Locus 15681

Sequence ID dm3.chrX
Location 20,350,444 – 20,350,556
Length 112
Max. P 0.705775
window21612 window21613

overview

Window 2

Location 20,350,444 – 20,350,552
Length 108
Sequences 3
Columns 118
Reading direction forward
Mean pairwise identity 77.33
Shannon entropy 0.30702
G+C content 0.33798
Mean single sequence MFE -23.77
Consensus MFE -16.00
Energy contribution -17.23
Covariance contribution 1.23
Combinations/Pair 1.15
Mean z-score -1.71
Structure conservation index 0.67
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.27
SVM RNA-class probability 0.623526
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 20350444 108 + 22422827
AUACAAAAGAUUCACAGCUUAAAUAGCACGGUUUCAUUUGCUUAAAAGCCAAAAA-----CAUAAAUGCUUUAG--UCAGUAUUCAA---AUCAUCACUUAUGGUCCUGUGGAUUUAA
.......((((((((((((.....)))..((..((((..(((....)))......-----....((((((....--..))))))...---..........)))).))))))))))).. ( -17.00, z-score =  -0.59, R)
>droYak2.chrX 19575957 113 + 21770863
AAGCAAGAGAUUCGCAACUUAAAUAGCACGGUUUAAAUUGCUAAAAGCCCAAAAA-----CAUAAAUGUUGUAGAGUCAAUAUUUAAGCCAUCAUCAUUCAUGGAGCUUUGGGUUUUC
.............((((.((((((......)))))).))))..((((((((((..-----..(((((((((......)))))))))..((((........))))...)))))))))). ( -26.50, z-score =  -2.46, R)
>droSec1.super_8 2544967 113 + 3762037
AUACAAAAGAUUCGCAGUUUAAAUAGCACGGUUUAAAGUGCUUAAAAGCCCAAAAACAAACACAAAUGCUGUAG--UCAGUAUUUAA---GCCAUCACUUAUGGAACUGUGGGUUUGA
.......(((((((((((((....((...(((((((((.(((....))).)...............(((((...--.))))))))))---)))....))....))))))))))))).. ( -27.80, z-score =  -2.08, R)
>consensus
AUACAAAAGAUUCGCAGCUUAAAUAGCACGGUUUAAAUUGCUUAAAAGCCAAAAA_____CAUAAAUGCUGUAG__UCAGUAUUUAA___AUCAUCACUUAUGGAACUGUGGGUUUAA
.......(((((((((((((....((((..........))))....................(((((((((......))))))))).................))))))))))))).. (-16.00 = -17.23 +   1.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 20,350,446 – 20,350,556
Length 110
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 77.71
Shannon entropy 0.30190
G+C content 0.33491
Mean single sequence MFE -23.90
Consensus MFE -16.00
Energy contribution -17.23
Covariance contribution 1.23
Combinations/Pair 1.15
Mean z-score -1.83
Structure conservation index 0.67
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.46
SVM RNA-class probability 0.705775
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 20350446 110 + 22422827
ACAAAAGAUUCACAGCUUAAAUAGCACGGUUUCAUUUGCUUAAAAGCCAAAAA-----CAUAAAUGCUUUAG--UCAGUAUUCAA---AUCAUCACUUAUGGUCCUGUGGAUUUAAAAAU
.....((((((((((((.....)))..((..((((..(((....)))......-----....((((((....--..))))))...---..........)))).)))))))))))...... ( -17.00, z-score =  -0.65, R)
>droYak2.chrX 19575959 115 + 21770863
GCAAGAGAUUCGCAACUUAAAUAGCACGGUUUAAAUUGCUAAAAGCCCAAAAA-----CAUAAAUGUUGUAGAGUCAAUAUUUAAGCCAUCAUCAUUCAUGGAGCUUUGGGUUUUCAAAU
...........((((.((((((......)))))).))))..((((((((((..-----..(((((((((......)))))))))..((((........))))...))))))))))..... ( -26.50, z-score =  -2.50, R)
>droSec1.super_8 2544969 115 + 3762037
ACAAAAGAUUCGCAGUUUAAAUAGCACGGUUUAAAGUGCUUAAAAGCCCAAAAACAAACACAAAUGCUGUAG--UCAGUAUUUAA---GCCAUCACUUAUGGAACUGUGGGUUUGAAAAC
........((((((.(((((((......))))))).)))....(((((((...........((((((((...--.))))))))..---.((((.....)))).....))))))))))... ( -28.20, z-score =  -2.33, R)
>consensus
ACAAAAGAUUCGCAGCUUAAAUAGCACGGUUUAAAUUGCUUAAAAGCCAAAAA_____CAUAAAUGCUGUAG__UCAGUAUUUAA___AUCAUCACUUAUGGAACUGUGGGUUUAAAAAU
.....(((((((((((((....((((..........))))....................(((((((((......))))))))).................)))))))))))))...... (-16.00 = -17.23 +   1.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:03:55 2011