Locus 4263

Sequence ID X_DroMel_CAF1
Location 11,204,387 – 11,204,488
Length 101
Max. P 0.513226
window7005

overview

Window 5

Location 11,204,387 – 11,204,488
Length 101
Sequences 5
Columns 102
Reading direction forward
Mean pairwise identity 73.06
Mean single sequence MFE -20.32
Consensus MFE -3.18
Energy contribution -4.02
Covariance contribution 0.84
Combinations/Pair 1.07
Mean z-score -1.47
Structure conservation index 0.16
SVM decision value -0.04
SVM RNA-class probability 0.513226
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11204387 101 + 22224390
CCCGAAAAUCGAUAGCAACGAACGUUCGAUAACUGUUCGAUAAGCACG-CCAAAGCAAACUAUCGCUUUCAUUCCAGAAAGGUCGCGAAACCAAUAGGUUCU
.((((....((((((...((((((((....))).)))))....((...-.....))...))))))(((((......))))).))).).((((....)))).. ( -20.60)
>DroSec_CAF1 537 99 + 1
CCCGAAAAUCGAUAGCAACGAACGUGCGU--GCUGUUCGAUAAGCACG-CCAAGGCAAUUUAUCGCUUUCUUUCCAGAAAGUUCGCCAAGCCAAUAAGUUCU
..((.....))........(((((.((((--(((........))))))-))..(((........(((((((....))))))).......))).....)))). ( -27.36)
>DroSim_CAF1 525 99 + 1
CCCGAAAAUCGAUAGCAACGAACGUGCGU--GCUGUUCGAUAAGCACG-CCAAGGCAAUUUAUCGCUUUCUUUCCAGAAAGUUCGCCAAGCCAAUAAGUUCU
..((.....))........(((((.((((--(((........))))))-))..(((........(((((((....))))))).......))).....)))). ( -27.36)
>DroEre_CAF1 961 88 + 1
CCCGAAAAUCGAUAGAC-----------C--CCUUAUCGAACAACAAG-CCAAAUCAAAUUAUCGAUUUCUUGCCAGAAAGUUCGCGUAGACUAUACAUUUU
..((((..(((((((..-----------.--..)))))))....((((-..(((((........)))))))))........)))).(((.....)))..... ( -12.90)
>DroYak_CAF1 593 89 + 1
CCCACAAACCGAUAGAG-----------C--CCUUAUCGAAAAUCAAAUCUAAAGCGAAUUAUCGAUUUCUUGCCAGAAAAUUCGUGUAGACUAAAAAUUUU
.........((((((..-----------.--..)))))).........((((..(((((((.((............)).))))))).))))........... ( -13.40)
>consensus
CCCGAAAAUCGAUAGCAACGAACGU_CGC__CCUGUUCGAUAAGCACG_CCAAAGCAAAUUAUCGCUUUCUUUCCAGAAAGUUCGCGAAGCCAAUAAGUUCU
..((((...((((((............................................))))))(((((......)))))))))................. ( -3.18 =  -4.02 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:36 2006