Locus 11426

Sequence ID dm3.chr3R
Location 21,012,915 – 21,013,010
Length 95
Max. P 0.910110
window15709 window15710

overview

Window 9

Location 21,012,915 – 21,013,010
Length 95
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 65.01
Shannon entropy 0.61913
G+C content 0.48876
Mean single sequence MFE -30.95
Consensus MFE -17.84
Energy contribution -18.27
Covariance contribution 0.42
Combinations/Pair 1.54
Mean z-score -0.96
Structure conservation index 0.58
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.21
SVM RNA-class probability 0.910110
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 21012915 95 + 27905053
---------------AAAUGGCCAGACGGUUGGCCAUUACAGACAUACUGACGGGUAUGGCCAUUCCGGCAUACAUAUGUCCUGUCCUGACUAGGUGUGUGUAAGUGUUC
---------------.(((((((((....))))))))).....((((((....))))))(((.....))).((((((((.(((((....)).)))))))))))....... ( -31.50, z-score =  -1.01, R)
>droSim1.chr3R 20837807 89 + 27517382
---------------AAAUGGCCAGACGGUUGGCCAUUACAGACAUACUGACGGGUAUGGCCAUUCCGGCAUACAUAUGUCCUGUCCUGGCUAGGUGUGUGUAA------
---------------.(((((((((....))))))))).....((((((....))))))(((.....))).((((((((.(((((....)).))))))))))).------ ( -32.30, z-score =  -1.32, R)
>droSec1.super_33 273671 89 + 478481
---------------AAAUGGCCAGACGGUUGGCCAUUACAGACAUACUGACGGGUAUGGCCAUUCCGGCAUACAUAUGUCCUGUCCUGGCUAGGUGUGUGUAA------
---------------.(((((((((....))))))))).....((((((....))))))(((.....))).((((((((.(((((....)).))))))))))).------ ( -32.30, z-score =  -1.32, R)
>droYak2.chr3R 3352530 95 - 28832112
---------------AAAUGGCCAGACGGUUGGCCAUUACAGACAUACUGACGGGUAUGGCCAUUCCGGCAUACAUAUGUCCUGUCCCGGCUAGGUGUGUGUGUGUGUGU
---------------.(((((((((....)))))))))(((.((((((.(((((((((((((.....)))...))))...))))))((.....)).)))))).))).... ( -35.80, z-score =  -0.98, R)
>droAna3.scaffold_13340 6876203 106 + 23697760
GCAGGACAUAAAAAGGACAAACCAGACGGUUGGGUAUUACAAACAUAUAGAUAUGUAUGGUCAUUCCGGCAUACUUAUGUACUUGUGUAGGUGAAUGUGUGUGCCU----
...(((........((.....)).(((..(((.......))).((((((....)))))))))..)))(((((((((((.(((....))).))))....))))))).---- ( -26.50, z-score =  -0.34, R)
>droWil1.scaffold_181130 5781620 93 + 16660200
------------GUAUGUGCCCCCGUCUGUAGGUAUGUGUGGAGGUAUAUUCCCAAACGGUCAGACGGCUGCCCAU---UACUAUCACGUAUGAGUGUGAGAGUGUAU--
------------..(((.((..(((((((...((...((.((((.....)))))).))...)))))))..)).)))---((((.(((((......))))).))))...-- ( -27.30, z-score =  -0.77, R)
>consensus
_______________AAAUGGCCAGACGGUUGGCCAUUACAGACAUACUGACGGGUAUGGCCAUUCCGGCAUACAUAUGUCCUGUCCUGGCUAGGUGUGUGUAAGU____
................(((((((((....))))))))).....((((((....))))))(((.....))).((((((..((..((....))..))..))))))....... (-17.84 = -18.27 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 21,012,915 – 21,013,010
Length 95
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 65.01
Shannon entropy 0.61913
G+C content 0.48876
Mean single sequence MFE -24.43
Consensus MFE -14.34
Energy contribution -15.15
Covariance contribution 0.81
Combinations/Pair 1.39
Mean z-score -0.50
Structure conservation index 0.59
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.37
SVM RNA-class probability 0.664718
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 21012915 95 - 27905053
GAACACUUACACACACCUAGUCAGGACAGGACAUAUGUAUGCCGGAAUGGCCAUACCCGUCAGUAUGUCUGUAAUGGCCAACCGUCUGGCCAUUU---------------
...............(((....)))((((.(((((((((((((.....)).)))))......))))))))))((((((((......)))))))).--------------- ( -26.70, z-score =  -0.80, R)
>droSim1.chr3R 20837807 89 - 27517382
------UUACACACACCUAGCCAGGACAGGACAUAUGUAUGCCGGAAUGGCCAUACCCGUCAGUAUGUCUGUAAUGGCCAACCGUCUGGCCAUUU---------------
------.........(((....)))((((.(((((((((((((.....)).)))))......))))))))))((((((((......)))))))).--------------- ( -26.70, z-score =  -1.01, R)
>droSec1.super_33 273671 89 - 478481
------UUACACACACCUAGCCAGGACAGGACAUAUGUAUGCCGGAAUGGCCAUACCCGUCAGUAUGUCUGUAAUGGCCAACCGUCUGGCCAUUU---------------
------.........(((....)))((((.(((((((((((((.....)).)))))......))))))))))((((((((......)))))))).--------------- ( -26.70, z-score =  -1.01, R)
>droYak2.chr3R 3352530 95 + 28832112
ACACACACACACACACCUAGCCGGGACAGGACAUAUGUAUGCCGGAAUGGCCAUACCCGUCAGUAUGUCUGUAAUGGCCAACCGUCUGGCCAUUU---------------
...............(((....)))((((.(((((((((((((.....)).)))))......))))))))))((((((((......)))))))).--------------- ( -26.70, z-score =  -0.15, R)
>droAna3.scaffold_13340 6876203 106 - 23697760
----AGGCACACACAUUCACCUACACAAGUACAUAAGUAUGCCGGAAUGACCAUACAUAUCUAUAUGUUUGUAAUACCCAACCGUCUGGUUUGUCCUUUUUAUGUCCUGC
----(((.(((.................((((....))))...(((..(((((.(((((....)))))(((.......))).....)))))..)))......)))))).. ( -14.20, z-score =   1.78, R)
>droWil1.scaffold_181130 5781620 93 - 16660200
--AUACACUCUCACACUCAUACGUGAUAGUA---AUGGGCAGCCGUCUGACCGUUUGGGAAUAUACCUCCACACAUACCUACAGACGGGGGCACAUAC------------
--....(((.((((........)))).))).---(((.((..(((((((...((.(((((.......))).))...))...)))))))..)).)))..------------ ( -25.60, z-score =  -1.83, R)
>consensus
____ACUCACACACACCUAGCCAGGACAGGACAUAUGUAUGCCGGAAUGGCCAUACCCGUCAGUAUGUCUGUAAUGGCCAACCGUCUGGCCAUUU_______________
............................(((((((((((((((.....)).)))))......))))))))..((((((((......))))))))................ (-14.34 = -15.15 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:42:47 2011