Locus 4213

Sequence ID 3R_DroMel_CAF1
Location 11,358,567 – 11,358,687
Length 120
Max. P 0.831315
window6803

overview

Window 3

Location 11,358,567 – 11,358,687
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.83
Mean single sequence MFE -44.32
Consensus MFE -40.46
Energy contribution -40.42
Covariance contribution -0.04
Combinations/Pair 1.12
Mean z-score -1.33
Structure conservation index 0.91
SVM decision value 0.72
SVM RNA-class probability 0.831315
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11358567 120 - 27905053
CCUCAUCCAGGAGGCCUACAACCGCAAGAUCAAUCUGAUCGCCAGCGAUCAGUGCAAGCAGGGCGACAUGGAUCCGUACUCCGUAUGCGGUCUCUGCCUCACCGAGGUGGAGUUGGAUGU
...((((((((((((((.....(....)......(((((((....)))))))........))))...(((....))).)))).........(((..((((...))))..))).)))))). ( -44.20)
>DroSec_CAF1 106115 120 - 1
CCUCAUCCGGGAGGCCUACAACCGCAAGAUCAAUCUGAUCGCCAGCGAUCAGUGCAAGCAGGGCGACAUGGAUCCGUACUCUGUAUGCGGUCUCUGCCUCACCGAGGUAGAGUUGGAUGU
...(((((((..........((((((........(((((((....))))))).....((((((....(((....))).)))))).))))))(((((((((...)))))))))))))))). ( -46.50)
>DroSim_CAF1 96897 120 - 1
CCUCAUCCAGGAGGCCUACAACCGCAAGAUCAAUCUGAUCGCCAGCGAUCAGUGCAAGCAGGGCGACAUGGAUCCGUACUCCGUAUGCGGUCUCUGCCUCACCGAGGUGGAGUUGGAUGU
...((((((((((((((.....(....)......(((((((....)))))))........))))...(((....))).)))).........(((..((((...))))..))).)))))). ( -44.20)
>DroEre_CAF1 93542 120 - 1
UCUCAUCAAGGAGGCCUUCAACCGCAAGAUCAAUCUGAUCGCCAGCGAUCAGUGCAAGCAGGGCGACAUGGAUCCGUACUCCGUGUGCGGUCUCUGCCUAACCGAGGUGGAGCUGGAUGU
...((((..((((((((((...(....)......(((((((....))))))).....).)))))...(((....))).)))).....(((.(((..(((.....)))..)))))))))). ( -42.80)
>DroYak_CAF1 96220 120 - 1
UCUCAUCAAGGAGGCCUACAACCGCAAGAUCAAUCUGAUUGCCAGCGAUCAGUGCAAGCAGGGCGACAUGGAUCCGUACUCCGUGUGCGGCCUCUGCCUCACCGAGGUGGAGUUGGAUGU
...((((..(((((((.....((((..(......(((((((....)))))))..)..)).))((.(((((((.......))))))))))))))))((..(((....)))..))..)))). ( -43.90)
>consensus
CCUCAUCCAGGAGGCCUACAACCGCAAGAUCAAUCUGAUCGCCAGCGAUCAGUGCAAGCAGGGCGACAUGGAUCCGUACUCCGUAUGCGGUCUCUGCCUCACCGAGGUGGAGUUGGAUGU
...((((((((((((((.....(....)......(((((((....)))))))........))))...(((....))).)))).........(((((((((...))))))))).)))))). (-40.46 = -40.42 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:21:55 2006