Locus 6569

Sequence ID 2R_DroMel_CAF1
Location 20,528,739 – 20,528,842
Length 103
Max. P 0.726521
window10456

overview

Window 6

Location 20,528,739 – 20,528,842
Length 103
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 71.01
Mean single sequence MFE -27.57
Consensus MFE -11.91
Energy contribution -13.22
Covariance contribution 1.31
Combinations/Pair 1.13
Mean z-score -2.21
Structure conservation index 0.43
SVM decision value 0.41
SVM RNA-class probability 0.726521
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20528739 103 + 20766785
AGCAUUCCAUUUGCAUUUGUUUGCAGCUGUGGA---UGUUAGAGAGGAUAUUUUUUGUCUGUGGAGCAGAUAAUAGC--------------AUUGCAUUUUGCAAUGUGAGUAAUUUUCU
(((((((((.(((((......))))).)).)))---))))((((((..(((((.(((((((.....)))))))..((--------------(((((.....)))))))))))).)))))) ( -32.70)
>DroSim_CAF1 30467 103 + 1
AGCAUUCCAUUUGCAUUCGCUUGCAGCUGUGGA---UGUUCGAGAGGAUAUUUUUUGUCUCUAGAGCAGAUAAUAGC--------------AUUGCAUUUUGCAAUGUGAGUAAUUUUCU
.(((.......)))....(((..(.(((((...---(((((.((((.(((.....))))))).)))))....)))))--------------(((((.....))))))..)))........ ( -30.40)
>DroEre_CAF1 31179 109 + 1
--------AUUUGCAUUCGUUUGCAGCUGCGGCUAACAUC---CAGUGAAUUUUUUAUCAGCUGAGCAGAUAAUAGCAUCAGCAUACGUACAUUGCAUUUUCCAAUGUGAGCAAUUUUCC
--------..((((...(((.(((.(((.(((((.((...---..))((........)))))))))).(((......))).))).)))(((((((.......))))))).))))...... ( -23.90)
>DroYak_CAF1 31086 107 + 1
AGCAUUCCAUUUGCAUUCUUUUGCAACUGUGGA---CGUUAG-AAGUG-AUUUUUGAUCAGCAGAGCAGAUAAUAGCAUAAGC---UAUACAUUGCAUUUUCCAAUGUGAGUAGA-----
.((...(((((((((......)))))..))))(---((((.(-(((((-(((...))))).....((((...(((((....))---)))...))))..)))).)))))..))...----- ( -23.30)
>consensus
AGCAUUCCAUUUGCAUUCGUUUGCAGCUGUGGA___CGUUAG_GAGGAUAUUUUUUAUCAGCAGAGCAGAUAAUAGC______________AUUGCAUUUUCCAAUGUGAGUAAUUUUCU
.....((((((((((......)))))..))))).....................((((((((...))))))))...................(..((((....))))..).......... (-11.91 = -13.22 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:01 2006