Locus 9505

Sequence ID dm3.chr3R
Location 7,094,983 – 7,095,046
Length 63
Max. P 0.998875
window13036 window13037

overview

Window 6

Location 7,094,983 – 7,095,046
Length 63
Sequences 6
Columns 76
Reading direction forward
Mean pairwise identity 70.20
Shannon entropy 0.51851
G+C content 0.35906
Mean single sequence MFE -15.23
Consensus MFE -10.97
Energy contribution -11.12
Covariance contribution 0.15
Combinations/Pair 1.47
Mean z-score -2.59
Structure conservation index 0.72
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.53
SVM RNA-class probability 0.998875
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 7094983 63 + 27905053
-----------AUAAUUAAGUUAUCCAGGAGUGAGAGAGCA-GUAUUCUCUUCGCGAAAUGGAUAAAAUGAUACC-
-----------...((((..(((((((...(((((((((..-...))))).))))....)))))))..))))...- ( -18.90, z-score =  -4.13, R)
>droEre2.scaffold_4770 3221962 63 - 17746568
-----------AUAAUUAAGUUAUCCAGAAGCGAGAGCGCA-CUGUUCUCUUGGCGAAGAGGAUAAAAUGAAAAC-
-----------....(((..((((((....((((((((...-..))))))...)).....))))))..)))....- ( -14.30, z-score =  -1.78, R)
>droYak2.chr3R 11129505 63 + 28832112
-----------AUAAUUAAGUUAUCCAGAAGUGAGAGAGCA-CUGUUCUCUUGGCGAAAUGGAUAAAAUAAAACC-
-----------....(((..(((((((...((((((((((.-..)))))))).))....)))))))..)))....- ( -17.30, z-score =  -3.95, R)
>droSec1.super_0 6261037 63 - 21120651
-----------AUAAUUAAGUUAUCCAGGAGUGAGAGAGCA-GUAUUCUCUUUGCGAAAUGGAUAAAAUGAAACC-
-----------....(((..(((((((...(..((((((..-...))))).)..)....)))))))..)))....- ( -15.50, z-score =  -3.16, R)
>droSim1.chr3R 13248104 63 - 27517382
-----------AUAAUUAAGUUAUCCAGGAGUGAGAGAGCA-GUAUUCUCUUGGCGAUAUGGAUAAAAUGAAACC-
-----------....(((..(((((((...(((((((((..-...))))))).))....)))))))..)))....- ( -15.10, z-score =  -2.53, R)
>triCas2.ChLG6 11705509 76 - 13544221
CUAAUAGAAUUACAAAUGAGUGUCCGAUUAAUGAUAUGUUACGUAACGAUCCGACAUAUCUGACAAGAAUUAAUCG
........................((((((((((((((((............))))))))........)))))))) ( -10.30, z-score =   0.01, R)
>consensus
___________AUAAUUAAGUUAUCCAGGAGUGAGAGAGCA_GUAUUCUCUUGGCGAAAUGGAUAAAAUGAAACC_
...............(((..(((((((...(((((((((......))))))).))....)))))))..)))..... (-10.97 = -11.12 +   0.15)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 7,094,983 – 7,095,046
Length 63
Sequences 6
Columns 76
Reading direction reverse
Mean pairwise identity 70.20
Shannon entropy 0.51851
G+C content 0.35906
Mean single sequence MFE -10.66
Consensus MFE -5.47
Energy contribution -6.19
Covariance contribution 0.72
Combinations/Pair 1.33
Mean z-score -1.34
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.45
SVM RNA-class probability 0.699092
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 7094983 63 - 27905053
-GGUAUCAUUUUAUCCAUUUCGCGAAGAGAAUAC-UGCUCUCUCACUCCUGGAUAACUUAAUUAU-----------
-.........(((((((....(.((.((((....-...)))))).)...))))))).........----------- ( -10.50, z-score =  -1.43, R)
>droEre2.scaffold_4770 3221962 63 + 17746568
-GUUUUCAUUUUAUCCUCUUCGCCAAGAGAACAG-UGCGCUCUCGCUUCUGGAUAACUUAAUUAU-----------
-(((.((........(((((....)))))..(((-.(((....)))..))))).)))........----------- ( -11.20, z-score =  -1.34, R)
>droYak2.chr3R 11129505 63 - 28832112
-GGUUUUAUUUUAUCCAUUUCGCCAAGAGAACAG-UGCUCUCUCACUUCUGGAUAACUUAAUUAU-----------
-....(((..(((((((((((.....))))..((-((......))))..)))))))..)))....----------- ( -10.70, z-score =  -1.65, R)
>droSec1.super_0 6261037 63 + 21120651
-GGUUUCAUUUUAUCCAUUUCGCAAAGAGAAUAC-UGCUCUCUCACUCCUGGAUAACUUAAUUAU-----------
-.........(((((((........(((((....-...)))))......))))))).........----------- (  -9.64, z-score =  -1.65, R)
>droSim1.chr3R 13248104 63 + 27517382
-GGUUUCAUUUUAUCCAUAUCGCCAAGAGAAUAC-UGCUCUCUCACUCCUGGAUAACUUAAUUAU-----------
-.........(((((((........(((((....-...)))))......))))))).........----------- (  -9.64, z-score =  -1.47, R)
>triCas2.ChLG6 11705509 76 + 13544221
CGAUUAAUUCUUGUCAGAUAUGUCGGAUCGUUACGUAACAUAUCAUUAAUCGGACACUCAUUUGUAAUUCUAUUAG
((((((((........(((((((((........))..)))))))))))))))........................ ( -12.30, z-score =  -0.51, R)
>consensus
_GGUUUCAUUUUAUCCAUUUCGCCAAGAGAAUAC_UGCUCUCUCACUCCUGGAUAACUUAAUUAU___________
..........(((((((........(((((........)))))......))))))).................... ( -5.47 =  -6.19 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:05:42 2011