Locus 1923

Sequence ID X_DroMel_CAF1
Location 5,298,967 – 5,299,084
Length 117
Max. P 0.823439
window3126

overview

Window 6

Location 5,298,967 – 5,299,084
Length 117
Sequences 4
Columns 117
Reading direction reverse
Mean pairwise identity 86.70
Mean single sequence MFE -39.75
Consensus MFE -25.69
Energy contribution -27.25
Covariance contribution 1.56
Combinations/Pair 1.18
Mean z-score -2.58
Structure conservation index 0.65
SVM decision value 0.69
SVM RNA-class probability 0.823439
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5298967 117 - 22224390
UGGGUCUUUGCGGUCGCUCAGAAAAUUAUUUCAAACCACCUGAUAUGGUUAUCAGAAAGGAUCCACCGAUGGCAGCUUGUAACUUUGCCCAUCGUGUUGCAGCUGCAUCGUUUUCUA
(((((((((((....))...((((....)))).......((((((....)))))).))))))))).(((((.(((((.(((((............)))))))))))))))....... ( -35.90)
>DroSec_CAF1 35887 116 - 1
UGGGGCUUUGCGGGCGCUCGGAAAAUUAUUUCAAACCACCUGAUAUGGUUAUCAGAAAGGAGC-GCCUGUGGCAGCUUGUAACUUUGCCCAUCGUGUUGCAGCUGCAUCGUUUUCCA
.((((....((((((((((.((((....)))).......((((((....))))))....))))-)))))).((((((.(((((............)))))))))))......)))). ( -44.60)
>DroSim_CAF1 26712 116 - 1
UGGGGCUUUGCGGGCGCUCGGAAAAUUAUUUCAAACCACCUGAUAUGGUUAUCAGAAAGGAGC-GCCUGUGGCAGCUUGUAACUUUGCCCAUCGUGUUGCAGCUGCAUCGUUUUCCA
.((((....((((((((((.((((....)))).......((((((....))))))....))))-)))))).((((((.(((((............)))))))))))......)))). ( -44.60)
>DroEre_CAF1 37339 115 - 1
UGCAGCCCGGU-AGCGUCCAGAAAAUUAUUUCAAACCACCUGAUAGGGUUAUCAAACAGGGGC-GCCCGUGGCAACUUGUUAUUUUACCCAUCAUGUUGCAGCUGCAUCAUUUUCCG
((((((...((-(((((...((((....)))).........(((.((((.....((((((...-(((...)))..)))))).....)))))))))))))).)))))).......... ( -33.90)
>consensus
UGGGGCUUUGCGGGCGCUCAGAAAAUUAUUUCAAACCACCUGAUAUGGUUAUCAGAAAGGAGC_GCCUGUGGCAGCUUGUAACUUUGCCCAUCGUGUUGCAGCUGCAUCGUUUUCCA
.(((.....((((((((((.((((....)))).......((((((....))))))....)))).)))))).((((((.(((((............))))))))))).......))). (-25.69 = -27.25 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:57 2006