Locus 1284

Sequence ID 2R_DroMel_CAF1
Location 5,024,830 – 5,024,928
Length 98
Max. P 0.974648
window2223

overview

Window 3

Location 5,024,830 – 5,024,928
Length 98
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 75.98
Mean single sequence MFE -28.00
Consensus MFE -10.59
Energy contribution -11.65
Covariance contribution 1.06
Combinations/Pair 1.20
Mean z-score -2.89
Structure conservation index 0.38
SVM decision value 1.73
SVM RNA-class probability 0.974648
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5024830 98 - 20766785
AAAAAAUGCCAGUGGGCGAUGAGCCAAAAAGG-CAAU-GGCAGAAAAAACGCCAUUUGAAUACUUAUUGUGCAGGGAAUG----CCAUAGAAAUGGUGGCCCGA
......((((((((((......(((.....))-)(((-(((.........))))))......))))))).)))(((...(----((((....)))))..))).. ( -30.40)
>DroPse_CAF1 12679 84 - 1
GGAAUUGCCAAAUUGGUACG---------------CU-GCCAAAAAAUACGGCAUCUGAAUACUUAUUGUGCAGAGCCUU----CCAAUGGAAUAAUGCUCCUA
((((........(((((...---------------..-))))).......(((.((((..(((.....))))))))))))----))...(((.......))).. ( -19.10)
>DroSec_CAF1 4838 98 - 1
GAAAAAUGUCAGUGGGCGAUGAGCCAAAAAGG-CAAU-GGCAGAAAAAAGGCCAUCCGAAUACUUAUUGUGCAGGGAAUG----CCAUAGAAAUGGUGGCCCGA
............((.((((((((((.....))-).((-(((.........)))))........))))))).))(((...(----((((....)))))..))).. ( -27.80)
>DroSim_CAF1 4857 98 - 1
GAAAAAUGCCAGUGGGCGAUGAGCCAAAAAGG-CAAU-GGCAGAAAAAAGGCCAUUUGAAUACUUAUUGUGCAGGGAAUG----CCAUAGAAAUGGUGGCCCGA
......((((((((((......(((.....))-)(((-(((.........))))))......))))))).)))(((...(----((((....)))))..))).. ( -30.30)
>DroEre_CAF1 4895 101 - 1
GAAAAAUGCCAGUGGGCGAUGAGCCAAAAAAGAUGGGCGGC---GAAAACGCCAUUUGAAUACUUAUUGUGCAGGGAGUGUGCACCAUGGAAAUGGUGGCCCCA
......((((((((((......(((..........)))(((---(....)))).........))))))).)))(((.((...((((((....))))))))))). ( -34.60)
>DroYak_CAF1 4982 98 - 1
GAAAAAAGCCAAUGGGCGAUGAGCCAAAAAAGGCAGG-GGCA-AAAAAACGCCAUUUGAAUACUUAUUGUGCAGGGAAUG----CCAUAGAAAUGGGGCCCAGA
.......(((((((((......(((......)))...-(((.-.......))).........))))))).)).(((....----((((....))))..)))... ( -25.80)
>consensus
GAAAAAUGCCAGUGGGCGAUGAGCCAAAAAGG_CAAU_GGCAGAAAAAACGCCAUUUGAAUACUUAUUGUGCAGGGAAUG____CCAUAGAAAUGGUGGCCCGA
.......((((((((((.....))).............(((.........)))...........))))).)).(((........((((....))))...))).. (-10.59 = -11.65 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:55 2006