Locus 13219

Sequence ID dm3.chrX
Location 5,084,235 – 5,084,316
Length 81
Max. P 0.648750
window18183

overview

Window 3

Location 5,084,235 – 5,084,316
Length 81
Sequences 6
Columns 82
Reading direction reverse
Mean pairwise identity 79.59
Shannon entropy 0.38915
G+C content 0.50823
Mean single sequence MFE -24.84
Consensus MFE -17.00
Energy contribution -16.57
Covariance contribution -0.44
Combinations/Pair 1.48
Mean z-score -1.31
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.33
SVM RNA-class probability 0.648750
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 5084235 81 - 22422827
UGAACUGGGAAAAGCGAUUUAAGGCCGCC-AUUUUCCACGGUUGGUGUGGUUUUCCCUCCACUGCUUCGAUUCGCUUUGCUU
......(((.(((((((.(..((((.(((-(....(....).))))((((........)))).))))..).))))))).))) ( -22.70, z-score =  -0.66, R)
>droSim1.chrX_random 1766674 81 - 5698898
UGAACUGGGAAAAGCGAUUUAAGGCCGCC-AUUUUCCACGGUUGGUGUGGUUUUCCCUCCACUGCUUCGAUUCGCUUUGCUU
......(((.(((((((.(..((((.(((-(....(....).))))((((........)))).))))..).))))))).))) ( -22.70, z-score =  -0.66, R)
>droSec1.super_4 4507966 81 + 6179234
UGAACUGGGAAAAGCGAUUUAAGGCCGCC-AUUUUCCACGGUUGGUGUGGUUUUCCCUCCACUGCUUCGAUUCGCUUUGCUU
......(((.(((((((.(..((((.(((-(....(....).))))((((........)))).))))..).))))))).))) ( -22.70, z-score =  -0.66, R)
>droYak2.chrX 18388052 81 + 21770863
UGCACUGGUAAAAGCGAUUUAAGGCCACC-AUUUUCCACGGCUGGUGUGGUUUUCUCUCAGCUGCCUCGAUUCGCUUUGCUU
......((((((.((((.(..((((.(((-((...(((....))).)))))............))))..).)))))))))). ( -22.32, z-score =  -0.73, R)
>droEre2.scaffold_4690 2439722 81 - 18748788
UGAACUGGUAAAAGCGAUUUCAGGCCACC-AUUUACCACGGUUGGUGUGGUUUUCUCUCCACUGCCUCGAUUCGCUUUGCUU
......((((((.((((.((.((((.(((-(...((....))))))((((........)))).)))).)).)))))))))). ( -25.20, z-score =  -2.49, R)
>droMoj3.scaffold_6473 16498794 81 + 16943266
UGGACUAUGGCCAACGAUUCAAGUUUACCGACUCCCCAGAGUCAGCGCCGGAGCCUUGUGGCU-CUGUGGUUCGCUUGGCCC
........(((((((((..((........(((((....))))).....(((((((....))))-)))))..))).)))))). ( -33.40, z-score =  -2.67, R)
>consensus
UGAACUGGGAAAAGCGAUUUAAGGCCACC_AUUUUCCACGGUUGGUGUGGUUUUCCCUCCACUGCUUCGAUUCGCUUUGCUU
..........(((((((.((.((((.(((.(((......))).)))((((........)))).)))).)).))))))).... (-17.00 = -16.57 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:17:02 2011