Locus 6584

Sequence ID dm3.chr3L
Location 7,977,379 – 7,977,474
Length 95
Max. P 0.912295
window9062 window9063

overview

Window 2

Location 7,977,379 – 7,977,474
Length 95
Sequences 5
Columns 95
Reading direction forward
Mean pairwise identity 92.30
Shannon entropy 0.13207
G+C content 0.35042
Mean single sequence MFE -22.16
Consensus MFE -21.80
Energy contribution -21.36
Covariance contribution -0.44
Combinations/Pair 1.17
Mean z-score -1.43
Structure conservation index 0.98
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.22
SVM RNA-class probability 0.912295
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 7977379 95 + 24543557
AUUUGGCCAAGAACAAUUUAGAGCCUUUUAAUAGCCUUUAUGUUUUAUUGGUACACACACAUAAUGUGUACAUUGUGGUUACUUUGGAACGCAAU
...((((((((((((...(((((.((......)).)))))))))))....(((((((.......)))))))....)))))).............. ( -19.30, z-score =  -0.66, R)
>droEre2.scaffold_4784 22381795 89 - 25762168
AUUUGGCCAGGAACAGUUUAGAGCCUUU-AGUGGCCUUUAUGUUUUAUUGGUACACAUG----AUGUGUGCAUUGUGGCUACAUUG-AACGCAAU
...((((((((((((....((.(((...-...)))))...))))))....((((((...----..))))))....)))))).....-........ ( -26.00, z-score =  -1.64, R)
>droYak2.chr3L 8567263 90 + 24197627
AUUUGGCCAAGAACAAUUUAGAGCCUUUUAAUGGCCUUUAUGUUUUAUUGGUACACAUA----AUGUGUACAUUGUGGUUACUUUG-AACGCAAU
...((((((((((((....((.(((.......)))))...))))))....((((((...----..))))))....)))))).....-........ ( -22.00, z-score =  -1.89, R)
>droSec1.super_0 272126 93 + 21120651
AUUUGGCCAAGAACAAUUUAGAGCCUUUUAAUGGCCUUUAUGUUUUAUUGGUACACACA--UAAUGUGUACAUUGUGGUUACUUUGGAACGCAAU
...((((((((((((....((.(((.......)))))...))))))....(((((((..--...)))))))....)))))).............. ( -22.40, z-score =  -1.57, R)
>droSim1.chr3L 7452021 93 + 22553184
AUUUGGCUAAGAACAAUUUAGAGCCUUUUAAUGGCCUUUAUGUUUUAUUGGUACACACA--UAAUGUGUACAUUGUGGUUACUUUGGAACGCAAU
.....((........((..((.(((.......)))))..))((((((..((((.((.((--(((((....))))))))))))).))))))))... ( -21.10, z-score =  -1.40, R)
>consensus
AUUUGGCCAAGAACAAUUUAGAGCCUUUUAAUGGCCUUUAUGUUUUAUUGGUACACACA__UAAUGUGUACAUUGUGGUUACUUUGGAACGCAAU
...((((((((((((....((.(((.......)))))...))))))....(((((((.......)))))))....)))))).............. (-21.80 = -21.36 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 3

Location 7,977,379 – 7,977,474
Length 95
Sequences 5
Columns 95
Reading direction reverse
Mean pairwise identity 92.30
Shannon entropy 0.13207
G+C content 0.35042
Mean single sequence MFE -16.66
Consensus MFE -16.38
Energy contribution -16.10
Covariance contribution -0.28
Combinations/Pair 1.21
Mean z-score -0.72
Structure conservation index 0.98
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.05
SVM RNA-class probability 0.521721
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 7977379 95 - 24543557
AUUGCGUUCCAAAGUAACCACAAUGUACACAUUAUGUGUGUGUACCAAUAAAACAUAAAGGCUAUUAAAAGGCUCUAAAUUGUUCUUGGCCAAAU
.((((........)))).......((((((((.....))))))))..............(((((....(..((........))..)))))).... ( -17.00, z-score =  -0.37, R)
>droEre2.scaffold_4784 22381795 89 + 25762168
AUUGCGUU-CAAUGUAGCCACAAUGCACACAU----CAUGUGUACCAAUAAAACAUAAAGGCCACU-AAAGGCUCUAAACUGUUCCUGGCCAAAU
..(((((.-..)))))((((...((((((...----..)))))).......((((...(((((...-...))).))....))))..))))..... ( -16.00, z-score =  -0.10, R)
>droYak2.chr3L 8567263 90 - 24197627
AUUGCGUU-CAAAGUAACCACAAUGUACACAU----UAUGUGUACCAAUAAAACAUAAAGGCCAUUAAAAGGCUCUAAAUUGUUCUUGGCCAAAU
.((((...-....)))).......((((((..----...))))))..............(((((....(..((........))..)))))).... ( -16.50, z-score =  -1.05, R)
>droSec1.super_0 272126 93 - 21120651
AUUGCGUUCCAAAGUAACCACAAUGUACACAUUA--UGUGUGUACCAAUAAAACAUAAAGGCCAUUAAAAGGCUCUAAAUUGUUCUUGGCCAAAU
.((((........)))).......((((((((..--.))))))))..............(((((....(..((........))..)))))).... ( -17.90, z-score =  -1.05, R)
>droSim1.chr3L 7452021 93 - 22553184
AUUGCGUUCCAAAGUAACCACAAUGUACACAUUA--UGUGUGUACCAAUAAAACAUAAAGGCCAUUAAAAGGCUCUAAAUUGUUCUUAGCCAAAU
.((((........))))..(((((((((((((..--.)))))))).............(((((.......))).))..)))))............ ( -15.90, z-score =  -1.02, R)
>consensus
AUUGCGUUCCAAAGUAACCACAAUGUACACAUUA__UGUGUGUACCAAUAAAACAUAAAGGCCAUUAAAAGGCUCUAAAUUGUUCUUGGCCAAAU
.((((........)))).......((((((((.....))))))))..............(((((.....((........)).....))))).... (-16.38 = -16.10 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:10:34 2011