Multiple sequence alignment - TraesCS3A01G424400

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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 TraesCS3A01G424400 chr3A 100.000 2852 0 0 1 2852 667164052 667161201 0.000000e+00 5267
1 TraesCS3A01G424400 chr3D 94.685 1844 88 4 1 1844 418712117 418710284 0.000000e+00 2854
2 TraesCS3A01G424400 chr3D 91.537 449 25 6 2405 2849 418710086 418709647 8.740000e-170 606
3 TraesCS3A01G424400 chr3D 88.889 180 19 1 2159 2337 418710271 418710092 1.330000e-53 220
4 TraesCS3A01G424400 chr7D 94.197 1844 97 4 1 1844 136700877 136699044 0.000000e+00 2804
5 TraesCS3A01G424400 chr7D 90.013 751 71 2 1 748 199529064 199529813 0.000000e+00 968
6 TraesCS3A01G424400 chr7D 91.314 449 26 6 2405 2849 136698846 136698407 4.070000e-168 601
7 TraesCS3A01G424400 chr6A 89.060 1883 197 6 1 1877 563488874 563490753 0.000000e+00 2327
8 TraesCS3A01G424400 chr6A 86.838 1793 221 11 1 1787 591517490 591519273 0.000000e+00 1989
9 TraesCS3A01G424400 chr6A 85.388 219 32 0 2466 2684 563490905 563491123 7.950000e-56 228
10 TraesCS3A01G424400 chr4B 88.948 1882 200 6 1 1877 168270639 168268761 0.000000e+00 2316
11 TraesCS3A01G424400 chr4B 79.146 398 57 11 2467 2849 168268609 168268223 4.720000e-63 252
12 TraesCS3A01G424400 chr1A 86.089 1790 234 10 3 1787 8361465 8359686 0.000000e+00 1912
13 TraesCS3A01G424400 chr6D 93.766 1171 66 5 812 1977 318068901 318067733 0.000000e+00 1751
14 TraesCS3A01G424400 chr6D 87.188 320 27 3 2349 2654 318054048 318053729 4.520000e-93 351
15 TraesCS3A01G424400 chr6D 89.565 230 24 0 2619 2848 318053803 318053574 2.780000e-75 292
16 TraesCS3A01G424400 chr2A 83.389 1794 274 16 1 1778 556949377 556951162 0.000000e+00 1640
17 TraesCS3A01G424400 chr2A 87.810 1370 158 7 515 1877 21940840 21939473 0.000000e+00 1596
18 TraesCS3A01G424400 chr2A 85.845 219 31 0 2466 2684 21939322 21939104 1.710000e-57 233
19 TraesCS3A01G424400 chr7A 89.016 965 99 4 1 960 106410016 106409054 0.000000e+00 1188
20 TraesCS3A01G424400 chr2D 96.552 638 22 0 2215 2852 646280550 646279913 0.000000e+00 1057
21 TraesCS3A01G424400 chr1B 84.457 920 136 6 1 918 502774926 502775840 0.000000e+00 900
22 TraesCS3A01G424400 chr5B 87.747 759 93 0 1119 1877 551736897 551736139 0.000000e+00 887


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 TraesCS3A01G424400 chr3A 667161201 667164052 2851 True 5267.000000 5267 100.000000 1 2852 1 chr3A.!!$R1 2851
1 TraesCS3A01G424400 chr3D 418709647 418712117 2470 True 1226.666667 2854 91.703667 1 2849 3 chr3D.!!$R1 2848
2 TraesCS3A01G424400 chr7D 136698407 136700877 2470 True 1702.500000 2804 92.755500 1 2849 2 chr7D.!!$R1 2848
3 TraesCS3A01G424400 chr7D 199529064 199529813 749 False 968.000000 968 90.013000 1 748 1 chr7D.!!$F1 747
4 TraesCS3A01G424400 chr6A 591517490 591519273 1783 False 1989.000000 1989 86.838000 1 1787 1 chr6A.!!$F1 1786
5 TraesCS3A01G424400 chr6A 563488874 563491123 2249 False 1277.500000 2327 87.224000 1 2684 2 chr6A.!!$F2 2683
6 TraesCS3A01G424400 chr4B 168268223 168270639 2416 True 1284.000000 2316 84.047000 1 2849 2 chr4B.!!$R1 2848
7 TraesCS3A01G424400 chr1A 8359686 8361465 1779 True 1912.000000 1912 86.089000 3 1787 1 chr1A.!!$R1 1784
8 TraesCS3A01G424400 chr6D 318067733 318068901 1168 True 1751.000000 1751 93.766000 812 1977 1 chr6D.!!$R1 1165
9 TraesCS3A01G424400 chr2A 556949377 556951162 1785 False 1640.000000 1640 83.389000 1 1778 1 chr2A.!!$F1 1777
10 TraesCS3A01G424400 chr2A 21939104 21940840 1736 True 914.500000 1596 86.827500 515 2684 2 chr2A.!!$R1 2169
11 TraesCS3A01G424400 chr7A 106409054 106410016 962 True 1188.000000 1188 89.016000 1 960 1 chr7A.!!$R1 959
12 TraesCS3A01G424400 chr2D 646279913 646280550 637 True 1057.000000 1057 96.552000 2215 2852 1 chr2D.!!$R1 637
13 TraesCS3A01G424400 chr1B 502774926 502775840 914 False 900.000000 900 84.457000 1 918 1 chr1B.!!$F1 917
14 TraesCS3A01G424400 chr5B 551736139 551736897 758 True 887.000000 887 87.747000 1119 1877 1 chr5B.!!$R1 758

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
367 368 1.634702 GCTCGAGCACTTGTTCTAGG 58.365 55.0 31.91 0.0 41.59 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2228 2344 2.0935 TCACAAGCTGCCACTATTCGAT 60.093 45.455 0.0 0.0 0.0 3.59 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
228 229 7.158021 ACAACACATGAAACAAAAGAAAAGGA 58.842 30.769 0.00 0.00 0.00 3.36
234 235 9.500785 ACATGAAACAAAAGAAAAGGAGAAAAA 57.499 25.926 0.00 0.00 0.00 1.94
335 336 4.413520 CCGGATAATCCAATGGATAGGGAT 59.586 45.833 16.10 6.88 42.27 3.85
367 368 1.634702 GCTCGAGCACTTGTTCTAGG 58.365 55.000 31.91 0.00 41.59 3.02
387 388 2.224646 GGAATCCTTGGCTCCATAGTCC 60.225 54.545 0.00 0.00 0.00 3.85
442 443 9.305555 AGCTATGTATCTCCAATTTATGCAAAT 57.694 29.630 0.00 0.00 35.84 2.32
480 481 6.621394 ACAGAGTATAATTGGGGAGTAGCTA 58.379 40.000 0.00 0.00 0.00 3.32
557 558 5.957774 AGAAATTTCAGGGCCTTTATTGCTA 59.042 36.000 19.99 0.00 0.00 3.49
620 622 7.094762 CGTCCTAAAGTTATTTTTGAGAAGCCT 60.095 37.037 0.00 0.00 0.00 4.58
641 643 5.746990 CTAAAGAAGGAGAGGAACCTGAA 57.253 43.478 0.00 0.00 37.85 3.02
778 784 9.337091 ACTAAATTTATTACACGTCATTTGTGC 57.663 29.630 0.00 0.00 41.03 4.57
900 909 5.766670 GCAACCATATGATGATCTTCTGGAA 59.233 40.000 16.30 0.00 0.00 3.53
932 941 6.430308 CCTATCCAAGTTCATGATGATTCTGG 59.570 42.308 0.00 3.58 0.00 3.86
941 950 4.227073 TCATGATGATTCTGGTTGGTGGTA 59.773 41.667 0.00 0.00 0.00 3.25
969 978 4.002982 GAGTACCACTCATGCATTGTTGA 58.997 43.478 0.00 0.00 44.45 3.18
1039 1048 1.559682 GACAGGCCATTCCACCTTCTA 59.440 52.381 5.01 0.00 37.29 2.10
1070 1079 1.599606 GAGGCAGAGCTTCGGAGACA 61.600 60.000 0.00 0.00 34.32 3.41
1168 1190 1.467374 GCGTTCAAGCAAGTGTGTTGT 60.467 47.619 0.00 0.00 37.05 3.32
1173 1195 3.342719 TCAAGCAAGTGTGTTGTCAGAA 58.657 40.909 0.00 0.00 0.00 3.02
1200 1222 4.650754 TCCCTTCGATGTAGCTAGTTTC 57.349 45.455 0.00 0.00 0.00 2.78
1282 1305 1.545651 GCTTGGGCGGCCTAGATAAAT 60.546 52.381 36.71 0.00 0.00 1.40
1305 1328 9.707957 AAATCTATTCCATATCCTCGAGATAGT 57.292 33.333 15.71 0.00 40.82 2.12
1473 1499 1.533187 AGAATGCCACATGGGGGATA 58.467 50.000 22.72 3.66 38.12 2.59
1492 1518 7.234166 GGGGGATAAAATGTGCTACTACTAGTA 59.766 40.741 1.89 1.89 0.00 1.82
1650 1676 5.291371 CGATGATGCTTCCTATATTGCTCAG 59.709 44.000 0.00 0.00 0.00 3.35
1681 1711 3.968265 CCCCCAAAAGAGAGCAATTCTA 58.032 45.455 0.00 0.00 35.87 2.10
1788 1818 4.816385 ACAACACAAGATGTAGGTCAAGTG 59.184 41.667 0.00 0.00 42.31 3.16
1846 1876 6.007703 ACTAGTAGGCATCAATCTAGGAGTC 58.992 44.000 1.45 0.00 34.31 3.36
1853 1883 3.292492 TCAATCTAGGAGTCCGTAGCA 57.708 47.619 2.76 0.00 32.39 3.49
1939 2055 9.605275 TCTCACTCCTTATTTGATAAGTTCATG 57.395 33.333 6.87 0.00 40.44 3.07
1940 2056 9.388506 CTCACTCCTTATTTGATAAGTTCATGT 57.611 33.333 6.87 0.00 40.44 3.21
1941 2057 9.166173 TCACTCCTTATTTGATAAGTTCATGTG 57.834 33.333 6.87 0.00 40.44 3.21
1942 2058 8.400947 CACTCCTTATTTGATAAGTTCATGTGG 58.599 37.037 6.87 0.00 40.44 4.17
1943 2059 7.067494 ACTCCTTATTTGATAAGTTCATGTGGC 59.933 37.037 6.87 0.00 40.44 5.01
1944 2060 6.889177 TCCTTATTTGATAAGTTCATGTGGCA 59.111 34.615 6.87 0.00 40.44 4.92
1945 2061 7.395772 TCCTTATTTGATAAGTTCATGTGGCAA 59.604 33.333 0.00 0.00 40.44 4.52
1946 2062 7.489113 CCTTATTTGATAAGTTCATGTGGCAAC 59.511 37.037 0.00 0.00 40.44 4.17
1947 2063 4.782019 TTGATAAGTTCATGTGGCAACC 57.218 40.909 0.00 0.00 33.34 3.77
1948 2064 4.032960 TGATAAGTTCATGTGGCAACCT 57.967 40.909 0.00 0.00 0.00 3.50
1949 2065 5.172687 TGATAAGTTCATGTGGCAACCTA 57.827 39.130 0.00 0.00 0.00 3.08
1950 2066 4.941263 TGATAAGTTCATGTGGCAACCTAC 59.059 41.667 0.00 0.00 0.00 3.18
1951 2067 2.200373 AGTTCATGTGGCAACCTACC 57.800 50.000 0.00 0.00 0.00 3.18
1952 2068 1.705186 AGTTCATGTGGCAACCTACCT 59.295 47.619 0.00 0.00 0.00 3.08
1953 2069 2.108250 AGTTCATGTGGCAACCTACCTT 59.892 45.455 0.00 0.00 0.00 3.50
1954 2070 2.198827 TCATGTGGCAACCTACCTTG 57.801 50.000 0.00 0.00 0.00 3.61
1955 2071 1.423541 TCATGTGGCAACCTACCTTGT 59.576 47.619 0.00 0.00 0.00 3.16
1956 2072 2.640332 TCATGTGGCAACCTACCTTGTA 59.360 45.455 0.00 0.00 0.00 2.41
1957 2073 3.265737 TCATGTGGCAACCTACCTTGTAT 59.734 43.478 0.00 0.00 0.00 2.29
1958 2074 3.066291 TGTGGCAACCTACCTTGTATG 57.934 47.619 0.00 0.00 0.00 2.39
1959 2075 2.640332 TGTGGCAACCTACCTTGTATGA 59.360 45.455 0.00 0.00 0.00 2.15
1960 2076 3.073209 TGTGGCAACCTACCTTGTATGAA 59.927 43.478 0.00 0.00 0.00 2.57
1961 2077 4.263727 TGTGGCAACCTACCTTGTATGAAT 60.264 41.667 0.00 0.00 0.00 2.57
1962 2078 5.045505 TGTGGCAACCTACCTTGTATGAATA 60.046 40.000 0.00 0.00 0.00 1.75
1963 2079 6.062095 GTGGCAACCTACCTTGTATGAATAT 58.938 40.000 0.00 0.00 0.00 1.28
1964 2080 6.017109 GTGGCAACCTACCTTGTATGAATATG 60.017 42.308 0.00 0.00 0.00 1.78
1965 2081 5.473504 GGCAACCTACCTTGTATGAATATGG 59.526 44.000 0.00 0.00 0.00 2.74
1966 2082 5.048713 GCAACCTACCTTGTATGAATATGGC 60.049 44.000 0.00 0.00 0.00 4.40
1967 2083 5.904984 ACCTACCTTGTATGAATATGGCA 57.095 39.130 0.00 0.00 0.00 4.92
1968 2084 6.454223 ACCTACCTTGTATGAATATGGCAT 57.546 37.500 4.88 4.88 0.00 4.40
1969 2085 6.476378 ACCTACCTTGTATGAATATGGCATC 58.524 40.000 1.65 0.00 0.00 3.91
1970 2086 6.044287 ACCTACCTTGTATGAATATGGCATCA 59.956 38.462 1.65 0.00 0.00 3.07
1971 2087 7.114754 CCTACCTTGTATGAATATGGCATCAT 58.885 38.462 1.65 5.17 39.50 2.45
1972 2088 6.829229 ACCTTGTATGAATATGGCATCATG 57.171 37.500 1.65 0.00 36.93 3.07
1973 2089 6.309357 ACCTTGTATGAATATGGCATCATGT 58.691 36.000 1.65 0.00 36.93 3.21
1974 2090 6.779049 ACCTTGTATGAATATGGCATCATGTT 59.221 34.615 1.65 0.00 37.41 2.71
1975 2091 7.088272 CCTTGTATGAATATGGCATCATGTTG 58.912 38.462 1.65 0.00 35.34 3.33
1976 2092 7.255695 CCTTGTATGAATATGGCATCATGTTGT 60.256 37.037 1.65 0.00 35.34 3.32
1977 2093 7.205737 TGTATGAATATGGCATCATGTTGTC 57.794 36.000 1.65 1.26 35.34 3.18
1978 2094 6.771749 TGTATGAATATGGCATCATGTTGTCA 59.228 34.615 13.16 13.16 35.34 3.58
1979 2095 5.503662 TGAATATGGCATCATGTTGTCAC 57.496 39.130 13.06 2.01 35.34 3.67
1980 2096 4.338964 TGAATATGGCATCATGTTGTCACC 59.661 41.667 13.06 3.01 35.34 4.02
1981 2097 2.219080 ATGGCATCATGTTGTCACCA 57.781 45.000 13.06 8.36 33.31 4.17
1982 2098 1.992538 TGGCATCATGTTGTCACCAA 58.007 45.000 6.97 0.00 0.00 3.67
1983 2099 2.314246 TGGCATCATGTTGTCACCAAA 58.686 42.857 6.97 0.00 30.94 3.28
1984 2100 2.898612 TGGCATCATGTTGTCACCAAAT 59.101 40.909 6.97 0.00 30.94 2.32
1985 2101 3.255725 GGCATCATGTTGTCACCAAATG 58.744 45.455 3.47 0.00 30.94 2.32
1986 2102 2.669434 GCATCATGTTGTCACCAAATGC 59.331 45.455 5.69 5.67 30.94 3.56
1987 2103 3.615592 GCATCATGTTGTCACCAAATGCT 60.616 43.478 11.50 0.00 30.94 3.79
1988 2104 4.380761 GCATCATGTTGTCACCAAATGCTA 60.381 41.667 11.50 0.00 30.94 3.49
1989 2105 5.712004 CATCATGTTGTCACCAAATGCTAA 58.288 37.500 0.00 0.00 30.94 3.09
1990 2106 5.781210 TCATGTTGTCACCAAATGCTAAA 57.219 34.783 0.00 0.00 30.94 1.85
1991 2107 6.343716 TCATGTTGTCACCAAATGCTAAAT 57.656 33.333 0.00 0.00 30.94 1.40
1992 2108 6.757237 TCATGTTGTCACCAAATGCTAAATT 58.243 32.000 0.00 0.00 30.94 1.82
1993 2109 7.215789 TCATGTTGTCACCAAATGCTAAATTT 58.784 30.769 0.00 0.00 30.94 1.82
1994 2110 6.841443 TGTTGTCACCAAATGCTAAATTTG 57.159 33.333 0.00 4.22 38.39 2.32
1995 2111 6.344500 TGTTGTCACCAAATGCTAAATTTGT 58.656 32.000 0.00 0.00 37.32 2.83
1996 2112 6.478344 TGTTGTCACCAAATGCTAAATTTGTC 59.522 34.615 0.00 0.00 37.32 3.18
1997 2113 6.403866 TGTCACCAAATGCTAAATTTGTCT 57.596 33.333 0.00 0.00 37.32 3.41
1998 2114 6.215121 TGTCACCAAATGCTAAATTTGTCTG 58.785 36.000 0.00 5.26 37.32 3.51
1999 2115 6.040278 TGTCACCAAATGCTAAATTTGTCTGA 59.960 34.615 0.00 7.01 37.32 3.27
2000 2116 6.583806 GTCACCAAATGCTAAATTTGTCTGAG 59.416 38.462 0.00 0.00 37.32 3.35
2001 2117 6.265196 TCACCAAATGCTAAATTTGTCTGAGT 59.735 34.615 0.00 0.00 37.32 3.41
2002 2118 6.925165 CACCAAATGCTAAATTTGTCTGAGTT 59.075 34.615 0.00 0.00 37.32 3.01
2003 2119 7.439056 CACCAAATGCTAAATTTGTCTGAGTTT 59.561 33.333 0.00 0.00 37.32 2.66
2004 2120 7.439056 ACCAAATGCTAAATTTGTCTGAGTTTG 59.561 33.333 0.00 3.76 37.32 2.93
2005 2121 7.652909 CCAAATGCTAAATTTGTCTGAGTTTGA 59.347 33.333 0.00 0.00 37.32 2.69
2006 2122 9.199982 CAAATGCTAAATTTGTCTGAGTTTGAT 57.800 29.630 0.00 0.00 35.07 2.57
2007 2123 9.768662 AAATGCTAAATTTGTCTGAGTTTGATT 57.231 25.926 0.00 0.00 0.00 2.57
2008 2124 9.768662 AATGCTAAATTTGTCTGAGTTTGATTT 57.231 25.926 0.00 0.00 0.00 2.17
2009 2125 8.801715 TGCTAAATTTGTCTGAGTTTGATTTC 57.198 30.769 0.00 0.00 0.00 2.17
2010 2126 8.412456 TGCTAAATTTGTCTGAGTTTGATTTCA 58.588 29.630 0.00 0.00 0.00 2.69
2011 2127 8.909671 GCTAAATTTGTCTGAGTTTGATTTCAG 58.090 33.333 0.00 0.00 41.67 3.02
2020 2136 8.455903 TCTGAGTTTGATTTCAGACATTTTCT 57.544 30.769 4.32 0.00 43.51 2.52
2021 2137 9.559732 TCTGAGTTTGATTTCAGACATTTTCTA 57.440 29.630 4.32 0.00 43.51 2.10
2022 2138 9.604626 CTGAGTTTGATTTCAGACATTTTCTAC 57.395 33.333 4.32 0.00 42.67 2.59
2023 2139 9.342308 TGAGTTTGATTTCAGACATTTTCTACT 57.658 29.630 4.32 0.00 33.85 2.57
2026 2142 9.950680 GTTTGATTTCAGACATTTTCTACTTCA 57.049 29.630 0.00 0.00 31.12 3.02
2043 2159 7.763356 TCTACTTCATTCTAGTTGTCTAGTGC 58.237 38.462 2.84 0.00 42.88 4.40
2044 2160 6.346477 ACTTCATTCTAGTTGTCTAGTGCA 57.654 37.500 2.84 0.00 42.88 4.57
2045 2161 6.759272 ACTTCATTCTAGTTGTCTAGTGCAA 58.241 36.000 0.00 0.00 42.88 4.08
2046 2162 6.647067 ACTTCATTCTAGTTGTCTAGTGCAAC 59.353 38.462 18.42 18.42 44.57 4.17
2062 2178 5.941948 GTGCAACTTGTTATCTACCAACT 57.058 39.130 0.00 0.00 0.00 3.16
2063 2179 6.313744 GTGCAACTTGTTATCTACCAACTT 57.686 37.500 0.00 0.00 0.00 2.66
2064 2180 7.429636 GTGCAACTTGTTATCTACCAACTTA 57.570 36.000 0.00 0.00 0.00 2.24
2065 2181 7.867752 GTGCAACTTGTTATCTACCAACTTAA 58.132 34.615 0.00 0.00 0.00 1.85
2066 2182 8.347035 GTGCAACTTGTTATCTACCAACTTAAA 58.653 33.333 0.00 0.00 0.00 1.52
2067 2183 8.347035 TGCAACTTGTTATCTACCAACTTAAAC 58.653 33.333 0.00 0.00 0.00 2.01
2068 2184 8.565416 GCAACTTGTTATCTACCAACTTAAACT 58.435 33.333 0.00 0.00 0.00 2.66
2069 2185 9.878599 CAACTTGTTATCTACCAACTTAAACTG 57.121 33.333 0.00 0.00 0.00 3.16
2070 2186 9.841295 AACTTGTTATCTACCAACTTAAACTGA 57.159 29.630 0.00 0.00 0.00 3.41
2071 2187 9.841295 ACTTGTTATCTACCAACTTAAACTGAA 57.159 29.630 0.00 0.00 0.00 3.02
2074 2190 8.780249 TGTTATCTACCAACTTAAACTGAAAGC 58.220 33.333 0.00 0.00 37.60 3.51
2075 2191 9.000486 GTTATCTACCAACTTAAACTGAAAGCT 58.000 33.333 0.00 0.00 37.60 3.74
2076 2192 6.861065 TCTACCAACTTAAACTGAAAGCTG 57.139 37.500 0.00 0.00 37.60 4.24
2077 2193 4.918810 ACCAACTTAAACTGAAAGCTGG 57.081 40.909 4.20 4.20 43.06 4.85
2078 2194 4.532834 ACCAACTTAAACTGAAAGCTGGA 58.467 39.130 11.20 0.00 40.94 3.86
2079 2195 4.953579 ACCAACTTAAACTGAAAGCTGGAA 59.046 37.500 11.20 0.00 40.94 3.53
2080 2196 5.420739 ACCAACTTAAACTGAAAGCTGGAAA 59.579 36.000 11.20 0.00 40.94 3.13
2081 2197 5.979517 CCAACTTAAACTGAAAGCTGGAAAG 59.020 40.000 0.01 0.00 40.94 2.62
2082 2198 6.405842 CCAACTTAAACTGAAAGCTGGAAAGT 60.406 38.462 0.01 0.00 40.94 2.66
2083 2199 7.201785 CCAACTTAAACTGAAAGCTGGAAAGTA 60.202 37.037 0.01 0.00 40.94 2.24
2084 2200 8.352942 CAACTTAAACTGAAAGCTGGAAAGTAT 58.647 33.333 0.00 0.00 37.60 2.12
2085 2201 7.875971 ACTTAAACTGAAAGCTGGAAAGTATG 58.124 34.615 0.00 0.00 37.60 2.39
2086 2202 7.719633 ACTTAAACTGAAAGCTGGAAAGTATGA 59.280 33.333 0.00 0.00 37.60 2.15
2087 2203 5.948992 AACTGAAAGCTGGAAAGTATGAC 57.051 39.130 0.00 0.00 37.60 3.06
2088 2204 5.234466 ACTGAAAGCTGGAAAGTATGACT 57.766 39.130 0.00 0.00 37.60 3.41
2089 2205 4.999950 ACTGAAAGCTGGAAAGTATGACTG 59.000 41.667 0.00 0.00 37.60 3.51
2090 2206 5.221722 ACTGAAAGCTGGAAAGTATGACTGA 60.222 40.000 0.00 0.00 37.60 3.41
2091 2207 5.809001 TGAAAGCTGGAAAGTATGACTGAT 58.191 37.500 0.00 0.00 0.00 2.90
2092 2208 5.645067 TGAAAGCTGGAAAGTATGACTGATG 59.355 40.000 0.00 0.00 0.00 3.07
2093 2209 4.833478 AGCTGGAAAGTATGACTGATGT 57.167 40.909 0.00 0.00 0.00 3.06
2094 2210 5.171339 AGCTGGAAAGTATGACTGATGTT 57.829 39.130 0.00 0.00 0.00 2.71
2095 2211 4.940046 AGCTGGAAAGTATGACTGATGTTG 59.060 41.667 0.00 0.00 0.00 3.33
2096 2212 4.697352 GCTGGAAAGTATGACTGATGTTGT 59.303 41.667 0.00 0.00 0.00 3.32
2097 2213 5.874810 GCTGGAAAGTATGACTGATGTTGTA 59.125 40.000 0.00 0.00 0.00 2.41
2098 2214 6.183360 GCTGGAAAGTATGACTGATGTTGTAC 60.183 42.308 0.00 0.00 0.00 2.90
2099 2215 7.004555 TGGAAAGTATGACTGATGTTGTACT 57.995 36.000 0.00 0.00 32.13 2.73
2100 2216 6.873605 TGGAAAGTATGACTGATGTTGTACTG 59.126 38.462 0.00 0.00 31.62 2.74
2101 2217 7.097192 GGAAAGTATGACTGATGTTGTACTGA 58.903 38.462 0.00 0.00 31.62 3.41
2102 2218 7.602644 GGAAAGTATGACTGATGTTGTACTGAA 59.397 37.037 0.00 0.00 31.62 3.02
2103 2219 8.902540 AAAGTATGACTGATGTTGTACTGAAA 57.097 30.769 0.00 0.00 31.62 2.69
2104 2220 8.539770 AAGTATGACTGATGTTGTACTGAAAG 57.460 34.615 0.00 0.00 42.29 2.62
2118 2234 3.287867 CTGAAAGTATCCTGCCATGGT 57.712 47.619 14.67 0.00 0.00 3.55
2119 2235 3.624777 CTGAAAGTATCCTGCCATGGTT 58.375 45.455 14.67 0.00 0.00 3.67
2120 2236 4.780815 CTGAAAGTATCCTGCCATGGTTA 58.219 43.478 14.67 1.86 0.00 2.85
2121 2237 4.523083 TGAAAGTATCCTGCCATGGTTAC 58.477 43.478 14.67 7.99 34.27 2.50
2122 2238 4.227300 TGAAAGTATCCTGCCATGGTTACT 59.773 41.667 14.67 10.00 41.68 2.24
2123 2239 5.427157 TGAAAGTATCCTGCCATGGTTACTA 59.573 40.000 14.67 0.00 40.04 1.82
2124 2240 5.968676 AAGTATCCTGCCATGGTTACTAA 57.031 39.130 14.67 0.00 40.04 2.24
2125 2241 5.968676 AGTATCCTGCCATGGTTACTAAA 57.031 39.130 14.67 0.00 39.50 1.85
2126 2242 5.930135 AGTATCCTGCCATGGTTACTAAAG 58.070 41.667 14.67 0.29 39.50 1.85
2127 2243 5.665812 AGTATCCTGCCATGGTTACTAAAGA 59.334 40.000 14.67 0.00 39.50 2.52
2128 2244 4.919774 TCCTGCCATGGTTACTAAAGAA 57.080 40.909 14.67 0.00 0.00 2.52
2129 2245 5.450818 TCCTGCCATGGTTACTAAAGAAT 57.549 39.130 14.67 0.00 0.00 2.40
2130 2246 5.192927 TCCTGCCATGGTTACTAAAGAATG 58.807 41.667 14.67 0.00 0.00 2.67
2131 2247 4.339247 CCTGCCATGGTTACTAAAGAATGG 59.661 45.833 14.67 0.00 38.07 3.16
2136 2252 6.564328 CCATGGTTACTAAAGAATGGCTTTC 58.436 40.000 2.57 5.04 43.17 2.62
2137 2253 6.152661 CCATGGTTACTAAAGAATGGCTTTCA 59.847 38.462 14.63 0.00 43.17 2.69
2138 2254 7.309744 CCATGGTTACTAAAGAATGGCTTTCAA 60.310 37.037 14.63 0.00 43.17 2.69
2139 2255 7.214467 TGGTTACTAAAGAATGGCTTTCAAG 57.786 36.000 14.63 10.82 43.17 3.02
2140 2256 6.775629 TGGTTACTAAAGAATGGCTTTCAAGT 59.224 34.615 14.63 14.94 43.17 3.16
2141 2257 7.286775 TGGTTACTAAAGAATGGCTTTCAAGTT 59.713 33.333 14.63 8.36 43.17 2.66
2142 2258 8.789762 GGTTACTAAAGAATGGCTTTCAAGTTA 58.210 33.333 14.63 8.93 43.17 2.24
2143 2259 9.827411 GTTACTAAAGAATGGCTTTCAAGTTAG 57.173 33.333 14.63 17.24 43.17 2.34
2144 2260 9.787435 TTACTAAAGAATGGCTTTCAAGTTAGA 57.213 29.630 23.07 12.83 43.17 2.10
2145 2261 8.691661 ACTAAAGAATGGCTTTCAAGTTAGAA 57.308 30.769 23.07 0.00 43.17 2.10
2146 2262 9.301897 ACTAAAGAATGGCTTTCAAGTTAGAAT 57.698 29.630 23.07 10.34 43.17 2.40
2149 2265 8.414629 AAGAATGGCTTTCAAGTTAGAATTCT 57.585 30.769 13.56 13.56 36.75 2.40
2150 2266 8.414629 AGAATGGCTTTCAAGTTAGAATTCTT 57.585 30.769 14.36 0.00 36.75 2.52
2151 2267 8.302438 AGAATGGCTTTCAAGTTAGAATTCTTG 58.698 33.333 14.36 5.89 41.36 3.02
2152 2268 6.331369 TGGCTTTCAAGTTAGAATTCTTGG 57.669 37.500 14.36 0.00 40.67 3.61
2153 2269 5.833131 TGGCTTTCAAGTTAGAATTCTTGGT 59.167 36.000 14.36 0.00 40.67 3.67
2154 2270 7.001674 TGGCTTTCAAGTTAGAATTCTTGGTA 58.998 34.615 14.36 0.00 40.67 3.25
2155 2271 7.040686 TGGCTTTCAAGTTAGAATTCTTGGTAC 60.041 37.037 14.36 7.34 40.67 3.34
2156 2272 7.175119 GGCTTTCAAGTTAGAATTCTTGGTACT 59.825 37.037 14.36 9.41 40.67 2.73
2157 2273 8.017946 GCTTTCAAGTTAGAATTCTTGGTACTG 58.982 37.037 14.36 4.69 40.67 2.74
2179 2295 4.884744 TGCTTCAGTTTTAGGTTGTTGCTA 59.115 37.500 0.00 0.00 0.00 3.49
2180 2296 5.212934 GCTTCAGTTTTAGGTTGTTGCTAC 58.787 41.667 0.00 0.00 0.00 3.58
2193 2309 5.277828 GGTTGTTGCTACAGTTCCTGTTAAG 60.278 44.000 1.74 0.00 42.59 1.85
2201 2317 6.872020 GCTACAGTTCCTGTTAAGTGAACATA 59.128 38.462 1.74 5.59 46.95 2.29
2209 2325 8.472007 TCCTGTTAAGTGAACATATTTTGGTT 57.528 30.769 0.00 0.00 46.95 3.67
2228 2344 4.532916 TGGTTGTAAAGTACAGAGGGCATA 59.467 41.667 0.00 0.00 40.24 3.14
2254 2370 4.905240 TGGCAGCTTGTGACATGT 57.095 50.000 0.00 0.00 40.35 3.21
2354 2470 9.573133 AAAGGAAAATAAATCGAATGTCATGTC 57.427 29.630 0.00 0.00 0.00 3.06
2398 2514 6.432936 TCAATTCGCTGCAGAATATGAATTC 58.567 36.000 20.43 0.00 39.69 2.17
2402 2518 4.883585 TCGCTGCAGAATATGAATTCCTTT 59.116 37.500 20.43 0.00 42.20 3.11
2403 2519 4.974275 CGCTGCAGAATATGAATTCCTTTG 59.026 41.667 20.43 0.00 42.20 2.77
2410 2526 7.222224 GCAGAATATGAATTCCTTTGCTCAAAG 59.778 37.037 13.80 13.80 45.47 2.77
2505 2625 4.398549 TCTTAAGGAAAATGTGCGAACG 57.601 40.909 1.85 0.00 0.00 3.95
2641 2761 2.957402 TGTTGTGCTCTTCCCTTGAT 57.043 45.000 0.00 0.00 0.00 2.57
2674 2794 3.265221 TCCTTTGGATGATGTGCTCTTCT 59.735 43.478 3.70 0.00 0.00 2.85
2744 2879 3.123804 GTCCTTGGCTACATGATGTACG 58.876 50.000 0.23 0.00 0.00 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 2.330041 CGCCAACGTTCCACCAAC 59.670 61.111 0.00 0.00 33.53 3.77
155 156 2.614057 CTCAACTAATTCCGACCATGGC 59.386 50.000 13.04 3.65 0.00 4.40
195 196 5.787953 TGTTTCATGTGTTGTTCATCCAT 57.212 34.783 0.00 0.00 0.00 3.41
234 235 7.805163 TCCCTCACAACAATATTATCATCACT 58.195 34.615 0.00 0.00 0.00 3.41
367 368 2.708325 AGGACTATGGAGCCAAGGATTC 59.292 50.000 0.00 0.00 0.00 2.52
442 443 3.857157 ACTCTGTTGGCTGTCCTAAAA 57.143 42.857 0.00 0.00 0.00 1.52
480 481 5.984695 TGTCTATACAACAGAGCAAGAGT 57.015 39.130 0.00 0.00 30.91 3.24
557 558 4.383770 CGGGACCAAGACCATAATTGTAGT 60.384 45.833 0.00 0.00 0.00 2.73
620 622 5.403512 TCTTCAGGTTCCTCTCCTTCTTTA 58.596 41.667 0.00 0.00 32.37 1.85
641 643 7.732222 ATGTACTTCTTCATCTTCCTCTTCT 57.268 36.000 0.00 0.00 0.00 2.85
710 715 4.790878 CATTATGAGGGACATCAAATGCG 58.209 43.478 0.00 0.00 40.07 4.73
778 784 9.353999 GCAAGGTAAGAAAAATATTTGTGGTAG 57.646 33.333 0.39 0.00 0.00 3.18
900 909 4.164796 TCATGAACTTGGATAGGCATCTGT 59.835 41.667 0.00 0.00 0.00 3.41
932 941 3.449737 TGGTACTCTAGCATACCACCAAC 59.550 47.826 16.79 0.00 44.73 3.77
941 950 3.033909 TGCATGAGTGGTACTCTAGCAT 58.966 45.455 18.04 1.58 44.37 3.79
1039 1048 3.958147 CTGCCTCGCCACGTGGAAT 62.958 63.158 38.30 0.00 42.19 3.01
1060 1069 3.813529 AATTTTTCGCTGTCTCCGAAG 57.186 42.857 0.00 0.00 44.32 3.79
1131 1141 3.634730 ACGCGATTGTATTCTTGAACG 57.365 42.857 15.93 0.00 0.00 3.95
1168 1190 5.165961 ACATCGAAGGGAATTTCTTCTGA 57.834 39.130 15.68 14.44 38.66 3.27
1173 1195 4.762289 AGCTACATCGAAGGGAATTTCT 57.238 40.909 0.00 0.00 0.00 2.52
1200 1222 3.947834 GGAACCAATGTCTGTAATCAGGG 59.052 47.826 0.00 0.00 41.59 4.45
1305 1328 3.554960 GCATGTAGCCAGTCCATTCGATA 60.555 47.826 0.00 0.00 37.23 2.92
1473 1499 7.782049 TGCATCTACTAGTAGTAGCACATTTT 58.218 34.615 30.29 7.45 45.93 1.82
1492 1518 6.126536 ACAGATTTCCCTATCTTCTTGCATCT 60.127 38.462 0.00 0.00 32.60 2.90
1544 1570 3.181467 CCTAGGCTCCAAGTTCAGATCTG 60.181 52.174 17.07 17.07 0.00 2.90
1634 1660 3.181451 TGGTGGCTGAGCAATATAGGAAG 60.181 47.826 6.82 0.00 0.00 3.46
1708 1738 7.341445 TCAAGTATGTTGTAAAACCTTTGCT 57.659 32.000 0.00 0.00 0.00 3.91
1788 1818 3.764237 TTAGAGTTGGTCTGTTGGGTC 57.236 47.619 0.00 0.00 36.64 4.46
1846 1876 3.521560 TCTAATCAACTGCTTGCTACGG 58.478 45.455 0.00 0.00 0.00 4.02
1853 1883 3.700538 TGGCCATTCTAATCAACTGCTT 58.299 40.909 0.00 0.00 0.00 3.91
1914 2030 9.388506 ACATGAACTTATCAAATAAGGAGTGAG 57.611 33.333 0.00 0.98 45.05 3.51
1937 2053 3.265737 TCATACAAGGTAGGTTGCCACAT 59.734 43.478 0.00 0.00 0.00 3.21
1938 2054 2.640332 TCATACAAGGTAGGTTGCCACA 59.360 45.455 0.00 0.00 0.00 4.17
1939 2055 3.343941 TCATACAAGGTAGGTTGCCAC 57.656 47.619 0.00 0.00 0.00 5.01
1940 2056 4.584638 ATTCATACAAGGTAGGTTGCCA 57.415 40.909 0.00 0.00 0.00 4.92
1941 2057 5.473504 CCATATTCATACAAGGTAGGTTGCC 59.526 44.000 0.00 0.00 0.00 4.52
1942 2058 5.048713 GCCATATTCATACAAGGTAGGTTGC 60.049 44.000 0.00 0.00 0.00 4.17
1943 2059 6.061441 TGCCATATTCATACAAGGTAGGTTG 58.939 40.000 0.00 0.00 0.00 3.77
1944 2060 6.260700 TGCCATATTCATACAAGGTAGGTT 57.739 37.500 0.00 0.00 0.00 3.50
1945 2061 5.904984 TGCCATATTCATACAAGGTAGGT 57.095 39.130 0.00 0.00 0.00 3.08
1946 2062 6.475504 TGATGCCATATTCATACAAGGTAGG 58.524 40.000 0.00 0.00 0.00 3.18
1947 2063 7.609146 ACATGATGCCATATTCATACAAGGTAG 59.391 37.037 0.00 0.00 31.50 3.18
1948 2064 7.460910 ACATGATGCCATATTCATACAAGGTA 58.539 34.615 0.00 0.00 31.50 3.08
1949 2065 6.309357 ACATGATGCCATATTCATACAAGGT 58.691 36.000 0.00 0.00 31.50 3.50
1950 2066 6.829229 ACATGATGCCATATTCATACAAGG 57.171 37.500 0.00 0.00 31.50 3.61
1951 2067 7.654568 ACAACATGATGCCATATTCATACAAG 58.345 34.615 0.00 0.00 31.50 3.16
1952 2068 7.284944 TGACAACATGATGCCATATTCATACAA 59.715 33.333 0.00 0.00 31.50 2.41
1953 2069 6.771749 TGACAACATGATGCCATATTCATACA 59.228 34.615 0.00 0.00 31.50 2.29
1954 2070 7.080099 GTGACAACATGATGCCATATTCATAC 58.920 38.462 0.00 0.00 31.50 2.39
1955 2071 6.207221 GGTGACAACATGATGCCATATTCATA 59.793 38.462 0.00 0.00 31.50 2.15
1956 2072 5.010314 GGTGACAACATGATGCCATATTCAT 59.990 40.000 0.00 0.00 32.87 2.57
1957 2073 4.338964 GGTGACAACATGATGCCATATTCA 59.661 41.667 0.00 0.00 0.00 2.57
1958 2074 4.338964 TGGTGACAACATGATGCCATATTC 59.661 41.667 0.00 0.00 37.44 1.75
1959 2075 4.279982 TGGTGACAACATGATGCCATATT 58.720 39.130 0.00 0.00 37.44 1.28
1960 2076 3.900971 TGGTGACAACATGATGCCATAT 58.099 40.909 0.00 0.00 37.44 1.78
1961 2077 3.362870 TGGTGACAACATGATGCCATA 57.637 42.857 0.00 0.00 37.44 2.74
1962 2078 2.219080 TGGTGACAACATGATGCCAT 57.781 45.000 0.00 0.00 37.44 4.40
1963 2079 3.741707 TGGTGACAACATGATGCCA 57.258 47.368 0.00 0.00 37.44 4.92
1974 2090 6.040278 TCAGACAAATTTAGCATTTGGTGACA 59.960 34.615 11.40 0.00 41.80 3.58
1975 2091 6.446318 TCAGACAAATTTAGCATTTGGTGAC 58.554 36.000 11.40 2.60 41.80 3.67
1976 2092 6.265196 ACTCAGACAAATTTAGCATTTGGTGA 59.735 34.615 11.40 11.46 41.80 4.02
1977 2093 6.449698 ACTCAGACAAATTTAGCATTTGGTG 58.550 36.000 11.40 8.67 41.80 4.17
1978 2094 6.655078 ACTCAGACAAATTTAGCATTTGGT 57.345 33.333 11.40 0.00 41.80 3.67
1979 2095 7.652909 TCAAACTCAGACAAATTTAGCATTTGG 59.347 33.333 11.40 0.00 41.80 3.28
1980 2096 8.578308 TCAAACTCAGACAAATTTAGCATTTG 57.422 30.769 6.47 6.47 42.81 2.32
1981 2097 9.768662 AATCAAACTCAGACAAATTTAGCATTT 57.231 25.926 0.00 0.00 0.00 2.32
1982 2098 9.768662 AAATCAAACTCAGACAAATTTAGCATT 57.231 25.926 0.00 0.00 0.00 3.56
1983 2099 9.415544 GAAATCAAACTCAGACAAATTTAGCAT 57.584 29.630 0.00 0.00 0.00 3.79
1984 2100 8.412456 TGAAATCAAACTCAGACAAATTTAGCA 58.588 29.630 0.00 0.00 0.00 3.49
1985 2101 8.801715 TGAAATCAAACTCAGACAAATTTAGC 57.198 30.769 0.00 0.00 0.00 3.09
1995 2111 8.455903 AGAAAATGTCTGAAATCAAACTCAGA 57.544 30.769 0.00 0.00 44.49 3.27
1996 2112 9.604626 GTAGAAAATGTCTGAAATCAAACTCAG 57.395 33.333 0.00 0.00 40.42 3.35
1997 2113 9.342308 AGTAGAAAATGTCTGAAATCAAACTCA 57.658 29.630 0.00 0.00 37.12 3.41
2000 2116 9.950680 TGAAGTAGAAAATGTCTGAAATCAAAC 57.049 29.630 0.00 0.00 37.12 2.93
2017 2133 8.244802 GCACTAGACAACTAGAATGAAGTAGAA 58.755 37.037 10.60 0.00 46.34 2.10
2018 2134 7.393515 TGCACTAGACAACTAGAATGAAGTAGA 59.606 37.037 10.60 0.00 46.34 2.59
2019 2135 7.539436 TGCACTAGACAACTAGAATGAAGTAG 58.461 38.462 10.60 2.71 46.34 2.57
2020 2136 7.462571 TGCACTAGACAACTAGAATGAAGTA 57.537 36.000 10.60 0.00 46.34 2.24
2021 2137 6.346477 TGCACTAGACAACTAGAATGAAGT 57.654 37.500 10.60 0.34 46.34 3.01
2022 2138 7.054855 GTTGCACTAGACAACTAGAATGAAG 57.945 40.000 19.46 0.00 46.34 3.02
2032 2148 6.787085 AGATAACAAGTTGCACTAGACAAC 57.213 37.500 19.25 19.25 46.18 3.32
2033 2149 6.872020 GGTAGATAACAAGTTGCACTAGACAA 59.128 38.462 1.81 0.00 0.00 3.18
2034 2150 6.014925 TGGTAGATAACAAGTTGCACTAGACA 60.015 38.462 1.81 0.00 0.00 3.41
2035 2151 6.395629 TGGTAGATAACAAGTTGCACTAGAC 58.604 40.000 1.81 0.00 0.00 2.59
2036 2152 6.599356 TGGTAGATAACAAGTTGCACTAGA 57.401 37.500 1.81 0.00 0.00 2.43
2037 2153 6.874134 AGTTGGTAGATAACAAGTTGCACTAG 59.126 38.462 1.81 0.00 0.00 2.57
2038 2154 6.765403 AGTTGGTAGATAACAAGTTGCACTA 58.235 36.000 1.81 0.00 0.00 2.74
2039 2155 5.621193 AGTTGGTAGATAACAAGTTGCACT 58.379 37.500 1.81 0.29 0.00 4.40
2040 2156 5.941948 AGTTGGTAGATAACAAGTTGCAC 57.058 39.130 1.81 0.00 0.00 4.57
2041 2157 8.347035 GTTTAAGTTGGTAGATAACAAGTTGCA 58.653 33.333 17.19 4.98 39.71 4.08
2042 2158 8.565416 AGTTTAAGTTGGTAGATAACAAGTTGC 58.435 33.333 17.19 9.57 39.71 4.17
2043 2159 9.878599 CAGTTTAAGTTGGTAGATAACAAGTTG 57.121 33.333 17.19 0.00 39.71 3.16
2044 2160 9.841295 TCAGTTTAAGTTGGTAGATAACAAGTT 57.159 29.630 13.64 13.64 41.58 2.66
2045 2161 9.841295 TTCAGTTTAAGTTGGTAGATAACAAGT 57.159 29.630 0.00 0.00 31.93 3.16
2048 2164 8.780249 GCTTTCAGTTTAAGTTGGTAGATAACA 58.220 33.333 0.00 0.00 0.00 2.41
2049 2165 9.000486 AGCTTTCAGTTTAAGTTGGTAGATAAC 58.000 33.333 0.00 0.00 0.00 1.89
2050 2166 8.999431 CAGCTTTCAGTTTAAGTTGGTAGATAA 58.001 33.333 0.00 0.00 32.30 1.75
2051 2167 7.606456 CCAGCTTTCAGTTTAAGTTGGTAGATA 59.394 37.037 9.48 0.00 44.34 1.98
2052 2168 6.431234 CCAGCTTTCAGTTTAAGTTGGTAGAT 59.569 38.462 9.48 0.00 44.34 1.98
2053 2169 5.763204 CCAGCTTTCAGTTTAAGTTGGTAGA 59.237 40.000 9.48 0.00 44.34 2.59
2054 2170 6.002062 CCAGCTTTCAGTTTAAGTTGGTAG 57.998 41.667 9.48 0.00 44.34 3.18
2056 2172 4.918810 CCAGCTTTCAGTTTAAGTTGGT 57.081 40.909 9.48 0.00 44.34 3.67
2058 2174 6.564328 ACTTTCCAGCTTTCAGTTTAAGTTG 58.436 36.000 0.00 0.00 34.71 3.16
2059 2175 6.775594 ACTTTCCAGCTTTCAGTTTAAGTT 57.224 33.333 0.00 0.00 0.00 2.66
2060 2176 7.719633 TCATACTTTCCAGCTTTCAGTTTAAGT 59.280 33.333 0.00 0.00 0.00 2.24
2061 2177 8.017946 GTCATACTTTCCAGCTTTCAGTTTAAG 58.982 37.037 0.00 0.00 0.00 1.85
2062 2178 7.719633 AGTCATACTTTCCAGCTTTCAGTTTAA 59.280 33.333 0.00 0.00 0.00 1.52
2063 2179 7.173218 CAGTCATACTTTCCAGCTTTCAGTTTA 59.827 37.037 0.00 0.00 0.00 2.01
2064 2180 6.016777 CAGTCATACTTTCCAGCTTTCAGTTT 60.017 38.462 0.00 0.00 0.00 2.66
2065 2181 5.471456 CAGTCATACTTTCCAGCTTTCAGTT 59.529 40.000 0.00 0.00 0.00 3.16
2066 2182 4.999950 CAGTCATACTTTCCAGCTTTCAGT 59.000 41.667 0.00 0.00 0.00 3.41
2067 2183 5.240891 TCAGTCATACTTTCCAGCTTTCAG 58.759 41.667 0.00 0.00 0.00 3.02
2068 2184 5.227569 TCAGTCATACTTTCCAGCTTTCA 57.772 39.130 0.00 0.00 0.00 2.69
2069 2185 5.645497 ACATCAGTCATACTTTCCAGCTTTC 59.355 40.000 0.00 0.00 0.00 2.62
2070 2186 5.564550 ACATCAGTCATACTTTCCAGCTTT 58.435 37.500 0.00 0.00 0.00 3.51
2071 2187 5.171339 ACATCAGTCATACTTTCCAGCTT 57.829 39.130 0.00 0.00 0.00 3.74
2072 2188 4.833478 ACATCAGTCATACTTTCCAGCT 57.167 40.909 0.00 0.00 0.00 4.24
2073 2189 4.697352 ACAACATCAGTCATACTTTCCAGC 59.303 41.667 0.00 0.00 0.00 4.85
2074 2190 7.063898 CAGTACAACATCAGTCATACTTTCCAG 59.936 40.741 0.00 0.00 30.20 3.86
2075 2191 6.873605 CAGTACAACATCAGTCATACTTTCCA 59.126 38.462 0.00 0.00 30.20 3.53
2076 2192 7.097192 TCAGTACAACATCAGTCATACTTTCC 58.903 38.462 0.00 0.00 30.20 3.13
2077 2193 8.534333 TTCAGTACAACATCAGTCATACTTTC 57.466 34.615 0.00 0.00 30.20 2.62
2078 2194 8.902540 TTTCAGTACAACATCAGTCATACTTT 57.097 30.769 0.00 0.00 30.20 2.66
2079 2195 8.150945 ACTTTCAGTACAACATCAGTCATACTT 58.849 33.333 0.00 0.00 30.20 2.24
2080 2196 7.671302 ACTTTCAGTACAACATCAGTCATACT 58.329 34.615 0.00 0.00 31.83 2.12
2081 2197 7.891183 ACTTTCAGTACAACATCAGTCATAC 57.109 36.000 0.00 0.00 0.00 2.39
2082 2198 9.803315 GATACTTTCAGTACAACATCAGTCATA 57.197 33.333 0.00 0.00 32.84 2.15
2083 2199 7.766278 GGATACTTTCAGTACAACATCAGTCAT 59.234 37.037 0.00 0.00 32.84 3.06
2084 2200 7.097192 GGATACTTTCAGTACAACATCAGTCA 58.903 38.462 0.00 0.00 32.84 3.41
2085 2201 7.527084 GGATACTTTCAGTACAACATCAGTC 57.473 40.000 0.00 0.00 32.84 3.51
2104 2220 5.925509 TCTTTAGTAACCATGGCAGGATAC 58.074 41.667 13.04 7.87 37.23 2.24
2105 2221 6.569127 TTCTTTAGTAACCATGGCAGGATA 57.431 37.500 13.04 0.00 0.00 2.59
2106 2222 5.450818 TTCTTTAGTAACCATGGCAGGAT 57.549 39.130 13.04 0.00 0.00 3.24
2107 2223 4.919774 TTCTTTAGTAACCATGGCAGGA 57.080 40.909 13.04 0.00 0.00 3.86
2108 2224 4.339247 CCATTCTTTAGTAACCATGGCAGG 59.661 45.833 13.04 0.00 0.00 4.85
2109 2225 5.505173 CCATTCTTTAGTAACCATGGCAG 57.495 43.478 13.04 0.00 0.00 4.85
2112 2228 6.152661 TGAAAGCCATTCTTTAGTAACCATGG 59.847 38.462 11.19 11.19 44.58 3.66
2113 2229 7.156876 TGAAAGCCATTCTTTAGTAACCATG 57.843 36.000 2.01 0.00 44.58 3.66
2114 2230 7.451566 ACTTGAAAGCCATTCTTTAGTAACCAT 59.548 33.333 2.01 0.00 44.58 3.55
2115 2231 6.775629 ACTTGAAAGCCATTCTTTAGTAACCA 59.224 34.615 2.01 0.00 44.58 3.67
2116 2232 7.215719 ACTTGAAAGCCATTCTTTAGTAACC 57.784 36.000 2.01 0.00 44.58 2.85
2117 2233 9.827411 CTAACTTGAAAGCCATTCTTTAGTAAC 57.173 33.333 2.01 0.00 44.58 2.50
2118 2234 9.787435 TCTAACTTGAAAGCCATTCTTTAGTAA 57.213 29.630 2.01 0.00 44.58 2.24
2119 2235 9.787435 TTCTAACTTGAAAGCCATTCTTTAGTA 57.213 29.630 2.01 0.00 44.58 1.82
2120 2236 8.691661 TTCTAACTTGAAAGCCATTCTTTAGT 57.308 30.769 2.01 1.09 44.58 2.24
2124 2240 8.414629 AGAATTCTAACTTGAAAGCCATTCTT 57.585 30.769 6.06 0.00 38.92 2.52
2125 2241 8.302438 CAAGAATTCTAACTTGAAAGCCATTCT 58.698 33.333 8.75 0.00 43.98 2.40
2126 2242 7.543520 CCAAGAATTCTAACTTGAAAGCCATTC 59.456 37.037 8.75 0.00 43.98 2.67
2127 2243 7.015584 ACCAAGAATTCTAACTTGAAAGCCATT 59.984 33.333 8.75 0.00 43.98 3.16
2128 2244 6.494835 ACCAAGAATTCTAACTTGAAAGCCAT 59.505 34.615 8.75 0.00 43.98 4.40
2129 2245 5.833131 ACCAAGAATTCTAACTTGAAAGCCA 59.167 36.000 8.75 0.00 43.98 4.75
2130 2246 6.332735 ACCAAGAATTCTAACTTGAAAGCC 57.667 37.500 8.75 0.00 43.98 4.35
2131 2247 8.017946 CAGTACCAAGAATTCTAACTTGAAAGC 58.982 37.037 8.75 0.00 43.98 3.51
2132 2248 8.017946 GCAGTACCAAGAATTCTAACTTGAAAG 58.982 37.037 8.75 0.60 43.98 2.62
2133 2249 7.719633 AGCAGTACCAAGAATTCTAACTTGAAA 59.280 33.333 8.75 0.00 43.98 2.69
2134 2250 7.224297 AGCAGTACCAAGAATTCTAACTTGAA 58.776 34.615 8.75 0.00 43.98 2.69
2135 2251 6.769512 AGCAGTACCAAGAATTCTAACTTGA 58.230 36.000 8.75 0.00 43.98 3.02
2136 2252 7.173218 TGAAGCAGTACCAAGAATTCTAACTTG 59.827 37.037 8.75 3.06 41.85 3.16
2137 2253 7.224297 TGAAGCAGTACCAAGAATTCTAACTT 58.776 34.615 8.75 4.04 0.00 2.66
2138 2254 6.769512 TGAAGCAGTACCAAGAATTCTAACT 58.230 36.000 8.75 7.52 0.00 2.24
2139 2255 6.651225 ACTGAAGCAGTACCAAGAATTCTAAC 59.349 38.462 8.75 5.35 43.46 2.34
2140 2256 6.769512 ACTGAAGCAGTACCAAGAATTCTAA 58.230 36.000 8.75 0.00 43.46 2.10
2141 2257 6.360370 ACTGAAGCAGTACCAAGAATTCTA 57.640 37.500 8.75 0.00 43.46 2.10
2142 2258 5.234466 ACTGAAGCAGTACCAAGAATTCT 57.766 39.130 0.88 0.88 43.46 2.40
2143 2259 5.948992 AACTGAAGCAGTACCAAGAATTC 57.051 39.130 0.00 0.00 44.62 2.17
2144 2260 6.715347 AAAACTGAAGCAGTACCAAGAATT 57.285 33.333 0.00 0.00 44.62 2.17
2145 2261 6.431234 CCTAAAACTGAAGCAGTACCAAGAAT 59.569 38.462 0.00 0.00 44.62 2.40
2146 2262 5.763204 CCTAAAACTGAAGCAGTACCAAGAA 59.237 40.000 0.00 0.00 44.62 2.52
2147 2263 5.163237 ACCTAAAACTGAAGCAGTACCAAGA 60.163 40.000 0.00 0.00 44.62 3.02
2148 2264 5.063880 ACCTAAAACTGAAGCAGTACCAAG 58.936 41.667 0.00 0.00 44.62 3.61
2149 2265 5.043737 ACCTAAAACTGAAGCAGTACCAA 57.956 39.130 0.00 0.00 44.62 3.67
2150 2266 4.699925 ACCTAAAACTGAAGCAGTACCA 57.300 40.909 0.00 0.00 44.62 3.25
2151 2267 4.820173 ACAACCTAAAACTGAAGCAGTACC 59.180 41.667 0.00 0.00 44.62 3.34
2152 2268 6.199393 CAACAACCTAAAACTGAAGCAGTAC 58.801 40.000 0.00 0.00 44.62 2.73
2153 2269 5.220970 GCAACAACCTAAAACTGAAGCAGTA 60.221 40.000 0.00 0.00 44.62 2.74
2155 2271 4.044426 GCAACAACCTAAAACTGAAGCAG 58.956 43.478 0.00 0.00 37.52 4.24
2156 2272 3.699038 AGCAACAACCTAAAACTGAAGCA 59.301 39.130 0.00 0.00 0.00 3.91
2157 2273 4.307443 AGCAACAACCTAAAACTGAAGC 57.693 40.909 0.00 0.00 0.00 3.86
2193 2309 9.953697 TGTACTTTACAACCAAAATATGTTCAC 57.046 29.630 0.00 0.00 35.38 3.18
2201 2317 5.243060 GCCCTCTGTACTTTACAACCAAAAT 59.757 40.000 0.00 0.00 38.38 1.82
2209 2325 4.891168 TCGATATGCCCTCTGTACTTTACA 59.109 41.667 0.00 0.00 37.13 2.41
2228 2344 2.093500 TCACAAGCTGCCACTATTCGAT 60.093 45.455 0.00 0.00 0.00 3.59
2254 2370 4.799564 AAAGTTTTGCAGTTTCCTGTGA 57.200 36.364 0.00 0.00 41.02 3.58
2354 2470 3.316573 GAACCTGACCTCCCCGCAG 62.317 68.421 0.00 0.00 0.00 5.18
2505 2625 5.390613 ACGTGCTTACTGATTTGCATTTAC 58.609 37.500 0.00 0.00 37.76 2.01
2641 2761 0.768622 TCCAAAGGAAAGAGGCCGAA 59.231 50.000 0.00 0.00 0.00 4.30
2674 2794 1.351350 TGGAGAGAGGTCGAGTCAAGA 59.649 52.381 0.00 0.00 0.00 3.02


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

AutoCloner maintained by Alex Coulton.