Locus 9472

Sequence ID 3R_DroMel_CAF1
Location 25,062,602 – 25,062,722
Length 120
Max. P 0.795977
window15171 window15172

overview

Window 1

Location 25,062,602 – 25,062,722
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.00
Mean single sequence MFE -36.18
Consensus MFE -27.22
Energy contribution -27.82
Covariance contribution 0.60
Combinations/Pair 1.08
Mean z-score -2.00
Structure conservation index 0.75
SVM decision value 0.60
SVM RNA-class probability 0.795977
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25062602 120 + 27905053
GUGGAUGGAUGUCCUCCACACACAAACUGGCCACAUAAGUGGCAAAUCCCUCGUUCAGCCAAAGGUCCGUCCACCACUUCAUCGUGACCAGGUUGCCAAACCACUGGUGGGCCAACUCAU
(((((.((....)))))))..........(((((....)))))....................((((((.(((.(((......)))....((((....))))..)))))))))....... ( -37.70)
>DroSec_CAF1 9473 120 + 1
CCGGAUGGAUGUGCUCCACACACAAAGUAGCCAGGUAGGUGGCUACUCCCUCCUUAAGCCAGAGGUCGGUCCACCACUUCAUGGUCACCAGGUUGCCAAACCACUGGUGUGCCAACUCAU
..(((.(((((((.....))))....(((((((......)))))))))).)))........(((((.((....))))))).(((((((((((((....))))..))))).))))...... ( -42.10)
>DroSim_CAF1 6810 120 + 1
CUGGAUGGAUGUCCUCCACACACAAACUGGCCACAUAAGUGGCAAAUCCCUCGUUCAGCCAAAGAUCCGUCCACCACUUCAUGGUGACCAGGUUGCCAAACCACUGGUGGGCCAACUCAU
.(((.((((((.........((.....))(((((....)))))........)))))).))).......((((((((.....(((..((...))..)))......))))))))........ ( -35.00)
>DroEre_CAF1 9463 120 + 1
CUGGAUGGAUGUCUUCCACACCCAAAUUGGCCACAUAGGUGGCAAAUCCCUCGUUCAGCCAAAGAUCCGUCCACCACUUCAUGGUGACCAGAUUGCCGAACCACUGGUGGGCCAACUCAU
.(((.((((.....))))...)))..((((((.(((.(((((...........(((.((....((((.(..(((((.....)))))..).)))))).)))))))).)))))))))..... ( -35.30)
>DroYak_CAF1 6934 120 + 1
CUGGAUGGAUGUCCUCCACACACAAACCGGCCACAUAAGUGGCAAAUCCCUCGUUCAGCCAAAGAUCCGUCCACCACUCCAUGGUGACCAGAUUGCCAAACCACUGGUGAGCCAACUCAU
.((((.((....))))))...........(((((....))))).........((((.......((((.(..(((((.....)))))..).))))((((......))))))))........ ( -30.80)
>consensus
CUGGAUGGAUGUCCUCCACACACAAACUGGCCACAUAAGUGGCAAAUCCCUCGUUCAGCCAAAGAUCCGUCCACCACUUCAUGGUGACCAGGUUGCCAAACCACUGGUGGGCCAACUCAU
..(((((((.....)))............(((((....))))).....................))))((((((((.....(((..(.....)..)))......))))))))........ (-27.22 = -27.82 +   0.60)

alignment

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secondary structure

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dotplot

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Window 2

Location 25,062,602 – 25,062,722
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.00
Mean single sequence MFE -45.50
Consensus MFE -34.96
Energy contribution -35.84
Covariance contribution 0.88
Combinations/Pair 1.12
Mean z-score -1.79
Structure conservation index 0.77
SVM decision value 0.49
SVM RNA-class probability 0.754809
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25062602 120 - 27905053
AUGAGUUGGCCCACCAGUGGUUUGGCAACCUGGUCACGAUGAAGUGGUGGACGGACCUUUGGCUGAACGAGGGAUUUGCCACUUAUGUGGCCAGUUUGUGUGUGGAGGACAUCCAUCCAC
....((..(.(((....))).)..))...(((((((((...((((((..((....((((((......)))))).))..)))))).))))))))).......(((((((....)).))))) ( -48.20)
>DroSec_CAF1 9473 120 - 1
AUGAGUUGGCACACCAGUGGUUUGGCAACCUGGUGACCAUGAAGUGGUGGACCGACCUCUGGCUUAAGGAGGGAGUAGCCACCUACCUGGCUACUUUGUGUGUGGAGCACAUCCAUCCGG
..(((((((..(((((((((((.(....).....))))))....)))))..)))).)))........(((.((((((((((......)))))))..(((((.....)))))))).))).. ( -44.80)
>DroSim_CAF1 6810 120 - 1
AUGAGUUGGCCCACCAGUGGUUUGGCAACCUGGUCACCAUGAAGUGGUGGACGGAUCUUUGGCUGAACGAGGGAUUUGCCACUUAUGUGGCCAGUUUGUGUGUGGAGGACAUCCAUCCAG
(..(..(((((((..((((((....(...(((..((((((...))))))..)))..(((((......))))))....))))))..)).)))))..)..)...((((((....)).)))). ( -43.60)
>DroEre_CAF1 9463 120 - 1
AUGAGUUGGCCCACCAGUGGUUCGGCAAUCUGGUCACCAUGAAGUGGUGGACGGAUCUUUGGCUGAACGAGGGAUUUGCCACCUAUGUGGCCAAUUUGGGUGUGGAAGACAUCCAUCCAG
..(((((((((.((....(((..(((((((((..((((((...))))))..))))((((((......))))))..))))))))...)))))))))))((((((.....))))))...... ( -47.30)
>DroYak_CAF1 6934 120 - 1
AUGAGUUGGCUCACCAGUGGUUUGGCAAUCUGGUCACCAUGGAGUGGUGGACGGAUCUUUGGCUGAACGAGGGAUUUGCCACUUAUGUGGCCGGUUUGUGUGUGGAGGACAUCCAUCCAG
(..((..(((.(((.((((((....(.(((((..((((((...))))))..)))))(((((......))))))....))))))...))))))..))..)...((((((....)).)))). ( -43.60)
>consensus
AUGAGUUGGCCCACCAGUGGUUUGGCAACCUGGUCACCAUGAAGUGGUGGACGGAUCUUUGGCUGAACGAGGGAUUUGCCACUUAUGUGGCCAGUUUGUGUGUGGAGGACAUCCAUCCAG
((((((((((.(((....(((..(((((.(((..((((((...))))))..))).((((((......))))))..))))))))...)))))))))))))(..((((.....))))..).. (-34.96 = -35.84 +   0.88)

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 13:35:28 2006