Locus 4528

Sequence ID 2L_DroMel_CAF1
Location 12,972,654 – 12,972,774
Length 120
Max. P 0.996972
window7126 window7127

overview

Window 6

Location 12,972,654 – 12,972,774
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 97.00
Mean single sequence MFE -30.52
Consensus MFE -29.14
Energy contribution -28.98
Covariance contribution -0.16
Combinations/Pair 1.04
Mean z-score -1.91
Structure conservation index 0.95
SVM decision value 2.78
SVM RNA-class probability 0.996972
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12972654 120 + 22407834
CAUAUCCCAGUUUCGAUGUGUCAAAUUCAUUCCACUUUGGCGCUCUGCACUCAGCAGAGUCAGUCGAGCACUUUUCUGCGCCAUUUUGACACCGAAUCAGAAUCCGAAACACUCAGUCAC
.........((((((..((((((((............(((((((((((.....))))))).......(((......))))))).))))))))(......)....)))))).......... ( -32.32)
>DroSec_CAF1 17502 120 + 1
CAUAUCCCAGCUUCGAUGUGUCAAAUUCAUUCCACUUUGGCGCUCUGCAGUCAGCAGAGUCAGUCGAGCACUUUUCUGCGCCAUUUUGACACCGAAUCAGAAUCUGAAACACUCAGUCAC
.......(((.((((((((((((((............(((((((((((.....))))))).......(((......))))))).))))))))...))).))).))).............. ( -32.02)
>DroSim_CAF1 18455 120 + 1
CAUAUCCCAGCUUCGAUGUGUCAAAUUCAUUCCACUUUGGCGCUUUGCAGUCAGCAGAGUCAGUCGAGCACUUUUCUGCGCCAUUUUGACACCGAAUCAGAAUCCGAAACACUCAGUCAG
.........(.((((..((((((((............(((((((((((.....))))))).......(((......))))))).)))))))))))).)...................... ( -26.92)
>DroEre_CAF1 5967 119 + 1
CAUUUCCC-GCUUCGAUGUGUCAAAUUCAUUCCACUUUGGCGCUCUGCAGUCAGCAGAGUCAGUCGAGCACUUUUCUGCGCCAUUUUGACACCGAAUCAGAAUCCGAAACACUCAGUCAC
........-(.((((..((((((((............(((((((((((.....))))))).......(((......))))))).)))))))))))).)...................... ( -29.62)
>DroYak_CAF1 20074 120 + 1
CACAUCCCAGCUUCGAUGUGUCAAAUUCAUUCCACUUUGGCGCUCUGCAGUCAGCAGAGUCAGUCGAGCACUUUUCUGCGCCAUUUUGACACCGAAUCAGAAUCCGACACACUCAGUCAC
.........(.((((..((((((((............(((((((((((.....))))))).......(((......))))))).)))))))))))).).......(((.......))).. ( -31.72)
>consensus
CAUAUCCCAGCUUCGAUGUGUCAAAUUCAUUCCACUUUGGCGCUCUGCAGUCAGCAGAGUCAGUCGAGCACUUUUCUGCGCCAUUUUGACACCGAAUCAGAAUCCGAAACACUCAGUCAC
.........(.((((..((((((((............(((((((((((.....))))))).......(((......))))))).)))))))))))).)...................... (-29.14 = -28.98 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 7

Location 12,972,654 – 12,972,774
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.00
Mean single sequence MFE -36.88
Consensus MFE -34.30
Energy contribution -34.62
Covariance contribution 0.32
Combinations/Pair 1.06
Mean z-score -1.29
Structure conservation index 0.93
SVM decision value 0.52
SVM RNA-class probability 0.769350
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12972654 120 - 22407834
GUGACUGAGUGUUUCGGAUUCUGAUUCGGUGUCAAAAUGGCGCAGAAAAGUGCUCGACUGACUCUGCUGAGUGCAGAGCGCCAAAGUGGAAUGAAUUUGACACAUCGAAACUGGGAUAUG
........((((..(((.(((.(((...((((((((...((((......))))((.(((..((((((.....))))))......))).)).....)))))))))))))).)))..)))). ( -38.00)
>DroSec_CAF1 17502 120 - 1
GUGACUGAGUGUUUCAGAUUCUGAUUCGGUGUCAAAAUGGCGCAGAAAAGUGCUCGACUGACUCUGCUGACUGCAGAGCGCCAAAGUGGAAUGAAUUUGACACAUCGAAGCUGGGAUAUG
........((((..(((.(((.(((...((((((((...((((......))))((.(((..((((((.....))))))......))).)).....)))))))))))))).)))..)))). ( -38.70)
>DroSim_CAF1 18455 120 - 1
CUGACUGAGUGUUUCGGAUUCUGAUUCGGUGUCAAAAUGGCGCAGAAAAGUGCUCGACUGACUCUGCUGACUGCAAAGCGCCAAAGUGGAAUGAAUUUGACACAUCGAAGCUGGGAUAUG
........((((..(((.(((.(((...((((((((...((((......))))((.(((.....((((........))))....))).)).....)))))))))))))).)))..)))). ( -32.90)
>DroEre_CAF1 5967 119 - 1
GUGACUGAGUGUUUCGGAUUCUGAUUCGGUGUCAAAAUGGCGCAGAAAAGUGCUCGACUGACUCUGCUGACUGCAGAGCGCCAAAGUGGAAUGAAUUUGACACAUCGAAGC-GGGAAAUG
....(((((...))))).(((((.((((((((((((...((((......))))((.(((..((((((.....))))))......))).)).....))))))))..)))).)-)))).... ( -36.70)
>DroYak_CAF1 20074 120 - 1
GUGACUGAGUGUGUCGGAUUCUGAUUCGGUGUCAAAAUGGCGCAGAAAAGUGCUCGACUGACUCUGCUGACUGCAGAGCGCCAAAGUGGAAUGAAUUUGACACAUCGAAGCUGGGAUGUG
((...(((.((((((((((((((((.....))))...((((((.....(((.....)))...(((((.....))))))))))).........)))))))))))))))..))......... ( -38.10)
>consensus
GUGACUGAGUGUUUCGGAUUCUGAUUCGGUGUCAAAAUGGCGCAGAAAAGUGCUCGACUGACUCUGCUGACUGCAGAGCGCCAAAGUGGAAUGAAUUUGACACAUCGAAGCUGGGAUAUG
........((((..(((.(((.(((...((((((((...((((......))))((.(((..((((((.....))))))......))).)).....)))))))))))))).)))..)))). (-34.30 = -34.62 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:06 2006