Locus 12986

Sequence ID dm3.chrX
Location 3,750,990 – 3,751,106
Length 116
Max. P 0.993637
window17848 window17849

overview

Window 8

Location 3,750,990 – 3,751,106
Length 116
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 81.62
Shannon entropy 0.32798
G+C content 0.49201
Mean single sequence MFE -35.84
Consensus MFE -24.54
Energy contribution -26.04
Covariance contribution 1.50
Combinations/Pair 1.12
Mean z-score -2.95
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.63
SVM RNA-class probability 0.993637
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 3750990 116 + 22422827
CAUACCUACACAUAUACUUGCCCAGGAAUCGUGCUAAAGCUUAGCGAUGCAGCGG-CACCACCGAAUGGGAUUGCAGUGAAGUCCAGCCGCUGCAACGCUUACGAACUGCACAGUGC
........(((.....(((....)))....((((........((((.((((((((-(..((.....))(((((.......))))).))))))))).))))........)))).))). ( -39.19, z-score =  -2.08, R)
>droEre2.scaffold_4690 1134140 94 + 18748788
CAUACCUACACAUAUACUUGCCCAGGCAUUGUGCUAAUUCUUAGCGAG--------UACGA---------------GUAAAAUCCAACCGCUACAUCGUUUACAAGCUGCACAGUGC
.........................(((((((((........((((((--------((((.---------------((........)))).))).)))))........))))))))) ( -22.09, z-score =  -1.66, R)
>droYak2.chrX 17104522 117 - 21770863
CAUAUCUACACAUAUACUUGCCCAGAAAUUGUGCUUAUUCUUAGCGAUGCAGCGGUUACCACCGAUUGGGACCAUAGUAAAAUCCCACCGCUGCAUCGUUUACCAACUGCACAGUGC
....(((...((......))...))).(((((((........((((((((((((((...........((((...........))))))))))))))))))........))))))).. ( -37.19, z-score =  -4.40, R)
>droSec1.super_4 3216674 116 - 6179234
CAUACCUACACAUAUACUUGCCCAGGAAUCGUGCUAAAGCUUACCGAUGCAGCGG-UACCACCGAAUGGGAUUACAGUAUAGUCCAGCCGCUGCAUCGCUUACAAACUGCACAGUGC
........(((.....(((....)))....((((..........(((((((((((-(..((.....))((((((.....)))))).))))))))))))..........)))).))). ( -36.05, z-score =  -2.50, R)
>droSim1.chrX 9976866 116 + 17042790
CAUACCUACACAUAUACUUGCCCAGGAAUCGUGCGAAAGCUUAGCGAUGCAGCGG-UACCACCGAAUGGGAUUACAGUAUAGUCCAGCCGCUGCAUCGCUUACAAGCUGCACAGUGC
........(((.....(((....)))....((((...((((((((((((((((((-(..((.....))((((((.....)))))).))))))))))))))...))))))))).))). ( -44.70, z-score =  -4.12, R)
>consensus
CAUACCUACACAUAUACUUGCCCAGGAAUCGUGCUAAAGCUUAGCGAUGCAGCGG_UACCACCGAAUGGGAUUACAGUAAAGUCCAGCCGCUGCAUCGCUUACAAACUGCACAGUGC
....(((...((......))...)))....((((........(((((((((((((...........((......))...........)))))))))))))........))))..... (-24.54 = -26.04 +   1.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 3,750,990 – 3,751,106
Length 116
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 81.62
Shannon entropy 0.32798
G+C content 0.49201
Mean single sequence MFE -39.08
Consensus MFE -26.71
Energy contribution -28.29
Covariance contribution 1.58
Combinations/Pair 1.13
Mean z-score -1.45
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.03
SVM RNA-class probability 0.507466
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 3750990 116 - 22422827
GCACUGUGCAGUUCGUAAGCGUUGCAGCGGCUGGACUUCACUGCAAUCCCAUUCGGUGGUG-CCGCUGCAUCGCUAAGCUUUAGCACGAUUCCUGGGCAAGUAUAUGUGUAGGUAUG
(((((((.(((.((((.((((.(((((((((......((((((.(((...))))))))).)-)))))))).))))..((....))))))...))).))).......))))....... ( -42.61, z-score =  -1.02, R)
>droEre2.scaffold_4690 1134140 94 - 18748788
GCACUGUGCAGCUUGUAAACGAUGUAGCGGUUGGAUUUUAC---------------UCGUA--------CUCGCUAAGAAUUAGCACAAUGCCUGGGCAAGUAUAUGUGUAGGUAUG
....(((((...(((....)))..(((((((..((......---------------))..)--------).))))).......)))))(((((((.(((......))).))))))). ( -24.90, z-score =   0.08, R)
>droYak2.chrX 17104522 117 + 21770863
GCACUGUGCAGUUGGUAAACGAUGCAGCGGUGGGAUUUUACUAUGGUCCCAAUCGGUGGUAACCGCUGCAUCGCUAAGAAUAAGCACAAUUUCUGGGCAAGUAUAUGUGUAGAUAUG
(((((((((.(((....)))(((((((((((((((((.......)))))).)))(((....)))))))))))(((.((((..........)))).)))..))))).))))....... ( -43.00, z-score =  -3.28, R)
>droSec1.super_4 3216674 116 + 6179234
GCACUGUGCAGUUUGUAAGCGAUGCAGCGGCUGGACUAUACUGUAAUCCCAUUCGGUGGUA-CCGCUGCAUCGGUAAGCUUUAGCACGAUUCCUGGGCAAGUAUAUGUGUAGGUAUG
....(((((((((((....(((((((((((....(((((...((......))...))))).-))))))))))).))))))...)))))...((((.(((......))).)))).... ( -39.10, z-score =  -0.65, R)
>droSim1.chrX 9976866 116 - 17042790
GCACUGUGCAGCUUGUAAGCGAUGCAGCGGCUGGACUAUACUGUAAUCCCAUUCGGUGGUA-CCGCUGCAUCGCUAAGCUUUCGCACGAUUCCUGGGCAAGUAUAUGUGUAGGUAUG
....((((((((((...(((((((((((((....(((((...((......))...))))).-))))))))))))))))))...)))))...((((.(((......))).)))).... ( -45.80, z-score =  -2.36, R)
>consensus
GCACUGUGCAGUUUGUAAGCGAUGCAGCGGCUGGACUUUACUGUAAUCCCAUUCGGUGGUA_CCGCUGCAUCGCUAAGCUUUAGCACGAUUCCUGGGCAAGUAUAUGUGUAGGUAUG
....(((((..........(((((((((((....((..(((((..........)))))))..)))))))))))..........)))))...((((.(((......))).)))).... (-26.71 = -28.29 +   1.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:12:29 2011