Locus 15512

Sequence ID dm3.chrX
Location 19,330,844 – 19,330,974
Length 130
Max. P 0.995231
window21387 window21388

overview

Window 7

Location 19,330,844 – 19,330,964
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 80.06
Shannon entropy 0.28723
G+C content 0.53355
Mean single sequence MFE -46.90
Consensus MFE -38.75
Energy contribution -39.87
Covariance contribution 1.12
Combinations/Pair 1.11
Mean z-score -2.84
Structure conservation index 0.83
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.78
SVM RNA-class probability 0.995231
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19330844 120 + 22422827
CCUUCUCCUGCACUUGGGACUUGAGCGCUUGUGUGCUUGCUUGCUAUACGAUAGUAGACUGCAUCUAUUCGUGUGGCAGAAAGGCGCAGAACUGGAGACAGGUGUCCCGGUUGAGUGCAC
........((((((((((((........((.(((((((..(((((((((((..(((((.....))))))))))))))))..))))))).))(((....)))..)))))....))))))). ( -51.20, z-score =  -3.53, R)
>droEre2.scaffold_4690 9579553 104 + 18748788
---------------GGCACAUGUGCACUUGUGUGCAUGCAGGCUACACGACAGUAGACUGCAUCUAUCCGUGUGGCAGAA-GGCGCAGAGCUGGAGACAGGUGUCCUGGUUGAGUGCAC
---------------(.(((((((((((....)))))(((((.((((......)))).)))))......)))))).)....-.((((..(((..(.(((....))))..)))..)))).. ( -42.40, z-score =  -1.16, R)
>droSim1.chrX 14955899 116 + 17042790
----CCUCAUCCUACUGGACUUGGAAACUUGUGUGCUUGCAUGCUAUACGAUAGUAGACUGCAUCUAUUCGUGUGGCAGAAAGGCGCAGAACUGGAGACAGGUGUCCUGGUUGAGUGCAC
----........((((.((((.(((.((((.(((((((...((((((((((..(((((.....)))))))))))))))...))))))).))(((....))))).))).)))).))))... ( -47.10, z-score =  -3.82, R)
>consensus
____C__C__C____GGGACUUGAGCACUUGUGUGCUUGCAUGCUAUACGAUAGUAGACUGCAUCUAUUCGUGUGGCAGAAAGGCGCAGAACUGGAGACAGGUGUCCUGGUUGAGUGCAC
........................((((((.(((((((...((((((((((..(((((.....)))))))))))))))...))))))).((((((.(((....))))))))))))))).. (-38.75 = -39.87 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 19,330,884 – 19,330,974
Length 90
Sequences 3
Columns 96
Reading direction forward
Mean pairwise identity 87.94
Shannon entropy 0.16261
G+C content 0.53022
Mean single sequence MFE -32.30
Consensus MFE -31.53
Energy contribution -31.20
Covariance contribution -0.33
Combinations/Pair 1.11
Mean z-score -1.87
Structure conservation index 0.98
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.94
SVM RNA-class probability 0.976041
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19330884 90 + 22422827
UUGCUAUACGAUAGUAGACUGCAUCUAUUCGUGUGGCAGAAAGGCGCAGAACUGGAGACAGGUGUCCCGGUUGAGUGCACACCCAUAUCC------
(((((((((((..(((((.....))))))))))))))))....((((..((((((.(((....)))))))))..))))............------ ( -34.60, z-score =  -3.33, R)
>droEre2.scaffold_4690 9579578 88 + 18748788
AGGCUACACGACAGUAGACUGCAUCUAUCCGUGUGGCAGAA-GGCGCAGAGCUGGAGACAGGUGUCCUGGUUGAGUGCACACCCACACC-------
..((((((((...(((((.....))))).))))))))....-.((((..(((..(.(((....))))..)))..))))...........------- ( -30.60, z-score =  -0.48, R)
>droSim1.chrX 14955935 96 + 17042790
AUGCUAUACGAUAGUAGACUGCAUCUAUUCGUGUGGCAGAAAGGCGCAGAACUGGAGACAGGUGUCCUGGUUGAGUGCACACCCAUACCCAUAUCC
.((((((((((..(((((.....))))))))))))))).....((((..(((..(.(((....))))..)))..)))).................. ( -31.70, z-score =  -1.80, R)
>consensus
AUGCUAUACGAUAGUAGACUGCAUCUAUUCGUGUGGCAGAAAGGCGCAGAACUGGAGACAGGUGUCCUGGUUGAGUGCACACCCAUACCC______
..(((((((((..(((((.....))))))))))))))......((((..((((((.(((....)))))))))..)))).................. (-31.53 = -31.20 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:00:51 2011