Locus 14493

Sequence ID dm3.chrX
Location 13,681,677 – 13,681,813
Length 136
Max. P 0.584954
window19949 window19950

overview

Window 9

Location 13,681,677 – 13,681,773
Length 96
Sequences 4
Columns 108
Reading direction reverse
Mean pairwise identity 66.34
Shannon entropy 0.51745
G+C content 0.51763
Mean single sequence MFE -20.73
Consensus MFE -9.02
Energy contribution -9.40
Covariance contribution 0.38
Combinations/Pair 1.21
Mean z-score -1.50
Structure conservation index 0.44
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.10
SVM RNA-class probability 0.542958
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 13681677 96 - 22422827
---------GCUAAGCCGGCUACGGAAAAAUCAGCAAAUACGCCUGUAUUUUUUGG-CUGGCGUCUGUCGCACUCCCUGCCCUUUCCCAUUUCCCUUUUGCAUCCU--
---------((...(((((((...(((((((((((......).))).)))))))))-))))).......(((.....)))...................)).....-- ( -20.80, z-score =  -0.49, R)
>droSim1.chrX 10468567 96 - 17042790
---------GCUAAGCCGGCUACGGAAAAAUCAGCAAAUACACCUGU-UUUUUCGG-CUGGCGUCUGUCGCACU-CCUGCCCUUUCCCAUUUCCCUUUGGCAUCCCCU
---------(((((((((((..((((((((.(((.........))))-))))))))-))))).......(((..-..)))................)))))....... ( -24.60, z-score =  -1.62, R)
>droYak2.chrX 7973727 92 - 21770863
---------GCUACGCCGGCUACGAAAAAAUCAGCAAAUAAGUUUGU-AUUUUCGG-CUGGCGUCUGUCGUACUCC---CCCCUCUCCACCCCUUCGUCACAAAUU--
---------((.((((((((..((((((.((.(((......))).))-.)))))))-)))))))..))........---...........................-- ( -20.10, z-score =  -2.30, R)
>droEre2.scaffold_4690 5545629 104 + 18748788
GCUACACCGGUUACACCGACUGCGGAAAAAUCAGCAAAUACGCCUGUAUUUUUUGGACAGACAGCCCUUCAGCAUCC--CCACCAACCACUCCACUCACCCCACCU--
(((....(((.....))).((((.(((((((((((......).))).))))))).).)))..........)))....--...........................-- ( -17.40, z-score =  -1.57, R)
>consensus
_________GCUAAGCCGGCUACGGAAAAAUCAGCAAAUACGCCUGU_UUUUUCGG_CUGGCGUCUGUCGCACUCCC__CCCCUUCCCACUCCCCUUUCGCAACCU__
..............(((((...((((((...(((.........)))...))))))..))))).............................................. ( -9.02 =  -9.40 +   0.38)

alignment

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secondary structure

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dotplot

Postscript

Window 0

Location 13,681,714 – 13,681,813
Length 99
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 82.00
Shannon entropy 0.31062
G+C content 0.52554
Mean single sequence MFE -31.84
Consensus MFE -14.68
Energy contribution -15.76
Covariance contribution 1.08
Combinations/Pair 1.36
Mean z-score -2.47
Structure conservation index 0.46
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.19
SVM RNA-class probability 0.584954
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 13681714 99 + 22422827
-GACAGACGCCAG-CCAAAAAAUACAGGCGUAUUUGCUGAUUUUUCCGUAGCCGGCUUAGCCG-UGUUACCCUGGCUGCUUCGCUGCU---CCGUUCUGUCCAUG
-((((((((.(((-(..((((((...((((....)))).))))))..((((((((..((((..-.))))..))))))))...))))..---.)).)))))).... ( -33.70, z-score =  -2.94, R)
>droSim1.chrX 10468605 98 + 17042790
-GACAGACGCCAG-CCGAAAAA-ACAGGUGUAUUUGCUGAUUUUUCCGUAGCCGGCUUAGCCG-UGUUACCCUGGCUGCUUCGCUGCU---CCGUUCUGUCCAUG
-((((((((.(((-(.((((((-.(((.........))).)))))).((((((((..((((..-.))))..))))))))...))))..---.)).)))))).... ( -33.80, z-score =  -2.98, R)
>droSec1.super_20 320259 98 + 1148123
-GACAGACGCCAG-CCGAAAAA-ACAGGCGUAUUUGCUGAUUUUUCCGUAGCCGGCUUAGCCG-UGUUACCCUGGCUGCUUCGCUGCU---CCGUUCUGUCCAUG
-((((((((.(((-(.((((((-...((((....))))..)))))).((((((((..((((..-.))))..))))))))...))))..---.)).)))))).... ( -35.50, z-score =  -3.25, R)
>droYak2.chrX 7973761 95 + 21770863
-GACAGACGCCAG-CCGAAAAU-ACAAACUUAUUUGCUGAUUUUUUCGUAGCCGGCGUAGCCG-UGUUUCCCUGCCAGCUUCGGUGCU---CUGU---GUUCAUG
-.(((((((((.(-(((.((((-(......)))))((((.........))))))))(.(((.(-.((......))).))).))))).)---))))---....... ( -24.30, z-score =  -0.74, R)
>droEre2.scaffold_4690 5545663 105 - 18748788
GAAGGGCUGUCUGUCCAAAAAAUACAGGCGUAUUUGCUGAUUUUUCCGCAGUCGGUGUAACCGGUGUAGCCGUGUUUCUCUGGCUGCUUCUCCGUUCUGUUCAUG
(((((((.....)))).((((((...((((....)))).))))))..((((((((.(.((((((.....))).))).).))))))))............)))... ( -31.90, z-score =  -2.44, R)
>consensus
_GACAGACGCCAG_CCGAAAAA_ACAGGCGUAUUUGCUGAUUUUUCCGUAGCCGGCUUAGCCG_UGUUACCCUGGCUGCUUCGCUGCU___CCGUUCUGUCCAUG
.((((((((((((...((((((....((((....))))..)))))).(((((((((...))))..))))).))))).((......))......)).))))).... (-14.68 = -15.76 +   1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:41:08 2011