Locus 3305

Sequence ID 3L_DroMel_CAF1
Location 9,687,571 – 9,687,662
Length 91
Max. P 0.903871
window5142

overview

Window 2

Location 9,687,571 – 9,687,662
Length 91
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 90.58
Mean single sequence MFE -34.78
Consensus MFE -32.21
Energy contribution -32.18
Covariance contribution -0.02
Combinations/Pair 1.10
Mean z-score -1.47
Structure conservation index 0.93
SVM decision value 1.03
SVM RNA-class probability 0.903871
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9687571 91 - 23771897
GCGUAAAGGAACGACCAGGAGAGCACC-----AAGAUGACCUCGUACGUGCGUGCCAUGUACGACUUUACCGGGGAGCCGGGCUCCUCGGAGCUCU
.(((......)))......(((((...-----....(((..(((((((((.....)))))))))..)))(((((((((...))))))))).))))) ( -35.50)
>DroSec_CAF1 9248 91 - 1
GCGUAAAGGAACGACCAGGAGAGCACC-----AAGAUGACCUCGUACGUGCGCGCCAUGUACGACUUUACCGGGGAGCCGGGCUCCUCGGAGCUCU
.(((......)))......(((((...-----....(((..(((((((((.....)))))))))..)))(((((((((...))))))))).))))) ( -35.50)
>DroSim_CAF1 7102 91 - 1
GCGUAAAGGAACGACCAGGAGAGCACU-----AAGAUGACCUCGUACGUGCGCGCCAUGUACGACUUUACCGGGGAGCCGGGCUCCUCGGAGCUCU
.(((......)))......(((((...-----....(((..(((((((((.....)))))))))..)))(((((((((...))))))))).))))) ( -35.50)
>DroEre_CAF1 11519 91 - 1
GCGUAAAGGAACGACCAGGAGAGCACC-----AAGAUGACCUCGUACGUGCGCGCCAUGUACGACUUUACCGGGGAGCCGGGCUCCUCGGAGCUCU
.(((......)))......(((((...-----....(((..(((((((((.....)))))))))..)))(((((((((...))))))))).))))) ( -35.50)
>DroYak_CAF1 6492 91 - 1
GCGUAAAGGAACGACCAGGAGAGGACA-----AAGAUGACCUCGUACGUGCGCGCCAUGUACGACUUUACCGGGGAGCCGGGCUCCUCGGAGCUCU
((.(((((............((((.((-----....)).))))(((((((.....)))))))..)))))(((((((((...))))))))).))... ( -34.30)
>DroPer_CAF1 2234 90 - 1
GCUUCAAGGAAAC------AGUGCAAUAAGAAAAGAUGACCUCGUACGUGCGCGCCAUGUACGACUUCAGCGGCGAGCCUGGCUCGUCGGAGCUCU
(((((..(....)------...............(.(((..(((((((((.....)))))))))..))).)(((((((...))))))))))))... ( -32.40)
>consensus
GCGUAAAGGAACGACCAGGAGAGCACC_____AAGAUGACCUCGUACGUGCGCGCCAUGUACGACUUUACCGGGGAGCCGGGCUCCUCGGAGCUCU
.(((......)))......(((((............(((..(((((((((.....)))))))))..)))(((((((((...))))))))).))))) (-32.21 = -32.18 +  -0.02)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:26 2006