Locus 5545

Sequence ID 2L_DroMel_CAF1
Location 15,806,981 – 15,807,095
Length 114
Max. P 0.994112
window8796 window8797

overview

Window 6

Location 15,806,981 – 15,807,095
Length 114
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 93.60
Mean single sequence MFE -38.00
Consensus MFE -32.42
Energy contribution -33.22
Covariance contribution 0.80
Combinations/Pair 1.15
Mean z-score -2.20
Structure conservation index 0.85
SVM decision value 2.45
SVM RNA-class probability 0.994112
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15806981 114 + 22407834
GGUGAGUGUGUUUGUUGCUGUCAGUUUGAGUUCCGCUUUUGGGGGACGCUAACUUUCGACUUCCUGUCAAUGGUGACAGCUGCAGCGGUCUAGCUGACCUUUCUCUCCAUCGCC
((.(((...(((.((.((((((((((...(((((.(....).)))))...)))....(((.....))).....))))))).)))))((((.....))))...))).))...... ( -39.40)
>DroSec_CAF1 1508 114 + 1
GGUGAGUGUGUUUGUUGCUGUCAGUUUCAGUUCCGCUUUUGGGGGACGCUAACUUUUGACUUCCUGUCAAUGGUGACAGCUGCAGCGGUCUAGCUGACCUUUCUCUCCAUCGCC
((.(((...(((.((.((((((.......(((((.(....).)))))....(((.(((((.....))))).))))))))).)))))((((.....))))...))).))...... ( -40.90)
>DroSim_CAF1 1520 114 + 1
GGUGAGUGUGUUUGUUGCUGUCAGUUUCAGUUCCGCUUUUGGGGGACGCUAACUUUUGACUUCCUGUCAAUGGUGACAGCUGCAGCGGUCUAGCUGACCUUUCUCUCCAUCGCU
((.(((...(((.((.((((((.......(((((.(....).)))))....(((.(((((.....))))).))))))))).)))))((((.....))))...))).))...... ( -40.90)
>DroEre_CAF1 1513 114 + 1
GGCGAGUGUGUUUGUUGCUGUCAGUUUCAGUUCCGCUUUUGGUGGAUGCCAACUUUUGACUUCCUGUCAAUGGUGACAUCUGCAGCGGUCUAGCUGACCUUUCUCUCCAUCGCU
(((((.((.(...(.....(((((((..((..(((((....(..((((...(((.(((((.....))))).)))..))))..)))))).)))))))))....)...)))))))) ( -36.70)
>DroYak_CAF1 25122 112 + 1
UGUGAGAGUGCUUGUUGCUGUCAGUUUCAGUUCUGCUUUUUG-GGACGCUAACUUUUCACUUCCUUUCAAUAGUGACAGCUGCAGCGGUCUAGCUGACCUUU-UCUCCAUCGCU
((.(((((.(((.((.((((((((((...(((((.......)-))))...))))....(((..........))))))))).)))))((((.....))))..)-))))))..... ( -32.10)
>consensus
GGUGAGUGUGUUUGUUGCUGUCAGUUUCAGUUCCGCUUUUGGGGGACGCUAACUUUUGACUUCCUGUCAAUGGUGACAGCUGCAGCGGUCUAGCUGACCUUUCUCUCCAUCGCU
(((((....(((.((.((((((.......(((((.(....).)))))....(((.(((((.....))))).))))))))).)))))((((.....))))..........))))) (-32.42 = -33.22 +   0.80)

alignment

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secondary structure

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dotplot

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Window 7

Location 15,806,981 – 15,807,095
Length 114
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 93.60
Mean single sequence MFE -30.50
Consensus MFE -26.22
Energy contribution -26.62
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.68
Structure conservation index 0.86
SVM decision value 1.33
SVM RNA-class probability 0.942383
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15806981 114 - 22407834
GGCGAUGGAGAGAAAGGUCAGCUAGACCGCUGCAGCUGUCACCAUUGACAGGAAGUCGAAAGUUAGCGUCCCCCAAAAGCGGAACUCAAACUGACAGCAACAAACACACUCACC
......((.(((...((((.....))))(((((((((((((....)))))).........((((.((...........))..))))....))).))))..........))).)) ( -29.70)
>DroSec_CAF1 1508 114 - 1
GGCGAUGGAGAGAAAGGUCAGCUAGACCGCUGCAGCUGUCACCAUUGACAGGAAGUCAAAAGUUAGCGUCCCCCAAAAGCGGAACUGAAACUGACAGCAACAAACACACUCACC
......((.(((...((((.....))))(((((((((((((....)))))).........((((.((...........))..))))....))).))))..........))).)) ( -30.30)
>DroSim_CAF1 1520 114 - 1
AGCGAUGGAGAGAAAGGUCAGCUAGACCGCUGCAGCUGUCACCAUUGACAGGAAGUCAAAAGUUAGCGUCCCCCAAAAGCGGAACUGAAACUGACAGCAACAAACACACUCACC
......((.(((...((((.....))))(((((((((((((....)))))).........((((.((...........))..))))....))).))))..........))).)) ( -30.30)
>DroEre_CAF1 1513 114 - 1
AGCGAUGGAGAGAAAGGUCAGCUAGACCGCUGCAGAUGUCACCAUUGACAGGAAGUCAAAAGUUGGCAUCCACCAAAAGCGGAACUGAAACUGACAGCAACAAACACACUCGCC
.((((((........((((.....))))(((((((.(((((....)))))(((.((((.....)))).))).((......))........))).))))........)).)))). ( -33.80)
>DroYak_CAF1 25122 112 - 1
AGCGAUGGAGA-AAAGGUCAGCUAGACCGCUGCAGCUGUCACUAUUGAAAGGAAGUGAAAAGUUAGCGUCC-CAAAAAGCAGAACUGAAACUGACAGCAACAAGCACUCUCACA
.......((((-...((((.....))))(((...((((((.((......))..(((....((((.((....-......))..))))...)))))))))....)))..))))... ( -28.40)
>consensus
AGCGAUGGAGAGAAAGGUCAGCUAGACCGCUGCAGCUGUCACCAUUGACAGGAAGUCAAAAGUUAGCGUCCCCCAAAAGCGGAACUGAAACUGACAGCAACAAACACACUCACC
.......(((.....((((.....))))(((((((((((((....)))))).........((((.((...........))..))))....))).))))..........)))... (-26.22 = -26.62 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:47 2006