Locus 336

Sequence ID X_DroMel_CAF1
Location 1,057,976 – 1,058,087
Length 111
Max. P 0.859763
window512

overview

Window 2

Location 1,057,976 – 1,058,087
Length 111
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 79.82
Mean single sequence MFE -40.70
Consensus MFE -20.06
Energy contribution -22.32
Covariance contribution 2.25
Combinations/Pair 1.19
Mean z-score -2.64
Structure conservation index 0.49
SVM decision value 0.82
SVM RNA-class probability 0.859763
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1057976 111 - 22224390
AGGACAGGAGCAGGGCCUGCUG---AUGCAGUUCCUUCUGCAAUUGCAUCUCCAGGAUCUCCCUAUCCCUUCUCUGU-UCCUG-GUAACUUCUCUGGGUGGUAGGUUGCUGUUCCU
(((((((((((((((((((..(---((((((((.(....).)))))))))..))))...............))))))-)))))-(((((((..(.....)..)))))))...)))) ( -43.46)
>DroPse_CAF1 12669 97 - 1
-----------------UGCUGCGCCUGAAGCUCCUUCUGCAAGUGCAGCUCCAGGAGUUCUCGUUCCCGUUCCACAUCCCUCUGCGGCUGCUCUGA-U-GAAGCCUUGGGCUCCU
-----------------.(((((((.((.((......)).)).)))))))...((((((((..((..((((.............))))..))((...-.-))......)))))))) ( -28.42)
>DroSec_CAF1 6992 111 - 1
AGGACAGGAGCAGGGCCUGCUG---UUGCAGUUCCUUCUGCAAUUGCAUCUCCAGGAUCUCUCUGUCCCUUCUCUGU-UCCUG-GUAACUUCUCUGGGUGGAAGGUUGCUGUUCCU
(((((((((((((((..(((.(---((((((......))))))).)))......((((......))))...))))))-)))))-(((((((..(.....)..)))))))...)))) ( -44.80)
>DroSim_CAF1 7935 111 - 1
AGGACAGGAGCAGGGCCUGCUG---UUGCAGUUCCUUCUGCAAUUGCAUCUCCAGGAUCUCUCUGUCCCUUCUCUGU-UCCUG-GUAACUUCUCUGGGUGGAAGGUUGCUGUUCCU
(((((((((((((((..(((.(---((((((......))))))).)))......((((......))))...))))))-)))))-(((((((..(.....)..)))))))...)))) ( -44.80)
>DroEre_CAF1 6961 111 - 1
CGGACAGGAUCAGGGCCUGCUG---UUGCAGUUCCUUCUGCAAUUGCAUCUCCAGGAUCUCCCUAUCCCUUCGCUGU-UCCUG-GUAACUCCGCUGGGUGGAGGGUUGCUGAUCCU
.....(((((((((((((((.(---((((((......))))))).)))...((((((.(................).-)))))-)...((((((...)))))))))).)))))))) ( -43.89)
>DroYak_CAF1 9431 111 - 1
CAGACAGGAUGAGGGCCUGCUG---UUGCAGUUCCUUCUGCAAUUGCAGCUCCAGAAUCUCCCUGUCCCGUCGCUGU-UCCUG-GUAACUUCUCUGGGUGGAAGGUUGCUGCUCCU
..((((((..((((..((((.(---((((((......))))))).))))..))....))..))))))..........-....(-(((((((..(.....)..))))))))...... ( -38.80)
>consensus
AGGACAGGAGCAGGGCCUGCUG___UUGCAGUUCCUUCUGCAAUUGCAUCUCCAGGAUCUCCCUGUCCCUUCUCUGU_UCCUG_GUAACUUCUCUGGGUGGAAGGUUGCUGUUCCU
.....((((((((((..(((.....((((((......))))))..)))..))).((((......))))................(((((((..(.....)..)))))))))))))) (-20.06 = -22.32 +   2.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:04 2006