Locus 209

Sequence ID dm3.chr2L
Location 1,543,143 – 1,543,198
Length 55
Max. P 0.690274
window290

overview

Window 0

Location 1,543,143 – 1,543,198
Length 55
Sequences 7
Columns 56
Reading direction reverse
Mean pairwise identity 74.68
Shannon entropy 0.52130
G+C content 0.52938
Mean single sequence MFE -16.76
Consensus MFE -9.07
Energy contribution -9.41
Covariance contribution 0.35
Combinations/Pair 1.50
Mean z-score -1.19
Structure conservation index 0.54
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.43
SVM RNA-class probability 0.690274
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 1543143 55 - 23011544
UUGGGCAGCUGACUUGGCUCCAGUUGCCAUCUGCUCCACGAUGGAGU-GUACAUAA
...((((((((.........))))))))....(((((.....)))))-........ ( -19.80, z-score =  -1.76, R)
>droSim1.chr2L_random 76213 55 - 909653
UUGGGCAGCUGACUUGGCUCCAGUUGCCAUCUGCUCCACGAUGGAGU-GUACAUAA
...((((((((.........))))))))....(((((.....)))))-........ ( -19.80, z-score =  -1.76, R)
>droSec1.super_14 1489614 55 - 2068291
UUGGGCAGCUGACUUGGCUCCAGUUGCCAUCUGCUCCACGAUGGAGU-GUACAUAA
...((((((((.........))))))))....(((((.....)))))-........ ( -19.80, z-score =  -1.76, R)
>droYak2.chr2L 1518788 55 - 22324452
UUGGGCAGCUGACUCGACUUCAGUUGCCAUCUGCUCAACGAUGAUGC-CUACAUAA
...(((((((((.......)))))))))....(((((....))).))-........ ( -16.20, z-score =  -2.23, R)
>droEre2.scaffold_4929 1589539 55 - 26641161
UUGGGCAGCUGACUCGACUCCAGCGGCCAUCUGCUGCACGAUGAAGC-CUACAUAA
.(((((.((((.........))))...((((........))))..))-)))..... ( -14.70, z-score =  -0.48, R)
>droAna3.scaffold_12916 14943116 50 - 16180835
UUGGGCAUUUGCCUGA-----AGUUGGCAGCUAUUACAAGACCCGGU-CUACGUAA
...(((...((((...-----....))))))).((((.((((...))-))..)))) (  -9.50, z-score =   0.74, R)
>dp4.chr4_group3 10130443 56 - 11692001
UGGGGCGCCUCAAUCGCUUCAAGGUGGCAUCUACUUCGCGGGGGAGUCGCACAUAA
((..(((.(((..((((....((((((...)))))).))))..))).))).))... ( -17.50, z-score =  -1.07, R)
>consensus
UUGGGCAGCUGACUCGGCUCCAGUUGCCAUCUGCUCCACGAUGGAGU_GUACAUAA
...((((((((.........))))))))............................ ( -9.07 =  -9.41 +   0.35)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:08:41 2011