Locus 8238

Sequence ID 3R_DroMel_CAF1
Location 22,067,791 – 22,067,894
Length 103
Max. P 0.865905
window13283

overview

Window 3

Location 22,067,791 – 22,067,894
Length 103
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.08
Mean single sequence MFE -33.76
Consensus MFE -25.42
Energy contribution -26.22
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -2.18
Structure conservation index 0.75
SVM decision value 0.85
SVM RNA-class probability 0.865905
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22067791 103 - 27905053
AACAUGACCAGCAUG-----------C------UCCCCCGGUGAGCACGUGUCGUGCGCUUGACCACAAAAUGUUGCAUGUUUUCCAGCUGCAACAGUAAAUUCAAUUGCUGCCACAUGA
..((((..(((((((-----------(------(((....).))))).((((((......))).)))....(((((((.((......)))))))))...........)))))...)))). ( -30.30)
>DroSec_CAF1 59787 120 - 1
AACAUGACCAACAAGAGCAGCAAAUGCAACACAUCCCCCGGUGAGCACGUGUCGUGCGCUUGACCACAAAAUGUUGCAUGUUUUCCAGCUGCAACAGUAAAUUCAAUUGCUGCCACAUGA
..((((..........(((((..((((((((((((....)))).(((((...)))))..............))))))))........)))))..((((((......))))))...)))). ( -33.90)
>DroSim_CAF1 52808 120 - 1
AACAUGACCAACAAGAGGAGCAAAUGCAACACAUCCCCCGGUGAGCACGUGUCGUGCGCUUGACCACAAAAUGUUGCAUGUUUUCCAGCUGCAACAGUAAAUUCAAUUGCUGCCACAUGA
..((((..........((((...((((((((((((....)))).(((((...)))))..............))))))))...)))).((.((((..(......)..)))).))..)))). ( -32.30)
>DroEre_CAF1 54298 120 - 1
AACAUGACCAGCCAGAGCAACACAUGCGACACAUCCCCCGGUGAGCACGUGUCGUGCGCUUGACCACAAAAUGUUGCAUGUUUUCCAGCUGCAACAGUAAAUUCAAUUGCUGCCACAUGA
..((((..((((..(((....((((((((((((((....)))).(((((...)))))..............)))))))))).)))..))))...((((((......))))))...)))). ( -35.60)
>DroYak_CAF1 62241 120 - 1
AACAUGGUCAGCAAGAGCAACACAUGCAGCACAUCCCCCGGUGAGCACGUGUCGUGCGCUUGACCACAAAAUGUUGCAUGUUUUCCAGCUGCAACAGUAAAUUCAAUUGCUGCCACAUGA
..(((((.((((((((((.(((((((..((.((((....)))).)).))))).))..))))..........(((((((.((......)))))))))..........)))))).).)))). ( -36.70)
>consensus
AACAUGACCAGCAAGAGCAACAAAUGCAACACAUCCCCCGGUGAGCACGUGUCGUGCGCUUGACCACAAAAUGUUGCAUGUUUUCCAGCUGCAACAGUAAAUUCAAUUGCUGCCACAUGA
..((((..((((((.........................(((.((((((...)))))...).)))......(((((((.((......)))))))))..........))))))...)))). (-25.42 = -26.22 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:06:30 2006