Multiple sequence alignment - TraesCS2A01G095100

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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 TraesCS2A01G095100 chr2A 100.000 2264 0 0 1 2264 48624242 48621979 0.000000e+00 4181.0
1 TraesCS2A01G095100 chr2A 91.882 542 42 2 1418 1959 770003756 770003217 0.000000e+00 756.0
2 TraesCS2A01G095100 chr2A 93.478 46 3 0 1914 1959 48610966 48610921 4.040000e-08 69.4
3 TraesCS2A01G095100 chr5B 92.734 1968 130 8 1 1959 584816935 584814972 0.000000e+00 2830.0
4 TraesCS2A01G095100 chr5B 93.173 1787 111 6 1 1778 64293425 64295209 0.000000e+00 2614.0
5 TraesCS2A01G095100 chr5B 89.657 1982 163 17 2 1959 89726813 89728776 0.000000e+00 2486.0
6 TraesCS2A01G095100 chr3A 94.722 1743 78 7 234 1969 497386154 497387889 0.000000e+00 2697.0
7 TraesCS2A01G095100 chr3A 97.603 292 6 1 1972 2263 149039823 149040113 1.210000e-137 499.0
8 TraesCS2A01G095100 chr4A 91.933 1909 130 10 61 1959 564697244 564699138 0.000000e+00 2651.0
9 TraesCS2A01G095100 chr2D 91.102 1978 137 21 1 1959 632766134 632768091 0.000000e+00 2641.0
10 TraesCS2A01G095100 chr2D 93.243 1554 89 8 1 1543 476789245 476790793 0.000000e+00 2274.0
11 TraesCS2A01G095100 chr6B 91.103 1967 139 18 1 1957 281223418 281221478 0.000000e+00 2630.0
12 TraesCS2A01G095100 chr1D 90.435 1976 150 21 1 1959 14674872 14672919 0.000000e+00 2566.0
13 TraesCS2A01G095100 chr3B 92.265 543 39 3 1418 1959 760824952 760825492 0.000000e+00 767.0
14 TraesCS2A01G095100 chr6A 97.952 293 5 1 1972 2264 448320836 448320545 7.220000e-140 507.0
15 TraesCS2A01G095100 chr6A 97.595 291 6 1 1972 2262 91820477 91820766 4.340000e-137 497.0
16 TraesCS2A01G095100 chr1A 97.619 294 6 1 1971 2264 192034162 192033870 9.330000e-139 503.0
17 TraesCS2A01G095100 chr1A 97.270 293 7 1 1972 2264 260548833 260549124 1.560000e-136 496.0
18 TraesCS2A01G095100 chr7A 96.689 302 7 3 1964 2264 653158287 653158586 1.210000e-137 499.0
19 TraesCS2A01G095100 chr7A 97.270 293 7 1 1972 2264 652946112 652945821 1.560000e-136 496.0
20 TraesCS2A01G095100 chr7A 96.939 294 8 1 1971 2264 563180848 563180556 2.020000e-135 492.0
21 TraesCS2A01G095100 chr5A 97.270 293 7 1 1972 2264 509795817 509796108 1.560000e-136 496.0
22 TraesCS2A01G095100 chr2B 96.774 31 1 0 1913 1943 747535951 747535921 4.000000e-03 52.8


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 TraesCS2A01G095100 chr2A 48621979 48624242 2263 True 4181 4181 100.000 1 2264 1 chr2A.!!$R2 2263
1 TraesCS2A01G095100 chr2A 770003217 770003756 539 True 756 756 91.882 1418 1959 1 chr2A.!!$R3 541
2 TraesCS2A01G095100 chr5B 584814972 584816935 1963 True 2830 2830 92.734 1 1959 1 chr5B.!!$R1 1958
3 TraesCS2A01G095100 chr5B 64293425 64295209 1784 False 2614 2614 93.173 1 1778 1 chr5B.!!$F1 1777
4 TraesCS2A01G095100 chr5B 89726813 89728776 1963 False 2486 2486 89.657 2 1959 1 chr5B.!!$F2 1957
5 TraesCS2A01G095100 chr3A 497386154 497387889 1735 False 2697 2697 94.722 234 1969 1 chr3A.!!$F2 1735
6 TraesCS2A01G095100 chr4A 564697244 564699138 1894 False 2651 2651 91.933 61 1959 1 chr4A.!!$F1 1898
7 TraesCS2A01G095100 chr2D 632766134 632768091 1957 False 2641 2641 91.102 1 1959 1 chr2D.!!$F2 1958
8 TraesCS2A01G095100 chr2D 476789245 476790793 1548 False 2274 2274 93.243 1 1543 1 chr2D.!!$F1 1542
9 TraesCS2A01G095100 chr6B 281221478 281223418 1940 True 2630 2630 91.103 1 1957 1 chr6B.!!$R1 1956
10 TraesCS2A01G095100 chr1D 14672919 14674872 1953 True 2566 2566 90.435 1 1959 1 chr1D.!!$R1 1958
11 TraesCS2A01G095100 chr3B 760824952 760825492 540 False 767 767 92.265 1418 1959 1 chr3B.!!$F1 541

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
482 484 0.03582 GTGAGTATGTTGGGCCGGAA 60.036 55.0 5.05 0.0 0.0 4.3 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1978 2045 0.035317 ATCCAACGCAGTGCTCAAGA 59.965 50.0 14.33 5.42 45.0 3.02 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
134 136 3.888930 TCAAGGTTCAGGATTGGTTGTTC 59.111 43.478 0.00 0.00 0.00 3.18
138 140 3.056607 GGTTCAGGATTGGTTGTTCCATG 60.057 47.826 0.00 0.00 46.60 3.66
172 174 2.101249 CTGCCAAACAACAAGTGGTCAT 59.899 45.455 0.00 0.00 34.71 3.06
252 254 4.715297 ACGATAGGTCTTATGGTGGAGTTT 59.285 41.667 0.00 0.00 43.77 2.66
319 321 4.269183 CCACACAAGTATCATTGGCCTTA 58.731 43.478 3.32 0.00 34.36 2.69
458 460 2.108075 TCCTTTCCTTGATGCCTCACAA 59.892 45.455 0.00 0.00 0.00 3.33
479 481 2.461110 GCGTGAGTATGTTGGGCCG 61.461 63.158 0.00 0.00 0.00 6.13
482 484 0.035820 GTGAGTATGTTGGGCCGGAA 60.036 55.000 5.05 0.00 0.00 4.30
571 573 4.596212 TGACATGGATGATCTAGCTGGATT 59.404 41.667 14.40 0.00 0.00 3.01
647 649 3.507233 ACAATTGTGGAGAATGCAACGAT 59.493 39.130 11.07 0.00 39.09 3.73
705 710 0.865769 CAACACGGGCACTAGTCAAC 59.134 55.000 0.00 0.00 0.00 3.18
934 950 7.628769 TCTAATATGTTCATGCATGTGTTGT 57.371 32.000 25.43 11.92 0.00 3.32
1091 1108 1.197721 CGCATCTTTGGACAAGGTGAC 59.802 52.381 0.00 0.00 0.00 3.67
1092 1109 2.229792 GCATCTTTGGACAAGGTGACA 58.770 47.619 0.00 0.00 0.00 3.58
1145 1162 2.227388 GTGGAGATGTTTGCAAGGTGAG 59.773 50.000 0.00 0.00 0.00 3.51
1175 1192 2.418746 CCGACCGAAAGAAGTCATGGAT 60.419 50.000 0.00 0.00 33.08 3.41
1184 1205 4.826274 AGAAGTCATGGATCGAAGGAAA 57.174 40.909 0.00 0.00 0.00 3.13
1202 1223 6.916360 AGGAAAGAGATATTTTGTTTGCCA 57.084 33.333 0.00 0.00 0.00 4.92
1326 1348 4.481368 TCCGTTTTATATGCAGTCACCT 57.519 40.909 0.00 0.00 0.00 4.00
1344 1366 3.900601 CACCTCCTCCTCTATGCAAGTAT 59.099 47.826 0.00 0.00 0.00 2.12
1362 1384 6.073331 GCAAGTATTTCAGCTGGATAGATCAC 60.073 42.308 15.13 3.71 0.00 3.06
1411 1433 8.997734 AGGACCAATTAGAAGATTGTCTTAGAT 58.002 33.333 0.00 0.00 36.73 1.98
1447 1469 3.315191 CGAAGAAAGGTTTCAAAGAGGCA 59.685 43.478 5.30 0.00 39.61 4.75
1536 1558 1.347817 CGAAGCTTGCTCGTGAGGAC 61.348 60.000 2.10 0.00 0.00 3.85
1555 1577 1.202818 ACGAGAGGGCAAGAAAGCTTT 60.203 47.619 12.53 12.53 30.14 3.51
1592 1614 0.907486 CAAGAGGAGGATGAGGCACA 59.093 55.000 0.00 0.00 0.00 4.57
1599 1621 2.012673 GAGGATGAGGCACATGACAAC 58.987 52.381 1.04 0.00 39.56 3.32
1634 1657 2.167693 CCCGTATGACTCAGTAAAGCCA 59.832 50.000 0.00 0.00 0.00 4.75
1651 1686 0.108138 CCATCACTTCGGTGGACTCC 60.108 60.000 0.00 0.00 45.34 3.85
1690 1725 5.209818 AGCCATGCCAAATTTATCATGAG 57.790 39.130 22.98 16.83 38.77 2.90
1959 2026 3.480133 GCTGGACCCTACCGCCAT 61.480 66.667 0.00 0.00 0.00 4.40
1970 2037 2.223971 CCTACCGCCATAGTTAGTGGTG 60.224 54.545 5.53 0.00 46.17 4.17
1971 2038 1.272807 ACCGCCATAGTTAGTGGTGT 58.727 50.000 5.16 0.00 45.03 4.16
1972 2039 1.066430 ACCGCCATAGTTAGTGGTGTG 60.066 52.381 5.16 0.30 45.03 3.82
1973 2040 1.006832 CGCCATAGTTAGTGGTGTGC 58.993 55.000 0.00 0.00 41.27 4.57
1974 2041 1.405526 CGCCATAGTTAGTGGTGTGCT 60.406 52.381 0.00 0.00 41.27 4.40
1975 2042 2.159156 CGCCATAGTTAGTGGTGTGCTA 60.159 50.000 0.00 0.00 41.27 3.49
1976 2043 3.195661 GCCATAGTTAGTGGTGTGCTAC 58.804 50.000 0.00 0.00 39.01 3.58
1985 2052 3.145228 GGTGTGCTACCTCTTGAGC 57.855 57.895 3.79 0.00 46.51 4.26
1986 2053 0.321671 GGTGTGCTACCTCTTGAGCA 59.678 55.000 3.79 0.00 46.51 4.26
1990 2057 0.036952 TGCTACCTCTTGAGCACTGC 60.037 55.000 0.00 0.00 43.64 4.40
1991 2058 1.080995 GCTACCTCTTGAGCACTGCG 61.081 60.000 0.00 0.00 38.62 5.18
1992 2059 0.244994 CTACCTCTTGAGCACTGCGT 59.755 55.000 0.00 0.00 0.00 5.24
1993 2060 0.679505 TACCTCTTGAGCACTGCGTT 59.320 50.000 0.00 0.00 0.00 4.84
1994 2061 0.882042 ACCTCTTGAGCACTGCGTTG 60.882 55.000 0.00 0.00 0.00 4.10
1995 2062 1.572085 CCTCTTGAGCACTGCGTTGG 61.572 60.000 0.00 0.00 0.00 3.77
1996 2063 0.601046 CTCTTGAGCACTGCGTTGGA 60.601 55.000 0.00 0.00 0.00 3.53
1997 2064 0.035317 TCTTGAGCACTGCGTTGGAT 59.965 50.000 0.00 0.00 0.00 3.41
1998 2065 0.877071 CTTGAGCACTGCGTTGGATT 59.123 50.000 0.00 0.00 0.00 3.01
1999 2066 1.267806 CTTGAGCACTGCGTTGGATTT 59.732 47.619 0.00 0.00 0.00 2.17
2000 2067 0.874390 TGAGCACTGCGTTGGATTTC 59.126 50.000 0.00 0.00 0.00 2.17
2001 2068 0.169009 GAGCACTGCGTTGGATTTCC 59.831 55.000 0.00 0.00 0.00 3.13
2002 2069 1.212751 GCACTGCGTTGGATTTCCC 59.787 57.895 0.00 0.00 34.29 3.97
2003 2070 1.883021 CACTGCGTTGGATTTCCCC 59.117 57.895 0.00 0.00 34.29 4.81
2004 2071 1.674322 ACTGCGTTGGATTTCCCCG 60.674 57.895 0.00 0.00 34.29 5.73
2005 2072 1.376683 CTGCGTTGGATTTCCCCGA 60.377 57.895 9.23 0.00 33.03 5.14
2006 2073 0.958382 CTGCGTTGGATTTCCCCGAA 60.958 55.000 9.23 0.00 33.03 4.30
2007 2074 0.958382 TGCGTTGGATTTCCCCGAAG 60.958 55.000 9.23 0.00 33.03 3.79
2008 2075 0.958876 GCGTTGGATTTCCCCGAAGT 60.959 55.000 9.23 0.00 33.03 3.01
2009 2076 0.802494 CGTTGGATTTCCCCGAAGTG 59.198 55.000 0.00 0.00 33.03 3.16
2010 2077 1.173913 GTTGGATTTCCCCGAAGTGG 58.826 55.000 0.00 0.00 34.29 4.00
2011 2078 1.068948 TTGGATTTCCCCGAAGTGGA 58.931 50.000 0.00 0.00 42.00 4.02
2012 2079 1.068948 TGGATTTCCCCGAAGTGGAA 58.931 50.000 0.00 0.00 42.00 3.53
2015 2082 3.737702 TTTCCCCGAAGTGGAAAGG 57.262 52.632 0.49 0.00 44.76 3.11
2016 2083 1.142060 TTTCCCCGAAGTGGAAAGGA 58.858 50.000 0.49 0.00 44.76 3.36
2017 2084 1.368374 TTCCCCGAAGTGGAAAGGAT 58.632 50.000 0.00 0.00 42.00 3.24
2018 2085 0.618458 TCCCCGAAGTGGAAAGGATG 59.382 55.000 0.00 0.00 42.00 3.51
2019 2086 0.618458 CCCCGAAGTGGAAAGGATGA 59.382 55.000 0.00 0.00 42.00 2.92
2020 2087 1.212935 CCCCGAAGTGGAAAGGATGAT 59.787 52.381 0.00 0.00 42.00 2.45
2021 2088 2.292267 CCCGAAGTGGAAAGGATGATG 58.708 52.381 0.00 0.00 42.00 3.07
2022 2089 1.672881 CCGAAGTGGAAAGGATGATGC 59.327 52.381 0.00 0.00 42.00 3.91
2023 2090 2.358957 CGAAGTGGAAAGGATGATGCA 58.641 47.619 0.00 0.00 0.00 3.96
2024 2091 2.353889 CGAAGTGGAAAGGATGATGCAG 59.646 50.000 0.00 0.00 0.00 4.41
2025 2092 1.760192 AGTGGAAAGGATGATGCAGC 58.240 50.000 0.00 0.00 0.00 5.25
2026 2093 1.005097 AGTGGAAAGGATGATGCAGCA 59.995 47.619 7.31 7.31 0.00 4.41
2027 2094 1.820519 GTGGAAAGGATGATGCAGCAA 59.179 47.619 9.54 0.00 0.00 3.91
2028 2095 2.231964 GTGGAAAGGATGATGCAGCAAA 59.768 45.455 9.54 0.00 0.00 3.68
2029 2096 3.101437 TGGAAAGGATGATGCAGCAAAT 58.899 40.909 9.54 0.00 0.00 2.32
2030 2097 3.516300 TGGAAAGGATGATGCAGCAAATT 59.484 39.130 9.54 0.75 0.00 1.82
2031 2098 4.710865 TGGAAAGGATGATGCAGCAAATTA 59.289 37.500 9.54 0.00 0.00 1.40
2032 2099 5.163488 TGGAAAGGATGATGCAGCAAATTAG 60.163 40.000 9.54 0.00 0.00 1.73
2033 2100 4.317671 AAGGATGATGCAGCAAATTAGC 57.682 40.909 9.54 0.00 0.00 3.09
2034 2101 2.292569 AGGATGATGCAGCAAATTAGCG 59.707 45.455 9.54 0.00 40.15 4.26
2035 2102 2.033801 GGATGATGCAGCAAATTAGCGT 59.966 45.455 9.54 0.00 40.15 5.07
2036 2103 3.250762 GGATGATGCAGCAAATTAGCGTA 59.749 43.478 9.54 0.00 40.15 4.42
2037 2104 4.261155 GGATGATGCAGCAAATTAGCGTAA 60.261 41.667 9.54 0.00 40.15 3.18
2038 2105 4.277257 TGATGCAGCAAATTAGCGTAAG 57.723 40.909 0.00 0.00 40.15 2.34
2039 2106 3.689161 TGATGCAGCAAATTAGCGTAAGT 59.311 39.130 0.00 0.00 40.15 2.24
2040 2107 4.873259 TGATGCAGCAAATTAGCGTAAGTA 59.127 37.500 0.00 0.00 40.15 2.24
2041 2108 5.527214 TGATGCAGCAAATTAGCGTAAGTAT 59.473 36.000 0.00 0.00 40.15 2.12
2042 2109 5.811399 TGCAGCAAATTAGCGTAAGTATT 57.189 34.783 0.00 0.00 40.15 1.89
2043 2110 6.189677 TGCAGCAAATTAGCGTAAGTATTT 57.810 33.333 0.00 0.00 40.15 1.40
2044 2111 6.255215 TGCAGCAAATTAGCGTAAGTATTTC 58.745 36.000 0.00 0.00 40.15 2.17
2045 2112 5.681543 GCAGCAAATTAGCGTAAGTATTTCC 59.318 40.000 0.00 0.00 40.15 3.13
2046 2113 6.199393 CAGCAAATTAGCGTAAGTATTTCCC 58.801 40.000 0.00 0.00 40.15 3.97
2047 2114 6.038271 CAGCAAATTAGCGTAAGTATTTCCCT 59.962 38.462 0.00 0.00 40.15 4.20
2048 2115 6.260271 AGCAAATTAGCGTAAGTATTTCCCTC 59.740 38.462 0.00 0.00 40.15 4.30
2049 2116 6.037830 GCAAATTAGCGTAAGTATTTCCCTCA 59.962 38.462 0.00 0.00 41.68 3.86
2050 2117 7.630924 CAAATTAGCGTAAGTATTTCCCTCAG 58.369 38.462 0.00 0.00 41.68 3.35
2051 2118 5.927281 TTAGCGTAAGTATTTCCCTCAGT 57.073 39.130 0.00 0.00 41.68 3.41
2052 2119 4.820894 AGCGTAAGTATTTCCCTCAGTT 57.179 40.909 0.00 0.00 41.68 3.16
2053 2120 5.161943 AGCGTAAGTATTTCCCTCAGTTT 57.838 39.130 0.00 0.00 41.68 2.66
2054 2121 5.557866 AGCGTAAGTATTTCCCTCAGTTTT 58.442 37.500 0.00 0.00 41.68 2.43
2055 2122 5.642491 AGCGTAAGTATTTCCCTCAGTTTTC 59.358 40.000 0.00 0.00 41.68 2.29
2056 2123 5.445540 GCGTAAGTATTTCCCTCAGTTTTCG 60.446 44.000 0.00 0.00 41.68 3.46
2057 2124 5.865552 CGTAAGTATTTCCCTCAGTTTTCGA 59.134 40.000 0.00 0.00 0.00 3.71
2058 2125 6.034683 CGTAAGTATTTCCCTCAGTTTTCGAG 59.965 42.308 0.00 0.00 0.00 4.04
2059 2126 5.740290 AGTATTTCCCTCAGTTTTCGAGA 57.260 39.130 0.00 0.00 31.84 4.04
2060 2127 6.110411 AGTATTTCCCTCAGTTTTCGAGAA 57.890 37.500 0.00 0.00 31.84 2.87
2061 2128 5.932883 AGTATTTCCCTCAGTTTTCGAGAAC 59.067 40.000 10.70 10.70 31.84 3.01
2062 2129 2.833631 TCCCTCAGTTTTCGAGAACC 57.166 50.000 14.66 0.00 31.84 3.62
2063 2130 2.043992 TCCCTCAGTTTTCGAGAACCA 58.956 47.619 14.66 2.03 31.84 3.67
2064 2131 2.436542 TCCCTCAGTTTTCGAGAACCAA 59.563 45.455 14.66 3.31 31.84 3.67
2065 2132 2.808543 CCCTCAGTTTTCGAGAACCAAG 59.191 50.000 14.66 11.85 31.84 3.61
2066 2133 2.808543 CCTCAGTTTTCGAGAACCAAGG 59.191 50.000 14.66 16.25 31.84 3.61
2067 2134 3.467803 CTCAGTTTTCGAGAACCAAGGT 58.532 45.455 14.66 0.00 31.84 3.50
2068 2135 4.502604 CCTCAGTTTTCGAGAACCAAGGTA 60.503 45.833 20.53 2.37 31.77 3.08
2069 2136 5.223449 TCAGTTTTCGAGAACCAAGGTAT 57.777 39.130 14.66 0.00 0.00 2.73
2070 2137 5.235516 TCAGTTTTCGAGAACCAAGGTATC 58.764 41.667 14.66 0.00 0.00 2.24
2071 2138 4.994852 CAGTTTTCGAGAACCAAGGTATCA 59.005 41.667 14.66 0.00 0.00 2.15
2072 2139 5.468746 CAGTTTTCGAGAACCAAGGTATCAA 59.531 40.000 14.66 0.00 0.00 2.57
2073 2140 6.149474 CAGTTTTCGAGAACCAAGGTATCAAT 59.851 38.462 14.66 0.00 0.00 2.57
2074 2141 6.371825 AGTTTTCGAGAACCAAGGTATCAATC 59.628 38.462 14.66 0.00 0.00 2.67
2075 2142 4.402056 TCGAGAACCAAGGTATCAATCC 57.598 45.455 0.00 0.00 0.00 3.01
2076 2143 3.772572 TCGAGAACCAAGGTATCAATCCA 59.227 43.478 0.00 0.00 0.00 3.41
2077 2144 4.122776 CGAGAACCAAGGTATCAATCCAG 58.877 47.826 0.00 0.00 0.00 3.86
2078 2145 4.383118 CGAGAACCAAGGTATCAATCCAGT 60.383 45.833 0.00 0.00 0.00 4.00
2079 2146 5.163447 CGAGAACCAAGGTATCAATCCAGTA 60.163 44.000 0.00 0.00 0.00 2.74
2080 2147 6.240549 AGAACCAAGGTATCAATCCAGTAG 57.759 41.667 0.00 0.00 0.00 2.57
2081 2148 5.131142 AGAACCAAGGTATCAATCCAGTAGG 59.869 44.000 0.00 0.00 0.00 3.18
2090 2157 2.978824 TCCAGTAGGAGGTTGCGC 59.021 61.111 0.00 0.00 39.61 6.09
2091 2158 1.911269 TCCAGTAGGAGGTTGCGCA 60.911 57.895 5.66 5.66 39.61 6.09
2092 2159 1.741770 CCAGTAGGAGGTTGCGCAC 60.742 63.158 11.12 5.37 36.89 5.34
2093 2160 2.094659 CAGTAGGAGGTTGCGCACG 61.095 63.158 11.12 0.00 0.00 5.34
2094 2161 3.488090 GTAGGAGGTTGCGCACGC 61.488 66.667 11.12 8.33 42.35 5.34
2105 2172 3.511595 CGCACGCGTCCCCTAGTA 61.512 66.667 9.86 0.00 34.35 1.82
2106 2173 2.103736 GCACGCGTCCCCTAGTAC 59.896 66.667 9.86 0.00 0.00 2.73
2107 2174 2.803479 CACGCGTCCCCTAGTACC 59.197 66.667 9.86 0.00 0.00 3.34
2108 2175 1.751927 CACGCGTCCCCTAGTACCT 60.752 63.158 9.86 0.00 0.00 3.08
2109 2176 1.751927 ACGCGTCCCCTAGTACCTG 60.752 63.158 5.58 0.00 0.00 4.00
2110 2177 2.813200 GCGTCCCCTAGTACCTGC 59.187 66.667 0.00 0.00 0.00 4.85
2111 2178 2.056223 GCGTCCCCTAGTACCTGCA 61.056 63.158 0.00 0.00 0.00 4.41
2112 2179 1.814527 CGTCCCCTAGTACCTGCAC 59.185 63.158 0.00 0.00 0.00 4.57
2113 2180 0.968901 CGTCCCCTAGTACCTGCACA 60.969 60.000 0.00 0.00 0.00 4.57
2114 2181 1.272807 GTCCCCTAGTACCTGCACAA 58.727 55.000 0.00 0.00 0.00 3.33
2115 2182 1.626825 GTCCCCTAGTACCTGCACAAA 59.373 52.381 0.00 0.00 0.00 2.83
2116 2183 1.906574 TCCCCTAGTACCTGCACAAAG 59.093 52.381 0.00 0.00 0.00 2.77
2117 2184 1.679032 CCCCTAGTACCTGCACAAAGC 60.679 57.143 0.00 0.00 45.96 3.51
2130 2197 3.492313 GCACAAAGCAAATAACTCCTCG 58.508 45.455 0.00 0.00 44.79 4.63
2131 2198 3.492313 CACAAAGCAAATAACTCCTCGC 58.508 45.455 0.00 0.00 0.00 5.03
2132 2199 3.058293 CACAAAGCAAATAACTCCTCGCA 60.058 43.478 0.00 0.00 0.00 5.10
2133 2200 3.568007 ACAAAGCAAATAACTCCTCGCAA 59.432 39.130 0.00 0.00 0.00 4.85
2134 2201 3.831715 AAGCAAATAACTCCTCGCAAC 57.168 42.857 0.00 0.00 0.00 4.17
2135 2202 2.084546 AGCAAATAACTCCTCGCAACC 58.915 47.619 0.00 0.00 0.00 3.77
2136 2203 1.810151 GCAAATAACTCCTCGCAACCA 59.190 47.619 0.00 0.00 0.00 3.67
2137 2204 2.227865 GCAAATAACTCCTCGCAACCAA 59.772 45.455 0.00 0.00 0.00 3.67
2138 2205 3.821841 CAAATAACTCCTCGCAACCAAC 58.178 45.455 0.00 0.00 0.00 3.77
2139 2206 1.722011 ATAACTCCTCGCAACCAACG 58.278 50.000 0.00 0.00 0.00 4.10
2140 2207 0.947180 TAACTCCTCGCAACCAACGC 60.947 55.000 0.00 0.00 0.00 4.84
2148 2215 1.427819 GCAACCAACGCGATAAGGG 59.572 57.895 15.93 8.96 38.93 3.95
2149 2216 1.988834 GCAACCAACGCGATAAGGGG 61.989 60.000 15.93 7.02 37.07 4.79
2150 2217 0.675522 CAACCAACGCGATAAGGGGT 60.676 55.000 15.93 7.72 37.07 4.95
2151 2218 0.037160 AACCAACGCGATAAGGGGTT 59.963 50.000 15.93 13.50 42.92 4.11
2154 2221 3.148340 AACGCGATAAGGGGTTGTC 57.852 52.632 15.93 0.00 40.94 3.18
2155 2222 0.322322 AACGCGATAAGGGGTTGTCA 59.678 50.000 15.93 0.00 40.94 3.58
2156 2223 0.322322 ACGCGATAAGGGGTTGTCAA 59.678 50.000 15.93 0.00 37.07 3.18
2157 2224 1.065709 ACGCGATAAGGGGTTGTCAAT 60.066 47.619 15.93 0.00 37.07 2.57
2158 2225 1.597663 CGCGATAAGGGGTTGTCAATC 59.402 52.381 0.00 0.00 0.00 2.67
2159 2226 1.947456 GCGATAAGGGGTTGTCAATCC 59.053 52.381 6.29 6.29 0.00 3.01
2160 2227 2.572290 CGATAAGGGGTTGTCAATCCC 58.428 52.381 24.64 24.64 42.73 3.85
2165 2232 1.545841 GGGGTTGTCAATCCCTTCAC 58.454 55.000 24.72 0.00 43.00 3.18
2166 2233 1.165270 GGGTTGTCAATCCCTTCACG 58.835 55.000 3.15 0.00 40.48 4.35
2167 2234 1.165270 GGTTGTCAATCCCTTCACGG 58.835 55.000 0.00 0.00 0.00 4.94
2168 2235 1.544759 GGTTGTCAATCCCTTCACGGT 60.545 52.381 0.00 0.00 0.00 4.83
2169 2236 1.804748 GTTGTCAATCCCTTCACGGTC 59.195 52.381 0.00 0.00 0.00 4.79
2170 2237 1.052617 TGTCAATCCCTTCACGGTCA 58.947 50.000 0.00 0.00 0.00 4.02
2171 2238 1.270625 TGTCAATCCCTTCACGGTCAC 60.271 52.381 0.00 0.00 0.00 3.67
2172 2239 1.002087 GTCAATCCCTTCACGGTCACT 59.998 52.381 0.00 0.00 0.00 3.41
2173 2240 1.697432 TCAATCCCTTCACGGTCACTT 59.303 47.619 0.00 0.00 0.00 3.16
2174 2241 2.901192 TCAATCCCTTCACGGTCACTTA 59.099 45.455 0.00 0.00 0.00 2.24
2175 2242 3.000727 CAATCCCTTCACGGTCACTTAC 58.999 50.000 0.00 0.00 0.00 2.34
2176 2243 0.599558 TCCCTTCACGGTCACTTACG 59.400 55.000 0.00 0.00 0.00 3.18
2177 2244 0.599558 CCCTTCACGGTCACTTACGA 59.400 55.000 0.00 0.00 0.00 3.43
2178 2245 1.402456 CCCTTCACGGTCACTTACGAG 60.402 57.143 0.00 0.00 0.00 4.18
2179 2246 1.538512 CCTTCACGGTCACTTACGAGA 59.461 52.381 0.00 0.00 0.00 4.04
2180 2247 2.414293 CCTTCACGGTCACTTACGAGAG 60.414 54.545 0.00 0.00 31.86 3.20
2198 2265 7.848223 ACGAGAGTGAGATCTGATAGATATG 57.152 40.000 0.00 0.00 46.97 1.78
2199 2266 7.619965 ACGAGAGTGAGATCTGATAGATATGA 58.380 38.462 0.00 0.00 46.97 2.15
2200 2267 8.267183 ACGAGAGTGAGATCTGATAGATATGAT 58.733 37.037 0.00 0.00 46.97 2.45
2201 2268 9.762933 CGAGAGTGAGATCTGATAGATATGATA 57.237 37.037 0.00 0.00 34.53 2.15
2255 2322 8.900983 AAAGATGCAAAGTAAAATAAAGGCAA 57.099 26.923 0.00 0.00 33.33 4.52
2256 2323 8.900983 AAGATGCAAAGTAAAATAAAGGCAAA 57.099 26.923 0.00 0.00 33.33 3.68
2257 2324 8.538409 AGATGCAAAGTAAAATAAAGGCAAAG 57.462 30.769 0.00 0.00 33.33 2.77
2258 2325 8.150296 AGATGCAAAGTAAAATAAAGGCAAAGT 58.850 29.630 0.00 0.00 33.33 2.66
2259 2326 9.418045 GATGCAAAGTAAAATAAAGGCAAAGTA 57.582 29.630 0.00 0.00 33.33 2.24
2260 2327 9.771534 ATGCAAAGTAAAATAAAGGCAAAGTAA 57.228 25.926 0.00 0.00 33.33 2.24
2261 2328 9.601217 TGCAAAGTAAAATAAAGGCAAAGTAAA 57.399 25.926 0.00 0.00 0.00 2.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 4.675146 GTACTTAAGTATTGCGGTCACCGA 60.675 45.833 23.90 0.00 40.09 4.69
24 25 6.145534 CGTTGAGCTTGATGAAAGTGTACTTA 59.854 38.462 0.00 0.00 38.25 2.24
134 136 2.099062 GACTTGCGCGCTTCATGG 59.901 61.111 33.29 16.68 0.00 3.66
194 196 2.104111 ACCCGGCTCATCGATTTGATAA 59.896 45.455 0.00 0.00 34.83 1.75
319 321 0.673333 TGCGGTCATCAAATGCGAGT 60.673 50.000 0.00 0.00 0.00 4.18
386 388 3.536570 TCGTTCCAATGTGAACTTGTGA 58.463 40.909 11.02 1.69 41.95 3.58
458 460 0.748005 GCCCAACATACTCACGCCAT 60.748 55.000 0.00 0.00 0.00 4.40
463 465 0.035820 TTCCGGCCCAACATACTCAC 60.036 55.000 0.00 0.00 0.00 3.51
479 481 0.740737 CGGGATCTGGCACAATTTCC 59.259 55.000 0.00 0.00 38.70 3.13
482 484 1.001020 TGCGGGATCTGGCACAATT 60.001 52.632 7.06 0.00 38.70 2.32
571 573 2.230992 CCAAATTGCTTCATTCCGGTGA 59.769 45.455 0.00 0.00 0.00 4.02
647 649 2.957680 TGTCCTAACGTTGTGTCCTGTA 59.042 45.455 11.99 0.00 0.00 2.74
803 815 2.509336 CGGATCCACAGCCACGAC 60.509 66.667 13.41 0.00 0.00 4.34
804 816 3.770040 CCGGATCCACAGCCACGA 61.770 66.667 13.41 0.00 0.00 4.35
911 923 9.955208 ATAACAACACATGCATGAACATATTAG 57.045 29.630 32.75 13.55 0.00 1.73
1091 1108 4.033817 GCGGAATCTTCACATCTTTCTCTG 59.966 45.833 0.00 0.00 0.00 3.35
1092 1109 4.187694 GCGGAATCTTCACATCTTTCTCT 58.812 43.478 0.00 0.00 0.00 3.10
1145 1162 2.502692 CTTTCGGTCGGTGGACTCCC 62.503 65.000 0.00 0.00 42.97 4.30
1175 1192 7.305474 GCAAACAAAATATCTCTTTCCTTCGA 58.695 34.615 0.00 0.00 0.00 3.71
1202 1223 4.611355 GCGCACGATCATAAGCATAATTGT 60.611 41.667 0.30 0.00 0.00 2.71
1326 1348 5.453903 GCTGAAATACTTGCATAGAGGAGGA 60.454 44.000 0.00 0.00 0.00 3.71
1344 1366 4.160439 ACTTCGTGATCTATCCAGCTGAAA 59.840 41.667 17.39 2.78 0.00 2.69
1362 1384 4.963276 TTGGATATCTTTTGGCACTTCG 57.037 40.909 2.05 0.00 0.00 3.79
1447 1469 0.965866 TGACGACGCTCTTCCTCCAT 60.966 55.000 0.00 0.00 0.00 3.41
1536 1558 1.466558 GAAAGCTTTCTTGCCCTCTCG 59.533 52.381 28.16 0.00 34.41 4.04
1555 1577 1.100463 TGTGCCTTGCGAGCTTTTGA 61.100 50.000 0.00 0.00 0.00 2.69
1592 1614 1.901833 GCCATTTCCCCTTGTTGTCAT 59.098 47.619 0.00 0.00 0.00 3.06
1651 1686 5.345702 CATGGCTTCATTTGGTTACATGAG 58.654 41.667 0.00 0.00 37.29 2.90
1690 1725 5.692654 GCTTCTTGCCTTAGTACTACATAGC 59.307 44.000 0.91 4.10 35.15 2.97
1722 1757 1.960417 TCATTCACGGCAAGTTCACA 58.040 45.000 0.00 0.00 0.00 3.58
1971 2038 0.036952 GCAGTGCTCAAGAGGTAGCA 60.037 55.000 8.18 0.00 46.11 3.49
1972 2039 1.080995 CGCAGTGCTCAAGAGGTAGC 61.081 60.000 14.33 0.00 39.25 3.58
1973 2040 0.244994 ACGCAGTGCTCAAGAGGTAG 59.755 55.000 14.33 0.00 42.51 3.18
1974 2041 0.679505 AACGCAGTGCTCAAGAGGTA 59.320 50.000 14.33 0.00 45.00 3.08
1975 2042 0.882042 CAACGCAGTGCTCAAGAGGT 60.882 55.000 14.33 0.00 45.00 3.85
1976 2043 1.572085 CCAACGCAGTGCTCAAGAGG 61.572 60.000 14.33 2.70 45.00 3.69
1977 2044 0.601046 TCCAACGCAGTGCTCAAGAG 60.601 55.000 14.33 0.00 45.00 2.85
1978 2045 0.035317 ATCCAACGCAGTGCTCAAGA 59.965 50.000 14.33 5.42 45.00 3.02
1979 2046 0.877071 AATCCAACGCAGTGCTCAAG 59.123 50.000 14.33 0.00 45.00 3.02
1980 2047 1.266718 GAAATCCAACGCAGTGCTCAA 59.733 47.619 14.33 0.00 45.00 3.02
1981 2048 0.874390 GAAATCCAACGCAGTGCTCA 59.126 50.000 14.33 0.00 45.00 4.26
1982 2049 0.169009 GGAAATCCAACGCAGTGCTC 59.831 55.000 14.33 0.60 45.00 4.26
1983 2050 1.244019 GGGAAATCCAACGCAGTGCT 61.244 55.000 14.33 0.00 45.00 4.40
1984 2051 1.212751 GGGAAATCCAACGCAGTGC 59.787 57.895 4.58 4.58 45.00 4.40
1985 2052 1.883021 GGGGAAATCCAACGCAGTG 59.117 57.895 1.22 0.00 45.00 3.66
1987 2054 0.958382 TTCGGGGAAATCCAACGCAG 60.958 55.000 9.94 0.00 37.68 5.18
1988 2055 0.958382 CTTCGGGGAAATCCAACGCA 60.958 55.000 9.94 0.81 37.68 5.24
1989 2056 0.958876 ACTTCGGGGAAATCCAACGC 60.959 55.000 9.94 0.00 37.68 4.84
1990 2057 0.802494 CACTTCGGGGAAATCCAACG 59.198 55.000 1.22 5.69 38.64 4.10
1991 2058 1.173913 CCACTTCGGGGAAATCCAAC 58.826 55.000 1.22 0.00 37.91 3.77
1992 2059 1.068948 TCCACTTCGGGGAAATCCAA 58.931 50.000 1.22 0.00 37.91 3.53
1993 2060 1.068948 TTCCACTTCGGGGAAATCCA 58.931 50.000 1.22 0.00 41.30 3.41
1994 2061 2.209690 TTTCCACTTCGGGGAAATCC 57.790 50.000 6.23 0.00 46.58 3.01
1998 2065 1.004277 CATCCTTTCCACTTCGGGGAA 59.996 52.381 0.00 0.00 42.49 3.97
1999 2066 0.618458 CATCCTTTCCACTTCGGGGA 59.382 55.000 0.00 0.00 34.36 4.81
2000 2067 0.618458 TCATCCTTTCCACTTCGGGG 59.382 55.000 0.00 0.00 34.36 5.73
2001 2068 2.292267 CATCATCCTTTCCACTTCGGG 58.708 52.381 0.00 0.00 34.36 5.14
2002 2069 1.672881 GCATCATCCTTTCCACTTCGG 59.327 52.381 0.00 0.00 0.00 4.30
2003 2070 2.353889 CTGCATCATCCTTTCCACTTCG 59.646 50.000 0.00 0.00 0.00 3.79
2004 2071 2.098770 GCTGCATCATCCTTTCCACTTC 59.901 50.000 0.00 0.00 0.00 3.01
2005 2072 2.097825 GCTGCATCATCCTTTCCACTT 58.902 47.619 0.00 0.00 0.00 3.16
2006 2073 1.005097 TGCTGCATCATCCTTTCCACT 59.995 47.619 0.00 0.00 0.00 4.00
2007 2074 1.466856 TGCTGCATCATCCTTTCCAC 58.533 50.000 0.00 0.00 0.00 4.02
2008 2075 2.219080 TTGCTGCATCATCCTTTCCA 57.781 45.000 1.84 0.00 0.00 3.53
2009 2076 3.814005 ATTTGCTGCATCATCCTTTCC 57.186 42.857 1.84 0.00 0.00 3.13
2010 2077 4.743644 GCTAATTTGCTGCATCATCCTTTC 59.256 41.667 1.84 0.00 0.00 2.62
2011 2078 4.690122 GCTAATTTGCTGCATCATCCTTT 58.310 39.130 1.84 0.00 0.00 3.11
2012 2079 3.243301 CGCTAATTTGCTGCATCATCCTT 60.243 43.478 1.84 0.00 0.00 3.36
2013 2080 2.292569 CGCTAATTTGCTGCATCATCCT 59.707 45.455 1.84 0.00 0.00 3.24
2014 2081 2.033801 ACGCTAATTTGCTGCATCATCC 59.966 45.455 1.84 0.00 0.00 3.51
2015 2082 3.344904 ACGCTAATTTGCTGCATCATC 57.655 42.857 1.84 0.00 0.00 2.92
2016 2083 4.336433 ACTTACGCTAATTTGCTGCATCAT 59.664 37.500 1.84 0.00 0.00 2.45
2017 2084 3.689161 ACTTACGCTAATTTGCTGCATCA 59.311 39.130 1.84 0.00 0.00 3.07
2018 2085 4.278678 ACTTACGCTAATTTGCTGCATC 57.721 40.909 1.84 0.00 0.00 3.91
2019 2086 6.377327 AATACTTACGCTAATTTGCTGCAT 57.623 33.333 1.84 0.00 0.00 3.96
2020 2087 5.811399 AATACTTACGCTAATTTGCTGCA 57.189 34.783 10.13 0.00 0.00 4.41
2021 2088 5.681543 GGAAATACTTACGCTAATTTGCTGC 59.318 40.000 10.13 0.00 29.98 5.25
2022 2089 6.038271 AGGGAAATACTTACGCTAATTTGCTG 59.962 38.462 10.13 6.30 32.31 4.41
2023 2090 6.120220 AGGGAAATACTTACGCTAATTTGCT 58.880 36.000 10.13 0.55 32.31 3.91
2024 2091 6.037830 TGAGGGAAATACTTACGCTAATTTGC 59.962 38.462 1.42 1.42 0.00 3.68
2025 2092 7.280205 ACTGAGGGAAATACTTACGCTAATTTG 59.720 37.037 0.00 0.00 0.00 2.32
2026 2093 7.336396 ACTGAGGGAAATACTTACGCTAATTT 58.664 34.615 0.00 0.00 0.00 1.82
2027 2094 6.885922 ACTGAGGGAAATACTTACGCTAATT 58.114 36.000 0.00 0.00 0.00 1.40
2028 2095 6.481434 ACTGAGGGAAATACTTACGCTAAT 57.519 37.500 0.00 0.00 0.00 1.73
2029 2096 5.927281 ACTGAGGGAAATACTTACGCTAA 57.073 39.130 0.00 0.00 0.00 3.09
2030 2097 5.927281 AACTGAGGGAAATACTTACGCTA 57.073 39.130 0.00 0.00 0.00 4.26
2031 2098 4.820894 AACTGAGGGAAATACTTACGCT 57.179 40.909 0.00 0.00 0.00 5.07
2032 2099 5.445540 CGAAAACTGAGGGAAATACTTACGC 60.446 44.000 0.00 0.00 0.00 4.42
2033 2100 5.865552 TCGAAAACTGAGGGAAATACTTACG 59.134 40.000 0.00 0.00 0.00 3.18
2034 2101 7.095270 TCTCGAAAACTGAGGGAAATACTTAC 58.905 38.462 0.00 0.00 34.19 2.34
2035 2102 7.235935 TCTCGAAAACTGAGGGAAATACTTA 57.764 36.000 0.00 0.00 34.19 2.24
2036 2103 6.110411 TCTCGAAAACTGAGGGAAATACTT 57.890 37.500 0.00 0.00 34.19 2.24
2037 2104 5.740290 TCTCGAAAACTGAGGGAAATACT 57.260 39.130 0.00 0.00 34.19 2.12
2038 2105 5.121925 GGTTCTCGAAAACTGAGGGAAATAC 59.878 44.000 0.97 0.00 34.19 1.89
2039 2106 5.221762 TGGTTCTCGAAAACTGAGGGAAATA 60.222 40.000 0.97 0.00 34.19 1.40
2040 2107 4.072839 GGTTCTCGAAAACTGAGGGAAAT 58.927 43.478 0.97 0.00 34.19 2.17
2041 2108 3.118186 TGGTTCTCGAAAACTGAGGGAAA 60.118 43.478 0.97 0.00 34.19 3.13
2042 2109 2.436542 TGGTTCTCGAAAACTGAGGGAA 59.563 45.455 0.97 0.00 34.19 3.97
2043 2110 2.043992 TGGTTCTCGAAAACTGAGGGA 58.956 47.619 0.97 0.00 34.19 4.20
2044 2111 2.543777 TGGTTCTCGAAAACTGAGGG 57.456 50.000 0.97 0.00 34.19 4.30
2045 2112 2.808543 CCTTGGTTCTCGAAAACTGAGG 59.191 50.000 0.97 5.63 34.19 3.86
2046 2113 3.467803 ACCTTGGTTCTCGAAAACTGAG 58.532 45.455 0.97 0.33 34.72 3.35
2047 2114 3.553828 ACCTTGGTTCTCGAAAACTGA 57.446 42.857 0.97 0.00 0.00 3.41
2048 2115 4.994852 TGATACCTTGGTTCTCGAAAACTG 59.005 41.667 0.97 0.00 0.00 3.16
2049 2116 5.223449 TGATACCTTGGTTCTCGAAAACT 57.777 39.130 0.97 0.00 0.00 2.66
2050 2117 5.934935 TTGATACCTTGGTTCTCGAAAAC 57.065 39.130 0.00 0.00 0.00 2.43
2051 2118 5.646360 GGATTGATACCTTGGTTCTCGAAAA 59.354 40.000 0.00 0.00 0.00 2.29
2052 2119 5.183228 GGATTGATACCTTGGTTCTCGAAA 58.817 41.667 0.00 0.00 0.00 3.46
2053 2120 4.224147 TGGATTGATACCTTGGTTCTCGAA 59.776 41.667 0.00 0.00 0.00 3.71
2054 2121 3.772572 TGGATTGATACCTTGGTTCTCGA 59.227 43.478 0.00 0.00 0.00 4.04
2055 2122 4.122776 CTGGATTGATACCTTGGTTCTCG 58.877 47.826 0.00 0.00 0.00 4.04
2056 2123 5.104259 ACTGGATTGATACCTTGGTTCTC 57.896 43.478 0.00 0.00 0.00 2.87
2057 2124 5.131142 CCTACTGGATTGATACCTTGGTTCT 59.869 44.000 0.00 0.00 34.57 3.01
2058 2125 5.130477 TCCTACTGGATTGATACCTTGGTTC 59.870 44.000 0.00 0.00 37.46 3.62
2059 2126 5.036916 TCCTACTGGATTGATACCTTGGTT 58.963 41.667 0.00 0.00 37.46 3.67
2060 2127 4.631234 TCCTACTGGATTGATACCTTGGT 58.369 43.478 0.00 0.00 37.46 3.67
2061 2128 4.040952 CCTCCTACTGGATTGATACCTTGG 59.959 50.000 0.00 0.00 42.29 3.61
2062 2129 4.656112 ACCTCCTACTGGATTGATACCTTG 59.344 45.833 0.00 0.00 42.29 3.61
2063 2130 4.897051 ACCTCCTACTGGATTGATACCTT 58.103 43.478 0.00 0.00 42.29 3.50
2064 2131 4.561254 ACCTCCTACTGGATTGATACCT 57.439 45.455 0.00 0.00 42.29 3.08
2065 2132 4.743955 GCAACCTCCTACTGGATTGATACC 60.744 50.000 0.00 0.00 42.29 2.73
2066 2133 4.381411 GCAACCTCCTACTGGATTGATAC 58.619 47.826 0.00 0.00 42.29 2.24
2067 2134 3.069586 CGCAACCTCCTACTGGATTGATA 59.930 47.826 0.00 0.00 42.29 2.15
2068 2135 2.158900 CGCAACCTCCTACTGGATTGAT 60.159 50.000 0.00 0.00 42.29 2.57
2069 2136 1.207089 CGCAACCTCCTACTGGATTGA 59.793 52.381 0.00 0.00 42.29 2.57
2070 2137 1.656652 CGCAACCTCCTACTGGATTG 58.343 55.000 0.00 0.00 42.29 2.67
2071 2138 0.107654 GCGCAACCTCCTACTGGATT 60.108 55.000 0.30 0.00 42.29 3.01
2072 2139 1.264749 TGCGCAACCTCCTACTGGAT 61.265 55.000 8.16 0.00 42.29 3.41
2073 2140 1.911269 TGCGCAACCTCCTACTGGA 60.911 57.895 8.16 0.00 40.69 3.86
2074 2141 1.741770 GTGCGCAACCTCCTACTGG 60.742 63.158 14.00 0.00 0.00 4.00
2075 2142 2.094659 CGTGCGCAACCTCCTACTG 61.095 63.158 14.00 0.00 0.00 2.74
2076 2143 2.261671 CGTGCGCAACCTCCTACT 59.738 61.111 14.00 0.00 0.00 2.57
2077 2144 3.488090 GCGTGCGCAACCTCCTAC 61.488 66.667 14.00 0.00 41.49 3.18
2088 2155 3.511595 TACTAGGGGACGCGTGCG 61.512 66.667 24.59 13.39 46.03 5.34
2089 2156 2.103736 GTACTAGGGGACGCGTGC 59.896 66.667 23.63 23.63 0.00 5.34
2090 2157 1.751927 AGGTACTAGGGGACGCGTG 60.752 63.158 20.70 2.70 36.02 5.34
2091 2158 1.751927 CAGGTACTAGGGGACGCGT 60.752 63.158 13.85 13.85 36.02 6.01
2092 2159 3.117372 CAGGTACTAGGGGACGCG 58.883 66.667 3.53 3.53 36.02 6.01
2093 2160 2.056223 TGCAGGTACTAGGGGACGC 61.056 63.158 0.00 0.00 36.02 5.19
2094 2161 0.968901 TGTGCAGGTACTAGGGGACG 60.969 60.000 0.00 0.00 36.02 4.79
2095 2162 1.272807 TTGTGCAGGTACTAGGGGAC 58.727 55.000 0.00 0.00 36.02 4.46
2096 2163 1.906574 CTTTGTGCAGGTACTAGGGGA 59.093 52.381 0.00 0.00 36.02 4.81
2097 2164 1.679032 GCTTTGTGCAGGTACTAGGGG 60.679 57.143 0.00 0.00 42.31 4.79
2098 2165 1.739067 GCTTTGTGCAGGTACTAGGG 58.261 55.000 0.00 0.00 42.31 3.53
2109 2176 3.492313 CGAGGAGTTATTTGCTTTGTGC 58.508 45.455 0.00 0.00 43.25 4.57
2110 2177 3.058293 TGCGAGGAGTTATTTGCTTTGTG 60.058 43.478 0.00 0.00 0.00 3.33
2111 2178 3.146066 TGCGAGGAGTTATTTGCTTTGT 58.854 40.909 0.00 0.00 0.00 2.83
2112 2179 3.829886 TGCGAGGAGTTATTTGCTTTG 57.170 42.857 0.00 0.00 0.00 2.77
2113 2180 3.057526 GGTTGCGAGGAGTTATTTGCTTT 60.058 43.478 0.00 0.00 0.00 3.51
2114 2181 2.488153 GGTTGCGAGGAGTTATTTGCTT 59.512 45.455 0.00 0.00 0.00 3.91
2115 2182 2.084546 GGTTGCGAGGAGTTATTTGCT 58.915 47.619 0.00 0.00 0.00 3.91
2116 2183 1.810151 TGGTTGCGAGGAGTTATTTGC 59.190 47.619 0.00 0.00 0.00 3.68
2117 2184 3.666902 CGTTGGTTGCGAGGAGTTATTTG 60.667 47.826 0.00 0.00 0.00 2.32
2118 2185 2.482721 CGTTGGTTGCGAGGAGTTATTT 59.517 45.455 0.00 0.00 0.00 1.40
2119 2186 2.073816 CGTTGGTTGCGAGGAGTTATT 58.926 47.619 0.00 0.00 0.00 1.40
2120 2187 1.722011 CGTTGGTTGCGAGGAGTTAT 58.278 50.000 0.00 0.00 0.00 1.89
2121 2188 0.947180 GCGTTGGTTGCGAGGAGTTA 60.947 55.000 0.00 0.00 0.00 2.24
2122 2189 2.251642 GCGTTGGTTGCGAGGAGTT 61.252 57.895 0.00 0.00 0.00 3.01
2123 2190 2.665185 GCGTTGGTTGCGAGGAGT 60.665 61.111 0.00 0.00 0.00 3.85
2130 2197 1.427819 CCCTTATCGCGTTGGTTGC 59.572 57.895 5.77 0.00 0.00 4.17
2131 2198 0.675522 ACCCCTTATCGCGTTGGTTG 60.676 55.000 5.77 1.06 0.00 3.77
2132 2199 0.037160 AACCCCTTATCGCGTTGGTT 59.963 50.000 5.77 4.87 0.00 3.67
2133 2200 0.675522 CAACCCCTTATCGCGTTGGT 60.676 55.000 5.77 0.00 33.54 3.67
2134 2201 0.675522 ACAACCCCTTATCGCGTTGG 60.676 55.000 5.77 4.22 39.89 3.77
2135 2202 0.725117 GACAACCCCTTATCGCGTTG 59.275 55.000 5.77 2.82 41.06 4.10
2136 2203 0.322322 TGACAACCCCTTATCGCGTT 59.678 50.000 5.77 0.00 0.00 4.84
2137 2204 0.322322 TTGACAACCCCTTATCGCGT 59.678 50.000 5.77 0.00 0.00 6.01
2138 2205 1.597663 GATTGACAACCCCTTATCGCG 59.402 52.381 0.00 0.00 0.00 5.87
2139 2206 1.947456 GGATTGACAACCCCTTATCGC 59.053 52.381 0.00 0.00 0.00 4.58
2140 2207 2.572290 GGGATTGACAACCCCTTATCG 58.428 52.381 10.82 0.00 40.19 2.92
2146 2213 1.545841 GTGAAGGGATTGACAACCCC 58.454 55.000 10.02 10.02 46.64 4.95
2147 2214 1.165270 CGTGAAGGGATTGACAACCC 58.835 55.000 14.59 14.59 45.88 4.11
2148 2215 1.165270 CCGTGAAGGGATTGACAACC 58.835 55.000 0.00 0.00 35.97 3.77
2149 2216 1.804748 GACCGTGAAGGGATTGACAAC 59.195 52.381 0.00 0.00 46.96 3.32
2150 2217 1.418264 TGACCGTGAAGGGATTGACAA 59.582 47.619 0.00 0.00 46.96 3.18
2151 2218 1.052617 TGACCGTGAAGGGATTGACA 58.947 50.000 0.00 0.00 46.96 3.58
2152 2219 1.002087 AGTGACCGTGAAGGGATTGAC 59.998 52.381 0.00 0.00 46.96 3.18
2153 2220 1.348064 AGTGACCGTGAAGGGATTGA 58.652 50.000 0.00 0.00 46.96 2.57
2154 2221 2.185004 AAGTGACCGTGAAGGGATTG 57.815 50.000 0.00 0.00 46.96 2.67
2155 2222 2.353406 CGTAAGTGACCGTGAAGGGATT 60.353 50.000 0.00 0.00 46.96 3.01
2156 2223 1.203994 CGTAAGTGACCGTGAAGGGAT 59.796 52.381 0.00 0.00 46.96 3.85
2157 2224 0.599558 CGTAAGTGACCGTGAAGGGA 59.400 55.000 0.00 0.00 46.96 4.20
2158 2225 0.599558 TCGTAAGTGACCGTGAAGGG 59.400 55.000 0.00 0.00 41.60 3.95
2159 2226 1.538512 TCTCGTAAGTGACCGTGAAGG 59.461 52.381 0.00 0.00 42.63 3.46
2160 2227 2.225963 ACTCTCGTAAGTGACCGTGAAG 59.774 50.000 0.00 0.00 35.74 3.02
2161 2228 2.224606 ACTCTCGTAAGTGACCGTGAA 58.775 47.619 0.00 0.00 35.74 3.18
2162 2229 1.888215 ACTCTCGTAAGTGACCGTGA 58.112 50.000 0.00 0.00 35.74 4.35
2169 2236 5.749596 ATCAGATCTCACTCTCGTAAGTG 57.250 43.478 11.96 11.96 46.54 3.16
2170 2237 6.822442 TCTATCAGATCTCACTCTCGTAAGT 58.178 40.000 0.00 0.00 39.48 2.24
2171 2238 7.905604 ATCTATCAGATCTCACTCTCGTAAG 57.094 40.000 0.00 0.00 25.75 2.34
2172 2239 9.377312 CATATCTATCAGATCTCACTCTCGTAA 57.623 37.037 0.00 0.00 36.20 3.18
2173 2240 8.754080 TCATATCTATCAGATCTCACTCTCGTA 58.246 37.037 0.00 0.00 36.20 3.43
2174 2241 7.619965 TCATATCTATCAGATCTCACTCTCGT 58.380 38.462 0.00 0.00 36.20 4.18
2175 2242 8.667076 ATCATATCTATCAGATCTCACTCTCG 57.333 38.462 0.00 0.00 36.20 4.04
2229 2296 9.988815 TTGCCTTTATTTTACTTTGCATCTTTA 57.011 25.926 0.00 0.00 0.00 1.85
2230 2297 8.900983 TTGCCTTTATTTTACTTTGCATCTTT 57.099 26.923 0.00 0.00 0.00 2.52
2231 2298 8.900983 TTTGCCTTTATTTTACTTTGCATCTT 57.099 26.923 0.00 0.00 0.00 2.40
2232 2299 8.150296 ACTTTGCCTTTATTTTACTTTGCATCT 58.850 29.630 0.00 0.00 0.00 2.90
2233 2300 8.310406 ACTTTGCCTTTATTTTACTTTGCATC 57.690 30.769 0.00 0.00 0.00 3.91
2234 2301 9.771534 TTACTTTGCCTTTATTTTACTTTGCAT 57.228 25.926 0.00 0.00 0.00 3.96
2235 2302 9.601217 TTTACTTTGCCTTTATTTTACTTTGCA 57.399 25.926 0.00 0.00 0.00 4.08


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

AutoCloner maintained by Alex Coulton.