Locus 12551

Sequence ID dm3.chrX
Location 855,917 – 856,062
Length 145
Max. P 0.698017
window17261 window17262 window17263

overview

Window 1

Location 855,917 – 856,009
Length 92
Sequences 4
Columns 108
Reading direction forward
Mean pairwise identity 84.35
Shannon entropy 0.23173
G+C content 0.55831
Mean single sequence MFE -28.95
Consensus MFE -26.39
Energy contribution -26.95
Covariance contribution 0.56
Combinations/Pair 1.05
Mean z-score -1.11
Structure conservation index 0.91
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.44
SVM RNA-class probability 0.698017
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chrX 855917 92 + 22422827
----------------CUGCCUUCCCUUUCCCUUCCUGCUUUGUCCUGGACUGUACUGGCUGUCUGUCUUGUCCAGCAAAAAAGGGACACCCGGGGCUUGCUGCAAUU
----------------..((...((((.....(((((..((((..((((((......(((.....)))..))))))))))..))))).....))))...))....... ( -24.70, z-score =  -0.18, R)
>droEre2.scaffold_4644 831255 103 + 2521924
CUGCCCUUUUUCCCAUUCCCAUUCCCAUUCCCGUCCUGCUUUGUCCUGGGCUGU-CCGGCUGU----CUUGUCCAGCAAAAAAGGGACACCCGGGGCUUACUGCAAUU
....................................(((...((((((((.(((-((.((((.----......)))).......))))))))))))).....)))... ( -28.30, z-score =  -0.65, R)
>droSec1.super_10 697413 88 + 3036183
----------------CUGCCUUCCCUUUCCCUUCCUGCUUUGUCCUGGGCUGUCCUGGCUGU----CUUGUCCAGCAAAAAAGGGACACCCGGGGCUUGCUGCAAUU
----------------....................(((...((((((((.((((((.((((.----......))))......)))))))))))))).....)))... ( -31.40, z-score =  -1.81, R)
>droSim1.chrX 690754 88 + 17042790
----------------CUGCCUUCCCUUUCCCUUCCUGCUUUGUCCUGGGCUGUCCUGGCUGU----CUUGUCCAGCAAAAAAGGGACACCCGGGGCUUGCUGCAAUU
----------------....................(((...((((((((.((((((.((((.----......))))......)))))))))))))).....)))... ( -31.40, z-score =  -1.81, R)
>consensus
________________CUGCCUUCCCUUUCCCUUCCUGCUUUGUCCUGGGCUGUCCUGGCUGU____CUUGUCCAGCAAAAAAGGGACACCCGGGGCUUGCUGCAAUU
....................................(((...((((((((.((((((.((((...........))))......)))))))))))))).....)))... (-26.39 = -26.95 +   0.56)

alignment

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secondary structure

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dotplot

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Window 2

Location 855,929 – 856,049
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 95.34
Shannon entropy 0.07437
G+C content 0.46482
Mean single sequence MFE -34.08
Consensus MFE -31.14
Energy contribution -31.95
Covariance contribution 0.81
Combinations/Pair 1.03
Mean z-score -1.37
Structure conservation index 0.91
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.12
SVM RNA-class probability 0.551654
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 855929 120 + 22422827
UCCCUUCCUGCUUUGUCCUGGACUGUACUGGCUGUCUGUCUUGUCCAGCAAAAAAGGGACACCCGGGGCUUGCUGCAAUUUGUUGAAUUAAUAACAACACUCAGUCCUUUGAAAAUUGAA
.........((...(((((((........(((.....))).(((((..........))))).)))))))..))..((((((((((.........))))..((((....)))))))))).. ( -27.00, z-score =   0.30, R)
>droEre2.scaffold_4644 831283 115 + 2521924
UCCCGUCCUGCUUUGUCCUGGGCUGUCC-GGCUGUCU----UGUCCAGCAAAAAAGGGACACCCGGGGCUUACUGCAAUUUGUUGAAUUAAUAACAACACUCAGUGCUUUGGAAAUUGAA
.....(((.((...((((((((.(((((-.((((...----....)))).......)))))))))))))..((((....((((((......))))))....))))))...)))....... ( -35.70, z-score =  -1.54, R)
>droSec1.super_10 697425 116 + 3036183
UCCCUUCCUGCUUUGUCCUGGGCUGUCCUGGCUGUCU----UGUCCAGCAAAAAAGGGACACCCGGGGCUUGCUGCAAUUUGUUGAAUUAAUAACAACACUCAGUGCUUUGAAAAUUGAA
.........((...((((((((.((((((.((((...----....))))......))))))))))))))..))..((((((((((.........))))..((((....)))))))))).. ( -36.80, z-score =  -2.12, R)
>droSim1.chrX 690766 116 + 17042790
UCCCUUCCUGCUUUGUCCUGGGCUGUCCUGGCUGUCU----UGUCCAGCAAAAAAGGGACACCCGGGGCUUGCUGCAAUUUGUUGAAUUAAUAACAACACUCAGUGCUUUGAAAAUUGAA
.........((...((((((((.((((((.((((...----....))))......))))))))))))))..))..((((((((((.........))))..((((....)))))))))).. ( -36.80, z-score =  -2.12, R)
>consensus
UCCCUUCCUGCUUUGUCCUGGGCUGUCCUGGCUGUCU____UGUCCAGCAAAAAAGGGACACCCGGGGCUUGCUGCAAUUUGUUGAAUUAAUAACAACACUCAGUGCUUUGAAAAUUGAA
.........((...((((((((.((((((.((((.(......)..))))......))))))))))))))..))..((((((((((.........))))..((((....)))))))))).. (-31.14 = -31.95 +   0.81)

alignment

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secondary structure

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dotplot

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Window 3

Location 855,942 – 856,062
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 95.34
Shannon entropy 0.07437
G+C content 0.43486
Mean single sequence MFE -33.35
Consensus MFE -32.12
Energy contribution -32.75
Covariance contribution 0.62
Combinations/Pair 1.06
Mean z-score -1.11
Structure conservation index 0.96
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.26
SVM RNA-class probability 0.619239
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 855942 120 + 22422827
UGUCCUGGACUGUACUGGCUGUCUGUCUUGUCCAGCAAAAAAGGGACACCCGGGGCUUGCUGCAAUUUGUUGAAUUAAUAACAACACUCAGUCCUUUGAAAAUUGAAUUUAUAGAGUGAA
.(((((((........(((.....))).(((((..........))))).)))))))..........((((((......))))))(((((.((..((..(...)..))...)).))))).. ( -25.10, z-score =   0.93, R)
>droEre2.scaffold_4644 831296 115 + 2521924
UGUCCUGGGCUGUCC-GGCUGUCU----UGUCCAGCAAAAAAGGGACACCCGGGGCUUACUGCAAUUUGUUGAAUUAAUAACAACACUCAGUGCUUUGGAAAUUGAAUUUAGAGAGUGAA
.((((((((.(((((-.((((...----....)))).......))))))))))))).(((((....((((((......))))))....)))))(((((((.......)))))))...... ( -34.10, z-score =  -1.26, R)
>droSec1.super_10 697438 116 + 3036183
UGUCCUGGGCUGUCCUGGCUGUCU----UGUCCAGCAAAAAAGGGACACCCGGGGCUUGCUGCAAUUUGUUGAAUUAAUAACAACACUCAGUGCUUUGAAAAUUGAAUUUAGAGAGUGAA
.((((((((.((((((.((((...----....))))......))))))))))))))..((((....((((((......))))))....)))).(((((((.......)))))))...... ( -37.10, z-score =  -2.05, R)
>droSim1.chrX 690779 116 + 17042790
UGUCCUGGGCUGUCCUGGCUGUCU----UGUCCAGCAAAAAAGGGACACCCGGGGCUUGCUGCAAUUUGUUGAAUUAAUAACAACACUCAGUGCUUUGAAAAUUGAAUUUAGAGAGUGAA
.((((((((.((((((.((((...----....))))......))))))))))))))..((((....((((((......))))))....)))).(((((((.......)))))))...... ( -37.10, z-score =  -2.05, R)
>consensus
UGUCCUGGGCUGUCCUGGCUGUCU____UGUCCAGCAAAAAAGGGACACCCGGGGCUUGCUGCAAUUUGUUGAAUUAAUAACAACACUCAGUGCUUUGAAAAUUGAAUUUAGAGAGUGAA
.((((((((.((((((.((((.(......)..))))......))))))))))))))..((((....((((((......))))))....)))).(((((((.......)))))))...... (-32.12 = -32.75 +   0.62)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:04:28 2011