Locus 15456

Sequence ID dm3.chrX
Location 19,159,421 – 19,159,551
Length 130
Max. P 0.730879
window21300 window21301

overview

Window 0

Location 19,159,421 – 19,159,551
Length 130
Sequences 4
Columns 146
Reading direction forward
Mean pairwise identity 77.08
Shannon entropy 0.34911
G+C content 0.46607
Mean single sequence MFE -40.80
Consensus MFE -22.60
Energy contribution -26.10
Covariance contribution 3.50
Combinations/Pair 1.17
Mean z-score -1.98
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.32
SVM RNA-class probability 0.645167
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19159421 130 + 22422827
UCCCAACGAGACGCGCUGUGUAGCAACGGAGUUUCCAUGCAAA---------------CCCAAAUGUUUUGCAUAGAAAUUAUCUGUUU-CCACGCAGCUGUGUUUCCUUGUCUGGCUGGAGAUGGUGUUUGGGUCCUUGGAACGG
.(((((.((((((((((((((.(.(((((((((((.(((((((---------------.(.....).))))))).)))))..)))))).-).))))))).))))))).(..(((......)))..)...)))))((....)).... ( -44.50, z-score =  -2.18, R)
>droEre2.scaffold_4690 9418278 137 + 18748788
UCCCAACGAGACACGCUG--UAGCAACGAAAUUUCCAUGCGAAGCAUUUAAAACAAAUGCCAAAUGUUUUGCAUAGAAUUUUUCUGUUU-CCACGCAG------UUUCUUGUCUGGCUGGAGAUGAAUUUAAAAUCCUAGGAGCGG
..(((((((((.((((.(--(.(.(((((((.(((.(((((((((((((............))))))))))))).)))..)))).))).-).)))).)------).)))))).)))((((.(((.........)))))))...... ( -35.70, z-score =  -1.75, R)
>droYak2.chrX 9604378 137 - 21770863
UCCCAACGAGAAACGCUG--UAGCAACGGAAUUUCCAAACGAAACAUUUAAAGCGAAUGCCGAAUGUUUUGCAUGGAAAUUGUCUGUUU-CCCCGCAG------UUUCUUGUCUGGCUGGAGAUGGAGCUUAAAUCCCAGGAGCGG
..((((((((((((((.(--..(.(((((((((((((..((((((((((...((....)).))))))))))..)))))))..)))))).-)..))).)------)))))))).)))((((.(((.........)))))))...... ( -44.70, z-score =  -2.70, R)
>droSec1.super_8 1453715 127 + 3762037
UCCCAACGAGACGCGCUG--UAGCAACGGAGUUUCCAUGCAAA---------------GCCAAAUGCUAUGCAUCGAAAUUAUCCGUUUUCCACGCAGCUG--UUUCCUUGUCUGGCUGUAGAUGGUGUUUGAGUCCUAGGAACGG
((((((.((((((.((((--(...(((((((((((.(((((.(---------------((.....))).))))).)))))..))))))......)))))))--)))).)))...((((.(((((...)))))))))...))).... ( -38.30, z-score =  -1.29, R)
>consensus
UCCCAACGAGACACGCUG__UAGCAACGGAAUUUCCAUGCAAA_______________GCCAAAUGUUUUGCAUAGAAAUUAUCUGUUU_CCACGCAG______UUCCUUGUCUGGCUGGAGAUGGAGUUUAAAUCCUAGGAACGG
..((((((((....(((....)))(((((((((((.(((((((((((((............))))))))))))).)))))..))))))...................))))).)))((((.(((.........)))))))...... (-22.60 = -26.10 +   3.50)

alignment

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secondary structure

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dotplot

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Window 1

Location 19,159,421 – 19,159,551
Length 130
Sequences 4
Columns 146
Reading direction reverse
Mean pairwise identity 77.08
Shannon entropy 0.34911
G+C content 0.46607
Mean single sequence MFE -40.90
Consensus MFE -21.03
Energy contribution -21.78
Covariance contribution 0.75
Combinations/Pair 1.13
Mean z-score -2.24
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.53
SVM RNA-class probability 0.730879
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19159421 130 - 22422827
CCGUUCCAAGGACCCAAACACCAUCUCCAGCCAGACAAGGAAACACAGCUGCGUGG-AAACAGAUAAUUUCUAUGCAAAACAUUUGGG---------------UUUGCAUGGAAACUCCGUUGCUACACAGCGCGUCUCGUUGGGA
((.......))..............((((((.((((..(....)...((((.((((-.(((.((...((((((((((((.(....)..---------------)))))))))))).)).))).)))).))))..)))).)))))). ( -43.70, z-score =  -3.07, R)
>droEre2.scaffold_4690 9418278 137 - 18748788
CCGCUCCUAGGAUUUUAAAUUCAUCUCCAGCCAGACAAGAAA------CUGCGUGG-AAACAGAAAAAUUCUAUGCAAAACAUUUGGCAUUUGUUUUAAAUGCUUCGCAUGGAAAUUUCGUUGCUA--CAGCGUGUCUCGUUGGGA
((.......))..............((((((.(((((.....------.(((((((-.(((.((((..((((((((.((.(((((((........))))))).)).)))))))).))))))).)))--).)))))))).)))))). ( -35.80, z-score =  -1.34, R)
>droYak2.chrX 9604378 137 + 21770863
CCGCUCCUGGGAUUUAAGCUCCAUCUCCAGCCAGACAAGAAA------CUGCGGGG-AAACAGACAAUUUCCAUGCAAAACAUUCGGCAUUCGCUUUAAAUGUUUCGUUUGGAAAUUCCGUUGCUA--CAGCGUUUCUCGUUGGGA
......(((((((.........))).))))((.(((.(((((------(.(((((.-...)....((((((((.((.(((((((.(((....)))...))))))).)).)))))))))))).((..--..)))))))).))).)). ( -40.30, z-score =  -1.61, R)
>droSec1.super_8 1453715 127 - 3762037
CCGUUCCUAGGACUCAAACACCAUCUACAGCCAGACAAGGAAA--CAGCUGCGUGGAAAACGGAUAAUUUCGAUGCAUAGCAUUUGGC---------------UUUGCAUGGAAACUCCGUUGCUA--CAGCGCGUCUCGUUGGGA
(((((.....)))..............((((.((((..(....--).((.((((((..((((((...((((.(((((.(((.....))---------------).))))).)))).)))))).)))--).)))))))).)))))). ( -43.80, z-score =  -2.93, R)
>consensus
CCGCUCCUAGGACUCAAACACCAUCUCCAGCCAGACAAGAAA______CUGCGUGG_AAACAGAUAAUUUCUAUGCAAAACAUUUGGC_______________UUCGCAUGGAAACUCCGUUGCUA__CAGCGCGUCUCGUUGGGA
((.......))..............((((((.((((..(((.......(((.........)))....(((((((((..............................))))))))).)))((((.....))))..)))).)))))). (-21.03 = -21.78 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:59:42 2011