Locus 675

Sequence ID dm3.chr2L
Location 4,668,890 – 4,668,944
Length 54
Max. P 0.930379
window898 window899

overview

Window 8

Location 4,668,890 – 4,668,944
Length 54
Sequences 3
Columns 55
Reading direction forward
Mean pairwise identity 70.73
Shannon entropy 0.40071
G+C content 0.58642
Mean single sequence MFE -15.43
Consensus MFE -8.93
Energy contribution -9.60
Covariance contribution 0.67
Combinations/Pair 1.18
Mean z-score -2.13
Structure conservation index 0.58
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.35
SVM RNA-class probability 0.930379
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 4668890 54 + 23011544
-CGCAAGUUCCACUUGCAUCAGGGUUCUCGGCACUCGCUGCCGCAUACCUCACCU
-.(((((.....)))))....((((...(((((.....)))))...))))..... ( -18.10, z-score =  -3.46, R)
>droSec1.super_86 73009 54 + 128402
GCGAGGCUACUUCUCGCUCUACUACUA-CGGCUCUCGUAGCCGCACAGCUCACUU
((((((.....))))))..........-(((((.....)))))............ ( -14.10, z-score =  -1.54, R)
>droSim1.chrU 10347172 54 - 15797150
GCGAGGCUACUUCUCGCUCUACUACUA-CGGCUCUCGUAGCCGCACAGCUCACCU
((((((.....))))))..........-(((((.....)))))............ ( -14.10, z-score =  -1.41, R)
>consensus
GCGAGGCUACUUCUCGCUCUACUACUA_CGGCUCUCGUAGCCGCACAGCUCACCU
((((((.....))))))...........(((((.....)))))............ ( -8.93 =  -9.60 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 4,668,890 – 4,668,944
Length 54
Sequences 3
Columns 55
Reading direction reverse
Mean pairwise identity 70.73
Shannon entropy 0.40071
G+C content 0.58642
Mean single sequence MFE -19.10
Consensus MFE -10.16
Energy contribution -10.50
Covariance contribution 0.34
Combinations/Pair 1.27
Mean z-score -1.95
Structure conservation index 0.53
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.63
SVM RNA-class probability 0.768757
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 4668890 54 - 23011544
AGGUGAGGUAUGCGGCAGCGAGUGCCGAGAACCCUGAUGCAAGUGGAACUUGCG-
..((.(((....(((((.....))))).....))).))(((((.....))))).- ( -18.30, z-score =  -1.73, R)
>droSec1.super_86 73009 54 - 128402
AAGUGAGCUGUGCGGCUACGAGAGCCG-UAGUAGUAGAGCGAGAAGUAGCCUCGC
......(((((((((((.....)))))-)).))))...(((((.......))))) ( -19.50, z-score =  -2.27, R)
>droSim1.chrU 10347172 54 + 15797150
AGGUGAGCUGUGCGGCUACGAGAGCCG-UAGUAGUAGAGCGAGAAGUAGCCUCGC
......(((((((((((.....)))))-)).))))...(((((.......))))) ( -19.50, z-score =  -1.83, R)
>consensus
AGGUGAGCUGUGCGGCUACGAGAGCCG_UAGUAGUAGAGCGAGAAGUAGCCUCGC
......(((((.(((((.....)))))...)))))...(((((.......))))) (-10.16 = -10.50 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:17:11 2011