Locus 270

Sequence ID 2L_DroMel_CAF1
Location 779,255 – 779,374
Length 119
Max. P 0.992199
window430 window431

overview

Window 0

Location 779,255 – 779,346
Length 91
Sequences 4
Columns 117
Reading direction reverse
Mean pairwise identity 60.62
Mean single sequence MFE -40.88
Consensus MFE -18.17
Energy contribution -25.55
Covariance contribution 7.38
Combinations/Pair 1.24
Mean z-score -2.81
Structure conservation index 0.44
SVM decision value 2.31
SVM RNA-class probability 0.992199
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 779255 91 - 22407834
CCUUGAGGUCCACCCUGGGGUCCGCCCUGUGGUCCACCUUGAGGUCCACCCUGAGGUCCACCCUGAGGUCCGCCCUGGGGUCCACCUUGAG--------------------------
.((..((((..((((..((((..((((.((((...(((((..((....))..)))))))))...).)))..))))..))))..))))..))-------------------------- ( -44.70)
>DroSec_CAF1 39666 117 - 1
CCUUGAGGUCCACCCUGGGGUCCACCCUGAGGUCCACCUUGGGGUCCACCUUGGGGUCCACCUUGGGGUCCACCUUGGGGUCCACCUUGGGGUCCACCUUGGGGUCCACCAUGGGGU
(((((.(((..((((..((((..((((..((((..((((..((((..((((..(((....)))..))))..))))..))))..))))..))))..))))..))))..))).))))). ( -69.50)
>DroEre_CAF1 39309 79 - 1
CCAU------------GAGGUCCACCAUGAGGUCCACCCUGCGCUCCACCAUGAGGUCCACCCUGAGGACCUCCACGUCGGCCACCUUGAG--------------------------
....------------..((((.((...(((((((.(..((.((..(.....)..)).))....).)))))))...)).))))........-------------------------- ( -21.20)
>DroAna_CAF1 40313 70 - 1
CCU---------------GGUCCACCCUGAGGACCUCCU---GGUCCACCUCGAGGGCCUCCU---GGUCCUCCACGACGGCCACCCUGAG--------------------------
..(---------------((((........(((((....---))))).....(((((((....---)))))))......))))).......-------------------------- ( -28.10)
>consensus
CCUU____________GGGGUCCACCCUGAGGUCCACCUUG_GGUCCACCUUGAGGUCCACCCUGAGGUCCUCCACGGCGGCCACCUUGAG__________________________
.((((((((..((((((((((..(((.((((((..(((((..((....))..)))))..)))))).)))..))))))))))..)))))))).......................... (-18.17 = -25.55 +   7.38)

alignment

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secondary structure

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dotplot

Postscript

Window 1

Location 779,269 – 779,374
Length 105
Sequences 4
Columns 117
Reading direction reverse
Mean pairwise identity 64.31
Mean single sequence MFE -44.45
Consensus MFE -19.14
Energy contribution -21.45
Covariance contribution 2.31
Combinations/Pair 1.18
Mean z-score -2.90
Structure conservation index 0.43
SVM decision value 2.26
SVM RNA-class probability 0.991380
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 779269 105 - 22407834
UCCUCCCUGAGGAC------------CACCCUGGGGUCCACCUUGAGGUCCACCCUGGGGUCCGCCCUGUGGUCCACCUUGAGGUCCACCCUGAGGUCCACCCUGAGGUCCGCCCUG
.....(((.(((..------------.(((..(((((..((((..((((..(((.(((((....))))).)))..))))..))))..)))))..)))....))).)))......... ( -46.60)
>DroSec_CAF1 39706 117 - 1
UCCGCCCUGAGGACCGCCCUGAGGACCGCCCUGUGGUCCACCUUGAGGUCCACCCUGGGGUCCACCCUGAGGUCCACCUUGGGGUCCACCUUGGGGUCCACCUUGGGGUCCACCUUG
........((((..........(((((((...)))))))((((..((((..((((..((((..((((..(((....)))..))))..))))..))))..))))..))))...)))). ( -61.70)
>DroEre_CAF1 39323 105 - 1
UCCACCAUGAGGUCCAUCGUGCGCUCCACCAUGAGGUCCACCAU------------GAGGUCCACCAUGAGGUCCACCCUGCGCUCCACCAUGAGGUCCACCCUGAGGACCUCCACG
........(((((((.(((.((((.....((((.((.((.....------------..)).))..))))(((.....))))))).).......(((.....)))))))))))).... ( -31.70)
>DroAna_CAF1 40327 81 - 1
ACCACCCUGAGGAC------------CGCCUGG---GCCUCCU---------------GGUCCACCCUGAGGACCUCCU---GGUCCACCUCGAGGGCCUCCU---GGUCCUCCACG
........((((..------------....(((---(((....---------------))))))......(((((....---))))).))))(((((((....---))))))).... ( -37.80)
>consensus
UCCACCCUGAGGAC____________CACCCUG_GGUCCACCUU____________GGGGUCCACCCUGAGGUCCACCUUG_GGUCCACCUUGAGGUCCACCCUGAGGUCCUCCACG
........(((((((...................(((..((((((.((....)).))))))..)))....(((..(((((..((....))..)))))..)))....))))))).... (-19.14 = -21.45 +   2.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:31:40 2006