Locus 5231

Sequence ID 3R_DroMel_CAF1
Location 13,682,239 – 13,682,348
Length 109
Max. P 0.541493
window8534

overview

Window 4

Location 13,682,239 – 13,682,348
Length 109
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 88.13
Mean single sequence MFE -30.72
Consensus MFE -23.59
Energy contribution -26.48
Covariance contribution 2.89
Combinations/Pair 1.13
Mean z-score -2.45
Structure conservation index 0.77
SVM decision value 0.02
SVM RNA-class probability 0.541493
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13682239 109 - 27905053
CAUGUGUAGAGCAGAAACAAAAAUGCGCACAAAAAGUGCUUUUGUGUUUGGGUUUUUAAUGCAUUUUUUAUGCGCUCAAAAUGCGAACACUUCGCGAUUUCAGCGACAG
..(((((.((((((((((..((((((((((.....))))....))))))..))))))...((((.....))))))))....(((((.....)))))......)).))). ( -29.00)
>DroSec_CAF1 9570 106 - 1
CAUGUGUAGAGCAGAAACAAAAAUGCGCACAAAAAGUGCUUUUGUGUUUGGGUUUUUAAUGCAUU---UAUGCGCUCAAAAUGCGAACACAUCGCGAUUUGAGCGACAG
...(((((((((((((((..((((((((((.....))))....))))))..)))))...))).))---)))))(((((((.(((((.....))))).)))))))..... ( -35.20)
>DroSim_CAF1 9618 109 - 1
CAUGUGUAGAGCAGAAACAAAAAUGCGCACAAAAAGUGCUUUUGUGUUUGGGUUUUUAAUGCAUUUUUUAUGCGCUCAAAAUGCGAACACAUCGCGAUUUGAGCGACAG
.(((((((((((..(((((.(((.((((.......)))).))).)))))..)))))..))))))......((((((((((.(((((.....))))).)))))))).)). ( -34.60)
>DroEre_CAF1 4046 109 - 1
CAUGUGUAGGGCAGAAACAAGAAUGCGCACAAAAAGUGCUUUUGUGUUUGGGUUUUUAAUGCAUUUUUUAUGCGCUCAAAAUGCGAACACAUCGCGAUUUGAGCGACAG
...(((((....((((((..((((((((((.....))))....))))))..))))))..)))))......((((((((((.(((((.....))))).)))))))).)). ( -34.30)
>DroYak_CAF1 4245 109 - 1
CAUGUGUAGAGCAGAAACAAAAAUGCGCACAAAAAGUGCUUUUGUGUUUGGGUUUUUAAUGCAUUUUUUAUGCGCUUAAAAUGCGAACACAUCGCGAGUUGAGCGACAG
.(((((((((((..(((((.(((.((((.......)))).))).)))))..)))))..))))))......(((((((((..(((((.....)))))..))))))).)). ( -31.70)
>DroAna_CAF1 8843 92 - 1
CAUGAGUAGAGUGUUGGCAAAA--------AAAAUGGGCUUUUGUGUUUGGCGGUUUAAUGCAUUUUUUAU---------AUGCGAACACAUCGCGAUUUGAGCGUCAG
..(((.....(((((.(((.((--------(((((((((......)))).(((......))))))))))..---------.))).)))))..(((.......)))))). ( -19.50)
>consensus
CAUGUGUAGAGCAGAAACAAAAAUGCGCACAAAAAGUGCUUUUGUGUUUGGGUUUUUAAUGCAUUUUUUAUGCGCUCAAAAUGCGAACACAUCGCGAUUUGAGCGACAG
.(((((((((((..(((((.(((.((((.......)))).))).)))))..)))))..))))))......((((((((((.(((((.....))))).)))))))).)). (-23.59 = -26.48 +   2.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:39 2006