Locus 14337

Sequence ID dm3.chrX
Location 12,741,419 – 12,741,568
Length 149
Max. P 0.935759
window19737 window19738

overview

Window 7

Location 12,741,419 – 12,741,519
Length 100
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 96.58
Shannon entropy 0.06024
G+C content 0.46776
Mean single sequence MFE -29.06
Consensus MFE -26.86
Energy contribution -26.54
Covariance contribution -0.32
Combinations/Pair 1.12
Mean z-score -1.39
Structure conservation index 0.92
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.20
SVM RNA-class probability 0.589201
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 12741419 100 - 22422827
AAUUUUAACUGACAACCCGCUGUUGAUGGUGACACAUUUAUGGCACACAUCAACGCACAUUUGCGGCUCCUUUGGGUCAAAGUGGCUUGUCGUUUGCAUC
.....(((.((((((.(((((((((((((((.((......)).))).)))))))(((....)))(((((....)))))..))))).)))))).))).... ( -32.70, z-score =  -2.75, R)
>droSim1.chrX 9706157 99 - 17042790
AAUUUCAACUGACAACCCGCUGUUGAUGGUGACACAUUUAUGGCACACAUC-ACGCACAUUUGCGGCUCCUUUGGGUCAAAGUGGCUUGUCGUUUGCAUC
.....(((.((((((.(((((..((((((((.((......)).))).))))-).(((....)))(((((....)))))..))))).)))))).))).... ( -29.50, z-score =  -1.53, R)
>droSec1.super_21 492268 99 - 1102487
AAUUUCAACUGACAACCCGCUGUUGAUGGUGACACAUUUAUGGCACACAUC-ACGCACAUUUGCGGCUCCUUUGGGUCAAAGUGGCUUGUCGUUUGCAUC
.....(((.((((((.(((((..((((((((.((......)).))).))))-).(((....)))(((((....)))))..))))).)))))).))).... ( -29.50, z-score =  -1.53, R)
>droYak2.chrX 7017864 99 - 21770863
AAUUUUAACUGACAACCCGCUGUUGAUGGUGACACAUUUAUGGCACACAUC-ACGCACAUUUGCGGCUCCUUUGGGUCAAAGUGGCUUGUCGUUUGCAUC
.....(((.((((((.(((((..((((((((.((......)).))).))))-).(((....)))(((((....)))))..))))).)))))).))).... ( -28.10, z-score =  -1.29, R)
>droEre2.scaffold_4690 4637393 99 + 18748788
AAUUUUAACUGGCAGCCCGCUGUUGAUGGUGACACAUUUAUGGUACACAUC-ACGCACAUUUGCGGCUCCUUUGGGUCAAAGUAGCUUGGUGUUUGCAUC
....(((((.(((.....))))))))((....))........(((.(((((-(((((....))))(((.(((((...))))).))).)))))).)))... ( -25.50, z-score =   0.15, R)
>consensus
AAUUUUAACUGACAACCCGCUGUUGAUGGUGACACAUUUAUGGCACACAUC_ACGCACAUUUGCGGCUCCUUUGGGUCAAAGUGGCUUGUCGUUUGCAUC
.....(((.((((((.(((((((.(((((((.((......)).))).)))).))(((....)))(((((....)))))..))))).)))))).))).... (-26.86 = -26.54 +  -0.32)

alignment

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secondary structure

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dotplot

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Window 8

Location 12,741,456 – 12,741,568
Length 112
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 78.82
Shannon entropy 0.39617
G+C content 0.38572
Mean single sequence MFE -29.40
Consensus MFE -15.03
Energy contribution -16.87
Covariance contribution 1.84
Combinations/Pair 1.22
Mean z-score -2.45
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.40
SVM RNA-class probability 0.935759
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 12741456 112 + 22422827
------CAAAUGUGCGUUGAUGUGUGCCAUAAAUGUGUCACCAUCAACAG-CGGGUUGUCAGUUAAAAUUAACGCAAUAGCGAAACUAGAGUGCAAAUCCACUCAUUUCAACAACUGAU
------..(((.((((((((((.(((.(((....))).)))))))))).)-)).)))(((((((........(((....)))......(((((......)))))........))))))) ( -35.20, z-score =  -3.70, R)
>droSim1.chrX 9706194 111 + 17042790
------CAAAUGUGCGU-GAUGUGUGCCAUAAAUGUGUCACCAUCAACAG-CGGGUUGUCAGUUGAAAUUAACGCAAUAGCGAAACUAGAGUGAAAAUCCACUCAUUUCAACAACUGAU
------..(((.(((.(-((((.(((.(((....))).))))))))...)-)).)))((((((((.......(((....)))......(((((......))))).......)))))))) ( -36.30, z-score =  -3.94, R)
>droSec1.super_21 492305 111 + 1102487
------CAAAUGUGCGU-GAUGUGUGCCAUAAAUGUGUCACCAUCAACAG-CGGGUUGUCAGUUGAAAUUAACGCAAUAGCGAAACUAGAGUGAAAAUCCACUCAUUUCAACAACUGAU
------..(((.(((.(-((((.(((.(((....))).))))))))...)-)).)))((((((((.......(((....)))......(((((......))))).......)))))))) ( -36.30, z-score =  -3.94, R)
>droYak2.chrX 7017901 111 + 21770863
------CAAAUGUGCGU-GAUGUGUGCCAUAAAUGUGUCACCAUCAACAG-CGGGUUGUCAGUUAAAAUUAACGCAAUAGCGAAACUAGAGUGAAAAUCCACACAUUUCAACAACUGAU
------..(((.(((.(-((((.(((.(((....))).))))))))...)-)).)))(((((((........(((....)))........(((......)))..........))))))) ( -28.60, z-score =  -1.80, R)
>droEre2.scaffold_4690 4637430 111 - 18748788
------CAAAUGUGCGU-GAUGUGUACCAUAAAUGUGUCACCAUCAACAG-CGGGCUGCCAGUUAAAAUUAACGCAAUAGCGAAACUAGAGGGAAAAUCCACUCAUUUCAGAAACUGAU
------....(.(((.(-((((.((..(((....)))..)))))))...)-)).)....(((((........(((....)))......(((((.....)).)))........))))).. ( -24.80, z-score =  -0.81, R)
>droAna3.scaffold_13117 3673154 110 + 5790199
UCCAUUUAUUCAUAAUUUGCAAUUUUACAAAAAAAAAUAAGUAUAAUCAGUCAGGACUUCAGUCAGGAUUAGAGCA---------UCAAAGCGGAAAUGCAUUAAUCUGAACGAUUUAU
.....(..((((.....((((.((((....................((((((..(((....)))..)))).))((.---------.....)))))).))))......))))..)..... ( -15.20, z-score =  -0.52, R)
>consensus
______CAAAUGUGCGU_GAUGUGUGCCAUAAAUGUGUCACCAUCAACAG_CGGGUUGUCAGUUAAAAUUAACGCAAUAGCGAAACUAGAGUGAAAAUCCACUCAUUUCAACAACUGAU
...............((.((((.(((.(((....))).))))))).)).........(((((((........(((....)))......(((((......)))))........))))))) (-15.03 = -16.87 +   1.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:38:17 2011