Locus 13890

Sequence ID dm3.chrX
Location 9,792,072 – 9,792,162
Length 90
Max. P 0.621996
window19111

overview

Window 1

Location 9,792,072 – 9,792,162
Length 90
Sequences 4
Columns 90
Reading direction forward
Mean pairwise identity 84.34
Shannon entropy 0.24905
G+C content 0.45703
Mean single sequence MFE -23.78
Consensus MFE -16.65
Energy contribution -17.40
Covariance contribution 0.75
Combinations/Pair 1.28
Mean z-score -1.86
Structure conservation index 0.70
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.27
SVM RNA-class probability 0.621996
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 9792072 90 + 22422827
GAGGGGGGGACUUCGCUGGUGGUUUCUCGAAAGUGUGAUUUAUUAUUUGCAUGUGUAAGGUGAUAGUUGGGAAAUUAUUUGCCUUACUGC
..((((....))))((..(((((.((.(....)...))...)))))..))....((((((..((((((....))))).)..))))))... ( -25.50, z-score =  -2.64, R)
>droSim1.chrX 7794666 86 + 17042790
---GGUGGGGAAUCGCUGGUGGUUUCUCGAAAGUGUGACUUAUUAUUAGCAUG-GUAAGGUGAUAGUUGGGAAAUUGUUUGCCUCAGUGC
---(.(((((.......((..(((((((((...(((.(((((((((....)))-)))).)).))).)))))))))..))..))))).).. ( -21.70, z-score =  -1.44, R)
>droSec1.super_15 552344 86 + 1954846
---GGUGGGGAAUCGCUGGUGGUUUCUCGAAAGUGUGACUUAUUAUUAGCAUG-GUAAGGUGAUAGUUGGGAAAUUAUCUGCCGCAGUGC
---.((((((.....))(((((((((((((...(((.(((((((((....)))-)))).)).))).)))))))))))))..))))..... ( -22.70, z-score =  -1.41, R)
>droEre2.scaffold_4690 13422833 84 - 18748788
--CUGGGGGAGUUUGCUGGUGGUUUCUCGCAAGUGUGACUUA---UUUGCAUU-GUGUGGCGAUAGUUGGGAAAUUAUUUGCCUCAGUGC
--((((((.((....))((((((((((((((((((.....))---)))))(((-(.....))))....)))))))))))..))))))... ( -25.20, z-score =  -1.95, R)
>consensus
___GGGGGGAAAUCGCUGGUGGUUUCUCGAAAGUGUGACUUAUUAUUAGCAUG_GUAAGGUGAUAGUUGGGAAAUUAUUUGCCUCAGUGC
......(((((((((....)))))))))....................((((....((((((((((((....))))))).))))).)))) (-16.65 = -17.40 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:29:44 2011