Locus 4323

Sequence ID dm3.chr2R
Location 12,221,778 – 12,221,828
Length 50
Max. P 0.862604
window5929 window5930

overview

Window 9

Location 12,221,778 – 12,221,828
Length 50
Sequences 7
Columns 51
Reading direction forward
Mean pairwise identity 87.97
Shannon entropy 0.23811
G+C content 0.44571
Mean single sequence MFE -13.27
Consensus MFE -8.79
Energy contribution -8.76
Covariance contribution -0.04
Combinations/Pair 1.62
Mean z-score -2.31
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.75
SVM RNA-class probability 0.805121
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 12221778 50 + 21146708
UUUCGGCCUA-UGGUCGGCACUGUUAUUACAUAACCACCAUGAUGGCCUUC
....((((((-((((.((...(((....)))...))))))))..))))... ( -16.30, z-score =  -3.03, R)
>droSim1.chr2R 10952546 50 + 19596830
UUUCGGCCUA-UGGUCGGCACUGUUAUUACAUAACCACCAUGAUGGCCUUC
....((((((-((((.((...(((....)))...))))))))..))))... ( -16.30, z-score =  -3.03, R)
>droSec1.super_1 9719526 50 + 14215200
UUUCGGCCUA-UGGUCGGCACUGUUAUUACAUAACCACCAUGAUGGCCUUC
....((((((-((((.((...(((....)))...))))))))..))))... ( -16.30, z-score =  -3.03, R)
>droYak2.chr2R 4374794 50 - 21139217
UUUCGGCCUA-UGGUCGGCACCGUUAUUACAUAACCACCAUGAUGGCCUUC
....((((((-((((.((....((....))....))))))))..))))... ( -14.60, z-score =  -2.07, R)
>droEre2.scaffold_4845 8948789 50 - 22589142
UUUCGGCCUA-UGGUCGGCACUGUUAUUACAUAACUACCAUGAUGGCCUUC
....((((((-((((.((...(((....)))...))))))))..))))... ( -14.00, z-score =  -2.44, R)
>droAna3.scaffold_13266 15598491 50 + 19884421
UUUCGGCCUA-UGGCGAGCACUAUUAUUACAUAACUACUGUGAUGGCCUUC
....((((.(-(((......)))).((((((.......))))))))))... ( -10.30, z-score =  -1.27, R)
>droMoj3.scaffold_6496 2350655 50 + 26866924
UUUCAUUUUAGUAGUAGUCACUAUUAUUACAUAACU-UUAUCAUGGCCUUC
..........((((((((....))))))))......-.............. (  -5.10, z-score =  -1.35, R)
>consensus
UUUCGGCCUA_UGGUCGGCACUGUUAUUACAUAACCACCAUGAUGGCCUUC
....((((...((((.((...(((....)))...))))))....))))... ( -8.79 =  -8.76 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 12,221,778 – 12,221,828
Length 50
Sequences 7
Columns 51
Reading direction reverse
Mean pairwise identity 87.97
Shannon entropy 0.23811
G+C content 0.44571
Mean single sequence MFE -14.14
Consensus MFE -10.60
Energy contribution -11.11
Covariance contribution 0.52
Combinations/Pair 1.43
Mean z-score -2.08
Structure conservation index 0.75
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.96
SVM RNA-class probability 0.862604
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 12221778 50 - 21146708
GAAGGCCAUCAUGGUGGUUAUGUAAUAACAGUGCCGACCA-UAGGCCGAAA
...((((...((((((((..(((....)))..))).))))-).)))).... ( -18.00, z-score =  -3.03, R)
>droSim1.chr2R 10952546 50 - 19596830
GAAGGCCAUCAUGGUGGUUAUGUAAUAACAGUGCCGACCA-UAGGCCGAAA
...((((...((((((((..(((....)))..))).))))-).)))).... ( -18.00, z-score =  -3.03, R)
>droSec1.super_1 9719526 50 - 14215200
GAAGGCCAUCAUGGUGGUUAUGUAAUAACAGUGCCGACCA-UAGGCCGAAA
...((((...((((((((..(((....)))..))).))))-).)))).... ( -18.00, z-score =  -3.03, R)
>droYak2.chr2R 4374794 50 + 21139217
GAAGGCCAUCAUGGUGGUUAUGUAAUAACGGUGCCGACCA-UAGGCCGAAA
...((((...((((((((..(((....)))..))).))))-).)))).... ( -17.30, z-score =  -2.22, R)
>droEre2.scaffold_4845 8948789 50 + 22589142
GAAGGCCAUCAUGGUAGUUAUGUAAUAACAGUGCCGACCA-UAGGCCGAAA
...((((...(((((.....(((....)))......))))-).)))).... ( -14.10, z-score =  -2.33, R)
>droAna3.scaffold_13266 15598491 50 - 19884421
GAAGGCCAUCACAGUAGUUAUGUAAUAAUAGUGCUCGCCA-UAGGCCGAAA
...((((((..(((((.((((......)))))))).)..)-).)))).... (  -9.90, z-score =  -0.90, R)
>droMoj3.scaffold_6496 2350655 50 - 26866924
GAAGGCCAUGAUAA-AGUUAUGUAAUAAUAGUGACUACUACUAAAAUGAAA
......((((((..-.))))))......(((((.....)))))........ (  -3.70, z-score =  -0.06, R)
>consensus
GAAGGCCAUCAUGGUGGUUAUGUAAUAACAGUGCCGACCA_UAGGCCGAAA
...((((....(((((((..(((....)))..))).))))...)))).... (-10.60 = -11.11 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:27:01 2011