Locus 5023

Sequence ID dm3.chr2R
Location 17,146,532 – 17,146,684
Length 152
Max. P 0.753872
window6897 window6898

overview

Window 7

Location 17,146,532 – 17,146,647
Length 115
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 88.71
Shannon entropy 0.19179
G+C content 0.41823
Mean single sequence MFE -24.03
Consensus MFE -15.84
Energy contribution -15.96
Covariance contribution 0.12
Combinations/Pair 1.12
Mean z-score -2.33
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.38
SVM RNA-class probability 0.668366
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 17146532 115 - 21146708
AACCUCUUGGCUGACACAGAAUUAUUCUUCUACUCCAGUGAUUCCAUUCGAAACUAUUUGACUGGAAUCAAUGGCGCCUCCUUUUUCUUU---UAGCAACUAUCAGAUUUUCCAACUC
........(((......((((......))))...(((.((((((((.(((((....))))).)))))))).))).))).......(((..---(((...)))..)))........... ( -23.90, z-score =  -2.72, R)
>droEre2.scaffold_4845 11290352 113 - 22589142
AAUCUCUGGACUGACAC--CAUUUUCCUUCUACUCCAGUGGUUCCCUUCAAAGCUGUUUGACUGGAAUCACUGGCGGCUCCUUCUUCCUC---GAGCAUCUAUCUGAUUUUCAAACUC
((((..((((.......--.............(.(((((((((((..(((((....)))))..))))))))))).)((((..........---)))).))))...))))......... ( -29.10, z-score =  -2.88, R)
>droYak2.chr2R 9096632 116 + 21139217
AACCUCUUGGCUGACAC--AAUUUUUCUUCUACUCCAGUGGUUGCCUUCAAAACUGUUUGACUGGAAUCAAUGGCGCCUCCUCCUUCCUCUUGGAGCAUCUAUCUGAUUUUCAAACUC
........(((...(((--..................)))...))).........((((((...((((((((((...((((...........))))...)))).)))))))))))).. ( -22.17, z-score =  -0.95, R)
>droSec1.super_9 476649 115 - 3197100
AACCUCUUGCCUGACACAGAAUUUUUCUUCUACUCCAGUGAUUCCAUUCGAAACUAUUUGACUGGAAUCAAUGGCGCCUCCUUCUUCUUU---UAGCAUCUAUCUGAUUUUCCAACUC
................((((..............(((.((((((((.(((((....))))).)))))))).))).((.............---..)).....))))............ ( -21.16, z-score =  -2.36, R)
>droSim1.chr2R 15797424 115 - 19596830
AACCUCUUGGCUGACACAGAAUUUUUCUUCUACUCCAGUGAUUCCAUUCGAAACUAUUUGACUGGAAUCAAUGGCGCCUCCUUCUUCUUU---UAGCAUCUAUCUGAUUUUCCAACUC
.........(((((...((((......)))).(.(((.((((((((.(((((....))))).)))))))).))).).............)---))))..................... ( -23.80, z-score =  -2.76, R)
>consensus
AACCUCUUGGCUGACACAGAAUUUUUCUUCUACUCCAGUGAUUCCAUUCGAAACUAUUUGACUGGAAUCAAUGGCGCCUCCUUCUUCUUU___UAGCAUCUAUCUGAUUUUCCAACUC
................................(.(((.((((((((.(((((....))))).)))))))).))).).......................................... (-15.84 = -15.96 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 17,146,567 – 17,146,684
Length 117
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 88.44
Shannon entropy 0.20498
G+C content 0.43050
Mean single sequence MFE -26.14
Consensus MFE -17.66
Energy contribution -17.74
Covariance contribution 0.08
Combinations/Pair 1.14
Mean z-score -2.30
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.59
SVM RNA-class probability 0.753872
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 17146567 117 - 21146708
AUCUCUGCUAACUUCGCAGAUUAUGCUCAAAUUAACCAACCUCUUGGCUGACACAGAAUUAUUCUUCUACUCCAGUGAUUCCAUUCGAAACUAUUUGACUGGAAUCAAUGGCGCCUC
...(((((.......))))).........................(((......((((......))))...(((.((((((((.(((((....))))).)))))))).))).))).. ( -28.80, z-score =  -3.88, R)
>droEre2.scaffold_4845 11290387 115 - 22589142
AUCUCUCCUAAUUUCGCAGAUCGUGUCAGAAUCGACCAAUCUCUGGACUGACAC--CAUUUUCCUUCUACUCCAGUGGUUCCCUUCAAAGCUGUUUGACUGGAAUCACUGGCGGCUC
...............((((((.(((((((......(((.....))).)))))))--.))))........(.(((((((((((..(((((....)))))..))))))))))).))).. ( -34.70, z-score =  -3.27, R)
>droYak2.chr2R 9096670 115 + 21139217
AUCUCACCUAAUUUCGCAGAUCCUGGCAAAAUUGACCAACCUCUUGGCUGACAC--AAUUUUUCUUCUACUCCAGUGGUUGCCUUCAAAACUGUUUGACUGGAAUCAAUGGCGCCUC
........................((((((((((..((.((....)).))...)--)))))).........(((.(((((.((.(((((....)))))..))))))).))).))).. ( -21.30, z-score =  -0.03, R)
>droSec1.super_9 476684 117 - 3197100
AUCUCUCCUAAUUUCGCAGAUCAUGACCAAAUUAACCAACCUCUUGCCUGACACAGAAUUUUUCUUCUACUCCAGUGAUUCCAUUCGAAACUAUUUGACUGGAAUCAAUGGCGCCUC
........((((((.(((.....)).).))))))...........(((......((((......)))).......((((((((.(((((....))))).))))))))..)))..... ( -21.20, z-score =  -1.85, R)
>droSim1.chr2R 15797459 117 - 19596830
AUCUCUCCUAAUUUCGCAGAUCAUGACCAAAUUAACCAACCUCUUGGCUGACACAGAAUUUUUCUUCUACUCCAGUGAUUCCAUUCGAAACUAUUUGACUGGAAUCAAUGGCGCCUC
........((((((.(((.....)).).))))))...........(((......((((......))))...(((.((((((((.(((((....))))).)))))))).))).))).. ( -24.70, z-score =  -2.44, R)
>consensus
AUCUCUCCUAAUUUCGCAGAUCAUGACCAAAUUAACCAACCUCUUGGCUGACACAGAAUUUUUCUUCUACUCCAGUGAUUCCAUUCGAAACUAUUUGACUGGAAUCAAUGGCGCCUC
..............(((...................((.((....)).))......................((.((((((((.(((((....))))).)))))))).))))).... (-17.66 = -17.74 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:40:25 2011