Locus 13092

Sequence ID dm3.chrX
Location 4,279,851 – 4,279,983
Length 132
Max. P 0.728867
window17995 window17996

overview

Window 5

Location 4,279,851 – 4,279,962
Length 111
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 79.44
Shannon entropy 0.39416
G+C content 0.39609
Mean single sequence MFE -23.61
Consensus MFE -18.37
Energy contribution -18.46
Covariance contribution 0.09
Combinations/Pair 1.17
Mean z-score -1.07
Structure conservation index 0.78
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.52
SVM RNA-class probability 0.728867
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 4279851 111 - 22422827
GUGGUCUCGGGGAUCAUUCGCUUGGGGUCUCCUAACCAUCCGUACCUUAACAAAAAAAAAA-AA---AAAAAGUAAAAAUGUCGGCAUAUUUCUUGUUUUGGUUAUGCCACAUUU
(((((...(((((((..........)))))))..)))))......................-..---.........((((((.((((((...((......)).)))))))))))) ( -24.70, z-score =  -1.56, R)
>droSim1.chrX 3299663 115 - 17042790
GUGGUCUCGGGGAUCAUUCGCUACGGGUCUCCCAACCAUCCGUACCUUAACAAAAAAAAAAAGAAGCAAAAACCAAAAAUGUCGGCAUAUUUCUUGUUUUGGUUAUGCCACAUUU
(((((...(((((((..........)))))))..))))).....................................((((((.((((((...((......)).)))))))))))) ( -24.70, z-score =  -0.80, R)
>droSec1.super_4 3733564 112 + 6179234
GUGGUCUCGGGGAUCAUUCGCUUUGGGUCUCCUAACCAUCCGUACCUUAACAAAAAAAAGAUGA---AAAAAACAAAAAUGUCGGCAUAUUUCUGGUUUUGGUUAUGCCACAUUU
(((((...(((((((..........)))))))..))))).........................---.........((((((.((((((...((......)).)))))))))))) ( -24.60, z-score =  -0.70, R)
>droYak2.chrX 17611661 97 + 21770863
GUGGUCUCUGGGAUCAUUCGCUUGGGGUCUCCAUACCAUCCGAACCUUAAC---AAAAAAG------GAAAACCAAAUAUGUCGGCAUAUUUC---------UUAUGCCACAUUU
((((.(((..((........))..)))...))))..........((((...---....)))------)..........((((.((((((....---------.)))))))))).. ( -23.30, z-score =  -1.39, R)
>droEre2.scaffold_4690 1655460 109 - 18748788
GUGGUCUCUGGGAUCAUUCGCUUGGGGUCUCCAUACCAUCCGAGCCUUGACAAAAAAAAAG------AAUAACCAAAAAUGUCGGCAUAUUUCUUGUUUCCAUUAUGCCACAUUU
((((((.....))))))..(((((((((......)))..))))))................------.........((((((.((((((..............)))))))))))) ( -25.24, z-score =  -0.98, R)
>droAna3.scaffold_13335 3146981 108 + 3335858
GUGGUCCUUUGGAACCUACGCUUGAGGUCUCCGUACCUCACAAUAAAAAACGUAAAAAAA-------AUAUGAAAAAACUGUCGGCAUAUUUCUUGUUUUCAUUAUGCCACAUUU
(((((((...)).))).))...((((((......))))))..........((((......-------.)))).......(((.((((((..............)))))))))... ( -19.14, z-score =  -1.03, R)
>consensus
GUGGUCUCGGGGAUCAUUCGCUUGGGGUCUCCAAACCAUCCGAACCUUAACAAAAAAAAAA______AAAAACCAAAAAUGUCGGCAUAUUUCUUGUUUUGGUUAUGCCACAUUU
(((((...(((((((..........)))).))).))))).....................................((((((.((((((..............)))))))))))) (-18.37 = -18.46 +   0.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 4,279,890 – 4,279,983
Length 93
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 70.70
Shannon entropy 0.52215
G+C content 0.45125
Mean single sequence MFE -23.52
Consensus MFE -14.94
Energy contribution -16.27
Covariance contribution 1.33
Combinations/Pair 1.00
Mean z-score -0.82
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.42
SVM RNA-class probability 0.686813
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 4279890 93 - 22422827
--------UAGGUCCUACAAACCUAGGCGGUGGUCUCGGGGAUCAUUCGCUUGGGGUCUCCUAACCAUCCGUACCUUAACAAAAAAAAAAAAA---AAAAGUAA-
--------(((((.......))))).((((((((...(((((((..........)))))))..)))).)))).....................---........- ( -22.40, z-score =  -1.00, R)
>droSim1.chrX 3299702 96 - 17042790
--------AAGGACCUAC-AACCUAGGCGGUGGUCUCGGGGAUCAUUCGCUACGGGUCUCCCAACCAUCCGUACCUUAACAAAAAAAAAAAGAAGCAAAAACCAA
--------((((.((((.-....))))(((((((...(((((((..........)))))))..)))).)))..))))............................ ( -22.30, z-score =  -0.58, R)
>droSec1.super_4 3733603 93 + 6179234
--------AAGGACCUAC-AACCUAGGCGGUGGUCUCGGGGAUCAUUCGCUUUGGGUCUCCUAACCAUCCGUACCUUAACAAAAAAAAGAUGAA--AAAAACAA-
--------((((.((((.-....))))(((((((...(((((((..........)))))))..)))).)))..)))).................--........- ( -22.30, z-score =  -0.65, R)
>droYak2.chrX 17611691 87 + 21770863
--------AGGGCCCUAA-AAACUAGGCGGUGGUCUCUGGGAUCAUUCGCUUGGGGUCUCCAUACCAUCCGAACCUUAACAAAAAAGGAAAACCAA---------
--------.((((((((.-......((((((((((.....))))).)))))))))))))..............((((.......))))........--------- ( -23.21, z-score =  -0.16, R)
>droEre2.scaffold_4690 1655499 90 - 18748788
--------AGGGUCCUAA-AAACUAGGCGGUGGUCUCUGGGAUCAUUCGCUUGGGGUCUCCAUACCAUCCGAGCCUUGACAAAAAAAAAGAAUAACCAA------
--------((((..(...-...(((((((((((((.....))))).))))))))(((......)))....)..))))......................------ ( -23.00, z-score =  -0.25, R)
>droAna3.scaffold_13335 3147020 98 + 3335858
AAAAAAAAGGGGCGGGGAAAACCUAGGCGGUGGUCCUUUGGAACCUACGCUUGAGGUCUCCGUACCUCACAAUAAAAAACGUAAAAAAAAUAUGAAAA-------
.......(((..((((((...((((((((..(((((...)).)))..))))).)))))))))..)))............((((.......))))....------- ( -27.90, z-score =  -2.29, R)
>consensus
________AAGGACCUAA_AACCUAGGCGGUGGUCUCGGGGAUCAUUCGCUUGGGGUCUCCAAACCAUCCGAACCUUAACAAAAAAAAAAAAAAA_AAA______
..........((.........((((((((((((((.....)))))).)))))))).........))....................................... (-14.94 = -16.27 +   1.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:14:29 2011