Locus 10122

Sequence ID dm3.chr3R
Location 11,427,029 – 11,427,090
Length 61
Max. P 0.999518
window13919 window13920

overview

Window 9

Location 11,427,029 – 11,427,090
Length 61
Sequences 3
Columns 65
Reading direction forward
Mean pairwise identity 65.96
Shannon entropy 0.45208
G+C content 0.40420
Mean single sequence MFE -16.37
Consensus MFE -6.50
Energy contribution -7.17
Covariance contribution 0.67
Combinations/Pair 1.25
Mean z-score -2.52
Structure conservation index 0.40
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.11
SVM RNA-class probability 0.892481
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 11427029 61 + 27905053
UUGAUUUUAGAGUAG--GCAGAAAUGGUUCUG-UCAGCUCAACGUCUACAGAGUCUCUCCGAUU-
..((((((.((((.(--((((((....)))))-)).))))...(....))))))).........- ( -15.70, z-score =  -1.22, R)
>droSim1.chr3h_random 100549 58 - 1452968
UUUAUUUAUUUGUAGGAGCAGGGAAGGUCCCGCUCCAUUCGAAGUUAAU------UCGUCAAUA-
..............(((((.(((.....))))))))...((((.....)------)))......- ( -16.70, z-score =  -3.15, R)
>droSec1.super_16 1851330 59 - 1878335
UUUAUUUAUUUGUAGGAGCAGGGAAGGUCCCGCUCCAUUCGAAGUUAAU------UCGUCAAUUU
..............(((((.(((.....))))))))...((((.....)------)))....... ( -16.70, z-score =  -3.18, R)
>consensus
UUUAUUUAUUUGUAGGAGCAGGGAAGGUCCCGCUCCAUUCGAAGUUAAU______UCGUCAAUU_
..............(((((.(((....))).)))))............................. ( -6.50 =  -7.17 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 11,427,029 – 11,427,090
Length 61
Sequences 3
Columns 65
Reading direction reverse
Mean pairwise identity 65.96
Shannon entropy 0.45208
G+C content 0.40420
Mean single sequence MFE -15.63
Consensus MFE -9.86
Energy contribution -10.53
Covariance contribution 0.67
Combinations/Pair 1.25
Mean z-score -3.51
Structure conservation index 0.63
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.97
SVM RNA-class probability 0.999518
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 11427029 61 - 27905053
-AAUCGGAGAGACUCUGUAGACGUUGAGCUGA-CAGAACCAUUUCUGC--CUACUCUAAAAUCAA
-...(((((...)))))..((..(((((..(.-(((((....))))).--)..))).))..)).. ( -11.10, z-score =  -0.24, R)
>droSim1.chr3h_random 100549 58 + 1452968
-UAUUGACGA------AUUAACUUCGAAUGGAGCGGGACCUUCCCUGCUCCUACAAAUAAAUAAA
-..(((.(((------(.....))))...((((((((......))))))))..)))......... ( -17.90, z-score =  -5.16, R)
>droSec1.super_16 1851330 59 + 1878335
AAAUUGACGA------AUUAACUUCGAAUGGAGCGGGACCUUCCCUGCUCCUACAAAUAAAUAAA
...(((.(((------(.....))))...((((((((......))))))))..)))......... ( -17.90, z-score =  -5.12, R)
>consensus
_AAUUGACGA______AUUAACUUCGAAUGGAGCGGGACCUUCCCUGCUCCUACAAAUAAAUAAA
.............................((((((((......)))))))).............. ( -9.86 = -10.53 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:17:55 2011