Locus 653

Sequence ID dm3.chr2L
Location 4,567,395 – 4,567,512
Length 117
Max. P 0.962640
window865 window866

overview

Window 5

Location 4,567,395 – 4,567,512
Length 117
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 84.27
Shannon entropy 0.27435
G+C content 0.35013
Mean single sequence MFE -25.55
Consensus MFE -14.01
Energy contribution -14.37
Covariance contribution 0.36
Combinations/Pair 1.16
Mean z-score -2.52
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.67
SVM RNA-class probability 0.782127
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 4567395 117 + 23011544
GUAUCUGACUUUAUAAUCUCUAACUAGGGUACUUUUGUACUCAUGGUCAAAAGUAUUAAGCUCAUUCUUGUUGAAACCCUAAUACCCUCCUUGAAGGGUAUUAAAAAAACUUAAACA-
..........................(((((((((((.((.....)))))))))..........(((.....)))))))(((((((((......)))))))))..............- ( -23.60, z-score =  -2.02, R)
>droEre2.scaffold_4929 4650868 114 + 26641161
GUAUCUAACUUUAUAAUCUGCAACUAGAGCAUUAUUG--CUCAUGGUCAACAGUAUUAAGCUCAUUCUUGCUGAAAGCAUAAUACCCUCCUUGAAGGGUAUUAAAAAAACGGAACG--
((.(((............(((.(((((((((....))--))).))))...(((((..((.....))..)))))...)))(((((((((......))))))))).......))))).-- ( -28.60, z-score =  -3.50, R)
>droYak2.chr2L 4585033 105 + 22324452
--------AUAUCUAA-CUUCAACUAGAGGAUUAUGU--GUCAUGGUCAAGAGUAUAAAGCUCAUUCUUGUUGAAAUCCUAAUACCCUCCUUGAAGGGUAUUAAAAAAACGGAACG--
--------...(((..-.((((((.(((((((((((.--..)))))))..((((.....)))).)))).))))))....(((((((((......))))))))).......)))...-- ( -28.90, z-score =  -3.55, R)
>droSec1.super_5 2660253 111 + 5866729
----GUGACUUUAUAAUCUUCAACUAGAGCGUUUUUG--CUCAUGGUCAAAAGUAUUAAGCUCAUUCUUGUUGAAACCCUAAUACCCUCCUUGAAGGGUAUUAAGAAAACGUAACCA-
----(((((((.(((.......(((((((((....))--))).))))......))).))).))))....((((......(((((((((......)))))))))........))))..- ( -23.36, z-score =  -1.82, R)
>droSim1.chr2L 4453319 116 + 22036055
GUAUCUGACUUUAUAAUCUUCAACUAGAGCGUUUUUG--CUCAUGGUCAAAAGUAUUAAGCUCAUUCUUGUUGAAACCCUAAUACCCUCCUUGAAGGGUAUUAAGAAAACGUAACCAA
...(((............((((((..(((((....))--))).........(((.....))).......))))))....(((((((((......))))))))))))............ ( -23.30, z-score =  -1.69, R)
>consensus
GUAUCUGACUUUAUAAUCUUCAACUAGAGCAUUUUUG__CUCAUGGUCAAAAGUAUUAAGCUCAUUCUUGUUGAAACCCUAAUACCCUCCUUGAAGGGUAUUAAAAAAACGUAACCA_
..................((((((..((((.............................))))......))))))....(((((((((......)))))))))............... (-14.01 = -14.37 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 4,567,395 – 4,567,512
Length 117
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 84.27
Shannon entropy 0.27435
G+C content 0.35013
Mean single sequence MFE -29.18
Consensus MFE -19.19
Energy contribution -19.67
Covariance contribution 0.48
Combinations/Pair 1.25
Mean z-score -2.68
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.71
SVM RNA-class probability 0.962640
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 4567395 117 - 23011544
-UGUUUAAGUUUUUUUAAUACCCUUCAAGGAGGGUAUUAGGGUUUCAACAAGAAUGAGCUUAAUACUUUUGACCAUGAGUACAAAAGUACCCUAGUUAGAGAUUAUAAAGUCAGAUAC
-...(((((((((((((((((((((....))))))))))))).(((.....))).))))))))((((((((((.....)).))))))))...........((((....))))...... ( -27.50, z-score =  -2.12, R)
>droEre2.scaffold_4929 4650868 114 - 26641161
--CGUUCCGUUUUUUUAAUACCCUUCAAGGAGGGUAUUAUGCUUUCAGCAAGAAUGAGCUUAAUACUGUUGACCAUGAG--CAAUAAUGCUCUAGUUGCAGAUUAUAAAGUUAGAUAC
--(((((........((((((((((....))))))))))(((.....))).)))))(((((.(((((((.(((...(((--((....)))))..)))))))..))).)))))...... ( -32.30, z-score =  -3.40, R)
>droYak2.chr2L 4585033 105 - 22324452
--CGUUCCGUUUUUUUAAUACCCUUCAAGGAGGGUAUUAGGAUUUCAACAAGAAUGAGCUUUAUACUCUUGACCAUGAC--ACAUAAUCCUCUAGUUGAAG-UUAGAUAU--------
--............(((((((((((....)))))))))))(((((((((......(((..((((..((........)).--..))))..)))..)))))))-))......-------- ( -24.90, z-score =  -2.06, R)
>droSec1.super_5 2660253 111 - 5866729
-UGGUUACGUUUUCUUAAUACCCUUCAAGGAGGGUAUUAGGGUUUCAACAAGAAUGAGCUUAAUACUUUUGACCAUGAG--CAAAAACGCUCUAGUUGAAGAUUAUAAAGUCAC----
-...........(((((((((((((....))))))))))))).((((((....(((.(.((((.....))))))))(((--(......))))..))))))((((....))))..---- ( -30.40, z-score =  -3.01, R)
>droSim1.chr2L 4453319 116 - 22036055
UUGGUUACGUUUUCUUAAUACCCUUCAAGGAGGGUAUUAGGGUUUCAACAAGAAUGAGCUUAAUACUUUUGACCAUGAG--CAAAAACGCUCUAGUUGAAGAUUAUAAAGUCAGAUAC
(((..(......(((((((((((((....)))))))))))))(((((((....(((.(.((((.....))))))))(((--(......))))..))))))).......)..))).... ( -30.80, z-score =  -2.82, R)
>consensus
_UGGUUACGUUUUUUUAAUACCCUUCAAGGAGGGUAUUAGGGUUUCAACAAGAAUGAGCUUAAUACUUUUGACCAUGAG__CAAAAAUGCUCUAGUUGAAGAUUAUAAAGUCAGAUAC
............(((((((((((((....)))))))))))))(((((((.(((.((.........(((........)))........)).))).)))))))................. (-19.19 = -19.67 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:16:43 2011