Locus 13631

Sequence ID dm3.chrX
Location 7,969,483 – 7,969,623
Length 140
Max. P 0.872641
window18758 window18759

overview

Window 8

Location 7,969,483 – 7,969,586
Length 103
Sequences 4
Columns 104
Reading direction forward
Mean pairwise identity 70.63
Shannon entropy 0.48138
G+C content 0.39773
Mean single sequence MFE -26.02
Consensus MFE -14.04
Energy contribution -14.85
Covariance contribution 0.81
Combinations/Pair 1.32
Mean z-score -1.58
Structure conservation index 0.54
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.80
SVM RNA-class probability 0.821645
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 7969483 103 + 22422827
AGGAGGGCGAUGUUUUUAAUAUUUUUUU-AUGAUAUGUUAUCGAUAACAGCAGACGUUUUUGUCUGGGCUCAUUGCUUCUCGAUAGCACUAGCGCUUGCUUAAG
(((..((((..((.....(((((.....-..)))))((((((((......((((((....))))))(((.....)))..))))))))))...))))..)))... ( -27.40, z-score =  -1.79, R)
>droSec1.super_44 53590 104 + 251150
GGGAGGGCGAUGUUUUUAAUAUUUUUUUUAUGAUAUGUUAUCGAUAACAACAGACGUUUUUGUCUGGGCUCAUUGUUCCUCGAUAGCACUAGCGCUUGCUUAAG
(.(((.((..........(((((........)))))((((((((.(((((((((((....))))))......)))))..))))))))....)).))).)..... ( -26.10, z-score =  -1.90, R)
>droSim1.chrX 6366677 104 + 17042790
GGGAGGGCGAUGUUUUUAAUAUUUUUUUUAUGAUAUGUUAUCGAUAAGAACAGACGUUUUUGUCUGGGCUCAUUGUUACUCGAUAGCACUGGCGCUUGCUUAAG
(((..((((..((.....(((((........)))))((((((((......((((((....))))))(((.....)))..))))))))))...))))..)))... ( -26.00, z-score =  -1.91, R)
>droWil1.scaffold_181096 5129834 90 + 12416693
-AGUAAUCGAUAGUUAGAGUAGUUGCUU------GUGAGCUCGACUAUCG-AGCUGUUAUCGU-UGGCGGCAUUUGUCAUCAGUUGGAAUUGCACUCAA-----
-.(((((((((((((.((((........------....))))))))))))-)(((((((....-)))))))..................))))......----- ( -24.60, z-score =  -0.73, R)
>consensus
GGGAGGGCGAUGUUUUUAAUAUUUUUUU_AUGAUAUGUUAUCGAUAACAACAGACGUUUUUGUCUGGGCUCAUUGUUCCUCGAUAGCACUAGCGCUUGCUUAAG
..(((.(((((((.....)))))............(((((((((......((((((....))))))(((.....)))..)))))))))...)).)))....... (-14.04 = -14.85 +   0.81)

alignment

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secondary structure

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dotplot

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Window 9

Location 7,969,520 – 7,969,623
Length 103
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 64.73
Shannon entropy 0.63250
G+C content 0.43935
Mean single sequence MFE -29.97
Consensus MFE -10.04
Energy contribution -9.93
Covariance contribution -0.10
Combinations/Pair 1.52
Mean z-score -2.03
Structure conservation index 0.33
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.01
SVM RNA-class probability 0.872641
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 7969520 103 + 22422827
UAUCGAUAACAGCAGACGUUUUUGUCUGGGCUCAUUGCUUCUCGAUAGCACUAG--------------CGCUUGCUUAAGCUGGUCACUUU-ACAUUCGCUGUUGUCAUCGGAAUCUA--
..(((((.(((((((.((....(((..(((((.((((.....)))))))(((((--------------(..........))))))..))..-)))..))))))))).)))))......-- ( -29.40, z-score =  -1.95, R)
>droEre2.scaffold_4690 16878651 113 + 18748788
UAUCGAUACCAGCAGACGUUUAUGUCUGGGCCUAUCGUUCUUCGAUAGCAGAAGUUGUAUUUCUAAGCCACCUGCUU----UGGUCACUUU-ACAUACUUUGUUGUCGUCGGAAUCGA--
..(((((.((..((((((....))))))..............((((((((((.((((((.....(((..(((.....----.)))..))))-))).))))))))))))..)).)))))-- ( -30.50, z-score =  -1.69, R)
>droYak2.chrX 8428002 118 - 21770863
UAUCGAUACCAGCAGACGUUUUUGUCUGGGCCUAUCGUUCUUCGAUAGCAGAAGGUGUAUUUCACAGUCACUUGCCUCGCCUGGUCACUUUUGCGUUCGAUAUCGUCAUCGGAAUCGA--
..((((((((((((((((....))))))(((((((((.....))))))..((..(((.....)))..))....)))....)))))..........((((((......)))))))))))-- ( -35.60, z-score =  -1.95, R)
>droSec1.super_44 53628 105 + 251150
UAUCGAUAACAACAGACGUUUUUGUCUGGGCUCAUUGUUCCUCGAUAGCACUAG--------------CGCUUGCUUAAGCUGGUCACUUU-ACAUACGCUGUUGUCAUCGGAAUUUUAA
..(((((.(((((((.(((...(((..(((((.((((.....)))))))(((((--------------(..........))))))..))..-))).)))))))))).)))))........ ( -32.20, z-score =  -3.63, R)
>droSim1.chrX 6366715 105 + 17042790
UAUCGAUAAGAACAGACGUUUUUGUCUGGGCUCAUUGUUACUCGAUAGCACUGG--------------CGCUUGCUUAAGCUGGUCACUUU-ACAUACGCUGUUGUCAUCGGAAUUUUUA
..(((((.(.(((((.(((...(((..(((((.((((.....)))))))((..(--------------(..........))..))..))..-))).)))))))).).)))))........ ( -27.30, z-score =  -1.53, R)
>droWil1.scaffold_181096 5129872 88 + 12416693
---------UAUCGAGCUGUUAUCGUUGGCGGCAUUUGUCAUCAGUUGGAAUUG--------------CACUCAACG-----GUUCGAUGU-UCAUUUGUUCGAUUCAUCGGU-UCGA--
---------..((((((....((((((((..(((....(((.....)))...))--------------)..))))))-----)).(((((.-((........))..)))))))-))))-- ( -24.80, z-score =  -1.41, R)
>consensus
UAUCGAUAACAGCAGACGUUUUUGUCUGGGCUCAUUGUUCCUCGAUAGCACUAG______________CACUUGCUUAAGCUGGUCACUUU_ACAUACGCUGUUGUCAUCGGAAUCGA__
..(((((.....((((((....)))))).(((.((((.....)))))))........................(((......)))......................)))))........ (-10.04 =  -9.93 +  -0.10)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:24:55 2011