Locus 4480

Sequence ID 3L_DroMel_CAF1
Location 12,970,659 – 12,970,779
Length 120
Max. P 0.538501
window6989

overview

Window 9

Location 12,970,659 – 12,970,779
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.92
Mean single sequence MFE -41.60
Consensus MFE -38.76
Energy contribution -38.40
Covariance contribution -0.36
Combinations/Pair 1.10
Mean z-score -1.07
Structure conservation index 0.93
SVM decision value 0.01
SVM RNA-class probability 0.538501
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12970659 120 + 23771897
CACAUUGGGUUGGGUGGCAAUUUUGGCCGCCUUCCUGCUUCUCAUUCUGGCCAAGAUGAACGACAUUGAGGCGAUACUUGACCAGGUCGAAUGGUCAGCGCUGCUCUUUCUGGCCGCUCU
......(((..(((((((.......))))))).)))............(((((.((((.....))))((((((....(((((((.......))))))))))..)))....)))))..... ( -37.90)
>DroSec_CAF1 88003 120 + 1
CACAUUGGGUUGGGUGGCAAUUUUGGCCGCCUUCCUGCUCUUGAUUCUGGCCAAGAUGAACGACAUCGAAGCGAUACUUGACCAGGUCGAAUGGUCAGCGCUGCUCUUUCUGGCCGCUCU
..((..((((.(((((((.......)))))))....)))).)).....(((((.((((.....))))..((((....(((((((.......)))))))))))........)))))..... ( -40.80)
>DroSim_CAF1 92869 120 + 1
CACAUUGGGUUGGGUGGCAAUUUUGGCCGCCUUCCUGCUCCUCAUUCUGGCCAAGAUGAACGACAUCGAAGCGAUACUUGACCAGGUCGAAUGGUCAGCGCUGCUCUUUCUGGCCGCUCU
......(((..(((((((.......))))))).)))............(((((.((((.....))))..((((....(((((((.......)))))))))))........)))))..... ( -40.10)
>DroEre_CAF1 93515 120 + 1
CACAUUGGGCUGGGUGGCCAUUUUGGCCGCCUUCCUGCUACUCAUUCUGGCCAAGAUGAACGACAUCGAAGCGAUACUUGACCAGGUUGAGUGGUCAGCGCUGCUCUUCCUGGCUGCUUU
........(((((((((((.....))))))).....((((((((..((((.(((((((..((....))...).)).)))).))))..))))))))))))((.(((......))).))... ( -47.30)
>DroYak_CAF1 91951 120 + 1
CACAUUGGGUUGGGUGGCCAUUUUAGCCGCCUUCCUGCUCCUCAUUCUGGCCAAGAUGAACGACAUCGAGGCGAUUCUAGACCAGGUUGAGUGGUCAGCGCUGCUCUUUCUGGCCGCUUU
......(((..(((((((.......))))))).)))((...........(((..((((.....))))..))).......(.(((((..(((..((....))..)))..))))).)))... ( -41.90)
>consensus
CACAUUGGGUUGGGUGGCAAUUUUGGCCGCCUUCCUGCUCCUCAUUCUGGCCAAGAUGAACGACAUCGAAGCGAUACUUGACCAGGUCGAAUGGUCAGCGCUGCUCUUUCUGGCCGCUCU
......(((..(((((((.......))))))).)))............(((((.((((.....))))..((((....(((((((.......)))))))))))........)))))..... (-38.76 = -38.40 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:24:24 2006