Locus 1543

Sequence ID 3R_DroMel_CAF1
Location 4,416,354 – 4,416,453
Length 99
Max. P 0.644665
window2553

overview

Window 3

Location 4,416,354 – 4,416,453
Length 99
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 79.19
Mean single sequence MFE -28.04
Consensus MFE -15.82
Energy contribution -17.05
Covariance contribution 1.23
Combinations/Pair 1.25
Mean z-score -1.82
Structure conservation index 0.56
SVM decision value 0.23
SVM RNA-class probability 0.644665
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4416354 99 + 27905053
CGUUCAAUCGUCUGAAUGCUGAA--CGGUAAAUCGAGUAAACAAGAGUGGGCGGAGGUGGUCUGAAUAAUUUAUGACCGCCCAUUAAUUAUUACUCAU------AGA
((((((..(((....))).))))--)).......((((((.....(((((((((..((((..........))))..))))))))).....))))))..------... ( -29.60)
>DroPse_CAF1 25118 96 + 1
CAUCCAUUCGCCUGAAUGGAAAC--CUGUGAGUCGGGCAAACCCGAGUGGAUGGGG-U-CUC-UGAUAAUUUAUGGCCGUCACUUAAUUAUUAUUCAU------AUA
..(((((((....)))))))...--.(((((((.(((....)))((((((....((-(-(..-(((....))).)))).)))))).......))))))------).. ( -26.10)
>DroSim_CAF1 19060 99 + 1
CGUUCAAUCGUCUGAAUGCUGAA--CGGUAAAUCGAGUAAACAAGAGUGGGCGGAGGUGGUCUGAAUAAUUUAUGACCGCCCAUUAAUUAUUACUCAU------AGA
((((((..(((....))).))))--)).......((((((.....(((((((((..((((..........))))..))))))))).....))))))..------... ( -29.60)
>DroEre_CAF1 17152 105 + 1
CGCUCAAUCGCCUGAAUGCUGAA--CGGUAAAUCGAGUAAACAAGUGUGGGCGGUGGAGGUCUGAAUAAUUUAUGGCCGCCCAUUAAUUAUUACUCAUACUCAUGGA
..........(((((.((((...--.))))....((((((......(((((((((.(((((.......)))).).)))))))))......))))))....))).)). ( -28.90)
>DroYak_CAF1 17559 99 + 1
CGUUCAAUCGCCUGAAUGCUGAA--CGGUAAAUCGAGUAAAUAAGUGUGGGCGGAGGUGGUCUAAAUAAUUUAUGACCGCCCAUUAAUUAUUACUCAU------AGA
((((((...((......))))))--)).......((((((.(((..((((((((..((((..........))))..))))))))...)))))))))..------... ( -30.10)
>DroAna_CAF1 22693 98 + 1
CGACCAAUCGUCCGAGUAGGGAAAUCGGUAAAUCGAGUAAGCGACUGUGGGCGGAG---AACUGGAUAAUUUAUGGCAGCCCAUUAAUUAUUAGCCAU------GGA
...(((.((((((((((.......((((....)))).......))).)))))))..---.....(((((((.((((....)))).))))))).....)------)). ( -23.94)
>consensus
CGUUCAAUCGCCUGAAUGCUGAA__CGGUAAAUCGAGUAAACAAGAGUGGGCGGAGGUGGUCUGAAUAAUUUAUGACCGCCCAUUAAUUAUUACUCAU______AGA
((((((......))))))................((((((......((((((((......................))))))))......))))))........... (-15.82 = -17.05 +   1.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:09 2006