Locus 1163

Sequence ID 3L_DroMel_CAF1
Location 3,358,019 – 3,358,219
Length 200
Max. P 0.962892
window1810 window1811

overview

Window 0

Location 3,358,019 – 3,358,139
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.67
Mean single sequence MFE -40.44
Consensus MFE -31.08
Energy contribution -31.92
Covariance contribution 0.84
Combinations/Pair 1.10
Mean z-score -1.68
Structure conservation index 0.77
SVM decision value 0.28
SVM RNA-class probability 0.664679
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3358019 120 - 23771897
UUCACGCAGGGAACUAAUUUAAGUGGCUCCAGAAGCACCAACCGCUGAUUGGUGGGGGAGAACCGCGUCAAGGAGGUUACAAUUCCAUCAAGGAAGCAACAAGUUUCACUGCCUGCACGC
..((.((((((((((.......((((((((.((.((.....(((((....)))))((.....)))).))..))).)))))..((((.....))))......)))))).)))).))..... ( -35.40)
>DroSec_CAF1 25203 120 - 1
UUCAGGCAGGGAACGAAUUUAAGUGGCUCCAGAAGCACCAACCGCUGAUUGGUGGGGGAGAACCGCGUCAAGGAUGUCACAAUUCCAUCCAGGAAGCAACAAGUUUCACUGCCUCCACGC
...(((((((((((........((((((((.((.((.....(((((....)))))((.....)))).))..))).)))))..((((.....)))).......))))).))))))...... ( -40.60)
>DroSim_CAF1 22892 120 - 1
UUCAGGCAGGGAACUAAUUUAAGUGGCUCCAGAAGCACCAACCGCUGAUUGGUGGGGGAGAACCGCGUCAAGGAUGUCACAAUUCCAUCCAGGAAGCAACAAGUUUCACUGCCUCCACGC
...((((((((((((.......((((((((.((.((.....(((((....)))))((.....)))).))..))).)))))..((((.....))))......)))))).))))))...... ( -41.30)
>DroEre_CAF1 23764 120 - 1
UGCAGGCUGGGAGCUAAUUUAAGUGGCUCCACAAGGACCACUCGCUUAUUGGUGGGACAGAACCGCGUCAAGGAGGUUACAAUUCCAUCCAGGAAGCAACAAGUUUCACUGCCGGCACGC
(((.(((..((((((......(((((.(((....)))))))).((((.(((((((((...((((.(......).))))....))))).)))).))))....))))))...))).)))... ( -43.80)
>DroYak_CAF1 23752 120 - 1
UGCAGGCUGGAAACUAACUUAAGUGGCUCCACAAGCACCAACCGCUGAUUGGUGGGGCAGAACGGCGUCAAGGAGGUUACGAUUCCAUCCAGGAAGCAACAAGUUUCACUGCCGGCACGC
(((.(((..((((((.......((.(((((((.(((.......))).....)))))))...)).((.((..(((((........)).)))..)).))....))))))...))).)))... ( -41.10)
>consensus
UUCAGGCAGGGAACUAAUUUAAGUGGCUCCAGAAGCACCAACCGCUGAUUGGUGGGGGAGAACCGCGUCAAGGAGGUUACAAUUCCAUCCAGGAAGCAACAAGUUUCACUGCCUGCACGC
....(((((((((((.......((((((((.....((((((.......))))))((......)).......))).)))))..((((.....))))......)))))).)))))....... (-31.08 = -31.92 +   0.84) 

alignment

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secondary structure

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dotplot

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Window 1

Location 3,358,099 – 3,358,219
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.00
Mean single sequence MFE -44.14
Consensus MFE -34.02
Energy contribution -35.98
Covariance contribution 1.96
Combinations/Pair 1.06
Mean z-score -2.49
Structure conservation index 0.77
SVM decision value 1.55
SVM RNA-class probability 0.962892
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3358099 120 - 23771897
CAUCGUCCUUCAGAUCCUCCAGGGAAACCGGAGGUCGCUGAAGGAGCUCCUGGGUGACUGUAAUCACGCAUGAAAUCCUCUUCACGCAGGGAACUAAUUUAAGUGGCUCCAGAAGCACCA
.....((((((((..(((((.((....)))))))...))))))))(((.((((((.(((........((.((((......)))).))((....))......))).)).)))).))).... ( -50.20)
>DroSec_CAF1 25283 120 - 1
CAUCGUCCUUAAGAUCCUCCAGGGAAACCAGAGGUCGCUGGAGGAGCUCCUGGGUGACUGUAACCACGCAUGAAAUCGUCUUCAGGCAGGGAACGAAUUUAAGUGGCUCCAGAAGCACCA
..((.(((....((.((((..((....)).))))))...))).))(((.((((((.(((((..((..((.((((......)))).)).))..)).......))).)).)))).))).... ( -39.81)
>DroSim_CAF1 22972 120 - 1
CAUCGUCCUUAAGAUCCUCCAGGGAAACCAGAGGUCGCUGGAGGAGCUCCUGGGUGACUGUAACCACGCAUGAAAUCCUCUUCAGGCAGGGAACUAAUUUAAGUGGCUCCAGAAGCACCA
..((.(((....((.((((..((....)).))))))...))).))(((.((((((.(((........((.((((......)))).))((....))......))).)).)))).))).... ( -40.50)
>DroEre_CAF1 23844 120 - 1
CAUCGUCCUCCAGAUCCUCUAGGGCAACCAGAGGUCGCUGGAGUAGCUCCUGGGUGACUGUGAUCACGCAUGAAAUCCGCUGCAGGCUGGGAGCUAAUUUAAGUGGCUCCACAAGGACCA
....(((((((((..(((((.((....)))))))...))))).(((((((..(((((......))))(((((.....)).)))...)..)))))))......(((....)))..)))).. ( -51.20)
>DroYak_CAF1 23832 120 - 1
CAUCGUCCUCCAGAUCCUCCAGGGAAACCAGAGGUCGCUGCAGCAGCUCCGGGGUGACUGUGACCACGCAUGAAAUUCUCUGCAGGCUGGAAACUAACUUAAGUGGCUCCACAAGCACCA
.........((.((.((((..((....)).))))))((((...))))...))((((..((((.(((((((.((.....)))))((...(....)...))...))))...))))..)))). ( -39.00)
>consensus
CAUCGUCCUUCAGAUCCUCCAGGGAAACCAGAGGUCGCUGGAGGAGCUCCUGGGUGACUGUAACCACGCAUGAAAUCCUCUUCAGGCAGGGAACUAAUUUAAGUGGCUCCAGAAGCACCA
.....((((((((..((((..((....)).))))...))))))))(((.((((((.(((........((.((((......)))).)).(....).......))).)).)))).))).... (-34.02 = -35.98 +   1.96) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:46 2006