Locus 13780

Sequence ID dm3.chrX
Location 9,178,106 – 9,178,226
Length 120
Max. P 0.933035
window18959 window18960

overview

Window 9

Location 9,178,106 – 9,178,226
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.06
Shannon entropy 0.18082
G+C content 0.53663
Mean single sequence MFE -39.90
Consensus MFE -34.56
Energy contribution -34.68
Covariance contribution 0.12
Combinations/Pair 1.07
Mean z-score -1.22
Structure conservation index 0.87
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.00
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>dm3.chrX 9178106 120 + 22422827
UUAAAGAGAGCGCGCUUAAAUGCGAUUCCAAUUGGAAGUGGUUGCAGCCGGUGGUGGAUGAAAAUGUGUCCACCAAUGGCGCGCCUCAAAUGCCAUGUCCACCUGACCAAUCAGAAUCCG
.....(((.((((.......(((((((((....)))....))))))((((.((((((((........)))))))).)))))))))))...............((((....))))...... ( -42.70, z-score =  -3.00, R)
>droEre2.scaffold_4690 12807505 119 - 18748788
AUGAAGAGAGCGCA-UUGCCCACGAUUCCAAUUGGAAGUGGCUGCAGUCGGCGGUGGAUGAAAAUGGGUCCACCAAUGGCGCGCCUCAAAUGCCAUGUCCACCUGCCCAAUCGGAAUUGA
.....(((.((((.-.(((((((...(((....))).))))..)))((((..(((((((........)))))))..)))))))))))......((..(((............)))..)). ( -40.30, z-score =  -0.38, R)
>droYak2.chrX 17770427 119 + 21770863
AUGAAGAGAGCGCG-UUGUAUGCGAUUCCAAUUGGAAGUGGUUGCAGUCGGCGGUGGUUGAAAAUGUGUCCACCAAUGGCGCGCCUCAAAUGCCGUGUCCACCUGCCCAAUCGGAAACUA
.....(((.(((((-(..(......((((....))))((((.((((.(((((....)))))...)))).))))..)..))))))))).......((.(((............))).)).. ( -37.00, z-score =  -0.17, R)
>droSec1.super_68 70271 120 + 137979
AUGAAGAGAGCGCGCUUAACUGCGAUUCCAAUUGGAAGUGGUUGCAGCCGGCGGUGGAUGAAAAUGUGUCCACCAAUGGCGCGCCUCAAAUGCCAUGUCCACCUGCCCAAUCAGAAUCCG
.....(((.((((((..(((..(...(((....))).)..))))).((((..(((((((........)))))))..)))))))))))...............(((......)))...... ( -41.10, z-score =  -1.63, R)
>droSim1.chrX_random 2680402 113 + 5698898
AUGAAGAGAGCGCG-------GCGAUUCCAAUUGGAAGUGGUUGCAGCCGGCGGUGGAUGAAAAUGUGUCCACCAAUGGCGCGCCUCAAAUGCCAUGUCCACCUGCCCAAUCAGAAUCCG
.....(((.((((.-------((((((((....)))....))))).((((..(((((((........)))))))..)))))))))))...............(((......)))...... ( -38.40, z-score =  -0.94, R)
>consensus
AUGAAGAGAGCGCG_UUAAAUGCGAUUCCAAUUGGAAGUGGUUGCAGCCGGCGGUGGAUGAAAAUGUGUCCACCAAUGGCGCGCCUCAAAUGCCAUGUCCACCUGCCCAAUCAGAAUCCG
.....(((.((((........((((((((....)))....))))).((((..(((((((........)))))))..)))))))))))...............(((......)))...... (-34.56 = -34.68 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 9,178,106 – 9,178,226
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.06
Shannon entropy 0.18082
G+C content 0.53663
Mean single sequence MFE -41.54
Consensus MFE -37.20
Energy contribution -37.64
Covariance contribution 0.44
Combinations/Pair 1.09
Mean z-score -1.87
Structure conservation index 0.90
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.38
SVM RNA-class probability 0.933035
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 9178106 120 - 22422827
CGGAUUCUGAUUGGUCAGGUGGACAUGGCAUUUGAGGCGCGCCAUUGGUGGACACAUUUUCAUCCACCACCGGCUGCAACCACUUCCAAUUGGAAUCGCAUUUAAGCGCGCUCUCUUUAA
..(((((..(((((..((((((.....((.......))(((((..(((((((..........)))))))..))).))..)))))))))))..)))))((......))............. ( -43.10, z-score =  -2.98, R)
>droEre2.scaffold_4690 12807505 119 + 18748788
UCAAUUCCGAUUGGGCAGGUGGACAUGGCAUUUGAGGCGCGCCAUUGGUGGACCCAUUUUCAUCCACCGCCGACUGCAGCCACUUCCAAUUGGAAUCGUGGGCAA-UGCGCUCUCUUCAU
...((((((((((((..(((((.((((((......((....))...((((((..........))))))))))..))...))))))))))))))))).(.((((..-...)))).)..... ( -42.60, z-score =  -1.14, R)
>droYak2.chrX 17770427 119 - 21770863
UAGUUUCCGAUUGGGCAGGUGGACACGGCAUUUGAGGCGCGCCAUUGGUGGACACAUUUUCAACCACCGCCGACUGCAACCACUUCCAAUUGGAAUCGCAUACAA-CGCGCUCUCUUCAU
....(((((((((((..(((((.((((((......((....))...(((((............)))))))))..))...)))))))))))))))).(((......-.))).......... ( -37.90, z-score =  -1.93, R)
>droSec1.super_68 70271 120 - 137979
CGGAUUCUGAUUGGGCAGGUGGACAUGGCAUUUGAGGCGCGCCAUUGGUGGACACAUUUUCAUCCACCGCCGGCUGCAACCACUUCCAAUUGGAAUCGCAGUUAAGCGCGCUCUCUUCAU
..(((((..((((((..(((((.....((.......))(((((..(((((((..........)))))))..))).))..)))))))))))..)))))((......))............. ( -42.80, z-score =  -1.64, R)
>droSim1.chrX_random 2680402 113 - 5698898
CGGAUUCUGAUUGGGCAGGUGGACAUGGCAUUUGAGGCGCGCCAUUGGUGGACACAUUUUCAUCCACCGCCGGCUGCAACCACUUCCAAUUGGAAUCGC-------CGCGCUCUCUUCAU
..(((((..((((((..(((((.....((.......))(((((..(((((((..........)))))))..))).))..)))))))))))..)))))..-------.............. ( -41.30, z-score =  -1.68, R)
>consensus
CGGAUUCUGAUUGGGCAGGUGGACAUGGCAUUUGAGGCGCGCCAUUGGUGGACACAUUUUCAUCCACCGCCGGCUGCAACCACUUCCAAUUGGAAUCGCAGUCAA_CGCGCUCUCUUCAU
..((((((((((((..((((((.....((.......))(((((..(((((((..........)))))))..))).))..))))))))))))))))))((........))........... (-37.20 = -37.64 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:27:41 2011