f = [D*(min) - D(A,closer parent)]/( d(parent1,parent2)
as a measure of the decrease in Hamming distance. The table with the ``most likely'' recombinants show that none of the sequences is likely to be PCR recombinant.Parameters: Thresholds: f_thr= 0.200 f_max = 15
genes | sequence | D | f |
---|---|---|---|
###########*##*##*#####.##.##*#######################.#####.########.##.#####.### | 7 | ||
HoxM_Z1 | CACTTCAACCGCTACCTGACTCGTCGACGGCGCATCGAGATCGCCCACACCCTTTGCCTGAGTGAACGCCAAATCAAAATC | ||
HoxM_Z2 | CACTTCAACCGCTACCTGACTCGGCGGCGGCGCATCGAGATCGCCCACACCCTGTGCCTTAGTGAACGTCAGATCAAGATC | ||
HoxM_Z3 | CACTTCAACCGTTATCTAACTCGTCGGCGACGCATCGAGATCGCCCACACCCTGTGCCTGAGTGAACGCCAGATCAAGATC | ||
###########.##.##.#####.##*##.#######################*#####.########.##*#####*### | 7 | ||
.................|||||||||...||||||||||||||||||||||||............................ | 4 | 0.273 | |
###########*##*##*#####.##.##*################.#.####.#####.########.##.#####.### | 9 | ||
HoxM_X | CACTTCAACCGCTACCTGACTCGTCGACGGCGCATCGAGATCGCCCGCGCCCTTTGCCTGAGTGAACGCCAAATCAAAATC | ||
HoxM_Z2 | CACTTCAACCGCTACCTGACTCGGCGGCGGCGCATCGAGATCGCCCACACCCTGTGCCTTAGTGAACGTCAGATCAAGATC | ||
HoxM_Z3 | CACTTCAACCGTTATCTAACTCGTCGGCGACGCATCGAGATCGCCCACACCCTGTGCCTGAGTGAACGCCAGATCAAGATC | ||
###########.##.##.#####.##*##.################*#*####*#####.########.##*#####*### | 7 | ||
.................|||||||||...|||||||||||||||||................................... | 4 | 0.231 | |
########*##*##*#####.##.###*#.#####.#####*##.##..####.#####...###.##.############ | 13 | ||
HoxM_Z2 | CACTTCAACCGCTACCTGACTCGGCGGCGGCGCATCGAGATCGCCCACACCCTGTGCCTTAGTGAACGTCAGATCAAGATC | ||
HoxM_Y | CACTTCAACCGCTACCTGACACGCCGGCGTCGCATTGAGATCGCACATTCCCTCTGCCTCTCTGAGCGCCAGATCAAGATC | ||
HoxM_Z4 | CACTTCAATCGGTATCTGACCCGACGGAGACGCATTGAGATAGCCCATACCCTTTGCCTCTCTGAGCGGCAGATCAAGATC | ||
########.##.##.#####.##.###.#.#####*#####.##.##*.####.#####***###*##.############ | 12 | ||
...........................||||||||......||||||.................................. | 8 | 0.222 | |
##.#####*##*##*#####.##*###*#*#####.#####*...##*.#.##.#####....##.##.############ | 15 | ||
HoxM_Z2 | CACTTCAACCGCTACCTGACTCGGCGGCGGCGCATCGAGATCGCCCACACCCTGTGCCTTAGTGAACGTCAGATCAAGATC | ||
HoxM_U2 | CATTTCAACCGCTACCTGACGCGGCGGCGGCGCATTGAGATCCGGCACGCGCTTTGCCTCTCGGAGCGCCAGATCAAGATC | ||
HoxM_Z4 | CACTTCAATCGGTATCTGACCCGACGGAGACGCATTGAGATAGCCCATACCCTTTGCCTCTCTGAGCGGCAGATCAAGATC | ||
##.#####.##.##.#####.##.###.#.#####*#####....##..#.##*#####***.##*##.############ | 17 | ||
...............................................||||||............................ | 10 | 0.217 | |
########*##*##*#####.##.###*#.##*##.#####*##.##..####.#####...###.##.############ | 13 | ||
HoxM_Z2 | CACTTCAACCGCTACCTGACTCGGCGGCGGCGCATCGAGATCGCCCACACCCTGTGCCTTAGTGAACGTCAGATCAAGATC | ||
HoxM_Y | CACTTCAACCGCTACCTGACACGCCGGCGTCGCATTGAGATCGCACATTCCCTCTGCCTCTCTGAGCGCCAGATCAAGATC | ||
HoxM_U1 | CACTTCAATCGGTATCTGACCCGTCGGAGACGGATTGAGATAGCCCATACCCTTTGCCTCTCTGAGCGGCAGATCAAGATC | ||
########.##.##.#####.##.###.#.##.##*#####.##.##*.####.#####***###*##.############ | 13 | ||
................................|||......||||||.................................. | 8 | 0.263 | |
##.#####*##*##*#####.##*###*#*##*##.#####*...##*.#.##.#####....##.##.############ | 15 | ||
HoxM_Z2 | CACTTCAACCGCTACCTGACTCGGCGGCGGCGCATCGAGATCGCCCACACCCTGTGCCTTAGTGAACGTCAGATCAAGATC | ||
HoxM_U2 | CATTTCAACCGCTACCTGACGCGGCGGCGGCGCATTGAGATCCGGCACGCGCTTTGCCTCTCGGAGCGCCAGATCAAGATC | ||
HoxM_U1 | CACTTCAATCGGTATCTGACCCGTCGGAGACGGATTGAGATAGCCCATACCCTTTGCCTCTCTGAGCGGCAGATCAAGATC | ||
##.#####.##.##.#####.##.###.#.##.##*#####....##..#.##*#####***.##*##.############ | 18 | ||
...............................................||||||............................ | 10 | 0.208 | |
##*#####.##.##.#####.##.###.#.#*#########.##.###.####.##*###*#*###*#.############ | 12 | ||
HoxM_Z4 | CACTTCAATCGGTATCTGACCCGACGGAGACGCATTGAGATAGCCCATACCCTTTGCCTCTCTGAGCGGCAGATCAAGATC | ||
HoxM_Y | CACTTCAACCGCTACCTGACACGCCGGCGTCGCATTGAGATCGCACATTCCCTCTGCCTCTCTGAGCGCCAGATCAAGATC | ||
HoxM_W | CATTTCAACCGCTACCTGACCCGGCGGCGGCCCATTGAGATCGCGCATGCCCTCTGTCTCACCGAGAGGCAGATCAAGATC | ||
##.#####*##*##*#####.##.###*#.#.#########*##.###.####*##.###.#.###.#.############ | 12 | ||
.....................................................|||......................... | 8 | 0.222 | |
##*#####.##.##.#####.##.###.#.#####.#####.***##.*#*##.#####...*##.##.############ | 16 | ||
HoxM_Z4 | CACTTCAATCGGTATCTGACCCGACGGAGACGCATTGAGATAGCCCATACCCTTTGCCTCTCTGAGCGGCAGATCAAGATC | ||
HoxM_Z2 | CACTTCAACCGCTACCTGACTCGGCGGCGGCGCATCGAGATCGCCCACACCCTGTGCCTTAGTGAACGTCAGATCAAGATC | ||
HoxM_U2 | CATTTCAACCGCTACCTGACGCGGCGGCGGCGCATTGAGATCCGGCACGCGCTTTGCCTCTCGGAGCGCCAGATCAAGATC | ||
##.#####*##*##*#####.##*###*#*#####.#####*...##*.#.##.#####....##.##.############ | 15 | ||
.........................................|....................................... | 10 | 0.217 | |
##*#####.##.##.#####.##.###.#.###########.**.##*.#*##.########*#####.############ | 12 | ||
HoxM_Z4 | CACTTCAATCGGTATCTGACCCGACGGAGACGCATTGAGATAGCCCATACCCTTTGCCTCTCTGAGCGGCAGATCAAGATC | ||
HoxM_Y | CACTTCAACCGCTACCTGACACGCCGGCGTCGCATTGAGATCGCACATTCCCTCTGCCTCTCTGAGCGCCAGATCAAGATC | ||
HoxM_U2 | CATTTCAACCGCTACCTGACGCGGCGGCGGCGCATTGAGATCCGGCACGCGCTTTGCCTCTCGGAGCGCCAGATCAAGATC | ||
##.#####*##*##*#####.##.###*#.###########*...##..#.##.########.#####*############ | 12 | ||
.........................................|....................................... | 8 | 0.222 | |
##*#####.##.##.#####.##.###.#.#*.########.##.###.####.##*###*#*###*#.############ | 13 | ||
HoxM_U1 | CACTTCAATCGGTATCTGACCCGTCGGAGACGGATTGAGATAGCCCATACCCTTTGCCTCTCTGAGCGGCAGATCAAGATC | ||
HoxM_Y | CACTTCAACCGCTACCTGACACGCCGGCGTCGCATTGAGATCGCACATTCCCTCTGCCTCTCTGAGCGCCAGATCAAGATC | ||
HoxM_W | CATTTCAACCGCTACCTGACCCGGCGGCGGCCCATTGAGATCGCGCATGCCCTCTGTCTCACCGAGAGGCAGATCAAGATC | ||
##.#####*##*##*#####.##.###*#.#.*########*##.###.####*##.###.#.###.#.############ | 12 | ||
.....................................................|||......................... | 8 | 0.211 | |
##*#####.##.##.#####.##.###.#.##.##.#####.***##.*#*##.#####...*##.##.############ | 17 | ||
HoxM_U1 | CACTTCAATCGGTATCTGACCCGTCGGAGACGGATTGAGATAGCCCATACCCTTTGCCTCTCTGAGCGGCAGATCAAGATC | ||
HoxM_Z2 | CACTTCAACCGCTACCTGACTCGGCGGCGGCGCATCGAGATCGCCCACACCCTGTGCCTTAGTGAACGTCAGATCAAGATC | ||
HoxM_U2 | CATTTCAACCGCTACCTGACGCGGCGGCGGCGCATTGAGATCCGGCACGCGCTTTGCCTCTCGGAGCGCCAGATCAAGATC | ||
##.#####*##*##*#####.##*###*#*##*##.#####*...##*.#.##.#####....##.##.############ | 15 | ||
.........................................|....................................... | 10 | 0.208 | |
##*#####.##.##.#####.##.###.#.##.########.**.##*.#*##.########*#####.############ | 13 | ||
HoxM_U1 | CACTTCAATCGGTATCTGACCCGTCGGAGACGGATTGAGATAGCCCATACCCTTTGCCTCTCTGAGCGGCAGATCAAGATC | ||
HoxM_Y | CACTTCAACCGCTACCTGACACGCCGGCGTCGCATTGAGATCGCACATTCCCTCTGCCTCTCTGAGCGCCAGATCAAGATC | ||
HoxM_U2 | CATTTCAACCGCTACCTGACGCGGCGGCGGCGCATTGAGATCCGGCACGCGCTTTGCCTCTCGGAGCGCCAGATCAAGATC | ||
##.#####*##*##*#####.##.###*#.##*########*...##..#.##.########.#####*############ | 12 | ||
.........................................|....................................... | 8 | 0.211 | |
##.#################.##.#####.#*##########...##..#.##.##*###*#.###*#*############ | 12 | ||
HoxM_Y | CACTTCAACCGCTACCTGACACGCCGGCGTCGCATTGAGATCGCACATTCCCTCTGCCTCTCTGAGCGCCAGATCAAGATC | ||
HoxM_U2 | CATTTCAACCGCTACCTGACGCGGCGGCGGCGCATTGAGATCCGGCACGCGCTTTGCCTCTCGGAGCGCCAGATCAAGATC | ||
HoxM_W | CATTTCAACCGCTACCTGACCCGGCGGCGGCCCATTGAGATCGCGCATGCCCTCTGTCTCACCGAGAGGCAGATCAAGATC | ||
##*#################.##*#####*#.##########..*##.*#.##.##.###.#.###.#.############ | 12 | ||
................................................||||||||......................... | 8 | 0.235 | |
##.#################.##.#####.#.##########**.##*.#*##*##.###.#.###.#.############ | 12 | ||
HoxM_W | CATTTCAACCGCTACCTGACCCGGCGGCGGCCCATTGAGATCGCGCATGCCCTCTGTCTCACCGAGAGGCAGATCAAGATC | ||
HoxM_Y | CACTTCAACCGCTACCTGACACGCCGGCGTCGCATTGAGATCGCACATTCCCTCTGCCTCTCTGAGCGCCAGATCAAGATC | ||
HoxM_U2 | CATTTCAACCGCTACCTGACGCGGCGGCGGCGCATTGAGATCCGGCACGCGCTTTGCCTCTCGGAGCGCCAGATCAAGATC | ||
##.#################.##.#####.#*##########...##..#.##.##*###*#.###*#*############ | 12 | ||
.....................................................|||......................... | 8 | 0.235 |