Locus 2017

Sequence ID X_DroMel_CAF1
Location 5,526,928 – 5,527,019
Length 91
Max. P 0.861345
window3281

overview

Window 1

Location 5,526,928 – 5,527,019
Length 91
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 76.04
Mean single sequence MFE -31.68
Consensus MFE -23.26
Energy contribution -23.68
Covariance contribution 0.42
Combinations/Pair 1.23
Mean z-score -1.26
Structure conservation index 0.73
SVM decision value 0.83
SVM RNA-class probability 0.861345
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5526928 91 + 22224390
GCAUGGGUCUCAGCGAGAUGUUGGCCAGGCUGAACCGCAGCCUGGAGCAGCAGGUGCGACAGGUGGG--CUAACUAACUAACUUUCCUA-------ACAC
((((..(((((...)))))((((.((((((((.....))))))))..))))..))))...(((..((--.((......)).))..))).-------.... ( -31.20)
>DroSec_CAF1 16810 88 + 1
GCAUGGGUCUCAGCGAGAUGCUGGCCAGGCUGAACCGUAGCUUGGAGCAGCAGGUGCGACAGGUGGGUGUUAACUA-----GUUUCCUA-------ACAC
.(((..(((...(((...(((((.((((((((.....))))))))..)))))..))))))..))).((((((....-----......))-------)))) ( -30.20)
>DroSim_CAF1 19348 88 + 1
GCAUGGGUCUCAGCGAGAUGCUGGCCAGGCUGAACCGCAGCUUGGAGCAGCAGGUGCGACAGGUGGGGGCUAACUA-----GUUUCCUA-------ACAC
((((..(((((...)))))((((.((((((((.....))))))))..))))..))))....(..((..(((....)-----))..))..-------.).. ( -35.40)
>DroEre_CAF1 17070 93 + 1
GCAUAGGUCUCAGCGAGAUGAUGGCCAGGCUGAAUCGCAGCCUGGAGCAGCAGGUCCGACAGGUGGG--CUAACUG-----AUCGCCUGGCAGUGUGUAU
(((((.(((...((((........((((((((.....))))))))..(((..((((((.....))))--))..)))-----.))))..)))..))))).. ( -36.70)
>DroYak_CAF1 17156 75 + 1
GCAUCGGUCUCAGCGAGAUGCUGGCCAGGCUGAAUCGCAGCUUGGAGCAGCAGGUGCGACAGGUGGG--UUAUC-----------------------GAU
.((((.(((...(((...(((((.((((((((.....))))))))..)))))..)))))).))))..--.....-----------------------... ( -31.10)
>DroAna_CAF1 17357 85 + 1
GCAUGGGCCUCAGCGAGAUGCUGGCCAGGCUGAAUCGGAGUCUGAAAAGGCAUGUGAGACACGUGAGUUCUGGGAA-----AUAUCCUU----------C
((...((((..(((.....)))))))..))......(((((((....)))).(.(.(((.((....))))).).).-----...)))..----------. ( -25.50)
>consensus
GCAUGGGUCUCAGCGAGAUGCUGGCCAGGCUGAACCGCAGCCUGGAGCAGCAGGUGCGACAGGUGGG__CUAACUA_____AUUUCCUA_______ACAC
.(((..(((...(((...(((((.((((((((.....))))))))..)))))..))))))..)))................................... (-23.26 = -23.68 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:14 2006