Locus 9415

Sequence ID 3R_DroMel_CAF1
Location 24,938,690 – 24,938,796
Length 106
Max. P 0.703863
window15084

overview

Window 4

Location 24,938,690 – 24,938,796
Length 106
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 80.51
Mean single sequence MFE -34.70
Consensus MFE -20.56
Energy contribution -21.48
Covariance contribution 0.92
Combinations/Pair 1.22
Mean z-score -1.93
Structure conservation index 0.59
SVM decision value 0.36
SVM RNA-class probability 0.703863
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24938690 106 - 27905053
UGUGGGCACACUUGG-AGCUUACCAGGGCUGCCAAAUAAAUCACUGUUAAGUGGGACUAGUGUUGGCCACU-----------CUAGAUUUGGCUAAAUUCAUACUGUGUUAGCUGGAU
.((((.(((((((((-(((((....))))).)))).....(((((....))))).....))).)).)))).-----------....(((..(((((...(.....)..)))))..))) ( -33.60)
>DroSec_CAF1 3058 106 - 1
UGUGGGCACACUUGG-AGCUUACCAGGGCUGCCAGAGAAAUCACUUUUAAGUGGGACUAGUGUUGUCCACU-----------CUAGAUUUGGCUACAUUCAUAACGUGUUAGCUGGAA
.((((((((((((((-(((((....))))).))).((...(((((....)))))..)))))).))))))).-----------.....((..(((((((.......))).))))..)). ( -34.10)
>DroSim_CAF1 2955 106 - 1
UGUGGGCACACUUGG-AGCUUGCCAGGGCUGCCAGAGAAAUCACUUUUAAGUGGGACUAGUGUUGUCCACU-----------CUAGAUUUGGCUACAUUCAUACCGUGUUAGCUGGAA
.((((((((((((((-(((((....))))).))).((...(((((....)))))..)))))).))))))).-----------.....((..(((((((.......))).))))..)). ( -34.40)
>DroEre_CAF1 3046 118 - 1
UGCGGGCACACUUGGAAGUUUACCAGGGAUGCCAAAGAAAUCACUUUGUAGUGAGACUAGUGUUGGCCAUGCUAUUUUGUAGCUACAUUUGGCUAAAUUUGUAUCACUUUCGCUGGAA
.(((((((..(((((.......)))))..))))................(((((.((.....(((((((.(((((...)))))......)))))))....)).)))))..)))..... ( -35.80)
>DroYak_CAF1 3032 118 - 1
UGUGGGCACACUUGGAAGCAUACCAGGGAUGCCAAAGAAAUCACUGUGAAGUGUGACUAGUGCUGGUCAUUUUAUUUUGUAGCUAAAUUUGGCUACACUCGUAGCCUGUUAUAUGGAA
....((((..(((((.......)))))..))))..........(((..(((((((((((....)))))))...))))..)))(((.((..((((((....))))))....)).))).. ( -35.60)
>consensus
UGUGGGCACACUUGG_AGCUUACCAGGGCUGCCAAAGAAAUCACUUUUAAGUGGGACUAGUGUUGGCCACU___________CUAGAUUUGGCUACAUUCAUACCGUGUUAGCUGGAA
.((((.(((((((((.(((((....))))).)))).....(((((....))))).....))).)).)))).................((..(((((((.......))).))))..)). (-20.56 = -21.48 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:34:11 2006