Locus 5732

Sequence ID 3L_DroMel_CAF1
Location 15,607,339 – 15,607,495
Length 156
Max. P 0.990955
window9078 window9079

overview

Window 8

Location 15,607,339 – 15,607,455
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.38
Mean single sequence MFE -30.72
Consensus MFE -28.50
Energy contribution -28.50
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.88
Structure conservation index 0.93
SVM decision value 2.24
SVM RNA-class probability 0.990876
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15607339 116 + 23771897
AACCCCUUGCAGCCUCGACACCACCGCC----CAUCACAUGUGGCGCUUUUGCCUCAAUUAUUUUUAUUGGUUCGGCGCAAAAAUUUACGUUGCAUACUUUGCAGCGCCGCCUGGCAUGG
....((.(((.((.((((.((((..(((----(((...))).)))((....))...............)))))))).)).........(((((((.....))))))).......))).)) ( -31.50)
>DroSec_CAF1 30589 119 + 1
AACCCCUUGCAGCCCCACCAACACCACC-CAUCAUCACAUGUGGCGCUUUUGCCUCAAUUAUUUUUAUUGGUUCGGCGCAAAAAUUUACGUUGCAUACUUUGCAGCGCCGCCUGGCAUGG
......((((.(((..(((((..((((.-...........)))).((....))..............)))))..)))))))........((((((.....))))))(((....))).... ( -30.00)
>DroSim_CAF1 30601 120 + 1
AACCCCUUGCAGCCCCGCCAACACCAUCACAUCAUCACAUGUGGCGCUUUUGCCUCAAUUAUUUUUAUUGGUUCGGCGCAAAAAUUUACGUUGCAUACUUUGCAGCGCCGCCUGGCAUGG
......((((.(((..(((((.....((((((......)))))).((....))..............)))))..)))))))........((((((.....))))))(((....))).... ( -31.70)
>DroEre_CAF1 30515 107 + 1
GCCCCCUU--AGCCCCGU------AACC----CAUCACAUGUGGCGCUUUUGCCUCAAUUAUUUUUAUUGGUUCGGCGCAAAAAUUUACGUUGCAUACUUUGCAGCGCCGCCU-GCAUGG
........--........------....----.....(((((((((.((((((((.(((((.......))))).)).)))))).....(((((((.....))))))).)))).-))))). ( -29.40)
>DroYak_CAF1 32684 108 + 1
GCCCCCUU--AACCCCUU------AACC----CAUCACAUGUGGCGCUUUUGCCUCAAUUAUUUUUAUUGGUUCGGCGCAAAAAUUUACGUUGCAUACUUUGCAGCGCCGCCUGGCAUGG
........--........------...(----(((..((.(((((((((((((((.(((((.......))))).)).))))))........((((.....))))))))))).))..)))) ( -31.00)
>consensus
AACCCCUUGCAGCCCCGCCA_CACCACC____CAUCACAUGUGGCGCUUUUGCCUCAAUUAUUUUUAUUGGUUCGGCGCAAAAAUUUACGUUGCAUACUUUGCAGCGCCGCCUGGCAUGG
.....................................(((((((((.((((((((.(((((.......))))).)).)))))).....(((((((.....))))))).))))..))))). (-28.50 = -28.50 +   0.00)

alignment

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secondary structure

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dotplot

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Window 9

Location 15,607,375 – 15,607,495
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 99.67
Mean single sequence MFE -30.06
Consensus MFE -30.10
Energy contribution -30.10
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.94
Structure conservation index 1.00
SVM decision value 2.24
SVM RNA-class probability 0.990955
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15607375 120 - 23771897
ACAUGUCAAGUCGUUGCAAUUUUCCAUAACGAAAUUAACGCCAUGCCAGGCGGCGCUGCAAAGUAUGCAACGUAAAUUUUUGCGCCGAACCAAUAAAAAUAAUUGAGGCAAAAGCGCCAC
....((....((((((..........)))))).....))(((......)))((((((((((((..(((...)))...))))))(((....((((.......)))).)))...)))))).. ( -30.10)
>DroSec_CAF1 30628 120 - 1
ACAUGUCAAGUCGUUGCAAUUUUCCAUAACGAAAUUAACGCCAUGCCAGGCGGCGCUGCAAAGUAUGCAACGUAAAUUUUUGCGCCGAACCAAUAAAAAUAAUUGAGGCAAAAGCGCCAC
....((....((((((..........)))))).....))(((......)))((((((((((((..(((...)))...))))))(((....((((.......)))).)))...)))))).. ( -30.10)
>DroSim_CAF1 30641 120 - 1
ACAUGUCAAGUCGUUGCAAUUUUCCAUAACGAAAUUAACGCCAUGCCAGGCGGCGCUGCAAAGUAUGCAACGUAAAUUUUUGCGCCGAACCAAUAAAAAUAAUUGAGGCAAAAGCGCCAC
....((....((((((..........)))))).....))(((......)))((((((((((((..(((...)))...))))))(((....((((.......)))).)))...)))))).. ( -30.10)
>DroEre_CAF1 30543 119 - 1
ACAUGUCAAGUCGUUGCAAUUUUCCAUAACGAAAUUAACGCCAUGC-AGGCGGCGCUGCAAAGUAUGCAACGUAAAUUUUUGCGCCGAACCAAUAAAAAUAAUUGAGGCAAAAGCGCCAC
....((....((((((..........)))))).....))(((....-.)))((((((((((((..(((...)))...))))))(((....((((.......)))).)))...)))))).. ( -29.90)
>DroYak_CAF1 32712 120 - 1
ACAUGUCAAGUCGUUGCAAUUUUCCAUAACGAAAUUAACGCCAUGCCAGGCGGCGCUGCAAAGUAUGCAACGUAAAUUUUUGCGCCGAACCAAUAAAAAUAAUUGAGGCAAAAGCGCCAC
....((....((((((..........)))))).....))(((......)))((((((((((((..(((...)))...))))))(((....((((.......)))).)))...)))))).. ( -30.10)
>consensus
ACAUGUCAAGUCGUUGCAAUUUUCCAUAACGAAAUUAACGCCAUGCCAGGCGGCGCUGCAAAGUAUGCAACGUAAAUUUUUGCGCCGAACCAAUAAAAAUAAUUGAGGCAAAAGCGCCAC
....((....((((((..........)))))).....))(((......)))((((((((((((..(((...)))...))))))(((....((((.......)))).)))...)))))).. (-30.10 = -30.10 +  -0.00)

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 11:58:03 2006