Locus 3527

Sequence ID 3R_DroMel_CAF1
Location 9,536,959 – 9,537,073
Length 114
Max. P 0.951683
window5671

overview

Window 1

Location 9,536,959 – 9,537,073
Length 114
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 76.49
Mean single sequence MFE -41.90
Consensus MFE -27.51
Energy contribution -28.47
Covariance contribution 0.95
Combinations/Pair 1.38
Mean z-score -1.92
Structure conservation index 0.66
SVM decision value 1.41
SVM RNA-class probability 0.951683
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9536959 114 + 27905053
AUGCGUUCAUCUGGUUUCAGGCCAAAAUUCCCGAGAAUCAGCAACUUGGCAGUGGUGCCUUUGGGAGCCAUGCGCCUCAGGGCGGCCAGGUUGCUCAGAUCCAUGGCGAAGAUG
.......((((((((.....))))...((((((.(.((((((((((((((.(((((.((....)).))))).((((....)))))))))))))))..))).).))).))))))) ( -46.20)
>DroSec_CAF1 13936 114 + 1
AUGCGUUCAUCUGGUUUCAGGCCAAAAUUCCCCAAAAUCAGCAACUUGGCAGUGGCGCCUUUGGGAGCCAUGCGCCUCAGGGCGGCCAGGUUGCUGAGAUCCAUGCCGAAGAUG
..((((..(((((((.....)))).............(((((((((((((.(((((.((....)).))))).((((....))))))))))))))))))))..))))........ ( -49.30)
>DroEre_CAF1 14311 114 + 1
AUGCGUUCAUCUGGCCUGAGACCGAAGUCCCCCAGGAGAAGCAACUUGGCAGUGGCGCCUUUGGGGGCCAUACGCCUCAGGGCGGCUAGGUUGCUCAGAUCCAUGCCGAAGAUA
..((((..(((((.((((.(((....)))...))))...(((((((((((.(((((.((....)).))))).((((....))))))))))))))))))))..))))........ ( -50.70)
>DroWil_CAF1 13855 114 + 1
ACGCGGUUGUCCGGAUGCAAGCCAAAGUCACCCAACAGUAGCAGCUUGGCGGUGGCAUAUUGCGGCGCCAUCCGUUUCAGCGACUCCAUAUUAUUUGGAUCCAUGCCAAAAAUA
..(((((((..((((((...(((.....(((((...(((....)))..).))))((.....)))))..))))))...))))((.((((.......))))))..)))........ ( -32.60)
>DroYak_CAF1 14228 114 + 1
AUGCGUUCAUCUGGUUUUAGGCCAAAAUCCCCAAGGAGAAGCAGCUUGGUAGUGGCGCCCUUGGGAGCCAUACGCCUUAGGGCGGCUAGGUUGCUCAGAUCCAUGCCGAAGAUG
.......((((((((.....)))....((..((.(((..(((((((((((.(((((.((....)).))))).((((....)))))))))))))))....))).))..))))))) ( -44.80)
>DroAna_CAF1 23623 114 + 1
AUACGUUCAUCCGGCUUCAGACCAAAAUCCCCCAACAGGAACAUCUUGGCCGUACUGUAACUUGGAGCUAUCCGCUUCAAGGCCGCCAAAUUGCUCCGAUCCAUGGCGAAGAUA
....((((....(((....).)).........(....)))))(((((.(((((.......((((((((.....))))))))...((......))........))))).))))). ( -27.80)
>consensus
AUGCGUUCAUCUGGUUUCAGGCCAAAAUCCCCCAAAAGAAGCAACUUGGCAGUGGCGCCUUUGGGAGCCAUACGCCUCAGGGCGGCCAGGUUGCUCAGAUCCAUGCCGAAGAUA
..((((..((((((.......))................(((((((((((.(((((.((....)).))))).((((....))))))))))))))).))))..))))........ (-27.51 = -28.47 +   0.95)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:26 2006