Locus 9550

Sequence ID 3R_DroMel_CAF1
Location 25,234,926 – 25,235,016
Length 90
Max. P 0.870480
window15274 window15275

overview

Window 4

Location 25,234,926 – 25,235,016
Length 90
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 84.20
Mean single sequence MFE -25.70
Consensus MFE -21.33
Energy contribution -21.23
Covariance contribution -0.09
Combinations/Pair 1.12
Mean z-score -2.26
Structure conservation index 0.83
SVM decision value 0.87
SVM RNA-class probability 0.870480
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25234926 90 + 27905053
UCGCCAUGCUUCGCUGGCUAGCCCGCAUUUU-AAAAUGCAAACACAGAUGCAUGCGGGCAUCCAUUAGCAUAAACUUUAAGGACAUUCGCA----------
..((((.((...))))))..(((((((....-....((((........))))))))))).(((.((((........)))))))........---------- ( -24.40)
>DroSec_CAF1 92035 90 + 1
UCGCCAUGCUUCGCUGGCUAGCCCGCAUUUC-AAAAUGCAAACACAGAUGCAUGCGGGCAUCCAUUAGCAUAAACUUUAAGGACAUCCGCA----------
..((.(((((....(((...(((((((....-....((((........)))))))))))..)))..))))).........((....)))).---------- ( -26.70)
>DroSim_CAF1 93690 90 + 1
UCGCCAUGCUUCGCUGGCUAGCCCGCAUUUC-AAAAUGCAAACACAGAUGCAUGCGGGCAUCCAUUAGCAUAAACUUUAAGGACAUCCGCA----------
..((.(((((....(((...(((((((....-....((((........)))))))))))..)))..))))).........((....)))).---------- ( -26.70)
>DroEre_CAF1 100607 90 + 1
UCGCCAUGCCUCGCUGGCUAGCCCGCAUUUC-AAAAUGCAAACCCAGAUGCAUGCGGGCAUCCAUUAGCAUAAACUUUGGGGACAUCCGCA----------
..((((.((...))))))..(((((((....-....((((........)))))))))))..(((..((......)).)))((....))...---------- ( -26.10)
>DroYak_CAF1 96060 90 + 1
UCGCCAUGCUUCGCUGGCUAGCCCGCAUCUC-AAAAUGCAAACCAAGAUGCAUGCGGGCAUCCAUUAGCAUAAACUUUAGGGACAUCCGCA----------
..((.(((((....(((...(((((((....-....((((........)))))))))))..)))..))))).........((....)))).---------- ( -26.50)
>DroAna_CAF1 88949 94 + 1
UCCCCA-------CUGGUUAACCCGCAUGACUCGAAUGCAAAUACAAGUGCAUGCGGGCGGCCAUUAGCAUCAACUUUAAGGUCCUUUACACACACAGUCA
.....(-------(((.....(((((((((((.(.((....)).).))).)))))))).((((.((((........))))))))...........)))).. ( -23.80)
>consensus
UCGCCAUGCUUCGCUGGCUAGCCCGCAUUUC_AAAAUGCAAACACAGAUGCAUGCGGGCAUCCAUUAGCAUAAACUUUAAGGACAUCCGCA__________
..((((.((...))))))..(((((((.........((((........))))))))))).(((.((((........))))))).................. (-21.33 = -21.23 +  -0.09)

alignment

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secondary structure

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dotplot

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Window 5

Location 25,234,926 – 25,235,016
Length 90
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 84.20
Mean single sequence MFE -31.35
Consensus MFE -24.83
Energy contribution -24.88
Covariance contribution 0.06
Combinations/Pair 1.09
Mean z-score -2.09
Structure conservation index 0.79
SVM decision value 0.48
SVM RNA-class probability 0.752974
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25234926 90 - 27905053
----------UGCGAAUGUCCUUAAAGUUUAUGCUAAUGGAUGCCCGCAUGCAUCUGUGUUUGCAUUUU-AAAAUGCGGGCUAGCCAGCGAAGCAUGGCGA
----------.......((((....(((....)))...))))((((((((......(((....)))...-...))))))))..((((((...)).)))).. ( -29.30)
>DroSec_CAF1 92035 90 - 1
----------UGCGGAUGUCCUUAAAGUUUAUGCUAAUGGAUGCCCGCAUGCAUCUGUGUUUGCAUUUU-GAAAUGCGGGCUAGCCAGCGAAGCAUGGCGA
----------.((((....))........((((((..(((..((((((((......(((....)))...-...))))))))...)))....)))))))).. ( -32.10)
>DroSim_CAF1 93690 90 - 1
----------UGCGGAUGUCCUUAAAGUUUAUGCUAAUGGAUGCCCGCAUGCAUCUGUGUUUGCAUUUU-GAAAUGCGGGCUAGCCAGCGAAGCAUGGCGA
----------.((((....))........((((((..(((..((((((((......(((....)))...-...))))))))...)))....)))))))).. ( -32.10)
>DroEre_CAF1 100607 90 - 1
----------UGCGGAUGUCCCCAAAGUUUAUGCUAAUGGAUGCCCGCAUGCAUCUGGGUUUGCAUUUU-GAAAUGCGGGCUAGCCAGCGAGGCAUGGCGA
----------(((((..((((....(((....)))...))))..)))))(((.....((((((((((..-..)))))))))).(((.....)))...))). ( -31.30)
>DroYak_CAF1 96060 90 - 1
----------UGCGGAUGUCCCUAAAGUUUAUGCUAAUGGAUGCCCGCAUGCAUCUUGGUUUGCAUUUU-GAGAUGCGGGCUAGCCAGCGAAGCAUGGCGA
----------(((((..((((....(((....)))...))))..)))))(((((((..(........).-.))))))).....((((((...)).)))).. ( -32.70)
>DroAna_CAF1 88949 94 - 1
UGACUGUGUGUGUAAAGGACCUUAAAGUUGAUGCUAAUGGCCGCCCGCAUGCACUUGUAUUUGCAUUCGAGUCAUGCGGGUUAACCAG-------UGGGGA
(.((((.((.......((.((....(((....)))...))))(((((((((.(((((..........))))))))))))))..)))))-------).)... ( -30.60)
>consensus
__________UGCGGAUGUCCUUAAAGUUUAUGCUAAUGGAUGCCCGCAUGCAUCUGUGUUUGCAUUUU_GAAAUGCGGGCUAGCCAGCGAAGCAUGGCGA
.................((((....(((....)))...))))(((((((((((........)))).........)))))))..((((........)))).. (-24.83 = -24.88 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:36:58 2006