Locus 14136

Sequence ID dm3.chrX
Location 11,401,917 – 11,402,034
Length 117
Max. P 0.694823
window19452 window19453

overview

Window 2

Location 11,401,917 – 11,402,034
Length 117
Sequences 4
Columns 117
Reading direction forward
Mean pairwise identity 86.15
Shannon entropy 0.21359
G+C content 0.33678
Mean single sequence MFE -25.20
Consensus MFE -18.15
Energy contribution -17.77
Covariance contribution -0.37
Combinations/Pair 1.11
Mean z-score -2.00
Structure conservation index 0.72
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.40
SVM RNA-class probability 0.678752
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11401917 117 + 22422827
UGUUUGGAGCAGCGAGAACUUCUCACAUCCCAUAUAUGUAUGUAUGUACAUAUGAUGGGGCAUUUUUACUAUUUAAAUAUUAUUGUUAUUGCUUCUUCAUCUUUUGGUGAUUUCCUU
.....(((((((((((.....)))....(((((((((((((....)))))))).)))))))..............((((....))))..)))))).(((((....)))))....... ( -30.60, z-score =  -3.08, R)
>droSec1.super_36 123767 117 + 449511
UGUUUGGAGCAGCGAGAACUUCUCACAUCCCAUAUAUGCAUGAAUGUACAUAUGAUGGGGCAUUUUUACUAUAUAAAUAUUAUUGUUGUUGCUUCUUCAUCUUUCGGUGGAUUCCUU
.....(((((((((((.....)))...(((((((((((.((....)).))))).))))))...........................))))))))((((((....))))))...... ( -28.70, z-score =  -1.53, R)
>droYak2.chrX 11016482 101 - 21770863
UGUUUGGAGCAGCGAGAACUUCUCACAUCCCAUAUAUG----------------AUGGGCCAUUUUUACUAUUUAAAUAUUAUUGUUAUUGCUUCUACAUCUUUUGAUGAUUUCCUU
.....(((((((.(((.....)))....(((((.....----------------))))).............................)))))))..((((....))))........ ( -19.80, z-score =  -1.66, R)
>droEre2.scaffold_4690 14993560 101 - 18748788
UGUUUGAAGCAGCGAGAACUUCUCACAUCCCAUAUAUG----------------AUGGGGCAUUUUUACUAUUUAAAUAUUAUUGUUAUUGCUUCUCCAUCUUUUGGUGAUUUCCUU
.....(((((((((((.....)))....(((((.....----------------)))))))..............((((....))))..))))))..((((....))))........ ( -21.70, z-score =  -1.74, R)
>consensus
UGUUUGGAGCAGCGAGAACUUCUCACAUCCCAUAUAUG________________AUGGGGCAUUUUUACUAUUUAAAUAUUAUUGUUAUUGCUUCUUCAUCUUUUGGUGAUUUCCUU
.....(((((((.(((.....)))....(((((.....................))))).............................)))))))..((((....))))........ (-18.15 = -17.77 +  -0.37)

alignment

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secondary structure

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dotplot

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Window 3

Location 11,401,917 – 11,402,034
Length 117
Sequences 4
Columns 117
Reading direction reverse
Mean pairwise identity 86.15
Shannon entropy 0.21359
G+C content 0.33678
Mean single sequence MFE -23.30
Consensus MFE -15.20
Energy contribution -17.70
Covariance contribution 2.50
Combinations/Pair 1.08
Mean z-score -2.30
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.44
SVM RNA-class probability 0.694823
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11401917 117 - 22422827
AAGGAAAUCACCAAAAGAUGAAGAAGCAAUAACAAUAAUAUUUAAAUAGUAAAAAUGCCCCAUCAUAUGUACAUACAUACAUAUAUGGGAUGUGAGAAGUUCUCGCUGCUCCAAACA
..(((..(((.(....).)))....(((..............................(((((.(((((((......))))))))))))..(((((.....)))))))))))..... ( -24.60, z-score =  -2.82, R)
>droSec1.super_36 123767 117 - 449511
AAGGAAUCCACCGAAAGAUGAAGAAGCAACAACAAUAAUAUUUAUAUAGUAAAAAUGCCCCAUCAUAUGUACAUUCAUGCAUAUAUGGGAUGUGAGAAGUUCUCGCUGCUCCAAACA
..(((...((.(....).)).....(((..............................(((((.(((((((......))))))))))))..(((((.....)))))))))))..... ( -26.70, z-score =  -2.41, R)
>droYak2.chrX 11016482 101 + 21770863
AAGGAAAUCAUCAAAAGAUGUAGAAGCAAUAACAAUAAUAUUUAAAUAGUAAAAAUGGCCCAU----------------CAUAUAUGGGAUGUGAGAAGUUCUCGCUGCUCCAAACA
..(((...((((....)))).....(((..............................(((((----------------.....)))))..(((((.....)))))))))))..... ( -19.90, z-score =  -1.66, R)
>droEre2.scaffold_4690 14993560 101 + 18748788
AAGGAAAUCACCAAAAGAUGGAGAAGCAAUAACAAUAAUAUUUAAAUAGUAAAAAUGCCCCAU----------------CAUAUAUGGGAUGUGAGAAGUUCUCGCUGCUUCAAACA
..........(((.....))).((((((..............................(((((----------------.....)))))..(((((.....)))))))))))..... ( -22.00, z-score =  -2.30, R)
>consensus
AAGGAAAUCACCAAAAGAUGAAGAAGCAAUAACAAUAAUAUUUAAAUAGUAAAAAUGCCCCAU________________CAUAUAUGGGAUGUGAGAAGUUCUCGCUGCUCCAAACA
..(((...((.(....).)).....(((..............................(((((.(((((((......))))))))))))..(((((.....)))))))))))..... (-15.20 = -17.70 +   2.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:34:25 2011