Locus 1617

Sequence ID 3R_DroMel_CAF1
Location 4,668,787 – 4,668,881
Length 94
Max. P 0.542068
window2662

overview

Window 2

Location 4,668,787 – 4,668,881
Length 94
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 83.48
Mean single sequence MFE -28.87
Consensus MFE -18.83
Energy contribution -19.09
Covariance contribution 0.25
Combinations/Pair 1.25
Mean z-score -2.08
Structure conservation index 0.65
SVM decision value 0.02
SVM RNA-class probability 0.542068
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4668787 94 - 27905053
AAUCGUGUCCGAGUGGCUAAACAUUCAUGGGUCUUUCAAAGGGCCUGGGCAACAGGUCGCAUAC--------------AAGAGUGUGUAAAAGUAAUGGAAAUGCGGA
..((((.((((((((......)))))......((((.....((((((.....))))))((((((--------------....)))))).))))....)))...)))). ( -27.80)
>DroSec_CAF1 18546 94 - 1
AAUCGUGUCCGAGGGGCUAAACAUUCAUGGGUCGUUCAAAGGGCCUGGGCAACAGGUCGCAUAC--------------AAGAGUGUGUAAAAGUAAUGGAAAUGCGGA
..((((.((((((.((((...........)))).)))....((((((.....))))))((((((--------------....)))))).........)))...)))). ( -28.10)
>DroSim_CAF1 18728 94 - 1
AAUCGUGUCCGAGUGGCUAAACAUUCAUGGGUCGUUCAAAGGGCCUGGGCAACAGGUCGCAUAC--------------GAGAGUGUGUAAAAGUAAUGGAAAUGCGGA
..((((.((((((((......)))))...............((((((.....))))))((((((--------------....)))))).........)))...)))). ( -30.20)
>DroEre_CAF1 18618 92 - 1
AAUCGUGUCCGAGUGGCUACACAUUCAUGGGUCGUCCA-AGGGCCUGGGCAACAGGUCGCAUAC--------------AAGAGUGUGUAA-AAUAGUGGAAAUGCGGA
..((((.((((......(((((((((.((((....)).-..((((((.....)))))).....)--------------).))))))))).-.....))))...)))). ( -31.50)
>DroYak_CAF1 19048 93 - 1
AAUCGUGUCCGAGUGGCUAAACAUUCAUGGGUCGUUCA-AGGGAAUGGGCAACAGGUCGCAUAC--------------AAGAGUGUGUAAAAAUAAUGGAAGUGCGGA
..((((.((((((((......)))))...(.((((((.-...)))))).)........((((((--------------....)))))).........)))...)))). ( -23.60)
>DroAna_CAF1 22345 107 - 1
AAUCGUGUUCGAGUGAGUGAACGUUCAUGGGUCGUUUG-UGGGCUUGGGCAACAGGUCGCAGUCAGACUGUGGCUCACAAGCAAAUUCAAAAUGAAUUGAAAAACGGA
..(((((((((......)))))((((((.((..(((((-(((((...(....)....(((((.....)))))))))))))))....))...))))))......)))). ( -32.00)
>consensus
AAUCGUGUCCGAGUGGCUAAACAUUCAUGGGUCGUUCA_AGGGCCUGGGCAACAGGUCGCAUAC______________AAGAGUGUGUAAAAGUAAUGGAAAUGCGGA
..((((.((((((((......)))))...............((((((.....))))))((((((..................)))))).........)))...)))). (-18.83 = -19.09 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:55 2006