Locus 14908

Sequence ID dm3.chrX
Location 16,214,380 – 16,214,473
Length 93
Max. P 0.939909
window20540 window20541

overview

Window 0

Location 16,214,380 – 16,214,473
Length 93
Sequences 5
Columns 96
Reading direction forward
Mean pairwise identity 93.10
Shannon entropy 0.11982
G+C content 0.54633
Mean single sequence MFE -30.98
Consensus MFE -30.04
Energy contribution -29.88
Covariance contribution -0.16
Combinations/Pair 1.12
Mean z-score -1.68
Structure conservation index 0.97
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.46
SVM RNA-class probability 0.939909
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 16214380 93 + 22422827
UGCGACCGCAUGUACGAUACUACGAUAUCGUUCCGUGCGUUCCAUUCCGCGCGUUUCG---CUGCUGCUGCGGUCGCAGCAAUUGUUACAUCACUU
((((((((((.((((((.((.(((....)))...(((((........))))))).)))---.)))...)))))))))).................. ( -33.60, z-score =  -2.29, R)
>droSim1.chrX 12506760 93 + 17042790
UGCGACCGCAUGUACGAUACUACGAUAUCGUUCCGUGCGUUCCAUUCCGCGCGUUUCG---CCGCUGCUGCGGUCGCAGCAAUUGUUACAUCACUU
((((((((((.((((((((......))))))..((((((........)))))).....---.....)))))))))))).................. ( -32.90, z-score =  -2.05, R)
>droSec1.super_17 41461 93 + 1527944
UGCGACCGCAUGUACGAUACUACGAUAUCGUUCCGUGCGUUCCAUUCCGCGCGUUUCG---CCGCUGCUGCGGUCGCAGCAAUUGUUACAUCACUU
((((((((((.((((((((......))))))..((((((........)))))).....---.....)))))))))))).................. ( -32.90, z-score =  -2.05, R)
>droYak2.chrX 10344889 96 + 21770863
UGCGGCCGUAUGUACGAUACUACGAUACCGUUCCAUGCGUUCUAUUCCGCCCGUUCCGCUGCUGCUGCUGCGGUCGCAGCUAUUGUUACAUCACUU
((((((((((((.(((.((......)).)))..)))))...................((.((....)).))))))))).................. ( -23.40, z-score =   0.55, R)
>droEre2.scaffold_4690 7874740 90 - 18748788
UGCGACCGCAUGUACGAUACUACGAUACCGUUCCGUGCGUUCCAUUCCGCGCGUU------CCGCUGCUGCGGUCGCAGCUAUUGUUACAUCACUU
((((((((((.(((((..((.(((....)))...(((((........))))))).------.)).))))))))))))).................. ( -32.10, z-score =  -2.57, R)
>consensus
UGCGACCGCAUGUACGAUACUACGAUAUCGUUCCGUGCGUUCCAUUCCGCGCGUUUCG___CCGCUGCUGCGGUCGCAGCAAUUGUUACAUCACUU
((((((((((.(((((.....(((....)))..((((((........)))))).........)).))))))))))))).................. (-30.04 = -29.88 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 1

Location 16,214,380 – 16,214,473
Length 93
Sequences 5
Columns 96
Reading direction reverse
Mean pairwise identity 93.10
Shannon entropy 0.11982
G+C content 0.54633
Mean single sequence MFE -34.84
Consensus MFE -32.14
Energy contribution -32.54
Covariance contribution 0.40
Combinations/Pair 1.07
Mean z-score -1.78
Structure conservation index 0.92
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.13
SVM RNA-class probability 0.897134
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 16214380 93 - 22422827
AAGUGAUGUAACAAUUGCUGCGACCGCAGCAGCAG---CGAAACGCGCGGAAUGGAACGCACGGAACGAUAUCGUAGUAUCGUACAUGCGGUCGCA
.((..((......))..))(((((((((((....)---)....((.(((........))).))(.(((((((....))))))).).))))))))). ( -36.90, z-score =  -2.42, R)
>droSim1.chrX 12506760 93 - 17042790
AAGUGAUGUAACAAUUGCUGCGACCGCAGCAGCGG---CGAAACGCGCGGAAUGGAACGCACGGAACGAUAUCGUAGUAUCGUACAUGCGGUCGCA
.((..((......))..))(((((((((...(((.---.....)))(((........)))...(.(((((((....))))))).).))))))))). ( -37.80, z-score =  -2.39, R)
>droSec1.super_17 41461 93 - 1527944
AAGUGAUGUAACAAUUGCUGCGACCGCAGCAGCGG---CGAAACGCGCGGAAUGGAACGCACGGAACGAUAUCGUAGUAUCGUACAUGCGGUCGCA
.((..((......))..))(((((((((...(((.---.....)))(((........)))...(.(((((((....))))))).).))))))))). ( -37.80, z-score =  -2.39, R)
>droYak2.chrX 10344889 96 - 21770863
AAGUGAUGUAACAAUAGCUGCGACCGCAGCAGCAGCAGCGGAACGGGCGGAAUAGAACGCAUGGAACGGUAUCGUAGUAUCGUACAUACGGCCGCA
..((......))....(((((....))))).......((((..((.(((........)))(((..(((((((....))))))).))).)).)))). ( -29.30, z-score =  -0.53, R)
>droEre2.scaffold_4690 7874740 90 + 18748788
AAGUGAUGUAACAAUAGCUGCGACCGCAGCAGCGG------AACGCGCGGAAUGGAACGCACGGAACGGUAUCGUAGUAUCGUACAUGCGGUCGCA
.(((.((......)).)))(((((((((.......------..((.(((........))).))(.(((((((....))))))).).))))))))). ( -32.40, z-score =  -1.17, R)
>consensus
AAGUGAUGUAACAAUUGCUGCGACCGCAGCAGCGG___CGAAACGCGCGGAAUGGAACGCACGGAACGAUAUCGUAGUAUCGUACAUGCGGUCGCA
.((((((......))))))(((((((((...............((.(((........))).))(.(((((((....))))))).).))))))))). (-32.14 = -32.54 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:49:18 2011