Locus 7161

Sequence ID dm3.chr3L
Location 12,618,043 – 12,618,138
Length 95
Max. P 0.933092
window9857 window9858

overview

Window 7

Location 12,618,043 – 12,618,138
Length 95
Sequences 5
Columns 95
Reading direction forward
Mean pairwise identity 69.86
Shannon entropy 0.54996
G+C content 0.51158
Mean single sequence MFE -28.40
Consensus MFE -15.90
Energy contribution -15.82
Covariance contribution -0.08
Combinations/Pair 1.43
Mean z-score -1.45
Structure conservation index 0.56
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.38
SVM RNA-class probability 0.933092
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 12618043 95 + 24543557
CAGCAGAUGCAUAUGCAGAUGCCCAUGCAGAUACAGAUACAUUCACAGAUGCUGCCGCUGCUGCGGUUGUUGUUAUUUUCCCGAUGACCGCAACA
..(((..(((....)))..)))....((((...(((...((((....)))))))...))))((((((..(((.........)))..))))))... ( -29.50, z-score =  -1.65, R)
>droYak2.chr3L 12683602 91 + 24197627
CAGCAGAUGCAGAUGCCCCUGCAGAUACAGAUACAGAUACGAAUGCAGAUGCUGCC---GCUGCGGUUGUUGUUAUUUUCCCGAUGACCGCAAA-
(((((..((((..((...(((............)))...))..))))..)))))..---..((((((..(((.........)))..))))))..- ( -27.50, z-score =  -2.33, R)
>droSec1.super_0 4804306 95 + 21120651
CAGCAGAUGCAUAUGCAGAUGCCCAUGCAGAUACAGAUACAUUCACAGAUGCUGCCGCCGCUGCGGUUGUUGUUAUUUUCCCGAUGACCGCAAAA
(((((..(((((..((....))..)))))......((.....)).....))))).......((((((..(((.........)))..))))))... ( -26.30, z-score =  -0.99, R)
>droSim1.chr3L 12003549 95 + 22553184
CAGCAGAUGCAUAUGCAGAUGCCCAUGCAGAUACAGAUACAUUCACAGAUGCUGCCGCUGCUGCGGUUGUUGUUAUUUUCCCGAUGACCGCAACA
..(((..(((....)))..)))....((((...(((...((((....)))))))...))))((((((..(((.........)))..))))))... ( -29.50, z-score =  -1.65, R)
>droVir3.scaffold_13049 6025515 88 - 25233164
---UGGUCGCCAAGUUAAGGGUAUCUGCAAGU-CGGGCACUCCCGACUAGAGCGCUCAUACUU--GCCGUUCUGCUUGCUGCCACAGCCGCAAA-
---.(..((.(((((...((((.(((...(((-((((....))))))))))..))))..))))--).))..)(((..((((...)))).)))..- ( -29.20, z-score =  -0.61, R)
>consensus
CAGCAGAUGCAUAUGCAGAUGCCCAUGCAGAUACAGAUACAUUCACAGAUGCUGCCGCUGCUGCGGUUGUUGUUAUUUUCCCGAUGACCGCAAAA
..((((..((((......)))).............((.....)).......))))......(((((((((((.........)))))))))))... (-15.90 = -15.82 +  -0.08)

alignment

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secondary structure

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dotplot

Postscript

Window 8

Location 12,618,043 – 12,618,138
Length 95
Sequences 5
Columns 95
Reading direction reverse
Mean pairwise identity 69.86
Shannon entropy 0.54996
G+C content 0.51158
Mean single sequence MFE -29.92
Consensus MFE -16.28
Energy contribution -17.04
Covariance contribution 0.76
Combinations/Pair 1.44
Mean z-score -0.97
Structure conservation index 0.54
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.27
SVM RNA-class probability 0.620695
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 12618043 95 - 24543557
UGUUGCGGUCAUCGGGAAAAUAACAACAACCGCAGCAGCGGCAGCAUCUGUGAAUGUAUCUGUAUCUGCAUGGGCAUCUGCAUAUGCAUCUGCUG
.((((((((.....(........)....))))))))(((((..((((.(((..((((...(((....)))...))))..))).))))..))))). ( -31.80, z-score =  -1.29, R)
>droYak2.chr3L 12683602 91 - 24197627
-UUUGCGGUCAUCGGGAAAAUAACAACAACCGCAGC---GGCAGCAUCUGCAUUCGUAUCUGUAUCUGUAUCUGCAGGGGCAUCUGCAUCUGCUG
-.(((((((.....(........)....))))))).---..(((((..((((...((..(((((........)))))..))...))))..))))) ( -25.90, z-score =  -0.86, R)
>droSec1.super_0 4804306 95 - 21120651
UUUUGCGGUCAUCGGGAAAAUAACAACAACCGCAGCGGCGGCAGCAUCUGUGAAUGUAUCUGUAUCUGCAUGGGCAUCUGCAUAUGCAUCUGCUG
..(((((((.....(........)....)))))))((((((..((((.(((..((((...(((....)))...))))..))).))))..)))))) ( -28.90, z-score =  -0.69, R)
>droSim1.chr3L 12003549 95 - 22553184
UGUUGCGGUCAUCGGGAAAAUAACAACAACCGCAGCAGCGGCAGCAUCUGUGAAUGUAUCUGUAUCUGCAUGGGCAUCUGCAUAUGCAUCUGCUG
.((((((((.....(........)....))))))))(((((..((((.(((..((((...(((....)))...))))..))).))))..))))). ( -31.80, z-score =  -1.29, R)
>droVir3.scaffold_13049 6025515 88 + 25233164
-UUUGCGGCUGUGGCAGCAAGCAGAACGGC--AAGUAUGAGCGCUCUAGUCGGGAGUGCCCG-ACUUGCAGAUACCCUUAACUUGGCGACCA---
-(((((.((((...))))..))))).((.(--((((.((((..(((.(((((((....))))-))).).)).....))))))))).))....--- ( -31.20, z-score =  -0.72, R)
>consensus
UUUUGCGGUCAUCGGGAAAAUAACAACAACCGCAGCAGCGGCAGCAUCUGUGAAUGUAUCUGUAUCUGCAUGGGCAUCUGCAUAUGCAUCUGCUG
..(((((((.....(........)....)))))))((((((..((((.(((..((((...((......))...))))..))).))))..)))))) (-16.28 = -17.04 +   0.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:21:37 2011