Locus 7521

Sequence ID 3L_DroMel_CAF1
Location 20,213,805 – 20,213,914
Length 109
Max. P 0.669256
window12230

overview

Window 0

Location 20,213,805 – 20,213,914
Length 109
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 84.47
Mean single sequence MFE -37.58
Consensus MFE -22.16
Energy contribution -24.36
Covariance contribution 2.20
Combinations/Pair 1.18
Mean z-score -2.33
Structure conservation index 0.59
SVM decision value 0.29
SVM RNA-class probability 0.669256
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20213805 109 + 23771897
CUGCAAUUGCGAUUCUGAU------UCUGAUUCCAAUUGCGAUGGCGAUGGCGCGGCAGAUGGCUCCUAGCCCAAUCCCUCAUGAAAGGAGCGUCAUUUGUUUAGCUUUCAUCGC
.((((((((.((.((....------...)).))))))))))...(((((((.((.(((((((((((((..(............)..))))))..)))))))...))..))))))) ( -36.10)
>DroSec_CAF1 27539 115 + 1
CUGCAAUUGCGAUUCUGAUUCUGAUUCUGAUUCCAAUUGCGAUGGCGAUGACGCGGCAGAUGGCUCCUAGCCCAAUCCCUCAUGGAAGAGGCGUCAUUUGUUUAGCUCUCAUCGC
.((((((((.((.((.((.......)).)).))))))))))...(((((((.((.(((((((((.(((...(((........)))...))).)))))))))...))..))))))) ( -42.40)
>DroSim_CAF1 22511 109 + 1
CUGCAAUUGCGAUUCUGAU------UCUGAUUCCAAUUGCGAUGGCGAUGACGCGGCAGAUGGCUCCUAGCCCAAUCCCUCAUGGAAGAGGCGUCAUUUGUUUAGCUCUCAUCGC
.((((((((.((.((....------...)).))))))))))...(((((((.((.(((((((((.(((...(((........)))...))).)))))))))...))..))))))) ( -41.30)
>DroEre_CAF1 23246 109 + 1
CUGCAAUUGCGAUUCUGAU------UCCAAUUGCGAUGGCGAUGGUGAUGGCGAGGCGGAUAGCUCCUAUCCCAAUCGCUCAUGGAAGGCGUGCCAUUUGUUUAGCUCUCAUCGC
..(((((((.((.......------)))))))))(((((((((((.(((((.(((.(.....))))))))))).)))))..(..((.((....)).))..)........)))).. ( -34.80)
>DroYak_CAF1 36359 97 + 1
CUGCAAUUGCGAUUCUGAU------UCCAAUUGCGAUG------------GCAAGGCAGAUGGCUCCUAUCCCAAUCGCUCAUGGAAGGAGUGUCAUUUGUUUAGCUCUCAUCGC
..(((((((.((.......------)))))))))((.(------------((.(((((((((((((((.(((...........)))))))))..))))))))).))).))..... ( -33.30)
>consensus
CUGCAAUUGCGAUUCUGAU______UCUGAUUCCAAUUGCGAUGGCGAUGGCGCGGCAGAUGGCUCCUAGCCCAAUCCCUCAUGGAAGGAGCGUCAUUUGUUUAGCUCUCAUCGC
..(((((((.((((..((.......)).)))).)))))))....(((((((.((.(((((((((((((...(((........))).))))))..)))))))...))..))))))) (-22.16 = -24.36 +   2.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:49:21 2006