Locus 11411

Sequence ID dm3.chr3R
Location 20,922,219 – 20,922,321
Length 102
Max. P 0.863458
window15689 window15690

overview

Window 9

Location 20,922,219 – 20,922,321
Length 102
Sequences 3
Columns 102
Reading direction forward
Mean pairwise identity 74.16
Shannon entropy 0.35272
G+C content 0.42289
Mean single sequence MFE -12.50
Consensus MFE -9.56
Energy contribution -9.57
Covariance contribution 0.01
Combinations/Pair 1.14
Mean z-score -1.18
Structure conservation index 0.76
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.27
SVM RNA-class probability 0.622452
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 20922219 102 + 27905053
UGCUUUUGUUUCCAUUAGCUGUCAAUCAUCCUUACAUAUGUUUGACUUCAACCCUAGUCGGAACACCUCGCCUUCGCUACCAUCCAUAUCCAUAUCCACAUC
.((...((((((.(((((..(((((.(((........))).))))).......))))).))))))....))............................... ( -13.10, z-score =  -1.69, R)
>droAna3.scaffold_13340 6783910 85 + 23697760
AGCCGUUGUUUCCAUUAGCUGCCAAUCAUCCUUAUAUAUGUUUGACUUCGACCCUAGUUGGAAUGCCUCGUGUAAGUAUGUAUUC-----------------
.((.((((.......)))).))....(((.(((((((...((..(((........)))..)).......))))))).))).....----------------- ( -13.10, z-score =  -0.20, R)
>droEre2.scaffold_4820 3341860 94 - 10470090
UGCUUUUGUUUCCAUUAGCUGUCAAUCAUCCUUACAUAUGUUUGACUUCAACCCUAUUCGGAACACCUCGCUUUCGCCUCCAUCCAUAUCCACA--------
.(((..((....))..))).(((((.(((........))).))))).............(((.......((....)).....))).........-------- ( -11.30, z-score =  -1.65, R)
>consensus
UGCUUUUGUUUCCAUUAGCUGUCAAUCAUCCUUACAUAUGUUUGACUUCAACCCUAGUCGGAACACCUCGCCUUCGCAUCCAUCCAUAUCCA_A________
.((...((((((.(((((..(((((.(((........))).))))).......))))).))))))....))............................... ( -9.56 =  -9.57 +   0.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 20,922,219 – 20,922,321
Length 102
Sequences 3
Columns 102
Reading direction reverse
Mean pairwise identity 74.16
Shannon entropy 0.35272
G+C content 0.42289
Mean single sequence MFE -18.80
Consensus MFE -14.77
Energy contribution -15.00
Covariance contribution 0.23
Combinations/Pair 1.11
Mean z-score -1.46
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.97
SVM RNA-class probability 0.863458
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 20922219 102 - 27905053
GAUGUGGAUAUGGAUAUGGAUGGUAGCGAAGGCGAGGUGUUCCGACUAGGGUUGAAGUCAAACAUAUGUAAGGAUGAUUGACAGCUAAUGGAAACAAAAGCA
..(((.(((.((.(((((..(((..((....)).........((((....))))...)))..))))).))......))).)))(((..((....))..))). ( -21.70, z-score =  -1.40, R)
>droAna3.scaffold_13340 6783910 85 - 23697760
-----------------GAAUACAUACUUACACGAGGCAUUCCAACUAGGGUCGAAGUCAAACAUAUAUAAGGAUGAUUGGCAGCUAAUGGAAACAACGGCU
-----------------...............(((.....(((.....))))))..(((((.(((........))).)))))((((..((....))..)))) ( -14.60, z-score =  -0.98, R)
>droEre2.scaffold_4820 3341860 94 + 10470090
--------UGUGGAUAUGGAUGGAGGCGAAAGCGAGGUGUUCCGAAUAGGGUUGAAGUCAAACAUAUGUAAGGAUGAUUGACAGCUAAUGGAAACAAAAGCA
--------........((((.....((....)).......))))............(((((.(((........))).))))).(((..((....))..))). ( -20.10, z-score =  -2.01, R)
>consensus
________U_UGGAUAUGGAUGGAAGCGAAAGCGAGGUGUUCCGACUAGGGUUGAAGUCAAACAUAUGUAAGGAUGAUUGACAGCUAAUGGAAACAAAAGCA
.........................((....)).......(((.....))).....(((((.(((........))).))))).(((..((....))..))). (-14.77 = -15.00 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:42:30 2011