Locus 5156

Sequence ID 3R_DroMel_CAF1
Location 13,541,917 – 13,542,047
Length 130
Max. P 0.986121
window8419 window8420

overview

Window 9

Location 13,541,917 – 13,542,010
Length 93
Sequences 3
Columns 93
Reading direction forward
Mean pairwise identity 98.57
Mean single sequence MFE -44.63
Consensus MFE -44.29
Energy contribution -44.40
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -2.84
Structure conservation index 0.99
SVM decision value 2.03
SVM RNA-class probability 0.986121
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13541917 93 + 27905053
CGGGCCCCGGUUGCUGCGGGGGUUGCUGUUGAGGAUGUGGCUGUUGUUGUUGUGGAGGCUUUCCACCUGGCAGCGGCUGGCCAUAGCGAUAUG
..((((((.((....)).))))))..(((((....((((((((((((((((((((((...))))))..))))))))).))))))).))))).. ( -40.70)
>DroSec_CAF1 16663 93 + 1
CGGGCCCCGGUUGCUGCGGGGGUUGCUGUUGAGGAUGUGGCUGUUGUUGCUGUGGAGGCUUUCCACCUGGCAGCGGCUGGCCAUAGCGAUAGG
..((((((.((....)).)))))).((((((....((((((((((((((((((((((...))))))..))))))))).))))))).)))))). ( -46.60)
>DroSim_CAF1 13677 93 + 1
CGGGCCCCGGUUGCUGCGGGGGUUGCUGUUGAGGAUGUGGCUGUUGUUGCUGUGGAGGCUUUCCACCUGGCAGCGGCUGGCCAUAGCGAUAGG
..((((((.((....)).)))))).((((((....((((((((((((((((((((((...))))))..))))))))).))))))).)))))). ( -46.60)
>consensus
CGGGCCCCGGUUGCUGCGGGGGUUGCUGUUGAGGAUGUGGCUGUUGUUGCUGUGGAGGCUUUCCACCUGGCAGCGGCUGGCCAUAGCGAUAGG
..((((((.((....)).)))))).((((((....((((((((((((((((((((((...))))))..))))))))).))))))).)))))). (-44.29 = -44.40 +   0.11)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 0

Location 13,541,951 – 13,542,047
Length 96
Sequences 4
Columns 99
Reading direction forward
Mean pairwise identity 86.15
Mean single sequence MFE -40.70
Consensus MFE -31.30
Energy contribution -32.05
Covariance contribution 0.75
Combinations/Pair 1.20
Mean z-score -1.96
Structure conservation index 0.77
SVM decision value 0.79
SVM RNA-class probability 0.851422
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13541951 96 + 27905053
AUGUGGCUGUUGUUGUUGUGGAGGCUUUCCACCUGGCAGCGGCUGGCCAUAGCGAUAUGGAUCCAUGUUGGGAUCGGC---GUGGUAGCGACCAUACGC
.((((((((((((((((((((((...))))))..))))))))).)))))))(((.(((((..((((((((....))))---))))......)))))))) ( -42.00)
>DroGri_CAF1 10875 94 + 1
--GUUGCUGCUGCUGGUGCGGCGGUUUGCCUCCAGGCGGUGGCUG---AUAGCGAUAGGGAUCCAUAUUGGGAUCGGCGGAGUGAUAGCGCCCAUAGGC
--...((((((((....))))))))..((((...((((.((((((---((..(((((.(....).)))))..)))))).......)).))))...)))) ( -35.61)
>DroSec_CAF1 16697 96 + 1
AUGUGGCUGUUGUUGCUGUGGAGGCUUUCCACCUGGCAGCGGCUGGCCAUAGCGAUAGGGAUCCAUGUUGGGAUCGGC---GUGGUAGCGACCGUACGC
.((((((((((((((((((((((...))))))..))))))))).)))))))(((.....(((((......)))))(((---((....))).))...))) ( -42.60)
>DroSim_CAF1 13711 96 + 1
AUGUGGCUGUUGUUGCUGUGGAGGCUUUCCACCUGGCAGCGGCUGGCCAUAGCGAUAGGGAUCCAUGUUGGGAUCGGC---GUGGUAGCGACCGUACGC
.((((((((((((((((((((((...))))))..))))))))).)))))))(((.....(((((......)))))(((---((....))).))...))) ( -42.60)
>consensus
AUGUGGCUGUUGUUGCUGUGGAGGCUUUCCACCUGGCAGCGGCUGGCCAUAGCGAUAGGGAUCCAUGUUGGGAUCGGC___GUGGUAGCGACCAUACGC
.((((((((((((((((((((((...))))))..))))))))).)))))))(((.....(((((......)))))......(((((....))))).))) (-31.30 = -32.05 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:50 2006