Locus 9441

Sequence ID 3R_DroMel_CAF1
Location 25,008,542 – 25,008,691
Length 149
Max. P 0.958487
window15120 window15121

overview

Window 0

Location 25,008,542 – 25,008,651
Length 109
Sequences 5
Columns 110
Reading direction reverse
Mean pairwise identity 92.80
Mean single sequence MFE -23.50
Consensus MFE -19.06
Energy contribution -19.38
Covariance contribution 0.32
Combinations/Pair 1.11
Mean z-score -2.06
Structure conservation index 0.81
SVM decision value 1.49
SVM RNA-class probability 0.958487
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25008542 109 - 27905053
AUAUAAGCACGUUUACA-ACGUAUAUAAAUGGCCUCAGACAAUAGACUCUCCUUGUCAAGGACCAUUUGUAAGCAGACAAAUUUCUAAAAAUACUUGCGGUUGACAUUCU
...............((-((((.((((((((((((..(((((..........))))).))).))))))))).))(((......))).............))))....... ( -22.00)
>DroSec_CAF1 30970 110 - 1
AUAUAAGCACGUUUACAAACGUAUAUAAAUGGCCUCAGACAAUAGACUUUCCUUGUCAAGGACCAUUUGUAUGCAGACGAAUUUCUAAAAAUACUUGCGGUUGACAUUCU
......(((.((........(((((((((((((((..(((((..........))))).))).))))))))))))(((......)))......)).)))............ ( -25.60)
>DroSim_CAF1 25084 110 - 1
AUAUAAGCACGCUUACAAACGUAUAUAAAUGGCCUCAGACAAUAGACUUUCCUUGUCAAGGACCAUUUGUAUGCAGACAAAUUUCUAAAAAUACCUGCGGUUGACAUUCU
.....(((.(((........(((((((((((((((..(((((..........))))).))).))))))))))))(((......)))..........))))))........ ( -27.40)
>DroEre_CAF1 32836 109 - 1
AUACAUACACGUCUACA-ACGCAUAUAAAUGGCCUCAGACAAAAGACUUUCCUUGCCAAGGACCAUUUGUACGCAGACAAAUUUCUAAAAAUACUUGCGGCUGACACUCU
..........(((....-.((((((((((((((((..(....(((......))).)..))).)))))))))...(((......))).........))))...)))..... ( -21.60)
>DroYak_CAF1 24644 109 - 1
AUAUAAGCACGUUUACA-ACGUAUAUAAAUGGCCUCAGACAAUAGACUGUCCUUGCCAAGGACCAUUUGUGCGCAGACAAAUUUCUAAAAAUAAUUGCGGUUGACAUUCU
...............((-((...((((((((((((((((((......))))..))...))).)))))))))(((((....((((....))))..)))))))))....... ( -20.90)
>consensus
AUAUAAGCACGUUUACA_ACGUAUAUAAAUGGCCUCAGACAAUAGACUUUCCUUGUCAAGGACCAUUUGUACGCAGACAAAUUUCUAAAAAUACUUGCGGUUGACAUUCU
.....(((.(((........((.((((((((((((..(((((..........))))).))).))))))))).))(((......)))..........))))))........ (-19.06 = -19.38 +   0.32)

alignment

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secondary structure

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dotplot

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Window 1

Location 25,008,572 – 25,008,691
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.56
Mean single sequence MFE -24.12
Consensus MFE -17.72
Energy contribution -18.76
Covariance contribution 1.04
Combinations/Pair 1.04
Mean z-score -2.21
Structure conservation index 0.73
SVM decision value 0.41
SVM RNA-class probability 0.726425
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25008572 119 - 27905053
GGAAAACAAUGCACUACUUCAACCACAACCCUGAUCUCAUAUAUAAGCACGUUUACA-ACGUAUAUAAAUGGCCUCAGACAAUAGACUCUCCUUGUCAAGGACCAUUUGUAAGCAGACAA
.........(((....................................((((.....-)))).((((((((((((..(((((..........))))).))).))))))))).)))..... ( -21.50)
>DroSec_CAF1 31000 120 - 1
GGAAAACAAUGCACUACUUCAGCCACAACCCUGAUCUCAUAUAUAAGCACGUUUACAAACGUAUAUAAAUGGCCUCAGACAAUAGACUUUCCUUGUCAAGGACCAUUUGUAUGCAGACGA
..................((((........))))...............(((((......(((((((((((((((..(((((..........))))).))).))))))))))))))))). ( -25.30)
>DroSim_CAF1 25114 120 - 1
GGAAAACAAUGCACUACUUCAGCCACAACCCUGAUCUCAUAUAUAAGCACGCUUACAAACGUAUAUAAAUGGCCUCAGACAAUAGACUUUCCUUGUCAAGGACCAUUUGUAUGCAGACAA
..................((((........))))(((......((((....)))).....(((((((((((((((..(((((..........))))).))).)))))))))))))))... ( -25.60)
>DroEre_CAF1 32866 119 - 1
GCACAACAAUGCACUACUUCAACCACAACCCUGAUCUCAUAUACAUACACGUCUACA-ACGCAUAUAAAUGGCCUCAGACAAAAGACUUUCCUUGCCAAGGACCAUUUGUACGCAGACAA
(((......)))......................................((((...-..((.((((((((((((..(....(((......))).)..))).))))))))).)))))).. ( -21.20)
>DroYak_CAF1 24674 119 - 1
GCACAACAAUGCACUACUUCAGCCGCAACCCUGAUCCCAUAUAUAAGCACGUUUACA-ACGUAUAUAAAUGGCCUCAGACAAUAGACUGUCCUUGCCAAGGACCAUUUGUGCGCAGACAA
(((......))).........(((((((..((((..((((.((((...((((.....-)))).)))).))))..))))..........(((((.....)))))...))))).))...... ( -27.00)
>consensus
GGAAAACAAUGCACUACUUCAGCCACAACCCUGAUCUCAUAUAUAAGCACGUUUACA_ACGUAUAUAAAUGGCCUCAGACAAUAGACUUUCCUUGUCAAGGACCAUUUGUACGCAGACAA
.........(((......((((........))))..............((((......)))).((((((((((((..(((((..........))))).))).))))))))).)))..... (-17.72 = -18.76 +   1.04)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:34:44 2006