Locus 5709

Sequence ID 3R_DroMel_CAF1
Location 14,933,823 – 14,933,924
Length 101
Max. P 0.800762
window9342

overview

Window 2

Location 14,933,823 – 14,933,924
Length 101
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 84.34
Mean single sequence MFE -35.34
Consensus MFE -22.12
Energy contribution -22.76
Covariance contribution 0.64
Combinations/Pair 1.11
Mean z-score -2.37
Structure conservation index 0.63
SVM decision value 0.62
SVM RNA-class probability 0.800762
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14933823 101 - 27905053
GCAUUUCCAUCGUCAUCGUUUGUGGGGGAGCGCACAAAAUGAAGCUGAUGAUCGUGCCGCAUUUAUGCGCUUCCUAAACAACAACU-------------------GCUGCAUUUUAAAUA
(((...((((((....))...))))(((((((((..(((((..((((.....)).))..))))).)))))))))............-------------------..))).......... ( -26.60)
>DroSec_CAF1 63687 101 - 1
GCAUUUCCAUCGUCAUCGGUUGUGGGGGAGCGCAUAAUAUCAGUUUGAUGAUCGUGCCGCAUUUAUGCGCUUCCUAAACAACAACU-------------------GCUGCAUUUUAAAUA
...........(.((.(((((((.(((((((((((((...(.((.((.....)).)).)...))))))))))))).....))))))-------------------).))).......... ( -31.50)
>DroSim_CAF1 62357 101 - 1
GCAUUUCCAUCGUCAUCGGUUGUGGGGGAGCGCAUAAUAUCAGCUUGAUGAUCGUGCCGCAUUUAUGCGCUUCCUAAACAACAACU-------------------GCUGCAUUUUAAAUA
...........(.((.(((((((.(((((((((((((...(.((.((.....)).)).)...))))))))))))).....))))))-------------------).))).......... ( -33.00)
>DroEre_CAF1 60189 120 - 1
GCAUUUCCAUCCUCAUCGGUUGUGGGGGAGCGCACAAUAUCAGGCUGAUGAUCGUGCCGCAUUUAUGCGCUUCCUAAACAACAACUUGCGGGCUAUUGAGCUGGGGCUGCAUUUUAAAUA
(((.(((((.((.((...(((((.((((((((((.((.....(((((.....)).)))....)).))))))))))..)))))....)).))(((....)))))))).))).......... ( -41.50)
>DroYak_CAF1 67059 118 - 1
GCAUUUCCAUCGUCAUCGGUUGUGG-GGAGCGCAGAGUAUCAGGCUGAUGAUCGUGCCUCACUUAUGCGCUUCCUAAGCAACAACUUGCGGGCUAUUGAGCUGGGGCUGCAUU-UAAAUA
(((.((((..(((.....(((((((-((((((((((((...((((((.....)).)))).)))).))))))))))..))))).....)))((((....)))))))).)))...-...... ( -44.10)
>consensus
GCAUUUCCAUCGUCAUCGGUUGUGGGGGAGCGCACAAUAUCAGGCUGAUGAUCGUGCCGCAUUUAUGCGCUUCCUAAACAACAACU___________________GCUGCAUUUUAAAUA
(((.......((....))(((((.((((((((((.((.....(((((.....)).)))....)).))))))))))..))))).........................))).......... (-22.12 = -22.76 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:02:29 2006