Locus 14214

Sequence ID dm3.chrX
Location 11,964,812 – 11,964,907
Length 95
Max. P 0.958306
window19571 window19572

overview

Window 1

Location 11,964,812 – 11,964,907
Length 95
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 62.96
Shannon entropy 0.65380
G+C content 0.51387
Mean single sequence MFE -35.23
Consensus MFE -12.11
Energy contribution -11.45
Covariance contribution -0.66
Combinations/Pair 1.54
Mean z-score -1.80
Structure conservation index 0.34
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.84
SVM RNA-class probability 0.833112
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11964812 95 + 22422827
AACGUUGGCGACGUCCUGUACUUUGGGGUACAAUUAGGCAUCGAACACGAUGGGGAGAUACCGAAUACGUUCGGAAUAUUCACCGUUAAAUCAUC-------------------
..(((((.(((.(((.((((((....))))))....))).)))....)))))((..(((((((((....)))))..))))..))...........------------------- ( -24.50, z-score =  -0.52, R)
>droSim1.chrX 9228224 95 + 17042790
GUGGCGGGCGACAUCCUGUACUUUGGGGUACAGUUAAGCAUCGAUCACGAUGGAGAGGUCCCGAAUACGUUCGGAAUAUUCACCGUUAAAUCAUU-------------------
.((((((..(((.(((((((((....))))))).....(((((....)))))..)).)))(((((....)))))........)))))).......------------------- ( -29.10, z-score =  -1.44, R)
>droEre2.scaffold_4690 3884951 108 - 18748788
UCCGUGGGCGAUGAUCUGUGCUUUGGGGUUAAACUAUACGGCGAGGUCGCUGAGGAGAUCCCGAUUACGUUCGGGAUUUUCACCGUUAAGGAGGAGGAGCUGCACCAC------
...(((((((.(..(((...(((((((((.........(((((....))))).(((((((((((......)))))))))))))).)))))).)))..)..))).))))------ ( -41.30, z-score =  -2.26, R)
>droYak2.chrX 19883914 114 - 21770863
UCCGUGGGCGAUGAUCUCUGUUUUGGGGUCAAAAUAAACGGCGAGGUCGCCGUGGAGAUACCGGUUACGUUCGGGAUCUUCACCGUCAAGGCGGAGGAGCUGCAUUCCCAUCAC
...(((((.((((.(((((((((((((((........((((((....))))))((((((.((((......)))).))))))))).)))))))))))).....)))))))))... ( -47.90, z-score =  -2.92, R)
>droSec1.super_53 181378 95 + 190754
GUGGCGGGCGACAUCCUGUACUUUGGGGUACAAUUAAGCAUCGAUCACGAUGGGGAGAUCCCGAAUACGUUCGGAAUAUUCACCGUUAAAUCAUA-------------------
.((((((..((..(((((((((....))))).......(((((....)))))))))..))(((((....)))))........)))))).......------------------- ( -28.30, z-score =  -1.27, R)
>droAna3.scaffold_13335 1933349 101 - 3335858
UUCGUUGGCGAUGACAUAUCCUUUGGCGUGGAUAUUGAUCCGUCGGUGGAGCAACAGCUACCAUGGACCUUCGGUAUCUUCACCGUCAAGGCGGAGCCGGC-------------
...((((((((((...))))((((((((.(((((((((...(((.(((((((....))).)))).)))..)))))))))....))))))))....))))))------------- ( -40.30, z-score =  -2.42, R)
>consensus
UUCGUGGGCGACGACCUGUACUUUGGGGUACAAUUAAACAUCGAGCACGAUGGGGAGAUACCGAAUACGUUCGGAAUAUUCACCGUUAAAGCAGA___________________
......((((............................(((((....)))))........((((......)))).........))))........................... (-12.11 = -11.45 +  -0.66)

alignment

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secondary structure

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dotplot

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Window 2

Location 11,964,812 – 11,964,907
Length 95
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 62.96
Shannon entropy 0.65380
G+C content 0.51387
Mean single sequence MFE -27.67
Consensus MFE -15.36
Energy contribution -15.42
Covariance contribution 0.06
Combinations/Pair 1.44
Mean z-score -1.11
Structure conservation index 0.56
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.65
SVM RNA-class probability 0.958306
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11964812 95 - 22422827
-------------------GAUGAUUUAACGGUGAAUAUUCCGAACGUAUUCGGUAUCUCCCCAUCGUGUUCGAUGCCUAAUUGUACCCCAAAGUACAGGACGUCGCCAACGUU
-------------------...........(((((.....(((((....)))))....(((.(((((....)))))......(((((......))))))))..)))))...... ( -22.40, z-score =  -0.79, R)
>droSim1.chrX 9228224 95 - 17042790
-------------------AAUGAUUUAACGGUGAAUAUUCCGAACGUAUUCGGGACCUCUCCAUCGUGAUCGAUGCUUAACUGUACCCCAAAGUACAGGAUGUCGCCCGCCAC
-------------------...........((((......(((((....)))))(((.((..(((((....))))).....((((((......)))))))).)))...)))).. ( -27.00, z-score =  -2.05, R)
>droEre2.scaffold_4690 3884951 108 + 18748788
------GUGGUGCAGCUCCUCCUCCUUAACGGUGAAAAUCCCGAACGUAAUCGGGAUCUCCUCAGCGACCUCGCCGUAUAGUUUAACCCCAAAGCACAGAUCAUCGCCCACGGA
------((((.((...............(((((((..(((((((......))))))).((......))..)))))))...((((.......))))..........))))))... ( -28.30, z-score =  -1.14, R)
>droYak2.chrX 19883914 114 + 21770863
GUGAUGGGAAUGCAGCUCCUCCGCCUUGACGGUGAAGAUCCCGAACGUAACCGGUAUCUCCACGGCGACCUCGCCGUUUAUUUUGACCCCAAAACAGAGAUCAUCGCCCACGGA
....(((((......((.(.(((......))).).)).)))))..(((...(((((((((.((((((....))))))...(((((....)))))..))))).))))...))).. ( -31.40, z-score =  -0.20, R)
>droSec1.super_53 181378 95 - 190754
-------------------UAUGAUUUAACGGUGAAUAUUCCGAACGUAUUCGGGAUCUCCCCAUCGUGAUCGAUGCUUAAUUGUACCCCAAAGUACAGGAUGUCGCCCGCCAC
-------------------...........((((......(((((....)))))(((.(((.(((((....)))))......(((((......)))))))).)))...)))).. ( -25.30, z-score =  -1.39, R)
>droAna3.scaffold_13335 1933349 101 + 3335858
-------------GCCGGCUCCGCCUUGACGGUGAAGAUACCGAAGGUCCAUGGUAGCUGUUGCUCCACCGACGGAUCAAUAUCCACGCCAAAGGAUAUGUCAUCGCCAACGAA
-------------...(((...)))(((.((((((.(((.(((..(((....((.(((....))))))))..)))))).((((((........)))))).)))))).))).... ( -31.60, z-score =  -1.08, R)
>consensus
___________________UACGACUUAACGGUGAAUAUUCCGAACGUAUUCGGGAUCUCCCCAUCGACCUCGAUGCUUAAUUGUACCCCAAAGUACAGGACAUCGCCCACGAA
..............................(((((...((((((......))))))......(((((....)))))...........................)))))...... (-15.36 = -15.42 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:36:04 2011