Locus 712

Sequence ID X_DroMel_CAF1
Location 1,965,051 – 1,965,147
Length 96
Max. P 0.684342
window1141

overview

Window 1

Location 1,965,051 – 1,965,147
Length 96
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 78.01
Mean single sequence MFE -36.58
Consensus MFE -17.09
Energy contribution -18.48
Covariance contribution 1.39
Combinations/Pair 1.23
Mean z-score -2.15
Structure conservation index 0.47
SVM decision value 0.31
SVM RNA-class probability 0.684342
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1965051 96 + 22224390
GAAACAUGCCUGCUUUGCCUU--GGCGCGGGCAAACU--------GCUUGCGCCAGGAGCUUCAACC--AGGUCA-AGCAG------UGCAGCAGUUCCAGUUUCAGCGUAAUUC
(((((.(((((((((.(((((--(((((((((.....--------))))))))))((........))--)))).)-)))))------.)))(......).))))).......... ( -39.70)
>DroSec_CAF1 27290 93 + 1
GAAACAUGCCUGCUUUGCCUU--GGCGCGGGCAAACU--------GCUUGCGCCAGGAGCUUCAACC--AGGUCA-AGCAG------UGC---AGUUCCAGUUUCAGCGUAAUUC
(((((.(((((((((.(((((--(((((((((.....--------))))))))))((........))--)))).)-)))))------.))---)......))))).......... ( -40.30)
>DroSim_CAF1 8160 93 + 1
GAAACAUGCCUGCUUUGCCUU--GGCGCGGGCAAACU--------GCUUGCGCCAGGAGCUUCAACC--AGGUCA-AGCAG------UGC---AGUUCCAGUUUCAGCGUAAUUC
(((((.(((((((((.(((((--(((((((((.....--------))))))))))((........))--)))).)-)))))------.))---)......))))).......... ( -40.30)
>DroEre_CAF1 28691 93 + 1
GAGAUAUGCCUGCAUUGCCUC--GGCGCGGGCAAACU--------GCUUGCGGCAGGAGCUUCAACC--AGGUCA-AGCAG------UGC---AGUUCCAGUUUCAGCGUAAUUC
(((((....(((((((((...--(.(((((((.....--------))))))).)..((.((......--)).)).-.))))------)))---)).....))))).......... ( -32.80)
>DroYak_CAF1 28194 93 + 1
GAGACAUGCCUGACUUGCCUC--GGCACGGGCACACU--------GCUUGCGGCAGGAGCUUCAACC--AGGUCA-AGCAG------UGC---AGUUCCAGUUUCAGCGUAAUUC
(((((.((((((...(((...--.)))))))))((((--------(((((.(.(.((........))--.).)))-)))))------)).---.......))))).......... ( -31.50)
>DroPer_CAF1 35990 112 + 1
GGUAUAUGCGUGACCUGUCACCCAGUGCUGCAGAACUAAAGCCGAGGAAGCCGCAGUGGCUCCAACAGCACCUCGUGGCCGUGCGCAAGC---AGUUCAAGCUGCCGUGUAAAUC
(((.((((((((..(.(((((...((((((.....(.......).(((.(((.....))))))..))))))...))))).)..)))..((---(((....))))).))))).))) ( -34.90)
>consensus
GAAACAUGCCUGCUUUGCCUC__GGCGCGGGCAAACU________GCUUGCGCCAGGAGCUUCAACC__AGGUCA_AGCAG______UGC___AGUUCCAGUUUCAGCGUAAUUC
(((((.(((((((...(((....))))))))))......................((((((...((.....))....(((.......)))...)))))).))))).......... (-17.09 = -18.48 +   1.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:51:45 2006