Locus 1448

Sequence ID 3R_DroMel_CAF1
Location 4,172,873 – 4,172,993
Length 120
Max. P 0.554637
window2412

overview

Window 2

Location 4,172,873 – 4,172,993
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.58
Mean single sequence MFE -44.56
Consensus MFE -27.26
Energy contribution -29.38
Covariance contribution 2.12
Combinations/Pair 1.29
Mean z-score -1.90
Structure conservation index 0.61
SVM decision value 0.04
SVM RNA-class probability 0.554637
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4172873 120 - 27905053
AGCGCUCCACCCAUGACUGGAUGUACCCCUCGUGGGUGGGCUCGUAGGUCUUCAGCUGGACCUUUUGGUCCUGGCCGAUCGCCGUGUUGGCCUGGACGAGAAUCAUACGCGGCUUCUUGU
(((((.((((((((((..((.....))..)))))))))))).(((((((((......)))))((((.((((.(((((((......))))))).)))).))))...))))..)))...... ( -54.50)
>DroSim_CAF1 23276 120 - 1
AGCGCUCCACCCAUGACUGGAUGUACCCCUCGUGGGUUGGCUCGUAGGUCUUCAGCUGGACCUUUUGGUCCUGGCCGAUCGCCGUGUUGGCCUGGACGAGGAUCAUACGCGGCUUCUUGU
.(((..((((((((((..((.....))..))))))).)))..))).((((....((((((((....))))).))).))))(((((((((((((.....))).))).)))))))....... ( -50.20)
>DroWil_CAF1 9337 120 - 1
AACGAUCCACCCACGAUUGAAUGUAACCCUCAUGAGUGGGUUCGUACGUCUUCAAUUGGACCUUGUUGUCGUUAUUAACCACAGUAUUGGCCUGAACAAGAAUCAUUCGGGGUUUCUUAU
...((...((((.(((.((((((.(((((........))))))))..((((......))))((((((((((.((((......)))).))))...))))))..))).))))))).)).... ( -31.50)
>DroYak_CAF1 22972 120 - 1
AGCGCUCCACCCAUGACUGGAUGUACCCCUCGUGGGUGGCCUCAUAGGUUUUCAGCUGCACCUUUUGGUCCUUGCCAAUCGCCGUGUUGGCCUGGACGAGGAUCAUACGCGGCUUCUUGU
......((((((((((..((.....))..))))))))))....(((((.....((((((......((((((((((((...(((.....))).))).)))))))))...)))))).))))) ( -47.70)
>DroAna_CAF1 19839 120 - 1
AUCGCUCUACCCAGGAUUGAAUGUAACCCUCGUGCGUGGGCUCGUAGGUCUUCAGUUGCACCUUCUGGUUCUUGUCCACCUCUGUGUUGGCCUGGACAAGAAUCAUGCGCGGCUUCUUGU
.((((.........(((((((....(((..((.((....)).))..))).)))))))(((.....(((((((((((((((........))..))))))))))))))))))))........ ( -38.90)
>consensus
AGCGCUCCACCCAUGACUGGAUGUACCCCUCGUGGGUGGGCUCGUAGGUCUUCAGCUGGACCUUUUGGUCCUUGCCAAUCGCCGUGUUGGCCUGGACGAGAAUCAUACGCGGCUUCUUGU
......((((((((((..((.....))..))))))))))((((((((((((......)))))((((.((((..((((((......))))))..)))).))))...)))).)))....... (-27.26 = -29.38 +   2.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:51 2006