Locus 8279

Sequence ID 3R_DroMel_CAF1
Location 22,143,356 – 22,143,472
Length 116
Max. P 0.579494
window13353

overview

Window 3

Location 22,143,356 – 22,143,472
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.07
Mean single sequence MFE -24.08
Consensus MFE -19.60
Energy contribution -20.24
Covariance contribution 0.64
Combinations/Pair 1.04
Mean z-score -1.48
Structure conservation index 0.81
SVM decision value 0.09
SVM RNA-class probability 0.579494
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22143356 116 + 27905053
CAAUCAGACAACCGCAAUAAUGCACCAUCGAAAAUAAGCGAUAUAAAUGUGU----GUGUCUAAAAUACGUUUGCAUUAUAGCUAAUAACCGAUUUGCGUGCCCAACGAACAUAAGCCAA
.............((.(((((((...((((........))))..((((((((----.........))))))))))))))).))..............(((.....)))............ ( -19.20)
>DroSec_CAF1 73728 114 + 1
CAAUCAGACAACCGCAGUAAUGCACCAUCGAAAAUAUGCGAUAUAAAUGUG------UGUUUAAAAUACGUUUGCAUUAUAGCUAAUAACCGAUUUGCGUGCCCAACGCACAUAAGCCAA
.............((.(((((((...((((........))))..(((((((------(.......))))))))))))))).))............(((((.....))))).......... ( -24.40)
>DroSim_CAF1 66757 116 + 1
CAAUCAGACAACCGCAGUAAUGCACCAUCGAAAAUAUGCGAUAUAAAUGUGU----GUGUCUAAAAUACGUUUGCAUUAUAGCUAAUAACCGAUUUGCGUGCCCAACGCACAUAAGCCAA
.............((.(((((((...((((........))))..((((((((----.........))))))))))))))).))............(((((.....))))).......... ( -23.90)
>DroEre_CAF1 69018 116 + 1
CAAUCAGACAACCGCAGUAAUGCACCAUCGAAAAUAUGCGAUAUAAAUGUGU----GUGUAUAAAAUACGUAUGCAUUAUAGCUAAUAACCGAUUUGCGUGCCCAACGCACAUAAGCCAA
.............(((....)))...((((........))))....((((((----((((((...))))(((((((...................)))))))...))))))))....... ( -23.51)
>DroYak_CAF1 66360 120 + 1
CAAUCAGACAACCGCAGUAAUGCACCAUCGAAAAUGUGCGAUAUAAAUGUGUGUGUGUGUAUAAAAUACGUAUGCAUUAUGGCUAAUAACCGAUUUGCGUGCCCAACGCACAUAAGCCAA
.............((.(((.(((((..........))))).)))...(((((((((((((.....))))(((((((...(((.......)))...)))))))...))))))))).))... ( -29.40)
>consensus
CAAUCAGACAACCGCAGUAAUGCACCAUCGAAAAUAUGCGAUAUAAAUGUGU____GUGUAUAAAAUACGUUUGCAUUAUAGCUAAUAACCGAUUUGCGUGCCCAACGCACAUAAGCCAA
.............((.(((((((...((((........))))..((((((((.............))))))))))))))).))............(((((.....))))).......... (-19.60 = -20.24 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:07:44 2006