Locus 14683

Sequence ID dm3.chrX
Location 14,792,902 – 14,792,963
Length 61
Max. P 0.974811
window20214 window20215

overview

Window 4

Location 14,792,902 – 14,792,963
Length 61
Sequences 8
Columns 61
Reading direction forward
Mean pairwise identity 86.66
Shannon entropy 0.26110
G+C content 0.43410
Mean single sequence MFE -14.44
Consensus MFE -10.08
Energy contribution -10.66
Covariance contribution 0.58
Combinations/Pair 1.14
Mean z-score -2.73
Structure conservation index 0.70
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.92
SVM RNA-class probability 0.974811
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 14792902 61 + 22422827
UGACGAAAGUCUCACACACAAUAUAAUGCCCGCAAAUUAACGGAGCCGCGCGAUGAUGUGA
.(((....))).....((((.(((..((((((........)))....)))..))).)))). ( -14.70, z-score =  -1.63, R)
>droPer1.super_63 267344 54 - 372969
UGACGAAAGUC--GUACGAAAUAUAAUGCCCGAAAAUUAUCGGAGCC-----AUGAUGUGA
.(((....)))--.......((((.((((((((......)))).).)-----)).)))).. ( -13.50, z-score =  -3.01, R)
>dp4.chrXL_group1a 5838919 54 + 9151740
UGACGAAAGUC--GCACAAAAUAUAAUGCCCGAAAAUUAUCGGAGCC-----AUGAUGUGA
.(((....)))--.((((..((.....((((((......)))).)).-----))..)))). ( -14.20, z-score =  -3.31, R)
>droAna3.scaffold_13335 667610 57 + 3335858
UGACGAAAGUC--CCACGCAAUAUAAUGCCCGCAAAUUAAAAAAAAAGC--GACAAUGUGA
.(((....)))--.((((((......))).(((..............))--).....))). ( -11.14, z-score =  -3.48, R)
>droEre2.scaffold_4690 6541394 59 - 18748788
UGACGAAAGUCUCACACACAAUAUAAUGUCCGCAAAUUAACGGAUCCGC--GAUGAUGUGA
.(((....))).....((((.(((...(((((........)))))....--.))).)))). ( -15.20, z-score =  -2.20, R)
>droYak2.chrX 9004697 59 + 21770863
UGACGAAAGUCUCACACACAAUAUAAUGCCCGCAAAUUAACGGAGCCGC--GAUGAUGUGA
.(((....))).....((((.(((...(((((........))).))...--.))).)))). ( -15.60, z-score =  -2.73, R)
>droSec1.super_32 233318 59 + 562834
UGACGAAAGUCUCACACACAAUAUAAUGCCCGCAAAUUAACGGAGCCGC--GAUGAUGUGA
.(((....))).....((((.(((...(((((........))).))...--.))).)))). ( -15.60, z-score =  -2.73, R)
>droSim1.chrX 11423938 59 + 17042790
UGACGAAAGUCUCACACACAAUAUAAUGCCCGCAAAUUAACGGAGCCGC--GAUGAUGUGA
.(((....))).....((((.(((...(((((........))).))...--.))).)))). ( -15.60, z-score =  -2.73, R)
>consensus
UGACGAAAGUCUCACACACAAUAUAAUGCCCGCAAAUUAACGGAGCCGC__GAUGAUGUGA
.(((....)))...((((..((.....(((((........))).))......))..)))). (-10.08 = -10.66 +   0.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 14,792,902 – 14,792,963
Length 61
Sequences 8
Columns 61
Reading direction reverse
Mean pairwise identity 86.66
Shannon entropy 0.26110
G+C content 0.43410
Mean single sequence MFE -14.62
Consensus MFE -9.90
Energy contribution -10.10
Covariance contribution 0.20
Combinations/Pair 1.31
Mean z-score -1.76
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.02
SVM RNA-class probability 0.506778
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 14792902 61 - 22422827
UCACAUCAUCGCGCGGCUCCGUUAAUUUGCGGGCAUUAUAUUGUGUGUGAGACUUUCGUCA
((((((((.......((.((((......)))))).......)).))))))(((....))). ( -17.34, z-score =  -1.45, R)
>droPer1.super_63 267344 54 + 372969
UCACAUCAU-----GGCUCCGAUAAUUUUCGGGCAUUAUAUUUCGUAC--GACUUUCGUCA
.........-----.((.((((......))))))..............--(((....))). ( -10.80, z-score =  -2.09, R)
>dp4.chrXL_group1a 5838919 54 - 9151740
UCACAUCAU-----GGCUCCGAUAAUUUUCGGGCAUUAUAUUUUGUGC--GACUUUCGUCA
.((((..((-----(((.((((......))))))....)))..)))).--(((....))). ( -12.30, z-score =  -2.09, R)
>droAna3.scaffold_13335 667610 57 - 3335858
UCACAUUGUC--GCUUUUUUUUUAAUUUGCGGGCAUUAUAUUGCGUGG--GACUUUCGUCA
((((....((--((..............))))(((......)))))))--(((....))). ( -11.44, z-score =  -1.81, R)
>droEre2.scaffold_4690 6541394 59 + 18748788
UCACAUCAUC--GCGGAUCCGUUAAUUUGCGGACAUUAUAUUGUGUGUGAGACUUUCGUCA
((((((..((--((((((......))))))))(((......)))))))))(((....))). ( -15.60, z-score =  -1.44, R)
>droYak2.chrX 9004697 59 - 21770863
UCACAUCAUC--GCGGCUCCGUUAAUUUGCGGGCAUUAUAUUGUGUGUGAGACUUUCGUCA
((((((((..--...((.((((......)))))).......)).))))))(((....))). ( -16.50, z-score =  -1.72, R)
>droSec1.super_32 233318 59 - 562834
UCACAUCAUC--GCGGCUCCGUUAAUUUGCGGGCAUUAUAUUGUGUGUGAGACUUUCGUCA
((((((((..--...((.((((......)))))).......)).))))))(((....))). ( -16.50, z-score =  -1.72, R)
>droSim1.chrX 11423938 59 - 17042790
UCACAUCAUC--GCGGCUCCGUUAAUUUGCGGGCAUUAUAUUGUGUGUGAGACUUUCGUCA
((((((((..--...((.((((......)))))).......)).))))))(((....))). ( -16.50, z-score =  -1.72, R)
>consensus
UCACAUCAUC__GCGGCUCCGUUAAUUUGCGGGCAUUAUAUUGUGUGUGAGACUUUCGUCA
.(((((.((......((.((((......)))))).....)).)))))...(((....))). ( -9.90 = -10.10 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:44:46 2011