Locus 6306

Sequence ID 2R_DroMel_CAF1
Location 19,754,196 – 19,754,296
Length 100
Max. P 0.753692
window10079 window10080

overview

Window 9

Location 19,754,196 – 19,754,296
Length 100
Sequences 4
Columns 100
Reading direction forward
Mean pairwise identity 99.00
Mean single sequence MFE -37.23
Consensus MFE -36.05
Energy contribution -36.30
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.00
Structure conservation index 0.97
SVM decision value 0.48
SVM RNA-class probability 0.753692
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19754196 100 + 20766785
UCAUUCAGGACGCGGAUGCCACUGGCGGCCACCUGUGGCAUUCGCUAGUUGGGGCAGCCAGUCAGUGGCCUGAAAUCAAAACAAACCCCAAAACUGCCGG
.......((..(((((((((((.((......)).)))))))))))(((((((((..((((.....)))).((....)).......)))))..)))))).. ( -38.10)
>DroSec_CAF1 6978 100 + 1
UCAUUCAGGACGCGGAUGCCACUGGCGGCCACCUGUGGCAUUCGCUAGUUGGGGCAGCCAGUCAGUGGCCUGAAAUCAAAACAAACCCCAAAACAGCCGG
.......((.((((((((((((.((......)).)))))))))))...((((((..((((.....)))).((....)).......))))))....))).. ( -38.10)
>DroEre_CAF1 7138 99 + 1
UCAUUCAGGACGCGGAUGCCACUGGCGGCCACCUGUGGCAUUCGCUAGUUG-GGCAGCCAGUCAGUGGCCUGAAAUCAAAACAAACCCCAAAACUGCCGG
.......((..(((((((((((.((......)).)))))))))))((((((-((..((((.....)))).((....))........))))..)))))).. ( -34.60)
>DroYak_CAF1 9888 100 + 1
UCAUUCAGGACGCGGAUGCCACUGGCGGCCACCUGUGGCAUUCGCUAGUUGGGGCAGCCAGUCAGUGGCCUGAAAUCAAAACAAACCCCAAAACUGCCGG
.......((..(((((((((((.((......)).)))))))))))(((((((((..((((.....)))).((....)).......)))))..)))))).. ( -38.10)
>consensus
UCAUUCAGGACGCGGAUGCCACUGGCGGCCACCUGUGGCAUUCGCUAGUUGGGGCAGCCAGUCAGUGGCCUGAAAUCAAAACAAACCCCAAAACUGCCGG
.......((.((((((((((((.((......)).)))))))))))...((((((..((((.....)))).((....)).......))))))....))).. (-36.05 = -36.30 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 19,754,196 – 19,754,296
Length 100
Sequences 4
Columns 100
Reading direction reverse
Mean pairwise identity 99.00
Mean single sequence MFE -39.35
Consensus MFE -37.90
Energy contribution -38.15
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.69
Structure conservation index 0.96
SVM decision value -0.04
SVM RNA-class probability 0.511674
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19754196 100 - 20766785
CCGGCAGUUUUGGGGUUUGUUUUGAUUUCAGGCCACUGACUGGCUGCCCCAACUAGCGAAUGCCACAGGUGGCCGCCAGUGGCAUCCGCGUCCUGAAUGA
..(((....(((((((......((....))(((((.....))))))))))))...(((.(((((((.(((....))).))))))).))))))........ ( -39.50)
>DroSec_CAF1 6978 100 - 1
CCGGCUGUUUUGGGGUUUGUUUUGAUUUCAGGCCACUGACUGGCUGCCCCAACUAGCGAAUGCCACAGGUGGCCGCCAGUGGCAUCCGCGUCCUGAAUGA
..(((....(((((((......((....))(((((.....))))))))))))...(((.(((((((.(((....))).))))))).))))))........ ( -39.00)
>DroEre_CAF1 7138 99 - 1
CCGGCAGUUUUGGGGUUUGUUUUGAUUUCAGGCCACUGACUGGCUGCC-CAACUAGCGAAUGCCACAGGUGGCCGCCAGUGGCAUCCGCGUCCUGAAUGA
..((((((((..(((((((.........)))))).)..)..)))))))-......(((.(((((((.(((....))).))))))).)))........... ( -39.40)
>DroYak_CAF1 9888 100 - 1
CCGGCAGUUUUGGGGUUUGUUUUGAUUUCAGGCCACUGACUGGCUGCCCCAACUAGCGAAUGCCACAGGUGGCCGCCAGUGGCAUCCGCGUCCUGAAUGA
..(((....(((((((......((....))(((((.....))))))))))))...(((.(((((((.(((....))).))))))).))))))........ ( -39.50)
>consensus
CCGGCAGUUUUGGGGUUUGUUUUGAUUUCAGGCCACUGACUGGCUGCCCCAACUAGCGAAUGCCACAGGUGGCCGCCAGUGGCAUCCGCGUCCUGAAUGA
..((((((((..(((((((.........)))))).)..)..))))))).......(((.(((((((.(((....))).))))))).)))........... (-37.90 = -38.15 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:07:52 2006