Locus 13369

Sequence ID dm3.chrX
Location 6,154,743 – 6,154,853
Length 110
Max. P 0.923587
window18404 window18405

overview

Window 4

Location 6,154,743 – 6,154,836
Length 93
Sequences 5
Columns 97
Reading direction reverse
Mean pairwise identity 86.96
Shannon entropy 0.22385
G+C content 0.39246
Mean single sequence MFE -20.82
Consensus MFE -12.84
Energy contribution -13.72
Covariance contribution 0.88
Combinations/Pair 1.06
Mean z-score -2.83
Structure conservation index 0.62
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.30
SVM RNA-class probability 0.923587
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 6154743 93 - 22422827
ACG-AAACGUGCAGUGUGCGUCAUUAAUUGUGACGCACUCGCA-ACAAAUUUUCGAUAAAACUUAAAUAGUCCAAUUUAUUUGUACACACCCCAA--
.((-(((..(((.(.(((((((((.....))))))))).))))-......)))))........(((((((......)))))))............-- ( -23.20, z-score =  -3.21, R)
>droSim1.chrX 4865090 93 - 17042790
ACG-AAACUUGCAGUGUGCGUCAUUAGUAGUGACGCACUCGCA-ACGAAUUUUCGAUAAAACUUGAAUAGUCCAAUUUAUUUUUACACACCCCAA--
.((-((((((((.(.(((((((((.....))))))))).))))-).)...))))).(((((..(((((......))))).)))))..........-- ( -22.20, z-score =  -2.91, R)
>droSec1.super_4 5564110 93 + 6179234
ACG-AAACUUGCAGUGUGCGUCAUUAGUAGUGACGCACUCGCA-ACGAAUUUUCGAUAAAACUUCAAUAGUCCAAUUUAUUUUUACACACCCCAA--
.((-((((((((.(.(((((((((.....))))))))).))))-).)...)))))........................................-- ( -21.30, z-score =  -3.06, R)
>droYak2.chrX 2158758 92 - 21770863
ACAUAAACUUGCAGUGUGCGUCAUUAAU---GACGCACUCCCAGGCGUAUUUUCGAUAAAACUUGAAUAGACCAAUUUAUUUUUACACGCCCCAA--
.............(.((((((((....)---))))))).)...(((((......((((((..(((.......))))))))).....)))))....-- ( -20.90, z-score =  -3.07, R)
>droEre2.scaffold_4690 15125021 88 - 18748788
ACA-AAACUUGCAGUGUGCGUCAUUAAU---GACGCACUCCCA-ACGUAUUUUCGGUA----UCGAAUAGUCCAAUUUAUUUUUACACACCCCCCGA
...-..(((((..(.((((((((....)---))))))).).))-).)).......(((----..((((((......)))))).)))........... ( -16.50, z-score =  -1.91, R)
>consensus
ACG_AAACUUGCAGUGUGCGUCAUUAAU_GUGACGCACUCGCA_ACGAAUUUUCGAUAAAACUUGAAUAGUCCAAUUUAUUUUUACACACCCCAA__
.............(.(((((((((.....))))))))).)........................((((((......))))))............... (-12.84 = -13.72 +   0.88)

alignment

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secondary structure

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dotplot

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Window 5

Location 6,154,749 – 6,154,853
Length 104
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 84.14
Shannon entropy 0.27553
G+C content 0.35937
Mean single sequence MFE -22.08
Consensus MFE -14.08
Energy contribution -14.56
Covariance contribution 0.48
Combinations/Pair 1.06
Mean z-score -2.12
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.57
SVM RNA-class probability 0.746321
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 6154749 104 - 22422827
GACCUUUAUU--GCUGAUAACG-AAACGUGCAGUGUGCGUCAUUAAUUGUGACGCACUCGCA-ACAAAUUUUCGAUAAAACUUAAAUAGUCCAAUUUAUUUGUACACA
.........(--((.(((((((-(((..(((.(.(((((((((.....))))))))).))))-......))))).....(((.....))).....))))).))).... ( -23.60, z-score =  -1.91, R)
>droSim1.chrX 4865096 104 - 17042790
GACCUUUAUU--GCUGAUAACG-AAACUUGCAGUGUGCGUCAUUAGUAGUGACGCACUCGCA-ACGAAUUUUCGAUAAAACUUGAAUAGUCCAAUUUAUUUUUACACA
....((((((--(..(((..((-....((((.(.(((((((((.....))))))))).))))-))).)))..)))))))....((((((......))))))....... ( -22.90, z-score =  -1.71, R)
>droSec1.super_4 5564116 99 + 6179234
-----GUUUU--UUUGAUAACG-AAACUUGCAGUGUGCGUCAUUAGUAGUGACGCACUCGCA-ACGAAUUUUCGAUAAAACUUCAAUAGUCCAAUUUAUUUUUACACA
-----(((((--.((((.....-....((((.(.(((((((((.....))))))))).))))-).......)))).)))))........................... ( -23.49, z-score =  -2.56, R)
>droYak2.chrX 2158764 105 - 21770863
GACCUUUGUUCAGUUGAUAACAUAAACUUGCAGUGUGCGUCAUUAA---UGACGCACUCCCAGGCGUAUUUUCGAUAAAACUUGAAUAGACCAAUUUAUUUUUACACG
....(((((((((((((....(((..((((..(.((((((((....---)))))))).).))))..)))..)))))......)))))))).................. ( -23.40, z-score =  -2.44, R)
>droEre2.scaffold_4690 15125029 97 - 18748788
GACCUUUAUC--ACUUAUAACA-AAACUUGCAGUGUGCGUCAUUAA---UGACGCACUCCCA-ACGUAUUUUCGGUA----UCGAAUAGUCCAAUUUAUUUUUACACA
(((.......--..........-..(((((..(.((((((((....---)))))))).).))-).))...((((...----.))))..)))................. ( -17.00, z-score =  -1.99, R)
>consensus
GACCUUUAUU__GCUGAUAACG_AAACUUGCAGUGUGCGUCAUUAAU_GUGACGCACUCGCA_ACGAAUUUUCGAUAAAACUUGAAUAGUCCAAUUUAUUUUUACACA
................................(.(((((((((.....))))))))).)........................((((((......))))))....... (-14.08 = -14.56 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:20:02 2011