Locus 1811

Sequence ID 2R_DroMel_CAF1
Location 6,788,876 – 6,788,971
Length 95
Max. P 0.946608
window3002

overview

Window 2

Location 6,788,876 – 6,788,971
Length 95
Sequences 4
Columns 107
Reading direction forward
Mean pairwise identity 89.60
Mean single sequence MFE -26.90
Consensus MFE -22.58
Energy contribution -23.33
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -2.22
Structure conservation index 0.84
SVM decision value 1.36
SVM RNA-class probability 0.946608
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6788876 95 + 20766785
UAAAAAUUAGCAAGCAA------GCAACUGCUGCUGGUGGUGCUCGUAAAUUGGAAUCCAAUCGAAACGCUCAACGCUCGAGCGCAUCAUCAUCAUUCA------GC
........((((.(((.------.....)))))))(((((((((((...(((((...))))))))...((((.......))))))))))))........------.. ( -27.60)
>DroSec_CAF1 39024 95 + 1
UAAAAAUUAGCAAGCAA------GCAACUGCUGCUGGUGGUGCUCGUAAAUUGGAAUCCAAUCGAAACGCUCAACGCUCGAGCGCAUCAUCAUCAUUCA------GC
........((((.(((.------.....)))))))(((((((((((...(((((...))))))))...((((.......))))))))))))........------.. ( -27.60)
>DroSim_CAF1 47937 95 + 1
UAAAAAUUAGCAAGCAA------GCAACUGCUGCUGGUGGUGCUCGUAAAUUGGAAUCCAAUCGAAACGCUCAACGCUCGAGCGCAUCAUCAUCAUUCA------GC
........((((.(((.------.....)))))))(((((((((((...(((((...))))))))...((((.......))))))))))))........------.. ( -27.60)
>DroYak_CAF1 46800 100 + 1
UAAAAAUUAGCAAGCAACUGCUG-------CUGCUGGUGGUGCUCGUAAAUUGGAUUCCAAUCGAAACCCUCAACGCUCGAGCGCAUCAUCAUCAUUCAGCUUCAGC
.................(((..(-------(((.((((((((((((...(((((...))))))))..........((....))))))))))).....))))..))). ( -24.80)
>consensus
UAAAAAUUAGCAAGCAA______GCAACUGCUGCUGGUGGUGCUCGUAAAUUGGAAUCCAAUCGAAACGCUCAACGCUCGAGCGCAUCAUCAUCAUUCA______GC
........((((.(((............)))))))(((((((((((...(((((...))))))))...((((.......))))))))))))................ (-22.58 = -23.33 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:39 2006