Locus 560

Sequence ID	X_DroMel_CAF1
Location	1,612,094 – 1,612,198
Length	104
Max. P	0.991454

overview

Window 0

Location	1,612,094 – 1,612,198
Length	104
Sequences	5
Columns	104
Reading direction	forward
Mean pairwise identity	91.92
Mean single sequence MFE	-29.92
Consensus MFE	-24.02
Energy contribution	-23.98
Covariance contribution	-0.04
Combinations/Pair	1.05
Mean z-score	-2.62
Structure conservation index	0.80
SVM decision value	2.27
SVM RNA-class probability	0.991454
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1612094 104 + 22224390
AAAAGACGUAAUGAGCAAUCUGGCCAACUGAUUGGCCAGUUAGCCAAACUAUCGCGGGCCUGCUGGCCACAUCGAGCCUUCAUGUCAAUGACAAUUUAUACAAA
....(((((..((.((...((((((((....))))))))...)))).....(((..((((....))))....)))......))))).................. ( -31.10)
>DroSec_CAF1 7823 104 + 1
AAAAGACGUAAUGAGCAAUCUGGCCAACUGAUUGGCCAGUUAGCCAAACUAUCGCGAGCCUGCUGGCCACAUCGAGCCUUCAUGUCAAUGACAAUUUAUACAAA
....(((((...((....)).(((....((((((((((((..(((..........).))..)))))))).)))).)))...))))).................. ( -27.30)
>DroSim_CAF1 23775 104 + 1
AAAAGACGUAAUGAGCAAUCUGGCCAACUGAUUGGCCAGUUAGCCAAACUAUCGCGGGCCUGCUGGCCACAUCGAGCCUUCAUGUCAAUGACAAUUUAUACAAA
....(((((..((.((...((((((((....))))))))...)))).....(((..((((....))))....)))......))))).................. ( -31.10)
>DroEre_CAF1 8596 93 + 1
AAAAGACGUAAUGAGCAAUCUGGCCCACUGAUUGGCCAGUUGGCCGAACU-----------GUUGGCCAACUCGCGCCUUCAUGUCAAUGACAAUUUAUACAAA
....(((((...(.((....(((((........)))))(((((((((...-----------.)))))))))....)))...))))).................. ( -29.30)
>DroYak_CAF1 9363 104 + 1
AAAAGACGUAAUGAGCAAUCUGGCCAACUGAUUGGCCAGUUAGCCGAACUAUCGCGGCCCUGCUGGCCACAACGAGCCUUCAUGUCAAUGACAAUUUAUACAAA
....(((((...((....)).(((....((..((((((((..((((........))))...))))))))))....)))...))))).................. ( -30.80)
>consensus
AAAAGACGUAAUGAGCAAUCUGGCCAACUGAUUGGCCAGUUAGCCAAACUAUCGCGGGCCUGCUGGCCACAUCGAGCCUUCAUGUCAAUGACAAUUUAUACAAA
....(((((..((.((...((((((((....))))))))...))))...............(..((((.....).)))..)))))).................. (-24.02 = -23.98 +  -0.04)

alignment

secondary structure

dotplot

Window 1

Location	1,612,094 – 1,612,198
Length	104
Sequences	5
Columns	104
Reading direction	reverse
Mean pairwise identity	91.92
Mean single sequence MFE	-36.08
Consensus MFE	-27.34
Energy contribution	-29.46
Covariance contribution	2.12
Combinations/Pair	1.06
Mean z-score	-3.11
Structure conservation index	0.76
SVM decision value	1.85
SVM RNA-class probability	0.979785
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1612094 104 - 22224390
UUUGUAUAAAUUGUCAUUGACAUGAAGGCUCGAUGUGGCCAGCAGGCCCGCGAUAGUUUGGCUAACUGGCCAAUCAGUUGGCCAGAUUGCUCAUUACGUCUUUU
...........((((...)))).(((((((((.((.((((....)))))))))((((((((((((((((....))))))))))))))))........)))))). ( -37.20)
>DroSec_CAF1 7823 104 - 1
UUUGUAUAAAUUGUCAUUGACAUGAAGGCUCGAUGUGGCCAGCAGGCUCGCGAUAGUUUGGCUAACUGGCCAAUCAGUUGGCCAGAUUGCUCAUUACGUCUUUU
...........((((...)))).((((((.....((((((....))).)))((((((((((((((((((....)))))))))))))))).)).....)))))). ( -36.10)
>DroSim_CAF1 23775 104 - 1
UUUGUAUAAAUUGUCAUUGACAUGAAGGCUCGAUGUGGCCAGCAGGCCCGCGAUAGUUUGGCUAACUGGCCAAUCAGUUGGCCAGAUUGCUCAUUACGUCUUUU
...........((((...)))).(((((((((.((.((((....)))))))))((((((((((((((((....))))))))))))))))........)))))). ( -37.20)
>DroEre_CAF1 8596 93 - 1
UUUGUAUAAAUUGUCAUUGACAUGAAGGCGCGAGUUGGCCAAC-----------AGUUCGGCCAACUGGCCAAUCAGUGGGCCAGAUUGCUCAUUACGUCUUUU
...........((((...)))).((((((((.((((((((...-----------.....)))))))).)).....(((((((......)))))))..)))))). ( -32.50)
>DroYak_CAF1 9363 104 - 1
UUUGUAUAAAUUGUCAUUGACAUGAAGGCUCGUUGUGGCCAGCAGGGCCGCGAUAGUUCGGCUAACUGGCCAAUCAGUUGGCCAGAUUGCUCAUUACGUCUUUU
...........((((...)))).((((((..(((((((((.....))))))))).((..(((...((((((((....))))))))...)))....)))))))). ( -37.40)
>consensus
UUUGUAUAAAUUGUCAUUGACAUGAAGGCUCGAUGUGGCCAGCAGGCCCGCGAUAGUUUGGCUAACUGGCCAAUCAGUUGGCCAGAUUGCUCAUUACGUCUUUU
...........((((...)))).((((((.....((((((....)).))))((((((((((((((((((....)))))))))))))))).)).....)))))). (-27.34 = -29.46 +   2.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:44 2006