Locus 4597

Sequence ID 2R_DroMel_CAF1
Location 14,984,739 – 14,984,831
Length 92
Max. P 0.987324
window7389 window7390

overview

Window 9

Location 14,984,739 – 14,984,831
Length 92
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 67.54
Mean single sequence MFE -41.26
Consensus MFE -19.88
Energy contribution -21.60
Covariance contribution 1.72
Combinations/Pair 1.42
Mean z-score -2.25
Structure conservation index 0.48
SVM decision value 2.07
SVM RNA-class probability 0.987324
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14984739 92 + 20766785
GCCAGGAGCUCCUCCUCCACCACGU------CCACCUCC---GGCU----------CGGCCAGUCG---------UGGCGGUAGCAGCAGCAGCGUGGUGGAUGGAGUGGCUCCAUCUAA
....(((((..((((((((((((((------....((.(---.(((----------(.((((....---------)))).).))).).))..)))))))))).))))..)))))...... ( -49.10)
>DroSec_CAF1 2711 92 + 1
GCCAGGAGCUCCUCCUCCACCACGU------CCACCUCC---CGCU----------CGGCCAGUCG---------CGGCGGUAGCAGUAGCAGCGUGGUGGAUGGAGUGGCUCCAUCUAA
....(((((..((((((((((((((------.......(---((((----------(((....)))---------.)))))..((....)).)))))))))).))))..)))))...... ( -49.40)
>DroWil_CAF1 12069 114 + 1
---AGGAAGUCGUUCGUCACAUCAUUCGACUCCAACACCAGCUGCU---CGAACAACAUCCAGUCGAGCUGUAAGCGGCGGUAGUAGUAAUAGUGUUGUCGAUGGGGUUACCACAUCCCG
---.(((.((((...(......)...))))))).......((.(((---(((.(........))))))).))...((((..((.((....)).))..))))..(((((......))))). ( -32.20)
>DroYak_CAF1 2722 92 + 1
GCCAGGAGCUCCUCGUCCACCAUGU------CCAACUCC---GCCU----------CCGCCAGUCG---------UGGCGGUAGCAGCAGCAGUGUAGUGGAUGGAGUGACUCCAUCUAA
....(((((.(..(((((((.....------........---((..----------((((((....---------))))))..)).(((....))).)))))))..).).))))...... ( -34.70)
>DroAna_CAF1 14007 92 + 1
GCCCGGAGUUCCUCGUCGAC---GU------CGAACUCC---ACAUCCG-------CGGGAAGUCG---------CGGCGGAAGCAGCAACAGUGUCGUGGACGGAGUGGCUCCGUCCAA
((..(((((((..((....)---).------.)))))))---.....((-------(((....)))---------))((....)).))..........(((((((((...))))))))). ( -40.90)
>consensus
GCCAGGAGCUCCUCCUCCACCACGU______CCAACUCC___GGCU__________CGGCCAGUCG_________CGGCGGUAGCAGCAGCAGUGUGGUGGAUGGAGUGGCUCCAUCUAA
....((((((.((((((((((((((.....................................((((.........))))....((....)).)))))))))).)))).))))))...... (-19.88 = -21.60 +   1.72) 

alignment

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secondary structure

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dotplot

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Window 0

Location 14,984,739 – 14,984,831
Length 92
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 67.54
Mean single sequence MFE -43.52
Consensus MFE -15.48
Energy contribution -18.56
Covariance contribution 3.08
Combinations/Pair 1.38
Mean z-score -2.43
Structure conservation index 0.36
SVM decision value 1.97
SVM RNA-class probability 0.984335
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14984739 92 - 20766785
UUAGAUGGAGCCACUCCAUCCACCACGCUGCUGCUGCUACCGCCA---------CGACUGGCCG----------AGCC---GGAGGUGG------ACGUGGUGGAGGAGGAGCUCCUGGC
......(((((..((((.((((((((((..((.(((((.(.((((---------....)))).)----------)).)---)).))..)------.)))))))))))))..))))).... ( -51.00)
>DroSec_CAF1 2711 92 - 1
UUAGAUGGAGCCACUCCAUCCACCACGCUGCUACUGCUACCGCCG---------CGACUGGCCG----------AGCG---GGAGGUGG------ACGUGGUGGAGGAGGAGCUCCUGGC
......(((((..((((.((((((((((..((.(((((.(.((((---------....)))).)----------))))---)..))..)------.)))))))))))))..))))).... ( -53.40)
>DroWil_CAF1 12069 114 - 1
CGGGAUGUGGUAACCCCAUCGACAACACUAUUACUACUACCGCCGCUUACAGCUCGACUGGAUGUUGUUCG---AGCAGCUGGUGUUGGAGUCGAAUGAUGUGACGAACGACUUCCU---
.((((((.((....))))))..((((((((...........((.(((((((((((.....)).)))))..)---))).))))))))))((((((..((......))..)))))))).--- ( -31.10)
>DroYak_CAF1 2722 92 - 1
UUAGAUGGAGUCACUCCAUCCACUACACUGCUGCUGCUACCGCCA---------CGACUGGCGG----------AGGC---GGAGUUGG------ACAUGGUGGACGAGGAGCUCCUGGC
......(((((..(((..(((((((..(.(((.(((((.((((((---------....))))))----------.)))---))))).).------...))))))).)))..))))).... ( -42.90)
>DroAna_CAF1 14007 92 - 1
UUGGACGGAGCCACUCCGUCCACGACACUGUUGCUGCUUCCGCCG---------CGACUUCCCG-------CGGAUGU---GGAGUUCG------AC---GUCGACGAGGAACUCCGGGC
.(((((((((...)))))))))((((...((((..((((((((((---------((......))-------))).)).---))))).))------))---))))....((....)).... ( -39.20)
>consensus
UUAGAUGGAGCCACUCCAUCCACCACACUGCUGCUGCUACCGCCG_________CGACUGGCCG__________AGCC___GGAGUUGG______ACGUGGUGGAGGAGGAGCUCCUGGC
......(((((..((((.(((((((((..((....))....((((.............))))..................................)))))))))))))..))))).... (-15.48 = -18.56 +   3.08) 

alignment

Postscript

secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:24:22 2006