Locus 2855

Sequence ID 3L_DroMel_CAF1
Location 8,161,166 – 8,161,257
Length 91
Max. P 0.934399
window4460 window4461

overview

Window 0

Location 8,161,166 – 8,161,257
Length 91
Sequences 5
Columns 91
Reading direction forward
Mean pairwise identity 91.85
Mean single sequence MFE -28.60
Consensus MFE -19.84
Energy contribution -21.40
Covariance contribution 1.56
Combinations/Pair 1.04
Mean z-score -3.31
Structure conservation index 0.69
SVM decision value 0.67
SVM RNA-class probability 0.818326
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8161166 91 + 23771897
UAUGUACAUUUCGCAAGCGUUUGGGUGUGUGUGUGUGUUUUGUUUGUUGUUGUUGCUUUUAUCAGCAGCCCCAAAAAGUGUACACACACUA
......((...((....))..))((((((((((..(.(((((...(((((((..........)))))))..))))).)..)))))))))). ( -28.60)
>DroSec_CAF1 15696 91 + 1
UAUGUACAUUUCGCAAGCGUCUGGGUGUGUGUGUGUGUUUUGUUUGUUGUUGUUGCUUUUAUCAGCAGCCCCAAAAAGUGUACACACACUA
......((...((....))..))((((((((((..(.(((((...(((((((..........)))))))..))))).)..)))))))))). ( -27.90)
>DroSim_CAF1 16394 89 + 1
UAUGUACAUUUCGCAAGCGUCUGGGUGUGU--GUGUGUUUUGUUUGUUGUUGUUGCUUUUAUCAGCAGCCCCAAAAAGUGUACACACACUA
......((...((....))..))(((((((--(((..((((....(((((((..........))))))).....))))..)))))))))). ( -27.00)
>DroEre_CAF1 17137 89 + 1
UAUGUACAUUUCGCAAGCAAGUGUGUGUGUGUGUGUGUUUUGUUUGUUGUUGUUGCUUUUAUCAGCAGCCCCAAAAAG--UACACACACUC
((..((((((((....).)))))))..)).((((((((....((((..(((((((.......)))))))..))))...--.)))))))).. ( -31.20)
>DroYak_CAF1 16365 85 + 1
UAUGUACAUUUCGCAAGCGAGUGUGU------GUGUGUUUUGUUUGUUGUUGUUGUUUUUAUCAGCAGCCCCAAAAAGUGUACACACACGC
..........(((....)))((((((------(((((..((.((((..(((((((.......)))))))..)))).))..))))))))))) ( -28.30)
>consensus
UAUGUACAUUUCGCAAGCGUCUGGGUGUGUGUGUGUGUUUUGUUUGUUGUUGUUGCUUUUAUCAGCAGCCCCAAAAAGUGUACACACACUA
...........(....)......((((((((((..(.(((((...(((((((..........)))))))..))))).)..)))))))))). (-19.84 = -21.40 +   1.56)

alignment

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secondary structure

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dotplot

Postscript

Window 1

Location 8,161,166 – 8,161,257
Length 91
Sequences 5
Columns 91
Reading direction reverse
Mean pairwise identity 91.85
Mean single sequence MFE -19.44
Consensus MFE -14.98
Energy contribution -15.82
Covariance contribution 0.84
Combinations/Pair 1.05
Mean z-score -2.30
Structure conservation index 0.77
SVM decision value 1.24
SVM RNA-class probability 0.934399
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8161166 91 - 23771897
UAGUGUGUGUACACUUUUUGGGGCUGCUGAUAAAAGCAACAACAACAAACAAAACACACACACACACCCAAACGCUUGCGAAAUGUACAUA
..((((((((....((((((..(.((((......)))).)..))).)))....))))))))...........((....))........... ( -20.10)
>DroSec_CAF1 15696 91 - 1
UAGUGUGUGUACACUUUUUGGGGCUGCUGAUAAAAGCAACAACAACAAACAAAACACACACACACACCCAGACGCUUGCGAAAUGUACAUA
..((((((((....((((((..(.((((......)))).)..))).)))....))))))))...........((....))........... ( -20.10)
>DroSim_CAF1 16394 89 - 1
UAGUGUGUGUACACUUUUUGGGGCUGCUGAUAAAAGCAACAACAACAAACAAAACACAC--ACACACCCAGACGCUUGCGAAAUGUACAUA
..((((((((....((((((..(.((((......)))).)..))).)))....))))))--)).........((....))........... ( -20.10)
>DroEre_CAF1 17137 89 - 1
GAGUGUGUGUA--CUUUUUGGGGCUGCUGAUAAAAGCAACAACAACAAACAAAACACACACACACACACACUUGCUUGCGAAAUGUACAUA
..((((((((.--.((((((..(.((((......)))).)..))).)))....))))))))....(((...(((....)))..)))..... ( -19.20)
>DroYak_CAF1 16365 85 - 1
GCGUGUGUGUACACUUUUUGGGGCUGCUGAUAAAAACAACAACAACAAACAAAACACAC------ACACACUCGCUUGCGAAAUGUACAUA
..((((((((......((((..(.((.((.......)).)).)..))))......))))------))))..(((....))).......... ( -17.70)
>consensus
UAGUGUGUGUACACUUUUUGGGGCUGCUGAUAAAAGCAACAACAACAAACAAAACACACACACACACCCACACGCUUGCGAAAUGUACAUA
..((((((((....((((((..(.((((......)))).)..))).)))....))))))))...........((....))........... (-14.98 = -15.82 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:43:27 2006