Locus 5209

Sequence ID 2L_DroMel_CAF1
Location 14,729,947 – 14,730,051
Length 104
Max. P 0.982514
window8293 window8294

overview

Window 3

Location 14,729,947 – 14,730,051
Length 104
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 95.77
Mean single sequence MFE -26.50
Consensus MFE -24.36
Energy contribution -24.24
Covariance contribution -0.12
Combinations/Pair 1.07
Mean z-score -1.67
Structure conservation index 0.92
SVM decision value 1.92
SVM RNA-class probability 0.982514
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14729947 104 + 22407834
CUCCAGAAAUGUGCCAUCCAAUAAGGACAUUAAUGGGGUUCCGCUGUUUUCCAUGAUCAAGACUAGCGACAUCGAUAUGGUCAUGAAGUACAGGAACAUAUCAU
(((((..(((((.((.........)))))))..)))))...(((((((((........))))).)))).....((((((.((.((.....)).)).)))))).. ( -26.30)
>DroSec_CAF1 86792 104 + 1
CUCCAGAAAUGUGCCAUCCAAUAAGGACAUUAAUGGGGUUCCGUGGUUUUCCAUGAUCAACACUAGCGAUAUCGAUAUGGUCAUGAAGUACAGGAACAUAUCAU
.((((..(((((.((.........)))))))..))))(((((.((..((((.(((((((.......((....))...)))))))))))..)))))))....... ( -26.80)
>DroSim_CAF1 87465 104 + 1
CUCCAGAAAUGUGCCAUCCAAUAAGGACAUUAAUGGGGUUCCAUUGUUUUCCAUGAUCAACACUAGCGAUAUCGAUAUGGUCAUGAAGUACAGGAACAUAUCAU
.((((..(((((.((.........)))))))..))))(((((..(((.((.((((((((.......((....))...)))))))).)).))))))))....... ( -25.90)
>DroEre_CAF1 89884 104 + 1
GUCCAGAAAUGUGCCAUCCAAUAAGGACAUUAAUGGGGUUCCGUUGUUUUCCAUUAUCAACACUAGUGAUAUCGAUAUGGUCAUGAAGUACAGGAACAUAUCAU
.((((..(((((.((.........)))))))..))))(((((((((...........))))(((.(((((.........)))))..)))...)))))....... ( -22.90)
>DroYak_CAF1 86496 104 + 1
CUCCAGAAAUGUGCCAUCCAAUAGGGACAUUAAUGGGGUUCCGUUGUUUUCCAUGAUCAACACCAGCGAUAUCGAUAUGGUCAUGAGGUACAGGAACAUAUCAU
.((((..(((((.((........)).)))))..))))(((((..(((.(..((((((((.......((....))...))))))))..).))))))))....... ( -30.60)
>consensus
CUCCAGAAAUGUGCCAUCCAAUAAGGACAUUAAUGGGGUUCCGUUGUUUUCCAUGAUCAACACUAGCGAUAUCGAUAUGGUCAUGAAGUACAGGAACAUAUCAU
.((((..(((((.((.........)))))))..))))(((((...((.((.((((((((.......((....))...)))))))).)).)).)))))....... (-24.36 = -24.24 +  -0.12)

alignment

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secondary structure

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dotplot

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Window 4

Location 14,729,947 – 14,730,051
Length 104
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 95.77
Mean single sequence MFE -24.98
Consensus MFE -22.84
Energy contribution -22.88
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -1.14
Structure conservation index 0.91
SVM decision value 0.07
SVM RNA-class probability 0.566999
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14729947 104 - 22407834
AUGAUAUGUUCCUGUACUUCAUGACCAUAUCGAUGUCGCUAGUCUUGAUCAUGGAAAACAGCGGAACCCCAUUAAUGUCCUUAUUGGAUGGCACAUUUCUGGAG
.......((((((((..(((((((.((....(((.......))).)).)))))))..)))..))))).(((..(((((((.........)).)))))..))).. ( -23.90)
>DroSec_CAF1 86792 104 - 1
AUGAUAUGUUCCUGUACUUCAUGACCAUAUCGAUAUCGCUAGUGUUGAUCAUGGAAAACCACGGAACCCCAUUAAUGUCCUUAUUGGAUGGCACAUUUCUGGAG
.......(((((((...(((((((.....(((((((.....))))))))))))))....)).))))).(((..(((((((.........)).)))))..))).. ( -24.60)
>DroSim_CAF1 87465 104 - 1
AUGAUAUGUUCCUGUACUUCAUGACCAUAUCGAUAUCGCUAGUGUUGAUCAUGGAAAACAAUGGAACCCCAUUAAUGUCCUUAUUGGAUGGCACAUUUCUGGAG
.......((((((((..(((((((.....(((((((.....))))))))))))))..)))..))))).(((..(((((((.........)).)))))..))).. ( -26.00)
>DroEre_CAF1 89884 104 - 1
AUGAUAUGUUCCUGUACUUCAUGACCAUAUCGAUAUCACUAGUGUUGAUAAUGGAAAACAACGGAACCCCAUUAAUGUCCUUAUUGGAUGGCACAUUUCUGGAC
.......((((((((..(((((.....(((((((((.....))))))))))))))..)))..))))).(((..(((((((.........)).)))))..))).. ( -23.90)
>DroYak_CAF1 86496 104 - 1
AUGAUAUGUUCCUGUACCUCAUGACCAUAUCGAUAUCGCUGGUGUUGAUCAUGGAAAACAACGGAACCCCAUUAAUGUCCCUAUUGGAUGGCACAUUUCUGGAG
.......((((((((...((((((.....(((((((.....)))))))))))))...)))..))))).(((..(((((.((........)).)))))..))).. ( -26.50)
>consensus
AUGAUAUGUUCCUGUACUUCAUGACCAUAUCGAUAUCGCUAGUGUUGAUCAUGGAAAACAACGGAACCCCAUUAAUGUCCUUAUUGGAUGGCACAUUUCUGGAG
.......(((((((.....))...((((((((((((.....)))))))).))))........))))).(((..(((((((.........)).)))))..))).. (-22.84 = -22.88 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:43 2006