Locus 14517

Sequence ID dm3.chrX
Location 13,866,146 – 13,866,206
Length 60
Max. P 0.646656
window19986 window19987

overview

Window 6

Location 13,866,146 – 13,866,206
Length 60
Sequences 7
Columns 60
Reading direction forward
Mean pairwise identity 77.86
Shannon entropy 0.44541
G+C content 0.49524
Mean single sequence MFE -14.40
Consensus MFE -8.93
Energy contribution -9.83
Covariance contribution 0.90
Combinations/Pair 1.15
Mean z-score -1.23
Structure conservation index 0.62
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.33
SVM RNA-class probability 0.646656
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 13866146 60 + 22422827
AAUGACCGACUGUCUGGCGGACGGAAUGAUUGAAUGACAGGCAGCAGAAUGGUCAGUAAU
..((((((.(((((((.((..(((.....)))..)).))))))).....))))))..... ( -15.90, z-score =  -1.74, R)
>droSim1.chrX 10670166 60 + 17042790
AAUGACCGACUGUCUGGCGGACGGAAUGAUUGAAUGACAGGCAGCAGAAUGGUCAGUAAC
..((((((.(((((((.((..(((.....)))..)).))))))).....))))))..... ( -15.90, z-score =  -1.77, R)
>droSec1.super_20 508128 60 + 1148123
AAUGACCGACUGUCUGGCGGACGGAAUGAUUGAAUGACAGGCAGCAGAAUGGUCAGUAAC
..((((((.(((((((.((..(((.....)))..)).))))))).....))))))..... ( -15.90, z-score =  -1.77, R)
>droYak2.chrX 8159543 60 + 21770863
AAUGACCGACUGUCUGGCGGACGGAAUGAUUGAAUGACAGGCAGCGGAAUGGUCAGUAAA
..((((((.(((((((.((..(((.....)))..)).))))))).....))))))..... ( -15.90, z-score =  -1.59, R)
>droEre2.scaffold_4690 5725501 60 - 18748788
AAUGACCGACUGUCUGGCGGACGGAAUGAUUGAAUGACAGGCAGCAGAAUGGUCAGUAUC
..((((((.(((((((.((..(((.....)))..)).))))))).....))))))..... ( -15.90, z-score =  -1.31, R)
>droAna3.scaffold_13047 1394416 60 + 1816235
AAUGUCAUACUGACUGACGGCGGGAAUGAUUGAAUGACAGACUGACAGACAGACAGAGAC
.........(((.(((.((((.(..((......))..).).))).))).)))........ (  -9.10, z-score =  -0.92, R)
>droVir3.scaffold_12970 1788157 60 + 11907090
AGCGUCCAACUGACUGACACACUUGUUCACUGAGCAACGAGCUGCAUGACAGACAGACGU
.(((((...(((.(((.((..((((((........)))))).)))).).)))...))))) ( -12.20, z-score =   0.49, R)
>consensus
AAUGACCGACUGUCUGGCGGACGGAAUGAUUGAAUGACAGGCAGCAGAAUGGUCAGUAAC
..((((((.(((((((.....................))))))).....))))))..... ( -8.93 =  -9.83 +   0.90)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 13,866,146 – 13,866,206
Length 60
Sequences 7
Columns 60
Reading direction reverse
Mean pairwise identity 77.86
Shannon entropy 0.44541
G+C content 0.49524
Mean single sequence MFE -11.82
Consensus MFE -7.27
Energy contribution -7.12
Covariance contribution -0.16
Combinations/Pair 1.38
Mean z-score -1.14
Structure conservation index 0.62
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.15
SVM RNA-class probability 0.565359
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 13866146 60 - 22422827
AUUACUGACCAUUCUGCUGCCUGUCAUUCAAUCAUUCCGUCCGCCAGACAGUCGGUCAUU
.....(((((...((((((.(.(.(.............).).).))).)))..))))).. ( -11.22, z-score =  -1.35, R)
>droSim1.chrX 10670166 60 - 17042790
GUUACUGACCAUUCUGCUGCCUGUCAUUCAAUCAUUCCGUCCGCCAGACAGUCGGUCAUU
.....(((((...((((((.(.(.(.............).).).))).)))..))))).. ( -11.22, z-score =  -1.09, R)
>droSec1.super_20 508128 60 - 1148123
GUUACUGACCAUUCUGCUGCCUGUCAUUCAAUCAUUCCGUCCGCCAGACAGUCGGUCAUU
.....(((((...((((((.(.(.(.............).).).))).)))..))))).. ( -11.22, z-score =  -1.09, R)
>droYak2.chrX 8159543 60 - 21770863
UUUACUGACCAUUCCGCUGCCUGUCAUUCAAUCAUUCCGUCCGCCAGACAGUCGGUCAUU
.....(((((.....((((.(((.(.................).))).)))).))))).. ( -10.03, z-score =  -1.07, R)
>droEre2.scaffold_4690 5725501 60 + 18748788
GAUACUGACCAUUCUGCUGCCUGUCAUUCAAUCAUUCCGUCCGCCAGACAGUCGGUCAUU
.....(((((...((((((.(.(.(.............).).).))).)))..))))).. ( -11.22, z-score =  -0.70, R)
>droAna3.scaffold_13047 1394416 60 - 1816235
GUCUCUGUCUGUCUGUCAGUCUGUCAUUCAAUCAUUCCCGCCGUCAGUCAGUAUGACAUU
(((.(((.(((.(.((..(..((.........))..)..)).).))).)))...)))... ( -11.40, z-score =  -2.72, R)
>droVir3.scaffold_12970 1788157 60 - 11907090
ACGUCUGUCUGUCAUGCAGCUCGUUGCUCAGUGAACAAGUGUGUCAGUCAGUUGGACGCU
.((.(((.(((.((((((((.....)))..(....)..))))).))).))).))...... ( -16.40, z-score =   0.01, R)
>consensus
GUUACUGACCAUUCUGCUGCCUGUCAUUCAAUCAUUCCGUCCGCCAGACAGUCGGUCAUU
.....(((((.....((((.(((.(.................).))).)))).))))).. ( -7.27 =  -7.12 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:41:37 2011