Locus 7115

Sequence ID dm3.chr3L
Location 12,304,171 – 12,304,292
Length 121
Max. P 0.995573
window9798 window9799

overview

Window 8

Location 12,304,171 – 12,304,281
Length 110
Sequences 10
Columns 111
Reading direction reverse
Mean pairwise identity 91.96
Shannon entropy 0.16165
G+C content 0.42968
Mean single sequence MFE -23.37
Consensus MFE -19.58
Energy contribution -19.02
Covariance contribution -0.56
Combinations/Pair 1.23
Mean z-score -2.51
Structure conservation index 0.84
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.79
SVM RNA-class probability 0.967927
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 12304171 110 - 24543557
UUUACCGUUAAGUAGACAAGUAUUAAUGGUAGAAUACCAACGGAAUGCGUAGCAG-AACGCAGCUCCACAAACAUACAAAACAGGGCCAUAAGAGUCACAGACAAGACGAG
(((((((((((...........)))))))))))........(((.(((((.....-.)))))..)))...........................(((........)))... ( -22.60, z-score =  -2.69, R)
>droAna3.scaffold_13337 21948741 110 + 23293914
UUUACCGUUAAGUAGACAAGUAUUAAUGGUAGAAUACCAACGGAAUGCGUAGCAG-AACGCAGCUCCGCAAACAUACAAAACAGGGCCAUAAGAGUCACAGACAAGACGAG
(((((((((((...........))))))))))).......((((.(((((.....-.)))))..))))..........................(((........)))... ( -23.90, z-score =  -2.69, R)
>droEre2.scaffold_4784 12299531 110 - 25762168
UUUACCGUUAAGUAGACAAGUAUUAAUGGUAGAAUACCAACGGAAUGCGUAGCCG-AACGCAGCUCCACAAACAUACAAAACAGGGCCAUAAGAGUCACAGACAAGACGAG
(((((((((((...........)))))))))))........(((.(((((.....-.)))))..)))...........................(((........)))... ( -22.60, z-score =  -2.32, R)
>droYak2.chr3L 12357103 110 - 24197627
UUUACCGUUAAGUAGACAAGUAUUAAUGGUAGAAUACCAACGGAAUGCGUAGCUG-AACGCAGCUCCACAAACAUACAAAACAGGGCCAUAAGAGUCACAGACAAGACGAG
(((((((((((...........)))))))))))........(((.(((((.....-.)))))..)))...........................(((........)))... ( -22.60, z-score =  -1.98, R)
>droSec1.super_0 4488912 110 - 21120651
UUUACCGUUAAGUAGACAAGUAUUAAUGGUAGAAUACCAACGGAAUGCGUAGCAG-AACGCAGCUCCACAAACAUACAAAACAGGGCCAUAAGAGUCACAGAAAAGACGAG
(((((((((((...........)))))))))))........(((.(((((.....-.)))))..)))...........................(((........)))... ( -22.60, z-score =  -2.82, R)
>droSim1.chr3L 11682867 110 - 22553184
UUUACCGUUAAGUAGACAAGUAUUAAUGGUAGAAUACCAACGGAAUGCGUAGCAG-AACGCAGCUCCACAAACAUACAAAACAGGGCCAUAAGAGUCACAGACAAGACGAG
(((((((((((...........)))))))))))........(((.(((((.....-.)))))..)))...........................(((........)))... ( -22.60, z-score =  -2.69, R)
>droMoj3.scaffold_6680 5915097 105 - 24764193
UUUACCGUUAAGUAGACAAGUAUUAAUGGUGAAAUACCAACGGAAUGCGUAGCGC-UGCGCAACUUAACAAACAUACAAAAC--GGCCACA---GCCGGAGACAAGACGAG
(((((((((((...........))))))))))).......((...((((((....-)))))).(((................--(((....---)))(....)))).)).. ( -24.60, z-score =  -1.96, R)
>droVir3.scaffold_13049 7661652 105 - 25233164
UUUACCGUUAAGUAGACAAGUAUUAAUGGUGAAAUACCAACGGAAUGCGUAGCGC-UGCGCAACUUAACAAACAUACAAAAC--GGCCACA---GCCGGAGACAAGACGAG
(((((((((((...........))))))))))).......((...((((((....-)))))).(((................--(((....---)))(....)))).)).. ( -24.60, z-score =  -1.96, R)
>dp4.chrXR_group6 2656939 111 - 13314419
UUUACCGUUAAGUAGACAAGUAUUAAUGGUAAAAUACCAACGGAAUGCGUAGCAGAAACGCAGCUCCACAAACAUACAAAACAGGGCCAUAAGAACCGGAGACAAGACGAA
(((((((((((...........)))))))))))...((...(((.(((((.......)))))..)))................((..(....)..))))............ ( -23.80, z-score =  -2.98, R)
>droPer1.super_9 953351 111 - 3637205
UUUACCGUUAAGUAGACAAGUAUUAAUGGUAAAAUACCAACGGAAUGCGUAGCAGAAACGCAGCUCCACAAACAUACAAAACAGGGCCAUAAGAACCGGAGACAAGACGAA
(((((((((((...........)))))))))))...((...(((.(((((.......)))))..)))................((..(....)..))))............ ( -23.80, z-score =  -2.98, R)
>consensus
UUUACCGUUAAGUAGACAAGUAUUAAUGGUAGAAUACCAACGGAAUGCGUAGCAG_AACGCAGCUCCACAAACAUACAAAACAGGGCCAUAAGAGUCACAGACAAGACGAG
(((((((((((...........)))))))))))........(((.(((((.......)))))..))).................(((.......))).............. (-19.58 = -19.02 +  -0.56)

alignment

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secondary structure

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dotplot

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Window 9

Location 12,304,173 – 12,304,292
Length 119
Sequences 10
Columns 120
Reading direction reverse
Mean pairwise identity 92.86
Shannon entropy 0.14351
G+C content 0.41553
Mean single sequence MFE -30.32
Consensus MFE -26.29
Energy contribution -25.83
Covariance contribution -0.46
Combinations/Pair 1.17
Mean z-score -3.29
Structure conservation index 0.87
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.82
SVM RNA-class probability 0.995573
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 12304173 119 - 24543557
AAUGUCUGUAAUUUACCGUUAAGUAGACAAGUAUUAAUGGUAGAAUACCAACGGAAUGCGUAGCAG-AACGCAGCUCCACAAACAUACAAAACAGGGCCAUAAGAGUCACAGACAAGACG
..(((((((..(((((((((((...........)))))))))))........(((.(((((.....-.)))))..))).................((((....).))))))))))..... ( -30.80, z-score =  -3.83, R)
>droAna3.scaffold_13337 21948743 119 + 23293914
AAUGUCUGUAAUUUACCGUUAAGUAGACAAGUAUUAAUGGUAGAAUACCAACGGAAUGCGUAGCAG-AACGCAGCUCCGCAAACAUACAAAACAGGGCCAUAAGAGUCACAGACAAGACG
..(((((((..(((((((((((...........))))))))))).......((((.(((((.....-.)))))..))))................((((....).))))))))))..... ( -32.10, z-score =  -3.86, R)
>droEre2.scaffold_4784 12299533 119 - 25762168
AAUGUCUGUAAUUUACCGUUAAGUAGACAAGUAUUAAUGGUAGAAUACCAACGGAAUGCGUAGCCG-AACGCAGCUCCACAAACAUACAAAACAGGGCCAUAAGAGUCACAGACAAGACG
..(((((((..(((((((((((...........)))))))))))........(((.(((((.....-.)))))..))).................((((....).))))))))))..... ( -30.80, z-score =  -3.52, R)
>droYak2.chr3L 12357105 119 - 24197627
AAUGUCUGUAAUUUACCGUUAAGUAGACAAGUAUUAAUGGUAGAAUACCAACGGAAUGCGUAGCUG-AACGCAGCUCCACAAACAUACAAAACAGGGCCAUAAGAGUCACAGACAAGACG
..(((((((..(((((((((((...........)))))))))))........(((.(((((.....-.)))))..))).................((((....).))))))))))..... ( -30.80, z-score =  -3.28, R)
>droSec1.super_0 4488914 119 - 21120651
AAUGUCUGUAAUUUACCGUUAAGUAGACAAGUAUUAAUGGUAGAAUACCAACGGAAUGCGUAGCAG-AACGCAGCUCCACAAACAUACAAAACAGGGCCAUAAGAGUCACAGAAAAGACG
...(((((((.(((((((((((...........))))))))))).)))....(((.(((((.....-.)))))..)))................)))).......(((........))). ( -27.70, z-score =  -2.92, R)
>droSim1.chr3L 11682869 119 - 22553184
AAUGUCUGUAAUUUACCGUUAAGUAGACAAGUAUUAAUGGUAGAAUACCAACGGAAUGCGUAGCAG-AACGCAGCUCCACAAACAUACAAAACAGGGCCAUAAGAGUCACAGACAAGACG
..(((((((..(((((((((((...........)))))))))))........(((.(((((.....-.)))))..))).................((((....).))))))))))..... ( -30.80, z-score =  -3.83, R)
>droMoj3.scaffold_6680 5915099 114 - 24764193
AAUGUCUGUAAUUUACCGUUAAGUAGACAAGUAUUAAUGGUGAAAUACCAACGGAAUGCGUAGCGC-UGCGCAACUUAACAAACAUACAAAAC--GGCCACA---GCCGGAGACAAGACG
..((((((((.(((((((((((...........))))))))))).)))........((((((....-))))))...................(--(((....---)))).)))))..... ( -30.60, z-score =  -2.55, R)
>droVir3.scaffold_13049 7661654 114 - 25233164
AAUGUCUGUAAUUUACCGUUAAGUAGACAAGUAUUAAUGGUGAAAUACCAACGGAAUGCGUAGCGC-UGCGCAACUUAACAAACAUACAAAAC--GGCCACA---GCCGGAGACAAGACG
..((((((((.(((((((((((...........))))))))))).)))........((((((....-))))))...................(--(((....---)))).)))))..... ( -30.60, z-score =  -2.55, R)
>dp4.chrXR_group6 2656941 120 - 13314419
AAUGUCUGUAAUUUACCGUUAAGUAGACAAGUAUUAAUGGUAAAAUACCAACGGAAUGCGUAGCAGAAACGCAGCUCCACAAACAUACAAAACAGGGCCAUAAGAACCGGAGACAAGACG
..(((((....(((((((((((...........)))))))))))...((...(((.(((((.......)))))..)))................((..(....)..)))))))))..... ( -29.50, z-score =  -3.29, R)
>droPer1.super_9 953353 120 - 3637205
AAUGUCUGUAAUUUACCGUUAAGUAGACAAGUAUUAAUGGUAAAAUACCAACGGAAUGCGUAGCAGAAACGCAGCUCCACAAACAUACAAAACAGGGCCAUAAGAACCGGAGACAAGACG
..(((((....(((((((((((...........)))))))))))...((...(((.(((((.......)))))..)))................((..(....)..)))))))))..... ( -29.50, z-score =  -3.29, R)
>consensus
AAUGUCUGUAAUUUACCGUUAAGUAGACAAGUAUUAAUGGUAGAAUACCAACGGAAUGCGUAGCAG_AACGCAGCUCCACAAACAUACAAAACAGGGCCAUAAGAGUCACAGACAAGACG
..((((((((.(((((((((((...........))))))))))).)))....(((.(((((.......)))))..))).................(((.......)))..)))))..... (-26.29 = -25.83 +  -0.46)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:20:48 2011