Locus 7212

Sequence ID 2L_DroMel_CAF1
Location 20,251,101 – 20,251,220
Length 119
Max. P 0.717785
window11533 window11534

overview

Window 3

Location 20,251,101 – 20,251,220
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 88.00
Mean single sequence MFE -40.33
Consensus MFE -30.35
Energy contribution -31.80
Covariance contribution 1.45
Combinations/Pair 1.03
Mean z-score -2.38
Structure conservation index 0.75
SVM decision value 0.39
SVM RNA-class probability 0.717785
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20251101 119 + 22407834
AAUCAUGGCCGAGUGCAAUCAAUCA-UUGGGAUUGGGCAUAGAUGGCGUCCAGAGUCCAGUCAGAUUGAUUGCCCAUUGGAUUGGGAUUGUUAUUGGAAGGAUACGGAUUCGGAUUCGGA
........(((((((((((((((((-(((((.((((((.........))))))..))))))..))))))))))...(((((((.(.(((.((.....)).))).).))))))))))))). ( -38.50)
>DroSec_CAF1 12672 110 + 1
AAUCAUGGCCGAGUGCAAUCAAUCA-UUGGGAUUGGGCGUAGAUGGCGUCCAGAGUCCAGUCAGAUUGAUUGCCCAUUGGAUUGGGAUUGGUAUUG---GGAUACG------GACUCGGA
........(((((((((((((((((-(((((.((((((((.....))))))))..))))))..))))))))))(((......))).....((((..---..)))).------.)))))). ( -42.80)
>DroSim_CAF1 11081 109 + 1
AAUCAUGGCCGAGUGCAAUCCUCCUCUCGGGAUUGGGCAUAGAUGGCGUCCCGAGUCCAGUCAGAUUGAUUGCCCAUUGGAU-GGGAUUGGUAU-G---GGAUACG------GACUCGGA
.......((((.((.(((((((......))))))).)).....))))...((((((((.(((..((..((..(((((...))-)))))..))..-.---.)))..)------))))))). ( -39.70)
>consensus
AAUCAUGGCCGAGUGCAAUCAAUCA_UUGGGAUUGGGCAUAGAUGGCGUCCAGAGUCCAGUCAGAUUGAUUGCCCAUUGGAUUGGGAUUGGUAUUG___GGAUACG______GACUCGGA
........((((((((((((((((......((((((((.....(((...)))..)))))))).))))))))))(((......)))............................)))))). (-30.35 = -31.80 +   1.45)

alignment

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secondary structure

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dotplot

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Window 4

Location 20,251,101 – 20,251,220
Length 119
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 88.00
Mean single sequence MFE -28.87
Consensus MFE -23.14
Energy contribution -24.37
Covariance contribution 1.23
Combinations/Pair 1.07
Mean z-score -2.12
Structure conservation index 0.80
SVM decision value 0.33
SVM RNA-class probability 0.689998
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20251101 119 - 22407834
UCCGAAUCCGAAUCCGUAUCCUUCCAAUAACAAUCCCAAUCCAAUGGGCAAUCAAUCUGACUGGACUCUGGACGCCAUCUAUGCCCAAUCCCAA-UGAUUGAUUGCACUCGGCCAUGAUU
.......((((........................(((......)))((((((((((.....(((...(((..((.......))))).)))...-.))))))))))..))))........ ( -24.70)
>DroSec_CAF1 12672 110 - 1
UCCGAGUC------CGUAUCC---CAAUACCAAUCCCAAUCCAAUGGGCAAUCAAUCUGACUGGACUCUGGACGCCAUCUACGCCCAAUCCCAA-UGAUUGAUUGCACUCGGCCAUGAUU
.((((((.------.......---...........(((......)))((((((((((.....(((...(((.((.......)).))).)))...-.))))))))))))))))........ ( -30.20)
>DroSim_CAF1 11081 109 - 1
UCCGAGUC------CGUAUCC---C-AUACCAAUCCC-AUCCAAUGGGCAAUCAAUCUGACUGGACUCGGGACGCCAUCUAUGCCCAAUCCCGAGAGGAGGAUUGCACUCGGCCAUGAUU
.((((((.------((.((((---(-...(((..(((-((...)))))...((.....)).))).(((((((.((.......))....)))))))..).)))))).))))))........ ( -31.70)
>consensus
UCCGAGUC______CGUAUCC___CAAUACCAAUCCCAAUCCAAUGGGCAAUCAAUCUGACUGGACUCUGGACGCCAUCUAUGCCCAAUCCCAA_UGAUUGAUUGCACUCGGCCAUGAUU
.((((((............................(((......)))((((((((((.....(((...(((.((.......)).))).))).....))))))))))))))))........ (-23.14 = -24.37 +   1.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:30:27 2006