Locus 9592

Sequence ID dm3.chr3R
Location 7,555,362 – 7,555,473
Length 111
Max. P 0.879737
window13161 window13162

overview

Window 1

Location 7,555,362 – 7,555,458
Length 96
Sequences 5
Columns 97
Reading direction reverse
Mean pairwise identity 85.95
Shannon entropy 0.23155
G+C content 0.61066
Mean single sequence MFE -34.57
Consensus MFE -28.36
Energy contribution -28.16
Covariance contribution -0.20
Combinations/Pair 1.23
Mean z-score -1.50
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.39
SVM RNA-class probability 0.676662
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 7555362 96 - 27905053
CCUCCAACGCCUGCUCCUUCAUCAUCAC-UUGGUGGUUCAUUACCGCCGCUUGUCUCUCCCAUGGGGUCAGGUGCCGGGGGACUGGCGCUCGGAUGG
(((((...(((((((((........((.-.(((((((.....)))))))..))..........)))).)))))(((((....)))))....))).)) ( -39.87, z-score =  -2.06, R)
>droSim1.chr3R 13676564 84 + 27517382
------------CCUCCUUCAUCAUCAC-UUGGUGGUUCAUUACCGCCGCUUGUCUCUCCCAUGGGUUCAGGUGCCGGGGGACUGGCGCUCGAAGGG
------------...(((((........-..((((((.....))))))(((((.(((......)))..)))))(((((....)))))....))))). ( -35.20, z-score =  -2.37, R)
>droSec1.super_0 6710030 85 + 21120651
------------CCUCCUUCAUCAUCACUUUGGUGGUUCAUUACCGCCGCUUGUCUCUCCCAUGGGGUCAGGUGCCGGGGGACUGGCGCUCGGAUGG
------------(((((..............((((((.....))))))(((((.((((.....)))).)))))(((((....)))))....))).)) ( -33.70, z-score =  -1.46, R)
>droYak2.chr3R 11968539 88 + 28832112
--------GACGCCUCCUCCAUCAUCUC-UUGGUGGUUCAUUACCGCCGCUUGUCUCUCCCAAGGGAUCCGGUGCCGGGGGACUGGCAUUUGGUUGG
--------...(((((((((..((((..-..((((((.....))))))....((((((....))))))..))))..))))))..))).......... ( -31.90, z-score =  -0.71, R)
>droEre2.scaffold_4770 3685006 84 + 17746568
------------CCUCCUCCAUCAUCAC-UUGGUGGUUCAUUACCGCCGCUUGUCUCUCCCAAGGGGUCCGGUGCCGGGGGAUUGGCAUUCGGAUGG
------------......(((((.....-..((((((.....))))))(((.((((((((....))).(((....)))))))).))).....))))) ( -32.20, z-score =  -0.89, R)
>consensus
____________CCUCCUUCAUCAUCAC_UUGGUGGUUCAUUACCGCCGCUUGUCUCUCCCAUGGGGUCAGGUGCCGGGGGACUGGCGCUCGGAUGG
..................(((((........((((((.....)))))).........(((....))).(..(((((((....)))))))..)))))) (-28.36 = -28.16 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 7,555,383 – 7,555,473
Length 90
Sequences 5
Columns 91
Reading direction reverse
Mean pairwise identity 78.80
Shannon entropy 0.35067
G+C content 0.58230
Mean single sequence MFE -23.21
Consensus MFE -15.44
Energy contribution -15.92
Covariance contribution 0.48
Combinations/Pair 1.07
Mean z-score -1.90
Structure conservation index 0.67
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.04
SVM RNA-class probability 0.879737
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 7555383 90 - 27905053
ACACUUUCGCCAGCUCCUCCAACGCCUGCUCCUUCAUCAUCAC-UUGGUGGUUCAUUACCGCCGCUUGUCUCUCCCAUGGGGUCAGGUGCC
......................((((((((((........((.-.(((((((.....)))))))..))..........)))).)))))).. ( -25.27, z-score =  -2.04, R)
>droSim1.chr3R 13676585 78 + 27517382
------------ACACUUUCGCCGGCUCCUCCUUCAUCAUCAC-UUGGUGGUUCAUUACCGCCGCUUGUCUCUCCCAUGGGUUCAGGUGCC
------------...........(((.................-..((((((.....))))))(((((.(((......)))..)))))))) ( -20.00, z-score =  -1.44, R)
>droSec1.super_0 6710051 79 + 21120651
------------ACACUUUCGCCGGCUCCUCCUUCAUCAUCACUUUGGUGGUUCAUUACCGCCGCUUGUCUCUCCCAUGGGGUCAGGUGCC
------------.......((((((((((...........((...(((((((.....)))))))..))..........)))))).)))).. ( -22.50, z-score =  -1.74, R)
>droYak2.chr3R 11968560 90 + 28832112
ACACUUUCGCCGGCUCCUCCAUCGACGCCUCCUCCAUCAUCUC-UUGGUGGUUCAUUACCGCCGCUUGUCUCUCCCAAGGGAUCCGGUGCC
.......((((((.(((..........................-..((((((.....)))))).((((.......))))))).)))))).. ( -25.90, z-score =  -2.16, R)
>droEre2.scaffold_4770 3685027 75 + 17746568
---------------ACACUUUCGCCGCCUCCUCCAUCAUCAC-UUGGUGGUUCAUUACCGCCGCUUGUCUCUCCCAAGGGGUCCGGUGCC
---------------.......(((((.(((((.......((.-.(((((((.....)))))))..)).........)))))..))))).. ( -22.39, z-score =  -2.12, R)
>consensus
____________ACACCUCCACCGCCUCCUCCUUCAUCAUCAC_UUGGUGGUUCAUUACCGCCGCUUGUCUCUCCCAUGGGGUCAGGUGCC
..............................................((((((.....))))))(((((((((......)))).)))))... (-15.44 = -15.92 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:07:23 2011