57.936 33.333 0.00 0.00 39.61 1.94
1942 2077 9.063615 ACTACCCTTGAGTGTTATTAGTTTTTG 57.936 33.333 0.00 0.00 0.00 2.44
1943 2078 9.280174 CTACCCTTGAGTGTTATTAGTTTTTGA 57.720 33.333 0.00 0.00 0.00 2.69
1944 2079 8.166422 ACCCTTGAGTGTTATTAGTTTTTGAG 57.834 34.615 0.00 0.00 0.00 3.02
1945 2080 7.230712 ACCCTTGAGTGTTATTAGTTTTTGAGG 59.769 37.037 0.00 0.00 0.00 3.86
1946 2081 7.309194 CCCTTGAGTGTTATTAGTTTTTGAGGG 60.309 40.741 0.00 0.00 0.00 4.30
1947 2082 7.447238 CCTTGAGTGTTATTAGTTTTTGAGGGA 59.553 37.037 0.00 0.00 0.00 4.20
1948 2083 7.979444 TGAGTGTTATTAGTTTTTGAGGGAG 57.021 36.000 0.00 0.00 0.00 4.30
1982 2117 3.667960 GCTTGTGCCGTTTGTCAATCTAG 60.668 47.826 0.00 0.00 0.00 2.43
2000 2141 5.584253 TCTAGAAGGCTCACAGTATGAAC 57.416 43.478 0.00 0.00 39.69 3.18
2008 2149 1.628340 TCACAGTATGAACAGTGGGGG 59.372 52.381 0.00 0.00 41.91 5.40
2010 2151 2.039746 CACAGTATGAACAGTGGGGGAA 59.960 50.000 0.00 0.00 38.93 3.97
2011 2152 2.919602 ACAGTATGAACAGTGGGGGAAT 59.080 45.455 0.00 0.00 39.69 3.01
2012 2153 3.282021 CAGTATGAACAGTGGGGGAATG 58.718 50.000 0.00 0.00 39.69 2.67
2013 2154 2.919602 AGTATGAACAGTGGGGGAATGT 59.080 45.455 0.00 0.00 0.00 2.71
2014 2155 2.220653 ATGAACAGTGGGGGAATGTG 57.779 50.000 0.00 0.00 0.00 3.21
2015 2156 0.539438 TGAACAGTGGGGGAATGTGC 60.539 55.000 0.00 0.00 0.00 4.57
2017 2158 0.188342 AACAGTGGGGGAATGTGCTT 59.812 50.000 0.00 0.00 0.00 3.91
2018 2159 1.072266 ACAGTGGGGGAATGTGCTTA 58.928 50.000 0.00 0.00 0.00 3.09
2019 2160 1.271926 ACAGTGGGGGAATGTGCTTAC 60.272 52.381 0.00 0.00 0.00 2.34
2020 2161 1.072266 AGTGGGGGAATGTGCTTACA 58.928 50.000 0.00 0.00 0.00 2.41
2022 2163 1.750778 GTGGGGGAATGTGCTTACATG 59.249 52.381 0.00 0.00 0.00 3.21
2025 2166 2.689983 GGGGGAATGTGCTTACATGAAG 59.310 50.000 0.00 0.00 38.30 3.02
2173 2353 8.778358 GCATAATTAAGATTGGAAGTCACCTAG 58.222 37.037 0.00 0.00 0.00 3.02
2207 2387 4.775236 ACATCAGAAGTTTGAGGGCTATC 58.225 43.478 5.25 0.00 33.41 2.08
2253 2433 8.034804 CCTTATTTTTAGCAGCATAAAGTTGGT 58.965 33.333 0.00 0.00 42.07 3.67
2256 2436 7.753309 TTTTTAGCAGCATAAAGTTGGTCTA 57.247 32.000 0.00 0.00 39.88 2.59
2266 2446 9.247861 AGCATAAAGTTGGTCTAATTTTCTGAT 57.752 29.630 6.52 0.00 31.62 2.90
2328 2508 7.870509 TGATTTGCTATTTGTCATTCTAGCT 57.129 32.000 0.00 0.00 37.92 3.32
2329 2509 7.700505 TGATTTGCTATTTGTCATTCTAGCTG 58.299 34.615 0.00 0.00 37.92 4.24
2337 2517 6.882610 TTTGTCATTCTAGCTGTGTTTGAT 57.117 33.333 0.00 0.00 0.00 2.57
2432 2612 2.989166 GCCAGTAATGCTTGTTTCTTGC 59.011 45.455 0.00 0.00 0.00 4.01
2446 2626 1.372582 TCTTGCGATTGTCATGAGCC 58.627 50.000 0.00 0.00 0.00 4.70
2489 2669 5.297776 GTGAATCTATGCTATGTTGGCAACT 59.702 40.000 28.71 17.33 43.14 3.16
2514 2694 7.275183 TGAAACTGATCATGTATTCCGAGAAT 58.725 34.615 0.00 4.82 0.00 2.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
99 100 1.328680 CCATTGCGACTTGATTCTCCG 59.671 52.381 0.00 0.00 0.00 4.63
217 218 1.947456 GTTCGTGCTTCACCCTTCTTT 59.053 47.619 0.00 0.00 0.00 2.52
614 619 3.766691 TACGGCCGCACCCTCTTC 61.767 66.667 28.58 0.00 33.26 2.87
733 738 1.073284 GGTGGGCTTGTTTCACCTCTA 59.927 52.381 0.00 0.00 45.36 2.43
758 763 3.818787 CGGCAAGATGGGCTGCAC 61.819 66.667 0.50 0.00 0.00 4.57
771 776 4.673298 ACGAATGTCACGGCGGCA 62.673 61.111 13.24 7.75 34.93 5.69
772 777 3.849953 GACGAATGTCACGGCGGC 61.850 66.667 13.24 0.00 44.82 6.53
950 955 4.410400 GAGCTCGGTGGGTTGGGG 62.410 72.222 0.00 0.00 0.00 4.96
1144 1217 0.534203 GGTTCGACTTGGACCTGCAA 60.534 55.000 0.00 0.00 0.00 4.08
1252 1325 2.704572 CTCTTGGTCTTGGCCTTGTAG 58.295 52.381 3.32 0.00 0.00 2.74
1399 1472 1.003851 TAAGCAGCGCATCGTAAACC 58.996 50.000 11.47 0.00 0.00 3.27
1404 1477 1.970917 GCAAGTAAGCAGCGCATCGT 61.971 55.000 11.47 0.79 0.00 3.73
1418 1491 1.985473 TCACCAGCAATCAAGCAAGT 58.015 45.000 0.00 0.00 36.85 3.16
1424 1497 4.059511 CAGCAAAAATCACCAGCAATCAA 58.940 39.130 0.00 0.00 0.00 2.57
1425 1498 3.321396 TCAGCAAAAATCACCAGCAATCA 59.679 39.130 0.00 0.00 0.00 2.57
1426 1499 3.916761 TCAGCAAAAATCACCAGCAATC 58.083 40.909 0.00 0.00 0.00 2.67
1427 1500 3.306502 CCTCAGCAAAAATCACCAGCAAT 60.307 43.478 0.00 0.00 0.00 3.56
1437 1510 1.412343 ACAAACGGCCTCAGCAAAAAT 59.588 42.857 0.00 0.00 42.56 1.82
1451 1525 0.988439 ACAACGCAAAGCAACAAACG 59.012 45.000 0.00 0.00 0.00 3.60
1524 1604 0.179127 TCAGCGATAGTGCAGCAGAC 60.179 55.000 0.00 0.00 37.31 3.51
1566 1649 4.464244 TGCTAGAGTAAATCACACAGAGCT 59.536 41.667 0.00 0.00 33.23 4.09
1633 1717 7.492669 CGACTACACTTGGAATTCTATCACATT 59.507 37.037 5.23 0.00 0.00 2.71
1638 1722 8.649973 ATTTCGACTACACTTGGAATTCTATC 57.350 34.615 5.23 0.00 0.00 2.08
1667 1751 8.322091 ACAAGTTCATCTACTTTAGGCATACTT 58.678 33.333 0.00 0.00 36.24 2.24
1683 1767 3.004629 TGGACACATTGCACAAGTTCATC 59.995 43.478 0.00 0.00 0.00 2.92
1729 1816 3.587061 ACCTACATGAACCAGATTGACCA 59.413 43.478 0.00 0.00 0.00 4.02
1743 1838 4.885907 AGGCATCATTCAGAAACCTACATG 59.114 41.667 0.00 0.00 34.75 3.21
1751 1846 5.255687 TGCTTAGAAGGCATCATTCAGAAA 58.744 37.500 0.00 0.00 34.56 2.52
1767 1887 9.371136 CAGATTAACAACTCAGTATTGCTTAGA 57.629 33.333 0.00 0.00 0.00 2.10
1852 1987 9.965824 AATAACATTCCAAAAACAGAACACTAG 57.034 29.630 0.00 0.00 0.00 2.57
1860 1995 8.585018 AGGGAGTAAATAACATTCCAAAAACAG 58.415 33.333 0.00 0.00 0.00 3.16
1864 1999 7.884354 ACGTAGGGAGTAAATAACATTCCAAAA 59.116 33.333 0.00 0.00 0.00 2.44
1866 2001 6.949715 ACGTAGGGAGTAAATAACATTCCAA 58.050 36.000 0.00 0.00 0.00 3.53
1879 2014 9.887629 CTCTTATATTATGAGACGTAGGGAGTA 57.112 37.037 0.00 0.00 33.20 2.59
1880 2015 7.337436 GCTCTTATATTATGAGACGTAGGGAGT 59.663 40.741 0.00 0.00 33.20 3.85
1881 2016 7.466185 CGCTCTTATATTATGAGACGTAGGGAG 60.466 44.444 0.00 0.00 33.20 4.30
1882 2017 6.315642 CGCTCTTATATTATGAGACGTAGGGA 59.684 42.308 0.00 0.00 33.20 4.20
1883 2018 6.093771 ACGCTCTTATATTATGAGACGTAGGG 59.906 42.308 16.64 9.35 38.96 3.53
1884 2019 7.074507 ACGCTCTTATATTATGAGACGTAGG 57.925 40.000 16.64 2.73 38.96 3.18
1885 2020 8.951954 AAACGCTCTTATATTATGAGACGTAG 57.048 34.615 17.61 3.77 39.34 3.51
1887 2022 9.395707 CTAAAACGCTCTTATATTATGAGACGT 57.604 33.333 14.38 14.38 40.53 4.34
1888 2023 9.608617 TCTAAAACGCTCTTATATTATGAGACG 57.391 33.333 13.57 13.57 36.53 4.18
1895 2030 9.956720 GGTAGTGTCTAAAACGCTCTTATATTA 57.043 33.333 0.00 0.00 45.69 0.98
1896 2031 7.924947 GGGTAGTGTCTAAAACGCTCTTATATT 59.075 37.037 0.00 0.00 45.69 1.28
1897 2032 7.287235 AGGGTAGTGTCTAAAACGCTCTTATAT 59.713 37.037 0.00 0.00 45.69 0.86
1898 2033 6.604795 AGGGTAGTGTCTAAAACGCTCTTATA 59.395 38.462 0.00 0.00 45.69 0.98
1899 2034 5.421374 AGGGTAGTGTCTAAAACGCTCTTAT 59.579 40.000 0.00 0.00 45.69 1.73
1900 2035 4.768968 AGGGTAGTGTCTAAAACGCTCTTA 59.231 41.667 0.00 0.00 45.69 2.10
1901 2036 3.577415 AGGGTAGTGTCTAAAACGCTCTT 59.423 43.478 0.00 0.00 45.69 2.85
1902 2037 3.163467 AGGGTAGTGTCTAAAACGCTCT 58.837 45.455 0.00 0.00 45.69 4.09
1903 2038 3.589495 AGGGTAGTGTCTAAAACGCTC 57.411 47.619 0.00 0.00 45.69 5.03
1905 2040 3.656559 TCAAGGGTAGTGTCTAAAACGC 58.343 45.455 0.00 0.00 38.74 4.84
1906 2041 4.684703 CACTCAAGGGTAGTGTCTAAAACG 59.315 45.833 0.00 0.00 39.61 3.60
1916 2051 9.063615 CAAAAACTAATAACACTCAAGGGTAGT 57.936 33.333 0.00 0.00 0.00 2.73
1917 2052 9.280174 TCAAAAACTAATAACACTCAAGGGTAG 57.720 33.333 0.00 0.00 0.00 3.18
1918 2053 9.280174 CTCAAAAACTAATAACACTCAAGGGTA 57.720 33.333 0.00 0.00 0.00 3.69
1919 2054 7.230712 CCTCAAAAACTAATAACACTCAAGGGT 59.769 37.037 0.00 0.00 0.00 4.34
1920 2055 7.309194 CCCTCAAAAACTAATAACACTCAAGGG 60.309 40.741 0.00 0.00 0.00 3.95
1921 2056 7.447238 TCCCTCAAAAACTAATAACACTCAAGG 59.553 37.037 0.00 0.00 0.00 3.61
1922 2057 8.391075 TCCCTCAAAAACTAATAACACTCAAG 57.609 34.615 0.00 0.00 0.00 3.02
1923 2058 7.996644 ACTCCCTCAAAAACTAATAACACTCAA 59.003 33.333 0.00 0.00 0.00 3.02
1924 2059 7.514721 ACTCCCTCAAAAACTAATAACACTCA 58.485 34.615 0.00 0.00 0.00 3.41
1925 2060 7.981102 ACTCCCTCAAAAACTAATAACACTC 57.019 36.000 0.00 0.00 0.00 3.51
1926 2061 8.877195 TCTACTCCCTCAAAAACTAATAACACT 58.123 33.333 0.00 0.00 0.00 3.55
1927 2062 9.668497 ATCTACTCCCTCAAAAACTAATAACAC 57.332 33.333 0.00 0.00 0.00 3.32
1931 2066 9.496710 TGGTATCTACTCCCTCAAAAACTAATA 57.503 33.333 0.00 0.00 0.00 0.98
1932 2067 8.388656 TGGTATCTACTCCCTCAAAAACTAAT 57.611 34.615 0.00 0.00 0.00 1.73
1933 2068 7.801893 TGGTATCTACTCCCTCAAAAACTAA 57.198 36.000 0.00 0.00 0.00 2.24
1934 2069 7.093024 CCTTGGTATCTACTCCCTCAAAAACTA 60.093 40.741 0.00 0.00 0.00 2.24
1935 2070 6.296489 CCTTGGTATCTACTCCCTCAAAAACT 60.296 42.308 0.00 0.00 0.00 2.66
1936 2071 5.880887 CCTTGGTATCTACTCCCTCAAAAAC 59.119 44.000 0.00 0.00 0.00 2.43
1937 2072 5.572885 GCCTTGGTATCTACTCCCTCAAAAA 60.573 44.000 0.00 0.00 0.00 1.94
1938 2073 4.080526 GCCTTGGTATCTACTCCCTCAAAA 60.081 45.833 0.00 0.00 0.00 2.44
1939 2074 3.454812 GCCTTGGTATCTACTCCCTCAAA 59.545 47.826 0.00 0.00 0.00 2.69
1940 2075 3.039011 GCCTTGGTATCTACTCCCTCAA 58.961 50.000 0.00 0.00 0.00 3.02
1941 2076 2.247635 AGCCTTGGTATCTACTCCCTCA 59.752 50.000 0.00 0.00 0.00 3.86
1942 2077 2.965562 AGCCTTGGTATCTACTCCCTC 58.034 52.381 0.00 0.00 0.00 4.30
1943 2078 3.041946 CAAGCCTTGGTATCTACTCCCT 58.958 50.000 0.00 0.00 0.00 4.20
1944 2079 2.772515 ACAAGCCTTGGTATCTACTCCC 59.227 50.000 9.64 0.00 34.12 4.30
1945 2080 3.798202 CACAAGCCTTGGTATCTACTCC 58.202 50.000 9.64 0.00 34.12 3.85
1946 2081 3.198872 GCACAAGCCTTGGTATCTACTC 58.801 50.000 9.64 0.00 34.12 2.59
1947 2082 3.268023 GCACAAGCCTTGGTATCTACT 57.732 47.619 9.64 0.00 34.12 2.57
1982 2117 3.931578 ACTGTTCATACTGTGAGCCTTC 58.068 45.455 0.00 0.00 37.26 3.46
2000 2141 1.271871 TGTAAGCACATTCCCCCACTG 60.272 52.381 0.00 0.00 0.00 3.66
2018 2159 8.699749 GCTTTTTCTAATAAAAACGCTTCATGT 58.300 29.630 0.00 0.00 39.17 3.21
2019 2160 8.915654 AGCTTTTTCTAATAAAAACGCTTCATG 58.084 29.630 7.12 0.00 45.77 3.07
2020 2161 8.915654 CAGCTTTTTCTAATAAAAACGCTTCAT 58.084 29.630 9.50 0.00 45.77 2.57
2022 2163 8.417928 GTCAGCTTTTTCTAATAAAAACGCTTC 58.582 33.333 9.50 4.53 45.77 3.86
2025 2166 7.853377 AGTCAGCTTTTTCTAATAAAAACGC 57.147 32.000 3.28 3.28 41.25 4.84
2108 2281 8.680903 ACATCAAATCTAAAACCTGCTTATCAG 58.319 33.333 0.00 0.00 42.49 2.90
2173 2353 9.515020 TCAAACTTCTGATGTCAAAACATTAAC 57.485 29.630 0.00 0.00 46.20 2.01
2266 2446 5.187772 AGGCAACACAAGACAGTATCTCATA 59.812 40.000 0.00 0.00 35.86 2.15
2282 2462 6.389091 TCATGTTCATAATTTGAGGCAACAC 58.611 36.000 0.00 0.00 35.27 3.32
2320 2500 6.653020 TGGATGTATCAAACACAGCTAGAAT 58.347 36.000 0.00 0.00 42.09 2.40
2328 2508 4.671831 ACCCAATGGATGTATCAAACACA 58.328 39.130 0.00 0.00 36.48 3.72
2329 2509 5.410067 CAACCCAATGGATGTATCAAACAC 58.590 41.667 0.00 0.00 36.48 3.32
2337 2517 3.831323 CATAGCCAACCCAATGGATGTA 58.169 45.455 0.00 0.00 43.54 2.29
2412 2592 3.236816 CGCAAGAAACAAGCATTACTGG 58.763 45.455 0.00 0.00 43.02 4.00
2432 2612 1.926561 TTCTCGGCTCATGACAATCG 58.073 50.000 0.00 0.00 0.00 3.34
2446 2626 8.400947 AGATTCACCATAAAATGACATTTCTCG 58.599 33.333 13.68 5.39 0.00 4.04
2489 2669 6.220726 TCTCGGAATACATGATCAGTTTCA 57.779 37.500 0.00 0.00 0.00 2.69


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

AutoCloner maintained by Alex Coulton.