Locus 14070

Sequence ID dm3.chrX
Location 10,937,336 – 10,937,430
Length 94
Max. P 0.958619
window19349 window19350

overview

Window 9

Location 10,937,336 – 10,937,430
Length 94
Sequences 5
Columns 96
Reading direction forward
Mean pairwise identity 71.40
Shannon entropy 0.52928
G+C content 0.41845
Mean single sequence MFE -19.94
Consensus MFE -10.75
Energy contribution -11.39
Covariance contribution 0.64
Combinations/Pair 1.07
Mean z-score -1.16
Structure conservation index 0.54
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.45
SVM RNA-class probability 0.698694
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 10937336 94 + 22422827
CGUUUCAAAACUAAUUGAAAUGCCCUCGCACAUAAAGA-UGAACAACAAAGGUGGCAGAGAGAAUGA-GGAGGUGAUGUGCGGGGUAUAUGGAUAU
((((((((......)))))))).((((((((((.....-.......((....)).((.......)).-.......))))))))))........... ( -19.60, z-score =  -1.01, R)
>droSim1.chrX 8491437 95 + 17042790
CGUUUCAAAACUAAUUGAAAUGCCCUCGCACAUAAAGA-UGAACAACAAAGGCGAUGGUCAGGGGUUUGGGAGGUAGGUGCGGGAUAUAUGGAUAU
((((((((......))))))))..(((((((.((....-(((((..(...(((....))).)..))))).....)).)))))))............ ( -21.50, z-score =  -0.97, R)
>droSec1.super_12860 2 94 + 1111
CGUUUCAAAACUAAUUGAA-UGUCCUCGCACAUAAAGA-UGAACAACAAAGGUGAUGGUCAGGGGGUUGGGAGUUAGGUGCAGGAUAUAUGGAUAU
....((((......))))(-((((((.((((.(((...-(.(((..(...((......))..)..))).)...))).)))))))))))........ ( -18.90, z-score =  -0.54, R)
>droYak2.chrX 10590437 81 - 21770863
CGUUUCAAAACUAAUUGAAAUGCCCUCGCACAUAAAGA-UAAACAACAAAGGAGG--------------AGGGUGAGGUGCGGGUUAUAUGGAUAU
((((((((......))))))))..(((((((.......-....(......)....--------------........)))))))............ ( -14.30, z-score =  -0.32, R)
>droAna3.scaffold_13417 5982186 87 - 6960332
AUUUUCAAAACUAAUUGAAAUGCCCUCGCACAUAAGGACUAAAAUGUCCUGAAGAUGA--AAAUGCACAGGCAUCGGGUGUGGGGAAAA-------
..((((((......))))))...((((((((...(((((......)))))........--..((((....))))...))))))))....------- ( -25.40, z-score =  -2.95, R)
>consensus
CGUUUCAAAACUAAUUGAAAUGCCCUCGCACAUAAAGA_UGAACAACAAAGGAGAUGG__AGAGGGA_GGGAGUGAGGUGCGGGAUAUAUGGAUAU
((((((((......))))))))..(((((((..............................................)))))))............ (-10.75 = -11.39 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 10,937,336 – 10,937,430
Length 94
Sequences 5
Columns 96
Reading direction reverse
Mean pairwise identity 71.40
Shannon entropy 0.52928
G+C content 0.41845
Mean single sequence MFE -15.19
Consensus MFE -9.31
Energy contribution -9.47
Covariance contribution 0.16
Combinations/Pair 1.21
Mean z-score -1.53
Structure conservation index 0.61
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.66
SVM RNA-class probability 0.958619
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 10937336 94 - 22422827
AUAUCCAUAUACCCCGCACAUCACCUCC-UCAUUCUCUCUGCCACCUUUGUUGUUCA-UCUUUAUGUGCGAGGGCAUUUCAAUUAGUUUUGAAACG
...........((((((((((.......-.((...................))....-.....))))))).)))..((((((......)))))).. ( -15.94, z-score =  -2.04, R)
>droSim1.chrX 8491437 95 - 17042790
AUAUCCAUAUAUCCCGCACCUACCUCCCAAACCCCUGACCAUCGCCUUUGUUGUUCA-UCUUUAUGUGCGAGGGCAUUUCAAUUAGUUUUGAAACG
...........................................((((((((....((-(....))).)))))))).((((((......)))))).. ( -14.80, z-score =  -1.20, R)
>droSec1.super_12860 2 94 - 1111
AUAUCCAUAUAUCCUGCACCUAACUCCCAACCCCCUGACCAUCACCUUUGUUGUUCA-UCUUUAUGUGCGAGGACA-UUCAAUUAGUUUUGAAACG
...........((((((((.(((....((((....((.....)).....))))....-...))).)))).))))..-(((((......)))))... ( -13.20, z-score =  -1.39, R)
>droYak2.chrX 10590437 81 + 21770863
AUAUCCAUAUAACCCGCACCUCACCCU--------------CCUCCUUUGUUGUUUA-UCUUUAUGUGCGAGGGCAUUUCAAUUAGUUUUGAAACG
............(((((((........--------------................-.......))))).))...((((((......)))))).. ( -10.98, z-score =  -0.73, R)
>droAna3.scaffold_13417 5982186 87 + 6960332
-------UUUUCCCCACACCCGAUGCCUGUGCAUUU--UCAUCUUCAGGACAUUUUAGUCCUUAUGUGCGAGGGCAUUUCAAUUAGUUUUGAAAAU
-------..............(((((((.(((((..--........(((((......)))))...))))).)))))))((((......)))).... ( -21.02, z-score =  -2.27, R)
>consensus
AUAUCCAUAUACCCCGCACCUAACCCCC_ACCCCCU__CCAUCACCUUUGUUGUUCA_UCUUUAUGUGCGAGGGCAUUUCAAUUAGUUUUGAAACG
...........((((((((..............................................))))).)))..((((((......)))))).. ( -9.31 =  -9.47 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:33:02 2011