Locus 14354

Sequence ID dm3.chrX
Location 12,865,675 – 12,865,808
Length 133
Max. P 0.920550
window19760 window19761

overview

Window 0

Location 12,865,675 – 12,865,786
Length 111
Sequences 3
Columns 111
Reading direction reverse
Mean pairwise identity 88.59
Shannon entropy 0.15719
G+C content 0.47748
Mean single sequence MFE -39.47
Consensus MFE -33.91
Energy contribution -35.47
Covariance contribution 1.56
Combinations/Pair 1.05
Mean z-score -2.09
Structure conservation index 0.86
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.28
SVM RNA-class probability 0.920550
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 12865675 111 - 22422827
GGGUCCUUGAGAUCCAUAAGGUCCUUGUGAUCCAUAAGGUCCUUGGGAUCCAUAGGCUCCACGAGAUCCAACGUUCGGUUGGUAAGGAUUAAUCGCAUAGGGAUUGUAGUU
((..(((((.(((((.(((((.(((((((...))))))).)))))))))))).)))..))((..(((((...((.((((((((....)))))))).))..)))))...)). ( -42.10, z-score =  -2.90, R)
>droSec1.super_21 607971 111 - 1102487
AGGUCCUUGAGAUCCAUAAGGUCCUUGUGAUUCAUAAGGUCCUUGGGAUCCAUGGGCUCCUCGAGAUCCAACGUUCGGUUGGUAAGGAUUAAUCGCAUAGGGAUUGUAGUU
.(((((.((.(((((.(((((.(((((((...))))))).)))))))))))).)))))......(((((...((.((((((((....)))))))).))..)))))...... ( -41.50, z-score =  -2.78, R)
>droEre2.scaffold_4690 4751393 111 + 18748788
GGAACUCUGAGAUCCGUAAGGUCCUUGAGACCCGUAAGGUCCUUGGGAUCCAUAGGCUCUUCCAGUUUCGAUGCUCGGUUGGUAAGGAUUAAUCGCAUAGGGAUUGUAGUU
((..((.((.(((((.(((((.(((((.......))))).)))))))))))).))..))...((((..(.((((..(((((((....))))))))))).)..))))..... ( -34.80, z-score =  -0.59, R)
>consensus
GGGUCCUUGAGAUCCAUAAGGUCCUUGUGAUCCAUAAGGUCCUUGGGAUCCAUAGGCUCCUCGAGAUCCAACGUUCGGUUGGUAAGGAUUAAUCGCAUAGGGAUUGUAGUU
((((((.((.(((((.(((((.(((((((...))))))).)))))))))))).)))))).....(((((......((((((((....)))))))).....)))))...... (-33.91 = -35.47 +   1.56)

alignment

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secondary structure

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dotplot

Postscript

Window 1

Location 12,865,715 – 12,865,808
Length 93
Sequences 3
Columns 111
Reading direction reverse
Mean pairwise identity 76.51
Shannon entropy 0.30610
G+C content 0.53502
Mean single sequence MFE -39.04
Consensus MFE -30.68
Energy contribution -30.80
Covariance contribution 0.12
Combinations/Pair 1.12
Mean z-score -1.62
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.91
SVM RNA-class probability 0.850758
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 12865715 93 - 22422827
GAGGCGGAGAUUGCGGCCCAUA------------------GGGUCCUUGAGAUCCAUAAGGUCCUUGUGAUCCAUAAGGUCCUUGGGAUCCAUAGGCUCCACGAGAUCCAA
.....(((..(((.(((((...------------------))).(((((.(((((.(((((.(((((((...))))))).)))))))))))).)))..)).)))..))).. ( -36.60, z-score =  -1.81, R)
>droSec1.super_21 608011 93 - 1102487
GAGGCGGAGAUUGCGGCCCAUA------------------AGGUCCUUGAGAUCCAUAAGGUCCUUGUGAUUCAUAAGGUCCUUGGGAUCCAUGGGCUCCUCGAGAUCCAA
.....(((..(((.((......------------------.(((((.((.(((((.(((((.(((((((...))))))).)))))))))))).))))))).)))..))).. ( -38.81, z-score =  -2.36, R)
>droEre2.scaffold_4690 4751433 111 + 18748788
GAGGGGGAGAUUGCGGCCUAUAUGAACCGUAGGCUUCAGGGGAACUCUGAGAUCCGUAAGGUCCUUGAGACCCGUAAGGUCCUUGGGAUCCAUAGGCUCUUCCAGUUUCGA
..(((((((.(((.(((((((.......))))))).))).....((.((.(((((.(((((.(((((.......))))).)))))))))))).)).)))))))........ ( -41.70, z-score =  -0.70, R)
>consensus
GAGGCGGAGAUUGCGGCCCAUA__________________GGGUCCUUGAGAUCCAUAAGGUCCUUGUGAUCCAUAAGGUCCUUGGGAUCCAUAGGCUCCUCGAGAUCCAA
.....(((..(((.(((((((...................((....))(.(((((.(((((.(((((((...))))))).))))))))))))))))))...)))..))).. (-30.68 = -30.80 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:38:36 2011