Locus 4748

Sequence ID X_DroMel_CAF1
Location 12,336,566 – 12,336,658
Length 92
Max. P 0.558573
window7785

overview

Window 5

Location 12,336,566 – 12,336,658
Length 92
Sequences 5
Columns 95
Reading direction forward
Mean pairwise identity 80.92
Mean single sequence MFE -14.86
Consensus MFE -7.02
Energy contribution -7.46
Covariance contribution 0.44
Combinations/Pair 1.07
Mean z-score -2.08
Structure conservation index 0.47
SVM decision value 0.05
SVM RNA-class probability 0.558573
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12336566 92 + 22224390
GCAGGAGAAAUAAUGAGAUUUUAUAUUUUCUCUAUUCUAGAAAGUUUU--UUUCCUCUUCAGCACAGCCUGACCUUUUUUUU-UUUUUGUUCUUC
((((((((((....(((.......(((((((.......)))))))...--....))).((((......)))).......)))-)))))))..... ( -13.34)
>DroSec_CAF1 13507 92 + 1
GCAGGAGAAAUAAUGAGAUUUUAUAUUUUCUUU-UUCUAGAAAGUUUU--CUUCCUCUUCAGCACAGCCUGACCUUUUUUUCAUUUUUGUUCUUC
...((((((..(((((((......(((((((..-....)))))))...--........((((......))))......)))))))....)))))) ( -15.50)
>DroEre_CAF1 13528 88 + 1
GCAGGAGAAAUAAUGAGAUUUUAGAUUUUCUUU-UUCUAGAAAGUUUU--UUUCCUCUUCAGCGCAGCCUGACCUUUUUC----UUCUGUUCCUC
((((((((((....(((.....(((((((((..-....))))))))).--....))).((((......))))....))))----))))))..... ( -22.00)
>DroYak_CAF1 14844 87 + 1
GCAGGAGAAAUAAUGAGAUUUUAUAUUUUCUUU-UUCUAGAAAGUUUUUUUUUCCUCUUCAGCACAGCCUGACCUUUUU-------UCGUUCUUC
...((((((.....((((......(((((((..-....))))))).....))))....((((......)))).......-------...)))))) ( -12.10)
>DroPer_CAF1 27269 75 + 1
GCAAGAGAAAUAAUGAGAUUUUACAUUUUCUUU-UUCUAGAAAGUUUCC-CUUCUUCU-----------UCUUCUUUUC-------UCGUUUAUU
....((((((.((.((((......(((((((..-....)))))))....-.....)))-----------).))..))))-------))....... ( -11.36)
>consensus
GCAGGAGAAAUAAUGAGAUUUUAUAUUUUCUUU_UUCUAGAAAGUUUU__UUUCCUCUUCAGCACAGCCUGACCUUUUU_____UUUUGUUCUUC
.((((.........(((.......(((((((.......))))))).........)))..........))))........................ ( -7.02 =  -7.46 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:23 2006