Locus 13943

Sequence ID dm3.chrX
Location 10,150,791 – 10,150,933
Length 142
Max. P 0.989014
window19179 window19180

overview

Window 9

Location 10,150,791 – 10,150,933
Length 142
Sequences 5
Columns 157
Reading direction forward
Mean pairwise identity 78.84
Shannon entropy 0.36418
G+C content 0.40432
Mean single sequence MFE -34.47
Consensus MFE -21.99
Energy contribution -23.48
Covariance contribution 1.49
Combinations/Pair 1.03
Mean z-score -1.49
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.17
SVM RNA-class probability 0.576011
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 10150791 142 + 22422827
CCGAUUCAACCCACCACAAGAGCACAAGAG--------UUCACCAAGUGCGUCACAAGCGGUGAGUAAACACUUAUUUGAGUCACUGUGUUGUGGUGGAUUAAAAUUGAUCAUAGGAAA-------GUUGUAAUUGCAAGCGAAUUUUUUAAGUUAU
.(((((....(((((((((((((((.....--------........)))).))....(((((((.((((......))))..))))))).))))))))).....)))))....(((((((-------.((((........)))).)))))))...... ( -34.52, z-score =  -1.29, R)
>droSim1.chrX_random 531790 114 + 5698898
CCGAU----CACCACACAAGAGCGCA-GAG---------UCACCA-GUGCGUC-CAGGCG-UGAGU--ACACUUAUU-GAGU-ACUGUGU-GUGGUGAU---AAAUUGAUCA--AGAAA-------GAAAUGAACCAAUUUUAGUUAU---------
...((----(((((((((.(..((((-..(---------....).-.))))..-).....-..(((--((.(.....-).))-))).)))-))))))))---((((((.(((--.....-------....)))..)))))).......--------- ( -29.70, z-score =  -1.89, R)
>droSec1.super_15 862519 139 + 1954846
CCGAUUCAACCCACCACAAGAGCACAAGAG----------CAC-AAGUGCGUCACAAGCGGUGAGUAAACACUUAUUUGAGUCACUGUGUUGUGGUGGAUUAAAAUUGAUCAUAGGAAA-------GUAAAAAUUGAAAGCGAAUUUUUUAAGUUAU
.(((((....(((((((((((((((.....----------...-..)))).))....(((((((.((((......))))..))))))).))))))))).....)))))...........-------((((...(((((((.....))))))).)))) ( -32.00, z-score =  -1.35, R)
>droYak2.chrX 18732698 157 + 21770863
CCGAUUCAACCCACCACAAGAGCACAAGAGCACAAGAGUUCACCAAGUGCGUCACAAGCGGUGAGUAAACACUUAUUUGAGUCACUGUGUUGUGGUGGAUUAAAAUUGAUCAUAGGAAUCAUCAUUGGAGUAAUUAAAGGCGAACUUUUCAAGUUAU
..(((((....((((((((((((((..((((......)))).....)))).))....(((((((.((((......))))..))))))).))))))))(((((....)))))....))))).........((((((((((.....))))...)))))) ( -39.00, z-score =  -1.37, R)
>droEre2.scaffold_4690 13778607 142 - 18748788
CCGAUUCAACCCACCACAAGAGCACAAGAG--------UUCACCAAGUGCGUCACAAGCGGUGAGUAAACACUUAUUUGAGUCACUGUGUUGUGGUGGAUUAAAAUUGAUCAUAGGAAA-------GUGGUUAAUGAACGCGAACUUUUAAACUUAU
.((.(((...(((((((((((((((.....--------........)))).))....(((((((.((((......))))..))))))).)))))))))......(((((((((......-------))))))))))))))................. ( -37.12, z-score =  -1.56, R)
>consensus
CCGAUUCAACCCACCACAAGAGCACAAGAG________UUCACCAAGUGCGUCACAAGCGGUGAGUAAACACUUAUUUGAGUCACUGUGUUGUGGUGGAUUAAAAUUGAUCAUAGGAAA_______GUAGUAAUUGAAAGCGAAUUUUUUAAGUUAU
.(((((....(((((((((((((((.....................)))).))....(((((((.((((......))))..))))))).))))))))).....)))))................................................. (-21.99 = -23.48 +   1.49)

alignment

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secondary structure

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dotplot

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Window 0

Location 10,150,791 – 10,150,933
Length 142
Sequences 5
Columns 157
Reading direction reverse
Mean pairwise identity 78.84
Shannon entropy 0.36418
G+C content 0.40432
Mean single sequence MFE -36.36
Consensus MFE -21.52
Energy contribution -23.72
Covariance contribution 2.20
Combinations/Pair 1.00
Mean z-score -2.86
Structure conservation index 0.59
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.35
SVM RNA-class probability 0.989014
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 10150791 142 - 22422827
AUAACUUAAAAAAUUCGCUUGCAAUUACAAC-------UUUCCUAUGAUCAAUUUUAAUCCACCACAACACAGUGACUCAAAUAAGUGUUUACUCACCGCUUGUGACGCACUUGGUGAA--------CUCUUGUGCUCUUGUGGUGGGUUGAAUCGG
...............................-------...............((((((((((((((((((((.((.(((..(((((((....((((.....)))).))))))).))).--------.)))))))...))))))))))))))).... ( -35.10, z-score =  -2.56, R)
>droSim1.chrX_random 531790 114 - 5698898
---------AUAACUAAAAUUGGUUCAUUUC-------UUUCU--UGAUCAAUUU---AUCACCAC-ACACAGU-ACUC-AAUAAGUGU--ACUCA-CGCCUG-GACGCAC-UGGUGA---------CUC-UGCGCUCUUGUGUGGUG----AUCGG
---------.......((((((((.((....-------.....--))))))))))---((((((((-(((.(((-((.(-.....).))--)))..-.....(-..((((.-.(....---------)..-))))..).)))))))))----))... ( -35.30, z-score =  -4.09, R)
>droSec1.super_15 862519 139 - 1954846
AUAACUUAAAAAAUUCGCUUUCAAUUUUUAC-------UUUCCUAUGAUCAAUUUUAAUCCACCACAACACAGUGACUCAAAUAAGUGUUUACUCACCGCUUGUGACGCACUU-GUG----------CUCUUGUGCUCUUGUGGUGGGUUGAAUCGG
........(((((((.......)))))))..-------...............((((((((((((((((((((.((.....((((((((....((((.....)))).))))))-)).----------.)))))))...))))))))))))))).... ( -35.20, z-score =  -3.53, R)
>droYak2.chrX 18732698 157 - 21770863
AUAACUUGAAAAGUUCGCCUUUAAUUACUCCAAUGAUGAUUCCUAUGAUCAAUUUUAAUCCACCACAACACAGUGACUCAAAUAAGUGUUUACUCACCGCUUGUGACGCACUUGGUGAACUCUUGUGCUCUUGUGCUCUUGUGGUGGGUUGAAUCGG
.............................((..((((.((....)).))))..((((((((((((((((((((.((.....(((((.(((((((....((.......))....))))))).)))))..)))))))...)))))))))))))))..)) ( -40.50, z-score =  -2.38, R)
>droEre2.scaffold_4690 13778607 142 + 18748788
AUAAGUUUAAAAGUUCGCGUUCAUUAACCAC-------UUUCCUAUGAUCAAUUUUAAUCCACCACAACACAGUGACUCAAAUAAGUGUUUACUCACCGCUUGUGACGCACUUGGUGAA--------CUCUUGUGCUCUUGUGGUGGGUUGAAUCGG
..................(.((((.......-------......)))).)...((((((((((((((((((((.((.(((..(((((((....((((.....)))).))))))).))).--------.)))))))...))))))))))))))).... ( -35.72, z-score =  -1.73, R)
>consensus
AUAACUUAAAAAAUUCGCUUUCAAUUACUAC_______UUUCCUAUGAUCAAUUUUAAUCCACCACAACACAGUGACUCAAAUAAGUGUUUACUCACCGCUUGUGACGCACUUGGUGAA________CUCUUGUGCUCUUGUGGUGGGUUGAAUCGG
.....................................................((((((((((((((((((((((((.(......).)).)))((((((..((.....))..)))))).............))))...))))))))))))))).... (-21.52 = -23.72 +   2.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:30:41 2011