Locus 15040

Sequence ID dm3.chrX
Location 17,105,018 – 17,105,118
Length 100
Max. P 0.933047
window20727 window20728

overview

Window 7

Location 17,105,018 – 17,105,118
Length 100
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 82.66
Shannon entropy 0.27771
G+C content 0.44864
Mean single sequence MFE -22.28
Consensus MFE -16.23
Energy contribution -17.27
Covariance contribution 1.04
Combinations/Pair 1.05
Mean z-score -2.22
Structure conservation index 0.73
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.38
SVM RNA-class probability 0.933047
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17105018 100 + 22422827
UUUAAAAAAACCCACAGCUCCAUGCGUCUGACAUAC----------UCACCAAUAUUCCCAUUCCCA------ACAAGAUAUGGGUGCUAUAUACUCCAUAUAUGGAGCACGAGUG-
................((((((((....(((.....----------)))...((((.(((((((...------....)).)))))....))))........)))))))).......- ( -18.00, z-score =  -1.17, R)
>droSim1.chrX 13279754 100 + 17042790
UUUCAAAAAACCCACAGCUCCAUGCGUCUGACAUGC----------UCACCCAUAUUCCCAUUCCCA------ACUAGAUAUGGGUGCUAUAUACUCCAUAUAUGGAGCGCGAGUG-
............(((.(((((((((((.....))))----------.((((((((((..........------....))))))))))...............)))))))....)))- ( -26.14, z-score =  -3.10, R)
>droSec1.super_17 941250 100 + 1527944
UUUAAAAAAACCCACAGCUCCAUGCGUCUGACAUGC----------UCACCCAAAUUCCCAUUCCCA------ACUAGAUAUGGGUGCUAUAUACUCCAUAUAUGGAGCGCGAGUG-
............(((.(((((((((((.....))))----------.((((((.(((..........------....))).))))))...............)))))))....)))- ( -22.04, z-score =  -1.94, R)
>droYak2.chrX 15711445 116 + 21770863
UUCCACAAAAUUCGCAGCUCCAUGCGUCUGACACACGACGACACACUCACCCAUAUUCCAAUUUCCAUUCCCAAACAGAUAUGAGUACUAUAUGCUCCAUAUAUGGAGCACGAGUG-
.............(((......)))(((........)))....(((((((.((((((....................)))))).))......(((((((....))))))).)))))- ( -24.95, z-score =  -3.12, R)
>droEre2.scaffold_4690 7446655 114 + 18748788
UUCCAAAAAAUCCACAGCUCCAUGCGUCUGACACACGAC---ACACUCACCCAUAUUCCCAUUCCCAUUCCCAACCAGAUAUGGGUACUAUCUACUCCAUAUAUGAAGCACGAGUGG
...........((((.(((.((((.(((........)))---......(((((((((....................)))))))))...............)))).)))....)))) ( -20.25, z-score =  -1.79, R)
>consensus
UUUCAAAAAACCCACAGCUCCAUGCGUCUGACAUAC__________UCACCCAUAUUCCCAUUCCCA______ACCAGAUAUGGGUGCUAUAUACUCCAUAUAUGGAGCACGAGUG_
............(((.((((((((.(.....)...............((((((((((....................))))))))))..............))))))))....))). (-16.23 = -17.27 +   1.04)

alignment

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secondary structure

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dotplot

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Window 8

Location 17,105,018 – 17,105,118
Length 100
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 82.66
Shannon entropy 0.27771
G+C content 0.44864
Mean single sequence MFE -32.24
Consensus MFE -23.68
Energy contribution -23.92
Covariance contribution 0.24
Combinations/Pair 1.23
Mean z-score -1.56
Structure conservation index 0.73
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.16
SVM RNA-class probability 0.571686
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17105018 100 - 22422827
-CACUCGUGCUCCAUAUAUGGAGUAUAUAGCACCCAUAUCUUGU------UGGGAAUGGGAAUAUUGGUGA----------GUAUGUCAGACGCAUGGAGCUGUGGGUUUUUUUAAA
-.((((((((((((....))))))))(((((.(((((.(((...------.))).)))))....((.(((.----------((.......)).))).)))))))))))......... ( -29.70, z-score =  -1.64, R)
>droSim1.chrX 13279754 100 - 17042790
-CACUCGCGCUCCAUAUAUGGAGUAUAUAGCACCCAUAUCUAGU------UGGGAAUGGGAAUAUGGGUGA----------GCAUGUCAGACGCAUGGAGCUGUGGGUUUUUUGAAA
-.(((((((((((((...............((((((((((((..------......)))..))))))))).----------((.........))))))))).))))))......... ( -32.00, z-score =  -1.80, R)
>droSec1.super_17 941250 100 - 1527944
-CACUCGCGCUCCAUAUAUGGAGUAUAUAGCACCCAUAUCUAGU------UGGGAAUGGGAAUUUGGGUGA----------GCAUGUCAGACGCAUGGAGCUGUGGGUUUUUUUAAA
-.(((((((((((((.((((.....))))((.(((((.(((...------.))).))))).....(..(((----------.....)))..)))))))))).))))))......... ( -30.10, z-score =  -1.45, R)
>droYak2.chrX 15711445 116 - 21770863
-CACUCGUGCUCCAUAUAUGGAGCAUAUAGUACUCAUAUCUGUUUGGGAAUGGAAAUUGGAAUAUGGGUGAGUGUGUCGUCGUGUGUCAGACGCAUGGAGCUGCGAAUUUUGUGGAA
-(((((((((((((....)))))))).....((((((((((((((........))).))).))))))))))))).....(((((((.....)))))))..(..(((...)))..).. ( -34.50, z-score =  -1.31, R)
>droEre2.scaffold_4690 7446655 114 - 18748788
CCACUCGUGCUUCAUAUAUGGAGUAGAUAGUACCCAUAUCUGGUUGGGAAUGGGAAUGGGAAUAUGGGUGAGUGU---GUCGUGUGUCAGACGCAUGGAGCUGUGGAUUUUUUGGAA
((((....(((((.................(((((((((((.(((.........))).)).))))))))).((((---(((........)))))))))))).))))........... ( -34.90, z-score =  -1.60, R)
>consensus
_CACUCGUGCUCCAUAUAUGGAGUAUAUAGCACCCAUAUCUAGU______UGGGAAUGGGAAUAUGGGUGA__________GUAUGUCAGACGCAUGGAGCUGUGGGUUUUUUGAAA
.(((((((((((((....))))))))......(((((.((((........)))).))))).....))))).....................((((......))))............ (-23.68 = -23.92 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:51:53 2011