Locus 7911

Sequence ID dm3.chr3L
Location 18,428,814 – 18,428,912
Length 98
Max. P 0.965899
window10888 window10889

overview

Window 8

Location 18,428,814 – 18,428,912
Length 98
Sequences 4
Columns 104
Reading direction forward
Mean pairwise identity 80.57
Shannon entropy 0.29789
G+C content 0.40351
Mean single sequence MFE -20.63
Consensus MFE -13.44
Energy contribution -16.88
Covariance contribution 3.44
Combinations/Pair 1.03
Mean z-score -1.87
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.36
SVM RNA-class probability 0.659347
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 18428814 98 + 24543557
GCUGUCUGCUGUUUGUUACAACUUUUCAAUUGUUUGGCUUCUGUCAUAACCUUUGACAUGGCAAUGGCAAC------UUGUGGUUGUUGUUUUUGCCUUUUGAC
((.....))................((((..(((((((....)))).)))..))))((.(((((..(((((------........)))))..)))))...)).. ( -23.10, z-score =  -1.46, R)
>droYak2.chr3L 8585922 104 - 24197627
GCUGUCUGCUGUUUGUUACAACUUUUCAAUUGUUUGGCUUCUGUCAUUACCUUUGACAUGGCAAUGGCAACAACAACUUAUGGUUGUUGUUUUUGCCUUUUGAC
((.....))................((((..((.((((....))))..))..))))((.(((((..((((((((........))))))))..)))))...)).. ( -27.00, z-score =  -2.45, R)
>droWil1.scaffold_180949 5965966 89 - 6375548
UCUACACGUUUUUUGUUACAACUUUUCAAUUGUUUGGCUUCUGUCAUUACCUUUGACAUGGCCCUGCCAAC---------------UUGUUGUUGCCUUUUGAC
.......(((....((.(((((.........((..((((..(((((.......))))).))))..))....---------------..))))).)).....))) ( -16.26, z-score =  -1.70, R)
>droGri2.scaffold_14411 2503 89 + 3410
CCCGAUUCCCGCUUGUUACAACUUUUCAAUUGUUUGGCUUCUGUCAUUACCUUUGACAUGGCCCUGCCAAC---------------UUGUUGUUGCCUUUUAAC
..............((.(((((.........((..((((..(((((.......))))).))))..))....---------------..))))).))........ ( -16.16, z-score =  -1.86, R)
>consensus
GCUGUCUGCUGUUUGUUACAACUUUUCAAUUGUUUGGCUUCUGUCAUUACCUUUGACAUGGCAAUGCCAAC_______________UUGUUGUUGCCUUUUGAC
..............((((.......((((..((.((((....))))..))..))))...(((((((((((((((........)))))))))))))))...)))) (-13.44 = -16.88 +   3.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 18,428,814 – 18,428,912
Length 98
Sequences 4
Columns 104
Reading direction reverse
Mean pairwise identity 80.57
Shannon entropy 0.29789
G+C content 0.40351
Mean single sequence MFE -23.70
Consensus MFE -14.52
Energy contribution -16.15
Covariance contribution 1.63
Combinations/Pair 1.00
Mean z-score -2.77
Structure conservation index 0.61
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.76
SVM RNA-class probability 0.965899
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 18428814 98 - 24543557
GUCAAAAGGCAAAAACAACAACCACAA------GUUGCCAUUGCCAUGUCAAAGGUUAUGACAGAAGCCAAACAAUUGAAAAGUUGUAACAAACAGCAGACAGC
.......(((((...((((........------))))...))))).((((...((((........))))..((((((....))))))...........)))).. ( -22.80, z-score =  -2.56, R)
>droYak2.chr3L 8585922 104 + 24197627
GUCAAAAGGCAAAAACAACAACCAUAAGUUGUUGUUGCCAUUGCCAUGUCAAAGGUAAUGACAGAAGCCAAACAAUUGAAAAGUUGUAACAAACAGCAGACAGC
(((....(((...(((((((((.....)))))))))..(((((((........)))))))......)))..((((((....))))))...........)))... ( -32.10, z-score =  -4.85, R)
>droWil1.scaffold_180949 5965966 89 + 6375548
GUCAAAAGGCAACAACAA---------------GUUGGCAGGGCCAUGUCAAAGGUAAUGACAGAAGCCAAACAAUUGAAAAGUUGUAACAAAAAACGUGUAGA
.......(.((((.....---------------)))).)..(((..(((((.......)))))...)))..((((((....))))))................. ( -19.80, z-score =  -1.91, R)
>droGri2.scaffold_14411 2503 89 - 3410
GUUAAAAGGCAACAACAA---------------GUUGGCAGGGCCAUGUCAAAGGUAAUGACAGAAGCCAAACAAUUGAAAAGUUGUAACAAGCGGGAAUCGGG
(((....(.((((.....---------------)))).)..(((..(((((.......)))))...)))..((((((....))))))....))).......... ( -20.10, z-score =  -1.78, R)
>consensus
GUCAAAAGGCAAAAACAA_______________GUUGCCAGGGCCAUGUCAAAGGUAAUGACAGAAGCCAAACAAUUGAAAAGUUGUAACAAACAGCAGACAGC
.......(((.....(((((((........))))))).((..(((........)))..))......)))..((((((....))))))................. (-14.52 = -16.15 +   1.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:35:49 2011