Locus 3330

Sequence ID X_DroMel_CAF1
Location 8,885,468 – 8,885,576
Length 108
Max. P 0.776255
window5454

overview

Window 4

Location 8,885,468 – 8,885,576
Length 108
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 81.46
Mean single sequence MFE -40.64
Consensus MFE -18.84
Energy contribution -19.88
Covariance contribution 1.04
Combinations/Pair 1.16
Mean z-score -2.43
Structure conservation index 0.46
SVM decision value 0.54
SVM RNA-class probability 0.776255
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8885468 108 - 22224390
--GGUCUGGA-GC-------UGAGUUCCGGGGUUUUUGGGUCCGCUUACCUGUGCAUUACCCAUUAGAGCAUCGACUUCGGUUCCGGUUUCCGGUUCUAAAUGGAUCGGUAUAACCUC
--.....(((-((-------((((...((..((((((((((..((........))...)))))..)))))..))..)))))))))((((.(((((((.....)))))))...)))).. ( -39.60)
>DroSec_CAF1 212 107 - 1
--GGUCUGGA-GC-------UGAGUUCCGGGGUU-UUGGGUCCGCUUACCUGUGCAUUACCCAUUAGAGCAUCGACUUCGGAUCCGGUUUCCGGUUCUAAAUGGAUCGGUAUAACCUC
--((((((((-(.-------(((((((..((((.-.((....(((......)))))..))))....)))).))).))))))))).((((.(((((((.....)))))))...)))).. ( -39.80)
>DroEre_CAF1 212 106 - 1
--GAUCUGGA-GU-------UGAGUUCUG-GGUU-CUGGGUCCGCUUACCUGUGCAUUACCCAUUAGAGCAUCGACUUCGGAUCCGGUUUCCGGUUCUAAAUGGAUCGGUAUAACCUC
--((((((((-((-------(((((((((-(...-.(((((..((........))...)))))))))))).))))))))))))).((((.(((((((.....)))))))...)))).. ( -46.60)
>DroYak_CAF1 211 113 - 1
--GGUCUGGA-GCUGAGUUUUGAGUUCUG-GGUU-CUGGGUCCGCUUACCUGUGCAUUACCCAUUAGAGCAUCGACUUCCGAUCCGGUUUCCGGUUCUAAAUGGAUCGGUAUAACCUC
--((((.(((-(.((((((((((....((-(((.-.((....(((......)))))..)))))))))))).))).)))).)))).((((.(((((((.....)))))))...)))).. ( -36.30)
>DroAna_CAF1 239 106 - 1
CGGAUGCGGACAC-------UGAUGCUCG-GGUG-UUCGGGGGACUUACCUGAGCGUUACCCAUUAGAGCAUCC---UCUGCUGCGGCCUCUAGUUCUAGCUUGAUCGGCAGGACCUC
.((.(((((.((.-------.((((((((-((((-((((((.......)))))))...))))....))))))).---..))))))).))....(((((.(((.....))))))))... ( -40.90)
>consensus
__GGUCUGGA_GC_______UGAGUUCCG_GGUU_UUGGGUCCGCUUACCUGUGCAUUACCCAUUAGAGCAUCGACUUCGGAUCCGGUUUCCGGUUCUAAAUGGAUCGGUAUAACCUC
.....................................(((((((.......((((.(((.....))).))))......)))))))((((.(((((((.....)))))))...)))).. (-18.84 = -19.88 +   1.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:41 2006