Locus 1598

Sequence ID 2R_DroMel_CAF1
Location 5,989,014 – 5,989,157
Length 143
Max. P 0.918076
window2680 window2681

overview

Window 0

Location 5,989,014 – 5,989,117
Length 103
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 75.72
Mean single sequence MFE -22.26
Consensus MFE -16.60
Energy contribution -15.56
Covariance contribution -1.04
Combinations/Pair 1.30
Mean z-score -1.21
Structure conservation index 0.75
SVM decision value 0.36
SVM RNA-class probability 0.704280
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5989014 103 - 20766785
CCACACUCAACCAAUAGUGUGUUACGUUUUUAAGUGUCGCAGUACUUCAGAAAUGUU----------CACAGCACUUUUAGUUCAAUAACUCAUGUGA-AUCCAUGUAAUAGUG
...((((.(((.((.(((((...(((((((((((((......))))).)))))))).----------....))))).)).)))........((((...-...))))....)))) ( -18.40)
>DroSec_CAF1 7450 104 - 1
CCACACUCAACCAAUAGUGUGUUGCGUUUUUAAGUGCGGCCGUACUUAAGAAAUGUU----------CAAAGCACUUUUAGUUCAAUAACCCACGUGAUAUCCAUGUAAUAGCG
.((((((........))))))..((.(((((((((((....))))))))))).....----------.........................(((((.....)))))....)). ( -22.50)
>DroSim_CAF1 7942 103 - 1
CCACACUCAACCAAUAGUGUGUUACGUUUUUAAGUGCGGCAGUACUUCAGAAAUGUU----------CAAAGCACUUUUAGUUCAAUAACCCACGUGA-AUCCAUGUAAUAGCG
........(((.((.(((((...((((((((((((((....)))))).)))))))).----------....))))).)).))).........(((((.-...)))))....... ( -22.30)
>DroEre_CAF1 7603 99 - 1
CCAUGCUCAACCAAAAGUGUGUUACGUUUUUAAGUGCAACAGCACUUCAGAAAUGUUUUCAUUGCUUUACGGUGCUUUCAGUGCAGAAACCUACU---------------AGCG
....(((..(((.((((((((..((((((((((((((....)))))).))))))))...)).))))))..)))((.......))...........---------------))). ( -23.60)
>DroYak_CAF1 7628 113 - 1
CCAUACUCAACCAAAAGUGUGUUACGUUUUUGAGUGCGAUAGUACUUCAGAAAUGUUUUCAUUCCUACAAAUUACUUUCAGUGCAGAAAUCUACUUGC-AUCAAUGUAAAAGCG
.((((((........))))))..((((((((((((((....)))).))))))))))...............((((.....((((((........))))-))....))))..... ( -24.50)
>consensus
CCACACUCAACCAAUAGUGUGUUACGUUUUUAAGUGCGGCAGUACUUCAGAAAUGUU__________CAAAGCACUUUUAGUUCAAUAACCCACGUGA_AUCCAUGUAAUAGCG
.((((((........))))))..((((((((((((((....)))))).)))))))).......................................................... (-16.60 = -15.56 +  -1.04)

alignment

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secondary structure

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dotplot

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Window 1

Location 5,989,047 – 5,989,157
Length 110
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 78.12
Mean single sequence MFE -25.20
Consensus MFE -17.48
Energy contribution -16.80
Covariance contribution -0.68
Combinations/Pair 1.27
Mean z-score -1.92
Structure conservation index 0.69
SVM decision value 1.12
SVM RNA-class probability 0.918076
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5989047 110 - 20766785
AAAAAUAUUAGGUAUACCUUGUUAUGACCGCUUUUAACGACCACACUCAACCAAUAGUGUGUUACGUUUUUAAGUGUCGCAGUACUUCAGAAAUGUU----------CACAGCACUUUUA
....(((..(((....)))...)))(((.((((..((((..((((((........))))))...))))...)))))))((.((....((....))..----------.)).))....... ( -21.10)
>DroSec_CAF1 7484 110 - 1
AAAAAUAUUAGGUAUAGUUCGUUAUGCCCGCUUUUAACGACCACACUCAACCAAUAGUGUGUUGCGUUUUUAAGUGCGGCCGUACUUAAGAAAUGUU----------CAAAGCACUUUUA
..........(((((((....))))))).(((((.((((..((((((........)))))).....(((((((((((....))))))))))).))))----------.)))))....... ( -30.30)
>DroSim_CAF1 7975 110 - 1
AAAAAUAUUAGGUAUAGUUCGUUAUGACCGCUUUUAACGACCACACUCAACCAAUAGUGUGUUACGUUUUUAAGUGCGGCAGUACUUCAGAAAUGUU----------CAAAGCACUUUUA
..........(((..(((((((((..........))))))....)))..)))((.(((((...((((((((((((((....)))))).)))))))).----------....))))).)). ( -25.20)
>DroEre_CAF1 7622 120 - 1
UAAAGUAUUAGGUAUAGUUUGUUAUGACCGUUUCUAACGACCAUGCUCAACCAAAAGUGUGUUACGUUUUUAAGUGCAACAGCACUUCAGAAAUGUUUUCAUUGCUUUACGGUGCUUUCA
.((((((((.(((..(((((((((.((.....))))))))....)))..))).((((((((..((((((((((((((....)))))).))))))))...)).))))))..)))))))).. ( -29.20)
>DroYak_CAF1 7661 112 - 1
--------UAAACAGCAUUUUAAAUGACCGUUUCUAACGACCAUACUCAACCAAAAGUGUGUUACGUUUUUGAGUGCGAUAGUACUUCAGAAAUGUUUUCAUUCCUACAAAUUACUUUCA
--------..............(((((.(((.....)))..((((((........))))))..((((((((((((((....)))).))))))))))..)))))................. ( -20.20)
>consensus
AAAAAUAUUAGGUAUAGUUUGUUAUGACCGCUUUUAACGACCACACUCAACCAAUAGUGUGUUACGUUUUUAAGUGCGGCAGUACUUCAGAAAUGUU__________CAAAGCACUUUUA
..................((((((..........)))))).((((((........))))))..((((((((((((((....)))))).))))))))........................ (-17.48 = -16.80 +  -0.68)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:08:32 2006