Locus 1983

Sequence ID 3L_DroMel_CAF1
Location 5,459,320 – 5,459,424
Length 104
Max. P 0.708923
window3105

overview

Window 5

Location 5,459,320 – 5,459,424
Length 104
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 85.95
Mean single sequence MFE -25.38
Consensus MFE -16.67
Energy contribution -17.36
Covariance contribution 0.69
Combinations/Pair 1.12
Mean z-score -1.99
Structure conservation index 0.66
SVM decision value 0.37
SVM RNA-class probability 0.708923
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5459320 104 + 23771897
AAAUUGCCAUUGCAGAAACUCGGAAUUCCCCUUCUUGCCCCAUUUU------CA----------UGCAUGAGUUUAGUUUAUAAAACUUUUGCUGGCGCAUAUUAAUGUGCAGCUCCAAU
.....((((..((((((....((....))..))).)))........------..----------.(((.((((((........)))))).)))))))(((((....)))))......... ( -22.00)
>DroSec_CAF1 20827 103 + 1
AAAUUGCCAUUGCAGAAACUCGGAAUUUCCCUUCUUGCCCCAUUUU------CA----------UGCAUGGGGUUAGUUUAUAAAACUUUUGCUGGCACAUAUUAAUGUGCAGCUCC-AU
...((((....))))......(((.........((.(((((((...------..----------...))))))).))..............((((.(((((....))))))))))))-.. ( -27.40)
>DroSim_CAF1 22234 103 + 1
AAAUUGCCAUUGCAGAAACUCGGAAUUUCCCUUCUUGCCCCAUUUU------CA----------UGCAUGGGGUUAGUUUAUAAAACUUUUGCUGGCACAUAUUAAUGUGCAGCUCC-AU
...((((....))))......(((.........((.(((((((...------..----------...))))))).))..............((((.(((((....))))))))))))-.. ( -27.40)
>DroYak_CAF1 7499 117 + 1
AAAUUGCCAUUGCAGAAACUACGAAUUUCCCUUCUUGCCUCG--UUGCAUUUCGUAUCCGUAGUUGCAUGGGGUUAGUUUAUAAAAGUUUUGCUGCCGCAUAUUAAUGUGCAACUCC-AU
....(((.(((((.((...((((((..........(((....--..))).)))))))).))))).)))(((((((..........((.....))...(((((....)))))))))))-). ( -24.70)
>consensus
AAAUUGCCAUUGCAGAAACUCGGAAUUUCCCUUCUUGCCCCAUUUU______CA__________UGCAUGGGGUUAGUUUAUAAAACUUUUGCUGGCACAUAUUAAUGUGCAGCUCC_AU
...((((....))))......(((.........((.(((((((........................))))))).))..............((((.(((((....))))))))))))... (-16.67 = -17.36 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:44 2006