Multiple sequence alignment - TraesCS2B01G232700

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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 TraesCS2B01G232700 chr2B 100.000 2648 0 0 1 2648 230595612 230592965 0.000000e+00 4891.0
1 TraesCS2B01G232700 chr2B 78.228 666 103 18 1956 2601 141992677 141992034 3.200000e-104 388.0
2 TraesCS2B01G232700 chr2B 77.172 495 89 12 2109 2589 598242079 598242563 1.560000e-67 267.0
3 TraesCS2B01G232700 chr2D 92.449 1960 67 34 1 1912 167427185 167429111 0.000000e+00 2724.0
4 TraesCS2B01G232700 chr2D 82.724 492 70 9 2111 2599 508848271 508848750 8.760000e-115 424.0
5 TraesCS2B01G232700 chr2D 89.262 149 15 1 2109 2256 593525588 593525736 4.500000e-43 185.0
6 TraesCS2B01G232700 chr2A 92.262 1861 75 28 1 1840 183209076 183207264 0.000000e+00 2575.0
7 TraesCS2B01G232700 chr2A 84.512 297 38 2 2113 2409 11794649 11794361 1.200000e-73 287.0
8 TraesCS2B01G232700 chr2A 79.921 254 39 8 2341 2591 678664507 678664751 2.710000e-40 176.0
9 TraesCS2B01G232700 chr5D 86.874 739 76 15 921 1648 528230718 528229990 0.000000e+00 808.0
10 TraesCS2B01G232700 chr5D 78.947 665 86 16 1956 2578 514149477 514150129 1.140000e-108 403.0
11 TraesCS2B01G232700 chr5D 81.102 508 71 12 2109 2602 59204916 59204420 1.490000e-102 383.0
12 TraesCS2B01G232700 chr5D 97.297 37 1 0 805 841 528230863 528230827 2.200000e-06 63.9
13 TraesCS2B01G232700 chr5B 89.291 635 62 3 1020 1648 664998740 664998106 0.000000e+00 791.0
14 TraesCS2B01G232700 chr5B 80.899 89 12 3 753 841 664999031 664998948 6.120000e-07 65.8
15 TraesCS2B01G232700 chr5A 87.888 677 70 8 984 1653 656210750 656210079 0.000000e+00 785.0
16 TraesCS2B01G232700 chr5A 97.297 37 1 0 805 841 656210981 656210945 2.200000e-06 63.9
17 TraesCS2B01G232700 chr7B 81.940 670 82 17 1960 2600 186271667 186272326 5.020000e-147 531.0
18 TraesCS2B01G232700 chr6D 81.040 654 94 17 1968 2602 352759193 352759835 6.580000e-136 494.0
19 TraesCS2B01G232700 chr6D 75.926 324 65 6 2292 2602 373062604 373062281 1.270000e-33 154.0
20 TraesCS2B01G232700 chr1D 79.417 549 76 23 2109 2648 22584247 22584767 1.170000e-93 353.0
21 TraesCS2B01G232700 chr6A 80.041 486 68 14 2118 2598 110353801 110353340 1.520000e-87 333.0
22 TraesCS2B01G232700 chr4B 76.812 276 52 8 2329 2600 622760677 622760944 7.640000e-31 145.0


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 TraesCS2B01G232700 chr2B 230592965 230595612 2647 True 4891.00 4891 100.0000 1 2648 1 chr2B.!!$R2 2647
1 TraesCS2B01G232700 chr2B 141992034 141992677 643 True 388.00 388 78.2280 1956 2601 1 chr2B.!!$R1 645
2 TraesCS2B01G232700 chr2D 167427185 167429111 1926 False 2724.00 2724 92.4490 1 1912 1 chr2D.!!$F1 1911
3 TraesCS2B01G232700 chr2A 183207264 183209076 1812 True 2575.00 2575 92.2620 1 1840 1 chr2A.!!$R2 1839
4 TraesCS2B01G232700 chr5D 528229990 528230863 873 True 435.95 808 92.0855 805 1648 2 chr5D.!!$R2 843
5 TraesCS2B01G232700 chr5D 514149477 514150129 652 False 403.00 403 78.9470 1956 2578 1 chr5D.!!$F1 622
6 TraesCS2B01G232700 chr5B 664998106 664999031 925 True 428.40 791 85.0950 753 1648 2 chr5B.!!$R1 895
7 TraesCS2B01G232700 chr5A 656210079 656210981 902 True 424.45 785 92.5925 805 1653 2 chr5A.!!$R1 848
8 TraesCS2B01G232700 chr7B 186271667 186272326 659 False 531.00 531 81.9400 1960 2600 1 chr7B.!!$F1 640
9 TraesCS2B01G232700 chr6D 352759193 352759835 642 False 494.00 494 81.0400 1968 2602 1 chr6D.!!$F1 634
10 TraesCS2B01G232700 chr1D 22584247 22584767 520 False 353.00 353 79.4170 2109 2648 1 chr1D.!!$F1 539

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
981 1115 1.067283 CCTACCAGTCACACAGAGCAG 60.067 57.143 0.0 0.0 0.0 4.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1915 2065 0.035739 GCGGGTTGGAGTTGGTCTTA 59.964 55.0 0.0 0.0 0.0 2.1 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
79 80 2.702270 AGGAAAAGGGCTCAATGGTT 57.298 45.000 0.00 0.00 0.00 3.67
189 190 8.458573 TTCACCTAAATCCATATATTTGCGTT 57.541 30.769 0.00 0.00 31.63 4.84
190 191 7.870826 TCACCTAAATCCATATATTTGCGTTG 58.129 34.615 0.00 0.00 31.63 4.10
191 192 6.582295 CACCTAAATCCATATATTTGCGTTGC 59.418 38.462 0.00 0.00 31.63 4.17
192 193 5.794945 CCTAAATCCATATATTTGCGTTGCG 59.205 40.000 0.00 0.00 31.63 4.85
193 194 4.829064 AATCCATATATTTGCGTTGCGT 57.171 36.364 0.00 0.00 0.00 5.24
194 195 3.600717 TCCATATATTTGCGTTGCGTG 57.399 42.857 0.00 0.00 0.00 5.34
477 485 6.238731 CCTTTTTCTGCTAACAGTGTCATTCA 60.239 38.462 0.00 0.00 44.77 2.57
478 486 6.882610 TTTTCTGCTAACAGTGTCATTCAT 57.117 33.333 0.00 0.00 44.77 2.57
479 487 6.882610 TTTCTGCTAACAGTGTCATTCATT 57.117 33.333 0.00 0.00 44.77 2.57
480 488 6.882610 TTCTGCTAACAGTGTCATTCATTT 57.117 33.333 0.00 0.00 44.77 2.32
481 489 6.882610 TCTGCTAACAGTGTCATTCATTTT 57.117 33.333 0.00 0.00 44.77 1.82
482 490 7.977789 TCTGCTAACAGTGTCATTCATTTTA 57.022 32.000 0.00 0.00 44.77 1.52
483 491 7.806690 TCTGCTAACAGTGTCATTCATTTTAC 58.193 34.615 0.00 0.00 44.77 2.01
584 607 8.679100 CCACCATAAGTCTAGTACTATATGAGC 58.321 40.741 17.31 3.81 37.50 4.26
665 688 3.573695 AGGCTATAGAACGGTGGTACAT 58.426 45.455 3.21 0.00 44.52 2.29
680 728 2.612212 GGTACATATGGCCTTGTCGTTG 59.388 50.000 3.32 0.00 0.00 4.10
981 1115 1.067283 CCTACCAGTCACACAGAGCAG 60.067 57.143 0.00 0.00 0.00 4.24
1017 1156 2.097825 GCCATGAACAAGGAGAAGCAT 58.902 47.619 0.00 0.00 0.00 3.79
1034 1173 0.036952 CATCACAGGAACGAGCACCT 60.037 55.000 0.00 0.00 36.92 4.00
1413 1552 3.896133 GGATACGTCGCCGAGGCA 61.896 66.667 15.03 0.00 42.06 4.75
1659 1804 3.821421 GGGACGTGATAGAATGGACTT 57.179 47.619 0.00 0.00 0.00 3.01
1660 1805 3.458189 GGGACGTGATAGAATGGACTTG 58.542 50.000 0.00 0.00 0.00 3.16
1687 1832 2.078914 GTCGCACGTCCGTACTGTG 61.079 63.158 0.00 0.24 35.00 3.66
1694 1839 0.109873 CGTCCGTACTGTGAGTGGAC 60.110 60.000 10.59 10.59 44.43 4.02
1696 1841 0.250424 TCCGTACTGTGAGTGGACGA 60.250 55.000 0.00 0.00 33.36 4.20
1703 1848 2.287427 ACTGTGAGTGGACGAAACTACG 60.287 50.000 0.00 0.00 39.31 3.51
1706 1851 3.229552 GTGAGTGGACGAAACTACGTAC 58.770 50.000 0.00 0.00 46.52 3.67
1725 1870 2.168496 ACGTAGCAGGCTAGTTCTTCA 58.832 47.619 0.32 0.00 0.00 3.02
1728 1873 3.732471 CGTAGCAGGCTAGTTCTTCACTC 60.732 52.174 0.32 0.00 36.88 3.51
1739 1884 3.502979 AGTTCTTCACTCCGTGTCTCTAC 59.497 47.826 0.00 0.00 34.79 2.59
1744 1889 4.959596 TCACTCCGTGTCTCTACATAAC 57.040 45.455 0.00 0.00 38.08 1.89
1747 1892 6.175471 TCACTCCGTGTCTCTACATAACTTA 58.825 40.000 0.00 0.00 38.08 2.24
1753 1898 8.959548 TCCGTGTCTCTACATAACTTATGTTTA 58.040 33.333 17.63 7.46 46.69 2.01
1836 1983 9.162764 AGAATAAACTGTGTTGATGTATGTACC 57.837 33.333 0.00 0.00 0.00 3.34
1844 1991 6.818142 TGTGTTGATGTATGTACCTCATTCAG 59.182 38.462 0.00 0.00 37.28 3.02
1860 2007 6.295462 CCTCATTCAGTTTTGGAATTCATGGT 60.295 38.462 7.93 0.00 32.86 3.55
1864 2011 4.100653 TCAGTTTTGGAATTCATGGTTGCA 59.899 37.500 7.93 0.00 0.00 4.08
1873 2020 6.218746 GGAATTCATGGTTGCAATTCCTATC 58.781 40.000 20.68 3.87 46.64 2.08
1877 2024 5.263599 TCATGGTTGCAATTCCTATCTTGT 58.736 37.500 0.59 0.00 0.00 3.16
1878 2025 6.422333 TCATGGTTGCAATTCCTATCTTGTA 58.578 36.000 0.59 0.00 0.00 2.41
1881 2031 8.849168 CATGGTTGCAATTCCTATCTTGTATAA 58.151 33.333 0.59 0.00 0.00 0.98
1915 2065 9.462174 CATGTACATGTGTGTTTTTAGATTTGT 57.538 29.630 24.91 0.00 39.77 2.83
1920 2070 9.730420 ACATGTGTGTTTTTAGATTTGTAAGAC 57.270 29.630 0.00 0.00 34.01 3.01
1921 2071 9.180678 CATGTGTGTTTTTAGATTTGTAAGACC 57.819 33.333 0.00 0.00 0.00 3.85
1922 2072 8.282455 TGTGTGTTTTTAGATTTGTAAGACCA 57.718 30.769 0.00 0.00 0.00 4.02
1923 2073 8.740906 TGTGTGTTTTTAGATTTGTAAGACCAA 58.259 29.630 0.00 0.00 0.00 3.67
1924 2074 9.016623 GTGTGTTTTTAGATTTGTAAGACCAAC 57.983 33.333 0.00 0.00 0.00 3.77
1925 2075 8.962679 TGTGTTTTTAGATTTGTAAGACCAACT 58.037 29.630 0.00 0.00 0.00 3.16
1926 2076 9.447040 GTGTTTTTAGATTTGTAAGACCAACTC 57.553 33.333 0.00 0.00 0.00 3.01
1927 2077 8.626526 TGTTTTTAGATTTGTAAGACCAACTCC 58.373 33.333 0.00 0.00 0.00 3.85
1928 2078 8.626526 GTTTTTAGATTTGTAAGACCAACTCCA 58.373 33.333 0.00 0.00 0.00 3.86
1929 2079 8.754991 TTTTAGATTTGTAAGACCAACTCCAA 57.245 30.769 0.00 0.00 0.00 3.53
1930 2080 7.739498 TTAGATTTGTAAGACCAACTCCAAC 57.261 36.000 0.00 0.00 0.00 3.77
1931 2081 5.070685 AGATTTGTAAGACCAACTCCAACC 58.929 41.667 0.00 0.00 0.00 3.77
1932 2082 2.943036 TGTAAGACCAACTCCAACCC 57.057 50.000 0.00 0.00 0.00 4.11
1933 2083 1.071071 TGTAAGACCAACTCCAACCCG 59.929 52.381 0.00 0.00 0.00 5.28
1934 2084 0.035739 TAAGACCAACTCCAACCCGC 59.964 55.000 0.00 0.00 0.00 6.13
1935 2085 3.047877 GACCAACTCCAACCCGCG 61.048 66.667 0.00 0.00 0.00 6.46
1936 2086 3.524648 GACCAACTCCAACCCGCGA 62.525 63.158 8.23 0.00 0.00 5.87
1937 2087 3.047877 CCAACTCCAACCCGCGAC 61.048 66.667 8.23 0.00 0.00 5.19
1938 2088 2.030562 CAACTCCAACCCGCGACT 59.969 61.111 8.23 0.00 0.00 4.18
1939 2089 2.027625 CAACTCCAACCCGCGACTC 61.028 63.158 8.23 0.00 0.00 3.36
1940 2090 3.236003 AACTCCAACCCGCGACTCC 62.236 63.158 8.23 0.00 0.00 3.85
1941 2091 3.691342 CTCCAACCCGCGACTCCA 61.691 66.667 8.23 0.00 0.00 3.86
1942 2092 3.000819 TCCAACCCGCGACTCCAT 61.001 61.111 8.23 0.00 0.00 3.41
1943 2093 2.511600 CCAACCCGCGACTCCATC 60.512 66.667 8.23 0.00 0.00 3.51
1944 2094 2.511600 CAACCCGCGACTCCATCC 60.512 66.667 8.23 0.00 0.00 3.51
1945 2095 2.683933 AACCCGCGACTCCATCCT 60.684 61.111 8.23 0.00 0.00 3.24
1946 2096 3.019003 AACCCGCGACTCCATCCTG 62.019 63.158 8.23 0.00 0.00 3.86
1947 2097 3.461773 CCCGCGACTCCATCCTGT 61.462 66.667 8.23 0.00 0.00 4.00
1948 2098 2.105128 CCGCGACTCCATCCTGTC 59.895 66.667 8.23 0.00 0.00 3.51
1949 2099 2.105128 CGCGACTCCATCCTGTCC 59.895 66.667 0.00 0.00 0.00 4.02
1950 2100 2.105128 GCGACTCCATCCTGTCCG 59.895 66.667 0.00 0.00 0.00 4.79
1951 2101 2.711922 GCGACTCCATCCTGTCCGT 61.712 63.158 0.00 0.00 0.00 4.69
1952 2102 1.139734 CGACTCCATCCTGTCCGTG 59.860 63.158 0.00 0.00 0.00 4.94
1953 2103 1.595993 CGACTCCATCCTGTCCGTGT 61.596 60.000 0.00 0.00 0.00 4.49
1954 2104 0.173708 GACTCCATCCTGTCCGTGTC 59.826 60.000 0.00 0.00 0.00 3.67
1977 2127 3.782443 AACGAGCGACCCCATCCC 61.782 66.667 0.00 0.00 0.00 3.85
1997 2147 3.636300 CCCCATTTTCTGTCTGTTTCACA 59.364 43.478 0.00 0.00 0.00 3.58
2001 2151 6.461370 CCCATTTTCTGTCTGTTTCACATTCA 60.461 38.462 0.00 0.00 0.00 2.57
2009 2159 1.074775 TTTCACATTCAGCCCGCCT 59.925 52.632 0.00 0.00 0.00 5.52
2049 2199 1.514678 GCCGTCTTTGCATCCACACA 61.515 55.000 0.00 0.00 0.00 3.72
2052 2202 2.079158 CGTCTTTGCATCCACACAGAT 58.921 47.619 0.00 0.00 29.67 2.90
2055 2205 3.693085 GTCTTTGCATCCACACAGATGAT 59.307 43.478 5.73 0.00 45.43 2.45
2094 2245 4.116328 CTCTGCGTTCGCCTCGGA 62.116 66.667 14.44 6.85 0.00 4.55
2151 2321 3.330720 GTGGCCCCACCTAGCAGT 61.331 66.667 0.00 0.00 40.79 4.40
2152 2322 3.329889 TGGCCCCACCTAGCAGTG 61.330 66.667 0.00 0.00 40.22 3.66
2251 2421 4.933064 GCGACGGATGCCTCCTCG 62.933 72.222 18.51 18.51 41.32 4.63
2252 2422 3.209812 CGACGGATGCCTCCTCGA 61.210 66.667 18.20 0.00 41.10 4.04
2253 2423 2.771639 CGACGGATGCCTCCTCGAA 61.772 63.158 18.20 0.00 41.10 3.71
2254 2424 1.066587 GACGGATGCCTCCTCGAAG 59.933 63.158 6.46 0.00 39.65 3.79
2255 2425 2.279784 CGGATGCCTCCTCGAAGC 60.280 66.667 6.46 0.00 39.65 3.86
2256 2426 2.279784 GGATGCCTCCTCGAAGCG 60.280 66.667 0.00 0.00 38.65 4.68
2257 2427 2.786495 GGATGCCTCCTCGAAGCGA 61.786 63.158 0.00 0.00 38.65 4.93
2288 2458 3.728373 CCAAACCCTAGCCCGCCT 61.728 66.667 0.00 0.00 0.00 5.52
2295 2465 2.197324 CTAGCCCGCCTCTCCTCT 59.803 66.667 0.00 0.00 0.00 3.69
2302 2472 1.534697 CGCCTCTCCTCTACCTCCT 59.465 63.158 0.00 0.00 0.00 3.69
2412 2582 1.982395 CACTACTCCGCCTCCACCA 60.982 63.158 0.00 0.00 0.00 4.17
2415 2603 3.533079 TACTCCGCCTCCACCACCA 62.533 63.158 0.00 0.00 0.00 4.17
2429 2617 3.559069 CACCACCAGCATTCCATATCTT 58.441 45.455 0.00 0.00 0.00 2.40
2455 2643 4.643387 GCACCCCGCCTTGTCAGT 62.643 66.667 0.00 0.00 32.94 3.41
2538 2726 1.149401 TGACGTGCACATCCCCAAA 59.851 52.632 18.64 0.00 0.00 3.28
2539 2727 0.888736 TGACGTGCACATCCCCAAAG 60.889 55.000 18.64 0.00 0.00 2.77
2553 2741 0.689623 CCAAAGACTGGCACCTCTCT 59.310 55.000 0.00 0.00 38.76 3.10
2557 2745 2.601666 ACTGGCACCTCTCTGCGA 60.602 61.111 0.00 0.00 38.12 5.10
2570 2759 2.823593 TGCGAATCGGTGCCCATG 60.824 61.111 4.35 0.00 0.00 3.66
2618 2807 0.105142 GCCTACCCCCAGACCTCATA 60.105 60.000 0.00 0.00 0.00 2.15
2622 2811 0.397254 ACCCCCAGACCTCATAGACG 60.397 60.000 0.00 0.00 0.00 4.18
2624 2813 1.033574 CCCCAGACCTCATAGACGAC 58.966 60.000 0.00 0.00 0.00 4.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
79 80 5.629834 GCTGATGGATATGCATATACCACCA 60.630 44.000 26.58 24.01 33.38 4.17
189 190 1.289066 GACTACCACTGAGCACGCA 59.711 57.895 0.00 0.00 0.00 5.24
190 191 1.801913 CGACTACCACTGAGCACGC 60.802 63.158 0.00 0.00 0.00 5.34
191 192 1.154016 CCGACTACCACTGAGCACG 60.154 63.158 0.00 0.00 0.00 5.34
192 193 0.388649 CACCGACTACCACTGAGCAC 60.389 60.000 0.00 0.00 0.00 4.40
193 194 0.538746 TCACCGACTACCACTGAGCA 60.539 55.000 0.00 0.00 0.00 4.26
194 195 0.109226 GTCACCGACTACCACTGAGC 60.109 60.000 0.00 0.00 0.00 4.26
439 440 4.462834 GCAGAAAAAGGCTAAGTTATGGGT 59.537 41.667 0.00 0.00 0.00 4.51
565 588 6.489127 CGCAGCTCATATAGTACTAGACTT 57.511 41.667 8.85 0.00 39.81 3.01
618 641 4.343814 TCGGGCTATGTTGACATCAATCTA 59.656 41.667 0.00 0.00 38.24 1.98
680 728 5.313623 CCAATCGATCAAACACTCGTTAAC 58.686 41.667 0.00 0.00 36.33 2.01
691 739 3.981071 AGTGAGTCCCAATCGATCAAA 57.019 42.857 0.00 0.00 0.00 2.69
692 740 3.260632 TGAAGTGAGTCCCAATCGATCAA 59.739 43.478 0.00 0.00 0.00 2.57
847 895 5.238650 GTCTCAACCGAAGAATTTTCCTCAA 59.761 40.000 0.00 0.00 0.00 3.02
848 896 4.755123 GTCTCAACCGAAGAATTTTCCTCA 59.245 41.667 0.00 0.00 0.00 3.86
963 1088 1.889170 CTCTGCTCTGTGTGACTGGTA 59.111 52.381 0.00 0.00 0.00 3.25
981 1115 1.468985 TGGCTCTGCTCTCTGTACTC 58.531 55.000 0.00 0.00 0.00 2.59
1017 1156 1.666011 GAGGTGCTCGTTCCTGTGA 59.334 57.895 0.00 0.00 33.83 3.58
1131 1270 3.339141 CAAGTAGAAGGAAGGCTTGGTC 58.661 50.000 3.46 0.00 34.58 4.02
1413 1552 0.254178 AGGCGATGTCCTGCTTCATT 59.746 50.000 0.00 0.00 34.56 2.57
1641 1786 3.307242 GCACAAGTCCATTCTATCACGTC 59.693 47.826 0.00 0.00 0.00 4.34
1687 1832 2.096218 ACGTACGTAGTTTCGTCCACTC 60.096 50.000 21.41 0.00 43.38 3.51
1703 1848 3.128242 TGAAGAACTAGCCTGCTACGTAC 59.872 47.826 0.00 0.00 0.00 3.67
1706 1851 2.164624 AGTGAAGAACTAGCCTGCTACG 59.835 50.000 0.00 0.00 37.36 3.51
1712 1857 1.926108 ACGGAGTGAAGAACTAGCCT 58.074 50.000 0.00 0.00 42.51 4.58
1725 1870 6.602406 ACATAAGTTATGTAGAGACACGGAGT 59.398 38.462 23.95 0.00 46.90 3.85
1776 1921 7.689812 CACGAGACATACAAAAATTAGAAGCTG 59.310 37.037 0.00 0.00 0.00 4.24
1781 1926 8.641155 CGTTACACGAGACATACAAAAATTAGA 58.359 33.333 0.00 0.00 46.05 2.10
1782 1927 7.896274 CCGTTACACGAGACATACAAAAATTAG 59.104 37.037 0.00 0.00 46.05 1.73
1806 1953 4.695455 ACATCAACACAGTTTATTCTCCCG 59.305 41.667 0.00 0.00 0.00 5.14
1836 1983 6.694447 ACCATGAATTCCAAAACTGAATGAG 58.306 36.000 2.27 0.00 32.91 2.90
1844 1991 5.945466 ATTGCAACCATGAATTCCAAAAC 57.055 34.783 0.00 0.00 0.00 2.43
1900 2050 9.447040 GAGTTGGTCTTACAAATCTAAAAACAC 57.553 33.333 0.00 0.00 40.97 3.32
1905 2055 7.229907 GGTTGGAGTTGGTCTTACAAATCTAAA 59.770 37.037 6.72 0.78 43.74 1.85
1912 2062 2.485835 CGGGTTGGAGTTGGTCTTACAA 60.486 50.000 0.00 0.00 0.00 2.41
1913 2063 1.071071 CGGGTTGGAGTTGGTCTTACA 59.929 52.381 0.00 0.00 0.00 2.41
1914 2064 1.804601 CGGGTTGGAGTTGGTCTTAC 58.195 55.000 0.00 0.00 0.00 2.34
1915 2065 0.035739 GCGGGTTGGAGTTGGTCTTA 59.964 55.000 0.00 0.00 0.00 2.10
1916 2066 1.228154 GCGGGTTGGAGTTGGTCTT 60.228 57.895 0.00 0.00 0.00 3.01
1917 2067 2.430367 GCGGGTTGGAGTTGGTCT 59.570 61.111 0.00 0.00 0.00 3.85
1918 2068 3.047877 CGCGGGTTGGAGTTGGTC 61.048 66.667 0.00 0.00 0.00 4.02
1919 2069 3.552384 TCGCGGGTTGGAGTTGGT 61.552 61.111 6.13 0.00 0.00 3.67
1920 2070 3.047877 GTCGCGGGTTGGAGTTGG 61.048 66.667 6.13 0.00 0.00 3.77
1921 2071 2.027625 GAGTCGCGGGTTGGAGTTG 61.028 63.158 6.13 0.00 0.00 3.16
1922 2072 2.342648 GAGTCGCGGGTTGGAGTT 59.657 61.111 6.13 0.00 0.00 3.01
1923 2073 3.692406 GGAGTCGCGGGTTGGAGT 61.692 66.667 6.13 0.00 0.00 3.85
1924 2074 2.907897 GATGGAGTCGCGGGTTGGAG 62.908 65.000 6.13 0.00 0.00 3.86
1925 2075 3.000819 ATGGAGTCGCGGGTTGGA 61.001 61.111 6.13 0.00 0.00 3.53
1926 2076 2.511600 GATGGAGTCGCGGGTTGG 60.512 66.667 6.13 0.00 0.00 3.77
1927 2077 2.511600 GGATGGAGTCGCGGGTTG 60.512 66.667 6.13 0.00 0.00 3.77
1928 2078 2.683933 AGGATGGAGTCGCGGGTT 60.684 61.111 6.13 0.00 0.00 4.11
1929 2079 3.461773 CAGGATGGAGTCGCGGGT 61.462 66.667 6.13 0.00 0.00 5.28
1930 2080 3.432051 GACAGGATGGAGTCGCGGG 62.432 68.421 6.13 0.00 43.62 6.13
1931 2081 2.105128 GACAGGATGGAGTCGCGG 59.895 66.667 6.13 0.00 43.62 6.46
1932 2082 2.105128 GGACAGGATGGAGTCGCG 59.895 66.667 0.00 0.00 43.62 5.87
1933 2083 2.105128 CGGACAGGATGGAGTCGC 59.895 66.667 0.00 0.00 43.62 5.19
1934 2084 1.139734 CACGGACAGGATGGAGTCG 59.860 63.158 0.00 0.00 43.62 4.18
1935 2085 0.173708 GACACGGACAGGATGGAGTC 59.826 60.000 0.00 0.00 43.62 3.36
1936 2086 1.595993 CGACACGGACAGGATGGAGT 61.596 60.000 0.00 0.00 43.62 3.85
1937 2087 1.139734 CGACACGGACAGGATGGAG 59.860 63.158 0.00 0.00 43.62 3.86
1938 2088 3.284336 CGACACGGACAGGATGGA 58.716 61.111 0.00 0.00 43.62 3.41
1964 2114 1.874299 AAAATGGGGATGGGGTCGCT 61.874 55.000 0.00 0.00 39.58 4.93
1997 2147 0.753111 GGAAATGAGGCGGGCTGAAT 60.753 55.000 9.52 0.00 0.00 2.57
2001 2151 4.489771 CCGGAAATGAGGCGGGCT 62.490 66.667 2.69 2.69 0.00 5.19
2009 2159 1.202114 GCATGTTTGAGCCGGAAATGA 59.798 47.619 5.05 0.00 0.00 2.57
2049 2199 1.067212 GTAGGCGTCCGTTCATCATCT 59.933 52.381 0.00 0.00 0.00 2.90
2052 2202 1.138036 CGTAGGCGTCCGTTCATCA 59.862 57.895 0.00 0.00 0.00 3.07
2240 2410 1.590259 GTCGCTTCGAGGAGGCATC 60.590 63.158 0.00 0.00 36.23 3.91
2241 2411 2.496817 GTCGCTTCGAGGAGGCAT 59.503 61.111 0.00 0.00 36.23 4.40
2250 2420 4.771356 TCGGGCTTCGTCGCTTCG 62.771 66.667 0.00 4.42 40.32 3.79
2251 2421 3.179939 GTCGGGCTTCGTCGCTTC 61.180 66.667 0.00 0.00 40.32 3.86
2252 2422 3.509137 TTGTCGGGCTTCGTCGCTT 62.509 57.895 0.00 0.00 40.32 4.68
2253 2423 3.986006 TTGTCGGGCTTCGTCGCT 61.986 61.111 0.00 0.00 40.32 4.93
2254 2424 3.774702 GTTGTCGGGCTTCGTCGC 61.775 66.667 0.00 0.00 40.32 5.19
2255 2425 3.110178 GGTTGTCGGGCTTCGTCG 61.110 66.667 0.00 0.00 40.32 5.12
2256 2426 1.161563 TTTGGTTGTCGGGCTTCGTC 61.162 55.000 0.60 0.00 40.32 4.20
2257 2427 1.153127 TTTGGTTGTCGGGCTTCGT 60.153 52.632 0.60 0.00 40.32 3.85
2288 2458 1.532728 GGCGAGGAGGTAGAGGAGA 59.467 63.158 0.00 0.00 0.00 3.71
2412 2582 2.091720 TGGCAAGATATGGAATGCTGGT 60.092 45.455 0.00 0.00 38.79 4.00
2415 2603 3.484407 GTCTGGCAAGATATGGAATGCT 58.516 45.455 0.00 0.00 38.79 3.79
2440 2628 3.953775 CCACTGACAAGGCGGGGT 61.954 66.667 0.00 0.00 0.00 4.95
2449 2637 1.736365 TTGACGTACGGCCACTGACA 61.736 55.000 20.48 0.00 0.00 3.58
2511 2699 3.220658 TGCACGTCACTCCACGGA 61.221 61.111 0.00 0.00 44.41 4.69
2520 2708 0.888736 CTTTGGGGATGTGCACGTCA 60.889 55.000 33.83 16.61 33.64 4.35
2538 2726 2.644212 CGCAGAGAGGTGCCAGTCT 61.644 63.158 0.00 0.00 40.62 3.24
2539 2727 2.125753 CGCAGAGAGGTGCCAGTC 60.126 66.667 0.00 0.00 40.62 3.51
2603 2792 0.397254 CGTCTATGAGGTCTGGGGGT 60.397 60.000 0.00 0.00 0.00 4.95
2604 2793 0.106167 TCGTCTATGAGGTCTGGGGG 60.106 60.000 0.00 0.00 0.00 5.40
2606 2795 1.678627 CAGTCGTCTATGAGGTCTGGG 59.321 57.143 6.62 0.00 32.91 4.45
2609 2798 2.422235 CCTCCAGTCGTCTATGAGGTCT 60.422 54.545 15.00 0.00 37.24 3.85
2618 2807 2.045131 GGCGTACCTCCAGTCGTCT 61.045 63.158 0.00 0.00 0.00 4.18
2622 2811 0.535335 TCAATGGCGTACCTCCAGTC 59.465 55.000 7.47 0.00 36.98 3.51
2624 2813 0.537188 AGTCAATGGCGTACCTCCAG 59.463 55.000 7.47 0.00 36.98 3.86


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

AutoCloner maintained by Alex Coulton.