Locus 2501

Sequence ID	3L_DroMel_CAF1
Location	7,036,025 – 7,036,120
Length	95
Max. P	0.999956

overview

Window 1

Location	7,036,025 – 7,036,120
Length	95
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	94.32
Mean single sequence MFE	-26.10
Consensus MFE	-23.42
Energy contribution	-24.26
Covariance contribution	0.84
Combinations/Pair	1.04
Mean z-score	-2.84
Structure conservation index	0.90
SVM decision value	4.26
SVM RNA-class probability	0.999853
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7036025 95 + 23771897
UUUUGAAAUUGACGCCAUCCUGUCCACUCAUCGAAUGCAAAGAAACGCCAAUAAAAGCUCAAAAUUAACUUGAAUGGGCGGCAUGCAUUCGAUGA
..........((((......))))...((((((((((((......((((.....(((...........))).....))))...)))))))))))) ( -25.70)
>DroSec_CAF1 48669 95 + 1
UUUUGAAAUUGACGCCAUCCUGUCCACUCAUCGAAUGCAAAGAAACGCCAAUAAGAGCUCAAAAUUAACUCGAAUGGGCGGCAUGCAUUCGAUGA
..........((((......))))...((((((((((((......((((.....(((...........))).....))))...)))))))))))) ( -27.90)
>DroSim_CAF1 80775 95 + 1
UUUUGAAAUUGACGCCAUCCUGUCCACUCAUCGAAUGCAAAGAAACGCCAAUAAGAGCUCAAAAUUAACUCGAAUGGGCGGCAUGCAUUCGAUGA
..........((((......))))...((((((((((((......((((.....(((...........))).....))))...)))))))))))) ( -27.90)
>DroEre_CAF1 57422 94 + 1
UUUUCAAAUUGACGCCGUCCUGUCCACUCAUCGAAUGCA-AGAAACGCCAAUGAAAGCUCAAAAUUAGCUCGAAUGGGCGUCAUGCAUUCGAUGA
..........((((......))))...((((((((((((-.((..((((.((...((((.......))))...)).)))))).)))))))))))) ( -30.10)
>DroYak_CAF1 56684 95 + 1
UUUUGAAAUUGAAGCCAUCCUGUCCACUCAACGAAUGCAAAGAAACGCCAAUGAAAGCUCAAAAUUAACACGAACGGGCGUCAUGCAUUCGAUGA
...........................(((.((((((((.....(((((..(((....))).........(....))))))..)))))))).))) ( -18.90)
>consensus
UUUUGAAAUUGACGCCAUCCUGUCCACUCAUCGAAUGCAAAGAAACGCCAAUAAAAGCUCAAAAUUAACUCGAAUGGGCGGCAUGCAUUCGAUGA
..........((((......))))...((((((((((((......((((.....(((...........))).....))))...)))))))))))) (-23.42 = -24.26 +   0.84)

alignment

secondary structure

dotplot

Window 2

Location	7,036,025 – 7,036,120
Length	95
Sequences	5
Columns	95
Reading direction	reverse
Mean pairwise identity	94.32
Mean single sequence MFE	-30.50
Consensus MFE	-28.22
Energy contribution	-28.10
Covariance contribution	-0.12
Combinations/Pair	1.15
Mean z-score	-2.93
Structure conservation index	0.93
SVM decision value	4.85
SVM RNA-class probability	0.999956
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7036025 95 - 23771897
UCAUCGAAUGCAUGCCGCCCAUUCAAGUUAAUUUUGAGCUUUUAUUGGCGUUUCUUUGCAUUCGAUGAGUGGACAGGAUGGCGUCAAUUUCAAAA
((((((((((((...((((.((..(((((.......)))))..)).))))......))))))))))))...(((........))).......... ( -29.00)
>DroSec_CAF1 48669 95 - 1
UCAUCGAAUGCAUGCCGCCCAUUCGAGUUAAUUUUGAGCUCUUAUUGGCGUUUCUUUGCAUUCGAUGAGUGGACAGGAUGGCGUCAAUUUCAAAA
((((((((((((...((((.((..(((((.......)))))..)).))))......))))))))))))...(((........))).......... ( -31.20)
>DroSim_CAF1 80775 95 - 1
UCAUCGAAUGCAUGCCGCCCAUUCGAGUUAAUUUUGAGCUCUUAUUGGCGUUUCUUUGCAUUCGAUGAGUGGACAGGAUGGCGUCAAUUUCAAAA
((((((((((((...((((.((..(((((.......)))))..)).))))......))))))))))))...(((........))).......... ( -31.20)
>DroEre_CAF1 57422 94 - 1
UCAUCGAAUGCAUGACGCCCAUUCGAGCUAAUUUUGAGCUUUCAUUGGCGUUUCU-UGCAUUCGAUGAGUGGACAGGACGGCGUCAAUUUGAAAA
((((((((((((.((((((.((..(((((.......)))))..)).))))))...-))))))))))))...(((........))).......... ( -35.60)
>DroYak_CAF1 56684 95 - 1
UCAUCGAAUGCAUGACGCCCGUUCGUGUUAAUUUUGAGCUUUCAUUGGCGUUUCUUUGCAUUCGUUGAGUGGACAGGAUGGCUUCAAUUUCAAAA
(((.((((((((.((((((.(((((.........))))).......))))))....)))))))).))).((((...((.....))...))))... ( -25.50)
>consensus
UCAUCGAAUGCAUGCCGCCCAUUCGAGUUAAUUUUGAGCUUUUAUUGGCGUUUCUUUGCAUUCGAUGAGUGGACAGGAUGGCGUCAAUUUCAAAA
((((((((((((...((((.((..(((((.......)))))..)).))))......))))))))))))...(((........))).......... (-28.22 = -28.10 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:34:15 2006