Locus 1340

Sequence ID 2R_DroMel_CAF1
Location 5,165,443 – 5,165,542
Length 99
Max. P 0.607177
window2319

overview

Window 9

Location 5,165,443 – 5,165,542
Length 99
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 91.85
Mean single sequence MFE -40.55
Consensus MFE -33.28
Energy contribution -34.50
Covariance contribution 1.22
Combinations/Pair 1.03
Mean z-score -1.98
Structure conservation index 0.82
SVM decision value 0.15
SVM RNA-class probability 0.607177
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5165443 99 + 20766785
GGCCAGCUGCAGGAUGCUUCGAGUCCUGCCACUGGAGCCCCCUGCAGUCUCAGCAGAAAUCUGCAUCUGUCUGUGUCAGAGUCGCUGUCCUGGGGAGUA
..((((..(((((((.......)))))))..)))).((((((.(((((..(.((((....)))).((((.......)))))..)))))...)))).)). ( -41.10)
>DroSec_CAF1 41081 99 + 1
GGCCAGCUGCAGGAUGCUUCGAGUCCUGCCACUGGAGCCCCCUGCAGCCUCAGCAGAAAUCUGCAUCUGUCUGUGUCAGAGUCGCUGUCCUGGGGAGGA
..((((..(((((((.......)))))))..))))...((((.(((((..(.((((....)))).((((.......)))))..)))))...)))).... ( -42.10)
>DroSim_CAF1 27630 99 + 1
GGCCAGCUGCAGGAUGCUUCGAGUCCUGCCACUGGAGCCCCCUGCAGCCUCAGCAGAAAUCUGCAUCUGUCUGUGUCAGAGUCGCUGUCCCGGGGAGUA
..((((..(((((((.......)))))))..)))).((((((.(((((..(.((((....)))).((((.......)))))..)))))...)))).)). ( -42.50)
>DroEre_CAF1 43008 99 + 1
GGCCAGCUGCAGGAUGCUUCGAGUCCUGCCACUGGAGCCCCCUGCAGCCUCAGCAGAAAUCUGCAUCUGUCUGUGUCACAGUCGCUGUGCUGGAGAGUA
.....((((((((..(((((.(((......))))))))..))))))))....((((....))))..((.((((.(.(((((...)))))))))).)).. ( -38.10)
>DroYak_CAF1 41346 99 + 1
GGCCAGCUGCAGGAUUCUUCGAGUCCUGCCACUGGAGCCCCCUGCAGCCUCAGCAGAAAUCUGCAUCUGUCUGUGUCAGAGUCGCUGUCCUGGGGAGUA
..((((..(((((((((...)))))))))..)))).((((((.(((((..(.((((....)))).((((.......)))))..)))))...)))).)). ( -45.60)
>DroAna_CAF1 62911 97 + 1
-ACCAGCAGGAGGAUCCUGCAAGUCCUGCCAAUGGAGCC-CCUGCUGCCUCAGCAGAAAUCUGCAUCUGUCCGUGUCAGAGUCCCUAUCUGGGUGUGAA
-..(((((((.((.(((.(((.....)))....))).))-)))))))..(((((((....)))).((((.......))))..(((.....)))..))). ( -33.90)
>consensus
GGCCAGCUGCAGGAUGCUUCGAGUCCUGCCACUGGAGCCCCCUGCAGCCUCAGCAGAAAUCUGCAUCUGUCUGUGUCAGAGUCGCUGUCCUGGGGAGUA
..((((..(((((((.......)))))))..))))...((((.(((((..(.((((....)))).((((.......)))))..)))))...)))).... (-33.28 = -34.50 +   1.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:36 2006