Locus 3491

Sequence ID 3L_DroMel_CAF1
Location 10,256,352 – 10,256,478
Length 126
Max. P 0.998467
window5450 window5451

overview

Window 0

Location 10,256,352 – 10,256,444
Length 92
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 89.50
Mean single sequence MFE -33.55
Consensus MFE -29.77
Energy contribution -30.42
Covariance contribution 0.64
Combinations/Pair 1.19
Mean z-score -3.50
Structure conservation index 0.89
SVM decision value 3.11
SVM RNA-class probability 0.998467
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10256352 92 - 23771897
GCUGCACGCACGCGGUCUCAUUAUUGGGUCAACAAACUGGCUCGAUGAUGGAUCGAUUGCGUAUGCCAUUAAGUCUACAGA----CAAGUGCAAAA
..((((((((..(((((.(((((((((((((......))))))))))))))))))..)))............(((....))----)..)))))... ( -37.50)
>DroSec_CAF1 131960 92 - 1
GCUGCACGCACGCGGUCUCAUUAUUGGGUCAACAAACUGGCUCGAUGAUGGAUCGAUUGCGUAUGCCAUUAAGUCUACAGA----CAAGUGCAAAA
..((((((((..(((((.(((((((((((((......))))))))))))))))))..)))............(((....))----)..)))))... ( -37.50)
>DroSim_CAF1 137280 92 - 1
GCUGCACGCACGCGGUCUCAUUAUUGGGUCAACAAACUGGCUCGAUGAUGGAUCGAUUGCGUAUGCCAUUAAGUCUACAGA----CAAGUGCAAAA
..((((((((..(((((.(((((((((((((......))))))))))))))))))..)))............(((....))----)..)))))... ( -37.50)
>DroEre_CAF1 140727 91 - 1
GCUGCACGCACGCGGUCUCAUUAUUGGGUCGGCAAACUGGCUCCAUGAUGGAUC-AUUGCGUAUGCCAUUUAGUCUACAGA----CAAGUGCAAAA
..(((((((((((((((.((((((.(((((((....))))))).))))))))))-...))))..))......(((....))----)..)))))... ( -33.00)
>DroYak_CAF1 138998 92 - 1
GCUGCACGCACGCGGUCUCAUUAUUGGGUCAGCAAACUGGCUCCAUGAUGGAUCGAUUGCGUAUGCCAUUUAGUCUACAGA----CCAGUGCAAAA
..((((((((..(((((.((((((.(((((((....))))))).)))))))))))..)))(((.((......)).)))...----...)))))... ( -35.50)
>DroAna_CAF1 144724 95 - 1
GCCG-AUGCACGCGCUCUCAUUACCAGGUCCACAAACUGGCUCGAUGAUGGAUCGAUUCCAUAUAACAUUAAGUAUAUGCACAAUCUAGUGCGAAA
((..-..)).(((((..(((((.((((.........))))...)))))(((((.(....((((((........))))))..).))))))))))... ( -20.30)
>consensus
GCUGCACGCACGCGGUCUCAUUAUUGGGUCAACAAACUGGCUCGAUGAUGGAUCGAUUGCGUAUGCCAUUAAGUCUACAGA____CAAGUGCAAAA
..((((((((..(((((.(((((((((((((......))))))))))))))))))..)))(((.((......)).)))..........)))))... (-29.77 = -30.42 +   0.64)

alignment

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secondary structure

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dotplot

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Window 1

Location 10,256,382 – 10,256,478
Length 96
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 91.04
Mean single sequence MFE -30.87
Consensus MFE -25.86
Energy contribution -27.08
Covariance contribution 1.22
Combinations/Pair 1.13
Mean z-score -1.71
Structure conservation index 0.84
SVM decision value 0.09
SVM RNA-class probability 0.580443
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10256382 96 - 23771897
AGUUGUUGCGCCAAUGCUCCCGAAAAUUUUGUAGGCUGCACGCACGCGGUCUCAUUAUUGGGUCAACAAACUGGCUCGAUGAUGGAUCGAUUGCGU
.......(((((..(((.............)))))).))(((((..(((((.(((((((((((((......))))))))))))))))))..))))) ( -35.62)
>DroSec_CAF1 131990 96 - 1
AGUUGUUGCUCCAAUGCUCCCGAAAAUUAAGUAGGCUGCACGCACGCGGUCUCAUUAUUGGGUCAACAAACUGGCUCGAUGAUGGAUCGAUUGCGU
.((((......))))((..((............))..))(((((..(((((.(((((((((((((......))))))))))))))))))..))))) ( -33.90)
>DroSim_CAF1 137310 96 - 1
AGUUGUUGCGCCAAAGCUACCGAAAAUUAAGUAGGCUGCACGCACGCGGUCUCAUUAUUGGGUCAACAAACUGGCUCGAUGAUGGAUCGAUUGCGU
.......(((((...(((...........))).))).))(((((..(((((.(((((((((((((......))))))))))))))))))..))))) ( -35.30)
>DroEre_CAF1 140757 95 - 1
AGUUGUUGCACCAAUGCUCCCGAAAAUUAAGUAGGCUGCACGCACGCGGUCUCAUUAUUGGGUCGGCAAACUGGCUCCAUGAUGGAUC-AUUGCGU
.......(((((..((((...........)))))).)))(((((...((((.((((((.(((((((....))))))).))))))))))-..))))) ( -28.60)
>DroYak_CAF1 139028 96 - 1
AGUUGUUGCGCCAAUGCUCCCGAAAAUUAAGUAGGCUGCACGCACGCGGUCUCAUUAUUGGGUCAGCAAACUGGCUCCAUGAUGGAUCGAUUGCGU
.......(((((..((((...........))))))).))(((((..(((((.((((((.(((((((....))))))).)))))))))))..))))) ( -34.80)
>DroAna_CAF1 144758 95 - 1
AGUUGUUGCAACGAUGCCACCGAAAAUUAAGUACGCCG-AUGCACGCGCUCUCAUUACCAGGUCCACAAACUGGCUCGAUGAUGGAUCGAUUCCAU
........((.(((.((((((........((..(((..-......)))..))........))).........)))))).))(((((.....))))) ( -16.99)
>consensus
AGUUGUUGCGCCAAUGCUCCCGAAAAUUAAGUAGGCUGCACGCACGCGGUCUCAUUAUUGGGUCAACAAACUGGCUCGAUGAUGGAUCGAUUGCGU
.((((......))))((..((............))..))(((((..(((((.(((((((((((((......))))))))))))))))))..))))) (-25.86 = -27.08 +   1.22)

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 10:59:25 2006