Locus 7156

Sequence ID dm3.chr3L
Location 12,594,565 – 12,594,658
Length 93
Max. P 0.972739
window9849 window9850

overview

Window 9

Location 12,594,565 – 12,594,658
Length 93
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 70.51
Shannon entropy 0.50209
G+C content 0.49105
Mean single sequence MFE -28.17
Consensus MFE -12.36
Energy contribution -12.84
Covariance contribution 0.48
Combinations/Pair 1.29
Mean z-score -1.86
Structure conservation index 0.44
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.68
SVM RNA-class probability 0.785958
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 12594565 93 + 24543557
AUGCCGUUUGAUUGGUAUACCAAUCGAUUUCCUUGCCGCCAAUAUUUCAAUGA-UCUCGGAUUC------------UCGAGUCUGGAACCAGGCAACUGGCAACUG--------------
.((((..((((((((....)))))))).....(((((.......(((((..((-.(((((....------------))))))))))))...)))))..))))....-------------- ( -27.90, z-score =  -2.58, R)
>droSim1.chr3L 11980062 86 + 22553184
AUGCCGUUUGAUUGGUAUACCAAUCGAUUUCCUUGCCGCCAAUAUUUCAACGA-UCUCGGAUUC------------UCGAGUCGGGAACCAGGCAACUG---------------------
.((((..((((((((....)))))))).(((((((....)))........(((-.(((((....------------))))))))))))...))))....--------------------- ( -25.80, z-score =  -2.23, R)
>droSec1.super_0 4780876 80 + 21120651
AUGCCGUUUGAUUGGUAUACCAAUCGAUUUCCUUGCCGCCAAUAUUUCAACGA-UCUCGGAUUC------------UGGAGUC------CAGGCAACUG---------------------
.((((..((((((((....))))))))..........................-....(((((.------------...))))------).))))....--------------------- ( -21.10, z-score =  -1.66, R)
>droEre2.scaffold_4784 12598482 119 + 25762168
AUGCCGUUUGAUUGGUAUACCAAUCGAUUUCCUUGCCGCCAAUACUUCAACGA-UCUCGGAUUCCGAAGAGGGCCCUUGAAUCUGGAACCAGGCAACUGGCCACUGCCAACUGGCAACUG
.((((..((((((((....)))))))).....(((((................-((((((...))).)))((..((........))..)).))))).((((....))))...)))).... ( -36.10, z-score =  -2.01, R)
>droAna3.scaffold_13337 19864848 86 - 23293914
AUGCCGUUUGAUUGGUAUACCAAUCGAUUUCCUUGCCGCCAAUAUUUCAACGG-UCUCGGGUUCGG--------UCUCGAUUCGGUUUCGAACCG-------------------------
..((((((.((((((....))))))((.....(((....)))....)))))))-)....(((((((--------..(((...)))..))))))).------------------------- ( -24.30, z-score =  -1.17, R)
>dp4.chrXR_group6 3378968 103 + 13314419
AUGCCGUUUGAUUGGUAUACCAAUCGAUUUACUUGCCGCCAAUAUUUCAACGAGUCCCCGGGACUGAGACUGGAACUGGGACUGAGACCGGGACCGGGGACCG-----------------
..((.((((((((((....)))))))).......)).))...........((.((((((((..(((.(.((((........)).)).))))..))))))))))----------------- ( -33.81, z-score =  -1.53, R)
>consensus
AUGCCGUUUGAUUGGUAUACCAAUCGAUUUCCUUGCCGCCAAUAUUUCAACGA_UCUCGGAUUC____________UCGAGUCGGGAACCAGGCAACUG_____________________
.((((..((((((((....))))))))................................(((((..............)))))........))))......................... (-12.36 = -12.84 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 12,594,565 – 12,594,658
Length 93
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 70.51
Shannon entropy 0.50209
G+C content 0.49105
Mean single sequence MFE -30.12
Consensus MFE -16.54
Energy contribution -17.15
Covariance contribution 0.61
Combinations/Pair 1.18
Mean z-score -2.00
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.87
SVM RNA-class probability 0.972739
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 12594565 93 - 24543557
--------------CAGUUGCCAGUUGCCUGGUUCCAGACUCGA------------GAAUCCGAGA-UCAUUGAAAUAUUGGCGGCAAGGAAAUCGAUUGGUAUACCAAUCAAACGGCAU
--------------....((((.((((((..(((.((((((((.------------.....)))).-))..)).)))...)))))).........((((((....))))))....)))). ( -30.20, z-score =  -2.77, R)
>droSim1.chr3L 11980062 86 - 22553184
---------------------CAGUUGCCUGGUUCCCGACUCGA------------GAAUCCGAGA-UCGUUGAAAUAUUGGCGGCAAGGAAAUCGAUUGGUAUACCAAUCAAACGGCAU
---------------------....((((.((((.((..((((.------------.....)))).-((((..(....)..))))...)).))))((((((....))))))....)))). ( -28.00, z-score =  -2.31, R)
>droSec1.super_0 4780876 80 - 21120651
---------------------CAGUUGCCUG------GACUCCA------------GAAUCCGAGA-UCGUUGAAAUAUUGGCGGCAAGGAAAUCGAUUGGUAUACCAAUCAAACGGCAU
---------------------....((((..------.......------------...(((..(.-((((..(....)..)))))..)))....((((((....))))))....)))). ( -22.80, z-score =  -1.68, R)
>droEre2.scaffold_4784 12598482 119 - 25762168
CAGUUGCCAGUUGGCAGUGGCCAGUUGCCUGGUUCCAGAUUCAAGGGCCCUCUUCGGAAUCCGAGA-UCGUUGAAGUAUUGGCGGCAAGGAAAUCGAUUGGUAUACCAAUCAAACGGCAU
((.(((((....)))))))(((.((((((((.(((..((((...(((...((....)).)))..))-))...))).))..)))))).........((((((....))))))....))).. ( -38.90, z-score =  -1.05, R)
>droAna3.scaffold_13337 19864848 86 + 23293914
-------------------------CGGUUCGAAACCGAAUCGAGA--------CCGAACCCGAGA-CCGUUGAAAUAUUGGCGGCAAGGAAAUCGAUUGGUAUACCAAUCAAACGGCAU
-------------------------(((((((....))))))).(.--------(((...((..(.-((((..(....)..)))))..)).....((((((....))))))...)))).. ( -30.10, z-score =  -3.30, R)
>dp4.chrXR_group6 3378968 103 - 13314419
-----------------CGGUCCCCGGUCCCGGUCUCAGUCCCAGUUCCAGUCUCAGUCCCGGGGACUCGUUGAAAUAUUGGCGGCAAGUAAAUCGAUUGGUAUACCAAUCAAACGGCAU
-----------------.(((((((((..(.((.((.............)).).).)..)))))))))(((..(....)..)))....((.....((((((....)))))).....)).. ( -30.72, z-score =  -0.87, R)
>consensus
_____________________CAGUUGCCUGGUUCCCGACUCGA____________GAAUCCGAGA_UCGUUGAAAUAUUGGCGGCAAGGAAAUCGAUUGGUAUACCAAUCAAACGGCAU
..........................(((..............................(((.....((((..(....)..))))...)))....((((((....))))))....))).. (-16.54 = -17.15 +   0.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:21:30 2011