Multiple sequence alignment - TraesCS2A01G517000

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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 TraesCS2A01G517000 chr2A 100.000 2820 0 0 1 2820 740345569 740348388 0.000000e+00 5208
1 TraesCS2A01G517000 chr2A 92.623 122 9 0 1942 2063 2648819 2648698 2.890000e-40 176
2 TraesCS2A01G517000 chr2A 92.593 108 4 2 2200 2306 740347704 740347808 4.870000e-33 152
3 TraesCS2A01G517000 chr2A 92.593 108 4 2 2136 2240 740347768 740347874 4.870000e-33 152
4 TraesCS2A01G517000 chr2D 93.278 1086 43 16 872 1945 608745503 608746570 0.000000e+00 1574
5 TraesCS2A01G517000 chr2D 85.894 872 62 22 1 827 608744571 608745426 0.000000e+00 872
6 TraesCS2A01G517000 chr2D 90.546 476 21 10 2354 2817 608747968 608748431 2.400000e-170 608
7 TraesCS2A01G517000 chr2D 92.361 288 13 5 2052 2331 608746569 608746855 4.380000e-108 401
8 TraesCS2A01G517000 chr2D 93.000 100 4 1 2209 2308 608746669 608746765 2.930000e-30 143
9 TraesCS2A01G517000 chr2D 89.815 108 6 3 2136 2240 608746723 608746828 1.760000e-27 134
10 TraesCS2A01G517000 chr2B 93.142 1079 49 9 872 1945 742454227 742455285 0.000000e+00 1559
11 TraesCS2A01G517000 chr2B 88.730 559 40 13 2274 2819 742455553 742456101 0.000000e+00 662
12 TraesCS2A01G517000 chr2B 85.366 656 26 25 261 871 742453552 742454182 1.440000e-172 616
13 TraesCS2A01G517000 chr2B 94.118 170 10 0 2052 2221 742455284 742455453 2.790000e-65 259
14 TraesCS2A01G517000 chr2B 89.888 89 5 2 2200 2287 742455368 742455453 8.260000e-21 111
15 TraesCS2A01G517000 chr6A 95.000 120 5 1 1938 2056 108925907 108925788 1.330000e-43 187
16 TraesCS2A01G517000 chr1A 94.915 118 6 0 1944 2061 343396693 343396810 4.800000e-43 185
17 TraesCS2A01G517000 chr1A 93.333 120 6 2 1940 2059 517104088 517104205 2.890000e-40 176
18 TraesCS2A01G517000 chr7D 95.575 113 5 0 1943 2055 151024143 151024031 6.210000e-42 182
19 TraesCS2A01G517000 chr6D 94.118 119 7 0 1947 2065 103085342 103085460 6.210000e-42 182
20 TraesCS2A01G517000 chr5D 94.783 115 6 0 1940 2054 554980 555094 2.230000e-41 180
21 TraesCS2A01G517000 chr3A 92.800 125 8 1 1943 2066 713911155 713911031 2.230000e-41 180
22 TraesCS2A01G517000 chr5A 94.068 118 6 1 1947 2064 299768318 299768202 8.030000e-41 178


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 TraesCS2A01G517000 chr2A 740345569 740348388 2819 False 1837.333333 5208 95.062000 1 2820 3 chr2A.!!$F1 2819
1 TraesCS2A01G517000 chr2D 608744571 608748431 3860 False 622.000000 1574 90.815667 1 2817 6 chr2D.!!$F1 2816
2 TraesCS2A01G517000 chr2B 742453552 742456101 2549 False 641.400000 1559 90.248800 261 2819 5 chr2B.!!$F1 2558

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
905 1009 0.108756 GGAGAAAAGACCCTCGTCCG 60.109 60.0 0.0 0.0 40.12 4.79 F
1012 1117 0.107165 CCCTTCCATTCCGTTCTCCC 60.107 60.0 0.0 0.0 0.00 4.30 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1784 1900 0.041238 ACCAGGGTCTAGCTACAGCA 59.959 55.0 3.7 0.0 45.16 4.41 R
2210 2341 0.110192 GTAGCAACTTTGACCGCAGC 60.110 55.0 0.0 0.0 0.00 5.25 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
41 42 0.173481 TCAGTCTCAGTACGCCATGC 59.827 55.000 0.00 0.00 0.00 4.06
62 63 1.080974 GAAGAAACGCGTCGAGGGA 60.081 57.895 14.44 0.00 36.53 4.20
73 74 2.931320 GCGTCGAGGGATGACTTTTCTT 60.931 50.000 7.31 0.00 34.17 2.52
74 75 2.668457 CGTCGAGGGATGACTTTTCTTG 59.332 50.000 0.00 0.00 34.17 3.02
105 106 4.671508 GCTTTGCGTGCAGTACATGATAAA 60.672 41.667 0.00 0.00 37.49 1.40
106 107 5.559427 TTTGCGTGCAGTACATGATAAAT 57.441 34.783 0.00 0.00 37.49 1.40
107 108 5.559427 TTGCGTGCAGTACATGATAAATT 57.441 34.783 0.00 0.00 37.49 1.82
108 109 4.907579 TGCGTGCAGTACATGATAAATTG 58.092 39.130 0.00 0.00 37.49 2.32
109 110 4.633565 TGCGTGCAGTACATGATAAATTGA 59.366 37.500 0.00 0.00 37.49 2.57
110 111 5.296531 TGCGTGCAGTACATGATAAATTGAT 59.703 36.000 0.00 0.00 37.49 2.57
111 112 6.481644 TGCGTGCAGTACATGATAAATTGATA 59.518 34.615 0.00 0.00 37.49 2.15
112 113 7.011857 TGCGTGCAGTACATGATAAATTGATAA 59.988 33.333 0.00 0.00 37.49 1.75
129 130 6.978343 TTGATAATTAATTAGCCCGATCGG 57.022 37.500 27.65 27.65 0.00 4.18
144 145 2.030805 CGATCGGCTGTACTGATGATCA 60.031 50.000 22.46 0.00 44.82 2.92
155 156 3.555527 CTGATGATCAGTGGTGGTGAT 57.444 47.619 14.17 0.00 39.58 3.06
186 187 0.734253 GCGCTATGGCAGGATCGTAG 60.734 60.000 0.00 0.00 38.60 3.51
194 195 1.606737 GGCAGGATCGTAGGCTTGATC 60.607 57.143 16.74 16.74 40.19 2.92
204 205 1.800805 AGGCTTGATCACTGACGTTG 58.199 50.000 0.00 0.00 0.00 4.10
213 214 1.341209 TCACTGACGTTGACAGAGCAT 59.659 47.619 9.51 0.00 38.55 3.79
224 225 6.918569 ACGTTGACAGAGCATGTATAGTAATC 59.081 38.462 0.00 0.00 44.17 1.75
233 234 9.445878 AGAGCATGTATAGTAATCAATGAATGG 57.554 33.333 0.00 0.00 0.00 3.16
234 235 9.440773 GAGCATGTATAGTAATCAATGAATGGA 57.559 33.333 0.00 0.00 0.00 3.41
245 246 9.347934 GTAATCAATGAATGGATACTCTCTACG 57.652 37.037 0.00 0.00 37.61 3.51
249 250 5.769484 TGAATGGATACTCTCTACGGTTC 57.231 43.478 0.00 0.00 37.61 3.62
254 255 6.879276 TGGATACTCTCTACGGTTCTATTG 57.121 41.667 0.00 0.00 37.61 1.90
264 265 8.242053 TCTCTACGGTTCTATTGTTTCTTACAG 58.758 37.037 0.00 0.00 38.19 2.74
266 267 8.746530 TCTACGGTTCTATTGTTTCTTACAGAT 58.253 33.333 0.00 0.00 38.19 2.90
303 306 0.872021 GATCCGCACTTGGCTCGTAG 60.872 60.000 0.00 0.00 41.67 3.51
309 312 1.409427 GCACTTGGCTCGTAGGATACT 59.591 52.381 0.00 0.00 46.17 2.12
323 326 3.534524 GGATACTACGAAGTACGAGCC 57.465 52.381 0.00 0.00 45.11 4.70
408 416 2.357575 GCTCAGGCTCAGGCTCAGA 61.358 63.158 2.19 0.00 35.88 3.27
481 495 3.028094 ACACCGTGGTCTATACTCCAT 57.972 47.619 3.03 0.00 36.09 3.41
549 595 1.689243 ATCTAGCCCAGTGCATGCGA 61.689 55.000 14.09 0.52 44.83 5.10
558 605 0.816825 AGTGCATGCGATGATGACCC 60.817 55.000 14.09 0.00 0.00 4.46
562 609 0.942252 CATGCGATGATGACCCTGTG 59.058 55.000 0.00 0.00 0.00 3.66
569 616 3.005791 CGATGATGACCCTGTGCTATACA 59.994 47.826 0.00 0.00 37.78 2.29
585 636 5.059833 GCTATACATCAAGGGTGAAGAAGG 58.940 45.833 0.00 0.00 37.30 3.46
766 820 1.321474 GCATGTACATCCATGTGGGG 58.679 55.000 5.07 0.00 43.33 4.96
781 835 3.260100 GGGGGCCGATGGATGGAT 61.260 66.667 0.00 0.00 0.00 3.41
824 878 2.567522 CAGTCGTCGTCGTCGTCG 60.568 66.667 14.18 14.18 46.06 5.12
825 879 3.032609 AGTCGTCGTCGTCGTCGT 61.033 61.111 18.44 1.12 45.27 4.34
826 880 2.857992 GTCGTCGTCGTCGTCGTG 60.858 66.667 18.44 6.23 45.27 4.35
827 881 4.063230 TCGTCGTCGTCGTCGTGG 62.063 66.667 18.44 5.42 45.27 4.94
828 882 4.360027 CGTCGTCGTCGTCGTGGT 62.360 66.667 12.51 0.00 41.73 4.16
829 883 2.794166 GTCGTCGTCGTCGTGGTG 60.794 66.667 11.41 0.00 38.33 4.17
849 903 3.058293 GTGGTGGTGACATGTTACATGTG 60.058 47.826 32.05 9.99 46.14 3.21
854 908 3.062099 GGTGACATGTTACATGTGCTACG 59.938 47.826 32.05 5.44 31.52 3.51
855 909 3.678072 GTGACATGTTACATGTGCTACGT 59.322 43.478 32.05 8.77 31.52 3.57
856 910 4.860352 GTGACATGTTACATGTGCTACGTA 59.140 41.667 32.05 9.26 31.52 3.57
905 1009 0.108756 GGAGAAAAGACCCTCGTCCG 60.109 60.000 0.00 0.00 40.12 4.79
906 1010 0.602060 GAGAAAAGACCCTCGTCCGT 59.398 55.000 0.00 0.00 40.12 4.69
907 1011 0.602060 AGAAAAGACCCTCGTCCGTC 59.398 55.000 0.00 0.00 40.12 4.79
908 1012 0.389556 GAAAAGACCCTCGTCCGTCC 60.390 60.000 0.00 0.00 40.12 4.79
1007 1112 1.303282 GGAGCCCTTCCATTCCGTT 59.697 57.895 0.00 0.00 46.01 4.44
1009 1114 0.253327 GAGCCCTTCCATTCCGTTCT 59.747 55.000 0.00 0.00 0.00 3.01
1012 1117 0.107165 CCCTTCCATTCCGTTCTCCC 60.107 60.000 0.00 0.00 0.00 4.30
1078 1183 1.706287 CGCCCGCTTCTTCTTTAGCC 61.706 60.000 0.00 0.00 33.86 3.93
1107 1212 1.494766 GCTTAGCTAGCTTGCTCGGC 61.495 60.000 25.94 24.00 46.77 5.54
1120 1225 3.002583 TCGGCTGGTCTCATGCCA 61.003 61.111 0.00 0.00 46.39 4.92
1132 1237 2.277949 ATGCCATCGTCGTCGTCG 60.278 61.111 5.50 5.50 38.33 5.12
1433 1538 0.245539 GCAGCCGTTCTACTACCACA 59.754 55.000 0.00 0.00 0.00 4.17
1453 1558 4.684134 GGCCACCAGCACCACCAT 62.684 66.667 0.00 0.00 46.50 3.55
1648 1759 1.222113 GGCCTTCTACCTGCACTCC 59.778 63.158 0.00 0.00 0.00 3.85
1760 1876 3.212685 TCCTTCGCCTAGCTCTAGTAAC 58.787 50.000 0.00 0.00 0.00 2.50
1783 1899 3.945981 GCCATTACCTCTAGGCTCTAC 57.054 52.381 0.00 0.00 43.70 2.59
1784 1900 3.502356 GCCATTACCTCTAGGCTCTACT 58.498 50.000 0.00 0.00 43.70 2.57
1785 1901 3.257127 GCCATTACCTCTAGGCTCTACTG 59.743 52.174 0.00 0.00 43.70 2.74
1786 1902 3.257127 CCATTACCTCTAGGCTCTACTGC 59.743 52.174 0.00 0.00 39.32 4.40
1787 1903 3.955524 TTACCTCTAGGCTCTACTGCT 57.044 47.619 0.00 0.00 39.32 4.24
1798 1914 2.292292 GCTCTACTGCTGTAGCTAGACC 59.708 54.545 22.20 4.35 44.26 3.85
1804 1920 1.196012 GCTGTAGCTAGACCCTGGTT 58.804 55.000 0.00 0.00 38.21 3.67
1865 1981 6.466885 TTAATTCTCTGTACCACCTAGCTC 57.533 41.667 0.00 0.00 0.00 4.09
1867 1983 4.857130 TTCTCTGTACCACCTAGCTCTA 57.143 45.455 0.00 0.00 0.00 2.43
1907 2032 3.191371 GGACCAGTGTTGCTTCCTAATTG 59.809 47.826 0.00 0.00 0.00 2.32
1918 2043 5.713025 TGCTTCCTAATTGTGCTTGATTTC 58.287 37.500 0.00 0.00 0.00 2.17
1935 2060 0.944386 TTCGTTGCTCAACTCTTGCC 59.056 50.000 10.56 0.00 39.08 4.52
1945 2070 4.141959 GCTCAACTCTTGCCTTCTCTCTAT 60.142 45.833 0.00 0.00 0.00 1.98
1946 2071 5.626578 GCTCAACTCTTGCCTTCTCTCTATT 60.627 44.000 0.00 0.00 0.00 1.73
1947 2072 6.406400 GCTCAACTCTTGCCTTCTCTCTATTA 60.406 42.308 0.00 0.00 0.00 0.98
1948 2073 6.868622 TCAACTCTTGCCTTCTCTCTATTAC 58.131 40.000 0.00 0.00 0.00 1.89
1949 2074 6.665680 TCAACTCTTGCCTTCTCTCTATTACT 59.334 38.462 0.00 0.00 0.00 2.24
1950 2075 6.709018 ACTCTTGCCTTCTCTCTATTACTC 57.291 41.667 0.00 0.00 0.00 2.59
1951 2076 5.596772 ACTCTTGCCTTCTCTCTATTACTCC 59.403 44.000 0.00 0.00 0.00 3.85
1952 2077 4.896482 TCTTGCCTTCTCTCTATTACTCCC 59.104 45.833 0.00 0.00 0.00 4.30
1953 2078 4.544564 TGCCTTCTCTCTATTACTCCCT 57.455 45.455 0.00 0.00 0.00 4.20
1954 2079 4.475345 TGCCTTCTCTCTATTACTCCCTC 58.525 47.826 0.00 0.00 0.00 4.30
1955 2080 3.830178 GCCTTCTCTCTATTACTCCCTCC 59.170 52.174 0.00 0.00 0.00 4.30
1956 2081 4.693058 GCCTTCTCTCTATTACTCCCTCCA 60.693 50.000 0.00 0.00 0.00 3.86
1957 2082 5.650283 CCTTCTCTCTATTACTCCCTCCAT 58.350 45.833 0.00 0.00 0.00 3.41
1958 2083 6.081356 CCTTCTCTCTATTACTCCCTCCATT 58.919 44.000 0.00 0.00 0.00 3.16
1959 2084 6.210584 CCTTCTCTCTATTACTCCCTCCATTC 59.789 46.154 0.00 0.00 0.00 2.67
1960 2085 5.646215 TCTCTCTATTACTCCCTCCATTCC 58.354 45.833 0.00 0.00 0.00 3.01
1961 2086 4.408276 TCTCTATTACTCCCTCCATTCCG 58.592 47.826 0.00 0.00 0.00 4.30
1962 2087 4.105858 TCTCTATTACTCCCTCCATTCCGA 59.894 45.833 0.00 0.00 0.00 4.55
1963 2088 4.811498 TCTATTACTCCCTCCATTCCGAA 58.189 43.478 0.00 0.00 0.00 4.30
1964 2089 5.403512 TCTATTACTCCCTCCATTCCGAAT 58.596 41.667 0.00 0.00 0.00 3.34
1965 2090 5.844516 TCTATTACTCCCTCCATTCCGAATT 59.155 40.000 0.00 0.00 0.00 2.17
1966 2091 7.014449 TCTATTACTCCCTCCATTCCGAATTA 58.986 38.462 0.00 0.00 0.00 1.40
1967 2092 3.840124 ACTCCCTCCATTCCGAATTAC 57.160 47.619 0.00 0.00 0.00 1.89
1968 2093 3.385115 ACTCCCTCCATTCCGAATTACT 58.615 45.455 0.00 0.00 0.00 2.24
1969 2094 3.780850 ACTCCCTCCATTCCGAATTACTT 59.219 43.478 0.00 0.00 0.00 2.24
1970 2095 4.130118 CTCCCTCCATTCCGAATTACTTG 58.870 47.826 0.00 0.00 0.00 3.16
1971 2096 3.521937 TCCCTCCATTCCGAATTACTTGT 59.478 43.478 0.00 0.00 0.00 3.16
1972 2097 4.018779 TCCCTCCATTCCGAATTACTTGTT 60.019 41.667 0.00 0.00 0.00 2.83
1973 2098 4.096382 CCCTCCATTCCGAATTACTTGTTG 59.904 45.833 0.00 0.00 0.00 3.33
1974 2099 4.438744 CCTCCATTCCGAATTACTTGTTGC 60.439 45.833 0.00 0.00 0.00 4.17
1975 2100 4.075682 TCCATTCCGAATTACTTGTTGCA 58.924 39.130 0.00 0.00 0.00 4.08
1976 2101 4.155826 TCCATTCCGAATTACTTGTTGCAG 59.844 41.667 0.00 0.00 0.00 4.41
1977 2102 4.414852 CATTCCGAATTACTTGTTGCAGG 58.585 43.478 0.00 0.00 0.00 4.85
1978 2103 3.134574 TCCGAATTACTTGTTGCAGGT 57.865 42.857 0.00 0.00 0.00 4.00
1979 2104 4.274602 TCCGAATTACTTGTTGCAGGTA 57.725 40.909 0.00 0.00 0.00 3.08
1980 2105 4.839121 TCCGAATTACTTGTTGCAGGTAT 58.161 39.130 0.00 0.00 0.00 2.73
1981 2106 4.634004 TCCGAATTACTTGTTGCAGGTATG 59.366 41.667 0.00 0.00 0.00 2.39
1982 2107 4.201910 CCGAATTACTTGTTGCAGGTATGG 60.202 45.833 0.00 0.00 0.00 2.74
1983 2108 4.634004 CGAATTACTTGTTGCAGGTATGGA 59.366 41.667 0.00 0.00 0.00 3.41
1984 2109 5.296780 CGAATTACTTGTTGCAGGTATGGAT 59.703 40.000 0.00 0.00 0.00 3.41
1985 2110 6.455360 AATTACTTGTTGCAGGTATGGATG 57.545 37.500 0.00 0.00 0.00 3.51
1986 2111 3.439857 ACTTGTTGCAGGTATGGATGT 57.560 42.857 0.00 0.00 0.00 3.06
1987 2112 4.568072 ACTTGTTGCAGGTATGGATGTA 57.432 40.909 0.00 0.00 0.00 2.29
1988 2113 5.116084 ACTTGTTGCAGGTATGGATGTAT 57.884 39.130 0.00 0.00 0.00 2.29
1989 2114 5.126067 ACTTGTTGCAGGTATGGATGTATC 58.874 41.667 0.00 0.00 0.00 2.24
1990 2115 5.104360 ACTTGTTGCAGGTATGGATGTATCT 60.104 40.000 0.00 0.00 0.00 1.98
1991 2116 6.099701 ACTTGTTGCAGGTATGGATGTATCTA 59.900 38.462 0.00 0.00 0.00 1.98
1992 2117 6.493189 TGTTGCAGGTATGGATGTATCTAA 57.507 37.500 0.00 0.00 0.00 2.10
1993 2118 6.894682 TGTTGCAGGTATGGATGTATCTAAA 58.105 36.000 0.00 0.00 0.00 1.85
1994 2119 7.517320 TGTTGCAGGTATGGATGTATCTAAAT 58.483 34.615 0.00 0.00 0.00 1.40
1995 2120 7.445096 TGTTGCAGGTATGGATGTATCTAAATG 59.555 37.037 0.00 0.00 0.00 2.32
1996 2121 7.078249 TGCAGGTATGGATGTATCTAAATGT 57.922 36.000 0.00 0.00 0.00 2.71
1997 2122 8.201242 TGCAGGTATGGATGTATCTAAATGTA 57.799 34.615 0.00 0.00 0.00 2.29
1998 2123 8.825774 TGCAGGTATGGATGTATCTAAATGTAT 58.174 33.333 0.00 0.00 0.00 2.29
1999 2124 9.672673 GCAGGTATGGATGTATCTAAATGTATT 57.327 33.333 0.00 0.00 0.00 1.89
2027 2152 8.693120 AGTTCTAGATACATCCATTTCTACGA 57.307 34.615 0.00 0.00 0.00 3.43
2028 2153 8.569641 AGTTCTAGATACATCCATTTCTACGAC 58.430 37.037 0.00 0.00 0.00 4.34
2029 2154 7.130303 TCTAGATACATCCATTTCTACGACG 57.870 40.000 0.00 0.00 0.00 5.12
2030 2155 6.932960 TCTAGATACATCCATTTCTACGACGA 59.067 38.462 0.00 0.00 0.00 4.20
2031 2156 6.003234 AGATACATCCATTTCTACGACGAG 57.997 41.667 0.00 0.00 0.00 4.18
2032 2157 5.531659 AGATACATCCATTTCTACGACGAGT 59.468 40.000 0.00 0.00 0.00 4.18
2033 2158 6.709397 AGATACATCCATTTCTACGACGAGTA 59.291 38.462 0.00 0.00 0.00 2.59
2034 2159 5.571784 ACATCCATTTCTACGACGAGTAA 57.428 39.130 0.00 0.00 34.45 2.24
2035 2160 6.145338 ACATCCATTTCTACGACGAGTAAT 57.855 37.500 0.00 0.00 34.45 1.89
2036 2161 6.570692 ACATCCATTTCTACGACGAGTAATT 58.429 36.000 0.00 0.00 34.45 1.40
2037 2162 7.039882 ACATCCATTTCTACGACGAGTAATTT 58.960 34.615 0.00 0.00 34.45 1.82
2038 2163 6.880822 TCCATTTCTACGACGAGTAATTTG 57.119 37.500 0.00 0.00 34.45 2.32
2039 2164 6.623486 TCCATTTCTACGACGAGTAATTTGA 58.377 36.000 0.00 0.00 34.45 2.69
2040 2165 7.092079 TCCATTTCTACGACGAGTAATTTGAA 58.908 34.615 0.00 0.00 34.45 2.69
2041 2166 7.599621 TCCATTTCTACGACGAGTAATTTGAAA 59.400 33.333 0.00 0.00 33.36 2.69
2042 2167 7.686938 CCATTTCTACGACGAGTAATTTGAAAC 59.313 37.037 0.00 0.00 32.37 2.78
2043 2168 5.980324 TCTACGACGAGTAATTTGAAACG 57.020 39.130 0.00 0.00 34.45 3.60
2044 2169 4.853196 TCTACGACGAGTAATTTGAAACGG 59.147 41.667 0.00 0.00 34.45 4.44
2045 2170 3.641648 ACGACGAGTAATTTGAAACGGA 58.358 40.909 0.00 0.00 0.00 4.69
2046 2171 3.671928 ACGACGAGTAATTTGAAACGGAG 59.328 43.478 0.00 0.00 0.00 4.63
2047 2172 3.060363 CGACGAGTAATTTGAAACGGAGG 59.940 47.826 0.00 0.00 0.00 4.30
2048 2173 3.332034 ACGAGTAATTTGAAACGGAGGG 58.668 45.455 0.00 0.00 0.00 4.30
2049 2174 3.007182 ACGAGTAATTTGAAACGGAGGGA 59.993 43.478 0.00 0.00 0.00 4.20
2050 2175 3.617263 CGAGTAATTTGAAACGGAGGGAG 59.383 47.826 0.00 0.00 0.00 4.30
2051 2176 4.576879 GAGTAATTTGAAACGGAGGGAGT 58.423 43.478 0.00 0.00 0.00 3.85
2052 2177 5.622914 CGAGTAATTTGAAACGGAGGGAGTA 60.623 44.000 0.00 0.00 0.00 2.59
2059 2184 3.581332 TGAAACGGAGGGAGTACATTTCT 59.419 43.478 0.00 0.00 0.00 2.52
2061 2186 4.732672 AACGGAGGGAGTACATTTCTAC 57.267 45.455 0.00 0.00 0.00 2.59
2210 2341 7.374228 CACGCATACAATTGCTAAACATAGAAG 59.626 37.037 5.05 0.00 40.54 2.85
2214 2345 5.644644 ACAATTGCTAAACATAGAAGCTGC 58.355 37.500 5.05 0.00 37.16 5.25
2250 2381 6.531594 GCTACTTATTGCCTTGTTTCATTTCC 59.468 38.462 0.00 0.00 0.00 3.13
2297 2476 3.142174 GCTGAGGTCAAAGTTGCTACTT 58.858 45.455 7.78 7.78 46.44 2.24
2300 2479 5.412904 GCTGAGGTCAAAGTTGCTACTTATT 59.587 40.000 13.95 0.00 43.74 1.40
2326 2506 8.040132 TGCCTTTTGAAAGAAGAAGAAAAATCA 58.960 29.630 5.09 0.00 38.28 2.57
2332 3592 8.752766 TGAAAGAAGAAGAAAAATCATCATGC 57.247 30.769 0.00 0.00 0.00 4.06
2359 3628 6.093633 AGAGGAGTCAACAAACTTTGTGTAAC 59.906 38.462 7.93 6.97 44.59 2.50
2381 3650 2.128035 GTACGAGAAAGGCATCATCGG 58.872 52.381 0.00 0.00 37.69 4.18
2496 3770 0.721154 TTGACATCTTGCGATCGTGC 59.279 50.000 17.81 0.72 0.00 5.34
2506 3780 1.959899 GCGATCGTGCTGTTGGTCAG 61.960 60.000 17.81 0.00 46.12 3.51
2561 3835 4.939052 TTGGTTATTCGATCTCCTCTCC 57.061 45.455 0.00 0.00 0.00 3.71
2562 3836 4.186077 TGGTTATTCGATCTCCTCTCCT 57.814 45.455 0.00 0.00 0.00 3.69
2563 3837 3.891977 TGGTTATTCGATCTCCTCTCCTG 59.108 47.826 0.00 0.00 0.00 3.86
2564 3838 3.257127 GGTTATTCGATCTCCTCTCCTGG 59.743 52.174 0.00 0.00 0.00 4.45
2599 3873 0.034089 AGGGAGGGCAGCAAACATAC 60.034 55.000 0.00 0.00 0.00 2.39
2612 3890 3.000925 GCAAACATACGTCCGTATCTTGG 59.999 47.826 21.10 12.38 39.07 3.61
2613 3891 4.426416 CAAACATACGTCCGTATCTTGGA 58.574 43.478 9.26 0.00 39.07 3.53
2668 3951 3.132289 TCGTGGGTGCCTAGAAGATTTAG 59.868 47.826 0.00 0.00 0.00 1.85
2673 3956 4.299978 GGTGCCTAGAAGATTTAGTAGCG 58.700 47.826 0.00 0.00 0.00 4.26
2681 3964 2.372264 AGATTTAGTAGCGGTCACGGA 58.628 47.619 0.00 0.00 41.36 4.69
2715 4000 2.291465 GGATGGTCTACGTACGCATGTA 59.709 50.000 16.72 0.00 0.00 2.29
2768 4053 3.810148 TTTGTGCGTCAAACGTAGC 57.190 47.368 1.14 0.00 44.73 3.58
2769 4054 0.042880 TTTGTGCGTCAAACGTAGCG 60.043 50.000 1.14 0.00 44.73 4.26
2798 4087 5.484173 TGGAATAGATGTTTGACGATTGC 57.516 39.130 0.00 0.00 0.00 3.56
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
41 42 1.396543 CCTCGACGCGTTTCTTCTCG 61.397 60.000 15.53 10.92 0.00 4.04
46 47 1.153823 CATCCCTCGACGCGTTTCT 60.154 57.895 15.53 0.00 0.00 2.52
62 63 7.413328 GCAAAGCAAAAGAACAAGAAAAGTCAT 60.413 33.333 0.00 0.00 0.00 3.06
73 74 1.276415 GCACGCAAAGCAAAAGAACA 58.724 45.000 0.00 0.00 0.00 3.18
74 75 1.256117 CTGCACGCAAAGCAAAAGAAC 59.744 47.619 0.00 0.00 42.17 3.01
105 106 7.553881 CCGATCGGGCTAATTAATTATCAAT 57.446 36.000 26.95 0.76 0.00 2.57
106 107 6.978343 CCGATCGGGCTAATTAATTATCAA 57.022 37.500 26.95 0.00 0.00 2.57
122 123 0.668535 TCATCAGTACAGCCGATCGG 59.331 55.000 30.03 30.03 38.57 4.18
144 145 3.054655 GTGTATAACCCATCACCACCACT 60.055 47.826 0.00 0.00 0.00 4.00
149 150 1.471851 CGCGTGTATAACCCATCACCA 60.472 52.381 0.00 0.00 0.00 4.17
150 151 1.214367 CGCGTGTATAACCCATCACC 58.786 55.000 0.00 0.00 0.00 4.02
155 156 1.269883 CCATAGCGCGTGTATAACCCA 60.270 52.381 8.43 0.00 0.00 4.51
186 187 1.461127 GTCAACGTCAGTGATCAAGCC 59.539 52.381 0.00 0.00 0.00 4.35
194 195 1.458445 CATGCTCTGTCAACGTCAGTG 59.542 52.381 3.02 2.28 34.86 3.66
204 205 9.481340 TTCATTGATTACTATACATGCTCTGTC 57.519 33.333 0.00 0.00 39.39 3.51
224 225 6.090483 ACCGTAGAGAGTATCCATTCATTG 57.910 41.667 0.00 0.00 33.66 2.82
231 232 6.363065 ACAATAGAACCGTAGAGAGTATCCA 58.637 40.000 0.00 0.00 33.66 3.41
232 233 6.880942 ACAATAGAACCGTAGAGAGTATCC 57.119 41.667 0.00 0.00 33.66 2.59
233 234 8.623030 AGAAACAATAGAACCGTAGAGAGTATC 58.377 37.037 0.00 0.00 0.00 2.24
234 235 8.522542 AGAAACAATAGAACCGTAGAGAGTAT 57.477 34.615 0.00 0.00 0.00 2.12
254 255 5.273668 GGCTGCCTGCATCTGTAAGAAAC 62.274 52.174 12.43 0.00 42.69 2.78
264 265 1.530891 ATCCATGGCTGCCTGCATC 60.531 57.895 21.03 0.00 45.15 3.91
266 267 2.441348 CATCCATGGCTGCCTGCA 60.441 61.111 21.03 2.07 45.15 4.41
303 306 2.096516 CGGCTCGTACTTCGTAGTATCC 60.097 54.545 5.15 4.50 39.01 2.59
309 312 1.006832 GTACCGGCTCGTACTTCGTA 58.993 55.000 0.00 0.00 40.80 3.43
311 314 0.247974 CTGTACCGGCTCGTACTTCG 60.248 60.000 0.00 0.00 39.51 3.79
313 316 0.524862 CACTGTACCGGCTCGTACTT 59.475 55.000 0.00 0.00 39.51 2.24
408 416 1.458639 GGTACCGTATACGCCTGGCT 61.459 60.000 19.86 6.50 38.18 4.75
411 419 1.370900 GCGGTACCGTATACGCCTG 60.371 63.158 33.34 14.31 45.70 4.85
415 423 0.318022 TGCATGCGGTACCGTATACG 60.318 55.000 33.06 23.72 42.41 3.06
549 595 4.594491 TGATGTATAGCACAGGGTCATCAT 59.406 41.667 0.00 0.00 41.51 2.45
558 605 4.406648 TCACCCTTGATGTATAGCACAG 57.593 45.455 0.00 0.00 41.51 3.66
562 609 5.059833 CCTTCTTCACCCTTGATGTATAGC 58.940 45.833 0.00 0.00 0.00 2.97
569 616 1.988107 TGAGCCTTCTTCACCCTTGAT 59.012 47.619 0.00 0.00 0.00 2.57
585 636 2.348059 CGCTTCTTCTTGTCTCATGAGC 59.652 50.000 18.36 13.24 0.00 4.26
650 704 1.595489 CGCGTACGAAAGCTATACGGT 60.595 52.381 21.65 2.63 43.93 4.83
679 733 1.462283 GTGCACATAGGCGCATAGATG 59.538 52.381 13.17 10.40 43.57 2.90
766 820 1.856539 ATCCATCCATCCATCGGCCC 61.857 60.000 0.00 0.00 0.00 5.80
770 824 2.640184 CATCCATCCATCCATCCATCG 58.360 52.381 0.00 0.00 0.00 3.84
772 826 2.651190 TCCATCCATCCATCCATCCAT 58.349 47.619 0.00 0.00 0.00 3.41
773 827 2.136974 TCCATCCATCCATCCATCCA 57.863 50.000 0.00 0.00 0.00 3.41
774 828 2.357881 CCATCCATCCATCCATCCATCC 60.358 54.545 0.00 0.00 0.00 3.51
775 829 2.949054 GCCATCCATCCATCCATCCATC 60.949 54.545 0.00 0.00 0.00 3.51
776 830 1.006758 GCCATCCATCCATCCATCCAT 59.993 52.381 0.00 0.00 0.00 3.41
777 831 0.406750 GCCATCCATCCATCCATCCA 59.593 55.000 0.00 0.00 0.00 3.41
778 832 0.406750 TGCCATCCATCCATCCATCC 59.593 55.000 0.00 0.00 0.00 3.51
781 835 0.468585 GCTTGCCATCCATCCATCCA 60.469 55.000 0.00 0.00 0.00 3.41
824 878 1.877443 GTAACATGTCACCACCACCAC 59.123 52.381 0.00 0.00 0.00 4.16
825 879 1.490910 TGTAACATGTCACCACCACCA 59.509 47.619 0.00 0.00 0.00 4.17
826 880 2.264005 TGTAACATGTCACCACCACC 57.736 50.000 0.00 0.00 0.00 4.61
827 881 3.058293 CACATGTAACATGTCACCACCAC 60.058 47.826 0.00 0.00 0.00 4.16
828 882 3.145286 CACATGTAACATGTCACCACCA 58.855 45.455 0.00 0.00 0.00 4.17
829 883 2.095263 GCACATGTAACATGTCACCACC 60.095 50.000 0.00 0.00 0.00 4.61
854 908 0.940833 GAGGGCCGAGTACGTACTAC 59.059 60.000 27.44 18.80 36.50 2.73
855 909 0.530650 CGAGGGCCGAGTACGTACTA 60.531 60.000 27.44 0.00 41.76 1.82
856 910 1.817099 CGAGGGCCGAGTACGTACT 60.817 63.158 27.71 27.71 41.76 2.73
905 1009 1.065928 CACCCATCGCTCGTAGGAC 59.934 63.158 4.81 0.00 0.00 3.85
906 1010 2.125326 CCACCCATCGCTCGTAGGA 61.125 63.158 4.81 0.00 0.00 2.94
907 1011 1.464376 ATCCACCCATCGCTCGTAGG 61.464 60.000 0.00 0.00 0.00 3.18
908 1012 0.039074 GATCCACCCATCGCTCGTAG 60.039 60.000 0.00 0.00 0.00 3.51
950 1054 3.258372 CCTTTTTAAGGGACAGAAAGGGC 59.742 47.826 5.49 0.00 45.27 5.19
989 1094 0.748367 GAACGGAATGGAAGGGCTCC 60.748 60.000 0.00 0.00 45.64 4.70
990 1095 0.253327 AGAACGGAATGGAAGGGCTC 59.747 55.000 0.00 0.00 0.00 4.70
991 1096 0.253327 GAGAACGGAATGGAAGGGCT 59.747 55.000 0.00 0.00 0.00 5.19
992 1097 0.748367 GGAGAACGGAATGGAAGGGC 60.748 60.000 0.00 0.00 0.00 5.19
993 1098 0.107165 GGGAGAACGGAATGGAAGGG 60.107 60.000 0.00 0.00 0.00 3.95
994 1099 0.107165 GGGGAGAACGGAATGGAAGG 60.107 60.000 0.00 0.00 0.00 3.46
1078 1183 2.810439 CTAGCTAAGCTGCCTACCTG 57.190 55.000 0.00 0.00 40.10 4.00
1107 1212 0.873312 CGACGATGGCATGAGACCAG 60.873 60.000 3.81 0.00 41.46 4.00
1120 1225 2.693874 CGAGACGACGACGACGAT 59.306 61.111 25.15 13.34 42.66 3.73
1448 1553 0.467106 TGTTGGTGGTGGTGATGGTG 60.467 55.000 0.00 0.00 0.00 4.17
1449 1554 0.467290 GTGTTGGTGGTGGTGATGGT 60.467 55.000 0.00 0.00 0.00 3.55
1450 1555 1.178534 GGTGTTGGTGGTGGTGATGG 61.179 60.000 0.00 0.00 0.00 3.51
1451 1556 0.467106 TGGTGTTGGTGGTGGTGATG 60.467 55.000 0.00 0.00 0.00 3.07
1452 1557 0.467290 GTGGTGTTGGTGGTGGTGAT 60.467 55.000 0.00 0.00 0.00 3.06
1453 1558 1.077357 GTGGTGTTGGTGGTGGTGA 60.077 57.895 0.00 0.00 0.00 4.02
1648 1759 4.785453 GGGGCGGCTCTTGGTGAG 62.785 72.222 9.56 0.00 45.33 3.51
1781 1897 2.656002 CAGGGTCTAGCTACAGCAGTA 58.344 52.381 3.70 0.00 45.16 2.74
1782 1898 1.479709 CAGGGTCTAGCTACAGCAGT 58.520 55.000 3.70 0.00 45.16 4.40
1783 1899 0.749649 CCAGGGTCTAGCTACAGCAG 59.250 60.000 3.70 0.00 45.16 4.24
1784 1900 0.041238 ACCAGGGTCTAGCTACAGCA 59.959 55.000 3.70 0.00 45.16 4.41
1785 1901 1.196012 AACCAGGGTCTAGCTACAGC 58.804 55.000 0.00 0.00 42.49 4.40
1786 1902 3.132467 GGTTAACCAGGGTCTAGCTACAG 59.868 52.174 20.12 0.00 35.64 2.74
1787 1903 3.102204 GGTTAACCAGGGTCTAGCTACA 58.898 50.000 20.12 0.00 35.64 2.74
1798 1914 0.256464 TAATGGCGGGGTTAACCAGG 59.744 55.000 25.71 16.92 42.91 4.45
1804 1920 0.479378 GGGGATTAATGGCGGGGTTA 59.521 55.000 0.00 0.00 0.00 2.85
1865 1981 4.156922 GTCCGGTCATGGATCATCTACTAG 59.843 50.000 0.00 0.00 40.91 2.57
1867 1983 2.894126 GTCCGGTCATGGATCATCTACT 59.106 50.000 0.00 0.00 40.91 2.57
1907 2032 2.686558 TGAGCAACGAAATCAAGCAC 57.313 45.000 0.00 0.00 0.00 4.40
1918 2043 0.947244 AAGGCAAGAGTTGAGCAACG 59.053 50.000 7.62 0.00 45.50 4.10
1935 2060 6.210584 GGAATGGAGGGAGTAATAGAGAGAAG 59.789 46.154 0.00 0.00 0.00 2.85
1945 2070 4.966805 AGTAATTCGGAATGGAGGGAGTAA 59.033 41.667 3.59 0.00 0.00 2.24
1946 2071 4.553678 AGTAATTCGGAATGGAGGGAGTA 58.446 43.478 3.59 0.00 0.00 2.59
1947 2072 3.385115 AGTAATTCGGAATGGAGGGAGT 58.615 45.455 3.59 0.00 0.00 3.85
1948 2073 4.130118 CAAGTAATTCGGAATGGAGGGAG 58.870 47.826 3.59 0.00 0.00 4.30
1949 2074 3.521937 ACAAGTAATTCGGAATGGAGGGA 59.478 43.478 3.59 0.00 0.00 4.20
1950 2075 3.886123 ACAAGTAATTCGGAATGGAGGG 58.114 45.455 3.59 0.00 0.00 4.30
1951 2076 4.438744 GCAACAAGTAATTCGGAATGGAGG 60.439 45.833 3.59 0.00 0.00 4.30
1952 2077 4.155826 TGCAACAAGTAATTCGGAATGGAG 59.844 41.667 3.59 0.00 0.00 3.86
1953 2078 4.075682 TGCAACAAGTAATTCGGAATGGA 58.924 39.130 3.59 0.00 0.00 3.41
1954 2079 4.414852 CTGCAACAAGTAATTCGGAATGG 58.585 43.478 3.59 0.00 0.00 3.16
1955 2080 4.082787 ACCTGCAACAAGTAATTCGGAATG 60.083 41.667 3.59 0.00 0.00 2.67
1956 2081 4.079253 ACCTGCAACAAGTAATTCGGAAT 58.921 39.130 0.00 0.00 0.00 3.01
1957 2082 3.482436 ACCTGCAACAAGTAATTCGGAA 58.518 40.909 0.00 0.00 0.00 4.30
1958 2083 3.134574 ACCTGCAACAAGTAATTCGGA 57.865 42.857 0.00 0.00 0.00 4.55
1959 2084 4.201910 CCATACCTGCAACAAGTAATTCGG 60.202 45.833 0.00 0.00 0.00 4.30
1960 2085 4.634004 TCCATACCTGCAACAAGTAATTCG 59.366 41.667 0.00 0.00 0.00 3.34
1961 2086 6.095440 ACATCCATACCTGCAACAAGTAATTC 59.905 38.462 0.00 0.00 0.00 2.17
1962 2087 5.951747 ACATCCATACCTGCAACAAGTAATT 59.048 36.000 0.00 0.00 0.00 1.40
1963 2088 5.509498 ACATCCATACCTGCAACAAGTAAT 58.491 37.500 0.00 0.00 0.00 1.89
1964 2089 4.917385 ACATCCATACCTGCAACAAGTAA 58.083 39.130 0.00 0.00 0.00 2.24
1965 2090 4.568072 ACATCCATACCTGCAACAAGTA 57.432 40.909 0.00 0.00 0.00 2.24
1966 2091 3.439857 ACATCCATACCTGCAACAAGT 57.560 42.857 0.00 0.00 0.00 3.16
1967 2092 5.371526 AGATACATCCATACCTGCAACAAG 58.628 41.667 0.00 0.00 0.00 3.16
1968 2093 5.372343 AGATACATCCATACCTGCAACAA 57.628 39.130 0.00 0.00 0.00 2.83
1969 2094 6.493189 TTAGATACATCCATACCTGCAACA 57.507 37.500 0.00 0.00 0.00 3.33
1970 2095 7.445402 ACATTTAGATACATCCATACCTGCAAC 59.555 37.037 0.00 0.00 0.00 4.17
1971 2096 7.517320 ACATTTAGATACATCCATACCTGCAA 58.483 34.615 0.00 0.00 0.00 4.08
1972 2097 7.078249 ACATTTAGATACATCCATACCTGCA 57.922 36.000 0.00 0.00 0.00 4.41
1973 2098 9.672673 AATACATTTAGATACATCCATACCTGC 57.327 33.333 0.00 0.00 0.00 4.85
2001 2126 9.788889 TCGTAGAAATGGATGTATCTAGAACTA 57.211 33.333 0.00 0.00 0.00 2.24
2002 2127 8.569641 GTCGTAGAAATGGATGTATCTAGAACT 58.430 37.037 0.00 0.00 39.69 3.01
2003 2128 7.534578 CGTCGTAGAAATGGATGTATCTAGAAC 59.465 40.741 0.00 0.00 39.69 3.01
2004 2129 7.443272 TCGTCGTAGAAATGGATGTATCTAGAA 59.557 37.037 0.00 0.00 39.69 2.10
2005 2130 6.932960 TCGTCGTAGAAATGGATGTATCTAGA 59.067 38.462 0.00 0.00 39.69 2.43
2006 2131 7.095144 ACTCGTCGTAGAAATGGATGTATCTAG 60.095 40.741 0.00 0.00 39.69 2.43
2007 2132 6.709397 ACTCGTCGTAGAAATGGATGTATCTA 59.291 38.462 0.00 0.00 39.69 1.98
2008 2133 5.531659 ACTCGTCGTAGAAATGGATGTATCT 59.468 40.000 0.00 0.00 39.69 1.98
2009 2134 5.759963 ACTCGTCGTAGAAATGGATGTATC 58.240 41.667 0.00 0.00 39.69 2.24
2010 2135 5.769484 ACTCGTCGTAGAAATGGATGTAT 57.231 39.130 0.00 0.00 39.69 2.29
2011 2136 6.682423 TTACTCGTCGTAGAAATGGATGTA 57.318 37.500 0.00 0.00 39.69 2.29
2012 2137 5.571784 TTACTCGTCGTAGAAATGGATGT 57.428 39.130 0.00 0.00 39.69 3.06
2013 2138 7.222031 TCAAATTACTCGTCGTAGAAATGGATG 59.778 37.037 0.00 0.00 39.69 3.51
2014 2139 7.262772 TCAAATTACTCGTCGTAGAAATGGAT 58.737 34.615 0.00 0.00 39.69 3.41
2015 2140 6.623486 TCAAATTACTCGTCGTAGAAATGGA 58.377 36.000 0.00 0.00 39.69 3.41
2016 2141 6.880822 TCAAATTACTCGTCGTAGAAATGG 57.119 37.500 0.00 0.00 39.69 3.16
2017 2142 7.418801 CGTTTCAAATTACTCGTCGTAGAAATG 59.581 37.037 0.00 0.00 39.69 2.32
2018 2143 7.411157 CCGTTTCAAATTACTCGTCGTAGAAAT 60.411 37.037 0.00 0.00 39.69 2.17
2019 2144 6.129115 CCGTTTCAAATTACTCGTCGTAGAAA 60.129 38.462 0.00 0.00 39.69 2.52
2020 2145 5.343058 CCGTTTCAAATTACTCGTCGTAGAA 59.657 40.000 0.00 0.00 39.69 2.10
2021 2146 4.853196 CCGTTTCAAATTACTCGTCGTAGA 59.147 41.667 0.00 0.00 0.00 2.59
2022 2147 4.853196 TCCGTTTCAAATTACTCGTCGTAG 59.147 41.667 0.00 0.00 0.00 3.51
2023 2148 4.793071 TCCGTTTCAAATTACTCGTCGTA 58.207 39.130 0.00 0.00 0.00 3.43
2024 2149 3.641648 TCCGTTTCAAATTACTCGTCGT 58.358 40.909 0.00 0.00 0.00 4.34
2025 2150 3.060363 CCTCCGTTTCAAATTACTCGTCG 59.940 47.826 0.00 0.00 0.00 5.12
2026 2151 3.370061 CCCTCCGTTTCAAATTACTCGTC 59.630 47.826 0.00 0.00 0.00 4.20
2027 2152 3.007182 TCCCTCCGTTTCAAATTACTCGT 59.993 43.478 0.00 0.00 0.00 4.18
2028 2153 3.592059 TCCCTCCGTTTCAAATTACTCG 58.408 45.455 0.00 0.00 0.00 4.18
2029 2154 4.576879 ACTCCCTCCGTTTCAAATTACTC 58.423 43.478 0.00 0.00 0.00 2.59
2030 2155 4.635699 ACTCCCTCCGTTTCAAATTACT 57.364 40.909 0.00 0.00 0.00 2.24
2031 2156 5.240121 TGTACTCCCTCCGTTTCAAATTAC 58.760 41.667 0.00 0.00 0.00 1.89
2032 2157 5.486735 TGTACTCCCTCCGTTTCAAATTA 57.513 39.130 0.00 0.00 0.00 1.40
2033 2158 4.360951 TGTACTCCCTCCGTTTCAAATT 57.639 40.909 0.00 0.00 0.00 1.82
2034 2159 4.569719 ATGTACTCCCTCCGTTTCAAAT 57.430 40.909 0.00 0.00 0.00 2.32
2035 2160 4.360951 AATGTACTCCCTCCGTTTCAAA 57.639 40.909 0.00 0.00 0.00 2.69
2036 2161 4.041198 AGAAATGTACTCCCTCCGTTTCAA 59.959 41.667 0.00 0.00 36.84 2.69
2037 2162 3.581332 AGAAATGTACTCCCTCCGTTTCA 59.419 43.478 0.00 0.00 36.84 2.69
2038 2163 4.203654 AGAAATGTACTCCCTCCGTTTC 57.796 45.455 0.00 0.00 35.38 2.78
2039 2164 4.776308 AGTAGAAATGTACTCCCTCCGTTT 59.224 41.667 0.00 0.00 0.00 3.60
2040 2165 4.351127 AGTAGAAATGTACTCCCTCCGTT 58.649 43.478 0.00 0.00 0.00 4.44
2041 2166 3.978610 AGTAGAAATGTACTCCCTCCGT 58.021 45.455 0.00 0.00 0.00 4.69
2042 2167 4.645588 AGAAGTAGAAATGTACTCCCTCCG 59.354 45.833 0.00 0.00 31.73 4.63
2043 2168 5.894964 AGAGAAGTAGAAATGTACTCCCTCC 59.105 44.000 12.35 0.00 35.41 4.30
2044 2169 7.776500 AGTAGAGAAGTAGAAATGTACTCCCTC 59.224 40.741 0.00 9.86 35.24 4.30
2045 2170 7.645002 AGTAGAGAAGTAGAAATGTACTCCCT 58.355 38.462 0.00 0.00 31.73 4.20
2046 2171 7.885009 AGTAGAGAAGTAGAAATGTACTCCC 57.115 40.000 0.00 0.00 31.73 4.30
2122 2247 9.174166 GGTTTTTATGCTTAAGATACTTGGAGA 57.826 33.333 6.67 0.00 0.00 3.71
2210 2341 0.110192 GTAGCAACTTTGACCGCAGC 60.110 55.000 0.00 0.00 0.00 5.25
2214 2345 4.403453 GCAATAAGTAGCAACTTTGACCG 58.597 43.478 0.00 0.00 43.60 4.79
2297 2476 9.883142 TTTTTCTTCTTCTTTCAAAAGGCAATA 57.117 25.926 2.83 0.00 36.67 1.90
2300 2479 8.040132 TGATTTTTCTTCTTCTTTCAAAAGGCA 58.960 29.630 2.83 0.00 36.67 4.75
2326 2506 3.708403 TGTTGACTCCTCTTGCATGAT 57.292 42.857 2.33 0.00 0.00 2.45
2329 2509 3.825328 AGTTTGTTGACTCCTCTTGCAT 58.175 40.909 0.00 0.00 0.00 3.96
2331 3591 4.142381 ACAAAGTTTGTTGACTCCTCTTGC 60.142 41.667 15.58 0.00 42.22 4.01
2332 3592 5.106157 ACACAAAGTTTGTTGACTCCTCTTG 60.106 40.000 18.59 5.80 43.23 3.02
2359 3628 2.128035 GATGATGCCTTTCTCGTACGG 58.872 52.381 16.52 6.42 0.00 4.02
2404 3673 1.875813 AGCTCGCGCTGAAAGATCG 60.876 57.895 5.56 0.00 46.86 3.69
2496 3770 1.956477 CCCAACTTTCCTGACCAACAG 59.044 52.381 0.00 0.00 45.36 3.16
2506 3780 2.237893 TCCGATTCCTACCCAACTTTCC 59.762 50.000 0.00 0.00 0.00 3.13
2582 3856 0.676782 ACGTATGTTTGCTGCCCTCC 60.677 55.000 0.00 0.00 0.00 4.30
2612 3890 1.144057 CCCCCACATGCTAGTCGTC 59.856 63.158 0.00 0.00 0.00 4.20
2613 3891 3.031417 GCCCCCACATGCTAGTCGT 62.031 63.158 0.00 0.00 0.00 4.34
2614 3892 2.203070 GCCCCCACATGCTAGTCG 60.203 66.667 0.00 0.00 0.00 4.18
2615 3893 2.193248 GGCCCCCACATGCTAGTC 59.807 66.667 0.00 0.00 0.00 2.59
2616 3894 3.420482 GGGCCCCCACATGCTAGT 61.420 66.667 12.23 0.00 35.81 2.57
2617 3895 4.569180 CGGGCCCCCACATGCTAG 62.569 72.222 18.66 0.00 35.37 3.42
2668 3951 2.126189 GGTGTCCGTGACCGCTAC 60.126 66.667 2.23 0.00 0.00 3.58
2673 3956 2.746277 GGCATGGTGTCCGTGACC 60.746 66.667 11.59 8.42 42.47 4.02
2681 3964 2.591753 CATCCTCCGGCATGGTGT 59.408 61.111 0.00 0.00 39.52 4.16
2715 4000 2.158957 ACCACGCATCCGATTCATAACT 60.159 45.455 0.00 0.00 38.29 2.24
2768 4053 6.465781 CGTCAAACATCTATTCCAAATGAACG 59.534 38.462 0.00 0.00 35.31 3.95
2769 4054 7.526608 TCGTCAAACATCTATTCCAAATGAAC 58.473 34.615 0.00 0.00 35.31 3.18
2798 4087 3.372954 CGTCCGGTTAAAGATGCTCTAG 58.627 50.000 0.00 0.00 0.00 2.43


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

AutoCloner maintained by Alex Coulton.