Locus 1761

Sequence ID dm3.chr2L
Location 13,575,485 – 13,575,535
Length 50
Max. P 0.881404
window2422 window2423

overview

Window 2

Location 13,575,485 – 13,575,535
Length 50
Sequences 4
Columns 50
Reading direction forward
Mean pairwise identity 92.33
Shannon entropy 0.12113
G+C content 0.49500
Mean single sequence MFE -13.07
Consensus MFE -12.27
Energy contribution -12.52
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.60
Structure conservation index 0.94
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.05
SVM RNA-class probability 0.881404
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 13575485 50 + 23011544
AGAUAACUUCGGGCGCACAGUGCAUCGGGGAAAAUGGUUGCACUGGGAUG
......(....).....((((((((((.......))).)))))))..... ( -12.30, z-score =  -1.08, R)
>droYak2.chr2L 9995167 50 + 22324452
AGAUAACUUUGGGAACACAGUGCAUCGUUGAAAAUGGUUGCACUGGGAUG
.........((....))(((((((((((.....)))).)))))))..... ( -13.00, z-score =  -2.18, R)
>droSec1.super_16 1712632 50 + 1878335
AGAUAACUACGAGCGCACAGUGCAUCGUGGAAAAUGGUUGCACUGGGAUG
.................(((((((((((.....)))).)))))))..... ( -13.50, z-score =  -1.57, R)
>droSim1.chr2L_random 521537 50 + 909653
AGAUAACUACGAGCGCACAGUGCAUCGUGGAAAAUGGUUGCACUGGGAUG
.................(((((((((((.....)))).)))))))..... ( -13.50, z-score =  -1.57, R)
>consensus
AGAUAACUACGAGCGCACAGUGCAUCGUGGAAAAUGGUUGCACUGGGAUG
.................(((((((((((.....)))).)))))))..... (-12.27 = -12.52 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 13,575,485 – 13,575,535
Length 50
Sequences 4
Columns 50
Reading direction reverse
Mean pairwise identity 92.33
Shannon entropy 0.12113
G+C content 0.49500
Mean single sequence MFE -8.54
Consensus MFE -8.34
Energy contribution -8.34
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.25
Structure conservation index 0.98
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.91
SVM RNA-class probability 0.849258
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 13575485 50 - 23011544
CAUCCCAGUGCAACCAUUUUCCCCGAUGCACUGUGCGCCCGAAGUUAUCU
.....(((((((..............)))))))................. (  -8.34, z-score =  -1.36, R)
>droYak2.chr2L 9995167 50 - 22324452
CAUCCCAGUGCAACCAUUUUCAACGAUGCACUGUGUUCCCAAAGUUAUCU
.....(((((((..............)))))))................. (  -8.34, z-score =  -1.93, R)
>droSec1.super_16 1712632 50 - 1878335
CAUCCCAGUGCAACCAUUUUCCACGAUGCACUGUGCGCUCGUAGUUAUCU
.....(((((((..............)))))))(((....)))....... (  -8.74, z-score =  -0.86, R)
>droSim1.chr2L_random 521537 50 - 909653
CAUCCCAGUGCAACCAUUUUCCACGAUGCACUGUGCGCUCGUAGUUAUCU
.....(((((((..............)))))))(((....)))....... (  -8.74, z-score =  -0.86, R)
>consensus
CAUCCCAGUGCAACCAUUUUCCACGAUGCACUGUGCGCCCGAAGUUAUCU
.....(((((((..............)))))))................. ( -8.34 =  -8.34 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:38:19 2011