Locus 12123

Sequence ID dm3.chr3R
Location 25,846,614 – 25,846,743
Length 129
Max. P 0.779514
window16667 window16668

overview

Window 7

Location 25,846,614 – 25,846,716
Length 102
Sequences 6
Columns 124
Reading direction reverse
Mean pairwise identity 74.14
Shannon entropy 0.44374
G+C content 0.51829
Mean single sequence MFE -34.58
Consensus MFE -19.39
Energy contribution -19.12
Covariance contribution -0.27
Combinations/Pair 1.45
Mean z-score -1.38
Structure conservation index 0.56
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.16
SVM RNA-class probability 0.573828
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 25846614 102 - 27905053
GUCAGAUUGACGUUACCAGGAAACAUGGUAAUUAGUGGCCCCUGGCACAAAGGGGCGUGAUUAGCUAUUCC-----GCCGGAGUGAGAGUCCUGAGAUCGGGAACUC-----------------
(((.....)))((((((((....).))))))).....((((((.......)))))).........((((((-----...)))))).((((((((....)))).))))----------------- ( -36.50, z-score =  -2.14, R)
>droSim1.chr3R_random 1249923 102 - 1307089
GUCAGAUUGACGUUACCAGGAAACAUGGUAAUUAGUGGCCCCUGGCACAAAGGGGCCUGAUUAGCUAUUCC-----GCCGGAGUGGGAGUCCUGAGAUCGGGAACUC-----------------
(((.....)))((((((((....).)))))))....(((((((.......))))))).......(((((((-----...)))))))((((((((....)))).))))----------------- ( -42.30, z-score =  -3.15, R)
>droSec1.super_4 4692460 102 - 6179234
GUCAGAUUGACGUUACCAGGAAACAUGGUAAUUAGUGGCCCCUGGCACAAAGGGGCCUGAUUAGCUAUUCC-----GCCGGAGUGGGAGUCCUGAGAUCGGGAACUC-----------------
(((.....)))((((((((....).)))))))....(((((((.......))))))).......(((((((-----...)))))))((((((((....)))).))))----------------- ( -42.30, z-score =  -3.15, R)
>droYak2.chr3R 26769386 107 - 28832112
GUCAGAUUGACGUUGCCAGGAAACAUUCUAAUUAGUUGCCCCCGGCACAACGGGGCCUCAUUACGCAUUCCUCCGGAGUGGAGUGGGAGUCCUAGGAUCGGGAACUC-----------------
(((.....)))(((.((.(....)(((((.....((.(((...)))))...(((((((((((.(.((((((...))))))))))))).)))))))))).)).)))..----------------- ( -34.90, z-score =  -0.34, R)
>droEre2.scaffold_4820 8308891 102 + 10470090
GUCAGAUUGACGUUACCAGGAAACAUUGUAAUUAGCUGCCCCUGGCACAAAGGUGCCUCAUUACGUAUUCCU-----GCGGAGUGAGAGUCCUAGGAUCGGGAACCC-----------------
(((.....)))(((((..(....)...))))).......(((.(((((....)))))...........((((-----(.(((.(....)))))))))..))).....----------------- ( -27.00, z-score =  -0.00, R)
>droAna3.scaffold_13340 20855071 118 - 23697760
GAUAGACUCAUGUUUUCAGGAAGUAUUAUAAUUUGUUG--CCUGGCACUGGGGAACGAAAUCGGAUAUCCUU-UAGGGAGGAGUGGGAG---UGGGAGUGAGAGUUAAUUGUAAUCAAGCAGGC
....(((((.(..(..((.....((((....((((((.--(((......))).))))))....))))(((((-....))))).......---))..)..).)))))..((((......)))).. ( -24.50, z-score =   0.52, R)
>consensus
GUCAGAUUGACGUUACCAGGAAACAUGGUAAUUAGUGGCCCCUGGCACAAAGGGGCCUGAUUAGCUAUUCC_____GCCGGAGUGGGAGUCCUGAGAUCGGGAACUC_________________
(((.....)))(((.((.(....)..(.(((((((..((((((.......))))))))))))).)((((((........))))))..............)).)))................... (-19.39 = -19.12 +  -0.27)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 25,846,644 – 25,846,743
Length 99
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 75.22
Shannon entropy 0.42640
G+C content 0.47526
Mean single sequence MFE -29.37
Consensus MFE -17.10
Energy contribution -17.30
Covariance contribution 0.20
Combinations/Pair 1.44
Mean z-score -1.64
Structure conservation index 0.58
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.66
SVM RNA-class probability 0.779514
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 25846644 99 - 27905053
----------GUUCAUUGAUUUUCCG---CACUUAAGUGCGUCAGAUUGACGUUACCAGGAAACAUGGUAAUUAGUGGCCCCUGGCACAAAGGGGCGUGAUUAGCUAUUCCG--------
----------..((((..((((..((---(((....)))))..))))..).((((((((....).))))))).....((((((.......)))))).)))............-------- ( -33.40, z-score =  -2.79, R)
>droSim1.chr3R_random 1249953 99 - 1307089
----------GUUCAUUGAUUUUCCG---CACUUAAGUGCGUCAGAUUGACGUUACCAGGAAACAUGGUAAUUAGUGGCCCCUGGCACAAAGGGGCCUGAUUAGCUAUUCCG--------
----------.....(..((((..((---(((....)))))..))))..).((((((((....).)))))))(((((((((((.......)))))))......)))).....-------- ( -36.20, z-score =  -3.71, R)
>droSec1.super_4 4692490 99 - 6179234
----------GUUCAUUGAUUUUCCG---CACUUAAGUGCGUCAGAUUGACGUUACCAGGAAACAUGGUAAUUAGUGGCCCCUGGCACAAAGGGGCCUGAUUAGCUAUUCCG--------
----------.....(..((((..((---(((....)))))..))))..).((((((((....).)))))))(((((((((((.......)))))))......)))).....-------- ( -36.20, z-score =  -3.71, R)
>droYak2.chr3R 26769416 104 - 28832112
----------GCCCAUUGAUUUUCCC---CACUCAAGUGCGUCAGAUUGACGUUGCCAGGAAACAUUCUAAUUAGUUGCCCCCGGCACAACGGGGCCUCAUUACGCAUUCCUCCGGA---
----------((....(((....(((---(........(((((.....)))))((((.((.(((..........)))...)).))))....))))..)))....))...........--- ( -24.10, z-score =   0.17, R)
>droEre2.scaffold_4820 8308921 99 + 10470090
----------GCUCAUUGAUUUUCCC---CACUCGAGUGCGUCAGAUUGACGUUACCAGGAAACAUUGUAAUUAGCUGCCCCUGGCACAAAGGUGCCUCAUUACGUAUUCCU--------
----------................---.....(((((((((((.(((..(((((..(....)...))))))))))).....(((((....))))).....))))))))..-------- ( -21.30, z-score =  -0.44, R)
>droAna3.scaffold_13340 20855111 118 - 23697760
UGAGCAGGAGGUUCAUUGAUUUUGUUUAGCAUUUGAGGGGGAUAGACUCAUGUUUUCAGGAAGUAUUAUAAUUUGUUG--CCUGGCACUGGGGAACGAAAUCGGAUAUCCUUUAGGGAGG
(((((.....)))))((((((((((((..((..((((.........))))((((..(((.((((......)))).)))--...)))).))..))))))))))))...(((.....))).. ( -25.00, z-score =   0.61, R)
>consensus
__________GUUCAUUGAUUUUCCG___CACUUAAGUGCGUCAGAUUGACGUUACCAGGAAACAUGGUAAUUAGUGGCCCCUGGCACAAAGGGGCCUGAUUAGCUAUUCCG________
....................................(((((((.....)))).)))..((((....(.(((((((..((((((.......))))))))))))).)..))))......... (-17.10 = -17.30 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:56:11 2011