Locus 12121

Sequence ID dm3.chr3R
Location 25,835,880 – 25,835,978
Length 98
Max. P 0.805516
window16663 window16664

overview

Window 3

Location 25,835,880 – 25,835,978
Length 98
Sequences 5
Columns 101
Reading direction forward
Mean pairwise identity 86.37
Shannon entropy 0.23349
G+C content 0.56315
Mean single sequence MFE -34.80
Consensus MFE -25.80
Energy contribution -26.16
Covariance contribution 0.36
Combinations/Pair 1.21
Mean z-score -2.02
Structure conservation index 0.74
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.75
SVM RNA-class probability 0.805516
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 25835880 98 + 27905053
CCCAGCGAAUGGUCUGUCGCUCAGCCAGGAGUUCCGCACCCGGAAGCGGGAGCGGAUCGGACUGU---GACUGAUCCGGACACUAAUCGAACACACAGAUU
.....(((.((((...(((.((((((((..(.(((((.((((....)))).))))).)...))).---).))))..)))..)))).)))............ ( -34.50, z-score =  -1.08, R)
>droSim1.chr3R 25504165 97 + 27517382
CCCAGCGAAUGGUCUGUCGCUCAGCCAGGAGUUCCGCUUCCGGAAUCGGAAGCGGAUCGGACCGU---GACCGAUC-GGACACUAAUCGAACACACAGAUU
.....(((..((((((..((((......))))((((((((((....)))))))))).))))))((---(.((....-)).)))...)))............ ( -37.40, z-score =  -2.24, R)
>droSec1.super_4 4681649 97 + 6179234
CCCAGCGAAUGAUCUGUCACUCAGCCAGGAGUUCCGCUCCCGGAAGCGGGAGCGGAUCGGACCGU---GACCGAUC-GGACACUAAUCGAACACACAGAUU
..........(((((((.((((......))))((((((((((....))))))))))((((...((---(.((....-)).)))...))))....))))))) ( -38.40, z-score =  -2.87, R)
>droYak2.chr3R 26758450 97 + 28832112
CCAAGCGAAUGUUCUGUCGCUCAGCCAGGAGUUCCGCUCCC---GUUGGGAGCAAAUCGAACUUCUUGGACUGAUC-GGACACUAAUCGAACACACAGAUU
.........((((((((((.((((((((((((((.((((((---...)))))).....)))).)))))).)))).)-.))))......)))))........ ( -32.50, z-score =  -2.31, R)
>droEre2.scaffold_4820 8298035 92 - 10470090
CCCAGCGAAUGGUCUGUCGCUCAGACAGGAGGUCCGCUUUC---AUUGGGAGCAGAUCGGAC--U---GGCUGAUC-GGACACUAAUCGAACACACAGAUU
.....(((.(((((((((.....)))))...(((((((((.---....))))).((((((..--.---..))))))-)))))))).)))............ ( -31.20, z-score =  -1.58, R)
>consensus
CCCAGCGAAUGGUCUGUCGCUCAGCCAGGAGUUCCGCUCCCGGAAUCGGGAGCGGAUCGGACCGU___GACUGAUC_GGACACUAAUCGAACACACAGAUU
..........(((((((.((((......))))((((((((((....))))))).((((((.(......).)))))).)))..............))))))) (-25.80 = -26.16 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 25,835,880 – 25,835,978
Length 98
Sequences 5
Columns 101
Reading direction reverse
Mean pairwise identity 86.37
Shannon entropy 0.23349
G+C content 0.56315
Mean single sequence MFE -35.70
Consensus MFE -26.40
Energy contribution -26.28
Covariance contribution -0.12
Combinations/Pair 1.21
Mean z-score -1.77
Structure conservation index 0.74
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.28
SVM RNA-class probability 0.624334
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 25835880 98 - 27905053
AAUCUGUGUGUUCGAUUAGUGUCCGGAUCAGUC---ACAGUCCGAUCCGCUCCCGCUUCCGGGUGCGGAACUCCUGGCUGAGCGACAGACCAUUCGCUGGG
..(((((.((((((.((((....(((((.....---...))))).(((((.((((....)))).)))))....)))).)))))))))))(((.....))). ( -37.00, z-score =  -1.39, R)
>droSim1.chr3R 25504165 97 - 27517382
AAUCUGUGUGUUCGAUUAGUGUCC-GAUCGGUC---ACGGUCCGAUCCGCUUCCGAUUCCGGAAGCGGAACUCCUGGCUGAGCGACAGACCAUUCGCUGGG
..(((((.((((((.((((..((.-(((((...---.))))).))((((((((((....))))))))))....)))).)))))))))))(((.....))). ( -40.90, z-score =  -2.58, R)
>droSec1.super_4 4681649 97 - 6179234
AAUCUGUGUGUUCGAUUAGUGUCC-GAUCGGUC---ACGGUCCGAUCCGCUCCCGCUUCCGGGAGCGGAACUCCUGGCUGAGUGACAGAUCAUUCGCUGGG
...(((((...((((((.......-)))))).)---)))).....((((((((((....))))))))))...((..((.((((((....))))))))..)) ( -43.30, z-score =  -3.04, R)
>droYak2.chr3R 26758450 97 - 28832112
AAUCUGUGUGUUCGAUUAGUGUCC-GAUCAGUCCAAGAAGUUCGAUUUGCUCCCAAC---GGGAGCGGAACUCCUGGCUGAGCGACAGAACAUUCGCUUGG
.....(.(((((((((....)))(-(.((((.(((.((.((((....(((((((...---))))))))))))).))))))).))...)))))).)...... ( -32.50, z-score =  -1.57, R)
>droEre2.scaffold_4820 8298035 92 + 10470090
AAUCUGUGUGUUCGAUUAGUGUCC-GAUCAGCC---A--GUCCGAUCUGCUCCCAAU---GAAAGCGGACCUCCUGUCUGAGCGACAGACCAUUCGCUGGG
..(((((.((((((((.((.((((-((((....---.--....)))).(((......---...)))))))))...))).))))))))))(((.....))). ( -24.80, z-score =  -0.26, R)
>consensus
AAUCUGUGUGUUCGAUUAGUGUCC_GAUCAGUC___ACAGUCCGAUCCGCUCCCGAUUCCGGGAGCGGAACUCCUGGCUGAGCGACAGACCAUUCGCUGGG
..(((((.(((((((((........)))).........((((.(((((((((((......)))))))))..))..))))))))))))))............ (-26.40 = -26.28 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:56:07 2011