Locus 15009

Sequence ID dm3.chrX
Location 16,947,948 – 16,948,048
Length 100
Max. P 0.912556
window20680 window20681

overview

Window 0

Location 16,947,948 – 16,948,048
Length 100
Sequences 7
Columns 106
Reading direction forward
Mean pairwise identity 58.88
Shannon entropy 0.80595
G+C content 0.51868
Mean single sequence MFE -22.27
Consensus MFE -5.82
Energy contribution -8.13
Covariance contribution 2.31
Combinations/Pair 1.32
Mean z-score -1.83
Structure conservation index 0.26
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.94
SVM RNA-class probability 0.857431
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chrX 16947948 100 + 22422827
AGCGGCAGCAUCGCAGCCAAGAGACAACAGGCAGGAAGUCCUUUCUGUUUUCCCUUUUUCC------AUUUUCCCACAACCAGACACACGCACACACGCAACGCUA
((((((.((...)).)))(((.((.((((((.(((....))).)))))).)).))).....------......................((......))...))). ( -21.80, z-score =  -2.08, R)
>droSim1.chrX 13126059 101 + 17042790
AGCGGCAGCAUCGCAGCCAAGAGACAACAGGCAGGAAGUCCUUUCUGUUUUCCCUUUUUCCAU-----UUUCCCCACAACCAGUCACACGCACACACGCAACGCUA
((((((.((...)).)))(((.((.((((((.(((....))).)))))).)).))).......-----.....................((......))...))). ( -21.80, z-score =  -1.97, R)
>droSec1.super_17 782073 86 + 1527944
AGCGGCAGCAUCGCAGUCAAGAGACAACAGGCAGGAAGUCCUUUCUGUUUUCCCUUUUUC------------UCCACAACCAGUCACACGCA---ACGCUA-----
((((...((......(((....)))((((((.(((....))).))))))...........------------.................)).---.)))).----- ( -19.00, z-score =  -1.15, R)
>droYak2.chrX 15559758 106 + 21770863
AGCGGCAGCCUCGCAGCCAAGAGACAACAGGCCGGAAGUCCCUUCUGUUUUCCCUUUUCCCUUUGCCAUUUUCCCACAACCAAACACUCGCACACACGCAAUGCUA
(((((((((......)).(((.((.((((((..((....))..)))))).)).))).......))))......................((......))...))). ( -21.00, z-score =  -0.47, R)
>droEre2.scaffold_4690 7301948 87 + 18748788
AGCGGCAGCAUCGCAGCCAAGAGACAACAGGCAGGAAGUCCUUUCUGUUUUCCCUUUUCC-------AUUUUCCCACAGCCAAACACAAGGCUA------------
...(((.((...)).)))(((.((.((((((.(((....))).)))))).)).)))....-------..........((((........)))).------------ ( -22.80, z-score =  -2.09, R)
>droAna3.scaffold_13334 761720 75 - 1562580
AGCGGCGGCUGGGAAACCGAGAGACAACACAUA-----UCCUGUCAGGCUUUUUUAUGUCC-------UUACACCACAUCCA-CCGCA------------------
.((((.((..((....))(((.((((.......-----.((.....))........)))))-------)).........)).-)))).------------------ ( -21.19, z-score =  -1.98, R)
>droWil1.scaffold_181096 6190848 92 + 12416693
------CGCAACACAAUAAAGUGCCAACCAGCCACGCCCACUCAUAAAGUGUGCCUCCCAUUUACACGGCAACAUAAAGUGAGUAACGCGCGUGGCAA--------
------.....(((......))).......((((((((.((((((...(((((((............))).))))...))))))...).)))))))..-------- ( -28.30, z-score =  -3.04, R)
>consensus
AGCGGCAGCAUCGCAGCCAAGAGACAACAGGCAGGAAGUCCUUUCUGUUUUCCCUUUUUCC_______UUUUCCCACAACCAGACACACGCACA_ACGC_A_____
...(((.((...)).)))(((.((.((((((.(((....))).)))))).)).))).................................................. ( -5.82 =  -8.13 +   2.31)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 1

Location 16,947,948 – 16,948,048
Length 100
Sequences 7
Columns 106
Reading direction reverse
Mean pairwise identity 58.88
Shannon entropy 0.80595
G+C content 0.51868
Mean single sequence MFE -28.96
Consensus MFE -11.85
Energy contribution -12.76
Covariance contribution 0.91
Combinations/Pair 1.57
Mean z-score -1.06
Structure conservation index 0.41
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.23
SVM RNA-class probability 0.912556
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chrX 16947948 100 - 22422827
UAGCGUUGCGUGUGUGCGUGUGUCUGGUUGUGGGAAAAU------GGAAAAAGGGAAAACAGAAAGGACUUCCUGCCUGUUGUCUCUUGGCUGCGAUGCUGCCGCU
((((((((((.((...(((...(((......)))...))------)....((((((.(((((..(((....)))..))))).)))))).))))))))))))..... ( -31.80, z-score =  -1.57, R)
>droSim1.chrX 13126059 101 - 17042790
UAGCGUUGCGUGUGUGCGUGUGACUGGUUGUGGGGAAA-----AUGGAAAAAGGGAAAACAGAAAGGACUUCCUGCCUGUUGUCUCUUGGCUGCGAUGCUGCCGCU
(((((((((.......(.((..(....)..)).)....-----..((...((((((.(((((..(((....)))..))))).))))))..)))))))))))..... ( -30.50, z-score =  -0.87, R)
>droSec1.super_17 782073 86 - 1527944
-----UAGCGU---UGCGUGUGACUGGUUGUGGA------------GAAAAAGGGAAAACAGAAAGGACUUCCUGCCUGUUGUCUCUUGACUGCGAUGCUGCCGCU
-----((((((---((((.((.((.....))...------------....((((((.(((((..(((....)))..))))).)))))).))))))))))))..... ( -28.70, z-score =  -2.35, R)
>droYak2.chrX 15559758 106 - 21770863
UAGCAUUGCGUGUGUGCGAGUGUUUGGUUGUGGGAAAAUGGCAAAGGGAAAAGGGAAAACAGAAGGGACUUCCGGCCUGUUGUCUCUUGGCUGCGAGGCUGCCGCU
.((((((.(((....))))))))).....((((.(...(.(((....(..((((((.(((((...((....))...))))).))))))..)))).)...).)))). ( -27.80, z-score =   1.58, R)
>droEre2.scaffold_4690 7301948 87 - 18748788
------------UAGCCUUGUGUUUGGCUGUGGGAAAAU-------GGAAAAGGGAAAACAGAAAGGACUUCCUGCCUGUUGUCUCUUGGCUGCGAUGCUGCCGCU
------------.((((........))))((((......-------....((((((.(((((..(((....)))..))))).))))))(((......))).)))). ( -29.60, z-score =  -2.11, R)
>droAna3.scaffold_13334 761720 75 + 1562580
------------------UGCGG-UGGAUGUGGUGUAA-------GGACAUAAAAAAGCCUGACAGGA-----UAUGUGUUGUCUCUCGGUUUCCCAGCCGCCGCU
------------------.((((-(((.((.(((((..-------..))).....(((((.(((((.(-----....).)))))....))))))))).))))))). ( -24.30, z-score =  -1.42, R)
>droWil1.scaffold_181096 6190848 92 - 12416693
--------UUGCCACGCGCGUUACUCACUUUAUGUUGCCGUGUAAAUGGGAGGCACACUUUAUGAGUGGGCGUGGCUGGUUGGCACUUUAUUGUGUUGCG------
--------..(((((((.(...(((((.....(((.(((............)))))).....)))))).))))))).....(((((......)))))...------ ( -30.00, z-score =  -0.68, R)
>consensus
_____U_GCGU_UGUGCGUGUGACUGGUUGUGGGAAAA_______GGAAAAAGGGAAAACAGAAAGGACUUCCUGCCUGUUGUCUCUUGGCUGCGAUGCUGCCGCU
.............................((((.................((((((.(((((..(((....)))..))))).))))))(((......))).)))). (-11.85 = -12.76 +   0.91)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:51:16 2011