Locus 13221

Sequence ID dm3.chrX
Location 5,088,654 – 5,088,744
Length 90
Max. P 0.557983
window18185

overview

Window 5

Location 5,088,654 – 5,088,744
Length 90
Sequences 4
Columns 90
Reading direction forward
Mean pairwise identity 70.04
Shannon entropy 0.47734
G+C content 0.39260
Mean single sequence MFE -16.30
Consensus MFE -9.04
Energy contribution -8.97
Covariance contribution -0.06
Combinations/Pair 1.19
Mean z-score -1.23
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.13
SVM RNA-class probability 0.557983
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 5088654 90 + 22422827
UCAGACGAGGUGGCCUACUACUUCUUUCUUCAUUUCAUUUCGAGAGGCAUCACCGUUUGAUGUUUUUUAUAAUCUGAUAUUUAGAUACUU
(((((.(((((((....))))))).................(((((((((((.....)))))))))))....)))))............. ( -21.80, z-score =  -2.74, R)
>droSec1.super_4 4512324 83 - 6179234
------CGCCUACUUGGCCACCUCGCCUGACUUUCU-UUUGAAAAGACAUCAGCGUCUGAUGUUUUCUGUAAUCUGAUAUUUAGAUACUU
------.(((.....)))........((((...((.-.(((..((((((((((...))))))))))...)))...))...))))...... ( -16.50, z-score =  -1.73, R)
>droYak2.chrX 18392514 77 - 21770863
-------CGCUACUCGGCCA-----CCUUGCCAUUC-UUUGAAAAGGCAUCAGCUUCUGAUGUUUUCUAUAAUCUGAUAUUUAGAUACUC
-------........(((..-----....)))....-......((((((((((...)))))))))).....((((((...)))))).... ( -14.80, z-score =  -1.33, R)
>droEre2.scaffold_4690 2444277 77 + 18748788
-------UGCUCCUCGGCCAG----CCAUGCCUUUC-UUUGAAAAGG-AUCAGCUUCUGGUGUUUUCUAUAAUCUGAUAUUUAGAUACUU
-------.........(((((----....((..(((-((....))))-)...))..)))))..........((((((...)))))).... ( -12.10, z-score =   0.88, R)
>consensus
_______AGCUACUCGGCCAC____CCUUGCCUUUC_UUUGAAAAGGCAUCAGCGUCUGAUGUUUUCUAUAAUCUGAUAUUUAGAUACUU
...........................................((((((((((...)))))))))).....((((((...)))))).... ( -9.04 =  -8.97 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:17:03 2011