Locus 6533

Sequence ID 3L_DroMel_CAF1
Location 17,280,215 – 17,280,370
Length 155
Max. P 0.999768
window10612 window10613

overview

Window 2

Location 17,280,215 – 17,280,330
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.75
Mean single sequence MFE -26.42
Consensus MFE -23.82
Energy contribution -23.66
Covariance contribution -0.16
Combinations/Pair 1.04
Mean z-score -1.19
Structure conservation index 0.90
SVM decision value -0.01
SVM RNA-class probability 0.526634
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17280215 115 + 23771897
CAGGAUGAAAUAGCUUGCGCCGCGGA-----GCGAAAAUAAAUAAAUAUUUGGUUAAUUCGAUUUUUAGCUAUGAUUGUCCAAACGCAAUUCUUGUUGAUAUUCAAUAUUCAAGGGUUGC
..(((..(.((((((.......((((-----..((...(((((....))))).))..))))......))))))..)..)))....(((((((((((((.....)))....)))))))))) ( -27.92)
>DroSec_CAF1 164015 115 + 1
CAGGAUGAAAAAGCUUGCGCCGCGGA-----GCGAAAAUAAAUAAAUAUUUGGUUAAUUCAAUUUUUAGCUAUGAUUGUCCAAACGCAAUUCUUGUUGAUAUUCAAUAUUCAAGGGUUGC
..(((..(....((((((...)).))-----)).................(((((((........)))))))...)..)))....(((((((((((((.....)))....)))))))))) ( -24.90)
>DroSim_CAF1 160156 115 + 1
CAGGAUGAAAAAGCUUGCGCCGCGGA-----GCGAAAAUAAAUAAAUAUUUGGUUAAUUCGAUUUUUAGCUAUGAUUGUCCAAACGCAAUUCUUGUUGAUAUUCAAUAUUCAAGGGUUGC
..(((..(....((((((...)).))-----)).................(((((((........)))))))...)..)))....(((((((((((((.....)))....)))))))))) ( -24.90)
>DroEre_CAF1 166953 115 + 1
CAGGAUGGAAAAGCUUGCGCCGCGAA-----GCGAAAAUAAAUAAAUAUUUGGUUAAUUCGAUUUUUAGCUAUGAUUGUCCAAACGCAAUUCUUGUUGAUAUUCAAUAUUCAAGGGUUGC
..(((..(....((((((...)).))-----)).................(((((((........)))))))...)..)))....(((((((((((((.....)))....)))))))))) ( -25.20)
>DroYak_CAF1 171936 120 + 1
CAGGAUGAAAAAGCUUGCGCCGCGAAGCGAAGCGAAAAUAAAUAAAUAUUUGGUUAAUUCGAUUUUUAGCUAUGAUUGUCCAAACGCAAUUCUUGUUGAUAUUCAAUAUUCAAGGGUUGC
..(((..(....((((.(((......))))))).................(((((((........)))))))...)..)))....(((((((((((((.....)))....)))))))))) ( -29.20)
>consensus
CAGGAUGAAAAAGCUUGCGCCGCGGA_____GCGAAAAUAAAUAAAUAUUUGGUUAAUUCGAUUUUUAGCUAUGAUUGUCCAAACGCAAUUCUUGUUGAUAUUCAAUAUUCAAGGGUUGC
..(((..(............(((........)))................(((((((........)))))))...)..)))....(((((((((((((.....)))....)))))))))) (-23.82 = -23.66 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 3

Location 17,280,250 – 17,280,370
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 99.67
Mean single sequence MFE -35.26
Consensus MFE -35.26
Energy contribution -35.26
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -3.44
Structure conservation index 1.00
SVM decision value 4.04
SVM RNA-class probability 0.999768
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17280250 120 + 23771897
AAUAAAUAUUUGGUUAAUUCGAUUUUUAGCUAUGAUUGUCCAAACGCAAUUCUUGUUGAUAUUCAAUAUUCAAGGGUUGCGACUGGGCAUCGCGGCUCGAAAUAAGAAUACAACUCGGCA
...........((((.((((.(((((.(((..((((.(((((..((((((((((((((.....)))....)))))))))))..)))))))))..))).)))))..))))..))))..... ( -35.40)
>DroSec_CAF1 164050 120 + 1
AAUAAAUAUUUGGUUAAUUCAAUUUUUAGCUAUGAUUGUCCAAACGCAAUUCUUGUUGAUAUUCAAUAUUCAAGGGUUGCGACUGGGCAUCGCGGCUCGAAAUAAGAAUACAACUCGGCA
...........((((.((((.(((((.(((..((((.(((((..((((((((((((((.....)))....)))))))))))..)))))))))..))).)))))..))))..))))..... ( -34.70)
>DroSim_CAF1 160191 120 + 1
AAUAAAUAUUUGGUUAAUUCGAUUUUUAGCUAUGAUUGUCCAAACGCAAUUCUUGUUGAUAUUCAAUAUUCAAGGGUUGCGACUGGGCAUCGCGGCUCGAAAUAAGAAUACAACUCGGCA
...........((((.((((.(((((.(((..((((.(((((..((((((((((((((.....)))....)))))))))))..)))))))))..))).)))))..))))..))))..... ( -35.40)
>DroEre_CAF1 166988 120 + 1
AAUAAAUAUUUGGUUAAUUCGAUUUUUAGCUAUGAUUGUCCAAACGCAAUUCUUGUUGAUAUUCAAUAUUCAAGGGUUGCGACUGGGCAUCGCGGCUCGAAAUAAGAAUACAACUCGGCA
...........((((.((((.(((((.(((..((((.(((((..((((((((((((((.....)))....)))))))))))..)))))))))..))).)))))..))))..))))..... ( -35.40)
>DroYak_CAF1 171976 120 + 1
AAUAAAUAUUUGGUUAAUUCGAUUUUUAGCUAUGAUUGUCCAAACGCAAUUCUUGUUGAUAUUCAAUAUUCAAGGGUUGCGACUGGGCAUCGCGGCUCGAAAUAAGAAUACAACUCGGCA
...........((((.((((.(((((.(((..((((.(((((..((((((((((((((.....)))....)))))))))))..)))))))))..))).)))))..))))..))))..... ( -35.40)
>consensus
AAUAAAUAUUUGGUUAAUUCGAUUUUUAGCUAUGAUUGUCCAAACGCAAUUCUUGUUGAUAUUCAAUAUUCAAGGGUUGCGACUGGGCAUCGCGGCUCGAAAUAAGAAUACAACUCGGCA
...........((((.((((.(((((.(((..((((.(((((..((((((((((((((.....)))....)))))))))))..)))))))))..))).)))))..))))..))))..... (-35.26 = -35.26 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:23:17 2006