Locus 14759

Sequence ID dm3.chrX
Location 15,294,966 – 15,295,056
Length 90
Max. P 0.936772
window20315 window20316

overview

Window 5

Location 15,294,966 – 15,295,056
Length 90
Sequences 7
Columns 97
Reading direction forward
Mean pairwise identity 70.45
Shannon entropy 0.53978
G+C content 0.46653
Mean single sequence MFE -21.89
Consensus MFE -13.42
Energy contribution -11.75
Covariance contribution -1.67
Combinations/Pair 1.47
Mean z-score -0.70
Structure conservation index 0.61
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.15
SVM RNA-class probability 0.568357
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 15294966 90 + 22422827
AAAGUAGACUAAAGUUUGGGGGGACUUAAG-GAGGUUUUAAG----GGGAGCGCAACUAAAAAGAUCAUUCCAGUAAAGCGUGCGCUCACGUUAC--
.....(((((....((((((....))))))-..)))))(((.----(.(((((((........((....))..........))))))).).))).-- ( -19.47, z-score =  -0.54, R)
>droPer1.super_14 798577 94 - 2168203
--AAGAAACGGAAAUGAGCUACGAGUACGAGUACCUCUAGGAGGCGAAGGGCGCAACUGAAGGGG-CAUUCCAACUAAGCGUGCGCUCACGUUACGC
--..(.((((....((((((((((((..((((.(((((.((..(((.....)))..))..)))))-.))))..)))...)))).))))))))).).. ( -27.30, z-score =  -0.57, R)
>dp4.chrXL_group1e 12235940 94 + 12523060
--AAGAAACGGAAAUGAGCUACGAGUACGAGUACCUCUAGGAGGCGAAGGGCGCAACUGAAGGGG-CAUUCCAACUAAGCGUGCGCUCACGUUACGU
--..(.((((....((((((((((((..((((.(((((.((..(((.....)))..))..)))))-.))))..)))...)))).))))))))).).. ( -27.30, z-score =  -0.62, R)
>droEre2.scaffold_4690 7020175 92 - 18748788
--AAU-GACUAUUGUUUAAGGGCACUCAAGGGGGGAGUUUCAUUUAAGGAGCGCAACUAAAAAGAUCAUUCCAAUAAAGCGUGCGCUCACGUUAC--
--..(-(((.....((((((((.((((.......)))).)).))))))(((((((........((....))..........)))))))..)))).-- ( -18.47, z-score =  -0.41, R)
>droYak2.chrX 9492659 87 + 21770863
--AAU-GACUAUUGUUUAAGGGGACUUAAGAGGGGUUUUUUA-----GGAGCGCAACUGAAAAGAUCAUUCCAAUAAAGCGUGCGCUCACGUUAC--
--...-((((....((((((....))))))...)))).....-----.(((((((.((.....((....))......))..))))))).......-- ( -21.50, z-score =  -1.57, R)
>droSec1.super_56 179769 88 + 192059
--AAU-GACUAAAGUUUGGGGCGACUUAAGAGGGGUUUUAAG----GGGAGCGCAACUAAAAAGAUCAUUACAGUAAAGCGUGCGCUCACGUCAC--
--..(-(((.....((((((((..((....))..))))))))----..(((((((.((...................))..)))))))..)))).-- ( -19.31, z-score =  -0.74, R)
>droSim1.chrX 11824200 88 + 17042790
--AAU-GACUAAAGUUUGGGGCGACUUAAGAGGGGUUUUAAG----GGGAGCGCAACUAAAAAGAUCAUUCCAGUAAAGCGUGCGCUCACGUUAC--
--...-((((....((((((....))))))...)))).(((.----(.(((((((........((....))..........))))))).).))).-- ( -19.87, z-score =  -0.42, R)
>consensus
__AAU_GACUAAAGUUUGGGGCGACUUAAGAGGGGUUUUAAA____AGGAGCGCAACUAAAAAGAUCAUUCCAAUAAAGCGUGCGCUCACGUUAC__
......(((...............(((....)))..............(((((((.((...................))..)))))))..))).... (-13.42 = -11.75 +  -1.67)

alignment

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secondary structure

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dotplot

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Window 6

Location 15,294,966 – 15,295,056
Length 90
Sequences 7
Columns 97
Reading direction reverse
Mean pairwise identity 70.45
Shannon entropy 0.53978
G+C content 0.46653
Mean single sequence MFE -18.28
Consensus MFE -11.77
Energy contribution -12.00
Covariance contribution 0.23
Combinations/Pair 1.08
Mean z-score -1.25
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.41
SVM RNA-class probability 0.936772
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 15294966 90 - 22422827
--GUAACGUGAGCGCACGCUUUACUGGAAUGAUCUUUUUAGUUGCGCUCCC----CUUAAAACCUC-CUUAAGUCCCCCCAAACUUUAGUCUACUUU
--(((((..(((((((......(((((((......))))))))))))))..----(((((......-.)))))...............)).)))... ( -16.90, z-score =  -2.09, R)
>droPer1.super_14 798577 94 + 2168203
GCGUAACGUGAGCGCACGCUUAGUUGGAAUG-CCCCUUCAGUUGCGCCCUUCGCCUCCUAGAGGUACUCGUACUCGUAGCUCAUUUCCGUUUCUU--
(((((((.(((((....)))))(..((....-..))..).))))))).............(((.(((........))).))).............-- ( -22.60, z-score =  -0.05, R)
>dp4.chrXL_group1e 12235940 94 - 12523060
ACGUAACGUGAGCGCACGCUUAGUUGGAAUG-CCCCUUCAGUUGCGCCCUUCGCCUCCUAGAGGUACUCGUACUCGUAGCUCAUUUCCGUUUCUU--
(((.((.((((((..(((...(((..((.((-((.((...(..(((.....)))..)..)).)))).))..)))))).)))))))).))).....-- ( -21.60, z-score =  -0.01, R)
>droEre2.scaffold_4690 7020175 92 + 18748788
--GUAACGUGAGCGCACGCUUUAUUGGAAUGAUCUUUUUAGUUGCGCUCCUUAAAUGAAACUCCCCCCUUGAGUGCCCUUAAACAAUAGUC-AUU--
--.....(.(((((((.(((.....(((....)))....)))))))))))...(((((.((((.......))))...............))-)))-- ( -17.19, z-score =  -1.20, R)
>droYak2.chrX 9492659 87 - 21770863
--GUAACGUGAGCGCACGCUUUAUUGGAAUGAUCUUUUCAGUUGCGCUCC-----UAAAAAACCCCUCUUAAGUCCCCUUAAACAAUAGUC-AUU--
--.....(.(((((((......(((((((......)))))))))))))))-----.............(((((....))))).........-...-- ( -15.90, z-score =  -1.70, R)
>droSec1.super_56 179769 88 - 192059
--GUGACGUGAGCGCACGCUUUACUGUAAUGAUCUUUUUAGUUGCGCUCCC----CUUAAAACCCCUCUUAAGUCGCCCCAAACUUUAGUC-AUU--
--(((((..(((((((.(((.....(.......).....))))))))))..----(((((........)))))...............)))-)).-- ( -17.80, z-score =  -2.44, R)
>droSim1.chrX 11824200 88 - 17042790
--GUAACGUGAGCGCACGCUUUACUGGAAUGAUCUUUUUAGUUGCGCUCCC----CUUAAAACCCCUCUUAAGUCGCCCCAAACUUUAGUC-AUU--
--.(((.(.(((((((......(((((((......)))))))))))))).)----.)))........((.((((........)))).))..-...-- ( -16.00, z-score =  -1.27, R)
>consensus
__GUAACGUGAGCGCACGCUUUAUUGGAAUGAUCUUUUUAGUUGCGCUCCC____UUUAAAACCCCCCUUAAGUCGCCCCAAACUUUAGUC_AUU__
.........(((((((.(((.....((......))....))))))))))................................................ (-11.77 = -12.00 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:46:11 2011