Locus 3879

Sequence ID 3L_DroMel_CAF1
Location 11,234,199 – 11,234,308
Length 109
Max. P 0.992506
window6035

overview

Window 5

Location 11,234,199 – 11,234,308
Length 109
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 93.00
Mean single sequence MFE -30.11
Consensus MFE -28.02
Energy contribution -27.46
Covariance contribution -0.56
Combinations/Pair 1.09
Mean z-score -1.73
Structure conservation index 0.93
SVM decision value 2.33
SVM RNA-class probability 0.992506
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11234199 109 + 23771897
AC-------CUUUGCUUGGUGUCCAAGUUCAGUGGGCAUCACCACAAGUGCCGGCGAAAUUAUAGCAAUCUCAAUGCCAUGUUUUGUAUUUGCUGGACGUCGAUAAAUAAUGUUUA
..-------.((((.(((..((((.((((..((.(((((........))))).))..))))..(((((...(((.((...)).)))...)))))))))..)))))))......... ( -27.50)
>DroSec_CAF1 42725 109 + 1
AC-------CUUUGCUUGGUGUCCAAGUUCAGUGGGCACCAGCACAAGUGCCGGCGAAAUUAUAGCAAUCUCAAUACCAUGUUUUGUAUUUGCUGGACGUCGAUAAAUAAUGUUUA
..-------(((((((.((((((((.......)))))))))))).)))...(((((......((((((...(((.((...)).)))...))))))..))))).............. ( -30.80)
>DroSim_CAF1 42883 109 + 1
AC-------CUUUGCUUGGUGUCCAAGUUCAGUGGGCACCAGCACAAGUGCCGGCGAAAUUAUAGCAAUCUCAAUACCAUGUUUUGUAUUUGCUGGACGUCGAUAAAUAAUGUUUA
..-------(((((((.((((((((.......)))))))))))).)))...(((((......((((((...(((.((...)).)))...))))))..))))).............. ( -30.80)
>DroEre_CAF1 44490 113 + 1
ACGAGUAUCUUUUGCUUGGUGUCCAAGUUCAGUGGGCAC---CACAAGUGCCGGCGAAAUUAUAGCAAUCUUAAUACCAUGUUUUGCAUUUGCUGGACGUCGAUAAAUAAUGCUUA
..((((((..((((.(((..(((((((((..((.(((((---.....))))).))..))))...((((...............))))......)))))..)))))))..)))))). ( -33.76)
>DroYak_CAF1 45678 105 + 1
AC-------CUUUGCUUGGUGUCCAAGUUCAGUGGGCAC---CACAAGUGCCGGCGAAAUUAUAGCAAUCUUAAUACCA-GUUUUGUAUUUGCUGGACGUCGAUAAAUAAUGUUUA
..-------.((((.(((..((((.((((..((.(((((---.....))))).))..))))..(((((...(((.....-...)))...)))))))))..)))))))......... ( -27.70)
>consensus
AC_______CUUUGCUUGGUGUCCAAGUUCAGUGGGCACCA_CACAAGUGCCGGCGAAAUUAUAGCAAUCUCAAUACCAUGUUUUGUAUUUGCUGGACGUCGAUAAAUAAUGUUUA
..........((((.(((..((((.((((..((.(((((........))))).))..))))..(((((...(((.((...)).)))...)))))))))..)))))))......... (-28.02 = -27.46 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:57 2006