Locus 7394

Sequence ID 3L_DroMel_CAF1
Location 19,867,662 – 19,867,771
Length 109
Max. P 0.864013
window12012

overview

Window 2

Location 19,867,662 – 19,867,771
Length 109
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 75.63
Mean single sequence MFE -26.67
Consensus MFE -18.15
Energy contribution -17.85
Covariance contribution -0.30
Combinations/Pair 1.40
Mean z-score -1.42
Structure conservation index 0.68
SVM decision value 0.84
SVM RNA-class probability 0.864013
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19867662 109 + 23771897
CAGCCUUCAAUCGCAUUGUUCAAUCCGAC-------AUUCCAACAUU-CCGCACUCC---CCAUUGUGUGGCAAUGUGGCCUUUUGGCCCAAUGCUGCCAAUUGUCCCGCCGCUGCACCU
((((........((((((...........-------......(((((-((((((...---.....)))))).)))))((((....)))))))))).((..........)).))))..... ( -31.00)
>DroPse_CAF1 3196 91 + 1
----------CCAUAUUGUUCAUCCA-----------GUGCAGCAAUCCCAGAC---ACCGGAUUGUGUGUCACUGUGGCCUUUUAGCCUGAUGCCGGCAAUUGUCCGCCC-----CCCA
----------..........((((((-----------((((((((((((.....---...))))))).)).))))).(((......))).))))..(((........))).-----.... ( -25.00)
>DroSec_CAF1 2965 111 + 1
CAGCCUUCACCCGCAUUGUUCAAUCCGAC-------AUUCCAACAUU-CCGCACUCCACCGCAUUGUGUGGCAAUGUGGCCUUUU-GCCCGAUGCUGCCAAUUGUCCCGCCGCUGCACCU
((((........((((((...........-------......(((((-((((((...........)))))).)))))(((.....-))))))))).((..........)).))))..... ( -25.20)
>DroSim_CAF1 2954 112 + 1
CAGCCUUCACCCGCAUUGUUCAAUCCGAC-------AUUCCAACAUU-CCGCACUCCACCGCAUUGUGUGGCAAUGUGGCCUUUUGGCCCGAUGCUGCCAAUUGUCCCGCCGCUGCACCU
((((........((((((...........-------......(((((-((((((...........)))))).)))))((((....)))))))))).((..........)).))))..... ( -29.70)
>DroEre_CAF1 2979 111 + 1
UGGCCUUCAUCCGCAUCGUU-AUUCCGACUUUUCGCAUUCC-GCAUU-UCGCAU---ACCGCAUUGUGUGGCAAUGUGGCCUUUUAGCACGAUGCUGCCAAUUGUCCC---GCUGCACCU
((((........(((((((.-............((((((((-((((.-..((..---...))...)))))).))))))((......))))))))).))))........---......... ( -29.30)
>DroYak_CAF1 2895 105 + 1
UGGCCUUCACCCGCAUUGUUCAUUCCGAU-------AUUCU-GCAUU-UCACAU---ACCCCAUUUUGUGGCAAUGUGGCCUUUUAGCCCGAUGCUGCCAAUUGUCCC---GCUGCACCU
.(((......(((((((((((.....)).-------.....-.....-.((((.---.........))))))))))))).......))).(.(((.((..........---)).))).). ( -19.82)
>consensus
CAGCCUUCACCCGCAUUGUUCAAUCCGAC_______AUUCCAACAUU_CCGCAC___ACCGCAUUGUGUGGCAAUGUGGCCUUUUAGCCCGAUGCUGCCAAUUGUCCCGCCGCUGCACCU
............((((((........................(((((.((((((...........)))))).)))))(((......)))))))))......................... (-18.15 = -17.85 +  -0.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:45:53 2006