Locus 1964

Sequence ID 3R_DroMel_CAF1
Location 5,540,676 – 5,540,796
Length 120
Max. P 0.884846
window3222

overview

Window 2

Location 5,540,676 – 5,540,796
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 94.44
Mean single sequence MFE -24.37
Consensus MFE -21.04
Energy contribution -21.32
Covariance contribution 0.28
Combinations/Pair 1.04
Mean z-score -1.88
Structure conservation index 0.86
SVM decision value 0.93
SVM RNA-class probability 0.884846
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5540676 120 - 27905053
UCCCAUCUACCGACUGCGAAUACUUGUAUCUCUCGGCUGUAUAUCCCUCUUUACUCCAGCAAAUCUAUUUUACGCAGUAAAAUGCUGAUGGCCAUUAAAUCCAAAAAUUUUGGAUUUGUA
..(((((.....((((((.(((....)))......((((.................))))............))))))........)))))....(((((((((.....))))))))).. ( -24.65)
>DroSec_CAF1 21771 120 - 1
UCUCAUCUACCGACUGCGAAUACUUGUAUCUCUCGGCUGUAUAUCCCUCUUUACUCCAGCAAAUCUAUUUUACGCAGUAAAAUGCUGAUGGCCAUUAAAUCCAAAAAUUUUGGAUUUGUA
..(((((.....((((((.(((....)))......((((.................))))............))))))........)))))....(((((((((.....))))))))).. ( -22.25)
>DroSim_CAF1 20176 120 - 1
UCUCAUCUACCGACUGCGAAUACUUGUAUCUCUCGGCUGUAUAUCCCUCUUUACUCCAGCAAAUCUAUUUUACGCAGUAAAAUGCUGAUGGCCAUUAAAUCCAAAAAUUUUGGAUUUGUA
..(((((.....((((((.(((....)))......((((.................))))............))))))........)))))....(((((((((.....))))))))).. ( -22.25)
>DroEre_CAF1 20181 120 - 1
UCUCAUCUACCGACUGCGAAUACAUGUAUAUCUCGGCUGUAUAUCCCAUUGUACUCCAGCAAAUCUAUUUUACGCAGUAAAAUGCUGAUGGCCAUUAAAUCCAAAAAUUUUGGAUUUGUA
..(((((.....((((((.(((....))).....((..(((((......))))).))...............))))))........)))))....(((((((((.....))))))))).. ( -25.02)
>DroYak_CAF1 20136 120 - 1
UCUCAUCUACCAACUGCGAAUACUUGUAUAUCUCGGCUGUAUAUUCCUUUGUACUCCAGCAAAUCUAUUUUACGCAGUAAAAUGCUGAUGGCCAUUAAAUCCAAAAAUUUUGGAUUUGUA
..............(((((....)))))......(((((((((......)))))..(((((......((((((...)))))))))))..))))..(((((((((.....))))))))).. ( -24.50)
>DroAna_CAF1 18680 120 - 1
UCCCAUCUGCCGACAGCUAACACGUGUAUAUCUCGGCUGUAUAUUCCCCUGUACUCCAGCAAAUCAAUUUUACGCAGUAAAAUGCUGAUGGCCAUUAAAUCCAAAAACUUUGGAUUUGUU
........((((.((((....(((((((.......((((..(((......)))...))))..........))))).)).....)))).))))...(((((((((.....))))))))).. ( -27.53)
>consensus
UCUCAUCUACCGACUGCGAAUACUUGUAUAUCUCGGCUGUAUAUCCCUCUGUACUCCAGCAAAUCUAUUUUACGCAGUAAAAUGCUGAUGGCCAUUAAAUCCAAAAAUUUUGGAUUUGUA
..(((((.....((((((.(((....)))......((((.................))))............))))))........)))))....(((((((((.....))))))))).. (-21.04 = -21.32 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:58 2006