Locus 9969

Sequence ID dm3.chr3R
Location 10,226,925 – 10,227,027
Length 102
Max. P 0.771346
window13698 window13699

overview

Window 8

Location 10,226,925 – 10,227,027
Length 102
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 77.25
Shannon entropy 0.44876
G+C content 0.36726
Mean single sequence MFE -17.74
Consensus MFE -10.08
Energy contribution -12.05
Covariance contribution 1.97
Combinations/Pair 1.18
Mean z-score -1.26
Structure conservation index 0.57
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.05
SVM RNA-class probability 0.519416
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 10226925 102 + 27905053
UUGUUUUUCCACUCGUGUUUGCAAUUAUGGAGUCAGUAGAUAUAAUUACUAUCCUGCAUUAAUUAUCCCGCAAUUGCCAACUUUUGCGUUGGUAGUAAUUUU
.(((..(((((....((....))....)))))...(((((((.......))).))))............)))(((((((((......)))))))))...... ( -18.60, z-score =  -0.93, R)
>droSim1.chr3R 16288074 102 - 27517382
UUGUUUUUCCACUCGUGCUUGCAAUUAUGGAGUCAGUAGACAUAAUUACUAUCCUGCAUUAAUUAUCCCGCAAUUGCCAACUUUUACGUUGGCAGUAUUAUU
.......((((....((....))....))))(((....))).............(((............)))(((((((((......)))))))))...... ( -20.20, z-score =  -1.46, R)
>droSec1.super_0 9306786 102 - 21120651
UUGUUUUUCCACUCGUGUUUGCAAUUAUGGAGUCAGUAGACAUAAUUACUAUCCUGCAUUAAUUAUCCCGCAAUUGCCAACUUUUGCGUUGGCUGUAUUAUU
........(((..((((((.((((((.(((.(((....)))(((((((...........))))))).))).)))))).)))....))).))).......... ( -17.30, z-score =  -0.12, R)
>droYak2.chr3R 12617959 102 - 28832112
CUGUUUUCCCACUCGUCUUUGCAAUUAUGCAGUCAGUAGACAUAAUUACUAUCCUGCAUUAAUUAUCCCGCAAUUGCCAACUUUUGCGUUGGCAGUAUUAUA
...................(((((((((((((..(((((......)))))...))))).))))).....)))(((((((((......)))))))))...... ( -22.80, z-score =  -2.91, R)
>droEre2.scaffold_4770 9760930 98 + 17746568
CUGUUUUUCCACUCGUGUUUGCAAUUUUGCA---AGUAGACAUAAUUACUAUCCUGCAUUAAUUAUCCCGCAAUUGCCAACUCU-GCGUUGGCAGUAUUAUU
..............(((.(((((....))))---)((((..............))))...........))).(((((((((...-..)))))))))...... ( -20.34, z-score =  -1.99, R)
>droVir3.scaffold_13047 4528147 88 - 19223366
UUAAUUAUCCAUGCGUA--UGCAA----AGAAUAGCUAGCGACAACAACUCUUCUAC--UAACAAGAGC---ACCGACAACUACAACAACAACAAUUCU---
...........(((((.--.((..----......))..))).))....(((((....--....))))).---...........................--- (  -7.20, z-score =  -0.14, R)
>consensus
UUGUUUUUCCACUCGUGUUUGCAAUUAUGGAGUCAGUAGACAUAAUUACUAUCCUGCAUUAAUUAUCCCGCAAUUGCCAACUUUUGCGUUGGCAGUAUUAUU
..............((((((((.............)))))))).............................(((((((((......)))))))))...... (-10.08 = -12.05 +   1.97)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 10,226,925 – 10,227,027
Length 102
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 77.25
Shannon entropy 0.44876
G+C content 0.36726
Mean single sequence MFE -22.61
Consensus MFE -11.61
Energy contribution -13.62
Covariance contribution 2.00
Combinations/Pair 1.24
Mean z-score -1.79
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.64
SVM RNA-class probability 0.771346
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 10226925 102 - 27905053
AAAAUUACUACCAACGCAAAAGUUGGCAAUUGCGGGAUAAUUAAUGCAGGAUAGUAAUUAUAUCUACUGACUCCAUAAUUGCAAACACGAGUGGAAAAACAA
.......((((((((......))))(((((((((..(....)..))).((((((((........)))))..)))..))))))........))))........ ( -19.60, z-score =  -1.57, R)
>droSim1.chr3R 16288074 102 + 27517382
AAUAAUACUGCCAACGUAAAAGUUGGCAAUUGCGGGAUAAUUAAUGCAGGAUAGUAAUUAUGUCUACUGACUCCAUAAUUGCAAGCACGAGUGGAAAAACAA
.((((((((((((((......))))))..(((((..(....)..)))))...))).)))))(((....)))(((((...((....))...)))))....... ( -23.30, z-score =  -1.60, R)
>droSec1.super_0 9306786 102 + 21120651
AAUAAUACAGCCAACGCAAAAGUUGGCAAUUGCGGGAUAAUUAAUGCAGGAUAGUAAUUAUGUCUACUGACUCCAUAAUUGCAAACACGAGUGGAAAAACAA
.....(((.((((((......))))))..(((((..(....)..)))))....(((((((((((....)))...))))))))........)))......... ( -22.40, z-score =  -1.73, R)
>droYak2.chr3R 12617959 102 + 28832112
UAUAAUACUGCCAACGCAAAAGUUGGCAAUUGCGGGAUAAUUAAUGCAGGAUAGUAAUUAUGUCUACUGACUGCAUAAUUGCAAAGACGAGUGGGAAAACAG
.....((((((((((......))))))..((((((........((((((..(((((........))))).))))))..)))))).....))))......... ( -25.90, z-score =  -2.55, R)
>droEre2.scaffold_4770 9760930 98 - 17746568
AAUAAUACUGCCAACGC-AGAGUUGGCAAUUGCGGGAUAAUUAAUGCAGGAUAGUAAUUAUGUCUACU---UGCAAAAUUGCAAACACGAGUGGAAAAACAG
.((((((((((((((..-...))))))..(((((..(....)..)))))...))).))))).((((((---((..............))))))))....... ( -23.04, z-score =  -1.90, R)
>droVir3.scaffold_13047 4528147 88 + 19223366
---AGAAUUGUUGUUGUUGUAGUUGUCGGU---GCUCUUGUUA--GUAGAAGAGUUGUUGUCGCUAGCUAUUCU----UUGCA--UACGCAUGGAUAAUUAA
---................((((((((.((---((...(((..--...(((((((.((((....)))).)))))----)))))--...)))).)))))))). ( -21.40, z-score =  -1.37, R)
>consensus
AAUAAUACUGCCAACGCAAAAGUUGGCAAUUGCGGGAUAAUUAAUGCAGGAUAGUAAUUAUGUCUACUGACUCCAUAAUUGCAAACACGAGUGGAAAAACAA
........(((((((......))))))).(((((..........)))))....(((((((((...........))))))))).................... (-11.61 = -13.62 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:14:52 2011