Locus 14430

Sequence ID	dm3.chrX
Location	13,285,315 – 13,285,425
Length	110
Max. P	0.908848

overview

Window 5

Location	13,285,315 – 13,285,425
Length	110
Sequences	6
Columns	135
Reading direction	forward
Mean pairwise identity	50.50
Shannon entropy	0.85866
G+C content	0.42569
Mean single sequence MFE	-30.18
Consensus MFE	-8.06
Energy contribution	-7.67
Covariance contribution	-0.38
Combinations/Pair	1.60
Mean z-score	-1.75
Structure conservation index	0.27
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	1.20
SVM RNA-class probability	0.908848
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 13285315 110 + 22422827
AAAUGGGGAUUCGUAGGGGCUCUGCACAAAAGUAUAGC--CUACUUGUGCGGAGAAACGGAAAUGCACGAUCUGUU------GCAUUUCCGGU--UGCUGU---CGUCGCACUUCUCUUGUAA------------
....(((((.......(((((.(((......))).)))--))....(((((..((..((((((((((........)------)))))))))..--.....)---)..))))).))))).....------------ ( -37.80, z-score =  -2.60, R)
>droSim1.chrX 10177753 84 + 17042790
--------------------------GAAAAGUAUAGC--CUACUUGUGUGGAGAAACGGAAAUGCACGAUCUGUU------GCAUUUCCGGU--UGCUGU---CGUCGCUCUUCAAGUGUAA------------
--------------------------(((.((((((((--((((....)))).....((((((((((........)------)))))))))..--.)))))---....))).)))........------------ ( -25.50, z-score =  -2.33, R)
>droSec1.super_21 1038753 84 + 1102487
--------------------------GAAAAGUAUAGC--CUACUUGUGUGGAGAAACGGAAAUGCACGAUCGGUU------GCAUUUCCGGU--UGCUGU---CGUCGCUCUUCCAGUGUAA------------
--------------------------(((.((((((((--((((....)))).....((((((((((........)------)))))))))..--.)))))---....))).)))........------------ ( -24.60, z-score =  -1.51, R)
>droYak2.chrX 7565637 119 + 21770863
--GAGGGUAUGUGCAGGGGCUUUGCACAGAAGUAUAGC--CUACUUGUGCGGUGAAACGGAAAUGCACAAUCUGCUCU----GCAGAUCUACUG-CGUUUUCAACAAAAAUUUACAUUUUUUCACAUU-------
--.......((..((((((((.(((......))).)))--)..))))..))(((((..(((((((((..((((((...----))))))....))-)))))))....(((((....))))))))))...------- ( -35.10, z-score =  -2.26, R)
>droEre2.scaffold_4690 5165372 110 - 18748788
--GAGGGCAUCUGGUGGGGCUUUGCACAAAAGUGUAGC--CUACUUGCGUGGAAAAACGGAAAUGCACGAUCUGUU------GCAUUUCCGGU--ACUUGUAUAUAUUAUAUUCCUUAUGUA-------------
--(((((((...((((((.((..((((....)))))))--))))))))(((.((...((((((((((........)------)))))))))..--..)).)))..........)))).....------------- ( -33.10, z-score =  -1.91, R)
>droAna3.scaffold_13335 2484898 135 - 3335858
AUCUGACUUUCUGGUAGAGGCUCUCAUAAGUAUGCUGUGGUUUUUGGAGUUUCAGGGUAGAAAAGGAUAUUUUCCUAAAGGGAAAUUAUUAAAAUUAUUGUAUUUGAAAGGGUUUUACUUAAUUUUAUAUAAUAC
((((...((((((.(.((((((((...((.(((...))).))...))))))))..).)))))).))))(((((((....))))))).........((((((((..((..(((.....)))..))..)))))))). ( -25.00, z-score =   0.11, R)
>consensus
____GGG_AU_UG__GGGGCUUUGCACAAAAGUAUAGC__CUACUUGUGUGGAGAAACGGAAAUGCACGAUCUGUU______GCAUUUCCGGU__UGCUGU___CGUCACUCUUCUAGUGUAA____________
...............................((((((.......)))))).......(((((((((................)))))))))............................................ ( -8.06 =  -7.67 +  -0.38)

alignment

secondary structure

dotplot

Window 6

Location	13,285,315 – 13,285,425
Length	110
Sequences	6
Columns	135
Reading direction	reverse
Mean pairwise identity	50.50
Shannon entropy	0.85866
G+C content	0.42569
Mean single sequence MFE	-22.92
Consensus MFE	-5.61
Energy contribution	-6.36
Covariance contribution	0.75
Combinations/Pair	1.33
Mean z-score	-1.82
Structure conservation index	0.24
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.95
SVM RNA-class probability	0.859624
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 13285315 110 - 22422827
------------UUACAAGAGAAGUGCGACG---ACAGCA--ACCGGAAAUGC------AACAGAUCGUGCAUUUCCGUUUCUCCGCACAAGUAG--GCUAUACUUUUGUGCAGAGCCCCUACGAAUCCCCAUUU
------------......(((((((((....---...)))--..(((((((((------(........)))))))))))))))).(((((((.((--......)))))))))....................... ( -31.50, z-score =  -3.32, R)
>droSim1.chrX 10177753 84 - 17042790
------------UUACACUUGAAGAGCGACG---ACAGCA--ACCGGAAAUGC------AACAGAUCGUGCAUUUCCGUUUCUCCACACAAGUAG--GCUAUACUUUUC--------------------------
------------....(((((....((....---...)).--..(((((((((------(........))))))))))..........)))))..--............-------------------------- ( -20.60, z-score =  -2.36, R)
>droSec1.super_21 1038753 84 - 1102487
------------UUACACUGGAAGAGCGACG---ACAGCA--ACCGGAAAUGC------AACCGAUCGUGCAUUUCCGUUUCUCCACACAAGUAG--GCUAUACUUUUC--------------------------
------------......((((.((((....---...)).--..(((((((((------(........))))))))))..))))))...(((((.--....)))))...-------------------------- ( -22.20, z-score =  -2.46, R)
>droYak2.chrX 7565637 119 - 21770863
-------AAUGUGAAAAAAUGUAAAUUUUUGUUGAAAACG-CAGUAGAUCUGC----AGAGCAGAUUGUGCAUUUCCGUUUCACCGCACAAGUAG--GCUAUACUUCUGUGCAAAGCCCCUGCACAUACCCUC--
-------...(((((((((((((....(((((((....)(-(((.....))))----..))))))...)))))))...)))))).(((((((((.--....))))..)))))...((....))..........-- ( -26.70, z-score =  -0.85, R)
>droEre2.scaffold_4690 5165372 110 + 18748788
-------------UACAUAAGGAAUAUAAUAUAUACAAGU--ACCGGAAAUGC------AACAGAUCGUGCAUUUCCGUUUUUCCACGCAAGUAG--GCUACACUUUUGUGCAAAGCCCCACCAGAUGCCCUC--
-------------..(((..((..................--..(((((((((------(........)))))))))).......((....)).(--(((.(((....)))...))))...))..))).....-- ( -26.60, z-score =  -2.62, R)
>droAna3.scaffold_13335 2484898 135 + 3335858
GUAUUAUAUAAAAUUAAGUAAAACCCUUUCAAAUACAAUAAUUUUAAUAAUUUCCCUUUAGGAAAAUAUCCUUUUCUACCCUGAAACUCCAAAAACCACAGCAUACUUAUGAGAGCCUCUACCAGAAAGUCAGAU
.................(((.....((((((...................(((((.....))))).......((((......)))).......................))))))....)))............. (  -9.90, z-score =   0.68, R)
>consensus
____________UUACAAUAGAAGAGCGACG___ACAACA__ACCGGAAAUGC______AACAGAUCGUGCAUUUCCGUUUCUCCACACAAGUAG__GCUAUACUUUUGUGCAAAGCCCC__CA_AU_CCC____
............................................(((((((((................)))))))))......................................................... ( -5.61 =  -6.36 +   0.75)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:40:00 2011