Locus 12243

Sequence ID	dm3.chr3R
Location	26,725,271 – 26,725,403
Length	132
Max. P	0.992165

overview

Window 9

Location	26,725,271 – 26,725,403
Length	132
Sequences	6
Columns	132
Reading direction	forward
Mean pairwise identity	82.47
Shannon entropy	0.33863
G+C content	0.46423
Mean single sequence MFE	-37.45
Consensus MFE	-25.48
Energy contribution	-25.82
Covariance contribution	0.34
Combinations/Pair	1.44
Mean z-score	-2.82
Structure conservation index	0.68
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	2.52
SVM RNA-class probability	0.992165
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 26725271 132 + 27905053
CAUUUUCAGCCUGACCGCGGAGUACAAGCUCCACCAGAGCUACAUAAACACCCUGCAUGGAUUUUCCAACAUGGUGAUCCGCGAGCGAAAGGCUGAGUUGGCCAUUCUCCAGGAGAACAAUAACAACAAUAA
.....(((((((..(((((((.....(((((.....))))).......((((.((..(((.....))).)).)))).)))))).)....)))))))((((....(((((...)))))......))))..... ( -43.90, z-score =  -4.26, R)
>droWil1.scaffold_181130 10312951 126 + 16660200
CCUCUUCCGCCUGACCGAUGACUAUAAACUGCAUCAGAGCUAUAUCAAUACGCUUCAUGGCUUCUCCAAUAUGGUGAUUAGGGAACGCAAAACGGAGCUGGCUUUGGCCAAUGAUAAUAACAACAA------
........((((((....((.(........))))))).))..(((((....(((((...(((((((.(((......))).))))).)).....)))))((((....)))).)))))..........------ ( -25.70, z-score =   0.27, R)
>droSim1.chr3R 26366854 132 + 27517382
CAUUUUCAGUCUGACCGCGGACUACAAGCUCCACCAGAGCUACAUAAACACCCUGCAUGGAUUUUCCAACAUGGUGAUCCGGGAGCGGAAGGCUGAGUUGGCCAUUCUCCAGGAGAACAAUAACAACAAUAA
.....(((((((..((((...((...(((((.....))))).......((((.((..(((.....))).)).))))....))..)))).)))))))((((....(((((...)))))......))))..... ( -39.60, z-score =  -2.31, R)
>droSec1.super_4 5550928 132 + 6179234
CAUUUUCAGCCUGACCGCGGACUACAAGCUCCACCAGAGCUACAUAAACACCUUGCAUGGAUUUUCCAACAUGGUGAUCCGCGAGCGAAAGGCUGAGUUGGCCAUUCUCCAGGAGAACAAUAACAACAAUAA
.....(((((((..(((((((.....(((((.....))))).......((((.((..(((.....))).)).)))).)))))).)....)))))))((((....(((((...)))))......))))..... ( -43.60, z-score =  -4.64, R)
>droEre2.scaffold_4820 9205267 132 - 10470090
CAUUUUCAGCCUGACCGCGGACUACAAGCUCCACCAGAGCUAUAUAAACACCCUGCAUGGGUUUUCCAACAUGGUGAUCCGCGAACGCAAGGCUGAGCUGGCCAUUCUCCAGGAGAGCAAUAACAACAAUAA
.....(((((((...((((((.....(((((.....))))).......((((.((..(((.....))).)).)))).))))))......)))))))(((..((........))..))).............. ( -42.70, z-score =  -3.31, R)
>droAna3.scaffold_12911 1134986 132 - 5364042
CAUUUUCCGGUUGACUUCGGACUACAAACUUCACCAGAGUUAUAUAAAUACUCUGCACGGAUUUUCCAACAUGGUCAUCCGAGAACGUAAAGCUGAACUCGCCAUUCUUCAGGAAAAUAACAACAAUAACAA
.((((((((((.((.(((((..(((.........((((((.........))))))..(((((...((.....))..))))).....)))...))))).)))))........))))))).............. ( -29.20, z-score =  -2.68, R)
>consensus
CAUUUUCAGCCUGACCGCGGACUACAAGCUCCACCAGAGCUACAUAAACACCCUGCAUGGAUUUUCCAACAUGGUGAUCCGCGAACGAAAGGCUGAGCUGGCCAUUCUCCAGGAGAACAAUAACAACAAUAA
.....(((((((...((((((.....(((((.....))))).......((((.((..(((.....))).)).)))).))))))......)))))))(((..((........))..))).............. (-25.48 = -25.82 +   0.34)

alignment

secondary structure

dotplot

Window 0

Location	26,725,271 – 26,725,403
Length	132
Sequences	6
Columns	132
Reading direction	reverse
Mean pairwise identity	82.47
Shannon entropy	0.33863
G+C content	0.46423
Mean single sequence MFE	-41.05
Consensus MFE	-30.85
Energy contribution	-31.00
Covariance contribution	0.15
Combinations/Pair	1.41
Mean z-score	-1.75
Structure conservation index	0.75
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	1.15
SVM RNA-class probability	0.899458
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 26725271 132 - 27905053
UUAUUGUUGUUAUUGUUCUCCUGGAGAAUGGCCAACUCAGCCUUUCGCUCGCGGAUCACCAUGUUGGAAAAUCCAUGCAGGGUGUUUAUGUAGCUCUGGUGGAGCUUGUACUCCGCGGUCAGGCUGAAAAUG
.....(((((((((.(((....))).))))).))))(((((((...((.((((((.((((.((((((.....))).))).))))..((((.(((((.....))))))))).)))))))).)))))))..... ( -48.20, z-score =  -3.09, R)
>droWil1.scaffold_181130 10312951 126 - 16660200
------UUGUUGUUAUUAUCAUUGGCCAAAGCCAGCUCCGUUUUGCGUUCCCUAAUCACCAUAUUGGAGAAGCCAUGAAGCGUAUUGAUAUAGCUCUGAUGCAGUUUAUAGUCAUCGGUCAGGCGGAAGAGG
------...............(((((....)))))(((((.....))((((....((.((.....)).)).(((.((((((.(((....))))))(((((((........).))))))))))))))))))). ( -27.00, z-score =   1.18, R)
>droSim1.chr3R 26366854 132 - 27517382
UUAUUGUUGUUAUUGUUCUCCUGGAGAAUGGCCAACUCAGCCUUCCGCUCCCGGAUCACCAUGUUGGAAAAUCCAUGCAGGGUGUUUAUGUAGCUCUGGUGGAGCUUGUAGUCCGCGGUCAGACUGAAAAUG
.....(((((((((.(((....))).))))).))))((((.((.((((....((((((((.((((((.....))).))).))))..((((.(((((.....)))))))))))))))))..)).))))..... ( -39.40, z-score =  -0.84, R)
>droSec1.super_4 5550928 132 - 6179234
UUAUUGUUGUUAUUGUUCUCCUGGAGAAUGGCCAACUCAGCCUUUCGCUCGCGGAUCACCAUGUUGGAAAAUCCAUGCAAGGUGUUUAUGUAGCUCUGGUGGAGCUUGUAGUCCGCGGUCAGGCUGAAAAUG
.....(((((((((.(((....))).))))).))))(((((((...((.(((((((((((.((((((.....))).))).))))..((((.(((((.....)))))))))))))))))).)))))))..... ( -49.60, z-score =  -3.78, R)
>droEre2.scaffold_4820 9205267 132 + 10470090
UUAUUGUUGUUAUUGCUCUCCUGGAGAAUGGCCAGCUCAGCCUUGCGUUCGCGGAUCACCAUGUUGGAAAACCCAUGCAGGGUGUUUAUAUAGCUCUGGUGGAGCUUGUAGUCCGCGGUCAGGCUGAAAAUG
.....(((((((((.(((.....)))))))).))))(((((((.((...(((((((((((.((((((.....))).))).))))..((((.(((((.....)))))))))))))))))).)))))))..... ( -49.30, z-score =  -2.62, R)
>droAna3.scaffold_12911 1134986 132 + 5364042
UUGUUAUUGUUGUUAUUUUCCUGAAGAAUGGCGAGUUCAGCUUUACGUUCUCGGAUGACCAUGUUGGAAAAUCCGUGCAGAGUAUUUAUAUAACUCUGGUGAAGUUUGUAGUCCGAAGUCAACCGGAAAAUG
.............((((((((.(..((....((..(((((((((((...(.(((((..((.....))...))))).)((((((.........)))))))))))).))).))..))...))..).)))))))) ( -32.80, z-score =  -1.34, R)
>consensus
UUAUUGUUGUUAUUGUUCUCCUGGAGAAUGGCCAACUCAGCCUUGCGCUCGCGGAUCACCAUGUUGGAAAAUCCAUGCAGGGUGUUUAUAUAGCUCUGGUGGAGCUUGUAGUCCGCGGUCAGGCUGAAAAUG
.....(((((((((.(((....))).)))))).)))(((((((.....((((((((((((.((((((.....))).))).))))..((((.(((((.....)))))))))))))))))..)))))))..... (-30.85 = -31.00 +   0.15)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:58:31 2011