Locus 2770

Sequence ID X_DroMel_CAF1
Location 7,462,542 – 7,462,632
Length 90
Max. P 0.999822
window4522 window4523

overview

Window 2

Location 7,462,542 – 7,462,632
Length 90
Sequences 4
Columns 94
Reading direction forward
Mean pairwise identity 76.88
Mean single sequence MFE -26.27
Consensus MFE -15.96
Energy contribution -17.52
Covariance contribution 1.56
Combinations/Pair 1.12
Mean z-score -3.53
Structure conservation index 0.61
SVM decision value 4.17
SVM RNA-class probability 0.999822
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7462542 90 + 22224390
GCA-GCCAGCGAUCAAUGUGAUCAAUCGCGCUUCAAUUUUUCUUCUUU---UCAAAGAAGAAAGAGAUUUGGUUUGCUGGUGCUUUUGCUUUUU
(((-.(((((((((((.((((....)))).......(((((((((((.---...)))))))))))...)))).))))))))))........... ( -29.00)
>DroSec_CAF1 210846 83 + 1
GCA-GCCAGCGAUCAAUGUGAUCAAUCGCGCUUCAAUUUUUCUUCUUU---UCAAAGAAGAAAGAGAUUUGGUUUGCUGGUGCUUUU-------
(((-.(((((((((((.((((....)))).......(((((((((((.---...)))))))))))...)))).))))))))))....------- ( -29.00)
>DroEre_CAF1 226818 79 + 1
GCA-GCCAGCGAUCAAUGUGAUCAAUCGCGCUUCAAUUUUUCUUCUUU---UCAAAGAAGAAAGAGAUUUGGUUUGCUGCUGC-----------
(((-((.(((((((((.((((....)))).......(((((((((((.---...)))))))))))...)))).))))))))))----------- ( -27.80)
>DroWil_CAF1 246049 90 + 1
GCAAGCAAACGAUCAAUGUGAUCAAUCGUGCUUCAAUUUUUCUUAUGUCUCUCUAACA----CAAGACUUUGUCUUGUAGUAGUAGUAAGUCUU
(.(((((...((((.....)))).....)))))).......(((((......(((..(----((((((...)))))))..)))..))))).... ( -19.30)
>consensus
GCA_GCCAGCGAUCAAUGUGAUCAAUCGCGCUUCAAUUUUUCUUCUUU___UCAAAGAAGAAAGAGAUUUGGUUUGCUGGUGCUUUU_______
(((.(((((((((...((....))))))).......((((((((((((.....))))))))))))....)))).)))................. (-15.96 = -17.52 +   1.56)

alignment

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secondary structure

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dotplot

Postscript

Window 3

Location 7,462,542 – 7,462,632
Length 90
Sequences 4
Columns 94
Reading direction reverse
Mean pairwise identity 76.88
Mean single sequence MFE -23.55
Consensus MFE -14.23
Energy contribution -15.35
Covariance contribution 1.12
Combinations/Pair 1.12
Mean z-score -3.46
Structure conservation index 0.60
SVM decision value 4.06
SVM RNA-class probability 0.999777
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7462542 90 - 22224390
AAAAAGCAAAAGCACCAGCAAACCAAAUCUCUUUCUUCUUUGA---AAAGAAGAAAAAUUGAAGCGCGAUUGAUCACAUUGAUCGCUGGC-UGC
...........((((((((............(((((((((...---.)))))))))(((((.....)))))((((.....))))))))).-))) ( -24.40)
>DroSec_CAF1 210846 83 - 1
-------AAAAGCACCAGCAAACCAAAUCUCUUUCUUCUUUGA---AAAGAAGAAAAAUUGAAGCGCGAUUGAUCACAUUGAUCGCUGGC-UGC
-------....((((((((............(((((((((...---.)))))))))(((((.....)))))((((.....))))))))).-))) ( -24.40)
>DroEre_CAF1 226818 79 - 1
-----------GCAGCAGCAAACCAAAUCUCUUUCUUCUUUGA---AAAGAAGAAAAAUUGAAGCGCGAUUGAUCACAUUGAUCGCUGGC-UGC
-----------...(((((............(((((((((...---.))))))))).........(((((..((...))..)))))..))-))) ( -24.60)
>DroWil_CAF1 246049 90 - 1
AAGACUUACUACUACUACAAGACAAAGUCUUG----UGUUAGAGAGACAUAAGAAAAAUUGAAGCACGAUUGAUCACAUUGAUCGUUUGCUUGC
........((.(((.((((((((...))))))----)).))))).................(((((((((..((...))..)))))..)))).. ( -20.80)
>consensus
_______AAAAGCACCAGCAAACCAAAUCUCUUUCUUCUUUGA___AAAGAAGAAAAAUUGAAGCGCGAUUGAUCACAUUGAUCGCUGGC_UGC
.................(((..(((..((..((((((((((.....))))))))))....))...(((((..((...))..))))))))..))) (-14.23 = -15.35 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:42:46 2006