Locus 14844

Sequence ID dm3.chrX
Location 15,803,867 – 15,803,990
Length 123
Max. P 0.993142
window20441 window20442

overview

Window 1

Location 15,803,867 – 15,803,984
Length 117
Sequences 4
Columns 118
Reading direction reverse
Mean pairwise identity 78.30
Shannon entropy 0.35232
G+C content 0.31483
Mean single sequence MFE -26.10
Consensus MFE -15.30
Energy contribution -15.93
Covariance contribution 0.62
Combinations/Pair 1.22
Mean z-score -2.93
Structure conservation index 0.59
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.36
SVM RNA-class probability 0.989263
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 15803867 117 - 22422827
AGGGUAAGACCCUUUUAUAGUCCAUCAAACCCAUUGAUGGAUUAUAAGUUUUUAAUGUUCUAAU-AACAACCCUAAGUGAAACAUAUUUCACAAGCAACAAGUUGGAAACGCAAUGAG
((((.....)))).((((((((((((((.....))))))))))))))((((((((((((.....-)))........((((((....)))))).........)))))))))........ ( -31.70, z-score =  -4.36, R)
>droSim1.chrX 12222964 117 - 17042790
CGGGUAAGACCGUUUUAUGGUCCAUCAAAUCCAUUGAUGGAUUAUAAGUUUUUAAUAUUCUAAA-AACAACCCUAAUUAAAACAUAUGUUACAAGCAACAAGUUGGAAUCGAAAUGAG
.((((.........((((((((((((((.....))))))))))))))(((((((......))))-))).)))).........((..((((......))))...))............. ( -27.00, z-score =  -2.83, R)
>droSec1.super_37 380292 117 - 454039
AGGGUAAGACAGUUUUAUGGUCCAUCAAGCCCAUUGAUGGAUUAUAAGUUUUUAAUAUUCUAAA-AACAACCCUAAGUGAAACAUAUGUUACAAGCAACAAGUUGGAAACGAAAUGAG
(((((.........((((((((((((((.....))))))))))))))(((((((......))))-))).)))))..((((........))))......((..(((....)))..)).. ( -33.40, z-score =  -4.62, R)
>droYak2.chrX 9994789 112 - 21770863
AGUGU-UUCCUCUUUUAUUGUGCAUCAAACCCAUU-----UUUAAGAGUUUUUAUUAUUCUAAAGAAUAACACUCUAUGCUAGACAUUUCACAAAAAAACAGCAUGAAAAUAAAUAAG
(((((-...(((((.....(((.........))).-----...))))).......(((((....)))))))))).((((((...................))))))............ ( -12.31, z-score =   0.08, R)
>consensus
AGGGUAAGACCCUUUUAUGGUCCAUCAAACCCAUUGAUGGAUUAUAAGUUUUUAAUAUUCUAAA_AACAACCCUAAGUGAAACAUAUGUCACAAGCAACAAGUUGGAAACGAAAUGAG
.((((.........((((((((((((((.....))))))))))))))(((((((......)))).))).))))..............................((....))....... (-15.30 = -15.93 +   0.62)

alignment

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secondary structure

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dotplot

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Window 2

Location 15,803,873 – 15,803,990
Length 117
Sequences 4
Columns 118
Reading direction reverse
Mean pairwise identity 77.30
Shannon entropy 0.36767
G+C content 0.30414
Mean single sequence MFE -26.05
Consensus MFE -15.30
Energy contribution -15.93
Covariance contribution 0.62
Combinations/Pair 1.22
Mean z-score -3.00
Structure conservation index 0.59
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.59
SVM RNA-class probability 0.993142
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 15803873 117 - 22422827
AUUAUAAGGGUAAGACCCUUUUAUAGUCCAUCAAACCCAUUGAUGGAUUAUAAGUUUUUAAUGUUCUAAU-AACAACCCUAAGUGAAACAUAUUUCACAAGCAACAAGUUGGAAACGC
.....(((((.....)))))((((((((((((((.....))))))))))))))((((((((((((.....-)))........((((((....)))))).........))))))))).. ( -32.80, z-score =  -5.03, R)
>droSim1.chrX 12222970 117 - 17042790
AUUAAACGGGUAAGACCGUUUUAUGGUCCAUCAAAUCCAUUGAUGGAUUAUAAGUUUUUAAUAUUCUAAA-AACAACCCUAAUUAAAACAUAUGUUACAAGCAACAAGUUGGAAUCGA
....(((((((.........((((((((((((((.....))))))))))))))(((((((......))))-))).)))).............((((......)))).)))........ ( -27.60, z-score =  -3.11, R)
>droSec1.super_37 380298 117 - 454039
ACUAAAAGGGUAAGACAGUUUUAUGGUCCAUCAAGCCCAUUGAUGGAUUAUAAGUUUUUAAUAUUCUAAA-AACAACCCUAAGUGAAACAUAUGUUACAAGCAACAAGUUGGAAACGA
......(((((.........((((((((((((((.....))))))))))))))(((((((......))))-))).)))))..((((........))))..........(((....))) ( -31.20, z-score =  -3.82, R)
>droYak2.chrX 9994795 112 - 21770863
ACAAAAAGUGU-UUCCUCUUUUAUUGUGCAUCAAACCCAUU-----UUUAAGAGUUUUUAUUAUUCUAAAGAAUAACACUCUAUGCUAGACAUUUCACAAAAAAACAGCAUGAAAAUA
......(((((-...(((((.....(((.........))).-----...))))).......(((((....)))))))))).((((((...................))))))...... ( -12.61, z-score =  -0.04, R)
>consensus
ACUAAAAGGGUAAGACCCUUUUAUGGUCCAUCAAACCCAUUGAUGGAUUAUAAGUUUUUAAUAUUCUAAA_AACAACCCUAAGUGAAACAUAUGUCACAAGCAACAAGUUGGAAACGA
.......((((.........((((((((((((((.....))))))))))))))(((((((......)))).))).))))..............................((....)). (-15.30 = -15.93 +   0.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:47:56 2011