Locus 1494

Sequence ID dm3.chr2L
Location 11,521,967 – 11,522,100
Length 133
Max. P 0.803315
window2042 window2043

overview

Window 2

Location 11,521,967 – 11,522,060
Length 93
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 67.90
Shannon entropy 0.59418
G+C content 0.52725
Mean single sequence MFE -34.90
Consensus MFE -14.77
Energy contribution -14.25
Covariance contribution -0.52
Combinations/Pair 1.64
Mean z-score -1.55
Structure conservation index 0.42
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.74
SVM RNA-class probability 0.803315
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 11521967 93 + 23011544
UCCAUCCUUGGUAUUGGUUGUGAUAUAGAGAGCUGGAAAUUUGUUUUCUGGGAGGCU------------UGUAUGCCGGCGGUCUUUCGCGAAUGUUCGUGGGUG
..(((((.(((.((...((((((...(((..(((((..((..(((((....))))).------------.))...)))))..))).))))))..))))).))))) ( -28.30, z-score =  -1.54, R)
>droSim1.chr2L 11339139 105 + 22036055
UCCAUCUUUGGUAUUGGUUGCGAUACAGAGAUCCGGAAUUCGGUUUUCUGUGUGGCUUGUCGCGGGGCUUGUAUGCCGGCGGCCUCUCGCGAAUGUUUGUGGGUG
.(((....)))........((.(((((((((.(((.....))).))))))))).))..(((((..(((......))).)))))..(((((((....))))))).. ( -37.90, z-score =  -1.63, R)
>droSec1.super_3 6920154 105 + 7220098
UCCAUCUUUGGUAUUGGUUGCGAUACAGAGAUCCGGAAUUUGGUUUUCUGUGUGGCUGGUCGCGGGUAUUGUAUGCCGGCGGCCUCUCGCGAAUGUUUGUGGGUG
.(((....)))........((.(((((((((.(((.....))).))))))))).)).((((((.(((((...))))).)))))).(((((((....))))))).. ( -41.40, z-score =  -3.29, R)
>droEre2.scaffold_4537 34090 105 - 52796
UCGUUCUGUAGUAUGGGUGGAAAUAUAGAGAGCUGGAACUUUGCUUACUGGAUGGCUUGUUCAGUGGUGUGUAGGCCGGCGGUCUCUCGCGAAUGUUCGUGGGAG
...(((((((.............))))))).(((((..((.((((((((((((.....))))))))).))).)).)))))...(((((((((....))))))))) ( -33.72, z-score =  -1.48, R)
>droGri2.scaffold_15252 9353766 98 + 17193109
UCGUACGUUGCUGUUGGCCGCCGAGUAG----UUGGGAGGCGGUGCAUUG---GCCUUGUACGAUGGAUUGUAGGCUGGUGGCUUCUCAUGCACGUUUGUGUGCG
.........((..(..(((..(((...(----(((.(((((.(.....).---)))))...))))...)))..)))..)..)).......(((((....))))). ( -33.20, z-score =   0.18, R)
>consensus
UCCAUCUUUGGUAUUGGUUGCGAUAUAGAGAGCUGGAAUUUGGUUUUCUGGGUGGCUUGUCCCGGGGAUUGUAUGCCGGCGGCCUCUCGCGAAUGUUUGUGGGUG
...............((((((....((((((.(((.....))).))))))...(((..................))).)))))).(((((((....))))))).. (-14.77 = -14.25 +  -0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 11,522,003 – 11,522,100
Length 97
Sequences 9
Columns 109
Reading direction forward
Mean pairwise identity 66.29
Shannon entropy 0.72041
G+C content 0.59330
Mean single sequence MFE -41.73
Consensus MFE -14.27
Energy contribution -13.89
Covariance contribution -0.38
Combinations/Pair 1.65
Mean z-score -1.46
Structure conservation index 0.34
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.66
SVM RNA-class probability 0.777978
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 11522003 97 + 23011544
AAAUUUGUUUUCUGGGAGGCUUGU------------AUGCCGGCGGUCUUUCGCGAAUGUUCGUGGGUGCUCCACCCACGGUAUCAUGAGCUGAGUAAGCCGGCGGAGG
..((..(((((....)))))..))------------.(((((((...(((..((..(((.(((((((((...)))))))))...)))..)).)))...))))))).... ( -39.10, z-score =  -2.31, R)
>droSim1.chr2L 11339175 109 + 22036055
AAUUCGGUUUUCUGUGUGGCUUGUCGCGGGGCUUGUAUGCCGGCGGCCUCUCGCGAAUGUUUGUGGGUGCUCCACCCACGGUAUCAUGCGCUGAGUACGCCGGCGGAGG
..(((......((.(((((....))))).))......((((((((..(((..(((.(((.(((((((((...)))))))))...))).))).)))..))))))))))). ( -47.50, z-score =  -1.72, R)
>droSec1.super_3 6920190 109 + 7220098
AAUUUGGUUUUCUGUGUGGCUGGUCGCGGGUAUUGUAUGCCGGCGGCCUCUCGCGAAUGUUUGUGGGUGCUCCACCCACGGUAUCAUGCGCUGAGUACGCCGGCGGAGG
.........((((((.((((.((((((.(((((...))))).)))))).((((((.(((.(((((((((...)))))))))...))).))).)))...)))))))))). ( -49.70, z-score =  -2.75, R)
>droYak2.chr2L 7953793 98 + 22324452
-----------CUGGAUGCCUUUUUUUGGGGCUCGUAGGCCGGCGGAGUUUCGCGAAUGUUCGUGCGAGCUCCACUUACAGUAUCAUGAGCUGAGUACGCCGGCGGAGG
-----------(((((.(((((.....))))))).)))((((((((((((((((((....))))).))))))).....((((.......)))).....))))))..... ( -41.00, z-score =  -2.27, R)
>droEre2.scaffold_4537 34126 109 - 52796
AACUUUGCUUACUGGAUGGCUUGUUCAGUGGUGUGUAGGCCGGCGGUCUCUCGCGAAUGUUCGUGGGAGCUCCACCCACGGUAUCAUGAGCUGAGUACGCCGGCGGAGG
..(((((((((((((((.....))))))))).))....(((((((..(((..((..(((.(((((((.......)))))))...)))..)).)))..))))))))))). ( -47.00, z-score =  -2.36, R)
>dp4.chr4_group3 2404641 102 + 11692001
-------GGCUGCAUUCGGCUUGUAGGCUGGAUUGUAUGCCGGCGGACGCUCGUGGAUGUUGGUGUGGGCUCCUCCGGCCGGAUUACUGGCGGAGUAUGCGGGCGGCGG
-------.(((((((((((((....))))))))..((((((((((..((....))..)))))))))).((..(((((.((((....)))))))))...))..))))).. ( -44.70, z-score =  -1.03, R)
>droPer1.super_1 3882306 102 + 10282868
-------GGCUGCAUUCGGCUUGUAGGCUGGAUUGUAUGCCGGCGGACGCUCGUGGAUGUUGGUGUGGGCUCCUCCGGCCGGAUUACUGGCGGAGUAUGCGGGCGGCGG
-------.(((((((((((((....))))))))..((((((((((..((....))..)))))))))).((..(((((.((((....)))))))))...))..))))).. ( -44.70, z-score =  -1.03, R)
>droGri2.scaffold_15252 9353802 102 + 17193109
-------CGGUGCAUUGGCCUUGUACGAUGGAUUGUAGGCUGGUGGCUUCUCAUGCACGUUUGUGUGCGCUCCACCAAUCGGAUUAGAUGCCGAGUAGGCUGGCGGUGG
-------.(((.(((..((((...((((....))))))))..))))))......(((((....)))))...(((((.(((......)))(((.((....)))))))))) ( -33.60, z-score =   0.47, R)
>droWil1.scaffold_180772 4926678 96 - 8906247
------------CGGCGGU-UUAUAUGAUGGAUUGUAUGCUGGAGGGCGUUCAUGUAUAUUGGUAUGAGCUCCACCCACUGGAUUUGAGACCGAAUAGGCCGGCGGUGG
------------((.((((-((((................(((..((.(((((((........))))))).))..))).(((........))).)))))))).)).... ( -28.30, z-score =  -0.14, R)
>consensus
_______UUUUCUGUGUGGCUUGUAGGGUGGAUUGUAUGCCGGCGGACUCUCGCGAAUGUUCGUGGGAGCUCCACCCACGGUAUCAUGAGCUGAGUACGCCGGCGGAGG
......................................((((((((...(.(((((....))))).)....)).....(((.........))).....))))))..... (-14.27 = -13.89 +  -0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:33:02 2011