Locus 2676

Sequence ID 3R_DroMel_CAF1
Location 7,189,972 – 7,190,102
Length 130
Max. P 0.933319
window4340 window4341

overview

Window 0

Location 7,189,972 – 7,190,072
Length 100
Sequences 5
Columns 106
Reading direction reverse
Mean pairwise identity 91.80
Mean single sequence MFE -26.57
Consensus MFE -21.66
Energy contribution -22.06
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.30
Structure conservation index 0.82
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7189972 100 - 27905053
GGCAGUAACCCCCCAUGCCAGCAAUCCAACGCA------GCCCAACCCAUUGAGUCCACCUCCUCCGCGGUGGAUGACGCUUCUGACAGCUCGUCAGCUGGCAUCA
..............((((((((........(.(------((.(((....))).(((((((........)))))))...))).)((((.....)))))))))))).. ( -30.00)
>DroSec_CAF1 30717 98 - 1
GGCAGUAACC--CCAUUCCAGCAAUCCAUCGCU------GCCCAACCCACUAUGUCCACCUCCUCCGCGGUGGAUGACUCUUCUGACAGCUCGUCAGCUGGCAUCA
((((((....--..................)))------)))...........(((((((........)))))))((..((.(((((.....)))))..))..)). ( -25.15)
>DroSim_CAF1 30719 98 - 1
GGCAGUAACC--CCAUUCCAGCAAUCCAUCGCU------GCCCAACCCACUGAGUCCACCUCCUCCGCGGUGGAUGACUCUUCUGACAGCUCGUCAGCUGGCAUCA
((((((....--..................)))------)))...........(((((((........)))))))((..((.(((((.....)))))..))..)). ( -25.25)
>DroEre_CAF1 36169 98 - 1
GGCAGUAACC--CCAUACCAGCAAUCCAUCGCA------GCCCAACCCACUGAAUACACCUCCUCCGCGGUGGAUGACUCUUCUGACAGCUCGUCAGCUGGCAUCA
((........--))...(((((.(((((((((.------...........................)))))))))........((((.....)))))))))..... ( -24.19)
>DroYak_CAF1 36289 104 - 1
GGCAGUAACC--CCAUUCCAGCAAUCCAUCGCCGCAGUGGCCCAACCCACUGAAUCCACCUCCUCCGCUGUGGAUGACGCUUCUGACAGCUCGUCAGCUGGCAUCA
..........--.(((((((((............((((((......))))))..............)))).)))))..(((.(((((.....)))))..))).... ( -28.27)
>consensus
GGCAGUAACC__CCAUUCCAGCAAUCCAUCGCA______GCCCAACCCACUGAGUCCACCUCCUCCGCGGUGGAUGACUCUUCUGACAGCUCGUCAGCUGGCAUCA
.................(((((.(((((((((..................................)))))))))........((((.....)))))))))..... (-21.66 = -22.06 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 7,190,001 – 7,190,102
Length 101
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 92.47
Mean single sequence MFE -25.23
Consensus MFE -21.14
Energy contribution -21.54
Covariance contribution 0.40
Combinations/Pair 1.10
Mean z-score -1.74
Structure conservation index 0.84
SVM decision value 1.23
SVM RNA-class probability 0.933319
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7190001 101 - 27905053
UCAGACUUAACAACCACUUGCCGGCCAGUCGGCAGUAACCCCCCAUGCCAGCAAUCCAACGCA------GCCCAACCCAUUGAGUCCACCUCCUCCGCGGUGGAUGA
((((...........(((.(((((....))))))))..........((..((........)).------))........))))(((((((........))))))).. ( -23.40)
>DroSec_CAF1 30746 99 - 1
UCAGACUUAACAACCACUUGCCGGCCAGUCGGCAGUAACC--CCAUUCCAGCAAUCCAUCGCU------GCCCAACCCACUAUGUCCACCUCCUCCGCGGUGGAUGA
...............(((.(((((....))))))))....--......((((........)))------).............(((((((........))))))).. ( -24.70)
>DroSim_CAF1 30748 99 - 1
UCAGACUUAACAACCACUUGCCGGCCAGUCGGCAGUAACC--CCAUUCCAGCAAUCCAUCGCU------GCCCAACCCACUGAGUCCACCUCCUCCGCGGUGGAUGA
((((...........(((.(((((....))))))))....--......((((........)))------).........))))(((((((........))))))).. ( -28.70)
>DroEre_CAF1 36198 99 - 1
UCAGACUUAACAACCACUUGCCGGCCAGUCGGCAGUAACC--CCAUACCAGCAAUCCAUCGCA------GCCCAACCCACUGAAUACACCUCCUCCGCGGUGGAUGA
...............(((.(((((....))))))))....--...........(((((((((.------...........................))))))))).. ( -21.59)
>DroYak_CAF1 36318 105 - 1
UCAGACUUAACAACCACUUGCCGGCCAGUCGGCAGUAACC--CCAUUCCAGCAAUCCAUCGCCGCAGUGGCCCAACCCACUGAAUCCACCUCCUCCGCUGUGGAUGA
...............(((.(((((....))))))))....--.(((((((((............((((((......))))))..............)))).))))). ( -27.77)
>consensus
UCAGACUUAACAACCACUUGCCGGCCAGUCGGCAGUAACC__CCAUUCCAGCAAUCCAUCGCA______GCCCAACCCACUGAGUCCACCUCCUCCGCGGUGGAUGA
((((...........(((.(((((....))))))))..............((........)).................))))(((((((........))))))).. (-21.14 = -21.54 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:55 2006