Locus 14209

Sequence ID dm3.chrX
Location 11,939,894 – 11,939,985
Length 91
Max. P 0.925198
window19565 window19566

overview

Window 5

Location 11,939,894 – 11,939,985
Length 91
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 90.59
Shannon entropy 0.16059
G+C content 0.57554
Mean single sequence MFE -33.24
Consensus MFE -28.34
Energy contribution -28.38
Covariance contribution 0.04
Combinations/Pair 1.04
Mean z-score -2.15
Structure conservation index 0.85
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.31
SVM RNA-class probability 0.925198
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11939894 91 + 22422827
CACGUCGGGGACCCUGCGUAUUGGGAGUUCAUCCGGCAUUGACAAACAUGCCAUACGCUCAAUGACUGCUGGCCAAGCAGUCCGUUCCUCC---------
......((((((...((((((..(((.....)))(((((........))))))))))).....(((((((.....))))))).))))))..--------- ( -33.90, z-score =  -2.25, R)
>droEre2.scaffold_4690 3864187 91 - 18748788
CACGUCCGGAUACCUGCGUACUGGGAGUUCAUCCGGCAUUGACAAACAUGCCAUACGCUCAAUGACUGCUGGCCAAGCAGUCCAGUCCUCC---------
.......((((....(((((...(((.....)))(((((........))))).))))).....(((((((.....)))))))..))))...--------- ( -30.90, z-score =  -2.11, R)
>droYak2.chrX 19859595 100 - 21770863
CACGUCCGGGAGCCUGCGUUCUGGGAGUUCAUCCGGCAUUGACAAACAUGCCACACGCUCAAUGACUGCUGUCCAAGCAGUCCAGUCCACCUUCAUCUCC
.......((((((.((.......(((.....)))(((((........))))).)).))))...(((((((.....)))))))....))............ ( -29.20, z-score =  -0.84, R)
>droSec1.super_53 156490 91 + 190754
CACGUCCGGGACCCUGCGUACUGGGAGUUCAUCCGGCAUUGACAAACAUGCCAUACGCUCAAUGACUGCUGGCCAAGCAGUCCGGUCCUCU---------
.......((((((..(((((...(((.....)))(((((........))))).))))).....(((((((.....))))))).))))))..--------- ( -36.10, z-score =  -2.79, R)
>droSim1.chrX 9203450 91 + 17042790
CACGUCCGGGACCCUGCGUACUGGGAGUUCAUCCGGCAUUGACAAACAUGCCAUACGCUCAAUGACUGCUGGCCAAGCAGUCCGGUCCUCC---------
.......((((((..(((((...(((.....)))(((((........))))).))))).....(((((((.....))))))).))))))..--------- ( -36.10, z-score =  -2.73, R)
>consensus
CACGUCCGGGACCCUGCGUACUGGGAGUUCAUCCGGCAUUGACAAACAUGCCAUACGCUCAAUGACUGCUGGCCAAGCAGUCCGGUCCUCC_________
.......(((.....(((((...(((.....)))(((((........))))).))))).....(((((((.....)))))))...)))............ (-28.34 = -28.38 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 11,939,894 – 11,939,985
Length 91
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 90.59
Shannon entropy 0.16059
G+C content 0.57554
Mean single sequence MFE -35.66
Consensus MFE -29.60
Energy contribution -29.64
Covariance contribution 0.04
Combinations/Pair 1.11
Mean z-score -1.65
Structure conservation index 0.83
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.29
SVM RNA-class probability 0.628780
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11939894 91 - 22422827
---------GGAGGAACGGACUGCUUGGCCAGCAGUCAUUGAGCGUAUGGCAUGUUUGUCAAUGCCGGAUGAACUCCCAAUACGCAGGGUCCCCGACGUG
---------((.(((.(.(((((((.....))))))).....(((((((((((........)))))(((.....)))..)))))).)..)))))...... ( -33.90, z-score =  -1.54, R)
>droEre2.scaffold_4690 3864187 91 + 18748788
---------GGAGGACUGGACUGCUUGGCCAGCAGUCAUUGAGCGUAUGGCAUGUUUGUCAAUGCCGGAUGAACUCCCAGUACGCAGGUAUCCGGACGUG
---------(((..(((.(((((((.....))))))).....(((((((((((........)))))(((.....)))..)))))).))).)))....... ( -33.60, z-score =  -1.39, R)
>droYak2.chrX 19859595 100 + 21770863
GGAGAUGAAGGUGGACUGGACUGCUUGGACAGCAGUCAUUGAGCGUGUGGCAUGUUUGUCAAUGCCGGAUGAACUCCCAGAACGCAGGCUCCCGGACGUG
((((......(((..((((((((((.....)))))))...((((((.((((((........)))))).)))..))).)))..)))...))))........ ( -35.80, z-score =  -1.03, R)
>droSec1.super_53 156490 91 - 190754
---------AGAGGACCGGACUGCUUGGCCAGCAGUCAUUGAGCGUAUGGCAUGUUUGUCAAUGCCGGAUGAACUCCCAGUACGCAGGGUCCCGGACGUG
---------.(.(((((.(((((((.....))))))).....(((((((((((........)))))(((.....)))..))))))..))))))....... ( -37.60, z-score =  -2.32, R)
>droSim1.chrX 9203450 91 - 17042790
---------GGAGGACCGGACUGCUUGGCCAGCAGUCAUUGAGCGUAUGGCAUGUUUGUCAAUGCCGGAUGAACUCCCAGUACGCAGGGUCCCGGACGUG
---------.(.(((((.(((((((.....))))))).....(((((((((((........)))))(((.....)))..))))))..))))))....... ( -37.40, z-score =  -1.97, R)
>consensus
_________GGAGGACCGGACUGCUUGGCCAGCAGUCAUUGAGCGUAUGGCAUGUUUGUCAAUGCCGGAUGAACUCCCAGUACGCAGGGUCCCGGACGUG
..........(.(((((.(((((((.....))))))).....(((((((((((........)))))(((.....)))..)))))).)).))))....... (-29.60 = -29.64 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:35:59 2011