Locus 6185

Sequence ID 3R_DroMel_CAF1
Location 16,182,086 – 16,182,184
Length 98
Max. P 0.815711
window10080

overview

Window 0

Location 16,182,086 – 16,182,184
Length 98
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 85.62
Mean single sequence MFE -33.34
Consensus MFE -24.18
Energy contribution -24.30
Covariance contribution 0.12
Combinations/Pair 1.08
Mean z-score -2.04
Structure conservation index 0.73
SVM decision value 0.66
SVM RNA-class probability 0.815711
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16182086 98 + 27905053
GUGGGUGUGGGUGU------------GGGUGUGAGUGUGAUGAAUAUGAGGACCGUCAGCGGGUAAUGUCAGCUUGCAACGUGCAACUUGCAACUUGCACUGAUGCCGAG
...(((((.((((.------------.((((..(((.(((((...........)))))((((((.......))))))........)))..).)))..)))).)))))... ( -35.10)
>DroSec_CAF1 11306 92 + 1
GUGGGUG------U------------GGGUGUGAGUGUGAUGAAUAUGAGGACCGUCAGCGGGUAAUGUCAGCUUGCAACGUGCAACUUGCAACUUGCACUGAUGCCGAG
...((((------(------------.((((..(((.(((((...........)))))((((((.......))))))....(((.....))))))..)))).)))))... ( -30.40)
>DroSim_CAF1 4814 98 + 1
GUGGGUGUGGGUGU------------GGGUGUGAGUGUGAUGAAUAUGAGGACCGUCAGCGGGUAAUGUCAGCUUGCAACGUGCAACUUGCAACUUGCACUGAUGCCGAG
...(((((.((((.------------.((((..(((.(((((...........)))))((((((.......))))))........)))..).)))..)))).)))))... ( -35.10)
>DroEre_CAF1 10112 83 + 1
---------------------------GGUGUGAGUGUGAUGAAUAUGAGGACCGUCAGCGGGUAAUGUCAACUUGCAACGUGCAACUUGCAACUCGCACUGAUGCCGAG
---------------------------(((((.(((((((............(((....)))....((.(((.((((.....)))).)))))..))))))).)))))... ( -27.60)
>DroYak_CAF1 12214 109 + 1
GUGGGUUUGAGUGUAAGUGGGGCUGGGGGUGCGAGUGUGAUAAAUAUGAGGACCGUCAGCGGGUAAUGUCAACUUGCAACGUGCAAC-UGCAACUUGCACUGAUGCCGAG
...(((.(.(((((((((...(((((.(((.(..((((.....))))..).))).)))))......(((....((((.....)))).-.)))))))))))).).)))... ( -38.50)
>consensus
GUGGGUGUG_GUGU____________GGGUGUGAGUGUGAUGAAUAUGAGGACCGUCAGCGGGUAAUGUCAGCUUGCAACGUGCAACUUGCAACUUGCACUGAUGCCGAG
...........................(((((.(((((((............(((....)))....((.(((.((((.....)))).)))))..))))))).)))))... (-24.18 = -24.30 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:50 2006